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= 020126
(330 letters)
Database: swissprot
539,616 sequences; 191,569,459 total letters
Searching..................................................done
>sp|O24629|SIGA_ARATH RNA polymerase sigma factor sigA OS=Arabidopsis thaliana GN=SIGA
PE=1 SV=1
Length = 502
Score = 422 bits (1086), Expect = e-117, Method: Compositional matrix adjust.
Identities = 220/341 (64%), Positives = 263/341 (77%), Gaps = 29/341 (8%)
Query: 2 MATAAVIGLSAGKRLLSSSFYYSDISEKFSYINDLGSANSQVGSTKNVVAAKKSSNYNPS 61
MATAAVIGL+ GKRLLSSSFY+SD++EKF +ND S+ + STK+ + AKK+SNY+PS
Sbjct: 1 MATAAVIGLNTGKRLLSSSFYHSDVTEKFLSVNDHCSSQYHIASTKSGITAKKASNYSPS 60
Query: 62 FPSSNRQTQPIKALKEHVDTNFASTAEPWAEPPNSIEEESSE--------LDYSVEALLL 113
FPSSNR TQ KALKE VD AST +PW PN ++E E + +SVEA+LL
Sbjct: 61 FPSSNRHTQSAKALKESVDV--ASTEKPWL--PNGTDKELEEECYDDDDLISHSVEAILL 116
Query: 114 LQKSMLEKQWNLSFERTVLTDSPSKKT--HKKVPV-TCSGVSARQRRLNSKKKI-LSQNK 169
LQKSMLEK WNLSFE+ V ++ P K T KK+PV TCSG+SARQRR+ +KKK ++ K
Sbjct: 117 LQKSMLEKSWNLSFEKAVSSEYPGKGTIRKKKIPVITCSGISARQRRIGAKKKTNMTHVK 176
Query: 170 SILQQNGSKQLRSMISPELIQNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKL 229
++ + KQ+R GYVKGV+SE++L+H EVVRLSKKIK+GL LDDHK
Sbjct: 177 AVSDVSSGKQVR-------------GYVKGVISEDVLSHVEVVRLSKKIKSGLRLDDHKS 223
Query: 230 RLKERLGCEPSMEQLAASLRISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGA 289
RLK+RLGCEPS EQLA SL+ISR ELQ+ LMEC LAREKL MSNVRLVMSIAQRYDN+GA
Sbjct: 224 RLKDRLGCEPSDEQLAVSLKISRAELQAWLMECHLAREKLAMSNVRLVMSIAQRYDNLGA 283
Query: 290 DMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWWIRQSIS 330
+M+DLVQGGLIGLLRGIEKFDSSKGF+ISTYVYWWIRQ +S
Sbjct: 284 EMSDLVQGGLIGLLRGIEKFDSSKGFRISTYVYWWIRQGVS 324
>sp|Q31ME3|RPOD2_SYNE7 RNA polymerase sigma factor rpoD2 OS=Synechococcus elongatus
(strain PCC 7942) GN=rpoD2 PE=1 SV=1
Length = 320
Score = 116 bits (291), Expect = 2e-25, Method: Compositional matrix adjust.
Identities = 57/146 (39%), Positives = 95/146 (65%), Gaps = 4/146 (2%)
Query: 185 SPELIQNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQL 244
SP+L+ + Y++ + LLT E + ++++ + L D + L++RLG EPS E+
Sbjct: 9 SPDLV----RAYLQEIGRVRLLTAEEELCFGRQVQRLMMLLDAQTELRDRLGHEPSKEEW 64
Query: 245 AASLRISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLR 304
AA++ ++ +L + + A+ K++ +N+RLV+SIA++Y + DL+Q G +GL R
Sbjct: 65 AAAVDLNLEDLDRQIEQGQRAKRKMIEANLRLVVSIAKKYQKRHMEFLDLIQEGTLGLER 124
Query: 305 GIEKFDSSKGFKISTYVYWWIRQSIS 330
G+EKFD SKG+K STY YWWIRQ+I+
Sbjct: 125 GVEKFDPSKGYKFSTYAYWWIRQAIT 150
>sp|Q9LD95|SIGF_ARATH RNA polymerase sigma factor sigF, chloroplastic OS=Arabidopsis
thaliana GN=SIGF PE=1 SV=1
Length = 547
Score = 111 bits (277), Expect = 9e-24, Method: Compositional matrix adjust.
Identities = 55/137 (40%), Positives = 88/137 (64%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLRISR 252
L+ ++ G +++LLT E L I+ L L+ K +L+ + GCEP++ + A ++ IS
Sbjct: 235 LQLFLWGPETKQLLTAKEEAELISHIQHLLKLEKVKTKLESQNGCEPTIGEWAEAMGISS 294
Query: 253 PELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSS 312
P L+S + +REKL+ +N+RLV+ IA++Y N G + DL+Q G +GL++ +EKF
Sbjct: 295 PVLKSDIHRGRSSREKLITANLRLVVHIAKQYQNRGLNFQDLLQEGSMGLMKSVEKFKPQ 354
Query: 313 KGFKISTYVYWWIRQSI 329
G + +TY YWWIRQSI
Sbjct: 355 SGCRFATYAYWWIRQSI 371
>sp|O22056|SIGB_ARATH RNA polymerase sigma factor sigB OS=Arabidopsis thaliana GN=SIGB
PE=2 SV=2
Length = 572
Score = 110 bits (276), Expect = 1e-23, Method: Compositional matrix adjust.
