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= 0014.0007.p (394 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300309962|ref|YP_003774054.1| response regulator [Herbaspiril... 687 0.0 gi|300312012|ref|YP_003776104.1| phosphodiesterase transmembrane... 192 6e-50 gi|300314042|ref|YP_003778134.1| signal transduction protein con... 177 2e-45 gi|300310170|ref|YP_003774262.1| diguanylate cyclase/phosphodies... 175 5e-45 gi|300311038|ref|YP_003775130.1| hypothetical protein Hsero_1709... 171 7e-44 >gi|300309962|ref|YP_003774054.1| response regulator [Herbaspirillum seropedicae SmR1] Length = 420 Score = 687 bits (1772), Expect = 0.0, Method: Compositional matrix adjust. Identities = 350/394 (88%), Positives = 367/394 (93%) Query: 1 VSLLQDLGVDLIYEAGNGNEALDLLALLKLPPGLAVIDLEMPGMDGIELIQQLQQKGIDI 60 V LLQ LG DLIYEAGNGNEALDLL LLKLPP L V+DLEMPGMDGIELIQQLQQKGID+ Sbjct: 27 VQLLQQLGADLIYEAGNGNEALDLLGLLKLPPSLMVVDLEMPGMDGIELIQQLQQKGIDV 86 Query: 61 PLIVASSRETSLLLSVETMIQALGMNLIGVLQKPLNQGQLRTALQSFRPRGGGAHADDDP 120 PLIVASSRETSLLLSVETMI ALGMNLIGVLQKPLNQ QLR AL+SFRP G D DP Sbjct: 87 PLIVASSRETSLLLSVETMIHALGMNLIGVLQKPLNQHQLRAALESFRPHGTEHQPDHDP 146 Query: 121 QPSMCESDLGTAIGGGQVLPYFQPKVDVQTGILKGVEALARWVHPERGMIPPDRFIPLAE 180 QPSMCE DLG AI GGQVLPYFQPKVDVQTGILKGVEALARW+HPERGM+ PDRFIPLAE Sbjct: 147 QPSMCEHDLGAAIEGGQVLPYFQPKVDVQTGILKGVEALARWIHPERGMVSPDRFIPLAE 206 Query: 181 QCGLIHDLTISMMDQSMAQAAVWHSRGLAIKVAVNLSPLSLEQPDFLHRILELVDKHALP 240 QCGLIH LT++MMDQ+M QAA+WHSRGLAIKVAVNLSPL LE+PDFLHRILELVDKHALP Sbjct: 207 QCGLIHPLTLAMMDQAMGQAAIWHSRGLAIKVAVNLSPLLLEKPDFLHRILELVDKHALP 266 Query: 241 AENVVLEITESSVVAHKGNSLGMLARLRLKGFGLSIDDYGTGFSSMQQLARIPFTELKID 300 AE+VVLEITESSVVAHKGNSLGMLARLRLKGFGLSIDDYGTGFSSMQQLARIPFTELKID Sbjct: 267 AEHVVLEITESSVVAHKGNSLGMLARLRLKGFGLSIDDYGTGFSSMQQLARIPFTELKID 326 Query: 301 RSFVHGAHDRKNLRVILQSALDMAQRLELVTVAEGVETMEDWRLLQDFGCSLGQGYLIGK 360 RSFVHGAHDRKNLRVILQSALDMAQRLELVTVAEGVETMEDWRLLQDFGCSLGQGYLIGK Sbjct: 327 RSFVHGAHDRKNLRVILQSALDMAQRLELVTVAEGVETMEDWRLLQDFGCSLGQGYLIGK 386 Query: 361 PMPANELPLWLKGHHRRLGELRPLGKGAATGGSV 394 PMPA+ELPLWLKGHHRRL ELRP+ +G A+G ++ Sbjct: 387 PMPAHELPLWLKGHHRRLHELRPVARGTASGSAL 420 >gi|300312012|ref|YP_003776104.1| phosphodiesterase transmembrane protein [Herbaspirillum seropedicae SmR1] Length = 797 Score = 192 bits (487), Expect = 6e-50, Method: Compositional matrix adjust. Identities = 98/234 (41%), Positives = 137/234 (58%) Query: 