BMRB Entry 6572

Name: Backbone Amide Assignments of the Cytochrome c3 in Fully Oxidized State from D. vulgaris Miyazaki F
Published: 2007-01-29

Chem Shift validation: AVS_anomalous, AVS_full
BMRB Entry DOI: doi:10.13018/BMR6572

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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 Amide Assignments of the Cytochrome c3 in Fully Oxidized State from D. vulgaris Miyazaki F

Deposition date:

2005-03-29

Original release date:

2007-01-29

Authors:

Yahata, Naoki; Saitoh, Takashi; Takayama, Yuki; Ozawa, Kiyoshi; Ogata, Hideaki; Higuchi, Yoshiki; Akutsu, Hideo

Citation:

Citation: Yahata, Naoki; Saitoh, Takashi; Takayama, Yuki; Ozawa, Kiyoshi; Ogata, Hideaki; Higuchi, Yoshiki; Akutsu, Hideo. "Redox Interaction of Cytochrome c(3) with [NiFe] Hydrogenase from Desulfovibrio vulgaris Miyazaki F." Biochemistry 45, 1653-1662 (2006).
PubMed: 16460012

Assembly members:

Assembly members:
cytochrome c3, polymer, 107 residues, Formula weight is not available
HEM, non-polymer, 616.487 Da.

Natural source:

Natural source: Common Name: D. vulgaris Miyazaki F Taxonomy ID: 883 Superkingdom: Bacteria Kingdom: not available Genus/species: Desulfovibrio vulgaris

Experimental source:

Experimental source: Production method: Purified from natural source and recombinant technology

Entity Sequences (FASTA):

Entity Sequences (FASTA):
cytochrome c3: APKAPADGLKMDKTKQPVVF NHSTHKAVKCGDCHHPVNGK EDYQKCATAGCHDNMDKKDK SAKGYYHAMHDKGTKFKSCV GCHLETAGADAAKKKELTGC KGSKCHS

Data sets:

assigned_chemical_shifts
- chem_shift_list_1

Data type	Count
15N chemical shifts	101
1H chemical shifts	101

Additional metadata:

Assembly
Samples and Experiments
Software
Spectrometers
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Assembly:

Entity Assembly ID	Entity Name	Entity ID
1	Cytochrome c3	1
2	PROTOPORPHYRIN IX CONTAINING FE 1	2
3	PROTOPORPHYRIN IX CONTAINING FE 2	2
4	PROTOPORPHYRIN IX CONTAINING FE 3	2
5	PROTOPORPHYRIN IX CONTAINING FE 4	2

Entities:

Entity 1, Cytochrome c3 107 residues - Formula weight is not available

1

ALA

PRO

LYS

ALA

PRO

ALA

ASP

GLY

LEU

LYS

2

MET

ASP

LYS

THR

LYS

GLN

PRO

VAL

PHE

3

ASN

HIS

SER

THR

HIS

LYS

ALA

VAL

LYS

CYS

4

GLY

ASP

CYS

HIS

PRO

VAL

ASN

GLY

LYS

5

GLU

ASP

TYR

GLN

LYS

CYS

ALA

THR

ALA

GLY

6

CYS

HIS

ASP

ASN

MET

ASP

LYS

ASP

LYS

7

SER

ALA

LYS

GLY

TYR

HIS

ALA

MET

HIS

8

ASP

LYS

GLY

THR

LYS

PHE

LYS

SER

CYS

VAL

9

GLY

CYS

HIS

LEU

GLU

THR

ALA

GLY

ALA

ASP

10

ALA

LYS

GLU

LEU

THR

GLY

CYS

11

LYS

GLY

SER

LYS

CYS

HIS

SER

Entity 2, PROTOPORPHYRIN IX CONTAINING FE 1 - C34 H32 Fe N4 O4 - 616.487 Da.

1

HEM

Samples:

sample_1: cytochrome c3, [U-90% 15N], 2 ± 0.1 mM; PROTOPORPHYRIN IX CONTAINING FE 8 ± 0.1 mM; sodium-phosphate 30 ± 3 mM; deuterium oxide 10%; water 90%

conditions_1: pH: 6.0

conditions_2: pH: 7.0; temperature: 303 K

Experiments:

Name	Sample	Sample state	Sample conditions
1H-15N HSQC	sample_1	not available	not available
1H-15N NOESY-HSQC	sample_1	not available	not available
1H-15N TOCSY-HSQC	sample_1	not available	not available

Software:

No software information available

NMR spectrometers:

Bruker DRX 600.13 MHz

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