HEADER HYDROLASE 17-OCT-17 5YL7 TITLE PROTEASES FROM PSEUDOALTEROMONAS ARCTICA PAMC 21717 (PRO21717) COMPND MOL_ID: 1; COMPND 2 MOLECULE: PSEUDOALTEROMONAS ARCTICA PAMC 21717; COMPND 3 CHAIN: A; COMPND 4 ENGINEERED: YES; COMPND 5 OTHER_DETAILS: CATALYTIC DOMAIN OF PROTEASE FROM THE PSYCHROPHILIC COMPND 6 BACTERIUM; COMPND 7 MOL_ID: 2; COMPND 8 MOLECULE: COPURIFIED UNKNOWN PEPTIDE; COMPND 9 CHAIN: B SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: PSEUDOALTEROMONAS ARCTICA; SOURCE 3 ORGANISM_TAXID: 394751; SOURCE 4 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 5 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 6 MOL_ID: 2; SOURCE 7 ORGANISM_SCIENTIFIC: PSEUDOALTEROMONAS ARCTICA; SOURCE 8 ORGANISM_TAXID: 394751 KEYWDS SERINE PROTEASE, PSYCHROPHILIC BACTERIUM, PSEUDOALTEROMONAS ARCTICA, KEYWDS 2 HYDROLASE EXPDTA X-RAY DIFFRACTION AUTHOR J.H.LEE,C.W.LEE REVDAT 2 12-SEP-18 5YL7 1 JRNL REVDAT 1 31-JAN-18 5YL7 0 JRNL AUTH H.J.PARK,C.W.LEE,D.KIM,H.DO,S.J.HAN,J.E.KIM,B.H.KOO,J.H.LEE, JRNL AUTH 2 J.H.YIM JRNL TITL CRYSTAL STRUCTURE OF A COLD-ACTIVE PROTEASE (PRO21717) FROM JRNL TITL 2 THE PSYCHROPHILIC BACTERIUM, PSEUDOALTEROMONAS ARCTICA PAMC JRNL TITL 3 21717, AT 1.4 ANGSTROM RESOLUTION: STRUCTURAL ADAPTATIONS TO JRNL TITL 4 COLD AND FUNCTIONAL ANALYSIS OF A LAUNDRY DETERGENT ENZYME JRNL REF PLOS ONE V. 13 91740 2018 JRNL REFN ESSN 1932-6203 JRNL PMID 29466378 JRNL DOI 10.1371/JOURNAL.PONE.0191740 REMARK 2 REMARK 2 RESOLUTION. 1.40 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.8.0158 REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN REMARK 3 REMARK 3 REFINEMENT TARGET : MAXIMUM LIKELIHOOD REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.40 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 30.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 97.9 REMARK 3 NUMBER OF REFLECTIONS : 55253 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 CROSS-VALIDATION METHOD : THROUGHOUT REMARK 3 FREE R VALUE TEST SET SELECTION : RANDOM REMARK 3 R VALUE (WORKING + TEST SET) : 0.131 REMARK 3 R VALUE (WORKING SET) : 0.130 REMARK 3 FREE R VALUE : 0.155 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 2939 REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 20 REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 1.40 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.44 REMARK 3 REFLECTION IN BIN (WORKING SET) : 4008 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 97.16 REMARK 3 BIN R VALUE (WORKING SET) : 0.1370 REMARK 3 BIN FREE R VALUE SET COUNT : 207 REMARK 3 BIN FREE R VALUE : 0.1610 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2386 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 4 REMARK 3 SOLVENT ATOMS : 595 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 10.62 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.01000 REMARK 3 B22 (A**2) : 0.00000 REMARK 3 B33 (A**2) : -0.01000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 0.00000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.049 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.052 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.025 