4YQ9A

Crystal structure of trmd, a m1g37 trna methyltransferase with sam-competitive compounds
Total Genus 77
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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
77
sequence length
253
structure length
245
Chain Sequence
LVPRGSHMWIGVISLFPEMFKAITEFGVTGRAVKHNLLKVECWNPRDFTFDKHKTVDDRPYGGGPGMLMMVQPLRDAIHTAKAAAGEGAKVIYLSPQGRKLDQGGVTELAQNQKLILVCGRYEGIDERLIQTEIDEEWSIGDYVLTGGELPAMTLIDAVARFIPGVLGSFADGLLDCPHYTRPEVLEGLTVPPVLMSGHHEEIRKWRLKQSLQRTWLRRPELLEGLALTDEQRKLLKEAQAEHNS
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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 77
structure length 245
sequence length 253
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 4yq9A02
3.40.1280.10 Alpha Beta 3-Layer(aba) Sandwich Alpha/beta knot Alpha/beta knot 4yq9A01
4YQNA 3OIJA 1K3RA 4YQ0A 3O7BA 4JAKA 4YQ4A 2EGWA 2QWVA 4JALA 1X7OA 1Z85A 4L69A 2V3JA 4YQ6A 4X3MA 1VHYA 1V2XA 4YQSA 4YQRA 4YQCA 1O6DA 3AIAA 3NK6A 1P9PA 4CNFA 4J3CA 3AXZA 4YQGA 5FAIA 1X7PA 4YQ3A 5CO4A 4X3LA 1VHKA 4YQ8A 4MCBA 2QMMA 3BBHA 4YQLA 2EGVA 4YQPA 4KDZA 4YQ5A 4YQ7A 3ILKA 1UALA 4CNEA 4XBOA 5GMCA 4YPWA 4YQIA 3KW2A 2HA8A 4PZKA 3GYQA 3BBDA 4YPZA 4YVHA 3N4KA 4YVIA 1OY5A 4YPXA 3N4JA 2CX8A 1NXZA 3E5YA 4CNGA 1J85A 3ONPA 2Z0YA 3AI9X 4YQ9A 1UAMA 4MCCA 4YVJA 4YQ1A 3OIIA 4YQKA 4CNDA 4KGNA 3IEFA 1MXIA 4FAKA 3OINA 1GZ0A 1ZJRA 4YQQA 2YY8A 1NS5A 4YQTA 1V6ZA 3NK7A 2O3AA 4H3ZA 4YPYA 3KNUA 4YVKA 2I6DA 3KTYA 5GMBA 5D9FA 4YQAA 3IC6A 4YQBA 4E8BA 4YQOA 3BBEA 4YQJA 4H3YA 1VH0A 1UAKA 4YQ2A 4MCDA 1IPAA 1TO0A 4RG1A 4YQDA 4YVGA 5GM8A 4IG6A 3L8UA 3DCMX 3KY7A 3QUVA 1UAJA 2V3KA
chains in the Genus database with same CATH superfamily
1TROA 4YQNA 3OIJA 1K3RA 4YQ0A 1JHGA 3O7BA 4JAKA 3KORA 1CO0A 4YQ4A 2EGWA 2QWVA 4JALA 3FRWA 1X7OA 1Z85A 4L69A 2V3JA 1WRPR 4YQ6A 4X3MA 1VHYA 1V2XA 4YQSA 1TRRA 4YQRA 1WRTR 4YQCA 1O6DA 3AIAA 3NK6A 1P9PA 4CNFA 4J3CA 3AXZA 4YQGA 5FAIA 1X7PA 4YQ3A 5CO4A 4X3LA 1VHKA 4YQ8A 4MCBA 2QMMA 3BBHA 4YQLA 2EGVA 4YQPA 4KDZA 2XDIA 4YQ5A 4YQ7A 1WRSR 1ZT9A 3G1CA 3ILKA 1UALA 4CNEA 4XBOA 5GMCA 3SSWN 4YPWA 4YQIA 3KW2A 2HA8A 4PZKA 3GYQA 1RCSA 3BBDA 4YPZA 4YVHA 3WRPA 4YVIA 3N4KA 1OY5A 4YPXA 3N4JA 2CX8A 1NXZA 3E5YA 4CNGA 1J85A 3ONPA 3SSXN 2Z0YA 3AI9X 4YQ9A 1UAMA 4MCCA 4YVJA 4YQ1A 3OIIA 4JWJA 4YQKA 4JWFA 4FMWA 4KGNA 4CNDA 2OZ9R 3IEFA 1MXIA 4JWHA 4FAKA 3OINA 1GZ0A 1ZJRA 4YQQA 2YY8A 1NS5A 4YQTA 1MI7R 1V6ZA 3NK7A 4JWGA 2O3AA 4H3ZA 4YPYA 3KNUA 4YVKA 2I6DA 3KTYA 5GMBA 5D9FA 4YQAA 3IC6A 4YQBA 4E8BA 4YQOA 3BBEA 4YQJA 4H3YA 1VH0A 1UAKA 4YQ2A 4MCDA 1IPAA 1TO0A 4RG1A 4YQDA 4YVGA 5GM8A 4IG6A 3L8UA 3DCMX 3KY7A 3QUVA 1UAJA 2V3KA
chains in the Genus database with same CATH topology
4YQNA 3OIJA 1K3RA 4YQ0A 3O7BA 4JAKA 4YQ4A 2EGWA 2QWVA 4JALA 1X7OA 1Z85A 4L69A 2V3JA 4YQ6A 4X3MA 1VHYA 1V2XA 4YQSA 4YQRA 4YQCA 1O6DA 3AIAA 3NK6A 1P9PA 4CNFA 4J3CA 3AXZA 4YQGA 5FAIA 1X7PA 4YQ3A 5CO4A 4X3LA 1VHKA 4YQ8A 4MCBA 2QMMA 3BBHA 4YQLA 2EGVA 4YQPA 4KDZA 4YQ5A 4YQ7A 3ILKA 1UALA 4CNEA 4XBOA 5GMCA 4YPWA 4YQIA 3KW2A 2HA8A 4PZKA 3GYQA 3BBDA 4YPZA 4YVHA 3N4KA 4YVIA 1OY5A 4YPXA 3N4JA 2CX8A 1NXZA 3E5YA 4CNGA 1J85A 3ONPA 2Z0YA 3AI9X 4YQ9A 1UAMA 4MCCA 4YVJA 4YQ1A 3OIIA 4JWJA 4YQKA 4JWFA 4FMWA 4KGNA 4CNDA 3IEFA 1MXIA 4JWHA 4FAKA 3OINA 1GZ0A 1ZJRA 4YQQA 2YY8A 1NS5A 4YQTA 1V6ZA 3NK7A 4JWGA 2O3AA 4H3ZA 4YPYA 3KNUA 4YVKA 2I6DA 3KTYA 5GMBA 5D9FA 4YQAA 3IC6A 4YQBA 4E8BA 4YQOA 3BBEA 4YQJA 4H3YA 1VH0A 1UAKA 4YQ2A 4MCDA 1IPAA 1TO0A 4RG1A 4YQDA 4YVGA 5GM8A 4IG6A 3L8UA 3DCMX 3KY7A 3QUVA 1UAJA 2V3KA
chains in the Genus database with same CATH homology


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