% ALIGN_CLEAN, R.B. Russell, 1995 % Searching for domain descriptors... % 2 domain descriptions read in /disk3/pdb/pdb1hdc.ent 1hdca { CHAIN A -0.14020 0.24592 0.95907 44.49987 -0.97814 -0.18450 -0.09570 54.59922 0.15336 -0.95163 0.26645 71.78275 } /disk3/pdb/pdb2dld.ent 2dlda.2 { A 104 _ to A 300 _ -0.09845 -0.71740 -0.68968 67.78431 0.91977 -0.33020 0.21215 66.51940 -0.37994 -0.61352 0.69234 74.24331 } % Reading block file... Blocfile read: Length: 321 % Searching for STAMP data... % 268459416 STAMP fields found: T P A G % Block file contains 5 sequences; the alignment length is 321 % Cleaning up allowing continuous segments of 3 or greater... % Cleaning done. % The final alignment length is 290 % The alignment: >1hdca (cluster A) sequence >2dlda.2 (cluster B) sequence >space >1hdca_dssp (cluster A) secondary structure from DSSP >2dlda.2_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 * P H N H A H I H A H E H H H A H A H I H Q H A H A H R H V H L H R H Q T D H K H R H M H D H E H K H M H A H K T R T D B L - R - W - A S P S T - I - NG -B DR -- 0 0.00000 2.91884 0.09000 LE -- 0 0.15100 1.99449 1.71000 SV -G 1 0.62900 1.08886 6.49000 R G GD -G 1 0.56600 1.54728 5.86000 KQ SS 1 0.70300 1.47768 7.23000 TV EE 1 0.82100 1.15412 8.41000 VV EE 1 0.78700 1.39222 8.07000 IG EE 1 0.83600 1.22678 8.56000 IV EE 1 0.85900 1.13422 8.79000 TV EE 1 0.90800 1.01563 9.28000 G T GG T- 1 0.43700 1.69713 4.57000 AT T- 1 0.78100 0.99913 8.01000 RG SS 1 0.67300 0.78123 6.93000 GH HH 0 0.41200 1.89792 4.32000 LI HH 1 0.58600 1.83725 6.06000 GG HH 1 0.72900 1.56216 7.49000 AQ HH 1 0.78600 1.50903 8.06000 EV HH 1 0.71600 1.59584 7.36000 AF HH 1 0.77000 1.37885 7.90000 AM HH 1 0.83300 1.27650 8.53000 RR HH 1 0.85500 1.26194 8.75000 QI HH 1 0.91200 0.98735 9.32000 AM HH 1 0.92500 0.94962 9.45000 VE HH 1 0.90100 1.05463 9.21000 AG HH 1 0.91700 0.94680 9.37000 AF TH 1 0.90100 1.05886 9.21000 GG TT 1 0.86400 1.14906 8.84000 AA -- 1 0.88100 0.94526 9.01000 RK EE 1 0.91700 0.62959 9.37000 VV EE 1 0.93200 0.75768 9.52000 VI EE 1 0.92600 0.85801 9.46000 LA EE 1 0.91100 1.00749 9.31000 AY EE 1 0.92100 0.90106 9.41000 DD E- 1 0.90200 1.03403 9.22000 VI SS 1 0.90600 0.97924 9.26000 LF -S 1 0.78900 1.17855 8.09000 D H E H EK H- 0 0.05800 2.36741 0.78000 GN H- 1 0.43400 1.78856 4.54000 AP HT 1 0.47200 1.84206 4.92000 AE HT 1 0.55500 1.45405 5.75000 TL HG 1 0.47000 1.92728 4.90000 AE HG 0 0.29900 2.27837 3.19000 RK HG E T L T G G D G AK GG AG ET 0 0.00400 2.46592 0.24000 RY E- 0 0.28500 0.85200 3.05000 YY EB 1 0.74700 1.30801 7.67000 QV E- 1 0.45900 1.73691 4.79000 HD ES 0 0.25000 2.27067 2.70000 L - D - V T T T I - E H E H DS H- 0 