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= 0057.0004.p (277 letters) Database: pfamseq 9,421,015 sequences; 3,060,696,203 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value B1DAF5.1 B1DAF5_9BACL Binding-protein-dependent transport system... 298 2e-79 B3KAR1.1 B3KAR1_9BACI Binding-protein-dependent transport system... 276 2e-72 B1DGV5.1 B1DGV5_9BACL Binding-protein-dependent transport system... 273 1e-71 B8I8V7.1 B8I8V7_CLOCE Binding-protein-dependent transport system... 238 5e-61 B5HTF9.1 B5HTF9_9ACTO Sugar transport system permease protein 235 3e-60 >B1DAF5.1 B1DAF5_9BACL Binding-protein-dependent transport systems inner membrane component Length = 296 Score = 298 bits (764), Expect = 2e-79, Method: Compositional matrix adjust. Identities = 146/244 (59%), Positives = 176/244 (72%) Query: 34 NAFKSTDEFNSSSSMALPKSFLNFDNFVAVFQRGGLLSGFGXXXXXXXXXXXXXXXFGTM 93 NAFK +E+ S P SFLNFDNF VF RG +L+ F GTM Sbjct: 53 NAFKGNEEYAKSGVFDFPSSFLNFDNFSTVFHRGDMLNAFMNTGTILGLSVLGNVLMGTM 112 Query: 94 VAYVLGRFSFKMKPVVFGAYLVATIIPSITTQVATFGIIKNMGLYNTLGAPIVLYIGADV 153 VA+ LGRF+FK+K + GAY+ AT+IPS+TTQVATFGIIK +GL+N+L P++LYIG DV Sbjct: 113 VAFALGRFNFKLKSWILGAYVAATLIPSVTTQVATFGIIKELGLFNSLYGPVLLYIGTDV 172 Query: 154 IQIILYLQFIRNIPVDLDESAMVEGASLFKIYRSIIFPLLTPATATLVILKTISIYNDMY 213 +QI LYLQFIR+IP DLDE+AM+EGASLF+IYRSIIFPLL PATAT VILK+ISIYNDMY Sbjct: 173 VQIYLYLQFIRHIPYDLDENAMIEGASLFRIYRSIIFPLLAPATATAVILKSISIYNDMY 232 Query: 214 IPYLYMPKQSLGVVTTVLMRFQGVNSGEWNXXXXXXXXXXXPTVVLYFFLQRYIFEGVTS 273 IPYLYMP Q L VV+T LM F GVNS +WN PT +LY +QR+IF G+ + Sbjct: 233 IPYLYMPSQKLRVVSTGLMNFVGVNSAQWNVVCAALLIILIPTTILYLAMQRFIFSGIVN 292 Query: 274 GAVK 277 G+VK Sbjct: 293 GSVK 296 >B3KAR1.1 B3KAR1_9BACI Binding-protein-dependent transport systems inner membrane component Length = 276 Score = 276 bits (705), Expect = 2e-72, Method: Compositional matrix adjust. Identities = 144/265 (54%), Positives = 178/265 (67%), Gaps = 1/265 (0%) Query: 13 KYFSLLIGXXXXXXXXXXXXXNAFKSTDEFNSSSSMALPKSFLNFDNFVAVFQRGGLLSG 72 YF+L++ AFK+ E+ S ++LP +F NF+NF V G L G Sbjct: 13 NYFTLVVALFVVFFPIYSIFVGAFKTQVEY-YQSGLSLPDNFFNFENFKRVIDIGDLGLG 71 Query: 73 FGXXXXXXXXXXXXXXXFGTMVAYVLGRFSFKMKPVVFGAYLVATIIPSITTQVATFGII 132 F FGTMVAY +GRF FKMK + G YLVA +IP +TTQVATF +I Sbjct: 72 FRNILIVLVISVVGNILFGTMVAYAVGRFEFKMKKAIMGMYLVAQVIPMVTTQVATFSVI 131 Query: 133 KNMGLYNTLGAPIVLYIGADVIQIILYLQFIRNIPVDLDESAMVEGASLFKIYRSIIFPL 