RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= 019903
(334 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 = 364 bits (936), Expect = e-127
Identities = 125/300 (41%), Positives = 182/300 (60%), Gaps = 22/300 (7%)
Query: 36 RSTQFDLKTYWTTLITEIDQNLEKAITVKYPEQIYESMRYSVLAKGTKRAPPVMCVAACE 95
D +Y +++ L+ A+ ++ P +I+E+MRYS+LA G KR PV+C+AACE
Sbjct: 7 HHHHTDPISYIIRKADSVNKALDSAVPLREPLKIHEAMRYSLLAGG-KRVRPVLCIAACE 65
Query: 96 LFGVNRIAAFPTACALEMVHAASLIHDDLPCMDDDPSRRGQPSNHTVYGVDIAILAGDAL 155
L G A P ACA+EM+H SLIHDDLPCMD+D RRG+P+NH VYG D+A+LAGDAL
Sbjct: 66 LVGGEESLAMPAACAVEMIHTMSLIHDDLPCMDNDDLRRGKPTNHKVYGEDVAVLAGDAL 125
Query: 156 FPLGFQHIVSHTPPHLVPEPRVLRVIAEIARAVGSTGMAAGQFLDLEGE--------PNL 207
F+H+ S T + P RV+R + E+A+A+G+ G+ AGQ +D+ E
Sbjct: 126 LSFAFEHLASATSSEVSPA-RVVRAVGELAKAIGTEGLVAGQVVDISSEGLDLNNVGLEH 184
Query: 208 VEFVQEKKFGEMSECSAVCGGFLAGADDDEIQSLRRYGRAVGVLYQVVDDILEAKAQTPR 267
++F+ K + E SAV GG + G D+EI+ LR++ R +G+L+QVVDDIL
Sbjct: 185 LKFIHLHKTAALLEASAVLGGIIGGGSDEEIERLRKFARCIGLLFQVVDDIL-------- 236
Query: 268 DEEKKKKKGKSYVAFYGVEKAMEVAEELRAKAKEELDRFKKYGDNVLPLYSFIDYAADRE 327
D K K +Y G+EK+ E AE+L +A+++L F D V PL + +Y A+R+
Sbjct: 237 DVTKSSK--LTYPKLMGLEKSREFAEKLNTEARDQLLGFD--SDKVAPLLALANYIANRQ 292
>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 = 320 bits (822), Expect = e-110
Identities = 86/273 (31%), Positives = 134/273 (49%), Gaps = 26/273 (9%)
Query: 42 LKTYWTTLITEIDQNLEKAITVKYPEQIYESMRYSVLAKGTKRAPPVMCVAACELFGVNR 101
++ YW + +I++ L+K+IT++ PE ++ M + A A +C+AACEL G +R
Sbjct: 1 MQPYWAAIEADIERYLKKSITIRPPETVFGPMHHLTFAAP-ATAASTLCLAACELVGGDR 59
Query: 102 IAAFPTACALEMVHAASLIHDDLPCMDDDPSRRGQPSNHTVYGVDIAILAGDALFPLGFQ 161
A A A+ +VHAA+ +H+ LP D +P+ YG ++ +L GD + P GF+
Sbjct: 60 SQAMAAAAAIHLVHAAAYVHEHLPLTDGS-RPVSKPAIQHKYGPNVELLTGDGIVPFGFE 118
Query: 162 HIVSHTPPHLVPEP-RVLRVIAEIARAVGSTGMAAGQFLDLEGEPNLV-----EFVQEKK 215
+ P +P R+LRVI EI+RA G GM +G + E E+V +KK
Sbjct: 119 LLAGSVDPARTDDPDRILRVIIEISRAGGPEGMISGLHREEEIVDGNTSLDFIEYVCKKK 178
Query: 216 FGEMSECSAVCGGFLAGADDDEIQSLRRYGRAVGVL---------YQVVDDILEAKAQTP 266
+GEM C A CG L GA ++EIQ LR +G G L +Q++D+ + K +
Sbjct: 179 YGEMHACGAACGAILGGAAEEEIQKLRNFGLYQGTLRGMMEMKNSHQLIDENIIGKLKEL 238
Query: 267 RDEEKKKKKGK---------SYVAFYGVEKAME 290
EE GK + + Y
Sbjct: 239 ALEELGGFHGKNAELMSSLVAEPSLYAAHHHHH 271
>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 = 316 bits (811), Expect = e-108
Identities = 74/270 (27%), Positives = 128/270 (47%), Gaps = 17/270 (6%)
Query: 38 TQFDLKTYWTTLITEIDQNLEKAITVKYPEQIYESMRYSVLAKGTKRAPPVMCVAACELF 97
+ +TY T+ ++I+ L+KAI ++ PE ++E M + A + + +CVAACEL
Sbjct: 2 SLTRTQTYRATIESDIESYLKKAIPIRAPESVFEPMHHLTFAAP-RTSASALCVAACELV 60
Query: 98 GVNRIAAFPTACALEMVHAASLIHDDLPCMDDDPSRRGQPSNHTVYGVDIAILAGDALFP 157
G +R A A A+ ++H A+ H++LP D + + +I +L GD + P
Sbjct: 61 GGDRSDAMAAAAAVHLMHVAAYTHENLPLTDGP---MSKSEIQHKFDPNIELLTGDGIIP 117
Query: 158 LGFQHIVSHTPPHLVPEPRVLRVIAEIARAVGSTGMAAGQFLDLEGEPNL----VEFVQE 213
G + + P R+LR I E+ R +GS G+ GQ+ +L +E+V +
Sbjct: 118 FGLELMARSMDPTRNNPDRILRAIIELTRVMGSEGIVEGQYHELGLNQLNDLELIEYVCK 177
Query: 214 KKFGEMSECSAVCGGFLAGADDDEIQSLRRYGRAVGVLYQVVDDILEAKAQTPRD----- 268
KK G + C A CG L G D+D+I+ LRR+G VG + ++ ++
Sbjct: 178 KKEGTLHACGAACGAILGGCDEDKIEKLRRFGLYVGTVQGLLGKNRSGFEGRIKELKELA 237
Query: 269 ----EEKKKKKGKSYVAFYGVEKAMEVAEE 294
E +K + + +E ++ E
Sbjct: 238 VKELESFGGEKIELIRGVFELEHSLAGVEG 267
>3uca_A Geranyltranstransferase; isoprenoid synthesis, isoprenoid
diphosphate synthase; 2.00A {Clostridium perfringens}
Length = 324
Score = 314 bits (806), Expect = e-107
Identities = 96/320 (30%), Positives = 158/320 (49%), Gaps = 27/320 (8%)
Query: 25 SSLPVSAASQLRSTQFDLKTYWTTLITEIDQNLEKAITVK--YPEQIYESMRYSVLAKGT 82
+L + + R T D +L E+DQ+L+ Y + +Y+SM YS+ G
Sbjct: 16 ENLYFQSMMKKRKTLEDTAMNINSLKEEVDQSLKAYFNKDREYNKVLYDSMAYSINVGG- 74
Query: 83 KRAPPVMCVAACELFGVNRIAAFPTACALEMVHAASLIHDDLPCMDDDPSRRGQPSNHTV 142
KR P++ + + ++ + A A+EM+H SLIHDDLPCMD+D RRG+P+NH V
Sbjct: 75 KRIRPILMLLSYYIYKSDYKKILTPAMAIEMIHTYSLIHDDLPCMDNDDLRRGKPTNHKV 134
Query: 143 YGVDIAILAGDALFPLGFQHIVSHTPPHLVPEPRVLRVIAEIARAVGSTGMAAGQFLDLE 202
+G IA+LAGDAL + +V ++ L L+ IA A GS GM GQ +D+
Sbjct: 135 FGEAIAVLAGDALLNEAMKILVDYS---LEEGKSALKATKIIADAAGSDGMIGGQIVDII 191
Query: 203 GE------PNLVEFVQEKKFGEMSECSAVCGGFLAGADDDEIQSLRRYGRAVGVLYQVVD 256
E ++++ KK GE+ + S + G LA A + +I+ L +G +G+ +Q+ D
Sbjct: 192 NEDKEEISLKELDYMHLKKTGELIKASIMSGAVLAEASEGDIKKLEGFGYKLGLAFQIKD 251
Query: 257 DILEAKAQTPRDEE-------KKKKKGKS-YVAFYGVEKAMEVAEELRAKAKEELDRFKK 308
DIL+ + + K ++ K+ Y+ +G+E+ + + + E L
Sbjct: 252 DILDVVG----NAKDLGKNVHKDQESNKNNYITIFGLEECKKKCVNITEECIEILSSI-- 305
Query: 309 YGDNVLPLYSFIDYAADREF 328
N PL +R+F
Sbjct: 306 -KGNTEPLKVLTMKLLERKF 324
>2h8o_A Geranyltranstransferase; geranyltransferase,agrobacterium
tumefaciens, structural GEN PSI-2, protein structure
initiative; 1.60A {Agrobacterium tumefaciens}
Length = 335
Score = 310 bits (797), Expect = e-105
Identities = 100/334 (29%), Positives = 153/334 (45%), Gaps = 31/334 (9%)
Query: 15 CLPRKFPVRCSSL-PVSAASQLRSTQFDLKTYWTTLITEIDQNLEKAI-------TVKYP 66
C R + + P +++ + + +T + + L + + P
Sbjct: 11 CCAFGITKRFACIRPACQRARMDAQMTNFETRLRENAAKTEALLGHLLSGEARADEITRP 70
Query: 67 EQIYESMRYSVLAKGTKRAPPVMCVAACELFGVNRIAAFPTACALEMVHAASLIHDDLPC 126
+ + E+MR+ VL G KR P + + + L G + A ALE +H SL+HDDLP
Sbjct: 71 QNLLEAMRHGVLNGG-KRLRPFLVIESVALLGGDAEAGLHVGAALECLHCYSLVHDDLPA 129
Query: 127 MDDDPSRRGQPSNHTVYGVDIAILAGDALFPLGFQHIVSHTPPHLVPEPRVLRVIAEIAR 186
MDDD RRGQP+ H + AILAGD+L L F I S P + R ++ +AR
Sbjct: 130 MDDDDLRRGQPTVHRKFDEATAILAGDSLLTLAFDIIASDDNP--LAAERKAALVISLAR 187
Query: 187 AVGSTGMAAGQFLDLEGE-----PNLVEFVQEKKFGEMSECSAVCGGFLAGADDDEIQSL 241
A G GMA GQ LDL E + + +Q K G + + G +AG++ E Q L
Sbjct: 188 AAGIGGMAGGQALDLAAEKKAPDEDGIITLQAMKTGALLRFACEAGAIIAGSNQAERQRL 247
Query: 242 RRYGRAVGVLYQVVDDILEAKAQTPRDEE-------KKKKKGKS-YVAFYGVEKAMEVAE 293
R +G +G+ +Q+ DD+L+ A D K +GK VA G A E +
Sbjct: 248 RLFGEKIGLSFQLADDLLDLTA----DAATMGKATGKDAARGKGTLVALRGEAWAREKLQ 303
Query: 294 ELRAKAKEELDRFKKYGDNVLPLYSFIDYAADRE 327
E A+A E L + G+ L + + A+R+
Sbjct: 304 EQVAEASELLAPY---GEKAAILIAAARFIAERK 334
>3ts7_A Geranyltranstransferase; isoprenoid synthesis, farnesyl diphosphate
synthase; 1.94A {Methylococcus capsulatus}
Length = 324
Score = 306 bits (787), Expect = e-104
Identities = 91/307 (29%), Positives = 140/307 (45%), Gaps = 25/307 (8%)
Query: 37 STQFDLKTYWTTLITEIDQNLEKAITVK--YPEQIYESMRYSVLAKGTKRAPPVMCVAAC 94
+ + L + + +++ L+ + PE+++++MRYSVL G KR P++ A
Sbjct: 4 NPERSLSDFMRSSQERVERALDARLPAADRMPERLHQAMRYSVLGGG-KRMRPLLTYATG 62
Query: 95 ELFGVNRIAAFPTACALEMVHAASLIHDDLPCMDDDPSRRGQPSNHTVYGVDIAILAGDA 154
+ GV ACA+E +H SLIHDDLP MDDD RRG+P+ H Y AILAGD
Sbjct: 63 QTIGVAADLLDGPACAVEFIHVYSLIHDDLPAMDDDDLRRGKPTCHKAYDEATAILAGDG 122
Query: 155 LFPLGFQHIVSHTPPHLVPEPRVLRVIAEIARAVGSTGMAAGQFLDLEGE---PNL--VE 209
L L F + + E + +I +A+A G GM GQ +DL +L +E
Sbjct: 123 LQALAFHVLAQDPSIAVPAE-NRIAMIETLAKASGPAGMVGGQAIDLASVGKKLDLPGLE 181
Query: 210 FVQEKKFGEMSECSAVCGGFLAG-ADDDEIQSLRRYGRAVGVLYQVVDDILEAKAQTPRD 268
+ +K G + S ++ L Y + +G+ +Q+ DDIL+ ++ D
Sbjct: 182 NMHIRKTGALIRASVRLACLARPGLPAEQFDRLDHYAKCIGLAFQIQDDILDEES----D 237
Query: 269 EE-------KKKKKGKS-YVAFYGVEKAMEVAEELRAKAKEELDRFKKYGDNVLPLYSFI 320
+ K + K Y A G+ A E AEE+ A E L F G L
Sbjct: 238 TQTLGKTRGKDRDHNKPNYPALLGLSGAKEKAEEMHEAALESLAGF---GPEADLLRELA 294
Query: 321 DYAADRE 327
+ R+
Sbjct: 295 RFIIQRQ 301
>1rtr_A Geranyltranstransferase; 2.50A {Staphylococcus aureus} SCOP:
a.128.1.1
Length = 301
Score = 304 bits (782), Expect = e-103
Identities = 95/304 (31%), Positives = 143/304 (47%), Gaps = 27/304 (8%)
Query: 38 TQFDLKTYWTTLITEIDQNLEKAI-TVKYPEQIYESMRYSVLAKGTKRAPPVMCVAACEL 96
T + I E++ L AI Q+ ESM YS+ A G KR PV+ + +
Sbjct: 2 TNLPMNKL----IDEVNNELSVAINKSVMDTQLEESMLYSLNAGG-KRIRPVLLLLTLDS 56
Query: 97 FGVNRIAAFPTACALEMVHAASLIHDDLPCMDDDPSRRGQPSNHTVYGVDIAILAGDALF 156
+A ALEM+H SLIHDDLP MD+D RRG+ +NH VYG AILAGDAL
Sbjct: 57 LNTEYELGMKSAIALEMIHTYSLIHDDLPAMDNDDYRRGKLTNHKVYGEWTAILAGDALL 116
Query: 157 PLGFQHIVSHTPPHLVPEPRVLRVIAEIARAVGSTGMAAGQFLDLEGE-----PNLVEFV 211
F+ I S + + ++V+ ++ A G GM GQ LD++ E +E +
Sbjct: 117 TKAFELISSDDR---LTDEVKIKVLQRLSIASGHVGMVGGQMLDMQSEGQPIDLETLEMI 173
Query: 212 QEKKFGEMSECSAVCGGFLAGADDDEIQSLRRYGRAVGVLYQVVDDILEAKAQTPRDEEK 271
+ K G + + + +A DD + L Y +G+++Q+ DD+L+ DE K
Sbjct: 174 HKTKTGALLTFAVMSAADIANVDDTTKEHLESYSYHLGMMFQIKDDLLDCYG----DEAK 229
Query: 272 --KK-----KKGKS-YVAFYGVEKAMEVAEELRAKAKEELDRFKKYGDNVLPLYSFIDYA 323
KK + KS YV+ G + A + R A +EL + + + L +D
