2GWFA

Structure of a usp8-nrdp1 complex
Total Genus 36
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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
36
sequence length
136
structure length
136
Chain Sequence
SGAITAKELYTMMTDKNISLIIMDARRMQDYQDSCILHSLSVPEEAISPGVTASWIEAHLPDDSKDTWKKRGNVEYVVLLDWFSSAKDLQIGTTLRSLKDALFKWESKTVLRNEPLVLEGGYENWLLCYPQYTTNA
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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 Amino-terminal Dimerization, NRDP1-Rhodanese Interaction, and Inhibited Catalytic Domain Conformation of the Ubiquitin-specific Protease 8 (USP8).
pubmed doi rcsb
molecule tags Hydrolase/ligase
source organism Homo sapiens
molecule keywords Ubiquitin carboxyl-terminal hydrolase 8
total genus 36
structure length 136
sequence length 136
chains with identical sequence C, E
ec nomenclature ec 3.4.19.12: Ubiquitinyl hydrolase 1.
pdb deposition date 2006-05-04

pfam database annotations

chain Pfam Accession Code Pfam Family Identifier Pfam Description
A PF00581 Rhodanese Rhodanese-like domain
Image from the rcsb pdb (www.rcsb.org)
cath code
ClassArchitectureTopologyHomologyDomain
3.40.250.10 Alpha Beta 3-Layer(aba) Sandwich Oxidized Rhodanese; domain 1 Rhodanese-like domain 2gwfA00
2UZQA 3FLHA 3HIXA 1E0CA 3AAYA 2IFDA 2HHGA 4JGTA 1YT8A 2JTRA 4OCGA 3GK5A 5HBLA 3TG1B 2OUCA 1BOHA 3UTNX 3MZZA 2WLRA 1HZMA 5HBOA 1ORBA 3R2UA 1YS0A 1CWSA 3P3AA 1C25A 3NT6A 1QXNA 1YM9A 3FOJA 1WHBA 3HZUA 5LAMA 1UARA 1GMXA 1WV9A 1YMLA 1YMDA 2IFVA 2EG4A 2WLXA 3OP3A 3AAXA 2JTSA 3K9RA 3ILMA 1RHSA 3D1PA 3OLHA 2JTQA 3NTAA 1RHDA 1OKGA 5HBQA 1YMKA 1QB0A 3NHVA 1CWRA 1CWTA 2A2KA 2K0ZA 3ICSA 3IPPA 2VSWA 1H4KX 1URHA 3O3WA 2MOLA 2EG3A 1DP2A 2DCQA 3IPOA 1T3KA 3G5JA 1BOIA 1TQ1A 3I3UA 1VEEA 3ICTA 2ORAA 5LAOA 1H4MX 2J6PA 3NTDA 3F4AA 3TG3A 5HPAA 2FSXA 2MOIA 3ICRA 2EG4B 3FS5A 5HBPA 3HWIA 1GN0A 2MRMA 2KL3A 4F67A 3I2VA 3FNJA 3TP9A 2GWFA 4WH9A 3IWHA 4WH7A
chains in the Genus database with same CATH superfamily
