4MURA

Crystal structure of vancomycin resistance d,d-dipeptidase/d,d-pentapeptidase vanxyc d59s mutant
Total Genus 59
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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
59
sequence length
189
structure length
189
Chain Sequence
MNTLQLINKNHPLKKNQEPPHLVLAPFSDHDVYLQPEVAKQWERLVRATGLEKDIRLVSGYRTEKEQRRLWEYSLKENGLAYTKQFVALPGCSEHQIGLAIDVGLKKQEDDDLICPHFRDSAAADLFMQQMMNYGFILRYPEDKQEITGISYEPWHFRYVGLPHSQVITAQKWTLEEYHDYLAQTVRQF
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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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molecule tags Hydrolase
molecule keywords D,D-dipeptidase/D,D-carboxypeptidase
publication title Structural basis for the evolution of vancomycin resistance D,D-peptidases.
pubmed doi rcsb
source organism Enterococcus gallinarum
total genus 59
structure length 189
sequence length 189
chains with identical sequence B
ec nomenclature
pdb deposition date 2013-09-23

pfam database annotations

chain Pfam Accession Code Pfam Family Identifier Pfam Description
A PF02557 VanY D-alanyl-D-alanine carboxypeptidase
Image from the rcsb pdb (www.rcsb.org)
cath code
ClassArchitectureTopologyHomologyDomain
3.30.1380.10 Alpha Beta 2-Layer Sandwich Muramoyl-pentapeptide Carboxypeptidase; domain 2 Muramoyl-pentapeptide Carboxypeptidase; domain 2 4murA00
4MUTA 1TZPA 3K7JB 1VHHA 3HO5H 4MUQA 3K7IB 1R44A 3M1NA 4MUSA 4MURA 4C4NA 3N1QA 2WFQA 3N1OA 4NT9A 4OX5A 2WG3A 3D1MA 4F78A 3N1RA 2IBGE 2VO9A 4D0YA 3N1FA 4OAKA 3K7HB 4OX3A 4MPHA 1U10A 5HNMA 2WFRA 4OXDA 4C4MA 3K7GB 4JIDA 1LBUA 3N1GA 3N1PB 3N1MB 3MXWA 2WG4A 2WFXA
chains in the Genus database with same CATH superfamily
1SZ7A 4MUTA 1TZPA 3K7JB 1VHHA 1WC8A 2J3RB 3HO5H 4MUQA 3K7IB 1R44A 3M1NA 4MUSA 4MURA 3KXCC 4C4NA 3NJCA 3KXCA 3N1QA 2CFHC 2WFXA 2WFQA 3N1OA 2J3TA 2CFHA 4NT9A 3CUED 4OX5A 2WG3A 3D1MA 3CUEB 4F78A 3N1RA 2IBGE 2J3TB 2VO9A 4D0YA 2BJNA 2WG4A 3N1FA 4OAKA 3K7HB 2OSDA 2J3WB 4OX3A 2J3WD 1WC9A 4MPHA 1U10A 2C0JA 5HNMA 2WFRA 4OXDA 4C4MA 3K7GB 4JIDA 1LBUA 3N1GA 3N1PB 3N1MB 3MXWA 2C0JB 2OSOA 2PWNA 2J3RA
chains in the Genus database with same CATH topology
4MUTA 1TZPA 3K7JB 1VHHA 3HO5H 4MUQA 3K7IB 1R44A 3M1NA 4MUSA 4MURA 4C4NA 3N1QA 2WFQA 3N1OA 4NT9A 4OX5A 2WG3A 3D1MA 4F78A 3N1RA 2IBGE 2VO9A 4D0YA 3N1FA 4OAKA 3K7HB 4OX3A 4MPHA 1U10A 5HNMA 2WFRA 4OXDA 4C4MA 3K7GB 4JIDA 1LBUA 3N1GA 3N1PB 3N1MB 3MXWA 2WG4A 2WFXA
chains in the Genus database with same CATH homology


 
#chains in the Genus database with same CATH superfamily
 4MUT A;  1TZP A;  3K7J B;  1VHH A;  3HO5 H;  4MUQ A;  3K7I B;  1R44 A;  3M1N A;  4MUS A;  4MUR A;  4C4N A;  3N1Q A;  2WFQ A;  3N1O A;  4NT9 A;  4OX5 A;  2WG3 A;  3D1M A;  4F78 A;  3N1R A;  2IBG E;  2VO9 A;  4D0Y A;  3N1F A;  4OAK A;  3K7H B;  4OX3 A;  4MPH A;  1U10 A;  5HNM A;  2WFR A;  4OXD A;  4C4M A;  3K7G B;  4JID A;  1LBU A;  3N1G A;  3N1P B;  3N1M B;  3MXW A;  2WG4 A;  2WFX A; 
#chains in the Genus database with same CATH topology
 1SZ7 A;  4MUT A;  1TZP A;  3K7J B;  1VHH A;  1WC8 A;  2J3R B;  3HO5 H;  4MUQ A;  3K7I B;  1R44 A;  3M1N A;  4MUS A;  4MUR A;  3KXC C;  4C4N A;  3NJC A;  3KXC A;  3N1Q A;  2CFH C;  2WFX A;  2WFQ A;  3N1O A;  2J3T A;  2CFH A;  4NT9 A;  3CUE D;  4OX5 A;  2WG3 A;  3D1M A;  3CUE B;  4F78 A;  3N1R A;  2IBG E;  2J3T B;  2VO9 A;  4D0Y A;  2BJN A;  2WG4 A;  3N1F A;  4OAK A;  3K7H B;  2OSD A;  2J3W B;  4OX3 A;  2J3W D;  1WC9 A;  4MPH A;  1U10 A;  2C0J A;  5HNM A;  2WFR A;  4OXD A;  4C4M A;  3K7G B;  4JID A;  1LBU A;  3N1G A;  3N1P B;  3N1M B;  3MXW A;  2C0J B;  2OSO A;  2PWN A;  2J3R A; 
#chains in the Genus database with same CATH homology
 4MUT A;  1TZP A;  3K7J B;  1VHH A;  3HO5 H;  4MUQ A;  3K7I B;  1R44 A;  3M1N A;  4MUS A;  4MUR A;  4C4N A;  3N1Q A;  2WFQ A;  3N1O A;  4NT9 A;  4OX5 A;  2WG3 A;  3D1M A;  4F78 A;  3N1R A;  2IBG E;  2VO9 A;  4D0Y A;  3N1F A;  4OAK A;  3K7H B;  4OX3 A;  4MPH A;  1U10 A;  5HNM A;  2WFR A;  4OXD A;  4C4M A;  3K7G B;  4JID A;  1LBU A;  3N1G A;  3N1P B;  3N1M B;  3MXW A;  2WG4 A;  2WFX 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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