RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= 014627
(421 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 = 404 bits (1041), Expect = e-140
Identities = 130/338 (38%), Positives = 208/338 (61%), Gaps = 19/338 (5%)
Query: 101 NIFEVVAEDLQTLNQNLKSIVGAENPVLMSAAEQIF--GAGGKRLRPALVFLVSRAT--- 155
+ F +VA++L L+ L+ +V AE P L SAAE F G GK+ R ++ L++ A
Sbjct: 9 DPFSLVADELSLLSNKLREMVLAEVPKLASAAEYFFKRGVQGKQFRSTILLLMATALDVR 68
Query: 156 --------AELVGLKELTTKHRRLAEIIEMIHTASLIHDDVLDESDMRRGQETVHQLYGT 207
+ + EL + R +AEI EMIH ASL+HDDVLD++D RRG +++ + G
Sbjct: 69 VPEALIGESTDIVTSELRVRQRGIAEITEMIHVASLLHDDVLDDADTRRGVGSLNVVMGN 128
Query: 208 RVAVLAGDFMFAQSSWYLANLENLEVIKLISQVIKDFASGEIKQASSLFDCDLELEEYLI 267
+++VLAGDF+ +++ LA L+N EV+ L++ ++ +GE + +S + ++ Y+
Sbjct: 129 KMSVLAGDFLLSRACGALAALKNTEVVALLATAVEHLVTGETMEITSSTEQRYSMDYYMQ 188
Query: 268 KSYYKTASLIAASTKGAAIFSGVDGSLSKQMYEYGRNLGLSFQIVDDILDFTQSAEQLGK 327
K+YYKTASLI+ S K A+ +G ++ +EYGRNLGL+FQ++DDILDFT ++ LGK
Sbjct: 189 KTYYKTASLISNSCKAVAVLTGQTAEVAVLAFEYGRNLGLAFQLIDDILDFTGTSASLGK 248
Query: 328 PAASDLAKGNLTAPVIFALEKEPKLREIIESEFCETGSLDEAIKLVKTSGGIEEAQELAK 387
+ SD+ G +TAP++FA+E+ P+LRE+++ + ++D A++ + S GI+ A+ELA
Sbjct: 249 GSLSDIRHGVITAPILFAMEEFPQLREVVDQVEKDPRNVDIALEYLGKSKGIQRARELAM 308
Query: 388 EKANLAIHNLHCLPRSP------FRVALEDMVMFNLER 419
E ANLA + LP + R AL D+ + R
Sbjct: 309 EHANLAAAAIGSLPETDNEDVKRSRRALIDLTHRVITR 346
>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 = 393 bits (1012), Expect = e-136
Identities = 90/325 (27%), Positives = 147/325 (45%), Gaps = 8/325 (2%)
Query: 98 SLANIFEVVAEDLQTLNQNLKSIVGAENPVLMSAAEQIFGAGGKRLRPALVFLVSRATAE 157
L F V L L L V +N + + +GGK LRP +L S
Sbjct: 13 QLWRQFPQVEPQLTALQDYLLRTVQLDNQPIHHKILALLKSGGKLLRPGYFYLFSTF--- 69
Query: 158 LVGLKELTTKHRRLAEIIEMIHTASLIHDDVLDESDMRRGQETVHQLYGTRVAVLAGDFM 217
G + + A IE++H +LIHDDV+D+S RRG T+ YG R A+ AGDFM
Sbjct: 70 --GNAATPAQLQAGAAAIEILHVGTLIHDDVIDDSPTRRGVRTIQMTYGQRNAIYAGDFM 127
Query: 218 FAQS-SWYLANLENLEVIKLISQVIKDFASGEIKQASSLFDCDLELEEYLIKSYYKTASL 276
F L + + +I+ + GE+ Q + D+ L+ YL + KTA L
Sbjct: 128 FTVYFDQVLKSTTDRSLIQNHIDAMHRILQGELHQMDLNYREDITLDAYLNEIAGKTAEL 187
Query: 277 IAASTKGAAIFSGVDGSLSKQMYEYGRNLGLSFQIVDDILDFTQSAEQLGKPAASDLAKG 336
A S A +G S+ + + G +G ++Q++DDILD+ ++ KP DL G
Sbjct: 188 FALSCYQGAQLAGAPQSVIDRTRDIGIAIGCAYQMLDDILDYAGDPKRTQKPVLEDLRSG 247
Query: 337 NLTAPVIFALEKEPK--LREIIESEFCETGSLDEAIKLVKTSGGIEEAQELAKEKANLAI 394
+ P++ +L P+ + + + + + LV G+ A++LA++ + A+
Sbjct: 248 VYSLPLLLSLSHAPRDFHKLLKKKQAMTLEDIKHVQALVAQYDGVGAAKQLAQDYTDRAL 307
Query: 395 HNLHCLPRSPFRVALEDMVMFNLER 419
+ LP + +LE + L R
Sbjct: 308 TLIQQLPVGSAQQSLEQLTRLLLRR 332
>3aqb_B Component B of hexaprenyl diphosphate synthase; prenyltransferase,
transferase; 2.40A {Micrococcus luteus} PDB: 3aqc_B*
Length = 325
Score = 383 bits (986), Expect = e-133
Identities = 92/328 (28%), Positives = 161/328 (49%), Gaps = 12/328 (3%)
Query: 98 SLANIFEVVAEDLQTLNQNLKSIVGAENPVLMSAAEQIFGAGGKRLRPALVFLVSRATAE 157
+ + + + + L + +++ + AA I +GGKR+RP V L
Sbjct: 2 IALSYKAFLNPYIIEVEKRLYECIQSDSETINKAAHHILSSGGKRVRPMFVLLSGFL--- 58
Query: 158 LVGLKELTTKHRRLAEIIEMIHTASLIHDDVLDESDMRRGQETVHQLYGTRVAVLAGDFM 217
R A +E++H ASL+HDD +D SDMRRG +VH + A+ G F+
Sbjct: 59 ---NDTQKDDLIRTAVSLELVHMASLVHDDYIDNSDMRRGNTSVHIAFDKDTAIRTGHFL 115
Query: 218 FAQSSWYLANLENLEVIKLISQVIKDFASGEIKQASSLFDCDLELEEYLIKSYYKTASLI 277
A++ +A + N + ++ S+ I + GE Q + F+ + YL + KTA LI
Sbjct: 116 LARALQNIATINNSKFHQIFSKTILEVCFGEFDQMADRFNYPVSFTAYLRRINRKTAILI 175
Query: 278 AASTKGAAIFSGVDGSLSKQMYEYGRNLGLSFQIVDDILDFTQSAEQLGKPAASDLAKGN 337
AS A+ S +D + + ++G +G+S+QI+DDILD+T LGKP SD+ G+
Sbjct: 176 EASCHLGALSSQLDEQSTYHIKQFGHCIGMSYQIIDDILDYTSDEATLGKPVGSDIRNGH 235
Query: 338 LTAPVIFALEK-----EPKLREIIESEFCETG-SLDEAIKLVKTSGGIEEAQELAKEKAN 391
+T P++ A+ + KL +++ + + + I GIE A+ L+++ +
Sbjct: 236 ITYPLMAAIANLKEQDDDKLEAVVKHLTSTSDDEVYQYIVSQVKQYGIEPAELLSRKYGD 295
Query: 392 LAIHNLHCLPRSPFRVALEDMVMFNLER 419
A ++L L S + LE++ L+R
Sbjct: 296 KAKYHLSQLQDSNIKDYLEEIHEKMLKR 323
>3oyr_A Trans-isoprenyl diphosphate synthase; isoprenyl synthase, PSI,
protein structure initiative; HET: IPE; 2.00A
{Caulobacter crescentus}
Length = 345
Score = 381 bits (980), Expect = e-131
Identities = 99/333 (29%), Positives = 172/333 (51%), Gaps = 11/333 (3%)
Query: 92 KSRSPISLANIFEVVAEDLQTLNQNLKSIVGAENPVLMSAAEQIFGAGGKRLRPALVFLV 151
R S+ + + D+ +N+ + + ++ ++ + AE + AGGKRLRP +
Sbjct: 17 LPRKSGSVDRLVRLAEADMAGVNRLITDRMQSDVAIIPALAEHLIAAGGKRLRPLMTVAA 76
Query: 152 SRATAELVGLKELTTKHRRLAEIIEMIHTASLIHDDVLDESDMRRGQETVHQLYGTRVAV 211
+R ++LA +E IHTA+L+HDDV+D S +RRG+ H ++G +V
Sbjct: 77 ARL------AGADNDHFQKLAAAVEFIHTATLLHDDVVDGSQLRRGKVAAHLIWGGAQSV 130
Query: 212 LAGDFMFAQSSWYLANLENLEVIKLISQVIKDFASGEIKQASSLFDCDLELEEYLIKSYY 271
L GDF+FA++ + +++ ++++++ + A GE+ Q D +L YL
Sbjct: 131 LVGDFLFARAFELMVETNSMKALEILARASRVIAEGEVLQLMRSHDLNLSQAVYLEIIQA 190
Query: 272 KTASLIAASTKGAAIFSGVDGSLSKQMYEYGRNLGLSFQIVDDILDFTQSAEQLGKPAAS 331
KTA L AA+++ A+ +GVD + S+ + +YG NLGL+FQ+ DD LD+ + E LGK A
Sbjct: 191 KTAELFAAASEAGAVSAGVDVAKSEALRDYGLNLGLAFQLADDALDYGGATETLGKNAGD 250
Query: 332 DLAKGNLTAPVIFALEKEPK-----LREIIESEFCETGSLDEAIKLVKTSGGIEEAQELA 386
D +G T P++ A+ + I A +L+ SG ++ +LA
Sbjct: 251 DFREGKATLPLLLAIARSGPREAEFWERAIGRREQTEADFRRARELIIGSGALDATLDLA 310
Query: 387 KEKANLAIHNLHCLPRSPFRVALEDMVMFNLER 419
+ A+ A L P + +R ALE++ F + R
Sbjct: 311 ADYADKAKAALAMFPANDWREALEELADFAVSR 343
>3rmg_A Octaprenyl-diphosphate synthase; structural genomics, protein
structure initiative, isoprene biosynthesis,
transferase; 2.30A {Bacteroides thetaiotaomicron}
Length = 334
Score = 372 bits (957), Expect = e-128
Identities = 99/327 (30%), Positives = 160/327 (48%), Gaps = 12/327 (3%)
Query: 98 SLANIFEVVAEDLQTLNQNLKSIVGAENPVLMSAAEQIFGAGGKRLRPALVFLVSRATAE 157
S++ I + +L+ + + N +L S I GK +RP LV LV+R
Sbjct: 5 SISLIKTPIEAELEDFKALFDTPLSDSNALLDSVITHIRKRNGKMMRPILVLLVARL--- 61
Query: 158 LVGLKELTTKHRRLAEIIEMIHTASLIHDDVLDESDMRRGQETVHQLYGTRVAVLAGDFM 217
+T A +E++HTASL+HDDV+DES RRGQ +V+ ++ +V+VLAGD++
Sbjct: 62 ---YGAVTPATLHAAVSLELLHTASLVHDDVVDESTERRGQLSVNAIFNNKVSVLAGDYL 118
Query: 218 FAQSSWYLANLENLEVIKLISQVIKDFASGEIKQASSLFDCDLELEEYLIKSYYKTASLI 277
A S + N E+I+L+S + + A GE+ Q S++ + E Y KTA+L
Sbjct: 119 LATSLVHAEQTNNYEIIRLVSSLGQKLAEGELLQLSNVSNHSFSEEVYFDVIRKKTAALF 178
Query: 278 AASTKGAAIFSGVDGSLSKQMYEYGRNLGLSFQIVDDILDFTQSAEQLGKPAASDLAKGN 337
AA + AA+ V G +G+ FQI DDI D+ ++++GKP +D+ +G
Sbjct: 179 AACAEAAALSVQVGEEEVAFARLLGEYIGICFQIKDDIFDYF-DSKKIGKPTGNDMLEGK 237
Query: 338 LTAPVIFALEKEPK-----LREIIESEFCETGSLDEAIKLVKTSGGIEEAQELAKEKANL 392
LT P ++AL + ++ + I+ K +GGIE A ++
Sbjct: 238 LTLPALYALNTTKDAWAEQIAFKVKEGTATPDEIVRLIEFTKDNGGIEYACRTIEQYKKK 297
Query: 393 AIHNLHCLPRSPFRVALEDMVMFNLER 419
A L LP S +AL + + + R
Sbjct: 298 AFDLLAALPDSNICLALRTYLDYVVAR 324
>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 = 354 bits (911), Expect = e-121
Identities = 88/331 (26%), Positives = 161/331 (48%), Gaps = 11/331 (3%)
Query: 93 SRSPISLANIFEVVAEDLQTLNQNLKSIVGAENPVLMSAAEQIFGAGGKRLRPALVFLVS 152
S+ + + + + + + L + + + L+ + AGGKR RP L S
Sbjct: 27 SQVEFGDPELTARINDAMVQVEELLHTELSSGEDFLVDIVMHLTRAGGKRFRPMFALLAS 86
Query: 153 RATAELVGLKELTTKHRRLAEIIEMIHTASLIHDDVLDESDMRRGQETVHQLYGTRVAVL 212
G K L+ + A ++E+ H A+L HDDV+DE+ MRRG + + + VA+L
Sbjct: 87 EF-----GEKPLSENVIKAAVVVEITHLATLYHDDVMDEASMRRGVPSANARWDNSVAIL 141
Query: 213 AGDFMFAQSSWYLANLENLEVIKLISQVIKDFASGEIKQASSLFDCDLELEEYLIKSYYK 272
AGD + A +S ++ L + + ++ + +G++++ D D +E Y K
Sbjct: 142 AGDILLAHASGLMSQLGT-DTVAHFAETFGELVTGQMRETVGPRDTDP-IEHYTNVIREK 199
Query: 273 TASLIAASTKGAAIFSGVDGSLSKQMYEYGRNLGLSFQIVDDILDFTQSAEQLGKPAASD 332
T LIA++ A+ +G + +G +G+ FQIVDDI+D + GK +D
Sbjct: 200 TGVLIASAGYLGAMHAGAAPEHIDALKNFGAAVGMIFQIVDDIIDIFSETHESGKTPGTD 259
Query: 333 LAKGNLTAPVIFALEK----EPKLREIIESEFCETGSLDEAIKLVKTSGGIEEAQELAKE 388
L +G T PV++AL + +LR+I+ + +++ ++L+ SGG + A +
Sbjct: 260 LREGVFTLPVLYALREDTPVGAELRDILTGPLEDDETVNHVLELLSQSGGRQAALDEVYR 319
Query: 389 KANLAIHNLHCLPRSPFRVALEDMVMFNLER 419
++A L LP S + AL ++ F ++R
Sbjct: 320 YMDIANAELDRLPDSTVKEALRNLATFTVKR 350
>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 = 345 bits (887), Expect = e-118
Identities = 75/312 (24%), Positives = 140/312 (44%), Gaps = 21/312 (6%)
