2Z4EB

Crystal structure of d-dimer from human fibrin complexed with gly-his-arg-pro-tyr-amide
Total Genus 94

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
94
sequence length
303
structure length
303
Chain Sequence
VNSNIPTNLRVLRSILENLRSKIQKLESDVSAQMEYCRTPCTVSCNIPVVSGKECEEIIRKGGETSEMYLIQPDSSVKPYRVYCDMNTENGGWTVIQNRQDGSVDFGRKWDPYKQGFGNVATNTDGKNYCGLPGEYWLGNDKISQLTRMGPTELLIEMEDWKGDKVKAHYGGFTVQNEANKYQISVNKYRGTAGNALMDGASQLMGENRTMTIHNGMFFSTYDRDNDGWLTSDPRKQCSKEDGGGWWYNRCHAANPNGRYYWGGQYTWDMAKHGTDDGVVWMNWKGSWYSMRKMSMKIRPFFP

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
EMPTYTIV8 (255-258)TI4 (163-166)TIV1 (157-160)TI1 (159-162)TIV2 (160-163)TI2 (161-164)S7 (288-289)AH1 (167-193)TIV7 (244-247)TVIII1 (193-196)AH2 (211-216)S1 (207-208)TIV4 (216-219)S2 (223-227)TVIII2 (228-231)S3 (236-241)S4 (249-255)TI5 (230-233)TIV6 (243-246)S6 (277-278)S8 (292-293)O1 (262-264)AH3 (266-271)S5 (273-274)TIV5 (241-244)TIV9 (280-283)AH4 (296-304)Updating...
connected with : NaN
molecule tags Blood clotting
publication title Probing the beta-chain hole of fibrinogen with synthetic peptides that differ at their amino termini
pubmed doi rcsb
molecule keywords Fibrinogen alpha chain
total genus 94
structure length 303
sequence length 303
chains with identical sequence E
ec nomenclature
pdb deposition date 2007-06-16

