HEADER CELL ADHESION 12-MAY-00 1F00 TITLE CRYSTAL STRUCTURE OF C-TERMINAL 282-RESIDUE FRAGMENT OF TITLE 2 ENTEROPATHOGENIC E. COLI INTIMIN COMPND MOL_ID: 1; COMPND 2 MOLECULE: INTIMIN; COMPND 3 CHAIN: I; COMPND 4 FRAGMENT: C-TERMINAL DOMAIN (282 RESIDUES); COMPND 5 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: ESCHERICHIA COLI; SOURCE 3 ORGANISM_TAXID: 562; SOURCE 4 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 5 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 6 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 7 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 8 EXPRESSION_SYSTEM_PLASMID: PET21A KEYWDS IMMUNOGLOBULIN-LIKE FOLD, C-TYPE LECTIN-LIKE FOLD, CELL ADHESION EXPDTA X-RAY DIFFRACTION AUTHOR Y.LUO,E.A.FREY,R.A.PFUETZNER,A.L.CREAGH,D.G.KNOECHEL,C.A.HAYNES, AUTHOR 2 B.B.FINLAY,N.C.J.STRYNADKA REVDAT 4 07-FEB-24 1F00 1 REMARK REVDAT 3 24-FEB-09 1F00 1 VERSN REVDAT 2 01-APR-03 1F00 1 JRNL REVDAT 1 12-JUL-00 1F00 0 JRNL AUTH Y.LUO,E.A.FREY,R.A.PFUETZNER,A.L.CREAGH,D.G.KNOECHEL, JRNL AUTH 2 C.A.HAYNES,B.B.FINLAY,N.C.STRYNADKA JRNL TITL CRYSTAL STRUCTURE OF ENTEROPATHOGENIC ESCHERICHIA COLI JRNL TITL 2 INTIMIN-RECEPTOR COMPLEX. JRNL REF NATURE V. 405 1073 2000 JRNL REFN ISSN 0028-0836 JRNL PMID 10890451 JRNL DOI 10.1038/35016618 REMARK 2 REMARK 2 RESOLUTION. 1.90 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : CNS 0.9 REMARK 3 AUTHORS : BRUNGER,ADAMS,CLORE,DELANO,GROS,GROSSE- REMARK 3 : KUNSTLEVE,JIANG,KUSZEWSKI,NILGES,PANNU, REMARK 3 : READ,RICE,SIMONSON,WARREN REMARK 3 REMARK 3 REFINEMENT TARGET : ENGH & HUBER REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.90 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 20.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 DATA CUTOFF HIGH (ABS(F)) : NULL REMARK 3 DATA CUTOFF LOW (ABS(F)) : NULL REMARK 3 COMPLETENESS (WORKING+TEST) (%) : 90.7 REMARK 3 NUMBER OF REFLECTIONS : 24543 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 CROSS-VALIDATION METHOD : NULL REMARK 3 FREE R VALUE TEST SET SELECTION : RANDOM REMARK 3 R VALUE (WORKING SET) : 0.215 REMARK 3 FREE R VALUE : 0.255 REMARK 3 FREE R VALUE TEST SET SIZE (%) : NULL REMARK 3 FREE R VALUE TEST SET COUNT : 2440 REMARK 3 ESTIMATED ERROR OF FREE R VALUE : NULL REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : NULL REMARK 3 BIN RESOLUTION RANGE HIGH (A) : NULL REMARK 3 BIN RESOLUTION RANGE LOW (A) : NULL REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : NULL REMARK 3 REFLECTIONS IN BIN (WORKING SET) : NULL REMARK 3 BIN R VALUE (WORKING SET) : NULL REMARK 3 BIN FREE R VALUE : NULL REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : NULL REMARK 3 BIN FREE R VALUE TEST SET COUNT : NULL REMARK 3 ESTIMATED ERROR OF BIN FREE R VALUE : NULL REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2114 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 0 REMARK 3 SOLVENT ATOMS : 190 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 21.10 REMARK 3 MEAN B VALUE (OVERALL, A**2) : NULL REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : NULL REMARK 3 B22 (A**2) : NULL REMARK 3 B33 (A**2) : NULL REMARK 3 B12 (A**2) : NULL REMARK 3 B13 (A**2) : NULL REMARK 3 B23 (A**2) : NULL REMARK 3 REMARK 3 ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM LUZZATI PLOT (A) : NULL REMARK 3 ESD FROM SIGMAA (A) : NULL REMARK 3 LOW RESOLUTION CUTOFF (A) : NULL REMARK 3 REMARK 3 CROSS-VALIDATED ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM C-V LUZZATI PLOT (A) : NULL REMARK 3 ESD FROM C-V SIGMAA (A) : NULL REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 