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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 05:30:16 2005
# Report_file: /mnt/EXTRA_STORAGE/MUSTANG_RESULTS/HOMSTRAD_Datasets/results/cox.html
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#====================================
# Aligned_structures: 4
# 1: 1b4va.pdb
# 2: 1cf3a.pdb
# 3: 1gpea.pdb
# 4: 3cox.pdb
#
# Length: 686
# Identity: 41/686 ( 6.0%) (Calculated as the percentage of conserved columns in the alignment.)
# Similarity: 90/686 ( 13.1%) (Calculated as the percentage of semi-conserved columns in the alignment)
# Gaps: 282/686 ( 41.1%) (Calculated as the percentage of columns with atleast one gap.)
#===========================================ALIGNMENT START=========================================
1b4va.pdb 1 ------------------------GYVPAVVIGTGYGAAVSALRLGEAG-VQTLMLEMGQ 35
1cf3a.pdb 1 ---------GIEASLLTDPKDVSGRTVDYIIAGGGLTGLTTAARLTENPNISVLVIESGS 51
1gpea.pdb 1 --YLPAQQIDVQSSLLSDPSKVAGKTYDYIIAGGGLTGLTVAAKLTENPKIKVLVIEKGF 58
3cox.pdb 1 TL-------------------ADGDRVPALVIGSGYGGAVAALRLTQAG-IPTQIVEMGR 40
v G G g A rLte i l E G
1b4va.pdb 36 LWNQPGPDGNI-FCGMLNPDKRSSWFKNRTEAPLGSFLWLDV----VNR---NIDPYAGV 87
1cf3a.pdb 52 YE---------SDRGPIIE-DLN---------------AYGD----IFGS--------SV 74
1gpea.pdb 59 YE---------SNDGAIIE-DPN---------------AYGQ----IFGT--------TV 81
3cox.pdb 41 SWDTPGSDGKI-FCGMLNPDKRSMWLADKTDQ-PV-------SNFMGFGINKSIDRYVGV 91
G fg V
1b4va.pdb 88 LDRVNYD-------QMSVYVGRGVGGGSLVNGGMAVEPKRSYFEEILP-----RVDSSEM 135
1cf3a.pdb 75 DHAYETVELATNNQTALIRSGNGLGGSTLVNGGTWTRPHKAQVDSWETVFGNEGWNWDNV 134
1gpea.pdb 82 DQNYLTVPL-INNRTNNIKAGKGLGGSTLINGDSWTRPDKVQIDSWEKVFGMEGWNWDNM 140
3cox.pdb 92 LDSERFS-------GIKVYQGRGVGGGSLVNGGMAVTPKRNYFEEILP-----SVDSNEM 139
G G GG LvNGg P m
1b4va.pdb 136 YDRYFPRANS------------------------MLRVNHIDTKWFEDTE----WYKFAR 167
1cf3a.pdb 135 A-AYSLQAERARAPNAKQIAAGHYFNASCHGVNGTVHAGPRD--------TGDDYSPIVK 185
1gpea.pdb 141 F-EYMKKAEAARTPTAAQLAAGHSFNATCHGTNGTVQSGARD--------NGQPWSPIMK 191
3cox.pdb 140 YNKYFPRANT------------------------GLGVNNIDQAWFESTE----WYKFAR 171
Y A D w
1b4va.pdb 168 VSREQAGKAGLG------------TVFVPNVYDFGYMQREAAGEVPKSALATEVIYGNNH 215
1cf3a.pdb 186 ALMSAVEDRGVPTKKDFGCGDPHGVSMFPNTLH----------------EDQ-------- 221
1gpea.pdb 192 ALMNTVSALGVPVQQDFLCGHPRGVSMIMNNLD----------------ENQ-------- 227
3cox.pdb 172 TGRKTAQRSGFT------------TAFVPNVYDFEYMKKEAAGQVTKSGLGGEVIYGNNA 219
