RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= 020685
(322 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 = 422 bits (1088), Expect = e-149
Identities = 259/322 (80%), Positives = 294/322 (91%), Gaps = 1/322 (0%)
Query: 1 MVVAEVPKLASAAEYFFKMGVEGKRFRPTVLLLMATALNVRVPEPLHDGVEDALATELRT 60
MV+AEVPKLASAAEYFFK GV+GK+FR T+LLLMATAL+VRVPE L D + +ELR
Sbjct: 28 MVLAEVPKLASAAEYFFKRGVQGKQFRSTILLLMATALDVRVPEALIGESTDIVTSELRV 87
Query: 61 RQQCIAEITEMIHVASLLHDDVLDDADTRRGIGSLNFVMGNKVLAVLAGDFLLSRACVAL 120
RQ+ IAEITEMIHVASLLHDDVLDDADTRRG+GSLN VMGNK+ +VLAGDFLLSRAC AL
Sbjct: 88 RQRGIAEITEMIHVASLLHDDVLDDADTRRGVGSLNVVMGNKM-SVLAGDFLLSRACGAL 146
Query: 121 ASLKNTEVVTLLATVVEHLVTGETMQMTTSSDQRCSMDYYMQKTYYKTASLISNSCKAIA 180
A+LKNTEVV LLAT VEHLVTGETM++T+S++QR SMDYYMQKTYYKTASLISNSCKA+A
Sbjct: 147 AALKNTEVVALLATAVEHLVTGETMEITSSTEQRYSMDYYMQKTYYKTASLISNSCKAVA 206
Query: 181 LLAGQTAEVAILAFDYGKNLGLAYQLIDDVLDFTGTSASLGKGSLSDIRHGIITAPILFA 240
+L GQTAEVA+LAF+YG+NLGLA+QLIDD+LDFTGTSASLGKGSLSDIRHG+ITAPILFA
Sbjct: 207 VLTGQTAEVAVLAFEYGRNLGLAFQLIDDILDFTGTSASLGKGSLSDIRHGVITAPILFA 266
Query: 241 MEEFPQLRTVVEQGFEDSSNVDIALEYLGKSRGIQKTRELAVKHANLAAAAIDSLPENND 300
MEEFPQLR VV+Q +D NVDIALEYLGKS+GIQ+ RELA++HANLAAAAI SLPE ++
Sbjct: 267 MEEFPQLREVVDQVEKDPRNVDIALEYLGKSKGIQRARELAMEHANLAAAAIGSLPETDN 326
Query: 301 EDVTKSRRALLDLTHRVITRNK 322
EDV +SRRAL+DLTHRVITRNK
Sbjct: 327 EDVKRSRRALIDLTHRVITRNK 348
>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 = 276 bits (709), Expect = 4e-92
Identities = 82/323 (25%), Positives = 142/323 (43%), Gaps = 28/323 (8%)
Query: 2 VVAEVPKLASAAEYFFKMGVEGKRFRPTVLLLMATALNVRVPEPLHDGVEDALATELRTR 61
V + + K G GK RP L +T N P L
Sbjct: 36 VQLDNQPIHHKILALLKSG--GKLLRPGYFYLFSTFGNAATPAQLQA------------- 80
Query: 62 QQCIAEITEMIHVASLLHDDVLDDADTRRGIGSLNFVMGNKVLAVLAGDFLLSRA-CVAL 120
A E++HV +L+HDDV+DD+ TRRG+ ++ G + A+ AGDF+ + L
Sbjct: 81 ---GAAAIEILHVGTLIHDDVIDDSPTRRGVRTIQMTYGQRN-AIYAGDFMFTVYFDQVL 136
Query: 121 ASLKNTEVVTLLATVVEHLVTGETMQMTTSSDQRCSMDYYMQKTYYKTASLISNSCKAIA 180
S + ++ + ++ GE QM + + ++D Y+ + KTA L + SC A
Sbjct: 137 KSTTDRSLIQNHIDAMHRILQGELHQMDLNYREDITLDAYLNEIAGKTAELFALSCYQGA 196
Query: 181 LLAGQTAEVAILAFDYGKNLGLAYQLIDDVLDFTGTSASLGKGSLSDIRHGIITAPILFA 240
LAG V D G +G AYQ++DD+LD+ G K L D+R G+ + P+L +
Sbjct: 197 QLAGAPQSVIDRTRDIGIAIGCAYQMLDDILDYAGDPKRTQKPVLEDLRSGVYSLPLLLS 256
Query: 241 MEEFP--QLRTVVEQGFEDSSNVDIALEYLGKSRGIQKTRELAVKHANLAAAAIDSLPEN 298
+ P + + ++ ++ + + G+ ++LA + + A I LP
Sbjct: 257 LSHAPRDFHKLLKKKQAMTLEDIKHVQALVAQYDGVGAAKQLAQDYTDRALTLIQQLPVG 316
Query: 299 NDEDVTKSRRALLDLTHRVITRN 321
++++L LT ++ R+
Sbjct: 317 ------SAQQSLEQLTRLLLRRD 333
>3aqb_B Component B of hexaprenyl diphosphate synthase; prenyltransferase,
transferase; 2.40A {Micrococcus luteus} PDB: 3aqc_B*
Length = 325
Score = 268 bits (687), Expect = 5e-89
Identities = 86/326 (26%), Positives = 152/326 (46%), Gaps = 32/326 (9%)
Query: 2 VVAEVPKLASAAEYFFKMGVEGKRFRPTVLLLMATALNVRVPEPLHDGVEDALATELRTR 61
+ ++ + AA + G GKR RP +LL + + + +
Sbjct: 25 IQSDSETINKAAHHILSSG--GKRVRPMFVLLSGFLNDTQKDDLIR-------------- 68
Query: 62 QQCIAEITEMIHVASLLHDDVLDDADTRRGIGSLNFVMGNKVLAVLAGDFLLSRACVALA 121
A E++H+ASL+HDD +D++D RRG S++ A+ G FLL+RA +A
Sbjct: 69 ---TAVSLELVHMASLVHDDYIDNSDMRRGNTSVHIAFDKDT-AIRTGHFLLARALQNIA 124
Query: 122 SLKNTEVVTLLATVVEHLVTGETMQMTTSSDQRCSMDYYMQKTYYKTASLISNSCKAIAL 181
++ N++ + + + + GE QM + S Y+++ KTA LI SC AL
Sbjct: 125 TINNSKFHQIFSKTILEVCFGEFDQMADRFNYPVSFTAYLRRINRKTAILIEASCHLGAL 184
Query: 182 LAGQTAEVAILAFDYGKNLGLAYQLIDDVLDFTGTSASLGKGSLSDIRHGIITAPILFAM 241
+ + +G +G++YQ+IDD+LD+T A+LGK SDIR+G IT P++ A+
Sbjct: 185 SSQLDEQSTYHIKQFGHCIGMSYQIIDDILDYTSDEATLGKPVGSDIRNGHITYPLMAAI 244
Query: 242 -----EEFPQLRTVVEQGFEDSS-NVDIALEYLGKSRGIQKTRELAVKHANLAAAAIDSL 295
++ +L VV+ S V + K GI+ L+ K+ + A + L
Sbjct: 245 ANLKEQDDDKLEAVVKHLTSTSDDEVYQYIVSQVKQYGIEPAELLSRKYGDKAKYHLSQL 304
Query: 296 PENNDEDVTKSRRALLDLTHRVITRN 321
++ + L ++ +++ R
Sbjct: 305 QDS------NIKDYLEEIHEKMLKRV 324
>3rmg_A Octaprenyl-diphosphate synthase; structural genomics, protein
structure initiative, isoprene biosynthesis,
transferase; 2.30A {Bacteroides thetaiotaomicron}
Length = 334
Score = 266 bits (682), Expect = 4e-88
Identities = 88/324 (27%), Positives = 148/324 (45%), Gaps = 32/324 (9%)
Query: 4 AEVPKLASAAEYFFKMGVEGKRFRPTVLLLMATALNVRVPEPLHDGVEDALATELRTRQQ 63
L S + K GK RP ++LL+A P LH
Sbjct: 30 DSNALLDSVITHIRKRN--GKMMRPILVLLVARLYGAVTPATLH---------------- 71
Query: 64 CIAEITEMIHVASLLHDDVLDDADTRRGIGSLNFVMGNKVLAVLAGDFLLSRACVALASL 123
A E++H ASL+HDDV+D++ RRG S+N + NKV +VLAGD+LL+ + V
Sbjct: 72 -AAVSLELLHTASLVHDDVVDESTERRGQLSVNAIFNNKV-SVLAGDYLLATSLVHAEQT 129
Query: 124 KNTEVVTLLATVVEHLVTGETMQMTTSSDQRCSMDYYMQKTYYKTASLISNSCKAIALLA 183
N E++ L++++ + L GE +Q++ S+ S + Y KTA+L + +A AL
Sbjct: 130 NNYEIIRLVSSLGQKLAEGELLQLSNVSNHSFSEEVYFDVIRKKTAALFAACAEAAALSV 189
Query: 184 GQTAEVAILAFDYGKNLGLAYQLIDDVLDFTGTSASLGKGSLSDIRHGIITAPILFAM-- 241
E A G+ +G+ +Q+ DD+ D+ S +GK + +D+ G +T P L+A+
Sbjct: 190 QVGEEEVAFARLLGEYIGICFQIKDDIFDYFD-SKKIGKPTGNDMLEGKLTLPALYALNT 248
Query: 242 ---EEFPQLRTVVEQGFEDSSNVDIALEYLGKSRGIQKTRELAVKHANLAAAAIDSLPEN 298
Q+ V++G + +E+ + GI+ ++ A + +LP++
Sbjct: 249 TKDAWAEQIAFKVKEGTATPDEIVRLIEFTKDNGGIEYACRTIEQYKKKAFDLLAALPDS 308
Query: 299 NDEDVTKSRRALLDLTHRVITRNK 322
AL V+ R K
Sbjct: 309 ------NICLALRTYLDYVVAREK 326
>3oyr_A Trans-isoprenyl diphosphate synthase; isoprenyl synthase, PSI,
protein structure initiative; HET: IPE; 2.00A
{Caulobacter crescentus}
Length = 345
Score = 265 bits (680), Expect = 1e-87
Identities = 94/322 (29%), Positives = 146/322 (45%), Gaps = 31/322 (9%)
Query: 4 AEVPKLASAAEYFFKMGVEGKRFRPTVLLLMATALNVRVPEPLHDGVEDALATELRTRQQ 63
++V + + AE+ G GKR RP + + A
Sbjct: 48 SDVAIIPALAEHLIAAG--GKRLRPLMTVAAARLAGADNDHFQK---------------- 89
Query: 64 CIAEITEMIHVASLLHDDVLDDADTRRGIGSLNFVMGNKVLAVLAGDFLLSRACVALASL 123
+A E IH A+LLHDDV+D + RRG + + + G +VL GDFL +RA +
Sbjct: 90 -LAAAVEFIHTATLLHDDVVDGSQLRRGKVAAHLIWGGAQ-SVLVGDFLFARAFELMVET 147
Query: 124 KNTEVVTLLATVVEHLVTGETMQMTTSSDQRCSMDYYMQKTYYKTASLISNSCKAIALLA 183
+ + + +LA + GE +Q+ S D S Y++ KTA L + + +A A+ A
Sbjct: 148 NSMKALEILARASRVIAEGEVLQLMRSHDLNLSQAVYLEIIQAKTAELFAAASEAGAVSA 207
Query: 184 GQTAEVAILAFDYGKNLGLAYQLIDDVLDFTGTSASLGKGSLSDIRHGIITAPILFAM-- 241
G + DYG NLGLA+QL DD LD+ G + +LGK + D R G T P+L A+
Sbjct: 208 GVDVAKSEALRDYGLNLGLAFQLADDALDYGGATETLGKNAGDDFREGKATLPLLLAIAR 267
Query: 242 ---EEFPQLRTVVEQGFEDSSNVDIALEYLGKSRGIQKTRELAVKHANLAAAAIDSLPEN 298
E + + + ++ A E + S + T +LA +A+ A AA+ P N
Sbjct: 268 SGPREAEFWERAIGRREQTEADFRRARELIIGSGALDATLDLAADYADKAKAALAMFPAN 327
Query: 299 NDEDVTKSRRALLDLTHRVITR 320
R AL +L ++R
Sbjct: 328 ------DWREALEELADFAVSR 343
>3mzv_A Decaprenyl diphosphate synthase; transferase, structural genomics,
PSI-2, protein structure initiative; 1.90A {Rhodobacter
capsulatus}
Length = 341
Score = 257 bits (660), Expect = 1e-84
Identities = 92/323 (28%), Positives = 158/323 (48%), Gaps = 31/323 (9%)
Query: 5 EVPKLASAAEYFFKMGVEGKRFRPTVLLLMATALNVRVPEPLHDGVEDALATELRTRQQC 64
P++ + + G GKR RP + L A + P +H
Sbjct: 37 HAPRIPEVTAHLIEAG--GKRLRPMLTLAAARLVGYGGPFHVH----------------- 77
Query: 65 IAEITEMIHVASLLHDDVLDDADTRRGIGSLNFVMGNKVLAVLAGDFLLSRACVALASLK 124
+A E IH A+LLHDDV+D++ RRG + N + NK +VL GD+L +R+ +
Sbjct: 78 LAATVEFIHTATLLHDDVVDESRQRRGRPTANLLWDNKS-SVLVGDYLFARSFQLMTDTG 136
