2L4W | Genus

Total Genus 19

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	19
sequence length	120
structure length	120
Chain Sequence	GSHMTKPAPDFGGRWKHVNHFDEAPTEIPLYTSYTYQATPMDGTLKTMLERWAADSNMQLSYNLPSDYTLIGPVSAISTTSVQQAATELSAVYAAQGVSVSVSANKLLVQPVPVSSGAKL

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

loadScript /static/js/j2s/core/corebio.z.js

Time for openFile(/file/5cfd4eab81a2fe2a04b242cf/pdb.gz): 1055 ms

reading 120 atoms

ModelSet: haveSymmetry:false haveUnitcells:false haveFractionalCoord:false

1 model in this collection. Use getProperty "modelInfo" or getProperty "auxiliaryInfo" to inspect them.

Default Van der Waals type for model set to Jmol

120 atoms created

ModelSet: autobonding; use autobond=false to not generate bonds automatically

Time for creating model: 18 ms

Adding embedded #jmolscript: select ({0:119});backbone only;select *;

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	Protein transport
source organism	Xanthomonas axonopodis pv. citri
publication title	A Component of the Xanthomonadaceae Type IV Secretion System Combines a VirB7 Motif with a N0 Domain Found in Outer Membrane Transport Proteins. pubmed doi rcsb
molecule keywords	Uncharacterized protein
total genus	19
structure length	120
sequence length	120
ec nomenclature
pdb deposition date	2010-10-15

pfam database annotations

chain	Pfam Accession Code	Pfam Family Identifier	Pfam Description
A	PF10671	TcpQ	Toxin co-regulated pilus biosynthesis protein Q

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

cath code	Class	Architecture	Topology	Homology	Domain
3.55.50.70	Alpha Beta	3-Layer(bab) Sandwich	Phage tail protein beta-alpha-beta fold	Phage tail protein beta-alpha-beta fold	2l4wA01

2L4WA 3OV5A
chains in the Genus database with same CATH superfamily

2D1UA 2W6TA 1WTHD 2IAHA 3OV5A 2A02A 4G08A 4M0HA 2Z6BD 2M5JA 2X531 3GR5A 2W6UA 2O5PA 2P5ZX 3GS9A 2WZPR 4JTMA 2W16A 4UHVA 4AR0A 2L4WA 2W76A 3EZJA 2W77A 2W78A 1WRUA 2W75A 1K28D 3CDDA 1ZZVA 4M0NA 3D37A 3ADYA 4MTKA
chains in the Genus database with same CATH topology

2D1UA 2W6TA 1WTHD 2IAHA 3OV5A 2A02A 4G08A 4M0HA 2Z6BD 2M5JA 2X531 3GR5A 2W6UA 2O5PA 3GS9A 2WZPR 4JTMA 2W16A 4AR0A 2L4WA 2W76A 3EZJA 2W77A 2W78A 2W75A 1K28D 4M0NA 1ZZVA 3ADYA
chains in the Genus database with same CATH homology

#chains in the Genus database with same CATH superfamily
 2L4W A;  3OV5 A; 
#chains in the Genus database with same CATH topology
 2D1U A;  2W6T A;  1WTH D;  2IAH A;  3OV5 A;  2A02 A;  4G08 A;  4M0H A;  2Z6B D;  2M5J A;  2X53 1;  3GR5 A;  2W6U A;  2O5P A;  2P5Z X;  3GS9 A;  2WZP R;  4JTM A;  2W16 A;  4UHV A;  4AR0 A;  2L4W A;  2W76 A;  3EZJ A;  2W77 A;  2W78 A;  1WRU A;  2W75 A;  1K28 D;  3CDD A;  1ZZV A;  4M0N A;  3D37 A;  3ADY A;  4MTK A; 
#chains in the Genus database with same CATH homology
 2D1U A;  2W6T A;  1WTH D;  2IAH A;  3OV5 A;  2A02 A;  4G08 A;  4M0H A;  2Z6B D;  2M5J A;  2X53 1;  3GR5 A;  2W6U A;  2O5P A;  3GS9 A;  2WZP R;  4JTM A;  2W16 A;  4AR0 A;  2L4W A;  2W76 A;  3EZJ A;  2W77 A;  2W78 A;  2W75 A;  1K28 D;  4M0N A;  1ZZV A;  3ADY 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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2L4WA

Total Genus

sequence length

structure length

Chain Sequence

Structure visualization

Chord Diagram

connected with : NaN

pfam database annotations