3THM | Genus

Total Genus 13

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	13
sequence length	84
structure length	77
Chain Sequence	LHHDGQFCHKPCPPGERKARDCTVNGDEPDCVPCQEGKEYTDKAHFSSKCRRCRLCGHGLEVEINCTRTQNTKCRCC

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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

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reading 77 atoms

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77 atoms created

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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	Immune system
source organism	Homo sapiens
publication title	A series of Fas receptor agonist antibodies that demonstrate an inverse correlation between affinity and potency. pubmed doi rcsb
molecule keywords	Fab EP6b_B01, light chain
total genus	13
structure length	77
sequence length	84
ec nomenclature
pdb deposition date	2011-08-19

pfam database annotations

chain	Pfam Accession Code	Pfam Family Identifier	Pfam Description
F	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	3thmF00

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

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

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

Total Genus

sequence length

structure length

Chain Sequence

Structure visualization

Chord Diagram

connected with : NaN

pfam database annotations