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= 0031.0143.p (372 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300313424|ref|YP_003777516.1| GGDEF domain-containing protein... 743 0.0 gi|300312318|ref|YP_003776410.1| diguanylate cyclase with PAS/PA... 125 4e-30 gi|300313329|ref|YP_003777421.1| transmembrane protein [Herbaspi... 125 7e-30 gi|300311237|ref|YP_003775329.1| GGDEF domain-containing protein... 123 2e-29 gi|300310067|ref|YP_003774159.1| diguanylate cyclase GGDEF famil... 119 4e-28 >gi|300313424|ref|YP_003777516.1| GGDEF domain-containing protein [Herbaspirillum seropedicae SmR1] Length = 372 Score = 743 bits (1918), Expect = 0.0, Method: Compositional matrix adjust. Identities = 369/372 (99%), Positives = 369/372 (99%) Query: 1 MRSAIDSEALIADNEQLRAELQDLLQQAHINQSIIERHQAFDLKLIGASEFRELIEVMLT 60 MRSAIDSEALIADNEQLRAELQDLLQQAHINQSIIERHQAFDLKLIGASEFRELIEVMLT Sbjct: 1 MRSAIDSEALIADNEQLRAELQDLLQQAHINQSIIERHQAFDLKLIGASEFRELIEVMLT 60 Query: 61 VMPGVFSLETVTLSLIDGDYAIQRILRDLQIGINEFPKLLFLKQALAFPDDDLTRADEKP 120 VMPGVFSLETVTLSLIDGDYAIQRILRDLQIGINEFPKLLFLKQALAFPDDDLTRADEKP Sbjct: 61 VMPGVFSLETVTLSLIDGDYAIQRILRDLQIGINEFPKLLFLKQALAFPDDDLTRADEKP 120 Query: 121 RLGPYVAALHGPLFPHYEPVSVAVLPLVRQHRLLGYLALGSAYGERFTRSLATDFIERLA 180 RLGPYVAALHGPLFPHYEPVSVAVLPLVRQHRLLGYLALGSAYGERFTRSLATDFIERLA Sbjct: 121 RLGPYVAALHGPLFPHYEPVSVAVLPLVRQHRLLGYLALGSAYGERFTRSLATDFIERLA 180 Query: 181 TIAAVCLENVINNERLKHIGLTDPLTGVNNRRYIEQRMQEEVARSQRDRSALSCLFIDID 240 TIAAVCLENVINNERLKHIGLTDPLTGVNNRRYIEQRMQEEVARSQRDRSALSCLFIDID Sbjct: 181 TIAAVCLENVINNERLKHIGLTDPLTGVNNRRYIEQRMQEEVARSQRDRSALSCLFIDID 240 Query: 241 HFKRVNDQFGHQSGDDVLREVAARIKKELRLSDALGRFGGEEFVVLLTHATREDAARKRE 300 HFKRVNDQFGHQSGDDVLREVAARIKKELRLSDALGRFGGEEFVVLLTHATREDAAR E Sbjct: 241 HFKRVNDQFGHQSGDDVLREVAARIKKELRLSDALGRFGGEEFVVLLTHATREDAARIAE 300 Query: 301 RIRAGVCSRGVMIEGSRDPLKITASIGAAALTPPDRSRPAVEVKQAMLKAADQALYQAKE 360 RIRAGVCSRGVMIEGSRDPLKITASIGAAALTPPDRSRPA EVKQAMLKAADQALYQAKE Sbjct: 301 RIRAGVCSRGVMIEGSRDPLKITASIGAAALTPPDRSRPAAEVKQAMLKAADQALYQAKE 360 Query: 361 AGRNRVMLAAGD 372 AGRNRVMLAAGD Sbjct: 361 AGRNRVMLAAGD 372 >gi|300312318|ref|YP_003776410.1| diguanylate cyclase with PAS/PAC sensor protein [Herbaspirillum seropedicae SmR1] Length = 611 Score = 125 bits (315), Expect = 4e-30, Method: Compositional matrix adjust. Identities = 96/254 (37%), Positives = 131/254 (51%), Gaps = 29/254 (11%) Query: 129 LHGPLFPHYEPVSVAVLPLVRQHRLLGYLALGSAYGERFTR------------SLATDFI 176 +H P YE AVL H L + L G R+ R +L FI Sbjct: 366 IHPDDMPLYEAAREAVLGGA-AHWTLEFRVLPPGQGVRWLRGQSRPRRLDDGTTLWHGFI 424 Query: 177 ERLATIAAVCLENVINNERLKHIGLTDPLTGVNNRRYIEQRMQEEVARSQRDRSA-LSCL 235 ++ A+ LE L+ LTD LT + NRRY QR+QEE +R QR +A + L Sbjct: 425 SDISQSKAIELE-------LQEFALTDYLTQLPNRRYFMQRLQEEYSRIQRSVTAGAAVL 477 Query: 236 FIDIDHFKRVNDQFGHQSGDDVLREVAARIKKELRLSDALGRFGGEEFVVLLTHATREDA 295 D+DHFKR+ND GH GD VLR A +K +LR SD GR GGEEF ++LT A ++ A Sbjct: 478 MCDLDHFKRINDSLGHAVGDLVLRHFATVLKSQLRRSDTAGRLGGEEFAIILTGADQQAA 537 Query: 296 ARKRERIRAGVCSRGVMIEGSRDPLKITASIGAAALTPPDRSRPAVEVKQAMLKAADQAL 355 A R++ + +I R+ +K+T SIG A + ++ +L+A+D AL Sbjct: 538 ADFAARLQNRFAGQ-PLIHDERE-VKVTLSIGVALMQADSAG------QEQVLRASDDAL 589 Query: 356 YQAKEAGRNRVMLA 369 Y+AKE GRNRV A Sbjct: 590 YRAKEKGRNRVEFA 