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= 0001.2905.p (291 letters) Database: BlastDatabases/690/690 3295 sequences; 1,000,347 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|134095638|ref|YP_001100713.1| high-affinity branched-chain am... 139 1e-34 gi|134096409|ref|YP_001101484.1| putative high-affinity branched... 129 2e-31 gi|134095848|ref|YP_001100923.1| high-affinity branched-chain am... 123 8e-30 gi|134093664|ref|YP_001098739.1| putative ABC transporter permea... 60 1e-10 gi|134096410|ref|YP_001101485.1| high-affinity branched-chain am... 54 9e-09 >gi|134095638|ref|YP_001100713.1| high-affinity branched-chain amino acid ABC transporter membrane protein [Herminiimonas arsenicoxydans] Length = 404 Score = 139 bits (351), Expect = 1e-34, Method: Compositional matrix adjust. Identities = 110/333 (33%), Positives = 164/333 (49%), Gaps = 81/333 (24%) Query: 26 MLALSIYVTLS-CGLLSLANAAFMGIGAY-TASLLTMQF---------DLP--------- 65 MLAL + + + GLL L AF IGAY TA L + QF P Sbjct: 51 MLALGLNIVVGFAGLLDLGYIAFYAIGAYLTALLASPQFAVVLESFVNQYPPIGAALMWV 110 Query: 66 FPIALAAGGV---------LPALVA----LVIGIPTLRLSGVYLAMATLGFGEVVRVIVL 112 F +A G+ L LVA ++G PTL+L G YLA+ TLGFGE++R+ + Sbjct: 111 FGSEIAQNGIHLSLWVIVPLAVLVAGFFGALLGAPTLKLRGDYLAIVTLGFGEIIRIFMN 170 Query: 113 NLD----ITGGPMGLNGVPPI---------------------------TEWWHIVLLLGV 141 NL+ IT GP G+N + PI ++ + L+L + Sbjct: 171 NLNGPVNITNGPQGINMIDPIRIFGVSLNGDEGSASTVMLGNYAMPSVNAYYFLFLVLCI 230 Query: 142 TIYALA-RLRRSKIGRAFEAIKEDEVAARLMGVNVAGYKLLAFVIGAAIAGVAGGLNAHY 200 I ++ RL+ S++GRAF AI+EDE+AA+ MG+N KLLAF +GA+ GVAG + A + Sbjct: 231 AIIFISVRLQNSRLGRAFVAIREDEIAAKAMGINTRNVKLLAFAMGASFGGVAGAMFASF 290 Query: 201 TFTIGPNNYGFENAVDILTMAVFGGTSNLIGPMIGSTILSLLPEVLRHFKD--------- 251 + P ++ ++ +L M V GG ++ G ++G +L+ LPEVLRH + Sbjct: 291 QGFVSPESFSLTESIAVLAMVVLGGMGHIPGVVLGGILLAALPEVLRHVVEPLQRTLFGE 350 Query: 252 -------FRLAINGLILILVVLYLPKGIWDPRR 277 R + GL ++L++L P G+W R Sbjct: 351 VLIDAEILRQLLYGLAMVLIMLIRPAGLWPAPR 383 >gi|134096409|ref|YP_001101484.1| putative high-affinity branched-chain amino acid transport system permease protein braE [Herminiimonas arsenicoxydans] Length = 388 Score = 129 bits (324), Expect = 2e-31, Method: Compositional matrix adjust. Identities = 86/287 (29%), Positives = 155/287 (54%), Gaps = 25/287 (8%) Query: 24 NAMLALSIYVTLSCGLLSLANAAFMGIGAYTASLLTMQFDLPFPIALAAGGVLPALVALV 83 A + L++ S G+ + A AAF GIG+YT ++L LP + +A G++ A++ + Sbjct: 105 TACMGLTVQFGFS-GVSNFAGAAFFGIGSYTTAVLATHTGLPTLVTIAISGIVAAVIGSI 163 Query: 84 IGIPTLRLSGVYLAMATLGFGEVVRVIVLNLDITGGPMGLNGVPPITEWWH--------- 134 + P LR G Y A+ T+ FG + + + D+ GGP GL VP +T + H Sbjct: 164 LIWPVLRTRGHYAALVTIAFGILFKTFLEVNDVLGGPQGLQ-VPGMTLFGHAFNDNFTLF 222 Query: 135 ------------IVLLLGVTIYALAR-LRRSKIGRAFEAIKEDEVAARLMGVNVAGYKLL 181 + LLL V ++ L + L RS +G + + ++ DE AA G+++ +K++ Sbjct: 223 GVEFSFYVNYVLLSLLLFVCVFVLVKALERSWVGLSMDVVRTDETAASTFGLHIVRWKVI 282 Query: 182 AFVIGAAIAGVAGGLNAHYTFTIGPNNYGFENAVDILTMAVFGGTSNLIGPMIGSTILSL 241 AF +G AGVAG + + PNN+ F +++ +L++ + GG N+IG + + I+ + Sbjct: 283 AFTLGNLFAGVAGSIYGMMVGFVAPNNFTFADSLLLLSITILGGLGNVIGLIPAAIIVLM 342 Query: 242 LPEVLRHFKDFRLAINGLILILVVLYLPKGIWDPRRIRALLGRNAEK 288 LPE L+ +++R+ + ++I ++L+ P G+ PR+ R R A + Sbjct: 343 LPEKLQFIQEYRVLLYAALVIAILLFRPDGLL-PRKTRLFFSRRAAQ 388 >gi|134095848|ref|YP_001100923.1| high-affinity branched-chain amino acid ABC transporter ATP-binding protein [Herminiimonas arsenicoxydans] Length = 608 Score = 123 bits (309), Expect = 8e-30, Method: Compositional matrix adjust. Identities = 87/257 (33%), Positives = 152/257 (59%), Gaps = 12/257 (4%) Query: 27 LALSIYVTLSCGLLSLANAAFMGIGAYTASLLTMQFDLPFPIALAAGGVLPALVALVIGI 86 L L+I L+ GL+SL A IGAYT+++L+ +F + A +L A +++ Sbjct: 49 LGLNILTGLT-GLVSLGQAGLFAIGAYTSAVLSTKFGFGLGTCIVAAMILSAAFGVLLSY 107 Query: 87 PTLRLSGVYLAMATLGFGEVVRVIVLN-LDITGGPMGLNGVP-------PI--TEWWHIV 136 PT+R+ GVYL + T+ FG +V + + +TGGP G++ +P P+ T++++++ Sbjct: 108 PTVRVRGVYLTVITIAFGIIVENVAIEWSSLTGGPNGISSIPTPTMFGLPLEDTKFFYVL 167 Query: 137 LLLGVTIYALA-RLRRSKIGRAFEAIKEDEVAARLMGVNVAGYKLLAFVIGAAIAGVAGG 195 +L + + L L +S+ GRA A+ + E AAR +G+N ++++FVI AA AG AG Sbjct: 168 AILFLLAFLLHYNLIKSRFGRAMRAVSQSETAARTVGINPIVMRMMSFVIAAAFAGAAGA 227 Query: 196 LNAHYTFTIGPNNYGFENAVDILTMAVFGGTSNLIGPMIGSTILSLLPEVLRHFKDFRLA 255 A + P+ + F+++V L M + GG+ +IGP +G+TIL+ +PE L+ F +++ Sbjct: 228 TYAFLNQYVNPDTFRFDDSVRFLLMVILGGSGTVIGPALGATILTFIPEYLQSFGEWQRF 287 Query: 256 INGLILILVVLYLPKGI 272 G++L LV+ +P GI Sbjct: 288 AYGVLLALVMFGMPMGI 304 >gi|134093664|ref|YP_001098739.1| putative ABC transporter permease [Herminiimonas arsenicoxydans] Length = 343 Score = 60.1 bits (144), Expect = 1e-10, Method: Compositional matrix adjust. Identities = 74/270 (27%), Positives = 123/270 (45%), Gaps = 23/270 (8%) Query: 38 GLLSLANAAFMGIGAYTASLLTMQFDL-PFPIALAAGGVLPALVALVIGIPTLRLSGVYL 96 