Query: 125 NTEVVTLLATVVEHLVTGETMQMTTSSDQRCSMDYYMQKTYYKTASLISNSCKAIALLAG 184
N V+ +LA + GE +Q+T + + + D Y++ KTA+L S + + ++ G
Sbjct: 137 NMRVMEILANASAVIAEGEVLQLTAAQNLATTEDIYLRVIRGKTAALFSAATEVGGIIGG 196
Query: 185 QTAEVAILAFDYGKNLGLAYQLIDDVLDFTGTSASLGKGSLSDIRHGIITAPILFAM--- 241
+ FDYG LG+A+Q++DD+LD+ G SA +GK + D R +T P++ A+
Sbjct: 197 APEDQVQALFDYGDALGIAFQIVDDLLDYGGKSAEIGKNTGDDFRERKLTMPVIKAVALA 256
Query: 242 --EEFPQLRTVVEQGFEDSSNVDIALEYLGKSRGIQKTRELAVKHANLAAAAIDSLPENN 299
E + V+E+G + +++ A+ + K ++ TR A+ + A A+ LP++
Sbjct: 257 DEAERAFWKRVIEKGDQQDGDLEHAMALMTKHGTLEATRLAAIGWTDTARKALAKLPDH- 315
Query: 300 DEDVTKSRRALLDLTHRVITRNK 322
R+ L DL V+ R +
Sbjct: 316 -----PLRQMLDDLADYVVERVR 333
>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 = 257 bits (660), Expect = 2e-84
Identities = 89/323 (27%), Positives = 149/323 (46%), Gaps = 31/323 (9%)
Query: 2 VVAEVPKLASAAEYFFKMGVEGKRFRPTVLLLMATALNVRVPEPLHDGVEDALATELRTR 61
+ + L + + G GKRFRP LL + + E +
Sbjct: 55 LSSGEDFLVDIVMHLTRAG--GKRFRPMFALLASEFGEKPLSENVIKA------------ 100
Query: 62 QQCIAEITEMIHVASLLHDDVLDDADTRRGIGSLNFVMGNKVLAVLAGDFLLSRACVALA 121
A + E+ H+A+L HDDV+D+A RRG+ S N N V A+LAGD LL+ A ++
Sbjct: 101 ----AVVVEITHLATLYHDDVMDEASMRRGVPSANARWDNSV-AILAGDILLAHASGLMS 155
Query: 122 SLKNTEVVTLLATVVEHLVTGETMQMTTSSDQRCSMDYYMQKTYYKTASLISNSCKAIAL 181
L + V A LVTG+ + D +++Y KT LI+++ A+
Sbjct: 156 QLGT-DTVAHFAETFGELVTGQMRETVGPRDTD-PIEHYTNVIREKTGVLIASAGYLGAM 213
Query: 182 LAGQTAEVAILAFDYGKNLGLAYQLIDDVLDFTGTSASLGKGSLSDIRHGIITAPILFAM 241
AG E ++G +G+ +Q++DD++D + GK +D+R G+ T P+L+A+
Sbjct: 214 HAGAAPEHIDALKNFGAAVGMIFQIVDDIIDIFSETHESGKTPGTDLREGVFTLPVLYAL 273
Query: 242 ----EEFPQLRTVVEQGFEDSSNVDIALEYLGKSRGIQKTRELAVKHANLAAAAIDSLPE 297
+LR ++ ED V+ LE L +S G Q + ++ ++A A +D LP+
Sbjct: 274 REDTPVGAELRDILTGPLEDDETVNHVLELLSQSGGRQAALDEVYRYMDIANAELDRLPD 333
Query: 298 NNDEDVTKSRRALLDLTHRVITR 320
+ + AL +L + R
Sbjct: 334 S------TVKEALRNLATFTVKR 350
>3tc1_A Octaprenyl pyrophosphate synthase; all alpha-helices fold,
transferase; 2.00A {Helicobacter pylori}
Length = 315
Score = 240 bits (615), Expect = 3e-78
Identities = 82/322 (25%), Positives = 129/322 (40%), Gaps = 41/322 (12%)
Query: 5 EVPKLASAAEYFFKMGVEGKRFRPTVLLLMATALNVRVPEPLHDGVEDALATELRTRQQC 64
E + R + + LL + + + L+
Sbjct: 21 ESGFIDELFSKIGPSK--MLRSKLMLALLNEKTDAILLDKALN----------------- 61
Query: 65 IAEITEMIHVASLLHDDVLDDADTRRGIGSLNFVMGNKVLAVLAGDFLLSRACVALASLK 124
+ I EMI ASLLHDDV+D A RR + S+N + GN AV+ GD S+A L+ +
Sbjct: 62 LCTIVEMIQTASLLHDDVIDKATMRRKLPSINALFGNFN-AVMLGDVFYSKAFFELSKMG 120
Query: 125 NTEVVTLLATVVEHLVTGETMQMTTSSDQRCSMDYYMQKTYYKTASLISNSCKAIALLAG 184
+ L+ V L GE + Y + KTA I S K++A+L
Sbjct: 121 E-LIAQALSNAVLRLSRGEIEDVFVGECFNSDKQKYWRILEDKTAHFIEASLKSMAILLN 179
Query: 185 QTAEVAILAFDYGKNLGLAYQLIDDVLDFTGTSASLGKGSLSDIRHGIITAPILFAM--- 241
+ A++ D+G N G+A+Q+IDD+LD T + +LGK + SD + G T P L
Sbjct: 180 KDAKIY---ADFGLNFGMAFQIIDDLLDITQDAKTLGKPNFSDFKEGKTTLPYLLLYEKL 236
Query: 242 --EEFPQLRTVVEQGFEDSSNVDIALEYLGKSRGIQKTRELAVKHANLAAAAIDSLPENN 299
+ L + +Q ++ E + I++T + A ++ A AI
Sbjct: 237 NQHDQGLLISYFKQD--SHEIIEWTKEKFKQYGIIEETLKTAQVYSKKALEAIKGEN--- 291
Query: 300 DEDVTKSRRALLDLTHRVITRN 321
L L VI+R
Sbjct: 292 -------NLILEKLAQDVISRT 306
>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 = 232 bits (594), Expect = 2e-75
Identities = 66/291 (22%), Positives = 123/291 (42%), Gaps = 29/291 (9%)
Query: 7 PKLASAAEYFFKMGVEGKRFRPTVLLLMATALNVRVPEPLHDGVEDALATELRTRQQCIA 66
+ GK R + +L V + E
Sbjct: 26 QFFPEQIMKDLPLY--GKMLRVRLSILSFKNRGVEIGEDAIS----------------SL 67
Query: 67 EITEMIHVASLLHDDVLDDADTRRGIGSLNFVMGNKVLAVLAGDFLLSRACVALASLKNT 126
E++H+ASLLHDDV+D A RRG ++NF+ G+K AV AGD +L A + + N
Sbjct: 68 AALELVHLASLLHDDVIDGARFRRGKETINFMYGDKA-AVAAGDLVLVSAFHTVEEIGNN 126
Query: 127 EVVTLLATVVEHLVTGETMQMTTSSDQRCSMDYYMQKTYYKTASLISNSCKAIALLAGQT 186
++ V+ + E ++ + + + Y++ K+ +L + + ALL G+
Sbjct: 127 KLRRAFLNVIGKMSEAELIEQLSRYKP-ITKEEYLRIVEGKSGALFGLALQLPALLEGEL 185
Query: 187 AEVAILAFDYGKNLGLAYQLIDDVLDFTGTSASLGKGSLSDIRHGIITAPILFAMEEFPQ 246
E ++ G +G YQ+ DD++DF G +GK D+++G+ + P++ AME+FP+
Sbjct: 186 GED---LYNLGVTIGTIYQMFDDIMDFAGM-EKIGKDGFLDLKNGVASFPLVTAMEKFPE 241
Query: 247 LRTVVEQGFEDSSNVDIALEYLGKSRGIQKTRELAVKHANLAAAAIDSLPE 297
R + E + + ++ + +++ E L +
Sbjct: 242 ARQMFENR-----DWSGLMSFMREKGILKECEETLKVLVKNVIIENSWLRD 287
>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 = 230 bits (589), Expect = 1e-74
Identities = 65/323 (20%), Positives = 117/323 (36%), Gaps = 35/323 (10%)
Query: 5 EVPKLASAAEYFFKMGVEGKRFRPTVLLLMATALNVRVPEPLHDGVEDALATELRTRQQC 64
L +Y ++ GK+ R + L V PE
Sbjct: 9 VQRILLEPYKYLLQLP--GKQVRTKLSQAFNHWLKV--PEDKLQ---------------I 49
Query: 65 IAEITEMIHVASLLHDDVLDDADTRRGIGSLNFVMGNKVLAVLAGDFLLSRACVALASLK 124
I E+TEM+H ASLL DD+ D++ RRG + + G + + +++ + +L
Sbjct: 50 IIEVTEMLHNASLLIDDIEDNSKLRRGFPVAHSIYGIPS-VINSANYVYFLGLEKVLTLD 108
Query: 125 NTEVVTLLATVVEHLVTGETMQMTTSSDQRC-SMDYYMQKTYYKTASLISNSCKAIALLA 183
+ + V L + L G+ + + + C + + Y KT L + + L +
Sbjct: 109 HPDAVKLFTRQLLELHQGQGLDIYWRDNYTCPTEEEYKAMVLQKTGGLFGLAVGLMQLFS 168
Query: 184 GQTAEVAILAFDYGKNLGLAYQLIDDVLDFTGTSASLGKGSLSDIRHGIITAPILFAMEE 243
++ LGL +Q+ DD + S K D+ G + P + A+
Sbjct: 169 DYKEDLK----PLLNTLGLFFQIRDDYANLHSKEYSENKSFCEDLTEGKFSFPTIHAIWS 224
Query: 244 FP---QLRTVVEQGFEDSSNVDIALEYLGKSRGIQKTRELAVKHANLAAAAIDSLPENND 300
P Q++ ++ Q E+ + YL + TR + A ID+ N
Sbjct: 225 RPESTQVQNILRQRTENIDIKKYCVHYLEDVGSFEYTRNTLKELEAKAYKQIDARGGN-- 282
Query: 301 EDVTKSRRALLD-LTHRVITRNK 322
AL+ L+ N+
Sbjct: 283 ----PELVALVKHLSKMFKEENE 301
>1wy0_A Geranylgeranyl pyrophosphate synthetase; pyrococcus horikosh
structural genomics, riken structural
genomics/proteomics initiative, RSGI; 2.20A {Pyrococcus
horikoshii}
Length = 342
Score = 222 bits (567), Expect = 8e-71
Identities = 86/342 (25%), Positives = 140/342 (40%), Gaps = 47/342 (13%)
Query: 1 MVVAEVPKLASAAEYFFKMGVEGKRFRPTVLLLMATALNVRVPEPLHDGVEDALATELRT 60
+ + L AA ++ G GKR RP V+L A+ ++
Sbjct: 26 IPEKDPRVLYEAARHYPLAG--GKRVRPFVVLTSTEAVGGDPLRAIY------------- 70
Query: 61 RQQCIAEITEMIHVASLLHDDVLDDADTRRGIGSLNFVMGNKVLAVLAGDFLLSRACVAL 120
A E+IH SL+HDD++D +TRRG +++ + G + A+LAGD L S+A A+
Sbjct: 71 ----PAVAIELIHNYSLVHDDIMDMDETRRGKPTVHRIWGVNM-AILAGDLLFSKAFEAV 125
Query: 121 ASL-----KNTEVVTLLATVVEHLVTGETMQMTTSSDQRCSMDYYMQKTYYKTASLISNS 175
A K V+ ++ L G+ + +++ YM+ KT +L S
Sbjct: 126 ARAEIPPEKKARVLEVIVKASNELCEGQARDLEFEKKSTVTIEEYMEMISGKTGALFEAS 185
Query: 176 CKAIALLAGQTAEVAILAFDYGKNLGLAYQLIDDVLDFTGTSASLGKGSLSDIRHGIITA 235
K ++ E +G+N+G+A+Q+ DDVLD LGK SDIR G T
Sbjct: 186 AKVGGIIGTDNEEYIKALSSWGRNVGIAFQIWDDVLDLIADEKKLGKPVGSDIRKGKKTL 245
Query: 236 PILFAME-----EFPQLRTVVEQGFEDSS-----------NVDIALEYLGKSRGIQKTRE 279
+ E + + + + D +V A++ L K I E
Sbjct: 246 IVAHFFENADEKDKQRFLKIFGKYAGDVKGRGIIEEDIKSDVMEAIDLLKKYGSIDYAAE 305
Query: 280 LAVKHANLAAAAIDSLPENNDEDVTKSRRALLDLTHRVITRN 321
+A A A+ LP++ K+R L L ++ R
Sbjct: 306 IAKDMIKKANEALRILPKS------KARMDLELLAKFIVERE 341
>3ipi_A Geranyltranstransferase; isoprene biosynthesis, helical bundle,
protein structure initiative II (PSI II), structural
genomics, nysgxrc; 1.90A {Methanosarcina mazei}
Length = 295
Score = 219 bits (559), Expect = 3e-70
Identities = 73/320 (22%), Positives = 122/320 (38%), Gaps = 59/320 (18%)
Query: 1 MVVAEVPKLASAAEYFFKMGVEGKRFRPTVLLLMATALNVRVPEPLHDGVEDALATELRT 60
