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= 016880
(381 letters)
Database: swissprot
539,616 sequences; 191,569,459 total letters
Searching..................................................done
>sp|O24621|SIGC_ARATH RNA polymerase sigma factor sigC OS=Arabidopsis thaliana GN=SIGC
PE=2 SV=1
Length = 571
Score = 280 bits (716), Expect = 1e-74, Method: Compositional matrix adjust.
Identities = 170/351 (48%), Positives = 232/351 (66%), Gaps = 21/351 (5%)
Query: 32 VRGREGSFNSARLSFLSTISEDSASYFQDPVKAYTCSFVNTQTVEND-YSETEEIRQKST 90
VR S + R SFLS++ E+S Y D +KA C+ V+ T +N+ Y E ++ ++
Sbjct: 73 VRIPMTSVVATRWSFLSSVKEESRIYQNDSLKACGCASVSPYTAQNNVYVELKDPKEN-- 130
Query: 91 SCIGQDASSRS-------DFRLLMENLDVLESTFADSDALRLEREILQQLGKLGALKLFN 143
IG ++ RS + LL +NL LE TF D++R+ER+I+ Q+GKLGA +LF
Sbjct: 131 --IGVGSAERSYSSRSMLQYNLLAKNLLALEETFVALDSVRMERDIMLQMGKLGAAELFK 188
Query: 144 SHLSRIVKTSNVLDLSDVHTEEQKMNDSRDYHMGKILVPSKRKGKRKLKTARVSEESIET 203
+ LSR +S LSD TE ++ ++ V S+RK K+K + + V+ E+ +
Sbjct: 189 TCLSRYRGSSITSCLSDT-TELVDTTPNQ-----QVFVSSRRKVKKKARRSSVTAENGDQ 242
Query: 204 SLLSLPSEALQEGLKQPTIFSAERALNSRGRRLTIARNEAEMSKGVQVVANLERIKTTLE 263
S L + + P + R R +R I+RNE EMS GV++VA++ERI+T LE
Sbjct: 243 SSLPIGLRTTWNNIDVPRV---RRPPKYRKKRERISRNETEMSTGVKIVADMERIRTQLE 299
Query: 264 KESGKAASLNCWAQAAGVSERVLKQHLAFGWYCREELIKSTRPLVLFLARNYRGLGIPFS 323
+ESGK ASL+CWA AAG++E++L ++L +GWYCR+EL+KSTR LVLFLARNYRGLGI
Sbjct: 300 EESGKVASLSCWAAAAGMNEKLLMRNLHYGWYCRDELVKSTRSLVLFLARNYRGLGIAHE 359
Query: 324 DLLQAGNVGVLQGAERFDHTRGYKFSTYVQYWIRKSISKMVARHARGIKIP 374
DL+QAG VGVLQGAERFDHTRGYKFSTYVQYWIRKS+S MV+RHARG+ IP
Sbjct: 360 DLIQAGYVGVLQGAERFDHTRGYKFSTYVQYWIRKSMSTMVSRHARGVHIP 410
>sp|O22056|SIGB_ARATH RNA polymerase sigma factor sigB OS=Arabidopsis thaliana GN=SIGB
PE=2 SV=2
Length = 572
Score = 131 bits (330), Expect = 8e-30, Method: Compositional matrix adjust.
Identities = 57/140 (40%), Positives = 96/140 (68%)
Query: 235 RLTIARNEAEMSKGVQVVANLERIKTTLEKESGKAASLNCWAQAAGVSERVLKQHLAFGW 294
+L R E E+S G+Q + LER++T L + SG+ + WA AAGV ++ L+Q + G
Sbjct: 271 KLLTVREEHELSAGIQDLLKLERLQTELTERSGRQPTFAQWASAAGVDQKSLRQRIHHGT 330
Query: 295 YCREELIKSTRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQY 354
C++++IKS LV+ +A+NY+G G+ DL+Q G G+++GAE+FD T+G+KFSTY +
Sbjct: 331 LCKDKMIKSNIRLVISIAKNYQGAGMNLQDLVQEGCRGLVRGAEKFDATKGFKFSTYAHW 390
Query: 355 WIRKSISKMVARHARGIKIP 374
WI++++ K ++ +R I++P
Sbjct: 391 WIKQAVRKSLSDQSRMIRLP 410
>sp|Q9LD95|SIGF_ARATH RNA polymerase sigma factor sigF, chloroplastic OS=Arabidopsis
thaliana GN=SIGF PE=1 SV=1
Length = 547
Score = 114 bits (285), Expect = 1e-24, Method: Compositional matrix adjust.
Identities = 53/147 (36%), Positives = 95/147 (64%)
Query: 234 RRLTIARNEAEMSKGVQVVANLERIKTTLEKESGKAASLNCWAQAAGVSERVLKQHLAFG 293
++L A+ EAE+ +Q + LE++KT LE ++G ++ WA+A G+S VLK + G
Sbjct: 245 KQLLTAKEEAELISHIQHLLKLEKVKTKLESQNGCEPTIGEWAEAMGISSPVLKSDIHRG 304
Query: 294 WYCREELIKSTRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQ 353
RE+LI + LV+ +A+ Y+ G+ F DLLQ G++G+++ E+F G +F+TY
Sbjct: 305 RSSREKLITANLRLVVHIAKQYQNRGLNFQDLLQEGSMGLMKSVEKFKPQSGCRFATYAY 364
Query: 354 YWIRKSISKMVARHARGIKIPVPLFLI 380
+WIR+SI K + +++R I++P ++++
Sbjct: 365 WWIRQSIRKSIFQNSRTIRLPENVYML 391
>sp|P26683|RPOD_NOSS1 RNA polymerase sigma factor RpoD OS=Nostoc sp. (strain PCC 7120 /
UTEX 2576) GN=rpoD PE=3 SV=1
Length = 390
Score = 108 bits (269), Expect = 8e-23, Method: Compositional matrix adjust.
Identities = 48/144 (33%), Positives = 90/144 (62%)
Query: 235 RLTIARNEAEMSKGVQVVANLERIKTTLEKESGKAASLNCWAQAAGVSERVLKQHLAFGW 294
RL A E E+++ + + LER++ L ++ + + WA+A + + L G
Sbjct: 93 RLLRADEEIELARKIADLLELERVRERLSEKLERDPRDSEWAEAVQLPLPAFRYRLHIGR 152
Query: 295 YCREELIKSTRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQY 354
++++++S LV+ +A+ Y G+ F DL+Q G++G+++ AE+FDH +GYKFSTY +
Sbjct: 153 RAKDKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKFDHEKGYKFSTYATW 212
Query: 355 WIRKSISKMVARHARGIKIPVPLF 378
WIR++I++ +A +R I++PV L+
Sbjct: 213 WIRQAITRAIADQSRTIRLPVHLY 236
>sp|P38023|RPOD1_SYNE7 RNA polymerase sigma factor rpoD1 OS=Synechococcus elongatus
(strain PCC 7942) GN=rpoD1 PE=3 SV=2
Length = 399
Score = 100 bits (248), Expect = 2e-20, Method: Compositional matrix adjust.
