BMRB Entry 15622

Name: Solution structure of an antilipopolysaccharide factor from shrimp
Published: 2008-09-19

Click here to enlarge.

PDB ID: 2job
Entry in NMR Restraints Grid
Validation report in NRG-CING
Chem Shift validation: AVS_anomalous, AVS_full
BMRB Entry DOI: doi:10.13018/BMR15622
MolProbity Validation Chart

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:

Solution structure of an antilipopolysaccharide factor from shrimp

Deposition date:

2008-01-09

Original release date:

2008-09-19

Authors:

Yang, Yinshan; Boze, Helene; Chemardin, Patrick; Padilla, Andre; Moulin, Guy; Tassanakajon, Anchalaee; Pugniere, Martine; Roquet, Francoise; Gueguen, Yannick; Bachere, Evelyne; Aumelas, Andre

Citation:

Citation: Somboonwiwat, Kunlaya; Bachere, Evelyne; Rimphanitchayakit, Vichien; Tassanakajon, Anchalaee. "Localization of anti-lipopolysaccharide factor (ALFPm3) in tissues of the black tiger shrimp, Penaeus monodon, and characterization of its binding properties." Dev. Comp. Immunol. 32, 1170-1176 (2008).
PubMed: 18466970

Assembly members:

Assembly members:
antilipopolysaccharide_factor, polymer, 102 residues, 11534.318 Da.

Natural source:

Natural source: Common Name: black tiger shrimp Taxonomy ID: 6687 Superkingdom: Eukaryota Kingdom: Metazoa Genus/species: Penaeus monodon

Experimental source:

Experimental source: Production method: recombinant technology Host organism: Pichia pastoris Vector: not available

Entity Sequences (FASTA):

Entity Sequences (FASTA):
antilipopolysaccharide_factor: EAYVQGWEAVAAAVASKIVG LWRNEKTELLGHECKFTVKP YLKRFQVYYKGRMWCPGWTA IRGEASTRSQSGVAGKTAKD FVRKAFQKGLISQQEANQWL SS

Data sets:

assigned_chemical_shifts
- assigned_chem_shift_list_1

Data type	Count
15N chemical shifts	90
1H chemical shifts	619

Additional metadata:

Assembly
Samples and Experiments
Software
Spectrometers
Hide all

Assembly:

Entity Assembly ID	Entity Name	Entity ID
1	antilipopolysaccharide factor	1

Entities:

Entity 1, antilipopolysaccharide factor 102 residues - 11534.318 Da.

1

GLU

ALA

TYR

VAL

GLN

GLY

TRP

GLU

ALA

VAL

2

ALA

VAL

ALA

SER

LYS

ILE

VAL

GLY

3

LEU

TRP

ARG

ASN

GLU

LYS

THR

GLU

LEU

4

GLY

HIS

GLU

CYS

LYS

PHE

THR

VAL

LYS

PRO

5

TYR

LEU

LYS

ARG

PHE

GLN

VAL

TYR

LYS

6

GLY

ARG

MET

TRP

CYS

PRO

GLY

TRP

THR

ALA

7

ILE

ARG

GLY

GLU

ALA

SER

THR

ARG

SER

GLN

8

SER

GLY

VAL

ALA

GLY

LYS

THR

ALA

LYS

ASP

9

PHE

VAL

ARG

LYS

ALA

PHE

GLN

LYS

GLY

LEU

10

ILE

SER

GLN

GLU

ALA

ASN

GLN

TRP

LEU

11

SER

Samples:

sample_1: ALF 1 mM

sample_2: ALF, [U-99% 15N], 1 mM

sample_conditions_1: ionic strength: 0 M; pH: 6.9; pressure: 1 atm; temperature: 305 K

sample_conditions_2: ionic strength: 0 M; pH: 6.9; pressure: 1 atm; temperature: 305 K

Experiments:

Name	Sample	Sample state	Sample conditions
2D DQF-COSY	sample_1	isotropic	sample_conditions_1
2D 1H-1H TOCSY	sample_1	isotropic	sample_conditions_1
2D 1H-1H NOESY	sample_1	isotropic	sample_conditions_1
2D 1H-15N HSQC	sample_2	isotropic	sample_conditions_2
3D 1H-15N HSQC-NOESY	sample_2	isotropic	sample_conditions_2

Software:

xwinnmr, Bruker Biospin - collection

GIFA, Delsuc - processing

X-PLOR, Brunger - structure solution

NMR spectrometers:

Bruker Avance 600 MHz

PDB	2JOB
GB	ABP73289 ABP73292 ACC86067 ADC32520 ADK74771