Result of FASTA (omim) for pF1KB5869
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: pF1KB5869, 463 aa
  1>>>pF1KB5869 463 - 463 aa - 463 aa
Library: /omim/omim.rfq.tfa
  60827320 residues in 85289 sequences

Statistics:  Expectation_n fit: rho(ln(x))= 8.7620+/-0.000369; mu= 2.4984+/- 0.023
 mean_var=188.7011+/-38.802, 0's: 0 Z-trim(119.1): 402  B-trim: 421 in 1/57
 Lambda= 0.093366
 statistics sampled from 32358 (32773) to 32358 sequences
Algorithm: FASTA (3.7 Nov 2010) [optimized]
Parameters: BL50 matrix (15:-5), open/ext: -10/-2
 ktup: 2, E-join: 1 (0.727), E-opt: 0.2 (0.384), width:  16
 Scan time: 10.380

The best scores are:                                      opt bits E(85289)
NP_008848 (OMIM: 180247) retinoic acid receptor RX ( 463) 3107 430.8 3.7e-120
NP_001243499 (OMIM: 180247) retinoic acid receptor ( 340) 2280 319.4 9.7e-87
NP_001243500 (OMIM: 180247) retinoic acid receptor ( 340) 2280 319.4 9.7e-87
NP_002948 (OMIM: 180245) retinoic acid receptor RX ( 462) 2162 303.6 7.6e-82
NP_001278849 (OMIM: 180245) retinoic acid receptor ( 435) 2151 302.1   2e-81
NP_001278850 (OMIM: 180245) retinoic acid receptor ( 365) 2044 287.6 3.8e-77
NP_068811 (OMIM: 180246) retinoic acid receptor RX ( 533) 1942 274.0 7.1e-73
NP_001257330 (OMIM: 180246) retinoic acid receptor ( 537) 1785 252.8 1.7e-66
XP_016866665 (OMIM: 180246) PREDICTED: retinoic ac ( 414) 1761 249.5 1.3e-65
XP_005249335 (OMIM: 180246) PREDICTED: retinoic ac ( 441) 1745 247.4 5.9e-65
XP_011513098 (OMIM: 180246) PREDICTED: retinoic ac ( 420) 1736 246.2 1.3e-64
NP_001278918 (OMIM: 180246) retinoic acid receptor ( 347) 1721 244.1 4.6e-64
NP_066285 (OMIM: 107773,615779) COUP transcription ( 414)  976 143.8 8.6e-34
NP_005645 (OMIM: 132890,615722) COUP transcription ( 423)  976 143.8 8.7e-34
NP_001245284 (OMIM: 125850,125853,600281,616026) h ( 467)  906 134.4 6.5e-31
XP_005260464 (OMIM: 125850,125853,600281,616026) P ( 513)  906 134.4   7e-31
NP_849181 (OMIM: 125850,125853,600281,616026) hepa ( 417)  903 133.9 7.8e-31
NP_849180 (OMIM: 125850,125853,600281,616026) hepa ( 464)  903 134.0 8.6e-31
NP_000448 (OMIM: 125850,125853,600281,616026) hepa ( 474)  903 134.0 8.7e-31
NP_004124 (OMIM: 605966) hepatocyte nuclear factor ( 445)  902 133.8 9.1e-31
NP_001274113 (OMIM: 125850,125853,600281,616026) h ( 392)  898 133.3 1.2e-30
NP_001025175 (OMIM: 125850,125853,600281,616026) h ( 395)  898 133.3 1.2e-30
NP_001274111 (OMIM: 125850,125853,600281,616026) h ( 439)  898 133.3 1.3e-30
NP_001025174 (OMIM: 125850,125853,600281,616026) h ( 442)  898 133.3 1.3e-30
NP_001274112 (OMIM: 125850,125853,600281,616026) h ( 449)  898 133.3 1.3e-30
NP_787110 (OMIM: 125850,125853,600281,616026) hepa ( 452)  898 133.3 1.3e-30
NP_001317490 (OMIM: 605966) hepatocyte nuclear fac ( 408)  897 133.1 1.3e-30
XP_016868864 (OMIM: 605966) PREDICTED: hepatocyte  ( 408)  897 133.1 1.3e-30
XP_016868863 (OMIM: 605966) PREDICTED: hepatocyte  ( 408)  897 133.1 1.3e-30
XP_016868865 (OMIM: 605966) PREDICTED: hepatocyte  ( 408)  897 133.1 1.3e-30
XP_016868862 (OMIM: 605966) PREDICTED: hepatocyte  ( 408)  897 133.1 1.3e-30
XP_016865286 (OMIM: 132890,615722) PREDICTED: COUP ( 273)  574 89.5 1.2e-17
NP_001138629 (OMIM: 107773,615779) COUP transcript ( 261)  571 89.1 1.5e-17
NP_001138628 (OMIM: 107773,615779) COUP transcript ( 261)  571 89.1 1.5e-17
NP_001138627 (OMIM: 107773,615779) COUP transcript ( 281)  571 89.1 1.6e-17
XP_006719427 (OMIM: 139139) PREDICTED: nuclear rec ( 598)  524 83.0 2.5e-15
XP_006719426 (OMIM: 139139) PREDICTED: nuclear rec ( 598)  524 83.0 2.5e-15
XP_005268881 (OMIM: 139139) PREDICTED: nuclear rec ( 598)  524 83.0 2.5e-15
NP_002126 (OMIM: 139139) nuclear receptor subfamil ( 598)  524 83.0 2.5e-15
NP_775180 (OMIM: 139139) nuclear receptor subfamil ( 598)  524 83.0 2.5e-15
XP_016874736 (OMIM: 139139) PREDICTED: nuclear rec ( 602)  524 83.0 2.5e-15
NP_001189162 (OMIM: 139139) nuclear receptor subfa ( 611)  524 83.0 2.5e-15
NP_001189163 (OMIM: 139139) nuclear receptor subfa ( 652)  524 83.0 2.6e-15
XP_005268879 (OMIM: 139139) PREDICTED: nuclear rec ( 670)  524 83.0 2.7e-15
XP_011532365 (OMIM: 601426) PREDICTED: nuclear rec ( 629)  496 79.2 3.5e-14
XP_016862609 (OMIM: 601426) PREDICTED: nuclear rec ( 596)  486 77.9 8.5e-14
NP_001278623 (OMIM: 601426) nuclear receptor subfa ( 596)  486 77.9 8.5e-14
NP_003289 (OMIM: 601426) nuclear receptor subfamil ( 615)  486 77.9 8.7e-14
XP_011532368 (OMIM: 601426) PREDICTED: nuclear rec ( 615)  486 77.9 8.7e-14
XP_011532367 (OMIM: 601426) PREDICTED: nuclear rec ( 615)  486 77.9 8.7e-14