603 >gi|300313329|ref|YP_003777421.1| transmembrane protein [Herbaspirillum seropedicae SmR1] Length = 501 Score = 125 bits (313), Expect = 7e-30, Method: Compositional matrix adjust. Identities = 79/186 (42%), Positives = 111/186 (59%), Gaps = 10/186 (5%) Query: 187 LENVINNERLKHIGLTDPLTGVNNRRYIEQRMQEEVARSQRDRSA-LSCLFIDIDHFKRV 245 L+ V ++L+ + TD LTG+ NRR +++ + RSQR +A S LFID+D+FKR Sbjct: 314 LKRVAAEKQLEDLARTDGLTGLLNRRSLDEALLAVWQRSQRSPTAGFSTLFIDVDYFKRY 373 Query: 246 NDQFGHQSGDDVLREVAARIKKEL-RLSDALGRFGGEEFVVLLTHATREDAARKRERIRA 304 ND +GH+ GD VL+ VAA +++ L R +D GR+GGEEFVVLL A R +++ Sbjct: 374 NDTYGHEMGDTVLQAVAAVLREHLQRQNDLAGRYGGEEFVVLLEQTDEHGALRMAQQLCE 433 Query: 305 GVCSRGVMIEGSRDPLK-ITASIGAAALTPPDRSRPAVEVKQAMLKAADQALYQAKEAGR 363 + +RG+ GS PL I+ SIG A + R + +L AAD ALY AK GR Sbjct: 434 AIYNRGIPHSGS--PLGVISVSIGVATMNRAPHQR-----MEDVLNAADHALYIAKREGR 486 Query: 364 NRVMLA 369 NRV +A Sbjct: 487 NRVCVA 492 >gi|300311237|ref|YP_003775329.1| GGDEF domain-containing protein [Herbaspirillum seropedicae SmR1] Length = 585 Score = 123 bits (309), Expect = 2e-29, Method: Compositional matrix adjust. Identities = 71/167 (42%), Positives = 104/167 (62%), Gaps = 8/167 (4%) Query: 202 TDPLTGVNNRRYIEQRMQEEVARSQRDRSALSCLFIDIDHFKRVNDQFGHQSGDDVLREV 261 TD LTGV NRR Q+++ ++R L+ + DIDHFK++ND +GHQ+GD +LR V Sbjct: 415 TDFLTGVLNRRAFFTHGQQQMTVAKRYGRELAVVLFDIDHFKQINDSYGHQAGDAILRGV 474 Query: 262 AARIKKELRLSDALGRFGGEEFVVLLTHATREDAARKRERIRAGVCSRGVMIEGSRDPLK 321 A + + LR D L R+GGEEF++LL ++ AA E++RA + + I+G R ++ Sbjct: 475 AQSVSQLLRKVDVLARYGGEEFIILLPESSLLQAAAASEKLRAALAAGEFEIDGGRR-IR 533 Query: 322 ITASIGAAALTPPDRSRPAVEVKQAMLKAADQALYQAKEAGRNRVML 368 +TAS G AA + P +E ++K AD ALY+AK+ GRNRV L Sbjct: 534 VTASFGVAA----ENGGPGLE---HLIKQADIALYRAKKLGRNRVEL 573 >gi|300310067|ref|YP_003774159.1| diguanylate cyclase GGDEF family protein [Herbaspirillum seropedicae SmR1] Length = 369 Score = 119 bits (298), Expect = 4e-28, Method: Compositional matrix adjust. Identities = 70/178 (39%), Positives = 105/178 (58%), Gaps = 6/178 (3%) Query: 193 NERLKHIGLTDPLTGVNNRRYIEQRMQEEVARSQRDRSALSCLFIDIDHFKRVNDQFGHQ 252 NE+L+ + LTD LTG+ NRR ++ +++E RS R + L FID+D FK ND +GH Sbjct: 190 NEQLRSLSLTDGLTGIANRRSFDETLEQEWRRSMRHGTPLMLAFIDVDWFKPYNDHYGHL 249 Query: 253 SGDDVLREVAARIKKEL-RLSDALGRFGGEEFVVLLTHATREDAARKRERIRAGVCSRGV 311 +GD VLR+VA +++ + R+ D + R+GGEEF ++ + A R+ V + + Sbjct: 250 AGDAVLRQVAQTLRQSIARVGDTVARYGGEEFAIIAADTDGQAGADMLRRMCDAVHALAI 309 Query: 312 MIEGSRDPLKITASIGAAALTPPDRSRPAVEVKQAMLKAADQALYQAKEAGRNRVMLA 369 GS +IT S G A+ P +P + +L+AAD ALY+AK GRNRV+LA Sbjct: 310 AHAGSAMG-RITISAGVASCNP---GQPGAGL-DGLLQAADAALYRAKMEGRNRVVLA 362 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 0.322 0.137 0.384 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: 1,068,679 Number of extensions: 42878 Number of successful extensions: 221 Number of sequences better than 1.0e-08: 39 Number of HSP's gapped: 174 Number of HSP's successfully gapped: 39 Length of query: 372 Length of database: 1,619,870 Length adjustment: 87 Effective length of query: 285 Effective length of database: 1,207,925 Effective search space: 344258625 Effective search space used: 344258625 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: 131 (55.1 bits)