2YPN

Hydroxymethylbilane synthase


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.3 Å
  • R-Value Free: 0.269 
  • R-Value Work: 0.194 

wwPDB Validation 3D Report Full Report


This is version 1.4 of the entry. See complete history

Literature

Accurate and highly complete synchrotron protein crystal Laue diffraction data using the ESRF CCD and the Daresbury Laue software

Nieh, Y.P.Raftery, J.Weisgerber, S.Habash, J.Schotte, F.Ursby, T.Wulff, M.Haedener, A.Campbell, J.W.Hao, Q.Helliwell, J.R.

(1999) J.Synchrotron Radiat. 6: 995-1006


Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
PROTEIN (HYDROXYMETHYLBILANE SYNTHASE)
A
313Escherichia coli (strain K12)Gene Names: hemC (popE)
EC: 2.5.1.61
Find proteins for P06983 (Escherichia coli (strain K12))
Go to UniProtKB:  P06983
Small Molecules
Ligands 1 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
DPM
Query on DPM

Download SDF File 
Download CCD File 
A
3-[5-{[3-(2-carboxyethyl)-4-(carboxymethyl)-5-methyl-1H-pyrrol-2-yl]methyl}-4-(carboxymethyl)-1H-pyrrol-3-yl]propanoic acid
DIPYRROMETHANE COFACTOR
C20 H24 N2 O8
LCAXMKQKEYTFDM-UHFFFAOYSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.3 Å
  • R-Value Free: 0.269 
  • R-Value Work: 0.194 
  • Space Group: P 21 21 2
Unit Cell:
Length (Å)Angle (°)
a = 88.060α = 90.00
b = 75.730β = 90.00
c = 50.350γ = 90.00
Software Package:
Software NamePurpose
CCP4data scaling
Omodel building
DARESBURYdata reduction
X-PLORrefinement
X-PLORphasing
LAUENORM/AGROVATAdata reduction
X-PLORmodel building
DARESBURYdata collection
LAUENORMdata scaling

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 1999-02-02
    Type: Initial release
  • Version 1.1: 2008-04-26
    Type: Version format compliance
  • Version 1.2: 2011-07-13
    Type: Version format compliance
  • Version 1.3: 2013-09-18
    Type: Non-polymer description
  • Version 1.4: 2017-10-04
    Type: Refinement description