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(-) Description

Title :  LIGAND-BOUND FORM OF ARABIDOPSIS MEDIUM/LONG-CHAIN LENGTH PRENYL PYROPHOSPHATE SYNTHASE (SURFACE POLAR RESIDUE MUTANT)
 
Authors :  F. -L. Hsieh, T. -H. Chang, T. -P. Ko, A. H. -J. Wang
Date :  24 Oct 10  (Deposition) - 19 Jan 11  (Release) - 29 Jan 14  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.65
Chains :  Asym. Unit :  A,B,C,D,E,F,G,H
Biol. Unit 1:  A,B  (1x)
Biol. Unit 2:  C,D  (1x)
Biol. Unit 3:  E,F  (1x)
Biol. Unit 4:  G,H  (1x)
Keywords :  Prenyltransferase, All Alpha-Helices Fold, Chroloplast, Transferase, Isoprenoid Biosynthetic Process (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  F. -L. Hsieh, T. -H. Chang, T. -P. Ko, A. H. -J. Wang
Structure And Mechanism Of An Arabidopsis Medium/Long-Chain-Length Prenyl Pyrophosphate Synthase
Plant Physiol. V. 155 1079 2011
PubMed-ID: 21220764  |  Reference-DOI: 10.1104/PP.110.168799

(-) Compounds

Molecule 1 - GERANYL DIPHOSPHATE SYNTHASE
    Chains: A, B, C, D, E, F, G, H
    EC Number: 2.5.1.30
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PET32
    Expression System Strain: BL21(DE3)
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Fragment: RESIDUES IN UNP 76-422
    Gene: ATNPPPS, GPPS
    Mutation: YES
    Organism Common: THALE-CRESS
    Organism Scientific: ARABIDOPSIS THALIANA
    Organism Taxid: 3702

 Structural Features

(-) Chains, Units

  12345678
Asymmetric Unit : ABCDEFGH
Biological Unit 1 (1x): AB      
Biological Unit 2 (1x):   CD    
Biological Unit 3 (1x):     EF  
Biological Unit 4 (1x):       GH

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (5, 24)

Asymmetric Unit (5, 24)
No.NameCountTypeFull Name
1FPP6Ligand/IonFARNESYL DIPHOSPHATE
2ISY2Ligand/Ion3-METHYLBUT-3-ENYLSULFANYL(PHOSPHONOOXY)PHOSPHINIC ACID
3MG8Ligand/IonMAGNESIUM ION
4PEG2Ligand/IonDI(HYDROXYETHYL)ETHER
5PPV6Ligand/IonPYROPHOSPHATE
Biological Unit 1 (4, 5)
No.NameCountTypeFull Name
1FPP2Ligand/IonFARNESYL DIPHOSPHATE
2ISY1Ligand/Ion3-METHYLBUT-3-ENYLSULFANYL(PHOSPHONOOXY)PHOSPHINIC ACID
3MG-1Ligand/IonMAGNESIUM ION
4PEG1Ligand/IonDI(HYDROXYETHYL)ETHER
5PPV1Ligand/IonPYROPHOSPHATE
Biological Unit 2 (3, 4)
No.NameCountTypeFull Name
1FPP1Ligand/IonFARNESYL DIPHOSPHATE
2ISY-1Ligand/Ion3-METHYLBUT-3-ENYLSULFANYL(PHOSPHONOOXY)PHOSPHINIC ACID
3MG-1Ligand/IonMAGNESIUM ION
4PEG1Ligand/IonDI(HYDROXYETHYL)ETHER
5PPV2Ligand/IonPYROPHOSPHATE
Biological Unit 3 (2, 3)
No.NameCountTypeFull Name
1FPP1Ligand/IonFARNESYL DIPHOSPHATE
2ISY-1Ligand/Ion3-METHYLBUT-3-ENYLSULFANYL(PHOSPHONOOXY)PHOSPHINIC ACID
3MG-1Ligand/IonMAGNESIUM ION
4PEG-1Ligand/IonDI(HYDROXYETHYL)ETHER
5PPV2Ligand/IonPYROPHOSPHATE
Biological Unit 4 (3, 4)
No.NameCountTypeFull Name
1FPP2Ligand/IonFARNESYL DIPHOSPHATE
2ISY1Ligand/Ion3-METHYLBUT-3-ENYLSULFANYL(PHOSPHONOOXY)PHOSPHINIC ACID
3MG-1Ligand/IonMAGNESIUM ION
4PEG-1Ligand/IonDI(HYDROXYETHYL)ETHER
5PPV1Ligand/IonPYROPHOSPHATE

(-) Sites  (24, 24)

