4MUTA

Crystal structure of vancomycin resistance d,d-dipeptidase/d,d-pentapeptidase vanxyc d59s mutant in complex with d-alanine
Total Genus 58
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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
58
sequence length
187
structure length
187
Chain Sequence
NTLQLINKNHPLKKNQEPPHLVLAPFSDHDVYLQPEVAKQWERLVRATGLEKDIRLVSGYRTEKEQRRLWEYSLKENGLAYTKQFVALPGCSEHQIGLAIDVGLKKQEDDDLICPHFRDSAAADLFMQQMMNYGFILRYPEDKQEITGISYEPWHFRYVGLPHSQVITAQKWTLEEYHDYLAQTVRQ
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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 58
structure length 187
sequence length 187
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 4mutA00
3K7IB 3K7HB 3N1GA 2WG3A 4OAKA 3N1RA 4OX3A 4MUQA 2IBGE 2WFQA 1R44A 3N1PB 3D1MA 4MUTA 4F78A 1LBUA 3MXWA 5HNMA 3N1OA 4OX5A 1U10A 3HO5H 1VHHA 2VO9A 3N1QA 4D0YA 3N1MB 4MUSA 3M1NA 4MPHA 4OXDA 3K7GB 4C4NA 2WFRA 2WFXA 4MURA 3K7JB 4NT9A 4JIDA 4C4MA 1TZPA 3N1FA 2WG4A
chains in the Genus database with same CATH superfamily
3CUED 2J3RA 3K7IB 3K7HB 3N1GA 2WG3A 3CUEB 4OAKA 3N1RA 4OX3A 4MUQA 2IBGE 2WFQA 1R44A 2OSOA 2BJNA 2C0JB 3D1MA 3N1PB 4MUTA 1LBUA 2OSDA 3MXWA 4F78A 5HNMA 1SZ7A 3N1OA 4OX5A 1U10A 3HO5H 2CFHC 2J3TB 2J3WD 3KXCC 1VHHA 2VO9A 3N1QA 2J3WB 4D0YA 3N1MB 2J3RB 4MUSA 3M1NA 4MPHA 4OXDA 3K7GB 4C4NA 2WFRA 2WFXA 2C0JA 4MURA 3NJCA 3K7JB 1WC8A 4NT9A 1WC9A 4JIDA 4C4MA 2PWNA 2CFHA 2J3TA 1TZPA 3N1FA 3KXCA 2WG4A
chains in the Genus database with same CATH topology
3K7IB 3K7HB 3N1GA 2WG3A 4OAKA 3N1RA 4OX3A 4MUQA 2IBGE 2WFQA 1R44A 3N1PB 3D1MA 4MUTA 4F78A 1LBUA 3MXWA 5HNMA 3N1OA 4OX5A 1U10A 3HO5H 1VHHA 2VO9A 3N1QA 4D0YA 3N1MB 4MUSA 3M1NA 4MPHA 4OXDA 3K7GB 4C4NA 2WFRA 2WFXA 4MURA 3K7JB 4NT9A 4JIDA 4C4MA 1TZPA 3N1FA 2WG4A
chains in the Genus database with same CATH homology


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