RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= 038854
(353 letters)
>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 = 459 bits (1183), Expect = e-164
Identities = 200/307 (65%), Positives = 242/307 (78%), Gaps = 24/307 (7%)
Query: 57 LEENPAPSPTFDFKSYMIQKASTVNQALDAAVSLKDPVKIHESMRYSLLAGGKRVRPVLC 116
+ D SY+I+KA +VN+ALD+AV L++P+KIHE+MRYSLLAGGKRVRPVLC
Sbjct: 1 MMRGSHHHHHTDPISYIIRKADSVNKALDSAVPLREPLKIHEAMRYSLLAGGKRVRPVLC 60
Query: 117 LAACDLVGGHESMAMPAACSIEMIHTMSLIHDDLPCMDNDPLRRGKPTNHTIYGEDVAVL 176
+AAC+LVGG ES+AMPAAC++EMIHTMSLIHDDLPCMDND LRRGKPTNH +YGEDVAVL
Sbjct: 61 IAACELVGGEESLAMPAACAVEMIHTMSLIHDDLPCMDNDDLRRGKPTNHKVYGEDVAVL 120
Query: 177 AGDALLAYAFEHIAVCTKG-VSPARIVRAIAELAKYIGADGLVAGQA---------EKDL 226
AGDALL++AFEH+A T VSPAR+VRA+ ELAK IG +GLVAGQ ++
Sbjct: 121 AGDALLSFAFEHLASATSSEVSPARVVRAVGELAKAIGTEGLVAGQVVDISSEGLDLNNV 180
Query: 227 GIEHLEFIHEHKTAALLEAAVVLGAILGGGTDNEVEKLRTFARCIGLLFQVVDDILDLTK 286
G+EHL+FIH HKTAALLEA+ VLG I+GGG+D E+E+LR FARCIGLLFQVVDDILD+TK
Sbjct: 181 GLEHLKFIHLHKTAALLEASAVLGGIIGGGSDEEIERLRKFARCIGLLFQVVDDILDVTK 240
Query: 287 SSKELGKTAGKDLVADKLTYPKLLGIEESKKLADKLNKDAQQQLSEFDQEKAVPLIALAN 346
SS KLTYPKL+G+E+S++ A+KLN +A+ QL FD +K PL+ALAN
Sbjct: 241 SS--------------KLTYPKLMGLEKSREFAEKLNTEARDQLLGFDSDKVAPLLALAN 286
Query: 347 YIAYRQN 353
YIA RQN
Sbjct: 287 YIANRQN 293
>2h8o_A Geranyltranstransferase; geranyltransferase,agrobacterium
tumefaciens, structural GEN PSI-2, protein structure
initiative; 1.60A {Agrobacterium tumefaciens}
Length = 335
Score = 459 bits (1184), Expect = e-164
Identities = 108/336 (32%), Positives = 165/336 (49%), Gaps = 19/336 (5%)
Query: 36 LPVSLASQRPRRPVSISAVQTLEENPAPSP-----TFDFKSYMIQKASTVNQALDAAVSL 90
+P S + I+ +F++ + + A+ L +S
Sbjct: 1 MPSSRRVRSRCCAFGITKRFACIRPACQRARMDAQMTNFETRLRENAAKTEALLGHLLSG 60
Query: 91 KD-------PVKIHESMRYSLLAGGKRVRPVLCLAACDLVGGHESMAMPAACSIEMIHTM 143
+ P + E+MR+ +L GGKR+RP L + + L+GG + ++E +H
Sbjct: 61 EARADEITRPQNLLEAMRHGVLNGGKRLRPFLVIESVALLGGDAEAGLHVGAALECLHCY 120
Query: 144 SLIHDDLPCMDNDPLRRGKPTNHTIYGEDVAVLAGDALLAYAFEHIAVCTKGVSPARIVR 203
SL+HDDLP MD+D LRRG+PT H + E A+LAGD+LL AF+ IA ++ R
Sbjct: 121 SLVHDDLPAMDDDDLRRGQPTVHRKFDEATAILAGDSLLTLAFDIIASDDNPLAAERKAA 180
Query: 204 AIAELAKYIGADGLVAGQA------EKDLGIEHLEFIHEHKTAALLEAAVVLGAILGGGT 257
+ LA+ G G+ GQA +K + + + KT ALL A GAI+ G
Sbjct: 181 LVISLARAAGIGGMAGGQALDLAAEKKAPDEDGIITLQAMKTGALLRFACEAGAIIAGSN 240
Query: 258 DNEVEKLRTFARCIGLLFQVVDDILDLTKSSKELGKTAGKDLVADKLTYPKLLGIEESKK 317
E ++LR F IGL FQ+ DD+LDLT + +GK GKD K T L G +++
Sbjct: 241 QAERQRLRLFGEKIGLSFQLADDLLDLTADAATMGKATGKDAARGKGTLVALRGEAWARE 300
Query: 318 LADKLNKDAQQQLSEFDQEKAVPLIALANYIAYRQN 353
+ +A + L+ + EKA LIA A +IA R++
Sbjct: 301 KLQEQVAEASELLAPYG-EKAAILIAAARFIAERKS 335
>3ts7_A Geranyltranstransferase; isoprenoid synthesis, farnesyl diphosphate
synthase; 1.94A {Methylococcus capsulatus}
Length = 324
Score = 458 bits (1180), Expect = e-163
Identities = 123/300 (41%), Positives = 169/300 (56%), Gaps = 11/300 (3%)
Query: 64 SPTFDFKSYMIQKASTVNQALDAAVSLKD--PVKIHESMRYSLLAGGKRVRPVLCLAACD 121
+P +M V +ALDA + D P ++H++MRYS+L GGKR+RP+L A
Sbjct: 4 NPERSLSDFMRSSQERVERALDARLPAADRMPERLHQAMRYSVLGGGKRMRPLLTYATGQ 63
Query: 122 LVGGHESMAMPAACSIEMIHTMSLIHDDLPCMDNDPLRRGKPTNHTIYGEDVAVLAGDAL 181
+G + AC++E IH SLIHDDLP MD+D LRRGKPT H Y E A+LAGD L
Sbjct: 64 TIGVAADLLDGPACAVEFIHVYSLIHDDLPAMDDDDLRRGKPTCHKAYDEATAILAGDGL 123
Query: 182 LAYAFEHIAVCT-KGVSPARIVRAIAELAKYIGADGLVAGQA------EKDLGIEHLEFI 234
A AF +A V + I LAK G G+V GQA K L + LE +
Sbjct: 124 QALAFHVLAQDPSIAVPAENRIAMIETLAKASGPAGMVGGQAIDLASVGKKLDLPGLENM 183
Query: 235 HEHKTAALLEAAVVLGAILGGGTDNE-VEKLRTFARCIGLLFQVVDDILDLTKSSKELGK 293
H KT AL+ A+V L + G E ++L +A+CIGL FQ+ DDILD ++ LGK
Sbjct: 184 HIRKTGALIRASVRLACLARPGLPAEQFDRLDHYAKCIGLAFQIQDDILDEESDTQTLGK 243
Query: 294 TAGKDLVADKLTYPKLLGIEESKKLADKLNKDAQQQLSEFDQEKAVPLIALANYIAYRQN 353
T GKD +K YP LLG+ +K+ A+++++ A + L+ F +A L LA +I RQ+
Sbjct: 244 TRGKDRDHNKPNYPALLGLSGAKEKAEEMHEAALESLAGFG-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 = 454 bits (1170), Expect = e-162
Identities = 123/296 (41%), Positives = 173/296 (58%), Gaps = 11/296 (3%)
Query: 68 DFKSYMIQKASTVNQALDAAVSLKD--PVKIHESMRYSLLAGGKRVRPVLCLAACDLVGG 125
+Y + V+ A+ + +++E+MRYS++ GGKRVRP+L AAC+ +GG
Sbjct: 2 SLTAYQASSQARVDAAMHTLFTAPSPELARLYEAMRYSVMNGGKRVRPLLAYAACEALGG 61
Query: 126 HESMAMPAACSIEMIHTMSLIHDDLPCMDNDPLRRGKPTNHTIYGEDVAVLAGDALLAYA 185
A AAC++E+IH SL+HDDLP MD+D LRRG+PT H + E A+LAGD L + A
Sbjct: 62 KPEQANGAACAVELIHAYSLVHDDLPAMDDDDLRRGQPTTHKAFDEACAILAGDGLQSLA 121
Query: 186 FEHIAVCT-KGVSPARIVRAIAELAKYIGADGLVAGQA------EKDLGIEHLEFIHEHK 238
F + S +R + LA+ G G+V GQA L + LE++H HK
Sbjct: 122 FSALLDPALSDASAEIRLRMVTTLAQAAGPAGMVGGQAIDLGSVGLKLDQQALEYMHRHK 181
Query: 239 TAALLEAAVVLGAILGGGTD-NEVEKLRTFARCIGLLFQVVDDILDLTKSSKELGKTAGK 297
T AL+EA+V+LGA+ G + E++ L+T+A+ IGL FQV DDILD+ + LGK G
Sbjct: 182 TGALIEASVILGALASGRAEKGELKALQTYAQAIGLAFQVQDDILDVESDTATLGKRQGA 241
Query: 298 DLVADKLTYPKLLGIEESKKLADKLNKDAQQQLSEFDQEKAVPLIALANYIAYRQN 353
D+ DK TYP LLG+ +K+ A +L A L FD A PL LA YI R++
Sbjct: 242 DIARDKPTYPALLGLAAAKEYALELRDQALHALRPFD-AAAEPLRELARYIVERRS 296
>4f62_A Geranyltranstransferase; enzyme function initiative, structural
genomics; 2.10A {Marinomonas SP}
Length = 317
Score = 455 bits (1172), Expect = e-162
Identities = 129/296 (43%), Positives = 179/296 (60%), Gaps = 10/296 (3%)
Query: 66 TFDFKSYMIQKASTVNQALDAAVSLKD-PVKIHESMRYSLLAGGKRVRPVLCLAACDLVG 124
+ K + S V+Q L+ +S ++H +MRYSL GGKR+RP+L A+ LVG
Sbjct: 2 VMNLKQFSTYTQSRVDQYLEQQLSDYAPANQLHNAMRYSLFNGGKRIRPMLTYASAQLVG 61
Query: 125 GHESMAMPAACSIEMIHTMSLIHDDLPCMDNDPLRRGKPTNHTIYGEDVAVLAGDALLAY 184
S+ +A ++E IH SLIHDDLP MDND LRRGKPT H + E A+LAGDAL +
Sbjct: 62 DISSLTDASAAALESIHAYSLIHDDLPAMDNDELRRGKPTCHIQFDEATAILAGDALQTF 121
Query: 185 AFEHIAVCTKGVSPARIVRAIAELAKYIGADGLVAGQA------EKDLGIEHLEFIHEHK 238
AFE ++ T P ++ I EL G +G++ GQ K++ + LE +H HK
Sbjct: 122 AFELLSNPT-SAQPELAIKLIQELVVASGRNGMITGQMIDLSSENKNISLAELEQMHVHK 180
Query: 239 TAALLEAAVVLGAILGGGTDNE-VEKLRTFARCIGLLFQVVDDILDLTKSSKELGKTAGK 297
T AL++A+V +GA+ G E + KL +A IGL FQV DDI+DLT ++ LGKT
Sbjct: 181 TGALIKASVRMGALSTGQVKPEQLAKLDAYAHAIGLAFQVQDDIIDLTSDTETLGKTQFS 240
Query: 298 DLVADKLTYPKLLGIEESKKLADKLNKDAQQQLSEFDQEKAVPLIALANYIAYRQN 353
D A+K TYPKLLG++ +K L +L++ A Q+SEF +K+ PL LANYI R +
Sbjct: 241 DAEANKATYPKLLGLDGAKALVVRLHEQAIAQISEFG-DKSQPLTDLANYIIDRNH 295
>3uca_A Geranyltranstransferase; isoprenoid synthesis, isoprenoid
diphosphate synthase; 2.00A {Clostridium perfringens}
Length = 324
Score = 449 bits (1156), Expect = e-159
Identities = 105/296 (35%), Positives = 166/296 (56%), Gaps = 11/296 (3%)
Query: 66 TFDFKSYMIQKASTVNQALDAAVSLKD--PVKIHESMRYSLLAGGKRVRPVLCLAACDLV 123
D + V+Q+L A + +++SM YS+ GGKR+RP+L L + +
Sbjct: 30 LEDTAMNINSLKEEVDQSLKAYFNKDREYNKVLYDSMAYSINVGGKRIRPILMLLSYYIY 89
Query: 124 GGHESMAMPAACSIEMIHTMSLIHDDLPCMDNDPLRRGKPTNHTIYGEDVAVLAGDALLA 183
+ A +IEMIHT SLIHDDLPCMDND LRRGKPTNH ++GE +AVLAGDALL
Sbjct: 90 KSDYKKILTPAMAIEMIHTYSLIHDDLPCMDNDDLRRGKPTNHKVFGEAIAVLAGDALLN 149
Query: 184 YAFEHIAVCTKGVSPARIVRAIAELAKYIGADGLVAGQA-------EKDLGIEHLEFIHE 236
A + + ++A +A G+DG++ GQ ++++ ++ L+++H
Sbjct: 150 EAMKILVD-YSLEEGKSALKATKIIADAAGSDGMIGGQIVDIINEDKEEISLKELDYMHL 208
Query: 237 HKTAALLEAAVVLGAILGGGTDNEVEKLRTFARCIGLLFQVVDDILDLTKSSKELGKTAG 296
KT L++A+++ GA+L ++ +++KL F +GL FQ+ DDILD+ ++K+LGK
Sbjct: 209 KKTGELIKASIMSGAVLAEASEGDIKKLEGFGYKLGLAFQIKDDILDVVGNAKDLGKNVH 268
Query: 297 KDLVADKLTYPKLLGIEESKKLADKLNKDAQQQLSEFDQEKAVPLIALANYIAYRQ 352
KD ++K Y + G+EE KK + ++ + LS PL L + R+
Sbjct: 269 KDQESNKNNYITIFGLEECKKKCVNITEECIEILSSIK-GNTEPLKVLTMKLLERK 323
>1rtr_A Geranyltranstransferase; 2.50A {Staphylococcus aureus} SCOP:
a.128.1.1
Length = 301
Score = 439 bits (1132), Expect = e-156
Identities = 109/293 (37%), Positives = 157/293 (53%), Gaps = 9/293 (3%)
Query: 69 FKSYMIQKASTVNQALDAAV-SLKDPVKIHESMRYSLLAGGKRVRPVLCLAACDLVGGHE 127
M + VN L A+ ++ ESM YSL AGGKR+RPVL L D +
Sbjct: 2 TNLPMNKLIDEVNNELSVAINKSVMDTQLEESMLYSLNAGGKRIRPVLLLLTLDSLNTEY 61
