HEADER ANTIBIOTIC 06-NOV-02 1N5H TITLE SOLUTION STRUCTURE OF THE CATHELIN-LIKE DOMAIN OF PROTEGRINS (THE R87- TITLE 2 P88 AND D118-P119 AMIDE BONDS ARE IN THE CIS CONFORMATION) COMPND MOL_ID: 1; COMPND 2 MOLECULE: PROTEGRINS; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: CATHELIN-LIKE DOMAIN; COMPND 5 SYNONYM: PROTEGRIN 1, PROTEGRIN 2, PROTEGRIN 3, PROTEGRIN 4, COMPND 6 PROTEGRIN 5; COMPND 7 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: SUS SCROFA; SOURCE 3 ORGANISM_COMMON: PIG; SOURCE 4 ORGANISM_TAXID: 9823; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 7 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 8 EXPRESSION_SYSTEM_PLASMID: PET-15B KEYWDS CATHELIN-LIKE DOMAIN, CATHELICIDIN, PROLINE ISOMERIZATION, CYSTATIN KEYWDS 2 FOLD, ANTIBIOTIC EXPDTA SOLUTION NMR NUMMDL 15 AUTHOR Y.YANG,J.F.SANCHEZ,M.P.STRUB,B.BRUTSCHER,A.AUMELAS REVDAT 4 16-OCT-24 1N5H 1 REMARK REVDAT 3 23-FEB-22 1N5H 1 REMARK SEQADV REVDAT 2 24-FEB-09 1N5H 1 VERSN REVDAT 1 03-JUN-03 1N5H 0 JRNL AUTH Y.YANG,J.F.SANCHEZ,M.P.STRUB,B.BRUTSCHER,A.AUMELAS JRNL TITL NMR STRUCTURE OF THE CATHELIN-LIKE DOMAIN OF THE PROTEGRIN-3 JRNL TITL 2 PRECURSOR JRNL REF BIOCHEMISTRY V. 42 4669 2003 JRNL REFN ISSN 0006-2960 JRNL PMID 12705830 JRNL DOI 10.1021/BI027133C REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : GIFA 4.4, X-PLOR 3.8 REMARK 3 AUTHORS : DELSUC, M.A. (GIFA), RICE, L.M., BRUNGER, A.T. (X REMARK 3 -PLOR) REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 1N5H COMPLIES WITH FORMAT V. 3.15, 01-DEC-08 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 08-NOV-02. REMARK 100 THE DEPOSITION ID IS D_1000017542. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 300 REMARK 210 PH : 6.2 REMARK 210 IONIC STRENGTH : 100MM REMARK 210 PRESSURE : AMBIENT REMARK 210 SAMPLE CONTENTS : 1.5-2MM; U-15N, 13C; 50MM REMARK 210 PHOSPHATE BUFFER; PH 6.2; 1.5- REMARK 210 2MM; U-15N, 13C; 50MM PHOSPHATE REMARK 210 BUFFER; PH 6.2 REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : HNCA, HNCO, CBCA(CO)NH, 3D_15N REMARK 210 -SEPARATED_NOESY; HC(C)H-TOCSY, REMARK 210 3D_13C-SEPARATED_NOESY REMARK 210 SPECTROMETER FIELD STRENGTH : 600 MHZ; 800 MHZ REMARK 210 SPECTROMETER MODEL : AMX; INOVA REMARK 210 SPECTROMETER MANUFACTURER : BRUKER; VARIAN REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : XWINNMR 2.0 REMARK 210 METHOD USED : DISTANCE GEOMETRY AND SIMULATED REMARK 210 ANNEALING REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 60 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 15 REMARK 210 CONFORMERS, SELECTION CRITERIA : STRUCTURES WITH THE LEAST REMARK 210 RESTRAINT VIOLATIONS 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 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: 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 HIS A 28 79.25 -110.37 REMARK 500 1 GLN A 30 72.49 52.20 REMARK 500 1 LYS A 65 70.83 57.31 REMARK 500 1 GLN A 115 64.52 -102.94 REMARK 500 2 SER A 27 58.57 -119.21 REMARK 500 2 HIS A 28 -65.33 -163.06 REMARK 500 2 LEU A 32 171.04 