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 |
77
|
Knots found |
|
sequence length |
247
|
structure length |
239
|
Chain Sequence |
HMWIGVISLFPEMFKAITEFGVTGRAVKHNLLKVECWNPRDFTFDKHKTVDDRPYGGGPGMLMMVQPLRDAIHTAKAAAGEGAKVIYLSPQGRKLDQGGVTELAQNQKLILVCGRYEGIDERLIQTEIDEEWSIGDYVLTGGELPAMTLIDAVARFIPGVLDSFADGLLDCPHYTRPEVLEGLTVPPVLMSGHHEEIRKWRLKQSLQRTWLRRPELLEGLALTDEQRKLLKEAQAEHNS
|
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.
After clicking on a point (x,y) in the genus matrix above, a subchain from x to y is shown in color.
| publication title |
Structural basis for methyl-donor-dependent and sequence-specific binding to tRNA substrates by knotted methyltransferase TrmD.
pubmed doi rcsb |
| molecule keywords |
tRNA (guanine-N(1)-)-methyltransferase
|
| molecule tags |
Transferase
|
| source organism |
Haemophilus influenzae (strain atcc 51907 / dsm 11121 / kw20 / rd)
|
| total genus |
77
|
| structure length |
239
|
| sequence length |
247
|
| other databases |
 KnotProt 2.0: K +31
|
| ec nomenclature |
ec
2.1.1.228: tRNA (guanine(37)-N(1))-methyltransferase. |
| pdb deposition date | 2015-03-20 |
| chain | Pfam Accession Code | Pfam Family Identifier | Pfam Description |
|---|---|---|---|
| A | PF01746 | tRNA_m1G_MT | tRNA (Guanine-1)-methyltransferase |
Image from the rcsb pdb (www.rcsb.org)
cath code
| Class | Architecture | Topology | Homology | Domain |
|---|---|---|---|---|---|
| Mainly Alpha | Orthogonal Bundle | Trp Operon Repressor; Chain A | tRNA(m1g37)methyltransferase, domain 2 | ||
| Alpha Beta | 3-Layer(aba) Sandwich | Alpha/beta knot | Alpha/beta knot |
#chains in the Genus database with same CATH superfamily 4YQC A; 1UAJ A; 4CND A; 1Z85 A; 3KNU A; 1X7P A; 4YPY A; 1UAK A; 4MCB A; 4YQ4 A; 1VHY A; 2QMM A; 3ILK A; 3ONP A; 4E8B A; 4H3Z A; 2Z0Y A; 4YQT A; 1ZJR A; 3O7B A; 4X3M A; 4XBO A; 4X3L A; 3KTY A; 3N4J A; 5GMC A; 1GZ0 A; 3NK6 A; 1NS5 A; 4PZK A; 3KY7 A; 1K3R A; 4YQQ A; 2V3K A; 1OY5 A; 3KW2 A; 3AXZ A; 4YVG A; 3AIA A; 5FAI A; 1O6D A; 3BBD A; 3L8U A; 4YQG A; 2HA8 A; 2CX8 A; 4YQ9 A; 4YVJ A; 4YQK A; 4YPZ A; 4KGN A; 4YQ3 A; 3GYQ A; 1VH0 A; 3QUV A; 4FAK A; 4CNG A; 4L69 A; 1V2X A; 4YQP A; 2V3J A; 5CO4 A; 4YVI A; 4IG6 A; 3IEF A; 5GM8 A; 3IC6 A; 2YY8 A; 4YVK A; 4H3Y A; 4YQR A; 2QWV A; 3DCM X; 4CNF A; 2EGV A; 4YQS A; 4YQ0 A; 1TO0 A; 1UAM A; 4YQI A; 4YPX A; 4YQL A; 4JAK A; 3BBE A; 3OIN A; 4YQ7 A; 1VHK A; 3BBH A; 2EGW A; 4YQB A; 4KDZ A; 1MXI A; 4YQD A; 2O3A A; 4J3C A; 4MCC A; 4YVH A; 3E5Y A; 5GMB A; 4MCD A; 4YQJ A; 1J85 A; 1P9P A; 4RG1 A; 4CNE A; 2I6D A; 1UAL A; 4YQA A; 4YQO A; 3AI9 X; 3N4K