BOND LENGTHS (A) : 0.051 REMARK 3 BOND ANGLES (DEGREES) : 1.419 REMARK 3 DIHEDRAL ANGLES (DEGREES) : NULL REMARK 3 IMPROPER ANGLES (DEGREES) : NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL MODEL : NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. RMS SIGMA REMARK 3 MAIN-CHAIN BOND (A**2) : NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE (A**2) : NULL ; NULL REMARK 3 SIDE-CHAIN BOND (A**2) : NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE (A**2) : NULL ; NULL REMARK 3 REMARK 3 BULK SOLVENT MODELING. REMARK 3 METHOD USED : NULL REMARK 3 KSOL : NULL REMARK 3 BSOL : NULL REMARK 3 REMARK 3 NCS MODEL : NULL REMARK 3 REMARK 3 NCS RESTRAINTS. RMS SIGMA/WEIGHT REMARK 3 GROUP 1 POSITIONAL (A) : NULL ; NULL REMARK 3 GROUP 1 B-FACTOR (A**2) : NULL ; NULL REMARK 3 REMARK 3 PARAMETER FILE 1 : NULL REMARK 3 TOPOLOGY FILE 1 : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 1F00 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 16-MAY-00. REMARK 100 THE DEPOSITION ID IS D_1000011076. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 05-JAN-00 REMARK 200 TEMPERATURE (KELVIN) : 100.0 REMARK 200 PH : 7.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : N REMARK 200 RADIATION SOURCE : ROTATING ANODE REMARK 200 BEAMLINE : NULL REMARK 200 X-RAY GENERATOR MODEL : RIGAKU RU200 REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.5418 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : IMAGE PLATE REMARK 200 DETECTOR MANUFACTURER : RIGAKU RAXIS IIC REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 24955 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.900 REMARK 200 RESOLUTION RANGE LOW (A) : 20.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 3.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 90.7 REMARK 200 DATA REDUNDANCY : 3.730 REMARK 200 R MERGE (I) : 0.09700 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 15.1000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.90 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.94 REMARK 200 COMPLETENESS FOR SHELL (%) : 51.5 REMARK 200 DATA REDUNDANCY IN SHELL : 2.50 REMARK 200 R MERGE FOR SHELL (I) : 0.26100 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: NULL REMARK 200 SOFTWARE USED: SHARP REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 57.84 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.92 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 1.8 M POTASSIUM PHOSPHATE, PH 7.5, REMARK 280 VAPOR DIFFUSION, SITTING DROP, TEMPERATURE 291.0K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 1 21 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,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 23.55000 REMARK 290 SMTRY3 2 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: MONOMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: I 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: 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 GLN I 675 -38.35 -130.75 REMARK 500 SER I 737 -66.09 -25.73 REMARK 500 ALA I 740 55.45 -98.27 REMARK 500 ASN I 799 88.06 -150.01 REMARK 500 ASN I 829 66.46 77.10 REMARK 500 LYS I 849 148.06 -171.03 REMARK 500 GLN I 920 -97.45 65.67 REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1INM RELATED DB: PDB REMARK 900 NMR STRUCTURE OF SIMILAR FRAGMENT OF INTIMIN REMARK 900 RELATED ID: 1CWV RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF HOMOLOGOUS INVASIN REMARK 900 RELATED ID: 1F02 RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF SIMILAR FRAGMENT OF INTIMIN IN COMPLEX WITH REMARK 900 TIR