1T9F | pdb_00001t9f

Structural genomics of Caenorhabditis elegans: Structure of a protein with unknown function

PDB DOI: https://doi.org/10.2210/pdb1T9F/pdb

Classification: STRUCTURAL GENOMICS, UNKNOWN FUNCTION
Organism(s): Caenorhabditis elegans
Expression System: Escherichia coli BL21(DE3)
Mutation(s): No

Deposited: 2004-05-16 Released: 2004-05-25
Deposition Author(s): Symersky, J., Li, S., Bunzel, R., Schormann, N., Luo, D., Huang, W.Y., Qiu, S., Gray, R., Zhang, Y., Arabashi, A., Lu, S., Luan, C.H., Tsao, J., DeLucas, L., Luo, M., Southeast Collaboratory for Structural Genomics (SECSG)

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 2.00 Å
R-Value Free:
0.267 (Depositor), 0.266 (DCC)
R-Value Work:
0.217 (Depositor), 0.217 (DCC)
R-Value Observed:
0.217 (Depositor)

Starting Model: experimental
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wwPDB Validation 3D Report Full Report

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

Literature

Structural genomics of Caenorhabditis elegans: Structure of a protein with unknown function.

Symersky, J., Li, S., Bunzel, R., Schormann, N., Luo, D., Huang, W.Y., QIU, S., Gray, R., ZHANG, Y., ARABASHI, A., Lu, S., LUAN, C.H., Tsao, J., DeLucas, L., Luo, M.

To be published.

Macromolecule Content

Total Structure Weight: 20.69 kDa
Atom Count: 1,505
Modeled Residue Count: 178
Deposited Residue Count: 187
Unique protein chains: 1

Macromolecules

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| 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
protein 1d10	A	187	Caenorhabditis elegans	Mutation(s): 0
UniProt
Find proteins for O61793 (Caenorhabditis elegans) Explore O61793 Go to UniProtKB: O61793
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	O61793
Sequence Annotations Expand
Reference Sequence

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
MLI Query on MLI 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]	MALONATE ION C₃ H₂ O₄ OFOBLEOULBTSOW-UHFFFAOYSA-L		Interactions Focus chain B [auth A] Interactions & Density Focus chain B [auth A]

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 2.00 Å
R-Value Free: 0.267 (Depositor), 0.266 (DCC)
R-Value Work: 0.217 (Depositor), 0.217 (DCC)
R-Value Observed: 0.217 (Depositor)

Space Group: P 6₄

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 76.376	α = 90
b = 76.376	β = 90
c = 57.388	γ = 120

Software Package:

Software Name	Purpose
CNS	refinement
HKL-2000	data reduction
HKL-2000	data scaling
SOLVE	phasing
RESOLVE	phasing

Structure Validation

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View more in-depth experimental data

Entry History

Deposition Data

Released Date: 2004-05-25

Deposition Author(s):

Southeast Collaboratory for Structural Genomics (SECSG)

Revision History (Full details and data files)

Version 1.0: 2004-05-25
Type: Initial release
Version 1.1: 2008-04-30
Changes: Version format compliance
Version 1.2: 2011-07-13
Changes: Version format compliance
Version 1.3: 2024-04-03
Changes: Data collection, Database references, Derived calculations, Refinement description
Version 1.4: 2024-10-30
Changes: Structure summary