DaliLite: Structural Neighbours

Query: 1VH5B MOLECULE: HYPOTHETICAL PROTEIN YDII;

The output is truncated at max 100 structural neighbours. Matches are sorted by Z-score. Similarities with a Z-score lower than 2 are spurious.

Summary

Notation:

Chain: PDB entry code plus chain identifier
Z: normalized Z-score that depends on the size of the structures. The program optimises a weighted sum of similarities of intramolecular distances.
rmsd: root-mean-square deviation of C-alpha atoms in the least-squares superimposition of the structurally equivalent C-alpha atoms. The program does not optimise rmsd, this is only reported for your information.
lali: number of structurally equivalent residues
nres: number of amino acids in the protein
%id: percentage of identical amino acids over all structurally equivalent residues
Description: the COMPND record from the PDB entry

  No:  Chain   Z    rmsd lali nres  %id  Description
   1:  1VH9-A 26.9  0.5  138   138   59   HYPOTHETICAL PROTEIN YBDB;                                 "         
-

No 1: 1VH9A  MOLECULE: HYPOTHETICAL PROTEIN YBDB;                                 

DSSP  LLLLLLLLLHHHHHHLLLLLHHHHLLLEEEEELLLLEEEEEELLLLLLLLLLLLLHHHHH
Query SLIWKRKITLEALNAMGEGNMVGFLDIRFEHIGDDTLEATMPVDSRTKQPFGLLHGGASV   60
ident ||||||  ||  |||     ||  | |     ||| ||| |||| || ||||||||||| 
Sbjct SLIWKRHLTLDELNATSDNTMVAHLGIVYTRLGDDVLEAEMPVDTRTHQPFGLLHGGASA   60
DSSP  LLLLLLLLLHHHHHHLLLLLHHHHLLLEEEEELLLLEEEEEELLLLLLLLLLLLLHHHHH


DSSP  HHHHHHHHHHHHHLLLLLLEEEEEEEEEEELLLLLLLEEEEEEEEEEELLLEEEEEEEEE
Query VLAESIGSVAGYLCTEGEQKVVGLEINANHVRSAREGRVRGVCKPLHLGSRHQVWQIEIF  120
ident  |||  || ||   |   | ||| | || | |   || ||||| |||||   | | |  |
Sbjct ALAETLGSMAGFMMTRDGQCVVGTELNATHHRPVSEGKVRGVCQPLHLGRQNQSWEIVVF  120
DSSP  HHHHHHHHHHHHLLLLLLLLEEEEEEEEEELLLLLLLEEEEEEEEEEELLLEEEEEEEEE


DSSP  LLLLLEEEEEEEEEEEEL
Query DEKGRLCCSSRLTTAILE  138
ident || || ||  || || | 
Sbjct DEQGRRCCTCRLGTAVLG  138
DSSP  LLLLLEEEEEEEEEEELL