RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= 026139
(243 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 = 315 bits (809), Expect = e-108
Identities = 187/229 (81%), Positives = 211/229 (92%)
Query: 1 MVVAEVPKLASAAEYFFKMGVEGKRFRPTVLLLMATALNVRVPEPLHDGVEDALATELRT 60
MV+AEVPKLASAAEYFFK GV+GK+FR T+LLLMATAL+VRVPE L D + +ELR
Sbjct: 28 MVLAEVPKLASAAEYFFKRGVQGKQFRSTILLLMATALDVRVPEALIGESTDIVTSELRV 87
Query: 61 RQQCIAEITEMIHVASLLHDDVLDDADTRRGIGSLNFVMGNKLAVLAGDFLLSRACVALA 120
RQ+ IAEITEMIHVASLLHDDVLDDADTRRG+GSLN VMGNK++VLAGDFLLSRAC ALA
Sbjct: 88 RQRGIAEITEMIHVASLLHDDVLDDADTRRGVGSLNVVMGNKMSVLAGDFLLSRACGALA 147
Query: 121 SLKNTEVVTLLATVVEHLVTGETMQMTTSSDQRCSMDYYMQKTYYKTASLISNSCKAIAL 180
+LKNTEVV LLAT VEHLVTGETM++T+S++QR SMDYYMQKTYYKTASLISNSCKA+A+
Sbjct: 148 ALKNTEVVALLATAVEHLVTGETMEITSSTEQRYSMDYYMQKTYYKTASLISNSCKAVAV 207
Query: 181 LAGQTAEVAILAFDYGKNLGLAYQLIDDVLDFTGTSASLGKGSLSDIRH 229
L GQTAEVA+LAF+YG+NLGLA+QLIDD+LDFTGTSASLGKGSLSDIRH
Sbjct: 208 LTGQTAEVAVLAFEYGRNLGLAFQLIDDILDFTGTSASLGKGSLSDIRH 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 = 213 bits (545), Expect = 1e-68
Identities = 67/228 (29%), Positives = 102/228 (44%), Gaps = 19/228 (8%)
Query: 2 VVAEVPKLASAAEYFFKMGVEGKRFRPTVLLLMATALNVRVPEPLHDGVEDALATELRTR 61
V + + K G GK RP L +T N P L
Sbjct: 36 VQLDNQPIHHKILALLKSG--GKLLRPGYFYLFSTFGNAATPAQLQA------------- 80
Query: 62 QQCIAEITEMIHVASLLHDDVLDDADTRRGIGSLNFVMGNKLAVLAGDFLLSRA-CVALA 120
A E++HV +L+HDDV+DD+ TRRG+ ++ G + A+ AGDF+ + L
Sbjct: 81 ---GAAAIEILHVGTLIHDDVIDDSPTRRGVRTIQMTYGQRNAIYAGDFMFTVYFDQVLK 137
Query: 121 SLKNTEVVTLLATVVEHLVTGETMQMTTSSDQRCSMDYYMQKTYYKTASLISNSCKAIAL 180
S + ++ + ++ GE QM + + ++D Y+ + KTA L + SC A
Sbjct: 138 STTDRSLIQNHIDAMHRILQGELHQMDLNYREDITLDAYLNEIAGKTAELFALSCYQGAQ 197
Query: 181 LAGQTAEVAILAFDYGKNLGLAYQLIDDVLDFTGTSASLGKGSLSDIR 228
LAG V D G +G AYQ++DD+LD+ G K L D+R
Sbjct: 198 LAGAPQSVIDRTRDIGIAIGCAYQMLDDILDYAGDPKRTQKPVLEDLR 245
>3aqb_B Component B of hexaprenyl diphosphate synthase; prenyltransferase,
transferase; 2.40A {Micrococcus luteus} PDB: 3aqc_B*
Length = 325
Score = 209 bits (535), Expect = 3e-67
Identities = 67/227 (29%), Positives = 111/227 (48%), Gaps = 19/227 (8%)
Query: 2 VVAEVPKLASAAEYFFKMGVEGKRFRPTVLLLMATALNVRVPEPLHDGVEDALATELRTR 61
+ ++ + AA + G GKR RP +LL + + + +
Sbjct: 25 IQSDSETINKAAHHILSSG--GKRVRPMFVLLSGFLNDTQKDDLIR-------------- 68
Query: 62 QQCIAEITEMIHVASLLHDDVLDDADTRRGIGSLNFVMGNKLAVLAGDFLLSRACVALAS 121
A E++H+ASL+HDD +D++D RRG S++ A+ G FLL+RA +A+
Sbjct: 69 ---TAVSLELVHMASLVHDDYIDNSDMRRGNTSVHIAFDKDTAIRTGHFLLARALQNIAT 125
Query: 122 LKNTEVVTLLATVVEHLVTGETMQMTTSSDQRCSMDYYMQKTYYKTASLISNSCKAIALL 181
+ N++ + + + + GE QM + S Y+++ KTA LI SC AL
Sbjct: 126 INNSKFHQIFSKTILEVCFGEFDQMADRFNYPVSFTAYLRRINRKTAILIEASCHLGALS 185
Query: 182 AGQTAEVAILAFDYGKNLGLAYQLIDDVLDFTGTSASLGKGSLSDIR 228
+ + +G +G++YQ+IDD+LD+T A+LGK SDIR
Sbjct: 186 SQLDEQSTYHIKQFGHCIGMSYQIIDDILDYTSDEATLGKPVGSDIR 232
>3oyr_A Trans-isoprenyl diphosphate synthase; isoprenyl synthase, PSI,
protein structure initiative; HET: IPE; 2.00A
{Caulobacter crescentus}
Length = 345
Score = 204 bits (520), Expect = 8e-65
Identities = 71/225 (31%), Positives = 107/225 (47%), Gaps = 19/225 (8%)
Query: 4 AEVPKLASAAEYFFKMGVEGKRFRPTVLLLMATALNVRVPEPLHDGVEDALATELRTRQQ 63
++V + + AE+ G GKR RP + + A
Sbjct: 48 SDVAIIPALAEHLIAAG--GKRLRPLMTVAAARLAGADNDHFQK---------------- 89
Query: 64 CIAEITEMIHVASLLHDDVLDDADTRRGIGSLNFVMGNKLAVLAGDFLLSRACVALASLK 123
+A E IH A+LLHDDV+D + RRG + + + G +VL GDFL +RA +
Sbjct: 90 -LAAAVEFIHTATLLHDDVVDGSQLRRGKVAAHLIWGGAQSVLVGDFLFARAFELMVETN 148
Query: 124 NTEVVTLLATVVEHLVTGETMQMTTSSDQRCSMDYYMQKTYYKTASLISNSCKAIALLAG 183
+ + + +LA + GE +Q+ S D S Y++ KTA L + + +A A+ AG
Sbjct: 149 SMKALEILARASRVIAEGEVLQLMRSHDLNLSQAVYLEIIQAKTAELFAAASEAGAVSAG 208
Query: 184 QTAEVAILAFDYGKNLGLAYQLIDDVLDFTGTSASLGKGSLSDIR 228
+ DYG NLGLA+QL DD LD+ G + +LGK + D R
Sbjct: 209 VDVAKSEALRDYGLNLGLAFQLADDALDYGGATETLGKNAGDDFR 253
>3rmg_A Octaprenyl-diphosphate synthase; structural genomics, protein
structure initiative, isoprene biosynthesis,
transferase; 2.30A {Bacteroides thetaiotaomicron}
Length = 334
Score = 202 bits (516), Expect = 2e-64
Identities = 68/225 (30%), Positives = 111/225 (49%), Gaps = 20/225 (8%)
Query: 4 AEVPKLASAAEYFFKMGVEGKRFRPTVLLLMATALNVRVPEPLHDGVEDALATELRTRQQ 63
L S + K GK RP ++LL+A P LH
Sbjct: 30 DSNALLDSVITHIRKRN--GKMMRPILVLLVARLYGAVTPATLH---------------- 71
Query: 64 CIAEITEMIHVASLLHDDVLDDADTRRGIGSLNFVMGNKLAVLAGDFLLSRACVALASLK 123
A E++H ASL+HDDV+D++ RRG S+N + NK++VLAGD+LL+ + V
Sbjct: 72 -AAVSLELLHTASLVHDDVVDESTERRGQLSVNAIFNNKVSVLAGDYLLATSLVHAEQTN 130
Query: 124 NTEVVTLLATVVEHLVTGETMQMTTSSDQRCSMDYYMQKTYYKTASLISNSCKAIALLAG 183
N E++ L++++ + L GE +Q++ S+ S + Y KTA+L + +A AL
Sbjct: 131 NYEIIRLVSSLGQKLAEGELLQLSNVSNHSFSEEVYFDVIRKKTAALFAACAEAAALSVQ 190
Query: 184 QTAEVAILAFDYGKNLGLAYQLIDDVLDFTGTSASLGKGSLSDIR 228
E A G+ +G+ +Q+ DD+ D+ S +GK + +D+
Sbjct: 191 VGEEEVAFARLLGEYIGICFQIKDDIFDYFD-SKKIGKPTGNDML 234
>3mzv_A Decaprenyl diphosphate synthase; transferase, structural genomics,
PSI-2, protein structure initiative; 1.90A {Rhodobacter
capsulatus}
Length = 341
Score = 198 bits (505), Expect = 1e-62
Identities = 70/224 (31%), Positives = 113/224 (50%), Gaps = 19/224 (8%)
Query: 5 EVPKLASAAEYFFKMGVEGKRFRPTVLLLMATALNVRVPEPLHDGVEDALATELRTRQQC 64
P++ + + G GKR RP + L A + P +H
Sbjct: 37 HAPRIPEVTAHLIEAG--GKRLRPMLTLAAARLVGYGGPFHVH----------------- 77
Query: 65 IAEITEMIHVASLLHDDVLDDADTRRGIGSLNFVMGNKLAVLAGDFLLSRACVALASLKN 124
+A E IH A+LLHDDV+D++ RRG + N + NK +VL GD+L +R+ + N
Sbjct: 78 LAATVEFIHTATLLHDDVVDESRQRRGRPTANLLWDNKSSVLVGDYLFARSFQLMTDTGN 137
Query: 125 TEVVTLLATVVEHLVTGETMQMTTSSDQRCSMDYYMQKTYYKTASLISNSCKAIALLAGQ 184
V+ +LA + GE +Q+T + + + D Y++ KTA+L S + + ++ G
Sbjct: 138 MRVMEILANASAVIAEGEVLQLTAAQNLATTEDIYLRVIRGKTAALFSAATEVGGIIGGA 197
Query: 185 TAEVAILAFDYGKNLGLAYQLIDDVLDFTGTSASLGKGSLSDIR 228
+ FDYG LG+A+Q++DD+LD+ G SA +GK + D R
