RPS-BLAST 2.2.22 [Sep-27-2009] Database: pdb70 24,244 sequences; 5,693,230 total letters Searching..................................................done Query= gi|254780341|ref|YP_003064754.1| proline/glycine betaine ABC transporter, permease protein [Candidatus Liberibacter asiaticus str. psy62] (281 letters) >3d31_C Sulfate/molybdate ABC transporter, permease protein; ATP-binding, nucleotide-binding, membrane, transmembrane, transport protein; 3.00A {Methanosarcina acetivorans} SCOP: f.58.1.1 Length = 295 Score = 68.9 bits (168), Expect = 1e-12 Identities = 41/247 (16%), Positives = 85/247 (34%), Gaps = 17/247 (6%) Query: 39 KAVNLVLFVLQYLPPLVFVCVVSLLVLMVKRSITIAVGTAMGLLLIIKQGYWQETTETLS 98 K + L+ + + L L I + + + +L Sbjct: 30 KTRKFEPLTFVFSFLLLVLFLFIFLTLSNMIFEQITEDFSGLVKAAGNRSVISSIFLSLY 89 Query: 99 LVLVSTFISMFIGVPLGVLAAWYP-RFYSIIRLFLDSMQTIPTFVYLIPALVLFG----- 152 ++T +++ +G P G + A + ++ +D +P V I L +FG Sbjct: 90 AGFLATLLALLLGAPTGYILARFDFPGKRLVESIIDVPVVVPHTVAGIALLTVFGSRGLI 149 Query: 153 -----------LGMVPGIVATIVFSIPTSVRLTRLGIISTPPILKEAACAFGATPFQVFR 201 + +VA + S+P R G S P L+ AA + GA ++ F Sbjct: 150 GEPLESYIQFRDALPGIVVAMLFVSMPYLANSAREGFKSVDPRLENAARSLGAPLWKAFF 209 Query: 202 KVELPFAIPQIVASLTQTIMLSLSMVVVTALVGSNGLGVPVLRALNTVDIGRGFESGLCI 261 V LP + ++ T ++S ++ + P L + G + + Sbjct: 210 FVTLPLSARYLLIGSVMTWARAISEFGAVVILAYYPMVGPTLIYDRFISYGLSASRPIAV 269 Query: 262 VILAIIL 268 +++ + L Sbjct: 270 LLILVTL 276 >3dhw_A D-methionine transport system permease protein METI; ABC-transporter, methionine uptake transporter, membrane protein, amino-acid transport; 3.70A {Escherichia coli K12} SCOP: f.58.1.1 Length = 217 Score = 56.3 bits (135), Expect = 7e-09 Identities = 54/194 (27%), Positives = 86/194 (44%), Gaps = 17/194 (8%) Query: 95 ETLSLVLVSTFISMFIGVPLGVLAAWY--------PRFYSIIRLFLDSMQTIPTFVYL-- 144 ETL++ VS F IG+P+GVL + Y + ++ ++IP + L Sbjct: 15 ETLAMTFVSGFFGFVIGLPVGVLLYVTRPGQIIANAKLYRTVSAIVNIFRSIPFIILLVW 74 Query: 145 ----IPALVLFGLGMVPGIVATIVFSIPTSVRLTRLGIISTPPILKEAACAFGATPFQVF 200 +V +G+ IV V + P R+ ++ P L EA+ A GATP Q+ Sbjct: 75 MIPFTRVIVGTSIGLQAAIVPLTVGAAPFIARMVENALLEIPTGLIEASRAMGATPMQIV 134 Query: 201 RKVELPFAIPQIVASLTQTIMLSLSMVVVTALVGSNGLGVPVLRALNTVDIGRGFESGLC 260 RKV LP A+P +V + T T++ + + VG+ GLG IG Sbjct: 135 RKVLLPEALPGLVNAATITLITLVGYSAMGGAVGAGGLG---QIGYQYGYIGYNATVMNT 191 Query: 261 IVILAIILDRLFSI 274 +++L +IL L Sbjct: 192 VLVLLVILVYLIQF 205 >2pff_B Fatty acid synthase subunit beta; fatty acid synthase, acyl-carrier-protein, beta-ketoacyl reductase, beta-ketoacyl synthase, dehydratase; 4.00A {Saccharomyces cerevisiae} Length = 2006 Score = 