>>NP_008848 (OMIM: 180247) retinoic acid receptor RXR-ga  (463 aa)
 initn: 3107 init1: 3107 opt: 3107  Z-score: 2278.3  bits: 430.8 E(85289): 3.7e-120
Smith-Waterman score: 3107; 100.0% identity (100.0% similar) in 463 aa overlap (1-463:1-463)

               10        20        30        40        50        60
pF1KB5 MYGNYSHFMKFPAGYGGSPGHTGSTSMSPSAALSTGKPMDSHPSYTDTPVSAPRTLSAVG
       ::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::
NP_008 MYGNYSHFMKFPAGYGGSPGHTGSTSMSPSAALSTGKPMDSHPSYTDTPVSAPRTLSAVG
               10        20        30        40        50        60

               70        80        90       100       110       120
pF1KB5 TPLNALGSPYRVITSAMGPPSGALAAPPGINLVAPPSSQLNVVNSVSSSEDIKPLPGLPG
       ::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::
NP_008 TPLNALGSPYRVITSAMGPPSGALAAPPGINLVAPPSSQLNVVNSVSSSEDIKPLPGLPG
               70        80        90       100       110       120

              130       140       150       160       170       180
pF1KB5 IGNMNYPSTSPGSLVKHICAICGDRSSGKHYGVYSCEGCKGFFKRTIRKDLIYTCRDNKD
       ::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::
NP_008 IGNMNYPSTSPGSLVKHICAICGDRSSGKHYGVYSCEGCKGFFKRTIRKDLIYTCRDNKD
              130       140       150       160       170       180

              190       200       210       220       230       240
pF1KB5 CLIDKRQRNRCQYCRYQKCLVMGMKREAVQEERQRSRERAESEAECATSGHEDMPVERIL
       ::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::
NP_008 CLIDKRQRNRCQYCRYQKCLVMGMKREAVQEERQRSRERAESEAECATSGHEDMPVERIL
              190       200       210       220       230       240

              250       260       270       280       290       300
pF1KB5 EAELAVEPKTESYGDMNMENSTNDPVTNICHAADKQLFTLVEWAKRIPHFSDLTLEDQVI
       ::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::
NP_008 EAELAVEPKTESYGDMNMENSTNDPVTNICHAADKQLFTLVEWAKRIPHFSDLTLEDQVI
              250       260       270       280       290       300

              310       320       330       340       350       360
pF1KB5 LLRAGWNELLIASFSHRSVSVQDGILLATGLHVHRSSAHSAGVGSIFDRVLTELVSKMKD
       ::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::
NP_008 LLRAGWNELLIASFSHRSVSVQDGILLATGLHVHRSSAHSAGVGSIFDRVLTELVSKMKD
              310       320       330       340       350       360

              370       380       390       400       410       420
pF1KB5 MQMDKSELGCLRAIVLFNPDAKGLSNPSEVETLREKVYATLEAYTKQKYPEQPGRFAKLL
       ::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::
NP_008 MQMDKSELGCLRAIVLFNPDAKGLSNPSEVETLREKVYATLEAYTKQKYPEQPGRFAKLL
              370       380       390       400       410       420

              430       440       450       460   
pF1KB5 LRLPALRSIGLKCLEHLFFFKLIGDTPIDTFLMEMLETPLQIT
       :::::::::::::::::::::::::::::::::::::::::::
NP_008 LRLPALRSIGLKCLEHLFFFKLIGDTPIDTFLMEMLETPLQIT
              430       440       450       460   

>>NP_001243499 (OMIM: 180247) retinoic acid receptor RXR  (340 aa)
 initn: 2280 init1: 2280 opt: 2280  Z-score: 1678.2  bits: 319.4 E(85289): 9.7e-87
Smith-Waterman score: 2280; 100.0% identity (100.0% similar) in 340 aa overlap (124-463:1-340)

           100       110       120       130       140       150   
pF1KB5 APPSSQLNVVNSVSSSEDIKPLPGLPGIGNMNYPSTSPGSLVKHICAICGDRSSGKHYGV
                                     ::::::::::::::::::::::::::::::
NP_001                               MNYPSTSPGSLVKHICAICGDRSSGKHYGV
                                             10        20        30