+ + E P L E+ G GKR RP +LLL++ + L+
Sbjct: 22 ITLIEDPGLKKMVEHVCHSG--GKRIRPIILLLVSEICSGSYSRSLN------------- 66
Query: 61 RQQCIAEITEMIHVASLLHDDVLDDADTRRGIGSLNFVMGNKVLAVLAGDFLLSRACVAL 120
A EM+H ASL+HDD+LD RR + S G A+L GD+L++++ +
Sbjct: 67 ----AALAVEMMHSASLIHDDLLDQGLVRRNLPSAPEKFGPSG-ALLCGDYLIAKSIAFI 121
Query: 121 ASLKNTEVVTLLATVVEHLVTGETMQMTTSSDQRCSMDYYMQKTYYKTASLISNSCKAIA 180
+ +V+ + GE + + D+ + Y + Y KTASL + S A
Sbjct: 122 SPYGE-KVIQDFGKAGMDMAEGEVLDLK-LEDESFGENDYFKCIYKKTASLFAISASIGA 179
Query: 181 LLAGQTAEVAILAFDYGKNLGLAYQLIDDVLDFTGTSASLGKGSLSDIRHGIITAPILFA 240
G E+A +G LG AYQ++DD+L+F GK + + T P ++
Sbjct: 180 YTGGAEEELAERFSHFGNALGTAYQIVDDILEFLEVVE--GK----ESKFTSETLPHIYM 233
Query: 241 MEEFPQLRTVVEQGFEDSSNVDIALEYLGKSRGIQKTRELAVKHANLAAAAIDSLPENND 300
K ++K+ + H A +++ E
Sbjct: 234 KST-------------------------SKEEALKKSIDCVKLHVAAAKETLETFREC-- 266
Query: 301 EDVTKSRRALLDLTHRVITR 320
+R L +T +
Sbjct: 267 ----PARDKLFQITDYITVD 282
>4dhd_A Polyprenyl synthetase; isoprenoid synthesis, isoprenoid diphosphate
synthase, trans; 1.65A {Pyrobaculum calidifontis}
Length = 358
Score = 216 bits (552), Expect = 3e-68
Identities = 75/340 (22%), Positives = 135/340 (39%), Gaps = 48/340 (14%)
Query: 1 MVVAEVPKLASAAEYFFKMGVEGKRFRPTVLLLMATALNVRVPEPLHDGVEDALATELRT 60
+ + A Y K G GKR RP + L A A++ + L
Sbjct: 25 LSIGLAEDFREAVLYQVKTG--GKRLRPLLTLAAAEAVSGQWRPALP------------- 69
Query: 61 RQQCIAEITEMIHVASLLHDDVLDDADTRRGIGSLNFVMGNKVLAVLAGDFLLSRACVAL 120
A I E+IH SL++DD++D D RRG+ ++ G+ A+L G + A+
Sbjct: 70 ----AAAIVELIHNYSLIYDDIIDRGDVRRGLPTVRKAFGDNA-AILVGIWYREAIEEAV 124
Query: 121 ASLKNTEVVT-LLATVVEHLVTGETMQMTTSSDQRC------------SMDYYMQKTYYK 167
+ +A V++ + GE + + + R ++D Y++ K
Sbjct: 125 LDTPKPTLFAKEVAEVIKAIDEGERLDILFEAAGRSDPYFVQARWREVTLDDYIKMVSLK 184
Query: 168 TASLISNSCKAIALLAGQTAEVAILAFDYGKNLGLAYQLIDDVLDFTGTSASLGKGSLSD 227
T +LI+ + K L +A A+++G G+A+Q+IDDVLD G GK D
Sbjct: 185 TGALIAAAAKWGVLSVSDDRGLAEAAWNFGMAAGVAFQIIDDVLDIYGDPKKFGKEIGKD 244
Query: 228 IRHGIITAPILFAM------EEFPQLRTVVEQGFEDSSNVDIALEYLGKSRGIQKTRELA 281
I+ ++ E +L ++ + + ++V A+ L ++ LA
Sbjct: 245 IKEHKRGNAVVAVALSHLGEGERRRLLEILAREVVEEADVREAVALLDSVGAREEALRLA 304
Query: 282 VKHANLAAAAIDSLPENNDEDVTKSRRALLDLTHRVITRN 321
++ A + +P N L +L ++ R
Sbjct: 305 ARYREEAERHLAKIPNN---------GTLKELLDFIVARE 335
>3nf2_A Putative polyprenyl synthetase; isoprenyl diphosphate synthase,
structural genomics, PSI, PR structure initiative,
nysgrc; 2.20A {Streptomyces coelicolor}
Length = 352
Score = 212 bits (543), Expect = 5e-67
Identities = 69/336 (20%), Positives = 126/336 (37%), Gaps = 39/336 (11%)
Query: 1 MVVAEVPKLASAAEYFFKMGVEGKRFRPTVLLLMATALNVRVPEPLHDGVEDALATELRT 60
+ + + G GK RP + +L A E +
Sbjct: 34 VAAYHFGWIDAQGNPADGDG--GKAVRPALAVLSAEVTG--------AAPEVGVPG---- 79
Query: 61 RQQCIAEITEMIHVASLLHDDVLDDADTRRGIGSLNFVMGNKVLAVLAGDFLLSRAC--- 117
A E++H SLLHDD++D + RR ++ V G A+L GD L + A
Sbjct: 80 -----AVAVELVHNFSLLHDDLMDGDEQRRHRDTVWKVHGPAQ-AILVGDALFALANEVL 133
Query: 118 VALASLKNTEVVTLLATVVEHLVTGETMQMTTSSDQRCSMDYYMQKTYYKTASLISNSCK 177
+ L +++ L L+ G+ ++ R S++ ++ KT +L++ +
Sbjct: 134 LELGTVEAGRATRRLTKASRSLIDGQAQDISYEHRDRVSVEECLEMEGNKTGALLACASS 193
Query: 178 AIALLAGQTAEVAILAFDYGKNLGLAYQLIDDVLDFTGTSASLGKGSLSDIRHGIITAPI 237
A+L G A YG +LGLA+Q +DD+L G + GK + SD+R + P+
Sbjct: 194 IGAVLGGADERTADTLEKYGYHLGLAFQAVDDLLGIWGDPDATGKQTWSDLRQRKKSLPV 253
Query: 238 LFAME-----------EFPQLRTVVEQGFEDSSNVDIALEYLGKSRGIQKTRELAVKHAN 286
+ A+ + + ++ G + T + A +
Sbjct: 254 VAALAAGGAASERLGEILTADAKASDFANFSEEEFAARAALIEEAGGREWTADEARRQHT 313
Query: 287 LAAAAIDSLPENNDEDVTKSRRALLDLTHRVITRNK 322
+A A+D++ + R L V+ R +
Sbjct: 314 IAIEALDAVDMPDR-----VRDRFTALADFVVVRKR 344
>1wmw_A Geranylgeranyl diphosphate synthetase; GGPP, prenyl diphosphate
synthase, structural genom riken structural
genomics/proteomics initiative; 1.55A {Thermus
thermophilus}
Length = 330
Score = 194 bits (495), Expect = 4e-60
Identities = 72/331 (21%), Positives = 125/331 (37%), Gaps = 40/331 (12%)
Query: 5 EVPKLASAAEYFFKMGVEGKRFRPTVLLLMATALNVRVPEPLHDGVEDALATELRTRQQC 64
P + + + G GK R + + A A +E L
Sbjct: 23 PDPLYRDLLQDYPRRG--GKMLRGLLTVYSALAHG--------APLEAGLE--------- 63
Query: 65 IAEITEMIHVASLLHDDVLDDADTRRGIGSLNFVMGNKVLAVLAGDFLLSRACVALA--- 121
A E+ L+HDD+ D ++ RRG +L+ + + A+ AGD + + LA
Sbjct: 64 AATALELFQNWVLVHDDIEDGSEERRGRPALHRLHPMPL-ALNAGDAMHAEMWGLLAEGL 122
Query: 122 --SLKNTEVVTLLATVVEHLVTGETMQMTTSSDQRC--SMDYYMQKTYYKTASLI-SNSC 176
L EV+ VV G+ + + + + Y + +K A
Sbjct: 123 ARGLFPPEVLLEFHEVVRRTAYGQHLDLLWTLGGTFDLRPEDYFRMVAHKAAYYTAVAPL 182
Query: 177 KAIALLAGQTAEVAILAFDYGKNLGLAYQLIDDVLDFTGTSASLGKGSLSDIRHGIITAP 236
+ ALLAG+T A + G LG A+Q++DDVL+ G A GK D+ G T
Sbjct: 183 RLGALLAGKTPPAAY--EEGGLRLGTAFQIVDDVLNLEGGEA-YGKERAGDLYEGKRTLI 239
Query: 237 ILFAME-----EFPQLRTVVEQGFEDSSNVDI--ALEYLGKSRGIQKTRELAVKHANLAA 289
+L +E E + ++ E ++ LE L SR + + A +
Sbjct: 240 LLRFLEEAPPEERARALALLALPREAKPEAEVGWLLERLLASRALAWAKAEAKRLQAEGL 299
Query: 290 AAIDSLPENNDEDVTKSRRALLDLTHRVITR 320
A +++ ++ ++ L L ++ R
Sbjct: 300 ALLEAAFQDLPG--KEALDHLRGLLAALVER 328
>2azj_A Geranylgeranyl pyrophosphate synthetase; hexpps,
trans-prenyltransferase; 2.40A {Sulfolobus solfataricus}
PDB: 2azk_A
Length = 289
Score = 189 bits (481), Expect = 1e-58
Identities = 59/266 (22%), Positives = 94/266 (35%), Gaps = 38/266 (14%)
Query: 23 GKRFRPTVLLLMATALNVRVPEPLHDGVEDALATELRTRQQCIAEITEMIHVASLLHDDV 82
GKRFR T+ + AL + + A E++H ASL D+
Sbjct: 49 GKRFRGTLNMFFTVALGGDIKDSYG-----------------GALAIEILHSASLALCDI 91
Query: 83 LDDADTRRGIGSLNFVMGNKVLAVLAGDFLLSRACVALASLKNTEVVTLLATVVEHLVTG 142
+D TRRG + V GN+ + ++L+ A + + + + + + G
Sbjct: 92 VDLDATRRGDKAAWVVYGNRK-VIFITNYLIPTALRIIQTSYGDDALNTSIELWKDTSVG 150
Query: 143 ETMQMTTSSDQRCSMDYYMQKTYYKTASLISNSCKAIALLAGQTAEVAILAFDYGKNLGL 202
M +SD Y++ KT SL S A + + D GK LG+
Sbjct: 151 ALRDMYDNSD-------YIRTIELKTGSLFKLSTVLSAYASKHYNTKQQML-DVGKYLGI 202
Query: 203 AYQLIDDVLDFTGTSA----SLGKGSLSDIRHGIITAPILFAMEEFPQ-----LRTVVEQ 253
YQ+IDD +D+ K R G + + E+ Q + + Q
Sbjct: 203 IYQVIDDFVDYKTKKVEEIDGSAKQLFKYYREGKLEEYVRSVYLEYKQKYDELISNIPFQ 262
Query: 254 GF---EDSSNVDIALEYLGKSRGIQK 276
E S + L K I K
Sbjct: 263 SKYLSEIRSLPEFLANGLLKEANIDK 288
>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 = 186 bits (474), Expect = 7e-57
Identities = 55/334 (16%), Positives = 124/334 (37%), Gaps = 39/334 (11%)
Query: 5 EVPKLASAAEYFFKMGVEGKRFRPTVLLLMATALNVRVPEPLHDGVEDALATELRTRQQC 64
++ + GK FR +++ + +N+ +
Sbjct: 24 NESLISKPYNHILLKP--GKNFRLNLIVQINRVMNLPKDQLAI----------------- 64
Query: 65 IAEITEMIHVASLLHDDVLDDADTRRGIGSLNFVMGNKVLAVLAGDFLLSRA---CVALA 121
+++I E++H +SLL DD+ D+A RRG + + + G + +++ RA L
Sbjct: 65 VSQIVELLHNSSLLIDDIEDNAPLRRGQTTSHLIFGVPS-TINTANYMYFRAMQLVSQLT 123
Query: 122 SLKN--TEVVTLLATVVEHLVTGETMQMT---TSSDQRCSMDYYMQKTYYKTASLISNSC 176
+ + ++T+ + +L G+ + + + + + Y+ KT L +
Sbjct: 124 TKEPLYHNLITIFNEELINLHRGQGLDIYWRDFLPEIIPTQEMYLNMVMNKTGGLFRLTL 183
Query: 177 KAIALLAGQTAEVAILAFDYGKNLGLAYQLIDDVLDFTGTSASLGKGSLSDIRHGIITAP 236
+ + L+ + L + LG+ YQ+ DD L+ S KG DI G ++ P
Sbjct: 184 RLMEALSPSSHHGHSLV-PFINLLGIIYQIRDDYLNLKDFQMSSEKGFAEDITEGKLSFP 242
Query: 237 ILFAM---------EEFPQLRTVVEQGFEDSSNVDIALEYLGKSRG-IQKTRELAVKHAN 286
I+ A+ E+ ++ ++ D ++ L + T+ + N
Sbjct: 243 IVHALNFTKTKGQTEQHNEILRILLLRTSDKDIKLKLIQILEFDTNSLAYTKNFINQLVN 302
