1BCZ | Genus

Total Genus 127

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	127
sequence length	318
structure length	318
Chain Sequence	ALRGTVTDFSGFDGRADAEVLRKAMKGLGTDEDSILNLLTARSNAQRQQIAEEFKTLFGRDLVNDMKSELSGKFEKLIVALMKPSRLYDAYELKHALKGAGTDEKVLTEIIASRTPEELRAIKQAYEEEYGSNLEDDVVGDTSGYYQRMLVVLLQANRDPDTAIDDAQVELDAQALFQAGELKWGTDEEKFITILGTRSVSHLRRVFDKYMTISGFQIEETIDRETSGNLENLLLAVVKSIRSIPAYLAETLYYAMKGAGTDDHTLIRVIVSRSEIDLFNIRKEFRKNFATSLYSMIKGDTSGDYKKALLLLCGGEDD

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__093811003983123__ initializing

Jmol getValue debug null

Jmol getValue logLevel null

Jmol getValue allowjavascript null

AppletRegistry.checkIn(jmolApplet0__093811003983123__)

vwrOptions:

{ "name":"jmolApplet0","applet":true,"documentBase":"https://genus.fuw.edu.pl/view/1BCZ/A/","platform":"J.awtjs2d.Platform","fullName":"jmolApplet0__093811003983123__","codePath":"https:/static/js/j2s/","display":"jmolApplet0_canvas2d","signedApplet":"true","appletReadyCallback":"Jmol._readyCallback","statusListener":"[J.appletjs.Jmol object]","syncId":"093811003983123","bgcolor":"white" }

setting document base to "https://genus.fuw.edu.pl/view/1BCZ/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__093811003983123__ ready

script 1 started

platformSpeed = 8

Viewer cachePut cache://localLOAD_/file/5cfac7c523a75cd80531d0d3/pdb.gz

Viewer cachePut https://genus.fuw.edu.pl/file/5cfac7c523a75cd80531d0d3/pdb.gz

FileManager.getAtomSetCollectionFromFile(/file/5cfac7c523a75cd80531d0d3/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/5cfac7c523a75cd80531d0d3/pdb.gz): 717 ms

reading 318 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

318 atoms created

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

Time for creating model: 32 ms

Adding embedded #jmolscript: select ({0:317});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	Calcium-binding protein
source organism	Rattus norvegicus
publication title	Mutational and crystallographic analyses of interfacial residues in annexin V suggest direct interactions with phospholipid membrane components. pubmed doi rcsb
molecule keywords	ANNEXIN V
total genus	127
structure length	318
sequence length	318
ec nomenclature
pdb deposition date	1998-05-04

pfam database annotations

chain	Pfam Accession Code	Pfam Family Identifier	Pfam Description
A	PF00191	Annexin	Annexin

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

cath code	Class	Architecture	Topology	Homology	Domain
1.10.220.10	Mainly Alpha	Orthogonal Bundle	Annexin V; domain 1	Annexin	1bczA02
1.10.220.10	Mainly Alpha	Orthogonal Bundle	Annexin V; domain 1	Annexin	1bczA04
1.10.220.10	Mainly Alpha	Orthogonal Bundle	Annexin V; domain 1	Annexin	1bczA01
1.10.220.10	Mainly Alpha	Orthogonal Bundle	Annexin V; domain 1	Annexin	1bczA03

2HYVA 1SAVA 1BC1A 1N44A 2RANA 1A8BA 4X9PA 1N42A 1YCNA 1HM6A 1W7BA 1BC0A 2IE6A 1AVHA 1AEIA 1AVCA 1AIIA 1AVRA 1G5NA 2XO3A 2IE7A 1BCYA 1AOWA 1BC3A 1HVFA 1AXNA 1I4AA 1YIIA 2IICA 2Q4CA 1N00A 1W45A 4MDUA 4EVFA 1M9IA 1ANXA 2HYUA 2XO2A 4EVHA 1DK5A 1HVDA 1MCXA 2ZOCA 3BRXA 1BCZA 2H0KA 2ZHIA 1YJ0A 1ALAA 1DM5A 1XJLA 1HVEA 2II2A 2H0MA 1ANNA 4HREA 1BO9A 1HVGA 1N41A 2H0LA 1BCWA 2HYWA 2ZHJA 1HAKA 4MDVA 1W3WA 1A8AA 1ANWA
chains in the Genus database with same CATH superfamily

4C7PA 4Z21A 2RANA 2R0DA 1N42A 2R09A 3USYA 1BC0A 1Q8DA 1BC3A 4A4PA 1C1KA 3TW5A 1AXNA 4MDUA 3ABQA 1ANXA 1DK5A 3ANYA 4C0AA 1YJ0A 1ALAA 1YGMA 1QC7A 2H0MA 3HJLA 4FHRB 1N44A 1ANWA 3LTLA 2OY9A 3AO0A 4FQ0C 1RE0B 3SWVA 1AEIA 1G5NA 1AVRA 2XO3A 1BCYA 1AOWA 1HVFA 1PBVA 4Q2SA 4JK1X 4JWLA 3ABSA 2XO2A 2HYUA 4JMIA 3L8NA 1R8SE 4JXHA 4KMUX 3AJCA 2HYWA 2ZHJA 1A8AA 1R8ME 2HYVA 3ABRA 3ABOA 1R4AE 1BC1A 1SAVA 4L5MA 1A8BA 1YCNA 1HM6A 1W7BA 1AVHA 2QEZA 1BC9A 1YIIA 2IICA 1N00A 1LKVX 4D7RA 4EVFA 4EVHA 1HVDA 2ZOCA 3BRXA 2H0KA 2ZHIA 1XJLA 1HVEA 4HREA 1BO9A 1N41A 2H0LA 2HSNA 1BCWA 4OIYA 1XSZA 1HAKA 4MDVA 4D7QA 4KN4X 3USWA 3SOHB 4X9PA 2VXGA 1R8QE 2IE6A 1AVCA 1AIIA 2K6XA 1S9DE 2IE7A 1I4AA 2Q4CA 1W45A 1M9IA 1MCXA 4KN7X 1BCZA 1UPTB 1KU1A 1DM5A 2II2A 1ANNA 1HVGA 4JMOA 1XT0B 1W3WA
chains in the Genus database with same CATH topology

