RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= 024239
(270 letters)
>2h8o_A Geranyltranstransferase; geranyltransferase,agrobacterium
tumefaciens, structural GEN PSI-2, protein structure
initiative; 1.60A {Agrobacterium tumefaciens}
Length = 335
Score = 439 bits (1131), Expect = e-157
Identities = 110/270 (40%), Positives = 157/270 (58%), Gaps = 1/270 (0%)
Query: 1 MQHPEKIHEAMRYSLLAGGKRIRPVLCIASCELVGGDESLVMPMACALEMTHTMSLIHDD 60
+ P+ + EAMR+ +L GGKR+RP L I S L+GGD + + ALE H SL+HDD
Sbjct: 67 ITRPQNLLEAMRHGVLNGGKRLRPFLVIESVALLGGDAEAGLHVGAALECLHCYSLVHDD 126
Query: 61 LPALDNDDLRRGKPTNHKVFGEPTAILAGDALLALAFEHVAAKTVGVSTDRVVRAITELG 120
LPA+D+DDLRRG+PT H+ F E TAILAGD+LL LAF+ +A+ ++ +R + L
Sbjct: 127 LPAMDDDDLRRGQPTVHRKFDEATAILAGDSLLTLAFDIIASDDNPLAAERKAALVISLA 186
Query: 121 SALGAEGLLKGQVTDLDSEGKDVSLSELEYIHVHKTAKLLEASVVCGVIIGGGNVIEIER 180
A G G+ GQ DL +E K + + KT LL + G II G N E +R
Sbjct: 187 RAAGIGGMAGGQALDLAAEKKAPDEDGIITLQAMKTGALLRFACEAGAIIAGSNQAERQR 246
Query: 181 VRNYARCIGLLFQVVDDILDVTKSSTVLGKTAGKDLVSDKATYPKLMGIENAKKFAEELF 240
+R + IGL FQ+ DD+LD+T + +GK GKD K T L G A++ +E
Sbjct: 247 LRLFGEKIGLSFQLADDLLDLTADAATMGKATGKDAARGKGTLVALRGEAWAREKLQEQV 306
Query: 241 SQATKELAYFEVSKAAPLYHLAKYIVSRQN 270
++A++ LA + KAA L A++I R++
Sbjct: 307 AEASELLAPYG-EKAAILIAAARFIAERKS 335
>3ts7_A Geranyltranstransferase; isoprenoid synthesis, farnesyl diphosphate
synthase; 1.94A {Methylococcus capsulatus}
Length = 324
Score = 431 bits (1111), Expect = e-154
Identities = 125/271 (46%), Positives = 170/271 (62%), Gaps = 3/271 (1%)
Query: 2 QHPEKIHEAMRYSLLAGGKRIRPVLCIASCELVGGDESLVMPMACALEMTHTMSLIHDDL 61
+ PE++H+AMRYS+L GGKR+RP+L A+ + +G L+ ACA+E H SLIHDDL
Sbjct: 33 RMPERLHQAMRYSVLGGGKRMRPLLTYATGQTIGVAADLLDGPACAVEFIHVYSLIHDDL 92
Query: 62 PALDNDDLRRGKPTNHKVFGEPTAILAGDALLALAFEHVA-AKTVGVSTDRVVRAITELG 120
PA+D+DDLRRGKPT HK + E TAILAGD L ALAF +A ++ V + + I L
Sbjct: 93 PAMDDDDLRRGKPTCHKAYDEATAILAGDGLQALAFHVLAQDPSIAVPAENRIAMIETLA 152
Query: 121 SALGAEGLLKGQVTDLDSEGKDVSLSELEYIHVHKTAKLLEASVVCGVIIGGG-NVIEIE 179
A G G++ GQ DL S GK + L LE +H+ KT L+ ASV + G + +
Sbjct: 153 KASGPAGMVGGQAIDLASVGKKLDLPGLENMHIRKTGALIRASVRLACLARPGLPAEQFD 212
Query: 180 RVRNYARCIGLLFQVVDDILDVTKSSTVLGKTAGKDLVSDKATYPKLMGIENAKKFAEEL 239
R+ +YA+CIGL FQ+ DDILD + LGKT GKD +K YP L+G+ AK+ AEE+
Sbjct: 213 RLDHYAKCIGLAFQIQDDILDEESDTQTLGKTRGKDRDHNKPNYPALLGLSGAKEKAEEM 272
Query: 240 FSQATKELAYFEVSKAAPLYHLAKYIVSRQN 270
A + LA F +A L LA++I+ RQ+
Sbjct: 273 HEAALESLAGFG-PEADLLRELARFIIQRQS 302
>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 = 430 bits (1107), Expect = e-154
Identities = 126/270 (46%), Positives = 170/270 (62%), Gaps = 3/270 (1%)
Query: 3 HPEKIHEAMRYSLLAGGKRIRPVLCIASCELVGGDESLVMPMACALEMTHTMSLIHDDLP 62
+++EAMRYS++ GGKR+RP+L A+CE +GG ACA+E+ H SL+HDDLP
Sbjct: 28 ELARLYEAMRYSVMNGGKRVRPLLAYAACEALGGKPEQANGAACAVELIHAYSLVHDDLP 87
Query: 63 ALDNDDLRRGKPTNHKVFGEPTAILAGDALLALAFEHVAAKTV-GVSTDRVVRAITELGS 121
A+D+DDLRRG+PT HK F E AILAGD L +LAF + + S + +R +T L
Sbjct: 88 AMDDDDLRRGQPTTHKAFDEACAILAGDGLQSLAFSALLDPALSDASAEIRLRMVTTLAQ 147
Query: 122 ALGAEGLLKGQVTDLDSEGKDVSLSELEYIHVHKTAKLLEASVVCGVIIGGG-NVIEIER 180
A G G++ GQ DL S G + LEY+H HKT L+EASV+ G + G E++
Sbjct: 148 AAGPAGMVGGQAIDLGSVGLKLDQQALEYMHRHKTGALIEASVILGALASGRAEKGELKA 207
Query: 181 VRNYARCIGLLFQVVDDILDVTKSSTVLGKTAGKDLVSDKATYPKLMGIENAKKFAEELF 240
++ YA+ IGL FQV DDILDV + LGK G D+ DK TYP L+G+ AK++A EL
Sbjct: 208 LQTYAQAIGLAFQVQDDILDVESDTATLGKRQGADIARDKPTYPALLGLAAAKEYALELR 267
Query: 241 SQATKELAYFEVSKAAPLYHLAKYIVSRQN 270
QA L F+ + A PL LA+YIV R++
Sbjct: 268 DQALHALRPFD-AAAEPLRELARYIVERRS 296
>4f62_A Geranyltranstransferase; enzyme function initiative, structural
genomics; 2.10A {Marinomonas SP}
Length = 317
Score = 429 bits (1106), Expect = e-153
Identities = 131/269 (48%), Positives = 170/269 (63%), Gaps = 3/269 (1%)
Query: 3 HPEKIHEAMRYSLLAGGKRIRPVLCIASCELVGGDESLVMPMACALEMTHTMSLIHDDLP 62
++H AMRYSL GGKRIRP+L AS +LVG SL A ALE H SLIHDDLP
Sbjct: 29 PANQLHNAMRYSLFNGGKRIRPMLTYASAQLVGDISSLTDASAAALESIHAYSLIHDDLP 88
Query: 63 ALDNDDLRRGKPTNHKVFGEPTAILAGDALLALAFEHVAAKTVGVSTDRVVRAITELGSA 122
A+DND+LRRGKPT H F E TAILAGDAL AFE ++ T + ++ I EL A
Sbjct: 89 AMDNDELRRGKPTCHIQFDEATAILAGDALQTFAFELLSNPT-SAQPELAIKLIQELVVA 147
Query: 123 LGAEGLLKGQVTDLDSEGKDVSLSELEYIHVHKTAKLLEASVVCGVIIGGG-NVIEIERV 181
G G++ GQ+ DL SE K++SL+ELE +HVHKT L++ASV G + G ++ ++
Sbjct: 148 SGRNGMITGQMIDLSSENKNISLAELEQMHVHKTGALIKASVRMGALSTGQVKPEQLAKL 207
Query: 182 RNYARCIGLLFQVVDDILDVTKSSTVLGKTAGKDLVSDKATYPKLMGIENAKKFAEELFS 241
YA IGL FQV DDI+D+T + LGKT D ++KATYPKL+G++ AK L
Sbjct: 208 DAYAHAIGLAFQVQDDIIDLTSDTETLGKTQFSDAEANKATYPKLLGLDGAKALVVRLHE 267
Query: 242 QATKELAYFEVSKAAPLYHLAKYIVSRQN 270
QA +++ F K+ PL LA YI+ R +
Sbjct: 268 QAIAQISEFG-DKSQPLTDLANYIIDRNH 295
>1rtr_A Geranyltranstransferase; 2.50A {Staphylococcus aureus} SCOP:
a.128.1.1
Length = 301
Score = 427 bits (1101), Expect = e-153
Identities = 110/269 (40%), Positives = 154/269 (57%), Gaps = 2/269 (0%)
Query: 3 HPEKIHEAMRYSLLAGGKRIRPVLCIASCELVGGDESLVMPMACALEMTHTMSLIHDDLP 62
++ E+M YSL AGGKRIRPVL + + + + + L M A ALEM HT SLIHDDLP
Sbjct: 26 MDTQLEESMLYSLNAGGKRIRPVLLLLTLDSLNTEYELGMKSAIALEMIHTYSLIHDDLP 85
Query: 63 ALDNDDLRRGKPTNHKVFGEPTAILAGDALLALAFEHVAAKTVGVSTDRVVRAITELGSA 122
A+DNDD RRGK TNHKV+GE TAILAGDALL AFE +++ ++ + ++ + L A
Sbjct: 86 AMDNDDYRRGKLTNHKVYGEWTAILAGDALLTKAFELISSDD-RLTDEVKIKVLQRLSIA 144
Query: 123 LGAEGLLKGQVTDLDSEGKDVSLSELEYIHVHKTAKLLEASVVCGVIIGGGNVIEIERVR 182
G G++ GQ+ D+ SEG+ + L LE IH KT LL +V+ I + E +
Sbjct: 145 SGHVGMVGGQMLDMQSEGQPIDLETLEMIHKTKTGALLTFAVMSAADIANVDDTTKEHLE 204
Query: 183 NYARCIGLLFQVVDDILDVTKSSTVLGKTAGKDLVSDKATYPKLMGIENAKKFAEELFSQ 242
+Y+ +G++FQ+ DD+LD LGK G DL ++K+TY L+G + A+
Sbjct: 205 SYSYHLGMMFQIKDDLLDCYGDEAKLGKKVGSDLENNKSTYVSLLGKDGAEDKLTYHRDA 264
Query: 243 ATKELAYF-EVSKAAPLYHLAKYIVSRQN 270
A EL E L + SR +
Sbjct: 265 AVDELTQIDEQFNTKHLLEIVDLFYSRDH 293
>3uca_A Geranyltranstransferase; isoprenoid synthesis, isoprenoid
diphosphate synthase; 2.00A {Clostridium perfringens}
Length = 324
Score = 425 bits (1094), Expect = e-151
Identities = 103/269 (38%), Positives = 165/269 (61%), Gaps = 3/269 (1%)
Query: 2 QHPEKIHEAMRYSLLAGGKRIRPVLCIASCELVGGDESLVMPMACALEMTHTMSLIHDDL 61
++ + ++++M YS+ GGKRIRP+L + S + D ++ A A+EM HT SLIHDDL
Sbjct: 57 EYNKVLYDSMAYSINVGGKRIRPILMLLSYYIYKSDYKKILTPAMAIEMIHTYSLIHDDL 116
Query: 62 PALDNDDLRRGKPTNHKVFGEPTAILAGDALLALAFEHVAAKTVGVSTDRVVRAITELGS 121
P +DNDDLRRGKPTNHKVFGE A+LAGDALL A + + + ++A +
Sbjct: 117 PCMDNDDLRRGKPTNHKVFGEAIAVLAGDALLNEAMKILVDYS-LEEGKSALKATKIIAD 175
Query: 122 ALGAEGLLKGQVTDLDSEGK-DVSLSELEYIHVHKTAKLLEASVVCGVIIGGGNVIEIER 180
A G++G++ GQ+ D+ +E K ++SL EL+Y+H+ KT +L++AS++ G ++ + +I++
Sbjct: 176 AAGSDGMIGGQIVDIINEDKEEISLKELDYMHLKKTGELIKASIMSGAVLAEASEGDIKK 235
