RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= 037594
(295 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 = 340 bits (874), Expect = e-118
Identities = 137/293 (46%), Positives = 189/293 (64%), Gaps = 29/293 (9%)
Query: 14 FQVNEYKALKAKQINEALDEAVPLPHPAILHEAMRYS-LPGGKRLMSTLCIASCEMIGGS 72
Y KA +N+ALD AVPL P +HEAMRYS L GGKR+ LCIA+CE++GG
Sbjct: 11 TDPISYIIRKADSVNKALDSAVPLREPLKIHEAMRYSLLAGGKRVRPVLCIAACELVGGE 70
Query: 73 QSVAMSMACAIELLVTMAVIQDDLPCLDNDDLRRGKPSNHKVFGEATAILACQALHCLAM 132
+S+AM ACA+E++ TM++I DDLPC+DNDDLRRGKP+NHKV+GE A+LA AL A
Sbjct: 71 ESLAMPAACAVEMIHTMSLIHDDLPCMDNDDLRRGKPTNHKVYGEDVAVLAGDALLSFAF 130
Query: 133 QHIAIIKAKNINS------------AVGSEGIAAGQIMDINSEGK---EVSLSELNFIHR 177
+H+A + ++ A+G+EG+ AGQ++DI+SEG V L L FIH
Sbjct: 131 EHLASATSSEVSPARVVRAVGELAKAIGTEGLVAGQVVDISSEGLDLNNVGLEHLKFIHL 190
Query: 178 HKTGKFIEASIVSGVIIGGGNEEEIERMRNFGKYVGMAYQLWNDIVDVIGSPEMREKTGR 237
HKT +EAS V G IIGGG++EEIER+R F + +G+ +Q+ +DI+DV S
Sbjct: 191 HKTAALLEASAVLGGIIGGGSDEEIERLRKFARCIGLLFQVVDDILDVTKS--------- 241
Query: 238 DMMRDKATYPKLVGIDGSKKHAKELIAEAKQELAYFDPTRAAPLDHLVNFIVS 290
K TYPKL+G++ S++ A++L EA+ +L FD + APL L N+I +
Sbjct: 242 ----SKLTYPKLMGLEKSREFAEKLNTEARDQLLGFDSDKVAPLLALANYIAN 290
>2h8o_A Geranyltranstransferase; geranyltransferase,agrobacterium
tumefaciens, structural GEN PSI-2, protein structure
initiative; 1.60A {Agrobacterium tumefaciens}
Length = 335
Score = 336 bits (864), Expect = e-116
Identities = 99/307 (32%), Positives = 149/307 (48%), Gaps = 21/307 (6%)
Query: 4 SQRNDTLPKFFQVNEYKALKAKQINEALDEAVP-------LPHPAILHEAMRYS-LPGGK 55
QR + A + L + + P L EAMR+ L GGK
Sbjct: 27 CQRARMDAQMTNFETRLRENAAKTEALLGHLLSGEARADEITRPQNLLEAMRHGVLNGGK 86
Query: 56 RLMSTLCIASCEMIGGSQSVAMSMACAIELLVTMAVIQDDLPCLDNDDLRRGKPSNHKVF 115
RL L I S ++GG + + A+E L +++ DDLP +D+DDLRRG+P+ H+ F
Sbjct: 87 RLRPFLVIESVALLGGDAEAGLHVGAALECLHCYSLVHDDLPAMDDDDLRRGQPTVHRKF 146
Query: 116 GEATAILACQALHCLAMQHIAI--------IKAKNINS---AVGSEGIAAGQIMDINSEG 164
EATAILA +L LA IA KA + S A G G+A GQ +D+ +E
Sbjct: 147 DEATAILAGDSLLTLAFDIIASDDNPLAAERKAALVISLARAAGIGGMAGGQALDLAAEK 206
Query: 165 KEVSLSELNFIHRHKTGKFIEASIVSGVIIGGGNEEEIERMRNFGKYVGMAYQLWNDIVD 224
K + + KTG + + +G II G N+ E +R+R FG+ +G+++QL +D++D
Sbjct: 207 KAPDEDGIITLQAMKTGALLRFACEAGAIIAGSNQAERQRLRLFGEKIGLSFQLADDLLD 266
Query: 225 VIGSPEMREKT-GRDMMRDKATYPKLVGIDGSKKHAKELIAEAKQELAYFDPTRAAPLDH 283
+ K G+D R K T L G +++ +E +AEA + LA + +AA L
Sbjct: 267 LTADAATMGKATGKDAARGKGTLVALRGEAWAREKLQEQVAEASELLAPYGE-KAAILIA 325
Query: 284 LVNFIVS 290
FI
Sbjct: 326 AARFIAE 332
>3ts7_A Geranyltranstransferase; isoprenoid synthesis, farnesyl diphosphate
synthase; 1.94A {Methylococcus capsulatus}
Length = 324
Score = 333 bits (857), Expect = e-115
Identities = 103/294 (35%), Positives = 159/294 (54%), Gaps = 18/294 (6%)
Query: 14 FQVNEYKALKAKQINEALDEAVPLPH--PAILHEAMRYS-LPGGKRLMSTLCIASCEMIG 70
++++ +++ ALD +P P LH+AMRYS L GGKR+ L A+ + IG
Sbjct: 7 RSLSDFMRSSQERVERALDARLPAADRMPERLHQAMRYSVLGGGKRMRPLLTYATGQTIG 66
Query: 71 GSQSVAMSMACAIELLVTMAVIQDDLPCLDNDDLRRGKPSNHKVFGEATAILACQALHCL 130
+ + ACA+E + ++I DDLP +D+DDLRRGKP+ HK + EATAILA L L
Sbjct: 67 VAADLLDGPACAVEFIHVYSLIHDDLPAMDDDDLRRGKPTCHKAYDEATAILAGDGLQAL 126
Query: 131 AMQHIAIIKAKNINS------------AVGSEGIAAGQIMDINSEGKEVSLSELNFIHRH 178
A +A + + + A G G+ GQ +D+ S GK++ L L +H
Sbjct: 127 AFHVLAQDPSIAVPAENRIAMIETLAKASGPAGMVGGQAIDLASVGKKLDLPGLENMHIR 186
Query: 179 KTGKFIEASIVSGVIIGGG-NEEEIERMRNFGKYVGMAYQLWNDIVDVIGSPEMREKT-G 236
KTG I AS+ + G E+ +R+ ++ K +G+A+Q+ +DI+D + KT G
Sbjct: 187 KTGALIRASVRLACLARPGLPAEQFDRLDHYAKCIGLAFQIQDDILDEESDTQTLGKTRG 246
Query: 237 RDMMRDKATYPKLVGIDGSKKHAKELIAEAKQELAYFDPTRAAPLDHLVNFIVS 290
+D +K YP L+G+ G+K+ A+E+ A + LA F P A L L FI+
Sbjct: 247 KDRDHNKPNYPALLGLSGAKEKAEEMHEAALESLAGFGP-EADLLRELARFIIQ 299
>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 = 333 bits (855), Expect = e-115
Identities = 106/291 (36%), Positives = 160/291 (54%), Gaps = 18/291 (6%)
Query: 17 NEYKALKAKQINEALDEAVPL--PHPAILHEAMRYS-LPGGKRLMSTLCIASCEMIGGSQ 73
Y+A +++ A+ P A L+EAMRYS + GGKR+ L A+CE +GG
Sbjct: 4 TAYQASSQARVDAAMHTLFTAPSPELARLYEAMRYSVMNGGKRVRPLLAYAACEALGGKP 63
Query: 74 SVAMSMACAIELLVTMAVIQDDLPCLDNDDLRRGKPSNHKVFGEATAILACQALHCLAMQ 133
A ACA+EL+ +++ DDLP +D+DDLRRG+P+ HK F EA AILA L LA
Sbjct: 64 EQANGAACAVELIHAYSLVHDDLPAMDDDDLRRGQPTTHKAFDEACAILAGDGLQSLAFS 123
Query: 134 HIAIIKAKNINS------------AVGSEGIAAGQIMDINSEGKEVSLSELNFIHRHKTG 181
+ + ++ A G G+ GQ +D+ S G ++ L ++HRHKTG
Sbjct: 124 ALLDPALSDASAEIRLRMVTTLAQAAGPAGMVGGQAIDLGSVGLKLDQQALEYMHRHKTG 183
Query: 182 KFIEASIVSGVIIGGG-NEEEIERMRNFGKYVGMAYQLWNDIVDVIGSPEMREKT-GRDM 239
IEAS++ G + G + E++ ++ + + +G+A+Q+ +DI+DV K G D+
Sbjct: 184 ALIEASVILGALASGRAEKGELKALQTYAQAIGLAFQVQDDILDVESDTATLGKRQGADI 243
Query: 240 MRDKATYPKLVGIDGSKKHAKELIAEAKQELAYFDPTRAAPLDHLVNFIVS 290
RDK TYP L+G+ +K++A EL +A L FD A PL L +IV
Sbjct: 244 ARDKPTYPALLGLAAAKEYALELRDQALHALRPFDA-AAEPLRELARYIVE 293
>4f62_A Geranyltranstransferase; enzyme function initiative, structural
genomics; 2.10A {Marinomonas SP}
Length = 317
Score = 331 bits (850), Expect = e-114
Identities = 101/291 (34%), Positives = 164/291 (56%), Gaps = 15/291 (5%)
Query: 14 FQVNEYKALKAKQINEALDEAVP-LPHPAILHEAMRYS-LPGGKRLMSTLCIASCEMIGG 71
+ ++ ++++ L++ + LH AMRYS GGKR+ L AS +++G
Sbjct: 3 MNLKQFSTYTQSRVDQYLEQQLSDYAPANQLHNAMRYSLFNGGKRIRPMLTYASAQLVGD 62
Query: 72 SQSVAMSMACAIELLVTMAVIQDDLPCLDNDDLRRGKPSNHKVFGEATAILACQALHCLA 131
S+ + A A+E + ++I DDLP +DND+LRRGKP+ H F EATAILA AL A
Sbjct: 63 ISSLTDASAAALESIHAYSLIHDDLPAMDNDELRRGKPTCHIQFDEATAILAGDALQTFA 122
Query: 132 MQHIA---------IIKA-KNINSAVGSEGIAAGQIMDINSEGKEVSLSELNFIHRHKTG 181
+ ++ IK + + A G G+ GQ++D++SE K +SL+EL +H HKTG
Sbjct: 123 FELLSNPTSAQPELAIKLIQELVVASGRNGMITGQMIDLSSENKNISLAELEQMHVHKTG 182
Query: 182 KFIEASIVSGVIIGGG-NEEEIERMRNFGKYVGMAYQLWNDIVDVIGSPEMREKT-GRDM 239
I+AS+ G + G E++ ++ + +G+A+Q+ +DI+D+ E KT D
Sbjct: 183 ALIKASVRMGALSTGQVKPEQLAKLDAYAHAIGLAFQVQDDIIDLTSDTETLGKTQFSDA 242
Query: 240 MRDKATYPKLVGIDGSKKHAKELIAEAKQELAYFDPTRAAPLDHLVNFIVS 290
+KATYPKL+G+DG+K L +A +++ F ++ PL L N+I+
Sbjct: 243 EANKATYPKLLGLDGAKALVVRLHEQAIAQISEFGD-KSQPLTDLANYIID 292
>3uca_A Geranyltranstransferase; isoprenoid synthesis, isoprenoid
diphosphate synthase; 2.00A {Clostridium perfringens}
Length = 324
Score = 329 bits (845), Expect = e-113
Identities = 101/292 (34%), Positives = 164/292 (56%), Gaps = 16/292 (5%)
Query: 14 FQVNEYKALKAKQINEALDEAVP--LPHPAILHEAMRYS-LPGGKRLMSTLCIASCEMIG 70
++++++L + +L+++M YS GGKR+ L + S +
Sbjct: 31 EDTAMNINSLKEEVDQSLKAYFNKDREYNKVLYDSMAYSINVGGKRIRPILMLLSYYIYK 90
Query: 71 GSQSVAMSMACAIELLVTMAVIQDDLPCLDNDDLRRGKPSNHKVFGEATAILACQALHCL 130
++ A AIE++ T ++I DDLPC+DNDDLRRGKP+NHKVFGEA A+LA AL
Sbjct: 91 SDYKKILTPAMAIEMIHTYSLIHDDLPCMDNDDLRRGKPTNHKVFGEAIAVLAGDALLNE 150
Query: 131 AMQHIA---------IIKA-KNINSAVGSEGIAAGQIMDINSEGK-EVSLSELNFIHRHK 179
AM+ + +KA K I A GS+G+ GQI+DI +E K E+SL EL+++H K
Sbjct: 151 AMKILVDYSLEEGKSALKATKIIADAAGSDGMIGGQIVDIINEDKEEISLKELDYMHLKK 210
Query: 180 TGKFIEASIVSGVIIGGGNEEEIERMRNFGKYVGMAYQLWNDIVDVIGSPEMREKT-GRD 238
TG+ I+ASI+SG ++ +E +I+++ FG +G+A+Q+ +DI+DV+G+ + K +D
Sbjct: 211 TGELIKASIMSGAVLAEASEGDIKKLEGFGYKLGLAFQIKDDILDVVGNAKDLGKNVHKD 270
