6BKG

Human LigIV catalytic domain with bound DNA-adenylate intermediate in closed conformation

Functional Information from GO Data

Chain	GOid	namespace	contents
A	0003677	molecular_function	DNA binding
A	0003909	molecular_function	DNA ligase activity
A	0003910	molecular_function	DNA ligase (ATP) activity
A	0005524	molecular_function	ATP binding
A	0006281	biological_process	DNA repair
A	0006310	biological_process	DNA recombination
A	0051103	biological_process	DNA ligation involved in DNA repair
A	0071897	biological_process	DNA biosynthetic process

Functional Information from PDB Data

site_id	AC1
Number of Residues	2
Details	binding site for residue CL A 701

Chain	Residue
A	VAL206
A	ASN209

---

site_id	AC2
Number of Residues	3
Details	binding site for residue CL A 702

Chain	Residue
A	TYR298
A	ASP300
A	GLN301

---

site_id	AC3
Number of Residues	6
Details	binding site for residue NA A 703

Chain	Residue
A	HOH864
D	DG5
A	GLY509
A	ILE581
A	HOH801
A	HOH808

---

site_id	AC4
Number of Residues	6
Details	binding site for residue EDO A 704

Chain	Residue
A	ARG383
A	GLU514
A	ASP517
A	LEU518
A	ASP586
A	HOH855

---

site_id	AC5
Number of Residues	13
Details	binding site for residue AMP D 101

Chain	Residue
A	GLU271
A	THR272
A	LYS273
A	LEU274
A	ARG278
A	GLU331
A	PHE367
A	MET430
A	LYS432
A	LYS449
A	LYS451
D	DG2
P	HOH103

---

Functional Information from PROSITE/UniProt

site_id	PS00333
Number of Residues	25
Details	DNA_LIGASE_A2 ATP-dependent DNA ligase signature 2. EGIMVKqplsi...YKpdk...RgegwlKIK

Chain	Residue	Details
A	GLU427-LYS451

---

site_id	PS00697
Number of Residues	9
Details	DNA_LIGASE_A1 ATP-dependent DNA ligase AMP-binding site. ETKLDGERM

Chain	Residue	Details
A	GLU271-MET279

---

Functional Information from SwissProt/UniProt

site_id	SWS_FT_FI1
Number of Residues	1
Details	ACT_SITE: N6-AMP-lysine intermediate => ECO:0000255|PROSITE-ProRule:PRU10135, ECO:0000269|PubMed:23523427, ECO:0000269|PubMed:29980672, ECO:0007744|PDB:3W1B

Chain	Residue	Details
A	LYS273

---

site_id	SWS_FT_FI2
Number of Residues	1
Details	BINDING: BINDING => ECO:0000250|UniProtKB:P18858

Chain	Residue	Details
A	GLU271

---

site_id	SWS_FT_FI3
Number of Residues	5
Details	BINDING: BINDING => ECO:0000269|PubMed:23523427, ECO:0007744|PDB:3W1G, ECO:0007744|PDB:3W5O

Chain	Residue	Details
A	THR272
A	LYS273
A	LEU274
A	LYS449
A	LYS451

---

site_id	SWS_FT_FI4
Number of Residues	4
Details	BINDING: BINDING => ECO:0000269|PubMed:23523427, ECO:0007744|PDB:3W5O

Chain	Residue	Details
A	ARG278
A	LYS345
A	PHE367
A	LYS432

---

site_id	SWS_FT_FI5
Number of Residues	2
Details	BINDING: BINDING => ECO:0000255

Chain	Residue	Details
A	GLU331
A	GLU427

---