10 20 30 40 50 60 70 80 1DF6 - Header ----|----|----|----|----|----|----|----|----|----|----|----|----|----|----|----| Asymmetric UnitHEADER PLANT PROTEIN 17-NOV-99 1DF6
TITLE 1H NMR SOLUTION STRUCTURE OF CYCLOVIOLACIN O1
COMPND MOL_ID: 1; COMPND 2 MOLECULE: CYCLOVIOLACIN O1; COMPND 3 CHAIN: A; COMPND 4 OTHER_DETAILS: CYCLIC CYSTINE KNOT POLYPEPTIDE
SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: VIOLA ODORATA; SOURCE 3 ORGANISM_TAXID: 97441; SOURCE 4 OTHER_DETAILS: LEAVES, STEMS AND FLOWERS
KEYWDS CYCLIC CYSTINE KNOT, BACKBONE CYCLIC, 3-10 HELIX, DOUBLE- KEYWDS 2 STRANDED ANTI- PARALLEL BETA-SHEET, HAIRPIN BENDS, LOOPS, KEYWDS 3 PLANT PROTEIN
EXPDTA SOLUTION NMR
NUMMDL 16
AUTHOR D.J.CRAIK,N.L.DALY,T.BOND,C.WAINE
REVDAT 2 24-FEB-09 1DF6 1 VERSN REVDAT 1 01-MAR-00 1DF6 0
JRNL AUTH D.J.CRAIK,N.L.DALY,T.BOND,C.WAINE JRNL TITL PLANT CYCLOTIDES: A UNIQUE FAMILY OF CYCLIC AND JRNL TITL 2 KNOTTED PROTEINS THAT DEFINES THE CYCLIC CYSTINE JRNL TITL 3 KNOT STRUCTURAL MOTIF. JRNL REF J.MOL.BIOL. V. 294 1327 1999 JRNL REFN ISSN 0022-2836 JRNL PMID 10600388 JRNL DOI 10.1006/JMBI.1999.3383
REMARK 1
REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE.
REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : X-PLOR 3.1 REMARK 3 AUTHORS : BRUNGER REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: THE STRUCTURES WERE GENERATED USING REMARK 3 564 INTER-PROTON DISTANCE RESTRAINTS DERIVED FROM 230 INTRA- REMARK 3 RESIDUAL, 141 SEQUENTIAL, 108 MEDIUM RANGE AND 85 LONG RANGE REMARK 3 NOE INTENSITIES. THESE DISTANCE RESTRAINTS WERE SUPPLEMENTED REMARK 3 WITH 17 BACKBONE AND 7 SIDE-CHAIN DIHEDRAL ANGLE RESTRAINTS REMARK 3 FROM SPIN-SPIN COUPLING CONSTANTS.
REMARK 4 REMARK 4 1DF6 COMPLIES WITH FORMAT V. 3.15, 01-DEC-08
REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 18-NOV-99. REMARK 100 THE RCSB ID CODE IS RCSB010033.
REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 298 REMARK 210 PH : 3.6 REMARK 210 IONIC STRENGTH : NULL REMARK 210 PRESSURE : AMBIENT REMARK 210 SAMPLE CONTENTS : 1.6MM CYCLOVIOLACIN O1 1H; REMARK 210 1.6MM CYCLOVIOLACIN O1 1H REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 2D NOESY, DQF-COSY, TOCSY, E- REMARK 210 COSY REMARK 210 SPECTROMETER FIELD STRENGTH : 500 MHZ REMARK 210 SPECTROMETER MODEL : AMX REMARK 210 SPECTROMETER MANUFACTURER : BRUKER REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : XWINNMR 1.3, X-PLOR 3.1 REMARK 210 METHOD USED : DISTANCE GEOMETRY, SIMULATED REMARK 210 ANNEALING, MOLECULAR DYNAMICS REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 50 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 16 REMARK 210 CONFORMERS, SELECTION CRITERIA : STRUCTURES WITH ACCEPTABLE REMARK 210 