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= 017616
(368 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 = 263 bits (671), Expect = 2e-69, Method: Compositional matrix adjust.
Identities = 163/342 (47%), Positives = 224/342 (65%), Gaps = 21/342 (6%)
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 DLLQAGNVGVLQGAERFDHTRGYKFSTYVQYWIRKSISKMVA 365
DL+QAG VGVLQGAERFDHTRGYKFSTYVQYWIRKS+S MV+
Sbjct: 360 DLIQAGYVGVLQGAERFDHTRGYKFSTYVQYWIRKSMSTMVS 401
>sp|O22056|SIGB_ARATH RNA polymerase sigma factor sigB OS=Arabidopsis thaliana GN=SIGB
PE=2 SV=2
Length = 572
Score = 124 bits (312), Expect = 9e-28, Method: Compositional matrix adjust.
Identities = 54/128 (42%), Positives = 88/128 (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 WIRKSISK 362
WI++++ K
Sbjct: 391 WIKQAVRK 398
>sp|Q9LD95|SIGF_ARATH RNA polymerase sigma factor sigF, chloroplastic OS=Arabidopsis
thaliana GN=SIGF PE=1 SV=1
Length = 547
Score = 105 bits (262), Expect = 5e-22, Method: Compositional matrix adjust.
Identities = 50/131 (38%), Positives = 83/131 (63%)
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 YWIRKSISKMV 364
+WIR+SI K +
Sbjct: 365 WWIRQSIRKSI 375
>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 = 97.1 bits (240), Expect = 2e-19, Method: Compositional matrix adjust.
Identities = 46/139 (33%), Positives = 84/139 (60%), Gaps = 1/139 (0%)
Query: 229 LNSRGR-RLTIARNEAEMSKGVQVVANLERIKTTLEKESGKAASLNCWAQAAGVSERVLK 287
L GR RL A E E+++ + + LER++ L ++ + + WA+A + +
Sbjct: 86 LQEIGRIRLLRADEEIELARKIADLLELERVRERLSEKLERDPRDSEWAEAVQLPLPAFR 145
Query: 288 QHLAFGWYCREELIKSTRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQGAERFDHTRGYK 347
L G ++++++S LV+ +A+ Y G+ F DL+Q G++G+++ AE+FDH +GYK
Sbjct: 146 YRLHIGRRAKDKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKFDHEKGYK 205
Query: 348 FSTYVQYWIRKSISKMVAS 366
FSTY +WIR++I++ +A
Sbjct: 206 FSTYATWWIRQAITRAIAD 224
>sp|P38023|RPOD1_SYNE7 RNA polymerase sigma factor rpoD1 OS=Synechococcus elongatus
(strain PCC 7942) GN=rpoD1 PE=3 SV=2
Length = 399
Score = 88.6 bits (218), Expect = 6e-17, Method: Compositional matrix adjust.
Identities = 48/139 (34%), Positives = 83/139 (59%), Gaps = 1/139 (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 FSTYVQYWIRKSISKMVAS 366
FSTY +WIR++I++ +A
Sbjct: 215 FSTYATWWIRQAITRAIAD 233
>sp|Q31QG5|RPOD3_SYNE7 RNA polymerase sigma factor rpoD3 OS=Synechococcus elongatus
(strain PCC 7942) GN=rpoD3 PE=3 SV=1
Length = 320
Score = 88.6 bits (218), Expect = 7e-17, Method: Compositional matrix adjust.
Identities = 44/126 (34%), Positives = 74/126 (58%), Gaps = 1/126 (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 ISKMVA 365
I++ +A
Sbjct: 149 ITRAIA 154
>sp|P52322|RPOD_MICAE RNA polymerase sigma factor rpoD1 OS=Microcystis aeruginosa
GN=rpoD1 PE=3 SV=1
Length = 416
Score = 85.5 bits (210), Expect = 6e-16, Method: Compositional matrix adjust.
Identities = 41/114 (35%), Positives = 66/114 (57%)
Query: 253 ANLERIKTTLEKESGKAASLNCWAQAAGVSERVLKQHLAFGWYCREELIKSTRPLVLFLA 312
L IK L K A L W + K+ L G +E++++S LV+ +A
Sbjct: 137 PKLSDIKAYLGKTELTAPLLEEWLAKSKEYLSAFKRRLYHGRRAKEKMVQSNLRLVVSIA 196
Query: 313 RNYRGLGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYWIRKSISKMVAS 366
+ Y G+ F DL+Q G++G+++ AE+FDH +GYKFSTY +WIR++I++ +A
Sbjct: 197 KKYMNRGLSFQDLIQEGSLGLIRAAEKFDHEKGYKFSTYATWWIRQAITRAIAD 250
>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 = 83.2 bits (204), Expect = 3e-15, Method: Compositional matrix adjust.
