2D29 | Genus

Total Genus 156

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	156
sequence length	386
structure length	386
Chain Sequence	GLWFEEGAEERQVLGPFREFLKAEVAPGAAERDRTGAFPWDLVRKLAEFGVFGALVPEAYGGAGLSTRLFARMVEAIAYYDGALALTVASHNSLATGHILLAGSEAQKEAFLPKLASGEALGAWGLTEPGSGSDAAALKTKAEKVEGGWRLNGTKQFITQGSVAGVYVVMARTDPPPSPERKHQGISAFAFFRPERGLKVGRKEEKLGLTASDTAQLILEDLFVPEEALLGERGKGFYDVLRVLDGGRIGIAAMAVGLGQAALDYALAYAKGREAFGRPIAEFEGVSFKLAEAATELEAARLLYLKAAELKDAGRPFTLEAAQAKLFASEAAVKACDEAIQILGGYGYVKDYPVERYWRDARLTRIGEGTSEILKLVIARRLLEAV

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__6277236228270855__ initializing

Jmol getValue debug null

Jmol getValue logLevel null

Jmol getValue allowjavascript null

AppletRegistry.checkIn(jmolApplet0__6277236228270855__)

vwrOptions:

{ "name":"jmolApplet0","applet":true,"documentBase":"https://genus.fuw.edu.pl/view/2D29/A/","platform":"J.awtjs2d.Platform","fullName":"jmolApplet0__6277236228270855__","codePath":"https:/static/js/j2s/","display":"jmolApplet0_canvas2d","signedApplet":"true","appletReadyCallback":"Jmol._readyCallback","statusListener":"[J.appletjs.Jmol object]","syncId":"6277236228270855","bgcolor":"white" }

setting document base to "https://genus.fuw.edu.pl/view/2D29/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__6277236228270855__ 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	Oxidoreductase
source organism	Thermus thermophilus
publication title	Structural study on project ID TT0172 from Thermus thermophilus HB8 rcsb
molecule keywords	acyl-CoA dehydrogenase
total genus	156
structure length	386
sequence length	386
chains with identical sequence	B
ec nomenclature
pdb deposition date	2005-09-05

pfam database annotations

chain	Pfam Accession Code	Pfam Family Identifier	Pfam Description
A	PF00441	Acyl-CoA_dh_1	Acyl-CoA dehydrogenase, C-terminal domain
A	PF02770	Acyl-CoA_dh_M	Acyl-CoA dehydrogenase, middle domain
A	PF02771	Acyl-CoA_dh_N	Acyl-CoA dehydrogenase, N-terminal domain

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

cath code	Class	Architecture	Topology	Homology	Domain
1.10.540.10	Mainly Alpha	Orthogonal Bundle	Butyryl-Coa Dehydrogenase, subunit A; domain 1	Acyl-CoA dehydrogenase/oxidase, N-terminal domain	2d29A01
1.20.140.10	Mainly Alpha	Up-down Bundle	Butyryl-CoA Dehydrogenase, subunit A; domain 3	Butyryl-CoA Dehydrogenase, subunit A, domain 3	2d29A03
2.40.110.10	Mainly Beta	Beta Barrel	Butyryl-CoA Dehydrogenase, subunit A; domain 2	Butyryl-CoA Dehydrogenase, subunit A, domain 2	2d29A02

