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= 0003.0037.p (726 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300313074|ref|YP_003777166.1| GGDEF domain-containing protein... 1111 0.0 gi|300311453|ref|YP_003775545.1| signal transduction containing ... 140 3e-34 gi|300311036|ref|YP_003775128.1| signal transduction protein [He... 139 6e-34 gi|300312606|ref|YP_003776698.1| EAL domain transmembrane protei... 135 1e-32 gi|300311871|ref|YP_003775963.1| EAL domain-containing protein [... 135 2e-32 >gi|300313074|ref|YP_003777166.1| GGDEF domain-containing protein [Herbaspirillum seropedicae SmR1] Length = 738 Score = 1111 bits (2873), Expect = 0.0, Method: Compositional matrix adjust. Identities = 575/708 (81%), Positives = 625/708 (88%), Gaps = 9/708 (1%) Query: 1 LNKNKAPSPPNLSSLITLGVVITVLITTVSVLILVDQFTRGYARSESETRMKQLAWQMQD 60 LNK KAPSPPNLSSLITLGVV+TVL+TTVSVLILVDQFTRGYARSE ETR+KQLAWQMQD Sbjct: 23 LNKKKAPSPPNLSSLITLGVVVTVLVTTVSVLILVDQFTRGYARSEVETRLKQLAWQMQD 82 Query: 61 ALERGMKEREIDLRLLVQRPSVRSGRDLPRIRRVFNELQANVPHYAWIGLANPEGIVQVA 120 ALERGM EREID+RLLV RPS+R +D IR V ELQ NVPHYAWIG+A P+G V A Sbjct: 83 ALERGMAEREIDIRLLVSRPSIRQAQDPAHIRAVLEELQRNVPHYAWIGMARPDGTVLAA 142 Query: 121 TNGLLEGASVAQRPWFQEGSKGEYSADFHPAVLLAQKLPPQSNPWRFVDLSAPVHDLNGH 180 T GLLEG SVA+RPWFQ+G + EY+AD+HPAVLL +KLPPQS+PWRFVDLS PV ++ G Sbjct: 143 TKGLLEGMSVAERPWFQQGQQTEYAADYHPAVLLEKKLPPQSDPWRFVDLSMPVLNMQGQ 202 Query: 181 YLGVVGLHLSWSWARDIAAKLLDPAGXSVVVLGARHRRQAAGPGVRDDGTVILGPKGMEE 240 +GV+G+HLSW WAR+IA+KLL+P R VR DGTVILGPK MEE Sbjct: 203 MIGVMGMHLSWGWAREIASKLLNPTSS---------RYDVDVLIVRSDGTVILGPKDMEE 253 Query: 241 TKLDTASVRAAQGSDNGGSLIETWPDGRRYVSGYARTGVKGGMKLHWSVIVRQPETVALQ 300 TK+DTAS RAAQ S GGSLIETWPDGRRYV+GYARTG G MKL W+VIVRQPETVAL+ Sbjct: 254 TKIDTASFRAAQHSSAGGSLIETWPDGRRYVTGYARTGQGGEMKLKWTVIVRQPETVALE 313 Query: 301 AFRDLEKRVIVVGALSGAILVLLAFFLARRLVAPINALSAALEQRAAGHGDLPIPQVNSY 360 AFRDLE+RVIVVGAL+GA+LVLLAF L RRLVAPINALSAALEQRAAG ++ IP V S Sbjct: 314 AFRDLERRVIVVGALAGAVLVLLAFMLTRRLVAPINALSAALEQRAAGLQEVEIPLVTSV 373 Query: 361 REIQLLSSTLVNMVEREETYLREVRSLNESLEQRVAERTSRLHETASALQEALDQQQANQ 420 RE+QLLSS L MVEREE YLRE+RSLNESLE+RV ERTSRLHETA+ALQ+ALDQQQ NQ Sbjct: 374 