4AUQ | Genus

Total Genus 42

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	42
sequence length	146
structure length	146
Chain Sequence	ALKRIHKELNDLARDPPAQCRAGPVGDDMFHWQATIMGPNDSPYQGGVFFLTIHFPTDYPFKPPKVAFTTRIYHPAINSNGSISLDILRSQWSPALTISKVLLSICSLLCDPNPDDPLVPEIARIYKTDREKYNRIAREWTQKYAM

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

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Viewer cachePut cache://localLOAD_/file/5d0386b744e66e6a205dd46f/pdb.gz

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loadScript /static/js/j2s/core/corezip.z.js

The Resolver thinks Pdb

loadScript /static/js/j2s/core/corebio.z.js

Time for openFile(/file/5d0386b744e66e6a205dd46f/pdb.gz): 1221 ms

reading 146 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

146 atoms created

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

Time for creating model: 22 ms

Adding embedded #jmolscript: select ({0:145});backbone only;select *;

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	Ligase/ligase/signalling protein
source organism	Homo sapiens
publication title	Birc7-E2 Ubiquitin Conjugate Structure Reveals the Mechanism of Ubiquitin Transfer by a Ring Dimer. pubmed doi rcsb
molecule keywords	UBIQUITIN-CONJUGATING ENZYME E2 D2
total genus	42
structure length	146
sequence length	146
chains with identical sequence	D
ec nomenclature	ec 2.3.2.23: E2 ubiquitin-conjugating enzyme.
pdb deposition date	2012-05-21

pfam database annotations

chain	Pfam Accession Code	Pfam Family Identifier	Pfam Description
A	PF00179	UQ_con	Ubiquitin-conjugating enzyme

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

cath code	Class	Architecture	Topology	Homology	Domain
3.10.110.10	Alpha Beta	Roll	Ubiquitin Conjugating Enzyme	Ubiquitin Conjugating Enzyme	4auqA00

1KPSA 3H8KA 2MT6A 4DDGA 4V3KA 2DMFA 1AYZA 2F4WA 5EGGA 1JBBA 2LXPA 2Z5DA 1YRVA 3UIOA 2GMIB 1KPQA 2Z6PA 2GMIA 3K9OA 3L1YA 5D1KA 3EB6B 4LADA 5F6XA 2CLWB 2OXQA 5IFRA 4ONMB 1YF9A 2CLWA 2Z6OA 4EJEA 4Y1LA 4ONMA 5F6YA 4II2C 5AITD 1J7DB 5KNLC 1J7DA 2YBFA 4JUEA 4V3LA 3F92A 1YH2A 3L1ZA 1ZGUA 2H2YA 4Y1LC 5D0KA 4ZNYA 3SY2C 1U9BA 3TGDA 2VRRA 3VONB 1JATB 3BZHA 3ONGB 2AYVA 1S1QA 4A4CC 1JATA 3PTFA 1WZWA 2YB6A 1JASA 5D1MA 4ONLB 2YZ0A 4M1NA 4WZ3A 3RCZB 3UIPA 2EDIA 3FSHA 4NRIB 3VONC 1Y6LA 2UCZA 1UKXA 2NVUC 3HCTB 2KJHA 2PWQA 2Q0VA 3JVZA 3OBXA 1Q34A 4BWFA 3K9PA 4DDIA 4L83A 2Y9PA 3R42A 2GRRA 1TTEA 2BF8A 3O2UA 3R3QA 4P5OG 2Y9MA 3UINA 1Y8XA 5HPTC 1UZXA 3CEGA 4A4BC 2HLWA 2A4DA 5JNEB 2QGXA 5D0MA 2AAKA 2A7LA 4W5VA 5F6WA 2FUHA 3WE5A 1FBVC 2OB4A 2GROA 5FERB 1W4UA 2R0JA 5FQ2A 3P9GA 3OJ4A 4LDTC 4ONLA 4FH1A 5AITB 4NRIA 3ZNIC 3RZ3A 4R62A 4YC1A 2AWFA 1KPPA 2F4ZA 1U9AA 1YLAA 1Z3DA 1A3SA 2BEPA 3JW0A 4Q5HC 5DFLA 1Z2UA 5F6EA 2KLYA 5AIUB 3UGBA 4DHJC 2ESOA 4S3OA 2ESPA 1X23A 2ESQA 2XWUA 4Q5EC 3RPGA 4GPRA 4QPLB 3EVXA 1C4ZD 1WZVA 2K07A 2O25A 4DHID 4NR3B 2C4PA 4NR3A 2PE6A 4AUQA 4A49B 3SQVC 2DAYA 5F6VA 4MDKA 2O25C 1J74A 1M4QA 1ZDNA 3E95A 1QCQA 4DS2A 3E46A 5D1LA 1FXTA 3OBUA 2YHOB 1ZUOA 4YIIU 2EBMA 2PX9B 4ONNB 3E95C 1I7KA 4AP4B 1PZVA 4ONNA 4BVUB 4JQUA 2ONUA 3A33A 5F6DA 4CCGA 2C2VB 2DAWA 2DAXA 2E2CA 3P9HA 3FN1B 4IP3B 3HCUB 4NRGB 2EKEA 3ZQSA 2GJDA 2EBKA 2GRPA 2F0RA 3KPAA 4NRGA 2GRQA 5AIEB 4X57A 5F6UA 3W31B 3A4SA 1FZYA 2CYXA 2C2VC 4TKPA 4DHZF 1Z5SA 2ESKA 2Y4WA 2FO3A 3OBQA 5D2MA 2GRNA 3OBSA 1M4PA 2UYZA
chains in the Genus database with same CATH superfamily