           160       170       180       190       200       210   
pF1KB5 YSCEGCKGFFKRTIRKDLIYTCRDNKDCLIDKRQRNRCQYCRYQKCLVMGMKREAVQEER
       ::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::
NP_001 YSCEGCKGFFKRTIRKDLIYTCRDNKDCLIDKRQRNRCQYCRYQKCLVMGMKREAVQEER
               40        50        60        70        80        90

           220       230       240       250       260       270   
pF1KB5 QRSRERAESEAECATSGHEDMPVERILEAELAVEPKTESYGDMNMENSTNDPVTNICHAA
       ::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::
NP_001 QRSRERAESEAECATSGHEDMPVERILEAELAVEPKTESYGDMNMENSTNDPVTNICHAA
              100       110       120       130       140       150

           280       290       300       310       320       330   
pF1KB5 DKQLFTLVEWAKRIPHFSDLTLEDQVILLRAGWNELLIASFSHRSVSVQDGILLATGLHV
       ::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::
NP_001 DKQLFTLVEWAKRIPHFSDLTLEDQVILLRAGWNELLIASFSHRSVSVQDGILLATGLHV
              160       170       180       190       200       210

           340       350       360       370       380       390   
pF1KB5 HRSSAHSAGVGSIFDRVLTELVSKMKDMQMDKSELGCLRAIVLFNPDAKGLSNPSEVETL
       ::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::
NP_001 HRSSAHSAGVGSIFDRVLTELVSKMKDMQMDKSELGCLRAIVLFNPDAKGLSNPSEVETL
              220       230       240       250       260       270

           400       410       420       430       440       450   
pF1KB5 REKVYATLEAYTKQKYPEQPGRFAKLLLRLPALRSIGLKCLEHLFFFKLIGDTPIDTFLM
       ::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::
NP_001 REKVYATLEAYTKQKYPEQPGRFAKLLLRLPALRSIGLKCLEHLFFFKLIGDTPIDTFLM
              280       290       300       310       320       330

           460   
pF1KB5 EMLETPLQIT
       ::::::::::
NP_001 EMLETPLQIT
              340

>>NP_001243500 (OMIM: 180247) retinoic acid receptor RXR  (340 aa)
 initn: 2280 init1: 2280 opt: 2280  Z-score: 1678.2  bits: 319.4 E(85289): 9.7e-87
Smith-Waterman score: 2280; 100.0% identity (100.0% similar) in 340 aa overlap (124-463:1-340)

           100       110       120       130       140       150   
pF1KB5 APPSSQLNVVNSVSSSEDIKPLPGLPGIGNMNYPSTSPGSLVKHICAICGDRSSGKHYGV
                                     ::::::::::::::::::::::::::::::
NP_001                               MNYPSTSPGSLVKHICAICGDRSSGKHYGV
                                             10        20        30

           160       170       180       190       200       210   
pF1KB5 YSCEGCKGFFKRTIRKDLIYTCRDNKDCLIDKRQRNRCQYCRYQKCLVMGMKREAVQEER
       ::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::
NP_001 YSCEGCKGFFKRTIRKDLIYTCRDNKDCLIDKRQRNRCQYCRYQKCLVMGMKREAVQEER
               40        50        60        70        80        90

           220       230       240       250       260       270   
pF1KB5 QRSRERAESEAECATSGHEDMPVERILEAELAVEPKTESYGDMNMENSTNDPVTNICHAA
       ::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::
NP_001 QRSRERAESEAECATSGHEDMPVERILEAELAVEPKTESYGDMNMENSTNDPVTNICHAA
              100       110       120       130       140       150

           280       290       300       310       320       330   
pF1KB5 DKQLFTLVEWAKRIPHFSDLTLEDQVILLRAGWNELLIASFSHRSVSVQDGILLATGLHV
       ::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::
NP_001 DKQLFTLVEWAKRIPHFSDLTLEDQVILLRAGWNELLIASFSHRSVSVQDGILLATGLHV
              160       170       180       190       200       210

           340       350       360       370       380       390   
pF1KB5 HRSSAHSAGVGSIFDRVLTELVSKMKDMQMDKSELGCLRAIVLFNPDAKGLSNPSEVETL
       ::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::
NP_001 HRSSAHSAGVGSIFDRVLTELVSKMKDMQMDKSELGCLRAIVLFNPDAKGLSNPSEVETL
              220       230       240       250       260       270

           400       410       420       430       440       450   
pF1KB5 REKVYATLEAYTKQKYPEQPGRFAKLLLRLPALRSIGLKCLEHLFFFKLIGDTPIDTFLM
       ::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::
NP_001 REKVYATLEAYTKQKYPEQPGRFAKLLLRLPALRSIGLKCLEHLFFFKLIGDTPIDTFLM
              280       290       300       310       320       330

           460   
pF1KB5 EMLETPLQIT
       ::::::::::
NP_001 EMLETPLQIT
              340

>>NP_002948 (OMIM: 180245) retinoic acid receptor RXR-al  (462 aa)
 initn: 2139 init1: 1217 opt: 2162  Z-score: 1590.4  bits: 303.6 E(85289): 7.6e-82
Smith-Waterman score: 2162; 74.1% identity (87.2% similar) in 452 aa overlap (18-463:21-462)

