HEADER LANTIBIOTIC-BINDING-PROTEIN 06-JUL-12 2LVL TITLE NMR STRUCTURE THE LANTIBIOTIC IMMUNITY PROTEIN SPAI COMPND MOL_ID: 1; COMPND 2 MOLECULE: SPAI; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: UNP RESIDUES 40-165; COMPND 5 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: BACILLUS SUBTILIS; SOURCE 3 ORGANISM_TAXID: 1423; SOURCE 4 GENE: SPAI; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 7 EXPRESSION_SYSTEM_VECTOR: PQE9 KEYWDS LANTIBIOTIC SELF-IMMUNITY PROTEIN, SUBTILIN, IMMUNE SYSTEM, KEYWDS 2 LANTIBIOTIC-BINDING-PROTEIN EXPDTA SOLUTION NMR NUMMDL 20 MDLTYP MINIMIZED AVERAGE AUTHOR N.CHRIST,S.BOCHMANN,D.GOTTSTEIN,E.DUCHARDT-FERNER,U.A.HELLMICH, AUTHOR 2 S.DUESTERHUS,P.KOETTER,P.GUENTERT,K.ENTIAN,J.WOEHNERT REVDAT 3 14-JUN-23 2LVL 1 REMARK SEQADV REVDAT 2 31-OCT-12 2LVL 1 JRNL REVDAT 1 29-AUG-12 2LVL 0 JRNL AUTH N.A.CHRIST,S.BOCHMANN,D.GOTTSTEIN,E.DUCHARDT-FERNER, JRNL AUTH 2 U.A.HELLMICH,S.DUSTERHUS,P.KOTTER,P.GUNTERT,K.D.ENTIAN, JRNL AUTH 3 J.WOHNERT JRNL TITL THE FIRST STRUCTURE OF A LANTIBIOTIC IMMUNITY PROTEIN, SPAI JRNL TITL 2 FROM BACILLUS SUBTILIS, REVEALS A NOVEL FOLD. JRNL REF J.BIOL.CHEM. V. 287 35286 2012 JRNL REFN ISSN 0021-9258 JRNL PMID 22904324 JRNL DOI 10.1074/JBC.M112.401620 REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : CYANA, CYANA, OPALP REMARK 3 AUTHORS : GUNTERT, MUMENTHALER AND WUTHRICH (CYANA), REMARK 3 GUNTERT, MUMENTHALER AND WUTHRICH (CYANA), REMARK 3 LUGINBUHL, GUNTERT, BILLETER AND WUTHRICH (OPALP) REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: WATER REFINEMENT REMARK 4 REMARK 4 2LVL COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 12-JUL-12. REMARK 100 THE DEPOSITION ID IS D_1000102886. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 296 REMARK 210 PH : 6.4 REMARK 210 IONIC STRENGTH : 100 REMARK 210 PRESSURE : AMBIENT REMARK 210 SAMPLE CONTENTS : 50 MM SODIUM PHOSPHATE, 100 MM REMARK 210 SODIUM CHLORIDE, 10 UM DSS, 300- REMARK 210 400 UM [U-15N] SPAI, 90% H2O/10% REMARK 210 D2O; 50 MM SODIUM PHOSPHATE, 100 REMARK 210 MM SODIUM CHLORIDE, 10 UM DSS, REMARK 210 420 UM [U-13C; U-15N; U-2H] SPAI, REMARK 210 90% H2O/10% D2O; 50 MM SODIUM REMARK 210 PHOSPHATE, 100 MM SODIUM REMARK 210 CHLORIDE, 10 UM DSS, 300-400 UM REMARK 210 [U-13C; U-15N] SPAI, 90% H2O/10% REMARK 210 D2O; 50 MM SODIUM PHOSPHATE, 100 REMARK 210 MM SODIUM CHLORIDE, 10 UM DSS, REMARK 210 300 UM [U-13C; U-15N] SPAI, 