Sbjct: 230 LGKKVGSDLENNKSTYVSLLGKDGAEDKLTYHRDAAVDELTQIDEQFNT-KHLLEIVDLF 288
Query: 324 ADRE 327
R+
Sbjct: 289 YSRD 292
>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 = 304 bits (782), Expect = e-103
Identities = 102/303 (33%), Positives = 147/303 (48%), Gaps = 25/303 (8%)
Query: 41 DLKTYWTTLITEIDQNLEKAITVK--YPEQIYESMRYSVLAKGTKRAPPVMCVAACELFG 98
L Y + +D + T ++YE+MRYSV+ G KR P++ AACE G
Sbjct: 2 SLTAYQASSQARVDAAMHTLFTAPSPELARLYEAMRYSVMNGG-KRVRPLLAYAACEALG 60
Query: 99 VNRIAAFPTACALEMVHAASLIHDDLPCMDDDPSRRGQPSNHTVYGVDIAILAGDALFPL 158
A ACA+E++HA SL+HDDLP MDDD RRGQP+ H + AILAGD L L
Sbjct: 61 GKPEQANGAACAVELIHAYSLVHDDLPAMDDDDLRRGQPTTHKAFDEACAILAGDGLQSL 120
Query: 159 GFQHIVSHTPPHLVPEPRVLRVIAEIARAVGSTGMAAGQFLDLEGE---PNL--VEFVQE 213
F ++ E LR++ +A+A G GM GQ +DL + +E++
Sbjct: 121 AFSALLDPALSDASAE-IRLRMVTTLAQAAGPAGMVGGQAIDLGSVGLKLDQQALEYMHR 179
Query: 214 KKFGEMSECSAVCGGFLAG-ADDDEIQSLRRYGRAVGVLYQVVDDILEAKAQTPRDEE-- 270
K G + E S + G +G A+ E+++L+ Y +A+G+ +QV DDIL+ ++ D
Sbjct: 180 HKTGALIEASVILGALASGRAEKGELKALQTYAQAIGLAFQVQDDILDVES----DTATL 235
Query: 271 -----KKKKKGKS-YVAFYGVEKAMEVAEELRAKAKEELDRFKKYGDNVLPLYSFIDYAA 324
+ K Y A G+ A E A ELR +A L F PL Y
Sbjct: 236 GKRQGADIARDKPTYPALLGLAAAKEYALELRDQALHALRPF---DAAAEPLRELARYIV 292
Query: 325 DRE 327
+R
Sbjct: 293 ERR 295
>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 = 301 bits (774), Expect = e-102
Identities = 96/303 (31%), Positives = 139/303 (45%), Gaps = 22/303 (7%)
Query: 41 DLKTYWTTLITEIDQNLEKAITVK--YPEQIYESMRYSVLAKGTKRAPPVMCVAACELFG 98
D + + +Q L + I + E+M+Y L G KR P + A +FG
Sbjct: 2 DFPQQLEACVKQANQALSRFIAPLPFQNTPVVETMQYGALLGG-KRLRPFLVYATGHMFG 60
Query: 99 VNRIAAFPTACALEMVHAASLIHDDLPCMDDDPSRRGQPSNHTVYGVDIAILAGDALFPL 158
V+ A A+E +HA SLIHDDLP MDDD RRG P+ H +G AILAGDAL L
Sbjct: 61 VSTNTLDAPAAAVECIHAYSLIHDDLPAMDDDDLRRGLPTCHVKFGEANAILAGDALQTL 120
Query: 159 GFQHIVSHTPPHLVPEPRVLRVIAEIARAVGSTGMAAGQFLDLEGE-----PNLVEFVQE 213
F + P + + +I+E+A A G GM GQ LDL+ E + +E +
Sbjct: 121 AFSILSDADMPEVSDR-DRISMISELASASGIAGMCGGQALDLDAEGKHVPLDALERIHR 179
Query: 214 KKFGEMSECSAVCGGFLAG-ADDDEIQSLRRYGRAVGVLYQVVDDILEAKAQTPRDEEKK 272
K G + + G AG + L +Y ++G+ +QV DDIL+ D
Sbjct: 180 HKTGALIRAAVRLGALSAGDKGRRALPVLDKYAESIGLAFQVQDDILDVVG----DTATL 235
Query: 273 KK-------KGKS-YVAFYGVEKAMEVAEELRAKAKEELDRFKKYGDNVLPLYSFIDYAA 324
K GKS Y A G+E+A + A +L A++ L + + + L + DY
Sbjct: 236 GKRQGADQQLGKSTYPALLGLEQARKKARDLIDDARQSLKQLAEQSLDTSALEALADYII 295
Query: 325 DRE 327
R
Sbjct: 296 QRN 298
>3p8l_A Geranyltranstransferase; isoprenyl synthase, structural genomics,
PSI, protein struct initiative, nysgrc; 2.00A
{Enterococcus faecalis}
Length = 302
Score = 300 bits (770), Expect = e-101
Identities = 89/307 (28%), Positives = 140/307 (45%), Gaps = 25/307 (8%)
Query: 37 STQFDLKTYWTTLITEIDQNLEKAI-TVKYPEQIYESMRYSVLAKGTKRAPPVMCVAACE 95
L + + +++ + I E++ E+M YS+ A G KR P++ +
Sbjct: 5 HHHHSLTNFSQQHLPLVEKVMVDFIAEYTENERLKEAMLYSIHAGG-KRLRPLLVLTTVA 63
Query: 96 LFGVNR-IAAFPTACALEMVHAASLIHDDLPCMDDDPSRRGQPSNHTVYGVDIAILAGDA 154
F + A +LEM+H SLIHDDLP MDDD RRG+P+NH V+G AILAGD
Sbjct: 64 AFQKEMETQDYQVAASLEMIHTYSLIHDDLPAMDDDDLRRGKPTNHKVFGEATAILAGDG 123
Query: 155 LFPLGFQHIVSHTPPHLVPEPRVLRVIAEIARAVGSTGMAAGQFLDLEGE-----PNLVE 209
L FQ + + + ++ ++A+A G+ GM +GQ D+EGE +
Sbjct: 124 LLTGAFQLLSLSQ----LGLSEKVLLMQQLAKAAGNQGMVSGQMGDIEGEKVSLTLEELA 179
Query: 210 FVQEKKFGEMSECSAVCGGFLAGADDDEIQSLRRYGRAVGVLYQVVDDILEAKAQTPRDE 269
V EKK G + E + + GG LA ++ I L ++ G+ +Q+ DD+L+A + E
Sbjct: 180 AVHEKKTGALIEFALIAGGVLANQTEEVIGLLTQFAHHYGLAFQIRDDLLDATS----TE 235
Query: 270 EK--KK-----KKGKS-YVAFYGVEKAMEVAEELRAKAKEELDRFKKYGDNVLPLYSFID 321
KK KS Y A G+ A + A+ L++ K N +
Sbjct: 236 ADLGKKVGRDEALNKSTYPALLGIAGAKDALTHQLAEGSAVLEKIKANVPN-FSEEHLAN 294
Query: 322 YAADREF 328
+
Sbjct: 295 LLTQLQL 301
>4f62_A Geranyltranstransferase; enzyme function initiative, structural
genomics; 2.10A {Marinomonas SP}
Length = 317
Score = 300 bits (770), Expect = e-101
Identities = 96/302 (31%), Positives = 147/302 (48%), Gaps = 26/302 (8%)
Query: 40 FDLKTYWTTLITEIDQNLEKAITVK-YPEQIYESMRYSVLAKGTKRAPPVMCVAACELFG 98
+LK + T + +DQ LE+ ++ Q++ +MRYS+ G KR P++ A+ +L G
Sbjct: 3 MNLKQFSTYTQSRVDQYLEQQLSDYAPANQLHNAMRYSLFNGG-KRIRPMLTYASAQLVG 61
Query: 99 VNRIAAFPTACALEMVHAASLIHDDLPCMDDDPSRRGQPSNHTVYGVDIAILAGDALFPL 158
+A ALE +HA SLIHDDLP MD+D RRG+P+ H + AILAGDAL
Sbjct: 62 DISSLTDASAAALESIHAYSLIHDDLPAMDNDELRRGKPTCHIQFDEATAILAGDALQTF 121
Query: 159 GFQHIVSHTPPHLVPEPRVLRVIAEIARAVGSTGMAAGQFLDLEGE---PNL--VEFVQE 213
F+ + P PE +++I E+ A G GM GQ +DL E +L +E +
Sbjct: 122 AFELLS--NPTSAQPE-LAIKLIQELVVASGRNGMITGQMIDLSSENKNISLAELEQMHV 178
Query: 214 KKFGEMSECSAVCGGFLAG-ADDDEIQSLRRYGRAVGVLYQVVDDILEAKAQTPRDEE-- 270
K G + + S G G +++ L Y A+G+ +QV DDI++ + D E
Sbjct: 179 HKTGALIKASVRMGALSTGQVKPEQLAKLDAYAHAIGLAFQVQDDIIDLTS----DTETL 234
Query: 271 -----KKKKKGKS-YVAFYGVEKAMEVAEELRAKAKEELDRFKKYGDNVLPLYSFIDYAA 324
+ K+ Y G++ A + L +A ++ F GD PL +Y
Sbjct: 235 GKTQFSDAEANKATYPKLLGLDGAKALVVRLHEQAIAQISEF---GDKSQPLTDLANYII 291
Query: 325 DR 326
DR
Sbjct: 292 DR 293
>3lom_A Geranyltranstransferase; geranyltransferase, structural genomics,
PSI, protein structure initiative, nysgrc; 2.30A
{Legionella pneumophila subsp}
Length = 313
Score = 299 bits (768), Expect = e-101
Identities = 73/307 (23%), Positives = 125/307 (40%), Gaps = 26/307 (8%)
Query: 37 STQFDLKTYWTTLITEIDQNLEKAI--TVKYPEQIYESMRYSVLAKGTKRAPPVMCVAAC 94
++ K + LE+ + + QI ++ Y++ + G KR P++ A
Sbjct: 4 NSTQMNKQVIDKYTQRHELYLEQLLNEIIIPAPQIRSALHYALFSGG-KRIRPILVYLAG 62
Query: 95 ELFGVNRIAAFPTACALEMVHAASLIHDDLPCMDDDPSRRGQPSNHTVYGVDIAILAGDA 154
+L V++ A ALE+ H SLIHDDLP MD+D RRG+PS H + AIL GD
Sbjct: 63 DLIDVDQGVLDIIAAALELTHCYSLIHDDLPAMDNDDLRRGKPSCHKAFDEATAILVGDG 122
Query: 155 LFPLGFQHIVSHTPPHLVPEPRVLRVIAEIARAVGSTGMAAGQFLDLEGEPNL------V 208
+ L + + L+P +V+ + + A G +GM +GQ LDL +
Sbjct: 123 MQALAIEVL-LMRLSPLLPAAQVVAITQVLVNASGISGMVSGQSLDLSELAKSSVTEEQL 181
Query: 209 EFVQEKKFGEMSECSAVCGGFLAG-ADDDEIQSLRRYGRAVGVLYQVVDDILEAKAQTPR 267
+ K G++ + +LR YG+ +G+++Q+ DD L+ A
Sbjct: 182 REIHLLKTGKLILACFEMVLAAQHEVSEQIKSALRTYGKHIGLVFQMQDDYLDLYA---- 237
Query: 268 DEE-------KKKKKGKS-YVAFYGVEKAMEVAEELRAKAKEELDRFKKYGDNVLPLYSF 319
+ + K+ + + ++ E A + L F G L
Sbjct: 238 PTQILGKGRSSDQANQKTTFATLFNKQQLEEEIAVHYQIAMDSLRLF---GSKAAALIEL 294
Query: 320 IDYAADR 326
+R
Sbjct: 295 TKQLQNR 301
>3m0g_A Farnesyl diphosphate synthase; structural genomics, protein
structure initiative, NYSGXRC, biosynthesis,
transferase, PSI-2; 1.90A {Rhodobacter capsulatus} PDB:
3lvs_A
Length = 297
Score = 296 bits (761), Expect = e-100
Identities = 87/302 (28%), Positives = 142/302 (47%), Gaps = 30/302 (9%)
Query: 41 DLKTYWTTLITEIDQNLEKAITVKYPEQIYESMRYSVLAKGTKRAPPVMCVAACELFGVN 100
L + ++ + AI + ++M Y+ G KR + + + + G++
Sbjct: 2 SLSERLKEVQDAVETAMAAAIGRLPAGDLRDAMAYAAQ--GGKRLRAFLAIESAAIHGIS 59
Query: 101 RIAAFPTACALEMVHAASLIHDDLPCMDDDPSRRGQPSNHTVYGVDIAILAGDALFPLGF 160
A P A A+E +HA SL+HDD+PCMD+D RRG P+ H + A+LAGDAL L F
Sbjct: 60 MAQAMPAALAVEALHAYSLVHDDMPCMDNDDLRRGLPTVHKKWDDATAVLAGDALQTLAF 119
Query: 161 QHIVSHTPPHLVPEPRVLRVIAEIARAVGSTGMAAGQFLDLEGE-------PNLVEFVQE 213
+ L + ++A +A+A G+ GM GQ LD+ E + + +Q
Sbjct: 120 ELCTDPV---LGSAENRVALVAALAQASGAEGMVYGQALDIAAETAAVPLTLDEIIRLQA 176
Query: 214 KKFGEMSECSAVCGGFLAGADDDEIQSLRRYGRAVGVLYQVVDDILEAKAQTPRDEE--- 270
K G + +A G LAGAD L Y A+G+ +Q+ DDIL+ + +EE
Sbjct: 177 GKTGALISFAAQAGAILAGADR---GPLTAYATALGLAFQIADDILDVEG----NEEAAG 229
Query: 271 ----KKKKKGKS-YVAFYGVEKAMEVAEELRAKAKEELDRFKKYGDNVLPLYSFIDYAAD 325
K + K+ +V+ G+ A A +L A+A+ L + G+ L + Y +
Sbjct: 230 KRLGKDAEAHKATFVSLLGLAGAKSRAADLVAEAEAALAPY---GEAASTLRACARYVIE 286
Query: 326 RE 327
R+
Sbjct: 287 RD 288
>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 = 296 bits (761), Expect = e-100
Identities = 82/304 (26%), Positives = 136/304 (44%), Gaps = 25/304 (8%)
Query: 39 QFDLKTYWTTLITEIDQNLEKAITV-KYPEQIYESMRYSVLAKGTKRAPPVMCVAACELF 97
L + + ++ L++AI Q+ +M YSVLA G KR P++ VA +
Sbjct: 5 NARLIAFEDQWVPALNAPLKQAILADSQDAQLAAAMTYSVLAGG-KRLRPLLTVATMQSL 63
Query: 98 GVNRI--AAFPTACALEMVHAASLIHDDLPCMDDDPSRRGQPSNHTVYGVDIAILAGDAL 155
GV + + ALE++H SLIHDDLP MD+D RRG+P+NH +G +A LAGD L
Sbjct: 64 GVTFVPERHWRPVMALELLHTYSLIHDDLPAMDNDALRRGEPTNHVKFGAGMATLAGDGL 123
Query: 156 FPLGFQHIVSHTPPHLVPEPRVLRVIAEIARAVGSTGMAAGQFLDLEGE---PNL--VEF 210
L FQ + + +P ++ +A A G +GM AGQ D++ E L +
Sbjct: 124 LTLAFQWLTATD----LPATMQAALVQALATAAGPSGMVAGQAKDIQSEHVNLPLSQLRV 179
Query: 211 VQEKKFGEMSECSAVCGGFLAGADDDEIQSLRRYGRAVGVLYQVVDDILEAKAQTPRDEE 270
