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= 0001.0235.p (805 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300309597|ref|YP_003773689.1| 3-hydroxyacyl-CoA dehydrogenase... 1593 0.0 gi|300313418|ref|YP_003777510.1| 3-hydroxyacyl-CoA dehydrogenase... 114 2e-26 gi|300313811|ref|YP_003777903.1| 3-hydroxyacyl-CoA dehydrogenase... 65 1e-11 >gi|300309597|ref|YP_003773689.1| 3-hydroxyacyl-CoA dehydrogenase oxidoreductase [Herbaspirillum seropedicae SmR1] Length = 805 Score = 1593 bits (4126), Expect = 0.0, Method: Compositional matrix adjust. Identities = 788/805 (97%), Positives = 796/805 (98%) Query: 1 MSAAPAKEICVSNFIVKKVAVLGAGVMGAQIAAHCINARVPVVLFDLPAKEGPKNGIVQR 60 M AAPAKE CVSNFIVKKVAVLGAGVMGAQIAAHCINARVPVVLFDLPAKEGPKNGIVQR Sbjct: 1 MFAAPAKESCVSNFIVKKVAVLGAGVMGAQIAAHCINARVPVVLFDLPAKEGPKNGIVQR 60 Query: 61 AIENLKKLSPAPLGNKDDAALIQVANYEDDLAVLEGCDLIIEAIAERMDWKHDLYKKVAP 120 AIENLKKLSPAPLGNKDDAALIQVANYEDDLAVLEGCDLIIEAIAERMDWKHDLYKKVAP Sbjct: 61 AIENLKKLSPAPLGNKDDAALIQVANYEDDLAVLEGCDLIIEAIAERMDWKHDLYKKVAP 120 Query: 121 HIAPKAIFATNTSGLSINALSEGFDAALKARFCGVHFFNPPRYMHLVELIPTQSTEPHIL 180 HI PKAIFA+NTSGLSINALSEGFDA LKARFCGVHFFNPPRYMHLVELIPTQSTEPHIL Sbjct: 121 HIGPKAIFASNTSGLSINALSEGFDAGLKARFCGVHFFNPPRYMHLVELIPTQSTEPHIL 180 Query: 181 DQLEAFLTTTLGKGVVRAFDTPNFVANRVGVFGILATIIEADKYGLSVDVVDDLTGAKLG 240 DQLEAFLTTTLGKGVVRAFDTPNFVANRVGVFGILATIIEA+KYGLSVDVVDDLTGAKLG Sbjct: 181 DQLEAFLTTTLGKGVVRAFDTPNFVANRVGVFGILATIIEAEKYGLSVDVVDDLTGAKLG 240 Query: 241 RAKSGTFRTADVVGLDTMGHVIRTMQDNLKDDPFFSTYATPPLLAKLVEQGALGQKSGAG 300 RAKSGTFRTADVVGLDTMGHVIRTMQDNLKDDPFFS+YATPPLLAKLVEQGALGQKSGAG Sbjct: 241 RAKSGTFRTADVVGLDTMGHVIRTMQDNLKDDPFFSSYATPPLLAKLVEQGALGQKSGAG 300 Query: 301 YYKKVGKDILRIDPAKGDYVPGGGKADDIIARILKEKDPVKRMKALHDSTNPQGQFLWAI 360 +YKKVGKDILRIDPAKGDYVPGG KADDIIARILKEKDPVKRMKALHDSTNPQGQFLWAI Sbjct: 301 FYKKVGKDILRIDPAKGDYVPGGAKADDIIARILKEKDPVKRMKALHDSTNPQGQFLWAI 360 Query: 361 FRDAFHYIAVHLESVADNARDLDFAMRWGFGWSVGPFETWQAAGWKQIAQWVKEDIDAGR 420 FRDAFHYIAVHLESVADNARDLDFAMRWGFGWSVGPFETWQAAGWKQIAQWVKEDIDAG+ Sbjct: 361 FRDAFHYIAVHLESVADNARDLDFAMRWGFGWSVGPFETWQAAGWKQIAQWVKEDIDAGK 