RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy6067
(584 letters)
>3gia_A Uncharacterized protein MJ0609; membrane protein, transporter, cell
membrane, membrane, transmembrane, transport protein;
HET: D10 BCN; 2.32A {Methanocaldococcus jannaschii} PDB:
3gi9_C* 3gi8_C
Length = 444
Score = 323 bits (830), Expect = e-105
Identities = 82/410 (20%), Positives = 162/410 (39%), Gaps = 44/410 (10%)
Query: 30 EKLARVLGLTDLTLLGIGATLGVGVYVLAGSVAKNQAGPSVVISFIIAALASALSGLCYV 89
E + L L + + +G +G ++ + G AK AG ++ +FI++ + + L Y
Sbjct: 2 ELKNKKLSLWEAVSMAVGVMIGASIFSIFGVGAK-IAGRNLPETFILSGIYALLVAYSYT 60
Query: 90 EFASRISKSGSAYNYTYLSIGE-FAAYIIGWNL--ELFIEVQAFCIEFSRIREAAALFRL 146
+ ++I + + + +IG+ + L I + F F+ L
Sbjct: 61 KLGAKIVSNAGPIAFIHKAIGDNIITGALSILLWMSYVISIALFAKGFA-----GYFLPL 115
Query: 147 LKQLESGGGETSTLTTDRYSFLSTYPDFIAAGIVMLMSALISWGVSESTRLNSVFTFLNL 206
+ + GIV +AL +G R + L
Sbjct: 116 INAPINTF----------------NIAITEIGIVAFFTALNFFGSKAVGRAEFFIVLVKL 159
Query: 207 GTVVVIVGSGLFKMNPRNWAIRKEDIPRTVRHGGTGGFAPFGLNGIIVGAAKCFFGFVGF 266
+ + + +GL ++P AP ++G+I +A F ++GF
Sbjct: 160 LILGLFIFAGLITIHPSYV---------------IPDLAPSAVSGMIFASAIFFLSYMGF 204
Query: 267 DCIATTGEESKNPKRDIPLSILLSLFIVFVCYLAIAIVLTLIIPYYE--QDAEAPFPHIF 324
I E +NPK+++P +I +S+ IV Y+ +AI +P E + +E
Sbjct: 205 GVITNASEHIENPKKNVPRAIFISILIVMFVYVGVAISAIGNLPIDELIKASENALAVAA 264
Query: 325 DSLGWPVMKWLVTVGSLFALLTAMFGALFPLPRILYAMSLDGLLYDCFSYVSPRTKTPVL 384
+ L+++G+LF++ +AM ++ + Y+++ DG L + F T L
Sbjct: 265 KPFLGNLGFLLISIGALFSISSAMNATIYGGANVAYSLAKDGELPEFFERKVWFKSTEGL 324
Query: 385 SSLLTGALTAVLSAVFKLDQLVDMLSIGTLLAYTIVALSVLILRYSEDGA 434
+T AL + + +F ++ + + S ++ Y V LS IL G
Sbjct: 325 --YITSALGVLFALLFNMEGVASITSAVFMVIYLFVILSHYILIDEVGGR 372
Score = 74.7 bits (184), Expect = 2e-14
Identities = 10/77 (12%), Positives = 24/77 (31%), Gaps = 7/77 (9%)
Query: 510 VFVCLA----RQNQNRARLKFKVPWVPLVPCLSIFMNIYLMINLDISTWVRFVIWLVIGF 565
+FV L+ ++ + L +F+ + + +I IG
Sbjct: 356 LFVILSHYILIDEVGGR---KEIVIFSFIVVLGVFLLLLYYQWITNRFVFYGIIATFIGV 412
Query: 566 GIYFTYGISHSKQKLTK 582
I+ +K+ +
Sbjct: 413 LIFEIIYRKVTKRTFSN 429
>3l1l_A Arginine/agmatine antiporter; TCDB 2.A.3.2.5, ADIC, Arg-bound,
amino-acid transport, cell inner membrane, cell
membrane, membrane; HET: ARG BNG; 3.00A {Escherichia
coli} PDB: 3h5m_A* 3h6b_A 3lrb_A 3lrc_A 3ob6_A* 3hqk_A
3ncy_A
Length = 445
Score = 234 bits (600), Expect = 3e-71