RELQLLSSALGTMVEREERYLREMRSLNESLEERVVERTSRLHETATALQQALDQQQTNQ 433 Query: 421 IQLEESAAELRAILENAQDAFIAADEQGRVVEWNRQAELLLGWPRDQAMGRDMAELIIPP 480 IQLEESAAELRAILENAQDAFIAADE G +VEWNRQAELLLGWPRD MGR MAELIIP Sbjct: 434 IQLEESAAELRAILENAQDAFIAADEHGHIVEWNRQAELLLGWPRDTVMGRSMAELIIPS 493 Query: 481 DMRAAHNRGMAQFLKDGTSVVINNRIELQAQHHDGHELPIEITVGHVKRQSGHLFIAFLH 540 DMRAAHN GMAQFLKDGTSVVINNRIELQA H DGHELP+EITVGHVKRQSGHLFIAFLH Sbjct: 494 DMRAAHNHGMAQFLKDGTSVVINNRIELQALHRDGHELPVEITVGHVKRQSGHLFIAFLH 553 Query: 541 DITERLAFRDQMRELALTDVLTSLPNRRAFSDRLPEGMMRARRADQLLALFFMDIDGFKG 600 DITERLAFRDQMRELALTDVLTSLPNRRAFSDRLPEGMMRARRA QLLALFFMD+DGFKG Sbjct: 554 DITERLAFRDQMRELALTDVLTSLPNRRAFSDRLPEGMMRARRAHQLLALFFMDLDGFKG 613 Query: 601 VNDRYGHEAGDELLVEFARRLQHSVRDVDTVARLAGDEFVVILENLQTQEDALMVAQKIL 660 +NDRYGHEAGDELLVEFARRLQ SVRDVDTVARLAGDEFVVILENLQ+Q+DA+MVA+KIL Sbjct: 614 INDRYGHEAGDELLVEFARRLQASVRDVDTVARLAGDEFVVILENLQSQQDAIMVAEKIL 673 Query: 661 NTIREPFQLTHSTVNISSSIGVAVYQPNLDGEVGPEELLSMADKAMYA 708 + IREPF+LTHSTV+ISSSIGVAVYQP+LDGE+GPEELLSMADKAMYA Sbjct: 674 HAIREPFELTHSTVHISSSIGVAVYQPDLDGEIGPEELLSMADKAMYA 721 >gi|300311453|ref|YP_003775545.1| signal transduction containing PAS/GGDEF/EAL domains protein [Herbaspirillum seropedicae SmR1] Length = 683 Score = 140 bits (353), Expect = 3e-34, Method: Compositional matrix adjust. Identities = 103/299 (34%), Positives = 154/299 (51%), Gaps = 23/299 (7%) Query: 412 ALDQQQANQIQLEESAAELRAILENAQDAFIAADEQGRVVEWNRQAELLLGWPRDQAMGR 471 ALDQ +A +LE+ A IL ++ I D G + WNR AE L G+ +A+GR Sbjct: 113 ALDQIEA---KLEQQAQ----ILNQMHESVITMDPAGFITSWNRGAEQLFGYSAMEAIGR 165 Query: 472 DMAELIIPPDMR-AAHNRGMAQFLKDGTSVVINNRIELQAQHHDGHELPIEITVGHVKRQ 530 ++ L D + H+ FL+ G +E++ + G +++ ++ Q Sbjct: 166 NVLFLYENEDEEDSLHD----LFLEHG-----GREMEVRRRKKSGEVFWASLSLSVMRDQ 216 Query: 531 SGHL--FIAFLHDITERLAFRDQMRELALTDVLTSLPNRRAFSDRLPEGMMRARRADQLL 588 +GH I +L+DITER + LA D LT LPNR + + + + AR + Sbjct: 217 NGHPIGLIGYLNDITERKNAEKLIHHLAYYDALTGLPNRTLLTRTVDQALEEARHENLHG 276 Query: 589 ALFFMDIDGFKGVNDRYGHEAGDELLVEFARRLQHSVRDVDTVARLAGDEFVVILENLQT 648 + F+D++ FK +ND GH AGD LLVE A RL+ ++R+ D VARL DEF V L + Sbjct: 277 CVMFIDLNRFKPINDTLGHVAGDMLLVEVAMRLRRALREQDVVARLGADEFAVALFGIDK 336 Query: 649 