RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy17022
(287 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 = 172 bits (438), Expect = 6e-52
Identities = 64/185 (34%), Positives = 98/185 (52%), Gaps = 44/185 (23%)
Query: 1 MAGDFILAVACQMISRLRDNDVTLTLSQIMTDLVQGEFMQLGSKETENERFAHYLTKTYR 60
+AGDF+L+ AC ++ L++ +V L+ + LV GE M++ S + +Y+ KTY
Sbjct: 133 LAGDFLLSRACGALAALKNTEVVALLATAVEHLVTGETMEITSSTEQRYSMDYYMQKTYY 192
Query: 61 KTASLIANCVKAIMTDLVQGEFMQLGSKETENERFAHYLTKTYRKTASLIANCVKASAML 120
KTASLI+N C KA A+L
Sbjct: 193 KTASLISNS-------------------------------------------C-KAVAVL 208
Query: 121 GGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLATAPVLFACE 180
G +++ +AFEYGRNLG+AFQL+DD+LDF +S ++GK + +D++ G+ TAP+LFA E
Sbjct: 209 TGQTAEVAVLAFEYGRNLGLAFQLIDDILDFTGTSASLGKGSLSDIRHGVITAPILFAME 268
Query: 181 KSAML 185
+ L
Sbjct: 269 EFPQL 273
Score = 159 bits (405), Expect = 5e-47
Identities = 50/118 (42%), Positives = 86/118 (72%), Gaps = 3/118 (2%)
Query: 172 TAPVLFA--CEKSAMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAA 229
TA L + C+ A+L G +++ +AFEYGRNLG+AFQL+DD+LDF +S ++GK + +
Sbjct: 194 TA-SLISNSCKAVAVLTGQTAEVAVLAFEYGRNLGLAFQLIDDILDFTGTSASLGKGSLS 252
Query: 230 DLKLGLATAPVLFACEKFPELNPMIMRRFQEPGDVEKAFEFVHKSQGLEQTKFLARKH 287
D++ G+ TAP+LFA E+FP+L ++ + ++P +V+ A E++ KS+G+++ + LA +H
Sbjct: 253 DIRHGVITAPILFAMEEFPQLREVVDQVEKDPRNVDIALEYLGKSKGIQRARELAMEH 310
>3aqb_B Component B of hexaprenyl diphosphate synthase; prenyltransferase,
transferase; 2.40A {Micrococcus luteus} PDB: 3aqc_B*
Length = 325
Score = 124 bits (314), Expect = 8e-34
Identities = 38/182 (20%), Positives = 71/182 (39%), Gaps = 44/182 (24%)
Query: 1 MAGDFILAVACQMISRLRDNDVTLTLSQIMTDLVQGEFMQLGSKETENERFAHYLTKTYR 60
G F+LA A Q I+ + ++ S+ + ++ GEF Q+ +
Sbjct: 110 RTGHFLLARALQNIATINNSKFHQIFSKTILEVCFGEFDQMADRF--------------- 154
Query: 61 KTASLIANCVKAIMTDLVQGEFMQLGSKETENERFAHYLTKTYRKTASLIANCVKASAML 120
+ YL + RKTA LI A+
Sbjct: 155 ---------------NYPVSF--------------TAYLRRINRKTAILIEASCHLGALS 185
Query: 121 GGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLATAPVLFACE 180
D++ + ++G +G+++Q++DD+LD+ S +GKP +D++ G T P++ A
Sbjct: 186 SQLDEQSTYHIKQFGHCIGMSYQIIDDILDYTSDEATLGKPVGSDIRNGHITYPLMAAIA 245
Query: 181 KS 182
Sbjct: 246 NL 247
Score = 104 bits (261), Expect = 3e-26
Identities = 32/124 (25%), Positives = 61/124 (49%), Gaps = 9/124 (7%)
Query: 172 TAPVLF--ACEKSAMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAA 229
TA +L +C A+ D++ + ++G +G+++Q++DD+LD+ S +GKP +
Sbjct: 171 TA-ILIEASCHLGALSSQLDEQSTYHIKQFGHCIGMSYQIIDDILDYTSDEATLGKPVGS 229
Query: 230 DLKLGLATAPVLFACEKFPE-----LNPMIMRRFQEPGD-VEKAFEFVHKSQGLEQTKFL 283
D++ G T P++ A E L ++ D V + K G+E + L
Sbjct: 230 DIRNGHITYPLMAAIANLKEQDDDKLEAVVKHLTSTSDDEVYQYIVSQVKQYGIEPAELL 289
Query: 284 ARKH 287
+RK+
Sbjct: 290 SRKY 293
>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 (309), Expect = 7e-33
Identities = 49/223 (21%), Positives = 85/223 (38%), Gaps = 53/223 (23%)
Query: 1 MAGDFILAVACQMISRLRDNDVTLTLSQIMTDLVQGEFMQLGSKETENERFAHYLTKTYR 60
+AGD +LA A ++S+L D ++ +LV G+ +
Sbjct: 141 LAGDILLAHASGLMSQL-GTDTVAHFAETFGELVTGQMRET------------------- 180
Query: 61 KTASLIANCVKAIMTDLVQGEFMQLGSKETENERFAHYLTKTYRKTASLIANCVKASAML 120
+G ++T+ HY KT LIA+ AM
Sbjct: 181 ------------------------VGPRDTDPIE--HYTNVIREKTGVLIASAGYLGAMH 214
Query: 121 GGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLATAPVLFACE 180
GA + + +G +G+ FQ+VDD++D S + GK DL+ G+ T PVL+A
Sbjct: 215 AGAAPEHIDALKNFGAAVGMIFQIVDDIIDIFSETHESGKTPGTDLREGVFTLPVLYALR 274
Query: 181 KSAMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAM 223
+ +L ++ + V+ +L+ +S S
Sbjct: 275 EDT---PVGAELRDILTGPLEDDE----TVNHVLELLSQSGGR 310
Score = 108 bits (273), Expect = 1e-27
Identities = 33/122 (27%), Positives = 54/122 (44%), Gaps = 7/122 (5%)
Query: 172 TAPVLFA--CEKSAMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAA 229
T VL A AM GA + + +G +G+ FQ+VDD++D S + GK
Sbjct: 200 TG-VLIASAGYLGAMHAGAAPEHIDALKNFGAAVGMIFQIVDDIIDIFSETHESGKTPGT 258
Query: 230 DLKLGLATAPVLFA----CEKFPELNPMIMRRFQEPGDVEKAFEFVHKSQGLEQTKFLAR 285
DL+ G+ T PVL+A EL ++ ++ V E + +S G +
Sbjct: 259 DLREGVFTLPVLYALREDTPVGAELRDILTGPLEDDETVNHVLELLSQSGGRQAALDEVY 318
Query: 286 KH 287
++
Sbjct: 319 RY 320
>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 = 121 bits (307), Expect = 7e-33
Identities = 32/109 (29%), Positives = 52/109 (47%)
Query: 74 MTDLVQGEFMQLGSKETENERFAHYLTKTYRKTASLIANCVKASAMLGGADDKLSEVAFE 133
M ++QGE Q+ E+ YL + KTA L A A L GA + + +
Sbjct: 152 MHRILQGELHQMDLNYREDITLDAYLNEIAGKTAELFALSCYQGAQLAGAPQSVIDRTRD 211
Query: 134 YGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLATAPVLFACEKS 182
G +G A+Q++DD+LD+ KP DL+ G+ + P+L + +
Sbjct: 212 IGIAIGCAYQMLDDILDYAGDPKRTQKPVLEDLRSGVYSLPLLLSLSHA 260
Score = 115 bits (289), Expect = 3e-30
Identities = 31/120 (25%), Positives = 56/120 (46%), Gaps = 5/120 (4%)
Query: 172 TAPVLF--ACEKSAMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAA 229
TA LF +C + A L GA + + + G +G A+Q++DD+LD+ KP
Sbjct: 184 TA-ELFALSCYQGAQLAGAPQSVIDRTRDIGIAIGCAYQMLDDILDYAGDPKRTQKPVLE 242
Query: 230 DLKLGLATAPVLFACEKFP--ELNPMIMRRFQEPGDVEKAFEFVHKSQGLEQTKFLARKH 287
DL+ G+ + P+L + P + ++ D++ V + G+ K LA+ +
Sbjct: 243 DLRSGVYSLPLLLSLSHAPRDFHKLLKKKQAMTLEDIKHVQALVAQYDGVGAAKQLAQDY 302
>3oyr_A Trans-isoprenyl diphosphate synthase; isoprenyl synthase, PSI,
protein structure initiative; HET: IPE; 2.00A
{Caulobacter crescentus}
Length = 345
Score = 120 bits (302), Expect = 5e-32
Identities = 49/182 (26%), Positives = 72/182 (39%), Gaps = 44/182 (24%)
Query: 1 MAGDFILAVACQMISRLRDNDVTLTLSQIMTDLVQGEFMQLGSKETENERFAHYLTKTYR 60
+ GDF+ A A +++ L++ + +GE +QL
Sbjct: 131 LVGDFLFARAFELMVETNSMKALEILARASRVIAEGEVLQLMRSH--------------- 175
Query: 61 KTASLIANCVKAIMTDLVQGEFMQLGSKETENERFAHYLTKTYRKTASLIANCVKASAML 120
DL + A YL KTA L A +A A+
Sbjct: 176 ---------------DLNLSQ--------------AVYLEIIQAKTAELFAAASEAGAVS 206
Query: 121 GGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLATAPVLFACE 180
G D SE +YG NLG+AFQL DD LD+ +++ +GK D + G AT P+L A
Sbjct: 207 AGVDVAKSEALRDYGLNLGLAFQLADDALDYGGATETLGKNAGDDFREGKATLPLLLAIA 266
Query: 181 KS 182
+S
Sbjct: 267 RS 268
Score = 110 bits (277), Expect = 2e-28
Identities = 45/123 (36%), Positives = 60/123 (48%), Gaps = 8/123 (6%)
Query: 172 TAPVLF--ACEKSAMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAA 229
TA LF A E A+ G D SE +YG NLG+AFQL DD LD+ +++ +GK
Sbjct: 192 TA-ELFAAASEAGAVSAGVDVAKSEALRDYGLNLGLAFQLADDALDYGGATETLGKNAGD 250
Query: 230 DLKLGLATAPVLFACEKFPE-----LNPMIMRRFQEPGDVEKAFEFVHKSQGLEQTKFLA 284
D + G AT P+L A + I RR Q D +A E + S L+ T LA
Sbjct: 251 DFREGKATLPLLLAIARSGPREAEFWERAIGRREQTEADFRRARELIIGSGALDATLDLA 310
Query: 285 RKH 287
+
Sbjct: 311 ADY 313
>3rmg_A Octaprenyl-diphosphate synthase; structural genomics, protein
