BMRB Entry 16775

Name: Mesencephalic astrocyte-derived neurotrophic factor (MANF)
Published: 2022-02-14

Click here to enlarge.

PDB ID: 2kvd
Entry in NMR Restraints Grid
Validation report in NRG-CING
Chem Shift validation: AVS_full
BMRB Entry DOI: doi:10.13018/BMR16775
MolProbity Validation Chart

NMR-STAR file interactive viewer.
NMR-STAR v3 text file.
XML gzip file.
RDF gzip file.
All files associated with the entry

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

Select model:

I am color blind

Download raw data. Direct link to this display. Help

Title: Mesencephalic astrocyte-derived neurotrophic factor (MANF) PubMed: 21047780

Deposition date: 2010-03-12 Original release date: 2022-02-14

Authors: Hellman, Maarit; Peranen, Johan; Saarma, Mart; Permi, Perttu

Citation: Hellman, Maarit; Arumae, Urmas; Yu, Li-ying; Lindholm, Paivi; Peranen, Johan; Saarma, Mart; Permi, Perttu. "Mesencephalic astrocyte-derived neurotrophic factor (MANF) has a unique mechanism to rescue apoptotic neurons" J. Biol. Chem. 286, 2675-2680 (2011).

Assembly members:
MANF, polymer, 160 residues, 18339.395 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: Escherichia coli Vector: pFOLD

Entity Sequences (FASTA):
MANF: GSLRPGDCEVCISYLGRFYQ DLKDRDVTFSPATIENELIK FCREARGKENRLCYYIGATD DAATKIINEVSKPLAHHIPV EKICEKLKKKDSQICELKYD KQIDLSTVDLKKLRVKELKK ILDDWGETCKGCAEKSDYIR KINELMPKYAPKAASARTDL

Data sets:

assigned_chemical_shifts
- assigned_chem_shift_list_1

Data type	Count
13C chemical shifts	568
15N chemical shifts	160
1H chemical shifts	1119

Additional metadata:

Assembly
Samples and Experiments
Software
Spectrometers
Hide all

Assembly:

Entity Assembly ID	Entity Name	Entity ID
1	MANF	1

Entities:

Entity 1, MANF 160 residues - 18339.395 Da.

First two residues are cloning artefacts

1	GLY	SER	LEU	ARG	PRO	GLY	ASP	CYS	GLU	VAL
2	CYS	ILE	SER	TYR	LEU	GLY	ARG	PHE	TYR	GLN
3	ASP	LEU	LYS	ASP	ARG	ASP	VAL	THR	PHE	SER
4	PRO	ALA	THR	ILE	GLU	ASN	GLU	LEU	ILE	LYS
5	PHE	CYS	ARG	GLU	ALA	ARG	GLY	LYS	GLU	ASN
6	ARG	LEU	CYS	TYR	TYR	ILE	GLY	ALA	THR	ASP
7	ASP	ALA	ALA	THR	LYS	ILE	ILE	ASN	GLU	VAL
8	SER	LYS	PRO	LEU	ALA	HIS	HIS	ILE	PRO	VAL
9	GLU	LYS	ILE	CYS	GLU	LYS	LEU	LYS	LYS	LYS
10	ASP	SER	GLN	ILE	CYS	GLU	LEU	LYS	TYR	ASP
11	LYS	GLN	ILE	ASP	LEU	SER	THR	VAL	ASP	LEU
12	LYS	LYS	LEU	ARG	VAL	LYS	GLU	LEU	LYS	LYS
13	ILE	LEU	ASP	ASP	TRP	GLY	GLU	THR	CYS	LYS
14	GLY	CYS	ALA	GLU	LYS	SER	ASP	TYR	ILE	ARG
15	LYS	ILE	ASN	GLU	LEU	MET	PRO	LYS	TYR	ALA
16	PRO	LYS	ALA	ALA	SER	ALA	ARG	THR	ASP	LEU

Samples:

sample_1: MANF, [U-98% 13C; U-98% 15N], 1 mM; H2O 93%; D2O 7%

sample_conditions_1: ionic strength: 50 mM; pH: 6.8; pressure: 1 atm; temperature: 308 K

Experiments:

Name	Sample	Sample state	Sample conditions
3D 1H-15N NOESY	sample_1	isotropic	sample_conditions_1
3D 1H-13C NOESY	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 HNCA	sample_1	isotropic	sample_conditions_1
3D HN(CO)CA	sample_1	isotropic	sample_conditions_1
3D HCAN	sample_1	isotropic	sample_conditions_1
3D HCA(CO)N	sample_1	isotropic	sample_conditions_1
3D HCCH-TOCSY	sample_1	isotropic	sample_conditions_1
3D HCCH-COSY	sample_1	isotropic	sample_conditions_1
3D H(CCO)NH	sample_1	isotropic	sample_conditions_1
3D C(CO)NH	sample_1	isotropic	sample_conditions_1
2D 1H-15N HSQC	sample_1	isotropic	sample_conditions_1
2D 1H-13C HSQC	sample_1	isotropic	sample_conditions_1
2D (HB)CB(CGCD)HD	sample_1	isotropic	sample_conditions_1
2D (HB)CB(CGCDCE)HE	sample_1	isotropic	sample_conditions_1

Software:

