4YPYA

Crystal structure of trmd, a m1g37 trna methyltransferase with sam-competitive compounds
Total Genus 74
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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
74
sequence length
248
structure length
239
Chain Sequence
SHMWIGVISLFPEMFKAITEFGVTGRAVKHNLLKVECWNPRDFTFDKHKTVDDRPYGGGPGMLMMVQPLRDAIHTAKAAAGEGAKVIYLSPQGRKLDQGGVTELAQNQKLILVCGRYEGIDERLIQTEIDEEWSIGDYVLTGGELPAMTLIDAVARFIPGVLSFADGLLDCPHYTRPEVLEGLTVPPVLMSGHHEEIRKWRLKQSLQRTWLRRPELLEGLALTDEQRKLLKEAQAEHNS
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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 tRNA (guanine-N(1)-)-methyltransferase
publication title Crystal structure of TrmD, a M1G37 tRNA Methyltransferase with SAM-competitive compounds
rcsb
source organism Haemophilus influenzae (strain atcc 51907 / dsm 11121 / kw20 / rd)
molecule tags Transferase/transferase inhibitor
total genus 74
structure length 239
sequence length 248
ec nomenclature ec 2.1.1.228: tRNA (guanine(37)-N(1))-methyltransferase.
pdb deposition date 2015-03-13

pfam database annotations

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
ClassArchitectureTopologyHomologyDomain
1.10.1270.20 Mainly Alpha Orthogonal Bundle Trp Operon Repressor; Chain A tRNA(m1g37)methyltransferase, domain 2 4ypyA02
3.40.1280.10 Alpha Beta 3-Layer(aba) Sandwich Alpha/beta knot Alpha/beta knot 4ypyA01
2QWVA 4H3ZA 4YVGA 4YQQA 4YPZA 4YPWA 4E8BA 4YQ8A 1GZ0A 3QUVA 4KDZA 4X3LA 3BBDA 4XBOA 1VHKA 3DCMX 1VHYA 1UALA 5FAIA 3BBHA 3NK6A 4YVHA 1Z85A 2EGVA 3NK7A 2YY8A 4JAKA 3ILKA 3O7BA 4MCDA 4YQ6A 1MXIA 4CNDA 1IPAA 3IC6A 4YQKA 4YVIA 4JALA 1UAKA 4YQ1A 3GYQA 4YQ3A 4J3CA 3KW2A 4YQ0A 3AI9X 4RG1A 5D9FA 4YVKA 3E5YA 5GMCA 1ZJRA 4MCCA 3OIIA 4YPXA 4YQSA 3L8UA 2QMMA 4YQCA 4YQTA 4YQOA 4YQNA 4YQRA 4YQIA 3OIJA 4YQLA 4YQAA 4YQ2A 2HA8A 3N4JA 4YQBA 4YQ4A 4YQGA 4KGNA 4CNGA 1P9PA 4YQ9A 4H3YA 4YQPA 1NS5A 1VH0A 2V3KA 3IEFA 1UAMA 3AXZA 2EGWA 3KTYA 4PZKA 5GMBA 4YQ5A 4CNEA 3OINA 3KNUA 3AIAA 1X7OA 3BBEA 3ONPA 2O3AA 1X7PA 2CX8A 4MCBA 2I6DA 1K3RA 1V6ZA 4YQJA 1OY5A 3N4KA 4X3MA 5GM8A 4YQ7A 1J85A 4YQDA 3KY7A 4IG6A 5CO4A 4FAKA 2Z0YA 4YPYA 1O6DA 1V2XA 2V3JA 4L69A 4CNFA 4YVJA 1NXZA 1UAJA 1TO0A
