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= 022167
(301 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 = 353 bits (907), Expect = 6e-97, Method: Compositional matrix adjust.
Identities = 189/307 (61%), Positives = 230/307 (74%), Gaps = 29/307 (9%)
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 DMADLVQ 296
+M+DLVQ
Sbjct: 284 EMSDLVQ 290
>sp|Q9LD95|SIGF_ARATH RNA polymerase sigma factor sigF, chloroplastic OS=Arabidopsis
thaliana GN=SIGF PE=1 SV=1
Length = 547
Score = 68.9 bits (167), Expect = 5e-11, Method: Compositional matrix adjust.
Identities = 38/104 (36%), Positives = 65/104 (62%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLRISR 252
L+ ++ G +++LLT E L I+ L L+ K +L+ + GCEP++ + A ++ IS
Sbjct: 235 LQLFLWGPETKQLLTAKEEAELISHIQHLLKLEKVKTKLESQNGCEPTIGEWAEAMGISS 294
Query: 253 PELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQ 296
P L+S + +REKL+ +N+RLV+ IA++Y N G + DL+Q
Sbjct: 295 PVLKSDIHRGRSSREKLITANLRLVVHIAKQYQNRGLNFQDLLQ 338
>sp|O22056|SIGB_ARATH RNA polymerase sigma factor sigB OS=Arabidopsis thaliana GN=SIGB
PE=2 SV=2
Length = 572
Score = 59.7 bits (143), Expect = 2e-08, Method: Compositional matrix adjust.
Identities = 37/117 (31%), Positives = 66/117 (56%), Gaps = 1/117 (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 SMEQLAASLRISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQ 296
+ Q A++ + + L+ + +L ++K++ SN+RLV+SIA+ Y G ++ DLVQ
Sbjct: 307 TFAQWASAAGVDQKSLRQRIHHGTLCKDKMIKSNIRLVISIAKNYQGAGMNLQDLVQ 363
>sp|Q31ME3|RPOD2_SYNE7 RNA polymerase sigma factor rpoD2 OS=Synechococcus elongatus
(strain PCC 7942) GN=rpoD2 PE=1 SV=1
Length = 320
Score = 59.7 bits (143), Expect = 3e-08, Method: Compositional matrix adjust.
Identities = 34/112 (30%), Positives = 67/112 (59%), Gaps = 4/112 (3%)
Query: 185 SPELIQNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQL 244
SP+L+ + Y++ + LLT E + ++++ + L D + L++RLG EPS E+
Sbjct: 9 SPDLV----RAYLQEIGRVRLLTAEEELCFGRQVQRLMMLLDAQTELRDRLGHEPSKEEW 64
Query: 245 AASLRISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQ 296
AA++ ++ +L + + A+ K++ +N+RLV+SIA++Y + DL+Q
Sbjct: 65 AAAVDLNLEDLDRQIEQGQRAKRKMIEANLRLVVSIAKKYQKRHMEFLDLIQ 116
>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 = 55.1 bits (131), Expect = 6e-07, Method: Compositional matrix adjust.