Identities = 75/418 (17%), Positives = 141/418 (33%), Gaps = 42/418 (10%)
Query: 28 SREKLARVLGLTDLTLLGIGATLGVGVYVLAGSVAKNQAGPSVVISFIIAALASALSGLC 87
S + A +GL +TL+ GA +G GV++L ++A G + +++ + + +
Sbjct: 2 SSDADAHKVGLIPVTLMVSGAIMGSGVFLLPANLA--STGGIAIYGWLVTIIGALGLSMV 59
Query: 88 YVEFASRISKSGSAYNYTYLSIGEFAAYIIGWNLELFIEVQAFCIEFSRIREAAALFRLL 147
Y + + G +Y Y G F Y + I L
Sbjct: 60 YAKMSFLDPSPGGSYAYARRCFGPFLGYQTNV-------LYWLACWIGNIAMVVIGVGYL 112
Query: 148 KQLESGGGETSTLTTDRYSFLSTYPDFIAAGIVMLMSALISWGVSESTRLNSVFTFLNLG 207
+ ++ + L G TR+ +V T L L
Sbjct: 113 SYFFPILKDP------------WVLTITCVVVLWIFVLLNIVGPKMITRVQAVATVLALI 160
Query: 208 TVVVIVGSGLFKMNPRNWAIRKEDIPRTVRHGGTGGFAPFGLNGIIVGAAKCFFGFVGFD 267
+V I G F + I + F+G +
Sbjct: 161 PIVGIAVFGWFWFRGETY------------MAAWNVSGLGTFGAIQSTLNVTLWSFIGVE 208
Query: 268 CIATTGEESKNPKRDIPLSILLSLFIVFVCYLAIAIVLTLIIPYYE-QDAEAPFPHIFDS 326
+ KNPKR++P++ + + I VCY+ + +IP + + +PF
Sbjct: 209 SASVAAGVVKNPKRNVPIATIGGVLIAAVCYVLSTTAIMGMIPNAALRVSASPFGDAARM 268
Query: 327 LGWPVMKWLVTVGSLFALLTAMFGALFPLPRILYAMSLDGLLYDCFSYVSPRTKTPVLSS 386
+V+ + L ++ G + A + DGL F+ V+ + TPV
Sbjct: 269 ALGDTAGAIVSFCAAAGCLGSLGGWTLLAGQTAKAAADDGLFPPIFARVN-KAGTPVAGL 327
Query: 387 LLTGALTAVL-------SAVFKLDQLVDMLSIGTLLAYTIVALSVLILRYSEDGADTP 437
++ G L + +A + + + I TL+ Y ++L+L + G P
Sbjct: 328 IIVGILMTIFQLSSISPNATKEFGLVSSVSVIFTLVPYLYTCAALLLLGHGHFGKARP 385
Score = 45.8 bits (109), Expect = 3e-05
Identities = 9/69 (13%), Positives = 21/69 (30%), Gaps = 1/69 (1%)
Query: 510 VFVCLARQNQNRARLKFKVPWVPLVPCLSIFMNIYLMINLDISTWVRFVIWLVIGFGIY- 568
++ C A P V ++ I+ ++ + + L++ +Y
Sbjct: 366 LYTCAALLLLGHGHFGKARPAYLAVTTIAFLYCIWAVVGSGAKEVMWSFVTLMVITAMYA 425
Query: 569 FTYGISHSK 577
Y H
Sbjct: 426 LNYNRLHKN 434
>4djk_A Probable glutamate/gamma-aminobutyrate antiporter; LEUT,
glutamate-GABA antiporter, transport protein; 3.10A
{Escherichia coli} PDB: 4dji_A
Length = 511
Score = 198 bits (505), Expect = 6e-57
Identities = 62/428 (14%), Positives = 128/428 (29%), Gaps = 43/428 (10%)
Query: 30 EKLARVLGLTDLTLLGIGATLGVGVYVLAGSVAKNQAGPSVVISFIIAALASAL-SGLCY 88
+ LTLLG A V + +G S+V ++ + + GLC
Sbjct: 2 ATSVQTGKAKQLTLLGFFAITASMVMAVYEYPTFATSGFSLVFFLLLGGILWFIPVGLCA 61
Query: 89 VEFASRIS-KSGSAYNYTYLSIGEFAAYIIGWNLELFIEVQAFCIEFSRIREAAALFRLL 147
E A+ + G + + ++G + I I + L
Sbjct: 62 AEMATVDGWEEGGVFAWVSNTLGPRWGFAAISFG-------YLQIAIGFIPMLYFVLGAL 114
Query: 148 KQLESGGGETSTLTTDRYSFLSTYPDFIAAGIVMLMSALISWGVSESTRLNSVFTFLNLG 207
