1FZM

MHC CLASS I NATURAL MUTANT H-2KBM8 HEAVY CHAIN COMPLEXED WITH BETA-2 MICROGLOBULIN AND VESICULAR STOMATITIS VIRUS NUCLEOPROTEIN

Structural Biology Knowledgebase: 1FZM SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.8 Å
  • R-Value Free: 0.223
  • R-Value Work: 0.210

Literature

Macromolecules
Sequence Display for 1FZM

Classification: IMMUNE SYSTEM

Total Structure Weight: 45584.30

Macromolecule Entities
Molecule Chains Length Organism Details
H-2 CLASS I HISTOCOMPATIBILITY ANTIGEN, K-B ALPHA CHAIN A 274 Mus musculus Fragment: EXTRACELLULAR DOMAIN
Mutation: Y22F, M23I, E24S, D30N, C121X
Gene Name(s): H2-K1 H2-K
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG
PROTEIN (BETA-2-MICROGLOBULIN) B 99 Mus musculus Gene Name(s): B2m
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG
PROTEIN (NUCLEOCAPSID PROTEIN) P 8 Vesicular stomatitis indiana virus Fragment: RESIDUES 52-59
Gene Name(s): N
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG

Small Molecules
Ligands 5 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
NAG
Query on NAG

A N-ACETYL-D-GLUCOSAMINE
C8 H15 N O6
OVRNDRQMDRJTHS-FMDGEEDCSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
FUL
Query on FUL

A BETA-L-FUCOSE
6-DEOXY-BETA-L-GALACTOSE (Synonym)
C6 H12 O5
SHZGCJCMOBCMKK-KGJVWPDLSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
MPD
Query on MPD

A, B (4S)-2-METHYL-2,4-PENTANEDIOL
C6 H14 O2
SVTBMSDMJJWYQN-YFKPBYRVSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
MRD
Query on MRD

A (4R)-2-METHYLPENTANE-2,4-DIOL
C6 H14 O2
SVTBMSDMJJWYQN-RXMQYKEDSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
PO4
Query on PO4

A, B PHOSPHATE ION
O4 P
NBIIXXVUZAFLBC-UHFFFAOYSA-K
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
Modified Residues 1 Unique
ID Chains Type Formula 2D Diagram Parent
CSO
Query on CSO
A L-PEPTIDE LINKING C3 H7 N O3 S CYS

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.8 Å
  • R-Value Free: 0.223
  • R-Value Work: 0.210
  • Space Group: P 21 21 2
  • Electron Density Server: EDS EDS

Unit Cell:

Length (Å) Angle (°)
a = 137.26 α = 90.00
b = 88.15 β = 90.00
c = 45.59 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2000-10-03
  • Released Date: 2001-03-28
  • Deposition author(s): Rudolph, M.G., Speir, J.A., Brunmark, A., Mattsson, N., Jackson, M.R., Peterson, P.A., Teyton, L., Wilson, I.A.

Revision History

  • 2011-07-13
    Type: Version format compliance | Details: compliance with PDB Exchange Dictionary V4
  • 2011-07-13
    Type: Non-polymer description | Details: chemical name/synonym update