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(-) Description

Title :  STRUCTURAL GENOMICS, 1.9A CRYSTAL STRUCTURE OF COBALAMIN BIOSYNTHESIS PROTEIN (CBID) FROM ARCHAEOGLOBUS FULGIDUS
 
Authors :  R. Zhang, T. Skarina, A. Savchenko, A. Edwards, A. Joachimiak, Midwest For Structural Genomics (Mcsg)
Date :  22 Mar 04  (Deposition) - 03 Aug 04  (Release) - 13 Jul 11  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.90
Chains :  Asym./Biol. Unit :  A
Keywords :  Structural Genomics, Cobalamin Biosynthesis Protein (Cbid), Archaeoglobus Fulgidus, Psi, Protein Structure Initiative, Midwest Center For Structural Genomics, Mcsg, Biosynthetic Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  R. Zhang, T. Skarina, A. Savchenko, A. Edwards, A. Joachimiak
1. 9A Crystal Structure Of Cobalamin Biosynthesis Protein (Cbid) From Archaeoglobus Fulgidus
To Be Published
PubMed: search

(-) Compounds

Molecule 1 - COBALAMIN BIOSYNTHESIS PROTEIN (CBID)
    Chains: A
    Engineered: YES
    Expression System: ESCHERICHIA COLI BL21(DE3)
    Expression System Plasmid: PET15B
    Expression System Strain: BL21 (DE3)
    Expression System Taxid: 469008
    Expression System Vector Type: PLASMID
    Organism Scientific: ARCHAEOGLOBUS FULGIDUS
    Organism Taxid: 224325
    Strain: DSM 4304

 Structural Features

(-) Chains, Units

  1
Asymmetric/Biological Unit : A

Summary Information (see also Sequences/Alignments below)

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

(no "Ligand,Modified Residues,Ions" information available for 1SR8)

(-) Sites  (0, 0)

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(-) SS Bonds  (0, 0)

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(-) Cis Peptide Bonds  (0, 0)

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 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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(-) PROSITE Motifs  (0, 0)

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(-) Exons   (0, 0)

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(-) 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:282
 aligned with CBID_ARCFU | O29535 from UniProtKB/Swiss-Prot  Length:298

    Alignment length:282
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220       230       240       250       260       270       280  
           CBID_ARCFU     1 MLIDPIELYRYPEKWIKDRDAEKKVRSGLYILTEDGYLRRGITTGTTASAAAVAAIASLKEKVEKVKVSTPAGVDVEVEVEAEKGFARVRKFSGDHEFDVTNGIIFEAEVCETSGIFFGRGVGVKAGEKAVSRSAKLQILENFIKASREFNFSGGVRISVPDGEEVAKKTGNEKVGIKGGISILGTTGFVEPWCKKLVETKLKIAMQYHRIAITTGRKAWLYARKKFPEYQPFVFGVHIDEALKHPGEKIIVGFPGLLKIWAGSRDRIEERAREEGVRVVVI 282
               SCOP domains d1sr8a_ A: Cobalamin biosynthesis protein CbiD                                                                                                                                                                                                                                             SCOP domains
               CATH domains 1sr8A01 A:1-39 CbiD-like               ---------------------------------------------------------------------------------------------------------------------------------------------------------1sr8A03 A:193-282 CbiD-like domains                                                        CATH domains
               Pfam domains ----------------------------------CbiD-1sr8A01 A:35-263                                                                                                                                                                                                                ------------------- Pfam domains
         Sec.struct. author ...........hhhhh...hhhhhhhh..eeee..eeee.eehhhhhhhhhhhhhhhhhhh.eeeeee.......eeeeeeee..eeeee..............eeeeeee...eeee..ee.ee..ee..hhhhhhhhhhhhhhhhhhh....eeeee..hhhhhhhhhhhhhhh...ee.......ee...hhhhhhhhhhhhhhh.eeeee.hhhhhhhhhhhh...eeee...hhhhhh....eeeeeehhhhhhhhhhhhhhhhhhhhh...eeee. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 1sr8 A   1 MLIDPIELYRYPEKWIKDRDAEKKVRSGLYILTEDGYLRRGITTGTTASAAAVAAIASLKEKVEKVKVSTPAGVDVEVEVEAEKGFARVRKFSGDHEFDVTNGIIFEAEVCETSGIFFGRGVGVKAGEKAVSRSAKLQILENFIKASREFNFSGGVRISVPDGEEVAKKTGNEKVGIKGGISILGTTGFVEPWCKKLVETKLKIAMQYHRIAITTGRKAWLYARKKFPEYQPFVFGVHIDEALKHPGEKIIVGFPGLLKIWAGSRDRIEERAREEGVRVVVI 282
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220       230       240       250       260       270       280
   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, 1)

Asymmetric/Biological Unit
(-)
Class: Multi-domain proteins (alpha and beta) (2421)

(-) CATH Domains  (2, 2)

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

(-) Pfam Domains  (1, 1)

Asymmetric/Biological Unit
(-)
Clan: no clan defined [family: CbiD] (1)

(-) Gene Ontology  (5, 5)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A   (CBID_ARCFU | O29535)
molecular function
    GO:0008168    methyltransferase activity    Catalysis of the transfer of a methyl group to an acceptor molecule.
    GO:0016740    transferase activity    Catalysis of the transfer of a group, e.g. a methyl group, glycosyl group, acyl group, phosphorus-containing, or other groups, from one compound (generally regarded as the donor) to another compound (generally regarded as the acceptor). Transferase is the systematic name for any enzyme of EC class 2.
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.
    GO:0046140    corrin biosynthetic process    The chemical reactions and pathways resulting in the formation of corrin, C19H22N4, the fundamental heterocyclic skeleton of the corrinoids. It consists of four reduced pyrrole rings joined into a macrocyclic ring. Corrin is the core of the vitamin B12 molecule.
    GO:0032259    methylation    The process in which a methyl group is covalently attached to a molecule.

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