RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= 042175
(170 letters)
>1rtr_A Geranyltranstransferase; 2.50A {Staphylococcus aureus} SCOP:
a.128.1.1
Length = 301
Score = 189 bits (483), Expect = 6e-61
Identities = 42/170 (24%), Positives = 80/170 (47%), Gaps = 4/170 (2%)
Query: 2 KTKNVSPDRLLRAIVEMSSAIGSEGLAAGQIMDISSEGKDVSLSELNFIHRHKSEKFVEA 61
++ + ++ + +S A G G+ GQ++D+ SEG+ + L L IH+ K+ +
Sbjct: 125 SDDRLTDEVKIKVLQRLSIASGHVGMVGGQMLDMQSEGQPIDLETLEMIHKTKTGALLTF 184
Query: 62 SIVSGVIIGGGNEEEIERMRNYGKCVGMAYQLWNDIVDVIGSPET--KETTGRDMLRGKA 119
+++S I ++ E + +Y +GM +Q+ +D++D G K G D+ K+
Sbjct: 185 AVMSAADIANVDDTTKEHLESYSYHLGMMFQIKDDLLDCYGDEAKLGK-KVGSDLENNKS 243
Query: 120 TYPKLVGIDESKNYAKELLAKAKQELAYFD-PAKAAPLDHLVNFMVSFDN 168
TY L+G D +++ A EL D L +V+ S D+
Sbjct: 244 TYVSLLGKDGAEDKLTYHRDAAVDELTQIDEQFNTKHLLEIVDLFYSRDH 293
>2h8o_A Geranyltranstransferase; geranyltransferase,agrobacterium
tumefaciens, structural GEN PSI-2, protein structure
initiative; 1.60A {Agrobacterium tumefaciens}
Length = 335
Score = 190 bits (484), Expect = 9e-61
Identities = 46/166 (27%), Positives = 86/166 (51%), Gaps = 4/166 (2%)
Query: 2 KTKNVSPDRLLRAIVEMSSAIGSEGLAAGQIMDISSEGKDVSLSELNFIHRHKSEKFVEA 61
++ +R ++ ++ A G G+A GQ +D+++E K + + K+ +
Sbjct: 169 DDNPLAAERKAALVISLARAAGIGGMAGGQALDLAAEKKAPDEDGIITLQAMKTGALLRF 228
Query: 62 SIVSGVIIGGGNEEEIERMRNYGKCVGMAYQLWNDIVDVIGSPET--KETTGRDMLRGKA 119
+ +G II G N+ E +R+R +G+ +G+++QL +D++D+ T K TG+D RGK
Sbjct: 229 ACEAGAIIAGSNQAERQRLRLFGEKIGLSFQLADDLLDLTADAATMGK-ATGKDAARGKG 287
Query: 120 TYPKLVGIDESKNYAKELLAKAKQELAYFDPAKAAPLDHLVNFMVS 165
T L G ++ +E +A+A + LA + KAA L F+
Sbjct: 288 TLVALRGEAWAREKLQEQVAEASELLAPYGE-KAAILIAAARFIAE 332
>3ts7_A Geranyltranstransferase; isoprenoid synthesis, farnesyl diphosphate
synthase; 1.94A {Methylococcus capsulatus}
Length = 324
Score = 188 bits (480), Expect = 4e-60
Identities = 51/170 (30%), Positives = 88/170 (51%), Gaps = 5/170 (2%)
Query: 2 KTKNVSPDRLLRAIVEMSSAIGSEGLAAGQIMDISSEGKDVSLSELNFIHRHKSEKFVEA 61
+ V + + I ++ A G G+ GQ +D++S GK + L L +H K+ + A
Sbjct: 135 PSIAVPAENRIAMIETLAKASGPAGMVGGQAIDLASVGKKLDLPGLENMHIRKTGALIRA 194
Query: 62 SIVSGVIIGGG-NEEEIERMRNYGKCVGMAYQLWNDIVDVIGSPET--KETTGRDMLRGK 118
S+ + G E+ +R+ +Y KC+G+A+Q+ +DI+D +T K T G+D K
Sbjct: 195 SVRLACLARPGLPAEQFDRLDHYAKCIGLAFQIQDDILDEESDTQTLGK-TRGKDRDHNK 253
Query: 119 ATYPKLVGIDESKNYAKELLAKAKQELAYFDPAKAAPLDHLVNFMVSFDN 168
YP L+G+ +K A+E+ A + LA F P +A L L F++ +
Sbjct: 254 PNYPALLGLSGAKEKAEEMHEAALESLAGFGP-EADLLRELARFIIQRQS 302
>4f62_A Geranyltranstransferase; enzyme function initiative, structural
genomics; 2.10A {Marinomonas SP}
Length = 317
Score = 187 bits (478), Expect = 6e-60
Identities = 55/167 (32%), Positives = 97/167 (58%), Gaps = 5/167 (2%)
Query: 5 NVSPDRLLRAIVEMSSAIGSEGLAAGQIMDISSEGKDVSLSELNFIHRHKSEKFVEASIV 64
+ P+ ++ I E+ A G G+ GQ++D+SSE K++SL+EL +H HK+ ++AS+
Sbjct: 131 SAQPELAIKLIQELVVASGRNGMITGQMIDLSSENKNISLAELEQMHVHKTGALIKASVR 190
Query: 65 SGVIIGGG-NEEEIERMRNYGKCVGMAYQLWNDIVDVIGSPET--KETTGRDMLRGKATY 121
G + G E++ ++ Y +G+A+Q+ +DI+D+ ET K T D KATY
Sbjct: 191 MGALSTGQVKPEQLAKLDAYAHAIGLAFQVQDDIIDLTSDTETLGK-TQFSDAEANKATY 249
Query: 122 PKLVGIDESKNYAKELLAKAKQELAYFDPAKAAPLDHLVNFMVSFDN 168
PKL+G+D +K L +A +++ F K+ PL L N+++ ++
Sbjct: 250 PKLLGLDGAKALVVRLHEQAIAQISEFGD-KSQPLTDLANYIIDRNH 295
>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 = 187 bits (477), Expect = 6e-60
Identities = 55/166 (33%), Positives = 90/166 (54%), Gaps = 5/166 (3%)
Query: 3 TKNVSPDRLLRAIVEMSSAIGSEGLAAGQIMDISSEGKDVSLSELNFIHRHKSEKFVEAS 62
+ S + LR + ++ A G G+ GQ +D+ S G + L ++HRHK+ +EAS
Sbjct: 130 LSDASAEIRLRMVTTLAQAAGPAGMVGGQAIDLGSVGLKLDQQALEYMHRHKTGALIEAS 189
Query: 63 IVSGVIIGGG-NEEEIERMRNYGKCVGMAYQLWNDIVDVIGSPET--KETTGRDMLRGKA 119
++ G + G + E++ ++ Y + +G+A+Q+ +DI+DV T K G D+ R K
Sbjct: 190 VILGALASGRAEKGELKALQTYAQAIGLAFQVQDDILDVESDTATLGK-RQGADIARDKP 248
Query: 120 TYPKLVGIDESKNYAKELLAKAKQELAYFDPAKAAPLDHLVNFMVS 165
TYP L+G+ +K YA EL +A L FD A PL L ++V
Sbjct: 249 TYPALLGLAAAKEYALELRDQALHALRPFDA-AAEPLRELARYIVE 293
>3pde_A Farnesyl-diphosphate synthase; isoprenyl diphosphate synthase,
structural genomics, PSI, PR structure initiative; HET:
IPE; 1.75A {Lactobacillus brevis} PDB: 3m9u_A*
Length = 309
Score = 182 bits (465), Expect = 4e-58
Identities = 39/168 (23%), Positives = 75/168 (44%), Gaps = 5/168 (2%)
Query: 5 NVSPDRLLRAIVEMSSAIGSEGLAAGQIMDISSEGKDVSLSELNFIHRHKSEKFVEASIV 64
++ + +++A G G+ AGQ DI SE ++ LS+L +H+ K+ + ++