COVALENT GEOMETRY,STRUCTURES REMARK 210 WITH THE LEAST RESTRAINT REMARK 210 VIOLATIONS,STRUCTURES WITH THE REMARK 210 LOWEST ENERGY REMARK 210 REMARK 210 BEST REPRESENTATIVE CONFORMER IN THIS ENSEMBLE : 16 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 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 PROTEIN: ENGH AND HUBER, 1999 REMARK 500 EXPECTED VALUES NUCLEIC ACID: CLOWNEY ET AL 1996 REMARK 500 REMARK 500 M RES CSSEQI ATM1 ATM2 ATM3 REMARK 500 3 CYS A 22 CA - CB - SG ANGL. DEV. = 7.3 DEGREES REMARK 500 10 CYS A 2 CA - CB - SG ANGL. DEV. = 7.5 DEGREES REMARK 500 15 CYS A 22 CA - CB - SG ANGL. DEV. = 6.7 DEGREES 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 VAL A 3 -55.85 -24.77 REMARK 500 1 TYR A 4 -55.19 -126.54 REMARK 500 1 PRO A 6 -174.88 -55.19 REMARK 500 1 VAL A 9 -40.34 -141.29 REMARK 500 1 CYS A 17 85.73 -62.47 REMARK 500 1 CYS A 28 23.21 -141.68 REMARK 500 1 ALA A 29 -176.16 63.68 REMARK 500 2 VAL A 3 -54.97 -26.59 REMARK 500 2 TYR A 4 -58.05 -125.51 REMARK 500 2 PRO A 6 -177.09 -58.81 REMARK 500 2 THR A 8 42.15 39.13 REMARK 500 2 VAL A 9 -66.26 -149.41 REMARK 500 2 CYS A 17 85.21 -63.70 REMARK 500 2 ASN A 24 61.95 -150.21 REMARK 500 2 CYS A 28 25.53 -144.78 REMARK 500 2 ALA A 29 171.78 65.97 REMARK 500 3 VAL A 3 -61.00 -22.55 REMARK 500 3 CYS A 7 -49.59 179.34 REMARK 500 3 THR A 8 26.68 36.27 REMARK 500 3 VAL A 9 -55.15 -145.38 REMARK 500 3 ASN A 24 57.13 -145.12 REMARK 500 3 ALA A 29 -176.04 73.52 REMARK 500 4 VAL A 3 -57.62 -23.09 REMARK 500 4 TYR A 4 -56.97 -125.72 REMARK 500 4 PRO A 6 -176.80 -59.39 REMARK 500 4 THR A 8 37.29 39.05 REMARK 500 4 VAL A 9 -63.12 -141.57 REMARK 500 4 CYS A 17 82.77 -65.66 REMARK 500 4 CYS A 28 19.15 -142.19 REMARK 500 4 ALA A 29 172.94 69.06 REMARK 500 5 VAL A 3 -56.00 -25.48 REMARK 500 5 TYR A 4 -57.31 -125.07 REMARK 500 5 PRO A 6 -177.40 -59.74 REMARK 500 5 THR A 8 40.99 37.21 REMARK 500 5 VAL A 9 -67.87 -145.23 REMARK 500 5 CYS A 17 85.61 -63.04 REMARK 500 5 CYS A 28 23.21 -143.04 REMARK 500 5 ALA A 29 174.65 69.75 REMARK 500 6 CYS A 2 57.07 -104.61 REMARK 500 6 TYR A 4 -58.25 -122.14 REMARK 500 6 PRO A 6 -178.81 -58.92 REMARK 500 6 VAL A 9 -65.22 -142.92 REMARK 500 6 CYS A 17 92.48 -64.40 REMARK 500 6 CYS A 28 27.90 -146.28 REMARK 500 6 ALA A 29 175.86 67.08 REMARK 500 7 VAL A 3 -55.20 -26.21 REMARK 500 7 TYR A 4 -58.14 -125.31 REMARK 500 7 PRO A 6 -174.92 -57.88 REMARK 500 7 VAL A 9 -37.02 -145.58 REMARK 500 7 CYS A 17 85.10 -66.70 REMARK 500 7 CYS A 28 25.81 -141.82 REMARK 500 7 ALA A 29 166.97 68.96 REMARK 500 8 CYS A 2 60.40 -104.37 REMARK 500 8 PRO A 6 -179.96 -68.22 REMARK 500 8 VAL A 9 -70.43 -144.99 REMARK 500 8 CYS A 17 90.24 -62.76 REMARK 500 8 ASN A 24 54.77 -116.67 REMARK 