3GFDA

Crystal structure of mus musculus iodotyrosine deiodinase (iyd) bound to fmn and mono-iodotyrosine (mit)
Total Genus 60
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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
60
sequence length
222
structure length
220
Chain Sequence
SVEHIPFSHTRYPEQEMRMRSQEFYELLNKRRSVRFISSEHVPMEVIENVIKAAGTAPSGAHTEPWTFVVVKDPDMKHKIREIIEEEEEINYMKRMGKRWVTDLKKLRTNWIKEYLDTAPVLILIFKQVHGFNGKKKVHYYNEISVSIACGLLLAALQNAGLVTVTTTPLNCGPRLRVLLGRPSHEKLLVLLPVGYPSRDATVPDLKRKALDQIMVTVHH
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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 Oxidoreductase
molecule keywords Iodotyrosine dehalogenase 1
publication title Crystal structure of iodotyrosine deiodinase, a novel flavoprotein responsible for iodide salvage in thyroid glands.
pubmed doi rcsb
source organism Mus musculus
total genus 60
structure length 220
sequence length 222
chains with identical sequence B
ec nomenclature ec 1.21.1.1: Iodotyrosine deiodinase.
pdb deposition date 2009-02-26

pfam database annotations

chain Pfam Accession Code Pfam Family Identifier Pfam Description
A PF00881 Nitroreductase Nitroreductase family
Image from the rcsb pdb (www.rcsb.org)
cath code
ClassArchitectureTopologyHomologyDomain
3.40.109.10 Alpha Beta 3-Layer(aba) Sandwich NADH Oxidase NADH Oxidase 3gfdA01
1F5VA 1KQBA 3PXVA 4BNBA 1YWQA 3M5KA 1IDTA 4XOOA 2YMVA 3GE5A 3EOFA 3K6HA 4G8SA 5J6CA 3GFAA 1ICVA 1V5ZA 1YLUA 2R01A 1KQCA 4XOQA 3BM1A 2ISLA 5HEIA 2ISKA 5HDJA 1OO5A 1OONA 3KOQA 4EO3A 1ICUA 3X22A 2WZVA 3BEMA 3N2SA 4BN6A 2HAYA 3E10A 3GR3A 4BN9A 1NECA 2BKJA 3KWKA 3H4OA 2I7HA 3GFDA 3TNZA 4DN2A 2FREA 3BM2A 4QLYA 3EK3A 4QLXA 3EO7A 3GB5A 1ICRA 2IFAA 3G14A 2WZWA 1OOQA 1YLRA 1ZCHA 4TTCA 4BN7A 3E39A 3GH8A 1VKWA 1DS7A 5KRDA 1OO6A 2ISJA 4BN8A 3HJ9A 3EO8A 2B67A 3QDLA 3OF4A 2WQFA 1VFRA 5KO8A 5KO7A 3GAGA 3HZNA 1NOXA 3X21A 4XOMA 1V5YA 3HOIA 1YKIA 3GBHA 4TTBA 2H0UA 4URPA 1KQDA 3GE6A 3TO0A 1BKJA
chains in the Genus database with same CATH superfamily
