3TFIA

Dmsp-dependent demethylase from p. ubique - with substrate dmsp
Total Genus 110
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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
110
sequence length
369
structure length
369
Chain Sequence
MKNFSIAKSRRLRSTPYTSRIEKQGVTAYTIYNHMLLPAAFGSIEDSYKHLKEHVQIWDVAAERQVEISGKDSAELVQLMTCRDLSKSKIGRCYYCPIIDENGNLVNDPVVLKLDENKWWISIADSDVIFFAKGLASGHKFDVKIVEPVVDIMAIQGPKSFALMEKVFGKKITELKFFGFDYFDFEGTKHLIARSGWSKQGGYEVYVENTQSGQKLYDHLFEVGKEFNVGPGCPNLIERIESALLSYGNDFDNNDNPFECGFDQYVSLDSDINFLGKEKLKEIKLKGPQKKLRGVKIDIKEISLTGSKNIYDENNNVIGELRSACYSPHFQKVIGIAMIKKSHWEASQGFKIQINDNTINGNVCDLPFI
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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 GcvT-like Aminomethyltransferase protein
publication title Structures of dimethylsulfoniopropionate-dependent demethylase from the marine organism Pelagabacter ubique.
pubmed doi rcsb
source organism Candidatus pelagibacter ubique
total genus 110
structure length 369
sequence length 369
chains with identical sequence B
ec nomenclature ec 2.1.1.269: Dimethylsulfoniopropionate demethylase.
pdb deposition date 2011-08-15

pfam database annotations

chain Pfam Accession Code Pfam Family Identifier Pfam Description
A PF01571 GCV_T Aminomethyltransferase folate-binding domain
A PF08669 GCV_T_C Glycine cleavage T-protein C-terminal barrel domain
Image from the rcsb pdb (www.rcsb.org)
cath code
ClassArchitectureTopologyHomologyDomain
3.30.1360.120 Alpha Beta 2-Layer Sandwich Gyrase A; domain 2 Probable tRNA modification gtpase trme; domain 1 3tfiA00
3GEIA 5L46A 1XZQA 1PJ6A 3AD9C 3A8JA 1YX2A 1XZPA 3A8KA 3AD8C 1X31C 1WOPA 1WSRA 3TFJA 2GAGC 1PJ7A 1V5VA 1WSVA 3GIRA 3TFHA 4P9SA 1PJ5A 3AD7C 3TFIA 4PABA 1WORA 3GEHA 3ADAC 3TTGA 1XZQB 2GAHC 1WOSA 1VRQC 1XZPB 3GEEA 3GSIA 1VLOA 3A8IA 1WOOA 4PAAA
chains in the Genus database with same CATH superfamily
