BMRB Entry 11097

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PDB ID: 2edd
Entry in NMR Restraints Grid
Validation report in NRG-CING
Chem Shift validation: AVS_anomalous, AVS_full, LACS
BMRB Entry DOI: doi:10.13018/BMR11097
MolProbity Validation Chart

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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 fifth fibronectin type III domain of human Netrin receptor DCC

Deposition date:

2010-02-19

Original release date:

2011-02-17

Authors:

Tochio, N.; Koshiba, S.; Tomizawa, T.; Kigawa, T.; Yokoyama, S.

Citation:

Citation: Tochio, N.; Koshiba, S.; Tomizawa, T.; Kigawa, T.; Yokoyama, S.. "Solution structure of the fifth fibronectin type III domain of human Netrin receptor DCC" To be Published ., .-..

Assembly members:

Assembly members:
fifth fn3 domain, polymer, 123 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: P050905-23

Entity Sequences (FASTA):

Entity Sequences (FASTA):
fifth fn3 domain: GSSGSSGFPTSVPDLSTPML PPVGVQAVALTHDAVRVSWA DNSVPKNQKTSEVRLYTVRW RTSFSASAKYKSEDTTSLSY TATGLKPNTMYEFSVMVTKN RRSSTWSMTAHATTYEASGP SSG

Data sets:

assigned_chemical_shifts
- chemical_shift_1

Data type	Count
13C chemical shifts	500
15N chemical shifts	111
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	fifth fn3 domain	1

Entities:

Entity 1, fifth fn3 domain 123 residues - Formula weight is not available

1

GLY

SER

GLY

SER

GLY

PHE

PRO

THR

2

SER

VAL

PRO

ASP

LEU

SER

THR

PRO

MET

LEU

3

PRO

VAL

GLY

VAL

GLN

ALA

VAL

ALA

LEU

4

THR

HIS

ASP

ALA

VAL

ARG

VAL

SER

TRP

ALA

5

ASP

ASN

SER

VAL

PRO

LYS

ASN

GLN

LYS

THR

6

SER

GLU

VAL

ARG

LEU

TYR

THR

VAL

ARG

TRP

7

ARG

THR

SER

PHE

SER

ALA

SER

ALA

LYS

TYR

8

LYS

SER

GLU

ASP

THR

SER

LEU

SER

TYR

9

THR

ALA

THR

GLY

LEU

LYS

PRO

ASN

THR

MET

10

TYR

GLU

PHE

SER

VAL

MET

VAL

THR

LYS

ASN

11

ARG

SER

THR

TRP

SER

MET

THR

ALA

12

HIS

ALA

THR

TYR

GLU

ALA

SER

GLY

PRO

13

SER

GLY

Samples:

sample_1: fifth fn3 domain, [U-13C; U-15N], 1.2 mM; d-Tris-HCl, [U-2H], 20 mM; sodium chloride 100 mM; d-DTT, [U-2H], 1 mM; sodium azide 0.02%; H2O 90%; D2O 10%

condition_1: ionic strength: 120 mM; pH: 7.0; pressure: 1 atm; temperature: 296 K

Experiments:

Name	Sample	Sample state	Sample conditions
3D 1H-15N NOESY	sample_1	isotropic	condition_1
3D 1H-13C NOESY	sample_1	isotropic	condition_1

Software:

xwinnmr v3.5, Bruker - collection

NMRPipe v20031121, Delaglio, F. - processing

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

Kujira v0.955, Kobayashi, N. - data analysis

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

NMR spectrometers:

Bruker AVANCE 800 MHz

PDB	2EDD 4URT
DBJ	BAG63884 BAI45499
EMBL	CAA53735
GB	AAI52809 EAW62991 EAW62994 EFB26812 EHB03455
REF	NP_005206 XP_001916613 XP_002757292 XP_002800982 XP_002828277
SP	P43146
TPG	DAA15913
AlphaFold	P43146