2HEV | Genus

Total Genus 28

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	28
sequence length	140
structure length	140
Chain Sequence	LHCVGDTYPSNDRCCHECRPGNGMVSRCSRSQNTVCRPCGPGFYNDVVSSKPCKPCTWCNLRSGSERKQLCTATQDTVCRCRAGTQPLDSYKPGVDCAPCPPGHFSPGDNQACKPWTNCTLAGKHTLQPASNSSDAICED

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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The Resolver thinks Pdb

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Time for openFile(/file/5cfd21ed79a9a72ad1456a84/pdb.gz): 4001 ms

reading 140 atoms

ModelSet: haveSymmetry:false haveUnitcells:false haveFractionalCoord:false

1 model in this collection. Use getProperty "modelInfo" or getProperty "auxiliaryInfo" to inspect them.

Default Van der Waals type for model set to Jmol

140 atoms created

ModelSet: autobonding; use autobond=false to not generate bonds automatically

Time for creating model: 37 ms

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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	Cytokine
source organism	Homo sapiens
publication title	The Crystal Structure of the Costimulatory OX40-OX40L Complex. pubmed doi rcsb
molecule keywords	Tumor necrosis factor ligand superfamily member 4
total genus	28
structure length	140
sequence length	140
ec nomenclature
pdb deposition date	2006-06-22

pfam database annotations

chain	Pfam Accession Code	Pfam Family Identifier	Pfam Description
R	PF00020	TNFR_c6	TNFR/NGFR cysteine-rich region

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

cath code	Class	Architecture	Topology	Homology	Domain
2.10.50.10	Mainly Beta	Ribbon	Tumor Necrosis Factor Receptor, subunit A; domain 2	Tumor Necrosis Factor Receptor, subunit A, domain 2	2hevR02
2.10.50.10	Mainly Beta	Ribbon	Tumor Necrosis Factor Receptor, subunit A; domain 2	Tumor Necrosis Factor Receptor, subunit A, domain 2	2hevR01

4N90R 3MI8D 5BNQR 4J6GC 4FHQA 3U3SA 2H9GR 5L36B 1EXTA 1JMAB 4KGGC 4E4DR 1D4VA 4I9XC 4BK5A 3MHDD 4MSVB 5IHLA 3THMF 3U3QA 3WVTA 1TNRR 1D0GR 3U3TA 3U3VA 1SG1X 4M4PA 2AW2B 3ME2R 5CIRE 4RSUD 1FT4A 3QO4A 4M4RA 3QD6R 3QBQB 3K51B 1NCFA 4YN0A 2X10A 1DU3A 5DMJA 3URFZ 4BK4A 4GIQR 3ALQR 3ME4A 3X3FA 3IJ2X 3BUKC 2HEYR 2UWIA 4OD2S 4MXWR 3MBWA 4KGQC 3FL7A 1ZA3R 2HEVR 3U3PA 3TJEF
chains in the Genus database with same CATH superfamily

4N90R 3MI8D 5BNQR 4J6GC 4FHQA 3U3SA 2H9GR 5L36B 1EXTA 1JMAB 4KGGC 4E4DR 1D4VA 4I9XC 4BK5A 3MHDD 4MSVB 2E4YA 5IHLA 3THMF 3U3QA 3WVTA 1TNRR 1D0GR 2QR6A 3U3TA 3U3VA 1SG1X 4M4PA 2AW2B 3ME2R 5CIRE 4RSUD 1FT4A 3QO4A 2E4UA 4M4RA 3QD6R 2E4XA 3K51B 3QBQB 3TJEF 1NCFA 4YN0A 2X10A 1DU3A 5DMJA 2E4VA 3URFZ 4BK4A 4GIQR 3ALQR 3ME4A 3X3FA 3IJ2X 3BUKC 2HEYR 2UWIA 4OD2S 4MXWR 3MBWA 4KGQC 3FL7A 1ZA3R 2HEVR 3U3PA 2E4WA
chains in the Genus database with same CATH topology

