% ALIGN_CLEAN, R.B. Russell, 1995 % Searching for domain descriptors... % 2 domain descriptions read in /disk3/pdb/pdb2gbp.ent 2gbp { ALL -0.36266 0.08108 0.92841 22.16247 -0.91718 -0.20750 -0.34014 64.47918 0.16504 -0.97487 0.14962 4.71907 } /disk3/pdb/pdb1gca.ent 1gca { ALL -0.91559 0.09164 0.39157 96.61732 -0.39985 -0.10312 -0.91073 121.81169 -0.04308 -0.99042 0.13108 8.68892 } % Reading block file... Blocfile read: Length: 308 % Searching for STAMP data... % 268459416 STAMP fields found: T P A G % Block file contains 5 sequences; the alignment length is 308 % Cleaning up allowing continuous segments of 3 or greater... % Cleaning done. % The final alignment length is 308 % The alignment: >2gbp (cluster A) sequence >1gca (cluster B) sequence >space >2gbp_dssp (cluster A) secondary structure from DSSP >1gca_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 * AA -- 1 0.74900 1.38384 7.69000 DD -- 1 0.83900 0.51036 8.59000 TT EE 1 0.91200 0.96857 9.32000 RR EE 1 0.93600 0.84566 9.56000 II EE 1 0.94900 0.64143 9.69000 GG EE 1 0.95300 0.59917 9.73000 VV EE 1 0.95500 0.48414 9.75000 TT EE 1 0.95700 0.37600 9.77000 II EE 1 0.95800 0.35656 9.78000 YY SS 1 0.95500 0.50307 9.75000 KK -- 1 0.95600 0.48259 9.76000 YY TT 1 0.95600 0.52329 9.76000 DD TT 1 0.95600 0.49104 9.76000 DD -- 1 0.95400 0.59093 9.74000 NN HH 1 0.95500 0.54755 9.75000 FF HH 1 0.95700 0.43116 9.77000 MM HH 1 0.95700 0.46771 9.77000 SS HH 1 0.95500 0.55306 9.75000 VV HH 1 0.95500 0.56842 9.75000 VV HH 1 0.95700 0.49802 9.77000 RR HH 1 0.95700 0.48607 9.77000 KK HH 1 0.95500 0.56355 9.75000 AA HH 1 0.95500 0.52955 9.75000 II HH 1 0.95600 0.47316 9.76000 EE HH 1 0.95300 0.61835 9.73000 QK HH 1 0.95400 0.56667 9.74000 DD HH 1 0.94900 0.59998 9.69000 AG HH 1 0.93500 0.78821 9.55000 KK TH 1 0.88300 1.01809 9.03000 AS TT 1 0.82500 1.24019 8.45000 AA -S 1 0.85900 1.17003 8.79000 PP TT 1 0.90000 1.06223 9.20000 DD TT 1 0.90400 1.09948 9.24000 VV EE 1 0.92500 0.97071 9.45000 QQ EE 1 0.93600 0.87114 9.56000 LL EE 1 0.94000 0.77986 9.60000 LL EE 1 0.94100 0.74366 9.61000 MM EE 1 0.95300 0.48236 9.73000 NN EE 1 0.95700 0.44477 9.77000 DD EE 1 0.95700 0.45883 9.77000 SS -- 1 0.95500 0.49334 9.75000 QQ TT 1 0.95500 0.47915 9.75000 NN TT 1 0.95200 0.60516 9.72000 DD -- 1 0.95400 0.57202 9.74000 QQ HH 1 0.95300 0.59055 9.73000 SS HH 1 0.94100 0.78449 9.61000 KK HH 1 0.95300 0.59165 9.73000 QQ HH 1 0.95200 0.59853 9.72000 NN HH 1 0.94500 0.76319 9.65000 DD HH 1 0.94800 0.74111 9.68000 QQ HH 1 0.95200 0.64648 9.72000 II HH 1 0.95000 0.62301 9.70000 DD HH 1 0.93900 0.82176 9.59000 VV HH 1 0.94200 0.79440 9.62000 LL HH 1 0.94300 0.71267 9.63000 LL HH 1 0.93400 0.86314 9.54000 AA HH 1 0.92500 