RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= 016097
(395 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 = 450 bits (1160), Expect = e-159
Identities = 275/345 (79%), Positives = 315/345 (91%)
Query: 51 SQEQLDPFSLVADELSILAKRLRSMVVAEVPKLASAAEYFFKMGVEGKRFRPTVLLLMAT 110
+E+LDPFSLVADELS+L+ +LR MV+AEVPKLASAAEYFFK GV+GK+FR T+LLLMAT
Sbjct: 4 VEEELDPFSLVADELSLLSNKLREMVLAEVPKLASAAEYFFKRGVQGKQFRSTILLLMAT 63
Query: 111 ALNVRVPEPLHDGVEDALATELRTRQQCIAEITEMIHVASLLHDDVLDDADTRRGIGSLN 170
AL+VRVPE L D + +ELR RQ+ IAEITEMIHVASLLHDDVLDDADTRRG+GSLN
Sbjct: 64 ALDVRVPEALIGESTDIVTSELRVRQRGIAEITEMIHVASLLHDDVLDDADTRRGVGSLN 123
Query: 171 FVMGNKLAVLAGDFLLSRACVALASLKNTEVVTLLATVVEHLVTGETMQMTTSSDQRCSM 230
VMGNK++VLAGDFLLSRAC ALA+LKNTEVV LLAT VEHLVTGETM++T+S++QR SM
Sbjct: 124 VVMGNKMSVLAGDFLLSRACGALAALKNTEVVALLATAVEHLVTGETMEITSSTEQRYSM 183
Query: 231 DYYMQKTYYKTASLISNSCKAIALLAGQTAEVAILAFDYGKNLGLAYQLIDDVLDFTGTS 290
DYYMQKTYYKTASLISNSCKA+A+L GQTAEVA+LAF+YG+NLGLA+QLIDD+LDFTGTS
Sbjct: 184 DYYMQKTYYKTASLISNSCKAVAVLTGQTAEVAVLAFEYGRNLGLAFQLIDDILDFTGTS 243
Query: 291 ASLGKGSLSDIRHGIITAPILFAMEEFPQLRTVVEQGFEDSSNVDIALEYLGKSRGIQKT 350
ASLGKGSLSDIRHG+ITAPILFAMEEFPQLR VV+Q +D NVDIALEYLGKS+GIQ+
Sbjct: 244 ASLGKGSLSDIRHGVITAPILFAMEEFPQLREVVDQVEKDPRNVDIALEYLGKSKGIQRA 303
Query: 351 RELAVKHANLAAAAIDSLPENNDEDVTKSRRALLDLTHRVITRNK 395
RELA++HANLAAAAI SLPE ++EDV +SRRAL+DLTHRVITRNK
Sbjct: 304 RELAMEHANLAAAAIGSLPETDNEDVKRSRRALIDLTHRVITRNK 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 = 292 bits (751), Expect = 2e-97
Identities = 88/356 (24%), Positives = 153/356 (42%), Gaps = 27/356 (7%)
Query: 42 ADSSVKDTDSQEQLDPFSLVADELSILAKRLRSMVVAEVPKLASAAEYFFKMGVEGKRFR 101
A + ++ F V +L+ L L V + + K G GK R
Sbjct: 2 AHHHHHHSLDRQLWRQFPQVEPQLTALQDYLLRTVQLDNQPIHHKILALLKSG--GKLLR 59
Query: 102 PTVLLLMATALNVRVPEPLHDGVEDALATELRTRQQCIAEITEMIHVASLLHDDVLDDAD 161
P L +T N P L A E++HV +L+HDDV+DD+
Sbjct: 60 PGYFYLFSTFGNAATPAQLQA----------------GAAAIEILHVGTLIHDDVIDDSP 103
Query: 162 TRRGIGSLNFVMGNKLAVLAGDFLLSRA-CVALASLKNTEVVTLLATVVEHLVTGETMQM 220
TRRG+ ++ G + A+ AGDF+ + L S + ++ + ++ GE QM
Sbjct: 104 TRRGVRTIQMTYGQRNAIYAGDFMFTVYFDQVLKSTTDRSLIQNHIDAMHRILQGELHQM 163
Query: 221 TTSSDQRCSMDYYMQKTYYKTASLISNSCKAIALLAGQTAEVAILAFDYGKNLGLAYQLI 280
+ + ++D Y+ + KTA L + SC A LAG V D G +G AYQ++
Sbjct: 164 DLNYREDITLDAYLNEIAGKTAELFALSCYQGAQLAGAPQSVIDRTRDIGIAIGCAYQML 223
Query: 281 DDVLDFTGTSASLGKGSLSDIRHGIITAPILFAMEEFP--QLRTVVEQGFEDSSNVDIAL 338
DD+LD+ G K L D+R G+ + P+L ++ P + + ++ ++
Sbjct: 224 DDILDYAGDPKRTQKPVLEDLRSGVYSLPLLLSLSHAPRDFHKLLKKKQAMTLEDIKHVQ 283
Query: 339 EYLGKSRGIQKTRELAVKHANLAAAAIDSLPENNDEDVTKSRRALLDLTHRVITRN 394
+ + G+ ++LA + + A I LP ++++L LT ++ R+
Sbjct: 284 ALVAQYDGVGAAKQLAQDYTDRALTLIQQLPVG------SAQQSLEQLTRLLLRRD 333
>3aqb_B Component B of hexaprenyl diphosphate synthase; prenyltransferase,
transferase; 2.40A {Micrococcus luteus} PDB: 3aqc_B*
Length = 325
Score = 283 bits (727), Expect = 5e-94
Identities = 90/346 (26%), Positives = 160/346 (46%), Gaps = 31/346 (8%)
Query: 55 LDPFSLVADELSILAKRLRSMVVAEVPKLASAAEYFFKMGVEGKRFRPTVLLLMATALNV 114
L + + + + KRL + ++ + AA + G GKR RP +LL +
Sbjct: 4 LSYKAFLNPYIIEVEKRLYECIQSDSETINKAAHHILSSG--GKRVRPMFVLLSGFLNDT 61
Query: 115 RVPEPLHDGVEDALATELRTRQQCIAEITEMIHVASLLHDDVLDDADTRRGIGSLNFVMG 174
+ + + A E++H+ASL+HDD +D++D RRG S++
Sbjct: 62 QKDDLIR-----------------TAVSLELVHMASLVHDDYIDNSDMRRGNTSVHIAFD 104
Query: 175 NKLAVLAGDFLLSRACVALASLKNTEVVTLLATVVEHLVTGETMQMTTSSDQRCSMDYYM 234
A+ G FLL+RA +A++ N++ + + + + GE QM + S Y+
Sbjct: 105 KDTAIRTGHFLLARALQNIATINNSKFHQIFSKTILEVCFGEFDQMADRFNYPVSFTAYL 164
Query: 235 QKTYYKTASLISNSCKAIALLAGQTAEVAILAFDYGKNLGLAYQLIDDVLDFTGTSASLG 294
++ KTA LI SC AL + + +G +G++YQ+IDD+LD+T A+LG
Sbjct: 165 RRINRKTAILIEASCHLGALSSQLDEQSTYHIKQFGHCIGMSYQIIDDILDYTSDEATLG 224
Query: 295 KGSLSDIRHGIITAPILFAM-----EEFPQLRTVVEQGFEDSS-NVDIALEYLGKSRGIQ 348
K SDIR+G IT P++ A+ ++ +L VV+ S V + K GI+
Sbjct: 225 KPVGSDIRNGHITYPLMAAIANLKEQDDDKLEAVVKHLTSTSDDEVYQYIVSQVKQYGIE 284
Query: 349 KTRELAVKHANLAAAAIDSLPENNDEDVTKSRRALLDLTHRVITRN 394
L+ K+ + A + L ++ + L ++ +++ R
Sbjct: 285 PAELLSRKYGDKAKYHLSQLQDS------NIKDYLEEIHEKMLKRV 324
>3oyr_A Trans-isoprenyl diphosphate synthase; isoprenyl synthase, PSI,
protein structure initiative; HET: IPE; 2.00A
{Caulobacter crescentus}
Length = 345
Score = 284 bits (728), Expect = 8e-94
Identities = 101/370 (27%), Positives = 167/370 (45%), Gaps = 32/370 (8%)
Query: 29 LLSGASHSAAAAAADSSVKDTDSQEQLDPFSLVADELSILAKRLRSMVVAEVPKLASAAE 88
+ H + AAA + + + S ++L L +++ + + + + ++V + + AE
Sbjct: 1 MAHHHHHHSLDAAAATLPRKSGSVDRL--VRLAEADMAGVNRLITDRMQSDVAIIPALAE 58
Query: 89 YFFKMGVEGKRFRPTVLLLMATALNVRVPEPLHDGVEDALATELRTRQQCIAEITEMIHV 148
+ G GKR RP + + A +A E IH
Sbjct: 59 HLIAAG--GKRLRPLMTVAAARLAGADNDHFQK-----------------LAAAVEFIHT 99
Query: 149 ASLLHDDVLDDADTRRGIGSLNFVMGNKLAVLAGDFLLSRACVALASLKNTEVVTLLATV 208
A+LLHDDV+D + RRG + + + G +VL GDFL +RA + + + + +LA
Sbjct: 100 ATLLHDDVVDGSQLRRGKVAAHLIWGGAQSVLVGDFLFARAFELMVETNSMKALEILARA 159
Query: 209 VEHLVTGETMQMTTSSDQRCSMDYYMQKTYYKTASLISNSCKAIALLAGQTAEVAILAFD 268
+ GE +Q+ S D S Y++ KTA L + + +A A+ AG + D
Sbjct: 160 SRVIAEGEVLQLMRSHDLNLSQAVYLEIIQAKTAELFAAASEAGAVSAGVDVAKSEALRD 219
Query: 269 YGKNLGLAYQLIDDVLDFTGTSASLGKGSLSDIRHGIITAPILFAM-----EEFPQLRTV 323
YG NLGLA+QL DD LD+ G + +LGK + D R G T P+L A+ E
Sbjct: 220 YGLNLGLAFQLADDALDYGGATETLGKNAGDDFREGKATLPLLLAIARSGPREAEFWERA 279
Query: 324 VEQGFEDSSNVDIALEYLGKSRGIQKTRELAVKHANLAAAAIDSLPENNDEDVTKSRRAL 383
+ + + ++ A E + S + T +LA +A+ A AA+ P N R AL
Sbjct: 280 IGRREQTEADFRRARELIIGSGALDATLDLAADYADKAKAALAMFPAN------DWREAL 333
Query: 384 LDLTHRVITR 393
+L ++R
Sbjct: 334 EELADFAVSR 343
>3rmg_A Octaprenyl-diphosphate synthase; structural genomics, protein
structure initiative, isoprene biosynthesis,
transferase; 2.30A {Bacteroides thetaiotaomicron}
Length = 334
Score = 281 bits (720), Expect = 9e-93
Identities = 89/343 (25%), Positives = 154/343 (44%), Gaps = 31/343 (9%)
Query: 58 FSLVADELSILAKRLRSMVVAEVPKLASAAEYFFKMGVEGKRFRPTVLLLMATALNVRVP 117
+ + EL + + L S + K GK RP ++LL+A P
Sbjct: 10 KTPIEAELEDFKALFDTPLSDSNALLDSVITHIRKRN--GKMMRPILVLLVARLYGAVTP 67
Query: 118 EPLHDGVEDALATELRTRQQCIAEITEMIHVASLLHDDVLDDADTRRGIGSLNFVMGNKL 177
LH A E++H ASL+HDDV+D++ RRG S+N + NK+
Sbjct: 68 ATLH-----------------AAVSLELLHTASLVHDDVVDESTERRGQLSVNAIFNNKV 110
Query: 178 AVLAGDFLLSRACVALASLKNTEVVTLLATVVEHLVTGETMQMTTSSDQRCSMDYYMQKT 237
+VLAGD+LL+ + V N E++ L++++ + L GE +Q++ S+ S + Y
Sbjct: 111 SVLAGDYLLATSLVHAEQTNNYEIIRLVSSLGQKLAEGELLQLSNVSNHSFSEEVYFDVI 170
Query: 238 YYKTASLISNSCKAIALLAGQTAEVAILAFDYGKNLGLAYQLIDDVLDFTGTSASLGKGS 297
KTA+L + +A AL E A G+ +G+ +Q+ DD+ D+ S +GK +
Sbjct: 171 RKKTAALFAACAEAAALSVQVGEEEVAFARLLGEYIGICFQIKDDIFDYFD-SKKIGKPT 229
Query: 298 LSDIRHGIITAPILFAM-----EEFPQLRTVVEQGFEDSSNVDIALEYLGKSRGIQKTRE 352
+D+ G +T P L+A+ Q+ V++G + +E+ + GI+
Sbjct: 230 GNDMLEGKLTLPALYALNTTKDAWAEQIAFKVKEGTATPDEIVRLIEFTKDNGGIEYACR 289
Query: 353 LAVKHANLAAAAIDSLPENNDEDVTKSRRALLDLTHRVITRNK 395
++ A + +LP++ AL V+ R K
Sbjct: 290 TIEQYKKKAFDLLAALPDS------NICLALRTYLDYVVAREK 326
>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 = 274 bits (702), Expect = 1e-89
Identities = 96/378 (25%), Positives = 168/378 (44%), Gaps = 36/378 (9%)
Query: 20 GRRWLPSHPLLSGASHSAAAAAADSSVKDTDSQEQLDPFSLVADELSILAKRLRSMVVAE 79
R +P+ G + A+ D +L + + D + + + L + + +
Sbjct: 5 SGRTVPTRSHGLGKEGVSTTGASQVEFGD----PEL--TARINDAMVQVEELLHTELSSG 58
Query: 80 VPKLASAAEYFFKMGVEGKRFRPTVLLLMATALNVRVPEPLHDGVEDALATELRTRQQCI 139
L + + G GKRFRP LL + + E +
Sbjct: 59 EDFLVDIVMHLTRAG--GKRFRPMFALLASEFGEKPLSENVIKA---------------- 100
Query: 140 AEITEMIHVASLLHDDVLDDADTRRGIGSLNFVMGNKLAVLAGDFLLSRACVALASLKNT 199
A + E+ H+A+L HDDV+D+A RRG+ S N N +A+LAGD LL+ A ++ L
Sbjct: 101 AVVVEITHLATLYHDDVMDEASMRRGVPSANARWDNSVAILAGDILLAHASGLMSQLGT- 159
Query: 200 EVVTLLATVVEHLVTGETMQMTTSSDQRCSMDYYMQKTYYKTASLISNSCKAIALLAGQT 259
+ V A LVTG+ + D +++Y KT LI+++ A+ AG
Sbjct: 160 DTVAHFAETFGELVTGQMRETVGPRDTD-PIEHYTNVIREKTGVLIASAGYLGAMHAGAA 218