Identities = 53/151 (35%), Positives = 92/151 (60%), Gaps = 1/151 (0%)
Query: 229 LNSRGR-RLTIARNEAEMSKGVQVVANLERIKTTLEKESGKAASLNCWAQAAGVSERVLK 287
L GR RL A E E+++ + + LERI+ L ++ + S WA A +
Sbjct: 95 LQEIGRIRLLRADEEIELARQIADLLALERIRDELLEQLDRLPSDAEWAAAVDSPLDEFR 154
Query: 288 QHLAFGWYCREELIKSTRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQGAERFDHTRGYK 347
+ L G ++++++S LV+ +A+ Y G+ F DL+Q G++G+++ AE+FDH +GYK
Sbjct: 155 RRLFRGRRAKDKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKFDHEKGYK 214
Query: 348 FSTYVQYWIRKSISKMVARHARGIKIPVPLF 378
FSTY +WIR++I++ +A +R I++PV L+
Sbjct: 215 FSTYATWWIRQAITRAIADQSRTIRLPVHLY 245
>sp|Q31QG5|RPOD3_SYNE7 RNA polymerase sigma factor rpoD3 OS=Synechococcus elongatus
(strain PCC 7942) GN=rpoD3 PE=3 SV=1
Length = 320
Score = 99.0 bits (245), Expect = 6e-20, Method: Compositional matrix adjust.
Identities = 48/136 (35%), Positives = 81/136 (59%), Gaps = 1/136 (0%)
Query: 241 NEAEMSKGVQVVANLERIKTTLEKESGKAASLNC-WAQAAGVSERVLKQHLAFGWYCREE 299
E + K VQ L+ ++ TL+ E G + WA AAG+S L+Q G + +
Sbjct: 29 EEVVLGKRVQQWMKLQELRQTLQSEEGDRDPSDLEWAAAAGLSIEELRQQQHLGEQAKRK 88
Query: 300 LIKSTRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYWIRKS 359
+I++ LV+ +A+ Y + DL+Q G +G+ +G E+FD T+GY+FSTY +WIR++
Sbjct: 89 MIEANLRLVVSVAKKYLKRNMDLLDLIQEGTIGMQRGVEKFDPTKGYRFSTYAYWWIRQA 148
Query: 360 ISKMVARHARGIKIPV 375
I++ +A AR I++P+
Sbjct: 149 ITRAIAEKARTIRLPI 164
>sp|P52322|RPOD_MICAE RNA polymerase sigma factor rpoD1 OS=Microcystis aeruginosa
GN=rpoD1 PE=3 SV=1
Length = 416
Score = 97.1 bits (240), Expect = 2e-19, Method: Compositional matrix adjust.
Identities = 46/125 (36%), Positives = 75/125 (60%)
Query: 254 NLERIKTTLEKESGKAASLNCWAQAAGVSERVLKQHLAFGWYCREELIKSTRPLVLFLAR 313
L IK L K A L W + K+ L G +E++++S LV+ +A+
Sbjct: 138 KLSDIKAYLGKTELTAPLLEEWLAKSKEYLSAFKRRLYHGRRAKEKMVQSNLRLVVSIAK 197
Query: 314 NYRGLGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYWIRKSISKMVARHARGIKI 373
Y G+ F DL+Q G++G+++ AE+FDH +GYKFSTY +WIR++I++ +A +R I++
Sbjct: 198 KYMNRGLSFQDLIQEGSLGLIRAAEKFDHEKGYKFSTYATWWIRQAITRAIADQSRTIRL 257
Query: 374 PVPLF 378
PV L+
Sbjct: 258 PVHLY 262
>sp|P0A602|RPOD_MYCTU RNA polymerase sigma factor RpoD OS=Mycobacterium tuberculosis
GN=rpoD PE=1 SV=1
Length = 528
Score = 94.7 bits (234), Expect = 1e-18, Method: Compositional matrix adjust.
Identities = 40/93 (43%), Positives = 64/93 (68%), Gaps = 6/93 (6%)
Query: 294 WYCRE------ELIKSTRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQGAERFDHTRGYK 347
W CR+ L+++ LV+ LA+ Y G G+ F DL+Q GN+G+++ E+FD+T+GYK
Sbjct: 283 WICRDGDRAKNHLLEANLRLVVSLAKRYTGRGMAFLDLIQEGNLGLIRAVEKFDYTKGYK 342
Query: 348 FSTYVQYWIRKSISKMVARHARGIKIPVPLFLI 380
FSTY +WIR++I++ +A AR I+IPV + +
Sbjct: 343 FSTYATWWIRQAITRAMADQARTIRIPVHMVEV 375
>sp|P0A603|RPOD_MYCBO RNA polymerase sigma factor RpoD OS=Mycobacterium bovis (strain
ATCC BAA-935 / AF2122/97) GN=rpoD PE=3 SV=1
Length = 528
Score = 94.7 bits (234), Expect = 1e-18, Method: Compositional matrix adjust.
Identities = 40/93 (43%), Positives = 64/93 (68%), Gaps = 6/93 (6%)
Query: 294 WYCRE------ELIKSTRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQGAERFDHTRGYK 347
W CR+ L+++ LV+ LA+ Y G G+ F DL+Q GN+G+++ E+FD+T+GYK
Sbjct: 283 WICRDGDRAKNHLLEANLRLVVSLAKRYTGRGMAFLDLIQEGNLGLIRAVEKFDYTKGYK 342
Query: 348 FSTYVQYWIRKSISKMVARHARGIKIPVPLFLI 380
FSTY +WIR++I++ +A AR I+IPV + +
Sbjct: 343 FSTYATWWIRQAITRAMADQARTIRIPVHMVEV 375
>sp|P52323|RPOD_BORBU RNA polymerase sigma factor RpoD OS=Borrelia burgdorferi (strain
ATCC 35210 / B31 / CIP 102532 / DSM 4680) GN=rpoD PE=3
SV=2
Length = 631
Score = 93.6 bits (231), Expect = 2e-18, Method: Compositional matrix adjust.
