4YQBA

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
240
Chain Sequence
GSHMWIGVISLFPEMFKAITEFGVTGRAVKHNLLKVECWNPRDFTFDKHKTVDDRPYGGGPGMLMMVQPLRDAIHTAKAAAGEGAKVIYLSPQGRKLDQGGVTELAQNQKLILVCGRYEGIDERLIQTEIDEEWSIGDYVLTGGELPAMTLIDAVARFIPGVLGSFADGLLDCPHYTRPEVLEGLTVPPVLMSGHHEEIRKWRLKQSLQRTWLRRPELLEGLALTDEQRKLLKEAQAEHN
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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 tags Transferase/transferase inhibitor
source organism Haemophilus influenzae (strain atcc 51907 / dsm 11121 / kw20 / rd)
publication title Crystal structure of TrmD, a M1G37 tRNA Methyltransferase with SAM-competitive compounds
rcsb
molecule keywords tRNA (guanine-N(1)-)-methyltransferase
total genus 72
structure length 240
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 4yqbA02
3.40.1280.10 Alpha Beta 3-Layer(aba) Sandwich Alpha/beta knot Alpha/beta knot 4yqbA01
4YQLA 1K3RA 3ILKA 4YVHA 4YQ3A 3N4JA 5CO4A 4YQ6A 4KDZA 3BBHA 4CNEA 4E8BA 2EGVA 3L8UA 2V3KA 4YQ8A 4YQ7A 3OIIA 1V2XA 2HA8A 1TO0A 4YQ9A 4YVJA 4YPZA 3ONPA 4YPYA 1NS5A 4YQKA 4JALA 5GMCA 1UALA 4YPWA 4H3ZA 3QUVA 3KY7A 2CX8A 4YQOA 2QWVA 4YQTA 2QMMA 4J3CA 1UAJA 4YQ5A 2O3AA 4YVIA 4YQ0A 1Z85A 1UAKA 1O6DA 4YQDA 4YQCA 4YPXA 4YQ4A 3NK7A 3KW2A 4YVGA 4H3YA 4PZKA 3E5YA 4YQ1A 5GMBA 1GZ0A 4YQNA 4YQRA 1MXIA 1V6ZA 4YQJA 3O7BA 3AI9X 3BBDA 1P9PA 1IPAA 3GYQA 3KTYA 4L69A 1NXZA 4X3MA 1VH0A 4MCDA 4YQGA 1VHYA 3IC6A 3NK6A 1VHKA 3IEFA 4RG1A 3BBEA 3N4KA 5FAIA 2EGWA 4YQIA 1OY5A 4KGNA 1ZJRA 4CNGA 4YQQA 4FAKA 3KNUA 4X3LA 2V3JA 4YQAA 3AXZA 3DCMX 3AIAA 4JAKA 4YQPA 2YY8A 1X7PA 4MCCA 3OIJA 2Z0YA 4IG6A 4YVKA 2I6DA 4CNDA 4YQSA 4CNFA 3OINA 1J85A 4YQBA 4MCBA 5D9FA 4XBOA 1UAMA 4YQ2A 5GM8A 1X7OA
chains in the Genus database with same CATH superfamily
4YQLA 1K3RA 3ILKA 1RCSA 4YVHA 4YQ3A 3N4JA 5CO4A 3FRWA 4YQ6A 4JWGA 4KDZA 3BBHA 2XDIA 4CNEA 4E8BA 2EGVA 3L8UA 2V3KA 4JWFA 4YQ8A 4YQ7A 3OIIA 1V2XA 2HA8A 1WRPR 1TO0A 4YQ9A 4YVJA 4YPZA 3ONPA 3SSWN 1WRTR 4JWHA 4YPYA 1TROA 1NS5A 4YQKA 4JALA 5GMCA 1UALA 4YPWA 3WRPA 4H3ZA 3QUVA 3KY7A 2CX8A 4YQOA 2QWVA 4YQTA 2QMMA 4J3CA 1UAJA 4YQ5A 2O3AA 4YVIA 4YQ0A 1TRRA 1Z85A 1UAKA 1O6DA 4YQDA 4YQCA 4YPXA 3G1CA 4YQ4A 1ZT9A 3NK7A 3KW2A 4FMWA 4YVGA 4H3YA 4PZKA 3E5YA 4YQ1A 5GMBA 1GZ0A 4YQNA 4YQRA 1MXIA 1V6ZA 4YQJA 3O7BA 3AI9X 3BBDA 1P9PA 1MI7R 1IPAA 3GYQA 3KTYA 4L69A 1NXZA 4X3MA 1VH0A 1WRSR 4MCDA 4YQGA 4JWJA 1VHYA 3IC6A 3NK6A 1VHKA 3IEFA 1JHGA 2OZ9R 4RG1A 1CO0A 3BBEA 3N4KA 5FAIA 2EGWA 4YQIA 3SSXN 1OY5A 4KGNA 1ZJRA 4CNGA 4YQQA 4FAKA 3KNUA 4X3LA 2V3JA 4YQAA 3AXZA 3KORA 3DCMX 3AIAA 4JAKA 4YQPA 2YY8A 1X7PA 4MCCA 3OIJA 2Z0YA 4IG6A 4YVKA 2I6DA 4CNDA 4YQSA 4CNFA 3OINA 1J85A 4YQBA 4MCBA 5D9FA 4XBOA 1UAMA 4YQ2A 5GM8A 1X7OA
chains in the Genus database with same CATH topology
4YQLA 1K3RA 3ILKA 4YVHA 4YQ3A 3N4JA 5CO4A 4YQ6A 4JWGA 4KDZA 3BBHA 4CNEA 4E8BA 2EGVA 3L8UA 2V3KA 4JWFA 4YQ8A 4YQ7A 3OIIA 1V2XA 2HA8A 1TO0A 4YQ9A 4YVJA 4YPZA 3ONPA 4JWHA 4YPYA 1NS5A 4YQKA 4JALA 5GMCA 1UALA 4YPWA 4H3ZA 3QUVA 3KY7A 2CX8A 4YQOA 2QWVA 4YQTA 2QMMA 4J3CA 1UAJA 4YQ5A 2O3AA 4YVIA 4YQ0A 1Z85A 1UAKA 1O6DA 4YQDA 4YQCA 4YPXA 4YQ4A 3NK7A 3KW2A 4FMWA 4YVGA 4H3YA 4PZKA 3E5YA 4YQ1A 5GMBA 1GZ0A 4YQNA 4YQRA 1MXIA 1V6ZA 4YQJA 3O7BA 3AI9X 3BBDA 1P9PA 1IPAA 3GYQA 3KTYA 4L69A 1NXZA 4X3MA 1VH0A 4MCDA 4YQGA 4JWJA 1VHYA 3IC6A 3NK6A 1VHKA 3IEFA 4RG1A 3BBEA 3N4KA 5FAIA 2EGWA 4YQIA 1OY5A 4KGNA 1ZJRA 4CNGA 4YQQA 4FAKA 3KNUA 4X3LA 2V3JA 4YQAA 3AXZA 3DCMX 3AIAA 4JAKA 4YQPA 2YY8A 1X7PA 4MCCA 3OIJA 2Z0YA 4IG6A 4YVKA 2I6DA 4CNDA 4YQSA 4CNFA 3OINA 1J85A 4YQBA 4MCBA 5D9FA 4XBOA 1UAMA 4YQ2A 5GM8A 1X7OA
chains in the Genus database with same CATH homology


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