1F5VA 1KQBA 3PXVA 4BNBA 1YWQA 3M5KA 1IDTA 4XOOA 2YMVA 3GE5A 3EOFA 3K6HA 4G8SA 5J6CA 3GFAA 1ICVA 1V5ZA 1YLUA 2R01A 1KQCA 4XOQA 3BM1A 2ISLA 5HEIA 2ISKA 5HDJA 1OO5A 1OONA 3KOQA 4EO3A 1ICUA 3X22A 2WZVA 3BEMA 3N2SA 4BN6A 2HAYA 3E10A 3GR3A 4BN9A 1NECA 2BKJA 3KWKA 3H4OA 2I7HA 3GFDA 3TNZA 4DN2A 2FREA 3BM2A 4QLYA 3EK3A 4QLXA 3EO7A 3GB5A 1ICRA 2IFAA 3G14A 2WZWA 1OOQA 1YLRA 1ZCHA 4TTCA 4BN7A 3E39A 3GH8A 1VKWA 1DS7A 5KRDA 1OO6A 2ISJA 4BN8A 3HJ9A 3EO8A 2B67A 3QDLA 3OF4A 2WQFA 1VFRA 5KO8A 5KO7A 3GAGA 3HZNA 1NOXA 3X21A 4XOMA 1V5YA 3HOIA 1YKIA 3GBHA 4TTBA 2H0UA 4URPA 1J6RA 1KQDA 3GE6A 3TO0A 1BKJA
chains in the Genus database with same CATH topology
1F5VA 1KQBA 3PXVA 4BNBA 1YWQA 3M5KA 1IDTA 4XOOA 2YMVA 3GE5A 3EOFA 3K6HA 4G8SA 5J6CA 3GFAA 1ICVA 1V5ZA 1YLUA 2R01A 1KQCA 4XOQA 3BM1A 2ISLA 5HEIA 2ISKA 5HDJA 1OO5A 1OONA 3KOQA 4EO3A 1ICUA 3X22A 2WZVA 3BEMA 3N2SA 4BN6A 2HAYA 3E10A 3GR3A 4BN9A 1NECA 2BKJA 3KWKA 3H4OA 2I7HA 3GFDA 3TNZA 4DN2A 2FREA 3BM2A 4QLYA 3EK3A 4QLXA 3EO7A 3GB5A 1ICRA 2IFAA 3G14A 2WZWA 1OOQA 1YLRA 1ZCHA 4TTCA 4BN7A 3E39A 3GH8A 1VKWA 1DS7A 5KRDA 1OO6A 2ISJA 4BN8A 3HJ9A 3EO8A 2B67A 3QDLA 3OF4A 2WQFA 1VFRA 5KO8A 5KO7A 3GAGA 3HZNA 1NOXA 3X21A 4XOMA 1V5YA 3HOIA 1YKIA 3GBHA 4TTBA 2H0UA 4URPA 1J6RA 1KQDA 3GE6A 3TO0A 1BKJA
chains in the Genus database with same CATH homology


 
#chains in the Genus database with same CATH superfamily
 1F5V A;  1KQB A;  3PXV A;  4BNB A;  1YWQ A;  3M5K A;  1IDT A;  4XOO A;  2YMV A;  3GE5 A;  3EOF A;  3K6H A;  4G8S A;  5J6C A;  3GFA A;  1ICV A;  1V5Z A;  1YLU A;  2R01 A;  1KQC A;  4XOQ A;  3BM1 A;  2ISL A;  5HEI A;  2ISK A;  5HDJ A;  1OO5 A;  1OON A;  3KOQ A;  4EO3 A;  1ICU A;  3X22 A;  2WZV A;  3BEM A;  3N2S A;  4BN6 A;  2HAY A;  3E10 A;  3GR3 A;  4BN9 A;  1NEC A;  2BKJ A;  3KWK A;  3H4O A;  2I7H A;  3GFD A;  3TNZ A;  4DN2 A;  2FRE A;  3BM2 A;  4QLY A;  3EK3 A;  4QLX A;  3EO7 A;  3GB5 A;  1ICR A;  2IFA A;  3G14 A;  2WZW A;  1OOQ A;  1YLR A;  1ZCH A;  4TTC A;  4BN7 A;  3E39 A;  3GH8 A;  1VKW A;  1DS7 A;  5KRD A;  1OO6 A;  2ISJ A;  4BN8 A;  3HJ9 A;  3EO8 A;  2B67 A;  3QDL A;  3OF4 A;  2WQF A;  1VFR A;  5KO8 A;  5KO7 A;  3GAG A;  3HZN A;  1NOX A;  3X21 A;  4XOM A;  1V5Y A;  3HOI A;  1YKI A;  3GBH A;  4TTB A;  2H0U A;  4URP A;  1KQD A;  3GE6 A;  3TO0 A;  1BKJ A; 