Query: 239 MMRDKATYPKLVGIDGSKKHAKELIAEAKQELAYFDPTRAAPLDHLVNFIVS 290
+K Y + G++ KK + E + L+ PL L ++
Sbjct: 271 QESNKNNYITIFGLEECKKKCVNITEECIEILSSIKG-NTEPLKVLTMKLLE 321
>1rtr_A Geranyltranstransferase; 2.50A {Staphylococcus aureus} SCOP:
a.128.1.1
Length = 301
Score = 327 bits (840), Expect = e-113
Identities = 91/288 (31%), Positives = 145/288 (50%), Gaps = 14/288 (4%)
Query: 17 NEYKALKAKQINEALDEAVPLP-HPAILHEAMRYS-LPGGKRLMSTLCIASCEMIGGSQS 74
N ++N L A+ L E+M YS GGKR+ L + + + +
Sbjct: 3 NLPMNKLIDEVNNELSVAINKSVMDTQLEESMLYSLNAGGKRIRPVLLLLTLDSLNTEYE 62
Query: 75 VAMSMACAIELLVTMAVIQDDLPCLDNDDLRRGKPSNHKVFGEATAILACQALHCLAMQH 134
+ M A A+E++ T ++I DDLP +DNDD RRGK +NHKV+GE TAILA AL A +
Sbjct: 63 LGMKSAIALEMIHTYSLIHDDLPAMDNDDYRRGKLTNHKVYGEWTAILAGDALLTKAFEL 122
Query: 135 IA---------IIKA-KNINSAVGSEGIAAGQIMDINSEGKEVSLSELNFIHRHKTGKFI 184
I+ IK + ++ A G G+ GQ++D+ SEG+ + L L IH+ KTG +
Sbjct: 123 ISSDDRLTDEVKIKVLQRLSIASGHVGMVGGQMLDMQSEGQPIDLETLEMIHKTKTGALL 182
Query: 185 EASIVSGVIIGGGNEEEIERMRNFGKYVGMAYQLWNDIVDVIGSPEMREKT-GRDMMRDK 243
+++S I ++ E + ++ ++GM +Q+ +D++D G K G D+ +K
Sbjct: 183 TFAVMSAADIANVDDTTKEHLESYSYHLGMMFQIKDDLLDCYGDEAKLGKKVGSDLENNK 242
Query: 244 ATYPKLVGIDGSKKHAKELIAEAKQELAYFD-PTRAAPLDHLVNFIVS 290
+TY L+G DG++ A EL D L +V+ S
Sbjct: 243 STYVSLLGKDGAEDKLTYHRDAAVDELTQIDEQFNTKHLLEIVDLFYS 290
>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 = 326 bits (839), Expect = e-113
Identities = 93/287 (32%), Positives = 149/287 (51%), Gaps = 17/287 (5%)
Query: 17 NEYKALKAKQINEALDEAVPLPHPAILHEAMRYSLPGGKRLMSTLCIASCEMIGGSQSVA 76
+E + A+ A+ L +AM Y+ GGKRL + L I S + G S + A
Sbjct: 4 SERLKEVQDAVETAMAAAIGRLPAGDLRDAMAYAAQGGKRLRAFLAIESAAIHGISMAQA 63
Query: 77 MSMACAIELLVTMAVIQDDLPCLDNDDLRRGKPSNHKVFGEATAILACQALHCLAMQHIA 136
M A A+E L +++ DD+PC+DNDDLRRG P+ HK + +ATA+LA AL LA +
Sbjct: 64 MPAALAVEALHAYSLVHDDMPCMDNDDLRRGLPTVHKKWDDATAVLAGDALQTLAFELCT 123
Query: 137 ---------IIKA-KNINSAVGSEGIAAGQIMDINSEGKE--VSLSELNFIHRHKTGKFI 184
+ + A G+EG+ GQ +DI +E ++L E+ + KTG I
Sbjct: 124 DPVLGSAENRVALVAALAQASGAEGMVYGQALDIAAETAAVPLTLDEIIRLQAGKTGALI 183
Query: 185 EASIVSGVIIGGGNEEEIERMRNFGKYVGMAYQLWNDIVDVIGSPEMREKT-GRDMMRDK 243
+ +G I+ G + + + +G+A+Q+ +DI+DV G+ E K G+D K
Sbjct: 184 SFAAQAGAILAGADR---GPLTAYATALGLAFQIADDILDVEGNEEAAGKRLGKDAEAHK 240
Query: 244 ATYPKLVGIDGSKKHAKELIAEAKQELAYFDPTRAAPLDHLVNFIVS 290
AT+ L+G+ G+K A +L+AEA+ LA + A+ L +++
Sbjct: 241 ATFVSLLGLAGAKSRAADLVAEAEAALAPYGE-AASTLRACARYVIE 286
>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 = 324 bits (834), Expect = e-112
Identities = 98/293 (33%), Positives = 151/293 (51%), Gaps = 19/293 (6%)
Query: 17 NEYKALKAKQINEALDEAVPLP--HPAILHEAMRYS-LPGGKRLMSTLCIASCEMIGGSQ 73
+ KQ N+AL + + E M+Y L GGKRL L A+ M G S
Sbjct: 4 PQQLEACVKQANQALSRFIAPLPFQNTPVVETMQYGALLGGKRLRPFLVYATGHMFGVST 63
Query: 74 SVAMSMACAIELLVTMAVIQDDLPCLDNDDLRRGKPSNHKVFGEATAILACQALHCLAMQ 133
+ + A A+E + ++I DDLP +D+DDLRRG P+ H FGEA AILA AL LA
Sbjct: 64 NTLDAPAAAVECIHAYSLIHDDLPAMDDDDLRRGLPTCHVKFGEANAILAGDALQTLAFS 123
Query: 134 HIAIIKAKNINS------------AVGSEGIAAGQIMDINSEGKEVSLSELNFIHRHKTG 181
++ ++ A G G+ GQ +D+++EGK V L L IHRHKTG
Sbjct: 124 ILSDADMPEVSDRDRISMISELASASGIAGMCGGQALDLDAEGKHVPLDALERIHRHKTG 183
Query: 182 KFIEASIVSGVIIGGG-NEEEIERMRNFGKYVGMAYQLWNDIVDVIGSPEMREKT-GRDM 239
I A++ G + G + + + + +G+A+Q+ +DI+DV+G K G D
Sbjct: 184 ALIRAAVRLGALSAGDKGRRALPVLDKYAESIGLAFQVQDDILDVVGDTATLGKRQGADQ 243
Query: 240 MRDKATYPKLVGIDGSKKHAKELIAEAKQELAYFDP--TRAAPLDHLVNFIVS 290
K+TYP L+G++ ++K A++LI +A+Q L + L+ L ++I+
Sbjct: 244 QLGKSTYPALLGLEQARKKARDLIDDARQSLKQLAEQSLDTSALEALADYIIQ 296
>3p8r_A Geranyltranstransferase; isoprenyl synthase, structural genomics,
PSI, protein struct initiative, nysgrc; 2.50A {Vibrio
cholerae}
Length = 302
Score = 322 bits (828), Expect = e-111
Identities = 94/290 (32%), Positives = 147/290 (50%), Gaps = 18/290 (6%)
Query: 18 EYKALKAKQINEALDEAVPLP--HPAILHEAMRYS-LPGGKRLMSTLCIASCEMIGGSQS 74
E + ++ N+ LD+ + L EAMRY L GGKR L + +M+G S
Sbjct: 11 EALSSYQQRNNQQLDQWLNRIPFQTLPLIEAMRYGLLLGGKRARPYLVYITGQMLGCELS 70
Query: 75 VAMSMACAIELLVTMAVIQDDLPCLDNDDLRRGKPSNHKVFGEATAILACQALHCLAMQH 134
+ A A+E + ++I DDLP +D+D+LRRGKP+ H F EATAIL AL LA
Sbjct: 71 DLDTPASAVECIHAYSLIHDDLPAMDDDELRRGKPTCHIQFDEATAILTGDALQTLAFTI 130
Query: 135 IAIIKAKNINS------------AVGSEGIAAGQIMDINSEGKEVSLSELNFIHRHKTGK 182
+A A G++G+ GQ +D+ +E + +SL EL IHR+KTG
Sbjct: 131 LAEGDLSAAGETQRVAMLQALAEASGAQGMCLGQALDLAAENRLISLEELETIHRNKTGA 190
Query: 183 FIEASIVSGVIIGGG-NEEEIERMRNFGKYVGMAYQLWNDIVDVIGSPEMREKT-GRDMM 240
+ +I G + G + + + + VG+A+Q+ +DI+D+I E K G D
Sbjct: 191 LMRCAIRLGALAAGEKGRAMLPHLDRYAEAVGLAFQVQDDILDIISDTETLGKPQGSDQE 250
Query: 241 RDKATYPKLVGIDGSKKHAKELIAEAKQELAYFDPTRAAPLDHLVNFIVS 290
+K+TYP L+G++G+++ A L+ EA L L+ ++V
Sbjct: 251 LNKSTYPALLGLEGAQQKAHTLLQEALLALEAIPY-NTEHLEEFARYVVE 299
>3lom_A Geranyltranstransferase; geranyltransferase, structural genomics,
PSI, protein structure initiative, nysgrc; 2.30A
{Legionella pneumophila subsp}
Length = 313
Score = 321 bits (826), Expect = e-110
Identities = 80/300 (26%), Positives = 136/300 (45%), Gaps = 19/300 (6%)
Query: 9 TLPKFFQVNEYKALKAKQINEALDEAVP--LPHPAILHEAMRYS-LPGGKRLMSTLCIAS 65
+L + ++ L++ + + + A+ Y+ GGKR+ L +
Sbjct: 2 SLNSTQMNKQVIDKYTQRHELYLEQLLNEIIIPAPQIRSALHYALFSGGKRIRPILVYLA 61
Query: 66 CEMIGGSQSVAMSMACAIELLVTMAVIQDDLPCLDNDDLRRGKPSNHKVFGEATAILACQ 125
++I Q V +A A+EL ++I DDLP +DNDDLRRGKPS HK F EATAIL
Sbjct: 62 GDLIDVDQGVLDIIAAALELTHCYSLIHDDLPAMDNDDLRRGKPSCHKAFDEATAILVGD 121
Query: 126 ALHCLAMQHIAIIKAKNINS------------AVGSEGIAAGQIMDINSEGK-EVSLSEL 172
+ LA++ + + + + + A G G+ +GQ +D++ K V+ +L
Sbjct: 122 GMQALAIEVLLMRLSPLLPAAQVVAITQVLVNASGISGMVSGQSLDLSELAKSSVTEEQL 181
Query: 173 NFIHRHKTGKFIEASIVSGVIIGGG-NEEEIERMRNFGKYVGMAYQLWNDIVDVIGSPEM 231
IH KTGK I A + +E+ +R +GK++G+ +Q+ +D +D+ ++
Sbjct: 182 REIHLLKTGKLILACFEMVLAAQHEVSEQIKSALRTYGKHIGLVFQMQDDYLDLYAPTQI 241
Query: 232 REKT-GRDMMRDKATYPKLVGIDGSKKHAKELIAEAKQELAYFDPTRAAPLDHLVNFIVS 290
K D K T+ L ++ A L F +AA L L + +
Sbjct: 242 LGKGRSSDQANQKTTFATLFNKQQLEEEIAVHYQIAMDSLRLFGS-KAAALIELTKQLQN 300
>3p8l_A Geranyltranstransferase; isoprenyl synthase, structural genomics,
PSI, protein struct initiative, nysgrc; 2.00A
{Enterococcus faecalis}
Length = 302
Score = 321 bits (824), Expect = e-110
Identities = 91/292 (31%), Positives = 147/292 (50%), Gaps = 14/292 (4%)
Query: 14 FQVNEYKALKAKQINEALDEAVP-LPHPAILHEAMRYS-LPGGKRLMSTLCIASCEMIGG 71
+ + + + + + + L EAM YS GGKRL L + +
Sbjct: 8 HSLTNFSQQHLPLVEKVMVDFIAEYTENERLKEAMLYSIHAGGKRLRPLLVLTTVAAFQK 67
Query: 72 S-QSVAMSMACAIELLVTMAVIQDDLPCLDNDDLRRGKPSNHKVFGEATAILACQALHCL 130
++ +A ++E++ T ++I DDLP +D+DDLRRGKP+NHKVFGEATAILA L
Sbjct: 68 EMETQDYQVAASLEMIHTYSLIHDDLPAMDDDDLRRGKPTNHKVFGEATAILAGDGLLTG 127
Query: 131 AMQHIA--------IIKA-KNINSAVGSEGIAAGQIMDINSEGKEVSLSELNFIHRHKTG 181
A Q ++ + + + A G++G+ +GQ+ DI E ++L EL +H KTG
Sbjct: 128 AFQLLSLSQLGLSEKVLLMQQLAKAAGNQGMVSGQMGDIEGEKVSLTLEELAAVHEKKTG 187
Query: 182 KFIEASIVSGVIIGGGNEEEIERMRNFGKYVGMAYQLWNDIVDVIGSPEMREKT-GRDMM 240
IE ++++G ++ EE I + F + G+A+Q+ +D++D + K GRD
Sbjct: 188 ALIEFALIAGGVLANQTEEVIGLLTQFAHHYGLAFQIRDDLLDATSTEADLGKKVGRDEA 247
Query: 241 RDKATYPKLVGIDGSKKHAKELIAEAKQELAYFDP-TRAAPLDHLVNFIVSF 291
