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


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