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= 0016.0130.p (560 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300311427|ref|YP_003775519.1| signal transduction histidine k... 1140 0.0 gi|300312093|ref|YP_003776185.1| hypothetical protein Hsero_2782... 113 3e-26 gi|300312606|ref|YP_003776698.1| EAL domain transmembrane protei... 112 8e-26 gi|300311453|ref|YP_003775545.1| signal transduction containing ... 105 9e-24 gi|300312904|ref|YP_003776996.1| diguanylate cyclase/phosphodies... 105 1e-23 >gi|300311427|ref|YP_003775519.1| signal transduction histidine kinase [Herbaspirillum seropedicae SmR1] Length = 560 Score = 1140 bits (2949), Expect = 0.0, Method: Compositional matrix adjust. Identities = 558/560 (99%), Positives = 558/560 (99%) Query: 1 MVCLVLTIGWFLYRAGDDATEVLARNALTELIGRVSQAIDRQTMGARESLNVVAPPAVRT 60 MVCLVLTIGWFLYRAGDDATEVLARNALTELIGRVSQAIDRQTMGARESLNVVAPPAVRT Sbjct: 1 MVCLVLTIGWFLYRAGDDATEVLARNALTELIGRVSQAIDRQTMGARESLNVVAPPAVRT 60 Query: 61 AAPGQPPAMLPFPVHSKELEERLWLANLMFEDPSYVYFGGADGSFLGIKQEEGSQFTYSV 120 AAPGQPPAMLPFPVHSKELEERLWLANLMFEDPSYVYFGGADGSFLGIKQEEGSQFTYSV Sbjct: 61 AAPGQPPAMLPFPVHSKELEERLWLANLMFEDPSYVYFGGADGSFLGIKQEEGSQFTYSV 120 Query: 121 REPDGKNYVYQLRGPGTPMELVAAQEYEPRKRPWYVQAVQRGRETWSSVYADYRQKHLGI 180 REPDGKNYVYQLRGPGTPMELVAAQEYEPRKRPWYVQAVQRGRETWSSVYADYRQKHLGI Sbjct: 121 REPDGKNYVYQLRGPGTPMELVAAQEYEPRKRPWYVQAVQRGRETWSSVYADYRQKHLGI 180 Query: 181 NLSKPIFDADGKLLGVANSSIGLLRLTTLLRALPLGAHGVAFVTELNGDMIADSVNEPLH 240 NLSKPIFDADGKLLGVANSSIGLLRLTTLLRALPLGAHGVAFVTELNGDMIADSVNEPLH Sbjct: 181 NLSKPIFDADGKLLGVANSSIGLLRLTTLLRALPLGAHGVAFVTELNGDMIADSVNEPLH 240 Query: 241 QIRDQDPDLRRLNASQSSSPLVRQAYEEVHRYLARQPAQSGKLMLLSSRTEGGKIEVAFR 300 QIRDQDPDLRRLNASQSSSPLVRQAYEEV RYLARQPAQSGKLMLLSSRTEGGKIEVAFR Sbjct: 241 QIRDQDPDLRRLNASQSSSPLVRQAYEEVRRYLARQPAQSGKLMLLSSRTEGGKIEVAFR 300 Query: 301 LHHDAAGLDWLAISAAPRSDFLGSVTSGVYQTLMLGLMAVCLTFVIGFLLLRWVLRDIRR 360 LHHDAAGLDWLAISAAPRSDFLGSVTSGVYQTLMLGLMAVCLTFVIGFLLLRWVLRDIRR Sbjct: 301 LHHDAAGLDWLAISAAPRSDFLGSVTSGVYQTLMLGLMAVCLTFVIGFLLLRWVLRDIRR 360 Query: 361 LTQAAKSIGNGSPLPDLNINRNDEIGQLAQSFVEMERNLRTDRLTNVLNRDSLIAQIDFR 420 LTQAAKSIGNGSP PDLNINRNDEIGQLAQSFVEMERNLRTDRLTNVLNRDSLIAQIDFR Sbjct: 361 LTQAAKSIGNGSPFPDLNINRNDEIGQLAQSFVEMERNLRTDRLTNVLNRDSLIAQIDFR 420 Query: 421 RSNCVDGSPLHFGLLFIDLDRFKAVNDEYGHDEGDKVLVTIAQRLQHTLRHDDSVARFGG 480 RSNCVDGSPLHFGLLFIDLDRFKAVNDEYGHDEGDKVLVTIAQRLQHTLRHDDSVARFGG