A; 3NK7 A; 4JAL A; 4YQN A; 4YQ8 A; 4YQ5 A; 5D9F A; 1X7O A; 4YQ6 A; 1IPA A; 3OII A; 1NXZ A; 1V6Z A; 3OIJ A; 4YQ2 A; 4YPW A; 4YQ1 A; #chains in the Genus database with same CATH topology 1WRP R; 4YQC A; 1UAJ A; 3G1C A; 4CND A; 1Z85 A; 3KNU A; 1X7P A; 4YPY A; 1UAK A; 4MCB A; 4YQ4 A; 1VHY A; 2QMM A; 3ILK A; 3ONP A; 4E8B A; 4H3Z A; 3FRW A; 4YQT A; 1ZJR A; 2Z0Y A; 3O7B A; 4X3M A; 4X3L A; 4XBO A; 3KOR A; 3KTY A; 3N4J A; 5GMC A; 1GZ0 A; 3NK6 A; 1NS5 A; 4PZK A; 3KY7 A; 1K3R A; 4YQQ A; 2XDI A; 1OY5 A; 2V3K A; 3KW2 A; 3AXZ A; 4YVG A; 3AIA A; 5FAI A; 1O6D A; 3BBD A; 3L8U A; 4YQG A; 4JWF A; 2HA8 A; 2CX8 A; 4YQ9 A; 4YVJ A; 4YQK A; 4YPZ A; 4KGN A; 4YQ3 A; 1MI7 R; 3GYQ A; 1VH0 A; 3QUV A; 4FAK A; 4CNG A; 4L69 A; 1V2X A; 4YQP A; 2V3J A; 5CO4 A; 4YVI A; 4IG6 A; 1TRR A; 1ZT9 A; 3IEF A; 5GM8 A; 3IC6 A; 2YY8 A; 3SSX N; 1CO0 A; 4YVK A; 4H3Y A; 4YQR A; 2QWV A; 3DCM X; 4CNF A; 2EGV A; 4YQS A; 4YQ0 A; 1TO0 A; 1UAM A; 4YQI A; 4YPX A; 4YQL A; 4JAK A; 3BBE A; 4JWJ A; 3OIN A; 4JWG A; 4YQ7 A; 1VHK A; 4JWH A; 3BBH A; 2EGW A; 1WRT R; 4YQB A; 4KDZ A; 3SSW N; 1MXI A; 4YQD A; 2O3A A; 4J3C A; 4MCC A; 4YVH A; 3E5Y A; 5GMB A; 4MCD A; 4FMW A; 1RCS A; 4YQJ A; 1J85 A; 1P9P A; 4RG1 A; 3WRP A; 1JHG A; 4CNE A; 1WRS R; 2I6D A; 1UAL A; 4YQA A; 4YQO A; 3AI9 X; 1TRO A; 3N4K A; 3NK7 A; 4JAL A; 4YQN A; 4YQ8 A; 2OZ9 R; 4YQ5 A; 5D9F A; 1X7O A; 4YQ6 A; 1IPA A; 3OII A; 1NXZ A; 1V6Z A; 3OIJ A; 4YQ2 A; 4YPW A; 4YQ1 A; #chains in the Genus database with same CATH homology 4YQC A; 1UAJ A; 4CND A; 1Z85 A; 3KNU A; 1X7P A; 4YPY A; 1UAK A; 4MCB A; 4YQ4 A; 1VHY A; 2QMM A; 3ILK A; 3ONP A; 4E8B A; 4H3Z A; 2Z0Y A; 4YQT A; 1ZJR A; 3O7B A; 4X3M A; 4XBO A; 4X3L A; 3KTY A; 3N4J A; 5GMC A; 1GZ0 A; 3NK6 A; 1NS5 A; 4PZK A; 3KY7 A; 1K3R A; 4YQQ A; 2V3K A; 1OY5 A; 3KW2 A; 3AXZ A; 4YVG A; 3AIA A; 5FAI A; 1O6D A; 3BBD A; 3L8U A; 4YQG A; 4JWF A; 2HA8 A; 2CX8 A; 4YQ9 A; 4YVJ A; 4YQK A; 4YPZ A; 4KGN A; 4YQ3 A; 3GYQ A; 1VH0 A; 3QUV A; 4FAK A; 4CNG A; 4L69 A; 1V2X A; 4YQP A; 2V3J A; 5CO4 A; 4YVI A; 4IG6 A; 3IEF A; 5GM8 A; 3IC6 A; 2YY8 A; 4YVK A; 4H3Y A; 4YQR A; 2QWV A; 3DCM X; 4CNF A; 2EGV A; 4YQS A; 4YQ0 A; 1TO0 A; 1UAM A; 4YQI A; 4YPX A; 4YQL A; 4JAK A; 3BBE A; 4JWJ A; 3OIN A; 4JWG A; 4YQ7 A; 1VHK A; 4JWH A; 3BBH A; 2EGW A; 4YQB A; 4KDZ A; 1MXI A; 4YQD A; 2O3A A; 4J3C A; 4MCC A; 4YVH A; 3E5Y A; 5GMB A; 4MCD A; 4FMW A; 4YQJ A; 1J85 A; 1P9P A; 4RG1 A; 4CNE A; 2I6D A; 1UAL A; 4YQA A; 4YQO A; 3AI9 X; 3N4K A; 3NK7 A; 4JAL A; 4YQN A; 4YQ8 A; 4YQ5 A; 5D9F A; 1X7O A; 4YQ6 A; 1IPA A; 3OII A; 1NXZ A; 1V6Z A; 3OIJ A; 4YQ2 A; 4YPW A; 4YQ1 A;
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