3HOUC 4YFXA 1O2AA 1ISEA 3L4JA 3H3VL 1I6HK 3DXJA 1BDFA 1DCPA 4BBRK 5IP9K 1I50K 2NVYC 3CQZA 1J6XA 3S1NC 3I4MC 1EQRA 1K83C 4QJVB 1I6VA 3GEHA 1Y1WK 3ADAC 4A3IC 5FJ8K 1VGXA 1O24A 4A3EC 3GTGA 4P5BA 3T01A 4C3JC 2A6EA 5L46A 1XZQA 5C4XK 3HOVK 2FQTA 3GTPA 2E2JC 4A3GK 1TWAC 5IP7K 1X31C 4XLNA 3S1RC 2GSNA 4AYBD 3K7AK 4LK0A 1J6WA 2NVTC 1IW7A 5IYCK 1USMA 1Y1VA 2PHCB 4LQYA 4WILA 1ZYRA 1EH1A 1DCOA 4KATA 3GTLA 2JA8C 2E2IK 4A3LK 4A93K 3OPFA 4A3JK 3GTKC 1RU0A 1TWFA 4KB2A 3PO2C 1WQHA 5M3FK 4OIQA 2VUMK 3N0BA 4GTDA 2WB1L 2JA7K 1WCMK 3NUHA 1B4AA 2CW0A 3GTJC 3S1MK 2P8TA 4BBRC 4GTEA 3H3VD 1I50C 4KARA 2EBBA 3GEEA 3GSIA 4GTCA 4BXXC 3M4OK 1R9TC 1G51A 3GTMC 3A8JA 3GTQC 4KMHA 4C3HK 2NVYK 3A8KA 3I4MK 4MEXA 1K83K 3G4AA 5CHPA 2RH6A 1O29A 1JQWA 2FQOA 3OEPA 5C3EC 4A3KC 5M3MK 1C0AA 1BJTA 4A3GC 2PA8L 3M3YK 1SMYA 4KC6A 3I4NC 1WORA 3BUEA 4LR2A 4A3EK 3K7AC 4C3JK 2NVQC 5FLMC 2E2JK 3FKIK 5IOTA 4FM9A 3RZOK 2PMZL 1I50A 1TWAK 5IYCC 1XXAA 4BY7C 2R92C 1Y1WA 5IYDC 2NVTK 1YNJA 2CFAB 5C44C 3PO3K 5TMFA 3GTOC 4LLGA 3GDZA 2D6FC 2E2IC 4A3LC 3S14K 1EFWA 1PJ7A 4X6AC 1WSVA 2ZUEA 4MEYA 3T00A 1AB4A 3S16K 4MQ9A 5IOSA 3VA7A 2JA8K 4C2MK 3LPXA 3T02A 1WCMC 3GTKK 3WODA 3PO2K 2WB1D 4OIRA 2Y0SL 4OINA 4GTFA 3TFJA 3S0XA 3GTJK 3M4OC 1ZQ1C 1V5VA 2E2IA 4BLAA 4C3HC 1ZVUA 4QIWL 4PABA 4A3DC 4BXXK 1R9TK 1HQMA 2R93C 3GTMK 1WQFA 5CJ9A 3GTQK 1TWHC 2VUMA 2A6HA 5TMCA 2Y3PA 2JA7A 1WCMA 3AQPA 3M3YC 1GE9A 4C45A 1O25A 4O2DA 2GSOA 4A3KK 2PA8D 5C3EK 2A69A 3FKIC 1XZPA 3RZOC 3S15C 3I4NK 2PMZD 2NVQK 3BP8C 1F7VA 5FLMK 2JA5C 5IYBC 4P9SA 3PO3C 1TWGK 4BKWA 2NVYA 1YNNA 2W7VA 1O28A 3FOEA 1K83A 4ILDA 3S14C 2RGRA 4KAWX 4DDQA 2NVXK 4BY7K 2R92K 4QJVA 5IYDK 5C44K 3GTOK 3S16C 3L4KA 4C2MC 4X6AK 1I3QC 1YX2A 3FKIA 2P5MA 1VJEA 1TWAA 2XCOA 2XCRB 2ZUFA 2JH3A 3H0GC 1J98A 3LAPA 1F7UA 5D4DA 2PPBA 2Y0SD 1WOSA 4GTBA 1WOOA 1EI6A 1BGWA 1BS2A 4QIWD 4YFNA 2O5JA 4WJ4A 4KB4A 1I3QA 1WSRA 4XCHA 3GTKA 4LOWA 4KM9A 2BE5A 4G7HA 1J6VA 4A3DK 1SFOK 2R93K 4KMDA 3HXAA 1TWHK 1PJ5A 1IBAA 1WIHA 3GTJA 2KWAA 4Y52K 4G7ZA 4G0WA 1DCHA 1TWGC 4LK1A 3S15K 3G4CA 2E2HK 4ZH4A 