HEADER CELL INVASION 15-OCT-02 1O6T TITLE INTERNALIN (INLA, LISTERIA MONOCYTOGENES) - FUNCTIONAL DOMAIN, TITLE 2 UNCOMPLEXED COMPND MOL_ID: 1; COMPND 2 MOLECULE: INTERNALIN A; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: FUNCTIONAL DOMAIN, RESIDUES 36-496; COMPND 5 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: LISTERIA MONOCYTOGENES; SOURCE 3 ORGANISM_TAXID: 169963; SOURCE 4 STRAIN: EGD-E; SOURCE 5 VARIANT: SEROVAR 1/2A; SOURCE 6 ATCC: DSMZ 20600; SOURCE 7 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 8 EXPRESSION_SYSTEM_TAXID: 511693; SOURCE 9 EXPRESSION_SYSTEM_STRAIN: BL21; SOURCE 10 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 11 EXPRESSION_SYSTEM_PLASMID: PGEX-6P-1 KEYWDS CELL INVASION, BACTERIAL INFECTION, LEUCINE RICH REPEAT, CELL KEYWDS 2 ADHESION, CELL-WALL SURFACE PROTEIN EXPDTA X-RAY DIFFRACTION AUTHOR W.-D.SCHUBERT,C.URBANKE,T.ZIEHM,V.BEIER,M.P.MACHNER,E.DOMANN, AUTHOR 2 J.WEHLAND,T.CHAKRABORTY,D.W.HEINZ REVDAT 4 08-MAY-19 1O6T 1 REMARK REVDAT 3 26-JAN-11 1O6T 1 VERSN REVDAT 2 24-FEB-09 1O6T 1 VERSN REVDAT 1 23-DEC-02 1O6T 0 JRNL AUTH W.-D.SCHUBERT,C.URBANKE,T.ZIEHM,V.BEIER,M.P.MACHNER, JRNL AUTH 2 E.DOMANN,J.WEHLAND,T.CHAKRABORTY,D.W.HEINZ JRNL TITL STRUCTURE OF INTERNALIN, A MAJOR INVASION PROTEIN OF JRNL TITL 2 LISTERIA MONOCYTOGENES, IN COMPLEX WITH ITS HUMAN RECEPTOR JRNL TITL 3 E-CADHERIN JRNL REF CELL(CAMBRIDGE,MASS.) V. 111 825 2002 JRNL REFN ISSN 0092-8674 JRNL PMID 12526809 JRNL DOI 10.1016/S0092-8674(02)01136-4 REMARK 2 REMARK 2 RESOLUTION. 1.60 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.1.24 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) : 1.60 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 91.29 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 99.5 REMARK 3 NUMBER OF REFLECTIONS : 59440 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) : 0.133 REMARK 3 R VALUE (WORKING SET) : 0.131 REMARK 3 FREE R VALUE : 0.161 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 3170 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) : 1.60 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.64 REMARK 3 REFLECTION IN BIN (WORKING SET) : 4201 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : NULL REMARK 3 BIN R VALUE (WORKING SET) : 0.2060 REMARK 3 BIN FREE R VALUE SET COUNT : 222 REMARK 3 BIN FREE R VALUE : 0.2700 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 3505 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 79 REMARK 3 SOLVENT ATOMS : 702 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 15.26 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.74000 REMARK 3 B22 (A**2) : 0.78000 REMARK 3 B33 (A**2) : -0.32000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : -0.37000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.077 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.077 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.049 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 1.384 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.977 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.969 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 4504 ; 0.022 ; 0.021 REMARK 3 BOND LENGTHS OTHERS (A): 3982 ; 0.002 