3TFHA

Dmsp-dependent demethylase from p. ubique - apo
Total Genus 109
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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
109
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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publication title Structures of dimethylsulfoniopropionate-dependent demethylase from the marine organism Pelagabacter ubique.
pubmed doi rcsb
source organism Candidatus pelagibacter ubique
molecule tags Transferase
molecule keywords GcvT-like Aminomethyltransferase protein
total genus 109
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 3tfhA00
1WSRA 3A8KA 3TTGA 4P9SA 2GAGC 3GEHA 2GAHC 1WOPA 1XZQA 3TFIA 3TFHA 3A8JA 4PAAA 3AD9C 1XZQB 3GEEA 5L46A 1WORA 1YX2A 1WSVA 1WOOA 1X31C 1V5VA 1XZPA 1PJ7A 3TFJA 3GIRA 3ADAC 1VLOA 1VRQC 1XZPB 3AD7C 4PABA 1PJ6A 3GSIA 3AD8C 1WOSA 3GEIA 3A8IA 1PJ5A
chains in the Genus database with same CATH superfamily
3H0GC 3S2HC 4BLBA 1ISEA 4P9SA 4OIOA 3GTQC 3HOUK 5IP7K 4BY7K 1INNA 4MQ9A 4A3EK 3Q3QA 5IP9K 5IORA 4A3JK 3RZDK 5HL8A 4BXXC 3FKIK 4KB2A 1DD5A 1O26A 4A3LK 3S1NK 1EFWA 4BY1C 1TWGA 3HOYC 3HOVK 1YNNA 1WQHA 1ZYRA 4QJVA 3PO3C 2EBBA 4DDQA 3LAPA 3S14K 2B63K 4KN7A 3GTPC 3OEPA 3GTPK 3S16K 3OREA 2R7ZA 3DXJA 1VH2A 2BE5A 4A3MK 3GTLC 1IW7A 4PAAA 1I3QA 5M3FK 2PMZL 4MEXA 2A69A 2NVXA 4A3BC 1F7VA 1XZPA 4BY1K 3AD7C 3GTJA 2R92K 2P8TA 4A3GC 3S2HK 4C2MK 4A3DK 4G7HA 5IOTA 4KDDA 2CFAA 5IOQA 3GTKA 1R9TA 2NVYC 3G4AA 4AH6A 5C4JC 2NVTC 5L46A 1EH1A 4KATA 3S15C 3GTKC 1I50K 1I6VA 4OINA 4BBRC 4BXXK 4BBRK 4KM9A 3AQPA 1Y1WK 2E2HC 3HOZK 1TWFK 3S1MK 1BJTA 2R92A 2W7VA 1B4BA 4LJZA 2JA8C 2A6HA 2XCRB 3IPJA 1USOA 1JVIA 1WIHA 1WQGA 3GTOA 4A93C 4C3HK 1IQ0A 5FJ8K 4FZBA 2O5IA 1Y1WA 3GTLA 1WSVA 2JA5A 3HOYK 3N0BA 2R7ZK 4GT9A 4Y7NK 3NUHA 2XCQA 2E2HK 3GEIA 4C3IK 3ERED 4C2MC 4G0WA 1XXCA 5IP7C 3BUEA 5D4DA 2JA7A 5IYBK 5JVOA 1TWCA 5C44K 2P5MA 4NOIA 4BY7C 1XZQA 5C4JK 3FKIA 3GEEA 1WORA 4GTBA 4C3JK 1J98A 3HOVC 1O24A 2GSUA 1Y1VC 5C3EK 3EQLA 1G51A 2RGRA 4BBSC 1XZPB 2NVXK 1WOSA 2JA5K 4Y52C 4GFQA 4Y52K 1O29A 2Y0SL 5TMFA 4C3HC 1GE9A 4A3IC 2R93A 3N3YA 3S15K 3LPXA 2JA6A 1KQ4A 1RU0A 4C3JC 1TWHC 1WCMA 4BBSK 1SMYA 3M3YC 2WAQL 4Y7NC 2A6EA 1HI9A 5EGEA 3S1MC 3HOXC 4YG2A 1VJEA 1UV7A 1R9TC 4ZH4A 1EI6A 1R9TK 5CJ9A 5C4XK 1DCHA 3GTKK 2JH3A 1ZXOA 3GTOC 2KWAA 2PMZD 4LLGA 4A3KK 1K83K 4GTDA 4X6AK 1K83C 4O2DA 1L0WA 1IE0A 5IOSA 4A3CC 2V6UA 2R92C 3T02A 3GTJK 