420 Query: 421 ALSNAPLPDWVFDGRDGVHSEQGSYSPSKKTDVARSELPVYQRQAFRAPLVGEGAADGKS 480 ALS APLPDWVFDGRDGVHSE+GSYSPSKK DVARSELPVYQRQAFRAPLVGEGAADGKS Sbjct: 421 ALSTAPLPDWVFDGRDGVHSEKGSYSPSKKADVARSELPVYQRQAFRAPLVGEGAADGKS 480 Query: 481 AGTTVFEDESVRIWHQNDDVLILSFKTKMHVIGQGVIDGMNKAVTEAEQNFKGLVIWHPD 540 AGTT FEDESVRIWHQNDDVLILSFKTKMHVIGQGVIDGMNKAV+EAEQNFKGLVIWHPD Sbjct: 481 AGTTFFEDESVRIWHQNDDVLILSFKTKMHVIGQGVIDGMNKAVSEAEQNFKGLVIWHPD 540 Query: 541 AAEGGAFSAGADLQSMLPLFMSGGVKAIEPVVHQLQQAHQRLKYASVPVIAAVAGLALGG 600 AAEGGAFSAGADLQSMLPLFMSGGVKAIEPVVHQLQQAHQRLKYASVPVIAAVAGLALGG Sbjct: 541 AAEGGAFSAGADLQSMLPLFMSGGVKAIEPVVHQLQQAHQRLKYASVPVIAAVAGLALGG 600 Query: 601 GCELLLHTAKRVVSIESYIGLVEVGVGLIPAGGGLKEAAVRAAREAKGNDILQFLKEYML 660 GCELLLHTAKRVVSIESYIGLVEVGVGLIPAGGGLKEAAVRAAREAKGNDIL FLKEYML Sbjct: 601 GCELLLHTAKRVVSIESYIGLVEVGVGLIPAGGGLKEAAVRAAREAKGNDILPFLKEYML 660 Query: 661 AAATANVSKSALEARKLGYLREDDVIVFNPYELLHVAKVEARALFDAGYRPQLPPQVPVI 720 AAATANVSKSALEARKLGYLREDDVIVFNPYELLHVAKVEARALFDAGYRPQLPPQVPVI Sbjct: 661 AAATANVSKSALEARKLGYLREDDVIVFNPYELLHVAKVEARALFDAGYRPQLPPQVPVI 720 Query: 721 GRNGLATIMAQLVNMRDGGFISAHDFKLGKMIAETVAGGEVEEGSIVNEQWLLDIERKFF 780 GRNGLATIMAQLVNMRDGGFISAHDFKLGKMIAETV+GGEVEEGSIVNEQWLLDIERKFF Sbjct: 721 GRNGLATIMAQLVNMRDGGFISAHDFKLGKMIAETVSGGEVEEGSIVNEQWLLDIERKFF 780 Query: 781 MELLNHPKTQERIMGMMQTGKPVRN 805 MELLNHPKTQERIMGMMQTGKPVRN Sbjct: 781 MELLNHPKTQERIMGMMQTGKPVRN 805 >gi|300313418|ref|YP_003777510.1| 3-hydroxyacyl-CoA dehydrogenase [Herbaspirillum seropedicae SmR1] Length = 512 Score = 114 bits (286), Expect = 2e-26, Method: Compositional matrix adjust. Identities = 97/290 (33%), Positives = 141/290 (48%), Gaps = 18/290 (6%) Query: 19 VAVLGAGVMGAQIAAHCINARVPVVLFDLPAKEGPKNGIVQRAIENLKKLSPAPLGNKDD 78 VAV+G+G MGA IA A PV+L+D ++EG + NL KL +K Sbjct: 16 VAVIGSGTMGAGIAQVAAVAGHPVLLYD--SREGAAGKAIGAICTNLDKLVSK---DKLT 70 Query: 79 AALIQVANYE----DDLAVLEGCDLIIEAIAERMDWKHDLYKKVAPHIAPKAIFATNTSG 134 AL Q A+ L L DL+IEAI E++ KH+L+ K+ ++ + I ATNTS Sbjct: 71 PALAQAASQRISVAQSLEELHQADLVIEAIVEQLAAKHELFGKLEAIVSTRCILATNTSS 130 Query: 