Query: 287 LAAAAIDSLPENNDEDVTKSRRALLDLTHRVITR 320
+ ++ + + + L D +I
Sbjct: 303 MIKNDNENKYLPDLASHSDTATNLHDELLYIIDH 336
>4fp4_A Polyprenyl synthetase; isoprenoid synthesis, isoprenoid diphosphate
synthase, trans; HET: GER UNL; 2.00A {Pyrobaculum
calidifontis}
Length = 285
Score = 182 bits (464), Expect = 4e-56
Identities = 62/286 (21%), Positives = 108/286 (37%), Gaps = 36/286 (12%)
Query: 1 MVVAEVPKLASAAEYFFKMGVEGKRFRPTVLLLMATALNVRVPEPLHDGVEDALATELRT 60
E L A ++ + GK RP +LL +++ + D E
Sbjct: 25 GEELEPISLRKAVRHYIETP--GKLLRPLLLLTFTYSID-------RRSIMDPRILEA-- 73
Query: 61 RQQCIAEITEMIHVASLLHDDVLDDADTRRGIGSLNFVMGNKVLAVLAGDFLLSRACVAL 120
A I E++HV SLL DDV+D D RRGI + + G+ A++A D+L++ +
Sbjct: 74 -----AAIVELLHVVSLLQDDVMDQHDQRRGIKTPRAMYGDGR-AIVASDWLIAESIKMA 127
Query: 121 ASLKNTEVVTLLATVVEHLVTGETMQMTTSSDQRCSMDYYMQKTYYKTASLISNSCKAIA 180
+L +VVT LA V + L G+ + + + +KTA LI +
Sbjct: 128 VNL-GADVVTYLADVAQRLSVGQALDLEGE---------RDKAAEFKTAPLIEAALVMPL 177
Query: 181 LLAGQTAEVAILAFDYGKNLGLAYQLIDDVLDFTGTSASLGKGSLSDIRHGIITAPILFA 240
++ G+ + G LG+ YQ DD D K ++I G I
Sbjct: 178 VILGRRELIETAK-KLGTKLGILYQYSDDYSDENVERPE-TKSIANEI--GRYLLKIKEH 233
Query: 241 M-----EEFPQLRTVVEQGFEDSSNVDIALEYLGKSRGIQKTRELA 281
+ ++ ++ + E + V + + +
Sbjct: 234 VGDAIAPFERLIKYLIGKALEGTLTVSRTIAENLYFQSHHHHHHWS 279
>3lk5_A Geranylgeranyl pyrophosphate synthase; structural genomics, protein
structure initiative, geranylge pyrophosphate synthase;
1.90A {Corynebacterium glutamicum} PDB: 3qqv_A*
Length = 380
Score = 183 bits (465), Expect = 4e-55
Identities = 72/349 (20%), Positives = 129/349 (36%), Gaps = 46/349 (13%)
Query: 2 VVAEVPKLASAAEYFFKMGVEGKRFRPTVLLLMATALNVRVPEPLHDGVEDALATELRTR 61
+ A V + F G GKR RP A + + + +E L
Sbjct: 43 IGAPVTDAVAHLRSFVLNG--GKRIRPLYAWAGFLA--AQGHKNSSEKLESVLD------ 92
Query: 62 QQCIAEITEMIHVASLLHDDVLDDADTRRGIGSLNFVMGNKV---------------LAV 106
A E I +L+HDD++D +DTRRG +++ + +++
Sbjct: 93 ---AAASLEFIQACALIHDDIIDSSDTRRGAPTVHRAVEADHRANNFEGDPEHFGVSVSI 149
Query: 107 LAGDFLLSRACVALASL-----KNTEVVTLLATVVEHLVTGETMQMTTSSDQRCSMDYYM 161
LAGD L A L + ++ G+ + + S S++
Sbjct: 150 LAGDMALVWAEDMLQDSGLSAEALARTRDAWRGMRTEVIGGQLLDIYLESHANESVELAD 209
Query: 162 QKTYYKTAS-LISNSCKAIALLAGQTAEVAILAFDYGKNLGLAYQLIDDVLDFTGTSASL 220
+KTA+ I+ A +AG + ++ YG ++G+A+QL DD+L G A
Sbjct: 210 SVNRFKTAAYTIARPLHLGASIAGGSPQLIDALLHYGHDIGIAFQLRDDLLGVFGDPAIT 269
Query: 221 GKGSLSDIRHGIITAPILFAME-----EFPQLRTVVEQGFEDSSNVDI--ALEYLGKSRG 273
GK + DIR G T + A++ + + +S DI E++ +
Sbjct: 270 GKPAGDDIREGKRTVLLALALQRADKQSPEAATAIRAGVGKVTSPEDIAVITEHIRATGA 329
Query: 274 IQKTRELAVKHANLAAAAIDSLPENNDEDVTKSRRALLDLTHRVITRNK 322
++ + + A +D + ++ R L L R R +
Sbjct: 330 EEEVEQRISQLTESGLAHLDDVDIPDE-----VRAQLRALAIRSTERRE 373
>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 = 165 bits (419), Expect = 2e-48
Identities = 58/317 (18%), Positives = 106/317 (33%), Gaps = 36/317 (11%)
Query: 23 GKRFRPTVLLLMATALNVRVPEPLHDGVEDALATELRTRQQCIAEITEMIHVASLLHDDV 82
GK R ++ L+ + + + ALA + E+ ASL+ DD+
Sbjct: 70 GKCNRGLTVVAAYRELSGP-GQKDAESLRCALA---------VGWCIELFQAASLVADDI 119
Query: 83 LDDADTRRGIGSLNFVMGNKVLAVLAGDFLLSRACVALASL------KNTEVVTLLATVV 136
+D + TRRG G L + FLL + + ++ L
Sbjct: 120 MDQSLTRRGQLCWYKKEGVG-LDAINDSFLLESSVYRVLKKYCRQRPYYVHLLELFLQTA 178
Query: 137 EHLVTGETMQMTTSSDQRC-----SMDYYMQKTYYKTASL--ISNSCKAIALLAGQTAEV 189
G+ + + T+ + S + Y YKTA A+ ++ + E
Sbjct: 179 YQTELGQMLDLITAPVSKVDLSHFSEERYKAIVKYKTAFYSFYLPVAAAMYMVGIDSKEE 238
Query: 190 AILAFDYGKNLGLAYQLIDDVLDFTGTSASLGK-GSLSDIRHGIITAPILFAMEEF-PQL 247
A +G +Q+ DD LD G A G G +DI+ + ++ ++ P+
Sbjct: 239 HENAKAILLEMGEYFQIQDDYLDCFGDPALTGAVG--TDIQDNKCSWLVVQCLQRVTPEQ 296
Query: 248 RTVVEQ--GFEDSSNVDIALEYLGKSRGIQKTRELAVKHANLAAAAIDSLPENNDEDVTK 305
R ++E G ++ V E ++ I+
Sbjct: 297 RQLLEDNYGRKEPEKVAKVKELYEAVGMRAAFQQYEESSYRRLQELIEKHSNRL------ 350
Query: 306 SRRALLDLTHRVITRNK 322
+ L L ++ R K
Sbjct: 351 PKEIFLGLAQKIYKRQK 367
>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 = 153 bits (387), Expect = 1e-43
Identities = 56/316 (17%), Positives = 107/316 (33%), Gaps = 34/316 (10%)
Query: 23 GKRFRPTVLLLMATALNVRVPEPLHDGVEDALATELRTRQQCIAEITEMIHVASLLHDDV 82
GK R +++ L V + D ++ A + E++ L+ DD+
Sbjct: 77 GKYNRGLTVVVAFREL-VEPRKQDADSLQRAWT---------VGWCVELLQAFFLVADDI 126
Query: 83 LDDADTRRGIGSLNFVMGNKVLAVLAGDFLLSRACVALAS-----LKNTEVVTLLATVVE 137
+D + TRRG G + A+ + L + L ++ L
Sbjct: 127 MDSSLTRRGQICWYQKPGVGLDAINDANLLEACIYRLLKLYCREQPYYLNLIELFLQSSY 186
Query: 138 HLVTGETMQMTTSSD-----QRCSMDYYMQKTYYKTASLISNSCKAIA-LLAGQTAEVAI 191
G+T+ + T+ R + Y YK+A A A +AG E
Sbjct: 187 QTEIGQTLDLLTAPQGNVDLVRFTEKRYKSIVKYKSAFYSFYLPIAAAMYMAGIDGEKEH 246
Query: 192 -LAFDYGKNLGLAYQLIDDVLDFTGTSASLGK-GSLSDIRHGIITAPILFAMEEF-PQLR 248
A +G +Q+ DD LD G + GK G +DI+ + ++ ++ P+
Sbjct: 247 ANAKKILLEMGEFFQIQDDYLDLFGDPSVTGKIG--TDIQDNKCSWLVVQCLQRATPEQY 304
Query: 249 TVVEQ--GFEDSSNVDIALEYLGKSRGIQKTRELAVKHANLAAAAIDSLPENNDEDVTKS 306
++++ G +++ V + + + A I+
Sbjct: 305 QILKENYGQKEAEKVARVKALYEELDLPAVFLQYEEDSYSHIMALIEQYAAPL------P 358
Query: 307 RRALLDLTHRVITRNK 322
L L ++ R K
Sbjct: 359 PAVFLGLARKIYKRRK 374
>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 = 145 bits (367), Expect = 8e-41
Identities = 48/334 (14%), Positives = 103/334 (30%), Gaps = 42/334 (12%)
Query: 5 EVPKLASAAEYFFKM----GVEGKRFRPTVLLLMATALNVRVPEPLHDGVEDALATELRT 60
EY+ +GK R +L+L+++ + + +
Sbjct: 49 NDEIRKPVIEYYLNCIDYNVKKGKHIRGKILVLISSLSS----AYSNIKRDSIYL----- 99
Query: 61 RQQCIAEITEMIHVASLLHDDVLDDADTRRGIGSLNFVMGNKVLAVLAGDFLLSRACVAL 120
+ + E I L+ DD++D RRG V G A+ FL + +
Sbjct: 100 ----LGWVVEAIQALILIADDIMDSGKFRRGAPCWYIVHGQS-NAINDIFFLKMLSLSLI 154
Query: 121 ASLKN-------TEVVTLLATVVEHLVTGETMQMTTSSDQRC--SMDYYMQKTYYKTASL 171
L + ++ + + V G+ + ++ + + Y KT+
Sbjct: 155 FELSSVFGNDIVMKIQKIYNESIFFTVLGQHLDLSYFDLSKADKISERYFSMVEMKTSRY 214
Query: 172 ISNSCKAIALLAGQ---TAEVAILAFDYGKNLGLAYQLIDDVLDFTGTSASLGKGSLSDI 228
L + ++ L LG YQ+ +DV D+ + DI
Sbjct: 215 TFYMPVFFGLTLSEIQVSSAQLNLIEAILYKLGEFYQVHNDVSDYLF-----NDSNADDI 269
Query: 229 RHGIITAPILFAMEEFP--QLRTVVEQGFEDSSNVDIALEYLGKSRGIQKTRELAVKHAN 286
+T P+ + E + E ++SS V L + E +
Sbjct: 270 CRFKLTWPLQKSFEIADEEMKLKISENYGKNSSLVKDCYNLLKI---NEHYLEYQRNALD 326
Query: 287 LAAAAIDSLPENNDEDVTKSRRALLDLTHRVITR 320
+ + +++ + V + ++ +
Sbjct: 327 YLIKLVKDITDDSLQKVFIH--LIHQISELITNS 358
>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 = 142 bits (359), Expect = 2e-39
Identities = 63/352 (17%), Positives = 113/352 (32%), Gaps = 57/352 (16%)
Query: 5 EVPKLASAAEYFFKMGVEGKRFRPTVLLLMATALNVRVPEPLHDGVEDALATELRTRQQC 64
+ K + +G GK R +++L+ + R + E A C
Sbjct: 63 HISKYYKLLFDYNCLG--GKNNRGILVILIYEYVKNR--DINSSEWEKAA---------C 109
Query: 65 IAEITEMIHVASLLHDDVLDDADTRRGIGSLNFVMGNKVLAVLAGDFLLSRACVALASLK 124
+A E++ A L+ DD++D + RR + + D LL +
Sbjct: 110 LAWCIEILQAAFLVADDIMDKGEMRRNKYCWYLLKDVE-TKNAVNDVLLLYNSIYKLIEI 168
Query: 125 -------NTEVVTLLATVVEHLVTGETMQMTTSSDQRC---------------------- 155
+V+ + G+ + SD+
Sbjct: 169 YLRNESCYVDVIATFRDATLKTIIGQHLDTNIFSDKYSDAHREIDVNNINVPEQPVIDIN 228
Query: 156 --SMDYYMQKTYYKTASLISNSCKAI-ALLAGQTAEVAIL--AFDYGKNLGLAYQLIDDV 210
+ Y +KTA LLAG + I D +G +Q+ DD
Sbjct: 229 MINFGVYKNIVIHKTAYYSFFLPIVCGMLLAGIAVDNLIYKKIEDISMLMGEYFQIHDDY 288
Query: 211 LDFTGTSASLGK-GSLSDIRHGIITAPILFAMEEF-PQLRTVVEQ--GFEDSSNVDIALE 266
LD G S GK G SDI++ +T P++ E + + + G + + V +
Sbjct: 289 LDIFGDSTKTGKVG--SDIQNNKLTWPLIKTFELCSEPDKIKIVKNYGKNNLACVKVIDS 346
