HEADER CELL INVASION 14-OCT-22 8H62 TITLE CRYSTAL STRUCTURE OF INTERNALIN A FROM LISTERIA MONOCYTOGENES WITH TITLE 2 HUMAN E-CADHERIN EC12 COMPND MOL_ID: 1; COMPND 2 MOLECULE: INTERNALIN A; COMPND 3 CHAIN: A; COMPND 4 ENGINEERED: YES; COMPND 5 MOL_ID: 2; COMPND 6 MOLECULE: CADHERIN-1; COMPND 7 CHAIN: B; COMPND 8 SYNONYM: CAM 120/80,EPITHELIAL CADHERIN,E-CADHERIN,UVOMORULIN,E- COMPND 9 CADHERIN EC12; COMPND 10 ENGINEERED: YES; COMPND 11 MUTATION: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: LISTERIA MONOCYTOGENES SEROVAR 1/2A; SOURCE 3 ORGANISM_TAXID: 169963; SOURCE 4 STRAIN: ATCC BAA-679 / EGD-E; SOURCE 5 GENE: INLA, LMO0433, INTLA; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 511693; SOURCE 8 MOL_ID: 2; SOURCE 9 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 10 ORGANISM_COMMON: HUMAN; SOURCE 11 ORGANISM_TAXID: 9606; SOURCE 12 GENE: CDH1, CDHE, UVO; SOURCE 13 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21; SOURCE 14 EXPRESSION_SYSTEM_TAXID: 511693 KEYWDS INTERNALIN A CADHERIN BACTERIAL INVASION NANOBODY SURFACE PLASMON KEYWDS 2 RESONANCE ISOTHERMAL TITRATION CALORIMETRY, CELL INVASION EXPDTA X-RAY DIFFRACTION AUTHOR J.M.M.CAAVEIRO,S.NAGATOISH,K.TSUMOTO REVDAT 2 25-OCT-23 8H62 1 JRNL REVDAT 1 04-OCT-23 8H62 0 JRNL AUTH T.YAMAZAKI,S.NAGATOISHI,T.YAMAWAKI,T.NOZAWA,R.MATSUNAGA, JRNL AUTH 2 M.NAKAKIDO,J.M.M.CAAVEIRO,I.NAKAGAWA,K.TSUMOTO JRNL TITL ANTI-INLA SINGLE-DOMAIN ANTIBODIES THAT INHIBIT THE CELL JRNL TITL 2 INVASION OF LISTERIA MONOCYTOGENES. JRNL REF J.BIOL.CHEM. V. 299 05254 2023 JRNL REFN ESSN 1083-351X JRNL PMID 37716701 JRNL DOI 10.1016/J.JBC.2023.105254 REMARK 2 REMARK 2 RESOLUTION. 1.91 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.8.0352 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) : 1.91 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 34.80 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 92.3 REMARK 3 NUMBER OF REFLECTIONS : 68640 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) : 0.178 REMARK 3 R VALUE (WORKING SET) : 0.176 REMARK 3 FREE R VALUE : 0.210 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.000 REMARK 3 FREE R VALUE TEST SET COUNT : 2835 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) : 1.91 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.96 REMARK 3 REFLECTION IN BIN (WORKING SET) : 5045 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 92.22 REMARK 3 BIN R VALUE (WORKING SET) : 0.2890 REMARK 3 BIN FREE R VALUE SET COUNT : 209 REMARK 3 BIN FREE R VALUE : 0.3220 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 5136 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 8 REMARK 3 SOLVENT ATOMS : 630 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 26.34 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -1.50000 