Identities = 34/107 (31%), Positives = 62/107 (57%)
Query: 190 QNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLR 249
++ ++ Y++ + LL E + L++KI L L+ + RL E+L +P + A +++
Sbjct: 79 EDSIRLYLQEIGRIRLLRADEEIELARKIADLLELERVRERLSEKLERDPRDSEWAEAVQ 138
Query: 250 ISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQ 296
+ P + L A++K+V SN+RLV+SIA++Y N G DL+Q
Sbjct: 139 LPLPAFRYRLHIGRRAKDKMVQSNLRLVVSIAKKYMNRGLSFQDLIQ 185
>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 = 51.2 bits (121), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 26/101 (25%), Positives = 59/101 (58%)
Query: 196 YVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLRISRPEL 255
Y+ + LL+H + + +++++ + + K L E+L EP++++ A +++ L
Sbjct: 28 YLHKIGRVPLLSHEQEIFFAQQVQQMMVMFTAKEELAEKLQREPTLQEWADKMQLKEDVL 87
Query: 256 QSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQ 296
L + +A++K++ +N+RLV+SIA++Y + DL+Q
Sbjct: 88 LQQLSQGQIAKQKMIQANLRLVVSIAKKYQKRNLEFLDLIQ 128
>sp|P27785|RPOD_STRAU RNA polymerase sigma factor RpoD OS=Streptomyces aureofaciens
GN=rpoD PE=3 SV=1
Length = 317
Score = 49.7 bits (117), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 34/105 (32%), Positives = 59/105 (56%), Gaps = 15/105 (14%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSME-QLAASLRIS 251
+ Y++ + LLT AE V L+++++ GL + E+LG ++ QLA
Sbjct: 21 FRQYLREIGRIPLLTAAEEVDLARRVEAGLFAE-------EKLGGAADLDSQLAV----- 68
Query: 252 RPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQ 296
+L +++ +A+ +L+ SN+RLV+S+A+RY G M DLVQ
Sbjct: 69 --DLDRLVVMGRMAKRRLIESNLRLVVSVAKRYVGRGLTMLDLVQ 111
>sp|P38023|RPOD1_SYNE7 RNA polymerase sigma factor rpoD1 OS=Synechococcus elongatus
(strain PCC 7942) GN=rpoD1 PE=3 SV=2
Length = 399
Score = 48.1 bits (113), Expect = 7e-05, Method: Compositional matrix adjust.
Identities = 34/107 (31%), Positives = 61/107 (57%)
Query: 190 QNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLR 249
++ ++ Y++ + LL E + L+++I L+L+ + L E+L PS + AA++
Sbjct: 88 EDSIRLYLQEIGRIRLLRADEEIELARQIADLLALERIRDELLEQLDRLPSDAEWAAAVD 147
Query: 250 ISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQ 296
E + L A++K+V SN+RLV+SIA++Y N G DL+Q
Sbjct: 148 SPLDEFRRRLFRGRRAKDKMVQSNLRLVVSIAKKYMNRGLSFQDLIQ 194
>sp|Q31QG5|RPOD3_SYNE7 RNA polymerase sigma factor rpoD3 OS=Synechococcus elongatus
(strain PCC 7942) GN=rpoD3 PE=3 SV=1
Length = 320
Score = 47.0 bits (110), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 32/105 (30%), Positives = 60/105 (57%), Gaps = 1/105 (0%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGC-EPSMEQLAASLRIS 251
++ Y++ + LLTH E V L K+++ + L + + L+ G +PS + AA+ +S
Sbjct: 12 VRTYLREIGRVPLLTHEEEVVLGKRVQQWMKLQELRQTLQSEEGDRDPSDLEWAAAAGLS 71
Query: 252 RPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQ 296
EL+ A+ K++ +N+RLV+S+A++Y D+ DL+Q
Sbjct: 72 IEELRQQQHLGEQAKRKMIEANLRLVVSVAKKYLKRNMDLLDLIQ 116
>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 = 43.9 bits (102), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 32/101 (31%), Positives = 57/101 (56%), Gaps = 13/101 (12%)
Query: 196 YVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLRISRPEL 255
Y++ + LL+ AE V L+++++ GL + E+L C P ++ A +L
Sbjct: 103 YLREIGRIPLLSAAEEVDLARRVEAGLFAE-------EKLRCSPGLDDRLAL------DL 149
Query: 256 QSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQ 296
+++ LA+ +L+ +N+RLV+S+A+RY G M DLVQ
Sbjct: 150 DRLVVLGRLAKRRLIEANLRLVVSVAKRYVGRGLTMLDLVQ 190
>sp|P0A602|RPOD_MYCTU RNA polymerase sigma factor RpoD OS=Mycobacterium tuberculosis
GN=rpoD PE=1 SV=1
Length = 528
Score = 43.9 bits (102), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 33/106 (31%), Positives = 54/106 (50%), Gaps = 9/106 (8%)
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 SRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQ 296