Query: 260 AEVAILAFDYGKNLGLAYQLIDDVLDFTGTSASLGKGSLSDIRHGIITAPILFAM----E 315
E ++G +G+ +Q++DD++D + GK +D+R G+ T P+L+A+
Sbjct: 219 PEHIDALKNFGAAVGMIFQIVDDIIDIFSETHESGKTPGTDLREGVFTLPVLYALREDTP 278
Query: 316 EFPQLRTVVEQGFEDSSNVDIALEYLGKSRGIQKTRELAVKHANLAAAAIDSLPENNDED 375
+LR ++ ED V+ LE L +S G Q + ++ ++A A +D LP++
Sbjct: 279 VGAELRDILTGPLEDDETVNHVLELLSQSGGRQAALDEVYRYMDIANAELDRLPDS---- 334
Query: 376 VTKSRRALLDLTHRVITR 393
+ AL +L + R
Sbjct: 335 --TVKEALRNLATFTVKR 350
>3mzv_A Decaprenyl diphosphate synthase; transferase, structural genomics,
PSI-2, protein structure initiative; 1.90A {Rhodobacter
capsulatus}
Length = 341
Score = 268 bits (687), Expect = 1e-87
Identities = 98/355 (27%), Positives = 175/355 (49%), Gaps = 33/355 (9%)
Query: 47 KDTDSQEQLDPFSLVADELSILAKRLRSMVVAE-VPKLASAAEYFFKMGVEGKRFRPTVL 105
K T ++L +A++++ + +R + +E P++ + + G GKR RP +
Sbjct: 6 KATKPHDRL--AQALAEDMAAVNALIRERMSSEHAPRIPEVTAHLIEAG--GKRLRPMLT 61
Query: 106 LLMATALNVRVPEPLHDGVEDALATELRTRQQCIAEITEMIHVASLLHDDVLDDADTRRG 165
L A + P +H +A E IH A+LLHDDV+D++ RRG
Sbjct: 62 LAAARLVGYGGPFHVH-----------------LAATVEFIHTATLLHDDVVDESRQRRG 104
Query: 166 IGSLNFVMGNKLAVLAGDFLLSRACVALASLKNTEVVTLLATVVEHLVTGETMQMTTSSD 225
+ N + NK +VL GD+L +R+ + N V+ +LA + GE +Q+T + +
Sbjct: 105 RPTANLLWDNKSSVLVGDYLFARSFQLMTDTGNMRVMEILANASAVIAEGEVLQLTAAQN 164
Query: 226 QRCSMDYYMQKTYYKTASLISNSCKAIALLAGQTAEVAILAFDYGKNLGLAYQLIDDVLD 285
+ D Y++ KTA+L S + + ++ G + FDYG LG+A+Q++DD+LD
Sbjct: 165 LATTEDIYLRVIRGKTAALFSAATEVGGIIGGAPEDQVQALFDYGDALGIAFQIVDDLLD 224
Query: 286 FTGTSASLGKGSLSDIRHGIITAPILFAM-----EEFPQLRTVVEQGFEDSSNVDIALEY 340
+ G SA +GK + D R +T P++ A+ E + V+E+G + +++ A+
Sbjct: 225 YGGKSAEIGKNTGDDFRERKLTMPVIKAVALADEAERAFWKRVIEKGDQQDGDLEHAMAL 284
Query: 341 LGKSRGIQKTRELAVKHANLAAAAIDSLPENNDEDVTKSRRALLDLTHRVITRNK 395
+ K ++ TR A+ + A A+ LP++ R+ L DL V+ R +
Sbjct: 285 MTKHGTLEATRLAAIGWTDTARKALAKLPDH------PLRQMLDDLADYVVERVR 333
>3tc1_A Octaprenyl pyrophosphate synthase; all alpha-helices fold,
transferase; 2.00A {Helicobacter pylori}
Length = 315
Score = 249 bits (637), Expect = 1e-80
Identities = 84/341 (24%), Positives = 137/341 (40%), Gaps = 41/341 (12%)
Query: 60 LVADELSILAKRLRS-MVVAEVPKLASAAEYFFKMGVEGKRFRPTVLLLMATALNVRVPE 118
+ +L + ++ S + E + R + + LL + + +
Sbjct: 1 MQEKQLKAIQNKIASWIKEIESGFIDELFSKIGPSK--MLRSKLMLALLNEKTDAILLDK 58
Query: 119 PLHDGVEDALATELRTRQQCIAEITEMIHVASLLHDDVLDDADTRRGIGSLNFVMGNKLA 178
L+ + I EMI ASLLHDDV+D A RR + S+N + GN A
Sbjct: 59 ALN-----------------LCTIVEMIQTASLLHDDVIDKATMRRKLPSINALFGNFNA 101
Query: 179 VLAGDFLLSRACVALASLKNTEVVTLLATVVEHLVTGETMQMTTSSDQRCSMDYYMQKTY 238
V+ GD S+A L+ + + L+ V L GE + Y +
Sbjct: 102 VMLGDVFYSKAFFELSKMGE-LIAQALSNAVLRLSRGEIEDVFVGECFNSDKQKYWRILE 160
Query: 239 YKTASLISNSCKAIALLAGQTAEVAILAFDYGKNLGLAYQLIDDVLDFTGTSASLGKGSL 298
KTA I S K++A+L + A++ D+G N G+A+Q+IDD+LD T + +LGK +
Sbjct: 161 DKTAHFIEASLKSMAILLNKDAKI---YADFGLNFGMAFQIIDDLLDITQDAKTLGKPNF 217
Query: 299 SDIRHGIITAPILFAM-----EEFPQLRTVVEQGFEDSSNVDIALEYLGKSRGIQKTREL 353
SD + G T P L + L + +Q ++ E + I++T +
Sbjct: 218 SDFKEGKTTLPYLLLYEKLNQHDQGLLISYFKQD--SHEIIEWTKEKFKQYGIIEETLKT 275
Query: 354 AVKHANLAAAAIDSLPENNDEDVTKSRRALLDLTHRVITRN 394
A ++ A AI L L VI+R
Sbjct: 276 AQVYSKKALEAIKGEN----------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 = 244 bits (625), Expect = 5e-79
Identities = 70/316 (22%), Positives = 136/316 (43%), Gaps = 31/316 (9%)
Query: 55 LDPFSLVADELSILAKRLRSMVVAEVPKLASAAEYFFKMGVEGKRFRPTVLLLMATALNV 114
+ + + EL + +R+ ++ P+ + GK R + +L V
Sbjct: 3 KNKLNQNSYELEKVKERIEQILSQFFPEQI---MKDLPLY--GKMLRVRLSILSFKNRGV 57
Query: 115 RVPEPLHDGVEDALATELRTRQQCIAEITEMIHVASLLHDDVLDDADTRRGIGSLNFVMG 174
+ E E++H+ASLLHDDV+D A RRG ++NF+ G
Sbjct: 58 EIGEDAIS----------------SLAALELVHLASLLHDDVIDGARFRRGKETINFMYG 101
Query: 175 NKLAVLAGDFLLSRACVALASLKNTEVVTLLATVVEHLVTGETMQMTTSSDQRCSMDYYM 234
+K AV AGD +L A + + N ++ V+ + E ++ + + + Y+
Sbjct: 102 DKAAVAAGDLVLVSAFHTVEEIGNNKLRRAFLNVIGKMSEAELIEQLSRYKP-ITKEEYL 160
Query: 235 QKTYYKTASLISNSCKAIALLAGQTAEVAILAFDYGKNLGLAYQLIDDVLDFTGTSASLG 294
+ K+ +L + + ALL G+ E ++ G +G YQ+ DD++DF G +G
Sbjct: 161 RIVEGKSGALFGLALQLPALLEGELGED---LYNLGVTIGTIYQMFDDIMDFAGM-EKIG 216
Query: 295 KGSLSDIRHGIITAPILFAMEEFPQLRTVVEQGFEDSSNVDIALEYLGKSRGIQKTRELA 354
K D+++G+ + P++ AME+FP+ R + E + + ++ + +++ E
Sbjct: 217 KDGFLDLKNGVASFPLVTAMEKFPEARQMFENR-----DWSGLMSFMREKGILKECEETL 271
Query: 355 VKHANLAAAAIDSLPE 370
L +
Sbjct: 272 KVLVKNVIIENSWLRD 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 = 236 bits (604), Expect = 9e-76
Identities = 65/329 (19%), Positives = 118/329 (35%), Gaps = 34/329 (10%)
Query: 72 LRSMVVAEVPKLASAAEYFFKMGVEGKRFRPTVLLLMATALNVRVPEPLHDGVEDALATE 131
+ L +Y ++ GK+ R + L V PE
Sbjct: 2 MEKTQETVQRILLEPYKYLLQLP--GKQVRTKLSQAFNHWLKV--PEDKLQ--------- 48
Query: 132 LRTRQQCIAEITEMIHVASLLHDDVLDDADTRRGIGSLNFVMGNKLAVLAGDFLLSRACV 191
I E+TEM+H ASLL DD+ D++ RRG + + G + + +++
Sbjct: 49 ------IIIEVTEMLHNASLLIDDIEDNSKLRRGFPVAHSIYGIPSVINSANYVYFLGLE 102
Query: 192 ALASLKNTEVVTLLATVVEHLVTGETMQMTTSSDQRC-SMDYYMQKTYYKTASLISNSCK 250
+ +L + + V L + L G+ + + + C + + Y KT L +
Sbjct: 103 KVLTLDHPDAVKLFTRQLLELHQGQGLDIYWRDNYTCPTEEEYKAMVLQKTGGLFGLAVG 162
Query: 251 AIALLAGQTAEVAILAFDYGKNLGLAYQLIDDVLDFTGTSASLGKGSLSDIRHGIITAPI 310
+ L + ++ LGL +Q+ DD + S K D+ G + P
Sbjct: 163 LMQLFSDYKEDLK----PLLNTLGLFFQIRDDYANLHSKEYSENKSFCEDLTEGKFSFPT 218
Query: 311 LFAMEEFP---QLRTVVEQGFEDSSNVDIALEYLGKSRGIQKTRELAVKHANLAAAAIDS 367
+ A+ P Q++ ++ Q E+ + YL + TR + A ID+
Sbjct: 219 IHAIWSRPESTQVQNILRQRTENIDIKKYCVHYLEDVGSFEYTRNTLKELEAKAYKQIDA 278
Query: 368 LPENNDEDVTKSRRALLD-LTHRVITRNK 395
N AL+ L+ N+
Sbjct: 279 RGGN------PELVALVKHLSKMFKEENE 301
>1wy0_A Geranylgeranyl pyrophosphate synthetase; pyrococcus horikosh
structural genomics, riken structural
genomics/proteomics initiative, RSGI; 2.20A {Pyrococcus
horikoshii}
Length = 342
Score = 230 bits (588), Expect = 6e-73
Identities = 87/359 (24%), Positives = 150/359 (41%), Gaps = 47/359 (13%)
Query: 58 FSLVADELSILAKRLRS-MVVAEVPKLASAAEYFFKMGVEGKRFRPTVLLLMATALNVRV 116
F+ + ++ ++ +++ + + L AA ++ G GKR RP V+L A+
Sbjct: 8 FARIKEKAKLIDEKIFELIPEKDPRVLYEAARHYPLAG--GKRVRPFVVLTSTEAVGGDP 65
Query: 117 PEPLHDGVEDALATELRTRQQCIAEITEMIHVASLLHDDVLDDADTRRGIGSLNFVMGNK 176
++ A E+IH SL+HDD++D +TRRG +++ + G
Sbjct: 66 LRAIY-----------------PAVAIELIHNYSLVHDDIMDMDETRRGKPTVHRIWGVN 108
Query: 177 LAVLAGDFLLSRACVALASL-----KNTEVVTLLATVVEHLVTGETMQMTTSSDQRCSMD 231
+A+LAGD L S+A A+A K V+ ++ L G+ + +++
Sbjct: 109 MAILAGDLLFSKAFEAVARAEIPPEKKARVLEVIVKASNELCEGQARDLEFEKKSTVTIE 168
Query: 232 YYMQKTYYKTASLISNSCKAIALLAGQTAEVAILAFDYGKNLGLAYQLIDDVLDFTGTSA 291
YM+ KT +L S K ++ E +G+N+G+A+Q+ DDVLD
Sbjct: 169 EYMEMISGKTGALFEASAKVGGIIGTDNEEYIKALSSWGRNVGIAFQIWDDVLDLIADEK 228
Query: 292 SLGKGSLSDIRHGIITAPILFAME-----EFPQLRTVVEQGFEDSS-----------NVD 335
LGK SDIR G T + E + + + + D +V
Sbjct: 229 KLGKPVGSDIRKGKKTLIVAHFFENADEKDKQRFLKIFGKYAGDVKGRGIIEEDIKSDVM 288
Query: 336 IALEYLGKSRGIQKTRELAVKHANLAAAAIDSLPENNDEDVTKSRRALLDLTHRVITRN 394
A++ L K I E+A A A+ LP++ K+R L L ++ R
Sbjct: 289 EAIDLLKKYGSIDYAAEIAKDMIKKANEALRILPKS------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 = 225 bits (576), Expect = 1e-71
Identities = 74/332 (22%), Positives = 127/332 (38%), Gaps = 59/332 (17%)
Query: 63 DELSILAKRLRS-MVVAEVPKLASAAEYFFKMGVEGKRFRPTVLLLMATALNVRVPEPLH 121
+E + ++ + + E P L E+ G GKR RP +LLL++ + L+
Sbjct: 9 EEYRYVEAGIKESITLIEDPGLKKMVEHVCHSG--GKRIRPIILLLVSEICSGSYSRSLN 66
Query: 122 DGVEDALATELRTRQQCIAEITEMIHVASLLHDDVLDDADTRRGIGSLNFVMGNKLAVLA 181
A EM+H ASL+HDD+LD RR + S G A+L
Sbjct: 67 -----------------AALAVEMMHSASLIHDDLLDQGLVRRNLPSAPEKFGPSGALLC 109
Query: 182 GDFLLSRACVALASLKNTEVVTLLATVVEHLVTGETMQMTTSSDQRCSMDYYMQKTYYKT 241
GD+L++++ ++ +V+ + GE + + D+ + Y + Y KT
Sbjct: 110 GDYLIAKSIAFISPYGE-KVIQDFGKAGMDMAEGEVLDL-KLEDESFGENDYFKCIYKKT 167
Query: 242 ASLISNSCKAIALLAGQTAEVAILAFDYGKNLGLAYQLIDDVLDFTGTSASLGKGSLSDI 301
ASL + S A G E+A +G LG AYQ++DD+L+F GK +
Sbjct: 168 ASLFAISASIGAYTGGAEEELAERFSHFGNALGTAYQIVDDILEFLEVVE--GK----ES 221
