Reference:
Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schäffer,
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= Dr_sW_006_A07
(609 letters)
Database: Non-redundant SwissProt sequences
184,735 sequences; 68,354,980 total letters
Score E
Sequences producing significant alignments: (bits) Value
sp|Q7ZW41|RPB7_BRARE DNA-directed RNA polymerase II 19 kDa ... 191 1e-48
sp|P62488|RPB7_MOUSE DNA-directed RNA polymerase II 19 kDa ... 191 2e-48
sp|P38421|RPB7_ARATH DNA-directed RNA polymerase II 19 kDa ... 149 4e-36
sp|P46279|RPB7_SOYBN DNA-directed RNA polymerase II 19 kDa ... 147 2e-35
sp|O14459|RPB7_SCHPO DNA-directed RNA polymerase II 19 kDa ... 125 8e-29
sp|P34087|RPB7_YEAST DNA-directed RNA polymerase II 19 kDa ... 108 1e-23
sp|Q57840|RPOE1_METJA DNA-directed RNA polymerase subunit E' 57 5e-08
sp|P35718|RPC25_YEAST DNA-directed RNA polymerase III 25 kD... 46 8e-05
sp|Q9Y535|RPC8_HUMAN DNA-directed RNA polymerase III subuni... 39 0.010
sp|Q9D2C6|RPC8_MOUSE DNA-directed RNA polymerase III subuni... 38 0.018
>sp|Q7ZW41|RPB7_BRARE DNA-directed RNA polymerase II 19 kDa polypeptide (RPB7)
Length = 172
Score = 191 bits (485), Expect = 1e-48
Identities = 88/172 (51%), Positives = 119/172 (69%)
Frame = +1
Query: 46 IFYHLNLKHEINLHPKYLGPNIIETIKTKLLSEVEGICTPNYGFIIAVISIDKIGDGVVQ 225
+FYH++L+HEI LHP+Y GPN++ T+K KL +EVEG CT YGF+IAV +ID IG GV+Q
Sbjct: 1 MFYHISLEHEILLHPRYFGPNLLNTVKQKLFTEVEGTCTGKYGFVIAVTTIDNIGAGVIQ 60
Query: 226 QGRGFTLIPIEYKAIVFRQFVGEVLDAVVYNVTKIGIFAMAGAFQIFISVYAVPQNFQYD 405
GRGF L P++YKAIVFR F GEV+DAVV V K+G+F G FIS +++P ++D
Sbjct: 61 PGRGFVLYPVKYKAIVFRPFKGEVVDAVVTQVNKVGLFTEIGPMSCFISRHSIPSEMEFD 120
Query: 406 CDTVPPCYKTAXXXXXXXXXXXXRVRIVGLRPDACGILGVGTLAEDYLGLIN 561
++ PPCYKT R++IVG R D I +G+L +DYLGL++
Sbjct: 121 PNSNPPCYKTVDEDVVIQQDDEIRLKIVGTRVDKNDIFAIGSLMDDYLGLVS 172
>sp|P62488|RPB7_MOUSE DNA-directed RNA polymerase II 19 kDa polypeptide (RPB7)
sp|Q5E9B8|RPB7_BOVIN DNA-directed RNA polymerase II 19 kDa polypeptide (RPB7)
sp|P62489|RPB7_RAT DNA-directed RNA polymerase II 19 kDa polypeptide (RPB7)
sp|P62487|RPB7_HUMAN DNA-directed RNA polymerase II 19 kDa polypeptide (RPB7)
Length = 172
Score = 191 bits (484), Expect = 2e-48
Identities = 88/172 (51%), Positives = 119/172 (69%)
Frame = +1
Query: 46 IFYHLNLKHEINLHPKYLGPNIIETIKTKLLSEVEGICTPNYGFIIAVISIDKIGDGVVQ 225
