Result of FASTA (omim) for pFN21AE2482
FASTA searches a protein or DNA sequence data bank 36.3.4 Apr, 2011
Please cite:
W.R. Pearson & D.J. Lipman PNAS (1988) 85:2444-2448

Query: pF1KE2482, 468 aa
  1>>>pF1KE2482 468 - 468 aa - 468 aa
Library: /omim/omim.rfq.tfa
  60827320 residues in 85289 sequences

Statistics:  Expectation_n fit: rho(ln(x))= 6.7485+/-0.000395; mu= 11.5014+/- 0.025
 mean_var=109.4188+/-22.420, 0's: 0 Z-trim(115.1): 409  B-trim: 19 in 1/49
 Lambda= 0.122611
 statistics sampled from 25005 (25417) to 25005 sequences
Algorithm: FASTA (3.7 Nov 2010) [optimized]
Parameters: BL50 matrix (15:-5), open/ext: -10/-2
 ktup: 2, E-join: 1 (0.664), E-opt: 0.2 (0.298), width:  16
 Scan time:  8.090

The best scores are:                                      opt bits E(85289)
NP_599024 (OMIM: 600825) nuclear receptor ROR-alph ( 468) 3180 573.5 4.4e-163
NP_002934 (OMIM: 600825) nuclear receptor ROR-alph ( 548) 3129 564.5 2.6e-160
XP_016877955 (OMIM: 600825) PREDICTED: nuclear rec ( 460) 3124 563.5 4.2e-160
NP_599022 (OMIM: 600825) nuclear receptor ROR-alph ( 556) 3124 563.6 4.9e-160
XP_011520176 (OMIM: 600825) PREDICTED: nuclear rec ( 525) 3120 562.9 7.6e-160
XP_011520179 (OMIM: 600825) PREDICTED: nuclear rec ( 467) 3119 562.7 7.8e-160
XP_005254641 (OMIM: 600825) PREDICTED: nuclear rec ( 477) 3113 561.6 1.7e-159
XP_011520177 (OMIM: 600825) PREDICTED: nuclear rec ( 504) 3113 561.6 1.7e-159
NP_599023 (OMIM: 600825) nuclear receptor ROR-alph ( 523) 3113 561.6 1.8e-159
XP_016877956 (OMIM: 600825) PREDICTED: nuclear rec ( 386) 2590 469.0 9.8e-132
XP_011520180 (OMIM: 600825) PREDICTED: nuclear rec ( 386) 2590 469.0 9.8e-132
XP_011520181 (OMIM: 600825) PREDICTED: nuclear rec ( 376) 2524 457.4 3.1e-128
NP_008845 (OMIM: 601972) nuclear receptor ROR-beta ( 459) 1971 359.6   1e-98
NP_001001523 (OMIM: 602943,616622) nuclear recepto ( 497)  950 179.0 2.6e-44
NP_005051 (OMIM: 602943,616622) nuclear receptor R ( 518)  950 179.0 2.7e-44
XP_006711547 (OMIM: 602943,616622) PREDICTED: nucl ( 651)  950 179.1 3.2e-44
NP_068370 (OMIM: 602408) nuclear receptor subfamil ( 614)  438 88.5 5.6e-17
XP_006713514 (OMIM: 602304) PREDICTED: nuclear rec ( 448)  428 86.6 1.5e-16
NP_001138897 (OMIM: 602304) nuclear receptor subfa ( 504)  428 86.7 1.6e-16
NP_005117 (OMIM: 602304) nuclear receptor subfamil ( 579)  428 86.7 1.8e-16
XP_005251928 (OMIM: 184757,612964,612965,613957) P ( 461)  419 85.1 4.6e-16
NP_004950 (OMIM: 184757,612964,612965,613957) ster ( 461)  419 85.1 4.6e-16
XP_011516757 (OMIM: 184757,612964,612965,613957) P ( 461)  419 85.1 4.6e-16
NP_001277195 (OMIM: 180220,615524) retinoic acid r ( 399)  417 84.7 5.2e-16
NP_001277206 (OMIM: 180220,615524) retinoic acid r ( 402)  417 84.7 5.2e-16
NP_001277229 (OMIM: 180220,615524) retinoic acid r ( 405)  417 84.7 5.2e-16
NP_000956 (OMIM: 180220,615524) retinoic acid rece ( 448)  417 84.7 5.7e-16
NP_001277145 (OMIM: 180220,615524) retinoic acid r ( 455)  417 84.7 5.8e-16
NP_001230659 (OMIM: 180190) retinoic acid receptor ( 382)  415 84.3 6.4e-16
NP_001036193 (OMIM: 180190) retinoic acid receptor ( 443)  415 84.3 7.2e-16
NP_000957 (OMIM: 180190) retinoic acid receptor ga ( 454)  415 84.3 7.4e-16
XP_011523398 (OMIM: 180240,612376) PREDICTED: reti ( 404)  407 82.9 1.8e-15
NP_001019980 (OMIM: 180240,612376) retinoic acid r ( 457)  407 82.9   2e-15
XP_005257610 (OMIM: 180240,612376) PREDICTED: reti ( 462)  407 82.9   2e-15
NP_000955 (OMIM: 180240,612376) retinoic acid rece ( 462)  407 82.9   2e-15
XP_011523397 (OMIM: 180240,612376) PREDICTED: reti ( 462)  407 82.9   2e-15
NP_001138773 (OMIM: 180240,612376) retinoic acid r ( 462)  407 82.9   2e-15
XP_005257611 (OMIM: 180240,612376) PREDICTED: reti ( 462)  407 82.9   2e-15
XP_005257609 (OMIM: 180240,612376) PREDICTED: reti ( 478)  407 82.9   2e-15
NP_001027458 (OMIM: 601529) nuclear receptor subfa ( 467)  399 81.5 5.4e-15
NP_001120834 (OMIM: 601529) nuclear receptor subfa ( 483)  399 81.5 5.5e-15
NP_001278850 (OMIM: 180245) retinoic acid receptor ( 365)  397 81.1 5.6e-15
XP_011537019 (OMIM: 601529) PREDICTED: nuclear rec ( 507)  399 81.5 5.7e-15
XP_011537018 (OMIM: 601529) PREDICTED: nuclear rec ( 521)  399 81.6 5.9e-15
XP_006719647 (OMIM: 601529) PREDICTED: nuclear rec ( 557)  399 81.6 6.2e-15
NP_001278849 (OMIM: 180245) retinoic acid receptor ( 435)  397 81.2 6.5e-15
XP_005269190 (OMIM: 601529) PREDICTED: nuclear rec ( 598)  399 81.6 6.6e-15
NP_003288 (OMIM: 601529) nuclear receptor subfamil ( 603)  399 81.6 6.6e-15
NP_002948 (OMIM: 180245) retinoic acid receptor RX ( 462)  397 81.2 6.8e-15
XP_011532146 (OMIM: 125853,601487,601665,604367,60 ( 250)  389 79.6 1.1e-14


