1OHNA

Three-dimensional structure in lipid micelles of the pediocin-like antimicrobial peptide sakacin p.
Total Genus 10
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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
10
sequence length
43
structure length
43
Chain Sequence
KYYGNGVHCGKHSCTVDWGTAIGNIGNNAAANWATGGNAGWNK
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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 Three-Dimensional Structure in Lipid Micelles of the Pediocin-Like Antimicrobial Peptide Sakacin P and a Sakacin P Variant that is Structurally Stabilized by an Inserted C-Terminal Disulfide Bridge
pubmed doi rcsb
molecule tags Antibiotic
source organism Lactobacillus sake
molecule keywords BACTERIOCIN SAKACIN P
total genus 10
structure length 43
sequence length 43
ec nomenclature
pdb deposition date 2003-05-28

pfam database annotations

chain Pfam Accession Code Pfam Family Identifier Pfam Description
A PF01721 Bacteriocin_II Class II bacteriocin
Image from the rcsb pdb (www.rcsb.org)
cath code
ClassArchitectureTopologyHomologyDomain
1.10.1220.30 Mainly Alpha Orthogonal Bundle Arc Repressor Mutant Arc Repressor Mutant 1ohnA00
2A2BA 1OHNA 1OG7A
chains in the Genus database with same CATH superfamily
2HZVA 2CA9A 1MNTA 3GXQA 3IR7A 3NO7A 4O4RA 2Q2KA 4LQ9A 3NAHA 2BJ3A 1P94A 1U9PA 4QPXA 3BSOA 4NRUA 2RBFA 1ARQA 2H3AA 3SFUA 2JBVA 3UPFA 1SH3A 3NAIA 2KOEA 2WVEA 2H1OE 2WVDA 4LRVA 3UR0A 3NNEA 2K6LA 3VEBA 4ME7E 1PARA 2JXIA 3H87C 1IRQA 1Q16A 2WK4A 3LGHA 2BJ7A 2BJ1A 2BSQE 3FMTA 3H5XA 1OHNA 1B01A 3LJPA 1BAZA 1EA4A 3OD2A 4AAIA 1MYKA 2B43A 3VW4A 2ADLA 1NLAA 2WVCA 3QIDA 1B28A 2WVBA 1MYLA 2BJ8A 2JXGA 2A2BA 2CAXA 2CKWA 3BSNA 4LQ3A 1Q5VA 3VEAA 1BDVA 2CADA 3SFGA 4MJWA 3G5OA 2CAJA 2KKEA 4HV0A 2CPGA 1ARRA 1SH2A 2GPEA 4NRTA 3UQSA 2BJ9A 2KELA 1OG7A 2K1OA 2JXHA 3FT7A 3H5YA 1QTGA 1BDTA 4FXEA 2BNZA 2K5JA 2WVFA 1X93A 1SH0A 3QOQA 1SIWA 2K9IA 2AY0A 4D8JA 2K29A 2BA3A 2UUWA 2HZAA 2UUTA 2BNWA 2AN7A
chains in the Genus database with same CATH topology
3H5YA 2ADLA 3IR7A 3NO7A 3QIDA 4O4RA 2Q2KA 2A2BA 4LQ9A 3NAHA 2CKWA 1Q16A 3BSNA 4LQ3A 2WK4A 4QPXA 3BSOA 1SH0A 4NRUA 1SIWA 3H5XA 2H3AA 3SFGA 3SFUA 1OHNA 2JBVA 4MJWA 3G5OA 3LJPA 3UPFA 2KKEA 1SH3A 3NAIA 2KOEA 1SH2A 4LRVA 4NRTA 4AAIA 2UUWA 3UQSA 3UR0A 2UUTA 2B43A 3NNEA 1OG7A 2AN7A
chains in the Genus database with same CATH homology


 
#chains in the Genus database with same CATH superfamily
 2A2B A;  1OHN A;  1OG7 A; 
#chains in the Genus database with same CATH topology
 2HZV A;  2CA9 A;  1MNT A;  3GXQ A;  3IR7 A;  3NO7 A;  4O4R A;  2Q2K A;  4LQ9 A;  3NAH A;  2BJ3 A;  1P94 A;  1U9P A;  4QPX A;  3BSO A;  4NRU A;  2RBF A;  1ARQ A;  2H3A A;  3SFU A;  2JBV A;  3UPF A;  1SH3 A;  3NAI A;  2KOE A;  2WVE A;  2H1O E;  2WVD A;  4LRV A;  3UR0 A;  3NNE A;  2K6L A;  3VEB A;  4ME7 E;  1PAR A;  2JXI A;  3H87 C;  1IRQ A;  1Q16 A;  2WK4 A;  3LGH A;  2BJ7 A;  2BJ1 A;  2BSQ E;  3FMT A;  3H5X A;  1OHN A;  1B01 A;  3LJP A;  1BAZ A;  1EA4 A;  3OD2 A;  4AAI A;  1MYK A;  2B43 A;  3VW4 A;  2ADL A;  1NLA A;  2WVC A;  3QID A;  1B28 A;  2WVB A;  1MYL A;  2BJ8 A;  2JXG A;  2A2B A;  2CAX A;  2CKW A;  3BSN A;  4LQ3 A;  1Q5V A;  3VEA A;  1BDV A;  2CAD A;  3SFG A;  4MJW A;  3G5O A;  2CAJ A;  2KKE A;  4HV0 A;  2CPG A;  1ARR A;  1SH2 A;  2GPE A;  4NRT A;  3UQS A;  2BJ9 A;  2KEL A;  1OG7 A;  2K1O A;  2JXH A;  3FT7 A;  3H5Y A;  1QTG A;  1BDT A;  4FXE A;  2BNZ A;  2K5J A;  2WVF A;  1X93 A;  1SH0 A;  3QOQ A;  1SIW A;  2K9I A;  2AY0 A;  4D8J A;  2K29 A;  2BA3 A;  2UUW A;  2HZA A;  2UUT A;  2BNW A;  2AN7 A; 
#chains in the Genus database with same CATH homology
 3H5Y A;  2ADL A;  3IR7 A;  3NO7 A;  3QID A;  4O4R A;  2Q2K A;  2A2B A;  4LQ9 A;  3NAH A;  2CKW A;  1Q16 A;  3BSN A;  4LQ3 A;  2WK4 A;  4QPX A;  3BSO A;  1SH0 A;  4NRU A;  1SIW A;  3H5X A;  2H3A A;  3SFG A;  3SFU A;  1OHN A;  2JBV A;  4MJW A;  3G5O A;  3LJP A;  3UPF A;  2KKE A;  1SH3 A;  3NAI A;  2KOE A;  1SH2 A;  4LRV A;  4NRT A;  4AAI A;  2UUW A;  3UQS A;  3UR0 A;  2UUT A;  2B43 A;  3NNE A;  1OG7 A;  2AN7 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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