Sbjct: 198 PEDQVQALFDYGDALGIAFQIVDDLLDYGGKSAEIGKNTGDDFR 241
>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 = 196 bits (501), Expect = 7e-62
Identities = 63/227 (27%), Positives = 104/227 (45%), Gaps = 20/227 (8%)
Query: 2 VVAEVPKLASAAEYFFKMGVEGKRFRPTVLLLMATALNVRVPEPLHDGVEDALATELRTR 61
+ + L + + G GKRFRP LL + + E +
Sbjct: 55 LSSGEDFLVDIVMHLTRAG--GKRFRPMFALLASEFGEKPLSENVIKA------------ 100
Query: 62 QQCIAEITEMIHVASLLHDDVLDDADTRRGIGSLNFVMGNKLAVLAGDFLLSRACVALAS 121
A + E+ H+A+L HDDV+D+A RRG+ S N N +A+LAGD LL+ A ++
Sbjct: 101 ----AVVVEITHLATLYHDDVMDEASMRRGVPSANARWDNSVAILAGDILLAHASGLMSQ 156
Query: 122 LKNTEVVTLLATVVEHLVTGETMQMTTSSDQRCSMDYYMQKTYYKTASLISNSCKAIALL 181
L + V A LVTG+ + D +++Y KT LI+++ A+
Sbjct: 157 LGT-DTVAHFAETFGELVTGQMRETVGPRDTD-PIEHYTNVIREKTGVLIASAGYLGAMH 214
Query: 182 AGQTAEVAILAFDYGKNLGLAYQLIDDVLDFTGTSASLGKGSLSDIR 228
AG E ++G +G+ +Q++DD++D + GK +D+R
Sbjct: 215 AGAAPEHIDALKNFGAAVGMIFQIVDDIIDIFSETHESGKTPGTDLR 261
>3tc1_A Octaprenyl pyrophosphate synthase; all alpha-helices fold,
transferase; 2.00A {Helicobacter pylori}
Length = 315
Score = 193 bits (492), Expect = 5e-61
Identities = 64/224 (28%), Positives = 99/224 (44%), Gaps = 23/224 (10%)
Query: 5 EVPKLASAAEYFFKMGVEGKRFRPTVLLLMATALNVRVPEPLHDGVEDALATELRTRQQC 64
E + R + + LL + + + L+
Sbjct: 21 ESGFIDELFSKIGPSK--MLRSKLMLALLNEKTDAILLDKALN----------------- 61
Query: 65 IAEITEMIHVASLLHDDVLDDADTRRGIGSLNFVMGNKLAVLAGDFLLSRACVALASLKN 124
+ I EMI ASLLHDDV+D A RR + S+N + GN AV+ GD S+A L+ +
Sbjct: 62 LCTIVEMIQTASLLHDDVIDKATMRRKLPSINALFGNFNAVMLGDVFYSKAFFELSKMGE 121
Query: 125 TEVVTLLATVVEHLVTGETMQMTTSSDQRCSMDYYMQKTYYKTASLISNSCKAIALLAGQ 184
+ L+ V L GE + Y + KTA I S K++A+L +
Sbjct: 122 -LIAQALSNAVLRLSRGEIEDVFVGECFNSDKQKYWRILEDKTAHFIEASLKSMAILLNK 180
Query: 185 TAEVAILAFDYGKNLGLAYQLIDDVLDFTGTSASLGKGSLSDIR 228
A++ D+G N G+A+Q+IDD+LD T + +LGK + SD +
Sbjct: 181 DAKI---YADFGLNFGMAFQIIDDLLDITQDAKTLGKPNFSDFK 221
>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 = 191 bits (487), Expect = 2e-60
Identities = 55/222 (24%), Positives = 95/222 (42%), Gaps = 23/222 (10%)
Query: 7 PKLASAAEYFFKMGVEGKRFRPTVLLLMATALNVRVPEPLHDGVEDALATELRTRQQCIA 66
+ GK R + +L V + E
Sbjct: 26 QFFPEQIMKDLPLY--GKMLRVRLSILSFKNRGVEIGEDAIS----------------SL 67
Query: 67 EITEMIHVASLLHDDVLDDADTRRGIGSLNFVMGNKLAVLAGDFLLSRACVALASLKNTE 126
E++H+ASLLHDDV+D A RRG ++NF+ G+K AV AGD +L A + + N +
Sbjct: 68 AALELVHLASLLHDDVIDGARFRRGKETINFMYGDKAAVAAGDLVLVSAFHTVEEIGNNK 127
Query: 127 VVTLLATVVEHLVTGETMQMTTSSDQRCSMDYYMQKTYYKTASLISNSCKAIALLAGQTA 186
+ V+ + E ++ + + + Y++ K+ +L + + ALL G+
Sbjct: 128 LRRAFLNVIGKMSEAELIEQLSRYKP-ITKEEYLRIVEGKSGALFGLALQLPALLEGELG 186
Query: 187 EVAILAFDYGKNLGLAYQLIDDVLDFTGTSASLGKGSLSDIR 228
E ++ G +G YQ+ DD++DF G +GK D++
Sbjct: 187 ED---LYNLGVTIGTIYQMFDDIMDFAGM-EKIGKDGFLDLK 224
>3ipi_A Geranyltranstransferase; isoprene biosynthesis, helical bundle,
protein structure initiative II (PSI II), structural
genomics, nysgxrc; 1.90A {Methanosarcina mazei}
Length = 295
Score = 187 bits (478), Expect = 4e-59
Identities = 61/216 (28%), Positives = 96/216 (44%), Gaps = 21/216 (9%)
Query: 1 MVVAEVPKLASAAEYFFKMGVEGKRFRPTVLLLMATALNVRVPEPLHDGVEDALATELRT 60
+ + E P L E+ G GKR RP +LLL++ + L+
Sbjct: 22 ITLIEDPGLKKMVEHVCHSG--GKRIRPIILLLVSEICSGSYSRSLN------------- 66
Query: 61 RQQCIAEITEMIHVASLLHDDVLDDADTRRGIGSLNFVMGNKLAVLAGDFLLSRACVALA 120
A EM+H ASL+HDD+LD RR + S G A+L GD+L++++ ++
Sbjct: 67 ----AALAVEMMHSASLIHDDLLDQGLVRRNLPSAPEKFGPSGALLCGDYLIAKSIAFIS 122
Query: 121 SLKNTEVVTLLATVVEHLVTGETMQMTTSSDQRCSMDYYMQKTYYKTASLISNSCKAIAL 180
+V+ + GE + + D+ + Y + Y KTASL + S A
Sbjct: 123 PYGE-KVIQDFGKAGMDMAEGEVLDL-KLEDESFGENDYFKCIYKKTASLFAISASIGAY 180
Query: 181 LAGQTAEVAILAFDYGKNLGLAYQLIDDVLDFTGTS 216
G E+A +G LG AYQ++DD+L+F
Sbjct: 181 TGGAEEELAERFSHFGNALGTAYQIVDDILEFLEVV 216
>1wy0_A Geranylgeranyl pyrophosphate synthetase; pyrococcus horikosh
structural genomics, riken structural
genomics/proteomics initiative, RSGI; 2.20A {Pyrococcus
horikoshii}
Length = 342
Score = 181 bits (462), Expect = 4e-56
Identities = 66/233 (28%), Positives = 105/233 (45%), Gaps = 24/233 (10%)
Query: 1 MVVAEVPKLASAAEYFFKMGVEGKRFRPTVLLLMATALNVRVPEPLHDGVEDALATELRT 60
+ + L AA ++ G GKR RP V+L A+ ++
Sbjct: 26 IPEKDPRVLYEAARHYPLAG--GKRVRPFVVLTSTEAVGGDPLRAIY------------- 70
Query: 61 RQQCIAEITEMIHVASLLHDDVLDDADTRRGIGSLNFVMGNKLAVLAGDFLLSRACVALA 120
A E+IH SL+HDD++D +TRRG +++ + G +A+LAGD L S+A A+A
Sbjct: 71 ----PAVAIELIHNYSLVHDDIMDMDETRRGKPTVHRIWGVNMAILAGDLLFSKAFEAVA 126
Query: 121 SL-----KNTEVVTLLATVVEHLVTGETMQMTTSSDQRCSMDYYMQKTYYKTASLISNSC 175
K V+ ++ L G+ + +++ YM+ KT +L S
Sbjct: 127 RAEIPPEKKARVLEVIVKASNELCEGQARDLEFEKKSTVTIEEYMEMISGKTGALFEASA 186
Query: 176 KAIALLAGQTAEVAILAFDYGKNLGLAYQLIDDVLDFTGTSASLGKGSLSDIR 228
K ++ E +G+N+G+A+Q+ DDVLD LGK SDIR
Sbjct: 187 KVGGIIGTDNEEYIKALSSWGRNVGIAFQIWDDVLDLIADEKKLGKPVGSDIR 239
>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 = 178 bits (454), Expect = 2e-55
Identities = 46/225 (20%), Positives = 83/225 (36%), Gaps = 24/225 (10%)
Query: 5 EVPKLASAAEYFFKMGVEGKRFRPTVLLLMATALNVRVPEPLHDGVEDALATELRTRQQC 64
L +Y ++ GK+ R + L V PE
Sbjct: 9 VQRILLEPYKYLLQLP--GKQVRTKLSQAFNHWLKV--PEDKLQ---------------I 49
Query: 65 IAEITEMIHVASLLHDDVLDDADTRRGIGSLNFVMGNKLAVLAGDFLLSRACVALASLKN 124
I E+TEM+H ASLL DD+ D++ RRG + + G + + +++ + +L +
Sbjct: 50 IIEVTEMLHNASLLIDDIEDNSKLRRGFPVAHSIYGIPSVINSANYVYFLGLEKVLTLDH 109
Query: 125 TEVVTLLATVVEHLVTGETMQMTTSSDQRC-SMDYYMQKTYYKTASLISNSCKAIALLAG 183
+ V L + L G+ + + + C + + Y KT L + + L +
Sbjct: 110 PDAVKLFTRQLLELHQGQGLDIYWRDNYTCPTEEEYKAMVLQKTGGLFGLAVGLMQLFSD 169
Query: 184 QTAEVAILAFDYGKNLGLAYQLIDDVLDFTGTSASLGKGSLSDIR 228
++ LGL +Q+ DD + S K D+
Sbjct: 170 YKEDLK----PLLNTLGLFFQIRDDYANLHSKEYSENKSFCEDLT 210
>2azj_A Geranylgeranyl pyrophosphate synthetase; hexpps,
trans-prenyltransferase; 2.40A {Sulfolobus solfataricus}
PDB: 2azk_A
Length = 289
Score = 176 bits (449), Expect = 8e-55
