BMRB Entry 7364

Name: Solution Structure of Variable-type Domain of Human Receptor for Advanced Glycation Endproducts
Published: 2009-02-04

Click here to enlarge.

PDB ID: 2e5e
Entry in NMR Restraints Grid
Validation report in NRG-CING
Chem Shift validation: AVS_anomalous, AVS_full, LACS, SPARTA
BMRB Entry DOI: doi:10.13018/BMR7364
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 Variable-type Domain of Human Receptor for Advanced Glycation Endproducts

Deposition date:

2007-01-19

Original release date:

2009-02-04

Authors:

Matsumoto, S.; Yoshida, T.; Yasumatsu, I.; Yamamoto, H.; Kobayashi, Y.; Ohkubo, T.

Citation:

Citation: Matsumoto, Shigeyuki; Yoshida, Takuya; Murata, Hiroko; Harada, Shusaku; Fujita, Naoko; Nakamura, Shota; Yamamoto, Yasuhiko; Watanabe, Takuo; Yonekura, Hideto; Yamamoto, Hiroshi; Ohkubo, Tadayasu; Kobayashi, Yuji. "Solution Structure of the Variable-Type Domain of the Receptor for Advanced Glycation End Products: New Insight into AGE-RAGE Interaction" Biochemistry 47, 12299-12311 (2008).
PubMed: 19032093

Assembly members:

Assembly members:
Advanced_glycosylation_end_product-specific_receptor, polymer, 101 residues, Formula weight is not available

Natural source:

Natural source: Common Name: human Taxonomy ID: 9606 Superkingdom: not available Kingdom: Eukaryota Genus/species: Metazoa Homo

Experimental source:

Experimental source: Production method: recombinant technology

Entity Sequences (FASTA):

Entity Sequences (FASTA):
Advanced_glycosylation_end_product-specific_receptor: AMAQNITARIGEPLVLKCKG APKKPPQRLEWKLNTGRTEA WKVLSPQGGGPWDSVARVLP NGSLFLPAVGIQDEGIFRCQ AMNRNGKETKSNYRVRVYQI P

Data sets:

assigned_chemical_shifts
- assigned_chem_shift_list_1

Data type	Count
13C chemical shifts	401
15N chemical shifts	82
1H chemical shifts	554

Additional metadata:

Assembly
Samples and Experiments
Software
Spectrometers
Hide all

Assembly:

Entity Assembly ID	Entity Name	Entity ID
1	AG_Endproducts	1

Entities:

Entity 1, AG_Endproducts 101 residues - Formula weight is not available

1

ALA

MET

ALA

GLN

ASN

ILE

THR

ALA

ARG

ILE

2

GLY

GLU

PRO

LEU

VAL

LEU

LYS

CYS

LYS

GLY

3

ALA

PRO

LYS

PRO

GLN

ARG

LEU

GLU

4

TRP

LYS

LEU

ASN

THR

GLY

ARG

THR

GLU

ALA

5

TRP

LYS

VAL

LEU

SER

PRO

GLN

GLY

6

PRO

TRP

ASP

SER

VAL

ALA

ARG

VAL

LEU

PRO

7

ASN

GLY

SER

LEU

PHE

LEU

PRO

ALA

VAL

GLY

8

ILE

GLN

ASP

GLU

GLY

ILE

PHE

ARG

CYS

GLN

9

ALA

MET

ASN

ARG

ASN

GLY

LYS

GLU

THR

LYS

10

SER

ASN

TYR

ARG

VAL

ARG

VAL

TYR

GLN

ILE

11

PRO

Samples:

sample_1: AG_Endproducts, [U-13C; U-15N], 0.2 mM; phosphate buffer 20 mM; Na2SO4 100 mM; D2O 10%; H2O 90%

sample_2: AG_Endproducts, [U-13C; U-15N], 0.2 mM; phosphate buffer 20 mM; Na2SO4 100 mM; D2O 100%

sample_conditions_1: pH: 7.5; pressure: 1 atm; temperature: 298 K

Experiments:

Name	Sample	Sample state	Sample conditions
3D_13C-separated_NOESY	not available	isotropic	sample_conditions_1
3D_15N-separated_NOESY	not available	isotropic	sample_conditions_1
2D NOESY	not available	isotropic	sample_conditions_1
2D TOCSY	not available	isotropic	sample_conditions_1

Software:

CNS v1.1, Brunger - refinement

NMR spectrometers:

Varian INOVA 600 MHz
Varian INOVA 500 MHz

BMRB	17378 19739 19953
PDB	2E5E 2L7U 2MJW 2MOV 3CJJ 3O3U 4LP4 4LP5 4OF5 4OFV 4OI7 4OI8
DBJ	BAA05958 BAA89369 BAC65465 BAG35995 BAG60385
GB	AAA03574 AAB47491 AAH20669 AAX07272 AAX07273
REF	NP_001127 NP_001192046 NP_001193858 NP_001193863 NP_001193865
SP	Q15109
AlphaFold	Q15109