1XE1 | pdb_00001xe1

Hypothetical Protein From Pyrococcus Furiosus Pfu-880080-001

PDB DOI: https://doi.org/10.2210/pdb1XE1/pdb

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

Deposited: 2004-09-08 Released: 2004-09-21
Deposition Author(s): Chang, J.C., Zhao, M., Zhou, W., Liu, Z.J., Tempel, W., Arendall III, W.B., Chen, L., Lee, D., Habel, J.E., Rose, J.P., Richardson, J.S., Richardson, D.C., Wang, B.C., Southeast Collaboratory for Structural Genomics (SECSG)

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 2.00 Å
R-Value Free:
0.240 (Depositor), 0.249 (DCC)
R-Value Work:
0.221 (Depositor)
R-Value Observed:
0.222 (Depositor)

wwPDB Validation 3D Report Full Report

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

Literature

Hypothetical Protein From Pyrococcus Furiosus Pfu-880080-001

Chang, J.C., Zhao, M., Zhou, W., Liu, Z.J., Tempel, W., Arendall III, W.B., Chen, L., Lee, D., Habel, J.E., Rose, J.P., Richardson, J.S., Richardson, D.C., Wang, B.C., Southeast Collaboratory for Structural Genomics

To be published.

Macromolecule Content

Total Structure Weight: 12.89 kDa
Atom Count: 689
Modeled Residue Count: 91
Deposited Residue Count: 116
Unique protein chains: 1

Macromolecules

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| 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
hypothetical protein PF0907	A	116	Pyrococcus furiosus	Mutation(s): 2
UniProt
Find proteins for Q8U2D2 (Pyrococcus furiosus (strain ATCC 43587 / DSM 3638 / JCM 8422 / Vc1)) Explore Q8U2D2 Go to UniProtKB: Q8U2D2
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	Q8U2D2
Sequence Annotations Expand
Reference Sequence

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
SO4 Query on SO4 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]	SULFATE ION O₄ S QAOWNCQODCNURD-UHFFFAOYSA-L		Interactions Focus chain B [auth A] Interactions & Density Focus chain B [auth A]

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

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 2.00 Å
R-Value Free: 0.240 (Depositor), 0.249 (DCC)
R-Value Work: 0.221 (Depositor)
R-Value Observed: 0.222 (Depositor)

Space Group: P 6₅ 2 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 88.625	α = 90
b = 88.625	β = 90
c = 73.267	γ = 120

Software Package:

Software Name	Purpose
SOLVE	phasing
RESOLVE	phasing
DENZO	data reduction
SCALEPACK	data scaling
PDB_EXTRACT	data extraction
MAR345	data collection
REFMAC	refinement

Structure Validation

View Full Validation Report

View more in-depth experimental data

Entry History

Deposition Data

Released Date: 2004-09-21

Deposition Author(s):

Southeast Collaboratory for Structural Genomics (SECSG)

Revision History (Full details and data files)

Version 1.0: 2004-09-21
Type: Initial release
Version 1.1: 2008-04-30
Changes: Version format compliance
Version 1.2: 2011-07-13
Changes: Derived calculations, Version format compliance
Version 1.3: 2017-10-11
Changes: Refinement description
Version 1.4: 2024-10-30
Changes: Data collection, Database references, Derived calculations, Structure summary