Query: 267 YLGKSRGIQKTRELAVKHANLAAAAIDSLPENNDEDVTKSRRALLDLTHRVI 318
+ + + +AI+ L E V K LL++ +
Sbjct: 347 LYEQYKIRKHYESYEKAQKAKILSAINELHHEGIEYVLKY---LLEILFTGV 395
>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 = 141 bits (357), Expect = 3e-39
Identities = 50/328 (15%), Positives = 104/328 (31%), Gaps = 34/328 (10%)
Query: 23 GKRFRPTVLLLMATALNVRVPEPLHDGVEDALATELRTRQQCIAEITEMIHVASLLHDDV 82
GK R ++ +A +L P + + A + + E + L+ DD+
Sbjct: 69 GKYNRGLTVIDVAESLLSLSPNNNGEEDDGARRKRVLHDACVCGWMIEFLQAHYLVEDDI 128
Query: 83 LDDADTRRGIGSLNFVMGNKVLAVLAGDFLLSRACVALASLKN-------TEVVTLLATV 135
+D++ TRRG + D LL ++ + ++ +++ V
Sbjct: 129 MDNSVTRRGKPCWYRHPDVT-VQCAINDGLLLKSWTHMMAMHFFADRPFLQDLLCRFNRV 187
Query: 136 VEHLVTGETMQMTTSSDQRC----------------SMDYYMQKTYYKTASLISNSCKAI 179
G+ +T+ D ++ Y + YKTA +
Sbjct: 188 DYTTAVGQLYDVTSMFDSNKLDPDVSQPTTTDFAEFTLSNYKRIVKYKTAYYTYLLPLVM 247
Query: 180 -ALLAGQTAEVAI-LAFDYGKNLGLAYQLIDDVLDFTGTSASLGKGSLSDIRHGIITAPI 237
+++ V + + + +G +Q+ DDV+D LGK +DI+ +
Sbjct: 248 GLIVSEALPTVDMGVTEELAMLMGEYFQVQDDVMDCFTPPERLGK-VGTDIQDAKCSWLA 306
Query: 238 LFAMEEF-PQLRTVVEQ--GFEDSSNVDIALEYLGKSRGIQKTRELAVKHANLAAAAIDS 294
+ + + + G DS V ++ A I+
Sbjct: 307 VTFLAKASSAQVAEFKANYGSGDSEKVATVRRLYEEADLQGDYVAYEAAVAEQVKELIEK 366
Query: 295 LPENNDEDVTKSRRALLDLTHRVITRNK 322
L + ++ L + R K
Sbjct: 367 LRLCSPG----FAASVETLWGKTYKRQK 390
>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 = 140 bits (354), Expect = 5e-39
Identities = 47/349 (13%), Positives = 101/349 (28%), Gaps = 42/349 (12%)
Query: 2 VVAEVPKLASAAEYFFKMGVEGKRFRPTVLLLMATALNVRVPEPLHDGVEDALATELRTR 61
+ + +G GK FR + ++ A + ++ + +
Sbjct: 28 IDPNRARYLRIMMDTTCLG--GKYFRG--MTVVNVAEGFLAVTQHDEATKERILHDACVG 83
Query: 62 QQCIAEITEMIHVASLLHDDVLDDADTRRGIGSLNFVMGNKVLAVLAGDFLLSRACVALA 121
I E + L+ DD++D + RRG G D ++ ++ +
Sbjct: 84 GWMI----EFLQAHYLVEDDIMDGSVMRRGKPCWYRFPGV-TTQCAINDGIILKSWTQIM 138
Query: 122 SLKNTEVVTLLATVVE--HLVTGETM---------------------QMTTSSDQRCSMD 158
+ L ++ V T Q T+ +
Sbjct: 139 AWHYFADRPFLKDLLCLFQKVDYATAVGQMYDVTSMCDSNKLDPEVAQPMTTDFAEFTPA 198
Query: 159 YYMQKTYYKTASLISNSCKAI-ALLAGQTAEVAI-LAFDYGKNLGLAYQLIDDVLDFTGT 216
Y + YKT + ++ A V + L +G +Q+ DDV+D
Sbjct: 199 IYKRIVKYKTTFYTYLLPLVMGLFVSEAAASVEMNLVERVAHLIGEYFQVQDDVMDCFTP 258
Query: 217 SASLGKGSLSDIRHGIITAPILFAMEEF-PQLRTVVEQ--GFEDSSNVDIALEYLGKSRG 273
LGK +DI + + + + + G +D + V + ++
Sbjct: 259 PEQLGK-VGTDIEDAKCSWLAVTFLGKANAAQVAEFKANYGDKDPAKVAVVKRLYSEANL 317
Query: 274 IQKTRELAVKHANLAAAAIDSLPENNDEDVTKSRRALLDLTHRVITRNK 322
+ + I+ L + ++ + + R K
Sbjct: 318 QADFAAYEAEVVREVESLIEQLKVKSP----TFAESVAVVWEKTHKRKK 362
>3uca_A Geranyltranstransferase; isoprenoid synthesis, isoprenoid
diphosphate synthase; 2.00A {Clostridium perfringens}
Length = 324
Score = 115 bits (291), Expect = 3e-30
Identities = 74/326 (22%), Positives = 120/326 (36%), Gaps = 75/326 (23%)
Query: 7 PKLASAAEYFFKMGVEGKRFRPTVLLLMATALNVRVPEPLHDGVEDALATELRTRQQCIA 66
L + Y +G GKR RP +L++ + + L A
Sbjct: 60 KVLYDSMAYSINVG--GKRIRP--ILMLLSY------YIYKSDYKKILTP---------A 100
Query: 67 EITEMIHVASLLHDDV--LDDADTRRGIGSLNFVMGNKVLAVLAGDFLLSRACVALASLK 124
EMIH SL+HDD+ +D+ D RRG + + V G + AVLAGD LL+ A L
Sbjct: 101 MAIEMIHTYSLIHDDLPCMDNDDLRRGKPTNHKVFGEAI-AVLAGDALLNEAMKILVDYS 159
Query: 125 NT------EVVTLLATV--VEHLVTGETMQMTTSSDQRCSMDY--YMQKTYYKTASLISN 174
+ ++A + ++ G+ + + + S+ YM KT LI
Sbjct: 160 LEEGKSALKATKIIADAAGSDGMIGGQIVDIINEDKEEISLKELDYMHL--KKTGELIKA 217
Query: 175 SCKAIALLAGQTAEVAILAFDYGKNLGLAYQLIDDVLDFTGTSASLGKGSLSDIRHGIIT 234
S + A+LA + +G LGLA+Q+ DD+LD G + LGK D
Sbjct: 218 SIMSGAVLAEASEGDIKKLEGFGYKLGLAFQIKDDILDVVGNAKDLGKNVHKDQESNKNN 277
Query: 235 APILFAMEEFPQLRTVVEQGFEDSSNVDIALEYLGKSRGIQKTRELAVKHANLAAAAIDS 294
+F G+++ ++ V + S
Sbjct: 278 YITIF---------------------------------GLEECKKKCVNITEECIEILSS 304
Query: 295 LPENNDEDVTKSRRALLDLTHRVITR 320
+ N + L LT +++ R
Sbjct: 305 IKGNTE--------PLKVLTMKLLER 322
>3llw_A Geranyltranstransferase (ISPA); structural genomics, PSI, protein
structure initiative, nysgrc; 2.30A {Helicobacter
pylori} PDB: 3q1o_A*
Length = 311
Score = 115 bits (290), Expect = 4e-30
Identities = 64/329 (19%), Positives = 120/329 (36%), Gaps = 70/329 (21%)
Query: 7 PKLASAAEYFFKMGVEGKRFRPTVLLLMATALNVRVPEPLHDGVEDALATELRTRQQCIA 66
P L A G GKRFRP L +A + + + + IA
Sbjct: 34 PYLEKAFFEMVLNG--GKRFRP--KLFLAVLCALVGQKDYSNQQTEYFK---------IA 80
Query: 67 EITEMIHVASLLHDDV--LDDADTRRGIGSLNFVMGNKVLAVLAGDFLLSRA--CVALAS 122
E +H SL+HDD+ +D+A RR +L+ + AVL GD L + + ++ A
Sbjct: 81 LSIECLHTYSLIHDDLPCMDNAALRRNHPTLHAKYD-ETTAVLIGDALNTYSFELLSNAL 139
Query: 123 LKNTEVVTLLATV-----VEHLVTGETMQMTTSSDQRCSMDY--YMQKTYYKTASLISNS 175
L++ +V L+ + ++ ++ G+ + + +++ ++ + +KTA LIS S
Sbjct: 140 LESHIIVELIKILSANGGIKGMILGQALDCY-FENTPLNLEQLTFLHE--HKTAKLISAS 196
Query: 176 CKAIALLAGQTAEVAILAFD-YGKNLGLAYQLIDDVLDFTGTSASLGKGSLSDIRHGIIT 234
+ +G E +G +GL +Q++DD++D T GK + D +
Sbjct: 197 LIMGLVASGIKDEELFKWLQAFGLKMGLCFQVLDDIIDVTQDEEESGKTTHLDS--AKNS 254
Query: 235 APILFAMEEFPQLRTVVEQGFEDSSNVDIALEYLGKSRGIQKTRELAVKHANLAAAAIDS 294
L G+++ A +D+
Sbjct: 255 FVNLL---------------------------------GLERANNYAQTLKTEVLNDLDA 281
Query: 295 LPENNDEDVTKSRRALLD-LTHRVITRNK 322
L + L+ L + +
Sbjct: 282 LKPAYPLL-----QENLNALLNTLFKGEG 305
>4f62_A Geranyltranstransferase; enzyme function initiative, structural
genomics; 2.10A {Marinomonas SP}
Length = 317
Score = 115 bits (289), Expect = 6e-30
Identities = 80/328 (24%), Positives = 127/328 (38%), Gaps = 77/328 (23%)
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--LDDADTRRGIGSLNFVMGNKVLAVLAGDFLLSRACVALASLK 124
E IH SL+HDD+ +D+ + RRG + + A+LAGD L + A L++
Sbjct: 72 AALESIHAYSLIHDDLPAMDNDELRRGKPTCHIQFDEAT-AILAGDALQTFAFELLSNPT 130
Query: 125 NT------EVVTLLATV--VEHLVTGETMQMTTSSDQRCSMDY--YMQKTYYKTASLISN 174
+ +++ L ++TG+ + ++ S ++ S+ M +KT +LI
Sbjct: 131 SAQPELAIKLIQELVVASGRNGMITGQMIDLS-SENKNISLAELEQMHV--HKTGALIKA 187
Query: 175 SCKAIALLAGQTAEVAILAFD-YGKNLGLAYQLIDDVLDFTGTSASLGKGSLSDIRHGII 233
S + AL GQ + D Y +GLA+Q+ DD++D T + +LGK SD
Sbjct: 188 SVRMGALSTGQVKPEQLAKLDAYAHAIGLAFQVQDDIIDLTSDTETLGKTQFSDAEANKA 247
Query: 234 TAPILFAMEEFPQLRTVVEQGFEDSSNVDIALEYLGKSRGIQKTRELAVKHANLAAAAID 293
T P L G+ + L V+ A A I
Sbjct: 248 TYPKLL---------------------------------GLDGAKALVVRLHEQAIAQIS 274
Query: 294 SLPENNDEDVTKSRRALLDLTHRVITRN 321
+ + L DL + +I RN
Sbjct: 275 EFGDKSQ--------PLTDLANYIIDRN 294
>2h8o_A Geranyltranstransferase; geranyltransferase,agrobacterium
tumefaciens, structural GEN PSI-2, protein structure
initiative; 1.60A {Agrobacterium tumefaciens}
Length = 335
Score = 114 bits (288), Expect = 1e-29
Identities = 73/328 (22%), Positives = 118/328 (35%), Gaps = 77/328 (23%)
Query: 7 PKLASAAEYFFKMGVEGKRFRPTVLLLMATALNVRVPEPLHDGVEDALATELRTRQQCIA 66
L A + G GKR RP L++ + + E L +
Sbjct: 71 QNLLEAMRHGVLNG--GKRLRP--FLVIESVALLGGDA------EAGLH---------VG 111
Query: 67 EITEMIHVASLLHDDV--LDDADTRRGIGSLNFVMGNKVLAVLAGDFLLSRACVALASLK 124
E +H SL+HDD+ +DD D RRG +++ A+LAGD LL+ A +AS
Sbjct: 112 AALECLHCYSLVHDDLPAMDDDDLRRGQPTVHRKFDEAT-AILAGDSLLTLAFDIIASDD 170
Query: 125 NT-------EVVTLLATVV--EHLVTGETMQMTTSSDQRCSMDY--YMQKTYYKTASLIS 173
N +V LA + G+ + + + + D +Q KT +L+
Sbjct: 171 NPLAAERKAALVISLARAAGIGGMAGGQALDLA-AEKKAPDEDGIITLQA--MKTGALLR 227
Query: 174 NSCKAIALLAGQTAEVAILAFDYGKNLGLAYQLIDDVLDFTGTSASLGKGSLSDIRHGII 233
