1VPBA

Crystal structure of a putative modulator of dna gyrase (bt3649) from bacteroides thetaiotaomicron vpi-5482 at 1.75 a resolution
Slipknot S +31
Knot core range Knot core length Knot tails range Slipknot tails range Slipknot loops range N-end length C-end length Type
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+31 237-413 177 1-236 430-439 414-429 236 10 slipknot
Chain Sequence
MITDENKKLAQWAMDYALKNGCQAAKVLLYSSSNTSFELRD--MDRLQQASEGGLSLSLYVDGRYGSISTNRLNRKELETFIKNGIDSTRYLAKDEARVLADPSRYYKGGKPDLKLYDAKFASLNPDDKIEMAKAVAEEALGKDERIISVGSSYGDGEDFAYRLISNGFEGETKSTWYSLSADITIRGEGEARPSAYWYESSLYMNDLIKKGIGQKALERVLRKLGQKKVQSGKYTMVVDPMNSSRLLSPMISALNGSALQQKNSFLLNKLNEKIASDRLTLTDEPHLVKASGARYFDNEGIATERRSIFDKGVLNTYFIDTYNAKKMGVDPTISGSSILVMETGDKNLDGLIAGVEKGILVTGFNGGNNNSSTGDFSYGIEGFLIENGKLTQPVSEMNVTGNLITLWNSLVATGNDPRLNSSWRIPSLVFEGVDFSGL
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
3.1 227-412 186 1-226 424-437 413-423 226 14 slipknot
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3.1 227-423 197 1-226 426-437 424-425 226 12 slipknot
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2.1 233-421 189 1-232 429-437 422-428 232 9 slipknot
view details
2.1 233-409 177 1-123, 417-437 124-232, 410-416 123 21 slipknot
missing residues 42-43
publication title Crystal structure of Putative modulator of DNA gyrase (bt3649) from Bacteroides thetaiotaomicron vpi-5482 at 1.75 A resolution
rcsb
structure length 437
molecule tags Hydrolase
source organism Bacteroides thetaiotaomicron
sequence length 439
total genus Genus: 129
molecule keywords putative modulator of DNA gyrase
ec nomenclature
pdb deposition date 2004-10-15
KnotProt deposition date 2014-07-31

pfam database annotations

chain Pfam Accession Code Pfam Family Identifier Pfam Description
A PF01523 PmbA_TldD Putative modulator of DNA gyrase
Image from the rcsb pdb (www.rcsb.org)
cath code
ClassArchitectureTopologyHomologyDomain
3.30.2290.10 Alpha Beta 2-Layer Sandwich PmbA/TldD fold PmbA/TldD superfamily 1vpbA01
1VPBA 1VL4A
chains in the KnotProt database with same CATH superfamily
1VPBA 1VL4A
chains in the KnotProt database with same CATH topology
1VPBA 1VL4A
chains in the KnotProt database with same CATH homology


 
#chains in the KnotProt database with same CATH superfamily
 1VPB A;  1VL4 A; 
#chains in the KnotProt database with same CATH topology
 1VPB A;  1VL4 A; 
#chains in the KnotProt database with same CATH homology
 1VPB A;  1VL4 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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