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 0.587 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.970 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.958 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 2431 ; 0.028 ; 0.019 REMARK 3 BOND LENGTHS OTHERS (A): 2070 ; 0.002 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 3328 ; 2.371 ; 1.924 REMARK 3 BOND ANGLES OTHERS (DEGREES): 4818 ; 1.160 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 340 ; 6.349 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 100 ;37.183 ;25.800 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 309 ;11.094 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 9 ;12.009 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 377 ; 0.142 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 2892 ; 0.014 ; 0.021 REMARK 3 GENERAL PLANES OTHERS (A): 458 ; 0.002 ; 0.020 REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) OTHERS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 MAIN-CHAIN BOND REFINED ATOMS (A**2): 1366 ; 1.075 ; 0.771 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 1365 ; 1.072 ; 0.770 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 1704 ; 1.516 ; 1.159 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): 1705 ; 1.516 ; 1.160 REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1065 ; 2.194 ; 0.899 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): 1066 ; 2.193 ; 0.900 REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): 1625 ; 3.010 ; 1.297 REMARK 3 LONG RANGE B REFINED ATOMS (A**2): 3169 ;16.796 ;14.146 REMARK 3 LONG RANGE B OTHER ATOMS (A**2): 2885 ;13.404 ;11.415 REMARK 3 REMARK 3 ANISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 RIGID-BOND RESTRAINTS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; FREE ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; BONDED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 NCS RESTRAINTS STATISTICS REMARK 3 NUMBER OF DIFFERENT NCS GROUPS : NULL REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : NULL REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : MASK REMARK 3 PARAMETERS FOR MASK CALCULATION REMARK 3 VDW PROBE RADIUS : 1.20 REMARK 3 ION PROBE RADIUS : 0.80 REMARK 3 SHRINKAGE RADIUS : 0.80 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: HYDROGENS HAVE BEEN ADDED IN THE RIDING REMARK 3 POSITIONS REMARK 4 REMARK 4 5YL7 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 19-OCT-17. REMARK 100 THE DEPOSITION ID IS D_1300005475. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 22-MAY-14 REMARK 200 TEMPERATURE (KELVIN) : 200 REMARK 200 PH : NULL REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : PAL/PLS REMARK 200 BEAMLINE : 7A (6B, 6C1) REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.97934 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 270 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : NULL REMARK 200 DATA SCALING SOFTWARE : NULL REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 58245 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.400 REMARK 200 RESOLUTION RANGE LOW (A) : 30.