3X0XA 4L3XA 3BNHA 2OR0A 3B96A 3F29A 3MDEA 2D29A 3MKHA 1WS9A 3BNFA 3FCJA 3SWOA 3EOMA 4ZXVA 4ZYJA 4U83A 3X0YA 4DOYA 1IVHA 3MPIA 4X28A 4RM7A 4X28C 4L1FA 2YYKA 1SIQA 3MXLA 3LGQA 2R0MA 4N5FA 2A1TA 3FO3A 3D9GA 3R7KA 2REHA 1EGDA 3OWAA 2Z1QA 3D9FA 4HR3A 4G5EA 3EONA 5K3IA 1EGEA 1FS7A 2OT4A 4KCFA 3BNJA 2CX9A 2JBSA 4Q17A 1R2JA 3HWCA 3MDDA 4Q1OA 4NXLA 3LG1A 3D9EA 2RF7A 3UU9A 1FS9A 1EGCA 2E81A 2RFQA 3II9A 4L3YA 2DVLA 4Q0TA 4JEKA 4L38A 3SXQA 1GU6A 3UBRA 4Q5BA 1SIRA 2ZAFA 2RDZA 4KTOA 2VR0A 2YYIA 2JBRA 2E80A 2JIFA 3S7WA 1OAHA 1BUCA 2C12A 3MMOA 5K3JA 1RX0A 1U8VA 4W9UA 4L3ZA 2DDHA 4M9AA 4XVXA 3NF4A 3D6BA 1QDBA 3D9DA 2UXWA 3P4TA 5K3HA 1JQIA 4IV6A 2IX5A 3M9VA 4P13A 2YYMA 3AFEA 3BNGA 5K3GA 3D1IA 4Q4UA 3RKHA 2JBTA 3AFFA 4WJYA 2FONA 2YYGA 3SCEA 3PFDA 2EBAA 3MPJA 4Q5CA 2IX6A 1T9GA 3TTBA 3GNCA 3GQTA 3L1TA 2YYLA 3OIBA 1IS2A 4OO2A 1UKWA 4IRNA 3GM6A 1FS8A 4O5MA 2PG0A 3TORA 3SF6A 2C0UA 2ZO5A 1UDYA 1W07A 2R0NA 2WBIA 2VIGA 2YYJA 2J7AA 3OWMA
chains in the Genus database with same CATH superfamily

2FP1A 2CJ5A 2BU8A 1K93A 3X0XA 2GBBA 4L3XA 3BNHA 2OR0A 3B96A 5GJVE 2AO2A 5EZ3A 3F29A 3MDEA 2D29A 3MKHA 1WS9A 3BNFA 2Q8HA 3FCJA 4MP7A 2OJQA 3SWOA 2EBHX 3EOMA 4JIOA 4ZXVA 2CJ8A 2CJ4A 2OEXA 5GJWE 4ZYJA 2XS8A 5M4PA 4U83A 1XFXA 1XFZA 4J1VA 3X0YA 4DOYA 1IVHA 3MPIA 4X28A 4RM7A 1Y8NA 1RP3A 5B5VA 1Y0VA 4X28C 4HKRA 4L1FA 2YYKA 1SIQA 4KS9A 4LQQB 2E0AA 3MXLA 3LGQA 3CE2A 2R0MA 1PI1A 1Y8OA 3C3LA 4P79A 4N5FA 2A1TA 3FO3A 2VF1A 4H81A 3D9GA 1K8TA 1XG2B 3R7KA 2REHA 1EGDA 4KSFA 4E00A 4AKIA 1GKXA 1K90A 3OWAA 4H7QA 2Z1QA 2R03A 3D9FA 1S26A 2ZDYA 4HR3A 4AI6A 4V25A 4E01A 3C2PA 4G5EA 3EONA 5K3IA 2ZKJA 2HJNA 1EGEA 1FS7A 2OT4A 4HKSA 3TZ0A 4KCFA 3Q22A 3BNJA 1Y8PA 2CX9A 5B5WA 2JBSA 2PO4A 1XFVA 4FF4A 4Q17A 2Q8FA 1R2JA 3HWCA 4MPNA 3MDDA 4Q1OA 4NXLA 3CRKA 2Q8IA 4QICA 3LG1A 3D9EA 2RF7A 3N0RA 5BRKA 5M4KA 3UU9A 1FS9A 1EGCA 2E81A 2RFQA 3II9A 1XFYA 1SK6A 4L3YA 2DVLA 4V26A 2ZDXA 4Q0TA 1X90A 4JEKA 2R05A 4AKGA 3X29A 1RJ1A 4L38A 3SXQA 1GU6A 3UBRA 4Q5BA 1SIRA 1XFUA 2ZAFA 2RDZA 4KTOA 2XS1A 2VR0A 2EBFX 2YYIA 2JBRA 2E80A 4F0XA 2JIFA 3S7WA 5M4NA 2AZEA 1PK0A 4KSAA 1OAHA 1BUCA 3DJLA 2C12A 3MMOA 5K3JA 3TZ2A 1RX0A 3Q23A 4FF3A 1U8VA 2BU5A 2F6LA 2LFWA 1XFWA 2OEVA 4W9UA 3D2RA 4L3ZA 4FF1A 2QR4A 2DDHA 4M9AA 4XVXA 1GJVA 3NF4A 2BTZA 2Q8GA 2BU2A 3D6BA 1LVCA 3D9DA 1QDBA 1RJ4A 3KMLA 4LQSB 2UXWA 3P4TA 5K3HA 2CJ7A 1JQIA 4FF2A 4IV6A 2IX5A 3M9VA 4JIZA 4H85A 4P13A 2YYMA 3AFEA 3BNGA 5K3GA 3D1IA 2BU6A 4Q4UA 3RKHA 3VKGA 2JBTA 3AFFA 4WJYA 3TZ5A 2FONA 2YYGA 2YGWA 3SCEA 3PFDA 4E02A 2PNRA 3TZ4A 5J71A 2EBAA 3MPJA 1X8ZA 2IX6A 1T9GA 4FZ4A 4Q5CA 3GNCA 3TTBA 2BU7A 3GQTA 5M4MA 3L1TA 2YYLA 2FP2A 4DZYA 5B6BA 3OIBA 1JM6A 1IS2A 1R3BA 4MPCA 4OO2A 5BRMA 3Q0AA 1UKWA 4IRNA 1GKZA 2CJ6A 3CRLA 1FS8A 3GM6A 2XQRB 4O5MA 3Q24A 3C46A 2PG0A 3TORA 4AKHA 3VKHA 2R02A 3U33A 4G97A 3SF6A 2C0UA 5J6AA 2ZO5A 4MP2A 3VADA 2EC5A 1UDYA 1W07A 2R0NA 2WBIA 1X91A 1SC5A 2VIGA 4MPEA 2YYJA 2J7AA 3OWMA
chains in the Genus database with same CATH topology

