3NYY | Genus

Total Genus 69

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	69
sequence length	251
structure length	251
Chain Sequence	GVSGFQRLQKPVVSQPDFRRQPVSETMQVYLKQAADPGRDVGLYWMATDFENRRFPGKVSPSGFQKLYRQWRNQTGWDAYVQSCRAIWNDVKYFPIPQSLDDTEDKISYVDSWMFERNYGGKRGHEGTDIMAEKNTPGYYPVVSMTDGVVTEKGWLEKGGWRIGITAPTGAYFYYAHLDSYAELEKGDPVKAGDLLGYMGDSGYGEEGTTGEFPVHLHLGIYLKEGTEEISVNPYPVLRYAENARIKCVYS

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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reading 251 atoms

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251 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	Hydrolase
source organism	Ruminococcus gnavus
publication title	Crystal structure of a putative glycyl-glycine endopeptidase lytM (RUMGNA_02482) from Ruminococcus gnavus ATCC 29149 at 1.60 A resolution rcsb
molecule keywords	Putative glycyl-glycine endopeptidase lytM
total genus	69
structure length	251
sequence length	251
ec nomenclature
pdb deposition date	2010-07-15

pfam database annotations

chain	Pfam Accession Code	Pfam Family Identifier	Pfam Description
A	PF01551	Peptidase_M23	Peptidase family M23

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

cath code	Class	Architecture	Topology	Homology	Domain
2.70.70.10	Mainly Beta	Distorted Sandwich	Glucose Permease (Domain IIA)	Glucose Permease (Domain IIA)	3nyyA00

2F3GA 2GU1A 2GPRA 3TUFB 2HSIA 4BH5A 1GLAF 1AX3A 4JBWM 1GLDF 1O2FA 3IT5A 3SLUA 3UZ0B 4RNYA 4ZYBA 1F3ZA 2B13A 1QWYA 2MP0B 3OURB 4LXCA 4RNZA 3IT7A 1F3GA 2B0PA 5B0HA 3CSQA 1GPRA 2B44A 4QPBA 1GLCF 4QP5A 3NYYA 5KVPA 1GLBF 1GLEF 1GGRA
chains in the Genus database with same CATH superfamily

#chains in the Genus database with same CATH superfamily
 2F3G A;  2GU1 A;  2GPR A;  3TUF B;  2HSI A;  4BH5 A;  1GLA F;  1AX3 A;  4JBW M;  1GLD F;  1O2F A;  3IT5 A;  3SLU A;  3UZ0 B;  4RNY A;  4ZYB A;  1F3Z A;  2B13 A;  1QWY A;  2MP0 B;  3OUR B;  4LXC A;  4RNZ A;  3IT7 A;  1F3G A;  2B0P A;  5B0H A;  3CSQ A;  1GPR A;  2B44 A;  4QPB A;  1GLC F;  4QP5 A;  3NYY A;  5KVP A;  1GLB F;  1GLE F;  1GGR A; 
#chains in the Genus database with same CATH topology
 2F3G A;  2GU1 A;  2GPR A;  3TUF B;  2HSI A;  4BH5 A;  1GLA F;  1AX3 A;  4JBW M;  1GLD F;  1O2F A;  3IT5 A;  3SLU A;  3UZ0 B;  4RNY A;  4ZYB A;  1F3Z A;  2B13 A;  1QWY A;  2MP0 B;  3OUR B;  4LXC A;  4RNZ A;  3IT7 A;  1F3G A;  2B0P A;  5B0H A;  3CSQ A;  1GPR A;  2B44 A;  4QPB A;  1GLC F;  4QP5 A;  3NYY A;  5KVP A;  1GLB F;  1GLE F;  1GGR A; 
#chains in the Genus database with same CATH homology
 2F3G A;  2GU1 A;  2GPR A;  3TUF B;  2HSI A;  4BH5 A;  1GLA F;  1AX3 A;  4JBW M;  1GLD F;  1O2F A;  3IT5 A;  3SLU A;  3UZ0 B;  4RNY A;  4ZYB A;  1F3Z A;  2B13 A;  1QWY A;  2MP0 B;  3OUR B;  4LXC A;  4RNZ A;  3IT7 A;  1F3G A;  2B0P A;  5B0H A;  3CSQ A;  1GPR A;  2B44 A;  4QPB A;  1GLC F;  4QP5 A;  3NYY A;  5KVP A;  1GLB F;  1GLE F;  1GGR 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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3NYYA

Total Genus

sequence length

structure length

Chain Sequence

Structure visualization

Chord Diagram

connected with : NaN

pfam database annotations