HEADER CELL ADHESION 04-MAY-15 4ZMP TITLE CRYSTAL STRUCTURE OF HUMAN P-CADHERIN (SS-DIMER Q101L) COMPND MOL_ID: 1; COMPND 2 MOLECULE: CADHERIN-3; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: UNP RESIDUES 108-320; COMPND 5 SYNONYM: PLACENTAL CADHERIN,P-CADHERIN; COMPND 6 ENGINEERED: YES; COMPND 7 MUTATION: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 3 ORGANISM_COMMON: HUMAN; SOURCE 4 ORGANISM_TAXID: 9606; SOURCE 5 GENE: CDH3, CDHP; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: CHAMPION PET SUMO KEYWDS DIMERIZATION, CONFORMATIONAL CHANGE, CELL ADHESION EXPDTA X-RAY DIFFRACTION AUTHOR J.M.M.CAAVEIRO,S.KUDO,K.TSUMOTO REVDAT 4 08-NOV-23 4ZMP 1 LINK REVDAT 3 19-FEB-20 4ZMP 1 JRNL REMARK REVDAT 2 21-SEP-16 4ZMP 1 JRNL REVDAT 1 07-SEP-16 4ZMP 0 JRNL AUTH S.KUDO,J.M.CAAVEIRO,K.TSUMOTO JRNL TITL ADHESIVE DIMERIZATION OF HUMAN P-CADHERIN CATALYZED BY A JRNL TITL 2 CHAPERONE-LIKE MECHANISM JRNL REF STRUCTURE V. 24 1523 2016 JRNL REFN ISSN 0969-2126 JRNL PMID 27545624 JRNL DOI 10.1016/J.STR.2016.07.002 REMARK 2 REMARK 2 RESOLUTION. 2.15 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.8.0073 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) : 2.15 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 35.74 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 94.7 REMARK 3 NUMBER OF REFLECTIONS : 21587 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) : 0.223 REMARK 3 R VALUE (WORKING SET) : 0.222 REMARK 3 FREE R VALUE : 0.252 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 1127 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) : 2.15 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.21 REMARK 3 REFLECTION IN BIN (WORKING SET) : 1398 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 83.30 REMARK 3 BIN R VALUE (WORKING SET) : 0.3020 REMARK 3 BIN FREE R VALUE SET COUNT : 73 REMARK 3 BIN FREE R VALUE : 0.3470 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 1638 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 3 REMARK 3 SOLVENT ATOMS : 75 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 54.51 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.09000 REMARK 3 B22 (A**2) : 2.19000 REMARK 3 B33 (A**2) : -2.42000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 1.26000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.169 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.158 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.164 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 13.416 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.947 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.932 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 1673 ; 0.018 ; 0.019 REMARK 3 BOND LENGTHS OTHERS (A): 1555 ; 0.001 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 2277 ; 2.003 ; 1.956 REMARK 3 BOND ANGLES OTHERS (DEGREES): 3608 ; 0.904 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 212 ; 7.585 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 74 ;35.482 ;25.676 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 273 ;15.254 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 6 ;23.290 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 263 ; 0.109 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 1879 ; 0.010 ; 0.021 REMARK 3 GENERAL PLANES OTHERS (A): 341 ; 0.001 ; 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): 851 ; 2.395 ; 2.917 