2ED5 | Genus

Total Genus 83

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	83
sequence length	265
structure length	265
Chain Sequence	MVLYFIGLGLYDERDITVKGLEIAKKCDYVFAEFYTSLMAGTTLGRIQKLIGKEIRVLSREDVELNFENIVLPLAKENDVAFLTPGDPLVATTHAELRIRAKRAGVESYVIHAPSIYSAVGITGLHIYKFGKSATVAYPEGNWFPTMYYDVIKENAERGLHTLLFLDIKAEKRMYMTANEAMELLLKVEDMKKGGVFTDDTLVVVLARAGSLNPTIRAGYVKDLIREDFGDPPHILIVPGKLHIVEAEYLVEIAGAPREILRVNV

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__333121935794034__ initializing

Jmol getValue debug null

Jmol getValue logLevel null

Jmol getValue allowjavascript null

AppletRegistry.checkIn(jmolApplet0__333121935794034__)

vwrOptions:

{ "name":"jmolApplet0","applet":true,"documentBase":"https://genus.fuw.edu.pl/view/2ED5/A/","platform":"J.awtjs2d.Platform","fullName":"jmolApplet0__333121935794034__","codePath":"https:/static/js/j2s/","display":"jmolApplet0_canvas2d","signedApplet":"true","appletReadyCallback":"Jmol._readyCallback","statusListener":"[J.appletjs.Jmol object]","syncId":"333121935794034","bgcolor":"white" }

setting document base to "https://genus.fuw.edu.pl/view/2ED5/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__333121935794034__ 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	Transferase
source organism	Pyrococcus horikoshii
publication title	Mutant S147M structure of PH0725 from Pyrococcus horikoshii OT3 rcsb
molecule keywords	diphthine synthase
total genus	83
structure length	265
sequence length	265
chains with identical sequence	B
ec nomenclature	ec 2.1.1.98: Diphthine synthase.
pdb deposition date	2007-02-14

pfam database annotations

chain	Pfam Accession Code	Pfam Family Identifier	Pfam Description
A	PF00590	TP_methylase	Tetrapyrrole (Corrin/Porphyrin) Methylases

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

cath code	Class	Architecture	Topology	Homology	Domain
3.30.950.10	Alpha Beta	2-Layer Sandwich	Methyltransferase, Cobalt-precorrin-4 Transmethylase; Domain 2	Methyltransferase, Cobalt-precorrin-4 Transmethylase; Domain 2	2ed5A02
3.40.1010.10	Alpha Beta	3-Layer(aba) Sandwich	Cobalt-precorrin-4 Transmethylase; domain 1	Cobalt-precorrin-4 Transmethylase; Domain 1	2ed5A01

2EL0A 2PCAA 3FFYA 2EEQA 2ELDA 2E0NA 2DSIA 2HR8A 1PJQA 2EJZA 2DSHA 2P6DA 2PB6A 3ND1A 3HH1A 2ED5A 1S4DA 2P6IA 2HUVA 2E8HA 2ENIA 2PCMA 2OWVA 2ED3A 1WDEA 1VHVA 2ELEA 2YBQA 2P2XA 2EK2A 2DV7A 2ZVBA 2DSGA 4E16A 2EGBA 2PB5A 1PJSA 2P6KA 2HUQA 2PCHA 3NDCA 2CBFA 2DXVA 2EN5A 3KWPA 2Z6RA 2E8SA 2EGSA 2P9DA 1WYZA 2EK4A 1WNGA 2BB3A 1PJTA 2E17A 2EJKA 2YBOA 2P5FA 2E4NA 3NUTA 5HW4A 3FQ6A 1VE2A 2DXXA 2EMRA 2EGLA 1VCEA 2NPNA 2DEKA 2EL3A 2OWKA 3NEIA 2E0KA 2OWUA 2EK7A 3I4TA 2OWGA 2EJJA 2DXWA 2PCIA 1VA0A 2HUXA 2EH4A 2DV4A 2HUTA 1V9AA 2E08A 2E07A 2EHCA 2E7RA 2E16A 2EHLA 2PCKA 2P6LA 2EH5A 2EL1A 2PB4A 2EL2A 2DV5A 2E15A 2E8QA 2DV3A 2EH2A 2EK3A 2E4RA 1CBFA 2P5CA 2E8RA 2OWFA 2EKAA 2ZVCA 2QBUA 2PCGA 2EMUA
chains in the Genus database with same CATH superfamily