+ ++K G + + G L A + + + ++ A G+ +Q+ DDIL+ +
Sbjct: 180 LHKEKTGALLHYAVQAGLILGQAPEAQWPAYLQFADAFGLAFQIYDDILDVVS----SPA 235
Query: 271 K--KK-----KKGKS-YVAFYGVEKAMEVAEELRAKAKEELDRFKKYGDNVLPLYSFIDY 322
+ K + K+ Y G+ A + + + L F +
Sbjct: 236 EMGKATQKDADEAKNTYPGKLGLIGANQALIDTIHSGQAALQGLPTSTQRDDLAAFFSYF 295
Query: 323 AADR 326
+R
Sbjct: 296 DTER 299
>3p8r_A Geranyltranstransferase; isoprenyl synthase, structural genomics,
PSI, protein struct initiative, nysgrc; 2.50A {Vibrio
cholerae}
Length = 302
Score = 294 bits (754), Expect = 3e-99
Identities = 93/307 (30%), Positives = 135/307 (43%), Gaps = 25/307 (8%)
Query: 37 STQFDLKTYWTTLITEIDQNLEKAITVK--YPEQIYESMRYSVLAKGTKRAPPVMCVAAC 94
++ +Q L++ + + E+MRY +L G KRA P +
Sbjct: 4 HHHHHSLEALSSYQQRNNQQLDQWLNRIPFQTLPLIEAMRYGLLLGG-KRARPYLVYITG 62
Query: 95 ELFGVNRIAAFPTACALEMVHAASLIHDDLPCMDDDPSRRGQPSNHTVYGVDIAILAGDA 154
++ G A A+E +HA SLIHDDLP MDDD RRG+P+ H + AIL GDA
Sbjct: 63 QMLGCELSDLDTPASAVECIHAYSLIHDDLPAMDDDELRRGKPTCHIQFDEATAILTGDA 122
Query: 155 LFPLGFQHIVSHTPPHLVPEPRVLRVIAEIARAVGSTGMAAGQFLDLEGE---PNL--VE 209
L L F + + + ++ +A A G+ GM GQ LDL E +L +E
Sbjct: 123 LQTLAFTILAEGDLSAAGET-QRVAMLQALAEASGAQGMCLGQALDLAAENRLISLEELE 181
Query: 210 FVQEKKFGEMSECSAVCGGFLAGADDDE-IQSLRRYGRAVGVLYQVVDDILEAKAQTPRD 268
+ K G + C+ G AG + L RY AVG+ +QV DDIL+ + D
Sbjct: 182 TIHRNKTGALMRCAIRLGALAAGEKGRAMLPHLDRYAEAVGLAFQVQDDILDIIS----D 237
Query: 269 EE-------KKKKKGKS-YVAFYGVEKAMEVAEELRAKAKEELDRFKKYGDNVLPLYSFI 320
E ++ KS Y A G+E A + A L +A L+ N L F
Sbjct: 238 TETLGKPQGSDQELNKSTYPALLGLEGAQQKAHTLLQEALLALEAI---PYNTEHLEEFA 294
Query: 321 DYAADRE 327
Y +R+
Sbjct: 295 RYVVERK 301
>3llw_A Geranyltranstransferase (ISPA); structural genomics, PSI, protein
structure initiative, nysgrc; 2.30A {Helicobacter
pylori} PDB: 3q1o_A*
Length = 311
Score = 286 bits (733), Expect = 5e-96
Identities = 77/310 (24%), Positives = 132/310 (42%), Gaps = 31/310 (10%)
Query: 38 TQFDLKTYWTTLITEIDQNLEKAITVK--YPEQIYESMRYSVLAKGTKRAPPVMCVAACE 95
+ +L ++ + L+ + + ++ VL G KR P + +A
Sbjct: 4 SSPNLS-FYYNECERFESFLKNHHLHLESFHPYLEKAFFEMVLNGG-KRFRPKLFLAVLC 61
Query: 96 LFGVNRI------AAFPTACALEMVHAASLIHDDLPCMDDDPSRRGQPSNHTVYGVDIAI 149
+ F A ++E +H SLIHDDLPCMD+ RR P+ H Y A+
Sbjct: 62 ALVGQKDYSNQQTEYFKIALSIECLHTYSLIHDDLPCMDNAALRRNHPTLHAKYDETTAV 121
Query: 150 LAGDALFPLGFQHIVSHTPPHLVPEPRVLRVIAEIARAVGSTGMAAGQFLDLEGE---PN 206
L GDAL F+ + + + ++ +I ++ G GM GQ LD E N
Sbjct: 122 LIGDALNTYSFELLSNAL----LESHIIVELIKILSANGGIKGMILGQALDCYFENTPLN 177
Query: 207 L--VEFVQEKKFGEMSECSAVCGGFLAGADDDEI-QSLRRYGRAVGVLYQVVDDILEAKA 263
L + F+ E K ++ S + G +G D+E+ + L+ +G +G+ +QV+DDI++
Sbjct: 178 LEQLTFLHEHKTAKLISASLIMGLVASGIKDEELFKWLQAFGLKMGLCFQVLDDIIDVTQ 237
Query: 264 QTPRDEEKKKKKGK-----SYVAFYGVEKAMEVAEELRAKAKEELDRFKKYGDNVLPLYS 318
EE K S+V G+E+A A+ L+ + +LD L
Sbjct: 238 DE---EESGKTTHLDSAKNSFVNLLGLERANNYAQTLKTEVLNDLDAL---KPAYPLLQE 291
Query: 319 FIDYAADREF 328
++ + F
Sbjct: 292 NLNALLNTLF 301
>3npk_A Geranyltranstransferase; isoprene biosynthesis, SGX, structural
genomics protein structure initiative; 1.50A
{Campylobacter jejuni}
Length = 291
Score = 282 bits (724), Expect = 7e-95
Identities = 69/284 (24%), Positives = 123/284 (43%), Gaps = 24/284 (8%)
Query: 46 WTTLITEIDQNLEKAITVK--YPEQIYESMRYSVLAKGTKRAPPVMCVAACELFGVNRI- 102
L +LEK + + E++ + A G K + ++ + +
Sbjct: 2 SLNLKELFIHHLEKNLPKVESFHPFFNEALALMLKAGG-KHFRAQLLLSVVQSNKPELLN 60
Query: 103 AAFPTACALEMVHAASLIHDDLPCMDDDPSRRGQPSNHTVYGVDIAILAGDALFPLGFQH 162
A A ALE +H SLIHDDLP MD+ RRG P+ H Y AIL GDAL F
Sbjct: 61 QALDVALALEFIHTYSLIHDDLPAMDNADFRRGIPTLHKSYDETTAILVGDALNTEAFLV 120
Query: 163 IVSHTPPHLVPEPRVLRVIAEIARAVGSTGMAAGQFLDLEGE-----PNLVEFVQEKKFG 217
+ + + +++I +A G GM GQ +D E N +EF+ K
Sbjct: 121 LSHAH----LKDEIKIKLIKTLAFNAGLNGMVIGQAIDCFFEDKRLSLNELEFLHTHKTA 176
Query: 218 EMSECSAVCGGFLAGADDDEIQSLRRYGRAVGVLYQVVDDILEAKAQTPRDEEKKKKKGK 277
+ + G + +++E + + G +G+++Q+ DDI++ E+ K
Sbjct: 177 RLIAAALKMGCEICELNNEESNQIYKLGLKLGLIFQINDDIIDVTTSQ---EQSGKPTNN 233
Query: 278 -----SYVAFYGVEKAMEVAEELRAKAKEELDRFKKYGDNVLPL 316
S+V G+E+A++ E L + +++L++ + + +
Sbjct: 234 DIHKNSFVNLLGLEQAIKTKENLLNECEQDLEKL---NEKLAQM 274
>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 = 204 bits (520), Expect = 2e-64
Identities = 68/299 (22%), Positives = 114/299 (38%), Gaps = 25/299 (8%)
Query: 37 STQFDLKTYWTTLITEIDQNLEKAITVKYPEQIYESMRYSVLAKGTKRAPPVMCVAACEL 96
+ + +++ + + + + E+M YS G R P++ + E
Sbjct: 2 GSDKIHHHHHHMKXEXVEERIREILRPGWDLLTEEAMLYSATVGGX-RIRPLLVLTLGED 60
Query: 97 FGVNRIAAFPTACALEMVHAASLIHDDLPCMDDDPSRRGQPSNHTVYGVDIAILAGDALF 156
GV A A+E+ H ASLIHDDLP +D+ RRG PS H YG DIA+LAGD LF
Sbjct: 61 LGVEEEXLLDVAVAVELFHTASLIHDDLPPIDNADFRRGXPSCHRTYGEDIALLAGDGLF 120
Query: 157 PLGFQHIVSHTPPHLVPEPRVLRVIAEIARAVGSTGMAAGQFLDLEGE-------PNLVE 209
L F I + + + + G+ +D+E E +VE
Sbjct: 121 FLAFSQISXIGNSXIFE-----------EFSETAYXLLLGEAMDVEFERRXMEVSQEMVE 169
Query: 210 FVQEKKFGEMSECSAVCGGFLAGADDDEIQSLRRYGRAVGVLYQVVDDI--LEAKAQTPR 267
+ G + L G D + G GV +Q+ DD+ + +
Sbjct: 170 RMYAFXTGALFAFCFSAPFILXGXDH---TXMXLLGEXFGVAFQIYDDLXDILGSFEKVG 226
Query: 268 DEEKKKKKGKSYVAFYGVEKAMEVAEELRAKAKEELDRFKKYGDNVLPLYSFIDYAADR 326
+ K + + V G++ A E+A+ + ++ + L +R
Sbjct: 227 KDLGKDTEXVTLVXXVGIQXAREMADXYYEEVLXGIESEGL-FRTLFLLXELXQMVEER 284
>4fp4_A Polyprenyl synthetase; isoprenoid synthesis, isoprenoid diphosphate
synthase, trans; HET: GER UNL; 2.00A {Pyrobaculum
calidifontis}
Length = 285
Score = 187 bits (476), Expect = 1e-57
Identities = 56/283 (19%), Positives = 104/283 (36%), Gaps = 35/283 (12%)
Query: 38 TQFDLKTYWTTLITEIDQNLEKAITVKYPEQIYESMRYSVLAKGTKRAPPVMCVAACELF 97
+ L + + L K P + +++R+ + G K P++ +
Sbjct: 2 VMYSLPPEVLAALERVKARLNKVGEELEPISLRKAVRHYIETPG-KLLRPLLLLTFTYSI 60
Query: 98 G---VNRIAAFPTACALEMVHAASLIHDDLPCMDDDPSRRGQPSNHTVYGVDIAILAGDA 154
+ A +E++H SL+ DD+ MD RRG + +YG AI+A D
Sbjct: 61 DRRSIMDPRILEAAAIVELLHVVSLLQDDV--MDQHDQRRGIKTPRAMYGDGRAIVASDW 118
Query: 155 LFPLGFQHIVSHTPPHLVPEPRVLRVIAEIARAVGSTGMAAGQFLDLEGEPNLVEFVQEK 214
L + V+ V+ +A++ + ++ GQ LDLEGE + E
Sbjct: 119 LIAESIKMAVN-------LGADVVTYLADV-----AQRLSVGQALDLEGE---RDKAAEF 163
Query: 215 KFGEMSECSAVCGGFLAGADDDEIQSLRRYGRAVGVLYQVVDDILEAKAQTPRDEEKKKK 274
K + E + V + G + I++ ++ G +G+LYQ DD + + + K
Sbjct: 164 KTAPLIEAALVMPLVILGR-RELIETAKKLGTKLGILYQYSDDYSDENV----ERPETKS 218
Query: 275 KGKS---------YVAFYGVEKAMEVAEELRAKAKEELDRFKK 308
+ + + L KA E +
Sbjct: 219 IANEIGRYLLKIKEHVGDAIAPFERLIKYLIGKALEGTLTVSR 261
>3nf2_A Putative polyprenyl synthetase; isoprenyl diphosphate synthase,
structural genomics, PSI, PR structure initiative,
nysgrc; 2.20A {Streptomyces coelicolor}
Length = 352
Score = 188 bits (479), Expect = 2e-57
Identities = 70/291 (24%), Positives = 106/291 (36%), Gaps = 39/291 (13%)
Query: 40 FDLKTYWTTLITEIDQNLEKAITVKYPE----------QIYESMRYSVLAKGTKRAPPVM 89
D+ T L A+ P I + G K P +
Sbjct: 3 LDVTALLERGRTLATPVLRAAVDRLAPPMDTVAAYHFGWIDAQGNPADGDGG-KAVRPAL 61
Query: 90 CVAACELFGVNRIAAFPTACALEMVHAASLIHDDLPCMDDDPSRRGQPSNHTVYGVDIAI 149
V + E+ G P A A+E+VH SL+HDDL MD D RR + + V+G AI
Sbjct: 62 AVLSAEVTGAAPEVGVPGAVAVELVHNFSLLHDDL--MDGDEQRRHRDTVWKVHGPAQAI 119
Query: 150 LAGDALFPLGFQHIVSHTPPHLVPEPRVLRVIAEIARAVGSTGMAAGQFLDLEGEPNL-- 207
L GDALF L + ++ R R + + S + GQ D+ E
Sbjct: 120 LVGDALFALANEVLLELGTVEA---GRATRRLTK-----ASRSLIDGQAQDISYEHRDRV 171
Query: 208 ----VEFVQEKKFGEMSECSAVCGGFLAGADDDEIQSLRRYGRAVGVLYQVVDDILEAKA 263
++ K G + C++ G L GAD+ +L +YG +G+ +Q VDD+L
Sbjct: 172 SVEECLEMEGNKTGALLACASSIGAVLGGADERTADTLEKYGYHLGLAFQAVDDLLGIWG 231
Query: 264 QTPRDEEKKKKK-------GK-SYVAFYGVEKAMEVAEELRAKAKEELDRF 306
D + K+ K S + +E L +
Sbjct: 232 ----DPDATGKQTWSDLRQRKKSLPVVAALAAGGAASERLGEILTADAKAS 278
>1wy0_A Geranylgeranyl pyrophosphate synthetase; pyrococcus horikosh
structural genomics, riken structural
genomics/proteomics initiative, RSGI; 2.20A {Pyrococcus
horikoshii}
Length = 342
Score = 184 bits (470), Expect = 5e-56
Identities = 89/348 (25%), Positives = 153/348 (43%), Gaps = 69/348 (19%)
Query: 40 FDLKTYWTTLITEIDQNLEKAITVKYPEQIYESMRYSVLAKGTKRAPPVMCVAACELFGV 99
+L ID+ + + I K P +YE+ R+ LA G KR P + + + E G
Sbjct: 5 EELFARIKEKAKLIDEKIFELIPEKDPRVLYEAARHYPLAGG-KRVRPFVVLTSTEAVGG 63
Query: 100 NRIAAFPTACALEMVHAASLIHDDLPCMDDDPSRRGQPSNHTVYGVDIAILAGDALFPLG 159
+ + A A A+E++H SL+HDD+ MD D +RRG+P+ H ++GV++AILAGD LF
Sbjct: 64 DPLRAIYPAVAIELIHNYSLVHDDI--MDMDETRRGKPTVHRIWGVNMAILAGDLLFSKA 121
Query: 160 FQHIVSHTPPHLVPEPRVLRVIAEIARAVGSTGMAAGQFLDL--EGEPNLVE----FVQE 213
F+ + +P + RV+ I +A S + GQ DL E + + +
Sbjct: 122 FEAVARAE----IPPEKKARVLEVIVKA--SNELCEGQARDLEFEKKSTVTIEEYMEMIS 175