                  10        20         30        40        50      
pF1KB5    MYGNYSHFMKFPAGYGGSPGHTGSTSMS-PSAALSTGKPMDSHPSYTDTPVSAPRTL
                           ::  ::  ::. ::   : :  . : :.   .:.:   ::
NP_002 MDTKHFLPLDFSTQVNSSLTSP--TGRGSMAAPSLHPSLGPGIGS-PGQLHSPIS---TL
               10        20          30        40         50       

         60        70        80        90       100        110     
pF1KB5 SAVGTPLNALGSPYRVITSAMGPPSGALAAPPGINLVAPPSSQLNV-VNSVSSSEDIKPL
       :   .:.:..: :. ::.: ::: : .. . : ... .  : ::.  .: ::::::::: 
NP_002 S---SPINGMGPPFSVISSPMGPHSMSVPTTPTLGF-STGSPQLSSPMNPVSSSEDIKPP
              60        70        80         90       100       110

         120        130       140       150       160       170    
pF1KB5 PGLPGIGNM-NYPSTSPGSLVKHICAICGDRSSGKHYGVYSCEGCKGFFKRTIRKDLIYT
        :: :. ..  .:: . .:..:::::::::::::::::::::::::::::::.:::: ::
NP_002 LGLNGVLKVPAHPSGNMASFTKHICAICGDRSSGKHYGVYSCEGCKGFFKRTVRKDLTYT
              120       130       140       150       160       170

          180       190       200       210       220       230    
pF1KB5 CRDNKDCLIDKRQRNRCQYCRYQKCLVMGMKREAVQEERQRSRERAESEAECATSGHEDM
       ::::::::::::::::::::::::::.::::::::::::::...: :.:.: ..:..:::
NP_002 CRDNKDCLIDKRQRNRCQYCRYQKCLAMGMKREAVQEERQRGKDRNENEVESTSSANEDM
              180       190       200       210       220       230

          240       250          260       270       280       290 
pF1KB5 PVERILEAELAVEPKTESYGDMNM---ENSTNDPVTNICHAADKQLFTLVEWAKRIPHFS
       :::::::::::::::::.: . ::    .: ::::::::.::::::::::::::::::::
NP_002 PVERILEAELAVEPKTETYVEANMGLNPSSPNDPVTNICQAADKQLFTLVEWAKRIPHFS
              240       250       260       270       280       290

             300       310       320       330       340       350 
pF1KB5 DLTLEDQVILLRAGWNELLIASFSHRSVSVQDGILLATGLHVHRSSAHSAGVGSIFDRVL
       .: :.::::::::::::::::::::::..:.:::::::::::::.::::::::.::::::
NP_002 ELPLDDQVILLRAGWNELLIASFSHRSIAVKDGILLATGLHVHRNSAHSAGVGAIFDRVL
              300       310       320       330       340       350

             360       370       380       390       400       410 
pF1KB5 TELVSKMKDMQMDKSELGCLRAIVLFNPDAKGLSNPSEVETLREKVYATLEAYTKQKYPE
       :::::::.::::::.::::::::::::::.::::::.:::.:::::::.:::: :.::::
NP_002 TELVSKMRDMQMDKTELGCLRAIVLFNPDSKGLSNPAEVEALREKVYASLEAYCKHKYPE
              360       370       380       390       400       410

             420       430       440       450       460   
pF1KB5 QPGRFAKLLLRLPALRSIGLKCLEHLFFFKLIGDTPIDTFLMEMLETPLQIT
       ::::::::::::::::::::::::::::::::::::::::::::::.: :.:
NP_002 QPGRFAKLLLRLPALRSIGLKCLEHLFFFKLIGDTPIDTFLMEMLEAPHQMT
              420       430       440       450       460  

>>NP_001278849 (OMIM: 180245) retinoic acid receptor RXR  (435 aa)
 initn: 2139 init1: 1217 opt: 2151  Z-score: 1582.7  bits: 302.1 E(85289): 2e-81
Smith-Waterman score: 2151; 74.6% identity (88.0% similar) in 441 aa overlap (28-463:3-435)

               10        20        30        40        50        60
pF1KB5 MYGNYSHFMKFPAGYGGSPGHTGSTSMSPSAALSTGKPMDSHPSYTDTPVSAPRTLSAVG
                                  .::   : :  . : :.   .:.:   :::   
NP_001                          MAAPSLHPSLGPGIGS-PGQLHSPIS---TLS---
                                        10         20              

               70        80        90       100        110         
pF1KB5 TPLNALGSPYRVITSAMGPPSGALAAPPGINLVAPPSSQLNV-VNSVSSSEDIKPLPGLP
       .:.:..: :. ::.: ::: : .. . : ... .  : ::.  .: :::::::::  :: 
NP_001 SPINGMGPPFSVISSPMGPHSMSVPTTPTLGF-STGSPQLSSPMNPVSSSEDIKPPLGLN
       30        40        50        60         70        80       

     120        130       140       150       160       170        
pF1KB5 GIGNM-NYPSTSPGSLVKHICAICGDRSSGKHYGVYSCEGCKGFFKRTIRKDLIYTCRDN
       :. ..  .:: . .:..:::::::::::::::::::::::::::::::.:::: ::::::
NP_001 GVLKVPAHPSGNMASFTKHICAICGDRSSGKHYGVYSCEGCKGFFKRTVRKDLTYTCRDN
        90       100       110       120       130       140       