chains in the Genus database with same CATH superfamily
2QWVA 4H3ZA 4YVGA 4YQQA 4YPZA 4YPWA 4E8BA 4YQ8A 1GZ0A 3QUVA 4KDZA 4X3LA 3BBDA 4XBOA 1VHKA 3DCMX 1VHYA 1UALA 5FAIA 3BBHA 3NK6A 4YVHA 1Z85A 2EGVA 3NK7A 2YY8A 4JAKA 3ILKA 3O7BA 1WRPR 4MCDA 4YQ6A 3SSXN 1MXIA 4CNDA 1IPAA 3IC6A 4YQKA 4YVIA 4JALA 1UAKA 4YQ1A 3GYQA 2OZ9R 4YQ3A 4J3CA 3KW2A 4YQ0A 4JWFA 1JHGA 3AI9X 3G1CA 1ZT9A 4RG1A 5D9FA 4YVKA 3E5YA 5GMCA 1ZJRA 4MCCA 3OIIA 4YPXA 4YQSA 3L8UA 1TROA 2QMMA 4YQCA 4YQTA 1CO0A 4YQOA 4YQNA 4YQRA 4YQIA 4FMWA 3OIJA 4JWGA 4YQLA 4YQAA 4YQ2A 2HA8A 3SSWN 3N4JA 4JWJA 4YQBA 4YQ4A 3KORA 4YQGA 4KGNA 4CNGA 1P9PA 4YQ9A 4H3YA 4YQPA 1NS5A 1VH0A 2V3KA 3IEFA 1UAMA 3AXZA 2EGWA 3KTYA 4PZKA 5GMBA 4YQ5A 4CNEA 3OINA 3KNUA 2XDIA 1MI7R 3AIAA 3FRWA 3WRPA 1X7OA 3BBEA 3ONPA 2O3AA 1X7PA 2CX8A 4MCBA 2I6DA 1K3RA 1V6ZA 1TRRA 4YQJA 1OY5A 3N4KA 4X3MA 5GM8A 4YQ7A 1J85A 4YQDA 3KY7A 4IG6A 5CO4A 1WRSR 4FAKA 2Z0YA 4YPYA 1RCSA 1WRTR 1O6DA 1V2XA 2V3JA 4L69A 4CNFA 4YVJA 1NXZA 1UAJA 1TO0A 4JWHA
chains in the Genus database with same CATH topology
2QWVA 4H3ZA 4YVGA 4YQQA 4YPZA 4YPWA 4E8BA 4YQ8A 1GZ0A 3QUVA 4KDZA 4X3LA 3BBDA 4XBOA 1VHKA 3DCMX 1VHYA 1UALA 5FAIA 3BBHA 3NK6A 4YVHA 1Z85A 2EGVA 3NK7A 2YY8A 4JAKA 3ILKA 3O7BA 4MCDA 4YQ6A 1MXIA 4CNDA 1IPAA 3IC6A 4YQKA 4YVIA 4JALA 1UAKA 4YQ1A 3GYQA 4YQ3A 4J3CA 3KW2A 4YQ0A 4JWFA 3AI9X 4RG1A 5D9FA 4YVKA 3E5YA 5GMCA 1ZJRA 4MCCA 3OIIA 4YPXA 4YQSA 3L8UA 2QMMA 4YQCA 4YQTA 4YQOA 4YQNA 4YQRA 4YQIA 4FMWA 3OIJA 4JWGA 4YQLA 4YQAA 4YQ2A 2HA8A 3N4JA 4JWJA 4YQBA 4YQ4A 4YQGA 4KGNA 4CNGA 1P9PA 4YQ9A 4H3YA 4YQPA 1NS5A 1VH0A 2V3KA 3IEFA 1UAMA 3AXZA 2EGWA 3KTYA 4PZKA 5GMBA 4YQ5A 4CNEA 3OINA 3KNUA 3AIAA 1X7OA 3BBEA 3ONPA 2O3AA 1X7PA 2CX8A 4MCBA 2I6DA 1K3RA 1V6ZA 4YQJA 1OY5A 3N4KA 4X3MA 5GM8A 4YQ7A 1J85A 4YQDA 3KY7A 4IG6A 5CO4A 4FAKA 2Z0YA 4YPYA 1O6DA 1V2XA 2V3JA 4L69A 4CNFA 4YVJA 1NXZA 1UAJA 1TO0A 4JWHA