Identities = 49/210 (23%), Positives = 78/210 (37%), Gaps = 29/210 (13%)
Query: 23 GKRFRPTVLLLMATALNVRVPEPLHDGVEDALATELRTRQQCIAEITEMIHVASLLHDDV 82
GKRFR T+ + AL + + A E++H ASL D+
Sbjct: 49 GKRFRGTLNMFFTVALGGDIKDSYG-----------------GALAIEILHSASLALCDI 91
Query: 83 LDDADTRRGIGSLNFVMGNKLAVLAGDFLLSRACVALASLKNTEVVTLLATVVEHLVTGE 142
+D TRRG + V GN+ + ++L+ A + + + + + + G
Sbjct: 92 VDLDATRRGDKAAWVVYGNRKVIFITNYLIPTALRIIQTSYGDDALNTSIELWKDTSVGA 151
Query: 143 TMQMTTSSDQRCSMDYYMQKTYYKTASLISNSCKAIALLAGQTAEVAILAFDYGKNLGLA 202
M +SD Y++ KT SL S A + + D GK LG+
Sbjct: 152 LRDMYDNSD-------YIRTIELKTGSLFKLSTVLSAYASKHYNTKQQML-DVGKYLGII 203
Query: 203 YQLIDDVLDFTGTSA----SLGKGSLSDIR 228
YQ+IDD +D+ K R
Sbjct: 204 YQVIDDFVDYKTKKVEEIDGSAKQLFKYYR 233
>3nf2_A Putative polyprenyl synthetase; isoprenyl diphosphate synthase,
structural genomics, PSI, PR structure initiative,
nysgrc; 2.20A {Streptomyces coelicolor}
Length = 352
Score = 176 bits (449), Expect = 5e-54
Identities = 57/231 (24%), Positives = 96/231 (41%), Gaps = 22/231 (9%)
Query: 1 MVVAEVPKLASAAEYFFKMGVEGKRFRPTVLLLMATALNVRVPEPLHDGVEDALATELRT 60
+ + + G GK RP + +L A E +
Sbjct: 34 VAAYHFGWIDAQGNPADGDG--GKAVRPALAVLSAEVTG--------AAPEVGVPG---- 79
Query: 61 RQQCIAEITEMIHVASLLHDDVLDDADTRRGIGSLNFVMGNKLAVLAGDFLLSRAC---V 117
A E++H SLLHDD++D + RR ++ V G A+L GD L + A +
Sbjct: 80 -----AVAVELVHNFSLLHDDLMDGDEQRRHRDTVWKVHGPAQAILVGDALFALANEVLL 134
Query: 118 ALASLKNTEVVTLLATVVEHLVTGETMQMTTSSDQRCSMDYYMQKTYYKTASLISNSCKA 177
L +++ L L+ G+ ++ R S++ ++ KT +L++ +
Sbjct: 135 ELGTVEAGRATRRLTKASRSLIDGQAQDISYEHRDRVSVEECLEMEGNKTGALLACASSI 194
Query: 178 IALLAGQTAEVAILAFDYGKNLGLAYQLIDDVLDFTGTSASLGKGSLSDIR 228
A+L G A YG +LGLA+Q +DD+L G + GK + SD+R
Sbjct: 195 GAVLGGADERTADTLEKYGYHLGLAFQAVDDLLGIWGDPDATGKQTWSDLR 245
>4dhd_A Polyprenyl synthetase; isoprenoid synthesis, isoprenoid diphosphate
synthase, trans; 1.65A {Pyrobaculum calidifontis}
Length = 358
Score = 175 bits (447), Expect = 9e-54
Identities = 62/241 (25%), Positives = 103/241 (42%), Gaps = 32/241 (13%)
Query: 1 MVVAEVPKLASAAEYFFKMGVEGKRFRPTVLLLMATALNVRVPEPLHDGVEDALATELRT 60
+ + A Y K G GKR RP + L A A++ + L
Sbjct: 25 LSIGLAEDFREAVLYQVKTG--GKRLRPLLTLAAAEAVSGQWRPALP------------- 69
Query: 61 RQQCIAEITEMIHVASLLHDDVLDDADTRRGIGSLNFVMGNKLAVLAGDFLLSRACVALA 120
A I E+IH SL++DD++D D RRG+ ++ G+ A+L G + A+
Sbjct: 70 ----AAAIVELIHNYSLIYDDIIDRGDVRRGLPTVRKAFGDNAAILVGIWYREAIEEAVL 125
Query: 121 SLKNTEVVT-LLATVVEHLVTGETMQMTTSSDQRC------------SMDYYMQKTYYKT 167
+ +A V++ + GE + + + R ++D Y++ KT
Sbjct: 126 DTPKPTLFAKEVAEVIKAIDEGERLDILFEAAGRSDPYFVQARWREVTLDDYIKMVSLKT 185
Query: 168 ASLISNSCKAIALLAGQTAEVAILAFDYGKNLGLAYQLIDDVLDFTGTSASLGKGSLSDI 227
+LI+ + K L +A A+++G G+A+Q+IDDVLD G GK DI
Sbjct: 186 GALIAAAAKWGVLSVSDDRGLAEAAWNFGMAAGVAFQIIDDVLDIYGDPKKFGKEIGKDI 245
Query: 228 R 228
+
Sbjct: 246 K 246
>4fp4_A Polyprenyl synthetase; isoprenoid synthesis, isoprenoid diphosphate
synthase, trans; HET: GER UNL; 2.00A {Pyrobaculum
calidifontis}
Length = 285
Score = 172 bits (437), Expect = 4e-53
Identities = 56/221 (25%), Positives = 90/221 (40%), Gaps = 27/221 (12%)
Query: 1 MVVAEVPKLASAAEYFFKMGVEGKRFRPTVLLLMATALNVRVPEPLHDGVEDALATELRT 60
E L A ++ + GK RP +LL +++ + D E
Sbjct: 25 GEELEPISLRKAVRHYIETP--GKLLRPLLLLTFTYSID-------RRSIMDPRILEA-- 73
Query: 61 RQQCIAEITEMIHVASLLHDDVLDDADTRRGIGSLNFVMGNKLAVLAGDFLLSRACVALA 120
A I E++HV SLL DDV+D D RRGI + + G+ A++A D+L++ +
Sbjct: 74 -----AAIVELLHVVSLLQDDVMDQHDQRRGIKTPRAMYGDGRAIVASDWLIAESIKMAV 128
Query: 121 SLKNTEVVTLLATVVEHLVTGETMQMTTSSDQRCSMDYYMQKTYYKTASLISNSCKAIAL 180
+L +VVT LA V + L G+ + + + +KTA LI + +
Sbjct: 129 NL-GADVVTYLADVAQRLSVGQALDLEGE---------RDKAAEFKTAPLIEAALVMPLV 178
Query: 181 LAGQTAEVAILAFDYGKNLGLAYQLIDDVLDFTGTSASLGK 221
+ G+ + G LG+ YQ DD D
Sbjct: 179 ILGRRELIETAK-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 = 161 bits (410), Expect = 1e-48
Identities = 57/232 (24%), Positives = 90/232 (38%), Gaps = 30/232 (12%)
Query: 5 EVPKLASAAEYFFKMGVEGKRFRPTVLLLMATALNVRVPEPLHDGVEDALATELRTRQQC 64
P + + + G GK R + + A A +E L
Sbjct: 23 PDPLYRDLLQDYPRRG--GKMLRGLLTVYSALAHG--------APLEAGLE--------- 63
Query: 65 IAEITEMIHVASLLHDDVLDDADTRRGIGSLNFVMGNKLAVLAGDFLLSRACVALA---- 120
A E+ L+HDD+ D ++ RRG +L+ + LA+ AGD + + LA
Sbjct: 64 AATALELFQNWVLVHDDIEDGSEERRGRPALHRLHPMPLALNAGDAMHAEMWGLLAEGLA 123
Query: 121 -SLKNTEVVTLLATVVEHLVTGETMQMTTSSDQRC--SMDYYMQKTYYKTASLI-SNSCK 176
L EV+ VV G+ + + + + Y + +K A +
Sbjct: 124 RGLFPPEVLLEFHEVVRRTAYGQHLDLLWTLGGTFDLRPEDYFRMVAHKAAYYTAVAPLR 183
Query: 177 AIALLAGQTAEVAILAFDYGKNLGLAYQLIDDVLDFTGTSASLGKGSLSDIR 228
ALLAG+T A + G LG A+Q++DDVL+ G A GK D+
Sbjct: 184 LGALLAGKTPPAAY--EEGGLRLGTAFQIVDDVLNLEGGEA-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 = 161 bits (409), Expect = 3e-48
Identities = 43/232 (18%), Positives = 91/232 (39%), Gaps = 28/232 (12%)
Query: 5 EVPKLASAAEYFFKMGVEGKRFRPTVLLLMATALNVRVPEPLHDGVEDALATELRTRQQC 64
++ + GK FR +++ + +N+ +
Sbjct: 24 NESLISKPYNHILLKP--GKNFRLNLIVQINRVMNLPKDQLAI----------------- 64
Query: 65 IAEITEMIHVASLLHDDVLDDADTRRGIGSLNFVMGNKLAVLAGDFLLSRA---CVALAS 121
+++I E++H +SLL DD+ D+A RRG + + + G + +++ RA L +
Sbjct: 65 VSQIVELLHNSSLLIDDIEDNAPLRRGQTTSHLIFGVPSTINTANYMYFRAMQLVSQLTT 124
Query: 122 LKN--TEVVTLLATVVEHLVTGETMQMT---TSSDQRCSMDYYMQKTYYKTASLISNSCK 176
+ ++T+ + +L G+ + + + + + Y+ KT L + +
Sbjct: 125 KEPLYHNLITIFNEELINLHRGQGLDIYWRDFLPEIIPTQEMYLNMVMNKTGGLFRLTLR 184
Query: 177 AIALLAGQTAEVAILAFDYGKNLGLAYQLIDDVLDFTGTSASLGKGSLSDIR 228
+ L+ + L + LG+ YQ+ DD L+ S KG DI
Sbjct: 185 LMEALSPSSHHGHSLV-PFINLLGIIYQIRDDYLNLKDFQMSSEKGFAEDIT 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 (385), Expect = 3e-44
Identities = 59/249 (23%), Positives = 98/249 (39%), Gaps = 35/249 (14%)
Query: 2 VVAEVPKLASAAEYFFKMGVEGKRFRPTVLLLMATALNVRVPEPLHDGVEDALATELRTR 61
+ A V + F G GKR RP A + + + +E L
Sbjct: 43 IGAPVTDAVAHLRSFVLNG--GKRIRPLYAWAGFLA--AQGHKNSSEKLESVLD------ 92
Query: 62 QQCIAEITEMIHVASLLHDDVLDDADTRRGIGSLNFVM----------------GNKLAV 105