Sbjct: 135 DLPATMQAALVQALATAAGPSGMVAGQAKDIQSEHVNLPLSQLRVLHKEKTGALLHYAVQ 194
Query: 65 SGVIIGGGNEEEIERMRNYGKCVGMAYQLWNDIVDVIGSPET--KETTGRDMLRGKATYP 122
+G+I+G E + + G+A+Q+++DI+DV+ SP K T +D K TYP
Sbjct: 195 AGLILGQAPEAQWPAYLQFADAFGLAFQIYDDILDVVSSPAEMGK-ATQKDADEAKNTYP 253
Query: 123 KLVGIDESKNYAKELLAKAKQELAYFDP--AKAAPLDHLVNFMVSFDN 168
+G+ + + + + L + F N
Sbjct: 254 GKLGLIGANQALIDTIHSGQAALQGLPTSTQRDDLAAFFSYFDTERVN 301
>3uca_A Geranyltranstransferase; isoprenoid synthesis, isoprenoid
diphosphate synthase; 2.00A {Clostridium perfringens}
Length = 324
Score = 182 bits (465), Expect = 5e-58
Identities = 46/167 (27%), Positives = 90/167 (53%), Gaps = 5/167 (2%)
Query: 2 KTKNVSPDRLLRAIVEMSSAIGSEGLAAGQIMDISSEGK-DVSLSELNFIHRHKSEKFVE 60
L+A ++ A GS+G+ GQI+DI +E K ++SL EL+++H K+ + ++
Sbjct: 157 DYSLEEGKSALKATKIIADAAGSDGMIGGQIVDIINEDKEEISLKELDYMHLKKTGELIK 216
Query: 61 ASIVSGVIIGGGNEEEIERMRNYGKCVGMAYQLWNDIVDVIGSPET--KETTGRDMLRGK 118
ASI+SG ++ +E +I+++ +G +G+A+Q+ +DI+DV+G+ + K +D K
Sbjct: 217 ASIMSGAVLAEASEGDIKKLEGFGYKLGLAFQIKDDILDVVGNAKDLGK-NVHKDQESNK 275
Query: 119 ATYPKLVGIDESKNYAKELLAKAKQELAYFDPAKAAPLDHLVNFMVS 165
Y + G++E K + + + L+ PL L ++
Sbjct: 276 NNYITIFGLEECKKKCVNITEECIEILSSIKG-NTEPLKVLTMKLLE 321
>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 = 181 bits (461), Expect = 1e-57
Identities = 52/169 (30%), Positives = 91/169 (53%), Gaps = 6/169 (3%)
Query: 2 KTKNVSPDRLLRAIVEMSSAIGSEGLAAGQIMDISSEGKDVSLSELNFIHRHKSEKFVEA 61
VS + I E++SA G G+ GQ +D+ +EGK V L L IHRHK+ + A
Sbjct: 129 DMPEVSDRDRISMISELASASGIAGMCGGQALDLDAEGKHVPLDALERIHRHKTGALIRA 188
Query: 62 SIVSGVIIGGG-NEEEIERMRNYGKCVGMAYQLWNDIVDVIGSPET--KETTGRDMLRGK 118
++ G + G + + Y + +G+A+Q+ +DI+DV+G T K G D GK
Sbjct: 189 AVRLGALSAGDKGRRALPVLDKYAESIGLAFQVQDDILDVVGDTATLGK-RQGADQQLGK 247
Query: 119 ATYPKLVGIDESKNYAKELLAKAKQELAYFDPA--KAAPLDHLVNFMVS 165
+TYP L+G+++++ A++L+ A+Q L + L+ L ++++
Sbjct: 248 STYPALLGLEQARKKARDLIDDARQSLKQLAEQSLDTSALEALADYIIQ 296
>3p8l_A Geranyltranstransferase; isoprenyl synthase, structural genomics,
PSI, protein struct initiative, nysgrc; 2.00A
{Enterococcus faecalis}
Length = 302
Score = 180 bits (459), Expect = 2e-57
Identities = 41/167 (24%), Positives = 79/167 (47%), Gaps = 4/167 (2%)
Query: 5 NVSPDRLLRAIVEMSSAIGSEGLAAGQIMDISSEGKDVSLSELNFIHRHKSEKFVEASIV 64
+ + + +++ A G++G+ +GQ+ DI E ++L EL +H K+ +E +++
Sbjct: 136 QLGLSEKVLLMQQLAKAAGNQGMVSGQMGDIEGEKVSLTLEELAAVHEKKTGALIEFALI 195
Query: 65 SGVIIGGGNEEEIERMRNYGKCVGMAYQLWNDIVDVIGSPET--KETTGRDMLRGKATYP 122
+G ++ EE I + + G+A+Q+ +D++D + K GRD K+TYP
Sbjct: 196 AGGVLANQTEEVIGLLTQFAHHYGLAFQIRDDLLDATSTEADLGK-KVGRDEALNKSTYP 254
Query: 123 KLVGIDESKNYAKELLAKAKQELAYFDP-AKAAPLDHLVNFMVSFDN 168
L+GI +K+ LA+ L +HL N +
Sbjct: 255 ALLGIAGAKDALTHQLAEGSAVLEKIKANVPNFSEEHLANLLTQLQL 301
>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 = 180 bits (458), Expect = 3e-57
Identities = 75/169 (44%), Positives = 112/169 (66%), Gaps = 16/169 (9%)
Query: 3 TKNVSPDRLLRAIVEMSSAIGSEGLAAGQIMDISSEGK---DVSLSELNFIHRHKSEKFV 59
+ VSP R++RA+ E++ AIG+EGL AGQ++DISSEG +V L L FIH HK+ +
Sbjct: 138 SSEVSPARVVRAVGELAKAIGTEGLVAGQVVDISSEGLDLNNVGLEHLKFIHLHKTAALL 197
Query: 60 EASIVSGVIIGGGNEEEIERMRNYGKCVGMAYQLWNDIVDVIGSPETKETTGRDMLRGKA 119
EAS V G IIGGG++EEIER+R + +C+G+ +Q+ +DI+DV S K
Sbjct: 198 EASAVLGGIIGGGSDEEIERLRKFARCIGLLFQVVDDILDVTKS-------------SKL 244
Query: 120 TYPKLVGIDESKNYAKELLAKAKQELAYFDPAKAAPLDHLVNFMVSFDN 168
TYPKL+G+++S+ +A++L +A+ +L FD K APL L N++ + N
Sbjct: 245 TYPKLMGLEKSREFAEKLNTEARDQLLGFDSDKVAPLLALANYIANRQN 293
>3p8r_A Geranyltranstransferase; isoprenyl synthase, structural genomics,
PSI, protein struct initiative, nysgrc; 2.50A {Vibrio
cholerae}
Length = 302
Score = 178 bits (454), Expect = 1e-56
Identities = 46/170 (27%), Positives = 84/170 (49%), Gaps = 5/170 (2%)
Query: 2 KTKNVSPDRLLRAIVEMSSAIGSEGLAAGQIMDISSEGKDVSLSELNFIHRHKSEKFVEA 61
+ + + ++ A G++G+ GQ +D+++E + +SL EL IHR+K+ +
Sbjct: 135 DLSAAGETQRVAMLQALAEASGAQGMCLGQALDLAAENRLISLEELETIHRNKTGALMRC 194
Query: 62 SIVSGVIIGGG-NEEEIERMRNYGKCVGMAYQLWNDIVDVIGSPET--KETTGRDMLRGK 118
+I G + G + + Y + VG+A+Q+ +DI+D+I ET K G D K
Sbjct: 195 AIRLGALAAGEKGRAMLPHLDRYAEAVGLAFQVQDDILDIISDTETLGK-PQGSDQELNK 253
Query: 119 ATYPKLVGIDESKNYAKELLAKAKQELAYFDPAKAAPLDHLVNFMVSFDN 168
+TYP L+G++ ++ A LL +A L L+ ++V N
Sbjct: 254 STYPALLGLEGAQQKAHTLLQEALLALEAIPY-NTEHLEEFARYVVERKN 302
>3lom_A Geranyltranstransferase; geranyltransferase, structural genomics,
PSI, protein structure initiative, nysgrc; 2.30A
