5CXM | Genus

Total Genus 17

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	17
sequence length	99
structure length	99
Chain Sequence	TVNVGTMADLKAKGELKGNTPKGPVTVVPNGNSGQISAVNPTCTHNGCQVNWKKANGKFVCPCHGAEFAATGKVLKGPAIRDLPTYATQVSGNNILVKA

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__61452829282605__ initializing

Jmol getValue debug null

Jmol getValue logLevel null

Jmol getValue allowjavascript null

AppletRegistry.checkIn(jmolApplet0__61452829282605__)

vwrOptions:

{ "name":"jmolApplet0","applet":true,"documentBase":"https://genus.fuw.edu.pl/view/5CXM/A/","platform":"J.awtjs2d.Platform","fullName":"jmolApplet0__61452829282605__","codePath":"https:/static/js/j2s/","display":"jmolApplet0_canvas2d","signedApplet":"true","appletReadyCallback":"Jmol._readyCallback","statusListener":"[J.appletjs.Jmol object]","syncId":"61452829282605","bgcolor":"white" }

setting document base to "https://genus.fuw.edu.pl/view/5CXM/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__61452829282605__ 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	Metal binding protein
source organism	Synechocystis sp.
publication title	Structural and functional characterisation of the cyanobacterial PetC3 Rieske protein family. pubmed doi rcsb
molecule keywords	Cytochrome b6/f complex iron-sulfur subunit
total genus	17
structure length	99
sequence length	99
chains with identical sequence	B, C, D
ec nomenclature
pdb deposition date	2015-07-29

pfam database annotations

chain	Pfam Accession Code	Pfam Family Identifier	Pfam Description
A	PF00355	Rieske	Rieske [2Fe-2S] domain

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

cath code	Class	Architecture	Topology	Homology	Domain
2.102.10.10	Mainly Beta	3-layer Sandwich	Rieske Iron-sulfur Protein	Rieske [2Fe-2S] iron-sulphur domain	5cxmA00

2XRXA 3H1JE 4QDDA 2YIUC 1L0NE 4HM4A 2E4PA 2HMNA 3GOBA 1VM9A 5BOKA 1KYOE 2DE5D 1ZRTE 4NBAD 3BCCE 1RIEA 2YFIA 4AIVA 5KLVE 4H0LD 1SQXE 4HKVA 2GBWA 4HM2A 1O7HA 2IBZE 4PD4E 1SQQE 1VCKA 3DQYA 2I7FA 1RFSA 4P1CH 4QURA 2HMMA 3L70E 3VMGD 2JO6A 2ZYLA 1O7MA 3C0DA 3GTEA 1SJGA 1NU1E 3D89A 1NTME 3L75E 3GZYA 3VCPA 1PPJE 1UUVA 2HMLA 1G8KB 4PV1D 2YVJB 4H13D 2E74D 3EQQA 2NUKA 1P84E 3L71E 2E4QA 3GTSA 5AEWA 5HL4A 4QUQA 1FQTA 2A06E 2NVGA 2QJPC 2BMQA 4HM3A 1O7WA 1L0LE 1SQBE 1JM1A 1G8JB 3GL2A 3H1KE 1SQPE 2JZAA 4HM5A 3H1HE 1EG9A 2YFJA 4NBFD 1O7GA 2HMOA 2B24A 3CX5E 3VCAA 4OGQD 4EMJB 1ULJA 3L73E 5KLIC 2B1XA 4NB8D 1UUWA 1PP9E 3H1LE 5KKZC 4U3FE 2QJKC 2NWFA 4NB9D 3N0QA 4NBCD 2QJYC 1ULIA 2NVEA 4HM6A 2CKFA 2XSHA 5AEUA 1NDOA 1WQLA 4HJLA 2FYUE 2HMJA 2GBXA 1VF5D 3GKEA 2BCCE 4QDFA 3L72E 4NBED 2BMRA 2XSOA 2BMOA 4QCKA 4HM7A 1BE3E 4H44D 1NTKE 2Q3WA 3CXHE 4QDCA 3FOUA 4P1BH 3TGUE 3GCEA 2E75D 1KB9E 2FYNC 4NBBD 3VMID 2NVFA 2YFLA 2DE6D 4QUPA 3EN1A 3H1IE 4NBGD 4HM8A 3GZXA 1SQVE 4NBDD 3GB4A 1O7NA 4HM0A 1BCCE 4AAYB 3CWBE 3VMHD 2XR8A 2D2CD 1NYKA 2QPZA 4NBHD 1Q90C 4QDFB 4HM1A 5CXMA 2DE7D 2ZT9D 1NTZE 2E76D 1EZVE 3GL0A 3L74E 3AZCA 2HMKA 2NUMA 1O7PA
chains in the Genus database with same CATH superfamily