CYANA v2.0.26, P.GUNTERT ET AL. - automated NOE assignment

AMBER v8, Case, Darden, Cheatham, III, Simmerling, Wang, Duke, Luo, ... and Kollm - refinement, structure solution

NMR spectrometers:

Varian Unity Inova 600 MHz
Varian Unity Inova 800 MHz

Download HSQC peak lists in one of the following formats:
CSV: Backbone or all simulated shifts
SPARKY: Backbone or all simulated shifts

1	GLY	SER	LEU	ARG	PRO	GLY	ASP	CYS	GLU	VAL
2	CYS	ILE	SER	TYR	LEU	GLY	ARG	PHE	TYR	GLN
3	ASP	LEU	LYS	ASP	ARG	ASP	VAL	THR	PHE	SER
4	PRO	ALA	THR	ILE	GLU	ASN	GLU	LEU	ILE	LYS
5	PHE	CYS	ARG	GLU	ALA	ARG	GLY	LYS	GLU	ASN
6	ARG	LEU	CYS	TYR	TYR	ILE	GLY	ALA	THR	ASP
7	ASP	ALA	ALA	THR	LYS	ILE	ILE	ASN	GLU	VAL
8	SER	LYS	PRO	LEU	ALA	HIS	HIS	ILE	PRO	VAL
9	GLU	LYS	ILE	CYS	GLU	LYS	LEU	LYS	LYS	LYS
10	ASP	SER	GLN	ILE	CYS	GLU	LEU	LYS	TYR	ASP
11	LYS	GLN	ILE	ASP	LEU	SER	THR	VAL	ASP	LEU
12	LYS	LYS	LEU	ARG	VAL	LYS	GLU	LEU	LYS	LYS
13	ILE	LEU	ASP	ASP	TRP	GLY	GLU	THR	CYS	LYS
14	GLY	CYS	ALA	GLU	LYS	SER	ASP	TYR	ILE	ARG
15	LYS	ILE	ASN	GLU	LEU	MET	PRO	LYS	TYR	ALA
16	PRO	LYS	ALA	ALA	SER	ALA	ARG	THR	ASP	LEU

1	GLY	SER	LEU	ARG	PRO	GLY	ASP	CYS	GLU	VAL
2	CYS	ILE	SER	TYR	LEU	GLY	ARG	PHE	TYR	GLN
3	ASP	LEU	LYS	ASP	ARG	ASP	VAL	THR	PHE	SER
4	PRO	ALA	THR	ILE	GLU	ASN	GLU	LEU	ILE	LYS
5	PHE	CYS	ARG	GLU	ALA	ARG	GLY	LYS	GLU	ASN
6	ARG	LEU	CYS	TYR	TYR	ILE	GLY	ALA	THR	ASP
7	ASP	ALA	ALA	THR	LYS	ILE	ILE	ASN	GLU	VAL
8	SER	LYS	PRO	LEU	ALA	HIS	HIS	ILE	PRO	VAL
9	GLU	LYS	ILE	CYS	GLU	LYS	LEU	LYS	LYS	LYS
10	ASP	SER	GLN	ILE	CYS	GLU	LEU	LYS	TYR	ASP
11	LYS	GLN	ILE	ASP	LEU	SER	THR	VAL	ASP	LEU
12	LYS	LYS	LEU	ARG	VAL	LYS	GLU	LEU	LYS	LYS
13	ILE	LEU	ASP	ASP	TRP	GLY	GLU	THR	CYS	LYS
14	GLY	CYS	ALA	GLU	LYS	SER	ASP	TYR	ILE	ARG
15	LYS	ILE	ASN	GLU	LEU	MET	PRO	LYS	TYR	ALA
16	PRO	LYS	ALA	ALA	SER	ALA	ARG	THR	ASP	LEU

1	GLY	SER	LEU	ARG	PRO	GLY	ASP	CYS	GLU	VAL
2	CYS	ILE	SER	TYR	LEU	GLY	ARG	PHE	TYR	GLN
3	ASP	LEU	LYS	ASP	ARG	ASP	VAL	THR	PHE	SER
4	PRO	ALA	THR	ILE	GLU	ASN	GLU	LEU	ILE	LYS
5	PHE	CYS	ARG	GLU	ALA	ARG	GLY	LYS	GLU	ASN
6	ARG	LEU	CYS	TYR	TYR	ILE	GLY	ALA	THR	ASP
7	ASP	ALA	ALA	THR	LYS	ILE	ILE	ASN	GLU	VAL
8	SER	LYS	PRO	LEU	ALA	HIS	HIS	ILE	PRO	VAL
9	GLU	LYS	ILE	CYS	GLU	LYS	LEU	LYS	LYS	LYS
10	ASP	SER	GLN	ILE	CYS	GLU	LEU	LYS	TYR	ASP
11	LYS	GLN	ILE	ASP	LEU	SER	THR	VAL	ASP	LEU
12	LYS	LYS	LEU	ARG	VAL	LYS	GLU	LEU	LYS	LYS
13	ILE	LEU	ASP	ASP	TRP	GLY	GLU	THR	CYS	LYS
14	GLY	CYS	ALA	GLU	LYS	SER	ASP	TYR	ILE	ARG
15	LYS	ILE	ASN	GLU	LEU	MET	PRO	LYS	TYR	ALA
16	PRO	LYS	ALA	ALA	SER	ALA	ARG	THR	ASP	LEU