3KW2A

Crystal structure of probable rrna-methyltransferase from porphyromonas gingivalis
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
Knots found
sequence length
245
structure length
240
Chain Sequence
b'LPLFYAPDIEQSDRLPDDEAGHILRVLRMQAGDRLRLTDGRGSFFDAVIETADRKSCYVSVCGQESWQKPWRDRITIAIAPTKQSERMEWMLEKLVEIGVDEVVFIESEHSERRRIKAERLERIAISAMKQSLKASFPVIRVNIPIQTVIADTPKAAVRLIAYVDEAVRGRGYPSDFYHVGQDVLILIGPEGDFSPSEVESALLAGFAPVSLGESRLRTETAGLVACQWIHTLQACYRIG'
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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 Probable r-RNA methyltransferase
publication title Crystal structure of probable rRNA-methyltransferase from Porphyromonas gingivalis
rcsb
source organism Porphyromonas gingivalis atcc 33277
molecule tags Transferase
total genus 70
structure length 240
sequence length 245
chains with identical sequence B
other databases KnotProt 2.0: K +31
ec nomenclature
pdb deposition date 2009-11-30

pfam database annotations

chain Pfam Accession Code Pfam Family Identifier Pfam Description
A PF04452 Methyltrans_RNA RNA methyltransferase
Image from the rcsb pdb (www.rcsb.org)
cath code
ClassArchitectureTopologyHomologyDomain
2.40.240.20 Mainly Beta Beta Barrel Ribosomal Protein L25; Chain P Hypothetical PUA domain-like; domain 1 3kw2A01
3.40.1280.10 Alpha Beta 3-Layer(aba) Sandwich Alpha/beta knot Alpha/beta knot 3kw2A02
4YQSA 4YQ9A 3KW2A 4J3CA 4YQ1A 4MCDA 4X3LA 3KTYA 3KNUA 1IPAA 3IEFA 4YQIA 2O3AA 5FAIA 4CNDA 4YQ0A 4IG6A 4YPXA 2CX8A 4RG1A 4H3YA 1V6ZA 5D9FA 4L69A 3GYQA 1VHKA 1OY5A 3ILKA 1P9PA 2NWAA 4YPYA 1X7PA 2Z0YA 4YQGA 4YVKA 5GMCA 5GM8A 2V3KA 4YQBA 4E8BA 3N4KA 2YY8A 3AI9X 3AXZA 4H3ZA 3BBDA 1TO0A 4YQ5A 3OIJA 1MXIA 3IC6A 1K3RA 3NK6A 4JAKA 3ONPA 2EGWA 4MCBA 1O6DA 4YVGA 4MCCA 2EGVA 4XBOA 4YVHA 1NXZA 3OIIA 3BBHA 4YQ2A 3BBEA 4YQ3A 1VHYA 1UAJA 4YQQA 4YQLA 4YPZA 1J85A 4YVIA 4KDZA 4YQJA 1X7OA 4CNGA 4YPWA 3E5YA 3NK7A 4YQTA 4PZKA 4X3MA 1GZ0A 5CO4A 4JALA 4YQRA 4YQ6A 4YQKA 4YQ7A 4CNEA 4YQPA 2V3JA 4YQ4A 1UALA 1UAMA 1UAKA 3AIAA 1VH0A 2I6DA 1NS5A 4YQAA 4YVJA 3N4JA 1ZJRA 3OINA 2HA8A 1Z85A 1V2XA 2QWVA 4YQCA 4YQOA 4KGNA 3QUVA 4YQDA 5GMBA 3O7BA 4CNFA 3L8UA 3KY7A 4FAKA 4YQ8A 3DCMX 4YQNA 2QMMA
chains in the Genus database with same CATH superfamily
