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(-) Description

Title :  CRYSTAL STRUCTURE OF YEAST ENOYL-COA ISOMERASE HELIX-10 DELETION (SCECI2-H10) MUTANT
 
Authors :  G. U. Onwukwe, M. K. Koski, R. K. Wierenga
Date :  17 Apr 15  (Deposition) - 11 Nov 15  (Release) - 18 Nov 15  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.81
Chains :  Asym. Unit :  A,B
Biol. Unit 1:  A,B  (3x)
Keywords :  Crotonase, Isomerase, Enoyl-Coa Isomerase, Beta-Oxidation (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  G. U. Onwukwe, M. K. Koski, P. Pihko, W. Schmitz, R. K. Wierenga
Structures Of Yeast Peroxisomal Delta (3), Delta (2)-Enoyl-Coa Isomerase Complexed With Acyl-Coa Substrate Analogues: The Importance Of Hydrogen-Bond Networks For The Reactivity Of The Catalytic Base And The Oxyanion Hole.
Acta Crystallogr. , Sect. D V. 71 2178 2015
PubMed-ID: 26527136  |  Reference-DOI: 10.1107/S139900471501559X

(-) Compounds

Molecule 1 - 3,2-TRANS-ENOYL-COA ISOMERASE
    Chains: A, B
    EC Number: 5.3.3.8
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Taxid: 562
    Gene: ECI1, YLR284C
    Mutation: YES
    Organism Common: BAKER'S YEAST
    Organism Scientific: SACCHAROMYCES CEREVISIAE
    Organism Taxid: 4932
    Other Details: CYS212 WAS OXIDIZED TO CME DUE TO THE PRESENCE OF BME IN THE PURIFICATION BUFFERS
    Synonym: DELTA(3),DELTA(2)-ENOYL-COA ISOMERASE,D3,D2-ENOYL-COA ISOMERASE,DODECENOYL-COA ISOMERASE

 Structural Features

(-) Chains, Units

  12
Asymmetric Unit : AB
Biological Unit 1 (3x): AB

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (2, 3)

Asymmetric Unit (2, 3)
No.NameCountTypeFull Name
1CME2Mod. Amino AcidS,S-(2-HYDROXYETHYL)THIOCYSTEINE
2GOL1Ligand/IonGLYCEROL
Biological Unit 1 (2, 9)
No.NameCountTypeFull Name
1CME6Mod. Amino AcidS,S-(2-HYDROXYETHYL)THIOCYSTEINE
2GOL3Ligand/IonGLYCEROL

(-) Sites  (1, 1)

Asymmetric Unit (1, 1)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREGLY A:69 , ALA A:70 , ARG A:100 , GLY A:125 , LEU A:126 , LEU A:155 , GLU A:158binding site for residue GOL A 301

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (0, 0)

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

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 4ZDF)

(-) 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    
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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:257
                                                                                                                                                                                                                                                                                                 
               SCOP domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .......eeeeee..eeeeee.hhhhh...hhhhhhhhhhhhhhhhhh....eeeee...........hhhhh....hhhhhhhhhhhhhhhhhhhhhhhh..eeeeee...eehhhhhhhhhh.eeee.....eee.hhhhhh.....hhhhhhhhhhhhhhhhhhhhh...eehhhhhhh....ee......hhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhh..... Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4zdf A   4 EIRQNEKISYRIEGPFFIIHLINPDNLNALEGEDYIYLGELLELADRNRDVYFTIIQSSGRFFSSGADFKGIAKKYPSETSKWVSNFVARNVYVTDAFIKHSKVLICCLNGPAIGLSAALVALCDIVYSINDKVYLLYPFANLGLITEGGTTVSLPLKFGTNTTYECLMFNKPFKYDIMcENGFISKNFNMPSSNAEAFNAKVLEELREKVKGLYLPSCLGMKKLLKSNHIDAFNKANSVEVNESLKYWVDGEPLKR 267
                                    13        23        33        43        53        63        73   ||   90       100       110       120       130       140       150       160       170       180       190       200       210       220       230       240       250       260       
                                                                                                    77|                                                                                                      190-CME                                                                         
                                                                                                     85                                                                                                                                                                                      


Chain B from PDB  Type:PROTEIN  Length:254
                                                                                                                                                                                                                                                                                              
               SCOP domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .......eeeeee..eeeeee.hhhhh...hhhhhhhhhhhhhhhhhh....eeeee.................hhhhhhhhhhhhhhhhhhhhhhhh..eeeeee...eehhhhhhhhhh.eeee.....eee.hhhhhh.....hhhhhhhhhhhhhhhhhhhhh...eehhhhhhh....ee......hhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhh..... Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4zdf B   4 EIRQNEKISYRIEGPFFIIHLINPDNLNALEGEDYIYLGELLELADRNRDVYFTIIQSSGRFFSSGADFKGKYPSETSKWVSNFVARNVYVTDAFIKHSKVLICCLNGPAIGLSAALVALCDIVYSINDKVYLLYPFANLGLITEGGTTVSLPLKFGTNTTYECLMFNKPFKYDIMcENGFISKNFNMPSSNAEAFNAKVLEELREKVKGLYLPSCLGMKKLLKSNHIDAFNKANSVEVNESLKYWVDGEPLKR 267
                                    13        23        33        43        53        63        73||      93       103       113       123       133       143       153       163       173       183      |193       203       213       223       233       243       253       263    
                                                                                                 74|                                                                                                      190-CME                                                                         
                                                                                                  85
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  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 4ZDF)

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (8, 8)

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  4zdf
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UniProtKB/Swiss-Prot
        ECI1_YEAST | Q05871: 1hno 1hnu 1k39 1pjh 4zdb 4zdc 4zdd 4zde

(-) Related Entries Specified in the PDB File

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