Query: 302 RHGIITAPILFAMEEFPQLRTVVEQGFEDSSNVDIALEYLGKSRGIQKTRELAVKHANLA 361
+ T P ++ K ++K+ + H A
Sbjct: 222 KFTSETLPHIYMKST-------------------------SKEEALKKSIDCVKLHVAAA 256
Query: 362 AAAIDSLPENNDEDVTKSRRALLDLTHRVITR 393
+++ E +R L +T +
Sbjct: 257 KETLETFREC------PARDKLFQITDYITVD 282
>3nf2_A Putative polyprenyl synthetase; isoprenyl diphosphate synthase,
structural genomics, PSI, PR structure initiative,
nysgrc; 2.20A {Streptomyces coelicolor}
Length = 352
Score = 223 bits (570), Expect = 5e-70
Identities = 72/360 (20%), Positives = 135/360 (37%), Gaps = 40/360 (11%)
Query: 50 DSQEQLDPFSLVADELSILAKRLRSMVVAEVPKLASAAEYFFKMGVEGKRFRPTVLLLMA 109
+ P ++ + LA + ++ + + G GK RP + +L A
Sbjct: 11 RGRTLATP--VLRAAVDRLAPPMDTVAAYHFGWIDAQGNPADGDG--GKAVRPALAVLSA 66
Query: 110 TALNVRVPEPLHDGVEDALATELRTRQQCIAEITEMIHVASLLHDDVLDDADTRRGIGSL 169
E + A E++H SLLHDD++D + RR ++
Sbjct: 67 EVTG--------AAPEVGVPG---------AVAVELVHNFSLLHDDLMDGDEQRRHRDTV 109
Query: 170 NFVMGNKLAVLAGDFLLSRAC---VALASLKNTEVVTLLATVVEHLVTGETMQMTTSSDQ 226
V G A+L GD L + A + L +++ L L+ G+ ++
Sbjct: 110 WKVHGPAQAILVGDALFALANEVLLELGTVEAGRATRRLTKASRSLIDGQAQDISYEHRD 169
Query: 227 RCSMDYYMQKTYYKTASLISNSCKAIALLAGQTAEVAILAFDYGKNLGLAYQLIDDVLDF 286
R S++ ++ KT +L++ + A+L G A YG +LGLA+Q +DD+L
Sbjct: 170 RVSVEECLEMEGNKTGALLACASSIGAVLGGADERTADTLEKYGYHLGLAFQAVDDLLGI 229
Query: 287 TGTSASLGKGSLSDIRHGIITAPILFAME-----------EFPQLRTVVEQGFEDSSNVD 335
G + GK + SD+R + P++ A+ +
Sbjct: 230 WGDPDATGKQTWSDLRQRKKSLPVVAALAAGGAASERLGEILTADAKASDFANFSEEEFA 289
Query: 336 IALEYLGKSRGIQKTRELAVKHANLAAAAIDSLPENNDEDVTKSRRALLDLTHRVITRNK 395
+ ++ G + T + A + +A A+D++ + R L V+ R +
Sbjct: 290 ARAALIEEAGGREWTADEARRQHTIAIEALDAVDMPDR-----VRDRFTALADFVVVRKR 344
>4dhd_A Polyprenyl synthetase; isoprenoid synthesis, isoprenoid diphosphate
synthase, trans; 1.65A {Pyrobaculum calidifontis}
Length = 358
Score = 222 bits (569), Expect = 8e-70
Identities = 78/356 (21%), Positives = 141/356 (39%), Gaps = 48/356 (13%)
Query: 59 SLVADELSILAKRLRSMVVAEVPK-LASAAEYFFKMGVEGKRFRPTVLLLMATALNVRVP 117
L + + K L + + + A Y K G GKR RP + L A A++ +
Sbjct: 8 RLHQKYGAEVEKALVRYLSIGLAEDFREAVLYQVKTG--GKRLRPLLTLAAAEAVSGQWR 65
Query: 118 EPLHDGVEDALATELRTRQQCIAEITEMIHVASLLHDDVLDDADTRRGIGSLNFVMGNKL 177
L A I E+IH SL++DD++D D RRG+ ++ G+
Sbjct: 66 PALP-----------------AAAIVELIHNYSLIYDDIIDRGDVRRGLPTVRKAFGDNA 108
Query: 178 AVLAGDFLLSRACVALASLKNTEVVT-LLATVVEHLVTGETMQMTTSSDQRC-------- 228
A+L G + A+ + +A V++ + GE + + + R
Sbjct: 109 AILVGIWYREAIEEAVLDTPKPTLFAKEVAEVIKAIDEGERLDILFEAAGRSDPYFVQAR 168
Query: 229 ----SMDYYMQKTYYKTASLISNSCKAIALLAGQTAEVAILAFDYGKNLGLAYQLIDDVL 284
++D Y++ KT +LI+ + K L +A A+++G G+A+Q+IDDVL
Sbjct: 169 WREVTLDDYIKMVSLKTGALIAAAAKWGVLSVSDDRGLAEAAWNFGMAAGVAFQIIDDVL 228
Query: 285 DFTGTSASLGKGSLSDIRHGIITAPILFAM------EEFPQLRTVVEQGFEDSSNVDIAL 338
D G GK DI+ ++ E +L ++ + + ++V A+
Sbjct: 229 DIYGDPKKFGKEIGKDIKEHKRGNAVVAVALSHLGEGERRRLLEILAREVVEEADVREAV 288
Query: 339 EYLGKSRGIQKTRELAVKHANLAAAAIDSLPENNDEDVTKSRRALLDLTHRVITRN 394
L ++ LA ++ A + +P N L +L ++ R
Sbjct: 289 ALLDSVGAREEALRLAARYREEAERHLAKIPNN---------GTLKELLDFIVARE 335
>1wmw_A Geranylgeranyl diphosphate synthetase; GGPP, prenyl diphosphate
synthase, structural genom riken structural
genomics/proteomics initiative; 1.55A {Thermus
thermophilus}
Length = 330
Score = 201 bits (514), Expect = 5e-62
Identities = 76/349 (21%), Positives = 131/349 (37%), Gaps = 39/349 (11%)
Query: 60 LVADELSILAKRLRSMVVAEVPKLASAAEYFFKMGVEGKRFRPTVLLLMATALNVRVPEP 119
L +RL + + P + + + G GK R + + A A
Sbjct: 4 APEAIRQALQERLLARLDHPDPLYRDLLQDYPRRG--GKMLRGLLTVYSALAHG------ 55
Query: 120 LHDGVEDALATELRTRQQCIAEITEMIHVASLLHDDVLDDADTRRGIGSLNFVMGNKLAV 179
+E L A E+ L+HDD+ D ++ RRG +L+ + LA+
Sbjct: 56 --APLEAGLE---------AATALELFQNWVLVHDDIEDGSEERRGRPALHRLHPMPLAL 104
Query: 180 LAGDFLLSRACVALA-----SLKNTEVVTLLATVVEHLVTGETMQMTTSSDQRC--SMDY 232
AGD + + LA L EV+ VV G+ + + + +
Sbjct: 105 NAGDAMHAEMWGLLAEGLARGLFPPEVLLEFHEVVRRTAYGQHLDLLWTLGGTFDLRPED 164
Query: 233 YMQKTYYKTASLI-SNSCKAIALLAGQTAEVAILAFDYGKNLGLAYQLIDDVLDFTGTSA 291
Y + +K A + ALLAG+T A + G LG A+Q++DDVL+ G A
Sbjct: 165 YFRMVAHKAAYYTAVAPLRLGALLAGKTPPAAY--EEGGLRLGTAFQIVDDVLNLEGGEA 222
Query: 292 SLGKGSLSDIRHGIITAPILFAME-----EFPQLRTVVEQGFEDSSNVDI--ALEYLGKS 344
GK D+ G T +L +E E + ++ E ++ LE L S
Sbjct: 223 -YGKERAGDLYEGKRTLILLRFLEEAPPEERARALALLALPREAKPEAEVGWLLERLLAS 281
Query: 345 RGIQKTRELAVKHANLAAAAIDSLPENNDEDVTKSRRALLDLTHRVITR 393
R + + A + A +++ ++ ++ L L ++ R
Sbjct: 282 RALAWAKAEAKRLQAEGLALLEAAFQDLPG--KEALDHLRGLLAALVER 328
>2azj_A Geranylgeranyl pyrophosphate synthetase; hexpps,
trans-prenyltransferase; 2.40A {Sulfolobus solfataricus}
PDB: 2azk_A
Length = 289
Score = 199 bits (509), Expect = 9e-62
Identities = 59/304 (19%), Positives = 102/304 (33%), Gaps = 39/304 (12%)
Query: 58 FSLVADELSILAKRLRSMVVAEVPKLASAAEYFFKMGVEGKRFRPTVLLLMATALNVRVP 117
+ + + + + + + + GKRFR T+ + AL +
Sbjct: 12 IEFWLEAKATIDRLIEQFLNSNRDWDLVDISSYILKD--GKRFRGTLNMFFTVALGGDIK 69
Query: 118 EPLHDGVEDALATELRTRQQCIAEITEMIHVASLLHDDVLDDADTRRGIGSLNFVMGNKL 177
+ A E++H ASL D++D TRRG + V GN+
Sbjct: 70 DSYG-----------------GALAIEILHSASLALCDIVDLDATRRGDKAAWVVYGNRK 112
Query: 178 AVLAGDFLLSRACVALASLKNTEVVTLLATVVEHLVTGETMQMTTSSDQRCSMDYYMQKT 237
+ ++L+ A + + + + + + G M +SD Y++
Sbjct: 113 VIFITNYLIPTALRIIQTSYGDDALNTSIELWKDTSVGALRDMYDNSD-------YIRTI 165
Query: 238 YYKTASLISNSCKAIALLAGQTAEVAILAFDYGKNLGLAYQLIDDVLDFTGTSA----SL 293
KT SL S A + + D GK LG+ YQ+IDD +D+
Sbjct: 166 ELKTGSLFKLSTVLSAYASKHYNTKQQML-DVGKYLGIIYQVIDDFVDYKTKKVEEIDGS 224
Query: 294 GKGSLSDIRHGIITAPILFAMEEFPQ-----LRTVVEQGF---EDSSNVDIALEYLGKSR 345
K R G + + E+ Q + + Q E S + L K
Sbjct: 225 AKQLFKYYREGKLEEYVRSVYLEYKQKYDELISNIPFQSKYLSEIRSLPEFLANGLLKEA 284
Query: 346 GIQK 349
I K
Sbjct: 285 NIDK 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 = 193 bits (492), Expect = 1e-58
Identities = 56/353 (15%), Positives = 129/353 (36%), Gaps = 38/353 (10%)
Query: 59 SLVADELSILAKRLRSMVVAEVPKLASAAEYFFKMGVEGKRFRPTVLLLMATALNVRVPE 118
+ + ++ L ++ + GK FR +++ + +N+ +
Sbjct: 4 NKMEAKIDELINNDPVWSSQNESLISKPYNHILLKP--GKNFRLNLIVQINRVMNLPKDQ 61
Query: 119 PLHDGVEDALATELRTRQQCIAEITEMIHVASLLHDDVLDDADTRRGIGSLNFVMGNKLA 178
+++I E++H +SLL DD+ D+A RRG + + + G
Sbjct: 62 LAI-----------------VSQIVELLHNSSLLIDDIEDNAPLRRGQTTSHLIFGVPST 104
Query: 179 VLAGDFLLSRA---CVALASLKN--TEVVTLLATVVEHLVTGETMQMT---TSSDQRCSM 230
+ +++ RA L + + ++T+ + +L G+ + + + +
Sbjct: 105 INTANYMYFRAMQLVSQLTTKEPLYHNLITIFNEELINLHRGQGLDIYWRDFLPEIIPTQ 164
Query: 231 DYYMQKTYYKTASLISNSCKAIALLAGQTAEVAILAFDYGKNLGLAYQLIDDVLDFTGTS 290
+ Y+ KT L + + + L+ + L + LG+ YQ+ DD L+
Sbjct: 165 EMYLNMVMNKTGGLFRLTLRLMEALSPSSHHGHSLV-PFINLLGIIYQIRDDYLNLKDFQ 223
Query: 291 ASLGKGSLSDIRHGIITAPILFAM---------EEFPQLRTVVEQGFEDSSNVDIALEYL 341
S KG DI G ++ PI+ A+ E+ ++ ++ D ++ L
Sbjct: 224 MSSEKGFAEDITEGKLSFPIVHALNFTKTKGQTEQHNEILRILLLRTSDKDIKLKLIQIL 283
Query: 342 GKSRG-IQKTRELAVKHANLAAAAIDSLPENNDEDVTKSRRALLDLTHRVITR 393
+ T+ + N+ ++ + + + L D +I
Sbjct: 284 EFDTNSLAYTKNFINQLVNMIKNDNENKYLPDLASHSDTATNLHDELLYIIDH 336
>4fp4_A Polyprenyl synthetase; isoprenoid synthesis, isoprenoid diphosphate
synthase, trans; HET: GER UNL; 2.00A {Pyrobaculum
calidifontis}
Length = 285
Score = 189 bits (482), Expect = 7e-58
Identities = 66/303 (21%), Positives = 114/303 (37%), Gaps = 36/303 (11%)
Query: 58 FSLVADELSILAKRLRSMV-VAEVPKLASAAEYFFKMGVEGKRFRPTVLLLMATALNVRV 116
V L + RL + E L A ++ + GK RP +LL +++
Sbjct: 7 PPEVLAALERVKARLNKVGEELEPISLRKAVRHYIETP--GKLLRPLLLLTFTYSID--- 61
Query: 117 PEPLHDGVEDALATELRTRQQCIAEITEMIHVASLLHDDVLDDADTRRGIGSLNFVMGNK 176
+ D E A I E++HV SLL DDV+D D RRGI + + G+
Sbjct: 62 ----RRSIMDPRILEA-------AAIVELLHVVSLLQDDVMDQHDQRRGIKTPRAMYGDG 110
Query: 177 LAVLAGDFLLSRACVALASLKNTEVVTLLATVVEHLVTGETMQMTTSSDQRCSMDYYMQK 236
A++A D+L++ + +L +VVT LA V + L G+ + + +
Sbjct: 111 RAIVASDWLIAESIKMAVNL-GADVVTYLADVAQRLSVGQALDLEGE---------RDKA 160
Query: 237 TYYKTASLISNSCKAIALLAGQTAEVAILAFDYGKNLGLAYQLIDDVLDFTGTSASLGKG 296
+KTA LI + ++ G+ + G LG+ YQ DD D K
