Medicago
BLAST2 result
BLASTP 2.2.2 [Dec-14-2001]


Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, 
Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), 
"Gapped BLAST and PSI-BLAST: a new generation of protein database search
programs",  Nucleic Acids Res. 25:3389-3402.

Query= AC135796.9 - phase: 0 /pseudo
         (911 letters)

Database: sprot 
           164,201 sequences; 59,974,054 total letters

Searching..................................................done


                                                                   Score     E
Sequences producing significant alignments:                        (bits)  Value

RPC2_MOUSE (P59470) DNA-directed RNA polymerase III subunit 127....    94  1e-18
RPC2_HUMAN (Q9NW08) DNA-directed RNA polymerase III subunit 127....    94  1e-18
RPC2_YEAST (P22276) DNA-directed RNA polymerase III 130 kDa poly...    92  6e-18
RPC2_SCHPO (Q10233) Putative DNA-directed RNA polymerase III 130...    86  3e-16
RPC2_DROME (P25167) DNA-directed RNA polymerase III 128 kDa poly...    75  6e-13
RPOB_THECE (P31814) DNA-directed RNA polymerase subunit B (EC 2....    54  2e-06
RPOB_SULAC (P11513) DNA-directed RNA polymerase subunit B (EC 2....    46  4e-04
RPB2_METVA (P41558) DNA-directed RNA polymerase subunit B'' (EC ...    45  0.001
RPB2_DROME (P08266) DNA-directed RNA polymerase II 140 kDa polyp...    38  0.14
RPB2_CAEEL (Q10578) DNA-directed RNA polymerase II second larges...    37  0.18
RPB2_SCHPO (Q02061) DNA-directed RNA polymerase II 138 kDa polyp...    37  0.24
RPB2_METJA (Q58444) DNA-directed RNA polymerase subunit B'' (EC ...    33  2.6
RPOB_THEAC (Q03587) DNA-directed RNA polymerase subunit B (EC 2....    32  5.9
RPB2_HALN1 (P15352) DNA-directed RNA polymerase subunit B'' (EC ...    32  7.7

>RPC2_MOUSE (P59470) DNA-directed RNA polymerase III subunit 127.6
           kDa polypeptide (EC 2.7.7.6) (RNA polymerase III subunit
           2) (RPC2)
          Length = 1133

 Score = 94.4 bits (233), Expect = 1e-18
 Identities = 51/121 (42%), Positives = 71/121 (58%), Gaps = 15/121 (12%)

Query: 1   MVVMKAMGMEHDQEVVQLIGRDPRYSFLLMPSIEECTKIGIFTQAQALDYVDSKAERQ-- 58
           +++ KAMG+E DQE+VQ+IG +        PS+EEC K  IFTQ QAL Y+ +K  RQ  
Sbjct: 237 VIIFKAMGVESDQEIVQMIGTEEHVMAAFGPSLEECQKAQIFTQMQALKYIGNKVRRQRM 296

Query: 59  ------------AFNILRETFLANVPVHGYNFRPKCIYVAVMIRRIMDAILNKDAMDDKS 106
                       A  +L  T L +VPV  +NFR KCIY AVM+RR++ A    + +DD+ 
Sbjct: 297 WGGGPKKTKIEEARELLASTILTHVPVKEFNFRAKCIYTAVMVRRVILA-QGDNKVDDRD 355

Query: 107 F 107
           +
Sbjct: 356 Y 356



 Score = 41.6 bits (96), Expect = 0.010
 Identities = 18/35 (51%), Positives = 26/35 (73%)

Query: 186 INRDCITPGLERTLSTGNFDVKRFKMHKSGVTQVI 220
           + +D IT G+   +STGN+ +KRFKM + GVTQV+
Sbjct: 406 MRQDQITNGMVNAISTGNWSLKRFKMDRQGVTQVL 440


>RPC2_HUMAN (Q9NW08) DNA-directed RNA polymerase III subunit 127.6
           kDa polypeptide (EC 2.7.7.6) (RNA polymerase III subunit
           2) (RPC2)
          Length = 1133

 Score = 94.4 bits (233), Expect = 1e-18
 Identities = 51/121 (42%), Positives = 71/121 (58%), Gaps = 15/121 (12%)