Identities = 53/167 (31%), Positives = 91/167 (54%), Gaps = 25/167 (14%)
Query: 227 RALNSRGRRLTIARNEAEMSKGVQVVAN---------------LERIKTTLEKESGKAAS 271
R L GR LTIA + E+ K +++ + LERI+ E + K S
Sbjct: 317 RDLRVLGRDLTIAEKKIEIEKSLKLKEDAIKEQITEAQLAQKELERIEMYYEYPTDKIIS 376
Query: 272 LNCWAQAAGVSERVLKQHLAFGWYCREELIKSTRPLVLFLARNYRGLGIPFSDLLQAGNV 331
+ SE + K + +++LIK+ LV+ +A+ Y G+ F DL+Q GN+
Sbjct: 377 M---------SEEIAKGK-QMMQHAKDQLIKANLRLVVSIAKKYANRGLHFFDLVQEGNI 426
Query: 332 GVLQGAERFDHTRGYKFSTYVQYWIRKSISKMVARHARGIKIPVPLF 378
G+++ E+F++ RG+KFSTY +WIR++I++ ++ AR I++PV +
Sbjct: 427 GLIKAVEKFEYKRGFKFSTYATWWIRQAITRSISDQARTIRVPVHMI 473
>sp|Q03065|RPSB_NOSS1 RNA polymerase sigma-B factor OS=Nostoc sp. (strain PCC 7120 / UTEX
2576) GN=sigB PE=3 SV=1
Length = 332
Score = 93.2 bits (230), Expect = 3e-18, Method: Compositional matrix adjust.
Identities = 47/143 (32%), Positives = 87/143 (60%), Gaps = 2/143 (1%)
Query: 235 RLTIARNEAEM--SKGVQVVANLERIKTTLEKESGKAASLNCWAQAAGVSERVLKQHLAF 292
R+ + +E E+ ++ VQ + + K L ++ + +L WA + E VL Q L+
Sbjct: 34 RVPLLSHEQEIFFAQQVQQMMVMFTAKEELAEKLQREPTLQEWADKMQLKEDVLLQQLSQ 93
Query: 293 GWYCREELIKSTRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYV 352
G ++++I++ LV+ +A+ Y+ + F DL+Q G +G+ +G E+FD T GYKFSTY
Sbjct: 94 GQIAKQKMIQANLRLVVSIAKKYQKRNLEFLDLIQEGALGLERGVEKFDPTLGYKFSTYA 153
Query: 353 QYWIRKSISKMVARHARGIKIPV 375
+WIR+ I++ +A+ +R I++P+
Sbjct: 154 YWWIRQGITRAIAQQSRTIRLPI 176
>sp|P77994|RPOD_THEMA RNA polymerase sigma factor RpoD OS=Thermotoga maritima (strain
ATCC 43589 / MSB8 / DSM 3109 / JCM 10099) GN=rpoD PE=1
SV=3
Length = 399
Score = 91.3 bits (225), Expect = 1e-17, Method: Compositional matrix adjust.
Identities = 39/80 (48%), Positives = 58/80 (72%)
Query: 296 CREELIKSTRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYW 355
+E+LI S LV+ +A+ Y G G+ F DL+Q GN+G+L+ E+FD +GYKFSTY +W
Sbjct: 155 AKEKLITSNLRLVVSIAKRYMGRGLSFQDLIQEGNIGLLKAVEKFDWRKGYKFSTYATWW 214
Query: 356 IRKSISKMVARHARGIKIPV 375
IR++I++ +A AR I+IPV
Sbjct: 215 IRQAITRAIADQARTIRIPV 234
>sp|P74565|RPOD_SYNY3 RNA polymerase sigma factor RpoD OS=Synechocystis sp. (strain PCC
6803 / Kazusa) GN=rpoD PE=3 SV=1
Length = 425
Score = 91.3 bits (225), Expect = 1e-17, Method: Compositional matrix adjust.
Identities = 38/106 (35%), Positives = 70/106 (66%)
Query: 273 NCWAQAAGVSERVLKQHLAFGWYCREELIKSTRPLVLFLARNYRGLGIPFSDLLQAGNVG 332
N W+Q + ++ L ++++++S LV+ +A+ Y G+ F DL+Q G++G
Sbjct: 166 NEWSQQPNKNFAAFRRRLFLDRRAKDKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLG 225
Query: 333 VLQGAERFDHTRGYKFSTYVQYWIRKSISKMVARHARGIKIPVPLF 378
+++ AE+FDH +GYKFSTY +WIR++I++ +A +R I++PV L+
Sbjct: 226 LIRAAEKFDHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLY 271
>sp|P59117|RPOD_LEPIN RNA polymerase sigma factor RpoD OS=Leptospira interrogans
serogroup Icterohaemorrhagiae serovar Lai (strain 56601)
GN=rpoD PE=3 SV=1
Length = 585
Score = 91.3 bits (225), Expect = 1e-17, Method: Compositional matrix adjust.
Identities = 44/139 (31%), Positives = 83/139 (59%), Gaps = 8/139 (5%)
Query: 241 NEAEMSKGVQVVANLERIKTTLEKESGKAA-SLNCWAQAAGVSERVLKQHLAFGWYCREE 299
N E+ + ++ + N ER +E+E+G + W + ER + Q ++E
Sbjct: 298 NIDEVREVIKDIRNNERKLRRMEQEAGSTVQEIKDWGEKIIKGEREISQ-------AKKE 350
Query: 300 LIKSTRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYWIRKS 359
L+K+ LV+ +A+ Y G+ F DL+Q GN+G+++ ++F++ +GYKFSTY +WIR++
Sbjct: 351 LVKANLRLVVSIAKRYANRGMHFFDLIQEGNIGLIKAVDKFEYKKGYKFSTYATWWIRQA 410
Query: 360 ISKMVARHARGIKIPVPLF 378
I++ ++ AR I++PV +
Sbjct: 411 ITRAISDQARTIRVPVHMI 429
>sp|P61540|RPOD_LEPIC RNA polymerase sigma factor RpoD OS=Leptospira interrogans
serogroup Icterohaemorrhagiae serovar copenhageni
(strain Fiocruz L1-130) GN=rpoD PE=3 SV=1
Length = 585
Score = 91.3 bits (225), Expect = 1e-17, Method: Compositional matrix adjust.
