1NXZA

X-ray crystal structure of protein yggj_haein of haemophilus influenzae. northeast structural genomics consortium target ir73.
Total Genus 67
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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
67
Knots found
sequence length
246
structure length
246
Chain Sequence
RIPRIYHPISLENQTQCYLSEDAANHVARVLRMTEGEQLELFDGSNHIYPAKIIESNKKSVKVEILGRELADKESHLKIHLGQVISRGERMEFTIQKSVELGVNVITPLWSERCGVKLDAERMDKKIQQWQKIAIAACEQCGRNIVPEIRPLMKLQDWCAENDGALKLNLHPRAHYSIKTLPTIPAGGVRLLIGSEGGLSAQEIAQTEQQGFTEILLGKRVLRTETASLAAISALQICFGDLGEAA
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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 Structural genomics, unknown function
source organism Haemophilus influenzae
publication title Functional assignment based on structural analysis: crystal structure of the yggJ protein (HI0303) of Haemophilus influenzae reveals an RNA methyltransferase with a deep trefoil knot.
pubmed doi rcsb
molecule keywords Hypothetical protein HI0303
total genus 67
structure length 246
sequence length 246
chains with identical sequence B
other databases KnotProt 2.0: K +31
ec nomenclature ec 2.1.1.193: 16S rRNA (uracil(1498)-N(3))-methyltransferase.
pdb deposition date 2003-02-11

