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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 19:11:33 2005
# Report_file: /mnt/EXTRA_STORAGE/MUSTANG_RESULTS/HOMSTRAD_Datasets/results/Cu-oxidase.html
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#====================================
# Aligned_structures: 2
#   1: 1a65a.pdb
#   2: 1aoza.pdb
#
# Length:        600
# Identity:      130/600 ( 21.7%)  (Calculated as the percentage of conserved columns in the alignment.)
# Similarity:    130/600 ( 21.7%)  (Calculated as the percentage of semi-conserved columns in the alignment)
# Gaps:          144/600 ( 24.0%)  (Calculated as the percentage of columns with atleast one gap.)

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


1a65a.pdb               1  QIVN---SVDTMTLTNANVSPDGFTRAGILVNGVHG-PLIRGGKNDNFELNVVNDLDNPT   56
1aoza.pdb               1  ----SQIRHYKWEVEYMFWAPNCNENIVMGINGQFPGPTIRANAGDSVVVELTNKLH---   53
                                               P          NG    P IR    D       N L    

1a65a.pdb              57  ML-RPTSIHWHGLFQRGTNWADGADGVNQCPISPGHAFLYKFTPAGHAGTFWYHSHFGTQ  115
1aoza.pdb              54  --TEGVVIHWHGILQRGTPWADGTASISQCAINPGETFFYNFTVD-NPGTFFYHGHLGMQ  110
                                  IHWHG  QRGT WADG     QC I PG  F Y FT     GTF YH H G Q

1a65a.pdb             116  YCDGLRGPMVIYDDNDPHAA-------LYDEDDENTIITLADWYHIPAPSI-----Q-GA  162
1aoza.pdb             111  RSAGLYGSLIVDPP------QGKKEPFHYDGE---INLLLSDWWHQSIHKQEVGLSSKPI  161
                              GL G                     YD         L DW H               

1a65a.pdb             163  ---AQPDATLINGKGRYVG--------GPA---------AELSIVNVEQGKKYRMRLISL  202
1aoza.pdb             162  RWIGEPQTILLNGRGQFDCSIAAKYDSNLEPCKLKGSESCAPYIFHVSPKKTYRIRIAST  221
                                P   L NG G                            I  V   K YR R  S 

1a65a.pdb             203  SCDPNWQFSIDGHELTIIEVDGELTEPHTVDRLQIFTGQRYSFVLDANQPV-DNYWIRAQ  261
1aoza.pdb             222  TALAALNFAIGNHQLLVVEADGNYVQPFYTSDIDIYSGESYSVLITTDQNPSENYWVSVG  281
                                  F I  H L   E DG    P       I  G  YS      Q    NYW    

1a65a.pdb             262  PN-KGRNGLAGTFANGVNSAILRYAGAANA-DPTTSANPNPAQ-L-------NEADLHAL  311
1aoza.pdb             282  TRARH-------PNTPPGLTLLNYLPNSVSKLPTSPPPQT-PAWDDFDRSKNFTYRITAA  333
                                                L Y        PT                        A 

1a65a.pdb             312  IDPAA---PGIPTPGAADVNLRFQLGFSGG-----RFTINGTAYESPSVPTLLQIMSGAQ  363
1aoza.pdb             334  M----GSPKPPV---KFNRRIFLLNTQNV-INGYVKWAINDVSLALPPTPYLGAMKYNL-  384
                                                                 IN      P  P L        

1a65a.pdb             364  SANDLLPA------------------------G-SVYELPRNQVVELVVPAG-VL----G  393
1aoza.pdb             385  --LHAFDQNPPPEVFPEDYDIDTPPTNEKTRIGNGVYQFKIGEVVDVILQNANMMKENLS  442
                                                           G  VY      VV               

1a65a.pdb             394  GPHPFHLHGHAFSVVRS-AGSS------TYNFVNPVKRDVVSLGVTGDEVTIRFVTDNPG  446
1aoza.pdb             443  ETHPWHLHGHDFWVLGYGDGKFSAEEESSLNLKNPPLRNTVVIF-PYGWTAIRFVADNPG  501
                             HP HLHGH F V     G          N  NP  R  V          IRFV DNPG

1a65a.pdb             447  PWFFHCHIEFHLMNGLAIVFAEDMANTVDANNPPVEWAQLCEIYDDL-PPEATSIQTVV-  504
1aoza.pdb             502  VWAFHCHIEPHLHMGMGVVFAEGVEKVG---RIPTKALACGGTAKSLINN-----PKN-P  552
                            W FHCHIE HL  G   VFAE           P            L             


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