BMRB Entry 18283

Name: Assignment of E coli periplasmic protein YmgD
Published: 2013-04-15

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PDB ID: 2lrv
Entry in NMR Restraints Grid
Validation report in NRG-CING
Chem Shift validation: AVS_anomalous, AVS_full
BMRB Entry DOI: doi:10.13018/BMR18283
MolProbity Validation Chart

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Bioinformatics (2015) 31 (8): 1322-1324 doi:10.1093/bioinformatics/btu829

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Title: Assignment of E coli periplasmic protein YmgD

Deposition date: 2012-02-20 Original release date: 2013-04-15

Authors: Wu, Kuen-Phon; Inouye, Masayori; Baum, Jean

Citation: Wu, Kuen-Phon; Masuda, Hisako; Hsu, Shang-Te; Baum, Jean; Inouye, Masayori. "Solution structure of homodimeric periplasmic protein YmgD in E. coli" J. Biol. Chem. ., .-..

Assembly members:
YmgD, polymer, 90 residues, Formula weight is not available

Natural source: Common Name: E. 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):
YmgD: QDYNIKNGLPSETYITCAEA NEMAKTDSAQVAEIVAVMGN ASVASRDLKIEQSPELSAKV VEKLNQVCAKDPQMLLITAI DDTMRAIGKK

Data sets:

assigned_chemical_shifts
- assigned_chem_shift_list_1

Data type	Count
13C chemical shifts	342
15N chemical shifts	96
1H chemical shifts	596

Additional metadata:

Assembly
Samples and Experiments
Software
Spectrometers
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Entity Assembly ID	Entity Name	Entity ID
1	YmgD, chain 1	1
2	YmgD, chain 2	1

1	GLN	ASP	TYR	ASN	ILE	LYS	ASN	GLY	LEU	PRO
2	SER	GLU	THR	TYR	ILE	THR	CYS	ALA	GLU	ALA
3	ASN	GLU	MET	ALA	LYS	THR	ASP	SER	ALA	GLN
4	VAL	ALA	GLU	ILE	VAL	ALA	VAL	MET	GLY	ASN
5	ALA	SER	VAL	ALA	SER	ARG	ASP	LEU	LYS	ILE
6	GLU	GLN	SER	PRO	GLU	LEU	SER	ALA	LYS	VAL
7	VAL	GLU	LYS	LEU	ASN	GLN	VAL	CYS	ALA	LYS
8	ASP	PRO	GLN	MET	LEU	LEU	ILE	THR	ALA	ILE
9	ASP	ASP	THR	MET	ARG	ALA	ILE	GLY	LYS	LYS

Name	Sample	Sample state	Sample conditions
2D 1H-15N HSQC	CN-YmgD	isotropic	pH_5.0
2D 1H-13C HSQC	CN-YmgD	isotropic	pH_5.0
2D 1H-13C HSQC aliphatic	CN-YmgD	isotropic	pH_5.0
3D HNCO	CN-YmgD	isotropic	pH_5.0
3D HN(CA)CO	CN-YmgD	isotropic	pH_5.0
3D C(CO)NH	CN-YmgD	isotropic	pH_5.0
3D HNCACB	CN-YmgD	isotropic	pH_5.0
3D H(CCO)NH	CN-YmgD	isotropic	pH_5.0
3D HCCH-TOCSY	CN-YmgD	isotropic	pH_5.0
3D CBCA(CO)NH	CN-YmgD	isotropic	pH_5.0
3D 1H-15N NOESY	CN-YmgD	isotropic	pH_5.0
3D 1H-15N TOCSY	CN-YmgD	isotropic	pH_5.0
3D 1H-13C NOESY	CN-YmgD	isotropic	pH_5.0

PDB	2LRM 2LRV
DBJ	BAA36005 BAG76740 BAI24982 BAI30108 BAI35428
EMBL	CAP75703 CAQ31672 CAQ98049 CAR02560 CAR07513
GB	AAC74255 AAN42775 AAN80081 AAP16666 AAZ87885
REF	NP_415689 NP_707068 WP_000219597 WP_000531016 WP_000712685
SP	P0AB46 P0AB47 P0AB48

Biological Magnetic Resonance Data Bank

BMRB Entry 18283

Title: Assignment of E coli periplasmic protein YmgD

Additional metadata:

Assembly:

Entities:

Samples:

Experiments:

Software:

NMR spectrometers:

Related Database Links:

1	GLN	ASP	TYR	ASN	ILE	LYS	ASN	GLY	LEU	PRO
2	SER	GLU	THR	TYR	ILE	THR	CYS	ALA	GLU	ALA
3	ASN	GLU	MET	ALA	LYS	THR	ASP	SER	ALA	GLN
4	VAL	ALA	GLU	ILE	VAL	ALA	VAL	MET	GLY	ASN
5	ALA	SER	VAL	ALA	SER	ARG	ASP	LEU	LYS	ILE
6	GLU	GLN	SER	PRO	GLU	LEU	SER	ALA	LYS	VAL
7	VAL	GLU	LYS	LEU	ASN	GLN	VAL	CYS	ALA	LYS
8	ASP	PRO	GLN	MET	LEU	LEU	ILE	THR	ALA	ILE
9	ASP	ASP	THR	MET	ARG	ALA	ILE	GLY	LYS	LYS

1	GLN	ASP	TYR	ASN	ILE	LYS	ASN	GLY	LEU	PRO
2	SER	GLU	THR	TYR	ILE	THR	CYS	ALA	GLU	ALA
3	ASN	GLU	MET	ALA	LYS	THR	ASP	SER	ALA	GLN
4	VAL	ALA	GLU	ILE	VAL	ALA	VAL	MET	GLY	ASN
5	ALA	SER	VAL	ALA	SER	ARG	ASP	LEU	LYS	ILE
6	GLU	GLN	SER	PRO	GLU	LEU	SER	ALA	LYS	VAL
7	VAL	GLU	LYS	LEU	ASN	GLN	VAL	CYS	ALA	LYS
8	ASP	PRO	GLN	MET	LEU	LEU	ILE	THR	ALA	ILE
9	ASP	ASP	THR	MET	ARG	ALA	ILE	GLY	LYS	LYS

1	GLN	ASP	TYR	ASN	ILE	LYS	ASN	GLY	LEU	PRO
2	SER	GLU	THR	TYR	ILE	THR	CYS	ALA	GLU	ALA
3	ASN	GLU	MET	ALA	LYS	THR	ASP	SER	ALA	GLN
4	VAL	ALA	GLU	ILE	VAL	ALA	VAL	MET	GLY	ASN
5	ALA	SER	VAL	ALA	SER	ARG	ASP	LEU	LYS	ILE
6	GLU	GLN	SER	PRO	GLU	LEU	SER	ALA	LYS	VAL
7	VAL	GLU	LYS	LEU	ASN	GLN	VAL	CYS	ALA	LYS
8	ASP	PRO	GLN	MET	LEU	LEU	ILE	THR	ALA	ILE
9	ASP	ASP	THR	MET	ARG	ALA	ILE	GLY	LYS	LYS