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


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