PDB Short entry for 4ZMN HEADER CELL ADHESION 04-MAY-15 4ZMN TITLE CRYSTAL STRUCTURE OF HUMAN P-CADHERIN (SS-DIMER LONG) COMPND MOL_ID: 1; COMPND 2 MOLECULE: CADHERIN-3; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: UNP RESIDUES 108-338; 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 CLASSICAL CADHERIN P-CADHERIN CELL-ADHESION DIMERIZATION KEYWDS 2 CONFORMATIONAL CHANGE, CELL ADHESION EXPDTA X-RAY DIFFRACTION AUTHOR J.M.M.CAAVEIRO,S.KUDO,K.TSUMOTO REVDAT 3 19-FEB-20 4ZMN 1 JRNL REMARK REVDAT 2 21-SEP-16 4ZMN 1 JRNL REVDAT 1 07-SEP-16 4ZMN 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. 2.60 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) : 2.60 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 35.67 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 99.8 REMARK 3 NUMBER OF REFLECTIONS : 9982 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) : 0.194 REMARK 3 R VALUE (WORKING SET) : 0.192 REMARK 3 FREE R VALUE : 0.243 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.800 REMARK 3 FREE R VALUE TEST SET COUNT : 501 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) : 2.60 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.67 REMARK 3 REFLECTION IN BIN (WORKING SET) : 717 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 99.60 REMARK 3 BIN R VALUE (WORKING SET) : 0.3000 REMARK 3 BIN FREE R VALUE SET COUNT : 28 REMARK 3 BIN FREE R VALUE : 0.3000 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 : 10 REMARK 3 SOLVENT ATOMS : 38 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 41.77 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.76000 REMARK 3 B22 (A**2) : -0.76000 REMARK 3 B33 (A**2) : 2.47000 REMARK 3 B12 (A**2) : -0.38000 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): 0.366 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.264 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.204 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 9.635 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.947 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.906 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 1678 ; 0.012 ; 0.019 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 2286 ; 1.569 ; 1.965 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 212 ; 6.733 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 75 ;36.674 ;25.733 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 273 ;16.555 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 6 ;12.565 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 263 ; 0.099 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 1277 ; 0.006 ; 0.021 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL 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 ; 2.851 ; 4.035 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 1062 ; 4.458 ; 6.044 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 827 ; 3.628 ; 4.278 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B REFINED ATOMS (A**2): 2350 ; 7.153 ;33.338 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 USED IF PRESENT IN REMARK 3 THE INPUT REMARK 4 REMARK 4 4ZMN 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_1000209542. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 10-JUN-12 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 : AR-NE3A 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 270 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : MOSFLM REMARK 200 DATA SCALING SOFTWARE : SCALA REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 10512 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.600 REMARK 200 RESOLUTION RANGE LOW (A) : 35.670 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 200 DATA REDUNDANCY : 8.900 REMARK 200 R MERGE (I) : 0.11100 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 13.7000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.60 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.74 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.9 REMARK 200 DATA REDUNDANCY IN SHELL : 7.10 REMARK 200 R MERGE FOR SHELL (I) : 0.52700 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> FOR