BLASTP 2.2.26 [Sep-21-2011]
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.
Reference for compositional score matrix adjustment: Altschul, Stephen F.,
John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis,
Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches
using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109.
Query= 030846
(170 letters)
Database: swissprot
539,616 sequences; 191,569,459 total letters
Searching..................................................done
>sp|B0BNE2|RPAB1_RAT DNA-directed RNA polymerases I, II, and III subunit RPABC1
OS=Rattus norvegicus GN=Polr2e PE=2 SV=1
Length = 210
Score = 161 bits (408), Expect = 2e-39, Method: Compositional matrix adjust.
Identities = 78/168 (46%), Positives = 117/168 (69%), Gaps = 5/168 (2%)
Query: 5 DEEIKRLFRIRRTVMQMLRDRGYFVGDFEINMSKEQFIAKFGENM-----KREDLVINKA 59
+EE RL++IR+T+MQ+ DRGY V E++ + E+F A+FG+ +R DL + A
Sbjct: 4 EEETYRLWKIRKTIMQLCHDRGYLVTQDELDQTLEEFKAQFGDKPSEGRPRRTDLTVLVA 63
Query: 60 LRNDSSDQIYVFFPDEQKVGVKTMKTYTNRMKSENVFRAILVVQQNLTPFARTCIQEISA 119
+D +DQ++VFFP+E KVG+KT+K Y RM+ EN+ RA++VVQQ +TP A+ + +++
Sbjct: 64 HNDDPTDQMFVFFPEEPKVGIKTIKVYCQRMQEENITRALIVVQQGMTPSAKQSLVDMAP 123
Query: 120 KFHLEVFQEAELLVNIKEHVLVPEHQVLTNEEKKTLLKRYTVKETQVS 167
K+ LE F + ELL+NI EH LVPEH V+T EE LL RY ++E+Q+
Sbjct: 124 KYVLEQFLQQELLINITEHELVPEHVVMTKEEVTELLARYKLRESQLP 171
>sp|Q80UW8|RPAB1_MOUSE DNA-directed RNA polymerases I, II, and III subunit RPABC1 OS=Mus
musculus GN=Polr2e PE=2 SV=1
Length = 210
Score = 161 bits (408), Expect = 2e-39, Method: Compositional matrix adjust.
Identities = 78/168 (46%), Positives = 117/168 (69%), Gaps = 5/168 (2%)
Query: 5 DEEIKRLFRIRRTVMQMLRDRGYFVGDFEINMSKEQFIAKFGENM-----KREDLVINKA 59
+EE RL++IR+T+MQ+ DRGY V E++ + E+F A+FG+ +R DL + A
Sbjct: 4 EEETYRLWKIRKTIMQLCHDRGYLVTQDELDQTLEEFKAQFGDKPSEGRPRRTDLTVLVA 63
Query: 60 LRNDSSDQIYVFFPDEQKVGVKTMKTYTNRMKSENVFRAILVVQQNLTPFARTCIQEISA 119
+D +DQ++VFFP+E KVG+KT+K Y RM+ EN+ RA++VVQQ +TP A+ + +++
Sbjct: 64 HNDDPTDQMFVFFPEEPKVGIKTIKVYCQRMQEENITRALIVVQQGMTPSAKQSLVDMAP 123
Query: 120 KFHLEVFQEAELLVNIKEHVLVPEHQVLTNEEKKTLLKRYTVKETQVS 167
K+ LE F + ELL+NI EH LVPEH V+T EE LL RY ++E+Q+
Sbjct: 124 KYVLEQFLQQELLINITEHELVPEHVVMTKEEVTELLARYKLRESQLP 171
>sp|Q5R587|RPAB1_PONAB DNA-directed RNA polymerases I, II, and III subunit RPABC1 OS=Pongo
abelii GN=POLR2E PE=2 SV=1
Length = 210
Score = 160 bits (405), Expect = 4e-39, Method: Compositional matrix adjust.
Identities = 78/169 (46%), Positives = 116/169 (68%), Gaps = 5/169 (2%)
Query: 4 SDEEIKRLFRIRRTVMQMLRDRGYFVGDFEINMSKEQFIAKFGENM-----KREDLVINK 58
+EE RL++IR+T+MQ+ DRGY V E++ + E+F A+FG+ +R DL +
Sbjct: 3 DEEETYRLWKIRKTIMQLCHDRGYLVTQDELDQTLEEFRAQFGDKPSEGRPRRTDLTVLV 62
Query: 59 ALRNDSSDQIYVFFPDEQKVGVKTMKTYTNRMKSENVFRAILVVQQNLTPFARTCIQEIS 118
A +D +DQ++VFFP+E KVG+KT+K Y RM+ EN+ RA++VVQQ +TP A+ + +++
Sbjct: 63 AHNDDPTDQMFVFFPEEPKVGIKTIKVYCQRMQEENITRALIVVQQGMTPSAKQSLVDMA 122
Query: 119 AKFHLEVFQEAELLVNIKEHVLVPEHQVLTNEEKKTLLKRYTVKETQVS 167
K+ LE F + ELL+NI EH LVPEH V+T EE LL RY ++E Q+
Sbjct: 123 PKYILEQFLQQELLINITEHELVPEHVVMTKEEVTELLARYKLRENQLP 171
>sp|Q9N5K2|RPAB1_CAEEL DNA-directed RNA polymerases I, II, and III subunit RPABC1
OS=Caenorhabditis elegans GN=rpb-5 PE=3 SV=1
Length = 211
Score = 159 bits (402), Expect = 9e-39, Method: Compositional matrix adjust.
