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= 016321
(391 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 = 420 bits (1079), Expect = e-116, Method: Compositional matrix adjust.
Identities = 219/338 (64%), Positives = 261/338 (77%), Gaps = 29/338 (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 FPSSNRHTQSAKALKESVD--VASTEKPWL--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 DMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWWIRQ 327
+M+DLVQGGLIGLLRGIEKFDSSKGF+ISTYVYWWIRQ
Sbjct: 284 EMSDLVQGGLIGLLRGIEKFDSSKGFRISTYVYWWIRQ 321
>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 = 3e-24, Method: Compositional matrix adjust.
Identities = 56/144 (38%), Positives = 92/144 (63%), Gaps = 4/144 (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 GIEKFDSSKGFKISTYVYWWIRQV 328
G+EKFD SKG+K STY YWWIRQ
Sbjct: 125 GVEKFDPSKGYKFSTYAYWWIRQA 148
>sp|O22056|SIGB_ARATH RNA polymerase sigma factor sigB OS=Arabidopsis thaliana GN=SIGB
PE=2 SV=2
Length = 572
Score = 109 bits (272), Expect = 4e-23, Method: Compositional matrix adjust.
Identities = 64/176 (36%), Positives = 102/176 (57%), Gaps = 2/176 (1%)
Query: 154 RQRRLNSKKKILSQNKSILQQNGSKQLRSMISPELIQNRLKGYVKGVVSE-ELLTHAEVV 212
+ RR +K S S+ + K+ R +++ E+ N Y++ S +LLT E
Sbjct: 221 KARRAKGLEKTASGIPSVKTGSSPKKKR-LVAQEVDHNDPLRYLRMTTSSSKLLTVREEH 279
Query: 213 RLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLRISRPELQSILMECSLAREKLVMS 272
LS I+ L L+ + L ER G +P+ Q A++ + + L+ + +L ++K++ S
Sbjct: 280 ELSAGIQDLLKLERLQTELTERSGRQPTFAQWASAAGVDQKSLRQRIHHGTLCKDKMIKS 339
Query: 273 NVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWWIRQV 328
N+RLV+SIA+ Y G ++ DLVQ G GL+RG EKFD++KGFK STY +WWI+Q
Sbjct: 340 NIRLVISIAKNYQGAGMNLQDLVQEGCRGLVRGAEKFDATKGFKFSTYAHWWIKQA 395
>sp|Q9LD95|SIGF_ARATH RNA polymerase sigma factor sigF, chloroplastic OS=Arabidopsis
thaliana GN=SIGF PE=1 SV=1
Length = 547
Score = 107 bits (266), Expect = 2e-22, Method: Compositional matrix adjust.
Identities = 53/135 (39%), Positives = 86/135 (63%)
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 KGFKISTYVYWWIRQ 327
G + +TY YWWIRQ
Sbjct: 355 SGCRFATYAYWWIRQ 369
>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 = 100 bits (249), Expect = 2e-20, Method: Compositional matrix adjust.
Identities = 53/139 (38%), Positives = 84/139 (60%)
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 DSSKGFKISTYVYWWIRQV 328
D KG+K STY WWIRQ
Sbjct: 199 DHEKGYKFSTYATWWIRQA 217
>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 = 99.8 bits (247), Expect = 3e-20, Method: Compositional matrix adjust.
Identities = 46/132 (34%), Positives = 83/132 (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 KISTYVYWWIRQ 327
K STY YWWIRQ
Sbjct: 148 KFSTYAYWWIRQ 159
>sp|Q31QG5|RPOD3_SYNE7 RNA polymerase sigma factor rpoD3 OS=Synechococcus elongatus
(strain PCC 7942) GN=rpoD3 PE=3 SV=1
Length = 320
Score = 99.4 bits (246), Expect = 4e-20, Method: Compositional matrix adjust.
