BMRB Entry 6955

Name: Solution Structure of the gene product of E. coli gene ydhA
Published: 2006-11-06

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PDB ID: 2f09
Entry in NMR Restraints Grid
Validation report in NRG-CING
Chem Shift validation: AVS_full, LACS
BMRB Entry DOI: doi:10.13018/BMR6955
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Nicholas Rego and David Koes
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Bioinformatics (2015) 31 (8): 1322-1324 doi:10.1093/bioinformatics/btu829

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Title:

Solution Structure of the gene product of E. coli gene ydhA

Deposition date:

2006-01-27

Original release date:

2006-11-06

Authors:

Shaw, G.; Revington, M.

Citation:

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).
PubMed: 16937244

Assembly members:

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

Natural source:

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

Experimental source:

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

Entity Sequences (FASTA):

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

Data sets:

assigned_chemical_shifts
- chemical_shift_set_1

Data type	Count
13C chemical shifts	316
15N chemical shifts	79
1H chemical shifts	525

Additional metadata:

Assembly
Samples and Experiments
Software
Spectrometers
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Assembly:

Entity Assembly ID	Entity Name	Entity ID
1	Hypothetical protein ydhA	1

Entities:

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

1

MET

GLY

SER

HIS

2

SER

GLY

LEU

VAL

PRO

ARG

GLY

SER

HIS

3

MET

GLN

THR

ASP

THR

LEU

GLU

TYR

GLN

CYS

4

ASP

GLU

LYS

PRO

LEU

THR

VAL

LYS

LEU

ASN

5

ASN

PRO

ARG

GLN

GLU

VAL

SER

PHE

VAL

TYR

6

ASP

ASN

GLN

LEU

HIS

LEU

LYS

GLN

GLY

7

ILE

SER

ALA

SER

GLY

ALA

ARG

TYR

THR

ASP

8

GLY

ILE

TYR

VAL

PHE

TRP

SER

LYS

GLY

ASP

9

GLU

ALA

THR

VAL

TYR

LYS

ARG

ASP

ARG

ILE

10

VAL

LEU

ASN

CYS

GLN

LEU

GLN

ASN

PRO

11

GLN

ARG

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:

Name	Sample	Sample state	Sample conditions
3D 13C-separated NOESY	sample_1	not available	sample_cond_1
3D 15N-separated NOESY	sample_1	not available	sample_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

SWISS-PROT	P28224
REF	YP_001724963 YP_001462930 YP_001458419 NP_416156 AP_002261
GenBank	ABV06036 ABB66112 AAZ88217 AAC74711 AAA24708
DBJ	BAA15400
PDB	2F09