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= 0251.0031.p (330 letters) Database: All non-redundant GenBank CDS translations+PDB+SwissProt+PIR+PRF 2,715,099 sequences; 757,237,578 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value ref|NP_469502.1| similar to transcriptional regulatory proteins,... 84 4e-15 ref|NP_463642.1| similar to transcriptional regulatory proteins,... 82 1e-14 ref|NP_786796.1| transcription regulator [Lactobacillus plantaru... 77 8e-13 ref|NP_964091.1| hypothetical protein LJ0075 [Lactobacillus john... 75 3e-12 ref|NP_472309.1| similar to AraC-type regulatory protein [Lister... 72 2e-11 >ref|NP_469502.1| similar to transcriptional regulatory proteins, AraC family [Listeria innocua] pir||AF1452 transcription regulatory protein, AraC family homolog lin0157 [imported] - Listeria innocua (strain Clip11262) emb|CAC95390.1| lin0157 [Listeria innocua] Length = 277 Score = 84.0 bits (206), Expect = 4e-15, Method: Compositional matrix adjust. Identities = 67/271 (24%), Positives = 132/271 (48%), Gaps = 38/271 (14%) Query: 63 RFKDRHRHDYVELAYVCKGQLPMEISGNHYIFQRDEVFIIDRNCIHSE----DLTNTDSA 118 R + H HD++E++ +C+G + +I G ++ ++ I + H + +TN Sbjct: 25 RVGENHHHDFLEISIICEGNVIYDIEGERVALEKGDMLIFNPGVNHYDITEPGMTNAQLH 84 Query: 119 VVFLCMS-ETFFDEIFLSELQEEPLQEFIRMCLKKQKRIRQFMRFTPVSDNNQMYNLISQ 177 + F + E + F F + L+K++ D + + ++ Q Sbjct: 85 IGFRNFALEGYSRNTF----------PFKKAFLRKKE------------DESAILSISKQ 122 Query: 178 VVEEAESKRKGYDYLLKGLMMR-IMDVLANSY-------QIQLSKLEKQRKDEILFQELE 229 ++EE ++++ GYD +LK +M+ I+ VL + ++LS E+Q+ ++L E+ Sbjct: 123 IIEEKDAEKPGYDLILKAFVMQLIIHVLREATPEQLENNGVKLSTDEQQK--QMLVNEII 180 Query: 230 KYLHQKYKE-VTIEELVLKYHYNADYFNRLIKKYTQLSFSQFLQTIRLSKAEEMLVASKL 288 Y+ + + E V++ L + + Y +++ K+ T S +L IRL++AEE+L + Sbjct: 181 HYMEKHHTEDVSLSTLSQTMYISPAYISKVFKEETGESPINYLIKIRLTRAEELLKNKDV 240 Query: 289 PVHQIIHEVGYQNKGYFYKIFVQRYGITPKE 319 V Q + VGY + YF K+F + YG P E Sbjct: 241 TVKQAANMVGYNDAYYFSKLFKKYYGFPPSE 271 >ref|NP_463642.1| similar to transcriptional regulatory proteins, AraC family [Listeria monocytogenes EGD-e] pir||AF1088 transcription regulatory proteins, AraC family homolog lmo0109 [imported] - Listeria monocytogenes (strain EGD-e) emb|CAC98324.1| lmo0109 [Listeria monocytogenes] Length = 277 Score = 82.4 bits (202), Expect = 1e-14, Method: Compositional matrix adjust. Identities = 67/270 (24%), Positives = 129/270 (47%), Gaps = 36/270 (13%) Query: 63 RFKDRHRHDYVELAYVCKGQLPMEISGNHYIFQRDEVFIIDRNCIHSE----DLTNTDSA 118 R + H HD++E++ +C+G + +I G + ++ I + H + +TN Sbjct: 25 RVGENHHHDFLEISIICEGNVIYDIEGERVKLGKGDMLIFNPGVSHYDITEPGMTNAQLH 84 Query: 119 VVFLCMSETFFDEIFLSELQEEPLQEFIRMCLKKQKRIRQFMRFTPVSDNNQMYNLISQV 