Identities = 52/137 (37%), Positives = 85/137 (62%), Gaps = 1/137 (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 SKGFKISTYVYWWIRQV 328
+KG++ STY YWWIRQ
Sbjct: 132 TKGYRFSTYAYWWIRQA 148
>sp|P38023|RPOD1_SYNE7 RNA polymerase sigma factor rpoD1 OS=Synechococcus elongatus
(strain PCC 7942) GN=rpoD1 PE=3 SV=2
Length = 399
Score = 94.0 bits (232), Expect = 2e-18, Method: Compositional matrix adjust.
Identities = 53/139 (38%), Positives = 83/139 (59%)
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 DSSKGFKISTYVYWWIRQV 328
D KG+K STY WWIRQ
Sbjct: 208 DHEKGYKFSTYATWWIRQA 226
>sp|P27785|RPOD_STRAU RNA polymerase sigma factor RpoD OS=Streptomyces aureofaciens
GN=rpoD PE=3 SV=1
Length = 317
Score = 94.0 bits (232), Expect = 2e-18, Method: Compositional matrix adjust.
Identities = 52/136 (38%), Positives = 83/136 (61%), Gaps = 15/136 (11%)
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 SKGFKISTYVYWWIRQ 327
++G+K STY WWIRQ
Sbjct: 127 ARGYKFSTYATWWIRQ 142
>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 = 92.4 bits (228), Expect = 5e-18, Method: Compositional matrix adjust.
Identities = 47/120 (39%), Positives = 70/120 (58%), Gaps = 22/120 (18%)
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
>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 = 90.5 bits (223), Expect = 2e-17, Method: Compositional matrix adjust.
Identities = 50/142 (35%), Positives = 82/142 (57%), Gaps = 9/142 (6%)
Query: 186 PELIQNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLA 245
P+ + L Y+ + + LLT + VRL+ +I+ G+ R +E L + E
Sbjct: 32 PDEEPDLLGQYLTQIGATPLLTAEDEVRLATRIEAGV-------RAREELETADTGEPAP 84
Query: 246 ASLRISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRG 305
R R L+ + + A++ +V +N+RLV+S+A+R+ + G + D++Q G +GL+R
Sbjct: 85 TPRR--RRTLEETVHDGQEAKDHMVRANLRLVVSMAKRHAHRGLPLLDVIQEGNLGLIRA 142
Query: 306 IEKFDSSKGFKISTYVYWWIRQ 327
+EKFD +KGFK STY WWIRQ
Sbjct: 143 VEKFDHTKGFKFSTYATWWIRQ 164
>sp|P0A602|RPOD_MYCTU RNA polymerase sigma factor RpoD OS=Mycobacterium tuberculosis
GN=rpoD PE=1 SV=1
Length = 528
Score = 90.5 bits (223), Expect = 2e-17, Method: Compositional matrix adjust.
Identities = 52/138 (37%), Positives = 78/138 (56%), Gaps = 9/138 (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 SSKGFKISTYVYWWIRQV 328
+KG+K STY WWIRQ
Sbjct: 337 YTKGYKFSTYATWWIRQA 354
>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 = 90.5 bits (223), Expect = 2e-17, Method: Compositional matrix adjust.
Identities = 52/138 (37%), Positives = 78/138 (56%), Gaps = 9/138 (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 SSKGFKISTYVYWWIRQV 328
+KG+K STY WWIRQ
Sbjct: 337 YTKGYKFSTYATWWIRQA 354
>sp|Q31QR8|RPOD4_SYNE7 RNA polymerase sigma factor rpoD4 OS=Synechococcus elongatus
(strain PCC 7942) GN=rpoD4 PE=3 SV=1
Length = 311
Score = 89.4 bits (220), Expect = 4e-17, Method: Compositional matrix adjust.
Identities = 49/132 (37%), Positives = 76/132 (57%), Gaps = 19/132 (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 KISTYVYWWIRQ 327
K STY YWWIRQ
Sbjct: 125 KFSTYAYWWIRQ 136
>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 = 89.4 bits (220), Expect = 5e-17, Method: Compositional matrix adjust.
