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= 0564.0026.p (524 letters) Database: pfamseq 9,421,015 sequences; 3,060,696,203 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value B8I425.1 B8I425_CLOCE Two component transcriptional regulator, A... 137 4e-30 B1D7Q5.1 B1D7Q5_9BACL Two component transcriptional regulator, A... 125 9e-27 B1D5Y1.1 B1D5Y1_9BACL Two component transcriptional regulator, A... 118 1e-24 B1DAS8.1 B1DAS8_9BACL Two component transcriptional regulator, A... 114 2e-23 B3K983.1 B3K983_9BACI Response regulator receiver 110 5e-22 >B8I425.1 B8I425_CLOCE Two component transcriptional regulator, AraC family Length = 538 Score = 137 bits (344), Expect = 4e-30, Method: Compositional matrix adjust. Identities = 135/556 (24%), Positives = 260/556 (46%), Gaps = 67/556 (12%) Query: 2 KVMIVEDEILVRLGLRKSIPWSSLGLELVCEAKDGAEACDMFTRHLPDIVLVDIELPKMD 61 KV+I++DE ++R G++ I W L E+ +A DG E ++ +++P++++ DI +P MD Sbjct: 3 KVLIIDDESIIRKGIKNIINWKQLDCEVCADASDGIEGIELIKKYVPEVIITDIRMPGMD 62 Query: 62 GLKFIRFAKTHGSGTHFIVLTCHQDMKYMREAIKLQVTDFILKSTLDMKELCDILQNITL 121 GL+ I+ K + I+LT ++D Y+++AIK DF+LK + ++EL +L N Sbjct: 63 GLEMIKNVKEIVPNSKIIILTGYRDFDYVQKAIKCGAYDFLLKPS-KIEELTSVLTNAV- 120 Query: 122 ERLRDTSVDKAG-------LQDAAAAMPAEDFYRSWLNGSLRDSGQIRQQLAQMNVNRPV 174 R D +K L + + E + G +I +++ ++ + Sbjct: 121 -RELDEQKNKYNEIERFRMLFEQNIPVLREKLLYDIIYGINTSENEIYEKMKLFDI--SI 177 Query: 175 GRFIACVMQLDVRPPADHKLSDADIRSXXXXXXXXXXXXHGEHVLGSVEEMHMQRWHFIV 234 F+ VM+ D ++ L D + VL + ++ R FI+ Sbjct: 178 KNFVLVVMENDYNDKSNSSLYDKHLYQFGIVKSFEEIFAENYEVLSIM--LNSNRVGFII 235 Query: 235 --SDRLA-----VSEMIQWMDTVKENAGIAFSVGWSASFVHPHEWRAYDRKAVEL---LQ 284 SD L VSE ++ V N+G F+V + S + ++A+EL L+ Sbjct: 236 QKSDNLPLDIEKVSEKCAYLQEVI-NSGFGFTVTIAVS--------SNGKEALELPEKLK 286 Query: 285 HQYYDAEGRLYTGEGQLGETLS----------ELVHKAKKQIYDMIGS---LRFAETRLM 331 E + Y G+ + + ++ K +KQ+ + I S L E + Sbjct: 287 ECLGSLEYKSYMGDNSIIQYSDLNSFFRYEDYSILDKYQKQLIENIKSGNELGVKENTKL 346 Query: 332 LADLLKELQRSPRLHPHIVKNMFTEFL-----FRIWSAC----EELAAGNPIANHQLVDQ 382 ++D L + ++ H ++N + L RI + ++ + G IA L+ Sbjct: 347 ISDYL----TNNNINIHYMRNFYYTTLSSINNIRISVSSVDTEKKYSEGEDIA--SLIKL 400 Query: 383 IYATQKLDQTVSLLLADMQRAERQLEMTNSVNDKTKIVVLVK--QYIKNHLQQEISLQEI 440 I T K ++ SLL + A R NS N+K+ ++L K YI+ H ++++L E+ Sbjct: 401 IEKTDKAEELNSLL---EEVAVRIASKVNSFNNKSIKLILRKAIDYIQEHYNEQVTLNEV 457 Query: 441 ADTFHINRSYLSRLFREVSQMSFTEFVLYEKTELAIVMMQSGKSLT-EISEKLGYLNLSS 