RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= 024463
(267 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 = 304 bits (780), Expect = e-103
Identities = 180/292 (61%), Positives = 220/292 (75%), Gaps = 27/292 (9%)
Query: 3 VILLMATALNVCTPELSPNVLGNTLILDLRRRQQCIAEITEMIHVASLIHDDVLDDADTR 62
++LLMATAL+V PE + + +LR RQ+ IAEITEMIHVASL+HDDVLDDADTR
Sbjct: 57 ILLLMATALDVRVPEALIGESTDIVTSELRVRQRGIAEITEMIHVASLLHDDVLDDADTR 116
Query: 63 RGIGSLSSVMGNKLAILAGDLLISRALVALASLKHTEVI--------------------- 101
RG+GSL+ VMGNK+++LAGD L+SRA ALA+LK+TEV+
Sbjct: 117 RGVGSLNVVMGNKMSVLAGDFLLSRACGALAALKNTEVVALLATAVEHLVTGETMEITSS 176
Query: 102 ------MECYMQKTYNKTAALVSNSCKAVAYLSGQREEVATLAFEYGKNLGLAYQLIDDI 155
M+ YMQKTY KTA+L+SNSCKAVA L+GQ EVA LAFEYG+NLGLA+QLIDDI
Sbjct: 177 TEQRYSMDYYMQKTYYKTASLISNSCKAVAVLTGQTAEVAVLAFEYGRNLGLAFQLIDDI 236
Query: 156 LDFTGTSASLGKASLTDLRNGIITAPILFAMEEFPQLRAFINSSSDNPANVDVILEYLGK 215
LDFTGTSASLGK SL+D+R+G+ITAPILFAMEEFPQLR ++ +P NVD+ LEYLGK
Sbjct: 237 LDFTGTSASLGKGSLSDIRHGVITAPILFAMEEFPQLREVVDQVEKDPRNVDIALEYLGK 296
Query: 216 SHGIQRTTELALKHASLAAAAIDSLPETHDVDATNARTALVHITQKIITRNK 267
S GIQR ELA++HA+LAAAAI SLPET + D +R AL+ +T ++ITRNK
Sbjct: 297 SKGIQRARELAMEHANLAAAAIGSLPETDNEDVKRSRRALIDLTHRVITRNK 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 = 211 bits (539), Expect = 2e-67
Identities = 64/259 (24%), Positives = 114/259 (44%), Gaps = 36/259 (13%)
Query: 38 IAEITEMIHVASLIHDDVLDDADTRRGIGSLSSVMGNKLAILAGDLLISRALVALA---- 93
A E++HV +LIHDDV+DD+ TRRG+ ++ G + AI AGD + + +
Sbjct: 81 GAAAIEILHVGTLIHDDVIDDSPTRRGVRTIQMTYGQRNAIYAGDFMFTVYFDQVLKSTT 140
Query: 94 ------------------------SLKHTEVIMECYMQKTYNKTAALVSNSCKAVAYLSG 129
++ ++ Y+ + KTA L + SC A L+G
Sbjct: 141 DRSLIQNHIDAMHRILQGELHQMDLNYREDITLDAYLNEIAGKTAELFALSCYQGAQLAG 200
Query: 130 QREEVATLAFEYGKNLGLAYQLIDDILDFTGTSASLGKASLTDLRNGIITAPILFAMEEF 189
+ V + G +G AYQ++DDILD+ G K L DLR+G+ + P+L ++
Sbjct: 201 APQSVIDRTRDIGIAIGCAYQMLDDILDYAGDPKRTQKPVLEDLRSGVYSLPLLLSLSHA 260
Query: 190 P--QLRAFINSSSDNPANVDVILEYLGKSHGIQRTTELALKHASLAAAAIDSLPETHDVD 247
P + + ++ + + + G+ +LA + A I LP
Sbjct: 261 PRDFHKLLKKKQAMTLEDIKHVQALVAQYDGVGAAKQLAQDYTDRALTLIQQLPV----- 315
Query: 248 ATNARTALVHITQKIITRN 266
+A+ +L +T+ ++ R+
Sbjct: 316 -GSAQQSLEQLTRLLLRRD 333
>3aqb_B Component B of hexaprenyl diphosphate synthase; prenyltransferase,
transferase; 2.40A {Micrococcus luteus} PDB: 3aqc_B*
Length = 325
Score = 204 bits (520), Expect = 9e-65
Identities = 72/262 (27%), Positives = 125/262 (47%), Gaps = 39/262 (14%)
Query: 38 IAEITEMIHVASLIHDDVLDDADTRRGIGSLSSVMGNKLAILAGDLLISRALVALASLKH 97
A E++H+ASL+HDD +D++D RRG S+ AI G L++RAL +A++ +
Sbjct: 69 TAVSLELVHMASLVHDDYIDNSDMRRGNTSVHIAFDKDTAIRTGHFLLARALQNIATINN 128
Query: 98 TEVI---------------------------MECYMQKTYNKTAALVSNSCKAVAYLSGQ 130
++ Y+++ KTA L+ SC A S
Sbjct: 129 SKFHQIFSKTILEVCFGEFDQMADRFNYPVSFTAYLRRINRKTAILIEASCHLGALSSQL 188
Query: 131 REEVATLAFEYGKNLGLAYQLIDDILDFTGTSASLGKASLTDLRNGIITAPILFAM---- 186
E+ ++G +G++YQ+IDDILD+T A+LGK +D+RNG IT P++ A+
Sbjct: 189 DEQSTYHIKQFGHCIGMSYQIIDDILDYTSDEATLGKPVGSDIRNGHITYPLMAAIANLK 248
Query: 187 -EEFPQLRAFI-NSSSDNPANVDVILEYLGKSHGIQRTTELALKHASLAAAAIDSLPETH 244
++ +L A + + +S + V + K +GI+ L+ K+ A + L +
Sbjct: 249 EQDDDKLEAVVKHLTSTSDDEVYQYIVSQVKQYGIEPAELLSRKYGDKAKYHLSQLQD-- 306
Query: 245 DVDATNARTALVHITQKIITRN 266
+N + L I +K++ R
Sbjct: 307 ----SNIKDYLEEIHEKMLKRV 324
>3oyr_A Trans-isoprenyl diphosphate synthase; isoprenyl synthase, PSI,
protein structure initiative; HET: IPE; 2.00A
{Caulobacter crescentus}
Length = 345
Score = 198 bits (506), Expect = 2e-62
Identities = 70/260 (26%), Positives = 108/260 (41%), Gaps = 38/260 (14%)
Query: 38 IAEITEMIHVASLIHDDVLDDADTRRGIGSLSSVMGNKLAILAGDLLISRALVALASLKH 97
+A E IH A+L+HDDV+D + RRG + + G ++L GD L +RA +
Sbjct: 90 LAAAVEFIHTATLLHDDVVDGSQLRRGKVAAHLIWGGAQSVLVGDFLFARAFELMVETNS 149
Query: 98 TEVI---------------------------MECYMQKTYNKTAALVSNSCKAVAYLSGQ 130
+ + Y++ KTA L + + +A A +G
Sbjct: 150 MKALEILARASRVIAEGEVLQLMRSHDLNLSQAVYLEIIQAKTAELFAAASEAGAVSAGV 209
Query: 131 REEVATLAFEYGKNLGLAYQLIDDILDFTGTSASLGKASLTDLRNGIITAPILFAM---- 186
+ +YG NLGLA+QL DD LD+ G + +LGK + D R G T P+L A+
Sbjct: 210 DVAKSEALRDYGLNLGLAFQLADDALDYGGATETLGKNAGDDFREGKATLPLLLAIARSG 269
Query: 187 -EEFPQLRAFINSSSDNPANVDVILEYLGKSHGIQRTTELALKHASLAAAAIDSLPETHD 245
E I A+ E + S + T +LA +A A AA+ P
Sbjct: 270 PREAEFWERAIGRREQTEADFRRARELIIGSGALDATLDLAADYADKAKAALAMFPA--- 326
Query: 246 VDATNARTALVHITQKIITR 265
+ R AL + ++R
Sbjct: 327 ---NDWREALEELADFAVSR 343
>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 = 197 bits (504), Expect = 8e-62
Identities = 69/256 (26%), Positives = 120/256 (46%), Gaps = 35/256 (13%)
Query: 39 AEITEMIHVASLIHDDVLDDADTRRGIGSLSSVMGNKLAILAGDLLISRALVALASLKHT 98
A + E+ H+A+L HDDV+D+A RRG+ S ++ N +AILAGD+L++ A ++ L
Sbjct: 101 AVVVEITHLATLYHDDVMDEASMRRGVPSANARWDNSVAILAGDILLAHASGLMSQLGTD 160
Query: 99 EV-------------------------IMECYMQKTYNKTAALVSNSCKAVAYLSGQREE 133
V +E Y KT L++++ A +G E
Sbjct: 161 TVAHFAETFGELVTGQMRETVGPRDTDPIEHYTNVIREKTGVLIASAGYLGAMHAGAAPE 220
Query: 134 VATLAFEYGKNLGLAYQLIDDILDFTGTSASLGKASLTDLRNGIITAPILFAM----EEF 189
+G +G+ +Q++DDI+D + GK TDLR G+ T P+L+A+
Sbjct: 221 HIDALKNFGAAVGMIFQIVDDIIDIFSETHESGKTPGTDLREGVFTLPVLYALREDTPVG 280
Query: 190 PQLRAFINSSSDNPANVDVILEYLGKSHGIQRTTELALKHASLAAAAIDSLPETHDVDAT 249
+LR + ++ V+ +LE L +S G Q + ++ +A A +D LP+ +
Sbjct: 281 AELRDILTGPLEDDETVNHVLELLSQSGGRQAALDEVYRYMDIANAELDRLPD------S 334
Query: 250 NARTALVHITQKIITR 265
+ AL ++ + R
Sbjct: 335 TVKEALRNLATFTVKR 350
