2WQY | Genus

Total Genus 42

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	42
sequence length	101
structure length	101
Chain Sequence	SKAASLHWTSERAVSALLLGLLPAAYLYPGPAVDYSLAAALTLHGHWGLGQVITDYVHGDTPIKVANTGLYVLSAITFTGLCYFNYYDVGICKAVAMLWSI

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

loadScript /static/js/j2s/core/package.js

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

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

JSmol exec jmolApplet0 start applet null

Jmol JavaScript applet jmolApplet0__655846059055411__ initializing

Jmol getValue debug null

Jmol getValue logLevel null

Jmol getValue allowjavascript null

AppletRegistry.checkIn(jmolApplet0__655846059055411__)

vwrOptions:

{ "name":"jmolApplet0","applet":true,"documentBase":"https://genus.fuw.edu.pl/view/2WQY/D/","platform":"J.awtjs2d.Platform","fullName":"jmolApplet0__655846059055411__","codePath":"https:/static/js/j2s/","display":"jmolApplet0_canvas2d","signedApplet":"true","appletReadyCallback":"Jmol._readyCallback","statusListener":"[J.appletjs.Jmol object]","syncId":"655846059055411","bgcolor":"white" }

setting document base to "https://genus.fuw.edu.pl/view/2WQY/D/"

Jmol Version: 14.29.13 2018-04-17 17:17

java.vendor: Java2Script (HTML5)

java.version: 2018-01-28 23:38:52 (JSmol/j2s)

os.name: Mozilla/5.0 AppleWebKit/537.36 (KHTML, like Gecko; compatible; ClaudeBot/1.0; +claudebot@anthropic.com)

Access: ALL

memory: 0.0/0.0

processors available: 1

useCommandThread: false

appletId:jmolApplet0 (signed)

Jmol getValue emulate null

defaults = "Jmol"

Jmol getValue boxbgcolor null

Jmol getValue bgcolor white

backgroundColor = "white"

Jmol getValue ANIMFRAMECallback null

Jmol getValue APPLETREADYCallback Jmol._readyCallback

APPLETREADYCallback = "Jmol._readyCallback"

callback set for APPLETREADYCallback Jmol._readyCallback APPLETREADY

Jmol getValue ATOMMOVEDCallback null

Jmol getValue AUDIOCallback null

Jmol getValue CLICKCallback null

Jmol getValue DRAGDROPCallback null

Jmol getValue ECHOCallback null

Jmol getValue ERRORCallback null

Jmol getValue EVALCallback null

Jmol getValue HOVERCallback null

Jmol getValue IMAGECallback null

Jmol getValue LOADSTRUCTCallback null

Jmol getValue MEASURECallback null

Jmol getValue MESSAGECallback null

Jmol getValue MINIMIZATIONCallback null

Jmol getValue SERVICECallback null

Jmol getValue PICKCallback null

Jmol getValue RESIZECallback null

Jmol getValue SCRIPTCallback null

Jmol getValue SYNCCallback null

Jmol getValue STRUCTUREMODIFIEDCallback null

Jmol getValue doTranslate null

language=en_US

Jmol getValue popupMenu null

Jmol getValue script null

Jmol getValue loadInline null

Jmol getValue load null

Jmol applet jmolApplet0__655846059055411__ ready

script 1 started

platformSpeed = 8

Viewer cachePut cache://localLOAD_/file/5cfdd05abbfcffe33e70a5e4/pdb.gz

Viewer cachePut https://genus.fuw.edu.pl/file/5cfdd05abbfcffe33e70a5e4/pdb.gz

FileManager.getAtomSetCollectionFromFile(/file/5cfdd05abbfcffe33e70a5e4/pdb.gz)

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

The Resolver thinks Pdb

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

Time for openFile(/file/5cfdd05abbfcffe33e70a5e4/pdb.gz): 4299 ms

reading 101 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

101 atoms created

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

Time for creating model: 16 ms

Adding embedded #jmolscript: select ({0:100});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	Oxidoreductase
publication title	Remodelling of Carboxin Binding to the Q-Site of Avian Respiratory Complex II rcsb
molecule keywords	SUCCINATE DEHYDROGENASE FLAVOPROTEIN SUBUNIT
total genus	42
structure length	101
sequence length	101
chains with identical sequence	Q
ec nomenclature
pdb deposition date	2009-08-27

