3A1J | Genus

Total Genus 59

Loading diagram...

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	59
sequence length	266
structure length	265
Chain Sequence	MKCLVTGGNVKVLGKAVHSLSRIGDELYLEPLEDGLSLRTVNSSRSAYACFLFAPLFFQQYQAATPGQDLLRCKILMKSFLSVFRSLAMLEKTVEKCCISLNGRSSRLVVQLHCKFGVRKTHNLSFQDCESLQAVFDPASCPHMLRAPARVLGEAVLPFSPALAEVTLGIGRGRRVILRSYHEEADSTAKAMVTEMCLGEEDFQQLQAQEGVAITFCLKEFRGLLSFAESANLNLSIHFDAPGRPAIFTIKDSLLDGHFVLATLS

Loading diagram...

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__603462654003267__ initializing

Jmol getValue debug null

Jmol getValue logLevel null

Jmol getValue allowjavascript null

AppletRegistry.checkIn(jmolApplet0__603462654003267__)

vwrOptions:

{ "name":"jmolApplet0","applet":true,"documentBase":"https://genus.fuw.edu.pl/view/3A1J/A/","platform":"J.awtjs2d.Platform","fullName":"jmolApplet0__603462654003267__","codePath":"https:/static/js/j2s/","display":"jmolApplet0_canvas2d","signedApplet":"true","appletReadyCallback":"Jmol._readyCallback","statusListener":"[J.appletjs.Jmol object]","syncId":"603462654003267","bgcolor":"white" }

setting document base to "https://genus.fuw.edu.pl/view/3A1J/A/"

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__603462654003267__ ready

script 1 started

platformSpeed = 8

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/cell cycle
source organism	Homo sapiens
publication title	Crystal Structure of the Human Rad9-Hus1-Rad1 Clamp pubmed doi rcsb
molecule keywords	Cell cycle checkpoint control protein RAD9A
total genus	59
structure length	265
sequence length	266
ec nomenclature	ec 3.1.11.2: Exodeoxyribonuclease III.
pdb deposition date	2009-04-08

pfam database annotations

chain	Pfam Accession Code	Pfam Family Identifier	Pfam Description
A	PF04139	Rad9	Rad9

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

cath code	Class	Architecture	Topology	Homology	Domain
3.70.10.10	Alpha Beta	Box	Proliferating Cell Nuclear Antigen	Proliferating Cell Nuclear Antigen	3a1jA00

1W60A 3AIXA 5AUJA 3AIXB 4RJFA 3HSLX 1UL1A 3LX1A 3FDSD 3V62B 3GPMA 3V60B 1YYPA 5HACA 2ZVKA 3GPNA 2NTIA 3P83A 3HI8A 3U60F 1VYMA 2NTIB 5E0UA 1RXZA 1ISQA 1B77A 3AIZA 4L6PA 2ZVMA 1CZDA 5E0VA 5H0TA 2HIKA 3AIZC 2HIKB 3K4XA 1RXMA 3LX2A 1RWZA 1UD9A 1IZ5A 3GGRA 5DA7A 4TR6A 2AVTA 3GGRB 3IFVA 2ZVLA 5IXAA 1PLRA 3GGRC 4HK1A 1T6LA 3P91A 2OD8A 3A2FB 4L60A 1IZ4A 3WGWA 3F1WA 3U5ZF 2NTIC 5B7OA 2AWAA 4YHRA 3TBLA 2IZOB 4D2GA 5DAIA 1U76A 3U61F 1U7BA 3A1JA 5JNED 2HIKC 3A1JB 2IJXA 1DMLA 3VKXA 2HIIA 4CS5A 5CFKA 5IY4A 1VYJA 2HIIB 2Z0LA 1GE8A 2ZVVA 2HIIC 2IX2A 3V61B 2IX2B 2IX2C 1B8HA 1AXCA 2IO4A 5IWDA 3G65A 2IZOC 2IO4B 3G65B 1SXJF 2ZVWA 4ZTDA 3G65C 3A1JC 3P87A 1PLQA 3I2MX 5A6DA 5E0TA 3FDSC
chains in the Genus database with same CATH superfamily

