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# Program: MUSTANG-Lite v0.1: A  Multiple structural alignment algorithm
# Authors: A. S. Konagurthu, A. M. Lesk, J. C. Whisstock, and P. J. Stuckey
# Rundate: Sat Jul 23 19:54:11 2005
# Report_file: /mnt/EXTRA_STORAGE/MUSTANG_RESULTS/HOMSTRAD_Datasets/results/MHC_II_C.html
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#====================================
# Aligned_structures: 8
#   1: 1fnga.pdb
#   2: 1fngb.pdb
#   3: 1fv1a.pdb
#   4: 1fv1b.pdb
#   5: 1hdma.pdb
#   6: 1hdmb.pdb
#   7: 1iaka.pdb
#   8: 1iakb.pdb
#
# Length:        112
# Identity:       11/112 (  9.8%)  (Calculated as the percentage of conserved columns in the alignment.)
# Similarity:     20/112 ( 17.9%)  (Calculated as the percentage of semi-conserved columns in the alignment)
# Gaps:           23/112 ( 20.5%)  (Calculated as the percentage of columns with atleast one gap.)

#===========================================ALIGNMENT START=========================================


1fnga.pdb               1  -ANVAPEVTVLSRS--PVN-L---GEPNILICFIDKFSPPVVNVTWLRNGRPVTEGVSET   53
1fngb.pdb               1  --RVEPTVTVYPTKT-QP-L---E-HHNLLVCSVSDFYPGNIEVRWFRNGKEEKTGIVST   52
1fv1a.pdb               1  ITNVPPEVTVLTNS--PVE-L---REPNVLICFIDKFTPPVVNVTWLRNGKPVTTGVSET   54
1fv1b.pdb               1  -RRVEPKVTVYPAR-TQT--L--Q-HHNLLVCSVNGFYPGSIEVRWFRNSQEEKAGVVST   53
1hdma.pdb               1  -SRGFPIAEVFTLK--PLE-F---GKPNTLVCFVSNLFPPMLTVNWHDHSVPVE-GFGPT   52
1hdmb.pdb               1  --TRPPSVQVAKT---TPF-NTRE--PVMLACYVWGFYPAEVTITWRKNGKLVM-HSSAH   51
1iaka.pdb               1  ATNEAPQATVFPKS--PVL-L---GQPNTLICFVDNIFPPVINITWLRNSKSVTDGVYET   54
1iakb.pdb               1  -RLEQPSVVISLSR--TEA-L---NHHNTLVCSVTDFYPAKIKVRWFRNGQEETVGVSST   53
                                P   v                 n L C      P      W  n      g   t

1fnga.pdb              54  -VFLPRDDHLFRKFHYLTFLPSTDDFYDCEVDHWGLEEPLRKHWEFEE----  100
1fngb.pdb              53  -GLVRNGDWTFQTLVMLETVPQSGEVYTCQVEHPSLTDPVTVEW--------   95
1fv1a.pdb              55  -VFLPREDHLFRKFHYLPFLPSTEDVYDCRVEHWGLDEPLLKHWEFD-----  100
1fv1b.pdb              54  -GLIQNGDWTFQTLVMLETVPRSGEVYTCQVEHPSVTSPLTVEWRA------   98
1hdma.pdb              53  -FVSAVDGLSFQAFSYLNFTPEPSDIFSCIVTHEPDRYTAIAYWVPRNALPS  103
1hdmb.pdb              52  KTAQPNGDWTYQTLSHLALTPSYGDTYTCVVEHIGAPEPILRDWTPG-----   98
1iaka.pdb              55  -SFFVNRDYSFHKLSYLTFIPSDDDIYDCKVEHWGLEEPVLKHWEPE-----  100
1iakb.pdb              54  -QLIRNGDWTFQVLVMLEMTPRRGEVYTCHVEHPSLTSPITVEWRA------   98
                                  d  f     L   P     y C V H     p    W        


#=========================================ALIGNMENT END=============================================
#LEGEND:
#
# Colours indicate the chemical nature of the amino acid;
# Red         = small hydrophobic including aromatic,{A,F,I,L,M,P,V,W}
# Blue        = Acidic,{D,E}
# Magenta     = Basic,{K,R} and
# Green       = Basic amino acids with hydroxyl groups and/or amine groups {C,G,H,N,Q,S,T,Y}.
#
# The "markup row" below each stretch of the multiple alignment is used to mark completely conserved
# residue (denoted in UPPERCASE) and semi-conserved reside ( denoted in lowercase) in a column of the alignment.
#
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