RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy5533
(136 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 = 175 bits (446), Expect = 2e-55
Identities = 54/142 (38%), Positives = 93/142 (65%), Gaps = 6/142 (4%)
Query: 1 MLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLATAPVLFA 60
+L G +++ +AFEYGRNLG+AFQL+DD+LDF +S ++GK + +D++ G+ TAP+LFA
Sbjct: 207 VLTGQTAEVAVLAFEYGRNLGLAFQLIDDILDFTGTSASLGKGSLSDIRHGVITAPILFA 266
Query: 61 CEKFPELNPMIMRRFQEPGDVEKAFEFVHKSQGLEQTKFLARKHCVEAVRLASGLAESP- 119
E+FP+L ++ + ++P +V+ A E++ KS+G+++ + LA +H A L E+
Sbjct: 267 MEEFPQLREVVDQVEKDPRNVDIALEYLGKSKGIQRARELAMEHANLAAAAIGSLPETDN 326
Query: 120 -----YQKGLVVLTDLVLNRMK 136
++ L+ LT V+ R K
Sbjct: 327 EDVKRSRRALIDLTHRVITRNK 348
>3pko_A Geranylgeranyl pyrophosphate synthase; isoprenyl diphosphate
synthase, structural genomics, PSI, PR structure
initiative, nysgrc; HET: CIT; 1.98A {Lactobacillus
brevis} PDB: 3n3d_A
Length = 334
Score = 129 bits (326), Expect = 1e-37
Identities = 35/136 (25%), Positives = 61/136 (44%), Gaps = 2/136 (1%)
Query: 1 MLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLATAPVLFA 60
L GA + + + G +G A+Q++DD+LD+ KP DL+ G+ + P+L +
Sbjct: 197 QLAGAPQSVIDRTRDIGIAIGCAYQMLDDILDYAGDPKRTQKPVLEDLRSGVYSLPLLLS 256
Query: 61 CEKFP--ELNPMIMRRFQEPGDVEKAFEFVHKSQGLEQTKFLARKHCVEAVRLASGLAES 118
P + ++ D++ V + G+ K LA+ + A+ L L
Sbjct: 257 LSHAPRDFHKLLKKKQAMTLEDIKHVQALVAQYDGVGAAKQLAQDYTDRALTLIQQLPVG 316
Query: 119 PYQKGLVVLTDLVLNR 134
Q+ L LT L+L R
Sbjct: 317 SAQQSLEQLTRLLLRR 332
>3oyr_A Trans-isoprenyl diphosphate synthase; isoprenyl synthase, PSI,
protein structure initiative; HET: IPE; 2.00A
{Caulobacter crescentus}
Length = 345
Score = 123 bits (311), Expect = 3e-35
Identities = 43/139 (30%), Positives = 66/139 (47%), Gaps = 5/139 (3%)
Query: 1 MLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLATAPVLFA 60
+ G D SE +YG NLG+AFQL DD LD+ +++ +GK D + G AT P+L A
Sbjct: 205 VSAGVDVAKSEALRDYGLNLGLAFQLADDALDYGGATETLGKNAGDDFREGKATLPLLLA 264
Query: 61 CEKFPE-----LNPMIMRRFQEPGDVEKAFEFVHKSQGLEQTKFLARKHCVEAVRLASGL 115
+ I RR Q D +A E + S L+ T LA + +A +
Sbjct: 265 IARSGPREAEFWERAIGRREQTEADFRRARELIIGSGALDATLDLAADYADKAKAALAMF 324
Query: 116 AESPYQKGLVVLTDLVLNR 134
+ +++ L L D ++R
Sbjct: 325 PANDWREALEELADFAVSR 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 = 122 bits (307), Expect = 1e-34
Identities = 34/138 (24%), Positives = 59/138 (42%), Gaps = 4/138 (2%)
Query: 1 MLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLATAPVLFA 60
M GA + + +G +G+ FQ+VDD++D S + GK DL+ G+ T PVL+A
Sbjct: 213 MHAGAAPEHIDALKNFGAAVGMIFQIVDDIIDIFSETHESGKTPGTDLREGVFTLPVLYA 272
Query: 61 ----CEKFPELNPMIMRRFQEPGDVEKAFEFVHKSQGLEQTKFLARKHCVEAVRLASGLA 116
EL ++ ++ V E + +S G + ++ A L
Sbjct: 273 LREDTPVGAELRDILTGPLEDDETVNHVLELLSQSGGRQAALDEVYRYMDIANAELDRLP 332
Query: 117 ESPYQKGLVVLTDLVLNR 134
+S ++ L L + R
Sbjct: 333 DSTVKEALRNLATFTVKR 350
>3rmg_A Octaprenyl-diphosphate synthase; structural genomics, protein
structure initiative, isoprene biosynthesis,
transferase; 2.30A {Bacteroides thetaiotaomicron}
Length = 334
Score = 120 bits (302), Expect = 4e-34
Identities = 34/141 (24%), Positives = 58/141 (41%), Gaps = 6/141 (4%)
Query: 1 MLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLATAPVLFA 60
+ ++ A G +GI FQ+ DD+ D+ S +GKPT D+ G T P L+A
Sbjct: 187 LSVQVGEEEVAFARLLGEYIGICFQIKDDIFDY-FDSKKIGKPTGNDMLEGKLTLPALYA 245
Query: 61 CEKFPE-----LNPMIMRRFQEPGDVEKAFEFVHKSQGLEQTKFLARKHCVEAVRLASGL 115
+ + + P ++ + EF + G+E ++ +A L + L
Sbjct: 246 LNTTKDAWAEQIAFKVKEGTATPDEIVRLIEFTKDNGGIEYACRTIEQYKKKAFDLLAAL 305
Query: 116 AESPYQKGLVVLTDLVLNRMK 136
+S L D V+ R K
Sbjct: 306 PDSNICLALRTYLDYVVAREK 326
>3mzv_A Decaprenyl diphosphate synthase; transferase, structural genomics,
PSI-2, protein structure initiative; 1.90A {Rhodobacter
capsulatus}
Length = 341
Score = 119 bits (300), Expect = 1e-33
Identities = 47/141 (33%), Positives = 71/141 (50%), Gaps = 5/141 (3%)
Query: 1 MLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLATAPVLFA 60