Identities = 78/172 (45%), Positives = 118/172 (68%), Gaps = 7/172 (4%)
Query: 3 LSDEEIK--RLFRIRRTVMQMLRDRGYFVGDFEINMSKEQFIAKFGE-----NMKREDLV 55
++D+E++ RL+RIR+TV+QM+ DRGY V E++ E F ++G+ R DL
Sbjct: 1 MADDELETYRLWRIRKTVLQMVHDRGYLVAQDELDQPLETFKVQYGDRPSEKKPARSDLT 60
Query: 56 INKALRNDSSDQIYVFFPDEQKVGVKTMKTYTNRMKSENVFRAILVVQQNLTPFARTCIQ 115
I A +D +DQ++VFFP++ K+G+KT+K +M+ +N+ RAI+VVQ +TP A+ I
Sbjct: 61 ILVAHNDDPADQMFVFFPEDAKIGIKTIKAICQQMQEQNISRAIIVVQTGMTPSAKQSIG 120
Query: 116 EISAKFHLEVFQEAELLVNIKEHVLVPEHQVLTNEEKKTLLKRYTVKETQVS 167
+++ K+ LE F EAEL+VNI EH LVPEH V+T EEK LL RY +K++Q+
Sbjct: 121 DMAPKYMLEHFLEAELMVNITEHELVPEHVVMTAEEKAELLARYKLKDSQLP 172
>sp|A8XGH1|RPAB1_CAEBR DNA-directed RNA polymerases I, II, and III subunit RPABC1
OS=Caenorhabditis briggsae GN=rpb-5 PE=3 SV=1
Length = 211
Score = 158 bits (400), Expect = 1e-38, Method: Compositional matrix adjust.
Identities = 79/172 (45%), Positives = 117/172 (68%), Gaps = 7/172 (4%)
Query: 3 LSDEEIK--RLFRIRRTVMQMLRDRGYFVGDFEINMSKEQFIAKFGENMK-----REDLV 55
++D+E++ RL+RIR+TV+QM+ DRGY V E++ E F FG+ R DL
Sbjct: 1 MADDELETYRLWRIRKTVLQMVHDRGYLVAQEELDQPLETFKETFGDRPSEKKPARSDLT 60
Query: 56 INKALRNDSSDQIYVFFPDEQKVGVKTMKTYTNRMKSENVFRAILVVQQNLTPFARTCIQ 115
I A +D +DQ++VFFP++ K+G+KT+K +M+ +N+ RAI+VVQ +TP A+ I
Sbjct: 61 ILVAHNDDPADQMFVFFPEDTKIGIKTIKAICQQMQEQNISRAIIVVQTGMTPSAKQSIG 120
Query: 116 EISAKFHLEVFQEAELLVNIKEHVLVPEHQVLTNEEKKTLLKRYTVKETQVS 167
+++ K+ LE F EAEL+VNI EH LVPEH V+T EEK LL RY +K++Q+
Sbjct: 121 DMAPKYMLEHFLEAELMVNITEHELVPEHVVMTAEEKAELLARYKLKDSQLP 172
>sp|P19388|RPAB1_HUMAN DNA-directed RNA polymerases I, II, and III subunit RPABC1 OS=Homo
sapiens GN=POLR2E PE=1 SV=4
Length = 210
Score = 157 bits (397), Expect = 3e-38, Method: Compositional matrix adjust.
Identities = 77/168 (45%), Positives = 115/168 (68%), Gaps = 5/168 (2%)
Query: 5 DEEIKRLFRIRRTVMQMLRDRGYFVGDFEINMSKEQFIAKFGENM-----KREDLVINKA 59
+EE RL++IR+T+MQ+ DRGY V E++ + E+F A+ G+ +R DL + A
Sbjct: 4 EEETYRLWKIRKTIMQLCHDRGYLVTQDELDQTLEEFKAQSGDKPSEGRPRRTDLTVLVA 63
Query: 60 LRNDSSDQIYVFFPDEQKVGVKTMKTYTNRMKSENVFRAILVVQQNLTPFARTCIQEISA 119
+D +DQ++VFFP+E KVG+KT+K Y RM+ EN+ RA++VVQQ +TP A+ + +++
Sbjct: 64 HNDDPTDQMFVFFPEEPKVGIKTIKVYCQRMQEENITRALIVVQQGMTPSAKQSLVDMAP 123
Query: 120 KFHLEVFQEAELLVNIKEHVLVPEHQVLTNEEKKTLLKRYTVKETQVS 167
K+ LE F + ELL+NI EH LVPEH V+T EE LL RY ++E Q+
Sbjct: 124 KYILEQFLQQELLINITEHELVPEHVVMTKEEVTELLARYKLRENQLP 171
>sp|Q2T9T3|RPAB1_BOVIN DNA-directed RNA polymerases I, II, and III subunit RPABC1 OS=Bos
taurus GN=POLR2E PE=2 SV=1
Length = 210
Score = 157 bits (396), Expect = 4e-38, Method: Compositional matrix adjust.
Identities = 77/168 (45%), Positives = 114/168 (67%), Gaps = 5/168 (2%)
Query: 5 DEEIKRLFRIRRTVMQMLRDRGYFVGDFEINMSKEQFIAKFGENM-----KREDLVINKA 59
+EE RL++IR+T+MQ+ DRGY V ++ + E+F A+FG +R DL + A
Sbjct: 4 EEETYRLWKIRKTIMQLCHDRGYLVTQDGLDQTLEEFKAQFGGKPSEGRPRRTDLTVLVA 63
Query: 60 LRNDSSDQIYVFFPDEQKVGVKTMKTYTNRMKSENVFRAILVVQQNLTPFARTCIQEISA 119
+D +DQ++VFFP+E KVG+KT+K Y RM+ EN+ RA++VVQQ +TP A+ + +++
Sbjct: 64 HNDDPTDQMFVFFPEEPKVGIKTIKVYCQRMQEENITRALIVVQQGMTPSAKQSLVDMAP 123
Query: 120 KFHLEVFQEAELLVNIKEHVLVPEHQVLTNEEKKTLLKRYTVKETQVS 167
K+ LE F + ELL+NI EH LVPEH V+T EE LL RY ++E Q+
Sbjct: 124 KYILEQFLQQELLINITEHELVPEHVVMTKEEVTELLARYKLRENQLP 171
>sp|Q54EH2|RPAB1_DICDI DNA-directed RNA polymerases I, II, and III subunit rpabc1
OS=Dictyostelium discoideum GN=polr2e PE=3 SV=2
Length = 197
Score = 147 bits (372), Expect = 3e-35, Method: Compositional matrix adjust.
