2FEP | pdb_00002fep

Structure of truncated CcpA in complex with P-Ser-HPr and Sulfate ions

PDB DOI: https://doi.org/10.2210/pdb2FEP/pdb

Classification: TRANSCRIPTION
Organism(s): Bacillus subtilis
Expression System: Escherichia coli BL21
Mutation(s): Yes

Deposited: 2005-12-16 Released: 2006-06-27
Deposition Author(s): Chaptal, V., Gueguen-Chaignon, V., Poncet, S., Lecampion, C., Meyer, P., Deutscher, J., Galinier, A., Nessler, S.

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 2.45 Å
R-Value Free:
0.284 (Depositor), 0.284 (DCC)
R-Value Work:
0.209 (Depositor), 0.209 (DCC)

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 analysis of B. subtilis CcpA effector binding site.

Chaptal, V., Gueguen-Chaignon, V., Poncet, S., Lecampion, C., Meyer, P., Deutscher, J., Galinier, A., Nessler, S., Morera, S.

(2006) Proteins 64: 814-816

PubMed: 16755587 Search on PubMed
DOI: https://doi.org/10.1002/prot.21001
Primary Citation Related Structures:
2FEP

Organizational Affiliation

Laboratoire d'Enzymologie et Biochimie Structurales, CNRS FRE 2930, Gif-sur-Yvette, France.

Macromolecule Content

Total Structure Weight: 41.75 kDa
Atom Count: 2,885
Modeled Residue Count: 360
Deposited Residue Count: 377
Unique protein chains: 2

Macromolecules

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| 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Catabolite control protein A	A	289	Bacillus subtilis	Mutation(s): 0 Gene Names: ccpA, alsA, amyR, graR
UniProt
Find proteins for P25144 (Bacillus subtilis (strain 168)) Explore P25144 Go to UniProtKB: P25144
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	P25144
Sequence Annotations Expand
Reference Sequence

Find similar proteins by:

| 3D Structure

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
Phosphocarrier protein HPr	B [auth S]	88	Bacillus subtilis	Mutation(s): 1 Gene Names: ptsH
UniProt
Find proteins for P08877 (Bacillus subtilis (strain 168)) Explore P08877 Go to UniProtKB: P08877
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	P08877
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 C [auth A] SDF format, chain D [auth A] SDF format, chain E [auth S] MOL2 format, chain C [auth A] MOL2 format, chain D [auth A] MOL2 format, chain E [auth S] mmCIF format, chain C [auth A] mmCIF format, chain D [auth A] mmCIF format, chain E [auth S]	C [auth A], D [auth A], E [auth S]	SULFATE ION O₄ S QAOWNCQODCNURD-UHFFFAOYSA-L		Interactions Focus chain C [auth A] Focus chain D [auth A] Focus chain E [auth S] Interactions & Density Focus chain C [auth A] Focus chain D [auth A] Focus chain E [auth S]

Modified Residues 1 Unique
ID	Chains	Type	Formula	2D Diagram	Parent
SEP Query on SEP	B [auth S]	L-PEPTIDE LINKING	C₃ H₈ N O₆ P		SER

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 2.45 Å
R-Value Free: 0.284 (Depositor), 0.284 (DCC)
R-Value Work: 0.209 (Depositor), 0.209 (DCC)

Space Group: P 4₁ 2₁ 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 67.62	α = 90
b = 67.62	β = 90
c = 167.218	γ = 90

Software Package:

Software Name	Purpose
MOSFLM	data reduction
SCALA	data scaling
PHASER	phasing
CNS	refinement
CCP4	data scaling

Structure Validation

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View more in-depth experimental data

Entry History

Deposition Data

Released Date: 2006-06-27

Deposition Author(s):

Revision History (Full details and data files)

Version 1.0: 2006-06-27
Type: Initial release
Version 1.1: 2008-05-01
Changes: Version format compliance
Version 1.2: 2011-07-13
Changes: Version format compliance
Version 1.3: 2023-08-30
Changes: Data collection, Database references, Derived calculations, Refinement description
Version 1.4: 2024-11-13
Changes: Structure summary