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 |
77
|
sequence length |
295
|
structure length |
295
|
Chain Sequence |
PQVYHVDAFTSQPFRGNSAGVVFPADNLSEAQMQLIARELGHSETAFLLHSDDSDVRIRYFTPTVEVPICGHATVAAHYVRAKVLGLGNCTIWQTSLAGKHRVTIEKHNDDYRISLEQGTPGFEPPLEGETRAAIINALHLTEDDILPGLPIQVATTGHSKVMIPLKPEVDIDALSPDLNALTAISKKIGCNGFFPFQIRPGKNETDGRMFSPAIGIVEDPVTGNANGPMGAWLVHHNVLPHDGNVLRVKGHQGRALGRDGMIEVTVTIRDNQPEKVTISGTAVILFHAEWAIEL
|
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 |
Crystal structure of E. coli yddE protein reveals a striking homology with diaminopimelate epimerase
pubmed doi rcsb |
| molecule tags |
Unknown function
|
| source organism |
Escherichia coli
|
| molecule keywords |
HYPOTHETICAL PROTEIN yddE
|
| total genus |
77
|
| structure length |
295
|
| sequence length |
295
|
| chains with identical sequence |
B, C, D
|
| ec nomenclature | |
| pdb deposition date | 2003-09-10 |
| chain | Pfam Accession Code | Pfam Family Identifier | Pfam Description |
|---|---|---|---|
| A | PF02567 | PhzC-PhzF | Phenazine biosynthesis-like protein |
Image from the rcsb pdb (www.rcsb.org)
cath code
| Class | Architecture | Topology | Homology | Domain |
|---|---|---|---|---|---|
| Alpha Beta | Roll | Diaminopimelate Epimerase; Chain A, domain 1 | Diaminopimelate Epimerase; Chain A, domain 1 | ||
| Alpha Beta | Roll | Diaminopimelate Epimerase; Chain A, domain 1 | Diaminopimelate Epimerase; Chain A, domain 1 |
#chains in the Genus database with same CATH superfamily 4J9X A; 3EKM A; 2Q9J A; 1U1X A; 2GKJ A; 1SDJ A; 1T6K A; 4JBD A; 4JD7 A; 1U0K A; 4IK0 A; 4K7G B; 4LB0 A; 1GQZ A; 3G7K A; 1U1V A; 2H9F A; 1W62 A; 1YM5 A; 5IWE A; 1S7J A; 1BWZ A; 2GKE A; 4JCI A; 1U1W A; 1QYA A; 2PW0 A; 2PVZ A; 1QY9 A; 4Q2H A; 4Q60 A; 4DUN A; 1XUB A; 2Q9H A; 3EJX A; 3FVE A; 4IJZ A; 1XUA A; 4J9W A; 3EDN A; 5M47 A; 4K8L A; 1TM0 A; 5HA4 A; 5H2G A; 1W61 A; 2OTN A; 4JUU A; 2AZP A; 4K7X A; 5H2Y A; #chains in the Genus database with same CATH topology 4JBD A; 4K7G B; 3G7K A; 2H9F A; 1YM5 A; 2GKE A; 4JCI A; 2ENX A; 2PW0 A; 2PVZ A; 1QY9 A; 3W5W A; 1XUB A; 2Q9H A; 3EJX A; 4IJZ A; 3DEV A; 4K8L A; 4RPA A; 2IW4 A; 4JUU A; 2ZXO A; 5H2Y A; 4PY9 A; 1K23 A; 2Q9J A; 1T6K A; 4JD7 A; 3WQZ A; 5ANP A; 3PTJ A; 1K20 A; 1U1V A; 1S7J A; 3PW9 A; 2YMA A; 3PVH A; 4LS9 A; 1XUA A; 5M47 A; 1W61 A; 4DUN A; 1WPM A; 1U1X A; 1SDJ A; 1U0K A; 2EB0 A; 2QB8 A; 4IK0 A; 4LB0 A; 2ZVF A; 2KW7 A; 3IGH X; 1BWZ A; 2LT2 A; 1QYA A; 4Q60 A; 2KPT A; 4OA3 A; 3EDN A; 5HA4 A; 5H2G A; 2ZXR A; 2AZP A; 4K7X A; 1TM0 A; 3ICJ A; 4J9X A; 3G98 A; 3EKM A; 1I74 A; 2GKJ A; 2HAW A; 4LG3 A; 1GQZ A; 4GL6 A; 1W62 A; 5IWE A; 1WPP A; 1U1W A; 4Q2H A; 1IR6 A; 2QB7 A; 3FVE A; 4J9W A; 2QB6 A; 2ZXP A; 2OTN A; 2MPB A; #chains in the Genus database with same CATH homology 4JBD A; 4K7G B; 3G7K A; 2H9F A; 1YM5 A; 2GKE A; 4JCI A; 2ENX A; 2PW0 A; 2PVZ A; 1QY9 A; 3W5W A; 1XUB A; 2Q9H A; 3EJX A; 4IJZ A; 3DEV A; 4K8L A; 4RPA A; 2IW4 A; 4JUU A; 2ZXO A; 5H2Y A; 4PY9 A; 1K23 A; 2Q9J A; 1T6K A; 4JD7 A; 3WQZ A; 5ANP A; 3PTJ A; 1K20 A; 1U1V A; 1S7J A; 3PW9 A; 2YMA A; 3PVH A; 4LS9 A; 1XUA A; 5M47 A; 1W61 A; 4DUN A; 1WPM A; 1U1X A; 1SDJ A; 1U0K A; 2EB0 A; 2QB8 A; 4IK0 A; 4LB0 A; 2ZVF A; 2KW7 A; 3IGH X; 1BWZ A; 2LT2 A; 1QYA A; 4Q60 A; 2KPT A; 4OA3 A; 3EDN A; 5HA4 A; 5H2G A; 2ZXR A; 2AZP A; 4K7X A; 1TM0 A; 3ICJ A; 4J9X A; 3G98 A; 3EKM A; 1I74 A; 2GKJ A; 2HAW A; 4LG3 A; 1GQZ A; 4GL6 A; 1W62 A; 5IWE A; 1WPP A; 1U1W A; 4Q2H A; 1IR6 A; 2QB7 A; 3FVE A; 4J9W A; 2QB6 A; 2ZXP A; 2OTN A; 2MPB A;
#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...