Identities = 57/150 (38%), Positives = 93/150 (62%), Gaps = 1/150 (0%)
Query: 181 RSMISPELIQNRLKGYVKGVVSE-ELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEP 239
+ +++ E+ N Y++ S +LLT E LS I+ L L+ + L ER G +P
Sbjct: 247 KRLVAQEVDHNDPLRYLRMTTSSSKLLTVREEHELSAGIQDLLKLERLQTELTERSGRQP 306
Query: 240 SMEQLAASLRISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGL 299
+ Q A++ + + L+ + +L ++K++ SN+RLV+SIA+ Y G ++ DLVQ G
Sbjct: 307 TFAQWASAAGVDQKSLRQRIHHGTLCKDKMIKSNIRLVISIAKNYQGAGMNLQDLVQEGC 366
Query: 300 IGLLRGIEKFDSSKGFKISTYVYWWIRQSI 329
GL+RG EKFD++KGFK STY +WWI+Q++
Sbjct: 367 RGLVRGAEKFDATKGFKFSTYAHWWIKQAV 396
>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 = 103 bits (257), Expect = 2e-21, Method: Compositional matrix adjust.
Identities = 54/141 (38%), Positives = 87/141 (61%)
Query: 190 QNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLR 249
++ ++ Y++ + LL E + L++KI L L+ + RL E+L +P + A +++
Sbjct: 79 EDSIRLYLQEIGRIRLLRADEEIELARKIADLLELERVRERLSEKLERDPRDSEWAEAVQ 138
Query: 250 ISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKF 309
+ P + L A++K+V SN+RLV+SIA++Y N G DL+Q G +GL+R EKF
Sbjct: 139 LPLPAFRYRLHIGRRAKDKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKF 198
Query: 310 DSSKGFKISTYVYWWIRQSIS 330
D KG+K STY WWIRQ+I+
Sbjct: 199 DHEKGYKFSTYATWWIRQAIT 219
>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 = 102 bits (255), Expect = 3e-21, Method: Compositional matrix adjust.
Identities = 47/135 (34%), Positives = 85/135 (62%)
Query: 196 YVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLRISRPEL 255
Y+ + LL+H + + +++++ + + K L E+L EP++++ A +++ L
Sbjct: 28 YLHKIGRVPLLSHEQEIFFAQQVQQMMVMFTAKEELAEKLQREPTLQEWADKMQLKEDVL 87
Query: 256 QSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGF 315
L + +A++K++ +N+RLV+SIA++Y + DL+Q G +GL RG+EKFD + G+
Sbjct: 88 LQQLSQGQIAKQKMIQANLRLVVSIAKKYQKRNLEFLDLIQEGALGLERGVEKFDPTLGY 147
Query: 316 KISTYVYWWIRQSIS 330
K STY YWWIRQ I+
Sbjct: 148 KFSTYAYWWIRQGIT 162
>sp|Q31QG5|RPOD3_SYNE7 RNA polymerase sigma factor rpoD3 OS=Synechococcus elongatus
(strain PCC 7942) GN=rpoD3 PE=3 SV=1
Length = 320
Score = 102 bits (254), Expect = 4e-21, Method: Compositional matrix adjust.
Identities = 53/139 (38%), Positives = 88/139 (63%), Gaps = 1/139 (0%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGC-EPSMEQLAASLRIS 251
++ Y++ + LLTH E V L K+++ + L + + L+ G +PS + AA+ +S
Sbjct: 12 VRTYLREIGRVPLLTHEEEVVLGKRVQQWMKLQELRQTLQSEEGDRDPSDLEWAAAAGLS 71
Query: 252 RPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDS 311
EL+ A+ K++ +N+RLV+S+A++Y D+ DL+Q G IG+ RG+EKFD
Sbjct: 72 IEELRQQQHLGEQAKRKMIEANLRLVVSVAKKYLKRNMDLLDLIQEGTIGMQRGVEKFDP 131
Query: 312 SKGFKISTYVYWWIRQSIS 330
+KG++ STY YWWIRQ+I+
Sbjct: 132 TKGYRFSTYAYWWIRQAIT 150
>sp|P38023|RPOD1_SYNE7 RNA polymerase sigma factor rpoD1 OS=Synechococcus elongatus
(strain PCC 7942) GN=rpoD1 PE=3 SV=2
Length = 399
Score = 97.4 bits (241), Expect = 1e-19, Method: Compositional matrix adjust.
Identities = 54/141 (38%), Positives = 86/141 (60%)
Query: 190 QNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLR 249
++ ++ Y++ + LL E + L+++I L+L+ + L E+L PS + AA++
Sbjct: 88 EDSIRLYLQEIGRIRLLRADEEIELARQIADLLALERIRDELLEQLDRLPSDAEWAAAVD 147
Query: 250 ISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKF 309
E + L A++K+V SN+RLV+SIA++Y N G DL+Q G +GL+R EKF
Sbjct: 148 SPLDEFRRRLFRGRRAKDKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKF 207
Query: 310 DSSKGFKISTYVYWWIRQSIS 330
D KG+K STY WWIRQ+I+
Sbjct: 208 DHEKGYKFSTYATWWIRQAIT 228
>sp|P27785|RPOD_STRAU RNA polymerase sigma factor RpoD OS=Streptomyces aureofaciens
GN=rpoD PE=3 SV=1
Length = 317
Score = 97.1 bits (240), Expect = 2e-19, Method: Compositional matrix adjust.
