RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= 038404
(287 letters)
>2h8o_A Geranyltranstransferase; geranyltransferase,agrobacterium
tumefaciens, structural GEN PSI-2, protein structure
initiative; 1.60A {Agrobacterium tumefaciens}
Length = 335
Score = 454 bits (1171), Expect = e-163
Identities = 114/293 (38%), Positives = 163/293 (55%), Gaps = 8/293 (2%)
Query: 1 MTSKAKRVNKALDE-------TVQLRHPAKIHEAMRYSLLAGGKRVRPVLCIASCELVGG 53
+ A + L ++ P + EAMR+ +L GGKR+RP L I S L+GG
Sbjct: 43 LRENAAKTEALLGHLLSGEARADEITRPQNLLEAMRHGVLNGGKRLRPFLVIESVALLGG 102
Query: 54 DESSAMPVACALEMIHTMSLVHDDLPCMDNDDFRRGKPTNHKVFGEDTAILAGDALLSLA 113
D + + V ALE +H SLVHDDLP MD+DD RRG+PT H+ F E TAILAGD+LL+LA
Sbjct: 103 DAEAGLHVGAALECLHCYSLVHDDLPAMDDDDLRRGQPTVHRKFDEATAILAGDSLLTLA 162
Query: 114 FEHVAAKSTEISPDRVVRAIAELGSAVGSEGLVAGEIMDIDSEGKDVSLNELENIHLHKT 173
F+ +A+ ++ +R + L A G G+ G+ +D+ +E K + + + KT
Sbjct: 163 FDIIASDDNPLAAERKAALVISLARAAGIGGMAGGQALDLAAEKKAPDEDGIITLQAMKT 222
Query: 174 AKLLEAAVVCGVIIGGGNMIEVERVRKYARCIGLLFQVVDDILDVTKSSKELGKTAGKDL 233
LL A G II G N E +R+R + IGL FQ+ DD+LD+T + +GK GKD
Sbjct: 223 GALLRFACEAGAIIAGSNQAERQRLRLFGEKIGLSFQLADDLLDLTADAATMGKATGKDA 282
Query: 234 VSDKATYPKLMGIENARKFACDLLAQATEELAYFEVARAAPLYHLAYYIASRQ 286
K T L G AR+ + +A+A+E LA + +AA L A +IA R+
Sbjct: 283 ARGKGTLVALRGEAWAREKLQEQVAEASELLAPYG-EKAAILIAAARFIAERK 334
>4f62_A Geranyltranstransferase; enzyme function initiative, structural
genomics; 2.10A {Marinomonas SP}
Length = 317
Score = 451 bits (1162), Expect = e-162
Identities = 128/289 (44%), Positives = 179/289 (61%), Gaps = 4/289 (1%)
Query: 1 MTSKAKRVNKALDETVQLR-HPAKIHEAMRYSLLAGGKRVRPVLCIASCELVGGDESSAM 59
T RV++ L++ + ++H AMRYSL GGKR+RP+L AS +LVG S
Sbjct: 9 STYTQSRVDQYLEQQLSDYAPANQLHNAMRYSLFNGGKRIRPMLTYASAQLVGDISSLTD 68
Query: 60 PVACALEMIHTMSLVHDDLPCMDNDDFRRGKPTNHKVFGEDTAILAGDALLSLAFEHVAA 119
A ALE IH SL+HDDLP MDND+ RRGKPT H F E TAILAGDAL + AFE + +
Sbjct: 69 ASAAALESIHAYSLIHDDLPAMDNDELRRGKPTCHIQFDEATAILAGDALQTFAFELL-S 127
Query: 120 KSTEISPDRVVRAIAELGSAVGSEGLVAGEIMDIDSEGKDVSLNELENIHLHKTAKLLEA 179
T P+ ++ I EL A G G++ G+++D+ SE K++SL ELE +H+HKT L++A
Sbjct: 128 NPTSAQPELAIKLIQELVVASGRNGMITGQMIDLSSENKNISLAELEQMHVHKTGALIKA 187
Query: 180 AVVCGVIIGGG-NMIEVERVRKYARCIGLLFQVVDDILDVTKSSKELGKTAGKDLVSDKA 238
+V G + G ++ ++ YA IGL FQV DDI+D+T ++ LGKT D ++KA
Sbjct: 188 SVRMGALSTGQVKPEQLAKLDAYAHAIGLAFQVQDDIIDLTSDTETLGKTQFSDAEANKA 247
Query: 239 TYPKLMGIENARKFACDLLAQATEELAYFEVARAAPLYHLAYYIASRQH 287
TYPKL+G++ A+ L QA +++ F ++ PL LA YI R H
Sbjct: 248 TYPKLLGLDGAKALVVRLHEQAIAQISEFG-DKSQPLTDLANYIIDRNH 295
>1rtr_A Geranyltranstransferase; 2.50A {Staphylococcus aureus} SCOP:
a.128.1.1
Length = 301
Score = 448 bits (1155), Expect = e-161
Identities = 114/289 (39%), Positives = 161/289 (55%), Gaps = 3/289 (1%)
Query: 1 MTSKAKRVNKALDETV-QLRHPAKIHEAMRYSLLAGGKRVRPVLCIASCELVGGDESSAM 59
M VN L + + ++ E+M YSL AGGKR+RPVL + + + + + M
Sbjct: 6 MNKLIDEVNNELSVAINKSVMDTQLEESMLYSLNAGGKRIRPVLLLLTLDSLNTEYELGM 65
Query: 60 PVACALEMIHTMSLVHDDLPCMDNDDFRRGKPTNHKVFGEDTAILAGDALLSLAFEHVAA 119
A ALEMIHT SL+HDDLP MDNDD+RRGK TNHKV+GE TAILAGDALL+ AFE + +
Sbjct: 66 KSAIALEMIHTYSLIHDDLPAMDNDDYRRGKLTNHKVYGEWTAILAGDALLTKAFELI-S 124
Query: 120 KSTEISPDRVVRAIAELGSAVGSEGLVAGEIMDIDSEGKDVSLNELENIHLHKTAKLLEA 179
++ + ++ + L A G G+V G+++D+ SEG+ + L LE IH KT LL
Sbjct: 125 SDDRLTDEVKIKVLQRLSIASGHVGMVGGQMLDMQSEGQPIDLETLEMIHKTKTGALLTF 184
Query: 180 AVVCGVIIGGGNMIEVERVRKYARCIGLLFQVVDDILDVTKSSKELGKTAGKDLVSDKAT 239
AV+ I + E + Y+ +G++FQ+ DD+LD +LGK G DL ++K+T
Sbjct: 185 AVMSAADIANVDDTTKEHLESYSYHLGMMFQIKDDLLDCYGDEAKLGKKVGSDLENNKST 244
Query: 240 YPKLMGIENARKFACDLLAQATEELAYF-EVARAAPLYHLAYYIASRQH 287
Y L+G + A A +EL E L + SR H
Sbjct: 245 YVSLLGKDGAEDKLTYHRDAAVDELTQIDEQFNTKHLLEIVDLFYSRDH 293
>3ts7_A Geranyltranstransferase; isoprenoid synthesis, farnesyl diphosphate
synthase; 1.94A {Methylococcus capsulatus}
Length = 324
Score = 448 bits (1154), Expect = e-160
Identities = 126/290 (43%), Positives = 172/290 (59%), Gaps = 5/290 (1%)
Query: 1 MTSKAKRVNKALDETVQL--RHPAKIHEAMRYSLLAGGKRVRPVLCIASCELVGGDESSA 58
M S +RV +ALD + R P ++H+AMRYS+L GGKR+RP+L A+ + +G
Sbjct: 13 MRSSQERVERALDARLPAADRMPERLHQAMRYSVLGGGKRMRPLLTYATGQTIGVAADLL 72
Query: 59 MPVACALEMIHTMSLVHDDLPCMDNDDFRRGKPTNHKVFGEDTAILAGDALLSLAFEHVA 118
ACA+E IH SL+HDDLP MD+DD RRGKPT HK + E TAILAGD L +LAF +A
Sbjct: 73 DGPACAVEFIHVYSLIHDDLPAMDDDDLRRGKPTCHKAYDEATAILAGDGLQALAFHVLA 132
Query: 119 -AKSTEISPDRVVRAIAELGSAVGSEGLVAGEIMDIDSEGKDVSLNELENIHLHKTAKLL 177
S + + + I L A G G+V G+ +D+ S GK + L LEN+H+ KT L+
Sbjct: 133 QDPSIAVPAENRIAMIETLAKASGPAGMVGGQAIDLASVGKKLDLPGLENMHIRKTGALI 192
Query: 178 EAAVVCGVIIGGG-NMIEVERVRKYARCIGLLFQVVDDILDVTKSSKELGKTAGKDLVSD 236
A+V + G + +R+ YA+CIGL FQ+ DDILD ++ LGKT GKD +
Sbjct: 193 RASVRLACLARPGLPAEQFDRLDHYAKCIGLAFQIQDDILDEESDTQTLGKTRGKDRDHN 252
Query: 237 KATYPKLMGIENARKFACDLLAQATEELAYFEVARAAPLYHLAYYIASRQ 286
K YP L+G+ A++ A ++ A E LA F A L LA +I RQ
Sbjct: 253 KPNYPALLGLSGAKEKAEEMHEAALESLAGFG-PEADLLRELARFIIQRQ 301
>3lsn_A Geranyltranstransferase; structural genomics, protein structure
initiative, NEW YORK structural genomix research
consortium, nysgxrc; HET: MSE; 1.35A {Pseudomonas
fluorescens} PDB: 3lji_A* 3p41_A*
Length = 304
Score = 447 bits (1151), Expect = e-160
Identities = 129/290 (44%), Positives = 174/290 (60%), Gaps = 5/290 (1%)
Query: 1 MTSKAKRVNKALDETVQLRH--PAKIHEAMRYSLLAGGKRVRPVLCIASCELVGGDESSA 58
S RV+ A+ A+++EAMRYS++ GGKRVRP+L A+CE +GG A
Sbjct: 7 QASSQARVDAAMHTLFTAPSPELARLYEAMRYSVMNGGKRVRPLLAYAACEALGGKPEQA 66
Query: 59 MPVACALEMIHTMSLVHDDLPCMDNDDFRRGKPTNHKVFGEDTAILAGDALLSLAFEHVA 118
ACA+E+IH SLVHDDLP MD+DD RRG+PT HK F E AILAGD L SLAF +
Sbjct: 67 NGAACAVELIHAYSLVHDDLPAMDDDDLRRGQPTTHKAFDEACAILAGDGLQSLAFSALL 126
Query: 119 -AKSTEISPDRVVRAIAELGSAVGSEGLVAGEIMDIDSEGKDVSLNELENIHLHKTAKLL 177
++ S + +R + L A G G+V G+ +D+ S G + LE +H HKT L+
Sbjct: 127 DPALSDASAEIRLRMVTTLAQAAGPAGMVGGQAIDLGSVGLKLDQQALEYMHRHKTGALI 186
Query: 178 EAAVVCGVIIGGG-NMIEVERVRKYARCIGLLFQVVDDILDVTKSSKELGKTAGKDLVSD 236
EA+V+ G + G E++ ++ YA+ IGL FQV DDILDV + LGK G D+ D
Sbjct: 187 EASVILGALASGRAEKGELKALQTYAQAIGLAFQVQDDILDVESDTATLGKRQGADIARD 246
Query: 237 KATYPKLMGIENARKFACDLLAQATEELAYFEVARAAPLYHLAYYIASRQ 286
K TYP L+G+ A+++A +L QA L F+ A A PL LA YI R+
Sbjct: 247 KPTYPALLGLAAAKEYALELRDQALHALRPFD-AAAEPLRELARYIVERR 295
>3uca_A Geranyltranstransferase; isoprenoid synthesis, isoprenoid
diphosphate synthase; 2.00A {Clostridium perfringens}
Length = 324
Score = 444 bits (1145), Expect = e-159
Identities = 107/289 (37%), Positives = 174/289 (60%), Gaps = 5/289 (1%)
Query: 1 MTSKAKRVNKALDETV--QLRHPAKIHEAMRYSLLAGGKRVRPVLCIASCELVGGDESSA 58
+ S + V+++L + ++++M YS+ GGKR+RP+L + S + D
Sbjct: 37 INSLKEEVDQSLKAYFNKDREYNKVLYDSMAYSINVGGKRIRPILMLLSYYIYKSDYKKI 96
Query: 59 MPVACALEMIHTMSLVHDDLPCMDNDDFRRGKPTNHKVFGEDTAILAGDALLSLAFEHVA 118
+ A A+EMIHT SL+HDDLPCMDNDD RRGKPTNHKVFGE A+LAGDALL+ A + +
Sbjct: 97 LTPAMAIEMIHTYSLIHDDLPCMDNDDLRRGKPTNHKVFGEAIAVLAGDALLNEAMKIL- 155
Query: 119 AKSTEISPDRVVRAIAELGSAVGSEGLVAGEIMDIDSEGK-DVSLNELENIHLHKTAKLL 177