#chains in the Genus database with same CATH superfamily
 4N90 R;  3MI8 D;  5BNQ R;  4J6G C;  4FHQ A;  3U3S A;  2H9G R;  5L36 B;  1EXT A;  1JMA B;  4KGG C;  4E4D R;  1D4V A;  4I9X C;  4BK5 A;  3MHD D;  4MSV B;  5IHL A;  3THM F;  3U3Q A;  3WVT A;  1TNR R;  1D0G R;  3U3T A;  3U3V A;  1SG1 X;  4M4P A;  2AW2 B;  3ME2 R;  5CIR E;  4RSU D;  1FT4 A;  3QO4 A;  4M4R A;  3QD6 R;  3QBQ B;  3K51 B;  1NCF A;  4YN0 A;  2X10 A;  1DU3 A;  5DMJ A;  3URF Z;  4BK4 A;  4GIQ R;  3ALQ R;  3ME4 A;  3X3F A;  3IJ2 X;  3BUK C;  2HEY R;  2UWI A;  4OD2 S;  4MXW R;  3MBW A;  4KGQ C;  3FL7 A;  1ZA3 R;  2HEV R;  3U3P A;  3TJE F; 
#chains in the Genus database with same CATH topology
 4N90 R;  3MI8 D;  5BNQ R;  4J6G C;  4FHQ A;  3U3S A;  2H9G R;  5L36 B;  1EXT A;  1JMA B;  4KGG C;  4E4D R;  1D4V A;  4I9X C;  4BK5 A;  3MHD D;  4MSV B;  2E4Y A;  5IHL A;  3THM F;  3U3Q A;  3WVT A;  1TNR R;  1D0G R;  2QR6 A;  3U3T A;  3U3V A;  1SG1 X;  4M4P A;  2AW2 B;  3ME2 R;  5CIR E;  4RSU D;  1FT4 A;  3QO4 A;  2E4U A;  4M4R A;  3QD6 R;  2E4X A;  3K51 B;  3QBQ B;  3TJE F;  1NCF A;  4YN0 A;  2X10 A;  1DU3 A;  5DMJ A;  2E4V A;  3URF Z;  4BK4 A;  4GIQ R;  3ALQ R;  3ME4 A;  3X3F A;  3IJ2 X;  3BUK C;  2HEY R;  2UWI A;  4OD2 S;  4MXW R;  3MBW A;  4KGQ C;  3FL7 A;  1ZA3 R;  2HEV R;  3U3P A;  2E4W A; 
#chains in the Genus database with same CATH homology
 4N90 R;  3MI8 D;  5BNQ R;  4J6G C;  4FHQ A;  3U3S A;  2H9G R;  5L36 B;  1EXT A;  1JMA B;  4KGG C;  4E4D R;  1D4V A;  4I9X C;  4BK5 A;  3MHD D;  4MSV B;  5IHL A;  3THM F;  3U3Q A;  3WVT A;  1TNR R;  1D0G R;  3U3T A;  3U3V A;  1SG1 X;  4M4P A;  2AW2 B;  3ME2 R;  5CIR E;  4RSU D;  1FT4 A;  3QO4 A;  4M4R A;  3QD6 R;  3QBQ B;  3K51 B;  1NCF A;  4YN0 A;  2X10 A;  1DU3 A;  5DMJ A;  3URF Z;  4BK4 A;  4GIQ R;  3ALQ R;  3ME4 A;  3X3F A;  3IJ2 X;  3BUK C;  2HEY R;  2UWI A;  4OD2 S;  4MXW R;  3MBW A;  4KGQ C;  3FL7 A;  1ZA3 R;  2HEV R;  3U3P A;  3TJE F;

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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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2HEVR

Total Genus

sequence length

structure length

Chain Sequence

Structure visualization

Chord Diagram

connected with : NaN

pfam database annotations