Identities = 53/139 (38%), Positives = 86/139 (61%), Gaps = 15/139 (10%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSME-QLAASLRIS 251
+ Y++ + LLT AE V L+++++ GL + E+LG ++ QLA
Sbjct: 21 FRQYLREIGRIPLLTAAEEVDLARRVEAGLFAE-------EKLGGAADLDSQLAV----- 68
Query: 252 RPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDS 311
+L +++ +A+ +L+ SN+RLV+S+A+RY G M DLVQ G +GL+R +EKFD
Sbjct: 69 --DLDRLVVMGRMAKRRLIESNLRLVVSVAKRYVGRGLTMLDLVQEGNLGLIRAVEKFDY 126
Query: 312 SKGFKISTYVYWWIRQSIS 330
++G+K STY WWIRQ++S
Sbjct: 127 ARGYKFSTYATWWIRQAMS 145
>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 = 95.1 bits (235), Expect = 7e-19, Method: Compositional matrix adjust.
Identities = 48/123 (39%), Positives = 72/123 (58%), Gaps = 22/123 (17%)
Query: 230 RLKERLGCEPSMEQLAASLRISRPELQSILMECSL----------------------ARE 267
RL LG PS+E+ AA+ I+ +L+ IL E ++E
Sbjct: 120 RLASELGHRPSLERWAATAGINLCDLKPILSEGKRRWAEIAKMTVEELEKMQSQGLQSKE 179
Query: 268 KLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWWIRQ 327
++ +N+RLV+S+A++Y N G ++ DLVQ G +GL R +EKFD +KG++ STY YWWIRQ
Sbjct: 180 HMIKANLRLVVSVAKKYQNRGLELLDLVQEGTLGLERAVEKFDPTKGYRFSTYAYWWIRQ 239
Query: 328 SIS 330
I+
Sbjct: 240 GIT 242
>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 = 8e-19, Method: Compositional matrix adjust.
Identities = 53/140 (37%), Positives = 81/140 (57%), Gaps = 9/140 (6%)
Query: 191 NRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLRI 250
+ ++ Y+K + LL E V L+K+I+ GL L ER E+L A+
Sbjct: 226 DSVRAYLKQIGKVALLNAEEEVELAKRIEAGLYATQLMTELSER------GEKLPAA--- 276
Query: 251 SRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFD 310
R ++ I + A+ L+ +N+RLV+S+A+RY G DL+Q G +GL+R +EKFD
Sbjct: 277 QRRDMMWICRDGDRAKNHLLEANLRLVVSLAKRYTGRGMAFLDLIQEGNLGLIRAVEKFD 336
Query: 311 SSKGFKISTYVYWWIRQSIS 330
+KG+K STY WWIRQ+I+
Sbjct: 337 YTKGYKFSTYATWWIRQAIT 356
>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 = 8e-19, Method: Compositional matrix adjust.
Identities = 53/140 (37%), Positives = 81/140 (57%), Gaps = 9/140 (6%)
Query: 191 NRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLRI 250
+ ++ Y+K + LL E V L+K+I+ GL L ER E+L A+
Sbjct: 226 DSVRAYLKQIGKVALLNAEEEVELAKRIEAGLYATQLMTELSER------GEKLPAA--- 276
Query: 251 SRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFD 310
R ++ I + A+ L+ +N+RLV+S+A+RY G DL+Q G +GL+R +EKFD
Sbjct: 277 QRRDMMWICRDGDRAKNHLLEANLRLVVSLAKRYTGRGMAFLDLIQEGNLGLIRAVEKFD 336
Query: 311 SSKGFKISTYVYWWIRQSIS 330
+KG+K STY WWIRQ+I+
Sbjct: 337 YTKGYKFSTYATWWIRQAIT 356
>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 = 93.2 bits (230), Expect = 3e-18, Method: Compositional matrix adjust.
Identities = 53/138 (38%), Positives = 83/138 (60%), Gaps = 13/138 (9%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLRISR 252
+K Y+K + LL + V L+K+I+ GL +D KL ++L P +++
Sbjct: 215 VKDYLKQIGKVPLLNAEQEVELAKRIEAGLFAED-KLANSDKLA--PKLKR--------- 262
Query: 253 PELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSS 312
EL+ I + A+ L+ +N+RLV+S+A+RY G DL+Q G +GL+R +EKFD +
Sbjct: 263 -ELEIIAEDGRRAKNHLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAVEKFDYT 321
Query: 313 KGFKISTYVYWWIRQSIS 330
KG+K STY WWIRQ+I+
Sbjct: 322 KGYKFSTYATWWIRQAIT 339
>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 = 92.8 bits (229), Expect = 3e-18, Method: Compositional matrix adjust.
Identities = 55/145 (37%), Positives = 80/145 (55%), Gaps = 13/145 (8%)
Query: 187 ELIQNRLKG-YVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLA 245
EL L G Y+ + LL A+ V LS+ I+ G+ L E G + +
Sbjct: 29 ELADRDLVGMYLDEIARTPLLDAAKEVELSQTIEAGV-FARQVLEGYEETGADAT----- 82
Query: 246 ASLRISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRG 305
R ELQ+++ E A++ + SN+RLV+++A+RY G + DL+Q G GL+R
Sbjct: 83 ------REELQALIDESERAKDVFIRSNLRLVVAVARRYPRSGLPLLDLIQEGNAGLVRA 136
Query: 306 IEKFDSSKGFKISTYVYWWIRQSIS 330
+EKFD KGFK STY WWIRQ+I+
Sbjct: 137 VEKFDYRKGFKFSTYATWWIRQAIT 161
>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 = 92.8 bits (229), Expect = 3e-18, Method: Compositional matrix adjust.
