HEADER HYDROLASE 25-JUL-08 3DYB TITLE PROTEINASE K- DIGALACTURONIC ACID COMPLEX COMPND MOL_ID: 1; COMPND 2 MOLECULE: PROTEINASE K; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: TRITIRACHIUM ALKALINE PROTEINASE, ENDOPEPTIDASE K; COMPND 5 EC: 3.4.21.64 SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: ENGYODONTIUM ALBUM; SOURCE 3 ORGANISM_COMMON: ENGYODONTIUM ALBUM; SOURCE 4 ORGANISM_TAXID: 37998 KEYWDS PROTEINASE K, HEPES, DIGALACTURONIC ACID, SILVERBULLETS, STRUCTURAL KEYWDS 2 GENOMICS, PSI-2, PROTEIN STRUCTURE INITIATIVE, CENTER FOR HIGH- KEYWDS 3 THROUGHPUT STRUCTURAL BIOLOGY, CHTSB, HYDROLASE, METAL-BINDING, KEYWDS 4 PROTEASE, SERINE PROTEASE, ZYMOGEN EXPDTA X-RAY DIFFRACTION AUTHOR S.B.LARSON,J.S.DAY,A.MCPHERSON,R.CUDNEY,C.NGUYEN,CENTER FOR HIGH- AUTHOR 2 THROUGHPUT STRUCTURAL BIOLOGY (CHTSB) REVDAT 9 30-AUG-23 3DYB 1 REMARK REVDAT 8 17-NOV-21 3DYB 1 KEYWDS REMARK HETSYN REVDAT 7 29-JUL-20 3DYB 1 COMPND REMARK HET HETNAM REVDAT 7 2 1 HETSYN FORMUL LINK SITE REVDAT 7 3 1 ATOM REVDAT 6 25-OCT-17 3DYB 1 REMARK REVDAT 5 13-JUL-11 3DYB 1 VERSN REVDAT 4 04-AUG-09 3DYB 1 HET HETATM REVDAT 3 17-MAR-09 3DYB 1 JRNL REVDAT 2 24-FEB-09 3DYB 1 VERSN REVDAT 1 07-OCT-08 3DYB 0 JRNL AUTH S.B.LARSON,J.S.DAY,C.NGUYEN,R.CUDNEY,A.MCPHERSON JRNL TITL HIGH-RESOLUTION STRUCTURE OF PROTEINASE K COCRYSTALLIZED JRNL TITL 2 WITH DIGALACTURONIC ACID. JRNL REF ACTA CRYSTALLOGR.,SECT.F V. 65 192 2009 JRNL REFN ESSN 1744-3091 JRNL PMID 19255463 JRNL DOI 10.1107/S1744309109002218 REMARK 1 REMARK 1 REFERENCE 1 REMARK 1 AUTH S.B.LARSON,J.S.DAY,C.NGUYEN,R.CUDNEY,A.MCPHERSON REMARK 1 TITL PROGRESS IN THE DEVELOPMENT OF AN ALTERNATIVE APPROACH TO REMARK 1 TITL 2 MACROMOLECULAR CRYSTALLIZATION REMARK 1 REF CRYST.GROWTH DES. V. 8 3038 2008 REMARK 1 REFN ISSN 1528-7483 REMARK 1 DOI 10.1021/CG800174N REMARK 2 REMARK 2 RESOLUTION. 1.32 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.4.0069 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) : 1.32 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 30.36 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 92.3 REMARK 3 NUMBER OF REFLECTIONS : 49454 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) : 0.160 REMARK 3 R VALUE (WORKING SET) : 0.158 REMARK 3 FREE R VALUE : 0.207 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 2646 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) : 1.32 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.35 REMARK 3 REFLECTION IN BIN (WORKING SET) : 1119 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 28.83 REMARK 3 BIN R VALUE (WORKING SET) : 0.4560 REMARK 3 BIN FREE R VALUE SET COUNT : 67 REMARK 3 BIN FREE R VALUE : 0.4750 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2032 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 42 REMARK 3 SOLVENT ATOMS : 341 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 15.90 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 15.88 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.45000 REMARK 3 B22 (A**2) : -0.45000 REMARK 3 B33 (A**2) : 0.90000 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): 0.067 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.064 