2EL0A 2PCAA 3DNFA 3FFYA 2EEQA 4H4CA 3SZLA 2ELDA 2E0NA 2DSIA 2HR8A 3T0FA 4MV0A 1PJQA 2EJZA 2DSHA 2P6DA 2PB6A 3ND1A 3HH1A 2ED5A 4MV5A 1S4DA 4MUXA 2P6IA 2HUVA 2E8HA 2ENIA 2PCMA 2OWVA 2ED3A 1WDEA 1VHVA 2ELEA 2YBQA 2KYYA 4H4DA 3KELA 2P2XA 2EK2A 2DV7A 3KE8A 2ZVBA 2DSGA 4E16A 3UV6A 3UV7A 2EGBA 2PB5A 1PJSA 2P6KA 2HUQA 2PCHA 4H4EA 3NDCA 2CBFA 2DXVA 3SZOA 3ZGNA 2EN5A 3KWPA 2Z6RA 3URKA 2E8SA 3SZUA 2EGSA 2P9DA 1WYZA 2EK4A 1WNGA 2BB3A 1PJTA 2E17A 2EJKA 3UWMA 2YBOA 2P5FA 2E4NA 3NUTA 5HW4A 3UTCA 3FQ6A 1VE2A 2DXXA 2EMRA 3F7TA 4MUYA 2EGLA 1VCEA 2NPNA 2DEKA 2EL3A 2OWKA 3NEIA 2E0KA 2OWUA 2EK7A 3I4TA 2OWGA 2EJJA 2DXWA 2PCIA 3KEFA 1VA0A 2HUXA 2EH4A 2DV4A 2HUTA 3TIXB 1V9AA 2E08A 3UV3A 2E07A 2EHCA 3ZGLA 2E7RA 2E16A 2EHLA 2PCKA 2P6LA 2EH5A 2EL1A 2PB4A 2EL2A 2DV5A 2E15A 2E8QA 4EB3A 2DV3A 2EH2A 4N7BA 2EK3A 2E4RA 1CBFA 2P5CA 2E8RA 2OWFA 2EKAA 3KE9A 2ZVCA 2QBUA 3UTDA 2PCGA 3T0GA 3KEMA 2EMUA 3LMMA
chains in the Genus database with same CATH topology

