HEADER CELL ADHESION 04-MAY-15 4ZML TITLE CRYSTAL STRUCTURE OF HUMAN P-CADHERIN (SS-DIMER) 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 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 4ZML 1 LINK REVDAT 3 24-JAN-18 4ZML 1 JRNL REMARK REVDAT 2 21-SEP-16 4ZML 1 JRNL REVDAT 1 07-SEP-16 4ZML 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. 1.85 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) : 1.85 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 40.46 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 99.8 REMARK 3 NUMBER OF REFLECTIONS : 36701 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) : 0.196 REMARK 3 R VALUE (WORKING SET) : 0.195 REMARK 3 FREE R VALUE : 0.218 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.100 REMARK 3 FREE R VALUE TEST SET COUNT : 1553 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) : 1.85 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.90 REMARK 3 REFLECTION IN BIN (WORKING SET) : 2726 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 100.0 REMARK 3 BIN R VALUE (WORKING SET) : 0.3140 REMARK 3 BIN FREE R VALUE SET COUNT : 106 REMARK 3 BIN FREE R VALUE : 0.2700 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 1639 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 39 REMARK 3 SOLVENT ATOMS : 191 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 42.60 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.16000 REMARK 3 B22 (A**2) : 2.44000 REMARK 3 B33 (A**2) : -2.19000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 0.46000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.093 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.092 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.079 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 4.951 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.958 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.945 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 1704 ; 0.016 ; 0.019 REMARK 3 BOND LENGTHS OTHERS (A): 1594 ; 0.002 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 2306 ; 1.764 ; 1.966 REMARK 3 BOND ANGLES OTHERS (DEGREES): 3703 ; 0.802 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 212 ; 6.769 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 75 ;33.436 ;25.733 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 273 ;12.118 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 6 ; 9.728 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 262 ; 0.104 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 1885 ; 0.008 ; 0.021 REMARK 3 GENERAL PLANES OTHERS (A): 343 ; 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 ; 2.091 ; 2.585 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 850 ; 2.086 ; 2.582 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 1062 ; 2.879 ; 3.864 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): 1063 ; 2.882 ; 3.867 REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 853 ; 3.242 ; 3.122 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): 853 ; 3.226 ; 3.123 REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): 1245 ; 4.781 ; 4.468 REMARK 3 LONG RANGE B REFINED ATOMS (A**2): 1896 ; 7.265 ;22.629 REMARK 3 LONG RANGE B OTHER ATOMS (A**2): 1819 ; 7.101 ;21.855 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): 114.0522 -10.6894 -31.3338 REMARK 3 T TENSOR REMARK 3 T11: 0.0637 T22: 0.0725 REMARK 3 T33: 0.0439 T12: -0.0566 REMARK 3 T13: 0.0236 T23: -0.0314 REMARK 3 L TENSOR REMARK 3 L11: 4.3908 L22: 1.0950 REMARK 3 L33: 1.1069 L12: 2.0234 REMARK 3 L13: -1.1487 L23: -0.5103 REMARK 3 S TENSOR REMARK 3 S11: -0.1019 S12: -0.0579 S13: -0.2455 REMARK 3 S21: -0.0738 S22: -0.0344 S23: -0.0627 REMARK 3 S31: 0.2130 S32: -0.1415 S33: 0.1362 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 4ZML COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 12-MAY-15. REMARK 100 THE DEPOSITION ID IS D_1000209541. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 04-NOV-14 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 : 38255 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.850 REMARK 200 RESOLUTION RANGE LOW (A) : 40.460 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 200 DATA REDUNDANCY : 5.500 REMARK 200 R MERGE (I) : 0.06600 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 14.5000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.85 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.95 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : 5.50 REMARK 200 R MERGE FOR SHELL (I) : 0.63500 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 2.600 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 (%): 74.85 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 4.89 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 31% PEG 400 15 MM CACL2 5% GLYCEROL, REMARK 280 PH 7.5, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 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 59.47500 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 40.45500 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 59.47500 REMARK 290 SMTRY2 4 0.000000 1.000000 0.000000 40.45500 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: 3130 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 24140 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -98.0 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 251.24944 REMARK 350 BIOMT2 2 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 2 0.000000 0.000000 -1.000000 -47.33355 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 CA CA A 304 LIES ON A SPECIAL POSITION. REMARK 375 HOH A 456 LIES ON A SPECIAL POSITION. REMARK 375 HOH A 549 LIES ON A SPECIAL POSITION. REMARK 375 HOH A 567 LIES ON A SPECIAL POSITION. REMARK 375 HOH A 576 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 SER A 116 O HOH A 401 2.17 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 GLU A 135 CD GLU A 135 OE1 0.081 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 103 CB - CG - OD2 ANGL. DEV. = 5.4 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 -77.63 -119.76 REMARK 500 LYS A 156 37.69 -85.28 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 84.8 REMARK 620 3 GLU A 69 OE2 103.5 46.2 REMARK 620 4 ASP A 100 OD1 85.3 119.1 78.8 REMARK 620 5 GLN A 101 O 81.9 151.2 162.6 85.2 REMARK 620 6 ASP A 103 OD2 91.2 71.2 112.6 168.6 83.6 REMARK 620 7 ASP A 136 OD1 166.6 104.8 89.9 97.7 85.4 83.4 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 90.6 REMARK 620 3 GLU A 69 OE1 88.3 86.4 REMARK 620 4 ASP A 103 OD1 95.2 162.3 110.4 REMARK 620 5 ASP A 103 OD2 90.8 153.3 66.9 43.5 REMARK 620 6 HOH A 417 O 91.1 82.1 168.5 81.2 124.6 REMARK 620 7 HOH A 529 O 178.0 88.2 90.1 86.4 89.6 90.3 REMARK 620 N 1 2 3 4 5 6 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CA A 304 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU A 70 OE1 REMARK 620 2 GLU A 70 OE2 52.5 REMARK 620 3 GLU A 70 OE1 0.0 52.5 REMARK 620 4 GLU A 70 OE2 52.5 0.0 52.5 REMARK 620 5 HOH A 531 O 126.5 75.1 126.5 75.1 REMARK 620 6 HOH A 531 O 78.2 129.2 78.2 129.2 144.8 REMARK 620 7 HOH A 539 O 84.1 81.0 84.1 81.0 76.9 82.2 REMARK 620 8 HOH A 539 O 151.3 153.9 151.3 153.9 82.1 76.9 106.4 REMARK 620 N 1 2 3 4 5 6 7 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 101.5 REMARK 620 3 ASP A 134 OD1 161.2 87.6 REMARK 620 4 ASP A 134 OD2 141.7 95.2 51.7 REMARK 620 5 ASP A 136 OD2 71.1 77.9 127.3 79.2 REMARK 620 6 ASN A 143 O 81.8 176.1 88.6 83.3 105.3 REMARK 620 7 ASP A 195 OD2 79.9 82.9 85.0 136.7 140.9 95.6 REMARK 620 N 1 2 3 4 5 6 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CA A 305 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU A 182 OE1 REMARK 620 2 HOH A 446 O 84.1 REMARK 620 3 HOH A 521 O 171.1 94.4 REMARK 620 N 1 2 