PDB Short entry for 2OMX HEADER CELL INVASION/CELL ADHESION 23-JAN-07 2OMX TITLE CRYSTAL STRUCTURE OF INLA S192N G194S+S/HEC1 COMPLEX COMPND MOL_ID: 1; COMPND 2 MOLECULE: INTERNALIN-A; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: INTERNALIN DOMAIN; COMPND 5 ENGINEERED: YES; COMPND 6 MUTATION: YES; COMPND 7 MOL_ID: 2; COMPND 8 MOLECULE: EPITHELIAL-CADHERIN; COMPND 9 CHAIN: B; COMPND 10 FRAGMENT: N-TERMINAL DOMAIN OF HUMAN E-CADHERIN; COMPND 11 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: LISTERIA MONOCYTOGENES; SOURCE 3 ORGANISM_TAXID: 169963; SOURCE 4 STRAIN: EGD-E; SOURCE 5 GENE: INLA; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 511693; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21; SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PGEX; SOURCE 11 MOL_ID: 2; SOURCE 12 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 13 ORGANISM_COMMON: HUMAN; SOURCE 14 ORGANISM_TAXID: 9606; SOURCE 15 GENE: CDH1, CDHE, UVO; SOURCE 16 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21; SOURCE 17 EXPRESSION_SYSTEM_TAXID: 511693; SOURCE 18 EXPRESSION_SYSTEM_STRAIN: BL21; SOURCE 19 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 20 EXPRESSION_SYSTEM_PLASMID: PGEX KEYWDS LEUCINE-RICH-REPEAT, INVASION PROTEIN, IG-LIKE DOMAIN, ADHESION KEYWDS 2 PROTEIN, CELL INVASION-CELL ADHESION COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR T.WOLLERT,D.W.HEINZ,W.D.SCHUBERT REVDAT 7 30-AUG-23 2OMX 1 REMARK REVDAT 6 20-OCT-21 2OMX 1 REMARK SEQADV REVDAT 5 18-OCT-17 2OMX 1 REMARK REVDAT 4 13-JUL-11 2OMX 1 VERSN REVDAT 3 24-FEB-09 2OMX 1 VERSN REVDAT 2 20-NOV-07 2OMX 1 JRNL REVDAT 1 28-AUG-07 2OMX 0 JRNL AUTH T.WOLLERT,D.W.HEINZ,W.D.SCHUBERT JRNL TITL THERMODYNAMICALLY REENGINEERING THE LISTERIAL INVASION JRNL TITL 2 COMPLEX INLA/E-CADHERIN. JRNL REF PROC.NATL.ACAD.SCI.USA V. 104 13960 2007 JRNL REFN ISSN 0027-8424 JRNL PMID 17715295 JRNL DOI 10.1073/PNAS.0702199104 REMARK 2 REMARK 2 RESOLUTION. 1.70 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 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) : 1.70 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 20.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 93.0 REMARK 3 NUMBER OF REFLECTIONS : 56061 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) : 0.170 REMARK 3 R VALUE (WORKING SET) : 0.167 REMARK 3 FREE R VALUE : 0.223 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 3001 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) : 1.70 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.74 REMARK 3 REFLECTION IN BIN (WORKING SET) : 3245 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 72.41 REMARK 3 BIN R VALUE (WORKING SET) : 0.2590 REMARK 3 BIN FREE R VALUE SET COUNT : 167 REMARK 3 BIN FREE R VALUE : 0.3500 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 4344 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 2 REMARK 3 SOLVENT ATOMS : 707 REMARK 3 REMARK 3 B VALUES. REMARK 3 B VALUE TYPE : LIKELY RESIDUAL REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 14.20 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.59000 REMARK 3 B22 (A**2) : 0.00000 REMARK 3 B33 (A**2) : 0.01000 REMARK 3 B12 (A**2) : 1.19000 REMARK 3 B13 (A**2) : -0.72000 REMARK 3 B23 (A**2) : -0.16000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.119 