137 QVLPYFQPKVDVQTGILKGVEALARWVHPERGMIPPDRFIPLAEQCGLIHDLTISMMDQS 196 + + Y QPK+++ +G + G EAL RW+HPE+G I PD FIP AE G I LT+ MM+Q Sbjct: 546 EFMLYLQPKLELCSGQVVGAEALVRWIHPEKGFIGPDNFIPFAETTGFIRMLTLWMMEQV 605 Query: 197 MAQAAVWHSRGLAIKVAVNLSPLSLEQPDFLHRILELVDKHALPAENVVLEITESSVVAH 256 + +G+ +K +VNLS L + ++ +H L + LEITES+++ Sbjct: 606 ARLSEQLQQQGVQLKFSVNLSTRDLLDQELPTAFAAILQRHRLQPAALCLEITESAIMDD 665 Query: 257 KGNSLGMLARLRLKGFGLSIDDYGTGFSSMQQLARIPFTELKIDRSFVHGAHDRKNLRVI 316 + L RL GF LSIDD+GTG+SS+ L R+P ELKID+SFV ++ I Sbjct: 666 PARAQNTLERLSNMGFALSIDDFGTGYSSLAYLKRLPVDELKIDKSFVMKMAQDQDDAKI 725 Query: 317 LQSALDMAQRLELVTVAEGVETMEDWRLLQDFGCSLGQGYLIGKPMPANELPLW 370 ++S +D+ L L VAEGVE+ E W LL+ GC GQGY +GKPMP W Sbjct: 726 VRSTVDLGHNLGLRVVAEGVESEEVWFLLRQMGCDQGQGYFMGKPMPVQHFLAW 779 >gi|300314042|ref|YP_003778134.1| signal transduction protein containing a membrane domain, an EAL and a GGDEF domain-containing protein [Herbaspirillum seropedicae SmR1] Length = 948 Score = 177 bits (448), Expect = 2e-45, Method: Compositional matrix adjust. Identities = 102/248 (41%), Positives = 147/248 (59%), Gaps = 1/248 (0%) Query: 126 ESDLGTAIGGGQVLPYFQPKVDVQTGILKGVEALARWVHPERGMIPPDRFIPLAEQCGLI 185 E DL A+ G+ L ++QPKVD+ +G + G EAL RW HP+ GM+ P RFI LAE+ GLI Sbjct: 695 EGDLRNALDHGEFLLHYQPKVDLASGRVIGSEALIRWQHPQLGMVSPARFIGLAEETGLI 754 Query: 186 HDLTISMMDQSMAQAAVWHSRGLA-IKVAVNLSPLSLEQPDFLHRILELVDKHALPAENV 244 + ++ + Q W G A I V+VNLS Q D + I ++++ LP E++ Sbjct: 755 LPIGAWVLRAACTQCRQWQLGGYADISVSVNLSVGQFLQKDLVSSIADVLEDTGLPPESL 814 Query: 245 VLEITESSVVAHKGNSLGMLARLRLKGFGLSIDDYGTGFSSMQQLARIPFTELKIDRSFV 304 LE+TES ++ +++G+LA L+ G LSIDD+GTG+SS+ L R P LKIDRSFV Sbjct: 815 ELELTESLMMTDVEHAIGILAGLKKLGVRLSIDDFGTGYSSLAYLKRFPIDVLKIDRSFV 874 Query: 305 HGAHDRKNLRVILQSALDMAQRLELVTVAEGVETMEDWRLLQDFGCSLGQGYLIGKPMPA 364 + I S + +A+ L+L +AEGVET E L+ +GC QGYL P+PA Sbjct: 875 RDITIDADDAAITASIISLARHLKLRVIAEGVETDEQLDYLRHYGCDEIQGYLFSPPVPA 934 Query: 365 NELPLWLK 372 ++ L+ Sbjct: 935 DKFEQILR 942 >gi|300310170|ref|YP_003774262.1| diguanylate cyclase/phosphodiesterase A protein [Herbaspirillum seropedicae SmR1] Length = 1002 Score = 175 bits (444), Expect = 5e-45, Method: Compositional matrix adjust. Identities = 99/270 (36%), Positives = 154/270 (57%), Gaps = 4/270 (1%) Query: 126 ESDLGTAIGGGQVLPYFQPKVDVQTGILKGVEALARWVHPERGMIPPDRFIPLAEQCGLI 185 ES L A+ GG + FQP++ + L GVEALARW HP+ G I P RFIP+AE+CGLI Sbjct: 733 