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 850 ; 2.374 ; 2.915 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 1062 ; 3.392 ; 4.372 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): 1063 ; 3.392 ; 4.373 REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 822 ; 2.854 ; 3.223 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): 819 ; 2.854 ; 3.220 REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): 1214 ; 4.346 ; 4.697 REMARK 3 LONG RANGE B REFINED ATOMS (A**2): 1822 ; 7.566 ;23.992 REMARK 3 LONG RANGE B OTHER ATOMS (A**2): 1804 ; 7.529 ;23.750 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 : 1 REMARK 3 REMARK 3 TLS GROUP : 1 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 1 A 213 REMARK 3 ORIGIN FOR THE GROUP (A): -18.6560 25.2610 16.0160 REMARK 3 T TENSOR REMARK 3 T11: 0.0832 T22: 0.4303 REMARK 3 T33: 0.0535 T12: -0.1397 REMARK 3 T13: 0.0167 T23: -0.0714 REMARK 3 L TENSOR REMARK 3 L11: 4.8087 L22: 1.1378 REMARK 3 L33: 0.9959 L12: 2.2348 REMARK 3 L13: -0.9933 L23: -0.4609 REMARK 3 S TENSOR REMARK 3 S11: 0.0193 S12: -0.1849 S13: -0.1681 REMARK 3 S21: -0.0100 S22: -0.1122 S23: -0.0176 REMARK 3 S31: 0.1918 S32: -0.0951 S33: 0.0930 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 4ZMP COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 13-MAY-15. REMARK 100 THE DEPOSITION ID IS D_1000209545. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 16-DEC-13 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7.5 REMARK 200 NUMBER OF CRYSTALS USED : NULL REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : PHOTON FACTORY REMARK 200 BEAMLINE : BL-5A REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.000 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 315 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : MOSFLM REMARK 200 DATA SCALING SOFTWARE : SCALA REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 22729 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.150 REMARK 200 RESOLUTION RANGE LOW (A) : 35.740 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 95.2 REMARK 200 DATA REDUNDANCY : 3.500 REMARK 200 R MERGE (I) : 0.08500 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 8.6000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.15 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.27 REMARK 200 COMPLETENESS FOR SHELL (%) : 89.7 REMARK 200 DATA REDUNDANCY IN SHELL : 3.30 REMARK 200 R MERGE FOR SHELL (I) : 0.49000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 2.300 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHASER REMARK 200 STARTING MODEL: 4ZMN REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 74.32 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 4.79 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 30% PEG 400 150 MM CACL2 5% GLYCEROL REMARK 280 95 MM HEPES, PH 7.5, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE REMARK 280 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: C 1 2 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,Y,-Z REMARK 290 3555 X+1/2,Y+1/2,Z 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 0.00000 REMARK 290 SMTRY2 2 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 3 1.000000 0.000000 0.000000 60.35000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 38.99500 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 60.35000 REMARK 290 SMTRY2 4 0.000000 1.000000 0.000000 38.99500 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: 1850 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 22490 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -37.