Sbjct: 421 RSNCVDGSPLHFGLLFIDLDRFKAVNDEYGHDEGDKVLVTIAQRLQHTLRHDDSVARFGG 480 Query: 481 DEFVVYLHGVSDMEVARSIADKIRHAVNKPIPGREGQQYVVDASVGVSLYPDDGLDVETL 540 DEFVVYLHGVSDMEVARSIADKIRHAVNKPIPGREGQQYVVDASVGVSLYPDDGLDVETL Sbjct: 481 DEFVVYLHGVSDMEVARSIADKIRHAVNKPIPGREGQQYVVDASVGVSLYPDDGLDVETL 540 Query: 541 LRVADSRMFDQKRLHRILSV 560 LRVADSRMFDQKRLHRILSV Sbjct: 541 LRVADSRMFDQKRLHRILSV 560 >gi|300312093|ref|YP_003776185.1| hypothetical protein Hsero_2782 [Herbaspirillum seropedicae SmR1] Length = 601 Score = 113 bits (283), Expect = 3e-26, Method: Compositional matrix adjust. Identities = 76/218 (34%), Positives = 119/218 (54%), Gaps = 25/218 (11%) Query: 353 WVLRDIRRLTQAAKSIGNGS-PLPDLNINRNDEIGQLAQSF-----------VEMERNLR 400 W R +RR A + G PL L ++R DE+GQL +F E++ Sbjct: 352 WFFRPLRRAAALADRMTRGELPLSPLPVDRRDEVGQLTMAFNGLLARLKLHQAELQHQAH 411 Query: 401 TDRLTNVLNRDSLIAQIDFRRSN-CVDGSPLHFGLLFIDLDRFKAVNDEYGHDEGDKVLV 459 D LT + NR L ++ ++ C + + + GLLF+DLD FK +ND GH GD+VL Sbjct: 412 HDVLTGLPNRMMLAERMQAALTHACRERNGV--GLLFLDLDGFKPINDTLGHKAGDQVLQ 469 Query: 460 TIAQRLQHTLRHDDSVARFGGDEFVVYLHGVSDMEV-----ARSIADKIRHAVNKPIPGR 514 I +RL+ RH D++AR GGDEFV+ V+D+ + A+++A+K V++PI Sbjct: 470 EITRRLRQVARHGDTLARVGGDEFVLL---VTDLRLPFEQGAQALAEKCIKTVSEPI-CL 525 Query: 515 EGQQYVVDASVGVSLYPDDGLDVETLLRVADSRMFDQK 552 + +QY + SVG+++ D D ++LL+ AD M+ K Sbjct: 526 DQRQYRLGVSVGIAVC-DGSCDADSLLQAADQAMYAAK 562 >gi|300312606|ref|YP_003776698.1| EAL domain transmembrane protein [Herbaspirillum seropedicae SmR1] Length = 695 Score = 112 bits (280), Expect = 8e-26, Method: Compositional matrix adjust. Identities = 76/206 (36%), Positives = 121/206 (58%), Gaps = 5/206 (2%) Query: 353 WVLRDIRRLTQAAKSIGNGSPLPDLNI-NRNDEIGQ-LAQSFVEMERNLRTDRLTNVLNR 410 W+ I +T AA +I + + D + +R ++ + LA + E+ + + D+LT + NR Sbjct: 218 WLAVLIIVVTLAALTIALLTSVLDARLESRTAKLARSLAAANEELTQMVLHDQLTRLPNR 277 Query: 411 DSLIAQIDFRRSNCVDGSPLHFGLLFIDLDRFKAVNDEYGHDEGDKVLVTIAQRLQHTLR 470 L +++ + N HF L+F+DLD FKA+ND GH GD++LV +AQRL + R Sbjct: 278 TLLEDRLN-QAINKAAREQGHFALMFMDLDGFKAINDSLGHHVGDRLLVEVAQRLTSSSR 336 Query: 471 HDDSVARFGGDEFVVYLHGVSDMEVARSIADKIRHAVNKPIPGREGQQYVVDASVGVSLY 530 +D+VAR GGDEFV+ L ++ E A +A+K+ AVN+P + + V ASVG+++Y Sbjct: 337 ANDTVARLGGDEFVI-LVDLNTPEDAMGVAEKLVEAVNQPFK-VDQHELRVSASVGIAIY 394 Query: 531 PDDGLDVETLLRVADSRMFDQKRLHR 556 P+DG L+ AD+ M+ KR R Sbjct: 395 PEDGATRHDLVINADAAMYHTKRSGR 420 >gi|300311453|ref|YP_003775545.1| signal transduction containing PAS/GGDEF/EAL domains protein [Herbaspirillum seropedicae SmR1] Length = 683 Score = 105 bits (262), Expect = 9e-24, Method: Compositional matrix adjust. Identities = 66/157 (42%), Positives = 88/157 (56%), Gaps = 13/157 (8%) Query: 402 DRLTNVLNRDSLIAQID-----FRRSNCVDGSPLHFGLLFIDLDRFKAVNDEYGHDEGDK 456 D LT + NR L +D R N LH ++FIDL+RFK +ND GH GD Sbjct: 247 DALTGLPNRTLLTRTVDQALEEARHEN------LHGCVMFIDLNRFKPINDTLGHVAGDM 300 Query: 457 VLVTIAQRLQHTLRHDDSVARFGGDEFVVYLHGVSDMEVARSIADKIRHAVNKPIPGREG 516 +LV +A RL+ LR D VAR G DEF V L G+ D + +A K+ + P +G Sbjct: 301 LLVEVAMRLRRALREQDVVARLGADEFAVALFGI-DKDSPAYVAQKLLALFDDPF-FIDG 358 Query: 517 QQYVVDASVGVSLYPDDGLDVETLLRVADSRMFDQKR 553 + V AS+GVSLYP++ D ETLLR+AD M+ K+ Sbjct: 359 HELRVGASIGVSLYPENATDTETLLRLADIAMYRAKQ 395 >gi|300312904|ref|YP_003776996.1| diguanylate cyclase/phosphodiesterase with PAS/PAC sensor domains protein [Herbaspirillum seropedicae SmR1] Length = 701 Score = 105 bits (261), Expect = 1e-23, Method: Compositional matrix adjust. Identities = 67/164 (40%), Positives = 91/164 (55%), Gaps = 3/164 (1%) Query: 394 EMERNLRTDRLTNVLNRDSLIAQIDFRRSNCVDGSPLHFGLLFIDLDRFKAVNDEYGHDE 453 EM D LT + NR+ L + R + F+DLD+FK +ND GH Sbjct: 261 EMRHQATHDALTGLPNRNMLHEHLQ-RALRVARQKGALTAVAFVDLDQFKFINDSLGHQV 319 Query: 454 GDKVLVTIAQRLQHTLRHDDSVARFGGDEFVVYLHGVSDMEVA-RSIADKIRHAVNKPIP 512 GD++L T+AQRLQ LR D VAR GGDEFV+ L ++ E + +I AV +P Sbjct: 320 GDELLKTVAQRLQACLREADMVARQGGDEFVLVLQNQTEGEAGIAEVMQRILAAVARPWQ 379 Query: 513 GREGQQYVVDASVGVSLYPDDGLDVETLLRVADSRMFDQKRLHR 556 + +++ V AS+GVS YP DG DVE+LL+ ADS M+ K R Sbjct: 380 AGD-REFQVTASIGVSRYPADGKDVESLLKHADSAMYRAKEQGR 422 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 0.321 0.138 0.405 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: 1,707,304 Number of extensions: 70967 Number of successful extensions: 359 Number of sequences better than 1.0e-08: 39 Number of HSP's gapped: 328 Number of HSP's successfully gapped: 39 Length of query: 560 Length of database: 1,619,870 Length adjustment: 90 Effective length of query: 470 Effective length of database: 1,193,720 Effective search space: 561048400 Effective search space used: 561048400 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 16 ( 7.4 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 41 (21.8 bits) S2: 133 (55.8 bits)