structure initiative, isoprene biosynthesis,
transferase; 2.30A {Bacteroides thetaiotaomicron}
Length = 334
Score = 116 bits (294), Expect = 6e-31
Identities = 41/181 (22%), Positives = 69/181 (38%), Gaps = 45/181 (24%)
Query: 2 AGDFILAVACQMISRLRDNDVTLTLSQIMTDLVQGEFMQLGSKETENERFAHYLTKTYRK 61
AGD++LA + + + ++ +S + L +GE +QL
Sbjct: 114 AGDYLLATSLVHAEQTNNYEIIRLVSSLGQKLAEGELLQL-------------------- 153
Query: 62 TASLIANCVKAIMTDLVQGEFMQLGSKETENERFAHYLTKTYRKTASLIANCVKASAMLG 121
+N + Y +KTA+L A C +A+A+
Sbjct: 154 -----SNVSNHSFS-------------------EEVYFDVIRKKTAALFAACAEAAALSV 189
Query: 122 GADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLATAPVLFACEK 181
++ A G +GI FQ+ DD+ D+ S +GKPT D+ G T P L+A
Sbjct: 190 QVGEEEVAFARLLGEYIGICFQIKDDIFDY-FDSKKIGKPTGNDMLEGKLTLPALYALNT 248
Query: 182 S 182
+
Sbjct: 249 T 249
Score = 105 bits (265), Expect = 9e-27
Identities = 32/123 (26%), Positives = 53/123 (43%), Gaps = 9/123 (7%)
Query: 172 TAPVLFA--CEKSAMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAA 229
TA LFA E +A+ ++ A G +GI FQ+ DD+ D+ S +GKPT
Sbjct: 174 TA-ALFAACAEAAALSVQVGEEEVAFARLLGEYIGICFQIKDDIFDY-FDSKKIGKPTGN 231
Query: 230 DLKLGLATAPVLFACEKFPE-----LNPMIMRRFQEPGDVEKAFEFVHKSQGLEQTKFLA 284
D+ G T P L+A + + + P ++ + EF + G+E
Sbjct: 232 DMLEGKLTLPALYALNTTKDAWAEQIAFKVKEGTATPDEIVRLIEFTKDNGGIEYACRTI 291
Query: 285 RKH 287
++
Sbjct: 292 EQY 294
>3mzv_A Decaprenyl diphosphate synthase; transferase, structural genomics,
PSI-2, protein structure initiative; 1.90A {Rhodobacter
capsulatus}
Length = 341
Score = 116 bits (294), Expect = 7e-31
Identities = 47/222 (21%), Positives = 82/222 (36%), Gaps = 50/222 (22%)
Query: 2 AGDFILAVACQMISRLRDNDVTLTLSQIMTDLVQGEFMQLGSKETENERFAHYLTKTYRK 61
GD++ A + Q+++ + V L+ + +GE +QL +
Sbjct: 120 VGDYLFARSFQLMTDTGNMRVMEILANASAVIAEGEVLQL-----TAAQ----------- 163
Query: 62 TASLIANCVKAIMTDLVQGEFMQLGSKETENERFAHYLTKTYRKTASLIANCVKASAMLG 121
+L E YL KTA+L + + ++G
Sbjct: 164 --------------NLATTE--------------DIYLRVIRGKTAALFSAATEVGGIIG 195
Query: 122 GADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLATAPVLFACEK 181
GA + + F+YG LGIAFQ+VDDLLD+ S +GK T D + T PV+ A
Sbjct: 196 GAPEDQVQALFDYGDALGIAFQIVDDLLDYGGKSAEIGKNTGDDFRERKLTMPVIKAVAL 255
Query: 182 SAMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAM 223
+ A+ + E ++ + ++ +
Sbjct: 256 A---DEAERAFWKRVIE---KGDQQDGDLEHAMALMTKHGTL 291
Score = 104 bits (262), Expect = 3e-26
Identities = 45/123 (36%), Positives = 61/123 (49%), Gaps = 8/123 (6%)
Query: 172 TAPVLF--ACEKSAMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAA 229
TA LF A E ++GGA + + F+YG LGIAFQ+VDDLLD+ S +GK T
Sbjct: 180 TA-ALFSAATEVGGIIGGAPEDQVQALFDYGDALGIAFQIVDDLLDYGGKSAEIGKNTGD 238
Query: 230 DLKLGLATAPVLFACEKFPE-----LNPMIMRRFQEPGDVEKAFEFVHKSQGLEQTKFLA 284
D + T PV+ A E +I + Q+ GD+E A + K LE T+ A
Sbjct: 239 DFRERKLTMPVIKAVALADEAERAFWKRVIEKGDQQDGDLEHAMALMTKHGTLEATRLAA 298
Query: 285 RKH 287
Sbjct: 299 IGW 301
>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 = 110 bits (278), Expect = 7e-29
Identities = 36/181 (19%), Positives = 67/181 (37%), Gaps = 49/181 (27%)
Query: 2 AGDFILAVACQMISRLRDNDVTLTLSQIMTDLVQGEFMQLGSKETENERFAHYLTKTYRK 61
AGD +L A + + +N + ++ + + E ++ S+
Sbjct: 108 AGDLVLVSAFHTVEEIGNNKLRRAFLNVIGKMSEAELIEQLSR----------------- 150
Query: 62 TASLIANCVKAIMTDLVQGEFMQLGSKETENERFAHYLTKTYRKTASLIANCVKASAMLG 121
T+ E YL K+ +L ++ A+L
Sbjct: 151 ------------------------YKPITKEE----YLRIVEGKSGALFGLALQLPALLE 182
Query: 122 GADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLATAPVLFACEK 181
G E + G +G +Q+ DD++DF + + +GK DLK G+A+ P++ A EK
Sbjct: 183 GEL---GEDLYNLGVTIGTIYQMFDDIMDF-AGMEKIGKDGFLDLKNGVASFPLVTAMEK 238
Query: 182 S 182
Sbjct: 239 F 239
Score = 99.3 bits (248), Expect = 1e-24
Identities = 33/118 (27%), Positives = 55/118 (46%), Gaps = 12/118 (10%)
Query: 172 TAPVLF--ACEKSAMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAA 229
+ LF A + A+L G E + G +G +Q+ DD++DF + + +GK
Sbjct: 167 SG-ALFGLALQLPALLEGEL---GEDLYNLGVTIGTIYQMFDDIMDF-AGMEKIGKDGFL 221
Query: 230 DLKLGLATAPVLFACEKFPELNPMIMRRFQEPGDVEKAFEFVHKSQGLEQTKFLARKH 287
DLK G+A+ P++ A EKFPE M R D F+ + L++ + +
Sbjct: 222 DLKNGVASFPLVTAMEKFPEARQMFENR-----DWSGLMSFMREKGILKECEETLKVL 274
>3tc1_A Octaprenyl pyrophosphate synthase; all alpha-helices fold,
transferase; 2.00A {Helicobacter pylori}
Length = 315
Score = 110 bits (277), Expect = 1e-28
Identities = 39/119 (32%), Positives = 57/119 (47%), Gaps = 3/119 (2%)
Query: 64 SLIANCVKAIMTDLVQGEFMQLGSKETENERFAHYLTKTYRKTASLIANCVKASAMLGGA 123
LIA + + L +GE + E N Y KTA I +K+ A+L
Sbjct: 121 ELIAQALSNAVLRLSRGEIEDVFVGECFNSDKQKYWRILEDKTAHFIEASLKSMAILLNK 180
Query: 124 DDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLATAPVLFACEKS 182
D +++ ++G N G+AFQ++DDLLD + +GKP +D K G T P L EK
Sbjct: 181 D---AKIYADFGLNFGMAFQIIDDLLDITQDAKTLGKPNFSDFKEGKTTLPYLLLYEKL 236
Score = 98.5 bits (246), Expect = 3e-24
Identities = 32/121 (26%), Positives = 57/121 (47%), Gaps = 9/121 (7%)
Query: 172 TAPVLF--ACEKSAMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAA 229
TA + + A+L D +++ ++G N G+AFQ++DDLLD + +GKP +
Sbjct: 163 TA-HFIEASLKSMAILLNKD---AKIYADFGLNFGMAFQIIDDLLDITQDAKTLGKPNFS 218
Query: 230 DLKLGLATAPVLFACEKFPELNPMIMRRF---QEPGDVEKAFEFVHKSQGLEQTKFLARK 286
D K G T P L EK + + ++ + +E E + +E+T A+
Sbjct: 219 DFKEGKTTLPYLLLYEKLNQHDQGLLISYFKQDSHEIIEWTKEKFKQYGIIEETLKTAQV 278
Query: 287 H 287
+
Sbjct: 279 Y 279
>3ipi_A Geranyltranstransferase; isoprene biosynthesis, helical bundle,
protein structure initiative II (PSI II), structural
genomics, nysgxrc; 1.90A {Methanosarcina mazei}
Length = 295
Score = 105 bits (263), Expect = 8e-27
Identities = 39/181 (21%), Positives = 63/181 (34%), Gaps = 52/181 (28%)
Query: 2 AGDFILAVACQMISRLRDNDVTLTLSQIMTDLVQGEFMQLGSKETENERFAHYLTKTYRK 61
GD+++A + IS V + D+ +GE + L ++
Sbjct: 109 CGDYLIAKSIAFISPY-GEKVIQDFGKAGMDMAEGEVLDLKLEDES-------------- 153
Query: 62 TASLIANCVKAIMTDLVQGEFMQLGSKETENERFAHYLTKTYRKTASLIANCVKASAMLG 121
E Y Y+KTASL A A G
Sbjct: 154 ---------------------------FGE----NDYFKCIYKKTASLFAISASIGAYTG 182
Query: 122 GADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLATAPVLFACEK 181
GA+++L+E +G LG A+Q+VDD+L+F + + K T P ++
Sbjct: 183 GAEEELAERFSHFGNALGTAYQIVDDILEF------LEVVEGKESKFTSETLPHIYMKST 236
Query: 182 S 182
S
Sbjct: 237 S 237
Score = 77.3 bits (191), Expect = 1e-16
Identities = 27/118 (22%), Positives = 47/118 (39%), Gaps = 11/118 (9%)
Query: 172 TAPVLF--ACEKSAMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAA 229
TA LF + A GGA+++L+E +G LG A+Q+VDD+L+F +
Sbjct: 167 TA-SLFAISASIGAYTGGAEEELAERFSHFGNALGTAYQIVDDILEF------LEVVEGK 219
Query: 230 DLKLGLATAPVLFACEKFPE--LNPMIMRRFQEPGDVEKAFEFVHKSQGLEQTKFLAR 285
+ K T P ++ E L I ++ E + ++ +
Sbjct: 220 ESKFTSETLPHIYMKSTSKEEALKKSIDCVKLHVAAAKETLETFRECPARDKLFQITD 277