      180       190       200       210       220       230        
pF1KB5 KDCLIDKRQRNRCQYCRYQKCLVMGMKREAVQEERQRSRERAESEAECATSGHEDMPVER
       ::::::::::::::::::::::.::::::::::::::...: :.:.: ..:..:::::::
NP_001 KDCLIDKRQRNRCQYCRYQKCLAMGMKREAVQEERQRGKDRNENEVESTSSANEDMPVER
       150       160       170       180       190       200       

      240       250          260       270       280       290     
pF1KB5 ILEAELAVEPKTESYGDMNM---ENSTNDPVTNICHAADKQLFTLVEWAKRIPHFSDLTL
       :::::::::::::.: . ::    .: ::::::::.::::::::::::::::::::.: :
NP_001 ILEAELAVEPKTETYVEANMGLNPSSPNDPVTNICQAADKQLFTLVEWAKRIPHFSELPL
       210       220       230       240       250       260       

         300       310       320       330       340       350     
pF1KB5 EDQVILLRAGWNELLIASFSHRSVSVQDGILLATGLHVHRSSAHSAGVGSIFDRVLTELV
       .::::::::::::::::::::::..:.:::::::::::::.::::::::.::::::::::
NP_001 DDQVILLRAGWNELLIASFSHRSIAVKDGILLATGLHVHRNSAHSAGVGAIFDRVLTELV
       270       280       290       300       310       320       

         360       370       380       390       400       410     
pF1KB5 SKMKDMQMDKSELGCLRAIVLFNPDAKGLSNPSEVETLREKVYATLEAYTKQKYPEQPGR
       :::.::::::.::::::::::::::.::::::.:::.:::::::.:::: :.::::::::
NP_001 SKMRDMQMDKTELGCLRAIVLFNPDSKGLSNPAEVEALREKVYASLEAYCKHKYPEQPGR
       330       340       350       360       370       380       

         420       430       440       450       460   
pF1KB5 FAKLLLRLPALRSIGLKCLEHLFFFKLIGDTPIDTFLMEMLETPLQIT
       ::::::::::::::::::::::::::::::::::::::::::.: :.:
NP_001 FAKLLLRLPALRSIGLKCLEHLFFFKLIGDTPIDTFLMEMLEAPHQMT
       390       400       410       420       430     

>>NP_001278850 (OMIM: 180245) retinoic acid receptor RXR  (365 aa)
 initn: 2048 init1: 1217 opt: 2044  Z-score: 1506.0  bits: 287.6 E(85289): 3.8e-77
Smith-Waterman score: 2044; 83.0% identity (94.0% similar) in 365 aa overlap (103-463:1-365)

             80        90       100       110       120        130 
pF1KB5 ITSAMGPPSGALAAPPGINLVAPPSSQLNVVNSVSSSEDIKPLPGLPGIGNM-NYPSTSP
                                     .: :::::::::  :: :. ..  .:: . 
NP_001                               MNPVSSSEDIKPPLGLNGVLKVPAHPSGNM
                                             10        20        30

             140       150       160       170       180       190 
pF1KB5 GSLVKHICAICGDRSSGKHYGVYSCEGCKGFFKRTIRKDLIYTCRDNKDCLIDKRQRNRC
       .:..:::::::::::::::::::::::::::::::.:::: :::::::::::::::::::
NP_001 ASFTKHICAICGDRSSGKHYGVYSCEGCKGFFKRTVRKDLTYTCRDNKDCLIDKRQRNRC
               40        50        60        70        80        90

             200       210       220       230       240       250 
pF1KB5 QYCRYQKCLVMGMKREAVQEERQRSRERAESEAECATSGHEDMPVERILEAELAVEPKTE
       :::::::::.::::::::::::::...: :.:.: ..:..::::::::::::::::::::
NP_001 QYCRYQKCLAMGMKREAVQEERQRGKDRNENEVESTSSANEDMPVERILEAELAVEPKTE
              100       110       120       130       140       150

                260       270       280       290       300        
pF1KB5 SYGDMNM---ENSTNDPVTNICHAADKQLFTLVEWAKRIPHFSDLTLEDQVILLRAGWNE
       .: . ::    .: ::::::::.::::::::::::::::::::.: :.::::::::::::
NP_001 TYVEANMGLNPSSPNDPVTNICQAADKQLFTLVEWAKRIPHFSELPLDDQVILLRAGWNE
              160       170       180       190       200       210

      310       320       330       340       350       360        
pF1KB5 LLIASFSHRSVSVQDGILLATGLHVHRSSAHSAGVGSIFDRVLTELVSKMKDMQMDKSEL
       ::::::::::..:.:::::::::::::.::::::::.:::::::::::::.::::::.::
NP_001 LLIASFSHRSIAVKDGILLATGLHVHRNSAHSAGVGAIFDRVLTELVSKMRDMQMDKTEL
              220       230       240       250       260       270

      370       380       390       400       410       420        
pF1KB5 GCLRAIVLFNPDAKGLSNPSEVETLREKVYATLEAYTKQKYPEQPGRFAKLLLRLPALRS
       ::::::::::::.::::::.:::.:::::::.:::: :.:::::::::::::::::::::
NP_001 GCLRAIVLFNPDSKGLSNPAEVEALREKVYASLEAYCKHKYPEQPGRFAKLLLRLPALRS
              280       290       300       310       320       330

      430       440       450       460   
pF1KB5 IGLKCLEHLFFFKLIGDTPIDTFLMEMLETPLQIT
       :::::::::::::::::::::::::::::.: :.:
NP_001 IGLKCLEHLFFFKLIGDTPIDTFLMEMLEAPHQMT
              340       350       360     

