PDB Short entry for 2ZCH HEADER IMMUNE SYSTEM 08-NOV-07 2ZCH TITLE CRYSTAL STRUCTURE OF HUMAN PROSTATE SPECIFIC ANTIGEN COMPLEXED WITH AN TITLE 2 ACTIVATING ANTIBODY COMPND MOL_ID: 1; COMPND 2 MOLECULE: PROSTATE-SPECIFIC ANTIGEN; COMPND 3 CHAIN: P; COMPND 4 FRAGMENT: UNP RESIDUES 25-261; COMPND 5 SYNONYM: PSA, KALLIKREIN- 3, SEMENOGELASE, GAMMA-SEMINOPROTEIN, COMPND 6 SEMININ, P-30 ANTIGEN; COMPND 7 EC: 3.4.21.77; COMPND 8 MOL_ID: 2; COMPND 9 MOLECULE: MONOCLONAL ANTIBODY 8G8F5 FAB; COMPND 10 CHAIN: L; COMPND 11 MOL_ID: 3; COMPND 12 MOLECULE: MONOCLONAL ANTIBODY 8G8F5 FAB; COMPND 13 CHAIN: H SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 3 ORGANISM_COMMON: HUMAN; SOURCE 4 ORGANISM_TAXID: 9606; SOURCE 5 OTHER_DETAILS: HUMAN SEMINAL FLUID; SOURCE 6 MOL_ID: 2; SOURCE 7 ORGANISM_SCIENTIFIC: MUS MUSCULUS; SOURCE 8 ORGANISM_COMMON: HOUSE MOUSE; SOURCE 9 ORGANISM_TAXID: 10090; SOURCE 10 STRAIN: BALB/CJYCO; SOURCE 11 OTHER_DETAILS: ASCITIC FLUIDS; SOURCE 12 MOL_ID: 3; SOURCE 13 ORGANISM_SCIENTIFIC: MUS MUSCULUS; SOURCE 14 ORGANISM_COMMON: HOUSE MOUSE; SOURCE 15 ORGANISM_TAXID: 10090; SOURCE 16 STRAIN: BALB/CJYCO; SOURCE 17 OTHER_DETAILS: ASCITIC FLUIDS KEYWDS HUMAN PSA, KALLIKREIN RELATED PEPTIDASES, ANTIBODIES, PROSTATE KEYWDS 2 CANCER, GLYCOPROTEIN, HYDROLASE, POLYMORPHISM, PROTEASE, SECRETED, KEYWDS 3 SERINE PROTEASE, ZYMOGEN, IMMUNE SYSTEM EXPDTA X-RAY DIFFRACTION AUTHOR R.MENEZ,E.STURA,C.JOLIVET-REYNAUD REVDAT 5 01-NOV-23 2ZCH 1 HETSYN REVDAT 4 29-JUL-20 2ZCH 1 COMPND REMARK DBREF HETNAM REVDAT 4 2 1 SITE ATOM REVDAT 3 24-FEB-09 2ZCH 1 VERSN REVDAT 2 18-MAR-08 2ZCH 1 JRNL REVDAT 1 29-JAN-08 2ZCH 0 JRNL AUTH S.MICHEL,B.H.MULLER,M.BOSSUS,F.DUCANCEL,C.JOLIVET-REYNAUD, JRNL AUTH 2 E.A.STURA JRNL TITL CRYSTAL STRUCTURE OF A TERNARY COMPLEX BETWEEN HUMAN JRNL TITL 2 PROSTATE-SPECIFIC ANTIGEN, ITS SUBSTRATE ACYL INTERMEDIATE JRNL TITL 3 AND AN ACTIVATING ANTIBODY JRNL REF J.MOL.BIOL. V. 376 1021 2008 JRNL REFN ISSN 0022-2836 JRNL PMID 18187150 JRNL DOI 10.1016/J.JMB.2007.11.052 REMARK 2 REMARK 2 RESOLUTION. 2.83 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.2.0005 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) : 2.83 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 78.81 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 3 NUMBER OF REFLECTIONS : 21615 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) : 0.207 REMARK 3 R VALUE (WORKING SET) : 0.203 REMARK 3 FREE R VALUE : 0.270 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 1168 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) : 2.83 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.90 REMARK 3 REFLECTION IN BIN (WORKING SET) : 1549 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 100.0 REMARK 3 BIN R VALUE (WORKING SET) : 0.2740 REMARK 3 BIN FREE R VALUE SET COUNT : 81 REMARK 3 BIN FREE R VALUE : 0.3790 