R ++ I + A+ L+ +N+RLV+S+A+RY G DL+Q
Sbjct: 277 QRRDMMWICRDGDRAKNHLLEANLRLVVSLAKRYTGRGMAFLDLIQ 322
>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 = 43.9 bits (102), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 33/106 (31%), Positives = 54/106 (50%), Gaps = 9/106 (8%)
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 SRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQ 296
R ++ I + A+ L+ +N+RLV+S+A+RY G DL+Q
Sbjct: 277 QRRDMMWICRDGDRAKNHLLEANLRLVVSLAKRYTGRGMAFLDLIQ 322
>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 = 43.5 bits (101), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 28/89 (31%), Positives = 46/89 (51%), Gaps = 22/89 (24%)
Query: 230 RLKERLGCEPSMEQLAASLRISRPELQSILMECSL----------------------ARE 267
RL LG PS+E+ AA+ I+ +L+ IL E ++E
Sbjct: 120 RLASELGHRPSLERWAATAGINLCDLKPILSEGKRRWAEIAKMTVEELEKMQSQGLQSKE 179
Query: 268 KLVMSNVRLVMSIAQRYDNMGADMADLVQ 296
++ +N+RLV+S+A++Y N G ++ DLVQ
Sbjct: 180 HMIKANLRLVVSVAKKYQNRGLELLDLVQ 208
>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 = 43.5 bits (101), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 34/111 (30%), Positives = 55/111 (49%), Gaps = 13/111 (11%)
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 ASLRISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQ 296
R ELQ+++ E A++ + SN+RLV+++A+RY G + DL+Q
Sbjct: 83 ------REELQALIDESERAKDVFIRSNLRLVVAVARRYPRSGLPLLDLIQ 127
>sp|Q31QR8|RPOD4_SYNE7 RNA polymerase sigma factor rpoD4 OS=Synechococcus elongatus
(strain PCC 7942) GN=rpoD4 PE=3 SV=1
Length = 311
Score = 42.4 bits (98), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 30/101 (29%), Positives = 53/101 (52%), Gaps = 19/101 (18%)
Query: 196 YVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLRISRPEL 255
Y+ + LLT E V LS+K++ ++L ++ P E S E
Sbjct: 24 YLSSIGRIPLLTAEEEVELSRKVQLMMALLEN-----------PDAE--------SNSEN 64
Query: 256 QSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQ 296
Q++L A+ K++ +N+RLV+S+A++Y N G ++ DL+Q
Sbjct: 65 QAVLQAGQRAKTKMLKANLRLVVSVAKKYQNQGLELLDLIQ 105
>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 = 42.4 bits (98), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 33/104 (31%), Positives = 56/104 (53%), Gaps = 13/104 (12%)
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 PELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQ 296
EL+ I + A+ L+ +N+RLV+S+A+RY G DL+Q
Sbjct: 263 -ELEIIAEDGRRAKNHLLEANLRLVVSLAKRYTGRGMLFLDLIQ 305
>sp|P77951|HRDB_STRGR RNA polymerase principal sigma factor HrdB OS=Streptomyces griseus
GN=hrdB PE=1 SV=1
Length = 514
Score = 42.0 bits (97), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 33/104 (31%), Positives = 56/104 (53%), Gaps = 13/104 (12%)
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 PELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQ 296
EL+ I + A+ L+ +N+RLV+S+A+RY G DL+Q
Sbjct: 266 -ELEIIAEDGRRAKNHLLEANLRLVVSLAKRYTGRGMLFLDLIQ 308
>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 = 41.6 bits (96), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 19/36 (52%), Positives = 27/36 (75%)
Query: 261 ECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQ 296
E S A+++LV +N+RLV+SIA+RY N G DL+Q
Sbjct: 343 EISQAKKELVKANLRLVVSIAKRYANRGMHFFDLIQ 378
>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 = 41.6 bits (96), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 19/36 (52%), Positives = 27/36 (75%)
Query: 261 ECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQ 296
E S A+++LV +N+RLV+SIA+RY N G DL+Q
Sbjct: 343 EISQAKKELVKANLRLVVSIAKRYANRGMHFFDLIQ 378
>sp|Q59914|HRDD_STRGR RNA polymerase principal sigma factor HrdD OS=Streptomyces griseus
GN=hrdD PE=3 SV=1
Length = 332
Score = 41.2 bits (95), Expect = 0.009, Method: Compositional matrix adjust.
