3TGQ | Genus

Total Genus 80

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	80
sequence length	351
structure length	336
Chain Sequence	WKEATTTLFCASDAKAYDTEVHNVWATHACVPTDPNPQEVKLENVTENFNMWKNNMVEQMHEDIISLWDQSLKPCVKLTGGSVITQACPKVSFEPIPIHYCAPAGFAILKCNDKKFNGTGPCTNVSTVQCTHGIRPVVSTQLLLNGSLAEEEIVIRSENFTNNAKTIIVQLNESVVINCTRPNNGDIRQAHCNLSKTQWENTLEQIAIKLKEQFGNNKTIIFNPSSGGDPEIVTHSFNCGGEFFYCNSTQLFTWNDTGRNITLPCRIKQIINMWQEVGKAMYAPPIRGQIRCSSNITGLLLTRDGGNGTEIFRPGGGDMRDNWRSELYKYKVVKIE

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.

Structure visualization

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After clicking on a point (x,y) in the genus matrix above, a subchain from x to y is shown in color.

Genus data interpretation

Chord Diagram

molecule tags	Viral protein
source organism	Human immunodeficiency virus 1
publication title	Unliganded HIV-1 gp120 core structures assume the CD4-bound conformation with regulation by quaternary interactions and variable loops. pubmed doi rcsb
molecule keywords	HIV-1 YU2 gp120
total genus	80
structure length	336
sequence length	351
chains with identical sequence	B, C, D
ec nomenclature
pdb deposition date	2011-08-17

Image from the rcsb pdb (www.rcsb.org)

cath code	Class	Architecture	Topology	Homology	Domain
2.170.40.20	Mainly Beta	Beta Complex	HIV Envelope Protein Gp120; Chain G	Human immunodeficiency virus 1, Gp160, envelope glycoprotein	3tgqA01

3NGBA 4JPVG 4K0AA 4LSSG 2NY4A 3IDXG 3TGQA 5TE7G 4XNYG 2NY2A 4OLWG 4DKVA 4RZ8A 4YFLE 3TGRA 3FUSA 4DVRG 4DVVA 3U7YG 4YDLA 3JWOA 2QADA 5IGXG 4JPWG 4DKOA 2NXZA 1RZJG 4OLYG 4R2GA 2I60G 4LSRG 5CD5A 5TE6G 2NY6A 4R4FA 3RJQA 3JWDA 4JM2E 4XMPG 3TIHA 4JZWA 5F4RA 4LSTG 4J6RG 1YYLG 5F4UA 2BF1A 1G9MG 1RZKG 4I54A 4RWYA 4DKRA 4KA2A 4LSUG 4RFOG 4DKUA 2NXYA 5TE4G 4DKPA 3SE9G 4YE4G 4JZZA 4OLUG 2NY5G 2NY3A 5FECC 3TGTA 2B4CG 4OLXG 4OM1G 4I53A 4H8WG 4LSQG 4DVSA 4OLZG 4P9HG 4XVSG 3TGSA 1G9NG 5F4PA 5F9OG 4RX4E 4YDKG 4JB9G 5FA2A 4XNZA 5F9WA 5F4LA 4LSPG 4JDTG 2NY1A 4JKPG 2NY0A 4LSVG 3SE8G 5KJRG 4S1QG 4DKQA 3LQAG 5CAYG 4S1SG 4DVWA 4LAJA 2I5YG 4S1RG 4YDJG 5F96G 5T33G 2NY7G 4RFNA 5I9QA 1YYMG 4YDIG 3HI1G 4OLVG 4R4NA 4DVTA 3IDYA 4XVTG 4OM0G 4DVXA 1GC1G
chains in the Genus database with same CATH superfamily