+K+TYP L+GI G+K +AE L +HL N +
Sbjct: 248 LNKSTYPALLGIAGAKDALTHQLAEGSAVLEKIKANVPNFSEEHLANLLTQL 299
>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 = 320 bits (823), Expect = e-110
Identities = 90/293 (30%), Positives = 138/293 (47%), Gaps = 16/293 (5%)
Query: 14 FQVNEYKALKAKQINEALDEAVPLP-HPAILHEAMRYS-LPGGKRLMSTLCIASCEMIGG 71
++ ++ +N L +A+ A L AM YS L GGKRL L +A+ + +G
Sbjct: 6 ARLIAFEDQWVPALNAPLKQAILADSQDAQLAAAMTYSVLAGGKRLRPLLTVATMQSLGV 65
Query: 72 S--QSVAMSMACAIELLVTMAVIQDDLPCLDNDDLRRGKPSNHKVFGEATAILACQALHC 129
+ A+ELL T ++I DDLP +DND LRRG+P+NH FG A LA L
Sbjct: 66 TFVPERHWRPVMALELLHTYSLIHDDLPAMDNDALRRGEPTNHVKFGAGMATLAGDGLLT 125
Query: 130 LAMQHIA--------IIKA-KNINSAVGSEGIAAGQIMDINSEGKEVSLSELNFIHRHKT 180
LA Q + + + +A G G+ AGQ DI SE + LS+L +H+ KT
Sbjct: 126 LAFQWLTATDLPATMQAALVQALATAAGPSGMVAGQAKDIQSEHVNLPLSQLRVLHKEKT 185
Query: 181 GKFIEASIVSGVIIGGGNEEEIERMRNFGKYVGMAYQLWNDIVDVIGSPEMREKT-GRDM 239
G + ++ +G+I+G E + F G+A+Q+++DI+DV+ SP K +D
Sbjct: 186 GALLHYAVQAGLILGQAPEAQWPAYLQFADAFGLAFQIYDDILDVVSSPAEMGKATQKDA 245
Query: 240 MRDKATYPKLVGIDGSKKHAKELIAEAKQELAYFDP--TRAAPLDHLVNFIVS 290
K TYP +G+ G+ + + I + L R F
Sbjct: 246 DEAKNTYPGKLGLIGANQALIDTIHSGQAALQGLPTSTQRDDLAAFFSYFDTE 298
>3npk_A Geranyltranstransferase; isoprene biosynthesis, SGX, structural
genomics protein structure initiative; 1.50A
{Campylobacter jejuni}
Length = 291
Score = 309 bits (795), Expect = e-106
Identities = 82/285 (28%), Positives = 140/285 (49%), Gaps = 16/285 (5%)
Query: 25 KQINEALDEAVPLP--HPAILHEAMRYS-LPGGKRLMSTLCIASCEMIGGS-QSVAMSMA 80
+ L++ +P +EA+ GGK + L ++ + + A+ +A
Sbjct: 7 ELFIHHLEKNLPKVESFHPFFNEALALMLKAGGKHFRAQLLLSVVQSNKPELLNQALDVA 66
Query: 81 CAIELLVTMAVIQDDLPCLDNDDLRRGKPSNHKVFGEATAILACQALHCLAMQHIA---- 136
A+E + T ++I DDLP +DN D RRG P+ HK + E TAIL AL+ A ++
Sbjct: 67 LALEFIHTYSLIHDDLPAMDNADFRRGIPTLHKSYDETTAILVGDALNTEAFLVLSHAHL 126
Query: 137 ----IIKA-KNINSAVGSEGIAAGQIMDINSEGKEVSLSELNFIHRHKTGKFIEASIVSG 191
IK K + G G+ GQ +D E K +SL+EL F+H HKT + I A++ G
Sbjct: 127 KDEIKIKLIKTLAFNAGLNGMVIGQAIDCFFEDKRLSLNELEFLHTHKTARLIAAALKMG 186
Query: 192 VIIGGGNEEEIERMRNFGKYVGMAYQLWNDIVDVIGSPEMREKT-GRDMMRDKATYPKLV 250
I N EE ++ G +G+ +Q+ +DI+DV S E K D K ++ L+
Sbjct: 187 CEICELNNEESNQIYKLGLKLGLIFQINDDIIDVTTSQEQSGKPTNND--IHKNSFVNLL 244
Query: 251 GIDGSKKHAKELIAEAKQELAYFDPTRAAPLDHLVNFIVSFGNNN 295
G++ + K + L+ E +Q+L + A + +L+ + +++
Sbjct: 245 GLEQAIKTKENLLNECEQDLEKLNEKLAQMIQNLIIQYLEGHHHH 289
>3llw_A Geranyltranstransferase (ISPA); structural genomics, PSI, protein
structure initiative, nysgrc; 2.30A {Helicobacter
pylori} PDB: 3q1o_A*
Length = 311
Score = 306 bits (787), Expect = e-105
Identities = 80/293 (27%), Positives = 142/293 (48%), Gaps = 23/293 (7%)
Query: 18 EYKALKAKQINEALDEAVPLP--HPAILHEAMRYS-LPGGKRLMSTLCIASCEMIGGSQ- 73
+ + ++ L L +A L GGKR L +A + G +
Sbjct: 9 SFYYNECERFESFLKNHHLHLESFHPYLEKAFFEMVLNGGKRFRPKLFLAVLCALVGQKD 68
Query: 74 -----SVAMSMACAIELLVTMAVIQDDLPCLDNDDLRRGKPSNHKVFGEATAILACQALH 128
+ +A +IE L T ++I DDLPC+DN LRR P+ H + E TA+L AL+
Sbjct: 69 YSNQQTEYFKIALSIECLHTYSLIHDDLPCMDNAALRRNHPTLHAKYDETTAVLIGDALN 128
Query: 129 CLAMQHIA--------IIKA-KNINSAVGSEGIAAGQIMDINSEGKEVSLSELNFIHRHK 179
+ + ++ I++ K +++ G +G+ GQ +D E ++L +L F+H HK
Sbjct: 129 TYSFELLSNALLESHIIVELIKILSANGGIKGMILGQALDCYFENTPLNLEQLTFLHEHK 188
Query: 180 TGKFIEASIVSGVIIGGGNEEEIER-MRNFGKYVGMAYQLWNDIVDVIGSPEMREKT-GR 237
T K I AS++ G++ G +EE+ + ++ FG +G+ +Q+ +DI+DV E KT
Sbjct: 189 TAKLISASLIMGLVASGIKDEELFKWLQAFGLKMGLCFQVLDDIIDVTQDEEESGKTTHL 248
Query: 238 DMMRDKATYPKLVGIDGSKKHAKELIAEAKQELAYFDPTRAAPLDHLVNFIVS 290
D K ++ L+G++ + +A+ L E +L P L +N +++
Sbjct: 249 D--SAKNSFVNLLGLERANNYAQTLKTEVLNDLDALKP-AYPLLQENLNALLN 298
>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 = 287 bits (736), Expect = 1e-97
Identities = 64/272 (23%), Positives = 108/272 (39%), Gaps = 31/272 (11%)
Query: 18 EYKALKAKQINEALDEAVPLPHPAILHEAMRYS-LPGGKRLMSTLCIASCEMIGGSQSVA 76
Y A I L +++ + P + M + STLC+A+CE++GG +S A
Sbjct: 3 PYWAAIEADIERYLKKSITIRPPETVFGPMHHLTFAAPATAASTLCLAACELVGGDRSQA 62
Query: 77 MSMACAIELLVTMAVIQDDLPCLDNDDLRRGKPSNHKVFGEATAILACQALHCLAMQHIA 136
M+ A AI L+ A + + LP D KP+ +G +L + + +A
Sbjct: 63 MAAAAAIHLVHAAAYVHEHLPLTDGSR-PVSKPAIQHKYGPNVELLTGDGIVPFGFELLA 121
Query: 137 -------------IIKA-KNINSAVGSEGIAAGQIMDINSEGKEVSLSELNFIHRHKTGK 182
I++ I+ A G EG+ +G + SL + ++ + K G+
Sbjct: 122 GSVDPARTDDPDRILRVIIEISRAGGPEGMISGLHREEEIVDGNTSLDFIEYVCKKKYGE 181
Query: 183 FIEASIVSGVIIGGGNEEEIERMRNFGKYVGM---------AYQLWNDIVDVIGSPEMRE 233
G I+GG EEEI+++RNFG Y G ++QL ++ + E
Sbjct: 182 MHACGAACGAILGGAAEEEIQKLRNFGLYQGTLRGMMEMKNSHQLIDENIIGKLKELALE 241
Query: 234 KTG------RDMMRDKATYPKLVGIDGSKKHA 259
+ G ++M P L H
Sbjct: 242 ELGGFHGKNAELMSSLVAEPSLYAAHHHHHHH 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 = 260 bits (667), Expect = 4e-87
Identities = 60/272 (22%), Positives = 108/272 (39%), Gaps = 21/272 (7%)
Query: 14 FQVNEYKALKAKQINEALDEAVPLPHPAILHEAMRYS-LPGGKRLMSTLCIASCEMIGGS 72
+ Y+A I L +A+P+ P + E M + + S LC+A+CE++GG
Sbjct: 4 TRTQTYRATIESDIESYLKKAIPIRAPESVFEPMHHLTFAAPRTSASALCVAACELVGGD 63
Query: 73 QSVAMSMACAIELLVTMAVIQDDLPCLDNDDLRRGKPSNHKVFGEATAILACQALHCLAM 132
+S AM+ A A+ L+ A ++LP D K F +L + +
Sbjct: 64 RSDAMAAAAAVHLMHVAAYTHENLPLTDGP---MSKSEIQHKFDPNIELLTGDGIIPFGL 120
Query: 133 QHIA------------IIKA-KNINSAVGSEGIAAGQIMDINSEGKEVSLSELNFIHRHK 179
+ +A I++A + +GSEGI GQ ++ L + ++ + K
Sbjct: 121 ELMARSMDPTRNNPDRILRAIIELTRVMGSEGIVEGQYHELGLNQL-NDLELIEYVCKKK 179
Query: 180 TGKFIEASIVSGVIIGGGNEEEIERMRNFGKYVGMAYQLWNDIVDVIGSP--EMREKTGR 237
G G I+GG +E++IE++R FG YVG L E++E +
Sbjct: 180 EGTLHACGAACGAILGGCDEDKIEKLRRFGLYVGTVQGLLGKNRSGFEGRIKELKELAVK 239
Query: 238 DMMR-DKATYPKLVGIDGSKKHAKELIAEAKQ 268
++ + G+ + +
Sbjct: 240 ELESFGGEKIELIRGVFELEHSLAGVEGHHHH 271
>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 = 242 bits (618), Expect = 1e-79
Identities = 75/281 (26%), Positives = 126/281 (44%), Gaps = 12/281 (4%)
Query: 17 NEYKALKAKQINEALDEAVPLPHPAILHEAMRYS-LPGGKRLMSTLCIASCEMIGGSQSV 75
+ + +K + + E + E + + EAM YS GG R+ L + E +G +
Sbjct: 8 HHHHHMKXEXVEERIREILRPGWDLLTEEAMLYSATVGGXRIRPLLVLTLGEDLGVEEEX 67
Query: 76 AMSMACAIELLVTMAVIQDDLPCLDNDDLRRGKPSNHKVFGEATAILACQALHCLAMQHI 135
+ +A A+EL T ++I DDLP +DN D RRG PS H+ +GE A+LA L LA I
Sbjct: 68 LLDVAVAVELFHTASLIHDDLPPIDNADFRRGXPSCHRTYGEDIALLAGDGLFFLAFSQI 127
Query: 136 AIIKAKNINS--AVGSEGIAAGQIMDINSEGK--EVSLSELNFIHRHKTGKFIEASIVSG 191
+ I I + + + G+ MD+ E + EVS + ++ TG +
Sbjct: 128 SXIGNSXIFEEFSETAYXLLLGEAMDVEFERRXMEVSQEMVERMYAFXTGALFAFCFSAP 187
Query: 192 VIIGGGNEEEIERMRNFGKYVGMAYQLWNDIVDVIGSPEMREKT-GRDMMRDKATYPKLV 250
I+ G + + G+ G+A+Q+++D+ D++GS E K G+D + T V
Sbjct: 188 FILXGXDHTXMXL---LGEXFGVAFQIYDDLXDILGSFEKVGKDLGKD--TEXVTLVXXV 242
Query: 251 GIDGSKKHAKELIAEAKQELAYFD-PTRAAPLDHLVNFIVS 290
GI +++ A E + L L +
Sbjct: 243 GIQXAREMADXYYEEVLXGIESEGLFRTLFLLXELXQMVEE 283
>3nf2_A Putative polyprenyl synthetase; isoprenyl diphosphate synthase,
structural genomics, PSI, PR structure initiative,
nysgrc; 2.20A {Streptomyces coelicolor}
Length = 352
Score = 204 bits (522), Expect = 3e-64
Identities = 65/287 (22%), Positives = 117/287 (40%), Gaps = 20/287 (6%)
Query: 14 FQVNEYKALKAKQINEALDEAVPLPHPAIL----------HEAMRYSL-PGGKRLMSTLC 62