Identities = 44/139 (31%), Positives = 83/139 (59%), Gaps = 8/139 (5%)
Query: 241 NEAEMSKGVQVVANLERIKTTLEKESGKAA-SLNCWAQAAGVSERVLKQHLAFGWYCREE 299
N E+ + ++ + N ER +E+E+G + W + ER + Q ++E
Sbjct: 298 NIDEVREVIKDIRNNERKLRRMEQEAGSTVQEIKDWGEKIIKGEREISQ-------AKKE 350
Query: 300 LIKSTRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYWIRKS 359
L+K+ LV+ +A+ Y G+ F DL+Q GN+G+++ ++F++ +GYKFSTY +WIR++
Sbjct: 351 LVKANLRLVVSIAKRYANRGMHFFDLIQEGNIGLIKAVDKFEYKKGYKFSTYATWWIRQA 410
Query: 360 ISKMVARHARGIKIPVPLF 378
I++ ++ AR I++PV +
Sbjct: 411 ITRAISDQARTIRVPVHMI 429
>sp|Q31ME3|RPOD2_SYNE7 RNA polymerase sigma factor rpoD2 OS=Synechococcus elongatus
(strain PCC 7942) GN=rpoD2 PE=1 SV=1
Length = 320
Score = 91.3 bits (225), Expect = 1e-17, Method: Compositional matrix adjust.
Identities = 49/148 (33%), Positives = 84/148 (56%), Gaps = 1/148 (0%)
Query: 229 LNSRGR-RLTIARNEAEMSKGVQVVANLERIKTTLEKESGKAASLNCWAQAAGVSERVLK 287
L GR RL A E + VQ + L +T L G S WA A ++ L
Sbjct: 17 LQEIGRVRLLTAEEELCFGRQVQRLMMLLDAQTELRDRLGHEPSKEEWAAAVDLNLEDLD 76
Query: 288 QHLAFGWYCREELIKSTRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQGAERFDHTRGYK 347
+ + G + ++I++ LV+ +A+ Y+ + F DL+Q G +G+ +G E+FD ++GYK
Sbjct: 77 RQIEQGQRAKRKMIEANLRLVVSIAKKYQKRHMEFLDLIQEGTLGLERGVEKFDPSKGYK 136
Query: 348 FSTYVQYWIRKSISKMVARHARGIKIPV 375
FSTY +WIR++I++ +A+ +R I++P+
Sbjct: 137 FSTYAYWWIRQAITRAIAQQSRTIRLPI 164
>sp|Q59914|HRDD_STRGR RNA polymerase principal sigma factor HrdD OS=Streptomyces griseus
GN=hrdD PE=3 SV=1
Length = 332
Score = 90.5 bits (223), Expect = 2e-17, Method: Compositional matrix adjust.
Identities = 42/113 (37%), Positives = 70/113 (61%)
Query: 266 SGKAASLNCWAQAAGVSERVLKQHLAFGWYCREELIKSTRPLVLFLARNYRGLGIPFSDL 325
+GK + +AG S L+ +A G ++ I+S LV+ +AR Y G+P DL
Sbjct: 66 AGKILDGEVDSDSAGASREELEALVAEGERAKDVFIRSNLRLVVAVARRYPRSGLPLLDL 125
Query: 326 LQAGNVGVLQGAERFDHTRGYKFSTYVQYWIRKSISKMVARHARGIKIPVPLF 378
+Q GN G+++ E+FD+ +G+KFSTY +WIR++I++ +A +R I++PV L
Sbjct: 126 IQEGNAGLVRAVEKFDYAKGFKFSTYATWWIRQAITRSIADQSRTIRLPVHLV 178
>sp|P18183|HRDB_STRCO RNA polymerase principal sigma factor HrdB OS=Streptomyces
coelicolor (strain ATCC BAA-471 / A3(2) / M145) GN=hrdB
PE=3 SV=2
Length = 511
Score = 90.5 bits (223), Expect = 2e-17, Method: Compositional matrix adjust.
Identities = 38/83 (45%), Positives = 60/83 (72%)
Query: 293 GWYCREELIKSTRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYV 352
G + L+++ LV+ LA+ Y G G+ F DL+Q GN+G+++ E+FD+T+GYKFSTY
Sbjct: 271 GRRAKNHLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAVEKFDYTKGYKFSTYA 330
Query: 353 QYWIRKSISKMVARHARGIKIPV 375
+WIR++I++ +A AR I+IPV
Sbjct: 331 TWWIRQAITRAMADQARTIRIPV 353
>sp|P77951|HRDB_STRGR RNA polymerase principal sigma factor HrdB OS=Streptomyces griseus
GN=hrdB PE=1 SV=1
Length = 514
Score = 90.5 bits (223), Expect = 2e-17, Method: Compositional matrix adjust.
Identities = 38/83 (45%), Positives = 60/83 (72%)
Query: 293 GWYCREELIKSTRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYV 352
G + L+++ LV+ LA+ Y G G+ F DL+Q GN+G+++ E+FD+T+GYKFSTY
Sbjct: 274 GRRAKNHLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAVEKFDYTKGYKFSTYA 333
Query: 353 QYWIRKSISKMVARHARGIKIPV 375
+WIR++I++ +A AR I+IPV
Sbjct: 334 TWWIRQAITRAMADQARTIRIPV 356
>sp|Q04506|RPOD_LACLA RNA polymerase sigma factor RpoD OS=Lactococcus lactis subsp.
lactis (strain IL1403) GN=rpoD PE=3 SV=2
Length = 386
Score = 89.4 bits (220), Expect = 4e-17, Method: Compositional matrix adjust.
Identities = 35/81 (43%), Positives = 60/81 (74%)
Query: 295 YCREELIKSTRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQY 354
+ ++ L ++ LV+ +A+ Y G G+ F DL+Q GN+G+++ ++FDHT+G+KFSTY +
Sbjct: 149 FAKQMLAEANLRLVVSIAKRYSGRGMQFLDLIQEGNMGLMKAVDKFDHTKGFKFSTYATW 208
Query: 355 WIRKSISKMVARHARGIKIPV 375
WIR++I++ +A AR I+IPV
Sbjct: 209 WIRQAITRAIADQARTIRIPV 229
>sp|P33118|RPSB_CORDI RNA polymerase sigma factor SigB OS=Corynebacterium diphtheriae
(strain ATCC 700971 / NCTC 13129 / Biotype gravis)
GN=sigB PE=3 SV=2
Length = 329
Score = 89.0 bits (219), Expect = 5e-17, Method: Compositional matrix adjust.
