1QZQ | Genus

Total Genus 147

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	147
sequence length	448
structure length	439
Chain Sequence	GNPFQFYLTRVSGVKPKYNSGALHIKDILSPLFGTLVSSAQFNYCFDVDWLVKQYPPEFRKKPILLVHGDKREAKAHLHAQAKPYENISLCQAKLDIAFGTHHTKMMLLLYEEGLRVVIHTSNLIHADWHQKTQGIWLSPLYPRIADGTHKSGESPTHFKADLISYLMAYNAPSLKEWIDVIHKHDLSETNVYLIGSTPGRFQGSQKDNWGHFRLKKLLKDHASSMPNAESWPVVGQFSSVGSLGADESKWLCSEFKESMLTLGKESKTPGKSSVPLYLIYPSVENVRTSLEGYPAGGSLPYSIQTAEKQNWLHSYFHKWSAETSGRSNAMPHIKTYMRPSPDFSKIAWFLVTSANLSKAAWGALEKNGTQLMIRSYELGVLFLPSAFGLDSFKVKQKFTFPVPYDLPPELYGSKDRPWIWNIPYVKAPDTHGNMWVPS

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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

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reading 439 atoms

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439 atoms created

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

Genus data interpretation

Chord Diagram

publication title	Analysis of Human Tyrosyl-DNA Phosphodiesterase I Catalytic Residues. pubmed doi rcsb
molecule keywords	tyrosyl-DNA phosphodiesterase 1
molecule tags	Hydrolase, dna binding protein
source organism	Homo sapiens
total genus	147
structure length	439
sequence length	448
chains with identical sequence	B
ec nomenclature
pdb deposition date	2003-09-17

pfam database annotations

chain	Pfam Accession Code	Pfam Family Identifier	Pfam Description
A	PF06087	Tyr-DNA_phospho	Tyrosyl-DNA phosphodiesterase

Image from the rcsb pdb (www.rcsb.org)

cath code	Class	Architecture	Topology	Homology	Domain
3.30.870.10	Alpha Beta	2-Layer Sandwich	Endonuclease; Chain A	Endonuclease Chain A	1qzqA01
3.30.870.20	Alpha Beta	2-Layer Sandwich	Endonuclease; Chain A	Phospholipase D/nuclease; domain 2	1qzqA02

1JY1A 2C1LA 2ZE9A 5BQTA 1XDOA 2ZE4A 3SQ5A 1V0TA 1QZQA 2O8RA 2F5TX 1RGUA 4GGJA 3SQ7A 1MU7A 1XDPA 3QPHA 4GELA 1RH0A 1RGTA 4RCTA 1V0WA 4URJA 1MU9A 1V0RA 5BPDA 1V0SA 4H4AA 5LZKA 1V0UA 1NOPA 1RG2A 1V0VA 4GGKA 5BOXA 1BYSA 3SQ3A 3SQ8A 1RFFA 1BYRA 4GENA 1RFIA 1Q32A 1V0YA 3HSIA 4GEMA 1F0IA 1RG1A 5BPIA
chains in the Genus database with same CATH superfamily

1JY1A 2C1LA 2ZE9A 5BQTA 1XDOA 3R3PA 2ZE4A 3SQ5A 1V0TA 1QZQA 2O8RA 2F5TX 1RGUA 4GGJA 3SQ7A 1MU7A 1XDPA 3QPHA 4GELA 1RH0A 2YMBA 1RGTA 4RCTA 1V0WA 4URJA 1MU9A 3HRLA 1V0RA 5BPDA 1V0SA 4H4AA 5LZKA 1V0UA 1ODGA 1NOPA 1RG2A 1V0VA 4GGKA 5BOXA 1BYSA 3SQ3A 3SQ8A 1RFFA 1VSRA 1BYRA 4GENA 4A5ZA 1RFIA 1Q32A 1CW0A 1V0YA 3HSIA 4GEMA 1F0IA 1RG1A 5BPIA
chains in the Genus database with same CATH topology

#chains in the Genus database with same CATH superfamily
 1JY1 A;  2C1L A;  2ZE9 A;  5BQT A;  1XDO A;  2ZE4 A;  3SQ5 A;  1V0T A;  1QZQ A;  2O8R A;  2F5T X;  1RGU A;  4GGJ A;  3SQ7 A;  1MU7 A;  1XDP A;  3QPH A;  4GEL A;  1RH0 A;  1RGT A;  4RCT A;  1V0W A;  4URJ A;  1MU9 A;  1V0R A;  5BPD A;  1V0S A;  4H4A A;  5LZK A;  1V0U A;  1NOP A;  1RG2 A;  1V0V A;  4GGK A;  5BOX A;  1BYS A;  3SQ3 A;  3SQ8 A;  1RFF A;  1BYR A;  4GEN A;  1RFI A;  1Q32 A;  1V0Y A;  3HSI A;  4GEM A;  1F0I A;  1RG1 A;  5BPI A; 
#chains in the Genus database with same CATH topology
 1JY1 A;  2C1L A;  2ZE9 A;  5BQT A;  1XDO A;  3R3P A;  2ZE4 A;  3SQ5 A;  1V0T A;  1QZQ A;  2O8R A;  2F5T X;  1RGU A;  4GGJ A;  3SQ7 A;  1MU7 A;  1XDP A;  3QPH A;  4GEL A;  1RH0 A;  2YMB A;  1RGT A;  4RCT A;  1V0W A;  4URJ A;  1MU9 A;  3HRL A;  1V0R A;  5BPD A;  1V0S A;  4H4A A;  5LZK A;  1V0U A;  1ODG A;  1NOP A;  1RG2 A;  1V0V A;  4GGK A;  5BOX A;  1BYS A;  3SQ3 A;  3SQ8 A;  1RFF A;  1VSR A;  1BYR A;  4GEN A;  4A5Z A;  1RFI A;  1Q32 A;  1CW0 A;  1V0Y A;  3HSI A;  4GEM A;  1F0I A;  1RG1 A;  5BPI A; 
#chains in the Genus database with same CATH homology
 1JY1 A;  2C1L A;  2ZE9 A;  5BQT A;  1XDO A;  2ZE4 A;  3SQ5 A;  1V0T A;  1QZQ A;  2O8R A;  2F5T X;  1RGU A;  4GGJ A;  3SQ7 A;  1MU7 A;  1XDP A;  3QPH A;  4GEL A;  1RH0 A;  1RGT A;  4RCT A;  1V0W A;  4URJ A;  1MU9 A;  1V0R A;  5BPD A;  1V0S A;  4H4A A;  5LZK A;  1V0U A;  1NOP A;  1RG2 A;  1V0V A;  4GGK A;  5BOX A;  1BYS A;  3SQ3 A;  3SQ8 A;  1RFF A;  1BYR A;  4GEN A;  1RFI A;  1Q32 A;  1V0Y A;  3HSI A;  4GEM A;  1F0I A;  1RG1 A;  5BPI 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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#similar chains in the pdb database (?% sequence similarity)
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1QZQA

Total Genus

sequence length

structure length

Chain Sequence

Structure visualization

Chord Diagram

connected with : NaN

pfam database annotations