chains in the Genus database with same CATH homology


 
#chains in the Genus database with same CATH superfamily
 2QWV A;  4H3Z A;  4YVG A;  4YQQ A;  4YPZ A;  4YPW A;  4E8B A;  4YQ8 A;  1GZ0 A;  3QUV A;  4KDZ A;  4X3L A;  3BBD A;  4XBO A;  1VHK A;  3DCM X;  1VHY A;  1UAL A;  5FAI A;  3BBH A;  3NK6 A;  4YVH A;  1Z85 A;  2EGV A;  3NK7 A;  2YY8 A;  4JAK A;  3ILK A;  3O7B A;  4MCD A;  4YQ6 A;  1MXI A;  4CND A;  1IPA A;  3IC6 A;  4YQK A;  4YVI A;  4JAL A;  1UAK A;  4YQ1 A;  3GYQ A;  4YQ3 A;  4J3C A;  3KW2 A;  4YQ0 A;  3AI9 X;  4RG1 A;  5D9F A;  4YVK A;  3E5Y A;  5GMC A;  1ZJR A;  4MCC A;  3OII A;  4YPX A;  4YQS A;  3L8U A;  2QMM A;  4YQC A;  4YQT A;  4YQO A;  4YQN A;  4YQR A;  4YQI A;  3OIJ A;  4YQL A;  4YQA A;  4YQ2 A;  2HA8 A;  3N4J A;  4YQB A;  4YQ4 A;  4YQG A;  4KGN A;  4CNG A;  1P9P A;  4YQ9 A;  4H3Y A;  4YQP A;  1NS5 A;  1VH0 A;  2V3K A;  3IEF A;  1UAM A;  3AXZ A;  2EGW A;  3KTY A;  4PZK A;  5GMB A;  4YQ5 A;  4CNE A;  3OIN A;  3KNU A;  3AIA A;  1X7O A;  3BBE A;  3ONP A;  2O3A A;  1X7P A;  2CX8 A;  4MCB A;  2I6D A;  1K3R A;  1V6Z A;  4YQJ A;  1OY5 A;  3N4K A;  4X3M A;  5GM8 A;  4YQ7 A;  1J85 A;  4YQD A;  3KY7 A;  4IG6 A;  5CO4 A;  4FAK A;  2Z0Y A;  4YPY A;  1O6D A;  1V2X A;  2V3J A;  4L69 A;  4CNF A;  4YVJ A;  1NXZ A;  1UAJ A;  1TO0 A; 
#chains in the Genus database with same CATH topology
 2QWV A;  4H3Z A;  4YVG A;  4YQQ A;  4YPZ A;  4YPW A;  4E8B A;  4YQ8 A;  1GZ0 A;  3QUV A;  4KDZ A;  4X3L A;  3BBD A;  4XBO A;  1VHK A;  3DCM X;  1VHY A;  1UAL A;  5FAI A;  3BBH A;  3NK6 A;  4YVH A;  1Z85 A;  2EGV A;  3NK7 A;  2YY8 A;  4JAK A;  3ILK A;  3O7B A;  1WRP R;  4MCD A;  4YQ6 A;  3SSX N;  1MXI A;  4CND A;  1IPA A;  3IC6 A;  4YQK A;  4YVI A;  4JAL A;  1UAK A;  4YQ1 A;  3GYQ A;  2OZ9 R;  4YQ3 A;  4J3C A;  3KW2 A;  4YQ0 A;  4JWF A;  1JHG A;  3AI9 X;  3G1C A;  1ZT9 A;  4RG1 A;  5D9F A;  4YVK A;  3E5Y A;  5GMC A;  1ZJR A;  4MCC A;  3OII A;  4YPX A;  4YQS A;  3L8U A;  1TRO A;  2QMM A;  4YQC A;  4YQT A;  1CO0 A;  4YQO A;  4YQN A;  4YQR A;  4YQI A;  4FMW A;  3OIJ A;  4JWG A;  4YQL A;  4YQA A;  