BMRB: 11090

Solution structure of the N-terminal PapD-like domain of HYDIN protein from human

Authors

Li, H., Tomizawa, T., Koshiba, S., Watanabe, S., Harada, T., Kigawa, T., Yokoyama, S.

Assembly

Hydrocephalus-inducing protein homolog

Entity

1. Hydrocephalus-inducing protein homolog (polymer, Thiol state: all free), 122 monomers, 13324.11 Da Detail

GSSGSSGTER EKFIVPIKAR GARAILDFPD KLNFSTCPVK YSTQKILLVR NIGNKNAVFH IKTCRPFSIE PAIGTLNVGE SMQLEVEFEP QSVGDHSGRL IVCYDTGEKV FVSLYGAAID MN

Formula weight

13324.11 Da

Source organism

Homo sapiens

Exptl. method

solution NMR

Refine. method

torsion angle dynamics

Data set

assigned_chemical_shifts

Chem. Shift Complete

Sequence coverage: 96.7 %, Completeness: 94.9 %, Completeness (bb): 94.2 % Detail

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Polymer type: polypeptide(L)

	Total	1H	13C	15N
All	94.9 % (1330 of 1401)	95.2 % (692 of 727)	94.5 % (519 of 549)	95.2 % (119 of 125)
Backbone	94.2 % (678 of 720)	93.6 % (233 of 249)	94.4 % (335 of 355)	94.8 % (110 of 116)
Sidechain	95.8 % (759 of 792)	96.0 % (459 of 478)	95.4 % (291 of 305)	100.0 % (9 of 9)
Aromatic	88.2 % (90 of 102)	94.1 % (48 of 51)	82.4 % (42 of 51)
Methyl	97.8 % (135 of 138)	97.1 % (67 of 69)	98.6 % (68 of 69)

1. PapD-like, UNP residues 182-296

GSSGSSGTER EKFIVPIKAR GARAILDFPD KLNFSTCPVK YSTQKILLVR NIGNKNAVFH IKTCRPFSIE PAIGTLNVGE SMQLEVEFEP QSVGDHSGRL IVCYDTGEKV FVSLYGAAID MN

Show sample condition

Sample

Solvent system 90% H2O, 10% D2O, Pressure 1 (±0.001) atm, Temperature 296 (±0.1) K, pH 7.0 (±0.05), Details 1.19mM sample PapD-like domain [U-15N,13C], 20mM d-Tris-HCl, 100mM NaCl, 1mM d-DTT, 0.02% NaN3, 90% H2O, 10% D2O

#	Name	Isotope labeling	Type	Concentration
1	PapD-like, UNP residues 182-296	[U-13C; U-15N]	protein	1.19 mM
2	TRIS	[U-2H]	buffer	20 mM
3	sodium chloride	natural abundance	salt	100 mM
4	DTT	[U-2H]	salt	1 mM
5	sodium azide	natural abundance	salt	0.02 %
6	H2O		solvent	90 %
7	D2O		solvent	10 %

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LACS Plot; CA

Referencing offset: -0.04 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; CB

Referencing offset: -0.04 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: -0.06 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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LACS Plot; CO

Referencing offset: 0.72 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: 2YS4, Strand ID: A Detail

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Release date

2011-01-18

Citation

Solution structure of the N-terminal PapD-like domain of HYDIN protein from human
Li, H., Tomizawa, T., Koshiba, S., Watanabe, S., Harada, T., Kigawa, T., Yokoyama, S.

Related entities 1. Hydrocephalus-inducing protein homolog, : 1 : 1 : 15 entities Detail

Interaction partners 1. Hydrocephalus-inducing protein homolog, : 1 interactors Detail

Experiments performed 2 experiments Detail