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 98.0 REMARK 200 DATA REDUNDANCY : 13.80 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 69.0000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : NULL REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : NULL REMARK 200 COMPLETENESS FOR SHELL (%) : NULL REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : NULL REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: NULL REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 41.82 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.11 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.16M MAGNESIUM CHLORIDE, 0.08M TRIS REMARK 280 -HCL BUFFER PH 8.5, 24% PEG4000, 20% GLYCEROL, VAPOR DIFFUSION, REMARK 280 SITTING DROP, TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 21 21 21 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X+1/2,-Y,Z+1/2 REMARK 290 3555 -X,Y+1/2,-Z+1/2 REMARK 290 4555 X+1/2,-Y+1/2,-Z REMARK 290 REMARK 290 WHERE NNN -> OPERATOR NUMBER REMARK 290 MMM -> TRANSLATION VECTOR REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY TRANSFORMATIONS REMARK 290 THE FOLLOWING TRANSFORMATIONS OPERATE ON THE ATOM/HETATM REMARK 290 RECORDS IN THIS ENTRY TO PRODUCE CRYSTALLOGRAPHICALLY REMARK 290 RELATED MOLECULES. REMARK 290 SMTRY1 1 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 1 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 1 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 2 -1.000000 0.000000 0.000000 23.97400 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 41.50600 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 37.28100 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 41.50600 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 23.97400 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 37.28100 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1 REMARK 300 SEE REMARK 350 FOR THE AUTHOR PROVIDED AND/OR PROGRAM REMARK 300 GENERATED ASSEMBLY INFORMATION FOR THE STRUCTURE IN REMARK 300 THIS ENTRY. THE REMARK MAY ALSO PROVIDE INFORMATION ON REMARK 300 BURIED SURFACE AREA. REMARK 350 REMARK 350 COORDINATES FOR A COMPLETE MULTIMER REPRESENTING THE KNOWN REMARK 350 BIOLOGICALLY SIGNIFICANT OLIGOMERIZATION STATE OF THE REMARK 350 MOLECULE CAN BE GENERATED BY APPLYING BIOMT TRANSFORMATIONS REMARK 350 GIVEN BELOW. BOTH NON-CRYSTALLOGRAPHIC AND REMARK 350 CRYSTALLOGRAPHIC OPERATIONS ARE GIVEN. REMARK 350 REMARK 350 BIOMOLECULE: 1 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 720 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 11700 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -38.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 465 REMARK 465 MISSING RESIDUES REMARK 465 THE FOLLOWING RESIDUES WERE NOT LOCATED IN THE REMARK 465 EXPERIMENT. (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 465 IDENTIFIER; SSSEQ=SEQUENCE NUMBER; I=INSERTION CODE.) REMARK 465 REMARK 465 M RES C SSSEQI REMARK 465 LYS A 484 REMARK 465 GLY A 485 REMARK 465 HIS A 486 REMARK 465 HIS A 487 REMARK 465 HIS A 488 REMARK 465 HIS A 489 REMARK 465 HIS A 490 REMARK 465 HIS A 491 REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS IN SAME ASYMMETRIC UNIT REMARK 500 REMARK 