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 1nxzA01
3.40.1280.10 Alpha Beta 3-Layer(aba) Sandwich Alpha/beta knot Alpha/beta knot 1nxzA02
2I6DA 3NK7A 1GZ0A 4MCDA 3OIJA 4YQ4A 4YQ6A 3N4KA 1UAMA 3OINA 4YQOA 3L8UA 4CNEA 4YQPA 5GMBA 4CNGA 4YQLA 4YVHA 3IEFA 3O7BA 3NK6A 4CNDA 3KTYA 4YQ9A 1Z85A 3BBDA 4JAKA 5FAIA 1UAKA 4YQ2A 1ZJRA 3DCMX 4YQCA 2EGVA 4YQ8A 5CO4A 4YPWA 4X3LA 3AI9X 4YPXA 4FAKA 3IC6A 2CX8A 4YQSA 4YQ3A 4YVJA 2YY8A 5GMCA 4YVKA 4L69A 4YQDA 4YQBA 4YQTA 4IG6A 3ILKA 2V3KA 3ONPA 2EGWA 1UALA 3E5YA 1P9PA 1NS5A 4YPYA 4YQGA 1VHYA 3AXZA 4XBOA 4YQIA 2QMMA 3GYQA 2O3AA 4MCBA 4CNFA 3QUVA 1X7PA 4E8BA 4KGNA 4YQ0A 4YVGA 4YQRA 2QWVA 1V6ZA 1MXIA 4H3YA 1VHKA 4YQAA 1VH0A 1V2XA 3OIIA 3N4JA 1J85A 5D9FA 3KNUA 4YQ5A 4YQKA 3BBEA 4J3CA 1NXZA 4YVIA 3BBHA 1IPAA 4YQ1A 1TO0A 1OY5A 4YQQA 4X3MA 4YPZA 4YQ7A 4JALA 1O6DA 1UAJA 2NWAA 3KW2A 2Z0YA 4YQJA 1X7OA 3AIAA 4H3ZA 4KDZA 2HA8A 2V3JA 4YQNA 3KY7A 4MCCA 5GM8A 4PZKA 1K3RA 4RG1A
chains in the Genus database with same CATH superfamily
2I6DA 4WFBS 3NK7A 1GZ0A 4MCDA 3OIJA 4YQ4A 4YQ6A 3X1LB 2PJJA 1O0CA 3N4KA 1UAMA 3OINA 4YQOA 3L8UA 4CNEA 2ZJRS 4YQPA 1B75A 5GMBA 4CNGA 4YQLA 4YVHA 4JWHA 3IEFA 3O7BA 3NK6A 4CNDA 2PICA 3KTYA 5JVHS 4YQ9A 1EXDA 1Z85A 3BBDA 4JAKA 4WCES 1UAKA 5FAIA 3W2VB 1ZJRA 3DCMX 4YQ2A 1QRUA 4YQCA 2EGVA 4YQ8A 5CO4A 4YPWA 4U67S 4X3LA 4JWGA 3AI9X 1QRSA 4YPXA 4FAKA 3IC6A 4JYZA 2CX8A 3J7ZV 4YQSA 4YQ3A 4YVJA 2YY8A 5GMCA 4YVKA 2HZ7A 4L69A 4YQDA 4YQBA 1ZJWA 4YQTA 4IG6A 1GTRA 3ILKA 2V3KA 3ONPA 5GAHW 2PI8A 2EGWA 1UALA 4WF9S 3E5YA 2PNWA 1P9PA 1NS5A 4H4KA 1QTQA 4YPYA 4YQGA 1VHYA 3CZBA 3AXZA 4XBOA 4YQIA 2QMMA 3AIIA 3GYQA 4UY88 2O3AA 2G5DA 4JXZA 4MCBA 2ZJPS 4CNFA 3QUVA 1X7PA 5JVGS 4WFNS 1GTSA 4P2BA 4E8BA 1NYLA 2GAEA 5DM6S 3CF5S 4KGNA 4YQ0A 5HL7S 4YVGA 4YQRA 2QWVA 1V6ZA 1MXIA 4H3YA 1VHKA 4YQAA 1VH0A 1FEUA 4IO9S 5GAEW 1V2XA 5IZNA 1D6KA 3OIIA 3PIPS 2RE8A 1QRTA 3N4JA 1DFUP 1J85A 5D9FA 3KNUA 4YQ5A 4YQKA 4IOCS 5DM7S 2ZJQS 4WFAS 3BBEA 4J3CA 1NXZA 4YVIA 2G6GA 1IPAA 3BBHA 4JWJA 4YQ1A 4IOAS 1TO0A 1OY5A 4YQQA 4X3MA 4YPZA 4YQ7A 4JALA 3PIOS 1O6DA 2NWAA 1UAJA 4JWFA 3KW2A 2Z0YA 4H3SA 4YQJA 1X7OA 1EUQA 3AIAA 1O0BA 1EUYA 4H3ZA 4FMWA 1UDXA 4V194 5BNZA 4KDZA 2HA8A 2V3JA 5GAGW 3DLLS 4YQNA 3KY7A 4MCCA 5GM8A 4PZKA 1K3RA 4RG1A 2AE0X 3W2WB 5GADW 4JXXA 2RD2A
chains in the Genus database with same CATH topology
2I6DA 3NK7A 1GZ0A 4MCDA 3OIJA 4YQ4A 4YQ6A 3N4KA 1UAMA 3OINA 4YQOA 3L8UA 4CNEA 4YQPA 5GMBA 4CNGA 4YQLA 4YVHA 4JWHA 3IEFA 3O7BA 3NK6A 4CNDA 3KTYA 4YQ9A 1Z85A 3BBDA 4JAKA 5FAIA 1UAKA 4YQ2A 1ZJRA 3DCMX 4YQCA 2EGVA 4YQ8A 5CO4A 4YPWA 4X3LA 4JWGA 3AI9X 4YPXA 4FAKA 3IC6A 2CX8A 4YQSA 4YQ3A 4YVJA 2YY8A 5GMCA 4YVKA 4L69A 4YQDA 4YQBA 4YQTA 4IG6A 3ILKA 2V3KA 3ONPA 2EGWA 1UALA 3E5YA 1P9PA 1NS5A 4YPYA 4YQGA 1VHYA 3AXZA 4XBOA 4YQIA 2QMMA 3GYQA 2O3AA 4MCBA 4CNFA 3QUVA 1X7PA 4E8BA 4KGNA 4YQ0A 4YVGA 4YQRA 2QWVA 1V6ZA 1MXIA 4H3YA 1VHKA 4YQAA 1VH0A 1V2XA 3OIIA 3N4JA 1J85A 5D9FA 3KNUA 4YQ5A 4YQKA 3BBEA 4J3CA 1NXZA 4YVIA 3BBHA 1IPAA 4JWJA 4YQ1A 1TO0A 1OY5A 4YQQA 4X3MA 4YPZA 4YQ7A 4JALA 1O6DA 1UAJA 2NWAA 4JWFA 3KW2A 2Z0YA 4YQJA 1X7OA 3AIAA 4H3ZA 4FMWA 4KDZA 2HA8A 2V3JA 4YQNA 3KY7A 4MCCA 5GM8A 4PZKA 1K3RA 4RG1A
chains in the Genus database with same CATH homology


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