Query: 181 VRNYARCIGLLFQVVDDILDVTKSSTVLGKTAGKDLVSDKATYPKLMGIENAKKFAEELF 240
+ + +GL FQ+ DDILDV ++ LGK KD S+K Y + G+E KK +
Sbjct: 236 LEGFGYKLGLAFQIKDDILDVVGNAKDLGKNVHKDQESNKNNYITIFGLEECKKKCVNIT 295
Query: 241 SQATKELAYFEVSKAAPLYHLAKYIVSRQ 269
+ + L+ + PL L ++ R+
Sbjct: 296 EECIEILSSIK-GNTEPLKVLTMKLLERK 323
>3lom_A Geranyltranstransferase; geranyltransferase, structural genomics,
PSI, protein structure initiative, nysgrc; 2.30A
{Legionella pneumophila subsp}
Length = 313
Score = 420 bits (1081), Expect = e-150
Identities = 103/271 (38%), Positives = 147/271 (54%), Gaps = 4/271 (1%)
Query: 3 HPEKIHEAMRYSLLAGGKRIRPVLCIASCELVGGDESLVMPMACALEMTHTMSLIHDDLP 62
+I A+ Y+L +GGKRIRP+L + +L+ D+ ++ +A ALE+TH SLIHDDLP
Sbjct: 34 PAPQIRSALHYALFSGGKRIRPILVYLAGDLIDVDQGVLDIIAAALELTHCYSLIHDDLP 93
Query: 63 ALDNDDLRRGKPTNHKVFGEPTAILAGDALLALAFEHVA-AKTVGVSTDRVVRAITELGS 121
A+DNDDLRRGKP+ HK F E TAIL GD + ALA E + + + +VV L +
Sbjct: 94 AMDNDDLRRGKPSCHKAFDEATAILVGDGMQALAIEVLLMRLSPLLPAAQVVAITQVLVN 153
Query: 122 ALGAEGLLKGQVTDLDSEGK-DVSLSELEYIHVHKTAKLLEASVVCGVIIGGG-NVIEIE 179
A G G++ GQ DL K V+ +L IH+ KT KL+ A + +
Sbjct: 154 ASGISGMVSGQSLDLSELAKSSVTEEQLREIHLLKTGKLILACFEMVLAAQHEVSEQIKS 213
Query: 180 RVRNYARCIGLLFQVVDDILDVTKSSTVLGKTAGKDLVSDKATYPKLMGIENAKKFAEEL 239
+R Y + IGL+FQ+ DD LD+ + +LGK D + K T+ L + ++
Sbjct: 214 ALRTYGKHIGLVFQMQDDYLDLYAPTQILGKGRSSDQANQKTTFATLFNKQQLEEEIAVH 273
Query: 240 FSQATKELAYFEVSKAAPLYHLAKYIVSRQN 270
+ A L F SKAA L L K + +R N
Sbjct: 274 YQIAMDSLRLFG-SKAAALIELTKQLQNRSN 303
>3p8r_A Geranyltranstransferase; isoprenyl synthase, structural genomics,
PSI, protein struct initiative, nysgrc; 2.50A {Vibrio
cholerae}
Length = 302
Score = 418 bits (1077), Expect = e-149
Identities = 111/271 (40%), Positives = 150/271 (55%), Gaps = 3/271 (1%)
Query: 2 QHPEKIHEAMRYSLLAGGKRIRPVLCIASCELVGGDESLVMPMACALEMTHTMSLIHDDL 61
+ EAMRY LL GGKR RP L + +++G + S + A A+E H SLIHDDL
Sbjct: 33 FQTLPLIEAMRYGLLLGGKRARPYLVYITGQMLGCELSDLDTPASAVECIHAYSLIHDDL 92
Query: 62 PALDNDDLRRGKPTNHKVFGEPTAILAGDALLALAFEHVA-AKTVGVSTDRVVRAITELG 120
PA+D+D+LRRGKPT H F E TAIL GDAL LAF +A + V + L
Sbjct: 93 PAMDDDELRRGKPTCHIQFDEATAILTGDALQTLAFTILAEGDLSAAGETQRVAMLQALA 152
Query: 121 SALGAEGLLKGQVTDLDSEGKDVSLSELEYIHVHKTAKLLEASVVCGVIIGGGNVIE-IE 179
A GA+G+ GQ DL +E + +SL ELE IH +KT L+ ++ G + G +
Sbjct: 153 EASGAQGMCLGQALDLAAENRLISLEELETIHRNKTGALMRCAIRLGALAAGEKGRAMLP 212
Query: 180 RVRNYARCIGLLFQVVDDILDVTKSSTVLGKTAGKDLVSDKATYPKLMGIENAKKFAEEL 239
+ YA +GL FQV DDILD+ + LGK G D +K+TYP L+G+E A++ A L
Sbjct: 213 HLDRYAEAVGLAFQVQDDILDIISDTETLGKPQGSDQELNKSTYPALLGLEGAQQKAHTL 272
Query: 240 FSQATKELAYFEVSKAAPLYHLAKYIVSRQN 270
+A L L A+Y+V R+N
Sbjct: 273 LQEALLALEAIP-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 = 417 bits (1075), Expect = e-149
Identities = 120/270 (44%), Positives = 151/270 (55%), Gaps = 4/270 (1%)
Query: 3 HPEKIHEAMRYSLLAGGKRIRPVLCIASCELVGGDESLVMPMACALEMTHTMSLIHDDLP 62
+ E M+Y L GGKR+RP L A+ + G + + A A+E H SLIHDDLP
Sbjct: 28 QNTPVVETMQYGALLGGKRLRPFLVYATGHMFGVSTNTLDAPAAAVECIHAYSLIHDDLP 87
Query: 63 ALDNDDLRRGKPTNHKVFGEPTAILAGDALLALAFEHVA-AKTVGVSTDRVVRAITELGS 121
A+D+DDLRRG PT H FGE AILAGDAL LAF ++ A VS + I+EL S
Sbjct: 88 AMDDDDLRRGLPTCHVKFGEANAILAGDALQTLAFSILSDADMPEVSDRDRISMISELAS 147
Query: 122 ALGAEGLLKGQVTDLDSEGKDVSLSELEYIHVHKTAKLLEASVVCGVIIGGG-NVIEIER 180
A G G+ GQ DLD+EGK V L LE IH HKT L+ A+V G + G +
Sbjct: 148 ASGIAGMCGGQALDLDAEGKHVPLDALERIHRHKTGALIRAAVRLGALSAGDKGRRALPV 207
Query: 181 VRNYARCIGLLFQVVDDILDVTKSSTVLGKTAGKDLVSDKATYPKLMGIENAKKFAEELF 240
+ YA IGL FQV DDILDV + LGK G D K+TYP L+G+E A+K A +L
Sbjct: 208 LDKYAESIGLAFQVQDDILDVVGDTATLGKRQGADQQLGKSTYPALLGLEQARKKARDLI 267
Query: 241 SQATKELAYF--EVSKAAPLYHLAKYIVSR 268
A + L + + L LA YI+ R
Sbjct: 268 DDARQSLKQLAEQSLDTSALEALADYIIQR 297
>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 = 416 bits (1073), Expect = e-149
Identities = 177/273 (64%), Positives = 209/273 (76%), Gaps = 18/273 (6%)
Query: 2 QHPEKIHEAMRYSLLAGGKRIRPVLCIASCELVGGDESLVMPMACALEMTHTMSLIHDDL 61
+ P KIHEAMRYSLLAGGKR+RPVLCIA+CELVGG+ESL MP ACA+EM HTMSLIHDDL
Sbjct: 35 REPLKIHEAMRYSLLAGGKRVRPVLCIAACELVGGEESLAMPAACAVEMIHTMSLIHDDL 94
Query: 62 PALDNDDLRRGKPTNHKVFGEPTAILAGDALLALAFEHVAAKTVG-VSTDRVVRAITELG 120
P +DNDDLRRGKPTNHKV+GE A+LAGDALL+ AFEH+A+ T VS RVVRA+ EL
Sbjct: 95 PCMDNDDLRRGKPTNHKVYGEDVAVLAGDALLSFAFEHLASATSSEVSPARVVRAVGELA 154
Query: 121 SALGAEGLLKGQVTDLDSEGK---DVSLSELEYIHVHKTAKLLEASVVCGVIIGGGNVIE 177
A+G EGL+ GQV D+ SEG +V L L++IH+HKTA LLEAS V G IIGGG+ E
Sbjct: 155 KAIGTEGLVAGQVVDISSEGLDLNNVGLEHLKFIHLHKTAALLEASAVLGGIIGGGSDEE 214
Query: 178 IERVRNYARCIGLLFQVVDDILDVTKSSTVLGKTAGKDLVSDKATYPKLMGIENAKKFAE 237
IER+R +ARCIGLLFQVVDDILDVTKSS K TYPKLMG+E +++FAE
Sbjct: 215 IERLRKFARCIGLLFQVVDDILDVTKSS--------------KLTYPKLMGLEKSREFAE 260
Query: 238 ELFSQATKELAYFEVSKAAPLYHLAKYIVSRQN 270
+L ++A +L F+ K APL LA YI +RQN
Sbjct: 261 KLNTEARDQLLGFDSDKVAPLLALANYIANRQN 293
>3p8l_A Geranyltranstransferase; isoprenyl synthase, structural genomics,
PSI, protein struct initiative, nysgrc; 2.00A
{Enterococcus faecalis}
Length = 302
Score = 415 bits (1070), Expect = e-148
Identities = 106/270 (39%), Positives = 155/270 (57%), Gaps = 4/270 (1%)
Query: 3 HPEKIHEAMRYSLLAGGKRIRPVLCIASCELVGGD-ESLVMPMACALEMTHTMSLIHDDL 61
E++ EAM YS+ AGGKR+RP+L + + + E+ +A +LEM HT SLIHDDL
Sbjct: 34 ENERLKEAMLYSIHAGGKRLRPLLVLTTVAAFQKEMETQDYQVAASLEMIHTYSLIHDDL 93
Query: 62 PALDNDDLRRGKPTNHKVFGEPTAILAGDALLALAFEHVAAKTVGVSTDRVVRAITELGS 121
PA+D+DDLRRGKPTNHKVFGE TAILAGD LL AF+ ++ + V + +L
Sbjct: 94 PAMDDDDLRRGKPTNHKVFGEATAILAGDGLLTGAFQLLSLSQL--GLSEKVLLMQQLAK 151
Query: 122 ALGAEGLLKGQVTDLDSEGKDVSLSELEYIHVHKTAKLLEASVVCGVIIGGGNVIEIERV 181
A G +G++ GQ+ D++ E ++L EL +H KT L+E +++ G ++ I +
Sbjct: 152 AAGNQGMVSGQMGDIEGEKVSLTLEELAAVHEKKTGALIEFALIAGGVLANQTEEVIGLL 211
Query: 182 RNYARCIGLLFQVVDDILDVTKSSTVLGKTAGKDLVSDKATYPKLMGIENAKKFAEELFS 241
+A GL FQ+ DD+LD T + LGK G+D +K+TYP L+GI AK +
Sbjct: 212 TQFAHHYGLAFQIRDDLLDATSTEADLGKKVGRDEALNKSTYPALLGIAGAKDALTHQLA 271
Query: 242 QATKELAYFEVSKAA-PLYHLAKYIVSRQN 270
+ + L + + HLA + Q
Sbjct: 272 EGSAVLEKIKANVPNFSEEHLANLLTQLQL 301
>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 = 414 bits (1067), Expect = e-147
Identities = 99/272 (36%), Positives = 137/272 (50%), Gaps = 6/272 (2%)
Query: 3 HPEKIHEAMRYSLLAGGKRIRPVLCIASCELVGGD--ESLVMPMACALEMTHTMSLIHDD 60
++ AM YS+LAGGKR+RP+L +A+ + +G ALE+ HT SLIHDD
Sbjct: 32 QDAQLAAAMTYSVLAGGKRLRPLLTVATMQSLGVTFVPERHWRPVMALELLHTYSLIHDD 91
Query: 61 LPALDNDDLRRGKPTNHKVFGEPTAILAGDALLALAFEHVAAKTVGVSTDRVVRAITELG 120
LPA+DND LRRG+PTNH FG A LAGD LL LAF+ + A + + L
Sbjct: 92 LPAMDNDALRRGEPTNHVKFGAGMATLAGDGLLTLAFQWLTAT--DLPATMQAALVQALA 149
Query: 121 SALGAEGLLKGQVTDLDSEGKDVSLSELEYIHVHKTAKLLEASVVCGVIIGGGNVIEIER 180
+A G G++ GQ D+ SE ++ LS+L +H KT LL +V G+I+G +
Sbjct: 150 TAAGPSGMVAGQAKDIQSEHVNLPLSQLRVLHKEKTGALLHYAVQAGLILGQAPEAQWPA 209
