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(-) Description

Title :  CRYSTAL STRUCTURE OF THE COLD SHOCK DOMAIN PROTEIN FROM NEISSERIA MENINGITIDIS
 
Authors :  J. Ren, S. Sainsbury, R. J. Owens, Oxford Protein Production Facili
Date :  20 Feb 08  (Deposition) - 25 Mar 08  (Release) - 13 Jul 11  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.60
Chains :  Asym./Biol. Unit :  A,B
Keywords :  Neisseria Meningitidis, Cold Shock Protein, Chain Swap, Structural Genomics, Oxford Protein Production Facility, Oppf, Gene Regulation (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  J. Ren, J. E. Nettleship, S. Sainsbury, N. J. Saunders, R. J. Owens
Structure Of The Cold-Shock Domain Protein From Neisseria Meningitidis Reveals A Strand-Exchanged Dimer.
Acta Crystallogr. , Sect. F V. 64 247 2008
PubMed-ID: 18391418  |  Reference-DOI: 10.1107/S1744309108005411

(-) Compounds

Molecule 1 - COLD-SHOCK DOMAIN FAMILY PROTEIN
    Chains: A, B
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: OPPF1347
    Expression System Strain: B834(DE3)
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Gene: NMB0838
    Organism Scientific: NEISSERIA MENINGITIDIS MC58
    Organism Taxid: 122586
    Strain: MC58 / SEROGROUP B

 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 3CAM)

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 3CAM)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 3CAM)

(-) 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:67
 aligned with Q9JZZ4_NEIMB | Q9JZZ4 from UniProtKB/TrEMBL  Length:67

    Alignment length:67
                                    10        20        30        40        50        60       
          Q9JZZ4_NEIMB    1 MATGIVKWFNDAKGFGFITPDEGGEDLFAHFSAINMEGFKTLKEGQRVSFDVTTGPKGKQAANIQAA 67
               SCOP domains d3cama_ A: automated matches                                        SCOP domains
               CATH domains -3camA00 A:2-67 Nucleic acid-binding proteins                       CATH domains
               Pfam domains ------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeeeeeee....eeeeee......eeee.hhhhhhhhh......eeeeeeeee..eeeeeeeee. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------- Transcript
                  3cam A  1 mATGIVKWFNDAKGFGFITPDEGGEDLFAHFSAINmEGFKTLKEGQRVSFDVTTGPKGKQAANIQAA 67
                            |       10        20        30     |  40        50        60       
                            |                                 36-MSE                           
                            1-MSE                                                              


Chain B from PDB  Type:PROTEIN  Length:67
 aligned with Q9JZZ4_NEIMB | Q9JZZ4 from UniProtKB/TrEMBL  Length:67

    Alignment length:67
                                    10        20        30        40        50        60       
          Q9JZZ4_NEIMB    1 MATGIVKWFNDAKGFGFITPDEGGEDLFAHFSAINMEGFKTLKEGQRVSFDVTTGPKGKQAANIQAA 67
               SCOP domains d3camb_ B: automated matches                                        SCOP domains
               CATH domains -3camB00 B:2-67 Nucleic acid-binding proteins                       CATH domains
               Pfam domains ------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeeeeeee....eeeeee......eeee.hhhhhhhhh......eeeeeeeee..eeeeeeeee. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------- Transcript
                  3cam B  1 mATGIVKWFNDAKGFGFITPDEGGEDLFAHFSAINmEGFKTLKEGQRVSFDVTTGPKGKQAANIQAA 67
                            |       10        20        30     |  40        50        60       
                            1-MSE                             36-MSE
   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, 2)

Asymmetric/Biological Unit
(-)
Class: All beta proteins (24004)

(-) CATH Domains  (1, 2)

Asymmetric/Biological Unit
(-)
Class: Mainly Beta (13760)

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (5, 5)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A,B   (Q9JZZ4_NEIMB | Q9JZZ4)
molecular function
    GO:0003677    DNA binding    Any molecular function by which a gene product interacts selectively and non-covalently with DNA (deoxyribonucleic acid).
    GO:0003676    nucleic acid binding    Interacting selectively and non-covalently with any nucleic acid.
biological process
    GO:0006355    regulation of transcription, DNA-templated    Any process that modulates the frequency, rate or extent of cellular DNA-templated transcription.
    GO:0006351    transcription, DNA-templated    The cellular synthesis of RNA on a template of DNA.
cellular component
    GO:0005737    cytoplasm    All of the contents of a cell excluding the plasma membrane and nucleus, but including other subcellular structures.

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