BMRB Entry 25379

Name: Resonance assignment of PsbP an extrinsic protein from photosystem II of Spinacia oleracea
Published: 2015-06-04

Chem Shift validation: AVS_anomalous, AVS_full, LACS
BMRB Entry DOI: doi:10.13018/BMR25379

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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:

Resonance assignment of PsbP an extrinsic protein from photosystem II of Spinacia oleracea

Deposition date:

2014-12-04

Original release date:

2015-06-04

Authors:

Walnerova, Adriana; Chandra, Kousik; Rathner, Petr; Hornicakova, Michaela; Schlagnitweit, Judith; Mueller, Norbert

Citation:

Citation: Walnerova, Adriana; Chandra, Kousik; Rathner, Petr; Hornicakova, Michaela; Schlagnitweit, Judith; Kohoutova, Jaroslava; Ettrich, Ruediger; Mueller, Norbert. "Resonance assignment of PsbP: an extrinsic protein from photosystem II of Spinacia oleracea" Biomol. NMR Assign. ., .-. (2015).

Assembly members:

Assembly members:
PsbP, polymer, 190 residues, Formula weight is not available

Natural source:

Natural source: Common Name: spinach Taxonomy ID: 3562 Superkingdom: Eukaryota Kingdom: Viridiplanta Genus/species: Spinacia oleracea

Experimental source:

Experimental source: Production method: recombinant technology Host organism: Escherichia coli Vector: JR3133

Entity Sequences (FASTA):

Entity Sequences (FASTA):
PsbP: GSHMAYGEAANVFGKPKKNT EFMPYNGDGFKLLVPSKWNP SKEKEFPGQVLRYEDNFDAT SNLSVLVQPTDKKSITDFGS PEDFLSQVDYLLGKQAYFGK TDSEGGFDSGVVASANVLES STPVVDGKQYYSITVLTRTA DGDEGGKHQVIAATVKDGKL YICKAQAGDKRWFKGAKKFV ESATSSFSVA

Data sets:

assigned_chemical_shifts
- assigned_chem_shift_list_1

Data type	Count
13C chemical shifts	749
15N chemical shifts	194
1H chemical shifts	1254

Additional metadata:

Assembly
Samples and Experiments
Software
Spectrometers
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Assembly:

Entity Assembly ID	Entity Name	Entity ID
1	PsbP	1

Entities:

Entity 1, PsbP 190 residues - Formula weight is not available

first four residues are from His-tag linker

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

Samples:

sample_1: PsbP, [U-13C; U-15N], 0.5 mM; Bis Tris 20 mM; EDTA 1 mM; sodium azide 50 uM; H2O 90%; D2O, [U-100% 2H], 10%; DSS, [U-99% 2H], 40 uM; Complete mini, EDTA-free 12 tablet/100mL

sample_conditions_1: ionic strength: 0.5 M; pH: 6; pressure: 1 atm; temperature: 313 K

Experiments:

Name	Sample	Sample state	Sample conditions
2D 1H-15N HSQC	sample_1	isotropic	sample_conditions_1
2D 1H-13C HSQC aliphatic	sample_1	isotropic	sample_conditions_1
2D 1H-13C HSQC aromatic	sample_1	isotropic	sample_conditions_1
3D HNCO	sample_1	isotropic	sample_conditions_1
3D CBCA(CO)NH	sample_1	isotropic	sample_conditions_1
3D HNCACB	sample_1	isotropic	sample_conditions_1
3D HNHA	sample_1	isotropic	sample_conditions_1
3D 1H-15N NOESY	sample_1	isotropic	sample_conditions_1
3D 1H-13C NOESY aliphatic	sample_1	isotropic	sample_conditions_1
3D 1H-13C NOESY aromatic	sample_1	isotropic	sample_conditions_1
3D HCCH-COSY	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
1D 1H	sample_1	isotropic	sample_conditions_1

Software:

CARA v1.8.4.2, Keller and Wuethrich - chemical shift assignment, peak picking

TOPSPIN v3.1, Bruker Biospin - collection, data analysis, processing

SPARKY v3.114, Goddard - data analysis

NMR spectrometers:

Bruker AVIII 700 MHz

PDB	2VU4 4RTI
EMBL	CAA29055
GB	KNA13956
PRF	1307179A
SP	P12302
AlphaFold	P12302

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

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