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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 21:53:14 2005
# Report_file: /mnt/EXTRA_STORAGE/MUSTANG_RESULTS/HOMSTRAD_Datasets/results/PBP_NC.html
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#====================================
# Aligned_structures: 2
#   1: 1k25a.pdb
#   2: 1qmea.pdb
#
# Length:        610
# Identity:      406/610 ( 66.6%)  (Calculated as the percentage of conserved columns in the alignment.)
# Similarity:    406/610 ( 66.6%)  (Calculated as the percentage of semi-conserved columns in the alignment)
# Gaps:          106/610 ( 17.4%)  (Calculated as the percentage of columns with atleast one gap.)

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


1k25a.pdb               1  QITRTVPAKRGTIYDRNGVPIAEDATSYNVYAVTTSPNRSYP---NGQFASSFIGLAQLH   57
1qmea.pdb               1  ----TVPAKRGTIYDRNGVPIAEDAT-------S-PNRSYPNGQFASSFI--GLAQLHEN   46
                               TVPAKRGTIYDRNGVPIAEDAT                      F           

1k25a.pdb              58  ENEDGSK-SLLGTSGMESS------LNSILAGTDGIITYGNIVPGTELVSQQTVDGKDVY  110
1qmea.pdb              47  E-----DGSKSLLG-----TSGMESSLNSILA-GTD--------------GRTMDGKDVY   81
                           E       S                                           T DGKDVY

1k25a.pdb             111  TTLSSPLQSFMETQMDAFLEKVKGKYMTATLVSAKTGEILATTQRPTFNADTKEGITEDF  170
1qmea.pdb              82  TTISSPLQSFMETQMDAFQEKVKGKYMTATLVSAKTGEILATTQRPTFDADTKEGITEDF  141
                           TT SSPLQSFMETQMDAF EKVKGKYMTATLVSAKTGEILATTQRPTF ADTKEGITEDF

1k25a.pdb             171  VWRDILYQSNYEPGSAMKVMTLASSIDNNTFPSGEY------------------------  206
1qmea.pdb             142  VWRDILYQSNYEPGSTMKVMMLAAAIDNNTFPGGEVFNSSELKIADATIRDWDVNEGLTG  201
                           VWRDILYQSNYEPGS MKVM LA  IDNNTFP GE                         

1k25a.pdb             207  -------FNSSELSSNVGMSLLEQKMGDATWLDYLKRFKFGVPTRFGLTDEYAGQLPADN  259
1qmea.pdb             202  GRMMTFSQGFAH-SSNVGMTLLEQKMGDATWLDYLNRFKFGVPTRFGLTDEYAGQLPADN  260
                                        SSNVGM LLEQKMGDATWLDYL RFKFGVPTRFGLTDEYAGQLPADN

1k25a.pdb             260  IVSIAQSSFGQGISVTQTQMLRAFTAIANDGVMLEPKFISAIYDTNNQSVRKSQKEIVGN  319
1qmea.pdb             261  IVNIAQSSFGQGISVTQTQMIRAFTAIANDGVMLEPKFISAIYDPNDQTARKSQKEIVGN  320
                           IV IAQSSFGQGISVTQTQM RAFTAIANDGVMLEPKFISAIYD N Q  RKSQKEIVGN

1k25a.pdb             320  PVSKEAASTTRNHMILVGTDPL-------------IITVPGQNVAVKSGTAQIADEKNGG  366
1qmea.pdb             321  PVSKDAASLTRTNMVLVGTDP-VYGTMYNHSTGKPTVTVPGQNVALKSGTAQIADEKNGG  379
                           PVSK AAS TR  M LVGTDP                TVPGQNVA KSGTAQIADEKNGG

1k25a.pdb             367  YLVGSTNYIFSAVTMNPAENPDFILYVTVQQPEHYSGIQLGEFATPILERASAMKESLNL  426
1qmea.pdb             380  YLVGLTDYIFSAVSMSPAENPDFILYVTVQQPEHYSGIQLGEFANPILERASAMKDSLNL  439
                           YLVG T YIFSAV M PAENPDFILYVTVQQPEHYSGIQLGEFA PILERASAMK SLNL

1k25a.pdb             427  QSPAKNLDKVTTESSYAMPSIKDISPGELAEALRRNIVQPIVVGTGTKIKETSVEEGTNL  486
1qmea.pdb             440  -----------QQSPYPMPSVKDISPGDLAEELRRNLVQPIVVGTGTKIKNSSAEEGKNL  488
                                        S Y MPS KDISPG LAE LRRN VQPIVVGTGTKIK  S EEG NL

1k25a.pdb             487  APNQQVLLLSDKVEEIPDMYGWKKETAETFAKWLDIELEFEGSGSVVQKQDVRTNTAIKN  546
1qmea.pdb             489  APNQQVLILSDKAEEVPDMYGWTKETAETLAKWLNIELEFQGSGSTVQKQDVRANTAIKD  548
                           APNQQVL LSDK EE PDMYGW KETAET AKWL IELEF GSGS VQKQDVR NTAIK 

1k25a.pdb             547  IKKIKLTLGD  556
1qmea.pdb             549  IKKITLTLGD  558
                           IKKI LTLGD


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