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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 18:37:01 2005
# Report_file: /mnt/EXTRA_STORAGE/MUSTANG_RESULTS/HOMSTRAD_Datasets/results/AMP-binding.html
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#====================================
# Aligned_structures: 2
#   1: 1amua.pdb
#   2: 1lci.pdb
#
# Length:        571
# Identity:       87/571 ( 15.2%)  (Calculated as the percentage of conserved columns in the alignment.)
# Similarity:     87/571 ( 15.2%)  (Calculated as the percentage of semi-conserved columns in the alignment)
# Gaps:          114/571 ( 20.0%)  (Calculated as the percentage of columns with atleast one gap.)

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


1amua.pdb               1  GTHEEEQYLFAV---NNTKAEYP-----RDKTIHQLFEEQVSKRP---NNVAIVCE--NE   47
1lci.pdb                1  ------------AKNIKKGPA--PFYPLEDGTAGEQLHKAMKRYALVPGTIAFTDAHIEV   46
                                                        D T                   A        

1amua.pdb              48  QLTYHELNVKANQLARIFIEKGIGKDTLVGIMMEKSIDLFIGILAVLKAGGAYVPIDIEY  107
1lci.pdb               47  NITYAEYFEMSVRLAEAMKRYGLNTNHRIVVCSENSLQFFMPVLGALFIGVAVAPANDIY  106
                             TY E       LA      G           E S   F   L  L  G A  P    Y

1amua.pdb             108  PKERIQYILDDSQARMLLTQKHLVHLIHNIQ-----FNGQVEIFEE-----------DTI  151
1lci.pdb              107  NERELLNSMNISQPTVVFVSKKGLQKILNV-QKKLPIIQKIIIMDSKTDYQGFQSMYTFV  165
                                      SQ       K     I N             I                 

1amua.pdb             152  KIRE-------GTNLHVPS-KSTDLAYVIYTS-PKGTMLEHKGISNLKVFFEN--SLNVT  200
1lci.pdb              166  TSHLPPGFNEYDFVP-ESFDRDKTIALIMNS-LPKGVALPHRTACVRFSHARDPIFGNQI  223
                                                    A       PKG  L H                N  

1amua.pdb             201  E-KDRIGQFASISFDASVWEMFMALLTGASLYIILKDTINDFVKFEQYINQKEITVITLP  259
1lci.pdb              224  IPDTAILSVVPFHHGFGMFTTLGYLICGFRVVLMYR-F--EEELFLRSLQDYKIQSALLV  280
                                I                  L  G                F        I    L 

1amua.pdb             260  PTYVVHLDPE--------RILSIQTLITAGSATSPSLVNKWKE-KV--TYINAYGPTETT  308
1lci.pdb              281  PTLFSFFA--KSTLIDKYDLSNLHEIASGGAPLSKEVGEAVAKRFHLPGIRQGYGLTETT  338
                           PT                           G   S                   YG TETT

1amua.pdb             309  ICATTWVATKETIGHSVPIGAPIQNTQIYIVDE-NLQLKSVGEAGELCIGGEGLARGYWK  367
1lci.pdb              339  SAILITP-EG-----PGAVGKVVPFFEAKVVDLDTGKTLGVNQRGELCVRGPMIMSGYVN  392
                                              G          VD        V   GELC  G     GY  

1amua.pdb             368  RPELTSQKFVDNPFVPGEKLYKTGDQARWLSDGNIEYLGRIDNQVKIRGHRVELEEVESI  427
1lci.pdb              393  NPEATNALIDKD------GWLHSGDIAYWDEDEHFFIV-----LIKYKGYQVAPAELESI  441
                            PE T                  GD A W  D             K  G  V   E ESI

1amua.pdb             428  LLKHMYISETAVSVHKDHQE--QPYLCAYFVS-E-KHIPLEQLRQFSSEELPTYMIPSYF  483
1lci.pdb              442  LLQHPNIFDAGVAGLPDD--DAGELPAAVVVLEHGKTMTEKEIVDYVASQVTTAKKLRGG  499
                           LL H  I    V    D          A  V    K                T       

1amua.pdb             484  IQ-LDKMPLTSNGKIDRKQLPEPDLTF----  509
1lci.pdb              500  VVFVDEVP-----KLDARKIR------EILI  519
                               D  P     K D               


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