5JVOA 4A3FK 3BP3A 1TWCK 3Q3QA 2NVXC 1R9TA 2JA5K 3GTMA 1JVIA 5IYBK 3N3YA 3GTQA 3V4GA 3S1QC 3CAGA 3AH5A 3S2DK 2YU9K 3RZDC 3TTGA 5M5YK 4BY1C 3S17C 1I3QK 5IORA 1O26A 1VLOA 5TJ3A 3OREA 4PAAA 4OIPA 1TWGA 4A3MC 1PJ6A 3AD9C 1XXCA 4JK1A 5HL8A 3H0GK 2NVXA 2R92A 4GT9A 2WAQL 3CQZC 2GAGC 5M5WK 3GTOA 1IE0A 2CFAA 2O5IA 1JOEA 1O2BA 2V6SA 4KN4A 1O2FB 2GSUA 3JSTA 1IQ0A 1XZQB 1SFOC 4YFKA 3GTGC 1XZPB 3QX3A 3A8IA 3GTPC 2JA6K 4J3NA 4P5AA 4Q5SA 4Y52C 4KDDA 4XSZA 5E68A 5EGEA 1XXBA 3HOWC 2E2HC 5M5XK 4A3FC 4BBSK 1TWCC 1Y1VC 3HOZK 4BLBA 2V6UA 4XLPA 4G7OA 5IOQA 4A3CC 4KASA 4YG2A 3GTLC 3SZYA 1SFOA 2R93A 1IL2A 1TWHA 3S2DC 3HKZL 2YU9C 1F93A 4A3BK 1TWFC 3S1QK 1WQGA 3FHZA 4NOIA 2R7ZK 4GZYA 4C3IK 4KMUA 2E2HA 1F9NA 5C4JC 3RZDK 3HOXK 1VH2A 4BY1K 4RMFA 1TWCA 2XCQA 3HOYC 3S17K 5JFEA 2JA5A 1L0WA 4Q4ZA 4A3MK 4GFQA 2WAQD 1UV7A 4Y7NC 3GEIA 4KN7A 4XSXA 3CQZK 4GTAA 2YU9A 3S2HC 2B63C 2JA6C 1HI9A 1INNA 1I6HC 3GTGK 3AD7C 3TFIA 2ZFZA 3GTPK 3H0GA 1USOA 5IP9C 4BBSC 3HOUK 2V6TA 4FZBA 3IPJA 3HOZC 3LAJA 3HOWK 1Y1WC 1XPPA 1YCLA 3FOFA 1ZXOA 3S1NK 1Y1VK 4GTLA 3AD8C 4AH6A 4G0VA 1WOPA 5C4XC 3HOVC 1O27A 2B63A 3MMLB 4A3IK 4A3BC 2JA6A 4A3CK 4M1XA 5IP7C 3GTLK 3HKZD 1B4BA 1ZBSA 2R7ZC 4C3IC 3ERED 3HOXC 1TWFK 4AYBL 3AQOA 3S1RK 5C4JK 4KM8A 2A68A 3HOYK 4WJ3M 4A93C 4A3JC 3GIRA 3SZZA 3TFHA 3N0CA 4Y7NK 4KMAA 1DD5A 2R7ZA 2VUMC 4G0UA 1KQ4A 4OIOA 2JA7C 2GAHC 4LJZA 1IS1A 1EK8A 1VRQC 5EGHA 3S1MC 3EQLA 3S2HK 2B63K
chains in the Genus database with same CATH topology
3GEIA 5L46A 1XZQA 1PJ6A 3AD9C 3A8JA 1YX2A 1XZPA 3A8KA 3AD8C 1X31C 1WOPA 1WSRA 3TFJA 2GAGC 1PJ7A 1V5VA 1WSVA 3GIRA 3TFHA 4P9SA 1PJ5A 3AD7C 3TFIA 4PABA 1WORA 3GEHA 3ADAC 3TTGA 1XZQB 2GAHC 1WOSA 1VRQC 1XZPB 3GEEA 3GSIA 1VLOA 3A8IA 1WOOA 4PAAA
chains in the Genus database with same CATH homology


 
#chains in the Genus database with same CATH superfamily