Identities = 55/135 (40%), Positives = 79/135 (58%), Gaps = 12/135 (8%)
Query: 196 YVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLRISRPEL 255
Y+ G+ LL + V L++ I+ GL E L E S E L R + +L
Sbjct: 35 YLNGIGKTALLNAEDEVELAQTIEVGL--------YAEYL-LENSQEPLT---RAMKRDL 82
Query: 256 QSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGF 315
+ ++ E AR L+ +N+RLV+S+A+RY G + DL+Q G +GL+R +EKFD SKGF
Sbjct: 83 KVLVKEGRKARSHLLEANLRLVVSLAKRYTGRGMPLLDLIQEGNLGLIRAMEKFDYSKGF 142
Query: 316 KISTYVYWWIRQSIS 330
K STY WWIRQ+I+
Sbjct: 143 KFSTYATWWIRQAIT 157
>sp|P77951|HRDB_STRGR RNA polymerase principal sigma factor HrdB OS=Streptomyces griseus
GN=hrdB PE=1 SV=1
Length = 514
Score = 92.8 bits (229), Expect = 3e-18, Method: Compositional matrix adjust.
Identities = 53/138 (38%), Positives = 83/138 (60%), Gaps = 13/138 (9%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLRISR 252
+K Y+K + LL + V L+K+I+ GL +D KL ++L P +++
Sbjct: 218 VKDYLKQIGKVPLLNAEQEVELAKRIEAGLFAED-KLANADKLA--PKLKR--------- 265
Query: 253 PELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSS 312
EL+ I + A+ L+ +N+RLV+S+A+RY G DL+Q G +GL+R +EKFD +
Sbjct: 266 -ELEIIAEDGRRAKNHLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAVEKFDYT 324
Query: 313 KGFKISTYVYWWIRQSIS 330
KG+K STY WWIRQ+I+
Sbjct: 325 KGYKFSTYATWWIRQAIT 342
>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 = 92.4 bits (228), Expect = 4e-18, Method: Compositional matrix adjust.
Identities = 50/137 (36%), Positives = 81/137 (59%), Gaps = 9/137 (6%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLRISR 252
L Y+ + + LLT + VRL+ +I+ G+ R +E L + E R R
Sbjct: 39 LGQYLTQIGATPLLTAEDEVRLATRIEAGV-------RAREELETADTGEPAPTPRR--R 89
Query: 253 PELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSS 312
L+ + + A++ +V +N+RLV+S+A+R+ + G + D++Q G +GL+R +EKFD +
Sbjct: 90 RTLEETVHDGQEAKDHMVRANLRLVVSMAKRHAHRGLPLLDVIQEGNLGLIRAVEKFDHT 149
Query: 313 KGFKISTYVYWWIRQSI 329
KGFK STY WWIRQ+I
Sbjct: 150 KGFKFSTYATWWIRQAI 166
>sp|Q31QR8|RPOD4_SYNE7 RNA polymerase sigma factor rpoD4 OS=Synechococcus elongatus
(strain PCC 7942) GN=rpoD4 PE=3 SV=1
Length = 311
Score = 92.0 bits (227), Expect = 5e-18, Method: Compositional matrix adjust.
Identities = 50/135 (37%), Positives = 79/135 (58%), Gaps = 19/135 (14%)
Query: 196 YVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLRISRPEL 255
Y+ + LLT E V LS+K++ ++L ++ P E S E
Sbjct: 24 YLSSIGRIPLLTAEEEVELSRKVQLMMALLEN-----------PDAE--------SNSEN 64
Query: 256 QSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGF 315
Q++L A+ K++ +N+RLV+S+A++Y N G ++ DL+Q G +GL R +EKFD + G+
Sbjct: 65 QAVLQAGQRAKTKMLKANLRLVVSVAKKYQNQGLELLDLIQEGSLGLERAVEKFDPALGY 124
Query: 316 KISTYVYWWIRQSIS 330
K STY YWWIRQS++
Sbjct: 125 KFSTYAYWWIRQSMT 139
>sp|P18182|HRDA_STRCO RNA polymerase principal sigma factor HrdA OS=Streptomyces
coelicolor (strain ATCC BAA-471 / A3(2) / M145) GN=hrdA
PE=3 SV=2
Length = 396
Score = 92.0 bits (227), Expect = 6e-18, Method: Compositional matrix adjust.
Identities = 51/138 (36%), Positives = 85/138 (61%), Gaps = 13/138 (9%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLRISR 252
+ Y++ + LL+ AE V L+++++ GL + E+L C P ++ A
Sbjct: 100 FRQYLREIGRIPLLSAAEEVDLARRVEAGLFAE-------EKLRCSPGLDDRLAL----- 147
Query: 253 PELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSS 312
+L +++ LA+ +L+ +N+RLV+S+A+RY G M DLVQ G +GL+R +EKFD +
Sbjct: 148 -DLDRLVVLGRLAKRRLIEANLRLVVSVAKRYVGRGLTMLDLVQEGNLGLIRAVEKFDYA 206
Query: 313 KGFKISTYVYWWIRQSIS 330
+G+K STY WWIRQ++S
Sbjct: 207 RGYKFSTYATWWIRQAMS 224
>sp|Q59914|HRDD_STRGR RNA polymerase principal sigma factor HrdD OS=Streptomyces griseus
GN=hrdD PE=3 SV=1
Length = 332
Score = 91.3 bits (225), Expect = 1e-17, Method: Compositional matrix adjust.
Identities = 52/135 (38%), Positives = 79/135 (58%), Gaps = 11/135 (8%)
Query: 196 YVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLRISRPEL 255
Y+ + LL A+ V LS+ I+ G+ K+ L E + AS R EL
Sbjct: 38 YLDEIARTPLLDAAKEVELSQTIEAGVYA--GKI-----LDGEVDSDSAGAS----REEL 86
Query: 256 QSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGF 315
++++ E A++ + SN+RLV+++A+RY G + DL+Q G GL+R +EKFD +KGF
Sbjct: 87 EALVAEGERAKDVFIRSNLRLVVAVARRYPRSGLPLLDLIQEGNAGLVRAVEKFDYAKGF 146
Query: 316 KISTYVYWWIRQSIS 330
K STY WWIRQ+I+
Sbjct: 147 KFSTYATWWIRQAIT 161
>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 = 89.4 bits (220), Expect = 3e-17, Method: Compositional matrix adjust.