5DM7S 4YQSA 4YQ9A 5BNZA 4JWFA 3KW2A 1UDXA 5JVHS 4J3CA 4YQ1A 2RD2A 2RE8A 2PJJA 4MCDA 4X3LA 1QRUA 3KTYA 3KNUA 1IPAA 3IEFA 4YQIA 2O3AA 5FAIA 4CNDA 4YQ0A 4IG6A 4YPXA 2CX8A 4WCES 4RG1A 4H3YA 1D6KA 1V6ZA 5D9FA 5GAHW 4L69A 4WFAS 3GYQA 1VHKA 1OY5A 1QTQA 3ILKA 1P9PA 4H3SA 1GTSA 2NWAA 4YPYA 1X7PA 4IOCS 2G5DA 2Z0YA 4YQGA 2QMMA 5IZNA 4YVKA 5GMCA 2ZJQS 5GM8A 2V3KA 4YQNA 4YQBA 3CF5S 4E8BA 3N4KA 4U67S 2YY8A 3AI9X 4V194 3AXZA 4H3ZA 3BBDA 1TO0A 4JWGA 4YQ5A 3OIJA 1MXIA 3W2WB 3IC6A 1K3RA 3PIOS 3NK6A 4JAKA 3ONPA 4FMWA 2EGWA 5JVGS 4MCBA 1QRSA 1O6DA 2GAEA 4YVGA 4WFNS 4MCCA 2PI8A 2EGVA 4XBOA 4JWHA 2G6GA 4YVHA 3AIIA 1NXZA 3OIIA 3BBHA 3W2VB 4YQ2A 4H4KA 3BBEA 4IOAS 1EXDA 3DLLS 4YQ3A 1VHYA 1UAJA 4YQQA 4YQLA 4YPZA 1J85A 4YVIA 4KDZA 3J7ZV 4YQJA 1X7OA 4CNGA 4YPWA 3E5YA 2PNWA 3NK7A 1EUYA 1FEUA 4YQTA 4PZKA 1DFUP 5GADW 1EUQA 1GZ0A 4X3MA 4JYZA 4WF9S 5CO4A 3CZBA 4JALA 4YQRA 4YQ6A 4YQKA 3PIPS 4YQ7A 4CNEA 1O0BA 4YQPA 2V3JA 4YQ4A 1UALA 5HL7S 1UAMA 1UAKA 3AIAA 4P2BA 3X1LB 1VH0A 2ZJRS 2I6DA 1NS5A 1GTRA 1QRTA 4YQAA 4YVJA 3N4JA 1B75A 2ZJPS 4UY88 1ZJRA 3OINA 2HA8A 4JXXA 1V2XA 2QWVA 4YQCA 1O0CA 4JWJA 2PICA 4IO9S 4YQOA 4KGNA 3QUVA 4YQDA 5GAEW 5GAGW 5GMBA 3O7BA 4CNFA 2HZ7A 3KY7A 3L8UA 4FAKA 4YQ8A 1NYLA 2AE0X 5DM6S 3DCMX 4JXZA 1ZJWA 4WFBS 1Z85A
chains in the Genus database with same CATH topology
4YQSA 4YQ9A 4JWFA 3KW2A 4J3CA 4YQ1A 4MCDA 4X3LA 3KTYA 3KNUA 1IPAA 3IEFA 4YQIA 2O3AA 5FAIA 4CNDA 4YQ0A 4IG6A 4YPXA 2CX8A 4RG1A 4H3YA 1V6ZA 5D9FA 4L69A 3GYQA 1VHKA 1OY5A 3ILKA 1P9PA 2NWAA 4YPYA 1X7PA 2Z0YA 4YQGA 4YVKA 5GMCA 5GM8A 2V3KA 4YQBA 4E8BA 3N4KA 2YY8A 3AI9X 3AXZA 4H3ZA 3BBDA 1TO0A 4JWGA 4YQ5A 3OIJA 1MXIA 3IC6A 1K3RA 3NK6A 4JAKA 3ONPA 4FMWA 2EGWA 4MCBA 1O6DA 4YVGA 4MCCA 2EGVA 4XBOA 4JWHA 4YVHA 1NXZA 3OIIA 3BBHA 4YQ2A 3BBEA 4YQ3A 1VHYA 1UAJA 4YQQA 4YQLA 4YPZA 1J85A 4YVIA 4KDZA 4YQJA 1X7OA 4CNGA 4YPWA 3E5YA 3NK7A 4YQTA 4PZKA 4X3MA 1GZ0A 5CO4A 4JALA 4YQRA 4YQ6A 4YQKA 4YQ7A 4CNEA 4YQPA 2V3JA 4YQ4A 1UALA 1UAMA 1UAKA 3AIAA 1VH0A 2I6DA 1NS5A 4YQAA 4YVJA 3N4JA 1ZJRA 3OINA 2HA8A 1Z85A 1V2XA 2QWVA 4YQCA 4JWJA 4YQOA 4KGNA 3QUVA 4YQDA 5GMBA 3O7BA 4CNFA 3L8UA 3KY7A 4FAKA 4YQ8A 3DCMX 4YQNA 2QMMA
chains in the Genus database with same CATH homology


 
#chains in the Genus database with same CATH superfamily