Identities = 80/164 (48%), Positives = 105/164 (64%), Gaps = 9/164 (5%)
Query: 6 EEIKRLFRIRRTVMQMLRDRGYFVGDFEINMSKEQFIAKFGENMKREDLVINKALRNDSS 65
E+I RL +IR+TV+QML DR Y + +E +E F++ RE+L + ++D +
Sbjct: 2 EDINRLLQIRKTVLQMLSDREYIITAYEQEYPRESFVS-------RENLTMYCVKKDDPT 54
Query: 66 DQIYVFFPDEQKVGVKTMKTYTNRMKSENVFRAILVVQQNLTPFARTCIQEIS--AKFHL 123
D IYVFFPD KVGV +K Y + MK RAI+VVQQN+TPFA+ + E S K L
Sbjct: 55 DSIYVFFPDTPKVGVTQIKKYVDIMKDRQANRAIIVVQQNITPFAKQALAEFSQEKKITL 114
Query: 124 EVFQEAELLVNIKEHVLVPEHQVLTNEEKKTLLKRYTVKETQVS 167
E F EAELLVNI H LVP+H +LT EEK LL RY +KE+Q+
Sbjct: 115 EQFNEAELLVNITHHQLVPKHILLTKEEKLELLTRYKMKESQLP 158
>sp|Q09191|RPAB1_SCHPO DNA-directed RNA polymerases I, II, and III subunit RPABC1
OS=Schizosaccharomyces pombe (strain 972 / ATCC 24843)
GN=rpb5 PE=1 SV=1
Length = 210
Score = 122 bits (305), Expect = 2e-27, Method: Compositional matrix adjust.
Identities = 64/170 (37%), Positives = 101/170 (59%), Gaps = 4/170 (2%)
Query: 1 MTLSDEEIKRLFRIRRTVMQMLRDRGYFVGDFEINMSKEQFIA---KFGENMKREDLVIN 57
M+ ++ I R+FR +T Q++ DRGY V E++++ +QF A G N+ R L
Sbjct: 1 MSAEEKNIVRVFRAWKTAHQLVHDRGYGVSQAELDLTLDQFKAMHCGMGRNLDRTTLSFY 60
Query: 58 KALRNDSS-DQIYVFFPDEQKVGVKTMKTYTNRMKSENVFRAILVVQQNLTPFARTCIQE 116
NDS+ IY+ F E VG+K M+T+ + + N IL+ ++TP A I
Sbjct: 61 AKPSNDSNKGTIYIEFAKEPSVGIKEMRTFVHTLGDHNHKTGILIYANSMTPSAAKIIAT 120
Query: 117 ISAKFHLEVFQEAELLVNIKEHVLVPEHQVLTNEEKKTLLKRYTVKETQV 166
++ +F +E FQE++L+VNI H LVP+H +L+ +EKK LL RY ++ETQ+
Sbjct: 121 VTGQFTIETFQESDLIVNITHHELVPKHILLSPDEKKELLDRYKLRETQL 170
>sp|P20434|RPAB1_YEAST DNA-directed RNA polymerases I, II, and III subunit RPABC1
OS=Saccharomyces cerevisiae (strain ATCC 204508 / S288c)
GN=RPB5 PE=1 SV=1
Length = 215
Score = 115 bits (288), Expect = 2e-25, Method: Compositional matrix adjust.
Identities = 67/169 (39%), Positives = 97/169 (57%), Gaps = 10/169 (5%)
Query: 8 IKRLFRIRRTVMQMLRDRGYFVGDFEINMSKEQFIAKFGENMKREDLVINKALRNDSSDQ 67
I RL+R RTV +M++DRGYF+ E+ + E F AK+ ++M R + N + +
Sbjct: 9 ISRLWRAFRTVKEMVKDRGYFITQEEVELPLEDFKAKYCDSMGRPQRKMMSFQANPTEES 68
Query: 68 I---------YVFFPDEQKVGVKTMKTYTNRMKSENVFRAILVVQQNLTPFARTCIQEIS 118
I +V F DE VGVKTMKT+ ++ +N I V Q N+TP A + I
Sbjct: 69 ISKFPDMGSLWVEFCDEPSVGVKTMKTFVIHIQEKNFQTGIFVYQNNITPSAMKLVPSIP 128
Query: 119 AKFHLEVFQEAELLVNIKEHVLVPEHQVLTNEEKKTLLKRYTVKETQVS 167
+E F EA L+VNI H LVP+H L+++EK+ LLKRY +KE+Q+
Sbjct: 129 PA-TIETFNEAALVVNITHHELVPKHIRLSSDEKRELLKRYRLKESQLP 176
>sp|Q6FQA6|RPAB1_CANGA DNA-directed RNA polymerases I, II, and III subunit RPABC1
OS=Candida glabrata (strain ATCC 2001 / CBS 138 / JCM
3761 / NBRC 0622 / NRRL Y-65) GN=RPB5 PE=3 SV=1
Length = 215
Score = 113 bits (283), Expect = 5e-25, Method: Compositional matrix adjust.