 3GEI A;  5L46 A;  1XZQ A;  1PJ6 A;  3AD9 C;  3A8J A;  1YX2 A;  1XZP A;  3A8K A;  3AD8 C;  1X31 C;  1WOP A;  1WSR A;  3TFJ A;  2GAG C;  1PJ7 A;  1V5V A;  1WSV A;  3GIR A;  3TFH A;  4P9S A;  1PJ5 A;  3AD7 C;  3TFI A;  4PAB A;  1WOR A;  3GEH A;  3ADA C;  3TTG A;  1XZQ B;  2GAH C;  1WOS A;  1VRQ C;  1XZP B;  3GEE A;  3GSI A;  1VLO A;  3A8I A;  1WOO A;  4PAA A; 
#chains in the Genus database with same CATH topology
 3HOU C;  4YFX A;  1O2A A;  1ISE A;  3L4J A;  3H3V L;  1I6H K;  3DXJ A;  1BDF A;  1DCP A;  4BBR K;  5IP9 K;  1I50 K;  2NVY C;  3CQZ A;  1J6X A;  3S1N C;  3I4M C;  1EQR A;  1K83 C;  4QJV B;  1I6V A;  3GEH A;  1Y1W K;  3ADA C;  4A3I C;  5FJ8 K;  1VGX A;  1O24 A;  4A3E C;  3GTG A;  4P5B A;  3T01 A;  4C3J C;  2A6E A;  5L46 A;  1XZQ A;  5C4X K;  3HOV K;  2FQT A;  3GTP A;  2E2J C;  4A3G K;  1TWA C;  5IP7 K;  1X31 C;  4XLN A;  3S1R C;  2GSN A;  4AYB D;  3K7A K;  4LK0 A;  1J6W A;  2NVT C;  1IW7 A;  5IYC K;  1USM A;  1Y1V A;  2PHC B;  4LQY A;  4WIL A;  1ZYR A;  1EH1 A;  1DCO A;  4KAT A;  3GTL A;  2JA8 C;  2E2I K;  4A3L K;  4A93 K;  3OPF A;  4A3J K;  3GTK C;  1RU0 A;  1TWF A;  4KB2 A;  3PO2 C;  1WQH A;  5M3F K;  4OIQ A;  2VUM K;  3N0B A;  4GTD A;  2WB1 L;  2JA7 K;  1WCM K;  3NUH A;  1B4A A;  2CW0 A;  3GTJ C;  3S1M K;  2P8T A;  4BBR C;  4GTE A;  3H3V D;  1I50 C;  4KAR A;  2EBB A;  3GEE A;  3GSI A;  4GTC A;  4BXX C;  3M4O K;  1R9T C;  1G51 A;  3GTM C;  3A8J A;  3GTQ C;  4KMH A;  4C3H K;  2NVY K;  3A8K A;  3I4M K;  4MEX A;  1K83 K;  3G4A A;  5CHP A;  2RH6 A;  1O29 A;  1JQW A;  2FQO A;  3OEP A;  5C3E C;  4A3K C;  5M3M K;  1C0A A;  1BJT A;  4A3G C;  2PA8 L;  3M3Y K;  1SMY A;  4KC6 A;  3I4N C;  1WOR A;  3BUE A;  4LR2 A;  4A3E K;  3K7A C;  4C3J K;  2NVQ C;  5FLM C;  2E2J K;  3FKI K;  5IOT A;  4FM9 A;  3RZO K;  2PMZ L;  1I50 A;  1TWA K;  5IYC C;  1XXA A;  4BY7 C;  2R92 C;  1Y1W A;  5IYD C;  2NVT K;  1YNJ A;  2CFA B;  5C44 C;  3PO3 K;  5TMF A;  3GTO C;  4LLG A;  3GDZ A;  2D6F C;  2E2I C;  4A3L C;  3S14 K;  1EFW A;  1PJ7 A;  4X6A C;  1WSV A;  2ZUE A;  4MEY A;  3T00 A;  1AB4 A;  3S16 K;  4MQ9 A;  5IOS A;  3VA7 A;  2JA8 K;  4C2M K;  3LPX A;  3T02 A;  1WCM C;  