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.049 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 2.839 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.977 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.964 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 2199 ; 0.011 ; 0.021 REMARK 3 BOND LENGTHS OTHERS (A): 2067 ; 0.000 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 3015 ; 1.265 ; 1.951 REMARK 3 BOND ANGLES OTHERS (DEGREES): 4665 ; 0.674 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 311 ; 6.234 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 91 ;35.854 ;23.736 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 329 ;12.819 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 14 ;19.321 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 335 ; 0.078 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 2566 ; 0.010 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 537 ; 0.000 ; 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): 1422 ; 2.568 ; 2.000 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 601 ; 2.262 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 2281 ; 3.353 ; 4.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 777 ; 4.085 ; 4.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 717 ; 5.315 ; 6.000 REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 ANISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 RIGID-BOND RESTRAINTS (A**2): 2198 ; 2.377 ; 3.000 REMARK 3 SPHERICITY; FREE ATOMS (A**2): 380 ; 8.481 ; 3.000 REMARK 3 SPHERICITY; BONDED ATOMS (A**2): 2140 ; 4.871 ; 3.000 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 : BABINET MODEL WITH MASK REMARK 3 PARAMETERS FOR MASK CALCULATION REMARK 3 VDW PROBE RADIUS : 1.40 REMARK 3 ION PROBE RADIUS : 0.80 REMARK 3 SHRINKAGE RADIUS : 0.80 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: HYDROGENS FOR ALL NON-WATER MOLECULES REMARK 3 HAVE BEEN ADDED IN THE RIDING POSITION AND ADJUSTED TO AVOID REMARK 3 STERIC PROBLEMS. OCCUPANCIES FOR HYDROGENS WERE SET TO THE REMARK 3 OCCUPANCY OF THE ATOM TO WHICH THE HYDROGEN WAS ATTACHED. REMARK 3 THE ATOMS OF AD0 HAVING ZERO OCCUPANCY WERE REMARK 3 INCLUDED AS A COMPLETE DESCRIPTION OF THE LIGAND. THERE WAS NO REMARK 3 ELECTRON DENSITY TO INDICATE WHERE THIS PYRANOSE RING BELONGED. REMARK 3 HOWEVER, THERE WAS DENSITY SUGGESTIVE OF WATER MOLECULES IN THIS REMARK 3 REGION AND, THEREFORE, WAS MODELED AS SUCH. HENCE, THERE APPEARS REMARK 3 TO BE CLOSE CONTACTS AS SHOWN IN REMARK 500. THERE IS EXCELLENT REMARK 3 DENSITY FOR EACH OF THE RESIDUES REMARK 3 DESCRIBED IN REMARK 500 AS RAMACHANDRAN OUTLIERS. REMARK 4 REMARK 4 3DYB COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 29-JUL-08. REMARK 100 THE DEPOSITION ID IS D_1000048641. