4OY5 | pdb_00004oy5

0.89 Angstrom resolution crystal structure of (Gly-Pro-Hyp)10

PDB DOI: https://doi.org/10.2210/pdb4OY5/pdb

Classification: STRUCTURAL PROTEIN
Organism(s): Mammalia
Mutation(s): No

Deposited: 2014-02-10 Released: 2015-03-04
Deposition Author(s): Suzuki, H., Mahapatra, D., Steel, P.J., Dyer, J., Dobson, R.C.J., Gerrard, J.A., Valery, C.

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 0.89 Å
R-Value Free:
0.077 (Depositor), 0.080 (DCC)
R-Value Work:
0.067 (Depositor), 0.072 (DCC)
R-Value Observed:
0.068 (Depositor)

wwPDB Validation 3D Report Full Report

This is version 1.1 of the entry. See complete history.

Literature

Sub-angstrom structure of the collagen model peptide (GPO)10 shows a hydrated triple helix with pitch variation and two proline ring conformations

Suzuki, H., Mahapatra, D., Steel, P.J., Dyer, J., Dobson, R.C.J., Gerrard, J.A., Valery, C.

To be published.

Macromolecule Content

Total Structure Weight: 2.69 kDa
Atom Count: 210
Modeled Residue Count: 21
Deposited Residue Count: 30
Unique protein chains: 1

Macromolecules

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| 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Collagen	A	30	Mammalia	Mutation(s): 0

Small Molecules

Modified Residues 1 Unique
ID	Chains	Type	Formula	2D Diagram	Parent
HYP Query on HYP	A	L-PEPTIDE LINKING	C₅ H₉ N O₃		PRO

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 0.89 Å
R-Value Free: 0.077 (Depositor), 0.080 (DCC)
R-Value Work: 0.067 (Depositor), 0.072 (DCC)
R-Value Observed: 0.068 (Depositor)

Space Group: P 1 2₁ 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 13.86	α = 90
b = 26.15	β = 105.43
c = 19.88	γ = 90

Software Package:

Software Name	Purpose
REFMAC	refinement
SHELXDE	phasing

Structure Validation

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View more in-depth experimental data

Entry History

Deposition Data

Released Date: 2015-03-04

Deposition Author(s):

Revision History (Full details and data files)

Version 1.0: 2015-03-04
Type: Initial release
Version 1.1: 2023-12-27
Changes: Advisory, Data collection, Database references, Derived calculations, Source and taxonomy

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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.