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= 0001.4623.p (414 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300314019|ref|YP_003778111.1| amino acid deacylase [Herbaspir... 731 0.0 gi|300312087|ref|YP_003776179.1| peptidase [Herbaspirillum serop... 97 2e-21 gi|300312510|ref|YP_003776602.1| acetylornithine deacetylase [He... 87 2e-18 gi|300311475|ref|YP_003775567.1| succinyl-diaminopimelate desucc... 59 6e-10 >gi|300314019|ref|YP_003778111.1| amino acid deacylase [Herbaspirillum seropedicae SmR1] Length = 414 Score = 731 bits (1887), Expect = 0.0, Method: Compositional matrix adjust. Identities = 382/413 (92%), Positives = 397/413 (96%) Query: 1 MSKQQFSERLCAWIDEHFEEEVDVLQQLIRIPTDTPPGNNAPHADAVAELVQSWGWNAEK 60 MSK+Q S+RLCAWID+HF+EEV VLQQLIRIPTDTPPGNNAPHADAVAELV WGW AEK Sbjct: 1 MSKEQLSQRLCAWIDQHFDEEVGVLQQLIRIPTDTPPGNNAPHADAVAELVAGWGWAAEK 60 Query: 61 HPVPAEQVRDYGMQSITNLIVRRPYAEGGPTLALNAHGDVVPPGEGWTHDPYGGEVVDGR 120 H VPA+QV DYGMQSITNLIVRRPY +GGPTLALNAHGDVVPPGEGWTHDPYGGE+ DGR Sbjct: 61 HVVPAQQVADYGMQSITNLIVRRPYGDGGPTLALNAHGDVVPPGEGWTHDPYGGEIADGR 120 Query: 121 IYGRAAAVSKSDFASYLFATRALEALGAPLRGAVELHFTYDEEFGGLLGPGWLLEQKLTR 180 IYGRAAAVSKSDFASYLFATRALEA+GA LRG VELHFTYDEEFGGLLGPGWLLEQKLTR Sbjct: 121 IYGRAAAVSKSDFASYLFATRALEAVGASLRGGVELHFTYDEEFGGLLGPGWLLEQKLTR 180 Query: 181 PDYVLAAGFSYNVVTAHNACLQFEVTVHGRATHGSMPETGHDALQAANAILNAIYGALPG 240 PDYVLAAGFSYNVVTAHNACLQFE+TVHGRATHGSMPETGHDALQAA AILNAIYGALPG Sbjct: 181 PDYVLAAGFSYNVVTAHNACLQFEITVHGRATHGSMPETGHDALQAATAILNAIYGALPG 240 Query: 241 LKEIRSAIDGISHPTMIVGRIDGGTNTNVVPGKVVLKMDRRMIPEEDPAQVEAGVRKLIE 300 LKEIRSAI GI+HPTMIVGRIDGGTNTNVVPGKVVLKMDRRMIPEEDP+QVEAGVRKLIE Sbjct: 241 LKEIRSAIPGITHPTMIVGRIDGGTNTNVVPGKVVLKMDRRMIPEEDPSQVEAGVRKLIE 300 Query: 301 DAVAGWPGIRVEIRRLLLARALRPLPGHEKLVQSLLRNAQQVMGETLTTQGSALYTDARL 360 DAVAG PGIRVEIRRLLLARALRPLPGHEKLV+SLLRNA++VMGETLTT GSALYTDARL Sbjct: 301 DAVAGLPGIRVEIRRLLLARALRPLPGHEKLVESLLRNAREVMGETLTTNGSALYTDARL 360 Query: 361 YGEQGIPVVLFGAGPRTLMESNAKQADENLTLDDLKKATKVVALMLLDFLGPQ 413 YGEQGIPVVLFGAGPRTLMESNAKQADENL LDDL+KATKVVALMLLDFLGPQ Sbjct: 361 YGEQGIPVVLFGAGPRTLMESNAKQADENLALDDLRKATKVVALMLLDFLGPQ 413 >gi|300312087|ref|YP_003776179.1| peptidase [Herbaspirillum seropedicae SmR1] Length = 395 Score = 97.1 bits (240), Expect = 2e-21, Method: Compositional matrix adjust. Identities = 90/330 (27%), Positives = 144/330 (43%), Gaps = 31/330 (9%) Query: 87 EGGPTLALNAHGDVVP-PGEGWTHDPYGGEVVDGRIYGRAAAVSKSDFASYLFATRAL-- 143 EGG + L+ H DVVP G+ W DP+ DG +Y R + D ++ AL Sbjct: 73 EGG--IVLSGHTDVVPVDGQKWDTDPFKLTEKDGALYARGSC----DMKGFIATALALVP 126 Query: 144 EALGAPLRGAVELHFTYDEEFGGLLGPGWLLEQKLTR----PDYVLAAGFSYNVVTAHNA 199 E L P + L F++DEE G + P +LE+ + R V+ S NVV AH Sbjct: 127 EYLAMPRVKPIHLAFSFDEEIGCIGAP-VMLEEIVKRGIKVDGCVVGEPTSMNVVVAHKG 185 Query: 200 CLQFEVTVHGRATHGSMPETGHDALQAANAILNAIYGALPGLKEI--RSAIDGISHPTMI 257 F VHG++ H S+ G +A++ A ++ AI G K + TM Sbjct: 186 INVFACKVHGKSAHSSLTPQGCNAIEHAARLICAIRDFADGYKANGPYDQFFDVPFSTMT 245 Query: 258 VGRIDGGTNTNVVPGKVVLKMDRRMIPEEDPAQVEAGVRKLIEDAV-----AGWPGIRVE 312 +I GG N +P + R +P A ++A + K I + + +P RVE Sbjct: 246 TNQIRGGIAVNTIPELCEFTYEFRNLPGMSVADIQAQIDKYIAEVLLPKMRTEFPDARVE 305 Query: 313 IRRLLLARALRPLPGHEKLVQSLLRNAQQVMGETLTTQGSALYTDARLYGEQGIPVVLFG 372 