2K2G

Solution structure of the wild-type catalytic domain of human matrix metalloproteinase 12 (MMP-12) in complex with a tight-binding inhibitor

PDB DOI: https://doi.org/10.2210/pdb2K2G/pdb

Classification: HYDROLASE
Organism(s): Homo sapiens
Expression System: Escherichia coli
Mutation(s): No

Deposited: 2008-04-01 Released: 2008-05-20
Deposition Author(s): Markus, M.A., Dwyer, B., Wolfrom, S., Li, J., Li, W., Malakian, K., Wilhelm, J., Tsao, D.H.H.

Experimental Data Snapshot

Method: SOLUTION NMR
Conformers Calculated: 100
Conformers Submitted: 17
Selection Criteria: structures with the least restraint violations

wwPDB Validation 3D Report Full Report

This is version 1.3 of the entry. See complete history.

Literature

Solution structure of wild-type human matrix metalloproteinase 12 (MMP-12) in complex with a tight-binding inhibitor.

Markus, M.A., Dwyer, B., Wolfrom, S., Li, J., Li, W., Malakian, K., Wilhelm, J., Tsao, D.H.

(2008) J Biomol NMR 41: 55-60

PubMed: 18425585 Search on PubMed
DOI: https://doi.org/10.1007/s10858-008-9236-4
Primary Citation of Related Structures:
2K2G

Organizational Affiliation

Structural Biology and Computational Chemistry, Chemical and Screening Sciences, Wyeth Research, 87 Cambridge Park Drive, Cambridge, MA 02140, USA. mmarkus@wyeth.com

Macromolecule Content

Total Structure Weight: 18.86 kDa
Atom Count: 1,325
Modelled Residue Count: 165
Deposited Residue Count: 165
Unique protein chains: 1

Macromolecules

Find similar proteins by:

(by identity cutoff) | 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Macrophage metalloelastase	A	165	Homo sapiens	Mutation(s): 0 Gene Names: MMP12, HME EC: 3.4.24.65
UniProt & NIH Common Fund Data Resources
Find proteins for P39900 (Homo sapiens) Explore P39900 Go to UniProtKB: P39900
PHAROS: P39900 GTEx: ENSG00000262406
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt Group	P39900
Sequence Annotations Expand
Reference Sequence

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
DSV Query on DSV Download Ideal Coordinates CCD File SDF format, chain D [auth A] MOL2 format, chain D [auth A] mmCIF format, chain D [auth A]	D [auth A]	N-(dibenzo[b,d]thiophen-3-ylsulfonyl)-L-valine C₁₇ H₁₇ N O₄ S₂ RZWYSEXQXOXWKA-INIZCTEOSA-N		Interactions Focus chain D [auth A]
ZN Query on ZN Download Ideal Coordinates CCD File SDF format, chain B [auth A] SDF format, chain C [auth A] MOL2 format, chain B [auth A] MOL2 format, chain C [auth A] mmCIF format, chain B [auth A] mmCIF format, chain C [auth A]	B [auth A], C [auth A]	ZINC ION Zn PTFCDOFLOPIGGS-UHFFFAOYSA-N		Interactions Focus chain B [auth A] Focus chain C [auth A]

Binding Affinity Annotations
ID	Source	Binding Affinity
DSV	PDBBind: 2K2G	Kd: 7.5 (nM) from 1 assay(s)

Experimental Data & Validation

Experimental Data

Method: SOLUTION NMR
Conformers Calculated: 100
Conformers Submitted: 17
Selection Criteria: structures with the least restraint violations

Structure Validation

View Full Validation Report

Entry History

Deposition Data

Released Date: 2008-05-20

Deposition Author(s):

Revision History (Full details and data files)

Version 1.0: 2008-05-20
Type: Initial release
Version 1.1: 2011-07-13
Changes: Version format compliance
Version 1.2: 2022-03-16
Changes: Data collection, Database references, Derived calculations
Version 1.3: 2024-05-29
Changes: Data collection