RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy16658
(318 letters)
>2gfp_A EMRD, multidrug resistance protein D; membrane protein, multidrug
transporter; 3.50A {Escherichia coli}
Length = 375
Score = 45.3 bits (108), Expect = 1e-05
Identities = 22/76 (28%), Positives = 39/76 (51%), Gaps = 2/76 (2%)
Query: 30 LNEPVDRGQASLIGSLIAIGAIFGALPAGSIADKFGRKPVILAFCIPFIISWVLILFAKN 89
LN Q+ + L+ G L G I+D+ GR+PVIL F+++ ++ + +
Sbjct: 30 LNVREGAVQSVMGAYLLTYG--VSQLFYGPISDRVGRRPVILVGMSIFMLATLVAVTTSS 87
Query: 90 VLMLFAARFIAGVATG 105
+ +L AA + G+ TG
Sbjct: 88 LTVLIAASAMQGMGTG 103
>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 = 43.1 bits (101), Expect = 1e-04
Identities = 64/347 (18%), Positives = 101/347 (29%), Gaps = 111/347 (31%)
Query: 11 LAW-----TSPVLPILTSTTETSVLNEPVDRGQAS--LIGSLIAIGA------IFGALPA 57
L W +P L S P+ S LIG +I + + G P
Sbjct: 216 LEWLENPSNTPDKDYLLSI--------PI-----SCPLIG-VIQLAHYVVTAKLLGFTP- 260
Query: 58 GSIADKF----GR-KPVILAFCIPFIISWVLILFAKNVLMLFAARFIAGVA---TGGLSA 109
G + G + ++ A I SW F +V F GV ++
Sbjct: 261 GELRSYLKGATGHSQGLVTAVAIAETDSWES--FFVSVRKAITVLFFIGVRCYEAYPNTS 318
Query: 110 IIPMFIGEIAESSIRAGVATGGLSAIIPMFIGEIAESSIRGIS--AIIVGIVQF-----I 162
+ P I E S+ G S PM SI ++ + + +
Sbjct: 319 LPP----SILEDSLENNE--GVPS---PML-------SISNLTQEQVQDYVNKTNSHLPA 362
Query: 163 MTALSVVLVDKAGRRILLLLSDFVMA-----LCLGVLGFYFYMMEDGKDVSSI------- 210
+ + LV+ G + + V++ L L G D S I
Sbjct: 363 GKQVEISLVN--GAK------NLVVSGPPQSLYGLNLTLRKAKAPSGLDQSRIPFSERKL 414
Query: 211 ----SFLP--------LLSVIFFIVMFSLGYGPIPWMMVGELFAPEVKGSATG--IAVAL 256
FLP LL ++ L + + ++ P V + G + V
Sbjct: 415 KFSNRFLPVASPFHSHLLVPASDLINKDLVKNNVSF-NAKDIQIP-VYDTFDGSDLRVLS 472
Query: 257 NWISAFIVTLCFVFLV---KNLGSAATFWIFSVICF-------VGTL 293
IS IV V AT ++ F +G L
Sbjct: 473 GSISERIVDCIIRLPVKWETTTQFKAT----HILDFGPGGASGLGVL 515
Score = 33.9 bits (77), Expect = 0.078
Identities = 29/152 (19%), Positives = 47/152 (30%), Gaps = 38/152 (25%)
Query: 150 GISAIIVGIVQFIMTALSVVLVDKAGRRILLLLSDFVMALCL-GVLGFYFYMMEDGKDVS 208
G S I+ IV L++ + G+RI S + + G L E + +
Sbjct: 1658 GFS--ILDIVINNPVNLTIHFGGEKGKRIRENYSAMIFETIVDGKLKTEKIFKEINEHST 1715
Query: 209 SISF----------------LPLLSVIFFIVMFSLGYGPIPWMM----VGELFAPEVKGS 248
S +F L L+ F + S G P +GE +
Sbjct: 1716 SYTFRSEKGLLSATQFTQPALTLMEKAAFEDLKSKGLIPADATFAGHSLGEY-------A 1768
Query: 249 A-TGIAVALNWISAFIVTLCFVFLVKNLGSAA 279
A +A ++ S V +V G
