BMRB Entry 11215

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PDB ID: 2d8i
Entry in NMR Restraints Grid
Validation report in NRG-CING
Chem Shift validation: AVS_full, LACS
BMRB Entry DOI: doi:10.13018/BMR11215
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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:

Solution structure of the PDZ domain of T-cell lymphoma invasion and metastasis 1 varian

Deposition date:

2010-07-22

Original release date:

2011-07-21

Authors:

Qin, X.; Hayashi, F.; Yokoyama, S.

Citation:

Citation: Qin, X.; Hayashi, F.; Yokoyama, S.. "Solution structure of the PDZ domain of T-cell lymphoma invasion and metastasis 1 varian" .

Assembly members:

Assembly members:
PDZ domain, polymer, 114 residues, Formula weight is not available

Natural source:

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

Experimental source:

Experimental source: Production method: cell free synthesis Host organism: E. coli - cell free Vector: P050425-07

Entity Sequences (FASTA):

Entity Sequences (FASTA):
PDZ domain: GSSGSSGEIEICPKVTQSIH IEKSDTAADTYGFSLSSVEE DGIRRLYVNSVKETGLASKK GLKAGDEILEINNRAADALN SSMLKDFLSQPSLGLLVRTY PELEEGVESGPSSG

Data sets:

assigned_chemical_shifts
- chemical_shift_1

Data type	Count
13C chemical shifts	469
15N chemical shifts	105
1H chemical shifts	747

Additional metadata:

Assembly
Samples and Experiments
Software
Spectrometers
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Assembly:

Entity Assembly ID	Entity Name	Entity ID
1	PDZ domain of T-cell lymphoma invasion and metastasis 1 variant	1

Entities:

Entity 1, PDZ domain of T-cell lymphoma invasion and metastasis 1 variant 114 residues - Formula weight is not available

1

GLY

SER

GLY

SER

GLY

GLU

ILE

GLU

2

ILE

CYS

PRO

LYS

VAL

THR

GLN

SER

ILE

HIS

3

ILE

GLU

LYS

SER

ASP

THR

ALA

ASP

THR

4

TYR

GLY

PHE

SER

LEU

SER

VAL

GLU

5

ASP

GLY

ILE

ARG

LEU

TYR

VAL

ASN

SER

6

VAL

LYS

GLU

THR

GLY

LEU

ALA

SER

LYS

7

GLY

LEU

LYS

ALA

GLY

ASP

GLU

ILE

LEU

GLU

8

ILE

ASN

ARG

ALA

ASP

ALA

LEU

ASN

9

SER

MET

LEU

LYS

ASP

PHE

LEU

SER

GLN

10

PRO

SER

LEU

GLY

LEU

VAL

ARG

THR

TYR

11

PRO

GLU

LEU

GLU

GLY

VAL

GLU

SER

GLY

12

PRO

SER

GLY

Samples:

sample_1: PDZ domain, [U-13C; U-15N], 1.29 mM; d-Tris-HCl 20 mM; NaCl 100 mM; d-DTT 1 mM; NaN3 0.02%; H2O 90%; D2O 10%

condition_1: ionic strength: 120 mM; pH: 7.0; pressure: 1 atm; temperature: 298 K

Experiments:

Name	Sample	Sample state	Sample conditions
3D 15N-separated NOESY	sample_1	isotropic	condition_1
3D 13C-separated NOESY	sample_1	isotropic	condition_1

Software:

VNMR v6.1C, Varian - collection

NMRPipe v20031121, Delaglio, F. - processing

NMRView v5.0.4, Johnson, B.A. - data analysis

Kujira v0.9296, Kobayashi, N. - data analysis

CYANA v2.0.17, Guntert, P. - refinement, structure solution

NMR spectrometers:

Varian INOVA 800 MHz

PDB	2D8I 3KZD 3KZE 4GVC 4GVD
DBJ	BAD92338 BAJ17929
GB	AAA98443 AAI17193 AAI17197 AAI43981 EAX09895
REF	NP_001247701 NP_003244 XP_002830672 XP_003813268 XP_003813269
SP	Q13009
AlphaFold	Q13009