INTIMIN-BINDING DOMAIN DBREF 1F00 I 658 939 UNP P19809 EAE_ECO27 658 939 SEQRES 1 I 282 ALA SER ILE THR GLU ILE LYS ALA ASP LYS THR THR ALA SEQRES 2 I 282 VAL ALA ASN GLY GLN ASP ALA ILE THR TYR THR VAL LYS SEQRES 3 I 282 VAL MET LYS GLY ASP LYS PRO VAL SER ASN GLN GLU VAL SEQRES 4 I 282 THR PHE THR THR THR LEU GLY LYS LEU SER ASN SER THR SEQRES 5 I 282 GLU LYS THR ASP THR ASN GLY TYR ALA LYS VAL THR LEU SEQRES 6 I 282 THR SER THR THR PRO GLY LYS SER LEU VAL SER ALA ARG SEQRES 7 I 282 VAL SER ASP VAL ALA VAL ASP VAL LYS ALA PRO GLU VAL SEQRES 8 I 282 GLU PHE PHE THR THR LEU THR ILE ASP ASP GLY ASN ILE SEQRES 9 I 282 GLU ILE VAL GLY THR GLY VAL LYS GLY LYS LEU PRO THR SEQRES 10 I 282 VAL TRP LEU GLN TYR GLY GLN VAL ASN LEU LYS ALA SER SEQRES 11 I 282 GLY GLY ASN GLY LYS TYR THR TRP ARG SER ALA ASN PRO SEQRES 12 I 282 ALA ILE ALA SER VAL ASP ALA SER SER GLY GLN VAL THR SEQRES 13 I 282 LEU LYS GLU LYS GLY THR THR THR ILE SER VAL ILE SER SEQRES 14 I 282 SER ASP ASN GLN THR ALA THR TYR THR ILE ALA THR PRO SEQRES 15 I 282 ASN SER LEU ILE VAL PRO ASN MET SER LYS ARG VAL THR SEQRES 16 I 282 TYR ASN ASP ALA VAL ASN THR CYS LYS ASN PHE GLY GLY SEQRES 17 I 282 LYS LEU PRO SER SER GLN ASN GLU LEU GLU ASN VAL PHE SEQRES 18 I 282 LYS ALA TRP GLY ALA ALA ASN LYS TYR GLU TYR TYR LYS SEQRES 19 I 282 SER SER GLN THR ILE ILE SER TRP VAL GLN GLN THR ALA SEQRES 20 I 282 GLN ASP ALA LYS SER GLY VAL ALA SER THR TYR ASP LEU SEQRES 21 I 282 VAL LYS GLN ASN PRO LEU ASN ASN ILE LYS ALA SER GLU SEQRES 22 I 282 SER ASN ALA TYR ALA THR CYS VAL LYS FORMUL 2 HOH *190(H2 O) HELIX 1 1 THR I 852 PHE I 863 1 12 HELIX 2 2 SER I 870 GLY I 882 1 13 HELIX 3 3 ALA I 883 TYR I 887 5 5 HELIX 4 4 TYR I 887 LYS I 891 5 5 HELIX 5 5 THR I 903 GLY I 910 1 8 SHEET 1 A 4 LYS I 704 LEU I 705 0 SHEET 2 A 4 TYR I 717 THR I 723 -1 O THR I 723 N LYS I 704 SHEET 3 A 4 ILE I 678 LYS I 686 -1 N ILE I 678 O LEU I 722 SHEET 4 A 4 SER I 659 ALA I 665 -1 O SER I 659 N MET I 685 SHEET 1 B 4 LYS I 704 LEU I 705 0 SHEET 2 B 4 TYR I 717 THR I 723 -1 O THR I 723 N LYS I 704 SHEET 3 B 4 ILE I 678 LYS I 686 -1 N ILE I 678 O LEU I 722 SHEET 4 B 4 LYS I 689 PRO I 690 -1 O LYS I 689 N LYS I 686 SHEET 1 C 3 THR I 669 VAL I 671 0 SHEET 2 C 3 VAL I 748 PHE I 751 1 O GLU I 749 N ALA I 670 SHEET 3 C 3 GLY I 728 SER I 730 -1 N GLY I 728 O PHE I 750 SHEET 1 D 4 THR I 709 LYS I 711 0 SHEET 2 D 4 GLU I 695 THR I 700 -1 N VAL I 696 O GLU I 710 SHEET 3 D 4 VAL I 732 VAL I 736 -1 N SER I 733 O THR I 699 SHEET 4 D 4 VAL I 743 LYS I 744 -1 N VAL I 743 O ALA I 734 SHEET 1 E 2 THR I 755 ILE I 756 0 SHEET 2 E 2 ALA I 786 SER I 787 -1 O SER I 787 N THR I 755 SHEET 1 F 5 LYS I 769 GLY I 770 0 SHEET 2 F 5 ILE I 761 ILE I 763 -1 N ILE I 761 O GLY I 770 SHEET 3 F 5 GLN I 781 ASN I 783 -1 N ASN I 783 O GLU I 762 SHEET 4 F 5 GLN I 811 LEU I 814 -1 N VAL I 812 O VAL I 782 SHEET 5 F 5 ALA I 803 VAL I 805 -1 O SER I 804 N THR I 813 SHEET 1 G 3 VAL I 775 LEU I 777 0 SHEET 2 G 3 SER I 841 VAL I 851 1 O SER I 841 N TRP I 776 SHEET 3 G 3 ALA I 933 VAL I 938 -1 O ALA I 933 N VAL I 851 SHEET 1 H 3 TYR I 793 SER I 797 0 SHEET 2 H 3 THR I 820 SER I 826 -1 N SER I 823 O ARG I 796 SHEET 3 H 3 GLN I 830 ILE I 836 -1 O GLN I 830 N SER I 826 SHEET 1 I 3 ILE I 897 TRP I 899 0 SHEET 2 I 3 VAL I 911 ASP I 916 -1 O TYR I 915 N SER I 898 SHEET 3 I 3 GLN I 920 LYS I 927 -1 O GLN I 920 N ASP I 916 CRYST1 52.160 47.100 71.660 90.00 94.20 90.00 P 1 21 1 2 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 0.019170 0.000000 0.001410 0.00000 SCALE2 0.000000 0.021230 0.000000 0.00000 SCALE3 0.000000 0.000000 0.013990 0.00000