#chains in the Genus database with same CATH superfamily
 1KPS A;  3H8K A;  2MT6 A;  4DDG A;  4V3K A;  2DMF A;  1AYZ A;  2F4W A;  5EGG A;  1JBB A;  2LXP A;  2Z5D A;  1YRV A;  3UIO A;  2GMI B;  1KPQ A;  2Z6P A;  2GMI A;  3K9O A;  3L1Y A;  5D1K A;  3EB6 B;  4LAD A;  5F6X A;  2CLW B;  2OXQ A;  5IFR A;  4ONM B;  1YF9 A;  2CLW A;  2Z6O A;  4EJE A;  4Y1L A;  4ONM A;  5F6Y A;  4II2 C;  5AIT D;  1J7D B;  5KNL C;  1J7D A;  2YBF A;  4JUE A;  4V3L A;  3F92 A;  1YH2 A;  3L1Z A;  1ZGU A;  2H2Y A;  4Y1L C;  5D0K A;  4ZNY A;  3SY2 C;  1U9B A;  3TGD A;  2VRR A;  3VON B;  1JAT B;  3BZH A;  3ONG B;  2AYV A;  1S1Q A;  4A4C C;  1JAT A;  3PTF A;  1WZW A;  2YB6 A;  1JAS A;  5D1M A;  4ONL B;  2YZ0 A;  4M1N A;  4WZ3 A;  3RCZ B;  3UIP A;  2EDI A;  3FSH A;  4NRI B;  3VON C;  1Y6L A;  2UCZ A;  1UKX A;  2NVU C;  3HCT B;  2KJH A;  2PWQ A;  2Q0V A;  3JVZ A;  3OBX A;  1Q34 A;  4BWF A;  3K9P A;  4DDI A;  4L83 A;  2Y9P A;  3R42 A;  2GRR A;  1TTE A;  2BF8 A;  3O2U A;  3R3Q A;  4P5O G;  2Y9M A;  3UIN A;  1Y8X A;  5HPT C;  1UZX A;  3CEG A;  4A4B C;  2HLW A;  2A4D A;  5JNE B;  2QGX A;  5D0M A;  2AAK A;  2A7L A;  4W5V A;  5F6W A;  2FUH A;  3WE5 A;  1FBV C;  2OB4 A;  2GRO A;  5FER B;  1W4U A;  2R0J A;  5FQ2 A;  3P9G A;  3OJ4 A;  4LDT C;  4ONL A;  4FH1 A;  5AIT B;  4NRI A;  3ZNI C;  3RZ3 A;  4R62 A;  4YC1 A;  2AWF A;  1KPP A;  2F4Z A;  1U9A A;  1YLA A;  1Z3D A;  1A3S A;  2BEP A;  3JW0 A;  4Q5H C;  5DFL A;  1Z2U A;  5F6E A;  2KLY A;  5AIU B;  3UGB A;  4DHJ C;  2ESO A;  4S3O A;  2ESP A;  1X23 A;  2ESQ A;  2XWU A;  4Q5E C;  3RPG A;  4GPR A;  4QPL B;  3EVX A;  1C4Z D;  1WZV A;  2K07 A;  2O25 A;  4DHI D;  4NR3 B;  2C4P A;  4NR3 A;  2PE6 A;  4AUQ A;  4A49 B;  3SQV C;  2DAY A;  5F6V A;  4MDK A;  2O25 C;  1J74 A;  1M4Q A;  1ZDN A;  3E95 A;  1QCQ A;  4DS2 A;  3E46 A;  5D1L A;  1FXT A;  3OBU A;  2YHO B;  1ZUO A;  4YII U;  2EBM A;  2PX9 B;  4ONN B;  3E95 C;  1I7K A;  4AP4 B;  1PZV A;  4ONN A;  