3QD6R

Crystal structure of the cd40 and cd154 (cd40l) complex
Total Genus 14

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
14
sequence length
120
structure length
114
Chain Sequence
CREKQYLINSQCCSLCQPGQKLVSDCTEFTETECLPCGESEFLDTWNRETHCHQHKYCDPNLGLRVQQKGTSETDTICTCEEGWHCTSEACESCVLHRSCKQIATGVSDTICEP

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.


  Genus data interpretation
Chord Diagram
EMPTYS1 (31-32)S2 (37-38)TIV3 (33-36)TIV1 (27-30)O8 (38-51)TIV5 (52-55)TIV4 (42-45)S3 (45-49)O9 (41-59)TVIII1 (74-77)S4 (58-61)O10 (62-77)TIV6 (63-66)TVIII2 (91-94)S6 (78-79)S5 (66-67)TII1 (106-109)O11 (83-103)TIV7 (96-99)3H1 (85-87)S7 (89-93)TIV8 (113-116)S8 (102-105)S9 (109-111)TIV2 (32-35)Updating...
connected with : NaN
molecule tags Cytokine/cytokine receptor
source organism Homo sapiens
publication title Crystallographic and mutational analysis of the CD40-CD154 complex and its implications for receptor activation
pubmed doi rcsb
molecule keywords CD40 ligand
total genus 14
structure length 114
sequence length 120
chains with identical sequence S, T, U
ec nomenclature
pdb deposition date 2011-01-18

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
ClassArchitectureTopologyHomologyDomain
2.10.50.10 Mainly Beta Ribbon Tumor Necrosis Factor Receptor, subunit A; domain 2 Tumor Necrosis Factor Receptor, subunit A, domain 2 3qd6R01
3.10.360.30 Alpha Beta Roll Antimicrobial Peptide, Beta-defensin 2; Chain A Antimicrobial Peptide, Beta-defensin 2; Chain A 3qd6R02
5DMJA 3QO4A 1ZA3R 3MHDD 3U3SA 3MI8D 3IJ2X 2AW2B 3QBQB 1D4VA 3X3FA 3URFZ 1NCFA 3U3QA 3U3VA 3K51B 2H9GR 4M4RA 4BK5A 3WVTA 3THMF 3BUKC 4N90R 5CIRE 3ALQR 4I9XC 1JMAB 3ME4A 4RSUD 4M4PA 3FL7A 4GIQR 1D0GR 5L36B 4OD2S 5IHLA 4MXWR 2X10A 4KGGC 2UWIA 1SG1X 3TJEF 3U3TA 3MBWA 2HEVR 3QD6R 4FHQA 4KGQC 1TNRR 1FT4A 2HEYR 1EXTA 1DU3A 3U3PA 4BK4A 4J6GC 4E4DR 5BNQR 4MSVB 4YN0A 3ME2R
chains in the Genus database with same CATH superfamily
5DMJA 3QO4A 1FD3A 1ZA3R 3MHDD 3U3SA 3MI8D 3IJ2X 2AW2B 3QBQB 1D4VA 3X3FA 1FD4A 3URFZ 1NCFA 3U3QA 3U3VA 3K51B 2E4VA 2H9GR 4M4RA 4BK5A 3WVTA 3THMF 2E4WA 3BUKC 4N90R 2QR6A 5CIRE 3ALQR 4I9XC 1JMAB 3ME4A 2LXOA 4RSUD 4M4PA 3FL7A 4GIQR 1D0GR 5L36B 4OD2S 5IHLA 4MXWR 2X10A 2E4YA 2LWLA 1KJ6A 4KGGC 1SG1X 2UWIA 3TJEF 3U3TA 3MBWA 2E4XA 2HEVR 3QD6R 4FHQA 1TNRR 1FT4A 2HEYR 1EXTA 1DU3A 4KGQC 3U3PA 2MJKA 1FQQA 4BK4A 4J6GC 2E4UA 4E4DR 5BNQR 4MSVB 4YN0A 3ME2R
chains in the Genus database with same CATH topology
5DMJA 3QO4A 1FD3A 1ZA3R 3MHDD 3U3SA 3MI8D 3IJ2X 2AW2B 3QBQB 1D4VA 3X3FA 1FD4A 3URFZ 1NCFA 3U3QA 3U3VA 3K51B 2H9GR 4M4RA 4BK5A 3WVTA 3THMF 3BUKC 4N90R 5CIRE 3ALQR 4I9XC 1JMAB 3ME4A 2LXOA 4RSUD 4M4PA 3FL7A 4GIQR 1D0GR 5L36B 4OD2S 5IHLA 4MXWR 2X10A 2LWLA 1KJ6A 4KGGC 2UWIA 1SG1X 3TJEF 3U3TA 3MBWA 2HEVR 3QD6R 4FHQA 4KGQC 1TNRR 1FT4A 2HEYR 1EXTA 1DU3A 3U3PA 2MJKA 1FQQA 4BK4A 4J6GC 4E4DR 5BNQR 4MSVB 4YN0A 3ME2R
chains in the Genus database with same CATH homology