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A 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 350 BIOMT1 2 -1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 2 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 2 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 410 LIES ON A SPECIAL POSITION. REMARK 375 HOH A 434 LIES ON A SPECIAL POSITION. REMARK 375 HOH A 449 LIES ON A SPECIAL POSITION. REMARK 375 HOH A 471 LIES ON A SPECIAL POSITION. REMARK 375 HOH A 472 LIES ON A SPECIAL POSITION. 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 458 O HOH A 461 2.18 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 ARG A 68 NE - CZ - NH1 ANGL. DEV. = 3.1 DEGREES REMARK 500 ARG A 68 NE - CZ - NH2 ANGL. DEV. = -3.1 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 ALA A 43 -78.11 -128.54 REMARK 500 ASN A 102 78.79 -67.68 REMARK 500 MET A 128 -178.66 -171.78 REMARK 500 ILE A 139 -61.06 -90.28 REMARK 500 SER A 152 161.07 173.97 REMARK 500 LYS A 156 51.62 -100.46 REMARK 500 ASP A 197 40.04 30.98 REMARK 500 REMARK 500 REMARK: NULL 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 GLU A 11 OE2 REMARK 620 2 GLU A 69 OE1 81.8 REMARK 620 3 GLU A 69 OE2 100.3 49.1 REMARK 620 4 ASP A 100 OD1 85.0 115.6 72.3 REMARK 620 5 LEU A 101 O 85.6 150.0 160.8 90.2 REMARK 620 6 ASP A 103 OD2 92.5 76.4 120.5 167.2 77.1 REMARK 620 7 ASP A 136 OD1 169.0 107.0 90.6 96.6 83.6 83.5 REMARK 620 N 1 2 3 4 5 6 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CA A 302 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU A 11 OE1 REMARK 620 2 ASP A 67 OD1 90.4 REMARK 620 3 GLU A 69 OE1 91.9 89.9 REMARK 620 4 ASP A 103 OD1 100.6 159.5 106.8 REMARK 620 5 HOH A 407 O 89.9 80.8 170.5 82.0 REMARK 620 6 HOH A 428 O 174.3 87.3 93.2 80.1 84.6 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CA A 303 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASN A 102 OD1 REMARK 620 2 HIS A 104 O 107.2 REMARK 620 3 ASP A 134 OD1 155.5 86.0 REMARK 620 4 ASP A 134 OD2 141.1 101.6 49.7 REMARK 620 5 ASP A 136 OD2 78.0 81.3 125.1 81.1 REMARK 620 6 ASN A 143 O 81.8 169.7 87.4 68.1 96.2 REMARK 620 7 ASP A 195 OD2 72.1 81.8 90.1 138.7 139.3 106.1 REMARK 620 N 1 2 3 4 5 6 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 301 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue CA A 302 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue CA A 303 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 4ZML RELATED DB: PDB REMARK 900 RELATED ID: 4ZMN RELATED DB: PDB REMARK 900 RELATED ID: 4ZMO RELATED DB: PDB REMARK 900 RELATED ID: 4ZMQ RELATED DB: PDB REMARK 900 RELATED ID: 4ZMT RELATED DB: PDB REMARK 900 RELATED ID: 4ZMV RELATED DB: PDB REMARK 900 RELATED ID: 4ZMW RELATED DB: PDB REMARK 900 RELATED ID: 4ZMX RELATED DB: PDB REMARK 900 RELATED ID: 4ZMY RELATED DB: PDB REMARK 900 RELATED ID: 4ZMZ RELATED DB: PDB DBREF 4ZMP A 1 213 UNP P22223 CADH3_HUMAN 108 320 SEQADV 4ZMP LEU A 101 UNP P22223 GLN 208 ENGINEERED MUTATION SEQRES 1 A 213 ASP TRP VAL VAL ALA PRO ILE SER VAL PRO GLU ASN GLY SEQRES 2 A 213 LYS GLY PRO PHE PRO GLN ARG LEU ASN GLN LEU LYS SER SEQRES 3 A 213 ASN LYS ASP ARG ASP THR LYS ILE PHE TYR SER ILE THR SEQRES 4 A 213 GLY PRO GLY ALA ASP SER PRO PRO GLU GLY VAL PHE ALA SEQRES 