Query: 181 VRNYARCIGLLFQVVDDILDVTKSSTVLGKTAGKDLVSDKATYPKLMGIENAKKFAEELF 240
+A GL FQ+ DDILDV S +GK KD K TYP +G+ A + +
Sbjct: 210 YLQFADAFGLAFQIYDDILDVVSSPAEMGKATQKDADEAKNTYPGKLGLIGANQALIDTI 269
Query: 241 SQATKELAYF--EVSKAAPLYHLAKYIVSRQN 270
L + + + R N
Sbjct: 270 HSGQAALQGLPTSTQRDDLAAFFSYFDTERVN 301
>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 = 409 bits (1053), Expect = e-145
Identities = 103/269 (38%), Positives = 147/269 (54%), Gaps = 8/269 (2%)
Query: 2 QHPEKIHEAMRYSLLAGGKRIRPVLCIASCELVGGDESLVMPMACALEMTHTMSLIHDDL 61
+ +AM Y+ GGKR+R L I S + G + MP A A+E H SL+HDD+
Sbjct: 25 LPAGDLRDAMAYAA-QGGKRLRAFLAIESAAIHGISMAQAMPAALAVEALHAYSLVHDDM 83
Query: 62 PALDNDDLRRGKPTNHKVFGEPTAILAGDALLALAFEHVAAKTVGVSTDRVVRAITELGS 121
P +DNDDLRRG PT HK + + TA+LAGDAL LAFE +G S + V + L
Sbjct: 84 PCMDNDDLRRGLPTVHKKWDDATAVLAGDALQTLAFELCTDPVLG-SAENRVALVAALAQ 142
Query: 122 ALGAEGLLKGQVTDLDSEGK--DVSLSELEYIHVHKTAKLLEASVVCGVIIGGGNVIEIE 179
A GAEG++ GQ D+ +E ++L E+ + KT L+ + G I+ G +
Sbjct: 143 ASGAEGMVYGQALDIAAETAAVPLTLDEIIRLQAGKTGALISFAAQAGAILAGA---DRG 199
Query: 180 RVRNYARCIGLLFQVVDDILDVTKSSTVLGKTAGKDLVSDKATYPKLMGIENAKKFAEEL 239
+ YA +GL FQ+ DDILDV + GK GKD + KAT+ L+G+ AK A +L
Sbjct: 200 PLTAYATALGLAFQIADDILDVEGNEEAAGKRLGKDAEAHKATFVSLLGLAGAKSRAADL 259
Query: 240 FSQATKELAYFEVSKAAPLYHLAKYIVSR 268
++A LA + A+ L A+Y++ R
Sbjct: 260 VAEAEAALAPYG-EAASTLRACARYVIER 287
>3npk_A Geranyltranstransferase; isoprene biosynthesis, SGX, structural
genomics protein structure initiative; 1.50A
{Campylobacter jejuni}
Length = 291
Score = 406 bits (1046), Expect = e-145
Identities = 96/272 (35%), Positives = 143/272 (52%), Gaps = 8/272 (2%)
Query: 2 QHPEKIHEAMRYSLLAGGKRIRPVLCIASCELVGGD-ESLVMPMACALEMTHTMSLIHDD 60
+EA+ L AGGK R L ++ + + + + +A ALE HT SLIHDD
Sbjct: 22 SFHPFFNEALALMLKAGGKHFRAQLLLSVVQSNKPELLNQALDVALALEFIHTYSLIHDD 81
Query: 61 LPALDNDDLRRGKPTNHKVFGEPTAILAGDALLALAFEHVAAKTVGVSTDRVVRAITELG 120
LPA+DN D RRG PT HK + E TAIL GDAL AF ++ + + ++ I L
Sbjct: 82 LPAMDNADFRRGIPTLHKSYDETTAILVGDALNTEAFLVLSHA--HLKDEIKIKLIKTLA 139
Query: 121 SALGAEGLLKGQVTDLDSEGKDVSLSELEYIHVHKTAKLLEASVVCGVIIGGGNVIEIER 180
G G++ GQ D E K +SL+ELE++H HKTA+L+ A++ G I N E +
Sbjct: 140 FNAGLNGMVIGQAIDCFFEDKRLSLNELEFLHTHKTARLIAAALKMGCEICELNNEESNQ 199
Query: 181 VRNYARCIGLLFQVVDDILDVTKSSTVLGKTAGKDLVSDKATYPKLMGIENAKKFAEELF 240
+ +GL+FQ+ DDI+DVT S GK D+ K ++ L+G+E A K E L
Sbjct: 200 IYKLGLKLGLIFQINDDIIDVTTSQEQSGKPTNNDI--HKNSFVNLLGLEQAIKTKENLL 257
Query: 241 SQATKELAYFEVSKAAPLYH--LAKYIVSRQN 270
++ ++L K A + + +Y+ +
Sbjct: 258 NECEQDLEKLN-EKLAQMIQNLIIQYLEGHHH 288
>3llw_A Geranyltranstransferase (ISPA); structural genomics, PSI, protein
structure initiative, nysgrc; 2.30A {Helicobacter
pylori} PDB: 3q1o_A*
Length = 311
Score = 402 bits (1034), Expect = e-143
Identities = 89/274 (32%), Positives = 144/274 (52%), Gaps = 12/274 (4%)
Query: 2 QHPEKIHEAMRYSLLAGGKRIRPVLCIASCELVGG------DESLVMPMACALEMTHTMS 55
+ +A +L GGKR RP L +A + G ++ +A ++E HT S
Sbjct: 31 SFHPYLEKAFFEMVLNGGKRFRPKLFLAVLCALVGQKDYSNQQTEYFKIALSIECLHTYS 90
Query: 56 LIHDDLPALDNDDLRRGKPTNHKVFGEPTAILAGDALLALAFEHVAAKTVGVSTDRVVRA 115
LIHDDLP +DN LRR PT H + E TA+L GDAL +FE ++ + + +V
Sbjct: 91 LIHDDLPCMDNAALRRNHPTLHAKYDETTAVLIGDALNTYSFELLSNAL--LESHIIVEL 148
Query: 116 ITELGSALGAEGLLKGQVTDLDSEGKDVSLSELEYIHVHKTAKLLEASVVCGVIIGGGNV 175
I L + G +G++ GQ D E ++L +L ++H HKTAKL+ AS++ G++ G
Sbjct: 149 IKILSANGGIKGMILGQALDCYFENTPLNLEQLTFLHEHKTAKLISASLIMGLVASGIKD 208
Query: 176 IEIER-VRNYARCIGLLFQVVDDILDVTKSSTVLGKTAGKDLVSDKATYPKLMGIENAKK 234
E+ + ++ + +GL FQV+DDI+DVT+ GKT D S K ++ L+G+E A
Sbjct: 209 EELFKWLQAFGLKMGLCFQVLDDIIDVTQDEEESGKTTHLD--SAKNSFVNLLGLERANN 266
Query: 235 FAEELFSQATKELAYFEVSKAAPLYHLAKYIVSR 268
+A+ L ++ +L + L +++
Sbjct: 267 YAQTLKTEVLNDLDALK-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 = 360 bits (927), Expect = e-127
Identities = 70/252 (27%), Positives = 109/252 (43%), Gaps = 18/252 (7%)
Query: 2 QHPEKIHEAMRYSLLAGGKRIRPVLCIASCELVGGDESLVMPMACALEMTHTMSLIHDDL 61
+ PE + M + A LC+A+CELVGGD S M A A+ + H + +H+ L
Sbjct: 23 RPPETVFGPMHHLTFAAPATAASTLCLAACELVGGDRSQAMAAAAAIHLVHAAAYVHEHL 82
Query: 62 PALDNDDLRRGKPTNHKVFGEPTAILAGDALLALAFEHVAAKT---VGVSTDRVVRAITE 118
P D KP +G +L GD ++ FE +A DR++R I E
Sbjct: 83 PLTDGSR-PVSKPAIQHKYGPNVELLTGDGIVPFGFELLAGSVDPARTDDPDRILRVIIE 141
Query: 119 LGSALGAEGLLKGQVTDLDSEGKDVSLSELEYIHVHKTAKLLEASVVCGVIIGGGNVIEI 178
+ A G EG++ G + + + SL +EY+ K ++ CG I+GG EI
Sbjct: 142 ISRAGGPEGMISGLHREEEIVDGNTSLDFIEYVCKKKYGEMHACGAACGAILGGAAEEEI 201
Query: 179 ERVRNYARCIGLL---------FQVVDD-ILDVTKSST--VLGKTAGKD--LVSDKATYP 224
+++RN+ G L Q++D+ I+ K LG GK+ L+S P
Sbjct: 202 QKLRNFGLYQGTLRGMMEMKNSHQLIDENIIGKLKELALEELGGFHGKNAELMSSLVAEP 261
Query: 225 KLMGIENAKKFA 236
L +
Sbjct: 262 SLYAAHHHHHHH 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 = 331 bits (851), Expect = e-115
Identities = 64/246 (26%), Positives = 107/246 (43%), Gaps = 8/246 (3%)
Query: 2 QHPEKIHEAMRYSLLAGGKRIRPVLCIASCELVGGDESLVMPMACALEMTHTMSLIHDDL 61
+ PE + E M + A + LC+A+CELVGGD S M A A+ + H + H++L
Sbjct: 28 RAPESVFEPMHHLTFAAPRTSASALCVAACELVGGDRSDAMAAAAAVHLMHVAAYTHENL 87
Query: 62 PALDNDDLRRGKPTNHKVFGEPTAILAGDALLALAFEHVA--AKTVGVSTDRVVRAITEL 119
P D K F +L GD ++ E +A + DR++RAI EL
Sbjct: 88 PLTDGP---MSKSEIQHKFDPNIELLTGDGIIPFGLELMARSMDPTRNNPDRILRAIIEL 144
Query: 120 GSALGAEGLLKGQVTDLDSEGKDVSLSELEYIHVHKTAKLLEASVVCGVIIGGGNVIEIE 179
+G+EG+++GQ +L + L +EY+ K L CG I+GG + +IE
Sbjct: 145 TRVMGSEGIVEGQYHELGLNQLN-DLELIEYVCKKKEGTLHACGAACGAILGGCDEDKIE 203
Query: 180 RVRNYARCIGLLFQVVDDILD-VTKSSTVLGKTAGKDLVS-DKATYPKLMGIENAKKFAE 237
++R + +G + ++ L + A K+L S + G+ +
Sbjct: 204 KLRRFGLYVGTVQGLLGKNRSGFEGRIKELKELAVKELESFGGEKIELIRGVFELEHSLA 263
Query: 238 ELFSQA 243
+
Sbjct: 264 GVEGHH 269
>3nf2_A Putative polyprenyl synthetase; isoprenyl diphosphate synthase,
structural genomics, PSI, PR structure initiative,
nysgrc; 2.20A {Streptomyces coelicolor}
Length = 352
Score = 272 bits (697), Expect = 5e-91
Identities = 79/256 (30%), Positives = 118/256 (46%), Gaps = 9/256 (3%)
Query: 3 HPEKIHEAMRYSLLAGGKRIRPVLCIASCELVGGDESLVMPMACALEMTHTMSLIHDDLP 62
H I + GGK +RP L + S E+ G + +P A A+E+ H SL+HDDL
Sbjct: 38 HFGWIDAQGNPADGDGGKAVRPALAVLSAEVTGAAPEVGVPGAVAVELVHNFSLLHDDL- 96
Query: 63 ALDNDDLRRGKPTNHKVFGEPTAILAGDALLALAFEHVAAKTVGVSTDRVVRAITELGSA 122
+D D+ RR + T KV G AIL GDAL ALA E + + + T RA L A
Sbjct: 97 -MDGDEQRRHRDTVWKVHGPAQAILVGDALFALANEVL----LELGTVEAGRATRRLTKA 151
Query: 123 LGAEGLLKGQVTDLDSEGK-DVSLSELEYIHVHKTAKLLEASVVCGVIIGGGNVIEIERV 181
+ L+ GQ D+ E + VS+ E + +KT LL + G ++GG + + +
Sbjct: 152 --SRSLIDGQAQDISYEHRDRVSVEECLEMEGNKTGALLACASSIGAVLGGADERTADTL 209
Query: 182 RNYARCIGLLFQVVDDILDVTKSSTVLGKTAGKDLVSDKATYPKLMGIENAKKFAEELFS 241
Y +GL FQ VDD+L + GK DL K + P + + +E L
