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= 012638
(459 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 = 357 bits (915), Expect = 2e-97, Method: Compositional matrix adjust.
Identities = 209/423 (49%), Positives = 283/423 (66%), Gaps = 22/423 (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 DLLQAGNVGVLQGAERFDHTRGYKFSTYVQYWIRKSISKMVARHARGIKIPCKLNREISK 383
DL+QAG VGVLQGAERFDHTRGYKFSTYVQYWIRKS+S MV+RHARG+ IP + R I+
Sbjct: 360 DLIQAGYVGVLQGAERFDHTRGYKFSTYVQYWIRKSMSTMVSRHARGVHIPSSIIRTINH 419
Query: 384 IQKARKALTNSHG-KYPEDIEIAKYTGLSLAEIRSASECLRIVGSIDQKIGDCLNAKYLN 442
IQKARK L SHG KY D EIAK TG S+ +IR+A++CL++VGSID+K+GDC K+L
Sbjct: 420 IQKARKTLKTSHGIKYAADEEIAKLTGHSVKKIRAANQCLKVVGSIDKKVGDCFTTKFLE 479
Query: 443 IPP 445
P
Sbjct: 480 FTP 482
>sp|O22056|SIGB_ARATH RNA polymerase sigma factor sigB OS=Arabidopsis thaliana GN=SIGB
PE=2 SV=2
Length = 572
Score = 164 bits (416), Expect = 1e-39, Method: Compositional matrix adjust.
Identities = 93/271 (34%), Positives = 159/271 (58%), Gaps = 15/271 (5%)
Query: 179 ILVPSKRKGKRKLKTARVSEESIETSLLSLPSEALQEGLKQPTIFSAE----------RA 228
+ V S R+ +RK + A+ +E + +PS K+ + + E R
Sbjct: 210 LAVRSTRQTERKARRAK----GLEKTASGIPSVKTGSSPKKKRLVAQEVDHNDPLRYLRM 265
Query: 229 LNSRGRRLTIARNEAEMSKGVQVVANLERIKTTLEKESGKAASLNCWAQAAGVSERVLKQ 288
S + LT+ R E E+S G+Q + LER++T L + SG+ + WA AAGV ++ L+Q
Sbjct: 266 TTSSSKLLTV-REEHELSAGIQDLLKLERLQTELTERSGRQPTFAQWASAAGVDQKSLRQ 324
Query: 289 HLAFGWYCREELIKSTRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQGAERFDHTRGYKF 348
+ G C++++IKS LV+ +A+NY+G G+ DL+Q G G+++GAE+FD T+G+KF
Sbjct: 325 RIHHGTLCKDKMIKSNIRLVISIAKNYQGAGMNLQDLVQEGCRGLVRGAEKFDATKGFKF 384
Query: 349 STYVQYWIRKSISKMVARHARGIKIPCKLNREISKIQKARKALTNSHGKYPEDIEIAKYT 408
STY +WI++++ K ++ +R I++P + ++++ARK L + GK+P++ EIA+ T
Sbjct: 385 STYAHWWIKQAVRKSLSDQSRMIRLPFHMVEATYRVKEARKQLYSETGKHPKNEEIAEAT 444
Query: 409 GLSLAEIRSASECLRIVGSIDQKIGDCLNAK 439
GLS+ + + + S+DQKIG N K
Sbjct: 445 GLSMKRLMAVLLSPKPPRSLDQKIGMNQNLK 475
>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 = 128 bits (321), Expect = 1e-28, Method: Compositional matrix adjust.
Identities = 62/199 (31%), Positives = 119/199 (59%)
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 WIRKSISKMVARHARGIKIPCKLNREISKIQKARKALTNSHGKYPEDIEIAKYTGLSLAE 414
WIR++I++ +A +R I++P L IS+I+K K L+ G+ P + EIA +++ +
Sbjct: 213 WIRQAITRAIADQSRTIRLPVHLYETISRIKKTTKLLSQEMGRKPTEEEIATRMEMTIEK 272
Query: 415 IRSASECLRIVGSIDQKIG 433
+R ++ ++ S++ IG
Sbjct: 273 LRFIAKSAQLPISLETPIG 291
>sp|Q9LD95|SIGF_ARATH RNA polymerase sigma factor sigF, chloroplastic OS=Arabidopsis
thaliana GN=SIGF PE=1 SV=1
Length = 547
Score = 125 bits (314), Expect = 7e-28, Method: Compositional matrix adjust.
Identities = 68/212 (32%), Positives = 118/212 (55%)
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 YWIRKSISKMVARHARGIKIPCKLNREISKIQKARKALTNSHGKYPEDIEIAKYTGLSLA 413
+WIR+SI K + +++R I++P + + K+ +ARK P E+A + G+S
Sbjct: 365 WWIRQSIRKSIFQNSRTIRLPENVYMLLGKVSEARKTCVQEGNYRPSKEELAGHVGVSTE 424
Query: 414 EIRSASECLRIVGSIDQKIGDCLNAKYLNIPP 445
++ R S+ Q I + + I P
Sbjct: 425 KLDKLLYNTRTPLSMQQPIWSDQDTTFQEITP 456
>sp|Q31QG5|RPOD3_SYNE7 RNA polymerase sigma factor rpoD3 OS=Synechococcus elongatus
(strain PCC 7942) GN=rpoD3 PE=3 SV=1
Length = 320
Score = 120 bits (301), Expect = 2e-26, Method: Compositional matrix adjust.
Identities = 64/195 (32%), Positives = 112/195 (57%), Gaps = 1/195 (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 ISKMVARHARGIKIPCKLNREISKIQKARKALTNSHGKYPEDIEIAKYTGLSLAEIRSAS 419
I++ +A AR I++P + +++KI+K ++ L+ G+ E+A L+ A++R
Sbjct: 149 ITRAIAEKARTIRLPIHITEKLNKIKKMQRQLSQQLGRTATLPELAAALDLTPAQVRDYL 208
Query: 420 ECLRIVGSIDQKIGD 434
E R S+D ++GD
Sbjct: 209 EKARHPLSLDLRVGD 223
>sp|P38023|RPOD1_SYNE7 RNA polymerase sigma factor rpoD1 OS=Synechococcus elongatus
(strain PCC 7942) GN=rpoD1 PE=3 SV=2
Length = 399
Score = 120 bits (300), Expect = 3e-26, Method: Compositional matrix adjust.