Query: 214 KKFGEMSECSAVCGGFLAGADDDEIQSLRRYGRAVGVLYQVVDDIL-------------- 259
K G + E SA GG + +++ I++L +GR VG+ +Q+ DD+L
Sbjct: 176 GKTGALFEASAKVGGIIGTDNEEYIKALSSWGRNVGIAFQIWDDVLDLIADEKKLGKPVG 235
Query: 260 ----EAKA--------QTPRDEEKKK--------------------------KKGKSYVA 281
+ K + +++K++ + +
Sbjct: 236 SDIRKGKKTLIVAHFFENADEKDKQRFLKIFGKYAGDVKGRGIIEEDIKSDVMEAIDLLK 295
Query: 282 FYGV-EKAMEVAEELRAKAKEELDRFKKYGDNVLPLYSFIDYAADREF 328
YG + A E+A+++ KA E L K + L + +RE+
Sbjct: 296 KYGSIDYAAEIAKDMIKKANEALRILPK-SKARMDLELLAKFIVEREY 342
>4dhd_A Polyprenyl synthetase; isoprenoid synthesis, isoprenoid diphosphate
synthase, trans; 1.65A {Pyrobaculum calidifontis}
Length = 358
Score = 174 bits (444), Expect = 4e-52
Identities = 68/344 (19%), Positives = 123/344 (35%), Gaps = 86/344 (25%)
Query: 51 TEIDQNLEKAITVKYPEQIYESMRYSVLAKGTKRAPPVMCVAACELFGVNRIAAFPTACA 110
E+++ L + +++ E E++ Y V G KR P++ +AA E A P A
Sbjct: 15 AEVEKALVRYLSIGLAEDFREAVLYQVKTGG-KRLRPLLTLAAAEAVSGQWRPALPAAAI 73
Query: 111 LEMVHAASLIHDDLPCMDDDPSRRGQPSNHTVYGVDIAILAGDALFPLGFQHIVSHTPPH 170
+E++H SLI+DD+ +D RRG P+ +G + AIL G + ++ P
Sbjct: 74 VELIHNYSLIYDDI--IDRGDVRRGLPTVRKAFGDNAAILVGIWYREAIEEAVLDTPKPT 131
Query: 171 LVPEPRVLRVIAEIARAVGSTGMAAGQFLDLEGEPNLVEFVQ------------------ 212
+ +AE+ +A + G+ LD+ E
Sbjct: 132 -----LFAKEVAEVIKA-----IDEGERLDILFEAAGRSDPYFVQARWREVTLDDYIKMV 181
Query: 213 EKKFGEMSECSAVCGGFLAGADDDEIQSLRRYGRAVGVLYQVVDDIL------------- 259
K G + +A G D ++ +G A GV +Q++DD+L
Sbjct: 182 SLKTGALIAAAAKWGVLSVSDDRGLAEAAWNFGMAAGVAFQIIDDVLDIYGDPKKFGKEI 241
Query: 260 ------------------------------EAKAQTPRDEEKKKKKGKSYVAFYGVEKAM 289
E A+ +E ++ + E+A+
Sbjct: 242 GKDIKEHKRGNAVVAVALSHLGEGERRRLLEILAREVVEEADVREAVALLDSVGAREEAL 301
Query: 290 EVAEELRAKAKEELDRFKKYGDNVLP----LYSFIDYAADREFS 329
+A R +A+ L +P L +D+ RE++
Sbjct: 302 RLAARYREEAERHLA--------KIPNNGTLKELLDFIVAREYA 337
>3ipi_A Geranyltranstransferase; isoprene biosynthesis, helical bundle,
protein structure initiative II (PSI II), structural
genomics, nysgxrc; 1.90A {Methanosarcina mazei}
Length = 295
Score = 155 bits (393), Expect = 3e-45
Identities = 71/299 (23%), Positives = 125/299 (41%), Gaps = 35/299 (11%)
Query: 50 ITEIDQNLEKAITVKYPEQIYESMRYSVLAKGTKRAPPVMCVAACELFGVNRIAAFPTAC 109
++ ++++IT+ + + + + + G KR P++ + E+ + + A
Sbjct: 11 YRYVEAGIKESITLIEDPGLKKMVEHVCHSGG-KRIRPIILLLVSEICSGSYSRSLNAAL 69
Query: 110 ALEMVHAASLIHDDLPCMDDDPSRRGQPSNHTVYGVDIAILAGDALFPLGFQHIVSHTPP 169
A+EM+H+ASLIHDDL +D RR PS +G A+L GD L I +
Sbjct: 70 AVEMMHSASLIHDDL--LDQGLVRRNLPSAPEKFGPSGALLCGDYLIAKSIAFISPY--- 124
Query: 170 HLVPEPRVLRVIAEIARAVGSTGMAAGQFLDLEGE-PNLVE----FVQEKKFGEMSECSA 224
+V++ + MA G+ LDL+ E + E KK + SA
Sbjct: 125 ----GEKVIQDFGKAGMD-----MAEGEVLDLKLEDESFGENDYFKCIYKKTASLFAISA 175
Query: 225 VCGGFLAGADDDEIQSLRRYGRAVGVLYQVVDDILEAKAQTPRD--EEKK--------KK 274
G + GA+++ + +G A+G YQ+VDDILE + K
Sbjct: 176 SIGAYTGGAEEELAERFSHFGNALGTAYQIVDDILEFLEVVEGKESKFTSETLPHIYMKS 235
Query: 275 KGKSYVAFYGVEKAMEVAEELRAKAKEELDRFKKYGDNVLPLYSFIDYAADREFSVVDS 333
K ++K+++ + A AKE L+ F++ L+ DY ++
Sbjct: 236 TSKE----EALKKSIDCVKLHVAAAKETLETFRECPARDK-LFQITDYITVDMLENLEG 289
>1wmw_A Geranylgeranyl diphosphate synthetase; GGPP, prenyl diphosphate
synthase, structural genom riken structural
genomics/proteomics initiative; 1.55A {Thermus
thermophilus}
Length = 330
Score = 154 bits (392), Expect = 1e-44
Identities = 51/216 (23%), Positives = 84/216 (38%), Gaps = 21/216 (9%)
Query: 53 IDQNLEKAITVKYPEQIYESMRYSVLAKGTKRAPPVMCVAACELFGVNRIAAFPTACALE 112
+ + L + P + ++ G K ++ V + G A A ALE
Sbjct: 12 LQERLLARLDHPDPL-YRDLLQDYPRRGG-KMLRGLLTVYSALAHGAPLEAGLEAATALE 69
Query: 113 MVHAASLIHDDLPCMDDDPSRRGQPSNHTVYGVDIAILAGDALFPLGFQHIVSHTPPHLV 172
+ L+HDD+ D RRG+P+ H ++ + +A+ AGDA+ + + L
Sbjct: 70 LFQNWVLVHDDI--EDGSEERRGRPALHRLHPMPLALNAGDAMHAEMWGLLAEGLARGLF 127
Query: 173 PEPRVLRVIAEIARAVGSTGMAAGQFLDLEGEPNLVEFVQE--------KKFGEMSECSA 224
P P VL E+ R A GQ LDL ++ K + +
Sbjct: 128 P-PEVLLEFHEVVRRT-----AYGQHLDLLWTLGGTFDLRPEDYFRMVAHKAAYYTAVAP 181
Query: 225 V-CGGFLAGADDDEIQSLRRYGRAVGVLYQVVDDIL 259
+ G LAG + G +G +Q+VDD+L
Sbjct: 182 LRLGALLAGKTPPA--AYEEGGLRLGTAFQIVDDVL 215
>3lk5_A Geranylgeranyl pyrophosphate synthase; structural genomics, protein
structure initiative, geranylge pyrophosphate synthase;
1.90A {Corynebacterium glutamicum} PDB: 3qqv_A*
Length = 380
Score = 150 bits (380), Expect = 2e-42
Identities = 52/224 (23%), Positives = 79/224 (35%), Gaps = 38/224 (16%)
Query: 65 YPEQIYESMRYSVLAKGTKRAPPVMCVAACELFG------VNRIAAFPTACALEMVHAAS 118
+R VL G KR P+ A + A +LE + A +
Sbjct: 46 PVTDAVAHLRSFVLNGG-KRIRPLYAWAGFLAAQGHKNSSEKLESVLDAAASLEFIQACA 104
Query: 119 LIHDDLPCMDDDPSRRGQPSNHTV----------------YGVDIAILAGDALFPLGFQH 162
LIHDD+ +D +RRG P+ H +GV ++ILAGD
Sbjct: 105 LIHDDI--IDSSDTRRGAPTVHRAVEADHRANNFEGDPEHFGVSVSILAGDMALVWAEDM 162
Query: 163 IVSHTPPHLVPEPRVLRVIAEIARAVGSTGMAAGQFLDLEGEPNLVEFVQE-------KK 215
+ + + R T + GQ LD+ E + E V+ K
Sbjct: 163 LQDSG----LSAEALARTRDAWRGMR--TEVIGGQLLDIYLESHANESVELADSVNRFKT 216
Query: 216 FGEMSECSAVCGGFLAGADDDEIQSLRRYGRAVGVLYQVVDDIL 259
G +AG I +L YG +G+ +Q+ DD+L
Sbjct: 217 AAYTIARPLHLGASIAGGSPQLIDALLHYGHDIGIAFQLRDDLL 260
>2azj_A Geranylgeranyl pyrophosphate synthetase; hexpps,
trans-prenyltransferase; 2.40A {Sulfolobus solfataricus}
PDB: 2azk_A
Length = 289
Score = 146 bits (370), Expect = 6e-42
Identities = 46/220 (20%), Positives = 89/220 (40%), Gaps = 17/220 (7%)
Query: 40 FDLKTYWTTLITEIDQNLEKAITVKYPEQIYESMRYSVLAKGTKRAPPVMCVAACELFGV 99
+ +W ID+ +E+ + + + Y + K KR + + G
Sbjct: 9 MSIIEFWLEAKATIDRLIEQFLNSNRDWDLVDISSY--ILKDGKRFRGTLNMFFTVALGG 66
Query: 100 NRIAAFPTACALEMVHAASLIHDDLPCMDDDPSRRGQPSNHTVYGVDIAILAGDALFPLG 159
+ ++ A A+E++H+ASL D+ +D D +RRG + VYG I + L P
Sbjct: 67 DIKDSYGGALAIEILHSASLALCDI--VDLDATRRGDKAAWVVYGNRKVIFITNYLIPTA 124
Query: 160 FQHIVSHTPPHLVPEPRVLRVIAEIARAVGSTGMAAGQFLDLEGEPNLVEFVQEKKFGEM 219
+ I + L E+ + + G D+ + + E K G +
Sbjct: 125 LRIIQT------SYGDDALNTSIELWKD-----TSVGALRDMYDNSDYIR-TIELKTGSL 172
Query: 220 SECSAVCGGFLAGADDDEIQSLRRYGRAVGVLYQVVDDIL 259
+ S V + + + Q + G+ +G++YQV+DD +
Sbjct: 173 FKLSTVLSAYASKH-YNTKQQMLDVGKYLGIIYQVIDDFV 211
>3aqb_B Component B of hexaprenyl diphosphate synthase; prenyltransferase,
transferase; 2.40A {Micrococcus luteus} PDB: 3aqc_B*
Length = 325
Score = 141 bits (359), Expect = 7e-40
Identities = 64/328 (19%), Positives = 120/328 (36%), Gaps = 65/328 (19%)
Query: 50 ITEIDQNLEKAITVKYPEQIYESMRYSVLAKGTKRAPPVMCVAACELFGVNRIAAFPTAC 109
I E+++ L + I I ++ + + + G KR P+ + + L + TA
Sbjct: 14 IIEVEKRLYECIQSDSET-INKAAHHILSSGG-KRVRPMFVLLSGFLNDTQKDDLIRTAV 71
Query: 110 ALEMVHAASLIHDDLPCMDDDPSRRGQPSNHTVYGVDIAILAGDALFPLGFQHIVSHTPP 169
+LE+VH ASL+HDD +D+ RRG S H + D AI G L Q+I +
Sbjct: 72 SLELVHMASLVHDDY--IDNSDMRRGNTSVHIAFDKDTAIRTGHFLLARALQNIAT---- 125
Query: 170 HLVPEPRVLRVIAEIARAVGSTGMAAGQFLDLE--GEPNLVE----FVQEKKFGEMSECS 223
+ + ++ ++ + G+F + + +K + E S
Sbjct: 126 --INNSKFHQIFSKTILE-----VCFGEFDQMADRFNYPVSFTAYLRRINRKTAILIEAS 178
Query: 224 AVCGGFLAGADDDEIQSLRRYGRAVGVLYQVVDDIL------------------EAKA-- 263
G + D+ ++++G +G+ YQ++DDIL
Sbjct: 179 CHLGALSSQLDEQSTYHIKQFGHCIGMSYQIIDDILDYTSDEATLGKPVGSDIRNGHITY 238
Query: 264 ------QTPRDEEKKK-----KKGKS------------YVAFYGVEKAMEVAEELRAKAK 300
++++ K K S V YG+E A ++ + KAK
Sbjct: 239 PLMAAIANLKEQDDDKLEAVVKHLTSTSDDEVYQYIVSQVKQYGIEPAELLSRKYGDKAK 298
Query: 301 EELDRFKKYGDNVLPLYSFIDYAADREF 328
L + + + L + R +
Sbjct: 299 YHLSQLQD-SNIKDYLEEIHEKMLKRVY 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 = 140 bits (354), Expect = 2e-39
Identities = 54/289 (18%), Positives = 98/289 (33%), Gaps = 67/289 (23%)
Query: 66 PEQIYESMRYSVLAKGTKRAPPVMCVAACELFGVNRIAAFPTACALEMVHAASLIHDDLP 125
+ E +Y + G K+ + A V EM+H ASL+ DD+
Sbjct: 10 QRILLEPYKYLLQLPG-KQVRTKLSQAFNHWLKVPEDKLQIIIEVTEMLHNASLLIDDI- 67
Query: 126 CMDDDPSRRGQPSNHTVYGVDIAILAGDALFPLGFQHIVSHTPPHLVPEPRVLRVIAEIA 185
D+ RRG P H++YG+ I + + ++ LG + +++ + P +++
Sbjct: 68 -EDNSKLRRGFPVAHSIYGIPSVINSANYVYFLGLEKVLT------LDHPDAVKLFTRQL 120
Query: 186 RAVGSTGMAAGQFLDLEGEPNLV-----EFVQ--EKKFGEMSECSAVCGGFLAGADDDEI 238
+ GQ LD+ N E+ +K G + + + +D
Sbjct: 121 LE-----LHQGQGLDIYWRDNYTCPTEEEYKAMVLQKTGGLFGLAVGLMQLFSDYKED-- 173
Query: 239 QSLRRYGRAVGVLYQVVDDIL------------------EAK------------------ 262
L+ +G+ +Q+ DD E K
Sbjct: 174 --LKPLLNTLGLFFQIRDDYANLHSKEYSENKSFCEDLTEGKFSFPTIHAIWSRPESTQV 231
Query: 263 ----AQTPRDEEKKKKKGKSYVAFYG-VEKAMEVAEELRAKAKEELDRF 306
Q + + KK Y+ G E +EL AKA +++D
Sbjct: 232 QNILRQRTENIDIKKY-CVHYLEDVGSFEYTRNTLKELEAKAYKQIDAR 279
