2JB7 | pdb_00002jb7

PAE2307 with AMP

Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.65 Å
  • R-Value Free: 
    0.201 (Depositor), 0.207 (DCC) 
  • R-Value Work: 
    0.169 (Depositor), 0.178 (DCC) 
  • R-Value Observed: 
    0.172 (Depositor) 

Starting Model: experimental
View more details

wwPDB Validation 3D Report Full Report

Validation slider image for 2JB7

Ligand Structure Quality Assessment 


This is version 1.3 of the entry. See complete history. 

Literature

Pae2307 a Phosphotransferase

Rajasekaran, K., Lott, J.S., Johnston, J.M., Baker, E.N.

To be published.

Macromolecule Content 

  • Total Structure Weight: 56.78 kDa 
  • Atom Count: 4,279 
  • Modeled Residue Count: 488 
  • Deposited Residue Count: 492 
  • Unique protein chains: 1

Macromolecules

Find similar proteins by:
|  3D Structure
Entity ID: 1
MoleculeChains  Sequence LengthOrganismDetailsImage
HYPOTHETICAL PROTEIN PAE2307
A, B, C
164Pyrobaculum aerophilumMutation(s): 0 
UniProt
Find proteins for Q8ZVF7 (Pyrobaculum aerophilum (strain ATCC 51768 / DSM 7523 / JCM 9630 / CIP 104966 / NBRC 100827 / IM2))
Explore Q8ZVF7 
Go to UniProtKB:  Q8ZVF7
Entity Groups
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ8ZVF7
Sequence Annotations
Expand
Reference Sequence

Small Molecules

Ligands 3 Unique
IDChains Name / Formula / InChI Key2D Diagram3D Interactions
AMP

Query on AMP


Download:Ideal Coordinates CCD File
D [auth A],
F [auth B],
I [auth C]		ADENOSINE MONOPHOSPHATE
C10 H14 N5 O7 P
UDMBCSSLTHHNCD-KQYNXXCUSA-N
EPE

Query on EPE


Download:Ideal Coordinates CCD File
E [auth A],
H [auth B],
J [auth C]		4-(2-HYDROXYETHYL)-1-PIPERAZINE ETHANESULFONIC ACID
C8 H18 N2 O4 S
JKMHFZQWWAIEOD-UHFFFAOYSA-N
ACT

Query on ACT


Download:Ideal Coordinates CCD File
G [auth B]ACETATE ION
C2 H3 O2
QTBSBXVTEAMEQO-UHFFFAOYSA-M

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.65 Å
  • R-Value Free:  0.201 (Depositor), 0.207 (DCC) 
  • R-Value Work:  0.169 (Depositor), 0.178 (DCC) 
  • R-Value Observed: 0.172 (Depositor) 
Space Group: I 41 2 2
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 120.133α = 90
b = 120.133β = 90
c = 156.251γ = 90
Software Package:
Software NamePurpose
REFMACrefinement
MOSFLMdata reduction
SCALAdata scaling
REFMACphasing

Structure Validation

View Full Validation Report



Ligand Structure Quality Assessment 


View more in-depth experimental data

Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2008-08-05
    Type: Initial release
  • Version 1.1: 2011-05-08
    Changes: Version format compliance
  • Version 1.2: 2011-07-13
    Changes: Version format compliance
  • Version 1.3: 2023-12-13
    Changes: Data collection, Database references, Other, Refinement description