Sbjct: 161 AEFKTAPLIEAALVMPLVILGRRELIETAK-KLGTKLGILYQYSDDYSDENVERPE-TKS 218
Query: 297 SLSDIRHGIITAPILFAM-----EEFPQLRTVVEQGFEDSSNVDIALEYLGKSRGIQKTR 351
++I G I + ++ ++ + E + V + +
Sbjct: 219 IANEI--GRYLLKIKEHVGDAIAPFERLIKYLIGKALEGTLTVSRTIAENLYFQSHHHHH 276
Query: 352 ELA 354
+
Sbjct: 277 HWS 279
>3lk5_A Geranylgeranyl pyrophosphate synthase; structural genomics, protein
structure initiative, geranylge pyrophosphate synthase;
1.90A {Corynebacterium glutamicum} PDB: 3qqv_A*
Length = 380
Score = 184 bits (470), Expect = 6e-55
Identities = 78/390 (20%), Positives = 140/390 (35%), Gaps = 50/390 (12%)
Query: 38 AAAAADSSVKDTDSQEQLDPFSLVADELSILAKRLR---SMVVAEVPKLASAAEYFFKMG 94
+ S D + +V D L+ + + A V + F G
Sbjct: 2 SLKDVSLSSFDAHDLDLDKFPEVVRDRLTQFLDAQELTIADIGAPVTDAVAHLRSFVLNG 61
Query: 95 VEGKRFRPTVLLLMATALNVRVPEPLHDGVEDALATELRTRQQCIAEITEMIHVASLLHD 154
GKR RP A + + + +E L A E I +L+HD
Sbjct: 62 --GKRIRPLYAWAGFLA--AQGHKNSSEKLESVLD---------AAASLEFIQACALIHD 108
Query: 155 DVLDDADTRRGIGSLNFVM----------------GNKLAVLAGDFLLSRACVALASL-- 196
D++D +DTRRG +++ + G +++LAGD L A L
Sbjct: 109 DIIDSSDTRRGAPTVHRAVEADHRANNFEGDPEHFGVSVSILAGDMALVWAEDMLQDSGL 168
Query: 197 ---KNTEVVTLLATVVEHLVTGETMQMTTSSDQRCSMDYYMQKTYYKTAS-LISNSCKAI 252
+ ++ G+ + + S S++ +KTA+ I+
Sbjct: 169 SAEALARTRDAWRGMRTEVIGGQLLDIYLESHANESVELADSVNRFKTAAYTIARPLHLG 228
Query: 253 ALLAGQTAEVAILAFDYGKNLGLAYQLIDDVLDFTGTSASLGKGSLSDIRHGIITAPILF 312
A +AG + ++ YG ++G+A+QL DD+L G A GK + DIR G T +
Sbjct: 229 ASIAGGSPQLIDALLHYGHDIGIAFQLRDDLLGVFGDPAITGKPAGDDIREGKRTVLLAL 288
Query: 313 AME-----EFPQLRTVVEQGFEDSSNVDI--ALEYLGKSRGIQKTRELAVKHANLAAAAI 365
A++ + + +S DI E++ + ++ + + A +
Sbjct: 289 ALQRADKQSPEAATAIRAGVGKVTSPEDIAVITEHIRATGAEEEVEQRISQLTESGLAHL 348
Query: 366 DSLPENNDEDVTKSRRALLDLTHRVITRNK 395
D + ++ R L L R R +
Sbjct: 349 DDVDIPDE-----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 = 175 bits (445), Expect = 2e-51
Identities = 65/375 (17%), Positives = 122/375 (32%), Gaps = 39/375 (10%)
Query: 38 AAAAADSSVKDTDSQEQLDPFSLVADELSILAKRLRSMVVAEVPKLASAAEYFFKMGVEG 97
A V + + +E + F + +L + V + + G G
Sbjct: 15 ALRNLSPVVVEREREEFVGFFPQIVRDL--TEDGIGHPEVGDAVARLKEVLQYNAPG--G 70
Query: 98 KRFRPTVLLLMATALNVRVPEPLHDGVEDALATELRTRQQCIAEITEMIHVASLLHDDVL 157
K R ++ L+ + + + ALA + E+ ASL+ DD++
Sbjct: 71 KCNRGLTVVAAYRELSGP-GQKDAESLRCALA---------VGWCIELFQAASLVADDIM 120
Query: 158 DDADTRRGIGSLNFVMGNKLAVLAGDFLLSRACVALASL------KNTEVVTLLATVVEH 211
D + TRRG G L + FLL + + ++ L
Sbjct: 121 DQSLTRRGQLCWYKKEGVGLDAINDSFLLESSVYRVLKKYCRQRPYYVHLLELFLQTAYQ 180
Query: 212 LVTGETMQMTTSSDQRC-----SMDYYMQKTYYKTASL--ISNSCKAIALLAGQTAEVAI 264
G+ + + T+ + S + Y YKTA A+ ++ + E
Sbjct: 181 TELGQMLDLITAPVSKVDLSHFSEERYKAIVKYKTAFYSFYLPVAAAMYMVGIDSKEEHE 240
Query: 265 LAFDYGKNLGLAYQLIDDVLDFTGTSASLGK-GSLSDIRHGIITAPILFAMEEF-PQLRT 322
A +G +Q+ DD LD G A G G +DI+ + ++ ++ P+ R
Sbjct: 241 NAKAILLEMGEYFQIQDDYLDCFGDPALTGAVG--TDIQDNKCSWLVVQCLQRVTPEQRQ 298
Query: 323 VVEQ--GFEDSSNVDIALEYLGKSRGIQKTRELAVKHANLAAAAIDSLPENNDEDVTKSR 380
++E G ++ V E ++ I+ +
Sbjct: 299 LLEDNYGRKEPEKVAKVKELYEAVGMRAAFQQYEESSYRRLQELIEKHSNRL------PK 352
Query: 381 RALLDLTHRVITRNK 395
L L ++ R K
Sbjct: 353 EIFLGLAQKIYKRQK 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 = 155 bits (394), Expect = 5e-44
Identities = 66/391 (16%), Positives = 126/391 (32%), Gaps = 41/391 (10%)
Query: 24 LPSHPLLSGASHSAAAAAAD--SSVKDTDSQEQLDPFSLVADELSILAKRLRSMVVAEVP 81
H + D S V + Q+ + FS + L + + +
Sbjct: 6 HHHHSSGRENLYFQGHMNGDQNSDVYAQEKQDFVQHFSQIVRVL--TEDEMGHPEIGDAI 63
Query: 82 KLASAAEYFFKMGVEGKRFRPTVLLLMATALNVRVPEPLHDGVEDALATELRTRQQCIAE 141
+ +G GK R +++ L V + D ++ A +
Sbjct: 64 ARLKEVLEYNAIG--GKYNRGLTVVVAFREL-VEPRKQDADSLQRAWT---------VGW 111
Query: 142 ITEMIHVASLLHDDVLDDADTRRGIGSLNFVMGNKL-AVLAGDFLLSRACVALAS----- 195
E++ L+ DD++D + TRRG G L A+ + L + L
Sbjct: 112 CVELLQAFFLVADDIMDSSLTRRGQICWYQKPGVGLDAINDANLLEACIYRLLKLYCREQ 171
Query: 196 LKNTEVVTLLATVVEHLVTGETMQMTTSSD-----QRCSMDYYMQKTYYKTASLISNSCK 250
++ L G+T+ + T+ R + Y YK+A
Sbjct: 172 PYYLNLIELFLQSSYQTEIGQTLDLLTAPQGNVDLVRFTEKRYKSIVKYKSAFYSFYLPI 231
Query: 251 AIA-LLAGQTAEVAI-LAFDYGKNLGLAYQLIDDVLDFTGTSASLGK-GSLSDIRHGIIT 307
A A +AG E A +G +Q+ DD LD G + GK G +DI+ +
Sbjct: 232 AAAMYMAGIDGEKEHANAKKILLEMGEFFQIQDDYLDLFGDPSVTGKIG--TDIQDNKCS 289
Query: 308 APILFAMEEF-PQLRTVVEQ--GFEDSSNVDIALEYLGKSRGIQKTRELAVKHANLAAAA 364
++ ++ P+ ++++ G +++ V + + + A
Sbjct: 290 WLVVQCLQRATPEQYQILKENYGQKEAEKVARVKALYEELDLPAVFLQYEEDSYSHIMAL 349
Query: 365 IDSLPENNDEDVTKSRRALLDLTHRVITRNK 395
I+ L L ++ R K
Sbjct: 350 IEQYAAPL------PPAVFLGLARKIYKRRK 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 = 154 bits (391), Expect = 2e-43
Identities = 53/380 (13%), Positives = 117/380 (30%), Gaps = 41/380 (10%)
Query: 32 GASHSAAAAAADSSVKDTDSQEQLDPFSLVADELSILAKRLRSMVVAEVPKLASAAEYFF 91
G+SH ++ + F D+ ++ + + EY+
Sbjct: 2 GSSHHHHHHSSGRENLYFQGEYDYTDFINYYDKFKVIVYNVLKKLPLNDEIRKPVIEYYL 61
Query: 92 KM----GVEGKRFRPTVLLLMATALNVRVPEPLHDGVEDALATELRTRQQCIAEITEMIH 147
+GK R +L+L+++ + + + + + E I
Sbjct: 62 NCIDYNVKKGKHIRGKILVLISSLSS----AYSNIKRDSIYL---------LGWVVEAIQ 108
Query: 148 VASLLHDDVLDDADTRRGIGSLNFVMGNKLAVLAGDFLLSRACVALASLKN-------TE 200
L+ DD++D RRG V G A+ FL + + L + +
Sbjct: 109 ALILIADDIMDSGKFRRGAPCWYIVHGQSNAINDIFFLKMLSLSLIFELSSVFGNDIVMK 168
Query: 201 VVTLLATVVEHLVTGETMQMTTSSDQRC--SMDYYMQKTYYKTASLISNSCKAIALLAGQ 258
+ + + V G+ + ++ + + Y KT+ L +
Sbjct: 169 IQKIYNESIFFTVLGQHLDLSYFDLSKADKISERYFSMVEMKTSRYTFYMPVFFGLTLSE 228
Query: 259 ---TAEVAILAFDYGKNLGLAYQLIDDVLDFTGTSASLGKGSLSDIRHGIITAPILFAME 315
++ L LG YQ+ +DV D+ + DI +T P+ + E
Sbjct: 229 IQVSSAQLNLIEAILYKLGEFYQVHNDVSDYLF-----NDSNADDICRFKLTWPLQKSFE 283
Query: 316 EFP--QLRTVVEQGFEDSSNVDIALEYLGKSRGIQKTRELAVKHANLAAAAIDSLPENND 373
+ E ++SS V L + E + + + +++
Sbjct: 284 IADEEMKLKISENYGKNSSLVKDCYNLLKI---NEHYLEYQRNALDYLIKLVKDITDDSL 340
Query: 374 EDVTKSRRALLDLTHRVITR 393
+ V + ++ +
Sbjct: 341 QKVFIH--LIHQISELITNS 358
>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 = 151 bits (383), Expect = 3e-42
Identities = 57/389 (14%), Positives = 119/389 (30%), Gaps = 36/389 (9%)
Query: 35 HSAAAAAADSSVKDTDSQEQLDPFSLVADELSILAKRLRSMVVAEVPKLASAAEYFFKMG 94
HS+ S + Q + + + L + M + +G
Sbjct: 10 HSSGLVPRGSHMASMPMQMFMQVYDEIQMFLLEELELKFDMD-PNRVRYLRKMMDTTCLG 68
Query: 95 VEGKRFRPTVLLLMATALNVRVPEPLHDGVEDALATELRTRQQCIAEITEMIHVASLLHD 154
GK R ++ +A +L P + + A + + E + L+ D
Sbjct: 69 --GKYNRGLTVIDVAESLLSLSPNNNGEEDDGARRKRVLHDACVCGWMIEFLQAHYLVED 126
Query: 155 DVLDDADTRRGIGSLNFVMGNKLAVLAGDFLLSRACVALASLKN-------TEVVTLLAT 207
D++D++ TRRG + D LL ++ + ++ +++
Sbjct: 127 DIMDNSVTRRGKPCWYRHPDVTVQCAINDGLLLKSWTHMMAMHFFADRPFLQDLLCRFNR 186
Query: 208 VVEHLVTGETMQMTTSSDQRC----------------SMDYYMQKTYYKTASLISNSCKA 251
V G+ +T+ D ++ Y + YKTA
Sbjct: 187 VDYTTAVGQLYDVTSMFDSNKLDPDVSQPTTTDFAEFTLSNYKRIVKYKTAYYTYLLPLV 246
Query: 252 I-ALLAGQTAEVAI-LAFDYGKNLGLAYQLIDDVLDFTGTSASLGKGSLSDIRHGIITAP 309
+ +++ V + + + +G +Q+ DDV+D LGK +DI+ +
Sbjct: 247 MGLIVSEALPTVDMGVTEELAMLMGEYFQVQDDVMDCFTPPERLGK-VGTDIQDAKCSWL 305
Query: 310 ILFAMEEF-PQLRTVVEQ--GFEDSSNVDIALEYLGKSRGIQKTRELAVKHANLAAAAID 366
+ + + + G DS V ++ A I+
Sbjct: 306 AVTFLAKASSAQVAEFKANYGSGDSEKVATVRRLYEEADLQGDYVAYEAAVAEQVKELIE 365
Query: 367 SLPENNDEDVTKSRRALLDLTHRVITRNK 395
L + ++ L + R K
Sbjct: 366 KLRLCSPG----FAASVETLWGKTYKRQK 390
>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 = 151 bits (383), Expect = 4e-42
Identities = 69/413 (16%), Positives = 126/413 (30%), Gaps = 59/413 (14%)
Query: 20 GRRWLPSHPLLSGASHSAA-AAAADSSVKDTDSQEQLDPFSLVADELS--ILAKRLRSMV 76
G H + +S D+ + + D + L +
Sbjct: 1 GSSHHHHHHSSGRENLYFQGMKETNSEEADSGLAFFRNMYDKYRDAFLSHLNEYSLEEEI 60
Query: 77 VAEVPKLASAAEYFFKMGVEGKRFRPTVLLLMATALNVRVPEPLHDGVEDALATELRTRQ 136
+ K + +G GK R +++L+ + R + E A
Sbjct: 61 KEHISKYYKLLFDYNCLG--GKNNRGILVILIYEYVKNR--DINSSEWEKAA-------- 108
Query: 137 QCIAEITEMIHVASLLHDDVLDDADTRRGIGSLNFVMGNKLAVLAGDFLLSRACVALASL 196
C+A E++ A L+ DD++D + RR + + D LL +
Sbjct: 109 -CLAWCIEILQAAFLVADDIMDKGEMRRNKYCWYLLKDVETKNAVNDVLLLYNSIYKLIE 167
