5IBKB

Skp1-f-box in complex with a ubiquitin variant
Total Genus 15
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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
15
sequence length
46
structure length
46
Chain Sequence
b'QRDFISLLPKELALYVLSFLEPKDLLQAAQTCRYWRILAEDNLLWR'
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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

After clicking on a point (x,y) in the genus matrix above, a subchain from x to y is shown in color.

publication title Inhibition of SCF ubiquitin ligases by engineered ubiquitin variants that target the Cul1 binding site on the Skp1-F-box interface.
pubmed doi rcsb
molecule keywords S-phase kinase-associated protein 1,S-phase kinase-associate
source organism Homo sapiens
molecule tags Protein binding
total genus 15
structure length 46
sequence length 46
chains with identical sequence E
ec nomenclature
pdb deposition date 2016-02-22
Image from the rcsb pdb (www.rcsb.org)
cath code
ClassArchitectureTopologyHomologyDomain
1.20.1280.50 Mainly Alpha Up-down Bundle Monooxygenase Monooxygenase 5ibkB00
3L2OB 3OGMB 2OVRB 3C6OB 2P1NB 4I6JB 3C6NB 2P1PB 2E31A 5IBKB 3OGKB 1NEXB 2OVPB 2E32A 2P1MB 3WSOA 3C6PB 3MKSB 2P1QB 1P22A 1FS1A 3OGLB 2OVQB 3V7DB 1LDKE 2P1OB
chains in the Genus database with same CATH superfamily
4FJNA 2QXFA 4M3TA 4KHWA 3UIQA 4FJXA 2K5SA 4DTUA 1JW2A 4QNDA 2P1NB 3TABA 2P5GA 4JRPA 3NE6A 3QEXA 1MHZG 1NEXB 3QETA 4I9LA 1MTYG 4E4BA 3WSOA 1XMFE 3NCIA 1WAJA 1FZ4E 2PFTA 3LDSA 3NDKA 4GAMC 1MHYG 1FXXA 2FYOA 1IH7A 4ADNA 4KHYA 4AKIA 1XVBE 3CFPA 2JHAA 1FZ0E 3OGLB 4M3RA 2OVQB 3UO3A 3K2OA 3SCXA 4M3XA 2ATQA 4J2BA 2MW2A 3QESA 4AKGA 4RL5A 3TJYA 3SQ2A 1FZ1E 3CFOA 4EPHA 4J2AA 1XVDE 3L2OB 1FZ8E 4M3UA 3L1NA 4EYWA 4FK2A 3NHGA 2OVRB 4DTJA 1FZ3E 4JS5A 2LF6A 4M42A 4QNCA 2FW3A 1FZIE 1XVGE 3HGLA 2MZWB 4JRQA 1XVCE 3SVIA 4FJIA 1Q9XA 3C94A 4AI6A 1FPOA 4FK0A 1WAFA 3NAEA 2H4TA 3HP9A 4KHNA 4RG8A 1FZ2E 4KI6A 2OZMA 2DTUA 3J2PA 3SUQA 5H37A 4M41A 