./2lhb.pdb 2lhb { ALL -0.20769 0.92886 -0.30674 26.52226 -0.37680 0.21341 0.90138 -9.86737 0.90271 0.30279 0.30567 -2.95955 } ./1ecd.pdb 1ecd { ALL -0.20954 0.92811 -0.30775 26.55733 -0.37224 0.21532 0.90282 -9.94436 0.90417 0.30373 0.30036 -2.95221 } ./4mbn.pdb 4mbn { ALL -0.20664 0.92904 -0.30689 26.50257 -0.37497 0.21452 0.90188 -9.90334 0.90372 0.30143 0.30403 -2.96369 } ./2hhba.pdb 2hhba { CHAIN A -0.20560 0.92964 -0.30579 26.46896 -0.37467 0.21388 0.90215 -9.92835 0.90407 0.30005 0.30434 -2.99714 } ./2hhbb.pdb 2hhbb { CHAIN B -0.20698 0.92899 -0.30683 26.51399 -0.37442 0.21453 0.90210 -9.88893 0.90387 0.30160 0.30342 -2.97367 } Alignment score Sc = 8.304006 Alignment length Lp = 154 RMS deviation after fitting on 117 atoms = 1.185354 Secondary structures are from DSSP >2lhb (cluster A) sequence >1ecd (cluster B) sequence >4mbn (cluster B) sequence >2hhba (cluster B) sequence >2hhbb (cluster B) sequence >space >2lhb_dssp (cluster A) secondary structure from DSSP >1ecd_dssp (cluster B) secondary structure from DSSP >4mbn_dssp (cluster B) secondary structure from DSSP >2hhba_dssp (cluster B) secondary structure from DSSP >2hhbb_dssp (cluster B) secondary structure from DSSP #T -- '1' = equivalenced residues #P -- averaged Pij #A -- distance between averaged CA atoms in angtroms #G -- Pij' value ABBBB ABBBBequiv Pij Distance Pij' * iteration 1 P ? I ? V ? D ? T ? G ? S ? V ? A V ? ? P VVH ? ??? LLLLL ????? 1 0.82233 1.08607 10.64300 SSSST ????? 1 0.76736 1.23552 9.94500 AAEPP ????? 1 0.75736 1.38286 9.81800 ADGAE ????? 1 0.79130 1.24738 10.24900 EQEDE ????? 1 0.86533 0.88994 11.18900 KIWKK ????? 1 0.88234 1.00911 11.40500 TSQTS ????? 1 0.86832 1.07992 11.22700 KTLNA ????? 1 0.89431 0.93384 11.55700 IVVVV ????? 1 0.92336 0.64172 11.92600 RQLKT ????? 1 0.89336 0.91033 11.54500 SAHAA ????? 1 0.87832 1.01700 11.35400 ASVAL ????? 1 0.90037 0.84224 11.63400 WFWWW ????? 1 0.89635 0.74550 11.58300 ADAGG ????? 1 0.83335 0.94728 10.78300 PKKK ???? VVVVK ????? 1 0.62435 1.50506 8.12900 Y EGV ? ??? S AA ? ?? TKDHN ????? 1 0.56733 1.28598 7.40500 Y VAV ? ??? EGAGD ????? 1 0.55237 1.64294 7.21500 T GEE ? ??? SDHYV ????? 1 0.79634 0.83949 10.31300 GPGGG ????? 1 0.89037 0.90957 11.50700 VVQAG ????? 1 0.89730 0.92460 11.59500 DGDEE ????? 1 0.91132 0.78195 11.77300 IIIAA ????? 1 0.90935 0.64860 11.74800 LLLLL ????? 1 0.89037 0.97310 11.50700 VYIEG ????? 1 0.88234 1.02570 11.40500 KARRR ????? 1 0.89730 0.83182 11.59500 FVLML ????? 1 0.90635 0.76450 11.71000 FFFFL ????? 1 0.91037 0.74914 11.76100 TKKLV ????? 1 0.89131 0.80878 11.51900 SASSV ????? 1 0.85737 0.86357 11.08800 TDHFY ????? 1 0.90037 0.46066 11.63400 PPPPP ????? 1 0.91636 0.63572 11.83700 ASETW ????? 1 0.89037 0.93238 11.50700 AITTT ????? 1 0.88533 0.96708 11.44300 QMLKQ ????? 1 0.88336 0.59409 11.41800 EAETR ????? 1 0.87737 0.59862 11.34200 FKKYF ????? 1 0.88336 0.95393 11.41800 FFFFF ????? 1 0.82532 0.99341 10.68100 PTDPE ????? 1 0.68932 1.26413 8.95400 KQRHS ????? 1 0.72137 1.21738 9.36100 FFFFF ????? 1 0.66136 0.98981 8.59900 KAK G ??? ? GGHDD ????? 1 0.51331 1.28736 6.71900 L L L ? ? ? TKK S ??? ? TDT T ??? ? ALE P ??? ? DEA D ??? ? ESELA ????? 1 0.63632 1.13394 8.28100 LIMSV ????? 1 0.67932 1.21980 8.82700 KKKHM ????? 