Identities = 44/133 (33%), Positives = 79/133 (59%), Gaps = 2/133 (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 QYWIRKSISKMVA 365
+WIR+ I++ +A
Sbjct: 154 YWWIRQGITRAIA 166
>sp|P0A602|RPOD_MYCTU RNA polymerase sigma factor RpoD OS=Mycobacterium tuberculosis
GN=rpoD PE=1 SV=1
Length = 528
Score = 83.2 bits (204), Expect = 3e-15, Method: Compositional matrix adjust.
Identities = 34/78 (43%), Positives = 55/78 (70%), Gaps = 6/78 (7%)
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 FSTYVQYWIRKSISKMVA 365
FSTY +WIR++I++ +A
Sbjct: 343 FSTYATWWIRQAITRAMA 360
>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 = 83.2 bits (204), Expect = 3e-15, Method: Compositional matrix adjust.
Identities = 34/78 (43%), Positives = 55/78 (70%), Gaps = 6/78 (7%)
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 FSTYVQYWIRKSISKMVA 365
FSTY +WIR++I++ +A
Sbjct: 343 FSTYATWWIRQAITRAMA 360
>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 = 82.0 bits (201), Expect = 7e-15, Method: Compositional matrix adjust.
Identities = 48/155 (30%), Positives = 83/155 (53%), Gaps = 25/155 (16%)
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 GVLQGAERFDHTRGYKFSTYVQYWIRKSISKMVAS 366
G+++ E+F++ RG+KFSTY +WIR++I++ ++
Sbjct: 427 GLIKAVEKFEYKRGFKFSTYATWWIRQAITRSISD 461
>sp|Q31ME3|RPOD2_SYNE7 RNA polymerase sigma factor rpoD2 OS=Synechococcus elongatus
(strain PCC 7942) GN=rpoD2 PE=1 SV=1
Length = 320
Score = 81.3 bits (199), Expect = 1e-14, Method: Compositional matrix adjust.
Identities = 46/138 (33%), Positives = 76/138 (55%), Gaps = 1/138 (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 FSTYVQYWIRKSISKMVA 365
FSTY +WIR++I++ +A
Sbjct: 137 FSTYAYWWIRQAITRAIA 154
>sp|Q59914|HRDD_STRGR RNA polymerase principal sigma factor HrdD OS=Streptomyces griseus
GN=hrdD PE=3 SV=1
Length = 332
Score = 80.5 bits (197), Expect = 2e-14, Method: Compositional matrix adjust.
Identities = 37/101 (36%), Positives = 62/101 (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 LQAGNVGVLQGAERFDHTRGYKFSTYVQYWIRKSISKMVAS 366
+Q GN G+++ E+FD+ +G+KFSTY +WIR++I++ +A
Sbjct: 126 IQEGNAGLVRAVEKFDYAKGFKFSTYATWWIRQAITRSIAD 166
>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 = 80.1 bits (196), Expect = 2e-14, Method: Compositional matrix adjust.
Identities = 33/71 (46%), Positives = 51/71 (71%)
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 IRKSISKMVAS 366
IR++I++ +A
Sbjct: 215 IRQAITRAIAD 225
>sp|Q9ZSL6|SIGD_ARATH RNA polymerase sigma factor sigD, chloroplastic OS=Arabidopsis
thaliana GN=SIGD PE=2 SV=1
Length = 419
Score = 80.1 bits (196), Expect = 2e-14, Method: Compositional matrix adjust.
Identities = 43/113 (38%), Positives = 68/113 (60%), Gaps = 3/113 (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 RNYRGLGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYWIRKSISKMVA 365
Y+G G+ DL+Q G++G+L+GAERFD RGYK STYV +WI+++I + +A
Sbjct: 196 TGYQGKGLNLQDLIQEGSIGLLRGAERFDPDRGYKLSTYVYWWIKQAILRAIA 248
>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 = 80.1 bits (196), Expect = 3e-14, Method: Compositional matrix adjust.
