% ALIGN_CLEAN, R.B. Russell, 1995 % Searching for domain descriptors... % 2 domain descriptions read in /disk3/pdb/pdb1axn.ent 1axn { ALL 0.00572 -0.34232 0.93958 170.24922 0.07418 0.93714 0.34099 49.72657 -0.99723 0.06772 0.03078 54.14025 } /disk3/pdb/pdb1hvd.ent 1hvd { ALL 0.47101 0.83819 0.27493 157.34740 -0.46239 0.50003 -0.73223 31.89945 -0.75121 0.21777 0.62312 25.27251 } % Reading block file... Blocfile read: Length: 329 % Searching for STAMP data... % 268459416 STAMP fields found: T P A G % Block file contains 5 sequences; the alignment length is 329 % Cleaning up allowing continuous segments of 3 or greater... % Cleaning done. % The final alignment length is 324 % The alignment: >1axn (cluster A) sequence >1hvd (cluster B) sequence >space >1axn_dssp (cluster A) secondary structure from DSSP >1hvd_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 * S - A - S - I T W T V - GV -- 0 0.04700 2.66152 0.67000 HL S- 0 0.28100 1.67024 3.01000 RR S- 1 0.69400 1.34019 7.14000 GG -- 1 0.90100 0.99779 9.21000 TT SS 1 0.91800 1.04145 9.38000 VV -- 1 0.91800 1.02768 9.38000 RT -- 1 0.88400 1.14551 9.04000 DD -- 1 0.87400 1.18364 8.94000 YF -- 1 0.90400 1.03668 9.24000 PP TT 1 0.86900 1.20320 8.89000 DG TT 1 0.85200 1.25780 8.72000 FF -- 1 0.87100 1.12963 8.91000 SD -- 1 0.85300 1.27064 8.73000 PG HH 1 0.87200 1.25737 8.92000 SR HH 1 0.85600 1.31899 8.76000 VA HH 1 0.87100 1.25759 8.91000 DD HH 1 0.88800 1.16459 9.08000 AA HH 1 0.83900 1.32475 8.59000 EE HH 1 0.81000 1.41551 8.30000 AT HH 1 0.85400 1.29850 8.74000 IL HH 1 0.86300 1.26425 8.83000 QR HH 1 0.80100 1.43180 8.21000 KK HH 1 0.78900 1.46645 8.09000 AA HH 1 0.83400 1.33797 8.54000 IM HH 1 0.84300 1.23475 8.63000 RK SS 1 0.74600 1.55110 7.66000 GG SS 1 0.70100 1.67424 7.21000 IL SS 1 0.72900 1.54884 7.49000 GG SS 1 0.83600 1.23728 8.56000 TT -- 1 0.87500 1.23417 8.95000 DD -- 1 0.84800 1.30951 8.68000 EE HH 1 0.89200 1.11679 9.12000 KE HH 1 0.88900 1.12962 9.09000 MS HH 1 0.88600 1.14458 9.06000 LI HH 1 0.92500 0.95112 9.45000 IL HH 1 0.90600 0.91935 9.26000 ST HH 1 0.84300 1.17566 8.63000 IL HH 1 0.88800 1.00225 9.08000 LL HH 1 0.91900 0.84346 9.39000 TT TH 1 0.94500 0.35981 9.65000 ES TH 1 0.93300 0.40913 9.53000 RR SS 1 0.89900 0.98082 9.19000 SS -- 1 0.90300 1.11143 9.23000 NN HH 1 0.89400 1.12086 9.14000 AA HH 1 0.83100 1.35856 8.51000 QQ HH 1 0.86700 1.26554 8.87000 RR HH 1 0.86900 1.24754 8.89000 QQ HH 1 0.81200 1.43768 8.32000 LE HH 1 0.82400 1.42108 8.44000 II HH 1 0.83500 1.37365 8.55000 VS HH 1 0.77900 1.52852 7.99000 KA HH 1 0.74900 1.59812 7.69000 EA HH 1 0.78000 1.52614 8.00000 YF HH 1 0.76500 1.55748 7.85000 QK HH 1 0.69400 1.70974 7.14000 