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(-) Description

Title :  CRYSTAL STRUCTURE OF (R)-3-HYDROXYBUTYRYL-COA DEHYDROGENASE FROM RALSTONIA EUTROPHA IN COMPLEXED WITH ACETOACETYL-COA
 
Authors :  J. -E. Kim, S. Kim, K. -J. Kim
Date :  10 Oct 13  (Deposition) - 11 Dec 13  (Release) - 23 Apr 14  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.34
Chains :  Asym. Unit :  A,B
Biol. Unit 1:  A,B  (2x)
Keywords :  Alpha/Beta Structure, Oxidoreductase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  J. -E. Kim, J. H. Chang, E. -J. Kim, K. -J. Kim
Crystal Structure Of (R)-3-Hydroxybutyryl-Coa Dehydrogenase Phab From Ralstonia Eutropha
Biochem. Biophys. Res. Commun. V. 443 783 2014
PubMed-ID: 24211201  |  Reference-DOI: 10.1016/J.BBRC.2013.10.150

(-) Compounds

Molecule 1 - ACETOACETYL-COA REDUCTASE
    Chains: A, B
    EC Number: 1.1.1.36
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PPROEX HTA
    Expression System Strain: B834
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Gene: PHBB
    Organism Scientific: RALSTONIA EUTROPHA
    Organism Taxid: 381666
    Strain: H16
    Synonym: (R)-3-HYDROXYBUTYRYLCOA DEHYDROGENASE

 Structural Features

(-) Chains, Units

  12
Asymmetric Unit : AB
Biological Unit 1 (2x): AB

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (2, 8)

Asymmetric Unit (2, 8)
No.NameCountTypeFull Name
1CAA2Ligand/IonACETOACETYL-COENZYME A
2GOL6Ligand/IonGLYCEROL
Biological Unit 1 (2, 16)
No.NameCountTypeFull Name
1CAA4Ligand/IonACETOACETYL-COENZYME A
2GOL12Ligand/IonGLYCEROL

(-) Sites  (8, 8)

Asymmetric Unit (8, 8)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREASP A:94 , GLN A:147 , PHE A:148 , GLY A:149 , GLN A:150 , TYR A:153 , GLY A:184 , TYR A:185 , ILE A:186 , MET A:190 , VAL A:191 , ARG A:195 , HOH A:497 , HOH A:506 , HOH A:543 , HOH A:548 , HOH A:582 , HOH A:598 , HOH A:612BINDING SITE FOR RESIDUE CAA A 301
2AC2SOFTWAREASN A:37 , THR A:101 , ARG A:102 , GOL A:303 , TRP B:65BINDING SITE FOR RESIDUE GOL A 302
3AC3SOFTWAREARG A:98 , LYS A:99 , MET A:100 , GOL A:302 , HOH A:536 , HOH A:630 , LYS B:121BINDING SITE FOR RESIDUE GOL A 303
4AC4SOFTWAREGLY A:60 , ASN A:61 , VAL A:62 , THR A:111 , HOH A:434 , HOH A:539 , HOH A:643 , HOH A:653BINDING SITE FOR RESIDUE GOL A 304
5AC5SOFTWAREASP B:94 , ASN B:142 , GLN B:147 , PHE B:148 , GLY B:149 , GLN B:150 , TYR B:153 , GLY B:184 , TYR B:185 , VAL B:191 , ARG B:195 , ILE B:202 , HOH B:506 , HOH B:517 , HOH B:522 , HOH B:534 , HOH B:594 , HOH B:638BINDING SITE FOR RESIDUE CAA B 301
6AC6SOFTWAREGLN B:3 , ARG B:4 , ASP B:26 , GLY B:27 , PHE B:28 , HOH B:446 , HOH B:508 , HOH B:564 , HOH B:568BINDING SITE FOR RESIDUE GOL B 302
7AC7SOFTWARETYR B:7 , THR B:9 , GLY B:10 , GLY B:33 , CYS B:34 , SER B:58 , GLY B:60 , HOH B:402 , HOH B:654BINDING SITE FOR RESIDUE GOL B 303
8AC8SOFTWAREGLY B:35 , ASN B:61 , HOH B:654BINDING SITE FOR RESIDUE GOL B 304

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 4N5M)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 4N5M)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 4N5M)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 4N5M)

(-) Exons   (0, 0)

(no "Exon" information available for 4N5M)

(-) 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:246
                                                                                                                                                                                                                                                                                      
               SCOP domains d4n5ma_ A: automated matches                                                                                                                                                                                                                           SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ....eeee....hhhhhhhhhhhhhh..eeeeee.....hhhhhhhhhhhh....eeee....hhhhhhhhhhhhhhhh..eeeeee........hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.eeeeee.hhhhhhh...hhhhhhhhhhhhhhhhhhhhhhh...eeeeeeee....hhhhhh.hhhhhhhhhhh.......hhhhhhhhhhhhhh.........eeee....... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 4n5m A   1 MTQRIAYVTGGMGGIGTAICQRLAKDGFRVVAGCGPNSPRREKWLEQQKALGFDFIASEGNVADWDSTKTAFDKVKSEVGEVDVLINNAGITRDVVFRKMTRADWDAVIDTNLTSLFNVTKQVIDGMADRGWGRIVNISSVNGQKGQFGQTNYSTAKAGLHGFTMALAQEVATKGVTVNTVSPGYIATDMVKAIRQDVLDKIVATIPVKRLGLPEEIASICAWLSSEESGFSTGADFSLNGGLHMG 246
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220       230       240      


Chain B from PDB  Type:PROTEIN  Length:246
                                                                                                                                                                                                                                                                                      
               SCOP domains d4n5mb_ B: automated matches                                                                                                                                                                                                                           SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ....eeee....hhhhhhhhhhhhhh..eeeeee.....hhhhhhhhhhhh....eeee....hhhhhhhhhhhhhhhh..eeeeee........hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.eeeeee.hhhhhhh...hhhhhhhhhhhhhhhhhhhhhhh...eeeeeeee....hhhhhh.hhhhhhhhhhh.......hhhhhhhhhhhhhhhhhh.....eeee....... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 4n5m B   1 MTQRIAYVTGGMGGIGTAICQRLAKDGFRVVAGCGPNSPRREKWLEQQKALGFDFIASEGNVADWDSTKTAFDKVKSEVGEVDVLINNAGITRDVVFRKMTRADWDAVIDTNLTSLFNVTKQVIDGMADRGWGRIVNISSVNGQKGQFGQTNYSTAKAGLHGFTMALAQEVATKGVTVNTVSPGYIATDMVKAIRQDVLDKIVATIPVKRLGLPEEIASICAWLSSEESGFSTGADFSLNGGLHMG 246
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220       230       240
   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  (1, 2)

Asymmetric Unit
(-)
Class: Alpha and beta proteins (a/b) (23833)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 4N5M)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 4N5M)

(-) Gene Ontology  (5, 5)

Asymmetric Unit(hide GO term definitions)

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 Related Entries

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

UniProtKB/Swiss-Prot
        PHAB_CUPNH | P14697: 3vzp 3vzq 3vzr 3vzs 4n5l 4n5n

(-) Related Entries Specified in the PDB File

1q7b 3vzp 4n5l 4n5n