6HMZ

Crystal Structure of a Single-Domain Cyclophilin from Brassica napus Phloem Sap


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.98 Å
  • R-Value Free: 0.223 
  • R-Value Work: 0.184 

wwPDB Validation 3D Report Full Report


This is version 1.0 of the entry. See complete history

Literature

Enzyme activity and structural features of three single-domain phloem cyclophilins from Brassica napus

Hanhart, P.Falke, S.Garbe, M.Thiess, M.Betzel, C.Kehr, J.

To be published.

Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Peptidyl-prolyl cis-trans isomerase
X
180Brassica napusMutation(s): 0 
Gene Names: BnaA09g35540D
EC: 5.2.1.8
Find proteins for A0A078GRH6 (Brassica napus)
Go to UniProtKB:  A0A078GRH6
Entity ID: 2
MoleculeChainsSequence LengthOrganismDetails
Cyclosporin
A
11N/AMutation(s): 0 
Protein Feature View is not available: No corresponding UniProt sequence found.
Small Molecules
Ligands 2 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
MLI
Query on MLI

Download SDF File 
Download CCD File 
X
MALONATE ION
C3 H2 O4
OFOBLEOULBTSOW-UHFFFAOYSA-L
 Ligand Interaction
MG
Query on MG

Download SDF File 
Download CCD File 
X
MAGNESIUM ION
Mg
JLVVSXFLKOJNIY-UHFFFAOYSA-N
 Ligand Interaction
Modified Residues  6 Unique
IDChainsTypeFormula2D DiagramParent
ABA
Query on ABA
A
L-PEPTIDE LINKINGC4 H9 N O2ALA
SAR
Query on SAR
A
PEPTIDE LINKINGC3 H7 N O2GLY
MLE
Query on MLE
A
L-PEPTIDE LINKINGC7 H15 N O2LEU
DAL
Query on DAL
A
D-PEPTIDE LINKINGC3 H7 N O2

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BMT
Query on BMT
A
L-PEPTIDE LINKINGC10 H19 N O3THR
MVA
Query on MVA
A
L-PEPTIDE LINKINGC6 H13 N O2VAL
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.98 Å
  • R-Value Free: 0.223 
  • R-Value Work: 0.184 
  • Space Group: I 41 2 2
Unit Cell:
Length (Å)Angle (°)
a = 86.580α = 90.00
b = 86.580β = 90.00
c = 119.520γ = 90.00
Software Package:
Software NamePurpose
REFMACrefinement
PDB_EXTRACTdata extraction
iMOSFLMdata reduction
MOLREPphasing
SCALAdata scaling

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
European CommissionGermanyPCIG14-GA-2013-63 0734
GermanyLFF-GK06 (DELIGRAH)
German Research FoundationGermanyDFG KE 856_6-1

Revision History 

  • Version 1.0: 2018-11-21
    Type: Initial release