AT HH 1 0.70300 1.69587 7.23000 AL HH 1 0.72400 1.64973 7.44000 YF HH 1 0.68400 1.73010 7.04000 GG SS 1 0.63300 1.82366 6.53000 KR -- 1 0.64800 1.79697 6.68000 ED -- 1 0.67900 1.72008 6.99000 LL HH 1 0.77800 1.50136 7.98000 KL HH 1 0.82400 1.37349 8.44000 DD HH 1 0.84200 1.32738 8.62000 DD HH 1 0.85200 1.31222 8.72000 LL HH 1 0.88800 1.15588 9.08000 KK HH 1 0.89800 1.10703 9.18000 GS HH 1 0.86000 1.26980 8.80000 DE HH 1 0.88200 1.19719 9.02000 LL -- 1 0.91200 1.06848 9.32000 ST -- 1 0.91000 1.07880 9.30000 GG HH 1 0.92500 0.94871 9.45000 HK HH 1 0.94200 0.77966 9.62000 FF HH 1 0.94600 0.73158 9.66000 EE HH 1 0.93900 0.82797 9.59000 HK HH 1 0.93200 0.89456 9.52000 LL HH 1 0.94700 0.66086 9.67000 MI HH 1 0.94400 0.59220 9.64000 VV HH 1 0.92100 0.93969 9.41000 AA HH 1 0.94200 0.79089 9.62000 LL HH 1 0.93200 0.72471 9.52000 VM HH 1 0.88700 1.09826 9.07000 TK SS 1 0.88100 0.86102 9.01000 PP -- 1 0.79600 1.20472 8.16000 PS HH 1 0.75600 1.40375 7.76000 AR HH 1 0.57900 1.70351 5.99000 VL HH 1 0.76800 1.12682 7.88000 FY HH 1 0.90100 1.06280 9.21000 DD HH 1 0.92900 0.90946 9.49000 AA HH 1 0.90800 1.04625 9.28000 KY HH 1 0.88000 1.19681 9.00000 QE HH 1 0.91500 1.03483 9.35000 LL HH 1 0.89300 1.11527 9.13000 KK HH 1 0.82600 1.35056 8.46000 KH HH 1 0.83300 1.35326 8.53000 SA HH 1 0.82000 1.33262 8.40000 ML HH 1 0.72000 1.54901 7.40000 KK -S 1 0.59300 1.84149 6.13000 GG SS 1 0.65100 1.77502 6.71000 AA SS 1 0.61600 1.74206 6.36000 GG SS 1 0.60000 1.70474 6.20000 TT -- 1 0.77200 1.43878 7.92000 NN -- 1 0.83400 1.38605 8.54000 EE HH 1 0.85600 1.30943 8.76000 DK HH 1 0.82700 1.34389 8.47000 AV HH 1 0.83400 1.28675 8.54000 LL HH 1 0.88900 1.10480 9.09000 IT HH 1 0.91900 1.01107 9.39000 EE HH 1 0.91400 1.01418 9.34000 II HH 1 0.91800 0.95581 9.38000 LI HH 1 0.91700 0.93621 9.37000 TA HH 1 0.90900 0.99987 9.29000 TS HH 1 0.91800 0.98818 9.38000 RR SS 1 0.92400 0.92180 9.44000 TT -- 1 0.91200 1.05236 9.32000 SP HH 1 0.90600 1.11174 9.26000 RE HH 1 0.89500 1.15839 9.15000 QE HH 1 0.90600 1.09236 9.26000 ML HH 1 0.91600 0.99314 9.36000 KR HH 1 0.87900 1.18924 8.99000 DA HH 1 0.85800 1.27804 8.78000 II HH 1 0.89400 1.13726 9.14000 SK HH 1 0.89500 1.12709 9.15000 QQ HH 1 0.83200 1.32275 8.52000 AV HH 1 0.81100 1.38378 8.31000 YY HH 1 0.87300 1.18119 8.93000 YE HH 1 0.84700 1.23577 8.67000 TE HH 1 0.74200 1.54111 7.62000 VE HH 1 0.74100 1.54455 7.61000 YY HH 1 0.83400 1.27081 8.54000 KG SS 1 0.89200 1.10548 9.12000 KS SS 1 0.91300 1.03942 9.33000 SS -- 1 0.89800 1.12067 9.18000 LL HH 1 0.91200 1.05487 9.32000 GE HH 1 0.91500 1.01618 9.35000 DD HH 1 0.87000 1.18959 8.90000 DD HH 1 0.87400 1.16525 8.94000 IV HH 1 0.92000 0.94632 