Query: 128 SMAMPAACSIEMIHTMSLIHDDLPCMDNDPLRRGKPTNHTIYGEDVAVLAGDALLAYAFE 187
+ M +A ++EMIHT SLIHDDLP MDND RRGK TNH +YGE A+LAGDALL AFE
Sbjct: 62 ELGMKSAIALEMIHTYSLIHDDLPAMDNDDYRRGKLTNHKVYGEWTAILAGDALLTKAFE 121
Query: 188 HIAVCTKGVSPARIVRAIAELAKYIGADGLVAGQA------EKDLGIEHLEFIHEHKTAA 241
I+ ++ ++ + L+ G G+V GQ + + +E LE IH+ KT A
Sbjct: 122 LISS-DDRLTDEVKIKVLQRLSIASGHVGMVGGQMLDMQSEGQPIDLETLEMIHKTKTGA 180
Query: 242 LLEAAVVLGAILGGGTDNEVEKLRTFARCIGLLFQVVDDILDLTKSSKELGKTAGKDLVA 301
LL AV+ A + D E L +++ +G++FQ+ DD+LD +LGK G DL
Sbjct: 181 LLTFAVMSAADIANVDDTTKEHLESYSYHLGMMFQIKDDLLDCYGDEAKLGKKVGSDLEN 240
Query: 302 DKLTYPKLLGIEESKKLADKLNKDAQQQLSEFDQE-KAVPLIALANYIAYRQN 353
+K TY LLG + ++ A +L++ D++ L+ + + R +
Sbjct: 241 NKSTYVSLLGKDGAEDKLTYHRDAAVDELTQIDEQFNTKHLLEIVDLFYSRDH 293
>3lom_A Geranyltranstransferase; geranyltransferase, structural genomics,
PSI, protein structure initiative, nysgrc; 2.30A
{Legionella pneumophila subsp}
Length = 313
Score = 439 bits (1131), Expect = e-156
Identities = 92/301 (30%), Positives = 143/301 (47%), Gaps = 12/301 (3%)
Query: 64 SPTFDFKSYMIQKASTVNQALDAAVSLKD--PVKIHESMRYSLLAGGKRVRPVLCLAACD 121
+ T K + + L+ ++ +I ++ Y+L +GGKR+RP+L A D
Sbjct: 4 NSTQMNKQVIDKYTQRHELYLEQLLNEIIIPAPQIRSALHYALFSGGKRIRPILVYLAGD 63
Query: 122 LVGGHESMAMPAACSIEMIHTMSLIHDDLPCMDNDPLRRGKPTNHTIYGEDVAVLAGDAL 181
L+ + + A ++E+ H SLIHDDLP MDND LRRGKP+ H + E A+L GD +
Sbjct: 64 LIDVDQGVLDIIAAALELTHCYSLIHDDLPAMDNDDLRRGKPSCHKAFDEATAILVGDGM 123
Query: 182 LAYAFEHIAV-CTKGVSPARIVRAIAELAKYIGADGLVAGQA-------EKDLGIEHLEF 233
A A E + + + + A++V L G G+V+GQ+ + + E L
Sbjct: 124 QALAIEVLLMRLSPLLPAAQVVAITQVLVNASGISGMVSGQSLDLSELAKSSVTEEQLRE 183
Query: 234 IHEHKTAALLEAAVVLGAILGGGTDNEV-EKLRTFARCIGLLFQVVDDILDLTKSSKELG 292
IH KT L+ A + ++ LRT+ + IGL+FQ+ DD LDL ++ LG
Sbjct: 184 IHLLKTGKLILACFEMVLAAQHEVSEQIKSALRTYGKHIGLVFQMQDDYLDLYAPTQILG 243
Query: 293 KTAGKDLVADKLTYPKLLGIEESKKLADKLNKDAQQQLSEFDQEKAVPLIALANYIAYRQ 352
K D K T+ L ++ ++ + A L F KA LI L + R
Sbjct: 244 KGRSSDQANQKTTFATLFNKQQLEEEIAVHYQIAMDSLRLFG-SKAAALIELTKQLQNRS 302
Query: 353 N 353
N
Sbjct: 303 N 303
>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 = 436 bits (1124), Expect = e-155
Identities = 120/296 (40%), Positives = 157/296 (53%), Gaps = 12/296 (4%)
Query: 68 DFKSYMIQKASTVNQALDAAVSLKD--PVKIHESMRYSLLAGGKRVRPVLCLAACDLVGG 125
DF + NQAL ++ + E+M+Y L GGKR+RP L A + G
Sbjct: 2 DFPQQLEACVKQANQALSRFIAPLPFQNTPVVETMQYGALLGGKRLRPFLVYATGHMFGV 61
Query: 126 HESMAMPAACSIEMIHTMSLIHDDLPCMDNDPLRRGKPTNHTIYGEDVAVLAGDALLAYA 185
+ A ++E IH SLIHDDLP MD+D LRRG PT H +GE A+LAGDAL A
Sbjct: 62 STNTLDAPAAAVECIHAYSLIHDDLPAMDDDDLRRGLPTCHVKFGEANAILAGDALQTLA 121
Query: 186 FEHIAVC-TKGVSPARIVRAIAELAKYIGADGLVAGQA------EKDLGIEHLEFIHEHK 238
F ++ VS + I+ELA G G+ GQA K + ++ LE IH HK
Sbjct: 122 FSILSDADMPEVSDRDRISMISELASASGIAGMCGGQALDLDAEGKHVPLDALERIHRHK 181
Query: 239 TAALLEAAVVLGAILGGGTDNE-VEKLRTFARCIGLLFQVVDDILDLTKSSKELGKTAGK 297
T AL+ AAV LGA+ G + L +A IGL FQV DDILD+ + LGK G
Sbjct: 182 TGALIRAAVRLGALSAGDKGRRALPVLDKYAESIGLAFQVQDDILDVVGDTATLGKRQGA 241
Query: 298 DLVADKLTYPKLLGIEESKKLADKLNKDAQQQLSEFDQE--KAVPLIALANYIAYR 351
D K TYP LLG+E+++K A L DA+Q L + ++ L ALA+YI R
Sbjct: 242 DQQLGKSTYPALLGLEQARKKARDLIDDARQSLKQLAEQSLDTSALEALADYIIQR 297
>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 = 436 bits (1123), Expect = e-155
Identities = 107/292 (36%), Positives = 150/292 (51%), Gaps = 14/292 (4%)
Query: 68 DFKSYMIQKASTVNQALDAAVSLKDPVKIHESMRYSLLAGGKRVRPVLCLAACDLVGGHE 127
+ + V A+ AA+ + ++M Y+ GGKR+R L + + + G
Sbjct: 2 SLSERLKEVQDAVETAMAAAIGRLPAGDLRDAMAYAA-QGGKRLRAFLAIESAAIHGISM 60
Query: 128 SMAMPAACSIEMIHTMSLIHDDLPCMDNDPLRRGKPTNHTIYGEDVAVLAGDALLAYAFE 187
+ AMPAA ++E +H SL+HDD+PCMDND LRRG PT H + + AVLAGDAL AFE
Sbjct: 61 AQAMPAALAVEALHAYSLVHDDMPCMDNDDLRRGLPTVHKKWDDATAVLAGDALQTLAFE 120
Query: 188 HIAVCTKGVSPARIVRAIAELAKYIGADGLVAGQA--------EKDLGIEHLEFIHEHKT 239
G S V +A LA+ GA+G+V GQA L ++ + + KT
Sbjct: 121 LCTDPVLG-SAENRVALVAALAQASGAEGMVYGQALDIAAETAAVPLTLDEIIRLQAGKT 179
Query: 240 AALLEAAVVLGAILGGGTDNEVEKLRTFARCIGLLFQVVDDILDLTKSSKELGKTAGKDL 299
AL+ A GAIL G L +A +GL FQ+ DDILD+ + + GK GKD
Sbjct: 180 GALISFAAQAGAILAGADR---GPLTAYATALGLAFQIADDILDVEGNEEAAGKRLGKDA 236
Query: 300 VADKLTYPKLLGIEESKKLADKLNKDAQQQLSEFDQEKAVPLIALANYIAYR 351
A K T+ LLG+ +K A L +A+ L+ + E A L A A Y+ R
Sbjct: 237 EAHKATFVSLLGLAGAKSRAADLVAEAEAALAPYG-EAASTLRACARYVIER 287
>3p8r_A Geranyltranstransferase; isoprenyl synthase, structural genomics,
PSI, protein struct initiative, nysgrc; 2.50A {Vibrio
cholerae}
Length = 302
Score = 436 bits (1123), Expect = e-155
Identities = 110/302 (36%), Positives = 150/302 (49%), Gaps = 11/302 (3%)
Query: 62 APSPTFDFKSYMIQKASTVNQALDAAVSLKD--PVKIHESMRYSLLAGGKRVRPVLCLAA 119
A + NQ LD ++ + + E+MRY LL GGKR RP L
Sbjct: 2 AHHHHHHSLEALSSYQQRNNQQLDQWLNRIPFQTLPLIEAMRYGLLLGGKRARPYLVYIT 61
Query: 120 CDLVGGHESMAMPAACSIEMIHTMSLIHDDLPCMDNDPLRRGKPTNHTIYGEDVAVLAGD 179
++G S A ++E IH SLIHDDLP MD+D LRRGKPT H + E A+L GD
Sbjct: 62 GQMLGCELSDLDTPASAVECIHAYSLIHDDLPAMDDDELRRGKPTCHIQFDEATAILTGD 121
Query: 180 ALLAYAFEHIA-VCTKGVSPARIVRAIAELAKYIGADGLVAGQA------EKDLGIEHLE 232
AL AF +A + V + LA+ GA G+ GQA + + +E LE
Sbjct: 122 ALQTLAFTILAEGDLSAAGETQRVAMLQALAEASGAQGMCLGQALDLAAENRLISLEELE 181
Query: 233 FIHEHKTAALLEAAVVLGAILGGGTDNE-VEKLRTFARCIGLLFQVVDDILDLTKSSKEL 291
IH +KT AL+ A+ LGA+ G + L +A +GL FQV DDILD+ ++ L
Sbjct: 182 TIHRNKTGALMRCAIRLGALAAGEKGRAMLPHLDRYAEAVGLAFQVQDDILDIISDTETL 241
Query: 292 GKTAGKDLVADKLTYPKLLGIEESKKLADKLNKDAQQQLSEFDQEKAVPLIALANYIAYR 351
GK G D +K TYP LLG+E +++ A L ++A L L A Y+ R
Sbjct: 242 GKPQGSDQELNKSTYPALLGLEGAQQKAHTLLQEALLALEAIP-YNTEHLEEFARYVVER 300
Query: 352 QN 353
+N
Sbjct: 301 KN 302
>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 = 434 bits (1119), Expect = e-154
Identities = 101/299 (33%), Positives = 142/299 (47%), Gaps = 13/299 (4%)
Query: 66 TFDFKSYMIQKASTVNQALDAAV-SLKDPVKIHESMRYSLLAGGKRVRPVLCLAACDLVG 124
++ Q +N L A+ + ++ +M YS+LAGGKR+RP+L +A +G
Sbjct: 5 NARLIAFEDQWVPALNAPLKQAILADSQDAQLAAAMTYSVLAGGKRLRPLLTVATMQSLG 64
Query: 125 G--HESMAMPAACSIEMIHTMSLIHDDLPCMDNDPLRRGKPTNHTIYGEDVAVLAGDALL 182
++E++HT SLIHDDLP MDND LRRG+PTNH +G +A LAGD LL
Sbjct: 65 VTFVPERHWRPVMALELLHTYSLIHDDLPAMDNDALRRGEPTNHVKFGAGMATLAGDGLL 124
Query: 183 AYAFEHIAVCTKGVSPARIVRAIAELAKYIGADGLVAGQA------EKDLGIEHLEFIHE 236
AF+ + + + LA G G+VAGQA +L + L +H+
Sbjct: 125 TLAFQWLT--ATDLPATMQAALVQALATAAGPSGMVAGQAKDIQSEHVNLPLSQLRVLHK 182
Query: 237 HKTAALLEAAVVLGAILGGGTDNEVEKLRTFARCIGLLFQVVDDILDLTKSSKELGKTAG 296
KT ALL AV G ILG + + FA GL FQ+ DDILD+ S E+GK
Sbjct: 183 EKTGALLHYAVQAGLILGQAPEAQWPAYLQFADAFGLAFQIYDDILDVVSSPAEMGKATQ 242
Query: 297 KDLVADKLTYPKLLGIEESKKLADKLNKDAQQQLSEFDQ--EKAVPLIALANYIAYRQN 353
KD K TYP LG+ + + Q L ++ + + R N
Sbjct: 243 KDADEAKNTYPGKLGLIGANQALIDTIHSGQAALQGLPTSTQRDDLAAFFSYFDTERVN 301
>3p8l_A Geranyltranstransferase; isoprenyl synthase, structural genomics,
PSI, protein struct initiative, nysgrc; 2.00A
{Enterococcus faecalis}
Length = 302
Score = 433 bits (1117), Expect = e-154
Identities = 108/296 (36%), Positives = 155/296 (52%), Gaps = 11/296 (3%)
Query: 67 FDFKSYMIQKASTVNQALDAAVS-LKDPVKIHESMRYSLLAGGKRVRPVLCLAACDLVGG 125
++ Q V + + ++ + ++ E+M YS+ AGGKR+RP+L L
Sbjct: 8 HSLTNFSQQHLPLVEKVMVDFIAEYTENERLKEAMLYSIHAGGKRLRPLLVLTTVAAFQK 67
Query: 126 -HESMAMPAACSIEMIHTMSLIHDDLPCMDNDPLRRGKPTNHTIYGEDVAVLAGDALLAY 184
E+ A S+EMIHT SLIHDDLP MD+D LRRGKPTNH ++GE A+LAGD LL
Sbjct: 68 EMETQDYQVAASLEMIHTYSLIHDDLPAMDDDDLRRGKPTNHKVFGEATAILAGDGLLTG 127
Query: 185 AFEHIAVCTKGVSPARIVRAIAELAKYIGADGLVAGQA------EKDLGIEHLEFIHEHK 238
AF+ ++ + + V + +LAK G G+V+GQ + L +E L +HE K
Sbjct: 128 AFQLLS--LSQLGLSEKVLLMQQLAKAAGNQGMVSGQMGDIEGEKVSLTLEELAAVHEKK 185
Query: 239 TAALLEAAVVLGAILGGGTDNEVEKLRTFARCIGLLFQVVDDILDLTKSSKELGKTAGKD 298
T AL+E A++ G +L T+ + L FA GL FQ+ DD+LD T + +LGK G+D
Sbjct: 186 TGALIEFALIAGGVLANQTEEVIGLLTQFAHHYGLAFQIRDDLLDATSTEADLGKKVGRD 245
Query: 299 LVADKLTYPKLLGIEESKKLADKLNKDAQQQLSEFDQEKAV-PLIALANYIAYRQN 353
+K TYP LLGI +K + L + LAN + Q
Sbjct: 246 EALNKSTYPALLGIAGAKDALTHQLAEGSAVLEKIKANVPNFSEEHLANLLTQLQL 301
