RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= 018980
(348 letters)
>3apz_A Geranyl diphosphate synthase; prenyltransferase, all alpha-helices
fold, chroloplast, TRAN isoprenoid biosynthetic process;
2.60A {Arabidopsis thaliana} PDB: 3aq0_A*
Length = 348
Score = 342 bits (879), Expect = e-117
Identities = 203/253 (80%), Positives = 232/253 (91%)
Query: 82 SQEQLDPFSLVADELSILAKRLRSMVVAEVPKLASAAEYFFKMGVEGKRFRPTVLLLMAT 141
+E+LDPFSLVADELS+L+ +LR MV+AEVPKLASAAEYFFK GV+GK+FR T+LLLMAT
Sbjct: 4 VEEELDPFSLVADELSLLSNKLREMVLAEVPKLASAAEYFFKRGVQGKQFRSTILLLMAT 63
Query: 142 ALNVRVPEPLHDGVEDALATELRTRQQCIAEITEMIHVASLLHDDVLDDADTRRGIGSLN 201
AL+VRVPE L D + +ELR RQ+ IAEITEMIHVASLLHDDVLDDADTRRG+GSLN
Sbjct: 64 ALDVRVPEALIGESTDIVTSELRVRQRGIAEITEMIHVASLLHDDVLDDADTRRGVGSLN 123
Query: 202 FVMGNKLAVLAGDFLLSRACVALASLKNTEVVTLLATVVEHLVTGETMQMTTSSDQRCSM 261
VMGNK++VLAGDFLLSRAC ALA+LKNTEVV LLAT VEHLVTGETM++T+S++QR SM
Sbjct: 124 VVMGNKMSVLAGDFLLSRACGALAALKNTEVVALLATAVEHLVTGETMEITSSTEQRYSM 183
Query: 262 DYYMQKTYYKTASLISNSCKAIALLAGQTAEVAILAFDYGKNLGLAYQLIDDVLDFTGTS 321
DYYMQKTYYKTASLISNSCKA+A+L GQTAEVA+LAF+YG+NLGLA+QLIDD+LDFTGTS
Sbjct: 184 DYYMQKTYYKTASLISNSCKAVAVLTGQTAEVAVLAFEYGRNLGLAFQLIDDILDFTGTS 243
Query: 322 ASLGKGSLSDIRH 334
ASLGKGSLSDIRH
Sbjct: 244 ASLGKGSLSDIRH 256
>3pko_A Geranylgeranyl pyrophosphate synthase; isoprenyl diphosphate
synthase, structural genomics, PSI, PR structure
initiative, nysgrc; HET: CIT; 1.98A {Lactobacillus
brevis} PDB: 3n3d_A
Length = 334
Score = 227 bits (582), Expect = 9e-73
Identities = 72/249 (28%), Positives = 109/249 (43%), Gaps = 19/249 (7%)
Query: 86 LDPFSLVADELSILAKRLRSMVVAEVPKLASAAEYFFKMGVEGKRFRPTVLLLMATALNV 145
F V +L+ L L V + + K G GK RP L +T N
Sbjct: 15 WRQFPQVEPQLTALQDYLLRTVQLDNQPIHHKILALLKSG--GKLLRPGYFYLFSTFGNA 72
Query: 146 RVPEPLHDGVEDALATELRTRQQCIAEITEMIHVASLLHDDVLDDADTRRGIGSLNFVMG 205
P L A E++HV +L+HDDV+DD+ TRRG+ ++ G
Sbjct: 73 ATPAQLQA----------------GAAAIEILHVGTLIHDDVIDDSPTRRGVRTIQMTYG 116
Query: 206 NKLAVLAGDFLLSRA-CVALASLKNTEVVTLLATVVEHLVTGETMQMTTSSDQRCSMDYY 264
+ A+ AGDF+ + L S + ++ + ++ GE QM + + ++D Y
Sbjct: 117 QRNAIYAGDFMFTVYFDQVLKSTTDRSLIQNHIDAMHRILQGELHQMDLNYREDITLDAY 176
Query: 265 MQKTYYKTASLISNSCKAIALLAGQTAEVAILAFDYGKNLGLAYQLIDDVLDFTGTSASL 324
+ + KTA L + SC A LAG V D G +G AYQ++DD+LD+ G
Sbjct: 177 LNEIAGKTAELFALSCYQGAQLAGAPQSVIDRTRDIGIAIGCAYQMLDDILDYAGDPKRT 236
Query: 325 GKGSLSDIR 333
K L D+R
Sbjct: 237 QKPVLEDLR 245
>3aqb_B Component B of hexaprenyl diphosphate synthase; prenyltransferase,
transferase; 2.40A {Micrococcus luteus} PDB: 3aqc_B*
Length = 325
Score = 224 bits (573), Expect = 2e-71
Identities = 71/248 (28%), Positives = 119/248 (47%), Gaps = 19/248 (7%)
Query: 86 LDPFSLVADELSILAKRLRSMVVAEVPKLASAAEYFFKMGVEGKRFRPTVLLLMATALNV 145
L + + + + KRL + ++ + AA + G GKR RP +LL +
Sbjct: 4 LSYKAFLNPYIIEVEKRLYECIQSDSETINKAAHHILSSG--GKRVRPMFVLLSGFLNDT 61
Query: 146 RVPEPLHDGVEDALATELRTRQQCIAEITEMIHVASLLHDDVLDDADTRRGIGSLNFVMG 205
+ + + A E++H+ASL+HDD +D++D RRG S++
Sbjct: 62 QKDDLIR-----------------TAVSLELVHMASLVHDDYIDNSDMRRGNTSVHIAFD 104
Query: 206 NKLAVLAGDFLLSRACVALASLKNTEVVTLLATVVEHLVTGETMQMTTSSDQRCSMDYYM 265
A+ G FLL+RA +A++ N++ + + + + GE QM + S Y+
Sbjct: 105 KDTAIRTGHFLLARALQNIATINNSKFHQIFSKTILEVCFGEFDQMADRFNYPVSFTAYL 164
Query: 266 QKTYYKTASLISNSCKAIALLAGQTAEVAILAFDYGKNLGLAYQLIDDVLDFTGTSASLG 325
++ KTA LI SC AL + + +G +G++YQ+IDD+LD+T A+LG
Sbjct: 165 RRINRKTAILIEASCHLGALSSQLDEQSTYHIKQFGHCIGMSYQIIDDILDYTSDEATLG 224
Query: 326 KGSLSDIR 333
K SDIR
Sbjct: 225 KPVGSDIR 232
>3oyr_A Trans-isoprenyl diphosphate synthase; isoprenyl synthase, PSI,
protein structure initiative; HET: IPE; 2.00A
{Caulobacter crescentus}
Length = 345
Score = 217 bits (555), Expect = 2e-68
Identities = 75/269 (27%), Positives = 121/269 (44%), Gaps = 20/269 (7%)
Query: 66 RHQIHHQSSSVIEDTDSQEQLDP-FSLVADELSILAKRLRSMVVAEVPKLASAAEYFFKM 124
H H ++ +D L +++ + + + + ++V + + AE+
Sbjct: 4 HHHHHSLDAAAATLPRKSGSVDRLVRLAEADMAGVNRLITDRMQSDVAIIPALAEHLIAA 63
Query: 125 GVEGKRFRPTVLLLMATALNVRVPEPLHDGVEDALATELRTRQQCIAEITEMIHVASLLH 184
G GKR RP + + A +A E IH A+LLH
Sbjct: 64 G--GKRLRPLMTVAAARLAGADNDHFQK-----------------LAAAVEFIHTATLLH 104
Query: 185 DDVLDDADTRRGIGSLNFVMGNKLAVLAGDFLLSRACVALASLKNTEVVTLLATVVEHLV 244
DDV+D + RRG + + + G +VL GDFL +RA + + + + +LA +
Sbjct: 105 DDVVDGSQLRRGKVAAHLIWGGAQSVLVGDFLFARAFELMVETNSMKALEILARASRVIA 164
Query: 245 TGETMQMTTSSDQRCSMDYYMQKTYYKTASLISNSCKAIALLAGQTAEVAILAFDYGKNL 304
GE +Q+ S D S Y++ KTA L + + +A A+ AG + DYG NL
Sbjct: 165 EGEVLQLMRSHDLNLSQAVYLEIIQAKTAELFAAASEAGAVSAGVDVAKSEALRDYGLNL 224
Query: 305 GLAYQLIDDVLDFTGTSASLGKGSLSDIR 333
GLA+QL DD LD+ G + +LGK + D R
Sbjct: 225 GLAFQLADDALDYGGATETLGKNAGDDFR 253
>3rmg_A Octaprenyl-diphosphate synthase; structural genomics, protein
structure initiative, isoprene biosynthesis,
transferase; 2.30A {Bacteroides thetaiotaomicron}
Length = 334
Score = 215 bits (549), Expect = 1e-67
Identities = 70/245 (28%), Positives = 117/245 (47%), Gaps = 20/245 (8%)
Query: 89 FSLVADELSILAKRLRSMVVAEVPKLASAAEYFFKMGVEGKRFRPTVLLLMATALNVRVP 148
+ + EL + + L S + K GK RP ++LL+A P
Sbjct: 10 KTPIEAELEDFKALFDTPLSDSNALLDSVITHIRKRN--GKMMRPILVLLVARLYGAVTP 67
Query: 149 EPLHDGVEDALATELRTRQQCIAEITEMIHVASLLHDDVLDDADTRRGIGSLNFVMGNKL 208
LH A E++H ASL+HDDV+D++ RRG S+N + NK+
Sbjct: 68 ATLH-----------------AAVSLELLHTASLVHDDVVDESTERRGQLSVNAIFNNKV 110
Query: 209 AVLAGDFLLSRACVALASLKNTEVVTLLATVVEHLVTGETMQMTTSSDQRCSMDYYMQKT 268
+VLAGD+LL+ + V N E++ L++++ + L GE +Q++ S+ S + Y
Sbjct: 111 SVLAGDYLLATSLVHAEQTNNYEIIRLVSSLGQKLAEGELLQLSNVSNHSFSEEVYFDVI 170
Query: 269 YYKTASLISNSCKAIALLAGQTAEVAILAFDYGKNLGLAYQLIDDVLDFTGTSASLGKGS 328
KTA+L + +A AL E A G+ +G+ +Q+ DD+ D+ S +GK +
Sbjct: 171 RKKTAALFAACAEAAALSVQVGEEEVAFARLLGEYIGICFQIKDDIFDYFD-SKKIGKPT 229
Query: 329 LSDIR 333
+D+
Sbjct: 230 GNDML 234
>3lmd_A Geranylgeranyl pyrophosphate synthase; isoprenyl diphosphate
synthase, structural genomics, PSI, protein structure
initiative, nysgrc; 1.90A {Corynebacterium glutamicum}
PDB: 3q2q_A*
Length = 360
Score = 208 bits (531), Expect = 9e-65
Identities = 65/245 (26%), Positives = 112/245 (45%), Gaps = 20/245 (8%)
Query: 89 FSLVADELSILAKRLRSMVVAEVPKLASAAEYFFKMGVEGKRFRPTVLLLMATALNVRVP 148
+ + D + + + L + + + L + + G GKRFRP LL + +
Sbjct: 37 TARINDAMVQVEELLHTELSSGEDFLVDIVMHLTRAG--GKRFRPMFALLASEFGEKPLS 94
Query: 149 EPLHDGVEDALATELRTRQQCIAEITEMIHVASLLHDDVLDDADTRRGIGSLNFVMGNKL 208
E + A + E+ H+A+L HDDV+D+A RRG+ S N N +
Sbjct: 95 ENVIKA----------------AVVVEITHLATLYHDDVMDEASMRRGVPSANARWDNSV 138
Query: 209 AVLAGDFLLSRACVALASLKNTEVVTLLATVVEHLVTGETMQMTTSSDQRCSMDYYMQKT 268
A+LAGD LL+ A ++ L + V A LVTG+ + D +++Y
Sbjct: 139 AILAGDILLAHASGLMSQLGT-DTVAHFAETFGELVTGQMRETVGPRDTD-PIEHYTNVI 196
Query: 269 YYKTASLISNSCKAIALLAGQTAEVAILAFDYGKNLGLAYQLIDDVLDFTGTSASLGKGS 328
KT LI+++ A+ AG E ++G +G+ +Q++DD++D + GK
Sbjct: 197 REKTGVLIASAGYLGAMHAGAAPEHIDALKNFGAAVGMIFQIVDDIIDIFSETHESGKTP 256
Query: 329 LSDIR 333
+D+R
Sbjct: 257 GTDLR 261
>3mzv_A Decaprenyl diphosphate synthase; transferase, structural genomics,
PSI-2, protein structure initiative; 1.90A {Rhodobacter
capsulatus}
Length = 341
Score = 206 bits (527), Expect = 2e-64
Identities = 75/255 (29%), Positives = 129/255 (50%), Gaps = 22/255 (8%)
Query: 80 TDSQEQLDPFSLVADELSILAKRLRSMVVAE-VPKLASAAEYFFKMGVEGKRFRPTVLLL 138
T ++L +A++++ + +R + +E P++ + + G GKR RP + L
Sbjct: 8 TKPHDRL--AQALAEDMAAVNALIRERMSSEHAPRIPEVTAHLIEAG--GKRLRPMLTLA 63
Query: 139 MATALNVRVPEPLHDGVEDALATELRTRQQCIAEITEMIHVASLLHDDVLDDADTRRGIG 198
