5D5D | Genus

Total Genus 129

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	129
sequence length	451
structure length	403
Chain Sequence	KNFGLDVKITGESENDRDLGTAPGGTLNDIGIDLRPWAFGQWGDWSAYFMGQAVAATDKSYLAAREFWVDYAGLTAYPGEHLRFGRQRLREDSGQWQDTNIEALNWSFETTLLNAHAGVAQRFSEYRTKDRTHVFGDISTQWAPHHRIGVRIHHADDSGHLRRPGEEVDNLDKTYTGQLTWLGIEATGDAYNYRSSMPLNYWASATWLTGDRDNLTTTTVDDRRIATGKQSGDVNAFGVDLGLRWNIDEQWKAGVGYARGSGGGKDGEEQFQQTGLESNRSNFTGTRSRVHRFGEAFRGELSNLQAATLFGSWQLREDYDASLVYHKFWRVDDDSDIGTSGINAALQPGEKDIGQELDLVVTKYFKQSALIRFRGGLFKPGDAYGPGTDSTMHRAFVDFIWRF

Loading diagram...

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__195347297932646__ initializing

Jmol getValue debug null

Jmol getValue logLevel null

Jmol getValue allowjavascript null

AppletRegistry.checkIn(jmolApplet0__195347297932646__)

vwrOptions:

{ "name":"jmolApplet0","applet":true,"documentBase":"https://genus.fuw.edu.pl/view/5D5D/A/","platform":"J.awtjs2d.Platform","fullName":"jmolApplet0__195347297932646__","codePath":"https:/static/js/j2s/","display":"jmolApplet0_canvas2d","signedApplet":"true","appletReadyCallback":"Jmol._readyCallback","statusListener":"[J.appletjs.Jmol object]","syncId":"195347297932646","bgcolor":"white" }

setting document base to "https://genus.fuw.edu.pl/view/5D5D/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__195347297932646__ 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	Transport protein
source organism	Pseudomonas aeruginosa (strain atcc 15692 / pao1 / 1c / prs 101 / lmg 12228)
publication title	In meso in situ serial X-ray crystallography of soluble and membrane proteins at cryogenic temperatures. pubmed doi rcsb
molecule keywords	Alginate production protein AlgE
total genus	129
structure length	403
sequence length	451
ec nomenclature
pdb deposition date	2015-08-10

pfam database annotations

chain	Pfam Accession Code	Pfam Family Identifier	Pfam Description
A	PF13372	Alginate_exp	Alginate export

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

cath code	Class	Architecture	Topology	Homology	Domain
2.40.160.100	Mainly Beta	Beta Barrel	Porin	Porin	5d5dA00

3RBHA 4AZLA 4XNLA 5IYUA 5D5DA 4AFKA 4B61A 4XNKA
chains in the Genus database with same CATH superfamily

