HEADER PLANT PROTEIN 27-AUG-09 2KNN TITLE SOLUTION STRUCTURE OF THE CYCLOTIDE CYCLOVIOLACIN O2 WITH GLU6 TITLE 2 METHYLATED (CYO2ME) COMPND MOL_ID: 1; COMPND 2 MOLECULE: CYCLOVIOLACIN-O2; COMPND 3 CHAIN: A SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: VIOLA ODORATA; SOURCE 3 ORGANISM_COMMON: VIOLA ODORATA; SOURCE 4 ORGANISM_TAXID: 97441 KEYWDS CYCLOTIDE, CYCLIC CYSTINE KNOT, CIRCULAR PROTEIN, METHYLATION, KEYWDS 2 CYTOLYSIS, DISULFIDE BOND, HEMOLYSIS, KNOTTIN, PLANT DEFENSE, PLANT KEYWDS 3 PROTEIN EXPDTA SOLUTION NMR NUMMDL 20 AUTHOR K.ROSENGREN REVDAT 2 16-MAR-22 2KNN 1 REMARK LINK REVDAT 1 09-MAR-10 2KNN 0 JRNL AUTH U.GORANSSON,A.HERRMANN,R.BURMAN,L.M.HAUGAARD-JONSSON, JRNL AUTH 2 K.J.ROSENGREN JRNL TITL THE CONSERVED GLU IN THE CYCLOTIDE CYCLOVIOLACIN O2 HAS A JRNL TITL 2 KEY STRUCTURAL ROLE. JRNL REF CHEMBIOCHEM V. 10 2354 2009 JRNL REFN ISSN 1439-4227 JRNL PMID 19735083 JRNL DOI 10.1002/CBIC.200900342 REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : VNMR 6.1, CNS 1.2 REMARK 3 AUTHORS : VARIAN (VNMR), BRUNGER, ADAMS, CLORE, GROS, NILGES REMARK 3 AND READ (CNS) REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: STRUCTURES WERE GENERATED USING TORSION REMARK 3 ANGLE DYNAMICS WITHIN THE PROGRAM CNS AND REFINED AND ENERGY REMARK 3 MINIMISED USING CARTESIAN DYNAMICS IN EXPLICIT WATER. REMARK 4 REMARK 4 2KNN COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 09-OCT-09. REMARK 100 THE DEPOSITION ID IS D_1000101345. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 303 REMARK 210 PH : 5 REMARK 210 IONIC STRENGTH : NULL REMARK 210 PRESSURE : AMBIENT REMARK 210 SAMPLE CONTENTS : 1-2 MM CYCLOVIOLACIN O2(ME), 90% REMARK 210 H2O/10% D2O; 1-2 MM REMARK 210 CYCLOVIOLACIN O2(ME), 100% D2O REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 2D 1H-1H TOCSY; 2D DQF-COSY; 2D REMARK 210 1H-1H NOESY REMARK 210 SPECTROMETER FIELD STRENGTH : 500 MHZ REMARK 210 SPECTROMETER MODEL : INOVA; AVANCE REMARK 210 SPECTROMETER MANUFACTURER : VARIAN; BRUKER REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : VNMR 6.1, CARA, CYANA 2.0 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 : STRUCTURES WITH THE LOWEST REMARK 210 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 SER A 15 23.45 -71.13 REMARK 500 2 CYS A 8 54.69 -150.26 REMARK 500 2 TRP A 10 -49.45 -144.16 REMARK 500 2 SER A 15 -49.58 65.95 REMARK 500 2 SER A 16 -36.29 -170.25 REMARK 500 2 ALA A 17 46.15 174.48 REMARK 500 3 CYS A 8 43.14 -144.48 REMARK 500 3 ILE A 14 -59.22 -127.78 REMARK 500 3 