V L AV P + + GGK + L
Sbjct: 3 LDVTALLERGRTLATPVLRAAVDRLAPPMDTVAAYHFGWIDAQGNPADGDGGKAVRPALA 62
Query: 63 IASCEMIGGSQSVAMSMACAIELLVTMAVIQDDLPCLDNDDLRRGKPSNHKVFGEATAIL 122
+ S E+ G + V + A A+EL+ +++ DDL +D D+ RR + + KV G A AIL
Sbjct: 63 VLSAEVTGAAPEVGVPGAVAVELVHNFSLLHDDL--MDGDEQRRHRDTVWKVHGPAQAIL 120
Query: 123 ACQALHCLAMQHIAIIKAKNINSAV-----GSEGIAAGQIMDINSEGK-EVSLSELNFIH 176
AL LA + + + A S + GQ DI+ E + VS+ E +
Sbjct: 121 VGDALFALANEVLLELGTVEAGRATRRLTKASRSLIDGQAQDISYEHRDRVSVEECLEME 180
Query: 177 RHKTGKFIEASIVSGVIIGGGNEEEIERMRNFGKYVGMAYQLWNDIVDVIGSPEMREKT- 235
+KTG + + G ++GG +E + + +G ++G+A+Q +D++ + G P+ K
Sbjct: 181 GNKTGALLACASSIGAVLGGADERTADTLEKYGYHLGLAFQAVDDLLGIWGDPDATGKQT 240
Query: 236 GRDMMRDKATYPKLVGIDGSKKHAKELIAEAKQELAYFDPTRAAPLD 282
D+ + K + P + + ++ L + D + +
Sbjct: 241 WSDLRQRKKSLPVVAALAAGGAASERLGEILTADAKASDFANFSEEE 287
>4fp4_A Polyprenyl synthetase; isoprenoid synthesis, isoprenoid diphosphate
synthase, trans; HET: GER UNL; 2.00A {Pyrobaculum
calidifontis}
Length = 285
Score = 194 bits (496), Expect = 4e-61
Identities = 60/275 (21%), Positives = 114/275 (41%), Gaps = 18/275 (6%)
Query: 14 FQVNEYKALKAKQINEALDEAVPLPHPAILHEAMRYSLP-GGKRLMSTLCIASCEMIGGS 72
+ + +++ L++ P L +A+R+ + GK L L + I
Sbjct: 4 YSLPPEVLAALERVKARLNKVGEELEPISLRKAVRHYIETPGKLLRPLLLLTFTYSIDRR 63
Query: 73 QSV---AMSMACAIELLVTMAVIQDDLPCLDNDDLRRGKPSNHKVFGEATAILACQALHC 129
+ + A +ELL ++++QDD+ +D D RRG + ++G+ AI+A L
Sbjct: 64 SIMDPRILEAAAIVELLHVVSLLQDDV--MDQHDQRRGIKTPRAMYGDGRAIVASDWLIA 121
Query: 130 LAMQHIAIIKAKNINS-AVGSEGIAAGQIMDINSEGKEVSLSELNFIHRHKTGKFIEASI 188
+++ + A + A ++ ++ GQ +D+ E + KT IEA++
Sbjct: 122 ESIKMAVNLGADVVTYLADVAQRLSVGQALDLEGERDKA--------AEFKTAPLIEAAL 173
Query: 189 VSGVIIGGGNEEEIERMRNFGKYVGMAYQLWNDIVDVIGSPEMREKTGRDMMRDKATYPK 248
V ++I G E IE + G +G+ YQ +D D + ++ R +
Sbjct: 174 VMPLVILG-RRELIETAKKLGTKLGILYQYSDDYSDENVERPETKSIANEIGRYLLKIKE 232
Query: 249 LV--GIDGSKKHAKELIAEAKQELAYFDPTRAAPL 281
V I ++ K LI +A + T A L
Sbjct: 233 HVGDAIAPFERLIKYLIGKALEGTLTVSRTIAENL 267
>1wy0_A Geranylgeranyl pyrophosphate synthetase; pyrococcus horikosh
structural genomics, riken structural
genomics/proteomics initiative, RSGI; 2.20A {Pyrococcus
horikoshii}
Length = 342
Score = 183 bits (466), Expect = 4e-56
Identities = 84/281 (29%), Positives = 139/281 (49%), Gaps = 12/281 (4%)
Query: 12 KFFQVNEYKALKAKQINEALDEAVPLPHPAILHEAMRYSLP-GGKRLMSTLCIASCEMIG 70
K+ ++ KAK I+E + E +P P +L+EA R+ GGKR+ + + S E +G
Sbjct: 3 KYEELFARIKEKAKLIDEKIFELIPEKDPRVLYEAARHYPLAGGKRVRPFVVLTSTEAVG 62
Query: 71 GSQSVAMSMACAIELLVTMAVIQDDLPCLDNDDLRRGKPSNHKVFGEATAILACQALHCL 130
G A+ A AIEL+ +++ DD+ +D D+ RRGKP+ H+++G AILA L
Sbjct: 63 GDPLRAIYPAVAIELIHNYSLVHDDI--MDMDETRRGKPTVHRIWGVNMAILAGDLLFSK 120
Query: 131 AMQHIAIIKAKNINS-------AVGSEGIAAGQIMDINSEGK-EVSLSELNFIHRHKTGK 182
A + +A + S + GQ D+ E K V++ E + KTG
Sbjct: 121 AFEAVARAEIPPEKKARVLEVIVKASNELCEGQARDLEFEKKSTVTIEEYMEMISGKTGA 180
Query: 183 FIEASIVSGVIIGGGNEEEIERMRNFGKYVGMAYQLWNDIVDVIGSPEMREKT-GRDMMR 241
EAS G IIG NEE I+ + ++G+ VG+A+Q+W+D++D+I + K G D+ +
Sbjct: 181 LFEASAKVGGIIGTDNEEYIKALSSWGRNVGIAFQIWDDVLDLIADEKKLGKPVGSDIRK 240
Query: 242 DKATYPKLVGIDGSKKHAKELIAEAKQELAYFDPTRAAPLD 282
K T + + + K+ + + A R +
Sbjct: 241 GKKTLIVAHFFENADEKDKQRFLKIFGKYAGDVKGRGIIEE 281
>4dhd_A Polyprenyl synthetase; isoprenoid synthesis, isoprenoid diphosphate
synthase, trans; 1.65A {Pyrobaculum calidifontis}
Length = 358
Score = 170 bits (432), Expect = 7e-51
Identities = 76/339 (22%), Positives = 129/339 (38%), Gaps = 63/339 (18%)
Query: 15 QVNEYKALKAKQINEALDEAVPLPHPAILHEAMRYSLP-GGKRLMSTLCIASCEMIGGSQ 73
V+ ++ +AL + + EA+ Y + GGKRL L +A+ E + G
Sbjct: 5 VVSRLHQKYGAEVEKALVRYLSIGLAEDFREAVLYQVKTGGKRLRPLLTLAAAEAVSGQW 64
Query: 74 SVAMSMACAIELLVTMAVIQDDLPCLDNDDLRRGKPSNHKVFGEATAILACQALHCLAMQ 133
A+ A +EL+ ++I DD+ +D D+RRG P+ K FG+ AIL +
Sbjct: 65 RPALPAAAIVELIHNYSLIYDDI--IDRGDVRRGLPTVRKAFGDNAAILVGIWYREAIEE 122
Query: 134 HIAIIKAKNINSAVGSE---GIAAGQIMDINSEGK-------------EVSLSELNFIHR 177
+ + + +E I G+ +DI E EV+L + +
Sbjct: 123 AVLDTPKPTLFAKEVAEVIKAIDEGERLDILFEAAGRSDPYFVQARWREVTLDDYIKMVS 182
Query: 178 HKTGKFIEASIVSGVIIGGGNEEEIERMRNFGKYVGMAYQLWNDIVDVIGSPEMREKT-G 236
KTG I A+ GV+ + E NFG G+A+Q+ +D++D+ G P+ K G
Sbjct: 183 LKTGALIAAAAKWGVLSVSDDRGLAEAAWNFGMAAGVAFQIIDDVLDIYGDPKKFGKEIG 242
Query: 237 RDMMRDKATYPKLV---------------------------------------GIDGSKK 257
+D+ K + + + +
Sbjct: 243 KDIKEHKRGNAVVAVALSHLGEGERRRLLEILAREVVEEADVREAVALLDSVGAREEALR 302
Query: 258 HAKELIAEAKQELAYFDPTRAAPLDHLVNFIV--SFGNN 294
A EA++ LA L L++FIV + N
Sbjct: 303 LAARYREEAERHLAKIPNNGT--LKELLDFIVAREYAEN 339
>3ipi_A Geranyltranstransferase; isoprene biosynthesis, helical bundle,
protein structure initiative II (PSI II), structural
genomics, nysgxrc; 1.90A {Methanosarcina mazei}
Length = 295
Score = 151 bits (384), Expect = 2e-44
Identities = 69/279 (24%), Positives = 124/279 (44%), Gaps = 22/279 (7%)
Query: 25 KQINEALDEAVPLPHPAILHEAMRYSLP-GGKRLMSTLCIASCEMIGGSQSVAMSMACAI 83
+ + + E++ L L + + + GGKR+ + + E+ GS S +++ A A+
Sbjct: 12 RYVEAGIKESITLIEDPGLKKMVEHVCHSGGKRIRPIILLLVSEICSGSYSRSLNAALAV 71
Query: 84 ELLVTMAVIQDDLPCLDNDDLRRGKPSNHKVFGEATAILACQALHCLAMQHIAIIKAK-- 141
E++ + ++I DDL LD +RR PS + FG + A+L L ++ I+ K
Sbjct: 72 EMMHSASLIHDDL--LDQGLVRRNLPSAPEKFGPSGALLCGDYLIAKSIAFISPYGEKVI 129
Query: 142 NINSAVGSEGIAAGQIMDINSEGKEVSLSE-LNFIHRHKTGKFIEASIVSGVIIGGGNEE 200
G + +A G+++D+ E + ++ I++ KT S G GG EE
Sbjct: 130 QDFGKAGMD-MAEGEVLDLKLEDESFGENDYFKCIYK-KTASLFAISASIGAYTGGAEEE 187
Query: 201 EIERMRNFGKYVGMAYQLWNDIVDVIGSPEMREKTGRDMMRDKATYPKLV--------GI 252
ER +FG +G AYQ+ +DI++ + E G++ T P + +
Sbjct: 188 LAERFSHFGNALGTAYQIVDDILEFLEVVE-----GKESKFTSETLPHIYMKSTSKEEAL 242
Query: 253 DGSKKHAKELIAEAKQELAYFDPTRA-APLDHLVNFIVS 290
S K +A AK+ L F A L + ++I
Sbjct: 243 KKSIDCVKLHVAAAKETLETFRECPARDKLFQITDYITV 281
>3lk5_A Geranylgeranyl pyrophosphate synthase; structural genomics, protein
structure initiative, geranylge pyrophosphate synthase;
1.90A {Corynebacterium glutamicum} PDB: 3qqv_A*
Length = 380
Score = 151 bits (383), Expect = 2e-43
Identities = 64/316 (20%), Positives = 126/316 (39%), Gaps = 44/316 (13%)
Query: 16 VNEYKALKAKQINEALDEAVPL-----PHPAILHEAMRYSLP-GGKRLMSTLCIASCEMI 69
++++ + ++ + LD +R + GGKR+ A
Sbjct: 18 LDKFPEVVRDRLTQFLDAQELTIADIGAPVTDAVAHLRSFVLNGGKRIRPLYAWAGFLAA 77
Query: 70 GGSQ------SVAMSMACAIELLVTMAVIQDDLPCLDNDDLRRGKPSNHKV--------- 114
G + + A ++E + A+I DD+ +D+ D RRG P+ H+
Sbjct: 78 QGHKNSSEKLESVLDAAASLEFIQACALIHDDI--IDSSDTRRGAPTVHRAVEADHRANN 135
Query: 115 -------FGEATAIL--------ACQALHCLAMQHIAIIKAKNINSAVGSEGIAAGQIMD 159
FG + +IL A L + A+ + ++ + +E + GQ++D
Sbjct: 136 FEGDPEHFGVSVSILAGDMALVWAEDMLQDSGLSAEALARTRDAWRGMRTE-VIGGQLLD 194
Query: 160 INSEGK-EVSLSELNFIHRHKTGK-FIEASIVSGVIIGGGNEEEIERMRNFGKYVGMAYQ 217
I E S+ + ++R KT I + G I GG+ + I+ + ++G +G+A+Q
Sbjct: 195 IYLESHANESVELADSVNRFKTAAYTIARPLHLGASIAGGSPQLIDALLHYGHDIGIAFQ 254
Query: 218 LWNDIVDVIGSPEMREK-TGRDMMRDKATYPKLVGIDGSKKHAKELIAEAKQELAYFDPT 276
L +D++ V G P + K G D+ K T + + + K + E + + T
Sbjct: 255 LRDDLLGVFGDPAITGKPAGDDIREGKRTVLLALALQRADKQSPEAATAIRAGVG--KVT 312
Query: 277 RAAPLDHLVNFIVSFG 292
+ + I + G
Sbjct: 313 SPEDIAVITEHIRATG 328
