3K9R | pdb_00003k9r

X-ray structure of the Rhodanese-like domain of the Alr3790 protein from Anabaena sp. Northeast Structural Genomics Consortium Target NsR437c.

PDB DOI: https://doi.org/10.2210/pdb3K9R/pdb

Classification: structural genomics, unknown function
Organism(s): Nostoc sp. PCC 7120 = FACHB-418
Expression System: Escherichia coli BL21(DE3)
Mutation(s): No

Deposited: 2009-10-16 Released: 2009-10-27
Deposition Author(s): Vorobiev, S., Chen, Y., Seetharaman, J., Maglaqui, M., Ciccosanti, C., Mao, L., Xiao, R., Acton, T.B., Montelione, G.T., Tong, L., Hunt, J.F., Northeast Structural Genomics Consortium (NESG)

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 1.96 Å
R-Value Free:
0.229 (Depositor), 0.245 (DCC)
R-Value Work:
0.203 (Depositor), 0.213 (DCC)
R-Value Observed:
0.203 (Depositor)

Starting Model: experimental
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wwPDB Validation 3D Report Full Report

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

Literature

X-ray structure of the Rhodanese-like domain of the Alr3790 protein from Anabaena sp.

Vorobiev, S., Chen, Y., Seetharaman, J., Maglaqui, M., Ciccosanti, C., Mao, L., Xiao, R., Acton, T.B., Montelione, G.T., Tong, L., Hunt, J.F.

To be published.

Macromolecule Content

Total Structure Weight: 51.73 kDa
Atom Count: 3,342
Modeled Residue Count: 404
Deposited Residue Count: 460
Unique protein chains: 1

Macromolecules

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| 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Alr3790 protein	A, B, C, D	115	Nostoc sp. PCC 7120 = FACHB-418	Mutation(s): 0 Gene Names: alr3790
UniProt
Find proteins for A0ACD6B987 (Nostoc sp. (strain PCC 7120 / SAG 25.82 / UTEX 2576)) Explore A0ACD6B987 Go to UniProtKB: A0ACD6B987
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	A0ACD6B987
Sequence Annotations Expand
Reference Sequence

Small Molecules

Modified Residues 1 Unique
ID	Chains	Type	Formula	2D Diagram	Parent
MSE Query on MSE	A, B, C, D	L-PEPTIDE LINKING	C₅ H₁₁ N O₂ Se		MET

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 1.96 Å
R-Value Free: 0.229 (Depositor), 0.245 (DCC)
R-Value Work: 0.203 (Depositor), 0.213 (DCC)
R-Value Observed: 0.203 (Depositor)

Space Group: P 1 2₁ 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 37.286	α = 90
b = 78.894	β = 103.09
c = 64.767	γ = 90

Software Package:

Software Name	Purpose
HKL-2000	data collection
BALBES	phasing
CNS	refinement
DENZO	data reduction
SCALEPACK	data scaling

Structure Validation

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Entry History

Deposition Data

Released Date: 2009-10-27

Deposition Author(s):

Northeast Structural Genomics Consortium (NESG)

Revision History (Full details and data files)

Version 1.0: 2009-10-27
Type: Initial release
Version 1.1: 2011-07-13
Changes: Source and taxonomy, Version format compliance
Version 1.2: 2017-10-25
Changes: Author supporting evidence
Version 1.3: 2023-09-06
Changes: Data collection, Database references, Derived calculations, Refinement description
Version 1.4: 2023-11-22
Changes: Data collection
Version 1.5: 2024-11-20
Changes: Structure summary