5RHN | pdb_00005rhn

HISTIDINE TRIAD NUCLEOTIDE-BINDING PROTEIN (HINT) FROM RABBIT COMPLEXED WITH 8-BR-AMP

• PDB DOI: https://doi.org/10.2210/pdb5RHN/pdb

• Classification: NUCLEOTIDE-BINDING PROTEIN
• Organism(s): Oryctolagus cuniculus
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 1997-02-26 Released: 1997-06-16 
• Deposition Author(s): Brenner, C., Garrison, P., Gilmour, J., Peisach, D., Ringe, D., Petsko, G.A., Lowenstein, J.M.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.31 Å
• R-Value Free: 
  0.264 (Depositor), 0.243 (DCC) 
• R-Value Work: 
  0.162 (Depositor), 0.153 (DCC) 
• R-Value Observed: 
  0.162 (Depositor) 

Literature

Crystal structures of HINT demonstrate that histidine triad proteins are GalT-related nucleotide-binding proteins.

Brenner, C., Garrison, P., Gilmour, J., Peisach, D., Ringe, D., Petsko, G.A., Lowenstein, J.M.

(1997) Nat Struct Biol 4: 231-238

• PubMed: 9164465 
• DOI: https://doi.org/10.1038/nsb0397-231
• Primary Citation Related Structures: 
  3RHN, 4RHN, 5RHN, 6RHN


• PubMed Abstract: 
  

  Histidine triad nucleotide-binding protein (HINT), a dimeric purine nucleotide-binding protein from rabbit heart, is a member of the HIT (histidine triad) superfamily which includes HINT homologues and FHIT (HIT protein encoded at the chromosome 3 fragile site) homologues. Crystal structures of HINT-nucleotide complexes demonstrate that the most conserved residues in the superfamily mediate nucleotide binding and that the HIT motif forms part of the phosphate binding loop. Galactose-1-phosphate uridylyltransferase, whose deficiency causes galactosemia, contains tandem HINT domains with the same fold and mode of nucleotide binding as HINT despite having no overall sequence similarity. Features of FHIT, a diadenosine polyphosphate hydrolase and candidate tumour suppressor, are predicted from HINT-nucleotide structures.

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Organizational Affiliation: 
• Department of Biochemistry, Brandeis University, Waltham, Massachusetts 02254, USA. [e-mail]

Biological Assembly 1  

Global Symmetry: Cyclic - C2  (Explore in 3D)
Global Stoichiometry: Homo 2-mer - A2 

Biological assembly 1 assigned by authors and generated by PISA,PQS (software)

Macromolecule Content 

• Total Structure Weight: 13.01 kDa 
• Atom Count: 953 
• Modeled Residue Count: 115 
• Deposited Residue Count: 115 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
HISTIDINE TRIAD NUCLEOTIDE-BINDING PROTEIN	A	115	Oryctolagus cuniculus	Mutation(s): 0  Gene Names: HINT EC: 3.4.22 (UniProt), 3.9.1 (UniProt)
UniProt
Find proteins for P80912 (Oryctolagus cuniculus) Explore P80912  Go to UniProtKB:  P80912

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
8BR	B [auth A]	8-BROMO-ADENOSINE-5'-MONOPHOSPHATE C10 H13 Br N5 O7 P DNPIJKNXFSPNNY-UUOKFMHZSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.31 Å
• R-Value Free:  0.264 (Depositor), 0.243 (DCC) 
• R-Value Work:  0.162 (Depositor), 0.153 (DCC) 
• R-Value Observed: 0.162 (Depositor) 

Space Group: P 4₃ 2₁ 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 40.32	α = 90
b = 40.32	β = 90
c = 143.08	γ = 90

Software Package:

Software Name	Purpose
X-PLOR	model building
X-PLOR	refinement
R-AXIS	data reduction
R-AXIS	data scaling
X-PLOR	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 1997-06-16 
Deposition Author(s): Brenner, C., Garrison, P., Gilmour, J., Peisach, D., Ringe, D., Petsko, G.A., Lowenstein, J.M.

Revision History  

• Version 1.0: 1997-06-16
  Type: Initial release
  
• Version 1.1: 2008-03-25
  Changes: Version format compliance
• Version 1.2: 2011-07-13
  Changes: Derived calculations, Version format compliance
• Version 1.3: 2024-03-06
  Changes: Data collection, Database references, Derived calculations, Other