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= 0005.0210.p (561 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... 776 0.0 gi|300312093|ref|YP_003776185.1| hypothetical protein Hsero_2782... 112 1e-25 gi|300312606|ref|YP_003776698.1| EAL domain transmembrane protei... 111 2e-25 gi|300313074|ref|YP_003777166.1| GGDEF domain-containing protein... 106 4e-24 gi|300310189|ref|YP_003774281.1| transmembrane protein [Herbaspi... 105 9e-24 >gi|300311427|ref|YP_003775519.1| signal transduction histidine kinase [Herbaspirillum seropedicae SmR1] Length = 560 Score = 776 bits (2003), Expect = 0.0, Method: Compositional matrix adjust. Identities = 378/559 (67%), Positives = 454/559 (81%), Gaps = 5/559 (0%) Query: 1 MLCLAVTIGWFLYRAGDDATEVLARNALMDTMNRVGQATDRQLLGARETLRVVAXPP--- 57 M+CL +TIGWFLYRAGDDATEVLARNAL + + RV QA DRQ +GARE+L VVA P Sbjct: 1 MVCLVLTIGWFLYRAGDDATEVLARNALTELIGRVSQAIDRQTMGARESLNVVAPPAVRT 60 Query: 58 AEKGGQPAYIPFPKERAALEERLWLANSLFDDPSYVYFGGADGSFLGVKQEEMNLFMYST 117 A G PA +PFP LEERLWLAN +F+DPSYVYFGGADGSFLG+KQEE + F YS Sbjct: 61 AAPGQPPAMLPFPVHSKELEERLWLANLMFEDPSYVYFGGADGSFLGIKQEEGSQFTYSV 120 Query: 118 RDPQGKNYVYHLRGPGTTPVLIATQDYEPRNRPWYRQAIERKQETWSPVFTDFRLKFLGI 177 R+P GKNYVY LRGPGT L+A Q+YEPR RPWY QA++R +ETWS V+ D+R K LGI Sbjct: 121 REPDGKNYVYQLRGPGTPMELVAAQEYEPRKRPWYVQAVQRGRETWSSVYADYRQKHLGI 180 Query: 178 TLSKPVYSPEHVLLGVATSSIGLQRLSDFLQALPLTRNGVAFIIEMSGDLIATSVNEPIH 237 LSKP++ + LLGVA SSIGL RL+ L+ALPL +GVAF+ E++GD+IA SVNEP+H Sbjct: 181 NLSKPIFDADGKLLGVANSSIGLLRLTTLLRALPLGAHGVAFVTELNGDMIADSVNEPLH 240 Query: 238 KV--DGANFVRLNAGQSTSPIVRQSYADLVAYMKTQKLEPGKLVVQSLQTDGPKTELAFR 295 ++ + RLNA QS+SP+VRQ+Y ++ Y+ Q + GKL++ S +T+G K E+AFR Sbjct: 241 QIRDQDPDLRRLNASQSSSPLVRQAYEEVRRYLARQPAQSGKLMLLSSRTEGGKIEVAFR 300 Query: 296 LHHDTAGLDWVAVSAVSRSDFLGSVTGGVYQTLLLGFIAVCMTFVLGFAILRWVLRDIRK 355 LHHD AGLDW+A+SA RSDFLGSVT GVYQTL+LG +AVC+TFV+GF +LRWVLRDIR+ Sbjct: 301 LHHDAAGLDWLAISAAPRSDFLGSVTSGVYQTLMLGLMAVCLTFVIGFLLLRWVLRDIRR 360 Query: 356 LTLAAKSIGNGEPFPSLNIDRRDEIGQLAQSFQEMERNLRTDRLTNVLNRDSFIAQIDFR 415 LT AAKSIGNG PFP LNI+R DEIGQLAQSF EMERNLRTDRLTNVLNRDS IAQIDFR Sbjct: 361 LTQAAKSIGNGSPFPDLNINRNDEIGQLAQSFVEMERNLRTDRLTNVLNRDSLIAQIDFR 420 Query: 416 RRKGTEVAPLQFALLFIDLDKFKAINDQYGHDEGDKVLISAASQLQHALRKDDSVARFGG 475 R + +PL F LLFIDLD+FKA+ND+YGHDEGDKVL++ A +LQH LR DDSVARFGG Sbjct: 421 