A + P +H +A E IH A+LLHDDV+D++ RRG
Sbjct: 64 AARLVGYGGPFHVH-----------------LAATVEFIHTATLLHDDVVDESRQRRGRP 106
Query: 199 SLNFVMGNKLAVLAGDFLLSRACVALASLKNTEVVTLLATVVEHLVTGETMQMTTSSDQR 258
+ N + NK +VL GD+L +R+ + N V+ +LA + GE +Q+T + +
Sbjct: 107 TANLLWDNKSSVLVGDYLFARSFQLMTDTGNMRVMEILANASAVIAEGEVLQLTAAQNLA 166
Query: 259 CSMDYYMQKTYYKTASLISNSCKAIALLAGQTAEVAILAFDYGKNLGLAYQLIDDVLDFT 318
+ D Y++ KTA+L S + + ++ G + FDYG LG+A+Q++DD+LD+
Sbjct: 167 TTEDIYLRVIRGKTAALFSAATEVGGIIGGAPEDQVQALFDYGDALGIAFQIVDDLLDYG 226
Query: 319 GTSASLGKGSLSDIR 333
G SA +GK + D R
Sbjct: 227 GKSAEIGKNTGDDFR 241
>1v4e_A Octoprenyl-diphosphate synthase; trans-type prenyltransferase,
thermophilic; 2.28A {Thermotoga maritima} SCOP:
a.128.1.1 PDB: 1v4j_A 1wkz_A 1vg2_A 1wl3_A 1wl0_A 1wl2_A
1v4h_A 1v4i_A 1v4k_A 2azl_A 1wl1_A 1vg4_A 1vg3_A 1vg6_A
1vg7_A
Length = 299
Score = 202 bits (515), Expect = 4e-63
Identities = 59/248 (23%), Positives = 108/248 (43%), Gaps = 26/248 (10%)
Query: 86 LDPFSLVADELSILAKRLRSMVVAEVPKLASAAEYFFKMGVEGKRFRPTVLLLMATALNV 145
+ + + EL + +R+ ++ P+ + GK R + +L V
Sbjct: 3 KNKLNQNSYELEKVKERIEQILSQFFPEQI---MKDLPLY--GKMLRVRLSILSFKNRGV 57
Query: 146 RVPEPLHDGVEDALATELRTRQQCIAEITEMIHVASLLHDDVLDDADTRRGIGSLNFVMG 205
+ E E++H+ASLLHDDV+D A RRG ++NF+ G
Sbjct: 58 EIGEDAIS----------------SLAALELVHLASLLHDDVIDGARFRRGKETINFMYG 101
Query: 206 NKLAVLAGDFLLSRACVALASLKNTEVVTLLATVVEHLVTGETMQMTTSSDQRCSMDYYM 265
+K AV AGD +L A + + N ++ V+ + E ++ + + + Y+
Sbjct: 102 DKAAVAAGDLVLVSAFHTVEEIGNNKLRRAFLNVIGKMSEAELIEQLSRYKP-ITKEEYL 160
Query: 266 QKTYYKTASLISNSCKAIALLAGQTAEVAILAFDYGKNLGLAYQLIDDVLDFTGTSASLG 325
+ K+ +L + + ALL G+ E ++ G +G YQ+ DD++DF G +G
Sbjct: 161 RIVEGKSGALFGLALQLPALLEGELGED---LYNLGVTIGTIYQMFDDIMDFAGM-EKIG 216
Query: 326 KGSLSDIR 333
K D++
Sbjct: 217 KDGFLDLK 224
>3tc1_A Octaprenyl pyrophosphate synthase; all alpha-helices fold,
transferase; 2.00A {Helicobacter pylori}
Length = 315
Score = 199 bits (509), Expect = 5e-62
Identities = 66/244 (27%), Positives = 107/244 (43%), Gaps = 24/244 (9%)
Query: 91 LVADELSILAKRLRS-MVVAEVPKLASAAEYFFKMGVEGKRFRPTVLLLMATALNVRVPE 149
+ +L + ++ S + E + R + + LL + + +
Sbjct: 1 MQEKQLKAIQNKIASWIKEIESGFIDELFSKIGPSK--MLRSKLMLALLNEKTDAILLDK 58
Query: 150 PLHDGVEDALATELRTRQQCIAEITEMIHVASLLHDDVLDDADTRRGIGSLNFVMGNKLA 209
L+ + I EMI ASLLHDDV+D A RR + S+N + GN A
Sbjct: 59 ALN-----------------LCTIVEMIQTASLLHDDVIDKATMRRKLPSINALFGNFNA 101
Query: 210 VLAGDFLLSRACVALASLKNTEVVTLLATVVEHLVTGETMQMTTSSDQRCSMDYYMQKTY 269
V+ GD S+A L+ + + L+ V L GE + Y +
Sbjct: 102 VMLGDVFYSKAFFELSKMGE-LIAQALSNAVLRLSRGEIEDVFVGECFNSDKQKYWRILE 160
Query: 270 YKTASLISNSCKAIALLAGQTAEVAILAFDYGKNLGLAYQLIDDVLDFTGTSASLGKGSL 329
KTA I S K++A+L + A++ D+G N G+A+Q+IDD+LD T + +LGK +
Sbjct: 161 DKTAHFIEASLKSMAILLNKDAKI---YADFGLNFGMAFQIIDDLLDITQDAKTLGKPNF 217
Query: 330 SDIR 333
SD +
Sbjct: 218 SDFK 221
>3ipi_A Geranyltranstransferase; isoprene biosynthesis, helical bundle,
protein structure initiative II (PSI II), structural
genomics, nysgxrc; 1.90A {Methanosarcina mazei}
Length = 295
Score = 192 bits (491), Expect = 1e-59
Identities = 62/229 (27%), Positives = 101/229 (44%), Gaps = 22/229 (9%)
Query: 94 DELSILAKRLRS-MVVAEVPKLASAAEYFFKMGVEGKRFRPTVLLLMATALNVRVPEPLH 152
+E + ++ + + E P L E+ G GKR RP +LLL++ + L+
Sbjct: 9 EEYRYVEAGIKESITLIEDPGLKKMVEHVCHSG--GKRIRPIILLLVSEICSGSYSRSLN 66
Query: 153 DGVEDALATELRTRQQCIAEITEMIHVASLLHDDVLDDADTRRGIGSLNFVMGNKLAVLA 212
A EM+H ASL+HDD+LD RR + S G A+L
Sbjct: 67 -----------------AALAVEMMHSASLIHDDLLDQGLVRRNLPSAPEKFGPSGALLC 109
Query: 213 GDFLLSRACVALASLKNTEVVTLLATVVEHLVTGETMQMTTSSDQRCSMDYYMQKTYYKT 272
GD+L++++ ++ +V+ + GE + + D+ + Y + Y KT
Sbjct: 110 GDYLIAKSIAFISPYGE-KVIQDFGKAGMDMAEGEVLDL-KLEDESFGENDYFKCIYKKT 167
Query: 273 ASLISNSCKAIALLAGQTAEVAILAFDYGKNLGLAYQLIDDVLDFTGTS 321
ASL + S A G E+A +G LG AYQ++DD+L+F
Sbjct: 168 ASLFAISASIGAYTGGAEEELAERFSHFGNALGTAYQIVDDILEFLEVV 216
>1wy0_A Geranylgeranyl pyrophosphate synthetase; pyrococcus horikosh
structural genomics, riken structural
genomics/proteomics initiative, RSGI; 2.20A {Pyrococcus
horikoshii}
Length = 342
Score = 188 bits (479), Expect = 3e-57
Identities = 67/251 (26%), Positives = 115/251 (45%), Gaps = 25/251 (9%)
Query: 89 FSLVADELSILAKRLRS-MVVAEVPKLASAAEYFFKMGVEGKRFRPTVLLLMATALNVRV 147
F+ + ++ ++ +++ + + L AA ++ G GKR RP V+L A+
Sbjct: 8 FARIKEKAKLIDEKIFELIPEKDPRVLYEAARHYPLAG--GKRVRPFVVLTSTEAVGGDP 65
Query: 148 PEPLHDGVEDALATELRTRQQCIAEITEMIHVASLLHDDVLDDADTRRGIGSLNFVMGNK 207
++ A E+IH SL+HDD++D +TRRG +++ + G
Sbjct: 66 LRAIY-----------------PAVAIELIHNYSLVHDDIMDMDETRRGKPTVHRIWGVN 108
Query: 208 LAVLAGDFLLSRACVALASL-----KNTEVVTLLATVVEHLVTGETMQMTTSSDQRCSMD 262
+A+LAGD L S+A A+A K V+ ++ L G+ + +++
Sbjct: 109 MAILAGDLLFSKAFEAVARAEIPPEKKARVLEVIVKASNELCEGQARDLEFEKKSTVTIE 168
Query: 263 YYMQKTYYKTASLISNSCKAIALLAGQTAEVAILAFDYGKNLGLAYQLIDDVLDFTGTSA 322
YM+ KT +L S K ++ E +G+N+G+A+Q+ DDVLD
Sbjct: 169 EYMEMISGKTGALFEASAKVGGIIGTDNEEYIKALSSWGRNVGIAFQIWDDVLDLIADEK 228
Query: 323 SLGKGSLSDIR 333
LGK SDIR
Sbjct: 229 KLGKPVGSDIR 239
>2azj_A Geranylgeranyl pyrophosphate synthetase; hexpps,
trans-prenyltransferase; 2.40A {Sulfolobus solfataricus}
PDB: 2azk_A
Length = 289
Score = 185 bits (471), Expect = 1e-56
Identities = 49/249 (19%), Positives = 86/249 (34%), Gaps = 31/249 (12%)
Query: 89 FSLVADELSILAKRLRSMVVAEVPKLASAAEYFFKMGVEGKRFRPTVLLLMATALNVRVP 148
+ + + + + + + + GKRFR T+ + AL +
Sbjct: 12 IEFWLEAKATIDRLIEQFLNSNRDWDLVDISSYILKD--GKRFRGTLNMFFTVALGGDIK 69
Query: 149 EPLHDGVEDALATELRTRQQCIAEITEMIHVASLLHDDVLDDADTRRGIGSLNFVMGNKL 208
+ A E++H ASL D++D TRRG + V GN+
Sbjct: 70 DSYG-----------------GALAIEILHSASLALCDIVDLDATRRGDKAAWVVYGNRK 112
Query: 209 AVLAGDFLLSRACVALASLKNTEVVTLLATVVEHLVTGETMQMTTSSDQRCSMDYYMQKT 268
+ ++L+ A + + + + + + G M +SD Y++
Sbjct: 113 VIFITNYLIPTALRIIQTSYGDDALNTSIELWKDTSVGALRDMYDNSD-------YIRTI 165
Query: 269 YYKTASLISNSCKAIALLAGQTAEVAILAFDYGKNLGLAYQLIDDVLDFTGTSA----SL 324
KT SL S A + + D GK LG+ YQ+IDD +D+
Sbjct: 166 ELKTGSLFKLSTVLSAYASKHYNTKQQML-DVGKYLGIIYQVIDDFVDYKTKKVEEIDGS 224
Query: 325 GKGSLSDIR 333
K R
Sbjct: 225 AKQLFKYYR 233
>3nf2_A Putative polyprenyl synthetase; isoprenyl diphosphate synthase,
structural genomics, PSI, PR structure initiative,
nysgrc; 2.20A {Streptomyces coelicolor}
Length = 352
Score = 184 bits (470), Expect = 9e-56
Identities = 60/256 (23%), Positives = 105/256 (41%), Gaps = 24/256 (9%)
Query: 81 DSQEQLDPFSLVADELSILAKRLRSMVVAEVPKLASAAEYFFKMGVEGKRFRPTVLLLMA 140
+ P ++ + LA + ++ + + G GK RP + +L A
Sbjct: 11 RGRTLATP--VLRAAVDRLAPPMDTVAAYHFGWIDAQGNPADGDG--GKAVRPALAVLSA 66
Query: 141 TALNVRVPEPLHDGVEDALATELRTRQQCIAEITEMIHVASLLHDDVLDDADTRRGIGSL 200
E + A E++H SLLHDD++D + RR ++
Sbjct: 67 EVTG--------AAPEVGVPG---------AVAVELVHNFSLLHDDLMDGDEQRRHRDTV 109
Query: 201 NFVMGNKLAVLAGDFLLSRAC---VALASLKNTEVVTLLATVVEHLVTGETMQMTTSSDQ 257
V G A+L GD L + A + L +++ L L+ G+ ++
Sbjct: 110 WKVHGPAQAILVGDALFALANEVLLELGTVEAGRATRRLTKASRSLIDGQAQDISYEHRD 169
Query: 258 RCSMDYYMQKTYYKTASLISNSCKAIALLAGQTAEVAILAFDYGKNLGLAYQLIDDVLDF 317
R S++ ++ KT +L++ + A+L G A YG +LGLA+Q +DD+L
Sbjct: 170 RVSVEECLEMEGNKTGALLACASSIGAVLGGADERTADTLEKYGYHLGLAFQAVDDLLGI 229
Query: 318 TGTSASLGKGSLSDIR 333
G + GK + SD+R
Sbjct: 230 WGDPDATGKQTWSDLR 245
>2q80_A Geranylgeranyl pyrophosphate synthetase; isoprenoid pathway,
isopentenyl transferase, structural GENO structural
genomics consortium, SGC; HET: GRG; 2.70A {Homo sapiens}
SCOP: a.128.1.1
Length = 301
Score = 181 bits (461), Expect = 4e-55