Query: 197 K-------NTEVVTLLATVVEHLVTGETMQMTTSSDQRC--------------------- 228
+V+ + G+ + SD+
Sbjct: 168 IYLRNESCYVDVIATFRDATLKTIIGQHLDTNIFSDKYSDAHREIDVNNINVPEQPVIDI 227
Query: 229 ---SMDYYMQKTYYKTASLISNSCKAI-ALLAGQTAEVAIL--AFDYGKNLGLAYQLIDD 282
+ Y +KTA LLAG + I D +G +Q+ DD
Sbjct: 228 NMINFGVYKNIVIHKTAYYSFFLPIVCGMLLAGIAVDNLIYKKIEDISMLMGEYFQIHDD 287
Query: 283 VLDFTGTSASLGK-GSLSDIRHGIITAPILFAMEEF-PQLRTVVEQ--GFEDSSNVDIAL 338
LD G S GK G SDI++ +T P++ E + + + G + + V +
Sbjct: 288 YLDIFGDSTKTGKVG--SDIQNNKLTWPLIKTFELCSEPDKIKIVKNYGKNNLACVKVID 345
Query: 339 EYLGKSRGIQKTRELAVKHANLAAAAIDSLPENNDEDVTKSRRALLDLTHRVI 391
+ + + +AI+ L E V K LL++ +
Sbjct: 346 SLYEQYKIRKHYESYEKAQKAKILSAINELHHEGIEYVLKY---LLEILFTGV 395
>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 = 145 bits (368), Expect = 2e-40
Identities = 50/375 (13%), Positives = 106/375 (28%), Gaps = 42/375 (11%)
Query: 49 TDSQEQLDPFSLVADELSILAKRLRSMVVAEVPKLASAAEYFFKMGVEGKRFRPTVLLLM 108
+ L + V L + + + +G GK FR + ++
Sbjct: 2 ASMERFLSVYDEVQAFLLDQLQSKYEID-PNRARYLRIMMDTTCLG--GKYFRG--MTVV 56
Query: 109 ATALNVRVPEPLHDGVEDALATELRTRQQCIAEITEMIHVASLLHDDVLDDADTRRGIGS 168
A + ++ + + I E + L+ DD++D + RRG
Sbjct: 57 NVAEGFLAVTQHDEATKERILHDACVGGWMI----EFLQAHYLVEDDIMDGSVMRRGKPC 112
Query: 169 LNFVMGNKLAVLAGDFLLSRACVALASLKNTEVVTLLATVVE--HLVTGETM-------- 218
G D ++ ++ + + L ++ V T
Sbjct: 113 WYRFPGVTTQCAINDGIILKSWTQIMAWHYFADRPFLKDLLCLFQKVDYATAVGQMYDVT 172
Query: 219 -------------QMTTSSDQRCSMDYYMQKTYYKTASLI-SNSCKAIALLAGQTAEVAI 264
Q T+ + Y + YKT ++ A V +
Sbjct: 173 SMCDSNKLDPEVAQPMTTDFAEFTPAIYKRIVKYKTTFYTYLLPLVMGLFVSEAAASVEM 232
Query: 265 -LAFDYGKNLGLAYQLIDDVLDFTGTSASLGKGSLSDIRHGIITAPILFAMEEF-PQLRT 322
L +G +Q+ DDV+D LGK +DI + + + +
Sbjct: 233 NLVERVAHLIGEYFQVQDDVMDCFTPPEQLGK-VGTDIEDAKCSWLAVTFLGKANAAQVA 291
Query: 323 VVEQ--GFEDSSNVDIALEYLGKSRGIQKTRELAVKHANLAAAAIDSLPENNDEDVTKSR 380
+ G +D + V + ++ + + I+ L +
Sbjct: 292 EFKANYGDKDPAKVAVVKRLYSEANLQADFAAYEAEVVREVESLIEQLKVKSP----TFA 347
Query: 381 RALLDLTHRVITRNK 395
++ + + R K
Sbjct: 348 ESVAVVWEKTHKRKK 362
>2h8o_A Geranyltranstransferase; geranyltransferase,agrobacterium
tumefaciens, structural GEN PSI-2, protein structure
initiative; 1.60A {Agrobacterium tumefaciens}
Length = 335
Score = 120 bits (302), Expect = 4e-31
Identities = 81/377 (21%), Positives = 135/377 (35%), Gaps = 78/377 (20%)
Query: 33 ASHSAAAAAADSSVKDTDSQEQLDPF-SLVADEL-SILAKRLRSMVVAEVPKLASAAEYF 90
A A A + T+ + +L + L +L+ R+ + L A +
Sbjct: 21 ACIRPACQRARMDAQMTNFETRLRENAAKTEALLGHLLSGEARADEITRPQNLLEAMRHG 80
Query: 91 FKMGVEGKRFRPTVLLLMATALNVRVPEPLHDGVEDALATELRTRQQCIAEITEMIHVAS 150
G GKR RP L++ + + E L + E +H S
Sbjct: 81 VLNG--GKRLRP--FLVIESVALLGGDA------EAGLH---------VGAALECLHCYS 121
Query: 151 LLHDDV--LDDADTRRGIGSLNFVMGNKLAVLAGDFLLSRACVALASLKNT-------EV 201
L+HDD+ +DD D RRG +++ A+LAGD LL+ A +AS N +
Sbjct: 122 LVHDDLPAMDDDDLRRGQPTVHRKFDEATAILAGDSLLTLAFDIIASDDNPLAAERKAAL 181
Query: 202 VTLLATVV--EHLVTGETMQMTTSSDQRCSMDY--YMQKTYYKTASLISNSCKAIALLAG 257
V LA + G+ + + + + D +Q KT +L+ +C+A A++AG
Sbjct: 182 VISLARAAGIGGMAGGQALDLA-AEKKAPDEDGIITLQA--MKTGALLRFACEAGAIIAG 238
Query: 258 QTAEVAILAFDYGKNLGLAYQLIDDVLDFTGTSASLGKGSLSDIRHGIITAPILFAMEEF 317
+G+ +GL++QL DD+LD T +A++GK + D G T L
Sbjct: 239 SNQAERQRLRLFGEKIGLSFQLADDLLDLTADAATMGKATGKDAARGKGTLVALR----- 293
Query: 318 PQLRTVVEQGFEDSSNVDIALEYLGKSRGIQKTRELAVKHANLAAAAIDSLPENNDEDVT 377
G RE + A+ + E
Sbjct: 294 ----------------------------GEAWAREKLQEQVAEASELLAPYGEKAA---- 321
Query: 378 KSRRALLDLTHRVITRN 394
L+ + R
Sbjct: 322 ----ILIAAARFIAERK 334
>3uca_A Geranyltranstransferase; isoprenoid synthesis, isoprenoid
diphosphate synthase; 2.00A {Clostridium perfringens}
Length = 324
Score = 119 bits (301), Expect = 5e-31
Identities = 74/325 (22%), Positives = 120/325 (36%), Gaps = 74/325 (22%)
Query: 81 PKLASAAEYFFKMGVEGKRFRPTVLLLMATALNVRVPEPLHDGVEDALATELRTRQQCIA 140
L + Y +G GKR RP +L++ + + L A
Sbjct: 60 KVLYDSMAYSINVG--GKRIRP--ILMLLSY------YIYKSDYKKILTP---------A 100
Query: 141 EITEMIHVASLLHDDV--LDDADTRRGIGSLNFVMGNKLAVLAGDFLLSRACVALASLKN 198
EMIH SL+HDD+ +D+ D RRG + + V G +AVLAGD LL+ A L
Sbjct: 101 MAIEMIHTYSLIHDDLPCMDNDDLRRGKPTNHKVFGEAIAVLAGDALLNEAMKILVDYSL 160
Query: 199 T------EVVTLLATV--VEHLVTGETMQMTTSSDQRCSMDY--YMQKTYYKTASLISNS 248
+ ++A + ++ G+ + + + S+ YM KT LI S
Sbjct: 161 EEGKSALKATKIIADAAGSDGMIGGQIVDIINEDKEEISLKELDYMHL--KKTGELIKAS 218
Query: 249 CKAIALLAGQTAEVAILAFDYGKNLGLAYQLIDDVLDFTGTSASLGKGSLSDIRHGIITA 308
+ A+LA + +G LGLA+Q+ DD+LD G + LGK D
Sbjct: 219 IMSGAVLAEASEGDIKKLEGFGYKLGLAFQIKDDILDVVGNAKDLGKNVHKDQESNKNNY 278
Query: 309 PILFAMEEFPQLRTVVEQGFEDSSNVDIALEYLGKSRGIQKTRELAVKHANLAAAAIDSL 368
+F G+++ ++ V + S+
Sbjct: 279 ITIF---------------------------------GLEECKKKCVNITEECIEILSSI 305
Query: 369 PENNDEDVTKSRRALLDLTHRVITR 393
N + L LT +++ R
Sbjct: 306 KGNTE--------PLKVLTMKLLER 322
>3llw_A Geranyltranstransferase (ISPA); structural genomics, PSI, protein
structure initiative, nysgrc; 2.30A {Helicobacter
pylori} PDB: 3q1o_A*
Length = 311
Score = 119 bits (300), Expect = 6e-31
Identities = 64/328 (19%), Positives = 119/328 (36%), Gaps = 69/328 (21%)
Query: 81 PKLASAAEYFFKMGVEGKRFRPTVLLLMATALNVRVPEPLHDGVEDALATELRTRQQCIA 140
P L A G GKRFRP L +A + + + + IA
Sbjct: 34 PYLEKAFFEMVLNG--GKRFRP--KLFLAVLCALVGQKDYSNQQTEYFK---------IA 80
Query: 141 EITEMIHVASLLHDDV--LDDADTRRGIGSLNFVMGNKLAVLAGDFLLSRA--CVALASL 196
E +H SL+HDD+ +D+A RR +L+ AVL GD L + + ++ A L
Sbjct: 81 LSIECLHTYSLIHDDLPCMDNAALRRNHPTLHAKYDETTAVLIGDALNTYSFELLSNALL 140
Query: 197 KNTEVVTLLATV-----VEHLVTGETMQMTTSSDQRCSMDY--YMQKTYYKTASLISNSC 249
++ +V L+ + ++ ++ G+ + + +++ ++ + +KTA LIS S
Sbjct: 141 ESHIIVELIKILSANGGIKGMILGQALDCY-FENTPLNLEQLTFLHE--HKTAKLISASL 197
Query: 250 KAIALLAGQTAEVAILAFD-YGKNLGLAYQLIDDVLDFTGTSASLGKGSLSDIRHGIITA 308
+ +G E +G +GL +Q++DD++D T GK + D +
Sbjct: 198 IMGLVASGIKDEELFKWLQAFGLKMGLCFQVLDDIIDVTQDEEESGKTTHLDS--AKNSF 255
Query: 309 PILFAMEEFPQLRTVVEQGFEDSSNVDIALEYLGKSRGIQKTRELAVKHANLAAAAIDSL 368
L G+++ A +D+L
Sbjct: 256 VNLL---------------------------------GLERANNYAQTLKTEVLNDLDAL 282
Query: 369 PENNDEDVTKSRRALLD-LTHRVITRNK 395
+ L+ L + +
Sbjct: 283 KPAYPLL-----QENLNALLNTLFKGEG 305
>4f62_A Geranyltranstransferase; enzyme function initiative, structural
genomics; 2.10A {Marinomonas SP}
Length = 317
Score = 118 bits (298), Expect = 1e-30
Identities = 80/327 (24%), Positives = 127/327 (38%), Gaps = 76/327 (23%)
Query: 81 PKLASAAEYFFKMGVEGKRFRPTVLLLMATALNVRVPEPLHDGVEDALATELRTRQQCIA 140
+L +A Y G GKR RP +L A+A V A+ A
Sbjct: 31 NQLHNAMRYSLFNG--GKRIRP--MLTYASAQLVGDIS------SLTDAS---------A 71
Query: 141 EITEMIHVASLLHDDV--LDDADTRRGIGSLNFVMGNKLAVLAGDFLLSRACVALASLKN 198
E IH SL+HDD+ +D+ + RRG + + A+LAGD L + A L++ +
Sbjct: 72 AALESIHAYSLIHDDLPAMDNDELRRGKPTCHIQFDEATAILAGDALQTFAFELLSNPTS 131
Query: 199 T------EVVTLLATV--VEHLVTGETMQMTTSSDQRCSMDY--YMQKTYYKTASLISNS 248
+++ L ++TG+ + ++ S ++ S+ M +KT +LI S
Sbjct: 132 AQPELAIKLIQELVVASGRNGMITGQMIDLS-SENKNISLAELEQMHV--HKTGALIKAS 188
Query: 249 CKAIALLAGQTAEVAILAFD-YGKNLGLAYQLIDDVLDFTGTSASLGKGSLSDIRHGIIT 307
+ AL GQ + D Y +GLA+Q+ DD++D T + +LGK SD T
Sbjct: 189 VRMGALSTGQVKPEQLAKLDAYAHAIGLAFQVQDDIIDLTSDTETLGKTQFSDAEANKAT 248
Query: 308 APILFAMEEFPQLRTVVEQGFEDSSNVDIALEYLGKSRGIQKTRELAVKHANLAAAAIDS 367
P L G+ + L V+ A A I
Sbjct: 249 YPKLL---------------------------------GLDGAKALVVRLHEQAIAQISE 275
Query: 368 LPENNDEDVTKSRRALLDLTHRVITRN 394
+ + L DL + +I RN
Sbjct: 276 FGDKSQ--------PLTDLANYIIDRN 294
>3lom_A Geranyltranstransferase; geranyltransferase, structural genomics,
PSI, protein structure initiative, nysgrc; 2.30A
{Legionella pneumophila subsp}
Length = 313
Score = 117 bits (296), Expect = 2e-30
Identities = 70/329 (21%), Positives = 119/329 (36%), Gaps = 77/329 (23%)
Query: 81 PKLASAAEYFFKMGVEGKRFRPTVLLLMATALNVRVPEPLHDGVEDALATELRTRQQCIA 140
P++ SA Y G GKR RP +L+ + V + IA
Sbjct: 36 PQIRSALHYALFSG--GKRIRP--ILVYLAGDLIDVDQ------GVLDI---------IA 76
Query: 141 EITEMIHVASLLHDDV--LDDADTRRGIGSLNFVMGNKLAVLAGDFLLSRACVALASLKN 198
E+ H SL+HDD+ +D+ D RRG S + A+L GD + + A L +