0.10100 1.86213 1.21000 WL HH 1 0.54900 1.70428 5.69000 QD HH 1 0.62700 1.71929 6.47000 RD HH 1 0.50800 1.98648 5.28000 VL HH 0 0.39200 2.06016 4.12000 VY HT 0 0.25100 2.19170 2.71000 A H Y H A H R H E H E H F H GK ST 0 0.00000 3.29970 0.00000 SQ -T 0 0.03700 2.12513 0.57000 VA -- 1 0.49000 1.84776 5.10000 DD -S 1 0.72900 1.45086 7.49000 GV EE 1 0.77400 1.46879 7.94000 LI EE 1 0.79900 1.46133 8.19000 VS EE 1 0.74600 1.46698 7.66000 NL EE 1 0.57300 1.82529 5.93000 NH -- 1 0.57300 1.86854 5.93000 AV -S 1 0.65900 1.74013 6.79000 GP -- 1 0.50900 1.90067 5.29000 ID -- 0 0.19600 1.28463 2.16000 SV -- T - G - M S F - L G E G T G E S S - V H E H R H F H R H K H V H VP HT EA HT 0 0.22500 2.14623 2.45000 IN HT 1 0.50100 1.03738 5.21000 NV HT 1 0.59000 1.57026 6.10000 LH TT TM H- GI HB VN HS 0 0.21900 2.25604 2.39000 FD HH 0 0.38400 2.17282 4.04000 IK HH 0 0.42800 2.06124 4.48000 GS HH 1 0.51900 1.82878 5.39000 MI HH 1 0.72000 1.36332 7.40000 KA HT 1 0.71800 1.54027 7.38000 TE HT 1 0.78100 1.38670 8.01000 VM HS I H P H A H M H K H D H AK H- GD TT 0 0.14400 2.48822 1.64000 GG -T 0 0.34200 1.97278 3.62000 GV EE 1 0.46400 1.86590 4.84000 SV EE 1 0.67000 1.46192 6.90000 II EE 1 0.65600 1.67896 6.76000 VV EE 1 0.68000 1.62587 7.00000 NN EE 1 0.50300 1.93807 5.23000 IC E- 0 0.30500 1.97632 3.25000 SS -S 0 0.05700 2.40910 0.77000 S - A G A G G G L T M S G - L - A T L T T - S H S H YR H- 0 0.00000 2.56209 0.06000 GG HG 0 0.17500 2.49184 1.95000 AR HG 0 0.26500 2.39068 2.85000 SL HG 0 0.15700 2.37059 1.77000 K H W H GV HB 0 0.10500 2.30262 1.25000 VD H- 1 0.52600 1.83022 5.46000 RT HH 1 0.60800 1.85565 6.28000 GD HH 1 0.64000 1.75400 6.60000 LA HH 1 0.77100 1.48612 7.91000 SV HH 1 0.80400 1.40544 8.24000 KI HH 1 0.78600 1.31017 8.06000 LR HH 1 0.79500 1.21250 8.15000 AG HH 1 0.88200 0.93122 9.02000 AL HH 1 0.91400 0.88909 9.34000 VD HH 1 0.88000 0.92335 9.00000 ES HH 1 0.79900 1.17254 8.19000 L H G G T G D G RG TT 0 0.13300 2.51623 1.53000 IK ES 0 0.38500 2.05490 4.05000 RI EE 0 0.39500 1.87143 4.15000 VF EE 0 0.33500 2.06916 3.55000 NG EE 1 0.54400 1.96989 5.64000 SF EE 1 0.50700 1.97175 5.27000 VV EE 1 0.60400 1.71816 6.24000 HM EE 1 0.55900 1.82300 5.79000 PD ES 0 0.28400 1.83967 3.04000 GT -- MY S- TE BS YD -T TE -H PV HH MG HH TV HH AF HT EN HT TK HS GD TB IW -- RE -T QG -T G S E T G T N S Y - P T N T T S P T M T G S R S V - G B E - P H G H E H I H A H GK HS AE H- VF H- VP H- KD H- LK HH LR HH SL SH DA GH TD GH SL GH SI TH YD TH VR -- TP -T GN ST 0 0.03900 2.24733 0.59000 AV -E 1 0.46300 1.28037 4.83000 EL EE 1 0.48200 1.86943 5.02000 LV EE AT E- VP ES DH SS GT T- GA TT W T T T T T G S P - T - V H K H Y H V H M H G - *