1Y81

Conserved hypothetical protein Pfu-723267-001 from Pyrococcus furiosus

PDB DOI: https://doi.org/10.2210/pdb1Y81/pdb

Classification: structural genomics, unknown function
Organism(s): Pyrococcus furiosus
Expression System: Escherichia coli
Mutation(s): Yes

Deposited: 2004-12-10 Released: 2005-01-25
Deposition Author(s): Zhao, M., Chang, J., Habel, J., Xu, H., Chen, L., Lee, D., Nguyen, D., Chang, S.-H., Horanyi, P., Florence, Q., Tempel, W., Zhou, W., Lin, D., Zhang, H., Praissman, J., Jenney Jr., F.E., Adams, M.W.W., Liu, Z.-J., Rose, J.P., Wang, B.-C., Southeast Collaboratory for Structural Genomics (SECSG)

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 1.70 Å
R-Value Free: 0.245
R-Value Work: 0.223
R-Value Observed: 0.223

wwPDB Validation 3D Report Full Report

Ligand Structure Quality Assessment

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

Literature

Conserved hypothetical protein Pfu-723267-001 from Pyrococcus furiosus

Zhao, M., Chang, J., Habel, J., Xu, H., Chen, L., Lee, D., Nguyen, D., Chang, S.-H., Horanyi, P., Florence, Q., Tempel, W., Zhou, W., Lin, D., Zhang, H., Praissman, J., Jenney Jr., F.E., Adams, M.W.W., Liu, Z.-J., Rose, J.P., Wang, B.-C.

To be published.

Macromolecule Content

Total Structure Weight: 16.49 kDa
Atom Count: 968
Modelled Residue Count: 116
Deposited Residue Count: 138
Unique protein chains: 1

Macromolecules

Find similar proteins by:

(by identity cutoff) | 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
conserved hypothetical protein	A	138	Pyrococcus furiosus	Mutation(s): 1
UniProt
Find proteins for Q8U2V3 (Pyrococcus furiosus (strain ATCC 43587 / DSM 3638 / JCM 8422 / Vc1)) Explore Q8U2V3 Go to UniProtKB: Q8U2V3
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt Group	Q8U2V3
Sequence Annotations Expand
Reference Sequence

Small Molecules

Ligands 3 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
COA Query on COA Download Ideal Coordinates CCD File SDF format, chain C [auth A] MOL2 format, chain C [auth A]	C [auth A]	COENZYME A C₂₁ H₃₆ N₇ O₁₆ P₃ S RGJOEKWQDUBAIZ-IBOSZNHHSA-N		Interactions Focus chain C [auth A] Interactions & Density Focus chain C [auth A]
SCN Query on SCN Download Ideal Coordinates CCD File SDF format, chain B [auth A] MOL2 format, chain B [auth A]	B [auth A]	THIOCYANATE ION C N S ZMZDMBWJUHKJPS-UHFFFAOYSA-M		Interactions Focus chain B [auth A] Interactions & Density Focus chain B [auth A]
UNX Query on UNX Download Ideal Coordinates CCD File SDF format, chain D [auth A] SDF format, chain E [auth A] SDF format, chain F [auth A] SDF format, chain G [auth A] SDF format, chain H [auth A] SDF format, chain I [auth A] SDF format, chain J [auth A] SDF format, chain K [auth A] MOL2 format, chain D [auth A] MOL2 format, chain E [auth A] MOL2 format, chain F [auth A] MOL2 format, chain G [auth A] MOL2 format, chain H [auth A] MOL2 format, chain I [auth A] MOL2 format, chain J [auth A] MOL2 format, chain K [auth A]	D [auth A] E [auth A] F [auth A] G [auth A] H [auth A] D [auth A], E [auth A], F [auth A], G [auth A], H [auth A], I [auth A], J [auth A], K [auth A]	UNKNOWN ATOM OR ION X		Interactions Focus chain D [auth A] Focus chain E [auth A] Focus chain F [auth A] Focus chain G [auth A] Focus chain H [auth A] Focus chain I [auth A] Focus chain J [auth A] Focus chain K [auth A] Interactions & Density Focus chain D [auth A] Focus chain E [auth A] Focus chain F [auth A] Focus chain G [auth A] Focus chain H [auth A] Focus chain I [auth A] Focus chain J [auth A] Focus chain K [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: 1.70 Å
R-Value Free: 0.245
R-Value Work: 0.223
R-Value Observed: 0.223
Space Group: P 6₂

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 79.146	α = 90
b = 79.146	β = 90
c = 36.402	γ = 120

Software Package:

Software Name	Purpose
DENZO	data reduction
SCALEPACK	data scaling
SOLVE	phasing
RESOLVE	phasing
REFMAC	refinement
PDB_EXTRACT	data extraction
MAR345	data collection
ISAS	phasing
ARP/wARP	model building