{Legionella pneumophila subsp}
Length = 313
Score = 178 bits (454), Expect = 2e-56
Identities = 38/172 (22%), Positives = 72/172 (41%), Gaps = 6/172 (3%)
Query: 3 TKNVSPDRLLRAIVEMSSAIGSEGLAAGQIMDISSEGK-DVSLSELNFIHRHKSEKFVEA 61
+ + +++ + +A G G+ +GQ +D+S K V+ +L IH K+ K + A
Sbjct: 136 SPLLPAAQVVAITQVLVNASGISGMVSGQSLDLSELAKSSVTEEQLREIHLLKTGKLILA 195
Query: 62 SIVSGVIIGGG-NEEEIERMRNYGKCVGMAYQLWNDIVDVIGSPET--KETTGRDMLRGK 118
+ +E+ +R YGK +G+ +Q+ +D +D+ + K D K
Sbjct: 196 CFEMVLAAQHEVSEQIKSALRTYGKHIGLVFQMQDDYLDLYAPTQILGK-GRSSDQANQK 254
Query: 119 ATYPKLVGIDESKNYAKELLAKAKQELAYFDPAKAAPLDHLVNFMVSFDNVN 170
T+ L + + A L F KAA L L + + N++
Sbjct: 255 TTFATLFNKQQLEEEIAVHYQIAMDSLRLFGS-KAAALIELTKQLQNRSNLS 305
>3npk_A Geranyltranstransferase; isoprene biosynthesis, SGX, structural
genomics protein structure initiative; 1.50A
{Campylobacter jejuni}
Length = 291
Score = 177 bits (451), Expect = 3e-56
Identities = 43/170 (25%), Positives = 86/170 (50%), Gaps = 5/170 (2%)
Query: 1 MKTKNVSPDRLLRAIVEMSSAIGSEGLAAGQIMDISSEGKDVSLSELNFIHRHKSEKFVE 60
+ ++ + ++ I ++ G G+ GQ +D E K +SL+EL F+H HK+ + +
Sbjct: 121 LSHAHLKDEIKIKLIKTLAFNAGLNGMVIGQAIDCFFEDKRLSLNELEFLHTHKTARLIA 180
Query: 61 ASIVSGVIIGGGNEEEIERMRNYGKCVGMAYQLWNDIVDVIGSPET--KETTGRDMLRGK 118
A++ G I N EE ++ G +G+ +Q+ +DI+DV S E K T D K
Sbjct: 181 AALKMGCEICELNNEESNQIYKLGLKLGLIFQINDDIIDVTTSQEQSGK-PTNND--IHK 237
Query: 119 ATYPKLVGIDESKNYAKELLAKAKQELAYFDPAKAAPLDHLVNFMVSFDN 168
++ L+G++++ + LL + +Q+L + A + +L+ + +
Sbjct: 238 NSFVNLLGLEQAIKTKENLLNECEQDLEKLNEKLAQMIQNLIIQYLEGHH 287
>3llw_A Geranyltranstransferase (ISPA); structural genomics, PSI, protein
structure initiative, nysgrc; 2.30A {Helicobacter
pylori} PDB: 3q1o_A*
Length = 311
Score = 174 bits (444), Expect = 5e-55
Identities = 44/168 (26%), Positives = 88/168 (52%), Gaps = 7/168 (4%)
Query: 1 MKTKNVSPDRLLRAIVEMSSAIGSEGLAAGQIMDISSEGKDVSLSELNFIHRHKSEKFVE 60
+ + ++ I +S+ G +G+ GQ +D E ++L +L F+H HK+ K +
Sbjct: 135 LSNALLESHIIVELIKILSANGGIKGMILGQALDCYFENTPLNLEQLTFLHEHKTAKLIS 194
Query: 61 ASIVSGVIIGGGNEEEIER-MRNYGKCVGMAYQLWNDIVDVIGSPET--KETTGRDMLRG 117
AS++ G++ G +EE+ + ++ +G +G+ +Q+ +DI+DV E K TT D
Sbjct: 195 ASLIMGLVASGIKDEELFKWLQAFGLKMGLCFQVLDDIIDVTQDEEESGK-TTHLD--SA 251
Query: 118 KATYPKLVGIDESKNYAKELLAKAKQELAYFDPAKAAPLDHLVNFMVS 165
K ++ L+G++ + NYA+ L + +L P L +N +++
Sbjct: 252 KNSFVNLLGLERANNYAQTLKTEVLNDLDALKP-AYPLLQENLNALLN 298
>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 = 173 bits (440), Expect = 2e-54
Identities = 43/164 (26%), Positives = 86/164 (52%), Gaps = 9/164 (5%)
Query: 6 VSPDRLLRAIVEMSSAIGSEGLAAGQIMDISSEGK--DVSLSELNFIHRHKSEKFVEASI 63
S + + + ++ A G+EG+ GQ +DI++E ++L E+ + K+ + +
Sbjct: 128 GSAENRVALVAALAQASGAEGMVYGQALDIAAETAAVPLTLDEIIRLQAGKTGALISFAA 187
Query: 64 VSGVIIGGGNEEEIERMRNYGKCVGMAYQLWNDIVDVIGSPET--KETTGRDMLRGKATY 121
+G I+ G + + Y +G+A+Q+ +DI+DV G+ E K G+D KAT+
Sbjct: 188 QAGAILAGADRG---PLTAYATALGLAFQIADDILDVEGNEEAAGK-RLGKDAEAHKATF 243
Query: 122 PKLVGIDESKNYAKELLAKAKQELAYFDPAKAAPLDHLVNFMVS 165
L+G+ +K+ A +L+A+A+ LA + A+ L +++
Sbjct: 244 VSLLGLAGAKSRAADLVAEAEAALAPYGE-AASTLRACARYVIE 286
>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 = 144 bits (365), Expect = 1e-43
Identities = 34/149 (22%), Positives = 62/149 (41%), Gaps = 15/149 (10%)
Query: 1 MKTKNVSPDRLLRAIVEMSSAIGSEGLAAGQIMDISSEGKDVSLSELNFIHRHKSEKFVE 60
+ PDR+LR I+E+S A G EG+ +G + + SL + ++ + K +
Sbjct: 125 DPARTDDPDRILRVIIEISRAGGPEGMISGLHREEEIVDGNTSLDFIEYVCKKKYGEMHA 184
Query: 61 ASIVSGVIIGGGNEEEIERMRNYGKCVGM---------AYQLWNDIVDVIGSPETKETTG 111
G I+GG EEEI+++RN+G G ++QL ++ + E G
Sbjct: 185 CGAACGAILGGAAEEEIQKLRNFGLYQGTLRGMMEMKNSHQLIDENIIGKLKELALEELG 244
Query: 112 ------RDMLRGKATYPKLVGIDESKNYA 134
+++ P L ++
Sbjct: 245 GFHGKNAELMSSLVAEPSLYAAHHHHHHH 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 = 122 bits (308), Expect = 5e-35
Identities = 33/146 (22%), Positives = 63/146 (43%), Gaps = 3/146 (2%)
Query: 1 MKTKNVSPDRLLRAIVEMSSAIGSEGLAAGQIMDISSEGKDVSLSELNFIHRHKSEKFVE 60
M +PDR+LRAI+E++ +GSEG+ GQ ++ + L + ++ + K
Sbjct: 127 MDPTRNNPDRILRAIIELTRVMGSEGIVEGQYHELGLNQLN-DLELIEYVCKKKEGTLHA 185
Query: 61 ASIVSGVIIGGGNEEEIERMRNYGKCVGMAYQLWNDIVD-VIGSPET-KETTGRDMLRGK 118
G I+GG +E++IE++R +G VG L G + KE +++
Sbjct: 186 CGAACGAILGGCDEDKIEKLRRFGLYVGTVQGLLGKNRSGFEGRIKELKELAVKELESFG 245
Query: 119 ATYPKLVGIDESKNYAKELLAKAKQE 144
+L+ ++ +
Sbjct: 246 GEKIELIRGVFELEHSLAGVEGHHHH 271
>3nf2_A Putative polyprenyl synthetase; isoprenyl diphosphate synthase,
structural genomics, PSI, PR structure initiative,
