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 |
177
|
sequence length |
538
|
structure length |
538
|
Chain Sequence |
SQPNNFPAEIPLYKQSFKNWAGDIKVDDVWTCAPRSADEVVKVANWAKDNGYKVRARGMMHNWSPLTLAAGVSCPAVVLLDTTRYLTAMSIDASGPVAKVTAQAGITMEALLTGLEKAGLGVTAAPAPGDLTLGGVLAINGHGTAIPAKGERRLAGASYGSISNLVLSLTAVVYDKASGAYALRKFARNDPQIAPLLAHVGRSLIVEATLQAAPNQRLRCQSWFNIPYGEMFAAAGSGGRTFASYLDSAGRVEAIWFPFTSNPWLKVWTVTPNKPLFSRQTDKPFNYPFSDNLPDEVTDLANKILSLGDGKLTPAFGKAQFAAASAGLVATASWDLWGWSKNLLLYVKPTTLRVTANGYAVLTRRENVQRVLNEFVTFYQARVQAYQQQGRYPMNGPVEIRVTGLDDPSEAALSGGVAPALSAIRPRPDHPEWNVAVWLDILTLPGTPYANQFYREIEQWIEANFNGSYAAVRPEWSKGWGYTDQAAWADSAMLQTTIPNAFRAGQPAAANWDAAKAALAAYDPYRLFSSPLLDSLGL
|
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 characterization of the organic solvent-stable cholesterol oxidase from Chromobacterium sp. DS-1.
pubmed doi rcsb |
| molecule tags |
Oxidoreductase
|
| source organism |
Chromobacterium sp. ds-1
|
| molecule keywords |
Cholesterol oxidase
|
| total genus |
177
|
| structure length |
538
|
| sequence length |
538
|
| ec nomenclature |
ec
1.1.3.6: Cholesterol oxidase. |
| pdb deposition date | 2009-09-09 |
| chain | Pfam Accession Code | Pfam Family Identifier | Pfam Description |
|---|---|---|---|
| A | PF01565 | FAD_binding_4 | FAD binding domain |
| A | PF09129 | Chol_subst-bind | Cholesterol oxidase, substrate-binding |
Image from the rcsb pdb (www.rcsb.org)
cath code
| Class | Architecture | Topology | Homology | Domain |
|---|---|---|---|---|---|
| Mainly Alpha | Orthogonal Bundle | Vanillyl-alcohol Oxidase; Chain A, domain 4 | Vanillyl-alcohol Oxidase; Chain A, domain 4 | ||
| Alpha Beta | 2-Layer Sandwich | Uridine Diphospho-n-acetylenolpyruvylglucosamine Reductase; domain 2 | Uridine Diphospho-n-acetylenolpyruvylglucosamine Reductase, domain 2 | ||
| Alpha Beta | 2-Layer Sandwich | Uridine Diphospho-n-acetylenolpyruvylglucosamine Reductase; domain 3 | Uridine Diphospho-n-acetylenolpyruvylglucosamine Reductase; domain 3 | ||
| Alpha Beta | 3-Layer(aba) Sandwich | Vanillyl-alcohol Oxidase; Chain A, domain 3 | FAD-linked oxidases, C-terminal domain |
