- FASTA Sequence
- PDBx/mmCIF Format
- PDBx/mmCIF Format (gz)
- BinaryCIF Format (gz)
- Legacy PDB Format
- Legacy PDB Format (gz)
- PDBML/XML Format (gz)
- Structure Factors (CIF)
- Structure Factors (CIF - gz)
- Validation Full (PDF - gz)
- Validation (XML - gz)
- Validation (CIF - gz)
- Validation 2fo-fc coefficients (CIF - gz)
- Validation fo-fc coefficients (CIF - gz)
- Biological Assembly 1 (CIF - gz)
- Biological Assembly 1 (PDB - gz)
1ZNQ|pdb_00001znq
Crystal Structure of Human Liver GAPDH
- PDB DOI: https://doi.org/10.2210/pdb1ZNQ/pdb
- Classification: OXIDOREDUCTASE
- Organism(s): Homo sapiens
- Expression System: Escherichia coli BL21(DE3)
- Mutation(s): No
- Deposited: 2005-05-11 Released: 2005-05-24
- Deposition Author(s): Ismail, S.A.,Park, H.W.
Experimental Data Snapshot
- Method: X-RAY DIFFRACTION
- Resolution: 2.50 Å
- R-Value Free: 0.229 (Depositor), 0.230 (DCC)
- R-Value Work: 0.211 (Depositor), 0.210 (DCC)
Starting Model:experimental
View more details
This is version 1.5 of the entry. See complete history.
Literature
Download MendeleyExplore in 3D: Structure |Sequence Annotations |Electron Density |Validation Report |Ligand Interaction (NAD)
Global Symmetry: Dihedral - D2 (Explore in 3D)
Global Stoichiometry: Homo 4-mer - A4
Find Similar Assemblies
Biological assembly 1 assigned by authors and generated by PISA (software)
Macromolecule Content
- Total Structure Weight: 148.18 kDa
- Atom Count: 10,418
- Modeled Residue Count: 1,332
- Deposited Residue Count: 1,352
- Unique protein chains: 1
Macromolecules
Entity ID: 1 | |||||
|---|---|---|---|---|---|
| Molecule | Chains | Sequence Length | Organism | Details | Image |
| Glyceraldehyde-3-phosphate dehydrogenase, liver | A [auth O], B [auth P], C [auth R], D [auth Q] | 338 | Homo sapiens | Mutation(s): 0 Gene Names: GAPD EC: 1.2.1.12 (PDB Primary Data), 2.6.99 (UniProt) |  |
UniProt & NIH Common Fund Data Resources | |||||
Find proteins for P04406 (Homo sapiens) Explore P04406 Go to UniProtKB: P04406 | |||||
PHAROS: P04406 GTEx: ENSG00000111640 | |||||
Entity Groups | |||||
| Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
| UniProt Group | P04406 | ||||
Sequence AnnotationsExpand | |||||
| |||||
Small Molecules
| Ligands 1 Unique | |||||
|---|---|---|---|---|---|
| ID | Chains | Name / Formula / InChI Key | 2D Diagram | 3D Interactions | |
| NAD Query on NAD Download Ideal Coordinates CCD File
| E [auth O], F [auth P], G [auth R], H [auth Q] | NICOTINAMIDE-ADENINE-DINUCLEOTIDE C21 H27 N7 O14 P2 BAWFJGJZGIEFAR-NNYOXOHSSA-N |  | ||
Experimental Data & Validation
Experimental Data
- Method: X-RAY DIFFRACTION
- Resolution: 2.50 Å
- R-Value Free: 0.229 (Depositor), 0.230 (DCC)
- R-Value Work: 0.211 (Depositor), 0.210 (DCC)
Space Group: P 21 21 21
Unit Cell:
| Length ( Å ) | Angle ( ˚ ) |
|---|---|
| a = 124.5 | α = 90 |
| b = 132.31 | β = 90 |
| c = 86.037 | γ = 90 |
| Software Name | Purpose |
|---|---|
| HKL-2000 | data collection |
| SCALEPACK | data scaling |
| AMoRE | phasing |
| CNS | refinement |
| HKL-2000 | data reduction |
Entry History
Deposition Data
- Released Date: 2005-05-24 Deposition Author(s): Ismail, S.A.,Park, H.W.
Revision History (Full details and data files)
- Version 1.0: 2005-05-24
Type: Initial release - Version 1.1: 2008-04-30
Changes: Version format compliance - Version 1.2: 2011-07-13
Changes: Version format compliance - Version 1.3: 2014-11-12
Changes: Structure summary - Version 1.4: 2019-01-16
Changes: Data collection, Structure summary - Version 1.5: 2023-08-23
Changes: Data collection, Database references, Derived calculations, Refinement description
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RCSB PDB Core Operations are funded by theU.S. National Science Foundation (DBI-2321666), theUS Department of Energy (DE-SC0019749), and theNational Cancer Institute,National Institute of Allergy and Infectious Diseases, andNational Institute of General Medical Sciences of theNational Institutes of Health under grant R01GM157729.