3DWNA 2F1TA 1BXWA 1ORMA 3SY9A 3POXA 1G90A 2XE3A 3AA1B 4FSOA 2WJQA 3LK3A 3LK2A 2XE1A 4RL9A 4N58A 4N59A 1GFNA 1Q9FA 2R89A 4LSFA 3UAQA 4D5UA 2XTQA 3LK3B 2GE4A 5PRNA 1IZNB 4GCQA 2KZ7A 2R4LA 2LFUA 3AA6B 5GTIO 2JQYA 3PQSA 3PRNA 2KZ7B 2LHFA 4XNLA 1MPFA 5G3AA 3C5OA 1ZHWA 3GP6A 1ZHYA 3NSGA 4FMSA 1OSMA 2J1NA 2Y0KA 3LK42 2WJRA 2KC0A 4KR4A 4B61A 4O3ZA 1GFOA 2XG6A 3HOLA 5AFUK 3UPGA 2OMFA 4FRXA 5TISO 5JDPA 3HW9A 3SYSA 3O0EA 3FYXA 1MM5A 1THQA 1OPFA 4AYDC 3DA3A 3AA0A 4FESA 4KR8A 3BRZA 7PRNA 2Y7SA 5GTHO 4PUXA 1BH3A 5B5EO 1ZHXA 3AA0B 4C4VA 4QQ1A 3VY8X 2KXPA 2MNHA 2R4NA 3BRYA 4XNKA 5KAFO 3EMNX 2O4VA 4K3CA 3VE1A 4C4VB 5AFUL 5H2FO 2XE5A 4AYID 2KXPB 2XE2A 4U9CA 4K3BA 3SZDA 3VZWX 1PHOA 2Y0LA 3LK2B 4LSEA 4FT6A 3VZTX 3QRAA 3WI4A 1P4TA 3K19A 4FRTA 2R4OA 1HXTA 2PRNA 2XMXA 2R8AA 1Q9GA 1T16A 4AUIA 2J4UP 1S5LO 2X9KA 5ADXL 3SY7A 2K0LA 1GFMA 1MM4A 4GF4A 4JCHA 2FGQX 3RBHA 4GCSA 1QJ9A 3JTYA 1ZHTA 2IWVA 2JMMA 5DL8A 3WU2O 4FZNA 1ZHZA 4G75A 4O4XA 3HWBA 8PRNA 4AZLA 2IWWA 3HOEA 3A0BO 4UB6O 5T5FA 3AAAA 3LK41 4FUVA 4F4BA 3NJTA 4RJXA 5ADXK 3AAAB 2W80C 3SZVA 5G26A 5G38A 1T1LA 1H6S1 4FSPA 3SYBA 5E79O 2R88A 2YNKA 4JFBA 4FZLA 4E1SA 2K4TA 2R4PA 4D65A 1E54A 3PQUA 5B66O 3KVDD 1BT9A 3VY9X 3T20A 4N75A 3DZMA 4PR7A 4E1TA 2KDYA 3V8UA 2N2MA 2X27X 4C00A 3UU2A 4RLCA 1YS5A 5D5DA 3POQA 4PJ0O 2ODJA 3T0SA 3POUA 3PF1A 4N74A 3AA7A 4O4UA 4GHBA 2ZLDA 3A0HO 4LSIA 4CTDA 3AA1A 1GFQA 2M07A 2PORA 3A2SX 2FGRA 3AA7B 2Y0HA 4G76A 4O49A 1GFPA 4O3YA 4RJWA 2ZFGA 5DL7A 4UB8O 2QTKA 3PGSA 1IZNA 3G7GA 3BS0A 4BUMX 2YPVA 4RLBA 4IL6O 1QJPA 4KRAA 3AA6A 3DA4A 1HXXA 3T24A 4FOZA 3AAEA 1QJ8A 3TZGA 3WI5A 4O3WA 2XTRA 2N2LA 5G39A 2ERVA 4AYMC 2AXTO 3AAEB 3KZIO 4AKRA 4Z3TA 3JCUO 3VE2A 3VZUX 2MHLA 5DL5A 2W81C 4AFKA 4C69X 5IYUA 5KAIO 2F1CX 6PRNA 4AKRB 4FQEA 3PGUA 4AYEC 2WVPA 4FZMA 4GCPA 1PRNA 2Y2XA 2F1VA 2M06A 3DWOX 5EE2A 5GV0A 1HXUA 4O3XB 4AYNA 3QRCA 3PGRA 5FVNA 3PORA 4D64A 4AKMA 4LSHA 5DL6A
chains in the Genus database with same CATH topology