Asymmetric Unit (24, 24)
No.NameEvidenceResiduesDescription
01AC1SOFTWAREASP A:107 , ASP A:111 , FPP A:1002BINDING SITE FOR RESIDUE MG A 1000
02AC2SOFTWAREASP A:107 , ASP A:111 , GLU A:169 , GLU A:172 , FPP A:1002BINDING SITE FOR RESIDUE MG A 1001
03AC3SOFTWAREALA A:102 , SER A:103 , HIS A:106 , ASP A:107 , ASP A:111 , ARG A:116 , GLU A:169 , LYS A:193 , HOH A:439 , MG A:1000 , MG A:1001 , ASP B:136BINDING SITE FOR RESIDUE FPP A 1002
04AC4SOFTWAREGLY A:50 , LYS A:51 , PHE A:53 , ARG A:54 , HIS A:100 , ARG A:117 , THR A:194 , ILE A:198 , HOH A:638BINDING SITE FOR RESIDUE ISY A 1003
05AC5SOFTWAREGLN B:49 , GLY B:50 , LYS B:51 , ARG B:54 , HIS B:100 , HOH B:659BINDING SITE FOR RESIDUE PPV B 1000
06AC6SOFTWAREPHE B:53 , ILE B:57 , ILE B:198 , GLY B:227 , PHE B:230 , LEU B:339 , ARG B:342 , VAL B:343 , ARG B:346 , ASN B:347 , LYS B:348 , PHE F:11 , HIS F:341BINDING SITE FOR RESIDUE FPP B 1001
07AC7SOFTWAREGLU B:32 , LYS B:35 , HOH B:616 , THR E:170 , PHE F:137BINDING SITE FOR RESIDUE PEG B 1002
08AC8SOFTWAREASP C:107 , ASP C:111 , GLU C:169 , GLU C:172 , FPP C:1002BINDING SITE FOR RESIDUE MG C 1000
09AC9SOFTWAREASP C:107 , ASP C:108 , ASP C:111 , ARG C:116 , FPP C:1002BINDING SITE FOR RESIDUE MG C 1001
10BC1SOFTWAREILE C:99 , SER C:103 , HIS C:106 , ASP C:107 , ASP C:111 , ARG C:116 , GLU C:169 , LYS C:193 , MG C:1000 , MG C:1001 , ASP D:136BINDING SITE FOR RESIDUE FPP C 1002
11BC2SOFTWARELYS C:51 , ARG C:54 , HIS C:100 , ARG C:117 , HOH C:426BINDING SITE FOR RESIDUE PPV C 1003
12BC3SOFTWAREARG D:54 , GLU D:97 , HIS D:100 , LEU D:104 , HOH D:373BINDING SITE FOR RESIDUE PPV D 1000
13BC4SOFTWARETHR C:170 , PHE D:137 , ARG D:141 , HOH D:611 , GLU G:32BINDING SITE FOR RESIDUE PEG D 1002
14BC5SOFTWAREASP E:107 , ASP E:111 , GLU E:172 , FPP E:1002BINDING SITE FOR RESIDUE MG E 1000
15BC6SOFTWAREASP E:107 , ASP E:111 , FPP E:1002BINDING SITE FOR RESIDUE MG E 1001
16BC7SOFTWARESER E:103 , HIS E:106 , ASP E:107 , ASP E:111 , ARG E:116 , GLU E:169 , LYS E:193 , HOH E:559 , MG E:1000 , MG E:1001 , ASP F:136BINDING SITE FOR RESIDUE FPP E 1002
17BC8SOFTWARELYS E:51 , ARG E:54 , HIS E:100 , ARG E:117 , HOH E:428 , HOH E:557BINDING SITE FOR RESIDUE PPV E 1003
18BC9SOFTWAREARG F:54 , HIS F:100 , HOH F:620BINDING SITE FOR RESIDUE PPV F 1000
19CC1SOFTWAREGLN G:49 , LYS G:51 , ARG G:54 , HIS G:100BINDING SITE FOR RESIDUE PPV G 1000
20CC2SOFTWAREPHE D:11 , HIS D:341 , PHE G:53 , ILE G:57 , PHE G:230 , LEU G:339 , VAL G:343 , ARG G:346 , ASN G:347 , LYS G:348 , HOH G:367 , HOH G:368 , HOH G:674BINDING SITE FOR RESIDUE FPP G 1001
21CC3SOFTWAREASP H:107 , ASP H:111 , GLU H:169 , FPP H:1002BINDING SITE FOR RESIDUE MG H 1000
22CC4SOFTWAREASP H:107 , ASP H:111 , FPP H:1002BINDING SITE FOR RESIDUE MG H 1001
23CC5SOFTWAREASP G:136 , ALA H:102 , SER H:103 , ASP H:107 , ASP H:111 , ARG H:116 , GLU H:169 , LYS H:193 , MG H:1000 , MG H:1001BINDING SITE FOR RESIDUE FPP H 1002
24CC6SOFTWAREGLY H:50 , LYS H:51 , PHE H:53 , ARG H:54 , HIS H:100 , ARG H:117 , THR H:194 , ILE H:198 , HOH H:353 , HOH H:377 , HOH H:386BINDING SITE FOR RESIDUE ISY H 1003