Sbjct: 1769 ALASLADVMSIESL-------VEVVFYRGMTM 1793
Score = 33.9 bits (77), Expect = 0.080
Identities = 52/295 (17%), Positives = 87/295 (29%), Gaps = 102/295 (34%)
Query: 22 TSTTETSVLNEPVDRGQASLIGSLIAIGAIFGALPAGSIADKFG--RKPVILAFCI--PF 77
S L V G A L+ AIFG G+ D F R L +
Sbjct: 137 FDKKSNSALFRAVGEGNAQLV-------AIFGG--QGNTDDYFEELRD---L-YQTYHVL 183
Query: 78 IISWVLILFAKNVLMLFAAR-------FIAGV------------------ATGGLSAIIP 112
+ LI F+ L F G+ + +S P
Sbjct: 184 VGD--LIKFSAETLSELIRTTLDAEKVFTQGLNILEWLENPSNTPDKDYLLSIPIS--CP 239
Query: 113 MFIGEIAESSIRAGVATGGLSAIIPMFIGEIAESSIRGISAIIVGIVQFIMTALSVVLVD 172
+ IG I + G + P GE+ S ++G + G+V TA+++ D
Sbjct: 240 L-IGVIQLAHYVVTAKLLGFT---P---GELR-SYLKGATGHSQGLV----TAVAIAETD 287
Query: 173 KAGRRILLLLSDFVMALCLGVLGFYFYMMEDGKDVSSISFLPLLSVIFFIVMFSLGYG-- 230
F +++ + F++ G V P S+ I+ SL
Sbjct: 288 SW--------ESFFVSV-RKAITVLFFI---G--VRCYEAYPNTSLPPSILEDSLENNEG 333
Query: 231 -PIPWMMVGELFAPEVKG------------------SATGIAVAL-NWISAFIVT 265
P P M+ + + + ++L N +V+
Sbjct: 334 VPSP--MLS------ISNLTQEQVQDYVNKTNSHLPAGKQVEISLVNGAKNLVVS 380
>1pw4_A Glycerol-3-phosphate transporter; transmembrane, inner membrane,
major facilitator superfamily, secondary active membrane
transporter; 3.30A {Escherichia coli} SCOP: f.38.1.1
Length = 451
Score = 41.6 bits (98), Expect = 2e-04
Identities = 28/161 (17%), Positives = 53/161 (32%), Gaps = 12/161 (7%)
Query: 38 QASLIGSLIAIGAIFGALPAGSIADKF--GRKPVILAFCIPFIISWVLIL---FAKNVLM 92
++S L I G L G ++DK G + F + + ++ A N +
Sbjct: 289 KSSWAYFLYEYAGIPGTLLCGWMSDKVFRGNRGATGVFFMTLVTIATIVYWMNPAGNPTV 348
Query: 93 LFAARFIAGVATGGLSAIIPMFIGEIAESSIRAGVA-----TGGLSAII--PMFIGEIAE 145
+ G G +I + E+A A G L + +G +
Sbjct: 349 DMICMIVIGFLIYGPVMLIGLHALELAPKKAAGTAAGFTGLFGYLGGSVAASAIVGYTVD 408
Query: 146 SSIRGISAIIVGIVQFIMTALSVVLVDKAGRRILLLLSDFV 186
+++ + L +V++ RR LL + V
Sbjct: 409 FFGWDGGFMVMIGGSILAVILLIVVMIGEKRRHEQLLQELV 449
Score = 38.9 bits (91), Expect = 0.002
Identities = 27/154 (17%), Positives = 47/154 (30%), Gaps = 12/154 (7%)
Query: 150 GISAIIVGIVQFIMTALSVVLVDKAGRRILLLLSDFVMALCLGVLGFYFYMMEDGKDVSS 209
+ + T L + DK R F M L Y+
Sbjct: 291 SWAYFLYEYAGIPGTLLCGWMSDKVFRGNRGATGVFFMTLVTIATIVYWMNPAGN----- 345
Query: 210 ISFLPLLSVIFFIVMFSLGYGPIP--WMMVGELFAPEVKGSATGIAVALNWISAFIVTLC 267
P + +I IV+ L YGP+ + EL + G+A G ++ +
Sbjct: 346 ----PTVDMICMIVIGFLIYGPVMLIGLHALELAPKKAAGTAAGFTGLFGYLGGSVAASA 401