Query: 1   MVVMKAMGMEHDQEVVQLIGRDPRYSFLLMPSIEECTKIGIFTQAQALDYVDSKAERQ-- 58
           +++ KAMG+E DQE+VQ+IG +        PS+EEC K  IFTQ QAL Y+ +K  RQ  
Sbjct: 237 VIIFKAMGVESDQEIVQMIGTEEHVMAAFGPSLEECQKAQIFTQMQALKYIGNKVRRQRM 296

Query: 59  ------------AFNILRETFLANVPVHGYNFRPKCIYVAVMIRRIMDAILNKDAMDDKS 106
                       A  +L  T L +VPV  +NFR KCIY AVM+RR++ A    + +DD+ 
Sbjct: 297 WGGGPKKTKIEEARELLASTILTHVPVKEFNFRAKCIYTAVMVRRVILA-QGDNKVDDRD 355

Query: 107 F 107
           +
Sbjct: 356 Y 356



 Score = 41.6 bits (96), Expect = 0.010
 Identities = 18/35 (51%), Positives = 26/35 (73%)

Query: 186 INRDCITPGLERTLSTGNFDVKRFKMHKSGVTQVI 220
           + +D IT G+   +STGN+ +KRFKM + GVTQV+
Sbjct: 406 MRQDQITNGMVNAISTGNWSLKRFKMDRQGVTQVL 440


>RPC2_YEAST (P22276) DNA-directed RNA polymerase III 130 kDa
           polypeptide (EC 2.7.7.6) (C128) (RNA polymerase III
           subunit 2)
          Length = 1149

 Score = 92.0 bits (227), Expect = 6e-18
 Identities = 69/232 (29%), Positives = 121/232 (51%), Gaps = 41/232 (17%)

Query: 2   VVMKAMGMEHDQEVVQLI-GRDPRYSFLLMPSIEECTKIGIFTQAQALDYVDSKAE---R 57
           +V+KA G+  D E++QL+ G D  Y  +   ++EE +K+ I+TQ QAL+Y+ +K +   R
Sbjct: 255 IVLKACGILSDLEIMQLVCGNDSSYQDIFAVNLEESSKLDIYTQQQALEYIGAKVKTMRR 314

Query: 58  QAFNILRE-------TFLANVPVHGYNFRPKCIYVAVMIRRIMDAILNKDAMDDKSF--K 108
           Q   IL+E       T +A++ V   +FR K +Y+A+M RR++ A+ N   +DD+ +   
Sbjct: 315 QKLTILQEGIEAIATTVIAHLTVEALDFREKALYIAMMTRRVVMAMYNPKMIDDRDYVGN 374

Query: 109 KIIGLCWKQTIGVIWPSYLSSI*GSF*VDDN*N*VCGGQIVG*ARQS*EV*LSYFQPDLS 168
           K + L   Q I +++          F +  +       +++    ++ E     +   LS
Sbjct: 375 KRLELA-GQLISLLFEDLFKKFNNDFKLSID-------KVLKKPNRAME-----YDALLS 421

Query: 169 ISGFQFT*FLWMCL*QLINRDCITPGLERTLSTGNFDVKRFKMHKSGVTQVI 220
           I+               ++ + IT GL R +STGN+ +KRFKM ++GVT V+
Sbjct: 422 IN---------------VHSNNITSGLNRAISTGNWSLKRFKMERAGVTHVL 458


>RPC2_SCHPO (Q10233) Putative DNA-directed RNA polymerase III 130
           kDa polypeptide (EC 2.7.7.6) (RNA polymerase III subunit
           2)
          Length = 1165

 Score = 86.3 bits (212), Expect = 3e-16
 Identities = 42/121 (34%), Positives = 72/121 (58%), Gaps = 14/121 (11%)

Query: 1   MVVMKAMGMEHDQEVVQLI-GRDPRYSFLLMPSIEECTKIGIFTQAQALDYVDSKAE--- 56
           +VV+KAMG++ DQE+ +L+ G +  Y  L  PSIEEC K+ I+T  QAL+Y+ ++ +   
Sbjct: 262 VVVLKAMGLQSDQEIFELVAGAEASYQDLFAPSIEECAKLNIYTAQQALEYIGARVKVNR 321

Query: 57  ----------RQAFNILRETFLANVPVHGYNFRPKCIYVAVMIRRIMDAILNKDAMDDKS 106
                      +A  +L    LA++ V    FRPK +Y+ +M RR++ A+++   +DD+ 
Sbjct: 322 RAGANRLPPHEEALEVLAAVVLAHINVFNLEFRPKAVYIGIMARRVLMAMVDPLQVDDRD 381