++GGA + + F+YG LGIAFQ+VDDLLD+ S +GK T D + T PV+ A
Sbjct: 193 IIGGAPEDQVQALFDYGDALGIAFQIVDDLLDYGGKSAEIGKNTGDDFRERKLTMPVIKA 252
Query: 61 CEKFPE-----LNPMIMRRFQEPGDVEKAFEFVHKSQGLEQTKFLARKHCVEAVRLASGL 115
E +I + Q+ GD+E A + K LE T+ A A + + L
Sbjct: 253 VALADEAERAFWKRVIEKGDQQDGDLEHAMALMTKHGTLEATRLAAIGWTDTARKALAKL 312
Query: 116 AESPYQKGLVVLTDLVLNRMK 136
+ P ++ L L D V+ R++
Sbjct: 313 PDHPLRQMLDDLADYVVERVR 333
>3aqb_B Component B of hexaprenyl diphosphate synthase; prenyltransferase,
transferase; 2.40A {Micrococcus luteus} PDB: 3aqc_B*
Length = 325
Score = 117 bits (295), Expect = 4e-33
Identities = 34/140 (24%), Positives = 67/140 (47%), Gaps = 6/140 (4%)
Query: 1 MLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLATAPVLFA 60
+ D++ + ++G +G+++Q++DD+LD+ S +GKP +D++ G T P++ A
Sbjct: 184 LSSQLDEQSTYHIKQFGHCIGMSYQIIDDILDYTSDEATLGKPVGSDIRNGHITYPLMAA 243
Query: 61 CEKFPE-----LNPMIMRRFQEPGD-VEKAFEFVHKSQGLEQTKFLARKHCVEAVRLASG 114
E L ++ D V + K G+E + L+RK+ +A S
Sbjct: 244 IANLKEQDDDKLEAVVKHLTSTSDDEVYQYIVSQVKQYGIEPAELLSRKYGDKAKYHLSQ 303
Query: 115 LAESPYQKGLVVLTDLVLNR 134
L +S + L + + +L R
Sbjct: 304 LQDSNIKDYLEEIHEKMLKR 323
>3tc1_A Octaprenyl pyrophosphate synthase; all alpha-helices fold,
transferase; 2.00A {Helicobacter pylori}
Length = 315
Score = 105 bits (263), Expect = 2e-28
Identities = 34/137 (24%), Positives = 61/137 (44%), Gaps = 10/137 (7%)
Query: 1 MLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLATAPVLFA 60
+L D +++ ++G N G+AFQ++DDLLD + +GKP +D K G T P L
Sbjct: 176 ILLNKD---AKIYADFGLNFGMAFQIIDDLLDITQDAKTLGKPNFSDFKEGKTTLPYLLL 232
Query: 61 CEKFPELNPMIMRRF---QEPGDVEKAFEFVHKSQGLEQTKFLARKHCVEAVRLASGLAE 117
EK + + ++ + +E E + +E+T A+ + + A +
Sbjct: 233 YEKLNQHDQGLLISYFKQDSHEIIEWTKEKFKQYGIIEETLKTAQVY----SKKALEAIK 288
Query: 118 SPYQKGLVVLTDLVLNR 134
L L V++R
Sbjct: 289 GENNLILEKLAQDVISR 305
>1wy0_A Geranylgeranyl pyrophosphate synthetase; pyrococcus horikosh
structural genomics, riken structural
genomics/proteomics initiative, RSGI; 2.20A {Pyrococcus
horikoshii}
Length = 342
Score = 102 bits (256), Expect = 2e-27
Identities = 33/150 (22%), Positives = 64/150 (42%), Gaps = 16/150 (10%)
Query: 1 MLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLATAPVLFA 60
++G +++ + +GRN+GIAFQ+ DD+LD I+ +GKP +D++ G T V
Sbjct: 191 IIGTDNEEYIKALSSWGRNVGIAFQIWDDVLDLIADEKKLGKPVGSDIRKGKKTLIVAHF 250
Query: 61 CEK----------------FPELNPMIMRRFQEPGDVEKAFEFVHKSQGLEQTKFLARKH 104
E ++ + DV +A + + K ++ +A+
Sbjct: 251 FENADEKDKQRFLKIFGKYAGDVKGRGIIEEDIKSDVMEAIDLLKKYGSIDYAAEIAKDM 310
Query: 105 CVEAVRLASGLAESPYQKGLVVLTDLVLNR 134
+A L +S + L +L ++ R
Sbjct: 311 IKKANEALRILPKSKARMDLELLAKFIVER 340
>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 = 98.9 bits (247), Expect = 3e-26
Identities = 30/115 (26%), Positives = 53/115 (46%), Gaps = 6/115 (5%)
Query: 5 ADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLATAPVLFACEKF 64
+ +L E + G +G +Q+ DD++DF + + +GK DLK G+A+ P++ A EKF
Sbjct: 181 LEGELGEDLYNLGVTIGTIYQMFDDIMDF-AGMEKIGKDGFLDLKNGVASFPLVTAMEKF 239
Query: 65 PELNPMIMRRFQEPGDVEKAFEFVHKSQGLEQTKFLARKHCVEAVRLASGLAESP 119
PE M R D F+ + L++ + + + S L +
Sbjct: 240 PEARQMFENR-----DWSGLMSFMREKGILKECEETLKVLVKNVIIENSWLRDFV 289
>4dhd_A Polyprenyl synthetase; isoprenoid synthesis, isoprenoid diphosphate
synthase, trans; 1.65A {Pyrobaculum calidifontis}
Length = 358
Score = 98.6 bits (246), Expect = 8e-26
Identities = 34/140 (24%), Positives = 57/140 (40%), Gaps = 9/140 (6%)
Query: 1 MLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLATAPVLFA 60
+ D L+E A+ +G G+AFQ++DD+LD GK D+K V+
Sbjct: 198 LSVSDDRGLAEAAWNFGMAAGVAFQIIDDVLDIYGDPKKFGKEIGKDIKEHKRGNAVVAV 257
Query: 61 C------EKFPELNPMIMRRFQEPGDVEKAFEFVHKSQGLEQTKFLARKHCVEAVRLASG 114
+ L ++ R E DV +A + E+ LA ++ EA R +
Sbjct: 258 ALSHLGEGERRRLLEILAREVVEEADVREAVALLDSVGAREEALRLAARYREEAERHLAK 317
Query: 115 LAESPYQKGLVVLTDLVLNR 134
+ + L L D ++ R
Sbjct: 318 IPNNGT---LKELLDFIVAR 334
