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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 13:41:04 2005
# Report_file: /mnt/EXTRA_STORAGE/MUSTANG_RESULTS/HOMSTRAD_Datasets/results/Cyclodex_gly_tran.html
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#====================================
# Aligned_structures: 6
# 1: 1cgt.pdb
# 2: 1ciu.pdb
# 3: 1cyg.pdb
# 4: 1d3ca.pdb
# 5: 1pama.pdb
# 6: 1qhpa.pdb
#
# Length: 711
# Identity: 228/711 ( 32.1%) (Calculated as the percentage of conserved columns in the alignment.)
# Similarity: 383/711 ( 53.9%) (Calculated as the percentage of semi-conserved columns in the alignment)
# Gaps: 49/711 ( 6.9%) (Calculated as the percentage of columns with atleast one gap.)
#===========================================ALIGNMENT START=========================================
1cgt.pdb 1 -DPDTA--VTNKQSFSTDVIYQVFTDRFLDGNPSNNP-T--GAAYDATCSNLKLYCGGDW 54
1ciu.pdb 1 -ASDTA--VSNVVNYSTDVIYQIVTDRFVDGNTSNNP-T--GDLYDPTHTSLKKYFGGDW 54
1cyg.pdb 1 ------AGNLNKVNFTSDVVYQIVVDRFVDGNTSNNP-S--GALFSSGCTNLRKYCGGDW 51
1d3ca.pdb 1 -APDTS--VSNKQNFSTDVIYQIFTDRFSDGNPANNP-T--GAAFDGTCTNLRLYCGGDW 54
1pama.pdb 1 -APDTS--VSNKQNFSTDVIYQIFTDRFSDGNPANNP-T--GAAFDGSCTNLRLYCGGDW 54
1qhpa.pdb 1 S---------SSASVKGDVIYQIIIDRFYDGDTTNNNPAKSYGLYDPTKSKWKMYWGGDL 51
n DViYQi DRF DGn NNp g d l Y GGDw
1cgt.pdb 55 QGLINKINDNYFSDLGVTALWISQPVENIFATINYSG-V-TNTAYHGYWARDFKKTNPYF 112
1ciu.pdb 55 QGIINKINDGYLTGMGVTAIWISQPVENIYAVLPD-STFGGSTSYHGYWARDFKRTNPYF 113
1cyg.pdb 52 QGIINKINDGYLTDMGVTAIWISQPVENVFSVMND-A-S-GSASYHGYWARDFKKPNPFF 108
1d3ca.pdb 55 QGIINKINDGYLTGMGVTAIWISQPVENIYSIINYSG-V-NNTAYHGYWARDFKKTNPAY 112
1pama.pdb 55 QGIINKINDGYLTGMGITAIWISQPVENIYSVINYSG-V-NNTAYHGYWARDFKKTNPAY 112
1qhpa.pdb 52 EGVRQKL--PYLKQLGVTTIWLSPVLDNLDTLAGT-----DNTGYHGYWTRDFKQIEEHF 104
qG inKi Yl GvTaiWiSqpveN t YHGYWaRDFK np
1cgt.pdb 113 GTMADFQNLITTAHAKGIKIVIDFAPNHTSPAMETDTSFAENGRLYDNGTLVGGYTND-T 171
1ciu.pdb 114 GSFTDFQNLINTAHAHNIKVIIDFAPNHTSPASETDPTYAENGRLYDNGTLLGGYTND-T 172
1cyg.pdb 109 GTLSDFQRLVDAAHAKGIKVIIDFAPNHTSPASETNPSYMENGRLYDNGTLLGGYTND-A 167
1d3ca.pdb 113 GTIADFQNLIAAAHAKNIKVIIDFAPNHTSPASSDQPSFAENGRLYDNGTLLGGYTND-T 171
1pama.pdb 113 GTMQDFKNLIDTAHAHNIKVIIDFAPNHTSPASSDDPSFAENGRLYDNGNLLGGYTND-T 171
1qhpa.pdb 105 GNWTTFDTLVNDAHQNGIKVIVDFVPNHSTPFKANDSTFAEGGALYNNGTYMGNYFDDAT 164
G dF L AHa IKviiDFaPNHtsPa aEnGrLYdNGtl GgYtnD t