Query: 107 F 107
           +
Sbjct: 382 Y 382



 Score = 43.9 bits (102), Expect = 0.002
 Identities = 19/35 (54%), Positives = 27/35 (76%)

Query: 186 INRDCITPGLERTLSTGNFDVKRFKMHKSGVTQVI 220
           ++ D IT G+ R LSTGN+ +KRFKM ++GVT V+
Sbjct: 435 VHSDHITQGMVRALSTGNWSLKRFKMERAGVTHVL 469


>RPC2_DROME (P25167) DNA-directed RNA polymerase III 128 kDa
           polypeptide (EC 2.7.7.6) (RNA polymerase III subunit 2)
          Length = 1135

 Score = 75.5 bits (184), Expect = 6e-13
 Identities = 42/120 (35%), Positives = 67/120 (55%), Gaps = 13/120 (10%)

Query: 1   MVVMKAMGMEHDQEVVQLIGRDPRYSFLLMPSIEECTKIGIFTQAQALDYVDSKA----- 55
           +V+ KA+G+  DQE+  LIG D +       S+ +   + +FTQ +AL+Y+ SK      
Sbjct: 243 VVIFKALGVVSDQEIQSLIGIDSKSQNRFGASLIDAYNLKVFTQQRALEYMGSKLVVKRF 302

Query: 56  --------ERQAFNILRETFLANVPVHGYNFRPKCIYVAVMIRRIMDAILNKDAMDDKSF 107
                     +A  +L  T LA+VPV  +N + K IYV++M+RR+M A L+K   DD+ +
Sbjct: 303 QSATTKTPSEEARELLLTTILAHVPVDNFNLQMKAIYVSMMVRRVMAAELDKTLFDDRDY 362



 Score = 42.7 bits (99), Expect = 0.004
 Identities = 18/30 (60%), Positives = 25/30 (83%)

Query: 191 ITPGLERTLSTGNFDVKRFKMHKSGVTQVI 220
           IT GLE  +S+GN+ +KRFKM ++GVTQV+
Sbjct: 417 ITAGLESAISSGNWTIKRFKMERAGVTQVL 446


>RPOB_THECE (P31814) DNA-directed RNA polymerase subunit B (EC
           2.7.7.6)
          Length = 1122

 Score = 53.9 bits (128), Expect = 2e-06
 Identities = 32/112 (28%), Positives = 59/112 (52%), Gaps = 11/112 (9%)

Query: 3   VMKAMGMEHDQEVVQLIGRDPRYSFLLMPSIEECTKIGIFTQAQALDYVDSKA------- 55
           VM+A+G+  D+E+V+ +  DPR   +L  ++E+ +   + TQ +ALDY+   +       
Sbjct: 230 VMRALGLLSDREIVEAVSDDPRIQHVLFDNLEDAS--DVTTQEEALDYIGKLSLPGQPKE 287

Query: 56  --ERQAFNILRETFLANVPVHGYNFRPKCIYVAVMIRRIMDAILNKDAMDDK 105
              R+A NI+    L ++ V   + + K  Y+ +M  R+++  L     DDK
Sbjct: 288 YRLRRAQNIIDNNLLPHMGVEEKDRKAKAYYLGMMALRVLELSLGLRGEDDK 339


>RPOB_SULAC (P11513) DNA-directed RNA polymerase subunit B (EC
           2.7.7.6)
          Length = 1126

 Score = 46.2 bits (108), Expect = 4e-04
 Identities = 26/113 (23%), Positives = 60/113 (53%), Gaps = 11/113 (9%)

Query: 2   VVMKAMGMEHDQEVVQLIGRDPRYSFLLMPSIEECTKIGIFTQAQALDYVDSKAE----- 56
           ++M+A+G   D+++V  +  DP+    L+PS+E+ +   I +  +ALD++ ++       
Sbjct: 223 IIMRALGFVTDRDIVYAVSLDPQIQNELLPSLEQAS--SITSAEEALDFIGNRVAIGQKR 280

Query: 57  ----RQAFNILRETFLANVPVHGYNFRPKCIYVAVMIRRIMDAILNKDAMDDK 105
               ++A  ++ + FL ++     + + K  Y+A  + +I++  L +   DDK
Sbjct: 281 ENRIQKAEQVIDKYFLPHLGTSPEDRKKKGYYLASAVNKILELYLGRREPDDK 333


