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(-) Description

Title :  SOLUTION STRUCTURE OF ARCHAEON DNA-BINDING PROTEIN SSH10B
 
Authors :  Q. Cui, Y. Tong, J. Wang
Date :  16 Dec 04  (Deposition) - 21 Jun 05  (Release) - 09 Jun 09  (Revision)
Method :  SOLUTION NMR
Resolution :  NOT APPLICABLE
Chains :  NMR Structure  :  A,B  (20x)
Keywords :  Dna Binding, Archaea, Dna Binding Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  X. Fang, Q. Cui, Y. Tong, Y. Feng, L. Shan, L. Huang, J. Wang
A Stabilizing Alpha/Beta-Hydrophobic Core Greatly Contributes To Hyperthermostability Of Archaeal [P62A]Ssh10B.
Biochemistry V. 47 11212 2008
PubMed-ID: 18821773  |  Reference-DOI: 10.1021/BI8007593
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - DNA/RNA-BINDING PROTEIN ALBA 1
    Chains: A, B
    Engineered: YES
    Expression System: ESCHERICHIA COLI BL21(DE3)
    Expression System Plasmid: PET11A
    Expression System Strain: BL21(DE3)
    Expression System Taxid: 469008
    Expression System Vector Type: PLASMID
    Gene: ALBA1, SSH10B
    Mutation: YES
    Organism Scientific: SULFOLOBUS SHIBATAE
    Organism Taxid: 2286
    Synonym: SSH10B

 Structural Features

(-) Chains, Units

  
NMR Structure (20x): 

Summary Information (see also Sequences/Alignments below)

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

(no "Ligand,Modified Residues,Ions" information available for 1Y9X)

(-) Sites  (0, 0)

(no "Site" information available for 1Y9X)

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 1Y9X)

(-) Cis Peptide Bonds  (0, 0)

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 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 1Y9X)

(-) PROSITE Motifs  (0, 0)

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(-) Exons   (0, 0)

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(-) Sequences/Alignments

NMR Structure
   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:97
 aligned with ALBA1_SULSH | P60848 from UniProtKB/Swiss-Prot  Length:97

    Alignment length:97
                                    10        20        30        40        50        60        70        80        90       
           ALBA1_SULSH    1 MSSGTPTPSNVVLIGKKPVMNYVLAALTLLNQGVSEIVIKARGRAISKAVDTVEIVRNRFLPDKIEIKEIRVGSQVVTSQDGRQSRVSTIEIAIRKK 97
               SCOP domains d1y9xa_ A: automated matches                                                                      SCOP domains
               CATH domains ---------1y9xA01 A:10-97  [code=3.30.110.20, no name defined]                                     CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..........eee....hhhhhhhhhhhhhh....eeeeeee..hhhhhhhhhhhhhh.......eeeeeeeeeeeee.....eeeeeeeeeeee.. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------- Transcript
                  1y9x A  1 MSSGTPTPSNVVLIGKKPVMNYVLAALTLLNQGVSEIVIKARGRAISKAVDTVEIVRNRFLADKIEIKEIRVGSQVVTSQDGRQSRVSTIEIAIRKK 97
                                    10        20        30        40        50        60        70        80        90       


Chain B from PDB  Type:PROTEIN  Length:97
 aligned with ALBA1_SULSH | P60848 from UniProtKB/Swiss-Prot  Length:97

    Alignment length:97
                                    10        20        30        40        50        60        70        80        90       
           ALBA1_SULSH    1 MSSGTPTPSNVVLIGKKPVMNYVLAALTLLNQGVSEIVIKARGRAISKAVDTVEIVRNRFLPDKIEIKEIRVGSQVVTSQDGRQSRVSTIEIAIRKK 97
               SCOP domains d1y9xb_ B: automated matches                                                                      SCOP domains
               CATH domains ---------1y9xB01 B:10-97  [code=3.30.110.20, no name defined]                                     CATH domains
           Pfam domains (1) ---------Alba-1y9xB01 B:10-74                                             ----------------------- Pfam domains (1)
           Pfam domains (2) ---------Alba-1y9xB02 B:10-74                                             ----------------------- Pfam domains (2)
         Sec.struct. author ..........eee....hhhhhhhhhhhhhh....eeeeeee..hhhhhhhhhhhhhh.......eeeeeeeeeeeee.....eeeeeeeeeeee.. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------- Transcript
                  1y9x B  1 MSSGTPTPSNVVLIGKKPVMNYVLAALTLLNQGVSEIVIKARGRAISKAVDTVEIVRNRFLADKIEIKEIRVGSQVVTSQDGRQSRVSTIEIAIRKK 97
                                    10        20        30        40        50        60        70        80        90
   Legend:   → Mismatch (orange background)
  - → Gap (green background, '-', border residues have a numbering label)
    → Modified Residue (blue background, lower-case, 'x' indicates undefined single-letter code, labelled with number + name)
  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)

NMR Structure
(-)
Class: Alpha and beta proteins (a+b) (23004)

(-) CATH Domains  (1, 2)

NMR Structure
(-)
Class: Alpha Beta (26913)

(-) Pfam Domains  (1, 2)

NMR Structure
(-)
Clan: AlbA (7)

(-) Gene Ontology  (7, 7)

NMR Structure(hide GO term definitions)
Chain A,B   (ALBA1_SULSH | P60848)
molecular function
    GO:0003677    DNA binding    Any molecular function by which a gene product interacts selectively and non-covalently with DNA (deoxyribonucleic acid).
    GO:0003723    RNA binding    Interacting selectively and non-covalently with an RNA molecule or a portion thereof.
    GO:0003690    double-stranded DNA binding    Interacting selectively and non-covalently with double-stranded DNA.
    GO:0003676    nucleic acid binding    Interacting selectively and non-covalently with any nucleic acid.
biological process
    GO:0030261    chromosome condensation    The progressive compaction of dispersed interphase chromatin into threadlike chromosomes prior to mitotic or meiotic nuclear division, or during apoptosis, in eukaryotic cells.
cellular component
    GO:0005694    chromosome    A structure composed of a very long molecule of DNA and associated proteins (e.g. histones) that carries hereditary information.
    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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 Related Entries

(-) Entries Sharing at Least One Protein Chain (UniProt ID)

UniProtKB/Swiss-Prot
        ALBA1_SULSH | P60848: 1h0x 1h0y 3wbm

(-) Related Entries Specified in the PDB File

5226 THE CHEMICAL SHIFT ASSIGNMENTS OF SSH10B PROTEIN
6019 THE CHEMICAL SHIFT ASSIGNMENTS OF SSH10B P62A MUTANT