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= 0004.0008.p (308 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300310992|ref|YP_003775084.1| branched-chain aminoacid ABC tr... 558 e-160 gi|300310521|ref|YP_003774613.1| branched-chain amino acid ABC t... 216 1e-57 gi|300309519|ref|YP_003773611.1| branched-chain amino acid ABC t... 216 1e-57 gi|300312237|ref|YP_003776329.1| amino acid ABC transporter perm... 168 6e-43 gi|300311114|ref|YP_003775206.1| branched-chain amino acid ABC t... 135 3e-33 >gi|300310992|ref|YP_003775084.1| branched-chain aminoacid ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 308 Score = 558 bits (1438), Expect = e-160, Method: Compositional matrix adjust. Identities = 293/308 (95%), Positives = 304/308 (98%) Query: 1 MNELLPQLTQQLVNGLSLGAIYALIAIGYTMVYGIIGMINFAHGEIYMMGSYIGLVTLTA 60 MNELLPQLTQQLVNGLSLGAIYALIAIGYTMVYGIIGMINFAHGEIYM+ SY+GLVTLTA Sbjct: 1 MNELLPQLTQQLVNGLSLGAIYALIAIGYTMVYGIIGMINFAHGEIYMIASYVGLVTLTA 60 Query: 61 IGVQAGYPLPLLLGAALIVSVVVTGLYGWTVERVAYRPLRGGPRLVPLISAIGMSIFLQN 120 IGVQ+GYPLPLLLG ALIVSV+VTGLYGWTVERVAYRPLRGGPRLVPLISAIGMSIFLQN Sbjct: 61 IGVQSGYPLPLLLGGALIVSVLVTGLYGWTVERVAYRPLRGGPRLVPLISAIGMSIFLQN 120 Query: 121 YVQIGQGSRDMSVPVLISGAIEFQMGSDFTVTIPYSRMIIVGVTLLLMIGLTLFIARSRM 180 YVQIGQG+RDMSVPVLISGA+EFQMGSDFTVTIPYSRM+IVGVTL+LM+ LTLFIARSRM Sbjct: 121 YVQIGQGARDMSVPVLISGALEFQMGSDFTVTIPYSRMVIVGVTLVLMVALTLFIARSRM 180 Query: 181 GRACRACAEDMGMANLLGIDTNRVISFTFVLGAMLAAVGGVLIALTIGKLNPYIGFIAGI 240 GRACRACAEDMGMANLLGIDTN+VISFTFVLGAMLAAVGGVLIALTIGKLNPYIGFIAGI Sbjct: 181 GRACRACAEDMGMANLLGIDTNKVISFTFVLGAMLAAVGGVLIALTIGKLNPYIGFIAGI 240 Query: 241 KAFTAAVLGGIGSIPGAMLGGVLLGLAETFAAGYLPAEYKDVVSFALLVLILLFRPTGLL 300 KAFTAAVLGGIGSIPGAMLGGVLLGLAETFAAGYLP+EYKDVVSF LLVLILLFRPTGLL Sbjct: 241 KAFTAAVLGGIGSIPGAMLGGVLLGLAETFAAGYLPSEYKDVVSFGLLVLILLFRPTGLL 300 Query: 301 GKPDVEKV 308 GKPDVEKV Sbjct: 301 GKPDVEKV 308 >gi|300310521|ref|YP_003774613.1| branched-chain amino acid ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 309 Score = 216 bits (551), Expect = 1e-57, Method: Compositional matrix adjust. Identities = 135/314 (42%), Positives = 204/314 (64%), Gaps = 27/314 (8%) Query: 10 QQLVNGLSLGAIYALIAIGYTMVYGIIGMINFAHGEIYMMGSYIGLVTLTAIG-VQAGYP 68 QQ++NGL LG++YALIA+GYTMVYG++ +INFAHG+I M+G+ +GL L + V G P Sbjct: 6 QQIINGLVLGSMYALIALGYTMVYGVLNLINFAHGDILMVGAMVGLSLLKVVQQVAPGLP 65 Query: 69 LPLLLGAALIVSVVVTGLYGWTVERVAYRPLRGGPRLVPLISAIGMSIFLQNYVQIGQGS 128 + L A++ ++ V + +ER+AYRPLR PRL PLI+AIG+SI LQ + G Sbjct: 66 GIVQLVIAIVGAIPVCIVVSLLIERIAYRPLRNAPRLAPLITAIGVSILLQTLAMMIWGR 125 Query: 129 