Identities = 66/173 (38%), Positives = 96/173 (55%), Gaps = 10/173 (5%)
Query: 4 SDEEIKRLFRIRRTVMQMLRDRGYFVGDFEINMSKEQFIAKFGENMKREDLVINKALRND 63
+D I RL+R RTV +M+RDRGYF+ E++++ E F K+ ++M R + N
Sbjct: 5 NDRSISRLWRTFRTVKEMVRDRGYFIAQEELDLTLEDFKVKYCDSMGRAQRKMMSFQANP 64
Query: 64 SSDQ---------IYVFFPDEQKVGVKTMKTYTNRMKSENVFRAILVVQQNLTPFARTCI 114
+ + ++V F DE VGVKTMKT+ ++ + I + Q N+TP A +
Sbjct: 65 TEESMTKFPDMGTLWVEFCDEPSVGVKTMKTFVIHIQEKQFQTGIFIYQNNITPSAMKLV 124
Query: 115 QEISAKFHLEVFQEAELLVNIKEHVLVPEHQVLTNEEKKTLLKRYTVKETQVS 167
I +E F EA L+VNI H LVP+H L EEK LLKRY +KE+Q+
Sbjct: 125 PSIPPA-TIETFHEAALVVNITHHDLVPKHIRLNEEEKAELLKRYRLKESQLP 176
>sp|Q757H7|RPAB1_ASHGO DNA-directed RNA polymerases I, II, and III subunit RPABC1
OS=Ashbya gossypii (strain ATCC 10895 / CBS 109.51 /
FGSC 9923 / NRRL Y-1056) GN=RPB5 PE=3 SV=1
Length = 215
Score = 112 bits (281), Expect = 9e-25, Method: Compositional matrix adjust.
Identities = 64/169 (37%), Positives = 96/169 (56%), Gaps = 10/169 (5%)
Query: 8 IKRLFRIRRTVMQMLRDRGYFVGDFEINMSKEQFIAKFGENMKREDLVINKALRNDSSD- 66
+ RL+R RTV +M+RDRGYF+ E+++S E F AK+ ++M R + N + +
Sbjct: 9 VSRLWRAFRTVKEMVRDRGYFITQEEVDLSLEDFKAKYCDSMGRPQRKMMSFQSNPTEET 68
Query: 67 --------QIYVFFPDEQKVGVKTMKTYTNRMKSENVFRAILVVQQNLTPFARTCIQEIS 118
++V F DE VG+KTMK + + +N I + Q +TP A + +
Sbjct: 69 LKKSPNMGSVWVEFCDEPSVGIKTMKNFVIHIGEKNFQTGIFIYQNGITPSALKLLPSV- 127
Query: 119 AKFHLEVFQEAELLVNIKEHVLVPEHQVLTNEEKKTLLKRYTVKETQVS 167
A +E F E L+VNI H LVP+H L++EEKK LLKRY +KE+Q+
Sbjct: 128 APATIETFNETALVVNITHHELVPKHIKLSDEEKKELLKRYRLKESQLP 176
>sp|Q9P4B9|RPAB1_KLUMA DNA-directed RNA polymerases I, II, and III subunit RPABC1
OS=Kluyveromyces marxianus GN=RPB5 PE=3 SV=1
Length = 215
Score = 111 bits (278), Expect = 2e-24, Method: Compositional matrix adjust.
Identities = 67/169 (39%), Positives = 95/169 (56%), Gaps = 10/169 (5%)
Query: 8 IKRLFRIRRTVMQMLRDRGYFVGDFEINMSKEQFIAKFGENMKREDLVINKALRNDSSDQ 67
I RL+R RTV +M+RDRGYF+ EI++S E F K+ ++M + + N + +
Sbjct: 9 ISRLWRAFRTVKEMVRDRGYFITQEEIDLSLEDFKVKYCDSMGKPQRKMMSFQSNPTEES 68
Query: 68 I---------YVFFPDEQKVGVKTMKTYTNRMKSENVFRAILVVQQNLTPFARTCIQEIS 118
I +V F DE VGVKTMK + + +N I + Q +TP A I +
Sbjct: 69 IEKFPEMGSLWVEFCDEASVGVKTMKNFVVHITEKNFQTGIFIYQSGITPSANK-ILPTA 127
Query: 119 AKFHLEVFQEAELLVNIKEHVLVPEHQVLTNEEKKTLLKRYTVKETQVS 167
A +E F EA L+VNI H LVP+H L++ EKK LLKRY +KE+Q+
Sbjct: 128 APAVIETFPEASLVVNITHHELVPKHIRLSDAEKKELLKRYRLKESQLP 176
>sp|Q6CJ62|RPAB1_KLULA DNA-directed RNA polymerases I, II, and III subunit RPABC1
OS=Kluyveromyces lactis (strain ATCC 8585 / CBS 2359 /
DSM 70799 / NBRC 1267 / NRRL Y-1140 / WM37) GN=RPB5 PE=3
SV=1
Length = 215
Score = 111 bits (278), Expect = 2e-24, Method: Compositional matrix adjust.
Identities = 67/168 (39%), Positives = 95/168 (56%), Gaps = 10/168 (5%)
Query: 8 IKRLFRIRRTVMQMLRDRGYFVGDFEINMSKEQFIAKFGENMKREDLVINKALRNDSSDQ 67
I RL+R +TV +M+RDRGYF+ EI++S E F AK+ ++M + + N + +
Sbjct: 9 ISRLWRAFKTVKEMVRDRGYFITQEEIDLSLEDFKAKYCDSMGKPQRKMMSFQSNPTEES 68
Query: 68 I---------YVFFPDEQKVGVKTMKTYTNRMKSENVFRAILVVQQNLTPFARTCIQEIS 118
I +V F DE VGVKTMK + + +N I + Q +TP A I +
Sbjct: 69 IEKFPEMGSLWVEFCDEASVGVKTMKNFVVHITEKNFQTGIFIYQSGITPSANK-ILPTA 127
Query: 119 AKFHLEVFQEAELLVNIKEHVLVPEHQVLTNEEKKTLLKRYTVKETQV 166
A +E F EA L+VNI H LVP+H L+ EKK LLKRY +KE+Q+
Sbjct: 128 APAVIETFPEASLVVNITHHELVPKHIRLSEAEKKELLKRYRLKESQL 175
>sp|Q6BIJ0|RPAB1_DEBHA DNA-directed RNA polymerases I, II, and III subunit RPABC1
OS=Debaryomyces hansenii (strain ATCC 36239 / CBS 767 /
JCM 1990 / NBRC 0083 / IGC 2968) GN=RPB5 PE=3 SV=1
Length = 214
Score = 108 bits (270), Expect = 2e-23, Method: Compositional matrix adjust.