+ ++A + A GS+G++ G+I+DI +E K ++SL EL+ +HL KT +L+
Sbjct: 156 VDYSLEEGKSALKATKIIADAAGSDGMIGGQIVDIINEDKEEISLKELDYMHLKKTGELI 215
Query: 178 EAAVVCGVIIGGGNMIEVERVRKYARCIGLLFQVVDDILDVTKSSKELGKTAGKDLVSDK 237
+A+++ G ++ + +++++ + +GL FQ+ DDILDV ++K+LGK KD S+K
Sbjct: 216 KASIMSGAVLAEASEGDIKKLEGFGYKLGLAFQIKDDILDVVGNAKDLGKNVHKDQESNK 275
Query: 238 ATYPKLMGIENARKFACDLLAQATEELAYFEVARAAPLYHLAYYIASRQ 286
Y + G+E +K ++ + E L+ + PL L + R+
Sbjct: 276 NNYITIFGLEECKKKCVNITEECIEILSSIK-GNTEPLKVLTMKLLERK 323
>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 = 442 bits (1139), Expect = e-158
Identities = 194/291 (66%), Positives = 227/291 (78%), Gaps = 18/291 (6%)
Query: 1 MTSKAKRVNKALDETVQLRHPAKIHEAMRYSLLAGGKRVRPVLCIASCELVGGDESSAMP 60
+ KA VNKALD V LR P KIHEAMRYSLLAGGKRVRPVLCIA+CELVGG+ES AMP
Sbjct: 17 IIRKADSVNKALDSAVPLREPLKIHEAMRYSLLAGGKRVRPVLCIAACELVGGEESLAMP 76
Query: 61 VACALEMIHTMSLVHDDLPCMDNDDFRRGKPTNHKVFGEDTAILAGDALLSLAFEHVA-A 119
ACA+EMIHTMSL+HDDLPCMDNDD RRGKPTNHKV+GED A+LAGDALLS AFEH+A A
Sbjct: 77 AACAVEMIHTMSLIHDDLPCMDNDDLRRGKPTNHKVYGEDVAVLAGDALLSFAFEHLASA 136
Query: 120 KSTEISPDRVVRAIAELGSAVGSEGLVAGEIMDIDSEGK---DVSLNELENIHLHKTAKL 176
S+E+SP RVVRA+ EL A+G+EGLVAG+++DI SEG +V L L+ IHLHKTA L
Sbjct: 137 TSSEVSPARVVRAVGELAKAIGTEGLVAGQVVDISSEGLDLNNVGLEHLKFIHLHKTAAL 196
Query: 177 LEAAVVCGVIIGGGNMIEVERVRKYARCIGLLFQVVDDILDVTKSSKELGKTAGKDLVSD 236
LEA+ V G IIGGG+ E+ER+RK+ARCIGLLFQVVDDILDVTKSS
Sbjct: 197 LEASAVLGGIIGGGSDEEIERLRKFARCIGLLFQVVDDILDVTKSS-------------- 242
Query: 237 KATYPKLMGIENARKFACDLLAQATEELAYFEVARAAPLYHLAYYIASRQH 287
K TYPKLMG+E +R+FA L +A ++L F+ + APL LA YIA+RQ+
Sbjct: 243 KLTYPKLMGLEKSREFAEKLNTEARDQLLGFDSDKVAPLLALANYIANRQN 293
>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 = 439 bits (1131), Expect = e-157
Identities = 105/292 (35%), Positives = 150/292 (51%), Gaps = 7/292 (2%)
Query: 1 MTSKAKRVNKALDETVQ-LRHPAKIHEAMRYSLLAGGKRVRPVLCIASCELVGGD--ESS 57
+N L + + A++ AM YS+LAGGKR+RP+L +A+ + +G
Sbjct: 12 EDQWVPALNAPLKQAILADSQDAQLAAAMTYSVLAGGKRLRPLLTVATMQSLGVTFVPER 71
Query: 58 AMPVACALEMIHTMSLVHDDLPCMDNDDFRRGKPTNHKVFGEDTAILAGDALLSLAFEHV 117
ALE++HT SL+HDDLP MDND RRG+PTNH FG A LAGD LL+LAF+ +
Sbjct: 72 HWRPVMALELLHTYSLIHDDLPAMDNDALRRGEPTNHVKFGAGMATLAGDGLLTLAFQWL 131
Query: 118 AAKSTEISPDRVVRAIAELGSAVGSEGLVAGEIMDIDSEGKDVSLNELENIHLHKTAKLL 177
+T++ + L +A G G+VAG+ DI SE ++ L++L +H KT LL
Sbjct: 132 T--ATDLPATMQAALVQALATAAGPSGMVAGQAKDIQSEHVNLPLSQLRVLHKEKTGALL 189
Query: 178 EAAVVCGVIIGGGNMIEVERVRKYARCIGLLFQVVDDILDVTKSSKELGKTAGKDLVSDK 237
AV G+I+G + ++A GL FQ+ DDILDV S E+GK KD K
Sbjct: 190 HYAVQAGLILGQAPEAQWPAYLQFADAFGLAFQIYDDILDVVSSPAEMGKATQKDADEAK 249
Query: 238 ATYPKLMGIENARKFACDLLAQATEELAYF--EVARAAPLYHLAYYIASRQH 287
TYP +G+ A + D + L R +Y+ R +
Sbjct: 250 NTYPGKLGLIGANQALIDTIHSGQAALQGLPTSTQRDDLAAFFSYFDTERVN 301
>3p8l_A Geranyltranstransferase; isoprenyl synthase, structural genomics,
PSI, protein struct initiative, nysgrc; 2.00A
{Enterococcus faecalis}
Length = 302
Score = 438 bits (1128), Expect = e-157
Identities = 109/290 (37%), Positives = 166/290 (57%), Gaps = 5/290 (1%)
Query: 1 MTSKAKRVNKALDETV-QLRHPAKIHEAMRYSLLAGGKRVRPVLCIASCELVGGD-ESSA 58
V K + + + + ++ EAM YS+ AGGKR+RP+L + + + E+
Sbjct: 14 SQQHLPLVEKVMVDFIAEYTENERLKEAMLYSIHAGGKRLRPLLVLTTVAAFQKEMETQD 73
Query: 59 MPVACALEMIHTMSLVHDDLPCMDNDDFRRGKPTNHKVFGEDTAILAGDALLSLAFEHVA 118
VA +LEMIHT SL+HDDLP MD+DD RRGKPTNHKVFGE TAILAGD LL+ AF+ ++
Sbjct: 74 YQVAASLEMIHTYSLIHDDLPAMDDDDLRRGKPTNHKVFGEATAILAGDGLLTGAFQLLS 133
Query: 119 AKSTEISPDRVVRAIAELGSAVGSEGLVAGEIMDIDSEGKDVSLNELENIHLHKTAKLLE 178
+++ V + +L A G++G+V+G++ DI+ E ++L EL +H KT L+E
Sbjct: 134 --LSQLGLSEKVLLMQQLAKAAGNQGMVSGQMGDIEGEKVSLTLEELAAVHEKKTGALIE 191
Query: 179 AAVVCGVIIGGGNMIEVERVRKYARCIGLLFQVVDDILDVTKSSKELGKTAGKDLVSDKA 238
A++ G ++ + + ++A GL FQ+ DD+LD T + +LGK G+D +K+
Sbjct: 192 FALIAGGVLANQTEEVIGLLTQFAHHYGLAFQIRDDLLDATSTEADLGKKVGRDEALNKS 251
Query: 239 TYPKLMGIENARKFACDLLAQATEELAYFEV-ARAAPLYHLAYYIASRQH 287
TYP L+GI A+ LA+ + L + HLA + Q
Sbjct: 252 TYPALLGIAGAKDALTHQLAEGSAVLEKIKANVPNFSEEHLANLLTQLQL 301
>3p8r_A Geranyltranstransferase; isoprenyl synthase, structural genomics,
PSI, protein struct initiative, nysgrc; 2.50A {Vibrio
cholerae}
Length = 302
Score = 437 bits (1126), Expect = e-156
Identities = 112/291 (38%), Positives = 163/291 (56%), Gaps = 5/291 (1%)
Query: 1 MTSKAKRVNKALDETV--QLRHPAKIHEAMRYSLLAGGKRVRPVLCIASCELVGGDESSA 58
++S +R N+ LD+ + + EAMRY LL GGKR RP L + +++G + S
Sbjct: 13 LSSYQQRNNQQLDQWLNRIPFQTLPLIEAMRYGLLLGGKRARPYLVYITGQMLGCELSDL 72
Query: 59 MPVACALEMIHTMSLVHDDLPCMDNDDFRRGKPTNHKVFGEDTAILAGDALLSLAFEHVA 118
A A+E IH SL+HDDLP MD+D+ RRGKPT H F E TAIL GDAL +LAF +A
Sbjct: 73 DTPASAVECIHAYSLIHDDLPAMDDDELRRGKPTCHIQFDEATAILTGDALQTLAFTILA 132
Query: 119 -AKSTEISPDRVVRAIAELGSAVGSEGLVAGEIMDIDSEGKDVSLNELENIHLHKTAKLL 177
+ + V + L A G++G+ G+ +D+ +E + +SL ELE IH +KT L+
Sbjct: 133 EGDLSAAGETQRVAMLQALAEASGAQGMCLGQALDLAAENRLISLEELETIHRNKTGALM 192
Query: 178 EAAVVCGVIIGGG-NMIEVERVRKYARCIGLLFQVVDDILDVTKSSKELGKTAGKDLVSD 236
A+ G + G + + +YA +GL FQV DDILD+ ++ LGK G D +
Sbjct: 193 RCAIRLGALAAGEKGRAMLPHLDRYAEAVGLAFQVQDDILDIISDTETLGKPQGSDQELN 252
Query: 237 KATYPKLMGIENARKFACDLLAQATEELAYFEVARAAPLYHLAYYIASRQH 287
K+TYP L+G+E A++ A LL +A L L A Y+ R++
Sbjct: 253 KSTYPALLGLEGAQQKAHTLLQEALLALEAIP-YNTEHLEEFARYVVERKN 302
>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 = 435 bits (1122), Expect = e-156
Identities = 125/291 (42%), Positives = 164/291 (56%), Gaps = 6/291 (2%)
Query: 1 MTSKAKRVNKALDETV--QLRHPAKIHEAMRYSLLAGGKRVRPVLCIASCELVGGDESSA 58
+ + K+ N+AL + + E M+Y L GGKR+RP L A+ + G ++
Sbjct: 7 LEACVKQANQALSRFIAPLPFQNTPVVETMQYGALLGGKRLRPFLVYATGHMFGVSTNTL 66
Query: 59 MPVACALEMIHTMSLVHDDLPCMDNDDFRRGKPTNHKVFGEDTAILAGDALLSLAFEHVA 118
A A+E IH SL+HDDLP MD+DD RRG PT H FGE AILAGDAL +LAF ++
Sbjct: 67 DAPAAAVECIHAYSLIHDDLPAMDDDDLRRGLPTCHVKFGEANAILAGDALQTLAFSILS 126
Query: 119 -AKSTEISPDRVVRAIAELGSAVGSEGLVAGEIMDIDSEGKDVSLNELENIHLHKTAKLL 177
A E+S + I+EL SA G G+ G+ +D+D+EGK V L+ LE IH HKT L+
Sbjct: 127 DADMPEVSDRDRISMISELASASGIAGMCGGQALDLDAEGKHVPLDALERIHRHKTGALI 186
Query: 178 EAAVVCGVIIGGG-NMIEVERVRKYARCIGLLFQVVDDILDVTKSSKELGKTAGKDLVSD 236
AAV G + G + + KYA IGL FQV DDILDV + LGK G D
Sbjct: 187 RAAVRLGALSAGDKGRRALPVLDKYAESIGLAFQVQDDILDVVGDTATLGKRQGADQQLG 246
Query: 237 KATYPKLMGIENARKFACDLLAQATEELAYF--EVARAAPLYHLAYYIASR 285
K+TYP L+G+E ARK A DL+ A + L + + L LA YI R
Sbjct: 247 KSTYPALLGLEQARKKARDLIDDARQSLKQLAEQSLDTSALEALADYIIQR 297
>3lom_A Geranyltranstransferase; geranyltransferase, structural genomics,
PSI, protein structure initiative, nysgrc; 2.30A
{Legionella pneumophila subsp}
Length = 313
Score = 435 bits (1121), Expect = e-155
Identities = 96/292 (32%), Positives = 152/292 (52%), Gaps = 6/292 (2%)
Query: 1 MTSKAKRVNKALDETV--QLRHPAKIHEAMRYSLLAGGKRVRPVLCIASCELVGGDESSA 58
+ +R L++ + + +I A+ Y+L +GGKR+RP+L + +L+ D+
Sbjct: 13 IDKYTQRHELYLEQLLNEIIIPAPQIRSALHYALFSGGKRIRPILVYLAGDLIDVDQGVL 72
Query: 59 MPVACALEMIHTMSLVHDDLPCMDNDDFRRGKPTNHKVFGEDTAILAGDALLSLAFEHVA 118
