5HBLA

Native rhodanese domain of ygap prepared with 1mm ddt is s-nitrosylated
Total Genus 35
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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
35
sequence length
105
structure length
104
Chain Sequence
TTISPHDAQELIARGAKLIDIRDADEYLREHIPEADLAPLSVLEQSGLPAKLRHEQIIFHQAGKRTSNNADKLAAIAAPAEIFLLEDGIDGWKKAGLPVAVNKS
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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.

Chord Diagram
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molecule tags Transferase
molecule keywords Inner membrane protein YgaP
publication title S-Nitrosylation Induces Structural and Dynamical Changes in a Rhodanese Family Protein.
pubmed doi rcsb
source organism Escherichia coli
total genus 35
structure length 104
sequence length 105
ec nomenclature
pdb deposition date 2015-12-31

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 5hblA00
1VEEA 1YMLA 3O3WA 2WLRA 3D1PA 3TG3A 3NTDA 3OP3A 3FS5A 1QB0A 3AAXA 4OCGA 3FOJA 4WH9A 1YM9A 5LAMA 1WHBA 1UARA 2MRMA 1C25A 3G5JA 3NTAA 1WV9A 3HZUA 1BOIA 3ICSA 3I2VA 2GWFA 1RHSA 2VSWA 3ICRA 1YMDA 2WLXA 3I3UA 3NHVA 3IWHA 2UZQA 5HBLA 4JGTA 3R2UA 1E0CA 2HHGA 2EG4A 3UTNX 2JTQA 1DP2A 3IPPA 3FLHA 1RHDA 1H4KX 3FNJA 1H4MX 3HWIA 2J6PA 3P3AA 2DCQA 1YS0A 1QXNA 1ORBA 3MZZA 1YMKA 1YT8A 3NT6A 2OUCA 3ICTA 1URHA 2JTSA 3GK5A 2MOIA 3ILMA 3HIXA 2MOLA 1CWSA 4WH7A 5HPAA 1HZMA 3OLHA 3TG1B 1TQ1A 5LAOA 2IFVA 2EG4B 1GMXA 5HBPA 2JTRA 2K0ZA 1T3KA 3IPOA 1CWTA 2EG3A 3AAYA 2A2KA 5HBQA 1GN0A 2FSXA 1OKGA 4F67A 3F4AA 3K9RA 3TP9A 2ORAA 5HBOA 1CWRA 1BOHA 2IFDA 2KL3A
chains in the Genus database with same CATH superfamily
1VEEA 1YMLA 3O3WA 2WLRA 3D1PA 3TG3A 3NTDA 3OP3A 3FS5A 1QB0A 3AAXA 4OCGA 3FOJA 4WH9A 1YM9A 5LAMA 1WHBA 1UARA 2MRMA 2Q82A 1C25A 3G5JA 3NTAA 1WV9A 3HZUA 1BOIA 3ICSA 3I2VA 2GWFA 1RHSA 2VSWA 3ICRA 1YMDA 2WLXA 3I3UA 3NHVA 3IWHA 2UZQA 5HBLA 4JGTA 3R2UA 1E0CA 2HHGA 2EG4A 3UTNX 2JTQA 1DP2A 3IPPA 3FLHA 1RHDA 1H4KX 3FNJA 1H4MX 3HWIA 2J6PA 3P3AA 2DCQA 1YS0A 1QXNA 1ORBA 3MZZA 1YMKA 1YT8A 3NT6A 2OUCA 3ICTA 1URHA 2JTSA 3GK5A 2MOIA 3ILMA 3HIXA 2MOLA 1CWSA 4WH7A 5HPAA 1HZMA 3OLHA 3TG1B 1TQ1A 5LAOA 2IFVA 2EG4B 1GMXA 5HBPA 2JTRA 2K0ZA 1T3KA 3IPOA 1CWTA 2EG3A 3AAYA 2A2KA 5HBQA 1GN0A 2FSXA 1OKGA 4F67A 3F4AA 3K9RA 3TP9A 2ORAA 5HBOA 1CWRA 1BOHA 2IFDA 2KL3A
chains in the Genus database with same CATH topology
1VEEA 1YMLA 3O3WA 2WLRA 3D1PA 3TG3A 3NTDA 3OP3A 3FS5A 1QB0A 3AAXA 4OCGA 3FOJA 4WH9A 1YM9A 5LAMA 1WHBA 1UARA 2MRMA 1C25A 3G5JA 3NTAA 1WV9A 3HZUA 1BOIA 3ICSA 3I2VA 2GWFA 1RHSA 2VSWA 3ICRA 1YMDA 2WLXA 3I3UA 3NHVA 3IWHA 2UZQA 5HBLA 4JGTA 3R2UA 1E0CA 2HHGA 2EG4A 3UTNX 2JTQA 1DP2A 3IPPA 3FLHA 1RHDA 1H4KX 3FNJA 1H4MX 3HWIA 2J6PA 3P3AA 2DCQA 1YS0A 1QXNA 1ORBA 3MZZA 1YMKA 1YT8A 3NT6A 2OUCA 3ICTA 1URHA 2JTSA 3GK5A 2MOIA 3ILMA 3HIXA 2MOLA 1CWSA 4WH7A 5HPAA 1HZMA 3OLHA 3TG1B 1TQ1A 5LAOA 2IFVA 2EG4B 1GMXA 5HBPA 2JTRA 2K0ZA 1T3KA 3IPOA 1CWTA 2EG3A 3AAYA 2A2KA 5HBQA 1GN0A 2FSXA 1OKGA 4F67A 3F4AA 3K9RA 3TP9A 2ORAA 5HBOA 1CWRA 1BOHA 2IFDA 2KL3A
chains in the Genus database with same CATH homology


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