A E I +L+HDD++D +DTRRG +++ + G +++
Sbjct: 93 ---AAASLEFIQACALIHDDIIDSSDTRRGAPTVHRAVEADHRANNFEGDPEHFGVSVSI 149
Query: 106 LAGDFLLSRACVALASL-----KNTEVVTLLATVVEHLVTGETMQMTTSSDQRCSMDYYM 160
LAGD L A L + ++ G+ + + S S++
Sbjct: 150 LAGDMALVWAEDMLQDSGLSAEALARTRDAWRGMRTEVIGGQLLDIYLESHANESVELAD 209
Query: 161 QKTYYKTAS-LISNSCKAIALLAGQTAEVAILAFDYGKNLGLAYQLIDDVLDFTGTSASL 219
+KTA+ I+ A +AG + ++ YG ++G+A+QL DD+L G A
Sbjct: 210 SVNRFKTAAYTIARPLHLGASIAGGSPQLIDALLHYGHDIGIAFQLRDDLLGVFGDPAIT 269
Query: 220 GKGSLSDIR 228
GK + DIR
Sbjct: 270 GKPAGDDIR 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 = 136 bits (344), Expect = 1e-38
Identities = 47/220 (21%), Positives = 79/220 (35%), Gaps = 26/220 (11%)
Query: 23 GKRFRPTVLLLMATALNVRVPEPLHDGVEDALATELRTRQQCIAEITEMIHVASLLHDDV 82
GK R ++ L+ + + + ALA + E+ ASL+ DD+
Sbjct: 70 GKCNRGLTVVAAYRELSGP-GQKDAESLRCALA---------VGWCIELFQAASLVADDI 119
Query: 83 LDDADTRRGIGSLNFVMGNKLAVLAGDFLLSRACVALASL------KNTEVVTLLATVVE 136
+D + TRRG G L + FLL + + ++ L
Sbjct: 120 MDQSLTRRGQLCWYKKEGVGLDAINDSFLLESSVYRVLKKYCRQRPYYVHLLELFLQTAY 179
Query: 137 HLVTGETMQMTTSSDQRC-----SMDYYMQKTYYKTASL--ISNSCKAIALLAGQTAEVA 189
G+ + + T+ + S + Y YKTA A+ ++ + E
Sbjct: 180 QTELGQMLDLITAPVSKVDLSHFSEERYKAIVKYKTAFYSFYLPVAAAMYMVGIDSKEEH 239
Query: 190 ILAFDYGKNLGLAYQLIDDVLDFTGTSASLGK-GSLSDIR 228
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 = 129 bits (326), Expect = 7e-36
Identities = 38/240 (15%), Positives = 75/240 (31%), Gaps = 34/240 (14%)
Query: 5 EVPKLASAAEYFFKM----GVEGKRFRPTVLLLMATALNVRVPEPLHDGVEDALATELRT 60
EY+ +GK R +L+L+++ + + +
Sbjct: 49 NDEIRKPVIEYYLNCIDYNVKKGKHIRGKILVLISSLSS----AYSNIKRDSIYL----- 99
Query: 61 RQQCIAEITEMIHVASLLHDDVLDDADTRRGIGSLNFVMGNKLAVLAGDFLLSRACVALA 120
+ + E I L+ DD++D RRG V G A+ FL + +
Sbjct: 100 ----LGWVVEAIQALILIADDIMDSGKFRRGAPCWYIVHGQSNAINDIFFLKMLSLSLIF 155
Query: 121 SLKN-------TEVVTLLATVVEHLVTGETMQMTTSSDQRC--SMDYYMQKTYYKTASLI 171
L + ++ + + V G+ + ++ + + Y KT+
Sbjct: 156 ELSSVFGNDIVMKIQKIYNESIFFTVLGQHLDLSYFDLSKADKISERYFSMVEMKTSRYT 215
Query: 172 SNSCKAIALLAGQ---TAEVAILAFDYGKNLGLAYQLIDDVLDFTGTSASLGKGSLSDIR 228
L + ++ L LG YQ+ +DV D+ + DI
Sbjct: 216 FYMPVFFGLTLSEIQVSSAQLNLIEAILYKLGEFYQVHNDVSDYLF-----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 = 122 bits (308), Expect = 3e-33
Identities = 40/231 (17%), Positives = 82/231 (35%), Gaps = 26/231 (11%)
Query: 23 GKRFRPTVLLLMATALNVRVPEPLHDGVEDALATELRTRQQCIAEITEMIHVASLLHDDV 82
GK R ++ +A +L P + + A + + E + L+ DD+
Sbjct: 69 GKYNRGLTVIDVAESLLSLSPNNNGEEDDGARRKRVLHDACVCGWMIEFLQAHYLVEDDI 128
Query: 83 LDDADTRRGIGSLNFVMGNKLAVLAGDFLLSRACVALASLKN-------TEVVTLLATVV 135
+D++ TRRG + D LL ++ + ++ +++ V
Sbjct: 129 MDNSVTRRGKPCWYRHPDVTVQCAINDGLLLKSWTHMMAMHFFADRPFLQDLLCRFNRVD 188
Query: 136 EHLVTGETMQMTTSSDQRC----------------SMDYYMQKTYYKTASLISNSCKAI- 178
G+ +T+ D ++ Y + YKTA +
Sbjct: 189 YTTAVGQLYDVTSMFDSNKLDPDVSQPTTTDFAEFTLSNYKRIVKYKTAYYTYLLPLVMG 248
Query: 179 ALLAGQTAEVAI-LAFDYGKNLGLAYQLIDDVLDFTGTSASLGKGSLSDIR 228
+++ V + + + +G +Q+ DDV+D LGK +DI+
Sbjct: 249 LIVSEALPTVDMGVTEELAMLMGEYFQVQDDVMDCFTPPERLGK-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 = 121 bits (306), Expect = 8e-33
Identities = 50/259 (19%), Positives = 82/259 (31%), Gaps = 50/259 (19%)
Query: 5 EVPKLASAAEYFFKMGVEGKRFRPTVLLLMATALNVRVPEPLHDGVEDALATELRTRQQC 64
+ K + +G GK R +++L+ + R + E A C
Sbjct: 63 HISKYYKLLFDYNCLG--GKNNRGILVILIYEYVKNR--DINSSEWEKAA---------C 109
Query: 65 IAEITEMIHVASLLHDDVLDDADTRRGIGSLNFVMGNKLAVLAGDFLLSRACVALASLK- 123
+A E++ A L+ DD++D + RR + + D LL +
Sbjct: 110 LAWCIEILQAAFLVADDIMDKGEMRRNKYCWYLLKDVETKNAVNDVLLLYNSIYKLIEIY 169
Query: 124 ------NTEVVTLLATVVEHLVTGETMQMTTSSDQRC----------------------- 154
+V+ + G+ + SD+
Sbjct: 170 LRNESCYVDVIATFRDATLKTIIGQHLDTNIFSDKYSDAHREIDVNNINVPEQPVIDINM 229
Query: 155 -SMDYYMQKTYYKTASLISNSCKAI-ALLAGQTAEVAIL--AFDYGKNLGLAYQLIDDVL 210
+ Y +KTA LLAG + I D +G +Q+ DD L
Sbjct: 230 INFGVYKNIVIHKTAYYSFFLPIVCGMLLAGIAVDNLIYKKIEDISMLMGEYFQIHDDYL 289
Query: 211 DFTGTSASLGK-GSLSDIR 228
D G S GK G SDI+
Sbjct: 290 DIFGDSTKTGKVG--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 = 120 bits (303), Expect = 2e-32
Identities = 48/220 (21%), Positives = 79/220 (35%), Gaps = 26/220 (11%)
Query: 23 GKRFRPTVLLLMATALNVRVPEPLHDGVEDALATELRTRQQCIAEITEMIHVASLLHDDV 82
GK R +++ L V + D ++ A + E++ L+ DD+
Sbjct: 77 GKYNRGLTVVVAFREL-VEPRKQDADSLQRAWT---------VGWCVELLQAFFLVADDI 126
Query: 83 LDDADTRRGIGSLNFVMGNKL-AVLAGDFLLSRACVALAS-----LKNTEVVTLLATVVE 136
+D + TRRG G L A+ + L + L ++ L
Sbjct: 127 MDSSLTRRGQICWYQKPGVGLDAINDANLLEACIYRLLKLYCREQPYYLNLIELFLQSSY 186
Query: 137 HLVTGETMQMTTSSD-----QRCSMDYYMQKTYYKTASLISNSCKAIA-LLAGQTAEVAI 190
G+T+ + T+ R + Y YK+A A A +AG E
Sbjct: 187 QTEIGQTLDLLTAPQGNVDLVRFTEKRYKSIVKYKSAFYSFYLPIAAAMYMAGIDGEKEH 246
Query: 191 -LAFDYGKNLGLAYQLIDDVLDFTGTSASLGK-GSLSDIR 228
A +G +Q+ DD LD G + GK G +DI+
Sbjct: 247 ANAKKILLEMGEFFQIQDDYLDLFGDPSVTGKIG--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 = 119 bits (300), Expect = 3e-32
Identities = 40/252 (15%), Positives = 75/252 (29%), Gaps = 34/252 (13%)
Query: 2 VVAEVPKLASAAEYFFKMGVEGKRFRPTVLLLMATALNVRVPEPLHDGVEDALATELRTR 61
+ + +G GK FR + ++ A + ++ + +
Sbjct: 28 IDPNRARYLRIMMDTTCLG--GKYFRG--MTVVNVAEGFLAVTQHDEATKERILHDACVG 83
Query: 62 QQCIAEITEMIHVASLLHDDVLDDADTRRGIGSLNFVMGNKLAVLAGDFLLSRACVALAS 121
I E + L+ DD++D + RRG G D ++ ++ + +
Sbjct: 84 GWMI----EFLQAHYLVEDDIMDGSVMRRGKPCWYRFPGVTTQCAINDGIILKSWTQIMA 139
Query: 122 LKNTEVVTLLATVVE--HLVTGETM---------------------QMTTSSDQRCSMDY 158
L ++ V T Q T+ +
Sbjct: 140 WHYFADRPFLKDLLCLFQKVDYATAVGQMYDVTSMCDSNKLDPEVAQPMTTDFAEFTPAI 199
Query: 159 YMQKTYYKTASLI-SNSCKAIALLAGQTAEVAI-LAFDYGKNLGLAYQLIDDVLDFTGTS 216
Y + YKT ++ A V + L +G +Q+ DDV+D
Sbjct: 200 YKRIVKYKTTFYTYLLPLVMGLFVSEAAASVEMNLVERVAHLIGEYFQVQDDVMDCFTPP 259
Query: 217 ASLGKGSLSDIR 228
LGK +DI
Sbjct: 260 EQLGK-VGTDIE 270
>3llw_A Geranyltranstransferase (ISPA); structural genomics, PSI, protein
