4L6A

Structure of human mitochondrial 5'(3')-deoxyribonucleotidase

Functional Information from GO Data

Chain	GOid	namespace	contents
A	0008253	molecular_function	5'-nucleotidase activity
A	0009264	biological_process	deoxyribonucleotide catabolic process

Functional Information from PDB Data

site_id	AC1
Number of Residues	6
Details	BINDING SITE FOR RESIDUE MG A 301

Chain	Residue
A	ASP41
A	ASP43
A	ASP176
A	PO4302
A	HOH430
A	HOH448

---

site_id	AC2
Number of Residues	13
Details	BINDING SITE FOR RESIDUE PO4 A 302

Chain	Residue
A	THR130
A	SER131
A	LYS143
A	LYS165
A	MG301
A	GOL303
A	GOL308
A	HOH403
A	HOH430
A	HOH448
A	ASP41
A	MET42
A	ASP43

---

site_id	AC3
Number of Residues	9
Details	BINDING SITE FOR RESIDUE GOL A 303

Chain	Residue
A	PHE49
A	GLU50
A	PHE75
A	PO4302
A	GOL305
A	GOL308
A	HOH448
A	HOH503
A	HOH597

---

site_id	AC4
Number of Residues	7
Details	BINDING SITE FOR RESIDUE GOL A 304

Chain	Residue
A	TRP96
A	GLU97
A	ILE133
A	LYS134
A	MET135
A	GOL305
A	HOH570

---

site_id	AC5
Number of Residues	11
Details	BINDING SITE FOR RESIDUE GOL A 305

Chain	Residue
A	PHE49
A	VAL77
A	TRP96
A	ILE133
A	GOL303
A	GOL304
A	GOL308
A	HOH441
A	HOH595
A	HOH644
A	HOH645

---

site_id	AC6
Number of Residues	11
Details	BINDING SITE FOR RESIDUE GOL A 306

Chain	Residue
A	SER27
A	ASN28
A	ALA119
A	THR124
A	ASP125
A	VAL126
A	PHE155
A	GLN158
A	HOH495
A	HOH547
A	HOH627

---

site_id	AC7
Number of Residues	5
Details	BINDING SITE FOR RESIDUE GOL A 307

Chain	Residue
A	ARG163
A	ARG177
A	THR181
A	HOH428
A	HOH687

---

site_id	AC8
Number of Residues	14
Details	BINDING SITE FOR RESIDUE GOL A 308

Chain	Residue
A	PHE75
A	TRP76
A	SER131
A	PRO132
A	ARG163
A	PO4302
A	GOL303
A	GOL305
A	HOH476
A	HOH595
A	HOH611
A	HOH639
A	HOH644
A	HOH645

---

site_id	AC9
Number of Residues	10
Details	BINDING SITE FOR RESIDUE GOL A 309

Chain	Residue
A	ILE93
A	GLU97
A	MET135
A	HIS212
A	HOH482
A	HOH508
A	HOH578
A	HOH659
A	HOH673
A	HOH690

---

site_id	BC1
Number of Residues	8
Details	BINDING SITE FOR RESIDUE GOL A 310

Chain	Residue
A	TYR138
A	ASP217
A	TRP218
A	LYS219
A	PEG313
A	PEG315
A	HOH418
A	HOH685

---

site_id	BC2
Number of Residues	11
Details	BINDING SITE FOR RESIDUE GOL A 311

Chain	Residue
A	HOH607
A	HOH629
A	HOH635
A	HOH642
A	HOH646
A	HOH656
A	ASN100
A	PHE103
A	LYS137
A	TYR141
A	PEG314

---

site_id	BC3
Number of Residues	13
Details	BINDING SITE FOR RESIDUE PEG A 312

Chain	Residue
A	ARG72
A	ARG73
A	GLY74
A	CYS197
A	HIS198
A	ASN199
A	GLN200
A	HIS201
A	LEU202
A	HOH429
A	HOH523
A	HOH624
A	HOH650

---

site_id	BC4
Number of Residues	7
Details	BINDING SITE FOR RESIDUE PEG A 313

Chain	Residue
A	TRP214
A	ALA215
A	ASP216
A	TRP218
A	GOL310
A	HOH471
A	HOH538

---

site_id	BC5
Number of Residues	10
Details	BINDING SITE FOR RESIDUE PEG A 314

Chain	Residue
A	PHE103
A	LYS149
A	PRO207
A	ARG208
A	ARG209
A	GOL311
A	HOH469
A	HOH631
A	HOH635
A	HOH656

---

site_id	BC6
Number of Residues	6
Details	BINDING SITE FOR RESIDUE PEG A 315

Chain	Residue
A	LYS99
A	TYR138
A	ASP217
A	GOL310
A	HOH695
A	HOH695

---

site_id	BC7
Number of Residues	3
Details	BINDING SITE FOR RESIDUE K A 316

Chain	Residue
A	PRO178
A	ILE180
A	HIS191

---

Functional Information from SwissProt/UniProt

site_id	SWS_FT_FI1
Number of Residues	1
Details	ACT_SITE: Nucleophile

Chain	Residue	Details
A	ASP41

---

site_id	SWS_FT_FI2
Number of Residues	1
Details	ACT_SITE: Proton donor => ECO:0000305

Chain	Residue	Details
A	ASP43

---

site_id	SWS_FT_FI3
Number of Residues	2
Details	BINDING: BINDING => ECO:0000269|PubMed:12352955

Chain	Residue	Details
A	ASP41
A	ASP176

---

site_id	SWS_FT_FI4
Number of Residues	8
Details	BINDING:

Chain	Residue	Details
A	ASP43
A	PHE49
A	PHE75
A	TRP76
A	VAL77
A	TRP96
A	THR130
A	LYS165

---

Catalytic Information from CSA

site_id	MCSA1
Number of Residues	3
Details	M-CSA 812

Chain	Residue	Details
A	ASP41	covalently attached, metal ligand, nucleofuge, nucleophile
A	ASP43	metal ligand
A	ASP176	metal ligand

---