+ A I+ ++ G + R+ V F +
Sbjct: 115 SYILKWPALNED---------PITKTIAALIILWALALTQFGGTKYTARIAKVGFFAGIL 165
Query: 208 -TVVVIVGSGLFKMNPRNWAIRKEDIPRTVRHGGTGGFAPFGLNGIIVGAAKCFFGFVGF 266
+++ ++ + F F G +V ++G
Sbjct: 166 LPAFILIALAAIYLHSGAPVA--------IEMDSKTFFPDFSKVGTLVVFVAFILSYMGV 217
Query: 267 DCIATTGEESKNPKRDIPLSILLSLFIVFVCYLAIAIVLTLIIPYYEQDAEAPFPHIFDS 326
+ AT E NP RD PL++LL + + + ++IP E + A F
Sbjct: 218 EASATHVNEMSNPGRDYPLAMLLLMVAAICLSSVGGLSIAMVIPGNEINLSAGVMQTFTV 277
Query: 327 L------GWPVMKWLVTVGSLFALLTAMFGALFPLPRILYAMSLDGLLYDCFSYVSPRTK 380
L +++ L +L + + R +Y + LL F+ ++ +
Sbjct: 278 LMSHVAPEIEWTVRVISALLLLGVLAEIASWIVGPSRGMYVTAQKNLLPAAFAKMN-KNG 336
Query: 381 TPVLSSLLTGALTAVLSAVFKL---------DQLVDMLSIGTLLAYTIVALSVLILRYSE 431
PV + +T++ + + + + L AY ++ + ++L
Sbjct: 337 VPVTLVISQLVITSIALIILTNTGGGNNMSFLIALALTVVIYLCAYFMLFIGYIVLVLKH 396
Query: 432 DGADTPIK 439
Sbjct: 397 PDLKRTFN 404
Score = 31.0 bits (70), Expect = 1.1
Identities = 15/102 (14%), Positives = 31/102 (30%), Gaps = 23/102 (22%)
Query: 505 LVYTVVFVC---LARQNQNRARLKFKVPWVPLVPCLSIFMNIYLMINLDIST-------- 553
Y ++F+ L ++ + R F +P V + + + I I +
Sbjct: 380 CAYFMLFIGYIVLVLKHPDLKR-TFNIPGGKGVKLVVAIVGLLTSIMAFIVSFLPPDNIQ 438
Query: 554 -----------WVRFVIWLVIGFGIYFTYGISHSKQKLTKLA 584
V F++ L + F +Y + L
Sbjct: 439 GDSTDMYVELLVVSFLVVLALPFILYAVHDRKGKANTGVTLE 480
>2pff_B Fatty acid synthase subunit beta; fatty acid synthase,
acyl-carrier-protein, beta-ketoacyl RED beta-ketoacyl
synthase, dehydratase; 4.00A {Saccharomyces cerevisiae}
Length = 2006
Score = 68.9 bits (168), Expect = 3e-12
Identities = 99/578 (17%), Positives = 171/578 (29%), Gaps = 204/578 (35%)
Query: 69 SVVISFII-AALASALSGLCYVEFASRISKS--GSAYNYTYLSIGEFAAYIIGWNLELFI 125
S+ ++ A S L +F + + G A + + E +G ++
Sbjct: 15 SLEHVLLVPTASFFIASQL-QEQFNKILPEPTEGFAADDEPTTPAELVGKFLG-----YV 68
Query: 126 EVQAFCIEFSRIREAAALFRL-LKQLES---GGGE----TSTLTTD-------RYSFLST 170
+ +E S++ + + L L + E+ G + + L + +
Sbjct: 69 ---SSLVEPSKVGQFDQVLNLCLTEFENCYLEGNDIHALAAKLLQENDTTLVKTKELIKN 125
Query: 171 YPDFIAAGIVMLMSALISWGVSESTRLNSVFTFLNLGTVVVIVGSGLFKMNPRNWAIRKE 230
Y I A I+ + NS LF
Sbjct: 126 Y---ITARIMA--------KRPFDKKSNS----------------ALF------------ 146
Query: 231 DIPRTVRHGGTGGFAPFGLNGIIVGAAKCFFGFVGFDCIATTGEESKNPKRDIPLSILLS 290
R V G A FG G G +F EE L
Sbjct: 147 ---RAVGEGNAQLVAIFG--G--QGNTDDYF------------EE------------LRD 175