>RPB2_METVA (P41558) DNA-directed RNA polymerase subunit B'' (EC
           2.7.7.6)
          Length = 499

 Score = 44.7 bits (104), Expect = 0.001
 Identities = 28/115 (24%), Positives = 56/115 (48%), Gaps = 10/115 (8%)

Query: 1   MVVMKAMGMEHDQEVVQLIGRDPRYSFLLMPSIEEC-TKIGIFTQAQALDYVDSKAE--- 56
           +++M+A+G E D+E+++LI  +P     L+ +++E   + GI T   AL+++  +     
Sbjct: 222 VILMRALGAESDREIMELISDEPTVVMQLVANLQEAREEHGINTTEDALEHIGKRVAPGQ 281

Query: 57  ------RQAFNILRETFLANVPVHGYNFRPKCIYVAVMIRRIMDAILNKDAMDDK 105
                 ++A  IL    L ++ +       KC Y+  M +  ++  L     DDK
Sbjct: 282 PKEYKLKRAETILCNYLLPHMGIESEKLGAKCKYLGRMAKNSIELYLGSRVEDDK 336


>RPB2_DROME (P08266) DNA-directed RNA polymerase II 140 kDa
           polypeptide (EC 2.7.7.6) (RNA polymerase II subunit 2)
          Length = 1176

 Score = 37.7 bits (86), Expect = 0.14
 Identities = 28/118 (23%), Positives = 58/118 (48%), Gaps = 15/118 (12%)

Query: 1   MVVMKAMGMEHDQEVVQLI---GRDPRYSFLLMPSIEECTKIGIFTQAQALDYVDSKAER 57
           M+V +A+G   D+++++ I     DP    ++ PS++E     +  Q  AL+++ ++  R
Sbjct: 271 MIVFRALGFVADRDILEHIIYDFDDPEMMEMVKPSLDEA--FVVQEQNVALNFIGARGAR 328

Query: 58  ----------QAFNILRETFLANVPVHGYNFRPKCIYVAVMIRRIMDAILNKDAMDDK 105
                      A  IL++  L +V V  +    K  ++  M+ R++ A L +  +DD+
Sbjct: 329 PGVTKDKRIKYAKEILQKEMLPHVGVSDFCETKKAYFLGYMVHRLLLASLGRRELDDR 386


>RPB2_CAEEL (Q10578) DNA-directed RNA polymerase II second largest
           subunit (EC 2.7.7.6) (RNA polymerase I subunit 2)
          Length = 1193

 Score = 37.4 bits (85), Expect = 0.18
 Identities = 28/118 (23%), Positives = 57/118 (47%), Gaps = 15/118 (12%)

Query: 1   MVVMKAMGMEHDQEVVQLI---GRDPRYSFLLMPSIEECTKIGIFTQAQALDYVDSKAE- 56
           M+V +A+G   D++++  I     DP    ++ PS++E     I  Q  AL+++ ++   
Sbjct: 276 MIVFRALGFVSDRDILGHIIYDFNDPEMMEMVKPSLDEA--FVIQEQNVALNFIGARGAK 333

Query: 57  ---------RQAFNILRETFLANVPVHGYNFRPKCIYVAVMIRRIMDAILNKDAMDDK 105
                    + A  IL++  L +V V  +    K  ++  M+ R++ A L +  +DD+
Sbjct: 334 PGVTREQRIKYAREILQKELLPHVGVSEHCETKKAFFIGYMVHRLLLAALGRRELDDR 391


>RPB2_SCHPO (Q02061) DNA-directed RNA polymerase II 138 kDa
           polypeptide (EC 2.7.7.6) (RNA polymerase II subunit 2)
          Length = 1210

 Score = 37.0 bits (84), Expect = 0.24
 Identities = 28/118 (23%), Positives = 59/118 (49%), Gaps = 15/118 (12%)

Query: 1   MVVMKAMGMEHDQEVVQLIGRDPRYSFLLMPSIEECTKIGIFTQAQ--ALDYVDSKAE-- 56
           ++V +A+G+  D+++++ I  DP   F ++  ++ C +     Q +  ALDY+  +    
Sbjct: 269 VIVFRALGVVPDRDILEHICYDPN-DFQMLEMMKPCIEEAFVIQDKDIALDYIGKRGSTT 327