Identities = 67/206 (32%), Positives = 121/206 (58%), Gaps = 1/206 (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 FSTYVQYWIRKSISKMVARHARGIKIPCKLNREISKIQKARKALTNSHGKYPEDIEIAKY 407
FSTY +WIR++I++ +A +R I++P L IS+I+K K L+ G+ P + EIA
Sbjct: 215 FSTYATWWIRQAITRAIADQSRTIRLPVHLYETISRIKKTTKLLSQEMGRKPTEEEIATR 274
Query: 408 TGLSLAEIRSASECLRIVGSIDQKIG 433
+++ ++R ++ ++ S++ IG
Sbjct: 275 MEMTIEKLRFIAKSAQLPISLETPIG 300
>sp|P52322|RPOD_MICAE RNA polymerase sigma factor rpoD1 OS=Microcystis aeruginosa
GN=rpoD1 PE=3 SV=1
Length = 416
Score = 114 bits (284), Expect = 2e-24, Method: Compositional matrix adjust.
Identities = 59/180 (32%), Positives = 103/180 (57%)
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 PCKLNREISKIQKARKALTNSHGKYPEDIEIAKYTGLSLAEIRSASECLRIVGSIDQKIG 433
P L IS+I+K K L+ + P + EIA +++ ++R ++ ++ S++ IG
Sbjct: 258 PVHLYETISRIKKTTKILSQEMRRKPTEEEIATKMEMTIEKLRFIAKSAQLPISLETPIG 317
>sp|Q31ME3|RPOD2_SYNE7 RNA polymerase sigma factor rpoD2 OS=Synechococcus elongatus
(strain PCC 7942) GN=rpoD2 PE=1 SV=1
Length = 320
Score = 113 bits (282), Expect = 4e-24, Method: Compositional matrix adjust.
Identities = 64/208 (30%), Positives = 115/208 (55%), Gaps = 1/208 (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 FSTYVQYWIRKSISKMVARHARGIKIPCKLNREISKIQKARKALTNSHGKYPEDIEIAKY 407
FSTY +WIR++I++ +A+ +R I++P + +++K++K ++ L+ G+ E+A+
Sbjct: 137 FSTYAYWWIRQAITRAIAQQSRTIRLPIHITEKLNKLKKTQRELSQQLGRSATASELAEV 196
Query: 408 TGLSLAEIRSASECLRIVGSIDQKIGDC 435
L L ++R + R S+D K+GD
Sbjct: 197 LELPLEQVREYIQMNRQPVSLDVKVGDS 224
>sp|P0A602|RPOD_MYCTU RNA polymerase sigma factor RpoD OS=Mycobacterium tuberculosis
GN=rpoD PE=1 SV=1
Length = 528
Score = 112 bits (279), Expect = 7e-24, Method: Compositional matrix adjust.
Identities = 54/147 (36%), Positives = 90/147 (61%), Gaps = 6/147 (4%)
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 FSTYVQYWIRKSISKMVARHARGIKIPCKLNREISKIQKARKALTNSHGKYPEDIEIAKY 407
FSTY +WIR++I++ +A AR I+IP + I+K+ + ++ L G+ P E+AK
Sbjct: 343 FSTYATWWIRQAITRAMADQARTIRIPVHMVEVINKLGRIQRELLQDLGREPTPEELAKE 402
Query: 408 TGLSLAEIRSASECLRIVGSIDQKIGD 434
++ ++ + R S+DQ IGD
Sbjct: 403 MDITPEKVLEIQQYAREPISLDQTIGD 429
>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 = 112 bits (279), Expect = 7e-24, Method: Compositional matrix adjust.
Identities = 54/147 (36%), Positives = 90/147 (61%), Gaps = 6/147 (4%)
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 FSTYVQYWIRKSISKMVARHARGIKIPCKLNREISKIQKARKALTNSHGKYPEDIEIAKY 407
FSTY +WIR++I++ +A AR I+IP + I+K+ + ++ L G+ P E+AK
Sbjct: 343 FSTYATWWIRQAITRAMADQARTIRIPVHMVEVINKLGRIQRELLQDLGREPTPEELAKE 402
Query: 408 TGLSLAEIRSASECLRIVGSIDQKIGD 434
++ ++ + R S+DQ IGD
Sbjct: 403 MDITPEKVLEIQQYAREPISLDQTIGD 429
>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 = 111 bits (277), Expect = 1e-23, Method: Compositional matrix adjust.
Identities = 53/139 (38%), Positives = 85/139 (61%)
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 IRKSISKMVARHARGIKIPCKLNREISKIQKARKALTNSHGKYPEDIEIAKYTGLSLAEI 415
IR++I++ +A AR I+IP + I+K+ + R+ HG+ P E+AK G +I
Sbjct: 215 IRQAITRAIADQARTIRIPVHMVETINKLNRLRREYYQKHGEEPSIEELAKMMGKPPEKI 274
Query: 416 RSASECLRIVGSIDQKIGD 434
+ E + S++ IG+
Sbjct: 275 KEILEAAKETISLESPIGE 293
>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 = 111 bits (277), Expect = 1e-23, Method: Compositional matrix adjust.
Identities = 62/201 (30%), Positives = 116/201 (57%), Gaps = 2/201 (0%)
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 QYWIRKSISKMVARHARGIKIPCKLNREISKIQKARKALTNSHGKYPEDIEIAKYTGLSL 412
+WIR+ I++ +A+ +R I++P + +++KI+ ++ L+ G EIA+ L
Sbjct: 154 YWWIRQGITRAIAQQSRTIRLPIHMADKLNKIKCVQRELSQKLGYIAGVTEIAQALNLEP 213
Query: 413 AEIRSASECLRIVGSIDQKIG 433
++IR + +R S+D +IG
Sbjct: 214 SQIREYLQLVRQPVSLDMRIG 234
>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 = 109 bits (272), Expect = 5e-23, Method: Compositional matrix adjust.
Identities = 65/223 (29%), Positives = 118/223 (52%), Gaps = 25/223 (11%)
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 GVLQGAERFDHTRGYKFSTYVQYWIRKSISKMVARHARGIKIPCKLNREISKIQKARKAL 391
G+++ E+F++ RG+KFSTY +WIR++I++ ++ AR I++P + +I+++ + + L
Sbjct: 427 GLIKAVEKFEYKRGFKFSTYATWWIRQAITRSISDQARTIRVPVHMIEQINRLNRETRYL 486
Query: 392 TNSHGKYPEDIEIAKYTGLSLAEIRSASECLRIVGSIDQKIGD 434
GK P D E++ G L ++++ R S++ IG+
Sbjct: 487 IQVLGKDPTDEELSDRLGWELKKVKTVKSVSREPVSLETPIGE 529
>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 = 108 bits (269), Expect = 1e-22, Method: Compositional matrix adjust.
