3RWR | Genus

Total Genus 23

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	23
sequence length	147
structure length	147
Chain Sequence	MERKISRIHLVSEPSITHFLQVSWEKTLESGFVITLTDGHSAWTGTVSESEISQEADDMAMEKGKYVGELRKALLSGAGPADVYTFNFSKESCYFFFEKNLKDVSFRLGSFNLEKVENPAEVIRELICYCLDTIAENQAKNEHLQKE

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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Time for openFile(/file/5d02bdd12c9f24e361dda9fd/pdb.gz): 1599 ms

reading 147 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

147 atoms created

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

Time for creating model: 20 ms

Adding embedded #jmolscript: select ({0:146});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	Dna binding protein/protein binding
source organism	Homo sapiens
publication title	Structure of human XLF-XRCC4: assembly of a functional DNA repair complex rcsb
molecule keywords	DNA repair protein XRCC4
total genus	23
structure length	147
sequence length	147
chains with identical sequence	B, F, G, J, K, N, P, R, U, V, Y
ec nomenclature
pdb deposition date	2011-05-09

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

cath code	Class	Architecture	Topology	Homology	Domain
2.170.210.10	Mainly Beta	Beta Complex	Dna Repair Protein Xrcc4; Chain: A, domain 1	DNA double-strand break repair and VJ recombination XRCC4, N-terminal	3rwrA00

3RWRA 1IK9A 2QM4A 5CJ0A 3RWRD 5CJ4A 3SR2C 5CHXA 2R9AA 1FU1A 3II6A 3SR2A 3MUDA 4XA4A
chains in the Genus database with same CATH superfamily

3Q0YA 3RWRA 4GFAA 4G79A 2Y3WA 3RWRD 4CKPA 2QM4A 4GEUA 5CJ0A 5CJ4A 3SR2C 2R9AA 1FU1A 3MUDA 3SR2A 4CKMA 5CHXA 3PYIA 3II6A 4CKNA 4GFCA 1IK9A 2Y3VA 3Q0XA 4GEXA 4XA4A
chains in the Genus database with same CATH topology

3RWRA 1IK9A 2QM4A 5CJ0A 3RWRD 5CJ4A 3SR2C 5CHXA 2R9AA 1FU1A 3II6A 3SR2A 3MUDA 4XA4A
chains in the Genus database with same CATH homology

#chains in the Genus database with same CATH superfamily
 3RWR A;  1IK9 A;  2QM4 A;  5CJ0 A;  3RWR D;  5CJ4 A;  3SR2 C;  5CHX A;  2R9A A;  1FU1 A;  3II6 A;  3SR2 A;  3MUD A;  4XA4 A; 
#chains in the Genus database with same CATH topology
 3Q0Y A;  3RWR A;  4GFA A;  4G79 A;  2Y3W A;  3RWR D;  4CKP A;  2QM4 A;  4GEU A;  5CJ0 A;  5CJ4 A;  3SR2 C;  2R9A A;  1FU1 A;  3MUD A;  3SR2 A;  4CKM A;  5CHX A;  3PYI A;  3II6 A;  4CKN A;  4GFC A;  1IK9 A;  2Y3V A;  3Q0X A;  4GEX A;  4XA4 A; 
#chains in the Genus database with same CATH homology
 3RWR A;  1IK9 A;  2QM4 A;  5CJ0 A;  3RWR D;  5CJ4 A;  3SR2 C;  5CHX A;  2R9A A;  1FU1 A;  3II6 A;  3SR2 A;  3MUD A;  4XA4 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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3RWRA

Total Genus

sequence length

structure length

Chain Sequence

Structure visualization

Chord Diagram

connected with : NaN