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= 0001.2774.p (537 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300312078|ref|YP_003776170.1| hypothetical protein Hsero_2767... 972 0.0 gi|300310067|ref|YP_003774159.1| diguanylate cyclase GGDEF famil... 122 8e-29 gi|300311572|ref|YP_003775664.1| transmembrane protein [Herbaspi... 120 4e-28 gi|300313424|ref|YP_003777516.1| GGDEF domain-containing protein... 117 3e-27 gi|300310347|ref|YP_003774439.1| GGDEF domain transmembrane prot... 116 6e-27 >gi|300312078|ref|YP_003776170.1| hypothetical protein Hsero_2767 [Herbaspirillum seropedicae SmR1] Length = 534 Score = 972 bits (2513), Expect = 0.0, Method: Compositional matrix adjust. Identities = 489/530 (92%), Positives = 510/530 (96%), Gaps = 3/530 (0%) Query: 1 MSKKPTTLTPVEIAREAFQRLGARRIAPTPDAYRIAYEEIQGDLPGVSAESVMDNFATRL 60 MSKKP+TLTPVEIAREAFQRLGARRIAPTPDAYRIAYEEIQGD PG SAESV+ FAT+L Sbjct: 1 MSKKPSTLTPVEIAREAFQRLGARRIAPTPDAYRIAYEEIQGDGPGASAESVLAAFATKL 60 Query: 61 SRQPGENGLLGTRLVRARENGDWSSFERQLIEFAEANWQSRPAAPPAPVVPHGELVPIDL 120 SRQPGENGLLGTRLVRAREN DW+ FERQLIEFAE NWQ+RP P V HGELVPIDL Sbjct: 61 SRQPGENGLLGTRLVRARENNDWAEFERQLIEFAEENWQNRPLGPQ---VQHGELVPIDL 117 Query: 121 ERQFIRDSKKEKMLREMLVRVLVFNLPSLLSTAPELANESRNSGQELKMAFSEQSMNDII 180 ER+FIRDSKKEKMLREML RVLVFNLPSLLSTAPELANESRNSGQELK AFSEQ+MN+II Sbjct: 118 EREFIRDSKKEKMLREMLARVLVFNLPSLLSTAPELANESRNSGQELKTAFSEQAMNEII 177 Query: 181 ARVKQLSFQIELKTDDMAQQQELLMRLFQLLLENINGLLEQGSWLSSQIETVQSLIAGPL 240 AR+KQLSFQIELKTDDMAQQQ+LLMRLFQLLLENINGLLEQGSWLSSQIETVQSLIAGPL Sbjct: 178 ARLKQLSFQIELKTDDMAQQQDLLMRLFQLLLENINGLLEQGSWLSSQIETVQSLIAGPL 237 Query: 241 SSTSLADATKNLKEVIYKQGLLKNTLSEEKVVVKNMMLTFVDRLSAMVSTTDNYQRTIRG 300 S+TSLADATKNLKEVIYKQGLLKNTLSEEKVVVKNMMLTFVDRLSAMVSTTDNYQRTIRG Sbjct: 238 STTSLADATKNLKEVIYKQGLLKNTLSEEKVVVKNMMLTFVDRLSAMVSTTDNYQRTIRG 297 Query: 301 FSQQISQAGNIADLNSVLSEIMTETQKAQEEATRSRDAMEDARQEVEKAEDRIHALEQQL 360 FSQQISQAGNIADLNSVLSEIMTETQKAQEEATRSRDAMEDARQEVEKAE+RI LEQQL Sbjct: 298 FSQQISQAGNIADLNSVLSEIMTETQKAQEEATRSRDAMEDARQEVEKAEERIQTLEQQL 357 Query: 361 LQMGELVREDQLTGSLNRRGMDESLDREIANALRRETPLCVALLDLDDFKRINDTHGHAT 420 LQMGELVREDQLTGSLNRRGMDESLDREI NALRR+TPLCVALLDLDDFKRINDTHGHAT Sbjct: 358 LQMGELVREDQLTGSLNRRGMDESLDREITNALRRDTPLCVALLDLDDFKRINDTHGHAT 