500 THE FOLLOWING ATOMS ARE IN CLOSE CONTACT. REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI DISTANCE REMARK 500 O HOH A 968 O HOH A 1295 1.05 REMARK 500 O HOH A 941 O HOH A 1161 1.18 REMARK 500 O HOH A 924 O HOH A 1155 1.24 REMARK 500 O HOH A 1107 O HOH A 1143 1.26 REMARK 500 O HOH A 966 O HOH A 1050 1.32 REMARK 500 O HOH A 960 O HOH A 1067 1.33 REMARK 500 O HOH A 1100 O HOH A 1195 1.34 REMARK 500 O HOH A 1240 O HOH A 1327 1.35 REMARK 500 O HOH A 954 O HOH A 1011 1.36 REMARK 500 O HOH A 1125 O HOH A 1160 1.39 REMARK 500 O HOH A 972 O HOH A 1212 1.40 REMARK 500 O HOH A 943 O HOH A 1282 1.42 REMARK 500 O HOH A 912 O HOH A 1213 1.43 REMARK 500 O HOH A 920 O HOH A 1042 1.53 REMARK 500 O HOH A 1461 O HOH A 1486 1.56 REMARK 500 O HOH A 977 O HOH A 1228 1.56 REMARK 500 O HOH A 1124 O HOH A 1304 1.58 REMARK 500 O HOH A 1358 O HOH A 1410 1.59 REMARK 500 O HOH A 996 O HOH A 1044 1.60 REMARK 500 O HOH A 985 O HOH A 1148 1.64 REMARK 500 O HOH A 1057 O HOH A 1297 1.66 REMARK 500 O HOH A 1220 O HOH A 1280 1.68 REMARK 500 O HOH A 1062 O HOH A 1130 1.70 REMARK 500 O HOH A 1123 O HOH A 1170 1.71 REMARK 500 O HOH A 1181 O HOH A 1259 1.71 REMARK 500 O HOH A 911 O HOH A 1185 1.75 REMARK 500 O HOH A 974 O HOH A 1299 1.77 REMARK 500 O HOH A 932 O HOH A 1203 1.79 REMARK 500 O HOH A 1032 O HOH A 1265 1.81 REMARK 500 O HOH A 922 O HOH A 1231 1.82 REMARK 500 O HOH A 1445 O HOH A 1487 1.83 REMARK 500 O HOH A 1221 O HOH A 1334 1.85 REMARK 500 O HOH A 1329 O HOH A 1395 1.86 REMARK 500 O HOH A 1280 O HOH A 1441 1.90 REMARK 500 O HOH A 1064 O HOH A 1093 1.90 REMARK 500 O HOH A 1322 O HOH A 1441 1.92 REMARK 500 O HOH A 903 O HOH A 1063 1.92 REMARK 500 O HOH A 964 O HOH A 1239 1.94 REMARK 500 O HOH A 916 O HOH A 959 1.94 REMARK 500 O HOH A 979 O HOH A 1077 1.95 REMARK 500 O HOH A 915 O HOH A 1329 1.95 REMARK 500 O HOH A 1257 O HOH A 1307 1.95 REMARK 500 O HOH A 1043 O HOH A 1380 1.96 REMARK 500 O HOH A 938 O HOH A 1355 1.97 REMARK 500 O HOH A 1340 O HOH A 1398 1.97 REMARK 500 O HOH A 922 O HOH A 1071 1.98 REMARK 500 O HOH A 908 O HOH A 1001 1.98 REMARK 500 O HOH A 984 O HOH A 1010 1.99 REMARK 500 O HOH A 908 O HOH A 1267 2.00 REMARK 500 O HOH A 921 O HOH A 1393 2.00 REMARK 500 REMARK 500 THIS ENTRY HAS 76 CLOSE CONTACTS REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS REMARK 500 REMARK 500 THE FOLLOWING ATOMS THAT ARE RELATED BY CRYSTALLOGRAPHIC REMARK 500 SYMMETRY ARE IN CLOSE CONTACT. AN ATOM LOCATED WITHIN 0.15 REMARK 500 ANGSTROMS OF A SYMMETRY RELATED ATOM IS ASSUMED TO BE ON A REMARK 500 SPECIAL POSITION AND IS, THEREFORE, LISTED IN REMARK 375 REMARK 500 INSTEAD OF REMARK 500. ATOMS WITH NON-BLANK ALTERNATE REMARK 500 LOCATION INDICATORS ARE NOT INCLUDED IN THE CALCULATIONS. REMARK 500 REMARK 500 DISTANCE CUTOFF: REMARK 500 2.2 ANGSTROMS FOR CONTACTS NOT INVOLVING HYDROGEN ATOMS REMARK 500 1.6 ANGSTROMS FOR CONTACTS INVOLVING HYDROGEN ATOMS REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI SSYMOP DISTANCE REMARK 500 O HOH A 1355 O HOH A 1459 3554 1.87 REMARK 500 O HOH A 1093 O HOH A 1148 2554 1.95 REMARK 500 O HOH A 1175 O HOH A 1232 3554 1.97 REMARK 500 O HOH A 907 O HOH A 1288 2555 2.03 REMARK 