  
#chains in the Genus database with same CATH superfamily
 5DMJ A;  3QO4 A;  1ZA3 R;  3MHD D;  3U3S A;  3MI8 D;  3IJ2 X;  2AW2 B;  3QBQ B;  1D4V A;  3X3F A;  3URF Z;  1NCF A;  3U3Q A;  3U3V A;  3K51 B;  2H9G R;  4M4R A;  4BK5 A;  3WVT A;  3THM F;  3BUK C;  4N90 R;  5CIR E;  3ALQ R;  4I9X C;  1JMA B;  3ME4 A;  4RSU D;  4M4P A;  3FL7 A;  4GIQ R;  1D0G R;  5L36 B;  4OD2 S;  5IHL A;  4MXW R;  2X10 A;  4KGG C;  2UWI A;  1SG1 X;  3TJE F;  3U3T A;  3MBW A;  2HEV R;  3QD6 R;  4FHQ A;  4KGQ C;  1TNR R;  1FT4 A;  2HEY R;  1EXT A;  1DU3 A;  3U3P A;  4BK4 A;  4J6G C;  4E4D R;  5BNQ R;  4MSV B;  4YN0 A;  3ME2 R; 
#chains in the Genus database with same CATH topology
 5DMJ A;  3QO4 A;  1FD3 A;  1ZA3 R;  3MHD D;  3U3S A;  3MI8 D;  3IJ2 X;  2AW2 B;  3QBQ B;  1D4V A;  3X3F A;  1FD4 A;  3URF Z;  1NCF A;  3U3Q A;  3U3V A;  3K51 B;  2E4V A;  2H9G R;  4M4R A;  4BK5 A;  3WVT A;  3THM F;  2E4W A;  3BUK C;  4N90 R;  2QR6 A;  5CIR E;  3ALQ R;  4I9X C;  1JMA B;  3ME4 A;  2LXO A;  4RSU D;  4M4P A;  3FL7 A;  4GIQ R;  1D0G R;  5L36 B;  4OD2 S;  5IHL A;  4MXW R;  2X10 A;  2E4Y A;  2LWL A;  1KJ6 A;  4KGG C;  1SG1 X;  2UWI A;  3TJE F;  3U3T A;  3MBW A;  2E4X A;  2HEV R;  3QD6 R;  4FHQ A;  1TNR R;  1FT4 A;  2HEY R;  1EXT A;  1DU3 A;  4KGQ C;  3U3P A;  2MJK A;  1FQQ A;  4BK4 A;  4J6G C;  2E4U A;  4E4D R;  5BNQ R;  4MSV B;  4YN0 A;  3ME2 R; 
#chains in the Genus database with same CATH homology
 5DMJ A;  3QO4 A;  1FD3 A;  1ZA3 R;  3MHD D;  3U3S A;  3MI8 D;  3IJ2 X;  2AW2 B;  3QBQ B;  1D4V A;  3X3F A;  1FD4 A;  3URF Z;  1NCF A;  3U3Q A;  3U3V A;  3K51 B;  2H9G R;  4M4R A;  4BK5 A;  3WVT A;  3THM F;  3BUK C;  4N90 R;  5CIR E;  3ALQ R;  4I9X C;  1JMA B;  3ME4 A;  2LXO A;  4RSU D;  4M4P A;  3FL7 A;  4GIQ R;  1D0G R;  5L36 B;  4OD2 S;  5IHL A;  4MXW R;  2X10 A;  2LWL A;  1KJ6 A;  4KGG C;  2UWI A;  1SG1 X;  3TJE F;  3U3T A;  3MBW A;  2HEV R;  3QD6 R;  4FHQ A;  4KGQ C;  1TNR R;  1FT4 A;  2HEY R;  1EXT A;  1DU3 A;  3U3P A;  2MJK A;  1FQQ A;  4BK4 A;  4J6G C;  4E4D R;  5BNQ R;  4MSV B;  4YN0 A;  3ME2 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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