+C+A A++AG +G+ +GL++QL DD+LD T +A++GK + D G
Sbjct: 228 FACEAGAIIAGSNQAERQRLRLFGEKIGLSFQLADDLLDLTADAATMGKATGKDAARGKG 287
Query: 234 TAPILFAMEEFPQLRTVVEQGFEDSSNVDIALEYLGKSRGIQKTRELAVKHANLAAAAID 293
T L G RE + A+ +
Sbjct: 288 TLVALR---------------------------------GEAWAREKLQEQVAEASELLA 314
Query: 294 SLPENNDEDVTKSRRALLDLTHRVITRN 321
E L+ + R
Sbjct: 315 PYGEKAA--------ILIAAARFIAERK 334
>3lom_A Geranyltranstransferase; geranyltransferase, structural genomics,
PSI, protein structure initiative, nysgrc; 2.30A
{Legionella pneumophila subsp}
Length = 313
Score = 113 bits (286), Expect = 1e-29
Identities = 70/330 (21%), Positives = 119/330 (36%), Gaps = 78/330 (23%)
Query: 7 PKLASAAEYFFKMGVEGKRFRPTVLLLMATALNVRVPEPLHDGVEDALATELRTRQQCIA 66
P++ SA Y G GKR RP +L+ + V + IA
Sbjct: 36 PQIRSALHYALFSG--GKRIRP--ILVYLAGDLIDVDQ------GVLDI---------IA 76
Query: 67 EITEMIHVASLLHDDV--LDDADTRRGIGSLNFVMGNKVLAVLAGDFLLSRACVALASLK 124
E+ H SL+HDD+ +D+ D RRG S + A+L GD + + A L
Sbjct: 77 AALELTHCYSLIHDDLPAMDNDDLRRGKPSCHKAFDEAT-AILVGDGMQALAIEVLLMRL 135
Query: 125 NT--------EVVTLLATV--VEHLVTGETMQMTTSSDQRCSMD--YYMQKTYYKTASLI 172
+ + +L + +V+G+++ ++ + + + + KT LI
Sbjct: 136 SPLLPAAQVVAITQVLVNASGISGMVSGQSLDLSELAKSSVTEEQLREIHL--LKTGKLI 193
Query: 173 SNSCKAIALLAGQTAEVAILAFD-YGKNLGLAYQLIDDVLDFTGTSASLGKGSLSDIRHG 231
+ + + +E A YGK++GL +Q+ DD LD + LGKG SD +
Sbjct: 194 LACFEMVLAAQHEVSEQIKSALRTYGKHIGLVFQMQDDYLDLYAPTQILGKGRSSDQANQ 253
Query: 232 IITAPILFAMEEFPQLRTVVEQGFEDSSNVDIALEYLGKSRGIQKTRELAVKHANLAAAA 291
T LF Q+ E H +A +
Sbjct: 254 KTTFATLF---------------------------------NKQQLEEEIAVHYQIAMDS 280
Query: 292 IDSLPENNDEDVTKSRRALLDLTHRVITRN 321
+ AL++LT ++ R+
Sbjct: 281 LRLFGSKAA--------ALIELTKQLQNRS 302
>3ts7_A Geranyltranstransferase; isoprenoid synthesis, farnesyl diphosphate
synthase; 1.94A {Methylococcus capsulatus}
Length = 324
Score = 113 bits (286), Expect = 2e-29
Identities = 78/330 (23%), Positives = 113/330 (34%), Gaps = 79/330 (23%)
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--LDDADTRRGIGSLNFVMGNKVLAVLAGDFLLSRACVALASLK 124
E IHV SL+HDD+ +DD D RRG + + A+LAGD L + A LA
Sbjct: 77 CAVEFIHVYSLIHDDLPAMDDDDLRRGKPTCHKAYDEAT-AILAGDGLQALAFHVLAQDP 135
Query: 125 NT--------EVVTLLATVV--EHLVTGETMQMTTSSDQRCSMDY--YMQKTYYKTASLI 172
+ ++ LA +V G+ + + S ++ + M KT +LI
Sbjct: 136 SIAVPAENRIAMIETLAKASGPAGMVGGQAIDLA-SVGKKLDLPGLENMHI--RKTGALI 192
Query: 173 SNSCKAIALLAGQTAEVAILAFD-YGKNLGLAYQLIDDVLDFTGTSASLGKGSLSDIRHG 231
S + L D Y K +GLA+Q+ DD+LD + +LGK D H
Sbjct: 193 RASVRLACLARPGLPAEQFDRLDHYAKCIGLAFQIQDDILDEESDTQTLGKTRGKDRDHN 252
Query: 232 IITAPILFAMEEFPQLRTVVEQGFEDSSNVDIALEYLGKSRGIQKTRELAVKHANLAAAA 291
P L G+ +E A + A +
Sbjct: 253 KPNYPALL---------------------------------GLSGAKEKAEEMHEAALES 279
Query: 292 IDSLPENNDEDVTKSRRALLDLTHRVITRN 321
+ D L +L +I R
Sbjct: 280 LAGFGPEAD--------LLRELARFIIQRQ 301
>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 = 113 bits (284), Expect = 3e-29
Identities = 83/330 (25%), Positives = 124/330 (37%), Gaps = 79/330 (23%)
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--LDDADTRRGIGSLNFVMGNKVLAVLAGDFLLSRACVALASLK 124
E+IH SL+HDD+ +DD D RRG + + A+LAGD L S A AL
Sbjct: 71 CAVELIHAYSLVHDDLPAMDDDDLRRGQPTTHKAFDEAC-AILAGDGLQSLAFSALLDPA 129
Query: 125 NTEV--------VTLLATVV--EHLVTGETMQMTTSSDQRCSMD--YYMQKTYYKTASLI 172
++ VT LA +V G+ + + S + YM + +KT +LI
Sbjct: 130 LSDASAEIRLRMVTTLAQAAGPAGMVGGQAIDLG-SVGLKLDQQALEYMHR--HKTGALI 186
Query: 173 SNSCKAIALLAGQTAEVAILAFD-YGKNLGLAYQLIDDVLDFTGTSASLGKGSLSDIRHG 231
S AL +G+ + + A Y + +GLA+Q+ DD+LD +A+LGK +DI
Sbjct: 187 EASVILGALASGRAEKGELKALQTYAQAIGLAFQVQDDILDVESDTATLGKRQGADIARD 246
Query: 232 IITAPILFAMEEFPQLRTVVEQGFEDSSNVDIALEYLGKSRGIQKTRELAVKHANLAAAA 291
T P L G+ +E A++ + A A
Sbjct: 247 KPTYPALL---------------------------------GLAAAKEYALELRDQALHA 273
Query: 292 IDSLPENNDEDVTKSRRALLDLTHRVITRN 321
+ + L +L ++ R
Sbjct: 274 LRPFDAAAE--------PLRELARYIVERR 295
>1rtr_A Geranyltranstransferase; 2.50A {Staphylococcus aureus} SCOP:
a.128.1.1
Length = 301
Score = 112 bits (282), Expect = 5e-29
Identities = 76/327 (23%), Positives = 124/327 (37%), Gaps = 74/327 (22%)
Query: 7 PKLASAAEYFFKMGVEGKRFRPTVLLLMATALNVRVPEPLHDGVEDALATELRTRQQCIA 66
+L + Y G GKR RP +LL+ T ++ L AL
Sbjct: 28 TQLEESMLYSLNAG--GKRIRP--VLLLLTLDSLNTEYELGMKSAIAL------------ 71
Query: 67 EITEMIHVASLLHDDV--LDDADTRRGIGSLNFVMGNKVLAVLAGDFLLSRACVALASLK 124
EMIH SL+HDD+ +D+ D RRG + + V G A+LAGD LL++A ++S
Sbjct: 72 ---EMIHTYSLIHDDLPAMDNDDYRRGKLTNHKVYGEWT-AILAGDALLTKAFELISSDD 127
Query: 125 NT------EVVTLLATV--VEHLVTGETMQMTTSSDQRCSMD--YYMQKTYYKTASLISN 174
+V+ L+ +V G+ + M S Q ++ + K KT +L++
Sbjct: 128 RLTDEVKIKVLQRLSIASGHVGMVGGQMLDMQ-SEGQPIDLETLEMIHK--TKTGALLTF 184
Query: 175 SCKAIALLAGQTAEVAILAFDYGKNLGLAYQLIDDVLDFTGTSASLGKGSLSDIRHGIIT 234
+ + A +A Y +LG+ +Q+ DD+LD G A LGK SD+ + T
Sbjct: 185 AVMSAADIANVDDTTKEHLESYSYHLGMMFQIKDDLLDCYGDEAKLGKKVGSDLENNKST 244
Query: 235 APILFAMEEFPQLRTVVEQGFEDSSNVDIALEYLGKSRGIQKTRELAVKHANLAAAAIDS 294
L G + H + A +
Sbjct: 245 YVSLL---------------------------------GKDGAEDKLTYHRDAAVDELTQ 271
Query: 295 LPENNDEDVTKSRRALLDLTHRVITRN 321
+ E + LL++ +R+
Sbjct: 272 IDEQFNTK------HLLEIVDLFYSRD 292
>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 = 111 bits (281), Expect = 5e-29
Identities = 84/331 (25%), Positives = 135/331 (40%), Gaps = 76/331 (22%)
Query: 7 PKLASAAEYFFKMGVEGKRFRPTVLLLMATALNVRVPEPLHDGVEDALATELRTRQQCIA 66
+ +Y +G GKR RP L+ AT V A A
Sbjct: 30 TPVVETMQYGALLG--GKRLRP--FLVYATGHMFGVST------NTLDAP---------A 70
Query: 67 EITEMIHVASLLHDDV--LDDADTRRGIGSLNFVMGNKVLAVLAGDFLLSRACVALASLK 124
E IH SL+HDD+ +DD D RRG+ + + G A+LAGD L + A L+
Sbjct: 71 AAVECIHAYSLIHDDLPAMDDDDLRRGLPTCHVKFGEAN-AILAGDALQTLAFSILSDAD 129
Query: 125 NTEV--------VTLLATV--VEHLVTGETMQMTTSSDQRCSMDY--YMQKTYYKTASLI 172
EV ++ LA+ + + G+ + + + + +D + + +KT +LI
Sbjct: 130 MPEVSDRDRISMISELASASGIAGMCGGQALDLD-AEGKHVPLDALERIHR--HKTGALI 186
Query: 173 SNSCKAIALLAGQTAEVAILAFD-YGKNLGLAYQLIDDVLDFTGTSASLGKGSLSDIRHG 231
+ + AL AG A+ D Y +++GLA+Q+ DD+LD G +A+LGK +D + G
Sbjct: 187 RAAVRLGALSAGDKGRRALPVLDKYAESIGLAFQVQDDILDVVGDTATLGKRQGADQQLG 246
Query: 232 IITAPILFAMEEFPQLRTVVEQGFEDSSNVDIALEYLGKSRGIQKTRELAVKHANLAAAA 291
T P L G+++ R+ A + A +
Sbjct: 247 KSTYPALL---------------------------------GLEQARKKARDLIDDARQS 273
Query: 292 IDSLPENNDEDVTKSRRALLDLTHRVITRNK 322
+ L E + + AL L +I RNK
Sbjct: 274 LKQLAEQSLDT-----SALEALADYIIQRNK 299
>3p8r_A Geranyltranstransferase; isoprenyl synthase, structural genomics,
PSI, protein struct initiative, nysgrc; 2.50A {Vibrio
cholerae}
Length = 302
Score = 111 bits (280), Expect = 7e-29
Identities = 72/330 (21%), Positives = 122/330 (36%), Gaps = 79/330 (23%)
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--LDDADTRRGIGSLNFVMGNKVLAVLAGDFLLSRACVALASLK 124
E IH SL+HDD+ +DD + RRG + + A+L GD L + A LA
Sbjct: 77 SAVECIHAYSLIHDDLPAMDDDELRRGKPTCHIQFDEAT-AILTGDALQTLAFTILAEGD 135
Query: 125 NT--------EVVTLLATV--VEHLVTGETMQMTTSSDQRCSMDY--YMQKTYYKTASLI 172
+ ++ LA + + G+ + + + ++ S++ + + KT +L+
Sbjct: 136 LSAAGETQRVAMLQALAEASGAQGMCLGQALDLA-AENRLISLEELETIHR--NKTGALM 192
Query: 173 SNSCKAIALLAGQTAEVAILAFD-YGKNLGLAYQLIDDVLDFTGTSASLGKGSLSDIRHG 231
+ + AL AG+ + D Y + +GLA+Q+ DD+LD + +LGK SD
Sbjct: 193 RCAIRLGALAAGEKGRAMLPHLDRYAEAVGLAFQVQDDILDIISDTETLGKPQGSDQELN 252
