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= 0027.0025.p (270 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300313659|ref|YP_003777751.1| amidase family protein [Herbasp... 63 3e-11 gi|300310266|ref|YP_003774358.1| amidase family protein [Herbasp... 62 4e-11 gi|300313942|ref|YP_003778034.1| Asp-tRNAAsn/Glu-tRNAGln amidotr... 58 9e-10 gi|300311162|ref|YP_003775254.1| amidase family protein [Herbasp... 57 1e-09 gi|300312309|ref|YP_003776401.1| 6-aminohexanoate-cyclic-dimer h... 56 4e-09 >gi|300313659|ref|YP_003777751.1| amidase family protein [Herbaspirillum seropedicae SmR1] Length = 506 Score = 62.8 bits (151), Expect = 3e-11, Method: Compositional matrix adjust. Identities = 66/214 (30%), Positives = 86/214 (40%), Gaps = 43/214 (20%) Query: 20 FSPVHVIADFLARIDRLDPLYKAFRIVDYEGAMQAAVASEQRWLACAPLSAFDGLPASLK 79 SPV ++ +ARI+ ++P A +E A A A+EQ + PL GLP +K Sbjct: 22 LSPVELLEACIARIEDINPHINAVTATCFERARGEARAAEQAVIDGKPLGLLHGLPIGIK 81 Query: 80 DQWPLRGFSTRSGSVT---TDPARLATEDAPAAQRLR-------------EGGXGGSSGG 123 D G T GS PAR D RLR E G G +S Sbjct: 82 DLEETEGLLTTYGSPLYRGNIPAR----DNALVARLRAAGAIVAGKTNVPEMGAGANSRN 137 Query: 124 AAIAA----------------------AARLSILNIGSDGAGSIRIPAAFCGVFGLKPTY 161 A A A L L GSD GS+RIPAA CGV G +P+ Sbjct: 138 AVWGATGNPFNPLLNAGGSSGGSAAALATDLLPLCSGSDTGGSLRIPAAKCGVVGFRPSP 197 Query: 162 GRVPAYPQGL-LINCSHTGPLTKTVFEAALMMDA 194 G VP+ + L S GP+ + V + L + A Sbjct: 198 GLVPSERKLLGWTPISVVGPMGRDVADTVLQLRA 231 >gi|300310266|ref|YP_003774358.1| amidase family protein [Herbaspirillum seropedicae SmR1] Length = 504 Score = 62.4 bits (150), Expect = 4e-11, Method: Compositional matrix adjust. Identities = 50/122 (40%), Positives = 67/122 (54%), Gaps = 12/122 (9%) Query: 87 FSTRSGSVTTDPARLATEDAPAAQRLREGGXGGSSGGAAIAAAARLSILNIGSDGAGSIR 146 F GS T+DPA + +R G G SSG AA+ AA + IG D GSIR Sbjct: 144 FCLSGGSHTSDPAPVHNP-----RRHGYGSGGSSSGSAALVAAGEAD-MAIGGDQGGSIR 197 Query: 147 IPAAFCGVFGLKPTYGRVPAYPQGLLINCS--HTGPLTKTVFEAALMMDAIT---HYDPR 201 IP+AFCG +G+K T+G VP Y + I + H GP+T V + ALM++ I DPR Sbjct: 198 IPSAFCGTYGMKATHGLVP-YTGVMPIEATVDHVGPITANVRDNALMLEVIAGADGLDPR 256 Query: 202 EW 203 ++ Sbjct: 257 QY 258 >gi|300313942|ref|YP_003778034.1| Asp-tRNAAsn/Glu-tRNAGln amidotransferase subunit A [Herbaspirillum seropedicae SmR1] Length = 488 Score = 57.8 bits (138), Expect = 9e-10, Method: Compositional matrix adjust. Identities = 37/111 (33%), Positives = 56/111 (50%), Gaps = 7/111 (6%) Query: 139 SDGAGSIRIPAAFCGVFGLKPTYGRVPAYPQGLLINCS---HTGPLTKTVFEAALMMDAI 195 +D GSIR PA+ CGV G+KPTYG V Y G++ S