3IF1
Crystal structure of 237mAb in complex with a GalNAc
- PDB DOI: https://doi.org/10.2210/pdb3IF1/pdb
- Classification: IMMUNE SYSTEM
- Organism(s): Mus musculus
- Expression System: Mus musculus
- Mutation(s): No
- Deposited: 2009-07-23 Released: 2010-06-23
Experimental Data Snapshot
- Method: X-RAY DIFFRACTION
- Resolution: 2.39 Å
- R-Value Free: 0.285
- R-Value Work: 0.224
- R-Value Observed: 0.228
This is version 1.4 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 |
| Immunoglobulin light chain (IgG2a) | 215 | Mus musculus | Mutation(s): 0 |  | |
Entity Groups | |||||
| Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
Sequence AnnotationsExpand | |||||
| |||||
Find similar proteins by:
(by identity cutoff) | 3D Structure
Entity ID: 2 | |||||
|---|---|---|---|---|---|
| Molecule | Chains | Sequence Length | Organism | Details | Image |
| Immunoglobulin heavy chain (IgG2a) | 217 | Mus musculus | Mutation(s): 0 |  | |
Entity Groups | |||||
| Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
Sequence AnnotationsExpand | |||||
| |||||
Small Molecules
| Ligands 3 Unique | |||||
|---|---|---|---|---|---|
| ID | Chains | Name / Formula / InChI Key | 2D Diagram | 3D Interactions | |
| NGA Query on NGA | J [auth B], P [auth D] | 2-acetamido-2-deoxy-beta-D-galactopyranose C8 H15 N O6 OVRNDRQMDRJTHS-JAJWTYFOSA-N |  | ||
| ZN Query on ZN | E [auth A], F [auth A], G [auth A], K [auth C], O [auth D] | ZINC ION Zn PTFCDOFLOPIGGS-UHFFFAOYSA-N |  | ||
| MG Query on MG | H [auth A], I [auth A], L [auth C], M [auth C], N [auth C] | MAGNESIUM ION Mg JLVVSXFLKOJNIY-UHFFFAOYSA-N |  | ||
Experimental Data & Validation
Experimental Data
- Method: X-RAY DIFFRACTION
- Resolution: 2.39 Å
- R-Value Free: 0.285
- R-Value Work: 0.224
- R-Value Observed: 0.228
- Space Group: C 1 2 1
Unit Cell:
| Length ( Å ) | Angle ( ˚ ) |
|---|---|
| a = 279.35 | α = 90 |
| b = 38.42 | β = 109.11 |
| c = 95.99 | γ = 90 |
| Software Name | Purpose |
|---|---|
| d*TREK | data processing |
| PHENIX | refinement |
| PDB_EXTRACT | data extraction |
| d*TREK | data scaling |
Entry History
Deposition Data
- Released Date: 2010-06-23 Deposition Author(s): Brooks, C.L., Evans, S.V., Borisova, S.N.
Revision History (Full details and data files)
- Version 1.0: 2010-06-23
Type: Initial release - Version 1.1: 2011-07-13
Changes: Version format compliance - Version 1.2: 2011-11-16
Changes: Atomic model - Version 1.3: 2020-07-29
Type: Remediation
Reason: Carbohydrate remediation
Changes: Advisory, Data collection, Derived calculations, Structure summary - Version 1.4: 2023-09-06
Changes: Data collection, Database references, Refinement description, Structure summary
