2QS6 - JenaLib

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Description

Title :   STRUCTURE OF A HOOGSTEEN ANTIPARALLEL DUPLEX WITH EXTRA-HELICAL THYMINES

Authors :   J. Pous, L. Urpi, J. A. Subirana, C. Gouyette, J. Navaza, J. L. Campos

Date :   30 Jul 07 (Deposition) - 25 Mar 08 (Release) - 13 Jul 11 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   3.08

Chains :   Asym. Unit : A,B,C,D,E,F,G,H,I,J,K,L,M,N
Biol. Unit 1: A,B  (1x)
Biol. Unit 2: C,D  (1x)
Biol. Unit 3: E,F  (1x)
Biol. Unit 4: G,H  (1x)
Biol. Unit 5: I,J  (1x)
Biol. Unit 6: K,L  (1x)
Biol. Unit 7: M,N  (1x)

Keywords :   Hoogsteen, Oligonucleotide, Dna, Thymines (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   J. Pous, L. Urpi, J. A. Subirana, C. Gouyette, J. Navaza, J. L. Campos
Stabilization By Extra-Helical Thymines Of A Dna Duplex Wit Hoogsteen Base Pairs.
J. Am. Chem. Soc. V. 130 6755 2008
PubMed-ID: 18447354 | Reference-DOI: 10.1021/JA078022+

Compounds

*Molecule 1 - DNA (5'-D(DAPDTPDAPDTPDAPDTPDCPDT)-3')*
	Chains	:	A, B, C, D, E, F, G, H, I, J, K, L, M, N
	Engineered	:	YES
	Other Details	:	PHOSPHORAMIDITE METHOD
	Synthetic	:	YES

Structural Features

Chains, Units

		1	2	3	4	5	6	7	8	9	10	11	12	13	14
Asymmetric Unit	:	A	B	C	D	E	F	G	H	I	J	K	L	M	N
Biological Unit 1 (1x)	:	A	B
Biological Unit 2 (1x)	:			C	D
Biological Unit 3 (1x)	:					E	F
Biological Unit 4 (1x)	:							G	H
Biological Unit 5 (1x)	:									I	J
Biological Unit 6 (1x)	:											K	L
Biological Unit 7 (1x)	:													M	N

Summary Information (see also Sequences/Alignments below)

Ligands, Modified Residues, Ions (0, 0)

(no "Ligand,Modified Residues,Ions" information available for 2QS6)

Sites (0, 0)

(no "Site" information available for 2QS6)

SS Bonds (0, 0)

(no "SS Bond" information available for 2QS6)

Cis Peptide Bonds (0, 0)

(no "Cis Peptide Bond" information available for 2QS6)

Sequence-Structure Mapping

SAPs(SNPs)/Variants (0, 0)

(no "SAP(SNP)/Variant" information available for 2QS6)

PROSITE Motifs (0, 0)

(no "PROSITE Motif" information available for 2QS6)

Exons (0, 0)

(no "Exon" information available for 2QS6)

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

Show mapping:	SCOP domains	CATH domains	Pfam domains	Secondary structure (by author)
	SAPs(SNPs)	PROSITE motifs	Exons
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Chain A from PDB  Type:DNA  Length:8
                                      
                   2qs6 A 1 ATATATCT 8

Chain B from PDB  Type:DNA  Length:8
                                      
                   2qs6 B 1 ATATATCT 8

Chain C from PDB  Type:DNA  Length:8
                                      
                   2qs6 C 1 ATATATCT 8

Chain D from PDB  Type:DNA  Length:8
                                      
                   2qs6 D 1 ATATATCT 8

Chain E from PDB  Type:DNA  Length:8
                                      
                   2qs6 E 1 ATATATCT 8

Chain F from PDB  Type:DNA  Length:7
                                     
                   2qs6 F 1 ATATATC 7

Chain G from PDB  Type:DNA  Length:8
                                      
                   2qs6 G 1 ATATATCT 8

Chain H from PDB  Type:DNA  Length:8
                                      
                   2qs6 H 1 ATATATCT 8

Chain I from PDB  Type:DNA  Length:8
                                      
                   2qs6 I 1 ATATATCT 8

Chain J from PDB  Type:DNA  Length:8
                                      
                   2qs6 J 1 ATATATCT 8

Chain K from PDB  Type:DNA  Length:8
                                      
                   2qs6 K 1 ATATATCT 8

Chain L from PDB  Type:DNA  Length:8
                                      
                   2qs6 L 1 ATATATCT 8

Chain M from PDB  Type:DNA  Length:8
                                      
                   2qs6 M 1 ATATATCT 8

Chain N from PDB  Type:DNA  Length:8
                                      
                   2qs6 N 1 ATATATCT 8

Legend:		→ Mismatch	(orange background)
	-	→ Gap	(green background, '-', border residues have a numbering label)
		→ Modified Residue	(blue background, lower-case, 'x' indicates undefined single-letter code, labelled with number + name)
	x	→ Chemical Group	(purple background, 'x', labelled with number + name, e.g. ACE or NH2)
	extra numbering lines below/above indicate numbering irregularities and modified residue names etc., number ends below/above '\|'

Classification and Annotation

SCOP Domains (0, 0)

(no "SCOP Domain" information available for 2QS6)

CATH Domains (0, 0)

(no "CATH Domain" information available for 2QS6)

Pfam Domains (0, 0)

(no "Pfam Domain" information available for 2QS6)

Gene Ontology (0, 0)

Asymmetric Unit(hide GO term definitions)

(no "Gene Ontology" information available for 2QS6)

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	Ligands, Modified Residues, Ions
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	Sites
(no "Sites" information available for 2qs6)

	Cis Peptide Bonds
(no "Cis Peptide Bonds" information available for 2qs6)

Biological Units
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		Biological Unit 7	[ Jena3D ]

Still Images

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	protein: cartoon or spacefill or dots and stick; nucleic acid: cartoon and stick; ligands: spacefill; active site: stick [ Asym. Unit PNG format \| Biol. Unit 1 PNG format \| Biol. Unit 2 PNG format \| Biol. Unit 3 PNG format \| Biol. Unit 4 PNG format \| Biol. Unit 5 PNG format \| Biol. Unit 6 PNG format \| Biol. Unit 7 PNG format ](automatic orientation, automatically generated)
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