+A ALE+ H SL+HDDLP MDNDD RRGKP+ HK F E TAIL GD + +LA E +
Sbjct: 73 DIIAAALELTHCYSLIHDDLPAMDNDDLRRGKPSCHKAFDEATAILVGDGMQALAIEVLL 132
Query: 119 AKST-EISPDRVVRAIAELGSAVGSEGLVAGEIMDIDSEGK-DVSLNELENIHLHKTAKL 176
+ + + +VV L +A G G+V+G+ +D+ K V+ +L IHL KT KL
Sbjct: 133 MRLSPLLPAAQVVAITQVLVNASGISGMVSGQSLDLSELAKSSVTEEQLREIHLLKTGKL 192
Query: 177 LEAAVVCGVIIGGGNMIEV-ERVRKYARCIGLLFQVVDDILDVTKSSKELGKTAGKDLVS 235
+ A + ++ +R Y + IGL+FQ+ DD LD+ ++ LGK D +
Sbjct: 193 ILACFEMVLAAQHEVSEQIKSALRTYGKHIGLVFQMQDDYLDLYAPTQILGKGRSSDQAN 252
Query: 236 DKATYPKLMGIENARKFACDLLAQATEELAYFEVARAAPLYHLAYYIASRQH 287
K T+ L + + A + L F ++AA L L + +R +
Sbjct: 253 QKTTFATLFNKQQLEEEIAVHYQIAMDSLRLFG-SKAAALIELTKQLQNRSN 303
>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 = 433 bits (1117), Expect = e-155
Identities = 110/287 (38%), Positives = 156/287 (54%), Gaps = 8/287 (2%)
Query: 1 MTSKAKRVNKALDETVQLRHPAKIHEAMRYSLLAGGKRVRPVLCIASCELVGGDESSAMP 60
+ V A+ + + +AM Y+ GGKR+R L I S + G + AMP
Sbjct: 7 LKEVQDAVETAMAAAIGRLPAGDLRDAMAYAA-QGGKRLRAFLAIESAAIHGISMAQAMP 65
Query: 61 VACALEMIHTMSLVHDDLPCMDNDDFRRGKPTNHKVFGEDTAILAGDALLSLAFEHVAAK 120
A A+E +H SLVHDD+PCMDNDD RRG PT HK + + TA+LAGDAL +LAFE
Sbjct: 66 AALAVEALHAYSLVHDDMPCMDNDDLRRGLPTVHKKWDDATAVLAGDALQTLAFELC-TD 124
Query: 121 STEISPDRVVRAIAELGSAVGSEGLVAGEIMDIDSEGK--DVSLNELENIHLHKTAKLLE 178
S + V +A L A G+EG+V G+ +DI +E ++L+E+ + KT L+
Sbjct: 125 PVLGSAENRVALVAALAQASGAEGMVYGQALDIAAETAAVPLTLDEIIRLQAGKTGALIS 184
Query: 179 AAVVCGVIIGGGNMIEVERVRKYARCIGLLFQVVDDILDVTKSSKELGKTAGKDLVSDKA 238
A G I+ G + + YA +GL FQ+ DDILDV + + GK GKD + KA
Sbjct: 185 FAAQAGAILAGA---DRGPLTAYATALGLAFQIADDILDVEGNEEAAGKRLGKDAEAHKA 241
Query: 239 TYPKLMGIENARKFACDLLAQATEELAYFEVARAAPLYHLAYYIASR 285
T+ L+G+ A+ A DL+A+A LA + A+ L A Y+ R
Sbjct: 242 TFVSLLGLAGAKSRAADLVAEAEAALAPYG-EAASTLRACARYVIER 287
>3npk_A Geranyltranstransferase; isoprene biosynthesis, SGX, structural
genomics protein structure initiative; 1.50A
{Campylobacter jejuni}
Length = 291
Score = 423 bits (1090), Expect = e-151
Identities = 103/287 (35%), Positives = 153/287 (53%), Gaps = 10/287 (3%)
Query: 6 KRVNKALDETVQLR--HPAKIHEAMRYSLLAGGKRVRPVLCIASCELVGGD-ESSAMPVA 62
+ L++ + +EA+ L AGGK R L ++ + + + A+ VA
Sbjct: 7 ELFIHHLEKNLPKVESFHPFFNEALALMLKAGGKHFRAQLLLSVVQSNKPELLNQALDVA 66
Query: 63 CALEMIHTMSLVHDDLPCMDNDDFRRGKPTNHKVFGEDTAILAGDALLSLAFEHVAAKST 122
ALE IHT SL+HDDLP MDN DFRRG PT HK + E TAIL GDAL + AF ++
Sbjct: 67 LALEFIHTYSLIHDDLPAMDNADFRRGIPTLHKSYDETTAILVGDALNTEAFLVLS--HA 124
Query: 123 EISPDRVVRAIAELGSAVGSEGLVAGEIMDIDSEGKDVSLNELENIHLHKTAKLLEAAVV 182
+ + ++ I L G G+V G+ +D E K +SLNELE +H HKTA+L+ AA+
Sbjct: 125 HLKDEIKIKLIKTLAFNAGLNGMVIGQAIDCFFEDKRLSLNELEFLHTHKTARLIAAALK 184
Query: 183 CGVIIGGGNMIEVERVRKYARCIGLLFQVVDDILDVTKSSKELGKTAGKDLVSDKATYPK 242
G I N E ++ K +GL+FQ+ DDI+DVT S ++ GK D+ K ++
Sbjct: 185 MGCEICELNNEESNQIYKLGLKLGLIFQINDDIIDVTTSQEQSGKPTNNDI--HKNSFVN 242
Query: 243 LMGIENARKFACDLLAQATEELAYFEVARAAPLYH--LAYYIASRQH 287
L+G+E A K +LL + ++L + A + + Y+ H
Sbjct: 243 LLGLEQAIKTKENLLNECEQDLEKLN-EKLAQMIQNLIIQYLEGHHH 288
>3llw_A Geranyltranstransferase (ISPA); structural genomics, PSI, protein
structure initiative, nysgrc; 2.30A {Helicobacter
pylori} PDB: 3q1o_A*
Length = 311
Score = 419 bits (1080), Expect = e-149
Identities = 90/294 (30%), Positives = 150/294 (51%), Gaps = 14/294 (4%)
Query: 1 MTSKAKRVNKALDETVQLR--HPAKIHEAMRYSLLAGGKRVRPVLCIASCELVGG----- 53
++ +R L + +A +L GGKR RP L +A + G
Sbjct: 11 YYNECERFESFLKNHHLHLESFHPYLEKAFFEMVLNGGKRFRPKLFLAVLCALVGQKDYS 70
Query: 54 -DESSAMPVACALEMIHTMSLVHDDLPCMDNDDFRRGKPTNHKVFGEDTAILAGDALLSL 112
++ +A ++E +HT SL+HDDLPCMDN RR PT H + E TA+L GDAL +
Sbjct: 71 NQQTEYFKIALSIECLHTYSLIHDDLPCMDNAALRRNHPTLHAKYDETTAVLIGDALNTY 130
Query: 113 AFEHVAAKSTEISPDRVVRAIAELGSAVGSEGLVAGEIMDIDSEGKDVSLNELENIHLHK 172
+FE ++ + + +V I L + G +G++ G+ +D E ++L +L +H HK
Sbjct: 131 SFELLS--NALLESHIIVELIKILSANGGIKGMILGQALDCYFENTPLNLEQLTFLHEHK 188
Query: 173 TAKLLEAAVVCGVIIGGGNMIEVER-VRKYARCIGLLFQVVDDILDVTKSSKELGKTAGK 231
TAKL+ A+++ G++ G E+ + ++ + +GL FQV+DDI+DVT+ +E GKT
Sbjct: 189 TAKLISASLIMGLVASGIKDEELFKWLQAFGLKMGLCFQVLDDIIDVTQDEEESGKTTHL 248
Query: 232 DLVSDKATYPKLMGIENARKFACDLLAQATEELAYFEVARAAPLYHLAYYIASR 285
D S K ++ L+G+E A +A L + +L + L + +
Sbjct: 249 D--SAKNSFVNLLGLERANNYAQTLKTEVLNDLDALK-PAYPLLQENLNALLNT 299
>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 = 390 bits (1003), Expect = e-138
Identities = 72/270 (26%), Positives = 124/270 (45%), Gaps = 18/270 (6%)
Query: 1 MTSKAKRVNKALDETVQLRHPAKIHEAMRYSLLAGGKRVRPVLCIASCELVGGDESSAMP 60
+ + + L +++ +R P + M + A LC+A+CELVGGD S AM
Sbjct: 5 WAAIEADIERYLKKSITIRPPETVFGPMHHLTFAAPATAASTLCLAACELVGGDRSQAMA 64
Query: 61 VACALEMIHTMSLVHDDLPCMDNDDFRRGKPTNHKVFGEDTAILAGDALLSLAFEHVAA- 119
A A+ ++H + VH+ LP D KP +G + +L GD ++ FE +A
Sbjct: 65 AAAAIHLVHAAAYVHEHLPLTDGSR-PVSKPAIQHKYGPNVELLTGDGIVPFGFELLAGS 123
Query: 120 --KSTEISPDRVVRAIAELGSAVGSEGLVAGEIMDIDSEGKDVSLNELENIHLHKTAKLL 177
+ PDR++R I E+ A G EG+++G + + + SL+ +E + K ++
Sbjct: 124 VDPARTDDPDRILRVIIEISRAGGPEGMISGLHREEEIVDGNTSLDFIEYVCKKKYGEMH 183
Query: 178 EAAVVCGVIIGGGNMIEVERVRKYARCIGLL---------FQVVDD-ILDVTK--SSKEL 225
CG I+GG E++++R + G L Q++D+ I+ K + +EL
Sbjct: 184 ACGAACGAILGGAAEEEIQKLRNFGLYQGTLRGMMEMKNSHQLIDENIIGKLKELALEEL 243
Query: 226 GKTAGKD--LVSDKATYPKLMGIENARKFA 253
G GK+ L+S P L +
Sbjct: 244 GGFHGKNAELMSSLVAEPSLYAAHHHHHHH 273
>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 = 355 bits (913), Expect = e-124
Identities = 68/264 (25%), Positives = 117/264 (44%), Gaps = 8/264 (3%)
Query: 1 MTSKAKRVNKALDETVQLRHPAKIHEAMRYSLLAGGKRVRPVLCIASCELVGGDESSAMP 60
+ + L + + +R P + E M + A + LC+A+CELVGGD S AM
Sbjct: 10 RATIESDIESYLKKAIPIRAPESVFEPMHHLTFAAPRTSASALCVAACELVGGDRSDAMA 69
Query: 61 VACALEMIHTMSLVHDDLPCMDNDDFRRGKPTNHKVFGEDTAILAGDALLSLAFEHVA-- 118
A A+ ++H + H++LP D K F + +L GD ++ E +A
Sbjct: 70 AAAAVHLMHVAAYTHENLPLTDGP---MSKSEIQHKFDPNIELLTGDGIIPFGLELMARS 126
Query: 119 AKSTEISPDRVVRAIAELGSAVGSEGLVAGEIMDIDSEGKDVSLNELENIHLHKTAKLLE 178
T +PDR++RAI EL +GSEG+V G+ ++ + L +E + K L
Sbjct: 127 MDPTRNNPDRILRAIIELTRVMGSEGIVEGQYHELGLNQLN-DLELIEYVCKKKEGTLHA 185
Query: 179 AAVVCGVIIGGGNMIEVERVRKYARCIGLLFQVVDDILD-VTKSSKELGKTAGKDLVS-D 236
CG I+GG + ++E++R++ +G + ++ KEL + A K+L S
Sbjct: 186 CGAACGAILGGCDEDKIEKLRRFGLYVGTVQGLLGKNRSGFEGRIKELKELAVKELESFG 245
Query: 237 KATYPKLMGIENARKFACDLLAQA 260
+ G+ +
Sbjct: 246 GEKIELIRGVFELEHSLAGVEGHH 269
>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 = 282 bits (723), Expect = 9e-96
Identities = 85/288 (29%), Positives = 135/288 (46%), Gaps = 17/288 (5%)
Query: 1 MTSKAKRVNKALDETVQLRHPAKIHEAMRYSLLAGGKRVRPVLCIASCELVGGDESSAMP 60
K + V + + E ++ EAM YS GG R+RP+L + E +G +E +
Sbjct: 11 HHMKXEXVEERIREILRPGWDLLTEEAMLYSATVGGXRIRPLLVLTLGEDLGVEEEXLLD 70
Query: 61 VACALEMIHTMSLVHDDLPCMDNDDFRRGKPTNHKVFGEDTAILAGDALLSLAFEHVAAK 120
VA A+E+ HT SL+HDDLP +DN DFRRG P+ H+ +GED A+LAGD L LAF ++
Sbjct: 71 VAVAVELFHTASLIHDDLPPIDNADFRRGXPSCHRTYGEDIALLAGDGLFFLAFSQISXI 130
Query: 121 STEISPDRVVRAIAELGSAVGSEGLVAGEIMDIDSEGK--DVSLNELENIHLHKTAKLLE 178