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 6265 ; 1.678 ; 1.979 REMARK 3 BOND ANGLES OTHERS (DEGREES): 9459 ; 0.857 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 628 ; 6.820 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): NULL ; NULL ; NULL REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 757 ; 0.124 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 5279 ; 0.007 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 743 ; 0.004 ; 0.020 REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 1070 ; 0.315 ; 0.300 REMARK 3 NON-BONDED CONTACTS OTHERS (A): 5443 ; 0.265 ; 0.300 REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION OTHERS (A): 2833 ; 0.094 ; 0.500 REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 889 ; 0.236 ; 0.500 REMARK 3 H-BOND (X...Y) OTHERS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION REFINED ATOMS (A): 6 ; 0.190 ; 0.500 REMARK 3 POTENTIAL METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW REFINED ATOMS (A): 35 ; 0.186 ; 0.300 REMARK 3 SYMMETRY VDW OTHERS (A): 91 ; 0.232 ; 0.300 REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 93 ; 0.237 ; 0.500 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): 2855 ; 1.321 ; 2.000 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 4780 ; 2.143 ; 3.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1649 ; 1.973 ; 2.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1485 ; 3.205 ; 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 : NULL REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : BABINET MODEL WITH 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 1O6T COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 15-OCT-02. REMARK 100 THE DEPOSITION ID IS D_1290011548. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 15-AUG-02 REMARK 200 TEMPERATURE (KELVIN) : 100.0 REMARK 200 PH : 6.00 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : MPG/DESY, HAMBURG REMARK 200 BEAMLINE : BW6 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.05 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MARRESEARCH REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 50336 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.800 REMARK 200 RESOLUTION RANGE LOW (A) : 25.100 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 92.0 REMARK 200 DATA REDUNDANCY : 6.200 REMARK 200 R MERGE (I) : 0.06200 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 14.4000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.80 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.86 REMARK 200 COMPLETENESS FOR SHELL (%) : 84.3 REMARK 200 DATA REDUNDANCY IN SHELL : 4.50 REMARK 200 R MERGE FOR SHELL (I) : 0.38500 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 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: EPMR REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 48.80 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.42 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: METHOD: VAPOUR DIFFUSION / HANGING REMARK 280 DROP, PROTEIN: 10 MG/ML IN 10 MM HEPES PH 7.0, RESEVOIR: 10% PEG REMARK 280 4000, 100 MM MES/TRIS PH 6.0, 100 MM AMMONIUM SULFATE, 10 MM REMARK 280 CACL2. CRYSTALS GREW APPROX 2 YEARS AFTER SETUP. TRUE