MolNFT v1 · #168252 · protein

Structure of the chlamydia pneumoniae cdsv and cdso protein complex

6WA9 · Low calcium response locus protein D: “Structure of the chlamydia pneumoniae cdsv and cdso protein complex”. X-ray diffraction, 20 pockets (best druggability 0.86). MolNFT v1 #168252 on GenesisL1: 3D structure, binding sites and…

PDB: 6WA9
Type: protein
Length: 3,696 residues
Chains: 18
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Low calcium response locus protein D; Cdso
UniProt: Q9Z8L5, Q9Z7J9
Pockets: 20 · best druggability 0.86

Structure

x-ray diffraction · 16 distinct chains · 52% helix, 11% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	Low calcium response locus protein D	protein	326	43% helix, 13% strand	Q9Z8L5
B	Low calcium response locus protein D	protein	348	43% helix, 14% strand	Q9Z8L5
C, E	Low calcium response locus protein D	protein	347	45% helix, 14% strand	Q9Z8L5
D	Low calcium response locus protein D	protein	331	45% helix, 10% strand	Q9Z8L5
F	Low calcium response locus protein D	protein	346	45% helix, 15% strand	Q9Z8L5
G	Low calcium response locus protein D	protein	349	44% helix, 14% strand	Q9Z8L5
H	Low calcium response locus protein D	protein	344	43% helix, 13% strand	Q9Z8L5
I	Low calcium response locus protein D	protein	340	44% helix, 15% strand	Q9Z8L5
L	Cdso	protein	83	94% helix, 1% strand	Q9Z7J9
M, P	Cdso	protein	65	92% helix, 0% strand	Q9Z7J9
N	Cdso	protein	86	94% helix, 0% strand	Q9Z7J9
O	Cdso	protein	74	93% helix, 1% strand	Q9Z7J9
Q	Cdso	protein	71	93% helix, 1% strand	Q9Z7J9
R	Cdso	protein	59	92% helix, 2% strand	Q9Z7J9
S	Cdso	protein	40	88% helix, 0% strand	Q9Z7J9
T	Cdso	protein	75	92% helix, 0% strand	Q9Z7J9

Pockets

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

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	1000	0.86	0.87	130	empty
2	923	0.80	0.82	98	empty
3	1048	0.80	0.81	119	empty
4	866	0.80	0.82	90	empty
5	554	0.79	0.85	78	empty

Interfaces

27 interfaces between chains.

A–I · 1435 Å² buried · 18 hydrogen bonds · protein-protein
E–F · 1374 Å² buried · 15 hydrogen bonds · protein-protein
B–C · 1355 Å² buried · 15 hydrogen bonds · protein-protein
C–D · 1336 Å² buried · 15 hydrogen bonds · protein-protein
G–H · 1329 Å² buried · 18 hydrogen bonds · protein-protein

Compared structures

6WA9 · Structure of the Chlamydia pneumoniae CdsV and CdsO protein complex · 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 Q9Z8L5
Every structure of UniProt Q9Z7J9
Elsewhere: RCSB PDB 6WA9 · PDBe 6WA9 · UniProt Q9Z8L5 · UniProt Q9Z7J9

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