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= 0397.0001.p (302 letters) Database: pfamseq 9,421,015 sequences; 3,060,696,203 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value B3K3R9.1 B3K3R9_9BACI Diguanylate cyclase 142 3e-32 B1D9R8.1 B1D9R8_9BACL Diguanylate cyclase/phosphodiesterase 134 9e-30 A8VSW6.1 A8VSW6_9BACI Coenzyme A transferase 119 3e-25 A1ATC4.1 A1ATC4_PELPD Periplasmic sensor diguanylate cyclase/pho... 115 5e-24 B1KUF9.1 B1KUF9_CLOBM Putative diguanylate cyclase 114 9e-24 >B3K3R9.1 B3K3R9_9BACI Diguanylate cyclase Length = 672 Score = 142 bits (359), Expect = 3e-32, Method: Compositional matrix adjust. Identities = 74/158 (46%), Positives = 110/158 (69%), Gaps = 2/158 (1%) Query: 110 YRDSLTGLLNKNGMDHFWDHCKPNEQLAVLFLDLNRFKAINDTLGHHVGDLLLKAVGTTL 169 Y+D++TGL N+N M+ F+ +++ +LFLDL++FKAINDTLGH+VGDLL+ VG L Sbjct: 245 YQDTITGLPNRNEMNRFFRTNAETDKITILFLDLDQFKAINDTLGHNVGDLLVHEVGKRL 304 Query: 170 SQFSSKGKRHIFRIGGDEFVIIAKRCSRKDAEQLALRILEKTTRNYKLEKHELFVSASIG 229 QF G++ +FRIGGDEF++I K+ A++LA IL++ + Y ++ +EL+V+ SIG Sbjct: 305 RQFIRSGQQ-VFRIGGDEFLVILKQSDPNYAQRLADDILQQIKKVYHIDGNELYVTVSIG 363 Query: 230 ITM-SHGRIDRQKLLKEADSAMYNAKQLGSGRYSLHKQ 266 I++ S DR LLK AD+AMY AK LG + L+ + Sbjct: 364 ISIGSVHSSDRTTLLKNADTAMYKAKGLGKNQQCLYDE 401 >B1D9R8.1 B1D9R8_9BACL Diguanylate cyclase/phosphodiesterase Length = 683 Score = 134 bits (338), Expect = 9e-30, Method: Compositional matrix adjust. Identities = 72/160 (45%), Positives = 105/160 (65%), Gaps = 5/160 (3%) Query: 110 YRDSLTGLLNKNGMDHFWDH-CKPNEQLAVLFLDLNRFKAINDTLGHHVGDLLLKAVGTT 168 Y D LTGL N++ M+ ++D +LFLDL++FK INDTLGH +GDLL++AV Sbjct: 251 YSDPLTGLANRHAMNRYFDQKLDKARSYGLLFLDLDQFKIINDTLGHDIGDLLVQAVAKR 310 Query: 169 LSQFSSKGKRHIFRIGGDEFVIIAKRCSRKDAEQLALRILEKTTRNYKLEKHELFVSASI 228 L S+G + FR+GGDEF+++ + + E+LA RILE + Y LE +EL+++ SI Sbjct: 311 LRSHVSEGAQ-TFRLGGDEFLLVTRGMEPSEVEKLANRILEDIRKPYLLEGNELYITGSI 369 Query: 229 GITMS--HGRIDRQKLLKEADSAMYNAKQLGSGRYSLHKQ 266 GI++S HG I+R LL AD+AMY AK+ G +Y L+ + Sbjct: 370 GISLSPQHG-IERSSLLIAADTAMYQAKRRGKNQYCLYDE 408 >A8VSW6.1 A8VSW6_9BACI Coenzyme A transferase Length = 664 Score = 119 bits (299), Expect = 3e-25, Method: Compositional matrix adjust. Identities = 67/158 (42%), Positives = 97/158 (61%), Gaps = 3/158 (1%) Query: 110 YRDSLTGLLNKNGMDHFWDHCKPNEQLAVLFLDLNRFKAINDTLGHHVGDLLLKAVGTTL 169 Y D +TGL N+N M+ + + E L+VLF DL+ FK +NDTLGHH GD LL VG L Sbjct: 246 YYDGVTGLPNRNAMNRYMN-TDGQENLSVLFFDLDAFKTVNDTLGHHQGDRLLHHVGRIL 304 Query: 170 SQFSSKGKRHIFRIGGDEFVIIAKRCSRKDAEQLALRILEKTTRNYKLEKHELFVSASIG 229 F+ R +FRIGGDEF+ K SR + +LA ++L K Y +++ E++V+ASIG Sbjct: 305 RPFTDADIR-VFRIGGDEFLFTIKNRSRGETLELADKLLFKLGHPYLIDQREIYVTASIG 363 Query: 230 ITMS-HGRIDRQKLLKEADSAMYNAKQLGSGRYSLHKQ 266 +++S G + L+EAD AMY AK+ G ++ + Sbjct: 364 VSLSGEGASGGLEKLREADIAMYRAKESGKNTVKVYTK 401 >A1ATC4.1 A1ATC4_PELPD Periplasmic sensor diguanylate cyclase/phosphodiesterase Length = 876 Score = 115 bits (288), Expect = 5e-24, Method: Compositional matrix adjust. Identities = 70/167 (41%), Positives = 101/167 (60%), Gaps = 14/167 (8%) Query: 110 YRDSLTGLLNKNGMDHFWDHCK--------PNEQLAVLFLDLNRFKAINDTLGHHVGDLL 161 + D+LTGL N+ F+D + + LAV++LDL+RFK INDTLGHH GD+L Sbjct: 435 HHDALTGLPNRT---LFFDRLRQGLYKKERSGKMLAVIYLDLDRFKIINDTLGHHTGDML 491 Query: 162 LKAVGTTLSQFSSKGKRHIFRIGGDEF-VIIAKRCSRKDAEQLALRILEKTTRNYKLEKH 220 LK V L K I R+GGDEF +II + + D+ +A +IL + ++LEKH Sbjct: 492 LKEVADRLRGVVRKADT-ISRLGGDEFTIIIDEIATPADSLLVAEKILHVFSAPFRLEKH 550 Query: 221 ELFVSASIGITMSHGRIDR-QKLLKEADSAMYNAKQLGSGRYSLHKQ 266 E+F++AS+G+T+ D +KLLK AD+AMY+AK+ G Y + Sbjct: 551 EMFITASMGVTLYPNDGDTAEKLLKNADTAMYHAKEEGRNTYQFFSE 597 >B1KUF9.1 B1KUF9_CLOBM Putative diguanylate cyclase Length = 862 Score = 114 bits (286), Expect = 9e-24, Method: Compositional matrix adjust. Identities = 69/163 (42%), Positives = 97/163 (59%), Gaps = 7/163 (4%) Query: 110 YRDSLTGLLNKNGMDHFWDHC---KPNEQLAVLFLDLNRFKAINDTLGHHVGDLLLKAVG 166 Y DSLTGL N+ + + NE+ AVLF+DL+ FK+INDTLGH VGD +L+ V Sbjct: 443 YYDSLTGLSNRKKIIETINKTISNYENERFAVLFIDLDHFKSINDTLGHDVGDYVLEKVS 502 Query: 167 TTLSQFSSKGKRHIFRIGGDEFVIIAKRCSRKDAEQLALRILEKTTRNYKLEKHELFVSA 226 S K I R+GGDEF+I+ S DAE+LA +I + K +K +LF+ A Sbjct: 503 ARFKMLLS-PKHKIGRLGGDEFIIVQNITSISDAEKLACKICTTLNHSIKYKKDDLFIGA 561 Query: 227 SIGITM--SHGRIDRQKLLKEADSAMYNAKQLGSGRYSLHKQG 267 SIGI++ G+ D L+K AD+AMY AK+ G +Y ++ + Sbjct: 562 SIGISIYPEDGK-DTSTLMKNADAAMYAAKKNGGYKYEVYSRS 603 Database: pfamseq Posted date: Aug 5, 2010 3:22 PM Number of letters in database: 3,060,696,203 Number of sequences in database: 9,421,015 Lambda K H 0.322 0.136 0.386 Gapped Lambda K H 0.267 0.0410 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 9421015 Number of Hits to DB: 1,326,461,392 Number of extensions: 45165386 Number of successful extensions: 145801 Number of sequences better than 1.0e-05: 12977 Number of HSP's gapped: 128913 Number of HSP's successfully gapped: 12995 Length of query: 302 Length of database: 3,060,696,203 Length adjustment: 135 Effective length of query: 167 Effective length of database: 1,788,859,178 Effective search space: 298739482726 Effective search space used: 298739482726 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)