Identities = 64/175 (36%), Positives = 100/175 (57%), Gaps = 10/175 (5%)
Query: 1 MTLSDEEIKRLFRIRRTVMQMLRDRGYFVGDFEINMSKEQFIAKFGE--NMKREDLVINK 58
M +D I RL+R +TV +M+RDRGY++ EI+MS +F ++ + N+ + L+ +
Sbjct: 1 MEDTDRTISRLWRSFKTVKEMVRDRGYYITQEEIDMSLAEFRSRICDSMNVPQRKLMCFQ 60
Query: 59 ALRNDSS-------DQIYVFFPDEQKVGVKTMKTYTNRMKSENVFRAILVVQQNLTPFAR 111
A S ++V F DE VG+KTM+ + + +N I + Q ++TP A
Sbjct: 61 ANPTAESLEKFPDLGSLWVEFCDEASVGIKTMRNFCIHISEKNFSTGIFIYQSSITPSAN 120
Query: 112 TCIQEISAKFHLEVFQEAELLVNIKEHVLVPEHQVLTNEEKKTLLKRYTVKETQV 166
I +S +E FQE +L+VNI H LVP+H L +EKK LL+RY +KE+Q+
Sbjct: 121 KLIPTVSPA-SIETFQEGDLVVNITHHDLVPKHIKLARDEKKELLERYRLKESQL 174
>sp|Q6CA26|RPAB1_YARLI DNA-directed RNA polymerases I, II, and III subunit RPABC1
OS=Yarrowia lipolytica (strain CLIB 122 / E 150) GN=RPB5
PE=3 SV=1
Length = 212
Score = 105 bits (261), Expect = 2e-22, Method: Compositional matrix adjust.
Identities = 65/178 (36%), Positives = 105/178 (58%), Gaps = 18/178 (10%)
Query: 3 LSDEEIKRLFRIRRTVMQMLRDRGYFVGDFEINMSKEQFIAKFGENMKREDLVINKALRN 62
+S ++ ++L+++ RT ++++DRGY + D E+N+S +QF+++ + M + I K +
Sbjct: 1 MSSDDAQKLWKVYRTAKELVKDRGYTITDKEVNLSFDQFVSEMCDPMGKP---IKKKMCF 57
Query: 63 DSSDQ------------IYVFFPDEQKVGVKTMKTYTNRMKSENVFR-AILVVQQNLTPF 109
+S I+V F +E V VKTM+ + + SEN F ILV + N+TP
Sbjct: 58 MASPSPEAIEKFPEMGNIWVEFCEEASVTVKTMRNFCIHI-SENKFATGILVYENNMTPS 116
Query: 110 ARTCIQEISAKFHLEVFQEAELLVNIKEHVLVPEHQVLTNEEKKTLLKRYTVKETQVS 167
A I + A ++ FQE +LLVNI +HVLVP H L+ EKK LL+RY +KE+Q+
Sbjct: 117 ANRLIPSV-APATIDTFQETDLLVNITKHVLVPTHIKLSGAEKKFLLERYRLKESQLP 173
>sp|O74019|RPOH_PYRHO DNA-directed RNA polymerase subunit H OS=Pyrococcus horikoshii
(strain ATCC 700860 / DSM 12428 / JCM 9974 / NBRC 100139
/ OT-3) GN=rpoH PE=3 SV=1
Length = 82
Score = 43.5 bits (101), Expect = 7e-04, Method: Compositional matrix adjust.
Identities = 18/34 (52%), Positives = 26/34 (76%)
Query: 134 NIKEHVLVPEHQVLTNEEKKTLLKRYTVKETQVS 167
NI +HVLVPEH++L+ EEKK LL++Y + Q+
Sbjct: 8 NIFKHVLVPEHRILSEEEKKALLEKYKITPAQLP 41
>sp|Q9V116|RPOH_PYRAB DNA-directed RNA polymerase subunit H OS=Pyrococcus abyssi (strain
GE5 / Orsay) GN=rpoH PE=3 SV=1
Length = 82
Score = 43.1 bits (100), Expect = 8e-04, Method: Compositional matrix adjust.
Identities = 18/34 (52%), Positives = 26/34 (76%)
Query: 134 NIKEHVLVPEHQVLTNEEKKTLLKRYTVKETQVS 167
NI +HVLVPEH++L+ EEKK LL++Y + Q+
Sbjct: 8 NIFKHVLVPEHRILSEEEKKALLEKYRITPAQLP 41
>sp|C6A1F8|RPOH_THESM DNA-directed RNA polymerase subunit H OS=Thermococcus sibiricus
(strain MM 739 / DSM 12597) GN=rpoH PE=3 SV=1
Length = 82
Score = 41.6 bits (96), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 18/35 (51%), Positives = 27/35 (77%)
Query: 133 VNIKEHVLVPEHQVLTNEEKKTLLKRYTVKETQVS 167
+ I +HVLVPEH+VL+ EE + LLK+Y +K +Q+
Sbjct: 7 LTIFDHVLVPEHRVLSKEETEELLKKYNIKPSQLP 41
>sp|Q8U0M2|RPOH_PYRFU DNA-directed RNA polymerase subunit H OS=Pyrococcus furiosus
(strain ATCC 43587 / DSM 3638 / JCM 8422 / Vc1) GN=rpoH
PE=3 SV=1
Length = 82
Score = 41.2 bits (95), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 18/34 (52%), Positives = 26/34 (76%)
Query: 134 NIKEHVLVPEHQVLTNEEKKTLLKRYTVKETQVS 167
+I +HVLVPEH+VL+ EEKK LL++Y + Q+
Sbjct: 8 SIFDHVLVPEHRVLSEEEKKALLEKYKITLAQLP 41
>sp|P31815|RPOH_THECE DNA-directed RNA polymerase subunit H OS=Thermococcus celer GN=rpoH
PE=3 SV=1
Length = 82
Score = 37.4 bits (85), Expect = 0.046, Method: Compositional matrix adjust.