2UZQA 3FLHA 3HIXA 1E0CA 3AAYA 2IFDA 2HHGA 4JGTA 1YT8A 2JTRA 4OCGA 3GK5A 5HBLA 3TG1B 2OUCA 1BOHA 3UTNX 3MZZA 2WLRA 1HZMA 5HBOA 1ORBA 3R2UA 1YS0A 1CWSA 3P3AA 1C25A 3NT6A 1QXNA 1YM9A 3FOJA 1WHBA 3HZUA 5LAMA 1UARA 1GMXA 1WV9A 1YMLA 1YMDA 2IFVA 2EG4A 2WLXA 3OP3A 3AAXA 2JTSA 3K9RA 3ILMA 1RHSA 3D1PA 3OLHA 2JTQA 3NTAA 1RHDA 1OKGA 5HBQA 1YMKA 1QB0A 3NHVA 1CWRA 1CWTA 2A2KA 2K0ZA 3ICSA 2Q82A 3IPPA 2VSWA 1H4KX 1URHA 3O3WA 2MOLA 2EG3A 1DP2A 2DCQA 3IPOA 1T3KA 3G5JA 1BOIA 1TQ1A 3I3UA 1VEEA 3ICTA 2ORAA 5LAOA 1H4MX 2J6PA 3NTDA 3F4AA 3TG3A 5HPAA 2FSXA 2MOIA 3ICRA 2EG4B 3FS5A 5HBPA 3HWIA 1GN0A 2MRMA 2KL3A 4F67A 3I2VA 3FNJA 3TP9A 2GWFA 4WH9A 3IWHA 4WH7A
chains in the Genus database with same CATH topology
2UZQA 3FLHA 3HIXA 1E0CA 3AAYA 2IFDA 2HHGA 4JGTA 1YT8A 2JTRA 4OCGA 3GK5A 5HBLA 3TG1B 2OUCA 1BOHA 3UTNX 3MZZA 2WLRA 1HZMA 5HBOA 1ORBA 3R2UA 1YS0A 1CWSA 3P3AA 1C25A 3NT6A 1QXNA 1YM9A 3FOJA 1WHBA 3HZUA 5LAMA 1UARA 1GMXA 1WV9A 1YMLA 1YMDA 2IFVA 2EG4A 2WLXA 3OP3A 3AAXA 2JTSA 3K9RA 3ILMA 1RHSA 3D1PA 3OLHA 2JTQA 3NTAA 1RHDA 1OKGA 5HBQA 1YMKA 1QB0A 3NHVA 1CWRA 1CWTA 2A2KA 2K0ZA 3ICSA 3IPPA 2VSWA 1H4KX 1URHA 3O3WA 2MOLA 2EG3A 1DP2A 2DCQA 3IPOA 1T3KA 3G5JA 1BOIA 1TQ1A 3I3UA 1VEEA 3ICTA 2ORAA 5LAOA 1H4MX 2J6PA 3NTDA 3F4AA 3TG3A 5HPAA 2FSXA 2MOIA 3ICRA 2EG4B 3FS5A 5HBPA 3HWIA 1GN0A 2MRMA 2KL3A 4F67A 3I2VA 3FNJA 3TP9A 2GWFA 4WH9A 3IWHA 4WH7A
chains in the Genus database with same CATH homology


 
#chains in the Genus database with same CATH superfamily
 2UZQ A;  3FLH A;  3HIX A;  1E0C A;  3AAY A;  2IFD A;  2HHG A;  4JGT A;  1YT8 A;  2JTR A;  4OCG A;  3GK5 A;  5HBL A;  3TG1 B;  2OUC A;  1BOH A;  3UTN X;  3MZZ A;  2WLR A;  1HZM A;  5HBO A;  1ORB A;  3R2U A;  1YS0 A;  1CWS A;  3P3A A;  1C25 A;  3NT6 A;  1QXN A;  1YM9 A;  3FOJ A;  1WHB A;  3HZU A;  5LAM A;  1UAR A;  1GMX A;  1WV9 A;  1YML A;  1YMD A;  2IFV A;  2EG4 A;  2WLX A;  3OP3 A;  3AAX A;  2JTS A;  3K9R A;  3ILM A;  1RHS A;  3D1P A;  3OLH A;  2JTQ A;  3NTA A;  1RHD A;  1OKG A;  5HBQ A;  1YMK A;  1QB0 A;  3NHV A;  1CWR A;  1CWT A;  2A2K A;  2K0Z A;  3ICS A;  3IPP A;  2VSW A;  1H4K X;  1URH A;  3O3W A;  2MOL A;  2EG3 A;  1DP2 A;  2DCQ A;  3IPO A;  1T3K A;  3G5J A;  1BOI A;  1TQ1 A;  3I3U A;  1VEE A;  3ICT A;  2ORA A;  5LAO A;  1H4M X;  2J6P A;  3NTD A;  3F4A A;  3TG3 A;  5HPA A;  2FSX A;  2MOI A;  3ICR A;  2EG4 B;  3FS5 A;  5HBP A;  3HWI A;  1GN0 A;  2MRM A;  2KL3 A;  4F67 A;  3I2V A;  3FNJ A;  3TP9 A;  2GWF A;  4WH9 A;  3IWH A;  4WH7 A; 