Identities = 54/143 (37%), Positives = 77/143 (53%), Gaps = 13/143 (9%)
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 IEKFDSSKGFKISTYVYWWIRQV 328
+EKFD KGFK STY WWIRQ
Sbjct: 137 VEKFDYRKGFKFSTYATWWIRQA 159
>sp|P33118|RPSB_CORDI RNA polymerase sigma factor SigB OS=Corynebacterium diphtheriae
(strain ATCC 700971 / NCTC 13129 / Biotype gravis)
GN=sigB PE=3 SV=2
Length = 329
Score = 89.0 bits (219), Expect = 6e-17, Method: Compositional matrix adjust.
Identities = 54/133 (40%), Positives = 76/133 (57%), Gaps = 12/133 (9%)
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 KISTYVYWWIRQV 328
K STY WWIRQ
Sbjct: 143 KFSTYATWWIRQA 155
>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 = 89.0 bits (219), Expect = 6e-17, Method: Compositional matrix adjust.
Identities = 52/136 (38%), Positives = 80/136 (58%), Gaps = 13/136 (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 KGFKISTYVYWWIRQV 328
KG+K STY WWIRQ
Sbjct: 322 KGYKFSTYATWWIRQA 337
>sp|P77951|HRDB_STRGR RNA polymerase principal sigma factor HrdB OS=Streptomyces griseus
GN=hrdB PE=1 SV=1
Length = 514
Score = 88.6 bits (218), Expect = 8e-17, Method: Compositional matrix adjust.
Identities = 52/135 (38%), Positives = 80/135 (59%), Gaps = 13/135 (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 KGFKISTYVYWWIRQ 327
KG+K STY WWIRQ
Sbjct: 325 KGYKFSTYATWWIRQ 339
>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 = 88.6 bits (218), Expect = 8e-17, Method: Compositional matrix adjust.
Identities = 50/132 (37%), Positives = 80/132 (60%), Gaps = 13/132 (9%)
Query: 196 YVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLRISRPEL 255
Y++ + LL+ AE V L+++++ GL + E+L C P ++ A L
Sbjct: 103 YLREIGRIPLLSAAEEVDLARRVEAGLFAE-------EKLRCSPGLDDRLALD------L 149
Query: 256 QSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGF 315
+++ LA+ +L+ +N+RLV+S+A+RY G M DLVQ G +GL+R +EKFD ++G+
Sbjct: 150 DRLVVLGRLAKRRLIEANLRLVVSVAKRYVGRGLTMLDLVQEGNLGLIRAVEKFDYARGY 209
Query: 316 KISTYVYWWIRQ 327
K STY WWIRQ
Sbjct: 210 KFSTYATWWIRQ 221
>sp|Q59914|HRDD_STRGR RNA polymerase principal sigma factor HrdD OS=Streptomyces griseus
GN=hrdD PE=3 SV=1
Length = 332
Score = 87.8 bits (216), Expect = 1e-16, Method: Compositional matrix adjust.
Identities = 51/133 (38%), Positives = 76/133 (57%), Gaps = 11/133 (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 KISTYVYWWIRQV 328
K STY WWIRQ
Sbjct: 147 KFSTYATWWIRQA 159
>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 = 87.0 bits (214), Expect = 2e-16, Method: Compositional matrix adjust.
Identities = 38/87 (43%), Positives = 59/87 (67%)
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 GFKISTYVYWWIRQVRLLLICTFKQFI 340
G++ STY YWWIRQ I T + I
Sbjct: 214 GYRFSTYSYWWIRQGITRAIATQSRMI 240
>sp|P52322|RPOD_MICAE RNA polymerase sigma factor rpoD1 OS=Microcystis aeruginosa
GN=rpoD1 PE=3 SV=1
Length = 416
Score = 85.9 bits (211), Expect = 5e-16, Method: Compositional matrix adjust.
Identities = 37/64 (57%), Positives = 47/64 (73%)
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 IRQV 328
IRQ
Sbjct: 240 IRQA 243
>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 = 85.1 bits (209), Expect = 8e-16, Method: Compositional matrix adjust.
