5D2M | Genus

Total Genus 45

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	45
sequence length	157
structure length	157
Chain Sequence	MSGIALSRLAQERRAWRKDHPFGFVAVPTKNPDGTMNLMNWECAIPGKKGTPWEGGLFKLRMLFKDDYPSSPPKCKFEPPLFHPNVYPSGTVCLSILEEDKDWRPAITIKQILLGIQELLNEPNIQDPAQAEAYTIYCQNRVEYEKRVRAQAKKFAP

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/5d00ea3941eb126e43d2b8b5/pdb.gz

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The Resolver thinks Pdb

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

Time for openFile(/file/5d00ea3941eb126e43d2b8b5/pdb.gz): 2311 ms

reading 157 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

157 atoms created

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

Time for creating model: 18 ms

Adding embedded #jmolscript: select ({0:156});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,protein binding
source organism	Homo sapiens
publication title	Structural basis for catalytic activation by the human ZNF451 SUMO E3 ligase. pubmed doi rcsb
molecule keywords	SUMO-conjugating enzyme UBC9
total genus	45
structure length	157
sequence length	157
chains with identical sequence	D
ec nomenclature	ec 6.3.2.-:
pdb deposition date	2015-08-05

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	5d2mA00

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

#chains in the Genus database with same CATH superfamily
 3A33 A;  3BZH A;  3EVX A;  3RPG A;  2YBF A;  1JAT A;  4Y1L C;  1FZY A;  1JAT B;  5F6V A;  3E95 A;  3R42 A;  4X57 A;  2EDI A;  2ESQ A;  4NRI B;  4Y1L A;  4A49 B;  4CCG A;  3FSH A;  3A4S A;  4S3O A;  1A3S A;  1YLA A;  2A7L A;  2YB6 A;  5D2M A;  2K07 A;  1Z5S A;  2GRO A;  2ESK A;  4DS2 A;  2DAY A;  4LDT C;  1YRV A;  4JQU A;  3OJ4 A;  2ESP A;  3UIN A;  4AP4 B;  4V3L A;  5IFR A;  3SY2 C;  4A4B C;  1I7K A;  5DFL A;  1C4Z D;  1ZUO A;  4EJE A;  2DAW A;  4ZNY A;  3OBX A;  3W31 B;  4V3K A;  3L1Z A;  4DHI D;  3RZ3 A;  3JVZ A;  5D1K A;  1Z3D A;  2CLW B;  4DDG A;  3ZNI C;  3E95 C;  4NRG B;  3H8K A;  2GMI B;  1YH2 A;  2YHO B;  4MDK A;  1YF9 A;  1J74 A;  4II2 C;  4NRI A;  2GRN A;  4JUE A;  1UKX A;  2EKE A;  3CEG A;  4WZ3 A;  2UCZ A;  3HCU B;  2ESO A;  2KLY A;  5AIT D;  5D0K A;  4BVU B;  4DHZ F;  2QGX A;  3PTF A;  2GJD A;  1X23 A;  2F4Z A;  2GRP A;  5F6D A;  3VON B;  2Y9P A;  3OBS A;  1ZGU A;  2Y4W A;  1JAS A;  2GRQ A;  5D1M A;  4W5V A;  5F6U A;  1J7D A;  4YC1 A;  2PX9 B;  1J7D B;  3P9H A;  1FXT A;  5AIU B;  4Q5H C;  3E46 A;  5AIT B;  5JNE B;  1JBB A;  4FH1 A;  1AYZ A;  3O2U A;  2CLW A;  3R3Q A;  1Y8X A;  2EBK A;  1PZV A;  1TTE A;  1QCQ A;  2NVU C;  2KJH A;  3RCZ B;  2HLW A;  4NRG A;  2PWQ A;  2GMI A;  4P5O G;  2Z6P A;  1Z2U A;  4Q5E C;  1KPP A;  2F0R A;  4DHJ C;  2EBM A;  1W4U A;  2LXP A;  2XWU A;  4L83 A;  5F6W A;  5EGG A;  2OB4 A;  3WE5 A;  2Y9M A;  3VON C;  3K9O A;  2GRR A;  2CYX A;  5KNL C;  3HCT