3EPK

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	0000166	molecular_function	nucleotide 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	0000166	molecular_function	nucleotide 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	4
Details	BINDING SITE FOR RESIDUE MG A 2

Chain	Residue
A	SER28
A	DST422
A	HOH425
A	HOH467

---

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

Chain	Residue
A	HOH465

---

site_id	AC4
Number of Residues	4
Details	BINDING SITE FOR RESIDUE MG A 10

Chain	Residue
A	GLN29
A	LEU320
A	HOH477
A	HOH478

---

site_id	AC5
Number of Residues	17
Details	BINDING SITE FOR RESIDUE DST 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	TYR292
A	HOH424
A	HOH425
A	HOH443
A	HOH466
A	HOH467
E	A37

---

site_id	AC6
Number of Residues	1
Details	BINDING SITE FOR RESIDUE MG E 72

Chain	Residue
E	G12

---

site_id	AC7
Number of Residues	1
Details	BINDING SITE FOR RESIDUE MG E 73

Chain	Residue
E	HOH89

---

site_id	AC8
Number of Residues	2
Details	BINDING SITE FOR RESIDUE MG E 74

Chain	Residue
E	C23
E	G45

---

site_id	AC9
Number of Residues	1
Details	BINDING SITE FOR RESIDUE MG E 75

Chain	Residue
E	HOH106

---

site_id	BC1
Number of Residues	1
Details	BINDING SITE FOR RESIDUE MG B 6

Chain	Residue
B	LYS298

---

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

Chain	Residue
B	CYS375
B	CYS378
B	HIS397
B	HIS403

---

site_id	BC3
Number of Residues	3
Details	BINDING SITE FOR RESIDUE MG B 2

Chain	Residue
B	SER28
B	PPV423
B	HOH502

---

site_id	BC4
Number of Residues	3
Details	BINDING SITE FOR RESIDUE MG B 422

Chain	Residue
B	ASP78
B	HOH549
B	HOH567

---

site_id	BC5
Number of Residues	1
Details	BINDING SITE FOR RESIDUE MG B 7

Chain	Residue
B	SER85

---

site_id	BC6
Number of Residues	4
Details	BINDING SITE FOR RESIDUE MG B 8

Chain	Residue
B	GLN29
B	LEU320
B	HOH565
B	HOH566

---

site_id	BC7
Number of Residues	12
Details	BINDING SITE FOR RESIDUE PPV B 423

Chain	Residue
B	MG2
B	THR23
B	GLY24
B	GLY26
B	LYS27
B	SER28
B	GLN49
B	ASN59
B	HOH502
B	HOH537
B	HOH543
B	HOH554

---

site_id	BC8
Number of Residues	1
Details	BINDING SITE FOR RESIDUE MG F 72

Chain	Residue
F	HOH124

---

site_id	BC9
Number of Residues	1
Details	BINDING SITE FOR RESIDUE MG F 73

Chain	Residue
F	G27

---

Functional Information from SwissProt/UniProt

site_id	SWS_FT_FI1
Number of Residues	72
Details	Zinc finger: {"description":"Matrin-type"}

Chain

Residue

Details

---

site_id	SWS_FT_FI2
Number of Residues	54
Details	Region: {"description":"Interaction with substrate tRNA","evidences":[{"source":"PubMed","id":"18852462","evidenceCode":"ECO:0000269"}]}

Chain

Residue

Details

---

site_id	SWS_FT_FI3
Number of Residues	16
Details	Region: {"description":"Core aggregation region","evidences":[{"source":"PubMed","id":"18852462","evidenceCode":"ECO:0000269"}]}

Chain

Residue

Details

---

site_id	SWS_FT_FI4
Number of Residues	44
Details	Region: {"description":"Interaction with isopentenylpyrophosphate transferase","evidences":[{"source":"PubMed","id":"18852462","evidenceCode":"ECO:0000269"}]}

Chain

Residue

Details

---

site_id	SWS_FT_FI5
Number of Residues	14
Details	Binding site: {"evidences":[{"evidenceCode":"ECO:0000255"}]}

Chain

Residue

Details

---

site_id	SWS_FT_FI6
Number of Residues	10
Details	Binding site: {"evidences":[{"source":"PubMed","id":"18852462","evidenceCode":"ECO:0000269"}]}

Chain

Residue

Details

---

site_id	SWS_FT_FI7
Number of Residues	8
Details	Binding site: {"evidences":[{"source":"PubMed","id":"18852462","evidenceCode":"ECO:0000269"},{"source":"PDB","id":"3EPH","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"3EPJ","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"3EPK","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"3EPL","evidenceCode":"ECO:0007744"}]}

Chain

Residue

Details

---

site_id	SWS_FT_FI8
Number of Residues	4
Details	Site: {"description":"Interaction with substrate tRNA","evidences":[{"source":"PubMed","id":"18852462","evidenceCode":"ECO:0000269"}]}

Chain

Residue

Details

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