3GTK K;  3WOD A;  3PO2 K;  2WB1 D;  4OIR A;  2Y0S L;  4OIN A;  4GTF A;  3TFJ A;  3S0X A;  3GTJ K;  3M4O C;  1ZQ1 C;  1V5V A;  2E2I A;  4BLA A;  4C3H C;  1ZVU A;  4QIW L;  4PAB A;  4A3D C;  4BXX K;  1R9T K;  1HQM A;  2R93 C;  3GTM K;  1WQF A;  5CJ9 A;  3GTQ K;  1TWH C;  2VUM A;  2A6H A;  5TMC A;  2Y3P A;  2JA7 A;  1WCM A;  3AQP A;  3M3Y C;  1GE9 A;  4C45 A;  1O25 A;  4O2D A;  2GSO A;  4A3K K;  2PA8 D;  5C3E K;  2A69 A;  3FKI C;  1XZP A;  3RZO C;  3S15 C;  3I4N K;  2PMZ D;  2NVQ K;  3BP8 C;  1F7V A;  5FLM K;  2JA5 C;  5IYB C;  4P9S A;  3PO3 C;  1TWG K;  4BKW A;  2NVY A;  1YNN A;  2W7V A;  1O28 A;  3FOE A;  1K83 A;  4ILD A;  3S14 C;  2RGR A;  4KAW X;  4DDQ A;  2NVX K;  4BY7 K;  2R92 K;  4QJV A;  5IYD K;  5C44 K;  3GTO K;  3S16 C;  3L4K A;  4C2M C;  4X6A K;  1I3Q C;  1YX2 A;  3FKI A;  2P5M A;  1VJE A;  1TWA A;  2XCO A;  2XCR B;  2ZUF A;  2JH3 A;  3H0G C;  1J98 A;  3LAP A;  1F7U A;  5D4D A;  2PPB A;  2Y0S D;  1WOS A;  4GTB A;  1WOO A;  1EI6 A;  1BGW A;  1BS2 A;  4QIW D;  4YFN A;  2O5J A;  4WJ4 A;  4KB4 A;  1I3Q A;  1WSR A;  4XCH A;  3GTK A;  4LOW A;  4KM9 A;  2BE5 A;  4G7H A;  1J6V A;  4A3D K;  1SFO K;  2R93 K;  4KMD A;  3HXA A;  1TWH K;  1PJ5 A;  1IBA A;  1WIH A;  3GTJ A;  2KWA A;  4Y52 K;  4G7Z A;  4G0W A;  1DCH A;  1TWG C;  4LK1 A;  3S15 K;  3G4C A;  2E2H K;  4ZH4 A;  5JVO A;  4A3F K;  3BP3 A;  1TWC K;  3Q3Q A;  2NVX C;  1R9T A;  2JA5 K;  3GTM A;  1JVI A;  5IYB K;  3N3Y A;  3GTQ A;  3V4G A;  3S1Q C;  3CAG A;  3AH5 A;  3S2D K;  2YU9 K;  3RZD C;  3TTG A;  5M5Y K;  4BY1 C;  3S17 C;  1I3Q K;  5IOR A;  1O26 A;  1VLO A;  5TJ3 A;  3ORE A;  4PAA A;  4OIP A;  1TWG A;  4A3M C;  1PJ6 A;  3AD9 C;  1XXC A;  4JK1 A;  5HL8 A;  3H0G K;  2NVX A;  2R92 A;  4GT9 A;  2WAQ L;  3CQZ C;  2GAG C;  5M5W K;  3GTO A;  1IE0 A;  2CFA A;  2O5I A;  1JOE A;  1O2B A;  2V6S A;  4KN4 A;  1O2F B;  2GSU A;  3JST A;  1IQ0 A;  1XZQ B;  1SFO C;  4YFK A;  3GTG C;  1XZP B;  3QX3 A;  3A8I A;  3GTP C;  2JA6 K;  4J3N A;  4P5A A;  4Q5S