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 |
60
|
sequence length |
186
|
structure length |
175
|
Chain Sequence |
KQSHFFAHLSRLKLINRWPLMRNVRTENVSEHSLQVAMVAHALAAIKNRKFGGNVNAERIALLAMYHDASAVLTGDLPTEYKAIEKIAQQKLVDMVPEELRDIFAPLIDEHAYSDEEKSLVKQADALCAYLKCLEELAAGNNEFLLAKTRLEATLEARRSQEMDYFMEIFVPSFH
|
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.
After clicking on a point (x,y) in the genus matrix above, a subchain from x to y is shown in color.
| publication title |
Structural insight into the mechanism of substrate specificity and catalytic activity of an HD-domain phosphohydrolase: the 5'-deoxyribonucleotidase YfbR from Escherichia coli.
pubmed doi rcsb |
| molecule keywords |
5'-deoxynucleotidase YfbR
|
| molecule tags |
Hydrolase
|
| source organism |
Escherichia coli
|
| total genus |
60
|
| structure length |
175
|
| sequence length |
186
|
| chains with identical sequence |
B
|
| ec nomenclature |
ec
3.1.3.89: 5'-deoxynucleotidase. |
| pdb deposition date | 2007-03-27 |
| chain | Pfam Accession Code | Pfam Family Identifier | Pfam Description |
|---|---|---|---|
| A | PF01966 | HD | HD domain |
Image from the rcsb pdb (www.rcsb.org)
cath code
| Class | Architecture | Topology | Homology | Domain |
|---|---|---|---|---|---|
| Mainly Alpha | Orthogonal Bundle | Hypothetical protein af1432 | Hypothetical protein af1432 |
#chains in the Genus database with same CATH superfamily 2DQB A; 3LJX A; 4TNZ A; 4RXQ A; 4TO6 A; 4R8Z A; 3CCG A; 4TNR A; 5AO3 A; 3BG2 A; 4L7W A; 4TO0 A; 5TK6 A; 3RF0 A; 4BZC A; 4QFY A; 2PGS A; 2Q14 A; 4MCW A; 4RXO A; 4QFX A; 3HC1 A; 2GZ4 A; 4QG4 A; 5AO0 A; 3TMD A; 4ZWG A; 2OGI A; 4DMB A; 4TNP A; 5AO2 A; 4MZ7 A; 1YOY A; 4TO2 A; 3IRH A; 2CQZ A; 4RXR A; 4RXS A; 1XX7 A; 5AO4 A; 2PQ7 A; 1VJ7 A; 3TMB A; 3MEM A; 4MLM A; 4XDS A; 4ME4 A; 4MLN A; 2PAU A; 3NR1 A; 5AO1 A; 4N6W A; 3TMC A; 3M1T A; 3TM8 A; 5TK9 A; 5TK8 A; 4TNY A; 2PAR A; 4N71 A; 1YNB A; 4RXP A; 4QG2 A; 4MDZ A; 3MZO A; 4TNX A; 3HI0 A; 4ZWE A; 2O6I A; 1U6Z A; 4BZB A; 4TO3 A; 4L1J A; 4QG0 A; 5TK7 A; 2HEK A; 2FLO A; 4TO1 A; 4X9E A; 3KH1 A; 3I7A A; 3U1N A; 4L7E A; 4TO4 A; 3P3Q A; 2PAQ A; 4QG1 A; 4LRL A; 4TNQ A; 3NQW A; 4TO5 A; 2O08 A; 