Identities = 51/161 (31%), Positives = 99/161 (61%)
Query: 273 NCWAQAAGVSERVLKQHLAFGWYCREELIKSTRPLVLFLARNYRGLGIPFSDLLQAGNVG 332
N W+Q + ++ L ++++++S LV+ +A+ Y G+ F DL+Q G++G
Sbjct: 166 NEWSQQPNKNFAAFRRRLFLDRRAKDKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLG 225
Query: 333 VLQGAERFDHTRGYKFSTYVQYWIRKSISKMVARHARGIKIPCKLNREISKIQKARKALT 392
+++ AE+FDH +GYKFSTY +WIR++I++ +A +R I++P L IS+I+K K L+
Sbjct: 226 LIRAAEKFDHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETISRIKKTTKLLS 285
Query: 393 NSHGKYPEDIEIAKYTGLSLAEIRSASECLRIVGSIDQKIG 433
+ P + EIA+ +++ ++R ++ ++ S++ IG
Sbjct: 286 QEMRRKPTEEEIAEKMEMTIEKLRFIAKSAQLPISLETPIG 326
>sp|Q59914|HRDD_STRGR RNA polymerase principal sigma factor HrdD OS=Streptomyces griseus
GN=hrdD PE=3 SV=1
Length = 332
Score = 106 bits (264), Expect = 4e-22, Method: Compositional matrix adjust.
Identities = 49/140 (35%), Positives = 85/140 (60%)
Query: 266 SGKAASLNCWAQAAGVSERVLKQHLAFGWYCREELIKSTRPLVLFLARNYRGLGIPFSDL 325
+GK + +AG S L+ +A G ++ I+S LV+ +AR Y G+P DL
Sbjct: 66 AGKILDGEVDSDSAGASREELEALVAEGERAKDVFIRSNLRLVVAVARRYPRSGLPLLDL 125
Query: 326 LQAGNVGVLQGAERFDHTRGYKFSTYVQYWIRKSISKMVARHARGIKIPCKLNREISKIQ 385
+Q GN G+++ E+FD+ +G+KFSTY +WIR++I++ +A +R I++P L E+ +I+
Sbjct: 126 IQEGNAGLVRAVEKFDYAKGFKFSTYATWWIRQAITRSIADQSRTIRLPVHLVEELGRIR 185
Query: 386 KARKALTNSHGKYPEDIEIA 405
+ ++ +G+ PE EIA
Sbjct: 186 RVQREFNRENGRDPEPAEIA 205
>sp|Q1RKH7|RPOD_RICBR RNA polymerase sigma factor RpoD OS=Rickettsia bellii (strain
RML369-C) GN=rpoD PE=3 SV=1
Length = 641
Score = 105 bits (262), Expect = 8e-22, Method: Compositional matrix adjust.
Identities = 47/146 (32%), Positives = 88/146 (60%)
Query: 296 CREELIKSTRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYW 355
++++I++ LV+ +A+ Y G+ F DL+Q GN+G+++ ++F++ RGYKFSTY +W
Sbjct: 388 AKKDMIEANLRLVISIAKKYANRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 447
Query: 356 IRKSISKMVARHARGIKIPCKLNREISKIQKARKALTNSHGKYPEDIEIAKYTGLSLAEI 415
IR++I++ +A AR I+IP + I+KI + + + N G P EIA + + ++
Sbjct: 448 IRQAITRAIADQARTIRIPVHMIETINKIIRTSRQMLNELGYEPTPAEIAARLSMPIDKV 507
Query: 416 RSASECLRIVGSIDQKIGDCLNAKYL 441
R + + S++ +GD + YL
Sbjct: 508 RKVMKIAKEPISLENPVGDGDDNSYL 533
>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 = 105 bits (261), Expect = 9e-22, Method: Compositional matrix adjust.
Identities = 46/145 (31%), Positives = 91/145 (62%)
Query: 296 CREELIKSTRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYW 355
+ ++ KS LV+ +A+ + G+PF DL+Q GN+G+++ ++F+H +G+KFSTY +W
Sbjct: 432 AKNKMAKSNLRLVVSIAKRFTSRGLPFLDLIQEGNIGLMKAVDKFEHEKGFKFSTYATWW 491
Query: 356 IRKSISKMVARHARGIKIPCKLNREISKIQKARKALTNSHGKYPEDIEIAKYTGLSLAEI 415
I+++IS+ +A AR I+IP + I++I K + +GK P+ +A+ GLSL ++
Sbjct: 492 IKQAISRAIADQARTIRIPIHMIDTINRINKVMRKHIQENGKEPDLEVVAEEVGLSLDKV 551
Query: 416 RSASECLRIVGSIDQKIGDCLNAKY 440
++ + + S++ +G+ + K+
Sbjct: 552 KNVIKVTKEPISLETPVGNDDDGKF 576
>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 = 105 bits (261), Expect = 1e-21, Method: Compositional matrix adjust.
Identities = 58/194 (29%), Positives = 112/194 (57%), Gaps = 9/194 (4%)
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 FLARNYRGLGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYWIRKSISKMVARHAR 369
+A+ Y+ G+ DL+Q G +G+ + E+FD T+GY+FSTY +WIR+ I++ +A +R
Sbjct: 179 SVAKKYQNRGLELLDLIQEGTLGLERAVEKFDPTKGYRFSTYSYWWIRQGITRAIATQSR 238
Query: 370 GIKIPCKLNREISKIQKARKALTNSHGKYPEDIEIAKYTGLSLAEIRSASECLRIVGSID 429
I++P + +++KI++A++ ++ G P+ E+A+ G++ ++R + S++
Sbjct: 239 MIRLPVHITEKLNKIKRAQRKISQEKGHTPKIDEVAEELGMTPEQVREVLTQVPRSVSLE 298
Query: 430 QKIGDCLNAKYLNI 443
K+G + + +++
Sbjct: 299 LKVGQDKDTELMDL 312
>sp|Q9Z7F0|RPOD_CHLPN RNA polymerase sigma factor RpoD OS=Chlamydia pneumoniae GN=rpoD
PE=3 SV=1
Length = 572
Score = 104 bits (260), Expect = 1e-21, Method: Compositional matrix adjust.
Identities = 49/151 (32%), Positives = 92/151 (60%)
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 RGYKFSTYVQYWIRKSISKMVARHARGIKIPCKLNREISKIQKARKALTNSHGKYPEDIE 403
RGYKFSTY +WIR+++++ +A AR I+IP + I+K+ + K L GK P E
Sbjct: 365 RGYKFSTYATWWIRQAVTRAIADQARTIRIPVHMIETINKVLRGAKKLMMETGKEPTPEE 424
Query: 404 IAKYTGLSLAEIRSASECLRIVGSIDQKIGD 434
+A+ GL+ +R + + S+ ++G+
Sbjct: 425 LAEELGLTPDRVREIYKIAQHPISLQAEVGE 455
>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 = 104 bits (259), Expect = 1e-21, Method: Compositional matrix adjust.