Identities = 16/34 (47%), Positives = 25/34 (73%)
Query: 134 NIKEHVLVPEHQVLTNEEKKTLLKRYTVKETQVS 167
+I H LVPEH++L+ EE K LL+RY ++ +Q+
Sbjct: 8 DIFAHELVPEHRILSEEETKELLRRYRIQISQLP 41
>sp|Q58443|RPOH_METJA DNA-directed RNA polymerase subunit H OS=Methanocaldococcus
jannaschii (strain ATCC 43067 / DSM 2661 / JAL-1 / JCM
10045 / NBRC 100440) GN=rpoH PE=1 SV=1
Length = 78
Score = 35.0 bits (79), Expect = 0.26, Method: Compositional matrix adjust.
Identities = 13/33 (39%), Positives = 24/33 (72%)
Query: 135 IKEHVLVPEHQVLTNEEKKTLLKRYTVKETQVS 167
+ +H+LVP+H+++ EE + +LKRY +K Q+
Sbjct: 3 VTDHILVPKHEIVPKEEVEEILKRYNIKIQQLP 35
>sp|A3DMP2|RPOH_STAMF DNA-directed RNA polymerase subunit H OS=Staphylothermus marinus
(strain ATCC 43588 / DSM 3639 / F1) GN=rpoH PE=3 SV=1
Length = 91
Score = 33.5 bits (75), Expect = 0.67, Method: Compositional matrix adjust.
Identities = 15/34 (44%), Positives = 22/34 (64%)
Query: 134 NIKEHVLVPEHQVLTNEEKKTLLKRYTVKETQVS 167
NI EH LVP+H+VL+ E LL++ +K Q+
Sbjct: 7 NILEHELVPKHEVLSVREAAELLRKLKIKPAQLP 40
>sp|Q979F2|RPOH_THEVO DNA-directed RNA polymerase subunit H OS=Thermoplasma volcanium
(strain ATCC 51530 / DSM 4299 / JCM 9571 / NBRC 15438 /
GSS1) GN=rpoH PE=3 SV=2
Length = 87
Score = 33.1 bits (74), Expect = 0.78, Method: Compositional matrix adjust.
Identities = 13/28 (46%), Positives = 21/28 (75%)
Query: 134 NIKEHVLVPEHQVLTNEEKKTLLKRYTV 161
N+ +H LVPEH +++ EE+KT+LK +
Sbjct: 5 NVLDHNLVPEHHIVSEEEEKTILKELGI 32
>sp|A9A458|RPOH_NITMS DNA-directed RNA polymerase subunit H OS=Nitrosopumilus maritimus
(strain SCM1) GN=rpoH PE=3 SV=1
Length = 83
Score = 32.3 bits (72), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 10/33 (30%), Positives = 23/33 (69%)
Query: 135 IKEHVLVPEHQVLTNEEKKTLLKRYTVKETQVS 167
+ +H+ VP+H++++ E + +LK+Y K T++
Sbjct: 10 VPDHIYVPKHEIISKTEAEEVLKKYNCKPTELP 42
>sp|P42592|YGJK_ECOLI Uncharacterized protein YgjK OS=Escherichia coli (strain K12)
GN=ygjK PE=1 SV=1
Length = 783
Score = 32.3 bits (72), Expect = 1.6, Method: Composition-based stats.
Identities = 21/97 (21%), Positives = 43/97 (44%), Gaps = 5/97 (5%)
Query: 38 KEQFIAKFGENMKREDLVINKALRNDSSDQIYVFFPDEQKVGVKTMKTYTNRMKSENVFR 97
+ + KF EN ++ ++ +L +S DQ + D + M T + + +R
Sbjct: 547 RSDWTVKFAENRSQDGTLLGYSLLQESVDQASYMYSDNHYLA--EMATILGKPEEAKRYR 604
Query: 98 AILVVQQNLTPFARTCIQEISAKFHLEVFQEAELLVN 134
+ Q L + TC+ + + +F+ +V E + L N
Sbjct: 605 QL---AQQLADYINTCMFDPTTQFYYDVRIEDKPLAN 638
>sp|Q9USZ4|RPA34_SCHPO DNA-directed RNA polymerase I subunit rpa34 OS=Schizosaccharomyces
pombe (strain 972 / ATCC 24843) GN=rpa34 PE=1 SV=1
Length = 251
Score = 32.0 bits (71), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 29/90 (32%), Positives = 39/90 (43%), Gaps = 9/90 (10%)
Query: 60 LRNDSSDQIYVFFPDEQKV----GVKTMKTYTNRMK-SENVFRAILV-VQQNLTPFARTC 113
+R +S+ + VF PDEQ +KT T K S+N+ I + Q L P +
Sbjct: 112 IREESTSSVRVFLPDEQGSYTSNEIKTGYVITETPKISQNIDTGITIPTQAPLVPQRKNL 171
Query: 114 IQ---EISAKFHLEVFQEAELLVNIKEHVL 140
Q I E EAE IKEH+L
Sbjct: 172 RQHFRPIGDAVGPESEPEAEPKSGIKEHIL 201
>sp|A7Z5Z6|CCA_BACA2 CCA-adding enzyme OS=Bacillus amyloliquefaciens (strain FZB42)
GN=cca PE=3 SV=1
Length = 396
Score = 32.0 bits (71), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 29/111 (26%), Positives = 48/111 (43%), Gaps = 19/111 (17%)
Query: 2 TLSDEEIKRLFRI-------RRTVMQMLRDRGYFVGDFEINMSKE--------QFIAKFG 46
+ S E++RLF+ TV+ + D Y V F + +FI
Sbjct: 46 SASPNEVERLFKRTVDVGKEHGTVIVLWEDETYEVTTFRAESEYKDYRRPEAVRFITSLS 105
