7RLK | pdb_00007rlk

Wallaby TTR

PDB DOI: https://doi.org/10.2210/pdb7RLK/pdb

Classification: TRANSPORT PROTEIN
Organism(s): Notamacropus eugenii
Expression System: Escherichia coli
Mutation(s): No

Deposited: 2021-07-25 Released: 2022-08-03
Deposition Author(s): D-Souza, D.G., Richardson, S.J.

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 2.69 Å
R-Value Free:
0.217 (Depositor), 0.218 (DCC)
R-Value Work:
0.188 (Depositor), 0.194 (DCC)
R-Value Observed:
0.189 (Depositor)

Starting Model: experimental
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wwPDB Validation 3D Report Full Report

Validation slider image for 7RLK

This is version 1.1 of the entry. See complete history.

Literature

Structural and amyloidogenic comparisons of human and wallaby transthyretins: implications for amyloidosis?

D-Souza, D.G., Richardson, S.J.

To be published.

Macromolecule Content

Total Structure Weight: 78.7 kDa
Atom Count: 5,492
Modeled Residue Count: 690
Deposited Residue Count: 702
Unique protein chains: 1

Macromolecules

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Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Transthyretin	A, B, C, D, E A, B, C, D, E, F	117	Notamacropus eugenii	Mutation(s): 0 Gene Names: TTR
UniProt
Find proteins for P42204 (Notamacropus eugenii) Explore P42204 Go to UniProtKB: P42204
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	P42204
Sequence Annotations Expand
Reference Sequence

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
ZN Query on ZN Download:Ideal Coordinates CCD File SDF format, chain N [auth F] SDF format, chain M [auth E] SDF format, chain L [auth E] SDF format, chain K [auth D] SDF format, chain J [auth C] SDF format, chain I [auth C] SDF format, chain H [auth A] SDF format, chain G [auth A] MOL2 format, chain N [auth F] MOL2 format, chain M [auth E] MOL2 format, chain L [auth E] MOL2 format, chain K [auth D] MOL2 format, chain J [auth C] MOL2 format, chain I [auth C] MOL2 format, chain H [auth A] MOL2 format, chain G [auth A] mmCIF format, chain N [auth F] mmCIF format, chain M [auth E] mmCIF format, chain L [auth E] mmCIF format, chain K [auth D] mmCIF format, chain J [auth C] mmCIF format, chain I [auth C] mmCIF format, chain H [auth A] mmCIF format, chain G [auth A]	G [auth A] H [auth A] I [auth C] J [auth C] K [auth D] G [auth A], H [auth A], I [auth C], J [auth C], K [auth D], L [auth E], M [auth E], N [auth F]	ZINC ION Zn PTFCDOFLOPIGGS-UHFFFAOYSA-N		Interactions Focus chain G [auth A] Focus chain H [auth A] Focus chain I [auth C] Focus chain J [auth C] Focus chain K [auth D] Focus chain L [auth E] Focus chain M [auth E] Focus chain N [auth F] Interactions & Density Focus chain G [auth A] Focus chain H [auth A] Focus chain I [auth C] Focus chain J [auth C] Focus chain K [auth D] Focus chain L [auth E] Focus chain M [auth E] Focus chain N [auth F]

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 2.69 Å
R-Value Free: 0.217 (Depositor), 0.218 (DCC)
R-Value Work: 0.188 (Depositor), 0.194 (DCC)
R-Value Observed: 0.189 (Depositor)

Space Group: C 2 2 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 66.516	α = 90
b = 112.152	β = 90
c = 245.281	γ = 90

Software Package:

Software Name	Purpose
PHENIX	refinement
XDS	data reduction
Aimless	data scaling
MOLREP	phasing

Structure Validation

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Entry History

Deposition Data

Released Date: 2022-08-03

Deposition Author(s):

Richardson, S.J.

Revision History (Full details and data files)

Version 1.0: 2022-08-03
Type: Initial release
Version 1.1: 2023-10-18
Changes: Data collection, Refinement description

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RCSB PDB Core Operations are funded by the U.S. National Science Foundation (DBI-2321666), the US Department of Energy (DE-SC0019749), and the National Cancer Institute, National Institute of Allergy and Infectious Diseases, and National Institute of General Medical Sciences of the National Institutes of Health under grant R01GM157729. RCSB PDB uses resources of the National Energy Research Scientific Computing Center (NERSC), a Department of Energy User Facility.