3EPH

Crystallographic snapshots of eukaryotic dimethylallyltransferase acting on tRNA: Insight into tRNA recognition and reaction mechanism

Functional Information from GO Data

Chain	GOid	namespace	contents
A	0000049	molecular_function	tRNA binding
A	0005524	molecular_function	ATP binding
A	0005634	cellular_component	nucleus
A	0005730	cellular_component	nucleolus
A	0005737	cellular_component	cytoplasm
A	0005739	cellular_component	mitochondrion
A	0005829	cellular_component	cytosol
A	0006400	biological_process	tRNA modification
A	0008033	biological_process	tRNA processing
A	0008270	molecular_function	zinc ion binding
A	0016740	molecular_function	transferase activity
A	0016765	molecular_function	transferase activity, transferring alkyl or aryl (other than methyl) groups
A	0046872	molecular_function	metal ion binding
A	0052381	molecular_function	tRNA dimethylallyltransferase activity
B	0000049	molecular_function	tRNA binding
B	0005524	molecular_function	ATP binding
B	0005634	cellular_component	nucleus
B	0005730	cellular_component	nucleolus
B	0005737	cellular_component	cytoplasm
B	0005739	cellular_component	mitochondrion
B	0005829	cellular_component	cytosol
B	0006400	biological_process	tRNA modification
B	0008033	biological_process	tRNA processing
B	0008270	molecular_function	zinc ion binding
B	0016740	molecular_function	transferase activity
B	0016765	molecular_function	transferase activity, transferring alkyl or aryl (other than methyl) groups
B	0046872	molecular_function	metal ion binding
B	0052381	molecular_function	tRNA dimethylallyltransferase activity

Functional Information from PDB Data

site_id	AC1
Number of Residues	4
Details	BINDING SITE FOR RESIDUE ZN A 1

Chain	Residue
A	CYS375
A	CYS378
A	HIS397
A	HIS403

---

site_id	AC2
Number of Residues	2
Details	BINDING SITE FOR RESIDUE MG A 2

Chain	Residue
A	SER28
A	PPV422

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site_id	AC3
Number of Residues	1
Details	BINDING SITE FOR RESIDUE MG A 4

Chain	Residue
A	HOH481

---

site_id	AC4
Number of Residues	1
Details	BINDING SITE FOR RESIDUE MG A 6

Chain	Residue
A	GLN29

---

site_id	AC5
Number of Residues	2
Details	BINDING SITE FOR RESIDUE MG A 7

Chain	Residue
A	HOH449
A	TRP79

---

site_id	AC6
Number of Residues	12
Details	BINDING SITE FOR RESIDUE PPV A 422

Chain	Residue
A	MG2
A	THR23
A	GLY24
A	VAL25
A	GLY26
A	LYS27
A	SER28
A	GLN49
A	ASN59
A	ARG220
A	HOH427
A	HOH495

---

site_id	AC7
Number of Residues	1
Details	BINDING SITE FOR RESIDUE MG E 72

Chain	Residue
E	G12

---

site_id	AC8
Number of Residues	2
Details	BINDING SITE FOR RESIDUE MG E 73

Chain	Residue
E	HOH104
E	HOH116

---

site_id	AC9
Number of Residues	4
Details	BINDING SITE FOR RESIDUE ZN B 1

Chain	Residue
B	CYS375
B	CYS378
B	HIS397
B	HIS403

---

site_id	BC1
Number of Residues	4
Details	BINDING SITE FOR RESIDUE MG B 2

Chain	Residue
B	SER28
B	PPV422
B	HOH481
B	HOH504

---

site_id	BC2
Number of Residues	1
Details	BINDING SITE FOR RESIDUE MG B 4

Chain	Residue
B	GLN29

---

site_id	BC3
Number of Residues	2
Details	BINDING SITE FOR RESIDUE MG B 5

Chain	Residue
B	HOH458
B	HOH486

---

site_id	BC4
Number of Residues	14
Details	BINDING SITE FOR RESIDUE PPV B 422

Chain	Residue
B	MG2
B	THR23
B	GLY24
B	VAL25
B	GLY26
B	LYS27
B	SER28
B	GLN49
B	ASN59
B	ARG220
B	HOH481
B	HOH503
B	HOH504
B	HOH522

---

site_id	BC5
Number of Residues	2
Details	BINDING SITE FOR RESIDUE MG F 72

Chain	Residue
B	HOH526
F	G53

---

Functional Information from SwissProt/UniProt

site_id	SWS_FT_FI1
Number of Residues	72
Details	ZN_FING: Matrin-type

Chain	Residue	Details
A	TYR373-ARG409
B	TYR373-ARG409

---

site_id	SWS_FT_FI2
Number of Residues	2
Details	BINDING: BINDING => ECO:0000255

Chain	Residue	Details
A	GLY21
B	GLY21

---

site_id	SWS_FT_FI3
Number of Residues	2
Details	BINDING: BINDING => ECO:0000269|PubMed:18852462

Chain	Residue	Details
A	THR23
B	THR23

---

site_id	SWS_FT_FI4
Number of Residues	8
Details	BINDING: BINDING => ECO:0000269|PubMed:18852462, ECO:0007744|PDB:3EPH, ECO:0007744|PDB:3EPJ, ECO:0007744|PDB:3EPK, ECO:0007744|PDB:3EPL

Chain	Residue	Details
A	CYS375
A	CYS378
A	HIS397
A	HIS403
B	CYS375
B	CYS378
B	HIS397
B	HIS403

---

site_id	SWS_FT_FI5
Number of Residues	4
Details	SITE: Interaction with substrate tRNA => ECO:0000269|PubMed:18852462

Chain	Residue	Details
A	THR112
A	GLN193
B	THR112
B	GLN193

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