>3rmg_A Octaprenyl-diphosphate synthase; structural genomics, protein
structure initiative, isoprene biosynthesis,
transferase; 2.30A {Bacteroides thetaiotaomicron}
Length = 334
Score = 196 bits (501), Expect = 8e-62
Identities = 67/262 (25%), Positives = 116/262 (44%), Gaps = 39/262 (14%)
Query: 38 IAEITEMIHVASLIHDDVLDDADTRRGIGSLSSVMGNKLAILAGDLLISRALVALASLKH 97
A E++H ASL+HDDV+D++ RRG S++++ NK+++LAGD L++ +LV +
Sbjct: 72 AAVSLELLHTASLVHDDVVDESTERRGQLSVNAIFNNKVSVLAGDYLLATSLVHAEQTNN 131
Query: 98 TEVI---------------------------MECYMQKTYNKTAALVSNSCKAVAYLSGQ 130
E+I E Y KTAAL + +A A
Sbjct: 132 YEIIRLVSSLGQKLAEGELLQLSNVSNHSFSEEVYFDVIRKKTAALFAACAEAAALSVQV 191
Query: 131 REEVATLAFEYGKNLGLAYQLIDDILDFTGTSASLGKASLTDLRNGIITAPILFAM---- 186
EE A G+ +G+ +Q+ DDI D+ S +GK + D+ G +T P L+A+
Sbjct: 192 GEEEVAFARLLGEYIGICFQIKDDIFDYFD-SKKIGKPTGNDMLEGKLTLPALYALNTTK 250
Query: 187 -EEFPQLRAFINSSSDNPANVDVILEYLGKSHGIQRTTELALKHASLAAAAIDSLPETHD 245
Q+ + + P + ++E+ + GI+ ++ A + +LP+
Sbjct: 251 DAWAEQIAFKVKEGTATPDEIVRLIEFTKDNGGIEYACRTIEQYKKKAFDLLAALPD--- 307
Query: 246 VDATNARTALVHITQKIITRNK 267
+N AL ++ R K
Sbjct: 308 ---SNICLALRTYLDYVVAREK 326
>3mzv_A Decaprenyl diphosphate synthase; transferase, structural genomics,
PSI-2, protein structure initiative; 1.90A {Rhodobacter
capsulatus}
Length = 341
Score = 192 bits (489), Expect = 8e-60
Identities = 64/262 (24%), Positives = 115/262 (43%), Gaps = 38/262 (14%)
Query: 38 IAEITEMIHVASLIHDDVLDDADTRRGIGSLSSVMGNKLAILAGDLLISRALVALASLKH 97
+A E IH A+L+HDDV+D++ RRG + + + NK ++L GD L +R+ + +
Sbjct: 78 LAATVEFIHTATLLHDDVVDESRQRRGRPTANLLWDNKSSVLVGDYLFARSFQLMTDTGN 137
Query: 98 TEVI---------------------------MECYMQKTYNKTAALVSNSCKAVAYLSGQ 130
V+ + Y++ KTAAL S + + + G
Sbjct: 138 MRVMEILANASAVIAEGEVLQLTAAQNLATTEDIYLRVIRGKTAALFSAATEVGGIIGGA 197
Query: 131 REEVATLAFEYGKNLGLAYQLIDDILDFTGTSASLGKASLTDLRNGIITAPILFAM---- 186
E+ F+YG LG+A+Q++DD+LD+ G SA +GK + D R +T P++ A+
Sbjct: 198 PEDQVQALFDYGDALGIAFQIVDDLLDYGGKSAEIGKNTGDDFRERKLTMPVIKAVALAD 257
Query: 187 -EEFPQLRAFINSSSDNPANVDVILEYLGKSHGIQRTTELALKHASLAAAAIDSLPETHD 245
E + I +++ + + K ++ T A+ A A+ LP+
Sbjct: 258 EAERAFWKRVIEKGDQQDGDLEHAMALMTKHGTLEATRLAAIGWTDTARKALAKLPD--- 314
Query: 246 VDATNARTALVHITQKIITRNK 267
R L + ++ R +
Sbjct: 315 ---HPLRQMLDDLADYVVERVR 333
>3tc1_A Octaprenyl pyrophosphate synthase; all alpha-helices fold,
transferase; 2.00A {Helicobacter pylori}
Length = 315
Score = 184 bits (470), Expect = 3e-57
Identities = 65/258 (25%), Positives = 114/258 (44%), Gaps = 42/258 (16%)
Query: 38 IAEITEMIHVASLIHDDVLDDADTRRGIGSLSSVMGNKLAILAGDLLISRALVALASL-- 95
+ I EMI ASL+HDDV+D A RR + S++++ GN A++ GD+ S+A L+ +
Sbjct: 62 LCTIVEMIQTASLLHDDVIDKATMRRKLPSINALFGNFNAVMLGDVFYSKAFFELSKMGE 121
Query: 96 ------------------------KHTEVIMECYMQKTYNKTAALVSNSCKAVAYLSGQR 131
+ + Y + +KTA + S K++A L +
Sbjct: 122 LIAQALSNAVLRLSRGEIEDVFVGECFNSDKQKYWRILEDKTAHFIEASLKSMAILLNKD 181
Query: 132 EEVATLAFEYGKNLGLAYQLIDDILDFTGTSASLGKASLTDLRNGIITAPILFAMEEF-P 190
++ ++G N G+A+Q+IDD+LD T + +LGK + +D + G T P L E+
Sbjct: 182 AKI---YADFGLNFGMAFQIIDDLLDITQDAKTLGKPNFSDFKEGKTTLPYLLLYEKLNQ 238
Query: 191 QLRAFINS--SSDNPANVDVILEYLGKSHGIQRTTELALKHASLAAAAIDSLPETHDVDA 248
+ + S D+ ++ E + I+ T + A ++ A AI
Sbjct: 239 HDQGLLISYFKQDSHEIIEWTKEKFKQYGIIEETLKTAQVYSKKALEAIKGEN------- 291
Query: 249 TNARTALVHITQKIITRN 266
L + Q +I+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 = 181 bits (461), Expect = 4e-56
Identities = 57/243 (23%), Positives = 105/243 (43%), Gaps = 35/243 (14%)
Query: 38 IAEITEMIHVASLIHDDVLDDADTRRGIGSLSSVMGNKLAILAGDLLISRALVALASLKH 97
E++H+ASL+HDDV+D A RRG +++ + G+K A+ AGDL++ A + + +
Sbjct: 66 SLAALELVHLASLLHDDVIDGARFRRGKETINFMYGDKAAVAAGDLVLVSAFHTVEEIGN 125
Query: 98 TEVI--------------------------MECYMQKTYNKTAALVSNSCKAVAYLSGQR 131
++ E Y++ K+ AL + + A L G+
Sbjct: 126 NKLRRAFLNVIGKMSEAELIEQLSRYKPITKEEYLRIVEGKSGALFGLALQLPALLEGEL 185
Query: 132 EEVATLAFEYGKNLGLAYQLIDDILDFTGTSASLGKASLTDLRNGIITAPILFAMEEFPQ 191
E + G +G YQ+ DDI+DF G +GK DL+NG+ + P++ AME+FP+
Sbjct: 186 GED---LYNLGVTIGTIYQMFDDIMDFAGM-EKIGKDGFLDLKNGVASFPLVTAMEKFPE 241
Query: 192 LRAFINSSSDNPANVDVILEYLGKSHGIQRTTELALKHASLAAAAIDSLPETHDVDATNA 251
R + + ++ ++ + ++ E L + D
Sbjct: 242 ARQMFEN-----RDWSGLMSFMREKGILKECEETLKVLVKNVIIENSWLRDFVDGIFKIK 296
Query: 252 RTA 254
++
Sbjct: 297 ISS 299
>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 = 168 bits (429), Expect = 2e-51
Identities = 54/262 (20%), Positives = 94/262 (35%), Gaps = 42/262 (16%)
Query: 38 IAEITEMIHVASLIHDDVLDDADTRRGIGSLSSVMGNKLAILAGDLLISRALVALASLKH 97
I E+TEM+H ASL+ DD+ D++ RRG S+ G I + + + L + +L H
Sbjct: 50 IIEVTEMLHNASLLIDDIEDNSKLRRGFPVAHSIYGIPSVINSANYVYFLGLEKVLTLDH 109
Query: 98 TEVI----------------------------MECYMQKTYNKTAALVSNSCKAVAYLSG 129
+ + E Y KT L + + S
Sbjct: 110 PDAVKLFTRQLLELHQGQGLDIYWRDNYTCPTEEEYKAMVLQKTGGLFGLAVGLMQLFSD 169
Query: 130 QREEVATLAFEYGKNLGLAYQLIDDILDFTGTSASLGKASLTDLRNGIITAPILFAMEEF 189
+E++ LGL +Q+ DD + S K+ DL G + P + A+
Sbjct: 170 YKEDLK----PLLNTLGLFFQIRDDYANLHSKEYSENKSFCEDLTEGKFSFPTIHAIWSR 225
Query: 190 P---QLRAFINSSSDNPANVDVILEYLGKSHGIQRTTELALKHASLAAAAIDSLPETHDV 246
P Q++ + ++N + YL + T + + A ID+
Sbjct: 226 PESTQVQNILRQRTENIDIKKYCVHYLEDVGSFEYTRNTLKELEAKAYKQIDARGGNP-- 283
Query: 247 DATNARTALVH-ITQKIITRNK 267
ALV +++ N+
Sbjct: 284 ----ELVALVKHLSKMFKEENE 301
>1wy0_A Geranylgeranyl pyrophosphate synthetase; pyrococcus horikosh
structural genomics, riken structural
genomics/proteomics initiative, RSGI; 2.20A {Pyrococcus
horikoshii}
Length = 342
Score = 165 bits (421), Expect = 1e-49