>>NP_599024 (OMIM: 600825) nuclear receptor ROR-alpha is  (468 aa)
 initn: 3180 init1: 3180 opt: 3180  Z-score: 3048.8  bits: 573.5 E(85289): 4.4e-163
Smith-Waterman score: 3180; 100.0% identity (100.0% similar) in 468 aa overlap (1-468:1-468)

               10        20        30        40        50        60
pF1KE2 MMYFVIAAMKAQIEIIPCKICGDKSSGIHYGVITCEGCKGFFRRSQQSNATYSCPRQKNC
       ::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::
NP_599 MMYFVIAAMKAQIEIIPCKICGDKSSGIHYGVITCEGCKGFFRRSQQSNATYSCPRQKNC
               10        20        30        40        50        60

               70        80        90       100       110       120
pF1KE2 LIDRTSRNRCQHCRLQKCLAVGMSRDAVKFGRMSKKQRDSLYAEVQKHRMQQQQRDHQQQ
       ::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::
NP_599 LIDRTSRNRCQHCRLQKCLAVGMSRDAVKFGRMSKKQRDSLYAEVQKHRMQQQQRDHQQQ
               70        80        90       100       110       120

              130       140       150       160       170       180
pF1KE2 PGEAEPLTPTYNISANGLTELHDDLSNYIDGHTPEGSKADSAVSSFYLDIQPSPDQSGLD
       ::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::
NP_599 PGEAEPLTPTYNISANGLTELHDDLSNYIDGHTPEGSKADSAVSSFYLDIQPSPDQSGLD
              130       140       150       160       170       180

              190       200       210       220       230       240
pF1KE2 INGIKPEPICDYTPASGFFPYCSFTNGETSPTVSMAELEHLAQNISKSHLETCQYLREEL
       ::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::
NP_599 INGIKPEPICDYTPASGFFPYCSFTNGETSPTVSMAELEHLAQNISKSHLETCQYLREEL
              190       200       210       220       230       240

              250       260       270       280       290       300
pF1KE2 QQITWQTFLQEEIENYQNKQREVMWQLCAIKITEAIQYVVEFAKRIDGFMELCQNDQIVL
       ::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::
NP_599 QQITWQTFLQEEIENYQNKQREVMWQLCAIKITEAIQYVVEFAKRIDGFMELCQNDQIVL
              250       260       270       280       290       300

              310       320       330       340       350       360
pF1KE2 LKAGSLEVVFIRMCRAFDSQNNTVYFDGKYASPDVFKSLGCEDFISFVFEFGKSLCSMHL
       ::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::
NP_599 LKAGSLEVVFIRMCRAFDSQNNTVYFDGKYASPDVFKSLGCEDFISFVFEFGKSLCSMHL
              310       320       330       340       350       360

              370       380       390       400       410       420
pF1KE2 TEDEIALFSAFVLMSADRSWLQEKVKIEKLQQKIQLALQHVLQKNHREDGILTKLICKVS
       ::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::
NP_599 TEDEIALFSAFVLMSADRSWLQEKVKIEKLQQKIQLALQHVLQKNHREDGILTKLICKVS
              370       380       390       400       410       420

              430       440       450       460        
pF1KE2 TLRALCGRHTEKLMAFKAIYPDIVRLHFPPLYKELFTSEFEPAMQIDG
       ::::::::::::::::::::::::::::::::::::::::::::::::
NP_599 TLRALCGRHTEKLMAFKAIYPDIVRLHFPPLYKELFTSEFEPAMQIDG
              430       440       450       460        

>>NP_002934 (OMIM: 600825) nuclear receptor ROR-alpha is  (548 aa)
 initn: 3127 init1: 3127 opt: 3129  Z-score: 2999.1  bits: 564.5 E(85289): 2.6e-160
Smith-Waterman score: 3129; 98.9% identity (99.6% similar) in 466 aa overlap (4-468:83-548)

