6A6J

Crystal structure of Zebra fish Y-box protein1 (YB-1) Cold-shock domain in complex with 6mer m5C RNA

Functional Information from GO Data

Chain	GOid	namespace	contents
A	0003676	molecular_function	nucleic acid binding
C	0003676	molecular_function	nucleic acid binding

Functional Information from PDB Data

site_id	AC1
Number of Residues	4
Details	binding site for residue ZN A 201

Chain	Residue
A	GLU97
A	GLU101
B	C2
B	HOH103

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site_id	AC2
Number of Residues	4
Details	binding site for residue ZN C 201

Chain	Residue
C	GLU97
C	GLU101
C	HOH313
D	C2

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Functional Information from PROSITE/UniProt

site_id	PS00352
Number of Residues	20
Details	CSD_1 Cold-shock (CSD) domain signature. YGFInrndtkeDVFvHqTaI

Chain	Residue	Details
A	TYR52-ILE71

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Functional Information from SwissProt/UniProt

site_id	SWS_FT_FI1
Number of Residues	138
Details	Domain: {"description":"CSD","evidences":[{"source":"PROSITE-ProRule","id":"PRU01204","evidenceCode":"ECO:0000255"}]}

Chain

Residue

Details

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site_id	SWS_FT_FI2
Number of Residues	10
Details	Region: {"description":"C5-methylcytosine binding","evidences":[{"source":"PubMed","id":"31358969","evidenceCode":"ECO:0000269"},{"source":"PDB","id":"6A6L","evidenceCode":"ECO:0007744"}]}

Chain

Residue

Details

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site_id	SWS_FT_FI3
Number of Residues	2
Details	Site: {"description":"Important for C5-methylcytosine-recognition","evidences":[{"source":"PubMed","id":"31358969","evidenceCode":"ECO:0000269"}]}

Chain

Residue

Details

---

site_id	SWS_FT_FI4
Number of Residues	128
Details	Domain: {"description":"CSD"}

Chain

Residue

Details

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site_id	SWS_FT_FI5
Number of Residues	2
Details	Modified residue: {"description":"Phosphoserine; by PKB/AKT1","evidences":[{"source":"PubMed","id":"15806160","evidenceCode":"ECO:0000269"},{"source":"PubMed","id":"19690332","evidenceCode":"ECO:0007744"}]}

Chain

Residue

Details

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site_id	SWS_FT_FI6
Number of Residues	4
Details	Cross-link: {"description":"Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in ubiquitin)","evidences":[{"source":"PubMed","id":"18851979","evidenceCode":"ECO:0000269"}]}

Chain

Residue

Details

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