1JUV | pdb_00001juv

Crystal structure analysis of Dihydrofolate reductase from Bacteriophage T4

PDB DOI: https://doi.org/10.2210/pdb1JUV/pdb

Classification: OXIDOREDUCTASE
Organism(s): Tequatrovirus T4
Expression System: Escherichia coli
Mutation(s): No

Deposited: 2001-08-28 Released: 2003-12-23
Deposition Author(s): Moon, J.H., Oh, Y.K., Suh, S.W.

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 1.70 Å
R-Value Free:
0.269 (Depositor), 0.262 (DCC)
R-Value Work:
0.227 (Depositor), 0.231 (DCC)
R-Value Observed:
0.248 (Depositor)

wwPDB Validation 3D Report Full Report

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Ligand Structure Quality Assessment

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

Literature

Crystal structure analysis of Dihydrofolate reductase from Bacteriophage T4

Moon, J.H., Oh, Y.K., Lee, J.Y., Suh, S.W.

To be published.

Macromolecule Content

Total Structure Weight: 22.48 kDa
Atom Count: 1,694
Modeled Residue Count: 193
Deposited Residue Count: 193
Unique protein chains: 1

Macromolecules

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Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
DIHYDROFOLATE REDUCTASE	A	193	Tequatrovirus T4	Mutation(s): 0 Gene Names: frd EC: 1.5.1.3
UniProt
Find proteins for P04382 (Enterobacteria phage T4) Explore P04382 Go to UniProtKB: P04382
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	P04382
Sequence Annotations Expand
Reference Sequence

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
NDP Query on NDP 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]	NADPH DIHYDRO-NICOTINAMIDE-ADENINE-DINUCLEOTIDE PHOSPHATE C₂₁ H₃₀ N₇ O₁₇ P₃ ACFIXJIJDZMPPO-NNYOXOHSSA-N		Interactions Focus chain B [auth A] Interactions & Density Focus chain B [auth A]

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 1.70 Å
R-Value Free: 0.269 (Depositor), 0.262 (DCC)
R-Value Work: 0.227 (Depositor), 0.231 (DCC)
R-Value Observed: 0.248 (Depositor)

Space Group: P 4₃ 2 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 61.16	α = 90
b = 61.16	β = 90
c = 124.15	γ = 90

Software Package:

Software Name	Purpose
DENZO	data reduction
SCALEPACK	data scaling
CNS	refinement
CNS	phasing

Structure Validation

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Ligand Structure Quality Assessment

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Entry History

Deposition Data

Released Date: 2003-12-23

Deposition Author(s):

Revision History (Full details and data files)

Version 1.0: 2003-12-23
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: 2024-03-13
Changes: Data collection, Database references, Derived calculations

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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.