REMARK 3 B22 (A**2) : 1.79000 REMARK 3 B33 (A**2) : -0.87000 REMARK 3 B12 (A**2) : 0.41000 REMARK 3 B13 (A**2) : -0.36000 REMARK 3 B23 (A**2) : 0.55000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.125 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.121 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.097 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 6.527 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.961 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): 5255 ; 0.006 ; 0.012 REMARK 3 BOND LENGTHS OTHERS (A): 4828 ; 0.001 ; 0.016 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 7201 ; 1.371 ; 1.639 REMARK 3 BOND ANGLES OTHERS (DEGREES): 11320 ; 0.458 ; 1.548 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 685 ; 7.505 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 10 ;12.258 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 897 ;13.307 ;10.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): NULL ; NULL ; NULL REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 909 ; 0.063 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 5882 ; 0.007 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 850 ; 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): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): NULL ; NULL ; NULL 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): 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 : 2 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 35 A 496 REMARK 3 ORIGIN FOR THE GROUP (A): -33.2208 23.4157 64.1792 REMARK 3 T TENSOR REMARK 3 T11: 0.0080 T22: 0.0625 REMARK 3 T33: 0.0116 T12: 0.0066 REMARK 3 T13: 0.0025 T23: 0.0236 REMARK 3 L TENSOR REMARK 3 L11: 0.7059 L22: 0.5818 REMARK 3 L33: 0.5639 L12: -0.1478 REMARK 3 L13: -0.1283 L23: 0.2042 REMARK 3 S TENSOR REMARK 3 S11: -0.0086 S12: -0.0822 S13: -0.0410 REMARK 3 S21: 0.0209 S22: 0.0041 S23: -0.0318 REMARK 3 S31: 0.0635 S32: 0.0061 S33: 0.0045 REMARK 3 REMARK 3 TLS GROUP : 2 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : B 1 B 213 REMARK 3 ORIGIN FOR THE GROUP (A): -37.2308 18.8905 37.0763 REMARK 3 T TENSOR REMARK 3 T11: 0.0800 T22: 0.0485 REMARK 3 T33: 0.0199 T12: -0.0109 REMARK 3 T13: 0.0107 T23: 0.0129 REMARK 3 L TENSOR REMARK 3 L11: 0.4779 L22: 0.4625 REMARK 3 L33: 3.6080 L12: 0.1527 REMARK 3 L13: -0.3670 L23: -0.4086 REMARK 3 S TENSOR REMARK 3 S11: 0.0007 S12: 0.0309 S13: -0.0012 REMARK 3 S21: -0.0749 S22: 0.0614 S23: -0.0121 REMARK 3 S31: 0.0411 S32: -0.0032 S33: -0.0620 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 U VALUES : WITH TLS ADDED REMARK 4 REMARK 4 8H62 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 17-OCT-22. REMARK 100 THE DEPOSITION ID IS D_1300032877. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 12-MAY-17 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : NULL REMARK 200 NUMBER OF CRYSTALS USED : 1 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) : 1.0000 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 7.2.1 REMARK 200 DATA SCALING SOFTWARE : AIMLESS 0.5.32 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 71483 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.910 REMARK 200 RESOLUTION RANGE LOW (A) : 34.800 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 92.3 REMARK 200 DATA REDUNDANCY : 3.800 REMARK 200 R MERGE (I) : 0.08800 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 8.8000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.91 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.95 REMARK 200 COMPLETENESS FOR SHELL (%) : 92.1 REMARK 200 DATA REDUNDANCY IN SHELL : 3.70 REMARK 200 R MERGE FOR SHELL (I) : 0.76000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> FOR SHELL : 2.100 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: MOLREP 2.7.17 REMARK 200 STARTING MODEL: 1O6S 4ZMT REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 65.12 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.53 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.2 M AMMONIUM ACETATE 45% MPD, VAPOR REMARK 280 DIFFUSION, SITTING DROP, TEMPERATURE 293.15K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,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 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 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 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 B 432 O HOH B 543 1.94 REMARK 500 OE2 GLU B 182 O HOH B 401 2.14 REMARK 500 NE2 GLN A 409 O HOH A 601 2.15 REMARK 500 O HOH A 623 O HOH A 730 2.16 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 ASN A 108 -157.30 -132.79 REMARK 500 MET A 127 26.50 -145.26 REMARK 500 ASN A 129 66.02 64.49 REMARK 500 ASN A 151 62.12 62.47 REMARK 500 ASN A 152 -155.23 -132.89 REMARK 500 PRO A 202 -9.89 -59.90 REMARK 500 LEU A 206 59.52 -94.87 REMARK 500 ASN A 217 -156.93 -114.89 REMARK 500 ALA A 236 45.13 -142.54 REMARK 500 LEU A 250 59.43 -91.00 REMARK 500 ASN A 261 -152.32 -139.81 REMARK 500 LYS A 264 -65.03 -137.62 REMARK 500 LEU A 272 65.32 -101.13 REMARK 500 ALA A 304 65.88 61.30 REMARK 500 ASN A 305 -158.47 -139.39 REMARK 500 ASN A 327 -152.36 -124.59 REMARK 500 GLU A 330 -62.53 -124.18 REMARK 500 ASN A 349 -158.04 -134.43 REMARK 500 PHE A 368 33.47 -145.18 REMARK 500 ASN A 370 62.45 60.23 REMARK 500 ALA A 390 26.25 -143.07 REMARK 500 ASN A 393 -151.55 -118.89 REMARK 500 LEU A 412 17.80 -141.84 REMARK 500 LEU B 21 -71.39 -100.73 REMARK 500 ALA B 43 -84.72 -115.42 REMARK 500 GLU B 156 33.70 -91.45 REMARK 500 ASP B 195 -169.30 -77.89 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: PLANAR GROUPS REMARK 500 REMARK 500 PLANAR GROUPS IN THE FOLLOWING RESIDUES HAVE A TOTAL REMARK 500 RMS DISTANCE OF ALL ATOMS FROM THE BEST-FIT PLANE REMARK 500 BY MORE THAN AN EXPECTED VALUE OF 6*RMSD, WITH AN REMARK 500 RMSD 0.02 ANGSTROMS, OR AT LEAST ONE ATOM HAS REMARK 500 AN RMSD GREATER THAN THIS VALUE REMARK 500 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 500 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 M RES CSSEQI RMS TYPE REMARK 500 ARG B 68 0.09 SIDE CHAIN REMARK 500 ARG B 70 0.16 SIDE CHAIN REMARK 500 REMARK 500 REMARK: NULL REMARK 525 REMARK 525 SOLVENT REMARK 525 REMARK 525 THE SOLVENT MOLECULES HAVE CHAIN IDENTIFIERS THAT REMARK 525 INDICATE THE POLYMER CHAIN WITH WHICH THEY ARE MOST REMARK 525 CLOSELY ASSOCIATED. THE REMARK LISTS ALL THE SOLVENT REMARK 525 MOLECULES WHICH ARE MORE THAN 5A AWAY FROM THE REMARK 525 NEAREST POLYMER CHAIN (M = MODEL NUMBER; REMARK 525 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE REMARK 525 NUMBER; I=INSERTION CODE): REMARK 525 REMARK 525 M RES CSSEQI REMARK 525 HOH B 603 DISTANCE = 5.84 ANGSTROMS 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 501 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 LEU A 410 O REMARK 620 2 THR A 483 O 92.8 REMARK 620 3 ASP B 1 OD1 91.5 171.5 REMARK 620 N 1 2 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CA B 302 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU B 11 OE2 REMARK 620 2 GLU B 69 OE1 88.4 REMARK 620 3 GLU B 69 OE2 107.7 51.9 REMARK 620 4 ASP B 100 OD1 82.5 123.8 78.6 REMARK 620 5 GLN B 101 O 80.0 151.9 156.2 80.3 REMARK 620 6 ASP B 103 OD2 90.9 74.9 121.7 159.7 79.7 REMARK 620 7 ASP B 136 OD1 165.6 96.7 85.9 105.4 89.3 77.5 REMARK 620 N 1 2 3 4 5 6 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CA B 303 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU B 11 OE1 REMARK 620 2 ASP B 67 OD1 91.2 REMARK 620 3 GLU B 69 OE1 89.4 88.5 REMARK 620 4 ASP B 103 OD1 86.9 161.0 110.3 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CA B 301 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASN B 102 OD1 REMARK 620 2 ASN B 104 O 106.8 REMARK 620 3 ASP B 134 OD1 156.8 86.8 REMARK 620 4 ASP B 134 OD2 144.2 90.7 51.0 REMARK 620 5 ASP B 136 OD2 72.9 79.8 129.0 80.0 REMARK 620 6 ASN B 143 O 84.5 168.7 82.8 79.4 103.5 REMARK 620 7 ASP B 195 OD2 80.5 90.0 80.8 131.6 147.2 92.6 REMARK 620 N 1 2 3 4 5 6 DBREF 8H62 A 36 496 UNP P0DJM0 INLA_LISMO 36 496 DBREF 8H62 B 1 213 UNP P12830 CADH1_HUMAN 155 367 SEQADV 8H62 SER A 35 UNP P0DJM0 EXPRESSION TAG SEQADV 8H62 SER B 9 UNP P12830 CYS 163 ENGINEERED MUTATION SEQRES 1 A 462 SER ALA THR ILE THR GLN ASP THR PRO ILE ASN GLN ILE SEQRES 2 A 462 PHE THR ASP THR ALA LEU ALA