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= 0234.0005.p (253 letters) Database: pfamseq 9,421,015 sequences; 3,060,696,203 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value B3K4F8.1 B3K4F8_9BACI Binding-protein-dependent transport system... 289 1e-76 A6CPC0.1 A6CPC0_9BACI Hydroxymethylpyrimidine transport system p... 228 5e-58 Q2B456.1 Q2B456_9BACI ABC transporter, permease component 205 3e-51 B1HP91.1 B1HP91_LYSSC Hypothetical ABC transporter permease protein 198 4e-49 B1DJN5.1 B1DJN5_9BACL Binding-protein-dependent transport system... 193 9e-48 >B3K4F8.1 B3K4F8_9BACI Binding-protein-dependent transport systems inner membrane component Length = 255 Score = 289 bits (740), Expect = 1e-76, Method: Compositional matrix adjust. Identities = 141/252 (55%), Positives = 182/252 (72%), Gaps = 3/252 (1%) Query: 2 RSYWNQIWPPLVAVIFFLGAWQLAVSVFHVPFWMLPSPGDIARESQGNA---SGIWAHTA 58 + +W+ +WPP AV+FFL WQ AVSVF + ++LP+P I E+ A SG++ HT Sbjct: 3 KGWWSSVWPPAAAVLFFLTVWQAAVSVFDIEPYILPAPTAIGHEAATGATGASGLFQHTL 62 Query: 59 ATLRLTLIGFPVGTGVGLIVALVLHLVPWLKRALYPLLILSQNVPSIALGPLLIIWFGFG 118 ATL+LTL+GF +GT +GL+++L LHLVP+LK ALYPLLILSQNVP+IAL PLL+IWFGFG Sbjct: 63 ATLQLTLVGFMIGTAIGLVISLALHLVPFLKTALYPLLILSQNVPTIALAPLLMIWFGFG 122 Query: 119 LLPKIVLITLVCFFPVAVAAMGGLAQSDRIMMNYMKMAGANQWQIFTKXXXXXXXXXXXX 178 +LPK+++ITLVCFFPVAVAA+ GLA++DR MMNYM+MAGA WQIFTK Sbjct: 123 MLPKVIVITLVCFFPVAVAALDGLARTDRTMMNYMQMAGATSWQIFTKLELPHALPSIFS 182 Query: 179 XXKISATYAVMGAVVAEWIGADKGIGYYMLLQKASYRTDRMFXXXXXXXXXXXXXXXXXX 238 +I+ATY+VMGAV+ EWIG+D+GIGYYM+LQK+ YRTDR+F Sbjct: 183 GIRIAATYSVMGAVIGEWIGSDRGIGYYMMLQKSGYRTDRVFVAILIIVLLSLLMVLLIT 242 Query: 239 XXEKWLVRWKPR 250 EK L+RW + Sbjct: 243 LLEKRLIRWNRK 254 >A6CPC0.1 A6CPC0_9BACI Hydroxymethylpyrimidine transport system permease protein Length = 249 Score = 228 bits (580), Expect = 5e-58, Method: Compositional matrix adjust. Identities = 112/236 (47%), Positives = 154/236 (65%) Query: 15 VIFFLGAWQLAVSVFHVPFWMLPSPGDIARESQGNASGIWAHTAATLRLTLIGFPVGTGV 74 +I W+++ V +P W+LPSP I ES H +T+ LTL+GF +G G+ Sbjct: 3 IILLFIIWEISAKVADIPAWLLPSPSRIVSESFAVWPTFQGHLTSTVYLTLLGFLIGCGI 62 Query: 75 GLIVALVLHLVPWLKRALYPLLILSQNVPSIALGPLLIIWFGFGLLPKIVLITLVCFFPV 134 GL+VA+ LHLVP L+ ++YPLLILSQN+P I L PLL++WFGFGLLPK+++ITLVCFFPV Sbjct: 63 GLVVAVGLHLVPILRESVYPLLILSQNIPIIVLAPLLVVWFGFGLLPKMIVITLVCFFPV 122 Query: 135 AVAAMGGLAQSDRIMMNYMKMAGANQWQIFTKXXXXXXXXXXXXXXKISATYAVMGAVVA 194 AVAA+ G Q+ + +YM+MAGA++ QIF K KISATY+VMGAV++ Sbjct: 123 AVAALDGFRQTGNELKHYMQMAGASKMQIFRKLEWPHALPSIFSGVKISATYSVMGAVIS 182 Query: 195 EWIGADKGIGYYMLLQKASYRTDRMFXXXXXXXXXXXXXXXXXXXXEKWLVRWKPR 250 EW+GA +GIG +M L +S+RTDR+F EKWL++W+P+ Sbjct: 183 EWLGAKQGIGVFMTLASSSFRTDRVFVAIFAIMLLSLVFFAIIIGLEKWLIKWQPK 238 >Q2B456.1 Q2B456_9BACI ABC transporter, permease component Length = 254 Score = 205 bits (522), Expect = 3e-51, Method: Compositional matrix adjust. Identities = 105/243 (43%), Positives = 147/243 (60%) Query: 9 WPPLVAVIFFLGAWQLAVSVFHVPFWMLPSPGDIARESQGNASGIWAHTAATLRLTLIGF 68 W P ++ W+ AV + VP W+LP P DI ES + + H A+T+ L+L GF Sbjct: 9 WKPAAVLLLLFILWEAAVRLAEVPAWLLPPPSDIMAESVESWARFSGHLASTVLLSLAGF 68 Query: 69 PVGTGVGLIVALVLHLVPWLKRALYPLLILSQNVPSIALGPLLIIWFGFGLLPKIVLITL 128 +GT GL A++LH +P ++ ++YPLLILSQNVP I L PLL+IWFGFGLLPK ++I