1LXJ | pdb_00001lxj

X-RAY STRUCTURE OF YBL001c NORTHEAST STRUCTURAL GENOMICS (NESG) CONSORTIUM TARGET YTYst72

PDB DOI: https://doi.org/10.2210/pdb1LXJ/pdb

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

Deposited: 2002-06-05 Released: 2003-07-29
Deposition Author(s): Tao, X., Khayat, R., Christendat, D., Savchenko, A., Xu, X., Edwards, A., Arrowsmith, C.H., Tong, L., Northeast Structural Genomics Consortium (NESG)

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 1.80 Å
R-Value Free:
0.243 (Depositor), 0.244 (DCC)
R-Value Work:
0.211 (Depositor), 0.212 (DCC)

wwPDB Validation 3D Report Full Report

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

Literature

CRYSTAL STRUCTURES OF MTH1187 AND ITS YEAST ORTHOLOG YBL001C

Tao, X., Khayat, R., Christendat, D., Savchenko, A., Xu, X., Goldsmith-Fischman, S., Honig, B., Edwards, A., Arrowsmith, C.H., Tong, L.

(2003) Proteins 52: 478-480

PubMed: 12866058 Search on PubMed
DOI: https://doi.org/10.1002/prot.10443
Primary Citation Related Structures:
1LXJ, 1LXN

Organizational Affiliation

Department of Biological Sciences, Northeast Structural Genomics Consortium, Columbia University, New York, New York 10027, USA.

Macromolecule Content

Total Structure Weight: 11.77 kDa
Atom Count: 1,035
Modeled Residue Count: 104
Deposited Residue Count: 104
Unique protein chains: 1

Macromolecules

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| 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
HYPOTHETICAL 11.5KDA PROTEIN IN HTB2-NTH2 INTERGENIC REGION	A	104	Saccharomyces cerevisiae	Mutation(s): 3
UniProt
Find proteins for P35195 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c)) Explore P35195 Go to UniProtKB: P35195
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	P35195
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: 1.80 Å
R-Value Free: 0.243 (Depositor), 0.244 (DCC)
R-Value Work: 0.211 (Depositor), 0.212 (DCC)

Space Group: I 4₁ 2 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 67.38	α = 90
b = 67.38	β = 90
c = 133.59	γ = 90

Software Package:

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

Structure Validation

View Full Validation Report

View more in-depth experimental data

Entry History

Deposition Data

Released Date: 2003-07-29

Deposition Author(s):

Northeast Structural Genomics Consortium (NESG)

Revision History (Full details and data files)

Version 1.0: 2003-07-29
Type: Initial release
Version 1.1: 2008-04-28
Changes: Version format compliance
Version 1.2: 2011-07-13
Changes: Derived calculations, Version format compliance
Version 1.3: 2024-10-16
Changes: Data collection, Database references, Derived calculations, Structure summary