5D9FA

Crystal structure of trmd, a m1g37 trna methyltransferase with sam-competitive compounds
Total Genus 69
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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
69
sequence length
248
structure length
237
Chain Sequence
GSHMWIGVISLFPEMFKAITEFGVTGRAVKHNLLKVECWNPRDFTFDKHKTVDDRPYGGGPGMLMMVQPLRDAIHTAKAAAGEGAKVIYLSPQGRKLDQGGVTELAQNQKLILVCGRYEGIDERLIQTEIDEEWSIGDYVLTGGELPAMTLIDAVARFIPGVLGDGLLDCPHYTRPEVLEGLTVPPVLMSGHHEEIRKWRLKQSLQRTWLRRPELLEGLALTDEQRKLLKEAQAEHN
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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 Crystal structure of TrmD, a M1G37 tRNA Methyltransferase with SAM-competitive compounds
rcsb
molecule tags Transferase/transferase inhibitor
source organism Haemophilus influenzae
molecule keywords tRNA (guanine-N(1)-)-methyltransferase
total genus 69
structure length 237
sequence length 248
ec nomenclature ec 2.1.1.228: tRNA (guanine(37)-N(1))-methyltransferase.
pdb deposition date 2015-08-18

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 5d9fA02
3.40.1280.10 Alpha Beta 3-Layer(aba) Sandwich Alpha/beta knot Alpha/beta knot 5d9fA01
1J85A 1TO0A 2V3KA 1V2XA 4YQ3A 3IC6A 4H3ZA 3ILKA 3GYQA 2QWVA 4YQLA 4YQIA 2I6DA 4YPYA 4YQSA 1P9PA 4JALA 4MCDA 1V6ZA 4YVIA 4YPWA 5GM8A 4E8BA 4YQ1A 4RG1A 3KW2A 3BBDA 4MCCA 4YQNA 1VHYA 4YVGA 3O7BA 1UAKA 4PZKA 2YY8A 4CNGA 4YQ2A 4YQTA 1VHKA 4L69A 4YQCA 1Z85A 2CX8A 4X3LA 3IEFA 3OIIA 4YVJA 4YQQA 4YQOA 4YQGA 4CNDA 3OINA 1NXZA 1O6DA 2V3JA 1NS5A 4YVHA 3E5YA 4YQ7A 5GMCA 1MXIA 5CO4A 1X7OA 4J3CA 3ONPA 4FAKA 3AIAA 5FAIA 3OIJA 4YQ0A 4YQRA 3BBEA 3KTYA 4YPXA 3NK6A 1X7PA 2Z0YA 1VH0A 3N4KA 2QMMA 4YQ9A 2EGWA 2EGVA 4YPZA 3KNUA 4XBOA 1IPAA 4CNEA 4MCBA 4YQDA 1UAJA 4H3YA 4YQ8A 4YQ5A 4KDZA 4CNFA 5GMBA 1UAMA 3DCMX 3BBHA 4YQPA 4IG6A 1OY5A 4YQJA 4YQAA 1K3RA 1UALA 3KY7A 3AI9X 4X3MA 2HA8A 3AXZA 4YQ4A 4YQKA 4YVKA 4YQ6A 3L8UA 4KGNA 3NK7A 1GZ0A 4JAKA 2O3AA 5D9FA 3N4JA 1ZJRA 3QUVA 4YQBA
