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


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