4EPDA

Initial urease structure for radiation damage experiment at 300 k
Total Genus 30
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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
30
sequence length
100
structure length
100
Chain Sequence
MELTPREKDKLLLFTAALVAERRLARGLKLNYPESVALISAFIMEGARDGKSVASLMEEGRHVLTREQVMEGVPEMIPDIQVEATFPDGSKLVTVHNPII
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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.

molecule tags Hydrolase
molecule keywords Urease subunit alpha
publication title Spatial distribution of radiation damage to crystalline proteins at 25-300 K.
pubmed doi rcsb
source organism Enterobacter aerogenes
total genus 30
structure length 100
sequence length 100
ec nomenclature ec 3.5.1.5: Urease.
pdb deposition date 2012-04-17

pfam database annotations

chain Pfam Accession Code Pfam Family Identifier Pfam Description
A PF00547 Urease_gamma Urease, gamma subunit
Image from the rcsb pdb (www.rcsb.org)
cath code
ClassArchitectureTopologyHomologyDomain
3.30.280.10 Alpha Beta 2-Layer Sandwich Urease; subunit A Urease, gamma-like subunit 4epdA00
5FSEA 1FWAA 1FWGA 4UBPA 4EPEA 1IE7A 1E9ZA 1KRBA 1A5NA 1EF2C 1KRAA 4GY7A 1EJTA 1EJWA 1EJVA 1FWIA 5A6TA 4EP8A 1FWDA 5G4HA 1A5KA 1FWFA 1EJXA 4Z42A 1FWEA 2UBPA 3UBPA 1A5OA 4H9MA 4GOAA 1E9YA 3QGAA 1EJUA 4G7EA 1EJRA 4CEXA 1FWHA 2KAUA 2FVHA 5FSDA 4AC7A 3LA4A 1FWCA 4EPBA 4EPDA 4FURA 1KRCA 1S3TA 4G7EB 1FWBA 3QGKA 1A5MA 1FWJA 4CEUA 1EJSA 1UBPA 1A5LA
chains in the Genus database with same CATH superfamily
5FSEA 1FWAA 1FWGA 4UBPA 4EPEA 1IE7A 1E9ZA 1KRBA 1A5NA 1EF2C 1KRAA 4GY7A 1EJTA 1EJWA 1EJVA 1FWIA 5A6TA 4EP8A 1FWDA 5G4HA 1A5KA 1FWFA 1EJXA 4Z42A 1FWEA 2UBPA 3UBPA 1A5OA 4H9MA 4GOAA 1E9YA 3QGAA 1EJUA 4G7EA 1EJRA 4CEXA 1FWHA 2KAUA 2FVHA 5FSDA 4AC7A 3LA4A 1FWCA 4EPBA 4EPDA 4FURA 1KRCA 1S3TA 4G7EB 1FWBA 3QGKA 1A5MA 1FWJA 4CEUA 1EJSA 1UBPA 1A5LA
chains in the Genus database with same CATH topology
5FSEA 1FWAA 1FWGA 4UBPA 4EPEA 1IE7A 1E9ZA 1KRBA 1A5NA 1EF2C 1KRAA 4GY7A 1EJTA 1EJWA 1EJVA 1FWIA 5A6TA 4EP8A 1FWDA 5G4HA 1A5KA 1FWFA 1EJXA 4Z42A 1FWEA 2UBPA 3UBPA 1A5OA 4H9MA 4GOAA 1E9YA 3QGAA 1EJUA 4G7EA 1EJRA 4CEXA 1FWHA 2KAUA 2FVHA 5FSDA 4AC7A 3LA4A 1FWCA 4EPBA 4EPDA 4FURA 1KRCA 1S3TA 4G7EB 1FWBA 3QGKA 1A5MA 1FWJA 4CEUA 1EJSA 1UBPA 1A5LA
chains in the Genus database with same CATH homology


 
#chains in the Genus database with same CATH superfamily
 5FSE A;  1FWA A;  1FWG A;  4UBP A;  4EPE A;  1IE7 A;  1E9Z A;  1KRB A;  1A5N A;  1EF2 C;  1KRA A;  4GY7 A;  1EJT A;  1EJW A;  1EJV A;  1FWI A;  5A6T A;  4EP8 A;  1FWD A;  5G4H A;  1A5K A;  1FWF A;  1EJX A;  4Z42 A;  1FWE A;  2UBP A;  3UBP A;  1A5O A;  4H9M A;  4GOA A;  1E9Y A;  3QGA A;  1EJU A;  4G7E A;  1EJR A;  4CEX A;  1FWH A;  2KAU A;  2FVH A;  5FSD A;  4AC7 A;  3LA4 A;  1FWC A;  4EPB A;  4EPD A;  4FUR A;  1KRC A;  1S3T A;  4G7E B;  1FWB A;  3QGK A;  1A5M A;  1FWJ A;  4CEU A;  1EJS A;  1UBP A;  1A5L A; 
#chains in the Genus database with same CATH topology
 5FSE A;  1FWA A;  1FWG A;  4UBP A;  4EPE A;  1IE7 A;  1E9Z A;  1KRB A;  1A5N A;  1EF2 C;  1KRA A;  4GY7 A;  1EJT A;  1EJW A;  1EJV A;  1FWI A;  5A6T A;  4EP8 A;  1FWD A;  5G4H A;  1A5K A;  1FWF A;  1EJX A;  4Z42 A;  1FWE A;  2UBP A;  3UBP A;  1A5O A;  4H9M A;  4GOA A;  1E9Y A;  3QGA A;  1EJU A;  4G7E A;  1EJR A;  4CEX A;  1FWH A;  2KAU A;  2FVH A;  5FSD A;  4AC7 A;  3LA4 A;  1FWC A;  4EPB A;  4EPD A;  4FUR A;  1KRC A;  1S3T A;  4G7E B;  1FWB A;  3QGK A;  1A5M A;  1FWJ A;  4CEU A;  1EJS A;  1UBP A;  1A5L A; 
#chains in the Genus database with same CATH homology
 5FSE A;  1FWA A;  1FWG A;  4UBP A;  4EPE A;  1IE7 A;  1E9Z A;  1KRB A;  1A5N A;  1EF2 C;  1KRA A;  4GY7 A;  1EJT A;  1EJW A;  1EJV A;  1FWI A;  5A6T A;  4EP8 A;  1FWD A;  5G4H A;  1A5K A;  1FWF A;  1EJX A;  4Z42 A;  1FWE A;  2UBP A;  3UBP A;  1A5O A;  4H9M A;  4GOA A;  1E9Y A;  3QGA A;  1EJU A;  4G7E A;  1EJR A;  4CEX A;  1FWH A;  2KAU A;  2FVH A;  5FSD A;  4AC7 A;  3LA4 A;  1FWC A;  4EPB A;  4EPD A;  4FUR A;  1KRC A;  1S3T A;  4G7E B;  1FWB A;  3QGK A;  1A5M A;  1FWJ A;  4CEU A;  1EJS A;  1UBP A;  1A5L 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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