61.75 REMARK 500 2 TYR A 34 -58.40 68.04 REMARK 500 2 ASP A 97 -169.81 -76.68 REMARK 500 2 ASP A 121 81.49 -69.33 REMARK 500 2 GLU A 126 80.29 14.58 REMARK 500 2 GLN A 128 71.36 -104.13 REMARK 500 3 GLN A 30 176.74 62.92 REMARK 500 3 TYR A 34 -57.13 67.97 REMARK 500 3 GLU A 68 67.04 -159.34 REMARK 500 3 ASP A 69 96.91 -179.27 REMARK 500 3 PRO A 70 -81.00 -74.13 REMARK 500 4 LEU A 32 132.91 67.14 REMARK 500 4 ALA A 52 48.17 -100.53 REMARK 500 4 LYS A 65 82.18 53.42 REMARK 500 4 ASP A 67 45.25 -97.38 REMARK 500 4 GLU A 68 -165.27 179.71 REMARK 500 4 ASP A 69 75.47 56.04 REMARK 500 4 PRO A 86 -163.45 -77.39 REMARK 500 4 ASP A 114 -64.57 -99.07 REMARK 500 4 GLN A 128 141.42 67.87 REMARK 500 5 SER A 50 -86.78 -121.61 REMARK 500 5 GLU A 51 -179.82 58.01 REMARK 500 5 GLU A 68 27.47 -151.30 REMARK 500 5 PRO A 70 -80.88 -74.60 REMARK 500 5 ILE A 116 97.96 -66.75 REMARK 500 5 ASP A 121 83.20 -66.87 REMARK 500 5 GLN A 128 -176.40 60.27 REMARK 500 6 MET A 29 -178.89 61.19 REMARK 500 6 GLU A 68 26.97 -145.10 REMARK 500 6 PRO A 70 -74.24 -71.31 REMARK 500 6 GLN A 115 116.60 -165.03 REMARK 500 6 GLU A 126 76.16 42.33 REMARK 500 7 GLN A 30 167.23 65.11 REMARK 500 7 LEU A 32 81.90 -151.92 REMARK 500 7 LYS A 65 70.47 52.04 REMARK 500 7 ASP A 69 87.07 57.70 REMARK 500 7 PRO A 75 90.22 -69.19 REMARK 500 7 VAL A 84 46.11 -85.67 REMARK 500 7 ASP A 97 -164.06 -102.10 REMARK 500 7 ILE A 116 99.00 -65.51 REMARK 500 7 ASN A 125 48.50 -143.67 REMARK 500 7 GLU A 126 92.87 32.06 REMARK 500 8 LEU A 32 142.27 66.39 REMARK 500 8 ASP A 67 44.55 -142.61 REMARK 500 REMARK 500 THIS ENTRY HAS 105 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 35 0.29 SIDE CHAIN REMARK 500 1 ARG A 40 0.27 SIDE CHAIN REMARK 500 1 ARG A 44 0.31 SIDE CHAIN REMARK 500 1 ARG A 56 0.32 SIDE CHAIN REMARK 500 1 ARG A 87 0.25 SIDE CHAIN REMARK 500 1 ARG A 90 0.32 SIDE CHAIN REMARK 500 1 ARG A 103 0.31 SIDE CHAIN REMARK 500 2 ARG A 35 0.31 SIDE CHAIN REMARK 500 2 ARG A 40 0.32 SIDE CHAIN REMARK 500 2 ARG A 44 0.31 SIDE CHAIN REMARK 500 2 ARG A 56 0.26 SIDE CHAIN REMARK 500 2 ARG A 87 0.32 SIDE CHAIN REMARK 500 2 ARG A 90 0.32 SIDE CHAIN REMARK 500 2 ARG A 103 0.32 SIDE CHAIN REMARK 500 3 ARG A 35 0.31 SIDE CHAIN REMARK 500 3 ARG A 40 0.32 SIDE CHAIN REMARK 500 3 ARG A 44 0.31 SIDE CHAIN REMARK 500 3 ARG A 56 0.31 SIDE CHAIN REMARK 500 3 ARG A 87 0.32 SIDE CHAIN REMARK 500 3 ARG A 90 0.32 SIDE CHAIN REMARK 500 3 ARG A 103 0.32 SIDE CHAIN REMARK 500 4 ARG A 35 0.31 SIDE CHAIN REMARK 500 4 ARG A 40 0.28 SIDE CHAIN REMARK 500 4 ARG A 44 0.32 SIDE CHAIN REMARK 500 4 ARG A 56 0.27 SIDE CHAIN REMARK 500 4 ARG A 87 0.25 SIDE CHAIN REMARK 500 4 ARG A 90 0.32 SIDE CHAIN REMARK 500 4 ARG A 103 0.31 SIDE CHAIN REMARK 500 5 ARG A 35 0.32 SIDE CHAIN REMARK 500 5 ARG A 40 0.29 SIDE CHAIN REMARK 500 5 ARG A 44 0.29 SIDE CHAIN REMARK 500 5 ARG A 56 0.26 SIDE CHAIN REMARK 500 5 ARG A 87 0.18 SIDE CHAIN REMARK 500 5 ARG A 90 0.28 SIDE CHAIN REMARK 500 5 ARG A 103 0.31 SIDE CHAIN REMARK 500 6 ARG A 35 0.32 SIDE CHAIN REMARK 500 6 ARG A 40 0.31 