2MTZ | Genus

Total Genus 41

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	41
sequence length	169
structure length	169
Chain Sequence	GRKLLTYQVKQGDTLNSIAADFRISTAALLQANPSLQAGLTAGQSIVIPGLPDPYTIPYHIAVSIGAKTLTLSLNNRVMKTYPIAVGKILTQTPTGEFYIINRQRNPGGPFGAYWLSLSKQHYGIHGTNNPASIGKAVSKGCIRMHNKDVIELASIVPNGTRVTINRGS

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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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/structural protein
source organism	Bacillus subtilis
publication title	Atomic model of a cell-wall cross-linking enzyme in complex with an intact bacterial peptidoglycan. pubmed doi rcsb
molecule keywords	Putative L,D-transpeptidase YkuD
total genus	41
structure length	169
sequence length	169
ec nomenclature	ec 2.-.-.-:
pdb deposition date	2014-09-02

pfam database annotations

chain	Pfam Accession Code	Pfam Family Identifier	Pfam Description
A	PF01476	LysM	LysM domain
A	PF03734	YkuD	L,D-transpeptidase catalytic 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	2mtzA02
3.10.350.10	Alpha Beta	Roll	Membrane-bound Lytic Murein Transglycosylase D; Chain A	LysM domain	2mtzA01

4A1IA 2MKXA 5DVPA 3VYNA 4LPQA 5D7HA 3ZGPA 1E0GA 4K73A 5DU7A 1ZATA 5DZJA 2LTFA 2DJPA 4A52A 5K69A 5K2LA 3U1PA 4QRAA 2MTZA 4QRBA 5E1IA 4GSQA 5C8QB 4QR7A 3TURA 3VYPA 5LB1A 2L9YA 4A1JA 5DC2A 5C8PA 4QTFA 2HKLA 1Y7MA 4XVOA 5E51A 4GSUA 5E5LA 3U1QA 3VAEA 5BUMA 5DZPA 4ZFQA 4B9HA 4JMXA 4GSRA 3VYOA 3TX4A 4JMNA 4A1KA 5DUJA 3ZG4A 5LBGA 4LZHA 5E1GA 4HUCA 4B8VA 3ZQDA 4Z7AA 4PXVA 5DCCA 5C8OA
chains in the Genus database with same CATH superfamily

#chains in the Genus database with same CATH superfamily
 4A1I A;  2MKX A;  5DVP A;  3VYN A;  4LPQ A;  5D7H A;  3ZGP A;  1E0G A;  4K73 A;  5DU7 A;  1ZAT A;  5DZJ A;  2LTF A;  2DJP A;  4A52 A;  5K69 A;  5K2L A;  3U1P A;  4QRA A;  2MTZ A;  4QRB A;  5E1I A;  4GSQ A;  5C8Q B;  4QR7 A;  3TUR A;  3VYP A;  5LB1 A;  2L9Y A;  4A1J A;  5DC2 A;  5C8P A;  4QTF A;  2HKL A;  1Y7M A;  4XVO A;  5E51 A;  4GSU A;  5E5L A;  3U1Q A;  3VAE A;  5BUM A;  5DZP A;  4ZFQ A;  4B9H A;  4JMX A;  4GSR A;  3VYO A;  3TX4 A;  4JMN A;  4A1K A;  5DUJ A;  3ZG4 A;  5LBG A;  4LZH A;  5E1G A;  4HUC A;  4B8V A;  3ZQD A;  4Z7A A;  4PXV A;  5DCC A;  5C8O A; 
#chains in the Genus database with same CATH topology
 4A1I A;  2MKX A;  5DVP A;  3VYN A;  4LPQ A;  5D7H A;  3ZGP A;  1E0G A;  4K73 A;  5DU7 A;  1ZAT A;  5DZJ A;  2LTF A;  2DJP A;  4A52 A;  5K69 A;  5K2L A;  3U1P A;  4QRA A;  2MTZ A;  4QRB A;  5E1I A;  4GSQ A;  5C8Q B;  4QR7 A;  3TUR A;  3VYP A;  5LB1 A;  2L9Y A;  4A1J A;  5DC2 A;  5C8P A;  4QTF A;  2HKL A;  1Y7M A;  4XVO A;  5E51 A;  4GSU A;  5E5L A;  3U1Q A;  3VAE A;  5BUM A;  5DZP A;  4ZFQ A;  4B9H A;  4JMX A;  4GSR A;  3VYO A;  3TX4 A;  4JMN A;  4A1K A;  5DUJ A;  3ZG4 A;  5LBG A;  4LZH A;  5E1G A;  4HUC A;  4B8V A;  3ZQD A;  4Z7A A;  4PXV A;  5DCC A;  5C8O A; 
#chains in the Genus database with same CATH homology
 4A1I A;  2MKX A;  5DVP A;  3VYN A;  4LPQ A;  5D7H A;  3ZGP A;  1E0G A;  4K73 A;  5DU7 A;  1ZAT A;  5DZJ A;  2LTF A;  2DJP A;  4A52 A;  5K69 A;  5K2L A;  3U1P A;  4QRA A;  2MTZ A;  4QRB A;  5E1I A;  4GSQ A;  5C8Q B;  4QR7 A;  3TUR A;  3VYP A;  5LB1 A;  2L9Y A;  4A1J A;  5DC2 A;  5C8P A;  4QTF A;  2HKL A;  1Y7M A;  4XVO A;  5E51 A;  4GSU A;  5E5L A;  3U1Q A;  3VAE A;  5BUM A;  5DZP A;  4ZFQ A;  4B9H A;  4JMX A;  4GSR A;  3VYO A;  3TX4 A;  4JMN A;  4A1K A;  5DUJ A;  3ZG4 A;  5LBG A;  4LZH A;  5E1G A;  4HUC A;  4B8V A;  3ZQD A;  4Z7A A;  4PXV A;  5DCC A;  5C8O 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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2MTZA

Total Genus

sequence length

structure length

Chain Sequence

Structure visualization

Chord Diagram

connected with : NaN

pfam database annotations