BMRB

Biological Magnetic Resonance Data Bank


A Repository for Data from NMR Spectroscopy on Proteins, Peptides, Nucleic Acids, and other Biomolecules
Member of WWPDB

BMRB Entry 11532

Title: solution structure of oxidized human HMGB1 A box   PubMed: 24513216

Authors: Jing, Wang; Tochio, Naoya; Tate, Shin-ichi

Citation: Jing, Wang; Tochio, Naoya; Tate, Shin-ichi. "Redox-sensitive structural change in the A-domain of HMGB1 and its implication for the binding to cisplatin modified DNA"  Biochem. Biophys. Res. Commun. ., .-..

Assembly members:
entity, polymer, 87 residues, 10118.729 Da.

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

Experimental source:   Production method: recombinant technology   Host organism: Escherichia coli

Entity Sequences (FASTA):
entity: GSHMGKGDPKKPRGKMSSYA FFVQTCREEHKKKHPDASVN FSEFSKKCSERWKTMSAKEK GKFEDMAKADKARYEREMKT YIPPKGE

Data sets:
Data typeCount
13C chemical shifts398
15N chemical shifts87
1H chemical shifts572

Additional metadata:

  • Assembly
  • Samples and Experiments
  • Software
  • Spectrometers
  • Hide all

Assembly:

Entity Assembly IDEntity NameEntity ID
1entity1

Entities:

Entity 1, entity 87 residues - 10118.729 Da.

1   GLYSERHISMETGLYLYSGLYASPPROLYS
2   LYSPROARGGLYLYSMETSERSERTYRALA
3   PHEPHEVALGLNTHRCYSARGGLUGLUHIS
4   LYSLYSLYSHISPROASPALASERVALASN
5   PHESERGLUPHESERLYSLYSCYSSERGLU
6   ARGTRPLYSTHRMETSERALALYSGLULYS
7   GLYLYSPHEGLUASPMETALALYSALAASP
8   LYSALAARGTYRGLUARGGLUMETLYSTHR
9   TYRILEPROPROLYSGLYGLU

Samples:

sample_1: entity, [U-13C; U-15N], 0.5 – 0.6 mM; potassium phosphate 50 mM; potassium chloride 150 mM; D2O, [U-2H], 10%; H2O 90%

sample_2: entity, [U-13C; U-15N], 0.5 – 0.6 mM; C12E5/n-hexanol 6%; potassium chloride 150 mM; potassium phosphate 50 mM; D2O, [U-2H], 10%; H2O 90%

sample_conditions_1: ionic strength: 200 mM; pH: 6.4; pressure: 1 atm; temperature: 293 K

Experiments:

NameSampleSample stateSample conditions
3D 1H-13C NOESYsample_1isotropicsample_conditions_1
3D 1H-15N NOESYsample_1isotropicsample_conditions_1
2D 1H-15N IPAP-HSQCsample_1isotropicsample_conditions_1
2D 1H-15N IPAP-HSQCsample_2anisotropicsample_conditions_1

Software:

TOPSPIN, Bruker Biospin - collection

NMRPipe, Delaglio, Grzesiek, Vuister, Zhu, Pfeifer and Bax - processing

MAGRO, Kobayashi N. - data analysis

NMRView, Johnson, One Moon Scientific - data analysis

CYANA, Guntert, Mumenthaler and Wuthrich - structure solution

SPARKY, Goddard - data analysis

X-PLOR NIH, Schwieters, Kuszewski, Tjandra and Clore - structure solution

NMR spectrometers:

  • Bruker Avance 700 MHz

Related Database Links:

BMRB 11147 15148 15149 15502 18709 4079
PDB
DBJ BAA09924 BAC29902 BAC34367 BAC34773 BAC38678
EMBL CAA31110 CAA31284 CAA56631 CAA68441 CAA68526
GB AAA20508 AAA31050 AAA40729 AAA57042 AAA64970
PIR S29857
REF NP_001002937 NP_001004034 NP_001075304 NP_001102843 NP_001162380
SP A9RA84 B0CM99 B1MTB0 P07156 P09429
TPG DAA21468 DAA23902