Query: 268 FV-FLVKNLGSAATFWIFSVICFVGTLFTFVLVP 300
V + V G F + + + V++
Sbjct: 402 IVGYTVDFFGWDGGFMVMIGGSILAVILLIVVMI 435
Score = 28.9 bits (65), Expect = 2.2
Identities = 19/140 (13%), Positives = 50/140 (35%), Gaps = 19/140 (13%)
Query: 169 VLVDKAGRRILLLLSDFVMALCLGVLGFYFYMMEDGKDVSSISFLPLLSVIFFIVMFSLG 228
+ D++ R+ L + A + +GF + + + F+++F G
Sbjct: 84 SVSDRSNPRVFLPAGLILAAAVMLFMGF-------------VPWATSSIAVMFVLLFLCG 130
Query: 229 YG-----PIPWMMVGELFAPEVKGSATGIAVALNWISAFIVTLCFVFLVKNLGS-AATFW 282
+ P + ++ + +G + + + I L F+ + A +
Sbjct: 131 WFQGMGWPPCGRTMVHWWSQKERGGIVSVWNCAHNVGGGIPPLLFLLGMAWFNDWHAALY 190
Query: 283 IFSVICFVGTLFTFVLVPET 302
+ + + LF F ++ +T
Sbjct: 191 MPAFCAILVALFAFAMMRDT 210
>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 = 36.8 bits (84), Expect = 0.008
Identities = 47/327 (14%), Positives = 88/327 (26%), Gaps = 101/327 (30%)
Query: 59 SIADKFG---RKPVILA-FCIPFIISWVLILFAKNVLMLFAARFIAGVATGGLS----AI 110
+ D + L + V L K L
Sbjct: 276 QVTDFLSAATTTHISLDHHSMTLTPDEVKSLLLK----------YLDCRPQDLPREVLTT 325
Query: 111 IPMFIGEIAESSIRAGVAT---------GGLSAIIPMFIGEIAESSIRG----------- 150
P + IAE SIR G+AT L+ II + + + R
Sbjct: 326 NPRRLSIIAE-SIRDGLATWDNWKHVNCDKLTTIIESSLNVLEPAEYRKMFDRLSVFPPS 384
Query: 151 --ISAIIVGI---------VQFIMTAL-SVVLVDKAGRRILLLLSDFVMALCLGVLGFY- 197
I I++ + V ++ L LV+K + + + + L + + Y
Sbjct: 385 AHIPTILLSLIWFDVIKSDVMVVVNKLHKYSLVEKQPKESTISIPSIYLELKVKLENEYA 444
Query: 198 -------FYMMEDGKDVSSISFLPLLSVIFFIVMFSLGYGPIPWMMVGELFAPEVKGSAT 250
Y + D + L + +G+ + E PE
Sbjct: 445 LHRSIVDHYNIPKTFDSDDLIPPYLDQYFYS---H-IGHH----LKNIEH--PERMTLFR 494
Query: 251 GIAVALNWISAFIVTLCFVFLVKNLGSA--ATFWIFSV----------IC--------FV 290
+ + ++ I ++ +A A+ I + IC V
Sbjct: 495 MVFLDFRFLEQKI---------RHDSTAWNASGSILNTLQQLKFYKPYICDNDPKYERLV 545
Query: 291 GTLFTFVLVPET---KGKTLNQIQREL 314
+ F+ E K + ++ L
Sbjct: 546 NAILDFLPKIEENLICSKYTDLLRIAL 572
>1qzv_F Plant photosystem I: subunit PSAF; photosynthesis,plant
photosynthetic reaction center, peripheral antenna; HET:
CL1 PQN; 4.44A {Pisum sativum} SCOP: i.5.1.1
Length = 154
Score = 32.2 bits (72), Expect = 0.10
Identities = 6/19 (31%), Positives = 11/19 (57%), Gaps = 5/19 (26%)
Query: 239 ELFAPEVKGSATGIAVALN 257
+L+A + SA A+A+
Sbjct: 30 KLYADD---SAP--ALAIK 43
>2cfq_A Lactose permease; transport, transport mechanism, lactose/H+
symport, sugar transport, transmembrane, formylation;