 4YQS A;  4YQ9 A;  3KW2 A;  4J3C A;  4YQ1 A;  4MCD A;  4X3L A;  3KTY A;  3KNU A;  1IPA A;  3IEF A;  4YQI A;  2O3A A;  5FAI A;  4CND A;  4YQ0 A;  4IG6 A;  4YPX A;  2CX8 A;  4RG1 A;  4H3Y A;  1V6Z A;  5D9F A;  4L69 A;  3GYQ A;  1VHK A;  1OY5 A;  3ILK A;  1P9P A;  2NWA A;  4YPY A;  1X7P A;  2Z0Y A;  4YQG A;  4YVK A;  5GMC A;  5GM8 A;  2V3K A;  4YQB A;  4E8B A;  3N4K A;  2YY8 A;  3AI9 X;  3AXZ A;  4H3Z A;  3BBD A;  1TO0 A;  4YQ5 A;  3OIJ A;  1MXI A;  3IC6 A;  1K3R A;  3NK6 A;  4JAK A;  3ONP A;  2EGW A;  4MCB A;  1O6D A;  4YVG A;  4MCC A;  2EGV A;  4XBO A;  4YVH A;  1NXZ A;  3OII A;  3BBH A;  4YQ2 A;  3BBE A;  4YQ3 A;  1VHY A;  1UAJ A;  4YQQ A;  4YQL A;  4YPZ A;  1J85 A;  4YVI A;  4KDZ A;  4YQJ A;  1X7O A;  4CNG A;  4YPW A;  3E5Y A;  3NK7 A;  4YQT A;  4PZK A;  4X3M A;  1GZ0 A;  5CO4 A;  4JAL A;  4YQR A;  4YQ6 A;  4YQK A;  4YQ7 A;  4CNE A;  4YQP A;  2V3J A;  4YQ4 A;  1UAL A;  1UAM A;  1UAK A;  3AIA A;  1VH0 A;  2I6D A;  1NS5 A;  4YQA A;  4YVJ A;  3N4J A;  1ZJR A;  3OIN A;  2HA8 A;  1Z85 A;  1V2X A;  2QWV A;  4YQC A;  4YQO A;  4KGN A;  3QUV A;  4YQD A;  5GMB A;  3O7B A;  4CNF A;  3L8U A;  3KY7 A;  4FAK A;  4YQ8 A;  3DCM X;  4YQN A;  2QMM A; 
#chains in the Genus database with same CATH topology
 5DM7 S;  4YQS A;  4YQ9 A;  5BNZ A;  4JWF A;  3KW2 A;  1UDX A;  5JVH S;  4J3C A;  4YQ1 A;  2RD2 A;  2RE8 A;  2PJJ A;  4MCD A;  4X3L A;  1QRU A;  3KTY A;  3KNU A;  1IPA A;  3IEF A;  4YQI A;  2O3A A;  5FAI A;  4CND A;  4YQ0 A;  4IG6 A;  4YPX A;  2CX8 A;  4WCE S;  4RG1 A;  4H3Y A;  1D6K A;  1V6Z A;  5D9F A;  5GAH W;  4L69 A;  4WFA S;  3GYQ A;  1VHK A;  1OY5 A;  1QTQ A;  3ILK A;  1P9P A;  4H3S A;  1GTS A;  2NWA A;  4YPY A;  1X7P A;  4IOC S;  2G5D A;  2Z0Y A;  4YQG A;  2QMM A;  5IZN A;  4YVK A;  5GMC A;  2ZJQ S;  5GM8 A;  2V3K A;  4YQN A;  4YQB A;  3CF5 S;  4E8B A;  3N4K A;  4U67 S;  2YY8 A;  3AI9 X;  4V19 4;  3AXZ A;  4H3Z A;  3BBD A;  1TO0 A;  4JWG A;  4YQ5 A;  3OIJ A;  1MXI A;  3W2W B;  3IC6 A;  1K3R A;  3PIO S;  3NK6 A;  4JAK A;  3ONP A;  4FMW A;  2EGW A;  5JVG S;  4MCB A;  1QRS A;  1O6D A;  2GAE A;  4YVG A;  4WFN S;  4MCC A;  2PI8 A;  2EGV A;  4XBO A;  4JWH A;  2G6G A;  4YVH A;  3AII A;  1NXZ A;  3OII A;  3BBH A;  3W2V B;  4YQ2 A;  4H4K A;  3BBE A;  4IOA S;  1EXD A;  3DLL S;  4YQ3 A;  1VHY A;  1UAJ A;  4YQQ A;  4YQL A;  4YPZ A;  1J85 A;  4YVI A;  4KDZ A;  