0.96541 9.45000 KK TT 1 0.93700 0.87066 9.57000 GG TT 1 0.93900 0.86443 9.59000 VV -- 1 0.94500 0.74782 9.65000 KK SS 1 0.95400 0.57386 9.74000 AA EE 1 0.95500 0.53878 9.75000 LL EE 1 0.95600 0.40519 9.76000 AA EE 1 0.95800 0.38231 9.78000 II EE 1 0.95700 0.42326 9.77000 NN -- 1 0.95400 0.54861 9.74000 LL -- 1 0.95600 0.52387 9.76000 VV SS 1 0.95300 0.57773 9.73000 DD SS 1 0.94600 0.71884 9.66000 PP GG 1 0.94100 0.77394 9.61000 AA GG 1 0.93000 0.91129 9.50000 AA GG 1 0.93700 0.85412 9.57000 AA HH 1 0.94400 0.71155 9.64000 GG HH 1 0.93200 0.90677 9.52000 TT HH 1 0.92600 0.96034 9.46000 VV HH 1 0.94200 0.76826 9.62000 II HH 1 0.93700 0.86890 9.57000 EE HH 1 0.93700 0.87729 9.57000 KK HH 1 0.93600 0.90328 9.56000 AA HH 1 0.93900 0.84251 9.59000 RR HH 1 0.92800 0.93032 9.48000 GG TH 1 0.91200 1.03402 9.32000 QQ TT 1 0.92800 0.89414 9.48000 NN TT 1 0.91800 0.97808 9.38000 VV -- 1 0.93800 0.73078 9.58000 PP -- 1 0.95200 0.44992 9.72000 VV EE 1 0.95800 0.41665 9.78000 VV EE 1 0.95800 0.41358 9.78000 FF EE 1 0.95700 0.49789 9.77000 FF EE 1 0.95600 0.53285 9.76000 NN SS 1 0.95400 0.60677 9.74000 KK SS 1 0.95500 0.57237 9.75000 EE -- 1 0.95400 0.61495 9.74000 PP -- 1 0.94800 0.68270 9.68000 SS -- 1 0.94000 0.82526 9.60000 RR HH 1 0.93500 0.88940 9.55000 KK HH 1 0.93000 0.93613 9.50000 AA HH 1 0.93500 0.87900 9.55000 LL HH 1 0.94800 0.67588 9.68000 DD HH 1 0.95300 0.63569 9.73000 SS TT 1 0.95000 0.70363 9.70000 YY -- 1 0.94500 0.71974 9.65000 DD TT 1 0.95300 0.40103 9.73000 KK TT 1 0.95600 0.54252 9.76000 AA EE 1 0.95400 0.58318 9.74000 YY EE 1 0.95600 0.49060 9.76000 YY EE 1 0.95400 0.53566 9.74000 VV EE 1 0.95300 0.51480 9.73000 GG EE 1 0.94500 0.70127 9.65000 TT -- 1 0.95000 0.45133 9.70000 DD -- 1 0.94600 0.69701 9.66000 SS HH 1 0.94900 0.66434 9.69000 KK HH 1 0.95300 0.59396 9.73000 EE HH 1 0.95600 0.52063 9.76000 SS HH 1 0.95800 0.45957 9.78000 GG HH 1 0.95800 0.43974 9.78000 IV HH 1 0.95800 0.40863 9.78000 II HH 1 0.95800 0.41297 9.78000 QQ HH 1 0.95700 0.42361 9.77000 GG HH 1 0.95800 0.22691 9.78000 DD HH 1 0.95700 0.43969 9.77000 LL HH 1 0.95700 0.50711 9.77000 II HH 1 0.95700 0.45683 9.77000 AA HH 1 0.95500 0.56389 9.75000 KK HH 1 0.95400 0.60726 9.74000 HH HH 1 0.95500 0.58816 9.75000 WW HH 1 0.95500 0.59144 9.75000 AQ HH 1 0.95300 0.58379 9.73000 AA HH 1 0.94400 0.73732 9.64000 NN -- 1 0.94100 0.79727 9.61000 QQ GG 1 0.93700 0.85106 9.57000 GG GG 1 0.94700 0.63127 9.67000 WW GG 1 0.94300 0.79763 9.63000 DD -- 1 0.94200 0.84510 9.62000 LL TT 1 0.94100 0.85085 9.61000 NN TT 1 0.93500 0.90821 9.55000 KK -- 1 0.93600 0.90353 9.56000 DD SS 1 0.92800 0.94814 9.48000 GG SS 1 0.94200 0.78842 9.62000 QK SS 1 0.94900 0.73200 9.69000 II EE 1 