2QMMA

Crystal structure of apc86534.1 (c-terminal domain of ncbi aab90184.1; pfam big 123.1)
Knot K +31
Knot core range Knot core length Knot tails range Slipknot tails range Slipknot loops range N-end length C-end length Type
view details
+31 127-169 43 1-126, 170-195 126 26 knot
Chain Sequence
AVRGFLIVGNKAFTQPFSLNDLPGAGRMDVLCRCTSQALFISHGIRRDVEVYLLLLGPPSPPKSILIKGDEVRRMSPDERNVAGHIKKALAVECGKSWKKVHSGVYVSRKGLEELIEELSEKYSIIYLKEDGVDISNAQLPPNPLFVIGDHEGLTEEQEKVVERYAALKLSLSPLSLLAEQCVVIAHHHLDRLQF
Whole chain analysis
Subchain analysis 

Knotoid cutoff: 0.5


Knotoid matrix content: 1

Knot core range Knot core length Knot tails range Slipknot tails range Slipknot loops range N-end length C-end length Type
view details
3.1 126-170 45 1-125, 171-195 125 25 knot
view details
2.1 125-167 43 1-124 174-195 168-173 124 22 slipknot
view details
3.1 127-172 46 173-195 1-125 126-126 125 22 slipknot
sequence length 195
structure length 195
publication title Crystal structure of APC86534.1 (C-terminal domain of NCBI AAB90184.1; Pfam BIG 123.1).
rcsb
molecule tags Structural genomics, unknown function
molecule keywords UPF0217 protein AF_1056
source organism Archaeoglobus fulgidus dsm 4304
total genus Genus: 71
ec nomenclature ec 2.1.1.257: tRNA (pseudouridine(54)-N(1))-methyltransferase.
pdb deposition date 2007-07-16
KnotProt deposition date 2014-07-31

pfam database annotations

chain Pfam Accession Code Pfam Family Identifier Pfam Description
A PF04013 Methyltrn_RNA_2 Putative SAM-dependent RNA methyltransferase
Image from the rcsb pdb (www.rcsb.org)
cath code
ClassArchitectureTopologyHomologyDomain
3.40.1280.10 Alpha Beta 3-Layer(aba) Sandwich Alpha/beta knot Alpha/beta knot 2qmmA00
1NS5A 1UAJA 3KTYA 1ZJRA 3QUVA 3L8UA 3KNUA 1UAKA 3AI9X 4CNEB 1NXZA 3DCMX 4CNGB 3ONPA 2HA8A 3N4KA 4IG6A 3N4JA 3ILKA 1VHKA 3IC6A 1VH0A 3AXZA 1V2XA 1O6DA 1TO0A 1K3RA 1X7PA 1GZ0A 3AIAA 2CX8A 3GYQA 2I6DA 3IEFA 3NK6A 1J85A 1P9PA 1X7OA 4H3ZA 4FAKA 3NK7A 4H3YA 2YY8A 3KY7A 2O3AA 1V6ZA 1UAMA 2QWVA 4CNFB 4E8BA 1VHYA 2QMMA 1UALA 2Z0YA 3E5YA 1MXIA
chains in the KnotProt database with same CATH superfamily
1NS5A 1UAJA 3KTYA 1ZJRA 3QUVA 3L8UA 3KNUA 1UAKA 3AI9X 4CNEB 1NXZA 3DCMX 4CNGB 3ONPA 2HA8A 3N4KA 4IG6A 3N4JA 3ILKA 1VHKA 3IC6A 1VH0A 3AXZA 1V2XA 1O6DA 1TO0A 1K3RA 1X7PA 1GZ0A 3AIAA 2CX8A 3GYQA 2I6DA 3IEFA 3NK6A 1J85A 1P9PA 1X7OA 4H3ZA 4FAKA 3NK7A 4H3YA 2YY8A 3KY7A 2O3AA 1V6ZA 1UAMA 2QWVA 4CNFB 4E8BA 1VHYA 2QMMA 1UALA 2Z0YA 3E5YA 1MXIA
chains in the KnotProt database with same CATH topology
1NS5A 1UAJA 3KTYA 1ZJRA 3QUVA 3L8UA 3KNUA 1UAKA 3AI9X 4CNEB 1NXZA 3DCMX 4CNGB 3ONPA 2HA8A 3N4KA 4IG6A 3N4JA 3ILKA 1VHKA 3IC6A 1VH0A 3AXZA 1V2XA 1O6DA 1TO0A 1K3RA 1X7PA 1GZ0A 3AIAA 2CX8A 3GYQA 2I6DA 3IEFA 3NK6A 1J85A 1P9PA 1X7OA 4H3ZA 4FAKA 3NK7A 4H3YA 2YY8A 3KY7A 2O3AA 1V6ZA 1UAMA 2QWVA 4CNFB 4E8BA 1VHYA 2QMMA 1UALA 2Z0YA 3E5YA 1MXIA
chains in the KnotProt database with same CATH homology