Query: 232 IITAPILFAMEEFPQLRTVVEQGFEDSSNVDIALEYLGKSRGIQKTRELAVKHANLAAAA 291
T P L G++ ++ A A A
Sbjct: 253 KSTYPALL---------------------------------GLEGAQQKAHTLLQEALLA 279
Query: 292 IDSLPENNDEDVTKSRRALLDLTHRVITRN 321
++++P N + L + V+ R
Sbjct: 280 LEAIPYNTE--------HLEEFARYVVERK 301
>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 = 110 bits (278), Expect = 1e-28
Identities = 74/313 (23%), Positives = 112/313 (35%), Gaps = 77/313 (24%)
Query: 23 GKRFRPTVLLLMATALNVRVPEPLHDGVEDALATELRTRQQCIAEITEMIHVASLLHDDV 82
GKR R L + +A + A+ E +H SL+HDD+
Sbjct: 41 GKRLRA--FLAIESAAIHGISMAQAMPAALAV---------------EALHAYSLVHDDM 83
Query: 83 --LDDADTRRGIGSLNFVMGNKVLAVLAGDFLLSRACVALASLKNT------EVVTLLAT 134
+D+ D RRG+ +++ + AVLAGD L + A +V LA
Sbjct: 84 PCMDNDDLRRGLPTVHKKWDDAT-AVLAGDALQTLAFELCTDPVLGSAENRVALVAALAQ 142
Query: 135 V--VEHLVTGETMQMT-TSSDQRCSMDY--YMQKTYYKTASLISNSCKAIALLAGQTAEV 189
E +V G+ + + ++ ++D +Q KT +LIS + +A A+LAG A+
Sbjct: 143 ASGAEGMVYGQALDIAAETAAVPLTLDEIIRLQA--GKTGALISFAAQAGAILAG--ADR 198
Query: 190 AILAFDYGKNLGLAYQLIDDVLDFTGTSASLGKGSLSDIRHGIITAPILFAMEEFPQLRT 249
L Y LGLA+Q+ DD+LD G + GK D T L
Sbjct: 199 GPLT-AYATALGLAFQIADDILDVEGNEEAAGKRLGKDAEAHKATFVSLL---------- 247
Query: 250 VVEQGFEDSSNVDIALEYLGKSRGIQKTRELAVKHANLAAAAIDSLPENNDEDVTKSRRA 309
G+ + A A AA+ E
Sbjct: 248 -----------------------GLAGAKSRAADLVAEAEAALAPYGEAAS--------T 276
Query: 310 LLDLTHRVITRNK 322
L VI R+K
Sbjct: 277 LRACARYVIERDK 289
>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 = 107 bits (270), Expect = 3e-27
Identities = 69/326 (21%), Positives = 114/326 (34%), Gaps = 70/326 (21%)
Query: 7 PKLASAAEYFFKMGVEGKRFRPTVLLLMATALNVRVPEPLHDGVEDALATELRTRQQCIA 66
+LA+A Y G GKR RP LL +AT ++ V +A E
Sbjct: 34 AQLAAAMTYSVLAG--GKRLRP--LLTVATMQSLGVTFVPERHWRPVMALE--------- 80
Query: 67 EITEMIHVASLLHDDV--LDDADTRRGIGSLNFVMGNKVLAVLAGDFLLSRA--CVALAS 122
++H SL+HDD+ +D+ RRG + + G + A LAGD LL+ A +
Sbjct: 81 ----LLHTYSLIHDDLPAMDNDALRRGEPTNHVKFGAGM-ATLAGDGLLTLAFQWLTATD 135
Query: 123 LKNTEVVTLLATV-----VEHLVTGETMQMTTSSDQRCSMDY--YMQKTYYKTASLISNS 175
L T L+ + +V G+ + S + + K KT +L+ +
Sbjct: 136 LPATMQAALVQALATAAGPSGMVAGQAKDIQ-SEHVNLPLSQLRVLHK--EKTGALLHYA 192
Query: 176 CKAIALLAGQTAEVAILAFDYGKNLGLAYQLIDDVLDFTGTSASLGKGSLSDIRHGIITA 235
+A +L + GLA+Q+ DD+LD + A +GK + D T
Sbjct: 193 VQAGLILGQAPEAQWPAYLQFADAFGLAFQIYDDILDVVSSPAEMGKATQKDADEAKNTY 252
Query: 236 PILFAMEEFPQLRTVVEQGFEDSSNVDIALEYLGKSRGIQKTRELAVKHANLAAAAIDSL 295
P G+ + + + AA+ L
Sbjct: 253 PGKL---------------------------------GLIGANQALIDTIHSGQAALQGL 279
Query: 296 PENNDEDVTKSRRALLDLTHRVITRN 321
P + T+ ++ R
Sbjct: 280 PTS-----TQRDDLAAFFSYFDTERV 300
>3npk_A Geranyltranstransferase; isoprene biosynthesis, SGX, structural
genomics protein structure initiative; 1.50A
{Campylobacter jejuni}
Length = 291
Score = 106 bits (268), Expect = 4e-27
Identities = 72/327 (22%), Positives = 128/327 (39%), Gaps = 75/327 (22%)
Query: 7 PKLASAAEYFFKMGVEGKRFRPTVLLLMATALNVRVPEPLHDGVEDALATELRTRQQCIA 66
P A K G GK FR LL++ + + + + AL A
Sbjct: 25 PFFNEALALMLKAG--GKHFRA--QLLLSVVQSNKP-----ELLNQALDV---------A 66
Query: 67 EITEMIHVASLLHDDV--LDDADTRRGIGSLNFVMGNKVLAVLAGDFLLSRA--CVALAS 122
E IH SL+HDD+ +D+AD RRGI +L+ + A+L GD L + A ++ A
Sbjct: 67 LALEFIHTYSLIHDDLPAMDNADFRRGIPTLHKSYD-ETTAILVGDALNTEAFLVLSHAH 125
Query: 123 LKNTEVVTLLATV-----VEHLVTGETMQMTTSSDQRCSMD--YYMQKTYYKTASLISNS 175
LK+ + L+ T+ + +V G+ + D+R S++ ++ +KTA LI+ +
Sbjct: 126 LKDEIKIKLIKTLAFNAGLNGMVIGQAIDCF-FEDKRLSLNELEFLHT--HKTARLIAAA 182
Query: 176 CKAIALLAGQTAEVAILAFDYGKNLGLAYQLIDDVLDFTGTSASLGKGSLSDIRHGIITA 235
K + E + + G LGL +Q+ DD++D T + GK + +DI +
Sbjct: 183 LKMGCEICELNNEESNQIYKLGLKLGLIFQINDDIIDVTTSQEQSGKPTNNDI--HKNSF 240
Query: 236 PILFAMEEFPQLRTVVEQGFEDSSNVDIALEYLGKSRGIQKTRELAVKHANLAAAAIDSL 295
L G+++ + N ++ L
Sbjct: 241 VNLL---------------------------------GLEQAIKTKENLLNECEQDLEKL 267
Query: 296 PENNDEDVTKSRRALLDLTHRVITRNK 322
E K + + +L + + +
Sbjct: 268 NE-------KLAQMIQNLIIQYLEGHH 287
>3p8l_A Geranyltranstransferase; isoprenyl synthase, structural genomics,
PSI, protein struct initiative, nysgrc; 2.00A
{Enterococcus faecalis}
Length = 302
Score = 106 bits (268), Expect = 5e-27
Identities = 82/305 (26%), Positives = 125/305 (40%), Gaps = 66/305 (21%)
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--LDDADTRRGIGSLNFVMGNKVLAVLAGDFLLSRA--CVALAS 122
EMIH SL+HDD+ +DD D RRG + + V G A+LAGD LL+ A ++L+
Sbjct: 78 ASLEMIHTYSLIHDDLPAMDDDDLRRGKPTNHKVFGEAT-AILAGDGLLTGAFQLLSLSQ 136
Query: 123 LKNTEVVTLLATV-----VEHLVTGETMQMTTSSDQRCSMD--YYMQKTYYKTASLISNS 175
L +E V L+ + + +V+G+ + +++ + + KT +LI +
Sbjct: 137 LGLSEKVLLMQQLAKAAGNQGMVSGQMGDIE-GEKVSLTLEELAAVHE--KKTGALIEFA 193
Query: 176 CKAIALLAGQTAEVAILAFDYGKNLGLAYQLIDDVLDFTGTSASLGKGSLSDIRHGIITA 235
A +LA QT EV L + + GLA+Q+ DD+LD T T A LGK D T
Sbjct: 194 LIAGGVLANQTEEVIGLLTQFAHHYGLAFQIRDDLLDATSTEADLGKKVGRDEALNKSTY 253
Query: 236 PILFAMEEFPQLRTVVEQGFEDSSNVDIALEYLGKSRGIQKTRELAVKHANLAAAAIDSL 295
P L GI ++ +A ++ +
Sbjct: 254 PALL---------------------------------GIAGAKDALTHQLAEGSAVLEKI 280
Query: 296 PENND 300
N
Sbjct: 281 KANVP 285
>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 = 96.6 bits (241), Expect = 1e-23
Identities = 36/238 (15%), Positives = 76/238 (31%), Gaps = 39/238 (16%)
Query: 7 PKLASAAEYFFKMGVEGKRFRPTVLLLMATALNVRVPEPLHDGVEDALATELRTRQQCIA 66
+ + + L +A E + DA+A A
Sbjct: 31 ESVFEPMHHLTFAA--PRTSAS--ALCVAAC------ELVGGDRSDAMAA---------A 71
Query: 67 EITEMIHVASLLHDDVLDDADTRRGIGSLNFVMGNKVLAVLAGDFLLSRACVALASLKNT 126
++HVA+ H++ L D + + +L GD ++ +A +
Sbjct: 72 AAVHLMHVAAYTHEN-LPLTDGPMSKSEIQHKFDPNI-ELLTGDGIIPFGLELMARSMDP 129
Query: 127 ---------EVVTLLATVV--EHLVTGETMQMTTSSDQRCSMDY--YMQKTYYKTASLIS 173
+ L V+ E +V G+ ++ +Q ++ Y+ K K +L +
Sbjct: 130 TRNNPDRILRAIIELTRVMGSEGIVEGQYHEL--GLNQLNDLELIEYVCK--KKEGTLHA 185
Query: 174 NSCKAIALLAGQTAEVAILAFDYGKNLGLAYQLIDDVLD-FTGTSASLGKGSLSDIRH 230
A+L G + +G +G L+ F G L + ++ ++
Sbjct: 186 CGAACGAILGGCDEDKIEKLRRFGLYVGTVQGLLGKNRSGFEGRIKELKELAVKELES 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 = 94.2 bits (235), Expect = 1e-22
Identities = 70/227 (30%), Positives = 104/227 (45%), Gaps = 38/227 (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--LDDADTRRGIGSLNFVMGNKVLAVLAGDFLLSRACVALASLK 124
EMIH SL+HDD+ +D+ D RRG + + V G V AVLAGD LLS A LAS
Sbjct: 79 CAVEMIHTMSLIHDDLPCMDNDDLRRGKPTNHKVYGEDV-AVLAGDALLSFAFEHLASAT 137
Query: 125 NTEV--------VTLLATVV--EHLVTGET--MQMTTSSDQRCSMDY--YMQKTYYKTAS 170
++EV V LA + E LV G+ + +++ ++ +KTA+
Sbjct: 138 SSEVSPARVVRAVGELAKAIGTEGLVAGQVVDISSEGLDLNNVGLEHLKFIHL--HKTAA 195
Query: 171 LISNSCKAIALLAGQTAEVAILAFDYGKNLGLAYQLIDDVLDFTGTS 217
L+ S ++ G + E + + +GL +Q++DD+LD T +S
Sbjct: 196 LLEASAVLGGIIGGGSDEEIERLRKFARCIGLLFQVVDDILDVTKSS 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 = 86.6 bits (215), Expect = 8e-20
Identities = 43/250 (17%), Positives = 83/250 (33%), Gaps = 50/250 (20%)
Query: 23 GKRFRPTVLLLMATALNVRVPEPLHDGVEDALATELRTRQQCIAEITEMIHVASLLHDDV 82
L +A E + A+A A ++H A+ +H+ +
Sbjct: 40 PATAAS--TLCLAAC------ELVGGDRSQAMAA---------AAAIHLVHAAAYVHEHL 82
Query: 83 -LDDADTRRGIGSLNFVMGNKVLAVLAGDFLLSRACVALASLKNT----------EVVTL 131
L D ++ G V +L GD ++ LA + V+
Sbjct: 83 PLTDGSRPVSKPAIQHKYGPNV-ELLTGDGIVPFGFELLAGSVDPARTDDPDRILRVIIE 141
Query: 132 LATVV--EHLVTGETMQMTTSSDQRCSMDY--YMQKTYYKTASLISNSCKAIALLAGQTA 187