>3npk_A Geranyltranstransferase; isoprene biosynthesis, SGX, structural
genomics protein structure initiative; 1.50A
{Campylobacter jejuni}
Length = 291
Score = 413 bits (1063), Expect = e-146
Identities = 93/285 (32%), Positives = 143/285 (50%), Gaps = 16/285 (5%)
Query: 80 VNQALDAAVSLKD--PVKIHESMRYSLLAGGKRVRPVLCLAACDLVGG-HESMAMPAACS 136
L+ + + +E++ L AGGK R L L+ + A+ A +
Sbjct: 9 FIHHLEKNLPKVESFHPFFNEALALMLKAGGKHFRAQLLLSVVQSNKPELLNQALDVALA 68
Query: 137 IEMIHTMSLIHDDLPCMDNDPLRRGKPTNHTIYGEDVAVLAGDALLAYAFEHIAVCTKGV 196
+E IHT SLIHDDLP MDN RRG PT H Y E A+L GDAL AF ++ +
Sbjct: 69 LEFIHTYSLIHDDLPAMDNADFRRGIPTLHKSYDETTAILVGDALNTEAFLVLS--HAHL 126
Query: 197 SPARIVRAIAELAKYIGADGLVAGQA------EKDLGIEHLEFIHEHKTAALLEAAVVLG 250
++ I LA G +G+V GQA +K L + LEF+H HKTA L+ AA+ +G
Sbjct: 127 KDEIKIKLIKTLAFNAGLNGMVIGQAIDCFFEDKRLSLNELEFLHTHKTARLIAAALKMG 186
Query: 251 AILGGGTDNEVEKLRTFARCIGLLFQVVDDILDLTKSSKELGKTAGKDLVADKLTYPKLL 310
+ + E ++ +GL+FQ+ DDI+D+T S ++ GK D K ++ LL
Sbjct: 187 CEICELNNEESNQIYKLGLKLGLIFQINDDIIDVTTSQEQSGKPTNND--IHKNSFVNLL 244
Query: 311 GIEESKKLADKLNKDAQQQLSEFDQEKAVPLIA--LANYIAYRQN 353
G+E++ K + L + +Q L + + EK +I + Y+ +
Sbjct: 245 GLEQAIKTKENLLNECEQDLEKLN-EKLAQMIQNLIIQYLEGHHH 288
>3llw_A Geranyltranstransferase (ISPA); structural genomics, PSI, protein
structure initiative, nysgrc; 2.30A {Helicobacter
pylori} PDB: 3q1o_A*
Length = 311
Score = 412 bits (1060), Expect = e-145
Identities = 102/301 (33%), Positives = 144/301 (47%), Gaps = 21/301 (6%)
Query: 66 TFDFKSYMIQKASTVNQALDAAVSLKD--PVKIHESMRYSLLAGGKRVRPVLCLAACDLV 123
+ + Y + L + + ++ +L GGKR RP L LA +
Sbjct: 5 SPNLSFYY-NECERFESFLKNHHLHLESFHPYLEKAFFEMVLNGGKRFRPKLFLAVLCAL 63
Query: 124 GG------HESMAMPAACSIEMIHTMSLIHDDLPCMDNDPLRRGKPTNHTIYGEDVAVLA 177
G ++ A SIE +HT SLIHDDLPCMDN LRR PT H Y E AVL
Sbjct: 64 VGQKDYSNQQTEYFKIALSIECLHTYSLIHDDLPCMDNAALRRNHPTLHAKYDETTAVLI 123
Query: 178 GDALLAYAFEHIAVCTKGVSPARIVRAIAELAKYIGADGLVAGQA------EKDLGIEHL 231
GDAL Y+FE ++ + IV I L+ G G++ GQA L +E L
Sbjct: 124 GDALNTYSFELLS--NALLESHIIVELIKILSANGGIKGMILGQALDCYFENTPLNLEQL 181
Query: 232 EFIHEHKTAALLEAAVVLGAILGGGTDNEVEK-LRTFARCIGLLFQVVDDILDLTKSSKE 290
F+HEHKTA L+ A++++G + G D E+ K L+ F +GL FQV+DDI+D+T+ +E
Sbjct: 182 TFLHEHKTAKLISASLIMGLVASGIKDEELFKWLQAFGLKMGLCFQVLDDIIDVTQDEEE 241
Query: 291 LGKTAGKDLVADKLTYPKLLGIEESKKLADKLNKDAQQQLSEFDQEKAVPLIALANYIAY 350
GKT D + K ++ LLG+E + A L + L L N +
Sbjct: 242 SGKTTHLD--SAKNSFVNLLGLERANNYAQTLKTEVLNDLDALK-PAYPLLQENLNALLN 298
Query: 351 R 351
Sbjct: 299 T 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 = 388 bits (998), Expect = e-136
Identities = 73/273 (26%), Positives = 128/273 (46%), Gaps = 24/273 (8%)
Query: 70 KSYMIQKASTVNQALDAAVSLKDPVKIHESMRYSLLAGGKRVRPVLCLAACDLVGGHESM 129
+ Y + + + L +++++ P + M + A LCLAAC+LVGG S
Sbjct: 2 QPYWAAIEADIERYLKKSITIRPPETVFGPMHHLTFAAPATAASTLCLAACELVGGDRSQ 61
Query: 130 AMPAACSIEMIHTMSLIHDDLPCMDNDPLRRGKPTNHTIYGEDVAVLAGDALLAYAFEHI 189
AM AA +I ++H + +H+ LP D KP YG +V +L GD ++ + FE +
Sbjct: 62 AMAAAAAIHLVHAAAYVHEHLPLTDGS-RPVSKPAIQHKYGPNVELLTGDGIVPFGFELL 120
Query: 190 AVCT---KGVSPARIVRAIAELAKYIGADGLVAGQA------EKDLGIEHLEFIHEHKTA 240
A + P RI+R I E+++ G +G+++G + + ++ +E++ + K
Sbjct: 121 AGSVDPARTDDPDRILRVIIEISRAGGPEGMISGLHREEEIVDGNTSLDFIEYVCKKKYG 180
Query: 241 ALLEAAVVLGAILGGGTDNEVEKLRTFARCIGLL---------FQVVDD-ILDLTK--SS 288
+ GAILGG + E++KLR F G L Q++D+ I+ K +
Sbjct: 181 EMHACGAACGAILGGAAEEEIQKLRNFGLYQGTLRGMMEMKNSHQLIDENIIGKLKELAL 240
Query: 289 KELGKTAGKD--LVADKLTYPKLLGIEESKKLA 319
+ELG GK+ L++ + P L
Sbjct: 241 EELGGFHGKNAELMSSLVAEPSLYAAHHHHHHH 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 = 372 bits (956), Expect = e-130
Identities = 71/273 (26%), Positives = 126/273 (46%), Gaps = 12/273 (4%)
Query: 66 TFDFKSYMIQKASTVNQALDAAVSLKDPVKIHESMRYSLLAGGKRVRPVLCLAACDLVGG 125
++Y S + L A+ ++ P + E M + A + LC+AAC+LVGG
Sbjct: 3 LTRTQTYRATIESDIESYLKKAIPIRAPESVFEPMHHLTFAAPRTSASALCVAACELVGG 62
Query: 126 HESMAMPAACSIEMIHTMSLIHDDLPCMDNDPLRRGKPTNHTIYGEDVAVLAGDALLAYA 185
S AM AA ++ ++H + H++LP D K + ++ +L GD ++ +
Sbjct: 63 DRSDAMAAAAAVHLMHVAAYTHENLPLTDGP---MSKSEIQHKFDPNIELLTGDGIIPFG 119
Query: 186 FEHIAVCTK--GVSPARIVRAIAELAKYIGADGLVAGQA-----EKDLGIEHLEFIHEHK 238
E +A +P RI+RAI EL + +G++G+V GQ + +E +E++ + K
Sbjct: 120 LELMARSMDPTRNNPDRILRAIIELTRVMGSEGIVEGQYHELGLNQLNDLELIEYVCKKK 179
Query: 239 TAALLEAAVVLGAILGGGTDNEVEKLRTFARCIGLLFQVVDDILD-LTKSSKELGKTAGK 297
L GAILGG ++++EKLR F +G + ++ KEL + A K
Sbjct: 180 EGTLHACGAACGAILGGCDEDKIEKLRRFGLYVGTVQGLLGKNRSGFEGRIKELKELAVK 239
Query: 298 DLVADKLTYPKLL-GIEESKKLADKLNKDAQQQ 329
+L + +L+ G+ E + +
Sbjct: 240 ELESFGGEKIELIRGVFELEHSLAGVEGHHHHH 272
>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 = 288 bits (737), Expect = 8e-97
Identities = 77/289 (26%), Positives = 123/289 (42%), Gaps = 7/289 (2%)
Query: 64 SPTFDFKSYMIQKASTVNQALDAAVSLKDPVKIHESMRYSLLAGGKRVRPVLCLAACDLV 123
+ K V + + + + E+M YS GG R+RP+L L + +
Sbjct: 2 GSDKIHHHHHHMKXEXVEERIREILRPGWDLLTEEAMLYSATVGGXRIRPLLVLTLGEDL 61
Query: 124 GGHESMAMPAACSIEMIHTMSLIHDDLPCMDNDPLRRGKPTNHTIYGEDVAVLAGDALLA 183
G E + A ++E+ HT SLIHDDLP +DN RRG P+ H YGED+A+LAGD L
Sbjct: 62 GVEEEXLLDVAVAVELFHTASLIHDDLPPIDNADFRRGXPSCHRTYGEDIALLAGDGLFF 121
Query: 184 YAFEHIAVCTKGVSPARIVRAIAELAKYIGADGLVAGQAEKDLGIEHLEFIHEHKTAALL 243
AF I+ L D + + ++ E +E ++ T AL
Sbjct: 122 LAFSQISXIGNSXIFEEFSETAYXLLLGEAMD-VEFERRXMEVSQEMVERMYAFXTGALF 180
Query: 244 EAAVVLGAILGGGTDNEVEKLRTFARCIGLLFQVVDDILDLTKSSKELGKTAGKDLVADK 303
IL G + G+ FQ+ DD+ D+ S +++GK GKD +
Sbjct: 181 AFCFSAPFILXGXDH---TXMXLLGEXFGVAFQIYDDLXDILGSFEKVGKDLGKD--TEX 235
Query: 304 LTYPKLLGIEESKKLADKLNKDAQQQLSEFD-QEKAVPLIALANYIAYR 351
+T +GI+ ++++AD ++ + L L + R
Sbjct: 236 VTLVXXVGIQXAREMADXYYEEVLXGIESEGLFRTLFLLXELXQMVEER 284
>3nf2_A Putative polyprenyl synthetase; isoprenyl diphosphate synthase,
structural genomics, PSI, PR structure initiative,
nysgrc; 2.20A {Streptomyces coelicolor}
Length = 352
Score = 288 bits (740), Expect = 3e-96
Identities = 82/309 (26%), Positives = 129/309 (41%), Gaps = 30/309 (9%)
Query: 66 TFDFKSYMIQKASTVNQALDAAVSLKDPVK----------IHESMRYSLLAGGKRVRPVL 115
+ D + + + + L AAV P I + GGK VRP L
Sbjct: 2 SLDVTALLERGRTLATPVLRAAVDRLAPPMDTVAAYHFGWIDAQGNPADGDGGKAVRPAL 61
Query: 116 CLAACDLVGGHESMAMPAACSIEMIHTMSLIHDDLPCMDNDPLRRGKPTNHTIYGEDVAV 175
+ + ++ G + +P A ++E++H SL+HDDL MD D RR + T ++G A+
Sbjct: 62 AVLSAEVTGAAPEVGVPGAVAVELVHNFSLLHDDL--MDGDEQRRHRDTVWKVHGPAQAI 119
Query: 176 LAGDALLAYAFEHIAVCTKGVSPARIVRAIAELAKYIGADGLVAGQA-------EKDLGI 228
L GDAL A A E + + RA L K + L+ GQA + +
Sbjct: 120 LVGDALFALANEVLL----ELGTVEAGRATRRLTK--ASRSLIDGQAQDISYEHRDRVSV 173
Query: 229 EHLEFIHEHKTAALLEAAVVLGAILGGGTDNEVEKLRTFARCIGLLFQVVDDILDLTKSS 288
E + +KT ALL A +GA+LGG + + L + +GL FQ VDD+L +
Sbjct: 174 EECLEMEGNKTGALLACASSIGAVLGGADERTADTLEKYGYHLGLAFQAVDDLLGIWGDP 233
Query: 289 KELGKTAGKDLVADKLTYPKLLGIEESKKLADKLNKDAQQQLSEFD-----QEKAVPLIA 343
GK DL K + P + + +++L + D +E+ A
Sbjct: 234 DATGKQTWSDLRQRKKSLPVVAALAAGGAASERLGEILTADAKASDFANFSEEEFAARAA 293
Query: 344 LANYIAYRQ 352
L R+
Sbjct: 294 LIEEAGGRE 302
Score = 30.0 bits (68), Expect = 1.1
Identities = 15/93 (16%), Positives = 26/93 (27%), Gaps = 4/93 (4%)
Query: 158 LRRGKPTNHTIYGEDVAVLAGDALLAYAFEHIAVCTKGVSPARIVRAIAELAKYIGADGL 217
LR+ K + + A + L A A L + G
Sbjct: 244 LRQRKKSLPVVAALAAGGAASERLGEILTADAKASDFANFSEEEFAARAALIEEAGGREW 303
Query: 218 VAGQAEK--DLGIEHLEFI--HEHKTAALLEAA 246
A +A + + IE L+ + + A
Sbjct: 304 TADEARRQHTIAIEALDAVDMPDRVRDRFTALA 336
>4fp4_A Polyprenyl synthetase; isoprenoid synthesis, isoprenoid diphosphate
synthase, trans; HET: GER UNL; 2.00A {Pyrobaculum
calidifontis}
Length = 285
Score = 285 bits (732), Expect = 7e-96
Identities = 68/290 (23%), Positives = 127/290 (43%), Gaps = 21/290 (7%)
Query: 67 FDFKSYMIQKASTVNQALDAAVSLKDPVKIHESMRYSLLAGGKRVRPVLCLAACDLVGGH 126
+ ++ V L+ +P+ + +++R+ + GK +RP+L L +
Sbjct: 4 YSLPPEVLAALERVKARLNKVGEELEPISLRKAVRHYIETPGKLLRPLLLLTFTYSIDRR 63
Query: 127 ESM---AMPAACSIEMIHTMSLIHDDLPCMDNDPLRRGKPTNHTIYGEDVAVLAGDALLA 183
M + AA +E++H +SL+ DD+ MD RRG T +YG+ A++A D L+A