REMARK 280 CRYSTALLIZATION CONDITIONS PROBABLY DEVIATE FROM THOSE INDICATED, REMARK 280 PH 6.00, VAPOR DIFFUSION, HANGING DROP 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 47.95950 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 27.94050 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 47.95950 REMARK 290 SMTRY2 4 0.000000 1.000000 0.000000 27.94050 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: 3110 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 46280 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -1.3 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 -38.31563 REMARK 350 BIOMT2 2 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 2 0.000000 0.000000 -1.000000 89.96022 REMARK 375 REMARK 375 SPECIAL POSITION REMARK 375 THE FOLLOWING ATOMS ARE FOUND TO BE WITHIN 0.15 ANGSTROMS REMARK 375 OF A SYMMETRY RELATED ATOM AND ARE ASSUMED TO BE ON SPECIAL REMARK 375 POSITIONS. REMARK 375 REMARK 375 ATOM RES CSSEQI REMARK 375 HOH A2637 LIES ON A SPECIAL POSITION. 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 A 31 REMARK 465 PRO A 32 REMARK 465 LEU A 33 REMARK 465 GLY A 34 REMARK 470 REMARK 470 MISSING ATOM REMARK 470 THE FOLLOWING RESIDUES HAVE MISSING ATOMS (M=MODEL NUMBER; REMARK 470 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 470 I=INSERTION CODE): REMARK 470 M RES CSSEQI ATOMS REMARK 470 ALA A 496 CA C O CB 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 ND2 ASN A 195 O HOH A 2280 1.16 REMARK 500 MG MG A 1497 O HOH A 2403 1.60 REMARK 500 OD1 ASN A 423 O HOH A 2585 1.70 REMARK 500 NE2 GLN A 40 O HOH A 2003 1.87 REMARK 500 OE1 GLU A 170 O HOH A 2239 1.94 REMARK 500 ND2 ASN A 423 O HOH A 2583 1.98 REMARK 500 OE1 GLN A 306 O HOH A 2441 1.99 REMARK 500 O SER A 378 OD1 ASN A 381 2.12 REMARK 500 OD1 ASP A 265 O HOH A 2384 2.14 REMARK 500 O ALA A 380 O HOH A 2531 2.15 REMARK 500 OD1 ASN A 381 O HOH A 2536 2.15 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 156 CB - CG - OD1 ANGL. DEV. = 5.9 DEGREES REMARK 500 ASP A 449 CB - CG - OD2 ANGL. DEV. = 5.5 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 THR A 111 -80.96 -130.26 REMARK 500 MET A 127 32.03 -145.66 REMARK 500 MET A 127 26.06 -147.29 REMARK 500 ASN A 152 -153.44 -122.93 REMARK 500 ASN A 152 -150.77 -122.72 REMARK 500 ASN A 174 -159.60 -119.41 REMARK 500 ASN A 174 -159.60 -110.13 REMARK 500 LEU A 206 54.65 -92.58 REMARK 500 ASN A 217 -161.12 -119.20 REMARK 500 ASN A 217 -159.36 -119.20 REMARK 500 ALA A 236 33.68 -141.73 REMARK 500 ASN A 239 -155.95 -120.42 REMARK 500 ASN A 261 -153.28 -120.42 REMARK 500 LYS A 264 -58.22 -132.09 REMARK 500 LYS A 264 -58.84 -128.09 REMARK 500 LEU A 272 65.81 -103.61 REMARK 500 ASN A 283 -155.94 -136.58 REMARK 500 ASN A 305 -158.53 -130.38 REMARK 500 ASN A 305 -155.24 -130.38 REMARK 500 ASN A 305 -158.66 -130.38 REMARK 500 ASN A 327 -154.78 -130.38 REMARK 500 ASN A 327 -153.30 -130.38 REMARK 500 GLU A 330 -59.03 -124.77 REMARK 500 GLU A 330 -58.50 -122.30 REMARK 500 ASN A 370 62.56 62.84 REMARK 500 ASN A 393 -152.51 -115.14 REMARK 500 GLU A 455 140.33 -34.77 REMARK 500 GLU A 455 130.98 69.67 REMARK 500 PRO A 456 44.21 -83.17 REMARK 500 LYS A 495 -73.06 -87.52 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 