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 3AQ0)

(-) Cis Peptide Bonds  (11, 11)

Asymmetric Unit
No.Residues
1Glu A:32 -Val A:33
2Val B:48 -Gln B:49
3Leu B:246 -Gly B:247
4Phe D:43 -Phe D:44
5Ala F:31 -Glu F:32
6Phe F:43 -Phe F:44
7Met F:126 -Gly F:127
8Leu G:8 -Asp G:9
9Val G:124 -Val G:125
10Leu G:246 -Gly G:247
11Glu H:32 -Val H:33

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 3AQ0)

(-) PROSITE Motifs  (2, 16)

Asymmetric Unit (2, 16)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1POLYPRENYL_SYNTHASE_1PS00723 Polyprenyl synthases signature 1.SPS3_ARATH178-192
 
 
 
 
 
 
 		  8A:104-118
B:104-112
C:104-118
D:104-113
E:104-118
F:104-113
G:104-110
H:104-118
2POLYPRENYL_SYNTHASE_2PS00444 Polyprenyl synthases signature 2.SPS3_ARATH300-312
 
 
 
 
 
 
 		  8A:226-238
B:226-238
C:226-238
D:226-238
E:226-238
F:226-238
G:226-238
H:226-238
Biological Unit 1 (2, 4)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1POLYPRENYL_SYNTHASE_1PS00723 Polyprenyl synthases signature 1.SPS3_ARATH178-192
 
 
 
 
 
 
 		  2A:104-118
B:104-112
-
-
-
-
-
-
2POLYPRENYL_SYNTHASE_2PS00444 Polyprenyl synthases signature 2.SPS3_ARATH300-312
 
 
 
 
 
 
 		  2A:226-238
B:226-238
-
-
-
-
-
-
Biological Unit 2 (2, 4)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1POLYPRENYL_SYNTHASE_1PS00723 Polyprenyl synthases signature 1.SPS3_ARATH178-192
 
 
 
 
 
 
 		  2-
-
C:104-118
D:104-113
-
-
-
-
2POLYPRENYL_SYNTHASE_2PS00444 Polyprenyl synthases signature 2.SPS3_ARATH300-312
 
 
 
 
 
 
 		  2-
-
C:226-238
D:226-238
-
-
-
-
Biological Unit 3 (2, 4)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1POLYPRENYL_SYNTHASE_1PS00723 Polyprenyl synthases signature 1.SPS3_ARATH178-192
 
 
 
 
 
 
 		  2-
-
-
-
E:104-118
F:104-113
-
-
2POLYPRENYL_SYNTHASE_2PS00444 Polyprenyl synthases signature 2.SPS3_ARATH300-312
 
 
 
 
 
 
 		  2-
-
-
-
E:226-238
F:226-238
-
-
Biological Unit 4 (2, 4)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1POLYPRENYL_SYNTHASE_1PS00723 Polyprenyl synthases signature 1.SPS3_ARATH178-192
 
 
 
 
 
 
 		  2-
-
-
-
-
-
G:104-110
H:104-118
2POLYPRENYL_SYNTHASE_2PS00444 Polyprenyl synthases signature 2.SPS3_ARATH300-312
 
 
 
 
 
 
 		  2-
-
-
-
-
-
G:226-238
H:226-238

(-) Exons   (0, 0)

(no "Exon" information available for 3AQ0)

(-) Sequences/Alignments

Asymmetric Unit
   Reformat: Number of residues per line =  ('0' or empty: single-line sequence representation)
  Number of residues per labelling interval =   
  UniProt sequence: complete  aligned part    
   Show mapping: SCOP domains CATH domains Pfam domains Secondary structure (by author)
SAPs(SNPs) PROSITE motifs Exons
(details for a mapped element are shown in a popup box when the mouse pointer rests over it) 
Chain A from PDB  Type:PROTEIN  Length:326
 aligned with SPS3_ARATH | Q5HZ00 from UniProtKB/Swiss-Prot  Length:422