RSNCVDGSPLHFGLLFIDLDRFKAVNDEYGHDEGDKVLVTIAQRLQHTLRHDDSVARFGG 480 Query: 476 DEFVVYLHGVTDENIAKSIAEKIRNFLNQPIEGRDGNQYHVDASIGVALFPQDGLDIETL 535 DEFVVYLHGV+D +A+SIA+KIR+ +N+PI GR+G QY VDAS+GV+L+P DGLD+ETL Sbjct: 481 DEFVVYLHGVSDMEVARSIADKIRHAVNKPIPGREGQQYVVDASVGVSLYPDDGLDVETL 540 Query: 536 LRVADERMFEQKRMHRILS 554 LRVAD RMF+QKR+HRILS Sbjct: 541 LRVADSRMFDQKRLHRILS 559 >gi|300312093|ref|YP_003776185.1| hypothetical protein Hsero_2782 [Herbaspirillum seropedicae SmR1] Length = 601 Score = 112 bits (279), Expect = 1e-25, Method: Compositional matrix adjust. Identities = 79/224 (35%), Positives = 112/224 (50%), Gaps = 37/224 (16%) Query: 348 WVLRDIRKLTLAAKSIGNGE-PFPSLNIDRRDEIGQLAQSFQ-----------EMERNLR 395 W R +R+ A + GE P L +DRRDE+GQL +F E++ Sbjct: 352 WFFRPLRRAAALADRMTRGELPLSPLPVDRRDEVGQLTMAFNGLLARLKLHQAELQHQAH 411 Query: 396 TDRLTNVLNRDSFIAQID------FRRRKGTEVAPLQFALLFIDLDKFKAINDQYGHDEG 449 D LT + NR ++ R R G LLF+DLD FK IND GH G Sbjct: 412 HDVLTGLPNRMMLAERMQAALTHACRERNGV-------GLLFLDLDGFKPINDTLGHKAG 464 Query: 450 DKVLISAASQLQHALRKDDSVARFGGDEFVVYLHGVTD-----ENIAKSIAEKIRNFLNQ 504 D+VL +L+ R D++AR GGDEFV+ VTD E A+++AEK +++ Sbjct: 465 DQVLQEITRRLRQVARHGDTLARVGGDEFVLL---VTDLRLPFEQGAQALAEKCIKTVSE 521 Query: 505 PIEGRDGNQYHVDASIGVALFPQDG-LDIETLLRVADERMFEQK 547 PI D QY + S+G+A+ DG D ++LL+ AD+ M+ K Sbjct: 522 PI-CLDQRQYRLGVSVGIAVC--DGSCDADSLLQAADQAMYAAK 562 >gi|300312606|ref|YP_003776698.1| EAL domain transmembrane protein [Herbaspirillum seropedicae SmR1] Length = 695 Score = 111 bits (277), Expect = 2e-25, Method: Compositional matrix adjust. Identities = 86/261 (32%), Positives = 126/261 (48%), Gaps = 32/261 (12%) Query: 294 FRLHHDTAGLDWVAVSAVSRSDFLGSVTGGVYQTLLLGFIAVCMTFVLGFAILRWVLR-- 351 F +H+ G ++ SR S GV L I V L A+L VL Sbjct: 189 FGMHYTGMG-----AASFSRDSICLSAREGVAPGWLAVLIIVVTLAALTIALLTSVLDAR 243 Query: 352 -DIRKLTLAAKSIGNGEPFPSLNIDRRDEIGQLAQSFQEMERNLRTDRLTNVLNRDSFIA 410 + R LA E + + D++ +L R L DRL +N+ + Sbjct: 244 LESRTAKLARSLAAANEELTQMVL--HDQLTRLPN------RTLLEDRLNQAINKAA--- 292 Query: 411 QIDFRRRKGTEVAPLQFALLFIDLDKFKAINDQYGHDEGDKVLISAASQLQHALRKDDSV 470 R +G FAL+F+DLD FKAIND GH GD++L+ A +L + R +D+V Sbjct: 293 -----REQG------HFALMFMDLDGFKAINDSLGHHVGDRLLVEVAQRLTSSSRANDTV 341 Query: 471 ARFGGDEFVVYLHGVTDENIAKSIAEKIRNFLNQPIEGRDGNQYHVDASIGVALFPQDGL 530 AR GGDEFV+ + T E+ A +AEK+ +NQP + D ++ V AS+G+A++P+DG Sbjct: 342 