#chains in the Genus database with same CATH superfamily 2QKN A; 3SR6 B; 4DNS A; 1W1M A; 3AMZ A; 3NS1 B; 5HHZ A; 1ZXI C; 1W1J A; 5FXF A; 2BVG A; 2O3G A; 1T3Q C; 3NVZ B; 3VTE A; 5FXE A; 2Q85 A; 1ZR6 A; 3NVV B; 1FO4 A; 4PWC A; 2MBR A; 3S1C A; 1RM6 B; 2BVH A; 1I19 A; 4PVH A; 1F0X A; 4JB1 A; 1DII A; 2PLI A; 2EXR A; 5HMR A; 3TX1 A; 2NQW A; 4PVE A; 2W3R A; 1E8F A; 2GQU A; 1AHV A; 1FFU C; 4PYT A; 1VAO A; 4BC9 A; 4PWB A; 5AE1 A; 2W55 A; 1WYG A; 5HQX A; 5G5G B; 1QLU A; 4BBY A; 4OAL A; 1WVE A; 2OAI A; 1FFV C; 3B9J B; 2R2Z A; 1VDV A; 1W1Q A; 3GSY A; 3PM9 A; 4O95 A; 5D79 A; 2VFU A; 3FWA A; 1DZN A; 3FW7 A; 4BCA A; 2I0K A; 2Q4W A; 1AHZ A; 5AE2 A; 2P3H A; 4PVK A; 3I99 A; 3TSH A; 3DED A; 2AXR A; 4ZOH B; 1WVF A; 2E3T A; 3EUB 3; 2BVF A; 2RK5 A; 5G5H B; 1DIQ A; 1W1K A; 2VFV A; 5AE3 A; 1W1S A; 3JS8 A; 1W1O A; 2GQT A; 3D2D A; 1E0Y A; 4HG0 A; 4BC7 A; 3DQ0 A; 4JAY A; 3HRD C; 1MBB A; 1SB3 B; 5FXP A; 3W8Z A; 2VFS A; 3LLB A; 2VFR A; 3D2H A; 2QPM A; 3S1D A; 4PZF A; 4PVJ A; 1N60 C; 3D2J A; 1E8G A; 2P4P A; 1QLT A; 4XLO A; 1JRO A; 3NVY B; 2PLS A; 3NVW B; 5FXD A; 3ETR B; 3C0P A; 2R8D A; 4UD8 A; 3LAE A; 3AM9 A; 4ML8 A; 3NRZ B; 1N61 C; 1E8H A; 3AN1 A; 1W1R A; 2W54 A; 2YVS A; 1FIQ B; 1UXY A; 1MBT A; 1N62 C; 1JRP A; 1W1L A; 2VFT A; 1V97 A; 1N5W C; 3KJM A; 2P13 A; 3FW9 A; 3S1F A; 5ADZ A; 2VAO A; 3BW7 A; 3S1E A; 3FW8 A; 1N63 C; 4MLA A; 2W3S A; 1N5X A; 4EC3 A; 3W8X A; 1HSK A; 3W8W A; 1AHU A; 3TSJ A; #chains in the Genus database with same CATH topology 3EJB B; 2QKN A; 3SR6 B; 4DNS A; 1W1M A; 3AMZ A; 3NS1 B; 5HHZ A; 2WDW A; 1ZXI C; 1W1J A; 5FXF A; 2Y08 A; 2BVG A; 2Y3R A; 2O3G A; 1T3Q C; 3NVZ B; 3POP A; 3VTE A; 5FXE A; 5K8E A; 2Q85 A; 1ZR6 A; 3NVV B; 1FO4 A; 4PWC A; 2Y3S A; 2MBR A; 3S1C A; 1RM6 B; 2BVH A; 1I19 A; 4PVH A; 1F0X A; 4JB1 A; 1DII A; 2PLI A; 2EXR A; 2UUV A; 5HMR A; 3TX1 A; 2NQW A; 4PVE A; 3HSU A; 2W3R A; 1E8F A; 2GQU A; 1AHV A; 1FFU C; 4PYT A; 1VAO A; 4BC9 A; 4PWB A; 5AE1 A; 2W55 A; 1WYG A; 5HQX A; 5G5G B; 3PQB A; 1QLU A; 4BBY A; 4OAL A; 3EJD B; 3RJ8 A; 1WVE A; 2OAI A; 1FFV C; 3B9J B; 2R2Z A; 1VDV A; 1W1Q A; 3GSY A; 3PM9 A; 4O95 A; 5D79 A; 2VFU A; 3FWA A; 1DZN A; 3FW7 A; 4BCA A; 2I0K A; 2Q4W A; 1AHZ A; 5AE2 A; 2P3H A; 4PVK A; 2IPI A; 3I99 A; 2UUU A; 3TSH A; 3DED A; 2AXR A; 4ZOH B; 5L6G A; 3RJA A; 1WVF A; 2E3T A; 3EUB 3; 2BVF A; 2RK5 A; 5G5H B; 1DIQ A; 1W1K A; 2VFV A; 5AE3 A; 3EJE B; 5I1V A; 1W1S A; 5L6F A; 