Identities = 46/232 (19%), Positives = 84/232 (36%), Gaps = 24/232 (10%)
Query: 103 LRSMVVAEVPKLASAAEYFFKMGVEGKRFRPTVLLLMATALNVRVPEPLHDGVEDALATE 162
+ L +Y ++ GK+ R + L V PE
Sbjct: 2 MEKTQETVQRILLEPYKYLLQLP--GKQVRTKLSQAFNHWLKV--PEDKLQ--------- 48
Query: 163 LRTRQQCIAEITEMIHVASLLHDDVLDDADTRRGIGSLNFVMGNKLAVLAGDFLLSRACV 222
I E+TEM+H ASLL DD+ D++ RRG + + G + + +++
Sbjct: 49 ------IIIEVTEMLHNASLLIDDIEDNSKLRRGFPVAHSIYGIPSVINSANYVYFLGLE 102
Query: 223 ALASLKNTEVVTLLATVVEHLVTGETMQMTTSSDQRC-SMDYYMQKTYYKTASLISNSCK 281
+ +L + + V L + L G+ + + + C + + Y KT L +
Sbjct: 103 KVLTLDHPDAVKLFTRQLLELHQGQGLDIYWRDNYTCPTEEEYKAMVLQKTGGLFGLAVG 162
Query: 282 AIALLAGQTAEVAILAFDYGKNLGLAYQLIDDVLDFTGTSASLGKGSLSDIR 333
+ L + ++ LGL +Q+ DD + S K D+
Sbjct: 163 LMQLFSDYKEDLK----PLLNTLGLFFQIRDDYANLHSKEYSENKSFCEDLT 210
>4dhd_A Polyprenyl synthetase; isoprenoid synthesis, isoprenoid diphosphate
synthase, trans; 1.65A {Pyrobaculum calidifontis}
Length = 358
Score = 180 bits (458), Expect = 5e-54
Identities = 65/258 (25%), Positives = 109/258 (42%), Gaps = 33/258 (12%)
Query: 90 SLVADELSILAKRLRSMVVAEVPK-LASAAEYFFKMGVEGKRFRPTVLLLMATALNVRVP 148
L + + K L + + + A Y K G GKR RP + L A A++ +
Sbjct: 8 RLHQKYGAEVEKALVRYLSIGLAEDFREAVLYQVKTG--GKRLRPLLTLAAAEAVSGQWR 65
Query: 149 EPLHDGVEDALATELRTRQQCIAEITEMIHVASLLHDDVLDDADTRRGIGSLNFVMGNKL 208
L A I E+IH SL++DD++D D RRG+ ++ G+
Sbjct: 66 PALP-----------------AAAIVELIHNYSLIYDDIIDRGDVRRGLPTVRKAFGDNA 108
Query: 209 AVLAGDFLLSRACVALASLKNTEVVT-LLATVVEHLVTGETMQMTTSSDQRC-------- 259
A+L G + A+ + +A V++ + GE + + + R
Sbjct: 109 AILVGIWYREAIEEAVLDTPKPTLFAKEVAEVIKAIDEGERLDILFEAAGRSDPYFVQAR 168
Query: 260 ----SMDYYMQKTYYKTASLISNSCKAIALLAGQTAEVAILAFDYGKNLGLAYQLIDDVL 315
++D Y++ KT +LI+ + K L +A A+++G G+A+Q+IDDVL
Sbjct: 169 WREVTLDDYIKMVSLKTGALIAAAAKWGVLSVSDDRGLAEAAWNFGMAAGVAFQIIDDVL 228
Query: 316 DFTGTSASLGKGSLSDIR 333
D G GK DI+
Sbjct: 229 DIYGDPKKFGKEIGKDIK 246
>4fp4_A Polyprenyl synthetase; isoprenoid synthesis, isoprenoid diphosphate
synthase, trans; HET: GER UNL; 2.00A {Pyrobaculum
calidifontis}
Length = 285
Score = 177 bits (451), Expect = 8e-54
Identities = 60/239 (25%), Positives = 96/239 (40%), Gaps = 28/239 (11%)
Query: 89 FSLVADELSILAKRLRSMV-VAEVPKLASAAEYFFKMGVEGKRFRPTVLLLMATALNVRV 147
V L + RL + E L A ++ + GK RP +LL +++
Sbjct: 7 PPEVLAALERVKARLNKVGEELEPISLRKAVRHYIETP--GKLLRPLLLLTFTYSID--- 61
Query: 148 PEPLHDGVEDALATELRTRQQCIAEITEMIHVASLLHDDVLDDADTRRGIGSLNFVMGNK 207
+ D E A I E++HV SLL DDV+D D RRGI + + G+
Sbjct: 62 ----RRSIMDPRILEA-------AAIVELLHVVSLLQDDVMDQHDQRRGIKTPRAMYGDG 110
Query: 208 LAVLAGDFLLSRACVALASLKNTEVVTLLATVVEHLVTGETMQMTTSSDQRCSMDYYMQK 267
A++A D+L++ + +L +VVT LA V + L G+ + + +
Sbjct: 111 RAIVASDWLIAESIKMAVNL-GADVVTYLADVAQRLSVGQALDLEGE---------RDKA 160
Query: 268 TYYKTASLISNSCKAIALLAGQTAEVAILAFDYGKNLGLAYQLIDDVLDFTGTSASLGK 326
+KTA LI + ++ G+ + G LG+ YQ DD D
Sbjct: 161 AEFKTAPLIEAALVMPLVILGRRELIETAK-KLGTKLGILYQYSDDYSDENVERPETKS 218
>1wmw_A Geranylgeranyl diphosphate synthetase; GGPP, prenyl diphosphate
synthase, structural genom riken structural
genomics/proteomics initiative; 1.55A {Thermus
thermophilus}
Length = 330
Score = 167 bits (424), Expect = 3e-49
Identities = 60/251 (23%), Positives = 96/251 (38%), Gaps = 30/251 (11%)
Query: 91 LVADELSILAKRLRSMVVAEVPKLASAAEYFFKMGVEGKRFRPTVLLLMATALNVRVPEP 150
L +RL + + P + + + G GK R + + A A
Sbjct: 4 APEAIRQALQERLLARLDHPDPLYRDLLQDYPRRG--GKMLRGLLTVYSALAHG------ 55
Query: 151 LHDGVEDALATELRTRQQCIAEITEMIHVASLLHDDVLDDADTRRGIGSLNFVMGNKLAV 210
+E L A E+ L+HDD+ D ++ RRG +L+ + LA+
Sbjct: 56 --APLEAGLE---------AATALELFQNWVLVHDDIEDGSEERRGRPALHRLHPMPLAL 104
Query: 211 LAGDFLLSRACVALA-----SLKNTEVVTLLATVVEHLVTGETMQMTTSSDQRC--SMDY 263
AGD + + LA L EV+ VV G+ + + + +
Sbjct: 105 NAGDAMHAEMWGLLAEGLARGLFPPEVLLEFHEVVRRTAYGQHLDLLWTLGGTFDLRPED 164
Query: 264 YMQKTYYKTASLI-SNSCKAIALLAGQTAEVAILAFDYGKNLGLAYQLIDDVLDFTGTSA 322
Y + +K A + ALLAG+T A + G LG A+Q++DDVL+ G A
Sbjct: 165 YFRMVAHKAAYYTAVAPLRLGALLAGKTPPAAY--EEGGLRLGTAFQIVDDVLNLEGGEA 222
Query: 323 SLGKGSLSDIR 333
GK D+
Sbjct: 223 -YGKERAGDLY 232
>2e8v_A Geranylgeranyl pyrophosphate synthetase; prenyltransferase,
farnesyl pyrophosphate, bisphosphonate; HET: GRG; 1.80A
{Saccharomyces cerevisiae} PDB: 2e8t_A* 2e8u_A* 2dh4_A*
2e8w_A* 2e8x_A* 2e90_A* 2e91_A* 2e92_A* 2e93_A* 2e94_A*
2e95_A* 2z4v_A* 2z4w_A* 2z4x_A* 2z4y_A* 2z4z_A* 2z50_A*
2z52_A* 2z78_A* 2z7h_A* ...
Length = 340
Score = 165 bits (420), Expect = 1e-48
Identities = 44/252 (17%), Positives = 96/252 (38%), Gaps = 28/252 (11%)
Query: 90 SLVADELSILAKRLRSMVVAEVPKLASAAEYFFKMGVEGKRFRPTVLLLMATALNVRVPE 149
+ + ++ L ++ + GK FR +++ + +N+ +
Sbjct: 4 NKMEAKIDELINNDPVWSSQNESLISKPYNHILLKP--GKNFRLNLIVQINRVMNLPKDQ 61
Query: 150 PLHDGVEDALATELRTRQQCIAEITEMIHVASLLHDDVLDDADTRRGIGSLNFVMGNKLA 209
+++I E++H +SLL DD+ D+A RRG + + + G
Sbjct: 62 LAI-----------------VSQIVELLHNSSLLIDDIEDNAPLRRGQTTSHLIFGVPST 104
Query: 210 VLAGDFLLSRA---CVALASLKN--TEVVTLLATVVEHLVTGETMQMT---TSSDQRCSM 261
+ +++ RA L + + ++T+ + +L G+ + + + +
Sbjct: 105 INTANYMYFRAMQLVSQLTTKEPLYHNLITIFNEELINLHRGQGLDIYWRDFLPEIIPTQ 164
Query: 262 DYYMQKTYYKTASLISNSCKAIALLAGQTAEVAILAFDYGKNLGLAYQLIDDVLDFTGTS 321
+ Y+ KT L + + + L+ + L + LG+ YQ+ DD L+
Sbjct: 165 EMYLNMVMNKTGGLFRLTLRLMEALSPSSHHGHSLV-PFINLLGIIYQIRDDYLNLKDFQ 223
Query: 322 ASLGKGSLSDIR 333
S KG DI
Sbjct: 224 MSSEKGFAEDIT 235
>3lk5_A Geranylgeranyl pyrophosphate synthase; structural genomics, protein
structure initiative, geranylge pyrophosphate synthase;
1.90A {Corynebacterium glutamicum} PDB: 3qqv_A*
Length = 380
Score = 152 bits (386), Expect = 4e-43
Identities = 62/269 (23%), Positives = 104/269 (38%), Gaps = 38/269 (14%)
Query: 90 SLVADELSILAKRLR---SMVVAEVPKLASAAEYFFKMGVEGKRFRPTVLLLMATALNVR 146
+V D L+ + + A V + F G GKR RP A +
Sbjct: 23 EVVRDRLTQFLDAQELTIADIGAPVTDAVAHLRSFVLNG--GKRIRPLYAWAGFLA--AQ 78
Query: 147 VPEPLHDGVEDALATELRTRQQCIAEITEMIHVASLLHDDVLDDADTRRGIGSLNFVM-- 204
+ + +E L A E I +L+HDD++D +DTRRG +++ +
Sbjct: 79 GHKNSSEKLESVLD---------AAASLEFIQACALIHDDIIDSSDTRRGAPTVHRAVEA 129
Query: 205 --------------GNKLAVLAGDFLLSRACVALASL-----KNTEVVTLLATVVEHLVT 245
G +++LAGD L A L + ++
Sbjct: 130 DHRANNFEGDPEHFGVSVSILAGDMALVWAEDMLQDSGLSAEALARTRDAWRGMRTEVIG 189
Query: 246 GETMQMTTSSDQRCSMDYYMQKTYYKTAS-LISNSCKAIALLAGQTAEVAILAFDYGKNL 304
G+ + + S S++ +KTA+ I+ A +AG + ++ YG ++
Sbjct: 190 GQLLDIYLESHANESVELADSVNRFKTAAYTIARPLHLGASIAGGSPQLIDALLHYGHDI 249
Query: 305 GLAYQLIDDVLDFTGTSASLGKGSLSDIR 333
G+A+QL DD+L G A GK + DIR
Sbjct: 250 GIAFQLRDDLLGVFGDPAITGKPAGDDIR 278
>1uby_A FPS, farnesyl diphosphate synthase; transferase, isoprene
biosynthesis, cholesterol biosynthesis; HET: DMA; 2.40A
{Gallus gallus} SCOP: a.128.1.1 PDB: 1ubw_A* 1ubv_A*
1ubx_A* 1fps_A
Length = 367
Score = 142 bits (361), Expect = 9e-40
Identities = 55/280 (19%), Positives = 98/280 (35%), Gaps = 31/280 (11%)
Query: 68 QIHHQSSSVIEDTDSQEQLDPFSLVADELSILAKRLRSMVVAEVPKLASAAEYFFKMGVE 127
+ + S V+E + +E + F + +L + V + + G
Sbjct: 15 ALRNLSPVVVER-EREEFVGFFPQIVRDL--TEDGIGHPEVGDAVARLKEVLQYNAPG-- 69
Query: 128 GKRFRPTVLLLMATALNVRVPEPLHDGVEDALATELRTRQQCIAEITEMIHVASLLHDDV 187
GK R ++ L+ + + + ALA + E+ ASL+ DD+
Sbjct: 70 GKCNRGLTVVAAYRELSGP-GQKDAESLRCALA---------VGWCIELFQAASLVADDI 119
Query: 188 LDDADTRRGIGSLNFVMGNKLAVLAGDFLLSRACVALASL------KNTEVVTLLATVVE 241
+D + TRRG G L + FLL + + ++ L
Sbjct: 120 MDQSLTRRGQLCWYKKEGVGLDAINDSFLLESSVYRVLKKYCRQRPYYVHLLELFLQTAY 179
Query: 242 HLVTGETMQMTTSSDQRC-----SMDYYMQKTYYKTASL--ISNSCKAIALLAGQTAEVA 294
G+ + + T+ + S + Y YKTA A+ ++ + E