1FS1A 1FZ7E 4FJ9A 1XU3E 2B8IA 3QEPA 1IG9A 4I9QA 3C95A 3RMDA 4FJJA 4FJHA 4FK4A 1CLQA 1FZHE 3UO2A 4DTMA 1FZ5E 2JH9A 4AKHA 2JQTA 3SQ1A 1LDKE 2P1OB 4FJ8A 4FVMA 3TAGA 4IT5A 2YB5A 2DEBA 4FJKA 1FZ6E 3N1EA 1N1CA 4M3WA 3KD1E 3OGMB 1XMHE 2VJ5A 3C6OB 4DU3A 4DTPA 3QEIA 4DTRA 3SUNA 4M45A 2P1PB 3LZIA 2E31A 5IBKB 3OGKB 4DTOA 2OVPB 3SUPA 3N1BA 1MMOG 4DTXA 3NGIA 3RMBA 3C6PB 3SUOA 3SJJA 3MKSB 2RKHA 4EP9A 3TAEA 3SQ4A 4FJMA 1XMGE 5IZ7A 3L0MA 1XVFE 4X5MA 4KHQA 3S9HA 4M3YA 1P22A 4JS4A 1FYZE 1FZ9E 4FJ7A 4FJLA 3QNNA 3LZJA 4J2EA 3QEWA 2B7MA 3QERA 4DU1A 2VIXA 4HCCA 4KHUA 3L8BA 2B1EA 3E4YA 3TAFA 4DTSA 4KI4A 3QEVA 3LDBA 1XL3C 2HD0A 3BVOA 4B08A 2PFVA 4HCBA 3KD5E 4J2DA 3SQ0A 2OYQA 3HL8A 4I6JB 1Q9YA 4X5NA 2RCUA 3C6NB 3SI6A 3HGKE 3RMAA 2P5OA 4DU4A 2OZSA 2E32A 3E4WA 3RWUA 2MMBA 2JHPA 2P1MB 2DY4A 1XU5E 2P1QB 4RNGA 2JPNA 3SNNA 3J27A 3RMCA 2JHCA 1XVEE 2JH8A 3LD8A 5IREA 3CQ8A 4DTNA 4KHSA 3QNOA 3SPYA 2LF3A 4ADOA 2VJ4A 3CFRA 4M3ZA 4ICGC 4E3SA 4FJ5A 3SPZA 4FJGA 3TL8B 3V7DB
chains in the Genus database with same CATH topology
4FJNA 2QXFA 4M3TA 4KHWA 3UIQA 4FJXA 4DTUA 4QNDA 2P1NB 3TABA 2P5GA 4JRPA 3NE6A 3QEXA 1MHZG 1NEXB 3QETA 4I9LA 1MTYG 4E4BA 3WSOA 1XMFE 3NCIA 1WAJA 1FZ4E 2PFTA 3LDSA 3NDKA 4GAMC 1MHYG 1FXXA 2FYOA 1IH7A 4ADNA 4KHYA 4AKIA 1XVBE 3CFPA 2JHAA 1FZ0E 3OGLB 4M3RA 2OVQB 3SCXA 3K2OA 4M3XA 2ATQA 4J2BA 3QESA 4AKGA 4RL5A 3TJYA 3SQ2A 1FZ1E 3CFOA 4EPHA 4J2AA 1XVDE 3L2OB 1FZ8E 4M3UA 3L1NA 4EYWA 4FK2A 3NHGA 2OVRB 4DTJA 1FZ3E 4JS5A 2LF6A 4M42A 4QNCA 2FW3A 1FZIE 1XVGE 3HGLA 2MZWB 4JRQA 1XVCE 3SVIA 4FJIA 1Q9XA 3C94A 4AI6A 4FK0A 1WAFA 3NAEA 2H4TA 3HP9A 4KHNA 4RG8A 1FZ2E 4KI6A 2OZMA 2DTUA 3J2PA 3SUQA 5H37A 4M41A 1FS1A 1FZ7E 4FJ9A 1XU3E 2B8IA 3QEPA 1IG9A 4I9QA 3C95A 3RMDA 4FJJA 4FJHA 4FK4A 1CLQA 1FZHE 4DTMA 1FZ5E 2JH9A 4AKHA 3SQ1A 1LDKE 2P1OB 4FJ8A 4FVMA 3TAGA 2YB5A 2DEBA 4FJKA 1FZ6E 3N1EA 4M3WA 3KD1E 3OGMB 1XMHE 2VJ5A 3C6OB 4DU3A 4DTPA 3QEIA 4DTRA 3SUNA 4M45A 2P1PB 3LZIA 2E31A 5IBKB 3OGKB 4DTOA 2OVPB 3SUPA 3N1BA 1MMOG 4DTXA 3NGIA 3RMBA 3C6PB 