pfam database annotations

chain Pfam Accession Code Pfam Family Identifier Pfam Description
B PF00147 Fibrinogen_C Fibrinogen beta and gamma chains, C-terminal globular domain
Image from the rcsb pdb (www.rcsb.org)
cath code
ClassArchitectureTopologyHomologyDomain
3.90.215.10 Alpha Beta Alpha-Beta Complex Gamma Fibrinogen; Chain A, domain 1 Gamma Fibrinogen, chain A, domain 1 2z4eB01
4.10.530.10 Few Secondary Structures Irregular Gamma-fibrinogen Carboxyl Terminal Fragment; domain 2 Gamma-fibrinogen Carboxyl Terminal Fragment, domain 2 2z4eB02
1FZAB 2OYHC 2XNXC 2HLOB 1FZFB 1FZGC 2J3UA 2Z4EC 1FZAC 2J64A 2JHLF 2H43B 2HPCB 1FZCC 2J5ZA 1FZFC 2J3GA 2JHMF 1RF0B 2H43C 2JHKF 2J0HA 1FZEC 1RF0C 2J3FA 2Z4EB 2J61B 1FZCB 2J3OA 1JC9A 2GY7A 2J3FD 4JYOX 2J60A 2WNPF 1RE4C 3HUSB 4JZCA 4M7HA 4R9JA 3GHGC 4R9TA 1FZEB 1LT9C 3HUSC 2HODB 1M1JC 2J1GA 2JHHC 2FFDB 1FZBB 2HODC 1RE4B 2FFDC 2J2PA 1FZBC 1LT9B 4ZFGA 2D39A 2OYIB 1FZDA 2J61A 1M1JB 4NYTA 1RF1C 4M7FA 3E1IB 2FIBA 3FIBA 2OYIC 1N73B 2Q9IC 3E1IC 2J0YA 4EPUA 1LWUB 3BVHB 1N73C 1N86B 1Z3SA 1LTJB 2HLOC 1RE3B 1RF1B 3BVHC 1LWUC 1Z3UA 2J0GA 3H32B 1N86C 2OYHB 1LTJC 2XNXB 2HPCC 1RE3C 1FIBA 2Q9IB 2JHIF 3H32C 1FZGB 1FIDA 1FICA
chains in the Genus database with same CATH superfamily
1FZAB 2OYHC 2XNXC 2HLOB 1FZFB 1FZGC 2J3UA 2Z4EC 1FZAC 2J64A 2JHLF 2H43B 2HPCB 1FZCC 2J5ZA 1FZFC 2J3GA 2JHMF 1RF0B 2H43C 2JHKF 2J0HA 1FZEC 1RF0C 2J3FA 2Z4EB 2J61B 1FZCB 2J3OA 1JC9A 2GY7A 2J3FD 4JYOX 3GHGB 2J60A 2WNPF 1RE4C 3HUSB 4JZCA 4M7HA 4R9JA 3GHGC 4R9TA 1FZEB 1LT9C 3HUSC 2HODB 1M1JC 2J1GA 2JHHC 2FFDB 1FZBB 2HODC 1RE4B 2FFDC 2J2PA 1FZBC 1LT9B 4ZFGA 2D39A 2OYIB 1FZDA 2J61A 1M1JB 4NYTA 1RF1C 4M7FA 3E1IB 2FIBA 3FIBA 2OYIC 1N73B 2Q9IC 3E1IC 2J0YA 4EPUA 1LWUB 3BVHB 1N73C 1N86B 1Z3SA 1LTJB 2HLOC 1RE3B 1RF1B 3BVHC 1LWUC 1Z3UA 2J0GA 3H32B 1N86C 2OYHB 1LTJC 2XNXB 2HPCC 1RE3C 1FIBA 2Q9IB 2JHIF 3H32C 1FZGB 1FIDA 1FICA
chains in the Genus database with same CATH topology
1FZAB 2OYHC 2XNXC 2HLOB 1FZFB 1FZGC 2J3UA 2Z4EC 1FZAC 2J64A 2JHLF 2H43B 2HPCB 1FZCC 2J5ZA 1FZFC 2J3GA 2JHMF 1RF0B 2H43C 2JHKF 2J0HA 1FZEC 1RF0C 2J3FA 2Z4EB 2J61B 1FZCB 2J3OA 1JC9A 2GY7A 2J3FD 4JYOX 2J60A 2WNPF 1RE4C 3HUSB 4JZCA 4M7HA 4R9JA 3GHGC 4R9TA 1FZEB 1LT9C 3HUSC 2HODB 1M1JC 2J1GA 2JHHC 2FFDB 1FZBB 2HODC 1RE4B 2FFDC 2J2PA 1FZBC 1LT9B 4ZFGA 2D39A 2OYIB 1FZDA 2J61A 1M1JB 4NYTA 1RF1C 4M7FA 3E1IB 2FIBA 3FIBA 2OYIC 1N73B 2Q9IC 3E1IC 2J0YA 4EPUA 1LWUB 3BVHB 1N73C 1N86B 1Z3SA 1LTJB 2HLOC 1RE3B 1RF1B 3BVHC 1LWUC 1Z3UA 2J0GA 3H32B 1N86C 2OYHB 1LTJC 2XNXB 2HPCC 1RE3C 1FIBA 2Q9IB 2JHIF 3H32C 1FZGB 1FIDA 1FICA
chains in the Genus database with same CATH homology