4YFNA 3PO2C 3GTGK 3HXAA 3I4MK 1Y1VK 4C3IC 3AD8C 5IYDK 2JA8K 3N0CA 4LOWA 4WJ4A 5IYCC 2RH6A 2GAGC 3M4OC 2YU9K 1O25A 2E2IC 1YNJA 3TFHA 3GDZA 4G0VA 5M3MK 3GTPA 1I6HC 1O2BA 4XLNA 4A3FK 1PJ7A 3SZZA 3GIRA 1WCMC 3H0GA 1DCOA 5M5WK 5IYDC 1XXBA 4Q5SA 3GTMK 2E2JK 1Y1WC 2GSNA 1O27A 4BLAA 3S2DC 5EGHA 1ZBSA 3S0XA 3SZYA 4A3MC 3FKIC 3WODA 2NVTK 1VGXA 3T00A 2WB1D 2WB1L 1YX2A 1SFOK 2JA7C 2E2HA 2PA8D 2PA8L 4KM8A 1VLOA 1PJ6A 2XCOA 3A8IA 4KASA 4LR2A 4G0UA 1DCPA 2E2IA 4A3DC 2B63C 1TWCC 4XSZA 3GEHA 3S16C 1WQFA 1BDFA 3A8JA 3S2DK 3LAJA 2JA6K 3S17K 2CFAB 4M1XA 3GTOK 3H3VL 2R93K 4BKWA 3JSTA 3M3YK 3FHZA 1XXAA 3BP8C 3RZDC 1TWHK 3FOFA 1ZQ1C 1K83A 3ADAC 3HOWK 4A3LC 4P5BA 3HOWC 2JA5C 4YFXA 4XLPA 3S1RK 1PJ5A 5TJ3A 3CQZA 2NVXC 3PO3K 3HOXK 2Y3PA 2E2JC 1I3QC 2V6TA 4XCHA 3I4NC 2Y0SD 3L4JA 2NVYA 3GTMA 1B4AA 2V6SA 3S1NC 2O5JA 2JA7K 1IBAA 1X31C 1I50C 4KMAA 4KB4A 3GTJC 3PO2K 3RZOC 4Q4ZA 3CQZC 4KC6A 4LK0A 3TTGA 4KMDA 1TWFC 3H0GK 1J6VA 4QIWD 4WILA 1I3QK 2VUMA 4QJVB 1WOPA 5M5YK 5C4XC 4QIWL 3TFIA 3GTQK 4GTEA 3HOUC 5JFEA 1XZQB 4FM9A 4A3KC 4OIQA 4A3FC 2R7ZC 4MEYA 4ILDA 1Y1VA 4KN4A 1F9NA 2FQOA 4GZYA 2WAQD 1ZVUA 4KMUA 4AYBD 1O2FB 3HOZC 1J6XA 1AB4A 4G7ZA 2PHCB 3I4MC 5IYCK 3S1QC 1TWCK 2ZFZA 5FLMK 4WJ3M 4KAWX 4XSXA 3AQOA 4A3IK 1F93A 2YU9C 4YFKA 3K7AC 4GTLA 1O28A 2VUMC 1TWGC 1WCMK 1YCLA 1VRQC 3S1QK 1XPPA 1WSRA 3OPFA 1IL2A 3I4NK 4AYBL 4P5AA 4GTAA 3QX3A 3GTQA 1USMA 2E2IK 2ZUFA 3H3VD 3AH5A 3FOEA 2D6FC 2NVQC 1TWFA 3AD9C 1SFOC 1HQMA 1EQRA 2A68A 1V5VA 1BS2A 3MMLB 2FQTA 3GTGC 4X6AC 3TFJA 2VUMK 1TWAA 1TWAC 1I50A 4OIRA 2ZUEA 3RZOK 5E68A 1F7UA 3GSIA 2GSOA 3G4CA 4A3GK 1C0AA 3A8KA 4J3NA 3M4OK 3GTMC 4OIPA 5TMCA 4KARA 4A3EC 2NVQK 2GAHC 3CAGA 5IYBC 5FLMC 4GTFA 4A93K 3K7AK 1J6WA 2NVYK 1WOOA 1EK8A 3V4GA 5M5XK 3HKZL 3HKZD 3CQZK 1TWAK 3L4KA 1BGWA 3S14C 2CW0A 2YU9A 1TWHA 4RMFA 4GTCA 3BP3A 2JA6C 3VA7A 5C44C 2B63A 3GTLK 4A3BK 4KMHA 2R93C 4LQYA 4LK1A 3S17C 4JK1A 5IP9C 4A3JC 5C3EC 1O2AA 1TWGK 3T01A 1I6HK 4C45A 3GTGA 4A3CK 5CHPA 2PPBA 1JQWA 4PABA 1JOEA 3S1RC 4G7OA 1IS1A 1SFOA
chains in the Genus database with same CATH topology
1WSRA 3A8KA 3TTGA 4P9SA 2GAGC 3GEHA 2GAHC 1WOPA 1XZQA 3TFIA 3TFHA 3A8JA 4PAAA 3AD9C 1XZQB 3GEEA 5L46A 1WORA 1YX2A 1WSVA 1WOOA 1X31C 1V5VA 1XZPA 1PJ7A 3TFJA 3GIRA 3ADAC 1VLOA 1VRQC 1XZPB 3AD7C 4PABA 1PJ6A 3GSIA 3AD8C 1WOSA 3GEIA 3A8IA 1PJ5A
chains in the Genus database with same CATH homology


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