Identities = 36/77 (46%), Positives = 57/77 (74%)
Query: 254 ELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSK 313
EL++I + A+ ++ +N+RLV+S+A++Y N G ++ DL+Q G +GL R +EKFD +K
Sbjct: 154 ELENIEKQGITAKAHMIKANLRLVVSVAKKYQNRGLELLDLIQEGTLGLERAVEKFDPTK 213
Query: 314 GFKISTYVYWWIRQSIS 330
G++ STY YWWIRQ I+
Sbjct: 214 GYRFSTYSYWWIRQGIT 230
>sp|P52322|RPOD_MICAE RNA polymerase sigma factor rpoD1 OS=Microcystis aeruginosa
GN=rpoD1 PE=3 SV=1
Length = 416
Score = 89.0 bits (219), Expect = 5e-17, Method: Compositional matrix adjust.
Identities = 38/66 (57%), Positives = 50/66 (75%)
Query: 265 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 324
A+EK+V SN+RLV+SIA++Y N G DL+Q G +GL+R EKFD KG+K STY WW
Sbjct: 180 AKEKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKFDHEKGYKFSTYATWW 239
Query: 325 IRQSIS 330
IRQ+I+
Sbjct: 240 IRQAIT 245
>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 = 88.6 bits (218), Expect = 7e-17, Method: Compositional matrix adjust.
Identities = 39/66 (59%), Positives = 50/66 (75%)
Query: 265 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 324
A+EKL+ SN+RLV+SIA+RY G DL+Q G IGLL+ +EKFD KG+K STY WW
Sbjct: 155 AKEKLITSNLRLVVSIAKRYMGRGLSFQDLIQEGNIGLLKAVEKFDWRKGYKFSTYATWW 214
Query: 325 IRQSIS 330
IRQ+I+
Sbjct: 215 IRQAIT 220
>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 = 88.2 bits (217), Expect = 8e-17, Method: Compositional matrix adjust.
Identities = 37/66 (56%), Positives = 50/66 (75%)
Query: 265 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 324
A++K+V SN+RLV+SIA++Y N G DL+Q G +GL+R EKFD KG+K STY WW
Sbjct: 189 AKDKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKFDHEKGYKFSTYATWW 248
Query: 325 IRQSIS 330
IRQ+I+
Sbjct: 249 IRQAIT 254
>sp|Q60012|HRDD_STRVF RNA polymerase principal sigma factor HrdD OS=Streptomyces
viridifaciens GN=hrdD PE=3 SV=1
Length = 332
Score = 87.4 bits (215), Expect = 1e-16, Method: Compositional matrix adjust.
Identities = 38/80 (47%), Positives = 56/80 (70%)
Query: 251 SRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFD 310
+R ELQ+++ A++ + SN+RLV+++A+RY G + DL+Q G GL+R +EKFD
Sbjct: 82 TREELQALVDAGERAKDVFIRSNLRLVVAVARRYPRSGLPLLDLIQEGNAGLVRAVEKFD 141
Query: 311 SSKGFKISTYVYWWIRQSIS 330
KGFK STY WWIRQ+I+
Sbjct: 142 YRKGFKFSTYATWWIRQAIT 161
>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 = 87.0 bits (214), Expect = 2e-16, Method: Compositional matrix adjust.
Identities = 37/70 (52%), Positives = 53/70 (75%)
Query: 261 ECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTY 320
E S A+++LV +N+RLV+SIA+RY N G DL+Q G IGL++ ++KF+ KG+K STY
Sbjct: 343 EISQAKKELVKANLRLVVSIAKRYANRGMHFFDLIQEGNIGLIKAVDKFEYKKGYKFSTY 402
Query: 321 VYWWIRQSIS 330
WWIRQ+I+
Sbjct: 403 ATWWIRQAIT 412
>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 = 87.0 bits (214), Expect = 2e-16, Method: Compositional matrix adjust.
Identities = 37/70 (52%), Positives = 53/70 (75%)
Query: 261 ECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTY 320
E S A+++LV +N+RLV+SIA+RY N G DL+Q G IGL++ ++KF+ KG+K STY
Sbjct: 343 EISQAKKELVKANLRLVVSIAKRYANRGMHFFDLIQEGNIGLIKAVDKFEYKKGYKFSTY 402
Query: 321 VYWWIRQSIS 330
WWIRQ+I+
Sbjct: 403 ATWWIRQAIT 412
>sp|Q9ZSL6|SIGD_ARATH RNA polymerase sigma factor sigD, chloroplastic OS=Arabidopsis
thaliana GN=SIGD PE=2 SV=1
Length = 419
Score = 85.9 bits (211), Expect = 4e-16, Method: Compositional matrix adjust.
Identities = 37/65 (56%), Positives = 48/65 (73%)
Query: 265 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 324
AREK+ RLV+SIA Y G ++ DL+Q G IGLLRG E+FD +G+K+STYVYWW
Sbjct: 179 AREKITRCYRRLVVSIATGYQGKGLNLQDLIQEGSIGLLRGAERFDPDRGYKLSTYVYWW 238
Query: 325 IRQSI 329
I+Q+I
Sbjct: 239 IKQAI 243
>sp|P52329|RPOD_ENTFA RNA polymerase sigma factor RpoD OS=Enterococcus faecalis (strain
ATCC 700802 / V583) GN=rpoD PE=3 SV=2
Length = 368
Score = 85.1 bits (209), Expect = 6e-16, Method: Compositional matrix adjust.
