3KNC - JenaLib

Title :   CRYSTAL STRUCTURE OF THE CENA-RNA HYBRID OCTAMER CE(GCGTAGCG) :R(CGCUACGC)

Authors :   M. Ovaere, L. Van Meervelt

Date :   12 Nov 09 (Deposition) - 08 Dec 10 (Release) - 01 Feb 12 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   2.50

Chains :   Asym./Biol. Unit : A,B

Keywords :   Cyclohexene, Sugar Modification, Rna, Rna-Cyclohexene-Rna Hybrid Complex (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   M. Ovaere, P. Herdewijn, L. Van Meervelt
The Crystal Structure Of The Cena:Rna Hybrid Ce(Gcgtagcg):R(Cgcuacgc).
Chemistry V. 17 7823 2011
PubMed-ID: 21618623 | Reference-DOI: 10.1002/CHEM.201003594

Compounds

*Molecule 1 - 5'-D((XGR)P(XCR)P(XGR)P(XTR)P(XAR)P(XGR)P(XCR) P(XGR)P(XGR))-3'**
	Chains	:	A
	Engineered	:	YES
	Other Details	:	CENA
	Other Details - Source	:	THE CENA STRAND WAS SYNTHESIZED.
	Synthetic	:	YES

*Molecule 2 - 5'-R(CPGPCPUPAPCPGPC)-3'*
	Chains	:	B
	Engineered	:	YES
	Other Details	:	RNA
	Other Details - Source	:	THE RNA STRAND WAS SYNTHESIZED.
	Synthetic	:	YES

Structural Features

Chains, Units

Ligands, Modified Residues, Ions (5, 11)

Asymmetric/Biological Unit (5, 11)

No.	Name	Count	Type	Full Name
1	MG	2	Ligand/Ion	MAGNESIUM ION
2	XAR	1	OTHER	[(1R,4S,6S)-4-(6-AMINO-9H-PURIN-9-YL)-6-HYDROXYCYCLOHEX-2-EN-1-YL]METHYL DIHYDROGEN PHOSPHATE
3	XCR	2	Mod. Nucleotide	[(1R,4S,6S)-4-(4-AMINO-2-OXOPYRIMIDIN-1(2H)-YL)-6-HYDROXYCYCLOHEX-2-EN-1-YL]METHYL DIHYDROGEN PHOSPHATE
4	XGR	5	Mod. Nucleotide	[(1R,4S,6S)-4-(2-AMINO-6-OXO-1,6-DIHYDRO-9H-PURIN-9-YL)-6-HYDROXYCYCLOHEX-2-EN-1-YL]METHYL DIHYDROGENPHOSPHATE
5	XTR	1	Mod. Nucleotide	[(1R,4S,6S)-6-HYDROXY-4-(5-METHYL-2,4-DIOXO-3,4-DIHYDROPYRIMIDIN-1(2H)-YL)CYCLOHEX-2-EN-1-YL]METHYLDIHYDROGEN PHOSPHATE

Sites (2, 2)

Asymmetric Unit (2, 2)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	HOH A:101 , HOH A:102 , HOH A:103 , HOH A:104 , HOH A:105 , HOH A:106	BINDING SITE FOR RESIDUE MG A 100
2	AC2	SOFTWARE	HOH A:201 , HOH A:202 , HOH A:203 , HOH A:204 , HOH A:205 , HOH A:206	BINDING SITE FOR RESIDUE MG A 200

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/Biological Unit

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Chain A from PDB  Type:DNA/OTHER  Length:9
                                       
                   3knc A 1 gcgtxgcgg 9
                            |||||||||
                            ||||||||9-XGR
                            1-XGR||| 
                             2-XCR|| 
                              3-XGR| 
                               4-XTR 
                                5-XAR
                                 6-XGR
                                  7-XCR
                                   8-XGR

Chain B from PDB  Type:RNA  Length:8
                                      
                   3knc B 1 CGCUACGC 8

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	extra numbering lines below/above indicate numbering irregularities and modified residue names etc., number ends below/above '\|'

Classification and Annotation

SCOP Domains (0, 0)

CATH Domains (0, 0)

Pfam Domains (0, 0)

Gene Ontology (0, 0)

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