3JCUP

Cryo-em structure of spinach psii-lhcii supercomplex at 3.2 angstrom resolution
Total Genus 25
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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
25
sequence length
172
structure length
172
Chain Sequence
NTEFMPYNGDGFKLLVPSKWNPSKEKEFPGQVLRYEDNFDATSNLSVLVQPTDKKSITDFGSPEDFLSQVDYLLGKQAYFGKTDSEGGFDSGVVASANVLESSTPVVDGKQYYSITVLTRTADGDEGGKHQVIAATVKDGKLYICKAQAGDKRWFKGAKKFVESATSSFSVA
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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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publication title Structure of spinach photosystem II-LHCII supercomplex at 3.2 A resolution
doi rcsb
molecule tags Membrane protein
molecule keywords Photosystem II protein D1
total genus 25
structure length 172
sequence length 172
chains with identical sequence p
ec nomenclature
pdb deposition date 2016-03-10

pfam database annotations

chain Pfam Accession Code Pfam Family Identifier Pfam Description
P PF01789 PsbP PsbP
Image from the rcsb pdb (www.rcsb.org)
cath code
ClassArchitectureTopologyHomologyDomain
3.40.1000.10 Alpha Beta 3-Layer(aba) Sandwich Protein Transport Mog1p; Chain A Mog1/PsbP, alpha/beta/alpha sandwich 3jcuP00
2XB3A 1V2BA 4BQ8C 4RTIA 3V7BA 4BQ6D 3LYDA 2VU4A 3JCUP 2LNJA 3HLZA 1EQ6A 4RTHA 1TU1A 1JHSA 4UI2D
chains in the Genus database with same CATH superfamily
4M5FB 4L9CA 4BQ8C 4LUQC 4N7SB 4N80B 4N88B 3WA5B 2VT8A 3NR5A 4RTIA 1JHSA 4RTHA 3HLZA 1EQ6A 1V2BA 4OUHA 1VR8A 4ESQA 3V7BA 1TU1A 4L9HA 4BQ6D 3BCYA 3LYDA 3JCUP 4UI2D 2VU4A 2LNJA 2XB3A
chains in the Genus database with same CATH topology
2XB3A 1V2BA 4BQ8C 4RTIA 3V7BA 4BQ6D 3LYDA 2VU4A 3JCUP 2LNJA 3HLZA 1EQ6A 4RTHA 1TU1A 1JHSA 4UI2D
chains in the Genus database with same CATH homology


 
#chains in the Genus database with same CATH superfamily
 2XB3 A;  1V2B A;  4BQ8 C;  4RTI A;  3V7B A;  4BQ6 D;  3LYD A;  2VU4 A;  3JCU P;  2LNJ A;  3HLZ A;  1EQ6 A;  4RTH A;  1TU1 A;  1JHS A;  4UI2 D; 
#chains in the Genus database with same CATH topology
 4M5F B;  4L9C A;  4BQ8 C;  4LUQ C;  4N7S B;  4N80 B;  4N88 B;  3WA5 B;  2VT8 A;  3NR5 A;  4RTI A;  1JHS A;  4RTH A;  3HLZ A;  1EQ6 A;  1V2B A;  4OUH A;  1VR8 A;  4ESQ A;  3V7B A;  1TU1 A;  4L9H A;  4BQ6 D;  3BCY A;  3LYD A;  3JCU P;  4UI2 D;  2VU4 A;  2LNJ A;  2XB3 A; 
#chains in the Genus database with same CATH homology
 2XB3 A;  1V2B A;  4BQ8 C;  4RTI A;  3V7B A;  4BQ6 D;  3LYD A;  2VU4 A;  3JCU P;  2LNJ A;  3HLZ A;  1EQ6 A;  4RTH A;  1TU1 A;  1JHS A;  4UI2 D; 
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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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#similar chains in the pdb database (?% sequence similarity)
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