Query: 101 NIFEVVAEDLQTLNQNLKSIVGAENPVLMSAAEQIFGAGGKRLRPALVFLVSRATAELVG 160
N + +L+ + + ++ I+ + + GK LR L L +
Sbjct: 4 NKLNQNSYELEKVKERIEQIL---SQFFPEQIMKDLPLYGKMLRVRLSILSFKNRGV--- 57
Query: 161 LKELTTKHRRLAEIIEMIHTASLIHDDVLDESDMRRGQETVHQLYGTRVAVLAGDFMFAQ 220
E+ +E++H ASL+HDDV+D + RRG+ET++ +YG + AV AGD +
Sbjct: 58 --EIGEDAISSLAALELVHLASLLHDDVIDGARFRRGKETINFMYGDKAAVAAGDLVLVS 115
Query: 221 SSWYLANLENLEVIKLISQVIKDFASGEIKQASSLFDCDLELEEYLIKSYYKTASLIAAS 280
+ + + N ++ + VI + E+ + S + + EEYL K+ +L +
Sbjct: 116 AFHTVEEIGNNKLRRAFLNVIGKMSEAELIEQLSRYK-PITKEEYLRIVEGKSGALFGLA 174
Query: 281 TKGAAIFSGVDGSLSKQMYEYGRNLGLSFQIVDDILDFTQSAEQLGKPAASDLAKGNLTA 340
+ A+ G L + +Y G +G +Q+ DDI+DF E++GK DL G +
Sbjct: 175 LQLPALLE---GELGEDLYNLGVTIGTIYQMFDDIMDFA-GMEKIGKDGFLDLKNGVASF 230
Query: 341 PVIFALEKEPKLREIIESEFCETGSLDEAIKLVKTSGGIEEAQELAKEKANLAIHNLHCL 400
P++ A+EK P+ R++ E+ + ++ G ++E +E K I L
Sbjct: 231 PLVTAMEKFPEARQMFENR-----DWSGLMSFMREKGILKECEETLKVLVKNVIIENSWL 285
Query: 401 ---PRSPFRVAL 409
F++ +
Sbjct: 286 RDFVDGIFKIKI 297
>3mzv_A Decaprenyl diphosphate synthase; transferase, structural genomics,
PSI-2, protein structure initiative; 1.90A {Rhodobacter
capsulatus}
Length = 341
Score = 334 bits (859), Expect = e-113
Identities = 100/334 (29%), Positives = 172/334 (51%), Gaps = 12/334 (3%)
Query: 92 KSRSPISLANIFEVVAEDLQTLNQNLKSIVGAEN-PVLMSAAEQIFGAGGKRLRPALVFL 150
++ + + +AED+ +N ++ + +E+ P + + AGGKRLRP L
Sbjct: 4 DDKATKPHDRLAQALAEDMAAVNALIRERMSSEHAPRIPEVTAHLIEAGGKRLRPMLTLA 63
Query: 151 VSRATAELVGLKELTTKHRRLAEIIEMIHTASLIHDDVLDESDMRRGQETVHQLYGTRVA 210
+R + H LA +E IHTA+L+HDDV+DES RRG+ T + L+ + +
Sbjct: 64 AARL------VGYGGPFHVHLAATVEFIHTATLLHDDVVDESRQRRGRPTANLLWDNKSS 117
Query: 211 VLAGDFMFAQSSWYLANLENLEVIKLISQVIKDFASGEIKQASSLFDCDLELEEYLIKSY 270
VL GD++FA+S + + N+ V+++++ A GE+ Q ++ + + YL
Sbjct: 118 VLVGDYLFARSFQLMTDTGNMRVMEILANASAVIAEGEVLQLTAAQNLATTEDIYLRVIR 177
Query: 271 YKTASLIAASTKGAAIFSGVDGSLSKQMYEYGRNLGLSFQIVDDILDFTQSAEQLGKPAA 330
KTA+L +A+T+ I G + +++YG LG++FQIVDD+LD+ + ++GK
Sbjct: 178 GKTAALFSAATEVGGIIGGAPEDQVQALFDYGDALGIAFQIVDDLLDYGGKSAEIGKNTG 237
Query: 331 SDLAKGNLTAPVIFALEKEPK-----LREIIESEFCETGSLDEAIKLVKTSGGIEEAQEL 385
D + LT PVI A+ + + +IE + G L+ A+ L+ G +E +
Sbjct: 238 DDFRERKLTMPVIKAVALADEAERAFWKRVIEKGDQQDGDLEHAMALMTKHGTLEATRLA 297
Query: 386 AKEKANLAIHNLHCLPRSPFRVALEDMVMFNLER 419
A + A L LP P R L+D+ + +ER
Sbjct: 298 AIGWTDTARKALAKLPDHPLRQMLDDLADYVVER 331
>3tc1_A Octaprenyl pyrophosphate synthase; all alpha-helices fold,
transferase; 2.00A {Helicobacter pylori}
Length = 315
Score = 316 bits (813), Expect = e-106
Identities = 86/318 (27%), Positives = 150/318 (47%), Gaps = 18/318 (5%)
Query: 106 VAEDLQTLNQNLKSIVG-AENPVLMSAAEQIFGAGGKRLRPALVFLVSRATAELVGLKEL 164
+ L+ + + S + E+ + +I + R + L L + L
Sbjct: 2 QEKQLKAIQNKIASWIKEIESGFIDELFSKIGPSKMLRSKLMLALLNEKT------DAIL 55
Query: 165 TTKHRRLAEIIEMIHTASLIHDDVLDESDMRRGQETVHQLYGTRVAVLAGDFMFAQSSWY 224
K L I+EMI TASL+HDDV+D++ MRR +++ L+G AV+ GD ++++ +
Sbjct: 56 LDKALNLCTIVEMIQTASLLHDDVIDKATMRRKLPSINALFGNFNAVMLGDVFYSKAFFE 115
Query: 225 LANLENLEVIKLISQVIKDFASGEIKQASSLFDCDLELEEYLIKSYYKTASLIAASTKGA 284
L+ + L + + +S + + GEI+ + + ++Y KTA I AS K
Sbjct: 116 LSKMGEL-IAQALSNAVLRLSRGEIEDVFVGECFNSDKQKYWRILEDKTAHFIEASLKSM 174
Query: 285 AIFSGVDGSLSKQMYEYGRNLGLSFQIVDDILDFTQSAEQLGKPAASDLAKGNLTAPVIF 344
AI D +K ++G N G++FQI+DD+LD TQ A+ LGKP SD +G T P +
Sbjct: 175 AILLNKD---AKIYADFGLNFGMAFQIIDDLLDITQDAKTLGKPNFSDFKEGKTTLPYLL 231
Query: 345 ALEK-EPKLREIIESEFCETGS--LDEAIKLVKTSGGIEEAQELAKEKANLAIHNLHCLP 401
EK + ++ S F + ++ + K G IEE + A+ + A+ +
Sbjct: 232 LYEKLNQHDQGLLISYFKQDSHEIIEWTKEKFKQYGIIEETLKTAQVYSKKALEAI---- 287
Query: 402 RSPFRVALEDMVMFNLER 419
+ + LE + + R
Sbjct: 288 KGENNLILEKLAQDVISR 305
>1wy0_A Geranylgeranyl pyrophosphate synthetase; pyrococcus horikosh
structural genomics, riken structural
genomics/proteomics initiative, RSGI; 2.20A {Pyrococcus
horikoshii}
Length = 342
Score = 296 bits (761), Expect = 2e-98
Identities = 102/344 (29%), Positives = 169/344 (49%), Gaps = 28/344 (8%)
Query: 98 SLANIFEVVAEDLQTLNQNLKSIVGAENPVLMS-AAEQIFGAGGKRLRPALVFLVSRATA 156
+F + E + +++ + ++ ++P ++ AA AGGKR+RP +V +
Sbjct: 3 KYEELFARIKEKAKLIDEKIFELIPEKDPRVLYEAARHYPLAGGKRVRPFVVLT----ST 58
Query: 157 ELVGLKELTTKHRRLAEIIEMIHTASLIHDDVLDESDMRRGQETVHQLYGTRVAVLAGDF 216
E VG + A IE+IH SL+HDD++D + RRG+ TVH+++G +A+LAGD
Sbjct: 59 EAVGGD--PLRAIYPAVAIELIHNYSLVHDDIMDMDETRRGKPTVHRIWGVNMAILAGDL 116
Query: 217 MFAQSSWYLANLE-----NLEVIKLISQVIKDFASGEIKQASSLFDCDLELEEYLIKSYY 271
+F+++ +A E V+++I + + G+ + + +EEY+
Sbjct: 117 LFSKAFEAVARAEIPPEKKARVLEVIVKASNELCEGQARDLEFEKKSTVTIEEYMEMISG 176
Query: 272 KTASLIAASTKGAAIFSGVDGSLSKQMYEYGRNLGLSFQIVDDILDFTQSAEQLGKPAAS 331
KT +L AS K I + K + +GRN+G++FQI DD+LD ++LGKP S
Sbjct: 177 KTGALFEASAKVGGIIGTDNEEYIKALSSWGRNVGIAFQIWDDVLDLIADEKKLGKPVGS 236
Query: 332 DLAKGNLTAPVIFALEK-EPKLREIIESEFCETGS---------------LDEAIKLVKT 375
D+ KG T V E + K ++ F + + EAI L+K
Sbjct: 237 DIRKGKKTLIVAHFFENADEKDKQRFLKIFGKYAGDVKGRGIIEEDIKSDVMEAIDLLKK 296
Query: 376 SGGIEEAQELAKEKANLAIHNLHCLPRSPFRVALEDMVMFNLER 419
G I+ A E+AK+ A L LP+S R+ LE + F +ER
Sbjct: 297 YGSIDYAAEIAKDMIKKANEALRILPKSKARMDLELLAKFIVER 340
>4dhd_A Polyprenyl synthetase; isoprenoid synthesis, isoprenoid diphosphate
synthase, trans; 1.65A {Pyrobaculum calidifontis}
Length = 358
Score = 285 bits (731), Expect = 8e-94
Identities = 84/342 (24%), Positives = 144/342 (42%), Gaps = 29/342 (8%)
Query: 98 SLANIFEVVAEDLQTLNQNLKSIVGAENPVLMS-AAEQIFGAGGKRLRPALVFLVSRATA 156
+ + + + + + L + A GGKRLRP L A
Sbjct: 2 VMDVVSRLHQKYGAEVEKALVRYLSIGLAEDFREAVLYQVKTGGKRLRPLLTLA----AA 57
Query: 157 ELVGLKELTTKHRRLAEIIEMIHTASLIHDDVLDESDMRRGQETVHQLYGTRVAVLAGDF 216
E V + A I+E+IH SLI+DD++D D+RRG TV + +G A+L G +
Sbjct: 58 EAVSGQW--RPALPAAAIVELIHNYSLIYDDIIDRGDVRRGLPTVRKAFGDNAAILVGIW 115
Query: 217 MFAQSSWYLANLENLEVI-KLISQVIKDFASGEIKQ------------ASSLFDCDLELE 263
+ + + K +++VIK GE ++ L+
Sbjct: 116 YREAIEEAVLDTPKPTLFAKEVAEVIKAIDEGERLDILFEAAGRSDPYFVQARWREVTLD 175
Query: 264 EYLIKSYYKTASLIAASTKGAAIFSGVDGSLSKQMYEYGRNLGLSFQIVDDILDFTQSAE 323
+Y+ KT +LIAA+ K + D L++ + +G G++FQI+DD+LD +
Sbjct: 176 DYIKMVSLKTGALIAAAAKWGVLSVSDDRGLAEAAWNFGMAAGVAFQIIDDVLDIYGDPK 235
Query: 324 QLGKPAASDLAKGNLTAPVIFAL------EKEPKLREIIESEFCETGSLDEAIKLVKTSG 377
+ GK D+ + V+ + +L EI+ E E + EA+ L+ + G
Sbjct: 236 KFGKEIGKDIKEHKRGNAVVAVALSHLGEGERRRLLEILAREVVEEADVREAVALLDSVG 295
Query: 378 GIEEAQELAKEKANLAIHNLHCLPRSPFRVALEDMVMFNLER 419
EEA LA A +L +P + L++++ F + R
Sbjct: 296 AREEALRLAARYREEAERHLAKIPNNG---TLKELLDFIVAR 334
>3ipi_A Geranyltranstransferase; isoprene biosynthesis, helical bundle,
protein structure initiative II (PSI II), structural
genomics, nysgxrc; 1.90A {Methanosarcina mazei}
Length = 295
Score = 282 bits (723), Expect = 2e-93
Identities = 78/301 (25%), Positives = 134/301 (44%), Gaps = 17/301 (5%)
Query: 108 EDLQTLNQNLKS-IVGAENPVLMSAAEQIFGAGGKRLRPALVFLVSRATAELVGLKELTT 166
E+ + + +K I E+P L E + +GGKR+RP ++ LVS +
Sbjct: 9 EEYRYVEAGIKESITLIEDPGLKKMVEHVCHSGGKRIRPIILLLVSEI------CSGSYS 62
Query: 167 KHRRLAEIIEMIHTASLIHDDVLDESDMRRGQETVHQLYGTRVAVLAGDFMFAQSSWYLA 226
+ A +EM+H+ASLIHDD+LD+ +RR + + +G A+L GD++ A+S +++
Sbjct: 63 RSLNAALAVEMMHSASLIHDDLLDQGLVRRNLPSAPEKFGPSGALLCGDYLIAKSIAFIS 122
Query: 227 NLENLEVIKLISQVIKDFASGEIKQASSLFDCDLELEEYLIKSYYKTASLIAASTKGAAI 286
+VI+ + D A GE+ D +Y Y KTASL A S A
Sbjct: 123 PYGE-KVIQDFGKAGMDMAEGEVLDLKL-EDESFGENDYFKCIYKKTASLFAISASIGAY 180
Query: 287 FSGVDGSLSKQMYEYGRNLGLSFQIVDDILDFTQSAEQLGKPAASDLAKGNLTAPVIFAL 346
G + L+++ +G LG ++QIVDDIL+F + + T P I+
Sbjct: 181 TGGAEEELAERFSHFGNALGTAYQIVDDILEFL------EVVEGKESKFTSETLPHIYMK 234
Query: 347 E--KEPKLREIIESEFCETGSLDEAIKLVKTSGGIEEAQELAKEKANLAIHNLHCLPRSP 404
KE L++ I+ + E ++ + ++ ++ + NL
Sbjct: 235 STSKEEALKKSIDCVKLHVAAAKETLETFRECPARDKLFQITDYITVDMLENLEGHHHHH 294
Query: 405 F 405
Sbjct: 295 H 295
>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 = 274 bits (702), Expect = 3e-90
Identities = 66/310 (21%), Positives = 121/310 (39%), Gaps = 17/310 (5%)
Query: 116 NLKSIVGAENPVLMSAAEQIFGAGGKRLRPALVFLVSRATAELVGLKELTTKHRRLAEII 175
+++ +L+ + + GK++R L + LK K + + E+
Sbjct: 1 SMEKTQETVQRILLEPYKYLLQLPGKQVRTKLSQAFNHW------LKVPEDKLQIIIEVT 54
Query: 176 EMIHTASLIHDDVLDESDMRRGQETVHQLYGTRVAVLAGDFMFAQSSWYLANLENLEVIK 235