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 5188 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 36 REMARK 3 SOLVENT ATOMS : 66 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 38.78 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.30000 REMARK 3 B22 (A**2) : 0.30000 REMARK 3 B33 (A**2) : -0.60000 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): 1.996 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.385 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.250 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 13.127 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.924 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.856 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 5359 ; 0.018 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): 4663 ; 0.005 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 7311 ; 1.874 ; 1.960 REMARK 3 BOND ANGLES OTHERS (DEGREES): 10928 ; 0.973 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 678 ; 8.083 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 210 ;38.157 ;24.476 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 846 ;19.424 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 21 ;17.805 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 824 ; 0.103 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 5945 ; 0.006 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 1021 ; 0.001 ; 0.020 REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 1083 ; 0.227 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): 4879 ; 0.221 ; 0.200 REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 2558 ; 0.191 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): 3105 ; 0.097 ; 0.200 REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 157 ; 0.167 ; 0.200 REMARK 3 H-BOND (X...Y) OTHERS (A): 1 ; 0.046 ; 0.200 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): 17 ; 0.150 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): 56 ; 0.256 ; 0.200 REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 5 ; 0.216 ; 0.200 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): 4231 ; 1.399 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 1378 ; 0.109 ; 1.500 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 5502 ; 1.433 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 2306 ; 2.043 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1809 ; 3.072 ; 4.500 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): 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 2ZCH COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 13-NOV-07. REMARK 100 THE DEPOSITION ID IS D_1000027797. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 21-APR-06 REMARK 200 TEMPERATURE (KELVIN) : 200 REMARK 200 PH : 7.2 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : ESRF REMARK 200 BEAMLINE : ID23-2 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.873 REMARK 200 MONOCHROMATOR : HORIZONTALLY SIDE DIFFRACTING REMARK 200 SILICON 111 CRYSTAL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MARMOSAIC 225 MM CCD REMARK 200 INTENSITY-INTEGRATION SOFTWARE : MOSFLM, XFIT REMARK 200 DATA SCALING SOFTWARE : PROCESS REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 23506 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.800 REMARK 200 RESOLUTION RANGE LOW (A) : 78.810 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 200 DATA REDUNDANCY : 9.500 REMARK 200 R MERGE (I) : 0.15900 REMARK 200 R SYM (I) : 0.16800 REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 14.5000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.80 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.95 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : 9.70 REMARK 200 R MERGE FOR SHELL (I) : 0.49800 REMARK 200 R SYM FOR SHELL (I) : 0.52500 REMARK 200 <I/SIGMA(I)> FOR SHELL : 3.700 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: XFIT REMARK 200 STARTING MODEL: PDB ENTRY 1L2E, 1RJL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 59.66 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.05 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 14% MPEG 550, 100MM HEPES, PH7.2, REMARK 280 VAPOR DIFFUSION, SITTING DROP, TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 41 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+1/4 REMARK 290 4555 Y+1/2,-X+1/2,Z+3/4 REMARK 290 5555 -X+1/2,Y+1/2,-Z+1/4 REMARK 290 6555 X+1/2,-Y+1/2,-Z+3/4 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 118.16600 REMARK 290 SMTRY1 3 0.000000 -1.000000 0.000000 43.68000 REMARK 290 SMTRY2 3 1.000000 0.000000 0.000000 43.68000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 59.08300 REMARK 290 SMTRY1 4 0.000000 1.000000 0.000000 43.68000 REMARK 290 SMTRY2 4 -1.000000 0.000000 0.000000 43.68000 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 177.24900 REMARK 290 SMTRY1 5 -1.000000 0.000000 0.000000 43.68000 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 43.68000 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 59.08300 REMARK 290 SMTRY1 6 1.000000 0.000000 0.000000 43.68000 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 43.68000 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 177.24900 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 118.16600 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: TRIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TRIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 5960 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 30310 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -45.9 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: P, L, H 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 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 NZ LYS H 13 O SER H 113 