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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 23:32:07 2005
# Report_file: /mnt/EXTRA_STORAGE/MUSTANG_RESULTS/HOMSTRAD_Datasets/results/TonB_dep_Rec.html
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#====================================
# Aligned_structures: 2
#   1: 1by5a.pdb
#   2: 1fepa.pdb
#
# Length:        833
# Identity:       84/833 ( 10.1%)  (Calculated as the percentage of conserved columns in the alignment.)
# Similarity:     84/833 ( 10.1%)  (Calculated as the percentage of semi-conserved columns in the alignment)
# Gaps:          300/833 ( 36.0%)  (Calculated as the percentage of columns with atleast one gap.)

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


1by5a.pdb               1  ----QESAWGPAATIAARQSATGTKTDTPIQKVPQSISVVTAEEMALHQPK-SVKEALSY   55
1fepa.pdb               1  DDTIVVTAA-------------------EQNLQAPGVSTITADEIRKNPVARDVSKIIRT   41
                                  A                             S  TA E         V      

1by5a.pdb              56  TPGVSVGT-RGASN---TYDHLIIRGFAAEGQSQNNYLNGLKLQGN-------FYNDAVI  104
1fepa.pdb              42  -PGVNLTGNSTS-GQRGNNRQIDIRGGPE--N-TLILIDGKPVSSRNSVRQGWRGERDTR   96
                            PGV                   IRG             G                    

1by5a.pdb             105  -DPY----MLERAEIMRGPVSVLYGK--SSPGGLLNMVS-KRPTTEPLKEVQFKAGT---  153
1fepa.pdb              97  GDTSWVPPEIERIEVLRGPAAARY--GNGAAGGVV-NIITKKGSGEWHGSWDAYFNAPEH  153
                            D        ER E  RGP    Y       GG       K    E              

1by5a.pdb             154  ----DSLFQTGFDFSDSLDDDGVYSYRLTGLARSANAQQ---------------------  188
1fepa.pdb             154  KEEGA-TKRTNFSLTGPLG--DEFSFRLYGNLDKTQAD-AWDINQGHQSARAGTYATTLP  209
                                    T F     L      S RL G      A                       

1by5a.pdb             189  KG-SEEQRYAIAPAFTWRPDDKTNFTFLSYFQNEPETGYYGWLPKEGTV-EPLPN-GKR-  244
1fepa.pdb             210  AGREGVINKDINGVVRWDFAPLQSLELEAGYSRQGN-LYAG--------DTQNTNSDS-Y  259
                            G        I     W                     Y G             N     

1by5a.pdb             245  --LPTDFNEGAKNNTYSRNEKMVGYSFDHEFNDTFTVRQNLRFAENKTSQNSVYGYGVCS  302
1fepa.pdb             260  TRSKYGD----ETNRLYRQNYA--LTWNGGWDNGVTTSNWVQYEHTRNSRIPE---GLA-  309
                                        N   R                 T            S       G   

1by5a.pdb             303  DPANAYSKQCAALAPADKGHYLARKYVVDDEKLQNF-----------SVDTQLQSKFATG  351
1fepa.pdb             310  ------------------------------------GQDFVDIDLDDVLHSEVNLPIDFL  333
                                                                                       

1by5a.pdb             352  DIDHTLLTGVDFMRMRNDINAWFGYDDSVPLLNLYNPVNTDFDFNAKDPANSGP---YRI  408
1fepa.pdb             334  -VNQTLTLGTEWNQQR-K-DLSSNT-----------------------------QADRSP  361
                               TL  G      R                                            

1by5a.pdb             409  LNKQKQTGVYVQDQA-QWDKVLVTLGGRYDWADQESLNRVAGTTDKRD-DKQFTWRGGVN  466
1fepa.pdb             362  YSKAEIFSLFAENN-ELTDSTIVTPGLRFDHHSI--------------VGNNWSPALNIS  406
                             K               D   VT G R D                              

1by5a.pdb             467  YLFDNGVTPYFSYSESFEPSS-QVGK---------------DGN---IFAPSKGKQYEVG  507
1fepa.pdb             407  QGLGDDFTLK-GIARAYKAPSLY---QTNPNYILYSKGQGCYLQGNDDLKAETSINKEIG  462
                                  T            S                                    E G

1by5a.pdb             508  VKYVPEDRP-IVVTGAVYNLTKTNNLMADPEGS-------------FFSVEGGEIRARGV  553
1fepa.pdb             463  LEFKR---DGWLAGVTWFRNDYRNKIEAGYV--AVGQNAVGTDLYQWDNV--PKAVVEGL  515
                                                  N   A                     V        G 

1by5a.pdb             554  EIEAKRPLSASVNVVGSYTYTDAEYTTDTTYKG-NTPAQVPKHMASLWADYTFFDGPLSG  612
1fepa.pdb             516  EGSLNVPVSETV-WTNNITYLKSENK-----TTGDRLSIIPEYTLNSTLSWQAR-E----  564
                           E     P S  V      TY   E                P                   

1by5a.pdb             613  LT--LGTGGRYTGSSYGDPA----N-------SFKVGSYTVVDALVRYDLARVGMAGSNV  659
1fepa.pdb             565  --DLSQTTFTWYGKQQPKK-YNYKGQPAVGPETKEISPYSIVGLSATWDVT----KNVSL  617
                                 T     G                         Y  V      D           

1by5a.pdb             660  ALHVNNLFDREYV--ASCF--NTY---GCFWGAERQ-VV-------ATATFRF  697
1fepa.pdb             618  TGGVDNLFDKRLWRAGNAQTTGDLAGANYIAGAGAYTY-NEPGRTWYSVNTHF  669
                              V NLFD                      GA                   F


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