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= 0001.3398.p (310 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300313811|ref|YP_003777903.1| 3-hydroxyacyl-CoA dehydrogenase... 153 2e-38 gi|300313418|ref|YP_003777510.1| 3-hydroxyacyl-CoA dehydrogenase... 81 9e-17 gi|300309597|ref|YP_003773689.1| 3-hydroxyacyl-CoA dehydrogenase... 56 4e-09 >gi|300313811|ref|YP_003777903.1| 3-hydroxyacyl-CoA dehydrogenase [Herbaspirillum seropedicae SmR1] Length = 323 Score = 153 bits (386), Expect = 2e-38, Method: Compositional matrix adjust. Identities = 86/243 (35%), Positives = 130/243 (53%), Gaps = 3/243 (1%) Query: 4 KIAVIGAGLIGRAWAIVFARAGFEVALWDAVPPALQGCQQLLRENLADLAAHGLIAEPPQ 63 ++AV+G G+IG +WA F G EV+ D +P A Q + + + L A GL Q Sbjct: 17 RVAVVGTGVIGASWAAYFLAQGLEVSAVDPMPQAEQKLRAAIARHWPSLQALGLAEHASQ 76 Query: 64 ALLDRIHRAASLEQALQDAILAQENVKETVEVKREIFAEMDRLAAPDTILTSSTSWIPTS 123 +R+ LE AL+ A QEN E ++K ++F MD +L SS+S + S Sbjct: 77 ---ERLRFYDQLEAALEGADFVQENGPEREDLKIDLFRRMDAALPAQVVLASSSSGLLMS 133 Query: 124 AFSEHLPGRARILVAHPVNPPYLVPLVELAPAPWTAPDTVTRAKQIYARAGQSPVVLNKE 183 R+++ HP NPP+L+PLVE+ T+P+ V A YA G+ P+ + KE Sbjct: 134 KVQAACRHPQRVVLGHPFNPPHLIPLVEVIGGAQTSPEAVQTALDFYAAIGKKPIHVRKE 193 Query: 184 ITGFLLNRIQGAVLNEALNLYENGYASAEDIDKVFKHGLGLRWSFMGPFETIDLNAPAGV 243 + G + NR+Q A+ EA +L E G AS EDID +G GLRW+ MGP+ + ++ G Sbjct: 194 VKGHIANRLQAALWREAFHLVEQGVASTEDIDTAIAYGPGLRWALMGPYLNLHMSGGEGG 253 Query: 244 LDY 246 + + Sbjct: 254 IQH 256 >gi|300313418|ref|YP_003777510.1| 3-hydroxyacyl-CoA dehydrogenase [Herbaspirillum seropedicae SmR1] Length = 512 Score = 81.3 bits (199), Expect = 9e-17, Method: Compositional matrix adjust. Identities = 75/240 (31%), Positives = 114/240 (47%), Gaps = 12/240 (5%) Query: 2 SEKIAVIGAGLIGRAWAIVFARAGFEVALWDAVPPALQGCQQLLRENLADLAAHG-LIAE 60 S +AVIG+G +G A V A AG V L+D+ A + NL L + L Sbjct: 13 SALVAVIGSGTMGAGIAQVAAVAGHPVLLYDSREGAAGKAIGAICTNLDKLVSKDKLTPA 72 Query: 61 PPQALLDRIHRAASLEQALQDAILAQENVKETVEVKREIFAEMDRLAAPDTILTSSTSWI 120 QA RI A SLE+ L A L E + E + K E+F +++ + + IL ++TS + Sbjct: 73 LAQAASQRISVAQSLEE-LHQADLVIEAIVEQLAAKHELFGKLEAIVSTRCILATNTSSL 131 Query: 121 PTSAFSEHLPGRARILVAHPVNPPYLVPLVELAPAPWTAPDTVTRAKQIYARA---GQSP 177 + + L R++ H NP ++ LVE+ A D A+ ++ A G++P Sbjct: 132 SITQIAAGLQHPERVVGMHFFNPVPMMALVEIISG--LASDAAL-AQCLHDTALAWGKTP 188 Query: 178 VVLNKEITGFLLNRIQGAVLNEALNLYENGYASAEDIDKVFKHGLGLRWSFMGPFETIDL 237 V+ + GF++NR+ E L + G A ID V + G R MGPFE +DL Sbjct: 189 -VMARSTPGFIVNRLARPYYAEGLRMLHEGGAQPATIDAVMREAGGFR---MGPFELMDL 244 >gi|300309597|ref|YP_003773689.1| 3-hydroxyacyl-CoA dehydrogenase oxidoreductase [Herbaspirillum seropedicae SmR1] Length = 805 Score = 55.8 bits (133), Expect = 4e-09, Method: Compositional matrix adjust. Identities = 55/196 (28%), Positives = 87/196 (44%), Gaps = 9/196 (4%) Query: 3 EKIAVIGAGLIGRAWAIVFARAGFEVALWDAVPPALQGCQ----QLLRENLADLAAHGLI 58 +K+AV+GAG++G A A V L+D PA +G + Q ENL L+ L Sbjct: 17 KKVAVLGAGVMGAQIAAHCINARVPVVLFDL--PAKEGPKNGIVQRAIENLKKLSPAPLG 74 Query: 59 AEPPQALLDRIHRAASLEQALQDAILAQENVKETVEVKREIFAEMDRLAAPDTILTSSTS 118 + AL+ + L L+ L E + E ++ K +++ ++ P I S+TS Sbjct: 75 NKDDAALIQVANYEDDL-AVLEGCDLIIEAIAERMDWKHDLYKKVAPHIGPKAIFASNTS 133 Query: 119 WIPTSAFSEHLPG--RARILVAHPVNPPYLVPLVELAPAPWTAPDTVTRAKQIYARAGQS 176 + +A SE +AR H NPP + LVEL P T P + + + Sbjct: 134 GLSINALSEGFDAGLKARFCGVHFFNPPRYMHLVELIPTQSTEPHILDQLEAFLTTTLGK 193 Query: 177 PVVLNKEITGFLLNRI 192 VV + F+ NR+ Sbjct: 194 GVVRAFDTPNFVANRV 209 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 0.320 0.134 0.401 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: 1,064,756 Number of extensions: 46165 Number of successful extensions: 260 Number of sequences better than 1.0e-08: 3 Number of HSP's gapped: 257 Number of HSP's successfully gapped: 3 Length of query: 310 Length of database: 1,619,870 Length adjustment: 85 Effective length of query: 225 Effective length of database: 1,217,395 Effective search space: 273913875 Effective search space used: 273913875 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 (21.8 bits) S2: 130 (54.7 bits)