Identities = 71/272 (26%), Positives = 111/272 (40%), Gaps = 54/272 (19%)
Query: 43 EMIHVASLIHDDVLDDADTRRGIGSLSSVMGNKLAILAGDLLISRALVALASL------- 95
E+IH SL+HDD++D +TRRG ++ + G +AILAGDLL S+A A+A
Sbjct: 76 ELIHNYSLVHDDIMDMDETRRGKPTVHRIWGVNMAILAGDLLFSKAFEAVARAEIPPEKK 135
Query: 96 -------------------------KHTEVIMECYMQKTYNKTAALVSNSCKAVAYLSGQ 130
K + V +E YM+ KT AL S K +
Sbjct: 136 ARVLEVIVKASNELCEGQARDLEFEKKSTVTIEEYMEMISGKTGALFEASAKVGGIIGTD 195
Query: 131 REEVATLAFEYGKNLGLAYQLIDDILDFTGTSASLGKASLTDLRNGIITAPILFAME--- 187
EE +G+N+G+A+Q+ DD+LD LGK +D+R G T + E
Sbjct: 196 NEEYIKALSSWGRNVGIAFQIWDDVLDLIADEKKLGKPVGSDIRKGKKTLIVAHFFENAD 255
Query: 188 --EFPQLRAFINSSSDNP-----------ANVDVILEYLGKSHGIQRTTELALKHASLAA 234
+ + + + ++V ++ L K I E+A A
Sbjct: 256 EKDKQRFLKIFGKYAGDVKGRGIIEEDIKSDVMEAIDLLKKYGSIDYAAEIAKDMIKKAN 315
Query: 235 AAIDSLPETHDVDATNARTALVHITQKIITRN 266
A+ LP+ + AR L + + I+ R
Sbjct: 316 EALRILPK------SKARMDLELLAKFIVERE 341
>3ipi_A Geranyltranstransferase; isoprene biosynthesis, helical bundle,
protein structure initiative II (PSI II), structural
genomics, nysgxrc; 1.90A {Methanosarcina mazei}
Length = 295
Score = 163 bits (414), Expect = 4e-49
Identities = 59/253 (23%), Positives = 91/253 (35%), Gaps = 62/253 (24%)
Query: 38 IAEITEMIHVASLIHDDVLDDADTRRGIGSLSSVMGNKLAILAGDLLISRALVALASL-- 95
A EM+H ASLIHDD+LD RR + S G A+L GD LI++++ ++
Sbjct: 67 AALAVEMMHSASLIHDDLLDQGLVRRNLPSAPEKFGPSGALLCGDYLIAKSIAFISPYGE 126
Query: 96 -----------------------KHTEVIMECYMQKTYNKTAALVSNSCKAVAYLSGQRE 132
+ Y + Y KTA+L + S AY G E
Sbjct: 127 KVIQDFGKAGMDMAEGEVLDLKLEDESFGENDYFKCIYKKTASLFAISASIGAYTGGAEE 186
Query: 133 EVATLAFEYGKNLGLAYQLIDDILDFTGTSASLGKASLTDLRNGIITAPILFAMEEFPQL 192
E+A +G LG AYQ++DDIL+F + + T P ++
Sbjct: 187 ELAERFSHFGNALGTAYQIVDDILEFL------EVVEGKESKFTSETLPHIYMKST---- 236
Query: 193 RAFINSSSDNPANVDVILEYLGKSHGIQRTTELALKHASLAAAAIDSLPETHDVDATNAR 252
K ++++ + H + A +++ E AR
Sbjct: 237 ---------------------SKEEALKKSIDCVKLHVAAAKETLETFRE------CPAR 269
Query: 253 TALVHITQKIITR 265
L IT I
Sbjct: 270 DKLFQITDYITVD 282
>4dhd_A Polyprenyl synthetase; isoprenoid synthesis, isoprenoid diphosphate
synthase, trans; 1.65A {Pyrobaculum calidifontis}
Length = 358
Score = 163 bits (414), Expect = 1e-48
Identities = 52/270 (19%), Positives = 90/270 (33%), Gaps = 55/270 (20%)
Query: 43 EMIHVASLIHDDVLDDADTRRGIGSLSSVMGNKLAILAGDLLISRALVALASLKHTEVIM 102
E+IH SLI+DD++D D RRG+ ++ G+ AIL G A+ +
Sbjct: 75 ELIHNYSLIYDDIIDRGDVRRGLPTVRKAFGDNAAILVGIWYREAIEEAVLDTPKPTLFA 134
Query: 103 EC----------------------------------------YMQKTYNKTAALVSNSCK 122
+ Y++ KT AL++ + K
Sbjct: 135 KEVAEVIKAIDEGERLDILFEAAGRSDPYFVQARWREVTLDDYIKMVSLKTGALIAAAAK 194
Query: 123 AVAYLSGQREEVATLAFEYGKNLGLAYQLIDDILDFTGTSASLGKASLTDLRNGIITAPI 182
+A A+ +G G+A+Q+IDD+LD G GK D++ +
Sbjct: 195 WGVLSVSDDRGLAEAAWNFGMAAGVAFQIIDDVLDIYGDPKKFGKEIGKDIKEHKRGNAV 254
Query: 183 LFAM------EEFPQLRAFINSSSDNPANVDVILEYLGKSHGIQRTTELALKHASLAAAA 236
+ E +L + A+V + L + LA ++ A
Sbjct: 255 VAVALSHLGEGERRRLLEILAREVVEEADVREAVALLDSVGAREEALRLAARYREEAERH 314
Query: 237 IDSLPETHDVDATNARTALVHITQKIITRN 266
+ +P L + I+ R
Sbjct: 315 LAKIPN---------NGTLKELLDFIVARE 335
>3nf2_A Putative polyprenyl synthetase; isoprenyl diphosphate synthase,
structural genomics, PSI, PR structure initiative,
nysgrc; 2.20A {Streptomyces coelicolor}
Length = 352
Score = 161 bits (410), Expect = 5e-48
Identities = 58/266 (21%), Positives = 108/266 (40%), Gaps = 46/266 (17%)
Query: 43 EMIHVASLIHDDVLDDADTRRGIGSLSSVMGNKLAILAGDLLISRA---LVALASLKHTE 99
E++H SL+HDD++D + RR ++ V G AIL GD L + A L+ L +++
Sbjct: 84 ELVHNFSLLHDDLMDGDEQRRHRDTVWKVHGPAQAILVGDALFALANEVLLELGTVEAGR 143
Query: 100 VI---------------------------MECYMQKTYNKTAALVSNSCKAVAYLSGQRE 132
+E ++ NKT AL++ + A L G E
Sbjct: 144 ATRRLTKASRSLIDGQAQDISYEHRDRVSVEECLEMEGNKTGALLACASSIGAVLGGADE 203
Query: 133 EVATLAFEYGKNLGLAYQLIDDILDFTGTSASLGKASLTDLRNGIITAPILFAMEE-FPQ 191
A +YG +LGLA+Q +DD+L G + GK + +DLR + P++ A+
Sbjct: 204 RTADTLEKYGYHLGLAFQAVDDLLGIWGDPDATGKQTWSDLRQRKKSLPVVAALAAGGAA 263
Query: 192 LRAFI----------NSSSDNPANVDVILEYLGKSHGIQRTTELALKHASLAAAAIDSLP 241
+ ++ + + ++ G + T + A + ++A A+D++
Sbjct: 264 SERLGEILTADAKASDFANFSEEEFAARAALIEEAGGREWTADEARRQHTIAIEALDAVD 323
Query: 242 ETHDVDATNARTALVHITQKIITRNK 267
R + ++ R +
Sbjct: 324 MPDR-----VRDRFTALADFVVVRKR 344
>2azj_A Geranylgeranyl pyrophosphate synthetase; hexpps,
trans-prenyltransferase; 2.40A {Sulfolobus solfataricus}
PDB: 2azk_A
Length = 289
Score = 147 bits (373), Expect = 3e-43
Identities = 46/211 (21%), Positives = 77/211 (36%), Gaps = 29/211 (13%)
Query: 38 IAEITEMIHVASLIHDDVLDDADTRRGIGSLSSVMGNKLAILAGDLLISRALVALASLKH 97
A E++H ASL D++D TRRG + V GN+ I + LI AL + +
Sbjct: 74 GALAIEILHSASLALCDIVDLDATRRGDKAAWVVYGNRKVIFITNYLIPTALRIIQTSYG 133
Query: 98 TEVI--------------------MECYMQKTYNKTAALVSNSCKAVAYLSGQREEVATL 137
+ + Y++ KT +L S AY S +
Sbjct: 134 DDALNTSIELWKDTSVGALRDMYDNSDYIRTIELKTGSLFKLSTVLSAYASKHYNTKQQM 193
Query: 138 AFEYGKNLGLAYQLIDDILDFTGTSA----SLGKASLTDLRNGIITAPILFAMEEF-PQL 192
+ GK LG+ YQ+IDD +D+ K R G + + E+ +
Sbjct: 194 L-DVGKYLGIIYQVIDDFVDYKTKKVEEIDGSAKQLFKYYREGKLEEYVRSVYLEYKQKY 252
Query: 193 RAFINS---SSDNPANVDVILEYLGKSHGIQ 220
I++ S + + + E+L +
Sbjct: 253 DELISNIPFQSKYLSEIRSLPEFLANGLLKE 283
>4fp4_A Polyprenyl synthetase; isoprenoid synthesis, isoprenoid diphosphate
synthase, trans; HET: GER UNL; 2.00A {Pyrobaculum
calidifontis}
Length = 285
Score = 142 bits (359), Expect = 4e-41
Identities = 46/220 (20%), Positives = 81/220 (36%), Gaps = 34/220 (15%)
