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= 0009.0113.p (543 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300309989|ref|YP_003774081.1| transcription regulator protein... 871 0.0 gi|300311339|ref|YP_003775431.1| CheY chemotaxis protein [Herbas... 66 9e-12 gi|300310884|ref|YP_003774976.1| chemotaxis regulator protein [H... 56 8e-09 >gi|300309989|ref|YP_003774081.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 542 Score = 871 bits (2251), Expect = 0.0, Method: Compositional matrix adjust. Identities = 426/543 (78%), Positives = 484/543 (89%), Gaps = 1/543 (0%) Query: 1 MTLVPFSRISSLRSLIIDDMPAMRQNIRMHLGQLGITKVDQAGTPDEAIRAVQGGSTYDL 60 M+LVPFS IS+LRSLIIDDMP MRQNIRMHLGQLG+TKVDQA TPDEAIR VQ G+ YDL Sbjct: 1 MSLVPFSHISALRSLIIDDMPTMRQNIRMHLGQLGVTKVDQAATPDEAIRFVQSGN-YDL 59 Query: 61 IVCDYNLNKETNGQQLLEFFRTQHMLSPTTMFIMVTAESGYNLVASAAEFQPDAYMLKPL 120 I+CDYNLNKE+NGQQLLEFFRTQ+MLSPT MFIMVTAESGYNLVASAAEFQPDAYMLKPL Sbjct: 60 IICDYNLNKESNGQQLLEFFRTQNMLSPTCMFIMVTAESGYNLVASAAEFQPDAYMLKPL 119 Query: 121 TASKLADRIDRLLEKQNALLPINEKLKRKDQAGAIVECDNVVKVAPKWIVDILKIKGSLL 180 TAS++A+R+DRLLEKQ+A+LP+ EK+KRKD +GAI ECDNV+K APKWIV+I+K KG+LL Sbjct: 120 TASRIAERVDRLLEKQHAMLPVTEKMKRKDISGAIAECDNVLKAAPKWIVEIMKTKGTLL 179 Query: 181 VELRRIEEARAVYAQALEMRDDQVWAKVGMARCNIVAGQYDDAKVLVQAVLAQNSQYIEA 240 +E RR++EAR VY QAL MRDD VWAK+G+ARCNIVAGQ DDA+ +V+ VLAQN Q+I A Sbjct: 180 IEQRRVDEAREVYKQALGMRDDLVWAKIGLARCNIVAGQMDDARAIVEDVLAQNKQFIAA 239 Query: 241 YDLLAQIEDAQGNQQQALDALARSSEIIPSARRSRLVGDAAYRVGDLDQAKEAFDKVLKH 300 YDLLAQI++AQGNQ+ AL+AL RSSEIIPSARRSRLVGD AYR G LDQA+EA+DKVLKH Sbjct: 240 YDLLAQIDEAQGNQEGALEALTRSSEIIPSARRSRLVGDVAYRSGHLDQAREAYDKVLKH 299 Query: 301 TKGSLTAQPGDLLTLAQVHVDTGDGDAALALLANAPKRYAESKMFISTQSAVAAQAYVQL 360 TKGSLTAQP DLL+LAQVH+D+GD DAAL LL +AP+RY ESK+FIS Q+AV AQAYVQL Sbjct: 300 TKGSLTAQPTDLLSLAQVHIDSGDADAALRLLESAPRRYEESKLFISAQAAVQAQAYVQL 359 Query: 361 GDMISAEMAFEAARNAAEGTPSEMGTLALAKAAFSVGRDEEGAQLISQAVKSDHENKTLL 420 GD ISA+ AFE AR AA S+M TLALAKAAFS+GRDEEG++LI+ AVKSDHENKTLL Sbjct: 360 GDTISAQQAFETARQAAGEETSDMATLALAKAAFSMGRDEEGSKLIADAVKSDHENKTLL 419 Query: 421 TLARKVLADCGKEGMTDELVDGAVKQCMGIIAEANTLMRSAKPDESLAKLEEALHSMPEN 480 LARKVLAD G+ + DELVDGAVK CM +IAEAN LMRSAKPDESLAKLEEAL SMPEN Sbjct: 420 MLARKVLADTGRANLADELVDGAVKHCMSVIAEANALMRSAKPDESLAKLEEALASMPEN 479 Query: 481 TGVLMAAAQLHLLWMSQRGINQDYVKRVNRYLNTLDRLIPGNDRVSKMHKFLRDAVAKAA 