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= 0007.0044.p (328 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300310674|ref|YP_003774766.1| amidase family protein [Herbasp... 436 e-123 gi|300311162|ref|YP_003775254.1| amidase family protein [Herbasp... 95 6e-21 gi|300311728|ref|YP_003775820.1| indole acetamide hydrolase [Her... 91 1e-19 gi|300310266|ref|YP_003774358.1| amidase family protein [Herbasp... 74 1e-14 gi|300309904|ref|YP_003773996.1| aspartate tRNAAsn/Glu-tRNAGln a... 72 5e-14 >gi|300310674|ref|YP_003774766.1| amidase family protein [Herbaspirillum seropedicae SmR1] Length = 388 Score = 436 bits (1121), Expect = e-123, Method: Compositional matrix adjust. Identities = 289/328 (88%), Positives = 309/328 (94%) Query: 1 VVRKLLDAGWQLTARANMHELAYGMTGINDWNGTAVNPQDASRMTGGSSSGSASAVGAGL 60 VV +LL+AGWQ+TARANMHELAYGMTGIN+WNGTAVNPQD + MTGGSSSGSASAVGAGL Sbjct: 61 VVARLLEAGWQITARANMHELAYGMTGINEWNGTAVNPQDPACMTGGSSSGSASAVGAGL 120 Query: 61 VDMSIGSDTGGSIRLPAACCGVIGFKPSFGRVSRAGAYPAVSSLDCVGPFARSMDLIISA 120 VD+SIGSDTGGSIRLPAACCGVIGFKPSFGRVSRAGAYPA+SSLDC+GPF+RSMDLIISA Sbjct: 121 VDVSIGSDTGGSIRLPAACCGVIGFKPSFGRVSRAGAYPALSSLDCLGPFSRSMDLIISA 180 Query: 121 MASIAPGFDRAAATAAAAQARVKLVAVQADPEIAEAVAAAFAASGWQGDVWTPQHMHAAF 180 MASI PGFDRAAA+ AA ARVKLV VQAD EIAEAVAAAFAASGW+G WTPQHM AAF Sbjct: 181 MASITPGFDRAAASTPAAHARVKLVTVQADTEIAEAVAAAFAASGWEGSPWTPQHMQAAF 240 Query: 181 EAGMTLINRETHDAFGHLLGLGKLGADIEKRLSAAAATTDDAVAQAEAVRAAFSAEVDAA 240 +AGMTLINRETHDAFGHLLGLGKLGADIEKRLSAAA+T+D AVA AE VR AFSAE+DAA Sbjct: 241 DAGMTLINRETHDAFGHLLGLGKLGADIEKRLSAAASTSDAAVAHAETVRTAFSAEIDAA 300 Query: 241 LADADALLLPTLPSLPPTLEAIRQGASVLMLSSLVRPFNLSGHPALSIPVPMAGSPLKAG 300 LADADALLLPTLP+LPPTLEAIRQG SVLMLSSLVRPFNLSGHPALSIPVP+AGSPLKAG Sbjct: 301 LADADALLLPTLPALPPTLEAIRQGTSVLMLSSLVRPFNLSGHPALSIPVPIAGSPLKAG 360 Query: 301 LQLVGRKGDDERICALGLHLEQALKQRP 328 LQLVGRKG+DER+CALGLHLEQ LK+ P Sbjct: 361 LQLVGRKGEDERLCALGLHLEQVLKRLP 388 >gi|300311162|ref|YP_003775254.1| amidase family protein [Herbaspirillum seropedicae SmR1] Length = 450 Score = 95.1 bits (235), Expect = 6e-21, Method: Compositional matrix adjust. Identities = 61/142 (42%), Positives = 81/142 (57%), Gaps = 11/142 (7%) Query: 1 VVRKLLDAGWQLTARANMHELAYGMTGINDWNGTAVNPQDA-------SRMTGGSSSGSA 53 VV+ LL AG L + NM E AY GIN GT PQ+A R+ GGSSSG+A