Identities = 38/64 (59%), Positives = 47/64 (73%)
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 IRQV 328
IRQ
Sbjct: 215 IRQA 218
>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 = 85.1 bits (209), Expect = 9e-16, Method: Compositional matrix adjust.
Identities = 36/64 (56%), Positives = 47/64 (73%)
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 IRQV 328
IRQ
Sbjct: 249 IRQA 252
>sp|Q60012|HRDD_STRVF RNA polymerase principal sigma factor HrdD OS=Streptomyces
viridifaciens GN=hrdD PE=3 SV=1
Length = 332
Score = 84.3 bits (207), Expect = 2e-15, Method: Compositional matrix adjust.
Identities = 37/78 (47%), Positives = 53/78 (67%)
Query: 251 SRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFD 310
+R ELQ+++ A++ + SN+RLV+++A+RY G + DL+Q G GL+R +EKFD
Sbjct: 82 TREELQALVDAGERAKDVFIRSNLRLVVAVARRYPRSGLPLLDLIQEGNAGLVRAVEKFD 141
Query: 311 SSKGFKISTYVYWWIRQV 328
KGFK STY WWIRQ
Sbjct: 142 YRKGFKFSTYATWWIRQA 159
>sp|Q9ZSL6|SIGD_ARATH RNA polymerase sigma factor sigD, chloroplastic OS=Arabidopsis
thaliana GN=SIGD PE=2 SV=1
Length = 419
Score = 83.6 bits (205), Expect = 2e-15, Method: Compositional matrix adjust.
Identities = 38/69 (55%), Positives = 48/69 (69%)
Query: 265 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 324
AREK+ RLV+SIA Y G ++ DL+Q G IGLLRG E+FD +G+K+STYVYWW
Sbjct: 179 AREKITRCYRRLVVSIATGYQGKGLNLQDLIQEGSIGLLRGAERFDPDRGYKLSTYVYWW 238
Query: 325 IRQVRLLLI 333
I+Q L I
Sbjct: 239 IKQAILRAI 247
>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 = 83.6 bits (205), Expect = 2e-15, Method: Compositional matrix adjust.
Identities = 36/67 (53%), Positives = 50/67 (74%)
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 VYWWIRQ 327
WWIRQ
Sbjct: 403 ATWWIRQ 409
>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 = 83.6 bits (205), Expect = 2e-15, Method: Compositional matrix adjust.
Identities = 36/67 (53%), Positives = 50/67 (74%)
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 VYWWIRQ 327
WWIRQ
Sbjct: 403 ATWWIRQ 409
>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 = 82.0 bits (201), Expect = 7e-15, Method: Compositional matrix adjust.
Identities = 32/64 (50%), Positives = 48/64 (75%)
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 IRQV 328
IRQ
Sbjct: 151 IRQT 154
>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 = 82.0 bits (201), Expect = 7e-15, Method: Compositional matrix adjust.
Identities = 32/64 (50%), Positives = 47/64 (73%)
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 IRQV 328
IRQ
Sbjct: 155 IRQT 158
>sp|P47765|RPOS_YEREN RNA polymerase sigma factor RpoS OS=Yersinia enterocolitica GN=rpoS
PE=3 SV=1
Length = 331
Score = 81.6 bits (200), Expect = 9e-15, Method: Compositional matrix adjust.
Identities = 32/64 (50%), Positives = 47/64 (73%)
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 IRQV 328
IRQ
Sbjct: 151 IRQT 154
>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 = 81.3 bits (199), Expect = 1e-14, Method: Compositional matrix adjust.
Identities = 44/111 (39%), Positives = 69/111 (62%), Gaps = 11/111 (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 VMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWWIRQ 327
V+SIA+RY G DL+Q G +GL++ +EKFD KGFK STY WWIRQ
Sbjct: 143 VVSIAKRYVGRGMQFLDLIQEGNMGLMKAVEKFDYRKGFKFSTYATWWIRQ 193
>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 = 81.3 bits (199), Expect = 1e-14, Method: Compositional matrix adjust.