Identities = 45/114 (39%), Positives = 72/114 (63%), Gaps = 11/114 (9%)
Query: 220 TGLSLDDH-KLRLKE--RLGCEPSMEQLAASLRISRPELQSILMECSLAREKLVMSNVRL 276
TG+ ++D ++ LKE R+ + E++ +L+I + + A+++L +N+RL
Sbjct: 91 TGVKINDPVRMYLKEIGRVQLLTAAEEVELALKIEEGDQE--------AKQRLAEANLRL 142
Query: 277 VMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWWIRQSIS 330
V+SIA+RY G DL+Q G +GL++ +EKFD KGFK STY WWIRQ+I+
Sbjct: 143 VVSIAKRYVGRGMQFLDLIQEGNMGLMKAVEKFDYRKGFKFSTYATWWIRQAIT 196
>sp|O51804|RPOS_VIBCH RNA polymerase sigma factor RpoS OS=Vibrio cholerae serotype O1
(strain ATCC 39315 / El Tor Inaba N16961) GN=rpoS PE=3
SV=1
Length = 335
Score = 84.7 bits (208), Expect = 9e-16, Method: Compositional matrix adjust.
Identities = 33/65 (50%), Positives = 50/65 (76%)
Query: 265 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 324
AR++++ SN+RLV+ I++RY N G + DL++ G +GL+R +EKFD +GF+ STY WW
Sbjct: 91 ARKRMIESNLRLVVKISRRYSNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFSTYATWW 150
Query: 325 IRQSI 329
IRQ+I
Sbjct: 151 IRQTI 155
>sp|P45684|RPOS_PSEAE RNA polymerase sigma factor RpoS OS=Pseudomonas aeruginosa (strain
ATCC 15692 / PAO1 / 1C / PRS 101 / LMG 12228) GN=rpoS
PE=3 SV=1
Length = 334
Score = 84.7 bits (208), Expect = 9e-16, Method: Compositional matrix adjust.
Identities = 33/65 (50%), Positives = 49/65 (75%)
Query: 265 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 324
R++++ SN+RLV+ IA+RY N G + DL++ G +GL+R +EKFD +GF+ STY WW
Sbjct: 95 GRKRMIESNLRLVVKIARRYVNRGLSLLDLIEEGNLGLIRAVEKFDPERGFRFSTYATWW 154
Query: 325 IRQSI 329
IRQ+I
Sbjct: 155 IRQTI 159
>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 = 84.3 bits (207), Expect = 1e-15, Method: Compositional matrix adjust.
Identities = 35/66 (53%), Positives = 51/66 (77%)
Query: 265 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 324
A+++L+ +N+RLV+SIA++Y N G DLVQ G IGL++ +EKF+ +GFK STY WW
Sbjct: 391 AKDQLIKANLRLVVSIAKKYANRGLHFFDLVQEGNIGLIKAVEKFEYKRGFKFSTYATWW 450
Query: 325 IRQSIS 330
IRQ+I+
Sbjct: 451 IRQAIT 456
>sp|P47765|RPOS_YEREN RNA polymerase sigma factor RpoS OS=Yersinia enterocolitica GN=rpoS
PE=3 SV=1
Length = 331
Score = 84.0 bits (206), Expect = 1e-15, Method: Compositional matrix adjust.
Identities = 33/65 (50%), Positives = 49/65 (75%)
Query: 265 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 324
+R +++ SN+RLV+ IA+RY N G + DL++ G +GL+R +EKFD +GF+ STY WW
Sbjct: 91 SRRRMIESNLRLVVKIARRYSNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFSTYATWW 150
Query: 325 IRQSI 329
IRQ+I
Sbjct: 151 IRQTI 155
>sp|Q59753|RPOD_RHIME RNA polymerase sigma factor RpoD OS=Rhizobium meliloti (strain
1021) GN=rpoD PE=3 SV=1
Length = 684
Score = 84.0 bits (206), Expect = 1e-15, Method: Compositional matrix adjust.
Identities = 39/97 (40%), Positives = 63/97 (64%), Gaps = 7/97 (7%)
Query: 241 MEQLAASLRISRPELQSIL-------MECSLAREKLVMSNVRLVMSIAQRYDNMGADMAD 293
++ LA IS E + I+ E +A++++V +N+RLV+SIA++Y N G D
Sbjct: 415 IQNLATETGISIAEFRRIVSMVQKGEREARIAKKEMVEANLRLVISIAKKYTNRGLQFLD 474
Query: 294 LVQGGLIGLLRGIEKFDSSKGFKISTYVYWWIRQSIS 330
L+Q G IGL++ ++KF+ +G+K STY WWIRQ+I+
Sbjct: 475 LIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAIT 511
>sp|O33662|RPOD_STRMU RNA polymerase sigma factor RpoD OS=Streptococcus mutans serotype c
(strain ATCC 700610 / UA159) GN=rpoD PE=3 SV=1
Length = 371
Score = 84.0 bits (206), Expect = 1e-15, Method: Compositional matrix adjust.
Identities = 35/66 (53%), Positives = 50/66 (75%)
Query: 265 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 324
A+++L +N+RLV+SIA+RY G DL+Q G +GL++ ++KFD SKGFK STY WW
Sbjct: 133 AKQRLAEANLRLVVSIAKRYVGRGMQFLDLIQEGNMGLMKAVDKFDYSKGFKFSTYATWW 192
Query: 325 IRQSIS 330
IRQ+I+
Sbjct: 193 IRQAIT 198
>sp|P0A2E5|RPOS_SALTY RNA polymerase sigma factor RpoS OS=Salmonella typhimurium (strain
LT2 / SGSC1412 / ATCC 700720) GN=rpoS PE=3 SV=1
Length = 330
Score = 84.0 bits (206), Expect = 1e-15, Method: Compositional matrix adjust.