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

cath code	Class	Architecture	Topology	Homology	Domain
1.20.1300.10	Mainly Alpha	Up-down Bundle	3 helical TM bundles of succinate and fumarate reductases	Fumarate reductase/succinate dehydrogenase, transmembrane subunit	2wqyD00

5C3JD 1L0VC 1YQ4C 3AE8C 4YSZC 5C2TC 3ABVC 3AE8D 4YSZD 5C2TD 3ABVD 3VRAC 1ZP0C 3P4PC 3VRAD 3SFDC 3VRBC 1ZP0D 3P4PD 1KFYC 3SFDD 3VR9C 3VRBD 2BS4C 1KFYD 3AE1C 3VR9D 1ZOYC 3AE5C 3AE1D 3AEAD 3AE5D 1E7PC 3AE4C 1YQ4D 1L0VD 3AE7C 3AE9C 3AEFC 3AE4D 1QLBC 3AE7D 3AE9D 3AECC 3AEFD 2WDRC 1KF6C 3AECD 2WDRD 1KF6D 3VR8C 3AE2C 4YXDC 3AE2D 1YQ3C 4YXDD 1ZOYD 2WQYC 1YQ3D 3AEDC 3P4QC 2WP9C 3P4QD 1NENC 2H89C 2WP9D 3AEGC 2WS3C 2H89D 4YTPC 2WS3D 1NEKC 4YTMC 4YTPD 1NEKD 4YTMD 3AEEC 2WDQC 2WU2C 2WDVC 2WDQD 3AEED 3AE3C 2FBWC 3VR8D 2WU2D 2WDVD 3AE3D 2FBWD 4YTNC 3AEBC 2B76C 3SFEC 4KX6C 4YTND 2WQYD 3AEBD 3AEDD 2B76D 3SFED 4KX6D 2BS3C 4YSXC 1NEND 2WU5C 3AEGD 2ACZC 2H88C 2WU5D 4YSXD 4YT0C 3P4SC 3AE6C 2ACZD 2H88D 3AEAC 3P4RC 4YT0D 3P4SD 3AE6D 2BS2C 3P4RD 3CIRC 4YSYC 5C3JC 3CIRD 4YSYD
chains in the Genus database with same CATH superfamily

5C3JD 1TFFA 1L0VC 1YQ4C 3AE8C 4YSZC 5C2TC 3ABVC 3AE8D 4YSZD 5C2TD 2ZFYA 3ABVD 3VRAC 1ZP0C 3P4PC 3VRAD 3SFDC 3VRBC 1ZP0D 3P4PD 1KFYC 3SFDD 3VR9C 3VRBD 2BS4C 1KFYD 3AE1C 4FJVA 3VR9D 1ZOYC 3AE5C 3AE1D 3AEAD 3AE5D 1E7PC 3AE4C 1YQ4D 1L0VD 3AE7C 3AE9C 4DHZA 3AEFC 3AE4D 1QLBC 3AE7D 3AE9D 3AECC 3AEFD 2WDRC 1KF6C 3AECD 2WDRD 1KF6D 3VR8C 3AE2C 4YXDC 3AE2D 1YQ3C 4YXDD 4I6LA 1ZOYD 2WQYC 1YQ3D 3AEDC 3P4QC 2WP9C 3P4QD 1NENC 2H89C 2WP9D 3AEGC 2WS3C 4DHJA 2H89D 4YTPC 2WS3D 4DDIA 4DDGA 1NEKC 4YTMC 4YTPD 1NEKD 4YTMD 4LDTA 3AEEC 2WDQC 4DHIB 2WU2C 2WDVC 2WDQD 3AEED 3AE3C 2FBWC 3VR8D 2WU2D 2WDVD 3AE3D 2FBWD 4YTNC 3AEBC 2B76C 3SFEC 4KX6C 4YTND 2WQYD 3AEBD 3AEDD 2B76D 3SFED 4KX6D 2BS3C 4YSXC 1NEND 2WU5C 3AEGD 2ACZC 2H88C 2WU5D 4YSXD 4YT0C 3P4SC 3AE6C 3VONA 2ACZD 2H88D 3AEAC 3P4RC 4YT0D 3P4SD 3AE6D 2BS2C 3P4RD 3CIRC 4YSYC 5C3JC 3CIRD 4YSYD
chains in the Genus database with same CATH topology