+FYH++L+HEI LHP+Y GPN++ T+K KL +EVEG CT YGF+IAV +ID IG GV+Q
Sbjct: 1 MFYHISLEHEILLHPRYFGPNLLNTVKQKLFTEVEGTCTGKYGFVIAVTTIDNIGAGVIQ 60
Query: 226 QGRGFTLIPIEYKAIVFRQFVGEVLDAVVYNVTKIGIFAMAGAFQIFISVYAVPQNFQYD 405
GRGF L P++YKAIVFR F GEV+DAVV V K+G+F G FIS +++P ++D
Sbjct: 61 PGRGFVLYPVKYKAIVFRPFKGEVVDAVVTQVNKVGLFTEIGPMSCFISRHSIPSEMEFD 120
Query: 406 CDTVPPCYKTAXXXXXXXXXXXXRVRIVGLRPDACGILGVGTLAEDYLGLIN 561
++ PPCYKT R++IVG R D I +G+L +DYLGL++
Sbjct: 121 PNSNPPCYKTMDEDIVIQQDDEIRLKIVGTRVDKNDIFAIGSLMDDYLGLVS 172
>sp|P38421|RPB7_ARATH DNA-directed RNA polymerase II 19 kDa polypeptide (RNA polymerase
II subunit 5)
Length = 176
Score = 149 bits (377), Expect = 4e-36
Identities = 68/172 (39%), Positives = 110/172 (63%)
Frame = +1
Query: 46 IFYHLNLKHEINLHPKYLGPNIIETIKTKLLSEVEGICTPNYGFIIAVISIDKIGDGVVQ 225
+F+H+ L+ + LHP++ G N+ E + +KL+ +VEG C+ +GF++A+ ID IG G+++
Sbjct: 1 MFFHIVLERNMQLHPRFFGRNLKENLVSKLMKDVEGTCSGRHGFVVAITGIDTIGKGLIR 60
Query: 226 QGRGFTLIPIEYKAIVFRQFVGEVLDAVVYNVTKIGIFAMAGAFQIFISVYAVPQNFQYD 405
G GF P++Y+ +VFR F GE+L+AVV V K+G FA AG QIF+S + +P + ++
Sbjct: 61 DGTGFVTFPVKYQCVVFRPFKGEILEAVVTLVNKMGFFAEAGPVQIFVSKHLIPDDMEFQ 120
Query: 406 CDTVPPCYKTAXXXXXXXXXXXXRVRIVGLRPDACGILGVGTLAEDYLGLIN 561
+P Y T+ R++I+G R DA I VGT+ +D+LG+IN
Sbjct: 121 AGDMPN-YTTSDGSVKIQKECEVRLKIIGTRVDATAIFCVGTIKDDFLGVIN 171
>sp|P46279|RPB7_SOYBN DNA-directed RNA polymerase II 19 kDa polypeptide (RNA polymerase
II subunit 5)
Length = 176
Score = 147 bits (372), Expect = 2e-35
Identities = 67/172 (38%), Positives = 110/172 (63%)
Frame = +1
Query: 46 IFYHLNLKHEINLHPKYLGPNIIETIKTKLLSEVEGICTPNYGFIIAVISIDKIGDGVVQ 225
+F+H+ L+ + LHP+Y G N+ + + +KL+ +VEG C+ +GF++AV I+ IG G+++
Sbjct: 1 MFFHIVLERNMQLHPRYFGRNLRDNLVSKLMKDVEGTCSGRHGFVVAVTGIENIGKGLIR 60
Query: 226 QGRGFTLIPIEYKAIVFRQFVGEVLDAVVYNVTKIGIFAMAGAFQIFISVYAVPQNFQYD 405
G GF P++Y+ +VFR F GE+L+AVV V K+G FA AG QIF+S + +P + ++
Sbjct: 61 DGTGFVTFPVKYQCVVFRPFKGEILEAVVTMVNKMGFFAEAGPVQIFVSNHLIPDDMEFQ 120
Query: 406 CDTVPPCYKTAXXXXXXXXXXXXRVRIVGLRPDACGILGVGTLAEDYLGLIN 561
+P Y T+ R++I+G R DA I +GT+ +D+LG+IN
Sbjct: 121 SGDMPN-YTTSDGSVKIQKDSEVRLKIIGTRVDATEIFCIGTIKDDFLGVIN 171
>sp|O14459|RPB7_SCHPO DNA-directed RNA polymerase II 19 kDa polypeptide
Length = 172
Score = 125 bits (314), Expect = 8e-29
Identities = 66/172 (38%), Positives = 100/172 (58%), Gaps = 2/172 (1%)
