BMRB Entry 10108

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PDB ID: 1v5n
Entry in NMR Restraints Grid
Validation report in NRG-CING
Chem Shift validation: AVS_anomalous, AVS_full, LACS
BMRB Entry DOI: doi:10.13018/BMR10108
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 DC1 Domain of PDI-like Hypothetical Protein from Arabidopsis thaliana

Deposition date:

2007-02-13

Original release date:

2008-08-29

Authors:

Miyamoto, K.; Tomizawa, T.; Koshiba, S.; Inoue, M.; Kigawa, T.; Yokoyama, S.

Citation:

Citation: Miyamoto, K.; Tomizawa, T.; Koshiba, S.; Inoue, M.; Kigawa, T.; Yokoyama, S.. "Solution Structure of DC1 Domain of PDI-like Hypothetical Protein from Arabidopsis thaliana" .

Assembly members:

Assembly members:
PDI-like Hypothetical Protein At1g60420, polymer, 89 residues, Formula weight is not available
ZN, non-polymer, 65.409 Da.

Natural source:

Natural source: Common Name: thale cress Taxonomy ID: 3702 Superkingdom: Eukaryota Kingdom: Viridiplantae Genus/species: Arabidopsis thaliana

Experimental source:

Experimental source: Production method: cell free synthesis Vector: P030421-05

Entity Sequences (FASTA):

Entity Sequences (FASTA):
PDI-like Hypothetical Protein At1g60420: GSSGSSGTEERLKEIEAKYD EIAKDWPKKVKHVLHEEHEL ELTRVQVYTCDKCEEEGTIW SYHCDECDFDLHAKCALNED TKESGPSSG

Data sets:

assigned_chemical_shifts
- chemical_shift_1

Data type	Count
13C chemical shifts	353
15N chemical shifts	80
1H chemical shifts	541

Additional metadata:

Assembly
Samples and Experiments
Software
Spectrometers
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Assembly:

Entity Assembly ID	Entity Name	Entity ID
1	PDI-like Hypothetical Protein At1g60420	1
2	zinc ion, 1	2
3	zinc ion, 2	2

Entities:

Entity 1, PDI-like Hypothetical Protein At1g60420 89 residues - Formula weight is not available

1

GLY

SER

GLY

SER

GLY

THR

GLU

2

ARG

LEU

LYS

GLU

ILE

GLU

ALA

LYS

TYR

ASP

3

GLU

ILE

ALA

LYS

ASP

TRP

PRO

LYS

VAL

4

LYS

HIS

VAL

LEU

HIS

GLU

HIS

GLU

LEU

5

GLU

LEU

THR

ARG

VAL

GLN

VAL

TYR

THR

CYS

6

ASP

LYS

CYS

GLU

GLY

THR

ILE

TRP

7

SER

TYR

HIS

CYS

ASP

GLU

CYS

ASP

PHE

ASP

8

LEU

HIS

ALA

LYS

CYS

ALA

LEU

ASN

GLU

ASP

9

THR

LYS

GLU

SER

GLY

PRO

SER

GLY

Entity 2, zinc ion, 1 - Zn - 65.409 Da.

1

ZN

Samples:

sample_1: DC1 Domain, [U-13C; U-15N], 1.05 mM; d-Tris-HCl 20 mM; NaCl 100 mM; d-DTT 1 mM; NaN3 0.02%; ZnCl2 0.1 mM; 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 13C-separated NOESY	sample_1	isotropic	condition_1
3D 15N-separated NOESY	sample_1	isotropic	condition_1

Software:

xwinnmr v2.6, Bruker - collection

NMRPipe v20020425, Delaglio, F. - processing

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

Kujira v0.863, Kobayashi, N. - data analysis

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

NMR spectrometers:

Bruker AVANCE 800 MHz