HEADER PLANT PROTEIN 10-AUG-08 2K7G TITLE SOLUTION STRUCTURE OF VARV F COMPND MOL_ID: 1; COMPND 2 MOLECULE: VARV PEPTIDE F; COMPND 3 CHAIN: A SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: VIOLA ARVENSIS; SOURCE 3 ORGANISM_COMMON: EUROPEAN FIELD PANSY; SOURCE 4 ORGANISM_TAXID: 97415 KEYWDS CYCLOTIDE, CYSTINE KNOT, KNOTTIN, PLANT DEFENSE, PLANT PROTEIN EXPDTA SOLUTION NMR NUMMDL 20 AUTHOR C.K.WANG REVDAT 3 16-MAR-22 2K7G 1 REMARK LINK REVDAT 2 09-JUN-09 2K7G 1 JRNL REVDAT 1 10-FEB-09 2K7G 0 JRNL AUTH C.K.WANG,S.-H.HU,J.L.MARTIN,T.SJOGREN,J.HAJDU,L.BOHLIN, JRNL AUTH 2 P.CLAESON,U.GORANSSON,K.J.ROSENGREN,J.TANG,N.-H.TAN, JRNL AUTH 3 D.J.CRAIK JRNL TITL COMBINED X-RAY AND NMR ANALYSIS OF THE STABILITY OF THE JRNL TITL 2 CYCLOTIDE CYSTINE KNOT FOLD THAT UNDERPINS ITS INSECTICIDAL JRNL TITL 3 ACTIVITY AND POTENTIAL USE AS A DRUG SCAFFOLD JRNL REF J.BIOL.CHEM. V. 284 10672 2009 JRNL REFN ISSN 0021-9258 JRNL PMID 19211551 JRNL DOI 10.1074/JBC.M900021200 REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : CNS REMARK 3 AUTHORS : BRUNGER A. T. ET.AL. REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: REFINEMENT IN A WATER BOX REMARK 4 REMARK 4 2K7G COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 12-AUG-08. REMARK 100 THE DEPOSITION ID IS D_1000100771. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 298 REMARK 210 PH : 6.0 REMARK 210 IONIC STRENGTH : 0 REMARK 210 PRESSURE : 0 ATM REMARK 210 SAMPLE CONTENTS : 0.4MM PROTEIN, 90% H2O/10% D2O REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : NOESY REMARK 210 SPECTROMETER FIELD STRENGTH : 500 MHZ; 600 MHZ; 750 MHZ REMARK 210 SPECTROMETER MODEL : AVANCE REMARK 210 SPECTROMETER MANUFACTURER : BRUKER REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : NULL REMARK 210 METHOD USED : SIMULATED ANNEALING REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 50 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 20 REMARK 210 CONFORMERS, SELECTION CRITERIA : 20 STRUCTURES FOR LOWEST ENERGY 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: 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 TRP A 23 127.07 -34.89 REMARK 500 1 PRO A 24 35.67 -99.96 REMARK 500 2 CYS A 9 35.66 -99.74 REMARK 500 2 TRP A 23 125.97 -32.31 REMARK 500 2 PRO A 24 36.33 -99.44 REMARK 500 3 CYS A 9 34.39 -98.50 REMARK 500 3 TRP A 23 126.03 -31.68 REMARK 500 3 PRO A 24 34.23 -99.94 REMARK 500 4 TRP A 23 127.59 -37.03 REMARK 500 5 CYS A 9 56.47 -103.30 REMARK 500 5 TRP A 23 124.65 -25.46 REMARK 500 6 TRP A 23 126.97 -33.63 REMARK 500 6 PRO A 24 33.97 -99.46 REMARK 500 7 ILE A 4 32.31 -94.68 REMARK 500 7 CYS A 9 41.66 -91.78 REMARK 500 7 SER A 