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= 0001.0617.p (542 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... 1036 0.0 gi|300311339|ref|YP_003775431.1| CheY chemotaxis protein [Herbas... 74 4e-14 gi|300310884|ref|YP_003774976.1| chemotaxis regulator protein [H... 58 3e-09 >gi|300309989|ref|YP_003774081.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 542 Score = 1036 bits (2678), Expect = 0.0, Method: Compositional matrix adjust. Identities = 510/542 (94%), Positives = 529/542 (97%) Query: 1 MSLVPFSHISALRCLVIDDMPTMRQNIRMHLGQLGVTKVDQAATPDEAIRFVQSSTYDLI 60 MSLVPFSHISALR L+IDDMPTMRQNIRMHLGQLGVTKVDQAATPDEAIRFVQS YDLI Sbjct: 1 MSLVPFSHISALRSLIIDDMPTMRQNIRMHLGQLGVTKVDQAATPDEAIRFVQSGNYDLI 60 Query: 61 ICDYNLNKESNGQQLLEFFRTQNMLSPTCMFIMVTAESGYNLVASAAEFQPDAYMLKPLT 120 ICDYNLNKESNGQQLLEFFRTQNMLSPTCMFIMVTAESGYNLVASAAEFQPDAYMLKPLT Sbjct: 61 ICDYNLNKESNGQQLLEFFRTQNMLSPTCMFIMVTAESGYNLVASAAEFQPDAYMLKPLT 120 Query: 121 ASRIAERVDRLLEKQHAMLPVTEKMKRKDMAGAIIECDNVLKAAPKWIVEIMKTKGTLLI 180 ASRIAERVDRLLEKQHAMLPVTEKMKRKD++GAI ECDNVLKAAPKWIVEIMKTKGTLLI Sbjct: 121 ASRIAERVDRLLEKQHAMLPVTEKMKRKDISGAIAECDNVLKAAPKWIVEIMKTKGTLLI 180 Query: 181 EQRRIDEAREVYKQALAMRDDLVWAKIGLARCNIVAGQMDDARTIVQDVLAQNKQFIAAY 240 EQRR+DEAREVYKQAL MRDDLVWAKIGLARCNIVAGQMDDAR IV+DVLAQNKQFIAAY Sbjct: 181 EQRRVDEAREVYKQALGMRDDLVWAKIGLARCNIVAGQMDDARAIVEDVLAQNKQFIAAY 240 Query: 241 DLLAQIDEAQGNQEGALEALTKSSEIIPSARRSRLVGDVAYRSGHLDQAREAYDKVLKHT 300 DLLAQIDEAQGNQEGALEALT+SSEIIPSARRSRLVGDVAYRSGHLDQAREAYDKVLKHT Sbjct: 241 DLLAQIDEAQGNQEGALEALTRSSEIIPSARRSRLVGDVAYRSGHLDQAREAYDKVLKHT 300 Query: 301 KGSLTAQPTDLLSLAQVHIDSGDPDAALRLLESAPRRYEESNIFVSAQAAVQAQAYVQLG 360 KGSLTAQPTDLLSLAQVHIDSGD DAALRLLESAPRRYEES +F+SAQAAVQAQAYVQLG Sbjct: 301 KGSLTAQPTDLLSLAQVHIDSGDADAALRLLESAPRRYEESKLFISAQAAVQAQAYVQLG 360 Query: 361 DTISAQQAFETARQAAAKESSDTTSLALAKAAFSMGKDEEGAQLIAEAIKSDHENKTLQM 420 DTISAQQAFETARQAA +E+SD +LALAKAAFSMG+DEEG++LIA+A+KSDHENKTL M Sbjct: 361 DTISAQQAFETARQAAGEETSDMATLALAKAAFSMGRDEEGSKLIADAVKSDHENKTLLM 420 Query: 421 LARKVLADTGRANLAEELIDGAVKQCMSIIAEANALMRSAKPDESLAKLEEALASMPENT 480 LARKVLADTGRANLA+EL+DGAVK CMS+IAEANALMRSAKPDESLAKLEEALASMPENT Sbjct: 421 LARKVLADTGRANLADELVDGAVKHCMSVIAEANALMRSAKPDESLAKLEEALASMPENT 480 Query: 