178 + F + L+ + R +K F+R + + + ++ Q+ Sbjct: 85 IGFRNFA----------------LEGYTRNTFPFKK---AFLR--KKEEESAILSISKQI 123 Query: 179 VEEAESKRKGYDYLLKGLMMR-IMDVLANSY-------QIQLSKLEKQRKDEILFQELEK 230 +EE ++ + GYD +LK +M+ I+ VL + ++LS E+Q+ +IL E+ Sbjct: 124 IEEKDAGKPGYDLILKAFVMQLIIHVLREATPEQLENNGVKLSTDEQQK--QILVNEIIH 181 Query: 231 YLHQKYKE-VTIEELVLKYHYNADYFNRLIKKYTQLSFSQFLQTIRLSKAEEMLVASKLP 289 Y+ + + E V++ L + + Y +++ K+ T S +L IRL++AEE+L + Sbjct: 182 YMEKHHTEDVSLSTLSQTMYISPAYISKVFKEETGESPINYLIKIRLTRAEELLKNKDVS 241 Query: 290 VHQIIHEVGYQNKGYFYKIFVQRYGITPKE 319 V Q + VGY + YF K+F + YG P E Sbjct: 242 VKQAANMVGYNDAYYFSKLFKKYYGFPPSE 271 >ref|NP_786796.1| transcription regulator [Lactobacillus plantarum WCFS1] emb|CAD65674.1| transcription regulator [Lactobacillus plantarum WCFS1] Length = 324 Score = 76.6 bits (187), Expect = 8e-13, Method: Compositional matrix adjust. Identities = 56/260 (21%), Positives = 123/260 (47%), Gaps = 8/260 (3%) Query: 63 RFKD--RHRHDYVELAYVCKGQLPMEISGNHYIFQRDEVFIIDRNCIHSEDLTNTDSAVV 120 R+ D H H ++E+ Y+ +G + ++ ++D HS + ++ Sbjct: 64 RYADYPTHTHTFLEMNYMLQGHATEIVDDKKITLNTGDLLLLDEGSTHSIKALGDNDLLI 123 Query: 121 FLCMSETFFDEIFLSELQEEP--LQEFI-RMCLKKQKRIRQFMRFTPVSDNNQMYNLISQ 177 + L++L+ +F+ ++ R ++ FT NN++ + + Sbjct: 124 NILFRTKNISINLLNDLRRSNNIFYDFLLSQVIEDSNHKRDYLVFTK-KRNNEVQETLDR 182 Query: 178 VVEEAESKRKGYDYLLKGLMMRIMDVLANSYQIQLSKLEKQRKDEILFQELEKYLHQKYK 237 +++E KR + ++K + ++ L Y L+ ++ K +L ++ K + ++YK Sbjct: 183 IIDEYYLKRDFSNSIIKSYLSILLVQLVREYP--LNGPHQENKSSLLAIKVLKAIAEEYK 240 Query: 238 EVTIEELVLKYHYNADYFNRLIKKYTQLSFSQFLQTIRLSKAEEMLVASKLPVHQIIHEV 297 V++EEL +Y+YN +Y + + K +FS+ L RL +A ++ ++ LP+ I+ +V Sbjct: 241 TVSLEELANRYNYNKNYLSNIFKSEVGQTFSEVLTRQRLIQAHTLIASTSLPIATIMEQV 300 Query: 298 GYQNKGYFYKIFVQRYGITP 317 G +NK +FY+ + Y P Sbjct: 301 GIKNKTFFYQKYKNYYKTLP 320 >ref|NP_964091.1| hypothetical protein LJ0075 [Lactobacillus johnsonii NCC 533] gb|AAS08057.1| hypothetical protein LJ0075 [Lactobacillus johnsonii NCC 533] Length = 308 Score = 74.7 bits (182), Expect = 3e-12, Method: Compositional matrix adjust. Identities = 53/248 (21%), Positives = 129/248 (52%), Gaps = 7/248 (2%) Query: 74 ELAYVCKGQLPMEISGNHYIFQRDEVFIIDRNCIHSEDLTNTDSAVVFLCMSETF-FDEI 132 +L Y G+ +++ + + +I+++ ++ L++ ++ ++ ++ F ++E Sbjct: 52 QLIYCLAGKCEVQVGKQSFSLTSGNILLIEKDSAYAIKLSDKNTVIIKFKLTSNFSWEEQ 111 Query: 133 FLSELQEEPLQEFIR-MCLKKQKRIRQFMRFTPVSDNNQMYNLISQVVEEAESKRKGYDY 191 + + P +E + + LK + + F+ FT S N I ++V++ + ++ Sbjct: 112 IENVTIDTPTEEKLSTLFLKNLSQDKAFL-FTTTSVMWSSQN-IREIVQD-DLNHAAFNS 168 Query: 192 LLKGLMMRIMDVLANSYQIQLSKLEKQRKDEILFQELEKYLHQKYKEVTIEELVLKYHYN 251 + ++++ V+ + + Q KL ++R++ + L++Y+ Q Y ++T+ E + +N