                                           10        20        30  
pF1KE2                            MMYFVIAAM-KAQIEIIPCKICGDKSSGIHYGV
                                     :.. :. :::::::::::::::::::::::
NP_002 LSRLFWSQLEHINWDGATAKNFINLREFFSFLLPALRKAQIEIIPCKICGDKSSGIHYGV
             60        70        80        90       100       110  

             40        50        60        70        80        90  
pF1KE2 ITCEGCKGFFRRSQQSNATYSCPRQKNCLIDRTSRNRCQHCRLQKCLAVGMSRDAVKFGR
       ::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::
NP_002 ITCEGCKGFFRRSQQSNATYSCPRQKNCLIDRTSRNRCQHCRLQKCLAVGMSRDAVKFGR
            120       130       140       150       160       170  

            100       110       120       130       140       150  
pF1KE2 MSKKQRDSLYAEVQKHRMQQQQRDHQQQPGEAEPLTPTYNISANGLTELHDDLSNYIDGH
       ::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::
NP_002 MSKKQRDSLYAEVQKHRMQQQQRDHQQQPGEAEPLTPTYNISANGLTELHDDLSNYIDGH
            180       190       200       210       220       230  

            160       170       180       190       200       210  
pF1KE2 TPEGSKADSAVSSFYLDIQPSPDQSGLDINGIKPEPICDYTPASGFFPYCSFTNGETSPT
       ::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::
NP_002 TPEGSKADSAVSSFYLDIQPSPDQSGLDINGIKPEPICDYTPASGFFPYCSFTNGETSPT
            240       250       260       270       280       290  

            220       230       240       250       260       270  
pF1KE2 VSMAELEHLAQNISKSHLETCQYLREELQQITWQTFLQEEIENYQNKQREVMWQLCAIKI
       ::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::
NP_002 VSMAELEHLAQNISKSHLETCQYLREELQQITWQTFLQEEIENYQNKQREVMWQLCAIKI
            300       310       320       330       340       350  

            280       290       300       310       320       330  
pF1KE2 TEAIQYVVEFAKRIDGFMELCQNDQIVLLKAGSLEVVFIRMCRAFDSQNNTVYFDGKYAS
       ::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::
NP_002 TEAIQYVVEFAKRIDGFMELCQNDQIVLLKAGSLEVVFIRMCRAFDSQNNTVYFDGKYAS
            360       370       380       390       400       410  

            340       350       360       370       380       390  
pF1KE2 PDVFKSLGCEDFISFVFEFGKSLCSMHLTEDEIALFSAFVLMSADRSWLQEKVKIEKLQQ
       ::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::
NP_002 PDVFKSLGCEDFISFVFEFGKSLCSMHLTEDEIALFSAFVLMSADRSWLQEKVKIEKLQQ
            420       430       440       450       460       470  

            400       410       420       430       440       450  
pF1KE2 KIQLALQHVLQKNHREDGILTKLICKVSTLRALCGRHTEKLMAFKAIYPDIVRLHFPPLY
       ::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::
NP_002 KIQLALQHVLQKNHREDGILTKLICKVSTLRALCGRHTEKLMAFKAIYPDIVRLHFPPLY
            480       490       500       510       520       530  

            460        
pF1KE2 KELFTSEFEPAMQIDG
       ::::::::::::::::
NP_002 KELFTSEFEPAMQIDG
            540        

>>XP_016877955 (OMIM: 600825) PREDICTED: nuclear recepto  (460 aa)
 initn: 3124 init1: 3124 opt: 3124  Z-score: 2995.4  bits: 563.5 E(85289): 4.2e-160
Smith-Waterman score: 3124; 99.8% identity (100.0% similar) in 460 aa overlap (9-468:1-460)

               10        20        30        40        50        60
pF1KE2 MMYFVIAAMKAQIEIIPCKICGDKSSGIHYGVITCEGCKGFFRRSQQSNATYSCPRQKNC
               :.::::::::::::::::::::::::::::::::::::::::::::::::::
XP_016         MNAQIEIIPCKICGDKSSGIHYGVITCEGCKGFFRRSQQSNATYSCPRQKNC
                       10        20        30        40        50  

               70        80        90       100       110       120
pF1KE2 LIDRTSRNRCQHCRLQKCLAVGMSRDAVKFGRMSKKQRDSLYAEVQKHRMQQQQRDHQQQ
       ::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::
XP_016 LIDRTSRNRCQHCRLQKCLAVGMSRDAVKFGRMSKKQRDSLYAEVQKHRMQQQQRDHQQQ
             60        70        80        90       100       110  

              130       140       150       160       170       180
pF1KE2 PGEAEPLTPTYNISANGLTELHDDLSNYIDGHTPEGSKADSAVSSFYLDIQPSPDQSGLD
       ::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::
XP_016 PGEAEPLTPTYNISANGLTELHDDLSNYIDGHTPEGSKADSAVSSFYLDIQPSPDQSGLD
            120       130       140       150       160       170  

              190       200       210       220       230       240
pF1KE2 INGIKPEPICDYTPASGFFPYCSFTNGETSPTVSMAELEHLAQNISKSHLETCQYLREEL
       ::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::
XP_016 INGIKPEPICDYTPASGFFPYCSFTNGETSPTVSMAELEHLAQNISKSHLETCQYLREEL
            180       190       200       210       220       230  