481 GVLLASAQLHLLWMSQRGWNEEYVKRVRRYLATLDRLIPGNDRVAKMHKFLRDTLSKVAP 540 GVLLASAQLHLLWMSQRGWNEEYVKRVRRYLATLDRLIPGNDRVAKMHKFLRDTLSKVAP Sbjct: 481 GVLLASAQLHLLWMSQRGWNEEYVKRVRRYLATLDRLIPGNDRVAKMHKFLRDTLSKVAP 540 Query: 541 KS 542 KS Sbjct: 541 KS 542 >gi|300311339|ref|YP_003775431.1| CheY chemotaxis protein [Herbaspirillum seropedicae SmR1] Length = 131 Score = 73.6 bits (179), Expect = 4e-14, Method: Compositional matrix adjust. Identities = 41/125 (32%), Positives = 75/125 (60%), Gaps = 2/125 (1%) Query: 13 RCLVIDDMPTMRQNIRMHLGQLGVTKVDQAATPDEAIRFVQSSTYDLIICDYNLNKESNG 72 + LV+DD TMR+ +R L +LG T VD+A +A++ ++S +D ++ D+N+ +G Sbjct: 7 KFLVVDDFSTMRRIVRNLLKELGYTNVDEAEDGVQALQKLRSDQFDFVVSDWNM-PNMDG 65 Query: 73 QQLLEFFRTQNMLSPTCMFIMVTAESGYNLVASAAEFQPDAYMLKPLTASRIAERVDRLL 132 +L+ R LS + +MVTAE+ + +AA+ + Y++KP TA+ + E++ ++ Sbjct: 66 LTMLQEIRKDPALSKLPV-LMVTAEAKKENIVAAAQAGANGYVVKPFTAATLDEKLGKIF 124 Query: 133 EKQHA 137 EK A Sbjct: 125 EKMAA 129 >gi|300310884|ref|YP_003774976.1| chemotaxis regulator protein [Herbaspirillum seropedicae SmR1] Length = 133 Score = 57.8 bits (138), Expect = 3e-09, Method: Compositional matrix adjust. Identities = 37/126 (29%), Positives = 71/126 (56%), Gaps = 4/126 (3%) Query: 15 LVIDDMPTMRQNIRMHLGQLGVTKVDQAATPDEAIRFVQS--STYDLIICDYNLNKESNG 72 LV+DD TMR+ + L +L TK+ +A A++ ++S S ++ D+N+ +G Sbjct: 9 LVVDDFSTMRRIVSGLLKELEYTKIVEADDGSSALKILESGASNITFVLTDWNM-PVMDG 67 Query: 73 QQLLEFFRTQNMLSPTCMFIMVTAESGYNLVASAAEFQPDAYMLKPLTASRIAERVDRLL 132 LL+ R+ LS + +M+TAE+ + AA+ D Y++KP A+ + E+++++L Sbjct: 68 LTLLKKIRSTPALSHLPV-LMITAEAKKENIVMAAQEGADGYIVKPFNATTLKEKIEKIL 126 Query: 133 EKQHAM 138 ++ M Sbjct: 127 ARRAHM 132 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 0.129 0.356 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: 1,454,962 Number of extensions: 54863 Number of successful extensions: 321 Number of sequences better than 1.0e-08: 3 Number of HSP's gapped: 323 Number of HSP's successfully gapped: 3 Length of query: 542 Length of database: 1,619,870 Length adjustment: 90 Effective length of query: 452 Effective length of database: 1,193,720 Effective search space: 539561440 Effective search space used: 539561440 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)