9.40000 SV HH 1 0.91000 0.92655 9.30000 SG HH 1 0.86100 1.22157 8.81000 ED HH 1 0.88700 1.16703 9.07000 TT -- 1 0.88900 1.00513 9.09000 SS -- 1 0.92000 0.65309 9.40000 GG HH 1 0.95500 0.54923 9.75000 DY HH 1 0.95500 0.59458 9.75000 FY HH 1 0.95000 0.54693 9.70000 RQ HH 1 0.93100 0.77314 9.51000 KR HH 1 0.92800 0.89289 9.48000 AM HH 1 0.92800 0.91582 9.48000 LL HH 1 0.90800 1.00507 9.28000 LV HH 1 0.85700 1.22473 8.77000 TV HH 1 0.83400 1.34648 8.54000 LL HH 1 0.84000 1.31928 8.60000 AL HH 1 0.76600 1.50876 7.86000 DQ TT 1 0.71000 1.65962 7.30000 GA T- 1 0.78900 1.50214 8.09000 RN -- 1 0.77800 1.53496 7.98000 RR S- 1 0.68500 1.65121 7.05000 DD -- E - S - LP S- KD -S 0 0.22200 1.84995 2.42000 VA -- 1 0.73100 1.40549 7.51000 DG -- 1 0.78400 1.10714 8.04000 I - D - EE HH 0 0.41900 2.08813 4.39000 HA HH 0 0.28700 2.34074 3.07000 LQ HH 0 0.37000 2.18429 3.90000 AV HH 1 0.54600 1.85325 5.66000 KE HH 1 0.48200 2.03079 5.02000 QQ HH 0 0.39200 2.18379 4.12000 DD HH 1 0.51200 1.97506 5.32000 AA HH 1 0.52400 1.92142 5.44000 QQ HH 0 0.36300 2.22169 3.83000 IA HH 0 0.34700 2.24300 3.67000 LL HH 1 0.44000 2.05571 4.60000 YF HH 0 0.30700 2.27444 3.27000 KQ HH 0 0.15900 2.56742 1.79000 AA HH 0 0.18700 2.49159 2.07000 GG TH 0 0.12300 2.52100 1.43000 EE TH NL TT RK ST WW ST 0 0.00000 3.25846 0.00000 GG S- 0 0.01800 2.38115 0.38000 TT -S 0 0.34800 1.59483 3.68000 DD -- 1 0.75200 1.44756 7.72000 EE HH 1 0.84000 1.02418 8.60000 DE HH 1 0.80500 1.35489 8.25000 KK HH 1 0.78600 1.46064 8.06000 FF HH 1 0.86400 1.19429 8.84000 TI HH 1 0.88100 1.21041 9.01000 ET HH 1 0.84800 1.28475 8.68000 II HH 1 0.78500 1.40099 8.05000 LF HH 1 0.86100 1.06138 8.81000 CG HH 1 0.84200 1.21973 8.62000 LT HH 1 0.77800 1.48686 7.98000 RR SS 1 0.77900 1.52209 7.99000 SS -- 1 0.67500 1.66777 6.95000 FV HH 1 0.79900 1.31578 8.19000 PS HH 1 0.77800 1.43290 7.98000 QH HH 1 0.68200 1.62970 7.02000 LL HH 1 0.80500 1.29229 8.25000 KR HH 1 0.83900 1.10683 8.59000 LK HH 1 0.73800 1.54494 7.58000 TV HH 1 0.72300 1.65067 7.43000 FF HH 1 0.75500 1.54957 7.75000 DD HH 1 0.62100 1.77497 6.41000 EK HH 1 0.49800 2.00947 5.18000 YY HH 1 0.49300 2.03138 5.13000 RM HH 1 0.45000 2.07639 4.70000 NT HH 0 0.32900 2.27253 3.49000 II HH 0 0.24100 2.43180 2.61000 SS HH 0 0.22100 2.46729 2.41000 QG SS 0 0.20800 2.47481 2.28000 KF SS 0 0.24500 2.37974 2.65000 DQ -- 0 0.42400 2.04535 4.44000 II HH 1 0.52400 1.87435 5.44000 VE HH 1 0.54700 1.79489 5.67000 DE HH 0 0.33800 2.18524 3.58000 ST HH 0 0.29500 2.30744 3.15000 II HH 0 0.35200 2.12253 3.72000 KD H- GR H- EE HS LT -S SS -S 0 0.00000 2.75919 0.00000 GG H- 0 0.21100 1.26530 2.31000 HN HH 1 0.87500 1.08329 8.95000 FL HH 1 0.90800 