Identities = 39/127 (30%), Positives = 75/127 (59%), Gaps = 8/127 (6%)
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 ISKMVAS 366
I++ ++
Sbjct: 411 ITRAISD 417
>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 = 80.1 bits (196), Expect = 3e-14, Method: Compositional matrix adjust.
Identities = 39/127 (30%), Positives = 75/127 (59%), Gaps = 8/127 (6%)
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 ISKMVAS 366
I++ ++
Sbjct: 411 ITRAISD 417
>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 = 79.3 bits (194), Expect = 4e-14, Method: Compositional matrix adjust.
Identities = 33/94 (35%), Positives = 61/94 (64%)
Query: 273 NCWAQAAGVSERVLKQHLAFGWYCREELIKSTRPLVLFLARNYRGLGIPFSDLLQAGNVG 332
N W+Q + ++ L ++++++S LV+ +A+ Y G+ F DL+Q G++G
Sbjct: 166 NEWSQQPNKNFAAFRRRLFLDRRAKDKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLG 225
Query: 333 VLQGAERFDHTRGYKFSTYVQYWIRKSISKMVAS 366
+++ AE+FDH +GYKFSTY +WIR++I++ +A
Sbjct: 226 LIRAAEKFDHEKGYKFSTYATWWIRQAITRAIAD 259
>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 = 79.0 bits (193), Expect = 5e-14, Method: Compositional matrix adjust.
Identities = 34/83 (40%), Positives = 57/83 (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 RGYKFSTYVQYWIRKSISKMVAS 366
+G+KFSTY +WIR++I++ +A
Sbjct: 140 KGFKFSTYATWWIRQAITRGMAD 162
>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 = 78.6 bits (192), Expect = 7e-14, Method: Compositional matrix adjust.
Identities = 32/73 (43%), Positives = 53/73 (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 QYWIRKSISKMVA 365
+WIR++I++ +A
Sbjct: 331 TWWIRQAITRAMA 343
>sp|P77951|HRDB_STRGR RNA polymerase principal sigma factor HrdB OS=Streptomyces griseus
GN=hrdB PE=1 SV=1
Length = 514
Score = 78.6 bits (192), Expect = 7e-14, Method: Compositional matrix adjust.
Identities = 32/74 (43%), Positives = 53/74 (71%)
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 QYWIRKSISKMVAS 366
+WIR++I++ +A
Sbjct: 334 TWWIRQAITRAMAD 347
>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 = 78.2 bits (191), Expect = 1e-13, Method: Compositional matrix adjust.
Identities = 29/72 (40%), Positives = 53/72 (73%)
Query: 295 YCREELIKSTRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQY 354
+ ++ L ++ LV+ +A+ Y G G+ F DL+Q GN+G+++ ++FDHT+G+KFSTY +
Sbjct: 149 FAKQMLAEANLRLVVSIAKRYSGRGMQFLDLIQEGNMGLMKAVDKFDHTKGFKFSTYATW 208
Query: 355 WIRKSISKMVAS 366
WIR++I++ +A
Sbjct: 209 WIRQAITRAIAD 220
>sp|Q03066|RPSC_NOSS1 RNA polymerase sigma-C factor OS=Nostoc sp. (strain PCC 7120 / UTEX
2576) GN=sigC PE=3 SV=2
Length = 416
Score = 77.4 bits (189), Expect = 2e-13, Method: Compositional matrix adjust.
Identities = 33/94 (35%), Positives = 62/94 (65%)
Query: 275 WAQAAGVSERVLKQHLAFGWYCREELIKSTRPLVLFLARNYRGLGIPFSDLLQAGNVGVL 334
WA+ A ++ L++ + G +E +IK+ LV+ +A+ Y+ G+ DL+Q G +G+
Sbjct: 156 WAEIAKMTVEELEKMQSQGLQSKEHMIKANLRLVVSVAKKYQNRGLELLDLVQEGTLGLE 215
Query: 335 QGAERFDHTRGYKFSTYVQYWIRKSISKMVASAN 368
+ E+FD T+GY+FSTY +WIR+ I++ +A+++
Sbjct: 216 RAVEKFDPTKGYRFSTYAYWWIRQGITRAIATSS 249
>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 = 77.0 bits (188), Expect = 2e-13, Method: Compositional matrix adjust.