0.95100 0.69921 9.71000 QQ EE 1 0.95000 0.65026 9.70000 FY EE 1 0.94900 0.63529 9.69000 VV EE 1 0.95200 0.58629 9.72000 LL EE 1 0.95100 0.63754 9.71000 LL EE 1 0.95500 0.57108 9.75000 KK EE 1 0.95500 0.57344 9.75000 GG -- 1 0.95200 0.63730 9.72000 EE SS 1 0.95300 0.61515 9.73000 PP TT 1 0.94900 0.69944 9.69000 GG TT 1 0.94700 0.71622 9.67000 HH -- 1 0.95200 0.63866 9.72000 PP HH 1 0.95500 0.55966 9.75000 DD HH 1 0.95400 0.60142 9.74000 AA HH 1 0.95500 0.59242 9.75000 EE HH 1 0.95400 0.61028 9.74000 AA HH 1 0.95600 0.53671 9.76000 RR HH 1 0.95500 0.56548 9.75000 TT HH 1 0.95100 0.66006 9.71000 TT HH 1 0.95500 0.52479 9.75000 YY HH 1 0.95600 0.53629 9.76000 VV HH 1 0.95700 0.40901 9.77000 IV HH 1 0.95500 0.52359 9.75000 KK HH 1 0.95800 0.38698 9.78000 EE HH 1 0.95900 0.34265 9.79000 LL HH 1 0.95500 0.33166 9.75000 NN HH 1 0.94600 0.65430 9.66000 DD HH 1 0.94200 0.75459 9.62000 KK TT 1 0.94100 0.80187 9.61000 GG TT 1 0.94400 0.78617 9.64000 II -- 1 0.94900 0.67860 9.69000 KQ -- 1 0.95000 0.64097 9.70000 TT EE 1 0.95200 0.62024 9.72000 EE EE 1 0.95300 0.56510 9.73000 QQ EE 1 0.94600 0.74911 9.66000 LL EE 1 0.94800 0.72538 9.68000 QA EE 1 0.94800 0.70201 9.68000 LL EE 1 0.95200 0.63086 9.72000 DD EE 1 0.95200 0.61935 9.72000 TT EE 1 0.95000 0.67364 9.70000 AA -- 1 0.95400 0.60647 9.74000 MM TT 1 0.95400 0.59107 9.74000 WW TT 1 0.95600 0.45428 9.76000 DD -- 1 0.95400 0.58943 9.74000 TT HH 1 0.95400 0.56136 9.74000 AA HH 1 0.94900 0.69264 9.69000 QQ HH 1 0.95400 0.59060 9.74000 AA HH 1 0.95600 0.55335 9.76000 KK HH 1 0.95400 0.59158 9.74000 DD HH 1 0.95200 0.64963 9.72000 KK HH 1 0.95100 0.68717 9.71000 MM HH 1 0.95400 0.57503 9.74000 DD HH 1 0.95200 0.66029 9.72000 AA HH 1 0.95300 0.64365 9.73000 WW HH 1 0.95000 0.69716 9.70000 LL TH 1 0.95400 0.61202 9.74000 SS TT 1 0.95000 0.68808 9.70000 GG SS 1 0.94900 0.69039 9.69000 PP TT 1 0.94400 0.76956 9.64000 NN TT 1 0.94900 0.61385 9.69000 AA TG 1 0.93800 0.82708 9.58000 NN TG 1 0.93500 0.88485 9.55000 KK TG 1 0.94100 0.80683 9.61000 II -- 1 0.95100 0.66816 9.71000 EE -- 1 0.95100 0.65906 9.71000 VV EE 1 0.95500 0.49614 9.75000 VV EE 1 0.95700 0.43121 9.77000 II EE 1 0.95800 0.35469 9.78000 AA EE 1 0.95700 0.43281 9.77000 NN SS 1 0.95600 0.53979 9.76000 NN SS 1 0.95700 0.50917 9.77000 DD HH 1 0.95600 0.54088 9.76000 AA HH 1 0.95700 0.50427 9.77000 MM HH 1 0.95600 0.53066 9.76000 AA HH 1 0.95700 0.48518 9.77000 MM HH 1 0.95600 0.53272 9.76000 GG HH 1 0.95600 0.53766 9.76000 AA HH 1 0.95500 0.55976 9.75000 VV HH 1 0.95700 0.42904 9.77000 EE HH 1 0.95500 0.53245 9.75000 AA HH 1 0.95300 0.58133 9.73000 LL HH 1 0.95700 0.38542 9.77000 KK HH 1 0.95600 0.52474 9.76000 AA HH 1 0.95500 0.56250 9.75000 HH TT 