EM+H ASL+ DD+ D S +RRG H +YG + + ++++ + L++ + +K
Sbjct: 55 EMLHNASLLIDDIEDNSKLRRGFPVAHSIYGIPSVINSANYVYFLGLEKVLTLDHPDAVK 114
Query: 236 LISQVIKDFASGEIKQ--ASSLFDCDLELEEYLIKSYYKTASLIAASTKGAAIFSGVDGS 293
L ++ + + G+ + C E EEY KT L + +FS
Sbjct: 115 LFTRQLLELHQGQGLDIYWRDNYTCPTE-EEYKAMVLQKTGGLFGLAVGLMQLFSDYK-- 171
Query: 294 LSKQMYEYGRNLGLSFQIVDDILDFTQSAEQLGKPAASDLAKGNLTAPVIFALEKEP--- 350
+ + LGL FQI DD + K DL +G + P I A+ P
Sbjct: 172 --EDLKPLLNTLGLFFQIRDDYANLHSKEYSENKSFCEDLTEGKFSFPTIHAIWSRPEST 229
Query: 351 KLREIIESEFCETGSLDEAIKLVKTSGGIEEAQELAKEKANLAIHNLHCLPRSPFRVAL- 409
+++ I+ + ++ G E + KE A + +P VAL
Sbjct: 230 QVQNILRQRTENIDIKKYCVHYLEDVGSFEYTRNTLKELEAKAYKQIDARGGNPELVALV 289
Query: 410 EDMVMFNLER 419
+ + E
Sbjct: 290 KHLSKMFKEE 299
>3nf2_A Putative polyprenyl synthetase; isoprenyl diphosphate synthase,
structural genomics, PSI, PR structure initiative,
nysgrc; 2.20A {Streptomyces coelicolor}
Length = 352
Score = 273 bits (701), Expect = 3e-89
Identities = 82/333 (24%), Positives = 148/333 (44%), Gaps = 21/333 (6%)
Query: 102 IFEVVAEDLQTLNQNLKSIVGAENPVLMSAAEQIFGAGGKRLRPALVFLVSRATAELVGL 161
V+ + L + ++ + + G GGK +RPAL L +AE+ G
Sbjct: 16 ATPVLRAAVDRLAPPMDTVAAYHFGWIDAQGNPADGDGGKAVRPALAVL----SAEVTGA 71
Query: 162 KELTTKHRRLAEIIEMIHTASLIHDDVLDESDMRRGQETVHQLYGTRVAVLAGDFMFAQS 221
A +E++H SL+HDD++D + RR ++TV +++G A+L GD +FA +
Sbjct: 72 AP--EVGVPGAVAVELVHNFSLLHDDLMDGDEQRRHRDTVWKVHGPAQAILVGDALFALA 129
Query: 222 SWYLANLENL---EVIKLISQVIKDFASGEIKQASSLFDCDLELEEYLIKSYYKTASLIA 278
+ L L + + +++ + G+ + S + +EE L KT +L+A
Sbjct: 130 NEVLLELGTVEAGRATRRLTKASRSLIDGQAQDISYEHRDRVSVEECLEMEGNKTGALLA 189
Query: 279 ASTKGAAIFSGVDGSLSKQMYEYGRNLGLSFQIVDDILDFTQSAEQLGKPAASDLAKGNL 338
++ A+ G D + + +YG +LGL+FQ VDD+L + GK SDL +
Sbjct: 190 CASSIGAVLGGADERTADTLEKYGYHLGLAFQAVDDLLGIWGDPDATGKQTWSDLRQRKK 249
Query: 339 TAPVIFALEK----EPKLREIIESEFCETGS-------LDEAIKLVKTSGGIEEAQELAK 387
+ PV+ AL +L EI+ ++ + L++ +GG E + A+
Sbjct: 250 SLPVVAALAAGGAASERLGEILTADAKASDFANFSEEEFAARAALIEEAGGREWTADEAR 309
Query: 388 EKANLAIHNLHCLPRS-PFRVALEDMVMFNLER 419
+ +AI L + R + F + R
Sbjct: 310 RQHTIAIEALDAVDMPDRVRDRFTALADFVVVR 342
>1wmw_A Geranylgeranyl diphosphate synthetase; GGPP, prenyl diphosphate
synthase, structural genom riken structural
genomics/proteomics initiative; 1.55A {Thermus
thermophilus}
Length = 330
Score = 254 bits (652), Expect = 3e-82
Identities = 81/337 (24%), Positives = 131/337 (38%), Gaps = 28/337 (8%)
Query: 102 IFEVVAEDLQTLNQNLKSIVGAENPVLMSAAEQIFGAGGKRLRPALVFLVSRATAELVGL 161
+ Q L + L + + +P+ + GGK LR L + A
Sbjct: 1 MVPAPEAIRQALQERLLARLDHPDPLYRDLLQDYPRRGGKMLRGLLTVYSALA------H 54
Query: 162 KELTTKHRRLAEIIEMIHTASLIHDDVLDESDMRRGQETVHQLYGTRVAVLAGDFMFAQS 221
A +E+ L+HDD+ D S+ RRG+ +H+L+ +A+ AGD M A+
Sbjct: 55 GAPLEAGLEAATALELFQNWVLVHDDIEDGSEERRGRPALHRLHPMPLALNAGDAMHAEM 114
Query: 222 SWYLAN-----LENLEVIKLISQVIKDFASGEIKQ--ASSLFDCDLELEEYLIKSYYKTA 274
LA L EV+ +V++ A G+ + DL E+Y +K A
Sbjct: 115 WGLLAEGLARGLFPPEVLLEFHEVVRRTAYGQHLDLLWTLGGTFDLRPEDYFRMVAHKAA 174
Query: 275 SLIA-ASTKGAAIFSGVDGSLSKQMYEYGRNLGLSFQIVDDILDFTQSAEQLGKPAASDL 333
A A + A+ +G E G LG +FQIVDD+L+ E GK A DL
Sbjct: 175 YYTAVAPLRLGALLAGKTP--PAAYEEGGLRLGTAFQIVDDVLNLE-GGEAYGKERAGDL 231
Query: 334 AKGNLTAPVIFALEK-EPKLREIIESEFCETGS------LDEAIKLVKTSGGIEEAQELA 386
+G T ++ LE+ P+ R + + ++ + S + A+ A
Sbjct: 232 YEGKRTLILLRFLEEAPPEERARALALLALPREAKPEAEVGWLLERLLASRALAWAKAEA 291
Query: 387 KEKANLAIHNLHC----LPRSPFRVALEDMVMFNLER 419
K + L LP L ++ +ER
Sbjct: 292 KRLQAEGLALLEAAFQDLPGKEALDHLRGLLAALVER 328
>2azj_A Geranylgeranyl pyrophosphate synthetase; hexpps,
trans-prenyltransferase; 2.40A {Sulfolobus solfataricus}
PDB: 2azk_A
Length = 289
Score = 251 bits (644), Expect = 1e-81
Identities = 61/292 (20%), Positives = 119/292 (40%), Gaps = 21/292 (7%)
Query: 98 SLANIFEVVAEDLQTLNQNLKSIVGAENPVLMSAAEQIFGAGGKRLRPALVFLVSRATAE 157
+I E E T+++ ++ + + + GKR R L + A
Sbjct: 7 HHMSIIEFWLEAKATIDRLIEQFLNSNRDWDLVDISSYILKDGKRFRGTLNMFFTVA--- 63
Query: 158 LVGLKELTTKHRRLAEIIEMIHTASLIHDDVLDESDMRRGQETVHQLYGTRVAVLAGDFM 217
L A IE++H+ASL D++D RRG + +YG R + +++
Sbjct: 64 ---LGGDIKDSYGGALAIEILHSASLALCDIVDLDATRRGDKAAWVVYGNRKVIFITNYL 120
Query: 218 FAQSSWYLANLENLEVIKLISQVIKDFASGEIKQASSLFDCDLELEEYLIKSYYKTASLI 277
+ + + + ++ KD + G ++ ++D +Y+ KT SL
Sbjct: 121 IPTALRIIQTSYGDDALNTSIELWKDTSVGALRD---MYDN----SDYIRTIELKTGSLF 173
Query: 278 AASTKGAAIFSGVDGSLSKQMYEYGRNLGLSFQIVDDILDFT----QSAEQLGKPAASDL 333
ST +A S + +QM + G+ LG+ +Q++DD +D+ + + K
Sbjct: 174 KLSTVLSAYASKHY-NTKQQMLDVGKYLGIIYQVIDDFVDYKTKKVEEIDGSAKQLFKYY 232
Query: 334 AKGNLTAPVIFALEK-EPKLREIIESEFCETGSLDEAIKLVK--TSGGIEEA 382
+G L V + + K E+I + ++ L E L + +G ++EA
Sbjct: 233 REGKLEEYVRSVYLEYKQKYDELISNIPFQSKYLSEIRSLPEFLANGLLKEA 284
>4fp4_A Polyprenyl synthetase; isoprenoid synthesis, isoprenoid diphosphate
synthase, trans; HET: GER UNL; 2.00A {Pyrobaculum
calidifontis}
Length = 285
Score = 240 bits (614), Expect = 3e-77
Identities = 60/299 (20%), Positives = 115/299 (38%), Gaps = 19/299 (6%)
Query: 98 SLANIFEVVAEDLQTLNQNLKSIVGAENPVLMS-AAEQIFGAGGKRLRPALVFLVSRATA 156
+ ++ V L+ + L + P+ + A GK LRP L+ + +
Sbjct: 2 VMYSLPPEVLAALERVKARLNKVGEELEPISLRKAVRHYIETPGKLLRPLLLLTFTYSID 61
Query: 157 ELVGLKELTTKHRRLAEIIEMIHTASLIHDDVLDESDMRRGQETVHQLYGTRVAVLAGDF 216
+ + A I+E++H SL+ DDV+D+ D RRG +T +YG A++A D+
Sbjct: 62 ---RRSIMDPRILEAAAIVELLHVVSLLQDDVMDQHDQRRGIKTPRAMYGDGRAIVASDW 118
Query: 217 MFAQSSWYLANLENLEVIKLISQVIKDFASGEIKQASSLFDCDLELEEYLIKSYYKTASL 276
+ A+S NL +V+ ++ V + + G+ LE E + +KTA L
Sbjct: 119 LIAESIKMAVNL-GADVVTYLADVAQRLSVGQALD--------LE-GERDKAAEFKTAPL 168
Query: 277 IAASTKGAAIFSGVDGSLSKQMYEYGRNLGLSFQIVDDILDFTQSAEQLGKPAASDLAKG 336
I A+ + G L + + G LG+ +Q DD D + K A+++ G
Sbjct: 169 IEAALVMPLVILGRR-ELIETAKKLGTKLGILYQYSDDYSDENVERPE-TKSIANEI--G 224
Query: 337 NLTAPVIFALEK-EPKLREIIESEFCETGSLDEAIKLVKTSGGIEEAQELAKEKANLAI 394
+ + +I+ + + ++ ++
Sbjct: 225 RYLLKIKEHVGDAIAPFERLIKYLIGKALEGTLTVSRTIAENLYFQSHHHHHHWSHPQF 283
>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 = 225 bits (575), Expect = 1e-70
Identities = 61/338 (18%), Positives = 129/338 (38%), Gaps = 31/338 (9%)
Query: 106 VAEDLQTLNQNLKSIVGAENPVLMSAAEQIFGAGGKRLRPALVFLVSRATAELVGLKELT 165
+ + L N ++ I GK R L+ ++R +
Sbjct: 6 MEAKIDELINNDPVWSSQNESLISKPYNHILLKPGKNFRLNLIVQINRV------MNLPK 59
Query: 166 TKHRRLAEIIEMIHTASLIHDDVLDESDMRRGQETVHQLYGTRVAVLAGDFMFAQSSWYL 225
+ +++I+E++H +SL+ DD+ D + +RRGQ T H ++G + ++M+ ++ +
Sbjct: 60 DQLAIVSQIVELLHNSSLLIDDIEDNAPLRRGQTTSHLIFGVPSTINTANYMYFRAMQLV 119
Query: 226 ANLENLE-----VIKLISQVIKDFASGEIKQ---ASSLFDCDLELEEYLIKSYYKTASLI 277
+ L E +I + ++ + + G+ L + E YL KT L
Sbjct: 120 SQLTTKEPLYHNLITIFNEELINLHRGQGLDIYWRDFLPEIIPTQEMYLNMVMNKTGGLF 179
Query: 278 AASTKGAAIFSGVDGSLSKQMYEYGRNLGLSFQIVDDILDFTQSAEQLGKPAASDLAKGN 337
+ + S + + LG+ +QI DD L+ K A D+ +G
Sbjct: 180 RLTLRLMEALSPSSHH-GHSLVPFINLLGIIYQIRDDYLNLKDFQMSSEKGFAEDITEGK 238
Query: 338 LTAPVIFALE------KEPKLREIIESEFCETGSLDEAIKLVKT----SGGIEEAQELAK 387
L+ P++ AL + + EI+ T D +KL++ + + +
Sbjct: 239 LSFPIVHALNFTKTKGQTEQHNEILRILLLRTSDKDIKLKLIQILEFDTNSLAYTKNFIN 298
Query: 388 EKANLAIHNLH------CLPRSPFRVALEDMVMFNLER 419
+ N+ ++ S L D +++ ++
Sbjct: 299 QLVNMIKNDNENKYLPDLASHSDTATNLHDELLYIIDH 336
>3lk5_A Geranylgeranyl pyrophosphate synthase; structural genomics, protein
structure initiative, geranylge pyrophosphate synthase;
1.90A {Corynebacterium glutamicum} PDB: 3qqv_A*
Length = 380
Score = 226 bits (577), Expect = 2e-70
Identities = 76/371 (20%), Positives = 136/371 (36%), Gaps = 33/371 (8%)
Query: 82 IPPAVLNLKEKSRSPISLANIFEVVAEDLQTLNQNLKSIVGAENPV---LMSAAEQIFGA 138
+ ++L + L EVV + L + + ++
Sbjct: 1 MSLKDVSLSSFDAHDLDLDKFPEVVRDRLTQFLDAQELTIADIGAPVTDAVAHLRSFVLN 60
Query: 139 GGKRLRPALVFLVSRATAELVGLKELTTKHRRLAEIIEMIHTASLIHDDVLDESDMRRGQ 198
GGKR+RP + A E A +E I +LIHDD++D SD RRG
Sbjct: 61 GGKRIRPLYAWAGFLAAQGHKNSSEKLESVLDAAASLEFIQACALIHDDIIDSSDTRRGA 120
Query: 199 ETVH----------------QLYGTRVAVLAGDFMFAQSSWYLANLEN-----LEVIKLI 237
TVH + +G V++LAGD + L +
Sbjct: 121 PTVHRAVEADHRANNFEGDPEHFGVSVSILAGDMALVWAEDMLQDSGLSAEALARTRDAW 180
Query: 238 SQVIKDFASGEIKQASSLFDCDLELEEYLIKSYYKTAS-LIAASTKGAAIFSGVDGSLSK 296
+ + G++ + +E + +KTA+ IA A +G L
Sbjct: 181 RGMRTEVIGGQLLDIYLESHANESVELADSVNRFKTAAYTIARPLHLGASIAGGSPQLID 240
