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BMRB: 15864

2K6B

Solution structure of 1-112 fragment of human programmed cell death 5 protein

Authors

Feng, Y., Yao, H., Liu, D., Wang, J.

Assembly

pdcd5

Entity

1. pdcd5 (polymer, Thiol state: not present), 113 monomers, 12672.17 Da Detail

GSADEELEAL RRQRLAELQA KHGDPGDAAQ QEAKHREAEM RNSILAQVLD QSARARLSNL ALVKPEKTKA VENYLIQMAR YGQLSEKVSE QGLIEILKKV SQQTEKTTTV KFN

Formula weight

12672.17 Da

Source organism

Homo sapiens

Exptl. method

solution NMR

Refine. method

molecular dynamics, simulated annealing

Data set

assigned_chemical_shifts

Chem. Shift Complete

Sequence coverage: 99.1 %, Completeness: 92.6 %, Completeness (bb): 98.1 % Detail

Polymer type: polypeptide(L)

	Total	¹H	¹³C	¹⁵N
All	92.6 % (1222 of 1320)	90.4 % (630 of 697)	96.0 % (477 of 497)	91.3 % (115 of 126)
Backbone	98.1 % (661 of 674)	96.1 % (220 of 229)	99.4 % (332 of 334)	98.2 % (109 of 111)
Sidechain	88.7 % (669 of 754)	87.6 % (410 of 468)	93.4 % (253 of 271)	40.0 % (6 of 15)
Aromatic	47.1 % (16 of 34)	47.1 % (8 of 17)	47.1 % (8 of 17)
Methyl	93.8 % (122 of 130)	93.8 % (61 of 65)	93.8 % (61 of 65)

1. pdcd5

GSADEELEAL RRQRLAELQA KHGDPGDAAQ QEAKHREAEM RNSILAQVLD QSARARLSNL ALVKPEKTKA VENYLIQMAR YGQLSEKVSE QGLIEILKKV SQQTEKTTTV KFN

Show sample condition

Sample #1

Solvent system 90% H2O/10% D2O, Pressure 1 atm, Temperature 308 K, pH 4.7

#	Name	Isotope labeling	Concentration
1	pdcd5	[U-13C; U-15N]	1.0-2.0 mM
2	acetic acid	[U-2H]	100 mM
3	sodium chloride	natural abundance	100 mM
4	DSS	natural abundance	0.01 %
5	sodium azide	natural abundance	0.01 %

Sample #2

Solvent system 100% D2O, Pressure 1 atm, Temperature 308 K, pH 4.7

#	Name	Isotope labeling	Concentration
6	pdcd5	[U-13C]	1.0-2.0 mM
7	acetic acid	[U-2H]	100 mM
8	sodium chloride	natural abundance	100 mM
9	DSS	natural abundance	0.01 %
10	sodium azide	natural abundance	0.01 %

LACS Plot; CA

Atom type	Mol. common name	Atom group	Ref. method	Ref. type	Shift ratio
¹³C	DSS	methyl protons	na	indirect	0.2514495
¹H	DSS	methyl protons	internal	direct	1.0
¹⁵N	DSS	methyl protons	na	indirect	0.1013291

Referencing offset: -0.06 ppm, Outliers: 1 Detail

LACS Plot; CB

Atom type	Mol. common name	Atom group	Ref. method	Ref. type	Shift ratio
¹³C	DSS	methyl protons	na	indirect	0.2514495
¹H	DSS	methyl protons	internal	direct	1.0
¹⁵N	DSS	methyl protons	na	indirect	0.1013291

Referencing offset: -0.06 ppm, Outliers: 1 Detail

LACS Plot; HA

Atom type	Mol. common name	Atom group	Ref. method	Ref. type	Shift ratio
¹³C	DSS	methyl protons	na	indirect	0.2514495
¹H	DSS	methyl protons	internal	direct	1.0
¹⁵N	DSS	methyl protons	na	indirect	0.1013291

Referencing offset: -0.06 ppm, Outliers: 1 Detail

LACS Plot; CO

Atom type	Mol. common name	Atom group	Ref. method	Ref. type	Shift ratio
¹³C	DSS	methyl protons	na	indirect	0.2514495
¹H	DSS	methyl protons	internal	direct	1.0
¹⁵N	DSS	methyl protons	na	indirect	0.1013291

Referencing offset: 0.07 ppm, Outliers: 1 Detail

Protein Blocks Logo

Calculated from 20 models in PDB: 2K6B, Strand ID: A Detail

Release date

2009-05-17

Citation

Structure-function correlation of human programmed cell death 5 protein
Yao, H., Xu, L., Feng, Y., Liu, D., Chen, Y., Wang, J.
Arch. Biochem. Biophys. (2009), 486, 141-149, PubMed 19358820 , DOI 10.1016/j.abb.2009.03.018 , Abstract

Entries sharing articles Swiss-Prot: 1 entries Detail

Swiss-Prot: O14737 released on 2000-05-30
Title PDCD5_HUMAN Entity Programmed cell death protein 5

Related entities 1. pdcd5, : 1 : 3 : 63 entities Detail

Interaction partners 1. pdcd5, : 29 interactors Detail

More details for 29 interactors identified by 12 citations