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
1OHNA 1OG7A 2A2BA
chains in the Genus database with same CATH superfamily
1BDTA 3H87C 3IR7A 2BJ9A 1B01A 2BNWA 2BJ8A 2BJ3A 2CAXA 4QPXA 2JXGA 3QIDA 3SFUA 2JXIA 2CPGA 1MYKA 2BA3A 3NO7A 1Q16A 2WK4A 3H5XA 2K1OA 3LJPA 4ME7E 4MJWA 3FT7A 2BJ7A 2UUWA 2Q2KA 1MNTA 3G5OA 3VEAA 3UQSA 2HZVA 4HV0A 3QOQA 2WVCA 1BAZA 2JBVA 3NAIA 3UPFA 1IRQA 1MYLA 1SIWA 2GPEA 2UUTA 2BSQE 2A2BA 2BJ1A 2H3AA 1OHNA 1U9PA 3NAHA 1X93A 2KKEA 2WVBA 2HZAA 1NLAA 4NRTA 2WVFA 3NNEA 4LQ9A 1P94A 2CA9A 3FMTA 1B28A 2AN7A 2K5JA 1ARRA 4LQ3A 3OD2A 3BSOA 3VW4A 2K6LA 2BNZA 2K9IA 3VEBA 2WVEA 3H5YA 2B43A 2KELA 4AAIA 1QTGA 4LRVA 1PARA 2KOEA 3LGHA 1SH2A 1EA4A 2CADA 1Q5VA 4FXEA 4NRUA 3SFGA 2K29A 1SH0A 1OG7A 2CKWA 2AY0A 3UR0A 3BSNA 3GXQA 1ARQA 2RBFA 2WVDA 2ADLA 4D8JA 2H1OE 4O4RA 2CAJA 1SH3A 1BDVA 2JXHA
chains in the Genus database with same CATH topology
2Q2KA 1SH2A 3IR7A 2AN7A 3G5OA 4NRUA 3UQSA 4LQ3A 2JBVA 3NAIA 3SFGA 3UPFA 1SH0A 1OG7A 1SIWA 2UUTA 4QPXA 2CKWA 2A2BA 3BSOA 3QIDA 3UR0A 3BSNA 1OHNA 3SFUA 2H3AA 3H5YA 3NO7A 1Q16A 2WK4A 3NAHA 3H5XA 2ADLA 2B43A 2KKEA 4AAIA 3LJPA 4LRVA 4O4RA 4NRTA 1SH3A 4MJWA 3NNEA 4LQ9A 2UUWA 2KOEA
chains in the Genus database with same CATH homology


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