10 20 30 40 50 60 70 80 2K5X - Header ----|----|----|----|----|----|----|----|----|----|----|----|----|----|----|----| Asymmetric UnitHEADER IMMUNE SYSTEM/HYDROLASE 01-JUL-08 2K5X
TITLE CHEMICAL SHIFT STRUCTURE OF COLICIN E9 DNASE DOMAIN WITH TITLE 2 ITS COGNATE IMMUNITY PROTEIN IM9
COMPND MOL_ID: 1; COMPND 2 MOLECULE: COLICIN-E9 IMMUNITY PROTEIN; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: IMME9, MICROCIN-E9 IMMUNITY PROTEIN; COMPND 5 ENGINEERED: YES; COMPND 6 MOL_ID: 2; COMPND 7 MOLECULE: COLICIN-E9; COMPND 8 CHAIN: B; COMPND 9 FRAGMENT: UNP RESIDUES 450-582; COMPND 10 EC: 3.1.-.-; COMPND 11 ENGINEERED: YES
SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: ESCHERICHIA COLI; SOURCE 3 ORGANISM_TAXID: 562; SOURCE 4 GENE: IMM, CEIE9; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 MOL_ID: 2; SOURCE 7 ORGANISM_SCIENTIFIC: ESCHERICHIA COLI; SOURCE 8 ORGANISM_TAXID: 562; SOURCE 9 GENE: COL, CEI; SOURCE 10 EXPRESSION_SYSTEM: ESCHERICHIA COLI
KEYWDS COLICIN E9, IMMUNITY PROTEIN IM9, BACTERIOCIN IMMUNITY, KEYWDS 2 PLASMID, ANTIBIOTIC, ANTIMICROBIAL, BACTERIOCIN, KEYWDS 3 ENDONUCLEASE, HYDROLASE, METAL-BINDING, NUCLEASE, ZINC, KEYWDS 4 IMMUNE SYSTEM/HYDROLASE COMPLEX
EXPDTA SOLUTION NMR
AUTHOR R.W.MONTALVAO,A.CAVALLI,M.VENDRUSCOLO
REVDAT 1 09-DEC-08 2K5X 0
JRNL AUTH R.W.MONTALVAO,A.CAVALLI,X.SALVATELLA,T.L.BLUNDELL, JRNL AUTH 2 M.VENDRUSCOLO JRNL TITL STRUCTURE DETERMINATION OF PROTEIN-PROTEIN JRNL TITL 2 COMPLEXES USING NMR CHEMICAL SHIFTS: CASE OF AN JRNL TITL 3 ENDONUCLEASE COLICIN-IMMUNITY PROTEIN COMPLEX JRNL REF J.AM.CHEM.SOC. V. 130 15990 2008 JRNL REFN ISSN 0002-7863 JRNL PMID 18980319
REMARK 1
REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE.
REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : NULL REMARK 3 AUTHORS : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: CHESHIRE
REMARK 4 REMARK 4 2K5X COMPLIES WITH FORMAT V. 3.20, 01-DEC-08
REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 02-JUL-08. REMARK 100 THE RCSB ID CODE IS RCSB100716.
REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 298 REMARK 210 PH : 6.2 REMARK 210 IONIC STRENGTH : NULL REMARK 210 PRESSURE : NULL REMARK 210 SAMPLE CONTENTS : NULL REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : NULL REMARK 210 SPECTROMETER FIELD STRENGTH : 500 MHZ REMARK 210 SPECTROMETER MODEL : DMX REMARK 210 SPECTROMETER MANUFACTURER : BRUKER REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : CHESHIRE REMARK 210 METHOD USED : SIMULATED ANNEALING REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 500 REMARK 210 CONFORMERS, NUMBER SUBMITTED : NULL REMARK 210 CONFORMERS, SELECTION CRITERIA : STRUCTURES WITH THE LOWEST REMARK 210 ENERGY REMARK 210 REMARK 210 BEST REPRESENTATIVE CONFORMER IN THIS ENSEMBLE : NULL 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 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 HIS A 5 CG HIS A 5 CD2 0.067 REMARK 500 HIS A 39 ND1 HIS A 39 CE1 -0.095 REMARK 500 HIS A 46 NE2 HIS A 46 CD2 -0.069 REMARK 500 TYR A 55 CE2 TYR A 55 CD2 -0.091 REMARK 500 HIS B 131 NE2 HIS B 131 CD2 -0.074 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 HIS A 5 CE1 - NE2 - CD2 ANGL. DEV. = 4.6 DEGREES REMARK 500 TYR A 10 CG - CD1 - CE1 ANGL. DEV. = 5.9 DEGREES REMARK 500 GLU A 31 O - C - N ANGL. DEV. = -9.9 DEGREES REMARK 500 VAL A 37 CA - CB - CG1 ANGL. DEV. = 9.6 DEGREES REMARK 500 PHE A 40 CB - CG - CD2 ANGL. DEV. = -4.9 DEGREES REMARK 500 HIS A 46 CE1 - NE2 - CD2 ANGL. DEV. = 5.1 DEGREES REMARK 500 TYR A 55 CD1 - CE1 - CZ ANGL. DEV. = -6.7 DEGREES REMARK 500 TRP A 74 CD1 - CG - CD2 ANGL. DEV. = 7.9 DEGREES REMARK 500 TRP A 74 NE1 - CE2 - CZ2 ANGL. DEV. = -13.0 DEGREES REMARK 500 TRP A 74 NE1 - CE2 - CD2 ANGL. DEV. = 8.2 DEGREES REMARK 500 TRP A 74 CE2 - CD2 - CG ANGL. DEV. = -9.4 DEGREES REMARK 500 PHE A 83 CB - CG - CD1 ANGL. DEV. = -4.7 DEGREES REMARK 500 ARG B 5 NE - CZ - NH1 ANGL. DEV. = 4.8 DEGREES REMARK 500 TRP B 22 CD1 - CG - CD2 ANGL. DEV. = 7.0 DEGREES REMARK 500 TRP B 22 NE1 - CE2 - CZ2 ANGL. DEV. = -8.7 DEGREES REMARK 500 TRP B 22 NE1 - CE2 - CD2 ANGL. DEV. = 9.6 DEGREES REMARK 500 TRP B 22 CE2 - CD2 - CG ANGL. DEV. = -9.2 DEGREES REMARK 500 TRP B 22 CG - CD2 - CE3 ANGL. DEV. = 5.6 DEGREES REMARK 500 ALA B 26 O - C - N ANGL. DEV. = -10.6 DEGREES REMARK 500 ALA B 32 CB - CA - C ANGL. DEV. = -9.7 DEGREES REMARK 500 ASP B 44 CB - CG - OD1 ANGL. DEV. = 7.5 DEGREES REMARK 500 PHE B 53 CB - CG - CD2 ANGL. DEV. = -4.5 DEGREES REMARK 500 ARG B 54 NE - CZ - NH1 ANGL. DEV. = -3.0 DEGREES REMARK 500 LEU B 71 CB - CG - CD2 ANGL. DEV. = -11.9 DEGREES REMARK 500 TYR B 114 CB - CG - CD2 ANGL. DEV. = -8.4 DEGREES REMARK 500 TYR B 114 CD1 - CG - CD2 ANGL. DEV. = 8.6 DEGREES REMARK 500 TYR B 114 CG - CD1 - CE1 ANGL. DEV. = -9.6 DEGREES REMARK 500 ARG B 126 NE - CZ - NH1 ANGL. DEV. = -3.1 DEGREES REMARK 500 ARG B 126 NE - CZ - NH2 ANGL. DEV. = 4.2 DEGREES REMARK 500 HIS B 127 CB - CG - CD2 ANGL. DEV. = -11.8 DEGREES REMARK 500 ASP B 129 CB - CG - OD2 ANGL. DEV. = 5.9 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 SER A 8 