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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 00:05:20 2005
# Report_file: /mnt/EXTRA_STORAGE/MUSTANG_RESULTS/HOMSTRAD_Datasets/results/UvrD-helicase.html
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#====================================
# Aligned_structures: 2
#   1: 1pjr.pdb
#   2: 1uaaa.pdb
#
# Length:        665
# Identity:      246/665 ( 37.0%)  (Calculated as the percentage of conserved columns in the alignment.)
# Similarity:    246/665 ( 37.0%)  (Calculated as the percentage of semi-conserved columns in the alignment)
# Gaps:           71/665 ( 10.7%)  (Calculated as the percentage of columns with atleast one gap.)

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


1pjr.pdb                1  MNFLSEQLLAHLNKEQQEAVRTTEGPLLIMAGAGSGKTRVLTHRIAYLMAEKHVAPWNIL   60
1uaaa.pdb               1  ----------RLNPGQQQAVEFVTGPCLVLAGAGSGKTRVITNKIAHLIRGCGYQARHIA   50
                                      LN  QQ AV    GP L  AGAGSGKTRV T  IA L          I 

1pjr.pdb               61  AITFTNKAAREMRERVQSLLGG-AAEDVWIST-FHSMCVRILRRDIDRIGINRNFSILDP  118
1uaaa.pdb              51  AVTFTNKAAREMKERVGQTLGRKEARGLMISTFHTLGLDIIKREYAA-LGMKANFSLFDD  109
                           A TFTNKAAREM ERV   LG   A    IST        I R      G   NFS  D 

1pjr.pdb              119  TDQLSVMKTILKEKNIDPKKFEP---RTILGTISAAKNELLPPEQFAKR--YYEK-VVSD  172
1uaaa.pdb             110  TDQLALLKELTEGLI----EDDKVLLQQLISTISNWKNDLKTPSQAAASAIGERDRIFAH  165
                           TDQL   K                       TIS  KN L  P Q A             

1pjr.pdb              173  VYQEYQQRLLRNHSLDFDDLIMTTIQLFDRVPDVLHYYQYKFQYIHIDEYQDTNRAQYTL  232
1uaaa.pdb             166  CYGLYDAHLKACNVLDFDDLILLPTLLLQANEEVRKRWQNKIRYLLVDEYQDTNTSQYEL  225
                            Y  Y   L     LDFDDLI     L      V    Q K  Y   DEYQDTN  QY L

1pjr.pdb              233  VKKLAERFQNICAVGDADQSIYRWRGADIQNILSFERDYPNAKVILLEQNYRSTKRILQA  292
1uaaa.pdb             226  VKLLVGSRARFTVVGDDDQSIYSWRGARPQNLVLLSQDFPALKVIKLEQNYRSSGRILKA  285
                           VK L         VGD DQSIY WRGA  QN      D P  KVI LEQNYRS  RIL A

1pjr.pdb              293  ANEVIEHNVNRKPKRIWTENPEGKPILYYEAMNEADEAQFVAGRIREAVERGERRYRDFA  352
1uaaa.pdb             286  ANILIANNPHVFEKRLFSELGYGAELKVLSANNEEHEAERVTGELIAHHFVNKTQYKDYA  345
                           AN  I  N     KR   E   G       A NE  EA  V G            Y D A

1pjr.pdb              353  VLYRTNAQSRVMEEMLLKANIPYQIVG-GLKFYDRKEIKDILAYLRVIANPDDDLSLLRI  411
1uaaa.pdb             346  ILYRGNHQSRVFEKFLMQNRI-PYKISGGTSFFSRPEIKDLLAYLRVLTNPDDDSAFLRI  404
                            LYR N QSRV E  L    I       G  F  R EIKD LAYLRV  NPDDD   LRI

1pjr.pdb              412  INVPKRGIGASTIDLFEALGEL----------EMIG------LGAKAAGALAAFRSQLEQ  455
1uaaa.pdb             405  VNTPK---REIGPATLKKLGEWAMTRNKSMFTASFDMGLSQTLSGRGYEALTRFTHWLAE  461
                            N PK             LGE                     L      AL  F   L  

1pjr.pdb              456  WTQLQEYVSVTE-LVEEVLDKSGYREMLKA-E--RTIEAQSRLENLDEFLSVTKHFENVS  511
1uaaa.pdb             462  IQRLAEREP--IAAVRDLIHGMDYESWLYETSPSP-KAAEMRMKNVNQLFSWMTEMLEG-  517
                              L E        V        Y   L          A  R  N     S         

1pjr.pdb              512  DD-----KSLIAFLTDLALIS--------GDAVMLMTLHAAKGLEFPVVFLIGMEEGIFP  558
1uaaa.pdb             518  S-ELDEPMTLTQVVTRFTLR-DMMEREEELDQVQLMTLHASKGLEFPYVYMVGMEEGFLP  575
                                    L    T   L           D V LMTLHA KGLEFP V   GMEEG  P

1pjr.pdb              559  HNRSLEDDDEMEEERRLAYVGITRAEEELVLTSAQMRTLFGNIQMDPPSRFLNEIPAHLL  618
1uaaa.pdb             576  HQSSIDEDN-IDEERRLAYVGITRAQKELTFTLCKERRQYGELVRPEPSRFLLELPQDDL  634
                           H  S   D    EERRLAYVGITRA  EL  T    R   G      PSRFL E P   L

1pjr.pdb              619  ETASR  623
1uaaa.pdb             635  IW---  636
                                


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