Sbjct: 77 AALELTHCYSLIHDDLPAMDNDDLRRGKPSCHKAFDEATAILVGDGMQALAIEVLLMRLS 136
Query: 199 T--------EVVTLLATV--VEHLVTGETMQMTTSSDQRCSMD--YYMQKTYYKTASLIS 246
+ +L + +V+G+++ ++ + + + + KT LI
Sbjct: 137 PLLPAAQVVAITQVLVNASGISGMVSGQSLDLSELAKSSVTEEQLREIHL--LKTGKLIL 194
Query: 247 NSCKAIALLAGQTAEVAILAFD-YGKNLGLAYQLIDDVLDFTGTSASLGKGSLSDIRHGI 305
+ + + +E A YGK++GL +Q+ DD LD + LGKG SD +
Sbjct: 195 ACFEMVLAAQHEVSEQIKSALRTYGKHIGLVFQMQDDYLDLYAPTQILGKGRSSDQANQK 254
Query: 306 ITAPILFAMEEFPQLRTVVEQGFEDSSNVDIALEYLGKSRGIQKTRELAVKHANLAAAAI 365
T LF Q+ E H +A ++
Sbjct: 255 TTFATLF---------------------------------NKQQLEEEIAVHYQIAMDSL 281
Query: 366 DSLPENNDEDVTKSRRALLDLTHRVITRN 394
AL++LT ++ R+
Sbjct: 282 RLFGSKAA--------ALIELTKQLQNRS 302
>3ts7_A Geranyltranstransferase; isoprenoid synthesis, farnesyl diphosphate
synthase; 1.94A {Methylococcus capsulatus}
Length = 324
Score = 117 bits (295), Expect = 4e-30
Identities = 78/329 (23%), Positives = 113/329 (34%), Gaps = 78/329 (23%)
Query: 81 PKLASAAEYFFKMGVEGKRFRPTVLLLMATALNVRVPEPLHDGVEDALATELRTRQQCIA 140
+L A Y G GKR RP LL AT + V + A
Sbjct: 36 ERLHQAMRYSVLGG--GKRMRP--LLTYATGQTIGVAA------DLLDGP---------A 76
Query: 141 EITEMIHVASLLHDDV--LDDADTRRGIGSLNFVMGNKLAVLAGDFLLSRACVALASLKN 198
E IHV SL+HDD+ +DD D RRG + + A+LAGD L + A LA +
Sbjct: 77 CAVEFIHVYSLIHDDLPAMDDDDLRRGKPTCHKAYDEATAILAGDGLQALAFHVLAQDPS 136
Query: 199 T--------EVVTLLATVV--EHLVTGETMQMTTSSDQRCSMDY--YMQKTYYKTASLIS 246
++ LA +V G+ + + S ++ + M KT +LI
Sbjct: 137 IAVPAENRIAMIETLAKASGPAGMVGGQAIDLA-SVGKKLDLPGLENMHI--RKTGALIR 193
Query: 247 NSCKAIALLAGQTAEVAILAFD-YGKNLGLAYQLIDDVLDFTGTSASLGKGSLSDIRHGI 305
S + L D Y K +GLA+Q+ DD+LD + +LGK D H
Sbjct: 194 ASVRLACLARPGLPAEQFDRLDHYAKCIGLAFQIQDDILDEESDTQTLGKTRGKDRDHNK 253
Query: 306 ITAPILFAMEEFPQLRTVVEQGFEDSSNVDIALEYLGKSRGIQKTRELAVKHANLAAAAI 365
P L G+ +E A + A ++
Sbjct: 254 PNYPALL---------------------------------GLSGAKEKAEEMHEAALESL 280
Query: 366 DSLPENNDEDVTKSRRALLDLTHRVITRN 394
D L +L +I R
Sbjct: 281 AGFGPEAD--------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 = 116 bits (293), Expect = 5e-30
Identities = 83/329 (25%), Positives = 124/329 (37%), Gaps = 78/329 (23%)
Query: 81 PKLASAAEYFFKMGVEGKRFRPTVLLLMATALNVRVPEPLHDGVEDALATELRTRQQCIA 140
+L A Y G GKR RP LL A + E A A
Sbjct: 30 ARLYEAMRYSVMNG--GKRVRP--LLAYAACEALGGKP------EQANGA---------A 70
Query: 141 EITEMIHVASLLHDDV--LDDADTRRGIGSLNFVMGNKLAVLAGDFLLSRACVALASLKN 198
E+IH SL+HDD+ +DD D RRG + + A+LAGD L S A AL
Sbjct: 71 CAVELIHAYSLVHDDLPAMDDDDLRRGQPTTHKAFDEACAILAGDGLQSLAFSALLDPAL 130
Query: 199 TEV--------VTLLATVV--EHLVTGETMQMTTSSDQRCSMD--YYMQKTYYKTASLIS 246
++ VT LA +V G+ + + S + YM + +KT +LI
Sbjct: 131 SDASAEIRLRMVTTLAQAAGPAGMVGGQAIDLG-SVGLKLDQQALEYMHR--HKTGALIE 187
Query: 247 NSCKAIALLAGQTAEVAILAFD-YGKNLGLAYQLIDDVLDFTGTSASLGKGSLSDIRHGI 305
S AL +G+ + + A Y + +GLA+Q+ DD+LD +A+LGK +DI
Sbjct: 188 ASVILGALASGRAEKGELKALQTYAQAIGLAFQVQDDILDVESDTATLGKRQGADIARDK 247
Query: 306 ITAPILFAMEEFPQLRTVVEQGFEDSSNVDIALEYLGKSRGIQKTRELAVKHANLAAAAI 365
T P L G+ +E A++ + A A+
Sbjct: 248 PTYPALL---------------------------------GLAAAKEYALELRDQALHAL 274
Query: 366 DSLPENNDEDVTKSRRALLDLTHRVITRN 394
+ L +L ++ R
Sbjct: 275 RPFDAAAE--------PLRELARYIVERR 295
>1rtr_A Geranyltranstransferase; 2.50A {Staphylococcus aureus} SCOP:
a.128.1.1
Length = 301
Score = 116 bits (292), Expect = 6e-30
Identities = 76/326 (23%), Positives = 124/326 (38%), Gaps = 73/326 (22%)
Query: 81 PKLASAAEYFFKMGVEGKRFRPTVLLLMATALNVRVPEPLHDGVEDALATELRTRQQCIA 140
+L + Y G GKR RP +LL+ T ++ L AL
Sbjct: 28 TQLEESMLYSLNAG--GKRIRP--VLLLLTLDSLNTEYELGMKSAIAL------------ 71
Query: 141 EITEMIHVASLLHDDV--LDDADTRRGIGSLNFVMGNKLAVLAGDFLLSRACVALASLKN 198
EMIH SL+HDD+ +D+ D RRG + + V G A+LAGD LL++A ++S
Sbjct: 72 ---EMIHTYSLIHDDLPAMDNDDYRRGKLTNHKVYGEWTAILAGDALLTKAFELISSDDR 128
Query: 199 T------EVVTLLATV--VEHLVTGETMQMTTSSDQRCSMD--YYMQKTYYKTASLISNS 248
+V+ L+ +V G+ + M S Q ++ + K KT +L++ +
Sbjct: 129 LTDEVKIKVLQRLSIASGHVGMVGGQMLDMQ-SEGQPIDLETLEMIHK--TKTGALLTFA 185
Query: 249 CKAIALLAGQTAEVAILAFDYGKNLGLAYQLIDDVLDFTGTSASLGKGSLSDIRHGIITA 308
+ A +A Y +LG+ +Q+ DD+LD G A LGK SD+ + T
Sbjct: 186 VMSAADIANVDDTTKEHLESYSYHLGMMFQIKDDLLDCYGDEAKLGKKVGSDLENNKSTY 245
Query: 309 PILFAMEEFPQLRTVVEQGFEDSSNVDIALEYLGKSRGIQKTRELAVKHANLAAAAIDSL 368
L G + H + A + +
Sbjct: 246 VSLL---------------------------------GKDGAEDKLTYHRDAAVDELTQI 272
Query: 369 PENNDEDVTKSRRALLDLTHRVITRN 394
E + LL++ +R+
Sbjct: 273 DEQFNTK------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 = 115 bits (291), Expect = 9e-30
Identities = 84/330 (25%), Positives = 135/330 (40%), Gaps = 75/330 (22%)
Query: 81 PKLASAAEYFFKMGVEGKRFRPTVLLLMATALNVRVPEPLHDGVEDALATELRTRQQCIA 140
+ +Y +G GKR RP L+ AT V A A
Sbjct: 30 TPVVETMQYGALLG--GKRLRP--FLVYATGHMFGVST------NTLDAP---------A 70
Query: 141 EITEMIHVASLLHDDV--LDDADTRRGIGSLNFVMGNKLAVLAGDFLLSRACVALASLKN 198
E IH SL+HDD+ +DD D RRG+ + + G A+LAGD L + A L+
Sbjct: 71 AAVECIHAYSLIHDDLPAMDDDDLRRGLPTCHVKFGEANAILAGDALQTLAFSILSDADM 130
Query: 199 TEV--------VTLLATV--VEHLVTGETMQMTTSSDQRCSMDY--YMQKTYYKTASLIS 246
EV ++ LA+ + + G+ + + + + +D + + +KT +LI
Sbjct: 131 PEVSDRDRISMISELASASGIAGMCGGQALDLD-AEGKHVPLDALERIHR--HKTGALIR 187
Query: 247 NSCKAIALLAGQTAEVAILAFD-YGKNLGLAYQLIDDVLDFTGTSASLGKGSLSDIRHGI 305
+ + AL AG A+ D Y +++GLA+Q+ DD+LD G +A+LGK +D + G
Sbjct: 188 AAVRLGALSAGDKGRRALPVLDKYAESIGLAFQVQDDILDVVGDTATLGKRQGADQQLGK 247
Query: 306 ITAPILFAMEEFPQLRTVVEQGFEDSSNVDIALEYLGKSRGIQKTRELAVKHANLAAAAI 365
T P L G+++ R+ A + A ++
Sbjct: 248 STYPALL---------------------------------GLEQARKKARDLIDDARQSL 274
Query: 366 DSLPENNDEDVTKSRRALLDLTHRVITRNK 395
L E + + AL L +I RNK
Sbjct: 275 KQLAEQSLDT-----SALEALADYIIQRNK 299
>3p8r_A Geranyltranstransferase; isoprenyl synthase, structural genomics,
PSI, protein struct initiative, nysgrc; 2.50A {Vibrio
cholerae}
Length = 302
Score = 115 bits (291), Expect = 1e-29
Identities = 72/329 (21%), Positives = 122/329 (37%), Gaps = 78/329 (23%)
Query: 81 PKLASAAEYFFKMGVEGKRFRPTVLLLMATALNVRVPEPLHDGVEDALATELRTRQQCIA 140
L A Y +G GKR RP L+ T + D A
Sbjct: 36 LPLIEAMRYGLLLG--GKRARP--YLVYITGQMLGCEL------SDLDTP---------A 76
Query: 141 EITEMIHVASLLHDDV--LDDADTRRGIGSLNFVMGNKLAVLAGDFLLSRACVALASLKN 198
E IH SL+HDD+ +DD + RRG + + A+L GD L + A LA
Sbjct: 77 SAVECIHAYSLIHDDLPAMDDDELRRGKPTCHIQFDEATAILTGDALQTLAFTILAEGDL 136
Query: 199 T--------EVVTLLATV--VEHLVTGETMQMTTSSDQRCSMDY--YMQKTYYKTASLIS 246
+ ++ LA + + G+ + + + ++ S++ + + KT +L+
Sbjct: 137 SAAGETQRVAMLQALAEASGAQGMCLGQALDLA-AENRLISLEELETIHR--NKTGALMR 193
Query: 247 NSCKAIALLAGQTAEVAILAFD-YGKNLGLAYQLIDDVLDFTGTSASLGKGSLSDIRHGI 305
+ + AL AG+ + D Y + +GLA+Q+ DD+LD + +LGK SD
Sbjct: 194 CAIRLGALAAGEKGRAMLPHLDRYAEAVGLAFQVQDDILDIISDTETLGKPQGSDQELNK 253
Query: 306 ITAPILFAMEEFPQLRTVVEQGFEDSSNVDIALEYLGKSRGIQKTRELAVKHANLAAAAI 365
T P L G++ ++ A A A+
Sbjct: 254 STYPALL---------------------------------GLEGAQQKAHTLLQEALLAL 280
Query: 366 DSLPENNDEDVTKSRRALLDLTHRVITRN 394
+++P N + L + V+ R
Sbjct: 281 EAIPYNTE--------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 = 114 bits (288), Expect = 2e-29
Identities = 74/312 (23%), Positives = 112/312 (35%), Gaps = 76/312 (24%)
Query: 97 GKRFRPTVLLLMATALNVRVPEPLHDGVEDALATELRTRQQCIAEITEMIHVASLLHDDV 156
GKR R L + +A + A+ E +H SL+HDD+
Sbjct: 41 GKRLRA--FLAIESAAIHGISMAQAMPAALAV---------------EALHAYSLVHDDM 83
Query: 157 --LDDADTRRGIGSLNFVMGNKLAVLAGDFLLSRACVALASLKNT------EVVTLLATV 208
+D+ D RRG+ +++ + AVLAGD L + A +V LA
Sbjct: 84 PCMDNDDLRRGLPTVHKKWDDATAVLAGDALQTLAFELCTDPVLGSAENRVALVAALAQA 143
Query: 209 --VEHLVTGETMQMT-TSSDQRCSMDY--YMQKTYYKTASLISNSCKAIALLAGQTAEVA 263
E +V G+ + + ++ ++D +Q KT +LIS + +A A+LAG A+
Sbjct: 144 SGAEGMVYGQALDIAAETAAVPLTLDEIIRLQA--GKTGALISFAAQAGAILAG--ADRG 199
Query: 264 ILAFDYGKNLGLAYQLIDDVLDFTGTSASLGKGSLSDIRHGIITAPILFAMEEFPQLRTV 323
L Y LGLA+Q+ DD+LD G + GK D T L
Sbjct: 200 PLT-AYATALGLAFQIADDILDVEGNEEAAGKRLGKDAEAHKATFVSLL----------- 247
Query: 324 VEQGFEDSSNVDIALEYLGKSRGIQKTRELAVKHANLAAAAIDSLPENNDEDVTKSRRAL 383
G+ + A A AA+ E L
