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 |
95
|
sequence length |
353
|
structure length |
339
|
Chain Sequence |
VWKDADTTLFCASDAKAHETEVHNVWATHACVPTDPNPQEIHLENVTENFNMWKNNMVEQMQEDVISLWDQSLQPCVKLTGGSVIKQACPKISFDPIPIHYCTPAGYVILKCNDKNFNGTGPCKNVSSVQCTHGIKPVVSTQLLLNGSLAEEEIIIRSENLTNNAKTIIVHLNKSVEINCTRPSNGDIRKAYCEINGTKWNKVLKQVTEKLKEHFNNKTIIFQPPSGGDLEITMHSFNCRGEFFYCNTTQLFNNTCINGTITLPCKIKQIINMWQGTGQAMYAPPIDGKINCVSNITGILLTRDGGANNTSNETFRPGGGNIKDNWRSELYKYKVVQIE
|
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 |
Binding mode characterization of NBD series CD4-mimetic HIV-1 entry inhibitors by X-ray structure and resistance study.
pubmed doi rcsb |
| molecule tags |
Hydrolase
|
| source organism |
Human immunodeficiency virus 1
|
| molecule keywords |
HIV-1 gp120 core
|
| total genus |
95
|
| structure length |
339
|
| sequence length |
353
|
| chains with identical sequence |
B
|
| ec nomenclature | |
| pdb deposition date | 2012-02-04 |
| chain | Pfam Accession Code | Pfam Family Identifier | Pfam Description |
|---|---|---|---|
| A | PF00516 | GP120 | Envelope glycoprotein GP120 |
Image from the rcsb pdb (www.rcsb.org)
cath code
| Class | Architecture | Topology | Homology | Domain |
|---|---|---|---|---|---|
| Mainly Beta | Beta Complex | HIV Envelope Protein Gp120; Chain G | Human immunodeficiency virus 1, Gp160, envelope glycoprotein |
#chains in the Genus database with same CATH superfamily 3SE9 G; 1YYL G; 4DKQ A; 4OLU G; 4YDJ G; 4OLW G; 4OM0 G; 4P9H G; 4RFO G; 4JZZ A; 4LST G; 5TE7 G; 4YDL A; 4JB9 G; 2NY2 A; 1YYM G; 4OLY G; 5F4R A; 5CAY G; 4OM1 G; 4OLZ G; 5I9Q A; 4LSR G; 5TE4 G; 2NY5 G; 2BF1 A; 4YDK G; 3TGQ A; 3TGT A; 3U7Y G; 5F96 G; 5KJR G; 2NY0 A; 3JWO A; 3JWD A; 3SE8 G; 4OLV G; 4J6R G; 5IGX G; 4DKU A; 5T33 G; 4R4N A; 4KA2 A; 4OLX G; 4JDT G; 4I53 A; 2I5Y G; 4DVR G; 4XVS G; 3TIH A; 2QAD A; 4R2G A; 4XNY G; 4DVX A; 4DVW A; 3IDY A; 5F9W A; 2I60 G; 4XVT G; 2B4C G; 4RWY A; 4I54 A; 4LSS G; 4H8W G; 2NY6 A; 4LSQ G; 4JM2 E; 4K0A A; 5F4U A; 4JZW A; 4S1R G; 4S1Q G; 2NY1 A; 3IDX G; 3NGB A; 3TGR A; 4DVT A; 3FUS A; 3HI1 G; 3RJQ A; 1G9N G; 2NXZ A; 4YFL E; 2NXY A; 2NY4 A; 4DKR A; 4JPV G; 3TGS A; 4DKP A; 4DKV A; 4XMP G; 4DKO A; 5TE6 G; 4LSU G; 4DVS A; 4YE4 G; 1GC1 G; 1RZK G; 3LQA G; 5F4L A; 4R4F A; 4XNZ A; 5F9O G; 5FA2 A; 