2.09 REMARK 500 O ASN L 190 O ASN L 210 2.14 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 PRO P 76 C - N - CA ANGL. DEV. = 11.0 DEGREES REMARK 500 PHE P 95H CB - CA - C ANGL. DEV. = 12.3 DEGREES REMARK 500 LEU L 54 CA - CB - CG ANGL. DEV. = 14.0 DEGREES REMARK 500 PRO H 189 C - N - CA ANGL. DEV. = 28.4 DEGREES REMARK 500 PRO H 189 C - N - CD ANGL. DEV. = -31.6 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 SER P 35 -82.89 -109.88 REMARK 500 ARG P 36 58.60 -94.33 REMARK 500 ASP P 78 31.55 -76.57 REMARK 500 ARG P 95G 59.05 -98.15 REMARK 500 PHE P 95H 128.39 111.33 REMARK 500 LEU P 95I 153.28 -45.82 REMARK 500 ASP P 102 88.43 -68.54 REMARK 500 THR P 115 -143.80 -113.28 REMARK 500 GLU P 129 131.38 90.83 REMARK 500 GLU P 148 123.42 -173.45 REMARK 500 SER P 192 109.42 -31.21 REMARK 500 CYS P 220 155.58 -49.99 REMARK 500 ASN P 245 49.25 -159.35 REMARK 500 ASP L 28 -126.11 43.35 REMARK 500 LEU L 47 -60.84 -108.42 REMARK 500 ALA L 51 -38.53 64.59 REMARK 500 ALA L 84 -177.76 175.78 REMARK 500 THR L 126 18.14 -61.56 REMARK 500 ASP L 151 -5.86 66.96 REMARK 500 SER L 153 -142.84 -74.48 REMARK 500 GLN L 156 -20.70 -166.84 REMARK 500 LYS L 169 25.61 150.81 REMARK 500 ASP L 170 -12.38 -169.65 REMARK 500 HIS L 189 108.18 67.37 REMARK 500 THR L 202 40.65 -91.83 REMARK 500 ASN L 210 -83.97 -59.35 REMARK 500 CYS H 22 105.58 -165.12 REMARK 500 TYR H 27 -177.31 -171.51 REMARK 500 ASN H 76 60.25 29.98 REMARK 500 SER H 82B 63.84 60.08 REMARK 500 PHE H 99 123.20 -32.95 REMARK 500 GLU H 100C 59.65 36.03 REMARK 500 ALA H 114 158.13 -37.17 REMARK 500 THR H 116 139.31 69.75 REMARK 500 THR H 117 -45.29 -142.39 REMARK 500 ALA H 118 134.97 83.14 REMARK 500 THR H 131 -42.11 -130.73 REMARK 500 THR H 132 108.44 71.09 REMARK 500 SER H 149 89.99 103.08 REMARK 500 SER H 161 -83.01 -77.76 REMARK 500 SER H 172 -120.78 54.48 REMARK 500 PRO H 189 -48.48 2.18 REMARK 500 ARG H 213 59.98 -113.39 REMARK 500 CYS H 215 -98.46 -106.29 REMARK 500 CYS H 217 -177.47 50.78 REMARK 500 LYS H 218 64.25 -179.44 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: NON-CIS, NON-TRANS REMARK 500 REMARK 500 THE FOLLOWING PEPTIDE BONDS DEVIATE SIGNIFICANTLY FROM BOTH REMARK 500 CIS AND TRANS CONFORMATION. CIS BONDS, IF ANY, ARE LISTED REMARK 500 ON CISPEP RECORDS. TRANS IS DEFINED AS 180 +/- 30 AND REMARK 500 CIS IS DEFINED AS 0 +/- 30 DEGREES. REMARK 500 MODEL OMEGA REMARK 500 TRP H 188 PRO H 189 -90.73 REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 2ZCK RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF HUMAN PSA AND ITS SUBSTRATE-ACYL INTERMEDIATE REMARK 900 COMPLEXED WITH ANTIBODY 8G8F5 AT PH7.3 REMARK 900 RELATED ID: 2ZCL RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF HUMAN PSA COMPLEXED WITH ANTIBODY 8G8F5 AT REMARK 900 PH5.5 REMARK 999 REMARK 999 SEQUENCE REMARK 999 A SEQUENCE DATABASE REFERENCE FOR CHAIN L AND H DOES NOT CURRENTLY