Identities = 29/83 (34%), Positives = 58/83 (69%)
Query: 284 RVLKQHLAFGWYCREELIKSTRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQGAERFDHT 343
R L++ + G ++ ++++ LV+ +A+ + G+P D++Q GN+G+++ E+FDHT
Sbjct: 90 RTLEETVHDGQEAKDHMVRANLRLVVSMAKRHAHRGLPLLDVIQEGNLGLIRAVEKFDHT 149
Query: 344 RGYKFSTYVQYWIRKSISKMVAS 366
+G+KFSTY +WIR++I + +A+
Sbjct: 150 KGFKFSTYATWWIRQAIERGLAT 172
>sp|Q9Z7F0|RPOD_CHLPN RNA polymerase sigma factor RpoD OS=Chlamydia pneumoniae GN=rpoD
PE=3 SV=1
Length = 572
Score = 77.0 bits (188), Expect = 2e-13, Method: Compositional matrix adjust.
Identities = 30/83 (36%), Positives = 58/83 (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 RGYKFSTYVQYWIRKSISKMVAS 366
RGYKFSTY +WIR+++++ +A
Sbjct: 365 RGYKFSTYATWWIRQAVTRAIAD 387
>sp|P56835|RPOD_CHLMU RNA polymerase sigma factor RpoD OS=Chlamydia muridarum (strain
MoPn / Nigg) GN=rpoD PE=3 SV=1
Length = 571
Score = 77.0 bits (188), Expect = 2e-13, Method: Compositional matrix adjust.
Identities = 30/83 (36%), Positives = 58/83 (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 RGYKFSTYVQYWIRKSISKMVAS 366
RGYKFSTY +WIR+++++ +A
Sbjct: 365 RGYKFSTYATWWIRQAVTRAIAD 387
>sp|P52325|RPOD_NEIGO RNA polymerase sigma factor RpoD OS=Neisseria gonorrhoeae GN=rpoD
PE=3 SV=1
Length = 642
Score = 76.6 bits (187), Expect = 3e-13, Method: Compositional matrix adjust.
Identities = 28/71 (39%), Positives = 52/71 (73%)
Query: 296 CREELIKSTRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYW 355
++E+I++ LV+ +A+ Y G+ F DL+Q GN+G+++ ++F++ RGYKFSTY +W
Sbjct: 399 AKQEMIQANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 458
Query: 356 IRKSISKMVAS 366
IR++I++ +A
Sbjct: 459 IRQAITRSIAD 469
>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 = 76.6 bits (187), Expect = 3e-13, Method: Compositional matrix adjust.
Identities = 30/83 (36%), Positives = 58/83 (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 RGYKFSTYVQYWIRKSISKMVAS 366
RGYKFSTY +WIR+++++ +A
Sbjct: 365 RGYKFSTYATWWIRQAVTRAIAD 387
>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 = 76.3 bits (186), Expect = 4e-13, Method: Compositional matrix adjust.
Identities = 33/116 (28%), Positives = 70/116 (60%), Gaps = 4/116 (3%)
Query: 255 LERIKTTLEKESGKAASLNCWAQAAGVSERVLKQHLAFGWY----CREELIKSTRPLVLF 310
+ER++ + + K A+L + + + + ++ G ++E++++ LV+
Sbjct: 334 IERLRDDILRNQQKLAALESEVELTVAEIKEINRAMSIGEAKARRAKKEMVEANLRLVIS 393
Query: 311 LARNYRGLGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYWIRKSISKMVAS 366
+A+ Y G+ F DL+Q GN+G+++ ++F++ RGYKFSTY +WIR++I++ +A
Sbjct: 394 IAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIAD 449
>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 = 75.9 bits (185), Expect = 4e-13, Method: Compositional matrix adjust.
Identities = 27/71 (38%), Positives = 51/71 (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 IRKSISKMVAS 366
I+++IS+ +A
Sbjct: 492 IKQAISRAIAD 502
>sp|Q9ZMY3|RPOD_HELPJ RNA polymerase sigma factor RpoD OS=Helicobacter pylori (strain
J99) GN=rpoD PE=3 SV=1
Length = 681
Score = 75.9 bits (185), Expect = 5e-13, Method: Compositional matrix adjust.