Identities = 39/95 (41%), Positives = 65/95 (68%)
Query: 284 RVLKQHLAFGWYCREELIKSTRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQGAERFDHT 343
R LK + G R L+++ LV+ LA+ Y G G+P DL+Q GN+G+++ E+FD++
Sbjct: 80 RDLKVLVKEGRKARSHLLEANLRLVVSLAKRYTGRGMPLLDLIQEGNLGLIRAMEKFDYS 139
Query: 344 RGYKFSTYVQYWIRKSISKMVARHARGIKIPVPLF 378
+G+KFSTY +WIR++I++ +A +R I++PV L
Sbjct: 140 KGFKFSTYATWWIRQAITRGMADQSRTIRLPVHLV 174
>sp|P18184|HRDC_STRCO RNA polymerase principal sigma factor HrdC OS=Streptomyces
coelicolor (strain ATCC BAA-471 / A3(2) / M145) GN=hrdC
PE=3 SV=1
Length = 339
Score = 89.0 bits (219), Expect = 5e-17, Method: Compositional matrix adjust.
Identities = 34/92 (36%), Positives = 65/92 (70%)
Query: 284 RVLKQHLAFGWYCREELIKSTRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQGAERFDHT 343
R L++ + G ++ ++++ LV+ +A+ + G+P D++Q GN+G+++ E+FDHT
Sbjct: 90 RTLEETVHDGQEAKDHMVRANLRLVVSMAKRHAHRGLPLLDVIQEGNLGLIRAVEKFDHT 149
Query: 344 RGYKFSTYVQYWIRKSISKMVARHARGIKIPV 375
+G+KFSTY +WIR++I + +A HAR +++PV
Sbjct: 150 KGFKFSTYATWWIRQAIERGLATHARTVRLPV 181
>sp|Q9Z7F0|RPOD_CHLPN RNA polymerase sigma factor RpoD OS=Chlamydia pneumoniae GN=rpoD
PE=3 SV=1
Length = 572
Score = 89.0 bits (219), Expect = 5e-17, Method: Compositional matrix adjust.
Identities = 36/95 (37%), Positives = 66/95 (69%)
Query: 284 RVLKQHLAFGWYCREELIKSTRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQGAERFDHT 343
R+L++ + ++E+++S LV+ +A+ Y G+ F DL+Q GN+G+++ E+F++
Sbjct: 305 RMLQRWMDKSQEAKKEMVESNLRLVISIAKKYTNRGLSFLDLIQEGNMGLMKAVEKFEYR 364
Query: 344 RGYKFSTYVQYWIRKSISKMVARHARGIKIPVPLF 378
RGYKFSTY +WIR+++++ +A AR I+IPV +
Sbjct: 365 RGYKFSTYATWWIRQAVTRAIADQARTIRIPVHMI 399
>sp|P56835|RPOD_CHLMU RNA polymerase sigma factor RpoD OS=Chlamydia muridarum (strain
MoPn / Nigg) GN=rpoD PE=3 SV=1
Length = 571
Score = 89.0 bits (219), Expect = 6e-17, Method: Compositional matrix adjust.
Identities = 36/95 (37%), Positives = 66/95 (69%)
Query: 284 RVLKQHLAFGWYCREELIKSTRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQGAERFDHT 343
R+L++ + ++E+++S LV+ +A+ Y G+ F DL+Q GN+G+++ E+F++
Sbjct: 305 RMLQRWMDKSQEAKKEMVESNLRLVISIAKKYTNRGLSFLDLIQEGNMGLMKAVEKFEYR 364
Query: 344 RGYKFSTYVQYWIRKSISKMVARHARGIKIPVPLF 378
RGYKFSTY +WIR+++++ +A AR I+IPV +
Sbjct: 365 RGYKFSTYATWWIRQAVTRAIADQARTIRIPVHMI 399
>sp|P52325|RPOD_NEIGO RNA polymerase sigma factor RpoD OS=Neisseria gonorrhoeae GN=rpoD
PE=3 SV=1
Length = 642
Score = 89.0 bits (219), Expect = 6e-17, Method: Compositional matrix adjust.
Identities = 34/83 (40%), Positives = 60/83 (72%)
Query: 296 CREELIKSTRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYW 355
++E+I++ LV+ +A+ Y G+ F DL+Q GN+G+++ ++F++ RGYKFSTY +W
Sbjct: 399 AKQEMIQANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 458
Query: 356 IRKSISKMVARHARGIKIPVPLF 378
IR++I++ +A AR I+IPV +
Sbjct: 459 IRQAITRSIADQARTIRIPVHMI 481
>sp|P18333|RPOD_CHLTR RNA polymerase sigma factor RpoD OS=Chlamydia trachomatis (strain
D/UW-3/Cx) GN=rpoD PE=3 SV=2
Length = 571
Score = 88.6 bits (218), Expect = 8e-17, Method: Compositional matrix adjust.
Identities = 36/95 (37%), Positives = 66/95 (69%)
Query: 284 RVLKQHLAFGWYCREELIKSTRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQGAERFDHT 343
R+L++ + ++E+++S LV+ +A+ Y G+ F DL+Q GN+G+++ E+F++
Sbjct: 305 RMLQRWMDKSQEAKKEMVESNLRLVISIAKKYTNRGLSFLDLIQEGNMGLMKAVEKFEYR 364
Query: 344 RGYKFSTYVQYWIRKSISKMVARHARGIKIPVPLF 378
RGYKFSTY +WIR+++++ +A AR I+IPV +
Sbjct: 365 RGYKFSTYATWWIRQAVTRAIADQARTIRIPVHMI 399
>sp|P26480|RPOD_PSEAE RNA polymerase sigma factor RpoD OS=Pseudomonas aeruginosa (strain
ATCC 15692 / PAO1 / 1C / PRS 101 / LMG 12228) GN=rpoD
PE=3 SV=1
Length = 617
Score = 88.6 bits (218), Expect = 8e-17, Method: Compositional matrix adjust.
Identities = 39/128 (30%), Positives = 78/128 (60%), Gaps = 4/128 (3%)
Query: 255 LERIKTTLEKESGKAASLNCWAQAAGVSERVLKQHLAFGWY----CREELIKSTRPLVLF 310
+ER++ + + K A+L + + + + ++ G ++E++++ LV+
Sbjct: 334 IERLRDDILRNQQKLAALESEVELTVAEIKEINRAMSIGEAKARRAKKEMVEANLRLVIS 393
Query: 311 LARNYRGLGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYWIRKSISKMVARHARG 370
+A+ Y G+ F DL+Q GN+G+++ ++F++ RGYKFSTY +WIR++I++ +A AR
Sbjct: 394 IAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQART 453
Query: 371 IKIPVPLF 378
I+IPV +
Sbjct: 454 IRIPVHMI 461
>sp|P55993|RPOD_HELPY RNA polymerase sigma factor RpoD OS=Helicobacter pylori (strain
ATCC 700392 / 26695) GN=rpoD PE=3 SV=1
Length = 671
Score = 87.8 bits (216), Expect = 1e-16, Method: Compositional matrix adjust.
