4C49 | pdb_00004c49

Reactive loop cleaved human CBG in complex with cortisol

PDB DOI: https://doi.org/10.2210/pdb4C49/pdb

Classification: TRANSPORT PROTEIN
Organism(s): Homo sapiens
Expression System: Escherichia coli BL21(DE3)
Mutation(s): Yes

Deposited: 2013-09-02 Released: 2014-10-01
Deposition Author(s): Chan, W.L., Zhou, A., Read, R.J.

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 2.70 Å
R-Value Free:
0.268 (Depositor), 0.263 (DCC)
R-Value Work:
0.221 (Depositor)
R-Value Observed:
0.223 (Depositor)

Starting Model: experimental
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wwPDB Validation 3D Report Full Report

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Ligand Structure Quality Assessment

This is version 2.1 of the entry. See complete history.

Literature

Role of Sa-Hd Loop Movement in Cortisol Release Mechanism of Cbg

Chan, W.L., Zhou, A., Read, R.J.

To be published.

Macromolecule Content

Total Structure Weight: 167.95 kDa
Atom Count: 11,432
Modeled Residue Count: 1,448
Deposited Residue Count: 1,492
Unique protein chains: 1

Macromolecules

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Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
CORTICOSTEROID-BINDING GLOBULIN	A, B, C, D	373	Homo sapiens	Mutation(s): 1
UniProt & NIH Common Fund Data Resources
Find proteins for P08185 (Homo sapiens) Explore P08185 Go to UniProtKB: P08185
PHAROS: P08185 GTEx: ENSG00000170099
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	P08185
Sequence Annotations Expand
Reference Sequence

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
HCY Query on HCY Download:Ideal Coordinates CCD File SDF format, chain E [auth A] SDF format, chain F [auth B] SDF format, chain G [auth C] SDF format, chain H [auth D] MOL2 format, chain E [auth A] MOL2 format, chain F [auth B] MOL2 format, chain G [auth C] MOL2 format, chain H [auth D] mmCIF format, chain E [auth A] mmCIF format, chain F [auth B] mmCIF format, chain G [auth C] mmCIF format, chain H [auth D]	E [auth A], F [auth B], G [auth C], H [auth D]	(11alpha,14beta)-11,17,21-trihydroxypregn-4-ene-3,20-dione C₂₁ H₃₀ O₅ JYGXADMDTFJGBT-VWUMJDOOSA-N		Interactions Focus chain E [auth A] Focus chain F [auth B] Focus chain G [auth C] Focus chain H [auth D] Interactions & Density Focus chain E [auth A] Focus chain F [auth B] Focus chain G [auth C] Focus chain H [auth D]

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 2.70 Å
R-Value Free: 0.268 (Depositor), 0.263 (DCC)
R-Value Work: 0.221 (Depositor)
R-Value Observed: 0.223 (Depositor)

Space Group: P 1 2₁ 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 72.82	α = 90
b = 110.42	β = 102.52
c = 92.54	γ = 90

Software Package:

Software Name	Purpose
PHENIX	refinement
MOSFLM	data reduction
Aimless	data scaling
PHASER	phasing

Structure Validation

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Ligand Structure Quality Assessment

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Entry History

Deposition Data

Released Date: 2014-10-01

Deposition Author(s):

Revision History (Full details and data files)

Version 1.0: 2014-10-01
Type: Initial release
Version 2.0: 2023-12-20
Changes: Atomic model, Data collection, Database references, Derived calculations, Other, Refinement description
Version 2.1: 2024-11-06
Changes: Structure summary

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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.