BMRBj - BMREntryMaster

Found 1 Document (1.773 seconds)

BMRB: 6299

1U5M

Structure of a Chordin-like Cysteine-rich Repeat (VWC module) from Collagen IIA

Authors

O'Leary, J.M., Hamilton, J.M., Deane, C.M., Valeyev, N.V., Sandell, L.J., Downing, A.K.

Assembly

alpha 1 type II collagen isoform 1

Entity

1. alpha 1 type II collagen isoform 1 (polymer, Thiol state: all disulfide bound), 73 monomers, 7975.965 Da Detail

YVEFQEAGSC VQDGQRYNDK DVWKPEPCRI CVCDTGTVLC DDIICEDVKD CLSPEIPFGE CCPICPADLA AAA

Formula weight

7975.965 Da

Entity Connection

disulfide 5 Detail

ID	Type	Value order	Atom ID 1	Atom ID 2
1	disulfide	sing	1:CYS10:SG	1:CYS33:SG
2	disulfide	sing	1:CYS28:SG	1:CYS61:SG
3	disulfide	sing	1:CYS31:SG	1:CYS40:SG
4	disulfide	sing	1:CYS45:SG	1:CYS62:SG
5	disulfide	sing	1:CYS51:SG	1:CYS65:SG

Source organism

Homo sapiens

Exptl. method

NMR

Refine. method

semi-automated assignment and torsion angle dynamics

Data set

assigned_chemical_shifts

Chem. Shift Complete

Sequence coverage: 94.5 %, Completeness: 76.1 %, Completeness (bb): 85.2 % Detail

Polymer type: polypeptide(L)

	Total	¹H	¹³C	¹⁵N
All	76.1 % (601 of 790)	87.3 % (356 of 408)	58.4 % (181 of 310)	88.9 % (64 of 72)
Backbone	85.2 % (363 of 426)	92.4 % (133 of 144)	78.6 % (169 of 215)	91.0 % (61 of 67)
Sidechain	67.9 % (294 of 433)	84.5 % (223 of 264)	41.5 % (68 of 164)	60.0 % (3 of 5)
Aromatic	33.3 % (16 of 48)	62.5 % (15 of 24)	0.0 % (0 of 23)	100.0 % (1 of 1)
Methyl	50.0 % (36 of 72)	86.1 % (31 of 36)	13.9 % (5 of 36)

1. alpha 1 type II collagen isoform 1

YVEFQEAGSC VQDGQRYNDK DVWKPEPCRI CVCDTGTVLC DDIICEDVKD CLSPEIPFGE CCPICPADLA AAA

Show sample condition

Sample

Pressure 1 atm, Temperature 298 K, pH 6.0

#	Name	Isotope labeling	Concentration
1	alpha 1 type II collagen isoform 1	[U-15N]	0.8 mM
2	phosphate buffer		50 mM
3	NaN3		0.02 %
4	H2O		90 %
5	D2O		10 %

LACS Plot; CA

Atom type	Mol. common name	Atom group	Value	Ref. method	Ref. type	Shift ratio
¹³C	na	na	76.01 ppm	null	null	1.0
¹H	water	na	4.75 ppm	null	null	1.0
¹⁵N	na	na	39.04 ppm	null	null	1.0

Referencing offset: 0.03 ppm, Outliers: 1 Detail

LACS Plot; CB

Atom type	Mol. common name	Atom group	Value	Ref. method	Ref. type	Shift ratio
¹³C	na	na	76.01 ppm	null	null	1.0
¹H	water	na	4.75 ppm	null	null	1.0
¹⁵N	na	na	39.04 ppm	null	null	1.0

Referencing offset: 0.03 ppm, Outliers: 1 Detail

LACS Plot; HA

Atom type	Mol. common name	Atom group	Value	Ref. method	Ref. type	Shift ratio
¹³C	na	na	76.01 ppm	null	null	1.0
¹H	water	na	4.75 ppm	null	null	1.0
¹⁵N	na	na	39.04 ppm	null	null	1.0

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	na	na	76.01 ppm	null	null	1.0
¹H	water	na	4.75 ppm	null	null	1.0
¹⁵N	na	na	39.04 ppm	null	null	1.0

Referencing offset: 0.77 ppm, Outliers: 3 Detail

Protein Blocks Logo

Calculated from 20 models in PDB: 1U5M, Strand ID: A Detail

Release date

2004-08-25

Citation

Solution structure and dynamics of a prototypical chordin-like cysteine-rich repeat (von Willebrand Factor type C module) from collagen IIA
O'Leary, J.M., Hamilton, J.M., Deane, C.M., Valeyev, N.V., Sandell, L.J., Downing, A.K.
J. Biol. Chem. (2004), 279, 53857-53866, PubMed 15466413 , DOI 10.1074/jbc.M409225200 , Abstract

Entries sharing articles Swiss-Prot: 1 entries Detail

Swiss-Prot: P02458 released on 1986-07-21
Title CO2A1_HUMAN Entity Collagen alpha-1(II) chain

Related entities 1. alpha 1 type II collagen isoform 1, : 1 : 157 entities Detail

Interaction partners 1. alpha 1 type II collagen isoform 1, : 3 interactors Detail

More details for 3 interactors identified by 2 citations

Experiments performed 3 experiments Detail

#	Name	Isotope labeling	Concentration
6	alpha 1 type II collagen isoform 1	[U-15N]	0.8 mM
7	phosphate buffer		50 mM
8	NaN3		0.02 %
9	D2O		99.9 %

#	Name	Isotope labeling	Concentration
10	alpha 1 type II collagen isoform 1	[U-13C; U-15N]	0.8 mM
11	phosphate buffer		50 mM
12	NaN3		0.02 %
13	H2O		90 %
14	D2O		10 %

#	Name	Isotope labeling	Concentration
6	alpha 1 type II collagen isoform 1	[U-15N]	0.8 mM
7	phosphate buffer		50 mM
8	NaN3		0.02 %
9	D2O		99.9 %

#	Name	Isotope labeling	Concentration
10	alpha 1 type II collagen isoform 1	[U-13C; U-15N]	0.8 mM
11	phosphate buffer		50 mM
12	NaN3		0.02 %
13	H2O		90 %
14	D2O		10 %

#	Name	Isotope labeling	Concentration
6	alpha 1 type II collagen isoform 1	[U-15N]	0.8 mM
7	phosphate buffer		50 mM
8	NaN3		0.02 %
9	D2O		99.9 %

#	Name	Isotope labeling	Concentration
10	alpha 1 type II collagen isoform 1	[U-13C; U-15N]	0.8 mM
11	phosphate buffer		50 mM
12	NaN3		0.02 %
13	H2O		90 %
14	D2O		10 %

nullKeywords 5 disulfide bonds, beta-sheet, two sub-domain architecture

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Found 1 Document (1.773 seconds)

BMRB: 6299

Sample

Chemical shift reference

Chemical shift reference

Chemical shift reference

Chemical shift reference

Entries sharing articles Swiss-Prot: 1 entries Detail

Related entities 1. alpha 1 type II collagen isoform 1, : 1 : 157 entities Detail

Interaction partners 1. alpha 1 type II collagen isoform 1, : 3 interactors Detail

Experiments performed 3 experiments Detail

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