4M4DA

Crystal structure of lipopolysaccharide binding protein
Total Genus 104
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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
104
sequence length
455
structure length
448
Chain Sequence
VNPGVVARITDKGLAYAAKEGLVALQRELYKITLPDFSGDFKIKAVGRGQYEFHSLEIQNCELRGSSLKLLPGQGLSLAISDSSIGVRGKWKVRKSFLKLHGSFDLDVKGVTISVDLLLGMDPSGRPTVSASGCSSRICDLDVHISGNVGWLLNLFHNQIESKLQKVLENKVCEMIQKSVTSDLQPYLQTLPVTAEIDNVLGIDYSLVAAPQAKAQVLDVMFKGEIFNRNHRSPVATPTPTMSLPEDSKQMVYFAISDYAFNIASYLNFSITDDMLPHDSGIRLNTKAFRPFTPQIYKKYPDMKLELLGTVVSAPILNVSPGNLSLAPQMEIEGFVILPTSAREPVFRLGVVTNVFASLTFNNSKVTGMLHPDKAQVRLIESKVGMFNVNLFQAFLNYYLLNSLYPDVNAELAQGFPLPLPRHIQLHDLDFQIRKDFLYLGANVQYMR
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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 Lipid binding protein
molecule keywords Lipopolysaccharide-binding protein
publication title The crystal structure of lipopolysaccharide binding protein reveals the location of a frequent mutation that impairs innate immunity.
pubmed doi rcsb
source organism Mus musculus
total genus 104
structure length 448
sequence length 455
chains with identical sequence B
ec nomenclature
pdb deposition date 2013-08-07

pfam database annotations

chain Pfam Accession Code Pfam Family Identifier Pfam Description
A PF01273 LBP_BPI_CETP LBP / BPI / CETP family, N-terminal domain
A PF02886 LBP_BPI_CETP_C LBP / BPI / CETP family, C-terminal domain
Image from the rcsb pdb (www.rcsb.org)
cath code
ClassArchitectureTopologyHomologyDomain
3.15.10.10 Alpha Beta Super Roll Bactericidal permeability-increasing protein; domain 1 Bactericidal permeability-increasing protein; domain 1 4m4dA02
3.15.20.10 Alpha Beta Super Roll Bactericidal permeability-increasing protein; domain 2 Bactericidal permeability-increasing protein; domain 2 4m4dA01
4M4DA 4KGHA 1EWFA 5I7KA 4F2AA 1BP1A 4EWSA 5I7LA 5I7JA 4KGOA 3ZPMA 2OBDA
chains in the Genus database with same CATH superfamily
3E8TA 2RCKA 5I7LA 5I7JA 3E8WA 3A1ZA 1EWFA 3UV1A 3H4ZA 3ZPMA 5I7KA 3AOTA 4G0SA 1BP1A 1USUB 2OBDA 3AOSA 3N72A 4M4DA 4F2AA 4EWSA 4KGOA 4KGHA 1USVB 3L6IA 2RQFA
chains in the Genus database with same CATH topology
3E8TA 2RCKA 5I7LA 5I7JA 3E8WA 3A1ZA 1EWFA 3UV1A 3H4ZA 3ZPMA 5I7KA 3AOTA 4G0SA 1BP1A 1USUB 2OBDA 3AOSA 3N72A 4M4DA 4F2AA 4EWSA 4KGOA 4KGHA 1USVB 3L6IA 2RQFA
chains in the Genus database with same CATH homology


 
#chains in the Genus database with same CATH superfamily
 4M4D A;  4KGH A;  1EWF A;  5I7K A;  4F2A A;  1BP1 A;  4EWS A;  5I7L A;  5I7J A;  4KGO A;  3ZPM A;  2OBD A; 
#chains in the Genus database with same CATH topology
 3E8T A;  2RCK A;  5I7L A;  5I7J A;  3E8W A;  3A1Z A;  1EWF A;  3UV1 A;  3H4Z A;  3ZPM A;  5I7K A;  3AOT A;  4G0S A;  1BP1 A;  1USU B;  2OBD A;  3AOS A;  3N72 A;  4M4D A;  4F2A A;  4EWS A;  4KGO A;  4KGH A;  1USV B;  3L6I A;  2RQF A; 
#chains in the Genus database with same CATH homology
 3E8T A;  2RCK A;  5I7L A;  5I7J A;  3E8W A;  3A1Z A;  1EWF A;  3UV1 A;  3H4Z A;  3ZPM A;  5I7K A;  3AOT A;  4G0S A;  1BP1 A;  1USU B;  2OBD A;  3AOS A;  3N72 A;  4M4D A;  4F2A A;  4EWS A;  4KGO A;  4KGH A;  1USV B;  3L6I A;  2RQF 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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