54.2 bits (130), Expect = 3e-08 Identities = 63/353 (17%), Positives = 99/353 (28%), Gaps = 177/353 (50%) Query: 49 QYL---P---PLVFVCVVSLLVLMVKRSITIAVGTAMGLLL-IIK------QGYWQETTE 95 YL P PL+ V+ L +V +G G L +K QG Sbjct: 229 DYLLSIPISCPLI--GVIQLAHYVV---TAKLLGFTPGELRSYLKGATGHSQG------- 276 Query: 96 TLSLVLVSTFISMFIGVPLGVLAA--WYPRFYSIIR-----LF---LDSMQTIPTFVYLI 145 ++ + I+ W F+ +R LF + + P + Sbjct: 277 ----LVTAVAIA----------ETDSW-ESFFVSVRKAITVLFFIGVRCYEAYPN--TSL 319 Query: 146 PALVLFGLGMVPGIVATIVFSI------PT---SVR-LTR-------------------L 176 P P I+ S+ P+ S+ LT+ + Sbjct: 320 P----------PSILED---SLENNEGVPSPMLSISNLTQEQVQDYVNKTNSHLPAGKQV 366 Query: 177 GI----------ISTPPI--------LKEAACAFGAT----PF-QVFRKVE-----LPFA 208 I +S PP L++A G PF + RK++ LP A Sbjct: 367 EISLVNGAKNLVVSGPPQSLYGLNLTLRKAKAPSGLDQSRIPFSE--RKLKFSNRFLPVA 424 Query: 209 IP---QIVASLTQTIMLSLSMVVVTALVGSNGLGVPV--------LR------------- 244 P ++ + I L V+ + + +PV LR Sbjct: 425 SPFHSHLLVPASDLINKDLVKNNVS--FNAKDIQIPVYDTFDGSDLRVLSGSISERIVDC 482 Query: 245 ----------ALN---T--VDIGRGFESGLCI------------VILAIILDR 270 T +D G G SGL + VI+A LD Sbjct: 483 IIRLPVKWETTTQFKATHILDFGPGGASGLGVLTHRNKDGTGVRVIVAGTLDI 535 Score = 45.3 bits (107), Expect = 2e-05 Identities = 49/241 (20%), Positives = 77/241 (31%), Gaps = 91/241 (37%) Query: 87 QG----YWQETTETLSL--VLVSTFISMFIGVPLGVLAA-------WYPRFYSIIRLFLD 133 QG Y++E + VLV I F L L + + +I+ +L+ Sbjct: 163 QGNTDDYFEELRDLYQTYHVLVGDLIK-FSAETLSELIRTTLDAEKVFTQGLNILE-WLE 220 Query: 134 SMQTIPTFVYLIPALV---LFGL-GMVPGIVATIVFSI-PTSVRLTRL--------GIIS 180 + P YL+ + L G+ + +V + P +R + L G+++ Sbjct: 221 NPSNTPDKDYLLSIPISCPLIGVIQLAHYVVTAKLLGFTPGELR-SYLKGATGHSQGLVT 279 Query: 181 TPPILKEAAC----AFGATPFQVFRK-VELPFAI--------------PQIVA-SL---- 216 I A +F F RK + + F I P I+ SL Sbjct: 280 AVAI---AETDSWESF----FVSVRKAITVLFFIGVRCYEAYPNTSLPPSILEDSLENNE 332 Query: 217 -TQTIMLS---LSMVVVT------------------ALVGSNG------LGVPV-LRALN 247 + MLS L+ V +LV NG G P L LN Sbjct: 333 GVPSPMLSISNLTQEQVQDYVNKTNSHLPAGKQVEISLV--NGAKNLVVSGPPQSLYGLN 390 Query: 248 T 248 Sbjct: 391 L 391 >2r6g_F Maltose transport system permease protein MALF; ABC transporter, catalytic intermediate, E. coli maltose transporter, MBP; HET: MAL ATP; 2.80A {Escherichia coli K12} SCOP: e.70.1.1 f.58.1.1 PDB: 3fh6_F Length = 514 Score = 39.8 bits (92), Expect = 7e-04 Identities = 30/188 (15%), Positives = 63/188 (33%), Gaps = 5/188 (2%) Query: 52 PPLVFVCVVSLLVLMVKRSITIAVGTAMGLLLIIKQGYWQETTETLSLVLVSTFISMFIG 111 + + + +V IT+ + A+G++L + + + VL+ + + Sbjct: 271 EGIQKPFLAIFVWTVVFSLITVFLTVAVGMVLACLVQWEALRGKAVYRVLL--ILPYAVP 328 Query: 112 