Query: 297 QMYEYGRNLGLSFQIVDDILDFTQSAEQLGKPAASDLAKGNLTAPVIFALEK----EPKL 352
+ YG ++G++FQ+ DD+L GKPA D+ +G T + AL++ P+
Sbjct: 241 ALLHYGHDIGIAFQLRDDLLGVFGDPAITGKPAGDDIREGKRTVLLALALQRADKQSPEA 300
Query: 353 REIIESEFCETGS---LDEAIKLVKTSGGIEEAQELAKEKANLAIHNLHCLPRSP-FRVA 408
I + + S + + ++ +G EE ++ + + +L + R
Sbjct: 301 ATAIRAGVGKVTSPEDIAVITEHIRATGAEEEVEQRISQLTESGLAHLDDVDIPDEVRAQ 360
Query: 409 LEDMVMFNLER 419
L + + + ER
Sbjct: 361 LRALAIRSTER 371
>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 = 205 bits (524), Expect = 8e-63
Identities = 56/336 (16%), Positives = 109/336 (32%), Gaps = 20/336 (5%)
Query: 101 NIFEVVAEDLQTLNQNLKSIVGAENPVLMSAAEQIFGAGGKRLRPALVFLVSRATAELVG 160
F + DL + + + Q GGK R V R +
Sbjct: 33 GFFPQIVRDL--TEDGIGHPEVGDAVARLKEVLQYNAPGGKCNRGLTVVAAYRELSGPGQ 90
Query: 161 L-KELTTKHRRLAEIIEMIHTASLIHDDVLDESDMRRGQETVHQLYGTRVAVLAGDFMFA 219
E + IE+ ASL+ DD++D+S RRGQ ++ G + + F+
Sbjct: 91 KDAESLRCALAVGWCIELFQAASLVADDIMDQSLTRRGQLCWYKKEGVGLDAINDSFLLE 150
Query: 220 QSSWYLANL------ENLEVIKLISQVIKDFASGEIKQASSLFDCDLELEEYLIKSY--- 270
S + + + +++L Q G++ + ++L + + Y
Sbjct: 151 SSVYRVLKKYCRQRPYYVHLLELFLQTAYQTELGQMLDLITAPVSKVDLSHFSEERYKAI 210
Query: 271 --YKTASL--IAASTKGAAIFSGVDGSLSKQMYEYGRNLGLSFQIVDDILDFTQSAEQLG 326
YKTA + + +G FQI DD LD G
Sbjct: 211 VKYKTAFYSFYLPVAAAMYMVGIDSKEEHENAKAILLEMGEYFQIQDDYLDCFGDPALTG 270
Query: 327 KPAASDLAKGNLTAPVIFALEK-EPKLREIIESEF--CETGSLDEAIKLVKTSGGIEEAQ 383
+D+ + V+ L++ P+ R+++E + E + + +L + G Q
Sbjct: 271 A-VGTDIQDNKCSWLVVQCLQRVTPEQRQLLEDNYGRKEPEKVAKVKELYEAVGMRAAFQ 329
Query: 384 ELAKEKANLAIHNLHCLPRSPFRVALEDMVMFNLER 419
+ + + + + +R
Sbjct: 330 QYEESSYRRLQELIEKHSNRLPKEIFLGLAQKIYKR 365
>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 = 185 bits (470), Expect = 1e-54
Identities = 62/370 (16%), Positives = 114/370 (30%), Gaps = 40/370 (10%)
Query: 83 PPAVLNLKEKSRSPISLANIFEVVAEDL-QTLNQNLKSIVGAENPV-LMSAAEQIFGAGG 140
N +E N+++ + LN+ E+ GG
Sbjct: 20 GMKETNSEEADSGLAFFRNMYDKYRDAFLSHLNEYSLEEEIKEHISKYYKLLFDYNCLGG 79
Query: 141 KRLRPALVFLVSRATAELVGLKELTTKHRRLAEIIEMIHTASLIHDDVLDESDMRRGQET 200
K R LV L+ K LA IE++ A L+ DD++D+ +MRR +
Sbjct: 80 KNNRGILVILIYEYVKNRDINSSEWEKAACLAWCIEILQAAFLVADDIMDKGEMRRNKYC 139
Query: 201 VHQLYGTRVAVLAGDFMFAQSSWY-------LANLENLEVIKLISQVIKDFASGE----- 248
+ L D + +S Y ++VI G+
Sbjct: 140 WYLLKDVETKNAVNDVLLLYNSIYKLIEIYLRNESCYVDVIATFRDATLKTIIGQHLDTN 199
Query: 249 -------------------IKQASSLFDCDLELEEYLIKSYYKTASLI-AASTKGAAIFS 288
+ + + + Y +KTA + +
Sbjct: 200 IFSDKYSDAHREIDVNNINVPEQPVIDINMINFGVYKNIVIHKTAYYSFFLPIVCGMLLA 259
Query: 289 GV--DGSLSKQMYEYGRNLGLSFQIVDDILDFTQSAEQLGKPAASDLAKGNLTAPVIFAL 346
G+ D + K++ + +G FQI DD LD + + GK SD+ LT P+I
Sbjct: 260 GIAVDNLIYKKIEDISMLMGEYFQIHDDYLDIFGDSTKTGK-VGSDIQNNKLTWPLIKTF 318
Query: 347 EK-EPKLREIIESEF--CETGSLDEAIKLVKTSGGIEEAQELAKEKANLAIHNLHCLPRS 403
E + I + + L + + + K + + ++ L
Sbjct: 319 ELCSEPDKIKIVKNYGKNNLACVKVIDSLYEQYKIRKHYESYEKAQKAKILSAINELHHE 378
Query: 404 PFRVALEDMV 413
L+ ++
Sbjct: 379 GIEYVLKYLL 388
>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 = 177 bits (450), Expect = 7e-52
Identities = 55/347 (15%), Positives = 115/347 (33%), Gaps = 26/347 (7%)
Query: 91 EKSRSPISLANIFEVVAEDLQTLNQNLKSIVGAENPVL--MSAAEQIFGAGGKRLRPALV 148
+ N ++ + + + L PV+ GK +R ++
Sbjct: 20 QGEYDYTDFINYYDKFKVIVYNVLKKLPLNDEIRKPVIEYYLNCIDYNVKKGKHIRGKIL 79
Query: 149 FLVSRATAELVGLKELTT-KHRRLAEIIEMIHTASLIHDDVLDESDMRRGQETVHQLYGT 207
L+S + L ++E I LI DD++D RRG + ++G
Sbjct: 80 VLISSL---SSAYSNIKRDSIYLLGWVVEAIQALILIADDIMDSGKFRRGAPCWYIVHGQ 136
Query: 208 RVAVLAGDFMFAQSSWYLANLEN-------LEVIKLISQVIKDFASGEIKQASS--LFDC 258
A+ F+ S + L + +++ K+ ++ I G+ S L
Sbjct: 137 SNAINDIFFLKMLSLSLIFELSSVFGNDIVMKIQKIYNESIFFTVLGQHLDLSYFDLSKA 196
Query: 259 DLELEEYLIKSYYKTASL-IAASTKGAAIFSGVDGS--LSKQMYEYGRNLGLSFQIVDDI 315
D E Y KT+ S + S + LG +Q+ +D+
Sbjct: 197 DKISERYFSMVEMKTSRYTFYMPVFFGLTLSEIQVSSAQLNLIEAILYKLGEFYQVHNDV 256
Query: 316 LDFTQSAEQLGKPAASDLAKGNLTAPVIFALEK-EPKLREIIESEFCE-TGSLDEAIKLV 373
D+ A D+ + LT P+ + E + +++ I + + + + + L+
Sbjct: 257 SDYLF-----NDSNADDICRFKLTWPLQKSFEIADEEMKLKISENYGKNSSLVKDCYNLL 311
Query: 374 KTSGGIEEAQELAKEKANLAIHNLHC-LPRSPFRVALEDMVMFNLER 419
K + E Q A + + ++ + F + +
Sbjct: 312 KINEHYLEYQRNALDYLIKLVKDITDDSLQKVFIHLIHQISELITNS 358
>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 = 175 bits (445), Expect = 5e-51
Identities = 58/341 (17%), Positives = 113/341 (33%), Gaps = 26/341 (7%)
Query: 99 LANIFEVVAEDLQTLNQNLKSIVGAENPVLMSAAEQIFGAGGKRLRPALVFLVSRATAEL 158
F + L + + + + GGK R V + R L
Sbjct: 38 FVQHFSQIVRVL--TEDEMGHPEIGDAIARLKEVLEYNAIGGKYNRGLTVVVAFRE---L 92
Query: 159 VGLKELTT----KHRRLAEIIEMIHTASLIHDDVLDESDMRRGQETVHQLYGTRV-AVLA 213
V ++ + + +E++ L+ DD++D S RRGQ +Q G + A+
Sbjct: 93 VEPRKQDADSLQRAWTVGWCVELLQAFFLVADDIMDSSLTRRGQICWYQKPGVGLDAIND 152
Query: 214 GDFMFAQSSWYLAN-----LENLEVIKLISQVIKDFASGEIKQASSLFDCDLELEEYLIK 268
+ + A L L +I+L Q G+ + +++L + K
Sbjct: 153 ANLLEACIYRLLKLYCREQPYYLNLIELFLQSSYQTEIGQTLDLLTAPQGNVDLVRFTEK 212
Query: 269 SY-----YKTASL-IAASTKGAAIFSGVDG-SLSKQMYEYGRNLGLSFQIVDDILDFTQS 321
Y YK+A A +G+DG + +G FQI DD LD
Sbjct: 213 RYKSIVKYKSAFYSFYLPIAAAMYMAGIDGEKEHANAKKILLEMGEFFQIQDDYLDLFGD 272
Query: 322 AEQLGKPAASDLAKGNLTAPVIFALEK-EPKLREIIESEF--CETGSLDEAIKLVKTSGG 378
GK +D+ + V+ L++ P+ +I++ + E + L +
Sbjct: 273 PSVTGK-IGTDIQDNKCSWLVVQCLQRATPEQYQILKENYGQKEAEKVARVKALYEELDL 331
Query: 379 IEEAQELAKEKANLAIHNLHCLPRSPFRVALEDMVMFNLER 419
+ ++ + + + + +R
Sbjct: 332 PAVFLQYEEDSYSHIMALIEQYAAPLPPAVFLGLARKIYKR 372
>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 = 171 bits (435), Expect = 9e-50
Identities = 55/339 (16%), Positives = 101/339 (29%), Gaps = 35/339 (10%)
Query: 99 LANIFEVVAEDLQTLNQNLKSIVGAENPVLMSAAEQIFGAGGKRLRPALVFLVSRATAEL 158
++++ V L Q+ I + GGK R V V+ +
Sbjct: 7 FLSVYDEVQAFLLDQLQSKYEI-DPNRARYLRIMMDTTCLGGKYFRGMTVVNVAEGFLAV 65
Query: 159 VGLKELTTKH-----RRLAEIIEMIHTASLIHDDVLDESDMRRGQETVHQLYGTRVAVLA 213
E T + +IE + L+ DD++D S MRRG+ ++ G
Sbjct: 66 TQHDEATKERILHDACVGGWMIEFLQAHYLVEDDIMDGSVMRRGKPCWYRFPGVTTQCAI 125
Query: 214 GDFMFAQSSWYLANLENL-------EVIKLISQVIKDFASG----------------EIK 250
D + +S + +++ L +V A G E+
Sbjct: 126 NDGIILKSWTQIMAWHYFADRPFLKDLLCLFQKVDYATAVGQMYDVTSMCDSNKLDPEVA 185
Query: 251 QASSLFDCDLELEEYLIKSYYKTASLI-AASTKGAAIFSGVDGSLS-KQMYEYGRNLGLS 308
Q + + Y YKT S S+ + +G
Sbjct: 186 QPMTTDFAEFTPAIYKRIVKYKTTFYTYLLPLVMGLFVSEAAASVEMNLVERVAHLIGEY 245
Query: 309 FQIVDDILDFTQSAEQLGKPAASDLAKGNLTAPVIFALEK-EPKLREIIESEF--CETGS 365
FQ+ DD++D EQLGK +D+ + + L K ++ + +
Sbjct: 246 FQVQDDVMDCFTPPEQLGK-VGTDIEDAKCSWLAVTFLGKANAAQVAEFKANYGDKDPAK 304
Query: 366 LDEAIKLVKTSGGIEEAQELAKEKANLAIHNLHCLPRSP 404
+ +L + + E + L
Sbjct: 305 VAVVKRLYSEANLQADFAAYEAEVVREVESLIEQLKVKS 343
>3uca_A Geranyltranstransferase; isoprenoid synthesis, isoprenoid
diphosphate synthase; 2.00A {Clostridium perfringens}
Length = 324
Score = 168 bits (428), Expect = 5e-49
Identities = 86/350 (24%), Positives = 136/350 (38%), Gaps = 62/350 (17%)
Query: 87 LNLKEKSRSPISLANIFEVVAEDLQTLNQNLKSIVGAEN---PVLMSAAEQIFGAGGKRL 143
L + + +L + + + ++Q+LK+ + VL + GGKR+
Sbjct: 18 LYFQSMMKKRKTLEDTAMNINSLKEEVDQSLKAYFNKDREYNKVLYDSMAYSINVGGKRI 77
Query: 144 RPALVFLVSRATAELVGLKELTTKHRRLAEIIEMIHTASLIHDDV--LDESDMRRGQETV 201
RP L+ + + K A IEMIHT SLIHDD+ +D D+RRG+ T
Sbjct: 78 RPILML----LSYYIYKSDY--KKILTPAMAIEMIHTYSLIHDDLPCMDNDDLRRGKPTN 131
Query: 202 HQLYGTRVAVLAGDFMFAQSSWYLANLENLE---VIKLISQVIKDFASGEIK-------- 250
H+++G +AVLAGD + ++ L + E +K + A+G
Sbjct: 132 HKVFGEAIAVLAGDALLNEAMKILVDYSLEEGKSALKATKIIAD--AAGSDGMIGGQIVD 189
Query: 251 -QASSLFDCDLELEEYLIKSYYKTASLIAASTKGAAIFSGVDGSLSKQMYEYGRNLGLSF 309
+ L+ +Y+ KT LI AS A+ + K++ +G LGL+F
Sbjct: 190 IINEDKEEISLKELDYM--HLKKTGELIKASIMSGAVLAEASEGDIKKLEGFGYKLGLAF 247
Query: 310 QIVDDILDFTQSAEQLGKPAASDLAKGNLTAPVIFALEKEPKLREIIESEFCETGSLDEA 369
QI DDILD +A+ LGK D IF
Sbjct: 248 QIKDDILDVVGNAKDLGKNVHKDQESNKNNYITIF------------------------- 282
Query: 370 IKLVKTSGGIEEAQELAKEKANLAIHNLHCLPRSPFRVALEDMVMFNLER 419
G+EE ++ I L + + L+ + M LER
Sbjct: 283 --------GLEECKKKCVNITEECIEILSSIKGNT--EPLKVLTMKLLER 322
>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 = 167 bits (426), Expect = 6e-49
Identities = 67/277 (24%), Positives = 107/277 (38%), Gaps = 43/277 (15%)
Query: 138 AGGKRLRPALVFLVSRATAELVGLKELTTKHRRLAEIIEMIHTASLIHDDV--LDESDMR 195