Query: 291 LFIVFVCYLA--IAIVLTLIIPYYEQDAEAP--FPHIFDSLGWPVMKWL---VTVGSLFA 343
L+ + + I + +A F + +++WL
Sbjct: 176 LYQTYHVLVGDLIKFSAETLSELIRTTLDAEKVFTQGLN-----ILEWLENPSNTPDKDY 230
Query: 344 LLTAMFGALFPLPRI-LYAMSLDGLLYDCFSYVSPRT--KTPV-LSSLLTGALT---AVL 396
LL+ PL I + ++ + V+ + TP L S L GA ++
Sbjct: 231 LLSIPIS--CPL--IGVIQLA-------HY-VVTAKLLGFTPGELRSYLKGATGHSQGLV 278
Query: 397 SAV----------FKLDQLVDMLS----IGT--LLAYTIVALSVLILRYSED---GADTP 437
+AV F + ++ IG AY +L IL S + G +P
Sbjct: 279 TAVAIAETDSWESF-FVSVRKAITVLFFIGVRCYEAYPNTSLPPSILEDSLENNEGVPSP 337
Query: 438 ---IKGTSCAEKETKSSSFAEKDINAKNFSVNALPEE-----TLDPNSQSA--LTGGPVP 487
I + + + +N N LP +L N ++ GP P
Sbjct: 338 MLSISNLTQEQ--------VQDYVNKTNSH---LPAGKQVEISL-VNGAKNLVVS-GP-P 383
Query: 488 TSDCTSALQYATFTLLGLVYTVVFV-CLARQNQNRA-----RLKFKVPWVPL-VPCLSIF 540
S L GL T+ + +Q+R +LKF ++P+ P F
Sbjct: 384 QS------------LYGLNLTLRKAKAPSGLDQSRIPFSERKLKFSNRFLPVASP----F 427
Query: 541 MNIYL-----MINLDISTWVRFVIWLV--IGFGIYFTY 571
+ L +IN D+ V + I +Y T+
Sbjct: 428 HSHLLVPASDLINKDL--VKNNVSFNAKDIQIPVYDTF 463
Score = 39.6 bits (92), Expect = 0.003
Identities = 49/316 (15%), Positives = 81/316 (25%), Gaps = 96/316 (30%)
Query: 225 WAIRKEDIPRTVRHGGTGGFAPFGLNGIIVGAAKCFFGFV---GFDCIATTGEESKNPKR 281
++ R P T+ HG + ++V A F F E ++
Sbjct: 4 YSTR----PLTLSHGSLE-------HVLLVPTASFFIASQLQEQF--NKILPEPTEGFAA 50
Query: 282 DIPLSILLSLFIVFVCYLAIAI----------VLTLIIPYYEQD---------AEAPFPH 322
D + L F+ Y++ + VL L + +E A
Sbjct: 51 DDEPTTPAELVGKFLGYVSSLVEPSKVGQFDQVLNLCLTEFENCYLEGNDIHALAAKLLQ 110
Query: 323 IFDSLGWPVMKWLVTVGSLFALLTAMFGALFPLPRILYAMSLDGLLYDCFSYVSPRTKTP 382
D+ T+ L+ A R P K
Sbjct: 111 ENDT----------TLVKTKELIKNYITARIMAKR-------------------PFDKKS 141
Query: 383 VLSSLLTGALT--AVLSAVFK--------LDQLVDMLSIGTLLAYTIVALSVLILRYSED 432
S+L A L A+F ++L D+ +L ++ S L
Sbjct: 142 N-SALFRAVGEGNAQLVAIFGGQGNTDDYFEELRDLYQTYHVLVGDLIKFSAETLS---- 196
Query: 433 GADTPIKGTSCAEKETKSSSFAEKDINAKNFSVNALPEETLDPNSQSALTGGPV--PTSD 490
+ + +N + N P T P + L P+ P
Sbjct: 197 ---------ELIRTTLDAEKVFTQGLNILEWLEN--PSNT--P-DKDYLLSIPISCPLIG 242
Query: 491 CTSALQYATFT-LLGL 505
Y LLG
Sbjct: 243 VIQLAHYVVTAKLLGF 258
Score = 35.4 bits (81), Expect = 0.059
Identities = 67/426 (15%), Positives = 121/426 (28%), Gaps = 178/426 (41%)
Query: 2 WLSNFLDALSRKKSSYSEDAYDDGSGSREKLARV------LGLTDLTLLGIGA-TLGVGV 54
WL N S+ + Y L + +G+ L + A LG
Sbjct: 218 WLEN--------PSNTPDKDY---------LLSIPISCPLIGVIQLAHYVVTAKLLGFTP 260