+ + + L+ GE MD++ E + +VS +E ++ T L
Sbjct: 131 GNSXIFEEF---------SETAYXLLLGEAMDVEFERRXMEVSQEMVERMYAFXTGALFA 181
Query: 179 AAVVCGVIIGGGNMIEVERVRKYARCIGLLFQVVDDILDVTKSSKELGKTAGKDLVSDKA 238
I+ G + + G+ FQ+ DD+ D+ S +++GK GKD ++
Sbjct: 182 FCFSAPFILXGXDH---TXMXLLGEXFGVAFQIYDDLXDILGSFEKVGKDLGKD--TEXV 236
Query: 239 TYPKLMGIENARKFACDLLAQATEELAYF-EVARAAPLYHLAYYIASR 285
T +GI+ AR+ A + + L L + R
Sbjct: 237 TLVXXVGIQXAREMADXYYEEVLXGIESEGLFRTLFLLXELXQMVEER 284
>3nf2_A Putative polyprenyl synthetase; isoprenyl diphosphate synthase,
structural genomics, PSI, PR structure initiative,
nysgrc; 2.20A {Streptomyces coelicolor}
Length = 352
Score = 277 bits (710), Expect = 1e-92
Identities = 84/269 (31%), Positives = 120/269 (44%), Gaps = 10/269 (3%)
Query: 7 RVNKALDETVQLRHPAKIHEAMRYSLLAGGKRVRPVLCIASCELVGGDESSAMPVACALE 66
R+ +D H I + GGK VRP L + S E+ G +P A A+E
Sbjct: 26 RLAPPMDTVAA-YHFGWIDAQGNPADGDGGKAVRPALAVLSAEVTGAAPEVGVPGAVAVE 84
Query: 67 MIHTMSLVHDDLPCMDNDDFRRGKPTNHKVFGEDTAILAGDALLSLAFEHVAAKSTEISP 126
++H SL+HDDL MD D+ RR + T KV G AIL GDAL +LA E + E+
Sbjct: 85 LVHNFSLLHDDL--MDGDEQRRHRDTVWKVHGPAQAILVGDALFALANEVLL----ELGT 138
Query: 127 DRVVRAIAELGSAVGSEGLVAGEIMDIDSEGK-DVSLNELENIHLHKTAKLLEAAVVCGV 185
RA L A L+ G+ DI E + VS+ E + +KT LL A G
Sbjct: 139 VEAGRATRRLTKAS--RSLIDGQAQDISYEHRDRVSVEECLEMEGNKTGALLACASSIGA 196
Query: 186 IIGGGNMIEVERVRKYARCIGLLFQVVDDILDVTKSSKELGKTAGKDLVSDKATYPKLMG 245
++GG + + + KY +GL FQ VDD+L + GK DL K + P +
Sbjct: 197 VLGGADERTADTLEKYGYHLGLAFQAVDDLLGIWGDPDATGKQTWSDLRQRKKSLPVVAA 256
Query: 246 IENARKFACDLLAQATEELAYFEVARAAP 274
+ + L T + + A +
Sbjct: 257 LAAGGAASERLGEILTADAKASDFANFSE 285
>4fp4_A Polyprenyl synthetase; isoprenoid synthesis, isoprenoid diphosphate
synthase, trans; HET: GER UNL; 2.00A {Pyrobaculum
calidifontis}
Length = 285
Score = 269 bits (689), Expect = 2e-90
Identities = 64/290 (22%), Positives = 124/290 (42%), Gaps = 27/290 (9%)
Query: 1 MTSKAKRVNKALDETVQLRHPAKIHEAMRYSLLAGGKRVRPVLCIASCELVGGDESS--- 57
+ + +RV L++ + P + +A+R+ + GK +RP+L + +
Sbjct: 10 VLAALERVKARLNKVGEELEPISLRKAVRHYIETPGKLLRPLLLLTFTYSIDRRSIMDPR 69
Query: 58 AMPVACALEMIHTMSLVHDDLPCMDNDDFRRGKPTNHKVFGEDTAILAGDALLSLAFEHV 117
+ A +E++H +SL+ DD+ MD D RRG T ++G+ AI+A D L++ + +
Sbjct: 70 ILEAAAIVELLHVVSLLQDDV--MDQHDQRRGIKTPRAMYGDGRAIVASDWLIAESIKMA 127
Query: 118 AAKSTEISPDRVVRAIAELGSAVGSEGLVAGEIMDIDSEGKDVSLNELENIHLHKTAKLL 177
VV +A++ ++ L G+ +D++ E KTA L+
Sbjct: 128 VN-----LGADVVTYLADV-----AQRLSVGQALDLEGERDKA--------AEFKTAPLI 169
Query: 178 EAAVVCGVIIGGGNMIEVERVRKYARCIGLLFQVVDDILDVTKSSKELGKTAGKDLVSDK 237
EAA+V ++I G +E +K +G+L+Q DD D + K+ ++
Sbjct: 170 EAALVMPLVILGRRE-LIETAKKLGTKLGILYQYSDDYSDEN-VERPETKSIANEIGRYL 227
Query: 238 ATYPKLM--GIENARKFACDLLAQATEELAYFEVARAAPLYHLAYYIASR 285
+ + I + L+ +A E A LY +++
Sbjct: 228 LKIKEHVGDAIAPFERLIKYLIGKALEGTLTVSRTIAENLYFQSHHHHHH 277
>1wy0_A Geranylgeranyl pyrophosphate synthetase; pyrococcus horikosh
structural genomics, riken structural
genomics/proteomics initiative, RSGI; 2.20A {Pyrococcus
horikoshii}
Length = 342
Score = 259 bits (665), Expect = 6e-86
Identities = 103/273 (37%), Positives = 148/273 (54%), Gaps = 7/273 (2%)
Query: 3 SKAKRVNKALDETVQLRHPAKIHEAMRYSLLAGGKRVRPVLCIASCELVGGDESSAMPVA 62
KAK +++ + E + + P ++EA R+ LAGGKRVRP + + S E VGGD A+ A
Sbjct: 13 EKAKLIDEKIFELIPEKDPRVLYEAARHYPLAGGKRVRPFVVLTSTEAVGGDPLRAIYPA 72
Query: 63 CALEMIHTMSLVHDDLPCMDNDDFRRGKPTNHKVFGEDTAILAGDALLSLAFEHVAAKST 122
A+E+IH SLVHDD+ MD D+ RRGKPT H+++G + AILAGD L S AFE VA
Sbjct: 73 VAIELIHNYSLVHDDI--MDMDETRRGKPTVHRIWGVNMAILAGDLLFSKAFEAVA--RA 128
Query: 123 EISPDRVVRAIAELGSAVGSEGLVAGEIMDIDSEGK-DVSLNELENIHLHKTAKLLEAAV 181
EI P++ R + + A S L G+ D++ E K V++ E + KT L EA+
Sbjct: 129 EIPPEKKARVLEVIVKA--SNELCEGQARDLEFEKKSTVTIEEYMEMISGKTGALFEASA 186
Query: 182 VCGVIIGGGNMIEVERVRKYARCIGLLFQVVDDILDVTKSSKELGKTAGKDLVSDKATYP 241
G IIG N ++ + + R +G+ FQ+ DD+LD+ K+LGK G D+ K T
Sbjct: 187 KVGGIIGTDNEEYIKALSSWGRNVGIAFQIWDDVLDLIADEKKLGKPVGSDIRKGKKTLI 246
Query: 242 KLMGIENARKFACDLLAQATEELAYFEVARAAP 274
ENA + + + A R
Sbjct: 247 VAHFFENADEKDKQRFLKIFGKYAGDVKGRGII 279
>4dhd_A Polyprenyl synthetase; isoprenoid synthesis, isoprenoid diphosphate
synthase, trans; 1.65A {Pyrobaculum calidifontis}
Length = 358
Score = 237 bits (606), Expect = 7e-77
Identities = 86/335 (25%), Positives = 132/335 (39%), Gaps = 64/335 (19%)
Query: 5 AKRVNKALDETVQLRHPAKIHEAMRYSLLAGGKRVRPVLCIASCELVGGDESSAMPVACA 64
V KAL + + EA+ Y + GGKR+RP+L +A+ E V G A+P A
Sbjct: 14 GAEVEKALVRYLSIGLAEDFREAVLYQVKTGGKRLRPLLTLAAAEAVSGQWRPALPAAAI 73
Query: 65 LEMIHTMSLVHDDLPCMDNDDFRRGKPTNHKVFGEDTAILAGDALLSLAFEHVAAKSTEI 124
+E+IH SL++DD+ +D D RRG PT K FG++ AIL G E V
Sbjct: 74 VELIHNYSLIYDDI--IDRGDVRRGLPTVRKAFGDNAAILVGIWYREAIEEAVLDTP--- 128
Query: 125 SPDRVVRAIAELGSAVGSEGLVAGEIMDIDSEGK-------------DVSLNELENIHLH 171
P + +AE+ + + GE +DI E +V+L++ +
Sbjct: 129 KPTLFAKEVAEV-----IKAIDEGERLDILFEAAGRSDPYFVQARWREVTLDDYIKMVSL 183
Query: 172 KTAKLLEAAVVCGVIIGGGNMIEVERVRKYARCIGLLFQVVDDILDVTKSSKELGKTAGK 231
KT L+ AA GV+ + E + G+ FQ++DD+LD+ K+ GK GK
Sbjct: 184 KTGALIAAAAKWGVLSVSDDRGLAEAAWNFGMAAGVAFQIIDDVLDIYGDPKKFGKEIGK 243
Query: 232 DLVSDKATYPKLM---------------------------------------GIENARKF 252
D+ K + E A +
Sbjct: 244 DIKEHKRGNAVVAVALSHLGEGERRRLLEILAREVVEEADVREAVALLDSVGAREEALRL 303
Query: 253 ACDLLAQATEELAYFEVARAAPLYHLAYYIASRQH 287
A +A LA L L +I +R++
Sbjct: 304 AARYREEAERHLAKIPNNGT--LKELLDFIVAREY 336
>1wmw_A Geranylgeranyl diphosphate synthetase; GGPP, prenyl diphosphate
synthase, structural genom riken structural
genomics/proteomics initiative; 1.55A {Thermus
thermophilus}
Length = 330
Score = 215 bits (550), Expect = 6e-69
Identities = 70/288 (24%), Positives = 112/288 (38%), Gaps = 20/288 (6%)
Query: 1 MTSKAKRVNKALDETV--QLRHPAK-IHEAMRYSLLAGGKRVRPVLCIASCELVGGDESS 57
M + + +AL E + +L HP + ++ GGK +R +L + S G +
Sbjct: 1 MVPAPEAIRQALQERLLARLDHPDPLYRDLLQDYPRRGGKMLRGLLTVYSALAHGAPLEA 60
Query: 58 AMPVACALEMIHTMSLVHDDLPCMDNDDFRRGKPTNHKVFGEDTAILAGDALLSLAFEHV 117
+ A ALE+ LVHDD+ D + RRG+P H++ A+ AGDA+ + + +
Sbjct: 61 GLEAATALELFQNWVLVHDDI--EDGSEERRGRPALHRLHPMPLALNAGDAMHAEMWGLL 118
Query: 118 AAKSTEISPDRVVRAIAELGSAVGSEGLVAGEIMDIDSEGK---DVSLNELENIHLHKTA 174
A + E V G+ +D+ D+ + + HK A
Sbjct: 119 A--EGLARGLFPPEVLLEFHEVVRR--TAYGQHLDLLWTLGGTFDLRPEDYFRMVAHKAA 174
Query: 175 KLLE-AAVVCGVIIGGGNMIEVERVRKYARCIGLLFQVVDDILDVTKSSKELGKTAGKDL 233
A + G ++ G + +G FQ+VDD+L++ + GK DL
Sbjct: 175 YYTAVAPLRLGALLAGKT--PPAAYEEGGLRLGTAFQIVDDVLNLE-GGEAYGKERAGDL 231
Query: 234 VSDKATYPKLMGIENA----RKFACDLLAQATEELAYFEVARAAPLYH 277
K T L +E A R A LLA E EV
Sbjct: 232 YEGKRTLILLRFLEEAPPEERARALALLALPREAKPEAEVGWLLERLL 279
>3ipi_A Geranyltranstransferase; isoprene biosynthesis, helical bundle,
protein structure initiative II (PSI II), structural
genomics, nysgxrc; 1.90A {Methanosarcina mazei}
Length = 295
Score = 204 bits (520), Expect = 9e-65
Identities = 76/291 (26%), Positives = 130/291 (44%), Gaps = 31/291 (10%)
Query: 6 KRVNKALDETVQLRHPAKIHEAMRYSLLAGGKRVRPVLCIASCELVGGDESSAMPVACAL 65
+ V + E++ L + + + + +GGKR+RP++ + E+ G S ++ A A+
