Structure of PDB 5akm Chain K

Receptor sequence

>5akmK (length=178) [Search protein sequence]

NENVSGISAYLLGLIISDGGLYKLKYKGNRSEYRVVITQKSENLIKQHIA
PLMQFLIDELNVKSKIQIVKGDTRYELRVSSKKLYYYFANMLERIRLFNM
REQIAFIKGLYVAEGDKTLKRLRIWNKNKALLEIVSRWLNNLGVRNTIHL
DDHRHGVYVLNISLRDRIKFVHTILSSH

3D structure

PDB

5akm Engineering a Nickase on the Homing Endonuclease I-Dmoi Scaffold.

Chain

Resolution

2.4 Å

3D
structure

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Enzymatic activity

Enzyme Commision number

Interaction with ligand

Site #	Ligand	Ligand chain	Binding residues on receptor (original residue number in PDB)	Binding residues on receptor (residue number reindexed from 1)	Binding affinity
BS01	dna	K	K86 Y89 N93 R97	K83 Y86 N90 R94
BS02	dna	K	D21 T41 K43 T76 R77 R124 T150 H152 D154 R157 N164 S166 L167	D18 T38 K40 T73 R74 R121 T147 H149 D151 R154 N161 S163 L164
BS03	dna	K	S20 G22 Y25 Y29 K30 R33 R37 R77 K130	S17 G19 Y22 Y26 K27 R30 R34 R74 K127
BS04	dna	K	N32 R33 S34 E35 Y36 R37 S67 K68 Q70 D75 R81 S83 S84 K85 E117 W128 D155 H158 V160	N29 R30 S31 E32 Y33 R34 S64 K65 Q67 D72 R78 S80 S81 K82 E114 W125 D152 H155 V157
BS05	dna	K	A116 D119 K120 R126 W128	A113 D116 K117 R123 W125
BS06	MG	K	D21 A116	D18 A113

Gene Ontology

	Molecular Function
GO:0004519	endonuclease activity

	Biological Process
GO:0006314	intron homing
GO:0016539	intein-mediated protein splicing

View graph for
Molecular Function

View graph for
Biological Process

External links

PDB	RCSB:5akm, PDBe:5akm, PDBj:5akm
PDBsum	5akm
PubMed	26045557
UniProt	P21505\|DMO1_DESMO Homing endonuclease I-DmoI

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