1D9W | pdb_00001d9w

BACTERIOPHAGE T4 LYSOZYME MUTANT

PDB DOI: https://doi.org/10.2210/pdb1D9W/pdb

Classification: HYDROLASE
Organism(s): Tequatrovirus T4
Expression System: Escherichia coli
Mutation(s): Yes

Deposited: 1999-10-30 Released: 1999-11-17
Deposition Author(s): Korndoerfer, I.P., Matthews, B.W.

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 1.91 Å
R-Value Work:
0.179 (Depositor), 0.172 (DCC)

wwPDB Validation 3D Report Full Report

Validation slider image for 1D9W

This is version 1.5 of the entry. See complete history.

Literature

Helix Capping in Bacteriophage T4 Lysozyme

Korndoerfer, I.P., Matthews, B.W.

To be published.

Macromolecule Content

Total Structure Weight: 18.73 kDa
Atom Count: 1,385
Modeled Residue Count: 162
Deposited Residue Count: 164
Unique protein chains: 1

Macromolecules

Find similar proteins by:

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
PROTEIN (LYSOZYME)	A	164	Tequatrovirus T4	Mutation(s): 1 Gene Names: GENE E EC: 3.2.1.17
UniProt
Find proteins for P00720 (Enterobacteria phage T4) Explore P00720 Go to UniProtKB: P00720
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	P00720
Sequence Annotations Expand
Reference Sequence

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
BME Query on BME Download:Ideal Coordinates CCD File SDF format, chain B [auth A] MOL2 format, chain B [auth A] mmCIF format, chain B [auth A]	B [auth A]	BETA-MERCAPTOETHANOL C₂ H₆ O S DGVVWUTYPXICAM-UHFFFAOYSA-N		Interactions Focus chain B [auth A] Interactions & Density Focus chain B [auth A]

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 1.91 Å
R-Value Work: 0.179 (Depositor), 0.172 (DCC)

Space Group: P 3₂ 2 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 60.89	α = 90
b = 60.89	β = 90
c = 97.24	γ = 120

Software Package:

Software Name	Purpose
SDMS	data collection
AUTOSTRAT	data collection
SDMS	data reduction
TNT	refinement
AUTOSTRAT	data reduction
SDMS	data scaling
TNT	phasing

Structure Validation

View Full Validation Report

View more in-depth experimental data

Entry History

Deposition Data

Released Date: 1999-11-17

Deposition Author(s):

Korndoerfer, I.P.

Revision History (Full details and data files)

Version 1.0: 1999-11-17
Type: Initial release
Version 1.1: 2008-04-27
Changes: Version format compliance
Version 1.2: 2011-07-13
Changes: Version format compliance
Version 1.3: 2013-02-13
Changes: Refinement description
Version 1.4: 2021-11-03
Changes: Database references, Derived calculations
Version 1.5: 2024-02-07
Changes: Data collection

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.