    Alignment length:341
                                    91       101       111       121       131       141       151       161       171       181       191       201       211       221       231       241       251       261       271       281       291       301       311       321       331       341       351       361       371       381       391       401       411       421 
           SPS3_ARATH    82 LDPFSLVADELSLLSNKLREMVLAEVPKLASAAEYFFKRGVQGKQFRSTILLLMATALNVRVPEALIGESTDIVTSELRVRQRGIAEITEMIHVASLLHDDVLDDADTRRGVGSLNVVMGNKMSVLAGDFLLSRACGALAALKNTEVVALLATAVEHLVTGETMEITSSTEQRYSMDYYMQKTYYKTASLISNSCKAVAVLTGQTAEVAVLAFEYGRNLGLAFQLIDDILDFTGTSASLGKGSLSDIRHGVITAPILFAMEEFPQLREVVDQVEKDPRNVDIALEYLGKSKGIQRARELAMEHANLAAAAIGSLPETDNEDVKRSRRALIDLTHRVITRNK 422
               SCOP domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ......hhhhhhhhhhhhhhhh...hhhhhhhhhh.........hhhhhhhhhhhhhh..---------------..hhhhhhhhhhhhhhhhhhhhhhhhhh....ee..eehhhhhhhhhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.........hhhhhh...hhhhhhhhhhh.hhhhhhhh.....hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.....hhhhhhhhhhhhhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------POLYPRENYL_SYNT-----------------------------------------------------------------------------------------------------------POLYPRENYL_SY-------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3aq0 A   8 LDPFSLVADELSLLSNKLREMVLAEVPKLASAAEYFFKRGVQGKQFRSTILLLMATALDV---------------SELRVRQRGIAEITEMIHVASLLHDDVLDDADTRRGVGSLNVVMGNKMSVLAGDFLLSRACGALAALKNTEVVALLATAVEHLVTGETMEITSSTAARYSMDYYMQKTYYKTASLISNSCKAVAVLTGQTAEVAVLAFEYGRNLGLAFQLIDDILDFTGTSASLGKGSLSDIRHGVITAPILFAMEEFPQLREVVDQVAADPRNVDIALEYLGKSKGIQRARELAMEHANLAAAAIGSLPETDNEDVKRSRRALIDLTHRVITRNK 348
                                    17        27        37        47        57        67         -     |  87        97       107       117       127       137       147       157       167       177       187       197       207       217       227       237       247       257       267       277       287       297       307       317       327       337       347 
                                                                                      67              83                                                                                                                                                                                                                                                                         


Chain B from PDB  Type:PROTEIN  Length:313
 aligned with SPS3_ARATH | Q5HZ00 from UniProtKB/Swiss-Prot  Length:422

    Alignment length:340
                                    92       102       112       122       132       142       152       162       172       182       192       202       212       222       232       242       252       262       272       282       292       302       312       322       332       342       352       362       372       382       392       402       412       422
           SPS3_ARATH    83 DPFSLVADELSLLSNKLREMVLAEVPKLASAAEYFFKRGVQGKQFRSTILLLMATALNVRVPEALIGESTDIVTSELRVRQRGIAEITEMIHVASLLHDDVLDDADTRRGVGSLNVVMGNKMSVLAGDFLLSRACGALAALKNTEVVALLATAVEHLVTGETMEITSSTEQRYSMDYYMQKTYYKTASLISNSCKAVAVLTGQTAEVAVLAFEYGRNLGLAFQLIDDILDFTGTSASLGKGSLSDIRHGVITAPILFAMEEFPQLREVVDQVEKDPRNVDIALEYLGKSKGIQRARELAMEHANLAAAAIGSLPETDNEDVKRSRRALIDLTHRVITRNK 422
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author hhhhhhhhhhhhhhhhh..........hhhhhhhhhhh.....hhhhhhhhhhhhh...---------------hhhhhhhhhhhhhhhhhhhhhhhhhh....------------....hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.........hhhhhh...hhhhhhhhhhh.hhhhhhhh.....hhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhh.....hhhhhhhhhhhhhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -----------------------------------------------------------------------------------------------POLYPRENYL_SYNT-----------------------------------------------------------------------------------------------------------POLYPRENYL_SY-------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3aq0 B   9 DPFSLVADELSLLSNKLREMVLAEVPKLASAAEYFFKRGVQGKQFRSTILLLMATALDV---------------SELRVRQRGIAEITEMIHVASLLHDDVLDD------------VMGNKMSVLAGDFLLSRACGALAALKNTEVVALLATAVEHLVTGETMEITSSTAARYSMDYYMQKTYYKTASLISNSCKAVAVLTGQTAEVAVLAFEYGRNLGLAFQLIDDILDFTGTSASLGKGSLSDIRHGVITAPILFAMEEFPQLREVVDQVAADPRNVDIALEYLGKSKGIQRARELAMEHANLAAAAIGSLPETDNEDVKRSRRALIDLTHRVITRNK 348
                                    18        28        38        48        58        |-         -    |   88        98       108   |     -      |128       138       148       158       168       178       188       198       208       218       228       238       248       258       268       278       288       298       308       318       328       338       348
                                                                                     67              83                          112          125                                                                                                                                                                                                                               