  
#chains in the Genus database with same CATH superfamily
 1FZA B;  2OYH C;  2XNX C;  2HLO B;  1FZF B;  1FZG C;  2J3U A;  2Z4E C;  1FZA C;  2J64 A;  2JHL F;  2H43 B;  2HPC B;  1FZC C;  2J5Z A;  1FZF C;  2J3G A;  2JHM F;  1RF0 B;  2H43 C;  2JHK F;  2J0H A;  1FZE C;  1RF0 C;  2J3F A;  2Z4E B;  2J61 B;  1FZC B;  2J3O A;  1JC9 A;  2GY7 A;  2J3F D;  4JYO X;  2J60 A;  2WNP F;  1RE4 C;  3HUS B;  4JZC A;  4M7H A;  4R9J A;  3GHG C;  4R9T A;  1FZE B;  1LT9 C;  3HUS C;  2HOD B;  1M1J C;  2J1G A;  2JHH C;  2FFD B;  1FZB B;  2HOD C;  1RE4 B;  2FFD C;  2J2P A;  1FZB C;  1LT9 B;  4ZFG A;  2D39 A;  2OYI B;  1FZD A;  2J61 A;  1M1J B;  4NYT A;  1RF1 C;  4M7F A;  3E1I B;  2FIB A;  3FIB A;  2OYI C;  1N73 B;  2Q9I C;  3E1I C;  2J0Y A;  4EPU A;  1LWU B;  3BVH B;  1N73 C;  1N86 B;  1Z3S A;  1LTJ B;  2HLO C;  1RE3 B;  1RF1 B;  3BVH C;  1LWU C;  1Z3U A;  2J0G A;  3H32 B;  1N86 C;  2OYH B;  1LTJ C;  2XNX B;  2HPC C;  1RE3 C;  1FIB A;  2Q9I B;  2JHI F;  3H32 C;  1FZG B;  1FID A;  1FIC A; 
#chains in the Genus database with same CATH topology
 1FZA B;  2OYH C;  2XNX C;  2HLO B;  1FZF B;  1FZG C;  2J3U A;  2Z4E C;  1FZA C;  2J64 A;  2JHL F;  2H43 B;  2HPC B;  1FZC C;  2J5Z A;  1FZF C;  2J3G A;  2JHM F;  1RF0 B;  2H43 C;  2JHK F;  2J0H A;  1FZE C;  1RF0 C;  2J3F A;  2Z4E B;  2J61 B;  1FZC B;  2J3O A;  1JC9 A;  2GY7 A;  2J3F D;  4JYO X;  3GHG B;  2J60 A;  2WNP F;  1RE4 C;  3HUS B;  4JZC A;  4M7H A;  4R9J A;  3GHG C;  4R9T A;  1FZE B;  1LT9 C;  3HUS C;  2HOD B;  1M1J C;  2J1G A;  2JHH C;  2FFD B;  1FZB B;  2HOD C;  1RE4 B;  2FFD C;  2J2P A;  1FZB C;  1LT9 B;  4ZFG A;  2D39 A;  2OYI B;  1FZD A;  2J61 A;  1M1J B;  4NYT A;  1RF1 C;  4M7F A;  3E1I B;  2FIB A;  3FIB A;  2OYI C;  1N73 B;  2Q9I C;  3E1I C;  2J0Y A;  4EPU A;  1LWU B;  3BVH B;  1N73 C;  1N86 B;  1Z3S A;  1LTJ B;  2HLO C;  1RE3 B;  1RF1 B;  3BVH C;  1LWU C;  1Z3U A;  2J0G A;  3H32 B;  1N86 C;  2OYH B;  1LTJ C;  2XNX B;  2HPC C;  1RE3 C;  1FIB A;  2Q9I B;  2JHI F;  3H32 C;  1FZG B;  1FID A;  1FIC A; 
#chains in the Genus database with same CATH homology
 1FZA B;  2OYH C;  2XNX C;  2HLO B;  1FZF B;  1FZG C;  2J3U A;  2Z4E C;  1FZA C;  2J64 A;  2JHL F;  2H43 B;  2HPC B;  1FZC C;  2J5Z A;  1FZF C;  2J3G A;  2JHM F;  1RF0 B;  2H43 C;  2JHK F;  2J0H A;  1FZE C;  1RF0 C;  2J3F A;  2Z4E B;  2J61 B;  1FZC B;  2J3O A;  1JC9 A;  2GY7 A;  2J3F D;  4JYO X;  2J60 A;  2WNP F;  1RE4 C;  3HUS B;  4JZC A;  4M7H A;  4R9J A;  3GHG C;  4R9T A;  1FZE B;  1LT9 C;  3HUS C;  2HOD B;  1M1J C;  2J1G A;  2JHH C;  2FFD B;  1FZB B;  2HOD C;  1RE4 B;  2FFD C;  2J2P A;  1FZB C;  1LT9 B;  4ZFG A;  2D39 A;  2OYI B;  1FZD A;  2J61 A;  1M1J B;  4NYT A;  1RF1 C;  4M7F A;  3E1I B;  2FIB A;  3FIB A;  2OYI C;  1N73 B;  2Q9I C;  3E1I C;  2J0Y A;  4EPU A;  1LWU B;  3BVH B;  1N73 C;  1N86 B;  1Z3S A;  1LTJ B;  2HLO C;  1RE3 B;  1RF1 B;  3BVH C;  1LWU C;  1Z3U A;  2J0G A;  3H32 B;  1N86 C;  2OYH B;  1LTJ C;  2XNX B;  2HPC C;  1RE3 C;  1FIB A;  2Q9I B;  2JHI F;  3H32 C;  1FZG B;  1FID A;  1FIC A;
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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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