VPLGVLAAWYPRFYSIIRLFLDSMQTIPTFVYLIPALVLFGLGMVPGIVATIVFSIPTSV 171 ++ + +M F I+ P + Sbjct: 329 ---SFISILIFKGLFNQSFGEINMMLSALFGVKPAWFSDPTTARTMLIIVNTWLGYPYMM 385 Query: 172 RLTRLGIISTPPILKEAACAFGATPFQVFRKVELPFAIPQIVASLTQTIMLSLSMVVVTA 231 L + + P L EA+ GA PFQ F K+ LP I + + + + + V+ Sbjct: 386 ILCMGLLKAIPDDLYEASAMDGAGPFQNFFKITLPLLIKPLTPLMIASFAFNFNNFVLIQ 445 Query: 232 LVGSNGLG 239 L+ + G Sbjct: 446 LLTNGGPD 453 >2onk_C Molybdate/tungstate ABC transporter, permease protein; membrane protein; 3.10A {Archaeoglobus fulgidus} SCOP: f.58.1.1 Length = 284 Score = 34.6 bits (78), Expect = 0.028 Identities = 36/196 (18%), Positives = 70/196 (35%), Gaps = 15/196 (7%) Query: 88 GYWQETTETLSLVLVSTFISMFIGVPLGVLAAWYPRFYSIIRLFLDSMQTIPTFVYLIPA 147 W+ T L+ST I++ G PL + A + + + + A Sbjct: 69 AVWKVVLTTYYAALISTLIAVIFGTPLAYILARKSFPGKSVVEGIVDLPVVIPHTVAGIA 128 Query: 148 LVL---------------FGLGMVPGIVATIVFSIPTSVRLTRLGIISTPPILKEAACAF 192 L++ F + +VA + S+P + + G S L+ A Sbjct: 129 LLVVFGSSGLIGSFSPLKFVDALPGIVVAMLFVSVPIYINQAKEGFASVDVRLEHVARTL 188 Query: 193 GATPFQVFRKVELPFAIPQIVASLTQTIMLSLSMVVVTALVGSNGLGVPVLRALNTVDIG 252 G++P +VF V LP ++ IVA + +S ++ + P L + G Sbjct: 189 GSSPLRVFFTVSLPLSVRHIVAGAIMSWARGISEFGAVVVIAYYPMIAPTLIYERYLSEG 248 Query: 253 RGFESGLCIVILAIIL 268 + +++ + L Sbjct: 249 LSAAMPVAAILILLSL 264 >3cmm_A Ubiquitin-activating enzyme E1 1; UBA1, ATP, protein turnover, ligase, conformational change, thioester, adenylation, transthioesterification, ATP-binding; 2.70A {Saccharomyces cerevisiae} Length = 1015 Score = 26.5 bits (58), Expect = 6.1 Identities = 12/45 (26%), Positives = 21/45 (46%), Gaps = 4/45 (8%) Query: 232 LVGSNGLGVPVLRALNTVDIGRGFESGLCIVILAII----LDRLF 272 LVGS +G +L+ + +G G + + + I L+R F Sbjct: 430 LVGSGAIGCEMLKNWALLGLGSGSDGYIVVTDNDSIEKSNLNRQF 474 Database: pdb70 Posted date: Jan 26, 2011 11:21 AM Number of letters in database: 5,693,230 Number of sequences in database: 24,244 Lambda K H 0.331 0.146 0.438 Gapped Lambda K H 0.267 0.0448 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 24244 Number of Hits to DB: 2,343,396 Number of extensions: 102534 Number of successful extensions: 332 Number of sequences better than 10.0: 1 Number of HSP's gapped: 323 Number of HSP's successfully gapped: 35 Length of query: 281 Length of database: 5,693,230 Length adjustment: 91 Effective length of query: 190 Effective length of database: 3,487,026 Effective search space: 662534940 Effective search space used: 662534940 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 15 ( 7.2 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 40 (21.9 bits) S2: 56 (26.1 bits)