 
#chains in the KnotProt database with same CATH superfamily
 1NS5 A;  1UAJ A;  3KTY A;  1ZJR A;  3QUV A;  3L8U A;  3KNU A;  1UAK A;  3AI9 X;  4CNE B;  1NXZ A;  3DCM X;  4CNG B;  3ONP A;  2HA8 A;  3N4K A;  4IG6 A;  3N4J A;  3ILK A;  1VHK A;  3IC6 A;  1VH0 A;  3AXZ A;  1V2X A;  1O6D A;  1TO0 A;  1K3R A;  1X7P A;  1GZ0 A;  3AIA A;  2CX8 A;  3GYQ A;  2I6D A;  3IEF A;  3NK6 A;  1J85 A;  1P9P A;  1X7O A;  4H3Z A;  4FAK A;  3NK7 A;  4H3Y A;  2YY8 A;  3KY7 A;  2O3A A;  1V6Z A;  1UAM A;  2QWV A;  4CNF B;  4E8B A;  1VHY A;  2QMM A;  1UAL A;  2Z0Y A;  3E5Y A;  1MXI A; 
#chains in the KnotProt database with same CATH topology
 1NS5 A;  1UAJ A;  3KTY A;  1ZJR A;  3QUV A;  3L8U A;  3KNU A;  1UAK A;  3AI9 X;  4CNE B;  1NXZ A;  3DCM X;  4CNG B;  3ONP A;  2HA8 A;  3N4K A;  4IG6 A;  3N4J A;  3ILK A;  1VHK A;  3IC6 A;  1VH0 A;  3AXZ A;  1V2X A;  1O6D A;  1TO0 A;  1K3R A;  1X7P A;  1GZ0 A;  3AIA A;  2CX8 A;  3GYQ A;  2I6D A;  3IEF A;  3NK6 A;  1J85 A;  1P9P A;  1X7O A;  4H3Z A;  4FAK A;  3NK7 A;  4H3Y A;  2YY8 A;  3KY7 A;  2O3A A;  1V6Z A;  1UAM A;  2QWV A;  4CNF B;  4E8B A;  1VHY A;  2QMM A;  1UAL A;  2Z0Y A;  3E5Y A;  1MXI A; 
#chains in the KnotProt database with same CATH homology
 1NS5 A;  1UAJ A;  3KTY A;  1ZJR A;  3QUV A;  3L8U A;  3KNU A;  1UAK A;  3AI9 X;  4CNE B;  1NXZ A;  3DCM X;  4CNG B;  3ONP A;  2HA8 A;  3N4K A;  4IG6 A;  3N4J A;  3ILK A;  1VHK A;  3IC6 A;  1VH0 A;  3AXZ A;  1V2X A;  1O6D A;  1TO0 A;  1K3R A;  1X7P A;  1GZ0 A;  3AIA A;  2CX8 A;  3GYQ A;  2I6D A;  3IEF A;  3NK6 A;  1J85 A;  1P9P A;  1X7O A;  4H3Z A;  4FAK A;  3NK7 A;  4H3Y A;  2YY8 A;  3KY7 A;  2O3A A;  1V6Z A;  1UAM A;  2QWV A;  4CNF B;  4E8B A;  1VHY A;  2QMM A;  1UAL A;  2Z0Y A;  3E5Y A;  1MXI A; 
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similar chains in the KnotProt database (?% sequence similarity)
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similar chains in the pdb database (?% sequence similarity)

 
#similar chains in the KnotProt 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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