BLASTP 2.2.18 [Mar-02-2008] 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= 0188.0076.p (1203 letters) Database: COG 115,334 sequences; 38,378,431 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value ML0138 [IQ] COG0318 Acyl-CoA synthetases (AMP-forming)/AMP-acid ... 1571 0.0 alr1595 [K] COG0086 DNA-directed RNA polymerase, beta' subunit/1... 733 0.0 slr1265 [K] COG0086 DNA-directed RNA polymerase, beta' subunit/1... 702 0.0 STM0459 [K] COG1522 Transcriptional regulators 604 e-172 alr1596 [K] COG0086 DNA-directed RNA polymerase, beta' subunit/1... 360 1e-98 >ML0138 [IQ] COG0318 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II Length = 211 Score = 1571 bits (4068), Expect = 0.0, Method: Compositional matrix adjust. Identities = 0/1179 (0%), Positives = 0/1179 (0%), Gaps = 6/1179 (0%) Query: 10 MKIGLASPEKIRSWSRGEVKKPETINYRTLKPEKEGLFCERIFGPQKDWECHCGKYKRVR 69 M R E + L + + Sbjct: 1 MNKAKRLEILTRLRENNPHPTTELNFSSPFELLIAVLLSAQATDVSVNKATAKLYPVANT 60 Query: 70 YKGVVCDRCGVEVTRAKVRRERMGHIELAAPVSHIWYFKGIPSRMGLALDMSPRSLEEII 129 ++ T K E I + + Sbjct: 61 PAAMLELGVEGVKTYIKTIGLYNSKAENIIKTCRILLEQHNGEVPEDRAALEALPGVGRK 120 Query: 130 YFASYVVTDPGETPLEKKQLLSEKEYRSYREKYGYG-FQAGMGAEAVKKLLQDIDIDKEL 188 + T G + + R+ + V + + Sbjct: 121 TANVVLNTAFGWPTIAVDTHIFRVCNRTQFAPGKNVEQVEEKLLKVVPAEFKVDCHHWLI 180 Query: 189 EFLKEELRTAQGQRRNRAIKRLEVIEAFRNSGNKPDWMIMDVLPVIPPELRPMVQLDGGR 248 Sbjct: 181 240 Query: 249 FATSDLNDLYXXXXXXXXXXXXXXDLGAPDIIVQNEKRMLQEAVDALIDNGRRGRPVTGP 308 Sbjct: 241 300 Query: 309 GNRPLKSLSHMLKGKQGRFRQNLLGKRVDYSGRSVIVVGPYLKMYQCGLPKKMALELFKP 368 Sbjct: 301 360 Query: 369 FVMKELVNKGLAHNIKSAKRKVERVSPEVWDVLEDVIKEHPVLLNRAPTLHRLGIQAFEP 428 Sbjct: 361 420 Query: 429 ILVEGHAIRLHPLVCTAYNADFDGDQMAVHVPLSAEAQAEARILMLASGNILNPKDGKPV 488 Sbjct: 421 480 Query: 489 VTPSQDMVLGTFYLTMDNKEEKGTGMILRTVNEAVSAYQRGTAGLHARVAIPAKALGKTC 548 Sbjct: 481 - 539 Query: 549 FTEAQQNAMLVTTIGKIIFNEIYPSSFPYINEATKTNLLQGTPEKYFIYEKGADIRELIL 608 Sbjct: 540 - 598 Query: 609 SLPDASAVGKEYLGLIIARCFEIYHTTQTSMILDKIKQLGFTYSTRSGVTVAVSDVIVPE 668 Sbjct: 599 658 Query: 669 