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


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