>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 = 94.6 bits (236), Expect = 1e-24
Identities = 24/140 (17%), Positives = 49/140 (35%), Gaps = 8/140 (5%)
Query: 1 MLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLATAPVLFA 60
+ + L LG+ FQ+ DD + S + K DL G + P + A
Sbjct: 166 LFSDYKEDLKP----LLNTLGLFFQIRDDYANLHSKEYSENKSFCEDLTEGKFSFPTIHA 221
Query: 61 CEKFPE---LNPMIMRRFQEPGDVEKAFEFVHKSQGLEQTKFLARKHCVEAVRLASGLAE 117
PE + ++ +R + + ++ E T+ ++ +A +
Sbjct: 222 IWSRPESTQVQNILRQRTENIDIKKYCVHYLEDVGSFEYTRNTLKELEAKAYKQIDARGG 281
Query: 118 SPYQKGLV-VLTDLVLNRMK 136
+P LV L+ + +
Sbjct: 282 NPELVALVKHLSKMFKEENE 301
>3nf2_A Putative polyprenyl synthetase; isoprenyl diphosphate synthase,
structural genomics, PSI, PR structure initiative,
nysgrc; 2.20A {Streptomyces coelicolor}
Length = 352
Score = 94.7 bits (236), Expect = 2e-24
Identities = 37/148 (25%), Positives = 59/148 (39%), Gaps = 12/148 (8%)
Query: 1 MLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLATAPVLFA 60
+LGGAD++ ++ +YG +LG+AFQ VDDLL DA GK T +DL+ + PV+ A
Sbjct: 197 VLGGADERTADTLEKYGYHLGLAFQAVDDLLGIWGDPDATGKQTWSDLRQRKKSLPVVAA 256
Query: 61 CEK-----------FPELNPMIMRRFQEPGDVEKAFEFVHKSQGLEQTKFLARKHCVEAV 109
+ + ++ G E T AR+ A+
Sbjct: 257 LAAGGAASERLGEILTADAKASDFANFSEEEFAARAALIEEAGGREWTADEARRQHTIAI 316
Query: 110 RLASGLAES-PYQKGLVVLTDLVLNRMK 136
+ + L D V+ R +
Sbjct: 317 EALDAVDMPDRVRDRFTALADFVVVRKR 344
>3lk5_A Geranylgeranyl pyrophosphate synthase; structural genomics, protein
structure initiative, geranylge pyrophosphate synthase;
1.90A {Corynebacterium glutamicum} PDB: 3qqv_A*
Length = 380
Score = 87.5 bits (217), Expect = 1e-21
Identities = 30/144 (20%), Positives = 53/144 (36%), Gaps = 8/144 (5%)
Query: 1 MLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLATAPVLFA 60
+ G +L + YG ++GIAFQL DDLL GKP D++ G T + A
Sbjct: 230 SIAGGSPQLIDALLHYGHDIGIAFQLRDDLLGVFGDPAITGKPAGDDIREGKRTVLLALA 289
Query: 61 CEKFPELNP-------MIMRRFQEPGDVEKAFEFVHKSQGLEQTKFLARKHCVEAVR-LA 112
++ + +P + + P D+ E + + E+ + + + L
Sbjct: 290 LQRADKQSPEAATAIRAGVGKVTSPEDIAVITEHIRATGAEEEVEQRISQLTESGLAHLD 349
Query: 113 SGLAESPYQKGLVVLTDLVLNRMK 136
+ L L R +
Sbjct: 350 DVDIPDEVRAQLRALAIRSTERRE 373
>1wmw_A Geranylgeranyl diphosphate synthetase; GGPP, prenyl diphosphate
synthase, structural genom riken structural
genomics/proteomics initiative; 1.55A {Thermus
thermophilus}
Length = 330
Score = 86.6 bits (215), Expect = 2e-21
Identities = 35/145 (24%), Positives = 52/145 (35%), Gaps = 14/145 (9%)
Query: 1 MLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLATAPVLFA 60
+L G E G LG AFQ+VDD+L+ + +A GK A DL G T +L
Sbjct: 187 LLAGKTPP--AAYEEGGLRLGTAFQIVDDVLN-LEGGEAYGKERAGDLYEGKRTLILLRF 243
Query: 61 CEKFPELNPMIMRR-------FQEPGDVEKAFEFVHKSQGLEQTKFLARKHCVEAV---- 109
E+ P + +V E + S+ L K A++ E +
Sbjct: 244 LEEAPPEERARALALLALPREAKPEAEVGWLLERLLASRALAWAKAEAKRLQAEGLALLE 303
Query: 110 RLASGLAESPYQKGLVVLTDLVLNR 134
L L L ++ R
Sbjct: 304 AAFQDLPGKEALDHLRGLLAALVER 328
>3ipi_A Geranyltranstransferase; isoprene biosynthesis, helical bundle,
protein structure initiative II (PSI II), structural
genomics, nysgxrc; 1.90A {Methanosarcina mazei}
Length = 295
Score = 79.2 bits (196), Expect = 7e-19
Identities = 28/135 (20%), Positives = 49/135 (36%), Gaps = 31/135 (22%)
Query: 1 MLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLATAPVLFA 60
GGA+++L+E +G LG A+Q+VDD+L+F + + K T P ++
Sbjct: 180 YTGGAEEELAERFSHFGNALGTAYQIVDDILEF------LEVVEGKESKFTSETLPHIYM 233
Query: 61 CEKFPELNPMIMRRFQEPGDVEKAFEFVHKSQGLEQTKFLARKHCVEAVRLASGLAESPY 120
E + L+++ + H A E P
Sbjct: 234 KSTSKE-------------------------EALKKSIDCVKLHVAAAKETLETFRECPA 268
Query: 121 QKGLVVLTDLVLNRM 135
+ L +TD + M
Sbjct: 269 RDKLFQITDYITVDM 283
>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 = 77.5 bits (191), Expect = 5e-18
Identities = 25/139 (17%), Positives = 45/139 (32%), Gaps = 4/139 (2%)
Query: 1 MLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLATAPVLFA 60
M+G + E A +G FQ+ DD LD G D++ + V+
