1FBX | Genus

Total Genus 65

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	65
sequence length	221
structure length	221
Chain Sequence	PSLSKEAALVHEALVARGLETPLRPPVHEMDNETRKSLIAGHMTEIMQLLNLDLADDSLMETPHRIAKMYVDEIFSGLDYANFPKITLIENKMKVDEMVTVRDITLTSTCEHHFVTIDGKATVAYIPKDSVIGLSKINRIVQFFAQRPQVQERLTQQILIALQTLLGTNNVAVSIDAVHYCVKARGIRDATSATTTTSLGGLFKSSQNTRHEFLRAVRHHN

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__933077372408229__ initializing

Jmol getValue debug null

Jmol getValue logLevel null

Jmol getValue allowjavascript null

AppletRegistry.checkIn(jmolApplet0__933077372408229__)

vwrOptions:

{ "name":"jmolApplet0","applet":true,"documentBase":"https://genus.fuw.edu.pl/view/1FBX/A/","platform":"J.awtjs2d.Platform","fullName":"jmolApplet0__933077372408229__","codePath":"https:/static/js/j2s/","display":"jmolApplet0_canvas2d","signedApplet":"true","appletReadyCallback":"Jmol._readyCallback","statusListener":"[J.appletjs.Jmol object]","syncId":"933077372408229","bgcolor":"white" }

setting document base to "https://genus.fuw.edu.pl/view/1FBX/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__933077372408229__ ready

script 1 started

platformSpeed = 8

Viewer cachePut cache://localLOAD_/file/5cfb1cbfeadac7b76fe96390/pdb.gz

Viewer cachePut https://genus.fuw.edu.pl/file/5cfb1cbfeadac7b76fe96390/pdb.gz

FileManager.getAtomSetCollectionFromFile(/file/5cfb1cbfeadac7b76fe96390/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/5cfb1cbfeadac7b76fe96390/pdb.gz): 177 ms

reading 221 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

221 atoms created

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

Time for creating model: 22 ms

Adding embedded #jmolscript: select ({0:220});backbone only;select *;

platformSpeed = 8

cartoonsFancy = true

sheetSmoothing = 1.0

traceAlpha = true

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

specularPower = 9

ambientPercent = 20

antialiasDisplay = true

Script completed

Jmol script terminated

loadScript /static/js/j2s/J/g3d/HermiteRenderer.js

loadScript /static/js/j2s/J/renderbio/BioMeshRenderer.js

loadScript /static/js/j2s/J/render/MeshRenderer.js

loadScript /static/js/j2s/J/shape/Mesh.js

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
source organism	Escherichia coli
publication title	Zinc plays a key role in human and bacterial GTP cyclohydrolase I. pubmed doi rcsb
molecule keywords	GTP CYCLOHYDROLASE I
total genus	65
structure length	221
sequence length	221
chains with identical sequence	B, C, D, E, F, G, H, I, J, K, L, M, N, O
ec nomenclature	ec 3.5.4.16: GTP cyclohydrolase I.
pdb deposition date	2000-07-17

pfam database annotations

chain	Pfam Accession Code	Pfam Family Identifier	Pfam Description
A	PF01227	GTP_cyclohydroI	GTP cyclohydrolase I

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

cath code	Class	Architecture	Topology	Homology	Domain
1.10.286.10	Mainly Alpha	Orthogonal Bundle	GTP Cyclohydrolase I; Chain A, domain 1	GTP Cyclohydrolase I; Chain A, domain 1	1fbxA01
3.30.1130.10	Alpha Beta	2-Layer Sandwich	GTP Cyclohydrolase I, domain 2	GTP Cyclohydrolase I, domain 2	1fbxA02

3RJ4A 1RS2A 1N3RA 3V9OA 1B9LA 1SQLA 1RRWA 1N3TA 1NBUC 1RRIA 2NM2A 1FB1A 1A8RA 1WM9A 5F3MA 2O90A 2NM3A 1NBUB 4UQFA 1Z9WA 3RZPA 1RS4A 3O1KA 1FBXA 1U68A 3BP1A 3UXJA 1RRYA 4DU6A 4AEYA 3S19A 1A9CA 1WURA 3R2EA 1DHNA 1IS7A 1GTPA 1NBUA 1IS8A 4F8BA 4FGCA 1WUQA 3UXVA 1RSDA 1RSIA 5FARA 2DHNA 2CG8A 1N3SA 1WPLA 4GHMA 4IQIA
chains in the Genus database with same CATH superfamily

2P11A 3V9OA 4NE3B 2WSCG 2NM2A 1NBUC 3BMBA 2O90A 2NM3A 1Z9WA 3O1KA 1U68A 2WSFK 3UXJA 1RRYA 3S19A 1A9CA 4NE5B 2WSEG 1DHNA 2KR1A 4Q7JA 2LO0A 4NE6B 2WSCK 1RSIA 2CG8A 1N3SA 1WPLA 4E44B 4IQIA 1EL6A 3RJ4A 1B9LA 1FB1A 3LW5G 4UQFA 2WSEK 4E45B 1RS4A 2PN0A 3BP1A 3R2EA 4DRBJ 3B0BC 2O01G 1RSDA 5FARA 1AIPC 3LW5K 1EFUB 1RS2A 1SQLA 1N3TA 1RRIA 1WM9A 5F3MA 4DRAE 1FBXA 2LNZA 1WURA 1IS7A 1GTPA 1NBUA 2WSFG 4F8BA 1WUQA 3UXVA 5DMZA 1TFEA 4GHMA 1N3RA 1RRWA 4R8QA 1A8RA 1NBUB 4JA3A 4QPMA 3RZPA 3VEJA 4DU6A 4AEYA 1IS8A 4FGCA 2DHNA
chains in the Genus database with same CATH topology

