1FZM
MHC CLASS I NATURAL MUTANT H-2KBM8 HEAVY CHAIN COMPLEXED WITH BETA-2 MICROGLOBULIN AND VESICULAR STOMATITIS VIRUS NUCLEOPROTEIN
- PDB DOI: https://doi.org/10.2210/pdb1FZM/pdb
- Classification: IMMUNE SYSTEM
- Organism(s): Mus musculus, Vesicular stomatitis Indiana virus (strain Glasgow)
- Expression System: Drosophila melanogaster
- Mutation(s): Yes 
- Deposited: 2000-10-03 Released: 2001-03-28 
Experimental Data Snapshot
- Method: X-RAY DIFFRACTION
- Resolution: 1.80 Å
- R-Value Free: 0.223 
- R-Value Work: 0.210 
- R-Value Observed: 0.210 
This is version 2.1 of the entry. See complete history. 
Macromolecules
Find similar proteins by:
(by identity cutoff) | 3D Structure
Entity ID: 1 | |||||
---|---|---|---|---|---|
Molecule | Chains | Sequence Length | Organism | Details | Image |
H-2 CLASS I HISTOCOMPATIBILITY ANTIGEN, K-B ALPHA CHAIN | 274 | Mus musculus | Mutation(s): 5  | ||
UniProt | |||||
Find proteins for P01901 (Mus musculus) Explore P01901  Go to UniProtKB:  P01901 | |||||
Entity Groups   | |||||
Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
UniProt Group | P01901 | ||||
Sequence AnnotationsExpand | |||||
|
Find similar proteins by:
(by identity cutoff) | 3D Structure
Entity ID: 2 | |||||
---|---|---|---|---|---|
Molecule | Chains | Sequence Length | Organism | Details | Image |
PROTEIN (BETA-2-MICROGLOBULIN) | 99 | Mus musculus | Mutation(s): 0  | ||
UniProt & NIH Common Fund Data Resources | |||||
Find proteins for P01887 (Mus musculus) Explore P01887  Go to UniProtKB:  P01887 | |||||
IMPC:  MGI:88127 | |||||
Entity Groups   | |||||
Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
UniProt Group | P01887 | ||||
Sequence AnnotationsExpand | |||||
|
Find similar proteins by: Sequence | 3D Structure
Entity ID: 3 | |||||
---|---|---|---|---|---|
Molecule | Chains | Sequence Length | Organism | Details | Image |
PROTEIN (NUCLEOCAPSID PROTEIN) | C [auth P] | 8 | N/A | Mutation(s): 0  | |
UniProt | |||||
Find proteins for P11212 (Vesicular stomatitis Indiana virus (strain Glasgow)) Explore P11212  Go to UniProtKB:  P11212 | |||||
Entity Groups   | |||||
UniProt Group | P11212 | ||||
Sequence AnnotationsExpand | |||||
|
Oligosaccharides
Entity ID: 4 | |||||
---|---|---|---|---|---|
Molecule | Chains | Length | 2D Diagram | Glycosylation | 3D Interactions |
2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-[beta-L-fucopyranose-(1-6)]2-acetamido-2-deoxy-beta-D-glucopyranose | D [auth C] | 3 | N-Glycosylation | ||
Glycosylation Resources | |||||
GlyTouCan:  G28454KX GlyCosmos:  G28454KX GlyGen:  G28454KX |
Small Molecules
Ligands 4 Unique | |||||
---|---|---|---|---|---|
ID | Chains | Name / Formula / InChI Key | 2D Diagram | 3D Interactions | |
NAG Query on NAG | E [auth A] | 2-acetamido-2-deoxy-beta-D-glucopyranose C8 H15 N O6 OVRNDRQMDRJTHS-FMDGEEDCSA-N | |||
MPD Query on MPD | H [auth A], J [auth B] | (4S)-2-METHYL-2,4-PENTANEDIOL C6 H14 O2 SVTBMSDMJJWYQN-YFKPBYRVSA-N | |||
MRD Query on MRD | G [auth A] | (4R)-2-METHYLPENTANE-2,4-DIOL C6 H14 O2 SVTBMSDMJJWYQN-RXMQYKEDSA-N | |||
PO4 Query on PO4 | F [auth A], I [auth B] | PHOSPHATE ION O4 P NBIIXXVUZAFLBC-UHFFFAOYSA-K |
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: 1.80 Å
- R-Value Free: 0.223 
- R-Value Work: 0.210 
- R-Value Observed: 0.210 
- Space Group: P 21 21 2
Unit Cell:
Length ( Å ) | Angle ( ˚ ) |
---|---|
a = 137.26 | α = 90 |
b = 88.15 | β = 90 |
c = 45.59 | γ = 90 |
Software Name | Purpose |
---|---|
DENZO | data reduction |
SCALEPACK | data scaling |
CNS | refinement |
CNS | phasing |
Entry History 
Deposition Data
- 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 (Full details and data files)
- Version 1.0: 2001-03-28
Type: Initial release - Version 1.1: 2008-04-27
Changes: Version format compliance - Version 1.2: 2011-07-13
Changes: Non-polymer description, Version format compliance - Version 2.0: 2020-07-29
Type: Remediation
Reason: Carbohydrate remediation
Changes: Atomic model, Data collection, Database references, Derived calculations, Structure summary - Version 2.1: 2021-11-03
Changes: Database references, Structure summary