Identities = 31/101 (30%), Positives = 53/101 (52%), Gaps = 11/101 (10%)
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 QSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQ 296
++++ E A++ + SN+RLV+++A+RY G + DL+Q
Sbjct: 87 EALVAEGERAKDVFIRSNLRLVVAVARRYPRSGLPLLDLIQ 127
>sp|P19940|RPSG_BACSU RNA polymerase sigma-G factor OS=Bacillus subtilis (strain 168)
GN=sigG PE=3 SV=1
Length = 260
Score = 41.2 bits (95), Expect = 0.009, Method: Compositional matrix adjust.
Identities = 19/33 (57%), Positives = 25/33 (75%)
Query: 265 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQV 297
AREKLV N+RLV+S+ QR++N G + DL QV
Sbjct: 39 AREKLVNGNLRLVLSVIQRFNNRGEYVDDLFQV 71
>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 = 41.2 bits (95), Expect = 0.010, Method: Compositional matrix adjust.
Identities = 33/101 (32%), Positives = 52/101 (51%), Gaps = 12/101 (11%)
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 QSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQ 296
+ ++ E AR L+ +N+RLV+S+A+RY G + DL+Q
Sbjct: 83 KVLVKEGRKARSHLLEANLRLVVSLAKRYTGRGMPLLDLIQ 123
>sp|P26768|RPSX_BACTK Putative RNA polymerase sigma-G factor (Fragment) OS=Bacillus
thuringiensis subsp. kurstaki PE=3 SV=1
Length = 125
Score = 41.2 bits (95), Expect = 0.010, Method: Compositional matrix adjust.
Identities = 19/33 (57%), Positives = 25/33 (75%)
Query: 265 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQV 297
AREKLV N+RLV+S+ QR++N G + DL QV
Sbjct: 38 AREKLVNGNLRLVLSVIQRFNNRGEYVDDLFQV 70
>sp|P52322|RPOD_MICAE RNA polymerase sigma factor rpoD1 OS=Microcystis aeruginosa
GN=rpoD1 PE=3 SV=1
Length = 416
Score = 40.8 bits (94), Expect = 0.011, Method: Compositional matrix adjust.
Identities = 18/32 (56%), Positives = 25/32 (78%)
Query: 265 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQ 296
A+EK+V SN+RLV+SIA++Y N G DL+Q
Sbjct: 180 AKEKMVQSNLRLVVSIAKKYMNRGLSFQDLIQ 211
>sp|P33658|RPSG_CLOAB RNA polymerase sigma-G factor OS=Clostridium acetobutylicum (strain
ATCC 824 / DSM 792 / JCM 1419 / LMG 5710 / VKM B-1787)
GN=sigG PE=3 SV=2
Length = 257
Score = 40.4 bits (93), Expect = 0.016, Method: Compositional matrix adjust.
Identities = 17/33 (51%), Positives = 24/33 (72%)
Query: 265 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQV 297
AREK + N+RLV+S+ QR++N G + DL QV
Sbjct: 38 AREKFIKGNLRLVLSVIQRFNNRGENADDLFQV 70
>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 = 40.0 bits (92), Expect = 0.018, Method: Compositional matrix adjust.
Identities = 29/104 (27%), Positives = 55/104 (52%), Gaps = 9/104 (8%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLRISR 252
L Y+ + + LLT + VRL+ +I+ G +R +E L + E R R
Sbjct: 39 LGQYLTQIGATPLLTAEDEVRLATRIEAG-------VRAREELETADTGEPAPTPRR--R 89
Query: 253 PELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQ 296
L+ + + A++ +V +N+RLV+S+A+R+ + G + D++Q
Sbjct: 90 RTLEETVHDGQEAKDHMVRANLRLVVSMAKRHAHRGLPLLDVIQ 133
>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 = 40.0 bits (92), Expect = 0.020, Method: Compositional matrix adjust.
Identities = 18/32 (56%), Positives = 24/32 (75%)
Query: 265 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQ 296
A+EKL+ SN+RLV+SIA+RY G DL+Q
Sbjct: 155 AKEKLITSNLRLVVSIAKRYMGRGLSFQDLIQ 186
>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 = 39.3 bits (90), Expect = 0.032, Method: Compositional matrix adjust.