AGGKRLRP L AT + +G+ + +H R +E++HT SLIHDD+ +D +R
Sbjct: 46 AGGKRLRPLLTV----ATMQSLGVTFVPERHWRPVMALELLHTYSLIHDDLPAMDNDALR 101
Query: 196 RGQETVHQLYGTRVAVLAGDFMFAQSSWYLANLE-----NLEVIKLIS-----------Q 239
RG+ T H +G +A LAGD + + +L + +++ ++ Q
Sbjct: 102 RGEPTNHVKFGAGMATLAGDGLLTLAFQWLTATDLPATMQAALVQALATAAGPSGMVAGQ 161
Query: 240 VIKDFASGEIKQASSLFDCDLELEEYLIKSYYKTASLIAASTKGAAIFSGVDGSLSKQMY 299
D S E L L KT +L+ + + I +
Sbjct: 162 AK-DIQS-EHVNL------PLSQLRVL--HKEKTGALLHYAVQAGLILGQAPEAQWPAYL 211
Query: 300 EYGRNLGLSFQIVDDILDFTQSAEQLGKPAASDLAKGNLTAPVIFALEK-EPKLREIIES 358
++ GL+FQI DDILD S ++GK D + T P L L + I
Sbjct: 212 QFADAFGLAFQIYDDILDVVSSPAEMGKATQKDADEAKNTYPGKLGLIGANQALIDTI-- 269
Query: 359 EFCETGSLDEAIKLVKTSGGIEEAQELAKEKANLAIH 395
++ + +LA +
Sbjct: 270 --------HSGQAALQGLPTSTQRDDLAAFFSYFDTE 298
>1rtr_A Geranyltranstransferase; 2.50A {Staphylococcus aureus} SCOP:
a.128.1.1
Length = 301
Score = 166 bits (423), Expect = 1e-48
Identities = 77/295 (26%), Positives = 124/295 (42%), Gaps = 56/295 (18%)
Query: 138 AGGKRLRPALVFLVSRATAELVGLKELTTKHRRLAEIIEMIHTASLIHDDV--LDESDMR 195
AGGKR+RP L+ T + + + + A +EMIHT SLIHDD+ +D D R
Sbjct: 40 AGGKRIRPVLLL----LTLDSLNTEY--ELGMKSAIALEMIHTYSLIHDDLPAMDNDDYR 93
Query: 196 RGQETVHQLYGTRVAVLAGDFMFAQSSWYLANLENLE---VIKLISQVIKDFASGEIK-- 250
RG+ T H++YG A+LAGD + ++ +++ + L IK++ ++ ASG +
Sbjct: 94 RGKLTNHKVYGEWTAILAGDALLTKAFELISSDDRLTDEVKIKVLQRLSI--ASGHVGMV 151
Query: 251 --QASSLF----DCDLELEEYLIKSYYKTASLIAASTKGAAIFSGVDGSLSKQMYEYGRN 304
Q + DLE E + KT +L+ + AA + VD + + + Y +
Sbjct: 152 GGQMLDMQSEGQPIDLETLEMI--HKTKTGALLTFAVMSAADIANVDDTTKEHLESYSYH 209
Query: 305 LGLSFQIVDDILDFTQSAEQLGKPAASDLAKGNLTAPVIFALEKEPKLREIIESEFCETG 364
LG+ FQI DD+LD +LGK SDL T +
Sbjct: 210 LGMMFQIKDDLLDCYGDEAKLGKKVGSDLENNKSTYVSLL-------------------- 249
Query: 365 SLDEAIKLVKTSGGIEEAQELAKEKANLAIHNLHCLPRSPFRVALEDMVMFNLER 419
G + A++ + A+ L + L ++V R
Sbjct: 250 -------------GKDGAEDKLTYHRDAAVDELTQIDEQFNTKHLLEIVDLFYSR 291
>3p8l_A Geranyltranstransferase; isoprenyl synthase, structural genomics,
PSI, protein struct initiative, nysgrc; 2.00A
{Enterococcus faecalis}
Length = 302
Score = 166 bits (423), Expect = 1e-48
Identities = 73/300 (24%), Positives = 117/300 (39%), Gaps = 66/300 (22%)
Query: 138 AGGKRLRPALVFLVSRATAELVGLKELTTKHRRLAEIIEMIHTASLIHDDV--LDESDMR 195
AGGKRLRP LV T KE+ T+ ++A +EMIHT SLIHDD+ +D+ D+R
Sbjct: 48 AGGKRLRPLLVL----TTVAAFQ-KEMETQDYQVAASLEMIHTYSLIHDDLPAMDDDDLR 102
Query: 196 RGQETVHQLYGTRVAVLAGDFMFAQ-----SSWYLANLENLEVIKLIS-----------Q 239
RG+ T H+++G A+LAGD + S L E + +++ ++ Q
Sbjct: 103 RGKPTNHKVFGEATAILAGDGLLTGAFQLLSLSQLGLSEKVLLMQQLAKAAGNQGMVSGQ 162
Query: 240 VIKDFASGEIKQASSLFDCDLELEEYLIKSYYKTASLIAASTKGAAIFSGVDGSLSKQMY 299
+ D E LE + KT +LI + + + + +
Sbjct: 163 MG-DIEG-EKVSL------TLEELAAV--HEKKTGALIEFALIAGGVLANQTEEVIGLLT 212
Query: 300 EYGRNLGLSFQIVDDILDFTQSAEQLGKPAASDLAKGNLTAPVIFALEKEPKLREIIESE 359
++ + GL+FQI DD+LD T + LGK D A T P +
Sbjct: 213 QFAHHYGLAFQIRDDLLDATSTEADLGKKVGRDEALNKSTYPALL--------------- 257
Query: 360 FCETGSLDEAIKLVKTSGGIEEAQELAKEKANLAIHNLHCLPRSPFRVALEDMVMFNLER 419
GI A++ + L + + + E + +
Sbjct: 258 ------------------GIAGAKDALTHQLAEGSAVLEKIKANVPNFSEEHLANLLTQL 299
>3npk_A Geranyltranstransferase; isoprene biosynthesis, SGX, structural
genomics protein structure initiative; 1.50A
{Campylobacter jejuni}
Length = 291
Score = 165 bits (420), Expect = 2e-48
Identities = 79/279 (28%), Positives = 118/279 (42%), Gaps = 62/279 (22%)
Query: 138 AGGKRLRPALVFLVSRATAELVGLKELTTKHRRLAEIIEMIHTASLIHDDV--LDESDMR 195
AGGK R L+ + + EL + +A +E IHT SLIHDD+ +D +D R
Sbjct: 37 AGGKHFRAQLLL----SVVQSNK-PELLNQALDVALALEFIHTYSLIHDDLPAMDNADFR 91
Query: 196 RGQETVHQLYGTRVAVLAGDFMFAQ-----SSWYLANLENLEVIKLISQVIKDFASGEIK 250
RG T+H+ Y A+L GD + + S +L + +++IK ++ +G
Sbjct: 92 RGIPTLHKSYDETTAILVGDALNTEAFLVLSHAHLKDEIKIKLIKTLAF-----NAGLNG 146
Query: 251 ----QASSLF----DCDLELEEYLIKSYYKTASLIAASTKGAAIFSGVDGSLSKQMYEYG 302
QA F L E+L +KTA LIAA+ K ++ S Q+Y+ G
Sbjct: 147 MVIGQAIDCFFEDKRLSLNELEFL--HTHKTARLIAAALKMGCEICELNNEESNQIYKLG 204
Query: 303 RNLGLSFQIVDDILDFTQSAEQLGKPAASDLAKGNLTAPVIFALEKEPKLREIIESEFCE 362
LGL FQI DDI+D T S EQ GKP +D+ K + +
Sbjct: 205 LKLGLIFQINDDIIDVTTSQEQSGKPTNNDIHK--NSFVNLL------------------ 244
Query: 363 TGSLDEAIKLVKTSGGIEEAQELAKEKANLAIHNLHCLP 401
G+E+A + + N +L L
Sbjct: 245 ---------------GLEQAIKTKENLLNECEQDLEKLN 268
>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 = 161 bits (409), Expect = 1e-46
Identities = 63/230 (27%), Positives = 95/230 (41%), Gaps = 36/230 (15%)
Query: 138 AGGKRLRPALVFLVSRATAELVGLKELTTKHRRLAEIIEMIHTASLIHDDV--LDESDMR 195
GGKRLR L +A + G+ + A +E +H SL+HDD+ +D D+R
Sbjct: 39 QGGKRLRAFLAI----ESAAIHGISM--AQAMPAALAVEALHAYSLVHDDMPCMDNDDLR 92
Query: 196 RGQETVHQLYGTRVAVLAGDFMFAQSSWYLANLEN------LEVIKLIS----------- 238
RG TVH+ + AVLAGD + + + + ++ ++
Sbjct: 93 RGLPTVHKKWDDATAVLAGDALQTLAFELCTDPVLGSAENRVALVAALAQASGAEGMVYG 152
Query: 239 QVIKDFASGEIKQASSLFDCDLELEEYLIKSYYKTASLIAASTKGAAIFSGVDGSLSKQM 298
Q + D A+ E L+ L KT +LI+ + + AI +G D +
Sbjct: 153 QAL-DIAA-ETAAV----PLTLDEIIRL--QAGKTGALISFAAQAGAILAGAD---RGPL 201
Query: 299 YEYGRNLGLSFQIVDDILDFTQSAEQLGKPAASDLAKGNLTAPVIFALEK 348
Y LGL+FQI DDILD + E GK D T + L
Sbjct: 202 TAYATALGLAFQIADDILDVEGNEEAAGKRLGKDAEAHKATFVSLLGLAG 251
>2h8o_A Geranyltranstransferase; geranyltransferase,agrobacterium
tumefaciens, structural GEN PSI-2, protein structure
initiative; 1.60A {Agrobacterium tumefaciens}
Length = 335
Score = 162 bits (411), Expect = 1e-46
Identities = 67/231 (29%), Positives = 105/231 (45%), Gaps = 36/231 (15%)
Query: 138 AGGKRLRPALVFLVSRATAELVGLKELTTKHRRLAEIIEMIHTASLIHDDV--LDESDMR 195
GGKRLRP LV + L+G + +E +H SL+HDD+ +D+ D+R
Sbjct: 83 NGGKRLRPFLVI----ESVALLGGDA--EAGLHVGAALECLHCYSLVHDDLPAMDDDDLR 136
Query: 196 RGQETVHQLYGTRVAVLAGD------F-MFAQSSWYLANLENLEVIKLIS---------- 238
RGQ TVH+ + A+LAGD F + A LA ++ ++
Sbjct: 137 RGQPTVHRKFDEATAILAGDSLLTLAFDIIASDDNPLAAERKAALVISLARAAGIGGMAG 196
Query: 239 -QVIKDFASGEIKQASSLFDCDLELEEYLIKSYYKTASLIAASTKGAAIFSGVDGSLSKQ 297
Q + D A+ E K D + L KT +L+ + + AI +G + + ++
Sbjct: 197 GQAL-DLAA-EKKAP------DEDGIITL--QAMKTGALLRFACEAGAIIAGSNQAERQR 246
Query: 298 MYEYGRNLGLSFQIVDDILDFTQSAEQLGKPAASDLAKGNLTAPVIFALEK 348
+ +G +GLSFQ+ DD+LD T A +GK D A+G T +
Sbjct: 247 LRLFGEKIGLSFQLADDLLDLTADAATMGKATGKDAARGKGTLVALRGEAW 297
>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 = 162 bits (412), Expect = 3e-46
Identities = 52/323 (16%), Positives = 101/323 (31%), Gaps = 42/323 (13%)
Query: 138 AGGKRLRPALVFLVSRATAELVGLKELTTKH-----------RRLAEIIEMIHTASLIHD 186
GGK R V V+ + L +IE + L+ D
Sbjct: 67 LGGKYNRGLTVIDVAESLLSLSPNNNGEEDDGARRKRVLHDACVCGWMIEFLQAHYLVED 126
Query: 187 DVLDESDMRRGQETVHQLYGTRVAVLAGDFMFAQSSWYLANLEN-------LEVIKLISQ 239
D++D S RRG+ ++ V D + +S ++ + +++ ++
Sbjct: 127 DIMDNSVTRRGKPCWYRHPDVTVQCAINDGLLLKSWTHMMAMHFFADRPFLQDLLCRFNR 186
Query: 240 VIKDFASG----------------EIKQASSLFDCDLELEEYLIKSYYKTASLIAAST-K 282
V A G ++ Q ++ + L Y YKTA
Sbjct: 187 VDYTTAVGQLYDVTSMFDSNKLDPDVSQPTTTDFAEFTLSNYKRIVKYKTAYYTYLLPLV 246
Query: 283 GAAIFSGV-DGSLSKQMYEYGRNLGLSFQIVDDILDFTQSAEQLGKPAASDLAKGNLTAP 341
I S E +G FQ+ DD++D E+LGK +D+ +
Sbjct: 247 MGLIVSEALPTVDMGVTEELAMLMGEYFQVQDDVMDCFTPPERLGK-VGTDIQDAKCSWL 305
Query: 342 VIFALEK-EPKLREIIESEF--CETGSLDEAIKLVKTSGGIEEAQELAKEKANLAIHNLH 398
+ L K ++ + ++ + +L + + + A +
Sbjct: 306 AVTFLAKASSAQVAEFKANYGSGDSEKVATVRRLYEEADLQGDYVAYEAAVAEQVKELIE 365
Query: 399 CLPRSP--FRVALEDMVMFNLER 419
L F ++E + +R
Sbjct: 366 KLRLCSPGFAASVETLWGKTYKR 388
>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 = 159 bits (405), Expect = 6e-46
Identities = 83/299 (27%), Positives = 130/299 (43%), Gaps = 60/299 (20%)
Query: 138 AGGKRLRPALVFLVSRATAELVGLKELTTKHRRLAEIIEMIHTASLIHDDV--LDESDMR 195
GGKRLRP LV+ AT + G+ A +E IH SLIHDD+ +D+ D+R
Sbjct: 42 LGGKRLRPFLVY----ATGHMFGVST--NTLDAPAAAVECIHAYSLIHDDLPAMDDDDLR 95
Query: 196 RGQETVHQLYGTRVAVLAGDFMFAQSSWYLANLENLEV-----IKLISQVIKDFASGEIK 250
RG T H +G A+LAGD + + L++ + EV I +IS++ ASG
Sbjct: 96 RGLPTCHVKFGEANAILAGDALQTLAFSILSDADMPEVSDRDRISMISELAS--ASGIAG 153
Query: 251 ----QASSLF----DCDLELEEYLIKSYYKTASLIAASTKGAAIFSG-VDGSLSKQMYEY 301
QA L L+ E + +KT +LI A+ + A+ +G + +Y
Sbjct: 154 MCGGQALDLDAEGKHVPLDALERI--HRHKTGALIRAAVRLGALSAGDKGRRALPVLDKY 211