1EL6A 1EFUB 1RS2A 3RJ4A 2P11A 1N3RA 3V9OA 4NE3B 1B9LA 1SQLA 1RRWA 4R8QA 1N3TA 1NBUC 1RRIA 2NM2A 1FB1A 1A8RA 1WM9A 5F3MA 3BMBA 2O90A 2NM3A 1NBUB 4JA3A 4UQFA 4DRAE 4E45B 1Z9WA 4QPMA 3RZPA 1RS4A 3VEJA 3O1KA 1FBXA 2PN0A 1U68A 3BP1A 3UXJA 2LNZA 1RRYA 4DU6A 4AEYA 3S19A 1A9CA 1WURA 4DRBJ 3R2EA 4NE5B 1DHNA 1IS7A 1GTPA 3B0BC 1NBUA 2KR1A 1IS8A 4Q7JA 2LO0A 4F8BA 4FGCA 1WUQA 3UXVA 4NE6B 1RSDA 1RSIA 5FARA 5DMZA 2DHNA 1AIPC 2CG8A 1TFEA 1N3SA 1WPLA 4GHMA 4E44B 4IQIA
chains in the Genus database with same CATH homology

#chains in the Genus database with same CATH superfamily
 3RJ4 A;  1RS2 A;  1N3R A;  3V9O A;  1B9L A;  1SQL A;  1RRW A;  1N3T A;  1NBU C;  1RRI A;  2NM2 A;  1FB1 A;  1A8R A;  1WM9 A;  5F3M A;  2O90 A;  2NM3 A;  1NBU B;  4UQF A;  1Z9W A;  3RZP A;  1RS4 A;  3O1K A;  1FBX A;  1U68 A;  3BP1 A;  3UXJ A;  1RRY A;  4DU6 A;  4AEY A;  3S19 A;  1A9C A;  1WUR A;  3R2E A;  1DHN A;  1IS7 A;  1GTP A;  1NBU A;  1IS8 A;  4F8B A;  4FGC A;  1WUQ A;  3UXV A;  1RSD A;  1RSI A;  5FAR A;  2DHN A;  2CG8 A;  1N3S A;  1WPL A;  4GHM A;  4IQI A; 
#chains in the Genus database with same CATH topology
 2P11 A;  3V9O A;  4NE3 B;  2WSC G;  2NM2 A;  1NBU C;  3BMB A;  2O90 A;  2NM3 A;  1Z9W A;  3O1K A;  1U68 A;  2WSF K;  3UXJ A;  1RRY A;  3S19 A;  1A9C A;  4NE5 B;  2WSE G;  1DHN A;  2KR1 A;  4Q7J A;  2LO0 A;  4NE6 B;  2WSC K;  1RSI A;  2CG8 A;  1N3S A;  1WPL A;  4E44 B;  4IQI A;  1EL6 A;  3RJ4 A;  1B9L A;  1FB1 A;  3LW5 G;  4UQF A;  2WSE K;  4E45 B;  1RS4 A;  2PN0 A;  3BP1 A;  3R2E A;  4DRB J;  3B0B C;  2O01 G;  1RSD A;  5FAR A;  1AIP C;  3LW5 K;  1EFU B;  1RS2 A;  1SQL A;  1N3T A;  1RRI A;  1WM9 A;  5F3M A;  4DRA E;  1FBX A;  2LNZ A;  1WUR A;  1IS7 A;  1GTP A;  1NBU A;  2WSF G;  4F8B A;  1WUQ A;  3UXV A;  5DMZ A;  1TFE A;  4GHM A;  1N3R A;  1RRW A;  4R8Q A;  1A8R A;  1NBU B;  4JA3 A;  4QPM A;  3RZP A;  3VEJ A;  4DU6 A;  4AEY A;  1IS8 A;  4FGC A;  2DHN A; 
#chains in the Genus database with same CATH homology
 1EL6 A;  1EFU B;  1RS2 A;  3RJ4 A;  2P11 A;  1N3R A;  3V9O A;  4NE3 B;  1B9L A;  1SQL A;  1RRW A;  4R8Q A;  1N3T A;  1NBU C;  1RRI A;  2NM2 A;  1FB1 A;  1A8R A;  1WM9 A;  5F3M A;  3BMB A;  2O90 A;  2NM3 A;  1NBU B;  4JA3 A;  4UQF A;  4DRA E;  4E45 B;  1Z9W A;  4QPM A;  3RZP A;  1RS4 A;  3VEJ A;  3O1K A;  1FBX A;  2PN0 A;  1U68 A;  3BP1 A;  3UXJ A;  2LNZ A;  1RRY A;  4DU6 A;  4AEY A;  3S19 A;  1A9C A;  1WUR A;  4DRB J;  3R2E A;  4NE5 B;  1DHN A;  1IS7 A;  1GTP A;  3B0B C;  1NBU A;  2KR1 A;  1IS8 A;  4Q7J A;  2LO0 A;  4F8B A;  4FGC A;  1WUQ A;  3UXV A;  4NE6 B;  1RSD A;  1RSI A;  5FAR A;  5DMZ A;  2DHN A;  1AIP C;  2CG8 A;  1TFE A;  1N3S A;  1WPL A;  4GHM A;  4E44 B;  4IQI 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...

1FBXA

Total Genus

sequence length

structure length

Chain Sequence

Structure visualization

Chord Diagram

connected with : NaN

pfam database annotations