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 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue CA A 304 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue CA A 305 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue CL A 306 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue CL A 307 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue P6G A 308 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue PG4 A 309 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 4ZMN RELATED DB: PDB REMARK 900 RELATED ID: 4ZMO RELATED DB: PDB REMARK 900 RELATED ID: 4ZMP 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 4ZML A 1 213 UNP P22223 CADH3_HUMAN 108 320 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 GLN 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 HET CA A 304 1 HET CA A 305 1 HET CL A 306 1 HET CL A 307 1 HET P6G A 308 19 HET PG4 A 309 13 HETNAM CA CALCIUM ION HETNAM CL CHLORIDE ION HETNAM P6G HEXAETHYLENE GLYCOL HETNAM PG4 TETRAETHYLENE GLYCOL HETSYN P6G POLYETHYLENE GLYCOL PEG400 FORMUL 2 CA 5(CA 2+) FORMUL 7 CL 2(CL 1-) FORMUL 9 P6G C12 H26 O7 FORMUL 10 PG4 C8 H18 O5 FORMUL 11 HOH *191(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 SER A 95 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 SER A 37 O HIS A 79 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 60 N LEU A 21 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 LEU A 212 N VAL A 117 SHEET 3 AA4 4 GLU A 186 THR A 194 -1 N LEU A 189 O ALA A 207 SHEET 4 AA4 4 ALA A 147 GLU A 154 -1 N HIS A 151 O THR A 190 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 2.32 LINK OE1 GLU A 11 CA CA A 302 1555 1555 2.38 LINK OD1 ASP A 67 CA CA A 302 1555 1555 2.44 LINK OE1 GLU A 69 CA CA A 301 1555 1555 3.01 LINK OE2 GLU A 69 CA CA A 301 1555 1555 2.28 LINK OE1 GLU A 69 CA CA A 302 1555 1555 2.25 LINK OE1 GLU A 70 CA CA A 304 1555 1555 2.59 LINK OE2 GLU A 70 CA CA A 304 1555 1555 2.49 LINK OE1 GLU A 70 CA CA A 304 1555 2754 2.59 LINK OE2 GLU A 70 CA CA A 304 1555 2754 2.49 LINK OD1 ASP A 100 CA CA A 301 1555 1555 2.23 LINK O GLN A 101 CA CA A 301 1555 1555 2.32 LINK OD1 ASN A 102 CA CA A 303 1555 1555 2.36 LINK OD2 ASP A 103 CA CA A 301 1555 1555 2.18 LINK OD1 ASP A 103 CA CA A 302 1555 1555 2.26 LINK OD2 ASP A 103 CA CA A 302 1555 1555 3.19 LINK O HIS A 104 CA CA A 303 1555 1555 2.20 LINK OD1 ASP A 134 CA CA A 303 1555 1555 2.49 LINK OD2 ASP A 134 CA CA A 303 1555 1555 2.53 LINK OD1 ASP A 136 CA CA A 301 1555 1555 2.34 LINK OD2 ASP A 136 CA CA A 303 1555 1555 2.42 LINK O ASN A 143 CA CA A 303 1555 1555 2.26 LINK OE1 GLU A 182 CA CA A 305 1555 1555 2.67 LINK OD2 ASP A 195 CA CA A 303 1555 1555 2.42 LINK CA CA A 302 O HOH A 417 1555 1555 2.35 LINK CA CA A 302 O HOH A 529 1555 1555 2.26 LINK CA CA A 304 O HOH A 531 1555 1555 2.39 LINK CA CA A 304 O HOH A 531 1555 2754 2.39 LINK CA CA A 304 O HOH A 539 1555 1555 2.38 LINK CA CA A 304 O HOH A 539 1555 2754 2.39 LINK CA CA A 305 O HOH A 446 1555 4644 2.44 LINK CA CA A 305 O HOH A 521 1555 1555 2.02 CISPEP 1 GLY A 15 PRO A 16 0 5.32 CISPEP 2 PHE A 17 PRO A 18 0 2.41 CISPEP 3 PRO A 46 PRO A 47 0 -6.88 CISPEP 4 GLU A 154 PRO A 155 0 -7.47 CISPEP 5 ASP A 157 PRO A 158 0 3.92 SITE 1 AC1 6 GLU A 11 GLU A 69 ASP A 100 GLN 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 417 HOH A 529 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 SITE 1 AC4 3 GLU A 70 HOH A 531 HOH A 539 SITE 1 AC5 3 GLU A 182 HOH A 446 HOH A 521 SITE 1 AC6 2 ASP A 100 HOH A 518 SITE 1 AC7 2 GLU A 56 THR A 57 SITE 1 AC8 8 LYS A 64 PRO A 65 GLU A 69 GLU A 70 SITE 2 AC8 8 GLU A 135 HOH A 402 HOH A 464 HOH A 470 SITE 1 AC9 6 ILE A 7 GLN A 19 ARG A 20 LEU A 21 SITE 2 AC9 6 TRP A 59 HOH A 404 CRYST1 118.950 80.910 49.180 90.00 105.75 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 0.008407 0.000000 0.002371 0.00000 SCALE2 0.000000 0.012359 0.000000 0.00000 SCALE3 0.000000 0.000000 0.021127 0.00000