GLLS +A F+ IGAY A+ L + + F + L V ++++ I R +G++ Sbjct: 76 GLLSFGHALFIAIGAYAAAALVSKTGMVSFELMLLTAIVASTIISIPIAWLASRFTGIFF 135 Query: 97 AMATLGFGEVVRVIVLNLD-ITGGPMGLNGVPPIT-------------------EWWHIV 136 M TL FG + + ITGG G+ VP T ++ +V Sbjct: 136 GMLTLSFGMLFHSFLNKFYYITGGDSGMR-VPRPTLFGMELDQFDKTAFLGGPFYYYCLV 194 Query: 137 LLLGVTIYALARLRRSKIGRAFEAIKEDEVAARLMGVNVAGYKLLAFVIGAAIAGVAGGL 196 ++L +T+ + R+ RS G A +++ V A +GV + + +AFVI A A + G + Sbjct: 195 MILLLTL-VMWRIVRSPYGIHLMASRDNAVKALYLGVKIRSVRAIAFVISAVYASIGGVI 253 Query: 197 NAHYTFTIGPNNYGFENAVDILTMAVFGGTSNLIGPMIGSTILSLLPEVLRHFKDFRLAI 256 T P + ++ ++ MAV GG +GP++G+ + LL + L + Sbjct: 254 LGVNTGLADPELAYWTHSGHLVFMAVLGGYQEFLGPVLGAFVFILLQDELSSLTQYWRFF 313 Query: 257 NGLILILVVLYLPKGIWDPRRIRALLGRNA 286 G IL ++V+ LP GI R G A Sbjct: 314 LGAILAILVVVLPGGIMGAVRKFKSKGEQA 343 >gi|134096410|ref|YP_001101485.1| high-affinity branched-chain amino acid ABC transporter membrane protein [Herminiimonas arsenicoxydans] Length = 294 Score = 53.9 bits (128), Expect = 9e-09, Method: Compositional matrix adjust. Identities = 47/153 (30%), Positives = 77/153 (50%), Gaps = 20/153 (13%) Query: 135 IVLLLGVTIYALAR--LRRSKIGRAFEAIKEDEVAARLMGVNVAGYKLLAFVIGAAIAGV 192 I+LL G+ I A + R+++G A A+ +D ARLMG+N LL F +G+ +A + Sbjct: 138 ILLLSGLAIIAGVHFLITRTRLGMAIRAVAQDGETARLMGINFEAVVLLTFALGSGMAAL 197 Query: 193 AGGLNAHYTFTIGPNNYGFENAVDILTMAVFGGTSNLIGPMIG------------STILS 240 AG +N Y I N G V A+ GG N+ G +IG +T+ + Sbjct: 198 AGVMNGLYYNEIN-FNVGLLLGVIGFAAAILGGLGNIYGAIIGGFLFAGLQVLGSATLPA 256 Query: 241 LLPEVLRHFKD-FRLAINGLILILVVLYLPKGI 272 L+P + +KD F A ++I+++ + P G+ Sbjct: 257 LIPNIPSAYKDVFAFA----VVIILMAWKPTGL 285 Database: BlastDatabases/690/690 Posted date: Apr 9, 2011 4:48 AM Number of letters in database: 1,000,347 Number of sequences in database: 3295 Lambda K H 0.327 0.144 0.437 Gapped Lambda K H 0.267 0.0410 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 3295 Number of Hits to DB: 477,941 Number of extensions: 17646 Number of successful extensions: 102 Number of sequences better than 1.0e-08: 7 Number of HSP's gapped: 91 Number of HSP's successfully gapped: 8 Length of query: 291 Length of database: 1,000,347 Length adjustment: 81 Effective length of query: 210 Effective length of database: 733,452 Effective search space: 154024920 Effective search space used: 154024920 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: 128 (53.9 bits)