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


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