Chain C from PDB  Type:PROTEIN  Length:327
 aligned with SPS3_ARATH | Q5HZ00 from UniProtKB/Swiss-Prot  Length:422

    Alignment length:342
                                    89        99       109       119       129       139       149       159       169       179       189       199       209       219       229       239       249       259       269       279       289       299       309       319       329       339       349       359       369       379       389       399       409       419  
           SPS3_ARATH    80 EELDPFSLVADELSLLSNKLREMVLAEVPKLASAAEYFFKRGVQGKQFRSTILLLMATALNVRVPEALIGESTDIVTSELRVRQRGIAEITEMIHVASLLHDDVLDDADTRRGVGSLNVVMGNKMSVLAGDFLLSRACGALAALKNTEVVALLATAVEHLVTGETMEITSSTEQRYSMDYYMQKTYYKTASLISNSCKAVAVLTGQTAEVAVLAFEYGRNLGLAFQLIDDILDFTGTSASLGKGSLSDIRHGVITAPILFAMEEFPQLREVVDQVEKDPRNVDIALEYLGKSKGIQRARELAMEHANLAAAAIGSLPETDNEDVKRSRRALIDLTHRVITRN 421
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ...hhhhhhhhhhhhhhhhhhhhh...hhhhhhhhh..........hhhhhhhhhhhhhh..---------------hhhhhhhhhhhhhhhhhhhhhhhhhhhh....ee..eehhhhhhhhhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.........hhhhhh...hhhhhhhhhhh.hhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.....hhhhhhhhhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------POLYPRENYL_SYNT-----------------------------------------------------------------------------------------------------------POLYPRENYL_SY------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 3aq0 C   6 EELDPFSLVADELSLLSNKLREMVLAEVPKLASAAEYFFKRGVQGKQFRSTILLLMATALDV---------------SELRVRQRGIAEITEMIHVASLLHDDVLDDADTRRGVGSLNVVMGNKMSVLAGDFLLSRACGALAALKNTEVVALLATAVEHLVTGETMEITSSTAARYSMDYYMQKTYYKTASLISNSCKAVAVLTGQTAEVAVLAFEYGRNLGLAFQLIDDILDFTGTSASLGKGSLSDIRHGVITAPILFAMEEFPQLREVVDQVAADPRNVDIALEYLGKSKGIQRARELAMEHANLAAAAIGSLPETDNEDVKRSRRALIDLTHRVITRN 347
                                    15        25        35        45        55        65 |       -       |85        95       105       115       125       135       145       155       165       175       185       195       205       215       225       235       245       255       265       275       285       295       305       315       325       335       345  
                                                                                        67              83                                                                                                                                                                                                                                                                        


Chain D from PDB  Type:PROTEIN  Length:312
 aligned with SPS3_ARATH | Q5HZ00 from UniProtKB/Swiss-Prot  Length:422

    Alignment length:341
                                    91       101       111       121       131       141       151       161       171       181       191       201       211       221       231       241       251       261       271       281       291       301       311       321       331       341       351       361       371       381       391       401       411       421 
           SPS3_ARATH    82 LDPFSLVADELSLLSNKLREMVLAEVPKLASAAEYFFKRGVQGKQFRSTILLLMATALNVRVPEALIGESTDIVTSELRVRQRGIAEITEMIHVASLLHDDVLDDADTRRGVGSLNVVMGNKMSVLAGDFLLSRACGALAALKNTEVVALLATAVEHLVTGETMEITSSTEQRYSMDYYMQKTYYKTASLISNSCKAVAVLTGQTAEVAVLAFEYGRNLGLAFQLIDDILDFTGTSASLGKGSLSDIRHGVITAPILFAMEEFPQLREVVDQVEKDPRNVDIALEYLGKSKGIQRARELAMEHANLAAAAIGSLPETDNEDVKRSRRALIDLTHRVITRNK 422
               SCOP domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author hhhhhhhhhhhhhhhhhhhhhhh.....hhhhhhh...-----.hhhhhhhhhhhhh..----------------hhhhhhhhhhhhhhhhhhhhhhhhhh.....--------......hhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.........hhhhhh...hhhhhhhhhhh.hhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.....hhhhhhhhhhhhhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------POLYPRENYL_SYNT-----------------------------------------------------------------------------------------------------------POLYPRENYL_SY-------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3aq0 D   8 LDPFSLVADELSLLSNKLREMVLAEVPKLASAAEYFFK-----KQFRSTILLLMATALD----------------SELRVRQRGIAEITEMIHVASLLHDDVLDDA--------LNVVMGNKMSVLAGDFLLSRACGALAALKNTEVVALLATAVEHLVTGETMEITSSTAARYSMDYYMQKTYYKTASLISNSCKAVAVLTGQTAEVAVLAFEYGRNLGLAFQLIDDILDFTGTSASLGKGSLSDIRHGVITAPILFAMEEFPQLREVVDQVAADPRNVDIALEYLGKSKGIQRARELAMEHANLAAAAIGSLPETDNEDVKRSRRALIDLTHRVITRNK 348
                                    17        27        37       | -   |    57        |-         -     |  87        97       107     |   -    |  127       137       147       157       167       177       187       197       207       217       227       237       247       257       267       277       287       297       307       317       327       337       347 
                                                                45    51             66               83                           113      122                                                                                                                                                                                                                                  


