3UIP | Genus

Total Genus 43

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	43
sequence length	157
structure length	155
Chain Sequence	SGIALSRLAQERKAWRKDHPFGFVAVPTKNPDGTMNLMNWECAIPGKKGTPWEGGLFKLRMLFKDDYPSSPPKCKFEPPLFHPNVYPSGTVLSILEEDKDWRPAITIKQILLGIQELLNEPNIQDPAQAEAYTIYQNRVEYEKRVRAQAKKFAPS

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/5d0333801d053c7e2133ec7f/pdb.gz

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The Resolver thinks Pdb

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

Time for openFile(/file/5d0333801d053c7e2133ec7f/pdb.gz): 1260 ms

reading 155 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

155 atoms created

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

Time for creating model: 21 ms

Adding embedded #jmolscript: select ({0:154});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/isomerase/protein binding
source organism	Homo sapiens
publication title	Determinants of small ubiquitin-like modifier 1 (SUMO1) protein specificity, E3 ligase, and SUMO-RanGAP1 binding activities of nucleoporin RanBP2. pubmed doi rcsb
molecule keywords	SUMO-conjugating enzyme UBC9
total genus	43
structure length	155
sequence length	157
ec nomenclature	ec 6.3.2.-:
pdb deposition date	2011-11-05

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	3uipA00

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

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

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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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3UIPA

Total Genus

sequence length

structure length

Chain Sequence

Structure visualization

Chord Diagram

connected with : NaN

pfam database annotations