Identities = 55/185 (29%), Positives = 102/185 (55%), Gaps = 10/185 (5%)
Query: 250 QVVANLERIKTTLEKESGKAASLNCWAQAAGVSERVLKQHLAFGWYCREELIKSTRPLVL 309
Q++A L I ES +N + + ++ +Q L ++++I++ LV+
Sbjct: 346 QMIAELSVI------ESNTGLLVNDFKKLVNTIQKSERQTLQ----AKKDMIEANLRLVI 395
Query: 310 FLARNYRGLGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYWIRKSISKMVARHAR 369
+A+ Y G+ F DL+Q GN+G+++ ++F++ RGYKFSTY +WIR++I++ +A AR
Sbjct: 396 SIAKKYANRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRAIADQAR 455
Query: 370 GIKIPCKLNREISKIQKARKALTNSHGKYPEDIEIAKYTGLSLAEIRSASECLRIVGSID 429
I+IP + I+KI + + + N G P EIA + L ++R + + S++
Sbjct: 456 TIRIPVHMIETINKILRTSRQMLNELGYEPTATEIANRLSMPLDKVRKVMKIAKEPISLE 515
Query: 430 QKIGD 434
+GD
Sbjct: 516 NPVGD 520
>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 = 104 bits (259), Expect = 1e-21, Method: Compositional matrix adjust.
Identities = 46/139 (33%), Positives = 85/139 (61%)
Query: 296 CREELIKSTRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYW 355
++++I++ LV+ +A+ Y G+ F DL+Q GN+G+++ ++F++ RGYKFSTY +W
Sbjct: 381 AKKDMIEANLRLVISIAKKYANRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 440
Query: 356 IRKSISKMVARHARGIKIPCKLNREISKIQKARKALTNSHGKYPEDIEIAKYTGLSLAEI 415
IR++I++ +A AR I+IP + I+KI + + + N G P EIA + L ++
Sbjct: 441 IRQAITRAIADQARTIRIPVHMIETINKILRTSRQMLNELGYEPTATEIANRLSMPLDKV 500
Query: 416 RSASECLRIVGSIDQKIGD 434
R + + S++ +GD
Sbjct: 501 RKVMKIAKEPISLENPVGD 519
>sp|P33451|RPOD_RICPR RNA polymerase sigma factor RpoD OS=Rickettsia prowazekii (strain
Madrid E) GN=rpoD PE=3 SV=1
Length = 635
Score = 104 bits (259), Expect = 2e-21, Method: Compositional matrix adjust.
Identities = 46/139 (33%), Positives = 85/139 (61%)
Query: 296 CREELIKSTRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYW 355
++++I++ LV+ +A+ Y G+ F DL+Q GN+G+++ ++F++ RGYKFSTY +W
Sbjct: 382 AKKDMIEANLRLVISIAKKYANRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 441
Query: 356 IRKSISKMVARHARGIKIPCKLNREISKIQKARKALTNSHGKYPEDIEIAKYTGLSLAEI 415
IR++I++ +A AR I+IP + I+KI + + + N G P EIA + L ++
Sbjct: 442 IRQAITRAIADQARTIRIPVHMIETINKILRTSRQMLNELGYEPTATEIANRLSMPLDKV 501
Query: 416 RSASECLRIVGSIDQKIGD 434
R + + S++ +GD
Sbjct: 502 RKVMKIAKEPISLENPVGD 520
>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 = 104 bits (259), Expect = 2e-21, Method: Compositional matrix adjust.
Identities = 46/139 (33%), Positives = 85/139 (61%)
Query: 296 CREELIKSTRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYW 355
++++I++ LV+ +A+ Y G+ F DL+Q GN+G+++ ++F++ RGYKFSTY +W
Sbjct: 382 AKKDMIEANLRLVISIAKKYANRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 441
Query: 356 IRKSISKMVARHARGIKIPCKLNREISKIQKARKALTNSHGKYPEDIEIAKYTGLSLAEI 415
IR++I++ +A AR I+IP + I+KI + + + N G P EIA + L ++
Sbjct: 442 IRQAITRAIADQARTIRIPVHMIETINKILRTSRQMLNELGYEPTATEIANRLSMPLDKV 501
Query: 416 RSASECLRIVGSIDQKIGD 434
R + + S++ +GD
Sbjct: 502 RKVMKIAKEPISLENPVGD 520
>sp|Q9ZMY3|RPOD_HELPJ RNA polymerase sigma factor RpoD OS=Helicobacter pylori (strain
J99) GN=rpoD PE=3 SV=1
Length = 681
Score = 104 bits (259), Expect = 2e-21, Method: Compositional matrix adjust.
Identities = 46/145 (31%), Positives = 90/145 (62%)
Query: 296 CREELIKSTRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYW 355
+ ++ KS LV+ +A+ + G+PF DL+Q GN+G+++ ++F+H +G+KFSTY +W
Sbjct: 442 AKNKMAKSNLRLVVSIAKRFTSRGLPFLDLIQEGNIGLMKAVDKFEHEKGFKFSTYATWW 501
Query: 356 IRKSISKMVARHARGIKIPCKLNREISKIQKARKALTNSHGKYPEDIEIAKYTGLSLAEI 415
I+++IS+ +A AR I+IP + I++I K + GK P+ +A+ GLSL ++
Sbjct: 502 IKQAISRAIADQARTIRIPIHMIDTINRINKVMRKHIQETGKEPDLEVVAEEVGLSLDKV 561
Query: 416 RSASECLRIVGSIDQKIGDCLNAKY 440
++ + + S++ +G+ + K+
Sbjct: 562 KNVIKVTKEPISLETPVGNDDDGKF 586
>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 = 103 bits (257), Expect = 3e-21, Method: Compositional matrix adjust.
Identities = 53/194 (27%), Positives = 108/194 (55%), Gaps = 8/194 (4%)
Query: 241 NEAEMSKGVQVVANLERIKTTLEKESGKAAS-LNCWAQAAGVSERVLKQHLAFGWYCREE 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 ISKMVARHARGIKIPCKLNREISKIQKARKALTNSHGKYPEDIEIAKYTGLSLAEIRSAS 419
I++ ++ AR I++P + +++K+ + + G+ P + EIA+ G + +++
Sbjct: 411 ITRAISDQARTIRVPVHMIEQVNKVIRETRLFIQEFGRDPNNEEIAERLGWPVQKVKMVK 470
Query: 420 ECLRIVGSIDQKIG 433
R S++ +G
Sbjct: 471 NVAREPISLEIPVG 484
>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 = 103 bits (257), Expect = 3e-21, Method: Compositional matrix adjust.