2.95A {Escherichia coli} SCOP: f.38.1.2 PDB: 1pv7_A*
1pv6_A 2cfp_A 2v8n_A 2y5y_A*
Length = 417
Score = 33.0 bits (75), Expect = 0.12
Identities = 30/302 (9%), Positives = 86/302 (28%), Gaps = 27/302 (8%)
Query: 14 TSPVLPILTSTTETSVLNEPVDRGQASLIGSLIAIGAIFGALPAGSIADKFGRKPVILAF 73
+ P + + E + G+A + G +G GA G + + L
Sbjct: 118 FNAGAPAVEAFIEKVSRRSNFEFGRARMFGC---VGWALGASIVGIMFTINNQFVFWLGS 174
Query: 74 CIPFIISWVLILFAKNVLMLFAARFIAGVATGGLSAI----------IPMFIGEIAESSI 123
I++ +L + G S + + S
Sbjct: 175 GCALILAVLLFFAKTDAPSSATVANAVGANHSAFSLKLALELFRQPKLWFLSLYVIGVSC 234
Query: 124 RAGVATGGLSAIIPMFIGEIAES-SIRGISAIIVGIVQFIMTALSVVLVDKAGRRILLLL 182
V + F + + G + ++ + + +++++ G + LLL
Sbjct: 235 TYDVFDQQFANFFTSFFATGEQGTRVFGYVTTMGELLNASIMFFAPLIINRIGGKNALLL 294
Query: 183 SDFVMALCLGVLGFYFYMMEDGKDVSSISFLPLLSVIFFIVMFSLGYGPIPWMMVGELFA 242
+ +M++ + F + L L + + + + F
Sbjct: 295 AGTIMSVRIIGSSF-------ATSALEVVILKTLHMFEVPFLLVGCF-----KYITSQFE 342
Query: 243 PEVKGSATGIAVALNW-ISAFIVTLCFVFLVKNLGSAATFWIFSVICFVGTLFTFVLVPE 301
+ + ++ +++ + +++G + + ++ TL + +
Sbjct: 343 VRFSATIYLVCFCFFKQLAMIFMSVLAGNMYESIGFQGAYLVLGLVALGFTLISVFTLSG 402
Query: 302 TK 303
Sbjct: 403 PG 404
Score = 31.8 bits (72), Expect = 0.29
Identities = 24/148 (16%), Positives = 48/148 (32%), Gaps = 10/148 (6%)
Query: 39 ASLIGSLIAIGAIFGA---LPAGSIADKFGRKPVILAFCIPFIISWVLILFAKNVLMLFA 95
+ G + +G + A A I ++ G K +L + + FA + L +
Sbjct: 258 TRVFGYVTTMGELLNASIMFFAPLIINRIGGKNALLLAGTIMSVRIIGSSFATSALEVVI 317
Query: 96 ARFIAGVATGGLSAIIPMFIGEIAESSIRA-------GVATGGLSAIIPMFIGEIAESSI 148
+ + L +I E A + + G + ES
Sbjct: 318 LKTLHMFEVPFLLVGCFKYITSQFEVRFSATIYLVCFCFFKQLAMIFMSVLAGNMYESIG 377
Query: 149 RGISAIIVGIVQFIMTALSVVLVDKAGR 176
+ +++G+V T +SV + G
Sbjct: 378 FQGAYLVLGLVALGFTLISVFTLSGPGP 405
>3g5u_A MCG1178, multidrug resistance protein 1A; P-glycoprotein, PGP,
cyclic peptide, membrane protein; 3.80A {Mus musculus}
PDB: 3g61_A* 3g60_A*
Length = 1284
Score = 28.8 bits (65), Expect = 2.8
Identities = 21/107 (19%), Positives = 43/107 (40%), Gaps = 12/107 (11%)
Query: 69 VILAFCIPFIISWVL--ILFAKNVLMLFAARFIAGVATGGLSAIIPMFI--GEIAE---S 121
F I F W L ++ A + ++ +A A + + + + G +AE +
Sbjct: 196 FFGGFIIGFTRGWKLTLVILAISPVLGLSAGIWAKILSSFTDKELHAYAKAGAVAEEVLA 255
Query: 122 SIRAGVATGGLSAIIPMFIGEIAESSIRGI-----SAIIVGIVQFIM 163
+IR +A GG + + + E+ GI + I +G ++
Sbjct: 256 AIRTVIAFGGQKKELERYNNNLEEAKRLGIKKAITANISMGAAFLLI 302
