Summary Structural details Experimental details Functional details Sequence Neighbor History Downloads

4PEG

Dbr1 in complex with guanosine-5'-monophosphate

Functional Information from GO Data

Chain	GOid	namespace	contents
A	0000375	biological_process	RNA splicing, via transesterification reactions
A	0000398	biological_process	mRNA splicing, via spliceosome
A	0003723	molecular_function	RNA binding
A	0005506	molecular_function	iron ion binding
A	0005634	cellular_component	nucleus
A	0006397	biological_process	mRNA processing
A	0008270	molecular_function	zinc ion binding
A	0008419	molecular_function	RNA lariat debranching enzyme activity
A	0016787	molecular_function	hydrolase activity
A	0030145	molecular_function	manganese ion binding
A	0046872	molecular_function	metal ion binding
A	0048471	cellular_component	perinuclear region of cytoplasm
B	0000375	biological_process	RNA splicing, via transesterification reactions
B	0000398	biological_process	mRNA splicing, via spliceosome
B	0003723	molecular_function	RNA binding
B	0005506	molecular_function	iron ion binding
B	0005634	cellular_component	nucleus
B	0006397	biological_process	mRNA processing
B	0008270	molecular_function	zinc ion binding
B	0008419	molecular_function	RNA lariat debranching enzyme activity
B	0016787	molecular_function	hydrolase activity
B	0030145	molecular_function	manganese ion binding
B	0046872	molecular_function	metal ion binding
B	0048471	cellular_component	perinuclear region of cytoplasm
C	0000375	biological_process	RNA splicing, via transesterification reactions
C	0000398	biological_process	mRNA splicing, via spliceosome
C	0003723	molecular_function	RNA binding
C	0005506	molecular_function	iron ion binding
C	0005634	cellular_component	nucleus
C	0006397	biological_process	mRNA processing
C	0008270	molecular_function	zinc ion binding
C	0008419	molecular_function	RNA lariat debranching enzyme activity
C	0016787	molecular_function	hydrolase activity
C	0030145	molecular_function	manganese ion binding
C	0046872	molecular_function	metal ion binding
C	0048471	cellular_component	perinuclear region of cytoplasm
D	0000375	biological_process	RNA splicing, via transesterification reactions
D	0000398	biological_process	mRNA splicing, via spliceosome
D	0003723	molecular_function	RNA binding
D	0005506	molecular_function	iron ion binding
D	0005634	cellular_component	nucleus
D	0006397	biological_process	mRNA processing
D	0008270	molecular_function	zinc ion binding
D	0008419	molecular_function	RNA lariat debranching enzyme activity
D	0016787	molecular_function	hydrolase activity
D	0030145	molecular_function	manganese ion binding
D	0046872	molecular_function	metal ion binding
D	0048471	cellular_component	perinuclear region of cytoplasm
E	0000375	biological_process	RNA splicing, via transesterification reactions
E	0000398	biological_process	mRNA splicing, via spliceosome
E	0003723	molecular_function	RNA binding
E	0005506	molecular_function	iron ion binding
E	0005634	cellular_component	nucleus
E	0006397	biological_process	mRNA processing
E	0008270	molecular_function	zinc ion binding
E	0008419	molecular_function	RNA lariat debranching enzyme activity
E	0016787	molecular_function	hydrolase activity
E	0030145	molecular_function	manganese ion binding
E	0046872	molecular_function	metal ion binding
E	0048471	cellular_component	perinuclear region of cytoplasm