structure initiative, nysgrc; 2.30A {Helicobacter
pylori} PDB: 3q1o_A*
Length = 311
Score = 116 bits (292), Expect = 3e-31
Identities = 59/242 (24%), Positives = 107/242 (44%), Gaps = 28/242 (11%)
Query: 7 PKLASAAEYFFKMGVEGKRFRPTVLLLMATALNVRVPEPLHDGVEDALATELRTRQQCIA 66
P L A G GKRFRP L +A + + + + IA
Sbjct: 34 PYLEKAFFEMVLNG--GKRFRP--KLFLAVLCALVGQKDYSNQQTEYFK---------IA 80
Query: 67 EITEMIHVASLLHDDV--LDDADTRRGIGSLNFVMGNKLAVLAGDFLLSRA--CVALASL 122
E +H SL+HDD+ +D+A RR +L+ AVL GD L + + ++ A L
Sbjct: 81 LSIECLHTYSLIHDDLPCMDNAALRRNHPTLHAKYDETTAVLIGDALNTYSFELLSNALL 140
Query: 123 KNTEVVTLLATV-----VEHLVTGETMQMTTSSDQRCSMDY--YMQKTYYKTASLISNSC 175
++ +V L+ + ++ ++ G+ + + +++ ++ + +KTA LIS S
Sbjct: 141 ESHIIVELIKILSANGGIKGMILGQALDCY-FENTPLNLEQLTFLHE--HKTAKLISASL 197
Query: 176 KAIALLAGQTAEVAILAFD-YGKNLGLAYQLIDDVLDFTGTSASLGKGSLSDIRHVIYLS 234
+ +G E +G +GL +Q++DD++D T GK + D +++
Sbjct: 198 IMGLVASGIKDEELFKWLQAFGLKMGLCFQVLDDIIDVTQDEEESGKTTHLDSAKNSFVN 257
Query: 235 LL 236
LL
Sbjct: 258 LL 259
>3npk_A Geranyltranstransferase; isoprene biosynthesis, SGX, structural
genomics protein structure initiative; 1.50A
{Campylobacter jejuni}
Length = 291
Score = 111 bits (279), Expect = 1e-29
Identities = 67/241 (27%), Positives = 112/241 (46%), Gaps = 32/241 (13%)
Query: 7 PKLASAAEYFFKMGVEGKRFRPTVLLLMATALNVRVPEPLHDGVEDALATELRTRQQCIA 66
P A K G GK FR LL++ + + + + AL A
Sbjct: 25 PFFNEALALMLKAG--GKHFRA--QLLLSVVQSNKP-----ELLNQALDV---------A 66
Query: 67 EITEMIHVASLLHDDV--LDDADTRRGIGSLNFVMGNKLAVLAGDFLLSRA--CVALASL 122
E IH SL+HDD+ +D+AD RRGI +L+ A+L GD L + A ++ A L
Sbjct: 67 LALEFIHTYSLIHDDLPAMDNADFRRGIPTLHKSYDETTAILVGDALNTEAFLVLSHAHL 126
Query: 123 KNTEVVTLLATV-----VEHLVTGETMQMTTSSDQRCSMD--YYMQKTYYKTASLISNSC 175
K+ + L+ T+ + +V G+ + D+R S++ ++ +KTA LI+ +
Sbjct: 127 KDEIKIKLIKTLAFNAGLNGMVIGQAIDCF-FEDKRLSLNELEFLHT--HKTARLIAAAL 183
Query: 176 KAIALLAGQTAEVAILAFDYGKNLGLAYQLIDDVLDFTGTSASLGKGSLSDIRHVIYLSL 235
K + E + + G LGL +Q+ DD++D T + GK + +DI +++L
Sbjct: 184 KMGCEICELNNEESNQIYKLGLKLGLIFQINDDIIDVTTSQEQSGKPTNNDIHKNSFVNL 243
Query: 236 L 236
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 = 108 bits (272), Expect = 3e-28
Identities = 64/245 (26%), Positives = 106/245 (43%), Gaps = 37/245 (15%)
Query: 7 PKLASAAEYFFKMGVEGKRFRPTVLLLMATALNVRVPEPLHDGVEDALATELRTRQQCIA 66
L A + G GKR RP L++ + + E L +
Sbjct: 71 QNLLEAMRHGVLNG--GKRLRP--FLVIESVALLGGDA------EAGLH---------VG 111
Query: 67 EITEMIHVASLLHDDV--LDDADTRRGIGSLNFVMGNKLAVLAGDFLLSRACVALASLKN 124
E +H SL+HDD+ +DD D RRG +++ A+LAGD LL+ A +AS N
Sbjct: 112 AALECLHCYSLVHDDLPAMDDDDLRRGQPTVHRKFDEATAILAGDSLLTLAFDIIASDDN 171
Query: 125 T-------EVVTLLATVV--EHLVTGETMQMTTSSDQRCSMDY--YMQKTYYKTASLISN 173
+V LA + G+ + + + + D +Q KT +L+
Sbjct: 172 PLAAERKAALVISLARAAGIGGMAGGQALDLA-AEKKAPDEDGIITLQA--MKTGALLRF 228
Query: 174 SCKAIALLAGQTAEVAILAFDYGKNLGLAYQLIDDVLDFTGTSASLGKGSLSDIRH--VI 231
+C+A A++AG +G+ +GL++QL DD+LD T +A++GK + D
Sbjct: 229 ACEAGAIIAGSNQAERQRLRLFGEKIGLSFQLADDLLDLTADAATMGKATGKDAARGKGT 288
Query: 232 YLSLL 236
++L
Sbjct: 289 LVALR 293
>3uca_A Geranyltranstransferase; isoprenoid synthesis, isoprenoid
diphosphate synthase; 2.00A {Clostridium perfringens}
Length = 324
Score = 108 bits (271), Expect = 4e-28
Identities = 66/244 (27%), Positives = 103/244 (42%), Gaps = 35/244 (14%)
Query: 7 PKLASAAEYFFKMGVEGKRFRPTVLLLMATALNVRVPEPLHDGVEDALATELRTRQQCIA 66
L + Y +G GKR RP +L++ + + L A
Sbjct: 60 KVLYDSMAYSINVG--GKRIRP--ILMLLSY------YIYKSDYKKILTP---------A 100
Query: 67 EITEMIHVASLLHDDV--LDDADTRRGIGSLNFVMGNKLAVLAGDFLLSRACVALASLKN 124
EMIH SL+HDD+ +D+ D RRG + + V G +AVLAGD LL+ A L
Sbjct: 101 MAIEMIHTYSLIHDDLPCMDNDDLRRGKPTNHKVFGEAIAVLAGDALLNEAMKILVDYSL 160
Query: 125 T------EVVTLLATV--VEHLVTGETMQMTTSSDQRCSMDY--YMQKTYYKTASLISNS 174
+ ++A + ++ G+ + + + S+ YM KT LI S
Sbjct: 161 EEGKSALKATKIIADAAGSDGMIGGQIVDIINEDKEEISLKELDYMHL--KKTGELIKAS 218
Query: 175 CKAIALLAGQTAEVAILAFDYGKNLGLAYQLIDDVLDFTGTSASLGKGSLSDIRH--VIY 232
+ A+LA + +G LGLA+Q+ DD+LD G + LGK D Y
Sbjct: 219 IMSGAVLAEASEGDIKKLEGFGYKLGLAFQIKDDILDVVGNAKDLGKNVHKDQESNKNNY 278
Query: 233 LSLL 236
+++
Sbjct: 279 ITIF 282
>4f62_A Geranyltranstransferase; enzyme function initiative, structural
genomics; 2.10A {Marinomonas SP}
Length = 317
Score = 107 bits (270), Expect = 5e-28
Identities = 68/245 (27%), Positives = 108/245 (44%), Gaps = 37/245 (15%)
Query: 7 PKLASAAEYFFKMGVEGKRFRPTVLLLMATALNVRVPEPLHDGVEDALATELRTRQQCIA 66
+L +A Y G GKR RP +L A+A V A+ A
Sbjct: 31 NQLHNAMRYSLFNG--GKRIRP--MLTYASAQLVGDIS------SLTDAS---------A 71
Query: 67 EITEMIHVASLLHDDV--LDDADTRRGIGSLNFVMGNKLAVLAGDFLLSRACVALASLKN 124
E IH SL+HDD+ +D+ + RRG + + A+LAGD L + A L++ +
Sbjct: 72 AALESIHAYSLIHDDLPAMDNDELRRGKPTCHIQFDEATAILAGDALQTFAFELLSNPTS 131
Query: 125 T------EVVTLLATV--VEHLVTGETMQMTTSSDQRCSMDY--YMQKTYYKTASLISNS 174
+++ L ++TG+ + ++ S ++ S+ M +KT +LI S
Sbjct: 132 AQPELAIKLIQELVVASGRNGMITGQMIDLS-SENKNISLAELEQMHV--HKTGALIKAS 188
Query: 175 CKAIALLAGQTAEVAILAFD-YGKNLGLAYQLIDDVLDFTGTSASLGKGSLSDIRH--VI 231
+ AL GQ + D Y +GLA+Q+ DD++D T + +LGK SD
Sbjct: 189 VRMGALSTGQVKPEQLAKLDAYAHAIGLAFQVQDDIIDLTSDTETLGKTQFSDAEANKAT 248
Query: 232 YLSLL 236
Y LL
Sbjct: 249 YPKLL 253
>1rtr_A Geranyltranstransferase; 2.50A {Staphylococcus aureus} SCOP:
a.128.1.1
Length = 301
Score = 106 bits (268), Expect = 8e-28
Identities = 71/244 (29%), Positives = 111/244 (45%), Gaps = 36/244 (14%)
Query: 7 PKLASAAEYFFKMGVEGKRFRPTVLLLMATALNVRVPEPLHDGVEDALATELRTRQQCIA 66
+L + Y G GKR RP +LL+ T ++ L AL
Sbjct: 28 TQLEESMLYSLNAG--GKRIRP--VLLLLTLDSLNTEYELGMKSAIAL------------ 71
Query: 67 EITEMIHVASLLHDDV--LDDADTRRGIGSLNFVMGNKLAVLAGDFLLSRACVALASLKN 124
EMIH SL+HDD+ +D+ D RRG + + V G A+LAGD LL++A ++S
Sbjct: 72 ---EMIHTYSLIHDDLPAMDNDDYRRGKLTNHKVYGEWTAILAGDALLTKAFELISSDDR 128
Query: 125 T------EVVTLLATV--VEHLVTGETMQMTTSSDQRCSMD--YYMQKTYYKTASLISNS 174
+V+ L+ +V G+ + M S Q ++ + K KT +L++ +
Sbjct: 129 LTDEVKIKVLQRLSIASGHVGMVGGQMLDMQ-SEGQPIDLETLEMIHK--TKTGALLTFA 185
