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= 0030.0116.p (262 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300310287|ref|YP_003774379.1| branched-chain amino acid ABC t... 407 e-115 gi|300311879|ref|YP_003775971.1| amino acid ABC transporter perm... 270 9e-74 gi|300311115|ref|YP_003775207.1| branched-chain amino acid ABC t... 97 2e-21 gi|300310993|ref|YP_003775085.1| branched-chain amino acid ABC t... 84 8e-18 gi|300312238|ref|YP_003776330.1| amino acid ABC transporter perm... 75 5e-15 >gi|300310287|ref|YP_003774379.1| branched-chain amino acid ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 347 Score = 407 bits (1047), Expect = e-115, Method: Compositional matrix adjust. Identities = 228/257 (88%), Positives = 235/257 (91%) Query: 1 MTTSLASSPRVLPLRGLSWRRAAPWLLLLVVAWVILPLFASPYVIDALLIPFLALSLAAV 60 MT SLA S R R A PWLLLL+ A+V++P AS Y+IDALLIPFLALSLAAV Sbjct: 1 MTISLAPSSRRFSAPRAWLRAAWPWLLLLLAAYVVVPWIASAYLIDALLIPFLALSLAAV 60 Query: 61 GLNLLTGYAGQLSLGSSAFMAVGAFAAYNLNLRVEGLPLLVSIALAGLAATAIGLVFGLP 120 GLNLLTGYAGQLSLGS+AFMAVGAFAAYNLNLRV GLPLLVSI LAGLAATAIGLVFGLP Sbjct: 61 GLNLLTGYAGQLSLGSAAFMAVGAFAAYNLNLRVAGLPLLVSIVLAGLAATAIGLVFGLP 120 Query: 121 SLRLRGFYLAVSTLAAQFFVQWVLVKFSWFSNDNPSGVIDAPPLVVGGLAFDTPAGRYLF 180 SLRLRGFYLAVSTLAAQFFVQWVLVKFSWFSNDNPSGVIDAPPLVVGGLAFDTPAGRYLF Sbjct: 121 SLRLRGFYLAVSTLAAQFFVQWVLVKFSWFSNDNPSGVIDAPPLVVGGLAFDTPAGRYLF 180 Query: 181 ALAIVTVLTLLCWRLVQSQTGHHFIAVRDNELAARVIGVPVLRTKLLAFAVSSFVIGVAG 240 ALAIVTVLTLLCWRLVQSQTGHHFIAVRDNE AARVIGVPVLRTKLLAFA+SSFVIGVAG Sbjct: 181 ALAIVTVLTLLCWRLVQSQTGHHFIAVRDNEQAARVIGVPVLRTKLLAFAISSFVIGVAG 240 Query: 241 VLWGFVYLRTVEPAGTN 257 VLWGFVYLRTVEPAG N Sbjct: 241 VLWGFVYLRTVEPAGFN 257 >gi|300311879|ref|YP_003775971.1| amino acid ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 358 Score = 270 bits (690), Expect = 9e-74, Method: Compositional matrix adjust. Identities = 141/254 (55%), Positives = 188/254 (74%), Gaps = 4/254 (1%) Query: 2 TTSLASSPRVLPLRGLSWRRAAPWLLLLVVAWVILPLFASPYVIDALLIPFLALSLAAVG 61 TS + ++ P+R + + L +V A+V +PL S Y A+L+PFL +LAA+G Sbjct: 10 KTSYIADSQIFPIR----QDRIIFTLFMVFAFVGVPLLGSEYWFSAILVPFLVFALAALG 65 Query: 62 LNLLTGYAGQLSLGSSAFMAVGAFAAYNLNLRVEGLPLLVSIALAGLAATAIGLVFGLPS 121 LN+LTGYAGQLSLGS+AFMAVGA+AAYN LRV+G+P++ ++ L+G A +G++FGLPS Sbjct: 66 LNVLTGYAGQLSLGSAAFMAVGAYAAYNFQLRVDGIPIVATLLLSGGCAALVGVLFGLPS 125 Query: 122 LRLRGFYLAVSTLAAQFFVQWVLVKFSWFSNDNPSGVIDAPPLVVGGLAFDTPAGRYLFA 181 LR++GFYLAV+TLAAQFFV W L KF WFSN++ SGVI P + G+A DTP +YLF Sbjct: 126 LRIKGFYLAVATLAAQFFVVWALTKFPWFSNNSSSGVISTPKIDFFGIAIDTPVRKYLFV 185 Query: 182 LAIVTVLTLLCWRLVQSQTGHHFIAVRDNELAARVIGVPVLRTKLLAFAVSSFVIGVAGV 241 LA+V+VL L+ LV+S TG ++AVRD ++AA VIG+P++RTKL AFAVSSF GVAG Sbjct: 186 LAVVSVLALVAKNLVRSSTGRAWMAVRDMDVAAEVIGIPLMRTKLTAFAVSSFYCGVAGA 245 Query: 242 LWGFVYLRTVEPAG 255 L+ F YL +VEP G Sbjct: 246 LYAFCYLGSVEPDG 259 >gi|300311115|ref|YP_003775207.1| branched-chain amino acid ABC transporter ATPase [Herbaspirillum seropedicae SmR1] Length = 655 Score = 96.7 bits (239), Expect = 2e-21, Method: Compositional matrix adjust. Identities = 71/222 (31%), Positives = 131/222 (59%), Gaps = 10/222 (4%) Query: 27 LLLVVAWVILPLFA-SPYVIDALLIPFLALSLAAVGLNLLTGYAGQLSLGSSAFMAVGAF 85 LL +VA +P+ +PY + L+ L ++ GL+++ GY GQ+SLG + +G++ Sbjct: 