3TFJA

Dmsp-dependent demethylase from p. ubique - with cofactor thf
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
Loading diagram...

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
source organism Candidatus pelagibacter ubique
publication title Structures of dimethylsulfoniopropionate-dependent demethylase from the marine organism Pelagabacter ubique.
pubmed doi rcsb
molecule keywords GcvT-like Aminomethyltransferase protein
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 3tfjA00
3AD8C 3A8IA 1WOSA 1XZQB 2GAHC 1PJ7A 1X31C 3ADAC 5L46A 3TFIA 4PAAA 1WOPA 1WOOA 3A8KA 3GEIA 1WORA 1XZPA 3AD7C 1VRQC 3A8JA 1PJ6A 3GEEA 3GIRA 1XZPB 1PJ5A 3AD9C 1VLOA 3TFHA 3GEHA 1WSVA 3TTGA 1XZQA 2GAGC 3GSIA 3TFJA 1V5VA 4P9SA 1WSRA 4PABA 1YX2A
chains in the Genus database with same CATH superfamily
4KMAA 3GTJC 3A8IA 3GTJK 1Y1WA 4Q5SA 3PO2C 3PO2K 2WAQD 4AH6A 4O2DA 5TJ3A 3BP3A 2NVYA 4GTLA 1TWFA 1Y1WC 1Y1WK 2R7ZC 2R7ZK 3G4AA 2YU9A 4C45A 4LK0A 1EFWA 3L4JA 1K83A 3SZZA 3FKIC 2JA8C 4A3JC 3FKIK 2JA8K 4A3JK 3FHZA 3N3YA 3HOXC 3HOXK 1ZVUA 1TWFC 1TWFK 2GSNA 3HOUC 3HOUK 2JA7K 2YU9C 2YU9K 3GTQA 3S16K 4A3DC 4A3DK 3RZDC 1I3QC 1PJ6A 1IS1A 1I3QK 3RZDK 1IBAA 1PJ5A 3T00A 2FQOA 1K83C 1K83K 3GTPA 4MQ9A 2R93A 4A3GC 4A3GK 3CAGA 4J3NA 1O28A 3AD8C 1O26A 3M3YC 4BBSC 1O24A 3M3YK 5IYDC 3GTLA 4BBSK 5L46A 1VGXA 3GTPC 3GTPK 1Y1VC 1Y1VK 1XZPB 3GTLC 1BJTA 4A3LC 4A3LK 3T02A 4G0WA 4MEXA 1JQWA 3DXJA 1IW7A 3S1NC 4LLGA 3S1NK 3S0XA 3ADAC 3S1MC 3S1MK 1IL2A 4FM9A 4LQYA 2Y0SL 4KB2A 2E2IA 2JA5A 1F7VA 1B4AA 4G0UA 4C2MC 4C2MK 5JVOA 1SMYA 2R92C 2R92K 4KM8A 2NVQC 2NVQK 2GSUA 1O2BA 1BDFA 1HQMA 2JA5C 2JA5K 1J6VA 1SFOA 3A8KA 3GEIA 4C3JC 1EK8A 4C3JK 4DDQA 2JH3A 4YG2A 1I50A 3BP8C 2Y0SD 3AQPA 4QJVB 4BXXC 1R9TA 4BXXK 2A6HA 1INNA 4P9SA 4A3FC 4LR2A 1WQFA 4A3FK 2VUMA 1YCLA 4JK1A 1HI9A 3HOWC 2PA8D 3HOWK 5TMFA 1IE0A 1X31C 2GSOA 1I50C 4KAWX 5IYCC 1I50K 5IYCK 4QIWD 1KQ4A 1WQGA 2RGRA 4YFNA 2B63A 1C0AA 2NVTC 3M4OC 2NVTK 3M4OK 3FOFA 4QJVA 5D4DA 5C44C 1TWGA 2A68A 5C44K 3HXAA 4MEYA 1IQ0A 2D6FC 2BE5A 1TWAA 4X6AC 4X6AK 2B63C 2B63K 4GTFA 1DD5A 4KB4A 4XCHA 4KDDA 3TFIA 1DCOA 2NVYC 2NVYK 3BUEA 3VA7A 3LAPA 3HOYC 3HOYK 5M5XK 4KARA 3AD9C 5IP7C 5IP7K 1O25A 2V6TA 5CHPA 5JFEA 1WCMA 4LK1A 1ZXOA 3GDZA 4BLAA 4BY1C 5IOQA 4BY1K 3S1QC 2KWAA 3S1QK 1GE9A 4G0VA 3GTQC 3GTQK 1F9NA 3L4KA 2ZUEA 4KC6A 5IYDK 3HKZL 1XXCA 1WOPA 