500 O HOH A 1064 O HOH A 1202 2554 2.14 REMARK 500 O HOH A 972 O HOH A 1282 2554 2.14 REMARK 500 O HOH A 936 O HOH A 1204 2555 2.16 REMARK 500 O HOH A 1219 O HOH A 1419 2555 2.18 REMARK 500 O HOH A 1204 O HOH A 1424 2554 2.19 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND LENGTHS REMARK 500 REMARK 500 THE STEREOCHEMICAL PARAMETERS OF THE FOLLOWING RESIDUES REMARK 500 HAVE VALUES WHICH DEVIATE FROM EXPECTED VALUES BY MORE REMARK 500 THAN 6*RMSD (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 500 IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT: (10X,I3,1X,2(A3,1X,A1,I4,A1,1X,A4,3X),1X,F6.3) REMARK 500 REMARK 500 EXPECTED VALUES PROTEIN: ENGH AND HUBER, 1999 REMARK 500 EXPECTED VALUES NUCLEIC ACID: CLOWNEY ET AL 1996 REMARK 500 REMARK 500 M RES CSSEQI ATM1 RES CSSEQI ATM2 DEVIATION REMARK 500 TYR A 159 CZ TYR A 159 CE2 0.080 REMARK 500 TYR A 202 CE1 TYR A 202 CZ -0.132 REMARK 500 PRO A 303 C PRO A 303 O 0.159 REMARK 500 SER A 306 CB SER A 306 OG -0.194 REMARK 500 TYR A 354 CE1 TYR A 354 CZ -0.083 REMARK 500 TYR A 406 CE1 TYR A 406 CZ -0.092 REMARK 500 TYR A 406 CE2 TYR A 406 CD2 0.159 REMARK 500 SER A 410 CB SER A 410 OG -0.080 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND ANGLES REMARK 500 REMARK 500 THE STEREOCHEMICAL PARAMETERS OF THE FOLLOWING RESIDUES REMARK 500 HAVE VALUES WHICH DEVIATE FROM EXPECTED VALUES BY MORE REMARK 500 THAN 6*RMSD (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 500 IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT: (10X,I3,1X,A3,1X,A1,I4,A1,3(1X,A4,2X),12X,F5.1) REMARK 500 REMARK 500 EXPECTED VALUES PROTEIN: ENGH AND HUBER, 1999 REMARK 500 EXPECTED VALUES NUCLEIC ACID: CLOWNEY ET AL 1996 REMARK 500 REMARK 500 M RES CSSEQI ATM1 ATM2 ATM3 REMARK 500 ASP A 153 CB - CG - OD2 ANGL. DEV. = -5.6 DEGREES REMARK 500 ASP A 203 CB - CG - OD1 ANGL. DEV. = 7.1 DEGREES REMARK 500 ARG A 217 NE - CZ - NH2 ANGL. DEV. = -3.2 DEGREES REMARK 500 ASP A 310 CB - CG - OD2 ANGL. DEV. = 6.1 DEGREES REMARK 500 MET A 314 CG - SD - CE ANGL. DEV. = -19.3 DEGREES REMARK 500 ASP A 347 CB - CG - OD1 ANGL. DEV. = -9.8 DEGREES REMARK 500 ASP A 347 CB - CG - OD2 ANGL. DEV. = 11.5 DEGREES REMARK 500 ASP A 349 CB - CG - OD2 ANGL. DEV. = -8.5 DEGREES REMARK 500 ARG A 370 NE - CZ - NH2 ANGL. DEV. = -3.4 DEGREES REMARK 500 ARG A 374 NE - CZ - NH1 ANGL. DEV. = 4.2 DEGREES REMARK 500 ARG A 374 NE - CZ - NH2 ANGL. DEV. = -3.4 DEGREES REMARK 500 PHE A 395 CB - CG - CD1 ANGL. DEV. = 4.3 DEGREES REMARK 500 ASP A 398 CB - CG - OD2 ANGL. DEV. = -7.2 DEGREES REMARK 500 TYR A 406 CB - CG - CD1 ANGL. DEV. = -4.8 DEGREES REMARK 500 TYR A 406 CG - CD2 - CE2 ANGL. DEV. = -7.4 DEGREES REMARK 500 ASP A 444 CB - CG - OD1 ANGL. DEV. = 9.0 DEGREES REMARK 500 ASP A 448 CB - CG - OD1 ANGL. DEV. = 6.7 DEGREES REMARK 500 ARG A 459 NE - CZ - NH2 ANGL. DEV. = 5.7 DEGREES REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: TORSION ANGLES REMARK 500 REMARK 500 TORSION ANGLES OUTSIDE THE EXPECTED RAMACHANDRAN REGIONS: REMARK 500 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 500 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT:(10X,I3,1X,A3,1X,A1,I4,A1,4X,F7.2,3X,F7.2) REMARK 