Query: 47 ENMKREDLVINKALRNDSSDQIYVFFPDEQKVGVKTMKTYTNRMKSENVFR 97
E++KR DL IN A+ + ++ +F +G K ++T N E+ FR
Sbjct: 106 EDLKRRDLTIN-AMAMSAEGELLDYFGGAHDIGQKLIRTVGN---PEDRFR 152
>sp|O28394|RPOH_ARCFU DNA-directed RNA polymerase subunit H OS=Archaeoglobus fulgidus
(strain ATCC 49558 / VC-16 / DSM 4304 / JCM 9628 / NBRC
100126) GN=rpoH PE=3 SV=1
Length = 76
Score = 32.0 bits (71), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 13/34 (38%), Positives = 24/34 (70%)
Query: 134 NIKEHVLVPEHQVLTNEEKKTLLKRYTVKETQVS 167
+++H+LVP+H+VL+ EE + LLK + + Q+
Sbjct: 4 KLQDHMLVPKHEVLSKEEAEELLKILGIGKEQLP 37
>sp|A2SSM7|RPOH_METLZ DNA-directed RNA polymerase subunit H OS=Methanocorpusculum
labreanum (strain ATCC 43576 / DSM 4855 / Z) GN=rpoH
PE=3 SV=1
Length = 82
Score = 31.6 bits (70), Expect = 2.6, Method: Compositional matrix adjust.
Identities = 12/35 (34%), Positives = 23/35 (65%)
Query: 133 VNIKEHVLVPEHQVLTNEEKKTLLKRYTVKETQVS 167
+N+ H +VP+HQ++T+E+ K LL + + E +
Sbjct: 4 LNVLLHEMVPDHQIMTDEDVKNLLTTFDITEDHLP 38
>sp|P0CX06|RPOH_HALSA DNA-directed RNA polymerase subunit H OS=Halobacterium salinarum
(strain ATCC 700922 / JCM 11081 / NRC-1) GN=rpoH PE=3
SV=1
Length = 75
Score = 31.2 bits (69), Expect = 3.7, Method: Compositional matrix adjust.
Identities = 13/36 (36%), Positives = 21/36 (58%)
Query: 132 LVNIKEHVLVPEHQVLTNEEKKTLLKRYTVKETQVS 167
+V++ +H LVPEH VL E +L Y + T++
Sbjct: 1 MVDVSQHELVPEHTVLDEETLDGVLADYDIDRTELP 36
>sp|B0R8D7|RPOH_HALS3 DNA-directed RNA polymerase subunit H OS=Halobacterium salinarum
(strain ATCC 29341 / DSM 671 / R1) GN=rpoH PE=3 SV=1
Length = 75
Score = 31.2 bits (69), Expect = 3.7, Method: Compositional matrix adjust.
Identities = 13/36 (36%), Positives = 21/36 (58%)
Query: 132 LVNIKEHVLVPEHQVLTNEEKKTLLKRYTVKETQVS 167
+V++ +H LVPEH VL E +L Y + T++
Sbjct: 1 MVDVSQHELVPEHTVLDEETLDGVLADYDIDRTELP 36
>sp|C5A210|RPOH_THEGJ DNA-directed RNA polymerase subunit H OS=Thermococcus gammatolerans
(strain DSM 15229 / JCM 11827 / EJ3) GN=rpoH PE=3 SV=1
Length = 82
Score = 31.2 bits (69), Expect = 3.8, Method: Compositional matrix adjust.
Identities = 15/30 (50%), Positives = 24/30 (80%)
Query: 138 HVLVPEHQVLTNEEKKTLLKRYTVKETQVS 167
H LVPEH+V++ EEK+ LL+RY ++ +Q+
Sbjct: 12 HELVPEHRVISEEEKEELLRRYRIRLSQLP 41
>sp|A2BN32|RPOH_HYPBU DNA-directed RNA polymerase subunit H OS=Hyperthermus butylicus
(strain DSM 5456 / JCM 9403) GN=rpoH PE=3 SV=1
Length = 83
Score = 30.8 bits (68), Expect = 3.9, Method: Compositional matrix adjust.
Identities = 13/34 (38%), Positives = 21/34 (61%)
Query: 134 NIKEHVLVPEHQVLTNEEKKTLLKRYTVKETQVS 167
NI EH LVP+H+V+ EE +++ V+ Q+
Sbjct: 9 NILEHELVPKHEVVPPEEAARIIRELGVRPEQLP 42
>sp|Q84GK0|EATA_ECOH1 Serine protease EatA OS=Escherichia coli O78:H11 (strain H10407 /
ETEC) GN=eatA PE=1 SV=1
Length = 1364
Score = 30.8 bits (68), Expect = 4.5, Method: Composition-based stats.
Identities = 18/68 (26%), Positives = 35/68 (51%)
Query: 97 RAILVVQQNLTPFARTCIQEISAKFHLEVFQEAELLVNIKEHVLVPEHQVLTNEEKKTLL 156
RA L Q +L T +Q+ S K H + +++ +L+N+ +V V ++ E +K+
Sbjct: 1288 RAGLGYQFDLLANGETVLQDASGKKHFKGEKDSRMLMNVGTNVEVKDNMRFGLELEKSAF 1347
Query: 157 KRYTVKET 164
RY + +
Sbjct: 1348 GRYNIDNS 1355
>sp|P61519|RPOH_METMP DNA-directed RNA polymerase subunit H OS=Methanococcus maripaludis
(strain S2 / LL) GN=rpoH PE=3 SV=1
Length = 78
Score = 30.4 bits (67), Expect = 5.2, Method: Compositional matrix adjust.