nysgrc; 2.20A {Streptomyces coelicolor}
Length = 352
Score = 110 bits (277), Expect = 7e-30
Identities = 35/156 (22%), Positives = 68/156 (43%), Gaps = 6/156 (3%)
Query: 5 NVSPDRLLRAIVEMSSAIGSEGLAAGQIMDISSEGK-DVSLSELNFIHRHKSEKFVEASI 63
+ RA ++ A S L GQ DIS E + VS+ E + +K+ + +
Sbjct: 135 ELGTVEAGRATRRLTKA--SRSLIDGQAQDISYEHRDRVSVEECLEMEGNKTGALLACAS 192
Query: 64 VSGVIIGGGNEEEIERMRNYGKCVGMAYQLWNDIVDVIGSPET--KETTGRDMLRGKATY 121
G ++GG +E + + YG +G+A+Q +D++ + G P+ K T D+ + K +
Sbjct: 193 SIGAVLGGADERTADTLEKYGYHLGLAFQAVDDLLGIWGDPDATGK-QTWSDLRQRKKSL 251
Query: 122 PKLVGIDESKNYAKELLAKAKQELAYFDPAKAAPLD 157
P + + ++ L + D A + +
Sbjct: 252 PVVAALAAGGAASERLGEILTADAKASDFANFSEEE 287
>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 = 107 bits (268), Expect = 4e-29
Identities = 27/157 (17%), Positives = 59/157 (37%), Gaps = 9/157 (5%)
Query: 13 RAIVEMSSAIGSEGLAAGQIMDISSEGK--DVSLSELNFIHRHKSEKFVEASIVSGVIIG 70
+ + + + L G+ MD+ E + +VS + ++ + + I+
Sbjct: 132 NSXIFEEFSETAYXLLLGEAMDVEFERRXMEVSQEMVERMYAFXTGALFAFCFSAPFILX 191
Query: 71 GGNEEEIERMRNYGKCVGMAYQLWNDIVDVIGSPET-KETTGRDMLRGKATYPKLVGIDE 129
G + + G+ G+A+Q+++D+ D++GS E + G+D T VGI
Sbjct: 192 GXDHTXMXL---LGEXFGVAFQIYDDLXDILGSFEKVGKDLGKD--TEXVTLVXXVGIQX 246
Query: 130 SKNYAKELLAKAKQELAYFD-PAKAAPLDHLVNFMVS 165
++ A + + L L +
Sbjct: 247 AREMADXYYEEVLXGIESEGLFRTLFLLXELXQMVEE 283
>1wy0_A Geranylgeranyl pyrophosphate synthetase; pyrococcus horikosh
structural genomics, riken structural
genomics/proteomics initiative, RSGI; 2.20A {Pyrococcus
horikoshii}
Length = 342
Score = 96.6 bits (241), Expect = 1e-24
Identities = 42/160 (26%), Positives = 74/160 (46%), Gaps = 6/160 (3%)
Query: 1 MKTKNVSPDRLLRAIVEMSSAIGSEGLAAGQIMDISSEGK-DVSLSELNFIHRHKSEKFV 59
+ + P++ R + + A S L GQ D+ E K V++ E + K+
Sbjct: 125 VARAEIPPEKKARVLEVIVKA--SNELCEGQARDLEFEKKSTVTIEEYMEMISGKTGALF 182
Query: 60 EASIVSGVIIGGGNEEEIERMRNYGKCVGMAYQLWNDIVDVIGSPET--KETTGRDMLRG 117
EAS G IIG NEE I+ + ++G+ VG+A+Q+W+D++D+I + K G D+ +G
Sbjct: 183 EASAKVGGIIGTDNEEYIKALSSWGRNVGIAFQIWDDVLDLIADEKKLGK-PVGSDIRKG 241
Query: 118 KATYPKLVGIDESKNYAKELLAKAKQELAYFDPAKAAPLD 157
K T + + K+ K + A + +
Sbjct: 242 KKTLIVAHFFENADEKDKQRFLKIFGKYAGDVKGRGIIEE 281
>4fp4_A Polyprenyl synthetase; isoprenoid synthesis, isoprenoid diphosphate
synthase, trans; HET: GER UNL; 2.00A {Pyrobaculum
calidifontis}
Length = 285
Score = 94.4 bits (235), Expect = 3e-24
Identities = 28/149 (18%), Positives = 54/149 (36%), Gaps = 17/149 (11%)
Query: 12 LRAIVEMSSAIGSEGLAAGQIMDISSEGKDVSLSELNFIHRHKSEKFVEASIVSGVIIGG 71
+ ++ ++ L+ GQ +D+ E K+ +EA++V ++I G
Sbjct: 132 ADVVTYLADV--AQRLSVGQALDLEGERDKA--------AEFKTAPLIEAALVMPLVILG 181
Query: 72 GNEEEIERMRNYGKCVGMAYQLWNDIVDVIGSPETKETTGRDMLRGKATYPKLV----GI 127
E IE + G +G+ YQ +D D ++ ++ G+ I
Sbjct: 182 -RRELIETAKKLGTKLGILYQYSDDYSDENVERPETKSIANEI--GRYLLKIKEHVGDAI 238
Query: 128 DESKNYAKELLAKAKQELAYFDPAKAAPL 156
+ K L+ KA + A L
Sbjct: 239 APFERLIKYLIGKALEGTLTVSRTIAENL 267
>3lk5_A Geranylgeranyl pyrophosphate synthase; structural genomics, protein
structure initiative, geranylge pyrophosphate synthase;
1.90A {Corynebacterium glutamicum} PDB: 3qqv_A*
Length = 380
Score = 92.1 bits (229), Expect = 7e-23
Identities = 38/210 (18%), Positives = 70/210 (33%), Gaps = 47/210 (22%)
Query: 1 MKTKNVSPDRLLRAIVEMSSAIGSEGLAAGQIMDISSEGK-DVSLSELNFIHRHKSEK-F 58
++ +S + L R + GQ++DI E + S+ + ++R K+
Sbjct: 163 LQDSGLSAEALARTRDAWRGMR--TEVIGGQLLDIYLESHANESVELADSVNRFKTAAYT 220
Query: 59 VEASIVSGVIIGGGNEEEIERMRNYGKCVGMAYQLWNDIVDVIGSPE-TKETTGRDMLRG 117
+ + G I GG+ + I+ + +YG +G+A+QL +D++ V G P T + G D+ G
Sbjct: 221 IARPLHLGASIAGGSPQLIDALLHYGHDIGIAFQLRDDLLGVFGDPAITGKPAGDDIREG 280
Query: 118 KATYPKLV----------------------------------------GIDESKNYAKEL 137
K T + +E + +L
Sbjct: 281 KRTVLLALALQRADKQSPEAATAIRAGVGKVTSPEDIAVITEHIRATGAEEEVEQRISQL 340
Query: 138 LAKAKQELAY--FDPAKAAPLDHLVNFMVS 165
L A L L
Sbjct: 341 TESGLAHLDDVDIPDEVRAQLRALAIRSTE 370
>3ipi_A Geranyltranstransferase; isoprene biosynthesis, helical bundle,
protein structure initiative II (PSI II), structural
genomics, nysgxrc; 1.90A {Methanosarcina mazei}
Length = 295
Score = 89.2 bits (222), Expect = 3e-22
Identities = 35/168 (20%), Positives = 73/168 (43%), Gaps = 23/168 (13%)
Query: 9 DRLLRAIVEMSSAIGSEGLAAGQIMDISSEGKDVSLSE-LNFIHRHKSEKFVEASIVSGV 67
+++++ + + A G+++D+ E + ++ I++ K+ S G
Sbjct: 126 EKVIQDFGKAGMDM-----AEGEVLDLKLEDESFGENDYFKCIYK-KTASLFAISASIGA 179
Query: 68 IIGGGNEEEIERMRNYGKCVGMAYQLWNDIVDVIGSPETKETTGRDMLRGKATYPKLV-- 125
