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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 03:44:57 2005
# Report_file: /mnt/EXTRA_STORAGE/MUSTANG_RESULTS/HOMSTRAD_Datasets/results/phs.html
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#====================================
# Aligned_structures: 3
#   1: 1ahpa.pdb
#   2: 1gpb.pdb
#   3: 1ygpa.pdb
#
# Length:        924
# Identity:      254/924 ( 27.5%)  (Calculated as the percentage of conserved columns in the alignment.)
# Similarity:    529/924 ( 57.3%)  (Calculated as the percentage of semi-conserved columns in the alignment)
# Gaps:          173/924 ( 18.7%)  (Calculated as the percentage of columns with atleast one gap.)

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


1ahpa.pdb               1  -----------------------------------SQPIF----NDKQFQEALSRQWQRY   21
1gpb.pdb                1  ----------------------------------------AGVENVTELKKNFNRHLHFT   20
1ygpa.pdb               1  TRRLTGFLPQEIKSIDTMIPLLSRALWNKHQVKKF----N----KAEDFQDRFIDHVETT   52
                                                                       n   fq  f rh   t

1ahpa.pdb              22  -GLNSAAEMTPRQWWLAVSEALAEMLRAQ---PFAKPV------ANQRHVNYISMEFLIG   71
1gpb.pdb               21  LVKDR-NVATPRDYYFALAHTVRDHLVGRWIRT-----QQHYYEKDPKRIYYLSLEFYMG   74
1ygpa.pdb              53  LARSL-YNCDDMVAYEAASMSIRDNLVIDWNKT-----QQKFTTRDPKRVYYLSLEFLMG  106
                                    tpr  y A s   rd Lv     t            dpkrvyYlSlEFlmG

1ahpa.pdb              72  RLTGNNLLNL--GWYQDVQDSLKAYDINLTDLLEEEIDPALGAGGLGRLAACFLDSMATV  129
1gpb.pdb               75  RTLQNTMVNL--ALENACDEATYQLGLDMEELEEIEEDAGLGNGGLGRLAACFLDSMATL  132
1ygpa.pdb             107  RALDNALINMKI-PREMIKGALDELGFKLEDVLDQEPDAGLGNGGLGRLAACFVDSMATE  165
                           R l N l Nl          al  lg  ledlle E DagLGnGGLGRLAACFlDSMAT 

1ahpa.pdb             130  GQSATGYGLNYQYGLFRQSFVDGKQVEAPDDWHRSNYPWFRHNEALDVQVGIGGAV-TK-  187
1gpb.pdb              133  GLAAYGYGIRYEFGIFNQKICGGWQMEEADDWLRYGNPWEKARPEFTLPVHFYGRVEHTS  192
1ygpa.pdb             166  GIPAWGYGLRYEYGIFAQKIIDGYQVETPDYWLNSGNPWEIERNEVQIPVTFYGYV-DRP  224
                           G  A GYGlrYeyGiF Qki dG QvE pDdWlrsgnPWe  r e   pV fyG V    

1ahpa.pdb             188  ---D-GRWEPEFTITGQAWDLPVVGYRNGVAQPLRLWQATHAH-PFDL--------TKFN  234
1gpb.pdb              193  --QG-AKWVDTQVVLAMPYDTPVPGYRNNVVNTMRLWSAKAPNDF---NLKDFNVGGYI-  245
1ygpa.pdb             225  TTLSASQWIGGERVLAVAYDFPVPGFKTSNVNNLRLWQARPTT-EFDL--------NKFN  275
                                  W     vla ayD PVpGyrn vvn lRLWqA                  kf 

1ahpa.pdb             235  DGDFLRA--EQQGINAEKLTKVLYPNDNHTAG-----KKLRLMQQYFQCACSVADILRRH  287
1gpb.pdb              246  -------QAVLDRNLAENISRVLYPND-----NFFEGKELRLKQEYFVVAATLQDIIRRF  293
1ygpa.pdb             276  NGDYKNS--VAQQQRAESITAVLYPNDNFAQG-----KELRLKQQYFWCAASLHDILRRF  328
                                    v q   AE it VLYPND          KeLRLkQqYF cAasl DIlRRf

1ahpa.pdb             288  HLA-G-------RELHELADYEVIQLNDTHPTIAIPELLRVLIDEHQMSWDDAWAITSKT  339
1gpb.pdb              294  KSSKFGCRDPVRTNFDAFPDKVAIQLNDTHPSLAIPELMRVLVDLERLDWDKAWEVTVKT  353
1ygpa.pdb             329  KKS-K-------RPWTEFPDQVAIQLNDTHPTLAIVELQRVLVDLEKLDWHEAWDIVTKT  380
                           k s         r   efpD vaIQLNDTHPtlAIpEL RVLvDle ldWd AW it KT