Identities = 32/83 (38%), Positives = 59/83 (71%)
Query: 296 CREELIKSTRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYW 355
+ ++ KS LV+ +A+ + G+PF DL+Q GN+G+++ ++F+H +G+KFSTY +W
Sbjct: 432 AKNKMAKSNLRLVVSIAKRFTSRGLPFLDLIQEGNIGLMKAVDKFEHEKGFKFSTYATWW 491
Query: 356 IRKSISKMVARHARGIKIPVPLF 378
I+++IS+ +A AR I+IP+ +
Sbjct: 492 IKQAISRAIADQARTIRIPIHMI 514
>sp|Q9ZMY3|RPOD_HELPJ RNA polymerase sigma factor RpoD OS=Helicobacter pylori (strain
J99) GN=rpoD PE=3 SV=1
Length = 681
Score = 87.8 bits (216), Expect = 1e-16, Method: Compositional matrix adjust.
Identities = 32/83 (38%), Positives = 59/83 (71%)
Query: 296 CREELIKSTRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYW 355
+ ++ KS LV+ +A+ + G+PF DL+Q GN+G+++ ++F+H +G+KFSTY +W
Sbjct: 442 AKNKMAKSNLRLVVSIAKRFTSRGLPFLDLIQEGNIGLMKAVDKFEHEKGFKFSTYATWW 501
Query: 356 IRKSISKMVARHARGIKIPVPLF 378
I+++IS+ +A AR I+IP+ +
Sbjct: 502 IKQAISRAIADQARTIRIPIHMI 524
>sp|P32001|RPOD_BUCAP RNA polymerase sigma factor RpoD OS=Buchnera aphidicola subsp.
Schizaphis graminum (strain Sg) GN=rpoD PE=3 SV=1
Length = 617
Score = 87.4 bits (215), Expect = 1e-16, Method: Compositional matrix adjust.
Identities = 33/83 (39%), Positives = 60/83 (72%)
Query: 296 CREELIKSTRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYW 355
++E++++ LV+ +A+ Y G+ F DL+Q GN+G+++ ++F++ RGYKFSTY +W
Sbjct: 379 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 438
Query: 356 IRKSISKMVARHARGIKIPVPLF 378
IR++I++ +A AR I+IPV +
Sbjct: 439 IRQAITRSIADQARTIRIPVHMI 461
>sp|O24744|RPOD_SHEVD RNA polymerase sigma factor RpoD OS=Shewanella violacea (strain JCM
10179 / CIP 106290 / LMG 19151 / DSS12) GN=rpoD PE=3
SV=1
Length = 614
Score = 87.4 bits (215), Expect = 2e-16, Method: Compositional matrix adjust.
Identities = 42/118 (35%), Positives = 74/118 (62%), Gaps = 8/118 (6%)
Query: 262 LEKESGKA-ASLNCWAQAAGVSERVLKQHLAFGWYCREELIKSTRPLVLFLARNYRGLGI 320
+EKE+G A AS+ + + E A ++E++++ LV+ +A+ Y G+
Sbjct: 348 IEKETGLAIASIKDINRRMSIGE-------AKARRAKKEMVEANLRLVISIAKKYTNRGL 400
Query: 321 PFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYWIRKSISKMVARHARGIKIPVPLF 378
F DL+Q GN+G+++ ++F++ RGYKFSTY +WIR++I++ +A AR I+IPV +
Sbjct: 401 QFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMI 458
>sp|Q1RKH7|RPOD_RICBR RNA polymerase sigma factor RpoD OS=Rickettsia bellii (strain
RML369-C) GN=rpoD PE=3 SV=1
Length = 641
Score = 87.4 bits (215), Expect = 2e-16, Method: Compositional matrix adjust.
Identities = 33/83 (39%), Positives = 60/83 (72%)
Query: 296 CREELIKSTRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYW 355
++++I++ LV+ +A+ Y G+ F DL+Q GN+G+++ ++F++ RGYKFSTY +W
Sbjct: 388 AKKDMIEANLRLVISIAKKYANRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 447
Query: 356 IRKSISKMVARHARGIKIPVPLF 378
IR++I++ +A AR I+IPV +
Sbjct: 448 IRQAITRAIADQARTIRIPVHMI 470
>sp|P0A2E3|RPOD_SALTY RNA polymerase sigma factor RpoD OS=Salmonella typhimurium (strain
LT2 / SGSC1412 / ATCC 700720) GN=rpoD PE=3 SV=1
Length = 615
Score = 87.4 bits (215), Expect = 2e-16, Method: Compositional matrix adjust.
Identities = 33/83 (39%), Positives = 60/83 (72%)
Query: 296 CREELIKSTRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYW 355
++E++++ LV+ +A+ Y G+ F DL+Q GN+G+++ ++F++ RGYKFSTY +W
Sbjct: 377 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 436
Query: 356 IRKSISKMVARHARGIKIPVPLF 378
IR++I++ +A AR I+IPV +
Sbjct: 437 IRQAITRSIADQARTIRIPVHMI 459
>sp|P0A2E4|RPOD_SALTI RNA polymerase sigma factor RpoD OS=Salmonella typhi GN=rpoD PE=3
SV=1
Length = 615
Score = 87.4 bits (215), Expect = 2e-16, Method: Compositional matrix adjust.
Identities = 33/83 (39%), Positives = 60/83 (72%)
Query: 296 CREELIKSTRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYW 355
++E++++ LV+ +A+ Y G+ F DL+Q GN+G+++ ++F++ RGYKFSTY +W
Sbjct: 377 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 436
Query: 356 IRKSISKMVARHARGIKIPVPLF 378
IR++I++ +A AR I+IPV +
Sbjct: 437 IRQAITRSIADQARTIRIPVHMI 459
>sp|Q2K619|RPOD_RHIEC RNA polymerase sigma factor rpoD OS=Rhizobium etli (strain CFN 42 /
ATCC 51251) GN=sigA PE=1 SV=1
Length = 685
Score = 87.4 bits (215), Expect = 2e-16, Method: Compositional matrix adjust.
Identities = 33/83 (39%), Positives = 60/83 (72%)
Query: 296 CREELIKSTRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYW 355
++E++++ LV+ +A+ Y G+ F DL+Q GN+G+++ ++F++ RGYKFSTY +W
Sbjct: 447 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 506
Query: 356 IRKSISKMVARHARGIKIPVPLF 378
IR++I++ +A AR I+IPV +
Sbjct: 507 IRQAITRSIADQARTIRIPVHMI 529
>sp|P17531|RPOD_MYXXA RNA polymerase sigma factor RpoD OS=Myxococcus xanthus GN=rpoD PE=3
SV=1
Length = 708
Score = 87.4 bits (215), Expect = 2e-16, Method: Compositional matrix adjust.