SHELL : 3.400 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: 2O72 REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 61.00 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.15 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 20% PEG 550-MME 100 MM CACL2 100 MM REMARK 280 HEPES, PH 7.5, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 65 2 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -Y,X-Y,Z+2/3 REMARK 290 3555 -X+Y,-X,Z+1/3 REMARK 290 4555 -X,-Y,Z+1/2 REMARK 290 5555 Y,-X+Y,Z+1/6 REMARK 290 6555 X-Y,X,Z+5/6 REMARK 290 7555 Y,X,-Z+2/3 REMARK 290 8555 X-Y,-Y,-Z REMARK 290 9555 -X,-X+Y,-Z+1/3 REMARK 290 10555 -Y,-X,-Z+1/6 REMARK 290 11555 -X+Y,Y,-Z+1/2 REMARK 290 12555 X,X-Y,-Z+5/6 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 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 2 0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 62.10667 REMARK 290 SMTRY1 3 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 3 -0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 31.05333 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 46.58000 REMARK 290 SMTRY1 5 0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 5 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 15.52667 REMARK 290 SMTRY1 6 0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 6 0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 77.63333 REMARK 290 SMTRY1 7 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 7 0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 62.10667 REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 9 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 9 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 9 0.000000 0.000000 -1.000000 31.05333 REMARK 290 SMTRY1 10 0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 10 -0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 10 0.000000 0.000000 -1.000000 15.52667 REMARK 290 SMTRY1 11 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 11 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 11 0.000000 0.000000 -1.000000 46.58000 REMARK 290 SMTRY1 12 0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 12 0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 12 0.000000 0.000000 -1.000000 77.63333 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: 2930 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 22260 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -53.0 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 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 ALA A 214 REMARK 465 ASN A 215 REMARK 465 ASP A 216 REMARK 465 ASN A 217 REMARK 465 ALA A 218 REMARK 465 PRO A 219 REMARK 465 MET A 220 REMARK 465 PHE A 221 REMARK 465 ASP A 222 REMARK 465 PRO A 223 REMARK 465 GLN A 224 REMARK 465 LYS A 225 REMARK 465 TYR A 226 REMARK 465 GLU A 227 REMARK 465 ALA A 228 REMARK 465 HIS A 229 REMARK 465 VAL A 230 REMARK 465 PRO A 231 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 ASN A 22 144.57 -173.10 REMARK 500 LYS A 28 -4.49 -50.93 REMARK 500 ALA A 43 -92.48 -104.75 REMARK 500 PRO A 123 134.23 -36.43 REMARK 500 LYS A 156 36.86 -89.27 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 OE1 REMARK 620 2 ASP A 67 OD1 81.7 REMARK 620 3 GLU A 69 OE1 83.0 83.3 REMARK 620 4 ASP A 103 OD2 99.1 167.3 109.4 REMARK 620 5 HOH A 401 O 86.6 84.0 164.6 83.4 REMARK 620 6 HOH A 412 O 166.6 87.1 88.5 93.4 99.5 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 GLU A 11 OE2 REMARK 620 2 GLU A 69 OE1 76.6 REMARK 620 3 GLU A 69 OE2 99.8 48.7 REMARK 620 4 ASP A 100 OD1 88.4 117.7 76.4 REMARK 620 5 GLN A 101 O 89.5 154.4 156.8 82.7 REMARK 620 6 ASP A 103 OD1 89.5 73.0 115.4 168.2 85.7 REMARK 620 7 ASP A 136 OD1 167.4 100.0 86.4 103.8 88.9 77.9 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 ASN A 102 OD1 REMARK 620 2 HIS A 104 O 100.1 REMARK 620 3 ASP A 134 OD1 159.0 92.3 REMARK 620 4 ASP A 134 OD2 141.2 94.6 53.0 REMARK 620 5 ASP A 136 OD2 68.9 77.8 130.8 79.6 REMARK 620 6 ASN A 143 O 80.1 177.5 88.4 83.8 100.0 REMARK 620 7 ASP A 195 OD2 80.0 89.3 83.3 136.2 143.3 93.2 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 