% ALIGN_CLEAN, R.B. Russell, 1995 % Searching for domain descriptors... % 2 domain descriptions read in /disk3/pdb/pdb9rnt.ent 9rnt { ALL -0.46989 -0.25215 -0.84594 24.78950 0.62537 0.58127 -0.52064 -21.52274 0.62299 -0.77365 -0.11545 -5.93326 } /disk3/pdb/pdb1gmp.ent 1gmpa { CHAIN A -0.68249 0.70380 0.19736 40.65101 -0.02281 -0.29038 0.95665 -17.68623 0.73055 0.64836 0.21425 -57.93958 } % Reading block file... Blocfile read: Length: 123 % Searching for STAMP data... % 268459416 STAMP fields found: T P A G % Block file contains 5 sequences; the alignment length is 123 % Cleaning up allowing continuous segments of 3 or greater... % Cleaning done. % The final alignment length is 118 % The alignment: >9rnt (cluster A) sequence >1gmpa (cluster B) sequence >space >9rnt_dssp (cluster A) secondary structure from DSSP >1gmpa_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 * D - V - S - G - T E V E C E AL -G 0 0.00000 0.00000 0.00000 CS -G 0 0.00000 0.00000 0.00000 DA SG 0 0.16000 2.02594 1.80000 Y E T E C E G T S T N E C E Y E SL -S SP H- 0 0.00000 2.68283 0.13000 SP HH 0 0.21200 2.36737 2.32000 DE HH 0 0.30800 2.13267 3.28000 VA HH 1 0.55700 1.70746 5.77000 ST HH 1 0.46100 1.94136 4.81000 TD HH 1 0.47200 1.78243 4.92000 AT HH 1 0.68800 1.22145 7.08000 QL HH 1 0.76300 1.35841 7.83000 AN HH 1 0.65100 1.56581 6.71000 AL HH 1 0.70400 0.96118 7.24000 GI HH 1 0.44900 1.70646 4.69000 YA HH 0 0.33300 2.05232 3.53000 KS HT 1 0.57400 1.60568 5.94000 L H H H E H DD TT GG T- 0 0.00200 2.82614 0.22000 EP -- 0 0.18600 2.42252 2.06000 TF -- 0 0.30200 2.28277 3.22000 VP BS 1 0.44000 2.01122 4.60000 GY TS 1 0.49900 1.54083 5.19000 S T NS TT 0 0.17300 2.05442 1.93000 SQ TT 1 0.51000 1.66114 5.30000 YD BT 1 0.71300 1.13519 7.33000 PG ST 1 0.72900 1.37423 7.49000 HV E- 1 0.84400 1.02119 8.64000 KV EB 1 0.92300 0.93386 9.43000 YF E- 1 0.93800 0.70716 9.58000 NQ -- 1 0.92700 0.79826 9.47000 NN -- 1 0.92100 0.73798 9.41000 YR TT 1 0.89100 1.02813 9.11000 EE TT 1 0.90900 0.98640 9.29000 GS -- 1 0.90300 0.95274 9.23000 FV -- 1 0.74300 1.15330 7.63000 DL -S 1 0.49900 1.81815 5.19000 FP -- ST S- Q - VS S- SY -T SG ST 0 0.01800 2.41841 0.38000 PY -S 0 0.32400 0.93032 3.44000 YY E- 1 0.92800 0.89859 9.48000 YH EE 1 0.92900 0.86551 9.49000 EE EE 1 0.94400 0.71792 9.64000 WY EE 1 0.94100 0.71118 9.61000 PT EE 1 0.92400 0.90900 9.44000 IV -- 1 0.88900 0.89969 9.09000 LI -- 1 0.73100 1.40037 7.51000 ST T- 1 0.56500 1.76136 5.85000 SP TT G S D - V - Y - SG -T GA S- 0 0.00000 3.39079 0.00000 GR SS 0 0.00400 2.61220 0.24000 ST -S 0 0.31300 1.75504 3.33000 PR -- 1 0.80000 1.35066 8.20000 GG -T 1 0.78900 1.27972 8.09000 AT ST 1 0.77300 1.27732 7.93000 DR E- 1 0.88300 1.04822 9.03000 RR EE 1 0.93600 0.68907 9.56000 VI EE 1 0.94200 0.79039 9.62000 VI EE 1 0.94600 0.63195 9.66000 FC EE 1 0.84900 0.88347 8.69000 NG E- 1 0.67700 1.51353 6.97000 E S EA TS 0 0.01900 2.54762 0.39000 NT TT 0 0.32400 2.14592 3.44000 NQ ST 0 0.16400 2.28224 1.84000 QE -- 0 0.35000 1.54343 3.70000 L E AD EE 0 0.31500 1.85427 3.35000 GY EE 1 0.74500 1.26144 7.65000 VY EE 1 0.81900 1.26456 8.39000 IT EE T E H S T T G T A S S S GG TS ND TS NH -T 0 0.00000 2.62104 0.03000 FY -T 0 0.31600 1.71069 3.36000 VA ES 1 0.76100 0.75840 7.81000 ET E- 1 0.46800 1.09331 4.88000 CF -- 0 0.12700 2.17115 1.47000 S E L E I E D E Q T T T *