>2yl4_A ATP-binding cassette SUB-family B member 10, mitochondrial;
membrane protein, mitochondrial transport; HET: ACP LMT
CDL 14Y; 2.85A {Homo sapiens} PDB: 4aa3_A*
Length = 595
Score = 28.3 bits (64), Expect = 4.1
Identities = 16/98 (16%), Positives = 31/98 (31%), Gaps = 12/98 (12%)
Query: 81 WVLILFAKNVLMLFAARFIAGVATGGLSAIIPMFIGEIAESSIRAGVATGGLSAIIPMFI 140
L+ A AA + +S P F+G+I + + +
Sbjct: 8 RKLLGLAYPERRRLAAAVGFLTMSSVISMSAPFFLGKIIDV---------IYTNPTVDYS 58
Query: 141 GEIAESSIRGISAIIVGIVQFIMTALSVVLVDKAGRRI 178
+ + V + A+ V L+ +G+RI
Sbjct: 59 DNLTRLCLG---LSAVFLCGAAANAIRVYLMQTSGQRI 93
>3o7q_A L-fucose-proton symporter; transporter, multi-PASS membrane protei
transport protein; HET: BNG; 3.14A {Escherichia coli}
PDB: 3o7p_A*
Length = 438
Score = 28.0 bits (62), Expect = 4.9
Identities = 38/288 (13%), Positives = 82/288 (28%), Gaps = 23/288 (7%)
Query: 34 VDRGQASLIGSLIAIGAIFGALPAGSIADKFGRKPVILAFCIPFIISWVLILFAKNV--- 90
+ QA LI S G +PAG + K K I+ + + L A +
Sbjct: 58 LTNFQAGLIQSAFYFGYFIIPIPAGILMKKLSYKAGIITGLFLYALGAALFWPAAEIMNY 117
Query: 91 LMLFAARFIAGVA-----TGGLSAIIPMFIGEIAESSIRAGVATGGLSAII-PMFIGEIA 144
+ FI T + + + AII +F +
Sbjct: 118 TLFLVGLFIIAAGLGCLETAANPFVTVLGPESSGHFRLNLAQTFNSFGAIIAVVFGQSLI 177
Query: 145 ESSIRGISAIIVGIVQFIMTALSVVLVDKAGRRILLLLSDFVMALCLGVLGFYF--YMME 202
S++ S ++ + + + + + +++ V+ + L ++ F +
Sbjct: 178 LSNVPHQSQDVLDKMSPEQLSAYKHSLVLSVQTPYMIIVAIVLLVALLIMLTKFPALQSD 237
Query: 203 DGKDVSSISFLPLLSVIFFIVMFSLGYGPIPWMMVGEL------------FAPEVKGSAT 250
+ D SF LS + I + + + P +
Sbjct: 238 NHSDAKQGSFSASLSRLARIRHWRWAVLAQFCYVGAQTACWSYLIRYAVEEIPGMTAGFA 297
Query: 251 GIAVALNWISAFIVTLCFVFLVKNLGSAATFWIFSVICFVGTLFTFVL 298
+ + FI +L+ +++I L +
Sbjct: 298 ANYLTGTMVCFFIGRFTGTWLISRFAPHKVLAAYALIAMALCLISAFA 345
>2f2c_A Cyclin homolog, V-cyclin; small molecule inhibitor bound between
N-terminal and C-TERM domain of kinase, cell
cycle-transferase complex; HET: AP9; 2.80A {Herpesvirus
saimiri} SCOP: a.74.1.1 a.74.1.1 PDB: 1jow_A* 2euf_A*
1xo2_A* 1bu2_A
Length = 254
Score = 27.7 bits (62), Expect = 5.0
Identities = 8/84 (9%), Positives = 20/84 (23%), Gaps = 19/84 (22%)
Query: 155 IVGIVQFIMTALSVVLVDKAGRRILLLLSDFVMALCLGVLGFYFYMMEDGKDVSSISFLP 214
V F++ + + + + L + + L + P
Sbjct: 149 AVLATDFLIPLCNALKIPEDLWPQLYEAASTTICKAL-------------IQPNIALLSP 195
Query: 215 LLSVI----FFIVMFSLGYGPIPW 234
+I + + PW
Sbjct: 196 --GLICAGGLLTTIETDNTNCRPW 217