Identities = 53/194 (27%), Positives = 108/194 (55%), Gaps = 8/194 (4%)
Query: 241 NEAEMSKGVQVVANLERIKTTLEKESGKAAS-LNCWAQAAGVSERVLKQHLAFGWYCREE 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 ISKMVARHARGIKIPCKLNREISKIQKARKALTNSHGKYPEDIEIAKYTGLSLAEIRSAS 419
I++ ++ AR I++P + +++K+ + + G+ P + EIA+ G + +++
Sbjct: 411 ITRAISDQARTIRVPVHMIEQVNKVIRETRLFIQEFGRDPNNEEIAERLGWPVQKVKMVK 470
Query: 420 ECLRIVGSIDQKIG 433
R S++ +G
Sbjct: 471 NVAREPISLEIPVG 484
>sp|P56835|RPOD_CHLMU RNA polymerase sigma factor RpoD OS=Chlamydia muridarum (strain
MoPn / Nigg) GN=rpoD PE=3 SV=1
Length = 571
Score = 103 bits (256), Expect = 3e-21, Method: Compositional matrix adjust.
Identities = 48/152 (31%), Positives = 90/152 (59%)
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 RGYKFSTYVQYWIRKSISKMVARHARGIKIPCKLNREISKIQKARKALTNSHGKYPEDIE 403
RGYKFSTY +WIR+++++ +A AR I+IP + I+K+ + K L GK P E
Sbjct: 365 RGYKFSTYATWWIRQAVTRAIADQARTIRIPVHMIETINKVLRGAKKLMMETGKEPTPEE 424
Query: 404 IAKYTGLSLAEIRSASECLRIVGSIDQKIGDC 435
+ + G + +R + + S+ ++GD
Sbjct: 425 LGEELGFTPDRVREIYKIAQHPISLQAEVGDS 456
>sp|Q60012|HRDD_STRVF RNA polymerase principal sigma factor HrdD OS=Streptomyces
viridifaciens GN=hrdD PE=3 SV=1
Length = 332
Score = 102 bits (255), Expect = 5e-21, Method: Compositional matrix adjust.
Identities = 43/117 (36%), Positives = 74/117 (63%)
Query: 293 GWYCREELIKSTRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYV 352
G ++ I+S LV+ +AR Y G+P DL+Q GN G+++ E+FD+ +G+KFSTY
Sbjct: 93 GERAKDVFIRSNLRLVVAVARRYPRSGLPLLDLIQEGNAGLVRAVEKFDYRKGFKFSTYA 152
Query: 353 QYWIRKSISKMVARHARGIKIPCKLNREISKIQKARKALTNSHGKYPEDIEIAKYTG 409
+WIR++I++ +A +R I++P L E+ +I++ ++ HG+ PE E+A G
Sbjct: 153 TWWIRQAITRSIADQSRTIRLPVHLVEELGRIRRVQREFNREHGRDPEPAEVAAELG 209
>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 = 102 bits (255), Expect = 5e-21, Method: Compositional matrix adjust.
Identities = 48/151 (31%), Positives = 90/151 (59%)
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 RGYKFSTYVQYWIRKSISKMVARHARGIKIPCKLNREISKIQKARKALTNSHGKYPEDIE 403
RGYKFSTY +WIR+++++ +A AR I+IP + I+K+ + K L GK P E
Sbjct: 365 RGYKFSTYATWWIRQAVTRAIADQARTIRIPVHMIETINKVLRGAKKLMMETGKEPTPEE 424
Query: 404 IAKYTGLSLAEIRSASECLRIVGSIDQKIGD 434
+ + G + +R + + S+ ++GD
Sbjct: 425 LGEELGFTPDRVREIYKIAQHPISLQAEVGD 455
>sp|P18249|HRDD_STRCO RNA polymerase principal sigma factor HrdD OS=Streptomyces
coelicolor (strain ATCC BAA-471 / A3(2) / M145) GN=hrdD
PE=3 SV=2
Length = 332
Score = 102 bits (255), Expect = 5e-21, Method: Compositional matrix adjust.
Identities = 43/114 (37%), Positives = 73/114 (64%)
Query: 296 CREELIKSTRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYW 355
++ I+S LV+ +AR Y G+P DL+Q GN G+++ E+FD+ +G+KFSTY +W
Sbjct: 96 AKDVFIRSNLRLVVAVARRYPRSGLPLLDLIQEGNAGLVRAVEKFDYRKGFKFSTYATWW 155
Query: 356 IRKSISKMVARHARGIKIPCKLNREISKIQKARKALTNSHGKYPEDIEIAKYTG 409
IR++I++ +A +R I++P L E+ +I++ ++ HG+ PE EIA G
Sbjct: 156 IRQAITRSIADQSRTIRLPVHLVEELGRIRRVQREFNREHGREPEPAEIAAELG 209
>sp|Q59753|RPOD_RHIME RNA polymerase sigma factor RpoD OS=Rhizobium meliloti (strain
1021) GN=rpoD PE=3 SV=1
Length = 684
Score = 102 bits (254), Expect = 5e-21, Method: Compositional matrix adjust.
Identities = 44/139 (31%), Positives = 87/139 (62%)
Query: 296 CREELIKSTRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYW 355
++E++++ LV+ +A+ Y G+ F DL+Q GN+G+++ ++F++ RGYKFSTY +W
Sbjct: 446 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 505
Query: 356 IRKSISKMVARHARGIKIPCKLNREISKIQKARKALTNSHGKYPEDIEIAKYTGLSLAEI 415
IR++I++ +A AR I+IP + I+KI + + + + G+ P E+A+ + L ++
Sbjct: 506 IRQAITRSIADQARTIRIPVHMIETINKIVRTSRQMLHEIGREPTPEELAEKLAMPLEKV 565
Query: 416 RSASECLRIVGSIDQKIGD 434
R + + S++ +GD
Sbjct: 566 RKVLKIAKEPISLETPVGD 584
>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 = 102 bits (254), Expect = 7e-21, Method: Compositional matrix adjust.
Identities = 44/139 (31%), Positives = 87/139 (62%)
Query: 296 CREELIKSTRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYW 355
++E++++ LV+ +A+ Y G+ F DL+Q GN+G+++ ++F++ RGYKFSTY +W
Sbjct: 446 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 505
Query: 356 IRKSISKMVARHARGIKIPCKLNREISKIQKARKALTNSHGKYPEDIEIAKYTGLSLAEI 415
IR++I++ +A AR I+IP + I+KI + + + + G+ P E+A+ + L ++
Sbjct: 506 IRQAITRSIADQARTIRIPVHMIETINKIVRTSRQMLHEIGREPTPEELAEKLAMPLEKV 565
Query: 416 RSASECLRIVGSIDQKIGD 434
R + + S++ +GD
Sbjct: 566 RKVLKIAKEPISLETPVGD 584
>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 = 102 bits (254), Expect = 7e-21, Method: Compositional matrix adjust.
