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 6955

Title: Solution Structure of the gene product of E. coli gene ydhA   PubMed: 16937244

Deposition date: 2006-01-27 Original release date: 2006-11-06

Authors: Shaw, G.; Revington, M.

Citation: Revington, M.; Semesi, A.; Yee, A.; Arrowsmith, C.; Shaw, G.. "The solution structure of the protein ydhA from Escherichia coli"  J. Biomol. NMR 35, 295-300 (2006).

Assembly members:
Hypothetical protein ydhA, polymer, 102 residues, Formula weight is not available

Natural source:   Common Name: Escherichia coli   Taxonomy ID: 562   Superkingdom: Bacteria   Kingdom: not available   Genus/species: Escherichia coli

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

Entity Sequences (FASTA):
Hypothetical protein ydhA: MGSSHHHHHHSSGLVPRGSH MQTDTLEYQCDEKPLTVKLN NPRQEVSFVYDNQLLHLKQG ISASGARYTDGIYVFWSKGD EATVYKRDRIVLNNCQLQNP QR

Data sets:
Data typeCount
13C chemical shifts316
15N chemical shifts79
1H chemical shifts525

Additional metadata:

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

Assembly:

Entity Assembly IDEntity NameEntity ID
1Hypothetical protein ydhA1

Entities:

Entity 1, Hypothetical protein ydhA 102 residues - Formula weight is not available

1   METGLYSERSERHISHISHISHISHISHIS
2   SERSERGLYLEUVALPROARGGLYSERHIS
3   METGLNTHRASPTHRLEUGLUTYRGLNCYS
4   ASPGLULYSPROLEUTHRVALLYSLEUASN
5   ASNPROARGGLNGLUVALSERPHEVALTYR
6   ASPASNGLNLEULEUHISLEULYSGLNGLY
7   ILESERALASERGLYALAARGTYRTHRASP
8   GLYILETYRVALPHETRPSERLYSGLYASP
9   GLUALATHRVALTYRLYSARGASPARGILE
10   VALLEUASNASNCYSGLNLEUGLNASNPRO
11   GLNARG

Samples:

sample_1: Hypothetical protein ydhA, [U-13C; U-15N], 0.5 mM; sodium phosphate 10 mM; NaCl 400 mM; dithiothreitol 10 mM; sodium azide 0.01%; benzamidine 1 mM; H2O 90%; D2O 10%

sample_cond_1: ionic strength: 410 mM; pH: 6.5; pressure: 1 atm; temperature: 298.0 K

Experiments:

NameSampleSample stateSample conditions
3D 13C-separated NOESYsample_1not availablesample_cond_1
3D 15N-separated NOESYsample_1not availablesample_cond_1

Software:

VNMR v6.1B - collection

NMRPipe v2.3 - processing

NMRView v5.2.2 - data analysis

CYANA v2.032.3 - refinement

CNS v1.1 - refinement

NMR spectrometers:

  • Varian INOVA 600 MHz

Related Database Links:

SWISS-PROT P28224
REF YP_001724963 YP_001462930 YP_001458419 NP_416156 AP_002261
GenBank ABV06036 ABB66112 AAZ88217 AAC74711 AAA24708
DBJ BAA15400
PDB

Download simulated HSQC data in one of the following formats:
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SPARKY: Backbone or all simulated shifts