BMRB Entry 19526

Name: Solution NMR structure of SLED domain of Scml2
Published: 2014-04-22

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PDB ID: 2mem
Entry in NMR Restraints Grid
Validation report in NRG-CING
Chem Shift validation: AVS_full, LACS, SPARTA
BMRB Entry DOI: doi:10.13018/BMR19526
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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:

Solution NMR structure of SLED domain of Scml2

Deposition date:

2013-09-24

Original release date:

2014-04-22

Authors:

Bezsonova, Irina

Citation:

Citation: Bezsonova, Irina. "Solution NMR Structure of the DNA-binding Domain from Scml2 (Sex Comb onMidleg-like 2)" J. Biol. Chem. ., .-. (2014).
PubMed: 24727478

Assembly members:

Assembly members:
SLED_Scml2, polymer, 119 residues, 13112.994 Da.

Natural source:

Natural source: Common Name: human Taxonomy ID: 9606 Superkingdom: Eukaryota Kingdom: Metazoa Genus/species: Homo sapiens

Experimental source:

Experimental source: Production method: recombinant technology Host organism: Escherichia coli Vector: pET28b

Entity Sequences (FASTA):

Entity Sequences (FASTA):
SLED_Scml2: GSHMMSTVCVYVNKHGNFGP HLDPKRIQQLPDHFGPGPVN VVLRRIVQACVDCALETKTV FGYLKPDNRGGEVITASFDG ETHSIQLPPVNSASFALRFL ENFCHSLQCDNLLSSQPFS

Data sets:

assigned_chemical_shifts
- assigned_chem_shift_list_1

Data type	Count
13C chemical shifts	468
15N chemical shifts	115
1H chemical shifts	759

Additional metadata:

Assembly
Samples and Experiments
Software
Spectrometers
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Assembly:

Entity Assembly ID	Entity Name	Entity ID
1	SLED domain of Scml2	1

Entities:

Entity 1, SLED domain of Scml2 119 residues - 13112.994 Da.

1

GLY

SER

HIS

MET

SER

THR

VAL

CYS

VAL

2

TYR

VAL

ASN

LYS

HIS

GLY

ASN

PHE

GLY

PRO

3

HIS

LEU

ASP

PRO

LYS

ARG

ILE

GLN

LEU

4

PRO

ASP

HIS

PHE

GLY

PRO

GLY

PRO

VAL

ASN

5

VAL

LEU

ARG

ILE

VAL

GLN

ALA

CYS

6

VAL

ASP

CYS

ALA

LEU

GLU

THR

LYS

THR

VAL

7

PHE

GLY

TYR

LEU

LYS

PRO

ASP

ASN

ARG

GLY

8

GLY

GLU

VAL

ILE

THR

ALA

SER

PHE

ASP

GLY

9

GLU

THR

HIS

SER

ILE

GLN

LEU

PRO

VAL

10

ASN

SER

ALA

SER

PHE

ALA

LEU

ARG

PHE

LEU

11

GLU

ASN

PHE

CYS

HIS

SER

LEU

GLN

CYS

ASP

12

ASN

LEU

SER

GLN

PRO

PHE

SER

Samples:

sample_1: SLED_Scml2, [U-100% 13C; U-100% 15N], 0.3 – 1.0 mM; HEPES 50 mM; NaCl 250 mM; DTT 2 mM; H2O 90%; D2O, [U-100% 2H], 10%

sample_conditions_1: ionic strength: 250 mM; pH: 7.2; pressure: 1 atm; temperature: 273 K

Experiments:

Name	Sample	Sample state	Sample conditions
2D 1H-15N HSQC	sample_1	isotropic	sample_conditions_1
2D 1H-13C HSQC	sample_1	isotropic	sample_conditions_1
3D CBCA(CO)NH	sample_1	isotropic	sample_conditions_1
3D HNCO	sample_1	isotropic	sample_conditions_1
3D HNCA	sample_1	isotropic	sample_conditions_1
3D HNCACB	sample_1	isotropic	sample_conditions_1
3D HBHA(CO)NH	sample_1	isotropic	sample_conditions_1
3D HCCH-TOCSY	sample_1	isotropic	sample_conditions_1
3D 1H-15N NOESY	sample_1	isotropic	sample_conditions_1
3D 1H-13C NOESY	sample_1	isotropic	sample_conditions_1

Software:

CYANA, Guntert, Mumenthaler and Wuthrich - structure solution

CNS, Brunger, Adams, Clore, Gros, Nilges and Read - refinement

SPARKY, Goddard - chemical shift assignment, data analysis, peak picking

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

TALOS, Cornilescu, Delaglio and Bax - data analysis

NMR spectrometers:

Varian INOVA 800 MHz
Varian INOVA 600 MHz

PDB	2MEM
DBJ	BAG61234 BAG64181
EMBL	CAB38943
GB	AAH51913 AAH64617 ABM54391 ABM67362 EAW98937
REF	NP_001248288 NP_006080 XP_003819585 XP_003924181 XP_004063918
SP	Q9UQR0
AlphaFold	Q9UQR0