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


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