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.124 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.091 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 5.348 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.967 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.939 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 4930 ; 0.024 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 6858 ; 1.971 ; 1.967 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 709 ; 6.661 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 224 ;44.069 ;27.679 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 882 ;13.808 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 10 ;14.507 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 856 ; 0.149 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 3785 ; 0.007 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 2520 ; 0.231 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 3403 ; 0.300 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 592 ; 0.232 ; 0.200 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): 59 ; 0.259 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 44 ; 0.157 ; 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): 3268 ; 2.400 ; 2.000 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 5234 ; 3.041 ; 3.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1882 ; 2.934 ; 2.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1570 ; 4.096 ; 3.000 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 : 4 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 36 A 78 REMARK 3 ORIGIN FOR THE GROUP (A): -11.2480 -3.0210 -33.3380 REMARK 3 T TENSOR REMARK 3 T11: -0.0002 T22: -0.0005 REMARK 3 T33: 0.0001 T12: -0.0001 REMARK 3 T13: 0.0017 T23: -0.0005 REMARK 3 L TENSOR REMARK 3 L11: 6.7422 L22: 0.7044 REMARK 3 L33: 31.5864 L12: -1.5242 REMARK 3 L13: 9.2388 L23: 0.5208 REMARK 3 S TENSOR REMARK 3 S11: -0.4013 S12: 0.5655 S13: 0.1109 REMARK 3 S21: 0.3374 S22: -0.1946 S23: 0.2030 REMARK 3 S31: -0.1597 S32: -0.2971 S33: 0.5959 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 : A 79 A 415 REMARK 3 ORIGIN FOR THE GROUP (A): 14.7520 5.4020 -0.3390 REMARK 3 T TENSOR REMARK 3 T11: 0.0465 T22: -0.0880 REMARK 3 T33: -0.0715 T12: -0.0118 REMARK 3 T13: 0.0937 T23: 0.0074 REMARK 3 L TENSOR REMARK 3 L11: 0.3182 L22: 1.0727 REMARK 3 L33: 0.2318 L12: 0.0120 REMARK 3 L13: 0.1342 L23: 0.2608 REMARK 3 S TENSOR REMARK 3 S11: 0.0421 S12: 0.0335 S13: 0.0281 REMARK 3 S21: -0.2031 S22: -0.0331 S23: -0.1188 REMARK 3 S31: -0.0348 S32: 0.0126 S33: -0.0090 REMARK 3 REMARK 3 TLS GROUP : 3 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 416 A 497 REMARK 3 ORIGIN FOR THE GROUP (A): 6.6690 39.7090 30.0600 REMARK 3 T TENSOR REMARK 3 T11: 0.1707 T22: -0.0176 REMARK 3 T33: -0.0511 T12: 0.0813 REMARK 3 T13: 0.0237 T23: -0.0402 REMARK 3 L TENSOR REMARK 3 L11: 0.3763 L22: 1.0059 REMARK 3 L33: 2.6077 L12: -0.4413 REMARK 3 L13: -0.2909 L23: -0.5234 REMARK 3 S TENSOR REMARK 3 S11: -0.2365 S12: -0.1786 S13: 0.0561 REMARK 3 S21: 0.4207 S22: 0.1776 S23: -0.0132 REMARK 3 S31: -0.3338 S32: -0.0834 S33: 0.0589 REMARK 3 REMARK 3 TLS GROUP : 4 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : B 1 B 100 REMARK 3 ORIGIN FOR THE GROUP (A): 5.2270 13.6860 -1.9160 REMARK 3 T TENSOR REMARK 3 T11: 0.0148 T22: -0.1338 REMARK 3 T33: -0.0159 T12: -0.0226 REMARK 3 T13: 0.0607 T23: 0.0061 REMARK 3 L TENSOR REMARK 3 L11: 2.0476 L22: 2.4650 REMARK 3 L33: 2.9448 L12: -0.4983 REMARK 3 L13: -0.3613 L23: 0.8993 REMARK 3 S TENSOR REMARK 3 S11: 0.0865 S12: -0.0535 S13: 0.2398 REMARK 3 S21: -0.1970 S22: -0.1140 S23: 0.2368 REMARK 3 S31: 0.1456 S32: 0.0257 S33: 0.0275 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : MASK REMARK 3 PARAMETERS FOR MASK CALCULATION REMARK 3 VDW PROBE RADIUS : 1.40 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 2OMX COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 30-JAN-07. REMARK 100 THE DEPOSITION ID IS D_1000041334. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : NULL REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 6.0 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : EMBL/DESY, HAMBURG REMARK 200 BEAMLINE : X11 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.81 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MAR CCD 165 MM REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO, HKL-2000 REMARK 200 DATA SCALING SOFTWARE : SCALEPACK, HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 62497 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.650 REMARK 200 RESOLUTION RANGE LOW (A) : 20.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 90.7 REMARK 200 DATA REDUNDANCY : NULL REMARK 200 R MERGE (I) : 0.09200 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 7.5000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.65 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.71 REMARK 200 COMPLETENESS FOR SHELL (%) : 64.1 REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : 0.71500 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> FOR SHELL : NULL 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: 1O6S REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 48.92 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.41 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: PEG 4000, CACL2, NA-ACETATE, TRIS/MES, REMARK 280 PH 6.0, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 298K 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 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 GLY B -3 REMARK 480 REMARK 480 ZERO OCCUPANCY ATOM REMARK 480 THE FOLLOWING RESIDUES HAVE ATOMS MODELED WITH ZERO REMARK 480 OCCUPANCY. THE LOCATION AND PROPERTIES OF THESE ATOMS REMARK 480 MAY NOT BE RELIABLE. (M=MODEL NUMBER; RES=RESIDUE NAME; REMARK 480 C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE): REMARK 480 M RES C SSEQI ATOMS REMARK 480 VAL A 429 CA CB CG1 CG2 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 ASP B 29 O GLY B 32 1.79 REMARK 500 C LYS B 28 O LYS B 30 2.07 REMARK 500 O HOH A 1799 O HOH A 2064 2.14 REMARK 500 O HOH A 2084 O HOH B 1604 2.19 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 PHE A 487 CE1 PHE A 487 CZ 0.123 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 MET B 92 CG - SD - CE ANGL. DEV. = -14.0 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 ASN A 108 -159.98 -138.39 REMARK 500 MET A 127 25.90 -146.58 REMARK 500 ASN A 129 61.50 70.71 REMARK 500 ASN A 129 59.42 71.41 REMARK 500 ASN A 130 -159.37 -137.97 REMARK 500 ASN A 152 -158.26 -136.12 REMARK 500 ASN A 174 -154.99 -126.73 REMARK 500 LEU A 207 54.32 -93.65 REMARK 500 