EKITILKESEAKVDVVANQYRRGLITNDERYDRVIEIWSKTKDDLTNILLKSMDRFNSIM 728 Sbjct: 659 718 Query: 729 LMVDSKARGNKSQITQLGGMRGLMATPSGRIFELPIKANFREGLTVLEYFISTHGARKGL 788 Sbjct: 719 778 Query: 789 ADTALRTADSGYLTRRLVDVAQDVIVREDDCGTDKGFTVSRIQDGKEVIEDLYDRIEGRY 848 Sbjct: 779 838 Query: 849 SFETVRHPETKEIIVNRNDLIDSDKAEEIVNAGVTKLQIRSVLSCRARHGVCKKCYGRNL 908 Sbjct: 839 898 Query: 909 ATGKHVDIGEAVGIIAAQSIGEPGTQLTMRTFHTGGVA-GDDITQGLPRIQELFEARNPK 967 Sbjct: 899 958 Query: 968 GQATISEIDGVIKEIRE--TKDRREIEVQGEAESKTYSITYGSRLRVSEGQEIEAGDELT 1025 Sbjct: 959 1018 Query: 1026 DGSIDPKEMLRIKGIRGVQNYILQEVQRVYRNQGVEINDKHIEVMIKQMLRKIRIIEAGD 1085 Sbjct: 1019 1078 Query: 1086 TNLLPGAFSDIHEYEAANKEAILTGKEPAVAKPVLLGITKASLETDSFLSAASFQETTRV 1145 Sbjct: 1079 1138 Query: 1146 LTDAAIKGKVDKLLGLKENVLIGKLIPAGTGMNRYRNVK 1184 Sbjct: 1139 1177 >alr1595 [K] COG0086 DNA-directed RNA polymerase, beta' subunit/160 kD subunit Length = 359 Score = 733 bits (1892), Expect = 0.0, Method: Compositional matrix adjust. Identities = 0/552 (0%), Positives = 0/552 (0%), Gaps = 17/552 (3%) Query: 5 NSFEFMKIGLASPEKIRSWSR---------GEVKKPETINYRTLKPEKEGLFCERIFGPQ 55 + + + + G+ Sbjct: 7 VINRRALRHNLQRLRELAPASKMVAVVKANAYGHGLLETARTLPDADAFGVARLEEALRL 66 Query: 56 KDWECHCGKYKRVRYKGVVCDRCGVEVTRAKVRRERMGHIELAAPVSHIWYFKGIPSRMG 115 + + L + G Sbjct: 67 RAGGITKPVLLLEGFFDARDLPTISAQHFHTAVHNEEQLAALEEASLDEPVTVWMKLDTG 126 Query: 116 LALDMSPRSLEEIIYFASYVVTDPGET-PLEKKQLLSEKEY-----RSYREKYGY-GFQA 168 + E Y + + + +++ + + + Sbjct: 127 MHRLGVRPEQAEAFYHRLTQCKNVRQPVNIVSHFARADEPKCGATEKQLAIFNTFCEGKP 186 Query: 169 GMGAEAVKKLLQDIDIDKELEFLKEELRTAQGQRRNRAIKRLEVIEAFRNSGNKPDWMIM 228 G + A + + +R+ + + + + Sbjct: 187 GQRSIAASGGILLWPQSHFDWVRPGIILYGVSPLEDRSTGADFGCQPVMSLTSSLIAVRE 246 Query: 229 DVLPVIPPELRPMVQLDGGRFATSDLNDLYXXXXXXXXXXXXXXDLGAPDIIVQNEKRML 288 V R + + I+ + M+ Sbjct: 247 HKAGEPVGYGGTWVSERDTRLGVVAMGYGDGYPRAAPSGTPVLVNGREVPIVGRVAMDMI 306 Query: 289 QEAVDALIDNGRRGRPVTGPGNRPLKSLSHMLKGKQGRFRQNLLGKRVDYSGRSVIVVGP 348 Sbjct: 307 366 Query: 349 YLKMYQCGLPKKMALELFKPFVMKELVNKGLAHNIKSAKRKVERVSPEVWDVLEDVIKEH 408 Sbjct: 367 426 Query: 409 PVLLNRAPTLHRLGIQAFEPILVEGHAIRLHPLVCTAYNADFDGDQMAVHVPLSAEAQAE 