1AGQ | pdb_00001agq

GLIAL CELL-DERIVED NEUROTROPHIC FACTOR FROM RAT

PDB DOI: https://doi.org/10.2210/pdb1AGQ/pdb

Classification: GROWTH FACTOR
Organism(s): Rattus norvegicus
Expression System: Escherichia coli
Mutation(s): No

Deposited: 1997-03-25 Released: 1997-06-05
Deposition Author(s): Eigenbrot, C., Gerber, N.

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 1.90 Å
R-Value Free:
0.235 (Depositor)
R-Value Work:
0.203 (Depositor)
R-Value Observed:
0.203 (Depositor)

wwPDB Validation 3D Report Full Report

Validation slider image for 1AGQ

This is version 1.3 of the entry. See complete history.

Literature

X-ray structure of glial cell-derived neurotrophic factor at 1.9 A resolution and implications for receptor binding.

Eigenbrot, C., Gerber, N.

(1997) Nat Struct Biol 4: 435-438

PubMed: 9187648 Search on PubMed
DOI: https://doi.org/10.1038/nsb0697-435
Primary Citation Related Structures:
1AGQ

PubMed Abstract:
The crystal structure of glial cell-derived neurotrophic factor (GDNF) reveals two independent copies of the dimer that differ significantly through a hinge bending at the central, disulphide-rich region. GDNF is compared with other members of the TGF-beta family, and potential receptor binding surfaces are identified.

Macromolecule Content

Total Structure Weight: 60.36 kDa
Atom Count: 3,236
Modeled Residue Count: 373
Deposited Residue Count: 540
Unique protein chains: 1

Macromolecules

Find similar proteins by:

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
GLIAL CELL-DERIVED NEUROTROPHIC FACTOR	A, B, C, D	135	Rattus norvegicus	Mutation(s): 0
UniProt
Find proteins for Q07731 (Rattus norvegicus) Explore Q07731 Go to UniProtKB: Q07731
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	Q07731
Sequence Annotations Expand
Reference Sequence

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 1.90 Å
R-Value Free: 0.235 (Depositor)
R-Value Work: 0.203 (Depositor)
R-Value Observed: 0.203 (Depositor)

Space Group: P 1 2₁ 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 67.85	α = 90
b = 67.55	β = 115.94
c = 71.4	γ = 90

Software Package:

Software Name	Purpose
DENZO	data reduction
SCALEPACK	data scaling
XSIGHT	model building
X-PLOR	refinement
XSIGHT	phasing

Structure Validation

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Entry History

Deposition Data

Released Date: 1997-06-05

Deposition Author(s):

Revision History (Full details and data files)

Version 1.0: 1997-06-05
Type: Initial release
Version 1.1: 2008-03-24
Changes: Version format compliance
Version 1.2: 2011-07-13
Changes: Version format compliance
Version 1.3: 2024-11-20
Changes: Data collection, Database references, Structure summary

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RCSB PDB Core Operations are funded by the U.S. National Science Foundation (DBI-2321666), the US Department of Energy (DE-SC0019749), and the National Cancer Institute, National Institute of Allergy and Infectious Diseases, and National Institute of General Medical Sciences of the National Institutes of Health under grant R01GM157729. RCSB PDB uses resources of the National Energy Research Scientific Computing Center (NERSC), a Department of Energy User Facility.