ASN A 218 -151.32 -120.95 REMARK 500 ASN A 218 -149.80 -120.95 REMARK 500 ALA A 237 44.70 -144.06 REMARK 500 ASN A 240 -157.83 -135.12 REMARK 500 ASN A 240 -155.60 -135.12 REMARK 500 ASN A 262 -154.54 -134.69 REMARK 500 LYS A 265 -62.85 -137.67 REMARK 500 ASN A 284 -155.28 -141.37 REMARK 500 ALA A 305 60.75 61.19 REMARK 500 ASN A 306 -156.94 -138.35 REMARK 500 ASN A 328 -151.70 -128.33 REMARK 500 GLU A 331 -61.01 -120.19 REMARK 500 GLU A 331 -53.44 -126.90 REMARK 500 ASN A 350 -156.54 -134.13 REMARK 500 ASN A 371 67.48 62.41 REMARK 500 ASN A 371 65.94 63.90 REMARK 500 ASN A 394 -150.73 -115.75 REMARK 500 LEU B 21 -70.58 -95.56 REMARK 500 LYS B 30 101.31 26.26 REMARK 500 LYS B 30 119.11 -7.16 REMARK 500 ALA B 43 -81.41 -108.59 REMARK 500 ARG B 70 -60.60 -103.99 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 ASP B 29 LYS B 30 69.11 REMARK 500 ASP B 29 LYS B 30 88.34 REMARK 500 ASP B 103 ASN B 104 -125.89 REMARK 500 ASP B 103 ASN B 104 -124.49 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 B1497 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASN B 27 OD1 REMARK 620 2 ASP B 29 OD2 92.8 REMARK 620 N 1 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CA B 1497 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CL A 1499 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1O6S RELATED DB: PDB DBREF 2OMX A 36 497 UNP P25146 INLA_LISMO 36 497 DBREF 2OMX B 2 104 UNP P12830 CADH1_HUMAN 156 258 SEQADV 2OMX ASN A 192 UNP P25146 SER 192 ENGINEERED MUTATION SEQADV 2OMX SER A 194 UNP P25146 GLY 194 ENGINEERED MUTATION SEQADV 2OMX SER A 195 UNP P25146 ASN 195 ENGINEERED MUTATION SEQADV 2OMX GLY B -3 UNP P12830 EXPRESSION TAG SEQADV 2OMX PRO B -2 UNP P12830 EXPRESSION TAG SEQADV 2OMX LEU B -1 UNP P12830 EXPRESSION TAG SEQADV 2OMX GLY B 0 UNP P12830 EXPRESSION TAG SEQADV 2OMX SER B 1 UNP P12830 EXPRESSION TAG SEQRES 1 A 462 ALA THR ILE THR GLN ASP THR PRO ILE ASN GLN ILE PHE SEQRES 2 A 462 THR ASP THR ALA LEU ALA GLU LYS MET LYS THR VAL LEU SEQRES 3 A 462 GLY LYS THR ASN VAL THR ASP THR VAL SER GLN THR ASP SEQRES 4 A 462 LEU ASP GLN VAL THR THR LEU GLN ALA ASP ARG LEU GLY SEQRES 5 A 462 ILE LYS SER ILE ASP GLY VAL GLU TYR LEU ASN ASN LEU SEQRES 6 A 462 THR GLN ILE ASN PHE SER ASN ASN GLN LEU THR ASP ILE SEQRES 7 A 462 THR PRO LEU LYS ASN LEU THR LYS LEU VAL ASP ILE LEU SEQRES 8 A 462 MET ASN ASN ASN GLN ILE ALA ASP ILE THR PRO LEU ALA SEQRES 9 A 462 ASN LEU THR ASN LEU THR GLY LEU THR LEU PHE ASN ASN SEQRES 10 A 462 GLN ILE THR ASP ILE ASP PRO LEU LYS ASN LEU THR ASN SEQRES 11 A 462 LEU ASN ARG LEU GLU LEU SER SER ASN THR ILE SER ASP SEQRES 12 A 462 ILE SER ALA LEU SER GLY LEU THR SER LEU GLN GLN LEU SEQRES 13 A 462 ASN PHE SER SER 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 108 GLY PRO LEU GLY SER TRP VAL ILE PRO PRO ILE SER CYS SEQRES 2 B 108 PRO GLU ASN GLU LYS GLY PRO PHE PRO LYS ASN LEU VAL SEQRES 3 B 108 GLN ILE LYS SER ASN LYS ASP LYS GLU GLY LYS VAL PHE SEQRES 4 B 108 TYR SER ILE THR GLY GLN GLY ALA ASP THR PRO PRO VAL SEQRES 5 B 108 GLY VAL PHE ILE ILE GLU ARG GLU THR GLY TRP LEU LYS SEQRES 6 B 108 VAL THR GLU PRO LEU ASP ARG GLU ARG ILE ALA THR TYR SEQRES 7 B 108 THR LEU PHE SER HIS ALA VAL SER SER ASN GLY ASN ALA SEQRES 8 B 108 VAL GLU ASP PRO MET GLU ILE LEU ILE THR VAL THR ASP SEQRES 9 B 108 GLN ASN ASP ASN HET CL A1499 1 