1 0.95400 0.46498 9.74000 NN TT 1 0.95200 0.52691 9.72000 KK -- 1 0.95100 0.60375 9.71000 SS TT 1 0.95000 0.48660 9.70000 SS TT 1 0.94200 0.72893 9.62000 II SS 1 0.95300 0.54923 9.73000 PP -- 1 0.95300 0.57337 9.73000 VV EE 1 0.95700 0.41050 9.77000 FF EE 1 0.95800 0.41937 9.78000 GG -- 1 0.95800 0.32288 9.78000 VV SS 1 0.95700 0.44431 9.77000 DD BB 1 0.95500 0.55468 9.75000 AA -- 1 0.95500 0.55907 9.75000 LL -- 1 0.95400 0.59330 9.74000 PP HH 1 0.95000 0.66729 9.70000 EE HH 1 0.94800 0.65704 9.68000 AA HH 1 0.94700 0.71620 9.67000 LL HH 1 0.95100 0.67075 9.71000 AA HH 1 0.95300 0.63757 9.73000 LL HH 1 0.95600 0.51880 9.76000 VV HH 1 0.95300 0.63125 9.73000 KK HH 1 0.95300 0.57389 9.73000 SS HH 1 0.95600 0.24015 9.76000 GG TT 1 0.95500 0.41918 9.75000 AA SS 1 0.95000 0.62472 9.70000 LM SS 1 0.94200 0.70923 9.62000 AA S- 1 0.95200 0.33067 9.72000 GG BB 1 0.95800 0.40971 9.78000 TT EE 1 0.95500 0.38918 9.75000 VV EE 1 0.95200 0.58762 9.72000 LL EE 1 0.95600 0.54981 9.76000 NN -- 1 0.95600 0.53248 9.76000 DD -- 1 0.95500 0.58929 9.75000 AA HH 1 0.95600 0.54541 9.76000 NN HH 1 0.95500 0.58678 9.75000 NN HH 1 0.95600 0.54849 9.76000 QQ HH 1 0.95600 0.51723 9.76000 AA HH 1 0.95600 0.52388 9.76000 KK HH 1 0.95800 0.40407 9.78000 AA HH 1 0.95800 0.36824 9.78000 TT HH 1 0.95600 0.48893 9.76000 FF HH 1 0.95800 0.36824 9.78000 DD HH 1 0.95800 0.41754 9.78000 LL HH 1 0.95700 0.46889 9.77000 AA HH 1 0.95600 0.51664 9.76000 KK HH 1 0.95800 0.42431 9.78000 NN HH 1 0.95800 0.42623 9.78000 LL HH 1 0.95700 0.49932 9.77000 AA HH 1 0.95600 0.51127 9.76000 DE TT 1 0.95400 0.59122 9.74000 GG TT 1 0.95300 0.54582 9.73000 KK SS 1 0.94100 0.70202 9.61000 GG -- 1 0.92300 0.80364 9.43000 AA TT 1 0.94000 0.47536 9.60000 AA TT 1 0.94600 0.68047 9.66000 DD TT 1 0.94900 0.66242 9.69000 GG TT 1 0.94900 0.73207 9.69000 TT SS 1 0.95000 0.68972 9.70000 NS -- 1 0.94900 0.72858 9.69000 WW -- 1 0.95000 0.68839 9.70000 KK -- 1 0.94800 0.71521 9.68000 II -- 1 0.95000 0.66174 9.70000 DE BB 1 0.94700 0.69275 9.67000 NN TT 1 0.94900 0.69689 9.69000 KK TT 1 0.95400 0.60369 9.74000 VI EE 1 0.95500 0.58910 9.75000 VV EE 1 0.95600 0.56563 9.76000 RR EE 1 0.95400 0.60216 9.74000 VV -- 1 0.95200 0.67209 9.72000 PP -- 1 0.95300 0.65166 9.73000 YY -- 1 0.95000 0.66488 9.70000 VV EE 1 0.94700 0.66734 9.67000 GG EE 1 0.95400 0.40995 9.74000 VV EE 1 0.95700 0.46212 9.77000 DD -- 1 0.95800 0.41035 9.78000 KK TT 1 0.95000 0.50031 9.70000 DD TT 1 0.93300 0.82946 9.53000 NN TT 1 0.94200 0.77755 9.62000 LL GG 1 0.94300 0.63009 9.63000 AS GG 1 0.91600 0.95750 9.36000 EE GG 1 0.91800 0.91272 9.38000 FF TT 1 0.92500 0.76704 9.45000 ST SS 1 0.74400 0.94981 7.64000 KQ -- 0 0.15100 1.78287 1.71000 *