Chain E from PDB  Type:PROTEIN  Length:325
 aligned with SPS3_ARATH | Q5HZ00 from UniProtKB/Swiss-Prot  Length:422

    Alignment length:340
                                    91       101       111       121       131       141       151       161       171       181       191       201       211       221       231       241       251       261       271       281       291       301       311       321       331       341       351       361       371       381       391       401       411       421
           SPS3_ARATH    82 LDPFSLVADELSLLSNKLREMVLAEVPKLASAAEYFFKRGVQGKQFRSTILLLMATALNVRVPEALIGESTDIVTSELRVRQRGIAEITEMIHVASLLHDDVLDDADTRRGVGSLNVVMGNKMSVLAGDFLLSRACGALAALKNTEVVALLATAVEHLVTGETMEITSSTEQRYSMDYYMQKTYYKTASLISNSCKAVAVLTGQTAEVAVLAFEYGRNLGLAFQLIDDILDFTGTSASLGKGSLSDIRHGVITAPILFAMEEFPQLREVVDQVEKDPRNVDIALEYLGKSKGIQRARELAMEHANLAAAAIGSLPETDNEDVKRSRRALIDLTHRVITRN 421
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .hhhhhhhhhhhhhhhhhhhhh...hhhhhhhhh..........hhhhhhhhhhhhhh.---------------.hhhhhhhhhhhhhhhhhhhhhhhhhhhh....ee..eehhhhhhhhhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.........hhhhhh...hhhhhhhhhhh.hhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.....hhhhhhhhhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------POLYPRENYL_SYNT-----------------------------------------------------------------------------------------------------------POLYPRENYL_SY------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3aq0 E   8 LDPFSLVADELSLLSNKLREMVLAEVPKLASAAEYFFKRGVQGKQFRSTILLLMATALD---------------TSELRVRQRGIAEITEMIHVASLLHDDVLDDADTRRGVGSLNVVMGNKMSVLAGDFLLSRACGALAALKNTEVVALLATAVEHLVTGETMEITSSTAARYSMDYYMQKTYYKTASLISNSCKAVAVLTGQTAEVAVLAFEYGRNLGLAFQLIDDILDFTGTSASLGKGSLSDIRHGVITAPILFAMEEFPQLREVVDQVAADPRNVDIALEYLGKSKGIQRARELAMEHANLAAAAIGSLPETDNEDVKRSRRALIDLTHRVITRN 347
                                    17        27        37        47        57        |-         -    |   87        97       107       117       127       137       147       157       167       177       187       197       207       217       227       237       247       257       267       277       287       297       307       317       327       337       347
                                                                                     66              82                                                                                                                                                                                                                                                                         


Chain F from PDB  Type:PROTEIN  Length:310
 aligned with SPS3_ARATH | Q5HZ00 from UniProtKB/Swiss-Prot  Length:422

    Alignment length:340
                                    92       102       112       122       132       142       152       162       172       182       192       202       212       222       232       242       252       262       272       282       292       302       312       322       332       342       352       362       372       382       392       402       412       422
           SPS3_ARATH    83 DPFSLVADELSLLSNKLREMVLAEVPKLASAAEYFFKRGVQGKQFRSTILLLMATALNVRVPEALIGESTDIVTSELRVRQRGIAEITEMIHVASLLHDDVLDDADTRRGVGSLNVVMGNKMSVLAGDFLLSRACGALAALKNTEVVALLATAVEHLVTGETMEITSSTEQRYSMDYYMQKTYYKTASLISNSCKAVAVLTGQTAEVAVLAFEYGRNLGLAFQLIDDILDFTGTSASLGKGSLSDIRHGVITAPILFAMEEFPQLREVVDQVEKDPRNVDIALEYLGKSKGIQRARELAMEHANLAAAAIGSLPETDNEDVKRSRRALIDLTHRVITRNK 422
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .....hhhhhhhhhhhhhhhhh.....hhhhhhh...----..hhhhhhhhhhhhh.-----------------hhhhhhhhhhhhhhhhhhhhhhhhh......---------....hhhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.........hhhhhh...hhhhhhhhhhh.hhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.....hhhhhhhhhhhhhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -----------------------------------------------------------------------------------------------POLYPRENYL_SYNT-----------------------------------------------------------------------------------------------------------POLYPRENYL_SY-------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3aq0 F   9 DPFSLVADELSLLSNKLREMVLAEVPKLASAAEYFFK----GKQFRSTILLLMATAL-----------------SELRVRQRGIAEITEMIHVASLLHDDVLDDA---------NVVMGNKMSVLAGDFLLSRACGALAALKNTEVVALLATAVEHLVTGETMEITSSTAARYSMDYYMQKTYYKTASLISNSCKAVAVLTGQTAEVAVLAFEYGRNLGLAFQLIDDILDFTGTSASLGKGSLSDIRHGVITAPILFAMEEFPQLREVVDQVAADPRNVDIALEYLGKSKGIQRARELAMEHANLAAAAIGSLPETDNEDVKRSRRALIDLTHRVITRNK 348
                                    18        28        38      |  - |      58      |  -         -    |   88        98       108    |    -    |  128       138       148       158       168       178       188       198       208       218       228       238       248       258       268       278       288       298       308       318       328       338       348
                                                               45   50             65                83                           113       123                                                                                                                                                                                                                                 


