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 |
146
|
sequence length |
622
|
structure length |
608
|
Chain Sequence |
DIKAENTDANFYVCPPPTGATVVQFEQPRRCPTRPEGQNYTEGIAVVFKENIAPYKFKATMYYKDVTVSQVRFGHRYSQFMGIFEDRAPVPFEEVIDKINAKGVCRSTAKYVRNNLETTAFHRDDHETDMELKPANAATRTSRGWHTTDLKYNPSRVEAFHRYGTTVNCIVEEVDARSVYPYDEFVLATGDFVYMSPFYGYREGSHTEHTSYAADRFKQVDGFYARDLTTKARATAPTTRNLLTTPKFTVAWDWVPKRPSVCTMTKWQEVDEMLRSEYGGSFRFSSDAISTTFTTNLTEYPLSRVDLGDCIGKDARDAMDRIFARRYNATHIKVGQPQYYLANGGFLIAYQPLLSNTLAELYVREHLREQSRKPPVERIKTTSSIEFARLQFTYNHIQRHVNDMLGRVAIAWCELQNHELTLWNEARKLNPNAIASVTVGRRVSARMLGDVMAVSTCVPVAADNVIVQNSMRISSRPGACYSRPLVSFRYEDQGPLVEGQLGENNELRLTRDAIEPCTVGHRRYFTFGGGYVYFEEYAYSHQLSRADITTVSTFIDLNITMLEDHEFVPLEVYTRHEIKDSGLLDYTEVQRRNQLHDLRFADIDTVIH
|
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 basis of local, pH-dependent conformational changes in glycoprotein B from herpes simplex virus type 1.
pubmed doi rcsb |
| molecule tags |
Viral protein
|
| source organism |
Human herpesvirus 1
|
| molecule keywords |
Envelope glycoprotein B
|
| total genus |
146
|
| structure length |
608
|
| sequence length |
622
|
| chains with identical sequence |
B, C, D
|
| ec nomenclature | |
| pdb deposition date | 2010-07-09 |
| chain | Pfam Accession Code | Pfam Family Identifier | Pfam Description |
|---|---|---|---|
| A | PF00606 | Glycoprotein_B | Herpesvirus Glycoprotein B ectodomain |
| A | PF17416 | Glycoprot_B_PH1 | Herpesvirus Glycoprotein B |
| A | PF17417 | Glycoprot_B_PH2 | Herpesvirus Glycoprotein B PH-like domain |
Image from the rcsb pdb (www.rcsb.org)
cath code
| Class | Architecture | Topology | Homology | Domain |
|---|---|---|---|---|---|
| Mainly Beta | Roll | PH-domain like | PH-domain like | ||
| Alpha Beta | 2-Layer Sandwich | Beta-lactamase Inhibitory Protein; Chain:B, domain 1 | Beta-lactamase Inhibitory Protein; Chain:B, domain 1 |
#chains in the Genus database with same CATH superfamily 4OSN A; 3FVC A; 3NWF A; 4OT1 A; 3NW8 A; 3NWD A; 3NWA A; 2GUM A; 4L1R A; 4HSI A; #chains in the Genus database with same CATH topology 1H4R A; 2ADZ A; 2D11 A; 5I2S A; 1DDW A; 5IRS A; 3WYF B; 1WJM A; 2YT2 A; 4CYE A; 2DHI A; 1TQZ A; 3BIN A; 3VIA A; 1OMW A; 3AJ4 A; 2P0F A; 4P7I A; 2K00 A; 5C6R A; 1U5D A; 3SO6 A; 2Z0Q A; 3OAN A; 3P6A A; 1SHC A; 2P0H A; 2RLO A; 5LOP B; 4EJN A; 3T06 A; 1FAO A; 2OQB A; 2RVB B; 4L1R A; 1W1H A; 1SGH A; 2J0J A; 2VKI A; 1X05 A; 