Sbjct: 230 MVGIDSKEEHENAKAILLEMGEYFQIQDDYLDCFGDPALTGA-VGTDIQDNKCSWLVVQC 288
Query: 61 CEKF-PELNPMIMRRF--QEPGDVEKAFEFVHKSQGLEQTKFLARKHCVEAVRLASGLAE 117
++ PE ++ + +EP V K E + L +
Sbjct: 289 LQRVTPEQRQLLEDNYGRKEPEKVAKVKELYEAVGMRAAFQQYEESSYRRLQELIEKHSN 348
Query: 118 SPYQKGLVVLTDLVLNRMK 136
++ + L + R K
Sbjct: 349 RLPKEIFLGLAQKIYKRQK 367
>2azj_A Geranylgeranyl pyrophosphate synthetase; hexpps,
trans-prenyltransferase; 2.40A {Sulfolobus solfataricus}
PDB: 2azk_A
Length = 289
Score = 72.3 bits (178), Expect = 2e-16
Identities = 15/103 (14%), Positives = 34/103 (33%), Gaps = 9/103 (8%)
Query: 1 MLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSS----DAMGKPTAADLKLGLATAP 56
+ + + G+ LGI +Q++DD +D+ + D K + G
Sbjct: 182 YASKHYNTK-QQMLDVGKYLGIIYQVIDDFVDYKTKKVEEIDGSAKQLFKYYREGKLEEY 240
Query: 57 VLFACEKFPELNPMIMRRFQEPG----DVEKAFEFVHKSQGLE 95
V ++ + ++ ++ EF+ E
Sbjct: 241 VRSVYLEYKQKYDELISNIPFQSKYLSEIRSLPEFLANGLLKE 283
>1rtr_A Geranyltranstransferase; 2.50A {Staphylococcus aureus} SCOP:
a.128.1.1
Length = 301
Score = 71.1 bits (175), Expect = 6e-16
Identities = 29/134 (21%), Positives = 44/134 (32%), Gaps = 33/134 (24%)
Query: 1 MLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLATAPVLFA 60
+ DD E Y +LG+ FQ+ DDLLD +GK +DL+ +T L
Sbjct: 191 DIANVDDTTKEHLESYSYHLGMMFQIKDDLLDCYGDEAKLGKKVGSDLENNKSTYVSLL- 249
Query: 61 CEKFPELNPMIMRRFQEPGDVEKAFEFVHKSQGLEQTKFLARKHCVEAVRLASGLAESPY 120
G + + H AV + + E
Sbjct: 250 --------------------------------GKDGAEDKLTYHRDAAVDELTQIDEQFN 277
Query: 121 QKGLVVLTDLVLNR 134
K L+ + DL +R
Sbjct: 278 TKHLLEIVDLFYSR 291
>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 = 68.7 bits (168), Expect = 7e-15
Identities = 24/139 (17%), Positives = 43/139 (30%), Gaps = 4/139 (2%)
Query: 1 MLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLATAPVLFA 60
M G +K A + +G FQ+ DD LD GK D++ + V+
Sbjct: 237 MAGIDGEKEHANAKKILLEMGEFFQIQDDYLDLFGDPSVTGK-IGTDIQDNKCSWLVVQC 295
Query: 61 CEKF-PELNPMIMRRF--QEPGDVEKAFEFVHKSQGLEQTKFLARKHCVEAVRLASGLAE 117
++ PE ++ + +E V + + + L A
Sbjct: 296 LQRATPEQYQILKENYGQKEAEKVARVKALYEELDLPAVFLQYEEDSYSHIMALIEQYAA 355
Query: 118 SPYQKGLVVLTDLVLNRMK 136
+ L + R K
Sbjct: 356 PLPPAVFLGLARKIYKRRK 374
>3p8l_A Geranyltranstransferase; isoprenyl synthase, structural genomics,
PSI, protein struct initiative, nysgrc; 2.00A
{Enterococcus faecalis}
Length = 302
Score = 67.6 bits (166), Expect = 1e-14
Identities = 23/134 (17%), Positives = 42/134 (31%), Gaps = 33/134 (24%)
Query: 1 MLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLATAPVLFA 60
+L +++ + ++ + G+AFQ+ DDLLD S+ +GK D L +T P L
Sbjct: 199 VLANQTEEVIGLLTQFAHHYGLAFQIRDDLLDATSTEADLGKKVGRDEALNKSTYPALL- 257
Query: 61 CEKFPELNPMIMRRFQEPGDVEKAFEFVHKSQGLEQTKFLARKHCVEAVRLASGLAESPY 120
G+ K E + + +
Sbjct: 258 --------------------------------GIAGAKDALTHQLAEGSAVLEKIKANVP 285
Query: 121 QKGLVVLTDLVLNR 134
L +L+
Sbjct: 286 NFSEEHLANLLTQL 299
>3uca_A Geranyltranstransferase; isoprenoid synthesis, isoprenoid
diphosphate synthase; 2.00A {Clostridium perfringens}
Length = 324
Score = 67.3 bits (165), Expect = 2e-14
Identities = 28/134 (20%), Positives = 48/134 (35%), Gaps = 35/134 (26%)
Query: 1 MLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLATAPVLFA 60
+L A + + +G LG+AFQ+ DD+LD + ++ +GK D + +F
Sbjct: 224 VLAEASEGDIKKLEGFGYKLGLAFQIKDDILDVVGNAKDLGKNVHKDQESNKNNYITIF- 282
Query: 61 CEKFPELNPMIMRRFQEPGDVEKAFEFVHKSQGLEQTKFLARKHCVEAVRLASGLAESPY 120
GLE+ K E + + S + +
Sbjct: 283 --------------------------------GLEECKKKCVNITEECIEILSSIKGNT- 309
Query: 121 QKGLVVLTDLVLNR 134
+ L VLT +L R
Sbjct: 310 -EPLKVLTMKLLER 322
>4fp4_A Polyprenyl synthetase; isoprenoid synthesis, isoprenoid diphosphate
synthase, trans; HET: GER UNL; 2.00A {Pyrobaculum
calidifontis}
Length = 285
Score = 66.6 bits (163), Expect = 2e-14
Identities = 16/110 (14%), Positives = 30/110 (27%), Gaps = 5/110 (4%)
Query: 1 MLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLATAPVLFA 60
++ G + + E A + G LGI +Q DD D + K A + +G +
