5HN2 - JenaLib

Title :   BASE PAIRING AND STRUCTURE INSIGHTS INTO THE 5-FORMYLCYTOSINE IN RNA DUPLEX

Authors :   Z. P. Luo, J. Sheng

Date :   18 Jan 16 (Deposition) - 27 Apr 16 (Release) - 15 Jun 16 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   1.50

Chains :   Asym. Unit : A,B,C,D,E,F
Biol. Unit 1: A,B  (1x)
Biol. Unit 2: C,D  (1x)
Biol. Unit 3: E,F  (1x)

Keywords :   Rna, 5-Formylcytosine (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   R. Wang, Z. Luo, K. He, M. O. Delaney, D. Chen, J. Sheng
Base Pairing And Structural Insights Into The 5-Formylcytosine In Rna Duplex.
Nucleic Acids Res. V. 44 4968 2016
PubMed-ID: 27079978 | Reference-DOI: 10.1093/NAR/GKW235

Compounds

Structural Features

Chains, Units

Ligands, Modified Residues, Ions (2, 7)

Asymmetric Unit (2, 7)

No.	Name	Count	Type	Full Name
1	NA	1	Ligand/Ion	SODIUM ION
2	RSQ	6	Mod. Nucleotide	5-FORMYLCYTIDINE 5'-(DIHYDROGEN PHOSPHATE)

Biological Unit 1 (1, 2)

No.	Name	Count	Type	Full Name
1	NA	-1	Ligand/Ion	SODIUM ION
2	RSQ	2	Mod. Nucleotide	5-FORMYLCYTIDINE 5'-(DIHYDROGEN PHOSPHATE)

Biological Unit 2 (1, 2)

No.	Name	Count	Type	Full Name
1	NA	-1	Ligand/Ion	SODIUM ION
2	RSQ	2	Mod. Nucleotide	5-FORMYLCYTIDINE 5'-(DIHYDROGEN PHOSPHATE)

Biological Unit 3 (1, 2)

No.	Name	Count	Type	Full Name
1	NA	-1	Ligand/Ion	SODIUM ION
2	RSQ	2	Mod. Nucleotide	5-FORMYLCYTIDINE 5'-(DIHYDROGEN PHOSPHATE)

Sites (11, 11)

Asymmetric Unit (11, 11)

