BMRB: 11293

Solution structure of the LIM domain of human Cysteine-rich protein 2

Authors

Yoneyama, M., Sasagawa, A., Tomizawa, T., Tochio, N., Koshiba, S., Inoue, M., Kigawa, T., Yokoyama, S.

Assembly

Cysteine-rich protein 2

Entity

1. LIM domain (polymer, Thiol state: all other bound), 76 monomers, 8045.089 Da Detail

GSSGSSGMAS KCPKCDKTVY FAEKVSSLGK DWHKFCLKCE RCSKTLTPGG HAEHDGKPFC HKPCYATLFG SGPSSG

2. ZN (non-polymer), 65.409 × 2 Da

Total weight

8175.9067 Da

Max. entity weight

8045.089 Da

Entity Connection

na 8 Detail

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ID	Type	Value order	Atom ID 1	Atom ID 2
1	na	sing	1:CYS12:SG	2:ZN1:ZN
2	na	sing	1:CYS15:SG	2:ZN1:ZN
3	na	sing	1:HIS33:ND1	2:ZN1:ZN
4	na	sing	1:CYS36:SG	2:ZN1:ZN
5	na	sing	1:CYS39:SG	2:ZN1:ZN
6	na	sing	1:CYS42:SG	2:ZN1:ZN
7	na	sing	1:CYS60:SG	2:ZN1:ZN
8	na	sing	1:CYS64:SG	2:ZN1:ZN

Source organism

Homo sapiens

Exptl. method

solution NMR

Refine. method

torsion angle dynamics

Data set

assigned_chemical_shifts

Chem. Shift Complete

Sequence coverage: 92.1 %, Completeness: 92.0 %, Completeness (bb): 89.5 % Detail

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Polymer type: polypeptide(L)

	Total	1H	13C	15N
All	92.0 % (766 of 833)	91.3 % (397 of 435)	93.6 % (305 of 326)	88.9 % (64 of 72)
Backbone	89.5 % (399 of 446)	87.3 % (137 of 157)	91.3 % (199 of 218)	88.7 % (63 of 71)
Sidechain	94.7 % (429 of 453)	93.5 % (260 of 278)	96.6 % (168 of 174)	100.0 % (1 of 1)
Aromatic	95.2 % (80 of 84)	95.2 % (40 of 42)	95.1 % (39 of 41)	100.0 % (1 of 1)
Methyl	92.5 % (37 of 40)	85.0 % (17 of 20)	100.0 % (20 of 20)

1. LIM domain

GSSGSSGMAS KCPKCDKTVY FAEKVSSLGK DWHKFCLKCE RCSKTLTPGG HAEHDGKPFC HKPCYATLFG SGPSSG

Show sample condition

Sample

Solvent system 90% H2O/10% D2O, Pressure 1 (±0.001) atm, Temperature 298 (±0.1) K, pH 7.0 (±0.05), Details 0.44mM LIM domain U-15N, {13C;} 20mM d-Tris-HCl {(pH7.0);} 100mM {NaCl;} 2mM {d-DTT;} 0.02% {NaN3;} 0.01mM {ZnCl2;} 10% D2O

#	Name	Isotope labeling	Type	Concentration
1	LIM domain	[U-13C; U-15N]	protein	0.44 mM
2	d-Tris-HCl	natural abundance	buffer	20 mM
3	NaCl	natural abundance	salt	100 mM
4	d-DTT	natural abundance	salt	2 mM
5	NaN3	natural abundance	salt	0.02 %
6	ZnCl2	natural abundance	salt	0.01 mM
7	H2O		solvent	90 %
8	D2O		solvent	10 %

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LACS Plot; CA

Referencing offset: -0.15 ppm, Outliers: 1 Detail

Show chemical shift referencing parameters

Chemical shift reference

Atom type	Mol. common name	Atom group	Value	Ref. method	Ref. type	Shift ratio
13C	DSS	methyl protons	0.0 ppm	null	indirect	0.2514495
1H	DSS	methyl protons	0.0 ppm	null	indirect	1.0
15N	DSS	methyl protons	0.0 ppm	null	indirect	0.1013291

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LACS Plot; CB

Referencing offset: -0.15 ppm, Outliers: 1 Detail

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Chemical shift reference

Atom type	Mol. common name	Atom group	Value	Ref. method	Ref. type	Shift ratio
13C	DSS	methyl protons	0.0 ppm	null	indirect	0.2514495
1H	DSS	methyl protons	0.0 ppm	null	indirect	1.0
15N	DSS	methyl protons	0.0 ppm	null	indirect	0.1013291

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LACS Plot; HA

Referencing offset: 0.08 ppm, Outliers: 4 Detail

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Chemical shift reference

Atom type	Mol. common name	Atom group	Value	Ref. method	Ref. type	Shift ratio
13C	DSS	methyl protons	0.0 ppm	null	indirect	0.2514495
1H	DSS	methyl protons	0.0 ppm	null	indirect	1.0
15N	DSS	methyl protons	0.0 ppm	null	indirect	0.1013291

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LACS Plot; CO

Referencing offset: 0.34 ppm, Outliers: 2 Detail

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Chemical shift reference

Atom type	Mol. common name	Atom group	Value	Ref. method	Ref. type	Shift ratio
13C	DSS	methyl protons	0.0 ppm	null	indirect	0.2514495
1H	DSS	methyl protons	0.0 ppm	null	indirect	1.0
15N	DSS	methyl protons	0.0 ppm	null	indirect	0.1013291

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Protein Blocks Logo

Calculated from 20 models in PDB: 2CU8, Strand ID: A Detail

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Release date

2011-08-18

Citation

Solution structure of the LIM domain of human Cysteine-rich protein 2
Yoneyama, M., Sasagawa, A., Tomizawa, T., Tochio, N., Koshiba, S., Inoue, M., Kigawa, T., Yokoyama, S.

Related entities 1. LIM domain, : 1 : 3 : 205 entities Detail

Interaction partners 1. LIM domain, : 15 interactors Detail

Experiments performed 2 experiments Detail