#chains in the Genus database with same CATH topology
 1F5V A;  1KQB A;  3PXV A;  4BNB A;  1YWQ A;  3M5K A;  1IDT A;  4XOO A;  2YMV A;  3GE5 A;  3EOF A;  3K6H A;  4G8S A;  5J6C A;  3GFA A;  1ICV A;  1V5Z A;  1YLU A;  2R01 A;  1KQC A;  4XOQ A;  3BM1 A;  2ISL A;  5HEI A;  2ISK A;  5HDJ A;  1OO5 A;  1OON A;  3KOQ A;  4EO3 A;  1ICU A;  3X22 A;  2WZV A;  3BEM A;  3N2S A;  4BN6 A;  2HAY A;  3E10 A;  3GR3 A;  4BN9 A;  1NEC A;  2BKJ A;  3KWK A;  3H4O A;  2I7H A;  3GFD A;  3TNZ A;  4DN2 A;  2FRE A;  3BM2 A;  4QLY A;  3EK3 A;  4QLX A;  3EO7 A;  3GB5 A;  1ICR A;  2IFA A;  3G14 A;  2WZW A;  1OOQ A;  1YLR A;  1ZCH A;  4TTC A;  4BN7 A;  3E39 A;  3GH8 A;  1VKW A;  1DS7 A;  5KRD A;  1OO6 A;  2ISJ A;  4BN8 A;  3HJ9 A;  3EO8 A;  2B67 A;  3QDL A;  3OF4 A;  2WQF A;  1VFR A;  5KO8 A;  5KO7 A;  3GAG A;  3HZN A;  1NOX A;  3X21 A;  4XOM A;  1V5Y A;  3HOI A;  1YKI A;  3GBH A;  4TTB A;  2H0U A;  4URP A;  1J6R A;  1KQD A;  3GE6 A;  3TO0 A;  1BKJ A; 
#chains in the Genus database with same CATH homology
 1F5V A;  1KQB A;  3PXV A;  4BNB A;  1YWQ A;  3M5K A;  1IDT A;  4XOO A;  2YMV A;  3GE5 A;  3EOF A;  3K6H A;  4G8S A;  5J6C A;  3GFA A;  1ICV A;  1V5Z A;  1YLU A;  2R01 A;  1KQC A;  4XOQ A;  3BM1 A;  2ISL A;  5HEI A;  2ISK A;  5HDJ A;  1OO5 A;  1OON A;  3KOQ A;  4EO3 A;  1ICU A;  3X22 A;  2WZV A;  3BEM A;  3N2S A;  4BN6 A;  2HAY A;  3E10 A;  3GR3 A;  4BN9 A;  1NEC A;  2BKJ A;  3KWK A;  3H4O A;  2I7H A;  3GFD A;  3TNZ A;  4DN2 A;  2FRE A;  3BM2 A;  4QLY A;  3EK3 A;  4QLX A;  3EO7 A;  3GB5 A;  1ICR A;  2IFA A;  3G14 A;  2WZW A;  1OOQ A;  1YLR A;  1ZCH A;  4TTC A;  4BN7 A;  3E39 A;  3GH8 A;  1VKW A;  1DS7 A;  5KRD A;  1OO6 A;  2ISJ A;  4BN8 A;  3HJ9 A;  3EO8 A;  2B67 A;  3QDL A;  3OF4 A;  2WQF A;  1VFR A;  5KO8 A;  5KO7 A;  3GAG A;  3HZN A;  1NOX A;  3X21 A;  4XOM A;  1V5Y A;  3HOI A;  1YKI A;  3GBH A;  4TTB A;  2H0U A;  4URP A;  1J6R A;  1KQD A;  3GE6 A;  3TO0 A;  1BKJ 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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