500 8 CYS A 28 30.16 -144.77 REMARK 500 8 ALA A 29 -177.40 64.32 REMARK 500 9 VAL A 3 -56.27 -25.40 REMARK 500 9 TYR A 4 -56.74 -125.04 REMARK 500 9 PRO A 6 -175.78 -59.41 REMARK 500 9 VAL A 9 -41.01 -144.46 REMARK 500 9 CYS A 17 84.84 -63.65 REMARK 500 9 ASN A 24 53.28 -110.20 REMARK 500 9 CYS A 28 25.36 -145.76 REMARK 500 9 ALA A 29 173.38 66.46 REMARK 500 10 CYS A 2 41.30 -106.07 REMARK 500 10 TYR A 4 -55.44 -124.43 REMARK 500 10 CYS A 7 -45.04 179.08 REMARK 500 10 THR A 8 24.68 36.97 REMARK 500 10 VAL A 9 -54.10 -146.89 REMARK 500 10 ASN A 24 59.97 -148.80 REMARK 500 10 CYS A 28 20.67 -140.69 REMARK 500 10 ALA A 29 179.10 69.31 REMARK 500 11 VAL A 3 -53.69 -27.54 REMARK 500 11 TYR A 4 -55.57 -125.70 REMARK 500 11 PRO A 6 -178.37 -58.40 REMARK 500 11 THR A 8 54.48 34.05 REMARK 500 11 VAL A 9 -41.26 -150.03 REMARK 500 11 CYS A 17 82.40 -66.41 REMARK 500 11 CYS A 28 19.90 -149.35 REMARK 500 11 ALA A 29 -172.49 62.68 REMARK 500 12 CYS A 2 51.96 -104.77 REMARK 500 12 TYR A 4 -60.18 -120.56 REMARK 500 12 PRO A 6 -179.75 -60.21 REMARK 500 12 THR A 8 38.51 37.73 REMARK 500 12 VAL A 9 -67.44 -139.71 REMARK 500 12 CYS A 17 87.37 -63.32 REMARK 500 12 CYS A 28 27.04 -146.13 REMARK 500 12 ALA A 29 -176.36 63.35 REMARK 500 13 CYS A 2 42.90 -104.55 REMARK 500 13 TYR A 4 -58.19 -123.41 REMARK 500 13 CYS A 7 -57.08 179.11 REMARK 500 13 THR A 8 34.63 38.16 REMARK 500 13 VAL A 9 -62.52 -144.56 REMARK 500 13 ALA A 29 174.08 69.33 REMARK 500 14 CYS A 2 57.29 -104.68 REMARK 500 14 PRO A 6 179.91 -56.17 REMARK 500 14 THR A 8 41.29 36.19 REMARK 500 14 VAL A 9 -67.00 -146.97 REMARK 500 14 CYS A 17 89.89 -62.28 REMARK 500 14 CYS A 28 28.12 -140.26 REMARK 500 14 ALA A 29 -178.49 66.26 REMARK 500 15 VAL A 3 -53.67 -23.87 REMARK 500 15 CYS A 7 -59.40 179.04 REMARK 500 15 VAL A 9 -63.68 -144.29 REMARK 500 15 ASN A 24 54.47 -106.26 REMARK 500 15 CYS A 28 20.40 -148.53 REMARK 500 15 ALA A 29 -172.53 62.46 REMARK 500 16 CYS A 2 47.17 -103.98 REMARK 500 16 CYS A 7 -62.63 179.49 REMARK 500 16 VAL A 9 -44.79 -148.06 REMARK 500 16 ASN A 24 56.11 -96.94 REMARK 500 16 CYS A 28 21.00 -145.66 REMARK 500 16 ALA A 29 -176.95 66.94 REMARK 500 REMARK 500 REMARK: NULL
DBREF 1DF6 A 1 24 UNP P82230 CYO1_VIOOD 7 30
SEQRES 1 A 30 SER CYS VAL TYR ILE PRO CYS THR VAL THR ALA LEU LEU SEQRES 2 A 30 GLY CYS SER CYS SER ASN ARG VAL CYS TYR ASN GLY ILE SEQRES 3 A 30 PRO CYS ALA GLU
HELIX 1 1 THR A 10 GLY A 14 5 5
SHEET 1 A 2 SER A 16 SER A 18 0 SHEET 2 A 2 VAL A 21 TYR A 23 -1 O VAL A 21 N SER A 18
SSBOND 1 CYS A 2 CYS A 17 1555 1555 2.02 SSBOND 2 CYS A 7 CYS A 22 1555 1555 2.02 SSBOND 3 CYS A 15 CYS A 28 1555 1555 2.02
LINK N SER A 1 C GLU A 30 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