499 A+ +++ Y+SR+F++ SF +++ + + A +++ + T E++EK+G + Sbjct: 458 AENIYVSTFYISRMFKKELGKSFVDYLNDVRIDKAKELLKDVRYKTYEVAEKVGISDPHY 517 Query: 500 FTRMFKKVRGASPSLF 515 F+++FKK G +PS + Sbjct: 518 FSKLFKKYSGMTPSEY 533 >B1D7Q5.1 B1D7Q5_9BACL Two component transcriptional regulator, AraC family Length = 530 Score = 125 bits (315), Expect = 9e-27, Method: Compositional matrix adjust. Identities = 123/532 (23%), Positives = 243/532 (45%), Gaps = 31/532 (5%) Query: 5 IVEDEILVRLGLRKSIPWSSLGLELVCEAKDGAEACDMFTRHLPDIVLVDIELPKMDGLK 64 +++D I V G+ IPW++ G+E++ A DG E M PDI+L DI +P MDGL+ Sbjct: 3 VLDDIISVIDGISLGIPWANYGIEIIGTALDGDEGLKMALELNPDILLTDIRMPVMDGLE 62 Query: 65 FIRFAKTHGSGTHFIVLTCHQDMKYMREAIKLQVTDFILKSTLDMKELCDIL----QNIT 120 R I+L+ + + Y ++AI+ DF+ K M+++ +++ + I Sbjct: 63 LTRRIIEKSPACKVILLSGYTEFSYAQQAIRYGAFDFVAKP-FSMEDIIEVVLKATEEIE 121 Query: 121 LERLRDTSVDK--AGLQDAAAAMPAEDFYRSWLNGSLRDSGQIRQQLAQMNVNRPVGRFI 178 LER + + + A ++++ + E F S +S + + ++++ R F+ Sbjct: 122 LERSKHKRIYEMEARVRESKPLLRQEYFNLLIRYSSSEESARAKWDFLEIDLKRE--GFV 179 Query: 179 ACVMQLDVRPPADHKLSDADIRSXXXXXXXXXXXXHGEHVLGSVEEMHMQRWHFIV--SD 236 V ++D L ++ E+ G V M R I +D Sbjct: 180 VMVAEIDRFSKTIQTLPIGEVELTRYALQNILEETINEYTQGVVFRESMNRLVIIYNSTD 239 Query: 237 RL---AVSEMIQWMDTVKENAGIAFSVGWSASFVHPHEWRAYDRKAVELLQHQYY-DAEG 292 ++ A++E+ + ++ V S + + E ++A+ L + +Y G Sbjct: 240 QIESGALAEICCNNCALYSRHTVSIGVSLSTNLIS--EIHLGYQQAISALSYNFYTGGNG 297 Query: 293 RLYTGE-GQLGETLSELVHKAKKQIYDMIGSLRFAETRLMLADLLKELQR-SPRLHPHIV 350 G+ GQ+ + L +K++ + S +L + ++ + P +P + Sbjct: 298 AFRYGDFGQMSQHLRTYSLDQEKELLFAVRSGNQEAALGVLQQIYEDCAKIQPLPNPQYL 357 Query: 351 KNMFTEFLFRIWSACEELAAGNPIANHQLVDQIYATQKLDQTVSLLLADMQRAERQLEMT 410 M+ E ++ + EE + +L +I A +K D+ +SLL ++Q++ QL M Sbjct: 358 ITMYDELVYMVLRVLEEKLHKEDL--QELKAEIEAHKKTDR-MSLL--ELQKSLEQLCMN 412 Query: 411 NSV-------NDKTKIVVLVKQYIKNHLQQEISLQEIADTFHINRSYLSRLFREVSQMSF 463 V + +I+ +Y+K +L ++S+ E A H++ SY S LF++V+ +F Sbjct: 413 GCVLQDKHRTTEAERIIHRAIEYMKGNLHLDLSVNECATLVHLSSSYFSNLFKKVTGQTF 472 Query: 464 TEFVLYEKTELAIVMMQSGKSLTEISEKLGYLNLSSFTRMFKKVRGASPSLF 515 +FV E+ + A +M+ G + E++ +GY + F+ +FKK G +PS F Sbjct: 473 LQFVTNERIDQAKLMLMKGHQVQEVAADIGYEDRRYFSEVFKKNTGMTPSEF 524 >B1D5Y1.1 B1D5Y1_9BACL Two component transcriptional regulator, AraC family Length = 545 Score = 118 bits (296), Expect = 1e-24, Method: Compositional matrix adjust. Identities = 125/546 (22%), Positives = 241/546 (44%), Gaps = 40/546 (7%) Query: 2 KVMIVEDEILVRLGLRKSIPWSSLGLELVCEAKDGAEACDMFTRHLPDIVLVDIELPKMD 61 K++IV+DE VR+GL+ WSS G+E++ EA DG A +M R PD+VL D+ +P MD Sbjct: 3 KLLIVDDETTVRMGLQSYFNWSSFGIEIMGEADDGDVAFEMIGREAPDLVLTDVRMPNMD 62 Query: 62 GLKFIRFAKTHGSGTHFIVLTCHQDMKYMREAIKLQVTDFILKSTLDMKELCDILQNIT- 120 G+ R H I ++ H D Y++ A+KL D+I K ++++EL +L+++ Sbjct: 63 GITLARLINEHYPHVKIIFVSGHDDADYLKSAMKLSAVDYIFKP-VNLEELSSVLRHVVS 121 Query: 121 -LERLRDTSVDKAGLQ-DAAAAMPA--EDFYRSWLNGSLRDSGQIRQQLAQMNVNRP-VG 175 L+ R K LQ MP E F S L GS IR+++ + ++ P Sbjct: 122 DLDEQRAEQQRKEELQVRLKEGMPVLREKFLLS-LMGSGVQRQDIRERVQFLELSLPEEA 180 Query: 176 RFIACVMQLDVRPPADHKLSDADIRSXXXXXXXXXXXXHGEHVLGSVEEMHMQRWHFIVS 235 + V+ +D P S+ D + H+ G V E + I+ Sbjct: 181 SYWVIVISVDDLPEVMSTRSERDRQLLWYSINNICQELIDSHMGGYVFEYQTGEFAGILR 240 Query: 236 DRLAVSE--------MIQWMDTVKEN----AGIAFSVGWSASFVHPHEWRAYDRKAVELL 283 R A SE +++ +++N I+ ++G S ++A E + Sbjct: 241 -RGAESEVSGDAAEGLLELTSRIRDNLERWLKISVTIGISDRVTGLGNLGNCYKQAREAV 299 Query: 284 QHQYYDAEGRLYTGEGQLGETLSELVHKAKKQIYD--MIGSLRFAETR-------LMLAD 334 H++Y + R+ T + + L + +YD + +L+ A + AD Sbjct: 300 NHKWYLGKNRIITMDSLESSEQASLSAGRYEFVYDEELTSALKAANPEKLREVLDAIFAD 359 Query: 335 LLKELQRSPRLHPHIVKNMF---TEFLFRIWSACEELAAGNPIANHQLVD-QIYATQKLD 390 L + + ++ +F + L + EEL + L+D + +L Sbjct: 360 LNRNRPDGLKYGRNVCMQIFLAAGQLLLELNMQSEELESAEAAVWESLLDRETLGEMRLI 419 Query: 391 QTVSLLLADMQRAERQLEMTNSVNDKTKIVVLVKQYIKNHLQQEISLQEIADTFHINRSY 450 LL A + E++ ++ ++ + ++ +++ +++ +I + +Y Sbjct: 420 LEAYLLAACERIGEKRTGKVANLVERVRAII-----DRDYSNGSLTVTDIGREVFLTPTY 474 Query: 451 LSRLFREVSQMSFTEFVLYEKTELAIVMMQSGK-SLTEISEKLGYLNLSSFTRMFKKVRG 509 +S L+++ + + E++ + E A M++ + +I +GY + S FT++FKK+ G Sbjct: 475 VSLLYKQETGQTVGEYMTQVRMEKAKEMLRDPQYKFYDICYAIGYTDPSYFTKLFKKMTG 534 Query: 510 ASPSLF 515 +PS + Sbjct: 535 VTPSGY 540 >B1DAS8.1 B1DAS8_9BACL Two component transcriptional regulator, AraC family Length = 533 Score = 114 bits (286), Expect = 2e-23, Method: Compositional matrix adjust. Identities = 66/169 (39%), Positives = 96/169 (56%), Gaps = 16/169 (9%) Query: 2 KVMIVEDEILVRLGLRKSIPWSSLGLELVCEAKDGAEACDMFTRHLPDIVLVDIELPKMD 61 KV+IV+DE R L+ S+PWS LG ++ EAK+GAEA ++ + PD+VLVD+ +P MD Sbjct: 3 KVLIVDDEFYFRQALKISLPWSELGFQIAGEAKNGAEALELMSEVEPDVVLVDMNMPIMD 62 Query: 62 GLKFIRFAKTHGSGTHFIVLTCHQDMKYMREAIKLQVTDFILK---------STLDMKEL 112 GL+FI AK T F+VL+ H + Y R+A++L V++++LK S L++KEL Sbjct: 63 