8ZMW | pdb_00008zmw

Structure of a triple-helix region of human Collagen type VII from Trautec

PDB DOI: https://doi.org/10.2210/pdb8ZMW/pdb

Classification: STRUCTURAL PROTEIN
Organism(s): Homo sapiens
Mutation(s): No

Deposited: 2024-05-24 Released: 2024-06-26
Deposition Author(s): Chu, Y., Zhai, Y., Fan, X., Fu, S., Li, J., Wu, X., Cai, H., Wang, X., Li, D., Feng, P., Cao, K., Qian, S.
Funding Organization(s): Jiangsu Trautec Medical Technology Co.,Ltd

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 1.75 Å
R-Value Free:
0.193 (Depositor), 0.222 (DCC)
R-Value Work:
0.133 (Depositor)

Starting Model: experimental
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Ligand Structure Quality Assessment

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Literature

Structure of a triple-helix region of human Collagen type VII from Trautec

Chu, Y., Zhai, Y., Fan, X., Fu, S., Li, J., Wu, X., Cai, H., Wang, X., Li, D., Feng, P., Cao, K., Qian, S.

To be published.

Macromolecule Content

Total Structure Weight: 17.2 kDa
Atom Count: 1,536
Modeled Residue Count: 180
Deposited Residue Count: 180
Unique protein chains: 1

Macromolecules

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Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
collagen type VII	A, B, C, D, E A, B, C, D, E, F	30	Homo sapiens	Mutation(s): 0

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
ACT (Subject of Investigation/LOI) Query on ACT 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]	ACETATE ION C₂ H₃ O₂ QTBSBXVTEAMEQO-UHFFFAOYSA-M		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, E A, B, C, D, E, F	L-PEPTIDE LINKING	C₅ H₉ N O₃		PRO

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 1.75 Å
R-Value Free: 0.193 (Depositor), 0.222 (DCC)
R-Value Work: 0.133 (Depositor)

Space Group: P 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 20.927	α = 78.396
b = 30.425	β = 81.644
c = 53.078	γ = 72.831

Software Package:

Software Name	Purpose
REFMAC	refinement
XDS	data reduction
Aimless	data scaling
PHASER	phasing

Structure Validation

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Entry History

& Funding Information

Deposition Data

Released Date: 2024-06-26

Deposition Author(s):

Funding Organization	Location	Grant Number
Jiangsu Trautec Medical Technology Co.,Ltd		CQ20230004/CE20235002/CQ20230005

Revision History (Full details and data files)

Version 1.0: 2024-06-26
Type: Initial release

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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.