4LZH | Genus

Total Genus 68

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	68
sequence length	284
structure length	278
Chain Sequence	NAVTYPLPTDGSRLVGQNQVITIPDDNKQPLEYFAAKYQMGLSNMLEANPGVDTYLPKGGSVLNIPQQLILPDTVHEGIIINSAEMRLYYYPKGTNTVIVLPIGIGPINWTTKVERKKAGPTWTPTAKMHAEYAAAGNPLPAVVPAGPDNPMGLYALYIGRLYAIHGTNANFGIGLRVSHGCVRLRNDDIKFLFENVPVGTRVQFIDEPVKATTEPDGSRYIEVHNPLSTTEAQFQGGEIVPITLTQPVQAVTSQSDVDQNVVEQAIQNRSGMPVRLN

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

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The Resolver thinks Pdb

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reading 278 atoms

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278 atoms created

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After clicking on a point (x,y) in the genus matrix above, a subchain from x to y is shown in color.

Genus data interpretation

Chord Diagram

molecule tags	Transferase
source organism	Klebsiella pneumoniae subsp. pneumoniae
publication title	L,D-transpeptidase from Klebsiella pneumoniae. rcsb
molecule keywords	L,D-transpeptidase
total genus	68
structure length	278
sequence length	284
ec nomenclature
pdb deposition date	2013-07-31

pfam database annotations

chain	Pfam Accession Code	Pfam Family Identifier	Pfam Description
A	PF03734	YkuD	L,D-transpeptidase catalytic domain
A	PF17969	Ldt_C	L,D-transpeptidase C-terminal domain

Image from the rcsb pdb (www.rcsb.org)

cath code	Class	Architecture	Topology	Homology	Domain
2.40.440.10	Mainly Beta	Beta Barrel	L,D-transpeptidase catalytic domain-like	L,D-transpeptidase catalytic domain-like	4lzhA00

5E1IA 4JMXA 5DZPA 4XVOA 3TURA 4GSRA 2HKLA 3VYNA 4A1KA 1Y7MA 4QRAA 4GSQA 3U1PA 4QR7A 3VYPA 4Z7AA 3ZGPA 5DVPA 1ZATA 4A1JA 5K69A 4LPQA 4JMNA 5DZJA 5DC2A 4A1IA 5DUJA 4GSUA 4QTFA 5LBGA 5E1GA 4K73A 5LB1A 5D7HA 4A52A 3U1QA 4HUCA 4ZFQA 3ZQDA 5DU7A 4LZHA 2MTZA 5E5LA 4QRBA 3VAEA 3ZG4A 5E51A 5DCCA 3TX4A 3VYOA
chains in the Genus database with same CATH superfamily

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

Total Genus

sequence length

structure length

Chain Sequence

Structure visualization

Chord Diagram

connected with : NaN

pfam database annotations