8HHK | pdb_00008hhk

Crystal structure of a triple-helix region of human collagen type III

PDB DOI: https://doi.org/10.2210/pdb8HHK/pdb

Classification: CELL ADHESION
Organism(s): Homo sapiens
Expression System: synthetic construct
Mutation(s): No

Deposited: 2022-11-16 Released: 2023-01-18
Deposition Author(s): Yan, Z.C., Zhang, D., Qin, B.
Funding Organization(s): Other private

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 2.50 Å
R-Value Free:
0.314 (Depositor), 0.310 (DCC)
R-Value Work:
0.251 (Depositor), 0.250 (DCC)
R-Value Observed:
0.254 (Depositor)

wwPDB Validation 3D Report Full Report

This is version 1.0 of the entry. See complete history.

Literature

Crystal structure of a triple-helix region of human collagen type III

Yan, Z.C., Zhang, D., Qin, B.

To be published.

Macromolecule Content

Total Structure Weight: 17.33 kDa
Atom Count: 1,034
Modeled Residue Count: 137
Deposited Residue Count: 180
Unique protein chains: 1

Macromolecules

Find similar proteins by:

(by identity cutoff) | 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
PRO-HYP-GLY-PRO-HYP-GLY-PRO-HYP-GLY-PHE-ASP-GLY-ARG-ASN-GLY-GLU-LYS-GLY	A B C D [auth G] E [auth H] A, B, C, D [auth G], E [auth H], F [auth I]	30	Homo sapiens	Mutation(s): 0
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
Sequence Annotations Expand
Reference Sequence

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
SO4 Query on SO4 Download Ideal Coordinates CCD File SDF format, chain G [auth B] MOL2 format, chain G [auth B] mmCIF format, chain G [auth B]	G [auth B]	SULFATE ION O₄ S QAOWNCQODCNURD-UHFFFAOYSA-L		Interactions Focus chain G [auth B] Interactions & Density Focus chain G [auth B]

Modified Residues 1 Unique
ID	Chains	Type	Formula	2D Diagram	Parent
HYP Query on HYP	A B C D [auth G] E [auth H] A, B, C, D [auth G], E [auth H], F [auth I]	L-PEPTIDE LINKING	C₅ H₉ N O₃		PRO

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 2.50 Å
R-Value Free: 0.314 (Depositor), 0.310 (DCC)
R-Value Work: 0.251 (Depositor), 0.250 (DCC)
R-Value Observed: 0.254 (Depositor)

Space Group: P 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 15.335	α = 101.911
b = 29.155	β = 91.584
c = 69.047	γ = 101.154

Software Package:

Software Name	Purpose
PHENIX	refinement
XDS	data reduction
XDS	data scaling
MOLREP	phasing

Structure Validation

View Full Validation Report

Entry History & Funding Information

Deposition Data

Released Date: 2023-01-18

Deposition Author(s):

Funding Organization	Location	Grant Number
Other private		--

Revision History (Full details and data files)

Version 1.0: 2023-01-18
Type: Initial release

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.