0.84772 9.28000 EE HH 1 0.88100 1.15229 9.01000 DQ HH 1 0.87600 1.14667 8.96000 LL HH 1 0.90600 0.80394 9.26000 LL HH 1 0.86800 1.01342 8.88000 LL HH 1 0.84900 1.18361 8.69000 AA HH 1 0.89500 1.02742 9.15000 IV HH 1 0.92500 0.83460 9.45000 VV HH 1 0.93600 0.84716 9.56000 NK HH 1 0.91700 0.96317 9.37000 CS HH 1 0.90500 1.01030 9.25000 VI HH 1 0.88700 1.11865 9.07000 RR HH 1 0.85000 1.08658 8.70000 NS H- 1 0.73800 1.52427 7.58000 TI HH 1 0.81700 1.40962 8.37000 PP HH 1 0.84400 1.31706 8.64000 AA HH 1 0.81600 1.40706 8.36000 FY HH 1 0.87500 1.21872 8.95000 LL HH 1 0.89100 1.17988 9.11000 AA HH 1 0.88000 1.22420 9.00000 EE HH 1 0.87400 1.22203 8.94000 RT HH 1 0.91500 1.00284 9.35000 LL HH 1 0.91700 1.02059 9.37000 HY HH 1 0.89000 1.15462 9.10000 RY HH 1 0.88400 1.18229 9.04000 AA HH 1 0.90600 1.04756 9.26000 LM HH 1 0.88500 0.95992 9.05000 KK SS 1 0.75600 1.37482 7.76000 GG SS 1 0.79500 1.34892 8.15000 IA SS 1 0.81800 1.40189 8.38000 GG SS 1 0.84900 1.18707 8.69000 TT -- 1 0.89300 1.01806 9.13000 DD -- 1 0.91700 1.01617 9.37000 ED HH 1 0.92700 0.85878 9.47000 FH HH 1 0.94100 0.50579 9.61000 TT HH 1 0.94100 0.70899 9.61000 LL HH 1 0.94900 0.64184 9.69000 NI HH 1 0.95600 0.39305 9.76000 RR HH 1 0.94800 0.50279 9.68000 IV HH 1 0.93500 0.81949 9.55000 MM HH 1 0.93600 0.81164 9.56000 VV HH 1 0.93800 0.75600 9.58000 SS HH 1 0.92600 0.90183 9.46000 RR HH 1 0.90500 1.07931 9.25000 SS TT 1 0.91500 1.06686 9.35000 EE TT 1 0.90300 1.09766 9.23000 II TT 1 0.86700 1.25877 8.87000 DD TT 1 0.86900 1.27056 8.89000 LL HH 1 0.89400 1.17146 9.14000 LF HH 1 0.88000 1.20342 9.00000 DN HH 1 0.82800 1.37786 8.48000 II HH 1 0.86900 1.25715 8.89000 RR HH 1 0.87600 1.23941 8.96000 TK HH 1 0.84000 1.37039 8.60000 EE HH 1 0.82700 1.41446 8.47000 FF HH 1 0.84700 1.34558 8.67000 KR HH 1 0.82100 1.41841 8.41000 KK HH 1 0.77900 1.52039 7.99000 HN HH 1 0.72500 1.64823 7.45000 YF HH 1 0.73800 1.62965 7.58000 GA SS 1 0.77300 1.52409 7.93000 YT SS 1 0.81800 1.38303 8.38000 SS -- 1 0.86000 1.27039 8.80000 LL HH 1 0.89600 1.14178 9.16000 YY HH 1 0.91400 1.00390 9.34000 SS HH 1 0.88400 1.18083 9.04000 AM HH 1 0.91000 1.07265 9.30000 II HH 1 0.91200 1.07586 9.32000 KK HH 1 0.90500 1.10676 9.25000 SG HH 1 0.90800 1.07038 9.28000 DD HH 1 0.87200 1.22137 8.92000 TT -- 1 0.90500 1.00942 9.25000 SS -- 1 0.92800 0.88316 9.48000 GG HH 1 0.93000 0.92819 9.50000 DD HH 1 0.93300 0.86832 9.53000 YY HH 1 0.94800 0.67477 9.68000 EK HH 1 0.94500 0.73909 9.65000 IK HH 1 0.94900 0.61297 9.69000 TA HH 1 0.94900 0.64860 9.69000 LL HH 1 0.94900 0.63916 9.69000 LL HH 1 0.94800 0.67370 9.68000 KL HH 1 0.95000 0.64044 9.70000 IL HH 1 0.94600 0.70728 9.66000 C H G - G S D - *