BMRB Entry 34916

Name: Structure of the C-terminal domain of CKAP5/chTOG
Published: 2025-03-19

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PDB ID: 9f4c
Entry in NMR Restraints Grid
Validation report in NRG-CING
Chem Shift validation: AVS_full
BMRB Entry DOI: doi:10.13018/BMR34916
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Nicholas Rego and David Koes
3Dmol.js: molecular visualization with WebGL
Bioinformatics (2015) 31 (8): 1322-1324 doi:10.1093/bioinformatics/btu829

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Title:

Structure of the C-terminal domain of CKAP5/chTOG

Deposition date:

2024-04-27

Original release date:

2025-03-19

Authors:

Pfuhl, M.

Citation:

Citation: Burgess, S.; Bayliss, R.; Pfuhl, M.; Rostkova, L.; Royle, S.. "Structure and dynamics of the C-terminus of CKAP5" .

Assembly members:

Assembly members:
entity_1, polymer, 141 residues, 15883.864 Da.

Natural source:

Natural source: Common Name: Human Taxonomy ID: 9606 Superkingdom: Eukaryota Kingdom: Metazoa Genus/species: Homo sapiens

Experimental source:

Experimental source: Production method: recombinant technology Host organism: Escherichia coli BL21 Vector: pETM6T

Entity Sequences (FASTA):

Entity Sequences (FASTA):
entity_1: ASRIDEKSSKAKVNDFLAEI FKKIGSKENTKEGLAELYEY KKKYSDADIEPFLKNSSQFF QSYVERGLRVIEMEREGKGR ISTSTGISPQMEVTCVPTPT STVSSIGNTNGEEVGPSVYL ERLKILRQRCGLDNTKQDDR P

Data sets:

assigned_chemical_shifts
- assigned_chemical_shifts_1

Data type	Count
13C chemical shifts	617
15N chemical shifts	142
1H chemical shifts	979

Additional metadata:

Assembly
Samples and Experiments
Software
Spectrometers
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Assembly:

Entity Assembly ID	Entity Name	Entity ID
1	unit_1	1

Entities:

Entity 1, unit_1 141 residues - 15883.864 Da.

1

ALA

SER

ARG

ILE

ASP

GLU

LYS

SER

LYS

2

ALA

LYS

VAL

ASN

ASP

PHE

LEU

ALA

GLU

ILE

3

PHE

LYS

ILE

GLY

SER

LYS

GLU

ASN

THR

4

LYS

GLU

GLY

LEU

ALA

GLU

LEU

TYR

GLU

TYR

5

LYS

TYR

SER

ASP

ALA

ASP

ILE

GLU

6

PRO

PHE

LEU

LYS

ASN

SER

GLN

PHE

7

GLN

SER

TYR

VAL

GLU

ARG

GLY

LEU

ARG

VAL

8

ILE

GLU

MET

GLU

ARG

GLU

GLY

LYS

GLY

ARG

9

ILE

SER

THR

SER

THR

GLY

ILE

SER

PRO

GLN

10

MET

GLU

VAL

THR

CYS

VAL

PRO

THR

PRO

THR

11

SER

THR

VAL

SER

ILE

GLY

ASN

THR

ASN

12

GLY

GLU

VAL

GLY

PRO

SER

VAL

TYR

LEU

13

GLU

ARG

LEU

LYS

ILE

LEU

ARG

GLN

ARG

CYS

14

GLY

LEU

ASP

ASN

THR

LYS

GLN

ASP

ARG

15

PRO

Samples:

sample_1: CKAP5, [U-15N], 0.5 ± 0.05 mM; HEPES 20 ± 0.5 mM; glutamic acid 150 ± 0.5 mM; arginine 150 ± 0.5 mM; DTT 2 ± 0.1 mM; NaN3 0.02 ± 0.001 %

sample_2: CKAP5, [U-13C; U-15N], 0.5 ± 0.05 mM; HEPES 20 ± 0.5 mM; glutamic acid 150 ± 0.5 mM; arginine 150 ± 0.5 mM; DTT 2 ± 0.1 mM; sodium azide 0.02 ± 0.001 %

sample_conditions_1: ionic strength: 150 mM; pH: 7.2; pressure: 1 atm; temperature: 298 K

Experiments:

Name	Sample	Sample state	Sample conditions
3D 1H-15N NOESY	sample_1	isotropic	sample_conditions_1
3D 1H-13C NOESY aliphatic	sample_2	isotropic	sample_conditions_1
3D 1H-13C NOESY aromatic	sample_2	isotropic	sample_conditions_1
15N IPAP	sample_1	anisotropic	sample_conditions_1
2D 1H-15N HSQC	sample_1	isotropic	sample_conditions_1
2D 1H-13C HSQC aliphatic	sample_2	isotropic	sample_conditions_1
2D 1H-13C HSQC aromatic	sample_2	isotropic	sample_conditions_1

Software:

TopSpin v4.1, Bruker Biospin - collection

CcpNmr Analysis v2.4, CCPN - chemical shift assignment

ARIA, Linge, O'Donoghue and Nilges - structure calculation

X-PLOR NIH, Schwieters, Kuszewski, Tjandra and Clore - structure calculation

NMR spectrometers:

Bruker AVANCE III 800 MHz
Bruker AVANCE 700 MHz
Bruker AVANCE III HD 950 MHz

Download HSQC peak lists in one of the following formats:
CSV: Backbone or all simulated peaks
SPARKY: Backbone or all simulated peaks