Sbjct: 210 EKYGYHLGLAFQAVDDLLGIWGDPDATGKQTWSDLRQRKKSLPVVAALAAGGAASERLGE 269
Query: 242 QATKELAYFEVSKAAP 257
T + + + +
Sbjct: 270 ILTADAKASDFANFSE 285
>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 = 267 bits (684), Expect = 4e-90
Identities = 80/270 (29%), Positives = 127/270 (47%), Gaps = 17/270 (6%)
Query: 2 QHPEKIHEAMRYSLLAGGKRIRPVLCIASCELVGGDESLVMPMACALEMTHTMSLIHDDL 61
EAM YS GG RIRP+L + E +G +E ++ +A A+E+ HT SLIHDDL
Sbjct: 29 GWDLLTEEAMLYSATVGGXRIRPLLVLTLGEDLGVEEEXLLDVAVAVELFHTASLIHDDL 88
Query: 62 PALDNDDLRRGKPTNHKVFGEPTAILAGDALLALAFEHVAAKTVGVSTDRVVRAITELGS 121
P +DN D RRG P+ H+ +GE A+LAGD L LAF ++ +
Sbjct: 89 PPIDNADFRRGXPSCHRTYGEDIALLAGDGLFFLAFSQISXIG---------NSXIFEEF 139
Query: 122 ALGAEGLLKGQVTDLDSEGK--DVSLSELEYIHVHKTAKLLEASVVCGVIIGGGNVIEIE 179
+ A LL G+ D++ E + +VS +E ++ T L I+ G +
Sbjct: 140 SETAYXLLLGEAMDVEFERRXMEVSQEMVERMYAFXTGALFAFCFSAPFILXGXDH---T 196
Query: 180 RVRNYARCIGLLFQVVDDILDVTKSSTVLGKTAGKDLVSDKATYPKLMGIENAKKFAEEL 239
+ G+ FQ+ DD+ D+ S +GK GKD ++ T +GI+ A++ A+
Sbjct: 197 XMXLLGEXFGVAFQIYDDLXDILGSFEKVGKDLGKD--TEXVTLVXXVGIQXAREMADXY 254
Query: 240 FSQATKELAYFEVS-KAAPLYHLAKYIVSR 268
+ + + + L L + + R
Sbjct: 255 YEEVLXGIESEGLFRTLFLLXELXQMVEER 284
>4fp4_A Polyprenyl synthetase; isoprenoid synthesis, isoprenoid diphosphate
synthase, trans; HET: GER UNL; 2.00A {Pyrobaculum
calidifontis}
Length = 285
Score = 243 bits (623), Expect = 9e-81
Identities = 62/272 (22%), Positives = 112/272 (41%), Gaps = 27/272 (9%)
Query: 2 QHPEKIHEAMRYSLLAGGKRIRPVLCIASCELVGGDESL---VMPMACALEMTHTMSLIH 58
P + +A+R+ + GK +RP+L + + + ++ A +E+ H +SL+
Sbjct: 28 LEPISLRKAVRHYIETPGKLLRPLLLLTFTYSIDRRSIMDPRILEAAAIVELLHVVSLLQ 87
Query: 59 DDLPALDNDDLRRGKPTNHKVFGEPTAILAGDALLALAFEHVAAKTVGVSTDRVVRAITE 118
DD+ +D D RRG T ++G+ AI+A D L+A + + VV +
Sbjct: 88 DDV--MDQHDQRRGIKTPRAMYGDGRAIVASDWLIAESIKMAVN-----LGADVVTYL-- 138
Query: 119 LGSALGAEGLLKGQVTDLDSEGKDVSLSELEYIHVHKTAKLLEASVVCGVIIGGGNVIEI 178
A A+ L GQ DL+ E KTA L+EA++V ++I G I
Sbjct: 139 ---ADVAQRLSVGQALDLEGERDKA--------AEFKTAPLIEAALVMPLVILGRRE-LI 186
Query: 179 ERVRNYARCIGLLFQVVDDILDVTKSSTVLGKTAGKDLVSDKATYPKLM--GIENAKKFA 236
E + +G+L+Q DD D K+ ++ + + I ++
Sbjct: 187 ETAKKLGTKLGILYQYSDDYSDENVERPE-TKSIANEIGRYLLKIKEHVGDAIAPFERLI 245
Query: 237 EELFSQATKELAYFEVSKAAPLYHLAKYIVSR 268
+ L +A + + A LY + +
Sbjct: 246 KYLIGKALEGTLTVSRTIAENLYFQSHHHHHH 277
>1wy0_A Geranylgeranyl pyrophosphate synthetase; pyrococcus horikosh
structural genomics, riken structural
genomics/proteomics initiative, RSGI; 2.20A {Pyrococcus
horikoshii}
Length = 342
Score = 242 bits (620), Expect = 2e-79
Identities = 101/320 (31%), Positives = 151/320 (47%), Gaps = 59/320 (18%)
Query: 2 QHPEKIHEAMRYSLLAGGKRIRPVLCIASCELVGGDESLVMPMACALEMTHTMSLIHDDL 61
+ P ++EA R+ LAGGKR+RP + + S E VGGD + A A+E+ H SL+HDD+
Sbjct: 29 KDPRVLYEAARHYPLAGGKRVRPFVVLTSTEAVGGDPLRAIYPAVAIELIHNYSLVHDDI 88
Query: 62 PALDNDDLRRGKPTNHKVFGEPTAILAGDALLALAFEHVAAKTVGVSTDRVVRAITELGS 121
+D D+ RRGKPT H+++G AILAGD L + AFE VA + ++ R + +
Sbjct: 89 --MDMDETRRGKPTVHRIWGVNMAILAGDLLFSKAFEAVA--RAEIPPEKKARVLEVIVK 144
Query: 122 ALGAEGLLKGQVTDLDSEGKDVSLSELEYIHV--HKTAKLLEASVVCGVIIGGGNVIEIE 179
A + L +GQ DL+ E +++ EY+ + KT L EAS G IIG N I+
Sbjct: 145 A--SNELCEGQARDLEFEK-KSTVTIEEYMEMISGKTGALFEASAKVGGIIGTDNEEYIK 201
Query: 180 RVRNYARCIGLLFQVVDDILDVTKSSTVLGKTAGKDLVSDKATYPKLM------------ 227
+ ++ R +G+ FQ+ DD+LD+ LGK G D+ K T
Sbjct: 202 ALSSWGRNVGIAFQIWDDVLDLIADEKKLGKPVGSDIRKGKKTLIVAHFFENADEKDKQR 261
Query: 228 -------------------------------------GIENAKKFAEELFSQATKELAYF 250
I+ A + A+++ +A + L
Sbjct: 262 FLKIFGKYAGDVKGRGIIEEDIKSDVMEAIDLLKKYGSIDYAAEIAKDMIKKANEALRIL 321
Query: 251 EVSKA-APLYHLAKYIVSRQ 269
SKA L LAK+IV R+
Sbjct: 322 PKSKARMDLELLAKFIVERE 341
>4dhd_A Polyprenyl synthetase; isoprenoid synthesis, isoprenoid diphosphate
synthase, trans; 1.65A {Pyrobaculum calidifontis}
Length = 358
Score = 231 bits (590), Expect = 1e-74
Identities = 80/320 (25%), Positives = 122/320 (38%), Gaps = 66/320 (20%)
Query: 3 HPEKIHEAMRYSLLAGGKRIRPVLCIASCELVGGDESLVMPMACALEMTHTMSLIHDDLP 62
E EA+ Y + GGKR+RP+L +A+ E V G +P A +E+ H SLI+DD+
Sbjct: 29 LAEDFREAVLYQVKTGGKRLRPLLTLAAAEAVSGQWRPALPAAAIVELIHNYSLIYDDI- 87
Query: 63 ALDNDDLRRGKPTNHKVFGEPTAILAGDALLALAFEHVA-AKTVGVSTDRVVRAITELGS 121
+D D+RRG PT K FG+ AIL G E V + V I +
Sbjct: 88 -IDRGDVRRGLPTVRKAFGDNAAILVGIWYREAIEEAVLDTPKPTLFAKEVAEVIKAI-- 144
Query: 122 ALGAEGLLKGQVTDLDSEG-----------KDVSLSELEYIHV--HKTAKLLEASVVCGV 168
E G+ D+ E + ++ +YI + KT L+ A+ GV
Sbjct: 145 ---DE----GERLDILFEAAGRSDPYFVQARWREVTLDDYIKMVSLKTGALIAAAAKWGV 197
Query: 169 IIGGGNVIEIERVRNYARCIGLLFQVVDDILDVTKSSTVLGKTAGKDLVSDKATYPKLM- 227
+ + E N+ G+ FQ++DD+LD+ GK GKD+ K +
Sbjct: 198 LSVSDDRGLAEAAWNFGMAAGVAFQIIDDVLDIYGDPKKFGKEIGKDIKEHKRGNAVVAV 257
Query: 228 --------------------------------------GIENAKKFAEELFSQATKELAY 249
E A + A +A + LA
Sbjct: 258 ALSHLGEGERRRLLEILAREVVEEADVREAVALLDSVGAREEALRLAARYREEAERHLAK 317
Query: 250 FEVSKAAPLYHLAKYIVSRQ 269
+ L L +IV+R+
Sbjct: 318 IPNNGT--LKELLDFIVARE 335
>1wmw_A Geranylgeranyl diphosphate synthetase; GGPP, prenyl diphosphate
synthase, structural genom riken structural
genomics/proteomics initiative; 1.55A {Thermus
thermophilus}
Length = 330
Score = 207 bits (529), Expect = 7e-66
Identities = 63/266 (23%), Positives = 96/266 (36%), Gaps = 17/266 (6%)
Query: 3 HPEKIHEAMRYSLLAGGKRIRPVLCIASCELVGGDESLVMPMACALEMTHTMSLIHDDLP 62
+ ++ GGK +R +L + S G + A ALE+ L+HDD+
Sbjct: 23 PDPLYRDLLQDYPRRGGKMLRGLLTVYSALAHGAPLEAGLEAATALELFQNWVLVHDDI- 81
Query: 63 ALDNDDLRRGKPTNHKVFGEPTAILAGDALLALAFEHVAAKTVGVSTDRVVRAITELGSA 122
D + RRG+P H++ P A+ AGDA+ A + +A + E
Sbjct: 82 -EDGSEERRGRPALHRLHPMPLALNAGDAMHAEMWGLLAE--GLARGLFPPEVLLEFHEV 138
Query: 123 LGAEGLLKGQVTDLDSE-GKDVSLSELEYIHV--HKTAKLLE-ASVVCGVIIGGGNVIEI 178
GQ DL G L +Y + HK A A + G ++ G
Sbjct: 139 --VRRTAYGQHLDLLWTLGGTFDLRPEDYFRMVAHKAAYYTAVAPLRLGALLAGKT--PP 194
Query: 179 ERVRNYARCIGLLFQVVDDILDVTKSSTVLGKTAGKDLVSDKATYPKLMGIENA----KK 234
+G FQ+VDD+L++ GK DL K T L +E A +
Sbjct: 195 AAYEEGGLRLGTAFQIVDDVLNLE-GGEAYGKERAGDLYEGKRTLILLRFLEEAPPEERA 253
Query: 235 FAEELFSQATKELAYFEVSKAAPLYH 260
A L + + EV
Sbjct: 254 RALALLALPREAKPEAEVGWLLERLL 279
>3lk5_A Geranylgeranyl pyrophosphate synthase; structural genomics, protein
structure initiative, geranylge pyrophosphate synthase;
1.90A {Corynebacterium glutamicum} PDB: 3qqv_A*
Length = 380
Score = 199 bits (509), Expect = 2e-62
Identities = 76/333 (22%), Positives = 120/333 (36%), Gaps = 72/333 (21%)
Query: 3 HPEKIHEAMRYSLLAGGKRIRPVLCIASCELVGG------DESLVMPMACALEMTHTMSL 56
+R +L GGKRIRP+ A G V+ A +LE +L
Sbjct: 46 PVTDAVAHLRSFVLNGGKRIRPLYAWAGFLAAQGHKNSSEKLESVLDAAASLEFIQACAL 105
Query: 57 IHDDLPALDNDDLRRGKPTNHKV----------------FGEPTAILAGDALLALAFEHV 100
IHDD+ +D+ D RRG PT H+ FG +ILAGD L A + +
Sbjct: 106 IHDDI--IDSSDTRRGAPTVHRAVEADHRANNFEGDPEHFGVSVSILAGDMALVWAEDML 163