4YQ2 A;  2HA8 A;  3SSW N;  3N4J A;  4JWJ A;  4YQB A;  4YQ4 A;  3KOR A;  4YQG A;  4KGN A;  4CNG A;  1P9P A;  4YQ9 A;  4H3Y A;  4YQP A;  1NS5 A;  1VH0 A;  2V3K A;  3IEF A;  1UAM A;  3AXZ A;  2EGW A;  3KTY A;  4PZK A;  5GMB A;  4YQ5 A;  4CNE A;  3OIN A;  3KNU A;  2XDI A;  1MI7 R;  3AIA A;  3FRW A;  3WRP A;  1X7O A;  3BBE A;  3ONP A;  2O3A A;  1X7P A;  2CX8 A;  4MCB A;  2I6D A;  1K3R A;  1V6Z A;  1TRR A;  4YQJ A;  1OY5 A;  3N4K A;  4X3M A;  5GM8 A;  4YQ7 A;  1J85 A;  4YQD A;  3KY7 A;  4IG6 A;  5CO4 A;  1WRS R;  4FAK A;  2Z0Y A;  4YPY A;  1RCS A;  1WRT R;  1O6D A;  1V2X A;  2V3J A;  4L69 A;  4CNF A;  4YVJ A;  1NXZ A;  1UAJ A;  1TO0 A;  4JWH A; 
#chains in the Genus database with same CATH homology
 2QWV A;  4H3Z A;  4YVG A;  4YQQ A;  4YPZ A;  4YPW A;  4E8B A;  4YQ8 A;  1GZ0 A;  3QUV A;  4KDZ A;  4X3L A;  3BBD A;  4XBO A;  1VHK A;  3DCM X;  1VHY A;  1UAL A;  5FAI A;  3BBH A;  3NK6 A;  4YVH A;  1Z85 A;  2EGV A;  3NK7 A;  2YY8 A;  4JAK A;  3ILK A;  3O7B A;  4MCD A;  4YQ6 A;  1MXI A;  4CND A;  1IPA A;  3IC6 A;  4YQK A;  4YVI A;  4JAL A;  1UAK A;  4YQ1 A;  3GYQ A;  4YQ3 A;  4J3C A;  3KW2 A;  4YQ0 A;  4JWF A;  3AI9 X;  4RG1 A;  5D9F A;  4YVK A;  3E5Y A;  5GMC A;  1ZJR A;  4MCC A;  3OII A;  4YPX A;  4YQS A;  3L8U A;  2QMM A;  4YQC A;  4YQT A;  4YQO A;  4YQN A;  4YQR A;  4YQI A;  4FMW A;  3OIJ A;  4JWG A;  4YQL A;  4YQA A;  4YQ2 A;  2HA8 A;  3N4J A;  4JWJ A;  4YQB A;  4YQ4 A;  4YQG A;  4KGN A;  4CNG A;  1P9P A;  4YQ9 A;  4H3Y A;  4YQP A;  1NS5 A;  1VH0 A;  2V3K A;  3IEF A;  1UAM A;  3AXZ A;  2EGW A;  3KTY A;  4PZK A;  5GMB A;  4YQ5 A;  4CNE A;  3OIN A;  3KNU A;  3AIA A;  1X7O A;  3BBE A;  3ONP A;  2O3A A;  1X7P A;  2CX8 A;  4MCB A;  2I6D A;  1K3R A;  1V6Z A;  4YQJ A;  1OY5 A;  3N4K A;  4X3M A;  5GM8 A;  4YQ7 A;  1J85 A;  4YQD A;  3KY7 A;  4IG6 A;  5CO4 A;  4FAK A;  2Z0Y A;  4YPY A;  1O6D A;  1V2X A;  2V3J A;  4L69 A;  4CNF A;  4YVJ A;  1NXZ A;  1UAJ A;  1TO0 A;  4JWH 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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