>4aq5_E Acetylcholine receptor gamma subunit; membrane protein,
freeze-trapping, asymmetric gating, allost mechanism;
6.20A {Torpedo marmorata} PDB: 4aq9_E
Length = 488
Score = 27.8 bits (61), Expect = 6.2
Identities = 7/20 (35%), Positives = 11/20 (55%)
Query: 281 FWIFSVICFVGTLFTFVLVP 300
FWI ++ +GTL F+
Sbjct: 451 FWIALLLFSLGTLAIFLTGH 470
>2bg9_B Acetylcholine receptor protein, beta chain; ION channel/receptor,
ION channel, electron microscopy, ION transport,
postsynaptic membrane; 4.00A {Torpedo marmorata}
Length = 370
Score = 27.5 bits (61), Expect = 6.5
Identities = 6/20 (30%), Positives = 10/20 (50%)
Query: 281 FWIFSVICFVGTLFTFVLVP 300
+IF +C +GT F+
Sbjct: 341 LYIFITMCSIGTFSIFLDAS 360
>2bg9_E Acetylcholine receptor protein, gamma chain; ION channel/receptor,
ION channel, electron microscopy, ION transport,
postsynaptic membrane; 4.00A {Torpedo marmorata}
Length = 370
Score = 27.2 bits (60), Expect = 7.4
Identities = 7/17 (41%), Positives = 11/17 (64%)
Query: 281 FWIFSVICFVGTLFTFV 297
FWI ++ +GTL F+
Sbjct: 345 FWIALLLFSLGTLAIFL 361
>2bg9_A Acetylcholine receptor protein, alpha chain; ION channel/receptor,
ION channel, electron microscopy, ION transport,
postsynaptic membrane; 4.00A {Torpedo marmorata}
Length = 370
Score = 27.1 bits (60), Expect = 9.0
Identities = 6/16 (37%), Positives = 10/16 (62%)
Query: 281 FWIFSVICFVGTLFTF 296
+F +IC +GT+ F
Sbjct: 344 LCVFMLICIIGTVSVF 359
>4aq5_C Acetylcholine receptor delta subunit; membrane protein,
freeze-trapping, asymmetric gating, allost mechanism;
6.20A {Torpedo marmorata} PDB: 4aq9_C
Length = 522
Score = 27.1 bits (59), Expect = 9.1
Identities = 6/20 (30%), Positives = 12/20 (60%)
Query: 281 FWIFSVICFVGTLFTFVLVP 300
+I + + +GT+F FV+
Sbjct: 479 MFIITPVMVLGTIFIFVMGN 498
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
0.329 0.144 0.429
Gapped
Lambda K H
0.267 0.0616 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 4,867,812
Number of extensions: 307333
Number of successful extensions: 866
Number of sequences better than 10.0: 1
Number of HSP's gapped: 834
Number of HSP's successfully gapped: 86
Length of query: 318
Length of database: 6,701,793
Length adjustment: 94
Effective length of query: 224
Effective length of database: 4,077,219
Effective search space: 913297056
Effective search space used: 913297056
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: 57 (26.0 bits)