Trying to find file 'pdb1beb.ent' in PDB ... found!

Trying to find file 'pdb1exs.ent' in PDB ... found!

Results for alignment of '1bebB' and '1exsA'

1beb HEADER LIPOCALIN 20-DEC-96 1BEB 
1exs HEADER LIPID-BINDING PROTEIN 04-MAY-00 1EXS 



              
Ne
              
RMSD
              
Z-Score
              
Seq. %
              
Pos. %
              
nFrg
              
Contact match
              
Contact1
              
Contact2
              
Backbone match
              
Backbone1
              
Backbone2
              
Fragments
               
119
1.33313
12.2274
63.03
78.99
18
554
624
644
101
106
105
(3,6,2)
(6,9,1)
(8,11,2)
(10,14,13)
(23,29,1)
(33,36,3)
(36,40,36)
(73,78,1)
(75,79,17)
(93,99,1)
(94,13,1)
(97,101,27)
(128,131,1)
(129,134,1)
(131,135,6)
(139,145,2)
(143,148,2)
(154,158,-2)


ALIGNMENT FASTA for SEED #1
1bebB
QTM------KGL-DI-QK-VAGTWYSLAMAAS--DISLLDAQSA------PLR-VYVEELKPTPEGDLEILLQKWENGEC
1exsA
---VEVTPIMT-EL-DTQKVAGTWHTVAMAVSDVS---------LLDAKSSPLKAYVEGLKPTPEGDLEILLQKRENDKC
CONSERVED RESIDUES
-------------------VAGTW---AMA-S-----------------------YVE-LKPTPEGDLEILLQK-EN--C
1bebB
AQKKIIAEKTK--IPAVFKIDALNENKVLVLDT---DYKK-YLLFCMENSAEPEQSLVCQCLVRTPEVDDEA---L--EK
1exsA
AQEVLLAKKT-DIP-AVFKINALDENQLFLLD-TDYD---SHLLLCMENSASPEHSLVCQSLARTLEV----DDQIREK-
CONSERVED RESIDUES
AQ----A-KT-----AVFKI-AL-EN----LD----D-----LL-CMENSA-PE-SLVCQ-L-RT-EV------------
1bebB
FDKALKAL----PMHI-RLSFNPTQLEEQCX----------
1exsA
FEDALK--TLSVPM--RIL------------PAQLEEQCRV
CONSERVED RESIDUES
F--ALK------PM----L----------------------


Fragment notation: (n1,n2,l)
n1 - residue number in 1bebB
n2 - residue number in 1exsA
l - fragment length (is negative when residues are aligned in reverse order)

***Negative Fragments (non-sequential alignments) can not be shown in a sequential alignment - 
so they are removed, which could lead to fewer aligned residues then shown by Ne


Date of submission 6-19-2006  6:40