4BVU B;  4JQU A;  2ONU A;  3A33 A;  5F6D A;  4CCG A;  2C2V B;  2DAW A;  2DAX A;  2E2C A;  3P9H A;  3FN1 B;  4IP3 B;  3HCU B;  4NRG B;  2EKE A;  3ZQS A;  2GJD A;  2EBK A;  2GRP A;  2F0R A;  3KPA A;  4NRG A;  2GRQ A;  5AIE B;  4X57 A;  5F6U A;  3W31 B;  3A4S A;  1FZY A;  2CYX A;  2C2V C;  4TKP A;  4DHZ F;  1Z5S A;  2ESK A;  2Y4W A;  2FO3 A;  3OBQ A;  5D2M A;  2GRN A;  3OBS A;  1M4P A;  2UYZ A; 
#chains in the Genus database with same CATH topology
 1KPS A;  3H8K A;  2MT6 A;  4DDG A;  4V3K A;  2DMF A;  1AYZ A;  2F4W A;  5EGG A;  1JBB A;  2LXP A;  2Z5D A;  1YRV A;  3UIO A;  2GMI B;  1KPQ A;  2Z6P A;  2GMI A;  3K9O A;  3L1Y A;  5D1K A;  3EB6 B;  4LAD A;  5F6X A;  2CLW B;  2OXQ A;  5IFR A;  4ONM B;  1YF9 A;  2CLW A;  2Z6O A;  4EJE A;  4Y1L A;  4ONM A;  5F6Y A;  4II2 C;  5AIT D;  1J7D B;  5KNL C;  1J7D A;  2YBF A;  4JUE A;  4V3L A;  3F92 A;  1YH2 A;  3L1Z A;  1ZGU A;  2H2Y A;  4Y1L C;  5D0K A;  4ZNY A;  3SY2 C;  1U9B A;  3TGD A;  2VRR A;  3VON B;  1JAT B;  3BZH A;  3ONG B;  2AYV A;  1S1Q A;  4A4C C;  1JAT A;  3PTF A;  1WZW A;  2YB6 A;  1JAS A;  5D1M A;  4ONL B;  2YZ0 A;  4M1N A;  4WZ3 A;  3RCZ B;  3UIP A;  2EDI A;  3FSH A;  4NRI B;  3VON C;  1Y6L A;  2UCZ A;  1UKX A;  2NVU C;  3HCT B;  2KJH A;  2PWQ A;  2Q0V A;  3JVZ A;  3OBX A;  1Q34 A;  4BWF A;  3K9P A;  4DDI A;  4L83 A;  2Y9P A;  3R42 A;  2GRR A;  1TTE A;  2BF8 A;  3O2U A;  3R3Q A;  4P5O G;  2Y9M A;  3UIN A;  1Y8X A;  5HPT C;  1UZX A;  3CEG A;  4A4B C;  2HLW A;  2A4D A;  5JNE B;  2QGX A;  5D0M A;  2AAK A;  2A7L A;  4W5V A;  5F6W A;  2FUH A;  3WE5 A;  1FBV C;  2OB4 A;  2GRO A;  5FER B;  1W4U A;  2R0J A;  5FQ2 A;  3P9G A;  3OJ4 A;  4LDT C;  4ONL A;  4FH1 A;  5AIT B;  4NRI A;  3ZNI C;  3RZ3 A;  4R62 A;  4YC1 A;  2AWF A;  1KPP A;  2F4Z A;  1U9A A;  1YLA A;  1Z3D A;  1A3S A;  2BEP A;  3JW0 A;  4Q5H C;  5DFL A;  1Z2U A;  5F6E A;  2KLY A;  5AIU B;  3UGB A;  4DHJ C;  2ESO A;  4S3O A;  2ESP A;  1X23 A;  2ESQ A;  2XWU A;  4Q5E C;  3RPG A;  4GPR A;  4QPL B;  3EVX A;  1C4Z D;  1WZV A;  2K07 A;  2O25 A;  4DHI D;  4NR3 B;  2C4P A;  4NR3 A;  2PE6 A;  4AUQ A;  4A49 B;  3SQV C;  2DAY A;  5F6V A;  4MDK A;  2O25 C;  1J74 A;  1M4Q A;  1ZDN A;  3E95 A;  1QCQ A;  4DS2 A;  3E46 A;  5D1L A;  1FXT A;  3OBU A;  2YHO B;  1ZUO A;  4YII U;  2EBM A;  2PX9 B;  4ONN B;  3E95 C;  1I7K A;  4AP4 B;  1PZV A;  4ONN A;  4BVU B;  4JQU A;  2ONU A;  3A33 A;  5F6D A;  4CCG A;  2C2V B;  2DAW A;  2DAX A;  2E2C A;  3P9H A;  3FN1 B;  4IP3 B;  3HCU B;  4NRG B;  2EKE A;  3ZQS A;  2GJD A;  2EBK A;  2GRP A;  2F0R A;  3KPA A;  4NRG A;  2GRQ A;  5AIE B;  4X57 A;  5F6U A;  3W31 B;  3A4S A;  1FZY A;  2CYX A;  2C2V C;  4TKP A;  4DHZ F;  1Z5S A;  2ESK A;  2Y4W A;  2FO3 A;  3OBQ A;  5D2M A;  2GRN A;  3OBS A;  1M4P A;  2UYZ A; 
#chains in the Genus database with same CATH homology
 1KPS A;  3H8K A;  2MT6 A;  4DDG A;  4V3K A;  2DMF A;  1AYZ A;  2F4W A;  5EGG A;  1JBB A;  2LXP A;  2Z5D A;  1YRV A;  3UIO A;  2GMI B;  1KPQ A;  2Z6P A;  2GMI A;  3K9O A;  3L1Y A;  5D1K A;  3EB6 B;  4LAD A;  5F6X A;  2CLW B;  2OXQ A;  5IFR A;  4ONM B;  1YF9 A;  2CLW A;  2Z6O A;  4EJE A;  4Y1L A;  4ONM A;  5F6Y A;  4II2 C;  5AIT D;  1J7D B;  5KNL C;  1J7D A;  2YBF A;  4JUE A;  4V3L A;  3F92 A;  1YH2 A;  3L1Z A;  1ZGU A;  2H2Y A;  4Y1L C;  5D0K A;  4ZNY A;  3SY2 C;  1U9B A;  3TGD A;  2VRR A;  3VON B;  1JAT B;  3BZH A;  3ONG B;  2AYV A;  1S1Q A;  4A4C C;  1JAT A;  3PTF A;  1WZW A;  2YB6 A;  1JAS A;  5D1M A;  4ONL B;  2YZ0 A;  4M1N A;  4WZ3 A;  3RCZ B;  3UIP A;  2EDI A;  3FSH A;  4NRI B;  3VON C;  1Y6L A;  2UCZ A;  1UKX A;  2NVU C;  3HCT B;  2KJH A;  2PWQ A;  2Q0V A;  3JVZ A;  3OBX A;  1Q34 A;  4BWF A;  3K9P A;  4DDI A;  4L83 A;  2Y9P A;  3R42 A;  2GRR A;  1TTE A;  2BF8 A;  3O2U A;  3R3Q A;  4P5O G;  2Y9M A;  3UIN A;  1Y8X A;  5HPT C;  1UZX A;  3CEG A;  4A4B C;  2HLW A;  2A4D A;  5JNE B;  2QGX A;  5D0M A;  2AAK A;  2A7L A;  4W5V