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 26-NOV-06 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7.0 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : N REMARK 200 RADIATION SOURCE : ROTATING ANODE REMARK 200 BEAMLINE : NULL REMARK 200 X-RAY GENERATOR MODEL : RIGAKU RU200 REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.54178 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : OSMIC MIRRORS REMARK 200 REMARK 200 DETECTOR TYPE : IMAGE PLATE REMARK 200 DETECTOR MANUFACTURER : RIGAKU RAXIS IV REMARK 200 INTENSITY-INTEGRATION SOFTWARE : D*TREK REMARK 200 DATA SCALING SOFTWARE : D*TREK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 53026 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.320 REMARK 200 RESOLUTION RANGE LOW (A) : 32.140 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 94.0 REMARK 200 DATA REDUNDANCY : 5.330 REMARK 200 R MERGE (I) : 0.06600 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 11.5000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.32 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.37 REMARK 200 COMPLETENESS FOR SHELL (%) : 46.2 REMARK 200 DATA REDUNDANCY IN SHELL : 1.50 REMARK 200 R MERGE FOR SHELL (I) : 0.48200 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 1.300 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: DIRECT PLACEMENT SAME UNIT CELL REMARK 200 STARTING MODEL: PDB ENTRY 3PRK REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 39.02 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.02 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 5% PEG 3350, 0.1 M HEPES; RESERVOIR OF REMARK 280 25% PEG 3350, PH 7.0, VAPOR DIFFUSION, SITTING DROP, TEMPERATURE REMARK 280 295K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 43 21 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,-Y,Z+1/2 REMARK 290 3555 -Y+1/2,X+1/2,Z+3/4 REMARK 290 4555 Y+1/2,-X+1/2,Z+1/4 REMARK 290 5555 -X+1/2,Y+1/2,-Z+3/4 REMARK 290 6555 X+1/2,-Y+1/2,-Z+1/4 REMARK 290 7555 Y,X,-Z REMARK 290 8555 -Y,-X,-Z+1/2 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 0.00000 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 50.94500 REMARK 290 SMTRY1 3 0.000000 -1.000000 0.000000 33.86000 REMARK 290 SMTRY2 3 1.000000 0.000000 0.000000 33.86000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 76.41750 REMARK 290 SMTRY1 4 0.000000 1.000000 0.000000 33.86000 REMARK 290 SMTRY2 4 -1.000000 0.000000 0.000000 33.86000 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 25.47250 REMARK 290 SMTRY1 5 -1.000000 0.000000 0.000000 33.86000 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 33.86000 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 76.41750 REMARK 290 SMTRY1 6 1.000000 0.000000 0.000000 33.86000 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 33.86000 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 25.47250 REMARK 290 SMTRY1 7 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY2 7 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 8 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY2 8 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 50.94500 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: MONOMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA 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 375 REMARK 375 SPECIAL POSITION REMARK 375 THE FOLLOWING ATOMS ARE FOUND TO BE WITHIN 0.15 ANGSTROMS REMARK 375 OF A SYMMETRY RELATED ATOM AND ARE ASSUMED TO BE ON SPECIAL REMARK 375 POSITIONS. REMARK 375 REMARK 375 ATOM RES CSSEQI REMARK 375 HOH A 841 LIES ON A SPECIAL POSITION. 