2F1TA 1BXWA 1ORMA 3SY9A 3POXA 1G90A 2XE3A 3AA1B 4FSOA 3LK3A 3LK2A 2XE1A 4RL9A 4N58A 4N59A 1GFNA 1Q9FA 4LSFA 3UAQA 4D5UA 2XTQA 3LK3B 2GE4A 5PRNA 1IZNB 4GCQA 2KZ7A 2LFUA 3AA6B 3PQSA 3PRNA 2KZ7B 2LHFA 4XNLA 1MPFA 3C5OA 1ZHWA 3GP6A 1ZHYA 3NSGA 4FMSA 1OSMA 2J1NA 2Y0KA 3LK42 4KR4A 2KC0A 4B61A 4F4BA 4O3ZA 1GFOA 2XG6A 3HOLA 5AFUK 3UPGA 2OMFA 4FRXA 5JDPA 3HW9A 3SYSA 3O0EA 3FYXA 1MM5A 1THQA 1OPFA 4AYDC 3DA3A 3AA0A 4FESA 4KR8A 7PRNA 2Y7SA 4PUXA 1BH3A 1ZHXA 3AA0B 4QQ1A 3VY8X 2KXPA 2MNHA 4XNKA 3VE1A 3EMNX 2O4VA 5AFUL 2XE5A 4AYID 2KXPB 2XE2A 4U9CA 3SZDA 3VZWX 1PHOA 2Y0LA 3LK2B 4LSEA 4FT6A 3VZTX 3QRAA 3WI4A 1P4TA 3K19A 4FRTA 1HXTA 2PRNA 2XMXA 1Q9GA 4AUIA 2J4UP 5ADXL 3SY7A 2K0LA 1GFMA 1MM4A 4GF4A 4JCHA 2FGQX 3RBHA 4GCSA 1QJ9A 3JTYA 1ZHTA 5DL8A 2JMMA 4FZNA 1ZHZA 4G75A 4O4XA 3HWBA 8PRNA 4AZLA 3HOEA 5T5FA 3AAAA 3LK41 4FUVA 4RJXA 5ADXK 3AAAB 2W80C 3SZVA 5G26A 1H6S1 4FSPA 3SYBA 2YNKA 4JFBA 4FZLA 4E1SA 2K4TA 4D65A 1E54A 3PQUA 3KVDD 1BT9A 3VY9X 3T20A 4E1TA 2KDYA 3V8UA 2N2MA 2X27X 3UU2A 4RLCA 1YS5A 5D5DA 3POQA 2ODJA 3T0SA 3POUA 4O4UA 3AA7A 4GHBA 2ZLDA 4LSIA 3AA1A 1GFQA 2M07A 2PORA 3A2SX 2FGRA 3AA7B 2Y0HA 4G76A 4O49A 1GFPA 4O3YA 4RJWA 2ZFGA 5DL7A 2QTKA 1IZNA 3G7GA 4BUMX 2YPVA 4RLBA 1QJPA 4KRAA 3AA6A 3DA4A 1HXXA 3T24A 4FOZA 3AAEA 1QJ8A 3TZGA 3WI5A 4O3WA 2XTRA 2N2LA 2ERVA 4AYMC 3AAEB 4AKRA 4Z3TA 3VE2A 3VZUX 5IYUA 2MHLA 5DL5A 2W81C 4AFKA 4C69X 6PRNA 4AKRB 4AYEC 4FZMA 4GCPA 1PRNA 2Y2XA 2F1VA 2M06A 5EE2A 5GV0A 1HXUA 4O3XB 4AYNA 3QRCA 5FVNA 3PORA 4D64A 4AKMA 4LSHA 5DL6A
chains in the Genus database with same CATH homology