Functional Information from PDB Data

site_id	AC1
Number of Residues	6
Details	binding site for residue MN A 401

Chain	Residue
A	ASP45
A	ASN90
A	HIS180
A	HIS230
A	5GP402
A	HOH629

site_id	AC2
Number of Residues	14
Details	binding site for residue 5GP A 402

Chain	Residue
A	GLY201
A	ASP205
A	HIS230
A	MET231
A	HIS232
A	MN401
A	HOH607
A	HOH629
A	HOH633
A	HOH653
A	HOH717
A	ASP45
A	ASN90
A	HIS91

site_id	AC3
Number of Residues	5
Details	binding site for residue SO4 A 403

Chain	Residue
A	ARG50
A	ASN95
A	HIS99
A	PRO146
A	HOH507

site_id	AC4
Number of Residues	6
Details	binding site for residue GOL A 404

Chain	Residue
A	SER38
A	LEU83
A	ASN122
A	LYS266
A	THR267
A	HOH680

site_id	AC5
Number of Residues	6
Details	binding site for residue MN B 401

Chain	Residue
B	ASP45
B	ASN90
B	HIS180
B	HIS230
B	5GP402
B	HOH626

site_id	AC6
Number of Residues	13
Details	binding site for residue 5GP B 402

Chain	Residue
B	ASP45
B	ASN90
B	HIS91
B	GLY201
B	ASP205
B	LEU209
B	HIS230
B	MET231
B	HIS232
B	MN401
B	HOH534
B	HOH626
B	HOH689

site_id	AC7
Number of Residues	6
Details	binding site for residue SO4 B 403

Chain	Residue
B	ARG50
B	ASN95
B	HIS99
B	HOH532
B	HOH642
B	HOH644

site_id	AC8
Number of Residues	4
Details	binding site for residue GOL B 404

Chain	Residue
B	SER38
B	ASN122
B	LYS266
B	THR267

site_id	AC9
Number of Residues	6
Details	binding site for residue MN C 401

Chain	Residue
C	ASP45
C	ASN90
C	HIS180
C	HIS230
C	5GP402
C	HOH663

site_id	AD1
Number of Residues	11
Details	binding site for residue 5GP C 402

Chain	Residue
C	ASP45
C	ASN90
C	HIS91
C	GLY201
C	ASP205
C	HIS230
C	MET231
C	HIS232
C	MN401
C	HOH602
C	HOH663

site_id	AD2
Number of Residues	8
Details	binding site for residue SO4 C 403

Chain	Residue
C	ARG50
C	ASN95
C	HIS99
C	PRO146
C	HOH503
C	HOH505
C	HOH645
C	HOH646

site_id	AD3
Number of Residues	6
Details	binding site for residue MN D 401

Chain	Residue
D	ASP45
D	ASN90
D	HIS180
D	HIS230
D	5GP402
D	HOH712

site_id	AD4
Number of Residues	11
Details	binding site for residue 5GP D 402

Chain	Residue
D	MN401
D	HOH693
D	HOH712
D	ASP45
D	ASN90
D	HIS91
D	GLY201
D	ASP205
D	HIS230
D	MET231
D	HIS232

site_id	AD5
Number of Residues	7
Details	binding site for residue SO4 D 403

Chain	Residue
D	ARG50
D	ASN95
D	HIS99
D	PRO146
D	HOH506
D	HOH570
D	HOH588

site_id	AD6
Number of Residues	6
Details	binding site for residue MN E 401

Chain	Residue
E	ASP45
E	ASN90
E	HIS180
E	HIS230
E	5GP402
E	HOH677

site_id	AD7
Number of Residues	13
Details	binding site for residue 5GP E 402

Chain	Residue
E	ASP45
E	ASN90
E	HIS91
E	GLY201
E	ASP205
E	HIS230
E	MET231
E	HIS232
E	MN401
E	HOH586
E	HOH623
E	HOH636
E	HOH677

site_id	AD8
Number of Residues	6
Details	binding site for residue SO4 E 403

Chain	Residue
E	ARG50
E	ASN95
E	HIS99
E	HOH591
E	HOH602
E	HOH644

Functional Information from SwissProt/UniProt

site_id	SWS_FT_FI1
Number of Residues	140
Details	Region: {"description":"Lariat recognition loop","evidences":[{"source":"PubMed","id":"27930312","evidenceCode":"ECO:0000269"}]}