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 O5 ADA B 2 O HOH A 656 7465 0.80 REMARK 500 C5 ADA B 2 O HOH A 656 7465 1.03 REMARK 500 O6B ADA B 2 O HOH A 637 7465 1.15 REMARK 500 C6 ADA B 2 O HOH A 637 7465 1.25 REMARK 500 C1 ADA B 2 O HOH A 656 7465 1.36 REMARK 500 O6A ADA B 2 O HOH A 637 7465 1.50 REMARK 500 O3 ADA B 2 O HOH A 639 7465 1.66 REMARK 500 C4 ADA B 2 O HOH A 656 7465 1.74 REMARK 500 O6B ADA B 2 O HOH A 639 7465 1.84 REMARK 500 O5 ADA B 2 O HOH A 668 7465 1.89 REMARK 500 OG SER A 176 O6A ADA B 2 7465 1.96 REMARK 500 C2 ADA B 2 O HOH A 656 7465 1.97 REMARK 500 C6 ADA B 2 O HOH A 656 7465 2.00 REMARK 500 C3 ADA B 2 O HOH A 656 7465 2.12 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 ASP A 39 -142.59 -166.85 REMARK 500 ASP A 207 61.30 61.37 REMARK 500 ASN A 270 74.07 -108.57 REMARK 500 REMARK 500 REMARK: NULL REMARK 615 REMARK 615 ZERO OCCUPANCY ATOM REMARK 615 THE FOLLOWING RESIDUES HAVE ATOMS MODELED WITH ZERO REMARK 615 OCCUPANCY. THE LOCATION AND PROPERTIES OF THESE ATOMS REMARK 615 MAY NOT BE RELIABLE. (M=MODEL NUMBER; RES=RESIDUE NAME; REMARK 615 C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE): REMARK 615 M RES C SSEQI REMARK 615 ADA B 2 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 301 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASN A 163 O REMARK 620 2 TYR A 195 OH 100.5 REMARK 620 3 HOH A 569 O 93.1 89.7 REMARK 620 4 HOH A 638 O 90.1 88.1 176.4 REMARK 620 5 HOH A 650 O 170.7 84.4 78.9 98.1 REMARK 620 6 HOH A 654 O 89.8 167.4 82.6 99.1 84.4 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CA A 300 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 PRO A 175 O REMARK 620 2 VAL A 177 O 91.9 REMARK 620 3 ASP A 200 OD1 143.1 123.2 REMARK 620 4 ASP A 200 OD2 166.2 79.9 48.5 REMARK 620 5 HOH A 507 O 103.3 76.4 96.3 64.2 REMARK 620 6 HOH A 594 O 86.0 142.3 73.0 93.7 67.6 REMARK 620 7 HOH A 608 O 82.6 83.9 89.7 107.2 159.6 132.8 REMARK 620 8 HOH A 693 O 58.0 138.9 85.9 134.4 133.3 68.7 66.4 REMARK 620 N 1 2 3 4 5 6 7 REMARK 999 REMARK 999 SEQUENCE REMARK 999 AUTHORS STATE THAT ACCORDING TO THE ELECTRON DENSITY MAPS, RESIDUE REMARK 999 207 SHOULD BE AN ASP. THIS IS CONSISTENT WITH THE OBSERVATIONS REMARK 999 FOUND IN PDB ENTRIES 1IC6, 1P7V AND 2PWA. DBREF 3DYB A 1 279 UNP P06873 PRTK_TRIAL 106 384 SEQADV 3DYB ASP A 207 UNP P06873 SER 312 SEE REMARK 999 SEQRES 1 A 279 ALA ALA GLN THR ASN ALA PRO TRP GLY LEU ALA ARG ILE SEQRES 2 A 279 SER SER THR SER PRO GLY THR SER THR TYR TYR TYR ASP SEQRES 3 A 279 GLU SER ALA GLY GLN GLY SER CYS VAL TYR VAL ILE ASP SEQRES 4 A 279 THR GLY ILE GLU ALA SER HIS PRO GLU PHE GLU GLY ARG SEQRES 5 A 279 ALA GLN MET VAL LYS THR TYR TYR TYR SER SER ARG ASP SEQRES 6 A 279 GLY ASN GLY HIS GLY THR HIS CYS ALA GLY THR VAL GLY SEQRES 7 A 279 SER ARG THR TYR GLY VAL ALA LYS LYS THR GLN LEU PHE SEQRES 8 A 279 GLY VAL LYS VAL LEU ASP ASP ASN GLY SER GLY GLN TYR SEQRES 9 A 279 SER THR ILE ILE ALA GLY MET ASP PHE VAL ALA SER ASP SEQRES 10 A 279 LYS ASN ASN ARG ASN CYS PRO LYS GLY VAL VAL ALA SER SEQRES 11 A 279 LEU SER LEU GLY GLY GLY TYR SER SER SER VAL ASN SER SEQRES 12 A 279 ALA ALA ALA ARG LEU GLN SER SER GLY VAL MET VAL