1MO1 | Genus

Total Genus 19

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	19
sequence length	87
structure length	87
Chain Sequence	MVQQKVEVRLKTGLQARPAALFVQEANRFTSDVFLEKDGKKVNAKSIMGLMSLAVSTGTEVTLIAQGEDEQEALEKLAAYVQEEVLQ

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__3736615940014745__ initializing

Jmol getValue debug null

Jmol getValue logLevel null

Jmol getValue allowjavascript null

AppletRegistry.checkIn(jmolApplet0__3736615940014745__)

vwrOptions:

{ "name":"jmolApplet0","applet":true,"documentBase":"https://genus.fuw.edu.pl/view/1MO1/B/","platform":"J.awtjs2d.Platform","fullName":"jmolApplet0__3736615940014745__","codePath":"https:/static/js/j2s/","display":"jmolApplet0_canvas2d","signedApplet":"true","appletReadyCallback":"Jmol._readyCallback","statusListener":"[J.appletjs.Jmol object]","syncId":"3736615940014745","bgcolor":"white" }

setting document base to "https://genus.fuw.edu.pl/view/1MO1/B/"

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__3736615940014745__ ready

script 1 started

platformSpeed = 8

Viewer cachePut cache://localLOAD_/file/5cfb96fdddc5d46cc79f959d/pdb.gz

Viewer cachePut https://genus.fuw.edu.pl/file/5cfb96fdddc5d46cc79f959d/pdb.gz

FileManager.getAtomSetCollectionFromFile(/file/5cfb96fdddc5d46cc79f959d/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/5cfb96fdddc5d46cc79f959d/pdb.gz): 403 ms

reading 87 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

87 atoms created

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

Time for creating model: 18 ms

Adding embedded #jmolscript: select ({0:86});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	Transport protein
source organism	Bacillus subtilis
publication title	Crystal Structure at 1.8 A of the Bacillus Subtil Catabolite Bacillus Subtilis Catabolite Repression Containing Protein (Crh) Reveals an Unexpected Swapping Domain as an Untertwinned Dimer rcsb
molecule keywords	Hpr-like protein crh
total genus	19
structure length	87
sequence length	87
chains with identical sequence	D
ec nomenclature
pdb deposition date	2002-09-06

pfam database annotations

chain	Pfam Accession Code	Pfam Family Identifier	Pfam Description
B	PF00381	PTS-HPr	PTS HPr component phosphorylation site

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

cath code	Class	Architecture	Topology	Homology	Domain
3.30.1340.10	Alpha Beta	2-Layer Sandwich	Histidine-containing Protein; Chain: A;	HPr-like	1mo1B00

1POHA 1PCHA 1FU0A 3LE1A 1MU4A 3EZEB 3LFGA 3EZAB 3LNWA 1HDNA 2XDFC 1VRCC 3OQND 3CCDA 5T17A 1CM2A 1Y50A 2RLZA 1K1CA 1RZRL 1OPDA 1KKLH 1Y51A 1CM3A 2FEPS 1QR5A 2HPRA 1PTFA 2JELP 2OENL 3IHSA 5T1NA 1PFHA 2NZUL 1KKMH 2LRKD 1JEMA 2LRLD 3OQOD 1J6TB 1TXEA 3OQMD 3EZBB 1MO1B 2HIDA 1QFRA 1SPHA 1Y4YA 2AK7A 4XWJB 5T1OA 2NZVL 1ZVVJ 1KA5A 3LE3A 3LE5A 1MO1A 1GGRB
chains in the Genus database with same CATH superfamily

