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(-) Description

Title :  CRYSTAL STRUCTURE OF METARHIZIUM ANISOPLIAE IDCASE IN APO FORM
 
Authors :  S. Xu, J. Zhu, J. Ding
Date :  14 Oct 12  (Deposition) - 11 Sep 13  (Release) - 20 Nov 13  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.60
Chains :  Asym. Unit :  A,B,C
Biol. Unit 1:  A,B  (1x)
Biol. Unit 2:  C  (2x)
Keywords :  Pyrimidine Metabolism, Dna Decarboxylation, Idcase, Decarboxylase, Uracil, Lyase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  S. Xu, W. Li, J. Zhu, R. Wang, Z. Li, G. L. Xu, J. Ding
Crystal Structures Of Isoorotate Decarboxylases Reveal A Novel Catalytic Mechanism Of 5-Carboxyl-Uracil Decarboxylation And Shed Light On The Search For Dna Decarboxylase.
Cell Res. V. 23 1296 2013
PubMed-ID: 23917530  |  Reference-DOI: 10.1038/CR.2013.107

(-) Compounds

Molecule 1 - URACIL-5-CARBOXYLATE DECARBOXYLASE
    Chains: A, B, C
    EC Number: 4.1.1.66
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PET-28SUMO
    Expression System Strain: BL21(DE3) CODON PLUS
    Expression System Taxid: 469008
    Expression System Vector Type: PLASMID
    Gene: MAA_05919
    Organism Scientific: METARHIZIUM ANISOPLIAE
    Organism Taxid: 5530
    Synonym: IDCASE

 Structural Features

(-) Chains, Units

  123
Asymmetric Unit : ABC
Biological Unit 1 (1x): AB 
Biological Unit 2 (2x):   C

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (1, 3)

Asymmetric Unit (1, 3)
No.NameCountTypeFull Name
1ZN3Ligand/IonZINC ION
Biological Unit 1 (0, 0)
No.NameCountTypeFull Name
1ZN-1Ligand/IonZINC ION
Biological Unit 2 (0, 0)
No.NameCountTypeFull Name
1ZN-1Ligand/IonZINC ION

(-) Sites  (3, 3)

Asymmetric Unit (3, 3)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREHIS A:12 , HIS A:14 , HIS A:195 , ASP A:323 , HOH A:538 , HOH A:557BINDING SITE FOR RESIDUE ZN A 401
2AC2SOFTWAREHIS B:12 , HIS B:14 , HIS B:195 , ASP B:323 , HOH B:562BINDING SITE FOR RESIDUE ZN B 401
3AC3SOFTWAREHIS C:12 , HIS C:14 , HIS C:195 , ASP C:323 , HOH C:579 , HOH C:580BINDING SITE FOR RESIDUE ZN C 401

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (9, 9)

Asymmetric Unit
No.Residues
1Ile A:30 -Pro A:31
2Asn A:98 -Pro A:99
3His A:324 -Pro A:325
4Ile B:30 -Pro B:31
5Asn B:98 -Pro B:99
6His B:324 -Pro B:325
7Ile C:30 -Pro C:31
8Asn C:98 -Pro C:99
9His C:324 -Pro C:325

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 4HJW)

(-) 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:375
                                                                                                                                                                                                                                                                                                                                                                                                                       
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author hhhhhh...eeeeeee.hhhhhhhhhh.....eee........eee.hhhhhhhhhhhhhh.......ee.hhhhhhhhhhhhhhhhh...eeeeee........hhhhhhhhhhhhhhhhhhhhhhh...eeeeee.....hhhhhhhhhhhhhhh..eeeeee..........hhhhhhhhhhhhhhh.eeee......hhhhhh.hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh....eee.hhhhhhhhhhhhhhhhhhhhhhhhhh........hhhhhhhhheeee....hhhhhhhhhhhhh...ee..................hhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhh... Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4hjw A   0 SMATSNPTVVDIHTHMYPPQYIKILESRTTIPLVRKFPQAPEPRLILLEAELGDLEKAINDPSAKPPGRPLTSHFASLDQKIHFMDTHRIDISVISLANPWLDFVHASHAGDIAESVNDEFSDMCGKHHGRLFFFGTLPLTAPLETLLASISHLAALKYCRGVILGTSGLGKGLDDPHLIPIFEALAAANLTIFLHPHYGLPNDVWGPRAGEYGHVLPLALGFPMETTIAVARMYLAGVFDQVRDLRMVLAHSGGTLPFLAGRIESCIFHDGQLVRQGKVGENRRTVWDVLKEQVYLDAVIYSEVGLKAAIDASGSDRLMFGTDHPFFPPITTDEQGQWESVSLNAQAVAEAVGEGSAEARAIMGSNAIRVLRLE 374
                                     9        19        29        39        49        59        69        79        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     


