1RF0B

Crystal structure of fragment d of gammae132a fibrinogen
Total Genus 100

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
100
sequence length
306
structure length
306
Chain Sequence
DETVNSNIPTNLRVLRSILENLRSKIQKLESDVSAQMEYCRTPCTVSCNIPVVSGKECEEIIRKGGETSEMYLIQPDSSVKPYRVYCDMNTENGGWTVIQNRQDGSVDFGRKWDPYKQGFGNVATNTDGKNYCGLPGEYWLGNDKISQLTRMGPTELLIEMEDWKGDKVKAHYGGFTVQNEANKYQISVNKYRGTAGNALMDGASQLMGENRTMTIHNGMFFSTYDRDNDGWLTSDPRKQCSKEDGGGWWYNRCHAANPNGRYYWGGQYTWDMAKHGTDDGVVWMNWKGSWYSMRKMSMKIRPFFP
5010015020025030030025020015010050
020406080100Genus Matrix

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
EMPTYO9 (153-182)AH4 (296-305)AH1 (156-193)S3 (249-255)AH2 (211-216)O6 (201-286)TVIII2 (228-231)S1 (223-227)TIV1 (230-233)S2 (236-241)TIV2 (241-244)TI'1 (244-247)TIV3 (243-246)TIV4 (255-258)TIV5 (280-283)O1 (262-264)S7 (292-293)AH3 (266-271)S4 (273-274)S5 (277-278)TVIII1 (193-196)Updating...
connected with : NaN
molecule tags Blood clotting
source organism Homo sapiens
publication title Calcium-Binding Site beta2, Adjacent to the "b" Polymerization Site, Modulates Lateral Aggregation of Protofibrils during Fibrin Polymerization.
pubmed doi rcsb
molecule keywords Fibrinogen alpha/alpha-E chain
total genus 100
structure length 306
sequence length 306
chains with identical sequence E
ec nomenclature
pdb deposition date 2003-11-07

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 1rf0B01
4.10.530.10 Few Secondary Structures Irregular Gamma-fibrinogen Carboxyl Terminal Fragment; domain 2 Gamma-fibrinogen Carboxyl Terminal Fragment, domain 2 1rf0B02
2J60A 1FZFB 1FZGB 4M7HA 1FZFC 1FZGC 4M7FA 2FFDB 4R9JA 2J3OA 1FIDA 3E1IB 2XNXB 1RE3B 3E1IC 2XNXC 2HLOB 1RE3C 2FIBA 2HLOC 2J61B 1N73B 1JC9A 3BVHB 1N73C 3BVHC 2JHMF 2J0YA 2H43B 2OYHB 3HUSB 2H43C 2OYHC 2Z4EB 3HUSC 2Z4EC 1RF1C 2J2PA 4R9TA 2GY7A 2JHLF 1FICA 1FZBB 2J61A 1FZBC 1Z3SA 2J3UA 1LWUB 1LWUC 1FZAB 3H32B 1FZAC 2J3GA 4JYOX 3H32C 1N86B 1LT9B 2HODB 1N86C 1LT9C 2HODC 1RF1B 1RF0C 2Q9IB 2Q9IC 1M1JB 2J1GA 1M1JC 2J0GA 2JHKF 1RE4B 3FIBA 4JZCA 1FZCB 1FIBA 1RE4C 1FZCC 3GHGC 1FZDA 2J3FA 4ZFGA 4NYTA 2JHIF 2HPCB 2FFDC 2D39A 2OYIB 2HPCC 2WNPF 2OYIC 1RF0B 2J64A 1FZEB 1LTJB 2J0HA 1Z3UA 1FZEC 1LTJC 2J3FD 4EPUA 2JHHC 2J5ZA
chains in the Genus database with same CATH superfamily
2J60A 1FZFB 1FZGB 4M7HA 1FZFC 1FZGC 4M7FA 2FFDB 4R9JA 2J3OA 1FIDA 3E1IB 2XNXB 1RE3B 3E1IC 2XNXC 2HLOB 1RE3C 2FIBA 2HLOC 2J61B 1N73B 1JC9A 3BVHB 1N73C 3BVHC 2JHMF 2J0YA 2H43B 2OYHB 3HUSB 2H43C 2OYHC 2Z4EB 3HUSC 2Z4EC 1RF1C 2J2PA 4R9TA 2GY7A 2JHLF 1FICA 1FZBB 2J61A 1FZBC 1Z3SA 2J3UA 1LWUB 1LWUC 1FZAB 3H32B 1FZAC 2J3GA 4JYOX 3H32C 1N86B 1LT9B 2HODB 1N86C 1LT9C 2HODC 1RF1B 1RF0C 2Q9IB 2Q9IC 1M1JB 2J1GA 1M1JC 2J0GA 2JHKF 1RE4B 3FIBA 4JZCA 1FZCB 1FIBA 1RE4C 3GHGB 1FZCC 3GHGC 1FZDA 2J3FA 4ZFGA 4NYTA 2JHIF 2HPCB 2FFDC 2D39A 2OYIB 2HPCC 2WNPF 2OYIC 1RF0B 2J64A 1FZEB 1LTJB 2J0HA 1Z3UA 1FZEC 1LTJC 2J3FD 4EPUA 2JHHC 2J5ZA
chains in the Genus database with same CATH topology
2J60A 1FZFB 1FZGB 4M7HA 1FZFC 1FZGC 4M7FA 2FFDB 4R9JA 2J3OA 1FIDA 3E1IB 2XNXB 1RE3B 3E1IC 2XNXC 2HLOB 1RE3C 2FIBA 2HLOC 2J61B 1N73B 1JC9A 3BVHB 1N73C 3BVHC 2JHMF 2J0YA 2H43B 2OYHB 3HUSB 2H43C 2OYHC 2Z4EB 3HUSC 2Z4EC 1RF1C 2J2PA 4R9TA 2GY7A 2JHLF 1FICA 1FZBB 2J61A 1FZBC 1Z3SA 2J3UA 1LWUB 1LWUC 1FZAB 3H32B 1FZAC 2J3GA 4JYOX 3H32C 1N86B 1LT9B 2HODB 1N86C 1LT9C 2HODC 1RF1B 1RF0C 2Q9IB 2Q9IC 1M1JB 2J1GA 1M1JC 2J0GA 2JHKF 1RE4B 3FIBA 4JZCA 1FZCB 1FIBA 1RE4C 1FZCC 3GHGC 1FZDA 2J3FA 4ZFGA 4NYTA 2JHIF 2HPCB 2FFDC 2D39A 2OYIB 2HPCC 2WNPF 2OYIC 1RF0B 2J64A 1FZEB 1LTJB 2J0HA 1Z3UA 1FZEC 1LTJC 2J3FD 4EPUA 2JHHC 2J5ZA
chains in the Genus database with same CATH homology

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