1CY9A

Crystal structure of the 30 kda fragment of e. coli dna topoisomerase i. monoclinic form
Total Genus 67
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The genus trace: a function that shows values of genus (vertical axis) for subchains spanned between the first residue, and all other residues (shown on horizontal axis). The number of the latter residue and the genus of a given subchain are shown interactively.

Total Genus
67
sequence length
260
structure length
245
Chain Sequence
FVPEEFWEVDASTTTPSGEALALQVTHQNDKPFRPVNKEQTQAAVSLLEKARYSVLEREDKPTTSKPGAPFITSTLQQAASTRLGFGVKKTMMMAQRLYEAGYITYMRTDSTNLSQDAVNMVRGYISDNFGKKYLPESPNQYASHEAIRPSDVNVMAESLKDMEADAQKLYQLIWRQFVACQMTPAKYDSTTLTVGAGDFRLKARGRILRFDGWTKVMDRILPAVNKGDALTLVELTPAQHFTKP
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The genus matrix. At position (x,y) a genus value for a subchain spanned between x’th and y’th residue is shown. Values of the genus are represented by color, according to the scale given on the right.

Structure visualization

After clicking on a point (x,y) in the genus matrix above, a subchain from x to y is shown in color.

Chord Diagram
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publication title Conformational changes in E. coli DNA topoisomerase I.
pubmed doi rcsb
source organism Escherichia coli
molecule tags Isomerase
molecule keywords DNA TOPOISOMERASE I
total genus 67
structure length 245
sequence length 260
chains with identical sequence B
ec nomenclature ec 5.99.1.2: Transferred entry: 5.6.2.2.
pdb deposition date 1999-08-31
Image from the rcsb pdb (www.rcsb.org)
cath code
ClassArchitectureTopologyHomologyDomain
1.10.290.10 Mainly Alpha Orthogonal Bundle Topoisomerase I; domain 4 Topoisomerase I, domain 4 1cy9A01
2.70.20.10 Mainly Beta Distorted Sandwich Topoisomerase I; domain 3 Topoisomerase I, domain 3 1cy9A02
5D5HA 1CY9A 1GL9B 1CY2A 1MW9X 2O59A 4DDWA 2O19A 1CY4A 2O5EA 4CGYA 1CYYA 2GAJA 4CHTA 4DDTA 1GKUB 1CY1A 1CY6A 4DDVA 1D6MA 1CY7A 1CY8A 1I7DA 3PX7A 1CY0A 3PWTA 1ECLA 2GAIA 2O5CA 4RULA 1MW8X 4DDUA 2O54A
chains in the Genus database with same CATH superfamily
4LDBA 4LD8A 5D5HA 1CY9A 1GL9B 1H2DA 4G1LA 1CY2A 4HI6A 1MW9X 4LDMA 4G1OA 2O59A 4LDDA 3F1JA 4DDWA 1H2CA 2VQPA 1ES6A 2O19A 1CY4A 2O5EA 4G1GA 4D4TA 4CGYA 1CYYA 2GAJA 3TCQA 4CHTA 4LP7A 4V23A 4HIWA 4DDTA 4HI5A 1GKUB 4HITA 1CY1A 1CY6A 4DDVA 1D6MA 1CY7A 5B0VA 1CY8A 2YKDA 1I7DA 3PX7A 4HIUA 1CY0A 3PWTA 4HIYA 1ECLA 2GAIA 2O5CA 4RULA 1MW8X 4DDUA 2O54A
chains in the Genus database with same CATH topology
5D5HA 1CY9A 1GL9B 1CY2A 1MW9X 2O59A 4DDWA 2O19A 1CY4A 2O5EA 4CGYA 1CYYA 2GAJA 4CHTA 4DDTA 1GKUB 1CY1A 1CY6A 4DDVA 1D6MA 1CY7A 1CY8A 1I7DA 3PX7A 1CY0A 3PWTA 1ECLA 2GAIA 2O5CA 4RULA 1MW8X 4DDUA 2O54A
chains in the Genus database with same CATH homology


 
#chains in the Genus database with same CATH superfamily
 5D5H A;  1CY9 A;  1GL9 B;  1CY2 A;  1MW9 X;  2O59 A;  4DDW A;  2O19 A;  1CY4 A;  2O5E A;  4CGY A;  1CYY A;  2GAJ A;  4CHT A;  4DDT A;  1GKU B;  1CY1 A;  1CY6 A;  4DDV A;  1D6M A;  1CY7 A;  1CY8 A;  1I7D A;  3PX7 A;  1CY0 A;  3PWT A;  1ECL A;  2GAI A;  2O5C A;  4RUL A;  1MW8 X;  4DDU A;  2O54 A; 
#chains in the Genus database with same CATH topology
 4LDB A;  4LD8 A;  5D5H A;  1CY9 A;  1GL9 B;  1H2D A;  4G1L A;  1CY2 A;  4HI6 A;  1MW9 X;  4LDM A;  4G1O A;  2O59 A;  4LDD A;  3F1J A;  4DDW A;  1H2C A;  2VQP A;  1ES6 A;  2O19 A;  1CY4 A;  2O5E A;  4G1G A;  4D4T A;  4CGY A;  1CYY A;  2GAJ A;  3TCQ A;  4CHT A;  4LP7 A;  4V23 A;  4HIW A;  4DDT A;  4HI5 A;  1GKU B;  4HIT A;  1CY1 A;  1CY6 A;  4DDV A;  1D6M A;  1CY7 A;  5B0V A;  1CY8 A;  2YKD A;  1I7D A;  3PX7 A;  4HIU A;  1CY0 A;  3PWT A;  4HIY A;  1ECL A;  2GAI A;  2O5C A;  4RUL A;  1MW8 X;  4DDU A;  2O54 A; 
#chains in the Genus database with same CATH homology
 5D5H A;  1CY9 A;  1GL9 B;  1CY2 A;  1MW9 X;  2O59 A;  4DDW A;  2O19 A;  1CY4 A;  2O5E A;  4CGY A;  1CYY A;  2GAJ A;  4CHT A;  4DDT A;  1GKU B;  1CY1 A;  1CY6 A;  4DDV A;  1D6M A;  1CY7 A;  1CY8 A;  1I7D A;  3PX7 A;  1CY0 A;  3PWT A;  1ECL A;  2GAI A;  2O5C A;  4RUL A;  1MW8 X;  4DDU A;  2O54 A; 
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similar chains in the Genus database (?% sequence similarity)
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similar chains in the pdb database (?% sequence similarity)

 
#similar chains in the Genus database (?% sequence similarity)
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#similar chains, but unknotted
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