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


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