417 Query: 421 GDEVLVHLVQVIRETLRRLDVIARFGGEEFVVLMPETEPQDAVQIITRVQRELTKRIFMH 480 GDEVLVH+VQVIRETLR+LDVIARFGGEEF+VLMPET PQDAVQIITRVQRELTKRIFMH Sbjct: 418 GDEVLVHMVQVIRETLRKLDVIARFGGEEFLVLMPETAPQDAVQIITRVQRELTKRIFMH 477 Query: 481 ESQRLLITFSAGLALYYPGESQAELLKRADVALYKAKNAGKNRIVFAEPP 530 ESQRLLITFSAG+A+Y+PGESQA+LLKRADVALYKAKNAGKNRIVFA+PP Sbjct: 478 ESQRLLITFSAGVAVYHPGESQADLLKRADVALYKAKNAGKNRIVFADPP 527 >gi|300310067|ref|YP_003774159.1| diguanylate cyclase GGDEF family protein [Herbaspirillum seropedicae SmR1] Length = 369 Score = 122 bits (305), Expect = 8e-29, Method: Compositional matrix adjust. Identities = 72/189 (38%), Positives = 107/189 (56%), Gaps = 5/189 (2%) Query: 351 DRIHALEQQLLQMGELVREDQLTGSLNRRGMDESLDREIANALRRETPLCVALLDLDDFK 410 +R L Q Q+ L D LTG NRR DE+L++E ++R TPL +A +D+D FK Sbjct: 181 ERTRDLAQANEQLRSLSLTDGLTGIANRRSFDETLEQEWRRSMRHGTPLMLAFIDVDWFK 240 Query: 411 RINDTHGHATGDEVLVHLVQVIRETLRRL-DVIARFGGEEFVVLMPETEPQDAVQIITRV 469 ND +GH GD VL + Q +R+++ R+ D +AR+GGEEF ++ +T+ Q ++ R+ Sbjct: 241 PYNDHYGHLAGDAVLRQVAQTLRQSIARVGDTVARYGGEEFAIIAADTDGQAGADMLRRM 300 Query: 470 QRELTKRIFMHESQRL-LITFSAGLALYYPGESQA---ELLKRADVALYKAKNAGKNRIV 525 + H + IT SAG+A PG+ A LL+ AD ALY+AK G+NR+V Sbjct: 301 CDAVHALAIAHAGSAMGRITISAGVASCNPGQPGAGLDGLLQAADAALYRAKMEGRNRVV 360 Query: 526 FAEPPPAAP 534 A +P Sbjct: 361 LATELIVSP 369 >gi|300311572|ref|YP_003775664.1| transmembrane protein [Herbaspirillum seropedicae SmR1] Length = 395 Score = 120 bits (300), Expect = 4e-28, Method: Compositional matrix adjust. Identities = 66/159 (41%), Positives = 94/159 (59%), Gaps = 5/159 (3%) Query: 366 LVREDQLTGSLNRRGMDESLDREIANALRRETPLCVALLDLDDFKRINDTHGHATGDEVL 425 L EDQLTG+LNRR + + +A A+ R++ L +A +D+D FK+IND HGH GD VL Sbjct: 230 LATEDQLTGALNRRELVRCGELLLARAVERKSVLALAFIDVDHFKQINDRHGHLAGDRVL 289 Query: 426 VHLVQVIRETLRRLDVIARFGGEEFVVLMPETEPQDAVQIITRVQRELTKRIFMHESQRL 485 + + ++ R DV+ R+GGEEF + P + A QI R+ + + F H Sbjct: 290 AGIGATLAQSCRPGDVLGRYGGEEFCAVFPGVDHDQACQIGQRLLESVRTQRFEHGHP-- 347 Query: 486 LITFSAGLALYYPGE--SQAELLKRADVALYKAKNAGKN 522 +T S GLA+ PG S EL+ AD+ALY+AKN G+N Sbjct: 348 -VTISVGLAVLQPGNQRSWDELVHEADLALYRAKNEGRN 385 >gi|300313424|ref|YP_003777516.1| GGDEF domain-containing protein [Herbaspirillum