B;  1KPQ A;  4GPR A;  2AWF A;  1M4Q A;  3OBU A;  2C2V B;  1Q34 A;  3KPA A;  3L1Y A;  2UYZ A;  5F6E A;  5F6X A;  2A4D A;  2FO3 A;  4ONL B;  3K9P A;  5FER B;  2F4W A;  4M1N A;  4NR3 A;  4YII U;  5HPT C;  4NR3 B;  2Z6O A;  2VRR A;  1WZW A;  4BWF A;  4R62 A;  3UIO A;  2H2Y A;  2PE6 A;  1Y6L A;  4TKP A;  1ZDN A;  2C4P A;  3EB6 B;  1WZV A;  2AAK A;  2Q0V A;  3UIP A;  1U9A A;  5D0M A;  3TGD A;  4A4C C;  4IP3 B;  5D1L A;  4ONM A;  2AYV A;  1UZX A;  3P9G A;  2ONU A;  3OBQ A;  4ONM B;  5FQ2 A;  4QPL B;  3SQV C;  2DMF A;  1M4P A;  1U9B A;  4AUQ A;  1S1Q A;  2C2V C;  4ONN A;  2R0J A;  4ONN B;  3ZQS A;  3FN1 B;  2YZ0 A;  2FUH A;  2O25 C;  3JW0 A;  2BF8 A;  2Z5D A;  1FBV C;  5AIE B;  5F6Y A;  3UGB A;  2OXQ A;  4DDI A;  2O25 A;  4ONL A;  3ONG B;  4LAD A;  2E2C A;  3F92 A;  1KPS A;  2DAX A;  2MT6 A;  2BEP A; 
#chains in the Genus database with same CATH topology
 3A33 A;  3BZH A;  3EVX A;  3RPG A;  2YBF A;  1JAT A;  4Y1L C;  1FZY A;  1JAT B;  5F6V A;  3E95 A;  3R42 A;  4X57 A;  2EDI A;  2ESQ A;  4NRI B;  4Y1L A;  4A49 B;  4CCG A;  3FSH A;  3A4S A;  4S3O A;  1A3S A;  1YLA A;  2A7L A;  2YB6 A;  5D2M A;  2K07 A;  1Z5S A;  2GRO A;  2ESK A;  4DS2 A;  2DAY A;  4LDT C;  1YRV A;  4JQU A;  3OJ4 A;  2ESP A;  3UIN A;  4AP4 B;  4V3L A;  5IFR A;  3SY2 C;  4A4B C;  1I7K A;  5DFL A;  1C4Z D;  1ZUO A;  4EJE A;  2DAW A;  4ZNY A;  3OBX A;  3W31 B;  4V3K A;  3L1Z A;  4DHI D;  3RZ3 A;  3JVZ A;  5D1K A;  1Z3D A;  2CLW B;  4DDG A;  3ZNI C;  3E95 C;  4NRG B;  3H8K A;  2GMI B;  1YH2 A;  2YHO B;  4MDK A;  1YF9 A;  1J74 A;  4II2 C;  4NRI A;  2GRN A;  4JUE A;  1UKX A;  2EKE A;  3CEG A;  4WZ3 A;  2UCZ A;  3HCU B;  2ESO A;  2KLY A;  5AIT D;  5D0K A;  4BVU B;  4DHZ F;  2QGX A;  3PTF A;  2GJD A;  1X23 A;  2F4Z A;  2GRP A;  5F6D A;  3VON B;  2Y9P A;  3OBS A;  1ZGU A;  2Y4W A;  1JAS A;  2GRQ A;  5D1M A;  4W5V A;  5F6U A;  1J7D A;  4YC1 A;  2PX9 B;  1J7D B;  3P9H A;  1FXT A;  5AIU B;  4Q5H C;  3E46 A;  5AIT B;  5JNE B;  1JBB A;  4FH1 A;  1AYZ A;  3O2U A;  2CLW A;  3R3Q A;  1Y8X A;  2EBK A;  1PZV A;  1TTE A;  1QCQ A;  2NVU C;  2KJH A;  3RCZ B;  2HLW A;  4NRG A;  2PWQ A;  2GMI A;  4P5O G;  2Z6P A;  1Z2U A;  4Q5E C;  1KPP A;  2F0R A;  4DHJ C;  2EBM A;  1W4U A;  2LXP A;  2XWU A;  4L83 A;  5F6W A;  5EGG A;  2OB4 A;  3WE5 A;  2Y9M A;  3VON C;  3K9O A;  2GRR A;  2CYX A;  5KNL C;  3HCT B;  1KPQ A;  4GPR A;  2AWF A;  1M4Q A;  3OBU A;  2C2V B;  1Q34 A;  3KPA A;  3L1Y A;  2UYZ A;  5F6E A;  5F6X A;  2A4D A;  2FO3 A;  4ONL B;  3K9P A;  5FER B;  2F4W A;  4M1N A;  4NR3 A;  4YII U;  5HPT C;  4NR3 B;  2Z6O A;  2VRR A;  1WZW A;  4BWF A;  4R62 A;  3UIO A;  2H2Y A;  2PE6 A;  1Y6L A;  4TKP A;  1ZDN A;  2C4P A;  3EB6 B;  1WZV A;  2AAK A;  2Q0V A;  3UIP A;  1U9A A;  5D0M A;  3TGD A;  4A4C C;  4IP3 B;  5D1L A;  4ONM A;  2AYV A;  1UZX A;  3P9G A;  2ONU A;  3OBQ A;  4ONM B;  5FQ2 A;  4QPL B;  3SQV C;  2DMF A;  1M4P A;  1U9B A;  4AUQ A;  1S1Q A;  2C2V C;  4ONN A;  2R0J A;  4ONN B;  3ZQS A;  3FN1 B;  2YZ0 A;  2FUH A;  2O25 C;  3JW0 A;  2BF8 A;  2Z5D A;  1FBV C;  5AIE B;  5F6Y A;  3UGB A;  2OXQ A;  4DDI A;  2O25 A;  4ONL A;  3ONG B;  4LAD A;  2E2C A;  3F92 A;  1KPS A;  2DAX A;  2MT6 A;  2BEP A; 