#chains in the Genus database with same CATH superfamily
 5C3J D;  1L0V C;  1YQ4 C;  3AE8 C;  4YSZ C;  5C2T C;  3ABV C;  3AE8 D;  4YSZ D;  5C2T D;  3ABV D;  3VRA C;  1ZP0 C;  3P4P C;  3VRA D;  3SFD C;  3VRB C;  1ZP0 D;  3P4P D;  1KFY C;  3SFD D;  3VR9 C;  3VRB D;  2BS4 C;  1KFY D;  3AE1 C;  3VR9 D;  1ZOY C;  3AE5 C;  3AE1 D;  3AEA D;  3AE5 D;  1E7P C;  3AE4 C;  1YQ4 D;  1L0V D;  3AE7 C;  3AE9 C;  3AEF C;  3AE4 D;  1QLB C;  3AE7 D;  3AE9 D;  3AEC C;  3AEF D;  2WDR C;  1KF6 C;  3AEC D;  2WDR D;  1KF6 D;  3VR8 C;  3AE2 C;  4YXD C;  3AE2 D;  1YQ3 C;  4YXD D;  1ZOY D;  2WQY C;  1YQ3 D;  3AED C;  3P4Q C;  2WP9 C;  3P4Q D;  1NEN C;  2H89 C;  2WP9 D;  3AEG C;  2WS3 C;  2H89 D;  4YTP C;  2WS3 D;  1NEK C;  4YTM C;  4YTP D;  1NEK D;  4YTM D;  3AEE C;  2WDQ C;  2WU2 C;  2WDV C;  2WDQ D;  3AEE D;  3AE3 C;  2FBW C;  3VR8 D;  2WU2 D;  2WDV D;  3AE3 D;  2FBW D;  4YTN C;  3AEB C;  2B76 C;  3SFE C;  4KX6 C;  4YTN D;  2WQY D;  3AEB D;  3AED D;  2B76 D;  3SFE D;  4KX6 D;  2BS3 C;  4YSX C;  1NEN D;  2WU5 C;  3AEG D;  2ACZ C;  2H88 C;  2WU5 D;  4YSX D;  4YT0 C;  3P4S C;  3AE6 C;  2ACZ D;  2H88 D;  3AEA C;  3P4R C;  4YT0 D;  3P4S D;  3AE6 D;  2BS2 C;  3P4R D;  3CIR C;  4YSY C;  5C3J C;  3CIR D;  4YSY D; 
#chains in the Genus database with same CATH topology
 5C3J D;  1TFF A;  1L0V C;  1YQ4 C;  3AE8 C;  4YSZ C;  5C2T C;  3ABV C;  3AE8 D;  4YSZ D;  5C2T D;  2ZFY A;  3ABV D;  3VRA C;  1ZP0 C;  3P4P C;  3VRA D;  3SFD C;  3VRB C;  1ZP0 D;  3P4P D;  1KFY C;  3SFD D;  3VR9 C;  3VRB D;  2BS4 C;  1KFY D;  3AE1 C;  4FJV A;  3VR9 D;  1ZOY C;  3AE5 C;  3AE1 D;  3AEA D;  3AE5 D;  1E7P C;  3AE4 C;  1YQ4 D;  1L0V D;  3AE7 C;  3AE9 C;  4DHZ A;  3AEF C;  3AE4 D;  1QLB C;  3AE7 D;  3AE9 D;  3AEC C;  3AEF D;  2WDR C;  1KF6 C;  3AEC D;  2WDR D;  1KF6 D;  3VR8 C;  3AE2 C;  4YXD C;  3AE2 D;  1YQ3 C;  4YXD D;  4I6L A;  1ZOY D;  2WQY C;  1YQ3 D;  3AED C;  3P4Q C;  2WP9 C;  3P4Q D;  1NEN C;  2H89 C;  2WP9 D;  3AEG C;  2WS3 C;  4DHJ A;  2H89 D;  4YTP C;  2WS3 D;  4DDI A;  4DDG A;  1NEK C;  4YTM C;  4YTP D;  1NEK D;  4YTM D;  4LDT A;  3AEE C;  2WDQ C;  4DHI B;  2WU2 C;  2WDV C;  2WDQ D;  3AEE D;  3AE3 C;  2FBW C;  3VR8 D;  2WU2 D;  2WDV D;  3AE3 D;  2FBW D;  4YTN C;  