GG EE ER ++G +G AYQ+ +DI++ + E G++ T P +
Sbjct: 180 YTGGAEEELAERFSHFGNALGTAYQIVDDILEFLEVVE-----GKESKFTSETLPHIYMK 234
Query: 126 ------GIDESKNYAKELLAKAKQELAYFD--PAKAAPLDHLVNFMVS 165
+ +S + K +A AK+ L F PA+ L + +++
Sbjct: 235 STSKEEALKKSIDCVKLHVAAAKETLETFRECPARDK-LFQITDYITV 281
>4dhd_A Polyprenyl synthetase; isoprenoid synthesis, isoprenoid diphosphate
synthase, trans; 1.65A {Pyrobaculum calidifontis}
Length = 358
Score = 85.5 bits (212), Expect = 2e-20
Identities = 38/213 (17%), Positives = 73/213 (34%), Gaps = 62/213 (29%)
Query: 7 SPDRLLRAIVEMSSAIGSEGLAAGQIMDISSEGK-------------DVSLSELNFIHRH 53
P + + E+ AI G+ +DI E +V+L + +
Sbjct: 129 KPTLFAKEVAEVIKAI-----DEGERLDILFEAAGRSDPYFVQARWREVTLDDYIKMVSL 183
Query: 54 KSEKFVEASIVSGVIIGGGNEEEIERMRNYGKCVGMAYQLWNDIVDVIGSPET--KETTG 111
K+ + A+ GV+ + E N+G G+A+Q+ +D++D+ G P+ K G
Sbjct: 184 KTGALIAAAAKWGVLSVSDDRGLAEAAWNFGMAAGVAFQIIDDVLDIYGDPKKFGK-EIG 242
Query: 112 RDMLRGKATYPKLV---------------------------------------GIDESKN 132
+D+ K + +E+
Sbjct: 243 KDIKEHKRGNAVVAVALSHLGEGERRRLLEILAREVVEEADVREAVALLDSVGAREEALR 302
Query: 133 YAKELLAKAKQELAYFDPAKAAPLDHLVNFMVS 165
A +A++ LA P L L++F+V+
Sbjct: 303 LAARYREEAERHLAKI-PNNGT-LKELLDFIVA 333
>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 = 77.3 bits (191), Expect = 1e-17
Identities = 36/196 (18%), Positives = 67/196 (34%), Gaps = 48/196 (24%)
Query: 12 LRAIVEMSSAIGSEGLAAGQIMDISSEGKDVSLSE---LNFIHRHKSEKFVEASIVSGVI 68
I A+ + G++ + ++ LN I K+ + S G
Sbjct: 142 RSLIQNHIDAMHR--ILQGELHQMDLNY-REDITLDAYLNEIAG-KTAELFALSCYQGAQ 197
Query: 69 IGGGNEEEIERMRNYGKCVGMAYQLWNDIVDVIGSPET--KETTGRDMLRGKATYP---- 122
+ G + I+R R+ G +G AYQ+ +DI+D G P+ K D+ G + P
Sbjct: 198 LAGAPQSVIDRTRDIGIAIGCAYQMLDDILDYAGDPKRTQK-PVLEDLRSGVYSLPLLLS 256
Query: 123 ---------------------------KLV----GIDESKNYAKELLAKAKQELAYFD-- 149
LV G+ +K A++ +A +
Sbjct: 257 LSHAPRDFHKLLKKKQAMTLEDIKHVQALVAQYDGVGAAKQLAQDYTDRALTLIQQLPVG 316
Query: 150 PAKAAPLDHLVNFMVS 165
A+ + L+ L ++
Sbjct: 317 SAQQS-LEQLTRLLLR 331
>1wmw_A Geranylgeranyl diphosphate synthetase; GGPP, prenyl diphosphate
synthase, structural genom riken structural
genomics/proteomics initiative; 1.55A {Thermus
thermophilus}
Length = 330
Score = 77.3 bits (191), Expect = 1e-17
Identities = 27/153 (17%), Positives = 52/153 (33%), Gaps = 12/153 (7%)
Query: 1 MKTKNVSPDRLLRAIVEMSSAIGSEGLAAGQIMDISSEGK---DVSLSELNFIHRHKSEK 57
+ ++E A GQ +D+ D+ + + HK+
Sbjct: 118 LAEGLARGLFPPEVLLEFHEV--VRRTAYGQHLDLLWTLGGTFDLRPEDYFRMVAHKAAY 175
Query: 58 -FVEASIVSGVIIGGGNEEEIERMRNYGKCVGMAYQLWNDIVDVIGSPETKETTGRDMLR 116
A + G ++ G G +G A+Q+ +D++++ G + D+
Sbjct: 176 YTAVAPLRLGALLAGKTPPA--AYEEGGLRLGTAFQIVDDVLNLEGGEAYGKERAGDLYE 233
Query: 117 GKATYPKL----VGIDESKNYAKELLAKAKQEL 145
GK T L E + A LLA ++
Sbjct: 234 GKRTLILLRFLEEAPPEERARALALLALPREAK 266
>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 = 75.8 bits (187), Expect = 5e-17
Identities = 39/196 (19%), Positives = 64/196 (32%), Gaps = 49/196 (25%)
Query: 13 RAIVEMSSAIGSEGLAAGQIMDISSEGKDVSLSE--LNFIHRHKSEKFVEASIVSGVIIG 70
+ + L GQ+ + D E N I K+ + ++ G +
Sbjct: 160 DTVAHFAET--FGELVTGQMRETVGPR-DTDPIEHYTNVIRE-KTGVLIASAGYLGAMHA 215
Query: 71 GGNEEEIERMRNYGKCVGMAYQLWNDIVDVIGSPET--KETTGRDMLRGKATYP------ 122
G E I+ ++N+G VGM +Q+ +DI+D+ K T G D+ G T P
Sbjct: 216 GAAPEHIDALKNFGAAVGMIFQIVDDIIDIFSETHESGK-TPGTDLREGVFTLPVLYALR 274
Query: 123 ---------------------------KLV----GIDESKNYAKELLAKAKQELAYF--D 149
+L+ G + + + A EL
Sbjct: 275 EDTPVGAELRDILTGPLEDDETVNHVLELLSQSGGRQAALDEVYRYMDIANAELDRLPDS 334
Query: 150 PAKAAPLDHLVNFMVS 165
K A L +L F V
Sbjct: 335 TVKEA-LRNLATFTVK 349
>3rmg_A Octaprenyl-diphosphate synthase; structural genomics, protein
structure initiative, isoprene biosynthesis,
transferase; 2.30A {Bacteroides thetaiotaomicron}
Length = 334
Score = 74.2 bits (183), Expect = 2e-16
Identities = 42/196 (21%), Positives = 73/196 (37%), Gaps = 46/196 (23%)
Query: 12 LRAIVEMSSAIGSEGLAAGQIMDISSEGKDVSLSELNFIH--RHKSEKFVEASIVSGVII 69
I +SS + LA G+++ +S+ + S SE + R K+ A + +
Sbjct: 132 YEIIRLVSSL--GQKLAEGELLQLSNVS-NHSFSEEVYFDVIRKKTAALFAACAEAAALS 188
Query: 70 GGGNEEEIERMRNYGKCVGMAYQLWNDIVDVIGSPETKETTGRDMLRGKATYP------- 122
EEE+ R G+ +G+ +Q+ +DI D S + + TG DML GK T P
Sbjct: 189 VQVGEEEVAFARLLGEYIGICFQIKDDIFDYFDSKKIGKPTGNDMLEGKLTLPALYALNT 248
Query: 123 ---------------------------KLV----GIDESKNYAKELLAKAKQELAYFD-- 149
+ GI+ + ++ KA LA
Sbjct: 249 TKDAWAEQIAFKVKEGTATPDEIVRLIEFTKDNGGIEYACRTIEQYKKKAFDLLAALPDS 308