Frame = +1
Query: 49 FYHLNLKHEINLHPKYLGPNIIETIKTKLLSEVEGICTPNYGFIIAVISIDKIG--DGVV 222
F+ L I+LHP Y GP + + +K KLL++VEG C+ YG+II V+ + I G V
Sbjct: 3 FFLKELSLTISLHPSYFGPRMQDYLKAKLLADVEGTCSGQYGYIICVLDSNTIDIDKGRV 62
Query: 223 QQGRGFTLIPIEYKAIVFRQFVGEVLDAVVYNVTKIGIFAMAGAFQIFISVYAVPQNFQY 402
G+GF ++Y+A+++R F GEV+DA+V V K+G FA G +F+S + VP + ++
Sbjct: 63 VPGQGFAEFEVKYRAVLWRPFRGEVVDAIVTTVNKMGFFANIGPLNVFVSSHLVPPDMKF 122
Query: 403 DCDTVPPCYKTAXXXXXXXXXXXXRVRIVGLRPDACGILGVGTLAEDYLGLI 558
D PP Y + R++IVG R DA I + T+ EDYLG++
Sbjct: 123 DPTANPPNY--SGEDQVIEKGSNVRLKIVGTRTDATEIFAIATMKEDYLGVL 172
>sp|P34087|RPB7_YEAST DNA-directed RNA polymerase II 19 kDa polypeptide (B16)
Length = 171
Score = 108 bits (270), Expect = 1e-23
Identities = 58/176 (32%), Positives = 97/176 (55%), Gaps = 5/176 (2%)
Frame = +1
Query: 46 IFYHLNLKHEINLHPKYLGPNIIETIKTKLLSEVEGICTPNYGFIIAVISIDKIGDGVVQ 225
+F+ +L I LHP + GP + + +KTKLL EVEG CT +G+I+ V+ D I +Q
Sbjct: 1 MFFIKDLSLNITLHPSFFGPRMKQYLKTKLLEEVEGSCTGKFGYILCVLDYDNID---IQ 57
Query: 226 QGR-----GFTLIPIEYKAIVFRQFVGEVLDAVVYNVTKIGIFAMAGAFQIFISVYAVPQ 390
+GR G ++Y+A+VF+ F GEV+D V + ++ G G ++F++ + +PQ
Sbjct: 58 RGRILPTDGSAEFNVKYRAVVFKPFKGEVVDGTVVSCSQHGFEVQVGPMKVFVTKHLMPQ 117
Query: 391 NFQYDCDTVPPCYKTAXXXXXXXXXXXXRVRIVGLRPDACGILGVGTLAEDYLGLI 558
+ ++ + PP Y+++ RV+I G I +G++ EDYLG I
Sbjct: 118 DLTFNAGSNPPSYQSS--EDVITIKSRIRVKIEGCISQVSSIHAIGSIKEDYLGAI 171
>sp|Q57840|RPOE1_METJA DNA-directed RNA polymerase subunit E'
Length = 187
Score = 56.6 bits (135), Expect = 5e-08
Identities = 29/117 (24%), Positives = 60/117 (51%), Gaps = 1/117 (0%)
Frame = +1
Query: 58 LNLKHEINLHPKYLGPNIIETIKTKLLSEVEGICTPNYGFIIAVISIDKIGDGVVQQGRG 237
L + + + P+ G ++ ET+K L+ + EG + GF+++++ + IG+G V G G
Sbjct: 5 LEIADVVKVPPEEFGKDLKETVKKILMEKYEGRLDKDVGFVLSIVDVKDIGEGKVVHGDG 64
Query: 238 FTLIPIEYKAIVFRQFVGEVLDAVVYNVTKIGIFAMAGAFQIFISVYAVPQNF-QYD 405
P+ ++ +V+ + E+++ V +V + G F G I V + ++ YD
Sbjct: 65 SAYHPVVFETLVYIPEMYELIEGEVVDVVEFGSFVRLGPLDGLIHVSQIMDDYVSYD 121
>sp|P35718|RPC25_YEAST DNA-directed RNA polymerase III 25 kDa polypeptide (C25)
Length = 212
Score = 45.8 bits (107), Expect = 8e-05
Identities = 29/120 (24%), Positives = 56/120 (46%)
Frame = +1
Query: 76 INLHPKYLGPNIIETIKTKLLSEVEGICTPNYGFIIAVISIDKIGDGVVQQGRGFTLIPI 255
+ + P + I I +L ++ PN G I + + + +G ++ G G + I +