5 A 213 VAL GLU LYS GLU THR GLY TRP LEU LEU LEU ASN LYS PRO SEQRES 6 A 213 LEU ASP ARG GLU GLU ILE ALA LYS TYR GLU LEU PHE GLY SEQRES 7 A 213 HIS ALA VAL SER GLU ASN GLY ALA SER VAL GLU ASP PRO SEQRES 8 A 213 MET ASN ILE SER ILE ILE VAL THR ASP LEU ASN ASP HIS SEQRES 9 A 213 LYS PRO LYS PHE THR GLN ASP THR PHE ARG GLY SER VAL SEQRES 10 A 213 LEU GLU GLY VAL LEU PRO GLY THR SER VAL MET GLN VAL SEQRES 11 A 213 THR ALA THR ASP GLU ASP ASP ALA ILE TYR THR TYR ASN SEQRES 12 A 213 GLY VAL VAL ALA TYR SER ILE HIS SER GLN GLU PRO LYS SEQRES 13 A 213 ASP PRO HIS ASP LEU MET PHE THR ILE HIS ARG SER THR SEQRES 14 A 213 GLY THR ILE SER VAL ILE SER SER GLY LEU ASP ARG GLU SEQRES 15 A 213 LYS VAL PRO GLU TYR THR LEU THR ILE GLN ALA THR ASP SEQRES 16 A 213 MET ASP GLY ASP GLY SER THR THR THR ALA VAL ALA VAL SEQRES 17 A 213 VAL GLU ILE LEU ASP HET CA A 301 1 HET CA A 302 1 HET CA A 303 1 HETNAM CA CALCIUM ION FORMUL 2 CA 3(CA 2+) FORMUL 5 HOH *75(H2 O) HELIX 1 AA1 SER A 26 ASP A 31 5 6 HELIX 2 AA2 MET A 196 ASP A 199 5 4 SHEET 1 AA1 4 ILE A 7 PRO A 10 0 SHEET 2 AA1 4 MET A 92 THR A 99 1 O ILE A 97 N ILE A 7 SHEET 3 AA1 4 LYS A 73 SER A 82 -1 N LEU A 76 O ILE A 94 SHEET 4 AA1 4 ILE A 34 THR A 39 -1 N PHE A 35 O VAL A 81 SHEET 1 AA2 3 GLN A 19 GLN A 23 0 SHEET 2 AA2 3 TRP A 59 LEU A 62 -1 O LEU A 62 N GLN A 19 SHEET 3 AA2 3 PHE A 51 VAL A 53 -1 N ALA A 52 O LEU A 61 SHEET 1 AA3 2 LYS A 107 PHE A 108 0 SHEET 2 AA3 2 ALA A 132 THR A 133 -1 O THR A 133 N LYS A 107 SHEET 1 AA4 4 THR A 112 LEU A 118 0 SHEET 2 AA4 4 THR A 202 LEU A 212 1 O VAL A 208 N PHE A 113 SHEET 3 AA4 4 GLU A 186 THR A 194 -1 N TYR A 187 O VAL A 209 SHEET 4 AA4 4 ALA A 147 GLU A 154 -1 N SER A 149 O GLN A 192 SHEET 1 AA5 3 SER A 126 GLN A 129 0 SHEET 2 AA5 3 THR A 171 VAL A 174 -1 O ILE A 172 N VAL A 127 SHEET 3 AA5 3 PHE A 163 ILE A 165 -1 N THR A 164 O SER A 173 LINK OE2 GLU A 11 CA CA A 301 1555 1555 2.34 LINK OE1 GLU A 11 CA CA A 302 1555 1555 2.37 LINK OD1 ASP A 67 CA CA A 302 1555 1555 2.07 LINK OE1 GLU A 69 CA CA A 301 1555 1555 2.84 LINK OE2 GLU A 69 CA CA A 301 1555 1555 2.18 LINK OE1 GLU A 69 CA CA A 302 1555 1555 2.19 LINK OD1 ASP A 100 CA CA A 301 1555 1555 2.31 LINK O LEU A 101 CA CA A 301 1555 1555 2.24 LINK OD1 ASN A 102 CA CA A 303 1555 1555 2.37 LINK OD2 ASP A 103 CA CA A 301 1555 1555 2.01 LINK OD1 ASP A 103 CA CA A 302 1555 1555 2.04 LINK O HIS A 104 CA CA A 303 1555 1555 2.17 LINK OD1 ASP A 134 CA CA A 303 1555 1555 2.67 LINK OD2 ASP A 134 CA CA A 303 1555 1555 2.44 LINK OD1 ASP A 136 CA CA A 301 1555 1555 2.44 LINK OD2 ASP A 136 CA CA A 303 1555 1555 2.38 LINK O ASN A 143 CA CA A 303 1555 1555 2.31 LINK OD2 ASP A 195 CA CA A 303 1555 1555 2.17 LINK CA CA A 302 O HOH A 407 1555 1555 2.31 LINK CA CA A 302 O HOH A 428 1555 1555 2.29 CISPEP 1 GLY A 15 PRO A 16 0 11.78 CISPEP 2 PHE A 17 PRO A 18 0 9.21 CISPEP 3 PRO A 46 PRO A 47 0 -4.53 CISPEP 4 GLU A 154 PRO A 155 0 -4.76 CISPEP 5 ASP A 157 PRO A 158 0 -2.94 SITE 1 AC1 6 GLU A 11 GLU A 69 ASP A 100 LEU A 101 SITE 2 AC1 6 ASP A 103 ASP A 136 SITE 1 AC2 6 GLU A 11 ASP A 67 GLU A 69 ASP A 103 SITE 2 AC2 6 HOH A 407 HOH A 428 SITE 1 AC3 6 ASN A 102 HIS A 104 ASP A 134 ASP A 136 SITE 2 AC3 6 ASN A 143 ASP A 195 CRYST1 120.700 77.990 49.230 90.00 105.78 90.00 C 1 2 1 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 0.008285 0.000000 0.002341 0.00000 SCALE2 0.000000 0.012822 0.000000 0.00000 SCALE3 0.000000 0.000000 0.021108 0.00000