              250       260       270       280       290       300
pF1KE2 QQITWQTFLQEEIENYQNKQREVMWQLCAIKITEAIQYVVEFAKRIDGFMELCQNDQIVL
       ::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::
XP_016 QQITWQTFLQEEIENYQNKQREVMWQLCAIKITEAIQYVVEFAKRIDGFMELCQNDQIVL
            240       250       260       270       280       290  

              310       320       330       340       350       360
pF1KE2 LKAGSLEVVFIRMCRAFDSQNNTVYFDGKYASPDVFKSLGCEDFISFVFEFGKSLCSMHL
       ::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::
XP_016 LKAGSLEVVFIRMCRAFDSQNNTVYFDGKYASPDVFKSLGCEDFISFVFEFGKSLCSMHL
            300       310       320       330       340       350  

              370       380       390       400       410       420
pF1KE2 TEDEIALFSAFVLMSADRSWLQEKVKIEKLQQKIQLALQHVLQKNHREDGILTKLICKVS
       ::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::
XP_016 TEDEIALFSAFVLMSADRSWLQEKVKIEKLQQKIQLALQHVLQKNHREDGILTKLICKVS
            360       370       380       390       400       410  

              430       440       450       460        
pF1KE2 TLRALCGRHTEKLMAFKAIYPDIVRLHFPPLYKELFTSEFEPAMQIDG
       ::::::::::::::::::::::::::::::::::::::::::::::::
XP_016 TLRALCGRHTEKLMAFKAIYPDIVRLHFPPLYKELFTSEFEPAMQIDG
            420       430       440       450       460

>>NP_599022 (OMIM: 600825) nuclear receptor ROR-alpha is  (556 aa)
 initn: 3124 init1: 3124 opt: 3124  Z-score: 2994.2  bits: 563.6 E(85289): 4.9e-160
Smith-Waterman score: 3124; 99.8% identity (100.0% similar) in 460 aa overlap (9-468:97-556)

                                     10        20        30        
pF1KE2                       MMYFVIAAMKAQIEIIPCKICGDKSSGIHYGVITCEGC
                                     :.::::::::::::::::::::::::::::
NP_599 FVLTGVCCSWRQNGKPPYSQKEDKEVQTGYMNAQIEIIPCKICGDKSSGIHYGVITCEGC
         70        80        90       100       110       120      

       40        50        60        70        80        90        
pF1KE2 KGFFRRSQQSNATYSCPRQKNCLIDRTSRNRCQHCRLQKCLAVGMSRDAVKFGRMSKKQR
       ::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::
NP_599 KGFFRRSQQSNATYSCPRQKNCLIDRTSRNRCQHCRLQKCLAVGMSRDAVKFGRMSKKQR
        130       140       150       160       170       180      

      100       110       120       130       140       150        
pF1KE2 DSLYAEVQKHRMQQQQRDHQQQPGEAEPLTPTYNISANGLTELHDDLSNYIDGHTPEGSK
       ::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::
NP_599 DSLYAEVQKHRMQQQQRDHQQQPGEAEPLTPTYNISANGLTELHDDLSNYIDGHTPEGSK
        190       200       210       220       230       240      

      160       170       180       190       200       210        
pF1KE2 ADSAVSSFYLDIQPSPDQSGLDINGIKPEPICDYTPASGFFPYCSFTNGETSPTVSMAEL
       ::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::
NP_599 ADSAVSSFYLDIQPSPDQSGLDINGIKPEPICDYTPASGFFPYCSFTNGETSPTVSMAEL
        250       260       270       280       290       300      

      220       230       240       250       260       270        
pF1KE2 EHLAQNISKSHLETCQYLREELQQITWQTFLQEEIENYQNKQREVMWQLCAIKITEAIQY
       ::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::
NP_599 EHLAQNISKSHLETCQYLREELQQITWQTFLQEEIENYQNKQREVMWQLCAIKITEAIQY
        310       320       330       340       350       360      

      280       290       300       310       320       330        
pF1KE2 VVEFAKRIDGFMELCQNDQIVLLKAGSLEVVFIRMCRAFDSQNNTVYFDGKYASPDVFKS
       ::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::
NP_599 VVEFAKRIDGFMELCQNDQIVLLKAGSLEVVFIRMCRAFDSQNNTVYFDGKYASPDVFKS
        370       380       390       400       410       420      

      340       350       360       370       380       390        
pF1KE2 LGCEDFISFVFEFGKSLCSMHLTEDEIALFSAFVLMSADRSWLQEKVKIEKLQQKIQLAL
       ::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::
NP_599 LGCEDFISFVFEFGKSLCSMHLTEDEIALFSAFVLMSADRSWLQEKVKIEKLQQKIQLAL
        430       440       450       460       470       480      

      400       410       420       430       440       450        
pF1KE2 QHVLQKNHREDGILTKLICKVSTLRALCGRHTEKLMAFKAIYPDIVRLHFPPLYKELFTS
       ::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::
NP_599 QHVLQKNHREDGILTKLICKVSTLRALCGRHTEKLMAFKAIYPDIVRLHFPPLYKELFTS
        490       500       510       520       530       540      

      460        
pF1KE2 EFEPAMQIDG
       ::::::::::
NP_599 EFEPAMQIDG
        550      

>>XP_011520176 (OMIM: 600825) PREDICTED: nuclear recepto  (525 aa)
 initn: 3120 init1: 3120 opt: 3120  Z-score: 2990.7  bits: 562.9 E(85289): 7.6e-160
Smith-Waterman score: 3120; 99.6% identity (99.6% similar) in 461 aa overlap (8-468:65-525)