Identities = 44/139 (31%), Positives = 87/139 (62%)
Query: 296 CREELIKSTRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYW 355
++E++++ LV+ +A+ Y G+ F DL+Q GN+G+++ ++F++ RGYKFSTY +W
Sbjct: 447 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 506
Query: 356 IRKSISKMVARHARGIKIPCKLNREISKIQKARKALTNSHGKYPEDIEIAKYTGLSLAEI 415
IR++I++ +A AR I+IP + I+KI + + + + G+ P E+A+ + L ++
Sbjct: 507 IRQAITRSIADQARTIRIPVHMIETINKIVRTSRQMLHEIGREPTPEELAEKLAMPLEKV 566
Query: 416 RSASECLRIVGSIDQKIGD 434
R + + S++ +GD
Sbjct: 567 RKVLKIAKEPISLETPVGD 585
>sp|P52324|RPOD_CAUCR RNA polymerase sigma factor RpoD OS=Caulobacter crescentus (strain
ATCC 19089 / CB15) GN=rpoD PE=3 SV=1
Length = 652
Score = 102 bits (254), Expect = 7e-21, Method: Compositional matrix adjust.
Identities = 45/139 (32%), Positives = 87/139 (62%)
Query: 296 CREELIKSTRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYW 355
++E++++ LV+ +A+ Y G+ F DL+Q GN+G+++ ++F++ RGYKFSTY +W
Sbjct: 414 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 473
Query: 356 IRKSISKMVARHARGIKIPCKLNREISKIQKARKALTNSHGKYPEDIEIAKYTGLSLAEI 415
IR++I++ +A AR I+IP + I+KI + + + + G+ P E+A+ + L ++
Sbjct: 474 IRQAITRSIADQARTIRIPVHMIETINKIVRTSRQMLHEIGREPTPEELAEKLAMPLEKV 533
Query: 416 RSASECLRIVGSIDQKIGD 434
R + + S++ IGD
Sbjct: 534 RKVLKIAKEPISLETPIGD 552
>sp|Q9ZSL6|SIGD_ARATH RNA polymerase sigma factor sigD, chloroplastic OS=Arabidopsis
thaliana GN=SIGD PE=2 SV=1
Length = 419
Score = 102 bits (253), Expect = 9e-21, Method: Compositional matrix adjust.
Identities = 61/178 (34%), Positives = 102/178 (57%), Gaps = 3/178 (1%)
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 IPCKLNREISKIQKARKALTNSHGKYPEDIEIAKYTGLSLAEIRSASECLRIVGSIDQ 430
+P + +K+ +A LT + P EIA++ L+++ +R A E R S+D+
Sbjct: 256 LPGSMWELTAKVAEASNVLTRKLRRQPSCEEIAEHLNLNVSAVRLAVERSRSPVSLDR 313
>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 = 101 bits (252), Expect = 1e-20, Method: Compositional matrix adjust.
Identities = 46/140 (32%), Positives = 87/140 (62%)
Query: 295 YCREELIKSTRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQY 354
+ ++ L ++ LV+ +A+ Y G G+ F DL+Q GN+G+++ ++FDHT+G+KFSTY +
Sbjct: 149 FAKQMLAEANLRLVVSIAKRYSGRGMQFLDLIQEGNMGLMKAVDKFDHTKGFKFSTYATW 208
Query: 355 WIRKSISKMVARHARGIKIPCKLNREISKIQKARKALTNSHGKYPEDIEIAKYTGLSLAE 414
WIR++I++ +A AR I+IP + I+K+ + ++ L G+ P EI K ++ +
Sbjct: 209 WIRQAITRAIADQARTIRIPVHMVETINKLIRVQRNLLQELGRDPSPEEIGKELHMAPDK 268
Query: 415 IRSASECLRIVGSIDQKIGD 434
+R + + S++ IG+
Sbjct: 269 VREVLKIAQEPVSLETPIGE 288
>sp|P52328|RPSD2_BACSP RNA polymerase sigma factor RpoD OS=Bacillus sp. GN=sigA PE=3 SV=1
Length = 377
Score = 101 bits (252), Expect = 1e-20, Method: Compositional matrix adjust.
Identities = 47/128 (36%), Positives = 80/128 (62%)
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 HARGIKIPCKLNREISKIQKARKALTNSHGKYPEDIEIAKYTGLSLAEIRSASECLRIVG 426
AR I+IP + I+K+ + + L G+ P EIA LS+ ++R + +
Sbjct: 211 QARTIRIPVHMVETINKLIRVSRQLLQELGREPTPEEIAAEMELSVEKVREIMKIAQEPV 270
Query: 427 SIDQKIGD 434
S++ IG+
Sbjct: 271 SLETPIGE 278
>sp|P17531|RPOD_MYXXA RNA polymerase sigma factor RpoD OS=Myxococcus xanthus GN=rpoD PE=3
SV=1
Length = 708
Score = 101 bits (251), Expect = 1e-20, Method: Compositional matrix adjust.
Identities = 53/157 (33%), Positives = 90/157 (57%), Gaps = 8/157 (5%)
Query: 296 CREELIKSTRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYW 355
+ EL+++ LV+ +A+ Y G+ F DL+Q GN+G+++ ++F++ RGYKFSTY +W
Sbjct: 470 AKSELVEANLRLVVSIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYKRGYKFSTYATWW 529
Query: 356 IRKSISKMVARHARGIKIPCKLNREISKIQKARKALTNSHGKYPEDIEIAKYTGLSLAEI 415
IR++I++ +A AR I+IP + I+K+ + + L G+ P EIA+ L L ++
Sbjct: 530 IRQAITRAIADQARTIRIPVHMIETINKLIRTSRYLVQEIGREPTPEEIAEKMELPLDKV 589
Query: 416 RS----ASECLRIVGSI----DQKIGDCLNAKYLNIP 444
R A E + + I D +GD + K L P
Sbjct: 590 RKVLKIAKEPISLETPIGEEEDSHLGDFIEDKSLVSP 626
>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 = 100 bits (250), Expect = 2e-20, Method: Compositional matrix adjust.