468 Sbjct: 427 486 Query: 469 ARILMLASGNILNPKDGKPVVTPSQDMVLGTFYLTMDNK-EEKGTGMILRTVNEAVSAYQ 527 Sbjct: 487 546 Query: 528 RGTAGLHARVAI 539 Sbjct: 547 558 >slr1265 [K] COG0086 DNA-directed RNA polymerase, beta' subunit/160 kD subunit Length = 626 Score = 702 bits (1812), Expect = 0.0, Method: Compositional matrix adjust. Identities = 333/550 (60%), Positives = 426/550 (77%), Gaps = 17/550 (3%) Query: 7 FEFMKIGLASPEKIRSWSR---------GEVKKPETINYRTLKPEKEGLFCERIFGPQKD 57 F+++KI +ASPE+IR W GEV KPETINYRTLKPE +GLFCE+IFGP KD Sbjct: 9 FDYVKIAIASPERIRQWGERTLPNGTVVGEVTKPETINYRTLKPEMDGLFCEKIFGPSKD 68 Query: 58 WECHCGKYKRVRYKGVVCDRCGVEVTRAKVRRERMGHIELAAPVSHIWYFKGIPSRMGLA 117 WEC CGKYKRVR++G+VC+RCGVEVT ++VRR RMG+I+LAAPV+H+WY KGIPS + + Sbjct: 69 WECWCGKYKRVRHRGIVCERCGVEVTESRVRRHRMGYIKLAAPVTHVWYLKGIPSYLSIL 128 Query: 118 LDMSPRSLEEIIYFASYVVTDPGE-TPLEKKQLLSEKEY-----RSYREKYGY-GFQAGM 170 LDM+ R +E+I+YF +YVV +PG + L+ KQLL+E ++ + Y E G + G+ Sbjct: 129 LDMALRDVEQIVYFNAYVVLNPGNASNLQYKQLLTEDQWVEIEDQIYAEDSELEGIEVGI 188 Query: 171 GAEAVKKLLQDIDIDKELEFLKEELRTAQGQRRNRAIKRLEVIEAFRNSGNKPDWMIMDV 230 GAEAV++LL ++ +++ E L+EE+ ++GQ+R + IKRL VI+ F + ++ +WM +DV Sbjct: 189 GAEAVQRLLAELQLEEVAEKLREEILASKGQKRAKLIKRLRVIDNFIATHSQAEWMTLDV 248 Query: 231 LPVIPPELRPMVQLDGGRFATSDLNDLYXXXXXXXXXXXXXXDLGAPDIIVQNEKRMLQE 290 +PVIPP+LRPMVQLDGGRFATSDLNDLY ++ AP+IIV+NEKRMLQE Sbjct: 249 IPVIPPDLRPMVQLDGGRFATSDLNDLYRRVINRNNRLARLQEILAPEIIVRNEKRMLQE 308 Query: 291 AVDALIDNGRRGRPVTGPGNRPLKSLSHMLKGKQGRFRQNLLGKRVDYSGRSVIVVGPYL 350 AVDALIDNGRRGR V G NR LKSLS +++GKQGRFRQNLLGKRVDYSGRSVIVVGP L Sbjct: 309 AVDALIDNGRRGRTVVGANNRALKSLSDIIEGKQGRFRQNLLGKRVDYSGRSVIVVGPNL 368 Query: 351 KMYQCGLPKKMALELFKPFVMKELVNKGLAHNIKSAKRKVERVSPEVWDVLEDVIKEHPV 410 K+YQCGLP++MA+ELF+PFV+ L+ G+ +NIK+AK+ + + P++W VLE+VI HPV Sbjct: 369 KIYQCGLPREMAIELFQPFVIHRLIKLGIVNNIKAAKKLILKGDPQIWSVLEEVITGHPV 428 Query: 411 LLNRAPTLHRLGIQAFEPILVEGHAIRLHPLVCTAYNADFDGDQMAVHVPLSAEAQAEAR 470 +LNRAPTLHRLGIQAFEPILVEG AI+LHPLVC A+NADFDGDQMAVHVPLS EAQ EAR Sbjct: 429 MLNRAPTLHRLGIQAFEPILVEGRAIQLHPLVCPAFNADFDGDQMAVHVPLSLEAQCEAR 488 Query: 471 