Sbjct: 178 VILGRRELI-ETAKKLGTKLGILYQYSDDYSD-ENVERPETKSIANE--IGRYLLKIKEH 233
Query: 61 CEK-FPELNPMIMRRFQEPGDVEKAFEFVHKSQGLEQTKFLARKHCVEAV 109
+I + + Q+
Sbjct: 234 VGDAIAPFERLIKYLIGKALEGTLTVSRTIAENLYFQSHHHHHHWSHPQF 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 = 67.0 bits (164), Expect = 3e-14
Identities = 22/146 (15%), Positives = 39/146 (26%), Gaps = 18/146 (12%)
Query: 1 MLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLATAPVLFA 60
L + + LGI +Q+ DD L+ + K A D+ G + P++ A
Sbjct: 188 ALSPSSHH-GHSLVPFINLLGIIYQIRDDYLNLKDFQMSSEKGFAEDITEGKLSFPIVHA 246
Query: 61 CEKFPELNPMIMRRF------QEPGDVEKAFEFV----HKSQGLEQTKFLARKHCVEAVR 110
D + + + + L TK +
Sbjct: 247 LNFTKTKGQTEQHNEILRILLLRTSDKDIKLKLIQILEFDTNSLAYTKNFINQ------- 299
Query: 111 LASGLAESPYQKGLVVLTDLVLNRMK 136
L + + K L L
Sbjct: 300 LVNMIKNDNENKYLPDLASHSDTATN 325
>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 = 66.1 bits (162), Expect = 4e-14
Identities = 35/135 (25%), Positives = 52/135 (38%), Gaps = 34/135 (25%)
Query: 3 GGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLATAPVLFACE 62
G + V +Y ++G+AFQ+ DD+LD + + +GK AD +LG +T P L
Sbjct: 198 GDKGRRALPVLDKYAESIGLAFQVQDDILDVVGDTATLGKRQGADQQLGKSTYPALL--- 254
Query: 63 KFPELNPMIMRRFQEPGDVEKAFEFVHKSQGLEQTKFLARKHCVEAVRLASGLAESPYQK 122
GLEQ + AR +A + LAE
Sbjct: 255 ------------------------------GLEQARKKARDLIDDARQSLKQLAEQSLDT 284
Query: 123 G-LVVLTDLVLNRMK 136
L L D ++ R K
Sbjct: 285 SALEALADYIIQRNK 299
>2h8o_A Geranyltranstransferase; geranyltransferase,agrobacterium
tumefaciens, structural GEN PSI-2, protein structure
initiative; 1.60A {Agrobacterium tumefaciens}
Length = 335
Score = 65.8 bits (161), Expect = 8e-14
Identities = 26/134 (19%), Positives = 43/134 (32%), Gaps = 35/134 (26%)
Query: 1 MLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLATAPVLFA 60
++ G++ + +G +G++FQL DDLLD + + MGK T D G T L
Sbjct: 235 IIAGSNQAERQRLRLFGEKIGLSFQLADDLLDLTADAATMGKATGKDAARGKGTLVALR- 293
Query: 61 CEKFPELNPMIMRRFQEPGDVEKAFEFVHKSQGLEQTKFLARKHCVEAVRLASGLAESPY 120
G + ++ EA L + E
Sbjct: 294 --------------------------------GEAWAREKLQEQVAEASELLAPYGEKA- 320
Query: 121 QKGLVVLTDLVLNR 134
L+ + R
Sbjct: 321 -AILIAAARFIAER 333
>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 = 63.8 bits (156), Expect = 3e-13
Identities = 26/135 (19%), Positives = 36/135 (26%), Gaps = 34/135 (25%)
Query: 1 MLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLATAPVLFA 60
+LG A + ++ G+AFQ+ DD+LD +SS MGK T D T P
Sbjct: 198 ILGQAPEAQWPAYLQFADAFGLAFQIYDDILDVVSSPAEMGKATQKDADEAKNTYPGKL- 256
Query: 61 CEKFPELNPMIMRRFQEPGDVEKAFEFVHKSQGLEQTKFLARKHCVEAVRLASGLAESPY 120
GL GL S
Sbjct: 257 --------------------------------GLIGANQALIDTIHSGQAALQGLPTSTQ 284
Query: 121 QKG-LVVLTDLVLNR 134
+ + R
Sbjct: 285 RDDLAAFFSYFDTER 299
>3lom_A Geranyltranstransferase; geranyltransferase, structural genomics,
PSI, protein structure initiative, nysgrc; 2.30A
{Legionella pneumophila subsp}
Length = 313
Score = 63.8 bits (156), Expect = 3e-13
Identities = 23/134 (17%), Positives = 41/134 (30%), Gaps = 35/134 (26%)
Query: 1 MLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLATAPVLFA 60
+++ YG+++G+ FQ+ DD LD + + +GK ++D T LF
Sbjct: 203 AQHEVSEQIKSALRTYGKHIGLVFQMQDDYLDLYAPTQILGKGRSSDQANQKTTFATLF- 261
Query: 61 CEKFPELNPMIMRRFQEPGDVEKAFEFVHKSQGLEQTKFLARKHCVEAVRLASGLAESPY 120
+Q + H A+
Sbjct: 262 --------------------------------NKQQLEEEIAVHYQIAMDSLRLFGSKA- 288
Query: 121 QKGLVVLTDLVLNR 134
L+ LT + NR
Sbjct: 289 -AALIELTKQLQNR 301
>4f62_A Geranyltranstransferase; enzyme function initiative, structural
genomics; 2.10A {Marinomonas SP}
Length = 317
Score = 63.8 bits (156), Expect = 4e-13
Identities = 26/134 (19%), Positives = 47/134 (35%), Gaps = 35/134 (26%)
Query: 1 MLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLATAPVLFA 60
G + Y +G+AFQ+ DD++D S ++ +GK +D + AT P L
Sbjct: 195 STGQVKPEQLAKLDAYAHAIGLAFQVQDDIIDLTSDTETLGKTQFSDAEANKATYPKLL- 253
Query: 61 CEKFPELNPMIMRRFQEPGDVEKAFEFVHKSQGLEQTKFLARKHCVEAVRLASGLAESPY 120
GL+ K L + +A+ S +