Query: 57  --------RQAFNILRETFLANV-PVHGYNFRPKCIYVAVMIRRIMDAILNKDAMDDK 105
                   R A +IL++  L ++  + G+  R K  ++  MI R++   L +   DD+
Sbjct: 328 GVTREKRLRYAHDILQKELLPHITTMEGFETR-KAFFLGYMIHRMLLCALERREPDDR 384


>RPB2_METJA (Q58444) DNA-directed RNA polymerase subunit B'' (EC
           2.7.7.6)
          Length = 498

 Score = 33.5 bits (75), Expect = 2.6
 Identities = 25/115 (21%), Positives = 56/115 (47%), Gaps = 11/115 (9%)

Query: 1   MVVMKAMGMEHDQEVVQLIGRDPRYSFLLMPSIEEC-TKIGIFTQAQALDYVDSKAE--- 56
           +++MKA+G E D+++++ I  D R+   ++ +I+E   +  I +   AL+++  +     
Sbjct: 223 VILMKALGAETDKDIIESID-DERFFMEIVLNIQEIREEHNINSPEDALEFIGKRVAPGQ 281

Query: 57  ------RQAFNILRETFLANVPVHGYNFRPKCIYVAVMIRRIMDAILNKDAMDDK 105
                 ++A  +L    L ++ V   +F  K  ++ +M R  ++        DDK
Sbjct: 282 AKDYRLKRAETVLCNYLLPHLGVTKEDFPKKIRFLGIMARNALELYFGYRGEDDK 336


>RPOB_THEAC (Q03587) DNA-directed RNA polymerase subunit B (EC
           2.7.7.6)
          Length = 1195

 Score = 32.3 bits (72), Expect = 5.9
 Identities = 26/120 (21%), Positives = 53/120 (43%), Gaps = 15/120 (12%)

Query: 1   MVVMKAMGMEHDQEVVQLIGRDPRYSFLLMPSIEECTK------IGIFTQAQALDYVDSK 54
           +++MKA+G+E D +V   I   P    ++  +IE+          G+ T   A+ Y++ +
Sbjct: 262 VILMKALGLERDVDVHDAIASVPEMEPIIYSNIEDSKNPKVLPPNGVNTTEDAISYLEKR 321

Query: 55  ---------AERQAFNILRETFLANVPVHGYNFRPKCIYVAVMIRRIMDAILNKDAMDDK 105
                     +++   +L  + L ++     +   K IY+  M R +++  L     DDK
Sbjct: 322 FAAGQAKEFRDKKISQMLDHSLLPHLGDSPSDRIRKAIYLGRMARSLLELSLGIRKEDDK 381


>RPB2_HALN1 (P15352) DNA-directed RNA polymerase subunit B'' (EC
           2.7.7.6)
          Length = 523

 Score = 32.0 bits (71), Expect = 7.7
 Identities = 13/49 (26%), Positives = 30/49 (60%), Gaps = 3/49 (6%)

Query: 1   MVVMKAMGMEHDQEVVQLIGRDPRYSFLLMPSIEECTKIGIFTQAQALD 49
           + +++A+G+E D+E+V  +  DP     ++ ++EE     + TQ +A++
Sbjct: 231 VTLVRALGLESDEEIVHRVSEDPEIVKFMLENLEEA---DVQTQEEAIE 276


  Database: sprot
    Posted date:  Nov 25, 2004 10:54 AM
  Number of letters in database: 59,974,054
  Number of sequences in database:  164,201
  
Lambda     K      H
   0.365    0.160    0.668 

Gapped
Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 90,640,680
Number of Sequences: 164201
Number of extensions: 3178001
Number of successful extensions: 14034
Number of sequences better than 10.0: 14
Number of HSP's better than 10.0 without gapping: 7
Number of HSP's successfully gapped in prelim test: 7
Number of HSP's that attempted gapping in prelim test: 14009
Number of HSP's gapped (non-prelim): 22
length of query: 911
length of database: 59,974,054
effective HSP length: 119
effective length of query: 792
effective length of database: 40,434,135
effective search space: 32023834920
effective search space used: 32023834920
T: 11
A: 40
X1: 14 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 36 (21.6 bits)
S2: 71 (32.0 bits)


Medicago: description of AC135796.9