Identities = 27/71 (38%), Positives = 51/71 (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 IRKSISKMVAS 366
I+++IS+ +A
Sbjct: 502 IKQAISRAIAD 512
>sp|P27785|RPOD_STRAU RNA polymerase sigma factor RpoD OS=Streptomyces aureofaciens
GN=rpoD PE=3 SV=1
Length = 317
Score = 75.9 bits (185), Expect = 5e-13, Method: Compositional matrix adjust.
Identities = 33/81 (40%), Positives = 54/81 (66%)
Query: 286 LKQHLAFGWYCREELIKSTRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQGAERFDHTRG 345
L + + G + LI+S LV+ +A+ Y G G+ DL+Q GN+G+++ E+FD+ RG
Sbjct: 70 LDRLVVMGRMAKRRLIESNLRLVVSVAKRYVGRGLTMLDLVQEGNLGLIRAVEKFDYARG 129
Query: 346 YKFSTYVQYWIRKSISKMVAS 366
YKFSTY +WIR+++S+ +A
Sbjct: 130 YKFSTYATWWIRQAMSRALAD 150
>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 = 75.9 bits (185), Expect = 5e-13, Method: Compositional matrix adjust.
Identities = 36/106 (33%), Positives = 66/106 (62%), Gaps = 8/106 (7%)
Query: 262 LEKESGKA-ASLNCWAQAAGVSERVLKQHLAFGWYCREELIKSTRPLVLFLARNYRGLGI 320
+EKE+G A AS+ + + E A ++E++++ LV+ +A+ Y G+
Sbjct: 348 IEKETGLAIASIKDINRRMSIGE-------AKARRAKKEMVEANLRLVISIAKKYTNRGL 400
Query: 321 PFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYWIRKSISKMVAS 366
F DL+Q GN+G+++ ++F++ RGYKFSTY +WIR++I++ +A
Sbjct: 401 QFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIAD 446
>sp|Q59996|RPSC_SYNY3 Probable RNA polymerase sigma-C factor OS=Synechocystis sp. (strain
PCC 6803 / Kazusa) GN=sigC PE=3 SV=1
Length = 404
Score = 75.9 bits (185), Expect = 5e-13, Method: Compositional matrix adjust.
Identities = 43/117 (36%), Positives = 69/117 (58%), Gaps = 9/117 (7%)
Query: 250 QVVANLERIKTTLEKESGKAASLNCWAQAAGVSERVLKQHLAFGWYCREELIKSTRPLVL 309
Q VA L K TL+ SGK WA+ AG++ L+ G + +IK+ LV+
Sbjct: 128 QTVATL---KQTLK--SGK----KRWAELAGLTVEELENIEKQGITAKAHMIKANLRLVV 178
Query: 310 FLARNYRGLGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYWIRKSISKMVAS 366
+A+ Y+ G+ DL+Q G +G+ + E+FD T+GY+FSTY +WIR+ I++ +A+
Sbjct: 179 SVAKKYQNRGLELLDLIQEGTLGLERAVEKFDPTKGYRFSTYSYWWIRQGITRAIAT 235
>sp|P17531|RPOD_MYXXA RNA polymerase sigma factor RpoD OS=Myxococcus xanthus GN=rpoD PE=3
SV=1
Length = 708
Score = 75.5 bits (184), Expect = 6e-13, Method: Compositional matrix adjust.
Identities = 28/71 (39%), Positives = 51/71 (71%)
Query: 296 CREELIKSTRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYW 355
+ EL+++ LV+ +A+ Y G+ F DL+Q GN+G+++ ++F++ RGYKFSTY +W
Sbjct: 470 AKSELVEANLRLVVSIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYKRGYKFSTYATWW 529
Query: 356 IRKSISKMVAS 366
IR++I++ +A
Sbjct: 530 IRQAITRAIAD 540
>sp|Q9KI19|RPOS_COXBU RNA polymerase sigma factor RpoS OS=Coxiella burnetii (strain RSA
493 / Nine Mile phase I) GN=rpoS PE=1 SV=1
Length = 352
Score = 75.5 bits (184), Expect = 6e-13, Method: Compositional matrix adjust.
Identities = 29/69 (42%), Positives = 50/69 (72%)
Query: 296 CREELIKSTRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYW 355
R+++I++ LV+ +AR+Y G+PF DL++ GN+G+L E+FD RG++FSTY +W
Sbjct: 113 ARKQMIEANLRLVVKIARHYVNRGLPFLDLIEEGNLGLLTAVEKFDPERGFRFSTYATWW 172
Query: 356 IRKSISKMV 364
IR++I + +
Sbjct: 173 IRQTIERAI 181
>sp|P52328|RPSD2_BACSP RNA polymerase sigma factor RpoD OS=Bacillus sp. GN=sigA PE=3 SV=1
Length = 377
Score = 75.5 bits (184), Expect = 7e-13, Method: Compositional matrix adjust.