ALA SEQRES 13 A 279 VAL ALA ALA GLY ASN ASN ASN ALA ASP ALA ARG ASN TYR SEQRES 14 A 279 SER PRO ALA SER GLU PRO SER VAL CYS THR VAL GLY ALA SEQRES 15 A 279 SER ASP ARG TYR ASP ARG ARG SER SER PHE SER ASN TYR SEQRES 16 A 279 GLY SER VAL LEU ASP ILE PHE GLY PRO GLY THR ASP ILE SEQRES 17 A 279 LEU SER THR TRP ILE GLY GLY SER THR ARG SER ILE SER SEQRES 18 A 279 GLY THR SER MET ALA THR PRO HIS VAL ALA GLY LEU ALA SEQRES 19 A 279 ALA TYR LEU MET THR LEU GLY LYS THR THR ALA ALA SER SEQRES 20 A 279 ALA CYS ARG TYR ILE ALA ASP THR ALA ASN LYS GLY ASP SEQRES 21 A 279 LEU SER ASN ILE PRO PHE GLY THR VAL ASN LEU LEU ALA SEQRES 22 A 279 TYR ASN ASN TYR GLN ALA HET ADA B 1 18 HET ADA B 2 12 HET CA A 300 1 HET CA A 301 1 HET EPE A 400 33 HETNAM ADA ALPHA-D-GALACTOPYRANURONIC ACID HETNAM CA CALCIUM ION HETNAM EPE 4-(2-HYDROXYETHYL)-1-PIPERAZINE ETHANESULFONIC ACID HETSYN ADA ALPHA-D-GALACTURONIC ACID; D-GALACTURONIC ACID; HETSYN 2 ADA GALACTURONIC ACID; ALPHA D-GALACTURONIC ACID HETSYN EPE HEPES FORMUL 2 ADA 2(C6 H10 O7) FORMUL 3 CA 2(CA 2+) FORMUL 5 EPE C8 H18 N2 O4 S FORMUL 6 HOH *341(H2 O) HELIX 1 1 PRO A 7 SER A 14 1 8 HELIX 2 2 HIS A 46 GLU A 50 5 5 HELIX 3 3 GLY A 68 SER A 79 1 12 HELIX 4 4 GLN A 103 LYS A 118 1 16 HELIX 5 5 ASN A 119 ARG A 121 5 3 HELIX 6 6 SER A 138 SER A 151 1 14 HELIX 7 7 ASP A 165 ARG A 167 5 3 HELIX 8 8 GLY A 222 LEU A 240 1 19 HELIX 9 9 SER A 247 ALA A 256 1 10 SHEET 1 A 2 ALA A 2 GLN A 3 0 SHEET 2 A 2 TYR A 23 TYR A 24 -1 O TYR A 23 N GLN A 3 SHEET 1 B 7 ALA A 53 THR A 58 0 SHEET 2 B 7 GLN A 89 LYS A 94 1 O GLY A 92 N GLN A 54 SHEET 3 B 7 SER A 33 ASP A 39 1 N VAL A 35 O GLN A 89 SHEET 4 B 7 GLY A 126 LEU A 131 1 O SER A 130 N TYR A 36 SHEET 5 B 7 VAL A 153 ALA A 158 1 O ALA A 156 N LEU A 131 SHEET 6 B 7 CYS A 178 SER A 183 1 O CYS A 178 N VAL A 157 SHEET 7 B 7 ILE A 201 PRO A 204 1 O GLY A 203 N GLY A 181 SHEET 1 C 2 GLY A 135 GLY A 136 0 SHEET 2 C 2 TYR A 169 SER A 170 -1 O SER A 170 N GLY A 135 SHEET 1 D 2 ILE A 208 TRP A 212 0 SHEET 2 D 2 SER A 216 ILE A 220 -1 O ILE A 220 N ILE A 208 SHEET 1 E 2 ASN A 257 LYS A 258 0 SHEET 2 E 2 LEU A 271 LEU A 272 -1 O LEU A 272 N ASN A 257 SSBOND 1 CYS A 34 CYS A 123 1555 1555 2.05 SSBOND 2 CYS A 178 CYS A 249 1555 1555 2.04 LINK O4 ADA B 1 C1 ADA B 2 1555 1555 1.38 LINK O ASN A 163 CA CA A 301 1555 1555 2.43 LINK O PRO A 175 CA A CA A 300 1555 1555 2.55 LINK O VAL A 177 CA A CA A 300 1555 1555 2.40 LINK OH TYR A 195 CA CA A 301 1555 1555 2.29 LINK OD1 ASP A 200 CA A CA A 300 1555 1555 2.85 LINK OD2 ASP A 200 CA A CA A 300 1555 1555 2.35 LINK CA A CA A 300 O AHOH A 507 1555 1555 2.30 LINK CA A CA A 300 O HOH A 594 1555 1555 2.43 LINK CA A CA A 300 O AHOH A 608 1555 1555 2.29 LINK CA A CA A 300 O HOH A 693 1555 1555 2.63 LINK CA CA A 301 O HOH A 569 1555 1555 2.44 LINK CA CA A 301 O HOH A 638 1555 1555 2.37 LINK CA CA A 301 O HOH A 650 1555 1555 2.33 LINK CA CA A 301 O HOH A 654 1555 1555 2.39 CISPEP 1 SER A 170 PRO A 171 0 1.10 CRYST1 67.720 67.720 101.890 90.00 90.00 90.00 P 43 21 2 8 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 0.014767 0.000000 0.000000 0.00000 SCALE2 0.000000 0.014767 0.000000 0.00000 SCALE3 0.000000 0.000000 0.009815 0.00000