>1wmw_A Geranylgeranyl diphosphate synthetase; GGPP, prenyl diphosphate
synthase, structural genom riken structural
genomics/proteomics initiative; 1.55A {Thermus
thermophilus}
Length = 330
Score = 150 bits (380), Expect = 2e-43
Identities = 48/254 (18%), Positives = 94/254 (37%), Gaps = 17/254 (6%)
Query: 25 KQINEALDEAVPLPHPAILHEAMRYSLP-GGKRLMSTLCIASCEMIGGSQSVAMSMACAI 83
+ + E L + P P + ++ GGK L L + S G + A A+
Sbjct: 10 QALQERLLARLDHPDPLY-RDLLQDYPRRGGKMLRGLLTVYSALAHGAPLEAGLEAATAL 68
Query: 84 ELLVTMAVIQDDLPCLDNDDLRRGKPSNHKVFGEATAILACQALHCLAMQHIAIIKAKNI 143
EL ++ DD+ D + RRG+P+ H++ A+ A A+H +A A+ +
Sbjct: 69 ELFQNWVLVHDDI--EDGSEERRGRPALHRLHPMPLALNAGDAMHAEMWGLLAEGLARGL 126
Query: 144 NS-------AVGSEGIAAGQIMDINSEGK---EVSLSELNFIHRHKTGK-FIEASIVSGV 192
A GQ +D+ ++ + + HK A + G
Sbjct: 127 FPPEVLLEFHEVVRRTAYGQHLDLLWTLGGTFDLRPEDYFRMVAHKAAYYTAVAPLRLGA 186
Query: 193 IIGGGNEEEIERMRNFGKYVGMAYQLWNDIVDVIGSPEMREKTGRDMMRDKATYPKLVGI 252
++ G G +G A+Q+ +D++++ G ++ D+ K T L +
Sbjct: 187 LLAGKTPP--AAYEEGGLRLGTAFQIVDDVLNLEGGEAYGKERAGDLYEGKRTLILLRFL 244
Query: 253 DGSKKHAKELIAEA 266
+ + +
Sbjct: 245 EEAPPEERARALAL 258
>2azj_A Geranylgeranyl pyrophosphate synthetase; hexpps,
trans-prenyltransferase; 2.40A {Sulfolobus solfataricus}
PDB: 2azk_A
Length = 289
Score = 137 bits (347), Expect = 5e-39
Identities = 54/277 (19%), Positives = 96/277 (34%), Gaps = 16/277 (5%)
Query: 11 PKFFQVNEYKALKAKQINEALDEAVPLPHPAILHEAMRYSLPGGKRLMSTLCIASCEMIG 70
+ E+ I+ +++ + L + Y L GKR TL + +G
Sbjct: 6 HHHMSIIEFWLEAKATIDRLIEQFLNSNRDWDLVDISSYILKDGKRFRGTLNMFFTVALG 65
Query: 71 GSQSVAMSMACAIELLVTMAVIQDDLPCLDNDDLRRGKPSNHKVFGEATAILACQALHCL 130
G + A AIE+L + ++ D+ +D D RRG + V+G I L
Sbjct: 66 GDIKDSYGGALAIEILHSASLALCDI--VDLDATRRGDKAAWVVYGNRKVIFITNYLIPT 123
Query: 131 AMQHIAIIKAKNINS--AVGSEGIAAGQIMDINSEGKEVSLSELNFIHRHKTGKFIEASI 188
A++ I + + + + G + D+ + KTG + S
Sbjct: 124 ALRIIQTSYGDDALNTSIELWKDTSVGALRDMYDN--SDYIR----TIELKTGSLFKLST 177
Query: 189 VSGVIIGGGNEEEIERMRNFGKYVGMAYQLWNDIVDVIGSPEMREK-----TGRDMMRDK 243
V + ++M + GKY+G+ YQ+ +D VD + K
Sbjct: 178 VLSAYA-SKHYNTKQQMLDVGKYLGIIYQVIDDFVDYKTKKVEEIDGSAKQLFKYYREGK 236
Query: 244 ATYPKLVGIDGSKKHAKELIAEAKQELAYFDPTRAAP 280
K+ ELI+ + Y R+ P
Sbjct: 237 LEEYVRSVYLEYKQKYDELISNIPFQSKYLSEIRSLP 273
>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 = 139 bits (352), Expect = 5e-39
Identities = 46/263 (17%), Positives = 95/263 (36%), Gaps = 27/263 (10%)
Query: 8 DTLPKFFQVNEYKALKAKQINEALDEAVPLPHPAILHEAMRYSLPGGKRLMSTLCIASCE 67
+F + + + + A L E ++Y+ PGGK +A+
Sbjct: 26 REREEFVGF--FPQIVRDLTEDGIGHPEVGDAVARLKEVLQYNAPGGKCNRGLTVVAAYR 83
Query: 68 MIGGSQSV-------AMSMACAIELLVTMAVIQDDLPCLDNDDLRRGKPSNHKVFGEATA 120
+ G A+++ IEL +++ DD+ +D RRG+ +K G
Sbjct: 84 ELSGPGQKDAESLRCALAVGWCIELFQAASLVADDI--MDQSLTRRGQLCWYKKEGVGLD 141
Query: 121 ILACQALHCLAMQHIAIIKAKNINSAVG--------SEGIAAGQIMDINSEGK------E 166
+ L ++ + + V + GQ++D+ +
Sbjct: 142 AINDSFLLESSVYRVLKKYCRQRPYYVHLLELFLQTAYQTELGQMLDLITAPVSKVDLSH 201
Query: 167 VSLSELNFIHRHKTGK--FIEASIVSGVIIGGGNEEEIERMRNFGKYVGMAYQLWNDIVD 224
S I ++KT F + ++G ++EE E + +G +Q+ +D +D
Sbjct: 202 FSEERYKAIVKYKTAFYSFYLPVAAAMYMVGIDSKEEHENAKAILLEMGEYFQIQDDYLD 261
Query: 225 VIGSPEMREKTGRDMMRDKATYP 247
G P + G D+ +K ++
Sbjct: 262 CFGDPALTGAVGTDIQDNKCSWL 284
>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 = 136 bits (343), Expect = 8e-38
Identities = 49/299 (16%), Positives = 95/299 (31%), Gaps = 46/299 (15%)
Query: 9 TLPKFFQVNEYKALKAKQINEALDEAVPLPHPAILHEAMR-YSLPGGKRLMSTLCIASCE 67
++ +F V Y ++A +++ + P+ A M + GGK + E
Sbjct: 3 SMERFLSV--YDEVQAFLLDQLQSKYEIDPNRARYLRIMMDTTCLGGKYFRGMTVVNVAE 60
Query: 68 MIGGSQS-----------VAMSMACAIELLVTMAVIQDDLPCLDNDDLRRGKPSNHKVFG 116
A IE L +++DD+ D +RRGKP ++ G
Sbjct: 61 GFLAVTQHDEATKERILHDACVGGWMIEFLQAHYLVEDDIM--DGSVMRRGKPCWYRFPG 118
Query: 117 EATAILACQALHCLAMQHIAI----------IKAKNINSAVGSEGIAAGQIMDINSE--- 163
T + + I + V A GQ+ D+ S
Sbjct: 119 VTTQCAINDGIILKSWTQIMAWHYFADRPFLKDLLCLFQKVDYA-TAVGQMYDVTSMCDS 177
Query: 164 --------------GKEVSLSELNFIHRHKTGKFI-EASIVSGVIIGGGN-EEEIERMRN 207
E + + I ++KT + +V G+ + E+ +
Sbjct: 178 NKLDPEVAQPMTTDFAEFTPAIYKRIVKYKTTFYTYLLPLVMGLFVSEAAASVEMNLVER 237
Query: 208 FGKYVGMAYQLWNDIVDVIGSPEMREKTGRDMMRDKATYPKLVGIDGSKKHAKELIAEA 266
+G +Q+ +D++D PE K G D+ K ++ + + +
Sbjct: 238 VAHLIGEYFQVQDDVMDCFTPPEQLGKVGTDIEDAKCSWLAVTFLGKANAAQVAEFKAN 296
>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 = 131 bits (331), Expect = 6e-36
Identities = 40/260 (15%), Positives = 90/260 (34%), Gaps = 29/260 (11%)
Query: 12 KFFQVNEYKALKAKQINEALDEAVPLPHPAILHEAMRYSLPGGKRLMSTLCIASCEMIGG 71
F Q + + + A L E + Y+ GGK + + +
Sbjct: 37 DFVQHFS--QIVRVLTEDEMGHPEIGDAIARLKEVLEYNAIGGKYNRGLTVVVAFRELVE 94
Query: 72 SQSV-------AMSMACAIELLVTMAVIQDDLPCLDNDDLRRGKPSNHKVFGEATA---- 120
+ A ++ +ELL ++ DD+ +D+ RRG+ ++ G
Sbjct: 95 PRKQDADSLQRAWTVGWCVELLQAFFLVADDI--MDSSLTRRGQICWYQKPGVGLDAIND 152
Query: 121 -----ILACQALHCLAMQHIAIIKAKNINSAVGSEGIAAGQIMDINSEGK------EVSL 169
+ L + + + + GQ +D+ + + +
Sbjct: 153 ANLLEACIYRLLKLYCREQPYYLNLIELFLQSSYQ-TEIGQTLDLLTAPQGNVDLVRFTE 211
Query: 170 SELNFIHRHKTGK-FIEASIVSGVIIGGGN-EEEIERMRNFGKYVGMAYQLWNDIVDVIG 227
I ++K+ I + + + G + E+E + +G +Q+ +D +D+ G
Sbjct: 212 KRYKSIVKYKSAFYSFYLPIAAAMYMAGIDGEKEHANAKKILLEMGEFFQIQDDYLDLFG 271
Query: 228 SPEMREKTGRDMMRDKATYP 247
P + K G D+ +K ++
Sbjct: 272 DPSVTGKIGTDIQDNKCSWL 291
>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 = 131 bits (330), Expect = 1e-35
Identities = 54/312 (17%), Positives = 104/312 (33%), Gaps = 50/312 (16%)
Query: 2 INSQRNDTLPKFFQ--VNEYKALKAKQINEALDEAVPLPHPAILHEAMR-YSLPGGKRLM 58
NS+ D+ FF+ ++Y+ +NE E H + ++ + Y+ GGK
Sbjct: 24 TNSEEADSGLAFFRNMYDKYRDAFLSHLNEYSLEEEIKEHISKYYKLLFDYNCLGGKNNR 83
Query: 59 STLCIASCEMIGGSQSV------AMSMACAIELLVTMAVIQDDLPCLDNDDLRRGKPSNH 112
L I E + A +A IE+L ++ DD+ +D ++RR K +
Sbjct: 84 GILVILIYEYVKNRDINSSEWEKAACLAWCIEILQAAFLVADDI--MDKGEMRRNKYCWY 141
Query: 113 KVFGEATAIL----------ACQALHCLAMQHIAIIKAKNINSAVGSEGIAAGQIMDINS 162
+ T + + + + GQ +D N
Sbjct: 142 LLKDVETKNAVNDVLLLYNSIYKLIEIYLRNESCYVDVIATFRDATLK-TIIGQHLDTNI 200
Query: 163 EGK-------------------------EVSLSELNFIHRHKTGK-FIEASIVSGVIIGG 196
++ I HKT IV G+++ G
Sbjct: 201 FSDKYSDAHREIDVNNINVPEQPVIDINMINFGVYKNIVIHKTAYYSFFLPIVCGMLLAG 260
Query: 197 GN--EEEIERMRNFGKYVGMAYQLWNDIVDVIGSPEMREKTGRDMMRDKATYPKLVGIDG 254
+++ + +G +Q+ +D +D+ G K G D+ +K T+P + +
Sbjct: 261 IAVDNLIYKKIEDISMLMGEYFQIHDDYLDIFGDSTKTGKVGSDIQNNKLTWPLIKTFEL 320
Query: 255 SKKHAKELIAEA 266
+ K I +
Sbjct: 321 CSEPDKIKIVKN 332
>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 = 129 bits (325), Expect = 5e-35
Identities = 52/307 (16%), Positives = 96/307 (31%), Gaps = 52/307 (16%)
Query: 7 NDTLPKFFQVNEYKALKAKQINEALDEAVPLPHPAI--LHEAMRYSLPGGKRLMSTLCIA 64
+ + F QV Y ++ + E L+ + + L + M + GGK I
Sbjct: 23 SMPMQMFMQV--YDEIQ-MFLLEELELKFDMDPNRVRYLRKMMDTTCLGGKYNRGLTVID 79
Query: 65 SCEMIGGSQSV-----------------AMSMACAIELLVTMAVIQDDLPCLDNDDLRRG 107
E + A IE L +++DD+ +DN RRG
Sbjct: 80 VAESLLSLSPNNNGEEDDGARRKRVLHDACVCGWMIEFLQAHYLVEDDI--MDNSVTRRG 137
Query: 108 KPSNHKVFGEATAILACQALHCLAMQHIAIIKAKNINSAVG---------SEGIAAGQIM 158
KP ++ L + H+ + + A GQ+
Sbjct: 138 KPCWYRHPDVTVQCAINDGLLLKSWTHMMAMHFFADRPFLQDLLCRFNRVDYTTAVGQLY 197