REMARK 999 EXIST. DBREF 2ZCH P 16 246 UNP P07288 KLK3_HUMAN 25 261 DBREF 2ZCH L 1 211 PDB 2ZCH 2ZCH 1 211 DBREF 2ZCH H 1 220 PDB 2ZCH 2ZCH 1 220 SEQRES 1 P 237 ILE VAL GLY GLY TRP GLU CYS GLU LYS HIS SER GLN PRO SEQRES 2 P 237 TRP GLN VAL LEU VAL ALA SER ARG GLY ARG ALA VAL CYS SEQRES 3 P 237 GLY GLY VAL LEU VAL HIS PRO GLN TRP VAL LEU THR ALA SEQRES 4 P 237 ALA HIS CYS ILE ARG ASN LYS SER VAL ILE LEU LEU GLY SEQRES 5 P 237 ARG HIS SER LEU PHE HIS PRO GLU ASP THR GLY GLN VAL SEQRES 6 P 237 PHE GLN VAL SER HIS SER PHE PRO HIS PRO LEU TYR ASP SEQRES 7 P 237 MET SER LEU LEU LYS ASN ARG PHE LEU ARG PRO GLY ASP SEQRES 8 P 237 ASP SER SER HIS ASP LEU MET LEU LEU ARG LEU SER GLU SEQRES 9 P 237 PRO ALA GLU LEU THR ASP ALA VAL LYS VAL MET ASP LEU SEQRES 10 P 237 PRO THR GLN GLU PRO ALA LEU GLY THR THR CYS TYR ALA SEQRES 11 P 237 SER GLY TRP GLY SER ILE GLU PRO GLU GLU PHE LEU THR SEQRES 12 P 237 PRO LYS LYS LEU GLN CYS VAL ASP LEU HIS VAL ILE SER SEQRES 13 P 237 ASN ASP VAL CYS ALA GLN VAL HIS PRO GLN LYS VAL THR SEQRES 14 P 237 LYS PHE MET LEU CYS ALA GLY ARG TRP THR GLY GLY LYS SEQRES 15 P 237 SER THR CYS SER GLY ASP SER GLY GLY PRO LEU VAL CYS SEQRES 16 P 237 ASN GLY VAL LEU GLN GLY ILE THR SER TRP GLY SER GLU SEQRES 17 P 237 PRO CYS ALA LEU PRO GLU ARG PRO SER LEU TYR THR LYS SEQRES 18 P 237 VAL VAL HIS TYR ARG LYS TRP ILE LYS ASP THR ILE VAL SEQRES 19 P 237 ALA ASN PRO SEQRES 1 L 215 ASP ILE VAL LEU THR GLN SER PRO ALA SER LEU ALA VAL SEQRES 2 L 215 SER LEU GLY GLN ARG ALA THR ILE SER CYS LYS ALA SER SEQRES 3 L 215 GLN SER VAL ASP PHE ASP GLY ASP SER TYR MET ASN TRP SEQRES 4 L 215 TYR GLN GLN LYS PRO GLY GLN PRO PRO LYS LEU LEU ILE SEQRES 5 L 215 PHE ALA ALA SER ASN LEU ALA SER GLY ILE PRO ALA ARG SEQRES 6 L 215 LEU SER GLY SER GLY SER GLY THR ASP PHE THR LEU ASN SEQRES 7 L 215 ILE GLN PRO VAL GLU GLU GLU ASP ALA ALA THR TYR TYR SEQRES 8 L 215 CYS GLN GLN SER ASN GLU ASP PRO TYR THR PHE GLY GLY SEQRES 9 L 215 GLY THR LYS LEU GLU ILE LYS ARG ALA ASP ALA ALA PRO SEQRES 10 L 215 THR VAL SER ILE PHE PRO PRO SER SER GLU GLN LEU THR SEQRES 11 L 215 SER GLY GLY ALA SER VAL VAL CYS PHE LEU ASN ASN PHE SEQRES 12 L 215 TYR PRO LYS ASP ILE ASN VAL LYS TRP LYS ILE ASP GLY SEQRES 13 L 215 SER GLU ARG GLN ASN GLY VAL LEU ASN SER TRP THR ASP SEQRES 14 L 215 GLN ASP SER LYS ASP SER THR TYR SER MET SER SER THR SEQRES 15 L 215 LEU THR LEU THR LYS ASP GLU TYR GLU ARG HIS ASN SER SEQRES 16 L 215 TYR THR CYS GLU ALA THR HIS LYS THR SER THR SER PRO SEQRES 17 L 215 ILE VAL LYS SER PHE ASN ARG SEQRES 1 H 229 GLN VAL GLN LEU GLN GLN SER GLY ASP ASP LEU VAL LYS SEQRES 2 H 229 PRO GLY ALA SER VAL LYS LEU SER CYS LYS ALA SER GLY SEQRES 3 H 229 TYR THR PHE THR THR TYR TYR ILE ASN TRP MET ARG GLN SEQRES 4 H 229 ARG PRO GLY GLN GLY LEU GLU TRP ILE GLY ARG ILE ALA SEQRES 5 H 229 PRO ALA SER GLY THR THR TYR SER SER GLU MET PHE LYS SEQRES 6 H 229 ASP LYS