Query: 150 PAKAAPLDHLVNFMVS 165
A L ++++V+
Sbjct: 309 NICLA-LRTYLDYVVA 323
>3oyr_A Trans-isoprenyl diphosphate synthase; isoprenyl synthase, PSI,
protein structure initiative; HET: IPE; 2.00A
{Caulobacter crescentus}
Length = 345
Score = 74.2 bits (183), Expect = 2e-16
Identities = 49/199 (24%), Positives = 86/199 (43%), Gaps = 51/199 (25%)
Query: 12 LRAIVEMSSAIGSEGLAAGQIMDISSEGKDVSLSE---LNFIHRHKSEKFVEASIVSGVI 68
++A+ ++ A +A G+++ + D++LS+ L I K+ + A+ +G +
Sbjct: 150 MKALEILARASRV--IAEGEVLQLMRSH-DLNLSQAVYLEIIQA-KTAELFAAASEAGAV 205
Query: 69 IGGGNEEEIERMRNYGKCVGMAYQLWNDIVDVIGSPET--KETTGRDMLRGKATYP---- 122
G + + E +R+YG +G+A+QL +D +D G+ ET K G D GKAT P
Sbjct: 206 SAGVDVAKSEALRDYGLNLGLAFQLADDALDYGGATETLGKN-AGDDFREGKATLPLLLA 264
Query: 123 ------------------------------KLV----GIDESKNYAKELLAKAKQELAYF 148
+L+ +D + + A + KAK LA F
Sbjct: 265 IARSGPREAEFWERAIGRREQTEADFRRARELIIGSGALDATLDLAADYADKAKAALAMF 324
Query: 149 D--PAKAAPLDHLVNFMVS 165
+ A L+ L +F VS
Sbjct: 325 PANDWREA-LEELADFAVS 342
>3aqb_B Component B of hexaprenyl diphosphate synthase; prenyltransferase,
transferase; 2.40A {Micrococcus luteus} PDB: 3aqc_B*
Length = 325
Score = 73.8 bits (182), Expect = 2e-16
Identities = 40/200 (20%), Positives = 72/200 (36%), Gaps = 52/200 (26%)
Query: 12 LRAIVEMSSAIGSEGLAAGQIMDISSEGKDVSLSE---LNFIHRHKSEKFVEASIVSGVI 68
+ S I + G+ ++ + +S L I+R K+ +EAS G +
Sbjct: 129 SKFHQIFSKTILE--VCFGEFDQMADRF-NYPVSFTAYLRRINR-KTAILIEASCHLGAL 184
Query: 69 IGGGNEEEIERMRNYGKCVGMAYQLWNDIVDVIGSPET--KETTGRDMLRGKATYP---- 122
+E+ ++ +G C+GM+YQ+ +DI+D T K G D+ G TYP
Sbjct: 185 SSQLDEQSTYHIKQFGHCIGMSYQIIDDILDYTSDEATLGK-PVGSDIRNGHITYPLMAA 243
Query: 123 -----------------------------------KLVGIDESKNYAKELLAKAKQELAY 147
K GI+ ++ +++ KAK L+
Sbjct: 244 IANLKEQDDDKLEAVVKHLTSTSDDEVYQYIVSQVKQYGIEPAELLSRKYGDKAKYHLSQ 303
Query: 148 FD--PAKAAPLDHLVNFMVS 165
K L+ + M+
Sbjct: 304 LQDSNIKDY-LEEIHEKMLK 322
>3mzv_A Decaprenyl diphosphate synthase; transferase, structural genomics,
PSI-2, protein structure initiative; 1.90A {Rhodobacter
capsulatus}
Length = 341
Score = 73.8 bits (182), Expect = 2e-16
Identities = 42/199 (21%), Positives = 84/199 (42%), Gaps = 51/199 (25%)
Query: 12 LRAIVEMSSAIGSEGLAAGQIMDISSEGKDVSLSE---LNFIHRHKSEKFVEASIVSGVI 68
+R + +++A S +A G+++ +++ +++ +E L I R K+ A+ G I
Sbjct: 138 MRVMEILANA--SAVIAEGEVLQLTAAQ-NLATTEDIYLRVI-RGKTAALFSAATEVGGI 193
Query: 69 IGGGNEEEIERMRNYGKCVGMAYQLWNDIVDVIGSPET--KETTGRDMLRGKATYP---- 122
IGG E++++ + +YG +G+A+Q+ +D++D G K TG D K T P
Sbjct: 194 IGGAPEDQVQALFDYGDALGIAFQIVDDLLDYGGKSAEIGK-NTGDDFRERKLTMPVIKA 252
Query: 123 ------------------------------KLV----GIDESKNYAKELLAKAKQELAYF 148
L+ ++ ++ A A++ LA
Sbjct: 253 VALADEAERAFWKRVIEKGDQQDGDLEHAMALMTKHGTLEATRLAAIGWTDTARKALAKL 312
Query: 149 D--PAKAAPLDHLVNFMVS 165
P + LD L +++V
Sbjct: 313 PDHPLRQM-LDDLADYVVE 330
>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 = 71.6 bits (176), Expect = 1e-15
Identities = 35/200 (17%), Positives = 72/200 (36%), Gaps = 52/200 (26%)
Query: 12 LRAIVEMSSAIGSEGLAAGQIMDISSEGKDVSLSE---LNFIHRHKSEKFVEASIVSGVI 68
+ +++A+ E L G+ M+I+S + S + + K+ + S + +
Sbjct: 152 TEVVALLATAV--EHLVTGETMEITSST-EQRYSMDYYMQKTYY-KTASLISNSCKAVAV 207
Query: 69 IGGGNEEEIERMRNYGKCVGMAYQLWNDIVDVIGSPET--KETTGRDMLRGKATYP---- 122
+ G E YG+ +G+A+QL +DI+D G+ + K + D+ G T P
Sbjct: 208 LTGQTAEVAVLAFEYGRNLGLAFQLIDDILDFTGTSASLGK-GSLSDIRHGVITAPILFA 266
Query: 123 -------------------------KLV----GIDESKNYAKELLAKAKQELAYF----- 148
+ + GI ++ A E A +
Sbjct: 267 MEEFPQLREVVDQVEKDPRNVDIALEYLGKSKGIQRARELAMEHANLAAAAIGSLPETDN 326
Query: 149 ---DPAKAAPLDHLVNFMVS 165
++ A L L + +++
Sbjct: 327 EDVKRSRRA-LIDLTHRVIT 345
>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 = 68.6 bits (168), Expect = 2e-14
Identities = 24/201 (11%), Positives = 57/201 (28%), Gaps = 50/201 (24%)
Query: 10 RLLRAIVEMSSAIGSEGLAAGQIMDISSEGKD------VSLSELNFIHRHKSEK--FVEA 61
LL ++ + GQ++D+ + S I ++K+ F
Sbjct: 169 HLLELFLQTAYQT-----ELGQMLDLITAPVSKVDLSHFSEERYKAIVKYKTAFYSFYLP 223
Query: 62 SIVSGVIIGGGNEEEIERMRNYGKCVGMAYQLWNDIVDVIGSPETKETTGRDMLRGKATY 121
+ ++G ++EE E + +G +Q+ +D +D G P G D+ K ++
Sbjct: 224 VAAAMYMVGIDSKEEHENAKAILLEMGEYFQIQDDYLDCFGDPALTGAVGTDIQDNKCSW 283
Query: 122 P------------------------------------KLVGIDESKNYAKELLAKAKQEL 145
+ + Y + + ++ +
Sbjct: 284 LVVQCLQRVTPEQRQLLEDNYGRKEPEKVAKVKELYEAVGMRAAFQQYEESSYRRLQELI 343
Query: 146 AYF-DPAKAAPLDHLVNFMVS 165
+ L +
Sbjct: 344 EKHSNRLPKEIFLGLAQKIYK 364
>2azj_A Geranylgeranyl pyrophosphate synthetase; hexpps,
