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= 0005.0265.p (237 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300309490|ref|YP_003773582.1| branched-chain amino acid ABC t... 62 6e-11 gi|300313292|ref|YP_003777384.1| branched-chain amino acid ABC t... 59 5e-10 gi|300311772|ref|YP_003775864.1| branched-chain amino acid ABC t... 56 2e-09 gi|300312339|ref|YP_003776431.1| branched-chain amino acid ABC t... 55 3e-09 >gi|300309490|ref|YP_003773582.1| branched-chain amino acid ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 404 Score = 61.6 bits (148), Expect = 6e-11, Method: Compositional matrix adjust. Identities = 53/179 (29%), Positives = 86/179 (48%), Gaps = 8/179 (4%) Query: 6 PWRSRRLLPAVGLFTALMGAS---AAHAADPDVFKIGGVVSLSGTYGIF-GEDMRKGVEV 61 P+ R L A AL+GA+ +A AA D KIG + +SGTY F G+ + + + Sbjct: 3 PFIRRAALSATA--CALLGAAILPSAQAA-GDTIKIGFITDMSGTYADFDGQGGVEAIRM 59 Query: 62 AIAERGGKVLGKPIQVTWEDDETKPQPAVQKATRLIA-DGSQMIFGAVSSASTIAIMNIT 120 AIA+ GG + GK +++ + D + K A KA DG M+ G V+SA+++A+ + Sbjct: 60 AIADAGGAINGKKVELVFADHQNKADIAANKAREWFDRDGVDMLVGGVNSAASLAMGKVA 119 Query: 121 KQRKIPHLVTMSADDKITTPGASRYTFRTSNTLGMEQRMALGYSKEQKLKRVYGVTADY 179 ++K + + + T + YT + + R Q K Y +TADY Sbjct: 120 GEKKKVFISVGAGTTRQTNEECNAYTIQYAYDTTALARGTGAAITRQGGKSWYFLTADY 178 >gi|300313292|ref|YP_003777384.1| branched-chain amino acid ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 391 Score = 58.5 bits (140), Expect = 5e-10, Method: Compositional matrix adjust. Identities = 50/179 (27%), Positives = 85/179 (47%), Gaps = 10/179 (5%) Query: 19 FTALMGAS----AAHAADPDVFKIGGVVSLSGTYGIFGEDMRKGVEVAIAERGGKVLGKP 74 A+M AS A+ A + K+G + + SG + +G+ M G++ +A+ G +V GK Sbjct: 8 LLAVMAASGGLLASLAQAQETIKVGLIAAFSGPFADYGKQMEGGIKAYMAQHGDQVAGKK 67 Query: 75 IQVTWEDDETKPQPAVQK--ATRLIA-DGSQMIFGAVSSASTIAIMNITKQRKIPHLVTM 131 IQ+ + D T P P + K A L+ + + G + +A+ I +Q K P ++ Sbjct: 68 IQIIIK-DTTGPSPEIAKRLAQELVVREKVDFLAGFGLTPEALAVAPIAEQAKKPMIIMN 126 Query: 132 SADDKITTPGASRYTFRTSNTLGMEQRMALGYSKEQKLKRVYGVTADYQATRDSWEWYR 190 +A ITT S Y R S TL ++ + +KRV + ADY D+ ++ Sbjct: 127 AATSVITT--KSNYIARFSMTLPQVSGPMATWALKNGIKRVVTLVADYGPGIDAETAFK 183 >gi|300311772|ref|YP_003775864.1| branched-chain amino acid ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 404 Score = 56.2 bits (134), Expect = 2e-09, Method: Compositional matrix adjust. Identities = 48/161 (29%), Positives = 77/161 (47%), Gaps = 6/161 (3%) Query: 23 MGASAAHAADPDVFKIGGVVSLSGTYGIFGEDMRKGVEVAIAE--RGGKVLGKPIQVTWE 80 MG+ AA A D +IG + S F E R+G E+A+ E G VLGK ++V Sbjct: 21 MGSVAARAQD--TIRIGEINSYKAQPA-FLEPYRRGWEMALDEINASGGVLGKKLEVIAR 77 Query: 81 DDETKPQPAVQKATRLIA-DGSQMIFGAVSSASTIAIMNITKQRKIPHLVTMSADDKITT 139 DD P +V+ A L+A + ++FG S + +A+ + KQ ++ L DKI Sbjct: 78 DDNGNPGDSVRVAEELMARERVALLFGGFLSNTGLALTDYAKQHRVFFLAAEPLTDKIVW 137 Query: 140 PGASRYTFRTSNTLGMEQRMALGYSKEQKLKRVYGVTADYQ 180 ++YT+R + M + + + K KR V +Y+ Sbjct: 138 QNGNKYTYRLRPSTSMLVASVVKEAVKLKKKRWAIVYPNYE 178 >gi|300312339|ref|YP_003776431.1| branched-chain amino acid ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 404 Score = 55.5 bits (132), Expect = 3e-09, Method: Compositional matrix adjust. Identities = 50/174 (28%), Positives = 86/174 (49%), Gaps = 7/174 (4%) Query: 10 RRLLPAVGLFTALMGASAAHAADPDVFKIGGVVSLSGTYG-IFGEDMRKGVEVAIAERGG 68 RRL A + GA+ A ++ D +IG + +SG Y G + + +A+A+ GG Sbjct: 8 RRLAAACAIAGIFSGAALAQVSN-DAVRIGFITDMSGPYADTDGLGGLEAIRMAVADFGG 66 Query: 69 KVLGKPIQVTWEDDETKPQPAVQKATRLIAD--GSQMIFGAVSSASTIAIMNITKQRKIP 126 VLGKPI+V D + K A +A R AD G M+ G V+SA+ +++ + ++K Sbjct: 67 TVLGKPIEVISADHQNKADIAATRA-REWADERGLDMLIGGVNSATALSMNKVMAEKKRV 125 Query: 127 HLVTMSADDKITTPGASRYTFRTS-NTLGMEQRMALGYSKEQKLKRVYGVTADY 179 ++ + ++T + YT +T+ + + A K Q K + + ADY Sbjct: 126 YINIGAGTARLTNEECTPYTVHYEYDTVALAKGTASAVIK-QGGKSWFFLVADY 178 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 0.132 0.393 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: 787,078 Number of extensions: 32348 Number of successful extensions: 136 Number of sequences better than 1.0e-08: 6 Number of HSP's gapped: 139 Number of HSP's successfully gapped: 6 Length of query: 237 Length of database: 1,619,870 Length adjustment: 82 Effective length of query: 155 Effective length of database: 1,231,600 Effective search space: 190898000 Effective search space used: 190898000 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: 129 (54.3 bits)