Identities = 48/150 (32%), Positives = 92/150 (61%)
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 RGYKFSTYVQYWIRKSISKMVARHARGIKIPCKLNREISKIQKARKALTNSHGKYPEDIE 403
+G+KFSTY +WIR++I++ +A +R I++P L +++K+ + ++ + G+ + E
Sbjct: 140 KGFKFSTYATWWIRQAITRGMADQSRTIRLPVHLVEQVNKLSRIKREMYQQLGREATNEE 199
Query: 404 IAKYTGLSLAEIRSASECLRIVGSIDQKIG 433
+A+ +G+ ++I R S+D +G
Sbjct: 200 LAEESGIEESKIEMLLRQSRDPVSLDMPVG 229
>sp|O83506|RPOD_TREPA RNA polymerase sigma factor RpoD OS=Treponema pallidum (strain
Nichols) GN=rpoD PE=3 SV=1
Length = 611
Score = 100 bits (250), Expect = 2e-20, Method: Compositional matrix adjust.
Identities = 55/208 (26%), Positives = 116/208 (55%), Gaps = 7/208 (3%)
Query: 233 GRRLTIARNEAEMSKGVQVVAN-LERIKTTLEKESGKAASL-----NCWAQAAGVSERVL 286
GR L + R A++ + + + A+ ++ I T ++K + + + N ++ +
Sbjct: 305 GRGLAVPRQRAKLEETLGMSADCIQEIYTQIQKVTRRLRRIEYDFENTIDGILSMARAIH 364
Query: 287 KQHLAFGWYCREELIKSTRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQGAERFDHTRGY 346
+ H+ +++LI + LV+ +A+ Y G+ F DL+Q GN+G+++ E+F++ +GY
Sbjct: 365 RGHVMLK-KAKDKLINANLRLVVSIAKKYTNRGLLFFDLVQEGNIGLIKAVEKFEYRKGY 423
Query: 347 KFSTYVQYWIRKSISKMVARHARGIKIPCKLNREISKIQKARKALTNSHGKYPEDIEIAK 406
KFSTY +WIR++I++ ++ AR I++P + +I+K+ + + L G+ P D EIA+
Sbjct: 424 KFSTYATWWIRQAITRSISDQARTIRVPVHMIEQINKVTRESRQLLQKFGREPSDEEIAQ 483
Query: 407 YTGLSLAEIRSASECLRIVGSIDQKIGD 434
++ +++ R S++ IG+
Sbjct: 484 QLCWTVEKVKQVKSVAREPISLETPIGE 511
>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 = 100 bits (250), Expect = 2e-20, Method: Compositional matrix adjust.
Identities = 44/139 (31%), Positives = 87/139 (62%)
Query: 296 CREELIKSTRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYW 355
++E++++ LV+ +A+ Y G+ F DL+Q GN+G+++ ++F++ RGYKFSTY +W
Sbjct: 436 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 495
Query: 356 IRKSISKMVARHARGIKIPCKLNREISKIQKARKALTNSHGKYPEDIEIAKYTGLSLAEI 415
IR++I++ +A AR I+IP + I+K+ + + + + G+ P E+A+ + L ++
Sbjct: 496 IRQAITRSIADQARTIRIPVHMIETINKLVRTGRQMLHEIGREPTPEELAEKLQMPLEKV 555
Query: 416 RSASECLRIVGSIDQKIGD 434
R + + S++ IGD
Sbjct: 556 RKVMKIAKEPISLETPIGD 574
>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 = 100 bits (249), Expect = 2e-20, Method: Compositional matrix adjust.
Identities = 49/161 (30%), Positives = 97/161 (60%), Gaps = 4/161 (2%)
Query: 275 WAQAAGVSERVLKQHLAFGWYCREELIKSTRPLVLFLARNYRGLGIPFSDLLQAGNVGVL 334
WA+ A ++ L++ + G +E +IK+ LV+ +A+ Y+ G+ DL+Q G +G+
Sbjct: 156 WAEIAKMTVEELEKMQSQGLQSKEHMIKANLRLVVSVAKKYQNRGLELLDLVQEGTLGLE 215
Query: 335 QGAERFDHTRGYKFSTYVQYWIRKSISKMVARHARGIKIPCKLNREISKIQKARKALTNS 394
+ E+FD T+GY+FSTY +WIR+ I++ +A +R I++P + +++KI+KA++ +
Sbjct: 216 RAVEKFDPTKGYRFSTYAYWWIRQGITRAIATSSRTIRLPVHITEKLNKIKKAQRKIAQE 275
Query: 395 HGKYPEDIEIAKYTGLSLAEIRSASECLRIVGSI--DQKIG 433
G+ P ++A ++ ++R LR+ S+ + K+G
Sbjct: 276 KGRTPTLEDLAIELDMTPTQVREV--LLRVPRSVSLETKVG 314
>sp|P77951|HRDB_STRGR RNA polymerase principal sigma factor HrdB OS=Streptomyces griseus
GN=hrdB PE=1 SV=1
Length = 514
Score = 100 bits (248), Expect = 3e-20, Method: Compositional matrix adjust.
Identities = 44/114 (38%), Positives = 75/114 (65%)
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 QYWIRKSISKMVARHARGIKIPCKLNREISKIQKARKALTNSHGKYPEDIEIAK 406
+WIR++I++ +A AR I+IP + I+K+ + ++ + G+ P E+AK
Sbjct: 334 TWWIRQAITRAMADQARTIRIPVHMVEVINKLARVQRQMLQDLGREPTPEELAK 387
>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 = 100 bits (248), Expect = 3e-20, Method: Compositional matrix adjust.
Identities = 44/114 (38%), Positives = 75/114 (65%)
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 QYWIRKSISKMVARHARGIKIPCKLNREISKIQKARKALTNSHGKYPEDIEIAK 406
+WIR++I++ +A AR I+IP + I+K+ + ++ + G+ P E+AK
Sbjct: 331 TWWIRQAITRAMADQARTIRIPVHMVEVINKLARVQRQMLQDLGREPTPEELAK 384
>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 = 100 bits (248), Expect = 3e-20, Method: Compositional matrix adjust.
Identities = 49/184 (26%), Positives = 102/184 (55%), Gaps = 4/184 (2%)
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 IKIPCKLNREISKIQKARKALTNSHGKYPEDIEIAKYTGLSLAEIRSASECLRIVGSIDQ 430
I+IP + I+K+ + + + G+ P E+ + + +IR + + S++
Sbjct: 454 IRIPVHMIETINKLNRISRQMLQEMGREPTPEELGERMDMPEDKIRKVLKIAKEPISMET 513
Query: 431 KIGD 434
IGD
Sbjct: 514 PIGD 517
>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 = 100 bits (248), Expect = 3e-20, Method: Compositional matrix adjust.