                                      10        20        30       
pF1KE2                        MMYFVIAAMKAQIEIIPCKICGDKSSGIHYGVITCEG
                                     :  :::::::::::::::::::::::::::
XP_011 VGLRASCPTEWGQKVVRGAFRGALRAEKRPAATAQIEIIPCKICGDKSSGIHYGVITCEG
           40        50        60        70        80        90    

        40        50        60        70        80        90       
pF1KE2 CKGFFRRSQQSNATYSCPRQKNCLIDRTSRNRCQHCRLQKCLAVGMSRDAVKFGRMSKKQ
       ::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::
XP_011 CKGFFRRSQQSNATYSCPRQKNCLIDRTSRNRCQHCRLQKCLAVGMSRDAVKFGRMSKKQ
          100       110       120       130       140       150    

       100       110       120       130       140       150       
pF1KE2 RDSLYAEVQKHRMQQQQRDHQQQPGEAEPLTPTYNISANGLTELHDDLSNYIDGHTPEGS
       ::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::
XP_011 RDSLYAEVQKHRMQQQQRDHQQQPGEAEPLTPTYNISANGLTELHDDLSNYIDGHTPEGS
          160       170       180       190       200       210    

       160       170       180       190       200       210       
pF1KE2 KADSAVSSFYLDIQPSPDQSGLDINGIKPEPICDYTPASGFFPYCSFTNGETSPTVSMAE
       ::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::
XP_011 KADSAVSSFYLDIQPSPDQSGLDINGIKPEPICDYTPASGFFPYCSFTNGETSPTVSMAE
          220       230       240       250       260       270    

       220       230       240       250       260       270       
pF1KE2 LEHLAQNISKSHLETCQYLREELQQITWQTFLQEEIENYQNKQREVMWQLCAIKITEAIQ
       ::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::
XP_011 LEHLAQNISKSHLETCQYLREELQQITWQTFLQEEIENYQNKQREVMWQLCAIKITEAIQ
          280       290       300       310       320       330    

       280       290       300       310       320       330       
pF1KE2 YVVEFAKRIDGFMELCQNDQIVLLKAGSLEVVFIRMCRAFDSQNNTVYFDGKYASPDVFK
       ::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::
XP_011 YVVEFAKRIDGFMELCQNDQIVLLKAGSLEVVFIRMCRAFDSQNNTVYFDGKYASPDVFK
          340       350       360       370       380       390    

       340       350       360       370       380       390       
pF1KE2 SLGCEDFISFVFEFGKSLCSMHLTEDEIALFSAFVLMSADRSWLQEKVKIEKLQQKIQLA
       ::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::
XP_011 SLGCEDFISFVFEFGKSLCSMHLTEDEIALFSAFVLMSADRSWLQEKVKIEKLQQKIQLA
          400       410       420       430       440       450    

       400       410       420       430       440       450       
pF1KE2 LQHVLQKNHREDGILTKLICKVSTLRALCGRHTEKLMAFKAIYPDIVRLHFPPLYKELFT
       ::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::
XP_011 LQHVLQKNHREDGILTKLICKVSTLRALCGRHTEKLMAFKAIYPDIVRLHFPPLYKELFT
          460       470       480       490       500       510    

       460        
pF1KE2 SEFEPAMQIDG
       :::::::::::
XP_011 SEFEPAMQIDG
          520     

>>XP_011520179 (OMIM: 600825) PREDICTED: nuclear recepto  (467 aa)
 initn: 3117 init1: 3117 opt: 3119  Z-score: 2990.5  bits: 562.7 E(85289): 7.8e-160
Smith-Waterman score: 3119; 98.5% identity (98.9% similar) in 467 aa overlap (2-468:1-467)

               10        20        30        40        50        60
pF1KE2 MMYFVIAAMKAQIEIIPCKICGDKSSGIHYGVITCEGCKGFFRRSQQSNATYSCPRQKNC
        : :  ..  ::::::::::::::::::::::::::::::::::::::::::::::::::
XP_011  MKFREGTAIAQIEIIPCKICGDKSSGIHYGVITCEGCKGFFRRSQQSNATYSCPRQKNC
                10        20        30        40        50         

               70        80        90       100       110       120
pF1KE2 LIDRTSRNRCQHCRLQKCLAVGMSRDAVKFGRMSKKQRDSLYAEVQKHRMQQQQRDHQQQ
       ::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::
XP_011 LIDRTSRNRCQHCRLQKCLAVGMSRDAVKFGRMSKKQRDSLYAEVQKHRMQQQQRDHQQQ
      60        70        80        90       100       110         

              130       140       150       160       170       180
pF1KE2 PGEAEPLTPTYNISANGLTELHDDLSNYIDGHTPEGSKADSAVSSFYLDIQPSPDQSGLD
       ::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::
XP_011 PGEAEPLTPTYNISANGLTELHDDLSNYIDGHTPEGSKADSAVSSFYLDIQPSPDQSGLD
     120       130       140       150       160       170         

              190       200       210       220       230       240
pF1KE2 INGIKPEPICDYTPASGFFPYCSFTNGETSPTVSMAELEHLAQNISKSHLETCQYLREEL
       ::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::
XP_011 INGIKPEPICDYTPASGFFPYCSFTNGETSPTVSMAELEHLAQNISKSHLETCQYLREEL
     180       190       200       210       220       230         

