3ZG4A

Nmr structure of the catalytic domain from e. faecium l,d- transpeptidase
Total Genus 22
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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
22
sequence length
129
structure length
129
Chain Sequence
GHMEDTYIEVDLENQHMWYYKDGKVALETDIVSGKPTTPTPAGVFYVWNKEEDATLKGTNDDGTPYESPVNYWMPIDWTGVGIHDSDWQPEYGGDLWKTRGSHGCINTPPSVMKELFGMVEKGTPVLVF
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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 The Structure of Enterococcus Faecium L,D---Transpeptidase Acylated by Ertapenem Provides Insight Into the Inactivation Mechanism.
pubmed doi rcsb
molecule tags Transferase
source organism Enterococcus faecium
molecule keywords ERFK/YBIS/YCFS/YNHG
total genus 22
structure length 129
sequence length 129
ec nomenclature ec 2.3.2.12: Peptidyltransferase.
pdb deposition date 2012-12-14

pfam database annotations

chain Pfam Accession Code Pfam Family Identifier Pfam Description
A PF03734 YkuD L,D-transpeptidase catalytic domain
Image from the rcsb pdb (www.rcsb.org)
cath code
ClassArchitectureTopologyHomologyDomain
2.40.440.10 Mainly Beta Beta Barrel L,D-transpeptidase catalytic domain-like L,D-transpeptidase catalytic domain-like 3zg4A00
5DCCA 4GSRA 2MTZA 4ZFQA 5DC2A 4JMXA 3VYPA 5LB1A 3ZG4A 3ZGPA 4GSUA 4HUCA 3U1QA 5DUJA 4QRAA 5LBGA 1ZATA 4GSQA 3TX4A 5E51A 1Y7MA 5D7HA 4A52A 3VAEA 4A1KA 5K69A 4XVOA 4A1IA 2HKLA 3TURA 4QR7A 5E1IA 4K73A 4JMNA 4LPQA 4QTFA 5DU7A 4QRBA 5DZJA 4LZHA 4Z7AA 5DVPA 3ZQDA 3VYOA 3U1PA 5E1GA 5DZPA 3VYNA 4A1JA 5E5LA
chains in the Genus database with same CATH superfamily
5DCCA 4GSRA 2MTZA 4ZFQA 5DC2A 4JMXA 3VYPA 5LB1A 3ZG4A 3ZGPA 4GSUA 4HUCA 3U1QA 5DUJA 4QRAA 5LBGA 1ZATA 4GSQA 3TX4A 5E51A 1Y7MA 5D7HA 4A52A 3VAEA 4A1KA 5K69A 4XVOA 4A1IA 2HKLA 3TURA 4QR7A 5E1IA 4K73A 4JMNA 4LPQA 4QTFA 5DU7A 4QRBA 5DZJA 4LZHA 4Z7AA 5DVPA 3ZQDA 3VYOA 3U1PA 5E1GA 5DZPA 3VYNA 4A1JA 5E5LA
chains in the Genus database with same CATH topology
5DCCA 4GSRA 2MTZA 4ZFQA 5DC2A 4JMXA 3VYPA 5LB1A 3ZG4A 3ZGPA 4GSUA 4HUCA 3U1QA 5DUJA 4QRAA 5LBGA 1ZATA 4GSQA 3TX4A 5E51A 1Y7MA 5D7HA 4A52A 3VAEA 4A1KA 5K69A 4XVOA 4A1IA 2HKLA 3TURA 4QR7A 5E1IA 4K73A 4JMNA 4LPQA 4QTFA 5DU7A 4QRBA 5DZJA 4LZHA 4Z7AA 5DVPA 3ZQDA 3VYOA 3U1PA 5E1GA 5DZPA 3VYNA 4A1JA 5E5LA
chains in the Genus database with same CATH homology


 
#chains in the Genus database with same CATH superfamily
 5DCC A;  4GSR A;  2MTZ A;  4ZFQ A;  5DC2 A;  4JMX A;  3VYP A;  5LB1 A;  3ZG4 A;  3ZGP A;  4GSU A;  4HUC A;  3U1Q A;  5DUJ A;  4QRA A;  5LBG A;  1ZAT A;  4GSQ A;  3TX4 A;  5E51 A;  1Y7M A;  5D7H A;  4A52 A;  3VAE A;  4A1K A;  5K69 A;  4XVO A;  4A1I A;  2HKL A;  3TUR A;  4QR7 A;  5E1I A;  4K73 A;  4JMN A;  4LPQ A;  4QTF A;  5DU7 A;  4QRB A;  5DZJ A;  4LZH A;  4Z7A A;  5DVP A;  3ZQD A;  3VYO A;  3U1P A;  5E1G A;  5DZP A;  3VYN A;  4A1J A;  5E5L A; 
#chains in the Genus database with same CATH topology
 5DCC A;  4GSR A;  2MTZ A;  4ZFQ A;  5DC2 A;  4JMX A;  3VYP A;  5LB1 A;  3ZG4 A;  3ZGP A;  4GSU A;  4HUC A;  3U1Q A;  5DUJ A;  4QRA A;  5LBG A;  1ZAT A;  4GSQ A;  3TX4 A;  5E51 A;  1Y7M A;  5D7H A;  4A52 A;  3VAE A;  4A1K A;  5K69 A;  4XVO A;  4A1I A;  2HKL A;  3TUR A;  4QR7 A;  5E1I A;  4K73 A;  4JMN A;  4LPQ A;  4QTF A;  5DU7 A;  4QRB A;  5DZJ A;  4LZH A;  4Z7A A;  5DVP A;  3ZQD A;  3VYO A;  3U1P A;  5E1G A;  5DZP A;  3VYN A;  4A1J A;  5E5L A; 
#chains in the Genus database with same CATH homology
 5DCC A;  4GSR A;  2MTZ A;  4ZFQ A;  5DC2 A;  4JMX A;  3VYP A;  5LB1 A;  3ZG4 A;  3ZGP A;  4GSU A;  4HUC A;  3U1Q A;  5DUJ A;  4QRA A;  5LBG A;  1ZAT A;  4GSQ A;  3TX4 A;  5E51 A;  1Y7M A;  5D7H A;  4A52 A;  3VAE A;  4A1K A;  5K69 A;  4XVO A;  4A1I A;  2HKL A;  3TUR A;  4QR7 A;  5E1I A;  4K73 A;  4JMN A;  4LPQ A;  4QTF A;  5DU7 A;  4QRB A;  5DZJ A;  4LZH A;  4Z7A A;  5DVP A;  3ZQD A;  3VYO A;  3U1P A;  5E1G A;  5DZP A;  3VYN A;  4A1J A;  5E5L 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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