TYR A 453 THR A 454 148.28 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: MAIN CHAIN PLANARITY REMARK 500 REMARK 500 THE FOLLOWING RESIDUES HAVE A PSEUDO PLANARITY REMARK 500 TORSION ANGLE, C(I) - CA(I) - N(I+1) - O(I), GREATER REMARK 500 10.0 DEGREES. (M=MODEL NUMBER; RES=RESIDUE NAME; REMARK 500 C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 500 I=INSERTION CODE). REMARK 500 REMARK 500 M RES CSSEQI ANGLE REMARK 500 TYR A 453 11.20 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 A2020 DISTANCE = 7.09 ANGSTROMS REMARK 525 HOH A2095 DISTANCE = 6.27 ANGSTROMS REMARK 525 HOH A2152 DISTANCE = 6.92 ANGSTROMS REMARK 610 REMARK 610 MISSING HETEROATOM REMARK 610 THE FOLLOWING RESIDUES HAVE MISSING ATOMS (M=MODEL NUMBER; REMARK 610 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 610 I=INSERTION CODE): REMARK 610 M RES C SSEQI REMARK 610 MES A 1507 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 MG A1497 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 277 OD1 REMARK 620 2 ASP A 277 OD2 31.8 REMARK 620 3 HOH A2126 O 151.7 174.3 REMARK 620 4 HOH A2406 O 115.4 86.2 91.8 REMARK 620 5 HOH A2407 O 74.9 85.1 100.1 87.8 REMARK 620 6 HOH A2371 O 99.8 87.8 86.9 90.0 172.7 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CA A1498 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HOH A2467 O REMARK 620 2 HOH A2468 O 89.2 REMARK 620 3 HOH A2050 O 156.5 101.1 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 MG A 1497 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CA A 1498 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CL A 1499 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CL A 1500 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 A 1501 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 A 1502 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 A 1503 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 A 1504 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MES A 1505 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MES A 1506 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MES A 1507 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MES A 1508 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MES A 1509 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1O6S RELATED DB: PDB REMARK 900 INTERNALIN (LISTERIA MONOCYTOGENES) / E-CADHERIN (HUMAN) REMARK 900 RECOGNITION COMPLEX REMARK 900 RELATED ID: 1O6V RELATED DB: PDB REMARK 900 INTERNALIN (LISTERIA MONOCYTOGENES) - FUNCTIONAL DOMAIN, UNCOMPLEXED REMARK 999 REMARK 999 SEQUENCE REMARK 999 FIRST FIVE RESIDUES (GPLGS) REMARK 999 INTRODUCED THROUGH CLONING PROCEDURE DBREF 1O6T A 36 496 UNP P25146 INLA_LISMO 36 496 SEQADV 1O6T GLY A 31 UNP P25146 EXPRESSION TAG SEQADV 1O6T PRO A 32 UNP P25146 EXPRESSION TAG SEQADV 1O6T LEU A 33 UNP P25146 EXPRESSION TAG SEQADV 1O6T GLY A 34 UNP P25146 EXPRESSION TAG SEQADV 1O6T SER A 35 UNP P25146 EXPRESSION TAG SEQRES 1 A 466 GLY PRO LEU GLY SER ALA THR ILE THR GLN ASP THR PRO SEQRES 2 A 466 ILE ASN GLN ILE PHE THR ASP THR ALA LEU ALA GLU LYS SEQRES 3 A 466 MET LYS THR VAL LEU GLY LYS THR ASN VAL THR ASP THR SEQRES 4 A 466 VAL SER GLN THR ASP LEU ASP GLN VAL THR THR LEU GLN SEQRES 