Sbjct: 180 QTELGQMLDLITAPVSKVDLSHFSEERYKAIVKYKTAFYSFYLPVAAAMYMVGIDSKEEH 239
Query: 295 ILAFDYGKNLGLAYQLIDDVLDFTGTSASLGK-GSLSDIR 333
A +G +Q+ DD LD G A G G +DI+
Sbjct: 240 ENAKAILLEMGEYFQIQDDYLDCFGDPALTGAVG--TDIQ 277
>2her_A Fragment, farnesyl pyrophosphate synthase; farnesyl diphosphate
synthase, structural genomics, structural genomics
consortium, SGC; HET: ZOL; 2.37A {Cryptosporidium
parvum} PDB: 2o1o_A* 2q58_A*
Length = 368
Score = 138 bits (350), Expect = 3e-38
Identities = 48/288 (16%), Positives = 93/288 (32%), Gaps = 37/288 (12%)
Query: 64 GIRHQIHHQSSSVIEDTDSQEQLDPFSLVA--DELSILAKRLRSMVVAEVPKLASAAEYF 121
G H HH SS E+ Q + D + D+ ++ + + EY+
Sbjct: 2 GSSHHHHHHSSG-RENLYFQGEYDYTDFINYYDKFKVIVYNVLKKLPLNDEIRKPVIEYY 60
Query: 122 FKM----GVEGKRFRPTVLLLMATALNVRVPEPLHDGVEDALATELRTRQQCIAEITEMI 177
+GK R +L+L+++ + + + + + E I
Sbjct: 61 LNCIDYNVKKGKHIRGKILVLISSLSS----AYSNIKRDSIYL---------LGWVVEAI 107
Query: 178 HVASLLHDDVLDDADTRRGIGSLNFVMGNKLAVLAGDFLLSRACVALASLKN-------T 230
L+ DD++D RRG V G A+ FL + + L +
Sbjct: 108 QALILIADDIMDSGKFRRGAPCWYIVHGQSNAINDIFFLKMLSLSLIFELSSVFGNDIVM 167
Query: 231 EVVTLLATVVEHLVTGETMQMTTSSDQRC--SMDYYMQKTYYKTASLISNSCKAIALLAG 288
++ + + V G+ + ++ + + Y KT+ L
Sbjct: 168 KIQKIYNESIFFTVLGQHLDLSYFDLSKADKISERYFSMVEMKTSRYTFYMPVFFGLTLS 227
Query: 289 Q---TAEVAILAFDYGKNLGLAYQLIDDVLDFTGTSASLGKGSLSDIR 333
+ ++ L LG YQ+ +DV D+ + DI
Sbjct: 228 EIQVSSAQLNLIEAILYKLGEFYQVHNDVSDYLF-----NDSNADDIC 270
>3dyh_A Farnesyl pyrophosphate synthase; protein-bisphosphonate complex,
isoprene biosynthesis, transferase; HET: 721; 1.94A
{Trypanosoma brucei} PDB: 2ewg_A* 2i19_A* 2p1c_A*
3dyf_A* 3dyg_A* 2ogd_A* 3efq_A* 3egt_A*
Length = 390
Score = 127 bits (321), Expect = 7e-34
Identities = 50/293 (17%), Positives = 99/293 (33%), Gaps = 30/293 (10%)
Query: 70 HHQSSSVIEDTDSQEQLDPFSLVADELSILAKRLRSMVVAEVPKLASAAEYFFKMG---- 125
HH SS + S P + + L + + + Y KM
Sbjct: 7 HHHHSSGLVPRGSHMASMPMQMFMQVYDEIQMFLLEELELKFDMDPNRVRYLRKMMDTTC 66
Query: 126 VEGKRFRPTVLLLMATALNVRVPEPLHDGVEDALATELRTRQQCIAEITEMIHVASLLHD 185
+ GK R ++ +A +L P + + A + + E + L+ D
Sbjct: 67 LGGKYNRGLTVIDVAESLLSLSPNNNGEEDDGARRKRVLHDACVCGWMIEFLQAHYLVED 126
Query: 186 DVLDDADTRRGIGSLNFVMGNKLAVLAGDFLLSRACVALASLKN-------TEVVTLLAT 238
D++D++ TRRG + D LL ++ + ++ +++
Sbjct: 127 DIMDNSVTRRGKPCWYRHPDVTVQCAINDGLLLKSWTHMMAMHFFADRPFLQDLLCRFNR 186
Query: 239 VVEHLVTGETMQMTTSSDQRC----------------SMDYYMQKTYYKTASLISNSCKA 282
V G+ +T+ D ++ Y + YKTA
Sbjct: 187 VDYTTAVGQLYDVTSMFDSNKLDPDVSQPTTTDFAEFTLSNYKRIVKYKTAYYTYLLPLV 246
Query: 283 I-ALLAGQTAEVAI-LAFDYGKNLGLAYQLIDDVLDFTGTSASLGKGSLSDIR 333
+ +++ V + + + +G +Q+ DDV+D LGK +DI+
Sbjct: 247 MGLIVSEALPTVDMGVTEELAMLMGEYFQVQDDVMDCFTPPERLGK-VGTDIQ 298
>2ihi_A Pyrophosphate synthase; PV092040, structural genomics, structural
genomics consortium, SGC, transferase; 2.00A {Plasmodium
vivax sai-1} PDB: 3mav_A 3cc9_A* 3ez3_A* 3ldw_A* 3mys_A*
3ph7_A* 3rbm_A*
Length = 395
Score = 127 bits (320), Expect = 1e-33
Identities = 59/321 (18%), Positives = 96/321 (29%), Gaps = 66/321 (20%)
Query: 64 GIRHQIHHQSSSVIE--------------DTDSQEQLDPFSLVADELS--ILAKRLRSMV 107
G H HH SS D+ + + D + L +
Sbjct: 1 GSSHHHHHHSSGRENLYFQGMKETNSEEADSGLAFFRNMYDKYRDAFLSHLNEYSLEEEI 60
Query: 108 VAEVPKLASAAEYFFKMGVEGKRFRPTVLLLMATALNVRVPEPLHDGVEDALATELRTRQ 167
+ K + +G GK R +++L+ + R + E A
Sbjct: 61 KEHISKYYKLLFDYNCLG--GKNNRGILVILIYEYVKNR--DINSSEWEKAA-------- 108
Query: 168 QCIAEITEMIHVASLLHDDVLDDADTRRGIGSLNFVMGNKLAVLAGDFLLSRACVALASL 227
C+A E++ A L+ DD++D + RR + + D LL +
Sbjct: 109 -CLAWCIEILQAAFLVADDIMDKGEMRRNKYCWYLLKDVETKNAVNDVLLLYNSIYKLIE 167
Query: 228 K-------NTEVVTLLATVVEHLVTGETMQMTTSSDQRC--------------------- 259
+V+ + G+ + SD+
Sbjct: 168 IYLRNESCYVDVIATFRDATLKTIIGQHLDTNIFSDKYSDAHREIDVNNINVPEQPVIDI 227
Query: 260 ---SMDYYMQKTYYKTASLISNSCKAI-ALLAGQTAEVAIL--AFDYGKNLGLAYQLIDD 313
+ Y +KTA LLAG + I D +G +Q+ DD
Sbjct: 228 NMINFGVYKNIVIHKTAYYSFFLPIVCGMLLAGIAVDNLIYKKIEDISMLMGEYFQIHDD 287
Query: 314 VLDFTGTSASLGK-GSLSDIR 333
LD G S GK G SDI+
Sbjct: 288 YLDIFGDSTKTGKVG--SDIQ 306
>2qis_A Farnesyl pyrophosphate synthetase; trans-prenyltransferase,
structural genomics, structural GEN consortium, SGC,
transferase; HET: RIS; 1.80A {Homo sapiens} PDB: 4dem_F*
1yv5_A* 1yq7_A* 2opm_A* 2opn_A* 3cp6_A* 2rah_A* 2vf6_A*
1zw5_A* 3b7l_A* 3s4j_A* 3rye_A* 3n45_F* 2f89_F* 2f7m_F*
2f8z_F* 2f8c_F* 2f92_F* 2f9k_F* 3n1v_F* ...
Length = 374
Score = 124 bits (312), Expect = 1e-32
Identities = 59/293 (20%), Positives = 102/293 (34%), Gaps = 31/293 (10%)
Query: 55 YSWSLPALHGIRHQIHHQSSSVIEDTDSQEQLDPFSLVADELSILAKRLRSMVVAEVPKL 114
+S L+ H Q+S V + Q+ + FS + L + + +
Sbjct: 9 HSSGRENLYFQGHMNGDQNSDVYAQ-EKQDFVQHFSQIVRVL--TEDEMGHPEIGDAIAR 65
Query: 115 ASAAEYFFKMGVEGKRFRPTVLLLMATALNVRVPEPLHDGVEDALATELRTRQQCIAEIT 174
+ +G GK R +++ L V + D ++ A +
Sbjct: 66 LKEVLEYNAIG--GKYNRGLTVVVAFREL-VEPRKQDADSLQRAWT---------VGWCV 113
Query: 175 EMIHVASLLHDDVLDDADTRRGIGSLNFVMGNKL-AVLAGDFLLSRACVALAS-----LK 228
E++ L+ DD++D + TRRG G L A+ + L + L
Sbjct: 114 ELLQAFFLVADDIMDSSLTRRGQICWYQKPGVGLDAINDANLLEACIYRLLKLYCREQPY 173
Query: 229 NTEVVTLLATVVEHLVTGETMQMTTSSD-----QRCSMDYYMQKTYYKTASLISNSCKAI 283
++ L G+T+ + T+ R + Y YK+A A
Sbjct: 174 YLNLIELFLQSSYQTEIGQTLDLLTAPQGNVDLVRFTEKRYKSIVKYKSAFYSFYLPIAA 233
Query: 284 A-LLAGQTAEVAI-LAFDYGKNLGLAYQLIDDVLDFTGTSASLGK-GSLSDIR 333
A +AG E A +G +Q+ DD LD G + GK G +DI+
Sbjct: 234 AMYMAGIDGEKEHANAKKILLEMGEFFQIQDDYLDLFGDPSVTGKIG--TDIQ 284
>1yhl_A Farnesyl pyrophosphate synthase; farnesyl diphosphate synthase,
bisphosphonate, dimethyl ALLY pyrophosphate sulfate,
FPPS, transferase; HET: DMA RIS; 1.95A {Trypanosoma
cruzi} PDB: 1yhk_A* 1yhm_A* 3iba_A* 3ick_A* 3icm_A*
3icn_A* 3icz_A* 3id0_A*
Length = 362
Score = 122 bits (308), Expect = 4e-32
Identities = 43/279 (15%), Positives = 81/279 (29%), Gaps = 35/279 (12%)
Query: 80 TDSQEQLDPFSLVADELSILAKRLRSMVVAEVPKLASAAEYFFKMGVEGKRFRPTVLLLM 139
+ L + V L + + + +G GK FR + ++
Sbjct: 2 ASMERFLSVYDEVQAFLLDQLQSKYEID-PNRARYLRIMMDTTCLG--GKYFRG--MTVV 56
Query: 140 ATALNVRVPEPLHDGVEDALATELRTRQQCIAEITEMIHVASLLHDDVLDDADTRRGIGS 199
A + ++ + + I E + L+ DD++D + RRG
Sbjct: 57 NVAEGFLAVTQHDEATKERILHDACVGGWMI----EFLQAHYLVEDDIMDGSVMRRGKPC 112
Query: 200 LNFVMGNKLAVLAGDFLLSRACVALASLKNTEVVTLLATVVE--HLVTGETM-------- 249
G D ++ ++ + + L ++ V T
Sbjct: 113 WYRFPGVTTQCAINDGIILKSWTQIMAWHYFADRPFLKDLLCLFQKVDYATAVGQMYDVT 172
Query: 250 -------------QMTTSSDQRCSMDYYMQKTYYKTASLI-SNSCKAIALLAGQTAEVAI 295
Q T+ + Y + YKT ++ A V +
Sbjct: 173 SMCDSNKLDPEVAQPMTTDFAEFTPAIYKRIVKYKTTFYTYLLPLVMGLFVSEAAASVEM 232
Query: 296 -LAFDYGKNLGLAYQLIDDVLDFTGTSASLGKGSLSDIR 333
L +G +Q+ DDV+D LGK +DI
Sbjct: 233 NLVERVAHLIGEYFQVQDDVMDCFTPPEQLGK-VGTDIE 270
>3llw_A Geranyltranstransferase (ISPA); structural genomics, PSI, protein
structure initiative, nysgrc; 2.30A {Helicobacter
pylori} PDB: 3q1o_A*
Length = 311
Score = 117 bits (295), Expect = 1e-30
Identities = 59/242 (24%), Positives = 107/242 (44%), Gaps = 28/242 (11%)
Query: 112 PKLASAAEYFFKMGVEGKRFRPTVLLLMATALNVRVPEPLHDGVEDALATELRTRQQCIA 171
P L A G GKRFRP L +A + + + + IA
Sbjct: 34 PYLEKAFFEMVLNG--GKRFRP--KLFLAVLCALVGQKDYSNQQTEYFK---------IA 80
Query: 172 EITEMIHVASLLHDDV--LDDADTRRGIGSLNFVMGNKLAVLAGDFLLSRA--CVALASL 227
E +H SL+HDD+ +D+A RR +L+ AVL GD L + + ++ A L
Sbjct: 81 LSIECLHTYSLIHDDLPCMDNAALRRNHPTLHAKYDETTAVLIGDALNTYSFELLSNALL 140
Query: 228 KNTEVVTLLATV-----VEHLVTGETMQMTTSSDQRCSMDY--YMQKTYYKTASLISNSC 280
++ +V L+ + ++ ++ G+ + + +++ ++ + +KTA LIS S
Sbjct: 141 ESHIIVELIKILSANGGIKGMILGQALDCY-FENTPLNLEQLTFLHE--HKTAKLISASL 197
