1KN9A

Crystal structure of a bacterial signal peptidase apo-enzyme, implications for signal peptide binding and the ser-lys dyad mechanism.
Total Genus 52
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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
52
sequence length
248
structure length
234
Chain Sequence
VRSFIYEPFQIPSGSMMPTLLIGDFILVEKFAYGIKDPIYQKTLIETGHPKRGDIVVFKYPEDPKLDYIKRAVGLPGDKVTYDPVSKELTIQPGCSSNALPVTYSNVEPSDFVQTFSRRNGGEATSGFFEVPKNETKENGIRLSERKETLGDVTHRILTVPIAQDQVGMYYQQPGQQLATWIVPPGQYFMMGDNRDNSADSRYWGFVPEANLVGRATAIWMSFDLRLSRIGGIH
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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.

Chord Diagram
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publication title Crystal structure of a bacterial signal peptidase apoenzyme: implications for signal peptide binding and the Ser-Lys dyad mechanism
pubmed doi rcsb
molecule tags Hydrolase
source organism Escherichia coli k12
molecule keywords Signal peptidase I
total genus 52
structure length 234
sequence length 248
chains with identical sequence B, C, D
ec nomenclature ec 3.4.21.89: Signal peptidase I.
pdb deposition date 2001-12-18

pfam database annotations

chain Pfam Accession Code Pfam Family Identifier Pfam Description
A PF00717 Peptidase_S24 Peptidase S24-like
A PF10502 Peptidase_S26 Signal peptidase, peptidase S26
Image from the rcsb pdb (www.rcsb.org)
cath code
ClassArchitectureTopologyHomologyDomain
2.10.109.10 Mainly Beta Ribbon Umud Fragment, subunit A Umud Fragment, subunit A 1kn9A01
2.170.230.10 Mainly Beta Beta Complex Signal Peptidase I; Chain: A, domain 2 Signal Peptidase I; Chain: A, domain 2 1kn9A02
2FKDA 1I4VA 1KN9A 3S04A 1JHEA 4N31A 2HNFA 4ME8A 4K8WA 1B12A 4NV4A 3IIQA 2HO0A 1T7DA 1F39A 3JSPA 1KCAA 1UMUA 3JSOA 1JHFA 2FJRA 3BDNA 1JHHA 1AY9A 1JHCA 3K2ZA
chains in the Genus database with same CATH superfamily
2FKDA 1I4VA 1KN9A 3S04A 1JHEA 4N31A 2HNFA 4ME8A 4K8WA 1B12A 4NV4A 3IIQA 2HO0A 1T7DA 1F39A 3JSPA 1KCAA 1UMUA 3JSOA 1JHFA 2FJRA 3BDNA 1JHHA 1AY9A 1JHCA 3K2ZA
chains in the Genus database with same CATH topology
2FKDA 1I4VA 1KN9A 3S04A 1JHEA 4N31A 2HNFA 4ME8A 4K8WA 1B12A 4NV4A 3IIQA 2HO0A 1T7DA 1F39A 3JSPA 1KCAA 1UMUA 3JSOA 1JHFA 2FJRA 3BDNA 1JHHA 1AY9A 1JHCA 3K2ZA
chains in the Genus database with same CATH homology


 
#chains in the Genus database with same CATH superfamily
 2FKD A;  1I4V A;  1KN9 A;  3S04 A;  1JHE A;  4N31 A;  2HNF A;  4ME8 A;  4K8W A;  1B12 A;  4NV4 A;  3IIQ A;  2HO0 A;  1T7D A;  1F39 A;  3JSP A;  1KCA A;  1UMU A;  3JSO A;  1JHF A;  2FJR A;  3BDN A;  1JHH A;  1AY9 A;  1JHC A;  3K2Z A; 
#chains in the Genus database with same CATH topology
 2FKD A;  1I4V A;  1KN9 A;  3S04 A;  1JHE A;  4N31 A;  2HNF A;  4ME8 A;  4K8W A;  1B12 A;  4NV4 A;  3IIQ A;  2HO0 A;  1T7D A;  1F39 A;  3JSP A;  1KCA A;  1UMU A;  3JSO A;  1JHF A;  2FJR A;  3BDN A;  1JHH A;  1AY9 A;  1JHC A;  3K2Z A; 
#chains in the Genus database with same CATH homology
 2FKD A;  1I4V A;  1KN9 A;  3S04 A;  1JHE A;  4N31 A;  2HNF A;  4ME8 A;  4K8W A;  1B12 A;  4NV4 A;  3IIQ A;  2HO0 A;  1T7D A;  1F39 A;  3JSP A;  1KCA A;  1UMU A;  3JSO A;  1JHF A;  2FJR A;  3BDN A;  1JHH A;  1AY9 A;  1JHC A;  3K2Z 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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