6YNJ

Crystal structure of YTHDC1 with compound DHU_DC1_046

Functional Information from GO Data

Chain	GOid	namespace	contents
A	0003723	molecular_function	RNA binding
B	0003723	molecular_function	RNA binding

Functional Information from PDB Data

site_id	AC1
Number of Residues	9
Details	binding site for residue P0N A 601

Chain	Residue
A	ASN367
A	SER378
A	TRP428
A	PRO431
A	MET434
A	SER435
A	LEU439
A	SO4605
A	HOH726

---

site_id	AC2
Number of Residues	5
Details	binding site for residue P0N A 602

Chain	Residue
A	PRO464
A	TRP465
B	TYR350
B	HIS427
B	TRP428

---

site_id	AC3
Number of Residues	9
Details	binding site for residue SO4 A 603

Chain	Residue
A	LYS386
A	GLN478
A	GLU479
A	HOH713
A	HOH757
A	HOH759
A	HOH853
B	LYS347
B	HOH956

---

site_id	AC4
Number of Residues	3
Details	binding site for residue SO4 A 604

Chain	Residue
A	HIS420
A	HIS421
A	HOH748

---

site_id	AC5
Number of Residues	6
Details	binding site for residue SO4 A 605

Chain	Residue
A	SER362
A	ASN363
A	ASN364
A	ASN367
A	ARG404
A	P0N601

---

site_id	AC6
Number of Residues	10
Details	binding site for residue P0N B 701

Chain	Residue
B	ASN367
B	SER378
B	PRO431
B	MET434
B	SER435
B	MET438
B	LEU439
B	SO4703
B	HOH818
B	HOH983

---

site_id	AC7
Number of Residues	8
Details	binding site for residue SO4 B 702

Chain	Residue
B	ARG451
B	GLU452
B	HOH835
B	HOH842
B	HOH857
B	HOH893
B	HOH897
B	HOH910

---

site_id	AC8
Number of Residues	5
Details	binding site for residue SO4 B 703

Chain	Residue
B	SER362
B	ASN363
B	ASN364
B	ASN367
B	P0N701

---

site_id	AC9
Number of Residues	4
Details	binding site for residue SO4 B 704

Chain	Residue
B	LYS386
B	GLU479
B	HOH814
B	HOH815

---

site_id	AD1
Number of Residues	4
Details	binding site for residue SO4 B 705

Chain	Residue
B	SER419
B	HIS420
B	HIS421
B	ARG451

---

site_id	AD2
Number of Residues	5
Details	binding site for residue SO4 B 706

Chain	Residue
B	ARG404
B	ARG475
B	ASP476
B	HOH807
B	HOH882

---

Functional Information from SwissProt/UniProt

site_id	SWS_FT_FI1
Number of Residues	274
Details	Domain: {"description":"YTH","evidences":[{"source":"PROSITE-ProRule","id":"PRU00225","evidenceCode":"ECO:0000255"}]}

Chain

Residue

Details

---

site_id	SWS_FT_FI2
Number of Residues	6
Details	Binding site: {"evidences":[{"source":"PubMed","id":"31670957","evidenceCode":"ECO:0000269"},{"source":"PDB","id":"6RT4","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"6RT5","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"6RT6","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"6RT7","evidenceCode":"ECO:0007744"}]}

Chain

Residue

Details

---

site_id	SWS_FT_FI3
Number of Residues	2
Details	Binding site: {"evidences":[{"source":"PubMed","id":"25242552","evidenceCode":"ECO:0000269"},{"source":"PubMed","id":"31670957","evidenceCode":"ECO:0000269"},{"source":"PDB","id":"6RT4","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"6RT5","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"6RT6","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"6RT7","evidenceCode":"ECO:0007744"}]}

Chain

Residue

Details

---

site_id	SWS_FT_FI4
Number of Residues	2
Details	Binding site: {"evidences":[{"source":"PubMed","id":"25242552","evidenceCode":"ECO:0000269"}]}

Chain

Residue

Details

---

site_id	SWS_FT_FI5
Number of Residues	2
Details	Modified residue: {"description":"Phosphoserine","evidences":[{"source":"PubMed","id":"18669648","evidenceCode":"ECO:0007744"},{"source":"PubMed","id":"20068231","evidenceCode":"ECO:0007744"},{"source":"PubMed","id":"23186163","evidenceCode":"ECO:0007744"}]}

Chain

Residue

Details

---

site_id	SWS_FT_FI6
Number of Residues	2
Details	Modified residue: {"description":"Phosphoserine","evidences":[{"source":"PubMed","id":"20068231","evidenceCode":"ECO:0007744"}]}

Chain

Residue

Details

---