4BWF | Genus

Total Genus 40

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	40
sequence length	166
structure length	166
Chain Sequence	MADTCMSRIVKEYKVILKTLASDDPIANPYRGIIESLNPIDETDLSKWEAIISGPSDTPYENHQFRILIEVPSSYPMNPPKISFMQNNILHSNVKSATGEICLNILKPEEWTPVWDLLHCVHAVWRLLREPVSDSPLDVDIGNIIRCGDMSAYQGIVKYFLAERER

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/5d03963216de1128b59853c9/pdb.gz

Viewer cachePut https://genus.fuw.edu.pl/file/5d03963216de1128b59853c9/pdb.gz

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The Resolver thinks Pdb

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

Time for openFile(/file/5d03963216de1128b59853c9/pdb.gz): 1548 ms

reading 166 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

166 atoms created

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

Time for creating model: 21 ms

Adding embedded #jmolscript: select ({0:165});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/signaling protein
source organism	Saccharomyces cerevisiae
publication title	A Disulphide Bond in the E2 Enzyme Pex4P Modulates Ubiquitin-Conjugating Activity pubmed doi rcsb
molecule keywords	UBIQUITIN-CONJUGATING ENZYME E2-21 KDA
total genus	40
structure length	166
sequence length	166
ec nomenclature	ec 2.3.2.23: E2 ubiquitin-conjugating enzyme.
pdb deposition date	2013-07-01

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	4bwfA00

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

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

Total Genus

sequence length

structure length

Chain Sequence

Structure visualization

Chord Diagram

connected with : NaN

pfam database annotations