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


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