% ALIGN_CLEAN, R.B. Russell, 1995 % Searching for domain descriptors... % 2 domain descriptions read in /disk3/pdb/pdb2hhm.ent 2hhma { A 5 _ to A 20 _ A 22 _ to A 23 _ A 25 _ to A 52 _ A 54 _ to A 124 _ A 126 _ to A 159 _ A 161 _ to A 173 _ A 175 _ to A 276 _ -0.35842 -0.25033 -0.89936 16.96672 0.09394 -0.96817 0.23204 65.14303 -0.92881 -0.00133 0.37053 38.15118 } /disk3/pdb/pdb1spi.ent 1spia { CHAIN A -0.22035 0.97294 -0.06938 -9.91862 -0.43035 -0.03316 0.90208 -30.31054 0.87534 0.22863 0.42602 23.45154 } % Reading block file... Blocfile read: Length: 387 % Searching for STAMP data... % 268470728 STAMP fields found: T P A G % Block file contains 5 sequences; the alignment length is 387 % Cleaning up allowing continuous segments of 3 or greater... % Cleaning done. % The final alignment length is 376 % The alignment: >2hhma (cluster A) sequence >1spia (cluster B) sequence >space >2hhma_dssp (cluster A) secondary structure from DSSP >1spia_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 * A - A - T - Q - T - K T A T R S T S R - S - K - Y T E T I - E - T B L H T H G H W H L H L H K H Q S P - M S A S G - V S I S D T A T E H WL -H 1 0.64700 1.78306 6.67000 QT HH 1 0.51700 1.96125 5.37000 EI HH 1 0.52300 1.90986 5.43000 CV HH 1 0.71100 1.56685 7.31000 ML HH 1 0.82100 1.37145 8.41000 DS HH 1 0.77700 1.52070 7.97000 YS HH 1 0.79200 1.49067 8.12000 AI HH 1 0.82100 1.36168 8.41000 VS HH 1 0.76700 1.43364 7.87000 TL HH 1 0.72000 1.49363 7.40000 LA HH 1 0.71300 1.47865 7.33000 AC HH 1 0.78900 1.31089 8.09000 RK HH 1 0.76700 1.32906 7.87000 QQ HH 1 0.71100 1.42945 7.31000 AI HH 1 0.76700 1.45342 7.87000 A H GS -H 0 0.17800 2.22567 1.98000 VL -H 1 0.57900 1.38068 5.99000 VV -H 1 0.62400 1.42466 6.44000 EQ -H 1 0.45300 1.85873 4.73000 AR G- I G K G N S E - M - N - V E M E L E K S S S S S P T V T D - L E V E TA E- AK H- 0 0.00000 1.42983 0.00000 TL HG 1 0.83400 1.26932 8.54000 DD HG 1 0.89300 0.93158 9.13000 QV HG 1 0.93900 0.70022 9.59000 KV HT 1 0.94400 0.72852 9.64000 VS HS 1 0.89000 0.58125 9.10000 EN HH 1 0.81400 1.19524 8.34000 KE -H 1 0.66200 1.50612 6.82000 LV -H 0 0.42900 2.01583 4.49000 IF HH 0 0.39600 2.00604 4.16000 SS HH SS HH IC HH KL HH 0 0.12500 2.33576 1.45000 ER HT 0 0.40900 1.22465 4.29000 KS HT 1 0.48400 1.75963 5.04000 YS -- 0 0.24200 2.14348 2.62000 PG TT R T ST TS HG -S 0 0.16000 1.91884 1.80000 SI ES 1 0.45500 2.08506 4.75000 FI EE 1 0.55800 1.93678 5.78000 IA EE 0 0.39600 2.02557 4.16000 GS E- 1 0.63600 1.29607 6.56000 EE HS 1 0.76600 1.31352 7.86000 EE HS 1 0.87500 0.78004 8.95000 S H V H A H AE T- 0 0.32700 2.09013 3.47000 GD TS 1 0.53400 1.66112 5.54000 EV -S 0 0.27700 2.04964 2.97000 KP -- SV -- IA -- V S E - E S S S LY -- TS -- DG S- NN SS 0 0.00000 2.91448 0.00000 PY -- 0 0.22500 1.91413 2.45000 TI EE 1 0.52400 1.91627 5.44000 WV EE 1 0.58600 1.63745 6.06000 IV EE 1 0.63300 1.64860 6.53000 IF EE 1 0.67800 1.65395 6.98000 DD EE 1 0.68700 1.53267 7.07000 PP E- 1 0.85400 0.99665 8.74000 IL ES 1 0.88600 1.14525 9.06000 DD ES 1 0.66700 1.05067 6.87000 GG T- 0 0.37800 1.98757 3.98000 TS HH 1 0.55000 1.87233 5.70000 TS HH 1 0.67300 1.48354 6.93000 NN HH 1 0.53400 1.78314 5.54000 FI HH 1 0.75300 1.31763 7.73000 VD HT 1 0.87100 0.98704 8.91000 HA HT 1 0.62600 1.06860 6.46000 R T FA -- 0 0.33000 1.61833 3.50000 PV SS 1 0.68100 1.17721 7.01000 FS -- 1 0.88400 0.98014 9.04000 VT -- 1 0.88400 1.13919 9.04000 AG E- 1 0.84100 0.99711 8.61000 VS E- 1 0.74000 1.46077 7.60000 SI EE 1 0.80800 1.43761 8.28000 IF EE 1 0.83900 1.28791 8.59000 GG EE 1 0.82200 1.34741 8.42000 FI EE 1 0.83600 1.27641 8.56000 AY EE 1 0.75600 1.45079 7.76000 VS E- 1 0.66200 1.61368 6.82000 NP T- N T D T E - C - I - V - D S S - D - H - D - D S E - S - Q - L - S S A S E - E - Q - R - C - V - V - N - V - C - Q - P - G S KD TS KN ES 0 0.32200 1.88627 3.42000 IL EE 1 0.65400 1.63073 6.74000 EL EE 1 0.82200 1.26349 8.42000 FA EE 1 0.85900 1.23201 8.79000 GA EE 1 0.73000 1.42718 7.50000 VG EE 1 0.55200 1.67168 5.72000 VY EE 1 0.74400 1.23703 7.64000 YC EE 1 0.87600 1.21792 8.96000 SM -E Y E S S VS -S ES -S 1 0.58400 1.45458 6.04000 GV -E 1 0.72700 1.42757 7.47000 KI -E 1 0.81300 1.34212 8.33000 MF EE 1 0.84100 1.33810 8.61000 YV EE 1 0.87200 1.23461 8.92000 TL EE 1 0.85900 1.25327 8.79000 AT EE 1 0.85900 1.23004 8.79000 RI EE 1 0.81400 1.31954 8.34000 KG TT 1 0.68400 1.56763 7.04000 G T KK ST 1 0.64400 1.61804 6.64000 GG -E 1 0.80700 1.32155 8.27000 AV EE 1 0.85200 1.26105 8.72000 FY EE 1 0.81000 1.41476 8.30000 CA EE 1 0.81300 1.41726 8.33000 NF TE T E L E D E P T M T Y T G T E E F E V E L E T E GS TE QE EE KK ES 1 0.46400 1.74978 4.84000 LI -- 1 0.66400 1.01644 6.84000 QQ -- 1 0.80400 1.17558 8.24000 VI -- 1 0.88600 0.58330 9.06000 SP -- 1 0.88600 1.05581 9.06000 QK -S Q - E - D - I G TA G- KG G- 0 0.02400 2.59296 0.44000 SK -- 0 0.30800 1.32128 3.28000 LI BE 1 0.83000 0.94548 8.50000 LY -E 1 0.72400 1.31545 7.44000 TS -E EF -- L - G - S S S - R - T - PN H- EE HG TG HG 0 0.00000 3.28897 0.00000 VN HG 0 0.04600 1.82605 0.66000 RY -- 0 0.34200 2.05226 3.62000 VK -T 0 0.09800 2.57786 1.18000 LM HT 0 0.16300 2.43820 1.83000 W S P - D H K H L H K H SK HH 0 0.09600 2.60247 1.16000 NY HH 0 0.22000 2.28832 2.40000 MM HH 1 0.50800 1.70969 5.28000 ED HH 1 0.62800 1.59682 6.48000 KD HH 1 0.44300 2.02065 4.63000 LL HH 1 0.54400 1.95832 5.64000 FK HT 1 