>3nf2_A Putative polyprenyl synthetase; isoprenyl diphosphate synthase,
structural genomics, PSI, PR structure initiative,
nysgrc; 2.20A {Streptomyces coelicolor}
Length = 352
Score = 105 bits (264), Expect = 2e-26
Identities = 40/139 (28%), Positives = 65/139 (46%), Gaps = 3/139 (2%)
Query: 75 TDLVQGEFMQLGSKETENERFAHYLTKTYRKTASLIANCVKASAMLGGADDKLSEVAFEY 134
L+ G+ + + + L KT +L+A A+LGGAD++ ++ +Y
Sbjct: 153 RSLIDGQAQDISYEHRDRVSVEECLEMEGNKTGALLACASSIGAVLGGADERTADTLEKY 212
Query: 135 GRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLATAPVLFACEKSAMLGGADDKLSE 194
G +LG+AFQ VDDLL DA GK T +DL+ + PV+ A G A ++L E
Sbjct: 213 GYHLGLAFQAVDDLLGIWGDPDATGKQTWSDLRQRKKSLPVVAALAAG---GAASERLGE 269
Query: 195 VAFEYGRNLGIAFQLVDDL 213
+ + A ++
Sbjct: 270 ILTADAKASDFANFSEEEF 288
Score = 90.1 bits (224), Expect = 6e-21
Identities = 36/129 (27%), Positives = 53/129 (41%), Gaps = 14/129 (10%)
Query: 172 TAPVLF--ACEKSAMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAA 229
T L A A+LGGAD++ ++ +YG +LG+AFQ VDDLL DA GK T +
Sbjct: 184 TG-ALLACASSIGAVLGGADERTADTLEKYGYHLGLAFQAVDDLLGIWGDPDATGKQTWS 242
Query: 230 DLKLGLATAPVLFACEK-----------FPELNPMIMRRFQEPGDVEKAFEFVHKSQGLE 278
DL+ + PV+ A + + ++ G E
Sbjct: 243 DLRQRKKSLPVVAALAAGGAASERLGEILTADAKASDFANFSEEEFAARAALIEEAGGRE 302
Query: 279 QTKFLARKH 287
T AR+
Sbjct: 303 WTADEARRQ 311
>2azj_A Geranylgeranyl pyrophosphate synthetase; hexpps,
trans-prenyltransferase; 2.40A {Sulfolobus solfataricus}
PDB: 2azk_A
Length = 289
Score = 103 bits (259), Expect = 3e-26
Identities = 31/228 (13%), Positives = 60/228 (26%), Gaps = 59/228 (25%)
Query: 2 AGDFILAVACQMISRLRDNDVTLTLSQIMTDLVQGEFMQLGSKETENERFAHYLTKTYRK 61
++++ A ++I +D T ++ D G +
Sbjct: 116 ITNYLIPTALRIIQTSYGDDALNTSIELWKDTSVGALRDMYDNSD--------------- 160
Query: 62 TASLIANCVKAIMTDLVQGEFMQLGSKETENERFAHYLTKTYRKTASLIANCVKASAMLG 121
Y+ KT SL SA
Sbjct: 161 ------------------------------------YIRTIELKTGSLFKLSTVLSAYAS 184
Query: 122 GADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSS----DAMGKPTAADLKLGLATAPVLF 177
+ + + G+ LGI +Q++DD +D+ + D K + G V
Sbjct: 185 KHYNTK-QQMLDVGKYLGIIYQVIDDFVDYKTKKVEEIDGSAKQLFKYYREGKLEEYVRS 243
Query: 178 ACEKSAMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGK 225
+ D+L + L L + L + + + K
Sbjct: 244 VYLEY---KQKYDELISNIPFQSKYLSEIRSLPEFLANGLLKEANIDK 288
Score = 79.7 bits (197), Expect = 2e-17
Identities = 20/117 (17%), Positives = 40/117 (34%), Gaps = 12/117 (10%)
Query: 172 TAPVLF--ACEKSAMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSS----DAMGK 225
T LF + SA + + + G+ LGI +Q++DD +D+ + D K
Sbjct: 169 TG-SLFKLSTVLSAYASKHYNTK-QQMLDVGKYLGIIYQVIDDFVDYKTKKVEEIDGSAK 226
Query: 226 PTAADLKLGLATAPVLFACEKFPELNPMIMRRFQEPG----DVEKAFEFVHKSQGLE 278
+ G V ++ + ++ ++ EF+ E
Sbjct: 227 QLFKYYREGKLEEYVRSVYLEYKQKYDELISNIPFQSKYLSEIRSLPEFLANGLLKE 283
>1wy0_A Geranylgeranyl pyrophosphate synthetase; pyrococcus horikosh
structural genomics, riken structural
genomics/proteomics initiative, RSGI; 2.20A {Pyrococcus
horikoshii}
Length = 342
Score = 104 bits (262), Expect = 3e-26
Identities = 34/182 (18%), Positives = 69/182 (37%), Gaps = 41/182 (22%)
Query: 2 AGDFILAVACQMISRL-RDNDVTLTLSQIMTDLVQGEFMQLGSKETENERFAHYLTKTYR 60
AGD + + A + ++R + + +++
Sbjct: 113 AGDLLFSKAFEAVARAEIPPEKKARVLEVIVK---------------------------- 144
Query: 61 KTASLIANCVKAIMTDLVQGEFMQLGSKETENERFAHYLTKTYRKTASLIANCVKASAML 120
++ + +G+ L ++ Y+ KT +L K ++
Sbjct: 145 -ASNELC-----------EGQARDLEFEKKSTVTIEEYMEMISGKTGALFEASAKVGGII 192
Query: 121 GGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLATAPVLFACE 180
G +++ + +GRN+GIAFQ+ DD+LD I+ +GKP +D++ G T V E
Sbjct: 193 GTDNEEYIKALSSWGRNVGIAFQIWDDVLDLIADEKKLGKPVGSDIRKGKKTLIVAHFFE 252
Query: 181 KS 182
+
Sbjct: 253 NA 254
Score = 92.7 bits (231), Expect = 7e-22
Identities = 30/134 (22%), Positives = 57/134 (42%), Gaps = 19/134 (14%)
Query: 172 TAPVLF--ACEKSAMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAA 229
T LF + + ++G +++ + +GRN+GIAFQ+ DD+LD I+ +GKP +
Sbjct: 178 TG-ALFEASAKVGGIIGTDNEEYIKALSSWGRNVGIAFQIWDDVLDLIADEKKLGKPVGS 236
Query: 230 DLKLGLATAPVLFACEK----------------FPELNPMIMRRFQEPGDVEKAFEFVHK 273
D++ G T V E ++ + DV +A + + K
Sbjct: 237 DIRKGKKTLIVAHFFENADEKDKQRFLKIFGKYAGDVKGRGIIEEDIKSDVMEAIDLLKK 296
Query: 274 SQGLEQTKFLARKH 287
++ +A+
Sbjct: 297 YGSIDYAAEIAKDM 310
>4dhd_A Polyprenyl synthetase; isoprenoid synthesis, isoprenoid diphosphate
synthase, trans; 1.65A {Pyrobaculum calidifontis}
Length = 358
Score = 103 bits (260), Expect = 5e-26
Identities = 29/183 (15%), Positives = 56/183 (30%), Gaps = 33/183 (18%)
Query: 2 AGDFILAVACQMISRLRDNDVTL-TLSQIMTDLVQGEFMQLGSKETENERFAHYLTKTYR 60
G + + + + +++++ + +GE + + + +
Sbjct: 112 VGIWYREAIEEAVLDTPKPTLFAKEVAEVIKAIDEGERLDILFEAAGRSDPYFVQARWRE 171
Query: 61 KTASLIANCVKAIMTDLVQGEFMQLGSKETENERFAHYLTKTYRKTASLIANCVKASAML 120
T Y+ KT +LIA K +
Sbjct: 172 VT--------------------------------LDDYIKMVSLKTGALIAAAAKWGVLS 199
Query: 121 GGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLATAPVLFACE 180
D L+E A+ +G G+AFQ++DD+LD GK D+K V+
Sbjct: 200 VSDDRGLAEAAWNFGMAAGVAFQIIDDVLDIYGDPKKFGKEIGKDIKEHKRGNAVVAVAL 259
Query: 181 KSA 183
Sbjct: 260 SHL 262
Score = 95.5 bits (238), Expect = 7e-23
Identities = 30/124 (24%), Positives = 49/124 (39%), Gaps = 9/124 (7%)
Query: 172 TAPVLF--ACEKSAMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAA 229
T L A + + D L+E A+ +G G+AFQ++DD+LD GK
Sbjct: 185 TG-ALIAAAAKWGVLSVSDDRGLAEAAWNFGMAAGVAFQIIDDVLDIYGDPKKFGKEIGK 243
Query: 230 DLKLGLATAPVLFAC------EKFPELNPMIMRRFQEPGDVEKAFEFVHKSQGLEQTKFL 283
D+K V+ + L ++ R E DV +A + E+ L
Sbjct: 244 DIKEHKRGNAVVAVALSHLGEGERRRLLEILAREVVEEADVREAVALLDSVGAREEALRL 303
Query: 284 ARKH 287
A ++
Sbjct: 304 AARY 307
>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 = 94.2 bits (235), Expect = 1e-22
Identities = 27/181 (14%), Positives = 50/181 (27%), Gaps = 47/181 (25%)
Query: 2 AGDFILAVACQMISRLRDNDVTLTLSQIMTDLVQGEFMQLGSKETENERFAHYLTKTYRK 61
+ +++ + + + L D ++ + +L QG+ + +
Sbjct: 92 SANYVYFLGLEKVLTLDHPDAVKLFTRQLLELHQGQGLDI-------------------- 131
Query: 62 TASLIANCVKAIMTDLVQGEFMQLGSKETENERFAHYLTKTYRKTASLIANCVKASAMLG 121
TE E Y +KT L V +
Sbjct: 132 -----YWRDNYTCP--------------TEEE----YKAMVLQKTGGLFGLAVGLMQLFS 168
Query: 122 GADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLATAPVLFACEK 181
+ L LG+ FQ+ DD + S + K DL G + P + A
Sbjct: 169 DYKEDLKP----LLNTLGLFFQIRDDYANLHSKEYSENKSFCEDLTEGKFSFPTIHAIWS 224
Query: 182 S 182
Sbjct: 225 R 225
Score = 84.2 bits (209), Expect = 4e-19
Identities = 23/121 (19%), Positives = 42/121 (34%), Gaps = 10/121 (8%)
Query: 172 TAPVLF--ACEKSAMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAA 229
T LF A + + L LG+ FQ+ DD + S + K
Sbjct: 153 TG-GLFGLAVGLMQLFSDYKEDLKP----LLNTLGLFFQIRDDYANLHSKEYSENKSFCE 207
Query: 230 DLKLGLATAPVLFACEKFPE---LNPMIMRRFQEPGDVEKAFEFVHKSQGLEQTKFLARK 286
