4FRD
Crystal Structure of ABBA+UDP+Gal at pH 9.0 with MPD as the cryoprotectant
- PDB DOI: https://doi.org/10.2210/pdb4FRD/pdb
- Classification: TRANSFERASE
- Organism(s): Homo sapiens
- Expression System: Escherichia coli
- Mutation(s): Yes 
- Deposited: 2012-06-26 Released: 2013-12-25 
Experimental Data Snapshot
- Method: X-RAY DIFFRACTION
- Resolution: 1.55 Å
- R-Value Free: 0.214 
- R-Value Work: 0.178 
- R-Value Observed: 0.180 
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 |
Histo-blood group ABO system transferase | 294 | Homo sapiens | Mutation(s): 2  Gene Names: ABO EC: 2.4.1.40 (PDB Primary Data), 2.4.1.37 (PDB Primary Data) | ||
UniProt & NIH Common Fund Data Resources | |||||
Find proteins for P16442 (Homo sapiens) Explore P16442  Go to UniProtKB:  P16442 | |||||
PHAROS:  P16442 | |||||
Entity Groups   | |||||
Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
UniProt Group | P16442 | ||||
Sequence AnnotationsExpand | |||||
|
Small Molecules
Ligands 3 Unique | |||||
---|---|---|---|---|---|
ID | Chains | Name / Formula / InChI Key | 2D Diagram | 3D Interactions | |
UDP Query on UDP | B [auth A] | URIDINE-5'-DIPHOSPHATE C9 H14 N2 O12 P2 XCCTYIAWTASOJW-XVFCMESISA-N | |||
GAL Query on GAL | C [auth A] | beta-D-galactopyranose C6 H12 O6 WQZGKKKJIJFFOK-FPRJBGLDSA-N | |||
MN Query on MN | D [auth A] | MANGANESE (II) ION Mn WAEMQWOKJMHJLA-UHFFFAOYSA-N |
Experimental Data & Validation
Experimental Data
- Method: X-RAY DIFFRACTION
- Resolution: 1.55 Å
- R-Value Free: 0.214 
- R-Value Work: 0.178 
- R-Value Observed: 0.180 
- Space Group: C 2 2 21
Unit Cell:
Length ( Å ) | Angle ( ˚ ) |
---|---|
a = 52.52 | α = 90 |
b = 149.28 | β = 90 |
c = 79.75 | γ = 90 |
Software Name | Purpose |
---|---|
d*TREK | data reduction |
PHASER | phasing |
REFMAC | refinement |
PDB_EXTRACT | data extraction |
CrystalClear | data collection |
CrystalClear | data reduction |
d*TREK | data scaling |
Entry History 
Deposition Data
- Released Date: 2013-12-25  Deposition Author(s): Johal, A.R., Alfaro, J.A., Blackler, R.J., Schuman, B., Borisova, S.N., Evans, S.V.
Revision History (Full details and data files)
- Version 1.0: 2013-12-25
Type: Initial release - Version 1.1: 2014-02-26
Changes: Database references - Version 1.2: 2018-03-07
Changes: Data collection - Version 1.3: 2020-07-29
Type: Remediation
Reason: Carbohydrate remediation
Changes: Data collection, Database references, Derived calculations, Structure summary - Version 1.4: 2023-09-13
Changes: Data collection, Database references, Refinement description, Structure summary