ASP A 199 OD2 REMARK 620 2 HOH A 435 O 101.6 REMARK 620 3 HOH A 427 O 83.1 81.8 REMARK 620 4 ARG A 30 O 87.0 55.3 132.8 REMARK 620 5 HOH A 405 O 71.2 156.4 75.0 143.0 REMARK 620 N 1 2 3 4 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 GOL A 305 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 4ZML 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 4ZMN A 1 231 UNP P22223 CADH3_HUMAN 108 338 SEQRES 1 A 231 ASP TRP VAL VAL ALA PRO ILE SER VAL PRO GLU ASN GLY SEQRES 2 A 231 LYS GLY PRO PHE PRO GLN ARG LEU ASN GLN LEU LYS SER SEQRES 3 A 231 ASN LYS ASP ARG ASP THR LYS ILE PHE TYR SER ILE THR SEQRES 4 A 231 GLY PRO GLY ALA ASP SER PRO PRO GLU GLY VAL PHE ALA SEQRES 5 A 231 VAL GLU LYS GLU THR GLY TRP LEU LEU LEU ASN LYS PRO SEQRES 6 A 231 LEU ASP ARG GLU GLU ILE ALA LYS TYR GLU LEU PHE GLY SEQRES 7 A 231 HIS ALA VAL SER GLU ASN GLY ALA SER VAL GLU ASP PRO SEQRES 8 A 231 MET ASN ILE SER ILE ILE VAL THR ASP GLN ASN ASP HIS SEQRES 9 A 231 LYS PRO LYS PHE THR GLN ASP THR PHE ARG GLY SER VAL SEQRES 10 A 231 LEU GLU GLY VAL LEU PRO GLY THR SER VAL MET GLN VAL SEQRES 11 A 231 THR ALA THR ASP GLU ASP ASP ALA ILE TYR THR TYR ASN SEQRES 12 A 231 GLY VAL VAL ALA TYR SER ILE HIS SER GLN GLU PRO LYS SEQRES 13 A 231 ASP PRO HIS ASP LEU MET PHE THR ILE HIS ARG SER THR SEQRES 14 A 231 GLY THR ILE SER VAL ILE SER SER GLY LEU ASP ARG GLU SEQRES 15 A 231 LYS VAL PRO GLU TYR THR LEU THR ILE GLN ALA THR ASP SEQRES 16 A 231 MET ASP GLY ASP GLY SER THR THR THR ALA VAL ALA VAL SEQRES 17 A 231 VAL GLU ILE LEU ASP ALA ASN ASP ASN ALA PRO MET PHE SEQRES 18 A 231 ASP PRO GLN LYS TYR GLU ALA HIS VAL PRO HET CA A 301 1 HET CA A 302 1 HET CA A 303 1 HET CA A 304 1 HET GOL A 305 6 HETNAM CA CALCIUM ION HETNAM GOL GLYCEROL HETSYN GOL GLYCERIN; PROPANE-1,2,3-TRIOL FORMUL 2 CA 4(CA 2+) FORMUL 6 GOL C3 H8 O3 FORMUL 7 HOH *38(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 TYR A 74 O ILE A 96 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 60 N ASN A 22 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 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 THR A 125 GLN A 129 0 SHEET 2 AA5 3 THR A 171 VAL A 174 -1 O ILE A 172 N MET A 128 SHEET 3 AA5 3 PHE A 163 ILE A 165 -1 N THR A 164 O SER A 173 LINK OE1 GLU A 11 CA CA A 301 1555 1555 2.26 LINK OE2 GLU A 11 CA CA A 303 1555 1555 2.28 LINK OD1 ASP A 67 CA CA A 301 1555 1555 2.47 LINK OE1 GLU A 69 CA CA A 301 1555 1555 2.23 LINK OE1 GLU A 69 CA CA A 303 1555 1555 2.88 LINK OE2 GLU A 69 CA CA A 303 1555 1555 2.35 LINK OD1 ASP A 100 CA CA A 303 1555 1555 2.38 LINK O GLN A 101 CA CA A 303 1555 1555 2.33 LINK OD1 ASN A 102 CA CA A 302 1555 1555 2.28 LINK OD1 ASP A 103 CA CA A 303 1555 1555 2.31 LINK OD2 ASP A 103 CA CA A 301 1555 1555 2.22 LINK O HIS A 104 CA CA A 302 1555 1555 2.19 LINK OD1 ASP A 134 CA CA A 302 1555 1555 2.28 LINK OD2 ASP A 134 CA CA A 302 1555 1555 2.56 LINK OD1 ASP A 136 CA CA A 303 1555 1555 2.21 LINK OD2 ASP A 136 CA CA A 302 1555 1555 2.60 LINK O ASN A 143 CA CA A 302 1555 1555 2.41 LINK OD2 ASP A 195 CA CA A 302 1555 1555 2.46 LINK OD2 ASP A 199 CA CA A 304 1555 1555 2.67 LINK CA CA A 301 O HOH A 401 1555 1555 2.23 LINK CA CA A 301 O HOH A 412 1555 1555 2.49 LINK CA CA A 304 O HOH A 435 1555 1555 2.50 LINK CA CA A 304 O HOH A 427 1555 1555 2.19 LINK O ARG A 30 CA CA A 304 1555 4654 2.35 LINK CA CA A 304 O HOH A 405 1555 4655 2.19 CISPEP 1 GLY A 15 PRO A 16 0 1.01 CISPEP 2 PHE A 17 PRO A 18 0 -4.14 CISPEP 3 PRO A 46 PRO A 47 0 -0.70 CISPEP 4 GLU A 154 PRO A 155 0 -1.22 CISPEP 5 ASP A 157 PRO A 158 0 9.09 SITE 1 AC1 6 GLU A 11 ASP A 67 GLU A 69 ASP A 103 SITE 2 AC1 6 HOH A 401 HOH A 412 SITE 1 AC2 6 ASN A 102 HIS A 104 ASP A 134 ASP A 136 SITE 2 AC2 6 ASN A 143 ASP A 195 SITE 1 AC3 6 GLU A 11 GLU A 69 ASP A 100 GLN A 101 SITE 2 AC3 6 ASP A 103 ASP A 136 SITE 1 AC4 5 ARG A 30 ASP A 199 HOH A 405 HOH A 427 SITE 2 AC4 5 HOH A 435 SITE 1 AC5 1 GLY A 198 CRYST1 108.980 108.980 93.160 90.00 90.00 120.00 P 65 2 2 12 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 0.009176 0.005298 0.000000 0.00000 SCALE2 0.000000 0.010596 0.000000 0.00000 SCALE3 0.000000 0.000000 0.010734 0.00000