Query: 159 DINSEGK-----------------EVSLSELNFIHRHKTGK-FIEASIVSGVIIGGGN-E 199
D+ S E +LS I ++KT +V G+I+
Sbjct: 198 DVTSMFDSNKLDPDVSQPTTTDFAEFTLSNYKRIVKYKTAYYTYLLPLVMGLIVSEALPT 257
Query: 200 EEIERMRNFGKYVGMAYQLWNDIVDVIGSPEMREKTGRDMMRDKATYPKLVGIDGSKKHA 259
++ +G +Q+ +D++D PE K G D+ K ++ + + +
Sbjct: 258 VDMGVTEELAMLMGEYFQVQDDVMDCFTPPERLGKVGTDIQDAKCSWLAVTFLAKASSAQ 317
Query: 260 KELIAEA 266
Sbjct: 318 VAEFKAN 324
>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 = 125 bits (317), Expect = 2e-34
Identities = 50/301 (16%), Positives = 103/301 (34%), Gaps = 50/301 (16%)
Query: 33 EAVPLPHPAILHEAMRYSL-PGGKRLMSTLCIASCEMIGGSQSVAMSMACAIELLVTMAV 91
E IL E +Y L GK++ + L A + + + E+L ++
Sbjct: 3 EKTQETVQRILLEPYKYLLQLPGKQVRTKLSQAFNHWLKVPEDKLQIIIEVTEMLHNASL 62
Query: 92 IQDDLPCLDNDDLRRGKPSNHKVFGEATAILACQALHCLAMQHIAIIKAKNINSAVGSE- 150
+ DD+ DN LRRG P H ++G + I + ++ L ++ + + + +
Sbjct: 63 LIDDI--EDNSKLRRGFPVAHSIYGIPSVINSANYVYFLGLEKVLTLDHPDAVKLFTRQL 120
Query: 151 -GIAAGQIMDINSEGKEVSLSELNFIH--RHKTGKFIEASIVSGVIIGGGNEEEIERMRN 207
+ GQ +DI +E + KTG ++ + E+ ++
Sbjct: 121 LELHQGQGLDIYWRDNYTCPTEEEYKAMVLQKTGGLFGLAVGLMQLFSDYKED----LKP 176
Query: 208 FGKYVGMAYQLWNDIVDVIGSPEMREK-TGRDMMRDKATYP------------------- 247
+G+ +Q+ +D ++ K D+ K ++P
Sbjct: 177 LLNTLGLFFQIRDDYANLHSKEYSENKSFCEDLTEGKFSFPTIHAIWSRPESTQVQNILR 236
Query: 248 -----------------KLVGIDGSKKHAKELIAEAKQELAYFD--PTRAAPLDHLVNFI 288
+ + ++ KEL A+A +++ P A + HL
Sbjct: 237 QRTENIDIKKYCVHYLEDVGSFEYTRNTLKELEAKAYKQIDARGGNPELVALVKHLSKMF 296
Query: 289 V 289
Sbjct: 297 K 297
>3oyr_A Trans-isoprenyl diphosphate synthase; isoprenyl synthase, PSI,
protein structure initiative; HET: IPE; 2.00A
{Caulobacter crescentus}
Length = 345
Score = 123 bits (312), Expect = 3e-33
Identities = 72/312 (23%), Positives = 129/312 (41%), Gaps = 55/312 (17%)
Query: 25 KQINEALDEAVPLPHPAILHEAMRYSLP-GGKRLMSTLCIASCEMIGGSQSVAMSMACAI 83
+ I + + V + + + + GGKRL + +A+ + G +A A+
Sbjct: 40 RLITDRMQSDVAI-----IPALAEHLIAAGGKRLRPLMTVAAARLAGADNDHFQKLAAAV 94
Query: 84 ELLVTMAVIQDDLPCLDNDDLRRGKPSNHKVFGEATAILACQALHCLAMQHIAIIKAKNI 143
E + T ++ DD+ +D LRRGK + H ++G A ++L L A + + +
Sbjct: 95 EFIHTATLLHDDV--VDGSQLRRGKVAAHLIWGGAQSVLVGDFLFARAFELMVETNSMKA 152
Query: 144 NS--AVGSEGIAAGQIMDINSEGKEVSLSE---LNFIHRHKTGKFIEASIVSGVIIGGGN 198
A S IA G+++ + +++LS+ L I KT + A+ +G + G +
Sbjct: 153 LEILARASRVIAEGEVLQLMRSH-DLNLSQAVYLEIIQA-KTAELFAAASEAGAVSAGVD 210
Query: 199 EEEIERMRNFGKYVGMAYQLWNDIVDVIGSPEMREK-TGRDMMRDKATYP---------- 247
+ E +R++G +G+A+QL +D +D G+ E K G D KAT P
Sbjct: 211 VAKSEALRDYGLNLGLAFQLADDALDYGGATETLGKNAGDDFREGKATLPLLLAIARSGP 270
Query: 248 ------------------------KLV----GIDGSKKHAKELIAEAKQELAYFDPTRA- 278
+L+ +D + A + +AK LA F
Sbjct: 271 REAEFWERAIGRREQTEADFRRARELIIGSGALDATLDLAADYADKAKAALAMFPANDWR 330
Query: 279 APLDHLVNFIVS 290
L+ L +F VS
Sbjct: 331 EALEELADFAVS 342
>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 = 121 bits (307), Expect = 1e-32
Identities = 60/313 (19%), Positives = 112/313 (35%), Gaps = 54/313 (17%)
Query: 25 KQINEALDEAVPLPHPAILHEAMRYSLP-GGKRLMSTLCIASCEMIGGS-QSVAMSMACA 82
+ + L V L + +H + L GGK L + + + A A
Sbjct: 26 TALQDYLLRTVQLDNQ-PIHHKILALLKSGGKLLRPGYFYLFSTFGNAATPAQLQAGAAA 84
Query: 83 IELLVTMAVIQDDLPCLDNDDLRRGKPSNHKVFGEATAILA-----CQALHCLAMQHIAI 137
IE+L +I DD+ +D+ RRG + +G+ AI A + ++
Sbjct: 85 IEILHVGTLIHDDV--IDDSPTRRGVRTIQMTYGQRNAIYAGDFMFTVYFDQV-LKSTTD 141
Query: 138 IKAKNINSAVGSEGIAAGQIMDINSEGK-EVSLSE-LNFIHRHKTGKFIEASIVSGVIIG 195
+ I G++ ++ + +++L LN I KT + S G +
Sbjct: 142 RSLIQNHIDA-MHRILQGELHQMDLNYREDITLDAYLNEIAG-KTAELFALSCYQGAQLA 199
Query: 196 GGNEEEIERMRNFGKYVGMAYQLWNDIVDVIGSPEMREK-TGRDMMRDKATYP------- 247
G + I+R R+ G +G AYQ+ +DI+D G P+ +K D+ + P
Sbjct: 200 GAPQSVIDRTRDIGIAIGCAYQMLDDILDYAGDPKRTQKPVLEDLRSGVYSLPLLLSLSH 259
Query: 248 ------------------------KLV----GIDGSKKHAKELIAEAKQELAYFD--PTR 277
LV G+ +K+ A++ A + +
Sbjct: 260 APRDFHKLLKKKQAMTLEDIKHVQALVAQYDGVGAAKQLAQDYTDRALTLIQQLPVGSAQ 319
Query: 278 AAPLDHLVNFIVS 290
+ L+ L ++
Sbjct: 320 QS-LEQLTRLLLR 331
>3mzv_A Decaprenyl diphosphate synthase; transferase, structural genomics,
PSI-2, protein structure initiative; 1.90A {Rhodobacter
capsulatus}
Length = 341
Score = 121 bits (306), Expect = 2e-32
Identities = 68/313 (21%), Positives = 130/313 (41%), Gaps = 52/313 (16%)
Query: 25 KQINEALDEAVPLPHPAILHEAMRYSLP-GGKRLMSTLCIASCEMIGGSQSVAMSMACAI 83
+N + E + H + E + + GGKRL L +A+ ++G + +A +
Sbjct: 23 AAVNALIRERMSSEHAPRIPEVTAHLIEAGGKRLRPMLTLAAARLVGYGGPFHVHLAATV 82
Query: 84 ELLVTMAVIQDDLPCLDNDDLRRGKPSNHKVFGEATAILACQALHCLAMQHIAIIKAKNI 143
E + T ++ DD+ +D RRG+P+ + ++ +++L L + Q + +
Sbjct: 83 EFIHTATLLHDDV--VDESRQRRGRPTANLLWDNKSSVLVGDYLFARSFQLMTDTGNMRV 140
Query: 144 NS--AVGSEGIAAGQIMDINSEGKEVSLSE---LNFIHRHKTGKFIEASIVSGVIIGGGN 198
A S IA G+++ + + ++ +E L I R KT A+ G IIGG
Sbjct: 141 MEILANASAVIAEGEVLQLTAAQ-NLATTEDIYLRVI-RGKTAALFSAATEVGGIIGGAP 198
Query: 199 EEEIERMRNFGKYVGMAYQLWNDIVDVIGSPEMREK-TGRDMMRDKATYP---------- 247
E++++ + ++G +G+A+Q+ +D++D G K TG D K T P
Sbjct: 199 EDQVQALFDYGDALGIAFQIVDDLLDYGGKSAEIGKNTGDDFRERKLTMPVIKAVALADE 258
Query: 248 ------------------------KLV----GIDGSKKHAKELIAEAKQELAYFD--PTR 277
L+ ++ ++ A A++ LA P R
Sbjct: 259 AERAFWKRVIEKGDQQDGDLEHAMALMTKHGTLEATRLAAIGWTDTARKALAKLPDHPLR 318
Query: 278 AAPLDHLVNFIVS 290
LD L +++V
Sbjct: 319 QM-LDDLADYVVE 330
>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 = 121 bits (306), Expect = 2e-32
Identities = 46/285 (16%), Positives = 99/285 (34%), Gaps = 27/285 (9%)
Query: 2 INSQRNDTLPKFFQVNEYKALKAKQINEALDEAVPLPHPAI--LHEAMRYSLPGGKRLMS 59
+ Q F + + + + L + P I + Y++ GK +
Sbjct: 17 LYFQGEYDYTDFINYYDKFKVIVYNVLKKLPLNDEIRKPVIEYYLNCIDYNVKKGKHIRG 76
Query: 60 TLCIASCEMIGGSQSV----AMSMACAIELLVTMAVIQDDLPCLDNDDLRRGKPSNHKVF 115
+ + + ++ + +E + + +I DD+ +D+ RRG P + V
Sbjct: 77 KILVLISSLSSAYSNIKRDSIYLLGWVVEAIQALILIADDI--MDSGKFRRGAPCWYIVH 134
Query: 116 GEATAILACQALHCLAMQHIAIIKAKNINSAVG---------SEGIAAGQIMDINSEGK- 165
G++ AI L L++ I + + N V GQ +D++
Sbjct: 135 GQSNAINDIFFLKMLSLSLIFELSSVFGNDIVMKIQKIYNESIFFTVLGQHLDLSYFDLS 194
Query: 166 --EVSLSELNFIHRHKTGK-FIEASIVSGVIIGGGN--EEEIERMRNFGKYVGMAYQLWN 220
+ + KT + + G+ + ++ + +G YQ+ N
Sbjct: 195 KADKISERYFSMVEMKTSRYTFYMPVFFGLTLSEIQVSSAQLNLIEAILYKLGEFYQVHN 254
Query: 221 DIVDVIGSPEMREKTGRDMMRDKATYPKLVGIDGSKKHAKELIAE 265
D+ D + + D+ R K T+P + + + K I+E
Sbjct: 255 DVSDYLFND----SNADDICRFKLTWPLQKSFEIADEEMKLKISE 295
>3rmg_A Octaprenyl-diphosphate synthase; structural genomics, protein
structure initiative, isoprene biosynthesis,
transferase; 2.30A {Bacteroides thetaiotaomicron}
Length = 334
Score = 120 bits (302), Expect = 5e-32
Identities = 61/311 (19%), Positives = 119/311 (38%), Gaps = 54/311 (17%)
Query: 25 KQINEALDEAVPLPHPAILHEAMRYSLP-GGKRLMSTLCIASCEMIGGSQSVAMSMACAI 83
+ L ++ L L + + GK + L + + G + A ++
Sbjct: 22 ALFDTPLSDSNAL-----LDSVITHIRKRNGKMMRPILVLLVARLYGAVTPATLHAAVSL 76
Query: 84 ELLVTMAVIQDDLPCLDNDDLRRGKPSNHKVFGEATAILACQALHCLAMQHIAIIKAKNI 143
ELL T +++ DD+ +D RRG+ S + +F ++LA L ++ H I
Sbjct: 77 ELLHTASLVHDDV--VDESTERRGQLSVNAIFNNKVSVLAGDYLLATSLVHAEQTNNYEI 134
Query: 144 NS--AVGSEGIAAGQIMDINSEGKEVSLSELNFIH--RHKTGKFIEASIVSGVIIGGGNE 199
+ + +A G+++ +++ S SE + R KT A + + E
