3B9C | pdb_00003b9c

Crystal Structure of Human GRP CRD

PDB DOI: https://doi.org/10.2210/pdb3B9C/pdb

Classification: UNKNOWN FUNCTION
Organism(s): Homo sapiens
Expression System: Escherichia coli BL21(DE3)
Mutation(s): No

Deposited: 2007-11-05 Released: 2008-03-18
Deposition Author(s): Zhou, D., Ge, H.H., Niu, L.W., Teng, M.K.

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 1.90 Å
R-Value Free:
0.266 (Depositor), 0.261 (DCC)
R-Value Work:
0.221 (Depositor), 0.218 (DCC)
R-Value Observed:
0.224 (Depositor)

Starting Model: experimental
View more details

wwPDB Validation 3D Report Full Report

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

Literature

Crystal structure of the C-terminal conserved domain of human GRP, a galectin-related protein, reveals a function mode different from those of galectins.

Zhou, D., Ge, H., Sun, J., Gao, Y., Teng, M., Niu, L.

(2008) Proteins 71: 1582-1588

PubMed: 18320588 Search on PubMed
DOI: https://doi.org/10.1002/prot.22003
Primary Citation Related Structures:
3B9C

Organizational Affiliation

Hefei National Laboratory for Physical Sciences at Microscale and School of Life Sciences, University of Science and Technology of China, Hefei, Anhui 230027, China.

Macromolecule Content

Total Structure Weight: 66.31 kDa
Atom Count: 4,761
Modeled Residue Count: 536
Deposited Residue Count: 576
Unique protein chains: 1

Macromolecules

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| 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
HSPC159	A, B [auth D], C, D [auth B]	144	Homo sapiens	Mutation(s): 0
UniProt & NIH Common Fund Data Resources
Find proteins for Q3ZCW2 (Homo sapiens) Explore Q3ZCW2 Go to UniProtKB: Q3ZCW2
PHAROS: Q3ZCW2 GTEx: ENSG00000119862
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	Q3ZCW2
Sequence Annotations Expand
Reference Sequence

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
SO4 Query on SO4 Download:Ideal Coordinates CCD File SDF format, chain E [auth A] SDF format, chain F [auth A] SDF format, chain H [auth D] SDF format, chain I [auth D] SDF format, chain L [auth C] SDF format, chain O [auth B] SDF format, chain P [auth B] MOL2 format, chain E [auth A] MOL2 format, chain F [auth A] MOL2 format, chain H [auth D] MOL2 format, chain I [auth D] MOL2 format, chain L [auth C] MOL2 format, chain O [auth B] MOL2 format, chain P [auth B] mmCIF format, chain E [auth A] mmCIF format, chain F [auth A] mmCIF format, chain H [auth D] mmCIF format, chain I [auth D] mmCIF format, chain L [auth C] mmCIF format, chain O [auth B] mmCIF format, chain P [auth B]	E [auth A] F [auth A] H [auth D] I [auth D] L [auth C] E [auth A], F [auth A], H [auth D], I [auth D], L [auth C], O [auth B], P [auth B]	SULFATE ION O₄ S QAOWNCQODCNURD-UHFFFAOYSA-L		Interactions Focus chain E [auth A] Focus chain F [auth A] Focus chain H [auth D] Focus chain I [auth D] Focus chain L [auth C] Focus chain O [auth B] Focus chain P [auth B] Interactions & Density Focus chain E [auth A] Focus chain F [auth A] Focus chain H [auth D] Focus chain I [auth D] Focus chain L [auth C] Focus chain O [auth B] Focus chain P [auth B]
BME Query on BME Download:Ideal Coordinates CCD File SDF format, chain G [auth A] SDF format, chain J [auth D] SDF format, chain K [auth D] SDF format, chain M [auth C] SDF format, chain N [auth C] SDF format, chain Q [auth B] MOL2 format, chain G [auth A] MOL2 format, chain J [auth D] MOL2 format, chain K [auth D] MOL2 format, chain M [auth C] MOL2 format, chain N [auth C] MOL2 format, chain Q [auth B] mmCIF format, chain G [auth A] mmCIF format, chain J [auth D] mmCIF format, chain K [auth D] mmCIF format, chain M [auth C] mmCIF format, chain N [auth C] mmCIF format, chain Q [auth B]	G [auth A] J [auth D] K [auth D] M [auth C] N [auth C] G [auth A], J [auth D], K [auth D], M [auth C], N [auth C], Q [auth B]	BETA-MERCAPTOETHANOL C₂ H₆ O S DGVVWUTYPXICAM-UHFFFAOYSA-N		Interactions Focus chain G [auth A] Focus chain J [auth D] Focus chain K [auth D] Focus chain M [auth C] Focus chain N [auth C] Focus chain Q [auth B] Interactions & Density Focus chain G [auth A] Focus chain J [auth D] Focus chain K [auth D] Focus chain M [auth C] Focus chain N [auth C] Focus chain Q [auth B]

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 1.90 Å
R-Value Free: 0.266 (Depositor), 0.261 (DCC)
R-Value Work: 0.221 (Depositor), 0.218 (DCC)
R-Value Observed: 0.224 (Depositor)

Space Group: C 1 2 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 123.14	α = 90
b = 96.67	β = 118.79
c = 61.57	γ = 90

Software Package:

Software Name	Purpose
REFMAC	refinement
MAR345dtb	data collection
AUTOMAR	data reduction
PHASER	phasing

Structure Validation

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View more in-depth experimental data

Entry History

Deposition Data

Released Date: 2008-03-18

Deposition Author(s):

Revision History (Full details and data files)

Version 1.0: 2008-03-18
Type: Initial release
Version 1.1: 2011-07-13
Changes: Version format compliance
Version 1.2: 2023-11-01
Changes: Data collection, Database references, Derived calculations, Refinement description

3B9C | pdb_00003b9c

Crystal Structure of Human GRP CRD

Literature

Crystal structure of the C-terminal conserved domain of human GRP, a galectin-related protein, reveals a function mode different from those of galectins.

Biological Assembly 1

Biological Assembly 2

Biological Assembly 3

Macromolecules

Entity ID: 1

UniProt & NIH Common Fund Data Resources

Entity Groups

Sequence Annotations

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