90% REMARK 210 D2O/10% H2O REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 2D 1H-15N HSQC; 2D 1H-13C HSQC REMARK 210 ALIPHATIC; 2D 1H-13C HSQC REMARK 210 AROMATIC; 3D CBCA(CO)NH; 3D HNCO; REMARK 210 3D HNCA; 3D HNCACB; 3D HBHA(CO) REMARK 210 NH; 3D H(CCO)NH; 3D C(CO)NH; 3D REMARK 210 HCCH-TOCSY; 3D HCCH-COSY; 3D REMARK 210 HNHA; 3D 1H-15N NOESY; 3D 1H-13C REMARK 210 NOESY ALIPHATIC; 3D 1H-13C NOESY REMARK 210 AROMATIC; 3D HNCACO REMARK 210 SPECTROMETER FIELD STRENGTH : 600 MHZ; 700 MHZ; 800 MHZ; 950 REMARK 210 MHZ; 900 MHZ REMARK 210 SPECTROMETER MODEL : AVANCE REMARK 210 SPECTROMETER MANUFACTURER : BRUKER REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : CCPN_ANALYSIS, CARA, TOPSPIN REMARK 210 METHOD USED : TORSION ANGLE DYNAMICS REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 100 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 20 REMARK 210 CONFORMERS, SELECTION CRITERIA : TARGET FUNCTION 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 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: CLOSE CONTACTS 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 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 1 GLY A 94 C - N - CA ANGL. DEV. = 14.1 DEGREES REMARK 500 3 GLY A 94 C - N - CA ANGL. DEV. = 14.1 DEGREES REMARK 500 4 GLY A 94 C - N - CA ANGL. DEV. = 15.8 DEGREES REMARK 500 5 GLY A 94 C - N - CA ANGL. DEV. = 12.6 DEGREES REMARK 500 7 GLY A 94 C - N - CA ANGL. DEV. = 13.9 DEGREES REMARK 500 9 GLY A 94 C - N - CA ANGL. DEV. = 13.5 DEGREES REMARK 500 10 GLY A 94 C - N - CA ANGL. DEV. = 14.3 DEGREES REMARK 500 11 ARG A 67 CD - NE - CZ ANGL. DEV. = 8.9 DEGREES REMARK 500 13 ARG A 92 NE - CZ - NH2 ANGL. DEV. = -4.0 DEGREES REMARK 500 13 GLY A 94 C - N - CA ANGL. DEV. = 15.3 DEGREES REMARK 500 15 ARG A 86 NE - CZ - NH2 ANGL. DEV. = -3.3 DEGREES REMARK 500 15 GLY A 94 C - N - CA ANGL. DEV. = 13.4 DEGREES REMARK 500 16 ARG A 86 NE - CZ - NH2 ANGL. DEV. = -3.1 DEGREES REMARK 500 16 GLY A 94 C - N - CA ANGL. DEV. = 13.0 DEGREES REMARK 500 17 GLY A 94 C - N - CA ANGL. DEV. = 16.5 DEGREES REMARK 500 19 GLY A 94 C - N - CA ANGL. DEV. = 13.6 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 2 LYS A 40 -66.88 -95.70 REMARK 500 2 LYS A 50 158.93 179.87 REMARK 500 2 ILE A 52 -33.37 -132.02 REMARK 500 2 TYR A 77 -70.74 -99.91 REMARK 500 2 ASN A 100 -11.25 65.29 REMARK 500 2 GLU A 101 -74.62 -14.09 REMARK 500 2 ASP A 102 