Identities = 46/170 (27%), Positives = 98/170 (57%), Gaps = 9/170 (5%)
Query: 284 RVLKQHLAFGWYCREELIKSTRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQGAERFDHT 343
R L++ + G ++ ++++ LV+ +A+ + G+P D++Q GN+G+++ E+FDHT
Sbjct: 90 RTLEETVHDGQEAKDHMVRANLRLVVSMAKRHAHRGLPLLDVIQEGNLGLIRAVEKFDHT 149
Query: 344 RGYKFSTYVQYWIRKSISKMVARHARGIKIPCKLNREISKIQKARKALTNSHGKYPEDIE 403
+G+KFSTY +WIR++I + +A HAR +++P + ++ K+ K + L + P E
Sbjct: 150 KGFKFSTYATWWIRQAIERGLATHARTVRLPVHVVEQLQKLAKVERKLRAGLDREPTTEE 209
Query: 404 IAKYTGLSLAEI----RSASECLRIVGSIDQK----IGDCL-NAKYLNIP 444
+A +G+ + ++ R + + + +D+ +GD + + + L P
Sbjct: 210 VAAESGIDVDKVVWLRRVGRDAVSLDTPVDETGDTVVGDLIPDTEVLRAP 259
>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 = 99.8 bits (247), Expect = 4e-20, Method: Compositional matrix adjust.
Identities = 45/139 (32%), Positives = 85/139 (61%)
Query: 296 CREELIKSTRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYW 355
++E++++ LV+ +A+ Y G+ F DL+Q GN+G+++ ++F++ RGYKFSTY +W
Sbjct: 391 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 450
Query: 356 IRKSISKMVARHARGIKIPCKLNREISKIQKARKALTNSHGKYPEDIEIAKYTGLSLAEI 415
IR++I++ +A AR I+IP + I+K+ + + L G+ E+A+ G+ +I
Sbjct: 451 IRQAITRSIADQARTIRIPVHMIETINKLNRISRQLLQEMGREATPEELAERMGMPEDKI 510
Query: 416 RSASECLRIVGSIDQKIGD 434
R + + S++ IGD
Sbjct: 511 RKVLKIAKEPISMETPIGD 529
>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 = 99.8 bits (247), Expect = 4e-20, Method: Compositional matrix adjust.
Identities = 53/174 (30%), Positives = 99/174 (56%), Gaps = 8/174 (4%)
Query: 262 LEKESGKA-ASLNCWAQAAGVSERVLKQHLAFGWYCREELIKSTRPLVLFLARNYRGLGI 320
+EKE+G A AS+ + + E A ++E++++ LV+ +A+ Y G+
Sbjct: 348 IEKETGLAIASIKDINRRMSIGE-------AKARRAKKEMVEANLRLVISIAKKYTNRGL 400
Query: 321 PFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYWIRKSISKMVARHARGIKIPCKLNRE 380
F DL+Q GN+G+++ ++F++ RGYKFSTY +WIR++I++ +A AR I+IP +
Sbjct: 401 QFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIET 460
Query: 381 ISKIQKARKALTNSHGKYPEDIEIAKYTGLSLAEIRSASECLRIVGSIDQKIGD 434
I+K+ + + + G+ P E+A+ + +IR + + S++ IGD
Sbjct: 461 INKLNRISRQMLQEMGREPTPEELAERMLMPEDKIRKVLKIAKEPISMETPIGD 514
>sp|Q31QR8|RPOD4_SYNE7 RNA polymerase sigma factor rpoD4 OS=Synechococcus elongatus
(strain PCC 7942) GN=rpoD4 PE=3 SV=1
Length = 311
Score = 99.8 bits (247), Expect = 4e-20, Method: Compositional matrix adjust.
Identities = 62/188 (32%), Positives = 104/188 (55%), Gaps = 20/188 (10%)
Query: 229 LNSRGR-RLTIARNEAEMSKGVQVVANLERIKTTLEKESGKAASLNCWAQAAGVSERVLK 287
L+S GR L A E E+S+ VQ++ L LE ++ S N QA
Sbjct: 25 LSSIGRIPLLTAEEEVELSRKVQLMMAL------LENPDAESNSEN---QAV-------- 67
Query: 288 QHLAFGWYCREELIKSTRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQGAERFDHTRGYK 347
L G + +++K+ LV+ +A+ Y+ G+ DL+Q G++G+ + E+FD GYK
Sbjct: 68 --LQAGQRAKTKMLKANLRLVVSVAKKYQNQGLELLDLIQEGSLGLERAVEKFDPALGYK 125
Query: 348 FSTYVQYWIRKSISKMVARHARGIKIPCKLNREISKIQKARKALTNSHGKYPEDIEIAKY 407
FSTY +WIR+S+++ + HAR I++P ++ +IS+I+K + LT+ + P EIA+
Sbjct: 126 FSTYAYWWIRQSMTRAIDNHARTIRLPIHVSEKISRIKKMTRELTHQLKRLPSRAEIAEA 185
Query: 408 TGLSLAEI 415
L L ++
Sbjct: 186 LKLPLQDV 193
>sp|P00579|RPOD_ECOLI RNA polymerase sigma factor RpoD OS=Escherichia coli (strain K12)
GN=rpoD PE=1 SV=2
Length = 613
Score = 99.4 bits (246), Expect = 5e-20, Method: Compositional matrix adjust.
Identities = 44/139 (31%), Positives = 85/139 (61%)
Query: 296 CREELIKSTRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYW 355
++E++++ LV+ +A+ Y G+ F DL+Q GN+G+++ ++F++ RGYKFSTY +W
Sbjct: 375 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 434
Query: 356 IRKSISKMVARHARGIKIPCKLNREISKIQKARKALTNSHGKYPEDIEIAKYTGLSLAEI 415
IR++I++ +A AR I+IP + I+K+ + + + G+ P E+A+ + +I
Sbjct: 435 IRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGREPTPEELAERMLMPEDKI 494
Query: 416 RSASECLRIVGSIDQKIGD 434
R + + S++ IGD
Sbjct: 495 RKVLKIAKEPISMETPIGD 513
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
0.317 0.131 0.375
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 152,437,098
Number of Sequences: 539616
Number of extensions: 5733237
Number of successful extensions: 16857
Number of sequences better than 100.0: 50
Number of HSP's better than 100.0 without gapping: 151
Number of HSP's successfully gapped in prelim test: 25
Number of HSP's that attempted gapping in prelim test: 16568
Number of HSP's gapped (non-prelim): 304
length of query: 459
length of database: 191,569,459
effective HSP length: 121
effective length of query: 338
effective length of database: 126,275,923
effective search space: 42681261974
effective search space used: 42681261974
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: 63 (28.9 bits)