QEDALMVAQKILNTIREPFQLTHSTVNISSSIGVAVYQPNLDGEVGPEELLSMADKAMY 707 A VAQK+L +PF + + + +SIGV++Y N E LL +AD AMY Sbjct: 337 DSPA-YVAQKLLALFDDPFFIDGHELRVGASIGVSLYPEN---ATDTETLLRLADIAMY 391 >gi|300311036|ref|YP_003775128.1| signal transduction protein [Herbaspirillum seropedicae SmR1] Length = 750 Score = 139 bits (351), Expect = 6e-34, Method: Compositional matrix adjust. Identities = 113/390 (28%), Positives = 186/390 (47%), Gaps = 23/390 (5%) Query: 331 LVAPINALSAALEQR-AAGHGDLPIPQVNSYREIQLLSSTLVNMVEREETYLREVRSLNE 389 LV A +A +R A + DL + E +L++ + ++ T+L + E Sbjct: 84 LVTMYQAYESAFRERIAVRYQDLAASFFCASGEQELIARQIGDVFNDFNTHLGSIIGFAE 143 Query: 390 SLEQRVAERTS---RLHETASALQEALDQQQANQIQLEESAAELRAILENAQDAFIAADE 446 +E ++ ++S LH L L + A Q ++ S + R +++N+ D + D Sbjct: 144 MVEDELSRKSSGQQSLHLLMQNLTALLKAEHAIQQRIRSSERQFRTLVDNSPDVILRYDM 203 Query: 447 QGRVVEWNRQAELLLGWPRDQAMGRDMAELIIPPDMRAAHNR------GMAQFLKDGTSV 500 +GR V N G DQ + + R+A+ R + ++ + Sbjct: 204 EGRCVFANPAFTRETGLMADQDINTILD--------RSANRRWDDESCSFGERVRQVAAT 255 Query: 501 VINNRIELQAQHHDGHELPIEITVGHVKRQSGHLF--IAFLHDITERLAFRDQMRELALT 558 + + + L+ +H GH + E+ + +F +A D+T R ++R A Sbjct: 256 GVADVVVLEWRHPQGHLVSHEMHIVPEYDADEQIFGTLAIGRDVTRRKEVEFKLRHQANY 315 Query: 559 DVLTSLPNRRAFSDRLPEGMMRARRADQLLALFFMDIDGFKGVNDRYGHEAGDELLVEFA 618 D L+ LPNRR D L + A++ LA+ F+D+D FK VND GH GD+LLV A Sbjct: 316 DPLSGLPNRRLLGDMLQREVASAKKHAYPLAVVFIDLDRFKDVNDSLGHSVGDQLLVVAA 375 Query: 619 RRLQHSVRDVDTVARLAGDEFVVILENLQTQEDALMVAQKILNTIREPFQLTHSTVNISS 678 +R++ SVR+ D VARLAGDEFV +L L+ + I+ + EPFQL V IS+ Sbjct: 376 QRVRASVREHDLVARLAGDEFVAVLPRLEASAALTRIGDDIVAALAEPFQLGEHRVRISA 435 Query: 679 SIGVAVYQPNLDGEVGPEELLSMADKAMYA 708 S+G+A+Y + D L+ AD+AM+A Sbjct: 436 SVGIAIYPHDADTVT---TLIGCADQAMFA 462 >gi|300312606|ref|YP_003776698.1| EAL domain transmembrane protein [Herbaspirillum seropedicae SmR1] Length = 695 Score = 135 bits (339), Expect = 1e-32, Method: Compositional matrix adjust. Identities = 74/161 (45%), Positives = 102/161 (63%), Gaps = 4/161 (2%) Query: 547 AFRDQMRELALTDVLTSLPNRRAFSDRLPEGMMRARRADQLLALFFMDIDGFKGVNDRYG 606 A +++ ++ L D LT LPNR DRL + + +A R AL FMD+DGFK +ND G Sbjct: 257 AANEELTQMVLHDQLTRLPNRTLLEDRLNQAINKAAREQGHFALMFMDLDGFKAINDSLG 316 