ARLGGDEFVILVDLNTPED-AMGVAEKLVEAVNQPFK-VDQHELRVSASVGIAIYPEDGA 399 Query: 531 DIETLLRVADERMFEQKRMHR 551 L+ AD M+ KR R Sbjct: 400 TRHDLVINADAAMYHTKRSGR 420 >gi|300313074|ref|YP_003777166.1| GGDEF domain-containing protein [Herbaspirillum seropedicae SmR1] Length = 738 Score = 106 bits (265), Expect = 4e-24, Method: Compositional matrix adjust. Identities = 66/171 (38%), Positives = 103/171 (60%), Gaps = 12/171 (7%) Query: 386 SFQEMERNLR-TDRLTNVLNRDSFIAQID---FRRRKGTEVAPLQFALLFIDLDKFKAIN 441 +F++ R L TD LT++ NR +F ++ R R+ ++ AL F+DLD FK IN Sbjct: 560 AFRDQMRELALTDVLTSLPNRRAFSDRLPEGMMRARRAHQL----LALFFMDLDGFKGIN 615 Query: 442 DQYGHDEGDKVLISAASQLQHALRKDDSVARFGGDEFVVYLHGVTDENIAKSIAEKIRNF 501 D+YGH+ GD++L+ A +LQ ++R D+VAR GDEFVV L + + A +AEKI + Sbjct: 616 DRYGHEAGDELLVEFARRLQASVRDVDTVARLAGDEFVVILENLQSQQDAIMVAEKILHA 675 Query: 502 LNQPIEGRDGNQYHVDASIGVALFPQD---GLDIETLLRVADERMFEQKRM 549 + +P E + H+ +SIGVA++ D + E LL +AD+ M+ KR+ Sbjct: 676 IREPFE-LTHSTVHISSSIGVAVYQPDLDGEIGPEELLSMADKAMYAAKRL 725 >gi|300310189|ref|YP_003774281.1| transmembrane protein [Herbaspirillum seropedicae SmR1] Length = 706 Score = 105 bits (262), Expect = 9e-24, Method: Compositional matrix adjust. Identities = 60/159 (37%), Positives = 91/159 (57%), Gaps = 10/159 (6%) Query: 397 DRLTNVLNR----DSFIAQIDFRRRKGTEVAPLQFALLFIDLDKFKAINDQYGHDEGDKV 452 D LT + NR D ++ RR G FA+LF+DLD FKAIND GH GD + Sbjct: 265 DVLTGLPNRALLADRIQHAVEVARRNGKT-----FAVLFMDLDGFKAINDSLGHAVGDGL 319 Query: 453 LISAASQLQHALRKDDSVARFGGDEFVVYLHGVTDENIAKSIAEKIRNFLNQPIEGRDGN 512 L++ A +++ LR +D VAR GGDEFVV + ++ ++ + ++E I L Q + D Sbjct: 320 LVAVAQRIRQCLRGEDMVARIGGDEFVVVVGNLSSPDVVEQLSENILAALRQDFQIDDAT 379 Query: 513 QYHVDASIGVALFPQDGLDIETLLRVADERMFEQKRMHR 551 V +SIG+A++P G ++ L++ AD M+E K+ R Sbjct: 380 -LRVTSSIGIAVYPNSGDSVDALMKNADAAMYEAKQSGR 417 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: 1,755,460 Number of extensions: 76251 Number of successful extensions: 302 Number of sequences better than 1.0e-08: 40 Number of HSP's gapped: 271 Number of HSP's successfully gapped: 40 Length of query: 561 Length of database: 1,619,870 Length adjustment: 90 Effective length of query: 471 Effective length of database: 1,193,720 Effective search space: 562242120 Effective search space used: 562242120 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 (21.9 bits) S2: 133 (55.8 bits)