% ALIGN_CLEAN, R.B. Russell, 1995 % Searching for domain descriptors... % 2 domain descriptions read in /disk3/pdb/pdb1rcd.ent 1rcd { ALL 0.68979 -0.72383 -0.01738 54.34068 0.72395 0.68906 0.03359 51.59612 -0.01235 -0.03576 0.99928 -0.69031 } /disk3/pdb/pdb1rib.ent 1riba { CHAIN A -0.93145 -0.34021 0.12906 193.25885 -0.27904 0.89547 0.34679 -35.64823 -0.23354 0.28701 -0.92903 75.45180 } % Reading block file... Blocfile read: Length: 351 % Searching for STAMP data... % 268459416 STAMP fields found: T P A G % Block file contains 5 sequences; the alignment length is 351 % Cleaning up allowing continuous segments of 3 or greater... % Cleaning done. % The final alignment length is 350 % The alignment: >1rcd (cluster A) sequence >1riba (cluster B) sequence >space >1rcd_dssp (cluster A) secondary structure from DSSP >1riba_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 - Y - T - T S F S S - A - T S K - N - D - Q T L T K S E S P - M S F B F S G S Q S P - V - Q - V S A - R - Y - D S Q - Q - K S Y - D H I H F H E H K H L H I H E H K H Q H L H S H F T F - W - R - P G E G E G V S SD -- 0 0.00000 0.00000 0.00000 QV T- 0 0.00000 0.00000 0.00000 VS TH 0 0.00400 2.38499 0.24000 R H D H RR -H 0 0.15100 1.68253 1.71000 QI -H 1 0.79500 1.37051 8.15000 ND SH 1 0.78900 1.36059 8.09000 FY -H Q H A T L S P - E H H H E H HK -H QH HH 0 0.14900 2.49494 1.69000 DI HH 0 0.35100 2.08492 3.71000 CF HH 1 0.57400 1.76284 5.94000 EI HH 0 0.39500 2.11868 4.15000 AS HH 0 0.33300 2.19946 3.53000 GN HH 1 0.54900 1.81640 5.69000 LL HH 1 0.69500 1.60434 7.15000 NK HH 1 0.52700 1.88279 5.47000 RY HH 1 0.48100 1.91845 5.01000 TQ HH 1 0.68000 1.51063 7.00000 VT HH 1 0.79600 1.22603 8.16000 NL HH 1 0.72400 1.53527 7.44000 LL HH 1 0.68000 1.65386 7.00000 KD HH 1 0.79200 1.39711 8.12000 FS HH 1 0.79400 1.14051 8.14000 HI HH 1 0.58500 1.73644 6.05000 SQ HH 1 0.57800 1.80144 5.98000 SG HH 1 0.54200 1.77287 5.62000 YR HH 0 0.34700 2.16960 3.67000 VS HH 0 0.41200 2.04033 4.32000 Y H L H S H MP HH 0 0.26600 2.32631 2.86000 AN HH 1 0.43800 1.97962 4.58000 SV HH 1 0.56300 1.81785 5.83000 YA HH 1 0.47400 2.03927 4.94000 FL HT 0 0.38000 2.13369 4.00000 NL TG 0 0.16100 2.48259 1.81000 R S D T D T VP TG 0 0.00000 2.74932 0.00000 AL -G 0 0.26700 2.07640 2.87000 LI -B 0 0.16800 1.81432 1.88000 S - I S SP HH NE HH 0 0.08300 2.74147 1.03000 FL HH 0 0.17900 2.51892 1.99000 AE HH 0 0.17300 2.53178 1.93000 KT HH 0 0.23800 2.41241 2.58000 FW HH 0 0.35300 2.20149 3.73000 FV HH 1 0.43800 2.07545 4.58000 RE HH 0 0.40400 2.16833 4.24000 ET HH 1 0.46900 2.05179 4.89000 RW HH 1 0.59900 1.85187 6.19000 SA HH 1 0.63700 1.81057 6.57000 EF HH 1 0.63100 1.80358 6.51000 ES HH 1 0.69500 1.62500 7.15000 EE HH 1 0.77300 1.44904 7.93000 KT HH 1 0.70100 1.65384 7.21000 EI HH 1 0.67900 1.54496 6.99000 HH HH 1 0.82200 0.83265 8.42000 AS HH 1 0.83400 1.09469 8.54000 ER HH 1 0.75400 1.25187 7.74000 KS HH 1 0.75000 1.18266 7.70000 LY HH 1 0.76300 1.21077 7.83000 IT HH 1 0.86900 0.96026 8.89000 EH HH 1 0.81800 1.04205 8.38000 YI HH 1 0.63200 1.55327 6.52000 QI HH 1 0.68600 1.60915 7.06000 NR HH 1 0.65100 1.60561 6.71000 Q H RN HH 0 0.32200 1.92680 3.42000 GI TH 1 