Macromolecule Content

• Total Structure Weight: 12611.79 
• Atom Count: 671 
• Residue Count: 99 
• Unique protein chains: 1
• Unique nucleic acid chains: 1

1J5K

COMPLEX OF THE KH3 DOMAIN OF HNRNP K WITH A SINGLE_STRANDED 10MER DNA OLIGONUCLEOTIDE

• DOI: 10.2210/pdb1J5K/pdb
• NDB: 1J5K

• Classification: TRANSCRIPTION/DNA
• Organism(s): Homo sapiens
• Expression System: Escherichia coli


• Deposited: 2002-05-13 Released: 2002-07-10 
• Deposition Author(s): Clore, G.M., Braddock, D.T.

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Experimental Data Snapshot

• Method: SOLUTION NMR
• Conformers Calculated: 125 
• Conformers Submitted: 1 
• Selection Criteria: REGULARIZED MEAN STRUCTURE 

Literature

Molecular basis of sequence-specific single-stranded DNA recognition by KH domains: solution structure of a complex between hnRNP K KH3 and single-stranded DNA.

Braddock, D.T., Baber, J.L., Levens, D., Clore, G.M.

(2002) EMBO J. 21: 3476-3485

• PubMed: 12093748 
• DOI: 10.1093/emboj/cdf352


• PubMed Abstract: 
  

To elucidate the basis of sequence-specific single-stranded (ss) DNA recognition by K homology (KH) domains, we have solved the solution structure of a complex between the KH3 domain of the transcriptional regulator heterogeneous nuclear ribonucleoprotein K (hnRNP K) and a 10mer ssDNA. We show that hnRNP K KH3 specifically recognizes a tetrad of sequence 5'd-TCCC. The complex is stabilized by a dense network of methyl-oxygen hydrogen bonds involving the methyl groups of three isoleucine residues and the O2 and N3 atoms of the two central cytosine bases. Comparison with the recently solved structure of a specific protein-ssDNA complex involving the KH3 and KH4 domains of the far upstream element (FUSE) binding protein FBP suggests that the amino acid located five residues N-terminal of the invariant GXXG motif, which is characteristic of all KH domains, plays a crucial role in discrimination of the first two bases of the tetrad.

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Organizational Affiliation: 

Laboratory of Chemical Physics, Building 5, National Institute of Diabetes and Digestive and Kidney Diseases, National Institutes of Health, Bethesda, MD 20892-0510, USA.

Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details
Heterogeneous nuclear ribonucleoprotein K	A	89	Homo sapiens	Mutation(s): 0  Gene Names: HNRNPK (HNRPK)
Find proteins for P61978 (Homo sapiens) Go to Gene View: HNRNPK Go to UniProtKB:  P61978

Entity ID: 1
Molecule	Chains	Length	Organism
5'-D(*AP*TP*AP*T*TP*CP*CP*CP*TP*C)-3'	B	10	N/A

Experimental Data & Validation

Experimental Data

• Method: SOLUTION NMR
• Conformers Calculated: 125 
• Conformers Submitted: 1 
• Selection Criteria: REGULARIZED MEAN STRUCTURE 

Structure Validation

Entry History 

Deposition Data

• Deposited Date: 2002-05-13 
• Released Date: 2002-07-10 
• Deposition Author(s): Clore, G.M., Braddock, D.T.

Revision History 

• Version 1.0: 2002-07-10
  Type: Initial release
• Version 1.1: 2008-04-26
  Type: Version format compliance
• Version 1.2: 2011-07-13
  Type: Version format compliance