Query: 39 AEITEMIHVASLIHDDVLDDADTRRGIGSLSSVMGNKLAILAGDLLISRALVALASL--- 95
A I E++HV SL+ DDV+D D RRGI + ++ G+ AI+A D LI+ ++ +L
Sbjct: 74 AAIVELLHVVSLLQDDVMDQHDQRRGIKTPRAMYGDGRAIVASDWLIAESIKMAVNLGAD 133
Query: 96 ------KHTEVI--------MECYMQKTYNKTAALVSNSCKAVAYLSGQREEVATLAFEY 141
+ + + KTA L+ + + G+RE + T +
Sbjct: 134 VVTYLADVAQRLSVGQALDLEGERDKAAEFKTAPLIEAALVMPLVILGRRELIETAK-KL 192
Query: 142 GKNLGLAYQLIDDILDFTGTSASLGKASLTDLRNGIITAPILFAM-----EEFPQLRAFI 196
G LG+ YQ DD D K+ ++ G I + ++ I
Sbjct: 193 GTKLGILYQYSDDYSDENVERPE-TKSIANEI--GRYLLKIKEHVGDAIAPFERLIKYLI 249
Query: 197 NSSSDNPANVDVILEYLGKSHGIQRTTELALKHASLAAAA 236
+ + V + + + H +
Sbjct: 250 GKALEGTLTVSRTIA--------ENLYFQSHHHHHHWSHP 281
>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 = 142 bits (361), Expect = 7e-41
Identities = 48/273 (17%), Positives = 94/273 (34%), Gaps = 46/273 (16%)
Query: 38 IAEITEMIHVASLIHDDVLDDADTRRGIGSLSSVMGNKLAILAGDLLISRALVALASLKH 97
+++I E++H +SL+ DD+ D+A RRG + + G I + + RA+ ++ L
Sbjct: 65 VSQIVELLHNSSLLIDDIEDNAPLRRGQTTSHLIFGVPSTINTANYMYFRAMQLVSQLTT 124
Query: 98 -----------------------------------TEVIMECYMQKTYNKTAALVSNSCK 122
E Y+ NKT L + +
Sbjct: 125 KEPLYHNLITIFNEELINLHRGQGLDIYWRDFLPEIIPTQEMYLNMVMNKTGGLFRLTLR 184
Query: 123 AVAYLSGQREEVATLAFEYGKNLGLAYQLIDDILDFTGTSASLGKASLTDLRNGIITAPI 182
+ LS +L + LG+ YQ+ DD L+ S K D+ G ++ PI
Sbjct: 185 LMEALSPSSHHGHSLV-PFINLLGIIYQIRDDYLNLKDFQMSSEKGFAEDITEGKLSFPI 243
Query: 183 LFAME------EFPQLRAFINSSSDNPANVDV---ILEYLGKSHG-IQRTTELALKHASL 232
+ A+ + Q + ++ D+ +++ L + T + ++
Sbjct: 244 VHALNFTKTKGQTEQHNEILRILLLRTSDKDIKLKLIQILEFDTNSLAYTKNFINQLVNM 303
Query: 233 AAAAIDSLPETHDVDATNARTALVHITQKIITR 265
++ ++ T L II
Sbjct: 304 IKNDNENKYLPDLASHSDTATNLHDELLYIIDH 336
>1wmw_A Geranylgeranyl diphosphate synthetase; GGPP, prenyl diphosphate
synthase, structural genom riken structural
genomics/proteomics initiative; 1.55A {Thermus
thermophilus}
Length = 330
Score = 139 bits (353), Expect = 9e-40
Identities = 58/265 (21%), Positives = 97/265 (36%), Gaps = 47/265 (17%)
Query: 43 EMIHVASLIHDDVLDDADTRRGIGSLSSVMGNKLAILAGDLLISRALVALASLKH----- 97
E+ L+HDD+ D ++ RRG +L + LA+ AGD + + LA
Sbjct: 69 ELFQNWVLVHDDIEDGSEERRGRPALHRLHPMPLALNAGDAMHAEMWGLLAEGLARGLFP 128
Query: 98 -----------------------------TEVIMECYMQKTYNKTAAL-VSNSCKAVAYL 127
++ E Y + +K A + A L
Sbjct: 129 PEVLLEFHEVVRRTAYGQHLDLLWTLGGTFDLRPEDYFRMVAHKAAYYTAVAPLRLGALL 188
Query: 128 SGQREEVATLAFEYGKNLGLAYQLIDDILDFTGTSASLGKASLTDLRNGIITAPILFAME 187
+G+ A E G LG A+Q++DD+L+ G A GK DL G T +L +E
Sbjct: 189 AGKTPPAA--YEEGGLRLGTAFQIVDDVLNLEGGEA-YGKERAGDLYEGKRTLILLRFLE 245
Query: 188 -----EFPQLRAFINSSSDN--PANVDVILEYLGKSHGIQRTTELALKHASLAAAAIDSL 240
E + A + + A V +LE L S + A + + A +++
Sbjct: 246 EAPPEERARALALLALPREAKPEAEVGWLLERLLASRALAWAKAEAKRLQAEGLALLEAA 305
Query: 241 PETHDVDATNARTALVHITQKIITR 265
+ D+ A L + ++ R
Sbjct: 306 FQ--DLPGKEALDHLRGLLAALVER 328
>3lk5_A Geranylgeranyl pyrophosphate synthase; structural genomics, protein
structure initiative, geranylge pyrophosphate synthase;
1.90A {Corynebacterium glutamicum} PDB: 3qqv_A*
Length = 380
Score = 139 bits (352), Expect = 3e-39
Identities = 62/282 (21%), Positives = 103/282 (36%), Gaps = 63/282 (22%)
Query: 43 EMIHVASLIHDDVLDDADTRRG----------------IGSLSSVMGNKLAILAGDLLIS 86
E I +LIHDD++D +DTRRG G ++ILAGD+ +
Sbjct: 98 EFIQACALIHDDIIDSSDTRRGAPTVHRAVEADHRANNFEGDPEHFGVSVSILAGDMALV 157
Query: 87 RALVALASLKH----------------TEVI----------------MECYMQKTYNKTA 114
A L TEVI +E KTA
Sbjct: 158 WAEDMLQDSGLSAEALARTRDAWRGMRTEVIGGQLLDIYLESHANESVELADSVNRFKTA 217
Query: 115 A-LVSNSCKAVAYLSGQREEVATLAFEYGKNLGLAYQLIDDILDFTGTSASLGKASLTDL 173
A ++ A ++G ++ YG ++G+A+QL DD+L G A GK + D+
Sbjct: 218 AYTIARPLHLGASIAGGSPQLIDALLHYGHDIGIAFQLRDDLLGVFGDPAITGKPAGDDI 277
Query: 174 RNGIITAPILFAM--------EEFPQLRAFINSSSDNPANVDVILEYLGKSHGIQRTTEL 225
R G T + A+ E +RA + + P ++ VI E++ + + +
Sbjct: 278 REGKRTVLLALALQRADKQSPEAATAIRAGVGKVTS-PEDIAVITEHIRATGAEEEVEQR 336
Query: 226 ALKHASLAAAAIDSLPETHDVDATNARTALVHITQKIITRNK 267
+ A +D + + R L + + R +
Sbjct: 337 ISQLTESGLAHLDDVDIPDE-----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 = 128 bits (324), Expect = 3e-35
Identities = 47/268 (17%), Positives = 79/268 (29%), Gaps = 50/268 (18%)
Query: 43 EMIHVASLIHDDVLDDADTRRGIGSLSSVMGNKLAILAGDLLISRA-------------- 88
E+ ASL+ DD++D + TRRG G L + L+ +
Sbjct: 107 ELFQAASLVADDIMDQSLTRRGQLCWYKKEGVGLDAINDSFLLESSVYRVLKKYCRQRPY 166
Query: 89 ---LVALASLKHTEVI---------------------MECYMQKTYNKTAAL--VSNSCK 122
L+ L + E Y KTA
Sbjct: 167 YVHLLELFLQTAYQTELGQMLDLITAPVSKVDLSHFSEERYKAIVKYKTAFYSFYLPVAA 226
Query: 123 AVAYLSGQREEVATLAFEYGKNLGLAYQLIDDILDFTGTSASLGKASLTDLRNGIITAPI 182
A+ + +E A +G +Q+ DD LD G A G TD+++ + +
Sbjct: 227 AMYMVGIDSKEEHENAKAILLEMGEYFQIQDDYLDCFGDPALTGAVG-TDIQDNKCSWLV 285
Query: 183 LFAMEEF-PQLRAFI--NSSSDNPANVDVILEYLGKSHGIQRTTELALKHASLAAAAIDS 239
+ ++ P+ R + N P V + E + I+
Sbjct: 286 VQCLQRVTPEQRQLLEDNYGRKEPEKVAKVKELYEAVGMRAAFQQYEESSYRRLQELIEK 345
Query: 240 LPETHDVDATNARTALVHITQKIITRNK 267
+ + + QKI R K
Sbjct: 346 HSN------RLPKEIFLGLAQKIYKRQK 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 = 116 bits (291), Expect = 2e-30
Identities = 44/268 (16%), Positives = 78/268 (29%), Gaps = 50/268 (18%)
Query: 43 EMIHVASLIHDDVLDDADTRRGIGSLSSVMGNKL-AILAGDLLISRALVALASLK----- 96
E++ L+ DD++D + TRRG G L AI +LL + L
Sbjct: 114 ELLQAFFLVADDIMDSSLTRRGQICWYQKPGVGLDAINDANLLEACIYRLLKLYCREQPY 173
Query: 97 -----------HTEVI---------------------MECYMQKTYNKTAALVSNSCKAV 124
+ + Y K+A A
Sbjct: 174 YLNLIELFLQSSYQTEIGQTLDLLTAPQGNVDLVRFTEKRYKSIVKYKSAFYSFYLPIAA 233