Query: 281 KAIALLAGQTAEVAILAFD-YGKNLGLAYQLIDDVLDFTGTSASLGKGSLSDIRHVIYLS 339
+ +G E +G +GL +Q++DD++D T GK + D +++
Sbjct: 198 IMGLVASGIKDEELFKWLQAFGLKMGLCFQVLDDIIDVTQDEEESGKTTHLDSAKNSFVN 257
Query: 340 LL 341
LL
Sbjct: 258 LL 259
>3npk_A Geranyltranstransferase; isoprene biosynthesis, SGX, structural
genomics protein structure initiative; 1.50A
{Campylobacter jejuni}
Length = 291
Score = 112 bits (283), Expect = 4e-29
Identities = 67/241 (27%), Positives = 112/241 (46%), Gaps = 32/241 (13%)
Query: 112 PKLASAAEYFFKMGVEGKRFRPTVLLLMATALNVRVPEPLHDGVEDALATELRTRQQCIA 171
P A K G GK FR LL++ + + + + AL A
Sbjct: 25 PFFNEALALMLKAG--GKHFRA--QLLLSVVQSNKP-----ELLNQALDV---------A 66
Query: 172 EITEMIHVASLLHDDV--LDDADTRRGIGSLNFVMGNKLAVLAGDFLLSRA--CVALASL 227
E IH SL+HDD+ +D+AD RRGI +L+ A+L GD L + A ++ A L
Sbjct: 67 LALEFIHTYSLIHDDLPAMDNADFRRGIPTLHKSYDETTAILVGDALNTEAFLVLSHAHL 126
Query: 228 KNTEVVTLLATV-----VEHLVTGETMQMTTSSDQRCSMD--YYMQKTYYKTASLISNSC 280
K+ + L+ T+ + +V G+ + D+R S++ ++ +KTA LI+ +
Sbjct: 127 KDEIKIKLIKTLAFNAGLNGMVIGQAIDCF-FEDKRLSLNELEFLHT--HKTARLIAAAL 183
Query: 281 KAIALLAGQTAEVAILAFDYGKNLGLAYQLIDDVLDFTGTSASLGKGSLSDIRHVIYLSL 340
K + E + + G LGL +Q+ DD++D T + GK + +DI +++L
Sbjct: 184 KMGCEICELNNEESNQIYKLGLKLGLIFQINDDIIDVTTSQEQSGKPTNNDIHKNSFVNL 243
Query: 341 L 341
L
Sbjct: 244 L 244
>2h8o_A Geranyltranstransferase; geranyltransferase,agrobacterium
tumefaciens, structural GEN PSI-2, protein structure
initiative; 1.60A {Agrobacterium tumefaciens}
Length = 335
Score = 110 bits (278), Expect = 4e-28
Identities = 66/258 (25%), Positives = 111/258 (43%), Gaps = 37/258 (14%)
Query: 99 LAKRLRSMVVAEVPKLASAAEYFFKMGVEGKRFRPTVLLLMATALNVRVPEPLHDGVEDA 158
L+ R+ + L A + G GKR RP L++ + + E
Sbjct: 58 LSGEARADEITRPQNLLEAMRHGVLNG--GKRLRP--FLVIESVALLGGDA------EAG 107
Query: 159 LATELRTRQQCIAEITEMIHVASLLHDDV--LDDADTRRGIGSLNFVMGNKLAVLAGDFL 216
L + E +H SL+HDD+ +DD D RRG +++ A+LAGD L
Sbjct: 108 LH---------VGAALECLHCYSLVHDDLPAMDDDDLRRGQPTVHRKFDEATAILAGDSL 158
Query: 217 LSRACVALASLKNT-------EVVTLLATVV--EHLVTGETMQMTTSSDQRCSMDY--YM 265
L+ A +AS N +V LA + G+ + + + + D +
Sbjct: 159 LTLAFDIIASDDNPLAAERKAALVISLARAAGIGGMAGGQALDLA-AEKKAPDEDGIITL 217
Query: 266 QKTYYKTASLISNSCKAIALLAGQTAEVAILAFDYGKNLGLAYQLIDDVLDFTGTSASLG 325
Q KT +L+ +C+A A++AG +G+ +GL++QL DD+LD T +A++G
Sbjct: 218 QA--MKTGALLRFACEAGAIIAGSNQAERQRLRLFGEKIGLSFQLADDLLDLTADAATMG 275
Query: 326 KGSLSDIRH--VIYLSLL 341
K + D ++L
Sbjct: 276 KATGKDAARGKGTLVALR 293
>3uca_A Geranyltranstransferase; isoprenoid synthesis, isoprenoid
diphosphate synthase; 2.00A {Clostridium perfringens}
Length = 324
Score = 110 bits (276), Expect = 8e-28
Identities = 76/302 (25%), Positives = 120/302 (39%), Gaps = 48/302 (15%)
Query: 67 HQIHHQSSSV---IEDTDSQEQLDPFSLVADELSILAKR-------LRSMVVAEV---PK 113
H HH SS V E+ Q + + D + L++ +
Sbjct: 2 HHHHHHSSGVDLGTENLYFQSMMKKRKTLEDTAMNINSLKEEVDQSLKAYFNKDREYNKV 61
Query: 114 LASAAEYFFKMGVEGKRFRPTVLLLMATALNVRVPEPLHDGVEDALATELRTRQQCIAEI 173
L + Y +G GKR RP +L++ + + L A
Sbjct: 62 LYDSMAYSINVG--GKRIRP--ILMLLSY------YIYKSDYKKILTP---------AMA 102
Query: 174 TEMIHVASLLHDDV--LDDADTRRGIGSLNFVMGNKLAVLAGDFLLSRACVALASLKNT- 230
EMIH SL+HDD+ +D+ D RRG + + V G +AVLAGD LL+ A L
Sbjct: 103 IEMIHTYSLIHDDLPCMDNDDLRRGKPTNHKVFGEAIAVLAGDALLNEAMKILVDYSLEE 162
Query: 231 -----EVVTLLATV--VEHLVTGETMQMTTSSDQRCSMDY--YMQKTYYKTASLISNSCK 281
+ ++A + ++ G+ + + + S+ YM KT LI S
Sbjct: 163 GKSALKATKIIADAAGSDGMIGGQIVDIINEDKEEISLKELDYMHL--KKTGELIKASIM 220
Query: 282 AIALLAGQTAEVAILAFDYGKNLGLAYQLIDDVLDFTGTSASLGKGSLSDIRH--VIYLS 339
+ A+LA + +G LGLA+Q+ DD+LD G + LGK D Y++
Sbjct: 221 SGAVLAEASEGDIKKLEGFGYKLGLAFQIKDDILDVVGNAKDLGKNVHKDQESNKNNYIT 280
Query: 340 LL 341
+
Sbjct: 281 IF 282
>4f62_A Geranyltranstransferase; enzyme function initiative, structural
genomics; 2.10A {Marinomonas SP}
Length = 317
Score = 108 bits (271), Expect = 3e-27
Identities = 68/245 (27%), Positives = 108/245 (44%), Gaps = 37/245 (15%)
Query: 112 PKLASAAEYFFKMGVEGKRFRPTVLLLMATALNVRVPEPLHDGVEDALATELRTRQQCIA 171
+L +A Y G GKR RP +L A+A V A+ A
Sbjct: 31 NQLHNAMRYSLFNG--GKRIRP--MLTYASAQLVGDIS------SLTDAS---------A 71
Query: 172 EITEMIHVASLLHDDV--LDDADTRRGIGSLNFVMGNKLAVLAGDFLLSRACVALASLKN 229
E IH SL+HDD+ +D+ + RRG + + A+LAGD L + A L++ +
Sbjct: 72 AALESIHAYSLIHDDLPAMDNDELRRGKPTCHIQFDEATAILAGDALQTFAFELLSNPTS 131
Query: 230 T------EVVTLLATV--VEHLVTGETMQMTTSSDQRCSMDY--YMQKTYYKTASLISNS 279
+++ L ++TG+ + ++ S ++ S+ M +KT +LI S
Sbjct: 132 AQPELAIKLIQELVVASGRNGMITGQMIDLS-SENKNISLAELEQMHV--HKTGALIKAS 188
Query: 280 CKAIALLAGQTAEVAILAFD-YGKNLGLAYQLIDDVLDFTGTSASLGKGSLSDIRH--VI 336
+ AL GQ + D Y +GLA+Q+ DD++D T + +LGK SD
Sbjct: 189 VRMGALSTGQVKPEQLAKLDAYAHAIGLAFQVQDDIIDLTSDTETLGKTQFSDAEANKAT 248
Query: 337 YLSLL 341
Y LL
Sbjct: 249 YPKLL 253
>1rtr_A Geranyltranstransferase; 2.50A {Staphylococcus aureus} SCOP:
a.128.1.1
Length = 301
Score = 107 bits (270), Expect = 3e-27
Identities = 71/244 (29%), Positives = 111/244 (45%), Gaps = 36/244 (14%)
Query: 112 PKLASAAEYFFKMGVEGKRFRPTVLLLMATALNVRVPEPLHDGVEDALATELRTRQQCIA 171
+L + Y G GKR RP +LL+ T ++ L AL
Sbjct: 28 TQLEESMLYSLNAG--GKRIRP--VLLLLTLDSLNTEYELGMKSAIAL------------ 71
Query: 172 EITEMIHVASLLHDDV--LDDADTRRGIGSLNFVMGNKLAVLAGDFLLSRACVALASLKN 229
EMIH SL+HDD+ +D+ D RRG + + V G A+LAGD LL++A ++S
Sbjct: 72 ---EMIHTYSLIHDDLPAMDNDDYRRGKLTNHKVYGEWTAILAGDALLTKAFELISSDDR 128
Query: 230 T------EVVTLLATV--VEHLVTGETMQMTTSSDQRCSMD--YYMQKTYYKTASLISNS 279
+V+ L+ +V G+ + M S Q ++ + K KT +L++ +
Sbjct: 129 LTDEVKIKVLQRLSIASGHVGMVGGQMLDMQ-SEGQPIDLETLEMIHK--TKTGALLTFA 185
Query: 280 CKAIALLAGQTAEVAILAFDYGKNLGLAYQLIDDVLDFTGTSASLGKGSLSDIRH--VIY 337
+ A +A Y +LG+ +Q+ DD+LD G A LGK SD+ + Y
Sbjct: 186 VMSAADIANVDDTTKEHLESYSYHLGMMFQIKDDLLDCYGDEAKLGKKVGSDLENNKSTY 245
Query: 338 LSLL 341
+SLL
Sbjct: 246 VSLL 249
>3lom_A Geranyltranstransferase; geranyltransferase, structural genomics,
PSI, protein structure initiative, nysgrc; 2.30A
{Legionella pneumophila subsp}
Length = 313
Score = 107 bits (269), Expect = 6e-27
Identities = 59/247 (23%), Positives = 101/247 (40%), Gaps = 38/247 (15%)
Query: 112 PKLASAAEYFFKMGVEGKRFRPTVLLLMATALNVRVPEPLHDGVEDALATELRTRQQCIA 171
P++ SA Y G GKR RP +L+ + V + IA
Sbjct: 36 PQIRSALHYALFSG--GKRIRP--ILVYLAGDLIDVDQ------GVLDI---------IA 76
Query: 172 EITEMIHVASLLHDDV--LDDADTRRGIGSLNFVMGNKLAVLAGDFLLSRACVALASLKN 229
E+ H SL+HDD+ +D+ D RRG S + A+L GD + + A L +
Sbjct: 77 AALELTHCYSLIHDDLPAMDNDDLRRGKPSCHKAFDEATAILVGDGMQALAIEVLLMRLS 136
Query: 230 T--------EVVTLLATV--VEHLVTGETMQMTTSSDQRCSMD--YYMQKTYYKTASLIS 277
+ +L + +V+G+++ ++ + + + + KT LI
Sbjct: 137 PLLPAAQVVAITQVLVNASGISGMVSGQSLDLSELAKSSVTEEQLREIHL--LKTGKLIL 194
Query: 278 NSCKAIALLAGQTAEVAILAFD-YGKNLGLAYQLIDDVLDFTGTSASLGKGSLSDIRH-- 334
+ + + +E A YGK++GL +Q+ DD LD + LGKG SD +
Sbjct: 195 ACFEMVLAAQHEVSEQIKSALRTYGKHIGLVFQMQDDYLDLYAPTQILGKGRSSDQANQK 254
Query: 335 VIYLSLL 341
+ +L
Sbjct: 255 TTFATLF 261
>3ts7_A Geranyltranstransferase; isoprenoid synthesis, farnesyl diphosphate
synthase; 1.94A {Methylococcus capsulatus}
Length = 324
Score = 106 bits (268), Expect = 1e-26
Identities = 70/247 (28%), Positives = 99/247 (40%), Gaps = 39/247 (15%)
Query: 112 PKLASAAEYFFKMGVEGKRFRPTVLLLMATALNVRVPEPLHDGVEDALATELRTRQQCIA 171
+L A Y G GKR RP LL AT + V + A
Sbjct: 36 ERLHQAMRYSVLGG--GKRMRP--LLTYATGQTIGVAA------DLLDGP---------A 76
Query: 172 EITEMIHVASLLHDDV--LDDADTRRGIGSLNFVMGNKLAVLAGDFLLSRACVALASLKN 229
E IHV SL+HDD+ +DD D RRG + + A+LAGD L + A LA +
Sbjct: 77 CAVEFIHVYSLIHDDLPAMDDDDLRRGKPTCHKAYDEATAILAGDGLQALAFHVLAQDPS 136
