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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: Fri Jul 22 22:26:50 2005
# Report_file: /mnt/EXTRA_STORAGE/MUSTANG_RESULTS/HOMSTRAD_Datasets/results/Phage_F.html
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#====================================
# Aligned_structures: 2
#   1: 1cd3f.pdb
#   2: 1gff1.pdb
#
# Length:        426
# Identity:      279/426 ( 65.5%)  (Calculated as the percentage of conserved columns in the alignment.)
# Similarity:    279/426 ( 65.5%)  (Calculated as the percentage of semi-conserved columns in the alignment)
# Gaps:            9/426 (  2.1%)  (Calculated as the percentage of columns with atleast one gap.)

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


1cd3f.pdb               1  SNIQTGAERMPHDLSHLGFLAGQIGRLITISTTPVIAGDSFEMDAVGALRLSPLRRGLAI   60
1gff1.pdb               1  ---------VPHDLSHLVFEAGKIGRLKTISWTPVVAGDSFECDMVGAIRLSPLRRGLAV   51
                                     PHDLSHL F AG IGRL TIS TPV AGDSFE D VGA RLSPLRRGLA 

1cd3f.pdb              61  DSTVDIFTFYVPHRHVYGEQWIKFMKDGVNATPLPTVNTTGYIDHAAFLGTINPDTNKIP  120
1gff1.pdb              52  DSRVDIFSFYIPHRHIYGQQWINFMKDGVNASPLPPVTCSSGWDSAAYLGTIPSSTLKVP  111
                           DS VDIF FY PHRH YG QWI FMKDGVNA PLP V      D AA LGTI   T K P

1cd3f.pdb             121  KHLFQGYLNIYNNYFKAPWMPDRTEANPNELNQDDARFGFRCCHLKNIWTAPLPPETELS  180
1gff1.pdb             112  KFLHQGYLNIYNNYFKPPWSDDLTYANPSNMPSEDYKWGVRVANLKSIWTAPLPPDTRTS  171
                           K L QGYLNIYNNYFK PW  D T ANP      D   G R   LK IWTAPLPP T  S

1cd3f.pdb             181  RQMTTSTTSIDIMGLQAAYANLHTDQERDYFMQRYRDVISSFGGKTSYDADNRPLLVMRS  240
1gff1.pdb             172  ENMTTGTSTIDIMGLQAAYAKLHTEQERDYFMTRYRDIMKEFGGHTSYDGDNRPLLLMRS  231
                             MTT T  IDIMGLQAAYA LHT QERDYFM RYRD    FGG TSYD DNRPLL MRS

1cd3f.pdb             241  NLWASGYDVDGTDQTSLGQFSGRVQQTYKHSVPRFFVPEHGTMFTLALVRFPPTATKEIQ  300
1gff1.pdb             232  EFWASGYDVDGTDQSSLGQFSGRVQQTFNHKVPRFYVPEHGVIMTLAVTRFPPTHEMEMH  291
                             WASGYDVDGTDQ SLGQFSGRVQQT  H VPRF VPEHG   TLA  RFPPT   E  

1cd3f.pdb             301  YLNAKGALTYTDIAGDPVLYGNLPPREISMKDVFRSGDSSKKFKIAEGQWYRYAPSYVSP  360
1gff1.pdb             292  YLVGKENLTYTDIACDPALMANLPPREVSLKEFFHSSPDSAKFKIAEGQWYRTQPDRVAF  351
                           YL  K  LTYTDIA DP L  NLPPRE S K  F S   S KFKIAEGQWYR  P  V  

1cd3f.pdb             361  AYHLLEGFPFIQEPPSGDLQERVLIRHHDYDQCFQSVQLLQWNSQVKFNVTVYRNLPTTR  420
1gff1.pdb             352  PYNALDGFPFYSALPSTDLKDRVLVNTNNYDEIFQSMQLAHWNMQTKFNINVYRHMPTTR  411
                            Y  L GFPF    PS DL  RVL     YD  FQS QL  WN Q KFN  VYR  PTTR

1cd3f.pdb             421  DSIMTS  426
1gff1.pdb             412  DSIMTS  417
                           DSIMTS


#=========================================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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