A;  4Y52 C;  4KDD A;  4XSZ A;  5E68 A;  5EGE A;  1XXB A;  3HOW C;  2E2H C;  5M5X K;  4A3F C;  4BBS K;  1TWC C;  1Y1V C;  3HOZ K;  4BLB A;  2V6U A;  4XLP A;  4G7O A;  5IOQ A;  4A3C C;  4KAS A;  4YG2 A;  3GTL C;  3SZY A;  1SFO A;  2R93 A;  1IL2 A;  1TWH A;  3S2D C;  3HKZ L;  2YU9 C;  1F93 A;  4A3B K;  1TWF C;  3S1Q K;  1WQG A;  3FHZ A;  4NOI A;  2R7Z K;  4GZY A;  4C3I K;  4KMU A;  2E2H A;  1F9N A;  5C4J C;  3RZD K;  3HOX K;  1VH2 A;  4BY1 K;  4RMF A;  1TWC A;  2XCQ A;  3HOY C;  3S17 K;  5JFE A;  2JA5 A;  1L0W A;  4Q4Z A;  4A3M K;  4GFQ A;  2WAQ D;  1UV7 A;  4Y7N C;  3GEI A;  4KN7 A;  4XSX A;  3CQZ K;  4GTA A;  2YU9 A;  3S2H C;  2B63 C;  2JA6 C;  1HI9 A;  1INN A;  1I6H C;  3GTG K;  3AD7 C;  3TFI A;  2ZFZ A;  3GTP K;  3H0G A;  1USO A;  5IP9 C;  4BBS C;  3HOU K;  2V6T A;  4FZB A;  3IPJ A;  3HOZ C;  3LAJ A;  3HOW K;  1Y1W C;  1XPP A;  1YCL A;  3FOF A;  1ZXO A;  3S1N K;  1Y1V K;  4GTL A;  3AD8 C;  4AH6 A;  4G0V A;  1WOP A;  5C4X C;  3HOV C;  1O27 A;  2B63 A;  3MML B;  4A3I K;  4A3B C;  2JA6 A;  4A3C K;  4M1X A;  5IP7 C;  3GTL K;  3HKZ D;  1B4B A;  1ZBS A;  2R7Z C;  4C3I C;  3ERE D;  3HOX C;  1TWF K;  4AYB L;  3AQO A;  3S1R K;  5C4J K;  4KM8 A;  2A68 A;  3HOY K;  4WJ3 M;  4A93 C;  4A3J C;  3GIR A;  3SZZ A;  3TFH A;  3N0C A;  4Y7N K;  4KMA A;  1DD5 A;  2R7Z A;  2VUM C;  4G0U A;  1KQ4 A;  4OIO A;  2JA7 C;  2GAH C;  4LJZ A;  1IS1 A;  1EK8 A;  1VRQ C;  5EGH A;  3S1M C;  3EQL A;  3S2H K;  2B63 K; 
#chains in the Genus database with same CATH homology
 3GEI A;  5L46 A;  1XZQ A;  1PJ6 A;  3AD9 C;  3A8J A;  1YX2 A;  1XZP A;  3A8K A;  3AD8 C;  1X31 C;  1WOP A;  1WSR A;  3TFJ A;  2GAG C;  1PJ7 A;  1V5V A;  1WSV A;  3GIR A;  3TFH A;  4P9S A;  1PJ5 A;  3AD7 C;  3TFI A;  4PAB A;  1WOR A;  3GEH A;  3ADA C;  3TTG A;  1XZQ B;  2GAH C;  1WOS A;  1VRQ C;  1XZP B;  3GEE A;  3GSI A;  1VLO A;  3A8I A;  1WOO A;  4PAA 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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