              250       260       270       280       290       300
pF1KE2 QQITWQTFLQEEIENYQNKQREVMWQLCAIKITEAIQYVVEFAKRIDGFMELCQNDQIVL
       ::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::
XP_011 QQITWQTFLQEEIENYQNKQREVMWQLCAIKITEAIQYVVEFAKRIDGFMELCQNDQIVL
     240       250       260       270       280       290         

              310       320       330       340       350       360
pF1KE2 LKAGSLEVVFIRMCRAFDSQNNTVYFDGKYASPDVFKSLGCEDFISFVFEFGKSLCSMHL
       ::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::
XP_011 LKAGSLEVVFIRMCRAFDSQNNTVYFDGKYASPDVFKSLGCEDFISFVFEFGKSLCSMHL
     300       310       320       330       340       350         

              370       380       390       400       410       420
pF1KE2 TEDEIALFSAFVLMSADRSWLQEKVKIEKLQQKIQLALQHVLQKNHREDGILTKLICKVS
       ::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::
XP_011 TEDEIALFSAFVLMSADRSWLQEKVKIEKLQQKIQLALQHVLQKNHREDGILTKLICKVS
     360       370       380       390       400       410         

              430       440       450       460        
pF1KE2 TLRALCGRHTEKLMAFKAIYPDIVRLHFPPLYKELFTSEFEPAMQIDG
       ::::::::::::::::::::::::::::::::::::::::::::::::
XP_011 TLRALCGRHTEKLMAFKAIYPDIVRLHFPPLYKELFTSEFEPAMQIDG
     420       430       440       450       460       

>>XP_005254641 (OMIM: 600825) PREDICTED: nuclear recepto  (477 aa)
 initn: 3113 init1: 3113 opt: 3113  Z-score: 2984.7  bits: 561.6 E(85289): 1.7e-159
Smith-Waterman score: 3113; 99.8% identity (100.0% similar) in 458 aa overlap (11-468:20-477)

                        10        20        30        40        50 
pF1KE2          MMYFVIAAMKAQIEIIPCKICGDKSSGIHYGVITCEGCKGFFRRSQQSNAT
                          .::::::::::::::::::::::::::::::::::::::::
XP_005 MLTGSQSTFGISVTKKTHTSQIEIIPCKICGDKSSGIHYGVITCEGCKGFFRRSQQSNAT
               10        20        30        40        50        60

              60        70        80        90       100       110 
pF1KE2 YSCPRQKNCLIDRTSRNRCQHCRLQKCLAVGMSRDAVKFGRMSKKQRDSLYAEVQKHRMQ
       ::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::
XP_005 YSCPRQKNCLIDRTSRNRCQHCRLQKCLAVGMSRDAVKFGRMSKKQRDSLYAEVQKHRMQ
               70        80        90       100       110       120

             120       130       140       150       160       170 
pF1KE2 QQQRDHQQQPGEAEPLTPTYNISANGLTELHDDLSNYIDGHTPEGSKADSAVSSFYLDIQ
       ::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::
XP_005 QQQRDHQQQPGEAEPLTPTYNISANGLTELHDDLSNYIDGHTPEGSKADSAVSSFYLDIQ
              130       140       150       160       170       180

             180       190       200       210       220       230 
pF1KE2 PSPDQSGLDINGIKPEPICDYTPASGFFPYCSFTNGETSPTVSMAELEHLAQNISKSHLE
       ::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::
XP_005 PSPDQSGLDINGIKPEPICDYTPASGFFPYCSFTNGETSPTVSMAELEHLAQNISKSHLE
              190       200       210       220       230       240

             240       250       260       270       280       290 
pF1KE2 TCQYLREELQQITWQTFLQEEIENYQNKQREVMWQLCAIKITEAIQYVVEFAKRIDGFME
       ::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::
XP_005 TCQYLREELQQITWQTFLQEEIENYQNKQREVMWQLCAIKITEAIQYVVEFAKRIDGFME
              250       260       270       280       290       300

             300       310       320       330       340       350 
pF1KE2 LCQNDQIVLLKAGSLEVVFIRMCRAFDSQNNTVYFDGKYASPDVFKSLGCEDFISFVFEF
       ::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::
XP_005 LCQNDQIVLLKAGSLEVVFIRMCRAFDSQNNTVYFDGKYASPDVFKSLGCEDFISFVFEF
              310       320       330       340       350       360

             360       370       380       390       400       410 
pF1KE2 GKSLCSMHLTEDEIALFSAFVLMSADRSWLQEKVKIEKLQQKIQLALQHVLQKNHREDGI
       ::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::
XP_005 GKSLCSMHLTEDEIALFSAFVLMSADRSWLQEKVKIEKLQQKIQLALQHVLQKNHREDGI
              370       380       390       400       410       420

             420       430       440       450       460        
pF1KE2 LTKLICKVSTLRALCGRHTEKLMAFKAIYPDIVRLHFPPLYKELFTSEFEPAMQIDG
       :::::::::::::::::::::::::::::::::::::::::::::::::::::::::
XP_005 LTKLICKVSTLRALCGRHTEKLMAFKAIYPDIVRLHFPPLYKELFTSEFEPAMQIDG
              430       440       450       460       470       