5 A 466 ALA ASP ARG LEU GLY ILE LYS SER ILE ASP GLY VAL GLU SEQRES 6 A 466 TYR LEU ASN ASN LEU THR GLN ILE ASN PHE SER ASN ASN SEQRES 7 A 466 GLN LEU THR ASP ILE THR PRO LEU LYS ASN LEU THR LYS SEQRES 8 A 466 LEU VAL ASP ILE LEU MET ASN ASN ASN GLN ILE ALA ASP SEQRES 9 A 466 ILE THR PRO LEU ALA ASN LEU THR ASN LEU THR GLY LEU SEQRES 10 A 466 THR LEU PHE ASN ASN GLN ILE THR ASP ILE ASP PRO LEU SEQRES 11 A 466 LYS ASN LEU THR ASN LEU ASN ARG LEU GLU LEU SER SER SEQRES 12 A 466 ASN THR ILE SER ASP ILE SER ALA LEU SER GLY LEU THR SEQRES 13 A 466 SER LEU GLN GLN LEU SER PHE GLY ASN GLN VAL THR ASP SEQRES 14 A 466 LEU LYS PRO LEU ALA ASN LEU THR THR LEU GLU ARG LEU SEQRES 15 A 466 ASP ILE SER SER ASN LYS VAL SER ASP ILE SER VAL LEU SEQRES 16 A 466 ALA LYS LEU THR ASN LEU GLU SER LEU ILE ALA THR ASN SEQRES 17 A 466 ASN GLN ILE SER ASP ILE THR PRO LEU GLY ILE LEU THR SEQRES 18 A 466 ASN LEU ASP GLU LEU SER LEU ASN GLY ASN GLN LEU LYS SEQRES 19 A 466 ASP ILE GLY THR LEU ALA SER LEU THR ASN LEU THR ASP SEQRES 20 A 466 LEU ASP LEU ALA ASN ASN GLN ILE SER ASN LEU ALA PRO SEQRES 21 A 466 LEU SER GLY LEU THR LYS LEU THR GLU LEU LYS LEU GLY SEQRES 22 A 466 ALA ASN GLN ILE SER ASN ILE SER PRO LEU ALA GLY LEU SEQRES 23 A 466 THR ALA LEU THR ASN LEU GLU LEU ASN GLU ASN GLN LEU SEQRES 24 A 466 GLU ASP ILE SER PRO ILE SER ASN LEU LYS ASN LEU THR SEQRES 25 A 466 TYR LEU THR LEU TYR PHE ASN ASN ILE SER ASP ILE SER SEQRES 26 A 466 PRO VAL SER SER LEU THR LYS LEU GLN ARG LEU PHE PHE SEQRES 27 A 466 TYR ASN ASN LYS VAL SER ASP VAL SER SER LEU ALA ASN SEQRES 28 A 466 LEU THR ASN ILE ASN TRP LEU SER ALA GLY HIS ASN GLN SEQRES 29 A 466 ILE SER ASP LEU THR PRO LEU ALA ASN LEU THR ARG ILE SEQRES 30 A 466 THR GLN LEU GLY LEU ASN ASP GLN ALA TRP THR ASN ALA SEQRES 31 A 466 PRO VAL ASN TYR LYS ALA ASN VAL SER ILE PRO ASN THR SEQRES 32 A 466 VAL LYS ASN VAL THR GLY ALA LEU ILE ALA PRO ALA THR SEQRES 33 A 466 ILE SER ASP GLY GLY SER TYR THR GLU PRO ASP ILE THR SEQRES 34 A 466 TRP ASN LEU PRO SER TYR THR ASN GLU VAL SER TYR THR SEQRES 35 A 466 PHE SER GLN PRO VAL THR ILE GLY LYS GLY THR THR THR SEQRES 36 A 466 PHE SER GLY THR VAL THR GLN PRO LEU LYS ALA HET MG A1497 1 HET CA A1498 1 HET CL A1499 1 HET CL A1500 1 HET SO4 A1501 5 HET SO4 A1502 5 HET SO4 A1503 5 HET SO4 A1504 5 HET MES A1505 14 HET MES A1506 24 HET MES A1507 7 HET MES A1508 24 HET MES A1509 24 HETNAM MG MAGNESIUM ION HETNAM CA CALCIUM ION HETNAM CL CHLORIDE ION HETNAM SO4 SULFATE ION HETNAM MES 2-(N-MORPHOLINO)-ETHANESULFONIC ACID FORMUL 2 MG MG 2+ FORMUL 3 CA CA 2+ FORMUL 4 CL 2(CL 1-) FORMUL 6 SO4 4(O4 S 2-) FORMUL 10 MES 5(C6 H13 N O4 S) FORMUL 15 HOH *702(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 200 ALA A 204 5 5 HELIX 10 10 ILE A 222 LEU A 228 5 7 HELIX 11 11 ILE A 244 LEU A 250 5 7 HELIX 12 12 ILE A 266 LEU A 272 5 7 HELIX 13 13 LEU A 288 SER A 292 5 5 HELIX 14 14 ILE A 310 ALA A 314 5 5 HELIX 15 15 ILE A 332 LEU A 338 5 7 HELIX 16 16 ILE A 354 LEU A 360 5 7 HELIX 17 17 VAL A 376 LEU A 382 5 7 HELIX 18 18 LEU A 398 ALA A 402 5 5 HELIX 19 19 ASP A 449 GLY A 451 5 3 SHEET 1 AA 2 THR A 42 PRO A 43 0 SHEET 2 AA 2 THR A 69 VAL A 70 -1 O VAL A 70 N THR A 42 SHEET 1 AB16 THR A 80 GLN A 82 0 SHEET 2 AB16 GLN A 102 