Sbjct: 11 VRIPPDQFHRDTISAITHQLNNKFANKIIPNVGLCITIYDLLTVEEGQLKPGDGSSYINV 70
Query: 256 EYKAIVFRQFVGEVLDAVVYNVTKIGIFAMAGAFQIFISVYAVPQNFQYDCDTVPPCYKT 435
++A+VF+ F+GE++ + T GI IF ++ +PQN ++ CY T
Sbjct: 71 TFRAVVFKPFLGEIVTGWISKCTAEGI--KVSLLGIFDDIF-IPQNMLFE-----GCYYT 122
>sp|Q9Y535|RPC8_HUMAN DNA-directed RNA polymerase III subunit 22.9 kDa polypeptide (RPC8)
Length = 204
Score = 38.9 bits (89), Expect = 0.010
Identities = 27/104 (25%), Positives = 47/104 (45%), Gaps = 1/104 (0%)
Frame = +1
Query: 97 LGPNIIETIKTKLLSEVEGICTPNYGFIIAVISIDKIGDGVVQQGRGFTLIPIEYKAIVF 276
L +I E + KL ++V N G I + I K+ D V G G + + ++ +VF
Sbjct: 22 LNDSIAEELNKKLANKV----VYNVGLCICLFDITKLEDAYVFPGDGASHTKVHFRCVVF 77
Query: 277 RQFVGEVLDAVVYNVTKIGIFAMAGAF-QIFISVYAVPQNFQYD 405
F+ E+L + + G+ G F I I ++ Q ++D
Sbjct: 78 HPFLDEILIGKIKGCSPEGVHVSLGFFDDILIPPESLQQPAKFD 121
>sp|Q9D2C6|RPC8_MOUSE DNA-directed RNA polymerase III subunit 22.9 kDa polypeptide (RPC8)
Length = 204
Score = 38.1 bits (87), Expect = 0.018
Identities = 27/104 (25%), Positives = 47/104 (45%), Gaps = 1/104 (0%)
Frame = +1
Query: 97 LGPNIIETIKTKLLSEVEGICTPNYGFIIAVISIDKIGDGVVQQGRGFTLIPIEYKAIVF 276
L +I E + KL ++V N G I + I K+ D V G G + + ++ +VF
Sbjct: 22 LNDSIAEELNKKLANKV----VYNVGLCICLFDITKLEDAYVFPGDGASHTKVHFRYVVF 77
Query: 277 RQFVGEVLDAVVYNVTKIGIFAMAGAF-QIFISVYAVPQNFQYD 405
F+ E+L + + G+ G F I I ++ Q ++D
Sbjct: 78 HPFLDEILIGKIKGCSPEGVHVSLGFFDDILIPPESLQQPAKFD 121
Database: Non-redundant SwissProt sequences
Posted date: Dec 6, 2005 7:40 AM
Number of letters in database: 68,354,980
Number of sequences in database: 184,735
Database: swissprot.01
Posted date: Dec 6, 2005 8:18 AM
Number of letters in database: 66,202,850
Number of sequences in database: 184,431
Lambda K H
0.318 0.134 0.401
Gapped
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 61,737,280
Number of Sequences: 369166
Number of extensions: 1162157
Number of successful extensions: 2900
Number of sequences better than 10.0: 10
Number of HSP's better than 10.0 without gapping: 2812
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 0
Number of HSP's gapped (non-prelim): 2894
length of database: 68,354,980
effective HSP length: 105
effective length of database: 48,957,805
effective search space used: 4748907085
frameshift window, decay const: 40, 0.1
T: 12
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)