GLEFIHKAKERDQKTKFLVLSGHSEFAYARQAVQLGVSNYVLKPINEEELQSSLLNIKEL 122 Query: 113 CDILQNITLERLRDTSVDKAGLQDAAA-AMPAEDFYRSWLNGSLRDSGQ 160 I ERL + +D Q + + E WL GS R Q Sbjct: 123 ------IRSERLGELELDDLRKQASEGFSFMKEQVLNDWLQGSSRSRPQ 165 Score = 58.9 bits (141), Expect = 1e-06, Method: Compositional matrix adjust. Identities = 31/114 (27%), Positives = 64/114 (56%), Gaps = 10/114 (8%) Query: 410 TNSVNDKTKIVVLVKQYIKNHL-QQEISLQEIADTFHINRSYLSRLFREVSQMSFTEFVL 468 + N K++ VK YI NH +E+ +++IA + H+N ++L +F++ + + +++ Sbjct: 421 SRKTNRAVKVIEEVKAYISNHYGNEELRIEDIARSVHMNYNHLCFVFKKETTFTINDYL- 479 Query: 469 YEKTELAIVMM-----QSGKSLTEISEKLGYLNLSSFTRMFKKVRGASPSLFVN 517 TE+ I+ Q K + ++ ++GY + + F++ FKK G +PS +VN Sbjct: 480 ---TEIRIIKAKELFDQGEKVIQNVANRVGYADANYFSKCFKKYMGITPSKYVN 530 >B3K983.1 B3K983_9BACI Response regulator receiver Length = 390 Score = 110 bits (274), Expect = 5e-22, Method: Compositional matrix adjust. Identities = 57/172 (33%), Positives = 99/172 (57%), Gaps = 7/172 (4%) Query: 1 MKVMIVEDEILVRLGLRKSIPWSSLGLELVCEAKDGAEACDMFTRHLPDIVLVDIELPKM 60 +KVMI +DE +VR GLR ++PW G+E+V ++ +G A + F P +V+ DI +P+M Sbjct: 6 IKVMIADDESIVRKGLRSTVPWERFGMEVVADSPNGQAAWEAFLEFRPQVVITDIVMPEM 65 Query: 61 DGLKFIRFAKTHGSGTHFIVLTCHQDMKYMREAIKLQVTDFILKSTLDMKELCDILQNIT 120 DG++ R K T I+L+CH+D +Y +E ++L + ++LK+ + +EL +L Sbjct: 66 DGIELSRKVKEAAPETRIILLSCHRDFEYAQEGMRLGASGYLLKTAFEDEELEAMLGKFQ 125 Query: 121 LERLRDTSVDKAGLQDAAAAMPAEDFYRSWLNG-SLRDSGQIRQQLAQMNVN 171 E L D + GL++ +A +WLNG S R G++R+ ++ + Sbjct: 126 RE-LSDAPANVYGLEEQVSA-----HLFAWLNGHSDRFPGELRELCSRAGLG 171 Database: pfamseq Posted date: Aug 5, 2010 3:22 PM Number of letters in database: 3,060,696,203 Number of sequences in database: 9,421,015 Lambda K H 0.322 0.135 0.392 Gapped Lambda K H 0.267 0.0410 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 9421015 Number of Hits to DB: 2,775,858,272 Number of extensions: 106095107 Number of successful extensions: 366492 Number of sequences better than 1.0e-05: 2927 Number of HSP's gapped: 376001 Number of HSP's successfully gapped: 3206 Length of query: 524 Length of database: 3,060,696,203 Length adjustment: 140 Effective length of query: 384 Effective length of database: 1,741,754,103 Effective search space: 668833575552 Effective search space used: 668833575552 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 16 ( 7.4 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 41 (21.9 bits) S2: 134 (56.2 bits)