Sbjct: 106 VVQNLLKAGAILIGKTNMTEFAYSGLGINPHYGT---PQNAWERNIEGGRIPGGSSSGAA 162 Query: 54 SAVGAGLVDMSIGSDTGGSIRLPAACCGVIGFKPSFGRVSRAGAYPAVSSLDCVGPFARS 113 +V G+ ++GSDTGGS+R+P+A G+ GFKP+ RVS G P + LD +GP A S Sbjct: 163 ISVTDGMAFAAVGSDTGGSVRIPSALNGLTGFKPTAARVSMQGVLPLSAYLDSIGPLAVS 222 Query: 114 MDLIISAMASIAPGFDRAAATA 135 + + M ++ G D A A Sbjct: 223 VQ-CCAIMDAVLAGEDYVAVLA 243 >gi|300311728|ref|YP_003775820.1| indole acetamide hydrolase [Herbaspirillum seropedicae SmR1] Length = 468 Score = 90.9 bits (224), Expect = 1e-19, Method: Compositional matrix adjust. Identities = 108/362 (29%), Positives = 159/362 (43%), Gaps = 44/362 (12%) Query: 1 VVRKLLDAGWQLTARANMHELAYGMTGINDWNGTAVNPQDASRMTGGSSSGSASAVGAGL 60 VV L AG +ANMHELA+G+T N G NP DA + GGSS G + + A L Sbjct: 102 VVEYLFGAGALHAGKANMHELAFGITNNNGVFGPCRNPYDAELIAGGSSGGCGALLAARL 161 Query: 61 VDMSIGSDTGGSIRLPAACCGVIGFKPSFGRVSRAGAYPAVSSLDCVGPFARSMDLIISA 120 ++G+DTGGS+R+PAA CGV+G +P+ R S+ G P + D GP ARS+ ++ Sbjct: 162 APAAVGTDTGGSVRIPAALCGVVGLRPTSRRYSQHGVVPISHTRDTPGPMARSV-ADVAL 220 Query: 121 MASIAPGFDRAAATAAAAQARVKLVAVQADPE---IAEAVAAAFAASGWQ--------GD 169 + I G +A A ++++L V +P + E V A A+ Q D Sbjct: 221 LDQIMAGSRDSAPLLALPPSQLRL-GVLRNPSWQGLEEEVEANANAALMQLREAGVELVD 279 Query: 170 VWTPQHMHAAFEAGMTLINRETHDAFGHLLGLGKLGADIEKRLSAAAATTD--------- 220 V P + AG ++ E L D+ KR+ A + D Sbjct: 280 VDLPTLAPLSHAAGFAIVLHEFLIDLPAYLQASD-ARDVIKRVLAEVGSPDVARIIQATL 338 Query: 221 DAVAQAEAVRAAFSAE--VDAALAD------ADALLLPTLPSLPPTLEAIRQGASVLMLS 272 D A R A + A D DAL+ PT T + + +V + Sbjct: 339 DQPVPEHAYRLALEQRRTMQALYRDCFRSQGVDALIFPTTAL---TARPLGEDDTVALRG 395 Query: 273 SLVRPF----------NLSGHPALSIPVPMAGSPLKAGLQLVGRKGDDERICALGLHLEQ 322 V F +++G P++SIPV ++ L GL+L G +G D R+ + LE Sbjct: 396 ERVPTFPAFARNADGASIAGLPSISIPVGLSEYGLPVGLELDGPEGSDRRLLQVAASLET 455 Query: 323 AL 324 L Sbjct: 456 VL 457 >gi|300310266|ref|YP_003774358.1| amidase family protein [Herbaspirillum seropedicae SmR1] Length = 504 Score = 74.3 bits (181), Expect = 1e-14, Method: Compositional matrix adjust. Identities = 105/370 (28%), Positives = 145/370 (39%), Gaps = 76/370 (20%) Query: 1 VVRKLLDAGWQLTARANMHELAYGMTGINDWNGTAVNPQDASRMTGGSSSGSASAVGAGL 60 +V +LLDAG + +A NP+ +GGSSSGSA+ V AG Sbjct: 124 IVTRLLDAGATILGKATCEHFCLSGGSHTSDPAPVHNPRRHGYGSGGSSSGSAALVAAGE 183 Query: 61 