Identities = 34/83 (40%), Positives = 59/83 (71%)
Query: 296 CREELIKSTRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYW 355
+ EL+++ LV+ +A+ Y G+ F DL+Q GN+G+++ ++F++ RGYKFSTY +W
Sbjct: 470 AKSELVEANLRLVVSIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYKRGYKFSTYATWW 529
Query: 356 IRKSISKMVARHARGIKIPVPLF 378
IR++I++ +A AR I+IPV +
Sbjct: 530 IRQAITRAIADQARTIRIPVHMI 552
>sp|Q59753|RPOD_RHIME RNA polymerase sigma factor RpoD OS=Rhizobium meliloti (strain
1021) GN=rpoD PE=3 SV=1
Length = 684
Score = 87.4 bits (215), Expect = 2e-16, Method: Compositional matrix adjust.
Identities = 33/83 (39%), Positives = 60/83 (72%)
Query: 296 CREELIKSTRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYW 355
++E++++ LV+ +A+ Y G+ F DL+Q GN+G+++ ++F++ RGYKFSTY +W
Sbjct: 446 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 505
Query: 356 IRKSISKMVARHARGIKIPVPLF 378
IR++I++ +A AR I+IPV +
Sbjct: 506 IRQAITRSIADQARTIRIPVHMI 528
>sp|P33452|RPOD_AGRT5 RNA polymerase sigma factor RpoD OS=Agrobacterium tumefaciens
(strain C58 / ATCC 33970) GN=rpoD PE=3 SV=2
Length = 684
Score = 87.4 bits (215), Expect = 2e-16, Method: Compositional matrix adjust.
Identities = 33/83 (39%), Positives = 60/83 (72%)
Query: 296 CREELIKSTRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYW 355
++E++++ LV+ +A+ Y G+ F DL+Q GN+G+++ ++F++ RGYKFSTY +W
Sbjct: 446 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 505
Query: 356 IRKSISKMVARHARGIKIPVPLF 378
IR++I++ +A AR I+IPV +
Sbjct: 506 IRQAITRSIADQARTIRIPVHMI 528
>sp|Q9ZSL6|SIGD_ARATH RNA polymerase sigma factor sigD, chloroplastic OS=Arabidopsis
thaliana GN=SIGD PE=2 SV=1
Length = 419
Score = 87.0 bits (214), Expect = 2e-16, Method: Compositional matrix adjust.
Identities = 46/122 (37%), Positives = 74/122 (60%), Gaps = 3/122 (2%)
Query: 253 ANLERIKTTLEKESGKAASLNCWAQAAGVSERVLKQHLAFGWYCREELIKSTRPLVLFLA 312
A LE + T++E+ + L A G +R + L RE++ + R LV+ +A
Sbjct: 139 AKLENLGTSVEENEMVSVLL---ASGRGKKKRSANEILCRRKEAREKITRCYRRLVVSIA 195
Query: 313 RNYRGLGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYWIRKSISKMVARHARGIK 372
Y+G G+ DL+Q G++G+L+GAERFD RGYK STYV +WI+++I + +A +R +K
Sbjct: 196 TGYQGKGLNLQDLIQEGSIGLLRGAERFDPDRGYKLSTYVYWWIKQAILRAIAHKSRLVK 255
Query: 373 IP 374
+P
Sbjct: 256 LP 257
>sp|P00579|RPOD_ECOLI RNA polymerase sigma factor RpoD OS=Escherichia coli (strain K12)
GN=rpoD PE=1 SV=2
Length = 613
Score = 87.0 bits (214), Expect = 2e-16, Method: Compositional matrix adjust.
Identities = 33/83 (39%), Positives = 60/83 (72%)
Query: 296 CREELIKSTRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYW 355
++E++++ LV+ +A+ Y G+ F DL+Q GN+G+++ ++F++ RGYKFSTY +W
Sbjct: 375 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 434
Query: 356 IRKSISKMVARHARGIKIPVPLF 378
IR++I++ +A AR I+IPV +
Sbjct: 435 IRQAITRSIADQARTIRIPVHMI 457
>sp|Q89B10|RPOD_BUCBP RNA polymerase sigma factor RpoD OS=Buchnera aphidicola subsp.
Baizongia pistaciae (strain Bp) GN=rpoD PE=3 SV=1
Length = 609
Score = 87.0 bits (214), Expect = 2e-16, Method: Compositional matrix adjust.
Identities = 33/83 (39%), Positives = 60/83 (72%)
Query: 296 CREELIKSTRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYW 355
++E++++ LV+ +A+ Y G+ F DL+Q GN+G+++ ++F++ RGYKFSTY +W
Sbjct: 371 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 430
Query: 356 IRKSISKMVARHARGIKIPVPLF 378
IR++I++ +A AR I+IPV +
Sbjct: 431 IRQAITRSIADQARTIRIPVHMI 453
>sp|P33451|RPOD_RICPR RNA polymerase sigma factor RpoD OS=Rickettsia prowazekii (strain
Madrid E) GN=rpoD PE=3 SV=1
Length = 635
Score = 87.0 bits (214), Expect = 2e-16, Method: Compositional matrix adjust.
Identities = 33/83 (39%), Positives = 60/83 (72%)
Query: 296 CREELIKSTRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYW 355
++++I++ LV+ +A+ Y G+ F DL+Q GN+G+++ ++F++ RGYKFSTY +W
Sbjct: 382 AKKDMIEANLRLVISIAKKYANRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 441
Query: 356 IRKSISKMVARHARGIKIPVPLF 378
IR++I++ +A AR I+IPV +
Sbjct: 442 IRQAITRAIADQARTIRIPVHMI 464
>sp|P43766|RPOD_HAEIN RNA polymerase sigma factor RpoD OS=Haemophilus influenzae (strain
ATCC 51907 / DSM 11121 / KW20 / Rd) GN=rpoD PE=3 SV=1
Length = 629
Score = 87.0 bits (214), Expect = 2e-16, Method: Compositional matrix adjust.
Identities = 33/83 (39%), Positives = 60/83 (72%)
Query: 296 CREELIKSTRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYW 355
++E++++ LV+ +A+ Y G+ F DL+Q GN+G+++ ++F++ RGYKFSTY +W
Sbjct: 391 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 450
Query: 356 IRKSISKMVARHARGIKIPVPLF 378
IR++I++ +A AR I+IPV +
Sbjct: 451 IRQAITRSIADQARTIRIPVHMI 473
>sp|Q92FZ8|RPOD_RICCN RNA polymerase sigma factor RpoD OS=Rickettsia conorii (strain ATCC
VR-613 / Malish 7) GN=rpoD PE=3 SV=1
Length = 634
Score = 87.0 bits (214), Expect = 2e-16, Method: Compositional matrix adjust.