Query: 55 YVLAGSVAKNQAGPSVVISFIIAALASALSGLCYVEFASRISKSGSAYNYTYLSIGEFAA 114
G + G + ++ A+A A + S ++ +
Sbjct: 261 ----GELRSYLKGATGHSQGLVTAVAIAE------------TDSWESFFVSVRKAITVLF 304
Query: 115 YIIGWNLELFIEVQ-AF---CIEFSRIREAAALFRLLKQLESGGGETSTLTTDRYSFLST 170
+ IG A+ + S + ++ LE+ G S
Sbjct: 305 F-IGV------RCYEAYPNTSLPPSILEDS---------LENNEGVPS------------ 336
Query: 171 YPDFIAAGIVMLMSALISWGVSES---TRLNSVFTFLNLGTVVVIVGSGLFKMN-PRNWA 226
P ML IS +++ +N + L G V I L N +N
Sbjct: 337 -P--------ML---SIS-NLTQEQVQDYVNKTNSHLPAGKQVEI---SLV--NGAKNLV 378
Query: 227 IRKEDIPRTVRHGGTGGFAPFGLNGIIVGAAKCFFGFVGFDCIATTG-EESKNP--KRDI 283
+ +G P L G+ + K A +G ++S+ P +R +
Sbjct: 379 V-------------SG--PPQSLYGLNLTLRKAK---------APSGLDQSRIPFSERKL 414
Query: 284 PLSILLSLFIVFVCYLAIAIVLTLIIPYYEQDAEAPFPHIFDSLGWPVMKWLVTVGSLFA 343
S +L +A +PF H S
Sbjct: 415 KFS---------NRFLPVA---------------SPF-H---S----------------H 430
Query: 344 LLTAMFGALFPLPRILYAMSLDGLLYDCFSYVSPRTKTPVLSSLLTGALTAVLSAVFKLD 403
LL A I + + + ++ + + PV + G+ VLS +
Sbjct: 431 LLV---PA---SDLINKDLVKNNVSFN-----AKDIQIPVYDT-FDGSDLRVLSGSI-SE 477
Query: 404 QLVDML 409
++VD +
Sbjct: 478 RIVDCI 483
Score = 32.3 bits (73), Expect = 0.61
Identities = 37/219 (16%), Positives = 56/219 (25%), Gaps = 69/219 (31%)
Query: 15 SSYSEDAYDDGSGSREKLARVLG--LTDLTLLGIGATLGVGVY----VLAGSVAKNQAGP 68
S+ + DG EK+ + + T T L + + A
Sbjct: 1689 SAMIFETIVDGKLKTEKIFKEINEHSTSYTFRSEKGLLSATQFTQPALTLMEKA------ 1742
Query: 69 SVVISFIIAALASALSGL----CYVEFASRISKSGSAYNYTYLSIGEFAAYIIGWNLELF 124
L S GL FA G S+GE+AA L
Sbjct: 1743 ------AFEDLKSK--GLIPADAT--FA------G-------HSLGEYAA--------LA 1771
Query: 125 IEVQAFCIEFSRIREAAAL--FR-LLKQLESGGGETSTLTTDRYSFLSTYPDFIAAGIVM 181
IE + +R + Q+ E Y ++ P +AA
Sbjct: 1772 SLADVMSIE-----SLVEVVFYRGMTMQVAVPRDELG---RSNYGMIAINPGRVAASFSQ 1823
Query: 182 LMSALISWGVSESTRL-----NSVFTFLNL-GTVVVIVG 214
+ V + T N N+ V G
Sbjct: 1824 EALQYVVERVGKRTGWLVEIVN-----YNVENQQYVAAG 1857
>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis,
programmed cell death; HET: DTP; 6.90A {Drosophila
melanogaster} PDB: 3iz8_A*
Length = 1221
Score = 41.8 bits (97), Expect = 7e-04
Identities = 53/395 (13%), Positives = 100/395 (25%), Gaps = 150/395 (37%)
Query: 2 WLSNFLDALSRKKS-------SYSEDAYDDGSG------SREKLARVL--GLTDL----- 41
+L + + R+ S + Y+D SR + L L +L
Sbjct: 93 FLMSPIKTEQRQPSMMTRMYIEQRDRLYNDNQVFAKYNVSRLQPYLKLRQALLELRPAKN 152