RDM-------SVPVLISGAIEFQMGSDFTVTIPYSRMIIVGVTLLLMIGLTLFIARSRMG 181 + S PV I+GA+ I ++++++ + +L M+GL L + +++MG Sbjct: 126 SPLPFPQVMPSDPVHIAGAL-----------ISPTQIMLLALAVLAMVGLVLIVEKTKMG 174 Query: 182 RACRACAEDMGMANLLGIDTNRVISFTFVLGAMLAAVGGVLIALTIGKLNPYIGFIAGIK 241 RA RA AE+ +A L+G+D N+VI TF +GA LAA+ GV+ A +GF+ G+K Sbjct: 175 RAMRATAENPRIAGLMGVDANKVIVVTFAIGAGLAAIAGVMWAANYSTAQFAMGFVPGLK 234 Query: 242 AFTAAVLGGIGSIPGAMLGGVLLGLAETFAAGY--------LPAEYKDVVSFALLVLILL 293 AF+AAVLGGIG+I GAMLGG+LLGL E+ AGY L + Y+D+ +F +L+++L Sbjct: 235 AFSAAVLGGIGNIYGAMLGGILLGLIESLGAGYIGDLTGNFLGSNYQDIFAFIVLIIVLT 294 Query: 294 FRPTGLLGKPDVEK 307 RP+G++G+ ++ Sbjct: 295 LRPSGIMGERVADR 308 >gi|300309519|ref|YP_003773611.1| branched-chain amino acid ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 309 Score = 216 bits (551), Expect = 1e-57, Method: Compositional matrix adjust. Identities = 135/314 (42%), Positives = 204/314 (64%), Gaps = 27/314 (8%) Query: 10 QQLVNGLSLGAIYALIAIGYTMVYGIIGMINFAHGEIYMMGSYIGLVTLTAIG-VQAGYP 68 QQ++NGL LG++YALIA+GYTMVYG++ +INFAHG+I M+G+ +GL L + V G P Sbjct: 6 QQIINGLVLGSMYALIALGYTMVYGVLNLINFAHGDILMVGAMVGLSLLKVVQQVAPGLP 65 Query: 69 LPLLLGAALIVSVVVTGLYGWTVERVAYRPLRGGPRLVPLISAIGMSIFLQNYVQIGQGS 128 + L A++ ++ V + +ER+AYRPLR PRL PLI+AIG+SI LQ + G Sbjct: 66 GIVQLVIAIVGAIPVCIVVSLLIERIAYRPLRNAPRLAPLITAIGVSILLQTLAMMIWGR 125 Query: 129 RDM-------SVPVLISGAIEFQMGSDFTVTIPYSRMIIVGVTLLLMIGLTLFIARSRMG 181 + S PV I+GA+ I ++++++ + +L M+GL L + +++MG Sbjct: 126 SPLPFPQVMPSDPVHIAGAL-----------ISPTQIMLLALAVLAMVGLVLIVEKTKMG 174 Query: 182 RACRACAEDMGMANLLGIDTNRVISFTFVLGAMLAAVGGVLIALTIGKLNPYIGFIAGIK 241 RA RA AE+ +A L+G+D N+VI TF +GA LAA+ GV+ A +GF+ G+K Sbjct: 175 RAMRATAENPRIAGLMGVDANKVIVVTFAIGAGLAAIAGVMWAANYSTAQFAMGFVPGLK 234 Query: 242 AFTAAVLGGIGSIPGAMLGGVLLGLAETFAAGY--------LPAEYKDVVSFALLVLILL 293 AF+AAVLGGIG+I GAMLGG+LLGL E+ AGY L + Y+D+ +F +L+++L Sbjct: 235 AFSAAVLGGIGNIYGAMLGGILLGLIESLGAGYIGDLTGNFLGSNYQDIFAFIVLIIVLT 294 Query: 294 FRPTGLLGKPDVEK 307 RP+G++G+ ++ Sbjct: 295 LRPSGIMGERVADR 308 >gi|300312237|ref|YP_003776329.1| amino acid ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 293 Score = 168 bits (425), Expect = 6e-43, Method: Compositional matrix adjust. Identities = 109/297 (36%), Positives = 175/297 (58%), Gaps = 13/297 (4%) Query: 8 LTQQLVNGLSLGAIYALIAIGYTMVYGIIGMINFAHGEIYMMGSYIGLVTLTAIGVQAGY 67 L QQL+N LSLG++YAL A+G+T+V+G++G+IN +HG I+M+GSY L+ + Q Sbjct: 2 LEQQLINALSLGSVYALFALGFTLVFGVLGVINLSHGAIFMLGSYAALLLVE----QMAL 57 Query: 68 PLPLLLGAALIVSVVVTGLYGWTVERVAYRPLR--GGPRLVPLISAIGMSIFLQNYVQIG 125 PL AL++++V TGL G ++ + +PLR P L+P+I+ IG++I + N Q Sbjct: 58 PL----WVALLLAMVATGLLGLIIDVLVLKPLRKRNAPHLIPMIATIGVAIMITNISQGL 113 Query: 126 QGSRDMSVPVLISGAIEFQMGSDFTVTIPYSRMIIVGVTLLLMIGLTLFIARSRMGRACR 185 G+ + P G I + S + I ++ I+ + +LM+ L + ++++GRA R Sbjct: 114 FGAENKRFP---QGTIPEESVSLGNLHITAVQVAIIVIAFVLMVVLLGVMRKTQLGRALR 170 Query: 186 ACAEDMGMANLLGIDTNRVISFTFVLGAMLAAVGGVLIALTIGKLNPYIGFIAGIKAFTA 245 A AE A LLGI+ + T A L GVL+ ++ ++P++G K Sbjct: 171 AIAESPKAAYLLGINVEGLFLLTSFAAAALGGAAGVLVGVSFNAISPFMGQPMLHKGIAV 230 Query: 246 AVLGGIGSIPGAMLGGVLLGLAETFAAGYLPAEYKDVVSFALLVLILLFRPTGLLGK 302 +LGG+G I GAM+GG+ LG AE Y+ ++++D V+F LL LILL +P+G+ GK Sbjct: 231 IILGGMGDIRGAMIGGLFLGFAEVLTVAYISSDFRDAVAFGLLFLILLVKPSGMFGK 287 >gi|300311114|ref|YP_003775206.1| branched-chain amino acid ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 296 Score = 135 bits (341), Expect = 3e-33, Method: Compositional matrix adjust. Identities = 110/306 (35%), Positives = 174/306 (56%), Gaps = 18/306 (5%) Query: 8 LTQQLVNGLSLGAIYALIAIGYTMVYGIIGMINFAHGEIYMMGSYIGLVTLTAIGVQAGY 67 L Q + +G++LG IYA+IA GY + + G +NF GE M+G+ +GL + +G G Sbjct: 4 LLQLVFSGIALGMIYAVIAFGYQLTFATSGTLNFGQGEALMLGALVGL---SVVGNIHGG 60 Query: 68 PLPLLLGAALIVSVVVT--GLYGWTVERVAYRP-LRGGPRLVPLISAIGMSIFLQNYVQI 124 P L L++ +V+ L G VE + RP ++ ++S I ++I +N + Sbjct: 61 PY---LNYWLMIPIVLVFGALQGMFVEWIGVRPAIKIKSEFGWIMSTIALAIIFKNVAEN 117 Query: 125 GQGSRDMSVPVLISGAIEFQM-GSDFTVTIPYSRMIIVGVTLLLMIGLTLFIARSRMGRA 183 G D+ P ISGA FQ+ G++ P +++VG LL+M + LF +S G+A Sbjct: 118 IWGKDDLPFPSPISGA-PFQIFGANVQ---PMQVLVVVG-ALLIMAAVELFNRKSIYGKA 172 Query: 184 CRACAEDMGMANLLGIDTNRVISFTFVLGAMLAAVGGVLIA-LTIGKLNPYIGFIAGIKA 242 A + D A L+GI+T+ VI+F++ L + AA GVL+A LT+ +G G+KA Sbjct: 173 VVATSNDRDAAGLMGINTSMVITFSYALSSATAAFAGVLVAPLTL--TGATMGAALGLKA 230 Query: 243 FTAAVLGGIGSIPGAMLGGVLLGLAETFAAGYLPAEYKDVVSFALLVLILLFRPTGLLGK 302 F A++GG+ S GA++GG++LG+AET Y+ YK+V LL+L+L +P GL GK Sbjct: 231 FAVAIIGGLTSGMGAIVGGLILGVAETLTGFYISTGYKEVPGLVLLLLVLAVKPAGLFGK 290 Query: 303 PDVEKV 308 ++KV Sbjct: 291 TAIKKV 296 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 0.146 0.422 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: 882,266 Number of extensions: 35313 Number of successful extensions: 337 Number of sequences better than 1.0e-08: 31 Number of HSP's gapped: 281 Number of HSP's successfully gapped: 32 Length of query: 308 Length of database: 1,619,870 Length adjustment: 85 Effective length of query: 223 Effective length of database: 1,217,395 Effective search space: 271479085 Effective search space used: 271479085 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: 130 (54.7 bits)