trans-prenyltransferase; 2.40A {Sulfolobus solfataricus}
PDB: 2azk_A
Length = 289
Score = 66.6 bits (163), Expect = 7e-14
Identities = 23/149 (15%), Positives = 46/149 (30%), Gaps = 14/149 (9%)
Query: 12 LRAIVEMSSAIGSEGLAAGQIMDISSEGKDVSLSELNFIHRHKSEKFVEASIVSGVIIGG 71
A+ + + G + D+ + K+ + S V
Sbjct: 134 DDALNTSIEL--WKDTSVGALRDMYDN--SDYIR----TIELKTGSLFKLSTVLSAYASK 185
Query: 72 GNEEEIERMRNYGKCVGMAYQLWNDIVDVIGSPETKET-----TGRDMLRGKATYPKLVG 126
+ ++M + GK +G+ YQ+ +D VD + + GK
Sbjct: 186 -HYNTKQQMLDVGKYLGIIYQVIDDFVDYKTKKVEEIDGSAKQLFKYYREGKLEEYVRSV 244
Query: 127 IDESKNYAKELLAKAKQELAYFDPAKAAP 155
E K EL++ + Y ++ P
Sbjct: 245 YLEYKQKYDELISNIPFQSKYLSEIRSLP 273
>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 = 66.8 bits (163), Expect = 9e-14
Identities = 21/150 (14%), Positives = 49/150 (32%), Gaps = 11/150 (7%)
Query: 13 RAIVEMSSAIGSEGLAAGQIMDISSEGK------DVSLSELNFIHRHKSEKF-VEASIVS 65
+ + +D + + + I ++K+ + +V
Sbjct: 160 DYATAVGQMYDVTSMCDSNKLDPEVAQPMTTDFAEFTPAIYKRIVKYKTTFYTYLLPLVM 219
Query: 66 GVIIGGGN-EEEIERMRNYGKCVGMAYQLWNDIVDVIGSPETKETTGRDMLRGKATYPKL 124
G+ + E+ + +G +Q+ +D++D PE G D+ K ++ +
Sbjct: 220 GLFVSEAAASVEMNLVERVAHLIGEYFQVQDDVMDCFTPPEQLGKVGTDIEDAKCSWLAV 279
Query: 125 VGIDESKNYAKELLAKAKQELAYFDPAKAA 154
+ ++ K DPAK A
Sbjct: 280 TFLGKANAAQVAEF---KANYGDKDPAKVA 306
>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 = 66.4 bits (162), Expect = 1e-13
Identities = 27/200 (13%), Positives = 58/200 (29%), Gaps = 50/200 (25%)
Query: 10 RLLRAIVEMSSAIGSEGLAAGQIMDISSEGKD------VSLSELNFIHRHKSEK-FVEAS 62
L+ ++ S GQ +D+ + + + I ++KS
Sbjct: 176 NLIELFLQSSYQT-----EIGQTLDLLTAPQGNVDLVRFTEKRYKSIVKYKSAFYSFYLP 230
Query: 63 IVSGVIIGGGN-EEEIERMRNYGKCVGMAYQLWNDIVDVIGSPETKETTGRDMLRGKATY 121
I + + + G + E+E + +G +Q+ +D +D+ G P G D+ K ++
Sbjct: 231 IAAAMYMAGIDGEKEHANAKKILLEMGEFFQIQDDYLDLFGDPSVTGKIGTDIQDNKCSW 290
Query: 122 P-----------------KLVG-------------------IDESKNYAKELLAKAKQEL 145
+ G Y ++ + +
Sbjct: 291 LVVQCLQRATPEQYQILKENYGQKEAEKVARVKALYEELDLPAVFLQYEEDSYSHIMALI 350
Query: 146 -AYFDPAKAAPLDHLVNFMV 164
Y P A L +
Sbjct: 351 EQYAAPLPPAVFLGLARKIY 370
>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 = 65.0 bits (159), Expect = 2e-13
Identities = 28/173 (16%), Positives = 60/173 (34%), Gaps = 35/173 (20%)
Query: 12 LRAIVEMSSAIGSEGLAAGQIMDISSEGKDVSLSE-LNFIHRHKSEKFVEASIVSGVIIG 70
+ + IG ++ ++++ S K ++ E L + KS ++ ++
Sbjct: 126 NKLRRAFLNVIGK--MSEAELIEQLSRYKPITKEEYLRIVEG-KSGALFGLALQLPALLE 182
Query: 71 GGNEEEIERMRNYGKCVGMAYQLWNDIVDVIGSPETKETTGRDMLRGKATYP-------- 122
G E E + N G +G YQ+++DI+D G + + D+ G A++P
Sbjct: 183 G---ELGEDLYNLGVTIGTIYQMFDDIMDFAGMEKIGKDGFLDLKNGVASFPLVTAMEKF 239
Query: 123 ----------------KLV----GIDESKNYAKELLAKAKQELAYFDPAKAAP 155
+ + E + K L+ E ++
Sbjct: 240 PEARQMFENRDWSGLMSFMREKGILKECEETLKVLVKNVIIENSWLRDFVDGI 292
>3tc1_A Octaprenyl pyrophosphate synthase; all alpha-helices fold,
transferase; 2.00A {Helicobacter pylori}
Length = 315
Score = 64.6 bits (158), Expect = 5e-13
Identities = 36/187 (19%), Positives = 68/187 (36%), Gaps = 48/187 (25%)
Query: 18 MSSAIGSEGLAAGQIMDISSEGK-DVSLSELNFIHRHKSEKFVEASIVSGVIIGGGNEEE 76
+S+A L+ G+I D+ + + I K+ F+EAS+ S I+ ++
Sbjct: 127 LSNA--VLRLSRGEIEDVFVGECFNSDKQKYWRILEDKTAHFIEASLKSMAILLN---KD 181
Query: 77 IERMRNYGKCVGMAYQLWNDIVDVIGSPET--KETTGRDMLRGKATYP------------ 122
+ ++G GMA+Q+ +D++D+ +T K D GK T P
Sbjct: 182 AKIYADFGLNFGMAFQIIDDLLDITQDAKTLGKP-NFSDFKEGKTTLPYLLLYEKLNQHD 240
Query: 123 --------------------KLV----GIDESKNYAKELLAKAKQELAYFDPAKAAPLDH 158
+ I+E+ A+ KA + + L+
Sbjct: 241 QGLLISYFKQDSHEIIEWTKEKFKQYGIIEETLKTAQVYSKKALEAIK--GENNLI-LEK 297
Query: 159 LVNFMVS 165
L ++S
Sbjct: 298 LAQDVIS 304
>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 = 63.4 bits (154), Expect = 1e-12
Identities = 26/173 (15%), Positives = 59/173 (34%), Gaps = 23/173 (13%)
Query: 1 MKTKNVSPDRLLRAIVEMSSAIGSEGLAAGQIMDISSEGK-----------------DVS 43
M + L+ ++ + + A GQ+ D++S + +
Sbjct: 166 MAMHFFADRPFLQDLLCRFNRVDYT-TAVGQLYDVTSMFDSNKLDPDVSQPTTTDFAEFT 224
Query: 44 LSELNFIHRHKSEK-FVEASIVSGVIIGGGN-EEEIERMRNYGKCVGMAYQLWNDIVDVI 101
LS I ++K+ +V G+I+ ++ +G +Q+ +D++D
Sbjct: 225 LSNYKRIVKYKTAYYTYLLPLVMGLIVSEALPTVDMGVTEELAMLMGEYFQVQDDVMDCF 284
Query: 102 GSPETKETTGRDMLRGKATYPKLVGIDESKNYAKELLAKAKQELAYFDPAKAA 154
PE G D+ K ++ + + ++ + D K A
Sbjct: 285 TPPERLGKVGTDIQDAKCSWLAVTFLAKASSAQVAEFKAN---YGSGDSEKVA 334
>2q80_A Geranylgeranyl pyrophosphate synthetase; isoprenoid pathway,