Query: 175 CKAIALLAGQTAEVAILAFDYGKNLGLAYQLIDDVLDFTGTSASLGKGSLSDIRH--VIY 232
+ A +A Y +LG+ +Q+ DD+LD G A LGK SD+ + Y
Sbjct: 186 VMSAADIANVDDTTKEHLESYSYHLGMMFQIKDDLLDCYGDEAKLGKKVGSDLENNKSTY 245
Query: 233 LSLL 236
+SLL
Sbjct: 246 VSLL 249
>3lom_A Geranyltranstransferase; geranyltransferase, structural genomics,
PSI, protein structure initiative, nysgrc; 2.30A
{Legionella pneumophila subsp}
Length = 313
Score = 106 bits (266), Expect = 1e-27
Identities = 59/247 (23%), Positives = 101/247 (40%), Gaps = 38/247 (15%)
Query: 7 PKLASAAEYFFKMGVEGKRFRPTVLLLMATALNVRVPEPLHDGVEDALATELRTRQQCIA 66
P++ SA Y G GKR RP +L+ + V + IA
Sbjct: 36 PQIRSALHYALFSG--GKRIRP--ILVYLAGDLIDVDQ------GVLDI---------IA 76
Query: 67 EITEMIHVASLLHDDV--LDDADTRRGIGSLNFVMGNKLAVLAGDFLLSRACVALASLKN 124
E+ H SL+HDD+ +D+ D RRG S + A+L GD + + A L +
Sbjct: 77 AALELTHCYSLIHDDLPAMDNDDLRRGKPSCHKAFDEATAILVGDGMQALAIEVLLMRLS 136
Query: 125 T--------EVVTLLATV--VEHLVTGETMQMTTSSDQRCSMD--YYMQKTYYKTASLIS 172
+ +L + +V+G+++ ++ + + + + KT LI
Sbjct: 137 PLLPAAQVVAITQVLVNASGISGMVSGQSLDLSELAKSSVTEEQLREIHL--LKTGKLIL 194
Query: 173 NSCKAIALLAGQTAEVAILAFD-YGKNLGLAYQLIDDVLDFTGTSASLGKGSLSDIRH-- 229
+ + + +E A YGK++GL +Q+ DD LD + LGKG SD +
Sbjct: 195 ACFEMVLAAQHEVSEQIKSALRTYGKHIGLVFQMQDDYLDLYAPTQILGKGRSSDQANQK 254
Query: 230 VIYLSLL 236
+ +L
Sbjct: 255 TTFATLF 261
>3ts7_A Geranyltranstransferase; isoprenoid synthesis, farnesyl diphosphate
synthase; 1.94A {Methylococcus capsulatus}
Length = 324
Score = 106 bits (266), Expect = 2e-27
Identities = 70/247 (28%), Positives = 99/247 (40%), Gaps = 39/247 (15%)
Query: 7 PKLASAAEYFFKMGVEGKRFRPTVLLLMATALNVRVPEPLHDGVEDALATELRTRQQCIA 66
+L A Y G GKR RP LL AT + V + A
Sbjct: 36 ERLHQAMRYSVLGG--GKRMRP--LLTYATGQTIGVAA------DLLDGP---------A 76
Query: 67 EITEMIHVASLLHDDV--LDDADTRRGIGSLNFVMGNKLAVLAGDFLLSRACVALASLKN 124
E IHV SL+HDD+ +DD D RRG + + A+LAGD L + A LA +
Sbjct: 77 CAVEFIHVYSLIHDDLPAMDDDDLRRGKPTCHKAYDEATAILAGDGLQALAFHVLAQDPS 136
Query: 125 T--------EVVTLLATVV--EHLVTGETMQMTTSSDQRCSMDY--YMQKTYYKTASLIS 172
++ LA +V G+ + + S ++ + M KT +LI
Sbjct: 137 IAVPAENRIAMIETLAKASGPAGMVGGQAIDLA-SVGKKLDLPGLENMHI--RKTGALIR 193
Query: 173 NSCKAIALLAGQTAEVAILAFD-YGKNLGLAYQLIDDVLDFTGTSASLGKGSLSDIRH-- 229
S + L D Y K +GLA+Q+ DD+LD + +LGK D H
Sbjct: 194 ASVRLACLARPGLPAEQFDRLDHYAKCIGLAFQIQDDILDEESDTQTLGKTRGKDRDHNK 253
Query: 230 VIYLSLL 236
Y +LL
Sbjct: 254 PNYPALL 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 = 105 bits (264), Expect = 3e-27
Identities = 72/238 (30%), Positives = 103/238 (43%), Gaps = 37/238 (15%)
Query: 7 PKLASAAEYFFKMGVEGKRFRPTVLLLMATALNVRVPEPLHDGVEDALATELRTRQQCIA 66
+L A Y G GKR RP LL A + E A A
Sbjct: 30 ARLYEAMRYSVMNG--GKRVRP--LLAYAACEALGGKP------EQANGA---------A 70
Query: 67 EITEMIHVASLLHDDV--LDDADTRRGIGSLNFVMGNKLAVLAGDFLLSRACVALASLKN 124
E+IH SL+HDD+ +DD D RRG + + A+LAGD L S A AL
Sbjct: 71 CAVELIHAYSLVHDDLPAMDDDDLRRGQPTTHKAFDEACAILAGDGLQSLAFSALLDPAL 130
Query: 125 TEV--------VTLLATVV--EHLVTGETMQMTTSSDQRCSMD--YYMQKTYYKTASLIS 172
++ VT LA +V G+ + + S + YM + +KT +LI
Sbjct: 131 SDASAEIRLRMVTTLAQAAGPAGMVGGQAIDLG-SVGLKLDQQALEYMHR--HKTGALIE 187
Query: 173 NSCKAIALLAGQTAEVAILAFD-YGKNLGLAYQLIDDVLDFTGTSASLGKGSLSDIRH 229
S AL +G+ + + A Y + +GLA+Q+ DD+LD +A+LGK +DI
Sbjct: 188 ASVILGALASGRAEKGELKALQTYAQAIGLAFQVQDDILDVESDTATLGKRQGADIAR 245
>3p8r_A Geranyltranstransferase; isoprenyl synthase, structural genomics,
PSI, protein struct initiative, nysgrc; 2.50A {Vibrio
cholerae}
Length = 302
Score = 104 bits (263), Expect = 4e-27
Identities = 63/247 (25%), Positives = 103/247 (41%), Gaps = 39/247 (15%)
Query: 7 PKLASAAEYFFKMGVEGKRFRPTVLLLMATALNVRVPEPLHDGVEDALATELRTRQQCIA 66
L A Y +G GKR RP L+ T + D A
Sbjct: 36 LPLIEAMRYGLLLG--GKRARP--YLVYITGQMLGCEL------SDLDTP---------A 76
Query: 67 EITEMIHVASLLHDDV--LDDADTRRGIGSLNFVMGNKLAVLAGDFLLSRACVALASLKN 124
E IH SL+HDD+ +DD + RRG + + A+L GD L + A LA
Sbjct: 77 SAVECIHAYSLIHDDLPAMDDDELRRGKPTCHIQFDEATAILTGDALQTLAFTILAEGDL 136
Query: 125 T--------EVVTLLATV--VEHLVTGETMQMTTSSDQRCSMDY--YMQKTYYKTASLIS 172
+ ++ LA + + G+ + + + ++ S++ + + KT +L+
Sbjct: 137 SAAGETQRVAMLQALAEASGAQGMCLGQALDLA-AENRLISLEELETIHR--NKTGALMR 193
Query: 173 NSCKAIALLAGQTAEVAILAFD-YGKNLGLAYQLIDDVLDFTGTSASLGKGSLSDIRH-- 229
+ + AL AG+ + D Y + +GLA+Q+ DD+LD + +LGK SD
Sbjct: 194 CAIRLGALAAGEKGRAMLPHLDRYAEAVGLAFQVQDDILDIISDTETLGKPQGSDQELNK 253
Query: 230 VIYLSLL 236
Y +LL
Sbjct: 254 STYPALL 260
>3p8l_A Geranyltranstransferase; isoprenyl synthase, structural genomics,
PSI, protein struct initiative, nysgrc; 2.00A
{Enterococcus faecalis}
Length = 302
Score = 104 bits (262), Expect = 5e-27
Identities = 75/234 (32%), Positives = 112/234 (47%), Gaps = 32/234 (13%)
Query: 7 PKLASAAEYFFKMGVEGKRFRPTVLLLMATALNVRVPEPLHDGVEDALATELRTRQQCIA 66
+L A Y G GKR RP LL++ T A E+ T+ +A
Sbjct: 36 ERLKEAMLYSIHAG--GKRLRP--LLVLTTV--------------AAFQKEMETQDYQVA 77
Query: 67 EITEMIHVASLLHDDV--LDDADTRRGIGSLNFVMGNKLAVLAGDFLLSRA--CVALASL 122
EMIH SL+HDD+ +DD D RRG + + V G A+LAGD LL+ A ++L+ L
Sbjct: 78 ASLEMIHTYSLIHDDLPAMDDDDLRRGKPTNHKVFGEATAILAGDGLLTGAFQLLSLSQL 137
Query: 123 KNTEVVTLLATV-----VEHLVTGETMQMTTSSDQRCSMD--YYMQKTYYKTASLISNSC 175
+E V L+ + + +V+G+ + +++ + + KT +LI +
Sbjct: 138 GLSEKVLLMQQLAKAAGNQGMVSGQMGDIE-GEKVSLTLEELAAVHE--KKTGALIEFAL 194
Query: 176 KAIALLAGQTAEVAILAFDYGKNLGLAYQLIDDVLDFTGTSASLGKGSLSDIRH 229
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 = 104 bits (261), Expect = 6e-27
Identities = 70/247 (28%), Positives = 112/247 (45%), Gaps = 39/247 (15%)
Query: 7 PKLASAAEYFFKMGVEGKRFRPTVLLLMATALNVRVPEPLHDGVEDALATELRTRQQCIA 66
+ +Y +G GKR RP L+ AT V A A
Sbjct: 30 TPVVETMQYGALLG--GKRLRP--FLVYATGHMFGVST------NTLDAP---------A 70
Query: 67 EITEMIHVASLLHDDV--LDDADTRRGIGSLNFVMGNKLAVLAGDFLLSRACVALASLKN 124
E IH SL+HDD+ +DD D RRG+ + + G A+LAGD L + A L+
Sbjct: 71 AAVECIHAYSLIHDDLPAMDDDDLRRGLPTCHVKFGEANAILAGDALQTLAFSILSDADM 130