#chains in the Genus database with same CATH superfamily
 2EL0 A;  2PCA A;  3FFY A;  2EEQ A;  2ELD A;  2E0N A;  2DSI A;  2HR8 A;  1PJQ A;  2EJZ A;  2DSH A;  2P6D A;  2PB6 A;  3ND1 A;  3HH1 A;  2ED5 A;  1S4D A;  2P6I A;  2HUV A;  2E8H A;  2ENI A;  2PCM A;  2OWV A;  2ED3 A;  1WDE A;  1VHV A;  2ELE A;  2YBQ A;  2P2X A;  2EK2 A;  2DV7 A;  2ZVB A;  2DSG A;  4E16 A;  2EGB A;  2PB5 A;  1PJS A;  2P6K A;  2HUQ A;  2PCH A;  3NDC A;  2CBF A;  2DXV A;  2EN5 A;  3KWP A;  2Z6R A;  2E8S A;  2EGS A;  2P9D A;  1WYZ A;  2EK4 A;  1WNG A;  2BB3 A;  1PJT A;  2E17 A;  2EJK A;  2YBO A;  2P5F A;  2E4N A;  3NUT A;  5HW4 A;  3FQ6 A;  1VE2 A;  2DXX A;  2EMR A;  2EGL A;  1VCE A;  2NPN A;  2DEK A;  2EL3 A;  2OWK A;  3NEI A;  2E0K A;  2OWU A;  2EK7 A;  3I4T A;  2OWG A;  2EJJ A;  2DXW A;  2PCI A;  1VA0 A;  2HUX A;  2EH4 A;  2DV4 A;  2HUT A;  1V9A A;  2E08 A;  2E07 A;  2EHC A;  2E7R A;  2E16 A;  2EHL A;  2PCK A;  2P6L A;  2EH5 A;  2EL1 A;  2PB4 A;  2EL2 A;  2DV5 A;  2E15 A;  2E8Q A;  2DV3 A;  2EH2 A;  2EK3 A;  2E4R A;  1CBF A;  2P5C A;  2E8R A;  2OWF A;  2EKA A;  2ZVC A;  2QBU A;  2PCG A;  2EMU A; 
#chains in the Genus database with same CATH topology
 2EL0 A;  2PCA A;  3DNF A;  3FFY A;  2EEQ A;  4H4C A;  3SZL A;  2ELD A;  2E0N A;  2DSI A;  2HR8 A;  3T0F A;  4MV0 A;  1PJQ A;  2EJZ A;  2DSH A;  2P6D A;  2PB6 A;  3ND1 A;  3HH1 A;  2ED5 A;  4MV5 A;  1S4D A;  4MUX A;  2P6I A;  2HUV A;  2E8H A;  2ENI A;  2PCM A;  2OWV A;  2ED3 A;  1WDE A;  1VHV A;  2ELE A;  2YBQ A;  2KYY A;  4H4D A;  3KEL A;  2P2X A;  2EK2 A;  2DV7 A;  3KE8 A;  2ZVB A;  2DSG A;  4E16 A;  3UV6 A;  3UV7 A;  2EGB A;  2PB5 A;  1PJS A;  2P6K A;  2HUQ A;  2PCH A;  4H4E A;  3NDC A;  2CBF A;  2DXV A;  3SZO A;  3ZGN A;  2EN5 A;  3KWP A;  2Z6R A;  3URK A;  2E8S A;  3SZU A;  2EGS A;  2P9D A;  1WYZ A;  2EK4 A;  1WNG A;  2BB3 A;  1PJT A;  2E17 A;  2EJK A;  3UWM A;  2YBO A;  2P5F A;  2E4N A;  3NUT A;  5HW4 A;  3UTC A;  3FQ6 A;  1VE2 A;  2DXX A;  2EMR A;  3F7T A;  4MUY A;  2EGL A;  1VCE A;  2NPN A;  2DEK A;  2EL3 A;  2OWK A;  3NEI A;  2E0K A;  2OWU A;  2EK7 A;  3I4T A;  2OWG A;  2EJJ A;  2DXW A;  2PCI A;  3KEF A;  1VA0 A;  2HUX A;  2EH4 A;  2DV4 A;  2HUT A;  3TIX B;  1V9A A;  2E08 A;  3UV3 A;  2E07 A;  2EHC A;  3ZGL A;  2E7R A;  2E16 A;  2EHL A;  2PCK A;  2P6L A;  2EH5 A;  2EL1 A;  2PB4 A;  2EL2 A;  2DV5 A;  2E15 A;  2E8Q A;  4EB3 A;  2DV3 A;  2EH2 A;  4N7B A;  2EK3 A;  2E4R A;  1CBF A;  2P5C A;  2E8R A;  2OWF A;  2EKA A;  3KE9 A;  2ZVC A;  2QBU A;  3UTD A;  2PCG A;  3T0G A;  3KEM A;  2EMU A;  3LMM A; 
#chains in the Genus database with same CATH homology
 2EL0 A;  2PCA A;  3DNF A;  3FFY A;  2EEQ A;  4H4C A;  3SZL A;  2ELD A;  2E0N A;  2DSI A;  2HR8 A;  3T0F A;  4MV0 A;  1PJQ A;  2EJZ A;  2DSH A;  2P6D A;  2PB6 A;  3ND1 A;  3HH1 A;  2ED5 A;  4MV5 A;  1S4D A;  4MUX A;  2P6I A;  2HUV A;  2E8H A;  2ENI A;  2PCM A;  2OWV A;  2ED3 A;  1WDE A;  1VHV A;  2ELE A;  2YBQ A;  2KYY A;  4H4D A;  3KEL A;  2P2X A;  2EK2 A;  2DV7 A;  3KE8 A;  2ZVB A;  2DSG A;  4E16 A;  3UV6 A;  3UV7 A;  2EGB A;  2PB5 A;  1PJS A;  2P6K A;  2HUQ A;  2PCH A;  4H4E A;  3NDC A;  2CBF A;  2DXV A;  3SZO A;  3ZGN A;  2EN5 A;  3KWP A;  2Z6R A;  3URK A;  2E8S A;  3SZU A;  2EGS A;  2P9D A;  1WYZ A;  2EK4 A;  1WNG A;  2BB3 A;  1PJT A;  2E17 A;  2EJK A;  3UWM A;  2YBO A;  2P5F A;  2E4N A;  3NUT A;  5HW4 A;  3UTC A;  3FQ6 A;  1VE2 A;  2DXX A;  2EMR A;  3F7T A;  4MUY A;  2EGL A;  1VCE A;  2NPN A;  2DEK A;  2EL3 A;  2OWK A;  3NEI A;  2E0K A;  2OWU A;  2EK7 A;  3I4T A;  2OWG A;  2EJJ A;  2DXW A;  2PCI A;  3KEF A;  1VA0 A;  2HUX A;  2EH4 A;  2DV4 A;  2HUT A;  3TIX B;  1V9A A;  2E08 A;  3UV3 A;  2E07 A;  2EHC A;  3ZGL A;  2E7R A;  2E16 A;  2EHL A;  2PCK A;  2P6L A;  2EH5 A;  2EL1 A;  2PB4 A;  2EL2 A;  2DV5 A;  2E15 A;  2E8Q A;  4EB3 A;  2DV3 A;  2EH2 A;  4N7B A;  2EK3 A;  2E4R A;  1CBF A;  2P5C A;  2E8R A;  2OWF A;  2EKA A;  3KE9 A;  2ZVC A;  2QBU A;  3UTD A;  2PCG A;  3T0G A;  3KEM A;  2EMU A;  3LMM 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...

2ED5A

Total Genus

sequence length

structure length

Chain Sequence

Structure visualization

Chord Diagram

connected with : NaN

pfam database annotations