#chains in the Genus database with same CATH topology
 2UZQ A;  3FLH A;  3HIX A;  1E0C A;  3AAY A;  2IFD A;  2HHG A;  4JGT A;  1YT8 A;  2JTR A;  4OCG A;  3GK5 A;  5HBL A;  3TG1 B;  2OUC A;  1BOH A;  3UTN X;  3MZZ A;  2WLR A;  1HZM A;  5HBO A;  1ORB A;  3R2U A;  1YS0 A;  1CWS A;  3P3A A;  1C25 A;  3NT6 A;  1QXN A;  1YM9 A;  3FOJ A;  1WHB A;  3HZU A;  5LAM A;  1UAR A;  1GMX A;  1WV9 A;  1YML A;  1YMD A;  2IFV A;  2EG4 A;  2WLX A;  3OP3 A;  3AAX A;  2JTS A;  3K9R A;  3ILM A;  1RHS A;  3D1P A;  3OLH A;  2JTQ A;  3NTA A;  1RHD A;  1OKG A;  5HBQ A;  1YMK A;  1QB0 A;  3NHV A;  1CWR A;  1CWT A;  2A2K A;  2K0Z A;  3ICS A;  2Q82 A;  3IPP A;  2VSW A;  1H4K X;  1URH A;  3O3W A;  2MOL A;  2EG3 A;  1DP2 A;  2DCQ A;  3IPO A;  1T3K A;  3G5J A;  1BOI A;  1TQ1 A;  3I3U A;  1VEE A;  3ICT A;  2ORA A;  5LAO A;  1H4M X;  2J6P A;  3NTD A;  3F4A A;  3TG3 A;  5HPA A;  2FSX A;  2MOI A;  3ICR A;  2EG4 B;  3FS5 A;  5HBP A;  3HWI A;  1GN0 A;  2MRM A;  2KL3 A;  4F67 A;  3I2V A;  3FNJ A;  3TP9 A;  2GWF A;  4WH9 A;  3IWH A;  4WH7 A; 
#chains in the Genus database with same CATH homology
 2UZQ A;  3FLH A;  3HIX A;  1E0C A;  3AAY A;  2IFD A;  2HHG A;  4JGT A;  1YT8 A;  2JTR A;  4OCG A;  3GK5 A;  5HBL A;  3TG1 B;  2OUC A;  1BOH A;  3UTN X;  3MZZ A;  2WLR A;  1HZM A;  5HBO A;  1ORB A;  3R2U A;  1YS0 A;  1CWS A;  3P3A A;  1C25 A;  3NT6 A;  1QXN A;  1YM9 A;  3FOJ A;  1WHB A;  3HZU A;  5LAM A;  1UAR A;  1GMX A;  1WV9 A;  1YML A;  1YMD A;  2IFV A;  2EG4 A;  2WLX A;  3OP3 A;  3AAX A;  2JTS A;  3K9R A;  3ILM A;  1RHS A;  3D1P A;  3OLH A;  2JTQ A;  3NTA A;  1RHD A;  1OKG A;  5HBQ A;  1YMK A;  1QB0 A;  3NHV A;  1CWR A;  1CWT A;  2A2K A;  2K0Z A;  3ICS A;  3IPP A;  2VSW A;  1H4K X;  1URH A;  3O3W A;  2MOL A;  2EG3 A;  1DP2 A;  2DCQ A;  3IPO A;  1T3K A;  3G5J A;  1BOI A;  1TQ1 A;  3I3U A;  1VEE A;  3ICT A;  2ORA A;  5LAO A;  1H4M X;  2J6P A;  3NTD A;  3F4A A;  3TG3 A;  5HPA A;  2FSX A;  2MOI A;  3ICR A;  2EG4 B;  3FS5 A;  5HBP A;  3HWI A;  1GN0 A;  2MRM A;  2KL3 A;  4F67 A;  3I2V A;  3FNJ A;  3TP9 A;  2GWF A;  4WH9 A;  3IWH A;  4WH7 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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