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= 0057.0017.p (412 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|ZP_00105981.1| COG3706: Response regulator containing a CheY... 135 2e-30 ref|NP_232000.1| sensory box/GGDEF family protein [Vibrio choler... 132 1e-29 gb|EAF42122.1| unknown [environmental sequence] 132 2e-29 ref|ZP_00109358.1| COG3706: Response regulator containing a CheY... 132 2e-29 ref|NP_899716.1| pleD gene product [Chromobacterium violaceum AT... 131 3e-29 >ref|ZP_00105981.1| COG3706: Response regulator containing a CheY-like receiver domain and a GGDEF domain [Nostoc punctiforme] Length = 322 Score = 135 bits (340), Expect = 2e-30, Method: Compositional matrix adjust. Identities = 76/205 (37%), Positives = 120/205 (58%), Gaps = 8/205 (3%) Query: 205 NYYNRILLGASHRKLEEQIIRNEKVHLELARANGELQRLSLTDALTEIPNRRAFD----Q 260 +Y + + R+ +++I ++ +L N ELQRL+ D LT+I NRR F+ Q Sbjct: 108 DYITKPIHWPVLRQRVKRLIEQSQLQQKLEAVNLELQRLATIDGLTQIANRRRFEEYLNQ 167 Query: 261 QMQRLLSQNEEPGSLVAILMIDIDYFKPFNDNYGHAEGDRILKEVAQAIQAEMKGEGQFA 320 + QRL +++ P SL+ + D+D+FK +ND YGH GDR L+E+A+AI+ +K G Sbjct: 168 EWQRL-KRDKRPLSLI---LCDVDFFKLYNDTYGHRVGDRCLQEIAKAIKDIIKRPGDLV 223 Query: 321 ARLGGEEFVAAAFDTGVDGAMELSERIRARVQQLAVPHEYSEVSVHLTVSXXXXXXXXXX 380 AR GGEEF +T +GA ++++I V++LA+PHE SEVS ++T+S Sbjct: 224 ARYGGEEFAVILPNTDTEGATHVAKKICHTVRKLAIPHENSEVSPYVTISAGFTTEIPQS 283 Query: 381 XXXXXQLMEHADKGLYLAKTGGRNR 405 +++ AD+ LY AK GR+R Sbjct: 284 DSDLEEMIAAADRALYQAKAAGRDR 308 >ref|NP_232000.1| sensory box/GGDEF family protein [Vibrio cholerae O1 biovar eltor str. N16961] pir||B82085 sensory box/GGDEF family protein VC2370 [imported] - Vibrio cholerae (strain N16961 serogroup O1) gb|AAF95513.1| sensory box/GGDEF family protein [Vibrio cholerae O1 biovar eltor str. N16961] Length = 579 Score = 132 bits (333), Expect = 1e-29, Method: Compositional matrix adjust. Identities = 71/176 (40%), Positives = 102/176 (57%) Query: 232 ELARANGELQRLSLTDALTEIPNRRAFDQQMQRLLSQNEEPGSLVAILMIDIDYFKPFND 291 +L AN EL+RLS D+LT + NRR FD+Q+ L + G ++I++ D+DYFK +ND Sbjct: 398 QLEAANQELERLSFLDSLTHVANRRRFDEQLHTLWHLHVREGKPLSIILCDVDYFKDYND 457 Query: 292 NYGHAEGDRILKEVAQAIQAEMKGEGQFAARLGGEEFVAAAFDTGVDGAMELSERIRARV 351 YGH GD LK++A A AR GGEEF +T GA+ ++ERI +V Sbjct: 458 AYGHLMGDETLKQIAIAFTQVANRHSDCVARYGGEEFGILLPNTPQSGAILVAERIHEKV 517 Query: 352 QQLAVPHEYSEVSVHLTVSXXXXXXXXXXXXXXXQLMEHADKGLYLAKTGGRNRVS 407 + LA+PH++S+V+ +TVS Q++E AD+ LY AK GRN+ S Sbjct: 518 RGLAIPHDHSKVADRITVSLGIVTLIPRPEDVPEQMVELADRALYQAKANGRNQTS 573 >gb|EAF42122.1| unknown [environmental sequence] Length = 253 Score = 132 bits (331), Expect = 2e-29, Method: Compositional matrix adjust. Identities = 72/183 (39%), Positives = 106/183 (57%), Gaps = 3/183 (1%) Query: 224 IRNEKVHLELARANGELQRLSLTDALTEIPNRRAFDQQMQRLLSQNEEPGSLVAILMIDI 283 +RN+ L + + N L+ L+ D LTEIPNRR D+ + R +++ GS++++L++DI Sbjct: 71 VRNQ---LLIKQKNDLLEMLASIDGLTEIPNRRYLDENLSREWRRSKRGGSVLSVLLMDI 127 Query: 284 DYFKPFNDNYGHAEGDRILKEVAQAIQAEMKGEGQFAARLGGEEFVAAAFDTGVDGAMEL 