500 REMARK 500 EXPECTED VALUES: GJ KLEYWEGT AND TA JONES (1996). PHI/PSI- REMARK 500 CHOLOGY: RAMACHANDRAN REVISITED. STRUCTURE 4, 1395 - 1400 REMARK 500 REMARK 500 M RES CSSEQI PSI PHI REMARK 500 TYR A 159 -17.12 -146.34 REMARK 500 ASP A 185 -153.20 -163.34 REMARK 500 LEU A 194 -42.17 -135.21 REMARK 500 ASP A 213 10.34 -141.52 REMARK 500 ALA A 253 42.16 -157.38 REMARK 500 ALA A 266 69.59 -114.05 REMARK 500 CYS A 280 6.46 80.08 REMARK 500 SER A 411 -79.45 -134.55 REMARK 500 SER A 414 -151.96 -135.51 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: PLANAR GROUPS REMARK 500 REMARK 500 PLANAR GROUPS IN THE FOLLOWING RESIDUES HAVE A TOTAL REMARK 500 RMS DISTANCE OF ALL ATOMS FROM THE BEST-FIT PLANE REMARK 500 BY MORE THAN AN EXPECTED VALUE OF 6*RMSD, WITH AN REMARK 500 RMSD 0.02 ANGSTROMS, OR AT LEAST ONE ATOM HAS REMARK 500 AN RMSD GREATER THAN THIS VALUE REMARK 500 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 500 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 M RES CSSEQI RMS TYPE REMARK 500 ARG A 459 0.07 SIDE CHAIN REMARK 500 REMARK 500 REMARK: NULL REMARK 525 REMARK 525 SOLVENT REMARK 525 REMARK 525 THE SOLVENT MOLECULES HAVE CHAIN IDENTIFIERS THAT REMARK 525 INDICATE THE POLYMER CHAIN WITH WHICH THEY ARE MOST REMARK 525 CLOSELY ASSOCIATED. THE REMARK LISTS ALL THE SOLVENT REMARK 525 MOLECULES WHICH ARE MORE THAN 5A AWAY FROM THE REMARK 525 NEAREST POLYMER CHAIN (M = MODEL NUMBER; REMARK 525 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE REMARK 525 NUMBER; I=INSERTION CODE): REMARK 525 REMARK 525 M RES CSSEQI REMARK 525 HOH A1492 DISTANCE = 6.03 ANGSTROMS REMARK 525 HOH A1493 DISTANCE = 7.59 ANGSTROMS REMARK 620 REMARK 620 METAL COORDINATION REMARK 620 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 620 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE): REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CA A 801 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 149 OD2 REMARK 620 2 ASP A 193 OD1 154.2 REMARK 620 3 ASP A 193 OD2 150.0 53.3 REMARK 620 4 VAL A 255 O 95.3 85.2 101.4 REMARK 620 5 ASN A 258 OD1 72.7 81.6 132.8 86.0 REMARK 620 6 GLU A 260 O 85.9 88.8 82.6 168.6 83.4 REMARK 620 7 VAL A 262 O 78.9 126.8 77.6 85.8 149.5 105.6 REMARK 620 N 1 2 3 4 5 6 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CA A 803 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 203 OD2 REMARK 620 2 ASP A 213 OD2 81.6 REMARK 620 3 ASP A 218 OD1 114.0 116.0 REMARK 620 4 ASP A 218 OD2 84.1 71.8 51.0 REMARK 620 5 ASP A 220 O 89.6 167.3 75.9 116.5 REMARK 620 6 HOH A1008 O 93.8 90.0 143.5 161.8 81.5 REMARK 620 7 HOH A1279 O 164.1 83.1 76.6 95.0 104.8 82.1 REMARK 620 N 1 2 3 4 5 6 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CA A 802 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 213 OD1 REMARK 620 2 ASP A 213 OD2 53.6 REMARK 620 3 GLY A 215 O 71.6 124.6 REMARK 620 4 GLY A 216 O 148.5 157.8 77.5 REMARK 620 5 ASP A 218 OD2 122.8 72.3 161.2 86.3 REMARK 620 6 HOH A1048 O 105.9 92.7 94.8 82.4 92.4 REMARK 620 7 HOH A1308 O 86.1 98.4 84.4 84.9 84.7 167.1 REMARK 620 N 1 2 3 4 5 6 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CA A 804 