HEADER PROTEIN BINDING 05-MAR-18 6FW4 TITLE PROTEIN-PROTEIN INTERACTIONS AND CONFORMATIONAL CHANGES : IMPORTANCE TITLE 2 OF THE HYDROPHOBIC CAVITY OF TOLA C-TERMINAL DOMAIN COMPND MOL_ID: 1; COMPND 2 MOLECULE: TOLA PROTEIN; COMPND 3 CHAIN: A; COMPND 4 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: VIBRIO CHOLERAE; SOURCE 3 ORGANISM_TAXID: 666; SOURCE 4 GENE: ERS013140_01933; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS COMPLEX, INDUCED FIT, CONFORMATION, VIBRIO, CHOLERAE, PRESSURE, KEYWDS 2 VIRAL, PHAGE, INTERACTION, TOLA, PIII, G3P, CAVITIE, PROTEIN, KEYWDS 3 PROTEIN BINDING EXPDTA SOLUTION NMR NUMMDL 20 AUTHOR R.NAVARRO,C.VAN HEIJENOORT,O.BORNET,L.HOUOT,R.LLOUBES,F.GUERLESQUIN, AUTHOR 2 M.NOUAILLER REVDAT 3 08-MAY-19 6FW4 1 REMARK REVDAT 2 17-APR-19 6FW4 1 REMARK REVDAT 1 20-MAR-19 6FW4 0 JRNL AUTH R.NAVARRO,C.VAN HEIJENOORT,O.BORNET,L.HOUOT,R.LLOUBES, JRNL AUTH 2 F.GUERLESQUIN,M.NOUAILLER JRNL TITL INDUCED FIT CONFORMATIONAL CHANGES OF VIBRIO CHOLERAE JRNL TITL 2 TOLAIII DOMAIN DURING THE COMPLEX FORMATION WITH THE VIRAL JRNL TITL 3 PIIIN1 DOMAIN: STRUCTURAL AND HIGH-PRESSURE NMR STUDIES. JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : AMBER, CYANA REMARK 3 AUTHORS : CASE, DARDEN, CHEATHAM III, SIMMERLING, WANG, REMARK 3 DUKE, LUO, ... AND KOLLMAN (AMBER), GUNTERT, REMARK 3 MUMENTHALER AND WUTHRICH (CYANA) REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 6FW4 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 05-MAR-18. REMARK 100 THE DEPOSITION ID IS D_1200007869. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 300; 300 REMARK 210 PH : 6.9; 6.9 REMARK 210 IONIC STRENGTH : 0.5; 0.5 REMARK 210 PRESSURE : 1 BAR; 2500 BAR REMARK 210 SAMPLE CONTENTS : 0.5 MM TOLAIII, 90% H2O/10% D2O; REMARK 210 0.5 MM [U-13C; U-15N] TOLAIII, REMARK 210 90% H2O/10% D2O REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 2D 1H-1H NOESY; 2D 1H-13C HSQC; REMARK 210 2D 1H-13C HSQC AROMATIC; 2D 1H- REMARK 210 15N HSQC; 2D 1H-1H TOCSY; 2D 1H- REMARK 210 1H COSY; 2D 1H-13C CBCACO; 3D REMARK 210 HNCO; 3D HNCACB; 3D CBCA(CO)NH; REMARK 210 3D HCCH-TOCSY; 3D 1H-15N NOESY; REMARK 210 3D 1H-15N TOCSY REMARK 210 SPECTROMETER FIELD STRENGTH : 600 MHZ; 950 MHZ; 800 MHZ REMARK 210 SPECTROMETER MODEL : AVANCEIII REMARK 210 SPECTROMETER MANUFACTURER : BRUKER REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : CARA, TOPSPIN REMARK 210 METHOD USED : DISTANCE GEOMETRY REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 100 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 20 REMARK 210 CONFORMERS, SELECTION CRITERIA : STRUCTURES WITH THE LOWEST REMARK 210 ENERGY REMARK 210 REMARK 210 BEST REPRESENTATIVE CONFORMER IN THIS ENSEMBLE : 1 REMARK 210 REMARK 210 REMARK: NULL REMARK 215 REMARK 215 NMR STUDY REMARK 215 THE COORDINATES IN THIS ENTRY WERE GENERATED FROM SOLUTION REMARK 215 NMR DATA. PROTEIN DATA BANK CONVENTIONS REQUIRE THAT REMARK 215 CRYST1 AND SCALE RECORDS BE INCLUDED, BUT THE VALUES ON REMARK 215 THESE RECORDS ARE MEANINGLESS. 