Chain G from PDB  Type:PROTEIN  Length:314
 aligned with SPS3_ARATH | Q5HZ00 from UniProtKB/Swiss-Prot  Length:422

    Alignment length:341
                                    91       101       111       121       131       141       151       161       171       181       191       201       211       221       231       241       251       261       271       281       291       301       311       321       331       341       351       361       371       381       391       401       411       421 
           SPS3_ARATH    82 LDPFSLVADELSLLSNKLREMVLAEVPKLASAAEYFFKRGVQGKQFRSTILLLMATALNVRVPEALIGESTDIVTSELRVRQRGIAEITEMIHVASLLHDDVLDDADTRRGVGSLNVVMGNKMSVLAGDFLLSRACGALAALKNTEVVALLATAVEHLVTGETMEITSSTEQRYSMDYYMQKTYYKTASLISNSCKAVAVLTGQTAEVAVLAFEYGRNLGLAFQLIDDILDFTGTSASLGKGSLSDIRHGVITAPILFAMEEFPQLREVVDQVEKDPRNVDIALEYLGKSKGIQRARELAMEHANLAAAAIGSLPETDNEDVKRSRRALIDLTHRVITRNK 422
               SCOP domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...hhhhhhhhhhhhhhh..........hhhhhhhhhh......hhhhhhhhhhhhh...--------------...hhhhhhhhhhhhhhhhhhhhhhhhh.-------------.....hhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.........hhhhhh...hhhhhhhhhhh.hhhhhhhh.....hhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhh.....hhhhhhhhhhhhhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------POLYPRENYL_SYNT-----------------------------------------------------------------------------------------------------------POLYPRENYL_SY-------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3aq0 G   8 LDPFSLVADELSLLSNKLREMVLAEVPKLASAAEYFFKRGVQGKQFRSTILLLMATALDV--------------TSELRVRQRGIAEITEMIHVASLLHDDVL-------------VVMGNKMSVLAGDFLLSRACGALAALKNTEVVALLATAVEHLVTGETMEITSSTAARYSMDYYMQKTYYKTASLISNSCKAVAVLTGQTAEVAVLAFEYGRNLGLAFQLIDDILDFTGTSASLGKGSLSDIRHGVITAPILFAMEEFPQLREVVDQVAADPRNVDIALEYLGKSKGIQRARELAMEHANLAAAAIGSLPETDNEDVKRSRRALIDLTHRVITRNK 348
                                    17        27        37        47        57        67         -    |   87        97       107  |      -      |127       137       147       157       167       177       187       197       207       217       227       237       247       257       267       277       287       297       307       317       327       337       347 
                                                                                      67             82                         110           124                                                                                                                                                                                                                                


Chain H from PDB  Type:PROTEIN  Length:324
 aligned with SPS3_ARATH | Q5HZ00 from UniProtKB/Swiss-Prot  Length:422