DL G + P + A PE + ++ +R + + ++ E T+ ++
Sbjct: 208 DLTEGKFSFPTIHAIWSRPESTQVQNILRQRTENIDIKKYCVHYLEDVGSFEYTRNTLKE 267
Query: 287 H 287
Sbjct: 268 L 268
>3lk5_A Geranylgeranyl pyrophosphate synthase; structural genomics, protein
structure initiative, geranylge pyrophosphate synthase;
1.90A {Corynebacterium glutamicum} PDB: 3qqv_A*
Length = 380
Score = 92.1 bits (229), Expect = 1e-21
Identities = 31/109 (28%), Positives = 52/109 (47%), Gaps = 1/109 (0%)
Query: 75 TDLVQGEFMQLGSKETENERFAHYLTKTYRKTAS-LIANCVKASAMLGGADDKLSEVAFE 133
T+++ G+ + + + NE + KTA+ IA + A + G +L +
Sbjct: 185 TEVIGGQLLDIYLESHANESVELADSVNRFKTAAYTIARPLHLGASIAGGSPQLIDALLH 244
Query: 134 YGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLATAPVLFACEKS 182
YG ++GIAFQL DDLL GKP D++ G T + A +++
Sbjct: 245 YGHDIGIAFQLRDDLLGVFGDPAITGKPAGDDIREGKRTVLLALALQRA 293
Score = 82.5 bits (204), Expect = 4e-18
Identities = 29/125 (23%), Positives = 49/125 (39%), Gaps = 9/125 (7%)
Query: 172 TAPVLF--ACEKSAMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAA 229
TA A + G +L + YG ++GIAFQL DDLL GKP
Sbjct: 216 TAAYTIARPLHLGASIAGGSPQLIDALLHYGHDIGIAFQLRDDLLGVFGDPAITGKPAGD 275
Query: 230 DLKLGLATAPVLFACEKFPELNP-------MIMRRFQEPGDVEKAFEFVHKSQGLEQTKF 282
D++ G T + A ++ + +P + + P D+ E + + E+ +
Sbjct: 276 DIREGKRTVLLALALQRADKQSPEAATAIRAGVGKVTSPEDIAVITEHIRATGAEEEVEQ 335
Query: 283 LARKH 287
+
Sbjct: 336 RISQL 340
>4fp4_A Polyprenyl synthetase; isoprenoid synthesis, isoprenoid diphosphate
synthase, trans; HET: GER UNL; 2.00A {Pyrobaculum
calidifontis}
Length = 285
Score = 89.7 bits (223), Expect = 3e-21
Identities = 24/106 (22%), Positives = 38/106 (35%), Gaps = 13/106 (12%)
Query: 77 LVQGEFMQLGSKETENERFAHYLTKTYRKTASLIANCVKASAMLGGADDKLSEVAFEYGR 136
L G+ + L E E KTA LI + ++ G + + E A + G
Sbjct: 145 LSVGQALDL-----EGE----RDKAAEFKTAPLIEAALVMPLVILGRRELI-ETAKKLGT 194
Query: 137 NLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLATAPVLFACEKS 182
LGI +Q DD D + K A + +G + +
Sbjct: 195 KLGILYQYSDDYSD-ENVERPETKSIANE--IGRYLLKIKEHVGDA 237
Score = 72.4 bits (178), Expect = 6e-15
Identities = 20/117 (17%), Positives = 34/117 (29%), Gaps = 8/117 (6%)
Query: 172 TAPVLF--ACEKSAMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAA 229
TA L A ++ G + + E A + G LGI +Q DD D + K A
Sbjct: 165 TA-PLIEAALVMPLVILGRRELI-ETAKKLGTKLGILYQYSDDYSD-ENVERPETKSIAN 221
Query: 230 DLKLGLATAPVLFACEK-FPELNPMIMRRFQEPGDVEKAFEFVHKSQGLEQTKFLAR 285
+ +G + +I + + Q+
Sbjct: 222 E--IGRYLLKIKEHVGDAIAPFERLIKYLIGKALEGTLTVSRTIAENLYFQSHHHHH 276
>1wmw_A Geranylgeranyl diphosphate synthetase; GGPP, prenyl diphosphate
synthase, structural genom riken structural
genomics/proteomics initiative; 1.55A {Thermus
thermophilus}
Length = 330
Score = 87.4 bits (217), Expect = 5e-20
Identities = 32/111 (28%), Positives = 46/111 (41%), Gaps = 6/111 (5%)
Query: 75 TDLVQGEFMQLG--SKETENERFAHYLTKTYRKTASLIAN-CVKASAMLGGADDKLSEVA 131
G+ + L T + R Y K A A ++ A+L G
Sbjct: 140 RRTAYGQHLDLLWTLGGTFDLRPEDYFRMVAHKAAYYTAVAPLRLGALLAGKTPP--AAY 197
Query: 132 FEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLATAPVLFACEKS 182
E G LG AFQ+VDD+L+ + +A GK A DL G T +L E++
Sbjct: 198 EEGGLRLGTAFQIVDDVLN-LEGGEAYGKERAGDLYEGKRTLILLRFLEEA 247
Score = 79.3 bits (196), Expect = 3e-17
Identities = 32/126 (25%), Positives = 46/126 (36%), Gaps = 14/126 (11%)
Query: 172 TAPVLF---ACEKSAMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTA 228
A A+L G E G LG AFQ+VDD+L+ + +A GK A
Sbjct: 173 AA-YYTAVAPLRLGALLAGKTPP--AAYEEGGLRLGTAFQIVDDVLN-LEGGEAYGKERA 228
Query: 229 ADLKLGLATAPVLFACEKFPELNPMIMRR-------FQEPGDVEKAFEFVHKSQGLEQTK 281
DL G T +L E+ P + +V E + S+ L K
Sbjct: 229 GDLYEGKRTLILLRFLEEAPPEERARALALLALPREAKPEAEVGWLLERLLASRALAWAK 288
Query: 282 FLARKH 287
A++
Sbjct: 289 AEAKRL 294
>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 = 84.0 bits (208), Expect = 9e-19
Identities = 28/195 (14%), Positives = 60/195 (30%), Gaps = 47/195 (24%)
Query: 2 AGDFILAVACQMISRLRDNDVTLT-----LSQIMTDLVQGEFMQLGSKETENERFAHYLT 56
+++ A Q++S+L + ++ + +L +G+ + + ++ E
Sbjct: 107 TANYMYFRAMQLVSQLTTKEPLYHNLITIFNEELINLHRGQGLDIYWRDFLPE------- 159
Query: 57 KTYRKTASLIANCVKAIMTDLVQGEFMQLGSKETENERFAHYLTKTYRKTASLIANCVKA 116
T+ YL KT L ++
Sbjct: 160 -----------IIP-------------------TQEM----YLNMVMNKTGGLFRLTLRL 185
Query: 117 SAMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLATAPVL 176
L + + LGI +Q+ DD L+ + K A D+ G + P++
Sbjct: 186 MEALSPSSHH-GHSLVPFINLLGIIYQIRDDYLNLKDFQMSSEKGFAEDITEGKLSFPIV 244
Query: 177 FACEKSAMLGGADDK 191
A + G +
Sbjct: 245 HALNFTKTKGQTEQH 259
Score = 69.0 bits (169), Expect = 2e-13
Identities = 21/128 (16%), Positives = 36/128 (28%), Gaps = 14/128 (10%)
Query: 172 TAPVLF--ACEKSAMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAA 229
T LF L + + LGI +Q+ DD L+ + K A
Sbjct: 175 TG-GLFRLTLRLMEALSPSSHH-GHSLVPFINLLGIIYQIRDDYLNLKDFQMSSEKGFAE 232
Query: 230 DLKLGLATAPVLFACEKFPELNPMIMRRF------QEPGDVEKAFEFV----HKSQGLEQ 279
D+ G + P++ A D + + + + L
Sbjct: 233 DITEGKLSFPIVHALNFTKTKGQTEQHNEILRILLLRTSDKDIKLKLIQILEFDTNSLAY 292
Query: 280 TKFLARKH 287
TK +
Sbjct: 293 TKNFINQL 300
>1rtr_A Geranyltranstransferase; 2.50A {Staphylococcus aureus} SCOP:
a.128.1.1
Length = 301
Score = 80.7 bits (200), Expect = 7e-18
Identities = 24/79 (30%), Positives = 38/79 (48%)
Query: 104 RKTASLIANCVKASAMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTA 163
KT +L+ V ++A + DD E Y +LG+ FQ+ DDLLD +GK
Sbjct: 176 TKTGALLTFAVMSAADIANVDDTTKEHLESYSYHLGMMFQIKDDLLDCYGDEAKLGKKVG 235
Query: 164 ADLKLGLATAPVLFACEKS 182
+DL+ +T L + +
Sbjct: 236 SDLENNKSTYVSLLGKDGA 254
Score = 69.9 bits (172), Expect = 5e-14
Identities = 22/70 (31%), Positives = 32/70 (45%)
Query: 177 FACEKSAMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLA 236
FA +A + DD E Y +LG+ FQ+ DDLLD +GK +DL+ +
Sbjct: 184 FAVMSAADIANVDDTTKEHLESYSYHLGMMFQIKDDLLDCYGDEAKLGKKVGSDLENNKS 243
Query: 237 TAPVLFACEK 246
T L +
Sbjct: 244 TYVSLLGKDG 253
>3uca_A Geranyltranstransferase; isoprenoid synthesis, isoprenoid
diphosphate synthase; 2.00A {Clostridium perfringens}
Length = 324
Score = 81.2 bits (201), Expect = 8e-18
Identities = 25/115 (21%), Positives = 49/115 (42%), Gaps = 5/115 (4%)
Query: 104 RKTASLIANCVKASAMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTA 163
+KT LI + + A+L A + + +G LG+AFQ+ DD+LD + ++ +GK
Sbjct: 209 KKTGELIKASIMSGAVLAEASEGDIKKLEGFGYKLGLAFQIKDDILDVVGNAKDLGKNVH 268
Query: 164 ADLKLGLATAPVLFACEKS-AMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFI 217
D + +F E+ ++E E ++ + + L +
Sbjct: 269 KDQESNKNNYITIFGLEECKKKC----VNITEECIEILSSIKGNTEPLKVLTMKL 319
Score = 70.0 bits (172), Expect = 6e-14
Identities = 18/70 (25%), Positives = 33/70 (47%)
Query: 177 FACEKSAMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLA 236
+ A+L A + + +G LG+AFQ+ DD+LD + ++ +GK D +