isopentenyl transferase, structural GENO structural
genomics consortium, SGC; HET: GRG; 2.70A {Homo sapiens}
SCOP: a.128.1.1
Length = 301
Score = 61.9 bits (151), Expect = 3e-12
Identities = 26/179 (14%), Positives = 57/179 (31%), Gaps = 45/179 (25%)
Query: 27 LAAGQIMDISSEGKDVSLSELNFIH--RHKSEKFVEASIVSGVIIGGGNEEEIERMRNYG 84
L GQ +DI +E + K+ ++ + E+ ++
Sbjct: 123 LHQGQGLDIYWRDNYTCPTEEEYKAMVLQKTGGLFGLAVGLMQLFSDYKED----LKPLL 178
Query: 85 KCVGMAYQLWNDIVDVIGSPETKE-TTGRDMLRGKATYP--------------------- 122
+G+ +Q+ +D ++ ++ + D+ GK ++P
Sbjct: 179 NTLGLFFQIRDDYANLHSKEYSENKSFCEDLTEGKFSFPTIHAIWSRPESTQVQNILRQR 238
Query: 123 ---------------KLVGIDESKNYAKELLAKAKQELAYFD--PAKAAPLDHLVNFMV 164
+ + ++N KEL AKA +++ P A + HL
Sbjct: 239 TENIDIKKYCVHYLEDVGSFEYTRNTLKELEAKAYKQIDARGGNPELVALVKHLSKMFK 297
>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 = 59.6 bits (144), Expect = 3e-11
Identities = 20/141 (14%), Positives = 44/141 (31%), Gaps = 33/141 (23%)
Query: 10 RLLRAIVEMSSAIGSEGLAAGQIMDISSEGK-------------------------DVSL 44
++ + + GQ +D + ++
Sbjct: 178 DVIATFRDATLKT-----IIGQHLDTNIFSDKYSDAHREIDVNNINVPEQPVIDINMINF 232
Query: 45 SELNFIHRHKSEK-FVEASIVSGVIIGGGN--EEEIERMRNYGKCVGMAYQLWNDIVDVI 101
I HK+ IV G+++ G +++ + +G +Q+ +D +D+
Sbjct: 233 GVYKNIVIHKTAYYSFFLPIVCGMLLAGIAVDNLIYKKIEDISMLMGEYFQIHDDYLDIF 292
Query: 102 GSPETKETTGRDMLRGKATYP 122
G G D+ K T+P
Sbjct: 293 GDSTKTGKVGSDIQNNKLTWP 313
>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 = 58.2 bits (141), Expect = 9e-11
Identities = 16/142 (11%), Positives = 53/142 (37%), Gaps = 6/142 (4%)
Query: 27 LAAGQIMDISSEG--KDVSLSELNFIH--RHKSEKFVEASIVSGVIIGGGNEEEIERMRN 82
L GQ +DI ++ ++ +++ +K+ ++ + + +
Sbjct: 143 LHRGQGLDIYWRDFLPEIIPTQEMYLNMVMNKTGGLFRLTLRLMEALSPSSHHG-HSLVP 201
Query: 83 YGKCVGMAYQLWNDIVDVIGSPETK-ETTGRDMLRGKATYPKLVGIDESKNYAKELLAKA 141
+ +G+ YQ+ +D +++ + + D+ GK ++P + ++ +K +
Sbjct: 202 FINLLGIIYQIRDDYLNLKDFQMSSEKGFAEDITEGKLSFPIVHALNFTKTKGQTEQHNE 261
Query: 142 KQELAYFDPAKAAPLDHLVNFM 163
+ + L+ +
Sbjct: 262 ILRILLLRTSDKDIKLKLIQIL 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 = 53.2 bits (128), Expect = 5e-09
Identities = 20/120 (16%), Positives = 41/120 (34%), Gaps = 10/120 (8%)
Query: 27 LAAGQIMDISSEGK---DVSLSELNFIHRHK-SEKFVEASIVSGVIIGGGN--EEEIERM 80
GQ +D+S D + K S + G+ + ++ +
Sbjct: 180 TVLGQHLDLSYFDLSKADKISERYFSMVEMKTSRYTFYMPVFFGLTLSEIQVSSAQLNLI 239
Query: 81 RNYGKCVGMAYQLWNDIVDVIGSPETKETTGRDMLRGKATYPKLVGIDESKNYAKELLAK 140
+G YQ+ ND+ D + + D+ R K T+P + + K +++
Sbjct: 240 EAILYKLGEFYQVHNDVSDYLFNDS----NADDICRFKLTWPLQKSFEIADEEMKLKISE 295
>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 = 34.3 bits (78), Expect = 0.019
Identities = 18/81 (22%), Positives = 28/81 (34%), Gaps = 22/81 (27%)
Query: 102 GSPET--KETTGRDMLRGK-ATYPKLVG--IDESKNYAKELLAKAKQELAYF-------- 148
G+ + +E LR TY LVG I S EL+ F
Sbjct: 164 GNTDDYFEE------LRDLYQTYHVLVGDLIKFSAETLSELIRTTLDAEKVFTQGLNILE 217
Query: 149 ---DPAKAAPLDHLVNFMVSF 166
+P+ D+L++ +S
Sbjct: 218 WLENPSNTPDKDYLLSIPISC 238
>1qzv_F Plant photosystem I: subunit PSAF; photosynthesis,plant
photosynthetic reaction center, peripheral antenna; HET:
CL1 PQN; 4.44A {Pisum sativum} SCOP: i.5.1.1
Length = 154
Score = 27.2 bits (59), Expect = 1.9
Identities = 6/21 (28%), Positives = 10/21 (47%), Gaps = 1/21 (4%)
Query: 135 KELLAKAKQELAYFDPAKAAP 155
K+ L K + L + +AP
Sbjct: 19 KQALKKLQASLKLYAD-DSAP 38
>1pj5_A N,N-dimethylglycine oxidase; channelling, FAD binding, folate
binding, amine oxidase, oxidoreductase; HET: FAD; 1.61A
{Arthrobacter globiformis} SCOP: b.44.2.1 c.3.1.2
d.16.1.5 d.250.1.1 PDB: 1pj6_A* 1pj7_A* 3gsi_A*
Length = 830
Score = 25.8 bits (57), Expect = 9.8
Identities = 12/38 (31%), Positives = 15/38 (39%), Gaps = 19/38 (50%)
Query: 67 VIIGGGNEEEIERMRNYGKCVG--MAYQL----WNDIV 98
VIIG G VG +A +L WN+I
Sbjct: 8 VIIGAG-------------IVGTNLADELVTRGWNNIT 32
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
0.314 0.132 0.367
Gapped
Lambda K H
0.267 0.0696 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 2,658,165
Number of extensions: 161660
Number of successful extensions: 456
Number of sequences better than 10.0: 1
Number of HSP's gapped: 393
Number of HSP's successfully gapped: 59
Length of query: 170
Length of database: 6,701,793
Length adjustment: 87
Effective length of query: 83
Effective length of database: 4,272,666
Effective search space: 354631278
Effective search space used: 354631278
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.9 bits)
S2: 54 (24.6 bits)