Query: 125 AYLSGQ--REEVATLAFEYGKNLGLAYQLIDDILDFTGTSASLGKASLTDLRNGIITAPI 182
A E+ A + +G +Q+ DD LD G + GK TD+++ + +
Sbjct: 234 AMYMAGIDGEKEHANAKKILLEMGEFFQIQDDYLDLFGDPSVTGKIG-TDIQDNKCSWLV 292
Query: 183 LFAMEEF-PQLRAFI--NSSSDNPANVDVILEYLGKSHGIQRTTELALKHASLAAAAIDS 239
+ ++ P+ + N V + + + S A I+
Sbjct: 293 VQCLQRATPEQYQILKENYGQKEAEKVARVKALYEELDLPAVFLQYEEDSYSHIMALIEQ 352
Query: 240 LPETHDVDATNARTALVHITQKIITRNK 267
+ + +KI R K
Sbjct: 353 YAAPL------PPAVFLGLARKIYKRRK 374
>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 = 110 bits (277), Expect = 1e-28
Identities = 38/280 (13%), Positives = 76/280 (27%), Gaps = 60/280 (21%)
Query: 43 EMIHVASLIHDDVLDDADTRRGIGSLSSVMGNKLAILAGDLLISRALVALASLKH----- 97
E + L+ DD++D + RRG G D +I ++ + + +
Sbjct: 88 EFLQAHYLVEDDIMDGSVMRRGKPCWYRFPGVTTQCAINDGIILKSWTQIMAWHYFADRP 147
Query: 98 ---------------------------------------------TEVIMECYMQKTYNK 112
E Y + K
Sbjct: 148 FLKDLLCLFQKVDYATAVGQMYDVTSMCDSNKLDPEVAQPMTTDFAEFTPAIYKRIVKYK 207
Query: 113 TAAL-VSNSCKAVAYLSGQ-REEVATLAFEYGKNLGLAYQLIDDILDFTGTSASLGKASL 170
T ++S L +G +Q+ DD++D LGK
Sbjct: 208 TTFYTYLLPLVMGLFVSEAAASVEMNLVERVAHLIGEYFQVQDDVMDCFTPPEQLGKVG- 266
Query: 171 TDLRNGIITAPILFAMEEF-PQLRAFI--NSSSDNPANVDVILEYLGKSHGIQRTTELAL 227
TD+ + + + + + A N +PA V V+ +++
Sbjct: 267 TDIEDAKCSWLAVTFLGKANAAQVAEFKANYGDKDPAKVAVVKRLYSEANLQADFAAYEA 326
Query: 228 KHASLAAAAIDSLPETHDVDATNARTALVHITQKIITRNK 267
+ + I+ L + ++ + +K R K
Sbjct: 327 EVVREVESLIEQLKV----KSPTFAESVAVVWEKTHKRKK 362
>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 = 110 bits (276), Expect = 2e-28
Identities = 44/269 (16%), Positives = 70/269 (26%), Gaps = 51/269 (18%)
Query: 38 IAEITEMIHVASLIHDDVLDDADTRRGIGSLSSVMGNKLAILAGDLLISRALVALASLKH 97
+ + E I LI DD++D RRG V G AI L +L + L
Sbjct: 100 LGWVVEAIQALILIADDIMDSGKFRRGAPCWYIVHGQSNAINDIFFLKMLSLSLIFELSS 159
Query: 98 ------------------------------------TEVIMECYMQKTYNKTAAL-VSNS 120
+ I E Y KT+
Sbjct: 160 VFGNDIVMKIQKIYNESIFFTVLGQHLDLSYFDLSKADKISERYFSMVEMKTSRYTFYMP 219
Query: 121 CKAVAYLSGQR--EEVATLAFEYGKNLGLAYQLIDDILDFTGTSASLGKASLTDLRNGII 178
LS + L LG YQ+ +D+ D+ ++ D+ +
Sbjct: 220 VFFGLTLSEIQVSSAQLNLIEAILYKLGEFYQVHNDVSDYLF-----NDSNADDICRFKL 274
Query: 179 TAPILFAMEEFP--QLRAFINSSSDNPANVDVILEYLGKSHGIQRTTELALKHASLAAAA 236
T P+ + E + N + V L + AL +
Sbjct: 275 TWPLQKSFEIADEEMKLKISENYGKNSSLVKDCYNLLKINEHYLEYQRNALDYLIKLVKD 334
Query: 237 IDSLPETHDVDATNARTALVHITQKIITR 265
I D + I++ I
Sbjct: 335 ITD-----DSLQKVFIHLIHQISELITNS 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 = 107 bits (269), Expect = 3e-27
Identities = 41/318 (12%), Positives = 85/318 (26%), Gaps = 60/318 (18%)
Query: 5 LLMATALNVCTPELSPNVLGNTLILDLRRRQQCIAEITEMIHVASLIHDDVLDDADTRRG 64
+ +A +L +P + + + E + L+ DD++D++ TRRG
Sbjct: 78 IDVAESLLSLSPNNNGEEDDGARRKRVLHDACVCGWMIEFLQAHYLVEDDIMDNSVTRRG 137
Query: 65 IGSLSSVMGNKLAILAGDLLISRALVALASLKH--------------------------- 97
+ D L+ ++ + ++
Sbjct: 138 KPCWYRHPDVTVQCAINDGLLLKSWTHMMAMHFFADRPFLQDLLCRFNRVDYTTAVGQLY 197
Query: 98 -----------------------TEVIMECYMQKTYNKTAAL-VSNSCKAVAYLSGQR-E 132
E + Y + KTA +S
Sbjct: 198 DVTSMFDSNKLDPDVSQPTTTDFAEFTLSNYKRIVKYKTAYYTYLLPLVMGLIVSEALPT 257
Query: 133 EVATLAFEYGKNLGLAYQLIDDILDFTGTSASLGKASLTDLRNGIITAPILFAMEEF-PQ 191
+ E +G +Q+ DD++D LGK TD+++ + + + +
Sbjct: 258 VDMGVTEELAMLMGEYFQVQDDVMDCFTPPERLGKVG-TDIQDAKCSWLAVTFLAKASSA 316
Query: 192 LRAFI--NSSSDNPANVDVILEYLGKSHGIQRTTELALKHASLAAAAIDSLPETHDVDAT 249
A N S + V + ++ A I+ L
Sbjct: 317 QVAEFKANYGSGDSEKVATVRRLYEEADLQGDYVAYEAAVAEQVKELIEKLRLCSP---- 372
Query: 250 NARTALVHITQKIITRNK 267
++ + K R K
Sbjct: 373 GFAASVETLWGKTYKRQK 390
>3uca_A Geranyltranstransferase; isoprenoid synthesis, isoprenoid
diphosphate synthase; 2.00A {Clostridium perfringens}
Length = 324
Score = 102 bits (257), Expect = 6e-26
Identities = 54/185 (29%), Positives = 78/185 (42%), Gaps = 41/185 (22%)
Query: 43 EMIHVASLIHDDV--LDDADTRRGIGSLSSVMGNKLAILAGDLLISRA--LVALASLKHT 98
EMIH SLIHDD+ +D+ D RRG + V G +A+LAGD L++ A ++ SL+
Sbjct: 104 EMIHTYSLIHDDLPCMDNDDLRRGKPTNHKVFGEAIAVLAGDALLNEAMKILVDYSLEEG 163
Query: 99 EVIMEC-----------------------------------YMQKTYNKTAALVSNSCKA 123
+ ++ YM KT L+ S +
Sbjct: 164 KSALKATKIIADAAGSDGMIGGQIVDIINEDKEEISLKELDYMHL--KKTGELIKASIMS 221
Query: 124 VAYLSGQREEVATLAFEYGKNLGLAYQLIDDILDFTGTSASLGKASLTDLRNGIITAPIL 183
A L+ E +G LGLA+Q+ DDILD G + LGK D + +
Sbjct: 222 GAVLAEASEGDIKKLEGFGYKLGLAFQIKDDILDVVGNAKDLGKNVHKDQESNKNNYITI 281
Query: 184 FAMEE 188
F +EE
Sbjct: 282 FGLEE 286
>2h8o_A Geranyltranstransferase; geranyltransferase,agrobacterium
tumefaciens, structural GEN PSI-2, protein structure
initiative; 1.60A {Agrobacterium tumefaciens}
Length = 335
Score = 100 bits (252), Expect = 3e-25
Identities = 50/185 (27%), Positives = 80/185 (43%), Gaps = 41/185 (22%)
Query: 43 EMIHVASLIHDDV--LDDADTRRGIGSLSSVMGNKLAILAGDLLISRALVALASLKHT-- 98
E +H SL+HDD+ +DD D RRG ++ AILAGD L++ A +AS +
Sbjct: 115 ECLHCYSLVHDDLPAMDDDDLRRGQPTVHRKFDEATAILAGDSLLTLAFDIIASDDNPLA 174
Query: 99 -----EVIMEC------------------------------YMQKTYNKTAALVSNSCKA 123
+++ +Q KT AL+ +C+A
Sbjct: 175 AERKAALVISLARAAGIGGMAGGQALDLAAEKKAPDEDGIITLQA--MKTGALLRFACEA 232
Query: 124 VAYLSGQREEVATLAFEYGKNLGLAYQLIDDILDFTGTSASLGKASLTDLRNGIITAPIL 183
A ++G + +G+ +GL++QL DD+LD T +A++GKA+ D G T L
Sbjct: 233 GAIIAGSNQAERQRLRLFGEKIGLSFQLADDLLDLTADAATMGKATGKDAARGKGTLVAL 292
Query: 184 FAMEE 188
Sbjct: 293 RGEAW 297
>1rtr_A Geranyltranstransferase; 2.50A {Staphylococcus aureus} SCOP:
a.128.1.1
Length = 301
Score = 99 bits (250), Expect = 4e-25
