./4mbn.pdb 4mbn { ALL 0.95788 0.27914 0.06748 0.43297 -0.28330 0.95698 0.06274 3.02207 -0.04706 -0.07921 0.99575 0.21408 } ./2hhba.pdb 2hhba { CHAIN A 0.95820 0.27797 0.06775 0.40510 -0.28220 0.95722 0.06388 2.97994 -0.04709 -0.08033 0.99565 0.19612 } ./2hhbb.pdb 2hhbb { CHAIN B 0.95788 0.27929 0.06683 0.42031 -0.28340 0.95694 0.06285 3.03746 -0.04640 -0.07914 0.99578 0.22045 } Alignment score Sc = 8.988241 Alignment length Lp = 150 RMS deviation after fitting on 135 atoms = 1.319115 Secondary structures are from DSSP >4mbn (cluster A) sequence >2hhba (cluster B) sequence >2hhbb (cluster B) sequence >space >4mbn_dssp (cluster A) 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 ABB ABBequiv Pij Distance Pij' * iteration 1 V ? VVH ??? 1 0.78658 1.16970 9.16700 LLL ??? 1 0.81652 0.75434 9.50800 SST ??? 1 0.83355 0.85603 9.70200 EPP ??? 1 0.86050 0.91135 10.00900 GAE ??? 1 0.86752 0.82066 10.08900 EDE ??? 1 0.87657 0.63159 10.19200 WKK ??? 1 0.90958 0.74372 10.56800 QTS ??? 1 0.91950 0.81446 10.68100 LNA ??? 1 0.91353 0.77869 10.61300 VVV ??? 1 0.90756 0.81339 10.54500 LKT ??? 1 0.88157 1.10629 10.24900 HAA ??? 1 0.91054 0.95108 10.57900 VAL ??? 1 0.90255 1.00284 10.48800 WWW ??? 1 0.90958 0.94792 10.56800 AGG ??? 1 0.88350 1.08904 10.27100 KK ?? VVK ??? 1 0.55051 1.82252 6.47800 EGV ??? 1 0.50652 1.50628 5.97700 AA ?? DHN ??? 1 0.71854 1.21728 8.39200 VAV ??? 1 0.78052 1.38808 9.09800 AGD ??? 1 0.72855 1.52286 8.50600 GEE ??? 1 0.80054 1.27909 9.32600 HYV ??? 1 0.88455 0.76596 10.28300 GGG ??? 1 0.88657 1.08115 10.30600 QAG ??? 1 0.86155 1.17511 10.02100 DEE ??? 1 0.88657 0.98548 10.30600 IAA ??? 1 0.93354 0.43200 10.84100 LLL ??? 1 0.91950 0.74313 10.68100 IEG ??? 1 0.89158 0.95856 10.36300 RRR ??? 1 0.90053 0.93460 10.46500 LML ??? 1 0.92652 0.69634 10.76100 FFL ??? 1 0.93152 0.49891 10.81800 KLV ??? 1 0.89649 0.96167 10.41900 SSV ??? 1 0.88350 1.09877 10.27100 HFY ??? 1 0.90756 1.00224 10.54500 PPP ??? 1 0.92257 0.90441 10.71600 ETW ??? 1 0.90352 1.04851 10.49900 TTT ??? 1 0.90756 0.93482 10.54500 LKQ ??? 1 0.84558 1.07315 9.83900 ETR ??? 1 0.80458 1.11135 9.37200 KYF ??? 1 0.83153 0.82615 9.67900 FFF ??? 1 0.74058 1.16915 8.64300 DPE ??? 1 0.49757 1.76277 5.87500 RHS ??? 1 0.49054 1.62637 5.79500 FFF ??? 0 0.29354 1.47861 3.55100 K G ? ? HDD ??? 0 0.35254 1.85503 4.22300 L L ? ? K S ? ? T T ? ? E P ? ? A D ? ? ELA ??? 1 0.41750 1.87785 4.96300 MSV ??? 1 0.47053 1.31822 5.56700 KHM ??? 1 0.70151 1.43063 8.19800 AGG ??? 1 0.67456 1.54410 7.89100 SSN ??? 1 0.77552 1.12230 9.04100 EAP ??? 1 0.81353 1.30852 9.47400 DQK ??? 1 0.78956 1.42191 9.20100 LVV ??? 1 0.85751 1.12677 9.97500 KKK ??? 1 0.91353 0.88797 10.61300 KGA ??? 1 0.89851 1.07204 10.44200 HHH ??? 1 0.90554 1.03490 10.52200 GGG ??? 1 0.92652 0.79908 10.76100 VKK ??? 1 0.93056 0.76498 10.80700 TKK ??? 