chains in the Genus database with same CATH superfamily
1J85A 1TO0A 2V3KA 3SSWN 1V2XA 4YQ3A 3IC6A 4H3ZA 3ILKA 3GYQA 2QWVA 4YQLA 1WRSR 4YQIA 2I6DA 4YPYA 4YQSA 1P9PA 4JALA 3KORA 4MCDA 1V6ZA 1CO0A 4YVIA 4YPWA 5GM8A 4E8BA 4YQ1A 4RG1A 3KW2A 3BBDA 3FRWA 4FMWA 4JWGA 4MCCA 4YQNA 1VHYA 4YVGA 3O7BA 1UAKA 4PZKA 2YY8A 4CNGA 4YQ2A 4YQTA 1VHKA 4L69A 4YQCA 1Z85A 2CX8A 3WRPA 4X3LA 3IEFA 3OIIA 4YVJA 4YQQA 4YQOA 4YQGA 4CNDA 3OINA 3G1CA 1NXZA 1O6DA 2V3JA 1NS5A 4YVHA 3E5YA 4YQ7A 5GMCA 1MXIA 1WRTR 5CO4A 1X7OA 1RCSA 4J3CA 3ONPA 4FAKA 3AIAA 5FAIA 3OIJA 4YQ0A 4YQRA 3BBEA 3KTYA 4YPXA 3NK6A 1X7PA 2Z0YA 1VH0A 3N4KA 2QMMA 4YQ9A 2EGWA 2EGVA 4YPZA 3KNUA 4XBOA 1IPAA 2XDIA 1MI7R 4CNEA 4MCBA 4YQDA 2OZ9R 1UAJA 4H3YA 4YQ8A 4YQ5A 4KDZA 4CNFA 4JWFA 5GMBA 1UAMA 3DCMX 3BBHA 4YQPA 4IG6A 1OY5A 4YQJA 4YQAA 1K3RA 1UALA 3KY7A 3AI9X 4X3MA 1TROA 1ZT9A 2HA8A 3SSXN 3AXZA 4YQ4A 4JWHA 4YQKA 4YVKA 4YQ6A 3L8UA 4KGNA 3NK7A 1TRRA 1GZ0A 4JAKA 1JHGA 2O3AA 5D9FA 3N4JA 4JWJA 1ZJRA 1WRPR 3QUVA 4YQBA
chains in the Genus database with same CATH topology
1J85A 1TO0A 2V3KA 1V2XA 4YQ3A 3IC6A 4H3ZA 3ILKA 3GYQA 2QWVA 4YQLA 4YQIA 2I6DA 4YPYA 4YQSA 1P9PA 4JALA 4MCDA 1V6ZA 4YVIA 4YPWA 5GM8A 4E8BA 4YQ1A 4RG1A 3KW2A 3BBDA 4FMWA 4JWGA 4MCCA 4YQNA 1VHYA 4YVGA 3O7BA 1UAKA 4PZKA 2YY8A 4CNGA 4YQ2A 4YQTA 1VHKA 4L69A 4YQCA 1Z85A 2CX8A 4X3LA 3IEFA 3OIIA 4YVJA 4YQQA 4YQOA 4YQGA 4CNDA 3OINA 1NXZA 1O6DA 2V3JA 1NS5A 4YVHA 3E5YA 4YQ7A 5GMCA 1MXIA 5CO4A 1X7OA 4J3CA 3ONPA 4FAKA 3AIAA 5FAIA 3OIJA 4YQ0A 4YQRA 3BBEA 3KTYA 4YPXA 3NK6A 1X7PA 2Z0YA 1VH0A 3N4KA 2QMMA 4YQ9A 2EGWA 2EGVA 4YPZA 3KNUA 4XBOA 1IPAA 4CNEA 4MCBA 4YQDA 1UAJA 4H3YA 4YQ8A 4YQ5A 4KDZA 4CNFA 4JWFA 5GMBA 1UAMA 3DCMX 3BBHA 4YQPA 4IG6A 1OY5A 4YQJA 4YQAA 1K3RA 1UALA 3KY7A 3AI9X 4X3MA 2HA8A 3AXZA 4YQ4A 4JWHA 4YQKA 4YVKA 4YQ6A 3L8UA 4KGNA 3NK7A 1GZ0A 4JAKA 2O3AA 5D9FA 3N4JA 4JWJA 1ZJRA 3QUVA 4YQBA
chains in the Genus database with same CATH homology


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