ASN A 104 1 O GLN A 102 N LEU A 81 SHEET 3 AB16 ASP A 124 LEU A 126 1 O ASP A 124 N ILE A 103 SHEET 4 AB16 GLY A 146 THR A 148 1 O GLY A 146 N ILE A 125 SHEET 5 AB16 ARG A 168 ILE A 176 1 O ARG A 168 N LEU A 147 SHEET 6 AB16 GLN A 190 ASN A 195 1 O GLN A 190 N LEU A 169 SHEET 7 AB16 ARG A 211 ASP A 213 1 O ARG A 211 N LEU A 191 SHEET 8 AB16 SER A 233 ILE A 235 1 O SER A 233 N LEU A 212 SHEET 9 AB16 GLU A 255 SER A 257 1 O GLU A 255 N LEU A 234 SHEET 10 AB16 ASP A 277 ASP A 279 1 O ASP A 277 N LEU A 256 SHEET 11 AB16 GLU A 299 LYS A 301 1 O GLU A 299 N LEU A 278 SHEET 12 AB16 ASN A 321 GLU A 323 1 O ASN A 321 N LEU A 300 SHEET 13 AB16 TYR A 343 THR A 345 1 O TYR A 343 N LEU A 322 SHEET 14 AB16 ARG A 365 PHE A 367 1 O ARG A 365 N LEU A 344 SHEET 15 AB16 TRP A 387 SER A 389 1 O TRP A 387 N LEU A 366 SHEET 16 AB16 GLN A 409 GLY A 411 1 O GLN A 409 N LEU A 388 SHEET 1 AC 4 GLN A 415 THR A 418 0 SHEET 2 AC 4 GLY A 482 PRO A 493 1 O SER A 487 N GLN A 415 SHEET 3 AC 4 GLU A 468 ILE A 479 -1 O VAL A 469 N GLN A 492 SHEET 4 AC 4 THR A 446 ILE A 447 -1 O THR A 446 N THR A 472 SHEET 1 AD 3 ASN A 427 PRO A 431 0 SHEET 2 AD 3 ASP A 457 ASN A 461 -1 O ILE A 458 N ILE A 430 SHEET 3 AD 3 SER A 452 THR A 454 -1 O SER A 452 N THR A 459 LINK MG MG A1497 OD1BASP A 277 1555 1555 2.39 LINK MG MG A1497 OD2AASP A 277 1555 1555 2.09 LINK MG MG A1497 O HOH A2126 1555 1555 1.93 LINK MG MG A1497 O HOH A2406 1555 1555 1.89 LINK MG MG A1497 O HOH A2407 1555 1555 1.87 LINK MG MG A1497 O HOH A2371 1555 1555 1.99 LINK CA CA A1498 O HOH A2467 1555 1555 2.26 LINK CA CA A1498 O HOH A2468 1555 1555 2.33 LINK CA CA A1498 O HOH A2050 1555 2556 3.02 CISPEP 1 GLY A 194 ASN A 195 0 10.77 CISPEP 2 GLY A 194 ASN A 195 0 10.87 CISPEP 3 GLU A 455 PRO A 456 0 -8.66 CISPEP 4 GLU A 455 PRO A 456 0 -8.33 SITE 1 AC1 6 ASP A 277 HOH A2126 HOH A2371 HOH A2403 SITE 2 AC1 6 HOH A2406 HOH A2407 SITE 1 AC2 4 LYS A 301 HOH A2050 HOH A2467 HOH A2468 SITE 1 AC3 2 ASN A 309 HOH A2444 SITE 1 AC4 3 LYS A 56 GLN A 82 HOH A2687 SITE 1 AC5 7 TYR A 343 THR A 345 TYR A 347 PHE A 367 SITE 2 AC5 7 TYR A 369 MES A1508 HOH A2493 SITE 1 AC6 7 ARG A 365 ASN A 386 TRP A 387 THR A 408 SITE 2 AC6 7 HOH A2540 HOH A2542 HOH A2683 SITE 1 AC7 6 ARG A 85 ASN A 129 HOH A2106 HOH A2166 SITE 2 AC7 6 HOH A2684 HOH A2685 SITE 1 AC8 4 LYS A 56 LEU A 81 GLN A 82 HOH A2687 SITE 1 AC9 12 ASN A 413 THR A 484 THR A 485 HOH A2241 SITE 2 AC9 12 HOH A2566 HOH A2668 HOH A2688 HOH A2689 SITE 3 AC9 12 HOH A2701 HOH A2702 HOH A2703 HOH A2704 SITE 1 BC1 11 GLY A 62 ASN A 321 TYR A 343 TYR A 347 SITE 2 BC1 11 ARG A 365 PHE A 367 TYR A 369 TRP A 387 SITE 3 BC1 11 MES A1508 HOH A2467 HOH A2690 SITE 1 BC2 5 LYS A 63 GLU A 326 PHE A 348 HOH A2691 SITE 2 BC2 5 HOH A2693 SITE 1 BC3 12 GLY A 62 TYR A 369 SER A 389 GLY A 391 SITE 2 BC3 12 HIS A 392 ASN A 413 SO4 A1501 MES A1506 SITE 3 BC3 12 HOH A2518 HOH A2694 HOH A2700 HOH A2702 SITE 1 BC4 9 ASP A 76 GLN A 77 THR A 79 ASN A 99 SITE 2 BC4 9 LYS A 121 HOH A2695 HOH A2696 HOH A2697 SITE 3 BC4 9 HOH A2698 CRYST1 95.919 55.881 97.780 90.00 113.07 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 0.010425 0.000000 0.004440 0.00000 SCALE2 0.000000 0.017895 0.000000 0.00000 SCALE3 0.000000 0.000000 0.011116 0.00000