343 DYFK +ND YGH GD LK+VAQ++ A+ K F AR GGEEF A D + A+ Sbjct: 128 DYFKRYNDTYGHRAGDECLKKVAQSLLAQCKRGSDFIARYGGEEFAAILPDVSKEEAITF 187 Query: 344 SERIRARVQQLAVPHEYSEVSVHLTVSXXXXXXXXXXXXXXXQLMEHADKGLYLAKTGGR 403 + ++R V +L + H+ S + +T+S L+E AD GLY AK GR Sbjct: 188 ANKLRNAVNKLNIEHKTSLNAQCITISIGVATMEDGRSTSEHSLLEEADLGLYEAKEAGR 247 Query: 404 NRV 406 NRV Sbjct: 248 NRV 250 >ref|ZP_00109358.1| COG3706: Response regulator containing a CheY-like receiver domain and a GGDEF domain [Nostoc punctiforme] Length = 742 Score = 132 bits (331), Expect = 2e-29, Method: Compositional matrix adjust. Identities = 72/187 (38%), Positives = 109/187 (58%), Gaps = 8/187 (4%) Query: 224 IRNEKVHLELARANGELQRLSLTDALTEIPNRRAFDQ----QMQRLLSQNEEPGSLVAIL 279 I+ +++ +L +AN ELQRL+ +D LT++ NRR FD Q QRL E GSL +++ Sbjct: 546 IQQSELYHQLQQANQELQRLACSDGLTQVGNRRCFDDTFNTQWQRLA---REQGSL-SLI 601 Query: 280 MIDIDYFKPFNDNYGHAEGDRILKEVAQAIQAEMKGEGQFAARLGGEEFVAAAFDTGVDG 339 + D+DYFK +ND +GH GD L++VA+ I +K AR GGEEF +T ++G Sbjct: 602 LCDVDYFKLYNDTHGHLAGDDALRQVAKVISQTVKCPADLVARYGGEEFAVILPNTDIEG 661 Query: 340 AMELSERIRARVQQLAVPHEYSEVSVHLTVSXXXXXXXXXXXXXXXQLMEHADKGLYLAK 399 A+ +++ I+ + L +PH +S+VS +T+S L+ AD+GLY AK Sbjct: 662 AIAVAKDIQTNISALKMPHPHSQVSEFITLSLGVATITPHSQLSPATLIAAADQGLYQAK 721 Query: 400 TGGRNRV 406 GRN V Sbjct: 722 AQGRNCV 728 >ref|NP_899716.1| pleD gene product [Chromobacterium violaceum ATCC 12472] gb|AAQ57726.1| pleD gene product [Chromobacterium violaceum ATCC 12472] Length = 514 Score = 131 bits (329), Expect = 3e-29, Method: Compositional matrix adjust. Identities = 76/196 (38%), Positives = 111/196 (56%), Gaps = 5/196 (2%) Query: 212 LGASHRKLEEQI-IRNEKVHLELARANGELQRLSLTDALTEIPNRRAFDQQMQRLLSQNE 270 LG +LE+Q+ IR L L +++ E+ LS D++T I NRR F++ + + Sbjct: 310 LGRQQEQLEQQVRIRT----LALEQSHAEVVALSRVDSVTGIANRRCFEESLDGEWRRAR 365 Query: 271 EPGSLVAILMIDIDYFKPFNDNYGHAEGDRILKEVAQAIQAEMKGEGQFAARLGGEEFVA 330 G+ + +LMIDIDYFK +ND+YGH GD L+EVAQAI++ ++ AR GGEE V Sbjct: 366 RLGAPLGMLMIDIDYFKLYNDHYGHVSGDYCLREVAQAIRSSVRRPQDLVARYGGEEIVC 425 Query: 331 AAFDTGVDGAMELSERIRARVQQLAVPHEYSEVSVHLTVSXXXXXXXXXXXXXXXQLMEH 390 DTG +G + E + V++L +PH S V+ +T+S QL+E Sbjct: 426 LLPDTGAEGVAFVGEAVLEAVRELQLPHAGSSVADIVTISIGGATVHPREVVDSRQLIEA 485 Query: 391 ADKGLYLAKTGGRNRV 406 AD+ LY AK GRNR+ Sbjct: 486 ADRELYRAKQQGRNRL 501 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 0.325 0.139 0.394 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: 510,519,290 Number of extensions: 19385335 Number of successful extensions: 74751 Number of sequences better than 1.0e-05: 2043 Number of HSP's gapped: 72164 Number of HSP's successfully gapped: 2043 Length of query: 412 Length of database: 757,237,578 Length adjustment: 128 Effective length of query: 284 Effective length of database: 409,704,906 Effective search space: 116356193304 Effective search space used: 116356193304 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 15 ( 7.0 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 40 (21.6 bits) S2: 127 (53.5 bits)