9.62 54.99 REMARK 500 3 SER A 2 -63.85 -142.14 REMARK 500 3 ASP A 34 32.63 70.97 REMARK 500 3 LYS A 40 -65.56 -122.70 REMARK 500 3 ASN A 81 62.24 23.18 REMARK 500 3 ASN A 100 73.10 -69.88 REMARK 500 3 LYS A 124 40.28 -69.44 REMARK 500 4 SER A 2 -112.80 -143.60 REMARK 500 4 ASN A 12 29.59 -141.26 REMARK 500 4 SER A 15 29.82 47.29 REMARK 500 4 ASN A 80 -1.81 71.59 REMARK 500 4 GLU A 101 -72.78 -79.04 REMARK 500 4 ASP A 102 21.03 49.78 REMARK 500 4 ALA A 105 -80.41 -66.95 REMARK 500 4 LYS A 124 -9.71 -59.13 REMARK 500 5 ASP A 13 177.86 -59.86 REMARK 500 5 SER A 79 -94.97 -154.88 REMARK 500 5 GLU A 101 -70.17 -85.38 REMARK 500 5 ASP A 102 -2.58 69.53 REMARK 500 5 SER A 103 -156.97 -88.22 REMARK 500 6 GLU A 11 156.65 -46.01 REMARK 500 6 LYS A 50 156.71 161.60 REMARK 500 6 GLU A 75 164.93 -45.75 REMARK 500 6 LYS A 106 27.78 49.10 REMARK 500 6 LYS A 124 6.72 -66.44 REMARK 500 7 SER A 2 -168.40 -78.97 REMARK 500 7 SER A 79 -177.60 -175.64 REMARK 500 7 ASP A 102 39.44 -96.40 REMARK 500 7 LYS A 124 -5.92 -57.18 REMARK 500 7 LYS A 127 76.02 41.01 REMARK 500 8 TYR A 77 -82.63 -91.43 REMARK 500 8 ASN A 100 72.37 -69.21 REMARK 500 8 LYS A 127 47.07 -83.05 REMARK 500 9 ASP A 8 13.76 -146.16 REMARK 500 9 LYS A 50 162.68 170.16 REMARK 500 9 ILE A 52 -32.08 -135.75 REMARK 500 9 SER A 79 -102.09 -130.05 REMARK 500 9 GLU A 101 -52.41 -127.11 REMARK 500 9 ALA A 105 -73.88 -58.47 REMARK 500 10 THR A 3 86.59 -155.12 REMARK 500 10 ASP A 13 -169.95 -76.25 REMARK 500 10 LYS A 40 -56.26 -121.05 REMARK 500 10 ILE A 52 -30.44 -132.56 REMARK 500 10 ASN A 81 94.63 -166.91 REMARK 500 REMARK 500 THIS ENTRY HAS 106 RAMACHANDRAN OUTLIERS. 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 1 ARG A 67 0.13 SIDE CHAIN REMARK 500 1 TYR A 117 0.08 SIDE CHAIN REMARK 500 2 TYR A 32 0.10 SIDE CHAIN REMARK 500 2 ARG A 67 0.19 SIDE CHAIN REMARK 500 2 TYR A 93 0.10 SIDE CHAIN REMARK 500 3 TYR A 32 0.08 SIDE CHAIN REMARK 500 3 ARG A 67 0.09 SIDE CHAIN REMARK 500 4 TYR A 32 0.07 SIDE CHAIN REMARK 500 4 ARG A 67 0.13 SIDE CHAIN REMARK 500 5 ARG A 119 0.09 SIDE CHAIN REMARK 500 6 TYR A 32 0.10 SIDE CHAIN REMARK 500 6 TYR A 37 0.07 SIDE CHAIN REMARK 500 6 ARG A 67 0.10 SIDE CHAIN REMARK 500 6 ARG A 119 0.07 SIDE CHAIN REMARK 500 7 TYR A 32 0.11 SIDE CHAIN REMARK 500 7 TYR A 117 0.07 SIDE CHAIN REMARK 500 7 ARG A 119 0.10 SIDE CHAIN REMARK 500 8 TYR A 32 0.09 SIDE CHAIN REMARK 500 8 TYR A 93 0.08 SIDE CHAIN