HEADER HYDROLASE 30-JUL-02 1IYA OBSLTE 18-FEB-03 1IYA 1J3G TITLE SOLUTION STRUCTURE OF CITROBACTER FREUNDII AMPD COMPND MOL_ID: 1; COMPND 2 MOLECULE: AMPD PROTEIN; COMPND 3 CHAIN: A; COMPND 4 EC: 3.5.1.28; COMPND 5 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: CITROBACTER FREUNDII; SOURCE 3 ORGANISM_COMMON: BACTERIA; SOURCE 4 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 5 EXPRESSION_SYSTEM_COMMON: BACTERIA; SOURCE 6 EXPRESSION_SYSTEM_STRAIN: BL21 DE3; SOURCE 7 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 8 EXPRESSION_SYSTEM_PLASMID: PET-9A KEYWDS MIXED ALPHA-BETA EXPDTA NMR, 20 STRUCTURES AUTHOR E.LIEPINSH,C.GENEREUX,D.DEHARENG,B.JORIS,G.OTTING REVDAT 2 18-FEB-03 1IYA 1 OBSLTE REVDAT 1 11-SEP-02 1IYA 0 JRNL AUTH E.LIEPINSH,C.GENEREUX,D.DEHARENG,B.JORIS,G.OTTING JRNL TITL NMR STRUCTURE OF AMPD: STRUCTURAL CONSERVATION OF JRNL TITL 2 PEPTIDOGLYCAN RECOGNITION PROTEINS JRNL REF TO BE PUBLISHED JRNL REFN REMARK 1 REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : OPAL 2.6 REMARK 3 AUTHORS : LUGINBUEHL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 1IYA COMPLIES WITH FORMAT V. 2.3, 09-JULY-1998 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 31-JUL-2002. REMARK 100 THE RCSB ID CODE IS RCSB005400. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 305 REMARK 210 PH : 5.5 REMARK 210 IONIC STRENGTH : NULL REMARK 210 PRESSURE : AMBIENT REMARK 210 SAMPLE CONTENTS : 0.3MM AMPD U-15N,13C; 0.3MM REMARK 210 AMPD U-15N; 0.3MM AMPD REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 2D-NOESY, 3D_15N-SEPARATED_ REMARK 210 NOESY, HNHB, DQF-COSY, CT-HMQC REMARK 210 -HN REMARK 210 SPECTROMETER FIELD STRENGTH : 600 MHZ, 800 MHZ REMARK 210 SPECTROMETER MODEL : DMX, INOVA REMARK 210 SPECTROMETER MANUFACTURER : BRUKER, VARIAN REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : PROSA 3.6, XEASY 970326, REMARK 210 DYANA 1.5 REMARK 210 METHOD USED : TORSION ANGLE DYNAMICS REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 20 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 20 REMARK 210 CONFORMERS, SELECTION CRITERIA : ALL CALCULATED STRUCTURES REMARK 210 SUBMITTED REMARK 210 REMARK 210 BEST REPRESENTATIVE CONFORMER IN THIS ENSEMBLE : 1 REMARK 210 REMARK 210 REMARK: THE STRUCTURE WAS DETERMINED BY TRIPLE-RESONANCE AND 2D REMARK 210 HOMONUCLEAR TECHNIQUES. 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 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: ENGH AND HUBER, 1991 REMARK 500 REMARK 500 M RES CSSEQI ATM1 ATM2 ATM3 REMARK 500 2 ASP A 164 C - N - CA ANGL. DEV. = 18.4 DEGREES REMARK 500 3 ASP A 164 C - N - CA ANGL. DEV. = 18.3 DEGREES REMARK 500 4 ASP A 164 C - N - CA ANGL. DEV. = 22.0 DEGREES REMARK 500 5 ASP A 164 C - N - CA ANGL. DEV. = 19.5 DEGREES REMARK 500 11 ASP A 164 C - N - CA ANGL. DEV. = 17.2 DEGREES REMARK 500 15 ASP A 164 C - N - CA ANGL. DEV. = 19.0 DEGREES REMARK 500 16 ASP A 164 C - N - CA ANGL. DEV. = 19.7 DEGREES REMARK 500 19 ASP A 164 C - N - CA ANGL. DEV. = 19.4 DEGREES 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 M RES CSSEQI PSI PHI REMARK 500 1 THR A 126 130.67 47.50 REMARK 500 2 VAL A 88 134.65 74.53 REMARK 500 2 THR A 126 139.77 60.99 REMARK 500 3 VAL A 88 130.72 71.83 REMARK 500 3 THR A 126 167.31 56.88 REMARK 500 4 THR A 126 150.02 61.27 REMARK 500 5 VAL A 88 126.23 74.51 REMARK 500 5 THR A 126 156.29 59.91 REMARK 500 6 VAL A 