A;  5F6W A;  2FUH A;  3WE5 A;  1FBV C;  2OB4 A;  2GRO A;  5FER B;  1W4U A;  2R0J A;  5FQ2 A;  3P9G A;  3OJ4 A;  4LDT C;  4ONL A;  4FH1 A;  5AIT B;  4NRI A;  3ZNI C;  3RZ3 A;  4R62 A;  4YC1 A;  2AWF A;  1KPP A;  2F4Z A;  1U9A A;  1YLA A;  1Z3D A;  1A3S A;  2BEP A;  3JW0 A;  4Q5H C;  5DFL A;  1Z2U A;  5F6E A;  2KLY A;  5AIU B;  3UGB A;  4DHJ C;  2ESO A;  4S3O A;  2ESP A;  1X23 A;  2ESQ A;  2XWU A;  4Q5E C;  3RPG A;  4GPR A;  4QPL B;  3EVX A;  1C4Z D;  1WZV A;  2K07 A;  2O25 A;  4DHI D;  4NR3 B;  2C4P A;  4NR3 A;  2PE6 A;  4AUQ A;  4A49 B;  3SQV C;  2DAY A;  5F6V A;  4MDK A;  2O25 C;  1J74 A;  1M4Q A;  1ZDN A;  3E95 A;  1QCQ A;  4DS2 A;  3E46 A;  5D1L A;  1FXT A;  3OBU A;  2YHO B;  1ZUO A;  4YII U;  2EBM A;  2PX9 B;  4ONN B;  3E95 C;  1I7K A;  4AP4 B;  1PZV A;  4ONN A;  4BVU B;  4JQU A;  2ONU A;  3A33 A;  5F6D A;  4CCG A;  2C2V B;  2DAW A;  2DAX A;  2E2C A;  3P9H A;  3FN1 B;  4IP3 B;  3HCU B;  4NRG B;  2EKE A;  3ZQS A;  2GJD A;  2EBK A;  2GRP A;  2F0R A;  3KPA A;  4NRG A;  2GRQ A;  5AIE B;  4X57 A;  5F6U A;  3W31 B;  3A4S A;  1FZY A;  2CYX A;  2C2V C;  4TKP A;  4DHZ F;  1Z5S A;  2ESK A;  2Y4W A;  2FO3 A;  3OBQ A;  5D2M A;  2GRN A;  3OBS A;  1M4P A;  2UYZ A;

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similar chains in the Genus database (?% sequence similarity)

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similar chains in the pdb database (?% sequence similarity)

#similar chains in the Genus database (?% sequence similarity)
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#similar chains, but unknotted
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#similar chains in the pdb database (?% sequence similarity)
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4AUQA

Total Genus

sequence length

structure length

Chain Sequence

Structure visualization

Chord Diagram

connected with : NaN

pfam database annotations