#chains in the Genus database with same CATH superfamily
 2XRX A;  3H1J E;  4QDD A;  2YIU C;  1L0N E;  4HM4 A;  2E4P A;  2HMN A;  3GOB A;  1VM9 A;  5BOK A;  1KYO E;  2DE5 D;  1ZRT E;  4NBA D;  3BCC E;  1RIE A;  2YFI A;  4AIV A;  5KLV E;  4H0L D;  1SQX E;  4HKV A;  2GBW A;  4HM2 A;  1O7H A;  2IBZ E;  4PD4 E;  1SQQ E;  1VCK A;  3DQY A;  2I7F A;  1RFS A;  4P1C H;  4QUR A;  2HMM A;  3L70 E;  3VMG D;  2JO6 A;  2ZYL A;  1O7M A;  3C0D A;  3GTE A;  1SJG A;  1NU1 E;  3D89 A;  1NTM E;  3L75 E;  3GZY A;  3VCP A;  1PPJ E;  1UUV A;  2HML A;  1G8K B;  4PV1 D;  2YVJ B;  4H13 D;  2E74 D;  3EQQ A;  2NUK A;  1P84 E;  3L71 E;  2E4Q A;  3GTS A;  5AEW A;  5HL4 A;  4QUQ A;  1FQT A;  2A06 E;  2NVG A;  2QJP C;  2BMQ A;  4HM3 A;  1O7W A;  1L0L E;  1SQB E;  1JM1 A;  1G8J B;  3GL2 A;  3H1K E;  1SQP E;  2JZA A;  4HM5 A;  3H1H E;  1EG9 A;  2YFJ A;  4NBF D;  1O7G A;  2HMO A;  2B24 A;  3CX5 E;  3VCA A;  4OGQ D;  4EMJ B;  1ULJ A;  3L73 E;  5KLI C;  2B1X A;  4NB8 D;  1UUW A;  1PP9 E;  3H1L E;  5KKZ C;  4U3F E;  2QJK C;  2NWF A;  4NB9 D;  3N0Q A;  4NBC D;  2QJY C;  1ULI A;  2NVE A;  4HM6 A;  2CKF A;  2XSH A;  5AEU A;  1NDO A;  1WQL A;  4HJL A;  2FYU E;  2HMJ A;  2GBX A;  1VF5 D;  3GKE A;  2BCC E;  4QDF A;  3L72 E;  4NBE D;  2BMR A;  2XSO A;  2BMO A;  4QCK A;  4HM7 A;  1BE3 E;  4H44 D;  1NTK E;  2Q3W A;  3CXH E;  4QDC A;  3FOU A;  4P1B H;  3TGU E;  3GCE A;  2E75 D;  1KB9 E;  2FYN C;  4NBB D;  3VMI D;  2NVF A;  2YFL A;  2DE6 D;  4QUP A;  3EN1 A;  3H1I E;  4NBG D;  4HM8 A;  3GZX A;  1SQV E;  4NBD D;  3GB4 A;  1O7N A;  4HM0 A;  1BCC E;  4AAY B;  3CWB E;  3VMH D;  2XR8 A;  2D2C D;  1NYK A;  2QPZ A;  4NBH D;  1Q90 C;  4QDF B;  4HM1 A;  5CXM A;  2DE7 D;  2ZT9 D;  1NTZ E;  2E76 D;  1EZV E;  3GL0 A;  3L74 E;  3AZC A;  2HMK A;  2NUM A;  1O7P A; 
#chains in the Genus database with same CATH topology
 2XRX A;  3H1J E;  4QDD A;  2YIU C;  1L0N E;  4HM4 A;  2E4P A;  2HMN A;  3GOB A;  1VM9 A;  5BOK A;  1KYO E;  2DE5 D;  1ZRT E;  4NBA D;  3BCC E;  1RIE A;  2YFI A;  4AIV A;  5KLV E;  4H0L D;  1SQX E;  4HKV A;  2GBW A;  4HM2 A;  1O7H A;  2IBZ E;  4PD4 E;  1SQQ E;  1VCK A;  3DQY A;  2I7F A;  1RFS A;  4P1C H;  4QUR A;  2HMM A;  3L70 E;  3VMG D;  2JO6 A;  2ZYL A;  1O7M A;  3C0D A;  3GTE A;  1SJG A;  1NU1 E;  3D89 A;  1NTM E;  3L75 E;  3GZY A;  3VCP A;  1PPJ E;  1UUV A;  2HML A;  1G8K B;  4PV1 D;  2YVJ B;  4H13 D;  2E74 D;  3EQQ A;  2NUK A;  1P84 E;  3L71 E;  2E4Q A;  3GTS A;  5AEW A;  5HL4 A;  4QUQ A;  1FQT A;  2A06 E;  2NVG A;  2QJP C;  2BMQ A;  4HM3 A;  1O7W A;  1L0L E;  1SQB E;  1JM1 A;  1G8J B;  3GL2 A;  3H1K E;  1SQP E;  2JZA A;  4HM5 A;  3H1H E;  1EG9 A;  2YFJ A;  4NBF D;  1O7G A;  2HMO A;  2B24 A;  3CX5 E;  3VCA A;  4OGQ D;  4EMJ B;  1ULJ A;  3L73 E;  5KLI C;  2B1X A;  4NB8 D;  1UUW A;  1PP9 E;  3H1L