Sbjct: 64 SIMDPRILEAAAIVELLHVVSLLQDDV--MDQHDQRRGIKTPRAMYGDGRAIVASDWLIA 121
Query: 184 YAFEHIAVCTKGVSPARIVRAIAELAKYIGADGLVAGQAEKDLGIEHLEFIHEHKTAALL 243
+ + A +V +A++A+ L GQA DL E + E KTA L+
Sbjct: 122 ESIKMAVNL-----GADVVTYLADVAQ-----RLSVGQA-LDLEGERDK-AAEFKTAPLI 169
Query: 244 EAAVVLGAILGGGTDNEVEKLRTFARCIGLLFQVVDDILDLTKSSKELGKTAGKDLVADK 303
EAA+V+ ++ G +E + +G+L+Q DD D + K+ ++
Sbjct: 170 EAALVMPLVI-LGRRELIETAKKLGTKLGILYQYSDDYSDEN-VERPETKSIANEIGRYL 227
Query: 304 LTYPKLL--GIEESKKLADKLNKDAQQQLSEFDQEKAVPLIALANYIAYR 351
L + + I ++L L A + + A L +++ +
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 = 258 bits (661), Expect = 2e-84
Identities = 97/307 (31%), Positives = 155/307 (50%), Gaps = 26/307 (8%)
Query: 64 SPTFDFKSYMIQKASTVNQALDAAVSLKDPVKIHESMRYSLLAGGKRVRPVLCLAACDLV 123
+ + + +KA +++ + + KDP ++E+ R+ LAGGKRVRP + L + + V
Sbjct: 2 EKYEELFARIKEKAKLIDEKIFELIPEKDPRVLYEAARHYPLAGGKRVRPFVVLTSTEAV 61
Query: 124 GGHESMAMPAACSIEMIHTMSLIHDDLPCMDNDPLRRGKPTNHTIYGEDVAVLAGDALLA 183
GG A+ A +IE+IH SL+HDD+ MD D RRGKPT H I+G ++A+LAGD L +
Sbjct: 62 GGDPLRAIYPAVAIELIHNYSLVHDDI--MDMDETRRGKPTVHRIWGVNMAILAGDLLFS 119
Query: 184 YAFEHIAVCTKGVSPARIVRAIAELAKYIGADGLVAGQA-------EKDLGIEHLEFIHE 236
AFE +A + P + R + + K ++ L GQA + + IE +
Sbjct: 120 KAFEAVARA--EIPPEKKARVLEVIVK--ASNELCEGQARDLEFEKKSTVTIEEYMEMIS 175
Query: 237 HKTAALLEAAVVLGAILGGGTDNEVEKLRTFARCIGLLFQVVDDILDLTKSSKELGKTAG 296
KT AL EA+ +G I+G + ++ L ++ R +G+ FQ+ DD+LDL K+LGK G
Sbjct: 176 GKTGALFEASAKVGGIIGTDNEEYIKALSSWGRNVGIAFQIWDDVLDLIADEKKLGKPVG 235
Query: 297 KDLVADKLTYPKLLGIEES-------------KKLADKLNKDAQQQLSEFDQEKAVPLIA 343
D+ K T E + K D + ++ + D +A+ L+
Sbjct: 236 SDIRKGKKTLIVAHFFENADEKDKQRFLKIFGKYAGDVKGRGIIEEDIKSDVMEAIDLLK 295
Query: 344 LANYIAY 350
I Y
Sbjct: 296 KYGSIDY 302
>4dhd_A Polyprenyl synthetase; isoprenoid synthesis, isoprenoid diphosphate
synthase, trans; 1.65A {Pyrobaculum calidifontis}
Length = 358
Score = 243 bits (622), Expect = 3e-78
Identities = 80/335 (23%), Positives = 135/335 (40%), Gaps = 54/335 (16%)
Query: 68 DFKSYMIQKASTVNQALDAAVSLKDPVKIHESMRYSLLAGGKRVRPVLCLAACDLVGGHE 127
+ + V +AL +S+ E++ Y + GGKR+RP+L LAA + V G
Sbjct: 5 VVSRLHQKYGAEVEKALVRYLSIGLAEDFREAVLYQVKTGGKRLRPLLTLAAAEAVSGQW 64
Query: 128 SMAMPAACSIEMIHTMSLIHDDLPCMDNDPLRRGKPTNHTIYGEDVAVLAGDALLAYAFE 187
A+PAA +E+IH SLI+DD+ +D +RRG PT +G++ A+L G E
Sbjct: 65 RPALPAAAIVELIHNYSLIYDDI--IDRGDVRRGLPTVRKAFGDNAAILVGIWYREAIEE 122
Query: 188 HIAVCTKGVSPARI----VRAIAE-------LAKYIGADGLVAGQAEKDLGIEHLEFIHE 236
+ K A+ ++AI E +D +++ ++ +
Sbjct: 123 AVLDTPKPTLFAKEVAEVIKAIDEGERLDILFEAAGRSDPYFVQARWREVTLDDYIKMVS 182
Query: 237 HKTAALLEAAVVLGAILGGGTDNEVEKLRTFARCIGLLFQVVDDILDLTKSSKELGKTAG 296
KT AL+ AA G + E F G+ FQ++DD+LD+ K+ GK G
Sbjct: 183 LKTGALIAAAAKWGVLSVSDDRGLAEAAWNFGMAAGVAFQIIDDVLDIYGDPKKFGKEIG 242
Query: 297 KDLVADKLTYPKLL---------------------------------------GIEESKK 317
KD+ K + EE+ +
Sbjct: 243 KDIKEHKRGNAVVAVALSHLGEGERRRLLEILAREVVEEADVREAVALLDSVGAREEALR 302
Query: 318 LADKLNKDAQQQLSEFDQEKAVPLIALANYIAYRQ 352
LA + ++A++ L++ L L ++I R+
Sbjct: 303 LAARYREEAERHLAKIPNNGT--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 = 209 bits (533), Expect = 2e-65
Identities = 66/285 (23%), Positives = 110/285 (38%), Gaps = 24/285 (8%)
Query: 80 VNQALDAAVSLKDPVKIHESMRYSLLAGGKRVRPVLCLAACDLVGGHESMAMPAACSIEM 139
+ + L A + DP+ + ++ GGK +R +L + + G + AA ++E+
Sbjct: 12 LQERLLARLDHPDPL-YRDLLQDYPRRGGKMLRGLLTVYSALAHGAPLEAGLEAATALEL 70
Query: 140 IHTMSLIHDDLPCMDNDPLRRGKPTNHTIYGEDVAVLAGDALLAYAFEHIAVCTKGVSPA 199
L+HDD+ D RRG+P H ++ +A+ AGDA+ A + +A
Sbjct: 71 FQNWVLVHDDI--EDGSEERRGRPALHRLHPMPLALNAGDAMHAEMWGLLAEG--LARGL 126
Query: 200 RIVRAIAELAKYIGADGLVAGQA---------EKDLGIEHLEFIHEHKTAALLE-AAVVL 249
+ E + GQ DL E + HK A A + L
Sbjct: 127 FPPEVLLEFHE--VVRRTAYGQHLDLLWTLGGTFDLRPEDYFRMVAHKAAYYTAVAPLRL 184
Query: 250 GAILGGGTDNEVEKLRTFARCIGLLFQVVDDILDLTKSSKELGKTAGKDLVADKLTYPKL 309
GA+L G T +G FQ+VDD+L+L + GK DL K T L
Sbjct: 185 GALLAGKT--PPAAYEEGGLRLGTAFQIVDDVLNLE-GGEAYGKERAGDLYEGKRTLILL 241
Query: 310 L----GIEESKKLADKLNKDAQQQLSEFDQEKAVPLIALANYIAY 350
E + A L ++ E + + + + +A+
Sbjct: 242 RFLEEAPPEERARALALLALPREAKPEAEVGWLLERLLASRALAW 286
>3ipi_A Geranyltranstransferase; isoprene biosynthesis, helical bundle,
protein structure initiative II (PSI II), structural
genomics, nysgxrc; 1.90A {Methanosarcina mazei}
Length = 295
Score = 206 bits (526), Expect = 8e-65
Identities = 69/296 (23%), Positives = 130/296 (43%), Gaps = 27/296 (9%)
Query: 68 DFKSYMIQKASTVNQALDAAVSLKDPVKIHESMRYSLLAGGKRVRPVLCLAACDLVGGHE 127
++ V + +++L + + + + + +GGKR+RP++ L ++ G
Sbjct: 2 SLNIEEWEEYRYVEAGIKESITLIEDPGLKKMVEHVCHSGGKRIRPIILLLVSEICSGSY 61
Query: 128 SMAMPAACSIEMIHTMSLIHDDLPCMDNDPLRRGKPTNHTIYGEDVAVLAGDALLAYAFE 187
S ++ AA ++EM+H+ SLIHDDL +D +RR P+ +G A+L GD L+A +
Sbjct: 62 SRSLNAALAVEMMHSASLIHDDL--LDQGLVRRNLPSAPEKFGPSGALLCGDYLIAKSIA 119
Query: 188 HIAVCTKGVSPARIVRAIAELAKYIGADGLVAGQAEKDLGI---EHLEFIHEHKTAALLE 244
I+ ++++ + + A+G V +D ++ + I KTA+L
Sbjct: 120 FISPY-----GEKVIQDFGKAGMDM-AEGEVLDLKLEDESFGENDYFKCI-YKKTASLFA 172
Query: 245 AAVVLGAILGGGTDNEVEKLRTFARCIGLLFQVVDDILDLTKSSKELGKTAGKDLVADKL 304
+ +GA GG + E+ F +G +Q+VDDIL+ GK+
Sbjct: 173 ISASIGAYTGGAEEELAERFSHFGNALGTAYQIVDDILEFL------EVVEGKESKFTSE 226
Query: 305 TYPKLL--------GIEESKKLADKLNKDAQQQLSEFDQEKAVP-LIALANYIAYR 351
T P + +++S A++ L F + A L + +YI
Sbjct: 227 TLPHIYMKSTSKEEALKKSIDCVKLHVAAAKETLETFRECPARDKLFQITDYITVD 282
>3lk5_A Geranylgeranyl pyrophosphate synthase; structural genomics, protein
structure initiative, geranylge pyrophosphate synthase;
1.90A {Corynebacterium glutamicum} PDB: 3qqv_A*
Length = 380
Score = 207 bits (529), Expect = 3e-64
Identities = 75/333 (22%), Positives = 124/333 (37%), Gaps = 53/333 (15%)
Query: 61 PAPSPTFDFKSYMIQKASTVNQALDAAVSLK---------DPVKIHESMRYSLLAGGKRV 111
+ D + V L + + +R +L GGKR+
Sbjct: 10 SFDAHDLDLDKFP----EVVRDRLTQFLDAQELTIADIGAPVTDAVAHLRSFVLNGGKRI 65
Query: 112 RPVLCLAACDLVGGHESM------AMPAACSIEMIHTMSLIHDDLPCMDNDPLRRGKPTN 165
RP+ A GH++ + AA S+E I +LIHDD+ +D+ RRG PT
Sbjct: 66 RPLYAWAGFLAAQGHKNSSEKLESVLDAAASLEFIQACALIHDDI--IDSSDTRRGAPTV 123
Query: 166 HTI----------------YGEDVAVLAGDALLAYAFEHIAVCTKGVSPARIVRAIAELA 209
H +G V++LAGD L +A + + G+S + R
Sbjct: 124 HRAVEADHRANNFEGDPEHFGVSVSILAGDMALVWAEDMLQDS--GLSAEALARTRDAWR 181
Query: 210 KYIGADGLVAGQ-------AEKDLGIEHLEFIHEHKTAALL-EAAVVLGAILGGGTDNEV 261
++ GQ + + +E + ++ KTAA + LGA + GG+ +
Sbjct: 182 G--MRTEVIGGQLLDIYLESHANESVELADSVNRFKTAAYTIARPLHLGASIAGGSPQLI 239
Query: 262 EKLRTFARCIGLLFQVVDDILDLTKSSKELGKTAGKDLVADKLTYPKLLGIE----ESKK 317
+ L + IG+ FQ+ DD+L + GK AG D+ K T L ++ +S +
Sbjct: 240 DALLHYGHDIGIAFQLRDDLLGVFGDPAITGKPAGDDIREGKRTVLLALALQRADKQSPE 299
Query: 318 LADKLNKDAQQQLSEFDQEKAVPLIALANYIAY 350
A + + S D I
Sbjct: 300 AATAIRAGVGKVTSPEDIAVITEHIRATGAEEE 332
>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 = 199 bits (509), Expect = 9e-62
Identities = 72/315 (22%), Positives = 117/315 (37%), Gaps = 49/315 (15%)
Query: 80 VNQALDAAVSLKDPVKIHESMRYSLLAGGKRVRPVLCLAACDLVGGH-ESMAMPAACSIE 138
+ L V L + IH + L +GGK +RP + A +IE
Sbjct: 28 LQDYLLRTVQLDNQP-IHHKILALLKSGGKLLRPGYFYLFSTFGNAATPAQLQAGAAAIE 86
Query: 139 MIHTMSLIHDDLPCMDNDPLRRGKPTNHTIYGEDVAVLAGDALLAYAFEHIAVCTKGVSP 198
++H +LIHDD+ +D+ P RRG T YG+ A+ AGD + F+ + T
Sbjct: 87 ILHVGTLIHDDV--IDDSPTRRGVRTIQMTYGQRNAIYAGDFMFTVYFDQVLKSTTDR-- 142
Query: 199 ARIVRAIAELAKYIGADGLV---AGQAEKDLGIEH-LEFIHEHKTAALLEAAVVLGAILG 254
+++ + I G + +D+ ++ L I KTA L + GA L
Sbjct: 143 -SLIQNHIDAMHRI-LQGELHQMDLNYREDITLDAYLNEIAG-KTAELFALSCYQGAQLA 199
Query: 255 GGTDNEVEKLRTFARCIGLLFQVVDDILDLTKSSKELGKTAGKDLVADKLTYPKLL---- 310
G + +++ R IG +Q++DDILD K K +DL + + P LL
Sbjct: 200 GAPQSVIDRTRDIGIAIGCAYQMLDDILDYAGDPKRTQKPVLEDLRSGVYSLPLLLSLSH 259
Query: 311 -------------------------------GIEESKKLADKLNKDAQQQLSEFDQEKAV 339
G+ +K+LA A + + A
Sbjct: 260 APRDFHKLLKKKQAMTLEDIKHVQALVAQYDGVGAAKQLAQDYTDRALTLIQQLPVGSAQ 319
Query: 340 P-LIALANYIAYRQN 353
L L + R +
Sbjct: 320 QSLEQLTRLLLRRDH 334
>3aqb_B Component B of hexaprenyl diphosphate synthase; prenyltransferase,