4Q7H A; 1VQR A; 5TKA A; 4QFZ A; 4L1J B; #chains in the Genus database with same CATH topology 2DQB A; 3LJX A; 4TNZ A; 4RXQ A; 4TO6 A; 4R8Z A; 3CCG A; 4TNR A; 5AO3 A; 3BG2 A; 4L7W A; 4TO0 A; 3S4L A; 5TK6 A; 3RF0 A; 4BZC A; 4QFY A; 2PGS A; 2Q14 A; 4MCW A; 4Q2C A; 4Q2D A; 4RXO A; 4QFX A; 3HC1 A; 2GZ4 A; 4QG4 A; 5AO0 A; 3TMD A; 4ZWG A; 2OGI A; 4DMB A; 3GW7 A; 4TNP A; 5AO2 A; 4MZ7 A; 1YOY A; 4TO2 A; 3IRH A; 2CQZ A; 4RXR A; 4RXS A; 3SKD A; 1XX7 A; 5AO4 A; 2PQ7 A; 1VJ7 A; 4QQW A; 4QQZ A; 3TMB A; 3MEM A; 4MLM A; 4XDS A; 4ME4 A; 4MLN A; 2PAU A; 3NR1 A; 5AO1 A; 4N6W A; 3TMC A; 3M1T A; 3TM8 A; 3KQ5 A; 5TK9 A; 5TK8 A; 4TNY A; 2PAR A; 4N71 A; 1YNB A; 4RXP A; 4QG2 A; 4MDZ A; 3MZO A; 4TNX A; 3HI0 A; 4QQY A; 4ZWE A; 2O6I A; 1U6Z A; 4BZB A; 3SK9 A; 4TO3 A; 4L1J A; 4QG0 A; 5TK7 A; 2HEK A; 2FLO A; 4TO1 A; 4X9E A; 3KH1 A; 3I7A A; 3U1N A; 4L7E A; 4TO4 A; 3P3Q A; 2PAQ A; 4QQX A; 4QG1 A; 4LRL A; 4TNQ A; 3NQW A; 4TO5 A; 2O08 A; 4Q7H A; 1VQR A; 5TKA A; 4QFZ A; 4L1J B; #chains in the Genus database with same CATH homology 2DQB A; 3LJX A; 4TNZ A; 4RXQ A; 4TO6 A; 4R8Z A; 3CCG A; 4TNR A; 5AO3 A; 3BG2 A; 4L7W A; 4TO0 A; 3S4L A; 5TK6 A; 3RF0 A; 4BZC A; 4QFY A; 2PGS A; 2Q14 A; 4MCW A; 4Q2C A; 4Q2D A; 4RXO A; 4QFX A; 3HC1 A; 2GZ4 A; 4QG4 A; 5AO0 A; 3TMD A; 4ZWG A; 2OGI A; 4DMB A; 3GW7 A; 4TNP A; 5AO2 A; 4MZ7 A; 1YOY A; 4TO2 A; 3IRH A; 2CQZ A; 4RXR A; 4RXS A; 3SKD A; 1XX7 A; 5AO4 A; 2PQ7 A; 1VJ7 A; 4QQW A; 4QQZ A; 3TMB A; 3MEM A; 4MLM A; 4XDS A; 4ME4 A; 4MLN A; 2PAU A; 3NR1 A; 5AO1 A; 4N6W A; 3TMC A; 3M1T A; 3TM8 A; 3KQ5 A; 5TK9 A; 5TK8 A; 4TNY A; 2PAR A; 4N71 A; 1YNB A; 4RXP A; 4QG2 A; 4MDZ A; 3MZO A; 4TNX A; 3HI0 A; 4QQY A; 4ZWE A; 2O6I A; 1U6Z A; 4BZB A; 3SK9 A; 4TO3 A; 4L1J A; 4QG0 A; 5TK7 A; 2HEK A; 2FLO A; 4TO1 A; 4X9E A; 3KH1 A; 3I7A A; 3U1N A; 4L7E A; 4TO4 A; 3P3Q A; 2PAQ A; 4QQX A; 4QG1 A; 4LRL A; 4TNQ A; 3NQW A; 4TO5 A; 2O08 A; 4Q7H A; 1VQR A; 5TKA A; 4QFZ A; 4L1J B;
#similar chains in the Genus database (?% sequence similarity) ...loading similar chains, please wait... #similar chains, but unknotted ...loading similar chains, please wait... #similar chains in the pdb database (?% sequence similarity) ...loading similar chains, please wait...
