1JQD

Crystal Structure Analysis of Human Histamine Methyltransferase (Thr105 Polymorphic Variant) Complexed with AdoHcy and Histamine


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.28 Å
  • R-Value Free: 0.257 
  • R-Value Work: 0.205 

wwPDB Validation 3D Report Full Report


This is version 1.3 of the entry. See complete history

Literature

Two polymorphic forms of human histamine methyltransferase: structural, thermal, and kinetic comparisons.

Horton, J.R.Sawada, K.Nishibori, M.Zhang, X.Cheng, X.

(2001) Structure 9: 837-849

  • Primary Citation of Related Structures:  

  • PubMed Abstract: 
  • Histamine plays important biological roles in cell-to-cell communication; it is a mediator in allergic responses, a regulator of gastric acid secretion, a messenger in bronchial asthma, and a neurotransmitter in the central nervous system. Histamine ...

    Histamine plays important biological roles in cell-to-cell communication; it is a mediator in allergic responses, a regulator of gastric acid secretion, a messenger in bronchial asthma, and a neurotransmitter in the central nervous system. Histamine acts by binding to histamine receptors, and its local action is terminated primarily by methylation. Human histamine N-methyltransferase (HNMT) has a common polymorphism at residue 105 that correlates with the high- (Thr) and low- (Ile) activity phenotypes.


    Related Citations: 
    • Human histamine N-methyltransferase gene: structural characterization and chromosomal location
      Aksoy, S.,Raftogianis, R.,Weinshilboum, R.M.
      (1996) Biochem.Biophys.Res.Commun. 219: 548
    • Methylation pharmacogenetics: catechol O-methyltransferase, thiopurine methyltransferase, and histamine N-methyltransferase
      Weinshilboum, R.M.,Otterness, D.M.,Szumlanski, C.L.
      (1999) ANNU.REV.PHARMACOL.TOXICOL. 39: 19
    • Histamine N-methyltransferase pharmacogenetics: association of a common functional polymorphism with asthma
      Yan, L.,Galinsky, R.E.,Bernstein, J.A.,Liggett, S.B.,Weinshilboum, R.M.
      (2000) Pharmacogenetics 10: 261


    Organizational Affiliation

    Department of Biochemistry, Emory University School of Medicine, 1510 Clifton Road, Atlanta, GA 30322, USA.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Histamine N-Methyltransferase
A, B
292Homo sapiensMutation(s): 0 
Gene Names: HNMT
EC: 2.1.1.8
Find proteins for P50135 (Homo sapiens)
Go to Gene View: HNMT
Go to UniProtKB:  P50135
Small Molecules
Ligands 2 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
SAH
Query on SAH

Download SDF File 
Download CCD File 
A, B
S-ADENOSYL-L-HOMOCYSTEINE
C14 H20 N6 O5 S
ZJUKTBDSGOFHSH-WFMPWKQPSA-N
 Ligand Interaction
HSM
Query on HSM

Download SDF File 
Download CCD File 
A, B
HISTAMINE
C5 H9 N3
NTYJJOPFIAHURM-UHFFFAOYSA-N
 Ligand Interaction
External Ligand Annotations 
IDBinding Affinity (Sequence Identity %)
SAHKi: 18100 nM (100) BINDINGDB
SAHKi: 6900 nM BINDINGMOAD
SAHKi: 6900 nM PDBBIND
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.28 Å
  • R-Value Free: 0.257 
  • R-Value Work: 0.205 
  • Space Group: P 6
Unit Cell:
Length (Å)Angle (°)
a = 131.750α = 90.00
b = 131.750β = 90.00
c = 64.030γ = 120.00
Software Package:
Software NamePurpose
CNSrefinement
SCALEPACKdata scaling
MAR345data collection
CNSphasing

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2002-08-06
    Type: Initial release
  • Version 1.1: 2008-04-27
    Type: Version format compliance
  • Version 1.2: 2011-07-13
    Type: Version format compliance
  • Version 1.3: 2017-10-04
    Type: Refinement description