>3mzv_A Decaprenyl diphosphate synthase; transferase, structural genomics,
PSI-2, protein structure initiative; 1.90A {Rhodobacter
capsulatus}
Length = 341
Score = 139 bits (353), Expect = 6e-39
Identities = 71/346 (20%), Positives = 130/346 (37%), Gaps = 63/346 (18%)
Query: 29 VSAASQLRSTQFDLKTYWTTLITEIDQNLEKAITVKYPEQIYESMRYSVLAKGTKRAPPV 88
+S + L + ++ + + ++ ++ +I E + + A G KR P+
Sbjct: 1 MSLDDKATKPHDRLAQALAEDMAAVNALIRERMSSEHAPRIPEVTAHLIEAGG-KRLRPM 59
Query: 89 MCVAACELFGVNRIAAFPTACALEMVHAASLIHDDLPCMDDDPSRRGQPSNHTVYGVDIA 148
+ +AA L G A +E +H A+L+HDD+ +D+ RRG+P+ + ++ +
Sbjct: 60 LTLAAARLVGYGGPFHVHLAATVEFIHTATLLHDDV--VDESRQRRGRPTANLLWDNKSS 117
Query: 149 ILAGDALFPLGFQHIVSHTPPHLVPEPRVLRVIAEIARAVGSTGMAAGQFLDLE--GEPN 206
+L GD LF FQ + RV+ ++A + +A G+ L L
Sbjct: 118 VLVGDYLFARSFQLMTD------TGNMRVMEILANASAV-----IAEGEVLQLTAAQNLA 166
Query: 207 LVE----FVQEKKFGEMSECSAVCGGFLAGADDDEIQSLRRYGRAVGVLYQVVDDIL--- 259
E V K + + GG + GA +D++Q+L YG A+G+ +Q+VDD+L
Sbjct: 167 TTEDIYLRVIRGKTAALFSAATEVGGIIGGAPEDQVQALFDYGDALGIAFQIVDDLLDYG 226
Query: 260 ---------------EAKA--------QTPRDEEKK------KKKGKSYVAFY------- 283
E K + E+ +K +
Sbjct: 227 GKSAEIGKNTGDDFRERKLTMPVIKAVALADEAERAFWKRVIEKGDQQDGDLEHAMALMT 286
Query: 284 ---GVEKAMEVAEELRAKAKEELDRFKKYGDNVLPLYSFIDYAADR 326
+E A A++ L + L DY +R
Sbjct: 287 KHGTLEATRLAAIGWTDTARKALAKLPD-HPLRQMLDDLADYVVER 331
>3oyr_A Trans-isoprenyl diphosphate synthase; isoprenyl synthase, PSI,
protein structure initiative; HET: IPE; 2.00A
{Caulobacter crescentus}
Length = 345
Score = 138 bits (351), Expect = 2e-38
Identities = 73/327 (22%), Positives = 131/327 (40%), Gaps = 68/327 (20%)
Query: 50 ITEIDQNLEKAITVKYPEQIYESMRYSVLAKGTKRAPPVMCVAACELFGVNRIAAFPTAC 109
+ +++ + + I + + A G KR P+M VAA L G + A
Sbjct: 35 MAGVNRLITDRMQSDVA-IIPALAEHLIAAGG-KRLRPLMTVAAARLAGADNDHFQKLAA 92
Query: 110 ALEMVHAASLIHDDLPCMDDDPSRRGQPSNHTVYGVDIAILAGDALFPLGFQHIVSHTPP 169
A+E +H A+L+HDD+ +D RRG+ + H ++G ++L GD LF F+ +V
Sbjct: 93 AVEFIHTATLLHDDV--VDGSQLRRGKVAAHLIWGGAQSVLVGDFLFARAFELMVE---- 146
Query: 170 HLVPEPRVLRVIAEIARAVGSTGMAAGQFLDLE--GEPNLVE----FVQEKKFGEMSECS 223
+ L ++A +R +A G+ L L + NL + + + K E+ +
Sbjct: 147 --TNSMKALEILARASRV-----IAEGEVLQLMRSHDLNLSQAVYLEIIQAKTAELFAAA 199
Query: 224 AVCGGFLAGADDDEIQSLRRYGRAVGVLYQVVDDIL------------------EAKA-- 263
+ G AG D + ++LR YG +G+ +Q+ DD L E KA
Sbjct: 200 SEAGAVSAGVDVAKSEALRDYGLNLGLAFQLADDALDYGGATETLGKNAGDDFREGKATL 259
Query: 264 ------QTPRDEEKK------KKKGKSYVAFY----------GVEKAMEVAEELRAKAKE 301
E + ++ ++ F ++ +++A + KAK
Sbjct: 260 PLLLAIARSGPREAEFWERAIGRREQTEADFRRARELIIGSGALDATLDLAADYADKAKA 319
Query: 302 ELDRFK--KYGDNVLPLYSFIDYAADR 326
L F + + L D+A R
Sbjct: 320 ALAMFPANDWREA---LEELADFAVSR 343
>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 = 138 bits (349), Expect = 2e-38
Identities = 52/322 (16%), Positives = 100/322 (31%), Gaps = 71/322 (22%)
Query: 66 PEQIYESMRYSVLAKGTKRAPPVMCVAACELFGVNRIAAFPTACALEMVHAASLIHDDLP 125
I + + +L K K + V + + + + +E++H +SL+ DD+
Sbjct: 25 ESLISKPYNH-ILLKPGKNFRLNLIVQINRVMNLPKDQLAIVSQIVELLHNSSLLIDDI- 82
Query: 126 CMDDDPSRRGQPSNHTVYGVDIAILAGDALFPLGFQHIVSHTPPHLVPEPRVLRVIAEIA 185
D+ P RRGQ ++H ++GV I + ++ Q + T ++ + E
Sbjct: 83 -EDNAPLRRGQTTSHLIFGVPSTINTANYMYFRAMQLVSQLTTKE-PLYHNLITIFNEEL 140
Query: 186 RAVGSTGMAAGQFLDLEGEPNLVEF---------VQEKKFGEMSECSAVCGGFLAGADDD 236
+ GQ LD+ L E + K G + + L+ +
Sbjct: 141 IN-----LHRGQGLDIYWRDFLPEIIPTQEMYLNMVMNKTGGLFRLTLRLMEALSPS-SH 194
Query: 237 EIQSLRRYGRAVGVLYQVVDDIL------------------EAK---------------- 262
SL + +G++YQ+ DD L E K
Sbjct: 195 HGHSLVPFINLLGIIYQIRDDYLNLKDFQMSSEKGFAEDITEGKLSFPIVHALNFTKTKG 254
Query: 263 ------------AQTPRDEEKKKKKGKSYVAFYG-VEKAMEVAEELRAKAKEELDR---- 305
D++ K K + + +L K + +
Sbjct: 255 QTEQHNEILRILLLRTSDKDIKLKLIQILEFDTNSLAYTKNFINQLVNMIKNDNENKYLP 314
Query: 306 -FKKYGDNVLPLYSFIDYAADR 326
+ D L+ + Y D
Sbjct: 315 DLASHSDTATNLHDELLYIIDH 336
>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 = 137 bits (348), Expect = 3e-38
Identities = 67/324 (20%), Positives = 115/324 (35%), Gaps = 61/324 (18%)
Query: 50 ITEIDQNLEKAITVKYPEQIYESMRYSVLAKGTKRAPPVMCVAACELFG-VNRIAAFPTA 108
+T + L + + + I+ + + + G K P A
Sbjct: 25 LTALQDYLLRTVQLDNQP-IHHKILALLKSGG-KLLRPGYFYLFSTFGNAATPAQLQAGA 82
Query: 109 CALEMVHAASLIHDDLPCMDDDPSRRGQPSNHTVYGVDIAILAGDALFPLGFQHIVSHTP 168
A+E++H +LIHDD+ +DD P+RRG + YG AI AGD +F + F ++ T
Sbjct: 83 AAIEILHVGTLIHDDV--IDDSPTRRGVRTIQMTYGQRNAIYAGDFMFTVYFDQVLKSTT 140
Query: 169 PHLVPEPRVLRVIAEIARAVGSTGMAAGQFLDLEGEPNLVEFVQE------KKFGEMSEC 222
+ +++ + + G+ ++ + K E+
Sbjct: 141 -----DRSLIQNHIDAMHR-----ILQGELHQMDLNYREDITLDAYLNEIAGKTAELFAL 190
Query: 223 SAVCGGFLAGADDDEIQSLRRYGRAVGVLYQVVDDILE---------------------- 260
S G LAGA I R G A+G YQ++DDIL+
Sbjct: 191 SCYQGAQLAGAPQSVIDRTRDIGIAIGCAYQMLDDILDYAGDPKRTQKPVLEDLRSGVYS 250
Query: 261 -----AKAQTPRDEEKKKKKGKS-----------YVAFYG-VEKAMEVAEELRAKAKEEL 303
+ + PRD K KK ++ VA Y V A ++A++ +A +
Sbjct: 251 LPLLLSLSHAPRDFHKLLKKKQAMTLEDIKHVQALVAQYDGVGAAKQLAQDYTDRALTLI 310
Query: 304 DRFKKYGDNVLPLYSFIDYAADRE 327
+ G L R+
Sbjct: 311 QQLPV-GSAQQSLEQLTRLLLRRD 333
>3rmg_A Octaprenyl-diphosphate synthase; structural genomics, protein
structure initiative, isoprene biosynthesis,
transferase; 2.30A {Bacteroides thetaiotaomicron}
Length = 334
Score = 134 bits (340), Expect = 4e-37
Identities = 63/327 (19%), Positives = 117/327 (35%), Gaps = 67/327 (20%)
Query: 50 ITEIDQNLEKAITVKYPEQIYESMRYSVLAKGTKRAPPVMCVAACELFGVNRIAAFPTAC 109
+ + + ++ + + + G K P++ + L+G A A
Sbjct: 17 LEDFKALFDTPLSDSNAL-LDSVITHIRKRNG-KMMRPILVLLVARLYGAVTPATLHAAV 74
Query: 110 ALEMVHAASLIHDDLPCMDDDPSRRGQPSNHTVYGVDIAILAGDALFPLGFQHIVSHTPP 169
+LE++H ASL+HDD+ +D+ RRGQ S + ++ +++LAGD L H
Sbjct: 75 SLELLHTASLVHDDV--VDESTERRGQLSVNAIFNNKVSVLAGDYLLATSLVHAEQ---- 128
Query: 170 HLVPEPRVLRVIAEIARAVGSTGMAAGQFLDLE--GEPNLVE----FVQEKKFGEMSECS 223
++R+++ + + +A G+ L L + E V KK +
Sbjct: 129 --TNNYEIIRLVSSLGQK-----LAEGELLQLSNVSNHSFSEEVYFDVIRKKTAALFAAC 181
Query: 224 AVCGGFLAGADDDEIQSLRRYGRAVGVLYQVVDDIL-----------------EAKA--- 263
A ++E+ R G +G+ +Q+ DDI E K
Sbjct: 182 AEAAALSVQVGEEEVAFARLLGEYIGICFQIKDDIFDYFDSKKIGKPTGNDMLEGKLTLP 241
Query: 264 -----QTPRDEEKK------KKKGKSYVAFY----------GVEKAMEVAEELRAKAKEE 302
T +D + K+ + G+E A E+ + KA +
Sbjct: 242 ALYALNTTKDAWAEQIAFKVKEGTATPDEIVRLIEFTKDNGGIEYACRTIEQYKKKAFDL 301
Query: 303 LDRFK--KYGDNVLPLYSFIDYAADRE 327
L L +++DY RE
Sbjct: 302 LAALPDSNICLA---LRTYLDYVVARE 325
>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 = 134 bits (340), Expect = 6e-37
Identities = 73/355 (20%), Positives = 123/355 (34%), Gaps = 78/355 (21%)
Query: 26 SLPVSAASQLRSTQFDLKTYWTTLITEIDQNLEKAITVKYPEQIYESMRYSVLAKGTKRA 85
+ + ASQ+ +L + ++++ L ++ + + + + A G KR
Sbjct: 20 GVSTTGASQVEFGDPELTARINDAMVQVEELLHTELSSGEDF-LVDIVMHLTRAGG-KRF 77
Query: 86 PPVMCVAACELFGVNRI-AAFPTACALEMVHAASLIHDDLPCMDDDPSRRGQPSNHTVYG 144
P+ + A E A +E+ H A+L HDD+ MD+ RRG PS + +
Sbjct: 78 RPMFALLASEFGEKPLSENVIKAAVVVEITHLATLYHDDV--MDEASMRRGVPSANARWD 135
Query: 145 VDIAILAGDALFPLGFQHIVSHTPPHLVPEPRVLRVIAEIARAVGSTGMAAGQFLDLEG- 203
+AILAGD L + + AE + GQ + G
Sbjct: 136 NSVAILAGDILLAHASGLMSQL-------GTDTVAHFAETFGE-----LVTGQMRETVGP 183
Query: 204 -EPNLVEF---VQEKKFGEMSECSAVCGGFLAGADDDEIQSLRRYGRAVGVLYQVVDDIL 259
+ + +E V +K G + + G AGA + I +L+ +G AVG+++Q+VDDI+
Sbjct: 184 RDTDPIEHYTNVIREKTGVLIASAGYLGAMHAGAAPEHIDALKNFGAAVGMIFQIVDDII 243
Query: 260 ------------------EAKA----------QTPRDEE-----KKKKKGKSYVAFY--- 283
E TP E + V
Sbjct: 244 DIFSETHESGKTPGTDLREGVFTLPVLYALREDTPVGAELRDILTGPLEDDETVNHVLEL 303
Query: 284 -----GVEKAMEVAEELRAKAKEELDRFKKYGDNVLP-------LYSFIDYAADR 326
G + A++ A ELD LP L + + R
Sbjct: 304 LSQSGGRQAALDEVYRYMDIANAELD--------RLPDSTVKEALRNLATFTVKR 350
>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 = 134 bits (338), Expect = 1e-36
Identities = 48/290 (16%), Positives = 100/290 (34%), Gaps = 46/290 (15%)
Query: 41 DLKTYWTTLITEI-DQNLEKAITVKYPEQIYESMRYSVLAKGTKRAPPVMCVAACELFG- 98
+ ++ ++ ++ + + ++ E ++Y+ G K + VAA
Sbjct: 30 EFVGFFPQIVRDLTEDGIGHPEVGDAVARLKEVLQYNAP--GGKCNRGLTVVAAYRELSG 87
Query: 99 ------VNRIAAFPTACALEMVHAASLIHDDLPCMDDDPSRRGQPSNHTVYGVDIAILAG 152
+ A +E+ AASL+ DD+ MD +RRGQ + GV + +
Sbjct: 88 PGQKDAESLRCALAVGWCIELFQAASLVADDI--MDQSLTRRGQLCWYKKEGVGLDAIND 145
Query: 153 DALFPLGFQHIVSHTPPHLVPEPRVLRVIAEIARAVGSTGMAAGQFLDL----EGEPNLV 208
L ++ + P + ++ + + GQ LDL + +L
Sbjct: 146 SFLLESSVYRVLKK---YCRQRPYYVHLLELFLQT--AYQTELGQMLDLITAPVSKVDLS 200
Query: 209 EFVQEK-------KFGEMSECSAVCGG--FLAGADDDEIQSLRRYGRAVGVLYQVVDDIL 259
F +E+ K S V + +E ++ + +G +Q+ DD L
