4HL9 | pdb_00004hl9

Crystal structure of antibiotic biosynthesis monooxygenase

PDB DOI: https://doi.org/10.2210/pdb4HL9/pdb

Classification: OXIDOREDUCTASE
Organism(s): Rhodospirillum rubrum ATCC 11170
Expression System: Escherichia coli BL21
Mutation(s): No

Deposited: 2012-10-16 Released: 2012-10-31
Deposition Author(s): Rice, S., Eswaramoorthy, S., Chamala, S., Evans, B., Foti, R., Gizzi, A., Hillerich, B., Kar, A., LaFleur, J., Seidel, R., Villigas, G., Zencheck, W., Almo, S.C., Swaminathan, S., New York Structural Genomics Research Consortium (NYSGRC)

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 1.93 Å
R-Value Free:
0.273 (Depositor), 0.275 (DCC)
R-Value Work:
0.239 (Depositor), 0.240 (DCC)
R-Value Observed:
0.241 (Depositor)

wwPDB Validation 3D Report Full Report

This is version 1.2 of the entry. See complete history.

Literature

Crystal structure of antibiotic biosynthesis monooxygenase

Rice, S., Eswaramoorthy, S., Almo, S.C., Swaminathan, S.

To be published.

Macromolecule Content

Total Structure Weight: 124.05 kDa
Atom Count: 7,108
Modeled Residue Count: 855
Deposited Residue Count: 1,062
Unique protein chains: 1

Macromolecules

Find similar proteins by:

(by identity cutoff) | 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Antibiotic biosynthesis monooxygenase	A, B, C, D, E A, B, C, D, E, F, G, H, I	118	Rhodospirillum rubrum ATCC 11170	Mutation(s): 0 Gene Names: Rru_A0389
UniProt
Find proteins for Q2RXF1 (Rhodospirillum rubrum (strain ATCC 11170 / ATH 1.1.1 / DSM 467 / LMG 4362 / NCIMB 8255 / S1)) Explore Q2RXF1 Go to UniProtKB: Q2RXF1
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt Group	Q2RXF1
Sequence Annotations Expand
Reference Sequence

Small Molecules

Modified Residues 2 Unique
ID	Chains	Type	Formula	2D Diagram	Parent
CSO Query on CSO	A, B, C, D, E A, B, C, D, E, F, G, H, I	L-PEPTIDE LINKING	C₃ H₇ N O₃ S		CYS
MSE Query on MSE	A, B, C, D, E A, B, C, D, E, F, G, H, I	L-PEPTIDE LINKING	C₅ H₁₁ N O₂ Se		MET

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 1.93 Å
R-Value Free: 0.273 (Depositor), 0.275 (DCC)
R-Value Work: 0.239 (Depositor), 0.240 (DCC)
R-Value Observed: 0.241 (Depositor)

Space Group: C 1 2 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 176.965	α = 90
b = 44.535	β = 101.03
c = 137.913	γ = 90

Software Package:

Software Name	Purpose
CBASS	data collection
SHELXS	phasing
REFMAC	refinement
HKL-2000	data reduction
HKL-2000	data scaling

Structure Validation

View Full Validation Report

Entry History

Deposition Data

Released Date: 2012-10-31

Deposition Author(s):

New York Structural Genomics Research Consortium (NYSGRC)

Revision History (Full details and data files)

Version 1.0: 2012-10-31
Type: Initial release
Version 1.1: 2018-01-24
Changes: Structure summary
Version 1.2: 2024-11-06
Changes: Data collection, Database references, Derived calculations, Structure summary