ILMLASGNILNPKDGKPVVTPSQDMVLGTFYLTMDN-KEEKGTGMILRTVNEAVSAYQRG 529 +LMLA N+L+P GKP+V PSQDMVLG +YLT +N +KG G + +A+ AY G Sbjct: 489 LLMLACHNVLSPATGKPIVAPSQDMVLGCYYLTAENPNAQKGAGRYFAGIEDALRAYDHG 548 Query: 530 TAGLHARVAI 539 LH+++ I Sbjct: 549 QVDLHSQIWI 558 >STM0459 [K] COG1522 Transcriptional regulators Length = 152 Score = 604 bits (1557), Expect = e-172, Method: Compositional matrix adjust. Identities = 0/780 (0%), Positives = 0/780 (0%), Gaps = 89/780 (11%) Query: 141 ETPLEKKQLLSEKEYRSYREKYGYGFQAGMGAEAVKKLLQDIDIDKELEFLKEELRTAQG 200 Sbjct: 434 493 Query: 201 QRRNRAIK---RLEVIEAFRNSGNKPDWMIMDVLPVIPPELRPMVQLDGGRFATSDLNDL 257 Sbjct: 494 - 552 Query: 258 YXXXXXXXXXXXXXXDLGAPDIIVQNEKRMLQEAVDALIDNG------RRGRPVTGPGN- 310 Sbjct: 553 612 Query: 311 RPLKSLSHMLKGKQGRFRQNLLGKRVDYSGRSVIVVGPYLKMYQCGLPKKMALELFKPFV 370 Sbjct: 613 672 Query: 371 MKELVNKGLAHNI--KSAKRKVERVSPEVWDVLEDVIKEHPVLLNRAPTLHRLGIQAFEP 428 Sbjct: 673 732 Query: 429 ILVEGHAIRLHPLVCTAYNADFDGDQMAVHVPLSAEAQAEARILMLASGNILNPKDGKPV 488 Sbjct: 733 792 Query: 489 VTPSQDMVLGTFYLT-----MDNKEEKGTGMILRTVNEAVSAYQRGTAGLHARVAIPAKA 543 Sbjct: 793 852 Query: 544 LGKTCFTEAQQNAMLVTTIGKIIFNEIYPSSFPYINEATKTNLLQGTPEKYFIYEKGADI 603 Sbjct: 853 ------------------------------------ 876 Query: 604 RELILSLPDASAVGKEYLGLIIARCFEIYHTTQTSMILDKIKQLGFTYSTRSGVTVAVSD 663 Sbjct: 877 ------ 930 Query: 664 VIVPEEKITILKESEAKVDVVANQYRRGLITNDERYDRVIEIWSKTKDDLTNILLKSM-- 721 Sbjct: 931 990 Query: 722 DRFNSIMLMVDSKARGNKSQITQLGGMRGLM-------------------ATPSGRIFEL 762 Sbjct: 991 1050 Query: 763 PIKANFREGLTVLEYFISTHGARKGLADTALRTADSGYLTRRLVDVAQDVIVREDDCGTD 822 Sbjct: 1051 1110 Query: 823 KGFTVSRIQDGKEVIEDLYDRIEGRYSFETVRHPETKEIIVN--------RNDLIDSDKA 874 Sbjct: 1111 1170 Score = 218 bits (554), Expect = 7e-56, Method: Compositional matrix adjust. Identities = 0/182 (0%), Positives = 0/182 (0%), Gaps = 8/182 (4%) Query: 10 MKIGLASPEKIRSWSRGEVKKPETINYRTLKPEKEGLFCERIFGPQKDWECHCGKYKRVR 69 ++ + + + P + L+ + L + P+K Sbjct: 13 LQQDCTLSLQALADAVNLTTTPCWKRLKRLEDDGILLGRVALLDPEKLGLGLTAFVLIKT 72 Query: 70 YKGVVCDRCGVEVTRAKVRRERMGHIELAAPVSHIWYFKGIPSRMGLALDMSPRSLEEII 129 C +++ + R