BMRB Entry 17845

Name: Backbone 1H, 13C, and 15N chemical shift assignments of oxidized yeast iso-1 cytochrome c
Published: 2012-03-14

Chem Shift validation: AVS_full
BMRB Entry DOI: doi:10.13018/BMR17845

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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:

Backbone 1H, 13C, and 15N chemical shift assignments of oxidized yeast iso-1 cytochrome c

Deposition date:

2011-08-09

Original release date:

2012-03-14

Authors:

Volkov, Alexander; Van de Water, Karen; Vanwetswinkel, Sophie; van Nuland, Nico

Citation:

Citation: Volkov, Alexander; Vanwetswinkel, Sophie; Van de Water, Karen; van Nuland, Nico. "Redox-dependent conformational changes in eukaryotic cytochromes revealed by paramagnetic NMR spectroscopy" J. Biomol. NMR 52, 245-256 (2012).
PubMed: 22318343

Assembly members:

Assembly members:
yCc, polymer, 108 residues, Formula weight is not available
HEC, non-polymer, 618.503 Da.

Natural source:

Natural source: Common Name: baker's yeast Taxonomy ID: 4932 Superkingdom: Eukaryota Kingdom: Fungi Genus/species: Saccharomyces cerevisiae

Experimental source:

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

Entity Sequences (FASTA):

Entity Sequences (FASTA):
yCc: AEFKAGSAKKGATLFKTRCL QCHTVEKGGPHKVGPNLHGI FGRHSGQAEGYSYTDANIKK NVLWDENNMSEYLTNPKKYI PGTKMAFGGLKKEKDRNDLI TYLKKATE

Data sets:

assigned_chemical_shifts
- yCc_ox_high_salt
- yCc_ox_low_salt

Data type	Count
13C chemical shifts	310
15N chemical shifts	221
1H chemical shifts	239

Additional metadata:

Assembly
Samples and Experiments
Software
Spectrometers
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Assembly:

Entity Assembly ID	Entity Name	Entity ID
1	yCc	1
2	HEC	2

Entities:

Entity 1, yCc 108 residues - Formula weight is not available

1

ALA

GLU

PHE

LYS

ALA

GLY

SER

ALA

LYS

2

GLY

ALA

THR

LEU

PHE

LYS

THR

ARG

CYS

LEU

3

GLN

CYS

HIS

THR

VAL

GLU

LYS

GLY

PRO

4

HIS

LYS

VAL

GLY

PRO

ASN

LEU

HIS

GLY

ILE

5

PHE

GLY

ARG

HIS

SER

GLY

GLN

ALA

GLU

GLY

6

TYR

SER

TYR

THR

ASP

ALA

ASN

ILE

LYS

7

ASN

VAL

LEU

TRP

ASP

GLU

ASN

MET

SER

8

GLU

TYR

LEU

THR

ASN

PRO

LYS

TYR

ILE

9

PRO

GLY

THR

LYS

MET

ALA

PHE

GLY

LEU

10

LYS

GLU

LYS

ASP

ARG

ASN

ASP

LEU

ILE

11

THR

TYR

LEU

LYS

ALA

THR

GLU

Entity 2, HEC - C34 H34 Fe N4 O4 - 618.503 Da.

1

HEC

Samples:

sample_1: yCc, [U-100% 13C; U-100% 15N], 1 mM; sodium phosphate 20 mM; sodium chloride 100 mM; H2O 95%; D2O 5%

sample_2: yCc, [U-100% 13C; U-100% 15N], 1 mM; sodium phosphate 20 mM; H2O 95%; D2O 5%

sample_conditions_1: ionic strength: 115 mM; pH: 6.0; pressure: 1 atm; temperature: 303 K

sample_conditions_2: ionic strength: 15 mM; pH: 6.0; pressure: 1 atm; temperature: 303 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 HNCO	sample_1	isotropic	sample_conditions_1
2D 1H-15N HSQC	sample_2	isotropic	sample_conditions_2
3D NOESY-HSQC	sample_2	isotropic	sample_conditions_2

Software:

NMRPipe, Delaglio, Grzesiek, Vuister, Zhu, Pfeifer and Bax - processing

Analysis, CCPN - chemical shift assignment

NMR spectrometers:

Varian Uniform NMR System 800 MHz
Varian Uniform NMR System 600 MHz

BMRB	131 15301 1719 1720 17846 17903 17904 190 19638 345 346
PDB	1CHH 1CHI 1CHJ 1CRG 1CRH 1CRI 1CRJ 1CSU 1CSV 1CSW 1CSX 1CTY 1CTZ 1IRV 1IRW 1KYO 1LMS 1NMI 1S6V 1U74 1YCC 1YFC 1YIC 2B0Z 2B10 2B11 2B12 2BCN 2GB8 2HV4 2JQR 2JTI 2LIR 2LIT 2MHM 2N18 2ORL 2PCC 2YCC 3CX5 3TYI 4MU8 4N0K 4P4Q 4YE1
DBJ	GAA24396
EMBL	CAA24605 CAA89576 CAY80764
GB	AAA62856 AAA88751 AAB59344 AHY79034 AJP39735
PRF	1409323A
REF	NP_012582
SP	P00044
TPG	DAA08835
AlphaFold	P00044