3SUOA 3SJJA 3MKSB 4FJMA 4EP9A 3TAEA 3SQ4A 1XMGE 5IZ7A 3L0MA 1XVFE 4X5MA 4KHQA 3S9HA 4M3YA 1P22A 4JS4A 1FYZE 1FZ9E 4FJ7A 4FJLA 3QNNA 3LZJA 4J2EA 3QEWA 2B7MA 3QERA 4DU1A 2VIXA 4HCCA 4KHUA 3L8BA 2B1EA 3E4YA 3TAFA 4DTSA 4KI4A 3QEVA 3LDBA 1XL3C 2HD0A 4B08A 2PFVA 4HCBA 3KD5E 4J2DA 3SQ0A 2OYQA 3HL8A 4I6JB 1Q9YA 4X5NA 2RCUA 3C6NB 3SI6A 3HGKE 3RMAA 2P5OA 4DU4A 2OZSA 2E32A 3E4WA 3RWUA 2MMBA 2JHPA 2P1MB 2DY4A 1XU5E 2P1QB 4RNGA 2JPNA 3SNNA 3J27A 3RMCA 2JHCA 1XVEE 2JH8A 3LD8A 5IREA 3CQ8A 4DTNA 4KHSA 3QNOA 3SPYA 2LF3A 4ADOA 2VJ4A 3CFRA 4M3ZA 4E3SA 4FJ5A 3SPZA 4FJGA 3TL8B 3V7DB
chains in the Genus database with same CATH homology


 
#chains in the Genus database with same CATH superfamily
 3L2O B;  3OGM B;  2OVR B;  3C6O B;  2P1N B;  4I6J B;  3C6N B;  2P1P B;  2E31 A;  5IBK B;  3OGK B;  1NEX B;  2OVP B;  2E32 A;  2P1M B;  3WSO A;  3C6P B;  3MKS B;  2P1Q B;  1P22 A;  1FS1 A;  3OGL B;  2OVQ B;  3V7D B;  1LDK E;  2P1O B; 
#chains in the Genus database with same CATH topology
 4FJN A;  2QXF A;  4M3T A;  4KHW A;  3UIQ A;  4FJX A;  2K5S A;  4DTU A;  1JW2 A;  4QND A;  2P1N B;  3TAB A;  2P5G A;  4JRP A;  3NE6 A;  3QEX A;  1MHZ G;  1NEX B;  3QET A;  4I9L A;  1MTY G;  4E4B A;  3WSO A;  1XMF E;  3NCI A;  1WAJ A;  1FZ4 E;  2PFT A;  3LDS A;  3NDK A;  4GAM C;  1MHY G;  1FXX A;  2FYO A;  1IH7 A;  4ADN A;  4KHY A;  4AKI A;  1XVB E;  3CFP A;  2JHA A;  1FZ0 E;  3OGL B;  4M3R A;  2OVQ B;  3UO3 A;  3K2O A;  3SCX A;  4M3X A;  2ATQ A;  4J2B A;  2MW2 A;  3QES A;  4AKG A;  4RL5 A;  3TJY A;  3SQ2 A;  1FZ1 E;  3CFO A;  4EPH A;  4J2A A;  1XVD E;  3L2O B;  1FZ8 E;  4M3U A;  3L1N A;  4EYW A;  4FK2 A;  3NHG A;  2OVR B;  4DTJ A;  1FZ3 E;  4JS5 A;  2LF6 A;  4M42 A;  4QNC A;  2FW3 A;  1FZI E;  1XVG E;  3HGL A;  2MZW B;  4JRQ A;  1XVC E;  3SVI A;  4FJI A;  1Q9X A;  3C94 A;  4AI6 A;  1FPO A;  4FK0 A;  1WAF A;  3NAE A;  2H4T A;  3HP9 A;  4KHN A;  4RG8 A;  1FZ2 E;  4KI6 A;  2OZM A;  2DTU A;  3J2P A;  3SUQ A;  5H37 A;  4M41 A;  1FS1 A;  1FZ7 E;  4FJ9 