PDB Short entry for 1N4N HEADER PLANT PROTEIN 01-NOV-02 1N4N TITLE STRUCTURE OF THE PLANT DEFENSIN PHD1 FROM PETUNIA HYBRIDA COMPND MOL_ID: 1; COMPND 2 MOLECULE: FLORAL DEFENSIN-LIKE PROTEIN 1; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: RESIDUES 1-47; COMPND 5 SYNONYM: PHD1 SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: PETUNIA X HYBRIDA; SOURCE 3 ORGANISM_TAXID: 4102 KEYWDS CYSTEINE-STABILISED ALPHA-BETA MOTIF, FIFTH DISULFIDE BOND, PLANT KEYWDS 2 PROTEIN EXPDTA SOLUTION NMR NUMMDL 20 AUTHOR B.J.C.JANSSEN,H.J.SCHIRRA,F.T.LAY,M.A.ANDERSON,D.J.CRAIK REVDAT 3 23-FEB-22 1N4N 1 REMARK REVDAT 2 24-FEB-09 1N4N 1 VERSN REVDAT 1 01-NOV-03 1N4N 0 JRNL AUTH B.J.C.JANSSEN,H.J.SCHIRRA,F.T.LAY,M.A.ANDERSON,D.J.CRAIK JRNL TITL STRUCTURE OF PETUNIA HYBRIDA DEFENSIN 1, A NOVEL PLANT JRNL TITL 2 DEFENSIN WITH FIVE DISULFIDE BONDS JRNL REF BIOCHEMISTRY V. 42 8214 2003 JRNL REFN ISSN 0006-2960 JRNL PMID 12846570 JRNL DOI 10.1021/BI034379O REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : XWINNMR 2.6, CNS 1.1 REMARK 3 AUTHORS : BRUKER (XWINNMR), BRUNGER (CNS) REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: REMARK 3 THE STRUCTURES ARE BASED ON 407 NOE-DERIVED INTER-RESIDUAL REMARK 3 DISTANCE CONSTRAINTS, REMARK 3 26 PHI- AND 28 CHI1- ANGLE CONSTRAINTS, AND 30 DISTANCE REMARK 3 CONSTRAINTS FOR 15 HYDROGEN BONDS. REMARK 4 REMARK 4 1N4N COMPLIES WITH FORMAT V. 3.15, 01-DEC-08 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 05-NOV-02. REMARK 100 THE DEPOSITION ID IS D_1000017513. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 310; 280 REMARK 210 PH : 3.1; 3.1 REMARK 210 IONIC STRENGTH : 0.94MM; 0.94MM REMARK 210 PRESSURE : AMBIENT; AMBIENT REMARK 210 SAMPLE CONTENTS : 0.94MM 1H-PHD1; 0.94MM 1H-PHD1 REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 2D NOESY; DQF-COSY; E-COSY REMARK 210 SPECTROMETER FIELD STRENGTH : 750 MHZ REMARK 210 SPECTROMETER MODEL : DMX REMARK 210 SPECTROMETER MANUFACTURER : BRUKER REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : XWINNMR 2.6, CCNMR REMARK 210 GLXCCEXPLORER, X-PLOR 3.851, CNS REMARK 210 1.1 REMARK 210 METHOD USED : TORSION ANGLE SIMULATED REMARK 210 ANNEALING PROTOCOL, INCORPORATED REMARK 210 IN CNS. REFINEMENT IN A BOX WITH REMARK 210 EXPLICIT WATER MOLECULES USING REMARK 210 THE METHOD OF LINGE & NILGES REMARK 210 (1999) REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 50 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 20 REMARK 210 CONFORMERS, SELECTION CRITERIA : STRUCTURES WITH THE LEAST REMARK 210 RESTRAINT VIOLATIONS,STRUCTURES REMARK 210 WITH THE LOWEST ENERGY REMARK 210 REMARK 210 BEST REPRESENTATIVE CONFORMER IN THIS ENSEMBLE : 19 REMARK 210 REMARK 210 REMARK: THIS STRUCTURE WAS DETERMINED USING STANDARD 