GLU LYS MET LYS THR VAL SEQRES 3 A 462 LEU GLY LYS THR ASN VAL THR ASP THR VAL SER GLN THR SEQRES 4 A 462 ASP LEU ASP GLN VAL THR THR LEU GLN ALA ASP ARG LEU SEQRES 5 A 462 GLY ILE LYS SER ILE ASP GLY VAL GLU TYR LEU ASN ASN SEQRES 6 A 462 LEU THR GLN ILE ASN PHE SER ASN ASN GLN LEU THR ASP SEQRES 7 A 462 ILE THR PRO LEU LYS ASN LEU THR LYS LEU VAL ASP ILE SEQRES 8 A 462 LEU MET ASN ASN ASN GLN ILE ALA ASP ILE THR PRO LEU SEQRES 9 A 462 ALA ASN LEU THR ASN LEU THR GLY LEU THR LEU PHE ASN SEQRES 10 A 462 ASN GLN ILE THR ASP ILE ASP PRO LEU LYS ASN LEU THR SEQRES 11 A 462 ASN LEU ASN ARG LEU GLU LEU SER SER ASN THR ILE SER SEQRES 12 A 462 ASP ILE SER ALA LEU SER GLY LEU THR SER LEU GLN GLN SEQRES 13 A 462 LEU SER PHE GLY ASN GLN VAL THR ASP LEU LYS PRO LEU SEQRES 14 A 462 ALA ASN LEU THR THR LEU GLU ARG LEU ASP ILE SER SER SEQRES 15 A 462 ASN LYS VAL SER ASP ILE SER VAL LEU ALA LYS LEU THR SEQRES 16 A 462 ASN LEU GLU SER LEU ILE ALA THR ASN ASN GLN ILE SER SEQRES 17 A 462 ASP ILE THR PRO LEU GLY ILE LEU THR ASN LEU ASP GLU SEQRES 18 A 462 LEU SER LEU ASN GLY ASN GLN LEU LYS ASP ILE GLY THR SEQRES 19 A 462 LEU ALA SER LEU THR ASN LEU THR ASP LEU ASP LEU ALA SEQRES 20 A 462 ASN ASN GLN ILE SER ASN LEU ALA PRO LEU SER GLY LEU SEQRES 21 A 462 THR LYS LEU THR GLU LEU LYS LEU GLY ALA ASN GLN ILE SEQRES 22 A 462 SER ASN ILE SER PRO LEU ALA GLY LEU THR ALA LEU THR SEQRES 23 A 462 ASN LEU GLU LEU ASN GLU ASN GLN LEU GLU ASP ILE SER SEQRES 24 A 462 PRO ILE SER ASN LEU LYS ASN LEU THR TYR LEU THR LEU SEQRES 25 A 462 TYR PHE ASN ASN ILE SER ASP ILE SER PRO VAL SER SER SEQRES 26 A 462 LEU THR LYS LEU GLN ARG LEU PHE PHE TYR ASN ASN LYS SEQRES 27 A 462 VAL SER ASP VAL SER SER LEU ALA ASN LEU THR ASN ILE SEQRES 28 A 462 ASN TRP LEU SER ALA GLY HIS ASN GLN ILE SER ASP LEU SEQRES 29 A 462 THR PRO LEU ALA ASN LEU THR ARG ILE THR GLN LEU GLY SEQRES 30 A 462 LEU ASN ASP GLN ALA TRP THR ASN ALA PRO VAL ASN TYR SEQRES 31 A 462 LYS ALA ASN VAL SER ILE PRO ASN THR VAL LYS ASN VAL SEQRES 32 A 462 THR GLY ALA LEU ILE ALA PRO ALA THR ILE SER ASP GLY SEQRES 33 A 462 GLY SER TYR THR GLU PRO ASP ILE THR TRP ASN LEU PRO SEQRES 34 A 462 SER TYR THR ASN GLU VAL SER TYR THR PHE SER GLN PRO SEQRES 35 A 462 VAL THR ILE GLY LYS GLY THR THR THR PHE SER GLY THR SEQRES 36 A 462 VAL THR GLN PRO LEU LYS ALA SEQRES 1 B 213 ASP TRP VAL ILE PRO PRO ILE SER SER PRO GLU ASN GLU SEQRES 2 B 213 LYS GLY PRO PHE PRO LYS ASN LEU VAL GLN ILE LYS SER SEQRES 3 B 213 ASN LYS ASP LYS GLU GLY LYS VAL PHE TYR SER ILE THR SEQRES 4 B 213 GLY GLN GLY ALA ASP THR PRO PRO VAL GLY VAL PHE ILE SEQRES 5 B 213 ILE GLU ARG GLU THR GLY TRP LEU LYS VAL THR GLU PRO SEQRES 6 B 213 LEU ASP ARG GLU ARG ILE ALA THR TYR THR LEU PHE SER SEQRES 7 B 213 HIS ALA VAL SER SER ASN GLY ASN