A;  1XU3 E;  2B8I A;  3QEP A;  1IG9 A;  4I9Q A;  3C95 A;  3RMD A;  4FJJ A;  4FJH A;  4FK4 A;  1CLQ A;  1FZH E;  3UO2 A;  4DTM A;  1FZ5 E;  2JH9 A;  4AKH A;  2JQT A;  3SQ1 A;  1LDK E;  2P1O B;  4FJ8 A;  4FVM A;  3TAG A;  4IT5 A;  2YB5 A;  2DEB A;  4FJK A;  1FZ6 E;  3N1E A;  1N1C A;  4M3W A;  3KD1 E;  3OGM B;  1XMH E;  2VJ5 A;  3C6O B;  4DU3 A;  4DTP A;  3QEI A;  4DTR A;  3SUN A;  4M45 A;  2P1P B;  3LZI A;  2E31 A;  5IBK B;  3OGK B;  4DTO A;  2OVP B;  3SUP A;  3N1B A;  1MMO G;  4DTX A;  3NGI A;  3RMB A;  3C6P B;  3SUO A;  3SJJ A;  3MKS B;  2RKH A;  4EP9 A;  3TAE A;  3SQ4 A;  4FJM A;  1XMG E;  5IZ7 A;  3L0M A;  1XVF E;  4X5M A;  4KHQ A;  3S9H A;  4M3Y A;  1P22 A;  4JS4 A;  1FYZ E;  1FZ9 E;  4FJ7 A;  4FJL A;  3QNN A;  3LZJ A;  4J2E A;  3QEW A;  2B7M A;  3QER A;  4DU1 A;  2VIX A;  4HCC A;  4KHU A;  3L8B A;  2B1E A;  3E4Y A;  3TAF A;  4DTS A;  4KI4 A;  3QEV A;  3LDB A;  1XL3 C;  2HD0 A;  3BVO A;  4B08 A;  2PFV A;  4HCB A;  3KD5 E;  4J2D A;  3SQ0 A;  2OYQ A;  3HL8 A;  4I6J B;  1Q9Y A;  4X5N A;  2RCU A;  3C6N B;  3SI6 A;  3HGK E;  3RMA A;  2P5O A;  4DU4 A;  2OZS A;  2E32 A;  3E4W A;  3RWU A;  2MMB A;  2JHP A;  2P1M B;  2DY4 A;  1XU5 E;  2P1Q B;  4RNG A;  2JPN A;  3SNN A;  3J27 A;  3RMC A;  2JHC A;  1XVE E;  2JH8 A;  3LD8 A;  5IRE A;  3CQ8 A;  4DTN A;  4KHS A;  3QNO A;  3SPY A;  2LF3 A;  4ADO A;  2VJ4 A;  3CFR A;  4M3Z A;  4ICG C;  4E3S A;  4FJ5 A;  3SPZ A;  4FJG A;  3TL8 B;  3V7D B; 
#chains in the Genus database with same CATH homology
 4FJN A;  2QXF A;  4M3T A;  4KHW A;  3UIQ A;  4FJX A;  4DTU A;  4QND A;  2P1N B;  3TAB A;  2P5G A;  4JRP A;  3NE6 A;  3QEX A;  1MHZ G;  1NEX B;  3QET A;  4I9L A;  1MTY G;  4E4B A;  3WSO A;  1XMF E;  3NCI A;  1WAJ A;  1FZ4 E;  2PFT A;  3LDS A;  3NDK A;  4GAM C;  1MHY G;  1FXX A;  2FYO A;  1IH7 A;  4ADN A;  4KHY A;  4AKI A;  1XVB E;  3CFP A;  2JHA A;  1FZ0 E;  3OGL B;  4M3R A;  2OVQ B;  3SCX A;  3K2O A;  4M3X A;  2ATQ A;  4J2B A;  3QES A;  4AKG A;  4RL5 A;  3TJY A;  3SQ2 A;  