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 |
213
|
sequence length |
630
|
structure length |
630
|
Chain Sequence |
KLDRVRADYNVHYWSQGFYGIDDQGEMYVSPRSDNAHQIQLSKIVKQLEERQLNVPVLVRFPQILHQRVHSICDAFNQAIEEYQYPNKYLLVYPIKVNQQREVVDEILASQAQLETKQLGLEAGSKPELLAVLAMAQHASSVIVCNGYKDREYIRLALIGEKLGHKVFIVLEKMSELDLVLREAKSLGVTPRLGIRIRLASQGAGKWQASGGEKSKFGLSASQVLNVISRLKKENQLDTLQLVHFHLGSQMANIRDVRNGVNESARFYCELRTLGANITYFDVGGGLAIDYDGTRSQSSNSMNYGLVEYARNIVNTVGDVCKDYKQPMPVIISESGRSLTAHHAVLISNVIGTETYKPETVTEPEEDFPLLLNNMWRSWLNLHNGTDARALIEIYNDTQSDLAEVHSQFATGVLTLEHRAWAEQTSLRIYYELNRLMSTKNRFHRPILDELSERLADKFFVNFSLFQSLPDSWGIDQVFPVLPLSGLQNAADRRAVMLDITCDSDGAIDAYVDGQGIESTLPVPAWNEDEPYLMGFFLVGAYQEILGDMHNLFGDTHSVVVNVGDQGEINIDFINEGDTVEDMMRYVHIDVDQIRKNYHSLVSQRVDQEEQQQILAELEQGLSGYTYLED
|
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.
| molecule keywords |
Biosynthetic arginine decarboxylase
|
| publication title |
Evolution of substrate specificity within a diverse family of beta/alpha-barrel-fold basic amino acid decarboxylases: X-ray structure determination of enzymes with specificity for L-arginine and carboxynorspermidine.
pubmed doi rcsb |
| source organism |
Vibrio vulnificus
|
| molecule tags |
Lyase
|
| total genus |
213
|
| structure length |
630
|
| sequence length |
630
|
| chains with identical sequence |
B, C, D
|
| ec nomenclature |
ec
4.1.1.19: Arginine decarboxylase. |
| pdb deposition date | 2010-05-18 |
| chain | Pfam Accession Code | Pfam Family Identifier | Pfam Description |
|---|---|---|---|
| A | PF02784 | Orn_Arg_deC_N | Pyridoxal-dependent decarboxylase, pyridoxal binding domain |
| A | PF17810 | Arg_decarb_HB | Arginine decarboxylase helical bundle domain |
| A | PF17944 | Arg_decarbox_C | Arginine decarboxylase C-terminal helical extension |
Image from the rcsb pdb (www.rcsb.org)
cath code
| Class | Architecture | Topology | Homology | Domain |
|---|---|---|---|---|---|
| Mainly Alpha | Up-down Bundle | Methane Monooxygenase Hydroxylase; Chain G, domain 1 | Methane Monooxygenase Hydroxylase; Chain G, domain 1 | ||
| Mainly Beta | Beta Barrel | Lyase, Ornithine Decarboxylase; Chain A, domain 1 | Lyase, Ornithine Decarboxylase; Chain A, domain 1 | ||
| Alpha Beta | Alpha-Beta Barrel | TIM Barrel | Alanine racemase |