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 VAL A 362 O REMARK 620 2 ASP A 385 OD1 122.3 REMARK 620 3 ASP A 385 OD2 75.6 49.7 REMARK 620 4 GLU A 451 OE2 83.4 74.1 82.8 REMARK 620 5 HOH A 908 O 147.6 50.0 81.8 116.7 REMARK 620 6 HOH A1001 O 108.1 78.5 76.0 152.2 42.9 REMARK 620 7 HOH A1037 O 79.2 137.9 147.0 73.3 129.2 132.8 REMARK 620 8 HOH A1281 O 77.0 145.4 124.1 140.1 97.5 67.7 69.1 REMARK 620 9 HOH A1322 O 157.6 77.0 125.8 92.3 52.7 85.8 78.5 92.9 REMARK 620 N 1 2 3 4 5 6 7 8 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue CA A 801 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue CA A 802 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue CA A 803 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue CA A 804 REMARK 999 REMARK 999 SEQUENCE REMARK 999 THE AUTHORS DO NOT KNOW THE SEQUENCE OF THE CHAIN B. THESE THREE REMARK 999 ALANINE RESIDUES ARE A CO-PURIFIED (SEQUENCE UNKNOWN) PEPTIDE REMARK 999 LOCATED IN SUBSTRATE BINDING POCKET OF OUR PRO21717 PROTEASE. DBREF 5YL7 A 145 491 PDB 5YL7 5YL7 145 491 DBREF 5YL7 B 2 4 PDB 5YL7 5YL7 2 4 SEQRES 1 A 347 SER THR PRO ASN ASP PRO ARG PHE ASP ASP GLN TRP HIS SEQRES 2 A 347 TYR TYR GLU GLN ALA GLY GLY LEU ASN LEU PRO THR ALA SEQRES 3 A 347 TRP ASP THR ALA THR GLY SER GLY VAL VAL VAL ALA VAL SEQRES 4 A 347 LEU ASP THR GLY TYR ARG PRO HIS ALA ASP LEU ASN ALA SEQRES 5 A 347 ASN ILE LEU PRO GLY TYR ASP MET ILE SER ASN LEU SER SEQRES 6 A 347 VAL ALA ASN ASP GLY GLY GLY ARG ASP SER ASP ALA ARG SEQRES 7 A 347 ASP PRO GLY ASP ALA VAL ALA ALA ASN GLU CYS GLY THR SEQRES 8 A 347 ASN GLY ALA GLN ASN SER SER TRP HIS GLY THR HIS VAL SEQRES 9 A 347 ALA GLY THR VAL ALA ALA VAL THR ASN ASN GLY GLU GLY SEQRES 10 A 347 VAL ALA GLY VAL ALA TYR ASN ALA LYS VAL VAL PRO VAL SEQRES 11 A 347 ARG VAL LEU GLY LYS CYS GLY GLY LEU THR SER ASP ILE SEQRES 12 A 347 ALA ASP GLY ILE ILE TRP ALA SER GLY GLY SER VAL SER SEQRES 13 A 347 GLY ILE PRO ALA ASN SER ASN PRO ALA ASP VAL ILE ASN SEQRES 14 A 347 MET SER LEU GLY GLY SER GLY SER CYS SER SER THR THR SEQRES 15 A 347 GLN ASN ALA ILE ASN THR ALA ARG SER ASN GLY THR VAL SEQRES 16 A 347 VAL VAL ILE ALA ALA GLY ASN ASP ASN ASP ASN SER ALA SEQRES 17 A 347 ASN TYR ASN PRO GLY ASN CYS ASN GLY VAL VAL ASN VAL SEQRES 18 A 347 ALA SER VAL GLY ARG ASN GLY GLY ARG ALA TYR TYR SER SEQRES 19 A 347 ASN TYR GLY SER ASN ILE ASP VAL ALA ALA PRO GLY GLY SEQRES 20 A 347 ALA GLN SER PHE ALA ASN ASP SER GLU GLY VAL LEU SER SEQRES 21 A 347 THR TYR ASN SER GLY SER SER THR PRO SER SER ASP SER SEQRES 22 A 347 TYR GLY TYR SER GLN GLY THR SER MET ALA ALA PRO HIS SEQRES 23 A 347 VAL ALA GLY VAL ALA ALA LEU ILE LYS GLN ALA LYS PRO SEQRES 24 A 347 ASP ALA THR PRO ASP GLU ILE GLU SER ILE LEU LYS SER SEQRES 25 A 347 THR THR ARG SER PHE PRO ALA THR CYS THR SER CYS GLY SEQRES 26 A 347 THR GLY ILE VAL ASP ALA ALA ALA ALA VAL ALA ALA ALA SEQRES 27 A 347 SER LYS GLY HIS HIS HIS HIS HIS HIS SEQRES 1 B 3 UNK UNK UNK HET CA A 801 1 HET CA A 802 1 HET CA A 803 1 HET CA A 804 1 HETNAM CA CALCIUM ION FORMUL 3 CA 4(CA 2+) FORMUL 7 HOH *595(H2 O) HELIX 1 AA1 ARG A 151 ASP A 154 5 4 HELIX 2 AA2 GLN A 155 GLU A 160 1 6 HELIX 3 AA3 ASN A 166 ASP A 172 1 7 HELIX 