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


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