1FZ1 E;  3CFO A;  4EPH A;  4J2A A;  1XVD E;  3L2O B;  1FZ8 E;  4M3U A;  3L1N A;  4EYW A;  4FK2 A;  3NHG A;  2OVR B;  4DTJ A;  1FZ3 E;  4JS5 A;  2LF6 A;  4M42 A;  4QNC A;  2FW3 A;  1FZI E;  1XVG E;  3HGL A;  2MZW B;  4JRQ A;  1XVC E;  3SVI A;  4FJI A;  1Q9X A;  3C94 A;  4AI6 A;  4FK0 A;  1WAF A;  3NAE A;  2H4T A;  3HP9 A;  4KHN A;  4RG8 A;  1FZ2 E;  4KI6 A;  2OZM A;  2DTU A;  3J2P A;  3SUQ A;  5H37 A;  4M41 A;  1FS1 A;  1FZ7 E;  4FJ9 A;  1XU3 E;  2B8I A;  3QEP A;  1IG9 A;  4I9Q A;  3C95 A;  3RMD A;  4FJJ A;  4FJH A;  4FK4 A;  1CLQ A;  1FZH E;  4DTM A;  1FZ5 E;  2JH9 A;  4AKH A;  3SQ1 A;  1LDK E;  2P1O B;  4FJ8 A;  4FVM A;  3TAG A;  2YB5 A;  2DEB A;  4FJK A;  1FZ6 E;  3N1E A;  4M3W A;  3KD1 E;  3OGM B;  1XMH E;  2VJ5 A;  3C6O B;  4DU3 A;  4DTP A;  3QEI A;  4DTR A;  3SUN A;  4M45 A;  2P1P B;  3LZI A;  2E31 A;  5IBK B;  3OGK B;  4DTO A;  2OVP B;  3SUP A;  3N1B A;  1MMO G;  4DTX A;  3NGI A;  3RMB A;  3C6P B;  3SUO A;  3SJJ A;  3MKS B;  4FJM A;  4EP9 A;  3TAE A;  3SQ4 A;  1XMG E;  5IZ7 A;  3L0M A;  1XVF E;  4X5M A;  4KHQ A;  3S9H A;  4M3Y A;  1P22 A;  4JS4 A;  1FYZ E;  1FZ9 E;  4FJ7 A;  4FJL A;  3QNN A;  3LZJ A;  4J2E A;  3QEW A;  2B7M A;  3QER A;  4DU1 A;  2VIX A;  4HCC A;  4KHU A;  3L8B A;  2B1E A;  3E4Y A;  3TAF A;  4DTS A;  4KI4 A;  3QEV A;  3LDB A;  1XL3 C;  2HD0 A;  4B08 A;  2PFV A;  4HCB A;  3KD5 E;  4J2D A;  3SQ0 A;  2OYQ A;  3HL8 A;  4I6J B;  1Q9Y A;  4X5N A;  2RCU A;  3C6N B;  3SI6 A;  3HGK E;  3RMA A;  2P5O A;  4DU4 A;  2OZS A;  2E32 A;  3E4W A;  3RWU A;  2MMB A;  2JHP A;  2P1M B;  2DY4 A;  1XU5 E;  2P1Q B;  4RNG A;  2JPN A;  3SNN A;  3J27 A;  3RMC A;  2JHC A;  1XVE E;  2JH8 A;  3LD8 A;  5IRE A;  3CQ8 A;  4DTN A;  4KHS A;  3QNO A;  3SPY A;  2LF3 A;  4ADO A;  2VJ4 A;  3CFR A;  4M3Z A;  4E3S A;  4FJ5 A;  3SPZ A;  4FJG A;  3TL8 B;  3V7D B; 
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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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