Query: 230 T--------EVVTLLATVV--EHLVTGETMQMTTSSDQRCSMDY--YMQKTYYKTASLIS 277
++ LA +V G+ + + S ++ + M KT +LI
Sbjct: 137 IAVPAENRIAMIETLAKASGPAGMVGGQAIDLA-SVGKKLDLPGLENMHI--RKTGALIR 193
Query: 278 NSCKAIALLAGQTAEVAILAFD-YGKNLGLAYQLIDDVLDFTGTSASLGKGSLSDIRH-- 334
S + L D Y K +GLA+Q+ DD+LD + +LGK D H
Sbjct: 194 ASVRLACLARPGLPAEQFDRLDHYAKCIGLAFQIQDDILDEESDTQTLGKTRGKDRDHNK 253
Query: 335 VIYLSLL 341
Y +LL
Sbjct: 254 PNYPALL 260
>3p8r_A Geranyltranstransferase; isoprenyl synthase, structural genomics,
PSI, protein struct initiative, nysgrc; 2.50A {Vibrio
cholerae}
Length = 302
Score = 106 bits (266), Expect = 1e-26
Identities = 63/247 (25%), Positives = 103/247 (41%), Gaps = 39/247 (15%)
Query: 112 PKLASAAEYFFKMGVEGKRFRPTVLLLMATALNVRVPEPLHDGVEDALATELRTRQQCIA 171
L A Y +G GKR RP L+ T + D A
Sbjct: 36 LPLIEAMRYGLLLG--GKRARP--YLVYITGQMLGCEL------SDLDTP---------A 76
Query: 172 EITEMIHVASLLHDDV--LDDADTRRGIGSLNFVMGNKLAVLAGDFLLSRACVALASLKN 229
E IH SL+HDD+ +DD + RRG + + A+L GD L + A LA
Sbjct: 77 SAVECIHAYSLIHDDLPAMDDDELRRGKPTCHIQFDEATAILTGDALQTLAFTILAEGDL 136
Query: 230 T--------EVVTLLATV--VEHLVTGETMQMTTSSDQRCSMDY--YMQKTYYKTASLIS 277
+ ++ LA + + G+ + + + ++ S++ + + KT +L+
Sbjct: 137 SAAGETQRVAMLQALAEASGAQGMCLGQALDLA-AENRLISLEELETIHR--NKTGALMR 193
Query: 278 NSCKAIALLAGQTAEVAILAFD-YGKNLGLAYQLIDDVLDFTGTSASLGKGSLSDIRH-- 334
+ + AL AG+ + D Y + +GLA+Q+ DD+LD + +LGK SD
Sbjct: 194 CAIRLGALAAGEKGRAMLPHLDRYAEAVGLAFQVQDDILDIISDTETLGKPQGSDQELNK 253
Query: 335 VIYLSLL 341
Y +LL
Sbjct: 254 STYPALL 260
>3lsn_A Geranyltranstransferase; structural genomics, protein structure
initiative, NEW YORK structural genomix research
consortium, nysgxrc; HET: MSE; 1.35A {Pseudomonas
fluorescens} PDB: 3lji_A* 3p41_A*
Length = 304
Score = 106 bits (266), Expect = 1e-26
Identities = 75/247 (30%), Positives = 107/247 (43%), Gaps = 39/247 (15%)
Query: 112 PKLASAAEYFFKMGVEGKRFRPTVLLLMATALNVRVPEPLHDGVEDALATELRTRQQCIA 171
+L A Y G GKR RP LL A + E A A
Sbjct: 30 ARLYEAMRYSVMNG--GKRVRP--LLAYAACEALGGKP------EQANGA---------A 70
Query: 172 EITEMIHVASLLHDDV--LDDADTRRGIGSLNFVMGNKLAVLAGDFLLSRACVALASLKN 229
E+IH SL+HDD+ +DD D RRG + + A+LAGD L S A AL
Sbjct: 71 CAVELIHAYSLVHDDLPAMDDDDLRRGQPTTHKAFDEACAILAGDGLQSLAFSALLDPAL 130
Query: 230 TEV--------VTLLATVV--EHLVTGETMQMTTSSDQRCSMD--YYMQKTYYKTASLIS 277
++ VT LA +V G+ + + S + YM + +KT +LI
Sbjct: 131 SDASAEIRLRMVTTLAQAAGPAGMVGGQAIDLG-SVGLKLDQQALEYMHR--HKTGALIE 187
Query: 278 NSCKAIALLAGQTAEVAILAFD-YGKNLGLAYQLIDDVLDFTGTSASLGKGSLSDIRH-- 334
S AL +G+ + + A Y + +GLA+Q+ DD+LD +A+LGK +DI
Sbjct: 188 ASVILGALASGRAEKGELKALQTYAQAIGLAFQVQDDILDVESDTATLGKRQGADIARDK 247
Query: 335 VIYLSLL 341
Y +LL
Sbjct: 248 PTYPALL 254
>3p8l_A Geranyltranstransferase; isoprenyl synthase, structural genomics,
PSI, protein struct initiative, nysgrc; 2.00A
{Enterococcus faecalis}
Length = 302
Score = 105 bits (265), Expect = 2e-26
Identities = 75/234 (32%), Positives = 112/234 (47%), Gaps = 32/234 (13%)
Query: 112 PKLASAAEYFFKMGVEGKRFRPTVLLLMATALNVRVPEPLHDGVEDALATELRTRQQCIA 171
+L A Y G GKR RP LL++ T A E+ T+ +A
Sbjct: 36 ERLKEAMLYSIHAG--GKRLRP--LLVLTTV--------------AAFQKEMETQDYQVA 77
Query: 172 EITEMIHVASLLHDDV--LDDADTRRGIGSLNFVMGNKLAVLAGDFLLSRA--CVALASL 227
EMIH SL+HDD+ +DD D RRG + + V G A+LAGD LL+ A ++L+ L
Sbjct: 78 ASLEMIHTYSLIHDDLPAMDDDDLRRGKPTNHKVFGEATAILAGDGLLTGAFQLLSLSQL 137
Query: 228 KNTEVVTLLATV-----VEHLVTGETMQMTTSSDQRCSMD--YYMQKTYYKTASLISNSC 280
+E V L+ + + +V+G+ + +++ + + KT +LI +
Sbjct: 138 GLSEKVLLMQQLAKAAGNQGMVSGQMGDIE-GEKVSLTLEELAAVHE--KKTGALIEFAL 194
Query: 281 KAIALLAGQTAEVAILAFDYGKNLGLAYQLIDDVLDFTGTSASLGKGSLSDIRH 334
A +LA QT EV L + + GLA+Q+ DD+LD T T A LGK D
Sbjct: 195 IAGGVLANQTEEVIGLLTQFAHHYGLAFQIRDDLLDATSTEADLGKKVGRDEAL 248
>1rqj_A Geranyltranstransferase; bisphosphonate, isoprenyl synthase; HET:
IPR RIS; 1.95A {Escherichia coli} SCOP: a.128.1.1 PDB:
1rqi_A* 2for_A*
Length = 299
Score = 105 bits (265), Expect = 2e-26
Identities = 70/247 (28%), Positives = 112/247 (45%), Gaps = 39/247 (15%)
Query: 112 PKLASAAEYFFKMGVEGKRFRPTVLLLMATALNVRVPEPLHDGVEDALATELRTRQQCIA 171
+ +Y +G GKR RP L+ AT V A A
Sbjct: 30 TPVVETMQYGALLG--GKRLRP--FLVYATGHMFGVST------NTLDAP---------A 70
Query: 172 EITEMIHVASLLHDDV--LDDADTRRGIGSLNFVMGNKLAVLAGDFLLSRACVALASLKN 229
E IH SL+HDD+ +DD D RRG+ + + G A+LAGD L + A L+
Sbjct: 71 AAVECIHAYSLIHDDLPAMDDDDLRRGLPTCHVKFGEANAILAGDALQTLAFSILSDADM 130
Query: 230 TEV--------VTLLATV--VEHLVTGETMQMTTSSDQRCSMDY--YMQKTYYKTASLIS 277
EV ++ LA+ + + G+ + + + + +D + + +KT +LI
Sbjct: 131 PEVSDRDRISMISELASASGIAGMCGGQALDLD-AEGKHVPLDALERIHR--HKTGALIR 187
Query: 278 NSCKAIALLAGQTAEVAILAFD-YGKNLGLAYQLIDDVLDFTGTSASLGKGSLSDIRH-- 334
+ + AL AG A+ D Y +++GLA+Q+ DD+LD G +A+LGK +D +
Sbjct: 188 AAVRLGALSAGDKGRRALPVLDKYAESIGLAFQVQDDILDVVGDTATLGKRQGADQQLGK 247
Query: 335 VIYLSLL 341
Y +LL
Sbjct: 248 STYPALL 254
>3pde_A Farnesyl-diphosphate synthase; isoprenyl diphosphate synthase,
structural genomics, PSI, PR structure initiative; HET:
IPE; 1.75A {Lactobacillus brevis} PDB: 3m9u_A*
Length = 309
Score = 105 bits (264), Expect = 3e-26
Identities = 62/243 (25%), Positives = 98/243 (40%), Gaps = 33/243 (13%)
Query: 112 PKLASAAEYFFKMGVEGKRFRPTVLLLMATALNVRVPEPLHDGVEDALATELRTRQQCIA 171
+LA+A Y G GKR RP LL +AT ++ V +A E
Sbjct: 34 AQLAAAMTYSVLAG--GKRLRP--LLTVATMQSLGVTFVPERHWRPVMALE--------- 80
Query: 172 EITEMIHVASLLHDDV--LDDADTRRGIGSLNFVMGNKLAVLAGDFLLSRA--CVALASL 227
++H SL+HDD+ +D+ RRG + + G +A LAGD LL+ A + L
Sbjct: 81 ----LLHTYSLIHDDLPAMDNDALRRGEPTNHVKFGAGMATLAGDGLLTLAFQWLTATDL 136
Query: 228 KNTEVVTLLATV-----VEHLVTGETMQMTTSSDQRCSMDY--YMQKTYYKTASLISNSC 280
T L+ + +V G+ + S + + K KT +L+ +
Sbjct: 137 PATMQAALVQALATAAGPSGMVAGQAKDIQ-SEHVNLPLSQLRVLHK--EKTGALLHYAV 193
Query: 281 KAIALLAGQTAEVAILAFDYGKNLGLAYQLIDDVLDFTGTSASLGKGSLSDIRH--VIYL 338
+A +L + GLA+Q+ DD+LD + A +GK + D Y
Sbjct: 194 QAGLILGQAPEAQWPAYLQFADAFGLAFQIYDDILDVVSSPAEMGKATQKDADEAKNTYP 253
Query: 339 SLL 341
L
Sbjct: 254 GKL 256
>3m0g_A Farnesyl diphosphate synthase; structural genomics, protein
structure initiative, NYSGXRC, biosynthesis,
transferase, PSI-2; 1.90A {Rhodobacter capsulatus} PDB:
3lvs_A
Length = 297
Score = 103 bits (258), Expect = 2e-25
Identities = 64/229 (27%), Positives = 100/229 (43%), Gaps = 37/229 (16%)
Query: 128 GKRFRPTVLLLMATALNVRVPEPLHDGVEDALATELRTRQQCIAEITEMIHVASLLHDDV 187
GKR R L + +A + A+ E +H SL+HDD+
Sbjct: 41 GKRLRA--FLAIESAAIHGISMAQAMPAALAV---------------EALHAYSLVHDDM 83
Query: 188 --LDDADTRRGIGSLNFVMGNKLAVLAGDFLLSRACVALASLKNT------EVVTLLATV 239
+D+ D RRG+ +++ + AVLAGD L + A +V LA
Sbjct: 84 PCMDNDDLRRGLPTVHKKWDDATAVLAGDALQTLAFELCTDPVLGSAENRVALVAALAQA 143
Query: 240 --VEHLVTGETMQMT-TSSDQRCSMDY--YMQKTYYKTASLISNSCKAIALLAGQTAEVA 294
E +V G+ + + ++ ++D +Q KT +LIS + +A A+LAG A+
Sbjct: 144 SGAEGMVYGQALDIAAETAAVPLTLDEIIRLQA--GKTGALISFAAQAGAILAG--ADRG 199
Query: 295 ILAFDYGKNLGLAYQLIDDVLDFTGTSASLGKGSLSDIRH--VIYLSLL 341
L Y LGLA+Q+ DD+LD G + GK D ++SLL
Sbjct: 200 PLT-AYATALGLAFQIADDILDVEGNEEAAGKRLGKDAEAHKATFVSLL 247
>3qkc_B Geranyl diphosphate synthase small subunit; structural genomics,
protein structure initiative, NEW YORK structural
genomix research consortium; 2.20A {Antirrhinum majus}
Length = 273
Score = 101 bits (253), Expect = 5e-25
Identities = 38/249 (15%), Positives = 80/249 (32%), Gaps = 39/249 (15%)
Query: 101 KRLRSMVVAEVP-KLASAAEYFFKMGVEGKRFRPTVLLLMATALNVRVPEPLHDGVEDAL 159
L+ + P + + + L +A E + DA+
Sbjct: 19 SYLKKAIPIRAPESVFEPMHHLTFAA--PRTSAS--ALCVAAC------ELVGGDRSDAM 68