Query: 302 GRNLGLSFQIVDDILDFTQSAEQLGKPAASDLAKGNLTAPVIFALEKEPKLREIIESEFC 361
++GL+FQ+ DDILD LGK +D G T P +
Sbjct: 212 AESIGLAFQVQDDILDVVGDTATLGKRQGADQQLGKSTYPALL----------------- 254
Query: 362 ETGSLDEAIKLVKTSGGIEEAQELAKEKANLAIHNLHCLPRSPFRVA-LEDMVMFNLER 419
G+E+A++ A++ + A +L L + LE + + ++R
Sbjct: 255 ----------------GLEQARKKARDLIDDARQSLKQLAEQSLDTSALEALADYIIQR 297
>3llw_A Geranyltranstransferase (ISPA); structural genomics, PSI, protein
structure initiative, nysgrc; 2.30A {Helicobacter
pylori} PDB: 3q1o_A*
Length = 311
Score = 159 bits (404), Expect = 9e-46
Identities = 82/302 (27%), Positives = 126/302 (41%), Gaps = 64/302 (21%)
Query: 138 AGGKRLRPALVFLVSRATAELVGLKELTTKHR----RLAEIIEMIHTASLIHDDV--LDE 191
GGKR RP L A + ++ + + ++A IE +HT SLIHDD+ +D
Sbjct: 46 NGGKRFRPKLFL----AVLCALVGQKDYSNQQTEYFKIALSIECLHTYSLIHDDLPCMDN 101
Query: 192 SDMRRGQETVHQLYGTRVAVLAGDFMFAQSSWYLAN--LENLEVIKLISQVIKDFASGEI 249
+ +RR T+H Y AVL GD + S L+N LE+ +++LI + G
Sbjct: 102 AALRRNHPTLHAKYDETTAVLIGDALNTYSFELLSNALLESHIIVELIKILSA--NGGIK 159
Query: 250 K----QASSLF----DCDLELEEYLIKSYYKTASLIAASTKGAAIFSGV-DGSLSKQMYE 300
QA + +LE +L +KTA LI+AS + SG+ D L K +
Sbjct: 160 GMILGQALDCYFENTPLNLEQLTFL--HEHKTAKLISASLIMGLVASGIKDEELFKWLQA 217
Query: 301 YGRNLGLSFQIVDDILDFTQSAEQLGKPAASDLAKGNLTAPVIFALEKEPKLREIIESEF 360
+G +GL FQ++DDI+D TQ E+ GK D AK + +
Sbjct: 218 FGLKMGLCFQVLDDIIDVTQDEEESGKTTHLDSAK--NSFVNLL---------------- 259
Query: 361 CETGSLDEAIKLVKTSGGIEEAQELAKEKANLAIHNLHCL-PRSPFRVALEDMVMFNLER 419
G+E A A+ +++L L P P L++ + L
Sbjct: 260 -----------------GLERANNYAQTLKTEVLNDLDALKPAYPL---LQENLNALLNT 299
Query: 420 FV 421
Sbjct: 300 LF 301
>3lom_A Geranyltranstransferase; geranyltransferase, structural genomics,
PSI, protein structure initiative, nysgrc; 2.30A
{Legionella pneumophila subsp}
Length = 313
Score = 158 bits (401), Expect = 3e-45
Identities = 64/304 (21%), Positives = 111/304 (36%), Gaps = 72/304 (23%)
Query: 138 AGGKRLRPALVFLVSRATAELVGLKELTTKHRRLAEIIEMIHTASLIHDDV--LDESDMR 195
+GGKR+RP LV+ +L+ + + +A +E+ H SLIHDD+ +D D+R
Sbjct: 48 SGGKRIRPILVY----LAGDLIDVDQ--GVLDIIAAALELTHCYSLIHDDLPAMDNDDLR 101
Query: 196 RGQETVHQLYGTRVAVLAGD--------FMFAQSSWYLANLENLEVIKLIS--------- 238
RG+ + H+ + A+L GD + + S L + + + +++
Sbjct: 102 RGKPSCHKAFDEATAILVGDGMQALAIEVLLMRLSPLLPAAQVVAITQVLVNASGISGMV 161
Query: 239 --QVIKDFASGEIKQASSLFDCDLELEEYLIKSYYKTASLIAASTKGAAIFSG-VDGSLS 295
Q + D + K E + KT LI A + V +
Sbjct: 162 SGQSL-DLSE-LAKS-----SVTEEQLREI--HLLKTGKLILACFEMVLAAQHEVSEQIK 212
Query: 296 KQMYEYGRNLGLSFQIVDDILDFTQSAEQLGKPAASDLAKGNLTAPVIFALEKEPKLREI 355
+ YG+++GL FQ+ DD LD + LGK +SD A T +F
Sbjct: 213 SALRTYGKHIGLVFQMQDDYLDLYAPTQILGKGRSSDQANQKTTFATLF----------- 261
Query: 356 IESEFCETGSLDEAIKLVKTSGGIEEAQELAKEKANLAIHNLHCLPRSPFRVALEDMVMF 415
++ +E +A+ +L AL ++
Sbjct: 262 ----------------------NKQQLEEEIAVHYQIAMDSLRLFGSKA--AALIELTKQ 297
Query: 416 NLER 419
R
Sbjct: 298 LQNR 301
>4f62_A Geranyltranstransferase; enzyme function initiative, structural
genomics; 2.10A {Marinomonas SP}
Length = 317
Score = 157 bits (400), Expect = 4e-45
Identities = 74/225 (32%), Positives = 110/225 (48%), Gaps = 24/225 (10%)
Query: 138 AGGKRLRPALVFLVSRATAELVGLKELTTKHRRLAEIIEMIHTASLIHDDV--LDESDMR 195
GGKR+RP L + A+A+LVG + A +E IH SLIHDD+ +D ++R
Sbjct: 43 NGGKRIRPMLTY----ASAQLVGDIS--SLTDASAAALESIHAYSLIHDDLPAMDNDELR 96
Query: 196 RGQETVHQLYGTRVAVLAGDFMFAQSSWYLANLENLE---VIKLISQVIKDFASGEIK-- 250
RG+ T H + A+LAGD + + L+N + + IKLI +++ ASG
Sbjct: 97 RGKPTCHIQFDEATAILAGDALQTFAFELLSNPTSAQPELAIKLIQELVV--ASGRNGMI 154
Query: 251 --QASSLF----DCDLELEEYLIKSYYKTASLIAASTKGAAIFSG-VDGSLSKQMYEYGR 303
Q L + L E + +KT +LI AS + A+ +G V ++ Y
Sbjct: 155 TGQMIDLSSENKNISLAELEQM--HVHKTGALIKASVRMGALSTGQVKPEQLAKLDAYAH 212
Query: 304 NLGLSFQIVDDILDFTQSAEQLGKPAASDLAKGNLTAPVIFALEK 348
+GL+FQ+ DDI+D T E LGK SD T P + L+
Sbjct: 213 AIGLAFQVQDDIIDLTSDTETLGKTQFSDAEANKATYPKLLGLDG 257
>3ts7_A Geranyltranstransferase; isoprenoid synthesis, farnesyl diphosphate
synthase; 1.94A {Methylococcus capsulatus}
Length = 324
Score = 158 bits (401), Expect = 4e-45
Identities = 73/227 (32%), Positives = 103/227 (45%), Gaps = 26/227 (11%)
Query: 138 AGGKRLRPALVFLVSRATAELVGLKELTTKHRRLAEIIEMIHTASLIHDDV--LDESDMR 195
GGKR+RP L + AT + +G+ A +E IH SLIHDD+ +D+ D+R
Sbjct: 48 GGGKRMRPLLTY----ATGQTIGVAA--DLLDGPACAVEFIHVYSLIHDDLPAMDDDDLR 101
Query: 196 RGQETVHQLYGTRVAVLAGDFMFAQSSWYLANLENLEV-----IKLISQVIKDFASGEIK 250
RG+ T H+ Y A+LAGD + A + LA ++ V I +I + K ASG
Sbjct: 102 RGKPTCHKAYDEATAILAGDGLQALAFHVLAQDPSIAVPAENRIAMIETLAK--ASGPAG 159
Query: 251 ----QASSLF----DCDLELEEYLIKSYYKTASLIAASTK-GAAIFSGVDGSLSKQMYEY 301
QA L DL E + KT +LI AS + G+ ++ Y
Sbjct: 160 MVGGQAIDLASVGKKLDLPGLENM--HIRKTGALIRASVRLACLARPGLPAEQFDRLDHY 217
Query: 302 GRNLGLSFQIVDDILDFTQSAEQLGKPAASDLAKGNLTAPVIFALEK 348
+ +GL+FQI DDILD + LGK D P + L
Sbjct: 218 AKCIGLAFQIQDDILDEESDTQTLGKTRGKDRDHNKPNYPALLGLSG 264
>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 = 154 bits (392), Expect = 2e-44
Identities = 48/276 (17%), Positives = 89/276 (32%), Gaps = 41/276 (14%)
Query: 107 AEDLQTLNQNLKSIVGAENP-VLMSAAEQIFGAGGKRLRPALVFLVSRATAELVGLKELT 165
A + LK + P + + A + AL A ELVG
Sbjct: 11 ATIESDIESYLKKAIPIRAPESVFEPMHHLTFAAPRTSASALCV----AACELVGGDRSD 66
Query: 166 TKHRRLAEIIEMIHTASLIHDDVLDESDMRRGQETVHQLYGTRVAVLAGDFMFAQSSWYL 225
A + ++H A+ H++ L +D + + + + +L GD + +
Sbjct: 67 AM--AAAAAVHLMHVAAYTHEN-LPLTDGPMSKSEIQHKFDPNIELLTGDGIIPFGLELM 123
Query: 226 ANLEN---------LEVIKLIS-----------QVIKDFASGEIKQASSLFDCDLELEEY 265
A + L I ++ Q + + DLEL EY
Sbjct: 124 ARSMDPTRNNPDRILRAIIELTRVMGSEGIVEGQYH-ELGLNQ--------LNDLELIEY 174
Query: 266 LIKSYYKTASLIAASTKGAAIFSGVDGSLSKQMYEYGRNLGLSFQIVDDILD-FTQSAEQ 324
+ K K +L A AI G D +++ +G +G ++ F ++
Sbjct: 175 VCK--KKEGTLHACGAACGAILGGCDEDKIEKLRRFGLYVGTVQGLLGKNRSGFEGRIKE 232
Query: 325 LGKPAASDLAK-GNLTAPVIFALEKEPKLREIIESE 359
L + A +L G +I + + +E
Sbjct: 233 LKELAVKELESFGGEKIELIRGVFELEHSLAGVEGH 268
>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 = 155 bits (394), Expect = 3e-44
Identities = 70/232 (30%), Positives = 111/232 (47%), Gaps = 36/232 (15%)
Query: 138 AGGKRLRPALVFLVSRATAELVGLKELTTKHRRLAEIIEMIHTASLIHDDV--LDESDMR 195
GGKR+RP L + A E +G K + A +E+IH SL+HDD+ +D+ D+R
Sbjct: 42 NGGKRVRPLLAY----AACEALGGKP--EQANGAACAVELIHAYSLVHDDLPAMDDDDLR 95
Query: 196 RGQETVHQLYGTRVAVLAGDFMFAQSSWYLANLENLEV-----IKLISQVIKDFASGEIK 250
RGQ T H+ + A+LAGD + + + L + + +++++ + + A+G
Sbjct: 96 RGQPTTHKAFDEACAILAGDGLQSLAFSALLDPALSDASAEIRLRMVTTLAQ--AAGPAG 153
Query: 251 ----QASSLFDCDLELE---------EYLIKSYYKTASLIAASTKGAAIFSG-VDGSLSK 296
QA DL EY+ +KT +LI AS A+ SG + K
Sbjct: 154 MVGGQA-----IDLGSVGLKLDQQALEYM--HRHKTGALIEASVILGALASGRAEKGELK 206
Query: 297 QMYEYGRNLGLSFQIVDDILDFTQSAEQLGKPAASDLAKGNLTAPVIFALEK 348
+ Y + +GL+FQ+ DDILD LGK +D+A+ T P + L
Sbjct: 207 ALQTYAQAIGLAFQVQDDILDVESDTATLGKRQGADIARDKPTYPALLGLAA 258
>3p8r_A Geranyltranstransferase; isoprenyl synthase, structural genomics,
PSI, protein struct initiative, nysgrc; 2.50A {Vibrio
cholerae}
Length = 302
Score = 153 bits (389), Expect = 1e-43
Identities = 76/303 (25%), Positives = 122/303 (40%), Gaps = 71/303 (23%)
Query: 138 AGGKRLRPALVFLVSRATAELVGLKELTTKHRRLAEIIEMIHTASLIHDDV--LDESDMR 195
GGKR RP LV+ T +++G + + A +E IH SLIHDD+ +D+ ++R
Sbjct: 48 LGGKRARPYLVY----ITGQMLGCEL--SDLDTPASAVECIHAYSLIHDDLPAMDDDELR 101
Query: 196 RGQETVHQLYGTRVAVLAGDFMFAQ-----SSWYLANLENLEVIKLISQVIKDFASGEIK 250
RG+ T H + A+L GD + + L+ + + ++ + + ASG
Sbjct: 102 RGKPTCHIQFDEATAILTGDALQTLAFTILAEGDLSAAGETQRVAMLQALAE--ASGAQG 159
Query: 251 ----QASSLFDCDLELE---------EYLIKSYYKTASLIAASTKGAAIFSG-VDGSLSK 296
QA DL E E + KT +L+ + + A+ +G ++
Sbjct: 160 MCLGQA-----LDLAAENRLISLEELETI--HRNKTGALMRCAIRLGALAAGEKGRAMLP 212
Query: 297 QMYEYGRNLGLSFQIVDDILDFTQSAEQLGKPAASDLAKGNLTAPVIFALEKEPKLREII 356
+ Y +GL+FQ+ DDILD E LGKP SD T P +
Sbjct: 213 HLDRYAEAVGLAFQVQDDILDIISDTETLGKPQGSDQELNKSTYPALL------------ 260
Query: 357 ESEFCETGSLDEAIKLVKTSGGIEEAQELAKEKANLAIHNLHCLPRSPFRVALEDMVMFN 416
G+E AQ+ A A+ L +P + LE+ +
Sbjct: 261 ---------------------GLEGAQQKAHTLLQEALLALEAIPYNT--EHLEEFARYV 297
Query: 417 LER 419
+ER
Sbjct: 298 VER 300
>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 = 138 bits (349), Expect = 7e-38