Sbjct: 217 ASIMSGAVLAEASEGDIKKLEGFGYKLGLAFQIKDDILDVVGNAKDLGKNVHKDQESNKN 276
Query: 237 TAPVLFACEK 246
+F E+
Sbjct: 277 NYITIFGLEE 286
>2h8o_A Geranyltranstransferase; geranyltransferase,agrobacterium
tumefaciens, structural GEN PSI-2, protein structure
initiative; 1.60A {Agrobacterium tumefaciens}
Length = 335
Score = 80.8 bits (200), Expect = 9e-18
Identities = 24/79 (30%), Positives = 39/79 (49%)
Query: 104 RKTASLIANCVKASAMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTA 163
KT +L+ +A A++ G++ + +G +G++FQL DDLLD + + MGK T
Sbjct: 220 MKTGALLRFACEAGAIIAGSNQAERQRLRLFGEKIGLSFQLADDLLDLTADAATMGKATG 279
Query: 164 ADLKLGLATAPVLFACEKS 182
D G T L +
Sbjct: 280 KDAARGKGTLVALRGEAWA 298
Score = 70.0 bits (172), Expect = 5e-14
Identities = 24/66 (36%), Positives = 35/66 (53%)
Query: 177 FACEKSAMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLA 236
FACE A++ G++ + +G +G++FQL DDLLD + + MGK T D G
Sbjct: 228 FACEAGAIIAGSNQAERQRLRLFGEKIGLSFQLADDLLDLTADAATMGKATGKDAARGKG 287
Query: 237 TAPVLF 242
T L
Sbjct: 288 TLVALR 293
>3p8l_A Geranyltranstransferase; isoprenyl synthase, structural genomics,
PSI, protein struct initiative, nysgrc; 2.00A
{Enterococcus faecalis}
Length = 302
Score = 79.2 bits (196), Expect = 2e-17
Identities = 23/79 (29%), Positives = 40/79 (50%)
Query: 104 RKTASLIANCVKASAMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTA 163
+KT +LI + A +L +++ + ++ + G+AFQ+ DDLLD S+ +GK
Sbjct: 184 KKTGALIEFALIAGGVLANQTEEVIGLLTQFAHHYGLAFQIRDDLLDATSTEADLGKKVG 243
Query: 164 ADLKLGLATAPVLFACEKS 182
D L +T P L +
Sbjct: 244 RDEALNKSTYPALLGIAGA 262
Score = 68.4 bits (168), Expect = 1e-13
Identities = 20/70 (28%), Positives = 33/70 (47%)
Query: 177 FACEKSAMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLA 236
FA +L +++ + ++ + G+AFQ+ DDLLD S+ +GK D L +
Sbjct: 192 FALIAGGVLANQTEEVIGLLTQFAHHYGLAFQIRDDLLDATSTEADLGKKVGRDEALNKS 251
Query: 237 TAPVLFACEK 246
T P L
Sbjct: 252 TYPALLGIAG 261
>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 = 78.8 bits (195), Expect = 4e-17
Identities = 25/79 (31%), Positives = 37/79 (46%)
Query: 104 RKTASLIANCVKASAMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTA 163
KT +L+ V+A +LG A + ++ G+AFQ+ DD+LD +SS MGK T
Sbjct: 183 EKTGALLHYAVQAGLILGQAPEAQWPAYLQFADAFGLAFQIYDDILDVVSSPAEMGKATQ 242
Query: 164 ADLKLGLATAPVLFACEKS 182
D T P +
Sbjct: 243 KDADEAKNTYPGKLGLIGA 261
Score = 67.7 bits (166), Expect = 3e-13
Identities = 21/66 (31%), Positives = 31/66 (46%)
Query: 177 FACEKSAMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLA 236
+A + +LG A + ++ G+AFQ+ DD+LD +SS MGK T D
Sbjct: 191 YAVQAGLILGQAPEAQWPAYLQFADAFGLAFQIYDDILDVVSSPAEMGKATQKDADEAKN 250
Query: 237 TAPVLF 242
T P
Sbjct: 251 TYPGKL 256
>3lom_A Geranyltranstransferase; geranyltransferase, structural genomics,
PSI, protein structure initiative, nysgrc; 2.30A
{Legionella pneumophila subsp}
Length = 313
Score = 75.7 bits (187), Expect = 5e-16
Identities = 20/80 (25%), Positives = 36/80 (45%), Gaps = 1/80 (1%)
Query: 104 RKTASLIANCVKASAMLGG-ADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPT 162
KT LI C + +++ YG+++G+ FQ+ DD LD + + +GK
Sbjct: 187 LKTGKLILACFEMVLAAQHEVSEQIKSALRTYGKHIGLVFQMQDDYLDLYAPTQILGKGR 246
Query: 163 AADLKLGLATAPVLFACEKS 182
++D T LF ++
Sbjct: 247 SSDQANQKTTFATLFNKQQL 266
Score = 65.3 bits (160), Expect = 2e-12
Identities = 16/67 (23%), Positives = 29/67 (43%), Gaps = 1/67 (1%)
Query: 177 FACEKSAMLGG-ADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGL 235
E +++ YG+++G+ FQ+ DD LD + + +GK ++D
Sbjct: 195 ACFEMVLAAQHEVSEQIKSALRTYGKHIGLVFQMQDDYLDLYAPTQILGKGRSSDQANQK 254
Query: 236 ATAPVLF 242
T LF
Sbjct: 255 TTFATLF 261
>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 = 75.3 bits (186), Expect = 6e-16
Identities = 25/80 (31%), Positives = 38/80 (47%), Gaps = 1/80 (1%)
Query: 104 RKTASLIANCVKASAMLGG-ADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPT 162
KT +LI V A+ G A+ + Y + +G+AFQ+ DD+LD S + +GK
Sbjct: 180 HKTGALIEASVILGALASGRAEKGELKALQTYAQAIGLAFQVQDDILDVESDTATLGKRQ 239
Query: 163 AADLKLGLATAPVLFACEKS 182
AD+ T P L +
Sbjct: 240 GADIARDKPTYPALLGLAAA 259
Score = 64.5 bits (158), Expect = 4e-12
Identities = 20/67 (29%), Positives = 32/67 (47%), Gaps = 1/67 (1%)
Query: 177 FACEKSAMLGG-ADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGL 235
+ A+ G A+ + Y + +G+AFQ+ DD+LD S + +GK AD+
Sbjct: 188 ASVILGALASGRAEKGELKALQTYAQAIGLAFQVQDDILDVESDTATLGKRQGADIARDK 247
Query: 236 ATAPVLF 242
T P L
Sbjct: 248 PTYPALL 254
>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 = 74.9 bits (185), Expect = 7e-16
Identities = 27/79 (34%), Positives = 38/79 (48%), Gaps = 3/79 (3%)
Query: 104 RKTASLIANCVKASAMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTA 163
KT +LI+ +A A+L GAD Y LG+AFQ+ DD+LD + +A GK
Sbjct: 177 GKTGALISFAAQAGAILAGADR---GPLTAYATALGLAFQIADDILDVEGNEEAAGKRLG 233
Query: 164 ADLKLGLATAPVLFACEKS 182
D + AT L +
Sbjct: 234 KDAEAHKATFVSLLGLAGA 252
Score = 64.2 bits (157), Expect = 4e-12
Identities = 24/66 (36%), Positives = 32/66 (48%), Gaps = 3/66 (4%)
Query: 177 FACEKSAMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLA 236
FA + A+L GAD Y LG+AFQ+ DD+LD + +A GK D + A
Sbjct: 185 FAAQAGAILAGADR---GPLTAYATALGLAFQIADDILDVEGNEEAAGKRLGKDAEAHKA 241
Query: 237 TAPVLF 242
T L
Sbjct: 242 TFVSLL 247
>3npk_A Geranyltranstransferase; isoprene biosynthesis, SGX, structural
genomics protein structure initiative; 1.50A
{Campylobacter jejuni}
Length = 291
Score = 75.0 bits (185), Expect = 8e-16
Identities = 24/79 (30%), Positives = 41/79 (51%), Gaps = 2/79 (2%)
Query: 104 RKTASLIANCVKASAMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTA 163
KTA LIA +K + +++ S ++ G LG+ FQ+ DD++D +S + GKPT
Sbjct: 173 HKTARLIAAALKMGCEICELNNEESNQIYKLGLKLGLIFQINDDIIDVTTSQEQSGKPTN 232
Query: 164 ADLKLGLATAPVLFACEKS 182
D + + L E++
Sbjct: 233 ND--IHKNSFVNLLGLEQA 249
Score = 64.2 bits (157), Expect = 4e-12
Identities = 20/69 (28%), Positives = 34/69 (49%), Gaps = 7/69 (10%)
Query: 177 FACEKSAMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLK---- 232
A + + +++ S ++ G LG+ FQ+ DD++D +S + GKPT D+
Sbjct: 181 AALKMGCEICELNNEESNQIYKLGLKLGLIFQINDDIIDVTTSQEQSGKPTNNDIHKNSF 240
Query: 233 ---LGLATA 238
LGL A
Sbjct: 241 VNLLGLEQA 249
>4f62_A Geranyltranstransferase; enzyme function initiative, structural
genomics; 2.10A {Marinomonas SP}
Length = 317
Score = 75.0 bits (185), Expect = 8e-16
Identities = 23/80 (28%), Positives = 39/80 (48%), Gaps = 1/80 (1%)
Query: 104 RKTASLIANCVKASAML-GGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPT 162
KT +LI V+ A+ G + Y +G+AFQ+ DD++D S ++ +GK
Sbjct: 179 HKTGALIKASVRMGALSTGQVKPEQLAKLDAYAHAIGLAFQVQDDIIDLTSDTETLGKTQ 238
Query: 163 AADLKLGLATAPVLFACEKS 182
+D + AT P L + +
Sbjct: 239 FSDAEANKATYPKLLGLDGA 258
Score = 64.6 bits (158), Expect = 4e-12
Identities = 18/67 (26%), Positives = 31/67 (46%), Gaps = 1/67 (1%)
