2G98 | Genus

Total Genus 45

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	45
sequence length	171
structure length	171
Chain Sequence	GKITLYEDRGFQGRHYECSSDHPNLQPYLSRCNSASVDSGCWMLYEQPNYSGLQYFLRRGDYADHQQWMGLSDSVRSCRLIPHSGSHRIRLYEREDYRGQMIEFTEDCSCLQDRFRFNEIHSLNVLEGSWVLYELSNYRGRQYLLMPGDYRRYQDWGATNARVGSLRRVID

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__9574104183749141__ initializing

Jmol getValue debug null

Jmol getValue logLevel null

Jmol getValue allowjavascript null

AppletRegistry.checkIn(jmolApplet0__9574104183749141__)

vwrOptions:

{ "name":"jmolApplet0","applet":true,"documentBase":"https://genus.fuw.edu.pl/view/2G98/A/","platform":"J.awtjs2d.Platform","fullName":"jmolApplet0__9574104183749141__","codePath":"https:/static/js/j2s/","display":"jmolApplet0_canvas2d","signedApplet":"true","appletReadyCallback":"Jmol._readyCallback","statusListener":"[J.appletjs.Jmol object]","syncId":"9574104183749141","bgcolor":"white" }

setting document base to "https://genus.fuw.edu.pl/view/2G98/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__9574104183749141__ ready

script 1 started

platformSpeed = 8

Viewer cachePut cache://localLOAD_/file/5cfd0add798eae897ca8613a/pdb.gz

Viewer cachePut https://genus.fuw.edu.pl/file/5cfd0add798eae897ca8613a/pdb.gz

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	Structural protein
publication title	Link between a novel human gamma-D-crystallin allele and a unique cataract phenotype explained by protein crystallography. pubmed doi rcsb
molecule keywords	Gamma crystallin D
total genus	45
structure length	171
sequence length	171
chains with identical sequence	B
ec nomenclature
pdb deposition date	2006-03-06

pfam database annotations

chain	Pfam Accession Code	Pfam Family Identifier	Pfam Description
A	PF00030	Crystall	Beta/Gamma crystallin

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

cath code	Class	Architecture	Topology	Homology	Domain
2.60.20.10	Mainly Beta	Sandwich	Gamma-B Crystallin; domain 1	Crystallins	2g98A02
2.60.20.10	Mainly Beta	Sandwich	Gamma-B Crystallin; domain 1	Crystallins	2g98A01

3I9HA 3LWKA 1ZIQA 3IAJA 4AKAA 2KP5A 1A7HA 1AMMA 2BV2A 3SO1A 1DSLA 1ZWMA 2V2UA 3HZBA 3HZ2A 1HK0X 4JGFA 1AG4A 1PRRA 4GCRA 1HA4A 1BLBA 2M3CA 3SNYA 2JDFA 4EL6A 1M8UA 4W9BA 3SNZA 2NBRA 4IAUA 2M3TA 1ZIEA 4W9AA 1ZWOA 1ZIRA 1YTQA 5HT8A 4FD9A 5HT9A 1ZGTA 4GR7A 1H4AX 2DADA 3ENUA 3QK3A 4NI3A 1E7NA 1OKIA 2K1XA 2BB2A 3ENTA 1YHPA 1A5DA 1HDFA 2KFBA 2B1OA 1I5IA 2K1WA 3SO0A 1PRSA 2JDGA 2G98A 1ELPA 1BD7A 2M3UA 1A45A 1GAMA 2A5MA 1GCSA 4PSPA 4PSRA 1NPSA 3CW3A
chains in the Genus database with same CATH superfamily

3I9HA 3LWKA 1ZIQA 3IAJA 1A7HA 1AMMA 1BHUA 2V2UA 1HK0X 4JGFA 3SNYA 4EL6A 1M8UA 1ZGTA 1OKIA 2KFBA 1I5IA 2K1WA 1PRSA 2JDGA 3ENTA 2KP5A 1ZWMA 4GCRA 2JDFA 3SNZA 2NBRA 1ZIEA 1WKTA 3ENUA 1E7NA 1A5DA 1HDFA 3SO0A 1ELPA 4PSPA 1GAMA 3CW3A 4AKAA 2BV2A 3SO1A 1DSLA 3HZBA 3HZ2A 4IAUA 1ZIRA 5HT8A 1H4AX 2DADA 3QK3A 2K1XA 2BB2A 2G98A 2M3UA 4PSRA 1GCSA 1AG4A 1PRRA 1C01A 1HA4A 1G6EA 1BLBA 2M3CA 4W9BA 2M3TA 4W9AA 1ZWOA 1YTQA 4FD9A 5HT9A 4GR7A 1F53A 4NI3A 1YHPA 2B1OA 1BD7A 1A45A 2A5MA 1GH5A 1NPSA 3UJZA
chains in the Genus database with same CATH topology

