258D | DDF064 - JenaLib

Title :   FACTORS AFFECTING SEQUENCE SELECTIVITY ON NOGALAMYCIN INTERCALATION: THE CRYSTAL STRUCTURE OF D(TGTACA)-NOGALAMYCIN

Authors :   C. K. Smith, J. A. Brannigan, M. H. Moore

Date :   12 May 96 (Deposition) - 20 Jun 96 (Release) - 24 Feb 09 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   1.58

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

Keywords :   B-Dna, Double Helix, Complexed With Drug (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   C. K. Smith, J. A. Brannigan, M. H. Moore
Factors Affecting Dna Sequence Selectivity Of Nogalamycin Intercalation: The Crystal Structure Of D(Tgtaca)2-Nogalamycin2.
J. Mol. Biol. V. 263 237 1996
PubMed-ID: 8913304 | Reference-DOI: 10.1006/JMBI.1996.0572
(for further references see the PDB file header)

Compounds

Structural Features

Chains, Units

Ligands, Modified Residues, Ions (4, 8)

Asymmetric Unit (4, 8)

No.	Name	Count	Type	Full Name
1	ACT	2	Ligand/Ion	ACETATE ION
2	NA	1	Ligand/Ion	SODIUM ION
3	NGM	4	Ligand/Ion	NOGALAMYCIN
4	SPM	1	Ligand/Ion	SPERMINE

Biological Unit 1 (3, 5)

No.	Name	Count	Type	Full Name
1	ACT	2	Ligand/Ion	ACETATE ION
2	NA	-1	Ligand/Ion	SODIUM ION
3	NGM	2	Ligand/Ion	NOGALAMYCIN
4	SPM	1	Ligand/Ion	SPERMINE

Biological Unit 2 (1, 2)

No.	Name	Count	Type	Full Name
1	ACT	-1	Ligand/Ion	ACETATE ION
2	NA	-1	Ligand/Ion	SODIUM ION
3	NGM	2	Ligand/Ion	NOGALAMYCIN
4	SPM	-1	Ligand/Ion	SPERMINE

Sites (8, 8)

Asymmetric Unit (8, 8)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	DT A:1 , DC A:5 , DA A:6 , NGM A:26 , DT B:7 , DG B:8 , DT B:9 , DA B:10 , HOH B:46 , HOH B:81 , HOH B:82 , HOH B:84 , HOH B:95 , HOH B:96 , DA C:18 , DA D:24	BINDING SITE FOR RESIDUE NGM B 25
2	AC2	SOFTWARE	DT A:1 , DG A:2 , DT A:3 , DA A:4 , SPM A:29 , HOH A:44 , HOH A:64 , HOH A:65 , HOH A:77 , HOH A:94 , DC B:11 , DA B:12 , NGM B:25 , ACT B:32	BINDING SITE FOR RESIDUE NGM A 26
3	AC3	SOFTWARE	SPM A:29 , DC C:17 , DA C:18 , DT D:19 , DG D:20 , DT D:21 , DA D:22 , HOH D:73 , HOH D:108 , HOH D:125	BINDING SITE FOR RESIDUE NGM D 27
4	AC4	SOFTWARE	DT A:1 , DG A:2 , DA B:12 , DT C:13 , DG C:14 , DT C:15 , DA C:16 , HOH C:66 , HOH C:71 , HOH C:83 , HOH C:86 , HOH C:113 , HOH C:126 , DC D:23 , DA D:24	BINDING SITE FOR RESIDUE NGM C 28
5	AC5	SOFTWARE	DT A:1 , DA A:6 , NGM A:26 , HOH A:48 , HOH A:72 , DG D:20 , DT D:21 , NGM D:27	BINDING SITE FOR RESIDUE SPM A 29
6	AC6	SOFTWARE	DA B:12 , ACT B:31 , ACT B:32	BINDING SITE FOR RESIDUE NA B 30
7	AC7	SOFTWARE	DC B:11 , DA B:12 , NA B:30 , ACT B:32 , HOH B:106	BINDING SITE FOR RESIDUE ACT B 31
8	AC8	SOFTWARE	NGM A:26 , HOH A:34 , NA B:30 , ACT B:31	BINDING SITE FOR RESIDUE ACT B 32

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

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Chain A from PDB  Type:DNA  Length:6
                                     
                  258d A  1 TGTACA  6

Chain B from PDB  Type:DNA  Length:6
                                     
                  258d B  7 TGTACA 12

Chain C from PDB  Type:DNA  Length:6
                                     
                  258d C 13 TGTACA 18

Chain D from PDB  Type:DNA  Length:6
                                     
                  258d D 19 TGTACA 24

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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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