4GRO | pdb_00004gro

Crystallographic and biological characterization of N- and C- terminus mutants of human MIF

PDB DOI: https://doi.org/10.2210/pdb4GRO/pdb

Classification: cytokine, Isomerase
Organism(s): Homo sapiens
Expression System: Escherichia coli BL21(DE3)
Mutation(s): No

Deposited: 2012-08-26 Released: 2013-10-02
Deposition Author(s): Fan, C., Lolis, E.

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 2.00 Å
R-Value Free:
0.230 (Depositor), 0.233 (DCC)
R-Value Work:
0.188 (Depositor), 0.197 (DCC)
R-Value Observed:
0.189 (Depositor)

wwPDB Validation 3D Report Full Report

Validation slider image for 4GRO

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

Literature

crystallographic and biological characterization of N- and C- terminus mutants of human MIF

Fan, C., Lolis, E.

To be published.

Macromolecule Content

Total Structure Weight: 100.9 kDa
Atom Count: 7,647
Modeled Residue Count: 936
Deposited Residue Count: 936
Unique protein chains: 1

Macromolecules

Find similar proteins by:

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Macrophage migration inhibitory factor	A, B, C, D, E A, B, C, D, E, F, G, H	117	Homo sapiens	Mutation(s): 0 Gene Names: GLIF, MIF, MMIF EC: 5.3.2.1 (PDB Primary Data), 5.3.3.12 (PDB Primary Data)
UniProt & NIH Common Fund Data Resources
Find proteins for P14174 (Homo sapiens) Explore P14174 Go to UniProtKB: P14174
PHAROS: P14174 GTEx: ENSG00000240972
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	P14174
Sequence Annotations Expand
Reference Sequence

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
CL Query on CL Download:Ideal Coordinates CCD File SDF format, chain R [auth H] SDF format, chain Q [auth H] SDF format, chain P [auth H] SDF format, chain O [auth G] SDF format, chain N [auth G] SDF format, chain M [auth F] SDF format, chain L [auth E] SDF format, chain K [auth E] SDF format, chain J [auth C] SDF format, chain I [auth B] MOL2 format, chain R [auth H] MOL2 format, chain Q [auth H] MOL2 format, chain P [auth H] MOL2 format, chain O [auth G] MOL2 format, chain N [auth G] MOL2 format, chain M [auth F] MOL2 format, chain L [auth E] MOL2 format, chain K [auth E] MOL2 format, chain J [auth C] MOL2 format, chain I [auth B] mmCIF format, chain R [auth H] mmCIF format, chain Q [auth H] mmCIF format, chain P [auth H] mmCIF format, chain O [auth G] mmCIF format, chain N [auth G] mmCIF format, chain M [auth F] mmCIF format, chain L [auth E] mmCIF format, chain K [auth E] mmCIF format, chain J [auth C] mmCIF format, chain I [auth B]	I [auth B] J [auth C] K [auth E] L [auth E] M [auth F] I [auth B], J [auth C], K [auth E], L [auth E], M [auth F], N [auth G], O [auth G], P [auth H], Q [auth H], R [auth H]	CHLORIDE ION Cl VEXZGXHMUGYJMC-UHFFFAOYSA-M		Interactions Focus chain I [auth B] Focus chain J [auth C] Focus chain K [auth E] Focus chain L [auth E] Focus chain M [auth F] Focus chain N [auth G] Focus chain O [auth G] Focus chain P [auth H] Focus chain Q [auth H] Focus chain R [auth H] Interactions & Density Focus chain I [auth B] Focus chain J [auth C] Focus chain K [auth E] Focus chain L [auth E] Focus chain M [auth F] Focus chain N [auth G] Focus chain O [auth G] Focus chain P [auth H] Focus chain Q [auth H] Focus chain R [auth H]

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 2.00 Å
R-Value Free: 0.230 (Depositor), 0.233 (DCC)
R-Value Work: 0.188 (Depositor), 0.197 (DCC)
R-Value Observed: 0.189 (Depositor)

Space Group: H 3

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 156.96	α = 90
b = 156.96	β = 90
c = 96.121	γ = 120

Software Package:

Software Name	Purpose
CrystalClear	data collection
PHASER	phasing
PHENIX	refinement
MOSFLM	data reduction
SCALA	data scaling

Structure Validation

View Full Validation Report

View more in-depth experimental data

Entry History

Deposition Data

Released Date: 2013-10-02

Deposition Author(s):

Revision History (Full details and data files)

Version 1.0: 2013-10-02
Type: Initial release
Version 1.1: 2021-05-12
Changes: Database references, Derived calculations
Version 1.2: 2024-02-28
Changes: Data collection, Database references

RCSB PDB is hosted by

RCSB PDB is a member of

RCSB Partners
Nucleic Acid Knowledgebase

CoreTrustSeal

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.