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= 0495.0003.p (540 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_00112060.1| COG2199: FOG: GGDEF domain [Nostoc punctiforme] 167 8e-40 ref|NP_719735.1| GGDEF domain protein [Shewanella oneidensis MR-... 147 9e-34 ref|ZP_00151526.1| hypothetical protein Daro135501 [Dechloromona... 146 1e-33 gb|EAG54183.1| unknown [environmental sequence] 145 2e-33 ref|ZP_00151734.1| hypothetical protein Daro158301 [Dechloromona... 143 1e-32 >ref|ZP_00112060.1| COG2199: FOG: GGDEF domain [Nostoc punctiforme] Length = 536 Score = 167 bits (422), Expect = 8e-40, Method: Compositional matrix adjust. Identities = 138/494 (27%), Positives = 235/494 (47%), Gaps = 38/494 (7%) Query: 58 QLFYVKAAFVDSALLSTGWVFFTILLTGQTRFLRRKMLLLLSAPAIFSAACILFSPNSW- 116 ++F+ K +V S + T ++ F + T + R+L + LL A F+ IL + N W Sbjct: 65 KIFWSKLEYVGSGSVITLFLIFAMHFTNKNRWLTPRNTALLWAIPTFN--MILVATNEWH 122 Query: 117 -------FVQPVNEEYI--QRTYGPLFWLFIAVIIIQAVISLYVISTALVQELAPRVRKQ 167 P ++ Q G FW+ I V + + +I ALV + R + Sbjct: 123 GLVWSGFLPDPKGTNFVIYQHNLG-FFWIMICVYLYTLTGVVMLIQKALVPSVLSRRQSS 181 Query: 168 MMLVLKGILAVTXXXXXXXXXXXXXXPYLPVIPGMTSLGILLSAVFFVVSINRDKVFDIA 227 M LV AV P L + P + +L+ +F+ VS++R ++FD+ Sbjct: 182 MALVG----AVLPILGASLYMLRLTPPGLNITP----MSFMLAGLFYFVSLSRFRMFDLV 233 Query: 228 TIAHQDVMDTIGHGILVLDEYDNVVEINRFLGPHMHLHRGERFDIRIIFPESSPAIEAFI 287 +A +++ + G+LVLD + +++ N L HL ++ DI + + Sbjct: 234 PVARDTLIENMSDGVLVLDAKNRIIDFNLALK---HLIGVKKQDIGQPAAQVLAQWPEIV 290 Query: 288 SGYHERPLERMEIEI-LHTVIRRYLKIQATPIMVGGLR-AGRIVTFQDITELQRLIHETH 345 YH E ++IEI + +V Y+++ T + + GR++ +DIT+ + E Sbjct: 291 RLYHT--YESVKIEIFIDSVTPCYVELLITSLHNRRKQLTGRLLVLRDITQRYQAESELR 348 Query: 346 QQNRVLQERNHSLIAVQKELSETNRQLQQMAITDSLTGCYNRHYLTQQLEDEVILNREKH 405 Q N L ++ E+ QL++ A+ D LTG +NR Y + E+I Sbjct: 349 QANEYLHKQ-------VLEIQTLQVQLREQAMRDGLTGLFNRRYFDEIFPKELIRAMRDS 401 Query: 406 IPFALILLDIDFFKNVNDTYGHLAGDEVICQTVEVLKQELRQTDVLARYGGEEFIIYLPD 465 ALI++DID+FKN+NDT+GH AGD VI ++L+ +++ RYGGEEF++ LP Sbjct: 402 DRVALIIMDIDYFKNINDTFGHQAGDRVIQVFADLLRNYSDSQNIVCRYGGEEFVLALPG 461 Query: 466 TREAEALHVAEQLKATVEMNQITIANAADPVTVTISMGLLTINDFSLNSN-LFEDVDQAL 524 + +A AEQ++ + + Q+ + + T+S G+ D ++ L + VDQAL Sbjct: 462 LTQEKAYQHAEQIRLSFQAAQLE--SGGKQIHTTVSGGVGVFPDHGKTTDELLQVVDQAL 519 Query: 525 YQAKNKGRNRIVHI 538 Y AK GRN I + Sbjct: 520 YAAKLHGRNCIKRV 533 >ref|NP_719735.1| GGDEF domain protein [Shewanella oneidensis MR-1] gb|AAN57179.1| GGDEF domain protein [Shewanella oneidensis MR-1] Length = 625 Score = 147 bits (370), Expect = 9e-34, Method: Compositional matrix adjust. Identities = 78/186 (41%), Positives = 115/186 (61%), Gaps = 1/186 (0%) Query: 351 LQERNHSLIAVQKELSETNRQLQQMAITDSLTGCYNRHYLTQQLEDEVILNREKHIPFAL 410 +QER L +EL E N++L + + DSLTG NR ++L E ++R + P AL Sbjct: 429 VQERTLELEITLRELHEVNQKLTEQSTIDSLTGVKNRSAFDKRLLAESRISRRQETPIAL 488 Query: 411 ILLDIDFFKNVNDTYGHLAGDEVICQTVEVLKQEL-RQTDVLARYGGEEFIIYLPDTREA 469 ++LDID FK++ND +GHLAGD+ + + L+Q L R TD+++R+GGEEF I LP+T Sbjct: 489 LMLDIDRFKSINDQFGHLAGDQALKLIAQTLQQHLKRPTDLVSRFGGEEFAIILPNTTAD 548 Query: 470 EALHVAEQLKATVEMNQITIANAADPVTVTISMGLLTINDFSLNSNLFEDVDQALYQAKN 529 AL VAE ++ TV +T P+TV+I + I + ++ L E D+ALYQAKN Sbjct: 549 GALQVAESIRDTVSCIGLTWEGKPIPLTVSIGVSADVIMNEQHSTELLEQADKALYQAKN 608 Query: 530 KGRNRI 535 GRN++ Sbjct: 609 SGRNQV 614 >ref|ZP_00151526.1| hypothetical protein Daro135501 [Dechloromonas aromatica RCB] Length = 662 Score = 146 bits (368), Expect = 1e-33, Method: Compositional matrix adjust. Identities = 79/201 (39%), Positives = 116/201 (57%), Gaps = 3/201 (1%) Query: 337 LQRLIHETHQQNRVLQERNHSLIAVQKELSETNRQLQQMAITDSLTGCYNRHYLTQQLED 396 + R I E + L+ N L +E+ + L++ AI DSLTGC+NR YL + LE Sbjct: 457 IARDISERRRSEAELRSANDKLRKQLEEIEKLQVALREQAIRDSLTGCFNRRYLDETLER 516 Query: 397 EVILNREKHIPFALILLDIDFFKNVNDTYGHLAGDEVICQTVEVLKQELRQTDVLARYGG 456 E+ +R + P +L++LD+D FK +NDTYGH+AGD+ + E L+ +R DVL RYGG Sbjct: 517 ELSRSRREGYPLSLLILDLDHFKRINDTYGHMAGDQALIVLAETLRAGIRHEDVLCRYGG 576 Query: 457 EEFIIYLPDTREAEALHVAEQLKATVEMNQITIANAADPVTVTISMGLLTINDFS-LNSN 515 EEF+I +P A A AE ++ + ++T N ++ T S G+ D + Sbjct: 577 EEFVILMPRMPLAIAAERAELWRSKIAEIRVTFGNF--ELSFTASAGVAAYPDHGKMPDE 634 Query: 516 LFEDVDQALYQAKNKGRNRIV 536 L + DQALY AKN+GRNR+V Sbjct: 635 LTQAADQALYTAKNEGRNRVV 655 >gb|EAG54183.1| unknown [environmental sequence] Length = 271 Score = 145 bits (367), Expect = 2e-33, Method: Compositional matrix adjust. Identities = 77/180 (42%), Positives = 110/180 (61%), Gaps = 4/180 (2%) Query: 359 IAVQK-ELSETNRQLQQMAITDSLTGCYNRHYLTQQLEDEVILNREKHIPFALILLDIDF 417 +AV K +L N +LQ++A+ D LTG NR Y LE E ++ P +L++ DID Sbjct: 91 VAVNKRQLESANTKLQELALRDGLTGLLNRRYWESCLEREFARHQRYDNPVSLVIFDIDH 150 Query: 418 FKNVNDTYGHLAGDEVICQTVEVLKQELRQTDVLARYGGEEFIIYLPDTREAEALHVAEQ 477 FK VNDTYGH GDEVI +T + Q +R+TD RYGGEEF++ LP T A AE+ Sbjct: 151 FKRVNDTYGHQTGDEVIRETARITSQLVRETDFAGRYGGEEFVVLLPGTTLDGAAQFAER 210 Query: 478 LKATVEMNQITIANAADPVTVTISMGLLTIND-FSLNSNLFEDVDQALYQAKNKGRNRIV 536 L++++E Q+ + P+T TIS+G+ T+ D + L E D+ALYQ+K GRN++ Sbjct: 211 LRSSIERQQLDYQGS--PLTFTISLGVATLTDNMAGYLTLLERADKALYQSKEGGRNQVT 268 >ref|ZP_00151734.1| hypothetical protein Daro158301 [Dechloromonas aromatica RCB] Length = 426 Score = 143 bits (360), Expect = 1e-32, Method: Compositional matrix adjust. Identities = 82/205 (40%), Positives = 117/205 (57%), Gaps = 3/205 (1%) Query: 332 QDITELQRLIHETHQQNRVLQERNHSLIAVQKELSETNRQLQQMAITDSLTGCYNRHYLT 391 Q I + R + E L+E N L A +E+ LQ++A+ DSLTG YNR YL Sbjct: 219 QTILGITRNVSERKAVESALRETNRQLHARIEEIGRLQVALQELAVRDSLTGLYNRRYLD 278 Query: 392 QQLEDEVILNREKHIPFALILLDIDFFKNVNDTYGHLAGDEVICQTVEVLKQELRQTDVL 451 + LE EV R + IP +L++LDID FK VNDTYGH GDEV+ L ++R DV Sbjct: 279 ETLEREVSRARREGIPLSLVMLDIDHFKQVNDTYGHQVGDEVLRILASTLSADIRAEDVA 338 Query: 452 ARYGGEEFIIYLPDTREAEALHVAEQLKATVEMNQITIANAADPVTVTISMGLLTINDFS 511 RYGGEEF+I LP+ + A+ ++ VE +++ + +T TIS+G+ + Sbjct: 339 CRYGGEEFLILLPNMPLETTMLRAQGWRSAVEA--LSVKHGNFQITFTISLGVAAYPEHG 396 Query: 512 LN-SNLFEDVDQALYQAKNKGRNRI 535 +L DQALY+AKN+GRN++ Sbjct: 397 KTPDDLTRCADQALYRAKNEGRNQV 421 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 0.326 0.140 0.410 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: 679,976,984 Number of extensions: 26213430 Number of successful extensions: 94506 Number of sequences better than 1.0e-05: 2131 Number of HSP's gapped: 92199 Number of HSP's successfully gapped: 2132 Length of query: 540 Length of database: 757,237,578 Length adjustment: 131 Effective length of query: 409 Effective length of database: 401,559,609 Effective search space: 164237880081 Effective search space used: 164237880081 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 15 ( 7.1 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 40 (21.7 bits) S2: 128 (53.9 bits)