3PBCA

Peptidase module of the peptidoglycan hydrolase ripa (rv1477) from mycobacterium tuberculosis at 1.38 resolution
Total Genus 60
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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
60
sequence length
208
structure length
208
Chain Sequence
GLWDPTLPMIPSANIPGDPIAVVNQVLGISATSAQVTANMGRKFLEQLGILQPTDTGITNAPAGSAQGRIPRVYGRQASEYVIRRGMSQIGVPYSWGGGNAAGPSKGIDSGAGTVGFDCSGLVLYSFAGVGIKLPHYSGSQYNLGRKIPSSQMRRGDVIFYGPNGSQHVTIYLGNGQMLEAPDVGLKVRVAPVRTAGMTPYVVRYIEY
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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.

publication title Peptidoglycan Remodeling in Mycobacterium tuberculosis: Comparison of Structures and Catalytic Activities of RipA and RipB.
pubmed doi rcsb
molecule tags Hydrolase
source organism Mycobacterium tuberculosis
molecule keywords INVASION PROTEIN
total genus 60
structure length 208
sequence length 208
ec nomenclature
pdb deposition date 2010-10-20

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) 3pbcA00
3H41A 2IOAA 4Q4GX 4CGKA 2VPMA 4FDYA 4FQBA 3VPIA 2XIVA 3A2YA 3NE0A 4FGIA 4Q4TA 2HBWA 3S0QA 4F0VA 2VPSA 2IO7A 3PBCA 2IO9A 3A30A 4F0WA 4HZ9A 4HZBA 2FG0A 4Q4NA 2IF6A 2EVRA 4CT3A 4R0KA 3NPFA 3GT2A 3I86A 4EQAA 4FGEA 3A2ZA 3PVQA 2K3AA 4JXBA 4FQAA 3M1UA 3PBIA 4HPEA 4LJ1A 4FGDA 2IO8A 2K1GA 2LRJA 4OLKA 3O98A 2IOBA 2VOBA 4EQ8A 3VPJA 4EOBA 4CSHA 4F4MA 3KW0A
chains in the Genus database with same CATH superfamily
3H41A 2IOAA 4Q4GX 4CGKA 2VPMA 4FDYA 4FQBA 3VPIA 2XIVA 3A2YA 3NE0A 4FGIA 4J32A 2HBWA 4Q4TA 3S0QA 2VPSA 4F0VA 2IO7A 3PBCA 2IO9A 3A30A 4F0WA 4HZ9A 4HZBA 2FG0A 4Q4NA 2IF6A 4HFLA 2EVRA 4CT3A 4R0KA 3NPFA 3GT2A 3I86A 4EQAA 4FGEA 3A2ZA 3PVQA 2K3AA 4J30A 4JXBA 4FQAA 4HFFA 3M1UA 3PBIA 2WP7A 4HPEA 4LJ1A 4FGDA 2IO8A 2K1GA 2LRJA 4OLKA 3O98A 2IOBA 2VOBA 4EQ8A 3VPJA 4HFKA 3EBQA 4JURA 4EOBA 4CSHA 4F4MA 3KW0A
chains in the Genus database with same CATH topology
3H41A 2IOAA 4Q4GX 4CGKA 2VPMA 4FDYA 4FQBA 3VPIA 2XIVA 3A2YA 3NE0A 4FGIA 4Q4TA 2HBWA 3S0QA 4F0VA 2VPSA 2IO7A 3PBCA 2IO9A 3A30A 4F0WA 4HZ9A 4HZBA 2FG0A 4Q4NA 2IF6A 2EVRA 4CT3A 4R0KA 3NPFA 3GT2A 3I86A 4EQAA 4FGEA 3A2ZA 3PVQA 2K3AA 4JXBA 4FQAA 3M1UA 3PBIA 4HPEA 4LJ1A 4FGDA 2IO8A 2K1GA 2LRJA 4OLKA 3O98A 2IOBA 2VOBA 4EQ8A 3VPJA 4EOBA 4CSHA 4F4MA 3KW0A
chains in the Genus database with same CATH homology


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