3F2V | pdb_00003f2v

Crystal structure of the general stress protein 14 (TDE0354) in complex with FMN from Treponema denticola, Northeast Structural Genomics Consortium Target TdR58.

PDB DOI: https://doi.org/10.2210/pdb3F2V/pdb

Classification: structural genomics, unknown function
Organism(s): Treponema denticola
Expression System: Escherichia coli
Mutation(s): No

Deposited: 2008-10-30 Released: 2008-11-18
Deposition Author(s): Forouhar, F., Lew, S., Seetharaman, J., Janjua, H., Sahdev, S., Xiao, R., Ciccosanti, C., Foote, E.L., Belote, R.L., Nair, R., Everett, J.K., Acton, T.B., Rost, B., Montelione, G.T., Tong, L., Hunt, J.F., Northeast Structural Genomics Consortium (NESG)

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 2.00 Å
R-Value Free:
0.228 (Depositor), 0.240 (DCC)
R-Value Work:
0.204 (Depositor), 0.214 (DCC)
R-Value Observed:
0.204 (Depositor)

Starting Model: experimental
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wwPDB Validation 3D Report Full Report

Ligand Structure Quality Assessment

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

Literature

Crystal structure of the general stress protein 14 (TDE0354) in complex with FMN from Treponema denticola, Northeast Structural Genomics Consortium Target TdR58.

Forouhar, F., Lew, S., Seetharaman, J., Janjua, H., Sahdev, S., Xiao, R., Ciccosanti, C., Foote, E.L., Belote, R.L., Nair, R., Everett, J.K., Acton, T.B., Rost, B., Montelione, G.T., Tong, L., Hunt, J.F.

To be published.

Macromolecule Content

Total Structure Weight: 22.35 kDa
Atom Count: 1,533
Modeled Residue Count: 174
Deposited Residue Count: 192
Unique protein chains: 1

Macromolecules

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| 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
General stress protein 14	A	192	Treponema denticola	Mutation(s): 0 Gene Names: TDE0354, TDE_0354
UniProt
Find proteins for Q73QT9 (Treponema denticola (strain ATCC 35405 / DSM 14222 / CIP 103919 / JCM 8153 / KCTC 15104)) Explore Q73QT9 Go to UniProtKB: Q73QT9
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	Q73QT9
Sequence Annotations Expand
Reference Sequence

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
FMN Query on FMN 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]	FLAVIN MONONUCLEOTIDE C₁₇ H₂₁ N₄ O₉ P FVTCRASFADXXNN-SCRDCRAPSA-N		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: 0.228 (Depositor), 0.240 (DCC)
R-Value Work: 0.204 (Depositor), 0.214 (DCC)
R-Value Observed: 0.204 (Depositor)

Space Group: C 2 2 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 59.058	α = 90
b = 89.622	β = 90
c = 69.772	γ = 90

Software Package:

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

Structure Validation

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Ligand Structure Quality Assessment

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Entry History

Deposition Data

Released Date: 2008-11-18

Deposition Author(s):

Northeast Structural Genomics Consortium (NESG)

Revision History (Full details and data files)

Version 1.0: 2008-11-18
Type: Initial release
Version 1.1: 2011-07-13
Changes: Version format compliance
Version 1.2: 2017-10-25
Changes: Refinement description
Version 1.3: 2023-09-06
Changes: Data collection, Database references, Derived calculations, Refinement description