transferase; 2.40A {Micrococcus luteus} PDB: 3aqc_B*
Length = 325
Score = 196 bits (501), Expect = 1e-60
Identities = 80/330 (24%), Positives = 138/330 (41%), Gaps = 53/330 (16%)
Query: 66 TFDFKSYMIQKASTVNQALDAAVSLKDPVKIHESMRYSLLAGGKRVRPVLCLAACDLVGG 125
+K+++ V + L + I+++ + L +GGKRVRP+ L + L
Sbjct: 3 ALSYKAFLNPYIIEVEKRLYECIQSDSET-INKAAHHILSSGGKRVRPMFVLLSGFLNDT 61
Query: 126 HESMAMPAACSIEMIHTMSLIHDDLPCMDNDPLRRGKPTNHTIYGEDVAVLAGDALLAYA 185
+ + A S+E++H SL+HDD +DN +RRG + H + +D A+ G LLA A
Sbjct: 62 QKDDLIRTAVSLELVHMASLVHDDY--IDNSDMRRGNTSVHIAFDKDTAIRTGHFLLARA 119
Query: 186 FEHIAVCTKGVSPARIVRAIAELAKYIGADGLV---AGQAEKDLGIEH-LEFIHEHKTAA 241
++IA ++ ++ + ++ + G A + + L I+ KTA
Sbjct: 120 LQNIA----TINNSKFHQIFSKTILEV-CFGEFDQMADRFNYPVSFTAYLRRIN-RKTAI 173
Query: 242 LLEAAVVLGAILGGGTDNEVEKLRTFARCIGLLFQVVDDILDLTKSSKELGKTAGKDLVA 301
L+EA+ LGA+ + ++ F CIG+ +Q++DDILD T LGK G D+
Sbjct: 174 LIEASCHLGALSSQLDEQSTYHIKQFGHCIGMSYQIIDDILDYTSDEATLGKPVGSDIRN 233
Query: 302 DKLTYPKLL---------------------------------------GIEESKKLADKL 322
+TYP + GIE ++ L+ K
Sbjct: 234 GHITYPLMAAIANLKEQDDDKLEAVVKHLTSTSDDEVYQYIVSQVKQYGIEPAELLSRKY 293
Query: 323 NKDAQQQLSEFDQEKAVP-LIALANYIAYR 351
A+ LS+ L + + R
Sbjct: 294 GDKAKYHLSQLQDSNIKDYLEEIHEKMLKR 323
>2azj_A Geranylgeranyl pyrophosphate synthetase; hexpps,
trans-prenyltransferase; 2.40A {Sulfolobus solfataricus}
PDB: 2azk_A
Length = 289
Score = 194 bits (495), Expect = 3e-60
Identities = 58/285 (20%), Positives = 111/285 (38%), Gaps = 21/285 (7%)
Query: 64 SPTFDFKSYMIQKASTVNQALDAAVSLKDPVKIHESMRYSLLAGGKRVRPVLCLAACDLV 123
+ ++ +T+++ ++ ++ + + Y +L GKR R L + +
Sbjct: 6 HHHMSIIEFWLEAKATIDRLIEQFLNSNRDWDLVDISSY-ILKDGKRFRGTLNMFFTVAL 64
Query: 124 GGHESMAMPAACSIEMIHTMSLIHDDLPCMDNDPLRRGKPTNHTIYGEDVAVLAGDALLA 183
GG + A +IE++H+ SL D+ +D D RRG +YG + + L+
Sbjct: 65 GGDIKDSYGGALAIEILHSASLALCDI--VDLDATRRGDKAAWVVYGNRKVIFITNYLIP 122
Query: 184 YAFEHIAVCTKGVSPARIVRAIAELAKYIGADGLVAGQAEKDLGIEH--LEFIHEHKTAA 241
A I + EL K + G + +D+ + I E KT +
Sbjct: 123 TALRIIQ----TSYGDDALNTSIELWKDT-SVGAL-----RDMYDNSDYIRTI-ELKTGS 171
Query: 242 LLEAAVVLGAILGGGTDNEVEKLRTFARCIGLLFQVVDDILDLTKSSKE----LGKTAGK 297
L + + VL A N +++ + +G+++QV+DD +D E K K
Sbjct: 172 LFKLSTVLSAYA-SKHYNTKQQMLDVGKYLGIIYQVIDDFVDYKTKKVEEIDGSAKQLFK 230
Query: 298 DLVADKLTYPKLLGIEESKKLADKLNKDAQQQLSEFDQEKAVPLI 342
KL E K+ D+L + Q + +++P
Sbjct: 231 YYREGKLEEYVRSVYLEYKQKYDELISNIPFQSKYLSEIRSLPEF 275
>3mzv_A Decaprenyl diphosphate synthase; transferase, structural genomics,
PSI-2, protein structure initiative; 1.90A {Rhodobacter
capsulatus}
Length = 341
Score = 195 bits (498), Expect = 5e-60
Identities = 91/336 (27%), Positives = 147/336 (43%), Gaps = 51/336 (15%)
Query: 59 ENPAPSPTFDFKSYMIQKASTVNQALDAAVSLKDPVKIHESMRYSLLAGGKRVRPVLCLA 118
++ A P + + + VN + +S + +I E + + AGGKR+RP+L LA
Sbjct: 4 DDKATKPHDRLAQALAEDMAAVNALIRERMSSEHAPRIPEVTAHLIEAGGKRLRPMLTLA 63
Query: 119 ACDLVGGHESMAMPAACSIEMIHTMSLIHDDLPCMDNDPLRRGKPTNHTIYGEDVAVLAG 178
A LVG + A ++E IHT +L+HDD+ +D RRG+PT + ++ +VL G
Sbjct: 64 AARLVGYGGPFHVHLAATVEFIHTATLLHDDV--VDESRQRRGRPTANLLWDNKSSVLVG 121
Query: 179 DALLAYAFEHIAVCTKGVSPARIVRAIAELAKYIGADGLV---AGQAEKDLGIEH-LEFI 234
D L A +F+ + R++ +A + I A+G V + L I
Sbjct: 122 DYLFARSFQLMT----DTGNMRVMEILANASAVI-AEGEVLQLTAAQNLATTEDIYLRVI 176
Query: 235 HEHKTAALLEAAVVLGAILGGGTDNEVEKLRTFARCIGLLFQVVDDILDLTKSSKELGKT 294
KTAAL AA +G I+GG +++V+ L + +G+ FQ+VDD+LD S E+GK
Sbjct: 177 R-GKTAALFSAATEVGGIIGGAPEDQVQALFDYGDALGIAFQIVDDLLDYGGKSAEIGKN 235
Query: 295 AGKDLVADKLTYPKLL--------------------------------------GIEESK 316
G D KLT P + +E ++
Sbjct: 236 TGDDFRERKLTMPVIKAVALADEAERAFWKRVIEKGDQQDGDLEHAMALMTKHGTLEATR 295
Query: 317 KLADKLNKDAQQQLSEFDQEKAVP-LIALANYIAYR 351
A A++ L++ L LA+Y+ R
Sbjct: 296 LAAIGWTDTARKALAKLPDHPLRQMLDDLADYVVER 331
>3oyr_A Trans-isoprenyl diphosphate synthase; isoprenyl synthase, PSI,
protein structure initiative; HET: IPE; 2.00A
{Caulobacter crescentus}
Length = 345
Score = 194 bits (494), Expect = 2e-59
Identities = 93/312 (29%), Positives = 140/312 (44%), Gaps = 16/312 (5%)
Query: 46 RRPVSISAVQTLEENPAPSPTF-DFKSYMIQKASTVNQALDAAVSLKDPVKIHESMRYSL 104
S P S + + VN+ + + + I + +
Sbjct: 3 HHHHHHSLDAAAATLPRKSGSVDRLVRLAEADMAGVNRLITDRMQSDVAI-IPALAEHLI 61
Query: 105 LAGGKRVRPVLCLAACDLVGGHESMAMPAACSIEMIHTMSLIHDDLPCMDNDPLRRGKPT 164
AGGKR+RP++ +AA L G A ++E IHT +L+HDD+ +D LRRGK
Sbjct: 62 AAGGKRLRPLMTVAAARLAGADNDHFQKLAAAVEFIHTATLLHDDV--VDGSQLRRGKVA 119
Query: 165 NHTIYGEDVAVLAGDALLAYAFEHIAVCTKGVSPARIVRAIAELAKYIGADGLVA-GQAE 223
H I+G +VL GD L A AFE + + + + +A ++ I A+G V
Sbjct: 120 AHLIWGGAQSVLVGDFLFARAFELMV----ETNSMKALEILARASRVI-AEGEVLQLMRS 174
Query: 224 KDLGI---EHLEFIHEHKTAALLEAAVVLGAILGGGTDNEVEKLRTFARCIGLLFQVVDD 280
DL + +LE I KTA L AA GA+ G + E LR + +GL FQ+ DD
Sbjct: 175 HDLNLSQAVYLEIIQ-AKTAELFAAASEAGAVSAGVDVAKSEALRDYGLNLGLAFQLADD 233
Query: 281 ILDLTKSSKELGKTAGKDLVADKLTYPKLLGIEESKKLADKLNKDA--QQQLSEFDQEKA 338
LD +++ LGK AG D K T P LL I S + + A +++ +E D +A
Sbjct: 234 ALDYGGATETLGKNAGDDFREGKATLPLLLAIARSGPREAEFWERAIGRREQTEADFRRA 293
Query: 339 VPLIALANYIAY 350
LI + +
Sbjct: 294 RELIIGSGALDA 305
>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 = 187 bits (476), Expect = 8e-57
Identities = 49/244 (20%), Positives = 98/244 (40%), Gaps = 13/244 (5%)
Query: 91 KDPVKIHESMRYSLLAGGKRVRPVLCLAACDLVGGHESMAMPAACSIEMIHTMSLIHDDL 150
++ I + + LL GK R L + ++ + + +E++H SL+ DD+
Sbjct: 23 QNESLISKPYNHILLKPGKNFRLNLIVQINRVMNLPKDQLAIVSQIVELLHNSSLLIDDI 82
Query: 151 PCMDNDPLRRGKPTNHTIYGEDVAVLAGDALLAYAFEHIAVCT-KGVSPARIVRAIAELA 209
DN PLRRG+ T+H I+G + + + A + ++ T K ++ E
Sbjct: 83 --EDNAPLRRGQTTSHLIFGVPSTINTANYMYFRAMQLVSQLTTKEPLYHNLITIFNEEL 140
Query: 210 KYIGADG----LVAGQAEKDLGI---EHLEFIHEHKTAALLEAAVVLGAILGGGTDNEVE 262
+ G + ++ +L + +KT L + L L + +
Sbjct: 141 INL-HRGQGLDIYWRDFLPEIIPTQEMYLNMVM-NKTGGLFRLTLRLMEAL-SPSSHHGH 197
Query: 263 KLRTFARCIGLLFQVVDDILDLTKSSKELGKTAGKDLVADKLTYPKLLGIEESKKLADKL 322
L F +G+++Q+ DD L+L K +D+ KL++P + + +K
Sbjct: 198 SLVPFINLLGIIYQIRDDYLNLKDFQMSSEKGFAEDITEGKLSFPIVHALNFTKTKGQTE 257
Query: 323 NKDA 326
+
Sbjct: 258 QHNE 261
>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 = 187 bits (477), Expect = 1e-56
Identities = 84/322 (26%), Positives = 138/322 (42%), Gaps = 19/322 (5%)
Query: 38 VSLASQR--PRRPVSISAVQTLEENPAPSPTFD--FKSYMIQKASTVNQALDAAVSLKDP 93
+SL+S R P R + + D + + V + L +S +
Sbjct: 1 MSLSSGRTVPTRSHGLGKEGVSTTGASQVEFGDPELTARINDAMVQVEELLHTELSSGED 60
Query: 94 VKIHESMRYSLLAGGKRVRPVLCLAACDLVGGHES-MAMPAACSIEMIHTMSLIHDDLPC 152
+ + + + AGGKR RP+ L A + S + AA +E+ H +L HDD+
Sbjct: 61 F-LVDIVMHLTRAGGKRFRPMFALLASEFGEKPLSENVIKAAVVVEITHLATLYHDDV-- 117
Query: 153 MDNDPLRRGKPTNHTIYGEDVAVLAGDALLAYAFEHIAVCTKGVSPARIVRAIAELAKYI 212
MD +RRG P+ + + VA+LAGD LLA+A ++ + V AE +
Sbjct: 118 MDEASMRRGVPSANARWDNSVAILAGDILLAHASGLMS----QLGT-DTVAHFAETFGEL 172
Query: 213 GADGLV---AGQAEKDLGIEHLEFIHEHKTAALLEAAVVLGAILGGGTDNEVEKLRTFAR 269
G + G + D + I E KT L+ +A LGA+ G ++ L+ F
Sbjct: 173 -VTGQMRETVGPRDTDPIEHYTNVIRE-KTGVLIASAGYLGAMHAGAAPEHIDALKNFGA 230
Query: 270 CIGLLFQVVDDILDLTKSSKELGKTAGKDLVADKLTYPKLLGIEESKKLADKLNKDAQQQ 329
+G++FQ+VDDI+D+ + E GKT G DL T P L + E + +L
Sbjct: 231 AVGMIFQIVDDIIDIFSETHESGKTPGTDLREGVFTLPVLYALREDTPVGAELRDILTGP 290
Query: 330 L-SEFDQEKAVPLIALANYIAY 350
L + + L++ +
Sbjct: 291 LEDDETVNHVLELLSQSGGRQA 312
>3rmg_A Octaprenyl-diphosphate synthase; structural genomics, protein
structure initiative, isoprene biosynthesis,
transferase; 2.30A {Bacteroides thetaiotaomicron}
Length = 334
Score = 186 bits (474), Expect = 1e-56
Identities = 81/316 (25%), Positives = 129/316 (40%), Gaps = 53/316 (16%)
Query: 80 VNQALDAAVSLKDPVKIHESMRYSLLAGGKRVRPVLCLAACDLVGGHESMAMPAACSIEM 139
D +S + + + + + GK +RP+L L L G + AA S+E+
Sbjct: 20 FKALFDTPLSDSNAL-LDSVITHIRKRNGKMMRPILVLLVARLYGAVTPATLHAAVSLEL 78
Query: 140 IHTMSLIHDDLPCMDNDPLRRGKPTNHTIYGEDVAVLAGDALLAYAFEHIAVCTKGVSPA 199
+HT SL+HDD+ +D RRG+ + + I+ V+VLAGD LLA + H +
Sbjct: 79 LHTASLVHDDV--VDESTERRGQLSVNAIFNNKVSVLAGDYLLATSLVHAE----QTNNY 132