1cgt.pdb 172 NGYFHHNGGS-DFSSLENGIYKNLY-----DLADFNHNNATIDKYFKDAIKLWLDMGVDG 225
1ciu.pdb 173 NGYFHHYGGT-DFSSYEDGIYRNLF-----DLADLNQQNSTIDSYLKSAIKVWLDMGIDG 226
1cyg.pdb 168 NMYFHHNGGT-TFSSLEDGIYRNLF-----DLADLNHQNPVIDRYLKDAVKMWIDMGIDG 221
1d3ca.pdb 172 QNLFHHNGGT-DFSTTENGIYKNLY-----DLADLNHNNSTVDVYLKDAIKMWLDLGIDG 225
1pama.pdb 172 QNLFHHYGGT-DFSTIENGIYKNLY-----DLADLNHNNSSVDVYLKDAIKMWLDLGVDG 225
1qhpa.pdb 165 KGYFHHNGDISNWDDRYEAQWKNFTDPAGFSLADLSQENGTIAQYLTDAAVQLVAHGADG 224
FHH Gg fs e giy Nl dLADln N d YlkdA k w d G DG
1cgt.pdb 226 IRVDAVKHMPLGWQKSWMSSIYAHKPVFTFGEWFL-GSAAS-DADNTDFANKSGMSLLDF 283
1ciu.pdb 227 IRLDAVKHMPFGWQKNFMDSILSYRPVFTFGEWFL-GTNEI-DVNNTYFANESGMSLLDF 284
1cyg.pdb 222 IRMDAVKHMPFGWQKSLMDEIDNYRPVFTFGEWFL-SENEV-DANNHYFANESGMSLLDF 279
1d3ca.pdb 226 IRMNAVKHMPFGWQKSFMAAVNNYKPVFTFGQWFL-GVNEV-SPENHKFANESGMSLLDF 283
1pama.pdb 226 IRVDAVKHMPFGWQKSFMATINNYKPVFTFGEWFL-GVNEI-SPEYHQFANESGMSLLDF 283
1qhpa.pdb 225 LRIDAVKHFNSGFSKSLADKLYQKKDIFLVGEWYGDDPGTANHLEKVRYANNSGVNVLDF 284
iR dAVKHmp GwqKs m pvFtfGeWfl fAN SGmslLDF
1cgt.pdb 284 RFNSAVRNVFRDNTSNMYALDSMINSTATDYNQVNDQVTFIDNHDMDRFKTSAVNNRRLE 343
1ciu.pdb 285 RFSQKVRQVFRDNTDTMYGLDSMIQSTASDYNFINDMVTFIDNHDMDRFYN-GGSTRPVE 343
1cyg.pdb 280 RFGQKLRQVLRNNSDNWYGFNQMIQDTASAYDEVLDQVTFIDNHDMDRFMIDGGDPRKVD 339
1d3ca.pdb 284 RFAQKVRQVFRDNTDNMYGLKAMLEGSAADYAQVDDQVTFIDNHDMERFHASNANRRKLE 343
1pama.pdb 284 RFAQKARQVFRDNTDNMYGLKAMLEGSEVDYAQVNDQVTFIDNHDMERFHTSNGDRRKLE 343
1qhpa.pdb 285 DLNTVIRNVFGTFTQTMYDLNNMVNQTGNEYKYKENLITFIDNHDMSRFLSVNSNKANLH 344
rf R Vfr nt mY l M Y d vTFIDNHDM RF r
1cgt.pdb 344 QALAFTLTSRGVPAIYYGTEQYLTGNGDPDNRAKMPSFSKSTTAFNVISKLAPLRKSNPA 403
1ciu.pdb 344 QALAFTLTSRGVPAIYYGTEQYMTGNGDPYNRAMMTSFNTSTTAYNVIKKLAPLRKSNPA 403
1cyg.pdb 340 MALAVLLTSRGVPNIYYGTEQYMTGNGDPNNRKMMSSFNKNTRAYQVIQKLSSLRRNNPA 399
1d3ca.pdb 344 QALAFTLTSRGVPAIYYGTEQYMSGGTDPDNRARIPSFSTSTTAYQVIQKLAPLRKCNPA 403
1pama.pdb 344 QALAFTLTSRGVPAIYYGSEQYMSGGNDPDNRARLPSFSTTTTAYQVIQKLAPLRKSNPA 403
1qhpa.pdb 345 QALAFILTSRGTPSIYYGTEQYMAGGNDPYNRGMMPAFDTTTTAFKEVSTLAGLRRNNAA 404
qALAf LTSRGvP IYYGtEQYm G DP NR sF TtA vi kLa LR NpA
1cgt.pdb 404 IAYGSTQQRWINNDVYVYERKFGKSVAVVAVNRNLSTSASITGLSTSLPTGSYTDVLGGV 463
1ciu.pdb 404 IAYGTTQQRWINNDVYIYERKFGNNVALVAINRNLSTSYNITGLYTALPAGTYTDVLGGL 463
1cyg.pdb 400 LAYGDTEQRWINGDVYVYERQFGKDVVLVAVNRSSSSNYSITGLFTALPAGTYTDQLGGL 459
1d3ca.pdb 404 IAYGSTQERWINNDVLIYERKFGSNVAVVAVNRNLNAPASISGLVTSLPQGSYNDVLGGL 463
