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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: Sun Jul 24 01:05:24 2005
# Report_file: /mnt/EXTRA_STORAGE/MUSTANG_RESULTS/HOMSTRAD_Datasets/results/cys.html
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#====================================
# Aligned_structures: 13
#   1: 1aim.pdb
#   2: 1cqda.pdb
#   3: 1deua.pdb
#   4: 1gece.pdb
#   5: 1huca.pdb
#   6: 1icfa1.pdb
#   7: 1mema.pdb
#   8: 1ppn.pdb
#   9: 1ppo.pdb
#  10: 1thea.pdb
#  11: 1yal.pdb
#  12: 2act.pdb
#  13: 8pcha.pdb
#
# Length:        303
# Identity:       22/303 (  7.3%)  (Calculated as the percentage of conserved columns in the alignment.)
# Similarity:     34/303 ( 11.2%)  (Calculated as the percentage of semi-conserved columns in the alignment)
# Gaps:          113/303 ( 37.3%)  (Calculated as the percentage of columns with atleast one gap.)

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


1aim.pdb                1  APAAVDWRAR----G----AVTAVKDQG---QCGSCWAFSAIGNVECQWFLAG--H--PL   45
1cqda.pdb               1  LPDSIDWREN----G----AVVPVKNQG---GCGSCWAFSTVAAVEGINQIVT--G--DL   45
1deua.pdb               1  LPKSWDWRNVDGVN-----YASITRNQHIPQYCGSCWAHASTSAMADRINIKR-KGAWPS   54
1gece.pdb               1  LPESVDWRAK----G----AVTPVKHQG---YCESCWAFSTVATVEGINKIKT--G--NL   45
1huca.pdb               1  LPASFDAREQ----WPQCPTIKEIRDQG---SCGSCWAFGAVEAISDRICIHTN----VS   49
1icfa1.pdb              1  APRSVDWREK----G----YVTPVKNQG---QCGSCWAFSATGALEGQMFRKT--G--RL   45
1mema.pdb               1  APDSVDYRKK----G----YVTPVKNQG---QCGSCWAFSSVGALEGQLKKKT--G--KL   45
1ppn.pdb                1  IPEYVDWRQK----G----AVTPVKNQG---SCGSCWAFSAVVTIEGIIKIRT--G--NL   45
1ppo.pdb                1  LPENVDWRKK----G----AVTPVRHQG---SCGSCWAFSAVATVEGINKIRT--G--KL   45
1thea.pdb               1  LPESFDAREQ----WSNCPTIAQIRDQG---SCGSCWAFGAVEAMSDRICIHT-NGR-VN   51
1yal.pdb                1  YPQSIDWRAK----G----AVTPVKNQG---ACGS-WAFSTIATVEGINKIVT--G--NL   44
2act.pdb                1  LPSYVDWRSA----G----AVVDIKSQG---ECGGCWAFSAIATVEGINKITS--G--SL   45
8pcha.pdb               1  YPPSMDWRKK--G-N----FVSPVKNQG---SCGSCWTFSTTGALESAVAIAT--G--KM   46
                            P   D R                  Qg    Cgs Waf                     