#chains in the Genus database with same CATH superfamily
 3NGB A;  4JPV G;  4K0A A;  4LSS G;  2NY4 A;  3IDX G;  3TGQ A;  5TE7 G;  4XNY G;  2NY2 A;  4OLW G;  4DKV A;  4RZ8 A;  4YFL E;  3TGR A;  3FUS A;  4DVR G;  4DVV A;  3U7Y G;  4YDL A;  3JWO A;  2QAD A;  5IGX G;  4JPW G;  4DKO A;  2NXZ A;  1RZJ G;  4OLY G;  4R2G A;  2I60 G;  4LSR G;  5CD5 A;  5TE6 G;  2NY6 A;  4R4F A;  3RJQ A;  3JWD A;  4JM2 E;  4XMP G;  3TIH A;  4JZW A;  5F4R A;  4LST G;  4J6R G;  1YYL G;  5F4U A;  2BF1 A;  1G9M G;  1RZK G;  4I54 A;  4RWY A;  4DKR A;  4KA2 A;  4LSU G;  4RFO G;  4DKU A;  2NXY A;  5TE4 G;  4DKP A;  3SE9 G;  4YE4 G;  4JZZ A;  4OLU G;  2NY5 G;  2NY3 A;  5FEC C;  3TGT A;  2B4C G;  4OLX G;  4OM1 G;  4I53 A;  4H8W G;  4LSQ G;  4DVS A;  4OLZ G;  4P9H G;  4XVS G;  3TGS A;  1G9N G;  5F4P A;  5F9O G;  4RX4 E;  4YDK G;  4JB9 G;  5FA2 A;  4XNZ A;  5F9W A;  5F4L A;  4LSP G;  4JDT G;  2NY1 A;  4JKP G;  2NY0 A;  4LSV G;  3SE8 G;  5KJR G;  4S1Q G;  4DKQ A;  3LQA G;  5CAY G;  4S1S G;  4DVW A;  4LAJ A;  2I5Y G;  4S1R G;  4YDJ G;  5F96 G;  5T33 G;  2NY7 G;  4RFN A;  5I9Q A;  1YYM G;  4YDI G;  3HI1 G;  4OLV G;  4R4N A;  4DVT A;  3IDY A;  4XVT G;  4OM0 G;  4DVX A;  1GC1 G; 
#chains in the Genus database with same CATH topology
 3NGB A;  4JPV G;  4K0A A;  4LSS G;  2NY4 A;  3IDX G;  3TGQ A;  5TE7 G;  4XNY G;  2NY2 A;  4OLW G;  4DKV A;  4RZ8 A;  4YFL E;  3TGR A;  3FUS A;  4DVR G;  4DVV A;  3U7Y G;  4YDL A;  3JWO A;  2QAD A;  5IGX G;  4JPW G;  4DKO A;  2NXZ A;  1RZJ G;  4OLY G;  4R2G A;  2I60 G;  4LSR G;  5CD5 A;  5TE6 G;  2NY6 A;  4R4F A;  3RJQ A;  3JWD A;  4JM2 E;  4XMP G;  3TIH A;  4JZW A;  5F4R A;  4LST G;  4J6R G;  1YYL G;  5F4U A;  2BF1 A;  1G9M G;  1RZK G;  4I54 A;  4RWY A;  4DKR A;  4KA2 A;  4LSU G;  4RFO G;  4DKU A;  2NXY A;  5TE4 G;  4DKP A;  3SE9 G;  4YE4 G;  4JZZ A;  4OLU G;  2NY5 G;  2NY3 A;  5FEC C;  3TGT A;  2B4C G;  4OLX G;  4OM1 G;  4I53 A;  4H8W G;  4LSQ G;  4DVS A;  4OLZ G;  4P9H G;  4XVS G;  3TGS A;  1G9N G;  5F4P A;  5F9O G;  4RX4 E;  4YDK G;  4JB9 G;  5FA2 A;  4XNZ A;  5F9W A;  5F4L A;  4LSP G;  4JDT G;  2NY1 A;  4JKP G;  2NY0 A;  4LSV G;  3SE8 G;  5KJR G;  4S1Q G;  4DKQ A;  3LQA G;  5CAY G;  4S1S G;  4DVW A;  4LAJ A;  2I5Y G;  4S1R G;  4YDJ G;  5F96 G;  5T33 G;  2NY7 G;  4RFN A;  5I9Q A;  1YYM G;  4YDI G;  3HI1 G;  4OLV G;  4R4N A;  4DVT A;  3IDY A;  4XVT G;  4OM0 G;  4DVX A;  1GC1 G; 
#chains in the Genus database with same CATH homology
 3NGB A;  4JPV G;  4K0A A;  4LSS G;  2NY4 A;  3IDX G;  3TGQ A;  5TE7 G;  4XNY G;  2NY2 A;  4OLW G;  4DKV A;  4RZ8 A;  4YFL E;  3TGR A;  3FUS A;  4DVR G;  4DVV A;  3U7Y G;  4YDL A;  3JWO A;  2QAD A;  5IGX G;  4JPW G;  4DKO A;  2NXZ A;  1RZJ G;  4OLY G;  4R2G A;  2I60 G;  4LSR G;  5CD5 A;  5TE6 G;  2NY6 A;  4R4F A;  3RJQ A;  3JWD A;  4JM2 E;  4XMP G;  3TIH A;  4JZW A;  5F4R A;  4LST G;  4J6R G;  1YYL G;  5F4U A;  2BF1 A;  1G9M G;  1RZK G;  4I54 A;  4RWY A;  4DKR A;  4KA2 A;  4LSU G;  4RFO G;  4DKU A;  2NXY A;  5TE4 G;  4DKP A;  3SE9 G;  4YE4 G;  4JZZ A;  4OLU G;  2NY5 G;  2NY3 A;  5FEC C;  3TGT A;  2B4C G;  4OLX G;  4OM1 G;  4I53 A;  4H8W G;  4LSQ G;  4DVS A;  4OLZ G;  4P9H G;  4XVS G;  3TGS A;  1G9N G;  5F4P A;  5F9O G;  4RX4 E;  4YDK G;  4JB9 G;  5FA2 A;  4XNZ A;  5F9W A;  5F4L A;  4LSP G;  4JDT G;  2NY1 A;  4JKP G;  2NY0 A;  4LSV G;  3SE8 G;  5KJR G;  4S1Q G;  4DKQ A;  3LQA G;  5CAY G;  4S1S G;  4DVW A;  4LAJ A;  2I5Y G;  4S1R G;  4YDJ G;  5F96 G;  5T33 G;  2NY7 G;  4RFN A;  5I9Q A;  1YYM G;  4YDI G;  3HI1 G;  4OLV G;  4R4N A;  4DVT A;  3IDY A;  4XVT G;  4OM0 G;  4DVX A;  1GC1 G;

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similar chains in the Genus database (?% sequence similarity)

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similar chains in the pdb database (?% sequence similarity)

#similar chains in the Genus database (?% sequence similarity)
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#similar chains, but unknotted
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#similar chains in the pdb database (?% sequence similarity)
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3TGQA

Total Genus

sequence length

structure length

Chain Sequence

Structure visualization

Chord Diagram

connected with : NaN