Query: 177 FACEKSAML-GGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGL 235
+ A+ G + Y +G+AFQ+ DD++D S ++ +GK +D +
Sbjct: 187 ASVRMGALSTGQVKPEQLAKLDAYAHAIGLAFQVQDDIIDLTSDTETLGKTQFSDAEANK 246
Query: 236 ATAPVLF 242
AT P L
Sbjct: 247 ATYPKLL 253
>3ts7_A Geranyltranstransferase; isoprenoid synthesis, farnesyl diphosphate
synthase; 1.94A {Methylococcus capsulatus}
Length = 324
Score = 75.0 bits (185), Expect = 1e-15
Identities = 22/80 (27%), Positives = 36/80 (45%), Gaps = 1/80 (1%)
Query: 104 RKTASLIANCVKASAML-GGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPT 162
RKT +LI V+ + + G + + Y + +G+AFQ+ DD+LD S + +GK
Sbjct: 186 RKTGALIRASVRLACLARPGLPAEQFDRLDHYAKCIGLAFQIQDDILDEESDTQTLGKTR 245
Query: 163 AADLKLGLATAPVLFACEKS 182
D P L +
Sbjct: 246 GKDRDHNKPNYPALLGLSGA 265
Score = 64.2 bits (157), Expect = 5e-12
Identities = 16/67 (23%), Positives = 28/67 (41%), Gaps = 1/67 (1%)
Query: 177 FACEKSAML-GGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGL 235
+ + + G + + Y + +G+AFQ+ DD+LD S + +GK D
Sbjct: 194 ASVRLACLARPGLPAEQFDRLDHYAKCIGLAFQIQDDILDEESDTQTLGKTRGKDRDHNK 253
Query: 236 ATAPVLF 242
P L
Sbjct: 254 PNYPALL 260
>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 = 74.6 bits (184), Expect = 1e-15
Identities = 27/80 (33%), Positives = 44/80 (55%), Gaps = 1/80 (1%)
Query: 104 RKTASLIANCVKASAMLGG-ADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPT 162
KT +LI V+ A+ G + V +Y ++G+AFQ+ DD+LD + + +GK
Sbjct: 180 HKTGALIRAAVRLGALSAGDKGRRALPVLDKYAESIGLAFQVQDDILDVVGDTATLGKRQ 239
Query: 163 AADLKLGLATAPVLFACEKS 182
AD +LG +T P L E++
Sbjct: 240 GADQQLGKSTYPALLGLEQA 259
Score = 63.8 bits (156), Expect = 5e-12
Identities = 22/67 (32%), Positives = 35/67 (52%), Gaps = 1/67 (1%)
Query: 177 FACEKSAMLGG-ADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGL 235
A A+ G + V +Y ++G+AFQ+ DD+LD + + +GK AD +LG
Sbjct: 188 AAVRLGALSAGDKGRRALPVLDKYAESIGLAFQVQDDILDVVGDTATLGKRQGADQQLGK 247
Query: 236 ATAPVLF 242
+T P L
Sbjct: 248 STYPALL 254
>3p8r_A Geranyltranstransferase; isoprenyl synthase, structural genomics,
PSI, protein struct initiative, nysgrc; 2.50A {Vibrio
cholerae}
Length = 302
Score = 74.2 bits (183), Expect = 2e-15
Identities = 25/80 (31%), Positives = 43/80 (53%), Gaps = 1/80 (1%)
Query: 104 RKTASLIANCVKASAMLGGADDKLSEVAFE-YGRNLGIAFQLVDDLLDFISSSDAMGKPT 162
KT +L+ ++ A+ G + + Y +G+AFQ+ DD+LD IS ++ +GKP
Sbjct: 186 NKTGALMRCAIRLGALAAGEKGRAMLPHLDRYAEAVGLAFQVQDDILDIISDTETLGKPQ 245
Query: 163 AADLKLGLATAPVLFACEKS 182
+D +L +T P L E +
Sbjct: 246 GSDQELNKSTYPALLGLEGA 265
Score = 64.2 bits (157), Expect = 4e-12
Identities = 22/67 (32%), Positives = 35/67 (52%), Gaps = 1/67 (1%)
Query: 177 FACEKSAMLGGADDKLSEVAFE-YGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGL 235
A A+ G + + Y +G+AFQ+ DD+LD IS ++ +GKP +D +L
Sbjct: 194 CAIRLGALAAGEKGRAMLPHLDRYAEAVGLAFQVQDDILDIISDTETLGKPQGSDQELNK 253
Query: 236 ATAPVLF 242
+T P L
Sbjct: 254 STYPALL 260
>3llw_A Geranyltranstransferase (ISPA); structural genomics, PSI, protein
structure initiative, nysgrc; 2.30A {Helicobacter
pylori} PDB: 3q1o_A*
Length = 311
Score = 72.3 bits (178), Expect = 7e-15
Identities = 26/116 (22%), Positives = 48/116 (41%), Gaps = 8/116 (6%)
Query: 104 RKTASLIANCVKASAMLGGA-DDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPT 162
KTA LI+ + + G D++L + +G +G+ FQ++DD++D + GK T
Sbjct: 187 HKTAKLISASLIMGLVASGIKDEELFKWLQAFGLKMGLCFQVLDDIIDVTQDEEESGKTT 246
Query: 163 AADLKLGLATAPVLFACEKS-AMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFI 217
D + L E++ L L A+ L+ + L+ +
Sbjct: 247 HLD--SAKNSFVNLLGLERANNYA----QTLKTEVLNDLDALKPAYPLLQENLNAL 296
Score = 59.6 bits (145), Expect = 2e-10
Identities = 14/55 (25%), Positives = 27/55 (49%), Gaps = 1/55 (1%)
Query: 177 FACEKSAMLGGA-DDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAAD 230
+ + G D++L + +G +G+ FQ++DD++D + GK T D
Sbjct: 195 ASLIMGLVASGIKDEELFKWLQAFGLKMGLCFQVLDDIIDVTQDEEESGKTTHLD 249
>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 = 70.2 bits (172), Expect = 7e-14
Identities = 25/144 (17%), Positives = 48/144 (33%), Gaps = 11/144 (7%)
Query: 49 ERFAHYLTKTYRKTASLIANCVKA---IMTDLVQGEFMQLGSKETENERFAHYLTKTYR- 104
E + + K Y + + ++ G+ + L + +H+ + Y+
Sbjct: 150 ESSVYRVLKKYCRQRPYYVHLLELFLQTAYQTELGQMLDLITAPVSKVDLSHFSEERYKA 209
Query: 105 ----KTASL--IANCVKASAMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAM 158
KTA A M+G + E A +G FQ+ DD LD
Sbjct: 210 IVKYKTAFYSFYLPVAAAMYMVGIDSKEEHENAKAILLEMGEYFQIQDDYLDCFGDPALT 269
Query: 159 GKPTAADLKLGLATAPVLFACEKS 182
G D++ + V+ ++
Sbjct: 270 GA-VGTDIQDNKCSWLVVQCLQRV 292
Score = 64.4 bits (157), Expect = 5e-12
Identities = 21/108 (19%), Positives = 36/108 (33%), Gaps = 4/108 (3%)
Query: 183 AMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLATAPVLF 242
M+G + E A +G FQ+ DD LD G D++ + V+
Sbjct: 229 YMVGIDSKEEHENAKAILLEMGEYFQIQDDYLDCFGDPALTGA-VGTDIQDNKCSWLVVQ 287
Query: 243 ACEKF-PELNPMIMRRF--QEPGDVEKAFEFVHKSQGLEQTKFLARKH 287
++ PE ++ + +EP V K E +
Sbjct: 288 CLQRVTPEQRQLLEDNYGRKEPEKVAKVKELYEAVGMRAAFQQYEESS 335
>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 = 66.5 bits (162), Expect = 1e-12
Identities = 21/88 (23%), Positives = 32/88 (36%), Gaps = 4/88 (4%)
Query: 98 YLTKTYRKTASLIANCVKASAML---GGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISS 154
Y KTA ML D+ + + + +G FQ+ DD LD
Sbjct: 235 YKNIVIHKTAYYSFFLPIVCGMLLAGIAVDNLIYKKIEDISMLMGEYFQIHDDYLDIFGD 294
Query: 155 SDAMGKPTAADLKLGLATAPVLFACEKS 182
S GK +D++ T P++ E
Sbjct: 295 STKTGK-VGSDIQNNKLTWPLIKTFELC 321
Score = 58.4 bits (141), Expect = 5e-10
Identities = 20/117 (17%), Positives = 40/117 (34%), Gaps = 7/117 (5%)
Query: 177 FACEKSAML---GGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKL 233
F ML D+ + + + +G FQ+ DD LD S GK +D++
Sbjct: 249 FLPIVCGMLLAGIAVDNLIYKKIEDISMLMGEYFQIHDDYLDIFGDSTKTGK-VGSDIQN 307
Query: 234 GLATAPVLFACEKF-PELNPMIMRRF--QEPGDVEKAFEFVHKSQGLEQTKFLARKH 287
T P++ E I++ + V+ + + + + +
Sbjct: 308 NKLTWPLIKTFELCSEPDKIKIVKNYGKNNLACVKVIDSLYEQYKIRKHYESYEKAQ 364
>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 = 65.6 bits (160), Expect = 2e-12
Identities = 29/144 (20%), Positives = 51/144 (35%), Gaps = 11/144 (7%)
Query: 49 ERFAHYLTKTYRKTASLIANCVKA---IMTDLVQGEFMQLGSKETENERFAHYLTKTYR- 104
E + L K Y + N ++ G+ + L + N + K Y+
Sbjct: 157 EACIYRLLKLYCREQPYYLNLIELFLQSSYQTEIGQTLDLLTAPQGNVDLVRFTEKRYKS 216
Query: 105 ----KTASLIANCVKASAML--GGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAM 158
K+A A+AM G +K A + +G FQ+ DD LD
Sbjct: 217 IVKYKSAFYSFYLPIAAAMYMAGIDGEKEHANAKKILLEMGEFFQIQDDYLDLFGDPSVT 276
Query: 159 GKPTAADLKLGLATAPVLFACEKS 182
GK D++ + V+ +++
Sbjct: 277 GK-IGTDIQDNKCSWLVVQCLQRA 299
Score = 56.0 bits (135), Expect = 3e-09
Identities = 20/116 (17%), Positives = 38/116 (32%), Gaps = 6/116 (5%)