0.62200 1.81847 6.42000 CE TS 1 0.45900 1.95924 4.79000 IP T- 0 0.13000 2.39465 1.50000 G S E S S S Q S PK T- 0 0.00000 2.98741 0.00000 VP -- 0 0.04300 2.16004 0.63000 HY S- 1 0.49500 1.15328 5.15000 GS BE 1 0.72300 1.44966 7.43000 IS -E 1 0.78500 1.41779 8.05000 RR -- 1 0.86900 1.08569 8.89000 SY BB 1 0.89400 0.83209 9.14000 VI -- 1 0.82000 1.24983 8.40000 GG SS 1 0.86400 1.02687 8.84000 TS -- 1 0.81600 1.32596 8.36000 AL HH 1 0.79100 1.36105 8.11000 AV HH 1 0.67900 1.59554 6.99000 VG HH 1 0.66300 1.66462 6.83000 ND HH 1 0.81500 1.36884 8.35000 MF HH 1 0.80300 1.42758 8.23000 CH HH 1 0.78100 1.49607 8.01000 LR HH 1 0.78900 1.50583 8.09000 VT HH 1 0.74000 1.57836 7.60000 AL HH 1 0.77100 1.45405 7.91000 T H GL TH 1 0.44500 1.84307 4.65000 GY SH 1 0.58400 1.12626 6.04000 AG S- 1 0.49700 1.81167 5.17000 DG S- 1 0.77100 1.35970 7.91000 AI EE 1 0.81400 1.37513 8.34000 YY EE 1 0.81500 1.37015 8.35000 YG EE 1 0.84700 1.34612 8.67000 EY EE 1 0.73700 1.40002 7.57000 P - R S D S A S K S S B K T N T MG EB 0 0.01700 2.07203 0.37000 GK SS 1 0.60900 1.13842 6.29000 IL -S 1 0.89900 0.88457 9.19000 R B HL -T 0 0.33300 2.14843 3.53000 CL HT 1 0.52400 1.89022 5.44000 WY HT 1 0.67000 1.68237 6.90000 DE HT 1 0.44400 1.80647 4.64000 VC HH 1 0.45600 1.70994 4.76000 AA HH 1 0.47200 1.98080 4.92000 GP HH 1 0.55700 1.87366 5.77000 AM HH 1 0.70100 1.61569 7.21000 GS HH 1 0.72700 1.59238 7.47000 IF HH 1 0.74700 1.57245 7.67000 II HH 1 0.73700 1.50293 7.57000 VV HH 1 0.81800 1.11775 8.38000 TE HH 1 0.80500 1.36001 8.25000 EQ HH 1 0.77800 1.50023 7.98000 AA TH 1 0.81500 1.32158 8.35000 GG TS 1 0.76200 1.43491 7.82000 GG -- 1 0.78500 1.41571 8.05000 VK EE 1 0.79700 1.45622 8.17000 LG EE 1 0.76400 1.52941 7.84000 MS EB 1 0.79500 1.45884 8.15000 DD -S 1 0.75500 1.50271 7.75000 V T TG TS 1 0.63000 1.67702 6.50000 GH SS 1 0.59600 1.57541 6.16000 GQ SS 1 0.71700 1.19979 7.37000 PR -B 1 0.59400 1.59655 6.14000 FI -S L S D S I S Q - P - T S DE -S LI TS 0 0.00000 3.24114 0.00000 MH TS 0 0.05800 2.68057 0.78000 SQ S- 0 0.12500 2.51850 1.45000 R B RV S- 0 0.36300 1.16410 3.83000 RP E- 1 0.77000 1.41066 7.90000 VL EE 1 0.80200 1.41040 8.22000 IY EE 1 0.73700 1.55941 7.57000 AI EE 1 0.77300 1.44378 7.93000 AG EE 1 0.75200 1.50635 7.72000 N S NS S- 0 0.26200 2.06963 2.82000 RV HS 1 0.50800 1.81870 5.28000 IE HH 1 0.63900 1.72882 6.59000 LE HH 1 0.71200 1.50728 7.32000 AV HH 1 0.83300 1.13938 8.53000 EE HH 1 0.82600 1.26483 8.46000 RK HH 1 0.89400 0.98672 9.14000 IL HH 1 0.84100 1.11945 8.61000 AE HH 1 0.80100 1.34407 8.21000 KK HT 1 0.67200 1.45821 6.92000 EY HT 1 0.55300 1.62378 5.73000 IL -- 0 0.15500 2.08172 1.75000 Q - V - I - P - L - Q - R - D T D T *