>>XP_011520177 (OMIM: 600825) PREDICTED: nuclear recepto  (504 aa)
 initn: 3113 init1: 3113 opt: 3113  Z-score: 2984.3  bits: 561.6 E(85289): 1.7e-159
Smith-Waterman score: 3113; 99.8% identity (100.0% similar) in 458 aa overlap (11-468:47-504)

                                   10        20        30        40
pF1KE2                     MMYFVIAAMKAQIEIIPCKICGDKSSGIHYGVITCEGCKG
                                     .:::::::::::::::::::::::::::::
XP_011 TEAIRTTHAVLLKKPPGWKSGISVTKKTHTSQIEIIPCKICGDKSSGIHYGVITCEGCKG
         20        30        40        50        60        70      

               50        60        70        80        90       100
pF1KE2 FFRRSQQSNATYSCPRQKNCLIDRTSRNRCQHCRLQKCLAVGMSRDAVKFGRMSKKQRDS
       ::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::
XP_011 FFRRSQQSNATYSCPRQKNCLIDRTSRNRCQHCRLQKCLAVGMSRDAVKFGRMSKKQRDS
         80        90       100       110       120       130      

              110       120       130       140       150       160
pF1KE2 LYAEVQKHRMQQQQRDHQQQPGEAEPLTPTYNISANGLTELHDDLSNYIDGHTPEGSKAD
       ::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::
XP_011 LYAEVQKHRMQQQQRDHQQQPGEAEPLTPTYNISANGLTELHDDLSNYIDGHTPEGSKAD
        140       150       160       170       180       190      

              170       180       190       200       210       220
pF1KE2 SAVSSFYLDIQPSPDQSGLDINGIKPEPICDYTPASGFFPYCSFTNGETSPTVSMAELEH
       ::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::
XP_011 SAVSSFYLDIQPSPDQSGLDINGIKPEPICDYTPASGFFPYCSFTNGETSPTVSMAELEH
        200       210       220       230       240       250      

              230       240       250       260       270       280
pF1KE2 LAQNISKSHLETCQYLREELQQITWQTFLQEEIENYQNKQREVMWQLCAIKITEAIQYVV
       ::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::
XP_011 LAQNISKSHLETCQYLREELQQITWQTFLQEEIENYQNKQREVMWQLCAIKITEAIQYVV
        260       270       280       290       300       310      

              290       300       310       320       330       340
pF1KE2 EFAKRIDGFMELCQNDQIVLLKAGSLEVVFIRMCRAFDSQNNTVYFDGKYASPDVFKSLG
       ::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::
XP_011 EFAKRIDGFMELCQNDQIVLLKAGSLEVVFIRMCRAFDSQNNTVYFDGKYASPDVFKSLG
        320       330       340       350       360       370      

              350       360       370       380       390       400
pF1KE2 CEDFISFVFEFGKSLCSMHLTEDEIALFSAFVLMSADRSWLQEKVKIEKLQQKIQLALQH
       ::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::
XP_011 CEDFISFVFEFGKSLCSMHLTEDEIALFSAFVLMSADRSWLQEKVKIEKLQQKIQLALQH
        380       390       400       410       420       430      

              410       420       430       440       450       460
pF1KE2 VLQKNHREDGILTKLICKVSTLRALCGRHTEKLMAFKAIYPDIVRLHFPPLYKELFTSEF
       ::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::
XP_011 VLQKNHREDGILTKLICKVSTLRALCGRHTEKLMAFKAIYPDIVRLHFPPLYKELFTSEF
        440       450       460       470       480       490      

               
pF1KE2 EPAMQIDG
       ::::::::
XP_011 EPAMQIDG
        500    

>>NP_599023 (OMIM: 600825) nuclear receptor ROR-alpha is  (523 aa)
 initn: 3113 init1: 3113 opt: 3113  Z-score: 2984.1  bits: 561.6 E(85289): 1.8e-159
Smith-Waterman score: 3113; 99.8% identity (100.0% similar) in 458 aa overlap (11-468:66-523)

                                   10        20        30        40
pF1KE2                     MMYFVIAAMKAQIEIIPCKICGDKSSGIHYGVITCEGCKG
                                     .:::::::::::::::::::::::::::::
NP_599 ARKSEPPAPVRRQSYSSTSRGISVTKKTHTSQIEIIPCKICGDKSSGIHYGVITCEGCKG
          40        50        60        70        80        90     

               50        60        70        80        90       100
pF1KE2 FFRRSQQSNATYSCPRQKNCLIDRTSRNRCQHCRLQKCLAVGMSRDAVKFGRMSKKQRDS
       ::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::
NP_599 FFRRSQQSNATYSCPRQKNCLIDRTSRNRCQHCRLQKCLAVGMSRDAVKFGRMSKKQRDS
         100       110       120       130       140       150     

              110       120       130       140       150       160
pF1KE2 LYAEVQKHRMQQQQRDHQQQPGEAEPLTPTYNISANGLTELHDDLSNYIDGHTPEGSKAD
       ::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::
NP_599 LYAEVQKHRMQQQQRDHQQQPGEAEPLTPTYNISANGLTELHDDLSNYIDGHTPEGSKAD
         160       170       180       190       200       210     

              170       180       190       200       210       220
pF1KE2 SAVSSFYLDIQPSPDQSGLDINGIKPEPICDYTPASGFFPYCSFTNGETSPTVSMAELEH
       ::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::
NP_599 SAVSSFYLDIQPSPDQSGLDINGIKPEPICDYTPASGFFPYCSFTNGETSPTVSMAELEH
         220       230       240       250       260       270     

