MolNFT v1 · #18292 · protein

Scm SAM domain

1PK3 · Sex comb on midleg CG9495-pa: “Scm SAM domain”. X-ray diffraction. MolNFT v1 #18292 on GenesisL1: 3D structure, binding sites and pockets in GL1X.

PDB: 1PK3
Type: protein
Length: 222 residues
Chains: 3
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Sex comb on midleg CG9495-pa
UniProt: Q9VHA0

Structure

x-ray diffraction · 3 distinct chains · 71% helix, 0% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	Sex comb on midleg CG9495-pa	protein	76	72% helix, 0% strand	Q9VHA0
B	Sex comb on midleg CG9495-pa	protein	68	72% helix, 0% strand	Q9VHA0
C	Sex comb on midleg CG9495-pa	protein	78	69% helix, 0% strand	Q9VHA0

Ligands and binding sites

BME · Beta-mercaptoethanol · additive · 3 copies · chains A, B, C

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

Interfaces

2 interfaces between chains.

B–C · 551 Å² buried · 5 hydrogen bonds · protein-protein
A–B · 550 Å² buried · 4 hydrogen bonds · protein-protein

Compared structures

1PK3 · Scm SAM domain · the same entry in another collection · chain A against A, TM-score 1.00
Q9VHA0 · AlphaFold monomer V2.0 prediction for polycomb protein scm (Q9VHA0) · a predicted model of the same protein · chain B against A, TM-score 0.98

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 Q9VHA0
Elsewhere: RCSB PDB 1PK3 · PDBe 1PK3 · UniProt Q9VHA0

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