Sbjct: 254 --------------------------------GLDGAKALVVRLHEQAIAQISEFGDKS- 280
Query: 121 QKGLVVLTDLVLNR 134
+ L L + +++R
Sbjct: 281 -QPLTDLANYIIDR 293
>3ts7_A Geranyltranstransferase; isoprenoid synthesis, farnesyl diphosphate
synthase; 1.94A {Methylococcus capsulatus}
Length = 324
Score = 63.0 bits (154), Expect = 5e-13
Identities = 25/134 (18%), Positives = 39/134 (29%), Gaps = 35/134 (26%)
Query: 1 MLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLATAPVLFA 60
G + + Y + +G+AFQ+ DD+LD S + +GK D P L
Sbjct: 202 ARPGLPAEQFDRLDHYAKCIGLAFQIQDDILDEESDTQTLGKTRGKDRDHNKPNYPALL- 260
Query: 61 CEKFPELNPMIMRRFQEPGDVEKAFEFVHKSQGLEQTKFLARKHCVEAVRLASGLAESPY 120
GL K A + A+ +G
Sbjct: 261 --------------------------------GLSGAKEKAEEMHEAALESLAGFGPEA- 287
Query: 121 QKGLVVLTDLVLNR 134
L L ++ R
Sbjct: 288 -DLLRELARFIIQR 300
>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 = 62.6 bits (152), Expect = 1e-12
Identities = 19/136 (13%), Positives = 45/136 (33%), Gaps = 8/136 (5%)
Query: 3 GGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLATAPVLFACE 62
D+ + + + +G FQ+ DD LD S GK +D++ T P++ E
Sbjct: 261 IAVDNLIYKKIEDISMLMGEYFQIHDDYLDIFGDSTKTGK-VGSDIQNNKLTWPLIKTFE 319
Query: 63 KF-PELNPMIMRRF--QEPGDVEKAFEFVHKSQGLEQTKFLARKHCVEAVRLASGLAESP 119
I++ + V+ + + + + +
Sbjct: 320 LCSEPDKIKIVKNYGKNNLACVKVIDSLYEQYKIRKHYESYEK----AQKAKILSAINEL 375
Query: 120 YQKGLVVLTDLVLNRM 135
+ +G+ + +L +
Sbjct: 376 HHEGIEYVLKYLLEIL 391
>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 = 62.2 bits (152), Expect = 1e-12
Identities = 27/132 (20%), Positives = 44/132 (33%), Gaps = 35/132 (26%)
Query: 3 GGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLATAPVLFACE 62
G A+ + Y + +G+AFQ+ DD+LD S + +GK AD+ T P L
Sbjct: 198 GRAEKGELKALQTYAQAIGLAFQVQDDILDVESDTATLGKRQGADIARDKPTYPALL--- 254
Query: 63 KFPELNPMIMRRFQEPGDVEKAFEFVHKSQGLEQTKFLARKHCVEAVRLASGLAESPYQK 122
GL K A + +A+ + +
Sbjct: 255 ------------------------------GLAAAKEYALELRDQALHALRPFDAAA--E 282
Query: 123 GLVVLTDLVLNR 134
L L ++ R
Sbjct: 283 PLRELARYIVER 294
>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 = 60.7 bits (148), Expect = 3e-12
Identities = 32/136 (23%), Positives = 42/136 (30%), Gaps = 38/136 (27%)
Query: 1 MLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLATAPVLFA 60
+L GAD Y LG+AFQ+ DD+LD + +A GK D + AT L
Sbjct: 192 ILAGADR---GPLTAYATALGLAFQIADDILDVEGNEEAAGKRLGKDAEAHKATFVSLL- 247
Query: 61 CEKFPELNPMIMRRFQEPGDVEKAFEFVHKSQGLEQTKFLARKHCVEAVRLASGLAESPY 120
GL K A EA + E+
Sbjct: 248 --------------------------------GLAGAKSRAADLVAEAEAALAPYGEAA- 274
Query: 121 QKGLVVLTDLVLNRMK 136
L V+ R K
Sbjct: 275 -STLRACARYVIERDK 289
>3p8r_A Geranyltranstransferase; isoprenyl synthase, structural genomics,
PSI, protein struct initiative, nysgrc; 2.50A {Vibrio
cholerae}
Length = 302
Score = 60.7 bits (148), Expect = 4e-12
Identities = 29/132 (21%), Positives = 46/132 (34%), Gaps = 35/132 (26%)
Query: 3 GGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLATAPVLFACE 62
G + Y +G+AFQ+ DD+LD IS ++ +GKP +D +L +T P L
Sbjct: 204 GEKGRAMLPHLDRYAEAVGLAFQVQDDILDIISDTETLGKPQGSDQELNKSTYPALL--- 260
Query: 63 KFPELNPMIMRRFQEPGDVEKAFEFVHKSQGLEQTKFLARKHCVEAVRLASGLAESPYQK 122
GLE + A EA+ + + +
Sbjct: 261 ------------------------------GLEGAQQKAHTLLQEALLALEAIPYNT--E 288
Query: 123 GLVVLTDLVLNR 134
L V+ R
Sbjct: 289 HLEEFARYVVER 300
>3npk_A Geranyltranstransferase; isoprene biosynthesis, SGX, structural
genomics protein structure initiative; 1.50A
{Campylobacter jejuni}
Length = 291
Score = 59.9 bits (146), Expect = 6e-12
Identities = 19/62 (30%), Positives = 32/62 (51%), Gaps = 7/62 (11%)
Query: 1 MLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLK-------LGLA 53
+ +++ S ++ G LG+ FQ+ DD++D +S + GKPT D+ LGL
Sbjct: 188 EICELNNEESNQIYKLGLKLGLIFQINDDIIDVTTSQEQSGKPTNNDIHKNSFVNLLGLE 247
Query: 54 TA 55
A
Sbjct: 248 QA 249
>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 = 58.3 bits (141), Expect = 3e-11
Identities = 19/141 (13%), Positives = 41/141 (29%), Gaps = 6/141 (4%)