Identities = 17/32 (53%), Positives = 25/32 (78%)
Query: 265 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQ 296
A++K+V SN+RLV+SIA++Y N G DL+Q
Sbjct: 189 AKDKMVQSNLRLVVSIAKKYMNRGLSFQDLIQ 220
>sp|Q59753|RPOD_RHIME RNA polymerase sigma factor RpoD OS=Rhizobium meliloti (strain
1021) GN=rpoD PE=3 SV=1
Length = 684
Score = 39.3 bits (90), Expect = 0.040, Method: Compositional matrix adjust.
Identities = 22/63 (34%), Positives = 37/63 (58%), Gaps = 7/63 (11%)
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 LVQ 296
L+Q
Sbjct: 475 LIQ 477
>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 = 38.9 bits (89), Expect = 0.046, Method: Compositional matrix adjust.
Identities = 22/63 (34%), Positives = 37/63 (58%), Gaps = 7/63 (11%)
Query: 241 MEQLAASLRISRPELQSILM-------ECSLAREKLVMSNVRLVMSIAQRYDNMGADMAD 293
++ LA IS E + I+ E +A++++V +N+RLV+SIA++Y N G D
Sbjct: 416 IQNLATETGISISEFRRIVHMVQKGEREARIAKKEMVEANLRLVISIAKKYTNRGLQFLD 475
Query: 294 LVQ 296
L+Q
Sbjct: 476 LIQ 478
>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 = 38.9 bits (89), Expect = 0.046, Method: Compositional matrix adjust.
Identities = 16/36 (44%), Positives = 27/36 (75%)
Query: 261 ECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQ 296
E +A++++V +N+RLV+SIA++Y N G DL+Q
Sbjct: 442 EARIAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQ 477
>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 = 38.9 bits (89), Expect = 0.053, Method: Compositional matrix adjust.
Identities = 20/57 (35%), Positives = 36/57 (63%), Gaps = 4/57 (7%)
Query: 240 SMEQLAASLRISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQ 296
++E+ +R+ LQ + + A++++V SN+RLV+SIA++Y N G DL+Q
Sbjct: 296 TLEEFKKDVRM----LQRWMDKSQEAKKEMVESNLRLVISIAKKYTNRGLSFLDLIQ 348
>sp|P56835|RPOD_CHLMU RNA polymerase sigma factor RpoD OS=Chlamydia muridarum (strain
MoPn / Nigg) GN=rpoD PE=3 SV=1
Length = 571
Score = 38.5 bits (88), Expect = 0.053, Method: Compositional matrix adjust.
Identities = 20/57 (35%), Positives = 36/57 (63%), Gaps = 4/57 (7%)
Query: 240 SMEQLAASLRISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQ 296
++E+ +R+ LQ + + A++++V SN+RLV+SIA++Y N G DL+Q
Sbjct: 296 TLEEFKKDVRM----LQRWMDKSQEAKKEMVESNLRLVISIAKKYTNRGLSFLDLIQ 348
>sp|Q9Z7F0|RPOD_CHLPN RNA polymerase sigma factor RpoD OS=Chlamydia pneumoniae GN=rpoD
PE=3 SV=1
Length = 572
Score = 38.5 bits (88), Expect = 0.055, Method: Compositional matrix adjust.
Identities = 20/57 (35%), Positives = 36/57 (63%), Gaps = 4/57 (7%)
Query: 240 SMEQLAASLRISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQ 296
++E+ +R+ LQ + + A++++V SN+RLV+SIA++Y N G DL+Q
Sbjct: 296 TLEEFKKDVRM----LQRWMDKSQEAKKEMVESNLRLVISIAKKYTNRGLSFLDLIQ 348
>sp|Q60012|HRDD_STRVF RNA polymerase principal sigma factor HrdD OS=Streptomyces
viridifaciens GN=hrdD PE=3 SV=1
Length = 332
Score = 38.5 bits (88), Expect = 0.060, Method: Compositional matrix adjust.
Identities = 17/46 (36%), Positives = 31/46 (67%)
Query: 251 SRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQ 296
+R ELQ+++ A++ + SN+RLV+++A+RY G + DL+Q
Sbjct: 82 TREELQALVDAGERAKDVFIRSNLRLVVAVARRYPRSGLPLLDLIQ 127
>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 = 38.5 bits (88), Expect = 0.068, Method: Compositional matrix adjust.