No.	Name	Evidence	Residues	Description
01	AC1	SOFTWARE	HOH E:111 , HOH E:136 , HOH F:208 , HOH F:218 , HOH F:224	binding site for residue NA F 101
02	AC2	SOFTWARE	G A:5 , U A:6 , A A:7 , HOH A:107 , U B:2 , G B:5 , HOH B:101 , HOH B:103 , HOH B:107 , HOH B:108 , HOH B:110 , HOH B:111 , HOH B:113 , HOH B:114 , HOH B:117 , HOH B:119 , A D:3 , RSQ D:4 , HOH D:101 , RSQ F:4 , HOH F:216	binding site for Di-nucleotide A B 3 and RSQ B 4
03	AC3	SOFTWARE	RSQ A:4 , G A:5 , HOH A:107 , A B:3 , U B:6 , HOH B:102 , HOH B:103 , HOH B:109 , HOH B:110 , HOH B:114 , HOH B:117 , HOH B:119 , A D:3 , RSQ D:4 , HOH D:101 , HOH E:142 , RSQ F:4	binding site for Di-nucleotide RSQ B 4 and G B 5
04	AC4	SOFTWARE	HOH A:130 , HOH A:131 , U C:2 , G C:5 , HOH C:108 , HOH C:116 , G D:5 , U D:6 , A D:7 , HOH F:237	binding site for Di-nucleotide A C 3 and RSQ C 4
05	AC5	SOFTWARE	A C:3 , U C:6 , HOH C:102 , HOH C:106 , HOH C:108 , HOH C:109 , HOH C:113 , HOH C:116 , A D:3 , RSQ D:4 , G D:5 , HOH E:149 , HOH F:237	binding site for Di-nucleotide RSQ C 4 and G C 5
06	AC6	SOFTWARE	RSQ B:4 , HOH B:110 , G C:5 , U C:6 , A C:7 , U D:2 , G D:5 , HOH D:101 , HOH D:102 , HOH D:103 , HOH D:104 , HOH D:109 , HOH D:112 , HOH D:115 , HOH D:116 , A F:3 , RSQ F:4 , HOH F:216	binding site for Di-nucleotide A D 3 and RSQ D 4
07	AC7	SOFTWARE	RSQ B:4 , HOH B:110 , A C:3 , RSQ C:4 , G C:5 , U C:6 , A D:3 , U D:6 , HOH D:102 , HOH D:106 , HOH D:109 , HOH D:110 , HOH D:114 , HOH D:116 , HOH E:127 , A F:3 , RSQ F:4 , HOH F:240	binding site for Di-nucleotide RSQ D 4 and G D 5
08	AC8	SOFTWARE	U E:2 , G E:5 , HOH E:103 , HOH E:105 , HOH E:107 , HOH E:108 , HOH E:118 , HOH E:120 , HOH E:122 , HOH E:125 , HOH E:129 , G F:5 , U F:6 , A F:7 , HOH F:225	binding site for Di-nucleotide A E 3 and RSQ E 4
09	AC9	SOFTWARE	A E:3 , U E:6 , HOH E:101 , HOH E:103 , HOH E:105 , HOH E:108 , HOH E:116 , HOH E:118 , HOH E:121 , HOH E:122 , HOH E:131 , HOH E:132 , A F:3 , RSQ F:4 , G F:5 , U F:6 , HOH F:225	binding site for Di-nucleotide RSQ E 4 and G E 5
10	AD1	SOFTWARE	A B:3 , RSQ B:4 , HOH B:101 , HOH B:110 , HOH B:114 , RSQ D:4 , HOH D:102 , G E:5 , U E:6 , A E:7 , U F:2 , G F:5 , HOH F:202 , HOH F:207 , HOH F:209 , HOH F:214 , HOH F:215 , HOH F:216 , HOH F:217 , HOH F:220 , HOH F:223	binding site for Di-nucleotide A F 3 and RSQ F 4
11	AD2	SOFTWARE	A B:3 , RSQ B:4 , HOH B:101 , HOH B:110 , HOH B:114 , RSQ D:4 , A E:3 , RSQ E:4 , G E:5 , A F:3 , U F:6 , HOH F:202 , HOH F:204 , HOH F:210 , HOH F:214 , HOH F:219 , HOH F:220 , HOH F:221 , HOH F:223 , HOH F:228	binding site for Di-nucleotide RSQ F 4 and G F 5

SS Bonds (0, 0)

Cis Peptide Bonds (0, 0)

Sequence-Structure Mapping

SAPs(SNPs)/Variants (0, 0)

PROSITE Motifs (0, 0)

Exons (0, 0)

Sequences/Alignments

Asymmetric Unit

Reformat:	Number of residues per line = ('0' or empty: single-line sequence representation)
	Number of residues per labelling interval =
	UniProt sequence: complete aligned part

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Chain A from PDB  Type:RNA  Length:8
                                      
                   5hn2 A 1 GUAxGUAC 8
                               |    
                               |    
                               4-RSQ

Chain B from PDB  Type:RNA  Length:8
                                      
                   5hn2 B 1 GUAxGUAC 8
                               |    
                               4-RSQ

Chain C from PDB  Type:RNA  Length:8
                                      
                   5hn2 C 1 GUAxGUAC 8
                               |    
                               4-RSQ

Chain D from PDB  Type:RNA  Length:8
                                      
                   5hn2 D 1 GUAxGUAC 8
                               |    
                               4-RSQ

Chain E from PDB  Type:RNA  Length:8
                                      
                   5hn2 E 1 GUAxGUAC 8
                               |    
                               4-RSQ

Chain F from PDB  Type:RNA  Length:8
                                      
                   5hn2 F 1 GUAxGUAC 8
                               |    
                               4-RSQ

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Classification and Annotation

SCOP Domains (0, 0)

CATH Domains (0, 0)

Pfam Domains (0, 0)

Gene Ontology (0, 0)

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