3PBIA

Structure of the peptidoglycan hydrolase ripb (rv1478) from mycobacterium tuberculosis at 1.6 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
199
Chain Sequence
GQWDPTLPALVSAGAPGDPLAVANASLQATAQATQTTLDLGRQFLGGLGINLGGPTGASRIPRANARQAVEYVIRRAGSQMGVPYSWGGGSLQGPSKGVDSGANTVGFDCSGLVRYAFAGVGVLIPRFSGDQYNAGRHVPPAEAKRGDLIFYGPGGGQHVTLYLGNGQMLEASGSAGKVTVSPVRKAGMTPFVTRIIEY
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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 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 199
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) 3pbiA00
4Q4GX 3I86A 4FQAA 4HPEA 3VPIA 4F4MA 2FG0A 4JXBA 4HZ9A 3KW0A 2IO9A 4FGIA 4OLKA 4R0KA 2IO8A 4HZBA 2IO7A 2EVRA 3A2ZA 3NPFA 4F0WA 4EQAA 2LRJA 2VOBA 4EQ8A 3O98A 3PVQA 4CT3A 3M1UA 2VPSA 3GT2A 4F0VA 2HBWA 2K1GA 3PBIA 4FGDA 4FQBA 4LJ1A 2K3AA 4FGEA 2VPMA 4Q4TA 4CGKA 3A2YA 3H41A 2IF6A 3NE0A 3PBCA 4EOBA 2IOAA 2IOBA 2XIVA 4Q4NA 4FDYA 3S0QA 3A30A 3VPJA 4CSHA
chains in the Genus database with same CATH superfamily
4Q4GX 3I86A 4FQAA 2WP7A 4HPEA 4HFFA 4J32A 3VPIA 4F4MA 2FG0A 4JXBA 4HZ9A 3KW0A 2IO9A 4FGIA 4OLKA 4R0KA 2IO8A 4HZBA 4J30A 2IO7A 2EVRA 3A2ZA 3NPFA 4F0WA 4EQAA 2LRJA 2VOBA 4EQ8A 3O98A 3PVQA 4CT3A 4HFLA 3M1UA 2VPSA 3GT2A 4F0VA 2HBWA 2K1GA 3PBIA 4FGDA 4FQBA 4LJ1A 2K3AA 4JURA 4FGEA 4HFKA 2VPMA 4Q4TA 4CGKA 3A2YA 3H41A 2IF6A 3NE0A 3PBCA 4EOBA 2IOAA 2IOBA 2XIVA 3EBQA 4Q4NA 4FDYA 3S0QA 3A30A 3VPJA 4CSHA
chains in the Genus database with same CATH topology
4Q4GX 3I86A 4FQAA 4HPEA 3VPIA 4F4MA 2FG0A 4JXBA 4HZ9A 3KW0A 2IO9A 4FGIA 4OLKA 4R0KA 2IO8A 4HZBA 2IO7A 2EVRA 3A2ZA 3NPFA 4F0WA 4EQAA 2LRJA 2VOBA 4EQ8A 3O98A 3PVQA 4CT3A 3M1UA 2VPSA 3GT2A 4F0VA 2HBWA 2K1GA 3PBIA 4FGDA 4FQBA 4LJ1A 2K3AA 4FGEA 2VPMA 4Q4TA 4CGKA 3A2YA 3H41A 2IF6A 3NE0A 3PBCA 4EOBA 2IOAA 2IOBA 2XIVA 4Q4NA 4FDYA 3S0QA 3A30A 3VPJA 4CSHA
chains in the Genus database with same CATH homology


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