1aim.pdb               46  TNLSEQMLVSCDKT--DSGCSGGLMNNAFEWIVQE-NNGAVYT-E------DSYPYASG-   94
1cqda.pdb              46  ISLSEQQLVDCTTA--NHGCRGGWMNPAFQFIVNNGG---INSE-------ETYPYR---   90
1deua.pdb              55  TLLSVQNVIDCGN---AGSCEGGNDLSVWDYAHQH-G---IPDE-------TCNNYQ---   97
1gece.pdb              46  VELSEQELVDCDLQ--SYGCNRGYQSTSLQYVAQN-G---IHLR-------AKYPYI---   89
1huca.pdb              50  VEVSAEDLLTCCGSMCGDGCNGGYPAEAWNFWTRK-G---LVSGGLYESHVGCRPYSIPP  105
1icfa1.pdb             46  ISLSEQNLVDCSGPQGNEGCNGGLMDYAFQYVQDN-G---GLDSE------ESYPYE---   92
1mema.pdb              46  LNLSPQNLVDCVS--ENDGCGGGYMTNAFQYVQKN-R---GIDSE------DAYPYV---   90
1ppn.pdb               46  NEYSEQELLDCDRR--SYGCNGGYPWSALQLVAQY-G---IHYR-------NTYPYE---   89
1ppo.pdb               46  VELSEQELVDCERR--SHGCKGGYPPYALEYVAKN-G---IHLR-------SKYPYK---   89
1thea.pdb              52  VEVSAEDLLTCCGIQCGDGCNGGYPSGAWNFWTRK-G---LVSGGVYNSHIGCLPYTIPP  107
1yal.pdb               45  LELSEQELVDCDKH--SYGCKGGYQTTSLQYVANN-G---VHTS-------KVYPYQ---   88
2act.pdb               46  ISLSEQELIDCGRTQNTRGCDGGYITDGFQFIINDGG---INTE-------ENYPYT---   92
8pcha.pdb              47  LSLAEQQLVDCAQNFNNHGCQGGLPSQAFEYIRYN-K---GIMGE------DTYPYK---   93
                              s   l  C       gC gG                               pY    

1aim.pdb               95  --------------EGISPPCT---TSG--------------------HTVGATITGHVE  117
1cqda.pdb              91  ---------------GQDGICN---STV--------------------NAPVVSIDSYEN  112
1deua.pdb              98  ---------------AKDQECDKFNQCGTCNEFKECHAIRN-------YT-LWRVGDYGS  134
1gece.pdb              90  ---------------AKQQTCR---ANQ-------------------VGGPKVKTNGVGR  112
1huca.pdb             106  CEHHVNGSRPPCTGEGDTPKCS---KICEP-----------GYSPTYKQD-KHYGYNSYS  150
1icfa1.pdb             93  ---------------ATEESCK---YN--------------------PKYSVANDTGFVD  114
1mema.pdb              91  ---------------GQEESCM---YN--------------------PTGKAAKCRGYRE  112
1ppn.pdb               90  ---------------GVQRYCR---SRE-------------------KGPYAAKTDGVRQ  112
1ppo.pdb               90  ---------------AKQGTCR---AKQ-------------------VGGPIVKTSGVGR  112
1thea.pdb             108  CEHHVNGARPPCTGEGDTPKCN---KMCEA-----------GYSTSYKED-KHYGYTSYS  152
1yal.pdb               89  ---------------AKQYKCR---ATD-------------------KPGPKVKITGYKR  111
2act.pdb               93  ---------------AQDGDCD---VAL-------------------QDQKYVTIDTYEN  115
8pcha.pdb              94  ---------------GQDDHCK---F--------------------QPDKAIAFVKDVAN  115
                                               C                                       