Query: 101 AAKTVGVSTDRVVRAITELGSALGAEGLLKGQVTDLDSEGK-DVSLSELEYIHVHKTAKL 159
G+S + + R ++ GQ+ D+ E + S+ + ++ KTA
Sbjct: 164 Q--DSGLSAEALARTRDAWRGM--RTEVIGGQLLDIYLESHANESVELADSVNRFKTAAY 219
Query: 160 L-EASVVCGVIIGGGNVIEIERVRNYARCIGLLFQVVDDILDVTKSSTVLGKTAGKDLVS 218
+ G I GG+ I+ + +Y IG+ FQ+ DD+L V + GK AG D+
Sbjct: 220 TIARPLHLGASIAGGSPQLIDALLHYGHDIGIAFQLRDDLLGVFGDPAITGKPAGDDIRE 279
Query: 219 DKATYPKLMGIENA----------------------------------------KKFAEE 238
K T + ++ A ++ +
Sbjct: 280 GKRTVLLALALQRADKQSPEAATAIRAGVGKVTSPEDIAVITEHIRATGAEEEVEQRISQ 339
Query: 239 LFSQATKELAYFEVSKAA--PLYHLAKYIVSRQ 269
L L ++ L LA R+
Sbjct: 340 LTESGLAHLDDVDIPDEVRAQLRALAIRSTERR 372
>3ipi_A Geranyltranstransferase; isoprene biosynthesis, helical bundle,
protein structure initiative II (PSI II), structural
genomics, nysgxrc; 1.90A {Methanosarcina mazei}
Length = 295
Score = 195 bits (497), Expect = 2e-61
Identities = 77/277 (27%), Positives = 122/277 (44%), Gaps = 31/277 (11%)
Query: 3 HPEKIHEAMRYSLLAGGKRIRPVLCIASCELVGGDESLVMPMACALEMTHTMSLIHDDLP 62
+ + + + +GGKRIRP++ + E+ G S + A A+EM H+ SLIHDDL
Sbjct: 26 EDPGLKKMVEHVCHSGGKRIRPIILLLVSEICSGSYSRSLNAALAVEMMHSASLIHDDL- 84
Query: 63 ALDNDDLRRGKPTNHKVFGEPTAILAGDALLALAFEHVAAKTVGVSTDRVVRAITELGSA 122
LD +RR P+ + FG A+L GD L+A + ++ G ++V++ + G
Sbjct: 85 -LDQGLVRRNLPSAPEKFGPSGALLCGDYLIAKSIAFIS--PYG---EKVIQDFGKAGMD 138
Query: 123 LGAEGLLKGQVTDLDSEGKDVSLSELEYIHV--HKTAKLLEASVVCGVIIGGGNVIEIER 180
+ AE G+V DL + +D S E +Y KTA L S G GG ER
Sbjct: 139 M-AE----GEVLDL--KLEDESFGENDYFKCIYKKTASLFAISASIGAYTGGAEEELAER 191
Query: 181 VRNYARCIGLLFQVVDDILDVTKSSTVLGKTAGKDLVSDKATYPKLMGIENAKK------ 234
++ +G +Q+VDDIL+ GK+ T P + +K+
Sbjct: 192 FSHFGNALGTAYQIVDDILEFL------EVVEGKESKFTSETLPHIYMKSTSKEEALKKS 245
Query: 235 --FAEELFSQATKELAYFEVSKA-APLYHLAKYIVSR 268
+ + A + L F A L+ + YI
Sbjct: 246 IDCVKLHVAAAKETLETFRECPARDKLFQITDYITVD 282
>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 = 190 bits (486), Expect = 7e-60
Identities = 64/307 (20%), Positives = 108/307 (35%), Gaps = 55/307 (17%)
Query: 3 HPEKIHEAMRYSLLAGGKRIRPVLCIASCELVGGDESLVMPMACALEMTHTMSLIHDDLP 62
+ E +Y L GK++R L A + E + + EM H SL+ DD+
Sbjct: 9 VQRILLEPYKYLLQLPGKQVRTKLSQAFNHWLKVPEDKLQIIIEVTEMLHNASLLIDDI- 67
Query: 63 ALDNDDLRRGKPTNHKVFGEPTAILAGDALLALAFEHVAAKTVGVSTDRVVRAITELGSA 122
DN LRRG P H ++G P+ I + + + L E K + + V+ T
Sbjct: 68 -EDNSKLRRGFPVAHSIYGIPSVINSANYVYFLGLE----KVLTLDHPDAVKLFTRQLLE 122
Query: 123 LGAEGLLKGQVTDLDSEGKDVSLSELEYIHV--HKTAKLLEASVVCGVIIGGGNVIEIER 180
L + GQ D+ +E EY + KT L +V + E
Sbjct: 123 L-HQ----GQGLDIYWRDNYTCPTEEEYKAMVLQKTGGLFGLAVGLMQLFSDYK----ED 173
Query: 181 VRNYARCIGLLFQVVDDILDVTKSSTVLGKTAGKDLVSDKATYP---------------- 224
++ +GL FQ+ DD ++ K+ +DL K ++P
Sbjct: 174 LKPLLNTLGLFFQIRDDYANLHSKEYSENKSFCEDLTEGKFSFPTIHAIWSRPESTQVQN 233
Query: 225 ----------------KLM----GIENAKKFAEELFSQATKELAYFEVS--KAAPLYHLA 262
+ E + +EL ++A K++ + A + HL+
Sbjct: 234 ILRQRTENIDIKKYCVHYLEDVGSFEYTRNTLKELEAKAYKQIDARGGNPELVALVKHLS 293
Query: 263 KYIVSRQ 269
K
Sbjct: 294 KMFKEEN 300
>3oyr_A Trans-isoprenyl diphosphate synthase; isoprenyl synthase, PSI,
protein structure initiative; HET: IPE; 2.00A
{Caulobacter crescentus}
Length = 345
Score = 186 bits (475), Expect = 1e-57
Identities = 89/304 (29%), Positives = 139/304 (45%), Gaps = 53/304 (17%)
Query: 7 IHEAMRYSLLAGGKRIRPVLCIASCELVGGDESLVMPMACALEMTHTMSLIHDDLPALDN 66
I + + AGGKR+RP++ +A+ L G D +A A+E HT +L+HDD+ +D
Sbjct: 53 IPALAEHLIAAGGKRLRPLMTVAAARLAGADNDHFQKLAAAVEFIHTATLLHDDV--VDG 110
Query: 67 DDLRRGKPTNHKVFGEPTAILAGDALLALAFEHVAAKTVGVSTDRVVRAITELGSALGAE 126
LRRGK H ++G ++L GD L A AFE + V ++ + + + S + AE
Sbjct: 111 SQLRRGKVAAHLIWGGAQSVLVGDFLFARAFELM----VETNSMKALEILAR-ASRVIAE 165
Query: 127 GLLKGQVTDLDSEGKDVSLSELEYIHV--HKTAKLLEASVVCGVIIGGGNVIEIERVRNY 184
G +V L D++LS+ Y+ + KTA+L A+ G + G +V + E +R+Y
Sbjct: 166 G----EVLQLMRSH-DLNLSQAVYLEIIQAKTAELFAAASEAGAVSAGVDVAKSEALRDY 220
Query: 185 ARCIGLLFQVVDDILDVTKSSTVLGKTAGKDLVSDKATYP-------------------- 224
+GL FQ+ DD LD ++ LGK AG D KAT P
Sbjct: 221 GLNLGLAFQLADDALDYGGATETLGKNAGDDFREGKATLPLLLAIARSGPREAEFWERAI 280
Query: 225 --------------KLM----GIENAKKFAEELFSQATKELAYFEVSKA-APLYHLAKYI 265
+L+ ++ A + +A LA F + L LA +
Sbjct: 281 GRREQTEADFRRARELIIGSGALDATLDLAADYADKAKAALAMFPANDWREALEELADFA 340
Query: 266 VSRQ 269
VSR+
Sbjct: 341 VSRR 344
>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 = 185 bits (473), Expect = 2e-57
Identities = 68/303 (22%), Positives = 118/303 (38%), Gaps = 50/303 (16%)
Query: 7 IHEAMRYSLLAGGKRIRPVLCIASCELVGG-DESLVMPMACALEMTHTMSLIHDDLPALD 65
IH + L +GGK +RP + + A A+E+ H +LIHDD+ +D
Sbjct: 43 IHHKILALLKSGGKLLRPGYFYLFSTFGNAATPAQLQAGAAAIEILHVGTLIHDDV--ID 100
Query: 66 NDDLRRGKPTNHKVFGEPTAILAGDALLALAFEHVAAKTVGVSTDRVVRAITELGSALGA 125
+ RRG T +G+ AI AGD + + F+ V + +++ +
Sbjct: 101 DSPTRRGVRTIQMTYGQRNAIYAGDFMFTVYFDQVL---KSTTDRSLIQNHID-----AM 152
Query: 126 EGLLKGQVTDLDSEGKDVSLSELEYIHV--HKTAKLLEASVVCGVIIGGGNVIEIERVRN 183
+L+G++ +D ++ Y++ KTA+L S G + G I+R R+
Sbjct: 153 HRILQGELHQMDLNY-REDITLDAYLNEIAGKTAELFALSCYQGAQLAGAPQSVIDRTRD 211
Query: 184 YARCIGLLFQVVDDILDVTKSSTVLGKTAGKDLVSDKATYPKLM---------------- 227
IG +Q++DDILD K +DL S + P L+
Sbjct: 212 IGIAIGCAYQMLDDILDYAGDPKRTQKPVLEDLRSGVYSLPLLLSLSHAPRDFHKLLKKK 271
Query: 228 -------------------GIENAKKFAEELFSQATKELAYFEVSKA-APLYHLAKYIVS 267
G+ AK+ A++ +A + V A L L + ++
Sbjct: 272 QAMTLEDIKHVQALVAQYDGVGAAKQLAQDYTDRALTLIQQLPVGSAQQSLEQLTRLLLR 331
Query: 268 RQN 270
R +
Sbjct: 332 RDH 334
>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 = 186 bits (473), Expect = 2e-57
Identities = 50/270 (18%), Positives = 106/270 (39%), Gaps = 11/270 (4%)
Query: 3 HPEKIHEAMRYSLLAGGKRIRPVLCIASCELVGGDESLVMPMACALEMTHTMSLIHDDLP 62
+ I + + LL GK R L + ++ + + ++ +E+ H SL+ DD+
Sbjct: 24 NESLISKPYNHILLKPGKNFRLNLIVQINRVMNLPKDQLAIVSQIVELLHNSSLLIDDI- 82
Query: 63 ALDNDDLRRGKPTNHKVFGEPTAILAGDALLALAFEHVAAKTVGVSTDRVVRAITELGSA 122
DN LRRG+ T+H +FG P+ I + + A + V+ + IT
Sbjct: 83 -EDNAPLRRGQTTSHLIFGVPSTINTANYMYFRAMQLVSQ--LTTKEPLYHNLITIFNEE 139
Query: 123 LGAEGLLKGQVTDLDSEG--KDVSLSELEYIHV--HKTAKLLEASVVCGVIIGGGNVIEI 178
L L +GQ D+ ++ ++ Y+++ +KT L ++ + +
Sbjct: 140 LIN--LHRGQGLDIYWRDFLPEIIPTQEMYLNMVMNKTGGLFRLTLRLMEALSPSSH-HG 196
Query: 179 ERVRNYARCIGLLFQVVDDILDVTKSSTVLGKTAGKDLVSDKATYPKLMGIENAKKFAEE 238
+ + +G+++Q+ DD L++ K +D+ K ++P + + K +
Sbjct: 197 HSLVPFINLLGIIYQIRDDYLNLKDFQMSSEKGFAEDITEGKLSFPIVHALNFTKTKGQT 256
Query: 239 LFSQATKELAYFEVSKAAPLYHLAKYIVSR 268
+ S L + +
Sbjct: 257 EQHNEILRILLLRTSDKDIKLKLIQILEFD 286
>3aqb_B Component B of hexaprenyl diphosphate synthase; prenyltransferase,
transferase; 2.40A {Micrococcus luteus} PDB: 3aqc_B*
Length = 325
Score = 183 bits (467), Expect = 1e-56
Identities = 74/304 (24%), Positives = 129/304 (42%), Gaps = 54/304 (17%)