Identities = 16/43 (37%), Positives = 31/43 (72%)
Query: 254 ELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQ 296
EL++I + A+ ++ +N+RLV+S+A++Y N G ++ DL+Q
Sbjct: 154 ELENIEKQGITAKAHMIKANLRLVVSVAKKYQNRGLELLDLIQ 196
>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 = 37.4 bits (85), Expect = 0.12, Method: Compositional matrix adjust.
Identities = 16/32 (50%), Positives = 25/32 (78%)
Query: 265 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQ 296
A+++L+ +N+RLV+SIA++Y N G DLVQ
Sbjct: 391 AKDQLIKANLRLVVSIAKKYANRGLHFFDLVQ 422
>sp|O83506|RPOD_TREPA RNA polymerase sigma factor RpoD OS=Treponema pallidum (strain
Nichols) GN=rpoD PE=3 SV=1
Length = 611
Score = 37.4 bits (85), Expect = 0.15, Method: Compositional matrix adjust.
Identities = 17/32 (53%), Positives = 25/32 (78%)
Query: 265 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQ 296
A++KL+ +N+RLV+SIA++Y N G DLVQ
Sbjct: 373 AKDKLINANLRLVVSIAKKYTNRGLLFFDLVQ 404
>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 = 37.0 bits (84), Expect = 0.18, Method: Compositional matrix adjust.
Identities = 16/36 (44%), Positives = 26/36 (72%)
Query: 261 ECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQ 296
E A++++V +N+RLV+SIA++Y N G DL+Q
Sbjct: 410 EARQAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQ 445
>sp|Q9PDM9|RPOD_XYLFA RNA polymerase sigma factor RpoD OS=Xylella fastidiosa (strain
9a5c) GN=rpoD PE=3 SV=1
Length = 618
Score = 36.6 bits (83), Expect = 0.20, Method: Compositional matrix adjust.
Identities = 16/35 (45%), Positives = 26/35 (74%)
Query: 262 CSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQ 296
S A++++V +N+RLV+SIA++Y N G DL+Q
Sbjct: 376 ASKAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQ 410
>sp|Q87DT7|RPOD_XYLFT RNA polymerase sigma factor RpoD OS=Xylella fastidiosa (strain
Temecula1 / ATCC 700964) GN=rpoD PE=3 SV=1
Length = 618
Score = 36.6 bits (83), Expect = 0.21, Method: Compositional matrix adjust.
Identities = 16/35 (45%), Positives = 26/35 (74%)
Query: 262 CSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQ 296
S A++++V +N+RLV+SIA++Y N G DL+Q
Sbjct: 376 ASKAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQ 410
>sp|P0CZ15|RPOD_RHOCA RNA polymerase sigma factor rpoD OS=Rhodobacter capsulatus GN=rpoD
PE=2 SV=1
Length = 674
Score = 36.6 bits (83), Expect = 0.23, Method: Compositional matrix adjust.
Identities = 16/36 (44%), Positives = 26/36 (72%)
Query: 261 ECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQ 296
E A++++V +N+RLV+SIA++Y N G DL+Q
Sbjct: 432 EARQAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQ 467
>sp|P32001|RPOD_BUCAP RNA polymerase sigma factor RpoD OS=Buchnera aphidicola subsp.
Schizaphis graminum (strain Sg) GN=rpoD PE=3 SV=1
Length = 617
Score = 36.6 bits (83), Expect = 0.24, Method: Compositional matrix adjust.
Identities = 15/32 (46%), Positives = 25/32 (78%)
Query: 265 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQ 296
A++++V +N+RLV+SIA++Y N G DL+Q
Sbjct: 379 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQ 410
>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 = 36.6 bits (83), Expect = 0.24, Method: Compositional matrix adjust.
Identities = 16/36 (44%), Positives = 26/36 (72%)
Query: 261 ECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQ 296
E A++++V +N+RLV+SIA++Y N G DL+Q
Sbjct: 432 EARQAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQ 467
>sp|Q89B10|RPOD_BUCBP RNA polymerase sigma factor RpoD OS=Buchnera aphidicola subsp.