seropedicae SmR1] Length = 372 Score = 117 bits (293), Expect = 3e-27, Method: Compositional matrix adjust. Identities = 68/167 (40%), Positives = 96/167 (57%), Gaps = 9/167 (5%) Query: 370 DQLTGSLNRRGMDESLDREIANALRRETPLCVALLDLDDFKRINDTHGHATGDEVLVHLV 429 D LTG NRR +++ + E+A + R + L +D+D FKR+ND GH +GD+VL + Sbjct: 203 DPLTGVNNRRYIEQRMQEEVARSQRDRSALSCLFIDIDHFKRVNDQFGHQSGDDVLREVA 262 Query: 430 QVIRETLRRLDVIARFGGEEFVVLMPETEPQDAVQIITRVQRELTKRIFMHESQR--LLI 487 I++ LR D + RFGGEEFVVL+ +DA +I R++ + R M E R L I Sbjct: 263 ARIKKELRLSDALGRFGGEEFVVLLTHATREDAARIAERIRAGVCSRGVMIEGSRDPLKI 322 Query: 488 TFSAGLALYYP-------GESQAELLKRADVALYKAKNAGKNRIVFA 527 T S G A P E + +LK AD ALY+AK AG+NR++ A Sbjct: 323 TASIGAAALTPPDRSRPAAEVKQAMLKAADQALYQAKEAGRNRVMLA 369 >gi|300310347|ref|YP_003774439.1| GGDEF domain transmembrane protein [Herbaspirillum seropedicae SmR1] Length = 334 Score = 116 bits (290), Expect = 6e-27, Method: Compositional matrix adjust. Identities = 72/179 (40%), Positives = 108/179 (60%), Gaps = 6/179 (3%) Query: 349 AEDRIHALEQQLLQMGELVREDQLTGSLNRRGMDESLDREIANALRRETPLCVALLDLDD 408 AE R+ L ++L L D+LTG NR +DE LD EI A R L + LLD+D Sbjct: 148 AEQRVERLNEKL---ALLAVTDKLTGLANRMKLDEVLDNEINRADRYGKNLSLILLDIDH 204 Query: 409 FKRINDTHGHATGDEVLVHLVQVIRETLRRLDVIARFGGEEFVVLMPETEPQDAVQIITR 468 FK +ND GH+TGD VLV + +++R +R D+ R+GGEEF++++PE + +DA ++ + Sbjct: 205 FKEVNDNFGHSTGDAVLVRIAEILRANVRSSDLAGRWGGEEFLLILPECDMEDAARMAEK 264 Query: 469 VQRELTKRIFMHESQRLLITFSAGLALYYPGESQAELLKRADVALYKAKNAGKNRIVFA 527 ++ + F+ +R T S G+A Y G + LL AD+ALY+AKN G+NR+ A Sbjct: 265 LRLLIENYNFVPVGRR---TCSFGVAAYQAGHDRTTLLTLADLALYRAKNTGRNRVEIA 320 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 0.316 0.131 0.358 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: 1,369,112 Number of extensions: 50905 Number of successful extensions: 294 Number of sequences better than 1.0e-08: 39 Number of HSP's gapped: 239 Number of HSP's successfully gapped: 39 Length of query: 537 Length of database: 1,619,870 Length adjustment: 90 Effective length of query: 447 Effective length of database: 1,193,720 Effective search space: 533592840 Effective search space used: 533592840 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 (21.6 bits) S2: 133 (55.8 bits)