5HRJ

Crystal structure of the scavenger receptor cysteine-rich domain 5 (SRCR5) from porcine CD163

PDB DOI: https://doi.org/10.2210/pdb5HRJ/pdb

Classification: ENDOCYTOSIS
Organism(s): Sus scrofa
Expression System: Komagataella pastoris
Mutation(s): No

Deposited: 2016-01-23 Released: 2017-07-19
Deposition Author(s): Ma, H., Jiang, L., Qiao, S., Zhang, G., Li, R.

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 1.80 Å
R-Value Free: 0.253
R-Value Work: 0.213
R-Value Observed: 0.215

Starting Model: experimental
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wwPDB Validation 3D Report Full Report

This is version 1.2 of the entry. See complete history.

Literature

Crystal structure of the scavenger receptor cysteine-rich domain 5 (SRCR5) from porcine CD163

Ma, H., Jiang, L., Qiao, S., Zhang, G., Li, R.

To be published.

Macromolecule Content

Total Structure Weight: 11.64 kDa
Atom Count: 809
Modelled Residue Count: 101
Deposited Residue Count: 109
Unique protein chains: 1

Macromolecules

Find similar proteins by:

(by identity cutoff) | 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Scavenger receptor cysteine-rich type 1 protein M130	A	109	Sus scrofa	Mutation(s): 0 Gene Names: CD163, M130
UniProt
Find proteins for Q2VL90 (Sus scrofa) Explore Q2VL90 Go to UniProtKB: Q2VL90
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt Group	Q2VL90
Sequence Annotations Expand
Reference Sequence

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 1.80 Å
R-Value Free: 0.253
R-Value Work: 0.213
R-Value Observed: 0.215
Space Group: C 2 2 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 29.72	α = 90
b = 73.01	β = 90
c = 87.4	γ = 90

Software Package:

Software Name	Purpose
REFMAC	refinement
HKL-3000	data collection
XDS	data scaling

Structure Validation

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Entry History

Deposition Data

Released Date: 2017-07-19

Deposition Author(s):

Revision History (Full details and data files)

Version 1.0: 2017-07-19
Type: Initial release
Version 1.1: 2017-10-04
Changes: Data collection
Version 1.2: 2023-11-08
Changes: Data collection, Database references, Refinement description

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.