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= 0117.0017.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|300311073|ref|YP_003775165.1| GGDEF family protein [Herbaspir... 259 9e-71 gi|300312318|ref|YP_003776410.1| diguanylate cyclase with PAS/PA... 59 2e-10 gi|300314042|ref|YP_003778134.1| signal transduction protein con... 58 3e-10 gi|300310347|ref|YP_003774439.1| GGDEF domain transmembrane prot... 57 6e-10 gi|300311036|ref|YP_003775128.1| signal transduction protein [He... 56 1e-09 >gi|300311073|ref|YP_003775165.1| GGDEF family protein [Herbaspirillum seropedicae SmR1] Length = 502 Score = 259 bits (661), Expect = 9e-71, Method: Compositional matrix adjust. Identities = 122/143 (85%), Positives = 133/143 (93%) Query: 10 EQLTELWHGNLFHQREVVNYALNGDQLHVHLQFSVFPGHEENWDLVLVSLTDITARKKAE 69 EQL ELW+GNL HQREVVNYALNG+ LHVHLQFSVFPGHEE+WDLVLV+LTDITARKKAE Sbjct: 274 EQLIELWNGNLLHQREVVNYALNGETLHVHLQFSVFPGHEEHWDLVLVALTDITARKKAE 333 Query: 70 AYLEFLGKHDELTKLHNRAFMVDEMNRLERKGPFPVSIIMADLNGLKDVNDQLGHAAGDA 129 AYLEFLGKHDELTKLHNRA+MVDE+NRLERKGPFPVS+I+ADLNGLK VND+LGHAAGDA Sbjct: 334 AYLEFLGKHDELTKLHNRAYMVDELNRLERKGPFPVSVIVADLNGLKQVNDELGHAAGDA 393 Query: 130 LLRRIGEVLGKAADRPIHAARIG 152 LLRR+GEVL KA +RP AR G Sbjct: 394 LLRRVGEVLDKAVERPCSVARTG 416 Score = 54.7 bits (130), Expect = 4e-09, Method: Compositional matrix adjust. Identities = 36/145 (24%), Positives = 68/145 (46%), Gaps = 18/145 (12%) Query: 7 TLCEQLTELWHGNLFHQREVVNYALNGDQLHVHLQFSVFPGHEENWDLVLVSLTDITARK 66 T +++ +LW G VNY L G +L + L + PG EE+W+ VL+++ ++T R+ Sbjct: 111 TFIDEMAQLWEGRSHFSSYTVNYTLGGKRLDIQLSGRIMPGSEESWEYVLLAIENVTERE 170 Query: 67 KAEAYLEFLGKHDELTKLHNRAFMVDEMNRLERKGPFPVSIIMADLNGLKDVNDQLGHAA 126 A +L++ N A + E + P+S+ + D + +K + + L H Sbjct: 171 TARK---------KLSRSENYARGLFEYS--------PISLWVEDFSQVKRLFNDL-HRI 212 Query: 127 GDALLRRIGEVLGKAADRPIHAARI 151 G R +V + +R + R+ Sbjct: 213 GITDFRTFTDVHPEFVERCMQEIRV 237 >gi|300312318|ref|YP_003776410.1| diguanylate cyclase with PAS/PAC sensor protein [Herbaspirillum seropedicae SmR1] Length = 611 Score = 58.5 bits (140), Expect = 2e-10, Method: Compositional matrix adjust. Identities = 45/147 (30%), Positives = 65/147 (44%), Gaps = 19/147 (12%) Query: 25 EVVNYALNGDQLHVHLQFSVFP-GHEENW--------------DLVLVSLTDITARKKAE 69 E A+ G H L+F V P G W L ++DI+ K E Sbjct: 375 EAAREAVLGGAAHWTLEFRVLPPGQGVRWLRGQSRPRRLDDGTTLWHGFISDISQSKAIE 434 Query: 70 AYLEFLGKHDELTKLHNRAFMV----DEMNRLERKGPFPVSIIMADLNGLKDVNDQLGHA 125 L+ D LT+L NR + + +E +R++R +++M DL+ K +ND LGHA Sbjct: 435 LELQEFALTDYLTQLPNRRYFMQRLQEEYSRIQRSVTAGAAVLMCDLDHFKRINDSLGHA 494 Query: 126 AGDALLRRIGEVLGKAADRPIHAARIG 152 GD +LR VL R A R+G Sbjct: 495 VGDLVLRHFATVLKSQLRRSDTAGRLG 521 >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 = 58.2 bits (139), Expect = 3e-10, Method: Compositional matrix adjust. Identities = 43/130 (33%), Positives = 66/130 (50%), Gaps = 7/130 (5%) Query: 28 NYALNGDQLHVHLQFSVFPGHEENWDLV--LVSLTDITARKKAEAYLEFLGKHDELTKLH 85 NY +G +L F + P +E+ ++ + +L DIT+ K+ EA LEF D LT L Sbjct: 471 NYHKDGSELWN--DFYIAPVRDESGEVTHFVAALYDITSMKRYEAELEFQASRDTLTGLI 528 Query: 86 NRAFM---VDEMNRLERKGPFPVSIIMADLNGLKDVNDQLGHAAGDALLRRIGEVLGKAA 142 NR + +++ + + + ++ DL+ K VND LGH AGD LLR + L A Sbjct: 529 NRHMLRHHLEQAIGVAERQKQALWVVFVDLDRFKFVNDTLGHKAGDTLLRTVAGRLRAAV 588 Query: 143 DRPIHAARIG 152 AR+G Sbjct: 589 READTVARLG 598 >gi|300310347|ref|YP_003774439.1| GGDEF domain transmembrane protein [Herbaspirillum seropedicae SmR1] Length = 334 Score = 57.4 bits (137), Expect = 6e-10, Method: Compositional matrix adjust. Identities = 38/97 (39%), Positives = 56/97 (57%), Gaps = 12/97 (12%) Query: 53 DLVLVSLTDITARKKAEAYLEFLGKH-------DELTKLHNRA----FMVDEMNRLERKG 101 D ++S IT RK AE +E L + D+LT L NR + +E+NR +R G Sbjct: 133 DFFVISHVVITGRKLAEQRVERLNEKLALLAVTDKLTGLANRMKLDEVLDNEINRADRYG 192 Query: 102 PFPVSIIMADLNGLKDVNDQLGHAAGDALLRRIGEVL 138 +S+I+ D++ K+VND GH+ GDA+L RI E+L Sbjct: 193 K-NLSLILLDIDHFKEVNDNFGHSTGDAVLVRIAEIL 228 >gi|300311036|ref|YP_003775128.1| signal transduction protein [Herbaspirillum seropedicae SmR1] Length = 750 Score = 56.2 bits (134), Expect = 1e-09, Method: Compositional matrix adjust. Identities = 29/74 (39%), Positives = 43/74 (58%), Gaps = 3/74 (4%) Query: 61 DITARKKAEAYLEFLGKHDELTKLHNRAFMVDEMNR---LERKGPFPVSIIMADLNGLKD 117 D+T RK+ E L +D L+ L NR + D + R +K +P++++ DL+ KD Sbjct: 298 DVTRRKEVEFKLRHQANYDPLSGLPNRRLLGDMLQREVASAKKHAYPLAVVFIDLDRFKD 357 Query: 118 VNDQLGHAAGDALL 131 VND LGH+ GD LL Sbjct: 358 VNDSLGHSVGDQLL 371 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 0.321 0.139 0.418 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: 492,272 Number of extensions: 18371 Number of successful extensions: 102 Number of sequences better than 1.0e-08: 7 Number of HSP's gapped: 113 Number of HSP's successfully gapped: 8 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 ( 7.4 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 41 (21.9 bits) S2: 126 (53.1 bits)