4 AA4 LEU A 194 ILE A 198 5 5 HELIX 5 AA5 ASN A 207 ASN A 212 1 6 HELIX 6 AA6 TRP A 243 ALA A 254 1 12 HELIX 7 AA7 LEU A 283 SER A 295 1 13 HELIX 8 AA8 SER A 323 ASN A 336 1 14 HELIX 9 AA9 ASN A 350 ALA A 352 5 3 HELIX 10 AB1 GLY A 423 LYS A 442 1 20 HELIX 11 AB2 THR A 446 THR A 457 1 12 HELIX 12 AB3 ASP A 474 SER A 483 1 10 SHEET 1 AA1 7 TYR A 202 ASP A 203 0 SHEET 2 AA1 7 LYS A 270 ARG A 275 1 O ARG A 275 N TYR A 202 SHEET 3 AA1 7 VAL A 180 ASP A 185 1 N VAL A 181 O LYS A 270 SHEET 4 AA1 7 VAL A 311 MET A 314 1 O VAL A 311 N ALA A 182 SHEET 5 AA1 7 VAL A 339 ALA A 343 1 O VAL A 341 N ILE A 312 SHEET 6 AA1 7 VAL A 363 VAL A 368 1 O VAL A 363 N VAL A 340 SHEET 7 AA1 7 VAL A 386 PRO A 389 1 O VAL A 386 N ALA A 366 SHEET 1 AA2 2 GLY A 318 SER A 319 0 SHEET 2 AA2 2 TYR A 354 ASN A 355 -1 O ASN A 355 N GLY A 318 SHEET 1 AA3 2 VAL A 402 ASN A 407 0 SHEET 2 AA3 2 ASP A 416 SER A 421 -1 O SER A 421 N VAL A 402 SSBOND 1 CYS A 233 CYS A 280 1555 1555 2.09 SSBOND 2 CYS A 322 CYS A 359 1555 1555 2.06 SSBOND 3 CYS A 465 CYS A 468 1555 1555 2.06 LINK OD2 ASP A 149 CA CA A 801 1555 1555 2.36 LINK OD1 ASP A 193 CA CA A 801 1555 1555 2.44 LINK OD2 ASP A 193 CA CA A 801 1555 1555 2.52 LINK OD2 ASP A 203 CA CA A 803 1555 1555 2.36 LINK OD1 ASP A 213 CA CA A 802 1555 1555 2.47 LINK OD2 ASP A 213 CA CA A 803 1555 1555 2.34 LINK OD2 ASP A 213 CA CA A 802 1555 1555 2.48 LINK O GLY A 215 CA CA A 802 1555 1555 2.44 LINK O GLY A 216 CA CA A 802 1555 1555 2.32 LINK OD1 ASP A 218 CA CA A 803 1555 1555 2.52 LINK OD2 ASP A 218 CA CA A 803 1555 1555 2.54 LINK OD2 ASP A 218 CA CA A 802 1555 1555 2.37 LINK O ASP A 220 CA CA A 803 1555 1555 2.41 LINK O VAL A 255 CA CA A 801 1555 1555 2.30 LINK OD1 ASN A 258 CA CA A 801 1555 1555 2.46 LINK O GLU A 260 CA CA A 801 1555 1555 2.35 LINK O VAL A 262 CA CA A 801 1555 1555 2.36 LINK O VAL A 362 CA CA A 804 1555 1555 2.32 LINK OD1 ASP A 385 CA CA A 804 1555 1555 2.77 LINK OD2 ASP A 385 CA CA A 804 1555 1555 2.41 LINK OE2 GLU A 451 CA CA A 804 1555 1555 2.48 LINK CA CA A 802 O HOH A1048 1555 1555 2.35 LINK CA CA A 802 O HOH A1308 1555 1555 2.34 LINK CA CA A 803 O HOH A1008 1555 1555 2.35 LINK CA CA A 803 O HOH A1279 1555 1555 2.36 LINK CA CA A 804 O HOH A 908 1555 1555 2.87 LINK CA CA A 804 O HOH A1001 1555 1555 2.45 LINK CA CA A 804 O HOH A1037 1555 1555 2.53 LINK CA CA A 804 O HOH A1281 1555 1555 2.54 LINK CA CA A 804 O HOH A1322 1555 1555 2.38 LINK CA CA A 804 O HOH A1441 1555 1555 3.11 CISPEP 1 ASN A 355 PRO A 356 0 -5.27 SITE 1 AC1 6 ASP A 149 ASP A 193 VAL A 255 ASN A 258 SITE 2 AC1 6 GLU A 260 VAL A 262 SITE 1 AC2 6 ASP A 213 GLY A 215 GLY A 216 ASP A 218 SITE 2 AC2 6 HOH A1048 HOH A1308 SITE 1 AC3 6 ASP A 203 ASP A 213 ASP A 218 ASP A 220 SITE 2 AC3 6 HOH A1008 HOH A1279 SITE 1 AC4 8 VAL A 362 ASP A 385 GLU A 451 HOH A 908 SITE 2 AC4 8 HOH A1001 HOH A1037 HOH A1281 HOH A1322 CRYST1 47.948 74.562 83.012 90.00 90.00 90.00 P 21 21 21 4 ORIGX1 1.000000 0.000000 0.000000 0.00000 ORIGX2 0.000000 1.000000 0.000000 0.00000 ORIGX3 0.000000 0.000000 1.000000 0.00000 SCALE1 0.020856 0.000000 0.000000 0.00000 SCALE2 0.000000 0.013412 0.000000 0.00000 SCALE3 0.000000 0.000000 0.012046 0.00000