22 71.33 -117.93 REMARK 500 7 TRP A 23 128.95 -32.28 REMARK 500 7 PRO A 24 30.83 -99.45 REMARK 500 8 CYS A 9 49.36 -96.19 REMARK 500 8 TRP A 23 127.96 -27.88 REMARK 500 9 CYS A 9 53.65 -101.09 REMARK 500 9 TRP A 23 125.99 -26.10 REMARK 500 10 TRP A 23 127.58 -34.45 REMARK 500 10 PRO A 24 33.35 -98.69 REMARK 500 11 CYS A 9 58.95 -107.10 REMARK 500 11 TRP A 23 126.04 -26.94 REMARK 500 12 CYS A 9 40.61 -95.61 REMARK 500 12 SER A 22 68.93 -117.91 REMARK 500 12 TRP A 23 126.56 -31.75 REMARK 500 12 PRO A 24 32.24 -99.56 REMARK 500 13 CYS A 9 54.71 -106.31 REMARK 500 13 TRP A 23 124.28 -25.42 REMARK 500 13 PRO A 24 30.38 -99.25 REMARK 500 14 TRP A 23 126.63 -29.18 REMARK 500 15 THR A 13 149.64 -175.85 REMARK 500 15 TRP A 23 127.39 -35.22 REMARK 500 15 PRO A 24 37.04 -100.00 REMARK 500 16 CYS A 9 53.74 -103.61 REMARK 500 16 TRP A 23 123.73 -24.60 REMARK 500 17 CYS A 9 38.33 -98.41 REMARK 500 17 TRP A 23 126.06 -30.70 REMARK 500 17 PRO A 24 33.85 -98.60 REMARK 500 18 CYS A 9 34.49 -95.75 REMARK 500 18 TRP A 23 128.18 -31.33 REMARK 500 18 PRO A 24 32.69 -97.93 REMARK 500 19 CYS A 9 48.26 -105.58 REMARK 500 19 TRP A 23 122.93 -24.32 REMARK 500 20 ILE A 4 33.56 -88.91 REMARK 500 20 CYS A 5 -49.91 -141.48 REMARK 500 20 ALA A 17 64.32 -68.16 REMARK 500 REMARK 500 THIS ENTRY HAS 51 RAMACHANDRAN OUTLIERS. REMARK 500 REMARK 500 REMARK: NULL DBREF 2K7G A 1 29 UNP P58451 VARF_VIOAR 1 29 SEQRES 1 A 29 GLY VAL PRO ILE CYS GLY GLU THR CYS THR LEU GLY THR SEQRES 2 A 29 CYS TYR THR ALA GLY CYS SER CYS SER TRP PRO VAL CYS SEQRES 3 A 29 THR ARG ASN HELIX 1 1 THR A 10 GLY A 12 5 3 SHEET 1 A 3 VAL A 2 THR A 8 0 SHEET 2 A 3 VAL A 25 ARG A 28 -1 O CYS A 26 N GLU A 7 SHEET 3 A 3 CYS A 19 SER A 22 -1 N SER A 20 O THR A 27 SSBOND 1 CYS A 5 CYS A 19 1555 1555 2.03 SSBOND 2 CYS A 9 CYS A 21 1555 1555 2.03 SSBOND 3 CYS A 14 CYS A 26 1555 1555 2.03 LINK N GLY A 1 C ASN A 29 1555 1555 1.33 CISPEP 1 TRP A 23 PRO A 24 1 0.72 CISPEP 2 TRP A 23 PRO A 24 2 0.56 CISPEP 3 TRP A 23 PRO A 24 3 0.44 CISPEP 4 TRP A 23 PRO A 24 4 0.82 CISPEP 5 TRP A 23 PRO A 24 5 0.36 CISPEP 6 TRP A 23 PRO A 24 6 0.74 CISPEP 7 TRP A 23 PRO A 24 7 0.60 CISPEP 8 TRP A 23 PRO A 24 8 0.56 CISPEP 9 TRP A 23 PRO A 24 9 0.43 CISPEP 10 TRP A 23 PRO A 24 10 0.72 CISPEP 11 TRP A 23 PRO A 24 11 0.29 CISPEP 12 TRP A 23 PRO A 24 12 0.36 CISPEP 13 TRP A 23 PRO A 24 13 0.31 CISPEP 14 TRP A 23 PRO A 24 14 0.43 CISPEP 15 TRP A 23 PRO A 24 15 1.03 CISPEP 16 TRP A 23 PRO A 24 16 0.31 CISPEP 17 TRP A 23 PRO A 24 17 0.65 CISPEP 18 TRP A 23 PRO A 24 18 0.68 CISPEP 19 TRP A 23 PRO A 24 19 0.35 CISPEP 20 TRP A 23 PRO A 24 20 0.48 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