1aim.pdb              118  LP-QDEAQIAAWLAVNGPVAVAVDA-S-SWMTYTGGVMTSC--V-SE-ALDHGVLLVGYN  170
1cqda.pdb             113  VPSHNEQSLQKAVAN-QPVSVTMDAAGRDFQLYRSGIFTGS--C-NI-SANHALTVVGYG  167
1deua.pdb             135  L--SGREKMMAEIYANGPISCGIMA-TERLANYTGGIYAEYQ-D-TT-YINHVVSVAGWG  188
1gece.pdb             113  VQSNNEGSLLNAIAH-QPVSVVVESAGRDFQNYKGGIFEGS--C-GT-KVDHAVTAVGYG  167
1huca.pdb             151  VS-NSEKDIMAEIYKNGPVEGAFSV-YSDFLLYKSGVYQHVT-G-EM-MGGHAIRILGWG  205
1icfa1.pdb            115  IPK-QEKALMKAVATVGPISVAIDAGHESFLFYKEGIYFEPD-C-SSEDMDHGVLVVGYG  171
1mema.pdb             113  IPEGNEKALKRAVARVGPVSVAIDASLTSFQFYSKGVYYDES-C-NSDNLNHAVLAVGYG  170
1ppn.pdb              113  VQPYNEGALLYSIAN-QPVSVVLEAAGKDFQLYRGGIFVGP--C-GN-KVDHAVAAVGYG  167
1ppo.pdb              113  VQPNNEGNLLNAIAK-QPVSVVVESKGRPFQLYKGGIFEGP--C-GT-KVDHAVTAVGYG  167
1thea.pdb             153  VS-DSEKEIMAEIYKNGPVEGAFTV-FSDFLTYKSGVYKHEA-G-DV-MGGHAIRILGWG  207
1yal.pdb              112  VPSN-ETSFLGALAN-QPLSVLVEAGGKPFQLYKSGVFDGP--C-GT-KLDHAVTAVGYG  165
2act.pdb              116  VPYNNEWALQTAVTY-QPVSVALDAAGDAFKQYASGIFTGP--C-GT-AVDHAIVIVGYG  170
8pcha.pdb             116  ITMNDEEAMVEAVALYNPVSFAFEV-TNDFLMYRKGIYSSTSCHKTPDKVNHAVLAVGYG  174
                                e           P              Y  G               H     G g

1aim.pdb              171  D-S--AAVPYWIIKNSWTTQWGEEGYIRIAKGS-------------NQCLVKEEASSAVV  214
1cqda.pdb             168  TEN---DKDFWIVKNSWGKNWGESGYIRAERNIENPD---------GKCGITRFASYPVK  215
1deua.pdb             189  ISD---GTEYWIVRNSWGEPWGERGWLRIVTST----YKDGKGARY-NLAIEEHCTFGDP  240
1gece.pdb             168  KSG---GKGYILIKNSWGPGWGENGYIRIRRASGNSP---------GVCGVYRSSYYPIK  215
1huca.pdb             206  VEN---GTPYWLVANSWNTDWGDNGFFKILRGQ-------------DHCGIESEVVAGIP  249
1icfa1.pdb            172  FESTN--NKYWLVKNSWGEEWGMGGYVKMAKDR-R-----------NHCGIASAASYPTV  217
1mema.pdb             171  IQK---GNKHWIIKNSWGENWGNKGYILMARNK-N-----------NACGIANLASFPKM  215
1ppn.pdb              168  P-------NYILIKNSWGTGWGENGYIRIKRGTGNSY---------GVCGLYTSSFYPVK  211
1ppo.pdb              168  KSG---GKGYILIKNSWGTAWGEKGYIRIKRAPGNSP---------GVCGLYKSSYYPTK  215
1thea.pdb             208  IEN---GVPYWLVANSWNADWGDNGFFKILRGE-------------NHCGIESEIVAGIP  251
1yal.pdb              166  TSD---GKNYIIIKNSWGPNWGEKGYMRLKRQSGNSQ---------GTCGVYKSSYYPFK  213
2act.pdb              171  TEG---GVDYWIVKNSWDTTWGEEGYMRILRNVGGAG---------TCGIATM-PSYPVK  217
8pcha.pdb             175  EEN---GIPYWIVKNSWGPQWGMNGYFLIERGK-------------NMCGLAACASYPIP  218
                                         NSW   WG  G                                   

1aim.pdb              215  G--  215
1cqda.pdb             216  K--  216
1deua.pdb             241  IV-  242
1gece.pdb             216  N--  216
1huca.pdb             250  RTD  252
1icfa1.pdb                 ---     
1mema.pdb                  ---     
1ppn.pdb              212  N--  212
1ppo.pdb              216  N--  216
1thea.pdb             252  RT-  253
1yal.pdb              214  GFA  216
2act.pdb              218  Y--  218
8pcha.pdb             219  LV-  220
                              


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