VDMSIGSDTGGSIRLPAACCGVIGFKPSFGRVSRAGAYPAVSSLDCVGPFA---RSMDLI 117 DM+IG D GGSIR+P+A CG G K + G V G P +++D VGP R L+ Sbjct: 184 ADMAIGGDQGGSIRIPSAFCGTYGMKATHGLVPYTGVMPIEATVDHVGPITANVRDNALM 243 Query: 118 ISAMASIAPGFD------RAAATAAAAQARVKLVAV----------QADPEIAEAVAAAF 161 + +A A G D AA V+ + + D +A+ V A Sbjct: 244 LEVIAG-ADGLDPRQYAPEVQPYTAALDRGVRGLKIGILTEGFALGNMDKRVADKVQEAI 302 Query: 162 A---------------ASGWQGDVWTP--------QHMHAA---------FEAGMTLIN- 188 A G +W P Q MH ++ G+ + Sbjct: 303 AQLEKLGASVATVSVEEHALAGALWQPIGCEGLTMQMMHGNGMGFNWKGLYDLGLLQHHA 362 Query: 189 --RETHDAFGHLLGL----GKLG-ADIEKRLSAAAATTDDAVAQAEAVRAAFSAEVDAAL 241 RE D L L G+ G + R A A A RA + D AL Sbjct: 363 HWREHADDLSATLKLCMFVGQYGLTRYQGRFYAKAQNI------ARRARAGY----DKAL 412 Query: 242 ADADALLLPTLPSLPPTLEA-----IRQGASVLMLSSLVRPFNLSGHPALSIPVPMAGSP 296 AD D L++PT+P + L A A + P +++GHPA+SIP Sbjct: 413 ADFDLLVMPTVPIIAQPLPAAGCPLAEYVARAFEMIGNTAPLDITGHPAMSIPCGTVDG- 471 Query: 297 LKAGLQLVGR 306 L GL LVG+ Sbjct: 472 LPVGLMLVGK 481 >gi|300309904|ref|YP_003773996.1| aspartate tRNAAsn/Glu-tRNAGln amidotransferase subunit A-like protein [Herbaspirillum seropedicae SmR1] Length = 651 Score = 72.4 bits (176), Expect = 5e-14, Method: Compositional matrix adjust. Identities = 51/124 (41%), Positives = 71/124 (57%), Gaps = 1/124 (0%) Query: 2 VRKLLDAGWQLTARANMHELAYGMTGINDWNGTAVNPQDASRMTGGSSSGSASAVGAGLV 61 V++L +AG + + MHELA G+T ++ G NP D R GGSS G+ +AV A Sbjct: 156 VKRLREAGAVILGKTTMHELAAGVTTVSSLTGFTRNPYDPRRAPGGSSGGTGAAVAASFA 215 Query: 62 DMSIGSDTGGSIRLPAACCGVIGFKPSFGRVSRAGAYPAVSSLDCVGPFARSM-DLIISA 120 +GSDT GSIR+PAA + G + + G SR+G P S+ D P ARS+ DL I Sbjct: 216 AAGMGSDTCGSIRIPAAHQNLFGLRTTRGLASRSGVMPLSSTQDVAAPLARSVEDLAIML 275 Query: 121 MASI 124 A++ Sbjct: 276 DATV 279 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 0.131 0.382 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: 793,407 Number of extensions: 26424 Number of successful extensions: 143 Number of sequences better than 1.0e-08: 11 Number of HSP's gapped: 140 Number of HSP's successfully gapped: 11 Length of query: 328 Length of database: 1,619,870 Length adjustment: 86 Effective length of query: 242 Effective length of database: 1,212,660 Effective search space: 293463720 Effective search space used: 293463720 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: 131 (55.1 bits)