Identities = 33/65 (50%), Positives = 49/65 (75%)
Query: 265 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 324
+R +++ SN+RLV+ IA+RY N G + DL++ G +GL+R +EKFD +GF+ STY WW
Sbjct: 90 SRRRMIESNLRLVVKIARRYGNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFSTYATWW 149
Query: 325 IRQSI 329
IRQ+I
Sbjct: 150 IRQTI 154
>sp|P0A2E6|RPOS_SALTI RNA polymerase sigma factor RpoS OS=Salmonella typhi GN=rpoS PE=3
SV=1
Length = 330
Score = 84.0 bits (206), Expect = 1e-15, Method: Compositional matrix adjust.
Identities = 33/65 (50%), Positives = 49/65 (75%)
Query: 265 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 324
+R +++ SN+RLV+ IA+RY N G + DL++ G +GL+R +EKFD +GF+ STY WW
Sbjct: 90 SRRRMIESNLRLVVKIARRYGNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFSTYATWW 149
Query: 325 IRQSI 329
IRQ+I
Sbjct: 150 IRQTI 154
>sp|P0A2E7|RPOS_SALDU RNA polymerase sigma factor RpoS OS=Salmonella dublin GN=rpoS PE=3
SV=1
Length = 330
Score = 84.0 bits (206), Expect = 1e-15, Method: Compositional matrix adjust.
Identities = 33/65 (50%), Positives = 49/65 (75%)
Query: 265 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 324
+R +++ SN+RLV+ IA+RY N G + DL++ G +GL+R +EKFD +GF+ STY WW
Sbjct: 90 SRRRMIESNLRLVVKIARRYGNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFSTYATWW 149
Query: 325 IRQSI 329
IRQ+I
Sbjct: 150 IRQTI 154
>sp|O83506|RPOD_TREPA RNA polymerase sigma factor RpoD OS=Treponema pallidum (strain
Nichols) GN=rpoD PE=3 SV=1
Length = 611
Score = 84.0 bits (206), Expect = 2e-15, Method: Compositional matrix adjust.
Identities = 36/66 (54%), Positives = 51/66 (77%)
Query: 265 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 324
A++KL+ +N+RLV+SIA++Y N G DLVQ G IGL++ +EKF+ KG+K STY WW
Sbjct: 373 AKDKLINANLRLVVSIAKKYTNRGLLFFDLVQEGNIGLIKAVEKFEYRKGYKFSTYATWW 432
Query: 325 IRQSIS 330
IRQ+I+
Sbjct: 433 IRQAIT 438
>sp|P35540|RPOS_SHIFL RNA polymerase sigma factor RpoS OS=Shigella flexneri GN=rpoS PE=3
SV=3
Length = 330
Score = 84.0 bits (206), Expect = 2e-15, Method: Compositional matrix adjust.
Identities = 33/66 (50%), Positives = 49/66 (74%)
Query: 265 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 324
+R +++ SN+RLV+ IA+RY N G + DL++ G +GL+R +EKFD +GF+ STY WW
Sbjct: 90 SRRRMIESNLRLVVKIARRYGNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFSTYATWW 149
Query: 325 IRQSIS 330
IRQ+I
Sbjct: 150 IRQTIE 155
>sp|P13445|RPOS_ECOLI RNA polymerase sigma factor RpoS OS=Escherichia coli (strain K12)
GN=rpoS PE=3 SV=3
Length = 330
Score = 84.0 bits (206), Expect = 2e-15, Method: Compositional matrix adjust.
Identities = 33/66 (50%), Positives = 49/66 (74%)
Query: 265 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 324
+R +++ SN+RLV+ IA+RY N G + DL++ G +GL+R +EKFD +GF+ STY WW
Sbjct: 90 SRRRMIESNLRLVVKIARRYGNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFSTYATWW 149
Query: 325 IRQSIS 330
IRQ+I
Sbjct: 150 IRQTIE 155
>sp|P0A4J0|RPOD_STRR6 RNA polymerase sigma factor RpoD OS=Streptococcus pneumoniae
(strain ATCC BAA-255 / R6) GN=rpoD PE=3 SV=1
Length = 369
Score = 84.0 bits (206), Expect = 2e-15, Method: Compositional matrix adjust.
Identities = 35/66 (53%), Positives = 50/66 (75%)
Query: 265 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 324
A+++L +N+RLV+SIA+RY G DL+Q G +GL++ ++KFD SKGFK STY WW
Sbjct: 131 AKQRLAEANLRLVVSIAKRYVGRGMQFLDLIQEGNMGLMKAVDKFDYSKGFKFSTYATWW 190
Query: 325 IRQSIS 330
IRQ+I+
Sbjct: 191 IRQAIT 196
>sp|P0A4I9|RPOD_STRPN RNA polymerase sigma factor RpoD OS=Streptococcus pneumoniae
serotype 4 (strain ATCC BAA-334 / TIGR4) GN=rpoD PE=3
SV=1
Length = 369
Score = 84.0 bits (206), Expect = 2e-15, Method: Compositional matrix adjust.
Identities = 35/66 (53%), Positives = 50/66 (75%)
Query: 265 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 324
A+++L +N+RLV+SIA+RY G DL+Q G +GL++ ++KFD SKGFK STY WW
Sbjct: 131 AKQRLAEANLRLVVSIAKRYVGRGMQFLDLIQEGNMGLMKAVDKFDYSKGFKFSTYATWW 190
Query: 325 IRQSIS 330
IRQ+I+
Sbjct: 191 IRQAIT 196
>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 = 84.0 bits (206), Expect = 2e-15, Method: Compositional matrix adjust.
