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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: Mon Jul 25 15:27:25 2005
# Report_file: /mnt/EXTRA_STORAGE/MUSTANG_RESULTS/HOMSTRAD_Datasets/results/Malate_synthase.html
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#====================================
# Aligned_structures: 2
#   1: 1d8ca.pdb
#   2: 1n8ia.pdb
#
# Length:        738
# Identity:      382/738 ( 51.8%)  (Calculated as the percentage of conserved columns in the alignment.)
# Similarity:    382/738 ( 51.8%)  (Calculated as the percentage of semi-conserved columns in the alignment)
# Gaps:           87/738 ( 11.8%)  (Calculated as the percentage of columns with atleast one gap.)

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


1d8ca.pdb               1  -QTITQSRLRIDANFKRFVDEEVLPGTGLDAAAFWRNFDEIVHDLAPENRQLLAERDRIQ   59
1n8ia.pdb               1  TDRVSVGNLRIARVLYDFVNNEALPGTDIDPDSFWAGVDKVVADLTPQNQALLNARDELQ   60
                                   LRI      FV  E LPGT  D   FW   D  V DL P N  LL  RD  Q

1d8ca.pdb              60  AALDEWHRSNPGPVK-DKAAYKSFLRELGYLVPQPERVTVETTGIDSEITSQAGPQLVVP  118
1n8ia.pdb              61  AQIDKWHR-------RDMDAYRQFLTEIGYLLPEPDDFTITTSGVDAEITTTAGPQLVVP  113
                           A  D WHR        D  AY  FL E GYL P P   T  T G D EIT  AGPQLVVP

1d8ca.pdb             119  A-NARYALNAANARWGSLYDALYGSDIIPQEG--A-VSGYDPQRGEQVIAWVRRFLDESL  174
1n8ia.pdb             114  VLNARFALNAANARWGSLYDALYGTDVIPETDGAEKGPTYNKVRGDKVIAYARKFLDDSV  173
                             NAR ALNAANARWGSLYDALYG D IP          Y   RG  VIA  R FLD S 

1d8ca.pdb             175  PLENGSYQDVVAFKVVDKQLRIQLKNGKETTLRTPAQFVGYRGDAAAPTCILLKNNGLHI  234
1n8ia.pdb             174  PLSSGSFGDATGFTVQDGQLVVAL-PDKSTGLANPGQFAGYTGAAESPTSVLLINHGLHI  232
                           PL  GS  D   F V D QL   L   K T L  P QF GY G A  PT  LL N GLHI

1d8ca.pdb             235  ELQIDANGRIGKDDPAHINDVIVEAAISTILDCEDSVAAVDAEDKILLYRNLLGLQ-GTL  293
1n8ia.pdb             233  EILIDPESQVGTTDRAGVKDVILESAITTIMDFEDSVAAVDAADKVLGYRNWLGLNKGDL  292
                           E  ID     G  D A   DVI E AI TI D EDSVAAVDA DK L YRN LGL  G L

1d8ca.pdb             294  -QRKLNDDRHYTAADGSEISLHGRSLLFIRNVGHLTIPV-IWDSEGNEIPEGILDGV-TG  350
1n8ia.pdb             293  AARVLNRDRNYTAPGGGQFTLPGRSLMFVRNVGHLMTNDAIVDTDGSEVFEGIMDALFTG  352
                             R LN DR YTA  G    L GRSL F RNVGHL     I D  G E  EGI D   TG

1d8ca.pdb             351  AIALYDLKVQ--KNSRTGSVYIVKPK-HGPQEVAFANKLFTRIET-LG-APNTLK-GI-D  403
1n8ia.pdb             353  LIAIHGLKA-SDINSRTGSIYIVKPKMHGPAEVAFTCELFSRVEDVLGLPQNTMKIGIMD  411
                            IA   LK     NSRTGS YIVKPK HGP EVAF   LF R E  LG   NT K GI D

1d8ca.pdb             404  EERRTSLNLRSCIAQARNRVAFINTGFLDRTGDEHSVEAGPLRKN--------------Q  449
1n8ia.pdb             412  EERRTTVNLKACIKAAADRVVFINTGFLDRTGDEI----------HTSMEAGPMVRKGTM  461
                           EERRT  NL  CI  A  RV FINTGFLDRTGDE                          

1d8ca.pdb             450  KSTPWIKAYERNNVLSGLFCGLRGKAQIGKGWAPDLA---------DYSQKGDQLRAGAN  500
1n8ia.pdb             462  KSQPWILAYEDHNVDAGLAAGFSGRAQVGKGM-----WTMTELMADMVETKIAQPRAGAS  516
                           KS PWI AYE  NV  GL  G  G AQ GKG                   K  Q RAGA 

1d8ca.pdb             501  TAWVPSPTAATLHALHYHQTNVQSVQANIAQTEFNAEFEPLLDDLLTIPVAENANWSAQE  560
1n8ia.pdb             517  TAWVPSPTAATLHALHYHQVDVAAVQQGLAGKRRA-----TIEQLLTIPLAKELAWAPDE  571
                           TAWVPSPTAATLHALHYHQ  V  VQ   A              LLTIP A    W   E

1d8ca.pdb             561  IQQELDNNVQGILGYVVRWVEQGIGCSKVPDIHNVALE-DRATLRISSQHIANWLRHGIL  619
1n8ia.pdb             572  IREEVDNNCQSILGYVVRWVDQGVGCSKVPDIHDVALMEDRATLRISSQLLANWLRHGVI  631
                           I  E DNN Q ILGYVVRWV QG GCSKVPDIH VAL  DRATLRISSQ  ANWLRHG  

1d8ca.pdb             620  TKEQVQASLEN-AKVVDQQNAGDPAYRP-----AGNFANSCAFKAASDLIFLGVKQPNGY  673
1n8ia.pdb             632  TSADVRASLERMAPLVDRQN--------AYRPMAPNFDDSIAFLAAQELILSGAQQPNGY  683
                           T   V ASLE  A  VD QN             A NF  S AF AA  LI  G  QPNGY

1d8ca.pdb             674  TEPLLHAWRLREKES---  688
1n8ia.pdb             684  TEPILHRRRREFKARAAE  701
                           TEP LH  R   K     


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