BMRB Entry 51506

Name: Solid-state NMR 1H-13C-15N assignment of African cichlid nackednavirus capsid protein
Published: 2023-06-30

Chem Shift validation: AVS_full
BMRB Entry DOI: doi:10.13018/BMR51506

NMR-STAR file interactive viewer.
NMR-STAR v3 text file.
XML gzip file.
RDF gzip file.
All files associated with the entry

Nicholas Rego and David Koes
3Dmol.js: molecular visualization with WebGL
Bioinformatics (2015) 31 (8): 1322-1324 doi:10.1093/bioinformatics/btu829

Select model:

I am color blind

Download raw data. Direct link to this display. Help

Title:

Solid-state NMR 1H-13C-15N assignment of African cichlid nackednavirus capsid protein

Deposition date:

2022-06-29

Original release date:

2023-06-30

Authors:

Pfister, Sara; Meier, Beat; Wiegand, Thomas; Bockmann, Anja; Malar, Alexander

Citation:

Citation: Pfister, Sara; Rabl, Julius; Wiegand, Thomas; Mattei, Simone; Malar, Alexander; Lecoq, Lauriane; Seitz, Stefan; Bartenschlager, Ralf; Bockmann, Anja; Nassal, Michael; Boehringer, Daniel; Meier, Beat. "Structural conservation of HBV-like capsid proteins over hundreds of millions of years despite the shift from non-enveloped to enveloped life-style" Nat. Commun. 14, 1574-1574 (2023).
PubMed: 36949039

Assembly members:

Assembly members:
entity_1, polymer, 175 residues, 3567274 Da.

Natural source:

Natural source: Common Name: bony fishes Taxonomy ID: 27755 Superkingdom: Eukaryota Kingdom: Metazoa Genus/species: Ophthalmotilapia ventralis

Experimental source:

Experimental source: Production method: recombinant technology Host organism: Escherichia coli Vector: pRSF_T7-CNDVcOpt

Entity Sequences (FASTA):

Entity Sequences (FASTA):
entity_1: MGTFIELVKNMKGYKELLLP MEMVPLPAVVLKHVKLILTS QKEHQPWMTEMALKADQCLI HKATLDLAGKATSNEAKPLI EAMQQIILAMTRELWGQIQR HHYGIVQVEHYVKQITLWQD TPQAFRGDQPKPPSFRSDGP TRGQGSFRPFFRGRGRGRGR GRGSQSPARKGPLPK

Data sets:

assigned_chemical_shifts
- assigned_chemical_shifts_1

Data type	Count
13C chemical shifts	443
15N chemical shifts	108
1H chemical shifts	172

Additional metadata:

Assembly
Samples and Experiments
Software
Spectrometers
Hide all

Assembly:

Entity Assembly ID	Entity Name	Entity ID
1	African cichlid nackednavirus capsid	1

Entities:

Entity 1, African cichlid nackednavirus capsid 175 residues - 3567274 Da.

1

MET

GLY

THR

PHE

ILE

GLU

LEU

VAL

LYS

ASN

2

MET

LYS

GLY

TYR

LYS

GLU

LEU

PRO

3

MET

GLU

MET

VAL

PRO

LEU

PRO

ALA

VAL

4

LEU

LYS

HIS

VAL

LYS

LEU

ILE

LEU

THR

SER

5

GLN

LYS

GLU

HIS

GLN

PRO

TRP

MET

THR

GLU

6

MET

ALA

LEU

LYS

ALA

ASP

GLN

CYS

LEU

ILE

7

HIS

LYS

ALA

THR

LEU

ASP

LEU

ALA

GLY

LYS

8

ALA

THR

SER

ASN

GLU

ALA

LYS

PRO

LEU

ILE

9

GLU

ALA

MET

GLN

ILE

LEU

ALA

MET

10

THR

ARG

GLU

LEU

TRP

GLY

GLN

ILE

GLN

ARG

11

HIS

TYR

GLY

ILE

VAL

GLN

VAL

GLU

HIS

12

TYR

VAL

LYS

GLN

ILE

THR

LEU

TRP

GLN

ASP

13

THR

PRO

GLN

ALA

PHE

ARG

GLY

ASP

GLN

PRO

14

LYS

PRO

SER

PHE

ARG

SER

ASP

GLY

PRO

15

THR

ARG

GLY

GLN

GLY

SER

PHE

ARG

PRO

PHE

16

PHE

ARG

GLY

ARG

GLY

ARG

GLY

ARG

GLY

ARG

17

GLY

ARG

GLY

SER

GLN

SER

PRO

ALA

ARG

LYS

18

GLY

PRO

LEU

PRO

LYS

Samples:

sample_1: African cichlid nackednavirus capsid protein, [U-100% 13C; U-100% 15N], n.d. mg/L; HEPES 50 mM; DTT 5 mM; DSS n.d. uM; sodium azide n.d. uM

sample_2: African cichlid nackednavirus capsid protein, [U-100% 13C; U-100% 15N], n.d. mg/L; DTT 5 mM; DSS n.d. uM; sodium azide n.d. uM; TRIS 50 mM; EDTA 5 mM; sodium chloride 50 mM

sample_3: African cichlid nackednavirus capsid protein, [U-100% 13C; U-100% 15N], n.d. mg/L; DTT 5 mM; DSS n.d. uM; sodium azide n.d. uM; TRIS 50 mM; EDTA 5 mM; sodium chloride 50 mM

sample_conditions_1: pH: 7.5; temperature: 277.15 K

sample_conditions_2: pH: 7.5; temperature: 294 K

Experiments:

Name	Sample	Sample state	Sample conditions
2D 13C-13C DARR	sample_1	isotropic	sample_conditions_1
NCA	sample_3	isotropic	sample_conditions_1
NCO	sample_3	isotropic	sample_conditions_1
NCACB	sample_1	isotropic	sample_conditions_1
NCACX	sample_1	isotropic	sample_conditions_1
NCOCX	sample_1	isotropic	sample_conditions_1
CANCO	sample_1	isotropic	sample_conditions_1
CCC	sample_3	isotropic	sample_conditions_1
CANcoCA	sample_3	isotropic	sample_conditions_1
NcoCACB	sample_3	isotropic	sample_conditions_1
hNH	sample_2	isotropic	sample_conditions_2
hCH	sample_2	isotropic	sample_conditions_2
hCANH	sample_2	isotropic	sample_conditions_2
hNCAH	sample_2	isotropic	sample_conditions_2
hCAcoNH	sample_2	isotropic	sample_conditions_2
hNcoCAH	sample_2	isotropic	sample_conditions_2

Software:

TOPSPIN v3.5 - collection, processing

CcpNMR v2 - chemical shift assignment, data analysis, peak picking

NMR spectrometers:

Bruker Avance 850 MHz

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