1 0.78634 1.06572 10.18600 KGAGG ????? 1 0.79036 0.86153 10.23700 STSSN ????? 1 0.83635 0.75576 10.82100 AAEAP ????? 1 0.88533 0.65943 11.44300 DPDQK ????? 1 0.89336 0.68807 11.54500 VFLVV ????? 1 0.91037 0.52623 11.76100 REKKK ????? 1 0.91636 0.69011 11.83700 WTKGA ????? 1 0.92336 0.73704 11.92600 HHHHH ????? 1 0.93730 0.63998 12.10300 AAGGG ????? 1 0.94037 0.64430 12.14200 ENVKK ????? 1 0.92935 0.76046 12.00200 RRTKK ????? 1 0.90336 0.93668 11.67200 IIVVV ????? 1 0.88336 0.90240 11.41800 IVLAL ????? 1 0.89533 0.81449 11.57000 NGTDG ????? 1 0.90730 0.86945 11.72200 AFAAA ????? 1 0.88934 1.05094 11.49400 VFLLF ????? 1 0.87635 0.98789 11.32900 DSGTS ????? 1 0.89533 0.74116 11.57000 DKAND ????? 1 0.87233 1.01289 11.27800 AIIAG ????? 1 0.84832 1.07636 10.97300 VILVL ????? 1 0.86934 0.88704 11.24000 AGKAA ????? 1 0.87635 0.72771 11.32900 SEKHH ????? 1 0.88533 0.55323 11.44300 MLKVL ????? 1 0.60931 0.98247 7.93800 DPGDD ????? 1 0.36534 1.99555 4.84000 D ? T ? E ? KNHDN ????? 0 0.19232 2.04442 2.64300 MIHML ????? 1 0.55332 1.17236 7.22700 SEEPK ????? 1 0.78532 0.79031 10.17300 MAANG ????? 1 0.76736 0.93352 9.94500 KDEAT ????? 1 0.69034 1.34949 8.96700 LVLLF ????? 1 0.76138 0.97031 9.86900 RNKSA ????? 1 0.72736 1.44306 9.43700 NTPAT ????? 1 0.77232 1.25024 10.00800 LFLLL ????? 1 0.87336 0.81267 11.29100 SVASS ????? 1 0.86934 1.02101 11.24000 GAQDE ????? 1 0.84233 1.13913 10.89700 KSSLL ????? 1 0.90037 0.74527 11.63400 HHHHH ????? 1 0.91533 0.73896 11.82400 A AAC ? ??? KKTHD ????? 1 0.70530 1.17872 9.15700 SPKKK ????? 1 0.77130 1.14446 9.99500 FRHLL ????? 1 0.85336 1.08112 11.03700 QGKRH ????? 1 0.81831 1.23958 10.59200 VVIVV ????? 1 0.82634 1.30009 10.69400 DTPDD ????? 1 0.79634 1.44291 10.31300 PHIPP ????? 1 0.74531 1.44758 9.66500 EDKVE ????? 1 0.80831 1.13943 10.46500 YQYNN ????? 1 0.88635 0.75215 11.45600 FLLFF ????? 1 0.90431 0.62667 11.68400 KNEKR ????? 1 0.89037 0.90645 11.50700 VNFLL ????? 1 0.90832 0.88095 11.73500 LFILL ????? 1 0.90533 0.23577 11.69700 ARSSG ????? 1 0.85233 1.08308 11.02400 AAEHN ????? 1 0.84131 1.20877 10.88400 VGACV ????? 1 0.87832 1.08538 11.35400 IFILL ????? 1 0.86430 1.10605 11.17600 AVILV ????? 1 0.76634 1.46068 9.93200 DSHVC ????? 1 0.74736 1.55183 9.69100 TYVTV ????? 1 0.76232 1.48605 9.88100 VMLLL ????? 1 0.60734 1.61981 7.91300 KHAA ???? ASAH ???? HRHH ???? HLF ??? TPPG ???? GAK ??? ADDEE ????? 0 0.04435 2.59126 0.76400 FFFF ???? A GTT ? ??? AAPP ???? GDAP ???? GAAVV ????? 0 -0.00000 2.62752 -0.00000 DEQHQ ????? 0 0.19335 0.87257 2.65600 AAGAA ????? 1 0.89935 0.83431 11.62100 GAASA ????? 1 0.93431 0.77009 12.06500 FWMLY ????? 1 0.92234 0.74561 11.91300 EGNDQ ????? 1 0.88430 0.72154 11.43000 KAKKK ????? 1 0.89131 0.75339 11.51900 LTAFV ????? 1 0.90832 0.82192 11.73500 MLLLV ????? 1 0.90832 0.51172 11.73500 SDEAA ????? 1 0.89533 0.61738 11.57000 MTLSG ????? 1 0.90234 0.81617 11.65900 IFFVV ????? 1 0.90533 0.80788 11.69700 CFRSA ????? 1 0.89431 0.70783 11.55700 IGKTN ????? 1 0.85832 0.90792 11.10000 LMDVA ????? 1 0.82737 1.09243 10.70700 LIILL ????? 1 0.80130 1.12697 10.37600 RFATA ????? 1 0.79335 1.03313 10.27500 SSASH ????? 1 0.72830 1.34123 9.44900 KKK ??? Y ? K ? AKE ??? YMLYY ????? 1 0.66735 1.29679 8.67500 GRH ??? Y ? Q ? G ? *