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
b'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 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
molecule tags Lipid binding protein
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
4EWSA 4KGHA 5I7JA 4F2AA 5I7LA 4KGOA 4M4DA 1BP1A 3ZPMA 5I7KA 1EWFA 2OBDA
chains in the Genus database with same CATH superfamily
3E8TA 4EWSA 2RCKA 4F2AA 5I7LA 3L6IA 1BP1A 3AOTA 3ZPMA 5I7KA 3A1ZA 4KGHA 3AOSA 1USUB 1USVB 3E8WA 4KGOA 2RQFA 3N72A 1EWFA 2OBDA 3H4ZA 3UV1A 5I7JA 4M4DA 4G0SA
chains in the Genus database with same CATH topology
3E8TA 4EWSA 2RCKA 4F2AA 5I7LA 3L6IA 1BP1A 3AOTA 3ZPMA 5I7KA 3A1ZA 4KGHA 3AOSA 1USUB 1USVB 3E8WA 4KGOA 2RQFA 3N72A 1EWFA 2OBDA 3H4ZA 3UV1A 5I7JA 4M4DA 4G0SA
chains in the Genus database with same CATH homology


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