10 LLGIVALAGIPMVVHNPYYLH-LIETILIYAILLFGLDIVVGYTGQVSLGHAGLFGIGSY 68 Query: 86 AAYNLNLRVEGLPLLVSIALAGLAATAI-GLVFGLPSLRLRGFYLAVSTLAAQFFVQWVL 144 AA L ++ G+P+ V++ A +A TA+ G + LP+LR+ G YLA+ TLA +Q +L Sbjct: 69 AAGVLFFKL-GMPIFVTVP-AAIAVTAVFGAILALPALRVTGPYLAMVTLAFGTIIQ-IL 125 Query: 145 VKFSWFSNDNPSGVIDAPPLVVGGLAFDTPAGRYLFALAIVTVLTLLC-WRLVQSQTGHH 203 + F + P G+ P++ G + ++ + +A++ VL++L R+++S G Sbjct: 126 INEMTFLTEGPLGIKLQKPMIGGDKMSEV---QFFYLVAVLMVLSMLVVHRILKSNLGRA 182 Query: 204 FIAVRDNELAARVIGVPVLRTKLLAFAVSSFVIGVAGVLWGF 245 F A+RD+ +A+ +GV V R K+ AF +S+ + G++G L+ + Sbjct: 183 FQALRDSPIASDCMGVSVYRYKVYAFIISAALAGLSGALYAY 224 >gi|300310993|ref|YP_003775085.1| branched-chain amino acid ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 408 Score = 84.3 bits (207), Expect = 8e-18, Method: Compositional matrix adjust. Identities = 78/260 (30%), Positives = 125/260 (48%), Gaps = 32/260 (12%) Query: 4 SLASSPRVLPLRGLSWRRAAPWLLLLVVAWVILPLFASPYVIDALLIPFLALSLAAVGLN 63 L + PR+ P + +RAA +++L++A ++ P F S +D + + + + L +GLN Sbjct: 68 KLPALPRMQPRQ----QRAA--VMILLMAALVWPFFGSRGYVDVMTLALIYVVLG-LGLN 120 Query: 64 LLTGYAGQLSLGSSAFMAVGAFAAYNLNLRVEGLPLLVSIALAGLAATAIGLVFGLPSLR 123 ++ G+AG L LG F AVGA+ Y L + GL + LA A+ G + G P LR Sbjct: 121 IVVGFAGLLDLGYVGFYAVGAYT-YALCNQYFGLTFWECVPLAAAASALFGFLLGFPVLR 179 Query: 124 LRGFYLAVSTLAAQFFVQWVLVKFSWFSNDNPSGVIDAP------------PLVVGGLAF 171 LRG YLA+ TL ++ +L + + P GV P P+ GG F Sbjct: 180 LRGDYLAIVTLGFGEIIRLLLNNMTSITG-GPDGVSGIPKPTVFGLVMARNPVTEGGTTF 238 Query: 172 DTPAGR-----------YLFALAIVTVLTLLCWRLVQSQTGHHFIAVRDNELAARVIGVP 220 G Y AL +V + RL++ G + A+R++E+A R +G+ Sbjct: 239 HQLFGLSYQGGHMVIFLYFLALLMVLFTYFVTSRLLRMPMGRAWEALREDEIACRSLGIN 298 Query: 221 VLRTKLLAFAVSSFVIGVAG 240 + KL AF + + G+AG Sbjct: 299 PTKVKLSAFTLGAAFAGLAG 318 >gi|300312238|ref|YP_003776330.1| amino acid ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 288 Score = 75.5 bits (184), Expect = 5e-15, Method: Compositional matrix adjust. Identities = 52/161 (32%), Positives = 88/161 (54%), Gaps = 14/161 (8%) Query: 69 AGQLSLGSSAFMAVGAFAAYNLNLRVEGLPLLVSIALAGLAATAIGLVFGLPSLRLRGFY 128 G LSL ++AFM +GA+ A L ++ E +P +++A G+ + LV G+P+LRL G Y Sbjct: 34 CGLLSLANAAFMGIGAYTASLLTMQFE-MPFPIALAAGGVLPALVALVIGIPTLRLSGVY 92 Query: 129 LAVSTLAAQFFVQWVLVKFSWFSNDNPSGVIDAPPLVVGGLAFDTPAGRYLFALAIVTVL 188 LA++TL V+ +++ P G+ PP+ + + ++ V Sbjct: 93 LAMATLGFGEVVRVIVLNLD--ITGGPMGLNGVPPIT-----------EWWHIVLLLGVT 139 Query: 189 TLLCWRLVQSQTGHHFIAVRDNELAARVIGVPVLRTKLLAF 229 + RL +S+ G F A++++E+AAR++GV V KLLAF Sbjct: 140 IYVLARLRRSKIGRAFEAIKEDEIAARLMGVNVAGYKLLAF 180 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 0.327 0.141 0.433 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: 735,997 Number of extensions: 28555 Number of successful extensions: 215 Number of sequences better than 1.0e-08: 19 Number of HSP's gapped: 194 Number of HSP's successfully gapped: 19 Length of query: 262 Length of database: 1,619,870 Length adjustment: 83 Effective length of query: 179 Effective length of database: 1,226,865 Effective search space: 219608835 Effective search space used: 219608835 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 15 ( 7.1 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 40 (21.7 bits) S2: 129 (54.3 bits)