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BMRB: 11030

2RNO

Solution Structure of the N-terminal SAP Domain of SUMO E3 Ligases from Oryza sativa

Authors

Suzuki, R., Shindo, H., Tase, A., Yamazaki, T.

Assembly

Siz1 1-105

Entity

1. Siz1 1-105 (polymer, Thiol state: all free), 110 monomers, 12365.95 Da Detail

GSHMASADLV SSCKDKLAYF RIKELKDILN QLGLPKQGKK QDLIDRVLAL LTDEQGQRHH GWGRKNSLTK EAVAKIVDDT YRKMQIQCAP DLATRSHSGS DFSFRPIEEA

Formula weight

12365.95 Da

Source organism

Oryza sativa Japonica Group

Exptl. method

solution NMR

Refine. method

torsion angle dynamics

Data set

assigned_chemical_shifts

Chem. Shift Complete1

Sequence coverage: 100.0 %, Completeness: 93.5 %, Completeness (bb): 99.8 % Detail

Polymer type: polypeptide(L)

	Total	¹H	¹³C	¹⁵N
All	93.5 % (1204 of 1288)	92.9 % (629 of 677)	92.7 % (458 of 494)	100.0 % (117 of 117)
Backbone	99.8 % (653 of 654)	100.0 % (224 of 224)	99.7 % (322 of 323)	100.0 % (107 of 107)
Sidechain	88.7 % (654 of 737)	89.4 % (405 of 453)	87.2 % (239 of 274)	100.0 % (10 of 10)
Aromatic	29.7 % (22 of 74)	27.0 % (10 of 37)	30.6 % (11 of 36)	100.0 % (1 of 1)
Methyl	97.4 % (111 of 114)	98.2 % (56 of 57)	96.5 % (55 of 57)

1. Siz1 1-105

GSHMASADLV SSCKDKLAYF RIKELKDILN QLGLPKQGKK QDLIDRVLAL LTDEQGQRHH GWGRKNSLTK EAVAKIVDDT YRKMQIQCAP DLATRSHSGS DFSFRPIEEA

Show sample condition

Sample

Solvent system 92% H2O/8% D2O, Pressure 1 atm, Temperature 283 K, pH 6.1

#	Name	Isotope labeling	Concentration
1	Siz1 1-105	[U-13C; U-15N]	0.7 mM
2	potassium phosphate	natural abundance	20 mM
3	sodium chloride	natural abundance	300 mM
4	DTT	natural abundance	2 mM
5	H2O	natural abundance	92 %
6	D2O		8 %

Chem. Shift Complete2

Sequence coverage: 100.0 %, Completeness: 92.7 %, Completeness (bb): 98.3 % Detail

Polymer type: polypeptide(L)

	Total	¹H	¹³C	¹⁵N
All	92.7 % (2388 of 2576)	91.9 % (1245 of 1354)	92.5 % (914 of 988)	97.9 % (229 of 234)
Backbone	98.3 % (1286 of 1308)	97.8 % (438 of 448)	98.9 % (639 of 646)	97.7 % (209 of 214)
Sidechain	88.5 % (1305 of 1474)	89.1 % (807 of 906)	87.2 % (478 of 548)	100.0 % (20 of 20)
Aromatic	45.9 % (68 of 148)	48.6 % (36 of 74)	41.7 % (30 of 72)	100.0 % (2 of 2)
Methyl	96.1 % (219 of 228)	97.4 % (111 of 114)	94.7 % (108 of 114)

1. Siz1 1-105

GSHMASADLV SSCKDKLAYF RIKELKDILN QLGLPKQGKK QDLIDRVLAL LTDEQGQRHH GWGRKNSLTK EAVAKIVDDT YRKMQIQCAP DLATRSHSGS DFSFRPIEEA

Show sample condition

Sample

Solvent system 100% D2O, Pressure 1 atm, Temperature 283 K, pH 6.1

#	Name	Isotope labeling	Concentration
7	Siz1 1-105	[U-13C; U-15N]	0.7 mM
8	potassium phosphate	natural abundance	20 mM
9	sodium chloride	natural abundance	300 mM
10	DTT	natural abundance	2 mM
11	D2O		100 %

LACS Plot; CA

Atom type	Mol. common name	Atom group	Ref. method	Ref. type	Shift ratio
¹³C	TSP	methyl carbons	external	direct	1.0
¹H	TSP	methyl protons	external	indirect	1.0
¹⁵N	ammonium hydroxide	nitrogen	external	direct	1.0

Referencing offset: 0.39 ppm, Outliers: 1 Detail

LACS Plot; CB

Atom type	Mol. common name	Atom group	Ref. method	Ref. type	Shift ratio
¹³C	TSP	methyl carbons	external	direct	1.0
¹H	TSP	methyl protons	external	indirect	1.0
¹⁵N	ammonium hydroxide	nitrogen	external	direct	1.0

Referencing offset: 0.39 ppm, Outliers: 1 Detail

LACS Plot; HA

Atom type	Mol. common name	Atom group	Ref. method	Ref. type	Shift ratio
¹³C	TSP	methyl carbons	external	direct	1.0
¹H	TSP	methyl protons	external	indirect	1.0
¹⁵N	ammonium hydroxide	nitrogen	external	direct	1.0

Referencing offset: 0.08 ppm, Outliers: 1 Detail

LACS Plot; CO

Atom type	Mol. common name	Atom group	Ref. method	Ref. type	Shift ratio
¹³C	TSP	methyl carbons	external	direct	1.0
¹H	TSP	methyl protons	external	indirect	1.0
¹⁵N	ammonium hydroxide	nitrogen	external	direct	1.0

Referencing offset: 0.38 ppm, Outliers: 1 Detail

Protein Blocks Logo

Calculated from 20 models in PDB: 2RNO, Strand ID: A Detail

Release date

2008-11-10

Citation

Solution structures and DNA binding properties of the N-terminal SAP domains of SUMO E3 ligases from Saccharomyces cerevisiae and Oryza sativa
Suzuki, R., Shindo, H., Tase, A., Kikuchi, Y., Shimizu, M., Yamazaki, T.
Proteins (2009), 75, 336-347, PubMed 18831036 , DOI 10.1002/prot.22243 , Abstract

Entries sharing articles BMRB: 1, Swiss-Prot: 1 entries Detail

  BMRB: 11029 released on 2008-11-10
    Title Solution Structure of the N-terminal SAP Domain of SUMO E3 Ligases from Saccharomyces cerevisiae
  Swiss-Prot: Q6L4L4 released on 2009-09-22
    Title SIZ1_ORYSJ Entity E3 SUMO-protein ligase SIZ1

Related entities 1. Siz1 1-105, : 1 : 2 : 14 entities Detail

Experiments performed 10 experiments Detail

1 2D 1H-15N HSQC