#chains in the Genus database with same CATH superfamily
 3X0X A;  4L3X A;  3BNH A;  2OR0 A;  3B96 A;  3F29 A;  3MDE A;  2D29 A;  3MKH A;  1WS9 A;  3BNF A;  3FCJ A;  3SWO A;  3EOM A;  4ZXV A;  4ZYJ A;  4U83 A;  3X0Y A;  4DOY A;  1IVH A;  3MPI A;  4X28 A;  4RM7 A;  4X28 C;  4L1F A;  2YYK A;  1SIQ A;  3MXL A;  3LGQ A;  2R0M A;  4N5F A;  2A1T A;  3FO3 A;  3D9G A;  3R7K A;  2REH A;  1EGD A;  3OWA A;  2Z1Q A;  3D9F A;  4HR3 A;  4G5E A;  3EON A;  5K3I A;  1EGE A;  1FS7 A;  2OT4 A;  4KCF A;  3BNJ A;  2CX9 A;  2JBS A;  4Q17 A;  1R2J A;  3HWC A;  3MDD A;  4Q1O A;  4NXL A;  3LG1 A;  3D9E A;  2RF7 A;  3UU9 A;  1FS9 A;  1EGC A;  2E81 A;  2RFQ A;  3II9 A;  4L3Y A;  2DVL A;  4Q0T A;  4JEK A;  4L38 A;  3SXQ A;  1GU6 A;  3UBR A;  4Q5B A;  1SIR A;  2ZAF A;  2RDZ A;  4KTO A;  2VR0 A;  2YYI A;  2JBR A;  2E80 A;  2JIF A;  3S7W A;  1OAH A;  1BUC A;  2C12 A;  3MMO A;  5K3J A;  1RX0 A;  1U8V A;  4W9U A;  4L3Z A;  2DDH A;  4M9A A;  4XVX A;  3NF4 A;  3D6B A;  1QDB A;  3D9D A;  2UXW A;  3P4T A;  5K3H A;  1JQI A;  4IV6 A;  2IX5 A;  3M9V A;  4P13 A;  2YYM A;  3AFE A;  3BNG A;  5K3G A;  3D1I A;  4Q4U A;  3RKH A;  2JBT A;  3AFF A;  4WJY A;  2FON A;  2YYG A;  3SCE A;  3PFD A;  2EBA A;  3MPJ A;  4Q5C A;  2IX6 A;  1T9G A;  3TTB A;  3GNC A;  3GQT A;  3L1T A;  2YYL A;  3OIB A;  1IS2 A;  4OO2 A;  1UKW A;  4IRN A;  3GM6 A;  1FS8 A;  4O5M A;  2PG0 A;  3TOR A;  3SF6 A;  2C0U A;  2ZO5 A;  1UDY A;  1W07 A;  2R0N A;  2WBI A;  2VIG A;  2YYJ A;  2J7A A;  3OWM A; 
#chains in the Genus database with same CATH topology
 2FP1 A;  2CJ5 A;  2BU8 A;  1K93 A;  3X0X A;  2GBB A;  4L3X A;  3BNH A;  2OR0 A;  3B96 A;  5GJV E;  2AO2 A;  5EZ3 A;  3F29 A;  3MDE A;  2D29 A;  3MKH A;  1WS9 A;  3BNF A;  2Q8H A;  3FCJ A;  4MP7 A;  2OJQ A;  3SWO A;  2EBH X;  3EOM A;  4JIO A;  4ZXV A;  2CJ8 A;  2CJ4 A;  2OEX A;  5GJW E;  4ZYJ A;  2XS8 A;  5M4P A;  4U83 A;  1XFX A;  1XFZ A;  4J1V A;  3X0Y A;  4DOY A;  1IVH A;  3MPI A;  4X28 A;  4RM7 A;  1Y8N A;  1RP3 A;  5B5V A;  1Y0V A;  4X28 C;  4HKR A;  