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 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 HZ1 LYS A 4 OE1 GLU A 6 1.59 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 THR A 9 44.50 -89.52 REMARK 500 1 ASP A 11 51.44 -150.36 REMARK 500 1 LYS A 28 49.46 72.52 REMARK 500 1 ILE A 37 -100.64 -69.45 REMARK 500 2 ASP A 11 62.97 -150.75 REMARK 500 2 ILE A 15 -61.09 -130.76 REMARK 500 2 ILE A 37 -82.59 -64.69 REMARK 500 3 THR A 9 47.26 -98.31 REMARK 500 3 ASP A 11 -20.78 -147.63 REMARK 500 3 LYS A 45 -156.23 -161.52 REMARK 500 4 THR A 9 44.10 -97.36 REMARK 500 4 ASP A 11 67.76 -151.11 REMARK 500 4 LYS A 28 61.96 64.29 REMARK 500 4 ILE A 37 -72.19 -67.62 REMARK 500 4 ARG A 40 -145.54 -83.79 REMARK 500 5 THR A 9 48.56 -91.97 REMARK 500 5 SER A 12 -169.21 -100.60 REMARK 500 5 ILE A 37 -105.88 -67.72 REMARK 500 6 THR A 9 49.74 -92.09 REMARK 500 6 ASP A 11 -29.84 -150.11 REMARK 500 6 LYS A 28 70.84 66.55 REMARK 500 6 SER A 35 -159.54 -74.18 REMARK 500 7 THR A 9 46.02 -90.63 REMARK 500 7 ASP A 11 53.07 -150.34 REMARK 500 7 LYS A 28 45.71 72.39 REMARK 500 7 SER A 35 -165.12 -77.97 REMARK 500 7 ILE A 37 -100.74 -77.99 REMARK 500 8 THR A 9 43.71 -90.99 REMARK 500 8 ASP A 11 59.85 -151.20 REMARK 500 8 LYS A 28 43.67 71.07 REMARK 500 8 SER A 35 -157.27 -99.19 REMARK 500 8 LYS A 36 -39.47 -150.32 REMARK 500 8 ILE A 37 -76.93 -55.34 REMARK 500 8 ARG A 40 -91.22 -87.46 REMARK 500 8 CYS A 41 106.76 -176.23 REMARK 500 9 THR A 9 43.56 -90.86 REMARK 500 9 TRP A 10 85.91 -150.32 REMARK 500 9 LYS A 28 35.98 71.55 REMARK 500 9 SER A 35 -156.08 -87.80 REMARK 500 9 LYS A 36 -34.28 -133.58 REMARK 500 9 ILE A 37 -98.96 -61.28 REMARK 500 10 THR A 9 44.48 -86.80 REMARK 500 10 ASP A 11 66.66 -151.22 REMARK 500 10 SER A 35 -159.00 -92.84 REMARK 500 10 ILE A 37 -102.30 -67.43 REMARK 500 11 THR A 9 50.64 -92.83 REMARK 500 11 ASP A 11 -29.51 -150.54 REMARK 500 11 LYS A 28 68.17 65.22 REMARK 500 11 ILE A 37 -101.76 -69.96 REMARK 500 12 THR A 9 45.36 -97.78 REMARK 500 REMARK 500 THIS ENTRY HAS 83 RAMACHANDRAN OUTLIERS. REMARK 500 REMARK 500 REMARK: NULL DBREF 1N4N A 1 47 UNP Q8H6Q1 DEF1_PETHY 26 72 SEQRES 1 A 47 ALA THR CYS LYS ALA GLU CYS PRO THR TRP ASP SER VAL SEQRES 2 A 47 CYS ILE ASN LYS LYS PRO CYS VAL ALA CYS CYS LYS LYS SEQRES 3 A 47 ALA LYS PHE SER ASP GLY HIS CYS SER LYS ILE LEU ARG SEQRES 4 A 47 ARG CYS LEU CYS THR LYS GLU CYS HELIX 1 1 ASN A 16 ALA A 27 1 12 SHEET 1 A 3 CYS A 3 GLU A 6 0 SHEET 2 A 3 CYS A 41 LYS A 45 -1 O LYS A 45 N CYS A 3 SHEET 3 A 3 ASP A 31 CYS A 34 -1 N HIS A 33 O LEU A 42 SSBOND 1 CYS A 3 CYS A 47 1555 1555 2.03 SSBOND 2 CYS A 7 CYS A 23 1555 1555 2.02 SSBOND 3 CYS A 14 CYS A 34 1555 1555 2.03 SSBOND 4 CYS A 20 CYS A 41 1555 1555 2.02 SSBOND 5 CYS A 24 CYS A 43 1555 1555 2.03 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