Sbjct: 201 HFSEERYKAIVKYKTAFYSFYLPVAAAMYMVGIDSKEEHENAKAILLEMGEYFQIQDDYL 260
Query: 260 EAKAQTPRDEEKKKKKG-------KSYVAFYGVEKAMEVA-EELRAKAKE 301
+ D G S++ V + ++ E R ++
Sbjct: 261 DCFG----DPALTGAVGTDIQDNKCSWL----VVQCLQRVTPEQRQLLED 302
>3tc1_A Octaprenyl pyrophosphate synthase; all alpha-helices fold,
transferase; 2.00A {Helicobacter pylori}
Length = 315
Score = 130 bits (329), Expect = 1e-35
Identities = 51/325 (15%), Positives = 101/325 (31%), Gaps = 69/325 (21%)
Query: 50 ITEIDQNLEKAITVKYPEQIYESMRYSVLAKGTKRAPPVMCVAACELFGVNRIAAFPTAC 109
+ I + I I E +K R+ ++ + + + A
Sbjct: 6 LKAIQNKIASWIKEIESGFIDELFSKIGPSKM-LRSKLMLALLNEKTDAILLDKALNLCT 64
Query: 110 ALEMVHAASLIHDDLPCMDDDPSRRGQPSNHTVYGVDIAILAGDALFPLGFQHIVSHTPP 169
+EM+ ASL+HDD+ +D RR PS + ++G A++ GD + F +
Sbjct: 65 IVEMIQTASLLHDDV--IDKATMRRKLPSINALFGNFNAVMLGDVFYSKAFFELSKM--- 119
Query: 170 HLVPEPRVLRVIAEIARAVGSTGMAAGQFLDLE--GEPNLVE----FVQEKKFGEMSECS 223
+ + ++ ++ G+ D+ N + + E K E S
Sbjct: 120 ----GELIAQALSNAVLR-----LSRGEIEDVFVGECFNSDKQKYWRILEDKTAHFIEAS 170
Query: 224 AVCGGFLAGADDDEIQSLRRYGRAVGVLYQVVDDIL------------------EAKA-- 263
L D + +G G+ +Q++DD+L E K
Sbjct: 171 LKSMAILLNKD---AKIYADFGLNFGMAFQIIDDLLDITQDAKTLGKPNFSDFKEGKTTL 227
Query: 264 ------QTPRDEEKK------KKKGKSYVAFY--------GVEKAMEVAEELRAKAKEEL 303
+ ++ K+ + + +E+ ++ A+ KA E +
Sbjct: 228 PYLLLYEKLNQHDQGLLISYFKQDSHEIIEWTKEKFKQYGIIEETLKTAQVYSKKALEAI 287
Query: 304 DRFKKYGDNVLPLYSFIDYAADREF 328
L R F
Sbjct: 288 KGENNLI-----LEKLAQDVISRTF 307
>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 = 130 bits (329), Expect = 4e-35
Identities = 44/267 (16%), Positives = 82/267 (30%), Gaps = 50/267 (18%)
Query: 49 LITEIDQNLEKAITVKYPEQIYESMRYSVLAKGTKRAPPVMCVAACELFG------VNRI 102
++ +++ + ++ + Y+ + G K ++ + E
Sbjct: 47 FLSHLNEYSLEEEIKEHISKYYKLLFDYNCLGG-KNNRGILVILIYEYVKNRDINSSEWE 105
Query: 103 AAFPTACALEMVHAASLIHDDLPCMDDDPSRRGQPSNHTVYGVDIAILAGDALFPLGFQH 162
A A +E++ AA L+ DD+ MD RR + + + V+ D L +
Sbjct: 106 KAACLAWCIEILQAAFLVADDI--MDKGEMRRNKYCWYLLKDVETKNAVNDVLLLYNSIY 163
Query: 163 IVSHTPPHLVPEPRVLRVIAEIARAVGSTGMAAGQFLDLEGE------------------ 204
+ +L E + VIA A T GQ LD
Sbjct: 164 KLIEI--YLRNESCYVDVIATFRDATLKT--IIGQHLDTNIFSDKYSDAHREIDVNNINV 219
Query: 205 -----PNLVEF-------VQEKKFGEMSECSAVCGGFLAG---ADDDEIQSLRRYGRAVG 249
++ + K S + G L D+ + + +G
Sbjct: 220 PEQPVIDINMINFGVYKNIVIHKTAYYSFFLPIVCGMLLAGIAVDNLIYKKIEDISMLMG 279
Query: 250 VLYQVVDDILEAKAQTPRDEEKKKKKG 276
+Q+ DD L+ D K K G
Sbjct: 280 EYFQIHDDYLDIFG----DSTKTGKVG 302
>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 = 130 bits (328), Expect = 4e-35
Identities = 50/255 (19%), Positives = 83/255 (32%), Gaps = 28/255 (10%)
Query: 25 SSLPVSAASQLRSTQFDLKTYWTTLITEIDQNLEK-----AITVKYPEQIYESMRYSVLA 79
SS + Q D Y+ + L+K I E + Y+V
Sbjct: 11 SSGRENLYFQGEYDYTDFINYYDKFKVIVYNVLKKLPLNDEIRKPVIEYYLNCIDYNV-- 68
Query: 80 KGTKRAPPVMCVAACELFG----VNRIAAFPTACALEMVHAASLIHDDLPCMDDDPSRRG 135
K K + V L + R + + +E + A LI DD+ MD RRG
Sbjct: 69 KKGKHIRGKILVLISSLSSAYSNIKRDSIYLLGWVVEAIQALILIADDI--MDSGKFRRG 126
Query: 136 QPSNHTVYGVDIAILAGDALFPLGFQHIVSHTPPHLVPEPRVLRVIAEIARAVGSTGMAA 195
P + V+G AI L L I + + V+++ ++ T +
Sbjct: 127 APCWYIVHGQSNAINDIFFLKMLSLSLIFELS--SVFGNDIVMKIQKIYNESIFFTVL-- 182
Query: 196 GQFLDLEGEPNLVEFVQEKKFGEM---------SECSAVCGGFLAG--ADDDEIQSLRRY 244
GQ LDL +++ M G L+ ++ +
Sbjct: 183 GQHLDLSYFDLSKADKISERYFSMVEMKTSRYTFYMPVFFGLTLSEIQVSSAQLNLIEAI 242
Query: 245 GRAVGVLYQVVDDIL 259
+G YQV +D+
Sbjct: 243 LYKLGEFYQVHNDVS 257
>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 = 128 bits (323), Expect = 2e-34
Identities = 41/255 (16%), Positives = 75/255 (29%), Gaps = 43/255 (16%)
Query: 41 DLKTYWTTLITEIDQNLEKAI-TVKYPEQIYESMRYSVLAKGTKRAPPVMCVAACELFGV 99
+ + + + L+ + M + G K + V E F
Sbjct: 6 RFLSVYDEVQAFLLDQLQSKYEIDPNRARYLRIMMDTTCLGG-KYFRGMTVVNVAEGFLA 64
Query: 100 NR-----------IAAFPTACALEMVHAASLIHDDLPCMDDDPSRRGQPSNHTVYGVDIA 148
A +E + A L+ DD+ MD RRG+P + GV
Sbjct: 65 VTQHDEATKERILHDACVGGWMIEFLQAHYLVEDDI--MDGSVMRRGKPCWYRFPGVTTQ 122
Query: 149 ILAGDALFPLGFQHIVSHTPPHLVPEPRVLRVIAEIARAVGSTGMAAGQFLDL----EGE 204
D + + I++ + P + ++ + +T A GQ D+ +
Sbjct: 123 CAINDGIILKSWTQIMAWH--YFADRPFLKDLLCLFQKVDYAT--AVGQMYDVTSMCDSN 178
Query: 205 PNLVEFVQEKKFGEMS-------------------ECSAVCGGFLAGADDDE-IQSLRRY 244
E Q V G F++ A + + R
Sbjct: 179 KLDPEVAQPMTTDFAEFTPAIYKRIVKYKTTFYTYLLPLVMGLFVSEAAASVEMNLVERV 238
Query: 245 GRAVGVLYQVVDDIL 259
+G +QV DD++
Sbjct: 239 AHLIGEYFQVQDDVM 253
>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 = 123 bits (311), Expect = 1e-32
Identities = 43/241 (17%), Positives = 88/241 (36%), Gaps = 32/241 (13%)
Query: 41 DLKTYWTTLITEIDQNLEKAITVK-YPEQIYESMRYSVLAKGTKRAPPVMCVAACELFGV 99
D +++ ++ + ++ + ++ E + Y+ + G K + V A
Sbjct: 37 DFVQHFSQIVRVLTEDEMGHPEIGDAIARLKEVLEYNAI--GGKYNRGLTVVVAFRELVE 94
Query: 100 NRI-------AAFPTACALEMVHAASLIHDDLPCMDDDPSRRGQPSNHTVYGVD-IAILA 151
R A+ +E++ A L+ DD+ MD +RRGQ + GV AI
Sbjct: 95 PRKQDADSLQRAWTVGWCVELLQAFFLVADDI--MDSSLTRRGQICWYQKPGVGLDAIND 152
Query: 152 GDALFPLGFQHIVSHTPPHLVPEPRVLRVIAEIARAVGSTGMAAGQFLDL----EGEPNL 207
+ L ++ + + ++ + + + GQ LDL +G +L
Sbjct: 153 ANLLEACIYRLLKLYCREQPYY-LNLIELFLQSSYQT-----EIGQTLDLLTAPQGNVDL 206
Query: 208 VEFVQEK-------KFGEMSECSAVCGGFLAGADDDE--IQSLRRYGRAVGVLYQVVDDI 258
V F +++ K S + D E + ++ +G +Q+ DD
Sbjct: 207 VRFTEKRYKSIVKYKSAFYSFYLPIAAAMYMAGIDGEKEHANAKKILLEMGEFFQIQDDY 266
Query: 259 L 259
L
Sbjct: 267 L 267
>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 = 122 bits (307), Expect = 5e-32
Identities = 39/277 (14%), Positives = 77/277 (27%), Gaps = 49/277 (17%)
Query: 25 SSLPVSAASQLRSTQFDLKTYWTTLITEIDQNLEKAITV-KYPEQIYESMRYSVLAKGTK 83
S L + + + + + LE + + M + G K
Sbjct: 12 SGLVPRGSHMASMPMQMFMQVYDEIQMFLLEELELKFDMDPNRVRYLRKMMDTTCLGG-K 70
Query: 84 RAPPVMCVAACELFGVNRI-----------------AAFPTACALEMVHAASLIHDDLPC 126
+ + E A +E + A L+ DD+
Sbjct: 71 YNRGLTVIDVAESLLSLSPNNNGEEDDGARRKRVLHDACVCGWMIEFLQAHYLVEDDI-- 128
Query: 127 MDDDPSRRGQPSNHTVYGVDIAILAGDALFPLGFQHIVSHTPPHLVPEPRVLRVIAEIAR 186
MD+ +RRG+P + V + D L + H+++ P + ++ R
Sbjct: 129 MDNSVTRRGKPCWYRHPDVTVQCAINDGLLLKSWTHMMAMH--FFADRPFLQDLLCRFNR 186
Query: 187 AVGSTGMAAGQFLDLEGEPNLVEFVQEKKFGE-----------------------MSECS 223
+T A GQ D+ + + +
Sbjct: 187 VDYTT--AVGQLYDVTSMFDSNKLDPDVSQPTTTDFAEFTLSNYKRIVKYKTAYYTYLLP 244
Query: 224 AVCGGFLAGADDDE-IQSLRRYGRAVGVLYQVVDDIL 259
V G ++ A + +G +QV DD++
Sbjct: 245 LVMGLIVSEALPTVDMGVTEELAMLMGEYFQVQDDVM 281
>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 = 116 bits (294), Expect = 1e-30
Identities = 54/317 (17%), Positives = 114/317 (35%), Gaps = 66/317 (20%)
Query: 33 SQLRSTQFDLKTYWTTLITEIDQNLEKAITVKYPEQIYESMRYSVLAKGTKRAPPVMCVA 92
++L ++L+ ++ + +E+ ++ + E + + G K + +
Sbjct: 4 NKLNQNSYELE--------KVKERIEQILS----QFFPEQIMKDLPLYG-KMLRVRLSIL 50
Query: 93 ACELFGVNRI-AAFPTACALEMVHAASLIHDDLPCMDDDPSRRGQPSNHTVYGVDIAILA 151
+ + GV A + ALE+VH ASL+HDD+ +D RRG+ + + +YG A+ A
Sbjct: 51 SFKNRGVEIGEDAISSLAALELVHLASLLHDDV--IDGARFRRGKETINFMYGDKAAVAA 108
Query: 152 GDALFPLGFQHIVSHTPPHLVPEPRVLRVIAEIARAVGSTGMAAGQFLDLE--GEPNLVE 209
GD + F + + ++ R + M+ + ++ +P E
Sbjct: 109 GDLVLVSAFHTVEE------IGNNKLRRAFLNVIGK-----MSEAELIEQLSRYKPITKE 157
Query: 210 ---FVQEKKFGEMSECSAVCGGFLAGADDDEIQSLRRYGRAVGVLYQVVDDIL------- 259
+ E K G + + L G + L G +G +YQ+ DDI+
Sbjct: 158 EYLRIVEGKSGALFGLALQLPALLEGE---LGEDLYNLGVTIGTIYQMFDDIMDFAGMEK 214
Query: 260 ----------EAK---------AQTPRDEEKKKKKGKSYVAFY-----GVEKAMEVAEEL 295
+ P + + + S + + +++ E + L
Sbjct: 215 IGKDGFLDLKNGVASFPLVTAMEKFPEARQMFENRDWSGLMSFMREKGILKECEETLKVL 274
Query: 296 RAKAKEELDRFKKYGDN 312
E + + D
Sbjct: 275 VKNVIIENSWLRDFVDG 291
>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 = 114 bits (287), Expect = 2e-29
Identities = 56/318 (17%), Positives = 106/318 (33%), Gaps = 75/318 (23%)
Query: 50 ITEIDQNLEKAITVKYPEQIYESMRYSVLAKGT-KRAPPVMCVAACELFGVNRIAAFPT- 107
++ + L + + + P+ + + Y K+ + + V A
Sbjct: 18 LSLLSNKLREMVLAEVPK-LASAAEYFFKRGVQGKQFRSTILLLMATALDVRVPEALIGE 76
Query: 108 ----------------ACALEMVHAASLIHDDLPCMDDDPSRRGQPSNHTVYGVDIAILA 151
A EM+H ASL+HDD+ +DD +RRG S + V G +++LA
Sbjct: 77 STDIVTSELRVRQRGIAEITEMIHVASLLHDDV--LDDADTRRGVGSLNVVMGNKMSVLA 134
Query: 152 GDALFPLGFQHIVSHTPPHLVPEPRVLRVIAEIARAVGSTGMAAGQFLDLEGEPNLVEFV 211
GD L + + + V+ ++A + G+ +++ +
Sbjct: 135 GDFLLSRACGALAA------LKNTEVVALLATA-----VEHLVTGETMEITSSTEQRYSM 183
Query: 212 QE------KKFGEMSECSAVCGGFLAGADDDEIQSLRRYGRAVGVLYQVVDDILE----- 260
K + S L G + YGR +G+ +Q++DDIL+
Sbjct: 184 DYYMQKTYYKTASLISNSCKAVAVLTGQTAEVAVLAFEYGRNLGLAFQLIDDILDFTGTS 243
