4TW1 | Genus

Total Genus 63

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	63
sequence length	289
structure length	282
Chain Sequence	TAPDDIGKNGKITKRTETVYDEKTNILQNLQFDFIDDPTYDKNVLLVKKQGSIHSNLKFESHKEEKNSNWLKYPSEYHVDFQVKRNRKTEILDQLPKNKISTAKVDSTFSYSSGGKGRTSSNSYSKTISYNQQNYDTIASGKNNNWHVHWSVIANDLKYGGEVKNRNDELLFYRNTRIATVENPELSFASKYRYPALVRSGFNPEFLTYLSNEKSNEKTQFEVTYTRNQDILKNRPGIHYAPPILEKNKDGQRLIVTYEVDWKNKTVKVVDKYSDDNKPYKE

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/5d00af8044c4551e9231a834/pdb.gz): 2121 ms

reading 282 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

282 atoms created

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

Time for creating model: 24 ms

Adding embedded #jmolscript: select ({0:281});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	Toxin
source organism	Staphylococcus aureus
publication title	Structure-Function Analysis of Heterodimer Formation, Oligomerization, and Receptor Binding of the Staphylococcus aureus Bi-component Toxin LukGH. pubmed doi rcsb
molecule keywords	Possible leukocidin subunit
total genus	63
structure length	282
sequence length	289
chains with identical sequence	D, F, H, J, L, N, P
ec nomenclature
pdb deposition date	2014-06-29

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

cath code	Class	Architecture	Topology	Homology	Domain
2.70.240.10	Mainly Beta	Distorted Sandwich	Leukocidin-like	Leukocidin/porin MspA	4tw1B00

3M4EA 4P1XA 4P1XB 4TW1B 4TW1A 4IYTA 3ANZA 4H56A 3M2LA 4IZLA 1PVLA 4Q7GA 1T5RA 4IDJA 7AHLA 3LKFA 4YHDA 4I0NA 1LKFA 3O44A 4P1YA 4P1YB 4J0OA 3ROHA 2QK7B 2QK7A 4P24A 5K59A 2LKFA 5K59C 2YGTA 4U6VA 3M3RA 4IYCA 4IYAA 3B07B 3B07A 3M4DA
chains in the Genus database with same CATH superfamily

3M4EA 4P1XA 4P1XB 4TW1B 4TW1A 4IYTA 3ANZA 4H56A 3M2LA 4IZLA 1PVLA 4Q7GA 1T5RA 4IDJA 7AHLA 3LKFA 4YHDA 4I0NA 1LKFA 3O44A 4P1YA 4P1YB 4J0OA 3ROHA 2QK7B 2QK7A 4P24A 5K59A 2LKFA 5K59C 2YGTA 4U6VA 3M3RA 4IYCA 1XEZA 4IYAA 3B07B 3B07A 3M4DA
chains in the Genus database with same CATH topology

#chains in the Genus database with same CATH superfamily
 3M4E A;  4P1X A;  4P1X B;  4TW1 B;  4TW1 A;  4IYT A;  3ANZ A;  4H56 A;  3M2L A;  4IZL A;  1PVL A;  4Q7G A;  1T5R A;  4IDJ A;  7AHL A;  3LKF A;  4YHD A;  4I0N A;  1LKF A;  3O44 A;  4P1Y A;  4P1Y B;  4J0O A;  3ROH A;  2QK7 B;  2QK7 A;  4P24 A;  5K59 A;  2LKF A;  5K59 C;  2YGT A;  4U6V A;  3M3R A;  4IYC A;  4IYA A;  3B07 B;  3B07 A;  3M4D A; 
#chains in the Genus database with same CATH topology
 3M4E A;  4P1X A;  4P1X B;  4TW1 B;  4TW1 A;  4IYT A;  3ANZ A;  4H56 A;  3M2L A;  4IZL A;  1PVL A;  4Q7G A;  1T5R A;  4IDJ A;  7AHL A;  3LKF A;  4YHD A;  4I0N A;  1LKF A;  3O44 A;  4P1Y A;  4P1Y B;  4J0O A;  3ROH A;  2QK7 B;  2QK7 A;  4P24 A;  5K59 A;  2LKF A;  5K59 C;  2YGT A;  4U6V A;  3M3R A;  4IYC A;  1XEZ A;  4IYA A;  3B07 B;  3B07 A;  3M4D A; 
#chains in the Genus database with same CATH homology
 3M4E A;  4P1X A;  4P1X B;  4TW1 B;  4TW1 A;  4IYT A;  3ANZ A;  4H56 A;  3M2L A;  4IZL A;  1PVL A;  4Q7G A;  1T5R A;  4IDJ A;  7AHL A;  3LKF A;  4YHD A;  4I0N A;  1LKF A;  3O44 A;  4P1Y A;  4P1Y B;  4J0O A;  3ROH A;  2QK7 B;  2QK7 A;  4P24 A;  5K59 A;  2LKF A;  5K59 C;  2YGT A;  4U6V A;  3M3R A;  4IYC A;  4IYA A;  3B07 B;  3B07 A;  3M4D 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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4TW1B

Total Genus

sequence length

structure length

Chain Sequence

Structure visualization

Chord Diagram

connected with : NaN