Query: 200 RIVRAIAELAKYIGADG-LVAGQAEKDLGI---EHLEFIHEHKTAALLEAAVVLGAILGG 255
I+R ++ L + + A+G L+ + + + I KTAAL A A+
Sbjct: 133 EIIRLVSSLGQKL-AEGELLQLSNVSNHSFSEEVYFDVIR-KKTAALFAACAEAAALSVQ 190
Query: 256 GTDNEVEKLRTFARCIGLLFQVVDDILDLTKSSKELGKTAGKDLVADKLTYPKLL----- 310
+ EV R IG+ FQ+ DDI D SK++GK G D++ KLT P L
Sbjct: 191 VGEEEVAFARLLGEYIGICFQIKDDIFDYF-DSKKIGKPTGNDMLEGKLTLPALYALNTT 249
Query: 311 ---------------------------------GIEESKKLADKLNKDAQQQLSEFDQEK 337
GIE + + ++ K A L+
Sbjct: 250 KDAWAEQIAFKVKEGTATPDEIVRLIEFTKDNGGIEYACRTIEQYKKKAFDLLAALPDSN 309
Query: 338 AVP-LIALANYIAYRQ 352
L +Y+ R+
Sbjct: 310 ICLALRTYLDYVVARE 325
>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 = 181 bits (461), Expect = 5e-55
Identities = 60/269 (22%), Positives = 95/269 (35%), Gaps = 25/269 (9%)
Query: 91 KDPVKIHESMRYSLLAGGKRVRPVLCLAACDLVGGHESMAMPAACSIEMIHTMSLIHDDL 150
+ E +Y L GK+VR L A + E EM+H SL+ DD+
Sbjct: 8 TVQRILLEPYKYLLQLPGKQVRTKLSQAFNHWLKVPEDKLQIIIEVTEMLHNASLLIDDI 67
Query: 151 PCMDNDPLRRGKPTNHTIYGEDVAVLAGDALLAYAFEHIAVCTKGVSPARIVRAIAELAK 210
DN LRRG P H+IYG + + + + E + + R + EL +
Sbjct: 68 --EDNSKLRRGFPVAHSIYGIPSVINSANYVYFLGLEKVLTLDHPDAVKLFTRQLLELHQ 125
Query: 211 YIGADGLVAGQA-----EKDLGI----EHLEFIHEHKTAALLEAAVVLGAILGGGTDNEV 261
GQ + E+ + KT L AV L +
Sbjct: 126 ---------GQGLDIYWRDNYTCPTEEEYKAMV-LQKTGGLFGLAVGLMQLFSDYK---- 171
Query: 262 EKLRTFARCIGLLFQVVDDILDLTKSSKELGKTAGKDLVADKLTYPKLLGIEESKKLADK 321
E L+ +GL FQ+ DD +L K+ +DL K ++P + I +
Sbjct: 172 EDLKPLLNTLGLFFQIRDDYANLHSKEYSENKSFCEDLTEGKFSFPTIHAIWSRPESTQV 231
Query: 322 LNKDAQQQLSEFDQEKAVPLIALANYIAY 350
N Q+ + ++ V + Y
Sbjct: 232 QNILRQRTENIDIKKYCVHYLEDVGSFEY 260
>3tc1_A Octaprenyl pyrophosphate synthase; all alpha-helices fold,
transferase; 2.00A {Helicobacter pylori}
Length = 315
Score = 177 bits (450), Expect = 3e-53
Identities = 63/275 (22%), Positives = 111/275 (40%), Gaps = 16/275 (5%)
Query: 80 VNQALDAAVSLKDPVKIHESMRYSLLAGGKRVRPVLCLAACDLVGGHESMAMPAACSIEM 139
+ + + + + I E + R + +L L A+ +EM
Sbjct: 9 IQNKIASWIKEIESGFIDELFSKIGPSKMLRSKLMLALLNEKTDAILLDKALNLCTIVEM 68
Query: 140 IHTMSLIHDDLPCMDNDPLRRGKPTNHTIYGEDVAVLAGDALLAYAFEHIAVCTKGVSPA 199
I T SL+HDD+ +D +RR P+ + ++G AV+ GD + AF ++ +
Sbjct: 69 IQTASLLHDDV--IDKATMRRKLPSINALFGNFNAVMLGDVFYSKAFFELSKMGE----- 121
Query: 200 RIVRAIAELAKYIGADGLVA-GQAEKDLGI---EHLEFIHEHKTAALLEAAVVLGAILGG 255
I +A++ + + G + + ++ + E KTA +EA++ AIL
Sbjct: 122 LIAQALSNAVLRL-SRGEIEDVFVGECFNSDKQKYWRIL-EDKTAHFIEASLKSMAILLN 179
Query: 256 GTDNEVEKLRTFARCIGLLFQVVDDILDLTKSSKELGKTAGKDLVADKLTYPKLLGIEES 315
+ + F G+ FQ++DD+LD+T+ +K LGK D K T P LL E+
Sbjct: 180 ---KDAKIYADFGLNFGMAFQIIDDLLDITQDAKTLGKPNFSDFKEGKTTLPYLLLYEKL 236
Query: 316 KKLADKLNKDAQQQLSEFDQEKAVPLIALANYIAY 350
+ L +Q S E I
Sbjct: 237 NQHDQGLLISYFKQDSHEIIEWTKEKFKQYGIIEE 271
>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 = 170 bits (434), Expect = 5e-51
Identities = 63/242 (26%), Positives = 108/242 (44%), Gaps = 16/242 (6%)
Query: 96 IHESMRYSLLAGGKRVRPVLCLAACDLVGGHES-MAMPAACSIEMIHTMSLIHDDLPCMD 154
E + L GK +R L + + G A+ + ++E++H SL+HDD+ +D
Sbjct: 28 FPEQIMKDLPLYGKMLRVRLSILSFKNRGVEIGEDAISSLAALELVHLASLLHDDV--ID 85
Query: 155 NDPLRRGKPTNHTIYGEDVAVLAGDALLAYAFEHIAVCTKGVSPARIVRAIAELAKYIGA 214
RRGK T + +YG+ AV AGD +L AF + + ++ RA + + +
Sbjct: 86 GARFRRGKETINFMYGDKAAVAAGDLVLVSAFHTVE----EIGNNKLRRAFLNVIGKM-S 140
Query: 215 DGLVAGQAEKDLGI---EHLEFIHEHKTAALLEAAVVLGAILGGGTDNEVEKLRTFARCI 271
+ + Q + I E+L + E K+ AL A+ L A+L G E L I
Sbjct: 141 EAELIEQLSRYKPITKEEYLRIV-EGKSGALFGLALQLPALLEGEL---GEDLYNLGVTI 196
Query: 272 GLLFQVVDDILDLTKSSKELGKTAGKDLVADKLTYPKLLGIEESKKLADKLNKDAQQQLS 331
G ++Q+ DDI+D +++GK DL ++P + +E+ + L
Sbjct: 197 GTIYQMFDDIMDFA-GMEKIGKDGFLDLKNGVASFPLVTAMEKFPEARQMFENRDWSGLM 255
Query: 332 EF 333
F
Sbjct: 256 SF 257
>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 = 171 bits (435), Expect = 1e-50
Identities = 73/313 (23%), Positives = 133/313 (42%), Gaps = 35/313 (11%)
Query: 61 PAPSPTFDFKSYMIQKASTVNQALDAAVSLKDPVKIHESMRYSLLAG--GKRVRPVLCLA 118
D S + + S ++ L V + P + + Y G GK+ R + L
Sbjct: 2 SLVEEELDPFSLVADELSLLSNKLREMVLAEVPK-LASAAEYFFKRGVQGKQFRSTILLL 60
Query: 119 ACDLVGGHESMAMPA-----------------ACSIEMIHTMSLIHDDLPCMDNDPLRRG 161
+ A+ A EMIH SL+HDD+ +D+ RRG
Sbjct: 61 MATALDVRVPEALIGESTDIVTSELRVRQRGIAEITEMIHVASLLHDDV--LDDADTRRG 118
Query: 162 KPTNHTIYGEDVAVLAGDALLAYAFEHIAVCTKGVSPARIVRAIAELAKYIGADGLV--- 218
+ + + G ++VLAGD LL+ A +A + +V +A +++ G
Sbjct: 119 VGSLNVVMGNKMSVLAGDFLLSRACGALA----ALKNTEVVALLATAVEHL-VTGETMEI 173
Query: 219 AGQAEKDLGIEH-LEFIHEHKTAALLEAAVVLGAILGGGTDNEVEKLRTFARCIGLLFQV 277
E+ +++ ++ + +KTA+L+ + A+L G T + R +GL FQ+
Sbjct: 174 TSSTEQRYSMDYYMQKTY-YKTASLISNSCKAVAVLTGQTAEVAVLAFEYGRNLGLAFQL 232
Query: 278 VDDILDLTKSSKELGKTAGKDLVADKLTYPKLLGIEESKKLADKLNKDAQQQLSEFDQEK 337
+DDILD T +S LGK + D+ +T P L +EE +L + +++ + + +
Sbjct: 233 IDDILDFTGTSASLGKGSLSDIRHGVITAPILFAMEEFPQLREVVDQVEK---DPRNVDI 289
Query: 338 AVPLIALANYIAY 350
A+ + + I
Sbjct: 290 ALEYLGKSKGIQR 302
>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 = 168 bits (428), Expect = 2e-49
Identities = 43/268 (16%), Positives = 82/268 (30%), Gaps = 37/268 (13%)
Query: 80 VNQALDAAVSLKDPVKIHESMRYSLLAGGKRVRPVLCLAACDLVGGHES----------- 128
++Q + + M + GGK R + + +
Sbjct: 19 LDQLQSKYEIDPNRARYLRIMMDTTCLGGKYFRGMTVVNVAEGFLAVTQHDEATKERILH 78
Query: 129 MAMPAACSIEMIHTMSLIHDDLPCMDNDPLRRGKPTNHTIYGEDVAVLAGDALLAYAFEH 188
A IE + L+ DD+ MD +RRGKP + G D ++ ++
Sbjct: 79 DACVGGWMIEFLQAHYLVEDDI--MDGSVMRRGKPCWYRFPGVTTQCAINDGIILKSWTQ 136
Query: 189 IAVCTKGVSPARIVRAIAELAK---------YIGADGLVAGQA------------EKDLG 227
I + + K + +
Sbjct: 137 IMAWHYFADRPFLKDLLCLFQKVDYATAVGQMYDVTSMCDSNKLDPEVAQPMTTDFAEFT 196
Query: 228 IEHLEFIHEHKTAALL-EAAVVLGAILGGGTDNE-VEKLRTFARCIGLLFQVVDDILDLT 285
+ I ++KT +V+G + + + + A IG FQV DD++D
Sbjct: 197 PAIYKRIVKYKTTFYTYLLPLVMGLFVSEAAASVEMNLVERVAHLIGEYFQVQDDVMDCF 256
Query: 286 KSSKELGKTAGKDLVADKLTYPKLLGIE 313
++LGK G D+ K ++ + +
Sbjct: 257 TPPEQLGK-VGTDIEDAKCSWLAVTFLG 283
>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 (422), Expect = 1e-48
Identities = 49/281 (17%), Positives = 96/281 (34%), Gaps = 30/281 (10%)
Query: 68 DFKSYMIQKASTVNQALDAAVS----LKDPVKIHESMRYSLLAGGKRVRPVLCLAACDLV 123
DF +Y + V L K ++ + + + GK +R + + L
Sbjct: 27 DFINYYDKFKVIVYNVLKKLPLNDEIRKPVIEYYLNCIDYNVKKGKHIRGKILVLISSLS 86
Query: 124 GGHESM----AMPAACSIEMIHTMSLIHDDLPCMDNDPLRRGKPTNHTIYGEDVAVLAGD 179
+ ++ +E I + LI DD+ MD+ RRG P + ++G+ A+
Sbjct: 87 SAYSNIKRDSIYLLGWVVEAIQALILIADDI--MDSGKFRRGAPCWYIVHGQSNAINDIF 144
Query: 180 ALLAYAFEHIAVCTKGVSPARIVRAIAELAKYI-------GADGLVAGQAEKDLGIEHLE 232
L + I + +++ + I D ++ D E
Sbjct: 145 FLKMLSLSLIFELSSVFGNDIVMKIQKIYNESIFFTVLGQHLDLSYFDLSKADKISERYF 204
Query: 233 FIHEHKTAALL-EAAVVLGAILGG--GTDNEVEKLRTFARCIGLLFQVVDDILDLTKSSK 289
+ E KT+ V G L + ++ + +G +QV +D+ D
Sbjct: 205 SMVEMKTSRYTFYMPVFFGLTLSEIQVSSAQLNLIEAILYKLGEFYQVHNDVSDYLF--- 261
Query: 290 ELGKTAGKDLVADKLTYPKLLGI-----EESKKLADKLNKD 325
+ D+ KLT+P E K+++ K+
Sbjct: 262 --NDSNADDICRFKLTWPLQKSFEIADEEMKLKISENYGKN 300
>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 (418), Expect = 5e-48
Identities = 60/341 (17%), Positives = 111/341 (32%), Gaps = 60/341 (17%)
Query: 68 DFKSYMIQKASTVNQALDAAVSLKDPVK-IHESMRYSLLAGGKRVRPVLCLAACDLVGGH 126
+F + Q + + + D V + E ++Y GGK R + +AA + G
Sbjct: 30 EFVGFFPQIVRDLTEDGIGHPEVGDAVARLKEVLQY-NAPGGKCNRGLTVVAAYRELSGP 88
Query: 127 ESM-------AMPAACSIEMIHTMSLIHDDLPCMDNDPLRRGKPTNHTIYGEDVAVLAGD 179
A+ IE+ SL+ DD+ MD RRG+ + G + +
Sbjct: 89 GQKDAESLRCALAVGWCIELFQAASLVADDI--MDQSLTRRGQLCWYKKEGVGLDAINDS 146
Query: 180 ALLAYAFEHIA--VCTKGVSPARIVRAIAELAKYIGA----DGLVAGQAEKDLG---IEH 230
LL + + C + ++ + A D + A ++ DL E
Sbjct: 147 FLLESSVYRVLKKYCRQRPYYVHLLELFLQTAYQTELGQMLDLITAPVSKVDLSHFSEER 206
Query: 231 LEFIHEHKTAAL--LEAAVVLGAILGGGTDNEVEKLRTFARCIGLLFQVVDDILDLTKSS 288
+ I ++KTA ++G + E E + +G FQ+ DD LD
Sbjct: 207 YKAIVKYKTAFYSFYLPVAAAMYMVGIDSKEEHENAKAILLEMGEYFQIQDDYLDCFGDP 266
Query: 289 KELGKTAGKDLVADKLTYP-----------------KLLG-------------------I 312
G G D+ +K ++ G
Sbjct: 267 ALTGA-VGTDIQDNKCSWLVVQCLQRVTPEQRQLLEDNYGRKEPEKVAKVKELYEAVGMR 325