Sbjct: 12 RYVEAGIKESITLIEDPGLKKMVEHVCHSGGKRIRPIILLLVSEICSGSYSRSLNAALAV 71
Query: 66 EMIHTMSLVHDDLPCMDNDDFRRGKPTNHKVFGEDTAILAGDALLSLAFEHVAAKSTEIS 125
EM+H+ SL+HDDL +D RR P+ + FG A+L GD L++ + ++
Sbjct: 72 EMMHSASLIHDDL--LDQGLVRRNLPSAPEKFGPSGALLCGDYLIAKSIAFISPYG---- 125
Query: 126 PDRVVRAIAELGSAVGSEGLVAGEIMDIDSEGKDVSLNE-LENIHLHKTAKLLEAAVVCG 184
++V++ + G + GE++D+ E + N+ + I+ KTA L + G
Sbjct: 126 -EKVIQDFGKAGMD-----MAEGEVLDLKLEDESFGENDYFKCIY-KKTASLFAISASIG 178
Query: 185 VIIGGGNMIEVERVRKYARCIGLLFQVVDDILDVTKSSKELGKTAGKDLVSDKATYPKL- 243
GG ER + +G +Q+VDDIL+ GK+ T P +
Sbjct: 179 AYTGGAEEELAERFSHFGNALGTAYQIVDDILEFL------EVVEGKESKFTSETLPHIY 232
Query: 244 ---MGIENARKFACDLL----AQATEELAYFE--VARAAPLYHLAYYIASR 285
E A K + D + A A E L F AR L+ + YI
Sbjct: 233 MKSTSKEEALKKSIDCVKLHVAAAKETLETFRECPARDK-LFQITDYITVD 282
>3lk5_A Geranylgeranyl pyrophosphate synthase; structural genomics, protein
structure initiative, geranylge pyrophosphate synthase;
1.90A {Corynebacterium glutamicum} PDB: 3qqv_A*
Length = 380
Score = 205 bits (524), Expect = 2e-64
Identities = 72/310 (23%), Positives = 124/310 (40%), Gaps = 43/310 (13%)
Query: 5 AKRVNKALDETVQLRHP---------AKIHEAMRYSLLAGGKRVRPVLCIASCELVGG-- 53
+ V L + + + +R +L GGKR+RP+ A G
Sbjct: 22 PEVVRDRLTQFLDAQELTIADIGAPVTDAVAHLRSFVLNGGKRIRPLYAWAGFLAAQGHK 81
Query: 54 ----DESSAMPVACALEMIHTMSLVHDDLPCMDNDDFRRGKPTNHKV------------- 96
S + A +LE I +L+HDD+ +D+ D RRG PT H+
Sbjct: 82 NSSEKLESVLDAAASLEFIQACALIHDDI--IDSSDTRRGAPTVHRAVEADHRANNFEGD 139
Query: 97 ---FGEDTAILAGDALLSLAFEHVAAKSTEISPDRVVRAIAELGSAVGSEGLVAGEIMDI 153
FG +ILAGD L A + + + +S + + R ++ G+++DI
Sbjct: 140 PEHFGVSVSILAGDMALVWAEDMLQ--DSGLSAEALARTRDAWRGMR--TEVIGGQLLDI 195
Query: 154 DSEGK-DVSLNELENIHLHKTAKLL-EAAVVCGVIIGGGNMIEVERVRKYARCIGLLFQV 211
E + S+ ++++ KTA + G I GG+ ++ + Y IG+ FQ+
Sbjct: 196 YLESHANESVELADSVNRFKTAAYTIARPLHLGASIAGGSPQLIDALLHYGHDIGIAFQL 255
Query: 212 VDDILDVTKSSKELGKTAGKDLVSDKATYPKLMGIENA----RKFACDLLAQATEELAYF 267
DD+L V GK AG D+ K T + ++ A + A + A + +
Sbjct: 256 RDDLLGVFGDPAITGKPAGDDIREGKRTVLLALALQRADKQSPEAATAIRAGVGKVTSPE 315
Query: 268 EVARAAPLYH 277
++A
Sbjct: 316 DIAVITEHIR 325
>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 = 196 bits (500), Expect = 2e-61
Identities = 75/322 (23%), Positives = 128/322 (39%), Gaps = 53/322 (16%)
Query: 6 KRVNKALDETVQLRHPAKIHEAMRYSLLAGGKRVRPVLCIASCELVGG-DESSAMPVACA 64
+ L TVQL + IH + L +GGK +RP + A A
Sbjct: 26 TALQDYLLRTVQLDNQP-IHHKILALLKSGGKLLRPGYFYLFSTFGNAATPAQLQAGAAA 84
Query: 65 LEMIHTMSLVHDDLPCMDNDDFRRGKPTNHKVFGEDTAILAGDALLSLAFEHVAAKSTEI 124
+E++H +L+HDD+ +D+ RRG T +G+ AI AGD + ++ F+ V +T+
Sbjct: 85 IEILHVGTLIHDDV--IDDSPTRRGVRTIQMTYGQRNAIYAGDFMFTVYFDQVLKSTTDR 142
Query: 125 SPDRVVRAIAELGSAVGSEGLVAGEIMDIDSEGK-DVSLNE-LENIHLHKTAKLLEAAVV 182
+++ + ++ GE+ +D + D++L+ L I KTA+L +
Sbjct: 143 ---SLIQNHID-----AMHRILQGELHQMDLNYREDITLDAYLNEIA-GKTAELFALSCY 193
Query: 183 CGVIIGGGNMIEVERVRKYARCIGLLFQVVDDILDVTKSSKELGKTAGKDLVSDKATYPK 242
G + G ++R R IG +Q++DDILD K K +DL S + P
Sbjct: 194 QGAQLAGAPQSVIDRTRDIGIAIGCAYQMLDDILDYAGDPKRTQKPVLEDLRSGVYSLPL 253
Query: 243 LM-----------------------------------GIENARKFACDLLAQATEELAYF 267
L+ G+ A++ A D +A +
Sbjct: 254 LLSLSHAPRDFHKLLKKKQAMTLEDIKHVQALVAQYDGVGAAKQLAQDYTDRALTLIQQL 313
Query: 268 E--VARAAPLYHLAYYIASRQH 287
A+ + L L + R H
Sbjct: 314 PVGSAQQS-LEQLTRLLLRRDH 334
>3aqb_B Component B of hexaprenyl diphosphate synthase; prenyltransferase,
transferase; 2.40A {Micrococcus luteus} PDB: 3aqc_B*
Length = 325
Score = 192 bits (491), Expect = 5e-60
Identities = 84/325 (25%), Positives = 134/325 (41%), Gaps = 57/325 (17%)
Query: 6 KRVNKALDETVQLRHPAKIHEAMRYSLLAGGKRVRPVLCIASCELVGGDESSAMPVACAL 65
V K L E +Q I++A + L +GGKRVRP+ + S L + + A +L
Sbjct: 15 IEVEKRLYECIQSDSET-INKAAHHILSSGGKRVRPMFVLLSGFLNDTQKDDLIRTAVSL 73
Query: 66 EMIHTMSLVHDDLPCMDNDDFRRGKPTNHKVFGEDTAILAGDALLSLAFEHVAAKSTEIS 125
E++H SLVHDD +DN D RRG + H F +DTAI G LL+ A +++A I+
Sbjct: 74 ELVHMASLVHDDY--IDNSDMRRGNTSVHIAFDKDTAIRTGHFLLARALQNIA----TIN 127
Query: 126 PDRVVRAIAELGSAVGSEGLVAGEIMDIDSEGK-DVSLNE-LENIHLHKTAKLLEAAVVC 183
+ + ++ + GE + VS L I+ KTA L+EA+
Sbjct: 128 NSKFHQIFSKT-----ILEVCFGEFDQMADRFNYPVSFTAYLRRIN-RKTAILIEASCHL 181
Query: 184 GVIIGGGNMIEVERVRKYARCIGLLFQVVDDILDVTKSSKELGKTAGKDLVSDKATYPKL 243
G + + ++++ CIG+ +Q++DDILD T LGK G D+ + TYP +
Sbjct: 182 GALSSQLDEQSTYHIKQFGHCIGMSYQIIDDILDYTSDEATLGKPVGSDIRNGHITYPLM 241
Query: 244 M---------------------------------------GIENARKFACDLLAQATEEL 264
GIE A + +A L
Sbjct: 242 AAIANLKEQDDDKLEAVVKHLTSTSDDEVYQYIVSQVKQYGIEPAELLSRKYGDKAKYHL 301
Query: 265 AYFE--VARAAPLYHLAYYIASRQH 287
+ + + L + + R +
Sbjct: 302 SQLQDSNIKDY-LEEIHEKMLKRVY 325
>3oyr_A Trans-isoprenyl diphosphate synthase; isoprenyl synthase, PSI,
protein structure initiative; HET: IPE; 2.00A
{Caulobacter crescentus}
Length = 345
Score = 191 bits (488), Expect = 2e-59
Identities = 94/324 (29%), Positives = 146/324 (45%), Gaps = 58/324 (17%)
Query: 6 KRVNKALDETVQLRHPAKIHEAMRYSLLAGGKRVRPVLCIASCELVGGDESSAMPVACAL 65
VN+ + + +Q I + + AGGKR+RP++ +A+ L G D +A A+
Sbjct: 36 AGVNRLITDRMQSDVAI-IPALAEHLIAAGGKRLRPLMTVAAARLAGADNDHFQKLAAAV 94
Query: 66 EMIHTMSLVHDDLPCMDNDDFRRGKPTNHKVFGEDTAILAGDALLSLAFEHVAAKSTEIS 125
E IHT +L+HDD+ +D RRGK H ++G ++L GD L + AFE E +
Sbjct: 95 EFIHTATLLHDDV--VDGSQLRRGKVAAHLIWGGAQSVLVGDFLFARAFEL----MVETN 148
Query: 126 PDRVVRAIAELGSAVGSEGLVAGEIMDIDSEGKDVSLNE---LENIHLHKTAKLLEAAVV 182
+ + +A S V +EG E++ + D++L++ LE I KTA+L AA
Sbjct: 149 SMKALEILAR-ASRVIAEG----EVLQLMRSH-DLNLSQAVYLEIIQ-AKTAELFAAASE 201
Query: 183 CGVIIGGGNMIEVERVRKYARCIGLLFQVVDDILDVTKSSKELGKTAGKDLVSDKATYP- 241
G + G ++ + E +R Y +GL FQ+ DD LD +++ LGK AG D KAT P
Sbjct: 202 AGAVSAGVDVAKSEALRDYGLNLGLAFQLADDALDYGGATETLGKNAGDDFREGKATLPL 261
Query: 242 ---------------------------------KLM----GIENARKFACDLLAQATEEL 264
+L+ ++ A D +A L
Sbjct: 262 LLAIARSGPREAEFWERAIGRREQTEADFRRARELIIGSGALDATLDLAADYADKAKAAL 321
Query: 265 AYFE--VARAAPLYHLAYYIASRQ 286
A F R A L LA + SR+
Sbjct: 322 AMFPANDWREA-LEELADFAVSRR 344
>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 = 188 bits (479), Expect = 1e-58
Identities = 58/265 (21%), Positives = 99/265 (37%), Gaps = 22/265 (8%)
Query: 11 ALDETVQLRHPAKIHEAMRYSLLAGGKRVRPVLCIASCELVGGDESSAMPVACALEMIHT 70
++++T + + E +Y L GK+VR L A + E + EM+H
Sbjct: 1 SMEKTQETVQRI-LLEPYKYLLQLPGKQVRTKLSQAFNHWLKVPEDKLQIIIEVTEMLHN 59
Query: 71 MSLVHDDLPCMDNDDFRRGKPTNHKVFGEDTAILAGDALLSLAFEHVAAKSTEISPDRVV 130
SL+ DD+ DN RRG P H ++G + I + + + L E K + V
Sbjct: 60 ASLLIDDI--EDNSKLRRGFPVAHSIYGIPSVINSANYVYFLGLE----KVLTLDHPDAV 113
Query: 131 RAIAELGSAVGSEGLVAGEIMDIDSEGKDVSLNE---LENIHLHKTAKLLEAAVVCGVII 187
+ L G+ +DI E + KT L AV +
Sbjct: 114 KLFTR-----QLLELHQGQGLDIYWRDNYTCPTEEEYKAMVL-QKTGGLFGLAVGLMQLF 167
Query: 188 GGGNMIEVERVRKYARCIGLLFQVVDDILDVTKSSKELGKTAGKDLVSDKATYPKLMGIE 247
E ++ +GL FQ+ DD ++ K+ +DL K ++P + I
Sbjct: 168 SDYK----EDLKPLLNTLGLFFQIRDDYANLHSKEYSENKSFCEDLTEGKFSFPTIHAIW 223
Query: 248 NA--RKFACDLLAQATEELAYFEVA 270
+ ++L Q TE + +
Sbjct: 224 SRPESTQVQNILRQRTENIDIKKYC 248