#chains in the Genus database with same CATH superfamily
 3RBH A;  4AZL A;  4XNL A;  5IYU A;  5D5D A;  4AFK A;  4B61 A;  4XNK A; 
#chains in the Genus database with same CATH topology
 3DWN A;  2F1T A;  1BXW A;  1ORM A;  3SY9 A;  3POX A;  1G90 A;  2XE3 A;  3AA1 B;  4FSO A;  2WJQ A;  3LK3 A;  3LK2 A;  2XE1 A;  4RL9 A;  4N58 A;  4N59 A;  1GFN A;  1Q9F A;  2R89 A;  4LSF A;  3UAQ A;  4D5U A;  2XTQ A;  3LK3 B;  2GE4 A;  5PRN A;  1IZN B;  4GCQ A;  2KZ7 A;  2R4L A;  2LFU A;  3AA6 B;  5GTI O;  2JQY A;  3PQS A;  3PRN A;  2KZ7 B;  2LHF A;  4XNL A;  1MPF A;  5G3A A;  3C5O A;  1ZHW A;  3GP6 A;  1ZHY A;  3NSG A;  4FMS A;  1OSM A;  2J1N A;  2Y0K A;  3LK4 2;  2WJR A;  2KC0 A;  4KR4 A;  4B61 A;  4O3Z A;  1GFO A;  2XG6 A;  3HOL A;  5AFU K;  3UPG A;  2OMF A;  4FRX A;  5TIS O;  5JDP A;  3HW9 A;  3SYS A;  3O0E A;  3FYX A;  1MM5 A;  1THQ A;  1OPF A;  4AYD C;  3DA3 A;  3AA0 A;  4FES A;  4KR8 A;  3BRZ A;  7PRN A;  2Y7S A;  5GTH O;  4PUX A;  1BH3 A;  5B5E O;  1ZHX A;  3AA0 B;  4C4V A;  4QQ1 A;  3VY8 X;  2KXP A;  2MNH A;  2R4N A;  3BRY A;  4XNK A;  5KAF O;  3EMN X;  2O4V A;  4K3C A;  3VE1 A;  4C4V B;  5AFU L;  5H2F O;  2XE5 A;  4AYI D;  2KXP B;  2XE2 A;  4U9C A;  4K3B A;  3SZD A;  3VZW X;  1PHO A;  2Y0L A;  3LK2 B;  4LSE A;  4FT6 A;  3VZT X;  3QRA A;  3WI4 A;  1P4T A;  3K19 A;  4FRT A;  2R4O A;  1HXT A;  2PRN A;  2XMX A;  2R8A A;  1Q9G A;  1T16 A;  4AUI A;  2J4U P;  1S5L O;  2X9K A;  5ADX L;  3SY7 A;  2K0L A;  1GFM A;  1MM4 A;  4GF4 A;  4JCH A;  2FGQ X;  3RBH A;  4GCS A;  1QJ9 A;  3JTY A;  1ZHT A;  2IWV A;  2JMM A;  5DL8 A;  3WU2 O;  4FZN A;  1ZHZ A;  4G75 A;  4O4X A;  3HWB A;  8PRN A;  4AZL A;  2IWW A;  3HOE A;  3A0B O;  4UB6 O;  5T5F A;  3AAA A;  3LK4 1;  4FUV A;  4F4B A;  3NJT A;  4RJX A;  5ADX K;  3AAA B;  2W80 C;  3SZV A;  5G26 A;  5G38 A;  1T1L A;  1H6S 1;  4FSP A;  3SYB A;  5E79 O;  2R88 A;  2YNK A;  4JFB A;  4FZL A;  4E1S A;  2K4T A;  2R4P A;  4D65 A;  1E54 A;  3PQU A;  5B66 O;  3KVD D;  1BT9 A;  3VY9 X;  3T20 A;  4N75 A;  3DZM A;  4PR7 A;  4E1T A;  2KDY A;  3V8U A;  2N2M A;  2X27 X;  4C00 A;  3UU2 A;  4RLC A;  1YS5 A;  5D5D A;  3POQ A;  4PJ0 O;  2ODJ A;  3T0S A;  3POU A;  3PF1 A;  4N74 A;  3AA7 A;  4O4U A;  4GHB A;  2ZLD A;  3A0H O;  4LSI A;  4CTD A;  3AA1 A;  1GFQ A;  2M07 A;  2POR A;  3A2S X;  2FGR A;  3AA7 B;  2Y0H A;  4G76 A;  4O49 A;  1GFP A;  4O3Y A;  4RJW A;  2ZFG A;  5DL7 A;  4UB8 O;  2QTK A;  3PGS A;  1IZN A;  3G7G A;  3BS0 A;  4BUM X;  2YPV A;  4RLB A;  4IL6 O;  1QJP A;  4KRA A;  3AA6 A;  3DA4 A;  1HXX A;  3T24 A;  4FOZ A;  3AAE A;  1QJ8 A;  3TZG A;  3WI5 A;  4O3W A;  2XTR A;  2N2L A;  5G39 A;  2ERV A;  4AYM C;  2AXT O;  3AAE B;  3KZI O;  4AKR A;  4Z3T A;  3JCU O;  3VE2 A;  3VZU X;  2MHL A;  5DL5 A;  2W81 C;  4AFK A;  4C69 X;  5IYU A;  5KAI O;  2F1C X;  6PRN A;  4AKR B;  4FQE A;  3PGU A;  4AYE C;  2WVP A;  4FZM A;  4GCP A;  1PRN A;  2Y2X A;  2F1V A;  2M06 A;  3DWO X;  5EE2 A;  5GV0 A;  1HXU A;  4O3X B;  4AYN A;  3QRC A;  3PGR A;  5FVN A;  3POR A;  4D64 A;  4AKM A;  4LSH A;  5DL6 A; 