88 144.18 64.42 REMARK 500 6 THR A 126 149.73 51.71 REMARK 500 7 VAL A 88 120.58 71.61 REMARK 500 7 ASN A 109 -113.00 -157.94 REMARK 500 7 THR A 126 139.12 51.21 REMARK 500 8 VAL A 88 130.69 71.27 REMARK 500 8 THR A 126 130.43 38.52 REMARK 500 9 VAL A 88 132.29 76.89 REMARK 500 9 THR A 126 140.95 51.64 REMARK 500 9 HIS A 183 92.52 111.66 REMARK 500 10 GLU A 10 -30.33 70.31 REMARK 500 10 VAL A 88 130.97 76.30 REMARK 500 10 THR A 126 152.31 60.26 REMARK 500 11 VAL A 88 131.68 83.92 REMARK 500 11 LYS A 92 175.23 87.07 REMARK 500 11 THR A 126 129.04 28.55 REMARK 500 12 VAL A 88 125.65 75.62 REMARK 500 12 THR A 126 125.09 61.27 REMARK 500 12 ASP A 164 -108.22 -153.90 REMARK 500 13 THR A 126 128.43 51.76 REMARK 500 14 VAL A 88 136.50 75.62 REMARK 500 14 LYS A 92 -174.14 103.32 REMARK 500 14 THR A 126 127.00 28.79 REMARK 500 14 MET A 186 -92.84 63.50 REMARK 500 15 VAL A 88 124.67 75.50 REMARK 500 15 THR A 126 161.81 60.71 REMARK 500 16 GLU A 10 -33.76 72.53 REMARK 500 16 THR A 126 146.02 61.24 REMARK 500 17 VAL A 88 145.58 68.68 REMARK 500 17 LYS A 92 -176.82 105.78 REMARK 500 17 THR A 126 127.54 51.55 REMARK 500 18 VAL A 88 130.10 80.59 REMARK 500 18 THR A 126 132.99 51.31 REMARK 500 18 SER A 182 -119.44 -154.90 REMARK 500 18 LYS A 184 137.84 56.48 REMARK 500 19 VAL A 88 124.93 70.88 REMARK 500 19 THR A 126 123.48 39.45 REMARK 500 20 VAL A 88 143.17 63.65 REMARK 500 20 LYS A 92 165.71 78.17 REMARK 500 20 ASN A 109 -114.08 -158.35 REMARK 500 20 THR A 126 137.29 51.80 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 MET A 1 LEU A 2 18 149.00 DBREF 1IYA A 1 187 UNP P82974 AMPD_CITFR 1 187 SEQRES 1 A 187 MET LEU LEU ASP GLU GLY TRP LEU ALA GLU ALA ARG ARG SEQRES 2 A 187 VAL PRO SER PRO HIS TYR ASP CYS ARG PRO ASP ASP GLU SEQRES 3 A 187 ASN PRO SER LEU LEU VAL VAL HIS ASN ILE SER LEU PRO SEQRES 4 A 187 PRO GLY GLU PHE GLY GLY PRO TRP ILE ASP ALA LEU PHE SEQRES 5 A 187 THR GLY THR ILE ASP PRO ASN ALA HIS PRO TYR PHE ALA SEQRES 6 A 187 GLY ILE ALA HIS LEU ARG VAL SER ALA HIS CYS LEU ILE SEQRES 7 A 187 ARG ARG ASP GLY GLU ILE VAL GLN TYR VAL PRO PHE ASP SEQRES 8 A 187 LYS ARG ALA TRP HIS ALA GLY VAL SER SER TYR GLN GLY SEQRES 9 A 187 ARG GLU ARG CYS ASN ASP PHE SER ILE GLY ILE GLU LEU SEQRES 10 A 187 GLU GLY THR ASP THR LEU ALA TYR THR ASP ALA GLN TYR SEQRES 11 A 187 GLN GLN LEU ALA ALA VAL THR ASN ALA LEU ILE THR ARG SEQRES 12 A 187 TYR PRO ALA ILE ALA ASN ASN MET THR GLY HIS CYS ASN SEQRES 13 A 187 ILE ALA PRO GLU ARG LYS THR ASP PRO GLY PRO SER PHE SEQRES 14 A 187 ASP TRP ALA ARG PHE ARG ALA LEU VAL THR PRO SER SER SEQRES 15 A 187 HIS LYS GLU MET THR HET ZN A 210 1 HETNAM ZN ZINC ION FORMUL 2 ZN ZN 2+ HELIX 1 1 GLY A 45 GLY A 54 1 10 HELIX 2 2 HIS A 61 LEU A 70 1 10 HELIX 3 3 TYR A 125 TYR A 144 1 20 HELIX 4 4 ALA A 146 ASN A 149 5 4 HELIX 5 5 ASP A 170 VAL A 178 1 9 SHEET 1 A 2 LEU A 3 ASP A 4 0 SHEET 2 A 2 TRP A 7 LEU A 8 -1 O TRP A 7 N ASP A 4 SHEET 1 B 6 ARG A 12 VAL A 14 0 SHEET 2 B 6 GLU A 83 TYR A 87 1 O GLN A 86 N VAL A 14 SHEET 3 B 6 CYS A 76 ARG A 79 -1 N LEU A 77 O VAL A 85 SHEET 4 B 6 ILE A 115 LEU A 117 1 O GLU A 116 N ILE A 78 SHEET 5 B 6 LEU A 31 VAL A 32 1 N VAL A 32 O ILE A 115 SHEET 6 B 6 MET A 151 THR A 152 1 O THR A 152 N LEU A 31 SHEET 1 C 2 SER A 100 TYR A 102 0 SHEET 2 C 2 ARG A 105 ARG A 107 -1 O ARG A 105 N TYR A 102 LINK ZN ZN A 210 OD2 ASP A 164 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