2JA6A 1JOEA 2NVXA 4RMFA 3GTMA 1TWHA 2R93C 3LPXA 1WQHA 2R93K 5IP9C 5IP9K 4XSXA 4Q4ZA 5FLMC 5FLMK 5E68A 2A6EA 1UV7A 3MMLB 5HL8A 2XCRB 3GTLK 4GZYA 3AH5A 2NVXC 2NVXK 3GTMC 4C3HC 1TWHC 3GTMK 4C3HK 1WSRA 1TWHK 3S17C 3S17K 4GTAA 4P5AA 3I4MC 3HOVC 3I4MK 3HOVK 1JVIA 1USOA 2P8TA 3S2DC 3S2DK 4FZBA 1F7UA 5EGEA 3A8JA 3HKZD 2E2HA 5M3MK 3CQZA 4KMDA 4XLNA 3PO3C 1USMA 3PO3K 2PA8L 4QIWL 4XLPA 1WOSA 1XZQB 2O5IA 4M1XA 2E2IC 2E2HC 2E2IK 2E2HK 1YNNA 3FOEA 4GTEA 5C4JC 5C4JK 1I6VA 3T01A 2A69A 1RU0A 2W7VA 4KN4A 3H0GA 4GFQA 3GEHA 5M3FK 4AYBL 1I6HC 1I6HK 1ZBSA 5EGHA 1ZYRA 3JSTA 4WILA 3S2HK 3N0CA 3S2HC 3OREA 3IPJA 1SFOC 4KM9A 1SFOK 1XXBA 1XZQA 2ZUFA 1O2FB 4OIRA 3S15C 4PAAA 2P5MA 3I4NC 3AD7C 3GTJA 1R9TC 1R9TK 3ERED 3S1RC 4WJ4A 4GTCA 3TFHA 2EBBA 2VUMC 2VUMK 3S14C 3TTGA 3S14K 1L0WA 3H3VL 1TWCA 2XCQA 2FQTA 1YX2A 4AYBD 2R7ZA 2V6SA 4KMHA 4A3MC 5IORA 4A3MK 1WORA 5C3EC 5C3EK 1TWGC 1J6WA 1TWGK 1TWCC 1XPPA 3FKIA 1TWCK 5IYBC 5IYBK 1TWAC 1YNJA 1TWAK 1EI6A 2JA7A 4BBRC 4BBRK 4A3CC 4A3CK 3GSIA 1I3QA 2CFAB 3AQOA 2V6UA 3QX3A 3H3VD 1B4BA 3GTKA 2Y3PA 2JA7C 4ILDA 1VH2A 3S16C 2PMZL 1WCMC 1XXAA 4G7HA 1WCMK 1DCHA 4C3IC 4C3IK 4KN7A 3GIRA 3V4GA 4G7OA 5FJ8K 1Y1VA 1AB4A 2CFAA 2WB1L 3GTKC 3GTKK 2JA6C 1O29A 2JA6K 4PABA 4A3EC 4A3EK 1ISEA 2GAHC 4YFXA 1BGWA 1VJEA 4GT9A 1WOOA 1J98A 3GTGA 1G51A 3N0BA 1BS2A 3HOZC 3HOZK 1EH1A 4KASA 4ZH4A 1VLOA 1WSVA 2PMZD 1EQRA 5TMCA 2GAGC 4LJZA 3EQLA 2O5JA 2E2JC 2E2JK 3GTGC 3GTGK 1ZQ1C 3GTOA 2R92A 2WB1D 2RH6A 1PJ7A 4KMUA 1WIHA 2PPBA 4NOIA 3NUHA 2ZFZA 3CQZC 3CQZK 3OEPA 5CJ9A 4BY7C 4WJ3M 4BY7K 3K7AC 1XZPA 5IOTA 3K7AK 4P5BA 4LOWA 1VRQC 1J6XA 1DCPA 4Y7NC 4Y7NK 5IOSA 4GTBA 3GTOC 3GTOK 5M5WK 4BKWA 4A93C 4G7ZA 4A93K 4A3BC 3SZYA 4A3BK 1O27A 3TFJA 1V5VA 4OIPA 4A3IC 4A3IK 2WAQL 1F93A 4Y52C 4Y52K 4YFKA 4OINA 3H0GC 3H0GK 5C4XC 5C4XK 3S15K 3LAJA 4GTDA 3I4NK 3WODA 4BLBA 4OIQA 2PHCB 3OPFA 2XCOA 3Q3QA 4KATA 3GEEA 3S1RK 5M5YK 4OIOA 4XSZA 1O2AA 3G4CA 3RZOC 3RZOK 4A3KC 4A3KK 2CW0A
chains in the Genus database with same CATH topology
3AD8C 3A8IA 1WOSA 1XZQB 2GAHC 1PJ7A 1X31C 3ADAC 5L46A 3TFIA 4PAAA 1WOPA 1WOOA 3A8KA 3GEIA 1WORA 1XZPA 3AD7C 1VRQC 3A8JA 1PJ6A 3GEEA 3GIRA 1XZPB 1PJ5A 3AD9C 1VLOA 3TFHA 3GEHA 1WSVA 3TTGA 1XZQA 2GAGC 3GSIA 3TFJA 1V5VA 4P9SA 1WSRA 4PABA 1YX2A
chains in the Genus database with same CATH homology


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