1POHA 1PCHA 1FU0A 3LE1A 1MU4A 3EZEB 3LFGA 3EZAB 3LNWA 1HDNA 2XDFC 1VRCC 3OQND 3CCDA 5T17A 1CM2A 1Y50A 2RLZA 1K1CA 1RZRL 1OPDA 1KKLH 1Y51A 1CM3A 2FEPS 1QR5A 2HPRA 1PTFA 2JELP 2OENL 3IHSA 5T1NA 1PFHA 2NZUL 1KKMH 2LRKD 1JEMA 2LRLD 3OQOD 1J6TB 1TXEA 3OQMD 3EZBB 1MO1B 2HIDA 1QFRA 1SPHA 1Y4YA 2AK7A 1J5YA 4XWJB 5T1OA 2NZVL 1ZVVJ 1KA5A 3LE3A 3LE5A 1MO1A 1GGRB
chains in the Genus database with same CATH topology

#chains in the Genus database with same CATH superfamily
 1POH A;  1PCH A;  1FU0 A;  3LE1 A;  1MU4 A;  3EZE B;  3LFG A;  3EZA B;  3LNW A;  1HDN A;  2XDF C;  1VRC C;  3OQN D;  3CCD A;  5T17 A;  1CM2 A;  1Y50 A;  2RLZ A;  1K1C A;  1RZR L;  1OPD A;  1KKL H;  1Y51 A;  1CM3 A;  2FEP S;  1QR5 A;  2HPR A;  1PTF A;  2JEL P;  2OEN L;  3IHS A;  5T1N A;  1PFH A;  2NZU L;  1KKM H;  2LRK D;  1JEM A;  2LRL D;  3OQO D;  1J6T B;  1TXE A;  3OQM D;  3EZB B;  1MO1 B;  2HID A;  1QFR A;  1SPH A;  1Y4Y A;  2AK7 A;  4XWJ B;  5T1O A;  2NZV L;  1ZVV J;  1KA5 A;  3LE3 A;  3LE5 A;  1MO1 A;  1GGR B; 
#chains in the Genus database with same CATH topology
 1POH A;  1PCH A;  1FU0 A;  3LE1 A;  1MU4 A;  3EZE B;  3LFG A;  3EZA B;  3LNW A;  1HDN A;  2XDF C;  1VRC C;  3OQN D;  3CCD A;  5T17 A;  1CM2 A;  1Y50 A;  2RLZ A;  1K1C A;  1RZR L;  1OPD A;  1KKL H;  1Y51 A;  1CM3 A;  2FEP S;  1QR5 A;  2HPR A;  1PTF A;  2JEL P;  2OEN L;  3IHS A;  5T1N A;  1PFH A;  2NZU L;  1KKM H;  2LRK D;  1JEM A;  2LRL D;  3OQO D;  1J6T B;  1TXE A;  3OQM D;  3EZB B;  1MO1 B;  2HID A;  1QFR A;  1SPH A;  1Y4Y A;  2AK7 A;  1J5Y A;  4XWJ B;  5T1O A;  2NZV L;  1ZVV J;  1KA5 A;  3LE3 A;  3LE5 A;  1MO1 A;  1GGR B; 
#chains in the Genus database with same CATH homology
 1POH A;  1PCH A;  1FU0 A;  3LE1 A;  1MU4 A;  3EZE B;  3LFG A;  3EZA B;  3LNW A;  1HDN A;  2XDF C;  1VRC C;  3OQN D;  3CCD A;  5T17 A;  1CM2 A;  1Y50 A;  2RLZ A;  1K1C A;  1RZR L;  1OPD A;  1KKL H;  1Y51 A;  1CM3 A;  2FEP S;  1QR5 A;  2HPR A;  1PTF A;  2JEL P;  2OEN L;  3IHS A;  5T1N A;  1PFH A;  2NZU L;  1KKM H;  2LRK D;  1JEM A;  2LRL D;  3OQO D;  1J6T B;  1TXE A;  3OQM D;  3EZB B;  1MO1 B;  2HID A;  1QFR A;  1SPH A;  1Y4Y A;  2AK7 A;  4XWJ B;  5T1O A;  2NZV L;  1ZVV J;  1KA5 A;  3LE3 A;  3LE5 A;  1MO1 A;  1GGR B;

...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...

1MO1B

Total Genus

sequence length

structure length

Chain Sequence

Structure visualization

Chord Diagram

connected with : NaN

pfam database annotations