4LJ1A

Ripd (rv1566c) from mycobacterium tuberculosis: a non-catalytic nlpc/p60 domain protein with two penta-peptide repeat units (pvqqa-pvqpa)
Total Genus 40
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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
40
sequence length
144
structure length
135
Chain Sequence
YQQITDVVIARGLSQRGVPFSWAGGGISGPTRGTGTGINTVGFDASGLIQYAYAGAGLKLPRSSGQMYKVGQKVLPQQARKGDLIFYGPEGTQSVALYLGKGQMLEVGDVVQVSPVRTNGMTPYLVRVLGPVQPA
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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 RipD (Rv1566c) from Mycobacterium tuberculosis: adaptation of an NlpC/p60 domain to a non-catalytic peptidoglycan-binding function.
pubmed doi rcsb
molecule tags Cell invasion
source organism Mycobacterium tuberculosis
molecule keywords Invasion-associated protein
total genus 40
structure length 135
sequence length 144
ec nomenclature
pdb deposition date 2013-07-04

pfam database annotations

chain Pfam Accession Code Pfam Family Identifier Pfam Description
A PF00877 NLPC_P60 NlpC/P60 family
Image from the rcsb pdb (www.rcsb.org)
cath code
ClassArchitectureTopologyHomologyDomain
3.90.1720.10 Alpha Beta Alpha-Beta Complex endopeptidase fold (from Nostoc punctiforme) endopeptidase domain like (from Nostoc punctiforme) 4lj1A00
4EQ8A 3M1UA 3O98A 3A30A 4FGEA 4FGDA 4FGIA 3NE0A 2K1GA 2FG0A 3PBCA 4EOBA 4F0WA 2VPSA 2VPMA 4CSHA 3NPFA 3VPJA 4FDYA 2K3AA 4FQAA 4R0KA 4JXBA 4HZ9A 4F0VA 3S0QA 2IOBA 4FQBA 3PBIA 4HPEA 3I86A 4Q4NA 4F4MA 4HZBA 4CT3A 4CGKA 4Q4GX 2IF6A 2EVRA 4Q4TA 2IOAA 4EQAA 2XIVA 2IO8A 3VPIA 2IO9A 3KW0A 4OLKA 3A2ZA 3PVQA 3GT2A 2VOBA 2LRJA 4LJ1A 2IO7A 3A2YA 3H41A 2HBWA
chains in the Genus database with same CATH superfamily
4EQ8A 3M1UA 3O98A 3EBQA 3A30A 4FGEA 4FGDA 4FGIA 3NE0A 2K1GA 4HFFA 2FG0A 3PBCA 4EOBA 4F0WA 2VPSA 4HFLA 2VPMA 4CSHA 3NPFA 3VPJA 4FDYA 2K3AA 4FQAA 4R0KA 4JXBA 4HZ9A 4F0VA 3S0QA 2IOBA 4FQBA 3PBIA 4HPEA 3I86A 4Q4NA 4F4MA 4HZBA 4CT3A 4CGKA 4Q4GX 2IF6A 4J32A 2EVRA 4J30A 2WP7A 4JURA 2IOAA 4Q4TA 4EQAA 2XIVA 2IO8A 3VPIA 2IO9A 3KW0A 4OLKA 3A2ZA 3PVQA 3GT2A 2VOBA 2LRJA 4LJ1A 2IO7A 3A2YA 3H41A 4HFKA 2HBWA
chains in the Genus database with same CATH topology
4EQ8A 3M1UA 3O98A 3A30A 4FGEA 4FGDA 4FGIA 3NE0A 2K1GA 2FG0A 3PBCA 4EOBA 4F0WA 2VPSA 2VPMA 4CSHA 3NPFA 3VPJA 4FDYA 2K3AA 4FQAA 4R0KA 4JXBA 4HZ9A 4F0VA 3S0QA 2IOBA 4FQBA 3PBIA 4HPEA 3I86A 4Q4NA 4F4MA 4HZBA 4CT3A 4CGKA 4Q4GX 2IF6A 2EVRA 4Q4TA 2IOAA 4EQAA 2XIVA 2IO8A 3VPIA 2IO9A 3KW0A 4OLKA 3A2ZA 3PVQA 3GT2A 2VOBA 2LRJA 4LJ1A 2IO7A 3A2YA 3H41A 2HBWA
chains in the Genus database with same CATH homology