3J7Z V;  4YQJ A;  1X7O A;  4CNG A;  4YPW A;  3E5Y A;  2PNW A;  3NK7 A;  1EUY A;  1FEU A;  4YQT A;  4PZK A;  1DFU P;  5GAD W;  1EUQ A;  1GZ0 A;  4X3M A;  4JYZ A;  4WF9 S;  5CO4 A;  3CZB A;  4JAL A;  4YQR A;  4YQ6 A;  4YQK A;  3PIP S;  4YQ7 A;  4CNE A;  1O0B A;  4YQP A;  2V3J A;  4YQ4 A;  1UAL A;  5HL7 S;  1UAM A;  1UAK A;  3AIA A;  4P2B A;  3X1L B;  1VH0 A;  2ZJR S;  2I6D A;  1NS5 A;  1GTR A;  1QRT A;  4YQA A;  4YVJ A;  3N4J A;  1B75 A;  2ZJP S;  4UY8 8;  1ZJR A;  3OIN A;  2HA8 A;  4JXX A;  1V2X A;  2QWV A;  4YQC A;  1O0C A;  4JWJ A;  2PIC A;  4IO9 S;  4YQO A;  4KGN A;  3QUV A;  4YQD A;  5GAE W;  5GAG W;  5GMB A;  3O7B A;  4CNF A;  2HZ7 A;  3KY7 A;  3L8U A;  4FAK A;  4YQ8 A;  1NYL A;  2AE0 X;  5DM6 S;  3DCM X;  4JXZ A;  1ZJW A;  4WFB S;  1Z85 A; 
#chains in the Genus database with same CATH homology
 4YQS A;  4YQ9 A;  4JWF A;  3KW2 A;  4J3C A;  4YQ1 A;  4MCD A;  4X3L A;  3KTY A;  3KNU A;  1IPA A;  3IEF A;  4YQI A;  2O3A A;  5FAI A;  4CND A;  4YQ0 A;  4IG6 A;  4YPX A;  2CX8 A;  4RG1 A;  4H3Y A;  1V6Z A;  5D9F A;  4L69 A;  3GYQ A;  1VHK A;  1OY5 A;  3ILK A;  1P9P A;  2NWA A;  4YPY A;  1X7P A;  2Z0Y A;  4YQG A;  4YVK A;  5GMC A;  5GM8 A;  2V3K A;  4YQB A;  4E8B A;  3N4K A;  2YY8 A;  3AI9 X;  3AXZ A;  4H3Z A;  3BBD A;  1TO0 A;  4JWG A;  4YQ5 A;  3OIJ A;  1MXI A;  3IC6 A;  1K3R A;  3NK6 A;  4JAK A;  3ONP A;  4FMW A;  2EGW A;  4MCB A;  1O6D A;  4YVG A;  4MCC A;  2EGV A;  4XBO A;  4JWH A;  4YVH A;  1NXZ A;  3OII A;  3BBH A;  4YQ2 A;  3BBE A;  4YQ3 A;  1VHY A;  1UAJ A;  4YQQ A;  4YQL A;  4YPZ A;  1J85 A;  4YVI A;  4KDZ A;  4YQJ A;  1X7O A;  4CNG A;  4YPW A;  3E5Y A;  3NK7 A;  4YQT A;  4PZK A;  4X3M A;  1GZ0 A;  5CO4 A;  4JAL A;  4YQR A;  4YQ6 A;  4YQK A;  4YQ7 A;  4CNE A;  4YQP A;  2V3J A;  4YQ4 A;  1UAL A;  1UAM A;  1UAK A;  3AIA A;  1VH0 A;  2I6D A;  1NS5 A;  4YQA A;  4YVJ A;  3N4J A;  1ZJR A;  3OIN A;  2HA8 A;  1Z85 A;  1V2X A;  2QWV A;  4YQC A;  4JWJ A;  4YQO A;  4KGN A;  3QUV A;  4YQD A;  5GMB A;  3O7B A;  4CNF A;  3L8U A;  3KY7 A;  4FAK A;  4YQ8 A;  3DCM X;  4YQN A;  2QMM 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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#similar chains in the pdb database (?% sequence similarity)
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