Identities = 52/184 (28%), Positives = 78/184 (42%), Gaps = 40/184 (21%)
Query: 43 EMIHVASLIHDDV--LDDADTRRGIGSLSSVMGNKLAILAGDLLISRA--LVALASLKHT 98
EMIH SLIHDD+ +D+ D RRG + V G AILAGD L+++A L++
Sbjct: 72 EMIHTYSLIHDDLPAMDNDDYRRGKLTNHKVYGEWTAILAGDALLTKAFELISSDDRLTD 131
Query: 99 EVIMEC----------------------------------YMQKTYNKTAALVSNSCKAV 124
EV ++ + K KT AL++ + +
Sbjct: 132 EVKIKVLQRLSIASGHVGMVGGQMLDMQSEGQPIDLETLEMIHK--TKTGALLTFAVMSA 189
Query: 125 AYLSGQREEVATLAFEYGKNLGLAYQLIDDILDFTGTSASLGKASLTDLRNGIITAPILF 184
A ++ + Y +LG+ +Q+ DD+LD G A LGK +DL N T L
Sbjct: 190 ADIANVDDTTKEHLESYSYHLGMMFQIKDDLLDCYGDEAKLGKKVGSDLENNKSTYVSLL 249
Query: 185 AMEE 188
+
Sbjct: 250 GKDG 253
>3p8l_A Geranyltranstransferase; isoprenyl synthase, structural genomics,
PSI, protein struct initiative, nysgrc; 2.00A
{Enterococcus faecalis}
Length = 302
Score = 98.8 bits (247), Expect = 1e-24
Identities = 60/183 (32%), Positives = 83/183 (45%), Gaps = 39/183 (21%)
Query: 43 EMIHVASLIHDDV--LDDADTRRGIGSLSSVMGNKLAILAGDLLISRA--LVALASLKHT 98
EMIH SLIHDD+ +DD D RRG + V G AILAGD L++ A L++L+ L +
Sbjct: 81 EMIHTYSLIHDDLPAMDDDDLRRGKPTNHKVFGEATAILAGDGLLTGAFQLLSLSQLGLS 140
Query: 99 EVI----------------------MEC-----------YMQKTYNKTAALVSNSCKAVA 125
E + +E + + KT AL+ + A
Sbjct: 141 EKVLLMQQLAKAAGNQGMVSGQMGDIEGEKVSLTLEELAAVHE--KKTGALIEFALIAGG 198
Query: 126 YLSGQREEVATLAFEYGKNLGLAYQLIDDILDFTGTSASLGKASLTDLRNGIITAPILFA 185
L+ Q EEV L ++ + GLA+Q+ DD+LD T T A LGK D T P L
Sbjct: 199 VLANQTEEVIGLLTQFAHHYGLAFQIRDDLLDATSTEADLGKKVGRDEALNKSTYPALLG 258
Query: 186 MEE 188
+
Sbjct: 259 IAG 261
>4f62_A Geranyltranstransferase; enzyme function initiative, structural
genomics; 2.10A {Marinomonas SP}
Length = 317
Score = 98.8 bits (247), Expect = 2e-24
Identities = 52/186 (27%), Positives = 78/186 (41%), Gaps = 43/186 (23%)
Query: 43 EMIHVASLIHDDV--LDDADTRRGIGSLSSVMGNKLAILAGDLLISRALVALASLKHT-- 98
E IH SLIHDD+ +D+ + RRG + AILAGD L + A L++
Sbjct: 75 ESIHAYSLIHDDLPAMDNDELRRGKPTCHIQFDEATAILAGDALQTFAFELLSNPTSAQP 134
Query: 99 EVIMEC----------------------------------YMQKTYNKTAALVSNSCKAV 124
E+ ++ M +KT AL+ S +
Sbjct: 135 ELAIKLIQELVVASGRNGMITGQMIDLSSENKNISLAELEQMHV--HKTGALIKASVRMG 192
Query: 125 AYLSGQ--REEVATLAFEYGKNLGLAYQLIDDILDFTGTSASLGKASLTDLRNGIITAPI 182
A +GQ E++A L Y +GLA+Q+ DDI+D T + +LGK +D T P
Sbjct: 193 ALSTGQVKPEQLAKLD-AYAHAIGLAFQVQDDIIDLTSDTETLGKTQFSDAEANKATYPK 251
Query: 183 LFAMEE 188
L ++
Sbjct: 252 LLGLDG 257
>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 = 97.7 bits (244), Expect = 3e-24
Identities = 56/188 (29%), Positives = 77/188 (40%), Gaps = 45/188 (23%)
Query: 43 EMIHVASLIHDDV--LDDADTRRGIGSLSSVMGNKLAILAGDLLISRALVALASLKHTEV 100
E+IH SL+HDD+ +DD D RRG + AILAGD L S A AL ++
Sbjct: 74 ELIHAYSLVHDDLPAMDDDDLRRGQPTTHKAFDEACAILAGDGLQSLAFSALLDPALSDA 133
Query: 101 IMEC--------------------------------------YMQKTYNKTAALVSNSCK 122
E YM + +KT AL+ S
Sbjct: 134 SAEIRLRMVTTLAQAAGPAGMVGGQAIDLGSVGLKLDQQALEYMHR--HKTGALIEASVI 191
Query: 123 AVAYLSGQ--REEVATLAFEYGKNLGLAYQLIDDILDFTGTSASLGKASLTDLRNGIITA 180
A SG+ + E+ L Y + +GLA+Q+ DDILD +A+LGK D+ T
Sbjct: 192 LGALASGRAEKGELKALQ-TYAQAIGLAFQVQDDILDVESDTATLGKRQGADIARDKPTY 250
Query: 181 PILFAMEE 188
P L +
Sbjct: 251 PALLGLAA 258
>3ts7_A Geranyltranstransferase; isoprenoid synthesis, farnesyl diphosphate
synthase; 1.94A {Methylococcus capsulatus}
Length = 324
Score = 97.7 bits (244), Expect = 5e-24
Identities = 53/188 (28%), Positives = 67/188 (35%), Gaps = 45/188 (23%)
Query: 43 EMIHVASLIHDDV--LDDADTRRGIGSLSSVMGNKLAILAGDLLISRALVALASLKHTEV 100
E IHV SLIHDD+ +DD D RRG + AILAGD L + A LA V
Sbjct: 80 EFIHVYSLIHDDLPAMDDDDLRRGKPTCHKAYDEATAILAGDGLQALAFHVLAQDPSIAV 139
Query: 101 IMEC--------------------------------------YMQKTYNKTAALVSNSCK 122
E M KT AL+ S +
Sbjct: 140 PAENRIAMIETLAKASGPAGMVGGQAIDLASVGKKLDLPGLENMHI--RKTGALIRASVR 197
Query: 123 AVAYLSGQ--REEVATLAFEYGKNLGLAYQLIDDILDFTGTSASLGKASLTDLRNGIITA 180
E+ L Y K +GLA+Q+ DDILD + +LGK D +
Sbjct: 198 LACLARPGLPAEQFDRLD-HYAKCIGLAFQIQDDILDEESDTQTLGKTRGKDRDHNKPNY 256
Query: 181 PILFAMEE 188
P L +
Sbjct: 257 PALLGLSG 264
>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 = 96.9 bits (242), Expect = 5e-24
Identities = 50/186 (26%), Positives = 71/186 (38%), Gaps = 45/186 (24%)
Query: 43 EMIHVASLIHDDV--LDDADTRRGIGSLSSVMGNKLAILAGDLLISRA--LVALASLKHT 98
E +H SL+HDD+ +D+ D RRG+ ++ + A+LAGD L + A L L
Sbjct: 71 EALHAYSLVHDDMPCMDNDDLRRGLPTVHKKWDDATAVLAGDALQTLAFELCTDPVLGSA 130
Query: 99 EVIMEC------------------------------------YMQKTYNKTAALVSNSCK 122
E + +Q KT AL+S + +
Sbjct: 131 ENRVALVAALAQASGAEGMVYGQALDIAAETAAVPLTLDEIIRLQA--GKTGALISFAAQ 188
Query: 123 AVAYLSGQREEVATLAFEYGKNLGLAYQLIDDILDFTGTSASLGKASLTDLRNGIITAPI 182
A A L+G T Y LGLA+Q+ DDILD G + GK D T
Sbjct: 189 AGAILAGADRGPLT---AYATALGLAFQIADDILDVEGNEEAAGKRLGKDAEAHKATFVS 245
Query: 183 LFAMEE 188
L +
Sbjct: 246 LLGLAG 251
>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 = 96.5 bits (241), Expect = 9e-24
Identities = 56/188 (29%), Positives = 81/188 (43%), Gaps = 45/188 (23%)
Query: 43 EMIHVASLIHDDV--LDDADTRRGIGSLSSVMGNKLAILAGDLLISRALVALASLKHTEV 100
E IH SLIHDD+ +DD D RRG+ + G AILAGD L + A L+ EV
Sbjct: 74 ECIHAYSLIHDDLPAMDDDDLRRGLPTCHVKFGEANAILAGDALQTLAFSILSDADMPEV 133
Query: 101 IMEC--------------------------------------YMQKTYNKTAALVSNSCK 122
+ + +KT AL+ + +
Sbjct: 134 SDRDRISMISELASASGIAGMCGGQALDLDAEGKHVPLDALERIHR--HKTGALIRAAVR 191
Query: 123 AVAYLSGQ--REEVATLAFEYGKNLGLAYQLIDDILDFTGTSASLGKASLTDLRNGIITA 180
A +G R + L +Y +++GLA+Q+ DDILD G +A+LGK D + G T