++ E +++G + D S+D+ Y+ K K + + A+L G
Sbjct: 142 ISRAGGPEGMISGLHREEE-IVDGNTSLDFIEYVCK--KKYGEMHACGAACGAILGGAAE 198
Query: 188 EVAILAFDYGKNLGL---------AYQLIDDVLD---FTGTSASLGK--GSLSDIRHGII 233
E ++G G ++QLID+ + LG G +++ ++
Sbjct: 199 EEIQKLRNFGLYQGTLRGMMEMKNSHQLIDENIIGKLKELALEELGGFHGKNAELMSSLV 258
Query: 234 TAPILFAMEE 243
P L+A
Sbjct: 259 AEPSLYAAHH 268
>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 = 83.3 bits (205), Expect = 1e-18
Identities = 57/224 (25%), Positives = 92/224 (41%), Gaps = 26/224 (11%)
Query: 7 PKLASAAEYFFKMGVEGKRFRPTVLLLMATALNVRVPEPLHDGVEDALATELRTRQQCIA 66
A Y +G G R RP ++L + L V L +A
Sbjct: 32 LLTEEAMLYSATVG--GXRIRPLLVLTLGEDLGVEEEXLLD-----------------VA 72
Query: 67 EITEMIHVASLLHDDV--LDDADTRRGIGSLNFVMGNKVLAVLAGDFLLSRACVALASLK 124
E+ H ASL+HDD+ +D+AD RRG S + G + +A+LAGD L A ++ +
Sbjct: 73 VAVELFHTASLIHDDLPPIDNADFRRGXPSCHRTYG-EDIALLAGDGLFFLAFSQISXIG 131
Query: 125 NTEVVTLLATVVEHLVTGETMQMTTSSD-QRCSMDYYMQKTYYKTASLISNSCKAIALLA 183
N+ + + L+ GE M + S + + + T +L + A +L
Sbjct: 132 NSXIFEEFSETAYXLLLGEAMDVEFERRXMEVSQEMVERMYAFXTGALFAFCFSAPFILX 191
Query: 184 GQTAEVAILAFDYGKNLGLAYQLIDDVLDFTGTSASLGKGSLSD 227
G G+ G+A+Q+ DD+ D G+ +GK D
Sbjct: 192 GXDHTXMX---LLGEXFGVAFQIYDDLXDILGSFEKVGKDLGKD 232
>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 = 63.7 bits (154), Expect = 2e-11
Identities = 51/380 (13%), Positives = 100/380 (26%), Gaps = 143/380 (37%)
Query: 23 GKRFRPTVLLLMATALNVRVPEPLHDGVEDALATELRTRQQCIAEITEMI----HVASLL 78
P +L M L ++ + + +LR AE+ ++ + LL
Sbjct: 190 KNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRI-HSIQAELRRLLKSKPYENCLL 248
Query: 79 HDDVLDDADTRRGIGSLNFVMGNKVLAVLAGDFLLSR-ACVA----------------LA 121
VL + + + N K+L L +R V
Sbjct: 249 ---VLLNVQNAKAWNAFNL--SCKIL-------LTTRFKQVTDFLSAATTTHISLDHHSM 296
Query: 122 SLKNTEVVTLLATVVEHLVTGETMQMTTSSDQRCSM------------DYYMQKTYYKTA 169
+L EV +LL ++ ++ T++ +R S+ D + K
Sbjct: 297 TLTPDEVKSLLLKYLDCRPQDLPREVLTTNPRRLSIIAESIRDGLATWDNWKHVNCDKLT 356
Query: 170 SLISNSCKAIALLAGQTAEVAILAFDYGKNLGLAYQLI----DDVLDFTGTSASLGKGSL 225
++I +S + +L + + + +
Sbjct: 357 TIIESS-------------LNVLEPAEYRKM---FDRLSVFPPSAH-------------- 386
Query: 226 SDIRHGIITAPIL-------------FAMEEFPQLRTVVEQGFEDSSNV-DIALEYLGKS 271
I +L + + + V +Q E + ++ I LE
Sbjct: 387 -------IPTILLSLIWFDVIKSDVMVVVNKLHKYSLVEKQPKESTISIPSIYLELK--- 436
Query: 272 RGIQKTRELAVKHANLAAAAIDS------------LPENND-----------------ED 302
K H ++ +D +P D E
Sbjct: 437 ---VKLENEYALHRSI----VDHYNIPKTFDSDDLIPPYLDQYFYSHIGHHLKNIEHPER 489
Query: 303 VTKSRRALLDLTHRVITRNK 322
+T R LD R + K
Sbjct: 490 MTLFRMVFLDF--RFL-EQK 506
>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 = 47.7 bits (113), Expect = 3e-06
Identities = 47/321 (14%), Positives = 89/321 (27%), Gaps = 120/321 (37%)
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 VEDALATELRTRQQCIAEITEMIHVASLLHDDVLDDADTRRGIGSLNFVMGNKVLAVLAG 109
+E+ + M+ +++L + V D + N + L
Sbjct: 328 LENNEGVP-----------SPMLSISNLTQEQVQDY------VNKTN--------SHLPA 362
Query: 110 DFLLSRACVALASLKNTE---VVT----LLATVVEHLVTGETMQMTTSSDQ--------- 153
+ SL N VV+ L + L + + DQ
Sbjct: 363 GKQVE------ISLVNGAKNLVVSGPPQSLYGLNLTL---RKAKAPSGLDQSRIPFSERK 413
Query: 154 -RCSMDY----------YMQKTYYKTASLISNSCKAIALLAGQTAEVAILAFDYGKNL-- 200
+ S + + + + + K + ++ + G +L
Sbjct: 414 LKFSNRFLPVASPFHSHLLVPA---SDLINKDLVKNNVSFNAKDIQIPVYDTFDGSDLRV 470
Query: 201 ---GLAYQLIDD------------------VLDFTGTSASLGKGSL-SDIRHG----IIT 234
++ +++D +LDF G + G G L + G +I
Sbjct: 471 LSGSISERIVDCIIRLPVKWETTTQFKATHILDF-GPGGASGLGVLTHRNKDGTGVRVIV 529
Query: 235 APILFAMEEFPQLRTVVEQGF 255
A ++ P + GF
Sbjct: 530 A---GTLDINPDD----DYGF 543
Score = 42.0 bits (98), Expect = 2e-04
Identities = 42/241 (17%), Positives = 77/241 (31%), Gaps = 62/241 (25%)
Query: 2 VVAEVPKLASAAEYFFKMGVEGKRFRPTVLLLMATALNVRVPEPLHDGVEDALATELRTR 61
+V P + +F G +GKR R ++ E + DG
Sbjct: 1664 IVINNPV--NLTIHF--GGEKGKRIRENYSAMIF--------ETIVDGKLKT-------- 1703
Query: 62 QQCIAEITEMIHVASLLHD-DVLDD-ADTRRGIGSLNFVMGNKVLAVLAGDFLLSRACV- 118
++ EI E + + +L T+ + +M L L+
Sbjct: 1704 EKIFKEINEHSTSYTFRSEKGLLSATQFTQPAL----TLMEKAAFEDLKSKGLIPADATF 1759
Query: 119 ---------ALASLKNTEVVTLLATVVEHLVT--GETMQMTTSSDQRCSMDYYM------ 161
ALASL +V+++ + V +V G TMQ+ D+ +Y M
Sbjct: 1760 AGHSLGEYAALASL--ADVMSIESLV--EVVFYRGMTMQVAVPRDELGRSNYGMIAINPG 1815
Query: 162 QKTYYKTASLISNSCKAIALLAGQTAEVA---------ILAFDYGKNLGLAYQLIDDVLD 212
+ + + + + G E+ + A G L + +VL+
Sbjct: 1816 RVAASFSQEALQYVVERVGKRTGWLVEIVNYNVENQQYVAA---GDLRAL--DTVTNVLN 1870
Query: 213 F 213
F
Sbjct: 1871 F 1871
Score = 39.3 bits (91), Expect = 0.002
Identities = 21/122 (17%), Positives = 43/122 (35%), Gaps = 38/122 (31%)
Query: 219 SLGKGSLSDIRHGIITAPILFAM-----EEFPQLRTVVEQGF----EDSSNVDIALEYLG 269
+L GS + H ++ F + E+F ++ +GF E ++ ++ ++LG
Sbjct: 10 TLSHGS---LEHVLLVPTASFFIASQLQEQFNKILPEPTEGFAADDEPTTPAELVGKFLG 66
Query: 270 -----KSRGIQKTRELAVK----------------HANLAAAAIDSLPENNDEDVTKSRR 308
+ + HA LAA L + ND + K++
Sbjct: 67 YVSSLVEPSKVGQFDQVLNLCLTEFENCYLEGNDIHA-LAA----KLLQENDTTLVKTKE 121
Query: 309 AL 310
+
Sbjct: 122 LI 123
>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 = 31.4 bits (71), Expect = 0.46
Identities = 13/39 (33%), Positives = 20/39 (51%), Gaps = 2/39 (5%)
Query: 133 ATVVEHLVT-GETMQMTTSSDQRCSMDYYMQKTYYKTAS 170
A V++ L+ G + +TTS + DYY Q Y K +
Sbjct: 491 AEVLQGLLQGGAKVVVTTSRFSKQVTDYY-QSIYAKYGA 528
>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 = 3.5
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
>1ofd_A Ferredoxin-dependent glutamate synthase 2; oxidoreductase, complex
enzyme, substrate channeling, amidotransferase,
flavoprotein, iron-sulphur; HET: FMN AKG; 2.00A
{Synechocystis SP} SCOP: b.80.4.1 c.1.4.1 d.153.1.1 PDB:
1llz_A* 1lm1_A* 1llw_A* 1ofe_A*
Length = 1520
Score = 28.3 bits (64), Expect = 4.3
Identities = 13/40 (32%), Positives = 16/40 (40%), Gaps = 1/40 (2%)
Query: 229 RHGIITAPILFAMEEFPQLRTVVEQGFEDSSNVDIALEYL 268
R + E L +V Q DS N+D ALE L
Sbjct: 243 REKELEVSGWTK-AELEALTPIVNQANSDSYNLDSALELL 281
>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 = 6.1
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
>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 = 27.3 bits (60), Expect = 6.3
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
>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 = 8.1
Identities = 7/41 (17%), Positives = 15/41 (36%), Gaps = 3/41 (7%)
Query: 176 CKAIALLAGQTAEVAILAFD---YGKNLGLAYQLIDDVLDF 213
A+ + +TA + G + L +L + + F
Sbjct: 85 SIALLRIDDKTAVLKKFFTYPKYRGNPVRLGRKLFERFMLF 125
>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 = 8.7
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
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
0.319 0.133 0.364
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: 4,816,752
Number of extensions: 302367
Number of successful extensions: 773
Number of sequences better than 10.0: 1
Number of HSP's gapped: 590
Number of HSP's successfully gapped: 66
Length of query: 322
Length of database: 6,701,793
Length adjustment: 94
Effective length of query: 228
Effective length of database: 4,077,219
Effective search space: 929605932
Effective search space used: 929605932
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 (21.8 bits)
S2: 57 (25.8 bits)