1ahpa.pdb             340  FAYTNHTLMPEALERWDVKLVKGLLPRHMQIINEINTRFKTLVEKTWPGDEKVWAKLAVV  399
1gpb.pdb              354  CAYTNHTVIPEALERWPVHLLETLLPRHLQIIYEINQRFLNRVAAAFPGDVDRLRRMSLV  413
1ygpa.pdb             381  FAYTNHTVMQEALEKWPRRLFGHLLPRHLEIIYDINWFFLEDVAKKFPKDVDLLSRISII  440
                           fAYTNHTvmpEALErWpv L   LLPRHlqIIyeIN rFl  Vak fPgDvd l r s v

1ahpa.pdb             400  HD----KQVHMANLCVVGGFAVNGVAALHSDLVVKDLFPEYHQL-WPNKFHNVTNGITPR  454
1gpb.pdb              414  EEGA-VKRINMAHLCIAGSHAVNGVARIHSEILKKTIFKDFYEL-EPHKFQNKTNGITPR  471
1ygpa.pdb             441  EENSPERQIRMAFLAIVGSHKVNGVVELHSELIKTTIFKDFIKFYGPSKFVNVTNGITPR  500
                           ee    kqi MA LcivGshaVNGVa lHSel kktiFkdf  l  P KF NvTNGITPR

1ahpa.pdb             455  RWIKQCNPALAALLDKSL-Q--KEWANDLDQLINLVKLADDAKFRDLYRVIKQANKVRLA  511
1gpb.pdb              472  RWLVLCNPGLAEIIAERI-G--EEYISDLDQLRKLLSYVDDEAFIRDVAKVKQENKLKFA  528
1ygpa.pdb             501  RWLKQANPSLAKLISETLNDPTEEYLLDMAKLTQLEKYVEDKEFLKKWNQVKLNNKIRLV  560
                           RWlkqcNP LA li e l    eEy  DldqL  L kyvdD  F      vKq NK rla

1ahpa.pdb             512  EFVKVRT-G---IDI--NPQAIFDIQIKRLHEYKRQHLNLLRILALYKEIRENP----Q-  560
1gpb.pdb              529  AYLEREY-K---VHI--NPNSLFDVQVKRIHEYKRQLLNCLHVITLYNRIKKEP----N-  577
1ygpa.pdb             561  DLIKKENDGVDIINREYLDDTLFDMQVKRIHEYKRQQLNVFGIIYRYLAMKNMLKNGASI  620
                              k e  g   i i  np  lFD QvKRiHEYKRQ LN l ii lY  ik  p      

1ahpa.pdb             561  --AD--RVPRVFLFGAKAAPGYYLAKNIIFAINKVADVINNDPLVGDKLKVVFLPDYCVS  616
1gpb.pdb              578  --KF--VVPRTVMIGGKAAPGYHMAKMIIKLITAIGDVVNHDPVVGDRLRVIFLENYRVS  633
1ygpa.pdb             621  EEVARKYPRKVSIFGGKSAPGYYMAKLIIKLINCVADIVNNDESIEHLLKVVFVADYNVS  680
                                  vprv  fGgKaAPGYymAK IIklIn vaDvvNnDp vgd LkVvFl dY VS

1ahpa.pdb             617  AAEKLIPAADISEQISTAGKEASGTGNMKLALNGALTVGTLDGANVEIAEKVGEENIFIF  676
1gpb.pdb              634  LAEKVIPAADLSEQISTAGTEASGTGNMKFMLNGALTIGTMDGANVEMAEEAGEENFFIF  693
1ygpa.pdb             681  KAEIIIPASDLSEHISTAGTEASGTSNMKFVMNGGLIIGTVDGANVEITREIGEDNVFLF  740
                            AEk IPAaDlSEqISTAGtEASGTgNMKf lNGaLtiGT DGANVEiaee GEeN FiF

1ahpa.pdb             677  GHTVKQVKAILAKG------YDPVKWRKKDKVLDAVLKELE-SGKYSDGDKHAFDQMLHS  729
1gpb.pdb              694  GMRVEDVDRLDQRG------YNAQEYYDRIPELRQIIEQLS-SGFFSPKQPDLFKDIVNM  746
1ygpa.pdb             741  GNLSENVEELRYNHQYHPQD--------LPSSLDSVLSYIEQ---FSPENPNEFKPLVDS  789
                           G  ve V  l   g                  Ld vl  le    fSp  p  Fk  v s

1ahpa.pdb             730  IGKQGGDPYLVMADFAAYVEAQKQVDVLY-RDQEAWTRAAILNTARCGMFSSDRSIRDYQ  788
1gpb.pdb              747  LMH--HDRFKVFADYEEYVKCQERVSALY-KNPREWTRMVIRNIATSGKFSSDRTIAQYA  803
1ygpa.pdb             790  IK-YHGDYYLVSDDFESYLATHELVDQEFHNQRSEWLKKSVLSLANVGFFSSDRCIEEYS  848
                           i    gD ylV aDfe Yv  qe Vd ly     eWtr  iln A  G FSSDR I  Y 

1ahpa.pdb             789  ARIWQAAR----------------  796
1gpb.pdb              804  REIWG---VEPS-RQRLPAPDEKI  823
1ygpa.pdb             849  DTIWN---VEPVT-----------  858
                             IW                    


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