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Crystal structure of RV1347C from mycobacterium tuberculosis

Analyse Crystal structure of RV1347C from mycobacterium tuberculosis in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.

PDB: 1YK3
Type: protein
Length: 1,586 residues
Chains: 8
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Hypothetical protein RV1347C/MT1389
UniProt: P64819
Pockets: 20 · best druggability 0.80

Structure

x-ray diffraction · 8 distinct chains · 35% helix, 27% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	Hypothetical protein RV1347C/MT1389	protein	198	36% helix, 27% strand	P64819
B	Hypothetical protein RV1347C/MT1389	protein	193	33% helix, 28% strand	P64819
C	Hypothetical protein RV1347C/MT1389	protein	199	34% helix, 28% strand	P64819
D	Hypothetical protein RV1347C/MT1389	protein	200	35% helix, 27% strand	P64819
E	Hypothetical protein RV1347C/MT1389	protein	196	36% helix, 27% strand	P64819
F	Hypothetical protein RV1347C/MT1389	protein	202	36% helix, 27% strand	P64819
G	Hypothetical protein RV1347C/MT1389	protein	201	35% helix, 26% strand	P64819
H	Hypothetical protein RV1347C/MT1389	protein	197	36% helix, 27% strand	P64819

Ligands and binding sites

BOG · octyl beta-D-glucopyranoside · additive · 3 copies · chains D, E, G

Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.

Pockets

20 pockets found on a 1 Å grid, 14 with a druggability of 0.5 or more.

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	976	0.80	0.81	99	BOG
2	855	0.80	0.82	82	empty
3	961	0.79	0.81	84	empty
4	1164	0.78	0.80	106	empty
5	804	0.78	0.81	77	BOG

Interfaces

14 interfaces between chains.

A–E · 568 Å² buried · 3 hydrogen bonds · protein-protein
C–G · 560 Å² buried · 6 hydrogen bonds · protein-protein
D–H · 512 Å² buried · 1 hydrogen bond · protein-protein
B–C · 493 Å² buried · 3 hydrogen bonds · protein-protein
A–D · 465 Å² buried · 3 hydrogen bonds · protein-protein

Compared structures

1YK3 · Crystal structure of Rv1347c from Mycobacterium tuberculosis · 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 P64819
Elsewhere: RCSB PDB 1YK3 · PDBe 1YK3 · UniProt P64819

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