Sbjct: 248 ----------------------GLAGAKSRAADLVAEAEAALAPYGEAAS--------TL 277
Query: 384 LDLTHRVITRNK 395
VI R+K
Sbjct: 278 RACARYVIERDK 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 = 111 bits (280), Expect = 3e-28
Identities = 69/325 (21%), Positives = 114/325 (35%), Gaps = 69/325 (21%)
Query: 81 PKLASAAEYFFKMGVEGKRFRPTVLLLMATALNVRVPEPLHDGVEDALATELRTRQQCIA 140
+LA+A Y G GKR RP LL +AT ++ V +A E
Sbjct: 34 AQLAAAMTYSVLAG--GKRLRP--LLTVATMQSLGVTFVPERHWRPVMALE--------- 80
Query: 141 EITEMIHVASLLHDDV--LDDADTRRGIGSLNFVMGNKLAVLAGDFLLSRA--CVALASL 196
++H SL+HDD+ +D+ RRG + + G +A LAGD LL+ A + L
Sbjct: 81 ----LLHTYSLIHDDLPAMDNDALRRGEPTNHVKFGAGMATLAGDGLLTLAFQWLTATDL 136
Query: 197 KNTEVVTLLATV-----VEHLVTGETMQMTTSSDQRCSMDY--YMQKTYYKTASLISNSC 249
T L+ + +V G+ + S + + K KT +L+ +
Sbjct: 137 PATMQAALVQALATAAGPSGMVAGQAKDIQ-SEHVNLPLSQLRVLHK--EKTGALLHYAV 193
Query: 250 KAIALLAGQTAEVAILAFDYGKNLGLAYQLIDDVLDFTGTSASLGKGSLSDIRHGIITAP 309
+A +L + GLA+Q+ DD+LD + A +GK + D T P
Sbjct: 194 QAGLILGQAPEAQWPAYLQFADAFGLAFQIYDDILDVVSSPAEMGKATQKDADEAKNTYP 253
Query: 310 ILFAMEEFPQLRTVVEQGFEDSSNVDIALEYLGKSRGIQKTRELAVKHANLAAAAIDSLP 369
G+ + + + AA+ LP
Sbjct: 254 GKL---------------------------------GLIGANQALIDTIHSGQAALQGLP 280
Query: 370 ENNDEDVTKSRRALLDLTHRVITRN 394
+ T+ ++ R
Sbjct: 281 TS-----TQRDDLAAFFSYFDTERV 300
>3npk_A Geranyltranstransferase; isoprene biosynthesis, SGX, structural
genomics protein structure initiative; 1.50A
{Campylobacter jejuni}
Length = 291
Score = 110 bits (277), Expect = 6e-28
Identities = 72/326 (22%), Positives = 127/326 (38%), Gaps = 74/326 (22%)
Query: 81 PKLASAAEYFFKMGVEGKRFRPTVLLLMATALNVRVPEPLHDGVEDALATELRTRQQCIA 140
P A K G GK FR LL++ + + + + AL A
Sbjct: 25 PFFNEALALMLKAG--GKHFRA--QLLLSVVQSNKP-----ELLNQALDV---------A 66
Query: 141 EITEMIHVASLLHDDV--LDDADTRRGIGSLNFVMGNKLAVLAGDFLLSRA--CVALASL 196
E IH SL+HDD+ +D+AD RRGI +L+ A+L GD L + A ++ A L
Sbjct: 67 LALEFIHTYSLIHDDLPAMDNADFRRGIPTLHKSYDETTAILVGDALNTEAFLVLSHAHL 126
Query: 197 KNTEVVTLLATV-----VEHLVTGETMQMTTSSDQRCSMD--YYMQKTYYKTASLISNSC 249
K+ + L+ T+ + +V G+ + D+R S++ ++ +KTA LI+ +
Sbjct: 127 KDEIKIKLIKTLAFNAGLNGMVIGQAIDCF-FEDKRLSLNELEFLHT--HKTARLIAAAL 183
Query: 250 KAIALLAGQTAEVAILAFDYGKNLGLAYQLIDDVLDFTGTSASLGKGSLSDIRHGIITAP 309
K + E + + G LGL +Q+ DD++D T + GK + +DI +
Sbjct: 184 KMGCEICELNNEESNQIYKLGLKLGLIFQINDDIIDVTTSQEQSGKPTNNDI--HKNSFV 241
Query: 310 ILFAMEEFPQLRTVVEQGFEDSSNVDIALEYLGKSRGIQKTRELAVKHANLAAAAIDSLP 369
L G+++ + N ++ L
Sbjct: 242 NLL---------------------------------GLEQAIKTKENLLNECEQDLEKLN 268
Query: 370 ENNDEDVTKSRRALLDLTHRVITRNK 395
E K + + +L + + +
Sbjct: 269 E-------KLAQMIQNLIIQYLEGHH 287
>3p8l_A Geranyltranstransferase; isoprenyl synthase, structural genomics,
PSI, protein struct initiative, nysgrc; 2.00A
{Enterococcus faecalis}
Length = 302
Score = 110 bits (278), Expect = 6e-28
Identities = 82/304 (26%), Positives = 125/304 (41%), Gaps = 65/304 (21%)
Query: 81 PKLASAAEYFFKMGVEGKRFRPTVLLLMATALNVRVPEPLHDGVEDALATELRTRQQCIA 140
+L A Y G GKR RP LL++ T A E+ T+ +A
Sbjct: 36 ERLKEAMLYSIHAG--GKRLRP--LLVLTTV--------------AAFQKEMETQDYQVA 77
Query: 141 EITEMIHVASLLHDDV--LDDADTRRGIGSLNFVMGNKLAVLAGDFLLSRA--CVALASL 196
EMIH SL+HDD+ +DD D RRG + + V G A+LAGD LL+ A ++L+ L
Sbjct: 78 ASLEMIHTYSLIHDDLPAMDDDDLRRGKPTNHKVFGEATAILAGDGLLTGAFQLLSLSQL 137
Query: 197 KNTEVVTLLATV-----VEHLVTGETMQMTTSSDQRCSMD--YYMQKTYYKTASLISNSC 249
+E V L+ + + +V+G+ + +++ + + KT +LI +
Sbjct: 138 GLSEKVLLMQQLAKAAGNQGMVSGQMGDIE-GEKVSLTLEELAAVHE--KKTGALIEFAL 194
Query: 250 KAIALLAGQTAEVAILAFDYGKNLGLAYQLIDDVLDFTGTSASLGKGSLSDIRHGIITAP 309
A +LA QT EV L + + GLA+Q+ DD+LD T T A LGK D T P
Sbjct: 195 IAGGVLANQTEEVIGLLTQFAHHYGLAFQIRDDLLDATSTEADLGKKVGRDEALNKSTYP 254
Query: 310 ILFAMEEFPQLRTVVEQGFEDSSNVDIALEYLGKSRGIQKTRELAVKHANLAAAAIDSLP 369
L GI ++ +A ++ +
Sbjct: 255 ALL---------------------------------GIAGAKDALTHQLAEGSAVLEKIK 281
Query: 370 ENND 373
N
Sbjct: 282 ANVP 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 = 101 bits (253), Expect = 1e-24
Identities = 38/249 (15%), Positives = 80/249 (32%), Gaps = 39/249 (15%)
Query: 70 KRLRSMVVAEVP-KLASAAEYFFKMGVEGKRFRPTVLLLMATALNVRVPEPLHDGVEDAL 128
L+ + P + + + L +A E + DA+
Sbjct: 19 SYLKKAIPIRAPESVFEPMHHLTFAA--PRTSAS--ALCVAAC------ELVGGDRSDAM 68
Query: 129 ATELRTRQQCIAEITEMIHVASLLHDDVLDDADTRRGIGSLNFVMGNKLAVLAGDFLLSR 188
A A ++HVA+ H++ L D + + +L GD ++
Sbjct: 69 AA---------AAAVHLMHVAAYTHEN-LPLTDGPMSKSEIQHKFDPNIELLTGDGIIPF 118
Query: 189 ACVALASLKNT---------EVVTLLATVV--EHLVTGETMQMTTSSDQRCSMDY--YMQ 235
+A + + L V+ E +V G+ ++ +Q ++ Y+
Sbjct: 119 GLELMARSMDPTRNNPDRILRAIIELTRVMGSEGIVEGQYHEL--GLNQLNDLELIEYVC 176
Query: 236 KTYYKTASLISNSCKAIALLAGQTAEVAILAFDYGKNLGLAYQLIDDVLD-FTGTSASLG 294
K K +L + A+L G + +G +G L+ F G L
Sbjct: 177 K--KKEGTLHACGAACGAILGGCDEDKIEKLRRFGLYVGTVQGLLGKNRSGFEGRIKELK 234
Query: 295 KGSLSDIRH 303
+ ++ ++
Sbjct: 235 ELAVKELES 243
>2j1p_A Geranylgeranyl pyrophosphate synthetase; transferase, isoprene
biosynthesis, multifunctional enzyme, carotenoid
biosynthesis; HET: GRG; 1.8A {Sinapis alba} PDB: 2j1o_A
3kra_A 3krc_A* 3krf_A* 3kro_A* 3krp_A* 3oab_A* 3oac_A*
Length = 293
Score = 98.0 bits (245), Expect = 2e-23
Identities = 69/226 (30%), Positives = 104/226 (46%), Gaps = 37/226 (16%)
Query: 81 PKLASAAEYFFKMGVEGKRFRPTVLLLMATALNVRVPEPLHDGVEDALATELRTRQQCIA 140
K+ A Y G GKR RP +L +A V E A+ A
Sbjct: 38 LKIHEAMRYSLLAG--GKRVRP--VLCIAACELVGGEE------SLAMPA---------A 78
Query: 141 EITEMIHVASLLHDDV--LDDADTRRGIGSLNFVMGNKLAVLAGDFLLSRACVALASLKN 198
EMIH SL+HDD+ +D+ D RRG + + V G +AVLAGD LLS A LAS +
Sbjct: 79 CAVEMIHTMSLIHDDLPCMDNDDLRRGKPTNHKVYGEDVAVLAGDALLSFAFEHLASATS 138
Query: 199 TEV--------VTLLATVV--EHLVTGET--MQMTTSSDQRCSMDY--YMQKTYYKTASL 244
+EV V LA + E LV G+ + +++ ++ +KTA+L
Sbjct: 139 SEVSPARVVRAVGELAKAIGTEGLVAGQVVDISSEGLDLNNVGLEHLKFIHL--HKTAAL 196
Query: 245 ISNSCKAIALLAGQTAEVAILAFDYGKNLGLAYQLIDDVLDFTGTS 290
+ S ++ G + E + + +GL +Q++DD+LD T +S
Sbjct: 197 LEASAVLGGIIGGGSDEEIERLRKFARCIGLLFQVVDDILDVTKSS 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 = 90.4 bits (225), Expect = 8e-21
Identities = 42/249 (16%), Positives = 83/249 (33%), Gaps = 49/249 (19%)
Query: 97 GKRFRPTVLLLMATALNVRVPEPLHDGVEDALATELRTRQQCIAEITEMIHVASLLHDDV 156
L +A E + A+A A ++H A+ +H+ +
Sbjct: 40 PATAAS--TLCLAAC------ELVGGDRSQAMAA---------AAAIHLVHAAAYVHEHL 82
Query: 157 -LDDADTRRGIGSLNFVMGNKLAVLAGDFLLSRACVALASLKNT----------EVVTLL 205
L D ++ G + +L GD ++ LA + V+ +
Sbjct: 83 PLTDGSRPVSKPAIQHKYGPNVELLTGDGIVPFGFELLAGSVDPARTDDPDRILRVIIEI 142
Query: 206 ATVV--EHLVTGETMQMTTSSDQRCSMDY--YMQKTYYKTASLISNSCKAIALLAGQTAE 261
+ E +++G + D S+D+ Y+ K K + + A+L G E
Sbjct: 143 SRAGGPEGMISGLHREEE-IVDGNTSLDFIEYVCK--KKYGEMHACGAACGAILGGAAEE 199
Query: 262 VAILAFDYGKNLGL---------AYQLIDDVLD---FTGTSASLGK--GSLSDIRHGIIT 307
++G G ++QLID+ + LG G +++ ++
Sbjct: 200 EIQKLRNFGLYQGTLRGMMEMKNSHQLIDENIIGKLKELALEELGGFHGKNAELMSSLVA 259
Query: 308 APILFAMEE 316
P L+A
Sbjct: 260 EPSLYAAHH 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 = 88.0 bits (217), Expect = 8e-20
Identities = 59/235 (25%), Positives = 97/235 (41%), Gaps = 26/235 (11%)
Query: 70 KRLRSMVVAEVP-KLASAAEYFFKMGVEGKRFRPTVLLLMATALNVRVPEPLHDGVEDAL 128
+R+R ++ A Y +G G R RP ++L + L V L
Sbjct: 20 ERIREILRPGWDLLTEEAMLYSATVG--GXRIRPLLVLTLGEDLGVEEEXLLD------- 70
Query: 129 ATELRTRQQCIAEITEMIHVASLLHDDV--LDDADTRRGIGSLNFVMGNKLAVLAGDFLL 186
+A E+ H ASL+HDD+ +D+AD RRG S + G +A+LAGD L
Sbjct: 71 ----------VAVAVELFHTASLIHDDLPPIDNADFRRGXPSCHRTYGEDIALLAGDGLF 120
Query: 187 SRACVALASLKNTEVVTLLATVVEHLVTGETMQMTTSSD-QRCSMDYYMQKTYYKTASLI 245
A ++ + N+ + + L+ GE M + S + + + T +L
Sbjct: 121 FLAFSQISXIGNSXIFEEFSETAYXLLLGEAMDVEFERRXMEVSQEMVERMYAFXTGALF 180
Query: 246 SNSCKAIALLAGQTAEVAILAFDYGKNLGLAYQLIDDVLDFTGTSASLGKGSLSD 300
+ A +L G G+ G+A+Q+ DD+ D G+ +GK D
Sbjct: 181 AFCFSAPFILXGXDHT---XMXLLGEXFGVAFQIYDDLXDILGSFEKVGKDLGKD 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 = 63.3 bits (153), Expect = 7e-11
Identities = 51/405 (12%), Positives = 106/405 (26%), Gaps = 145/405 (35%)