Sbjct: 135 IRLVSSLGQKLAEGELLQLSNVS-NHSFSEEVYFDVIRKKTAALFAACAEAAALSVQVGE 193
Query: 200 EEIERMRNFGKYVGMAYQLWNDIVDVIGSPEMREKTGRDMMRDKATYP------------ 247
EE+ R G+Y+G+ +Q+ +DI D S ++ + TG DM+ K T P
Sbjct: 194 EEVAFARLLGEYIGICFQIKDDIFDYFDSKKIGKPTGNDMLEGKLTLPALYALNTTKDAW 253
Query: 248 ----------------------KLV----GIDGSKKHAKELIAEAKQELAYFD--PTRAA 279
+ GI+ + + ++ +A LA A
Sbjct: 254 AEQIAFKVKEGTATPDEIVRLIEFTKDNGGIEYACRTIEQYKKKAFDLLAALPDSNICLA 313
Query: 280 PLDHLVNFIVS 290
L ++++V+
Sbjct: 314 -LRTYLDYVVA 323
>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 = 119 bits (300), Expect = 1e-31
Identities = 46/287 (16%), Positives = 106/287 (36%), Gaps = 24/287 (8%)
Query: 22 LKAKQINEALDEAVPL------PHPAILHEAMRYSL-PGGKRLMSTLCIASCEMIGGSQS 74
+ ++ +DE + + +++ + + L GK L + ++ +
Sbjct: 1 MTKNKMEAKIDELINNDPVWSSQNESLISKPYNHILLKPGKNFRLNLIVQINRVMNLPKD 60
Query: 75 VAMSMACAIELLVTMAVIQDDLPCLDNDDLRRGKPSNHKVFGEATAILACQALHCLAMQH 134
++ +ELL +++ DD+ DN LRRG+ ++H +FG + I ++ AMQ
Sbjct: 61 QLAIVSQIVELLHNSSLLIDDI--EDNAPLRRGQTTSHLIFGVPSTINTANYMYFRAMQL 118
Query: 135 IAIIKAKNINSAVGSE-------GIAAGQIMDI----NSEGKEVSLSE-LNFIHRHKTGK 182
++ + K + GQ +DI + LN + KTG
Sbjct: 119 VSQLTTKEPLYHNLITIFNEELINLHRGQGLDIYWRDFLPEIIPTQEMYLNMVMN-KTGG 177
Query: 183 FIEASIVSGVIIGGGNEEEIERMRNFGKYVGMAYQLWNDIVDVIGSPEMREK-TGRDMMR 241
++ + + + F +G+ YQ+ +D +++ EK D+
Sbjct: 178 LFRLTLRLMEALSPSSHHG-HSLVPFINLLGIIYQIRDDYLNLKDFQMSSEKGFAEDITE 236
Query: 242 DKATYPKLVGIDGSKKHAKELIAEAKQELAYFDPTRAAPLDHLVNFI 288
K ++P + ++ +K + + + L+ +
Sbjct: 237 GKLSFPIVHALNFTKTKGQTEQHNEILRILLLRTSDKDIKLKLIQIL 283
>3aqb_B Component B of hexaprenyl diphosphate synthase; prenyltransferase,
transferase; 2.40A {Micrococcus luteus} PDB: 3aqc_B*
Length = 325
Score = 118 bits (299), Expect = 1e-31
Identities = 67/317 (21%), Positives = 122/317 (38%), Gaps = 64/317 (20%)
Query: 25 KQINEALDEAVPLPHPAILHEAMRYSLP-GGKRLMSTLCIASCEMIGGSQSVAMSMACAI 83
K++ E + +++A + L GGKR+ + S + + + A ++
Sbjct: 19 KRLYECIQSDSET-----INKAAHHILSSGGKRVRPMFVLLSGFLNDTQKDDLIRTAVSL 73
Query: 84 ELLVTMAVIQDDLPCLDNDDLRRGKPSNHKVFGEATAILA-----CQALHCLA-MQHIAI 137
EL+ +++ DD +DN D+RRG S H F + TAI +AL +A + +
Sbjct: 74 ELVHMASLVHDDY--IDNSDMRRGNTSVHIAFDKDTAIRTGHFLLARALQNIATINNSKF 131
Query: 138 IKAKNINSAVGSEGIAAGQIMDINSEGKEVSLSE---LNFIHRHKTGKFIEASIVSGVII 194
+ I S E + G+ + +S L I+R KT IEAS G +
Sbjct: 132 HQ---IFSKTILE-VCFGEFDQMADRF-NYPVSFTAYLRRINR-KTAILIEASCHLGALS 185
Query: 195 GGGNEEEIERMRNFGKYVGMAYQLWNDIVDVIGSPEMREK-TGRDMMRDKATYP------ 247
+E+ ++ FG +GM+YQ+ +DI+D K G D+ TYP
Sbjct: 186 SQLDEQSTYHIKQFGHCIGMSYQIIDDILDYTSDEATLGKPVGSDIRNGHITYPLMAAIA 245
Query: 248 ---------------------------------KLVGIDGSKKHAKELIAEAKQELAYFD 274
K GI+ ++ +++ +AK L+
Sbjct: 246 NLKEQDDDKLEAVVKHLTSTSDDEVYQYIVSQVKQYGIEPAELLSRKYGDKAKYHLSQLQ 305
Query: 275 PTRA-APLDHLVNFIVS 290
+ L+ + ++
Sbjct: 306 DSNIKDYLEEIHEKMLK 322
>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 = 112 bits (283), Expect = 4e-29
Identities = 63/310 (20%), Positives = 107/310 (34%), Gaps = 53/310 (17%)
Query: 25 KQINEALDEAVPLPHPAILHEAMRYSLP-GGKRLMSTLCIASCEMIGGSQS-VAMSMACA 82
+ ++ L L + + + GGKR + + E S + A
Sbjct: 49 ELLHTELSSGEDF-----LVDIVMHLTRAGGKRFRPMFALLASEFGEKPLSENVIKAAVV 103
Query: 83 IELLVTMAVIQDDLPCLDNDDLRRGKPSNHKVFGEATAILACQALHCLAMQHIAIIKAKN 142
+E+ + DD+ +D +RRG PS + + + AILA L A ++ +
Sbjct: 104 VEITHLATLYHDDV--MDEASMRRGVPSANARWDNSVAILAGDILLAHASGLMSQLGTDT 161
Query: 143 INS-AVGSEGIAAGQIMDINSEGKEVSLSE-LNFIHRHKTGKFIEASIVSGVIIGGGNEE 200
+ A + GQ+ + + N I KTG I ++ G + G E
Sbjct: 162 VAHFAETFGELVTGQMRETVGPRDTDPIEHYTNVIRE-KTGVLIASAGYLGAMHAGAAPE 220
Query: 201 EIERMRNFGKYVGMAYQLWNDIVDVIGSPEMREKT-GRDMMRDKATYP------------ 247
I+ ++NFG VGM +Q+ +DI+D+ KT G D+ T P
Sbjct: 221 HIDALKNFGAAVGMIFQIVDDIIDIFSETHESGKTPGTDLREGVFTLPVLYALREDTPVG 280
Query: 248 ---------------------KLV----GIDGSKKHAKELIAEAKQELAYF--DPTRAAP 280
+L+ G + + A EL + A
Sbjct: 281 AELRDILTGPLEDDETVNHVLELLSQSGGRQAALDEVYRYMDIANAELDRLPDSTVKEA- 339
Query: 281 LDHLVNFIVS 290
L +L F V
Sbjct: 340 LRNLATFTVK 349
>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 = 108 bits (273), Expect = 5e-28
Identities = 50/232 (21%), Positives = 105/232 (45%), Gaps = 23/232 (9%)
Query: 25 KQINEALDEAVPLPHPAILHEAMRYSLP-GGKRLMSTLCIASCEMIGGSQS-VAMSMACA 82
+++ E +++ + E + LP GK L L I S + G A+S A
Sbjct: 14 EKVKERIEQILS----QFFPEQIMKDLPLYGKMLRVRLSILSFKNRGVEIGEDAISSLAA 69
Query: 83 IELLVTMAVIQDDLPCLDNDDLRRGKPSNHKVFGEATAILA-----CQALHCLA-MQHIA 136
+EL+ +++ DD+ +D RRGK + + ++G+ A+ A A H + + +
Sbjct: 70 LELVHLASLLHDDV--IDGARFRRGKETINFMYGDKAAVAAGDLVLVSAFHTVEEIGNNK 127
Query: 137 IIKAKNINSAVGSEGIAAGQIMDINSEGKEVSLSE-LNFIHRHKTGKFIEASIVSGVIIG 195
+ + V + ++ ++++ S K ++ E L + K+G ++ ++
Sbjct: 128 LRR---AFLNVIGK-MSEAELIEQLSRYKPITKEEYLRIVEG-KSGALFGLALQLPALLE 182
Query: 196 GGNEEEIERMRNFGKYVGMAYQLWNDIVDVIGSPEMREKTGRDMMRDKATYP 247
G E E + N G +G YQ+++DI+D G ++ + D+ A++P
Sbjct: 183 G---ELGEDLYNLGVTIGTIYQMFDDIMDFAGMEKIGKDGFLDLKNGVASFP 231
>3tc1_A Octaprenyl pyrophosphate synthase; all alpha-helices fold,
transferase; 2.00A {Helicobacter pylori}
Length = 315
Score = 107 bits (270), Expect = 2e-27
Identities = 52/253 (20%), Positives = 107/253 (42%), Gaps = 17/253 (6%)
Query: 25 KQINEALDEAVPLPHPAILHEAMRYSLP-GGKRLMSTLCIASCEMIGGSQSVAMSMACAI 83
K I + + + E P R L + + + A+++ +
Sbjct: 7 KAIQNKIASWIKEIESGFIDELFSKIGPSKMLRSKLMLALLNEKTDAILLDKALNLCTIV 66
Query: 84 ELLVTMAVIQDDLPCLDNDDLRRGKPSNHKVFGEATAILA-----CQALHCLAMQHIAII 138
E++ T +++ DD+ +D +RR PS + +FG A++ +A + + +
Sbjct: 67 EMIQTASLLHDDV--IDKATMRRKLPSINALFGNFNAVMLGDVFYSKAF--FELSKMGEL 122
Query: 139 KAKNINSAVGSEGIAAGQIMDINSEGK-EVSLSELNFIHRHKTGKFIEASIVSGVIIGGG 197
A+ +++AV ++ G+I D+ + I KT FIEAS+ S I+
Sbjct: 123 IAQALSNAVLR--LSRGEIEDVFVGECFNSDKQKYWRILEDKTAHFIEASLKSMAILLN- 179
Query: 198 NEEEIERMRNFGKYVGMAYQLWNDIVDVIGSPEMREK-TGRDMMRDKATYPKLVGIDGSK 256
++ + +FG GMA+Q+ +D++D+ + K D K T P L+ +
Sbjct: 180 --KDAKIYADFGLNFGMAFQIIDDLLDITQDAKTLGKPNFSDFKEGKTTLPYLLLYEKLN 237
Query: 257 KHAKELIAEAKQE 269
+H + L+ ++
Sbjct: 238 QHDQGLLISYFKQ 250
>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 = 102 bits (256), Expect = 2e-25
Identities = 66/337 (19%), Positives = 119/337 (35%), Gaps = 81/337 (24%)
Query: 25 KQINEALDEAVPLPHPAILHEAMRY---SLPGGKRLMSTLCIASCEMIGGSQSVA----- 76
++ L E V P L A Y GK+ ST+ + + A
Sbjct: 19 SLLSNKLREMVLAEVP-KLASAAEYFFKRGVQGKQFRSTILLLMATALDVRVPEALIGES 77
Query: 77 ------------MSMACAIELLVTMAVIQDDLPCLDNDDLRRGKPSNHKVFGEATAILA- 123
+A E++ +++ DD+ LD+ D RRG S + V G ++LA
Sbjct: 78 TDIVTSELRVRQRGIAEITEMIHVASLLHDDV--LDDADTRRGVGSLNVVMGNKMSVLAG 135
Query: 124 ----CQALHCLA-MQHIAIIKAKNINSAVGSEGIAAGQIMDINSEGKEVSLSE---LNFI 175
+A LA +++ ++ + + E + G+ M+I S E S +
Sbjct: 136 DFLLSRACGALAALKNTEVVA---LLATA-VEHLVTGETMEITSST-EQRYSMDYYMQKT 190
Query: 176 HRHKTGKFIEASIVSGVIIGGGNEEEIERMRNFGKYVGMAYQLWNDIVDVIGSPEMREK- 234
+ KT I S + ++ G E +G+ +G+A+QL +DI+D G+ K
Sbjct: 191 YY-KTASLISNSCKAVAVLTGQTAEVAVLAFEYGRNLGLAFQLIDDILDFTGTSASLGKG 249
Query: 235 TGRDMMRDKATYP-----------------------------KLV----GIDGSKKHAKE 261
+ D+ T P + + GI +++ A E
Sbjct: 250 SLSDIRHGVITAPILFAMEEFPQLREVVDQVEKDPRNVDIALEYLGKSKGIQRARELAME 309
Query: 262 LIAEAKQELAYFDPT--------RAAPLDHLVNFIVS 290