Query: 313 EESKKLADKLNKDAQQQLSEF-DQEKAVPLIALANYIAYRQ 352
++ + + Q+ + + ++ + LA I RQ
Sbjct: 326 AAFQQYEESSYRRLQELIEKHSNRLPKEIFLGLAQKIYKRQ 366
>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 = 162 bits (412), Expect = 6e-47
Identities = 61/300 (20%), Positives = 104/300 (34%), Gaps = 46/300 (15%)
Query: 69 FKSYMIQKASTVNQALDAAVSLKDPVKIHESMRYSLLAGGKRVRPVLCLAACDLVGGHES 128
+ Y S +N+ + K ++ + GGK R +L + + V +
Sbjct: 40 YDKYRDAFLSHLNEYSLEEEIKEHISKYYKLLFDYNCLGGKNNRGILVILIYEYVKNRDI 99
Query: 129 ------MAMPAACSIEMIHTMSLIHDDLPCMDNDPLRRGKPTNHTIYGEDVAVLAGDALL 182
A A IE++ L+ DD+ MD +RR K + + + D LL
Sbjct: 100 NSSEWEKAACLAWCIEILQAAFLVADDI--MDKGEMRRNKYCWYLLKDVETKNAVNDVLL 157
Query: 183 AYAFEHIAVCTKGVSPARIVRAIAELAKYI--------------------------GADG 216
Y + + + + V IA +
Sbjct: 158 LYNSIYKLIEIYLRNESCYVDVIATFRDATLKTIIGQHLDTNIFSDKYSDAHREIDVNNI 217
Query: 217 LVAGQAEKDLG---IEHLEFIHEHKTAALL-EAAVVLGAILGGGTDNE--VEKLRTFARC 270
V Q D+ + I HKTA +V G +L G + +K+ +
Sbjct: 218 NVPEQPVIDINMINFGVYKNIVIHKTAYYSFFLPIVCGMLLAGIAVDNLIYKKIEDISML 277
Query: 271 IGLLFQVVDDILDLTKSSKELGKTAGKDLVADKLTYP-----KLLGIEESKKLADKLNKD 325
+G FQ+ DD LD+ S + GK G D+ +KLT+P +L + K+ K+
Sbjct: 278 MGEYFQIHDDYLDIFGDSTKTGKV-GSDIQNNKLTWPLIKTFELCSEPDKIKIVKNYGKN 336
>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 = 161 bits (408), Expect = 3e-46
Identities = 49/263 (18%), Positives = 85/263 (32%), Gaps = 43/263 (16%)
Query: 91 KDPVKIHESMRYSLLAGGKRVRPVLCLAACDLVGGHESM-----------------AMPA 133
+ V+ M + GGK R + + + + A
Sbjct: 52 PNRVRYLRKMMDTTCLGGKYNRGLTVIDVAESLLSLSPNNNGEEDDGARRKRVLHDACVC 111
Query: 134 ACSIEMIHTMSLIHDDLPCMDNDPLRRGKPTNHTIYGEDVAVLAGDALLAYAFEHIAVCT 193
IE + L+ DD+ MDN RRGKP + V D LL ++ H+
Sbjct: 112 GWMIEFLQAHYLVEDDI--MDNSVTRRGKPCWYRHPDVTVQCAINDGLLLKSWTHMMAMH 169
Query: 194 KGVSPARIVRAIAELAKYI------------------GADGLVAGQAEKDLG---IEHLE 232
+ + + D V+ D + + +
Sbjct: 170 FFADRPFLQDLLCRFNRVDYTTAVGQLYDVTSMFDSNKLDPDVSQPTTTDFAEFTLSNYK 229
Query: 233 FIHEHKTAAL-LEAAVVLGAILGGGTDNE-VEKLRTFARCIGLLFQVVDDILDLTKSSKE 290
I ++KTA +V+G I+ + A +G FQV DD++D +
Sbjct: 230 RIVKYKTAYYTYLLPLVMGLIVSEALPTVDMGVTEELAMLMGEYFQVQDDVMDCFTPPER 289
Query: 291 LGKTAGKDLVADKLTYPKLLGIE 313
LGK G D+ K ++ + +
Sbjct: 290 LGK-VGTDIQDAKCSWLAVTFLA 311
>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 = 149 bits (378), Expect = 4e-42
Identities = 49/259 (18%), Positives = 91/259 (35%), Gaps = 23/259 (8%)
Query: 68 DFKSYMIQKASTVNQALDAAVSLKDPVK-IHESMRYSLLAGGKRVRPVLCLAACDLVGGH 126
DF + Q + + + D + + E + Y GGK R + + A +
Sbjct: 37 DFVQHFSQIVRVLTEDEMGHPEIGDAIARLKEVLEY-NAIGGKYNRGLTVVVAFRELVEP 95
Query: 127 ESM-------AMPAACSIEMIHTMSLIHDDLPCMDNDPLRRGKPTNHTIYGEDV-AVLAG 178
A +E++ L+ DD+ MD+ RRG+ + G + A+
Sbjct: 96 RKQDADSLQRAWTVGWCVELLQAFFLVADDI--MDSSLTRRGQICWYQKPGVGLDAINDA 153
Query: 179 DALLAYAFEHIAVCTKGVS-PARIVRAIAELAKYIGA----DGLVAGQAEKDLGIEHLE- 232
+ L A + + + + ++ + + D L A Q DL +
Sbjct: 154 NLLEACIYRLLKLYCREQPYYLNLIELFLQSSYQTEIGQTLDLLTAPQGNVDLVRFTEKR 213
Query: 233 --FIHEHKTAALL-EAAVVLGAILGGGTDN-EVEKLRTFARCIGLLFQVVDDILDLTKSS 288
I ++K+A + + G E + +G FQ+ DD LDL
Sbjct: 214 YKSIVKYKSAFYSFYLPIAAAMYMAGIDGEKEHANAKKILLEMGEFFQIQDDYLDLFGDP 273
Query: 289 KELGKTAGKDLVADKLTYP 307
GK G D+ +K ++
Sbjct: 274 SVTGK-IGTDIQDNKCSWL 291
>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 = 56.6 bits (136), Expect = 6e-09
Identities = 59/303 (19%), Positives = 97/303 (32%), Gaps = 94/303 (31%)
Query: 87 AVSLKDPVKI-HESMRYSLLAGGKRVRPVLCLAACDLVGGHES--MAMPAACSIEMIHTM 143
A S + P+ + H S+ + LL V A L E +P T
Sbjct: 3 AYSTR-PLTLSHGSLEHVLL-----VPTASFFIASQL---QEQFNKILPEP-------TE 46
Query: 144 SLIHDDLPCMDNDPL-----------RRGKPTNHTIYGEDVAVLAGDALLAYAFE----- 187
DD P P +P+ + + VL L FE
Sbjct: 47 GFAADDEP---TTPAELVGKFLGYVSSLVEPSKVGQFDQ---VLN--LCLTE-FENCYLE 97
Query: 188 ----H-IAVCTKGVSPARIVRAIAELAKYIGADGLVAGQAEKDLGIEHLEFIHEHKTAAL 242
H +A + +V+ + YI A + + +AL
Sbjct: 98 GNDIHALAAKLLQENDTTLVKTKELIKNYITARIMAK------------RPFDKKSNSAL 145
Query: 243 LEAA----VVLGAILGG-GTDNE-VEKLR----TFARCIGLLFQVVDDIL-DLTKSSKEL 291
A L AI GG G ++ E+LR T+ +G L + + L +L +++ +
Sbjct: 146 FRAVGEGNAQLVAIFGGQGNTDDYFEELRDLYQTYHVLVGDLIKFSAETLSELIRTTLDA 205
Query: 292 GK--TAGKDLVADKLTYPKLLGIEESKKLADKLNKDAQQQLSEFDQEKAVPLIAL---AN 346
K T G +++ L P + D L +S PLI + A+
Sbjct: 206 EKVFTQGLNILE-WLENP------SNTPDKDYL---LSIPIS-------CPLIGVIQLAH 248
Query: 347 YIA 349
Y+
Sbjct: 249 YVV 251
Score = 44.7 bits (105), Expect = 4e-05
Identities = 48/289 (16%), Positives = 75/289 (25%), Gaps = 122/289 (42%)
Query: 40 LASQR--PRRPVSISAVQTLEENPAPSPTFDFKSYM----------IQKA-STVNQALDA 86
+ P + S ++ EN P S M +Q + N L A
Sbjct: 308 VRCYEAYPNTSLPPSILEDSLENNEGVP-----SPMLSISNLTQEQVQDYVNKTNSHLPA 362
Query: 87 ----AVSLKD---------PVKIHESMRYSLLAGGKRVRPVLCLAACD----------LV 123
+SL + P + SL +R + D L
Sbjct: 363 GKQVEISLVNGAKNLVVSGPPQ-------SLYGLNLTLRKAKAPSGLDQSRIPFSERKLK 415
Query: 124 GG----------HESMAMPAACSIEMIHTMSLIHDDLPCMD----NDPLRRGKPTNHTIY 169
H + +PA+ LI+ DL + ++ P T
Sbjct: 416 FSNRFLPVASPFHSHLLVPAS---------DLINKDLVKNNVSFNAKDIQ--IPVYDTFD 464
Query: 170 GEDVAVLAGDALLAYAFEHIAVCTKGVSPARIVRAIAEL-----------AKYI---GAD 215
G D+ VL+G RIV I L A +I G
Sbjct: 465 GSDLRVLSGSIS-----------------ERIVDCIIRLPVKWETTTQFKATHILDFGPG 507
Query: 216 GLVAGQAEKDLGIEHLEFIHEHKTAALLEAA---VVLGAILGGGTDNEV 261
G G+ L T + V++ L D++
Sbjct: 508 GA--------SGLGVL-------THRNKDGTGVRVIVAGTLDINPDDDY 541
Score = 42.7 bits (100), Expect = 2e-04
Identities = 49/313 (15%), Positives = 89/313 (28%), Gaps = 109/313 (34%)
Query: 50 SISAVQTLEENPAPSPTFDFKSYMIQKASTVNQALDAAVSLKDPVKIHE---SMRYSLLA 106
SI + + NP + T F ++ I E +M + +
Sbjct: 1660 SILDI--VINNP-VNLTIHFGGEKGKR-------------------IRENYSAMIFETIV 1697
Query: 107 GG----KRVRPVLCLAACDLVGGHESMAM-------PAACSIEMIHTMSL-IHDDLPCMD 154
G +++ + + E + PA + M +DL
Sbjct: 1698 DGKLKTEKIFKEINEHSTSYTFRSEKGLLSATQFTQPA------LTLMEKAAFEDL---- 1747
Query: 155 NDPLRRG-KPTNHTIYGEDVAVLAG------DALLAYA----FEHIA--VCTKGVSPARI 201
+G P + A AG AL + A E + V +G++
Sbjct: 1748 ---KSKGLIPAD--------ATFAGHSLGEYAALASLADVMSIESLVEVVFYRGMTMQVA 1796
Query: 202 VRAIAELAKYIGADGLVAGQAEKDLGIEHLEFIHE---HKTAALLEAAVVLGAILGGGTD 258
V G + G+ E L+++ E +T L+E
Sbjct: 1797 VPRDELGRSNYGMIAINPGRVAASFSQEALQYVVERVGKRTGWLVEIV----------NY 1846
Query: 259 NEVEKLRTFARCIGLLFQVVDDILDLTKSSKELGKTAGKDLVADKLTYPKLLGIEESKKL 318
N Q V ++ G D V + L + KL I + +L
Sbjct: 1847 N----------VENQ--QYV--------AA---GDLRALDTVTNVLNFIKLQKI-DIIEL 1882
Query: 319 ADKLN-KDAQQQL 330
L+ ++ + L
Sbjct: 1883 QKSLSLEEVEGHL 1895
Score = 41.2 bits (96), Expect = 5e-04
Identities = 50/308 (16%), Positives = 96/308 (31%), Gaps = 73/308 (23%)
Query: 32 TLKTLPVSLASQRPRRPVSISAVQTLEENPAPSPTFDFKSY------MIQKASTVNQALD 85
TL L + ++ ++ LE NP+ +P D+ +I + +
Sbjct: 194 TLSELIRTTLDAEKVFTQGLNILEWLE-NPSNTPDKDYLLSIPISCPLIGVIQLAHYVVT 252
Query: 86 AAVSLKDPVKIHESMRYSLLAGGKRVRPVLCLAACDLVGGHESMAMPAACSIEMIHTMSL 145
A + P ++ ++ + + + +A D ES + I +
Sbjct: 253 AKLLGFTPGELRSYLK-GATGHSQGLVTAVAIAETD---SWESF---FVSVRKAITVLFF 305
Query: 146 I----HDDLPCMDNDPLRRGKPTNHTIYGEDV-----AVLAGDALLAYAFEHIAVCTKGV 196
I ++ P P + E V ++ + +++ +
Sbjct: 306 IGVRCYEAYPNTSLPPSILEDSLEN---NEGVPSPMLSIS--NLTQEQVQDYVNKTNSHL 360
Query: 197 SPARIVRAIAELAKYIGADGLV-AGQAEKDLGIEHLEFIHEHKTAALLEAAVVLGAILGG 255
+ V E++ GA LV +G + L L + K A
Sbjct: 361 PAGKQV----EISLVNGAKNLVVSGPPQ-SL--YGLN-LTLRKAKA------------PS 400
Query: 256 GTD-NEV----EKLRTFARC--IG------LLFQVVDDIL-DLTK-----SSKELG---- 292
G D + + KL+ R + LL D I DL K ++K++
Sbjct: 401 GLDQSRIPFSERKLKFSNRFLPVASPFHSHLLVPASDLINKDLVKNNVSFNAKDIQIPVY 460
Query: 293 KTA-GKDL 299
T G DL
Sbjct: 461 DTFDGSDL 468
Score = 40.8 bits (95), Expect = 7e-04
Identities = 67/433 (15%), Positives = 114/433 (26%), Gaps = 165/433 (38%)
Query: 17 NQASSRRSNKTQPFRTLK------TLPVSLASQRPRRPVSI-SAVQTLEEN-----PAPS 64
+ S+R P TL L V P + L+E P P+
Sbjct: 2 DAYSTR------PL-TLSHGSLEHVLLV---------PTASFFIASQLQEQFNKILPEPT 45
Query: 65 PTFD--------------FKSYMI-----QKASTVNQALDAAVS------L--KDPVKIH 97
F F Y+ K +Q L+ ++ L D IH
Sbjct: 46 EGFAADDEPTTPAELVGKFLGYVSSLVEPSKVGQFDQVLNLCLTEFENCYLEGND---IH 102