ALA VAL GLU ASP PRO SEQRES 8 B 213 MET GLU ILE LEU ILE THR VAL THR ASP GLN ASN ASP ASN SEQRES 9 B 213 LYS PRO GLU PHE THR GLN GLU VAL PHE LYS GLY SER VAL SEQRES 10 B 213 MET GLU GLY ALA LEU PRO GLY THR SER VAL MET GLU VAL SEQRES 11 B 213 THR ALA THR ASP ALA ASP ASP ASP VAL ASN THR TYR ASN SEQRES 12 B 213 ALA ALA ILE ALA TYR THR ILE LEU SER GLN ASP PRO GLU SEQRES 13 B 213 LEU PRO ASP LYS ASN MET PHE THR ILE ASN ARG ASN THR SEQRES 14 B 213 GLY VAL ILE SER VAL VAL THR THR GLY LEU ASP ARG GLU SEQRES 15 B 213 SER PHE PRO THR TYR THR LEU VAL VAL GLN ALA ALA ASP SEQRES 16 B 213 LEU GLN GLY GLU GLY LEU SER THR THR ALA THR ALA VAL SEQRES 17 B 213 ILE THR VAL THR ASP HET CA A 501 1 HET CA B 301 1 HET CA B 302 1 HET CA B 303 1 HET ACT B 304 4 HETNAM CA CALCIUM ION HETNAM ACT ACETATE ION FORMUL 3 CA 4(CA 2+) FORMUL 7 ACT C2 H3 O2 1- FORMUL 8 HOH *630(H2 O) HELIX 1 AA1 ILE A 44 PHE A 48 1 5 HELIX 2 AA2 ASP A 50 LEU A 61 1 12 HELIX 3 AA3 SER A 71 ASP A 76 1 6 HELIX 4 AA4 GLY A 93 LEU A 97 5 5 HELIX 5 AA5 ILE A 113 LYS A 117 5 5 HELIX 6 AA6 ILE A 135 ALA A 139 5 5 HELIX 7 AA7 ILE A 157 LYS A 161 5 5 HELIX 8 AA8 ILE A 179 SER A 183 5 5 HELIX 9 AA9 LEU A 200 ALA A 204 5 5 HELIX 10 AB1 ILE A 222 LEU A 228 5 7 HELIX 11 AB2 ILE A 244 LEU A 250 5 7 HELIX 12 AB3 ILE A 266 LEU A 272 5 7 HELIX 13 AB4 LEU A 288 SER A 292 5 5 HELIX 14 AB5 ILE A 310 ALA A 314 5 5 HELIX 15 AB6 ILE A 332 LEU A 338 5 7 HELIX 16 AB7 ILE A 354 LEU A 360 5 7 HELIX 17 AB8 VAL A 376 LEU A 382 5 7 HELIX 18 AB9 LEU A 398 ALA A 402 5 5 HELIX 19 AC1 ASP A 449 GLY A 451 5 3 HELIX 20 AC2 LYS B 28 GLU B 31 5 4 HELIX 21 AC3 LEU B 196 GLU B 199 5 4 SHEET 1 AA1 2 THR A 42 PRO A 43 0 SHEET 2 AA1 2 THR A 69 VAL A 70 -1 O VAL A 70 N THR A 42 SHEET 1 AA216 THR A 80 GLN A 82 0 SHEET 2 AA216 GLN A 102 ASN A 104 1 O ASN A 104 N LEU A 81 SHEET 3 AA216 ASP A 124 LEU A 126 1 O LEU A 126 N ILE A 103 SHEET 4 AA216 GLY A 146 THR A 148 1 O THR A 148 N ILE A 125 SHEET 5 AA216 ARG A 168 ILE A 176 1 O ARG A 168 N LEU A 147 SHEET 6 AA216 GLN A 190 ASN A 195 1 O GLN A 190 N LEU A 169 SHEET 7 AA216 ARG A 211 ASP A 213 1 O ASP A 213 N LEU A 191 SHEET 8 AA216 SER A 233 ILE A 235 1 O ILE A 235 N LEU A 212 SHEET 9 AA216 GLU A 255 SER A 257 1 O SER A 257 N LEU A 234 SHEET 10 AA216 ASP A 277 ASP A 279 1 O ASP A 279 N LEU A 256 SHEET 11 AA216 GLU A 299 LYS A 301 1 O GLU A 299 N LEU A 278 SHEET 12 AA216 ASN A 321 GLU A 323 1 O ASN A 321 N LEU A 300 SHEET 13 AA216 TYR A 343 THR A 345 1 O TYR A 343 N LEU A 322 SHEET 14 AA216 ARG A 365 PHE A 367 1 O ARG A 365 N LEU A 344 SHEET 15 AA216 TRP A 387 SER A 389 1 O TRP A 387 N LEU A 366 SHEET 16 AA216 GLN A 409 GLY A 411 1 O GLN A 409 N LEU A 388 SHEET 1 AA3 3 GLN A 415 THR A 418 0 SHEET 2 AA3 3 GLY A 482 LYS A 495 1 O SER A 487 N GLN A 415 SHEET 3 AA3 3 