0.48600 1.86729 5.06000 GV -S 1 0.53500 1.59674 5.55000 RN -S VD -- FP -H S H V H V H F H D H D H I H V H T H N - E H Q H I H LQ -H QK -H SR -H VA -T 0 0.00000 3.21835 0.00000 EE -T 0 0.02500 2.92377 0.45000 KG -T 0 0.00000 2.97306 0.11000 PI -H S H S H EY SH RY -H 0 0.19900 2.13974 2.19000 DD SH 1 0.51200 1.43710 5.32000 DE -H 1 0.46300 1.56286 4.83000 L H I H E H M H T H S H Y H W H H H L H L H G - E S G E T E H E T E V E N T G T K E T E V E T E V E S - L H R H E H L H WK -H AK -H 0 0.12300 2.02772 1.43000 NK SH 0 0.39700 2.02665 4.17000 GL HH 1 0.49200 1.95774 5.12000 LY HH 1 0.66900 1.56423 6.89000 EL HH 1 0.73200 1.51566 7.52000 AC HH 1 0.71000 1.62697 7.30000 LL HH 1 0.77900 1.40031 7.99000 QM HH 1 0.86000 1.13337 8.80000 TS HH 1 0.81300 1.35304 8.33000 AV HH 1 0.86200 1.10240 8.82000 LN HH 1 0.89100 0.61235 9.11000 KA HH 1 0.86300 1.09491 8.83000 LL HH 1 0.83200 1.28259 8.52000 E H QA HH 0 0.19600 2.06456 2.16000 KI HT 1 0.57400 1.58485 5.94000 SR HH 1 0.77200 1.06735 7.92000 VF HH 1 0.74800 1.43368 7.68000 NY HH 1 0.66800 1.61852 6.88000 QV HH 1 0.73000 1.39368 7.50000 AS HH 1 0.78100 1.24607 8.01000 LF HH 1 0.74500 1.49315 7.65000 LA HH 1 0.68500 1.50874 7.05000 DC HH 1 0.73900 1.33985 7.59000 LS HH 1 0.75800 1.44772 7.78000 HF HH 1 0.74500 1.46216 7.65000 AA HH 1 0.70900 1.34850 7.29000 VF HH 1 0.43900 1.89600 4.59000 AA HH 0 0.40700 1.99117 4.27000 AE HH DR HT KE TT SL T- 0 0.21800 1.66437 2.38000 DM -- 1 0.65700 1.72345 6.77000 PE HH 1 0.68100 1.71069 7.01000 HG HH 1 0.65500 1.76213 6.75000 MN HH 1 0.71000 1.60814 7.30000 TA HH 1 0.77600 1.45072 7.96000 DK HH 1 0.71300 1.57638 7.33000 FI HH 1 0.69100 1.55895 7.11000 LI HH 1 0.83600 1.16244 8.56000 E H SR TH 1 0.49200 1.77168 5.12000 PL TH 1 0.75400 1.17586 7.74000 YI HH 1 0.90600 0.83937 9.26000 LA HH 1 0.90700 0.99733 9.27000 SR HH 1 0.90100 1.06961 9.21000 ED HH 1 0.90500 1.10614 9.25000 SE HH 1 0.89500 1.13633 9.15000 VA HH 1 0.81900 1.28991 8.39000 EL HH 1 0.76500 1.45310 7.85000 TH HH 1 0.85100 1.26235 8.71000 IL HH 1 0.88400 1.08213 9.04000 KT HH 1 0.80400 1.37051 8.24000 KG HH 1 0.75500 1.48626 7.75000 LT HH 1 0.83400 1.21044 8.54000 GQ HH 1 0.88700 0.97268 9.07000 DH HH 1 0.84500 1.26333 8.65000 HM HH 1 0.83500 1.26703 8.55000 IL HH 1 0.90500 0.89874 9.25000 TN HH 1 0.94200 0.72722 9.62000 SL HH 1 0.92200 0.78705 9.42000 LL HH 1 0.88100 1.07195 9.01000 KR HH 1 0.89700 1.03276 9.17000 S H G T KA HS 0 0.15100 2.20336 1.71000 LD HS 0 0.34600 1.89083 3.66000 WD H- 0 0.29500 2.25003 3.15000 SP TH S T H - P H GE HH MM HH 0 0.00000 2.80695 0.06000 AA HH 0 0.00000 3.13457 0.00000 EE HH 0 0.36400 1.98854 3.84000 YI HH 0 0.30600 2.21313 3.26000 LA HH 0 0.00000 4.93353 0.13000 FE HH 1 0.45600 1.94279 4.76000 NE HH 0 0.27600 2.09659 2.96000 KC HT 0 0.23900 2.37042 2.59000 HK HH 0 0.22300 5.11251 2.43000 TQ TH 0 0.29000 2.01650 3.10000 LE -H 0 0.18200 2.01733 2.02000 C H Y H D H L H F H V H Q H A H A H Q H Q H E H K H D H W H A H D H Y H L H F T R T D T G - S - M B I T G T L B N - K H D H I H L H C H Q H Y H V H E H Y H I H T H N H I H R H M H Q H A H V T G T L - D - L - P - F S N - T - R - S - N - P S I - P G W G I G N G T G W G L - *