Query: 125 TEV--------VTLLATV--VEHLVTGETMQMTTSSDQRCSMDY--YMQKTYYKTASLIS 172
EV ++ LA+ + + G+ + + + + +D + + +KT +LI
Sbjct: 131 PEVSDRDRISMISELASASGIAGMCGGQALDLD-AEGKHVPLDALERIHR--HKTGALIR 187
Query: 173 NSCKAIALLAGQTAEVAILAFD-YGKNLGLAYQLIDDVLDFTGTSASLGKGSLSDIRH-- 229
+ + AL AG A+ D Y +++GLA+Q+ DD+LD G +A+LGK +D +
Sbjct: 188 AAVRLGALSAGDKGRRALPVLDKYAESIGLAFQVQDDILDVVGDTATLGKRQGADQQLGK 247
Query: 230 VIYLSLL 236
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 = 104 bits (261), Expect = 7e-27
Identities = 62/243 (25%), Positives = 98/243 (40%), Gaps = 33/243 (13%)
Query: 7 PKLASAAEYFFKMGVEGKRFRPTVLLLMATALNVRVPEPLHDGVEDALATELRTRQQCIA 66
+LA+A Y G GKR RP LL +AT ++ V +A E
Sbjct: 34 AQLAAAMTYSVLAG--GKRLRP--LLTVATMQSLGVTFVPERHWRPVMALE--------- 80
Query: 67 EITEMIHVASLLHDDV--LDDADTRRGIGSLNFVMGNKLAVLAGDFLLSRA--CVALASL 122
++H SL+HDD+ +D+ RRG + + G +A LAGD LL+ A + L
Sbjct: 81 ----LLHTYSLIHDDLPAMDNDALRRGEPTNHVKFGAGMATLAGDGLLTLAFQWLTATDL 136
Query: 123 KNTEVVTLLATV-----VEHLVTGETMQMTTSSDQRCSMDY--YMQKTYYKTASLISNSC 175
T L+ + +V G+ + S + + K KT +L+ +
Sbjct: 137 PATMQAALVQALATAAGPSGMVAGQAKDIQ-SEHVNLPLSQLRVLHK--EKTGALLHYAV 193
Query: 176 KAIALLAGQTAEVAILAFDYGKNLGLAYQLIDDVLDFTGTSASLGKGSLSDIRH--VIYL 233
+A +L + GLA+Q+ DD+LD + A +GK + D Y
Sbjct: 194 QAGLILGQAPEAQWPAYLQFADAFGLAFQIYDDILDVVSSPAEMGKATQKDADEAKNTYP 253
Query: 234 SLL 236
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 = 102 bits (256), Expect = 4e-26
Identities = 64/229 (27%), Positives = 100/229 (43%), Gaps = 37/229 (16%)
Query: 23 GKRFRPTVLLLMATALNVRVPEPLHDGVEDALATELRTRQQCIAEITEMIHVASLLHDDV 82
GKR R L + +A + A+ E +H SL+HDD+
Sbjct: 41 GKRLRA--FLAIESAAIHGISMAQAMPAALAV---------------EALHAYSLVHDDM 83
Query: 83 --LDDADTRRGIGSLNFVMGNKLAVLAGDFLLSRACVALASLKNT------EVVTLLATV 134
+D+ D RRG+ +++ + AVLAGD L + A +V LA
Sbjct: 84 PCMDNDDLRRGLPTVHKKWDDATAVLAGDALQTLAFELCTDPVLGSAENRVALVAALAQA 143
Query: 135 --VEHLVTGETMQMT-TSSDQRCSMDY--YMQKTYYKTASLISNSCKAIALLAGQTAEVA 189
E +V G+ + + ++ ++D +Q KT +LIS + +A A+LAG A+
Sbjct: 144 SGAEGMVYGQALDIAAETAAVPLTLDEIIRLQA--GKTGALISFAAQAGAILAG--ADRG 199
Query: 190 ILAFDYGKNLGLAYQLIDDVLDFTGTSASLGKGSLSDIRH--VIYLSLL 236
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 = 99.3 bits (248), Expect = 3e-25
Identities = 36/237 (15%), Positives = 76/237 (32%), Gaps = 38/237 (16%)
Query: 7 PKLASAAEYFFKMGVEGKRFRPTVLLLMATALNVRVPEPLHDGVEDALATELRTRQQCIA 66
+ + + L +A E + DA+A A
Sbjct: 31 ESVFEPMHHLTFAA--PRTSAS--ALCVAAC------ELVGGDRSDAMAA---------A 71
Query: 67 EITEMIHVASLLHDDVLDDADTRRGIGSLNFVMGNKLAVLAGDFLLSRACVALASLKNT- 125
++HVA+ H++ L D + + +L GD ++ +A +
Sbjct: 72 AAVHLMHVAAYTHEN-LPLTDGPMSKSEIQHKFDPNIELLTGDGIIPFGLELMARSMDPT 130
Query: 126 --------EVVTLLATVV--EHLVTGETMQMTTSSDQRCSMDY--YMQKTYYKTASLISN 173
+ L V+ E +V G+ ++ +Q ++ Y+ K K +L +
Sbjct: 131 RNNPDRILRAIIELTRVMGSEGIVEGQYHEL--GLNQLNDLELIEYVCK--KKEGTLHAC 186
Query: 174 SCKAIALLAGQTAEVAILAFDYGKNLGLAYQLIDDVLD-FTGTSASLGKGSLSDIRH 229
A+L G + +G +G L+ F G L + ++ ++
Sbjct: 187 GAACGAILGGCDEDKIEKLRRFGLYVGTVQGLLGKNRSGFEGRIKELKELAVKELES 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 = 96.9 bits (242), Expect = 3e-24
Identities = 69/226 (30%), Positives = 104/226 (46%), Gaps = 37/226 (16%)
Query: 7 PKLASAAEYFFKMGVEGKRFRPTVLLLMATALNVRVPEPLHDGVEDALATELRTRQQCIA 66
K+ A Y G GKR RP +L +A V E A+ A
Sbjct: 38 LKIHEAMRYSLLAG--GKRVRP--VLCIAACELVGGEE------SLAMPA---------A 78
Query: 67 EITEMIHVASLLHDDV--LDDADTRRGIGSLNFVMGNKLAVLAGDFLLSRACVALASLKN 124
EMIH SL+HDD+ +D+ D RRG + + V G +AVLAGD LLS A LAS +
Sbjct: 79 CAVEMIHTMSLIHDDLPCMDNDDLRRGKPTNHKVYGEDVAVLAGDALLSFAFEHLASATS 138
Query: 125 TEV--------VTLLATVV--EHLVTGET--MQMTTSSDQRCSMDY--YMQKTYYKTASL 170
+EV V LA + E LV G+ + +++ ++ +KTA+L
Sbjct: 139 SEVSPARVVRAVGELAKAIGTEGLVAGQVVDISSEGLDLNNVGLEHLKFIHL--HKTAAL 196
Query: 171 ISNSCKAIALLAGQTAEVAILAFDYGKNLGLAYQLIDDVLDFTGTS 216
+ 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 = 88.3 bits (218), Expect = 5e-21
Identities = 58/233 (24%), Positives = 94/233 (40%), Gaps = 25/233 (10%)
Query: 7 PKLASAAEYFFKMGVEGKRFRPTVLLLMATALNVRVPEPLHDGVEDALATELRTRQQCIA 66
A Y +G G R RP ++L + L V L +A
Sbjct: 32 LLTEEAMLYSATVG--GXRIRPLLVLTLGEDLGVEEEXLLD-----------------VA 72
Query: 67 EITEMIHVASLLHDDV--LDDADTRRGIGSLNFVMGNKLAVLAGDFLLSRACVALASLKN 124
E+ H ASL+HDD+ +D+AD RRG S + G +A+LAGD L A ++ + N
Sbjct: 73 VAVELFHTASLIHDDLPPIDNADFRRGXPSCHRTYGEDIALLAGDGLFFLAFSQISXIGN 132
Query: 125 TEVVTLLATVVEHLVTGETMQMTTSSD-QRCSMDYYMQKTYYKTASLISNSCKAIALLAG 183
+ + + L+ GE M + S + + + T +L + A +L G
Sbjct: 133 SXIFEEFSETAYXLLLGEAMDVEFERRXMEVSQEMVERMYAFXTGALFAFCFSAPFILXG 192
Query: 184 QTAEVAILAFDYGKNLGLAYQLIDDVLDFTGTSASLGKGSLSDIRHVIYLSLL 236
G+ G+A+Q+ DD+ D G+ +GK D V + +
Sbjct: 193 XDHTXMX---LLGEXFGVAFQIYDDLXDILGSFEKVGKDLGKDTEXVTLVXXV 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 = 86.9 bits (216), Expect = 1e-20
Identities = 42/245 (17%), Positives = 80/245 (32%), Gaps = 51/245 (20%)
Query: 23 GKRFRPTVLLLMATALNVRVPEPLHDGVEDALATELRTRQQCIAEITEMIHVASLLHDDV 82
L +A E + A+A A ++H A+ +H+ +
Sbjct: 40 PATAAS--TLCLAAC------ELVGGDRSQAMAA---------AAAIHLVHAAAYVHEHL 82
Query: 83 -LDDADTRRGIGSLNFVMGNKLAVLAGDFLLSRACVALASLKNT----------EVVTLL 131
L D ++ G + +L GD ++ LA + V+ +
Sbjct: 83 PLTDGSRPVSKPAIQHKYGPNVELLTGDGIVPFGFELLAGSVDPARTDDPDRILRVIIEI 142
Query: 132 ATVV--EHLVTGETMQMTTSSDQRCSMDY--YMQKTYYKTASLISNSCKAIALLAGQTAE 187
+ E +++G + D S+D+ Y+ K K + + A+L G E
Sbjct: 143 SRAGGPEGMISGLHREEE-IVDGNTSLDFIEYVCK--KKYGEMHACGAACGAILGGAAEE 199
Query: 188 VAILAFDYGKNLGL---------AYQLIDDVLD---FTGTSASLGK--GSLSDIRH--VI 231
++G G ++QLID+ + LG G +++ V
Sbjct: 200 EIQKLRNFGLYQGTLRGMMEMKNSHQLIDENIIGKLKELALEELGGFHGKNAELMSSLVA 259
Query: 232 YLSLL 236
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 = 60.6 bits (146), Expect = 8e-11
Identities = 41/271 (15%), Positives = 84/271 (30%), Gaps = 81/271 (29%)
Query: 23 GKRFRPTVLLLMATALNVRVPEPLHDGVEDALATELRTRQQCIAEITEMI----HVASLL 78
P +L M L ++ + + +LR AE+ ++ + LL
