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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: Sat Jul 23 02:25:12 2005
# Report_file: /mnt/EXTRA_STORAGE/MUSTANG_RESULTS/HOMSTRAD_Datasets/results/helicase_NC.html
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#====================================
# Aligned_structures: 3
#   1: 1c4oa.pdb
#   2: 1d9xa.pdb
#   3: 1hv8a.pdb
#
# Length:        669
# Identity:       36/669 (  5.4%)  (Calculated as the percentage of conserved columns in the alignment.)
# Similarity:    204/669 ( 30.5%)  (Calculated as the percentage of semi-conserved columns in the alignment)
# Gaps:          390/669 ( 58.3%)  (Calculated as the percentage of columns with atleast one gap.)

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


1c4oa.pdb               1  --TF--------------------R-YRGPSPKGDQPKAIAGLVEALRDGERFVTLLGAT   37
1d9xa.pdb               1  EGRF--------------------QLVAPYEPQGDQPQAIAKLVDGLRRGVKHQTLLGAT   40
1hv8a.pdb               1  ----VEYNFNELNLSDNILNAIRNK-G-FEKPTDIQ-KVIPLFLND---EY-NIVAQART   49
                                                          P gdQ kaIa lv     g    tllgaT

1c4oa.pdb              38  GTGKTVTMAKVIEA-LGR----PALVLAPNKILAAQLAAEFRELFPENA--VEYFISYYD   90
1d9xa.pdb              41  GTGKTFTISNVIAQ-VNK----PTLVIAHNKTLAGQLYSELKEFFPHNA--VEYFVSYYD   93
1hv8a.pdb              50  GSGKTASFAIPLIELVNENNGIEAIILTPTRELAIQVADEIESLKGNKNLKIAKIYGG-K  108
                           GtGKT t a vi   vn     palvlapnk LA Qla E  elfp na  veyf sy d

1c4oa.pdb              91  YYQPEAYVPGKDLYIEKDASINPEIERLRHSTTRSLLTRR--------------------  130
1d9xa.pdb              94  YYQPEAYVPQTDTYIEKDAKINDEIDKLRHSATSALFERR--------------------  133
1hv8a.pdb             109  -----------------------AIYP-QIKALKNA----NIVVGTPGRILDHINRGTLN  140
                                                  eI   rhsat  l                        

1c4oa.pdb             131  ----DVIVVASVSAIYGLGDPREYRARNLV------------------------------  156
1d9xa.pdb             134  ----DVIIVASVSCIYGLGSPEEYRELVVSLRVGMEIERNALLRRLVDIQYDRNDIFRGT  189
1hv8a.pdb             141  LKNVK-YFILDEA-----------------------------------------------  152
                               d i vasvs                                               

1c4oa.pdb             157  ---------------------------------------------GFVLFPATHYLS---  168
1d9xa.pdb             190  FRVRGDVVEIFPASRDEHCIRVEFFGDEIEAEVDALTGKVLGEREHVAIFPASHFVTREE  249
1hv8a.pdb             153  -------------------------------------------------------DE---  154
                                                                                       

1c4oa.pdb             169  PEGLEEILKEIEKELWERVRYFEERG----EVLYAQRLKERTLYDLEMLRVMGTCPGVEN  224
1d9xa.pdb             250  --KMRLAIQNIEQELEERLAELRAQGKLLEAQR----LEQRTRYDLEMMREMGFCSGIEN  303
1hv8a.pdb             155  LN--------------------------------------GFIKDVE-------------  163
                                                                   rt yDlE             

1c4oa.pdb             225  YARYFTGKAPGEPPYTLLDYFPEDFLVFLDESHVTVPQLQGMYRGDYARKKTLVDYGFRL  284
1d9xa.pdb             304  YSRHLALRPPGSTPYTLLDYFPDDFLIIVDESHVTLPQLRGMYNGDRARKQVLVDHGFRL  363
1hv8a.pdb             164  ---------------KILNACNKDKRILLFS-----------------------------  179
                                          tlLdyfp Dfli lde                             

1c4oa.pdb             285  PSALD-NRPL----RFEE-FLERVSQVVFVSATPGPFELAHSGRVVEQII-RPTGLLDPL  337
1d9xa.pdb             364  PSALDNRPL------TFEEFEQKINQIIYVSATPGPYELEHSPGVVEQII-RPTGLLDPT  416
1hv8a.pdb             180  ----------ATPREILN-LAKKYGD----------------YSFIKAKINA-----NIE  207
                                            e f  k  q                  vveqiI r     dp 

1c4oa.pdb             338  V--RVKPTENQILDLMEGIRERAARGE----RTLVTVLTVRMAEELTSFLVEHGIRARYL  391
1d9xa.pdb             417  I--DVRPTKGQIDDLIGEIRERVERNE----RTLVTTLTKKMAEDLTDYLKEAGIKVAYL  470
1hv8a.pdb             208  QSYVEVNENERFEALCRLLK-------NKEFYGLVFCKTKRDTKELAS-LRDIGFKAGAI  259
                               v pt  qi dL   ir           rtLVt lTkrmaeeLts L e Gika yl

1c4oa.pdb             392  HHELDAFKRQALIRDLRLGHYDCLVGIN-LLREGLDIP---EVSLVAILDADKEGFLRSE  447
1d9xa.pdb             471  HSEIKTLERIEIIRDLRLGKYDVLVGIN-LLREGLDIP---EVSLVAILDADKEGFLRSE  526
1hv8a.pdb             260  HGDLSQSQREKVIRLFKQKKIRILIATDVSRGI-----DVNDLNCVINYHL-P----QNP  309
                           H el    R   IRdlrlgkyd Lvgin llre        evslVailda k    rse

1c4oa.pdb             448  RSLIQTIGRAARN--ARGEVWLYADRV--SEAMQRAIEETNRRRALQEAYNLEHGITPET  503
1d9xa.pdb             527  RSLIQTIGRAARN--ANGHVIMYADTI--TKSMEIAIQETKRRRAIQEEYNRKHGIVPRT  582
1hv8a.pdb             310  E-SYHRIGRTGRAGKK-GKAISIINR-REYKKLRYIERAK---------------LKIKK  351
                           r liqtIGRaaRn  a G vi yadr    k m  ai et               i p t

1c4oa.pdb             504  V--------  504
1d9xa.pdb             583  VKKEIRDV-  590
1hv8a.pdb             352  L-------K  353
                           v        


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