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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 21:37:58 2005
# Report_file: /mnt/EXTRA_STORAGE/MUSTANG_RESULTS/HOMSTRAD_Datasets/results/nir.html
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#====================================
# Aligned_structures: 2
#   1: 1aoqa.pdb
#   2: 1nira.pdb
#
# Length:        556
# Identity:      352/556 ( 63.3%)  (Calculated as the percentage of conserved columns in the alignment.)
# Similarity:    352/556 ( 63.3%)  (Calculated as the percentage of semi-conserved columns in the alignment)
# Gaps:           23/556 (  4.1%)  (Calculated as the percentage of columns with atleast one gap.)

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


1aoqa.pdb               1  HKTRTDNRYEP-SLDNLAQQDVAAPGAPEGVTALSDAQYNEANKIYFERCAGCHGVLRKG   59
1nira.pdb               1  ---AAEQYQGAASAVDPAHVVRT-----NGAPDMSESEFNEAKQIYFQRCAGCHGVLRKG   52
                                       S    A           G    S    NEA  IYF RCAGCHGVLRKG

1aoqa.pdb              60  ATGKALTPDLTRDLGFDYLQSFITYASPAGMPNWGT----SGELSAEQVDLMANYLLLDP  115
1nira.pdb              53  ATGKPLTPDITQQRGQQYLEALITYG---T-PLGMPNWGSSGELSKEQITLMAKYIQHTP  108
                           ATGK LTPD T   G  YL   ITY      P        SGELS EQ  LMA Y    P

1aoqa.pdb             116  AAPPEFGMKEMRESWKVHVAPEDRPTQQMNDWDLENLFSVTLRDAGQIALIDGSTYEIKT  175
1nira.pdb             109  PQPPEWGMPEMRESWKVLVKPEDRPKKQLNDLDLPNLFSVTLRDAGQIALVDGDSKKIVK  168
                             PPE GM EMRESWKV V PEDRP  Q ND DL NLFSVTLRDAGQIAL DG    I  

1aoqa.pdb             176  VLDTGYAVHISRLSASGRYLFVIGRDGKVNMIDLWMKEPTTVAEIKIGSEARSIETSKME  235
1nira.pdb             169  VIDTGYAVHISRMSASGRYLLVIGRDARIDMIDLWAKEPTKVAEIKIGIEARSVESSKFK  228
                           V DTGYAVHISR SASGRYL VIGRD    MIDLW KEPT VAEIKIG EARS E SK  

1aoqa.pdb             236  GWEDKYAIAGAYWPPQYVIMDGETLEPKKIQSTRGMTYDEQEYHPEPRVAAILASHYRPE  295
1nira.pdb             229  GYEDRYTIAGAYWPPQFAIMDGETLEPKQIVSTRGMTVDTQTYHPEPRVAAIIASHEHPE  288
                           G ED Y IAGAYWPPQ  IMDGETLEPK I STRGMT D Q YHPEPRVAAI ASH  PE

1aoqa.pdb             296  FIVNVKETGKILLVDYTDLNNLKTTEISAERFLHDGGLDGSHRYFITAANARNKLVVIDT  355
1nira.pdb             289  FIVNVKETGKVLLVNYKDIDNLTVTSIGAAPFLHDGGWDSSHRYFMTAANNSNKVAVIDS  348
                           FIVNVKETGK LLV Y D  NL  T I A  FLHDGG D SHRYF TAAN  NK  VID 

1aoqa.pdb             356  KEGKLVAIEDTGGQTPHPGRGANFVHPTFGPVWATSHMGDDSVALIGTDPEGHPDNAWKI  415
1nira.pdb             349  KDRRLSALVDVGK-TPHPGRGANFVHPKYGPVWSTSHLGDGSISLIGTDPKNHPQYAWKK  407
                           K   L A  D G  TPHPGRGANFVHP  GPVW TSH GD S  LIGTDP  HP  AWK 

1aoqa.pdb             416  LDSFPALGGGSLFIKTHPNSQYLYVDATLNPEAEISGSVAVFDIKAMTGDGSDPEFKTLP  475
1nira.pdb             408  VAELQGQGGGSLFIKTHPKSSHLYVDTTFNPDARISQSVAVFDLKNLD-----AKYQVLP  462
                                  GGGSLFIKTHP S  LYVD T NP A IS SVAVFD K             LP

1aoqa.pdb             476  IAEWAGITEGQPRVVQGEFNKDGTEVWFSVWNGKDQESALVVVDDKTLELKHVIKDERLV  535
1nira.pdb             463  IAEWADLGEGAKRVVQPEYNKRGDEVWFSVWNGKNDSSALVVVDDKTLKLKAVVKDPRLI  522
                           IAEWA   EG  RVVQ E NK G EVWFSVWNGK   SALVVVDDKTL LK V KD RL 

1aoqa.pdb             536  TPTGKFNVYNTMTDTY  551
1nira.pdb             523  TPTGKFNVYNTQHDVY  538
                           TPTGKFNVYNT  D Y


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