ALA THR LEU THR VAL ASP THR SER SER ASN THR SEQRES 7 H 229 ALA TYR ILE GLN LEU SER SER LEU SER SER GLU ASP SER SEQRES 8 H 229 ALA VAL TYR PHE CYS ALA ARG ALA ASP TYR GLY PHE ASN SEQRES 9 H 229 SER GLY GLU ALA MET ASP TYR TRP GLY GLN GLY THR SER SEQRES 10 H 229 VAL THR VAL SER SER ALA LYS THR THR ALA PRO PRO VAL SEQRES 11 H 229 TYR PRO LEU ALA PRO VAL CYS GLY ASP THR THR GLY SER SEQRES 12 H 229 SER VAL THR LEU GLY CYS LEU VAL LYS GLY TYR PHE PRO SEQRES 13 H 229 GLU SER VAL THR LEU LEU TRP ASN SER GLY SER LEU SER SEQRES 14 H 229 SER GLY VAL HIS THR PHE PRO ALA VAL LEU GLN SER ASP SEQRES 15 H 229 LEU TYR THR LEU SER SER SER VAL THR VAL THR SER SER SEQRES 16 H 229 THR TRP PRO SER GLN SER ILE THR CYS ASN VAL ALA HIS SEQRES 17 H 229 PRO ALA SER SER THR LYS VAL ASP LYS LYS ILE VAL PRO SEQRES 18 H 229 ARG ASP CYS GLY CYS LYS PRO CYS HET NDG P 401 15 HET NDG P 403 15 HET CL P2001 1 HET PO4 H1001 5 HETNAM NDG 2-ACETAMIDO-2-DEOXY-ALPHA-D-GLUCOPYRANOSE HETNAM CL CHLORIDE ION HETNAM PO4 PHOSPHATE ION HETSYN NDG N-ACETYL-ALPHA-D-GLUCOSAMINE; 2-ACETAMIDO-2-DEOXY- HETSYN 2 NDG ALPHA-D-GLUCOSE; 2-ACETAMIDO-2-DEOXY-D-GLUCOSE; 2- HETSYN 3 NDG ACETAMIDO-2-DEOXY-GLUCOSE; 2-(ACETYLAMINO)-2-DEOXY-A- HETSYN 4 NDG D-GLUCOPYRANOSE FORMUL 4 NDG 2(C8 H15 N O6) FORMUL 6 CL CL 1- FORMUL 7 PO4 O4 P 3- FORMUL 8 HOH *66(H2 O) HELIX 1 1 ALA P 55 ILE P 59 5 5 HELIX 2 2 ASP P 95 LYS P 95E 5 6 HELIX 3 3 SER P 164 HIS P 172 1 9 HELIX 4 4 TYR P 234 ALA P 244 1 11 HELIX 5 5 GLU L 79 ALA L 83 5 5 HELIX 6 6 SER L 121 THR L 126 1 6 HELIX 7 7 LYS L 183 ARG L 188 1 6 HELIX 8 8 THR H 28 TYR H 32 5 5 HELIX 9 9 GLU H 61 LYS H 64 5 4 HELIX 10 10 THR H 73 SER H 75 5 3 HELIX 11 11 SER H 83 SER H 87 5 5 HELIX 12 12 SER H 156 SER H 158 5 3 HELIX 13 13 PRO H 200 SER H 203 5 4 SHEET 1 A 8 TRP P 20 GLU P 21 0 SHEET 2 A 8 GLN P 156 ILE P 163 -1 O CYS P 157 N TRP P 20 SHEET 3 A 8 MET P 180 GLY P 184 -1 O GLY P 184 N HIS P 161 SHEET 4 A 8 SER P 226 LYS P 230 -1 O TYR P 228 N LEU P 181 SHEET 5 A 8 LEU P 209 TRP P 215 -1 N TRP P 215 O LEU P 227 SHEET 6 A 8 PRO P 198 VAL P 200 -1 N LEU P 199 O GLN P 210 SHEET 7 A 8 THR P 135 GLY P 140 -1 N TYR P 137 O VAL P 200 SHEET 8 A 8 GLN P 156 ILE P 163 -1 O LEU P 160 N CYS P 136 SHEET 1 B 7 GLN P 30 ALA P 34 0 SHEET 2 B 7 ALA P 39 HIS P 48 -1 O CYS P 42 N VAL P 33 SHEET 3 B 7 TRP P 51 THR P 54 -1 O LEU P 53 N VAL P 45 SHEET 4 B 7 MET P 104 LEU P 108 -1 O LEU P 106 N VAL P 52 SHEET 5 B 7 GLN P 81 PRO P 90 -1 N PHE P 89 O LEU P 105 SHEET 6 B 7 VAL P 64 LEU P 67 -1 N ILE P 65 O PHE P 83 SHEET 7 B 7 GLN P 30 ALA P 34 -1 N ALA P 34 O VAL P 64 SHEET 1 C 4 LEU L 4 SER L 7 0 SHEET 2 C 4 ALA L 19 ALA L 25 -1 O SER L 22 N SER L 7 SHEET 3 C 4 ASP L 70 ILE L 75 -1 O LEU L 73 N ILE L 21 SHEET 4 C 4 LEU L 62 SER L 67 -1 N SER L 65 O THR L 72 SHEET 1 D 6 SER L 10 SER L 14 0 SHEET 2 D 6 THR L 102 LYS L 107 1 O GLU L 105 N LEU L 11 SHEET 3 D 6 ALA L 84 GLN