4YQJA

Crystal structure of trmd, a m1g37 trna methyltransferase with sam-competitive compounds
Total Genus 72
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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
72
sequence length
248
structure length
237
Chain Sequence
SHMWIGVISLFPEMFKAITEFGVTGRAVKHNLLKVECWNPRDFTFDKHKTVDDRPYGGGPGMLMMVQPLRDAIHTAKAAAGEGAKVIYLSPQGRKLDQGGVTELAQNQKLILVCGRYEGIDERLIQTEIDEEWSIGDYVLTGGELPAMTLIDAVARFIPGVLGDGLLDCPHYTRPEVLEGLTVPPVLMSGHHEEIRKWRLKQSLQRTWLRRPELLEGLALTDEQRKLLKEAQAEHNS
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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 72
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 4yqjA02
3.40.1280.10 Alpha Beta 3-Layer(aba) Sandwich Alpha/beta knot Alpha/beta knot 4yqjA01
4YQPA 5GMCA 1UAJA 4YQ0A 1IPAA 4CNDA 4YQ5A 4IG6A 3O7BA 4YQ1A 5GM8A 4YQ8A 4YPZA 1UAMA 3L8UA 4YQ4A 4MCBA 3IC6A 3KTYA 3BBDA 2Z0YA 3OIJA 1V2XA 4YQGA 4YPYA 1VH0A 4YQRA 4YQAA 4YQ7A 3ILKA 1TO0A 4JAKA 4RG1A 4J3CA 3N4KA 4YQIA 5CO4A 5FAIA 4JALA 1K3RA 3ONPA 2V3KA 1NXZA 1P9PA 4YPXA 3AXZA 4YVKA 4YQ3A 1X7OA 3N4JA 4YQ9A 4YQLA 1O6DA 4YQ2A 1NS5A 2O3AA 3DCMX 3NK6A 4YPWA 1J85A 3QUVA 1GZ0A 4KGNA 4YQCA 1UAKA 4FAKA 2QWVA 1VHKA 4MCDA 1Z85A 4KDZA 5D9FA 4YQNA 3BBEA 3E5YA 1V6ZA 4CNGA 4X3MA 3OINA 2EGWA 4CNEA 4CNFA 4MCCA 4YQSA 4L69A 4YQBA 4YVJA 1UALA 4YQ6A 4YQOA 1VHYA 4YQKA 4H3ZA 2EGVA 1ZJRA 3BBHA 2YY8A 4E8BA 2V3JA 1OY5A 4YQDA 4YVGA 2CX8A 5GMBA 4YQJA 1X7PA 4YVHA 4H3YA 4YQTA 2QMMA 3KY7A 3NK7A 3KNUA 4YVIA 4YQQA 1MXIA 4XBOA 3KW2A 4X3LA 4PZKA 3AI9X 3OIIA 3IEFA 3AIAA 3GYQA 2I6DA 2HA8A
chains in the Genus database with same CATH superfamily
4YQPA 5GMCA 1UAJA 3G1CA 4JWHA 4YQ0A 1IPAA 4CNDA 4YQ5A 4IG6A 1WRTR 3O7BA 4YQ1A 5GM8A 4YQ8A 4YPZA 1UAMA 3L8UA 4YQ4A 4MCBA 3IC6A 1JHGA 3KTYA 3BBDA 2Z0YA 3OIJA 1V2XA 4YQGA 4YPYA 1VH0A 4YQRA 4YQAA 4YQ7A 3ILKA 1TO0A 1RCSA 4JAKA 4RG1A 4J3CA 3N4KA 4YQIA 5CO4A 5FAIA 4JALA 1K3RA 3ONPA 2V3KA 1NXZA 1P9PA 3WRPA 1MI7R 4YPXA 3AXZA 4YVKA 4YQ3A 1X7OA 3N4JA 4YQ9A 1TROA 4YQLA 1O6DA 4YQ2A 1NS5A 2O3AA 3DCMX 3NK6A 4YPWA 1J85A 3QUVA 1GZ0A 4KGNA 4YQCA 1UAKA 4FAKA 2QWVA 1VHKA 4MCDA 1Z85A 4KDZA 5D9FA 4YQNA 3BBEA 3E5YA 1V6ZA 4CNGA 4JWFA 4X3MA 3OINA 2OZ9R 3KORA 3FRWA 2EGWA 4CNEA 4CNFA 4MCCA 4YQSA 4L69A 2I6DA 3SSXN 4YQBA 4YVJA 1UALA 4YQ6A 4YQOA 1VHYA 4YQKA 4H3ZA 2EGVA 1ZJRA 3BBHA 2XDIA 2YY8A 4E8BA 2V3JA 1OY5A 1ZT9A 4YQDA 4YVGA 2CX8A 5GMBA 4YQJA 1X7PA 4YVHA 4H3YA 4YQTA 4FMWA 2QMMA 1WRPR 3NK7A 3KNUA 4YVIA 4YQQA 1TRRA 1CO0A 4JWGA 1MXIA 4XBOA 4JWJA 3KW2A 4X3LA 4PZKA 1WRSR 3AI9X 3OIIA 3IEFA 3AIAA 3GYQA 3KY7A 2HA8A 3SSWN
chains in the Genus database with same CATH topology
4YQPA 5GMCA 1UAJA 4JWHA 4YQ0A 1IPAA 4CNDA 4YQ5A 4IG6A 3O7BA 4YQ1A 5GM8A 4YQ8A 4YPZA 1UAMA 3L8UA 4YQ4A 4MCBA 3IC6A 3KTYA 3BBDA 2Z0YA 3OIJA 1V2XA 4YQGA 4YPYA 1VH0A 4YQRA 4YQAA 4YQ7A 3ILKA 1TO0A 4JAKA 4RG1A 4J3CA 3N4KA 4YQIA 5CO4A 5FAIA 4JALA 1K3RA 3ONPA 2V3KA 1NXZA 1P9PA 4YPXA 3AXZA 4YVKA 4YQ3A 1X7OA 3N4JA 4YQ9A 4YQLA 1O6DA 4YQ2A 1NS5A 2O3AA 3DCMX 3NK6A 4YPWA 1J85A 3QUVA 1GZ0A 4KGNA 4YQCA 1UAKA 4FAKA 2QWVA 1VHKA 4MCDA 1Z85A 4KDZA 5D9FA 4YQNA 3BBEA 3E5YA 1V6ZA 4CNGA 4JWFA 4X3MA 3OINA 2EGWA 4CNEA 4CNFA 4MCCA 4YQSA 4L69A 4YQBA 4YVJA 1UALA 4YQ6A 4YQOA 1VHYA 4YQKA 4H3ZA 2EGVA 1ZJRA 3BBHA 2YY8A 4E8BA 2V3JA 1OY5A 4YQDA 4YVGA 2CX8A 5GMBA 4YQJA 1X7PA 4YVHA 4H3YA 4YQTA 4FMWA 2QMMA 3KY7A 3NK7A 3KNUA 4YVIA 4YQQA 4JWGA 1MXIA 4XBOA 4JWJA 3KW2A 4X3LA 4PZKA 3AI9X 3OIIA 3IEFA 3AIAA 3GYQA 2I6DA 2HA8A
chains in the Genus database with same CATH homology


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