#chains in the Genus database with same CATH superfamily
 2HYV A;  1SAV A;  1BC1 A;  1N44 A;  2RAN A;  1A8B A;  4X9P A;  1N42 A;  1YCN A;  1HM6 A;  1W7B A;  1BC0 A;  2IE6 A;  1AVH A;  1AEI A;  1AVC A;  1AII A;  1AVR A;  1G5N A;  2XO3 A;  2IE7 A;  1BCY A;  1AOW A;  1BC3 A;  1HVF A;  1AXN A;  1I4A A;  1YII A;  2IIC A;  2Q4C A;  1N00 A;  1W45 A;  4MDU A;  4EVF A;  1M9I A;  1ANX A;  2HYU A;  2XO2 A;  4EVH A;  1DK5 A;  1HVD A;  1MCX A;  2ZOC A;  3BRX A;  1BCZ A;  2H0K A;  2ZHI A;  1YJ0 A;  1ALA A;  1DM5 A;  1XJL A;  1HVE A;  2II2 A;  2H0M A;  1ANN A;  4HRE A;  1BO9 A;  1HVG A;  1N41 A;  2H0L A;  1BCW A;  2HYW A;  2ZHJ A;  1HAK A;  4MDV A;  1W3W A;  1A8A A;  1ANW A; 
#chains in the Genus database with same CATH topology
 4C7P A;  4Z21 A;  2RAN A;  2R0D A;  1N42 A;  2R09 A;  3USY A;  1BC0 A;  1Q8D A;  1BC3 A;  4A4P A;  1C1K A;  3TW5 A;  1AXN A;  4MDU A;  3ABQ A;  1ANX A;  1DK5 A;  3ANY A;  4C0A A;  1YJ0 A;  1ALA A;  1YGM A;  1QC7 A;  2H0M A;  3HJL A;  4FHR B;  1N44 A;  1ANW A;  3LTL A;  2OY9 A;  3AO0 A;  4FQ0 C;  1RE0 B;  3SWV A;  1AEI A;  1G5N A;  1AVR A;  2XO3 A;  1BCY A;  1AOW A;  1HVF A;  1PBV A;  4Q2S A;  4JK1 X;  4JWL A;  3ABS A;  2XO2 A;  2HYU A;  4JMI A;  3L8N A;  1R8S E;  4JXH A;  4KMU X;  3AJC A;  2HYW A;  2ZHJ A;  1A8A A;  1R8M E;  2HYV A;  3ABR A;  3ABO A;  1R4A E;  1BC1 A;  1SAV A;  4L5M A;  1A8B A;  1YCN A;  1HM6 A;  1W7B A;  1AVH A;  2QEZ A;  1BC9 A;  1YII A;  2IIC A;  1N00 A;  1LKV X;  4D7R A;  4EVF A;  4EVH A;  1HVD A;  2ZOC A;  3BRX A;  2H0K A;  2ZHI A;  1XJL A;  1HVE A;  4HRE A;  1BO9 A;  1N41 A;  2H0L A;  2HSN A;  1BCW A;  4OIY A;  1XSZ A;  1HAK A;  4MDV A;  4D7Q A;  4KN4 X;  3USW A;  3SOH B;  4X9P A;  2VXG A;  1R8Q E;  2IE6 A;  1AVC A;  1AII A;  2K6X A;  1S9D E;  2IE7 A;  1I4A A;  2Q4C A;  1W45 A;  1M9I A;  1MCX A;  4KN7 X;  1BCZ A;  1UPT B;  1KU1 A;  1DM5 A;  2II2 A;  1ANN A;  1HVG A;  4JMO A;  1XT0 B;  1W3W A; 
#chains in the Genus database with same CATH homology
 2HYV A;  1SAV A;  1BC1 A;  1N44 A;  2RAN A;  1A8B A;  4X9P A;  1N42 A;  1YCN A;  1HM6 A;  1W7B A;  1BC0 A;  2IE6 A;  1AVH A;  1AEI A;  1AVC A;  1AII A;  1AVR A;  1G5N A;  2XO3 A;  2IE7 A;  1BCY A;  1AOW A;  1BC3 A;  1HVF A;  1AXN A;  1I4A A;  1YII A;  2IIC A;  2Q4C A;  1N00 A;  1W45 A;  4MDU A;  4EVF A;  1M9I A;  1ANX A;  2HYU A;  2XO2 A;  4EVH A;  1DK5 A;  1HVD A;  1MCX A;  2ZOC A;  3BRX A;  1BCZ A;  2H0K A;  2ZHI A;  1YJ0 A;  1ALA A;  1DM5 A;  1XJL A;  1HVE A;  2II2 A;  2H0M A;  1ANN A;  4HRE A;  1BO9 A;  1HVG A;  1N41 A;  2H0L A;  1BCW A;  2HYW A;  2ZHJ A;  1HAK A;  4MDV A;  1W3W A;  1A8A A;  1ANW 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...

1BCZA

Total Genus

sequence length

structure length

Chain Sequence

Structure visualization

Chord Diagram

connected with : NaN

pfam database annotations