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= 0010.0173.p (153 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300312318|ref|YP_003776410.1| diguanylate cyclase with PAS/PA... 232 8e-63 gi|300312078|ref|YP_003776170.1| hypothetical protein Hsero_2767... 107 3e-25 gi|300312904|ref|YP_003776996.1| diguanylate cyclase/phosphodies... 106 8e-25 gi|300313424|ref|YP_003777516.1| GGDEF domain-containing protein... 105 2e-24 gi|300311237|ref|YP_003775329.1| GGDEF domain-containing protein... 103 9e-24 >gi|300312318|ref|YP_003776410.1| diguanylate cyclase with PAS/PAC sensor protein [Herbaspirillum seropedicae SmR1] Length = 611 Score = 232 bits (592), Expect = 8e-63, Method: Compositional matrix adjust. Identities = 118/152 (77%), Positives = 133/152 (87%) Query: 1 MQRLQDEYNRLQRGVLDTAAVLMCDLDHFKRINDSLGHAVGDQVLKHFAQVLRSQLRKTD 60 MQRLQ+EY+R+QR V AAVLMCDLDHFKRINDSLGHAVGD VL+HFA VL+SQLR++D Sbjct: 456 MQRLQEEYSRIQRSVTAGAAVLMCDLDHFKRINDSLGHAVGDLVLRHFATVLKSQLRRSD 515 Query: 61 TAGRLGGEEFAVILAGANLHAAAEFAMRLQASFASQPMLHEGREVEVTLSIGIALMQGDC 120 TAGRLGGEEFA+IL GA+ AAA+FA RLQ FA QP++H+ REV+VTLSIG+ALMQ D Sbjct: 516 TAGRLGGEEFAIILTGADQQAAADFAARLQNRFAGQPLIHDEREVKVTLSIGVALMQADS 575 Query: 121 AGQEQVLRASDDALYRAKEKGRNRFEFAPFAC 152 AGQEQVLRASDDALYRAKEKGRNR EFAPF Sbjct: 576 AGQEQVLRASDDALYRAKEKGRNRVEFAPFGS 607 >gi|300312078|ref|YP_003776170.1| hypothetical protein Hsero_2767 [Herbaspirillum seropedicae SmR1] Length = 534 Score = 107 bits (268), Expect = 3e-25, Method: Compositional matrix adjust. Identities = 55/133 (41%), Positives = 75/133 (56%), Gaps = 1/133 (0%) Query: 21 VLMCDLDHFKRINDSLGHAVGDQVLKHFAQVLRSQLRKTDTAGRLGGEEFAVILAGANLH 80 V + DLD FKRIND+ GHA GD+VL H QV+R LRK D R GGEEF V++ Sbjct: 398 VALLDLDDFKRINDTHGHATGDEVLVHMVQVIRETLRKLDVIARFGGEEFLVLMPETAPQ 457 Query: 81 AAAEFAMRLQASFASQPMLHEGREVEVTLSIGIALMQGDCAGQEQVLRASDDALYRAKEK 140 A + R+Q + +HE + + +T S G+A+ Q +L+ +D ALY+AK Sbjct: 458 DAVQIITRVQRELTKRIFMHESQRLLITFSAGVAVYHP-GESQADLLKRADVALYKAKNA 516 Query: 141 GRNRFEFAPFACP 153 G+NR FA P Sbjct: 517 GKNRIVFADPPAP 529 >gi|300312904|ref|YP_003776996.1| diguanylate cyclase/phosphodiesterase with PAS/PAC sensor domains protein [Herbaspirillum seropedicae SmR1] Length = 701 Score = 106 bits (265), Expect = 8e-25, Method: Compositional matrix adjust. Identities = 65/142 (45%), Positives = 87/142 (61%), Gaps = 6/142 (4%) Query: 12 QRGVLDTAAVLMCDLDHFKRINDSLGHAVGDQVLKHFAQVLRSQLRKTDTAGRLGGEEFA 71 Q+G L AV DLD FK INDSLGH VGD++LK AQ L++ LR+ D R GG+EF Sbjct: 293 QKGAL--TAVAFVDLDQFKFINDSLGHQVGDELLKTVAQRLQACLREADMVARQGGDEFV 