REMARK 500 8 ARG A 119 0.09 SIDE CHAIN REMARK 500 9 TYR A 32 0.08 SIDE CHAIN REMARK 500 11 TYR A 32 0.08 SIDE CHAIN REMARK 500 11 ARG A 92 0.08 SIDE CHAIN REMARK 500 12 TYR A 37 0.07 SIDE CHAIN REMARK 500 12 ARG A 67 0.14 SIDE CHAIN REMARK 500 12 ARG A 92 0.09 SIDE CHAIN REMARK 500 12 ARG A 115 0.16 SIDE CHAIN REMARK 500 12 TYR A 117 0.08 SIDE CHAIN REMARK 500 13 TYR A 32 0.07 SIDE CHAIN REMARK 500 13 ARG A 92 0.10 SIDE CHAIN REMARK 500 13 TYR A 117 0.09 SIDE CHAIN REMARK 500 13 ARG A 119 0.08 SIDE CHAIN REMARK 500 14 TYR A 32 0.11 SIDE CHAIN REMARK 500 14 TYR A 37 0.08 SIDE CHAIN REMARK 500 14 ARG A 115 0.10 SIDE CHAIN REMARK 500 15 ARG A 67 0.10 SIDE CHAIN REMARK 500 15 TYR A 117 0.08 SIDE CHAIN REMARK 500 16 TYR A 32 0.09 SIDE CHAIN REMARK 500 16 ARG A 67 0.11 SIDE CHAIN REMARK 500 16 ARG A 115 0.09 SIDE CHAIN REMARK 500 17 TYR A 32 0.12 SIDE CHAIN REMARK 500 17 ARG A 67 0.08 SIDE CHAIN REMARK 500 17 ARG A 115 0.08 SIDE CHAIN REMARK 500 18 TYR A 37 0.08 SIDE CHAIN REMARK 500 18 ARG A 86 0.08 SIDE CHAIN REMARK 500 19 ARG A 67 0.20 SIDE CHAIN REMARK 500 19 ARG A 92 0.11 SIDE CHAIN REMARK 500 20 TYR A 37 0.07 SIDE CHAIN REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 17534 RELATED DB: BMRB DBREF 2LVL A 3 128 UNP Q45403 Q45403_BACIU 40 165 SEQADV 2LVL GLY A 1 UNP Q45403 EXPRESSION TAG SEQADV 2LVL SER A 2 UNP Q45403 EXPRESSION TAG SEQRES 1 A 128 GLY SER THR MET HIS PHE THR ASP ASP ASN GLU ASN ASP SEQRES 2 A 128 THR SER GLU THR MET GLU SER LEU ILE ASP LYS GLY LYS SEQRES 3 A 128 LEU ASP GLN VAL VAL TYR ASP ASP GLN LEU TYR HIS LEU SEQRES 4 A 128 LYS GLU LYS VAL ASP GLU ASP LYS LYS GLY LYS VAL ILE SEQRES 5 A 128 GLY ALA ILE GLY GLN THR PHE PHE VAL ASP GLY ASP GLY SEQRES 6 A 128 LYS ARG TRP SER GLU GLU GLU LEU LYS GLU PRO TYR ILE SEQRES 7 A 128 SER ASN ASN PRO ASP GLU ILE ARG GLU LYS LYS PRO LEU SEQRES 8 A 128 ARG TYR GLY LYS VAL TYR SER THR ASN GLU ASP SER ASP SEQRES 9 A 128 ALA LYS ASP GLU ILE ILE VAL GLU PHE ASN ARG GLU TYR SEQRES 10 A 128 TYR ARG ALA VAL LEU ILE LYS ASN GLU LYS GLU HELIX 1 1 MET A 18 LYS A 24 1 7 HELIX 2 2 GLU A 70 LEU A 73 1 4 SHEET 1 1 1 GLN A 29 TYR A 32 0 SHEET 1 2 1 GLN A 35 VAL A 43 0 SHEET 1 3 1 LYS A 50 ALA A 54 0 SHEET 1 4 1 THR A 58 VAL A 61 0 SHEET 1 5 1 LYS A 89 TYR A 93 0 SHEET 1 6 1 LYS A 95 SER A 98 0 SHEET 1 7 1 GLU A 108 PHE A 113 0 SHEET 1 8 1 GLU A 116 LEU A 122 0 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