SIDE CHAIN REMARK 500 6 ARG A 44 0.24 SIDE CHAIN REMARK 500 6 ARG A 56 0.31 SIDE CHAIN REMARK 500 6 ARG A 87 0.11 SIDE CHAIN REMARK 500 6 ARG A 90 0.32 SIDE CHAIN REMARK 500 6 ARG A 103 0.31 SIDE CHAIN REMARK 500 7 ARG A 35 0.32 SIDE CHAIN REMARK 500 7 ARG A 40 0.28 SIDE CHAIN REMARK 500 7 ARG A 44 0.30 SIDE CHAIN REMARK 500 7 ARG A 56 0.21 SIDE CHAIN REMARK 500 7 ARG A 87 0.30 SIDE CHAIN REMARK 500 7 ARG A 90 0.30 SIDE CHAIN REMARK 500 7 ARG A 103 0.29 SIDE CHAIN REMARK 500 8 ARG A 35 0.30 SIDE CHAIN REMARK 500 REMARK 500 THIS ENTRY HAS 104 PLANE DEVIATIONS. REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1N5P RELATED DB: PDB REMARK 900 STRUCTURE WITH ALL AMIDE BONDS INVOLVING PROLINE RESIDUES IN TRANS REMARK 900 CONFORMATION DBREF 1N5H A 30 130 UNP P49933 PG4_PIG 30 130 SEQADV 1N5H GLY A 26 UNP P49933 CLONING ARTIFACT SEQADV 1N5H SER A 27 UNP P49933 CLONING ARTIFACT SEQADV 1N5H HIS A 28 UNP P49933 CLONING ARTIFACT SEQADV 1N5H MET A 29 UNP P49933 CLONING ARTIFACT SEQRES 1 A 105 GLY SER HIS MET GLN ALA LEU SER TYR ARG GLU ALA VAL SEQRES 2 A 105 LEU ARG ALA VAL ASP ARG LEU ASN GLU GLN SER SER GLU SEQRES 3 A 105 ALA ASN LEU TYR ARG LEU LEU GLU LEU ASP GLN PRO PRO SEQRES 4 A 105 LYS ALA ASP GLU ASP PRO GLY THR PRO LYS PRO VAL SER SEQRES 5 A 105 PHE THR VAL LYS GLU THR VAL CYS PRO ARG PRO THR ARG SEQRES 6 A 105 GLN PRO PRO GLU LEU CYS ASP PHE LYS GLU ASN GLY ARG SEQRES 7 A 105 VAL LYS GLN CYS VAL GLY THR VAL THR LEU ASP GLN ILE SEQRES 8 A 105 LYS ASP PRO LEU ASP ILE THR CYS ASN GLU VAL GLN GLY SEQRES 9 A 105 VAL HELIX 1 1 SER A 33 SER A 49 1 17 SHEET 1 A 4 ASN A 53 LEU A 60 0 SHEET 2 A 4 LYS A 74 PRO A 86 -1 O THR A 79 N GLU A 59 SHEET 3 A 4 VAL A 104 VAL A 111 -1 O GLY A 109 N VAL A 76 SHEET 4 A 4 ILE A 122 VAL A 127 -1 O THR A 123 N VAL A 108 SSBOND 1 CYS A 85 CYS A 96 1555 1555 2.02 SSBOND 2 CYS A 107 CYS A 124 1555 1555 2.02 CISPEP 1 ARG A 87 PRO A 88 1 -1.15 CISPEP 2 ASP A 118 PRO A 119 1 -0.07 CISPEP 3 ARG A 87 PRO A 88 2 -1.22 CISPEP 4 ASP A 118 PRO A 119 2 0.02 CISPEP 5 ARG A 87 PRO A 88 3 -0.49 CISPEP 6 ASP A 118 PRO A 119 3 0.02 CISPEP 7 ARG A 87 PRO A 88 4 -0.01 CISPEP 8 ASP A 118 PRO A 119 4 0.16 CISPEP 9 ARG A 87 PRO A 88 5 -0.90 CISPEP 10 ASP A 118 PRO A 119 5 0.18 CISPEP 11 ARG A 87 PRO A 88 6 -0.56 CISPEP 12 ASP A 118 PRO A 119 6 -0.20 CISPEP 13 ARG A 87 PRO A 88 7 -0.63 CISPEP 14 ASP A 118 PRO A 119 7 -0.14 CISPEP 15 ARG A 87 PRO A 88 8 -0.84 CISPEP 16 ASP A 118 PRO A 119 8 -0.23 CISPEP 17 ARG A 87 PRO A 88 9 -1.15 CISPEP 18 ASP A 118 PRO A 119 9 0.13 CISPEP 19 ARG A 87 PRO A 88 10 -1.02 CISPEP 20 ASP A 118 PRO A 119 10 -0.35 CISPEP 21 ARG A 87 PRO A 88 11 -0.72 CISPEP 22 ASP A 118 PRO A 119 11 -0.04 CISPEP 23 ARG A 87 PRO A 88 12 -0.25 CISPEP 24 ASP A 118 PRO A 119 12 -0.07 CISPEP 25 ARG A 87 PRO A 88 13 -0.77 CISPEP 26 ASP A 118 PRO A 119 13 0.07 CISPEP 27 ARG A 87 PRO A 88 14 -0.53 CISPEP 28 ASP A 118 PRO A 119 14 -0.44 CISPEP 29 ARG A 87 PRO A 88 15 -0.72 CISPEP 30 ASP A 118 PRO A 119 15 0.20 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