Identities = 33/83 (39%), Positives = 60/83 (72%)
Query: 296 CREELIKSTRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYW 355
++++I++ LV+ +A+ Y G+ F DL+Q GN+G+++ ++F++ RGYKFSTY +W
Sbjct: 381 AKKDMIEANLRLVISIAKKYANRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 440
Query: 356 IRKSISKMVARHARGIKIPVPLF 378
IR++I++ +A AR I+IPV +
Sbjct: 441 IRQAITRAIADQARTIRIPVHMI 463
>sp|Q4UJT1|RPOD_RICFE RNA polymerase sigma factor RpoD OS=Rickettsia felis (strain ATCC
VR-1525 / URRWXCal2) GN=rpoD PE=3 SV=1
Length = 635
Score = 87.0 bits (214), Expect = 2e-16, Method: Compositional matrix adjust.
Identities = 33/83 (39%), Positives = 60/83 (72%)
Query: 296 CREELIKSTRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYW 355
++++I++ LV+ +A+ Y G+ F DL+Q GN+G+++ ++F++ RGYKFSTY +W
Sbjct: 382 AKKDMIEANLRLVISIAKKYANRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 441
Query: 356 IRKSISKMVARHARGIKIPVPLF 378
IR++I++ +A AR I+IPV +
Sbjct: 442 IRQAITRAIADQARTIRIPVHMI 464
>sp|Q68VQ5|RPOD_RICTY RNA polymerase sigma factor RpoD OS=Rickettsia typhi (strain ATCC
VR-144 / Wilmington) GN=rpoD PE=3 SV=1
Length = 635
Score = 87.0 bits (214), Expect = 2e-16, Method: Compositional matrix adjust.
Identities = 33/83 (39%), Positives = 60/83 (72%)
Query: 296 CREELIKSTRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYW 355
++++I++ LV+ +A+ Y G+ F DL+Q GN+G+++ ++F++ RGYKFSTY +W
Sbjct: 382 AKKDMIEANLRLVISIAKKYANRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 441
Query: 356 IRKSISKMVARHARGIKIPVPLF 378
IR++I++ +A AR I+IPV +
Sbjct: 442 IRQAITRAIADQARTIRIPVHMI 464
>sp|D5AQI9|RPOD_RHOCB RNA polymerase sigma factor rpoD OS=Rhodobacter capsulatus (strain
ATCC BAA-309 / NBRC 16581 / SB1003) GN=rpoD PE=3 SV=1
Length = 674
Score = 87.0 bits (214), Expect = 2e-16, Method: Compositional matrix adjust.
Identities = 33/83 (39%), Positives = 60/83 (72%)
Query: 296 CREELIKSTRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYW 355
++E++++ LV+ +A+ Y G+ F DL+Q GN+G+++ ++F++ RGYKFSTY +W
Sbjct: 436 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 495
Query: 356 IRKSISKMVARHARGIKIPVPLF 378
IR++I++ +A AR I+IPV +
Sbjct: 496 IRQAITRSIADQARTIRIPVHMI 518
>sp|Q83BB6|RPOD_COXBU RNA polymerase sigma factor RpoD OS=Coxiella burnetii (strain RSA
493 / Nine Mile phase I) GN=rpoD PE=1 SV=1
Length = 698
Score = 87.0 bits (214), Expect = 2e-16, Method: Compositional matrix adjust.
Identities = 34/80 (42%), Positives = 59/80 (73%)
Query: 296 CREELIKSTRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYW 355
++E+I++ LV+ +A+ Y G+ F DL+Q GN+G+++ ++F++ RGYKFSTY +W
Sbjct: 458 AKKEMIEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 517
Query: 356 IRKSISKMVARHARGIKIPV 375
IR++I++ +A AR I+IPV
Sbjct: 518 IRQAITRSIADQARTIRIPV 537
>sp|P52328|RPSD2_BACSP RNA polymerase sigma factor RpoD OS=Bacillus sp. GN=sigA PE=3 SV=1
Length = 377
Score = 86.7 bits (213), Expect = 3e-16, Method: Compositional matrix adjust.
Identities = 34/69 (49%), Positives = 53/69 (76%)
Query: 307 LVLFLARNYRGLGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYWIRKSISKMVAR 366
LV+ +A+ Y G G+ F DL+Q GN+G+++ E+FDH +G+KFSTY +WIR++I++ +A
Sbjct: 151 LVVSIAKRYVGRGMLFLDLIQEGNMGLIKAVEKFDHNKGFKFSTYATWWIRQAITRAIAD 210
Query: 367 HARGIKIPV 375
AR I+IPV
Sbjct: 211 QARTIRIPV 219
>sp|P52326|RPOD_PSEFL RNA polymerase sigma factor RpoD OS=Pseudomonas fluorescens GN=rpoD
PE=3 SV=1
Length = 615
Score = 86.7 bits (213), Expect = 3e-16, Method: Compositional matrix adjust.
Identities = 42/120 (35%), Positives = 73/120 (60%), Gaps = 8/120 (6%)
Query: 260 TTLEKESG-KAASLNCWAQAAGVSERVLKQHLAFGWYCREELIKSTRPLVLFLARNYRGL 318
T LE E+G K A + + + E A ++E++++ LV+ +A+ Y
Sbjct: 347 TALEVETGLKIAEIKDINRRMSIGE-------AKARRAKKEMVEANLRLVISIAKKYTNR 399
Query: 319 GIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYWIRKSISKMVARHARGIKIPVPLF 378
G+ F DL+Q GN+G+++ ++F++ RGYKFSTY +WIR++I++ +A AR I+IPV +
Sbjct: 400 GLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMI 459
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
0.318 0.131 0.371
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 124,552,118
Number of Sequences: 539616
Number of extensions: 4701921
Number of successful extensions: 14078
Number of sequences better than 100.0: 50
Number of HSP's better than 100.0 without gapping: 152
Number of HSP's successfully gapped in prelim test: 36
Number of HSP's that attempted gapping in prelim test: 13794
Number of HSP's gapped (non-prelim): 313
length of query: 381
length of database: 191,569,459
effective HSP length: 119
effective length of query: 262
effective length of database: 127,355,155
effective search space: 33367050610
effective search space used: 33367050610
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 62 (28.5 bits)