Query: 177 FACEKSAML--GGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLG 234
+ +AM G +K A + +G FQ+ DD LD GK D++
Sbjct: 228 YLPIAAAMYMAGIDGEKEHANAKKILLEMGEFFQIQDDYLDLFGDPSVTGK-IGTDIQDN 286
Query: 235 LATAPVLFACEKF-PELNPMIMRRF--QEPGDVEKAFEFVHKSQGLEQTKFLARKH 287
+ V+ ++ PE ++ + +E V + +
Sbjct: 287 KCSWLVVQCLQRATPEQYQILKENYGQKEAEKVARVKALYEELDLPAVFLQYEEDS 342
>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 = 62.9 bits (153), Expect = 1e-11
Identities = 17/105 (16%), Positives = 33/105 (31%), Gaps = 3/105 (2%)
Query: 80 GEFMQLGSKETENERFAHYLTKTYRKTASLIANCVKASAML--GGADDKLSEVAFEYGRN 137
E Q + + A Y KT + A +
Sbjct: 182 PEVAQPMTTDFAEFTPAIYKRIVKYKTTFYTYLLPLVMGLFVSEAAASVEMNLVERVAHL 241
Query: 138 LGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLATAPVLFACEKS 182
+G FQ+ DD++D + + +GK D++ + + K+
Sbjct: 242 IGEYFQVQDDVMDCFTPPEQLGK-VGTDIEDAKCSWLAVTFLGKA 285
Score = 54.0 bits (130), Expect = 1e-08
Identities = 11/64 (17%), Positives = 24/64 (37%), Gaps = 1/64 (1%)
Query: 183 AMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLATAPVLF 242
+ A + +G FQ+ DD++D + + +GK D++ + +
Sbjct: 222 FVSEAAASVEMNLVERVAHLIGEYFQVQDDVMDCFTPPEQLGK-VGTDIEDAKCSWLAVT 280
Query: 243 ACEK 246
K
Sbjct: 281 FLGK 284
>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 = 62.2 bits (152), Expect = 2e-11
Identities = 30/100 (30%), Positives = 49/100 (49%), Gaps = 11/100 (11%)
Query: 74 MTDLVQGEFMQLGSKETENERFAHYLTKTYRKTASLIANCVKASAMLGGADDKLSEVAFE 133
+ D+ E + L + E+ +F H KTA+L+ ++GG D+ E +
Sbjct: 167 VVDI-SSEGLDLNNVGLEHLKFIHLH-----KTAALLEASAVLGGIIGGGSDEEIERLRK 220
Query: 134 YGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLATA 173
+ R +G+ FQ+VDD+LD SS K T L +GL +
Sbjct: 221 FARCIGLLFQVVDDILDVTKSS----KLTYPKL-MGLEKS 255
Score = 53.0 bits (128), Expect = 3e-08
Identities = 20/62 (32%), Positives = 32/62 (51%), Gaps = 5/62 (8%)
Query: 177 FACEKSAMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLA 236
+ ++GG D+ E ++ R +G+ FQ+VDD+LD SS K T L +GL
Sbjct: 199 ASAVLGGIIGGGSDEEIERLRKFARCIGLLFQVVDDILDVTKSS----KLTYPKL-MGLE 253
Query: 237 TA 238
+
Sbjct: 254 KS 255
>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 = 62.6 bits (152), Expect = 2e-11
Identities = 17/106 (16%), Positives = 36/106 (33%), Gaps = 3/106 (2%)
Query: 79 QGEFMQLGSKETENERFAHYLTKTYRKTASLIANCVKASAML--GGADDKLSEVAFEYGR 136
+ Q + + ++Y KTA ++ V E
Sbjct: 209 DPDVSQPTTTDFAEFTLSNYKRIVKYKTAYYTYLLPLVMGLIVSEALPTVDMGVTEELAM 268
Query: 137 NLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLATAPVLFACEKS 182
+G FQ+ DD++D + + +GK D++ + + K+
Sbjct: 269 LMGEYFQVQDDVMDCFTPPERLGK-VGTDIQDAKCSWLAVTFLAKA 313
Score = 53.0 bits (127), Expect = 3e-08
Identities = 12/64 (18%), Positives = 24/64 (37%), Gaps = 1/64 (1%)
Query: 183 AMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLATAPVLF 242
+ V E +G FQ+ DD++D + + +GK D++ + +
Sbjct: 250 IVSEALPTVDMGVTEELAMLMGEYFQVQDDVMDCFTPPERLGK-VGTDIQDAKCSWLAVT 308
Query: 243 ACEK 246
K
Sbjct: 309 FLAK 312
>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 = 61.5 bits (150), Expect = 3e-11
Identities = 13/65 (20%), Positives = 24/65 (36%), Gaps = 1/65 (1%)
Query: 104 RKTASLIANCVKASAMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDA-MGKPT 162
+K +L A A+LGG D+ E +G +G L+ + +
Sbjct: 178 KKEGTLHACGAACGAILGGCDEDKIEKLRRFGLYVGTVQGLLGKNRSGFEGRIKELKELA 237
Query: 163 AADLK 167
+L+
Sbjct: 238 VKELE 242
Score = 50.4 bits (121), Expect = 1e-07
Identities = 10/57 (17%), Positives = 19/57 (33%), Gaps = 1/57 (1%)
Query: 177 FACEKSAMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDA-MGKPTAADLK 232
A+LGG D+ E +G +G L+ + + +L+
Sbjct: 186 CGAACGAILGGCDEDKIEKLRRFGLYVGTVQGLLGKNRSGFEGRIKELKELAVKELE 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 = 57.9 bits (140), Expect = 7e-10
Identities = 18/115 (15%), Positives = 35/115 (30%), Gaps = 10/115 (8%)
Query: 73 IMTDLVQGEFMQLGSKETENERF--AHYLTKTYRKTASL-IANCVKASAMLGG--ADDKL 127
+ V G+ + L + Y + KT+ V L
Sbjct: 176 SIFFTVLGQHLDLSYFDLSKADKISERYFSMVEMKTSRYTFYMPVFFGLTLSEIQVSSAQ 235
Query: 128 SEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLATAPVLFACEKS 182
+ LG +Q+ +D+ D++ A D+ T P+ + E +
Sbjct: 236 LNLIEAILYKLGEFYQVHNDVSDYLF-----NDSNADDICRFKLTWPLQKSFEIA 285
Score = 44.0 bits (104), Expect = 3e-05
Identities = 15/79 (18%), Positives = 25/79 (31%), Gaps = 11/79 (13%)
Query: 173 APVLFACEKSAMLGG--ADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAAD 230
PV F L + LG +Q+ +D+ D++ A D
Sbjct: 218 MPVFFG----LTLSEIQVSSAQLNLIEAILYKLGEFYQVHNDVSDYLF-----NDSNADD 268
Query: 231 LKLGLATAPVLFACEKFPE 249
+ T P+ + E E
Sbjct: 269 ICRFKLTWPLQKSFEIADE 287
>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 = 55.7 bits (135), Expect = 2e-09
Identities = 18/88 (20%), Positives = 34/88 (38%), Gaps = 14/88 (15%)
Query: 104 RKTASLIANCVKASAMLGGADDKLSEVAFEYGRNLGI---------AFQLVDDLLDFI-- 152
+K + A A+LGGA ++ + +G G + QL+D+ +
Sbjct: 177 KKYGEMHACGAACGAILGGAAEEEIQKLRNFGLYQGTLRGMMEMKNSHQLIDENIIGKLK 236
Query: 153 -SSSDAMGKPT--AADLKLGLATAPVLF 177
+ + +G A+L L P L+
Sbjct: 237 ELALEELGGFHGKNAELMSSLVAEPSLY 264
Score = 45.7 bits (109), Expect = 5e-06
Identities = 16/80 (20%), Positives = 30/80 (37%), Gaps = 14/80 (17%)
Query: 177 FACEKSAMLGGADDKLSEVAFEYGRNLGI---------AFQLVDDLLDFI---SSSDAMG 224
A+LGGA ++ + +G G + QL+D+ + + + +G
Sbjct: 185 CGAACGAILGGAAEEEIQKLRNFGLYQGTLRGMMEMKNSHQLIDENIIGKLKELALEELG 244
Query: 225 KPT--AADLKLGLATAPVLF 242
A+L L P L+
Sbjct: 245 GFHGKNAELMSSLVAEPSLY 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 = 50.2 bits (119), Expect = 2e-07
Identities = 29/105 (27%), Positives = 44/105 (41%), Gaps = 11/105 (10%)
Query: 77 LVQGEFMQLGSKETENERFAHYLTKTYRK-TASLIANCVKASAMLGGADDKLSEVAFEYG 135
L+ GE M + + E + + Y T +L A C A +L G D G
Sbjct: 146 LLLGEAMDVEFERRXMEVSQEMVERMYAFXTGALFAFCFSAPFILXGXDH---TXMXLLG 202
Query: 136 RNLGIAFQLVDDLLDFISSSDAMGKPTAADLK-------LGLATA 173
G+AFQ+ DDL D + S + +GK D + +G+ A
Sbjct: 203 EXFGVAFQIYDDLXDILGSFEKVGKDLGKDTEXVTLVXXVGIQXA 247
Score = 45.6 bits (107), Expect = 6e-06
Identities = 24/130 (18%), Positives = 44/130 (33%), Gaps = 12/130 (9%)
Query: 116 ASAMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLATAPV 175
A + + + F + + +D ++F + + + A
Sbjct: 123 AFSQISXIGNSXIFEEFSETAYXLLLGEAMD--VEFERRXMEVSQEMVERMYAFXTGALF 180
Query: 176 LFACEKSAMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFISSSDAMGKPTAADLK--- 232
F +L G D G G+AFQ+ DDL D + S + +GK D +
Sbjct: 181 AFCFSAPFILXGXDH---TXMXLLGEXFGVAFQIYDDLXDILGSFEKVGKDLGKDTEXVT 237
Query: 233 ----LGLATA 238
+G+ A
Sbjct: 238 LVXXVGIQXA 247
>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis,
programmed cell death; HET: DTP; 6.90A {Drosophila
melanogaster} PDB: 3iz8_A*
Length = 1221
Score = 43.3 bits (101), Expect = 6e-05
Identities = 21/147 (14%), Positives = 45/147 (30%), Gaps = 34/147 (23%)