L Sbjct: 69 ALGTVFGLTAAIILHRLPAVRESVYPLLILSQNVPVIVLAPLLVIWFGFGLLPKFIVIIL 128 Query: 129 VCFFPVAVAAMGGLAQSDRIMMNYMKMAGANQWQIFTKXXXXXXXXXXXXXXKISATYAV 188 VCFFP+ VAA+ G Q + +YM M+GA + Q+F K KISATY+V Sbjct: 129 VCFFPITVAALDGFRQVPAELKHYMAMSGATKRQLFWKLEWPGSLPSLFSGLKISATYSV 188 Query: 189 MGAVVAEWIGADKGIGYYMLLQKASYRTDRMFXXXXXXXXXXXXXXXXXXXXEKWLVRWK 248 MGAV++EW+G++KGIG +M L +S+RTDR+F E L++W Sbjct: 189 MGAVISEWLGSEKGIGVFMTLASSSFRTDRVFVAIFAIMILSLIFFGAILLAESLLLKWN 248 Query: 249 PRK 251 ++ Sbjct: 249 KKE 251 >B1HP91.1 B1HP91_LYSSC Hypothetical ABC transporter permease protein Length = 257 Score = 198 bits (503), Expect = 4e-49, Method: Compositional matrix adjust. Identities = 102/239 (42%), Positives = 141/239 (58%) Query: 15 VIFFLGAWQLAVSVFHVPFWMLPSPGDIARESQGNASGIWAHTAATLRLTLIGFPVGTGV 74 + F L W+L V + VP W+LP+P I +E + H AT+ L L+G +G G Sbjct: 14 IAFLLFIWELVVHIADVPPWLLPAPSIILKEGFQSYQTFLPHALATVELALLGLAIGVGC 73 Query: 75 GLIVALVLHLVPWLKRALYPLLILSQNVPSIALGPLLIIWFGFGLLPKIVLITLVCFFPV 134 GL VA+VLH +++ YP+LI+SQN+P + L PLLIIWFGFGLLPK+++I LVCFFP+ Sbjct: 74 GLTVAIVLHRFTFIRSLFYPILIMSQNIPILVLAPLLIIWFGFGLLPKLIIICLVCFFPI 133 Query: 135 AVAAMGGLAQSDRIMMNYMKMAGANQWQIFTKXXXXXXXXXXXXXXKISATYAVMGAVVA 194 +AAM G Q+ + +Y +M GA + Q F K KI+ATY+VMGAV+A Sbjct: 134 VIAAMDGFRQTAPELKHYFEMIGATKAQTFWKLEWPHAYPAIFSGIKIAATYSVMGAVIA 193 Query: 195 EWIGADKGIGYYMLLQKASYRTDRMFXXXXXXXXXXXXXXXXXXXXEKWLVRWKPRKAS 253 EW+GA KGIG YM L ++S+RTDR+F EK +V+ + A Sbjct: 194 EWLGAKKGIGVYMTLAQSSFRTDRVFVAIFAIVLLSLMLFSSIRLLEKLMVKGRGYHAQ 252 >B1DJN5.1 B1DJN5_9BACL Binding-protein-dependent transport systems inner membrane component Length = 258 Score = 193 bits (491), Expect = 9e-48, Method: Compositional matrix adjust. Identities = 107/251 (42%), Positives = 157/251 (62%) Query: 2 RSYWNQIWPPLVAVIFFLGAWQLAVSVFHVPFWMLPSPGDIARESQGNASGIWAHTAATL 61 + +++ +WP L+ VIF L +WQL+V VP W LPSP I +E + + AT+ Sbjct: 4 KGWYHAVWPSLLLVIFILASWQLSVDSGVVPEWQLPSPTSIVKEMFDVWHRLMDNAWATV 63 Query: 62 RLTLIGFPVGTGVGLIVALVLHLVPWLKRALYPLLILSQNVPSIALGPLLIIWFGFGLLP 121 L LIGF G G+I+A +LHL+P+++RA+YPLL+++QNVP IA+GP+L IW G+G+LP Sbjct: 64 ELALIGFGGGAAAGIIIAAILHLIPFVRRAVYPLLVVTQNVPVIAIGPILTIWLGYGVLP 123 Query: 122 KIVLITLVCFFPVAVAAMGGLAQSDRIMMNYMKMAGANQWQIFTKXXXXXXXXXXXXXXK 181 K++L+ +VCFFPV+VA + G +D + NYM+M GA WQ+FT+ K Sbjct: 124 KLILVWIVCFFPVSVAMLNGFKDTDPTLRNYMRMIGAGDWQLFTRLELPNAVTHLFSGLK 183 Query: 182 ISATYAVMGAVVAEWIGADKGIGYYMLLQKASYRTDRMFXXXXXXXXXXXXXXXXXXXXE 241 I+A+YAV+ AVVAEW+GADKG+G+YM+L Y R+F E Sbjct: 184 IAASYAVLSAVVAEWLGADKGLGHYMILSSKGYEPARVFASVFLIVALSLALFGLVALIE 243 Query: 242 KWLVRWKPRKA 252 + ++RW+P K Sbjct: 244 RLVIRWRPAKG 254 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 0.328 0.141 0.467 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: 1,358,926,449 Number of extensions: 50049310 Number of successful extensions: 190740 Number of sequences better than 1.0e-05: 2571 Number of HSP's gapped: 189297 Number of HSP's successfully gapped: 2587 Length of query: 253 Length of database: 3,060,696,203 Length adjustment: 133 Effective length of query: 120 Effective length of database: 1,807,701,208 Effective search space: 216924144960 Effective search space used: 216924144960 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: 129 (54.3 bits)