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(-) Description

Title :  CRYSTAL STRUCTURE OF POLYPRENYL PYROPHOSPHATE SYNTHASE 2 FROM ARABIDOPSIS THALIANA
 
Authors :  C. Wang, Q. Chen, D. Fan, J. Li, G. Wang, P. Zhang
Date :  14 Oct 15  (Deposition) - 11 Nov 15  (Release) - 11 Nov 15  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  3.03
Chains :  Asym./Biol. Unit :  A,B
Keywords :  Atppps2, Transferase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  C. Wang, Q. Chen, D. Fan, J. Li, G. Wang, P. Zhang
Structural Analyses Of Short-Chain Prenyltransferases Identify An Evolutionarily Conserved Gfpps Clade In Brassicaceae Plants
Mol Plant 2015
PubMed: search  |  Reference-DOI: 10.1016/J.MOLP.2015.10.010

(-) Compounds

Molecule 1 - GERANYLGERANYL PYROPHOSPHATE SYNTHASE 10, MITOCHONDRIAL
    Chains: A, B
    EC Number: 2.5.1.-, 2.5.1.1, 2.5.1.29, 2.5.1.10
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Taxid: 562
    Gene: AT3G20160, MAL21.19
    Organism Common: MOUSE-EAR CRESS
    Organism Scientific: ARABIDOPSIS THALIANA
    Organism Taxid: 3702
    Synonym: GGPS10,(2E,6E)-FARNESYL DIPHOSPHATE SYNTHASE 10, DIMETHYLALLYLTRANSTRANSFERASE 10,FARNESYL DIPHOSPHATE SYNTHASE 10, FARNESYLTRANSTRANSFERASE 10,GERANYLTRANSTRANSFERASE 10

 Structural Features

(-) Chains, Units

  12
Asymmetric/Biological Unit : AB

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (0, 0)

(no "Ligand,Modified Residues,Ions" information available for 5E8K)

(-) Sites  (0, 0)

(no "Site" information available for 5E8K)

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 5E8K)

(-) Cis Peptide Bonds  (4, 4)

Asymmetric/Biological Unit
No.Residues
1Glu A:34 -Pro A:35
2Gly A:51 -Lys A:52
3Pro B:35 -Glu B:36
4Asp B:177 -Thr B:178

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 5E8K)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 5E8K)

(-) Exons   (0, 0)

(no "Exon" information available for 5E8K)

(-) Sequences/Alignments

Asymmetric/Biological 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:270
                                                                                                                                                                                                                                                                                                              
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ...hhhhhhhhhhhhhhhhhhhhh.....hhhhhhhhhhhhh....hhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhhh.......ee..ee.hhhhhhhhhhhhhhhhhhhhhhhhhhh.......hhhhhhhhhhhhhhhhhhhhhhhhh.......hhhhhhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhhhhhhhh........hhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 5e8k A   7 YDFKFMSYMVNKAKSVNKALEEAVPLREPELKIREAMRYTLLSDGKRVRPMLCLAACELVGGQESTAMSAACAIEMLHASSLILDDLPCMDNDSLRRGKPTNHIVFGESIAILASQALIALAVQKTTSSTFADVPPERILKTVQEMVKAVEGLVAGQQADLAGTGLEHLEFIHIHKTAALLEAAAVMGAIMGGGSDEEIERLRSYARCIGLMFQVVDDVLDKLTYPRLMGVEKSKEYAERLNIEAREHLLGFDIDKVAPLVSLADYIVNR 303
                                    16        26        36        46        56        66        76        86        96       106       116       126       136       146       156       166  ||   184       194       204       214       224       234||     263       273       283       293       303
                                                                                                                                                                                            169|                                                      235|                                                
                                                                                                                                                                                             178                                                       255                                                


Chain B from PDB  Type:PROTEIN  Length:268
                                                                                                                                                                                                                                                                                                            
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..hhhhhhhhhhhhhhhhhhhh......hhhhhhhhhhhh....hhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhh..............hhhhhhhhhhhhhhhhhhhhhhhhhhhh......hhhhhhhhhhhhhhhhhhhhhh.....................hhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhhhh.........hhhhhhhhhhhhhhhhhhhh.......hhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5e8k B   9 FKFMSYMVNKAKSVNKALEEAVPLREPELKIREAMRYTLLSDGKRVRPMLCLAACELVGGQESTAMSAACAIEMLHASSLILDDLPCMDNDSLRRGKPTNHIVFGESIAILASQALIALAVQKTTSSTFADVPPERILKTVQEMVKAVEGLVAGAGEGMRFDSDTGLEHLEFIHTAALLEAAAVMGAIMGGGSDEEIERLRSYARCIGLMFQVVDDVLDKLTYPRLMGVEKSKEYAERLNIEAREHLLGFDIDKVAPLVSLADYIVNR 303
                                    18        28        38        48        58        68        78        88        98       108       118       128       138       148       158   ||  173       183   ||  196       206       216       226       255       265       275       285       295        
                                                                                                                                                                                   162|                187|                                         235|                                                
                                                                                                                                                                                    168                 191                                          255
   Legend:   → Mismatch (orange background)
  - → Gap (green background, '-', border residues have a numbering label)
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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 5E8K)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 5E8K)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 5E8K)

(-) Gene Ontology  (11, 11)

Asymmetric/Biological Unit(hide GO term definitions)

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  Cis Peptide Bonds
    Asp B:177 - Thr B:178   [ RasMol ]  
    Glu A:34 - Pro A:35   [ RasMol ]  
    Gly A:51 - Lys A:52   [ RasMol ]  
    Pro B:35 - Glu B:36   [ RasMol ]  
 

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5e8h 5e8l