3FYU

Crystal structure of acetyl xylan esterase from Bacillus pumilus obtained in presence of D-xylose and sodium acetate


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.62 Å
  • R-Value Free: 0.230 
  • R-Value Work: 0.196 

wwPDB Validation 3D Report Full Report


This is version 1.2 of the entry. See complete history

Literature

Structural and functional studies of Bacillus pumilus acetyl xylan esterase

Krastanova, I.Cassetta, A.Mastihubova, M.Biely, P.Lamba, D.

To be published.

Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Acetyl xylan esterase
A, I
320Bacillus pumilusMutation(s): 0 
Gene Names: axe
EC: 3.1.1.6
Find proteins for Q9K5F2 (Bacillus pumilus)
Go to UniProtKB:  Q9K5F2
Entity ID: 2
MoleculeChainsSequence LengthOrganismDetails
Acetyl xylan esterase
B, D, H
320Bacillus pumilusMutation(s): 0 
Gene Names: axe
EC: 3.1.1.6
Find proteins for Q9K5F2 (Bacillus pumilus)
Go to UniProtKB:  Q9K5F2
Entity ID: 3
MoleculeChainsSequence LengthOrganismDetails
Acetyl xylan esterase
C, E, F, G, L, M, N
320Bacillus pumilusMutation(s): 0 
Gene Names: axe
EC: 3.1.1.6
Find proteins for Q9K5F2 (Bacillus pumilus)
Go to UniProtKB:  Q9K5F2
Small Molecules
Ligands 4 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
CL
Query on CL

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Download CCD File 
A, B, C, D, E, F, G, H, I, L, M, N
CHLORIDE ION
Cl
VEXZGXHMUGYJMC-UHFFFAOYSA-M
 Ligand Interaction
EDO
Query on EDO

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Download CCD File 
A, B, D, E, F, G, H, I, M, N
1,2-ETHANEDIOL
ETHYLENE GLYCOL
C2 H6 O2
LYCAIKOWRPUZTN-UHFFFAOYSA-N
 Ligand Interaction
XYP
Query on XYP

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Download CCD File 
A, C, E, I, L, M, N
BETA-D-XYLOPYRANOSE
C5 H10 O5
SRBFZHDQGSBBOR-KKQCNMDGSA-N
 Ligand Interaction
ACY
Query on ACY

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Download CCD File 
C, E, F, G, I
ACETIC ACID
C2 H4 O2
QTBSBXVTEAMEQO-UHFFFAOYSA-N
 Ligand Interaction
Modified Residues  2 Unique
IDChainsTypeFormula2D DiagramParent
OAS
Query on OAS
A, I
L-PEPTIDE LINKINGC5 H9 N O4SER
TIS
Query on TIS
B, D, H
L-peptide linkingC5 H11 N O5SER
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.62 Å
  • R-Value Free: 0.230 
  • R-Value Work: 0.196 
  • Space Group: P 1 21 1
Unit Cell:
Length (Å)Angle (°)
a = 142.225α = 90.00
b = 86.622β = 112.78
c = 183.973γ = 90.00
Software Package:
Software NamePurpose
SCALEPACKdata scaling
DENZOdata reduction
MAR345data collection
CNSphasing
CNSrefinement
PDB_EXTRACTdata extraction

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2010-01-26
    Type: Initial release
  • Version 1.1: 2011-07-13
    Type: Version format compliance
  • Version 1.2: 2017-11-01
    Type: Refinement description