Sbjct: 190 KNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRI-HSIQAELRRLLKSKPYENCLL 248
Query: 79 HDDVLDD-AD---------------TRRGIGSLNFVMGNKLAVLAGDFLLSRACVALASL 122
VL + + T R +F+ ++ D +L
Sbjct: 249 ---VLLNVQNAKAWNAFNLSCKILLTTRFKQVTDFLSAATTTHISLDHHSM-------TL 298
Query: 123 KNTEVVTLLATVVEHLVTGETMQMTTSSDQRCSM------------DYYMQKTYYKTASL 170
EV +LL ++ ++ T++ +R S+ D + K ++
Sbjct: 299 TPDEVKSLLLKYLDCRPQDLPREVLTTNPRRLSIIAESIRDGLATWDNWKHVNCDKLTTI 358
Query: 171 ISNSCKAIALLAGQTAEV-------AILAFDYGKNL----------GLAYQLIDDVLDFT 213
I +S + +L + AE ++ F ++ + + V++
Sbjct: 359 IESS---LNVL--EPAEYRKMFDRLSV--FPPSAHIPTILLSLIWFDVIKSDVMVVVN-- 409
Query: 214 GTSASLGKGSLSDIR--------HVIYLSLL 236
L K SL + + IYL L
Sbjct: 410 ----KLHKYSLVEKQPKESTISIPSIYLELK 436
>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 = 47.4 bits (112), Expect = 2e-06
Identities = 52/298 (17%), Positives = 79/298 (26%), Gaps = 104/298 (34%)
Query: 1 MVVAEVPKLASAAEYF-----------FKMGVEGKRFRPTVLLLMATALNVRVPEPLHDG 49
+V A + E F F +GV P T+L P L D
Sbjct: 277 LVTAVAIAETDSWESFFVSVRKAITVLFFIGVRCYEAYPN------TSLP---PSILEDS 327
Query: 50 VEDALATELRTRQQCIAEITEMIHVASLLHDDVLDDADTRRGIG--------SL-----N 96
+E+ + M+ +++L + V D + SL N
Sbjct: 328 LENNEGVP-----------SPMLSISNLTQEQVQDYVNKTNSHLPAGKQVEISLVNGAKN 376
Query: 97 FVM-GNKLAVLAGDFLLSRACVALASLKNTEV---------------VT------LLATV 134
V+ G + L G L R A + L + + V LL
Sbjct: 377 LVVSGPPQS-LYGLNLTLRKAKAPSGLDQSRIPFSERKLKFSNRFLPVASPFHSHLLVPA 435
Query: 135 VEHLVT----------GETMQMT-----TSSDQRCSMDYYMQKTYYKTASLISNSCKAIA 179
+ + + +Q+ SD R + S+ I
Sbjct: 436 SDLINKDLVKNNVSFNAKDIQIPVYDTFDGSDLRVL-----------SGSISERIVDCII 484
Query: 180 LL------AGQTAEVAILAFDYGKNLGLAYQLIDDVLDFTG----TSASLGKGSLSDI 227
L Q IL F G GL L D TG + +L D
Sbjct: 485 RLPVKWETTTQFKATHILDFGPGGASGLG-VLTHRNKDGTGVRVIVAGTLDINPDDDY 541
Score = 37.7 bits (87), Expect = 0.003
Identities = 47/271 (17%), Positives = 86/271 (31%), Gaps = 78/271 (28%)
Query: 2 VVAEVPKLASAAEYFFKMGVEGKRFRPTVLLLMATALNVRVPEPLHDGVEDALATELRTR 61
+V P + +F G +GKR R ++ E + DG
Sbjct: 1664 IVINNPV--NLTIHF--GGEKGKRIRENYSAMIF--------ETIVDGKLKT-------- 1703
Query: 62 QQCIAEITEMIHVASLLHD-DVLDD-ADTRRGIGSLNFVMGNKLA---VLAGDFLLSRAC 116
++ EI E + + +L T+ + +M A L L+
Sbjct: 1704 EKIFKEINEHSTSYTFRSEKGLLSATQFTQPAL----TLME--KAAFEDLKSKGLIPADA 1757
Query: 117 V----------ALASLKNTEVVTLLATVVEHLVT--GETMQMTTSSDQRCSMDYYM---- 160
ALASL +V+++ + V +V G TMQ+ D+ +Y M
Sbjct: 1758 TFAGHSLGEYAALASL--ADVMSIESLV--EVVFYRGMTMQVAVPRDELGRSNYGMIAIN 1813
Query: 161 --QKTYYKTASLISNSCKAIALLAGQTAEVA---------ILAFDYGKNLGLAYQLIDDV 209
+ + + + + G E+ + A G L + +V
Sbjct: 1814 PGRVAASFSQEALQYVVERVGKRTGWLVEIVNYNVENQQYVAA---GDLRAL--DTVTNV 1868
Query: 210 LDFTGT--------SASLGKGSLSDIRHVIY 232
L+F SL SL ++ ++
Sbjct: 1869 LNFIKLQKIDIIELQKSL---SLEEVEGHLF 1896
>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 = 33.3 bits (76), Expect = 0.077
Identities = 21/101 (20%), Positives = 42/101 (41%), Gaps = 22/101 (21%)
Query: 132 ATVVEHLVT-GETMQMTTSSDQRCSMDYYMQKTYYKTASLISNSCKAIALLAGQTAEVAI 190
A V++ L+ G + +TTS + DYY Q Y K + + + + +
Sbjct: 491 AEVLQGLLQGGAKVVVTTSRFSKQVTDYY-QSIYAKYGA--------------KGSTLIV 535
Query: 191 LAFDYGKNLGLAYQLIDDVLDFTGTSASLGKGSLSDIRHVI 231
+ F N G + Q ++ +++F + G D+ +I
Sbjct: 536 VPF----NQG-SKQDVEALIEFIYDTEKNGGLGW-DLDAII 570
>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 = 28.6 bits (64), Expect = 2.0
Identities = 8/32 (25%), Positives = 12/32 (37%), Gaps = 2/32 (6%)
Query: 48 DGVEDALATELRTRQQCIAEI--TEMIHVASL 77
V L + RQ+ I E+ E + L
Sbjct: 7 GCVNQVLTAKEIKRQEAIFELSQGEEDLIEDL 38
>3d1u_A Putative fructosamine-3-kinase; YP_290396.1, structural genomics,
joint center for structural genomics, JCSG, protein
structure initiative; 1.85A {Thermobifida fusca} PDB:
3f7w_A
Length = 288
Score = 27.7 bits (61), Expect = 3.9
Identities = 10/57 (17%), Positives = 17/57 (29%), Gaps = 8/57 (14%)
Query: 8 KLASAAEYFFKMGVEGKRFRPTV-------LLLMATALNVRVPEPLHDGVEDALATE 57
+LA F K + + L + + VP+ + LA E
Sbjct: 35 ELADGTPLFVKALPDDAPALDGLFRAEALGLDWLGRSFGSPVPQVAGWD-DRTLAME 90
>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 = 27.7 bits (61), Expect = 4.0
Identities = 16/69 (23%), Positives = 27/69 (39%)
Query: 32 LLMATALNVRVPEPLHDGVEDALATELRTRQQCIAEITEMIHVASLLHDDVLDDADTRRG 91
L T ++R D + L +QC +++ V S+ +V D A R
Sbjct: 121 ALRHTIGDIRENREFLQLRGDKYSVFLEAFEQCAENGADLLSVESMGGKEVFDYAVLRND 180
Query: 92 IGSLNFVMG 100
I L + +G
Sbjct: 181 IPGLLYSIG 189
>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 = 5.1
Identities = 10/37 (27%), Positives = 17/37 (45%), Gaps = 2/37 (5%)
Query: 43 PEPLHDGVEDALATELRTRQQCIAEI--TEMIHVASL 77
DG +A +++ + R I EI TE ++ L
Sbjct: 101 NSGAEDGGAEAQSSKDQMRTNVINEILSTERDYIKHL 137
>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 = 26.7 bits (59), Expect = 5.9
Identities = 7/41 (17%), Positives = 15/41 (36%), Gaps = 3/41 (7%)
Query: 175 CKAIALLAGQTAEVAILAFD---YGKNLGLAYQLIDDVLDF 212
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 = 26.4 bits (59), Expect = 9.2
Identities = 16/76 (21%), Positives = 27/76 (35%), Gaps = 2/76 (2%)
Query: 18 KMGVEGKRFRPTVLLLMATALNVRVPEPLHDGVEDALATELRTRQQCIAEITEMIHVASL 77
++GV G VL + R + L E + + + + + A L
Sbjct: 461 RIGVMGGEQAAGVLAQVKREQAERAGQQLGVEEEAKIKAPILEQYE--HQGHPYYSSARL 518
Query: 78 LHDDVLDDADTRRGIG 93
D V+D A TR +
Sbjct: 519 WDDGVIDPAQTREVLA 534
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
0.321 0.134 0.370
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: 3,564,273
Number of extensions: 213298
Number of successful extensions: 535
Number of sequences better than 10.0: 1
Number of HSP's gapped: 404
Number of HSP's successfully gapped: 61
Length of query: 243
Length of database: 6,701,793
Length adjustment: 91
Effective length of query: 152
Effective length of database: 4,160,982
Effective search space: 632469264
Effective search space used: 632469264
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: 56 (25.4 bits)