L 90 -1 N ALA L 84 O LEU L 104 SHEET 4 D 6 MET L 33 GLN L 38 -1 N ASN L 34 O GLN L 89 SHEET 5 D 6 LYS L 45 PHE L 49 -1 O LEU L 47 N TRP L 35 SHEET 6 D 6 ASN L 53 LEU L 54 -1 O ASN L 53 N PHE L 49 SHEET 1 E 4 SER L 10 SER L 14 0 SHEET 2 E 4 THR L 102 LYS L 107 1 O GLU L 105 N LEU L 11 SHEET 3 E 4 ALA L 84 GLN L 90 -1 N ALA L 84 O LEU L 104 SHEET 4 E 4 THR L 97 PHE L 98 -1 O THR L 97 N GLN L 90 SHEET 1 F 4 THR L 114 PHE L 118 0 SHEET 2 F 4 GLY L 129 PHE L 139 -1 O ASN L 137 N THR L 114 SHEET 3 F 4 TYR L 173 THR L 182 -1 O MET L 175 N LEU L 136 SHEET 4 F 4 VAL L 159 TRP L 163 -1 N LEU L 160 O THR L 178 SHEET 1 G 3 ILE L 144 ILE L 150 0 SHEET 2 G 3 TYR L 192 HIS L 198 -1 O GLU L 195 N LYS L 147 SHEET 3 G 3 ILE L 205 PHE L 209 -1 O ILE L 205 N ALA L 196 SHEET 1 H 4 GLN H 3 GLN H 6 0 SHEET 2 H 4 VAL H 18 SER H 25 -1 O LYS H 23 N GLN H 5 SHEET 3 H 4 THR H 77 LEU H 82 -1 O ALA H 78 N CYS H 22 SHEET 4 H 4 ALA H 67 ASP H 72 -1 N ASP H 72 O THR H 77 SHEET 1 I 6 ASP H 10 VAL H 12 0 SHEET 2 I 6 THR H 107 VAL H 111 1 O THR H 110 N ASP H 10 SHEET 3 I 6 ALA H 88 ALA H 95 -1 N TYR H 90 O THR H 107 SHEET 4 I 6 TYR H 33 GLN H 39 -1 N GLN H 39 O VAL H 89 SHEET 5 I 6 LEU H 45 ILE H 51 -1 O GLY H 49 N TRP H 36 SHEET 6 I 6 THR H 57 SER H 59 -1 O TYR H 58 N ARG H 50 SHEET 1 J 4 ASP H 10 VAL H 12 0 SHEET 2 J 4 THR H 107 VAL H 111 1 O THR H 110 N ASP H 10 SHEET 3 J 4 ALA H 88 ALA H 95 -1 N TYR H 90 O THR H 107 SHEET 4 J 4 MET H 100E TRP H 103 -1 O TYR H 102 N ARG H 94 SHEET 1 K 4 VAL H 121 LEU H 124 0 SHEET 2 K 4 SER H 135 TYR H 145 -1 O LEU H 141 N TYR H 122 SHEET 3 K 4 LEU H 174 THR H 184 -1 O VAL H 183 N VAL H 136 SHEET 4 K 4 GLY H 162 THR H 165 -1 N HIS H 164 O SER H 180 SHEET 1 L 4 VAL H 121 LEU H 124 0 SHEET 2 L 4 SER H 135 TYR H 145 -1 O LEU H 141 N TYR H 122 SHEET 3 L 4 LEU H 174 THR H 184 -1 O VAL H 183 N VAL H 136 SHEET 4 L 4 VAL H 169 GLN H 171 -1 N VAL H 169 O THR H 176 SHEET 1 M 3 THR H 151 TRP H 154 0 SHEET 2 M 3 THR H 194 HIS H 199 -1 O ALA H 198 N THR H 151 SHEET 3 M 3 THR H 204 LYS H 209 -1 O THR H 204 N HIS H 199 SSBOND 1 CYS P 22 CYS P 157 1555 1555 2.07 SSBOND 2 CYS P 42 CYS P 58 1555 1555 2.05 SSBOND 3 CYS P 136 CYS P 201 1555 1555 2.08 SSBOND 4 CYS P 168 CYS P 182 1555 1555 2.07 SSBOND 5 CYS P 191 CYS P 220 1555 1555 2.12 SSBOND 6 CYS L 23 CYS L 88 1555 1555 2.15 SSBOND 7 CYS L 134 CYS L 194 1555 1555 2.06 SSBOND 8 CYS H 22 CYS H 92 1555 1555 2.11 SSBOND 9 CYS H 140 CYS H 195 1555 1555 2.11 CISPEP 1 GLU P 218 PRO P 219 0 0.26 CISPEP 2 SER L 7 PRO L 8 0 -3.63 CISPEP 3 GLN L 76 PRO L 77 0 -12.22 CISPEP 4 ASP L 94 PRO L 95 0 -0.51 CISPEP 5 TYR L 140 PRO L 141 0 -5.08 CISPEP 6 PHE H 146 PRO H 147 0 -4.74 CRYST1 87.360 87.360 236.332 90.00 90.00 90.00 P 41 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 0.011447 0.000000 0.000000 0.00000 SCALE2 0.000000 0.011447 0.000000 0.00000 SCALE3 0.000000 0.000000 0.004231 0.00000