Sbjct: 192 LGALSAGDKGRRALPVLD-KYAESIGLAFQVQDDILDVVGDTATLGKRQGADQQLGKSTY 250
Query: 181 PILFAMEE 188
P L +E+
Sbjct: 251 PALLGLEQ 258
>3p8r_A Geranyltranstransferase; isoprenyl synthase, structural genomics,
PSI, protein struct initiative, nysgrc; 2.50A {Vibrio
cholerae}
Length = 302
Score = 95.4 bits (238), Expect = 2e-23
Identities = 48/187 (25%), Positives = 71/187 (37%), Gaps = 43/187 (22%)
Query: 43 EMIHVASLIHDDV--LDDADTRRGIGSLSSVMGNKLAILAGDLLISRALVALASLKHTEV 100
E IH SLIHDD+ +DD + RRG + AIL GD L + A LA +
Sbjct: 80 ECIHAYSLIHDDLPAMDDDELRRGKPTCHIQFDEATAILTGDALQTLAFTILAEGDLSAA 139
Query: 101 IMEC--------------------------------------YMQKTYNKTAALVSNSCK 122
+ + NKT AL+ + +
Sbjct: 140 GETQRVAMLQALAEASGAQGMCLGQALDLAAENRLISLEELETIHR--NKTGALMRCAIR 197
Query: 123 AVAYLSGQREEVATLAFE-YGKNLGLAYQLIDDILDFTGTSASLGKASLTDLRNGIITAP 181
A +G++ + Y + +GLA+Q+ DDILD + +LGK +D T P
Sbjct: 198 LGALAAGEKGRAMLPHLDRYAEAVGLAFQVQDDILDIISDTETLGKPQGSDQELNKSTYP 257
Query: 182 ILFAMEE 188
L +E
Sbjct: 258 ALLGLEG 264
>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 = 95.4 bits (238), Expect = 3e-23
Identities = 46/183 (25%), Positives = 70/183 (38%), Gaps = 39/183 (21%)
Query: 43 EMIHVASLIHDDV--LDDADTRRGIGSLSSVMGNKLAILAGDLLISRA--LVALASLKHT 98
E++H SLIHDD+ +D+ RRG + G +A LAGD L++ A + L T
Sbjct: 80 ELLHTYSLIHDDLPAMDNDALRRGEPTNHVKFGAGMATLAGDGLLTLAFQWLTATDLPAT 139
Query: 99 EVI----------------------MEC-----------YMQKTYNKTAALVSNSCKAVA 125
++ + K KT AL+ + +A
Sbjct: 140 MQAALVQALATAAGPSGMVAGQAKDIQSEHVNLPLSQLRVLHK--EKTGALLHYAVQAGL 197
Query: 126 YLSGQREEVATLAFEYGKNLGLAYQLIDDILDFTGTSASLGKASLTDLRNGIITAPILFA 185
L E ++ GLA+Q+ DDILD + A +GKA+ D T P
Sbjct: 198 ILGQAPEAQWPAYLQFADAFGLAFQIYDDILDVVSSPAEMGKATQKDADEAKNTYPGKLG 257
Query: 186 MEE 188
+
Sbjct: 258 LIG 260
>3npk_A Geranyltranstransferase; isoprene biosynthesis, SGX, structural
genomics protein structure initiative; 1.50A
{Campylobacter jejuni}
Length = 291
Score = 93.8 bits (234), Expect = 8e-23
Identities = 47/168 (27%), Positives = 71/168 (42%), Gaps = 39/168 (23%)
Query: 43 EMIHVASLIHDDV--LDDADTRRGIGSLSSVMGNKLAILAGDLLISRA--LVALASLKHT 98
E IH SLIHDD+ +D+AD RRGI +L AIL GD L + A +++ A LK
Sbjct: 70 EFIHTYSLIHDDLPAMDNADFRRGIPTLHKSYDETTAILVGDALNTEAFLVLSHAHLKDE 129
Query: 99 EVI----------------------MEC-----------YMQKTYNKTAALVSNSCKAVA 125
I ++ +KTA L++ + K
Sbjct: 130 IKIKLIKTLAFNAGLNGMVIGQAIDCFFEDKRLSLNELEFLHT--HKTARLIAAALKMGC 187
Query: 126 YLSGQREEVATLAFEYGKNLGLAYQLIDDILDFTGTSASLGKASLTDL 173
+ E + ++ G LGL +Q+ DDI+D T + GK + D+
Sbjct: 188 EICELNNEESNQIYKLGLKLGLIFQINDDIIDVTTSQEQSGKPTNNDI 235
>3lom_A Geranyltranstransferase; geranyltransferase, structural genomics,
PSI, protein structure initiative, nysgrc; 2.30A
{Legionella pneumophila subsp}
Length = 313
Score = 93.8 bits (234), Expect = 9e-23
Identities = 45/188 (23%), Positives = 65/188 (34%), Gaps = 44/188 (23%)
Query: 43 EMIHVASLIHDDV--LDDADTRRGIGSLSSVMGNKLAILAGDLLISRALVALASLKHTEV 100
E+ H SLIHDD+ +D+ D RRG S AIL GD + + A+ L +
Sbjct: 80 ELTHCYSLIHDDLPAMDNDDLRRGKPSCHKAFDEATAILVGDGMQALAIEVLLMRLSPLL 139
Query: 101 IMEC---------------------------------------YMQKTYNKTAALVSNSC 121
+ KT L+
Sbjct: 140 PAAQVVAITQVLVNASGISGMVSGQSLDLSELAKSSVTEEQLREIHL--LKTGKLILACF 197
Query: 122 KAVAYLSGQREEVATLAFE-YGKNLGLAYQLIDDILDFTGTSASLGKASLTDLRNGIITA 180
+ V + E A YGK++GL +Q+ DD LD + LGK +D N T
Sbjct: 198 EMVLAAQHEVSEQIKSALRTYGKHIGLVFQMQDDYLDLYAPTQILGKGRSSDQANQKTTF 257
Query: 181 PILFAMEE 188
LF ++
Sbjct: 258 ATLFNKQQ 265
>3llw_A Geranyltranstransferase (ISPA); structural genomics, PSI, protein
structure initiative, nysgrc; 2.30A {Helicobacter
pylori} PDB: 3q1o_A*
Length = 311
Score = 93.1 bits (232), Expect = 2e-22
Identities = 45/184 (24%), Positives = 76/184 (41%), Gaps = 42/184 (22%)
Query: 43 EMIHVASLIHDDV--LDDADTRRGIGSLSSVMGNKLAILAGDLLISRALVALASLK-HTE 99
E +H SLIHDD+ +D+A RR +L + A+L GD L + + L++ +
Sbjct: 84 ECLHTYSLIHDDLPCMDNAALRRNHPTLHAKYDETTAVLIGDALNTYSFELLSNALLESH 143
Query: 100 VIMEC----------------------------------YMQKTYNKTAALVSNSCKAVA 125
+I+E ++ + +KTA L+S S
Sbjct: 144 IIVELIKILSANGGIKGMILGQALDCYFENTPLNLEQLTFLHE--HKTAKLISASLIMGL 201
Query: 126 YLSGQR-EEVATLAFEYGKNLGLAYQLIDDILDFTGTSASLGKASLTDLRNGIITAPILF 184
SG + EE+ +G +GL +Q++DDI+D T GK + D + + L
Sbjct: 202 VASGIKDEELFKWLQAFGLKMGLCFQVLDDIIDVTQDEEESGKTTHLD--SAKNSFVNLL 259
Query: 185 AMEE 188
+E
Sbjct: 260 GLER 263
>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 = 86.6 bits (215), Expect = 2e-20
Identities = 27/172 (15%), Positives = 49/172 (28%), Gaps = 42/172 (24%)
Query: 43 EMIHVASLIHDDVLDDADTRRGIGSLSSVMGNKLAILAGDLLISRALVALASLKHTEVI- 101
++HVA+ H++ L D + + +L GD +I L +A
Sbjct: 75 HLMHVAAYTHEN-LPLTDGPMSKSEIQHKFDPNIELLTGDGIIPFGLELMARSMDPTRNN 133
Query: 102 ---------------------------MEC----------YMQKTYNKTAALVSNSCKAV 124
+ Y+ K K L +
Sbjct: 134 PDRILRAIIELTRVMGSEGIVEGQYHELGLNQLNDLELIEYVCK--KKEGTLHACGAACG 191
Query: 125 AYLSGQREEVATLAFEYGKNLGLAYQLIDDILD-FTGTSASLGKASLTDLRN 175
A L G E+ +G +G L+ F G L + ++ +L +
Sbjct: 192 AILGGCDEDKIEKLRRFGLYVGTVQGLLGKNRSGFEGRIKELKELAVKELES 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 = 86.9 bits (216), Expect = 3e-20
Identities = 48/163 (29%), Positives = 70/163 (42%), Gaps = 45/163 (27%)
Query: 43 EMIHVASLIHDDV--LDDADTRRGIGSLSSVMGNKLAILAGDLLISRALVALASLKHTEV 100
EMIH SLIHDD+ +D+ D RRG + V G +A+LAGD L+S A LAS +EV
Sbjct: 82 EMIHTMSLIHDDLPCMDNDDLRRGKPTNHKVYGEDVAVLAGDALLSFAFEHLASATSSEV 141
Query: 101 IMEC-----------------------------------------YMQKTYNKTAALVSN 119
++ +KTAAL+