I + AL E + Q+ + + + T+ A T+A L+ + GIP ++ G Sbjct: 306 IDNFAGSPAL------EAVEQAAITELVRALTGDRQTRKVAYGTEAGLFQQIGIPTIVCG 359 Query: 373 AGPRTLMESNAKQADENLTLDDLKKATKVV 402 G NA + +E +TL ++ + + Sbjct: 360 PGDI----GNAHKPNEFVTLAQMEHCEQFL 385 >gi|300312510|ref|YP_003776602.1| acetylornithine deacetylase [Herbaspirillum seropedicae SmR1] Length = 400 Score = 87.0 bits (214), Expect = 2e-18, Method: Compositional matrix adjust. Identities = 85/319 (26%), Positives = 139/319 (43%), Gaps = 25/319 (7%) Query: 94 LNAHGDVVP-PGEGWTHDPYGGEVVDGRIYGRAAAVSKSDFASYLFATRALEALGAPLRG 152 + H DVVP G+ W DP+ V DG+++GR A K A + A++ A L Sbjct: 81 FSGHTDVVPVTGQKWDTDPFVAHVADGKLFGRGACDMKGFIAICMARLPAIDL--ARLHT 138 Query: 153 AVELHFTYDEEFGGLLGPGWL--LEQKLTRPDYVLAAGFSY-NVVTAHNACLQFEVTVHG 209 + F+YDEE G L L L+Q RP V+ + V AH + +VHG Sbjct: 139 PLHFSFSYDEEVGCLGVRELLADLQQNDIRPTGVIIGEPTMMQPVIAHKGKRSYRCSVHG 198 Query: 210 RATHGSMPETGHDALQAANAILNAIYGALPGLKEIRSAIDGISHP--TMIVGRIDGGTNT 267 A H S P G +++ A + I ++ D P ++ GG Sbjct: 199 HAAHSSCPHLGINSIDFAAMMQLKIREIALRVRHSGVQDDDFDVPYSSIATTLTSGGNAP 258 Query: 268 NVVPGKVVLKMDRRMIPEEDPAQVEAGVRKLIEDAVAGWPGIRVE-IRRLLLARALRPLP 326 N++P K + R +P DPA+V V+ E + P +R++ ++ + L P Sbjct: 259 NIIPDKAEFVFEHRFLPGIDPAEVFEEVKAYAEQEI--LPQMRIDGVQGRIEFETLTSYP 316 Query: 327 G-----HEKLVQSLLRNAQQVMGETLTTQGSALYTDARLYGEQGIPVVLFGAGPRTLMES 381 G + LV S LR ++G + T+ L+G+ G+P V+ G G + Sbjct: 317 GMCTPADDPLVTSALR----ILGSE-RARKVGFGTEGGLFGQAGMPAVICGPGDI----A 367 Query: 382 NAKQADENLTLDDLKKATK 400 +A + +E +TL+ L + + Sbjct: 368 HAHKPNEFVTLEQLARCER 386 >gi|300311475|ref|YP_003775567.1| succinyl-diaminopimelate desuccinylase [Herbaspirillum seropedicae SmR1] Length = 377 Score = 59.3 bits (142), Expect = 6e-10, Method: Compositional matrix adjust. Identities = 59/224 (26%), Positives = 96/224 (42%), Gaps = 29/224 (12%) Query: 76 ITNLIVRRPYAEGGPTLALNAHGDVVPPG--EGWTHDPYGGEVVDGRIYGRAAAVSKSDF 133 +TNL R+ A+ P + H DVVP G E W P+ + +GR+YGR A+ K+ Sbjct: 49 VTNLWARKGTAQ--PLVVFAGHTDVVPTGPLEKWQSHPFQPTLREGRLYGRGASDMKTSI 106 Query: 134 ASYLFATRALEALGAPLRGAVELHFTYDEE---FGGLLGPGWLLEQKLTRPDYVL----- 185 A+ + A A +G++ T DEE G + L+ + + DY + Sbjct: 107 AAMVVACEEFTAAHPDHKGSIGFLITSDEEGPAIDGTVVVCNALKARGEQLDYCIVGEPT 166 Query: 186 -AAGFSYNVVTAHNACLQFEVTVHGRATHGSMPETGHDALQAANAILNAIYGALPGLKEI 244 A + + ++TV G H + P+ N I+ A P L E+ Sbjct: 167 SAKTLGDMIKNGRRGTMSGKLTVKGIQGHIAYPQLAR----------NPIHQAAPALAEL 216 Query: 245 RS----AIDGISHPTMI-VGRIDGGTN-TNVVPGKVVLKMDRRM 282 + A + PT + I GGT +NV+PG+V++ + R Sbjct: 217 VAEQWDAGNEYYLPTSWQISNIHGGTGASNVIPGEVMIDFNFRF 260 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 0.318 0.136 0.408 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: 1,362,427 Number of extensions: 58970 Number of successful extensions: 203 Number of sequences better than 1.0e-08: 4 Number of HSP's gapped: 199 Number of HSP's successfully gapped: 4 Length of query: 414 Length of database: 1,619,870 Length adjustment: 88 Effective length of query: 326 Effective length of database: 1,203,190 Effective search space: 392239940 Effective search space used: 392239940 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 16 ( 7.3 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 41 (21.7 bits) S2: 132 (55.5 bits)