BMRB Entry 18098

Name: Solution NMR Structure of mitochondrial succinate dehydrogenase assembly factor 2 from Saccharomyces cerevisiae, Northeast Structural Genomics Consortium Target YT682A
Published: 2011-12-05

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PDB ID: 2lm4
Entry in NMR Restraints Grid
Validation report in NRG-CING
Chem Shift validation: AVS_anomalous, AVS_full, LACS, SPARTA
BMRB Entry DOI: doi:10.13018/BMR18098
MolProbity Validation Chart

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Nicholas Rego and David Koes
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Bioinformatics (2015) 31 (8): 1322-1324 doi:10.1093/bioinformatics/btu829

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Title:

Solution NMR Structure of mitochondrial succinate dehydrogenase assembly factor 2 from Saccharomyces cerevisiae, Northeast Structural Genomics Consortium Target YT682A

Deposition date:

2011-11-22

Original release date:

2011-12-05

Authors:

Eletsky, Alexander; Lee, Hsiau-Wei; Lee, Dan; Kohan, Eitan; Hamilton, Keith; Acton, Thomas; Xiao, Rong; Everett, John; Prestegard, James; Montelione, Gaetano; Szyperski, Thomas

Citation:

Citation: Eletsky, Alexander; Lee, Hsiau-Wei; Lee, Dan; Kohan, Eitan; Hamilton, Keith; Acton, Thomas; Xiao, Rong; Everett, John; Prestegard, James; Montelione, Gaetano; Szyperski, Thomas. "Solution NMR Structure of mitochondrial succinate dehydrogenase assembly factor 2 from Saccharomyces cerevisiae" To be published ., .-..

Assembly members:

Assembly members:
YT682A, polymer, 109 residues, 13193.156 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: pET15_NESG

Entity Sequences (FASTA):

Entity Sequences (FASTA):
YT682A: MGHHHHHHSHMIKRTNEPLD KKRARLIYQSRKRGILETDL LLSGFAAKYLKKMNEEELEE YDSLLNELDWDIYYWATKNF KTSPLPDKWANSKLLKQLQE FSENKEKEI

Data sets:

RDCs
- PEG
- GEL
assigned_chemical_shifts
- assigned_chem_shift_list_1
spectral_peak_list

Data type	Count
13C chemical shifts	488
15N chemical shifts	111
1H chemical shifts	784
residual dipolar couplings	152

Additional metadata:

Assembly
Samples and Experiments
Software
Spectrometers
Hide all

Assembly:

Entity Assembly ID	Entity Name	Entity ID
1	YT682A	1

Entities:

Entity 1, YT682A 109 residues - 13193.156 Da.

1

MET

GLY

HIS

SER

HIS

2

MET

ILE

LYS

ARG

THR

ASN

GLU

PRO

LEU

ASP

3

LYS

ARG

ALA

ARG

LEU

ILE

TYR

GLN

SER

4

ARG

LYS

ARG

GLY

ILE

LEU

GLU

THR

ASP

LEU

5

LEU

SER

GLY

PHE

ALA

LYS

TYR

LEU

6

LYS

MET

ASN

GLU

LEU

GLU

7

TYR

ASP

SER

LEU

ASN

GLU

LEU

ASP

TRP

8

ASP

ILE

TYR

TRP

ALA

THR

LYS

ASN

PHE

9

LYS

THR

SER

PRO

LEU

PRO

ASP

LYS

TRP

ALA

10

ASN

SER

LYS

LEU

LYS

GLN

LEU

GLN

GLU

11

PHE

SER

GLU

ASN

LYS

GLU

LYS

GLU

ILE

Samples:

NC5-GEL: YT682A, [5% 13C; U-100% 15N], 1.1 mM; MES 20 mM; sodium chloride 100 mM; calcium chloride 5 mM; DTT 10 mM; sodium azide 0.02%; DSS 50 uM

NC: YT682A, [U-100% 13C; U-100% 15N], 1.0 mM; MES 20 mM; sodium chloride 100 mM; calcium chloride 5 mM; DTT 10 mM; sodium azide 0.02%; DSS 50 uM

NC5: YT682A, [5% 13C; U-100% 15N], 1.1 mM; MES 20 mM; sodium chloride 100 mM; calcium chloride 5 mM; DTT 10 mM; sodium azide 0.02%; DSS 50 uM

NC5-PEG: YT682A, [5% 13C; U-100% 15N], 0.7 mM; MES 20 mM; sodium chloride 100 mM; calcium chloride 5 mM; DTT 10 mM; sodium azide 0.02%; DSS 50 uM; C12E5 PEG 4%; hexanol 4%

sample_conditions_1: pH: 6.5; pressure: 1 atm; temperature: 298 K

Experiments:

Name	Sample	Sample state	Sample conditions
2D 1H-15N HSQC	NC	isotropic	sample_conditions_1
2D 1H-13C CT-HSQC aliphatic	NC	isotropic	sample_conditions_1
3D HNCO	NC	isotropic	sample_conditions_1
3D CBCA(CO)NH	NC	isotropic	sample_conditions_1
3D HNCACB	NC	isotropic	sample_conditions_1
3D HBHA(CO)NH	NC	isotropic	sample_conditions_1
3D simutaneous 13C-aromatic,13C-aliphatic,15N edited 1H-1H NOESY	NC	isotropic	sample_conditions_1
3D HN(CA)CO	NC	isotropic	sample_conditions_1
2D 1H-13C CT-HSQC aromatic	NC	isotropic	sample_conditions_1
3D (H)CCH-TOCSY	NC	isotropic	sample_conditions_1
3D (H)CCH-COSY aliphatic	NC	isotropic	sample_conditions_1
3D (H)CCH-COSY aromatic	NC	isotropic	sample_conditions_1
1D 15N T1	NC	isotropic	sample_conditions_1
1D 15N T2	NC	isotropic	sample_conditions_1
2D 1H-13C CT-HSQC methyl	NC5	isotropic	sample_conditions_1
2D J-resolved 1H-15N HSQC	NC5	isotropic	sample_conditions_1
2D J-resolved 1H-15N HSQC	NC5-PEG	anisotropic	sample_conditions_1
2D J-resolved 1H-15N HSQC	NC5-GEL	anisotropic	sample_conditions_1

Software:

CNS v1.2, Brunger, Adams, Clore, Gros, Nilges and Read - refinement, structure solution, geometry optimization

CYANA v3.0, Guntert, Mumenthaler and Wuthrich - refinement, geometry optimization, structure solution

ASDP v1.0, Huang, Tejero, Powers and Montelione - data analysis, refinement

AutoAssign v2.3.0, Zimmerman, Moseley, Kulikowski and Montelione - data analysis, chemical shift assignment

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

XEASY v1.3.13, Bartels et al. - data analysis

PROSA v6.4, Guntert - processing

VNMRJ v2.2D, Varian - collection

TALOS+, Shen, Cornilescu, Delaglio and Bax - geometry optimization

CARA v1.8.4, Keller and Wuthrich - data analysis,peak picking,chemical shift assignment

NMR spectrometers:

Varian INOVA 750 MHz
Varian INOVA 600 MHz
Varian INOVA 600 MHz

PDB	2LM4
DBJ	GAA26256
EMBL	CAA99081 CAY86219
GB	AHY77242 AJP41474 AJT70893 AJT71384 AJT71872
REF	NP_014570
SP	A6ZND9 B3LIY9 Q08230
TPG	DAA10712
AlphaFold	A6ZND9 B3LIY9 Q08230