    Alignment length:340
                                    91       101       111       121       131       141       151       161       171       181       191       201       211       221       231       241       251       261       271       281       291       301       311       321       331       341       351       361       371       381       391       401       411       421
           SPS3_ARATH    82 LDPFSLVADELSLLSNKLREMVLAEVPKLASAAEYFFKRGVQGKQFRSTILLLMATALNVRVPEALIGESTDIVTSELRVRQRGIAEITEMIHVASLLHDDVLDDADTRRGVGSLNVVMGNKMSVLAGDFLLSRACGALAALKNTEVVALLATAVEHLVTGETMEITSSTEQRYSMDYYMQKTYYKTASLISNSCKAVAVLTGQTAEVAVLAFEYGRNLGLAFQLIDDILDFTGTSASLGKGSLSDIRHGVITAPILFAMEEFPQLREVVDQVEKDPRNVDIALEYLGKSKGIQRARELAMEHANLAAAAIGSLPETDNEDVKRSRRALIDLTHRVITRN 421
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ......hhhhhhhhhhhhhhhh...hhhhhhhhhh.........hhhhhhhhhhhhhh.----------------hhhhhhhhhhhhhhhhhhhhhhhhhhhh....ee..eehhhhhhhhhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.........hhhhhhh..hhhhhhhhhhh.hhhhhhhh.....hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.....hhhhhhhhhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------POLYPRENYL_SYNT-----------------------------------------------------------------------------------------------------------POLYPRENYL_SY------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3aq0 H   8 LDPFSLVADELSLLSNKLREMVLAEVPKLASAAEYFFKRGVQGKQFRSTILLLMATALD----------------SELRVRQRGIAEITEMIHVASLLHDDVLDDADTRRGVGSLNVVMGNKMSVLAGDFLLSRACGALAALKNTEVVALLATAVEHLVTGETMEITSSTAARYSMDYYMQKTYYKTASLISNSCKAVAVLTGQTAEVAVLAFEYGRNLGLAFQLIDDILDFTGTSASLGKGSLSDIRHGVITAPILFAMEEFPQLREVVDQVAADPRNVDIALEYLGKSKGIQRARELAMEHANLAAAAIGSLPETDNEDVKRSRRALIDLTHRVITRN 347
                                    17        27        37        47        57        |-         -     |  87        97       107       117       127       137       147       157       167       177       187       197       207       217       227       237       247       257       267       277       287       297       307       317       327       337       347
                                                                                     66               83
   Legend:   → Mismatch (orange background)
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  x → Chemical Group (purple background, 'x', labelled with number + name, e.g. ACE or NH2)
  extra numbering lines below/above indicate numbering irregularities and modified residue names etc., number ends below/above '|'

 Classification and Annotation

(-) SCOP Domains  (0, 0)

(no "SCOP Domain" information available for 3AQ0)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 3AQ0)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 3AQ0)

(-) Gene Ontology  (11, 11)

Asymmetric Unit(hide GO term definitions)
Chain A,B,C,D,E,F,G,H   (SPS3_ARATH | Q5HZ00)
molecular function
    GO:0052924    all-trans-nonaprenyl-diphosphate synthase (geranylgeranyl-diphosphate specific) activity    Catalysis of the reaction: geranylgeranyl diphosphate + 5 isopentenyl diphosphate = 5 diphosphate + all-trans-nonaprenyl diphosphate.
    GO:0046872    metal ion binding    Interacting selectively and non-covalently with any metal ion.
    GO:0004659    prenyltransferase activity    Catalysis of the transfer of a prenyl group from one compound (donor) to another (acceptor).
    GO:0050347    trans-octaprenyltranstransferase activity    Catalysis of the reaction: all-trans-octaprenyl diphosphate + isopentenyl diphosphate = all-trans-nonaprenyl diphosphate + diphosphate.
    GO:0016740    transferase activity    Catalysis of the transfer of a group, e.g. a methyl group, glycosyl group, acyl group, phosphorus-containing, or other groups, from one compound (generally regarded as the donor) to another compound (generally regarded as the acceptor). Transferase is the systematic name for any enzyme of EC class 2.
biological process
    GO:0009793    embryo development ending in seed dormancy    The process whose specific outcome is the progression of the embryo over time, from zygote formation to the end of seed dormancy. An example of this process is found in Arabidopsis thaliana.
    GO:0008299    isoprenoid biosynthetic process    The chemical reactions and pathways resulting in the formation of any isoprenoid compound, isoprene (2-methylbuta-1,3-diene) or compounds containing or derived from linked isoprene (3-methyl-2-butenylene) residues.
    GO:0006744    ubiquinone biosynthetic process    The chemical reactions and pathways resulting in the formation of ubiquinone, a lipid-soluble electron-transporting coenzyme.
cellular component
    GO:0009507    chloroplast    A chlorophyll-containing plastid with thylakoids organized into grana and frets, or stroma thylakoids, and embedded in a stroma.
    GO:0005739    mitochondrion    A semiautonomous, self replicating organelle that occurs in varying numbers, shapes, and sizes in the cytoplasm of virtually all eukaryotic cells. It is notably the site of tissue respiration.
    GO:0009536    plastid    Any member of a family of organelles found in the cytoplasm of plants and some protists, which are membrane-bounded and contain DNA. Plant plastids develop from a common type, the proplastid.

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  3aq0
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  2.5.1.30
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 Related Entries

(-) Entries Sharing at Least One Protein Chain (UniProt ID)

UniProtKB/Swiss-Prot
        SPS3_ARATH | Q5HZ00: 3apz

(-) Related Entries Specified in the PDB File

3apz WILD TYPE ATNPPPS