1pama.pdb 404 IAYGSTHERWINNDVIIYERKFGNNVAVVAINRNMNTPASITGLVTSLPRGSYNDVLGGI 463
1qhpa.pdb 405 IQYGTTTQRWINNDVYIYERKFFNDVVLVAINRNTQSSYSISGLQTALPNGSYADYLSGL 464
iaYG T RWINnDV YERkFg V VA NRn sI GL T LP G Y D LgG
1cgt.pdb 464 LNGNNITSTN-GSINNFTLAAGATAVWQYTTAETTPTIGHVGPVMGKPGNVVTIDGRGFG 522
1ciu.pdb 464 LNGNSISVASDGSVTPFTLSAGEVAVWQYVSSSNSPLIGHVGPTMTKAGQTITIDGRGFG 523
1cyg.pdb 460 LDGNTIQVGSNGSVNAFDLGPGEVGVWAYSATESTPIIGHVGPMMGQVGHQVTIDGEGFG 519
1d3ca.pdb 464 LNGNTLSVGSGGAASNFTLAAGGTAVWQYTAATATPTIGHVGPMMAKPGVTITIDGRGFG 523
1pama.pdb 464 LNGNTLTVGAGGAASNFTLAPGGTAVWQYTTDATTPIIGNVGPMMAKPGVTITIDGRGFG 523
1qhpa.pdb 465 LGGNGISVSN-GSVASFTLAPGAVSVWQYSTSASAPQIGSVAPNMGIPGNVVTIDGKGFG 523
L GN v G FtL G VWqY P IG VgP M G TIDG GFG
1cgt.pdb 523 STKGTVYFGTTAVTGAAITSWEDTQIKVTIPSVAAGNYAVKVAA-SGVNSNAYNNFTILT 581
1ciu.pdb 524 TTSGQVLFGSTAG---TIVSWDDTEVKVKVPSVTPGKYNISLKTSSGATSNTYNNINILT 580
1cyg.pdb 520 TNTGTVKFGTTAA---NVVSWSNNQIVVAVPNVSPGKYNITVQSSSGQTSAAYDNFEVLT 576
1d3ca.pdb 524 SSKGTVYFGTTAVSGADITSWEDTQIKVKIPAVAGGNYNIKVANAAGTASNVYDNFEVLS 583
1pama.pdb 524 SGKGTVYFGTTAVTGADIVAWEDTQIQVKIPAVPGGIYDIRVANAAGAASNIYDNFEVLT 583
1qhpa.pdb 524 TTQGTVTFGGVTA---TVKSWTSNRIEVYVPNMAAGLTDVKVTAGG-VSS-NLYSYNILS 578
GtV FG ta sW i V P v G y v S y n L
1cgt.pdb 582 GDQVTVRFVVNNA-STTLGQNLYLTGNVAELGNWSTGS-----TAIGPAFNQVIHQYPTW 635
1ciu.pdb 581 GNQICVRFVVNNA-STVYGENVYLTGNVAELGNWDTS------KAIGPMFNQVVYQYPTW 633
1cyg.pdb 577 NDQVSVRFVVNNA-TTNLGQNIYIVGNVYELGNWDTS------KAIGPMFNQVVYSYPTW 629
1d3ca.pdb 584 GDQVSVRFVVNNA-TTALGQNVYLTGSVSELGNWDPA------KAIGPMYNQVVYQYPNW 636
1pama.pdb 584 GDQVTVRFVINNA-TTALGQNVFLTGNVSELGNWDPN------NAIGPMYNQVVYQYPTW 636
1qhpa.pdb 579 GTQTSVVFTVKSAPPTNLGDKIYLTGNIPELGNWSTDTSGAVNNAQGPLLAP---NYPDW 635
g Q VrFvvnnA T lG n yltGnv ELGNW AiGP nq YP W
1cgt.pdb 636 YYDVSVPAGKQLEFKFFKKN-GSTITWESGSNHTFTTPASGTATVTVNWQ- 684
1ciu.pdb 634 YYDVSVPAGTTIQFKFIKKN-GNTITWEGGSNHTYTVPSSSTGTVIVNWQQ 683
1cyg.pdb 630 YIDVSVPEGKTIEFKFIKKDSQGNVTWESGSNHVYTTPTNTTGKIIVDWQN 680
1d3ca.pdb 637 YYDVSVPAGKTIEFKFLKKQ-GSTVTWEGGSNHTFTAPSSGTATINVNWQP 686
1pama.pdb 637 YYDVSVPAGQTIEFKFLKKQ-GSTVTWEGGANRTFTTPTSGTATVNVNWQP 686
1qhpa.pdb 636 FYVFSVPAGKTIQFKFFIKRADGTIQWENGSNHVATTPTGATGNITVTWQN 686
yydvSVPaG ti FKF kK t tWE GsNh T P T V WQ
#=========================================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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