4L1F A;  2YYK A;  1SIQ A;  4KS9 A;  4LQQ B;  2E0A A;  3MXL A;  3LGQ A;  3CE2 A;  2R0M A;  1PI1 A;  1Y8O A;  3C3L A;  4P79 A;  4N5F A;  2A1T A;  3FO3 A;  2VF1 A;  4H81 A;  3D9G A;  1K8T A;  1XG2 B;  3R7K A;  2REH A;  1EGD A;  4KSF A;  4E00 A;  4AKI A;  1GKX A;  1K90 A;  3OWA A;  4H7Q A;  2Z1Q A;  2R03 A;  3D9F A;  1S26 A;  2ZDY A;  4HR3 A;  4AI6 A;  4V25 A;  4E01 A;  3C2P A;  4G5E A;  3EON A;  5K3I A;  2ZKJ A;  2HJN A;  1EGE A;  1FS7 A;  2OT4 A;  4HKS A;  3TZ0 A;  4KCF A;  3Q22 A;  3BNJ A;  1Y8P A;  2CX9 A;  5B5W A;  2JBS A;  2PO4 A;  1XFV A;  4FF4 A;  4Q17 A;  2Q8F A;  1R2J A;  3HWC A;  4MPN A;  3MDD A;  4Q1O A;  4NXL A;  3CRK A;  2Q8I A;  4QIC A;  3LG1 A;  3D9E A;  2RF7 A;  3N0R A;  5BRK A;  5M4K A;  3UU9 A;  1FS9 A;  1EGC A;  2E81 A;  2RFQ A;  3II9 A;  1XFY A;  1SK6 A;  4L3Y A;  2DVL A;  4V26 A;  2ZDX A;  4Q0T A;  1X90 A;  4JEK A;  2R05 A;  4AKG A;  3X29 A;  1RJ1 A;  4L38 A;  3SXQ A;  1GU6 A;  3UBR A;  4Q5B A;  1SIR A;  1XFU A;  2ZAF A;  2RDZ A;  4KTO A;  2XS1 A;  2VR0 A;  2EBF X;  2YYI A;  2JBR A;  2E80 A;  4F0X A;  2JIF A;  3S7W A;  5M4N A;  2AZE A;  1PK0 A;  4KSA A;  1OAH A;  1BUC A;  3DJL A;  2C12 A;  3MMO A;  5K3J A;  3TZ2 A;  1RX0 A;  3Q23 A;  4FF3 A;  1U8V A;  2BU5 A;  2F6L A;  2LFW A;  1XFW A;  2OEV A;  4W9U A;  3D2R A;  4L3Z A;  4FF1 A;  2QR4 A;  2DDH A;  4M9A A;  4XVX A;  1GJV A;  3NF4 A;  2BTZ A;  2Q8G A;  2BU2 A;  3D6B A;  1LVC A;  3D9D A;  1QDB A;  1RJ4 A;  3KML A;  4LQS B;  2UXW A;  3P4T A;  5K3H A;  2CJ7 A;  1JQI A;  4FF2 A;  4IV6 A;  2IX5 A;  3M9V A;  4JIZ A;  4H85 A;  4P13 A;  2YYM A;  3AFE A;  3BNG A;  5K3G A;  3D1I A;  2BU6 A;  4Q4U A;  3RKH A;  3VKG A;  2JBT A;  3AFF A;  4WJY A;  3TZ5 A;  2FON A;  2YYG A;  2YGW A;  3SCE A;  3PFD A;  4E02 A;  2PNR A;  3TZ4 A;  5J71 A;  2EBA A;  3MPJ A;  1X8Z A;  2IX6 A;  1T9G A;  4FZ4 A;  4Q5C A;  3GNC A;  3TTB A;  2BU7 A;  3GQT A;  5M4M A;  3L1T A;  2YYL A;  2FP2 A;  4DZY A;  5B6B A;  3OIB A;  1JM6 A;  1IS2 A;  1R3B A;  4MPC A;  4OO2 A;  5BRM A;  3Q0A A;  1UKW A;  4IRN A;  