#chains in the Genus database with same CATH superfamily
 3I9H A;  3LWK A;  1ZIQ A;  3IAJ A;  4AKA A;  2KP5 A;  1A7H A;  1AMM A;  2BV2 A;  3SO1 A;  1DSL A;  1ZWM A;  2V2U A;  3HZB A;  3HZ2 A;  1HK0 X;  4JGF A;  1AG4 A;  1PRR A;  4GCR A;  1HA4 A;  1BLB A;  2M3C A;  3SNY A;  2JDF A;  4EL6 A;  1M8U A;  4W9B A;  3SNZ A;  2NBR A;  4IAU A;  2M3T A;  1ZIE A;  4W9A A;  1ZWO A;  1ZIR A;  1YTQ A;  5HT8 A;  4FD9 A;  5HT9 A;  1ZGT A;  4GR7 A;  1H4A X;  2DAD A;  3ENU A;  3QK3 A;  4NI3 A;  1E7N A;  1OKI A;  2K1X A;  2BB2 A;  3ENT A;  1YHP A;  1A5D A;  1HDF A;  2KFB A;  2B1O A;  1I5I A;  2K1W A;  3SO0 A;  1PRS A;  2JDG A;  2G98 A;  1ELP A;  1BD7 A;  2M3U A;  1A45 A;  1GAM A;  2A5M A;  1GCS A;  4PSP A;  4PSR A;  1NPS A;  3CW3 A; 
#chains in the Genus database with same CATH topology
 3I9H A;  3LWK A;  1ZIQ A;  3IAJ A;  1A7H A;  1AMM A;  1BHU A;  2V2U A;  1HK0 X;  4JGF A;  3SNY A;  4EL6 A;  1M8U A;  1ZGT A;  1OKI A;  2KFB A;  1I5I A;  2K1W A;  1PRS A;  2JDG A;  3ENT A;  2KP5 A;  1ZWM A;  4GCR A;  2JDF A;  3SNZ A;  2NBR A;  1ZIE A;  1WKT A;  3ENU A;  1E7N A;  1A5D A;  1HDF A;  3SO0 A;  1ELP A;  4PSP A;  1GAM A;  3CW3 A;  4AKA A;  2BV2 A;  3SO1 A;  1DSL A;  3HZB A;  3HZ2 A;  4IAU A;  1ZIR A;  5HT8 A;  1H4A X;  2DAD A;  3QK3 A;  2K1X A;  2BB2 A;  2G98 A;  2M3U A;  4PSR A;  1GCS A;  1AG4 A;  1PRR A;  1C01 A;  1HA4 A;  1G6E A;  1BLB A;  2M3C A;  4W9B A;  2M3T A;  4W9A A;  1ZWO A;  1YTQ A;  4FD9 A;  5HT9 A;  4GR7 A;  1F53 A;  4NI3 A;  1YHP A;  2B1O A;  1BD7 A;  1A45 A;  2A5M A;  1GH5 A;  1NPS A;  3UJZ A; 
#chains in the Genus database with same CATH homology
 3I9H A;  3LWK A;  1ZIQ A;  3IAJ A;  4AKA A;  2KP5 A;  1A7H A;  1AMM A;  2BV2 A;  3SO1 A;  1DSL A;  1ZWM A;  2V2U A;  3HZB A;  3HZ2 A;  1HK0 X;  4JGF A;  1AG4 A;  1PRR A;  4GCR A;  1HA4 A;  1BLB A;  2M3C A;  3SNY A;  2JDF A;  4EL6 A;  1M8U A;  4W9B A;  3SNZ A;  2NBR A;  4IAU A;  2M3T A;  1ZIE A;  4W9A A;  1ZWO A;  1ZIR A;  1YTQ A;  5HT8 A;  4FD9 A;  5HT9 A;  1ZGT A;  4GR7 A;  1H4A X;  2DAD A;  3ENU A;  3QK3 A;  4NI3 A;  1E7N A;  1OKI A;  2K1X A;  2BB2 A;  3ENT A;  1YHP A;  1A5D A;  1HDF A;  2KFB A;  2B1O A;  1I5I A;  2K1W A;  3SO0 A;  1PRS A;  2JDG A;  2G98 A;  1ELP A;  1BD7 A;  2M3U A;  1A45 A;  1GAM A;  2A5M A;  1GCS A;  4PSP A;  4PSR A;  1NPS A;  3CW3 A;

...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...

2G98A

Total Genus

sequence length

structure length

Chain Sequence

Structure visualization

Chord Diagram

connected with : NaN

pfam database annotations