6C5I
Unliganded S25-5 Fab
- PDB DOI: https://doi.org/10.2210/pdb6C5I/pdb
- Classification: SUGAR BINDING PROTEIN
- Organism(s): Mus musculus
- Mutation(s): No 
- Deposited: 2018-01-16 Released: 2019-01-09 
- Funding Organization(s): Natural Sciences and Engineering Research Council (NSERC, Canada)
Experimental Data Snapshot
- Method: X-RAY DIFFRACTION
- Resolution: 1.89 Å
- R-Value Free: 0.231 
- R-Value Work: 0.193 
- R-Value Observed: 0.195 
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 |
Fab IgG1 Heavy Chain | A [auth H] | 218 | Mus musculus | Mutation(s): 0  | |
UniProt | |||||
Find proteins for Q99LC4 (Mus musculus) Explore Q99LC4  Go to UniProtKB:  Q99LC4 | |||||
Entity Groups   | |||||
Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
UniProt Group | Q99LC4 | ||||
Sequence AnnotationsExpand | |||||
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Find similar proteins by:
(by identity cutoff) | 3D Structure
Entity ID: 2 | |||||
---|---|---|---|---|---|
Molecule | Chains | Sequence Length | Organism | Details | Image |
Fab IgG1 (kappa) Light Chain | B [auth L] | 219 | Mus musculus | Mutation(s): 0  | |
UniProt | |||||
Find proteins for A0A0F7R5U8 (Mus musculus) Explore A0A0F7R5U8  Go to UniProtKB:  A0A0F7R5U8 | |||||
Entity Groups   | |||||
Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
UniProt Group | A0A0F7R5U8 | ||||
Sequence AnnotationsExpand | |||||
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Small Molecules
Ligands 4 Unique | |||||
---|---|---|---|---|---|
ID | Chains | Name / Formula / InChI Key | 2D Diagram | 3D Interactions | |
NAG Query on NAG | C [auth H] | 2-acetamido-2-deoxy-beta-D-glucopyranose C8 H15 N O6 OVRNDRQMDRJTHS-FMDGEEDCSA-N | |||
PG0 Query on PG0 | G [auth L], H [auth L] | 2-(2-METHOXYETHOXY)ETHANOL C5 H12 O3 SBASXUCJHJRPEV-UHFFFAOYSA-N | |||
NI Query on NI | E [auth L], F [auth L] | NICKEL (II) ION Ni VEQPNABPJHWNSG-UHFFFAOYSA-N | |||
CL Query on CL | D [auth H] | CHLORIDE ION Cl VEXZGXHMUGYJMC-UHFFFAOYSA-M |
Experimental Data & Validation
Experimental Data
- Method: X-RAY DIFFRACTION
- Resolution: 1.89 Å
- R-Value Free: 0.231 
- R-Value Work: 0.193 
- R-Value Observed: 0.195 
- Space Group: P 21 21 21
Unit Cell:
Length ( Å ) | Angle ( ˚ ) |
---|---|
a = 64.635 | α = 90 |
b = 72.877 | β = 90 |
c = 109.015 | γ = 90 |
Software Name | Purpose |
---|---|
SCALEPACK | data scaling |
REFMAC | refinement |
PDB_EXTRACT | data extraction |
HKL-2000 | data reduction |
PHASER | phasing |
Entry History & Funding Information
Deposition Data
- Released Date: 2019-01-09  Deposition Author(s): Evans, S.V., Haji-Ghassemi, O.
Funding Organization | Location | Grant Number |
---|---|---|
Natural Sciences and Engineering Research Council (NSERC, Canada) | Canada | Discovery Grant 171356-2013 |
Revision History (Full details and data files)
- Version 1.0: 2019-01-09
Type: Initial release - Version 1.1: 2019-02-27
Changes: Data collection, Database references - Version 1.2: 2020-01-08
Changes: Author supporting evidence - Version 1.3: 2020-07-29
Type: Remediation
Reason: Carbohydrate remediation
Changes: Data collection, Derived calculations, Structure summary - Version 1.4: 2023-10-04
Changes: Data collection, Database references, Refinement description, Structure summary