GP+ KT + L+++A+ Sbjct: 168 TDTGGSIRQPASLCGVTGIKPTYGSVSRY--GMIAFASSLDQGGPIAKTAEDCGLLLNAM 225 Query: 196 THYDPREWLATGDPEPRYAADAGWRIGYCRTSXPPPAGASAIA--VHWAVR 244 T +D R+ + P+ + + R P + +A V AVR Sbjct: 226 TGFDERDSTSLQRPKEDFTRSLNDSLQGLRIGVPKEFFGAGLAADVEAAVR 276 >gi|300311162|ref|YP_003775254.1| amidase family protein [Herbaspirillum seropedicae SmR1] Length = 450 Score = 57.0 bits (136), Expect = 1e-09, Method: Compositional matrix adjust. Identities = 50/169 (29%), Positives = 74/169 (43%), Gaps = 45/169 (26%) Query: 69 SAFDGLPASLKDQWPLRGFSTRSGSVTTDPARLATEDAPAAQRLREGGX----------- 117 S +G+P S+KD + + G +T +GSV +A+ A Q L + G Sbjct: 67 SPLEGVPVSVKDLFDVAGETTLAGSVVLRGKPVASAHAAVVQNLLKAGAILIGKTNMTEF 126 Query: 118 ----------------------------GGSSGGAAIAAAARLSILNIGSDGAGSIRIPA 149 GGSS GAAI+ ++ +GSD GS+RIP+ Sbjct: 127 AYSGLGINPHYGTPQNAWERNIEGGRIPGGSSSGAAISVTDGMAFAAVGSDTGGSVRIPS 186 Query: 150 AFCGVFGLKPTYGRVPAYPQGLLINCSH---TGPLTKTVFEAALMMDAI 195 A G+ G KPT RV QG+L ++ GPL +V + +MDA+ Sbjct: 187 ALNGLTGFKPTAARVSM--QGVLPLSAYLDSIGPLAVSV-QCCAIMDAV 232 >gi|300312309|ref|YP_003776401.1| 6-aminohexanoate-cyclic-dimer hydrolase [Herbaspirillum seropedicae SmR1] Length = 482 Score = 55.8 bits (133), Expect = 4e-09, Method: Compositional matrix adjust. Identities = 55/188 (29%), Positives = 78/188 (41%), Gaps = 44/188 (23%) Query: 17 NGDFSPVHVIADFLARIDRLDPLYKAFRIVDYEGAMQAAVASEQRWLACAPLSAFDGLPA 76 G+ SP +A + R+++++P A Y EQ P F G+P Sbjct: 24 QGELSPGEALAQAIERLEQVNPALNAVAEKLYH-------LGEQSVAQGLPDGPFRGVPL 76 Query: 77 SLKDQW-PLRGFSTRSGSVTTDPARLATEDAPAAQRLREGGX------------------ 117 KD + PL G +GS+ + DA RL++ G Sbjct: 77 LTKDLFTPLAGARMSNGSLLLKDNVMPV-DAELVTRLKKAGFTIFGTTTSPEFGTSYTTE 135 Query: 118 -----------------GGSSGGAAIAAAARLSILNIGSDGAGSIRIPAAFCGVFGLKPT 160 GGSSG AA AAR+ + G+DG GS+R+PA+ CGVFGLKP+ Sbjct: 136 SRLFGATRNPWSLDHSCGGSSGAAAALVAARVLPIAHGNDGGGSLRVPASACGVFGLKPS 195 Query: 161 YGRVPAYP 168 G +P P Sbjct: 196 RGLMPMGP 203 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 0.322 0.136 0.439 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: 803,519 Number of extensions: 31889 Number of successful extensions: 103 Number of sequences better than 1.0e-08: 9 Number of HSP's gapped: 100 Number of HSP's successfully gapped: 9 Length of query: 270 Length of database: 1,619,870 Length adjustment: 84 Effective length of query: 186 Effective length of database: 1,222,130 Effective search space: 227316180 Effective search space used: 227316180 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: 130 (54.7 bits)