1OQN A; 4Z2N A; 2RSG A; 3NSU A; 1V61 A; 1PMS A; 3QBV B; 1KZG A; 2MDX A; 1WI1 A; 5J3T A; 4HHV A; 4GN1 A; 5I2M A; 4B6H A; 1XX0 A; 4MK0 A; 3KZ1 A; 1X11 A; 2DX5 A; 2GCJ A; 2DN6 A; 2J0M A; 2P8V A; 3G9W A; 1W1D A; 3ODX A; 2D4Q A; 3HQC A; 3FEH A; 2D10 A; 2RGN B; 4K81 A; 4MT7 A; 1Y5O A; 1Y19 B; 2MWN B; 2LYD A; 2Y7B A; 3PVU A; 2COF A; 2KUP A; 3FSS A; 2J59 M; 3GYP A; 2Z0P A; 2COC A; 4NY0 A; 3NWD A; 2FJU B; 2YS3 A; 4L6E A; 4D6W A; 5HE3 A; 2KUQ A; 1XOD A; 2D9Z A; 5D3W A; 3SNH A; 1U27 A; 1RJ2 A; 2YVC A; 3A8P A; 1MKE A; 5EFX A; 2LOX A; 1FHW A; 4A6K A; 1TXD A; 1Z87 A; 4Z2M B; 3FVC A; 1FOE A; 2DX1 A; 2COD A; 2EMS A; 4HB2 B; 4IFS A; 2Q13 A; 1ZSQ A; 2CAY A; 2YRY A; 2GS0 A; 1UPQ A; 3ULC A; 2Z59 A; 3C7V B; 1MK7 B; 4DBB A; 4KHA A; 3N7C A; 2DHJ A; 3QIJ A; 5AYW E; 2Z13 A; 2JP2 A; 2ROZ B; 1QQG A; 2ZPY A; 4CHJ A; 1GC7 A; 1FHX A; 5GOW B; 2YS5 A; 3VOQ A; 4KAX B; 2D9W A; 4ZRJ A; 5C5B A; 2CRF A; 4EMO A; 3HW2 B; 1AWE A; 1ZVR A; 2G35 A; 3OHM B; 2RRF A; 3ML4 A; 1ISN A; 4HAW B; 3F0W A; 3RCP A; 2Z0O A; 4GMX B; 4HB4 B; 4OT1 A; 1DDM A; 2YT0 A; 3D8E A; 4EKU A; 2EMT A; 2ELA A; 4NSW A; 2AEH A; 2IYB A; 1X86 A; 2DLW A; 4IOY X; 1BTN A; 3FM8 C; 2W2X C; 2D2Q A; 1M7E A; 1OY2 A; 4GXB A; 4QJ4 B; 1BAK A; 3PEG A; 4A5K A; 2K2U A; 2KGX B; 2BCJ A; 4WVF B; 4D0N B; 2QKM A; 4QJ3 B; 5FI1 A; 5CLQ B; 1V89 A; 5DIF B; 2EJ8 A; 5JLJ B; 1KI1 B; 3C4P B; 5D0Q E; 2P0D A; 3NWF A; 1DYN A; 2NBV A; 4HAX B; 2CY4 A; 1K5D B; 2IFS A; 1GC6 A; 3TO1 A; 3KSY A; 4GZU A; 1RRP B; 4WSF A; 5JHH A; 1LW3 A; 2KXX A; 3SV1 A; 4HB0 B; 2GJY A; 1UNR A; 2DA0 A; 1FGZ A; 4GMV A; 1E5W A; 2R2Y A; 2G2U B; 2D9X A; 5EKQ E; 2LUL A; 1UNQ A; 4A6F A; 3NW8 A; 3DXC A; 2AL6 A; 4K2O A; 3WA0 A; 3LJU X; 3GYO A; 5DHA B; 5C5B B; 5HE1 A; 5KQ1 A; 3C7U B; 3SYX A; 2FJL A; 3PVL A; 3MDB C; 3V5W A; 3PG7 A; 3BJI A; 4PNK A; 3A98 B; 2KIE A; 2DKQ A; 4K17 A; 5D27 A; 1NI2 A; 4HDQ A; 2RNR B; 5C16 A; 5HE2 A; 3SUZ A; 1U29 A; 1T77 A; 4TKN A; 1J19 A; 2V76 A; 2W2W A; 5D3V A; 2D9Y A; 2Y8G A; 3D8F A; 2LKO A; 3PZD A; 3P7Z A; 2CY5 A; 1EVH A; 4ZRI A; 2N0Y A; 1MI1 A; 1Q67 A; 2YF0 A; 4KHB A; 4QXA B; 2J0K A; 2YT1 A; 1IRS A; 3TW1 A; 4KHO A; 2H7E A; 2DYQ A; 2YS1 A; 3PP2 A; 2GCL A; 1J0W A; 2HTH B; 2OTX A; 3CXB B; 4YON A; 4HAV B; 2Z4D A; 3HIE A; 1DBH A; 1P3R A; 2Z14 A; 4A6H A; 3PVW A; 3KRX A; 2YSZ A; 5J3Y A; 5M4Y B; 3E2L C; 3N4I B; 1I7A A; 1LB1 A; 1UPR A; 2DKP A; 4DM5 A; 5DI9 B; 3ODO A; 1FHO A; 1V88 A; 1DDV A; 3F5R A; 4DX9 0; 5J3Q A; 1XD4 A; 2NMB A; 4GPT B; 2XQN M; 1NU2 A; 