135 LSINALSEGFDAALKARFCGVHFFNPPRYMHLVELIPTQSTEPHILDQLEAFLTTTLGKG 194 LSI ++ G R G+HFFNP M LVE+I +++ L Q GK Sbjct: 131 LSITQIAAGLQH--PERVVGMHFFNPVPMMALVEIISGLASDA-ALAQCLHDTALAWGKT 187 Query: 195 VVRAFDTPNFVANRVGVFGILATIIEADKYGLSVDVVDDLTGAKLGRAKSGTFRTADVVG 254 V A TP F+ NR+ + + G +D + + G + G F D++G Sbjct: 188 PVMARSTPGFIVNRLARPYYAEGLRMLHEGGAQPATIDAVM-REAGGFRMGPFELMDLIG 246 Query: 255 LDTMGHVIRTMQDNLKDDPFFSTYATPPLLAK-LVEQGALGQKSGAGYYK 303 D V +++ +DP F TP L+ + LV G LG+KSG G+Y+ Sbjct: 247 HDVNFAVTQSVFHAYFNDPRF----TPSLIQQELVHAGYLGRKSGRGFYR 292 >gi|300313811|ref|YP_003777903.1| 3-hydroxyacyl-CoA dehydrogenase [Herbaspirillum seropedicae SmR1] Length = 323 Score = 65.5 bits (158), Expect = 1e-11, Method: Compositional matrix adjust. Identities = 56/197 (28%), Positives = 91/197 (46%), Gaps = 12/197 (6%) Query: 16 VKKVAVLGAGVMGAQIAAHCINARVPVVLFD-LPAKEGPKNGIVQRAIENLKKLSPAPLG 74 + +VAV+G GV+GA AA+ + + V D +P E + R +L+ L G Sbjct: 15 IARVAVVGTGVIGASWAAYFLAQGLEVSAVDPMPQAEQKLRAAIARHWPSLQAL-----G 69 Query: 75 NKDDAALIQVANYEDDLAVLEGCDLIIEAIAERMDWKHDLYKKVAPHIAPKAIFATNTSG 134 + A+ ++ Y+ A LEG D + E ER D K DL++++ + + + A+++SG Sbjct: 70 LAEHASQERLRFYDQLEAALEGADFVQENGPEREDLKIDLFRRMDAALPAQVVLASSSSG 129 Query: 135 LSINALSEGFDAALK--ARFCGVHFFNPPRYMHLVELIPTQSTEPHILDQLEAFLTTTLG 192 L L AA + R H FNPP + LVE+I T P + F Sbjct: 130 L----LMSKVQAACRHPQRVVLGHPFNPPHLIPLVEVIGGAQTSPEAVQTALDFYAAIGK 185 Query: 193 KGVVRAFDTPNFVANRV 209 K + + +ANR+ Sbjct: 186 KPIHVRKEVKGHIANRL 202 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 0.319 0.137 0.404 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: 2,545,190 Number of extensions: 112255 Number of successful extensions: 347 Number of sequences better than 1.0e-08: 3 Number of HSP's gapped: 343 Number of HSP's successfully gapped: 3 Length of query: 805 Length of database: 1,619,870 Length adjustment: 93 Effective length of query: 712 Effective length of database: 1,179,515 Effective search space: 839814680 Effective search space used: 839814680 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: 134 (56.2 bits)