Query: 1 MLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLATAPVLFA 60
+ A + +G FQ+ DD++D + + +GK D++ + +
Sbjct: 223 VSEAAASVEMNLVERVAHLIGEYFQVQDDVMDCFTPPEQLGK-VGTDIEDAKCSWLAVTF 281
Query: 61 CEKF-PELNPMIMRRF--QEPGDVEKAFEFVHKSQGLEQTKFLARKHCVEAVRLASGLAE 117
K + ++P V ++ + E L L
Sbjct: 282 LGKANAAQVAEFKANYGDKDPAKVAVVKRLYSEANLQADFAAYEAEVVREVESLIEQLKV 341
Query: 118 SPYQKG--LVVLTDLVLNRMK 136
+ V+ + R K
Sbjct: 342 KSPTFAESVAVVWEKTHKRKK 362
>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 = 56.4 bits (136), Expect = 1e-10
Identities = 18/141 (12%), Positives = 37/141 (26%), Gaps = 6/141 (4%)
Query: 1 MLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLATAPVLFA 60
+ V E +G FQ+ DD++D + + +GK D++ + +
Sbjct: 251 VSEALPTVDMGVTEELAMLMGEYFQVQDDVMDCFTPPERLGK-VGTDIQDAKCSWLAVTF 309
Query: 61 CEKF-PELNPMIMRRF--QEPGDVEKAFEFVHKSQGLEQTKFLARKHCVEAVRLASGLAE 117
K + + V ++ + L L
Sbjct: 310 LAKASSAQVAEFKANYGSGDSEKVATVRRLYEEADLQGDYVAYEAAVAEQVKELIEKLRL 369
Query: 118 SP--YQKGLVVLTDLVLNRMK 136
+ + L R K
Sbjct: 370 CSPGFAASVETLWGKTYKRQK 390
>3llw_A Geranyltranstransferase (ISPA); structural genomics, PSI, protein
structure initiative, nysgrc; 2.30A {Helicobacter
pylori} PDB: 3q1o_A*
Length = 311
Score = 55.4 bits (134), Expect = 3e-10
Identities = 14/45 (31%), Positives = 25/45 (55%)
Query: 3 GGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAAD 47
G D++L + +G +G+ FQ++DD++D + GK T D
Sbjct: 205 GIKDEELFKWLQAFGLKMGLCFQVLDDIIDVTQDEEESGKTTHLD 249
>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 = 48.7 bits (117), Expect = 6e-08
Identities = 20/55 (36%), Positives = 31/55 (56%), Gaps = 5/55 (9%)
Query: 1 MLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLATA 55
++GG D+ E ++ R +G+ FQ+VDD+LD SS K T L +GL +
Sbjct: 206 IIGGGSDEEIERLRKFARCIGLLFQVVDDILDVTKSS----KLTYPKL-MGLEKS 255
>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 = 46.9 bits (112), Expect = 2e-07
Identities = 9/50 (18%), Positives = 18/50 (36%), Gaps = 1/50 (2%)
Query: 1 MLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDA-MGKPTAADLK 49
+LGG D+ E +G +G L+ + + +L+
Sbjct: 193 ILGGCDEDKIEKLRRFGLYVGTVQGLLGKNRSGFEGRIKELKELAVKELE 242
>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 = 46.7 bits (111), Expect = 4e-07
Identities = 16/133 (12%), Positives = 43/133 (32%), Gaps = 8/133 (6%)
Query: 5 ADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLATAPVLFACEKF 64
+ LG +Q+ +D+ D++ A D+ T P+ + E
Sbjct: 231 VSSAQLNLIEAILYKLGEFYQVHNDVSDYLF-----NDSNADDICRFKLTWPLQKSFEIA 285
Query: 65 PELNPMIMRRF--QEPGDVEKAFEFVHKSQG-LEQTKFLARKHCVEAVRLASGLAESPYQ 121
E + + + V+ + + ++ LE + + + +
Sbjct: 286 DEEMKLKISENYGKNSSLVKDCYNLLKINEHYLEYQRNALDYLIKLVKDITDDSLQKVFI 345
Query: 122 KGLVVLTDLVLNR 134
+ +++L+ N
Sbjct: 346 HLIHQISELITNS 358
>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 = 42.3 bits (100), Expect = 1e-05
Identities = 15/73 (20%), Positives = 29/73 (39%), Gaps = 14/73 (19%)
Query: 1 MLGGADDKLSEVAFEYGRNLGI---------AFQLVDDLLDFI---SSSDAMGKPT--AA 46
+LGGA ++ + +G G + QL+D+ + + + +G A
Sbjct: 192 ILGGAAEEEIQKLRNFGLYQGTLRGMMEMKNSHQLIDENIIGKLKELALEELGGFHGKNA 251
Query: 47 DLKLGLATAPVLF 59
+L L P L+
Sbjct: 252 ELMSSLVAEPSLY 264
>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 = 39.8 bits (92), Expect = 9e-05
Identities = 15/53 (28%), Positives = 23/53 (43%), Gaps = 7/53 (13%)
Query: 10 SEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLK-------LGLATA 55
G G+AFQ+ DDL D + S + +GK D + +G+ A
Sbjct: 195 HTXMXLLGEXFGVAFQIYDDLXDILGSFEKVGKDLGKDTEXVTLVXXVGIQXA 247
>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 = 29.2 bits (65), Expect = 0.40
Identities = 25/120 (20%), Positives = 39/120 (32%), Gaps = 32/120 (26%)
Query: 5 ADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAAD--LKLGLATAPVLFACE 62
ADD+ + A +LV L ++SS K D L L L
Sbjct: 50 ADDEPTTPA-----------ELVGKFLGYVSSLVEPSKVGQFDQVLNLCL---------T 89
Query: 63 KFPELNPMIMRRFQEPGDVEKAFEFVHKSQGLEQTKFLARKHCVEAVRLASGLAESPYQK 122