ESALRDALRGGDLELNFQPQIKLHDQSLHGVEALARWHHPQLGQISPGRFIPIAEECGLI 792 Query: 186 HDLTISMMDQSMAQAAVWHSRGLAI-KVAVNLSPLSLEQPDFLHRILELVDKHALPAENV 244 +L ++++ Q + W RG+ + ++VNLS + D + L+ ++AL ++ Sbjct: 793 GELGKWALEEACFQLSDWRRRGIQVPSISVNLSATNFHDLDLPQFVTGLLRRYALEPSDL 852 Query: 245 VLEITESSVVAHKGNSLGMLARLRLKGFGLSIDDYGTGFSSMQQLARIPFTELKIDRSFV 304 LEITE+ ++ ++ +A + G L++DD+GTG+SS+ L ++P +ELK+D+SFV Sbjct: 853 TLEITETVLMDTNPSTSQTIAAVHALGIPLAMDDFGTGYSSLGYLRKLPVSELKLDQSFV 912 Query: 305 HGAHDRKNLRVILQSALDMAQRLELVTVAEGVETMEDWRLLQDFGCSLGQGYLIGKPMPA 364 + + + + + + L+L VAEGVE E + LL GC + QGYL +PM A Sbjct: 913 RDMAKDPAVSALTNAVIRIGESLKLTVVAEGVEDAEQYALLISQGCDVAQGYLFSRPMSA 972 Query: 365 NELPLWLKGHH---RRLGELRPLGKGAATG 391 + L W++ H G P K AA G Sbjct: 973 DALENWVRDLHAGGSPDGRWAPPCKSAAPG 1002 >gi|300311038|ref|YP_003775130.1| hypothetical protein Hsero_1709 [Herbaspirillum seropedicae SmR1] Length = 598 Score = 171 bits (434), Expect = 7e-44, Method: Compositional matrix adjust. Identities = 93/232 (40%), Positives = 130/232 (56%) Query: 141 YFQPKVDVQTGILKGVEALARWVHPERGMIPPDRFIPLAEQCGLIHDLTISMMDQSMAQA 200 +FQPKV ++ G GVEAL RW HP G IPPD FIPLAE+ G I +T ++ Q +AQ Sbjct: 364 HFQPKVRLRDGACVGVEALIRWHHPIHGNIPPDVFIPLAEKTGQIRQVTAWVLRQVVAQV 423 Query: 201 AVWHSRGLAIKVAVNLSPLSLEQPDFLHRILELVDKHALPAENVVLEITESSVVAHKGNS 260 A W G A+ VA N S + + + + + H +P + +E TE ++ H Sbjct: 424 ARWLKSGRALPVAFNASARDFDSDELRELLAQQLKLHKVPPALIEIEFTEHAMANHPQQV 483 Query: 261 LGMLARLRLKGFGLSIDDYGTGFSSMQQLARIPFTELKIDRSFVHGAHDRKNLRVILQSA 320 + LR G ++IDD+G GFS++ L IP +KIDRSF+H D + ++I+ S Sbjct: 484 RQRVQALRELGVKVAIDDFGAGFSNLSYLKNIPADTMKIDRSFIHRLLDDEADQLIVPSI 543 Query: 321 LDMAQRLELVTVAEGVETMEDWRLLQDFGCSLGQGYLIGKPMPANELPLWLK 372 L +A L VAEG+E+ LL+ GC GQGY I +PMP EL WL+ Sbjct: 544 LHLAHNLGFSVVAEGLESERTATLLRHLGCDYGQGYAIARPMPLAELEAWLE 595 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 0.139 0.406 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: 1,286,542 Number of extensions: 56295 Number of successful extensions: 241 Number of sequences better than 1.0e-08: 18 Number of HSP's gapped: 228 Number of HSP's successfully gapped: 18 Length of query: 394 Length of database: 1,619,870 Length adjustment: 87 Effective length of query: 307 Effective length of database: 1,207,925 Effective search space: 370832975 Effective search space used: 370832975 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: 131 (55.1 bits)