Query: 261 ----------------------AKAQTPRDEE--KKKKKGKSYVAF--------YGVEKA 288
A + P+ E + +K V G+++A
Sbjct: 244 ASLGKGSLSDIRHGVITAPILFAMEEFPQLREVVDQVEKDPRNVDIALEYLGKSKGIQRA 303
Query: 289 MEVAEELRAKAKEELDRF 306
E+A E A +
Sbjct: 304 RELAMEHANLAAAAIGSL 321
>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 = 52.0 bits (124), Expect = 2e-07
Identities = 48/234 (20%), Positives = 80/234 (34%), Gaps = 55/234 (23%)
Query: 72 SMRYSVLAKGTKRA----PPVMCVAACEL---FGVNRIAAFPT---------ACALEMV- 114
S R L+ G+ P A +L F N+I PT E+V
Sbjct: 5 STRPLTLSHGSLEHVLLVPTASFFIASQLQEQF--NKILPEPTEGFAADDEPTTPAELVG 62
Query: 115 ----HAASLIHDDLPCMDDDPSRRGQPS---NHTVYGVDIAILAGDALFPLGFQH-IVSH 166
+ +SL+ +PS+ GQ N + + L G+ + H + +
Sbjct: 63 KFLGYVSSLV---------EPSKVGQFDQVLNLCLTEFENCYLEGNDI------HALAAK 107
Query: 167 TPPHLVPEPRVLRVIAEIARAVGSTGMAAGQFLDLEGEPNLVEFVQEKKFGEMSECSAVC 226
L E+ + + + A + D + L V E + A+
Sbjct: 108 LLQE---NDTTLVKTKELIKNYITARIMAKRPFDKKSNSALFRAVGEGNAQLV----AIF 160
Query: 227 GGFLAGADD---DEIQSL-RRYGRAVGVLYQVVDDILEAKAQTPRDEEKKKKKG 276
GG G D +E++ L + Y VG L + + L +T D EK +G
Sbjct: 161 GGQ--GNTDDYFEELRDLYQTYHVLVGDLIKFSAETLSELIRTTLDAEKVFTQG 212
Score = 50.8 bits (121), Expect = 4e-07
Identities = 62/383 (16%), Positives = 115/383 (30%), Gaps = 106/383 (27%)
Query: 13 CVCLPRKFPVRCSSLPVSAASQLRST-------Q------FD-LKTYWTT-------LIT 51
+ R F + +S A + + Q F+ L+ + T LI
Sbjct: 130 RIMAKRPFDKKSNSALFRAVGEGNAQLVAIFGGQGNTDDYFEELRDLYQTYHVLVGDLIK 189
Query: 52 EIDQNLEKAITVKYPEQIYESMRYSVLA--KGTKRAPPV--MCVAA--CELFGVNRIAAF 105
+ L + I + + ++L + P + C L GV ++A +
Sbjct: 190 FSAETLSELIRTTLDAEKVFTQGLNILEWLENPSNTPDKDYLLSIPISCPLIGVIQLAHY 249
Query: 106 PTACALEMVHAASLIHDDLPCMDDDPSRRGQPSNHTVYGVDI----AILAGD-------- 153
+L R T + + AI D
Sbjct: 250 VVTA-----KLLGFTPGEL---------RSYLKGATGHSQGLVTAVAIAETDSWESFFVS 295
Query: 154 ------ALFPLGFQHIVSH-TPPHLVPEPRVLRVIAEIARAVGSTGMAAGQFLDLEGEPN 206
LF +G + + P+ P +L E V + M L +
Sbjct: 296 VRKAITVLFFIGVR---CYEAYPNTSLPPSILEDSLENNEGV-PSPM-----LSISNLTQ 346
Query: 207 LVEFVQEKKFGEMSECSAVCGGFLAGADDDEIQSLRRYGRAVGV------LYQVVDDILE 260
E VQ+ +++ ++ L EI SL + + V LY + + +
Sbjct: 347 --EQVQDY----VNKTNS----HLPAGKQVEI-SLVNGAKNLVVSGPPQSLYGLNLTLRK 395
Query: 261 AKAQTPRDEEKK---KKKGKSYVAF----------YGVEKAMEVAEELRAKAKEELDRFK 307
AKA + D+ + ++K K F + A ++ + K +
Sbjct: 396 AKAPSGLDQSRIPFSERKLKFSNRFLPVASPFHSHL-LVPASDLINKDLVKNNVSFNA-- 452
Query: 308 KYGDNVLPLYSFIDYAAD-REFS 329
D +P+Y D +D R S
Sbjct: 453 --KDIQIPVYDTFD-GSDLRVLS 472
Score = 35.8 bits (82), Expect = 0.022
Identities = 41/287 (14%), Positives = 76/287 (26%), Gaps = 110/287 (38%)
Query: 50 ITEIDQNLEKAITV-------KYPEQIYESMRYSVLAKGTKRAPPVMCVAACELFGVNRI 102
I +I N +T+ K + Y +M + + G + +
Sbjct: 1661 ILDIVINNPVNLTIHFGGEKGKRIRENYSAMIFETIVDGKLKTEKI-------------- 1706
Query: 103 AAFPTACALEMVHAASLIHDDLP-CMDDDPSRRG--------QPSNHTVYGVDIAILA-G 152
F I++ +G QP A+
Sbjct: 1707 --FKE------------INEHSTSYTFRSE--KGLLSATQFTQP----------ALTLME 1740
Query: 153 DALFPLGFQHIVSHTPPHLVPEPRVLRVIAEIARAVG-STG-----MAAGQFLDLEGEPN 206
A F+ + S L+P A G S G + + +E
Sbjct: 1741 KAA----FEDLKSKG---LIPADATF---A------GHSLGEYAALASLADVMSIESLVE 1784
Query: 207 LV--------EFVQEKKFGEMSECS--AVCGG-FLAGADDDEIQSL-RRYGRAVGVLYQV 254
+V V + G S A+ G A + +Q + R G+ G L ++
Sbjct: 1785 VVFYRGMTMQVAVPRDELG-RSNYGMIAINPGRVAASFSQEALQYVVERVGKRTGWLVEI 1843
Query: 255 VDDILEAKAQTPRDEEKKKKKGKSYVA---FYGVEKAMEVAEELRAK 298
V+ + YVA ++ V ++ +
Sbjct: 1844 VNY------NVE---------NQQYVAAGDLRALDTVTNVLNFIKLQ 1875
>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 = 48.7 bits (115), Expect = 2e-06
Identities = 59/364 (16%), Positives = 106/364 (29%), Gaps = 114/364 (31%)
Query: 25 SSLPVSAASQLRS----TQFDLKTYWTTL--------ITEIDQNL------------EKA 60
+ + A S + D K +W L + E+ Q L + +
Sbjct: 164 TWV---ALDVCLSYKVQCKMDFKIFWLNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHS 220
Query: 61 ITVKYP-EQIYESMRYSVLAKGTKRAPPVMCVAACELFGVNR---IAAFPTACALEMVHA 116
+K I +R + +K + V L V AF +C + +
Sbjct: 221 SNIKLRIHSIQAELRRLLKSKPYENCLLV-------LLNVQNAKAWNAFNLSCKILLTTR 273
Query: 117 ASLIHDDLPCMDDDPSRRGQPS-NHTVYGVDIAILAGDALFPLGFQHIVSHTPPHLVPE- 174
+ D L + S +H L D + L + P L E
Sbjct: 274 FKQVTDFL-----SAATTTHISLDHHSMT-----LTPDEVKSL-LLKYLDCRPQDLPREV 322
Query: 175 ----PRVLRVIAEIARAVGSTGMAAGQFLDLEGEPNLVEF---VQEKKFGEMSECSAVCG 227
PR L +IAE + + V K + E S
Sbjct: 323 LTTNPRRLSIIAES----------------IRDGLATWDNWKHVNCDKLTTIIESS---- 362
Query: 228 GFLAGADDDEIQSLRRYGR-AV---------GVL--------YQVVDDILEAKAQTPRDE 269
L + E + + + R +V +L V ++ K
Sbjct: 363 --LNVLEPAEYR--KMFDRLSVFPPSAHIPTILLSLIWFDVIKSDVMVVVN-KLHKYSLV 417
Query: 270 EKKKKKGKSYVAFYGVEKAMEV-AEELRAKAKEELDRF---KKY-GDNVLPL------YS 318
EK+ K+ + + ++V E A + +D + K + D+++P YS
Sbjct: 418 EKQPKESTISI--PSIYLELKVKLENEYALHRSIVDHYNIPKTFDSDDLIPPYLDQYFYS 475
Query: 319 FIDY 322
I +
Sbjct: 476 HIGH 479
Score = 31.4 bits (70), Expect = 0.45
Identities = 15/63 (23%), Positives = 25/63 (39%), Gaps = 9/63 (14%)
Query: 16 LPRKFPVRCSSLPVSAASQLRSTQFDLKTYWTTLITEIDQNLEKAIT------VKYPEQI 69
L +K +R S +A+ + +T LK Y I + D E+ + K E +
Sbjct: 503 LEQK--IRHDSTAWNASGSILNTLQQLKFY-KPYICDNDPKYERLVNAILDFLPKIEENL 559
Query: 70 YES 72
S
Sbjct: 560 ICS 562
>3lvg_D LCB, clathrin light chain B; SELF assembly, coated PIT, cytoplasmic
vesicle, membrane, Ca structural protein; 7.94A {Bos
taurus}
Length = 190
Score = 38.6 bits (89), Expect = 0.001
Identities = 9/48 (18%), Positives = 18/48 (37%), Gaps = 18/48 (37%)
Query: 267 RDEEKKKKKGKSYVAFYGVEKAMEVAEELRAKAKEELDRF-KKYGDNV 313
D K + +E R KAK++L+ + ++ + V
Sbjct: 101 LDAASKVME-----------------QEWREKAKKDLEEWNQRQSEQV 131
Score = 27.4 bits (60), Expect = 5.0
Identities = 9/54 (16%), Positives = 20/54 (37%), Gaps = 8/54 (14%)
Query: 261 AKAQTPRDE-EKKKKKGKSYVAFYGVEKAMEVAEELRAKAKEEL-DRFKKYGDN 312
A+A E E +K + K ++ + ++E ++ KK +
Sbjct: 75 AQADRLTQEPESIRKWREEQ------RKRLQELDAASKVMEQEWREKAKKDLEE 122
Score = 26.7 bits (58), Expect = 8.8
Identities = 8/52 (15%), Positives = 20/52 (38%), Gaps = 4/52 (7%)
Query: 259 LEAK--AQTPRDEEKKKKKGKSYVAFYGVEKAMEVAEELRAKAKEELDRFKK 308
L+ A ++E ++K K + ++ E E+ + + F +
Sbjct: 98 LQELDAASKVMEQEWREKAKKDLEEWN--QRQSEQVEKNKINNRIADKAFYQ 147
>3nyc_A D-arginine dehydrogenase; FAD, imino-arginine, oxidoreductas; HET:
FAD IAR; 1.06A {Pseudomonas aeruginosa} PDB: 3nye_A*
3nyf_A* 3sm8_A*
Length = 381
Score = 31.8 bits (73), Expect = 0.29
Identities = 18/97 (18%), Positives = 31/97 (31%), Gaps = 10/97 (10%)
Query: 170 HLVPEPRVLRVIAEIARAVGSTGMAAGQFLDLEGEPNLVEFVQE--KKFGEMSECSAV-- 225
L RV+ + E STG +A + G P + F
Sbjct: 27 WLSAHGRVVVLEREAQPGYHSTGRSAAHYTVAYGTPQVRALTAASRAFFDNPPAGFCEHP 86
Query: 226 ---CGGFLAGADDDEIQSLRRY---GRAVGVLYQVVD 256
+ D+ + LRR G+A+ +++D
Sbjct: 87 LLSPRPEMVVDFSDDPEELRRQYESGKALVPQMRLLD 123
>3hnr_A Probable methyltransferase BT9727_4108; structural genomics, PSI-2,
protein structure initiative; 2.80A {Bacillus
thuringiensis serovarkonkukian}
Length = 220
Score = 30.6 bits (69), Expect = 0.55
Identities = 15/75 (20%), Positives = 26/75 (34%), Gaps = 19/75 (25%)
Query: 132 SRRGQPSNHTVYGVDIA----------------ILAGDAL---FPLGFQHIVSHTPPHLV 172
+ + + TVYG++ + I GD L P IVS H +
Sbjct: 60 TNKLLLAGRTVYGIEPSREMRMIAKEKLPKEFSITEGDFLSFEVPTSIDTIVSTYAFHHL 119
Query: 173 PEPRVLRVIAEIARA 187
+ IA+ ++
Sbjct: 120 TDDEKNVAIAKYSQL 134
>2pn1_A Carbamoylphosphate synthase large subunit; ZP_00538348.1, ATP-grAsp
domain, carbamoylphosphate synthase subunit (split gene
in MJ); 2.00A {Exiguobacterium sibiricum}
Length = 331
Score = 30.6 bits (69), Expect = 0.77
Identities = 12/74 (16%), Positives = 17/74 (22%), Gaps = 6/74 (8%)
Query: 143 YGVDIAILAGDALFPLGFQHIVSHTPP------HLVPEPRVLRVIAEIARAVGSTGMAAG 196
GVD + F V V ++ + G G
Sbjct: 195 LGVDAYVDLISGKVTSIFIKEKLTMRAGETDKSRSVLRDDVFELVEHVLDGSGLVGPLDF 254
Query: 197 QFLDLEGEPNLVEF 210
D+ G L E
Sbjct: 255 DLFDVAGTLYLSEI 268
>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 = 30.1 bits (68), Expect = 1.4
Identities = 15/83 (18%), Positives = 28/83 (33%), Gaps = 9/83 (10%)
Query: 183 EIARAVGSTGMAAGQFLDLEGEPNLVEFVQE--KKFGEMSE----CSAVCGGFLAGADDD 236
+ GST A G + F + +K ++E C GG +
Sbjct: 38 PLNMPGGSTSHAPGLVFQTNPSKTMASFAKYTVEKLLSLTEDGVSCFNQVGGLEVATTET 97
Query: 237 EIQSLRRY---GRAVGVLYQVVD 256
+ L+R A G+ +++
Sbjct: 98 RLADLKRKLGYAAAWGIEGRLLS 120
>3ns6_A Eukaryotic translation initiation factor 3 subuni; 1.25A
{Saccharomyces cerevisiae} PDB: 3ns5_A
Length = 100
Score = 28.2 bits (63), Expect = 1.5
Identities = 13/58 (22%), Positives = 19/58 (32%), Gaps = 8/58 (13%)
Query: 266 PRDEEKKKKKGKSYVAFYGVEKAMEVAEELRAKAKEELDRFKKYGDNVLPLYSFIDYA 323