A + T R A L L + +++
Sbjct: 310 HANLAAAAIGSLPETDNEDVKRSRRA-LIDLTHRVIT 345
>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 = 40.4 bits (94), Expect = 6e-04
Identities = 34/208 (16%), Positives = 59/208 (28%), Gaps = 79/208 (37%)
Query: 116 GEATAILACQALHCLAMQHI--AIIKAKNINSAVGSEGIAAGQIMDINSEGKEVSLSEL- 172
G+ +L L + ++ +I++ + ++ V EL
Sbjct: 78 GQFDQVLN------LCLTEFENCYLEGNDIHALAAK--------LLQENDTTLVKTKELI 123
Query: 173 -NFIH-RHKTGKFIEASIVSG-------------VIIGG-GNEEEIERMRNFGKYVGMAY 216
N+I R + + S I GG GN ++ Y
Sbjct: 124 KNYITARIMAKRPFDKKSNSALFRAVGEGNAQLVAIFGGQGNTDD---------YF---- 170
Query: 217 QLWNDIVDVIGSPEMREKTGRDMMRDKATYPKLVG--IDGSKKHAKELIAEAKQELAYF- 273
E+R+ TY LVG I S + ELI F
Sbjct: 171 ------------EELRDLY--------QTYHVLVGDLIKFSAETLSELIRTTLDAEKVFT 210
Query: 274 ----------DPTRAAPLDHLVNFIVSF 291
+P+ D+L++ +S
Sbjct: 211 QGLNILEWLENPSNTPDKDYLLSIPISC 238
Score = 40.4 bits (94), Expect = 7e-04
Identities = 42/269 (15%), Positives = 76/269 (28%), Gaps = 81/269 (30%)
Query: 71 GSQSVAMSMACAIELLVTMAVIQD-----DLPCLDN-----DDLRRGKPSNHKV-FGEAT 119
GSQ M M +L T QD D D D+ P N + FG
Sbjct: 1625 GSQEQGMGM----DLYKTSKAAQDVWNRADNHFKDTYGFSILDIVINNPVNLTIHFGGEK 1680
Query: 120 AILACQALHCLAMQHIAIIKAKNINSAVGSEGIAAGQIMDINS---EGKEVSLSELNF-- 174
+ + + A+I ++ + +E I S ++ LS F
Sbjct: 1681 G----KRIR---ENYSAMIFETIVDGKLKTEKIFKEINEHSTSYTFRSEKGLLSATQFTQ 1733
Query: 175 ---------IHRH--KTGKFIEASIVSG---------VIIGGGN--EEEIE--RMRNFGK 210
G + +G + E +E R G
Sbjct: 1734 PALTLMEKAAFEDLKSKGLIPADATFAGHSLGEYAALASLADVMSIESLVEVVFYR--GM 1791
Query: 211 YVGMAYQLWNDIVDVIGSPEMREKTGRDMMRDKATYPKLVGIDGSKKHAKELIAEAKQEL 270
+ +A R++ GR A P V S++ + ++ +
Sbjct: 1792 TMQVAVP--------------RDELGRSNYGMIAINPGRVAASFSQEALQYVVERVGKRT 1837
Query: 271 AYFDPTRAAPLDHLVNF------IVSFGN 293
+ ++ +VN+ V+ G+
Sbjct: 1838 GWL-------VE-IVNYNVENQQYVAAGD 1858
Score = 38.5 bits (89), Expect = 0.002
Identities = 32/194 (16%), Positives = 60/194 (30%), Gaps = 71/194 (36%)
Query: 18 EYKALKAKQINEALD--EAVPLPHPAILH---EAMRYSLPGGKRLMSTLCIASCEMIGGS 72
EY AL + + + + V + + M+ ++P + G
Sbjct: 1766 EYAALAS--LADVMSIESLVEV-----VFYRGMTMQVAVPRDE--------------LGR 1804
Query: 73 QSVAMSMACAIELLVTMAVIQDDLPCLDNDDLRRGKPSNHKVFGEATAILACQALHCLAM 132
+ M +A +A + L+ + G+ T L +
Sbjct: 1805 SNYGM-IAINPG---RVAAS------FSQEALQYVV----ERVGKRTGWL-VE------- 1842
Query: 133 QHIAIIKAKNINSAVGSEGIAAGQIMDINSEGKEVSLSE-LNFIHRHKTGKFIEASIVSG 191
I N N + +AAG + ++ +++ LNFI K IE S
Sbjct: 1843 --IV-----NYNVE-NQQYVAAGDLRALD------TVTNVLNFIKLQKI-DIIELQ-KSL 1886
Query: 192 VIIGGGNEEEIERM 205
+ EE+E
Sbjct: 1887 SL------EEVEGH 1894
Score = 30.4 bits (68), Expect = 1.00
Identities = 48/298 (16%), Positives = 88/298 (29%), Gaps = 95/298 (31%)
Query: 39 HPAILHEAMRYSLPGGKRLMSTLCIASCEMIGGS-QSVAMSMACAIELLVTMAV-IQDDL 96
P L ++ + + L++ + IA S +S +S+ AI +L + V +
Sbjct: 259 TPGELRSYLKGATGHSQGLVTAVAIAE----TDSWESFFVSVRKAITVLFFIGVRCYEAY 314
Query: 97 PCLD------NDDLRRGKPSNHKVFGEATAILACQALHCLAMQHIAIIKAKNINSAVGSE 150
P D L + G + +L+ L +Q + N + +
Sbjct: 315 PNTSLPPSILEDSLENNE-------GVPSPMLSISNLTQEQVQ--DYVNKTN-SHLPAGK 364
Query: 151 GIAAGQIMDINSE------GKEVSLSELNFIHRHKTGKFIEASIVSGVIIGGGNEEEI-- 202
+ I +N G SL LN + K +A G ++ I
Sbjct: 365 QVE---ISLVNGAKNLVVSGPPQSLYGLN-LTLRK----AKAP-------SGLDQSRIPF 409
Query: 203 -ERMRNFG------------KYVGMAYQ-----LWNDIVDVIGSPEMRE-----KTGRDM 239
ER F + A L + V + +++ G D
Sbjct: 410 SERKLKFSNRFLPVASPFHSHLLVPASDLINKDLVKNNVS-FNAKDIQIPVYDTFDGSD- 467
Query: 240 MRDKATY--PKLVGIDGSKKHAKELIAEAK---QELAYFDPTRAAPLDHLVNFIVSFG 292
+R + ++V + I + F T H I+ FG
Sbjct: 468 LRVLSGSISERIV----------DCIIRLPVKWETTTQFKAT------H----ILDFG 505
>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 = 35.2 bits (80), Expect = 0.023
Identities = 43/339 (12%), Positives = 101/339 (29%), Gaps = 124/339 (36%)
Query: 8 DTLPKFFQVNEYKALKAKQINEALDEAVPLP------HP---AILHEAMR--------YS 50
D +E K+L K ++ + LP +P +I+ E++R +
Sbjct: 292 DHHSMTLTPDEVKSLLLKYLDCRPQD---LPREVLTTNPRRLSIIAESIRDGLATWDNWK 348
Query: 51 LPGGKRLMSTLCIASC-EMIGGSQSVAMSMACAI---ELLVTMAVIQ---DDLPCLDNDD 103
+L + I S ++ ++ M ++ + ++ D+ D
Sbjct: 349 HVNCDKLTTI--IESSLNVLEPAEYRKMFDRLSVFPPSAHIPTILLSLIWFDVIKSDVMV 406
Query: 104 L-----------RRGKPSN---HKVFGEATAILACQALHCLAMQHIAIIKAKNINSAVGS 149
+ ++ K S ++ E L + + A+ H +I+ NI S
Sbjct: 407 VVNKLHKYSLVEKQPKESTISIPSIYLE----LKVKLENEYAL-HRSIVDHYNIPKTFDS 461
Query: 150 EGIAAGQI-----------MDINSEGKEVSLSE---LNFIHRHKTGKFIEASIVSGVIIG 195
+ + + + + ++L L+F +F+E I
Sbjct: 462 DDLIPPYLDQYFYSHIGHHLKNIEHPERMTLFRMVFLDF-------RFLEQKI------- 507
Query: 196 GGNEEEIERMRNFGKYVGMAYQLWNDIVDVIGSPEMREKTGRDMMRDKATYPKLVGIDGS 255
++ A WN ++ + ++ Y
Sbjct: 508 --------------RHDSTA---WNASGSIL-----------NTLQQLKFY--------- 530
Query: 256 KKHAKELIAEAKQELAYFDPTRAAPLDHLVNFIVSFGNN 294
K + I + DP ++ +++F+ N
Sbjct: 531 KPY----ICDN-------DPKYERLVNAILDFLPKIEEN 558
Score = 33.7 bits (76), Expect = 0.090
Identities = 29/224 (12%), Positives = 65/224 (29%), Gaps = 65/224 (29%)
Query: 85 LLVTMAVIQDDLPCLDNDDLRRGKPSNHKV---FGEATAILACQALHCLAMQHIAIIKAK 141
L V D+ C D D+ + S ++ A+ L + +K
Sbjct: 22 LSVFEDAFVDNFDCKDVQDMPKSILSKEEIDHIIMSKDAVSGTLRL-------FWTLLSK 74
Query: 142 NINSAVGSEGIAA--GQIMDINSEGKEVSLSELNFIHRHKTGKFIEASIVSGVIIGGGNE 199
E + +++ IN + F+ + I
Sbjct: 75 ------QEEMVQKFVEEVLRINYK-------------------FLMSPI---------KT 100
Query: 200 EEIERMRNFGKYVGMAYQLWNDIVDV----IGSPEMREKTGRDMMRDK-ATYPKLVGIDG 254
E+ + Y+ +L+ND + + K + ++ + A + G+ G
Sbjct: 101 EQRQPSMMTRMYIEQRDRLYNDNQVFAKYNVSRLQPYLKLRQALLELRPAKNVLIDGVLG 160
Query: 255 SKKHAKELIAEAKQELAYFDPTRAAPLDHLVNFIV---SFGNNN 295
S K + + + + ++F + + N N
Sbjct: 161 SGKTW--VALDV---------CLSYKVQCKMDFKIFWLNLKNCN 193
>3lvg_D LCB, clathrin light chain B; SELF assembly, coated PIT, cytoplasmic
vesicle, membrane, Ca structural protein; 7.94A {Bos
taurus}
Length = 190
Score = 31.7 bits (71), Expect = 0.20
Identities = 14/85 (16%), Positives = 29/85 (34%), Gaps = 34/85 (40%)
Query: 199 EEEIERMRNFGKYVGMAYQLWNDIVDVIGSPEMREKTGRDM-MRDKATYPKLVGIDGSKK 257
+E E +R W RE+ + + D A SK
Sbjct: 81 TQEPESIR-----------KW------------REEQRKRLQELDAA----------SKV 107
Query: 258 HAKELIAEAKQELAYFDPTRAAPLD 282
+E +AK++L ++ ++ ++
Sbjct: 108 MEQEWREKAKKDLEEWNQRQSEQVE 132
>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 = 26.8 bits (58), Expect = 5.3
Identities = 7/25 (28%), Positives = 13/25 (52%), Gaps = 5/25 (20%)
Query: 256 KKHAKELIAEAKQELAYFDPTRAAP 280
K+ K+L +A +L + +AP
Sbjct: 19 KQALKKL--QASLKL--YADD-SAP 38
Database: pdb70
Posted date: Sep 4, 2012 3:40 AM
Number of letters in database: 6,701,793
Number of sequences in database: 27,921
Lambda K H
0.319 0.134 0.387
Gapped
Lambda K H
0.267 0.0696 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 4,635,941
Number of extensions: 292690
Number of successful extensions: 906
Number of sequences better than 10.0: 1
Number of HSP's gapped: 728
Number of HSP's successfully gapped: 70
Length of query: 295
Length of database: 6,701,793
Length adjustment: 93
Effective length of query: 202
Effective length of database: 4,105,140
Effective search space: 829238280
Effective search space used: 829238280
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 (21.7 bits)
S2: 57 (25.8 bits)