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 4630

Title: NMR STRUCTURE OF THROMBOMODULIN EGF(4-5)   PubMed: 10700277

Authors: Wood, M.; Sampoli-Benitez, B.; Komives, E.

Citation: Wood, M.; Sampoli-Benitez, B.; Komives, E.. "Solution structure of the smallest cofactor-active fragment of thrombomodulin"  Nat. Struct. Biol. 7, 200-204 (2000).

Assembly members:
THROMBOMODULIN, polymer, 83 residues, Formula weight is not available
NAG, non-polymer, 221.208 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: Pichia pastoris

Entity Sequences (FASTA):
THROMBOMODULIN: HMEPVDPCFRANCEYQCQPL NQTSYLCVCAEGFAPIPHEP HRCQMFCNQTACPADCDPNT QASCECPEGYILDDGFICTD IDE

Data sets:
  • assigned_chemical_shifts
  • coupling_constants
Data typeCount
coupling constants43

Additional metadata:

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

Assembly:

Entity Assembly IDEntity NameEntity ID
1THROMBOMODULIN1
2N-ACETYL-D-GLUCOSAMINE-12
3N-ACETYL-D-GLUCOSAMINE-22

Entities:

Entity 1, THROMBOMODULIN 83 residues - Formula weight is not available

1   HISMETGLUPROVALASPPROCYSPHEARG
2   ALAASNCYSGLUTYRGLNCYSGLNPROLEU
3   ASNGLNTHRSERTYRLEUCYSVALCYSALA
4   GLUGLYPHEALAPROILEPROHISGLUPRO
5   HISARGCYSGLNMETPHECYSASNGLNTHR
6   ALACYSPROALAASPCYSASPPROASNTHR
7   GLNALASERCYSGLUCYSPROGLUGLYTYR
8   ILELEUASPASPGLYPHEILECYSTHRASP
9   ILEASPGLU

Entity 2, N-ACETYL-D-GLUCOSAMINE-1 - C8 H15 N O6 - 221.208 Da.

1   NAG

Samples:

sample_1: THROMBOMODULIN, [U-15N], 1 mM; N-ACETYL-D-GLUCOSAMINE 2 mM; H2O 90%; D2O 10%

sample_2: THROMBOMODULIN 1 mM; N-ACETYL-D-GLUCOSAMINE 2 mM; D2O 100%

sample_cond_1: pH: 6.5; temperature: 310 K; ionic strength: 0 M; pressure: 1 atm

Experiments:

NameSampleSample stateSample conditions
3D 15N-separated NOESYnot availablenot availablesample_cond_1
HNHAnot availablenot availablesample_cond_1
2D NOESYnot availablenot availablesample_cond_1

Software:

XWINNMR v3.0 - collection

FELIX v97.0 - data analysis

DGII v97.0 - structure solution

X-PLOR v3.5 - refinement

NMR spectrometers:

  • Bruker DRX 600 MHz

Related Database Links:

PDB
DBJ BAA00149 BAG53913 BAJ17754
EMBL CAA29045
GB AAA61175 AAB27209 AAB59508 AAD49735 AAH35602
PRF 1403353A
REF NP_000352 XP_003829427 XP_525283
SP P07204 Q71U07