S+ + Sbjct: 73 QHHSSEWYCRFVTVVSEMPEVLGFWRMAGEYDYLMRVQVADMKRYDDFYKRLVNSVPGLS 132 Query: 130 YFAS-------YVVTDPGETPLEKKQLLSEKEYRSYREKYGYGFQAGMGAEAVKK-LLQD 181 S Sbjct: 133 DVTSSFAMEQI 192 Query: 182 ID 183 Sbjct: 193 194 Score = 160 bits (405), Expect = 1e-38, Method: Compositional matrix adjust. Identities = 0/372 (0%), Positives = 0/372 (0%), Gaps = 52/372 (13%) Query: 790 DTALRTADSGYLT--RRLVDVA--QDVIVRE---DDCGTDKGFTVSRIQDGKEVIEDLYD 842 Sbjct: 1162 1221 Query: 843 --RIEGRYSFETVRHPETKEIIVNRNDLIDSDKA------EEIVNAGVTKLQ-------- 886 Sbjct: 1222 1281 Query: 887 -------IRSVLSCRARHGVCKKCYGRNLATGKHVDIGEAVGIIAAQSIGEPGTQLTMRT 939 Sbjct: 1282 1341 Query: 940 FHTGGVAG-DDITQGLPRIQELFEA----RNPK------------GQATISEIDGVIKEI 982 Sbjct: 1342 1401 Query: 983 -RETKDRREIEVQGEAES-KTYSITYGSRLRVSEGQEIEAGDELTDGSIDPKEMLRIKGI 1040 Sbjct: 1402 1461 Query: 1041 RGVQNY--ILQEVQRVYRNQGVEINDKHIEVMIKQMLRKIRIIEAGDTNLLPGAFSDIHE 1098 Sbjct: 1462 1521 Query: 1099 YEAANKEAILTG 1110 Sbjct: 1522 - 1532 Score = 85.5 bits (210), Expect = 4e-16, Method: Compositional matrix adjust. Identities = 0/129 (0%), Positives = 0/129 (0%), Gaps = 18/129 (13%) Query: 1060 VEINDKHIEVMIKQMLRKIRIIEAGDTNLLPGAFSDIHEYEAANKEAILT----GKEPAV 1115 Sbjct: 1562 -------------- 1607 Query: 1116 AKPVLLGITKASLETDSFLSAASFQETTRVLTDAAIKGKVDKLLGLKENVLIGKLIPAGT 1175 Sbjct: 1608 1667 Query: 1176 GMNRYRNVK 1184 Sbjct: 1668 1676 >alr1596 [K] COG0086 DNA-directed RNA polymerase, beta' subunit/160 kD subunit Length = 359 Score = 360 bits (923), Expect = 1e-98, Method: Compositional matrix adjust. Identities = 0/430 (0%), Positives = 0/430 (0%), Gaps = 30/430 (6%) Query: 616 VGKEYLGLIIARCFEIYHTTQTSMILDKIKQLGFTYSTRSGVTVAVSDVIVPEEKITILK 675 + + L + R E+ ++ ++ T + A + + E+ L+ Sbjct: 8 INRRALRHNLQRLRELAPASKMVAVVKANAYGHGLLETARTLPDADAFGVARLEEALRLR 67 Query: 676 ESEAKVDVVANQYRRGLITNDERYDRVIEIWSKTKDDLTNILL---KSMDRFNSIMLMVD 732 V+ + + ++ L + + Sbjct: 68 AGGITKPVLLLEGFFDARDLPTISAQHFHTAVHNEEQLAALEEASLDEPVTVWMKLDTGM 127 Query: 733 SKARGNKSQITQLGGMRGLMATPSGRIFELPIKANFREGLTVLEYFISTHGARKGLADTA 792 + Q + + A E Sbjct: 128 