>3mzv_A Decaprenyl diphosphate synthase; transferase, structural genomics,
PSI-2, protein structure initiative; 1.90A {Rhodobacter
capsulatus}
Length = 341
Score = 189 bits (481), Expect = 2e-58
Identities = 89/323 (27%), Positives = 139/323 (43%), Gaps = 57/323 (17%)
Query: 6 KRVNKALDETVQLRHPAKIHEAMRYSLLAGGKRVRPVLCIASCELVGGDESSAMPVACAL 65
VN + E + H +I E + + AGGKR+RP+L +A+ LVG + +A +
Sbjct: 23 AAVNALIRERMSSEHAPRIPEVTAHLIEAGGKRLRPMLTLAAARLVGYGGPFHVHLAATV 82
Query: 66 EMIHTMSLVHDDLPCMDNDDFRRGKPTNHKVFGEDTAILAGDALLSLAFEHVAAKSTEIS 125
E IHT +L+HDD+ +D RRG+PT + ++ +++L GD L + +F+ + +
Sbjct: 83 EFIHTATLLHDDV--VDESRQRRGRPTANLLWDNKSSVLVGDYLFARSFQLMT----DTG 136
Query: 126 PDRVVRAIAELGSAVGSEGLVAGEIMDIDSEGKDVSLNE---LENIHLHKTAKLLEAAVV 182
RV+ +A S + GE++ + + +++ E L I KTA L AA
Sbjct: 137 NMRVMEILANA-----SAVIAEGEVLQLTAAQ-NLATTEDIYLRVIR-GKTAALFSAATE 189
Query: 183 CGVIIGGGNMIEVERVRKYARCIGLLFQVVDDILDVTKSSKELGKTAGKDLVSDKATYPK 242
G IIGG +V+ + Y +G+ FQ+VDD+LD S E+GK G D K T P
Sbjct: 190 VGGIIGGAPEDQVQALFDYGDALGIAFQIVDDLLDYGGKSAEIGKNTGDDFRERKLTMPV 249
Query: 243 LM--------------------------------------GIENARKFACDLLAQATEEL 264
+ +E R A A + L
Sbjct: 250 IKAVALADEAERAFWKRVIEKGDQQDGDLEHAMALMTKHGTLEATRLAAIGWTDTARKAL 309
Query: 265 AYFE--VARAAPLYHLAYYIASR 285
A R L LA Y+ R
Sbjct: 310 AKLPDHPLRQM-LDDLADYVVER 331
>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 = 188 bits (480), Expect = 3e-58
Identities = 47/258 (18%), Positives = 101/258 (39%), Gaps = 19/258 (7%)
Query: 5 AKRVNKALDETVQLR------HPAKIHEAMRYSLLAGGKRVRPVLCIASCELVGGDESSA 58
++ +DE + + + I + + LL GK R L + ++ +
Sbjct: 3 KNKMEAKIDELINNDPVWSSQNESLISKPYNHILLKPGKNFRLNLIVQINRVMNLPKDQL 62
Query: 59 MPVACALEMIHTMSLVHDDLPCMDNDDFRRGKPTNHKVFGEDTAILAGDALLSLAFEH-V 117
V+ +E++H SL+ DD+ DN RRG+ T+H +FG + I + + A +
Sbjct: 63 AIVSQIVELLHNSSLLIDDI--EDNAPLRRGQTTSHLIFGVPSTINTANYMYFRAMQLVS 120
Query: 118 AAKSTEISPDRVVRAIAELGSAVGSEGLVAGEIMDI---DSEGK-DVSLNELENIHLHKT 173
+ E ++ E L G+ +DI D + + N+ ++KT
Sbjct: 121 QLTTKEPLYHNLITIFNE-----ELINLHRGQGLDIYWRDFLPEIIPTQEMYLNMVMNKT 175
Query: 174 AKLLEAAVVCGVIIGGGNMIEVERVRKYARCIGLLFQVVDDILDVTKSSKELGKTAGKDL 233
L + + + + + +G+++Q+ DD L++ K +D+
Sbjct: 176 GGLFRLTLRLMEALSPSSH-HGHSLVPFINLLGIIYQIRDDYLNLKDFQMSSEKGFAEDI 234
Query: 234 VSDKATYPKLMGIENARK 251
K ++P + + +
Sbjct: 235 TEGKLSFPIVHALNFTKT 252
>2azj_A Geranylgeranyl pyrophosphate synthetase; hexpps,
trans-prenyltransferase; 2.40A {Sulfolobus solfataricus}
PDB: 2azk_A
Length = 289
Score = 185 bits (471), Expect = 1e-57
Identities = 52/275 (18%), Positives = 100/275 (36%), Gaps = 23/275 (8%)
Query: 6 KRVNKALDETVQLRHPAKIHEAMRYSLLAGGKRVRPVLCIASCELVGGDESSAMPVACAL 65
+++ +++ + + + Y +L GKR R L + +GGD + A A+
Sbjct: 20 ATIDRLIEQFLNSNRDWDLVDISSY-ILKDGKRFRGTLNMFFTVALGGDIKDSYGGALAI 78
Query: 66 EMIHTMSLVHDDLPCMDNDDFRRGKPTNHKVFGEDTAILAGDALLSLAFEHVAAKSTEIS 125
E++H+ SL D+ +D D RRG V+G I + L+ A +
Sbjct: 79 EILHSASLALCDI--VDLDATRRGDKAAWVVYGNRKVIFITNYLIPTALRII----QTSY 132
Query: 126 PDRVVRAIAELGSAVGSEGLVAGEIMDIDSEGKDVSLNELENIHLHKTAKLLEAAVVCGV 185
D + EL S G + D+ + + I KT L + + V
Sbjct: 133 GDDALNTSIEL-WKDTSV----GALRDMYDNS-----DYIRTIE-LKTGSLFKLSTVLSA 181
Query: 186 IIGGGNMIEVERVRKYARCIGLLFQVVDDILDVTKSSKE----LGKTAGKDLVSDKATYP 241
+++ + +G+++QV+DD +D E K K K
Sbjct: 182 YASKHYN-TKQQMLDVGKYLGIIYQVIDDFVDYKTKKVEEIDGSAKQLFKYYREGKLEEY 240
Query: 242 KLMGIENARKFACDLLAQATEELAYFEVARAAPLY 276
++ +L++ + Y R+ P +
Sbjct: 241 VRSVYLEYKQKYDELISNIPFQSKYLSEIRSLPEF 275
>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 = 182 bits (464), Expect = 1e-55
Identities = 76/324 (23%), Positives = 121/324 (37%), Gaps = 58/324 (17%)
Query: 6 KRVNKALDETVQLRHPAKIHEAMRYSLLAGGKRVRPVLCIASCELVGGDES-SAMPVACA 64
+V + L + + + + + AGGKR RP+ + + E S + + A
Sbjct: 45 VQVEELLHTELSSGEDF-LVDIVMHLTRAGGKRFRPMFALLASEFGEKPLSENVIKAAVV 103
Query: 65 LEMIHTMSLVHDDLPCMDNDDFRRGKPTNHKVFGEDTAILAGDALLSLAFEHVAAKSTEI 124
+E+ H +L HDD+ MD RRG P+ + + AILAGD LL+ A ++
Sbjct: 104 VEITHLATLYHDDV--MDEASMRRGVPSANARWDNSVAILAGDILLAHASGLMSQ----- 156
Query: 125 SPDRVVRAIAELGSAVGSEGLVAGEIMDIDSEGKDVSLNE--LENIHLHKTAKLLEAAVV 182
V AE LV G++ + D E I KT L+ +A
Sbjct: 157 LGTDTVAHFAET-----FGELVTGQMRETVGPR-DTDPIEHYTNVIR-EKTGVLIASAGY 209
Query: 183 CGVIIGGGNMIEVERVRKYARCIGLLFQVVDDILDVTKSSKELGKTAGKDLVSDKATYPK 242
G + G ++ ++ + +G++FQ+VDDI+D+ + E GKT G DL T P
Sbjct: 210 LGAMHAGAAPEHIDALKNFGAAVGMIFQIVDDIIDIFSETHESGKTPGTDLREGVFTLPV 269
Query: 243 LM-------------------------------------GIENARKFACDLLAQATEELA 265
L G + A + A EL
Sbjct: 270 LYALREDTPVGAELRDILTGPLEDDETVNHVLELLSQSGGRQAALDEVYRYMDIANAELD 329
Query: 266 YFE--VARAAPLYHLAYYIASRQH 287
+ A L +LA + R
Sbjct: 330 RLPDSTVKEA-LRNLATFTVKRVG 352
>3tc1_A Octaprenyl pyrophosphate synthase; all alpha-helices fold,
transferase; 2.00A {Helicobacter pylori}
Length = 315
Score = 181 bits (461), Expect = 1e-55
Identities = 59/265 (22%), Positives = 109/265 (41%), Gaps = 24/265 (9%)
Query: 6 KRVNKALDETVQLRHPAKIHEAMRYSLLAGGKRVRPVLCIASCELVGGDESSAMPVACAL 65
K + + ++ I E + R + +L + + + A+ + +
Sbjct: 7 KAIQNKIASWIKEIESGFIDELFSKIGPSKMLRSKLMLALLNEKTDAILLDKALNLCTIV 66
Query: 66 EMIHTMSLVHDDLPCMDNDDFRRGKPTNHKVFGEDTAILAGDALLSLAFEHVAAKSTEIS 125
EMI T SL+HDD+ +D RR P+ + +FG A++ GD S AF ++
Sbjct: 67 EMIQTASLLHDDV--IDKATMRRKLPSINALFGNFNAVMLGDVFYSKAFFELSK-----M 119
Query: 126 PDRVVRAIAELGSAVGSEGLVAGEIMDIDSEGKDVSLNE---LENIHLHKTAKLLEAAVV 182
+ + +A++ S GEI D+ + ++ + KTA +EA++
Sbjct: 120 GELIAQALSN-AVLRLSR----GEIEDVFVGE-CFNSDKQKYWRILE-DKTAHFIEASLK 172
Query: 183 CGVIIGGGNMIEVERVRKYARCIGLLFQVVDDILDVTKSSKELGKTAGKDLVSDKATYPK 242
I+ + + + G+ FQ++DD+LD+T+ +K LGK D K T P
Sbjct: 173 SMAILLNK---DAKIYADFGLNFGMAFQIIDDLLDITQDAKTLGKPNFSDFKEGKTTLPY 229
Query: 243 LMGIENA----RKFACDLLAQATEE 263
L+ E + Q + E
Sbjct: 230 LLLYEKLNQHDQGLLISYFKQDSHE 254
>3rmg_A Octaprenyl-diphosphate synthase; structural genomics, protein
structure initiative, isoprene biosynthesis,
transferase; 2.30A {Bacteroides thetaiotaomicron}
Length = 334
Score = 180 bits (460), Expect = 2e-55
Identities = 75/324 (23%), Positives = 128/324 (39%), Gaps = 59/324 (18%)
Query: 6 KRVNKALDETVQLRHPAKIHEAMRYSLLAGGKRVRPVLCIASCELVGGDESSAMPVACAL 65
+ D + + + + + GK +RP+L + L G + + A +L
Sbjct: 18 EDFKALFDTPLSDSNAL-LDSVITHIRKRNGKMMRPILVLLVARLYGAVTPATLHAAVSL 76
Query: 66 EMIHTMSLVHDDLPCMDNDDFRRGKPTNHKVFGEDTAILAGDALLSLAFEHVAAKSTEIS 125
E++HT SLVHDD+ +D RRG+ + + +F ++LAGD LL+ + H + + +
Sbjct: 77 ELLHTASLVHDDV--VDESTERRGQLSVNAIFNNKVSVLAGDYLLATSLVH----AEQTN 130
Query: 126 PDRVVRAIAELGSAVGSEGLVAGEIMDIDSEGKDVSLNE---LENIHLHKTAKLLEAAVV 182
++R ++ L +E GE++ + + + S +E + I KTA L A
Sbjct: 131 NYEIIRLVSSL-GQKLAE----GELLQLSNVS-NHSFSEEVYFDVIR-KKTAALFAACAE 183
Query: 183 CGVIIGGGNMIEVERVRKYARCIGLLFQVVDDILDVTKSSKELGKTAGKDLVSDKATYP- 241
+ EV R IG+ FQ+ DDI D SK++GK G D++ K T P
Sbjct: 184 AAALSVQVGEEEVAFARLLGEYIGICFQIKDDIFDYF-DSKKIGKPTGNDMLEGKLTLPA 242
Query: 242 ---------------------------------KLM----GIENARKFACDLLAQATEEL 264
+ GIE A + +A + L
Sbjct: 243 LYALNTTKDAWAEQIAFKVKEGTATPDEIVRLIEFTKDNGGIEYACRTIEQYKKKAFDLL 302
Query: 265 AYFE--VARAAPLYHLAYYIASRQ 286
A A L Y+ +R+
