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310  structures 3668  species 33  interactions 14946  sequences 114  architectures

Clan: Cystine-knot (CL0079)

Summary

Cystine-knot cytokine superfamily Add an annotation

The cytokine families in this clan have the cystine-knot fold. In this 6 cysteines form three disulphide bridges that are interlinked.

This clan contains 10 families and the total number of domains in the clan is 14946. The clan was built by A Bateman.

Literature references

  1. Sun PD, Davies DR; , Annu Rev Biophys Biomol Struct 1995;24:269-291.: The cystine-knot growth-factor superfamily. PUBMED:7663117 EPMC:7663117
  2. McDonald NQ, Hendrickson WA; , Cell 1993;73:421-424.: A structural superfamily of growth factors containing a cystine knot motif. PUBMED:8490958 EPMC:8490958

Members

This clan contains the following 10 member families:

Coagulin Cys_knot DAN Hormone_6 NGF Noggin PDGF Sclerostin Spaetzle TGF_beta

External database links

Domain organisation

Below is a listing of the unique domain organisations or architectures from this clan. More...

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Alignments

The table below shows the number of occurrences of each domain throughout the sequence database. More...

Pfam family Num. domains Alignment
NGF (PF00243) 5318 (35.6%) View
TGF_beta (PF00019) 5158 (34.5%) View
Cys_knot (PF00007) 1788 (12.0%) View
PDGF (PF00341) 1170 (7.8%) View
DAN (PF03045) 545 (3.6%) View
Spaetzle (PF16077) 371 (2.5%) View
Hormone_6 (PF00236) 233 (1.6%) View
Noggin (PF05806) 205 (1.4%) View
Sclerostin (PF05463) 154 (1.0%) View
Coagulin (PF02035) 4 (0.0%) View
Total: 10 Total: 14946 Clan alignment
 

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Family relationships

This diagram shows the relationships between members of this clan. More...

Species distribution

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This tree shows the occurrence of the domains in this clan across different species. More...

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Interactions

There are 33 interactions for this clan. More...

Interacting families
A B
Activin_recp TGF_beta
Coagulin Coagulin
Cys_knot Cys_knot
GnHR_trans
Hormone_6
LRR_8
LRRNT
GDNF TGF_beta
Hormone_6 Cys_knot
GnHR_trans
Hormone_6
LRR_8
Ldl_recept_b Sclerostin
NGF I-set
NGF
TNFR_c6
Trypsin
PDGF Ig_2
PDGF
PDGF_N
V-set
PDGF_N PDGF
TGF_beta Activin_recp
ecTbetaR2
GDNF
Kazal_1
Kazal_2
Noggin
TGF_beta
TGFb_propeptide
TGFb_propeptide TGF_beta
TNFR_c6 NGF
Trypsin NGF

Structures

For those sequences which have a structure in the Protein DataBank, we use the mapping between UniProt, PDB and Pfam coordinate systems from the MSD group, to allow us to map Pfam domains onto UniProt three-dimensional structures. The table below shows the mapping between the Pfam families in this clan, the corresponding UniProt entries, and the region of the three-dimensional structures that are available for that sequence.

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