#chains in the Genus database with same CATH homology
 3A33 A;  3BZH A;  3EVX A;  3RPG A;  2YBF A;  1JAT A;  4Y1L C;  1FZY A;  1JAT B;  5F6V A;  3E95 A;  3R42 A;  4X57 A;  2EDI A;  2ESQ A;  4NRI B;  4Y1L A;  4A49 B;  4CCG A;  3FSH A;  3A4S A;  4S3O A;  1A3S A;  1YLA A;  2A7L A;  2YB6 A;  5D2M A;  2K07 A;  1Z5S A;  2GRO A;  2ESK A;  4DS2 A;  2DAY A;  4LDT C;  1YRV A;  4JQU A;  3OJ4 A;  2ESP A;  3UIN A;  4AP4 B;  4V3L A;  5IFR A;  3SY2 C;  4A4B C;  1I7K A;  5DFL A;  1C4Z D;  1ZUO A;  4EJE A;  2DAW A;  4ZNY A;  3OBX A;  3W31 B;  4V3K A;  3L1Z A;  4DHI D;  3RZ3 A;  3JVZ A;  5D1K A;  1Z3D A;  2CLW B;  4DDG A;  3ZNI C;  3E95 C;  4NRG B;  3H8K A;  2GMI B;  1YH2 A;  2YHO B;  4MDK A;  1YF9 A;  1J74 A;  4II2 C;  4NRI A;  2GRN A;  4JUE A;  1UKX A;  2EKE A;  3CEG A;  4WZ3 A;  2UCZ A;  3HCU B;  2ESO A;  2KLY A;  5AIT D;  5D0K A;  4BVU B;  4DHZ F;  2QGX A;  3PTF A;  2GJD A;  1X23 A;  2F4Z A;  2GRP A;  5F6D A;  3VON B;  2Y9P A;  3OBS A;  1ZGU A;  2Y4W A;  1JAS A;  2GRQ A;  5D1M A;  4W5V A;  5F6U A;  1J7D A;  4YC1 A;  2PX9 B;  1J7D B;  3P9H A;  1FXT A;  5AIU B;  4Q5H C;  3E46 A;  5AIT B;  5JNE B;  1JBB A;  4FH1 A;  1AYZ A;  3O2U A;  2CLW A;  3R3Q A;  1Y8X A;  2EBK A;  1PZV A;  1TTE A;  1QCQ A;  2NVU C;  2KJH A;  3RCZ B;  2HLW A;  4NRG A;  2PWQ A;  2GMI A;  4P5O G;  2Z6P A;  1Z2U A;  4Q5E C;  1KPP A;  2F0R A;  4DHJ C;  2EBM A;  1W4U A;  2LXP A;  2XWU A;  4L83 A;  5F6W A;  5EGG A;  2OB4 A;  3WE5 A;  2Y9M A;  3VON C;  3K9O A;  2GRR A;  2CYX A;  5KNL C;  3HCT B;  1KPQ A;  4GPR A;  2AWF A;  1M4Q A;  3OBU A;  2C2V B;  1Q34 A;  3KPA A;  3L1Y A;  2UYZ A;  5F6E A;  5F6X A;  2A4D A;  2FO3 A;  4ONL B;  3K9P A;  5FER B;  2F4W A;  4M1N A;  4NR3 A;  4YII U;  5HPT C;  4NR3 B;  2Z6O A;  2VRR A;  1WZW A;  4BWF A;  4R62 A;  3UIO A;  2H2Y A;  2PE6 A;  1Y6L A;  4TKP A;  1ZDN A;  2C4P A;  3EB6 B;  1WZV A;  2AAK A;  2Q0V A;  3UIP A;  1U9A A;  5D0M A;  3TGD A;  4A4C C;  4IP3 B;  5D1L A;  4ONM A;  2AYV A;  1UZX A;  3P9G A;  2ONU A;  3OBQ A;  4ONM B;  5FQ2 A;  4QPL B;  3SQV C;  2DMF A;  1M4P A;  1U9B A;  4AUQ A;  1S1Q A;  2C2V C;  4ONN A;  2R0J A;  4ONN B;  3ZQS A;  3FN1 B;  2YZ0 A;  2FUH A;  2O25 C;  3JW0 A;  2BF8 A;  2Z5D A;  1FBV C;  5AIE B;  5F6Y A;  3UGB A;  2OXQ A;  4DDI A;  2O25 A;  4ONL A;  3ONG B;  4LAD A;  2E2C A;  3F92 A;  1KPS A;  2DAX A;  2MT6 A;  2BEP 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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5D2MA

Total Genus

sequence length

structure length

Chain Sequence

Structure visualization

Chord Diagram

connected with : NaN

pfam database annotations