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 keywords Hypothetical protein HI0303
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
source organism Haemophilus influenzae
molecule tags Structural genomics, unknown function
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
3KNUA 4YQ3A 4YQ8A 4YQQA 4CNEA 4XBOA 4YQTA 3OINA 1UAMA 4YVJA 4YVKA 4YQSA 4YVHA 2V3KA 4KDZA 4YQNA 4YQ0A 3NK7A 2EGWA 4YQDA 1O6DA 1GZ0A 3O7BA 4X3MA 2I6DA 3BBHA 1NS5A 1UALA 1VH0A 4YQ2A 3AIAA 4MCDA 3NK6A 4KGNA 4YQ9A 1NXZA 1Z85A 4J3CA 4YQIA 4YQGA 4YPWA 3L8UA 4H3YA 4MCBA 4YQLA 1X7PA 1TO0A 5GMBA 4CNFA 3ILKA 1V2XA 4YQOA 3IEFA 5D9FA 1OY5A 4YQ7A 2QMMA 3OIJA 4YPXA 3DCMX 3N4KA 4L69A 2O3AA 3KY7A 5FAIA 4CNGA 2CX8A 4YQPA 3ONPA 2EGVA 5CO4A 4YPYA 4JALA 3KW2A 4YQ6A 4MCCA 1K3RA 3BBEA 4FAKA 1UAKA 1ZJRA 1IPAA 3AXZA 3E5YA 2V3JA 4YQCA 1VHKA 1P9PA 4CNDA 4YQBA 4YQKA 5GM8A 4YPZA 3QUVA 3OIIA 3IC6A 1VHYA 4YQJA 4YQ5A 4JAKA 4H3ZA 1MXIA 3BBDA 2Z0YA 4YQ1A 4RG1A 2NWAA 4YQRA 4YQ4A 2HA8A 5GMCA 1V6ZA 4E8BA 4YVGA 4IG6A 2QWVA 1UAJA 3N4JA 3GYQA 1J85A 3AI9X 4PZKA 4X3LA 4YQAA 4YVIA 3KTYA 2YY8A 1X7OA
chains in the Genus database with same CATH superfamily
3KNUA 1QRSA 4JYZA 4YQ8A 4YQ3A 4YQQA 4CNEA 4WFNS 4XBOA 4YQTA 3OINA 1UAMA 2PJJA 4YVJA 4YVKA 1GTSA 4YQSA 5GAHW 4YVHA 2G6GA 2V3KA 4KDZA 4YQNA 2PNWA 4JWGA 4YQ0A 3NK7A 2EGWA 4YQDA 2ZJPS 1O6DA 5DM7S 1GZ0A 3O7BA 4X3MA 2GAEA 2I6DA 3BBHA 3W2VB 1NS5A 1UALA 4H3SA 1VH0A 4WF9S 4YQ2A 3AIAA 4V194 4MCDA 3NK6A 4KGNA 4IOAS 2ZJQS 4YQ9A 1NXZA 1Z85A 1ZJWA 4J3CA 1EUQA 5GAGW 4YQIA 4YQGA 3DLLS 2ZJRS 3CZBA 4YPWA 5GADW 1QTQA 2G5DA 3L8UA 4H3YA 3W2WB 4MCBA 1O0CA 1X7PA 4YQLA 1TO0A 5GMBA 4CNFA 3ILKA 1V2XA 4YQOA 4JWJA 3IEFA 5D9FA 1OY5A 4JWFA 4U67S 4YQ7A 2PICA 2QMMA 3OIJA 4YPXA 3DCMX 3N4KA 4L69A 2O3AA 3KY7A 5FAIA 4CNGA 4P2BA 2CX8A 1FEUA 4YQPA 3ONPA 2EGVA 5CO4A 4YPYA 4JALA 3KW2A 1DFUP 4YQ6A 1EUYA 1QRUA 5GAEW 4MCCA 1K3RA 3BBEA 4FAKA 1UAKA 1QRTA 1ZJRA 1IPAA 2PI8A 3AXZA 3E5YA 5BNZA 4WFAS 1EXDA 4UY88 3AIIA 3CF5S 2V3JA 4YQCA 1VHKA 3X1LB 1P9PA 4CNDA 1UDXA 4YQBA 5DM6S 5JVGS 4YQKA 4YPZA 5GM8A 3QUVA 3OIIA 3IC6A 1VHYA 4YQJA 5JVHS 2AE0X 4YQ5A 4JAKA 4H4KA 4JWHA 4H3ZA 1MXIA 3BBDA 2Z0YA 4YQ1A 2RD2A 2NWAA 4RG1A 4YQRA 4YQ4A 2HA8A 5GMCA 4JXZA 3PIOS 1O0BA 1V6ZA 4E8BA 3PIPS 3J7ZV 1B75A 5IZNA 4YVGA 4IOCS 4IG6A 2RE8A 2QWVA 1NYLA 1UAJA 3N4JA 3GYQA 1J85A 3AI9X 4PZKA 4X3LA 4YQAA 1GTRA 5HL7S 4YVIA 2HZ7A 4WCES 4FMWA 3KTYA 4IO9S 1D6KA 2YY8A 4WFBS 4JXXA 1X7OA
chains in the Genus database with same CATH topology
3KNUA 4YQ3A 4YQ8A 4YQQA 4CNEA 4XBOA 4YQTA 3OINA 1UAMA 4YVJA 4YVKA 4YQSA 4YVHA 2V3KA 4KDZA 4YQNA 4JWGA 4YQ0A 3NK7A 2EGWA 4YQDA 1O6DA 1GZ0A 3O7BA 4X3MA 2I6DA 3BBHA 1NS5A 1UALA 1VH0A 4YQ2A 3AIAA 4MCDA 3NK6A 4KGNA 4YQ9A 1NXZA 1Z85A 4J3CA 4YQIA 4YQGA 4YPWA 3L8UA 4H3YA 4MCBA 4YQLA 1X7PA 1TO0A 5GMBA 4CNFA 3ILKA 1V2XA 4YQOA 4JWJA 3IEFA 5D9FA 1OY5A 4JWFA 4YQ7A 2QMMA 3OIJA 4YPXA 3DCMX 3N4KA 4L69A 2O3AA 3KY7A 5FAIA 4CNGA 2CX8A 4YQPA 3ONPA 2EGVA 5CO4A 4YPYA 4JALA 3KW2A 4YQ6A 4MCCA 1K3RA 3BBEA 4FAKA 1UAKA 1ZJRA 1IPAA 3AXZA 3E5YA 2V3JA 4YQCA 1VHKA 1P9PA 4CNDA 4YQBA 4YQKA 5GM8A 4YPZA 3QUVA 3OIIA 3IC6A 1VHYA 4YQJA 4YQ5A 4JAKA 4JWHA 4H3ZA 1MXIA 3BBDA 2Z0YA 4YQ1A 4RG1A 2NWAA 4YQRA 4YQ4A 2HA8A 5GMCA 1V6ZA 4E8BA 4YVGA 4IG6A 2QWVA 1UAJA 3N4JA 3GYQA 1J85A 3AI9X 4PZKA 4X3LA 4YQAA 4YVIA 4FMWA 3KTYA 2YY8A 1X7OA
chains in the Genus database with same CATH homology


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