MolNFT v1 · #138746 · protein

Crystal structure of myosin viia IQ5 in complex with CA2+-cam

5WSV · Calmodulin: “Crystal structure of myosin viia IQ5 in complex with CA2+-cam”. X-ray diffraction, 2 ligands (CA, SO4), 3 pockets (best druggability 0.69). MolNFT v1 #138746 on GenesisL1: 3D structure, binding sites and pockets in GL1X.

PDB: 5WSV
Type: protein
Length: 341 residues
Chains: 4
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Calmodulin; Unconventional myosin-viia
UniProt: P62158, P97479
Ligands: CA, SO4
Pockets: 3 · best druggability 0.69

Structure

x-ray diffraction · 4 distinct chains · 64% helix, 4% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	Calmodulin	protein	141	57% helix, 4% strand	P62158
B	Unconventional myosin-viia	protein	29	90% helix, 0% strand	P97479
C	Calmodulin	protein	142	58% helix, 4% strand	P62158
D	Unconventional myosin-viia	protein	29	93% helix, 0% strand	P97479

Ligands and binding sites

CA · Calcium ion · metal · 8 copies · chains A, C
SO4 · Sulfate ion · ion · 3 copies · chains A, B, C, D

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

Pockets

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

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	347	0.69	0.82	56	empty
2	60	0.40	0.80	18	empty
3	73	0.35	0.76	17	SO4

Interfaces

5 interfaces between chains.

C–D · 1549 Å² buried · 8 hydrogen bonds · protein-protein
A–B · 1539 Å² buried · 8 hydrogen bonds · protein-protein
A–C · 411 Å² buried · 4 hydrogen bonds · protein-protein
B–C · 298 Å² buried · 2 hydrogen bonds · protein-protein
A–D · 215 Å² buried · 2 hydrogen bonds · protein-protein

Compared structures

5WSV · Crystal structure of Myosin VIIa IQ5 in complex with Ca2+-CaM · the same entry in another collection · chain A against A, TM-score 1.00
P97479 · AlphaFold monomer V2.0 prediction for unconventional myosin-viia (P97479) · a predicted model of the same protein · chain B against A, TM-score 0.86

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 P62158
Every structure of UniProt P97479
Elsewhere: RCSB PDB 5WSV · PDBe 5WSV · UniProt P62158 · UniProt P97479

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