4LSP G; 4DVV A; 2NY3 A; 5FEC C; 4LAJ A; 4LSV G; 5CD5 A; 4JKP G; 5F4P A; 4YDI G; 4RFN A; 4RX4 E; 4S1S G; 2NY7 G; 4JPW G; 1RZJ G; 4RZ8 A; 1G9M G; #chains in the Genus database with same CATH topology 3SE9 G; 1YYL G; 4DKQ A; 4OLU G; 4YDJ G; 4OLW G; 4OM0 G; 4P9H G; 4RFO G; 4JZZ A; 4LST G; 5TE7 G; 4YDL A; 4JB9 G; 2NY2 A; 1YYM G; 4OLY G; 5F4R A; 5CAY G; 4OM1 G; 4OLZ G; 5I9Q A; 4LSR G; 5TE4 G; 2NY5 G; 2BF1 A; 4YDK G; 3TGQ A; 3TGT A; 3U7Y G; 5F96 G; 5KJR G; 2NY0 A; 3JWO A; 3JWD A; 3SE8 G; 4OLV G; 4J6R G; 5IGX G; 4DKU A; 5T33 G; 4R4N A; 4KA2 A; 4OLX G; 4JDT G; 4I53 A; 2I5Y G; 4DVR G; 4XVS G; 3TIH A; 2QAD A; 4R2G A; 4XNY G; 4DVX A; 4DVW A; 3IDY A; 5F9W A; 2I60 G; 4XVT G; 2B4C G; 4RWY A; 4I54 A; 4LSS G; 4H8W G; 2NY6 A; 4LSQ G; 4JM2 E; 4K0A A; 5F4U A; 4JZW A; 4S1R G; 4S1Q G; 2NY1 A; 3IDX G; 3NGB A; 3TGR A; 4DVT A; 3FUS A; 3HI1 G; 3RJQ A; 1G9N G; 2NXZ A; 4YFL E; 2NXY A; 2NY4 A; 4DKR A; 4JPV G; 3TGS A; 4DKP A; 4DKV A; 4XMP G; 4DKO A; 5TE6 G; 4LSU G; 4DVS A; 4YE4 G; 1GC1 G; 1RZK G; 3LQA G; 5F4L A; 4R4F A; 4XNZ A; 5F9O G; 5FA2 A; 4LSP G; 4DVV A; 2NY3 A; 5FEC C; 4LAJ A; 4LSV G; 5CD5 A; 4JKP G; 5F4P A; 4YDI G; 4RFN A; 4RX4 E; 4S1S G; 2NY7 G; 4JPW G; 1RZJ G; 4RZ8 A; 1G9M G; #chains in the Genus database with same CATH homology 3SE9 G; 1YYL G; 4DKQ A; 4OLU G; 4YDJ G; 4OLW G; 4OM0 G; 4P9H G; 4RFO G; 4JZZ A; 4LST G; 5TE7 G; 4YDL A; 4JB9 G; 2NY2 A; 1YYM G; 4OLY G; 5F4R A; 5CAY G; 4OM1 G; 4OLZ G; 5I9Q A; 4LSR G; 5TE4 G; 2NY5 G; 2BF1 A; 4YDK G; 3TGQ A; 3TGT A; 3U7Y G; 5F96 G; 5KJR G; 2NY0 A; 3JWO A; 3JWD A; 3SE8 G; 4OLV G; 4J6R G; 5IGX G; 4DKU A; 5T33 G; 4R4N A; 4KA2 A; 4OLX G; 4JDT G; 4I53 A; 2I5Y G; 4DVR G; 4XVS G; 3TIH A; 2QAD A; 4R2G A; 4XNY G; 4DVX A; 4DVW A; 3IDY A; 5F9W A; 2I60 G; 4XVT G; 2B4C G; 4RWY A; 4I54 A; 4LSS G; 4H8W G; 2NY6 A; 4LSQ G; 4JM2 E; 4K0A A; 5F4U A; 4JZW A; 4S1R G; 4S1Q G; 2NY1 A; 3IDX G; 3NGB A; 3TGR A; 4DVT A; 3FUS A; 3HI1 G; 3RJQ A; 1G9N G; 2NXZ A; 4YFL E; 2NXY A; 2NY4 A; 4DKR A; 4JPV G; 3TGS A; 4DKP A; 4DKV A; 4XMP G; 4DKO A; 5TE6 G; 4LSU G; 4DVS A; 4YE4 G; 1GC1 G; 1RZK G; 3LQA G; 5F4L A; 4R4F A; 4XNZ A; 5F9O G; 5FA2 A; 4LSP G; 4DVV A; 2NY3 A; 5FEC C; 4LAJ A; 4LSV G; 5CD5 A; 4JKP G; 5F4P A; 4YDI G; 4RFN A; 4RX4 E; 4S1S G; 2NY7 G; 4JPW G; 1RZJ G; 4RZ8 A; 1G9M G;
#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...
