3H5L | pdb_00003h5l

Crystal structure of a putative branched-chain amino acid ABC transporter from Silicibacter pomeroyi

PDB DOI: https://doi.org/10.2210/pdb3H5L/pdb

Classification: TRANSPORT PROTEIN
Organism(s): Ruegeria pomeroyi
Expression System: Escherichia coli
Mutation(s): No

Deposited: 2009-04-22 Released: 2009-05-05
Deposition Author(s): Bonanno, J.B., Freeman, J., Bain, K.T., Iizuka, M., Sampathkumar, P., Wasserman, S., Sauder, J.M., Burley, S.K., Almo, S.C., New York SGX Research Center for Structural Genomics (NYSGXRC)

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 1.70 Å
R-Value Free:
0.185 (Depositor), 0.198 (DCC)
R-Value Work:
0.159 (Depositor), 0.172 (DCC)
R-Value Observed:
0.160 (Depositor)

wwPDB Validation 3D Report Full Report

Validation slider image for 3H5L

This is version 1.5 of the entry. See complete history.

Literature

Crystal structure of a putative branched-chain amino acid ABC transporter from Silicibacter pomeroyi

Bonanno, J.B., Freeman, J., Bain, K.T., Iizuka, M., Sampathkumar, P., Wasserman, S., Sauder, J.M., Burley, S.K., Almo, S.C.

To be published.

Macromolecule Content

Total Structure Weight: 89.97 kDa
Atom Count: 6,916
Modeled Residue Count: 799
Deposited Residue Count: 838
Unique protein chains: 1

Macromolecules

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Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
putative Branched-chain amino acid ABC transporter	A, B	419	Ruegeria pomeroyi	Mutation(s): 0 Gene Names: SPO2534
UniProt
Find proteins for Q5LQF6 (Ruegeria pomeroyi (strain ATCC 700808 / DSM 15171 / DSS-3)) Explore Q5LQF6 Go to UniProtKB: Q5LQF6
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	Q5LQF6
Sequence Annotations Expand
Reference Sequence

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 1.70 Å
R-Value Free: 0.185 (Depositor), 0.198 (DCC)
R-Value Work: 0.159 (Depositor), 0.172 (DCC)
R-Value Observed: 0.160 (Depositor)

Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 62.882	α = 90
b = 121.628	β = 90
c = 122.876	γ = 90

Software Package:

Software Name	Purpose
SCALA	data scaling
REFMAC	refinement
PDB_EXTRACT	data extraction
MAR345	data collection
MOSFLM	data reduction
SHELXCD	phasing
SHELXE	model building

Structure Validation

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Entry History

Deposition Data

Released Date: 2009-05-05

Deposition Author(s):

Sampathkumar, P.

New York SGX Research Center for Structural Genomics (NYSGXRC)

Revision History (Full details and data files)

Version 1.0: 2009-05-05
Type: Initial release
Version 1.1: 2011-07-13
Changes: Version format compliance
Version 1.2: 2017-11-01
Changes: Refinement description
Version 1.3: 2018-11-21
Changes: Data collection, Structure summary
Version 1.4: 2021-02-10
Changes: Database references, Structure summary
Version 1.5: 2024-02-21
Changes: Data collection, Database references