2F4N | pdb_00002f4n

Crystal structure of protein MJ1651 from Methanococcus jannaschii DSM 2661, Pfam DUF62

PDB DOI: https://doi.org/10.2210/pdb2F4N/pdb

Classification: STRUCTURAL GENOMICS, UNKNOWN FUNCTION
Organism(s): Methanocaldococcus jannaschii
Expression System: Escherichia coli
Mutation(s): Yes

Deposited: 2005-11-23 Released: 2005-12-06
Deposition Author(s): Rao, K.N., Swaminathan, S., Burley, S.K., New York SGX Research Center for Structural Genomics (NYSGXRC)

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 2.50 Å
R-Value Free:
0.265 (Depositor), 0.268 (DCC)
R-Value Work:
0.237 (Depositor), 0.241 (DCC)

wwPDB Validation 3D Report Full Report

Validation slider image for 2F4N

This is version 1.4 of the entry. See complete history.

Literature

Crystal structure of a conserved protein of unknown function (MJ1651) from Methanococcus jannaschii.

Rao, K.N., Burley, S.K., Swaminathan, S.

(2008) Proteins 70: 572-577

PubMed: 17910070 Search on PubMed
DOI: https://doi.org/10.1002/prot.21646
Primary Citation Related Structures:
2F4N

Organizational Affiliation

Biology Department, Brookhaven National Laboratory, Upton, New York 11973, USA.

Macromolecule Content

Total Structure Weight: 94.97 kDa
Atom Count: 5,570
Modeled Residue Count: 715
Deposited Residue Count: 819
Unique protein chains: 1

Macromolecules

Find similar proteins by:

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Hypothetical protein MJ1651	A, B, C	273	Methanocaldococcus jannaschii	Mutation(s): 5 Gene Names: MJ1651 EC: 3.13.2.3
UniProt
Find proteins for Q59045 (Methanocaldococcus jannaschii (strain ATCC 43067 / DSM 2661 / JAL-1 / JCM 10045 / NBRC 100440)) Explore Q59045 Go to UniProtKB: Q59045
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	Q59045
Sequence Annotations Expand
Reference Sequence

Small Molecules

Modified Residues 1 Unique
ID	Chains	Type	Formula	2D Diagram	Parent
MSE Query on MSE	A, B, C	L-PEPTIDE LINKING	C₅ H₁₁ N O₂ Se		MET

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 2.50 Å
R-Value Free: 0.265 (Depositor), 0.268 (DCC)
R-Value Work: 0.237 (Depositor), 0.241 (DCC)

Space Group: C 1 2 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 126.84	α = 90
b = 110.08	β = 115.39
c = 75.82	γ = 90

Software Package:

Software Name	Purpose
CBASS	data collection
SCALEPACK	data scaling
SOLVE	phasing
CNS	refinement

Structure Validation

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View more in-depth experimental data

Entry History

Deposition Data

Released Date: 2005-12-06

Deposition Author(s):

Swaminathan, S.

New York SGX Research Center for Structural Genomics (NYSGXRC)

Revision History (Full details and data files)

Version 1.0: 2005-12-06
Type: Initial release
Version 1.1: 2008-05-01
Changes: Version format compliance
Version 1.2: 2011-07-13
Changes: Version format compliance
Version 1.3: 2021-02-03
Changes: Database references, Derived calculations, Structure summary
Version 1.4: 2024-11-13
Changes: Data collection, Database references, 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.