Identities = 78/252 (30%), Positives = 122/252 (48%), Gaps = 35/252 (13%)
Query: 92 KSRSPISLANIFEVVAEDLQTLNQNLKSIVGAENP-VLMSAAEQIFGAGGKRLRPALVFL 150
+ + + ++N+ L S V P + A AGGKR+RP L
Sbjct: 3 RGSHHHHHTDPISYIIRKADSVNKALDSAVPLREPLKIHEAMRYSLLAGGKRVRPVLCI- 61
Query: 151 VSRATAELVGLKELTTKHRRLAEIIEMIHTASLIHDDV--LDESDMRRGQETVHQLYGTR 208
A ELVG +E A +EMIHT SLIHDD+ +D D+RRG+ T H++YG
Sbjct: 62 ---AACELVGGEESLAM--PAACAVEMIHTMSLIHDDLPCMDNDDLRRGKPTNHKVYGED 116
Query: 209 VAVLAGDFMFAQSSWYLANLEN--------LEVIKLIS-----------QVIKDFASGEI 249
VAVLAGD + + + +LA+ + + + ++ QV+ D +S
Sbjct: 117 VAVLAGDALLSFAFEHLASATSSEVSPARVVRAVGELAKAIGTEGLVAGQVV-DISS--- 172
Query: 250 KQASSLFDCDLELEEYLIKSYYKTASLIAASTKGAAIFSGVDGSLSKQMYEYGRNLGLSF 309
+ L + LE +++ +KTA+L+ AS I G +++ ++ R +GL F
Sbjct: 173 -EGLDLNNVGLEHLKFI--HLHKTAALLEASAVLGGIIGGGSDEEIERLRKFARCIGLLF 229
Query: 310 QIVDDILDFTQS 321
Q+VDDILD T+S
Sbjct: 230 QVVDDILDVTKS 241
>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 = 132 bits (334), Expect = 4e-36
Identities = 49/274 (17%), Positives = 86/274 (31%), Gaps = 53/274 (19%)
Query: 111 QTLNQNLKSIVGAENP-VLMSAAEQIFGAGGKRLRPALVFLVSRATAELVGLKELTTKHR 169
+ + LK + P + + A L A ELVG
Sbjct: 10 ADIERYLKKSITIRPPETVFGPMHHLTFAAPATAASTLCL----AACELVGGDRSQAM-- 63
Query: 170 RLAEIIEMIHTASLIHDDV-LDESDMRRGQETVHQLYGTRVAVLAGDFMFAQSSWYLANL 228
A I ++H A+ +H+ + L + + + YG V +L GD + LA
Sbjct: 64 AAAAAIHLVHAAAYVHEHLPLTDGSRPVSKPAIQHKYGPNVELLTGDGIVPFGFELLAGS 123
Query: 229 EN----------LEVIKLIS-----------QVIKDFASGEIKQASSLFDCDLELEEYLI 267
+ L VI IS + + + L+ EY+
Sbjct: 124 VDPARTDDPDRILRVIIEISRAGGPEGMISGLHR-EEEIVD-------GNTSLDFIEYVC 175
Query: 268 KSYYKTASLIAASTKGAAIFSGVDGSLSKQMYEYGRNLGL---------SFQIVDDILD- 317
K K + A AI G +++ +G G S Q++D+ +
Sbjct: 176 K--KKYGEMHACGAACGAILGGAAEEEIQKLRNFGLYQGTLRGMMEMKNSHQLIDENIIG 233
Query: 318 --FTQSAEQLGKPAASD--LAKGNLTAPVIFALE 347
+ E+LG + L + P ++A
Sbjct: 234 KLKELALEELGGFHGKNAELMSSLVAEPSLYAAH 267
>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 = 117 bits (295), Expect = 2e-30
Identities = 66/283 (23%), Positives = 115/283 (40%), Gaps = 24/283 (8%)
Query: 107 AEDLQTLNQNLKSIVGAENP-VLMSAAEQIFGAGGKRLRPALVFLVSRATAELVGLKELT 165
+ + + ++ I+ + A GG R+RP LV E +G++E
Sbjct: 12 HMKXEXVEERIREILRPGWDLLTEEAMLYSATVGGXRIRPLLVL----TLGEDLGVEE-- 65
Query: 166 TKHRRLAEIIEMIHTASLIHDDV--LDESDMRRGQETVHQLYGTRVAVLAGDFMFAQSSW 223
+A +E+ HTASLIHDD+ +D +D RRG + H+ YG +A+LAGD +F +
Sbjct: 66 EXLLDVAVAVELFHTASLIHDDLPPIDNADFRRGXPSCHRTYGEDIALLAGDGLFFLAFS 125
Query: 224 YLANLENLEVIKLISQVIKDFASGEIKQ-ASSLFDCDLELEEYLIKSYYKTASLIAASTK 282
++ + N + + S+ GE ++ E + T +L A
Sbjct: 126 QISXIGNSXIFEEFSETAYXLLLGEAMDVEFERRXMEVSQEMVERMYAFXTGALFAFCFS 185
Query: 283 GAAIFSGVDGSLSKQMYEYGRNLGLSFQIVDDILDFTQSAEQLGKPAASDLAKGNLTAPV 342
I G D M G G++FQI DD+ D S E++GK D +T
Sbjct: 186 APFILXGXD---HTXMXLLGEXFGVAFQIYDDLXDILGSFEKVGKDLGKD--TEXVTLVX 240
Query: 343 IFALEKEPKLREIIESEFCETGSLDEAIKLVKTSGGIEEAQEL 385
++ ++ + +E + +++ G L
Sbjct: 241 XVGIQXAREMADXY---------YEEVLXGIESEGLFRTLFLL 274
>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 = 56.4 bits (135), Expect = 1e-08
Identities = 66/466 (14%), Positives = 139/466 (29%), Gaps = 126/466 (27%)
Query: 11 FGRSVLDLVACGCSSSASIHRSSVRKIA-MT-GSRKSNRDCGARRLVCCRQ---NLARCR 65
G++ + L C S + KI + + S Q N R
Sbjct: 161 SGKTWVALDVC---LSYKVQCKMDFKIFWLNLKNCNSPETVLEMLQKLLYQIDPNWTS-R 216
Query: 66 VYSTKTPETLLNEVGQIPPAVLNLKEKSRSPISLANI--------FEV------------ 105
+ + ++ + +L K + L N+ F +
Sbjct: 217 SDHSSNIKLRIHSIQAELRRLLKSKPYENCLLVLLNVQNAKAWNAFNLSCKILLTTRFKQ 276
Query: 106 VAEDLQTLNQNLKSIVGAENPVLMSAAEQIF----GAGGKRLRPALV----FLVSRATAE 157
V + L S+ + + + + L ++ +S
Sbjct: 277 VTDFLSAATTTHISLDHHSMTLTPDEVKSLLLKYLDCRPQDLPREVLTTNPRRLS----- 331
Query: 158 LVG--LKE--------LTTKHRRLAEIIEMIHTASLIHDDVLDESDMRRGQETVHQLYGT 207
++ +++ +L IIE SL +VL+ ++ R +++
Sbjct: 332 IIAESIRDGLATWDNWKHVNCDKLTTIIES----SL---NVLEPAEYR-------KMF-D 376
Query: 208 RVAVLAGDFMFAQSS----------WYLANLENLEVI--KLI--SQVIKDFASGEIKQAS 253
R++V F S+ W+ ++ V+ KL S V K I
Sbjct: 377 RLSV------FPPSAHIPTILLSLIWFDVIKSDVMVVVNKLHKYSLVEKQPKESTI---- 426
Query: 254 SLFDCDLEL---------------EEYLIKSYYKTASLIAASTKGAAIFS--G--VDGSL 294
S+ LEL + Y I + + LI +S G +
Sbjct: 427 SIPSIYLELKVKLENEYALHRSIVDHYNIPKTFDSDDLIPPYLDQ-YFYSHIGHHLKNIE 485
Query: 295 SKQMYEYGRNLGLSFQIVDDILDFTQSAEQLGKPAASDLAKGNLTAPVIFALEKEPKLRE 354
+ R + L F+ ++ + +A + L + P I + +PK
Sbjct: 486 HPERMTLFRMVFLDFRFLEQKIRHDSTAWNASGSILNTLQQLKFYKPYIC--DNDPKYER 543
Query: 355 IIES--EF---CETGSL-DEAIKLV------KTSGGIEEA-QELAK 387
++ + +F E + + L+ + EEA +++ +
Sbjct: 544 LVNAILDFLPKIEENLICSKYTDLLRIALMAEDEAIFEEAHKQVQR 589
>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 = 54.3 bits (130), Expect = 5e-08
Identities = 45/250 (18%), Positives = 79/250 (31%), Gaps = 72/250 (28%)
Query: 194 MRRGQETVHQLYGTRVAVLAGDFMFAQSSWYLANLENLEVIKL-ISQVIKDFASGEIKQA 252
M G + LY T A AQ W A+ + I ++ +
Sbjct: 1631 M--GMD----LYKTSKA--------AQDVWNRADNHFKDTYGFSILDIVINNP----VNL 1672
Query: 253 SSLFDC--DLELEEYLIKSYYKTASLIAASTKGAAIFSGVDGSLSKQMYEYGRNLGLSFQ 310
+ F + E ++T K IF ++ + +F+
Sbjct: 1673 TIHFGGEKGKRIRENYSAMIFETIV--DGKLKTEKIFKEINEHSTS----------YTFR 1720
Query: 311 IVDDILDFTQSAEQLGKPA---AS-----DL-AKGNLTAPVIFA---LEKEPKLREIIES 358
+L TQ Q PA DL +KG + A FA L
Sbjct: 1721 SEKGLLSATQFT-Q---PALTLMEKAAFEDLKSKGLIPADATFAGHSL-----------G 1765
Query: 359 EF----CETG--SLDEAIKLVKTSGGIEEAQELAKEKANLAIHNLHCLPRSPFRVAL--- 409
E+ S++ +++V G ++A + L N + +P RVA
Sbjct: 1766 EYAALASLADVMSIESLVEVVFYRG---MTMQVAVPRDELGRSNYGMIAINPGRVAASFS 1822
Query: 410 EDMVMFNLER 419
++ + + +ER
Sbjct: 1823 QEALQYVVER 1832
Score = 49.3 bits (117), Expect = 2e-06
Identities = 61/373 (16%), Positives = 107/373 (28%), Gaps = 119/373 (31%)
Query: 86 VLNLKEKSRSPISLANIFEVVAEDLQTLNQNLKSIVGAENPVLMSAAEQ-------IFGA 138
L +++ + L E++ + + N L A + IFG
Sbjct: 105 AAKLLQENDTT--LVKTKELIKNYITARIMAKRPFDKKSNSALFRAVGEGNAQLVAIFG- 161
Query: 139 G-G------KRLR-------PALVFLVSRATAELVGLKELTTKHRRLAEIIEMIHTASLI 184
G G + LR + L+ + L L T ++ T L
Sbjct: 162 GQGNTDDYFEELRDLYQTYHVLVGDLIKFSAETLSELIRTTLDAEKV-------FTQGL- 213
Query: 185 HDDV---LDESDMRRGQETVHQLYGTRVAV---LAGDFMFAQSSWYLANLENLEVIKLIS 238
++ L+ ++ Y + + L G Q + Y+ + L
Sbjct: 214 --NILEWLENPSNTPDKD-----YLLSIPISCPLIG---VIQLAHYVVTAKLL------- 256
Query: 239 QVIKDFASGEIKQA-SSLFDCDLELEEYLIKSYYKTASLIAASTKGAAIFSGVD------ 291
F GE++ + L+ TA IA + + F V
Sbjct: 257 ----GFTPGELRSYLKGATGH----SQGLV-----TAVAIAETDSWESFFVSVRKAITVL 303
Query: 292 ---GSLSKQMYEYGRNLGLSFQIVDDILDFTQSAEQLGKPAASDLAKGNLTAP--VIFAL 346
G + Y N L I++D L+ + G P +P I L
Sbjct: 304 FFIGVRCYEAY---PNTSLPPSILEDSLENNE-----GVP-----------SPMLSISNL 344
Query: 347 EKEPKLREIIESEFCETGSLDE--AIKLVKT------SGGIEEAQELAKEKANLAIHNLH 398
+E ++++ + + + I LV SG Q L NL +
Sbjct: 345 TQE-QVQDYVN-KTNSHLPAGKQVEISLVNGAKNLVVSG---PPQSL--YGLNLTLRKAK 397
Query: 399 CLP-----RSPFR 406
R PF
Sbjct: 398 APSGLDQSRIPFS 410
Score = 46.6 bits (110), Expect = 1e-05
Identities = 51/231 (22%), Positives = 80/231 (34%), Gaps = 74/231 (32%)
Query: 161 LKELTTKHRRLAEIIEMIHTASLIHDDVLDESDMRRGQETVHQLYG----TRVAVLAGDF 216
+ LT H L E + ++ TAS L E + E T A L G F
Sbjct: 6 TRPLTLSHGSL-EHVLLVPTASFFIASQLQEQFNKILPEPTEGFAADDEPTTPAELVGKF 64
Query: 217 MFAQSSWYLANLEN-------LEVIKLISQVIKDFASGEIKQ-------ASSLFDCDLEL 262
+ Y+++L +V+ L + +F + ++ A L + D L
Sbjct: 65 LG-----YVSSLVEPSKVGQFDQVLNL---CLTEFENCYLEGNDIHALAAKLLQENDTTL 116
Query: 263 EE--YLIKSYYKTASLI--------------AASTKGA---AIFSGVDGSLSKQMYEYG- 302
+ LIK+Y + A A AIF G Q G
Sbjct: 117 VKTKELIKNYITARIMAKRPFDKKSNSALFRAVGEGNAQLVAIFGG-------Q----GN 165
Query: 303 --------RNLGLSFQ-IVDDILDFTQSAEQLGKPAASDLAKGNLTAPVIF 344
R+L ++ +V D++ F SAE L S+L + L A +F
Sbjct: 166 TDDYFEELRDLYQTYHVLVGDLIKF--SAETL-----SELIRTTLDAEKVF 209
Score = 46.6 bits (110), Expect = 2e-05
Identities = 54/349 (15%), Positives = 98/349 (28%), Gaps = 127/349 (36%)
Query: 99 LANIFEVVAE-----D---LQTLNQNLKSIVGAENPVLMSAAEQIF-GAGGKRLRPALVF 149
L + + D T ++ IV NPV ++ F G GKR+R
Sbjct: 1635 LYKTSKAAQDVWNRADNHFKDTYGFSILDIV-INNPVNLTI---HFGGEKGKRIR----- 1685
Query: 150 LVSRATAELVGLKELTTKHRRLAEIIEMIHTASLIHDDVLDESD------MRRGQETVHQ 203
A I E I L + + E + R ++ +
Sbjct: 1686 ------------------ENYSAMIFETIVDGKLKTEKIFKEINEHSTSYTFRSEKGL-- 1725
Query: 204 LYGTRVAVLAGDFMFAQSSWYLANLENLEVIK--LISQVIKDFA--SGEIKQASSLFDCD 259