14.11 -60.56 REMARK 500 GLU A 45 -29.64 81.05 REMARK 500 PHE A 83 -155.71 -84.41 REMARK 500 GLN A 85 105.53 -57.65 REMARK 500 LYS B 4 9.78 -65.59 REMARK 500 PRO B 17 81.17 -69.12 REMARK 500 ALA B 26 1.07 -62.49 REMARK 500 ASP B 29 -80.46 68.52 REMARK 500 ARG B 43 96.90 -69.00 REMARK 500 PRO B 73 -48.84 -24.08 REMARK 500 PRO B 85 171.07 -44.72 REMARK 500 VAL B 93 76.71 -105.05 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 TYR A 10 0.09 SIDE_CHAIN REMARK 500 TYR A 55 0.13 SIDE_CHAIN REMARK 500 PHE B 47 0.11 SIDE_CHAIN REMARK 500 ARG B 96 0.12 SIDE_CHAIN REMARK 500 REMARK 500 REMARK: NULL
REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1IMQ RELATED DB: PDB REMARK 900 IMMUNITY PROTEIN IM9 REMARK 900 RELATED ID: 1FSJ RELATED DB: PDB REMARK 900 COLICIN E9 REMARK 900 RELATED ID: 1EMV RELATED DB: PDB REMARK 900 IMMUNITY PROTEIN IM9 & COLICIN E9 COMPLEX REMARK 900 RELATED ID: 4352 RELATED DB: BMRB REMARK 900 COLICIN E9 CHEMICAL SHIFTS REMARK 900 RELATED ID: 4115 RELATED DB: BMRB REMARK 900 IMMUNITY PROTEIN IM9 CHEMICAL SHIFTS
DBREF 2K5X A 1 86 UNP P13479 IMM9_ECOLX 1 86 DBREF 2K5X B 2 134 UNP P09883 CEA9_ECOLX 450 582
SEQADV 2K5X MET B 1 UNP P09883 INITIATING METHIONINE
SEQRES 1 A 86 MET GLU LEU LYS HIS SER ILE SER ASP TYR THR GLU ALA SEQRES 2 A 86 GLU PHE LEU GLN LEU VAL THR THR ILE CYS ASN ALA ASP SEQRES 3 A 86 THR SER SER GLU GLU GLU LEU VAL LYS LEU VAL THR HIS SEQRES 4 A 86 PHE GLU GLU MET THR GLU HIS PRO SER GLY SER ASP LEU SEQRES 5 A 86 ILE TYR TYR PRO LYS GLU GLY ASP ASP ASP SER PRO SER SEQRES 6 A 86 GLY ILE VAL ASN THR VAL LYS GLN TRP ARG ALA ALA ASN SEQRES 7 A 86 GLY LYS SER GLY PHE LYS GLN GLY SEQRES 1 B 134 MET GLU SER LYS ARG ASN LYS PRO GLY LYS ALA THR GLY SEQRES 2 B 134 LYS GLY LYS PRO VAL GLY ASP LYS TRP LEU ASP ASP ALA SEQRES 3 B 134 GLY LYS ASP SER GLY ALA PRO ILE PRO ASP ARG ILE ALA SEQRES 4 B 134 ASP LYS LEU ARG ASP LYS GLU PHE LYS SER PHE ASP ASP SEQRES 5 B 134 PHE ARG LYS ALA VAL TRP GLU GLU VAL SER LYS ASP PRO SEQRES 6 B 134 GLU LEU SER LYS ASN LEU ASN PRO SER ASN LYS SER SER SEQRES 7 B 134 VAL SER LYS GLY TYR SER PRO PHE THR PRO LYS ASN GLN SEQRES 8 B 134 GLN VAL GLY GLY ARG LYS VAL TYR GLU LEU HIS HIS ASP SEQRES 9 B 134 LYS PRO ILE SER GLN GLY GLY GLU VAL TYR ASP MET ASP SEQRES 10 B 134 ASN ILE ARG VAL THR THR PRO LYS ARG HIS ILE ASP ILE SEQRES 11 B 134 HIS ARG GLY LYS
HELIX 1 1 SER A 6 TYR A 10 5 5 HELIX 2 2 THR A 11 ASN A 24 1 14 HELIX 3 3 SER A 29 GLU A 45 1 17 HELIX 4 4 GLY A 49 TYR A 55 1 7 HELIX 5 5 SER A 63 GLY A 79 1 17 HELIX 6 6 LYS B 21 ALA B 26 5 6 HELIX 7 7 PRO B 35 LYS B 41 1 7 HELIX 8 8 SER B 49 ASP B 64 1 16 HELIX 9 9 ASN B 72 LYS B 81 1 10 HELIX 10 10 PRO B 106 GLY B 110 5 5 HELIX 11 11 ASP B 115 ASP B 117 5 3 HELIX 12 12 THR B 123 HIS B 131 1 9
SHEET 1 A 2 GLY B 9 LYS B 10 0 SHEET 2 A 2 GLU B 46 PHE B 47 -1 O PHE B 47 N GLY B 9 SHEET 1 B 3 ALA B 32 PRO B 33 0 SHEET 2 B 3 ILE B 119 THR B 122 -1 O VAL B 121 N ALA B 32 SHEET 3 B 3 GLU B 100 HIS B 103 -1 N GLU B 100 O THR B 122
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