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(-) Description

Title :  THE CRYSTAL STRUCTURE OF PUTATIVE PRECORRIN ISOMERASE CBIC IN COBALAMIN BIOSYNTHESIS
 
Authors :  Y. Xue, Z. Wei, X. Li
Date :  26 Jul 05  (Deposition) - 04 Apr 06  (Release) - 13 Jul 11  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.30
Chains :  Asym. Unit :  A
Biol. Unit 1:  A  (1x)
Biol. Unit 2:  A  (2x)
Keywords :  Isomerase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  Y. Xue, Z. Wei, X. Li, W. Gong
The Crystal Structure Of Putative Precorrin Isomerase Cbic In Cobalamin Biosynthesis
J. Struct. Biol. V. 153 307 2006
PubMed-ID: 16427313  |  Reference-DOI: 10.1016/J.JSB.2005.11.011

(-) Compounds

Molecule 1 - COBALAMIN BIOSYNTHESIS PRECORRIN ISOMERASE
    Chains: A
    EC Number: 5.4.1.2
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Taxid: 562
    Organism Scientific: LEPTOSPIRA INTERROGANS
    Organism Taxid: 173

 Structural Features

(-) Chains, Units

  1
Asymmetric Unit : A
Biological Unit 1 (1x): A
Biological Unit 2 (2x): A

Summary Information (see also Sequences/Alignments below)

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

(no "Ligand,Modified Residues,Ions" information available for 2AFR)

(-) Sites  (0, 0)

(no "Site" information available for 2AFR)

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 2AFR)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 2AFR)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 2AFR)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 2AFR)

(-) Exons   (0, 0)

(no "Exon" information available for 2AFR)

(-) Sequences/Alignments

Asymmetric Unit
   Reformat: Number of residues per line =  ('0' or empty: single-line sequence representation)
  Number of residues per labelling interval =   
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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:216
 aligned with CBIC_LEPIN | Q8EXP7 from UniProtKB/Swiss-Prot  Length:220

    Alignment length:216
                                    12        22        32        42        52        62        72        82        92       102       112       122       132       142       152       162       172       182       192       202       212      
           CBIC_LEPIN     3 QITNLGRNIENKSFSIIDEEAGPHSFAQEEWEVVRRIIHATADFDYKNITKIHPQAIDSGIQALKKGCPIVCDVQMILSGLNPERLKVYGCKTYCFISDEDVIENAKRKNSTRAIESIQKANSFNLLNESIIVIGNAPTALLEIEKLIRQEGIKPALIVGVPVGFVSAKESKESILKLEYYNVTSIPYILTMGRKGGSTIAVAILHALLLLSSKRG 218
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains 2afrA00 A:6-221 Precorrin-8X methylmutase CbiC/CobH                                                                                                                                                                      CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ..hhhhhhhhhhhhhhhhhhhh....hhhhhhhhhhhhhhhh..hhhhheee..hhhhhhhhhhhh..eeee.hhhhhh..hhhhhhh...eee....hhhhhhhhhhh..hhhhhhhhhhhhh......eeee..hhhhhhhhhhhhhhhh....eeee......hhhhhhhhhhhhhhh......eeee.....hhhhhhhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 2afr A   6 QITNLGRNIENKSFSIIDEEAGPHSFAQEEWEVVRRIIHATADFDYKNITKIHPQAIDSGIQALKKGCPIVCDVQMILSGLNPERLKVYGCKTYCFISDEDVIENAKRKNSTRAIESIQKANSFNLLNESIIVIGNAPTALLEIEKLIRQEGIKPALIVGVPVGFVSAKESKESILKLEYYNVTSIPYILTMGRKGGSTIAVAILHALLLLSSKRG 221
                                    15        25        35        45        55        65        75        85        95       105       115       125       135       145       155       165       175       185       195       205       215
   Legend:   → Mismatch (orange background)
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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 2AFR)

(-) CATH Domains  (1, 1)

Asymmetric Unit
(-)
Class: Alpha Beta (26913)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 2AFR)

(-) Gene Ontology  (3, 3)

Asymmetric Unit(hide GO term definitions)
Chain A   (CBIC_LEPIN | Q8EXP7)
molecular function
    GO:0016853    isomerase activity    Catalysis of the geometric or structural changes within one molecule. Isomerase is the systematic name for any enzyme of EC class 5.
    GO:0016993    precorrin-8X methylmutase activity    Catalysis of the reaction: precorrin-8X = hydrogenobyrinate.
biological process
    GO:0009236    cobalamin biosynthetic process    The chemical reactions and pathways resulting in the formation of cobalamin (vitamin B12), a water-soluble vitamin characterized by possession of a corrin nucleus containing a cobalt atom.

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 Related Entries

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        CBIC_LEPIN | Q8EXP7: 2afv

(-) Related Entries Specified in the PDB File

2afv THE SAME PROTEIN OF DIFFERENT CRYSTAL FORM