4BIZ | pdb_00004biz

Crystal structure of CpxAHDC (orthorhombic form 2)

PDB DOI: https://doi.org/10.2210/pdb4BIZ/pdb

Classification: TRANSFERASE
Organism(s): Escherichia coli K-12
Expression System: Escherichia coli
Mutation(s): Yes

Deposited: 2013-04-13 Released: 2014-04-23
Deposition Author(s): Mechaly, A.E., Sassoon, N., Betton, J.M., Alzari, P.M.

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 2.65 Å
R-Value Free:
0.235 (Depositor), 0.238 (DCC)
R-Value Work:
0.206 (Depositor), 0.212 (DCC)
R-Value Observed:
0.207 (Depositor)

wwPDB Validation 3D Report Full Report

Ligand Structure Quality Assessment

This is version 1.1 of the entry. See complete history.

Literature

Crystal Structures of Cpxahdc

Mechaly, A.E., Sassoon, N., Betton, J.M., Alzari, P.M.

To be published.

Macromolecule Content

Total Structure Weight: 202.31 kDa
Atom Count: 11,128
Modeled Residue Count: 1,367
Deposited Residue Count: 1,788
Unique protein chains: 1

Macromolecules

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| 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
SENSOR PROTEIN CPXA	A, B, C, D, E A, B, C, D, E, F	298	Escherichia coli K-12	Mutation(s): 1 EC: 2.7.13.3
UniProt
Find proteins for P0AE82 (Escherichia coli (strain K12)) Explore P0AE82 Go to UniProtKB: P0AE82
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	P0AE82
Sequence Annotations Expand
Reference Sequence

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
ADP Query on ADP Download:Ideal Coordinates CCD File SDF format, chain O [auth F] SDF format, chain M [auth E] SDF format, chain J [auth C] SDF format, chain G [auth A] MOL2 format, chain O [auth F] MOL2 format, chain M [auth E] MOL2 format, chain J [auth C] MOL2 format, chain G [auth A] mmCIF format, chain O [auth F] mmCIF format, chain M [auth E] mmCIF format, chain J [auth C] mmCIF format, chain G [auth A]	G [auth A], J [auth C], M [auth E], O [auth F]	ADENOSINE-5'-DIPHOSPHATE C₁₀ H₁₅ N₅ O₁₀ P₂ XTWYTFMLZFPYCI-KQYNXXCUSA-N		Interactions Focus chain G [auth A] Focus chain J [auth C] Focus chain M [auth E] Focus chain O [auth F] Interactions & Density Focus chain G [auth A] Focus chain J [auth C] Focus chain M [auth E] Focus chain O [auth F]
SO4 Query on SO4 Download:Ideal Coordinates CCD File SDF format, chain P [auth F] SDF format, chain N [auth E] SDF format, chain L [auth D] SDF format, chain K [auth C] SDF format, chain I [auth B] SDF format, chain H [auth A] MOL2 format, chain P [auth F] MOL2 format, chain N [auth E] MOL2 format, chain L [auth D] MOL2 format, chain K [auth C] MOL2 format, chain I [auth B] MOL2 format, chain H [auth A] mmCIF format, chain P [auth F] mmCIF format, chain N [auth E] mmCIF format, chain L [auth D] mmCIF format, chain K [auth C] mmCIF format, chain I [auth B] mmCIF format, chain H [auth A]	H [auth A] I [auth B] K [auth C] L [auth D] N [auth E] H [auth A], I [auth B], K [auth C], L [auth D], N [auth E], P [auth F]	SULFATE ION O₄ S QAOWNCQODCNURD-UHFFFAOYSA-L		Interactions Focus chain H [auth A] Focus chain I [auth B] Focus chain K [auth C] Focus chain L [auth D] Focus chain N [auth E] Focus chain P [auth F] Interactions & Density Focus chain H [auth A] Focus chain I [auth B] Focus chain K [auth C] Focus chain L [auth D] Focus chain N [auth E] Focus chain P [auth F]

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 2.65 Å
R-Value Free: 0.235 (Depositor), 0.238 (DCC)
R-Value Work: 0.206 (Depositor), 0.212 (DCC)
R-Value Observed: 0.207 (Depositor)

Space Group: P 2₁ 2₁ 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 120.448	α = 90
b = 125.108	β = 90
c = 159.794	γ = 90

Software Package:

Software Name	Purpose
BUSTER	refinement
XDS	data reduction
Aimless	data scaling
PHENIX	phasing

Structure Validation

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Ligand Structure Quality Assessment

View more in-depth experimental data

Entry History

Deposition Data

Released Date: 2014-04-23

Deposition Author(s):

Revision History (Full details and data files)

Version 1.0: 2014-04-23
Type: Initial release
Version 1.1: 2024-05-08
Changes: Data collection, Database references, Derived calculations, Other

4BIZ | pdb_00004biz

Crystal structure of CpxAHDC (orthorhombic form 2)

Literature

Crystal Structures of Cpxahdc

Biological Assembly 1

Biological Assembly 2

Biological Assembly 3

Macromolecules

Entity ID: 1

UniProt

Entity Groups

Sequence Annotations

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