Query: 607 HEAGDELLVEFARRLQHSVRDVDTVARLAGDEFVVILENLQTQEDALMVAQKILNTIREP 666 H GD LLVE A+RL S R DTVARL GDEF VIL +L T EDA+ VA+K++ + +P Sbjct: 317 HHVGDRLLVEVAQRLTSSSRANDTVARLGGDEF-VILVDLNTPEDAMGVAEKLVEAVNQP 375 Query: 667 FQLTHSTVNISSSIGVAVYQPNLDGEVGPEELLSMADKAMY 707 F++ + +S+S+G+A+Y DG +L+ AD AMY Sbjct: 376 FKVDQHELRVSASVGIAIYPE--DGAT-RHDLVINADAAMY 413 >gi|300311871|ref|YP_003775963.1| EAL domain-containing protein [Herbaspirillum seropedicae SmR1] Length = 1036 Score = 135 bits (339), Expect = 2e-32, Method: Compositional matrix adjust. Identities = 92/291 (31%), Positives = 154/291 (52%), Gaps = 21/291 (7%) Query: 428 AELR--AILENAQDAFIAADEQGRVVEWNRQAELLLGWPRDQAMGRDMAELIIPPDMRAA 485 AELR A+ ++++ + D +++ N+ + G+ ++ +G+ P++ + Sbjct: 472 AELRISAVAFDSREGMLITDANSKILRVNKAFTEITGYSAEEIVGKH-------PNLLRS 524 Query: 486 HNRGMAQF--LKDGTSVVINNRIELQAQHHDGHELPIEITVGHVKRQSGHL--FIAFLHD 541 G A F +++ + E+ + +G P +T+ VK + + +++ HD Sbjct: 525 DRHGPAFFQEMRESIRRFGKWQGEIWDRRKNGEVYPEWLTISAVKNKDQQVTHYVSTHHD 584 Query: 542 ITERLAFRDQMRELALTDVLTSLPNRRAFSDRLPEGMMRARRADQLLALFFMDIDGFKGV 601 I++R +++RELA D LT LPNR DRL + + + R AL F+D+D FK + Sbjct: 585 ISDRKLAEERIRELAFFDALTRLPNRTLLLDRLKQAIALSLRTKTCAALLFIDLDHFKTL 644 Query: 602 NDRYGHEAGDELLVEFARRLQHSVRDVDTVARLAGDEFVVILENL-QTQEDALM----VA 656 ND GHE GD LL + A+RL +VR+ DTVAR+ GDEFVV+LE L + Q++A + Sbjct: 645 NDTIGHEKGDTLLKQVAQRLLANVRENDTVARVGGDEFVVVLEGLNELQQEAATQTRAIG 704 Query: 657 QKILNTIREPFQLTHSTVNISSSIGVAVYQPNLDGEVGPEELLSMADKAMY 707 +KIL + +QL ++SIG V+ L +EL+ AD AMY Sbjct: 705 EKILTALGSTYQLDDVEYRTTASIGATVF---LGRAASVDELMKQADLAMY 752 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 0.320 0.135 0.389 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: 2,155,835 Number of extensions: 92444 Number of successful extensions: 471 Number of sequences better than 1.0e-08: 40 Number of HSP's gapped: 440 Number of HSP's successfully gapped: 40 Length of query: 726 Length of database: 1,619,870 Length adjustment: 92 Effective length of query: 634 Effective length of database: 1,184,250 Effective search space: 750814500 Effective search space used: 750814500 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: 134 (56.2 bits)