Identities = 32/64 (50%), Positives = 47/64 (73%)
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 IRQV 328
IRQ
Sbjct: 150 IRQT 153
>sp|P0A2E6|RPOS_SALTI RNA polymerase sigma factor RpoS OS=Salmonella typhi GN=rpoS PE=3
SV=1
Length = 330
Score = 81.3 bits (199), Expect = 1e-14, Method: Compositional matrix adjust.
Identities = 32/64 (50%), Positives = 47/64 (73%)
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 IRQV 328
IRQ
Sbjct: 150 IRQT 153
>sp|P0A2E7|RPOS_SALDU RNA polymerase sigma factor RpoS OS=Salmonella dublin GN=rpoS PE=3
SV=1
Length = 330
Score = 81.3 bits (199), Expect = 1e-14, Method: Compositional matrix adjust.
Identities = 32/64 (50%), Positives = 47/64 (73%)
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 IRQV 328
IRQ
Sbjct: 150 IRQT 153
>sp|P35540|RPOS_SHIFL RNA polymerase sigma factor RpoS OS=Shigella flexneri GN=rpoS PE=3
SV=3
Length = 330
Score = 81.3 bits (199), Expect = 1e-14, Method: Compositional matrix adjust.
Identities = 32/64 (50%), Positives = 47/64 (73%)
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 IRQV 328
IRQ
Sbjct: 150 IRQT 153
>sp|P13445|RPOS_ECOLI RNA polymerase sigma factor RpoS OS=Escherichia coli (strain K12)
GN=rpoS PE=3 SV=3
Length = 330
Score = 81.3 bits (199), Expect = 1e-14, Method: Compositional matrix adjust.
Identities = 32/64 (50%), Positives = 47/64 (73%)
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 IRQV 328
IRQ
Sbjct: 150 IRQT 153
>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 = 80.9 bits (198), Expect = 1e-14, Method: Compositional matrix adjust.
Identities = 34/63 (53%), Positives = 48/63 (76%)
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 IRQ 327
IRQ
Sbjct: 451 IRQ 453
>sp|Q59753|RPOD_RHIME RNA polymerase sigma factor RpoD OS=Rhizobium meliloti (strain
1021) GN=rpoD PE=3 SV=1
Length = 684
Score = 80.5 bits (197), Expect = 2e-14, Method: Compositional matrix adjust.
Identities = 38/95 (40%), Positives = 60/95 (63%), Gaps = 7/95 (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 LVQGGLIGLLRGIEKFDSSKGFKISTYVYWWIRQV 328
L+Q G IGL++ ++KF+ +G+K STY WWIRQ
Sbjct: 475 LIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQA 509
>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 = 80.5 bits (197), Expect = 2e-14, Method: Compositional matrix adjust.
Identities = 32/68 (47%), Positives = 50/68 (73%)
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 VYWWIRQV 328
WWIRQ
Sbjct: 503 ATWWIRQA 510
>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 = 80.5 bits (197), Expect = 2e-14, Method: Compositional matrix adjust.
Identities = 34/63 (53%), Positives = 47/63 (74%)
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 IRQ 327
IRQ
Sbjct: 193 IRQ 195
>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 = 80.5 bits (197), Expect = 2e-14, Method: Compositional matrix adjust.
Identities = 34/63 (53%), Positives = 47/63 (74%)
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 IRQ 327
IRQ
Sbjct: 191 IRQ 193
>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 = 80.5 bits (197), Expect = 2e-14, Method: Compositional matrix adjust.
Identities = 34/63 (53%), Positives = 47/63 (74%)
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 IRQ 327
IRQ
Sbjct: 191 IRQ 193
>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 = 80.5 bits (197), Expect = 2e-14, Method: Compositional matrix adjust.
Identities = 32/68 (47%), Positives = 50/68 (73%)
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 VYWWIRQV 328
WWIRQ
Sbjct: 502 ATWWIRQA 509
>sp|O83506|RPOD_TREPA RNA polymerase sigma factor RpoD OS=Treponema pallidum (strain
Nichols) GN=rpoD PE=3 SV=1
Length = 611
Score = 80.1 bits (196), Expect = 2e-14, Method: Compositional matrix adjust.