Sbjct: 303 AALPDSNICLA-LRTYLDYVVARE 325
>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 = 177 bits (451), Expect = 2e-54
Identities = 66/242 (27%), Positives = 113/242 (46%), Gaps = 18/242 (7%)
Query: 10 KALDETVQLRHPAKIHEAMRYSLLAGGKRVRPVLCIASCELVGGDESS-AMPVACALEMI 68
+ + E ++ E + L GK +R L I S + G + A+ ALE++
Sbjct: 14 EKVKERIEQILSQFFPEQIMKDLPLYGKMLRVRLSILSFKNRGVEIGEDAISSLAALELV 73
Query: 69 HTMSLVHDDLPCMDNDDFRRGKPTNHKVFGEDTAILAGDALLSLAFEHVAAKSTEISPDR 128
H SL+HDD+ +D FRRGK T + ++G+ A+ AGD +L AF V EI ++
Sbjct: 74 HLASLLHDDV--IDGARFRRGKETINFMYGDKAAVAAGDLVLVSAFHTVE----EIGNNK 127
Query: 129 VVRAIAELGSAVGSEGLVAGEIMDIDSEGKDVSLNE-LENIHLHKTAKLLEAAVVCGVII 187
+ RA + SE E+++ S K ++ E L + K+ L A+ ++
Sbjct: 128 LRRAFLNV-IGKMSE----AELIEQLSRYKPITKEEYLRIVE-GKSGALFGLALQLPALL 181
Query: 188 GGGNMIEVERVRKYARCIGLLFQVVDDILDVTKSSKELGKTAGKDLVSDKATYPKLMGIE 247
G E + IG ++Q+ DDI+D +++GK DL + A++P + +E
Sbjct: 182 EGE---LGEDLYNLGVTIGTIYQMFDDIMDFA-GMEKIGKDGFLDLKNGVASFPLVTAME 237
Query: 248 NA 249
Sbjct: 238 KF 239
>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 = 176 bits (447), Expect = 4e-53
Identities = 53/291 (18%), Positives = 94/291 (32%), Gaps = 39/291 (13%)
Query: 19 RHPAKIHEAMRYSLLAGGKRVRPVLCIASCELVGGDESS-----------AMPVACALEM 67
+ A+ M + GGK R + + E A +E
Sbjct: 30 PNRARYLRIMMDTTCLGGKYFRGMTVVNVAEGFLAVTQHDEATKERILHDACVGGWMIEF 89
Query: 68 IHTMSLVHDDLPCMDNDDFRRGKPTNHKVFGEDTAILAGDALLSLAFEHVAAKSTEISPD 127
+ LV DD+ MD RRGKP ++ G T D ++ ++ + A
Sbjct: 90 LQAHYLVEDDI--MDGSVMRRGKPCWYRFPGVTTQCAINDGIILKSWTQIMAWHYFADRP 147
Query: 128 RVVRAIA---------ELGSAVGSEGLVAGEIMDIDSEGK------DVSLNELENIHLHK 172
+ + +G + +D + + + + I +K
Sbjct: 148 FLKDLLCLFQKVDYATAVGQMYDVTSMCDSNKLDPEVAQPMTTDFAEFTPAIYKRIVKYK 207
Query: 173 TAKLL-EAAVVCGVIIGGGNM-IEVERVRKYARCIGLLFQVVDDILDVTKSSKELGKTAG 230
T +V G+ + +E+ V + A IG FQV DD++D ++LGK G
Sbjct: 208 TTFYTYLLPLVMGLFVSEAAASVEMNLVERVAHLIGEYFQVQDDVMDCFTPPEQLGK-VG 266
Query: 231 KDLVSDKATYPKLMGIENA----RKFACDLLAQATEELAYFEVARAAPLYH 277
D+ K ++ + + A +VA LY
Sbjct: 267 TDIEDAKCSWLAVTFLGKANAAQVAEFKANYGDKDPA----KVAVVKRLYS 313
>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 = 168 bits (427), Expect = 3e-50
Identities = 85/343 (24%), Positives = 131/343 (38%), Gaps = 78/343 (22%)
Query: 6 KRVNKALDETVQLRHPAKIHEAMRYSLLAG--GKRVRPVLCIASCELVGGDESSA----- 58
++ L E V P K+ A Y G GK+ R + + + A
Sbjct: 19 SLLSNKLREMVLAEVP-KLASAAEYFFKRGVQGKQFRSTILLLMATALDVRVPEALIGES 77
Query: 59 ------------MPVACALEMIHTMSLVHDDLPCMDNDDFRRGKPTNHKVFGEDTAILAG 106
+A EMIH SL+HDD+ +D+ D RRG + + V G ++LAG
Sbjct: 78 TDIVTSELRVRQRGIAEITEMIHVASLLHDDV--LDDADTRRGVGSLNVVMGNKMSVLAG 135
Query: 107 DALLSLAFEHVAAKSTEISPDRVVRAIAELGSAVGSEGLVAGEIMDIDSEGKDVSLNE-- 164
D LLS A +A + VV +A E LV GE M+I S + +
Sbjct: 136 DFLLSRACGALA----ALKNTEVVALLATA-----VEHLVTGETMEITSST-EQRYSMDY 185
Query: 165 -LENIHLHKTAKLLEAAVVCGVIIGGGNMIEVERVRKYARCIGLLFQVVDDILDVTKSSK 223
++ + +KTA L+ + ++ G +Y R +GL FQ++DDILD T +S
Sbjct: 186 YMQKTY-YKTASLISNSCKAVAVLTGQTAEVAVLAFEYGRNLGLAFQLIDDILDFTGTSA 244
Query: 224 ELGKTAGKDLVSDKATYPKLM---------------------------------GIENAR 250
LGK + D+ T P L GI+ AR
Sbjct: 245 SLGKGSLSDIRHGVITAPILFAMEEFPQLREVVDQVEKDPRNVDIALEYLGKSKGIQRAR 304
Query: 251 KFACDLLAQATEELAYF--------EVARAAPLYHLAYYIASR 285
+ A + A + + +R A L L + + +R
Sbjct: 305 ELAMEHANLAAAAIGSLPETDNEDVKRSRRA-LIDLTHRVITR 346
>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 = 169 bits (429), Expect = 4e-50
Identities = 63/310 (20%), Positives = 114/310 (36%), Gaps = 47/310 (15%)
Query: 6 KRVNKALDETVQLRHPAKIHEAMRYSLLAGGKRVRPVLCIASCELVGGDESS------AM 59
+N+ E H +K ++ + GGK R +L I E V + + A
Sbjct: 49 SHLNEYSLEEEIKEHISKYYKLLFDYNCLGGKNNRGILVILIYEYVKNRDINSSEWEKAA 108
Query: 60 PVACALEMIHTMSLVHDDLPCMDNDDFRRGKPTNHKVFGEDTAILAGDALLSLAFEHVAA 119
+A +E++ LV DD+ MD + RR K + + +T D LL +
Sbjct: 109 CLAWCIEILQAAFLVADDI--MDKGEMRRNKYCWYLLKDVETKNAVNDVLLLYNSIYKLI 166
Query: 120 KSTEISPDRVVRAIAELGSAVGSEGLVAGEIMDIDSEGK--------------------- 158
+ + V IA A + + G+ +D +
Sbjct: 167 EIYLRNESCYVDVIATFRDA--TLKTIIGQHLDTNIFSDKYSDAHREIDVNNINVPEQPV 224
Query: 159 ----DVSLNELENIHLHKTAKLL-EAAVVCGVIIGGGNM--IEVERVRKYARCIGLLFQV 211
++ +NI +HKTA +VCG+++ G + + +++ + +G FQ+
Sbjct: 225 IDINMINFGVYKNIVIHKTAYYSFFLPIVCGMLLAGIAVDNLIYKKIEDISMLMGEYFQI 284
Query: 212 VDDILDVTKSSKELGKTAGKDLVSDKATYPKLMGIENA----RKFACDLLAQATEELAYF 267
DD LD+ S + GK G D+ ++K T+P + E + +
Sbjct: 285 HDDYLDIFGDSTKTGKV-GSDIQNNKLTWPLIKTFELCSEPDKIKIVKNYGKNNLA---- 339
Query: 268 EVARAAPLYH 277
V LY
Sbjct: 340 CVKVIDSLYE 349
>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 = 168 bits (427), Expect = 7e-50
Identities = 58/292 (19%), Positives = 96/292 (32%), Gaps = 49/292 (16%)
Query: 26 EAMRYSLLAGGKRVRPVLCIASCELVGGDESS-----------------AMPVACALEMI 68
M + GGK R + I E + + A +E +
Sbjct: 59 RKMMDTTCLGGKYNRGLTVIDVAESLLSLSPNNNGEEDDGARRKRVLHDACVCGWMIEFL 118
Query: 69 HTMSLVHDDLPCMDNDDFRRGKPTNHKVFGEDTAILAGDALLSLAFEHVAAKSTEISPDR 128
LV DD+ MDN RRGKP ++ D LL ++ H+ A
Sbjct: 119 QAHYLVEDDI--MDNSVTRRGKPCWYRHPDVTVQCAINDGLLLKSWTHMMAMHFFADRPF 176
Query: 129 VVRAIAELGSAVGSEGLVAGEIMDIDSEGK-----------------DVSLNELENIHLH 171
+ + + V G++ D+ S + +L+ + I +
Sbjct: 177 LQDLLCRF-NRVDYT-TAVGQLYDVTSMFDSNKLDPDVSQPTTTDFAEFTLSNYKRIVKY 234
Query: 172 KTAKL-LEAAVVCGVIIGGGNMIE-VERVRKYARCIGLLFQVVDDILDVTKSSKELGKTA 229
KTA +V G+I+ + + A +G FQV DD++D + LGK
Sbjct: 235 KTAYYTYLLPLVMGLIVSEALPTVDMGVTEELAMLMGEYFQVQDDVMDCFTPPERLGK-V 293
Query: 230 GKDLVSDKATYPKLMGIENA----RKFACDLLAQATEELAYFEVARAAPLYH 277
G D+ K ++ + + A E +VA LY
Sbjct: 294 GTDIQDAKCSWLAVTFLAKASSAQVAEFKANYGSGDSE----KVATVRRLYE 341
>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 = 166 bits (421), Expect = 3e-49
Identities = 57/276 (20%), Positives = 99/276 (35%), Gaps = 30/276 (10%)
Query: 21 PAKIHEAMRYSLLAGGKRVRPVLCIASCELVGGDES-------SAMPVACALEMIHTMSL 73
A++ E ++Y GGK R + +A+ + G A+ V +E+ SL
Sbjct: 56 VARLKEVLQY-NAPGGKCNRGLTVVAAYRELSGPGQKDAESLRCALAVGWCIELFQAASL 114
Query: 74 VHDDLPCMDNDDFRRGKPTNHKVFGEDTAILAGDALLSLAFEHVAAKSTEISPDRVVRAI 133
V DD+ MD RRG+ +K G + LL + V K V +
Sbjct: 115 VADDI--MDQSLTRRGQLCWYKKEGVGLDAINDSFLLESSVYRV-LKKYCRQRPYYVHLL 171
Query: 134 AELGSAVGSEGLVAGEIMDIDSEGKD------VSLNELENIHLHKTAKL--LEAAVVCGV 185
+ G+++D+ + S + I +KTA
Sbjct: 172 ELF-LQTAYQ-TELGQMLDLITAPVSKVDLSHFSEERYKAIVKYKTAFYSFYLPVAAAMY 229
Query: 186 IIGGGNMIEVERVRKYARCIGLLFQVVDDILDVTKSSKELGKTAGKDLVSDKATYPKLMG 245
++G + E E + +G FQ+ DD LD G G D+ +K ++ +
Sbjct: 230 MVGIDSKEEHENAKAILLEMGEYFQIQDDYLDCFGDPALTGA-VGTDIQDNKCSWLVVQC 288
Query: 246 IENA----RKFACDLLAQATEELAYFEVARAAPLYH 277
++ R+ D + E +VA+ LY
Sbjct: 289 LQRVTPEQRQLLEDNYGRKEPE----KVAKVKELYE 320
>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 = 166 bits (421), Expect = 3e-49
Identities = 46/254 (18%), Positives = 87/254 (34%), Gaps = 19/254 (7%)
Query: 6 KRVNKALDETVQLRHPAKIHEAMRYSLLAGGKRVRPVLCIASCELVGG----DESSAMPV 61
+ K + + + + GK +R + + L S +
Sbjct: 41 NVLKKLPLNDEIRKPVIEYYLNCIDYNVKKGKHIRGKILVLISSLSSAYSNIKRDSIYLL 100
Query: 62 ACALEMIHTMSLVHDDLPCMDNDDFRRGKPTNHKVFGEDTAILAGDALLSLAFEHVAAKS 121