P DE K KG +V + A K + + + L LY+ D
Sbjct: 45 PIDEATGKTKGFLFVECGSMNDA--------KKIIKSFHGKRLDLKHRLFLYTMKDVE 94
>2gfu_A DNA mismatch repair protein MSH6; PWWP domain, tudor domain, DNA
binding, DNA binding protein; HET: DNA; NMR {Homo
sapiens}
Length = 134
Score = 28.2 bits (62), Expect = 1.9
Identities = 11/38 (28%), Positives = 19/38 (50%)
Query: 265 TPRDEEKKKKKGKSYVAFYGVEKAMEVAEELRAKAKEE 302
T ++ +K G Y A + +AM+ A+E K K +
Sbjct: 85 TGSKSKEAQKGGHFYSAKPEILRAMQRADEALNKDKIK 122
>3pzx_A Formate--tetrahydrofolate ligase; HET: TOE; 2.20A {Moorella
thermoacetica} PDB: 1fp7_A 1fpm_A* 3qb6_A* 3qus_A*
3rbo_A* 3sin_A* 1eg7_A
Length = 557
Score = 29.5 bits (67), Expect = 1.9
Identities = 11/39 (28%), Positives = 19/39 (48%), Gaps = 8/39 (20%)
Query: 122 DDLP-CM-------DDDPSRRGQPSNHTVYGVDIAILAG 152
+LP M DD ++ G+P N T+ ++ + AG
Sbjct: 481 GNLPVVMAKTQYSFSDDMTKLGRPRNFTITVREVRLSAG 519
Score = 27.5 bits (62), Expect = 7.8
Identities = 24/114 (21%), Positives = 37/114 (32%), Gaps = 33/114 (28%)
Query: 235 DDEIQSLRRYGRAVGV---------------LYQVVDDILEAKAQTPR----DEEKKKKK 275
+ E+ L G L + V LE++ + K K
Sbjct: 389 EAELNLLYELCAKAGAEVALSWAKGGEGGLELARKVLQTLESRPSNFHVLYNLDLSIKDK 448
Query: 276 GKSYVA--FYGVEKAMEVAEELRAKAKEELDRFKKYGDNVLPL------YSFID 321
+A YG A V A+A + + R++ G LP+ YSF D
Sbjct: 449 IAK-IATEIYG---ADGV--NYTAEADKAIQRYESLGYGNLPVVMAKTQYSFSD 496
>3do6_A Formate--tetrahydrofolate ligase; TM1766, putative
formyltetrahydrofolate synthetase, structural genomics;
HET: MSE; 1.85A {Thermotoga maritima}
Length = 543
Score = 29.1 bits (66), Expect = 2.2
Identities = 13/39 (33%), Positives = 18/39 (46%), Gaps = 8/39 (20%)
Query: 122 DDLP-CM-------DDDPSRRGQPSNHTVYGVDIAILAG 152
D+LP + DPS RG P +T D+ + AG
Sbjct: 467 DELPVIVAKTPKSISHDPSLRGAPEGYTFVVSDLFVSAG 505
>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 = 28.0 bits (61), Expect = 3.0
Identities = 11/34 (32%), Positives = 16/34 (47%), Gaps = 5/34 (14%)
Query: 270 EKKK-KKGKSYVAFYGVEKAMEVAEELRAKAKEE 302
EK+ KK ++ + Y A + A L KA E
Sbjct: 18 EKQALKKLQASLKLY----ADDSAPALAIKATME 47
>2yqr_A KIAA0907 protein; structure genomics, KH domain, structural
genomics, NPPSFA, national project on protein structural
and functional analyses; NMR {Homo sapiens}
Length = 119
Score = 27.2 bits (60), Expect = 3.4
Identities = 8/32 (25%), Positives = 13/32 (40%)
Query: 284 GVEKAMEVAEELRAKAKEELDRFKKYGDNVLP 315
G+ A ++ E L E RF + +P
Sbjct: 85 GLAAAKKLCENLLQTVHAEYSRFVNQINTAVP 116
>3dyt_A Sorting nexin-9; 3-helix bundle, BAR domain, PX domain,
phosphoprotein, protein transport, SH3 domain,
transport, transport protein; 2.08A {Homo sapiens} PDB:
3dyu_A 2raj_A 2rai_A 2rak_A*
Length = 366
Score = 28.2 bits (62), Expect = 4.2
Identities = 13/135 (9%), Positives = 31/135 (22%), Gaps = 2/135 (1%)
Query: 176 RVLRVIAEIARAVGSTGMAAGQFLDLEGEPNLVEFVQEKK-FGEMSECSAVCGGFLAGAD 234
R + + G A + E + +A
Sbjct: 194 HWKRCTGPLPKEYQKIGKALQSLATVFSSSGYQGETDLNDAITEAGKTYEEIASLVAEQP 253
Query: 235 DDEIQSLRRYGRAVGVLYQVVDDILEAKAQTP-RDEEKKKKKGKSYVAFYGVEKAMEVAE 293
++ L DI+ + +E K S + + ++
Sbjct: 254 KKDLHFLMECNHEYKGFLGCFPDIIGTHKGAIEKVKESDKLVATSKITLQDKQNMVKRVS 313
Query: 294 ELRAKAKEELDRFKK 308
+ + E++ F
Sbjct: 314 IMSYALQAEMNHFHS 328
>3mb8_A Purine nucleoside phosphorylase; PNP, immucillin H, IMMH, TR; HET:
IMH; 1.90A {Toxoplasma gondii}
Length = 279
Score = 28.0 bits (62), Expect = 4.5
Identities = 28/181 (15%), Positives = 58/181 (32%), Gaps = 28/181 (15%)
Query: 135 GQPSNHTVYGVDIAILAGDALFPLG-FQHIVSHTPPHLVPEPRVLRVIAEIARAVGS--- 190
G T+ D+ + A+ G +I+ P V P V + + + A+ +G
Sbjct: 98 GSLKPKTLKQGDVCVTYA-AVNETGLISNILPEGFPC-VATPHVYQALMDAAKELGIEAA 155
Query: 191 TGM--AAGQFLDLEGEPNLVEFVQEKKFG----EMSECSAVCGGFLAGADDDEIQSLRRY 244
+G+ F L ++ +M E S V G L +
Sbjct: 156 SGIGVTQDYFY---QNGILPSKLEMYSKCCDVIDM-EMSGVLG--LC----------QAR 199
Query: 245 GRAVGVLYQVVDDILEAKAQTPRDEEKKKKKGKSYVAFYGVEKAMEVAEELRAKAKEELD 304
G A + V L+ K GK + ++ + + + + + ++
Sbjct: 200 GIATCGILAVDGSPLQWDEGDYDATGVKATTGKENMVKITLKACANLRRQYKGEFEAYVE 259
Query: 305 R 305
+
Sbjct: 260 Q 260
>1v6f_A MGMF-beta, GLIA maturation factor, beta; actin binding protein,
cytoskeleton, riken structural genomics/proteomics
initiative, RSGI; NMR {Mus musculus} SCOP: d.109.1.2
Length = 151
Score = 27.3 bits (60), Expect = 5.2
Identities = 10/74 (13%), Positives = 23/74 (31%), Gaps = 5/74 (6%)
Query: 249 GVLYQVVDDILEAKAQTPRDEEKKKKKGKSYVAFYGVEKAMEVAEELRAKAKEELDRFKK 308
V+ V +D++E + + +K+ + ++K + D K
Sbjct: 11 LVVCDVAEDLVEK-----LRKFRFRKETHNAAIIMKIDKDERLVVLDEELEGVSPDELKD 65
Query: 309 YGDNVLPLYSFIDY 322
P + Y
Sbjct: 66 ELPERQPRFIVYSY 79
>2xvm_A Tellurite resistance protein TEHB; antibiotic resistance,
transferase; HET: SAH; 1.48A {Escherichia coli} PDB:
2xva_A* 4dq0_A* 2i6g_A*
Length = 199
Score = 27.1 bits (60), Expect = 6.5
Identities = 7/40 (17%), Positives = 14/40 (35%)
Query: 153 DALFPLGFQHIVSHTPPHLVPEPRVLRVIAEIARAVGSTG 192
+ F + I+S + + +IA + R G
Sbjct: 91 NLTFDRQYDFILSTVVLMFLEAKTIPGLIANMQRCTKPGG 130
>2rfq_A 3-HSA hydroxylase, oxygenase; rhodococcus SP. RHA1, structural
genomics protein structure initiative, midwest center
for structural genomics, MCSG; HET: 1PS; 1.65A
{Rhodococcus SP} PDB: 3aff_A 3afe_A
Length = 394
Score = 27.7 bits (62), Expect = 6.6
Identities = 7/20 (35%), Positives = 10/20 (50%)
Query: 177 VLRVIAEIARAVGSTGMAAG 196
+ +IA A GSTG +
Sbjct: 68 FYSAVRKIASACGSTGWVSS 87
>2d69_A Ribulose bisphosphate carboxylase; alpha/beta barrel, structural
genomics, NPPSFA, national Pro protein structural and
functional analyses; 1.90A {Pyrococcus horikoshii} SCOP:
c.1.14.1 d.58.9.1 PDB: 2cxe_A 2cwx_A
Length = 430
Score = 27.7 bits (61), Expect = 6.6
Identities = 13/88 (14%), Positives = 26/88 (29%), Gaps = 3/88 (3%)
Query: 166 HTPPHLVPEPRVLRVIAEIARAVGSTGMAAGQFLDLEGEPNLVEFVQEKKFGEMSECSAV 225
+ P E RV ++ R TG +++ G N + + V
Sbjct: 192 TSFPFNRFEERVRKLYRVRDRVEAETGETKEYLINITGPVN--IMEKRAEMVANEGGQYV 249
Query: 226 CGGFLAGADDDEIQSLRRYGRAVGVLYQ 253
+ +Q +R +G+
Sbjct: 250 MIDIVVA-GWSALQYMREVTEDLGLAIH 276
>2kz9_A V-type proton ATPase subunit E; V-ATPase, proton transport; NMR
{Saccharomyces cerevisiae}
Length = 69
Score = 25.6 bits (56), Expect = 6.6
Identities = 14/47 (29%), Positives = 21/47 (44%), Gaps = 1/47 (2%)
Query: 261 AKAQTPRDEEKKKKKGKSYVAFYGVEKAMEVAEELRAKAKEELDRFK 307
A A T + + AF E A E A+E++ KA +E + K
Sbjct: 2 ASAITALTPNQVNDELNKMQAFIRKE-AEEKAKEIQLKADQEYEIEK 47
>2pih_A Protein YMCA; regulate community development, structural genomics,
PSI-2, protein structure initiative; 2.10A {Bacillus
subtilis} SCOP: a.281.1.1
Length = 151
Score = 26.9 bits (59), Expect = 6.7
Identities = 9/56 (16%), Positives = 20/56 (35%), Gaps = 2/56 (3%)
Query: 252 YQVVDDILEAKAQTPRDEEKKKKKGKSYVAF--YGVEKAMEVAEELRAKAKEELDR 305
++ + + + + K K V Y +A++ E +EEL+
Sbjct: 29 FKRAEAQINENDKVSTIVNQIKALQKQAVNLKHYEKHEALKQVEAKIDALQEELEE 84
>1uru_A Amphiphysin; endocytosis, coiled-coil, membrane curvature; 2.6A
{Drosophila melanogaster} SCOP: a.238.1.1
Length = 244
Score = 27.1 bits (59), Expect = 7.2
Identities = 14/65 (21%), Positives = 22/65 (33%), Gaps = 8/65 (12%)
Query: 259 LEAKAQTPRDEEKKKKKGKSYVAFYGVEKAMEVAEELRAKAKEELDRFKKYGDNVLP--L 316
L+A A +D+ K K + E+A E L + +EL L L
Sbjct: 155 LQANANKRKDDVKLTKGREQL------EEARRTYEILNTELHDELPALYDSRILFLVTNL 208
Query: 317 YSFID 321
+
Sbjct: 209 QTLFA 213
>1nnh_A Asparaginyl-tRNA synthetase-related peptide; structural genomics,
PSI, protein structure initiative, southeast COLL for
structural genomics; 1.65A {Pyrococcus furiosus} SCOP:
d.104.1.1 PDB: 3p8t_A 3p8v_A 3p8y_A 3reu_A* 3rex_A*
3rl6_A*
Length = 294
Score = 27.2 bits (61), Expect = 7.8
Identities = 7/38 (18%), Positives = 12/38 (31%), Gaps = 8/38 (21%)
Query: 280 VAFYGVEKAMEVAEEL--------RAKAKEELDRFKKY 309
V +E M + E L E + K++
Sbjct: 121 VERAKMEDIMRLIERLVYGLFRKAEEWTGREFPKTKRF 158
Database: pdb70
Posted date: Sep 4, 2012 3:40 AM
Number of letters in database: 6,701,793
Number of sequences in database: 27,921
Lambda K H
0.320 0.136 0.399
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: 5,342,730
Number of extensions: 339851
Number of successful extensions: 1345
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1176
Number of HSP's successfully gapped: 106
Length of query: 334
Length of database: 6,701,793
Length adjustment: 94
Effective length of query: 240
Effective length of database: 4,077,219
Effective search space: 978532560
Effective search space used: 978532560
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 57 (25.8 bits)