Query: 160 ATELRTRQQCIAEITEMIHVASLLHDDVLDDADTRRGIGSLNFVMGNKLAVLAGDFLLSR 219
A A ++HVA+ H++ L D + + +L GD ++
Sbjct: 69 AA---------AAAVHLMHVAAYTHEN-LPLTDGPMSKSEIQHKFDPNIELLTGDGIIPF 118
Query: 220 ACVALASLKNT---------EVVTLLATVV--EHLVTGETMQMTTSSDQRCSMDY--YMQ 266
+A + + L V+ E +V G+ ++ +Q ++ Y+
Sbjct: 119 GLELMARSMDPTRNNPDRILRAIIELTRVMGSEGIVEGQYHEL--GLNQLNDLELIEYVC 176
Query: 267 KTYYKTASLISNSCKAIALLAGQTAEVAILAFDYGKNLGLAYQLIDDVLD-FTGTSASLG 325
K K +L + A+L G + +G +G L+ F G L
Sbjct: 177 K--KKEGTLHACGAACGAILGGCDEDKIEKLRRFGLYVGTVQGLLGKNRSGFEGRIKELK 234
Query: 326 KGSLSDIRH 334
+ ++ ++
Sbjct: 235 ELAVKELES 243
>2j1p_A Geranylgeranyl pyrophosphate synthetase; transferase, isoprene
biosynthesis, multifunctional enzyme, carotenoid
biosynthesis; HET: GRG; 1.8A {Sinapis alba} PDB: 2j1o_A
3kra_A 3krc_A* 3krf_A* 3kro_A* 3krp_A* 3oab_A* 3oac_A*
Length = 293
Score = 98.0 bits (245), Expect = 9e-24
Identities = 69/226 (30%), Positives = 104/226 (46%), Gaps = 37/226 (16%)
Query: 112 PKLASAAEYFFKMGVEGKRFRPTVLLLMATALNVRVPEPLHDGVEDALATELRTRQQCIA 171
K+ A Y G GKR RP +L +A V E A+ A
Sbjct: 38 LKIHEAMRYSLLAG--GKRVRP--VLCIAACELVGGEE------SLAMPA---------A 78
Query: 172 EITEMIHVASLLHDDV--LDDADTRRGIGSLNFVMGNKLAVLAGDFLLSRACVALASLKN 229
EMIH SL+HDD+ +D+ D RRG + + V G +AVLAGD LLS A LAS +
Sbjct: 79 CAVEMIHTMSLIHDDLPCMDNDDLRRGKPTNHKVYGEDVAVLAGDALLSFAFEHLASATS 138
Query: 230 TEV--------VTLLATVV--EHLVTGET--MQMTTSSDQRCSMDY--YMQKTYYKTASL 275
+EV V LA + E LV G+ + +++ ++ +KTA+L
Sbjct: 139 SEVSPARVVRAVGELAKAIGTEGLVAGQVVDISSEGLDLNNVGLEHLKFIHL--HKTAAL 196
Query: 276 ISNSCKAIALLAGQTAEVAILAFDYGKNLGLAYQLIDDVLDFTGTS 321
+ S ++ G + E + + +GL +Q++DD+LD T +S
Sbjct: 197 LEASAVLGGIIGGGSDEEIERLRKFARCIGLLFQVVDDILDVTKSS 242
>2ftz_A Geranyltranstransferase; TM0161, structural GE joint center for
structural genomics, JCSG, protein structu initiative,
PSI; HET: MLY; 1.90A {Thermotoga maritima}
Length = 284
Score = 89.5 bits (221), Expect = 1e-20
Identities = 60/245 (24%), Positives = 100/245 (40%), Gaps = 26/245 (10%)
Query: 101 KRLRSMVVAEVP-KLASAAEYFFKMGVEGKRFRPTVLLLMATALNVRVPEPLHDGVEDAL 159
+R+R ++ A Y +G G R RP ++L + L V L
Sbjct: 20 ERIREILRPGWDLLTEEAMLYSATVG--GXRIRPLLVLTLGEDLGVEEEXLLD------- 70
Query: 160 ATELRTRQQCIAEITEMIHVASLLHDDV--LDDADTRRGIGSLNFVMGNKLAVLAGDFLL 217
+A E+ H ASL+HDD+ +D+AD RRG S + G +A+LAGD L
Sbjct: 71 ----------VAVAVELFHTASLIHDDLPPIDNADFRRGXPSCHRTYGEDIALLAGDGLF 120
Query: 218 SRACVALASLKNTEVVTLLATVVEHLVTGETMQMTTSSD-QRCSMDYYMQKTYYKTASLI 276
A ++ + N+ + + L+ GE M + S + + + T +L
Sbjct: 121 FLAFSQISXIGNSXIFEEFSETAYXLLLGEAMDVEFERRXMEVSQEMVERMYAFXTGALF 180
Query: 277 SNSCKAIALLAGQTAEVAILAFDYGKNLGLAYQLIDDVLDFTGTSASLGKGSLSDIRHVI 336
+ A +L G G+ G+A+Q+ DD+ D G+ +GK D V
Sbjct: 181 AFCFSAPFILXGXDHTXMX---LLGEXFGVAFQIYDDLXDILGSFEKVGKDLGKDTEXVT 237
Query: 337 YLSLL 341
+ +
Sbjct: 238 LVXXV 242
>3kra_B Geranyl diphosphate synthase small subunit; prenyltransferase,
isoprene biosynthesis, isoprenyl pyrophosphate synthase,
transferase; 1.90A {Mentha x piperita} PDB: 3krc_B*
3krf_B* 3kro_B* 3krp_B* 3oab_B* 3oac_B*
Length = 274
Score = 88.1 bits (219), Expect = 3e-20
Identities = 42/245 (17%), Positives = 80/245 (32%), Gaps = 51/245 (20%)
Query: 128 GKRFRPTVLLLMATALNVRVPEPLHDGVEDALATELRTRQQCIAEITEMIHVASLLHDDV 187
L +A E + A+A A ++H A+ +H+ +
Sbjct: 40 PATAAS--TLCLAAC------ELVGGDRSQAMAA---------AAAIHLVHAAAYVHEHL 82
Query: 188 -LDDADTRRGIGSLNFVMGNKLAVLAGDFLLSRACVALASLKNT----------EVVTLL 236
L D ++ G + +L GD ++ LA + V+ +
Sbjct: 83 PLTDGSRPVSKPAIQHKYGPNVELLTGDGIVPFGFELLAGSVDPARTDDPDRILRVIIEI 142
Query: 237 ATVV--EHLVTGETMQMTTSSDQRCSMDY--YMQKTYYKTASLISNSCKAIALLAGQTAE 292
+ E +++G + D S+D+ Y+ K K + + A+L G E
Sbjct: 143 SRAGGPEGMISGLHREEE-IVDGNTSLDFIEYVCK--KKYGEMHACGAACGAILGGAAEE 199
Query: 293 VAILAFDYGKNLGL---------AYQLIDDVLD---FTGTSASLGK--GSLSDIRH--VI 336
++G G ++QLID+ + LG G +++ V
Sbjct: 200 EIQKLRNFGLYQGTLRGMMEMKNSHQLIDENIIGKLKELALEELGGFHGKNAELMSSLVA 259
Query: 337 YLSLL 341
SL
Sbjct: 260 EPSLY 264
>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 = 61.4 bits (148), Expect = 2e-10
Identities = 51/371 (13%), Positives = 109/371 (29%), Gaps = 109/371 (29%)
Query: 55 YSWSLPALHGIRHQIHHQSSSVIEDTD----SQEQLDPFSLV----ADELSILAKRLRS- 105
Y + + + + Q + IE D + +++ +L LR
Sbjct: 91 YKFLMSPIKTEQRQPSMMTRMYIEQRDRLYNDNQVFAKYNVSRLQPYLKLRQALLELRPA 150
Query: 106 -------M-------VVAEVPKLASAAEYFFKMGVE----GKRFRPTVLLLMATALNVRV 147
+ V +V + + + P +L M L ++
Sbjct: 151 KNVLIDGVLGSGKTWVALDVCL-SYKVQCKMDFKIFWLNLKNCNSPETVLEMLQKLLYQI 209
Query: 148 PEPLHDGVEDALATELRTRQQCIAEITEMI----HVASLLHDDVLDD-AD---------- 192
+ + +LR AE+ ++ + LL VL + +
Sbjct: 210 DPNWTSRSDHSSNIKLRI-HSIQAELRRLLKSKPYENCLL---VLLNVQNAKAWNAFNLS 265
Query: 193 -----TRRGIGSLNFVMGNKLAVLAGDFLLSRACVALASLKNTEVVTLLATVVEHLVTGE 247
T R +F+ ++ D +L EV +LL ++
Sbjct: 266 CKILLTTRFKQVTDFLSAATTTHISLDHHSM-------TLTPDEVKSLLLKYLDCRPQDL 318
Query: 248 TMQMTTSSDQRCSM------------DYYMQKTYYKTASLISNSCKAIALLAGQTAEV-- 293
++ T++ +R S+ D + K ++I +S + +L + AE
Sbjct: 319 PREVLTTNPRRLSIIAESIRDGLATWDNWKHVNCDKLTTIIESS---LNVL--EPAEYRK 373
Query: 294 -----AILAFDYGKNL----------GLAYQLIDDVLDFTGTSASLGKGSLSDIR----- 333
++ F ++ + + V++ L K SL + +
Sbjct: 374 MFDRLSV--FPPSAHIPTILLSLIWFDVIKSDVMVVVN------KLHKYSLVEKQPKEST 425
Query: 334 ---HVIYLSLL 341
IYL L
Sbjct: 426 ISIPSIYLELK 436
Score = 34.1 bits (77), Expect = 0.073
Identities = 41/284 (14%), Positives = 83/284 (29%), Gaps = 79/284 (27%)
Query: 63 HGIRHQIHHQSSSVIEDTDSQEQLDPFSLVADEL-SILAKRLRSMVVAEVPKLASAAEYF 121
+ + + + +++ D ++ V D SIL+K ++ S
Sbjct: 16 YQYKDILSVFEDAFVDNFDCKD-------VQDMPKSILSKEEIDHIIMS-KDAVSGTLRL 67
Query: 122 FKM----GVEG-KRFRPTVL------LLMATALNVRVP-----------EPLHDGVEDAL 159
F E ++F VL L+ R P + L++ +
Sbjct: 68 FWTLLSKQEEMVQKFVEEVLRINYKFLMSPIKTEQRQPSMMTRMYIEQRDRLYNDNQ-VF 126
Query: 160 ATELRTRQQCIAEITEMIHVAS-----LLHDDVLDDADTRRGIGSLNFVMGNKLAVLAGD 214
A +R Q ++ + + L+ + G G K +A D
Sbjct: 127 AKYNVSRLQPYLKLRQALLELRPAKNVLIDGVL--------GSG--------K-TWVALD 169
Query: 215 FLLSRACVAL-------ASLKNTEVVTLLATVVEHLVTGETMQMTTSSDQRCSMDYYMQK 267
LS +LKN + +++ L+ T+ SD ++ +
Sbjct: 170 VCLSYKVQCKMDFKIFWLNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHS 229
Query: 268 TYYKTASLISNSCKAIALLAGQTAEVAIL----------AFDYG 301
+ L+ + LL +L AF+
Sbjct: 230 IQAELRRLLKSKPYENCLL--------VLLNVQNAKAWNAFNLS 265
>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 = 56.6 bits (136), Expect = 6e-09
Identities = 71/410 (17%), Positives = 104/410 (25%), Gaps = 147/410 (35%)
Query: 7 LSRISRISKKTS--FGR-----RWL------PSHPLLSGASHSAAAAAADSSVKVLGCRE 53
LS + R + F + WL P L S
Sbjct: 195 LSELIRTTLDAEKVFTQGLNILEWLENPSNTPDKDYLL----SIPI-------------- 236
Query: 54 AYSWSLPALHGIRHQIHHQSSSVIEDTDSQEQLDPFSLVADELSILAKRLRSMVVAEVPK 113
S P L G+ Q+ H T P L L + +V A
Sbjct: 237 ----SCP-LIGV-IQLAH-----YVVTAKLLGFTPGEL-RSYLKGATGHSQGLVTAVAIA 284
Query: 114 LASAAEYF-----------FKMGVEGKRFRPTVLLLMATALNVRVPEPLHDGVEDALATE 162
+ E F F +GV P T+L P L D +E+
Sbjct: 285 ETDSWESFFVSVRKAITVLFFIGVRCYEAYPN------TSLP---PSILEDSLENNEGVP 335
Query: 163 LRTRQQCIAEITEMIHVASLLHDDVLDDADTRRGIG--------SL-----NFVM-GNKL 208
+ M+ +++L + V D + SL N V+ G
Sbjct: 336 -----------SPMLSISNLTQEQVQDYVNKTNSHLPAGKQVEISLVNGAKNLVVSGPPQ 384
Query: 209 AVLAGDFLLSRACVALASLKNTEV---------------VT------LLATVVEHLVT-- 245
+ L G L R A + L + + V LL + +
Sbjct: 385 S-LYGLNLTLRKAKAPSGLDQSRIPFSERKLKFSNRFLPVASPFHSHLLVPASDLINKDL 443
Query: 246 --------GETMQMT-----TSSDQRCSMDYYMQKTYYKTASLISNSCKAIALL------ 286
+ +Q+ SD R + S+ I L