Query: 74 SMVVAEVPKLASAAEYFFKMGVE----GKRFRPTVLLLMATALNVRVPEPLHDGVEDALA 129
+ V +V + + + P +L M L ++ + +
Sbjct: 164 TWVALDVCL-SYKVQCKMDFKIFWLNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSN 222
Query: 130 TELRTRQQCIAEITEMI----HVASLLHDDVLDD-AD---------------TRRGIGSL 169
+LR AE+ ++ + LL VL + + T R
Sbjct: 223 IKLRI-HSIQAELRRLLKSKPYENCLL---VLLNVQNAKAWNAFNLSCKILLTTRFKQVT 278
Query: 170 NFVMGNKLAVLAGDFLLSRACVALASLKNTEVVTLLATVVEHLVTGETMQMTTSSDQRCS 229
+F+ ++ D +L EV +LL ++ ++ T++ +R S
Sbjct: 279 DFLSAATTTHISLDHHSM-------TLTPDEVKSLLLKYLDCRPQDLPREVLTTNPRRLS 331
Query: 230 M------------DYYMQKTYYKTASLISNSCKAIALLAGQTAEVAILAFDYGKNLGLAY 277
+ D + K ++I +S + +L + + +
Sbjct: 332 IIAESIRDGLATWDNWKHVNCDKLTTIIESS-------------LNVLEPAEYRKM---F 375
Query: 278 QLI----DDVLDFTGTSASLGKGSLSDIRHGIITAPIL-------------FAMEEFPQL 320
+ I +L + + +
Sbjct: 376 DRLSVFPPSAH---------------------IPTILLSLIWFDVIKSDVMVVVNKLHKY 414
Query: 321 RTVVEQGFEDSSNV-DIALEYLGKSRGIQKTRELAVKHANLAAAAIDS------------ 367
V +Q E + ++ I LE K H ++ +D
Sbjct: 415 SLVEKQPKESTISIPSIYLELK------VKLENEYALHRSI----VDHYNIPKTFDSDDL 464
Query: 368 LPENND-----------------EDVTKSRRALLDLTHRVITRNK 395
+P D E +T R LD R + K
Sbjct: 465 IPPYLDQYFYSHIGHHLKNIEHPERMTLFRMVFLDF--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 = 57.8 bits (139), Expect = 4e-09
Identities = 62/405 (15%), Positives = 108/405 (26%), Gaps = 139/405 (34%)
Query: 7 LSRISRISKKTS--FGR-----RWL------PSHPLLSGASHS----AAAAAADSSVKDT 49
LS + R + F + WL P L S A V T
Sbjct: 195 LSELIRTTLDAEKVFTQGLNILEWLENPSNTPDKDYLLSIPISCPLIGVIQLAHYVV--T 252
Query: 50 DSQEQLDPFSLVADELSILAKRLRSMVVAEVPKLASAAEYF-----------FKMGVEGK 98
P L L + +V A + E F F +GV
Sbjct: 253 AKLLGFTPGEL-RSYLKGATGHSQGLVTAVAIAETDSWESFFVSVRKAITVLFFIGVRCY 311
Query: 99 RFRPTVLLLMATALNVRVPEPLHDGVEDALATELRTRQQCIAEITEMIHVASLLHDDVLD 158
P T+L P L D +E+ + M+ +++L + V D
Sbjct: 312 EAYPN------TSLP---PSILEDSLENNEGVP-----------SPMLSISNLTQEQVQD 351
Query: 159 DADTRRGIGSLNFVMGNKLAVLAGDFLLSRACVALASLKNTE---VVT----LLATVVEH 211
+ N + L + SL N VV+ L +
Sbjct: 352 Y------VNKTN-------SHLPAGKQVE------ISLVNGAKNLVVSGPPQSLYGLNLT 392
Query: 212 LVTGETMQMTTSSDQ----------RCSMDY----------YMQKTYYKTASLISNSCKA 251
L + + DQ + S + + + + + K
Sbjct: 393 L---RKAKAPSGLDQSRIPFSERKLKFSNRFLPVASPFHSHLLVPA---SDLINKDLVKN 446
Query: 252 IALLAGQTAEVAILAFDYGKNL-----GLAYQLIDD------------------VLDFTG 288
+ ++ + G +L ++ +++D +LDF G
Sbjct: 447 NVSFNAKDIQIPVYDTFDGSDLRVLSGSISERIVDCIIRLPVKWETTTQFKATHILDF-G 505
Query: 289 TSASLGKGSL-SDIRHG----IITAPILFAMEEFPQLRTVVEQGF 328
+ G G L + G +I A ++ P + GF
Sbjct: 506 PGGASGLGVLTHRNKDGTGVRVIVA---GTLDINPDD----DYGF 543
Score = 42.0 bits (98), Expect = 3e-04
Identities = 52/287 (18%), Positives = 87/287 (30%), Gaps = 92/287 (32%)
Query: 51 SQEQ------LDPFSLV------ADE-------LSILAKRLRSMVVAEVPKLASAAEYFF 91
SQEQ AD SIL +V P + +F
Sbjct: 1626 SQEQGMGMDLYKTSKAAQDVWNRADNHFKDTYGFSILD------IVINNPV--NLTIHF- 1676
Query: 92 KMGVEGKRFRPTVLLLMATALNVRVPEPLHDGVEDALATELRTRQQCIAEITEMIHVASL 151
G +GKR R ++ E + DG ++ EI E +
Sbjct: 1677 -GGEKGKRIRENYSAMIF--------ETIVDGKLKT--------EKIFKEINEHSTSYTF 1719
Query: 152 LHD-DVLDD-ADTRRGIGSLNFVMGNKLA---VLAGDFLLSRACV----------ALASL 196
+ +L T+ + +M A L L+ ALASL
Sbjct: 1720 RSEKGLLSATQFTQPAL----TLME--KAAFEDLKSKGLIPADATFAGHSLGEYAALASL 1773
Query: 197 KNTEVVTLLATVVEHLVT--GETMQMTTSSDQRCSMDYYM------QKTYYKTASLISNS 248
+V+++ + V +V G TMQ+ D+ +Y M + + +
Sbjct: 1774 --ADVMSIESLV--EVVFYRGMTMQVAVPRDELGRSNYGMIAINPGRVAASFSQEALQYV 1829
Query: 249 CKAIALLAGQTAEVA---------ILAFDYGKNLGLAYQLIDDVLDF 286
+ + G E+ + A G L + +VL+F
Sbjct: 1830 VERVGKRTGWLVEIVNYNVENQQYVAA---GDLRAL--DTVTNVLNF 1871
Score = 42.0 bits (98), Expect = 3e-04
Identities = 37/193 (19%), Positives = 60/193 (31%), Gaps = 70/193 (36%)
Query: 33 ASHS-----AAAAAADSSVKDTDSQEQLDPFSLVADELSILAKRLRSMVVAEVPKLASAA 87
A HS A A+ AD S+ + ++ R +M VA VP+
Sbjct: 1760 AGHSLGEYAALASLADV-------------MSI-ESLVEVVFYRGMTMQVA-VPRDELGR 1804
Query: 88 EYFFKMGVEGKRFRPTVLLLMATALNVRVPEPLHDGVEDALATELRTRQQCIAEITEMIH 147
+ + + R +A + + E L VE + R + EI
Sbjct: 1805 SNYGMIAINPGR--------VAASFSQ---EALQYVVE-----RVGKRTGWLVEI----- 1843
Query: 148 VASLLHDDVLDDADTRRGIGSLNFVMGNKLAVLAGDFL-LSRACVALASLK--NTEVVTL 204
V N+ + N+ V AGD L L +K +++ L
Sbjct: 1844 V---------------------NYNVENQQYVAAGDLRALDTVTNVLNFIKLQKIDIIEL 1882
Query: 205 LAT-----VVEHL 212
+ V HL
Sbjct: 1883 QKSLSLEEVEGHL 1895
Score = 38.9 bits (90), Expect = 0.003
Identities = 21/122 (17%), Positives = 43/122 (35%), Gaps = 38/122 (31%)
Query: 292 SLGKGSLSDIRHGIITAPILFAM-----EEFPQLRTVVEQGF----EDSSNVDIALEYLG 342
+L GS + H ++ F + E+F ++ +GF E ++ ++ ++LG
Sbjct: 10 TLSHGS---LEHVLLVPTASFFIASQLQEQFNKILPEPTEGFAADDEPTTPAELVGKFLG 66
Query: 343 -----KSRGIQKTRELAVK----------------HANLAAAAIDSLPENNDEDVTKSRR 381
+ + HA LAA L + ND + K++
Sbjct: 67 YVSSLVEPSKVGQFDQVLNLCLTEFENCYLEGNDIHA-LAA----KLLQENDTTLVKTKE 121
Query: 382 AL 383
+
Sbjct: 122 LI 123
Score = 38.9 bits (90), Expect = 0.003
Identities = 38/235 (16%), Positives = 66/235 (28%), Gaps = 90/235 (38%)
Query: 1 MLIYRGLSR---ISRISK--KTSFGRRWL-------PSHPLLSGASHS-----------A 37
ML L++ ++K + + + ++SG S
Sbjct: 338 MLSISNLTQEQVQDYVNKTNSHLPAGKQVEISLVNGAKNLVVSGPPQSLYGLNLTLRKAK 397
Query: 38 AAAAADSSVKDTDSQEQLD----------PF-SLVADELSILAKRLRSMVVAEVPKLASA 86
A + D S + S+ +L PF S L A
Sbjct: 398 APSGLDQS-RIPFSERKLKFSNRFLPVASPFHS---------------------HLLVPA 435
Query: 87 AEYFFKMGVEGKRFRPTVLLLMATALNVRVPEPLHDGVEDALATELRTRQQCIAE-ITEM 145
++ K + A + + P++D D ++LR I+E I +
Sbjct: 436 SDLIN------KDLVKNNVSFNAKDIQI----PVYD-TFD--GSDLRVLSGSISERIVDC 482
Query: 146 I----------HVASLLHDDVLD-DADTRRGIGSLNFVMGNKLA-----VLAGDF 184
I H +LD G+G L NK ++AG
Sbjct: 483 IIRLPVKWETTTQFKATH--ILDFGPGGASGLGVL--THRNKDGTGVRVIVAGTL 533
>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 = 0.65
Identities = 13/39 (33%), Positives = 20/39 (51%), Gaps = 2/39 (5%)
Query: 206 ATVVEHLVT-GETMQMTTSSDQRCSMDYYMQKTYYKTAS 243
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 = 4.8
Identities = 8/32 (25%), Positives = 12/32 (37%), Gaps = 2/32 (6%)
Query: 122 DGVEDALATELRTRQQCIAEI--TEMIHVASL 151
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 = 5.5
Identities = 13/40 (32%), Positives = 16/40 (40%), Gaps = 1/40 (2%)
Query: 302 RHGIITAPILFAMEEFPQLRTVVEQGFEDSSNVDIALEYL 341
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 = 7.2
Identities = 16/69 (23%), Positives = 27/69 (39%)
Query: 106 LLMATALNVRVPEPLHDGVEDALATELRTRQQCIAEITEMIHVASLLHDDVLDDADTRRG 165
L T ++R D + L +QC +++ V S+ +V D A R
Sbjct: 121 ALRHTIGDIRENREFLQLRGDKYSVFLEAFEQCAENGADLLSVESMGGKEVFDYAVLRND 180
Query: 166 IGSLNFVMG 174
I L + +G
Sbjct: 181 IPGLLYSIG 189
>2q7b_A Acetyltransferase, GNAT family; NP_689019.1, structural GEN joint
center for structural genomics, JCSG; HET: MSE FLC;
2.00A {Streptococcus agalactiae 2603V}
Length = 181
Score = 26.7 bits (59), Expect = 9.1
Identities = 7/41 (17%), Positives = 15/41 (36%), Gaps = 3/41 (7%)
Query: 249 CKAIALLAGQTAEVAILAFD---YGKNLGLAYQLIDDVLDF 286
A+ + +TA + G + L +L + + F
Sbjct: 85 SIALLRIDDKTAVLKKFFTYPKYRGNPVRLGRKLFERFMLF 125
>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 = 9.9
Identities = 10/57 (17%), Positives = 17/57 (29%), Gaps = 8/57 (14%)
Query: 82 KLASAAEYFFKMGVEGKRFRPTV-------LLLMATALNVRVPEPLHDGVEDALATE 131
+LA F K + + L + + VP+ + LA E
Sbjct: 35 ELADGTPLFVKALPDDAPALDGLFRAEALGLDWLGRSFGSPVPQVAGWD-DRTLAME 90
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
0.318 0.132 0.361
Gapped
Lambda K H
0.267 0.0696 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 5,877,635
Number of extensions: 369083
Number of successful extensions: 902
Number of sequences better than 10.0: 1
Number of HSP's gapped: 731
Number of HSP's successfully gapped: 65
Length of query: 395
Length of database: 6,701,793
Length adjustment: 96
Effective length of query: 299
Effective length of database: 4,021,377
Effective search space: 1202391723
Effective search space used: 1202391723
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: 58 (26.2 bits)