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)