Query: 42 -TLLGIGATLGVGVYVLAGSVAKNQAGPSVVISFIIAALASALSGLCYVEFASRISKSGS 100
+ G+ G G +A V + V
Sbjct: 153 VLIDGVL---GSGKTWVALDVCLSY---KVQCKM-------------------------- 180
Query: 101 AYNYTYLSIGEFAAYIIGWNLELFIEVQAFCIEFSRIREAAALFRLLKQLESGGGETSTL 160
+F + W + + +L++L T
Sbjct: 181 ----------DFKIF---W------------LNLKNCNSPETVLEMLQKLLYQIDPNWTS 215
Query: 161 TTDRYSFLSTYPDFIAAGIVMLMS------ALI------SWGVSES----------TRLN 198
+D S + I A + L+ L+ + + TR
Sbjct: 216 RSDHSSNIKLRIHSIQAELRRLLKSKPYENCLLVLLNVQNAKAWNAFNLSCKILLTTRFK 275
Query: 199 SVFTFLNLGTVVVIV------------GSGLFKMNPRNWA-IRKEDIPRTVRHGGTGGFA 245
V FL+ T I L + R +D+PR V
Sbjct: 276 QVTDFLSAATTTHISLDHHSMTLTPDEVKSLL----LKYLDCRPQDLPREVLTT-----N 326
Query: 246 PFGLNGIIVGAAKCFFGFVGFDCIATTGEESKNPKRDIPLSILLSLFIVFV-------CY 298
P L+ I A D +AT + K+ D L+ ++ + + +
Sbjct: 327 PRRLSII---AESI------RDGLATW-DNWKHVNCD-KLTTIIESSLNVLEPAEYRKMF 375
Query: 299 LAIAIVLTLIIPYYEQDAEAPFPHIFDSLGWPVMK 333
+++ + A P + + W +
Sbjct: 376 DRLSV--------FPPSAHIP-TILLSLI-WFDVI 400
Score = 33.3 bits (75), Expect = 0.24
Identities = 30/195 (15%), Positives = 60/195 (30%), Gaps = 49/195 (25%)
Query: 399 VFKLDQLVDMLSIGTLLAYTIVALS------VLILRYSEDGADTPIKGTSCAEKETKSSS 452
VF D VD + LS +++ + + G + T +++E
Sbjct: 24 VF-EDAFVDNFDCKDVQDMPKSILSKEEIDHIIMSKDAVSGTLR-LFWTLLSKQEEMVQK 81
Query: 453 FAEKDINAKNFS--VNALPEETLDP---------------NSQSALTGGPVPTSDCTSAL 495
F E ++ N+ ++ + E P N V L
Sbjct: 82 FVE-EVLRINYKFLMSPIKTEQRQPSMMTRMYIEQRDRLYNDNQVFAKYNVSRLQPYLKL 140
Query: 496 QYATFTLLGL---VYTVVF-------VCLA----RQNQNRARLKFKVPWVPLVPC----- 536
+ A LL L ++ +A + + ++ FK+ W+ L C
Sbjct: 141 RQA---LLELRPAKNVLIDGVLGSGKTWVALDVCLSYKVQCKMDFKIFWLNLKNCNSPET 197
Query: 537 -LSIFMNIYLMINLD 550
L + + I+ +
Sbjct: 198 VLEMLQKLLYQIDPN 212
>3b5x_A Lipid A export ATP-binding/permease protein MSBA; ABC transporter,
lipid flippase, hydrolase, inner membrane, lipid
transport, membrane; 5.50A {Vibrio cholerae}
Length = 582
Score = 29.5 bits (67), Expect = 3.5
Identities = 8/31 (25%), Positives = 16/31 (51%)
Query: 328 GWPVMKWLVTVGSLFALLTAMFGALFPLPRI 358
++ +T G+ + +AMFG + PL +
Sbjct: 271 SVDSIRAELTPGTFTVVFSAMFGLMRPLKAL 301
>1vry_A Glycine receptor alpha-1 chain; second transmembrane domain, third
transmembrane domain, membrane protein; NMR {Homo
sapiens} SCOP: j.35.1.1
Length = 76
Score = 26.4 bits (58), Expect = 6.5
Identities = 12/42 (28%), Positives = 21/42 (50%), Gaps = 2/42 (4%)