Sbjct: 142 SPARVVRAVGELAKAIGTEGLVAGQVVDISSEGLDLNNVGLEHLKFIHL--HKTAALLEA 199
Query: 120 SCKAVAYLSGQREEVATLAFEYGKNLGLAYQLIDDILDFTGTS 162
S + G +E ++ + +GL +Q++DDILD T +S
Sbjct: 200 SAVLGGIIGGGSDEEIERLRKFARCIGLLFQVVDDILDVTKSS 242
>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 = 83.8 bits (207), Expect = 1e-18
Identities = 30/151 (19%), Positives = 50/151 (33%), Gaps = 7/151 (4%)
Query: 98 TEVIMECYMQKTYNKTAALVSNSCKAVAYLSGQR---EEVATLAFEYGKNLGLAYQLIDD 154
+ Y +KTA L + + +G +Q+ DD
Sbjct: 228 NMINFGVYKNIVIHKTAYYSFFLPIVCGMLLAGIAVDNLIYKKIEDISMLMGEYFQIHDD 287
Query: 155 ILDFTGTSASLGKASLTDLRNGIITAPILFAMEEF-PQLRAFI--NSSSDNPANVDVILE 211
LD G S GK +D++N +T P++ E + I N +N A V VI
Sbjct: 288 YLDIFGDSTKTGKVG-SDIQNNKLTWPLIKTFELCSEPDKIKIVKNYGKNNLACVKVIDS 346
Query: 212 YLGKSHGIQRTTELALKHASLAAAAIDSLPE 242
+ + + +AI+ L
Sbjct: 347 LYEQYKIRKHYESYEKAQKAKILSAINELHH 377
Score = 59.2 bits (143), Expect = 3e-10
Identities = 16/99 (16%), Positives = 33/99 (33%), Gaps = 3/99 (3%)
Query: 22 VLGNTLILDLRRRQQCIAEITEMIHVASLIHDDVLDDADTRRGIGSLSSVMGNKLAILAG 81
V + + C+A E++ A L+ DD++D + RR + +
Sbjct: 94 VKNRDINSSEWEKAACLAWCIEILQAAFLVADDIMDKGEMRRNKYCWYLLKDVETKNAVN 153
Query: 82 DLLISRALVALASLKHTEVIMECYMQ--KTYNKTAALVS 118
D+L+ ++ CY+ T+
Sbjct: 154 DVLLLYNS-IYKLIEIYLRNESCYVDVIATFRDATLKTI 191
>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 = 75.8 bits (187), Expect = 3e-16
Identities = 32/201 (15%), Positives = 57/201 (28%), Gaps = 57/201 (28%)
Query: 43 EMIHVASLIHDDV-LDDADTRRGIGSLSSVMGNKLAILAGDLLISRALVALASLKHTEVI 101
++H A+ +H+ + L D ++ G + +L GD ++ LA
Sbjct: 70 HLVHAAAYVHEHLPLTDGSRPVSKPAIQHKYGPNVELLTGDGIVPFGFELLAGSVDPART 129
Query: 102 -----------------------------MEC-----------YMQKTYNKTAALVSNSC 121
E Y+ K K + +
Sbjct: 130 DDPDRILRVIIEISRAGGPEGMISGLHREEEIVDGNTSLDFIEYVCK--KKYGEMHACGA 187
Query: 122 KAVAYLSGQREEVATLAFEYGKNLGL---------AYQLIDDILD---FTGTSASLGKA- 168
A L G EE +G G ++QLID+ + LG
Sbjct: 188 ACGAILGGAAEEEIQKLRNFGLYQGTLRGMMEMKNSHQLIDENIIGKLKELALEELGGFH 247
Query: 169 -SLTDLRNGIITAPILFAMEE 188
+L + ++ P L+A
Sbjct: 248 GKNAELMSSLVAEPSLYAAHH 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 = 69.8 bits (170), Expect = 3e-14
Identities = 46/180 (25%), Positives = 69/180 (38%), Gaps = 35/180 (19%)
Query: 38 IAEITEMIHVASLIHDDV--LDDADTRRGIGSLSSVMGNKLAILAGDLLISRALVALASL 95
+A E+ H ASLIHDD+ +D+AD RRG S G +A+LAGD L A ++ +
Sbjct: 71 VAVAVELFHTASLIHDDLPPIDNADFRRGXPSCHRTYGEDIALLAGDGLFFLAFSQISXI 130
Query: 96 ----------------------------KHTEVIMECYMQKTYNKTAALVSNSCKAVAYL 127
+ EV E + T AL + A L
Sbjct: 131 GNSXIFEEFSETAYXLLLGEAMDVEFERRXMEVSQEMVERMYAFXTGALFAFCFSAPFIL 190
Query: 128 SGQREEVATLAFEYGKNLGLAYQLIDDILDFTGTSASLGKASLTDLRNGIITAPILFAME 187
G G+ G+A+Q+ DD+ D G+ +GK D +T ++
Sbjct: 191 XGXDHTXMX---LLGEXFGVAFQIYDDLXDILGSFEKVGKDLGKD--TEXVTLVXXVGIQ 245
>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 = 43.7 bits (102), Expect = 5e-05
Identities = 38/288 (13%), Positives = 81/288 (28%), Gaps = 88/288 (30%)
Query: 6 LMATALNVCTPELSPNVL-GNTLILDL-------------RRRQQCIAEITEMIHVASLI 51
L+ L+ +L VL N L + + ++T +I +SL
Sbjct: 306 LLLKYLDCRPQDLPREVLTTNPRRLSIIAESIRDGLATWDNWKHVNCDKLTTIIE-SSL- 363
Query: 52 HDDVLDDADTRRGIGSLSSVMGNKLAILAGDLLISRALVALASLKHTEVIMECYMQKTYN 111
+VL+ A+ R+ M ++L++ I L++L + + + K +
Sbjct: 364 --NVLEPAEYRK--------MFDRLSVFPPSAHIPTILLSLIWFDVIKSDVMVVVNKLHK 413
Query: 112 KTAALVSNSCKAVAYLSGQREEVATLAFEYGKNLGLAYQLIDDILDFTGTSASLGKASLT 171
+L + K + L+ +
Sbjct: 414 Y-----------------------SLVEKQPKE--STISIPSIYLELKVKL-----ENEY 443
Query: 172 DLRNGIITAPILFAMEEFPQLRAFINSSSDNPANVDVILEYLGKSH--GIQRTTELA--- 226
L I+ + + + F + P ++G H I+ +
Sbjct: 444 ALHRSIV--------DHYNIPKTFDSDDLIPPYLDQYFYSHIGH-HLKNIEHPERMTLFR 494
Query: 227 ------------LKHASLAAAAIDSLPET-HDVDATNARTALVHITQK 261
++H S A A S+ T + + +I
Sbjct: 495 MVFLDFRFLEQKIRHDSTAWNASGSILNTLQQL-----KFYKPYICDN 537
>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 = 40.4 bits (94), Expect = 6e-04
Identities = 37/175 (21%), Positives = 58/175 (33%), Gaps = 53/175 (30%)
Query: 102 MECYMQKTYNKT-AALVSNSCKAVA-YLSGQ-----REEVATLAFEYGKNLGLAYQLIDD 154
+ + + TY + +V N+ + + G+ RE + + FE + L + I
Sbjct: 1649 ADNHFKDTYGFSILDIVINNPVNLTIHFGGEKGKRIRENYSAMIFETIVDGKLKTEKIFK 1708
Query: 155 ILDFTGTSASL----GKASLTDLRNGIITAPILFAMEEFPQLRAFINSSSDNPANVDVIL 210
++ TS + G S T T P L ME +A
Sbjct: 1709 EINEHSTSYTFRSEKGLLSATQ-----FTQPALTLME-----KA--------------AF 1744
Query: 211 EYLGKSHG-IQRTTELALKH-----ASLAAAAIDSLP-ETHDVDATNARTALVHI 258
E L KS G I A H A+LA+ A D + E +V
Sbjct: 1745 EDL-KSKGLIPADATFA-GHSLGEYAALASLA-DVMSIE----SL--VE--VVFY 1788
>1qzv_F Plant photosystem I: subunit PSAF; photosynthesis,plant
photosynthetic reaction center, peripheral antenna; HET:
CL1 PQN; 4.44A {Pisum sativum} SCOP: i.5.1.1
Length = 154
Score = 29.5 bits (65), Expect = 0.72
Identities = 12/28 (42%), Positives = 12/28 (42%), Gaps = 6/28 (21%)
Query: 226 ALK--HASLAAAAIDSLPETHDVDATNA 251
ALK ASL A DS P A A
Sbjct: 21 ALKKLQASLKLYADDSAPAL----AIKA 44
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 0.132 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: 3,929,465
Number of extensions: 244324
Number of successful extensions: 690
Number of sequences better than 10.0: 1
Number of HSP's gapped: 610
Number of HSP's successfully gapped: 80
Length of query: 267
Length of database: 6,701,793
Length adjustment: 92
Effective length of query: 175
Effective length of database: 4,133,061
Effective search space: 723285675
Effective search space used: 723285675
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: 56 (25.4 bits)