HRLGVRPEQAEAFYHRLTQCKNVRQPVNIVSHFARADEPKCGATEKQLAIFNTFCEGKPG 187 Query: 793 LRTADSGYLTRRLVDVAQDVIVREDDCGTDKGFTVSRIQDGKEVIEDLYDRIEGRYSFET 852 R+ + D + + E Sbjct: 188 QRSIAASGGILLWPQSHFDWVRPGIILYGVSPLEDRSTGADFGCQPVMSLTSSLIAVREH 247 Query: 853 VRHPETKEIIVNRNDLIDSDKAEEIVNAGVTKLQIRSVLSCRARHGVCKKCYGRNLATGK 912 ++ + S + Sbjct: 248 KAGEPVGYGGTWVSERDTRLGVVAMGYGDGYPRAAPSGTPVLVNGREVPIVGRVAMDMIC 307 Query: 913 HVDIGEAVGIIAAQSIGEPGTQLTMRTFHTGGVAGDDITQ----------GLPRIQELFE 962 +A I R V+ ++ Sbjct: 308 VDLGPQAQDKAGDPVILWGEGLPVERIAEMTKVSAYELITRLTSRVAMKY 367 Query: 963 ARNPKGQ-ATISEIDGVI-----KEIRETKDRREIEVQGEAESKTYSITYGSRLRVSEGQ 1016 Sbjct: 368 ----------- 416 Query: 1017 EIEAGDELTD 1026 Sbjct: 417 426 Score = 209 bits (533), Expect = 2e-53, Method: Compositional matrix adjust. Identities = 0/251 (0%), Positives = 0/251 (0%), Gaps = 21/251 (8%) Query: 949 DITQGLPRIQELFEARNPKGQATISEIDGVIKEIRETKDR----REIEVQGEAESKTYSI 1004 Sbjct: 1006 -- 1063 Query: 1005 TYGSRLRVSEGQEIEAGDELTDGSIDPKEMLRI---------------KGIRGVQNYILQ 1049 Sbjct: 1064 1123 Query: 1050 EVQRVYRNQGVEINDKHIEVMIKQMLRKIRIIEAGDTNLLPGAFSDIHEYEAANKEAILT 1109 Sbjct: 1124 1183 Query: 1110 GKEPAVAKPVLLGITKASLETDSFLSAASFQETTRVLTDAAIKGKVDKLLGLKENVLIGK 1169 Sbjct: 1184 1243 Query: 1170 LIPAGTGMNRY 1180 Sbjct: 1244 1254 Database: COG Posted date: Aug 3, 2010 9:58 AM Number of letters in database: 38,378,431 Number of sequences in database: 115,334 Lambda K H 0.318 0.136 0.389 Gapped Lambda K H 0.267 0.0410 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 115334 Number of Hits to DB: 86,859,870 Number of extensions: 3726441 Number of successful extensions: 10207 Number of sequences better than 1.0e-05: 43 Number of HSP's gapped: 10094 Number of HSP's successfully gapped: 83 Length of query: 1203 Length of database: 38,378,431 Length adjustment: 118 Effective length of query: 1085 Effective length of database: 24,769,019 Effective search space: 26874385615 Effective search space used: 26874385615 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 16 ( 7.3 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 41 (21.7 bits) S2: 122 (51.6 bits)