2D39A

Trivalent recognition unit of innate immunity system; crystal structure of human m-ficolin fibrinogen-like domain
Total Genus 63

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
63
sequence length
214
structure length
209
Chain Sequence
EFPRNCKDLLDRGYFLSGWHTIYLPDCRPLTVLCDMDTDGGGWTVFQRRMDGSVDFYRDWAAYKQGFGSQLGEFWLGNDNIHALTAQGSSELRVDLVDFEGNHQFAKYKSFKVADEAEKYKLVLGAFVGGSAGNSLTGHNNNFFSTKDQDNDVSSSNCAEKFQGAWWYADCHASNLNGLYLMGANGINWSAAKGYKYSYKVSEMKVRPA

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
EMPTYTIV1 (147-150)AH1 (118-124)TIV2 (149-152)O2 (118-146)AH3 (190-198)S1 (130-135)TI1 (136-139)S2 (141-147)S3 (155-161)O1 (168-170)TI'1 (150-153)TIV3 (161-164)AH2 (172-177)S4 (179-180)S5 (186-187)TI2 (181-184)S6 (202-210)Updating...
connected with : NaN
molecule tags Immune system
source organism Homo sapiens
publication title Trivalent recognition unit of innate immunity system; crystal structure of trimeric human m-ficolin fibrinogen-like domain
pubmed doi rcsb
molecule keywords Ficolin-1
total genus 63
structure length 209
sequence length 214
chains with identical sequence B, C
ec nomenclature
pdb deposition date 2005-09-26
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 2d39A01
4.10.530.10 Few Secondary Structures Irregular Gamma-fibrinogen Carboxyl Terminal Fragment; domain 2 Gamma-fibrinogen Carboxyl Terminal Fragment, domain 2 2d39A02
2OYIC 1FZFB 2J0HA 3GHGC 3BVHB 2HLOC 4M7FA 2J3FD 2JHHC 3HUSB 2XNXC 1M1JB 1FZGB 3FIBA 1FZBC 1FZAB 1RF0B 4R9TA 2FIBA 2HPCB 1N86B 1RE4B 2J0GA 1LTJC 2J3GA 3H32C 4EPUA 1FIBA 2J64A 2J3OA 1N73B 1LWUC 1LT9B 2JHIF 1RE3C 2GY7A 2J61B 2J3UA 3E1IC 1FZCB 1FZEC 2Q9IC 2JHLF 2FFDC 1Z3SA 2OYHC 2J1GA 1RF1B 2WNPF 1FZDA 2OYIB 1Z3UA 2JHMF 1FICA 2HLOB 1LWUB 4ZFGA 2Z4EC 2JHKF 1FZEB 2XNXB 2HODC 2Q9IB 2FFDB 1FZBB 3HUSC 2J2PA 2D39A 2H43C 1FZGC 4JYOX 1FZAC 1RF0C 1LTJB 4R9JA 2HPCC 3H32B 1N86C 1RE4C 2Z4EB 2HODB 2J5ZA 4NYTA 1RE3B 3E1IB 1FZFC 3BVHC 1N73C 1LT9C 1FIDA 2J3FA 2J61A 2H43B 2OYHB 1JC9A 2J0YA 1FZCC 1M1JC 2J60A 4JZCA 1RF1C 4M7HA
chains in the Genus database with same CATH superfamily
2OYIC 1FZFB 2J0HA 3GHGC 3BVHB 2HLOC 4M7FA 2J3FD 2JHHC 3HUSB 2XNXC 1M1JB 1FZGB 3FIBA 1FZBC 1FZAB 1RF0B 4R9TA 2FIBA 2HPCB 1N86B 1RE4B 2J0GA 1LTJC 2J3GA 3H32C 4EPUA 1FIBA 2J64A 2J3OA 1N73B 1LWUC 1LT9B 2JHIF 1RE3C 2GY7A 2J61B 2J3UA 3E1IC 1FZCB 1FZEC 2Q9IC 2JHLF 2FFDC 1Z3SA 2OYHC 2J1GA 1RF1B 2WNPF 1FZDA 2OYIB 1Z3UA 3GHGB 2JHMF 1FICA 2HLOB 1LWUB 4ZFGA 2Z4EC 2JHKF 1FZEB 2XNXB 2HODC 2Q9IB 2FFDB 1FZBB 3HUSC 2J2PA 2D39A 2H43C 1FZGC 4JYOX 1FZAC 1RF0C 1LTJB 4R9JA 2HPCC 3H32B 1N86C 1RE4C 2Z4EB 2HODB 2J5ZA 4NYTA 1RE3B 3E1IB 1FZFC 3BVHC 1N73C 1LT9C 1FIDA 2J3FA 2J61A 2H43B 2OYHB 1JC9A 2J0YA 1FZCC 1M1JC 2J60A 4JZCA 1RF1C 4M7HA
chains in the Genus database with same CATH topology
2OYIC 1FZFB 2J0HA 3GHGC 3BVHB 2HLOC 4M7FA 2J3FD 2JHHC 3HUSB 2XNXC 1M1JB 1FZGB 3FIBA 1FZBC 1FZAB 1RF0B 4R9TA 2FIBA 2HPCB 1N86B 1RE4B 2J0GA 1LTJC 2J3GA 3H32C 4EPUA 1FIBA 2J64A 2J3OA 1N73B 1LWUC 1LT9B 2JHIF 1RE3C 2GY7A 2J61B 2J3UA 3E1IC 1FZCB 1FZEC 2Q9IC 2JHLF 2FFDC 1Z3SA 2OYHC 2J1GA 1RF1B 2WNPF 1FZDA 2OYIB 1Z3UA 2JHMF 1FICA 2HLOB 1LWUB 4ZFGA 2Z4EC 2JHKF 1FZEB 2XNXB 2HODC 2Q9IB 2FFDB 1FZBB 3HUSC 2J2PA 2D39A 2H43C 1FZGC 4JYOX 1FZAC 1RF0C 1LTJB 4R9JA 2HPCC 3H32B 1N86C 1RE4C 2Z4EB 2HODB 2J5ZA 4NYTA 1RE3B 3E1IB 1FZFC 3BVHC 1N73C 1LT9C 1FIDA 2J3FA 2J61A 2H43B 2OYHB 1JC9A 2J0YA 1FZCC 1M1JC 2J60A 4JZCA 1RF1C 4M7HA
chains in the Genus database with same CATH homology

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