Query: 98 ESMRYSLLAG-----GKRVRPVLC-LAACDLVG-----GHESMAMPAA-------CSI-- 137
++ LL K + + A + S A +I
Sbjct: 103 -ALAAKLLQENDTTLVKTKELIKNYITARIMAKRPFDKKSNSALFRAVGEGNAQLVAIFG 161
Query: 138 ----------EM--IHTM--SLIHDDLPCMDN--DPLRRGKPTNHTIYGEDVAVLA---- 177
E+ ++ L+ D + L R ++ + + +L
Sbjct: 162 GQGNTDDYFEELRDLYQTYHVLVGDLIKFSAETLSELIRTTLDAEKVFTQGLNILEWLEN 221
Query: 178 -----GDALLAYAFEHIAVCTKGVS-PARIVRAIAELAKYIGADGLVAGQAEKDLGIEHL 231
L +S P I + +LA Y+ V K LG
Sbjct: 222 PSNTPDKDYLLSIP---------ISCPL-I--GVIQLAHYV-----VTA---KLLGFTPG 261
Query: 232 EFIHEHKTAALLEAAVVLGAILGGGTDNEVEKLRTFARCIGLLF-------QVVDDI--- 281
E K A +V + E + + I +LF + +
Sbjct: 262 ELRSYLKGATGHSQGLVTAVAIAETDSWE-SFFVSVRKAITVLFFIGVRCYEAYPNTSLP 320
Query: 282 LDLTKSSKELGKTAGKDLVADKLTYPK-LLGI-----EESKKLADKLNK--DAQQQLSEF 333
+ + S E + P +L I E+ + +K N A +Q+
Sbjct: 321 PSILEDSLENNEGV-----------PSPMLSISNLTQEQVQDYVNKTNSHLPAGKQVE-- 367
Query: 334 DQEKAVPLIALAN 346
I+L N
Sbjct: 368 --------ISLVN 372
Score = 36.2 bits (83), Expect = 0.016
Identities = 45/298 (15%), Positives = 78/298 (26%), Gaps = 147/298 (49%)
Query: 25 NKTQPFRTLKTLPVSLASQRPRRPVSISAVQTLEENPAPSPTFDFKSYMIQKASTVNQAL 84
+ TQ F T P + +A + L+ +I
Sbjct: 1727 SATQ-F----TQPALTL-------MEKAAFEDLKSK-----------GLIPA-------- 1755
Query: 85 DAAV---SLKDPVKIHESMRYSLLAGGKRVRPVLCLAACDLVGGHESMAMPAACSIEMIH 141
DA SL E Y+ LA LA + M SIE
Sbjct: 1756 DATFAGHSLG------E---YAALA---------SLA--------DVM------SIES-- 1781
Query: 142 TMSLIHDDLPCMDNDPLRRGKPTNHTIYGEDVAVLAGDALLAYAFEHIAVCTKGVSPARI 201
+ ++ RG T D + ++A ++P R+
Sbjct: 1782 LVEVVF-----------YRGM-TMQVAVPRDELGRSNYGMIA------------INPGRV 1817
Query: 202 VRAIAELAKYIGADGLVAGQAEKDLGIEHLEFIHE---HKTAALLEAA--------VVLG 250
+ ++ E L+++ E +T L+E V
Sbjct: 1818 AASFSQ---------------------EALQYVVERVGKRTGWLVEIVNYNVENQQYVA- 1855
Query: 251 AILGGGTDNEVEKLRTFARCIGLLFQVVDDILDLTKSSK----ELGKTAGKDLVADKL 304
G ++ + ++L+ K K EL K+ + V L
Sbjct: 1856 ----AGDLRALDTV--------------TNVLNFIKLQKIDIIELQKSLSLEEVEGHL 1895
>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 = 42.1 bits (98), Expect = 2e-04
Identities = 43/264 (16%), Positives = 75/264 (28%), Gaps = 80/264 (30%)
Query: 132 PAACSIEMIHTMSLIHDDLPCMDNDPLRRGKP--------------TNHTIYGEDVA--- 174
P+ + I +++D + R +P N I G V
Sbjct: 105 PSMMTRMYIEQRDRLYNDNQVFAKYNVSRLQPYLKLRQALLELRPAKNVLIDG--VLGSG 162
Query: 175 --VLAGDALLAYAFE----------HIAVCTKGVSPARIVRAIAELAKYI------GADG 216
+A D L+Y + ++ C SP ++ + +L I +D
Sbjct: 163 KTWVALDVCLSYKVQCKMDFKIFWLNLKNCN---SPETVLEMLQKLLYQIDPNWTSRSDH 219
Query: 217 LVAGQAEKDLGIEHLE--FIHEHKTAALLEAAVVLGAILGGGTDN--EVEKLRTFA-RCI 271
+ L + LL +L N + F C
Sbjct: 220 SSNIKLRIHSIQAELRRLLKSKPYENCLL--------VL----LNVQNAKAWNAFNLSCK 267
Query: 272 GLL----FQVVDDILDLTKSSKELGKTAGKDLVADKLTYPKLLGIEESKKLADKLNKDAQ 327
LL QV D + T + L D + LT ++ + L L+
Sbjct: 268 ILLTTRFKQVTDFLSAATTTHISL------DHHSMTLTPDEVKSL-----LLKYLDCRP- 315
Query: 328 QQLSEFDQEKAV-PL-IALANYIA 349
Q L + P +++ IA
Sbjct: 316 QDLPR--EVLTTNPRRLSI---IA 334
Score = 34.1 bits (77), Expect = 0.073
Identities = 17/90 (18%), Positives = 32/90 (35%), Gaps = 20/90 (22%)
Query: 278 VDDILDLTK---SSKELGKTAGKDLV----ADKLTYPKLLGIEESKK-------LADKLN 323
D+ D+ K S +E+ ++ A T +L SK+ + + L
Sbjct: 35 CKDVQDMPKSILSKEEI-----DHIIMSKDAVSGTL-RLFWTLLSKQEEMVQKFVEEVLR 88
Query: 324 KDAQQQLSEFDQEKAVPLIALANYIAYRQN 353
+ + +S E+ P + YI R
Sbjct: 89 INYKFLMSPIKTEQRQPSMMTRMYIEQRDR 118
>1x0c_A Isopullulanase; glycoside hydrolase family 49, glycoprotein, hydro;
HET: NAG; 1.70A {Aspergillus niger} PDB: 1wmr_A* 2z8g_A*
Length = 549
Score = 30.2 bits (67), Expect = 1.0
Identities = 5/44 (11%), Positives = 9/44 (20%)
Query: 153 MDNDPLRRGKPTNHTIYGEDVAVLAGDALLAYAFEHIAVCTKGV 196
+ +Y A + G + GV
Sbjct: 211 FTGHDHMVLSSSVTWVYFAPGAYVKGAVEFLSTASEVKASGHGV 254
>3lvg_D LCB, clathrin light chain B; SELF assembly, coated PIT, cytoplasmic
vesicle, membrane, Ca structural protein; 7.94A {Bos
taurus}
Length = 190
Score = 28.6 bits (63), Expect = 2.7
Identities = 5/21 (23%), Positives = 11/21 (52%)
Query: 313 EESKKLADKLNKDAQQQLSEF 333
SK + + + A++ L E+
Sbjct: 103 AASKVMEQEWREKAKKDLEEW 123
>3ie7_A LIN2199 protein; phosphofructokinases, transferase, glycero ION,
PSI-II, NYSGXRC, kinase, structural genomics, structure
initiative; HET: ATP; 1.60A {Listeria innocua} PDB:
3hic_A* 3jul_A* 3q1y_A
Length = 320
Score = 28.3 bits (64), Expect = 3.3
Identities = 8/34 (23%), Positives = 17/34 (50%), Gaps = 3/34 (8%)
Query: 79 TVNQALDAAVSLKDPVKIHESMR---YSLLAGGK 109
T+N A+D + ++ ++ ++ R GGK
Sbjct: 8 TLNPAIDRLLFIRGELEKRKTNRVIKTEFDCGGK 41
>1nx8_A CARC, carbapenem synthase; jelly roll, unknown function; HET: AKG
N7P; 2.30A {Pectobacterium carotovorum} SCOP: b.82.2.8
PDB: 1nx4_A*
Length = 273
Score = 28.5 bits (64), Expect = 3.4
Identities = 6/64 (9%), Positives = 13/64 (20%), Gaps = 9/64 (14%)
Query: 126 HESMAMPAACSIEMIHTMSLIHDDLPCMDNDPLRRGKPTNHTIYGEDVAVLAGDALLAYA 185
+P + + M + P G+P + A
Sbjct: 171 DGWFKVPVFTDLGWVRKMLIYF---------PFDEGQPASWEPRIVGFTDHETQAFFQEL 221
Query: 186 FEHI 189
+
Sbjct: 222 GAFL 225
>4ew8_A Sensor protein DIVL; signal transduction, two-component regulatory
system, hiska GHKL domain, structural genomics; 2.50A
{Caulobacter crescentus}
Length = 268
Score = 27.5 bits (62), Expect = 6.7
Identities = 11/47 (23%), Positives = 19/47 (40%), Gaps = 9/47 (19%)
Query: 249 LGAILG-----GGTDNEVEKLRTFARCI----GLLFQVVDDILDLTK 286
L I+G D E+ R + L + +DD+LD+ +
Sbjct: 55 LTTIIGYSELLERADGISERGRNHVAAVRAAATQLARSIDDVLDMAQ 101
>3cjm_A Putative beta-lactamase; NP_815223.1, structural genomics, J center
for structural genomics, JCSG, protein structure INI
PSI-2, hydrolase; HET: MSE; 1.50A {Enterococcus
faecalis}
Length = 282
Score = 27.5 bits (61), Expect = 7.1
Identities = 10/41 (24%), Positives = 17/41 (41%), Gaps = 5/41 (12%)
Query: 172 DVAVLAGDALLAYAFEHIAVCTKGVSPARIVRAIAELAKYI 212
D+ +L A +A+ TKG A+ IA + +
Sbjct: 236 DMGILETPHPFA-----LAIFTKGPDNAKSAAFIASVTDKL 271
>3s0a_A OBP14; all helical protein, unknown odorant molecules, antennae, TR
protein; 1.15A {Apis mellifera} PDB: 3rzs_A 3s0b_A*
3s0d_A* 3s0e_A* 3s0f_A 3s0g_A
Length = 119
Score = 26.2 bits (57), Expect = 8.3
Identities = 12/77 (15%), Positives = 28/77 (36%), Gaps = 5/77 (6%)
Query: 229 EHLEFIHEHKTAALLEAAV---VLGAILGGGTDNEVEKLRTFARCIGLLFQVVDD--ILD 283
E +H ++ E + ++ G D E +K++ + CI F ++D +
Sbjct: 5 ELKTRLHTEQSVCKTETGIDQQKANDVIEGNIDVEDKKVQLYCECILKNFNILDKNNVFK 64
Query: 284 LTKSSKELGKTAGKDLV 300
+ ++ V
Sbjct: 65 PQGIKAVMELLIDENSV 81
>2f48_A Diphosphate--fructose-6-phosphate 1-phosphotransf; phosphotransfer,
transferase; HET: FBP; 2.11A {Borrelia burgdorferi}
SCOP: c.89.1.1 PDB: 1kzh_A*
Length = 555
Score = 27.1 bits (60), Expect = 9.2
Identities = 13/61 (21%), Positives = 24/61 (39%), Gaps = 4/61 (6%)
Query: 274 LFQVVDDILDLTKSSKELGKTAGKDLVADKLTYPKLLGIEESKKLADKLNKDAQQQLSEF 333
L +++D+++ + G G +V + L I E K L +L + EF
Sbjct: 284 LSEIIDEMVSVILKRSLNGDNFGVVIVPEGLIE----FIPEVKSLMLELCDIFDKNEGEF 339
Query: 334 D 334
Sbjct: 340 K 340
>2vhh_A CG3027-PA; hydrolase; 2.8A {Drosophila melanogaster} PDB: 2vhi_A
Length = 405
Score = 27.1 bits (60), Expect = 9.8
Identities = 11/50 (22%), Positives = 17/50 (34%), Gaps = 1/50 (2%)
Query: 35 TLPVSLASQRPRRPVSISAVQTLEENPAPSPTFDFKSYMIQKAST-VNQA 83
R RR V + A+Q P +P + + K T + A
Sbjct: 59 RFTAREEQTRKRRIVRVGAIQNSIVIPTTAPIEKQREAIWNKVKTMIKAA 108
Database: pdb70
Posted date: Sep 4, 2012 3:40 AM
Number of letters in database: 6,701,793
Number of sequences in database: 27,921
Lambda K H
0.318 0.133 0.378
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: 5,278,913
Number of extensions: 328988
Number of successful extensions: 1182
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1000
Number of HSP's successfully gapped: 72
Length of query: 353
Length of database: 6,701,793
Length adjustment: 95
Effective length of query: 258
Effective length of database: 4,049,298
Effective search space: 1044718884
Effective search space used: 1044718884
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: 58 (26.2 bits)