>>NP_068811 (OMIM: 180246) retinoic acid receptor RXR-be  (533 aa)
 initn: 1926 init1: 1199 opt: 1942  Z-score: 1429.3  bits: 274.0 E(85289): 7.1e-73
Smith-Waterman score: 1984; 67.4% identity (81.8% similar) in 473 aa overlap (13-462:68-532)

                                 10        20        30            
pF1KB5                   MYGNYSHFMKFPAGYGGSPGHTGSTSMSPSAA----LSTGKP
                                     ::  :  : .:  : ::...    :  : :
NP_068 RRRPWLDPAAAAAAAVAGGEQQTPEPEPGEAGRDGM-GDSGRDSRSPDSSSPNPLPQGVP
        40        50        60        70         80        90      

       40        50        60              70        80        90  
pF1KB5 MDSHPSYTDTPVSAPRTLSAVGTPLNA------LGSPYRVITSAMGPPSGALAAPPGINL
         : :.    : .:: .:.. :.:         ::::. ::.:.:: :.    ::::.. 
NP_068 PPSPPGPPLPPSTAP-SLGGSGAPPPPPMPPPPLGSPFPVISSSMGSPGLPPPAPPGFS-
        100       110        120       130       140       150     

             100            110       120         130       140    
pF1KB5 VAPPSS-QLNVVNSVSSS-----EDIKPLPGLPGIGNMNYPST--SPGSLVKHICAICGD
        .: :: :.: . :. ..     ::.:: : : :. ... :    .::.  :..::::::
NP_068 -GPVSSPQINSTVSLPGGGSGPPEDVKP-PVL-GVRGLHCPPPPGGPGAG-KRLCAICGD
           160       170       180         190       200        210

          150       160       170       180       190       200    
pF1KB5 RSSGKHYGVYSCEGCKGFFKRTIRKDLIYTCRDNKDCLIDKRQRNRCQYCRYQKCLVMGM
       ::::::::::::::::::::::::::: :.::::::: .:::::::::::::::::. ::
NP_068 RSSGKHYGVYSCEGCKGFFKRTIRKDLTYSCRDNKDCTVDKRQRNRCQYCRYQKCLATGM
              220       230       240       250       260       270

          210       220       230       240       250              
pF1KB5 KREAVQEERQRSRERAESEAECATSGHEDMPVERILEAELAVEPKTESY-----GDMNME
       :::::::::::.... ....: : .. :.:::.:::::::::: :...      :  .  
NP_068 KREAVQEERQRGKDK-DGDGEGAGGAPEEMPVDRILEAELAVEQKSDQGVEGPGGTGGSG
              280        290       300       310       320         

     260       270       280       290       300       310         
pF1KB5 NSTNDPVTNICHAADKQLFTLVEWAKRIPHFSDLTLEDQVILLRAGWNELLIASFSHRSV
       .: ::::::::.::::::::::::::::::::.: :.::::::::::::::::::::::.
NP_068 SSPNDPVTNICQAADKQLFTLVEWAKRIPHFSSLPLDDQVILLRAGWNELLIASFSHRSI
     330       340       350       360       370       380         

     320       330       340       350       360       370         
pF1KB5 SVQDGILLATGLHVHRSSAHSAGVGSIFDRVLTELVSKMKDMQMDKSELGCLRAIVLFNP
       .:.:::::::::::::.::::::::.:::::::::::::.::.:::.::::::::.::::
NP_068 DVRDGILLATGLHVHRNSAHSAGVGAIFDRVLTELVSKMRDMRMDKTELGCLRAIILFNP
     390       400       410       420       430       440         

     380       390       400       410       420       430         
pF1KB5 DAKGLSNPSEVETLREKVYATLEAYTKQKYPEQPGRFAKLLLRLPALRSIGLKCLEHLFF
       ::::::::::::.:::::::.::.: ::::::: ::::::::::::::::::::::::::
NP_068 DAKGLSNPSEVEVLREKVYASLETYCKQKYPEQQGRFAKLLLRLPALRSIGLKCLEHLFF
     450       460       470       480       490       500         

     440       450       460   
pF1KB5 FKLIGDTPIDTFLMEMLETPLQIT
       ::::::::::::::::::.: :. 
NP_068 FKLIGDTPIDTFLMEMLEAPHQLA
     510       520       530   

>>NP_001257330 (OMIM: 180246) retinoic acid receptor RXR  (537 aa)
 initn: 1938 init1: 678 opt: 1785  Z-score: 1315.0  bits: 252.8 E(85289): 1.7e-66
Smith-Waterman score: 1966; 66.9% identity (81.1% similar) in 477 aa overlap (13-462:68-536)

                                 10        20        30            
pF1KB5                   MYGNYSHFMKFPAGYGGSPGHTGSTSMSPSAA----LSTGKP
                                     ::  :  : .:  : ::...    :  : :
NP_001 RRRPWLDPAAAAAAAVAGGEQQTPEPEPGEAGRDGM-GDSGRDSRSPDSSSPNPLPQGVP
        40        50        60        70         80        90      

       40        50        60              70        80        90  
pF1KB5 MDSHPSYTDTPVSAPRTLSAVGTPLNA------LGSPYRVITSAMGPPSGALAAPPGINL
         : :.    : .:: .:.. :.:         ::::. ::.:.:: :.    ::::.. 
NP_001 PPSPPGPPLPPSTAP-SLGGSGAPPPPPMPPPPLGSPFPVISSSMGSPGLPPPAPPGFS-
        100       110        120       130       140       150     

