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BMRB: 18670

2LXB

Solution structure of the Sgt2 homodimerization domain

Authors

Chartron, J.W., VanderVelde, D.G., Clemons, W.M.

Assembly

Sgt2 homodimerization domain

Entity

1. Sgt2 homodimerization domain (polymer), 74 monomers, 7882.664 × 2 Da Detail

SVDSASKEEI AALIVNYFSS IVEKKEISED GADSLNVAMD CISEAFGFER EAVSGILGKS EFKGQHLADI LNSA

Total weight

15765.328 Da

Max. entity weight

7882.664 Da

Source organism

Saccharomyces cerevisiae

Exptl. method

solution NMR

Refine. method

simulated annealing

Data set

assigned_chemical_shifts

Chem. Shift Complete

Sequence coverage: 97.3 %, Completeness: 88.0 %, Completeness (bb): 91.9 % Detail

Polymer type: polypeptide(L)

	Total	¹H	¹³C	¹⁵N
All	88.0 % (714 of 811)	86.5 % (359 of 415)	89.3 % (284 of 318)	91.0 % (71 of 78)
Backbone	91.9 % (408 of 444)	92.8 % (142 of 153)	91.7 % (199 of 217)	90.5 % (67 of 74)
Sidechain	85.1 % (371 of 436)	82.8 % (217 of 262)	88.2 % (150 of 170)	100.0 % (4 of 4)
Aromatic	86.5 % (45 of 52)	88.5 % (23 of 26)	84.6 % (22 of 26)
Methyl	84.9 % (73 of 86)	83.7 % (36 of 43)	86.0 % (37 of 43)

1. Sgt2

SVDSASKEEI AALIVNYFSS IVEKKEISED GADSLNVAMD CISEAFGFER EAVSGILGKS EFKGQHLADI LNSA

Show sample condition

Sample #1

Solvent system 90% H2O/10% D2O, Pressure 1 atm, Temperature 297.5 K, pH 6.1, Details Sample is a symmetric homodimer. 2 mM monomer, or 1 mM dimer, were used.

#	Name	Isotope labeling	Concentration
1	Sgt2	[U-100% 13C; U-100% 15N]	2 mM
2	sodium phosphate	natural abundance	20 mM
3	sodium azide	natural abundance	0.02 %
4	H2O	natural abundance	90 %
5	D2O	natural abundance	10 %

Sample #2

Solvent system 90% H2O/10% D2O, Pressure 1 atm, Temperature 297.5 K, pH 6.1, Details Sample is a symmetric homodimer. 2 mM monomer, or 1 mM dimer, were used.

#	Name	Isotope labeling	Concentration
6	Sgt2	[U-100% 15N]	2 mM
7	sodium phosphate	natural abundance	20 mM
8	sodium azide	natural abundance	0.02 %
9	Polyacrylamide	natural abundance	7 %
10	H2O	natural abundance	90 %
11	D2O	natural abundance	10 %

Sample #3

Solvent system 90% H2O/10% D2O, Pressure 1 atm, Temperature 297.5 K, pH 6.1, Details Sample is a symmetric homodimer. 2 mM monomer, or 1 mM dimer, were used.

#	Name	Isotope labeling	Concentration
12	Sgt2	[U-100% 15N]	2 mM
13	sodium phosphate	natural abundance	20 mM
14	sodium azide	natural abundance	0.02 %
15	H2O	natural abundance	90 %
16	D2O	natural abundance	10 %

LACS Plot; CA

Atom type	Mol. common name	Atom group	Value	Ref. method	Ref. type	Shift ratio
¹³C	water	protons	4.778 ppm	internal	indirect	0.251457
¹H	water	protons	4.778 ppm	internal	direct	1.0
¹⁵N	water	protons	4.778 ppm	internal	indirect	0.1013401

Referencing offset: -0.28 ppm, Outliers: 2 Detail

LACS Plot; CB

Atom type	Mol. common name	Atom group	Value	Ref. method	Ref. type	Shift ratio
¹³C	water	protons	4.778 ppm	internal	indirect	0.251457
¹H	water	protons	4.778 ppm	internal	direct	1.0
¹⁵N	water	protons	4.778 ppm	internal	indirect	0.1013401

Referencing offset: -0.28 ppm, Outliers: 2 Detail

LACS Plot; HA

Atom type	Mol. common name	Atom group	Value	Ref. method	Ref. type	Shift ratio
¹³C	water	protons	4.778 ppm	internal	indirect	0.251457
¹H	water	protons	4.778 ppm	internal	direct	1.0
¹⁵N	water	protons	4.778 ppm	internal	indirect	0.1013401

Referencing offset: 0.02 ppm, Outliers: 1 Detail

LACS Plot; CO

Atom type	Mol. common name	Atom group	Value	Ref. method	Ref. type	Shift ratio
¹³C	water	protons	4.778 ppm	internal	indirect	0.251457
¹H	water	protons	4.778 ppm	internal	direct	1.0
¹⁵N	water	protons	4.778 ppm	internal	indirect	0.1013401

Referencing offset: 0.06 ppm, Outliers: 3 Detail

Protein Blocks Logo

Calculated from 10 models in PDB: 2LXB, Strand ID: A, B Detail

Release date

2012-11-19

Citation

Structures of the Sgt2/SGTA dimerization domain with the Get5/UBL4A UBL domain reveal an interaction that forms a conserved dynamic interface
Chartron, J.W., VanderVelde, D.G., Clemons, W.M.
Cell Rep. (2012), 2, 1620-1632, PubMed 23142665 , DOI 10.1016/j.celrep.2012.10.010 , Abstract

Entries sharing articles BMRB: 2 entries Detail

  BMRB: 18669 released on 2012-11-19
    Title Solution structure of the Get5 ubiquitin-like domain
  BMRB: 18671 released on 2012-11-19
    Title Solution structure of the complex between the Sgt2 homodimerization domain and the Get5 UBL domain

Related entities 1. Sgt2 homodimerization domain, : 1 : 1 : 5 : 5 entities Detail

Interaction partners 1. Sgt2 homodimerization domain, : 20 interactors Detail

More details for 20 interactors identified by 8 citations

Experiments performed 16 experiments Detail

1 2D 1H-15N HSQC