OCA Atlas for 2DHH

2DHH

Membrane Protein

date

Mar 23, 2006

title

Crystal Structure Of A Multidrug Transporter Reveal A Functi Rotating Mechanism

authors

S.Murakami, R.Nakashima, E.Yamashita, T.Matsumoto

compound

source

Molecule: Acrb
Chain: A, B, C
Synonym: Multidrug Efflux Transporter, Acriflavine Resistan B;
Engineered: Yes

Organism_scientific: Escherichia Coli
Organism_taxid: 562
Expression_system: Escherichia Coli K12
Expression_system_taxid: 83333
Expression_system_strain: K12
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Puc-118

symmetry

Space Group: C 1 2 1

R_factor

0.268

R_Free

0.307

crystal
cell

length a	length b	length c	angle alpha	angle beta	angle gamma
225.870	134.418	163.192	90.00	97.71	90.00

method

X-Ray Diffraction

resolution

2.80 Å

Gene
Ontology

Chain	Function	Process	Component
A, C, B

Primary reference

Crystal structures of a multidrug transporter reveal a functionally rotating mechanism., Murakami S, Nakashima R, Yamashita E, Matsumoto T, Yamaguchi A, Nature. 2006 Sep 14;443(7108):173-9. Epub 2006 Aug 16. PMID:16915237

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (468 Kb) [Save to disk]

Biological Unit Coordinates (2dhh.pdb1.gz) 461 Kb

CSU: Contacts of Structural Units for 2DHH

Likely Quarternary Molecular Structure file(s) for 2DHH

Structure Factors (1806 Kb)

Retrieve 2DHH in mmCIF format [Save to disk]

SEQRES to COORDINATES correlation for 2DHH from S2C, [Save to disk]

Re-refined 2dhh structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models

View 2DHH in 3D

Proteopedia, because life has more than 2D.

On Jmol, a nice Rasmol like molecule viewer. This is good for easiest viewing of basic structure.

On FirstGlance, an excellent tool for a guided tour on the structure components, by E. Martz.

Visual 3D analysis of 2DHH

Ramachandran plot from PDBSum

Structure-derived information

Electron Density related parameters from EDS Electron Density Server, at Upsala

Dipole moment, from Dipole Server at Weizmann Institute

3D motif for 2DHH, from MSDmotif at EBI

Sequence-derived information

View one-letter amino acid or nucleotide sequence for each chain: [2dhh] [2dhh_B] [2dhh_C] [2dhh_A]

SWISS-PROT database: [P31224]

Belongs to the resistance-nodulation-cell division (rnd) superfamily

according to TCDB.

Domain organization of [ACRB_ECOLI] by SWISSPFAM

Other resources with information on 2DHH

Community annotation for 2DHH at PDBWiki (http://pdbwiki.org)

MMDB (Entrez's Structure Database)

Movements, Movies and Images

Images from IMB Jena Image Library of Biological Macromolecules.

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