Identities = 12/33 (36%), Positives = 21/33 (63%)
Query: 133 VNIKEHVLVPEHQVLTNEEKKTLLKRYTVKETQ 165
+ I H +VP H+++ EE LL++Y++K Q
Sbjct: 1 MKISSHEMVPTHEIIPREEIPLLLEKYSIKMQQ 33
>sp|Q03588|RPOH_THEAC DNA-directed RNA polymerase subunit H OS=Thermoplasma acidophilum
(strain ATCC 25905 / DSM 1728 / JCM 9062 / NBRC 15155 /
AMRC-C165) GN=rpoH PE=3 SV=1
Length = 87
Score = 30.4 bits (67), Expect = 5.4, Method: Compositional matrix adjust.
Identities = 12/28 (42%), Positives = 19/28 (67%)
Query: 134 NIKEHVLVPEHQVLTNEEKKTLLKRYTV 161
N+ +H LVPEH ++ EE+K +LK +
Sbjct: 5 NVLDHNLVPEHHIVPEEEEKNILKELNI 32
>sp|A1RWW7|RPOH_THEPD DNA-directed RNA polymerase subunit H OS=Thermofilum pendens
(strain Hrk 5) GN=rpoH PE=3 SV=1
Length = 80
Score = 30.4 bits (67), Expect = 5.8, Method: Compositional matrix adjust.
Identities = 13/34 (38%), Positives = 23/34 (67%)
Query: 134 NIKEHVLVPEHQVLTNEEKKTLLKRYTVKETQVS 167
++ EH LVP+H +L+ EE LLK +K++++
Sbjct: 6 DVLEHELVPKHVLLSKEEANRLLKAMGLKKSELP 39
>sp|A6VGU6|RPOH_METM7 DNA-directed RNA polymerase subunit H OS=Methanococcus maripaludis
(strain C7 / ATCC BAA-1331) GN=rpoH PE=3 SV=1
Length = 78
Score = 30.4 bits (67), Expect = 6.0, Method: Compositional matrix adjust.
Identities = 11/33 (33%), Positives = 20/33 (60%)
Query: 135 IKEHVLVPEHQVLTNEEKKTLLKRYTVKETQVS 167
+ H +VP H+++ EE LL++Y +K Q+
Sbjct: 3 VSSHAMVPTHEIIPREEIPLLLEKYNIKLQQLP 35
>sp|A0B555|RPOH_METTP DNA-directed RNA polymerase subunit H OS=Methanosaeta thermophila
(strain DSM 6194 / PT) GN=rpoH PE=3 SV=1
Length = 78
Score = 30.0 bits (66), Expect = 6.8, Method: Compositional matrix adjust.
Identities = 13/27 (48%), Positives = 20/27 (74%)
Query: 135 IKEHVLVPEHQVLTNEEKKTLLKRYTV 161
+++H LVPEH +LT EE + +L +Y V
Sbjct: 6 VQDHELVPEHILLTPEEAQQVLMQYGV 32
>sp|P41559|RPOH_METVS DNA-directed RNA polymerase subunit H OS=Methanococcus vannielii
(strain SB / ATCC 35089 / DSM 1224) GN=rpoH PE=3 SV=1
Length = 78
Score = 30.0 bits (66), Expect = 7.6, Method: Compositional matrix adjust.
Identities = 11/31 (35%), Positives = 20/31 (64%)
Query: 135 IKEHVLVPEHQVLTNEEKKTLLKRYTVKETQ 165
+ H +VPEH+++ +E LL++Y +K Q
Sbjct: 3 VSSHEMVPEHEIIPGDEIPFLLEKYGIKIQQ 33
>sp|Q976A3|RPOH_SULTO DNA-directed RNA polymerase subunit H OS=Sulfolobus tokodaii
(strain DSM 16993 / JCM 10545 / NBRC 100140 / 7) GN=rpoH
PE=3 SV=2
Length = 84
Score = 30.0 bits (66), Expect = 7.7, Method: Compositional matrix adjust.
Identities = 13/34 (38%), Positives = 22/34 (64%)
Query: 133 VNIKEHVLVPEHQVLTNEEKKTLLKRYTVKETQV 166
++ +H LVP+H+VL+ EE +LK +K Q+
Sbjct: 9 IDPSQHELVPKHEVLSIEEAYKILKELGIKPEQL 42
>sp|Q2NEK1|RPOH_METST DNA-directed RNA polymerase subunit H OS=Methanosphaera stadtmanae
(strain DSM 3091) GN=rpoH PE=3 SV=1
Length = 77
Score = 29.6 bits (65), Expect = 9.7, Method: Compositional matrix adjust.
Identities = 13/34 (38%), Positives = 21/34 (61%)
Query: 134 NIKEHVLVPEHQVLTNEEKKTLLKRYTVKETQVS 167
+I +H LVPEH +L+ EE + +L V+ Q+
Sbjct: 4 DILQHKLVPEHTILSEEEAQKVLDDLNVRLDQIP 37
Database: swissprot
Posted date: Mar 23, 2013 2:32 AM
Number of letters in database: 191,569,459
Number of sequences in database: 539,616
Lambda K H
0.321 0.135 0.367
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 54,750,930
Number of Sequences: 539616
Number of extensions: 1995428
Number of successful extensions: 6414
Number of sequences better than 100.0: 50
Number of HSP's better than 100.0 without gapping: 52
Number of HSP's successfully gapped in prelim test: 27
Number of HSP's that attempted gapping in prelim test: 6337
Number of HSP's gapped (non-prelim): 80
length of query: 170
length of database: 191,569,459
effective HSP length: 109
effective length of query: 61
effective length of database: 132,751,315
effective search space: 8097830215
effective search space used: 8097830215
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 57 (26.6 bits)