#chains in the Genus database with same CATH superfamily
 1W60 A;  3AIX A;  5AUJ A;  3AIX B;  4RJF A;  3HSL X;  1UL1 A;  3LX1 A;  3FDS D;  3V62 B;  3GPM A;  3V60 B;  1YYP A;  5HAC A;  2ZVK A;  3GPN A;  2NTI A;  3P83 A;  3HI8 A;  3U60 F;  1VYM A;  2NTI B;  5E0U A;  1RXZ A;  1ISQ A;  1B77 A;  3AIZ A;  4L6P A;  2ZVM A;  1CZD A;  5E0V A;  5H0T A;  2HIK A;  3AIZ C;  2HIK B;  3K4X A;  1RXM A;  3LX2 A;  1RWZ A;  1UD9 A;  1IZ5 A;  3GGR A;  5DA7 A;  4TR6 A;  2AVT A;  3GGR B;  3IFV A;  2ZVL A;  5IXA A;  1PLR A;  3GGR C;  4HK1 A;  1T6L A;  3P91 A;  2OD8 A;  3A2F B;  4L60 A;  1IZ4 A;  3WGW A;  3F1W A;  3U5Z F;  2NTI C;  5B7O A;  2AWA A;  4YHR A;  3TBL A;  2IZO B;  4D2G A;  5DAI A;  1U76 A;  3U61 F;  1U7B A;  3A1J A;  5JNE D;  2HIK C;  3A1J B;  2IJX A;  1DML A;  3VKX A;  2HII A;  4CS5 A;  5CFK A;  5IY4 A;  1VYJ A;  2HII B;  2Z0L A;  1GE8 A;  2ZVV A;  2HII C;  2IX2 A;  3V61 B;  2IX2 B;  2IX2 C;  1B8H A;  1AXC A;  2IO4 A;  5IWD A;  3G65 A;  2IZO C;  2IO4 B;  3G65 B;  1SXJ F;  2ZVW A;  4ZTD A;  3G65 C;  3A1J C;  3P87 A;  1PLQ A;  3I2M X;  5A6D A;  5E0T A;  3FDS C; 
#chains in the Genus database with same CATH topology
 1W60 A;  3AIX A;  5AUJ A;  3AIX B;  4RJF A;  3HSL X;  1UL1 A;  3LX1 A;  3FDS D;  3V62 B;  3GPM A;  3V60 B;  1YYP A;  5HAC A;  2ZVK A;  3GPN A;  2NTI A;  3P83 A;  3HI8 A;  3U60 F;  1VYM A;  2NTI B;  5E0U A;  1RXZ A;  1ISQ A;  1B77 A;  3AIZ A;  4L6P A;  2ZVM A;  1CZD A;  5E0V A;  5H0T A;  2HIK A;  3AIZ C;  2HIK B;  3K4X A;  1RXM A;  3LX2 A;  1RWZ A;  1UD9 A;  1IZ5 A;  3GGR A;  5DA7 A;  4TR6 A;  2AVT A;  3GGR B;  3IFV A;  2ZVL A;  5IXA A;  1PLR A;  3GGR C;  4HK1 A;  1T6L A;  3P91 A;  2OD8 A;  3A2F B;  4L60 A;  1IZ4 A;  3WGW A;  3F1W A;  3U5Z F;  2NTI C;  5B7O A;  2AWA A;  4YHR A;  3TBL A;  2IZO B;  4D2G A;  5DAI A;  1U76 A;  3U61 F;  1U7B A;  3A1J A;  5JNE D;  2HIK C;  3A1J B;  2IJX A;  1DML A;  3VKX A;  2HII A;  4CS5 A;  5CFK A;  5IY4 A;  1VYJ A;  2HII B;  2Z0L A;  1GE8 A;  2ZVV A;  2HII C;  2IX2 A;  3V61 B;  2IX2 B;  2IX2 C;  1B8H A;  1AXC A;  2IO4 A;  5IWD A;  3G65 A;  2IZO C;  2IO4 B;  3G65 B;  1SXJ F;  2ZVW A;  4ZTD A;  3G65 C;  3A1J C;  3P87 A;  1PLQ A;  3I2M X;  5A6D A;  5E0T A;  3FDS C; 
#chains in the Genus database with same CATH homology
 1W60 A;  3AIX A;  5AUJ A;  3AIX B;  4RJF A;  3HSL X;  1UL1 A;  3LX1 A;  3FDS D;  3V62 B;  3GPM A;  3V60 B;  1YYP A;  5HAC A;  2ZVK A;  3GPN A;  2NTI A;  3P83 A;  3HI8 A;  3U60 F;  1VYM A;  2NTI B;  5E0U A;  1RXZ A;  1ISQ A;  1B77 A;  3AIZ A;  4L6P A;  2ZVM A;  1CZD A;  5E0V A;  5H0T A;  2HIK A;  3AIZ C;  2HIK B;  3K4X A;  1RXM A;  3LX2 A;  1RWZ A;  1UD9 A;  1IZ5 A;  3GGR A;  5DA7 A;  4TR6 A;  2AVT A;  3GGR B;  3IFV A;  2ZVL A;  5IXA A;  1PLR A;  3GGR C;  4HK1 A;  1T6L A;  3P91 A;  2OD8 A;  3A2F B;  4L60 A;  1IZ4 A;  3WGW A;  3F1W A;  3U5Z F;  2NTI C;  5B7O A;  2AWA A;  4YHR A;  3TBL A;  2IZO B;  4D2G A;  5DAI A;  1U76 A;  3U61 F;  1U7B A;  3A1J A;  5JNE D;  2HIK C;  3A1J B;  2IJX A;  1DML A;  3VKX A;  2HII A;  4CS5 A;  5CFK A;  5IY4 A;  1VYJ A;  2HII B;  2Z0L A;  1GE8 A;  2ZVV A;  2HII C;  2IX2 A;  3V61 B;  2IX2 B;  2IX2 C;  1B8H A;  1AXC A;  2IO4 A;  5IWD A;  3G65 A;  2IZO C;  2IO4 B;  3G65 B;  1SXJ F;  2ZVW A;  4ZTD A;  3G65 C;  3A1J C;  3P87 A;  1PLQ A;  3I2M X;  5A6D A;  5E0T A;  3FDS C;

...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...

3A1JA

Total Genus

sequence length

structure length

Chain Sequence

Structure visualization

Chord Diagram

connected with : NaN

pfam database annotations