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Crystal structure of yeast CDC13 and ssdna

Analyse Crystal structure of yeast CDC13 and ssdna in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.

PDB: 6LBR
Type: protein + DNA
Length: 772 residues
Chains: 4
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: KLLA0F20922P; Telomere single-strand DNA
UniProt: Q6CJ70
Pockets: 9 · best druggability 0.83

Structure

x-ray diffraction · 4 distinct chains · 28% helix, 31% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	KLLA0F20922P	protein	519	27% helix, 32% strand	Q6CJ70
B	KLLA0F20922P	protein	208	31% helix, 26% strand	Q6CJ70
C	Telomere single-strand DNA	dna	22	—	—
D	Telomere single-strand DNA	dna	23	—	—

Pockets

9 pockets found on a 1 Å grid, 4 with a druggability of 0.5 or more.

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	575	0.83	0.89	59	empty
2	987	0.74	0.77	59	empty
3	871	0.73	0.77	79	empty
4	242	0.55	0.77	26	empty
5	62	0.50	0.85	18	empty

Interfaces

4 interfaces between chains.

B–D · 1915 Å² buried · 60 hydrogen bonds · protein-nucleic
A–C · 1845 Å² buried · 57 hydrogen bonds · protein-nucleic
A–B · 636 Å² buried · 6 hydrogen bonds · protein-protein
A–D · 612 Å² buried · 15 hydrogen bonds · protein-nucleic

Compared structures

6LBR · Crystal structure of yeast Cdc13 and ssDNA · the same entry in another collection · chain A against A, TM-score 1.00

Analyse

Open in the research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides and crosslinks on the 3D structure
Every structure of UniProt Q6CJ70
Elsewhere: RCSB PDB 6LBR · PDBe 6LBR · UniProt Q6CJ70

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