5ZSS

L-Cysteine-PLP reaction intermediate of NifS from Hydrogenimonas thermophila


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.17 Å
  • R-Value Free: 0.238 
  • R-Value Work: 0.188 
  • R-Value Observed: 0.190 

wwPDB Validation   3D Report Full Report



Literature

X-ray snapshots of two classes of cysteine desulfurase enzymes NifS and SufS

Nakamura, R.Fujishiro, T.Takahashi, Y.

To be published.

Macromolecules
Find similar proteins by:  (by identity cutoff)  |  Structure
Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
Cysteine desulfuraseA415Hydrogenimonas thermophilaMutation(s): 0 
Gene Names: SAMN05216234_11013
EC: 2.8.1.7
Find proteins for A0A1I5NEH3 (Hydrogenimonas thermophila)
Explore A0A1I5NEH3 
Go to UniProtKB:  A0A1I5NEH3
Protein Feature View
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  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  Structure
Entity ID: 2
MoleculeChainsSequence LengthOrganismDetailsImage
Cysteine desulfuraseB415Hydrogenimonas thermophilaMutation(s): 0 
Gene Names: SAMN05216234_11013
EC: 2.8.1.7
Find proteins for A0A1I5NEH3 (Hydrogenimonas thermophila)
Explore A0A1I5NEH3 
Go to UniProtKB:  A0A1I5NEH3
Protein Feature View
Expand
  • Reference Sequence
Small Molecules
Ligands 1 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
C6P
Query on C6P

Download CCD File 
A
N-({3-HYDROXY-2-METHYL-5-[(PHOSPHONOOXY)METHYL]PYRIDIN-4-YL}METHYL)-L-CYSTEINE
C11 H17 N2 O7 P S
FPVGQJHHLSVHOT-VIFPVBQESA-N
 Ligand Interaction
Modified Residues  1 Unique
IDChainsTypeFormula2D DiagramParent
LLP
Query on LLP
BL-PEPTIDE LINKINGC14 H22 N3 O7 PLYS
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.17 Å
  • R-Value Free: 0.238 
  • R-Value Work: 0.188 
  • R-Value Observed: 0.190 
  • Space Group: P 65
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 138.2α = 90
b = 138.2β = 90
c = 99.1γ = 120
Software Package:
Software NamePurpose
PHENIXrefinement
XSCALEdata scaling
PDB_EXTRACTdata extraction
XDSdata reduction
MOLREPphasing

Structure Validation

View Full Validation Report



Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
Japan Society for the Promotion of ScienceJapan17K14510
Japan Society for the Promotion of ScienceJapan15H04472

Revision History 

  • Version 1.0: 2019-05-01
    Type: Initial release