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= 0001.1171.p (141 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300312843|ref|YP_003776935.1| response regulator containing a... 109 7e-26 gi|300310865|ref|YP_003774957.1| response regulator containing a... 103 7e-24 gi|300312320|ref|YP_003776412.1| response regulator protein [Her... 99 1e-22 gi|300313329|ref|YP_003777421.1| transmembrane protein [Herbaspi... 95 2e-21 gi|300310067|ref|YP_003774159.1| diguanylate cyclase GGDEF famil... 95 3e-21 >gi|300312843|ref|YP_003776935.1| response regulator containing a CheY-like receiver and a GGDEF domains protein [Herbaspirillum seropedicae SmR1] Length = 525 Score = 109 bits (273), Expect = 7e-26, Method: Compositional matrix adjust. Identities = 52/105 (49%), Positives = 74/105 (70%) Query: 3 NLINLMKLALQHASRSESALSLVMFDVDFFKKYNDLYGHIQGDYCPQDIARTVRSAQRCH 62 +L +++ + A RS +AL+L+M DVDFFK+YNDLYGH GD C + +A ++ QR Sbjct: 360 HLDTMLETEFKRAERSGAALALIMIDVDFFKQYNDLYGHQAGDECLRRVAGVLKERQRRP 419 Query: 63 GDLAARYGGEEFVLLLPDTDLAGAHRLAQKVVDDVRALKIPYEGN 107 GDLAARYGGEE +LLP TD GA +A+K+ ++AL++P+ GN Sbjct: 420 GDLAARYGGEEMAMLLPGTDAEGACAVAEKLRAGIQALELPHRGN 464 >gi|300310865|ref|YP_003774957.1| response regulator containing a CheY-like receiver domain and a GGDEF domain transmembrane protein [Herbaspirillum seropedicae SmR1] Length = 554 Score = 103 bits (256), Expect = 7e-24, Method: Compositional matrix adjust. Identities = 50/105 (47%), Positives = 69/105 (65%) Query: 16 SRSESALSLVMFDVDFFKKYNDLYGHIQGDYCPQDIARTVRSAQRCHGDLAARYGGEEFV 75 +R+ +LSL+M DVD FK++ND YGH GD C + +A + + R GD+ ARYGGEEF Sbjct: 379 NRTGESLSLMMIDVDHFKQFNDTYGHAAGDVCLRQVAAAISTVARRQGDIVARYGGEEFA 438 Query: 76 LLLPDTDLAGAHRLAQKVVDDVRALKIPYEGNAAGVVTLSARVAS 120 ++LP+ A LA +VV VR L+I +E + GVVT+S VAS Sbjct: 439 VILPNCHPGSAQGLAHRVVQAVRGLEIAHERSPMGVVTISVGVAS 483 >gi|300312320|ref|YP_003776412.1| response regulator protein [Herbaspirillum seropedicae SmR1] Length = 341 Score = 99.0 bits (245), Expect = 1e-22, Method: Compositional matrix adjust. Identities = 50/113 (44%), Positives = 76/113 (67%), Gaps = 1/113 (0%) Query: 13 QHASRSESALSLVMFDVDFFKKYNDLYGHIQGDYCPQDIARTVRSAQRCHGDLAARYGGE 72 + A R L+L++ DVDFFK YND YGH+ GD + +A + S+ + DL+AR+GGE Sbjct: 197 RRARRDGLDLALLLIDVDFFKLYNDNYGHVAGDAVLRQVAEALDSSIQRPADLSARFGGE 256 Query: 73 EFVLLLPDTDLAGAHRLAQKVVDDVRALKIPYEGNA-AGVVTLSARVASCVPR 124 EF ++LP T L GAH +AQKV V +L++P+EG++ + +T+S A+ VP+ Sbjct: 257 EFAMILPRTGLDGAHAIAQKVCHLVESLQVPHEGSSVSAWLTVSVGAATLVPQ 309 >gi|300313329|ref|YP_003777421.1| transmembrane protein [Herbaspirillum seropedicae SmR1] Length = 501 Score = 95.1 bits (235), Expect = 2e-21, Method: Compositional matrix adjust. Identities = 49/109 (44%), Positives = 69/109 (63%), Gaps = 1/109 (0%) Query: 13 QHASRSESA-LSLVMFDVDFFKKYNDLYGHIQGDYCPQDIARTVRSAQRCHGDLAARYGG 71 Q + RS +A S + DVD+FK+YND YGH GD Q +A +R + DLA RYGG Sbjct: 350 QRSQRSPTAGFSTLFIDVDYFKRYNDTYGHEMGDTVLQAVAAVLREHLQRQNDLAGRYGG 409 Query: 72 EEFVLLLPDTDLAGAHRLAQKVVDDVRALKIPYEGNAAGVVTLSARVAS 120 EEFV+LL TD GA R+AQ++ + + IP+ G+ GV+++S VA+ Sbjct: 410 EEFVVLLEQTDEHGALRMAQQLCEAIYNRGIPHSGSPLGVISVSIGVAT 458 >gi|300310067|ref|YP_003774159.1| diguanylate cyclase GGDEF family protein [Herbaspirillum seropedicae SmR1] Length = 369 Score = 94.7 bits (234), Expect = 3e-21, Method: Compositional matrix adjust. Identities = 48/107 (44%), Positives = 66/107 (61%) Query: 17 RSESALSLVMFDVDFFKKYNDLYGHIQGDYCPQDIARTVRSAQRCHGDLAARYGGEEFVL 76 R + L L DVD+FK YND YGH+ GD + +A+T+R + GD ARYGGEEF + Sbjct: 224 RHGTPLMLAFIDVDWFKPYNDHYGHLAGDAVLRQVAQTLRQSIARVGDTVARYGGEEFAI 283 Query: 77 LLPDTDLAGAHRLAQKVVDDVRALKIPYEGNAAGVVTLSARVASCVP 123 + DTD + +++ D V AL I + G+A G +T+SA VASC P Sbjct: 284 IAADTDGQAGADMLRRMCDAVHALAIAHAGSAMGRITISAGVASCNP 330 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 0.135 0.398 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: 413,609 Number of extensions: 15284 Number of successful extensions: 111 Number of sequences better than 1.0e-08: 26 Number of HSP's gapped: 106 Number of HSP's successfully gapped: 26 Length of query: 141 Length of database: 1,619,870 Length adjustment: 76 Effective length of query: 65 Effective length of database: 1,260,010 Effective search space: 81900650 Effective search space used: 81900650 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: 126 (53.1 bits)