L T+ F Q + L E +K + FA S
Sbjct: 1726 LSATQ---------FTQPALTLMEKAAFEDLKSKGLIPADATFAGHS------------- 1763
Query: 260 LELEEYLIKSYYKTASLIAASTKGAAIFSGVDGSLSKQMYEYGRNLGLSFQIVDDILD-- 317
L EY A L + + V +S + +++
Sbjct: 1764 --LGEY-------AA-LAS--------LADV----------------MSI---ESLVEVV 1786
Query: 318 -----FTQSAEQLGKPAASDLAKGNLTAPVIFALEKEPKLREIIESEFCETGSLDEAI-- 370
Q A + S+ + + A + L+ ++E TG L E +
Sbjct: 1787 FYRGMTMQVAVPRDELGRSNYGMIAINPGRVAASFSQEALQYVVERVGKRTGWLVEIVNY 1846
Query: 371 ----KLVKTSG---GIEEAQELAKEKANLAIHNLHCLPRSPFRVALEDM 412
+ +G ++ + I + L +S ++LE++
Sbjct: 1847 NVENQQYVAAGDLRALDTVTNVLNFIKLQKIDIIE-LQKS---LSLEEV 1891
Score = 28.9 bits (64), Expect = 4.0
Identities = 15/50 (30%), Positives = 20/50 (40%), Gaps = 15/50 (30%)
Query: 5 TSHNLDFGRSVLDLVACGCSSSAS--IHR----SSVRKIAMTGSRKSNRD 48
+H LDFG G +S HR + VR I + G+ N D
Sbjct: 498 ATHILDFGP--------GGASGLGVLTHRNKDGTGVRVI-VAGTLDINPD 538
>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 = 30.3 bits (67), Expect = 0.61
Identities = 10/30 (33%), Positives = 14/30 (46%), Gaps = 8/30 (26%)
Query: 381 EAQELAKEKANLAIHNLHCLPRS-PFRVAL 409
E Q L K +A+L ++ S P AL
Sbjct: 18 EKQALKKLQASLKLYA----DDSAP---AL 40
>1i4w_A Mitochondrial replication protein MTF1; mitochondrial transcription
factor, transcription initiation; 2.60A {Saccharomyces
cerevisiae} SCOP: c.66.1.24
Length = 353
Score = 30.7 bits (69), Expect = 0.79
Identities = 14/81 (17%), Positives = 26/81 (32%), Gaps = 13/81 (16%)
Query: 293 SLSKQMYEYGRNLGLSFQIVDDILDFTQSAEQLGKPAASDLA-----KGNLTAPV----- 342
+SK + YG + + + I D + P + G +A
Sbjct: 22 DISKLKFFYGFKYLWNPTVYNKIFDKLDLTKTYKHPEELKVLDLYPGVGIQSAIFYNKYC 81
Query: 343 ---IFALEKEPKLREIIESEF 360
LEK L + + ++F
Sbjct: 82 PRQYSLLEKRSSLYKFLNAKF 102
>2qh8_A Uncharacterized protein; conserved domain protein, structural
genomics, PSI-2, MCSG, BIG_563.1, protein structure
initiative; HET: HIS; 2.20A {Vibrio cholerae o1 biovar
eltor str} PDB: 3lkv_A*
Length = 302
Score = 30.3 bits (68), Expect = 1.0
Identities = 18/86 (20%), Positives = 31/86 (36%), Gaps = 12/86 (13%)
Query: 285 AIFSGVDGSLSKQMYEYGRNLGLSFQIVD-DILDFTQSAEQL-----------GKPAASD 332
A G+ L + YE G+NL ++ + Q A Q P A
Sbjct: 24 ATRQGLLDGLKAKGYEEGKNLEFDYKTAQGNPAIAVQIARQFVGENPDVLVGIATPTAQA 83
Query: 333 LAKGNLTAPVIFALEKEPKLREIIES 358
L T P++F +P ++++
Sbjct: 84 LVSATKTIPIVFTAVTDPVGAKLVKQ 109
>2xu0_A Erythrocyte membrane protein 1; adhesion, virulence,
duffy-binding-like-DO; 2.06A {Plasmodium falciparum palo
alto}
Length = 487
Score = 29.7 bits (67), Expect = 1.7
Identities = 14/45 (31%), Positives = 20/45 (44%), Gaps = 5/45 (11%)
Query: 39 MTGSRKSNRDCGA----RRLVCCRQNLARCRVYSTKTPETLLNEV 79
+ G+ ++N + A RR C QNL +T T LL V
Sbjct: 118 IRGN-ENNANGAACAPPRRRHICDQNLEFLDNKNTNTAHDLLGNV 161
>3k1f_M Transcription initiation factor IIB; RNA polymerase II, TFIIB,
transcription factor, DNA-binding, DNA-directed RNA
polymerase; 4.30A {Saccharomyces cerevisiae}
Length = 197
Score = 29.2 bits (65), Expect = 1.9
Identities = 11/47 (23%), Positives = 20/47 (42%), Gaps = 13/47 (27%)
Query: 229 ENLEVIKLI--------SQVIKDFASGEIKQASSLFDCDLELEEYLI 267
NL I L ++++ F+ G++ A C L L + L+
Sbjct: 16 PNLN-IVLTCPECKVYPPKIVERFSEGDVVCA----LCGLVLSDKLV 57
>2yk0_A Erythrocyte membrane protein 1; adhesin, pfemp1; 2.80A {Plasmodium
falciparum}
Length = 790
Score = 29.5 bits (66), Expect = 2.4
Identities = 13/40 (32%), Positives = 17/40 (42%), Gaps = 4/40 (10%)
Query: 44 KSNRDCGA----RRLVCCRQNLARCRVYSTKTPETLLNEV 79
++N + A RR C QNL +T T LL V
Sbjct: 125 ENNANGAACAPPRRRHICDQNLEFLDNKNTNTAHDLLGNV 164
>2hpi_A DNA polymerase III alpha subunit; POL-beta-like
nucleotidyltransferase fold, transferase; HET: DNA;
3.00A {Thermus aquaticus} PDB: 2hpm_A* 3e0d_A*
Length = 1220
Score = 29.2 bits (66), Expect = 2.9
Identities = 14/83 (16%), Positives = 32/83 (38%), Gaps = 28/83 (33%)
Query: 302 GRNLGLSFQIVDDILDFTQSA----EQLGKPAASDLAKGNLTAPVIFALEKEPKLREIIE 357
R G+ + +++ A Q GKP L + A++ P+LR +E
Sbjct: 508 ARVYGIPHKKAEEL------AKLIPVQFGKPK--PLQE---------AIQVVPELRAEME 550
Query: 358 SEFCETGSLDEAIKLVKTSGGIE 380
+ + ++++ + +E
Sbjct: 551 KD-------ERIRQVIEVAMRLE 566
>3vuu_A Erythrocyte membrane protein, putative; duffy binding-like
domain, erythrocyte binding, merozoite SU malaria, cell
adhesion; 2.09A {Plasmodium falciparum}
Length = 305
Score = 29.0 bits (65), Expect = 3.0
Identities = 6/40 (15%), Positives = 11/40 (27%), Gaps = 4/40 (10%)
Query: 44 KSNRDCGA----RRLVCCRQNLARCRVYSTKTPETLLNEV 79
S+ + G RR C + + K +
Sbjct: 40 FSSDNKGVLVPPRRQSLCLRITLQDFRTKKKKEGDFEKFI 79
>3eqc_A Dual specificity mitogen-activated protein kinase; MEK1 kinase,
ATP-binding, disease mutation, nucleoti binding,
phosphoprotein; HET: 3BM AGS; 1.80A {Homo sapiens} PDB:
3eqd_A* 3eqf_A* 3eqg_A* 3eqh_A* 3eqi_A* 2y4i_C* 3eqb_A*
2p55_A* 1s9j_A* 3dy7_A* 3e8n_A* 3dv3_A* 3mbl_A* 3pp1_A*
3orn_A* 3os3_A* 3sls_A* 1s9i_A*
Length = 360
Score = 29.0 bits (65), Expect = 3.3
Identities = 11/29 (37%), Positives = 16/29 (55%), Gaps = 4/29 (13%)
Query: 359 EFCETGSLDEAIKLVKTSGGIEEAQELAK 387
E + GSLD +++K +G I E L K
Sbjct: 111 EHMDGGSLD---QVLKKAGRIPEQI-LGK 135
>3vuv_A Erythrocyte membrane protein, putative; duffy binding-like domain,
erythrocyte binding, merozoite SU malaria, cell
adhesion; 2.11A {Plasmodium falciparum}
Length = 339
Score = 28.7 bits (64), Expect = 3.3
Identities = 6/40 (15%), Positives = 11/40 (27%), Gaps = 4/40 (10%)
Query: 44 KSNRDCGA----RRLVCCRQNLARCRVYSTKTPETLLNEV 79
S+ + G RR C + + K +
Sbjct: 74 FSSDNKGVLVPPRRQSLCLRITLQDFRTKKKKEGDFEKFI 113
>1q98_A Thiol peroxidase, TPX; structural genomics, NYSGXRC, PSI, protein
structure initiative; 1.90A {Haemophilus influenzae}
SCOP: c.47.1.10
Length = 165
Score = 28.1 bits (63), Expect = 3.5
Identities = 14/73 (19%), Positives = 27/73 (36%), Gaps = 6/73 (8%)
Query: 194 MRRGQETVHQLYGTRVAVLAGDFMFAQSSWYLANLENLEVIKLISQVIKDFASGEIKQAS 253
+R+ + +L T V ++ D FAQ+ + E +E K +S F + +
Sbjct: 63 VRKFNQQAAKLSNTIVLCISADLPFAQARF--CGAEGIENAKTVS----TFRNHALHSQL 116
Query: 254 SLFDCDLELEEYL 266
+ L
Sbjct: 117 GVDIQTGPLAGLT 129
>2hnh_A DNA polymerase III alpha subunit; DNA replication,
nucleotidyltransferase, beta, PHP, transferase; HET:
DNA; 2.30A {Escherichia coli} PDB: 2hqa_A*
Length = 910
Score = 28.2 bits (64), Expect = 6.5
Identities = 19/82 (23%), Positives = 30/82 (36%), Gaps = 28/82 (34%)
Query: 302 GRNLGLSFQIVDDILDFTQSAEQLGKPAASDLAK---GNLTAPVIFALEKEPKLREIIES 358
GR LG + VD I +K + + A E EP+L EI E+
Sbjct: 446 GRVLGHPYGFVDRI------------------SKLIPPDPGMTLAKAFEAEPQLPEIYEA 487
Query: 359 EFCETGSLDEAIKLVKTSGGIE 380
+ +E L+ + +E
Sbjct: 488 D-------EEVKALIDMARKLE 502
>1llf_A Lipase 3; candida cylindracea cholesterol esterase, sterol ester
acylh hydrolase; HET: NAG F23; 1.40A {Candida
cylindracea} SCOP: c.69.1.17 PDB: 1cle_A* 1lpm_A*
1lpn_A* 1lpo_A* 1lpp_A* 1lps_A* 1crl_A* 1trh_A* 3rar_A*
1gz7_A*
Length = 534
Score = 27.8 bits (62), Expect = 7.5
Identities = 9/42 (21%), Positives = 14/42 (33%)
Query: 186 DDVLDESDMRRGQETVHQLYGTRVAVLAGDFMFAQSSWYLAN 227
D+ S G R++ + GD F + Y N
Sbjct: 383 QDITQGSPFDTGIFNAITPQFKRISAVLGDLAFIHARRYFLN 424
>1eex_A Propanediol dehydratase; coenzyme B12, potassium ION, TIM barrel,
lyase; HET: COY; 1.70A {Klebsiella oxytoca} SCOP:
c.1.19.3 PDB: 1dio_A* 1egm_A* 1egv_A* 1iwb_A* 1uc4_A*
1uc5_A* 3auj_A* 1iwp_A* 1mmf_A*
Length = 554
Score = 27.6 bits (61), Expect = 9.3
Identities = 15/57 (26%), Positives = 23/57 (40%), Gaps = 7/57 (12%)
Query: 186 DDVLDESDMRRGQETVHQLYGTRVAVLAG-------DFMFAQSSWYLANLENLEVIK 235
D SDMRR + Q + +G D MFA S+ + ++ VI+
Sbjct: 335 DQTFTHSDMRRTARLLMQFLPGTDFISSGYSAVPNYDNMFAGSNEDAEDFDDYNVIQ 391
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 0.133 0.368
Gapped
Lambda K H
0.267 0.0707 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 6,220,277
Number of extensions: 382879
Number of successful extensions: 1327
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1142
Number of HSP's successfully gapped: 82
Length of query: 421
Length of database: 6,701,793
Length adjustment: 96
Effective length of query: 325
Effective length of database: 4,021,377
Effective search space: 1306947525
Effective search space used: 1306947525
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 59 (26.5 bits)