Chain

Residue

Details

site_id	SWS_FT_FI2
Number of Residues	10
Details	Binding site: {"evidences":[{"source":"PubMed","id":"27930312","evidenceCode":"ECO:0000269"},{"source":"PubMed","id":"28504306","evidenceCode":"ECO:0000269"},{"source":"PDB","id":"5K73","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"5K77","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"5K78","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"5UKI","evidenceCode":"ECO:0007744"}]}

Chain

Residue

Details

site_id	SWS_FT_FI3
Number of Residues	10
Details	Binding site: {"evidences":[{"source":"PubMed","id":"25123664","evidenceCode":"ECO:0000269"},{"source":"PubMed","id":"27930312","evidenceCode":"ECO:0000269"},{"source":"PubMed","id":"28504306","evidenceCode":"ECO:0000269"},{"source":"PDB","id":"4PEF","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"4PEG","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"4PEH","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"4PEI","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"5K73","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"5K77","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"5K78","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"5UKI","evidenceCode":"ECO:0007744"}]}

Chain

Residue

Details

site_id	SWS_FT_FI4
Number of Residues	15
Details	Binding site: {"evidences":[{"source":"PubMed","id":"25123664","evidenceCode":"ECO:0000269"},{"source":"Reference","evidenceCode":"ECO:0000269","citation":{"citationType":"submission","publicationDate":"AUG-2022","submissionDatabase":"PDB data bank","title":"Dbr1 in complex with 5-mer cleavage product.","authors":["Clark N.E.","Taylor A.B."]}},{"source":"PDB","id":"4PEH","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"8DZK","evidenceCode":"ECO:0007744"}]}

Chain

Residue

Details

site_id	SWS_FT_FI5
Number of Residues	5
Details	Binding site: {"evidences":[{"source":"PubMed","id":"25123664","evidenceCode":"ECO:0000269"},{"source":"Reference","evidenceCode":"ECO:0000269","citation":{"citationType":"submission","publicationDate":"AUG-2022","submissionDatabase":"PDB data bank","title":"Dbr1 in complex with 5-mer cleavage product.","authors":["Clark N.E.","Taylor A.B."]}},{"source":"PDB","id":"4PEG","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"4PEI","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"8DZK","evidenceCode":"ECO:0007744"}]}

Chain

Residue

Details

site_id	SWS_FT_FI6
Number of Residues	5
Details	Binding site: {"evidences":[{"source":"PubMed","id":"25123664","evidenceCode":"ECO:0000269"},{"source":"PDB","id":"4PEG","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"4PEI","evidenceCode":"ECO:0007744"}]}

Chain

Residue

Details

site_id	SWS_FT_FI7
Number of Residues	10
Details	Binding site: {"evidences":[{"source":"PubMed","id":"25123664","evidenceCode":"ECO:0000269"},{"source":"PubMed","id":"27930312","evidenceCode":"ECO:0000269"},{"source":"PDB","id":"4PEG","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"4PEI","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"5K77","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"5K78","evidenceCode":"ECO:0007744"}]}

Chain

Residue

Details

site_id	SWS_FT_FI8
Number of Residues	5
Details	Binding site: {"evidences":[{"source":"PubMed","id":"25123664","evidenceCode":"ECO:0000269"},{"source":"PubMed","id":"27930312","evidenceCode":"ECO:0000269"},{"source":"PDB","id":"4PEG","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"4PEH","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"4PEI","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"5K77","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"5K78","evidenceCode":"ECO:0007744"}]}

Chain

Residue

Details

site_id	SWS_FT_FI9
Number of Residues	10
Details	Binding site: {"evidences":[{"source":"PubMed","id":"27930312","evidenceCode":"ECO:0000269"},{"source":"PDB","id":"4PEG","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"4PEI","evidenceCode":"ECO:0007744"}]}

Chain

Residue

Details

		Sequence (fasta)
		PDBx/mmCIF
		PDBML format (no-atom)
		PDB format (full)
		Validation report (PDF)
		EDMap 2fo-fc (MTZ)