Query: 9 VACQMISRLRDNDVTLTLSQIMTDLVQGEFMQLGSKETENERFAHYLTKTYRKTASLIAN 68
++C+++ R VT LS T + + + LT + SL+
Sbjct: 264 LSCKILLTTRFKQVTDFLSAATTTHISLDHHSMT------------LTP--DEVKSLLLK 309
Query: 69 CVKAIMTDL----VQGEFMQLG----SKETENERFAHYLTKTYRKTASLIANCVKASAML 120
+ DL + +L S + ++ K ++I + + L
Sbjct: 310 YLDCRPQDLPREVLTTNPRRLSIIAESIRDGLATWDNWKHVNCDKLTTIIESSLNV---L 366
Query: 121 GGADDKLSEVAFEYGRNLGIAFQLVDD 147
A+ + + L + F
Sbjct: 367 EPAEYR------KMFDRLSV-FP--PS 384
Score = 32.5 bits (73), Expect = 0.17
Identities = 26/171 (15%), Positives = 55/171 (32%), Gaps = 38/171 (22%)
Query: 12 QMISRLRDNDVTLTLSQIMTDLVQGEFMQLGSKET---------------ENERFAH-YL 55
++S + + + + ++ L + ++ KE+ ENE H +
Sbjct: 390 ILLSLIWFDVIKSDVMVVVNKLHKYSLVEKQPKESTISIPSIYLELKVKLENEYALHRSI 449
Query: 56 TKTYRKTASLIANCVKAIMTDLVQGEFMQ-LG--SKETENERFAHYLTKTY-------RK 105
Y + ++ + F +G K E+ + +K
Sbjct: 450 VDHYNIPKTF---DSDDLIPPYLDQYFYSHIGHHLKNIEHPERMTLFRMVFLDFRFLEQK 506
Query: 106 TASLIANCVKASAMLGGADDKLSEVAFEYGR----NLGIAFQLVDDLLDFI 152
I + A G + L ++ F Y N +LV+ +LDF+
Sbjct: 507 ----IRHDSTAWNASGSILNTLQQLKF-YKPYICDNDPKYERLVNAILDFL 552
Score = 28.3 bits (62), Expect = 4.2
Identities = 15/104 (14%), Positives = 36/104 (34%), Gaps = 31/104 (29%)
Query: 15 SRLRDNDVTLTLSQIMTDLVQGEFMQLGSKETENERFAHYLTK---TY-RKTASLI---- 66
++R + S + + +Q QL + + Y+ Y R +++
Sbjct: 505 QKIRHDSTAWNASGSILNTLQ----QL-------KFYKPYICDNDPKYERLVNAILDFLP 553
Query: 67 ---ANCVKAIMTDLVQGEFMQLGSKETENERFAHYLTKTYRKTA 107
N + + TDL++ M E+E + +++
Sbjct: 554 KIEENLICSKYTDLLRIALMA------EDE---AIFEEAHKQVQ 588
>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 = 31.6 bits (71), Expect = 0.40
Identities = 41/226 (18%), Positives = 69/226 (30%), Gaps = 76/226 (33%)
Query: 93 ERFAHYLTKTYRKTASLIANCVKASAMLGGADDKLSEVAFEYGRNLGIAFQLVDDLLDFI 152
E+F L + A ADD+ + A +LV L ++
Sbjct: 35 EQFNKILPEPTEGFA---------------ADDEPTTPA-----------ELVGKFLGYV 68
Query: 153 SSSDAMGKPTAAD--LKLGLATAPVLFACEKSAMLGGADDKLSEVAFEYGRNLGIAFQLV 210
SS K D L L L F ++ L G D + +A + +
Sbjct: 69 SSLVEPSKVGQFDQVLNLCLTE----F---ENCYLEGND--IHALAAKLLQENDTTLVKT 119
Query: 211 DDLL-DFISSSDAMGKPTAADLKLGLATAPV-----LFAC--------EKFPEL------ 250
+L+ ++I++ +P L A L A + F EL
Sbjct: 120 KELIKNYITARIMAKRPFDKKSNSALFRAVGEGNAQLVAIFGGQGNTDDYFEELRDLYQT 179
Query: 251 -NPMIMRRF------------QEPGDVEKAFEFVHKSQGLEQTKFL 283
+ ++ + D EK F +QGL ++L
Sbjct: 180 YHVLV-GDLIKFSAETLSELIRTTLDAEKVF-----TQGLNILEWL 219
Score = 28.1 bits (62), Expect = 4.2
Identities = 20/134 (14%), Positives = 41/134 (30%), Gaps = 42/134 (31%)
Query: 158 MGKPTAADLKLGLATAPV---LFACEKSAMLGGADDKLSEVAFEYGRNLGIAFQLVDDLL 214
MG DL T+ ++ + AD+ + YG F ++D ++
Sbjct: 1631 MGM----DL---YKTSKAAQDVW--NR------ADNHFKDT---YG------FSILDIVI 1666
Query: 215 DFISSSDAMGKPTAADLKLGLATAPVL------FACEKFPELNPMIMRRFQEPGDVEKAF 268
+ P + G + E + + F+E + ++
Sbjct: 1667 N---------NPVNLTIHFGGEKGKRIRENYSAMIFETIVDGKLKTEKIFKEINEHSTSY 1717
Query: 269 EFVHKSQGLEQTKF 282
F + L T+F
Sbjct: 1718 TFRSEKGLLSATQF 1731
>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 = 30.0 bits (68), Expect = 0.74
Identities = 13/78 (16%), Positives = 22/78 (28%), Gaps = 25/78 (32%)
Query: 146 DDLLDFISS--SDAMGK--PTAADLKL---------GLATAPVLFACEKSAMLGGADDKL 192
+ I + D T A+L G P+L +
Sbjct: 108 QSFYNLIDTVYKDQHFTMFETDAELFGYCYGVAGTVGEVLTPIL---------SDHET-- 156
Query: 193 SEVAFEYGRNLGIAFQLV 210
++ R LG + QL+
Sbjct: 157 -HQTYDVARRLGESLQLI 173
Score = 27.3 bits (61), Expect = 6.5
Identities = 6/26 (23%), Positives = 11/26 (42%), Gaps = 3/26 (11%)
Query: 120 LGGADDKLSEVAFEYGRNLGIAFQLV 145
L + ++ R LG + QL+
Sbjct: 151 LSDHET---HQTYDVARRLGESLQLI 173
>2j42_A C2-II, C2 toxin component-II; 3.13A {Clostridium botulinum}
Length = 721
Score = 29.9 bits (66), Expect = 1.1
Identities = 13/51 (25%), Positives = 20/51 (39%)
Query: 19 DNDVTLTLSQIMTDLVQGEFMQLGSKETENERFAHYLTKTYRKTASLIANC 69
DN T+ LS ++ G+ T+ + YL TASL +
Sbjct: 444 DNGGTVMLSTSQFTGNFAKYNSNGNLVTDGNNWGPYLGTIKSTTASLTLSL 494
Score = 27.6 bits (60), Expect = 5.4
Identities = 12/89 (13%), Positives = 24/89 (26%), Gaps = 7/89 (7%)
Query: 70 VKAIMTDLVQGEFMQLGSKETENERFAHYLTKTYRKTASLIANCVK-------ASAMLGG 122
+ ++ G+ T+ + YL TASL + +
Sbjct: 451 LSTSQFTGNFAKYNSNGNLVTDGNNWGPYLGTIKSTTASLTLSLPDQTTQVAVVAPNFSD 510
Query: 123 ADDKLSEVAFEYGRNLGIAFQLVDDLLDF 151
+DK + E + + F
Sbjct: 511 PEDKTPRLTLEQALVKAFRLEKKNGKFYF 539
>3m9l_A Hydrolase, haloacid dehalogenase-like family; HAD family hydrolase,
structural genomics, PSI, protein structure initiative;
HET: MSE; 1.60A {Pseudomonas fluorescens} PDB: 2ybd_A*
3r09_A*
Length = 205
Score = 28.3 bits (64), Expect = 2.5
Identities = 19/97 (19%), Positives = 34/97 (35%), Gaps = 23/97 (23%)
Query: 144 LVDDLLDFISSSDAMGKPTAADLKLGLATAPVLFACEKSAMLGGADDKLSEVAFEYGRNL 203
L + DF + +A+ P D+ LA P + K A L E+ R+L
Sbjct: 17 LTIAVHDFAAIREALSIPAEDDILTHLAALPADESAAKHAWL-----------LEHERDL 65
Query: 204 GIAFQL---VDDLLDFISSSDAMGKPTAADLKLGLAT 237
+ +L+ ++ +LG+ T
Sbjct: 66 AQGSRPAPGAVELVRELA---------GRGYRLGILT 93
>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 = 2.8
Identities = 22/87 (25%), Positives = 32/87 (36%), Gaps = 11/87 (12%)
Query: 185 LGGADDKLSEVAFEYGR----NLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLATAPV 240
L A++ ++E + G +AF L+ LL P ADL GL P
Sbjct: 678 LMSANNIIAEGIEKMGVRTFSQKEMAFNLLG-LLTPEVVELCQKSPVMADLNGGLQFVPE 736
Query: 241 LFACEKFPELNPMIMRRFQEPGDVEKA 267
L E + + E +V KA
Sbjct: 737 L------KEFTAKLRKELVETSEVRKA 757
Score = 27.1 bits (60), Expect = 9.2
Identities = 19/81 (23%), Positives = 28/81 (34%), Gaps = 10/81 (12%)
Query: 120 LGGADDKLSEVAFEYGR----NLGIAFQLVDDLLDFISSSDAMGKPTAADLKLGLATAPV 175
L A++ ++E + G +AF L+ LL P ADL GL P
Sbjct: 678 LMSANNIIAEGIEKMGVRTFSQKEMAFNLLG-LLTPEVVELCQKSPVMADLNGGLQFVPE 736
Query: 176 LFACEKSAMLGGADDKLSEVA 196
L +L E +
Sbjct: 737 L-----KEFTAKLRKELVETS 752
>3oqb_A Oxidoreductase; structural genomics, protein structure INI NEW YORK
structural genomix research consortium, NYSGXRC, PSI-2;
2.60A {Bradyrhizobium japonicum}
Length = 383
Score = 27.4 bits (61), Expect = 5.2
Identities = 5/39 (12%), Positives = 9/39 (23%), Gaps = 4/39 (10%)
Query: 145 VDDLLDFISSSDAMGKPTAADLKLGLATAPVLFACEKSA 183
+ + + P L G + KS
Sbjct: 337 WEMFIRHV----YEDAPYKFTLLEGAKGVQLAECALKSW 371
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
0.320 0.134 0.377
Gapped
Lambda K H
0.267 0.0696 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 4,174,953
Number of extensions: 247603
Number of successful extensions: 657
Number of sequences better than 10.0: 1
Number of HSP's gapped: 593
Number of HSP's successfully gapped: 121
Length of query: 287
Length of database: 6,701,793
Length adjustment: 93
Effective length of query: 194
Effective length of database: 4,105,140
Effective search space: 796397160
Effective search space used: 796397160
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 57 (25.8 bits)