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 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 0 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 6610 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: 0.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 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 2 ARG A 24 NE - CZ - NH1 ANGL. DEV. = 3.9 DEGREES REMARK 500 4 ARG A 34 NE - CZ - NH1 ANGL. DEV. = 3.3 DEGREES REMARK 500 5 ARG A 44 NE - CZ - NH2 ANGL. DEV. = 3.7 DEGREES REMARK 500 5 ARG A 91 NE - CZ - NH1 ANGL. DEV. = 3.0 DEGREES REMARK 500 7 ARG A 84 NE - CZ - NH1 ANGL. DEV. = 3.1 DEGREES REMARK 500 9 ARG A 34 NE - CZ - NH1 ANGL. DEV. = 3.8 DEGREES REMARK 500 9 ARG A 44 NE - CZ - NH1 ANGL. DEV. = 3.1 DEGREES REMARK 500 12 ARG A 44 NE - CZ - NH1 ANGL. DEV. = 4.3 DEGREES REMARK 500 15 ARG A 34 NE - CZ - NH1 ANGL. DEV. = 3.2 DEGREES REMARK 500 17 ARG A 44 NE - CZ - NH1 ANGL. DEV. = 3.9 DEGREES REMARK 500 17 ARG A 54 NE - CZ - NH1 ANGL. DEV. = 3.1 DEGREES REMARK 500 18 ARG A 44 NE - CZ - NH1 ANGL. DEV. = 3.4 DEGREES REMARK 500 20 ARG A 34 NE - CZ - NH1 ANGL. DEV. = 3.0 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 1 ALA A 23 -44.13 77.19 REMARK 500 1 GLN A 26 -23.07 -148.21 REMARK 500 1 LEU A 48 39.95 -74.76 REMARK 500 1 GLU A 50 -53.15 72.73 REMARK 500 1 LEU A 73 109.59 -59.30 REMARK 500 1 SER A 98 147.24 168.67 REMARK 500 1 ASP A 104 15.32 -155.86 REMARK 500 1 PRO A 106 -4.09 -55.64 REMARK 500 2 ARG A 24 19.11 -156.58 REMARK 500 2 GLN A 26 -17.21 -144.70 REMARK 500 2 PHE A 27 5.41 -63.03 REMARK 500 2 LEU A 48 38.09 -76.48 REMARK 500 2 GLU A 50 -59.01 70.82 REMARK 500 2 LYS A 56 -168.64 -101.20 REMARK 500 2 SER A 98 141.47 167.60 REMARK 500 3 ARG A 24 19.90 -166.64 REMARK 500 3 GLN A 26 -9.19 -145.93 REMARK 500 3 ARG A 34 -64.79 -132.59 REMARK 500 3 GLU A 50 -57.59 73.30 REMARK 500 3 SER A 98 142.47 165.59 REMARK 500 4 ALA A 23 -67.42 -165.29 REMARK 500 4 GLN A 26 -22.79 -145.95 REMARK 500 4 GLU A 50 -60.04 72.86 REMARK 500 4 SER A 98 143.44 163.21 REMARK 500 5 ALA A 23 -72.08 -135.03 REMARK 500 5 GLN A 26 -24.32 -143.10 REMARK 500 5 LEU A 48 25.87 -74.01 REMARK 500 5 VAL A 49 -61.91 -94.99 REMARK 500 5 GLU A 50 -47.66 74.24 REMARK 500 5 SER A 98 145.27 170.73 REMARK 500 5 ALA A 120 -49.28 -167.76 REMARK 500 6 ARG A 24 15.53 -154.69 REMARK 500 6 GLN A 26 -22.60 -146.71 REMARK 500 6 ARG A 34 -70.92 -110.58 REMARK 500 6 GLU A 50 -64.11 71.44 REMARK 500 6 SER A 98 142.47 171.14 REMARK 500 7 ARG A 24 23.81 150.75 REMARK 500 7 GLN A 26 -29.97 -143.06 