              230       240       250       260       270       280
pF1KE2 LAQNISKSHLETCQYLREELQQITWQTFLQEEIENYQNKQREVMWQLCAIKITEAIQYVV
       ::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::
NP_599 LAQNISKSHLETCQYLREELQQITWQTFLQEEIENYQNKQREVMWQLCAIKITEAIQYVV
         280       290       300       310       320       330     

              290       300       310       320       330       340
pF1KE2 EFAKRIDGFMELCQNDQIVLLKAGSLEVVFIRMCRAFDSQNNTVYFDGKYASPDVFKSLG
       ::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::
NP_599 EFAKRIDGFMELCQNDQIVLLKAGSLEVVFIRMCRAFDSQNNTVYFDGKYASPDVFKSLG
         340       350       360       370       380       390     

              350       360       370       380       390       400
pF1KE2 CEDFISFVFEFGKSLCSMHLTEDEIALFSAFVLMSADRSWLQEKVKIEKLQQKIQLALQH
       ::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::
NP_599 CEDFISFVFEFGKSLCSMHLTEDEIALFSAFVLMSADRSWLQEKVKIEKLQQKIQLALQH
         400       410       420       430       440       450     

              410       420       430       440       450       460
pF1KE2 VLQKNHREDGILTKLICKVSTLRALCGRHTEKLMAFKAIYPDIVRLHFPPLYKELFTSEF
       ::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::
NP_599 VLQKNHREDGILTKLICKVSTLRALCGRHTEKLMAFKAIYPDIVRLHFPPLYKELFTSEF
         460       470       480       490       500       510     

               
pF1KE2 EPAMQIDG
       ::::::::
NP_599 EPAMQIDG
         520   

>>XP_016877956 (OMIM: 600825) PREDICTED: nuclear recepto  (386 aa)
 initn: 2590 init1: 2590 opt: 2590  Z-score: 2486.0  bits: 469.0 E(85289): 9.8e-132
Smith-Waterman score: 2590; 100.0% identity (100.0% similar) in 386 aa overlap (83-468:1-386)

             60        70        80        90       100       110  
pF1KE2 SCPRQKNCLIDRTSRNRCQHCRLQKCLAVGMSRDAVKFGRMSKKQRDSLYAEVQKHRMQQ
                                     ::::::::::::::::::::::::::::::
XP_016                               MSRDAVKFGRMSKKQRDSLYAEVQKHRMQQ
                                             10        20        30

            120       130       140       150       160       170  
pF1KE2 QQRDHQQQPGEAEPLTPTYNISANGLTELHDDLSNYIDGHTPEGSKADSAVSSFYLDIQP
       ::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::
XP_016 QQRDHQQQPGEAEPLTPTYNISANGLTELHDDLSNYIDGHTPEGSKADSAVSSFYLDIQP
               40        50        60        70        80        90

            180       190       200       210       220       230  
pF1KE2 SPDQSGLDINGIKPEPICDYTPASGFFPYCSFTNGETSPTVSMAELEHLAQNISKSHLET
       ::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::
XP_016 SPDQSGLDINGIKPEPICDYTPASGFFPYCSFTNGETSPTVSMAELEHLAQNISKSHLET
              100       110       120       130       140       150

            240       250       260       270       280       290  
pF1KE2 CQYLREELQQITWQTFLQEEIENYQNKQREVMWQLCAIKITEAIQYVVEFAKRIDGFMEL
       ::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::
XP_016 CQYLREELQQITWQTFLQEEIENYQNKQREVMWQLCAIKITEAIQYVVEFAKRIDGFMEL
              160       170       180       190       200       210

            300       310       320       330       340       350  
pF1KE2 CQNDQIVLLKAGSLEVVFIRMCRAFDSQNNTVYFDGKYASPDVFKSLGCEDFISFVFEFG
       ::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::
XP_016 CQNDQIVLLKAGSLEVVFIRMCRAFDSQNNTVYFDGKYASPDVFKSLGCEDFISFVFEFG
              220       230       240       250       260       270

            360       370       380       390       400       410  
pF1KE2 KSLCSMHLTEDEIALFSAFVLMSADRSWLQEKVKIEKLQQKIQLALQHVLQKNHREDGIL
       ::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::
XP_016 KSLCSMHLTEDEIALFSAFVLMSADRSWLQEKVKIEKLQQKIQLALQHVLQKNHREDGIL
              280       290       300       310       320       330

            420       430       440       450       460        
pF1KE2 TKLICKVSTLRALCGRHTEKLMAFKAIYPDIVRLHFPPLYKELFTSEFEPAMQIDG
       ::::::::::::::::::::::::::::::::::::::::::::::::::::::::
XP_016 TKLICKVSTLRALCGRHTEKLMAFKAIYPDIVRLHFPPLYKELFTSEFEPAMQIDG
              340       350       360       370       380      




468 residues in 1 query   sequences
60827320 residues in 85289 library sequences
 Tcomplib [36.3.4 Apr, 2011] (8 proc)
 start: Mon Nov  7 20:45:25 2016 done: Mon Nov  7 20:45:26 2016
 Total Scan time:  8.090 Total Display time:  0.060

Function used was FASTA [36.3.4 Apr, 2011]
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