Sbjct: 169 TIGLELLKV--VILRNLREQNFKLSERRENSFKDETLDQYIDQHYNDITLAEAAKYFGFN 226 Query: 252 ADYFNRLIKKYTQLSFSQFLQTIRLSKAEEMLVASKLPVHQIIHEVGYQNKGYFYKIFVQ 311 +YF+ ++K+ T SF + + R+ +A +L + + +II +GY +K +FYK F Sbjct: 227 RNYFSTMVKEKTGKSFVEHVDDRRMREARRLLAKPNVSLKEIIETIGYSSKSFFYKKFKH 286 Query: 312 RYGITPKE 319 YG+TP E Sbjct: 287 YYGMTPTE 294 >ref|NP_472309.1| similar to AraC-type regulatory protein [Listeria innocua] pir||AH1804 AraC-type regulatory protein homolog lin2983 [imported] - Listeria innocua (strain Clip11262) emb|CAC98208.1| lin2983 [Listeria innocua] Length = 326 Score = 72.0 bits (175), Expect = 2e-11, Method: Compositional matrix adjust. Identities = 75/311 (24%), Positives = 131/311 (42%), Gaps = 47/311 (15%) Query: 38 PNGRISFVIENLAQ--------RTYRVDIDPTRRFKDR--HRHDYVELAYVCKGQLPMEI 87 PNG SF+ EN + + + I RF D H H ++EL Y+ G I Sbjct: 29 PNG--SFLKENGSMELLNDYFFKNKDIYISKHNRFADYPYHTHQFLELNYMYSGSSEQVI 86 Query: 88 SGNHYIFQRDEVFIIDRNCIHSEDLTNTDSAVVFLCM----------------SETFFDE 131 GN E+ ++D C HS T ++ + + FD Sbjct: 87 EGNKETLHEGELLLLDSACHHSIKATGEKDILINILFRDQQISLEWLTSIKKKNSLLFDF 146 Query: 132 IFLSELQEEPLQEFIRMCLKKQKRIRQFMRFTPVSDNNQMYNLISQVVEEAESKRKGYDY 191 + S + E+ L+++I + I+QF+ NQ+ + +EE S R Y Sbjct: 147 LLHSSVSEQSLKKYIIFQSAQIPHIQQFL--------NQI--ITEYFLEEEFSSRIITLY 196 Query: 192 L--LKGLMMRIMDV-LANSYQIQLSKLEKQRKDEILFQELEKYLHQKYKEVTIEELVLKY 248 L L ++R D LA+ L+ + +L E+ K + Y+ +T+ Sbjct: 197 LPILFTELVRKCDTYLAD----DLTSAQSSTTSTML--EVIKLIESNYRTITLTSAADTL 250 Query: 249 HYNADYFNRLIKKYTQLSFSQFLQTIRLSKAEEMLVASKLPVHQIIHEVGYQNKGYFYKI 308 YN +Y + IKK T +F++ + ++ A ++ + P+ II +VG+ NK YFY + Sbjct: 251 GYNKNYLSNFIKKNTNFTFTELVNKQKMLAANLLIETTSTPIELIIEKVGFSNKTYFYSL 310 Query: 309 FVQRYGITPKE 319 + + + + P E Sbjct: 311 YKKTFNLLPNE 321 Database: All non-redundant GenBank CDS translations+PDB+SwissProt+PIR+PRF Posted date: Mar 24, 2004 1:53 AM Number of letters in database: 757,237,578 Number of sequences in database: 2,715,099 Lambda K H 0.323 0.138 0.399 Gapped Lambda K H 0.267 0.0410 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 2715099 Number of Hits to DB: 470,803,651 Number of extensions: 19469602 Number of successful extensions: 56761 Number of sequences better than 1.0e-05: 142 Number of HSP's gapped: 56819 Number of HSP's successfully gapped: 142 Length of query: 330 Length of database: 757,237,578 Length adjustment: 126 Effective length of query: 204 Effective length of database: 415,135,104 Effective search space: 84687561216 Effective search space used: 84687561216 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 16 ( 7.5 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 41 (22.0 bits) S2: 126 (53.1 bits)