SER A 15 -48.95 67.27 REMARK 500 3 SER A 16 -37.65 -169.42 REMARK 500 3 ALA A 17 47.73 168.36 REMARK 500 4 ILE A 14 -94.46 -125.50 REMARK 500 4 SER A 16 -28.17 -178.90 REMARK 500 4 ALA A 17 58.30 -165.25 REMARK 500 5 CYS A 8 50.24 -147.18 REMARK 500 5 TRP A 10 -60.26 -99.33 REMARK 500 5 ILE A 14 -83.72 -124.96 REMARK 500 5 SER A 15 -62.37 67.11 REMARK 500 5 SER A 16 30.15 -176.92 REMARK 500 5 CYS A 20 165.96 79.69 REMARK 500 6 CYS A 8 39.39 -150.37 REMARK 500 6 ILE A 14 -130.93 -106.04 REMARK 500 6 SER A 15 -62.59 67.88 REMARK 500 6 SER A 16 16.05 -158.69 REMARK 500 6 ALA A 17 43.35 -94.15 REMARK 500 6 ILE A 18 98.00 -63.26 REMARK 500 7 CYS A 8 33.41 -140.58 REMARK 500 7 ILE A 14 -114.65 -89.16 REMARK 500 7 SER A 15 33.58 -69.66 REMARK 500 7 ALA A 17 53.47 -174.21 REMARK 500 7 ILE A 18 108.10 -57.94 REMARK 500 8 CYS A 8 50.87 -146.27 REMARK 500 8 TRP A 10 -45.76 -139.96 REMARK 500 8 SER A 15 -51.75 66.67 REMARK 500 8 SER A 16 -39.64 -160.81 REMARK 500 8 ALA A 17 47.32 167.14 REMARK 500 9 CYS A 8 54.21 -150.65 REMARK 500 9 TRP A 10 -51.28 -139.74 REMARK 500 9 ILE A 14 -78.87 -102.27 REMARK 500 9 SER A 15 3.10 51.98 REMARK 500 9 ALA A 17 47.47 -167.71 REMARK 500 10 CYS A 8 52.51 -150.29 REMARK 500 10 ILE A 14 -64.47 -95.29 REMARK 500 10 SER A 15 21.76 -70.06 REMARK 500 10 SER A 16 14.29 -154.91 REMARK 500 10 ALA A 17 60.42 -175.46 REMARK 500 11 CYS A 8 48.99 -140.01 REMARK 500 11 ILE A 14 -70.01 -97.11 REMARK 500 11 SER A 15 22.77 -70.72 REMARK 500 11 SER A 16 15.85 -154.59 REMARK 500 REMARK 500 THIS ENTRY HAS 91 RAMACHANDRAN OUTLIERS. REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 2KNM RELATED DB: PDB REMARK 900 NMR STRUCTURE OF THE NATIVE UNMODIFIED PEPTIDE. DBREF 2KNN A 1 30 UNP P58434 CYO2_VIOOD 1 30 SEQRES 1 A 30 GLY ILE PRO CYS GLY GME SER CYS VAL TRP ILE PRO CYS SEQRES 2 A 30 ILE SER SER ALA ILE GLY CYS SER CYS LYS SER LYS VAL SEQRES 3 A 30 CYS TYR ARG ASN MODRES 2KNN GME A 6 GLU 5-O-METHYL-GLUTAMIC ACID HET GME A 6 19 HETNAM GME 5-O-METHYL-GLUTAMIC ACID HETSYN GME (2S)-2-AMINO-5-METHOXY-5-OXOPENTANOIC ACID FORMUL 1 GME C6 H11 N O4 SHEET 1 A 3 ILE A 2 SER A 7 0 SHEET 2 A 3 VAL A 26 ARG A 29 -1 O ARG A 29 N ILE A 2 SHEET 3 A 3 SER A 21 LYS A 23 -1 N SER A 21 O TYR A 28 SSBOND 1 CYS A 4 CYS A 20 1555 1555 2.03 SSBOND 2 CYS A 8 CYS A 22 1555 1555 2.03 SSBOND 3 CYS A 13 CYS A 27 1555 1555 2.03 LINK N GLY A 1 C ASN A 30 1555 1555 1.32 LINK C GLY A 5 N GME A 6 1555 1555 1.32 LINK C GME A 6 N SER A 7 1555 1555 1.31 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