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= 0141.0008.p (439 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300311878|ref|YP_003775970.1| amino acid ABC transporter peri... 791 0.0 gi|300310288|ref|YP_003774380.1| hypothetical protein Hsero_0955... 434 e-123 >gi|300311878|ref|YP_003775970.1| amino acid ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 443 Score = 791 bits (2042), Expect = 0.0, Method: Compositional matrix adjust. Identities = 392/440 (89%), Positives = 423/440 (96%), Gaps = 1/440 (0%) Query: 1 MKNIKQLVLAATVAASLLAPALPAMAQASDQFIAIPSYRVGPYGTNGQSYYGGYVDYLNY 60 +K+++QL+LA AASLL+ A PA+AQASDQFIAIPSYRVGPYGTNGQSYYGGYVDYLNY Sbjct: 4 IKHLRQLLLATACAASLLSAAAPALAQASDQFIAIPSYRVGPYGTNGQSYYGGYVDYLNY 63 Query: 61 VNLKDGGVNGVKLSWEECETEYNNAKGVECYERMKNKNPVTKGTAINSMATGISYALIDK 120 +N+K+GGVNGVKLSWEECETEYNNAKGVECYERMKNKNPVT GTAIN MATGISYALIDK Sbjct: 64 INIKEGGVNGVKLSWEECETEYNNAKGVECYERMKNKNPVTHGTAINPMATGISYALIDK 123 Query: 121 SVEDKVPLLMMGYGRTDAVDGSVFPYAFPLVTTYQMQVSAIVKFLTTKNGGSLAGKKIVF 180 + EDKVPL+M+GYGRTDAVDGSVFPYAFPLVTTYQMQVSAIVK+L KN GSLAGKKIVF Sbjct: 124 TAEDKVPLVMIGYGRTDAVDGSVFPYAFPLVTTYQMQVSAIVKYLAGKNNGSLAGKKIVF 183 Query: 181 LYHDSAYGKEPIVALEAEATLGKFKVVQIPVAHPGNEQGAQWLKIRQENPDYVIFWGWGV 240 LYHDSAYGKEPIVAL+AEA++GKFK+V+IPVAHPGNEQGAQWL+IRQENPDYVIFWGWGV Sbjct: 184 LYHDSAYGKEPIVALQAEASIGKFKLVEIPVAHPGNEQGAQWLRIRQENPDYVIFWGWGV 243 Query: 241 MNQTALKAAQKVGFARDKIIGSWWAGSEEDTIPAGEAAKGYMSATWNVAGKGVPLIADIE 300 MNQTALKAAQKVG+ARDKI+GSWWAGSEEDTIPAG+AAKGY+SATWNVAGK VP+IADI+ Sbjct: 244 MNQTALKAAQKVGYARDKIVGSWWAGSEEDTIPAGDAAKGYLSATWNVAGKDVPVIADID 303 Query: 301 KVVYGAGKGNLQDKAKIGSILYNRGVSAAIATVEAVRTAQGKFGK-KVMSGEDVRWGLEN 359 KVVYGAGKGN+QDK K+GSILYNRGVSAAIATVEAVRTAQGK+GK KVMSGE VRWG EN Sbjct: 304 KVVYGAGKGNMQDKNKLGSILYNRGVSAAIATVEAVRTAQGKYGKGKVMSGEQVRWGFEN 363 Query: 360 LNITNARLQQLGATGLLPEIKTSCDNHEGSGKVKIQQWDGSKWVLVSDWIEGNKNLIHPL 419 LNIT+ARL+ LGATGLLPEIKTSCDNHEGSGKVKIQQWDGSKWVLVSDWIEGNKNLIHPL Sbjct: 364 LNITDARLKALGATGLLPEIKTSCDNHEGSGKVKIQQWDGSKWVLVSDWIEGNKNLIHPL 423 Query: 420 FKASAAKYAKEKGITPACMK 439 FKASAAKYAKEKGITPACMK Sbjct: 424 FKASAAKYAKEKGITPACMK 443 >gi|300310288|ref|YP_003774380.1| hypothetical protein Hsero_0955 [Herbaspirillum seropedicae SmR1] Length = 438 Score = 434 bits (1117), Expect = e-123, Method: Compositional matrix adjust. Identities = 222/428 (51%), Positives = 286/428 (66%), Gaps = 5/428 (1%) Query: 8 VLAATVAASLLAPALPAMAQASDQFIAIPSYRVGPYGTNGQSYYGGYVDYLNYVNLKDGG 67 +L A ++L A A+A +QF + SYRVGPY G ++GG++DYLN VNL+DGG Sbjct: 6 ILKAIALTTVLLTAGLQQARADEQFFPLQSYRVGPYAAGGTGFFGGFIDYLNLVNLRDGG 65 Query: 68 VNGVKLSWEECETEYNNAKGVECYERMKNKNPVTKGTAINSMATGISYALIDKSVEDKVP 127 V GVKL+WEE ET+Y +GVE YER+K + + N ++ GI+YAL+D+ DKVP Sbjct: 66 VGGVKLTWEEGETQYEVERGVEVYERLKQRPNIA---TWNPLSVGIAYALLDRVTADKVP 122 Query: 128 LLMMGYGRTDAVDGSVFPYAFPLVTTYQMQVSAIVKFLTTKNGGS--LAGKKIVFLYHDS 185 LL + +GRTD DG VF Y FPL+ + S IV ++ +K GG+ L GKKIV LYH S Sbjct: 123 LLTINHGRTDTTDGRVFKYIFPLLLNPYSETSGIVNYIASKEGGADKLKGKKIVVLYHGS 182 Query: 186 AYGKEPIVALEAEATLGKFKVVQIPVAHPGNEQGAQWLKIRQENPDYVIFWGWGVMNQTA 245 YGKE I + + F + QI V HPGN+Q AQWL IR+ PDYV+ GWGVMN A Sbjct: 183 PYGKETIPIYKLLSEKYGFSLQQIEVPHPGNDQQAQWLAIRRAKPDYVVLRGWGVMNPVA 242 Query: 246 LKAAQKVGFARDKIIGSWWAGSEEDTIPAGEAAKGYMSATWNVAGKGVPLIADIEKVVYG 305 LK AQK GF D+IIG+ W+ SEED IPAG+AAKGY++ T AG P++ +I+K VYG Sbjct: 243 LKTAQKSGFPADRIIGNVWSNSEEDVIPAGDAAKGYVAITTVAAGAQYPVLQEIQKTVYG 302 Query: 306 AGKGNLQDKAKIGSILYNRGVSAAIATVEAVRTAQGKFGKKVMSGEDVRWGLENLNITNA 365 AGKGNLQD +IGS+ +N GV I VEA+R AQ +FGK+ ++G+++RWGLENLNI A Sbjct: 303 AGKGNLQDPKRIGSVYHNLGVLNGILNVEAIRIAQARFGKRTLTGDEIRWGLENLNIDQA 362 Query: 366 RLQQLGATGLLPEIKTSCDNHEGSGKVKIQQWDGSKWVLVSDWIEGNKNLIHPLFKASAA 425 R LGA GL I + DNHEG G V QQWDG +W +VSDWI + L+ P+ + SA Sbjct: 363 RTAALGAKGLFHSIHVTWDNHEGDGLVAFQQWDGKQWHVVSDWIAPDWKLLRPIIEKSAL 422 Query: 426 KYAKEKGI 433 YAKEK I Sbjct: 423 AYAKEKNI 430 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 0.315 0.133 0.397 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: 1,360,600 Number of extensions: 58210 Number of successful extensions: 165 Number of sequences better than 1.0e-08: 2 Number of HSP's gapped: 162 Number of HSP's successfully gapped: 2 Length of query: 439 Length of database: 1,619,870 Length adjustment: 88 Effective length of query: 351 Effective length of database: 1,203,190 Effective search space: 422319690 Effective search space used: 422319690 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 (21.6 bits) S2: 132 (55.5 bits)