540 TGVL+A+AQLHLLWMSQRG N++YVKRV RYL TLDRLIPGNDRV+KMHKFLRD ++K A Sbjct: 480 TGVLLASAQLHLLWMSQRGWNEEYVKRVRRYLATLDRLIPGNDRVAKMHKFLRDTLSKVA 539 Query: 541 QKS 543 KS Sbjct: 540 PKS 542 >gi|300311339|ref|YP_003775431.1| CheY chemotaxis protein [Herbaspirillum seropedicae SmR1] Length = 131 Score = 65.9 bits (159), Expect = 9e-12, Method: Compositional matrix adjust. Identities = 40/128 (31%), Positives = 74/128 (57%), Gaps = 7/128 (5%) Query: 13 RSLIIDDMPAMRQNIRMHLGQLGITKVDQAGTPDEAIRAVQG--GSTYDLIVCDYNLNKE 70 + L++DD MR+ +R L +LG T VD+A ++ ++A+Q +D +V D+N+ Sbjct: 7 KFLVVDDFSTMRRIVRNLLKELGYTNVDEA---EDGVQALQKLRSDQFDFVVSDWNM-PN 62 Query: 71 TNGQQLLEFFRTQHMLSPTTMFIMVTAESGYNLVASAAEFQPDAYMLKPLTASKLADRID 130 +G +L+ R LS + +MVTAE+ + +AA+ + Y++KP TA+ L +++ Sbjct: 63 MDGLTMLQEIRKDPALSKLPV-LMVTAEAKKENIVAAAQAGANGYVVKPFTAATLDEKLG 121 Query: 131 RLLEKQNA 138 ++ EK A Sbjct: 122 KIFEKMAA 129 >gi|300310884|ref|YP_003774976.1| chemotaxis regulator protein [Herbaspirillum seropedicae SmR1] Length = 133 Score = 55.8 bits (133), Expect = 8e-09, Method: Compositional matrix adjust. Identities = 35/123 (28%), Positives = 69/123 (56%), Gaps = 3/123 (2%) Query: 15 LIIDDMPAMRQNIRMHLGQLGITKVDQAGTPDEAIRAVQ-GGSTYDLIVCDYNLNKETNG 73 L++DD MR+ + L +L TK+ +A A++ ++ G S ++ D+N+ +G Sbjct: 9 LVVDDFSTMRRIVSGLLKELEYTKIVEADDGSSALKILESGASNITFVLTDWNM-PVMDG 67 Query: 74 QQLLEFFRTQHMLSPTTMFIMVTAESGYNLVASAAEFQPDAYMLKPLTASKLADRIDRLL 133 LL+ R+ LS + +M+TAE+ + AA+ D Y++KP A+ L ++I+++L Sbjct: 68 LTLLKKIRSTPALSHLPV-LMITAEAKKENIVMAAQEGADGYIVKPFNATTLKEKIEKIL 126 Query: 134 EKQ 136 ++ Sbjct: 127 ARR 129 Database: BlastDatabases/689/689 Posted date: Apr 10, 2011 12:15 AM Number of letters in database: 1,619,870 Number of sequences in database: 4735 Lambda K H 0.317 0.130 0.358 Gapped Lambda K H 0.267 0.0410 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 4735 Number of Hits to DB: 1,442,314 Number of extensions: 55155 Number of successful extensions: 316 Number of sequences better than 1.0e-08: 3 Number of HSP's gapped: 317 Number of HSP's successfully gapped: 3 Length of query: 543 Length of database: 1,619,870 Length adjustment: 90 Effective length of query: 453 Effective length of database: 1,193,720 Effective search space: 540755160 Effective search space used: 540755160 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: 133 (55.8 bits)