VAL A 422 ASN A 423 1 N VAL A 422 O LYS A 495 SHEET 1 AA4 4 GLN A 415 THR A 418 0 SHEET 2 AA4 4 GLY A 482 LYS A 495 1 O SER A 487 N GLN A 415 SHEET 3 AA4 4 GLU A 468 ILE A 479 -1 N VAL A 469 O GLN A 492 SHEET 4 AA4 4 THR A 446 ILE A 447 -1 N THR A 446 O THR A 472 SHEET 1 AA5 3 ASN A 427 PRO A 431 0 SHEET 2 AA5 3 ASP A 457 ASN A 461 -1 O ILE A 458 N ILE A 430 SHEET 3 AA5 3 SER A 452 THR A 454 -1 N THR A 454 O ASP A 457 SHEET 1 AA6 2 TRP B 2 VAL B 3 0 SHEET 2 AA6 2 LYS B 25 SER B 26 -1 O LYS B 25 N VAL B 3 SHEET 1 AA7 4 ILE B 7 PRO B 10 0 SHEET 2 AA7 4 MET B 92 THR B 99 1 O THR B 97 N SER B 9 SHEET 3 AA7 4 THR B 73 SER B 82 -1 N LEU B 76 O ILE B 94 SHEET 4 AA7 4 VAL B 34 GLY B 40 -1 N PHE B 35 O VAL B 81 SHEET 1 AA8 3 LYS B 19 GLN B 23 0 SHEET 2 AA8 3 TRP B 59 VAL B 62 -1 O LEU B 60 N LEU B 21 SHEET 3 AA8 3 PHE B 51 ILE B 53 -1 N ILE B 52 O LYS B 61 SHEET 1 AA9 2 GLU B 107 PHE B 108 0 SHEET 2 AA9 2 ALA B 132 THR B 133 -1 O THR B 133 N GLU B 107 SHEET 1 AB1 4 VAL B 112 MET B 118 0 SHEET 2 AB1 4 SER B 202 THR B 212 1 O VAL B 208 N PHE B 113 SHEET 3 AB1 4 THR B 186 ALA B 194 -1 N VAL B 191 O ALA B 205 SHEET 4 AB1 4 ALA B 147 ASP B 154 -1 N ASP B 154 O THR B 188 SHEET 1 AB2 3 SER B 126 GLU B 129 0 SHEET 2 AB2 3 VAL B 171 VAL B 174 -1 O ILE B 172 N VAL B 127 SHEET 3 AB2 3 PHE B 163 ILE B 165 -1 N THR B 164 O SER B 173 LINK O LEU A 410 CA CA A 501 1555 1555 2.23 LINK O THR A 483 CA CA A 501 1555 1555 2.45 LINK CA CA A 501 OD1 ASP B 1 1555 1555 2.59 LINK OE2 GLU B 11 CA CA B 302 1555 1555 2.36 LINK OE1 GLU B 11 CA CA B 303 1555 1555 2.35 LINK OD1 ASP B 67 CA CA B 303 1555 1555 2.33 LINK OE1 GLU B 69 CA CA B 302 1555 1555 2.72 LINK OE2 GLU B 69 CA CA B 302 1555 1555 2.35 LINK OE1 GLU B 69 CA CA B 303 1555 1555 2.25 LINK OD1 ASP B 100 CA CA B 302 1555 1555 2.26 LINK O GLN B 101 CA CA B 302 1555 1555 2.50 LINK OD1 ASN B 102 CA CA B 301 1555 1555 2.34 LINK OD2 ASP B 103 CA CA B 302 1555 1555 2.36 LINK OD1 ASP B 103 CA CA B 303 1555 1555 2.29 LINK O ASN B 104 CA CA B 301 1555 1555 2.25 LINK OD1 ASP B 134 CA CA B 301 1555 1555 2.57 LINK OD2 ASP B 134 CA CA B 301 1555 1555 2.64 LINK OD2 ASP B 136 CA CA B 301 1555 1555 2.38 LINK OD1 ASP B 136 CA CA B 302 1555 1555 2.36 LINK O ASN B 143 CA CA B 301 1555 1555 2.32 LINK OD2 ASP B 195 CA CA B 301 1555 1555 2.40 CISPEP 1 GLY A 194 ASN A 195 0 9.47 CISPEP 2 GLU A 455 PRO A 456 0 4.63 CISPEP 3 GLY B 15 PRO B 16 0 7.32 CISPEP 4 PHE B 17 PRO B 18 0 -2.05 CISPEP 5 PRO B 46 PRO B 47 0 -4.26 CISPEP 6 ASP B 154 PRO B 155 0 -1.38 CISPEP 7 LEU B 157 PRO B 158 0 0.83 CRYST1 55.350 69.580 72.490 101.48 97.77 105.99 P 1 1 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 0.018067 0.005177 0.003870 0.00000 SCALE2 0.000000 0.014950 0.003828 0.00000 SCALE3 0.000000 0.000000 0.014372 0.00000