1JMAB

Crystal structure of the herpes simplex virus glycoprotein d bound to the cellular receptor hvea/hvem
Total Genus 17
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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
17
sequence length
102
structure length
100
Chain Sequence
CKEDEYPVGSECCPKCSPGYRVKEACGELTGTVCEPCPPGTYIAHLNGLSKCLQCQMCDPAMGLRASRNCSRTENAVCGCSPGHFCIVQDHCAACRAYAT
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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

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

Chord Diagram
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molecule tags Viral protein
molecule keywords HERPESVIRUS ENTRY MEDIATOR
publication title Herpes simplex virus glycoprotein D bound to the human receptor HveA.
pubmed doi rcsb
source organism Human herpesvirus 1
total genus 17
structure length 100
sequence length 102
ec nomenclature
pdb deposition date 2001-07-17

pfam database annotations

chain Pfam Accession Code Pfam Family Identifier Pfam Description
B PF00020 TNFR_c6 TNFR/NGFR cysteine-rich region
Image from the rcsb pdb (www.rcsb.org)
cath code
ClassArchitectureTopologyHomologyDomain
2.10.50.10 Mainly Beta Ribbon Tumor Necrosis Factor Receptor, subunit A; domain 2 Tumor Necrosis Factor Receptor, subunit A, domain 2 1jmaB01
2.10.50.10 Mainly Beta Ribbon Tumor Necrosis Factor Receptor, subunit A; domain 2 Tumor Necrosis Factor Receptor, subunit A, domain 2 1jmaB02
4BK4A 4I9XC 1D4VA 2UWIA 4BK5A 5L36B 3QO4A 3U3SA 4RSUD 4M4RA 1D0GR 4YN0A 3QD6R 1SG1X 3IJ2X 3K51B 3MHDD 1JMAB 4MSVB 3U3VA 3U3TA 2AW2B 5CIRE 3U3PA 2HEVR 1FT4A 3U3QA 1TNRR 4J6GC 1ZA3R 3MBWA 4GIQR 4FHQA 5BNQR 3FL7A 5DMJA 2X10A 3ALQR 3QBQB 4KGQC 4OD2S 4E4DR 5IHLA 1NCFA 4MXWR 3URFZ 2HEYR 3BUKC 4KGGC 1EXTA 1DU3A 3ME4A 3X3FA 3THMF 2H9GR 3MI8D 4M4PA 3WVTA 3TJEF 3ME2R 4N90R
chains in the Genus database with same CATH superfamily
4BK4A 4I9XC 1D4VA 2UWIA 4BK5A 2E4XA 5L36B 3QO4A 3U3SA 4RSUD 4M4RA 1D0GR 4YN0A 3QD6R 1SG1X 3IJ2X 3K51B 3MHDD 1JMAB 4MSVB 3U3VA 3U3TA 2E4YA 2AW2B 5CIRE 3U3PA 2HEVR 2E4UA 1FT4A 4N90R 3U3QA 1TNRR 4J6GC 1ZA3R 3MBWA 4GIQR 4FHQA 5BNQR 3FL7A 5DMJA 2X10A 3ALQR 3QBQB 4KGQC 4OD2S 4E4DR 5IHLA 1NCFA 4MXWR 3URFZ 2HEYR 3BUKC 4KGGC 1EXTA 1DU3A 3ME4A 3X3FA 2E4VA 3THMF 2H9GR 2QR6A 3MI8D 4M4PA 3WVTA 3TJEF 3ME2R 2E4WA
chains in the Genus database with same CATH topology
4BK4A 4I9XC 1D4VA 2UWIA 4BK5A 5L36B 3QO4A 3U3SA 4RSUD 4M4RA 1D0GR 4YN0A 3QD6R 1SG1X 3IJ2X 3K51B 3MHDD 1JMAB 4MSVB 3U3VA 3U3TA 2AW2B 5CIRE 3U3PA 2HEVR 1FT4A 3U3QA 1TNRR 4J6GC 1ZA3R 3MBWA 4GIQR 4FHQA 5BNQR 3FL7A 5DMJA 2X10A 3ALQR 3QBQB 4KGQC 4OD2S 4E4DR 5IHLA 1NCFA 4MXWR 3URFZ 2HEYR 3BUKC 4KGGC 1EXTA 1DU3A 3ME4A 3X3FA 3THMF 2H9GR 3MI8D 4M4PA 3WVTA 3TJEF 3ME2R 4N90R
chains in the Genus database with same CATH homology


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