 
#chains in the Genus database with same CATH superfamily
 4EQ8 A;  3M1U A;  3O98 A;  3A30 A;  4FGE A;  4FGD A;  4FGI A;  3NE0 A;  2K1G A;  2FG0 A;  3PBC A;  4EOB A;  4F0W A;  2VPS A;  2VPM A;  4CSH A;  3NPF A;  3VPJ A;  4FDY A;  2K3A A;  4FQA A;  4R0K A;  4JXB A;  4HZ9 A;  4F0V A;  3S0Q A;  2IOB A;  4FQB A;  3PBI A;  4HPE A;  3I86 A;  4Q4N A;  4F4M A;  4HZB A;  4CT3 A;  4CGK A;  4Q4G X;  2IF6 A;  2EVR A;  4Q4T A;  2IOA A;  4EQA A;  2XIV A;  2IO8 A;  3VPI A;  2IO9 A;  3KW0 A;  4OLK A;  3A2Z A;  3PVQ A;  3GT2 A;  2VOB A;  2LRJ A;  4LJ1 A;  2IO7 A;  3A2Y A;  3H41 A;  2HBW A; 
#chains in the Genus database with same CATH topology
 4EQ8 A;  3M1U A;  3O98 A;  3EBQ A;  3A30 A;  4FGE A;  4FGD A;  4FGI A;  3NE0 A;  2K1G A;  4HFF A;  2FG0 A;  3PBC A;  4EOB A;  4F0W A;  2VPS A;  4HFL A;  2VPM A;  4CSH A;  3NPF A;  3VPJ A;  4FDY A;  2K3A A;  4FQA A;  4R0K A;  4JXB A;  4HZ9 A;  4F0V A;  3S0Q A;  2IOB A;  4FQB A;  3PBI A;  4HPE A;  3I86 A;  4Q4N A;  4F4M A;  4HZB A;  4CT3 A;  4CGK A;  4Q4G X;  2IF6 A;  4J32 A;  2EVR A;  4J30 A;  2WP7 A;  4JUR A;  2IOA A;  4Q4T A;  4EQA A;  2XIV A;  2IO8 A;  3VPI A;  2IO9 A;  3KW0 A;  4OLK A;  3A2Z A;  3PVQ A;  3GT2 A;  2VOB A;  2LRJ A;  4LJ1 A;  2IO7 A;  3A2Y A;  3H41 A;  4HFK A;  2HBW A; 
#chains in the Genus database with same CATH homology
 4EQ8 A;  3M1U A;  3O98 A;  3A30 A;  4FGE A;  4FGD A;  4FGI A;  3NE0 A;  2K1G A;  2FG0 A;  3PBC A;  4EOB A;  4F0W A;  2VPS A;  2VPM A;  4CSH A;  3NPF A;  3VPJ A;  4FDY A;  2K3A A;  4FQA A;  4R0K A;  4JXB A;  4HZ9 A;  4F0V A;  3S0Q A;  2IOB A;  4FQB A;  3PBI A;  4HPE A;  3I86 A;  4Q4N A;  4F4M A;  4HZB A;  4CT3 A;  4CGK A;  4Q4G X;  2IF6 A;  2EVR A;  4Q4T A;  2IOA A;  4EQA A;  2XIV A;  2IO8 A;  3VPI A;  2IO9 A;  3KW0 A;  4OLK A;  3A2Z A;  3PVQ A;  3GT2 A;  2VOB A;  2LRJ A;  4LJ1 A;  2IO7 A;  3A2Y A;  3H41 A;  2HBW 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)

 
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#similar chains, but unknotted
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