Query: 336 VTVG--SLFALLTAMFGALFPLPRILYAMSLDGLLYDCFSYV 375
V +G ++ L T G+ LP++ Y ++D L C +V
Sbjct: 5 VGLGITTVLTLTTQSSGSRASLPKVSYVKAIDIWLAVCLLFV 46
>3b60_A Lipid A export ATP-binding/permease protein MSBA; ABC transporter,
lipid flippase, hydrolase, inner membrane, lipid
transport, membrane; HET: ANP; 3.70A {Salmonella
typhimurium} SCOP: c.37.1.12 f.37.1.1 PDB: 3b5y_A*
3b5z_A* 3b5w_A
Length = 582
Score = 28.7 bits (65), Expect = 7.1
Identities = 6/31 (19%), Positives = 16/31 (51%)
Query: 328 GWPVMKWLVTVGSLFALLTAMFGALFPLPRI 358
+P + +T G++ + ++M + PL +
Sbjct: 271 SFPSVMDSLTAGTITVVFSSMIALMRPLKSL 301
>1ei6_A Phosphonoacetate hydrolase; zinc,; HET: TLA; 2.10A {Pseudomonas
fluorescens} SCOP: c.76.1.4
Length = 406
Score = 28.3 bits (62), Expect = 7.4
Identities = 6/38 (15%), Positives = 11/38 (28%)
Query: 363 SLDGLLYDCFSYVSPRTKTPVLSSLLTGALTAVLSAVF 400
+DG + + + P L+ L V
Sbjct: 22 CVDGCEQEYINQAIQAGQAPFLAELTGFGTVLTGDCVV 59
>4aq5_C Acetylcholine receptor delta subunit; membrane protein,
freeze-trapping, asymmetric gating, allost mechanism;
6.20A {Torpedo marmorata} PDB: 4aq9_C
Length = 522
Score = 28.2 bits (62), Expect = 9.3
Identities = 2/31 (6%), Positives = 10/31 (32%)
Query: 291 LFIVFVCYLAIAIVLTLIIPYYEQDAEAPFP 321
+ + + + ++ + + PF
Sbjct: 478 SMFIITPVMVLGTIFIFVMGNFNRPPAKPFE 508
>4aq5_E Acetylcholine receptor gamma subunit; membrane protein,
freeze-trapping, asymmetric gating, allost mechanism;
6.20A {Torpedo marmorata} PDB: 4aq9_E
Length = 488
Score = 28.2 bits (62), Expect = 9.5
Identities = 6/31 (19%), Positives = 13/31 (41%)
Query: 291 LFIVFVCYLAIAIVLTLIIPYYEQDAEAPFP 321
F + + ++ + + + Q E PFP
Sbjct: 450 CFWIALLLFSLGTLAIFLTGHLNQVPEFPFP 480
Database: pdb70
Posted date: Sep 4, 2012 3:40 AM
Number of letters in database: 6,701,793
Number of sequences in database: 27,921
Lambda K H
0.324 0.139 0.414
Gapped
Lambda K H
0.267 0.0537 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 8,862,363
Number of extensions: 551875
Number of successful extensions: 1278
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1246
Number of HSP's successfully gapped: 37
Length of query: 584
Length of database: 6,701,793
Length adjustment: 99
Effective length of query: 485
Effective length of database: 3,937,614
Effective search space: 1909742790
Effective search space used: 1909742790
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.5 bits)
S2: 60 (27.3 bits)