HET CA B1497 1 HETNAM CL CHLORIDE ION HETNAM CA CALCIUM ION FORMUL 3 CL CL 1- FORMUL 4 CA CA 2+ FORMUL 5 HOH *707(H2 O) HELIX 1 1 ILE A 44 PHE A 48 1 5 HELIX 2 2 ASP A 50 LEU A 61 1 12 HELIX 3 3 SER A 71 ASP A 76 1 6 HELIX 4 4 GLY A 93 LEU A 97 5 5 HELIX 5 5 ILE A 113 LYS A 117 5 5 HELIX 6 6 ILE A 135 ALA A 139 5 5 HELIX 7 7 ILE A 157 LYS A 161 5 5 HELIX 8 8 ILE A 179 SER A 183 5 5 HELIX 9 9 LEU A 201 ALA A 205 5 5 HELIX 10 10 ILE A 223 LEU A 229 5 7 HELIX 11 11 ILE A 245 GLY A 249 5 5 HELIX 12 12 ILE A 267 LEU A 273 5 7 HELIX 13 13 LEU A 289 SER A 293 5 5 HELIX 14 14 ILE A 311 ALA A 315 5 5 HELIX 15 15 ILE A 333 LEU A 339 5 7 HELIX 16 16 ILE A 355 LEU A 361 5 7 HELIX 17 17 VAL A 377 LEU A 383 5 7 HELIX 18 18 LEU A 399 ALA A 403 5 5 HELIX 19 19 ASP A 450 GLY A 452 5 3 SHEET 1 A 2 THR A 42 PRO A 43 0 SHEET 2 A 2 THR A 69 VAL A 70 -1 O VAL A 70 N THR A 42 SHEET 1 B16 THR A 80 GLN A 82 0 SHEET 2 B16 GLN A 102 ASN A 104 1 O ASN A 104 N LEU A 81 SHEET 3 B16 ASP A 124 LEU A 126 1 O LEU A 126 N ILE A 103 SHEET 4 B16 GLY A 146 THR A 148 1 O THR A 148 N ILE A 125 SHEET 5 B16 ARG A 168 GLU A 170 1 O ARG A 168 N LEU A 147 SHEET 6 B16 GLN A 190 ASN A 192 1 O GLN A 190 N LEU A 169 SHEET 7 B16 ARG A 212 ASP A 214 1 O ARG A 212 N LEU A 191 SHEET 8 B16 SER A 234 ILE A 236 1 O ILE A 236 N LEU A 213 SHEET 9 B16 GLU A 256 SER A 258 1 O SER A 258 N LEU A 235 SHEET 10 B16 ASP A 278 ASP A 280 1 O ASP A 278 N LEU A 257 SHEET 11 B16 GLU A 300 LYS A 302 1 O GLU A 300 N LEU A 279 SHEET 12 B16 ASN A 322 GLU A 324 1 O GLU A 324 N LEU A 301 SHEET 13 B16 TYR A 344 THR A 346 1 O THR A 346 N LEU A 323 SHEET 14 B16 ARG A 366 PHE A 368 1 O PHE A 368 N LEU A 345 SHEET 15 B16 TRP A 388 SER A 390 1 O SER A 390 N LEU A 367 SHEET 16 B16 GLN A 410 GLY A 412 1 O GLN A 410 N LEU A 389 SHEET 1 C 3 GLN A 416 THR A 419 0 SHEET 2 C 3 GLY A 483 LYS A 496 1 O SER A 488 N GLN A 416 SHEET 3 C 3 VAL A 423 ASN A 424 1 N VAL A 423 O LYS A 496 SHEET 1 D 4 GLN A 416 THR A 419 0 SHEET 2 D 4 GLY A 483 LYS A 496 1 O SER A 488 N GLN A 416 SHEET 3 D 4 GLU A 469 ILE A 480 -1 N TYR A 472 O VAL A 491 SHEET 4 D 4 THR A 447 ILE A 448 -1 N THR A 447 O THR A 473 SHEET 1 E 3 ASN A 428 PRO A 432 0 SHEET 2 E 3 ASP A 458 ASN A 462 -1 O ILE A 459 N ILE A 431 SHEET 3 E 3 SER A 453 THR A 455 -1 N SER A 453 O THR A 460 SHEET 1 F 2 TRP B 2 VAL B 3 0 SHEET 2 F 2 LYS B 25 SER B 26 -1 O LYS B 25 N VAL B 3 SHEET 1 G 4 ILE B 7 PRO B 10 0 SHEET 2 G 4 MET B 92 THR B 99 1 O THR B 97 N CYS B 9 SHEET 3 G 4 THR B 73 SER B 82 -1 N LEU B 76 O ILE B 94 SHEET 4 G 4 VAL B 34 GLY B 40 -1 N PHE B 35 O VAL B 81 SHEET 1 H 3 LYS B 19 GLN B 23 0 SHEET 2 H 3 TRP B 59 VAL B 62 -1 O LEU B 60 N VAL B 22 SHEET 3 H 3 PHE B 51 ILE B 53 -1 N ILE B 52 O LYS B 61 LINK OD1BASN B 27 CA CA B1497 1555 1555 2.60 LINK OD2 ASP B 29 CA CA B1497 1555 1555 2.96 CISPEP 1 GLU A 456 PRO A 457 0 2.12 CISPEP 2 GLY B 15 PRO B 16 0 4.83 CISPEP 3 PHE B 17 PRO B 18 0 -2.36 CISPEP 4 PRO B 46 PRO B 47 0 -4.42 SITE 1 AC1 5 GLU A 327 TYR A 348 LYS B 25 ASN B 27 SITE 2 AC1 5 ASP B 29 SITE 1 AC2 6 TYR A 370 SER A 390 ALA A 391 GLY A 392 SITE 2 AC2 6 GLY A 412 HOH B1537 CRYST1 44.887 54.160 68.811 74.75 80.69 67.71 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 0.022278 -0.009132 -0.001677 0.00000 SCALE2 0.000000 0.019955 -0.004519 0.00000 SCALE3 0.000000 0.000000 0.015099 0.00000