Query: 7 IHEAMRYSLLAGGKRIRPVLCIASCELVGGDESLVMPMACALEMTHTMSLIHDDLPALDN 66
I++A + L +GGKR+RP+ + S L + ++ A +LE+ H SL+HDD +DN
Sbjct: 32 INKAAHHILSSGGKRVRPMFVLLSGFLNDTQKDDLIRTAVSLELVHMASLVHDDY--IDN 89
Query: 67 DDLRRGKPTNHKVFGEPTAILAGDALLALAFEHVAAKTVGVSTDRVVRAITELGSALGAE 126
D+RRG + H F + TAI G LLA A +++ ++ + + ++ +
Sbjct: 90 SDMRRGNTSVHIAFDKDTAIRTGHFLLARALQNI----ATINNSKFHQIFSKTILEV-CF 144
Query: 127 GLLKGQVTDLDSEGKDVSLSELEYIHV--HKTAKLLEASVVCGVIIGGGNVIEIERVRNY 184
G + + + +S Y+ KTA L+EAS G + + ++ +
Sbjct: 145 G----EFDQMADRF-NYPVSFTAYLRRINRKTAILIEASCHLGALSSQLDEQSTYHIKQF 199
Query: 185 ARCIGLLFQVVDDILDVTKSSTVLGKTAGKDLVSDKATYPKLM----------------- 227
CIG+ +Q++DDILD T LGK G D+ + TYP +
Sbjct: 200 GHCIGMSYQIIDDILDYTSDEATLGKPVGSDIRNGHITYPLMAAIANLKEQDDDKLEAVV 259
Query: 228 ----------------------GIENAKKFAEELFSQATKELAYFEVSKA-APLYHLAKY 264
GIE A+ + + +A L+ + S L + +
Sbjct: 260 KHLTSTSDDEVYQYIVSQVKQYGIEPAELLSRKYGDKAKYHLSQLQDSNIKDYLEEIHEK 319
Query: 265 IVSR 268
++ R
Sbjct: 320 MLKR 323
>3mzv_A Decaprenyl diphosphate synthase; transferase, structural genomics,
PSI-2, protein structure initiative; 1.90A {Rhodobacter
capsulatus}
Length = 341
Score = 183 bits (467), Expect = 2e-56
Identities = 83/303 (27%), Positives = 132/303 (43%), Gaps = 53/303 (17%)
Query: 7 IHEAMRYSLLAGGKRIRPVLCIASCELVGGDESLVMPMACALEMTHTMSLIHDDLPALDN 66
I E + + AGGKR+RP+L +A+ LVG + +A +E HT +L+HDD+ +D
Sbjct: 41 IPEVTAHLIEAGGKRLRPMLTLAAARLVGYGGPFHVHLAATVEFIHTATLLHDDV--VDE 98
Query: 67 DDLRRGKPTNHKVFGEPTAILAGDALLALAFEHVAAKTVGVSTDRVVRAITELGSALGAE 126
RRG+PT + ++ +++L GD L A +F+ + RV+ + + + AE
Sbjct: 99 SRQRRGRPTANLLWDNKSSVLVGDYLFARSFQLM----TDTGNMRVMEILANASAVI-AE 153
Query: 127 GLLKGQVTDLDSEGKDVSLSELEYIHV--HKTAKLLEASVVCGVIIGGGNVIEIERVRNY 184
G +V L + +++ +E Y+ V KTA L A+ G IIGG +++ + +Y
Sbjct: 154 G----EVLQLTAAQ-NLATTEDIYLRVIRGKTAALFSAATEVGGIIGGAPEDQVQALFDY 208
Query: 185 ARCIGLLFQVVDDILDVTKSSTVLGKTAGKDLVSDKATYPKLM----------------- 227
+G+ FQ+VDD+LD S +GK G D K T P +
Sbjct: 209 GDALGIAFQIVDDLLDYGGKSAEIGKNTGDDFRERKLTMPVIKAVALADEAERAFWKRVI 268
Query: 228 ---------------------GIENAKKFAEELFSQATKELAYFEVSKA-APLYHLAKYI 265
+E + A A K LA L LA Y+
Sbjct: 269 EKGDQQDGDLEHAMALMTKHGTLEATRLAAIGWTDTARKALAKLPDHPLRQMLDDLADYV 328
Query: 266 VSR 268
V R
Sbjct: 329 VER 331
>2azj_A Geranylgeranyl pyrophosphate synthetase; hexpps,
trans-prenyltransferase; 2.40A {Sulfolobus solfataricus}
PDB: 2azk_A
Length = 289
Score = 175 bits (447), Expect = 3e-54
Identities = 54/263 (20%), Positives = 91/263 (34%), Gaps = 27/263 (10%)
Query: 3 HPEKIHEAMRYSLLAGGKRIRPVLCIASCELVGGDESLVMPMACALEMTHTMSLIHDDLP 62
+ + Y +L GKR R L + +GGD A A+E+ H+ SL D+
Sbjct: 34 RDWDLVDISSY-ILKDGKRFRGTLNMFFTVALGGDIKDSYGGALAIEILHSASLALCDI- 91
Query: 63 ALDNDDLRRGKPTNHKVFGEPTAILAGDALLALAFEHVAAKTVGVSTDRVVRAITELGSA 122
+D D RRG V+G I + L+ A + D + EL
Sbjct: 92 -VDLDATRRGDKAAWVVYGNRKVIFITNYLIPTALRII----QTSYGDDALNTSIELWKD 146
Query: 123 LGAEGLLKGQVTDLDSEGKDVSLSELEYIHV--HKTAKLLEASVVCGVIIGGGNVIEIER 180
+ G + D+ +YI KT L + S V ++
Sbjct: 147 T-SV----GALRDM--------YDNSDYIRTIELKTGSLFKLSTVLSAYASKHYN-TKQQ 192
Query: 181 VRNYARCIGLLFQVVDDILDVTKSST----VLGKTAGKDLVSDKATYPKLMGIENAKKFA 236
+ + + +G+++QV+DD +D K K K K+
Sbjct: 193 MLDVGKYLGIIYQVIDDFVDYKTKKVEEIDGSAKQLFKYYREGKLEEYVRSVYLEYKQKY 252
Query: 237 EELFSQATKELAYFEVSKAAPLY 259
+EL S + Y ++ P +
Sbjct: 253 DELISNIPFQSKYLSEIRSLPEF 275
>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 = 178 bits (452), Expect = 4e-54
Identities = 49/284 (17%), Positives = 89/284 (31%), Gaps = 39/284 (13%)
Query: 9 EAMRYSLLAGGKRIRPVLCIASCELVGGDES-----------LVMPMACALEMTHTMSLI 57
M + GGK R + + E +E L+
Sbjct: 37 RIMMDTTCLGGKYFRGMTVVNVAEGFLAVTQHDEATKERILHDACVGGWMIEFLQAHYLV 96
Query: 58 HDDLPALDNDDLRRGKPTNHKVFGEPTAILAGDALLALAFEHVAAKTVGVSTDRVVRAI- 116
DD+ D +RRGKP ++ G T D ++ ++ + A + +
Sbjct: 97 EDDIM--DGSVMRRGKPCWYRFPGVTTQCAINDGIILKSWTQIMAWHYFADRPFLKDLLC 154
Query: 117 --------TELGSALGAEGLLKGQVTDLDSEGK------DVSLSELEYIHVHKTAKLL-E 161
T +G + D + + + + + I +KT
Sbjct: 155 LFQKVDYATAVGQMYDVTSMCDSNKLDPEVAQPMTTDFAEFTPAIYKRIVKYKTTFYTYL 214
Query: 162 ASVVCGVIIGGGNV-IEIERVRNYARCIGLLFQVVDDILDVTKSSTVLGKTAGKDLVSDK 220
+V G+ + +E+ V A IG FQV DD++D LGK G D+ K
Sbjct: 215 LPLVMGLFVSEAAASVEMNLVERVAHLIGEYFQVQDDVMDCFTPPEQLGK-VGTDIEDAK 273
Query: 221 ATYPKLMGIENA----KKFAEELFSQATKELAYFEVSKAAPLYH 260
++ + + A + + +V+ LY
Sbjct: 274 CSWLAVTFLGKANAAQVAEFKANYGDKDPA----KVAVVKRLYS 313
>3rmg_A Octaprenyl-diphosphate synthase; structural genomics, protein
structure initiative, isoprene biosynthesis,
transferase; 2.30A {Bacteroides thetaiotaomicron}
Length = 334
Score = 176 bits (448), Expect = 9e-54
Identities = 80/304 (26%), Positives = 123/304 (40%), Gaps = 54/304 (17%)
Query: 7 IHEAMRYSLLAGGKRIRPVLCIASCELVGGDESLVMPMACALEMTHTMSLIHDDLPALDN 66
+ + + GK +RP+L + L G + A +LE+ HT SL+HDD+ +D
Sbjct: 35 LDSVITHIRKRNGKMMRPILVLLVARLYGAVTPATLHAAVSLELLHTASLVHDDV--VDE 92
Query: 67 DDLRRGKPTNHKVFGEPTAILAGDALLALAFEHVAAKTVGVSTDRVVRAITELGSALGAE 126
RRG+ + + +F ++LAGD LLA + H + ++R ++ LG L AE
Sbjct: 93 STERRGQLSVNAIFNNKVSVLAGDYLLATSLVHA----EQTNNYEIIRLVSSLGQKL-AE 147
Query: 127 GLLKGQVTDLDSEGKDVSLSELEYIHV--HKTAKLLEASVVCGVIIGGGNVIEIERVRNY 184
G L Q++++ + S SE Y V KTA L A + E+ R
Sbjct: 148 GELL-QLSNV----SNHSFSEEVYFDVIRKKTAALFAACAEAAALSVQVGEEEVAFARLL 202
Query: 185 ARCIGLLFQVVDDILDVTKSSTVLGKTAGKDLVSDKATYP-------------------- 224
IG+ FQ+ DDI D S +GK G D++ K T P
Sbjct: 203 GEYIGICFQIKDDIFDYFDSKK-IGKPTGNDMLEGKLTLPALYALNTTKDAWAEQIAFKV 261
Query: 225 --------------KLM----GIENAKKFAEELFSQATKELAYFEVSKA-APLYHLAKYI 265
+ GIE A + E+ +A LA S L Y+
Sbjct: 262 KEGTATPDEIVRLIEFTKDNGGIEYACRTIEQYKKKAFDLLAALPDSNICLALRTYLDYV 321
Query: 266 VSRQ 269
V+R+
Sbjct: 322 VARE 325
>3tc1_A Octaprenyl pyrophosphate synthase; all alpha-helices fold,
transferase; 2.00A {Helicobacter pylori}
Length = 315
Score = 171 bits (435), Expect = 5e-52
Identities = 61/297 (20%), Positives = 111/297 (37%), Gaps = 51/297 (17%)
Query: 7 IHEAMRYSLLAGGKRIRPVLCIASCELVGGDESLVMPMACALEMTHTMSLIHDDLPALDN 66
I E + R + +L + + + + + +EM T SL+HDD+ +D
Sbjct: 25 IDELFSKIGPSKMLRSKLMLALLNEKTDAILLDKALNLCTIVEMIQTASLLHDDV--IDK 82
Query: 67 DDLRRGKPTNHKVFGEPTAILAGDALLALAFEHVAAKTVGVSTDRVVRAITELGSALGAE 126
+RR P+ + +FG A++ GD + AF + ++ +
Sbjct: 83 ATMRRKLPSINALFGNFNAVMLGDVFYSKAFFEL------SKMGELIAQALSNAVLRLSR 136
Query: 127 GLLKGQVTDLDSEGKDVSLSELEYIHV--HKTAKLLEASVVCGVIIGGGNVIEIERVRNY 184
G++ D+ + + +Y + KTA +EAS+ I+ + + ++
Sbjct: 137 ----GEIEDVFVGE-CFNSDKQKYWRILEDKTAHFIEASLKSMAILLNK---DAKIYADF 188
Query: 185 ARCIGLLFQVVDDILDVTKSSTVLGKTAGKDLVSDKATYPKLMGIENA----KKFAEELF 240
G+ FQ++DD+LD+T+ + LGK D K T P L+ E + F
Sbjct: 189 GLNFGMAFQIIDDLLDITQDAKTLGKPNFSDFKEGKTTLPYLLLYEKLNQHDQGLLISYF 248
Query: 241 SQ--------------------ATKELAYFEVSKA---------APLYHLAKYIVSR 268
Q T + A KA L LA+ ++SR