E;  5KKZ C;  4U3F E;  2QJK C;  2NWF A;  4NB9 D;  3N0Q A;  4NBC D;  2QJY C;  1ULI A;  2NVE A;  4HM6 A;  2CKF A;  2XSH A;  5AEU A;  1NDO A;  1WQL A;  4HJL A;  2FYU E;  2HMJ A;  2GBX A;  1VF5 D;  3GKE A;  2BCC E;  4QDF A;  3L72 E;  4NBE D;  2BMR A;  2XSO A;  2BMO A;  4QCK A;  4HM7 A;  1BE3 E;  4H44 D;  1NTK E;  2Q3W A;  3CXH E;  4QDC A;  3FOU A;  4P1B H;  3TGU E;  3GCE A;  2E75 D;  1KB9 E;  2FYN C;  4NBB D;  3VMI D;  2NVF A;  2YFL A;  2DE6 D;  4QUP A;  3EN1 A;  3H1I E;  4NBG D;  4HM8 A;  3GZX A;  1SQV E;  4NBD D;  3GB4 A;  1O7N A;  4HM0 A;  1BCC E;  4AAY B;  3CWB E;  3VMH D;  2XR8 A;  2D2C D;  1NYK A;  2QPZ A;  4NBH D;  1Q90 C;  4QDF B;  4HM1 A;  5CXM A;  2DE7 D;  2ZT9 D;  1NTZ E;  2E76 D;  1EZV E;  3GL0 A;  3L74 E;  3AZC A;  2HMK A;  2NUM A;  1O7P A; 
#chains in the Genus database with same CATH homology
 2XRX A;  3H1J E;  4QDD A;  2YIU C;  1L0N E;  4HM4 A;  2E4P A;  2HMN A;  3GOB A;  1VM9 A;  5BOK A;  1KYO E;  2DE5 D;  1ZRT E;  4NBA D;  3BCC E;  1RIE A;  2YFI A;  4AIV A;  5KLV E;  4H0L D;  1SQX E;  4HKV A;  2GBW A;  4HM2 A;  1O7H A;  2IBZ E;  4PD4 E;  1SQQ E;  1VCK A;  3DQY A;  2I7F A;  1RFS A;  4P1C H;  4QUR A;  2HMM A;  3L70 E;  3VMG D;  2JO6 A;  2ZYL A;  1O7M A;  3C0D A;  3GTE A;  1SJG A;  1NU1 E;  3D89 A;  1NTM E;  3L75 E;  3GZY A;  3VCP A;  1PPJ E;  1UUV A;  2HML A;  1G8K B;  4PV1 D;  2YVJ B;  4H13 D;  2E74 D;  3EQQ A;  2NUK A;  1P84 E;  3L71 E;  2E4Q A;  3GTS A;  5AEW A;  5HL4 A;  4QUQ A;  1FQT A;  2A06 E;  2NVG A;  2QJP C;  2BMQ A;  4HM3 A;  1O7W A;  1L0L E;  1SQB E;  1JM1 A;  1G8J B;  3GL2 A;  3H1K E;  1SQP E;  2JZA A;  4HM5 A;  3H1H E;  1EG9 A;  2YFJ A;  4NBF D;  1O7G A;  2HMO A;  2B24 A;  3CX5 E;  3VCA A;  4OGQ D;  4EMJ B;  1ULJ A;  3L73 E;  5KLI C;  2B1X A;  4NB8 D;  1UUW A;  1PP9 E;  3H1L E;  5KKZ C;  4U3F E;  2QJK C;  2NWF A;  4NB9 D;  3N0Q A;  4NBC D;  2QJY C;  1ULI A;  2NVE A;  4HM6 A;  2CKF A;  2XSH A;  5AEU A;  1NDO A;  1WQL A;  4HJL A;  2FYU E;  2HMJ A;  2GBX A;  1VF5 D;  3GKE A;  2BCC E;  4QDF A;  3L72 E;  4NBE D;  2BMR A;  2XSO A;  2BMO A;  4QCK A;  4HM7 A;  1BE3 E;  4H44 D;  1NTK E;  2Q3W A;  3CXH E;  4QDC A;  3FOU A;  4P1B H;  3TGU E;  3GCE A;  2E75 D;  1KB9 E;  2FYN C;  4NBB D;  3VMI D;  2NVF A;  2YFL A;  2DE6 D;  4QUP A;  3EN1 A;  3H1I E;  4NBG D;  4HM8 A;  3GZX A;  1SQV E;  4NBD D;  3GB4 A;  1O7N A;  4HM0 A;  1BCC E;  4AAY B;  3CWB E;  3VMH D;  2XR8 A;  2D2C D;  1NYK A;  2QPZ A;  4NBH D;  1Q90 C;  4QDF B;  4HM1 A;  5CXM A;  2DE7 D;  2ZT9 D;  1NTZ E;  2E76 D;  1EZV E;  3GL0 A;  3L74 E;  3AZC A;  2HMK A;  2NUM A;  1O7P 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...

5CXMA

Total Genus

sequence length

structure length

Chain Sequence

Structure visualization

Chord Diagram

connected with : NaN

pfam database annotations