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(-) Description

Title :  CRYSTAL STRUCTURE OF PUTATIVE COBALAMIN (VITAMIN B12) BIOSYNTHESIS CBIX PROTEIN (YP_958415.1) FROM MARINOBACTER AQUAEOLEI VT8 AT 1.60 A RESOLUTION
 
Authors :  Joint Center For Structural Genomics (Jcsg)
Date :  26 Feb 10  (Deposition) - 07 Apr 10  (Release) - 13 Jul 11  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.60
Chains :  Asym./Biol. Unit :  A,B
Keywords :  Putative Cobalamin (Vitamin B12) Biosynthesis Cbix Protein, Structural Genomics, Joint Center For Structural Genomics, Jcsg, Protein Structure Initiative, Psi-2, Lyase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  Joint Center For Structural Genomics (Jcsg)
Crystal Structure Of Putative Cobalamin (Vitamin B12) Biosynthesis Cbix Protein (Yp_958415. 1) From Marinobacter Aquaeolei Vt8 At 1. 60 A Resolution
To Be Published
PubMed: search

(-) Compounds

Molecule 1 - COBALAMIN (VITAMIN B12) BIOSYNTHESIS CBIX PROTEIN
    Chains: A, B
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: SPEEDET
    Expression System Strain: HK100
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Gene: MAQU_1136
    Organism Scientific: MARINOBACTER AQUAEOLEI
    Organism Taxid: 351348
    Strain: ATCC 700491 / DSM 11845 / VT8

 Structural Features

(-) Chains, Units

  12
Asymmetric/Biological Unit : AB

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (1, 4)

Asymmetric/Biological Unit (1, 4)
No.NameCountTypeFull Name
1MSE4Mod. Amino AcidSELENOMETHIONINE

(-) Sites  (0, 0)

(no "Site" information available for 3LYH)

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 3LYH)

(-) Cis Peptide Bonds  (3, 3)

Asymmetric/Biological Unit
No.Residues
1Glu A:46 -Pro A:47
2Gln B:3 -Pro B:4
3Glu B:46 -Pro B:47

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 3LYH)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 3LYH)

(-) Exons   (0, 0)

(no "Exon" information available for 3LYH)

(-) 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:120
 aligned with A1TZQ9_MARHV | A1TZQ9 from UniProtKB/TrEMBL  Length:125

    Alignment length:120
                                    13        23        33        43        53        63        73        83        93       103       113       123
         A1TZQ9_MARHV     4 PHQIILLAHGSSDARWCETFEKLAEPTVESIENAAIAYMELAEPSLDTIVNRAKGQGVEQFTVVPLFLAAGRHLRKDVPAMIERLEAEHGVTIRLAEPIGKNPRLGLAIRDVVKEELERS 123
               SCOP domains ------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author .eeeeeee....hhhhhhhhhhhhhhhhhhh...eeee......hhhhhhhhhhhh...eeeeee.....hhhhhhhhhhhhhhhhhhhh.eeee..hhhhhhhhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------ Transcript
                 3lyh A   4 PHQIILLAHGSSDARWCETFEKLAEPTVESIENAAIAYmELAEPSLDTIVNRAKGQGVEQFTVVPLFLAAGRHLRKDVPAmIERLEAEHGVTIRLAEPIGKNPRLGLAIRDVVKEELERS 123
                                    13        23        33        43        53        63        73        83|       93       103       113       123
                                                                 42-MSE                                    84-MSE                                   


Chain B from PDB  Type:PROTEIN  Length:122
 aligned with A1TZQ9_MARHV | A1TZQ9 from UniProtKB/TrEMBL  Length:125

    Alignment length:123
                                    12        22        32        42        52        62        72        82        92       102       112       122   
         A1TZQ9_MARHV     3 QPHQIILLAHGSSDARWCETFEKLAEPTVESIENAAIAYMELAEPSLDTIVNRAKGQGVEQFTVVPLFLAAGRHLRKDVPAMIERLEAEHGVTIRLAEPIGKNPRLGLAIRDVVKEELERSEH 125
               SCOP domains --------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeeeeee....hhhhhhhhhhhhhhhhhhh..eeeee......hhhhhhhhhhhh...eeeeee......-hhhhhhhhhhhhhhhhhh.eeee..hhhhhhhhhhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------- Transcript
                 3lyh B   3 QPHQIILLAHGSSDARWCETFEKLAEPTVESIENAAIAYmELAEPSLDTIVNRAKGQGVEQFTVVPLFLAAG-HLRKDVPAmIERLEAEHGVTIRLAEPIGKNPRLGLAIRDVVKEELERSEH 125
                                    12        22        32        42        52        62        72 | |    82 |      92       102       112       122   
                                                                  42-MSE                          74 |      84-MSE                                     
                                                                                                    76
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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 3LYH)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 3LYH)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 3LYH)

(-) Gene Ontology  (2, 2)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A,B   (A1TZQ9_MARHV | A1TZQ9)
molecular function
    GO:0016852    sirohydrochlorin cobaltochelatase activity    Catalysis of the reaction: sirohydrochlorin + Co2+ = cobalt-sirohydrochlorin + 2 H+.
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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  Cis Peptide Bonds
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