Sbjct: 249 KQDSHEIIEWTKEKFKQYGIIEETLKTAQVYSKKALEAIKGENNLILEKLAQDVISR 305
>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 = 171 bits (436), Expect = 9e-52
Identities = 78/303 (25%), Positives = 119/303 (39%), Gaps = 55/303 (18%)
Query: 7 IHEAMRYSLLAGGKRIRPVLCIASCELVGGDESL-VMPMACALEMTHTMSLIHDDLPALD 65
+ + + + AGGKR RP+ + + E S V+ A +E+TH +L HDD+ +D
Sbjct: 62 LVDIVMHLTRAGGKRFRPMFALLASEFGEKPLSENVIKAAVVVEITHLATLYHDDV--MD 119
Query: 66 NDDLRRGKPTNHKVFGEPTAILAGDALLALAFEHVAAKTVGVSTDRVVRAITELGSALGA 125
+RRG P+ + + AILAGD LLA A ++ +G V E L
Sbjct: 120 EASMRRGVPSANARWDNSVAILAGDILLAHASGLMSQ--LG---TDTVAHFAETFGEL-V 173
Query: 126 EGLLKGQVTDLDSEGKDVSLSELEYIHV--HKTAKLLEASVVCGVIIGGGNVIEIERVRN 183
G Q+ + D E Y +V KT L+ ++ G + G I+ ++N
Sbjct: 174 TG----QMRETVGPR-DTDPIE-HYTNVIREKTGVLIASAGYLGAMHAGAAPEHIDALKN 227
Query: 184 YARCIGLLFQVVDDILDVTKSSTVLGKTAGKDLVSDKATYPKLM---------------- 227
+ +G++FQ+VDDI+D+ + GKT G DL T P L
Sbjct: 228 FGAAVGMIFQIVDDIIDIFSETHESGKTPGTDLREGVFTLPVLYALREDTPVGAELRDIL 287
Query: 228 ---------------------GIENAKKFAEELFSQATKELAYFEVSKA-APLYHLAKYI 265
G + A A EL S L +LA +
Sbjct: 288 TGPLEDDETVNHVLELLSQSGGRQAALDEVYRYMDIANAELDRLPDSTVKEALRNLATFT 347
Query: 266 VSR 268
V R
Sbjct: 348 VKR 350
>1v4e_A Octoprenyl-diphosphate synthase; trans-type prenyltransferase,
thermophilic; 2.28A {Thermotoga maritima} SCOP:
a.128.1.1 PDB: 1v4j_A 1wkz_A 1vg2_A 1wl3_A 1wl0_A 1wl2_A
1v4h_A 1v4i_A 1v4k_A 2azl_A 1wl1_A 1vg4_A 1vg3_A 1vg6_A
1vg7_A
Length = 299
Score = 168 bits (429), Expect = 2e-51
Identities = 61/245 (24%), Positives = 110/245 (44%), Gaps = 21/245 (8%)
Query: 7 IHEAMRYSLLAGGKRIRPVLCIASCELVGGDES-LVMPMACALEMTHTMSLIHDDLPALD 65
E + L GK +R L I S + G + + ALE+ H SL+HDD+ +D
Sbjct: 28 FPEQIMKDLPLYGKMLRVRLSILSFKNRGVEIGEDAISSLAALELVHLASLLHDDV--ID 85
Query: 66 NDDLRRGKPTNHKVFGEPTAILAGDALLALAFEHVAAKTVGVSTDRVVRAITELGSALGA 125
RRGK T + ++G+ A+ AGD +L AF V + +++ RA + + +
Sbjct: 86 GARFRRGKETINFMYGDKAAVAAGDLVLVSAFHTV----EEIGNNKLRRAFLNVIGKM-S 140
Query: 126 EGLLKGQVTDLDSEGKDVSLSELEYIHV--HKTAKLLEASVVCGVIIGGGNVIEIERVRN 183
E ++ + S K +++ EY+ + K+ L ++ ++ G E + N
Sbjct: 141 E----AELIEQLSRYKP--ITKEEYLRIVEGKSGALFGLALQLPALLEGE---LGEDLYN 191
Query: 184 YARCIGLLFQVVDDILDVTKSSTVLGKTAGKDLVSDKATYPKLMGIENAKKFAEELFSQA 243
IG ++Q+ DDI+D +GK DL + A++P + +E + A ++F
Sbjct: 192 LGVTIGTIYQMFDDIMDFA-GMEKIGKDGFLDLKNGVASFPLVTAMEKFPE-ARQMFENR 249
Query: 244 TKELA 248
Sbjct: 250 DWSGL 254
>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 = 164 bits (417), Expect = 6e-49
Identities = 55/318 (17%), Positives = 101/318 (31%), Gaps = 59/318 (18%)
Query: 4 PEKIHEAMRYSLLAGGKRIRPVLCIASCELVGGDES-------LVMPMACALEMTHTMSL 56
++ E ++Y GGK R + +A+ + G + + +E+ SL
Sbjct: 56 VARLKEVLQY-NAPGGKCNRGLTVVAAYRELSGPGQKDAESLRCALAVGWCIELFQAASL 114
Query: 57 IHDDLPALDNDDLRRGKPTNHKVFGEPTAILAGDALLALAFEHVAAKTVGVSTDRVVRAI 116
+ DD+ +D RRG+ +K G + LL + V K V +
Sbjct: 115 VADDI--MDQSLTRRGQLCWYKKEGVGLDAINDSFLLESSVYRV-LKKYCRQRPYYVHLL 171
Query: 117 TELGSALGAEGLLKGQVTDLDSEGKD----VSLSELEYIHV--HKTAKL--LEASVVCGV 168
A GQ+ DL + SE Y + +KTA
Sbjct: 172 ELFLQT--AYQTELGQMLDLITAPVSKVDLSHFSEERYKAIVKYKTAFYSFYLPVAAAMY 229
Query: 169 IIGGGNVIEIERVRNYARCIGLLFQVVDDILDVTKSSTVLGKTAGKDLVSDKATYPKLMG 228
++G + E E + +G FQ+ DD LD + G G D+ +K ++ +
Sbjct: 230 MVGIDSKEEHENAKAILLEMGEYFQIQDDYLDCFGDPALTGA-VGTDIQDNKCSWLVVQC 288
Query: 229 IENA------------------------------------KKFAEELFSQATKELAYFEV 252
++ +++ E + + + +
Sbjct: 289 LQRVTPEQRQLLEDNYGRKEPEKVAKVKELYEAVGMRAAFQQYEESSYRRLQELIEKHSN 348
Query: 253 S-KAAPLYHLAKYIVSRQ 269
LA+ I RQ
Sbjct: 349 RLPKEIFLGLAQKIYKRQ 366
>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 = 163 bits (413), Expect = 4e-48
Identities = 52/278 (18%), Positives = 88/278 (31%), Gaps = 45/278 (16%)
Query: 9 EAMRYSLLAGGKRIRPVLCIASCELVGGDES-----------------LVMPMACALEMT 51
M + GGK R + I E + +E
Sbjct: 59 RKMMDTTCLGGKYNRGLTVIDVAESLLSLSPNNNGEEDDGARRKRVLHDACVCGWMIEFL 118
Query: 52 HTMSLIHDDLPALDNDDLRRGKPTNHKVFGEPTAILAGDALLALAFEHVAAKTVGVSTDR 111
L+ DD+ +DN RRGKP ++ D LL ++ H+ A
Sbjct: 119 QAHYLVEDDI--MDNSVTRRGKPCWYRHPDVTVQCAINDGLLLKSWTHMMAMHFFADRPF 176
Query: 112 VVRAITELGSALGAEGLLKGQVTDLDSEGK-----------------DVSLSELEYIHVH 154
+ + GQ+ D+ S + +LS + I +
Sbjct: 177 LQDLLCRFNRV--DYTTAVGQLYDVTSMFDSNKLDPDVSQPTTTDFAEFTLSNYKRIVKY 234
Query: 155 KTAKL-LEASVVCGVIIGGGN-VIEIERVRNYARCIGLLFQVVDDILDVTKSSTVLGKTA 212
KTA +V G+I+ +++ A +G FQV DD++D LGK
Sbjct: 235 KTAYYTYLLPLVMGLIVSEALPTVDMGVTEELAMLMGEYFQVQDDVMDCFTPPERLGK-V 293
Query: 213 GKDLVSDKATYPKLMGIENA----KKFAEELFSQATKE 246
G D+ K ++ + + A + + E
Sbjct: 294 GTDIQDAKCSWLAVTFLAKASSAQVAEFKANYGSGDSE 331
>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 = 159 bits (404), Expect = 5e-47
Identities = 45/244 (18%), Positives = 82/244 (33%), Gaps = 25/244 (10%)
Query: 2 QHPEKIHEAMRYSLLAGGKRIRPVLCIASCELVGGDESL----VMPMACALEMTHTMSLI 57
+ + + + GK IR + + L ++ + + +E + LI
Sbjct: 54 KPVIEYYLNCIDYNVKKGKHIRGKILVLISSLSSAYSNIKRDSIYLLGWVVEAIQALILI 113
Query: 58 HDDLPALDNDDLRRGKPTNHKVFGEPTAILAGDALLALAFEHVAAKTVGVSTDRVVRAIT 117
DD+ +D+ RRG P + V G+ AI L L+ + + D V++
Sbjct: 114 ADDI--MDSGKFRRGAPCWYIVHGQSNAINDIFFLKMLSLSLIFELSSVFGNDIVMKIQK 171
Query: 118 ELGSALGAEGLLK---GQVTDLDSEGKD-VSLSELEY--IHVHKTAKLL-EASVVCGVII 170
E + GQ DL Y + KT++ V G+ +
Sbjct: 172 IY-----NESIFFTVLGQHLDLSYFDLSKADKISERYFSMVEMKTSRYTFYMPVFFGLTL 226
Query: 171 GGGNVIE--IERVRNYARCIGLLFQVVDDILDVTKSSTVLGKTAGKDLVSDKATYPKLMG 228
V + + +G +QV +D+ D + D+ K T+P
Sbjct: 227 SEIQVSSAQLNLIEAILYKLGEFYQVHNDVSDYLF-----NDSNADDICRFKLTWPLQKS 281
Query: 229 IENA 232
E A
Sbjct: 282 FEIA 285
>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 = 159 bits (404), Expect = 1e-46
Identities = 58/283 (20%), Positives = 104/283 (36%), Gaps = 43/283 (15%)
Query: 2 QHPEKIHEAMRYSLLAGGKRIRPVLCIASCELVGGDES------LVMPMACALEMTHTMS 55
+H K ++ + GGK R +L I E V + +A +E+
Sbjct: 62 EHISKYYKLLFDYNCLGGKNNRGILVILIYEYVKNRDINSSEWEKAACLAWCIEILQAAF 121
Query: 56 LIHDDLPALDNDDLRRGKPTNHKVFGEPTAILAGDALLALAFEHVAAKTVGVSTDRVVRA 115
L+ DD+ +D ++RR K + + T D LL + + + V
Sbjct: 122 LVADDI--MDKGEMRRNKYCWYLLKDVETKNAVNDVLLLYNSIYKLIEIYLRNESCYVDV 179
Query: 116 ITELGSALGAEGLLKGQVTDLDSEGKDVS-----------------------LSELEYIH 152
I A + GQ D + S ++ Y +
Sbjct: 180 IATFRDA--TLKTIIGQHLDTNIFSDKYSDAHREIDVNNINVPEQPVIDINMINFGVYKN 237
Query: 153 V--HKTAKLL-EASVVCGVIIGGGNV--IEIERVRNYARCIGLLFQVVDDILDVTKSSTV 207
+ HKTA +VCG+++ G V + +++ + + +G FQ+ DD LD+ ST
Sbjct: 238 IVIHKTAYYSFFLPIVCGMLLAGIAVDNLIYKKIEDISMLMGEYFQIHDDYLDIFGDSTK 297
Query: 208 LGKTAGKDLVSDKATYPKLMGIENA----KKFAEELFSQATKE 246
GK G D+ ++K T+P + E K + + +
Sbjct: 298 TGKV-GSDIQNNKLTWPLIKTFELCSEPDKIKIVKNYGKNNLA 339
>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 = 156 bits (396), Expect = 7e-46
Identities = 75/323 (23%), Positives = 117/323 (36%), Gaps = 73/323 (22%)