             100            110       120         130       140    
pF1KB5 VAPPSS-QLNVVNSVSSS-----EDIKPLPGLPGIGNMNYPST--SPGSLVKHICAICGD
        .: :: :.: . :. ..     ::.:: : : :. ... :    .::.  :..::::::
NP_001 -GPVSSPQINSTVSLPGGGSGPPEDVKP-PVL-GVRGLHCPPPPGGPGAG-KRLCAICGD
           160       170       180         190       200        210

          150       160       170       180       190       200    
pF1KB5 RSSGKHYGVYSCEGCKGFFKRTIRKDLIYTCRDNKDCLIDKRQRNRCQYCRYQKCLVMGM
       ::::::::::::::::::::::::::: :.::::::: .:::::::::::::::::. ::
NP_001 RSSGKHYGVYSCEGCKGFFKRTIRKDLTYSCRDNKDCTVDKRQRNRCQYCRYQKCLATGM
              220       230       240       250       260       270

          210       220       230       240       250              
pF1KB5 KREAVQEERQRSRERAESEAECATSGHEDMPVERILEAELAVEPKTESY-----GDMNME
       :::::::::::.... ....: : .. :.:::.:::::::::: :...      :  .  
NP_001 KREAVQEERQRGKDK-DGDGEGAGGAPEEMPVDRILEAELAVEQKSDQGVEGPGGTGGSG
              280        290       300       310       320         

     260       270       280       290       300       310         
pF1KB5 NSTNDPVTNICHAADKQLFTLVEWAKRIPHFSDLTLEDQVILLRAGWNELLIASFSHRSV
       .: ::::::::.::::::::::::::::::::.: :.::::::::::::::::::::::.
NP_001 SSPNDPVTNICQAADKQLFTLVEWAKRIPHFSSLPLDDQVILLRAGWNELLIASFSHRSI
     330       340       350       360       370       380         

     320       330       340           350       360       370     
pF1KB5 SVQDGILLATGLHVHRSSAHSAGVGSIFDR----VLTELVSKMKDMQMDKSELGCLRAIV
       .:.:::::::::::::.::::::::.::::    :::::::::.::.:::.::::::::.
NP_001 DVRDGILLATGLHVHRNSAHSAGVGAIFDRSLSRVLTELVSKMRDMRMDKTELGCLRAII
     390       400       410       420       430       440         

         380       390       400       410       420       430     
pF1KB5 LFNPDAKGLSNPSEVETLREKVYATLEAYTKQKYPEQPGRFAKLLLRLPALRSIGLKCLE
       ::::::::::::::::.:::::::.::.: ::::::: ::::::::::::::::::::::
NP_001 LFNPDAKGLSNPSEVEVLREKVYASLETYCKQKYPEQQGRFAKLLLRLPALRSIGLKCLE
     450       460       470       480       490       500         

         440       450       460   
pF1KB5 HLFFFKLIGDTPIDTFLMEMLETPLQIT
       ::::::::::::::::::::::.: :. 
NP_001 HLFFFKLIGDTPIDTFLMEMLEAPHQLA
     510       520       530       

>>XP_016866665 (OMIM: 180246) PREDICTED: retinoic acid r  (414 aa)
 initn: 1938 init1: 678 opt: 1761  Z-score: 1299.2  bits: 249.5 E(85289): 1.3e-65
Smith-Waterman score: 1922; 72.0% identity (85.9% similar) in 418 aa overlap (62-462:2-413)

              40        50        60        70        80        90 
pF1KB5 ALSTGKPMDSHPSYTDTPVSAPRTLSAVGTPLNALGSPYRVITSAMGPPSGALAAPPGIN
                                     :   ::::. ::.:.:: :.    ::::..
XP_016                              MPPPPLGSPFPVISSSMGSPGLPPPAPPGFS
                                            10        20        30 

              100            110       120         130       140   
pF1KB5 LVAPPSS-QLNVVNSVSSS-----EDIKPLPGLPGIGNMNYPST--SPGSLVKHICAICG
         .: :: :.: . :. ..     ::.:: : : :. ... :    .::.  :..:::::
XP_016 --GPVSSPQINSTVSLPGGGSGPPEDVKP-PVL-GVRGLHCPPPPGGPGAG-KRLCAICG
                40        50         60         70         80      

           150       160       170       180       190       200   
pF1KB5 DRSSGKHYGVYSCEGCKGFFKRTIRKDLIYTCRDNKDCLIDKRQRNRCQYCRYQKCLVMG
       :::::::::::::::::::::::::::: :.::::::: .:::::::::::::::::. :
XP_016 DRSSGKHYGVYSCEGCKGFFKRTIRKDLTYSCRDNKDCTVDKRQRNRCQYCRYQKCLATG
         90       100       110       120       130       140      

           210       220       230       240       250             
pF1KB5 MKREAVQEERQRSRERAESEAECATSGHEDMPVERILEAELAVEPKTESY-----GDMNM
       ::::::::::::.... ....: : .. :.:::.:::::::::: :...      :  . 
XP_016 MKREAVQEERQRGKDK-DGDGEGAGGAPEEMPVDRILEAELAVEQKSDQGVEGPGGTGGS
        150       160        170       180       190       200     