5JHG A; 4DIX A; 1ZC3 B; 2K49 A; 1U2B A; 2M38 A; 1EGX A; 3ULB A; 4A6F B; 4DX8 A; 5LON B; 4OSN A; 1DRO A; 1WGU A; 1WG7 A; 4TYZ A; 2MFQ A; 5HE0 A; 5C79 A; 2G2W B; 1AQC A; 1EF1 A; 1NTY A; 1XR0 B; 3DXE A; 2DYN A; 1H10 A; 5DH9 B; 2ELB A; 3X23 A; 1S0W C; 4GOU A; 4PQ0 A; 1PLS A; 4ZRK A; 2KR0 A; 5KQ4 A; 4HAZ B; 3O96 A; 5LG4 B; 2UZR A; 2LOZ A; 2R09 A; 1B55 A; 1PFJ A; 1BWN A; 4Y94 A; 3GMU B; 1FGY A; 1V5M A; 3M1I B; 2KM7 A; 2Y8F A; 3IVF A; 2LG1 A; 5D3Y A; 1U5E A; 2HE7 A; 2NZ8 B; 4KHB B; 2I5F A; 4HSI A; 4F7U P; 1MIX A; 2ROV A; 3A8Q A; 1NTV A; 1EAZ A; 4HDO A; 3TFM A; 2N23 A; 1XCG A; 2W2X D; 1M7R A; 2K2J A; 2DTC A; 2COA A; 2DHK A; 3HSA A; 2KIG A; 1P6S A; 5JP4 A; 4CHM A; 2B5R C; 2E2X A; 2PXG A; 1WJ1 A; 1UNP A; 1I2H A; 4K2P A; 2I1J A; 2H7D A; 4IAP A; 5L81 A; 1ZC4 B; 2L2I A; 4HAY B; 3A58 A; 1WVH A; 2VRW B; 4MY6 A; 2GUM A; 3AU5 A; 4YL8 A; 3C4O B; 2I1K A; 2DFK A; 1X1F A; 3CIK A; 3PSC A; 1QC6 A; 1U5F A; 2ZKM X; 2L1C A; 2QKL A; 3UZT A; 1N3H A; 3U7D A; 1MPH A; 4C0A A; 2PZ1 A; 3ZDT A; 1P5T A; 2K8E A; 1MIZ B; 3AU4 A; 1V5P A; 3TCA A; 2M14 A; 4H8S A; 3QWM A; 4HAU B; 3D8D A; 1V5U A; 4BBK A; 1KZ7 A; 3E2K C; 1GG3 A; 3DXD A; 1UEF A; 2I5C A; 1XXM C; 5D0O E; 1U5G A; 2UVM A; 3KY9 A; 3U8Z A; 1JTG B; 3D4E A; 1ZYI A; 3ZVR A; 3ODW A; 5D3X A; 4DXA B; 4F7H A; 1TJ6 A; 4GNK B; 2D9V A; 3U12 A; 3TVV A; 4KVG B; 5CLL B; 1X1G A; 5KCV A; 2EC1 A; 3MPX A; 3B77 A; 2RUK B; 4WJ7 A; 4QJ5 B; 1MAI A; 1FB8 A; 1MK9 B; 2KCJ A; 2R0D A; 5FI0 A; 2MKR A; 4HAT B; 2UZS A; 1W1G A; 3HK0 A; 2VSZ A; 4HB3 B; 5DHF B; 3NWA A; 4F7G A; 2X18 A; 3DCX A; 1WGQ A; 3KRW A; 1XKE A; 2YH9 A; 4XWX A; 1BTK A; 1K5G B; 1ZM0 A; 4CSQ A; #chains in the Genus database with same CATH homology 5I2S A; 5IRS A; 2YT2 A; 2KIG A; 2B5R C; 2PXG A; 4KHB A; 4QXA B; 3TW1 A; 3OHM B; 2RRF A; 4KHO A; 4L1R A; 3A58 A; 4OT1 A; 2GCL A; 2GUM A; 4Z2N A; 2Z4D A; 3HIE A; 2Z14 A; 3C4O B; 4IOY X; 5M4Y B; 3E2L C; 3N4I B; 5I2M A; 2ZKM X; 4DM5 A; 4QJ4 B; 2GCJ A; 2K8E A; 4QJ3 B; 3C4P B; 4DIX A; 5D0Q E; 3NWF A; 2K49 A; 2NBV A; 3FSS A; 3E2K C; 4OSN A; 3TO1 A; 3GYP A; 3NWD A; 2FJU B; 5D0O E; 1XXM C; 2G2W B; 2KXX A; 1JTG B; 3D4E A; 4D6W A; 1ZYI A; 2KUQ A; 1S0W C; 4GOU A; 4PQ0 A; 4GNK B; 2R2Y A; 2KR0 A; 2G2U B; 3U12 A; 3TVV A; 5EKQ E; 4Z2M B; 3FVC A; 5LG4 B; 3NW8 A; 4QJ5 B; 4IFS A; 3GMU B; 3GYO A; 2Z59 A; 2KM7 A; 3C7V B; 3C7U B; 4KHA A; 3NWA A; 4KHB B; 4HSI A; 5AYW E; 2YH9 A; 2KIE A; 2Z13 A; 4CSQ 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...
