Download MendeleyCrystal structure of human AGX1 mutant complexed with UDPGLCNAC
Chen, X., van Aalten, D.M.F.To be published.
6Z2F
Crystal structure of human AGX1 mutant complexed with UDPGLCNAC
- PDB DOI: https://doi.org/10.2210/pdb6Z2F/pdb
- Classification: BIOSYNTHETIC PROTEIN
- Organism(s): Homo sapiens
- Expression System: Escherichia coli
- Mutation(s): Yes
- Deposited: 2020-05-15 Released: 2021-05-26
Experimental Data Snapshot
- Method: X-RAY DIFFRACTION
- Resolution: 1.70 ?
- R-Value Free: 0.226
- R-Value Work: 0.187
- R-Value Observed: 0.189
Starting Model: experimental
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This is version 1.1 of the entry. See complete history.
Literature
To be published.
Macromolecules
Find similar proteins by:
(by identity cutoff) | 3D Structure
Entity ID: 1 | |||||
|---|---|---|---|---|---|
| Molecule | Chains | Sequence Length | Organism | Details | Image |
| UDP-N-acetylhexosamine pyrophosphorylase | 509 | Homo sapiens | Mutation(s): 1 Gene Names: UAP1, SPAG2 EC: 2.7.7.83 (PDB Primary Data), 2.7.7.23 (PDB Primary Data), 2.7.4 (UniProt) |  | |
UniProt & NIH Common Fund Data Resources | |||||
Find proteins for Q16222 (Homo sapiens) Explore Q16222 Go to UniProtKB: Q16222 | |||||
PHAROS: Q16222 GTEx: ENSG00000117143 | |||||
Entity Groups | |||||
| Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
| UniProt Group | Q16222 | ||||
Sequence AnnotationsExpand | |||||
| |||||
Find similar proteins by:
(by identity cutoff) | 3D Structure
Entity ID: 2 | |||||
|---|---|---|---|---|---|
| Molecule | Chains | Sequence Length | Organism | Details | Image |
| UDP-N-acetylhexosamine pyrophosphorylase | 509 | Homo sapiens | Mutation(s): 1 Gene Names: UAP1, SPAG2 EC: 2.7.7.83 (PDB Primary Data), 2.7.7.23 (PDB Primary Data), 2.7.4 (UniProt) |  | |
UniProt & NIH Common Fund Data Resources | |||||
Find proteins for Q16222 (Homo sapiens) Explore Q16222 Go to UniProtKB: Q16222 | |||||
PHAROS: Q16222 GTEx: ENSG00000117143 | |||||
Entity Groups | |||||
| Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
| UniProt Group | Q16222 | ||||
Sequence AnnotationsExpand | |||||
| |||||
Small Molecules
| Ligands 1 Unique | |||||
|---|---|---|---|---|---|
| ID | Chains | Name / Formula / InChI Key | 2D Diagram | 3D Interactions | |
| UD1 Query on UD1 | C [auth A], D [auth B] | URIDINE-DIPHOSPHATE-N-ACETYLGLUCOSAMINE C17 H27 N3 O17 P2 LFTYTUAZOPRMMI-CFRASDGPSA-N |  | ||
| Modified Residues 1 Unique | |||||
|---|---|---|---|---|---|
| ID | Chains | Type | Formula | 2D Diagram | Parent |
| YCM Query on YCM | B | L-PEPTIDE LINKING | C5 H10 N2 O3 S |  | CYS |
Experimental Data & Validation
Experimental Data
- Method: X-RAY DIFFRACTION
- Resolution: 1.70 ?
- R-Value Free: 0.226
- R-Value Work: 0.187
- R-Value Observed: 0.189
- Space Group: P 1
Unit Cell:
| Length ( ? ) | Angle ( ? ) |
|---|---|
| a = 45.614 | ¦Á = 95.63 |
| b = 64.569 | ¦Â = 101.09 |
| c = 82.07 | ¦Ă = 104.93 |
| Software Name | Purpose |
|---|---|
| REFMAC | refinement |
| Aimless | data scaling |
| PDB_EXTRACT | data extraction |
| XDS | data reduction |
| MOLREP | phasing |
Entry History
Deposition Data
- Released Date: 2021-05-26 Deposition Author(s): Chen, X., van Aalten, D.M.F.
Revision History (Full details and data files)
- Version 1.0: 2021-05-26
Type: Initial release - Version 1.1: 2024-01-24
Changes: Data collection, Database references, Refinement description