Identities = 33/70 (47%), Positives = 53/70 (75%)
Query: 261 ECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTY 320
E +A++++V +N+RLV+SIA++Y N G DL+Q G IGL++ ++KF+ +G+K STY
Sbjct: 443 EARIAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTY 502
Query: 321 VYWWIRQSIS 330
WWIRQ+I+
Sbjct: 503 ATWWIRQAIT 512
>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 = 84.0 bits (206), Expect = 2e-15, Method: Compositional matrix adjust.
Identities = 33/70 (47%), Positives = 53/70 (75%)
Query: 261 ECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTY 320
E +A++++V +N+RLV+SIA++Y N G DL+Q G IGL++ ++KF+ +G+K STY
Sbjct: 442 EARIAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTY 501
Query: 321 VYWWIRQSIS 330
WWIRQ+I+
Sbjct: 502 ATWWIRQAIT 511
>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 = 83.2 bits (204), Expect = 2e-15, Method: Compositional matrix adjust.
Identities = 34/69 (49%), Positives = 49/69 (71%)
Query: 262 CSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYV 321
A++ L +N+RLV+SIA+RY G DL+Q G +GL++ ++KFD +KGFK STY
Sbjct: 147 AEFAKQMLAEANLRLVVSIAKRYSGRGMQFLDLIQEGNMGLMKAVDKFDHTKGFKFSTYA 206
Query: 322 YWWIRQSIS 330
WWIRQ+I+
Sbjct: 207 TWWIRQAIT 215
>sp|P58290|RPOD_LACLC RNA polymerase sigma factor RpoD (Fragment) OS=Lactococcus lactis
subsp. cremoris GN=rpoD PE=3 SV=1
Length = 364
Score = 83.2 bits (204), Expect = 3e-15, Method: Compositional matrix adjust.
Identities = 34/69 (49%), Positives = 49/69 (71%)
Query: 262 CSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYV 321
A++ L +N+RLV+SIA+RY G DL+Q G +GL++ ++KFD +KGFK STY
Sbjct: 125 AEFAKQMLAEANLRLVVSIAKRYSGRGMQFLDLIQEGNMGLMKAVDKFDQTKGFKFSTYA 184
Query: 322 YWWIRQSIS 330
WWIRQ+I+
Sbjct: 185 TWWIRQAIT 193
>sp|Q8CP24|RPOD_STAES RNA polymerase sigma factor RpoD OS=Staphylococcus epidermidis
(strain ATCC 12228) GN=rpoD PE=3 SV=1
Length = 368
Score = 83.2 bits (204), Expect = 3e-15, Method: Compositional matrix adjust.
Identities = 36/68 (52%), Positives = 50/68 (73%)
Query: 263 SLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVY 322
+A+ +L +N+RLV+SIA+RY G DL+Q G +GL++ +EKFD SKGFK STY
Sbjct: 129 EIAKSRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNMGLIKAVEKFDFSKGFKFSTYAT 188
Query: 323 WWIRQSIS 330
WWIRQ+I+
Sbjct: 189 WWIRQAIT 196
>sp|Q5HNY7|RPOD_STAEQ RNA polymerase sigma factor RpoD OS=Staphylococcus epidermidis
(strain ATCC 35984 / RP62A) GN=rpoD PE=3 SV=1
Length = 368
Score = 83.2 bits (204), Expect = 3e-15, Method: Compositional matrix adjust.
Identities = 36/68 (52%), Positives = 50/68 (73%)
Query: 263 SLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVY 322
+A+ +L +N+RLV+SIA+RY G DL+Q G +GL++ +EKFD SKGFK STY
Sbjct: 129 EIAKSRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNMGLIKAVEKFDFSKGFKFSTYAT 188
Query: 323 WWIRQSIS 330
WWIRQ+I+
Sbjct: 189 WWIRQAIT 196
>sp|P56835|RPOD_CHLMU RNA polymerase sigma factor RpoD OS=Chlamydia muridarum (strain
MoPn / Nigg) GN=rpoD PE=3 SV=1
Length = 571
Score = 82.4 bits (202), Expect = 4e-15, Method: Compositional matrix adjust.
Identities = 36/91 (39%), Positives = 62/91 (68%), Gaps = 4/91 (4%)
Query: 240 SMEQLAASLRISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGL 299
++E+ +R+ LQ + + A++++V SN+RLV+SIA++Y N G DL+Q G
Sbjct: 296 TLEEFKKDVRM----LQRWMDKSQEAKKEMVESNLRLVISIAKKYTNRGLSFLDLIQEGN 351
Query: 300 IGLLRGIEKFDSSKGFKISTYVYWWIRQSIS 330
+GL++ +EKF+ +G+K STY WWIRQ+++
Sbjct: 352 MGLMKAVEKFEYRRGYKFSTYATWWIRQAVT 382
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
0.313 0.127 0.346
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 108,870,750
Number of Sequences: 539616
Number of extensions: 4117032
Number of successful extensions: 11353
Number of sequences better than 100.0: 50
Number of HSP's better than 100.0 without gapping: 156
Number of HSP's successfully gapped in prelim test: 42
Number of HSP's that attempted gapping in prelim test: 11119
Number of HSP's gapped (non-prelim): 264
length of query: 330
length of database: 191,569,459
effective HSP length: 118
effective length of query: 212
effective length of database: 127,894,771
effective search space: 27113691452
effective search space used: 27113691452
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.9 bits)
S2: 61 (28.1 bits)