REMARK 500 7 PHE A 27 1.05 -59.90 REMARK 500 7 LEU A 48 28.93 -76.20 REMARK 500 7 GLU A 50 -62.64 72.54 REMARK 500 7 SER A 83 102.87 -30.24 REMARK 500 7 ARG A 84 -1.21 70.44 REMARK 500 7 SER A 98 141.94 172.78 REMARK 500 7 PRO A 106 -7.05 -56.02 REMARK 500 8 ALA A 23 167.43 69.91 REMARK 500 8 ARG A 24 21.52 -153.04 REMARK 500 8 GLN A 26 -21.64 -146.16 REMARK 500 8 LEU A 48 31.02 -77.96 REMARK 500 8 GLU A 50 -63.84 72.79 REMARK 500 REMARK 500 THIS ENTRY HAS 121 RAMACHANDRAN OUTLIERS. 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 A 82 SER A 83 6 -149.51 REMARK 500 ASP A 82 SER A 83 14 -144.33 REMARK 500 ASP A 82 SER A 83 18 -147.03 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 2 TYR A 39 0.07 SIDE CHAIN REMARK 500 3 TYR A 35 0.06 SIDE CHAIN REMARK 500 3 TYR A 39 0.08 SIDE CHAIN REMARK 500 4 TYR A 39 0.08 SIDE CHAIN REMARK 500 6 TYR A 35 0.09 SIDE CHAIN REMARK 500 7 TYR A 35 0.08 SIDE CHAIN REMARK 500 10 TYR A 35 0.08 SIDE CHAIN REMARK 500 13 TYR A 35 0.09 SIDE CHAIN REMARK 500 15 TYR A 39 0.08 SIDE CHAIN REMARK 500 16 TYR A 39 0.07 SIDE CHAIN REMARK 500 18 TYR A 35 0.07 SIDE CHAIN REMARK 500 19 TYR A 35 0.07 SIDE CHAIN REMARK 500 19 TYR A 39 0.07 SIDE CHAIN REMARK 500 20 TYR A 35 0.07 SIDE CHAIN REMARK 500 20 TYR A 39 0.07 SIDE CHAIN REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 25689 RELATED DB: BMRB REMARK 900 INDUCED FIT CONFORMATIONAL CHANGES OF VIBRIO CHOLERAE TOLAIII REMARK 900 DOMAIN DURING THE COMPLEX FORMATION WITH THE VIRAL PIIIN1 DOMAIN: REMARK 900 STRUCTURAL AND HIGH-PRESSURE NMR STUDIES. DBREF1 6FW4 A 22 122 UNP A0A0H6WQ38_VIBCL DBREF2 6FW4 A A0A0H6WQ38 17 117 SEQRES 1 A 101 ALA ALA ARG GLN GLN PHE VAL THR SER GLU VAL GLY ARG SEQRES 2 A 101 TYR GLY ALA ILE TYR THR GLN LEU ILE ARG GLN ASN LEU SEQRES 3 A 101 LEU VAL GLU ASP SER PHE ARG GLY LYS GLN CYS ARG VAL SEQRES 4 A 101 ASN LEU LYS LEU ILE PRO THR GLY THR GLY ALA LEU LEU SEQRES 5 A 101 GLY SER LEU THR VAL LEU ASP GLY ASP SER ARG LEU CYS SEQRES 6 A 101 ALA ALA THR LYS ARG ALA VAL ALA GLN VAL ASN SER PHE SEQRES 7 A 101 PRO LEU PRO LYS ASP GLN PRO ASP VAL VAL GLU LYS LEU SEQRES 8 A 101 LYS ASN ILE ASN LEU THR VAL ALA PRO GLU HELIX 1 AA1 PHE A 27 GLY A 36 1 10 HELIX 2 AA2 GLY A 36 GLN A 45 1 10 HELIX 3 AA3 ASP A 82 ALA A 94 1 13 HELIX 4 AA4 VAL A 108 LYS A 113 1 6 SHEET 1 AA1 3 LEU A 72 GLY A 81 0 SHEET 2 AA1 3 CYS A 58 ILE A 65 -1 N ASN A 61 O THR A 77 SHEET 3 AA1 3 ASN A 114 VAL A 119 -1 O VAL A 119 N CYS A 58 CISPEP 1 ALA A 120 PRO A 121 5 -14.17 CISPEP 2 ALA A 22 ALA A 23 10 -7.07 CISPEP 3 ALA A 22 ALA A 23 19 7.74 CRYST1 1.000 1.000 1.000 90.00 90.00 90.00 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 1.000000 0.000000 0.000000 0.00000 SCALE2 0.000000 1.000000 0.000000 0.00000 SCALE3 0.000000 0.000000 1.000000 0.00000 MODEL 1