Identities = 28/60 (46%), Positives = 46/60 (76%)
Query: 307 LVLFLARNYRGLGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYWIRKSISKMVAS 366
LV+ +A+ Y G G+ F DL+Q GN+G+++ E+FDH +G+KFSTY +WIR++I++ +A
Sbjct: 151 LVVSIAKRYVGRGMLFLDLIQEGNMGLIKAVEKFDHNKGFKFSTYATWWIRQAITRAIAD 210
>sp|Q59753|RPOD_RHIME RNA polymerase sigma factor RpoD OS=Rhizobium meliloti (strain
1021) GN=rpoD PE=3 SV=1
Length = 684
Score = 75.5 bits (184), Expect = 7e-13, Method: Compositional matrix adjust.
Identities = 27/70 (38%), Positives = 52/70 (74%)
Query: 296 CREELIKSTRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYW 355
++E++++ LV+ +A+ Y G+ F DL+Q GN+G+++ ++F++ RGYKFSTY +W
Sbjct: 446 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 505
Query: 356 IRKSISKMVA 365
IR++I++ +A
Sbjct: 506 IRQAITRSIA 515
>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 = 75.5 bits (184), Expect = 7e-13, Method: Compositional matrix adjust.
Identities = 28/71 (39%), Positives = 52/71 (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 IRKSISKMVAS 366
IR++I++ +A
Sbjct: 518 IRQAITRSIAD 528
>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 = 75.5 bits (184), Expect = 7e-13, Method: Compositional matrix adjust.
Identities = 27/71 (38%), Positives = 52/71 (73%)
Query: 296 CREELIKSTRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYW 355
++E++++ LV+ +A+ Y G+ F DL+Q GN+G+++ ++F++ RGYKFSTY +W
Sbjct: 379 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 438
Query: 356 IRKSISKMVAS 366
IR++I++ +A
Sbjct: 439 IRQAITRSIAD 449
>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 = 75.1 bits (183), Expect = 7e-13, Method: Compositional matrix adjust.
Identities = 27/71 (38%), Positives = 52/71 (73%)
Query: 296 CREELIKSTRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYW 355
++E++++ LV+ +A+ Y G+ F DL+Q GN+G+++ ++F++ RGYKFSTY +W
Sbjct: 447 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 506
Query: 356 IRKSISKMVAS 366
IR++I++ +A
Sbjct: 507 IRQAITRSIAD 517
>sp|Q1RKH7|RPOD_RICBR RNA polymerase sigma factor RpoD OS=Rickettsia bellii (strain
RML369-C) GN=rpoD PE=3 SV=1
Length = 641
Score = 75.1 bits (183), Expect = 7e-13, Method: Compositional matrix adjust.
Identities = 27/71 (38%), Positives = 52/71 (73%)
Query: 296 CREELIKSTRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYW 355
++++I++ LV+ +A+ Y G+ F DL+Q GN+G+++ ++F++ RGYKFSTY +W
Sbjct: 388 AKKDMIEANLRLVISIAKKYANRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 447
Query: 356 IRKSISKMVAS 366
IR++I++ +A
Sbjct: 448 IRQAITRAIAD 458
>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 = 75.1 bits (183), Expect = 8e-13, Method: Compositional matrix adjust.
Identities = 27/71 (38%), Positives = 52/71 (73%)
Query: 296 CREELIKSTRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYW 355
++E++++ LV+ +A+ Y G+ F DL+Q GN+G+++ ++F++ RGYKFSTY +W
Sbjct: 377 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 436
Query: 356 IRKSISKMVAS 366
IR++I++ +A
Sbjct: 437 IRQAITRSIAD 447
>sp|P0A2E4|RPOD_SALTI RNA polymerase sigma factor RpoD OS=Salmonella typhi GN=rpoD PE=3
SV=1
Length = 615
Score = 75.1 bits (183), Expect = 8e-13, Method: Compositional matrix adjust.