+E I + L+ DD+ MD+ FRRG P + V G+ AI L L+ + S
Sbjct: 101 GWVVEAIQALILIADDI--MDSGKFRRGAPCWYIVHGQSNAINDIFFLKMLSLSLIFELS 158
Query: 122 TEISPDRVVRAIAELGSAVGSEGLVAGEIMDIDSEGK---DVSLNELENIHLHKTAKLL- 177
+ D V++ + V G+ +D+ D ++ KT++
Sbjct: 159 SVFGNDIVMKIQKIYNES--IFFTVLGQHLDLSYFDLSKADKISERYFSMVEMKTSRYTF 216
Query: 178 EAAVVCGVIIGGGNMIE--VERVRKYARCIGLLFQVVDDILDVTKSSKELGKTAGKDLVS 235
V G+ + + + + +G +QV +D+ D + D+
Sbjct: 217 YMPVFFGLTLSEIQVSSAQLNLIEAILYKLGEFYQVHNDVSDYLF-----NDSNADDICR 271
Query: 236 DKATYPKLMGIENA 249
K T+P E A
Sbjct: 272 FKLTWPLQKSFEIA 285
>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 = 150 bits (381), Expect = 2e-43
Identities = 53/278 (19%), Positives = 101/278 (36%), Gaps = 32/278 (11%)
Query: 20 HPAKIHEAMRYSLLAGGKRVRPVLCIASCELVGGDES-------SAMPVACALEMIHTMS 72
A++ E + Y GGK R + + + + A V +E++
Sbjct: 62 AIARLKEVLEY-NAIGGKYNRGLTVVVAFRELVEPRKQDADSLQRAWTVGWCVELLQAFF 120
Query: 73 LVHDDLPCMDNDDFRRGKPTNHKVFGEDT-AILAGDALLSLAFEHVAAKSTEISPDRVVR 131
LV DD+ MD+ RRG+ ++ G AI + L + + K +
Sbjct: 121 LVADDI--MDSSLTRRGQICWYQKPGVGLDAINDANLLEACIYR--LLKLYCREQPYYLN 176
Query: 132 AIAELGSAVGSEGLVAGEIMDIDSEGKD------VSLNELENIHLHKTAKLL-EAAVVCG 184
I + G+ +D+ + + + ++I +K+A +
Sbjct: 177 LIELF-LQSSYQ-TEIGQTLDLLTAPQGNVDLVRFTEKRYKSIVKYKSAFYSFYLPIAAA 234
Query: 185 VIIGGGNM-IEVERVRKYARCIGLLFQVVDDILDVTKSSKELGKTAGKDLVSDKATYPKL 243
+ + G + E +K +G FQ+ DD LD+ GK G D+ +K ++ +
Sbjct: 235 MYMAGIDGEKEHANAKKILLEMGEFFQIQDDYLDLFGDPSVTGK-IGTDIQDNKCSWLVV 293
Query: 244 MGIENA----RKFACDLLAQATEELAYFEVARAAPLYH 277
++ A + + Q E +VAR LY
Sbjct: 294 QCLQRATPEQYQILKENYGQKEAE----KVARVKALYE 327
>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 = 48.9 bits (116), Expect = 1e-06
Identities = 39/221 (17%), Positives = 71/221 (32%), Gaps = 73/221 (33%)
Query: 12 LDETV--QLRHPA------KIHEAMRYSLLAGGKRVRPVLCIA--SCELVGGDESSAMPV 61
L T Q PA E ++ + G A S +G E +A+
Sbjct: 1726 LSATQFTQ---PALTLMEKAAFEDLK----SKGLIPADA-TFAGHS---LG--EYAAL-A 1771
Query: 62 ACA----LEMIHTMSLVHDDLPCMDNDDFRRGKPTNHKVFGEDTAILAGDALLSLAFEHV 117
+ A +E + +V F RG T D + ++++ V
Sbjct: 1772 SLADVMSIES--LVEVV-----------FYRGM-TMQVAVPRDELGRSNYGMIAINPGRV 1817
Query: 118 AAKSTEISPDRVVRAIA-ELGSAVG-----SEGL---VAGEIMDIDSEGKDVSLNELENI 168
AA ++ + VV + G V E AG++ +D+ ++ +L+ I
Sbjct: 1818 AASFSQEALQYVVERVGKRTGWLVEIVNYNVENQQYVAAGDLRALDTVTNVLNFIKLQKI 1877
Query: 169 HLHKTAKLLEAAVVCGVIIGGGNMIEVERVRKYARCIGLLF 209
+L ++ + +E V G LF
Sbjct: 1878 ---DIIELQKS-------------LSLEEVE------GHLF 1896
Score = 46.2 bits (109), Expect = 9e-06
Identities = 35/219 (15%), Positives = 68/219 (31%), Gaps = 63/219 (28%)
Query: 74 VHDDLPCMDNDDFRRGKPTNHKVFGEDTAILAGDALLSLAFEH------------VAAKS 121
+ ++ M + GK K+F E + S F A
Sbjct: 1684 IRENYSAMIFETIVDGKLKTEKIFKE-----INEHSTSYTFRSEKGLLSATQFTQPALTL 1738
Query: 122 TEISPDRVVRA--IAELGSAV-G-SEG----LVA-GEIMDIDSEGKDVSLNELENIHLHK 172
E + +++ + + G S G L + ++M I+S V + +
Sbjct: 1739 MEKAAFEDLKSKGLIPADATFAGHSLGEYAALASLADVMSIESL---VEV-------VFY 1788
Query: 173 TAKLLEAAVVCGVIIGGGN--MIEVERVRKYARCIGLLF--QVVDDILD-VTKSSKEL-- 225
++ AV + G N MI + R + F + + +++ V K + L
Sbjct: 1789 RGMTMQVAVPRDEL-GRSNYGMIAINPGR-----VAASFSQEALQYVVERVGKRTGWLVE 1842
Query: 226 --------------GKTAGKDLVSDKATYPKLMGIENAR 250
G D V++ + KL I+
Sbjct: 1843 IVNYNVENQQYVAAGDLRALDTVTNVLNFIKLQKIDIIE 1881
Score = 36.6 bits (84), Expect = 0.009
Identities = 50/332 (15%), Positives = 103/332 (31%), Gaps = 106/332 (31%)
Query: 12 LDETVQLRHPAKIHEAMRYSLLAGGKRVRPVLCIASCELVGGDESSAMPVACALEMIHTM 71
+E LR +++ Y +L V ++ ++ L E + +
Sbjct: 170 FEE---LR---DLYQ--TYHVL-----VGDLIKFSAETL---SELIRTTLDAEKVFTQGL 213
Query: 72 SLVH-----DDLPCMDNDDFRRGKPTNHKVFGEDTAILAGDALLSLAFEHVAAKSTEISP 126
+++ + P + D+ P + + G ++ LA V AK +P
Sbjct: 214 NILEWLENPSNTP---DKDYLLSIPISCPLIG----------VIQLAHYVVTAKLLGFTP 260
Query: 127 DRVVRAIAELGSAVGSEGLVAGEIMDIDSEGKDVSLNELENIHL--------HKTA--KL 176
+ + G+ S+GLV + + ++ + I + ++
Sbjct: 261 GELRSYLK--GATGHSQGLVTAVAIAETDSWESFFVSVRKAITVLFFIGVRCYEAYPNTS 318
Query: 177 LEAAVVCGVIIGG-GN---MIEVERVRKYARCIGLLFQVVDDILDVTKSSKELGKT---- 228
L +++ + G M+ + L + V D ++ T S GK
Sbjct: 319 LPPSILEDSLENNEGVPSPMLSIS---------NLTQEQVQDYVNKTNSHLPAGKQVEIS 369
Query: 229 ----------AG--KDLVSDKATYPKL---MGIENA------RK-------------FAC 254
+G + L T K G++ + RK F
Sbjct: 370 LVNGAKNLVVSGPPQSLYGLNLTLRKAKAPSGLDQSRIPFSERKLKFSNRFLPVASPFHS 429
Query: 255 DLLAQATE----ELAYFEVARAA-----PLYH 277
LL A++ +L V+ A P+Y
Sbjct: 430 HLLVPASDLINKDLVKNNVSFNAKDIQIPVYD 461
>1tw3_A COMT, carminomycin 4-O-methyltransferase; anthracycline, methylate,
tailoring enzyme, polyketide, S-adenosyl-L-homocystein;
HET: SAH ERT; 2.35A {Streptomyces peucetius} SCOP:
a.4.5.29 c.66.1.12 PDB: 1tw2_A*
Length = 360
Score = 30.0 bits (68), Expect = 0.98
Identities = 21/112 (18%), Positives = 39/112 (34%), Gaps = 10/112 (8%)
Query: 46 ASCELVGGDESSAMPVACALEMIHTMSLVHDDLPCMDNDDFRRGKPTNHKVFGEDT-AIL 104
L ++ + + + LP D R G+PT ++G+ L
Sbjct: 95 VGELLADDHPAAQRAWHDLTQAVARADISFTRLP----DAIRTGRPTYESIYGKPFYEDL 150
Query: 105 AGDALLSLAFEHVAAKSTEISPDRVVRAI--AELGSAV---GSEGLVAGEIM 151
AG L +F+ + A +++ D A + + G +G A I
Sbjct: 151 AGRPDLRASFDSLLACDQDVAFDAPAAAYDWTNVRHVLDVGGGKGGFAAAIA 202
>3n0q_A Putative aromatic-ring hydroxylating dioxygenase; rieske [2Fe-2S]
domain, structural genomics, joint center FO structural
genomics, JCSG; HET: MSE; 1.80A {Ruegeria SP}
Length = 409
Score = 29.3 bits (66), Expect = 1.4
Identities = 12/50 (24%), Positives = 19/50 (38%), Gaps = 2/50 (4%)
Query: 68 IHTMSLVHDDLPCMDNDDFRRGKPTNHKVFGEDTAILAG--DALLSLAFE 115
+ T LVH D + D +R ED ++ + S A+E
Sbjct: 325 VTTKWLVHKDAVEGVDYDLQRLTEVWIATNDEDREVVEFNQMGINSPAYE 374
>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 = 28.7 bits (63), Expect = 2.6
Identities = 43/246 (17%), Positives = 79/246 (32%), Gaps = 71/246 (28%)
Query: 76 DDLPCMDNDDFRRGKPTNHKVFGEDTAILAGDAL--LSLAFEHVAAKSTEISPDRVVRAI 133
D+ C D D + + ++ D I++ DA+ F + +K E+ V +
Sbjct: 31 DNFDCKDVQDMPKSILSKEEI---DHIIMSKDAVSGTLRLFWTLLSKQEEMVQKFVEEVL 87
Query: 134 AE----LGSAVGSEGLVAGEIMDIDSEGKD-------------VS-----------LNEL 165
L S + +E + + E +D VS L EL
Sbjct: 88 RINYKFLMSPIKTEQRQPSMMTRMYIEQRDRLYNDNQVFAKYNVSRLQPYLKLRQALLEL 147
Query: 166 ---ENIHLH------KTAKLLEAAVVC-----------GVI---IGGGNMIE--VERVRK 200
+N+ + KT + A VC + + N E +E ++K
Sbjct: 148 RPAKNVLIDGVLGSGKTW-V--ALDVCLSYKVQCKMDFKIFWLNLKNCNSPETVLEMLQK 204
Query: 201 YARCIGLLFQVVDDILDVTKSSKELGKTAGKDLVSDKATYPK----LMGIENAR-----K 251
I + D K + + L+ K Y L+ ++NA+
Sbjct: 205 LLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSK-PYENCLLVLLNVQNAKAWNAFN 263
Query: 252 FACDLL 257
+C +L
Sbjct: 264 LSCKIL 269
Database: pdb70
Posted date: Sep 4, 2012 3:40 AM
Number of letters in database: 6,701,793
Number of sequences in database: 27,921
Lambda K H
0.319 0.134 0.380
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: 4,395,564
Number of extensions: 277494
Number of successful extensions: 915
Number of sequences better than 10.0: 1
Number of HSP's gapped: 736
Number of HSP's successfully gapped: 56
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)