192 +++G YNT+ API+LY+GADV+QI++YLQF+ +IP DLDESAM+EGASLFKIYRSIIFPL Sbjct: 132 QSLGAYNTMFAPILLYLGADVLQIVIYLQFVNSIPRDLDESAMLEGASLFKIYRSIIFPL 191 Query: 193 LTPATATLVILKTISIYNDMYIPYLYMPKQSLGVVTTVLMRFQGVNSGEWNXXXXXXXXX 252 L PATATLVILK+ISIYND Y PYLYMP Q L VV+T + F G N+ + N Sbjct: 192 LAPATATLVILKSISIYNDFYTPYLYMPSQDLKVVSTAIYSFIGPNAAQLNVISAGILII 251 Query: 253 XXPTVVLYFFLQRYIFEGVTSGAVK 277 PTVVL+ F+QRYIF GVT+GAVK Sbjct: 252 FIPTVVLFLFMQRYIFAGVTNGAVK 276 >B1DGV5.1 B1DGV5_9BACL Binding-protein-dependent transport systems inner membrane component Length = 276 Score = 273 bits (698), Expect = 1e-71, Method: Compositional matrix adjust. Identities = 144/275 (52%), Positives = 180/275 (65%), Gaps = 2/275 (0%) Query: 3 HTKFRFVDFIKYFSLLIGXXXXXXXXXXXXXNAFKSTDEFNSSSSMALPKSFLNFDNFVA 62 F F F KYF+L + AFK+ E+ S + +P + NF+NF Sbjct: 4 EESFSFTIF-KYFTLAMALFVVFFPLYSVFIGAFKTQREY-YQSGLRMPANLFNFENFSK 61 Query: 63 VFQRGGLLSGFGXXXXXXXXXXXXXXXFGTMVAYVLGRFSFKMKPVVFGAYLVATIIPSI 122 V + G L GF FGTMVAY +GRF FK+K + G YL+A +IP + Sbjct: 62 VIEIGKLGLGFKNIFIILVIAVAGNVLFGTMVAYAVGRFDFKLKKPIMGMYLIAQVIPMV 121 Query: 123 TTQVATFGIIKNMGLYNTLGAPIVLYIGADVIQIILYLQFIRNIPVDLDESAMVEGASLF 182 TTQVATF +IK++ LYNT+G PI+LY+GADV+QI++YLQF+ +IP DLDESAM+EGASLF Sbjct: 122 TTQVATFSVIKSLHLYNTMGGPIILYLGADVLQIVIYLQFVNSIPKDLDESAMMEGASLF 181 Query: 183 KIYRSIIFPLLTPATATLVILKTISIYNDMYIPYLYMPKQSLGVVTTVLMRFQGVNSGEW 242 +IYRSIIFPLL PATATLVILKTISIYND Y PYLYMP Q L VV+T + F G N+ + Sbjct: 182 RIYRSIIFPLLGPATATLVILKTISIYNDFYTPYLYMPSQKLKVVSTAIYSFVGPNAAQL 241 Query: 243 NXXXXXXXXXXXPTVVLYFFLQRYIFEGVTSGAVK 277 N PT++L+ FLQRYIF GVT+GAVK Sbjct: 242 NVISAGILIIFIPTLLLFLFLQRYIFAGVTNGAVK 276 >B8I8V7.1 B8I8V7_CLOCE Binding-protein-dependent transport systems inner membrane component Length = 278 Score = 238 bits (607), Expect = 5e-61, Method: Compositional matrix adjust. Identities = 127/277 (45%), Positives = 163/277 (58%) Query: 1 MTHTKFRFVDFIKYFSLLIGXXXXXXXXXXXXXNAFKSTDEFNSSSSMALPKSFLNFDNF 60 M K D +KY +LLI +FK++ E+ +S+ + PK +LNF NF Sbjct: 1 MASKKINTFDVLKYITLLIASFIALLPIVVVLFISFKTSSEYTNSNPLMPPKDWLNFSNF 60 Query: 61 VAVFQRGGLLSGFGXXXXXXXXXXXXXXXFGTMVAYVLGRFSFKMKPVVFGAYLVATIIP 120 F GG+L GF GTMVAYVL RF FK +V GA+L+AT+IP Sbjct: 61 HDAFSDGGMLRGFVNTVIIMAVVLFGAIIIGTMVAYVLDRFKFKGSGLVVGAFLLATLIP 120 Query: 121 SITTQVATFGIIKNMGLYNTLGAPIVLYIGADVIQIILYLQFIRNIPVDLDESAMVEGAS 180 