G pN d
1b4va.pdb 216 GKQSLDKTYLAAALGTGKVTIQTLHQVKTIRQ-TKDG---GYALTVEQKDTDG-KLLATK 270
1cf3a.pdb 222 VRSDAAREWLLPNYQRPNLQVLTGQYVGKVLLSQNGTTPRAVGVEFGT-----HKG-NTH 275
1gpea.pdb 228 VRVDAARAWLLPNYQRSNLEILTGQMVGKVLFKQTASGPQAVGVNFGT-----NKA-VNF 281
3cox.pdb 220 GKKSLDKTYLAQAAATGKLTITTLHRVTKVAP-ATGS---GYSVTMEQIDEQG-NVVATK 274
L l i T V kv v k t
1b4va.pdb 271 EI-SCRYLFLGAGSLGSTELLVRAR------D-----TGTLPNLNSEVGAGWGPNGNIMT 318
1cf3a.pdb 276 NVYAKHEVLLAAGSAVSPTILEYSGIGMKSILEPLGIDTVVD---LPVGLNLQDQTTATV 332
1gpea.pdb 282 DVFAKHEVLLAAGSAISPLILEYSGIGLKSVLDQANVTQLLD---LPVGINMQDQTTTTV 338
3cox.pdb 275 VV-TADRVFFAAGSVGTSKLLVSMK------A-----QGHLPNLSSQVGEGWGNNGNIMV 322
v v laAGS s L l VG v
1b4va.pdb 319 ARANHMWNPTGAHQSSIPALGIDAWDN--------------------------------- 345
1cf3a.pdb 333 RSRITSAGAGQ---G---QAAWFAT-FNETFGDYSEKAHELLNTKLEQWAEEAVARGGFH 385
1gpea.pdb 339 SSRASSAGAGQ---G---QAVFFAN-FTETFGDYAPQARDLLNTKLDQWAEETVARGGFH 391
3cox.pdb 323 GRANHMWDATGSKQATIPTMGIDNWAD--------------------------------- 349
a a
1b4va.pdb 346 ----------------SDS---SVFAEIAPMPAGLETWVSLYLAI-TKNPQRGTFVYDAA 385
1cf3a.pdb 386 NTTALLIQYENYRDWIVNHNVAYSELFLDTA------GVASFDVWDLLPFTRGYVHILD- 438
1gpea.pdb 392 NVTALKVQYENYRNWLLDEDVAFAELFMDTE------GKINFDLWDLIPFTRGSVHILS- 444
3cox.pdb 350 ----------------PTA---PIFAEIAPLPAGLETYVSLYLAI-TKNPERARFQFNSG 389
v Rg
1b4va.pdb 386 ---TD-RAKLNWTRD----QNAPAVNAAKALFDRINK---ANGTIYRYDL--FGT-QLKA 431
1cf3a.pdb 439 KDPYLHHFAYDPQYFLNELDLLGQAAATQLARNISNSGAMQTYFAGETIPGDNLAYDAD- 497
1gpea.pdb 445 SDPYLWQFANDPKFFLNEFDLLGQAAASKLARDLTSQGAMKEYFAGETLPGYNLVQNAT- 503
3cox.pdb 390 ---TG-KVDLTWAQS----QNQKGIDMAKKVFDKINQ---KEGTIYRTDL--FYY-KTWG 435
a k d n t
1b4va.pdb 432 -----------FADDFCYHPLGGCVLG-----KATDDYGRVAGYKNLYVTDGSLIPGSVG 475
1cf3a.pdb 498 LSAWTEYIPYHFR--PNYHGVGTCSMMPKEMGGVVDNAARVYGVQGLRVIDGSIPPTQMS 555
1gpea.pdb 504 LSQWSDYVLQNFR--PNWHAVSSCSMMSRELGGVVDATAKVYGTQGLRVIDGSIPPTQVS 561
3cox.pdb 436 -----------DD--FTYHPLGGVLLN-----KATDNFGRLPEYPGLYVVDGSLVPGNVG 477
f yH g c D rv g gL V DGS P v
1b4va.pdb 476 VNPFVTITALAERNVERIIKQDV--- 498
1cf3a.pdb 556 SHVMTVFYAMALKISDAILEDYASMQ 581
1gpea.pdb 562 SHVMTIFYGMALKVADAILDDYAKSA 587
3cox.pdb 478 VNPFVTITALAERNMDKIISSDI--- 500
a A d I
#=========================================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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