3JS8 A; 1W1O A; 2GQT A; 5AWV A; 3D2D A; 1E0Y A; 4HG0 A; 4BC7 A; 3DQ0 A; 4JAY A; 3HRD C; 1MBB A; 1SB3 B; 5FXP A; 3W8Z A; 2VFS A; 3LLB A; 5I1W A; 2VFR A; 3D2H A; 2QPM A; 3S1D A; 4PZF A; 4PVJ A; 1N60 C; 3D2J A; 1E8G A; 2P4P A; 1QLT A; 4XLO A; 1JRO A; 3NVY B; 2PLS A; 3NVW B; 5FXD A; 3ETR B; 3C0P A; 2R8D A; 4UD8 A; 3LAE A; 3AM9 A; 4ML8 A; 3NRZ B; 1N61 C; 1E8H A; 3AN1 A; 1W1R A; 2W54 A; 2YVS A; 1FIQ B; 1UXY A; 1MBT A; 1N62 C; 1JRP A; 1W1L A; 2VFT A; 1V97 A; 1N5W C; 3KJM A; 2P13 A; 3FW9 A; 3S1F A; 5ADZ A; 2VAO A; 2Y4G A; 3BW7 A; 3S1E A; 3FW8 A; 1N63 C; 4MLA A; 2W3S A; 1N5X A; 4EC3 A; 3W8X A; 1HSK A; 3W8W A; 1AHU A; 3TSJ A; #chains in the Genus database with same CATH homology 2QKN A; 3SR6 B; 4DNS A; 1W1M A; 3AMZ A; 3NS1 B; 5HHZ A; 2WDW A; 1ZXI C; 1W1J A; 5FXF A; 2Y08 A; 2BVG A; 2Y3R A; 2O3G A; 1T3Q C; 3NVZ B; 3POP A; 3VTE A; 5FXE A; 5K8E A; 2Q85 A; 1ZR6 A; 3NVV B; 1FO4 A; 4PWC A; 2Y3S A; 2MBR A; 3S1C A; 1RM6 B; 2BVH A; 1I19 A; 4PVH A; 1F0X A; 4JB1 A; 1DII A; 2PLI A; 2EXR A; 2UUV A; 5HMR A; 3TX1 A; 2NQW A; 4PVE A; 3HSU A; 2W3R A; 1E8F A; 2GQU A; 1AHV A; 1FFU C; 4PYT A; 1VAO A; 4BC9 A; 4PWB A; 5AE1 A; 2W55 A; 1WYG A; 5HQX A; 5G5G B; 3PQB A; 1QLU A; 4BBY A; 4OAL A; 3RJ8 A; 1WVE A; 2OAI A; 1FFV C; 3B9J B; 2R2Z A; 1VDV A; 1W1Q A; 3GSY A; 3PM9 A; 4O95 A; 5D79 A; 2VFU A; 3FWA A; 1DZN A; 3FW7 A; 4BCA A; 2I0K A; 2Q4W A; 1AHZ A; 5AE2 A; 2P3H A; 4PVK A; 2IPI A; 3I99 A; 2UUU A; 3TSH A; 3DED A; 2AXR A; 4ZOH B; 5L6G A; 3RJA A; 1WVF A; 2E3T A; 3EUB 3; 2BVF A; 2RK5 A; 5G5H B; 1DIQ A; 1W1K A; 2VFV A; 5AE3 A; 5I1V A; 1W1S A; 5L6F A; 3JS8 A; 1W1O A; 2GQT A; 5AWV A; 3D2D A; 1E0Y A; 4HG0 A; 4BC7 A; 3DQ0 A; 4JAY A; 3HRD C; 1MBB A; 1SB3 B; 5FXP A; 3W8Z A; 2VFS A; 3LLB A; 5I1W A; 2VFR A; 3D2H A; 2QPM A; 3S1D A; 4PZF A; 4PVJ A; 1N60 C; 3D2J A; 1E8G A; 2P4P A; 1QLT A; 4XLO A; 1JRO A; 3NVY B; 2PLS A; 3NVW B; 5FXD A; 3ETR B; 3C0P A; 2R8D A; 4UD8 A; 3LAE A; 3AM9 A; 4ML8 A; 3NRZ B; 1N61 C; 1E8H A; 3AN1 A; 1W1R A; 2W54 A; 2YVS A; 1FIQ B; 1UXY A; 1MBT A; 1N62 C; 1JRP A; 1W1L A; 2VFT A; 1V97 A; 1N5W C; 3KJM A; 2P13 A; 3FW9 A; 3S1F A; 5ADZ A; 2VAO A; 2Y4G A; 3BW7 A; 3S1E A; 3FW8 A; 1N63 C; 4MLA A; 2W3S A; 1N5X A; 4EC3 A; 3W8X A; 1HSK A; 3W8W A; 1AHU A; 3TSJ 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...