1 0.94057 0.61093 10.92100 VVV ??? 1 0.93152 0.60882 10.81800 LAL ??? 1 0.93152 0.46701 10.81800 TDG ??? 1 0.94057 0.43613 10.92100 AAA ??? 1 0.92257 0.68386 10.71600 LLF ??? 1 0.90958 0.86753 10.56800 GTS ??? 1 0.91449 0.87380 10.62400 AND ??? 1 0.92257 0.63875 10.71600 IAG ??? 1 0.88956 0.85753 10.34000 LVL ??? 1 0.80756 1.22293 9.40600 KAA ??? 1 0.82055 1.17829 9.55400 KHH ??? 1 0.87657 0.83592 10.19200 KVL ??? 1 0.76050 1.22918 8.87000 GDD ??? 1 0.57755 1.64365 6.78600 HDN ??? 1 0.69255 1.04484 8.09600 HML ??? 1 0.70950 1.51973 8.28900 EPK ??? 1 0.60151 1.71548 7.05900 ANG ??? 1 0.54155 1.72409 6.37600 EAT ??? 1 0.57957 1.56444 6.80900 LLF ??? 1 0.74953 0.96968 8.74500 KSA ??? 1 0.86357 0.85429 10.04400 PAT ??? 1 0.84856 0.92720 9.87300 LLL ??? 1 0.87850 0.95743 10.21400 ASS ??? 1 0.88851 0.94272 10.32800 QDE ??? 1 0.89649 0.89282 10.41900 SLL ??? 1 0.90554 0.92305 10.52200 HHH ??? 1 0.90958 0.90932 10.56800 AAC ??? 1 0.88851 0.94751 10.32800 THD ??? 1 0.88254 1.06991 10.26000 KKK ??? 1 0.90554 0.96697 10.52200 HLL ??? 1 0.91151 0.94328 10.59000 KRH ??? 1 0.87850 0.85210 10.21400 IVV ??? 1 0.91054 0.76943 10.57900 PDD ??? 1 0.91651 0.91099 10.64700 IPP ??? 1 0.88956 0.95758 10.34000 KVE ??? 1 0.91756 0.71132 10.65900 YNN ??? 1 0.92950 0.58195 10.79500 LFF ??? 1 0.93056 0.65968 10.80700 EKR ??? 1 0.92257 0.62861 10.71600 FLL ??? 1 0.94057 0.53805 10.92100 ILL ??? 1 0.94750 0.53704 11.00000 SSG ??? 1 0.94355 0.67039 10.95500 EHN ??? 1 0.93451 0.53115 10.85200 ACV ??? 1 0.92353 0.78972 10.72700 ILL ??? 1 0.94153 0.68915 10.93200 ILV ??? 1 0.95154 0.45953 11.04600 HVC ??? 1 0.94452 0.62329 10.96600 VTV ??? 1 0.94856 0.54884 11.01200 LLL ??? 1 0.95452 0.55200 11.08000 HAA ??? 1 0.95751 0.42738 11.11400 SAH ??? 1 0.95154 0.50473 11.04600 RHH ??? 1 0.94654 0.63176 10.98900 HLF ??? 1 0.88157 0.59539 10.24900 PPG ??? 1 0.75357 1.09297 8.79100 GAK ??? 1 0.69053 0.80725 8.07300 DEE ??? 1 0.79553 0.91580 9.26900 FFF ??? 1 0.89755 0.91514 10.43100 GTT ??? 1 0.93451 0.80418 10.85200 APP ??? 1 0.94250 0.75527 10.94300 DAP ??? 1 0.94355 0.71237 10.95500 AVV ??? 1 0.94952 0.62961 11.02300 QHQ ??? 1 0.95751 0.39955 11.11400 GAA ??? 1 0.95856 0.25303 11.12600 ASA ??? 1 0.95452 0.51047 11.08000 MLY ??? 1 0.94856 0.63850 11.01200 NDQ ??? 1 0.93749 0.70341 10.88600 KKK ??? 1 0.91950 0.88654 10.68100 AFV ??? 1 0.91353 0.99004 10.61300 LLV ??? 1 0.89351 1.11521 10.38500 EAA ??? 1 0.88254 1.20529 10.26000 LSG ??? 1 0.87657 1.22709 10.19200 FVV ??? 1 0.86550 1.24858 10.06600 RSA ??? 1 0.81353 1.41332 9.47400 KTN ??? 1 0.76753 1.50732 8.95000 DVA ??? 1 0.73355 1.60863 8.56300 ILL ??? 1 0.69650 1.67648 8.14100 ATA ??? 1 0.67456 1.72150 7.89100 ASH ??? 1 0.60652 1.65988 7.11600 KKK ??? 1 0.70757 1.36024 8.26700 Y ? K ? E ? LYY ??? 0 0.27554 2.06699 3.34600 GRH ??? 1 0.56552 1.36314 6.64900 Y ? Q ? G ? *