Sbjct: 444 VKNNVSFNAKDIQIPVYDTFDGSDLRVL-----------SGSISERIVDCIIRLPVKWET 492
Query: 287 AGQTAEVAILAFDYGKNLGLAYQLIDDVLDFTG----TSASLGKGSLSDI 332
Q IL F G GL L D TG + +L D
Sbjct: 493 TTQFKATHILDFGPGGASGLG-VLTHRNKDGTGVRVIVAGTLDINPDDDY 541
Score = 41.2 bits (96), Expect = 5e-04
Identities = 54/312 (17%), Positives = 93/312 (29%), Gaps = 97/312 (31%)
Query: 82 SQEQ------LDPFSLV------ADE-------LSILAKRLRSMVVAEVPKLASAAEYFF 122
SQEQ AD SIL +V P + +F
Sbjct: 1626 SQEQGMGMDLYKTSKAAQDVWNRADNHFKDTYGFSILD------IVINNPV--NLTIHF- 1676
Query: 123 KMGVEGKRFRPTVLLLMATALNVRVPEPLHDGVEDALATELRTRQQCIAEITEMIHVASL 182
G +GKR R ++ E + DG ++ EI E +
Sbjct: 1677 -GGEKGKRIRENYSAMIF--------ETIVDGKLKT--------EKIFKEINEHSTSYTF 1719
Query: 183 LHD-DVLDD-ADTRRGIGSLNFVMGNKLAVLAGDFLLSRACV----------ALASLKNT 230
+ +L T+ + + L L+ ALASL
Sbjct: 1720 RSEKGLLSATQFTQPALTLMEKAA---FEDLKSKGLIPADATFAGHSLGEYAALASL--A 1774
Query: 231 EVVTLLATVVEHLVT--GETMQMTTSSDQRCSMDYYM------QKTYYKTASLISNSCKA 282
+V+++ + V +V G TMQ+ D+ +Y M + + + +
Sbjct: 1775 DVMSIESLV--EVVFYRGMTMQVAVPRDELGRSNYGMIAINPGRVAASFSQEALQYVVER 1832
Query: 283 IALLAGQTAEVA---------ILAFDYGKNLGLAYQLIDDVLDFTGT--------SASLG 325
+ G E+ + A G L + +VL+F SL
Sbjct: 1833 VGKRTGWLVEIVNYNVENQQYVAA---GDLRAL--DTVTNVLNFIKLQKIDIIELQKSL- 1886
Query: 326 KGSLSDIRHVIY 337
SL ++ ++
Sbjct: 1887 --SLEEVEGHLF 1896
Score = 40.0 bits (93), Expect = 0.001
Identities = 46/245 (18%), Positives = 79/245 (32%), Gaps = 79/245 (32%)
Query: 1 MLIYRGLSR---ISRISKKTSFGRRWLPSHPLLSGASHSAAAAAADSSVKVLGCREAYSW 57
ML L++ ++K LP+ + + + A + V V G
Sbjct: 338 MLSISNLTQEQVQDYVNKT----NSHLPAGKQVEISLVN----GAKNLV-VSG------- 381
Query: 58 SLP-ALHGIRHQIHHQSSSVIEDTDSQEQLDPFSLVADELSILAKR-----LRSMVVAEV 111
P +L+G+ + + D Q ++ PFS +R R + VA
Sbjct: 382 -PPQSLYGLNLTLRKAKAPSGLD---QSRI-PFS----------ERKLKFSNRFLPVA-S 425
Query: 112 P----KLASAAEYFFKMGVEGKRFRPTVLLLMATALNVRVPEPLHDGVEDALATELRTRQ 167
P L A++ K + A + + P++D D ++LR
Sbjct: 426 PFHSHLLVPASDLIN------KDLVKNNVSFNAKDIQI----PVYD-TFD--GSDLRVLS 472
Query: 168 QCIAE-ITEMI----------HVASLLHDDVLD-DADTRRGIGSLNFVMGNKLA-----V 210
I+E I + I H +LD G+G L NK +
Sbjct: 473 GSISERIVDCIIRLPVKWETTTQFKATH--ILDFGPGGASGLGVL--THRNKDGTGVRVI 528
Query: 211 LAGDF 215
+AG
Sbjct: 529 VAGTL 533
Score = 33.1 bits (75), Expect = 0.18
Identities = 19/124 (15%), Positives = 42/124 (33%), Gaps = 36/124 (29%)
Query: 4 YRGLSRISRISKKTSFGRRWLPSHPLLSGASHSAAAAAADSSVKVLGCREAYSWSLPALH 63
YRG++ + + GR S+ A V +E AL
Sbjct: 1788 YRGMT-MQVAVPRDELGR------------SNYGMIAINPGRVAASFSQE-------ALQ 1827
Query: 64 GIRHQIHHQSSSVIE---DTDSQEQ---------LDPFSLVADELSI----LAKRLRSMV 107
+ ++ ++ ++E +Q LD + V + + + + + +S+
Sbjct: 1828 YVVERVGKRTGWLVEIVNYNVENQQYVAAGDLRALDTVTNVLNFIKLQKIDIIELQKSLS 1887
Query: 108 VAEV 111
+ EV
Sbjct: 1888 LEEV 1891
>2pff_A Fatty acid synthase subunit alpha, 3-oxoacyl-[acyl-carrier-PR;
fatty acid synthase, acyl-carrier-protein, beta-ketoacyl
RED beta-ketoacyl synthase, dehydratase; 4.00A
{Saccharomyces cerevisiae}
Length = 1688
Score = 32.9 bits (75), Expect = 0.16
Identities = 21/101 (20%), Positives = 42/101 (41%), Gaps = 22/101 (21%)
Query: 237 ATVVEHLVT-GETMQMTTSSDQRCSMDYYMQKTYYKTASLISNSCKAIALLAGQTAEVAI 295
A V++ L+ G + +TTS + DYY Q Y K + + + + +
Sbjct: 491 AEVLQGLLQGGAKVVVTTSRFSKQVTDYY-QSIYAKYGA--------------KGSTLIV 535
Query: 296 LAFDYGKNLGLAYQLIDDVLDFTGTSASLGKGSLSDIRHVI 336
+ F N G + Q ++ +++F + G D+ +I
Sbjct: 536 VPF----NQG-SKQDVEALIEFIYDTEKNGGLGW-DLDAII 570
>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 = 28.4 bits (62), Expect = 2.1
Identities = 8/28 (28%), Positives = 14/28 (50%), Gaps = 8/28 (28%)
Query: 43 DSSVKVLGCREAYSW-SLPALHGIRHQI 69
+S+K+ Y+ S PAL I+ +
Sbjct: 26 QASLKL------YADDSAPAL-AIKATM 46
>2z0q_A XPLN, RHO guanine nucleotide exchange factor 3; DH-PH domain,
alternative splicing, cytoplasm, guanine- nucleotide
releasing factor; 1.79A {Mus musculus} PDB: 3eo2_A
Length = 346
Score = 28.2 bits (63), Expect = 3.8
Identities = 8/32 (25%), Positives = 12/32 (37%), Gaps = 2/32 (6%)
Query: 153 DGVEDALATELRTRQQCIAEI--TEMIHVASL 182
V L + RQ+ I E+ E + L
Sbjct: 7 GCVNQVLTAKEIKRQEAIFELSQGEEDLIEDL 38
>2i2x_A MTAB, methyltransferase 1; TIM barrel and helix bundle (MTAB),
rossman fold and helix B (MTAC); HET: B13; 2.50A
{Methanosarcina barkeri}
Length = 461
Score = 28.1 bits (62), Expect = 5.2
Identities = 16/69 (23%), Positives = 27/69 (39%)
Query: 137 LLMATALNVRVPEPLHDGVEDALATELRTRQQCIAEITEMIHVASLLHDDVLDDADTRRG 196
L T ++R D + L +QC +++ V S+ +V D A R
Sbjct: 121 ALRHTIGDIRENREFLQLRGDKYSVFLEAFEQCAENGADLLSVESMGGKEVFDYAVLRND 180
Query: 197 IGSLNFVMG 205
I L + +G
Sbjct: 181 IPGLLYSIG 189
>2q7b_A Acetyltransferase, GNAT family; NP_689019.1, structural GEN joint
center for structural genomics, JCSG; HET: MSE FLC;
2.00A {Streptococcus agalactiae 2603V}
Length = 181
Score = 27.1 bits (60), Expect = 7.5
Identities = 7/41 (17%), Positives = 15/41 (36%), Gaps = 3/41 (7%)
Query: 280 CKAIALLAGQTAEVAILAFD---YGKNLGLAYQLIDDVLDF 317
A+ + +TA + G + L +L + + F
Sbjct: 85 SIALLRIDDKTAVLKKFFTYPKYRGNPVRLGRKLFERFMLF 125
>3u9r_B MCC beta, methylcrotonyl-COA carboxylase, beta-subunit;
carboxyltransferase, beta-BETA-alpha superhelix, ligase;
HET: 1PE; 1.50A {Pseudomonas aeruginosa} PDB: 3u9s_B*
3u9t_B
Length = 555
Score = 27.6 bits (62), Expect = 7.7
Identities = 24/123 (19%), Positives = 43/123 (34%), Gaps = 27/123 (21%)
Query: 100 AKRLRSMVVAEVPKL------ASAAEYFFKMGVEGKRFRPTVLLLMATA----------- 142
AK + ++ A VPK + A + G+ G+ + P L + A
Sbjct: 415 AKLVTAVACARVPKFTVLIGGSFGAGNY---GMCGRAYDPRFLWMWPNARIGVMGGEQAA 471
Query: 143 ---LNVRVPEPLHDGVEDALATELRTRQQCIAEITEMIHV----ASLLHDDVLDDADTRR 195
V+ + G + + E + + + + H A L D V+D A TR
Sbjct: 472 GVLAQVKREQAERAGQQLGVEEEAKIKAPILEQYEHQGHPYYSSARLWDDGVIDPAQTRE 531
Query: 196 GIG 198
+
Sbjct: 532 VLA 534
>1pix_A Glutaconyl-COA decarboxylase A subunit; biotin-dependent ION pump,
carboxyltransferase, lyase; 2.20A {Acidaminococcus
fermentans} SCOP: c.14.1.4 c.14.1.4
Length = 587
Score = 27.4 bits (61), Expect = 8.2
Identities = 18/123 (14%), Positives = 40/123 (32%), Gaps = 27/123 (21%)
Query: 100 AKRLRSMVVAEVPKL------ASAAEYFFKMGVEGKRFRPTVLLLMATA---LNVRVPEP 150
+ S+ + +P+ +AA ++ +G G + T + TA + V E
Sbjct: 434 QSLIYSIQTSHIPQFEITLRKGTAAAHY-VLG--GPQGNDTNAFSIGTAATEIAVMNGET 490
Query: 151 ----LHDGVEDALATELRTRQQCIAEITEMIHV-----------ASLLHDDVLDDADTRR 195
++ + Q I ++ +I L D+++D R
Sbjct: 491 AATAMYSRRLAKDRKAGKDLQPTIDKMNNLIQAFYTKSRPKVCAELGLVDEIVDMNKIRG 550
Query: 196 GIG 198
+
Sbjct: 551 YVE 553
>2pz1_A RHO guanine nucleotide exchange factor 4; helical bundle, beta
barrel, beta sandwich, signaling protei; 2.25A {Homo
sapiens} PDB: 2dx1_A 3nmz_D 3nmx_D
Length = 466
Score = 27.2 bits (60), Expect = 9.8
Identities = 10/37 (27%), Positives = 17/37 (45%), Gaps = 2/37 (5%)
Query: 148 PEPLHDGVEDALATELRTRQQCIAEI--TEMIHVASL 182
DG +A +++ + R I EI TE ++ L
Sbjct: 101 NSGAEDGGAEAQSSKDQMRTNVINEILSTERDYIKHL 137
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
0.320 0.132 0.371
Gapped
Lambda K H
0.267 0.0696 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 5,181,747
Number of extensions: 316482
Number of successful extensions: 758
Number of sequences better than 10.0: 1
Number of HSP's gapped: 619
Number of HSP's successfully gapped: 64
Length of query: 348
Length of database: 6,701,793
Length adjustment: 94
Effective length of query: 254
Effective length of database: 4,077,219
Effective search space: 1035613626
Effective search space used: 1035613626
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 58 (26.2 bits)