      260       270       280       290       300       310        
pF1KB5 ENSTNDPVTNICHAADKQLFTLVEWAKRIPHFSDLTLEDQVILLRAGWNELLIASFSHRS
        .: ::::::::.::::::::::::::::::::.: :.::::::::::::::::::::::
XP_016 GSSPNDPVTNICQAADKQLFTLVEWAKRIPHFSSLPLDDQVILLRAGWNELLIASFSHRS
         210       220       230       240       250       260     

      320       330       340           350       360       370    
pF1KB5 VSVQDGILLATGLHVHRSSAHSAGVGSIFDR----VLTELVSKMKDMQMDKSELGCLRAI
       ..:.:::::::::::::.::::::::.::::    :::::::::.::.:::.::::::::
XP_016 IDVRDGILLATGLHVHRNSAHSAGVGAIFDRSLSRVLTELVSKMRDMRMDKTELGCLRAI
         270       280       290       300       310       320     

          380       390       400       410       420       430    
pF1KB5 VLFNPDAKGLSNPSEVETLREKVYATLEAYTKQKYPEQPGRFAKLLLRLPALRSIGLKCL
       .::::::::::::::::.:::::::.::.: ::::::: :::::::::::::::::::::
XP_016 ILFNPDAKGLSNPSEVEVLREKVYASLETYCKQKYPEQQGRFAKLLLRLPALRSIGLKCL
         330       340       350       360       370       380     

          440       450       460   
pF1KB5 EHLFFFKLIGDTPIDTFLMEMLETPLQIT
       :::::::::::::::::::::::.: :. 
XP_016 EHLFFFKLIGDTPIDTFLMEMLEAPHQLA
         390       400       410    

>>XP_005249335 (OMIM: 180246) PREDICTED: retinoic acid r  (441 aa)
 initn: 1857 init1: 678 opt: 1745  Z-score: 1287.1  bits: 247.4 E(85289): 5.9e-65
Smith-Waterman score: 1837; 76.9% identity (89.6% similar) in 364 aa overlap (110-462:81-440)

      80        90       100       110       120         130       
pF1KB5 PSGALAAPPGINLVAPPSSQLNVVNSVSSSEDIKPLPGLPGIGNMNYPST--SPGSLVKH
                                     ::.:: : : :. ... :    .::.  :.
XP_005 SQGRLDGTGWATAGGINSTVSLPGGGSGPPEDVKP-PVL-GVRGLHCPPPPGGPGAG-KR
               60        70        80          90       100        

       140       150       160       170       180       190       
pF1KB5 ICAICGDRSSGKHYGVYSCEGCKGFFKRTIRKDLIYTCRDNKDCLIDKRQRNRCQYCRYQ
       .::::::::::::::::::::::::::::::::: :.::::::: .::::::::::::::
XP_005 LCAICGDRSSGKHYGVYSCEGCKGFFKRTIRKDLTYSCRDNKDCTVDKRQRNRCQYCRYQ
       110       120       130       140       150       160       

       200       210       220       230       240       250       
pF1KB5 KCLVMGMKREAVQEERQRSRERAESEAECATSGHEDMPVERILEAELAVEPKTESY----
       :::. :::::::::::::.... ....: : .. :.:::.:::::::::: :...     
XP_005 KCLATGMKREAVQEERQRGKDK-DGDGEGAGGAPEEMPVDRILEAELAVEQKSDQGVEGP
       170       180        190       200       210       220      

            260       270       280       290       300       310  
pF1KB5 -GDMNMENSTNDPVTNICHAADKQLFTLVEWAKRIPHFSDLTLEDQVILLRAGWNELLIA
        :  .  .: ::::::::.::::::::::::::::::::.: :.::::::::::::::::
XP_005 GGTGGSGSSPNDPVTNICQAADKQLFTLVEWAKRIPHFSSLPLDDQVILLRAGWNELLIA
        230       240       250       260       270       280      

            320       330       340           350       360        
pF1KB5 SFSHRSVSVQDGILLATGLHVHRSSAHSAGVGSIFDR----VLTELVSKMKDMQMDKSEL
       ::::::..:.:::::::::::::.::::::::.::::    :::::::::.::.:::.::
XP_005 SFSHRSIDVRDGILLATGLHVHRNSAHSAGVGAIFDRSLSRVLTELVSKMRDMRMDKTEL
        290       300       310       320       330       340      

      370       380       390       400       410       420        
pF1KB5 GCLRAIVLFNPDAKGLSNPSEVETLREKVYATLEAYTKQKYPEQPGRFAKLLLRLPALRS
       ::::::.::::::::::::::::.:::::::.::.: ::::::: :::::::::::::::
XP_005 GCLRAIILFNPDAKGLSNPSEVEVLREKVYASLETYCKQKYPEQQGRFAKLLLRLPALRS
        350       360       370       380       390       400      

      430       440       450       460   
pF1KB5 IGLKCLEHLFFFKLIGDTPIDTFLMEMLETPLQIT
       :::::::::::::::::::::::::::::.: :. 
XP_005 IGLKCLEHLFFFKLIGDTPIDTFLMEMLEAPHQLA
        410       420       430       440 




463 residues in 1 query   sequences
60827320 residues in 85289 library sequences
 Tcomplib [36.3.4 Apr, 2011] (8 proc)
 start: Sat Nov  5 15:23:32 2016 done: Sat Nov  5 15:23:33 2016
 Total Scan time: 10.380 Total Display time:  0.070

Function used was FASTA [36.3.4 Apr, 2011]
Inquiries or Suggestions ?
Send a message to flexiclone AT kazusagt.com