+F E + E D+ K T + K ++ A +A+ P+ K
Sbjct: 90 EF-E------NCYLEGNDIHA---LAAKLLQENDTTLVKTKELIKNYITARIMAKRPFDK 139
Score = 25.4 bits (55), Expect = 8.7
Identities = 20/102 (19%), Positives = 28/102 (27%), Gaps = 43/102 (42%)
Query: 40 MGK------PTAADL----------KLGLATA------P----VLFACEKFPEL--NPMI 71
MG A D+ G + P + F EK + N
Sbjct: 1631 MGMDLYKTSKAAQDVWNRADNHFKDTYGFSILDIVINNPVNLTIHFGGEKGKRIRENYSA 1690
Query: 72 MRRFQEPGD----VEKAFE----------FVHKSQGLEQTKF 99
M F+ D EK F+ F + L T+F
Sbjct: 1691 MI-FETIVDGKLKTEKIFKEINEHSTSYTFRSEKGLLSATQF 1731
>2pff_A Fatty acid synthase subunit alpha, 3-oxoacyl-[acyl-carrier-PR;
fatty acid synthase, acyl-carrier-protein, beta-ketoacyl
RED beta-ketoacyl synthase, dehydratase; 4.00A
{Saccharomyces cerevisiae}
Length = 1688
Score = 28.7 bits (64), Expect = 0.70
Identities = 22/87 (25%), Positives = 32/87 (36%), Gaps = 11/87 (12%)
Query: 2 LGGADDKLSEVAFEYGR----NLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLATAPV 57
L A++ ++E + G +AF L+ LL P ADL GL P
Sbjct: 678 LMSANNIIAEGIEKMGVRTFSQKEMAFNLLG-LLTPEVVELCQKSPVMADLNGGLQFVPE 736
Query: 58 LFACEKFPELNPMIMRRFQEPGDVEKA 84
L E + + E +V KA
Sbjct: 737 L------KEFTAKLRKELVETSEVRKA 757
>3acx_A Dehydrosqualene synthase; CRTM, carotenoid biosynthesis,
staphyloxanthin biosynthesis, transferase, head-TO-head
condensation, inhibitor; HET: 673; 1.31A {Staphylococcus
aureus} PDB: 2zcp_A* 2zcq_A* 2zcr_A* 2zcs_A* 2zy1_A*
3acw_A* 2zco_A* 3acy_A* 3npr_A* 3nri_A* 3tfn_A* 3tfp_A*
3tfv_A* 3adz_A* 3lgz_B* 3vjd_A* 3vje_A* 3ae0_A* 4ea2_A*
4e9u_A* ...
Length = 293
Score = 27.3 bits (61), Expect = 1.8
Identities = 6/26 (23%), Positives = 11/26 (42%), Gaps = 3/26 (11%)
Query: 2 LGGADDKLSEVAFEYGRNLGIAFQLV 27
L + ++ R LG + QL+
Sbjct: 151 LSDHET---HQTYDVARRLGESLQLI 173
>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 = 27.1 bits (59), Expect = 2.6
Identities = 7/20 (35%), Positives = 10/20 (50%)
Query: 110 RLASGLAESPYQKGLVVLTD 129
L L PY+ L+VL +
Sbjct: 233 ELRRLLKSKPYENCLLVLLN 252
Score = 25.6 bits (55), Expect = 8.4
Identities = 10/36 (27%), Positives = 17/36 (47%), Gaps = 5/36 (13%)
Query: 3 GGADDKLSEVAFEYGR----NLGIAFQLVDDLLDFI 34
G + L ++ F Y N +LV+ +LDF+
Sbjct: 518 GSILNTLQQLKF-YKPYICDNDPKYERLVNAILDFL 552
>2xtc_A F-box-like/WD repeat-containing protein TBL1X; transcription;
2.22A {Homo sapiens} PDB: 2xte_A 2xtd_A
Length = 90
Score = 24.7 bits (54), Expect = 7.1
Identities = 10/34 (29%), Positives = 15/34 (44%)
Query: 66 ELNPMIMRRFQEPGDVEKAFEFVHKSQGLEQTKF 99
E+N ++ R QE G AF F +S +
Sbjct: 7 EVNFLVYRYLQESGFSHSAFTFGIESHISQSNIN 40
>2d8a_A PH0655, probable L-threonine 3-dehydrogenase; pyrococcus horikoshii
OT3, structural genomics; HET: NAD; 2.05A {Pyrococcus
horikoshii} PDB: 2dfv_A* 3gfb_A*
Length = 348
Score = 25.2 bits (56), Expect = 9.0
Identities = 7/28 (25%), Positives = 15/28 (53%)
Query: 67 LNPMIMRRFQEPGDVEKAFEFVHKSQGL 94
L+P+I +++ E+AFE + +
Sbjct: 314 LDPIITHKYKGFDKYEEAFELMRAGKTG 341
>2hth_B Vacuolar protein sorting protein 36; GLUE domain, PH domain, viral
budding, ubiquitin complex, protein transport; 2.70A
{Homo sapiens} SCOP: b.55.1.12 PDB: 2dx5_A
Length = 140
Score = 24.7 bits (53), Expect = 9.0
Identities = 5/22 (22%), Positives = 11/22 (50%)
Query: 107 EAVRLASGLAESPYQKGLVVLT 128
VR+ G + + G ++L+
Sbjct: 24 RGVRIYDGEEKIKFDAGTLLLS 45
Database: pdb70
Posted date: Sep 4, 2012 3:40 AM
Number of letters in database: 6,701,793
Number of sequences in database: 27,921
Lambda K H
0.321 0.138 0.392
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: 2,072,986
Number of extensions: 118408
Number of successful extensions: 352
Number of sequences better than 10.0: 1
Number of HSP's gapped: 333
Number of HSP's successfully gapped: 60
Length of query: 136
Length of database: 6,701,793
Length adjustment: 84
Effective length of query: 52
Effective length of database: 4,356,429
Effective search space: 226534308
Effective search space used: 226534308
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 52 (23.9 bits)