3RRU | pdb_00003rru

X-ray crystal structure of the VHS domain of human TOM1-like protein, Northeast Structural Genomics Consortium Target HR3050E

PDB DOI: https://doi.org/10.2210/pdb3RRU/pdb

Classification: SIGNALING PROTEIN
Organism(s): Homo sapiens
Expression System: Escherichia coli BL21(DE3)
Mutation(s): No

Deposited: 2011-04-30 Released: 2011-06-08
Deposition Author(s): Forouhar, F., Lew, S., Seetharaman, J., Wang, H., Ciccosanti, C., Patel, D., Acton, T.B., Xiao, R., Everett, J.K., Montelione, G.T., Hunt, J.F., Tong, L., Northeast Structural Genomics Consortium (NESG)

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 3.00 Å
R-Value Free:
0.252 (Depositor), 0.259 (DCC)
R-Value Work:
0.227 (Depositor), 0.232 (DCC)
R-Value Observed:
0.227 (Depositor)

wwPDB Validation 3D Report Full Report

This is version 1.3 of the entry. See complete history.

Literature

X-ray crystal structure of the VHS domain of human TOM1-like protein, Northeast Structural Genomics Consortium Target HR3050E

Forouhar, F., Lew, S., Seetharaman, J., Wang, H., Ciccosanti, C., Patel, D., Acton, T.B., Xiao, R., Everett, J.K., Montelione, G.T., Hunt, J.F., Tong, L.

To be published.

Macromolecule Content

Total Structure Weight: 34.97 kDa
Atom Count: 2,254
Modeled Residue Count: 282
Deposited Residue Count: 304
Unique protein chains: 1

Macromolecules

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| 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
TOM1L1 protein	A, B	152	Homo sapiens	Mutation(s): 0 Gene Names: hCG_32771, tom1-like, TOM1L1
UniProt & NIH Common Fund Data Resources
Find proteins for O75674 (Homo sapiens) Explore O75674 Go to UniProtKB: O75674
PHAROS: O75674 GTEx: ENSG00000141198
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	O75674
Sequence Annotations Expand
Reference Sequence

Small Molecules

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

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 3.00 Å
R-Value Free: 0.252 (Depositor), 0.259 (DCC)
R-Value Work: 0.227 (Depositor), 0.232 (DCC)
R-Value Observed: 0.227 (Depositor)

Space Group: P 3₁ 1 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 122.047	α = 90
b = 122.047	β = 90
c = 55.095	γ = 120

Software Package:

Software Name	Purpose
MAR345dtb	data collection
SnB	phasing
CNS	refinement
HKL-2000	data reduction
HKL-2000	data scaling

Structure Validation

View Full Validation Report

View more in-depth experimental data

Entry History

Deposition Data

Released Date: 2011-06-08

Deposition Author(s):

Northeast Structural Genomics Consortium (NESG)

Revision History (Full details and data files)

Version 1.0: 2011-06-08
Type: Initial release
Version 1.1: 2011-07-13
Changes: Version format compliance
Version 1.2: 2017-11-08
Changes: Refinement description
Version 1.3: 2024-10-30
Changes: Data collection, Database references, Derived calculations, Structure summary