5OTM

Crystal structure of human MTH1 in complex with O6-methyl-dGMP


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.8 Å
  • R-Value Free: 0.247 
  • R-Value Work: 0.196 

wwPDB Validation 3D Report Full Report


This is version 1.3 of the entry. See complete history

Literature

MutT homologue 1 (MTH1) catalyzes the hydrolysis of mutagenic O6-methyl-dGTP.

Jemth, A.S.Gustafsson, R.Brautigam, L.Henriksson, L.Vallin, K.S.A.Sarno, A.Almlof, I.Homan, E.Rasti, A.Warpman Berglund, U.Stenmark, P.Helleday, T.

(2018) Nucleic Acids Res. 46: 10888-10904


Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
7,8-dihydro-8-oxoguanine triphosphatase
A, B
159Homo sapiensMutation(s): 0 
Gene Names: NUDT1 (MTH1)
EC: 3.6.1.55
Find proteins for P36639 (Homo sapiens)
Go to Gene View: NUDT1
Go to UniProtKB:  P36639
Small Molecules
Ligands 3 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
SO4
Query on SO4

Download SDF File 
Download CCD File 
A, B
SULFATE ION
O4 S
QAOWNCQODCNURD-UHFFFAOYSA-L
 Ligand Interaction
ACT
Query on ACT

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Download CCD File 
A
ACETATE ION
C2 H3 O2
QTBSBXVTEAMEQO-UHFFFAOYSA-M
 Ligand Interaction
6OG
Query on 6OG

Download SDF File 
Download CCD File 
A, B
6-O-METHYL GUANOSINE-5'-MONOPHOSPHATE
C11 H16 N5 O7 P
GFRAHVJOXXMIDI-RRKCRQDMSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.8 Å
  • R-Value Free: 0.247 
  • R-Value Work: 0.196 
  • Space Group: P 21 21 21
Unit Cell:
Length (Å)Angle (°)
a = 59.581α = 90.00
b = 67.237β = 90.00
c = 79.025γ = 90.00
Software Package:
Software NamePurpose
Aimlessdata scaling
XDSdata reduction
PHASERphasing
REFMACrefinement

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
Swedish Research CouncilSweden--
Knut and Alice Wallenberg FoundationSweden--
Wenner-Gren FoundationSweden--
Ake Wiberg FoundationSweden--
Swedish Foundation for Strategic ResearchSweden--
Swedish Pain Relief FoundationSweden--
Torsten and Ragnar Soderberg FoundationSweden--
Swedish Childrens Cancer FoundationSweden--
Swedish Cancer SocietySweden--

Revision History 

  • Version 1.0: 2018-09-05
    Type: Initial release
  • Version 1.1: 2018-10-17
    Type: Data collection, Database references
  • Version 1.2: 2018-10-24
    Type: Data collection, Database references
  • Version 1.3: 2018-11-28
    Type: Data collection, Database references