BMRB Entry 17137

Name: Rhodanese Y
Published: 2010-10-26

Chem Shift validation: AVS_anomalous, AVS_full, LACS
BMRB Entry DOI: doi:10.13018/BMR17137

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Nicholas Rego and David Koes
3Dmol.js: molecular visualization with WebGL
Bioinformatics (2015) 31 (8): 1322-1324 doi:10.1093/bioinformatics/btu829

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Title:

Rhodanese Y

Deposition date:

2010-08-20

Original release date:

2010-10-26

Authors:

Li, Hongwei; Jin, Changwen

Citation:

Citation: Li, Hongwei; Bi, Yunchen; Xia, Bin; Jin, Changwen. "(1)H, (13)C and (15)N resonance assignments of the rhodanese domain of YgaP from Escherichia coli." Biomol. NMR Assignments 5, 101-103 (2011).
PubMed: 20960078

Assembly members:

Assembly members:
YgaP, polymer, 107 residues, Formula weight is not available

Natural source:

Natural source: Common Name: E. 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 Vector: pET28

Entity Sequences (FASTA):

Entity Sequences (FASTA):
YgaP: MALTTISPHDAQELIARGAK LIDIRDADEYLREHIPEADL APLSVLEQSGLPAKLRHEQI IFHCQAGKRTSNNADKLAAI AAPAEIFLLEDGIDGWKRAG LPVAVNK

Data sets:

assigned_chemical_shifts
- assigned_chem_shift_list_1

Data type	Count
13C chemical shifts	451
15N chemical shifts	108
1H chemical shifts	751

Additional metadata:

Assembly
Samples and Experiments
Software
Spectrometers
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Assembly:

Entity Assembly ID	Entity Name	Entity ID
1	YgaP	1

Entities:

Entity 1, YgaP 107 residues - Formula weight is not available

1

MET

ALA

LEU

THR

ILE

SER

PRO

HIS

ASP

2

ALA

GLN

GLU

LEU

ILE

ALA

ARG

GLY

ALA

LYS

3

LEU

ILE

ASP

ILE

ARG

ASP

ALA

ASP

GLU

TYR

4

LEU

ARG

GLU

HIS

ILE

PRO

GLU

ALA

ASP

LEU

5

ALA

PRO

LEU

SER

VAL

LEU

GLU

GLN

SER

GLY

6

LEU

PRO

ALA

LYS

LEU

ARG

HIS

GLU

GLN

ILE

7

ILE

PHE

HIS

CYS

GLN

ALA

GLY

LYS

ARG

THR

8

SER

ASN

ALA

ASP

LYS

LEU

ALA

ILE

9

ALA

PRO

ALA

GLU

ILE

PHE

LEU

GLU

10

ASP

GLY

ILE

ASP

GLY

TRP

LYS

ARG

ALA

GLY

11

LEU

PRO

VAL

ALA

VAL

ASN

LYS

Samples:

sample_1: YgaP 1 mM; TRIS 20 mM; H2O 90%; D2O 10%

sample_conditions_1: ionic strength: 0.02 M; pH: 7.2; pressure: 1 atm; temperature: 298 K

Experiments:

Name	Sample	Sample state	Sample conditions
2D 1H-15N HSQC	sample_1	isotropic	sample_conditions_1
3D HNCACB	sample_1	isotropic	sample_conditions_1
3D CBCA(CO)NH	sample_1	isotropic	sample_conditions_1
3D C(CO)NH	sample_1	isotropic	sample_conditions_1
3D H(CCO)NH	sample_1	isotropic	sample_conditions_1
3D HCCH-TOCSY	sample_1	isotropic	sample_conditions_1
3D 1H-15N NOESY	sample_1	isotropic	sample_conditions_1
3D 1H-13C NOESY	sample_1	isotropic	sample_conditions_1

Software:

NMRPipe, Johnson, One Moon Scientific - chemical shift assignment

NMR spectrometers:

Bruker Avance 600 MHz
Bruker Avance 800 MHz

BMRB	19943 19946 25085
PDB	2MOI 2MOL 2MRM
DBJ	BAB36952 BAE76780 BAG78445 BAI26930 BAI31960
EMBL	CAQ33005 CAQ87965 CAQ99590 CAR04179 CAR09287
GB	AAC75715 AAG57776 AAN44189 AAN81669 AAP18017
REF	NP_311556 NP_417154 NP_708482 WP_001229433 WP_001229437
SP	P55734
AlphaFold	P55734