#chains in the Genus database with same CATH homology
 2F1T A;  1BXW A;  1ORM A;  3SY9 A;  3POX A;  1G90 A;  2XE3 A;  3AA1 B;  4FSO A;  3LK3 A;  3LK2 A;  2XE1 A;  4RL9 A;  4N58 A;  4N59 A;  1GFN A;  1Q9F A;  4LSF A;  3UAQ A;  4D5U A;  2XTQ A;  3LK3 B;  2GE4 A;  5PRN A;  1IZN B;  4GCQ A;  2KZ7 A;  2LFU A;  3AA6 B;  3PQS A;  3PRN A;  2KZ7 B;  2LHF A;  4XNL A;  1MPF A;  3C5O A;  1ZHW A;  3GP6 A;  1ZHY A;  3NSG A;  4FMS A;  1OSM A;  2J1N A;  2Y0K A;  3LK4 2;  4KR4 A;  2KC0 A;  4B61 A;  4F4B A;  4O3Z A;  1GFO A;  2XG6 A;  3HOL A;  5AFU K;  3UPG A;  2OMF A;  4FRX A;  5JDP A;  3HW9 A;  3SYS A;  3O0E A;  3FYX A;  1MM5 A;  1THQ A;  1OPF A;  4AYD C;  3DA3 A;  3AA0 A;  4FES A;  4KR8 A;  7PRN A;  2Y7S A;  4PUX A;  1BH3 A;  1ZHX A;  3AA0 B;  4QQ1 A;  3VY8 X;  2KXP A;  2MNH A;  4XNK A;  3VE1 A;  3EMN X;  2O4V A;  5AFU L;  2XE5 A;  4AYI D;  2KXP B;  2XE2 A;  4U9C A;  3SZD A;  3VZW X;  1PHO A;  2Y0L A;  3LK2 B;  4LSE A;  4FT6 A;  3VZT X;  3QRA A;  3WI4 A;  1P4T A;  3K19 A;  4FRT A;  1HXT A;  2PRN A;  2XMX A;  1Q9G A;  4AUI A;  2J4U P;  5ADX L;  3SY7 A;  2K0L A;  1GFM A;  1MM4 A;  4GF4 A;  4JCH A;  2FGQ X;  3RBH A;  4GCS A;  1QJ9 A;  3JTY A;  1ZHT A;  5DL8 A;  2JMM A;  4FZN A;  1ZHZ A;  4G75 A;  4O4X A;  3HWB A;  8PRN A;  4AZL A;  3HOE A;  5T5F A;  3AAA A;  3LK4 1;  4FUV A;  4RJX A;  5ADX K;  3AAA B;  2W80 C;  3SZV A;  5G26 A;  1H6S 1;  4FSP A;  3SYB A;  2YNK A;  4JFB A;  4FZL A;  4E1S A;  2K4T A;  4D65 A;  1E54 A;  3PQU A;  3KVD D;  1BT9 A;  3VY9 X;  3T20 A;  4E1T A;  2KDY A;  3V8U A;  2N2M A;  2X27 X;  3UU2 A;  4RLC A;  1YS5 A;  5D5D A;  3POQ A;  2ODJ A;  3T0S A;  3POU A;  4O4U A;  3AA7 A;  4GHB A;  2ZLD A;  4LSI A;  3AA1 A;  1GFQ A;  2M07 A;  2POR A;  3A2S X;  2FGR A;  3AA7 B;  2Y0H A;  4G76 A;  4O49 A;  1GFP A;  4O3Y A;  4RJW A;  2ZFG A;  5DL7 A;  2QTK A;  1IZN A;  3G7G A;  4BUM X;  2YPV A;  4RLB A;  1QJP A;  4KRA A;  3AA6 A;  3DA4 A;  1HXX A;  3T24 A;  4FOZ A;  3AAE A;  1QJ8 A;  3TZG A;  3WI5 A;  4O3W A;  2XTR A;  2N2L A;  2ERV A;  4AYM C;  3AAE B;  4AKR A;  4Z3T A;  3VE2 A;  3VZU X;  5IYU A;  2MHL A;  5DL5 A;  2W81 C;  4AFK A;  4C69 X;  6PRN A;  4AKR B;  4AYE C;  4FZM A;  4GCP A;  1PRN A;  2Y2X A;  2F1V A;  2M06 A;  5EE2 A;  5GV0 A;  1HXU A;  4O3X B;  4AYN A;  3QRC A;  5FVN A;  3POR A;  4D64 A;  4AKM A;  4LSH A;  5DL6 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...

5D5DA

Total Genus

sequence length

structure length

Chain Sequence

Structure visualization

Chord Diagram

connected with : NaN

pfam database annotations