3AEB C;  2B76 C;  3SFE C;  4KX6 C;  4YTN D;  2WQY D;  3AEB D;  3AED D;  2B76 D;  3SFE D;  4KX6 D;  2BS3 C;  4YSX C;  1NEN D;  2WU5 C;  3AEG D;  2ACZ C;  2H88 C;  2WU5 D;  4YSX D;  4YT0 C;  3P4S C;  3AE6 C;  3VON A;  2ACZ D;  2H88 D;  3AEA C;  3P4R C;  4YT0 D;  3P4S D;  3AE6 D;  2BS2 C;  3P4R D;  3CIR C;  4YSY C;  5C3J C;  3CIR D;  4YSY D; 
#chains in the Genus database with same CATH homology
 5C3J D;  1L0V C;  1YQ4 C;  3AE8 C;  4YSZ C;  5C2T C;  3ABV C;  3AE8 D;  4YSZ D;  5C2T D;  3ABV D;  3VRA C;  1ZP0 C;  3P4P C;  3VRA D;  3SFD C;  3VRB C;  1ZP0 D;  3P4P D;  1KFY C;  3SFD D;  3VR9 C;  3VRB D;  2BS4 C;  1KFY D;  3AE1 C;  3VR9 D;  1ZOY C;  3AE5 C;  3AE1 D;  3AEA D;  3AE5 D;  1E7P C;  3AE4 C;  1YQ4 D;  1L0V D;  3AE7 C;  3AE9 C;  3AEF C;  3AE4 D;  1QLB C;  3AE7 D;  3AE9 D;  3AEC C;  3AEF D;  2WDR C;  1KF6 C;  3AEC D;  2WDR D;  1KF6 D;  3VR8 C;  3AE2 C;  4YXD C;  3AE2 D;  1YQ3 C;  4YXD D;  1ZOY D;  2WQY C;  1YQ3 D;  3AED C;  3P4Q C;  2WP9 C;  3P4Q D;  1NEN C;  2H89 C;  2WP9 D;  3AEG C;  2WS3 C;  2H89 D;  4YTP C;  2WS3 D;  1NEK C;  4YTM C;  4YTP D;  1NEK D;  4YTM D;  3AEE C;  2WDQ C;  2WU2 C;  2WDV C;  2WDQ D;  3AEE D;  3AE3 C;  2FBW C;  3VR8 D;  2WU2 D;  2WDV D;  3AE3 D;  2FBW D;  4YTN C;  3AEB C;  2B76 C;  3SFE C;  4KX6 C;  4YTN D;  2WQY D;  3AEB D;  3AED D;  2B76 D;  3SFE D;  4KX6 D;  2BS3 C;  4YSX C;  1NEN D;  2WU5 C;  3AEG D;  2ACZ C;  2H88 C;  2WU5 D;  4YSX D;  4YT0 C;  3P4S C;  3AE6 C;  2ACZ D;  2H88 D;  3AEA C;  3P4R C;  4YT0 D;  3P4S D;  3AE6 D;  2BS2 C;  3P4R D;  3CIR C;  4YSY C;  5C3J C;  3CIR D;  4YSY D;

...loading similar chains, please wait...
similar chains in the Genus database (?% sequence similarity)

...loading similar chains, please wait...
similar chains in the pdb database (?% sequence similarity)

#similar chains in the Genus database (?% sequence similarity)
...loading similar chains, please wait...
#similar chains, but unknotted
...loading similar chains, please wait...
#similar chains in the pdb database (?% sequence similarity)
...loading similar chains, please wait...

2WQYD

Total Genus

sequence length

structure length

Chain Sequence

Structure visualization

Chord Diagram

connected with : NaN