Baizongia pistaciae (strain Bp) GN=rpoD PE=3 SV=1
Length = 609
Score = 36.2 bits (82), Expect = 0.27, Method: Compositional matrix adjust.
Identities = 15/32 (46%), Positives = 25/32 (78%)
Query: 265 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQ 296
A++++V +N+RLV+SIA++Y N G DL+Q
Sbjct: 371 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQ 402
>sp|P52325|RPOD_NEIGO RNA polymerase sigma factor RpoD OS=Neisseria gonorrhoeae GN=rpoD
PE=3 SV=1
Length = 642
Score = 36.2 bits (82), Expect = 0.28, Method: Compositional matrix adjust.
Identities = 14/32 (43%), Positives = 25/32 (78%)
Query: 265 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQ 296
A+++++ +N+RLV+SIA++Y N G DL+Q
Sbjct: 399 AKQEMIQANLRLVISIAKKYTNRGLQFLDLIQ 430
>sp|P57163|RPOD_BUCAI RNA polymerase sigma factor RpoD OS=Buchnera aphidicola subsp.
Acyrthosiphon pisum (strain APS) GN=rpoD PE=3 SV=1
Length = 612
Score = 36.2 bits (82), Expect = 0.29, Method: Compositional matrix adjust.
Identities = 15/32 (46%), Positives = 25/32 (78%)
Query: 265 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQ 296
A++++V +N+RLV+SIA++Y N G DL+Q
Sbjct: 374 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQ 405
>sp|Q83BB6|RPOD_COXBU RNA polymerase sigma factor RpoD OS=Coxiella burnetii (strain RSA
493 / Nine Mile phase I) GN=rpoD PE=1 SV=1
Length = 698
Score = 36.2 bits (82), Expect = 0.31, Method: Compositional matrix adjust.
Identities = 14/32 (43%), Positives = 25/32 (78%)
Query: 265 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQ 296
A+++++ +N+RLV+SIA++Y N G DL+Q
Sbjct: 458 AKKEMIEANLRLVISIAKKYTNRGLQFLDLIQ 489
>sp|P17531|RPOD_MYXXA RNA polymerase sigma factor RpoD OS=Myxococcus xanthus GN=rpoD PE=3
SV=1
Length = 708
Score = 36.2 bits (82), Expect = 0.33, Method: Compositional matrix adjust.
Identities = 16/32 (50%), Positives = 24/32 (75%)
Query: 265 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQ 296
A+ +LV +N+RLV+SIA++Y N G DL+Q
Sbjct: 470 AKSELVEANLRLVVSIAKKYTNRGLQFLDLIQ 501
>sp|Q9ZNX9|SIGE_ARATH RNA polymerase sigma factor sigE, chloroplastic/mitochondrial
OS=Arabidopsis thaliana GN=SIGE PE=1 SV=1
Length = 517
Score = 36.2 bits (82), Expect = 0.33, Method: Compositional matrix adjust.
Identities = 26/92 (28%), Positives = 47/92 (51%), Gaps = 6/92 (6%)
Query: 208 HAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLRISRPELQSILMECSLARE 267
HA + +L + +K L + D L++ LG EP ++A + ++ E++ + AR
Sbjct: 225 HAWLFKLMQPMKALLEVKDV---LQKSLGREPREAEIAGEINMTAGEVKKKIEIGRAARN 281
Query: 268 KLVMSNVRLVMSIAQRYDNM---GADMADLVQ 296
KL+ N+RLV+ + +Y + G DL Q
Sbjct: 282 KLIKHNLRLVLFVMNKYFHEFTNGPKFQDLCQ 313
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
0.312 0.126 0.338
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 96,878,679
Number of Sequences: 539616
Number of extensions: 3605032
Number of successful extensions: 10591
Number of sequences better than 100.0: 50
Number of HSP's better than 100.0 without gapping: 115
Number of HSP's successfully gapped in prelim test: 49
Number of HSP's that attempted gapping in prelim test: 10403
Number of HSP's gapped (non-prelim): 227
length of query: 301
length of database: 191,569,459
effective HSP length: 117
effective length of query: 184
effective length of database: 128,434,387
effective search space: 23631927208
effective search space used: 23631927208
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)