Chain B from PDB  Type:PROTEIN  Length:375
                                                                                                                                                                                                                                                                                                                                                                                                                       
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .........eeeeeee.hhhhhhhhhh.....eee........eee.hhhhhhhhhhhh.........ee.hhhhhhhhhhhhhhhhh...eeeeee........hhhhhhhhhhhhhhhhhhhhhhh...eeeeee.....hhhhhhhhhhhhhhh..eeeeee..........hhhhhhhhhhhhhh..eeee......hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh....eee.hhhhhhhhhhhhhhhhhhhhhhhhhh........hhhhhhhhheeee....hhhhhhhhhhhhh...ee..................hhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhh... Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4hjw B   0 SMATSNPTVVDIHTHMYPPQYIKILESRTTIPLVRKFPQAPEPRLILLEAELGDLEKAINDPSAKPPGRPLTSHFASLDQKIHFMDTHRIDISVISLANPWLDFVHASHAGDIAESVNDEFSDMCGKHHGRLFFFGTLPLTAPLETLLASISHLAALKYCRGVILGTSGLGKGLDDPHLIPIFEALAAANLTIFLHPHYGLPNDVWGPRAGEYGHVLPLALGFPMETTIAVARMYLAGVFDQVRDLRMVLAHSGGTLPFLAGRIESCIFHDGQLVRQGKVGENRRTVWDVLKEQVYLDAVIYSEVGLKAAIDASGSDRLMFGTDHPFFPPITTDEQGQWESVSLNAQAVAEAVGEGSAEARAIMGSNAIRVLRLE 374
                                     9        19        29        39        49        59        69        79        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     


Chain C from PDB  Type:PROTEIN  Length:378
                                                                                                                                                                                                                                                                                                                                                                                                                          
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author .........eeeeeee.hhhhhhhhhh.....eeee......eeee.hhhhhhhhhhhhhh.......ee.hhhhhhhhhhhhhhhhh...eeeeee........hhhhhhhhhhhhhhhhhhhhhhh...eeeee......hhhhhhhhhhhhhhh..eeeeee..........hhhhhhhhhhhhhh..eeee......hhhhhh.hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh....eee.hhhhhhhhhhhhhhhhhhhhhhhhhh........hhhhhhhhheeee....hhhhhhhhhhhhh...ee..................hhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhh...... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 4hjw C   0 SMATSNPTVVDIHTHMYPPQYIKILESRTTIPLVRKFPQAPEPRLILLEAELGDLEKAINDPSAKPPGRPLTSHFASLDQKIHFMDTHRIDISVISLANPWLDFVHASHAGDIAESVNDEFSDMCGKHHGRLFFFGTLPLTAPLETLLASISHLAALKYCRGVILGTSGLGKGLDDPHLIPIFEALAAANLTIFLHPHYGLPNDVWGPRAGEYGHVLPLALGFPMETTIAVARMYLAGVFDQVRDLRMVLAHSGGTLPFLAGRIESCIFHDGQLVRQGKVGENRRTVWDVLKEQVYLDAVIYSEVGLKAAIDASGSDRLMFGTDHPFFPPITTDEQGQWESVSLNAQAVAEAVGEGSAEARAIMGSNAIRVLRLEEKA 377
                                     9        19        29        39        49        59        69        79        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
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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 4HJW)

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (5, 5)

Asymmetric Unit(hide GO term definitions)

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(-) Related Entries Specified in the PDB File

4hk5 4hk6 4hk7