1GKZ A;  2CJ6 A;  3CRL A;  1FS8 A;  3GM6 A;  2XQR B;  4O5M A;  3Q24 A;  3C46 A;  2PG0 A;  3TOR A;  4AKH A;  3VKH A;  2R02 A;  3U33 A;  4G97 A;  3SF6 A;  2C0U A;  5J6A A;  2ZO5 A;  4MP2 A;  3VAD A;  2EC5 A;  1UDY A;  1W07 A;  2R0N A;  2WBI A;  1X91 A;  1SC5 A;  2VIG A;  4MPE A;  2YYJ A;  2J7A A;  3OWM A; 
#chains in the Genus database with same CATH homology
 3X0X A;  4L3X A;  3BNH A;  2OR0 A;  3B96 A;  3F29 A;  3MDE A;  2D29 A;  3MKH A;  1WS9 A;  3BNF A;  3FCJ A;  3SWO A;  3EOM A;  4ZXV A;  4ZYJ A;  4U83 A;  3X0Y A;  4DOY A;  1IVH A;  3MPI A;  4X28 A;  4RM7 A;  4X28 C;  4L1F A;  2YYK A;  1SIQ A;  3MXL A;  3LGQ A;  2R0M A;  4N5F A;  2A1T A;  3FO3 A;  3D9G A;  3R7K A;  2REH A;  1EGD A;  3OWA A;  2Z1Q A;  3D9F A;  4HR3 A;  4G5E A;  3EON A;  5K3I A;  1EGE A;  1FS7 A;  2OT4 A;  4KCF A;  3BNJ A;  2CX9 A;  2JBS A;  4Q17 A;  1R2J A;  3HWC A;  3MDD A;  4Q1O A;  4NXL A;  3LG1 A;  3D9E A;  2RF7 A;  3UU9 A;  1FS9 A;  1EGC A;  2E81 A;  2RFQ A;  3II9 A;  4L3Y A;  2DVL A;  4Q0T A;  4JEK A;  4L38 A;  3SXQ A;  1GU6 A;  3UBR A;  4Q5B A;  1SIR A;  2ZAF A;  2RDZ A;  4KTO A;  2VR0 A;  2YYI A;  2JBR A;  2E80 A;  2JIF A;  3S7W A;  1OAH A;  1BUC A;  2C12 A;  3MMO A;  5K3J A;  1RX0 A;  1U8V A;  4W9U A;  4L3Z A;  2DDH A;  4M9A A;  4XVX A;  3NF4 A;  3D6B A;  1QDB A;  3D9D A;  2UXW A;  3P4T A;  5K3H A;  1JQI A;  4IV6 A;  2IX5 A;  3M9V A;  4P13 A;  2YYM A;  3AFE A;  3BNG A;  5K3G A;  3D1I A;  4Q4U A;  3RKH A;  2JBT A;  3AFF A;  4WJY A;  2FON A;  2YYG A;  3SCE A;  3PFD A;  2EBA A;  3MPJ A;  4Q5C A;  2IX6 A;  1T9G A;  3TTB A;  3GNC A;  3GQT A;  3L1T A;  2YYL A;  3OIB A;  1IS2 A;  4OO2 A;  1UKW A;  4IRN A;  3GM6 A;  1FS8 A;  4O5M A;  2PG0 A;  3TOR A;  3SF6 A;  2C0U A;  2ZO5 A;  1UDY A;  1W07 A;  2R0N A;  2WBI A;  2VIG A;  2YYJ A;  2J7A A;  3OWM 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...

2D29A

Total Genus

sequence length

structure length

Chain Sequence

Structure visualization

Chord Diagram

connected with : NaN

pfam database annotations