4YQ6A

Crystal structure of trmd, a m1g37 trna methyltransferase with sam-competitive compounds
Total Genus 70
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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
70
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 (strain atcc 51907 / dsm 11121 / kw20 / rd)
molecule keywords tRNA (guanine-N(1)-)-methyltransferase
total genus 70
structure length 237
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 4yq6A02
3.40.1280.10 Alpha Beta 3-Layer(aba) Sandwich Alpha/beta knot Alpha/beta knot 4yq6A01
4YQTA 4YVHA 3IEFA 1V6ZA 5FAIA 3ONPA 4YPWA 3OIIA 2Z0YA 4YQ2A 1ZJRA 3O7BA 1V2XA 2QMMA 4MCDA 4L69A 4MCBA 1GZ0A 1NS5A 3ILKA 4XBOA 4YQ9A 3AIAA 3OINA 2YY8A 3L8UA 1UAJA 1NXZA 4CNDA 1P9PA 1X7PA 4YQGA 4JAKA 2EGWA 2V3KA 4YQOA 4YQKA 3N4KA 3KTYA 4KDZA 4CNEA 2HA8A 1VHYA 3KNUA 2CX8A 1MXIA 4YVIA 1J85A 4YQRA 2V3JA 5GM8A 3GYQA 1OY5A 4YQLA 4YPZA 4KGNA 3KW2A 3OIJA 4YQDA 1VHKA 4YQJA 4CNGA 4FAKA 1VH0A 2I6DA 4X3LA 3QUVA 5CO4A 3N4JA 4YQ6A 4YQ1A 3BBEA 4YQQA 2O3AA 5GMCA 3AXZA 4YQSA 2QWVA 4YPXA 5D9FA 4YVJA 4CNFA 4YQ0A 4JALA 4YQ8A 3KY7A 1IPAA 4H3YA 4YQAA 4YPYA 2EGVA 4YQNA 4YQ3A 3E5YA 3NK7A 3IC6A 3DCMX 4YQIA 3AI9X 4YQ4A 4E8BA 1X7OA 4YVGA 4YQ5A 3BBHA 1UAKA 1K3RA 3BBDA 1UALA 4MCCA 3NK6A 4YVKA 1TO0A 1UAMA 4RG1A 4YQ7A 4X3MA 4H3ZA 5GMBA 1O6DA 4J3CA 4YQPA 1Z85A 4YQBA 4IG6A 4PZKA 4YQCA
chains in the Genus database with same CATH superfamily
4YQTA 4YVHA 3IEFA 1V6ZA 5FAIA 1ZT9A 3ONPA 4YPWA 3OIIA 2Z0YA 4YQ2A 1ZJRA 3O7BA 1V2XA 2QMMA 4MCDA 4L69A 4MCBA 1GZ0A 1NS5A 3ILKA 4XBOA 4YQ9A 3FRWA 3AIAA 3OINA 2YY8A 2XDIA 3L8UA 1UAJA 1NXZA 4CNDA 1P9PA 1WRTR 1X7PA 4YQGA 4JAKA 2EGWA 4JWJA 2V3KA 4YQOA 4JWHA 4YQKA 3N4KA 3KTYA 4KDZA 3SSXN 1TROA 4CNEA 2HA8A 1VHYA 3KNUA 2CX8A 1MXIA 4YVIA 1J85A 4YQRA 4FMWA 2V3JA 1JHGA 5GM8A 3GYQA 1OY5A 4YQLA 4YPZA 4KGNA 3KW2A 3OIJA 4YQDA 1VHKA 4YQJA 3SSWN 4CNGA 4FAKA 1VH0A 3KORA 2I6DA 4X3LA 3QUVA 1WRSR 5CO4A 3N4JA 1MI7R 1CO0A 4YQ6A 4YQ1A 3BBEA 4YQQA 2O3AA 5GMCA 4JWFA 3AXZA 1RCSA 4YQSA 2QWVA 4YPXA 5D9FA 4YVJA 4CNFA 4YQ0A 4JALA 4YQ8A 3KY7A 1IPAA 4H3YA 4YQAA 4YPYA 2EGVA 4YQNA 4YQ3A 3E5YA 3NK7A 3IC6A 1WRPR 3DCMX 4YQIA 3WRPA 3AI9X 4YQ4A 4E8BA 2OZ9R 1X7OA 4YVGA 4YQ5A 3BBHA 1UAKA 1K3RA 3BBDA 1UALA 4JWGA 4MCCA 3NK6A 4YVKA 1TO0A 1UAMA 4RG1A 4YQ7A 4X3MA 4H3ZA 5GMBA 1O6DA 4J3CA 4YQPA 1Z85A 4YQBA 1TRRA 3G1CA 4IG6A 4PZKA 4YQCA
chains in the Genus database with same CATH topology
4YQTA 4YVHA 3IEFA 1V6ZA 5FAIA 3ONPA 4YPWA 3OIIA 2Z0YA 4YQ2A 1ZJRA 3O7BA 1V2XA 2QMMA 4MCDA 4L69A 4MCBA 1GZ0A 1NS5A 3ILKA 4XBOA 4YQ9A 3AIAA 3OINA 2YY8A 3L8UA 1UAJA 1NXZA 4CNDA 1P9PA 1X7PA 4YQGA 4JAKA 2EGWA 4JWJA 2V3KA 4YQOA 4JWHA 4YQKA 3N4KA 3KTYA 4KDZA 4CNEA 2HA8A 1VHYA 3KNUA 2CX8A 1MXIA 4YVIA 1J85A 4YQRA 4FMWA 2V3JA 5GM8A 3GYQA 1OY5A 4YQLA 4YPZA 4KGNA 3KW2A 3OIJA 4YQDA 1VHKA 4YQJA 4CNGA 4FAKA 1VH0A 2I6DA 4X3LA 3QUVA 5CO4A 3N4JA 4YQ6A 4YQ1A 3BBEA 4YQQA 2O3AA 5GMCA 4JWFA 3AXZA 4YQSA 2QWVA 4YPXA 5D9FA 4YVJA 4CNFA 4YQ0A 4JALA 4YQ8A 3KY7A 1IPAA 4H3YA 4YQAA 4YPYA 2EGVA 4YQNA 4YQ3A 3E5YA 3NK7A 3IC6A 3DCMX 4YQIA 3AI9X 4YQ4A 4E8BA 1X7OA 4YVGA 4YQ5A 3BBHA 1UAKA 1K3RA 3BBDA 1UALA 4JWGA 4MCCA 3NK6A 4YVKA 1TO0A 1UAMA 4RG1A 4YQ7A 4X3MA 4H3ZA 5GMBA 1O6DA 4J3CA 4YQPA 1Z85A 4YQBA 4IG6A 4PZKA 4YQCA
chains in the Genus database with same CATH homology


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