Query: 7 IHEAMRYSLLAG--GKRIRPVLCIASCELVGGDESLV-----------------MPMACA 47
+ A Y G GK+ R + + + +A
Sbjct: 36 LASAAEYFFKRGVQGKQFRSTILLLMATALDVRVPEALIGESTDIVTSELRVRQRGIAEI 95
Query: 48 LEMTHTMSLIHDDLPALDNDDLRRGKPTNHKVFGEPTAILAGDALLALAFEHVAAKTVGV 107
EM H SL+HDD+ LD+ D RRG + + V G ++LAGD LL+ A +AA +
Sbjct: 96 TEMIHVASLLHDDV--LDDADTRRGVGSLNVVMGNKMSVLAGDFLLSRACGALAA----L 149
Query: 108 STDRVVRAITELGSALGAEGLLKGQVTDLDSEGKDVSLSELEYIHV--HKTAKLLEASVV 165
VV + E L+ G+ ++ S + S Y+ +KTA L+ S
Sbjct: 150 KNTEVVALLATA-----VEHLVTGETMEITSST-EQRYSMDYYMQKTYYKTASLISNSCK 203
Query: 166 CGVIIGGGNVIEIERVRNYARCIGLLFQVVDDILDVTKSSTVLGKTAGKDLVSDKATYPK 225
++ G Y R +GL FQ++DDILD T +S LGK + D+ T P
Sbjct: 204 AVAVLTGQTAEVAVLAFEYGRNLGLAFQLIDDILDFTGTSASLGKGSLSDIRHGVITAPI 263
Query: 226 LM---------------------------------GIENAKKFAEELFSQATKELAYFEV 252
L GI+ A++ A E + A +
Sbjct: 264 LFAMEEFPQLREVVDQVEKDPRNVDIALEYLGKSKGIQRARELAMEHANLAAAAIGSLPE 323
Query: 253 SKAAP-------LYHLAKYIVSR 268
+ L L +++R
Sbjct: 324 TDNEDVKRSRRALIDLTHRVITR 346
>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 = 148 bits (376), Expect = 8e-43
Identities = 53/321 (16%), Positives = 105/321 (32%), Gaps = 61/321 (19%)
Query: 2 QHPEKIHEAMRYSLLAGGKRIRPVLCIASCELVGGDESL-------VMPMACALEMTHTM 54
++ E + Y GGK R + + + + + +E+
Sbjct: 61 DAIARLKEVLEY-NAIGGKYNRGLTVVVAFRELVEPRKQDADSLQRAWTVGWCVELLQAF 119
Query: 55 SLIHDDLPALDNDDLRRGKPTNHKVFGEPT-AILAGDALLALAFEHVAAKTVGVSTDRVV 113
L+ DD+ +D+ RRG+ ++ G AI + L A + K +
Sbjct: 120 FLVADDI--MDSSLTRRGQICWYQKPGVGLDAINDANLLEACIYR--LLKLYCREQPYYL 175
Query: 114 RAITELGSALGAEGLLKGQVTDLDSEGKD----VSLSELEYIHV--HKTAKLL-EASVVC 166
I + + GQ DL + + V +E Y + +K+A +
Sbjct: 176 NLIELFLQS--SYQTEIGQTLDLLTAPQGNVDLVRFTEKRYKSIVKYKSAFYSFYLPIAA 233
Query: 167 GVIIGGGN-VIEIERVRNYARCIGLLFQVVDDILDVTKSSTVLGKTAGKDLVSDKATYPK 225
+ + G + E + +G FQ+ DD LD+ +V GK G D+ +K ++
Sbjct: 234 AMYMAGIDGEKEHANAKKILLEMGEFFQIQDDYLDLFGDPSVTGK-IGTDIQDNKCSWLV 292
Query: 226 LMGIENA------------------------------------KKFAEELFSQATKELAY 249
+ ++ A ++ E+ +S +
Sbjct: 293 VQCLQRATPEQYQILKENYGQKEAEKVARVKALYEELDLPAVFLQYEEDSYSHIMALIEQ 352
Query: 250 FEVS-KAAPLYHLAKYIVSRQ 269
+ A LA+ I R+
Sbjct: 353 YAAPLPPAVFLGLARKIYKRR 373
>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 = 50.8 bits (121), Expect = 2e-07
Identities = 39/231 (16%), Positives = 71/231 (30%), Gaps = 65/231 (28%)
Query: 57 IHDDLPALDNDDLRRGKPTNHKVFGEPTA-----ILAGDA-LLAL-AFEHVAAKTVGVST 109
I ++ A+ + + GK K+F E + LL+ F A + +
Sbjct: 1684 IRENYSAMIFETIVDGKLKTEKIFKEINEHSTSYTFRSEKGLLSATQFTQPALTLMEKAA 1743
Query: 110 DRVVRA---ITE--------LG--SALGAE----------------GLLKGQVTDLDSEG 140
+++ I LG +AL + G+ D G
Sbjct: 1744 FEDLKSKGLIPADATFAGHSLGEYAALASLADVMSIESLVEVVFYRGMTMQVAVPRDELG 1803
Query: 141 K-DVSLSEL--EYIHVHKTAKLLEASVVCGVIIGGGNVIEIERVRNYARCIGLLFQVVDD 197
+ + + + + + + L+ VV V G ++EI V NY Q V
Sbjct: 1804 RSNYGMIAINPGRVAASFSQEALQY-VVERVGKRTGWLVEI--V-NY-NVENQ--QYV-- 1854
Query: 198 ILDVTKSSTVLGKTAGKDLVSDKATYPKLMGIENAK--------KFAEELF 240
G D V++ + KL I+ + + LF
Sbjct: 1855 ---------AAGDLRALDTVTNVLNFIKLQKIDIIELQKSLSLEEVEGHLF 1896
>4eps_A Hypothetical protein; structural genomics, joint C structural
genomics, JCSG, protein structure initiative, PS
biology, unknown function; HET: MSE; 1.85A {Bacteroides
ovatus}
Length = 510
Score = 29.9 bits (65), Expect = 0.86
Identities = 26/191 (13%), Positives = 53/191 (27%), Gaps = 4/191 (2%)
Query: 26 LCIASCELVGGDESLVMPMACALEMTHTMSLIHDDLPALDNDDLRRGKPTNHKVFGEPTA 85
L ++ + G+ + ++TH MSL+ LP+ +
Sbjct: 134 LMTSNATALIGENGNYSL---SFQLTHRMSLVVVKLPSTRYIFTDAEGVAMPEETPYVAM 190
Query: 86 ILAGDALLALAFEHVAAKTVGVSTDRVVRAITELGSALGAEGLLKGQVTDLDSEGKDVSL 145
+ L E + R + + S G + LD+ K
Sbjct: 191 SVDVAFYLDNVEEGTKISPYYDAKKDEYRLLRKPSSENQIIGHYNDKQCTLDTAEKMKEG 250
Query: 146 SELEYIHVHKTAKLLEASVVCGVIIGGGNVIE-IERVRNYARCIGLLFQVVDDILDVTKS 204
++ ++ V G+V+ E CIG++ V + + V
Sbjct: 251 KYKRFVVDGGYKEVTHHLQVGDYYYADGSVVSGNEAEPAKDNCIGIVCWVGNPMPSVLYK 310
Query: 205 STVLGKTAGKD 215
+
Sbjct: 311 DVAGTPYTATN 321
>4fk8_A Ferredoxin--NADP reductase; ssgcid, NIH, niaid, structural
genomics, national institute allergy and infectious
diseases; HET: FAD; 2.10A {Burkholderia thailandensis}
PDB: 4f7d_A*
Length = 271
Score = 27.8 bits (62), Expect = 3.8
Identities = 11/83 (13%), Positives = 21/83 (25%), Gaps = 4/83 (4%)
Query: 3 HPEKIHEAMRYSLLAGGKRIRPVLCIASCELVGGDESLVMPMACALEMTHTMSLI-HDDL 61
+ + +L+ G + P + I + V+ L D +
Sbjct: 115 VADNLLPGKTLWMLSTGTGLAPFMSIIRDPDIYERFDKVVLTHTC---RLKGELAYMDYI 171
Query: 62 PALDNDDLRRGKPTNHKVFGEPT 84
G K+ PT
Sbjct: 172 KHDLPGHEYLGDVIREKLVYYPT 194
>2gj4_A Glycogen phosphorylase, muscle form; transferase; HET: PLR 2TH;
1.60A {Oryctolagus cuniculus} SCOP: c.87.1.4 PDB:
2gm9_A* 1abb_A* 3nc4_A* 3l79_A* 2pyd_A* 2pyi_A* 3l7a_A*
3l7b_A* 3l7c_A* 3l7d_A* 2qnb_A* 1c8l_A* 1axr_A* 1gpy_A*
1e1y_A* 1lwo_A* 1pyg_A* 1uzu_A* 1lwn_A* 1xkx_A* ...
Length = 824
Score = 27.5 bits (62), Expect = 5.3
Identities = 9/12 (75%), Positives = 10/12 (83%)
Query: 254 KAAPLYHLAKYI 265
KAAP YH+AK I
Sbjct: 597 KAAPGYHMAKMI 608
>2c4m_A Glycogen phosphorylase; allosteric control, phosphate dependence,
starch degrading, transferase, glycosyltransferase; HET:
PLP; 1.9A {Corynebacterium callunae}
Length = 796
Score = 27.5 bits (62), Expect = 5.6
Identities = 8/12 (66%), Positives = 8/12 (66%)
Query: 254 KAAPLYHLAKYI 265
KAAP Y AK I
Sbjct: 563 KAAPGYVRAKAI 574
>1ygp_A Yeast glycogen phosphorylase; phosphorylated form,
glycosyltransferase; HET: PLP; 2.80A {Saccharomyces
cerevisiae} SCOP: c.87.1.4
Length = 879
Score = 27.5 bits (62), Expect = 5.6
Identities = 7/12 (58%), Positives = 10/12 (83%)
Query: 254 KAAPLYHLAKYI 265
K+AP Y++AK I
Sbjct: 656 KSAPGYYMAKLI 667
>1l5w_A Maltodextrin phosphorylase; enzymatic catalysis, substrate complex,
trans; HET: GLC PLP; 1.80A {Escherichia coli} SCOP:
c.87.1.4 PDB: 1l5v_A* 1l6i_A* 2asv_A* 2av6_A* 2aw3_A*
2azd_A* 1qm5_A* 1e4o_A* 2ecp_A* 1ahp_A*
Length = 796
Score = 27.5 bits (62), Expect = 5.7
Identities = 9/12 (75%), Positives = 10/12 (83%)
Query: 254 KAAPLYHLAKYI 265
KAAP Y+LAK I
Sbjct: 573 KAAPGYYLAKNI 584
Database: pdb70
Posted date: Sep 4, 2012 3:40 AM
Number of letters in database: 6,701,793
Number of sequences in database: 27,921
Lambda K H
0.318 0.135 0.379
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: 4,103,679
Number of extensions: 258800
Number of successful extensions: 775
Number of sequences better than 10.0: 1
Number of HSP's gapped: 606
Number of HSP's successfully gapped: 67
Length of query: 270
Length of database: 6,701,793
Length adjustment: 92
Effective length of query: 178
Effective length of database: 4,133,061
Effective search space: 735684858
Effective search space used: 735684858
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 56 (25.4 bits)