Identities = 35/63 (55%), Positives = 48/63 (76%)
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 IRQ 327
IRQ
Sbjct: 433 IRQ 435
>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 = 80.1 bits (196), Expect = 3e-14, Method: Compositional matrix adjust.
Identities = 33/66 (50%), Positives = 46/66 (69%)
Query: 262 CSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYV 321
A++ L +N+RLV+SIA+RY G DL+Q G +GL++ ++KFD +KGFK STY
Sbjct: 147 AEFAKQMLAEANLRLVVSIAKRYSGRGMQFLDLIQEGNMGLMKAVDKFDHTKGFKFSTYA 206
Query: 322 YWWIRQ 327
WWIRQ
Sbjct: 207 TWWIRQ 212
>sp|Q9Z7F0|RPOD_CHLPN RNA polymerase sigma factor RpoD OS=Chlamydia pneumoniae GN=rpoD
PE=3 SV=1
Length = 572
Score = 80.1 bits (196), Expect = 3e-14, Method: Compositional matrix adjust.
Identities = 36/88 (40%), Positives = 59/88 (67%), Gaps = 4/88 (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 IGLLRGIEKFDSSKGFKISTYVYWWIRQ 327
+GL++ +EKF+ +G+K STY WWIRQ
Sbjct: 352 MGLMKAVEKFEYRRGYKFSTYATWWIRQ 379
>sp|P56835|RPOD_CHLMU RNA polymerase sigma factor RpoD OS=Chlamydia muridarum (strain
MoPn / Nigg) GN=rpoD PE=3 SV=1
Length = 571
Score = 79.7 bits (195), Expect = 3e-14, Method: Compositional matrix adjust.
Identities = 36/89 (40%), Positives = 59/89 (66%), Gaps = 4/89 (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 IGLLRGIEKFDSSKGFKISTYVYWWIRQV 328
+GL++ +EKF+ +G+K STY WWIRQ
Sbjct: 352 MGLMKAVEKFEYRRGYKFSTYATWWIRQA 380
>sp|P58290|RPOD_LACLC RNA polymerase sigma factor RpoD (Fragment) OS=Lactococcus lactis
subsp. cremoris GN=rpoD PE=3 SV=1
Length = 364
Score = 79.7 bits (195), Expect = 4e-14, Method: Compositional matrix adjust.
Identities = 33/66 (50%), Positives = 46/66 (69%)
Query: 262 CSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYV 321
A++ L +N+RLV+SIA+RY G DL+Q G +GL++ ++KFD +KGFK STY
Sbjct: 125 AEFAKQMLAEANLRLVVSIAKRYSGRGMQFLDLIQEGNMGLMKAVDKFDQTKGFKFSTYA 184
Query: 322 YWWIRQ 327
WWIRQ
Sbjct: 185 TWWIRQ 190
>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 = 79.7 bits (195), Expect = 4e-14, Method: Compositional matrix adjust.
Identities = 36/88 (40%), Positives = 59/88 (67%), Gaps = 4/88 (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 IGLLRGIEKFDSSKGFKISTYVYWWIRQ 327
+GL++ +EKF+ +G+K STY WWIRQ
Sbjct: 352 MGLMKAVEKFEYRRGYKFSTYATWWIRQ 379
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 0.130 0.359
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 129,357,380
Number of Sequences: 539616
Number of extensions: 4945081
Number of successful extensions: 16200
Number of sequences better than 100.0: 50
Number of HSP's better than 100.0 without gapping: 155
Number of HSP's successfully gapped in prelim test: 40
Number of HSP's that attempted gapping in prelim test: 15954
Number of HSP's gapped (non-prelim): 273
length of query: 391
length of database: 191,569,459
effective HSP length: 119
effective length of query: 272
effective length of database: 127,355,155
effective search space: 34640602160
effective search space used: 34640602160
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 62 (28.5 bits)