350 Query: 72 VILAGANLHAA--AEFAMRLQASFASQPMLHEGREVEVTLSIGIALMQGDCAGQEQVLRA 129 ++L A AE R+ A+ A +P RE +VT SIG++ D E +L+ Sbjct: 351 LVLQNQTEGEAGIAEVMQRILAAVA-RPWQAGDREFQVTASIGVSRYPADGKDVESLLKH 409 Query: 130 SDDALYRAKEKGRNRFE-FAPF 150 +D A+YRAKE+GRN F+ FAP+ Sbjct: 410 ADSAMYRAKEQGRNNFQFFAPW 431 >gi|300313424|ref|YP_003777516.1| GGDEF domain-containing protein [Herbaspirillum seropedicae SmR1] Length = 372 Score = 105 bits (261), Expect = 2e-24, Method: Compositional matrix adjust. Identities = 65/157 (41%), Positives = 92/157 (58%), Gaps = 13/157 (8%) Query: 2 QRLQDEYNRLQRGVLDTAAV--LMCDLDHFKRINDSLGHAVGDQVLKHFAQVLRSQLRKT 59 QR+Q+E R QR D +A+ L D+DHFKR+ND GH GD VL+ A ++ +LR + Sbjct: 216 QRMQEEVARSQR---DRSALSCLFIDIDHFKRVNDQFGHQSGDDVLREVAARIKKELRLS 272 Query: 60 DTAGRLGGEEFAVILAGANLHAAAEFAMRLQASFASQPMLHEGR--EVEVTLSIGIALMQ 117 D GR GGEEF V+L A AA A R++A S+ ++ EG +++T SIG A + Sbjct: 273 DALGRFGGEEFVVLLTHATREDAARIAERIRAGVCSRGVMIEGSRDPLKITASIGAAALT 332 Query: 118 GD------CAGQEQVLRASDDALYRAKEKGRNRFEFA 148 ++ +L+A+D ALY+AKE GRNR A Sbjct: 333 PPDRSRPAAEVKQAMLKAADQALYQAKEAGRNRVMLA 369 >gi|300311237|ref|YP_003775329.1| GGDEF domain-containing protein [Herbaspirillum seropedicae SmR1] Length = 585 Score = 103 bits (256), Expect = 9e-24, Method: Compositional matrix adjust. Identities = 57/129 (44%), Positives = 81/129 (62%), Gaps = 2/129 (1%) Query: 20 AVLMCDLDHFKRINDSLGHAVGDQVLKHFAQVLRSQLRKTDTAGRLGGEEFAVILAGANL 79 AV++ D+DHFK+INDS GH GD +L+ AQ + LRK D R GGEEF ++L ++L Sbjct: 446 AVVLFDIDHFKQINDSYGHQAGDAILRGVAQSVSQLLRKVDVLARYGGEEFIILLPESSL 505 Query: 80 HAAAEFAMRLQASFASQPM-LHEGREVEVTLSIGIALMQGDCAGQEQVLRASDDALYRAK 138 AA + +L+A+ A+ + GR + VT S G+A G G E +++ +D ALYRAK Sbjct: 506 LQAAAASEKLRAALAAGEFEIDGGRRIRVTASFGVAAENG-GPGLEHLIKQADIALYRAK 564 Query: 139 EKGRNRFEF 147 + GRNR E Sbjct: 565 KLGRNRVEL 573 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 0.323 0.136 0.390 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: 442,892 Number of extensions: 16408 Number of successful extensions: 140 Number of sequences better than 1.0e-08: 39 Number of HSP's gapped: 93 Number of HSP's successfully gapped: 39 Length of query: 153 Length of database: 1,619,870 Length adjustment: 77 Effective length of query: 76 Effective length of database: 1,255,275 Effective search space: 95400900 Effective search space used: 95400900 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 16 ( 7.5 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 41 (22.0 bits) S2: 126 (53.1 bits)