ITTQVAT+ +I + L NT AP++L +G D+I I +++QFI NI V LDESAM+EGAS Sbjct: 121 GITTQVATYKVINALHLQNTRLAPMILGVGTDIISIYIFIQFISNISVALDESAMIEGAS 180 Query: 181 LFKIYRSIIFPLLTPATATLVILKTISIYNDMYIPYLYMPKQSLGVVTTVLMRFQGVNSG 240 F IYR II PLL PA AT+VI+K +YND Y P LYMPK SLG V+T L RFQG G Sbjct: 181 YFTIYRRIILPLLKPAIATVVIIKGTGVYNDFYTPLLYMPKSSLGTVSTSLYRFQGPYGG 240 Query: 241 EWNXXXXXXXXXXXPTVVLYFFLQRYIFEGVTSGAVK 277 W PT++ + LQ+Y + G T G+VK Sbjct: 241 RWEVICAGVIIAIIPTLIAFISLQKYFYNGFTGGSVK 277 >B5HTF9.1 B5HTF9_9ACTO Sugar transport system permease protein Length = 276 Score = 235 bits (600), Expect = 3e-60, Method: Compositional matrix adjust. Identities = 111/245 (45%), Positives = 161/245 (65%), Gaps = 1/245 (0%) Query: 34 NAFKSTDEF-NSSSSMALPKSFLNFDNFVAVFQRGGLLSGFGXXXXXXXXXXXXXXXFGT 92 + KS E N+S ++ LP LNF N+VA FQ GG+LS F G+ Sbjct: 32 TSLKSEKEMANTSGALDLPDDPLNFHNYVAAFQDGGMLSAFTNTGIILLVSVGGTVLIGS 91 Query: 93 MVAYVLGRFSFKMKPVVFGAYLVATIIPSITTQVATFGIIKNMGLYNTLGAPIVLYIGAD 152 M AY + RF+F+ K +V +L A ++P +TTQVATF I+ ++G++++L APIVLY+G D Sbjct: 92 MTAYAIDRFTFRFKKLVVALFLTAALVPGVTTQVATFQIVNSLGMFDSLWAPIVLYMGTD 151 Query: 153 VIQIILYLQFIRNIPVDLDESAMVEGASLFKIYRSIIFPLLTPATATLVILKTISIYNDM 212 ++ I ++LQF+R+IP+ LDESA ++GA+ F IYR IIFPLL PATAT+VI+K I++YND Sbjct: 152 IVSIYIFLQFVRSIPISLDESARLDGANAFTIYRKIIFPLLKPATATVVIVKGITVYNDF 211 Query: 213 YIPYLYMPKQSLGVVTTVLMRFQGVNSGEWNXXXXXXXXXXXPTVVLYFFLQRYIFEGVT 272 YIP+LYMP + LGV++T L RF+G + W PT++++ LQR+I+ G Sbjct: 212 YIPFLYMPSEDLGVISTSLFRFKGPYAAHWEVISAGAVLVILPTLIVFLSLQRFIYNGFM 271 Query: 273 SGAVK 277 GA + Sbjct: 272 RGATR 276 Database: pfamseq Posted date: Aug 5, 2010 3:22 PM Number of letters in database: 3,060,696,203 Number of sequences in database: 9,421,015 Lambda K H 0.329 0.143 0.419 Gapped Lambda K H 0.267 0.0410 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 9421015 Number of Hits to DB: 1,258,934,734 Number of extensions: 44105730 Number of successful extensions: 142007 Number of sequences better than 1.0e-05: 5010 Number of HSP's gapped: 136745 Number of HSP's successfully gapped: 5011 Length of query: 277 Length of database: 3,060,696,203 Length adjustment: 134 Effective length of query: 143 Effective length of database: 1,798,280,193 Effective search space: 257154067599 Effective search space used: 257154067599 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 (21.8 bits) S2: 130 (54.7 bits)