Identities = 27/71 (38%), Positives = 52/71 (73%)
Query: 296 CREELIKSTRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYW 355
++E++++ LV+ +A+ Y G+ F DL+Q GN+G+++ ++F++ RGYKFSTY +W
Sbjct: 377 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 436
Query: 356 IRKSISKMVAS 366
IR++I++ +A
Sbjct: 437 IRQAITRSIAD 447
>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 = 75.1 bits (183), Expect = 8e-13, Method: Compositional matrix adjust.
Identities = 27/70 (38%), Positives = 52/70 (74%)
Query: 296 CREELIKSTRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYW 355
++E++++ LV+ +A+ Y G+ F DL+Q GN+G+++ ++F++ RGYKFSTY +W
Sbjct: 446 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 505
Query: 356 IRKSISKMVA 365
IR++I++ +A
Sbjct: 506 IRQAITRSIA 515
>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 = 75.1 bits (183), Expect = 8e-13, Method: Compositional matrix adjust.
Identities = 27/71 (38%), Positives = 52/71 (73%)
Query: 296 CREELIKSTRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYW 355
++E++++ LV+ +A+ Y G+ F DL+Q GN+G+++ ++F++ RGYKFSTY +W
Sbjct: 371 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 430
Query: 356 IRKSISKMVAS 366
IR++I++ +A
Sbjct: 431 IRQAITRSIAD 441
>sp|P00579|RPOD_ECOLI RNA polymerase sigma factor RpoD OS=Escherichia coli (strain K12)
GN=rpoD PE=1 SV=2
Length = 613
Score = 75.1 bits (183), Expect = 8e-13, Method: Compositional matrix adjust.
Identities = 27/71 (38%), Positives = 52/71 (73%)
Query: 296 CREELIKSTRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYW 355
++E++++ LV+ +A+ Y G+ F DL+Q GN+G+++ ++F++ RGYKFSTY +W
Sbjct: 375 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 434
Query: 356 IRKSISKMVAS 366
IR++I++ +A
Sbjct: 435 IRQAITRSIAD 445
>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 = 75.1 bits (183), Expect = 8e-13, Method: Compositional matrix adjust.
Identities = 27/71 (38%), Positives = 52/71 (73%)
Query: 296 CREELIKSTRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYW 355
++E++++ LV+ +A+ Y G+ F DL+Q GN+G+++ ++F++ RGYKFSTY +W
Sbjct: 391 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 450
Query: 356 IRKSISKMVAS 366
IR++I++ +A
Sbjct: 451 IRQAITRSIAD 461
>sp|P52326|RPOD_PSEFL RNA polymerase sigma factor RpoD OS=Pseudomonas fluorescens GN=rpoD
PE=3 SV=1
Length = 615
Score = 75.1 bits (183), Expect = 9e-13, Method: Compositional matrix adjust.
Identities = 36/108 (33%), Positives = 65/108 (60%), Gaps = 8/108 (7%)
Query: 260 TTLEKESG-KAASLNCWAQAAGVSERVLKQHLAFGWYCREELIKSTRPLVLFLARNYRGL 318
T LE E+G K A + + + E A ++E++++ LV+ +A+ Y
Sbjct: 347 TALEVETGLKIAEIKDINRRMSIGE-------AKARRAKKEMVEANLRLVISIAKKYTNR 399
Query: 319 GIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYWIRKSISKMVAS 366
G+ F DL+Q GN+G+++ ++F++ RGYKFSTY +WIR++I++ +A
Sbjct: 400 GLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIAD 447
>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 = 74.7 bits (182), Expect = 1e-12, Method: Compositional matrix adjust.
Identities = 27/71 (38%), Positives = 52/71 (73%)
Query: 296 CREELIKSTRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYW 355
++++I++ LV+ +A+ Y G+ F DL+Q GN+G+++ ++F++ RGYKFSTY +W
Sbjct: 382 AKKDMIEANLRLVISIAKKYANRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 441
Query: 356 IRKSISKMVAS 366
IR++I++ +A
Sbjct: 442 IRQAITRAIAD 452
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
0.316 0.129 0.360
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 118,324,422
Number of Sequences: 539616
Number of extensions: 4442156
Number of successful extensions: 13585
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: 47
Number of HSP's that attempted gapping in prelim test: 13299
Number of HSP's gapped (non-prelim): 324
length of query: 368
length of database: 191,569,459
effective HSP length: 119
effective length of query: 249
effective length of database: 127,355,155
effective search space: 31711433595
effective search space used: 31711433595
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)