10 20 30 40 50 60 70 80 1VEE - Header ----|----|----|----|----|----|----|----|----|----|----|----|----|----|----|----| Asymmetric UnitHEADER STRUCTURAL GENOMICS, UNKNOWN FUNCTION 30-MAR-04 1VEE
TITLE NMR STRUCTURE OF THE HYPOTHETICAL RHODANESE DOMAIN TITLE 2 AT4G01050 FROM ARABIDOPSIS THALIANA
COMPND MOL_ID: 1; COMPND 2 MOLECULE: PROLINE-RICH PROTEIN FAMILY; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: RHODANESE HYPOTHETICAL DOMAIN; COMPND 5 SYNONYM: HYPOTHETICAL PROTEIN RAFL06-68-J04; COMPND 6 ENGINEERED: YES
SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: ARABIDOPSIS THALIANA; SOURCE 3 ORGANISM_COMMON: THALE CRESS; SOURCE 4 ORGANISM_TAXID: 3702; SOURCE 5 GENE: RIKEN CDNA RAFL06-68-J04; SOURCE 6 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 7 EXPRESSION_SYSTEM_PLASMID: P030120-27; SOURCE 8 OTHER_DETAILS: E.COLI CELL-FREE PROTEIN SYNTHESIS
KEYWDS HYPOTHETICAL PROTEIN, STRUCTURAL GENOMICS, RHODANESE DOMAIN, KEYWDS 2 RIKEN STRUCTURAL GENOMICS/PROTEOMICS INITIATIVE, RSGI, KEYWDS 3 UNKNOWN FUNCTION
EXPDTA SOLUTION NMR
NUMMDL 20
AUTHOR D.PANTOJA-UCEDA,B.LOPEZ-MENDEZ,S.KOSHIBA,M.INOUE,T.KIGAWA, AUTHOR 2 T.TERADA,M.SHIROUZU,A.TANAKA,M.SEKI,K.SHINOZAKI,S.YOKOYAMA, AUTHOR 3 P.GUNTERT,RIKEN STRUCTURAL GENOMICS/PROTEOMICS INITIATIVE AUTHOR 4 (RSGI)
REVDAT 3 24-FEB-09 1VEE 1 VERSN REVDAT 2 15-FEB-05 1VEE 1 AUTHOR REVDAT 1 25-JAN-05 1VEE 0
JRNL AUTH D.PANTOJA-UCEDA,B.LOPEZ-MENDEZ,S.KOSHIBA,M.INOUE, JRNL AUTH 2 T.KIGAWA,T.TERADA,M.SHIROUZU,A.TANAKA,M.SEKI, JRNL AUTH 3 K.SHINOZAKI,S.YOKOYAMA,P.GUNTERT JRNL TITL SOLUTION STRUCTURE OF THE RHODANESE HOMOLOGY JRNL TITL 2 DOMAIN AT4G01050(175-295) FROM ARABIDOPSIS THALIANA JRNL REF PROTEIN SCI. V. 14 224 2005 JRNL REFN ISSN 0961-8368 JRNL PMID 15576557 JRNL DOI 10.1110/PS.041138705
REMARK 1 REMARK 1 REFERENCE 1 REMARK 1 AUTH D.PANTOJA-UCEDA,B.LOPEZ-MENDEZ,S.KOSHIBA,T.KIGAWA, REMARK 1 AUTH 2 M.SHIROUZU,T.TERADA,M.INOUE,T.YABUKI,M.AOKI,E.SEKI, REMARK 1 AUTH 3 T.MATSUDA,H.HIROTA,M.YOSHIDA,A.TANAKA,T.OSANAI, REMARK 1 AUTH 4 M.SEKI,K.SHINOZAKI,S.YOKOYAMA,P.GUNTERT REMARK 1 TITL NMR ASSIGNMENT OF THE HYPOTHETICAL RHODANESE REMARK 1 TITL 2 DOMAIN AT4G01050 FROM ARABIDOPSIS THALIANA REMARK 1 REF J.BIOMOL.NMR V. 29 207 2004 REMARK 1 REFN ISSN 0925-2738 REMARK 1 PMID 15014235 REMARK 1 DOI 10.1023/B:JNMR.0000019241.66789.C3
REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE.
REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : OPALP 1.3 REMARK 3 AUTHORS : R.KORADI,M.BILLETER,P.GUNTERT REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL
REMARK 4 REMARK 4 1VEE COMPLIES WITH FORMAT V. 3.15, 01-DEC-08
REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 05-APR-04. REMARK 100 THE RCSB ID CODE IS RCSB006524.
REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 298 REMARK 210 PH : 7.0 REMARK 210 IONIC STRENGTH : NULL REMARK 210 PRESSURE : AMBIENT REMARK 210 SAMPLE CONTENTS : 1.1MM 13C, 15N-ARABIDOPSIS REMARK 210 RHODANESE HYPOTHETICAL DOMAIN; REMARK 210 20MM PHOSPHATE BUFFER; 100MM REMARK 210 NA 1MM DITHIOTHREITOL; 0.02% REMARK 210 NA3N; 90% H2O, 10% D2O REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 3D_15N-SEPARATED_NOESY, 3D_ REMARK 210 13C-SEPARATED_NOESY REMARK 210 SPECTROMETER FIELD STRENGTH : 600 MHZ, 800 MHZ REMARK 210 SPECTROMETER MODEL : DRX, AVANCE REMARK 210 SPECTROMETER MANUFACTURER : BRUKER REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : CYANA 2.0.29 REMARK 210 METHOD USED : TORSION ANGLE DYNAMICS REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 100 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 20 REMARK 210 CONFORMERS, SELECTION CRITERIA : STRUCTURES WITH THE LEAST REMARK 210 RESTRAINT VIOLATIONS 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 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 1 ARG A 113 NE - CZ - NH2 ANGL. DEV. = -3.0 DEGREES REMARK 500 6 ARG A 28 CD - NE - CZ ANGL. DEV. = 8.5 DEGREES REMARK 500 14 ARG A 28 NE - CZ - NH2 ANGL. DEV. = -3.3 DEGREES REMARK 500 20 TYR A 78 CB - CG - CD2 ANGL. DEV. = -4.0 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 SER A 3 -70.32 -128.83 REMARK 500 1 GLN A 35 -70.26 -90.35 REMARK 500 1 LEU A 44 -71.50 -83.46 REMARK 500 1 PHE A 83 -140.84 -141.77 REMARK 500 1 ASP A 107 -5.07 89.85 REMARK 500 1 ASN A 117 24.96 -75.11 REMARK 500 1 SER A 132 -1.56 -147.35 REMARK 500 2 SER A 2 31.16 -144.41 REMARK 500 2 ASP A 19 -168.72 -126.51 REMARK 500 2 ASP A 20 -43.23 -141.66 REMARK 500 2 PHE A 83 -151.64 -138.58 REMARK 500 2 ALA A 109 -45.50 -135.60 REMARK 500 2 TRP A 115 -56.98 -27.70 REMARK 500 2 ASN A 117 7.21 -69.07 REMARK 500 2 TRP A 122 126.19 -171.83 REMARK 500 2 ILE A 123 88.63 -68.66 REMARK 500 3 SER A 2 -55.57 -122.10 REMARK 500 3 ARG A 28 -102.74 -42.19 REMARK 500 3 GLN A 35 -62.86 -99.50 REMARK 500 3 LYS A 126 35.44 -75.15 REMARK 500 4 SER A 3 40.35 -84.70 REMARK 500 4 SER A 5 93.35 -63.13 REMARK 500 4 ASN A 40 76.25 -108.69 REMARK 500 4 ASP A 84 -57.33 -24.45 REMARK 500 4 TRP A 115 -66.59 -29.84 REMARK 500 5 SER A 5 55.65 -151.98 REMARK 500 5 PHE A 83 -136.51 -131.92 REMARK 500 5 ASN A 86 10.79 -145.82 REMARK 500 5 ALA A 102 115.89 -165.21 REMARK 500 5 ASP A 107 -1.58 75.37 REMARK 500 5 PRO A 125 -159.34 -78.18 REMARK 500 6 GLN A 35 -60.37 -101.11 REMARK 500 6 ASP A 84 -55.50 -23.32 REMARK 500 6 ASN A 86 -0.21 -144.04 REMARK 500 6 SER A 132 25.32 -150.62 REMARK 500 7 SER A 3 1.64 -154.76 REMARK 500 7 ASP A 84 -32.44 -34.35 REMARK 500 7 LYS A 100 -70.15 -50.82 REMARK 500 7 THR A 128 -77.57 -147.14 REMARK 500 7 SER A 132 -72.68 -148.66 REMARK 500 8 ILE A 41 20.35 -145.00 REMARK 500 8 PHE A 83 -143.98 -134.98 REMARK 500 9 SER A 5 116.90 -34.25 REMARK 500 9 ILE A 41 15.49 -140.85 REMARK 500 9 SER A 50 108.71 -58.02 REMARK 500 9 ASP A 57 31.97 -149.44 REMARK 500 9 PHE A 83 -141.20 -131.58 REMARK 500 9 TRP A 115 -62.52 -25.94 REMARK 500 9 THR A 128 44.87 -146.29 REMARK 500 10 SER A 3 -7.73 65.27 REMARK 500 10 ASP A 84 -64.90 -17.81 REMARK 500 10 TRP A 115 -53.61 -29.45 REMARK 500 10 LYS A 127 119.82 -34.86 REMARK 500 11 SER A 5 44.35 -81.21 REMARK 500 11 SER A 50 102.43 -57.96 REMARK 500 11 PHE A 83 -152.71 -138.60 REMARK 500 11 LYS A 100 -71.07 -49.79 REMARK 500 11 ASP A 107 -2.09 82.24 REMARK 500 11 SER A 132 42.21 -83.28 REMARK 500 12 SER A 3 -143.81 -128.25 REMARK 500 12 ARG A 28 -109.38 -33.78 REMARK 500 12 ASP A 57 51.37 -101.32 REMARK 500 12 LYS A 70 -2.38 -142.25 REMARK 500 12 PHE A 83 -154.16 -142.83 REMARK 500 13 SER A 3 -31.80 66.49 REMARK 500 13 ASN A 21 32.40 -93.30 REMARK 500 13 GLN A 35 -65.41 -103.19 REMARK 500 13 ASP A 57 46.67 -146.26 REMARK 500 13 PHE A 83 -148.82 -136.25 REMARK 500 13 ASP A 107 -0.55 68.09 REMARK 500 14 SER A 2 -169.77 -160.23 REMARK 500 14 GLU A 73 -8.00 -59.66 REMARK 500 14 ASN A 117 22.63 -78.64 REMARK 500 15 PHE A 83 -153.05 -121.78 REMARK 500 15 ASN A 117 32.14 -83.60 REMARK 500 16 SER A 8 149.89 -37.47 REMARK 500 16 PHE A 83 -155.97 -136.82 REMARK 500 16 ASP A 107 4.84 115.32 REMARK 500 16 ASN A 117 13.98 -66.36 REMARK 500 16 PRO A 125 -165.78 -79.56 REMARK 500 16 LYS A 127 103.33 -43.88 REMARK 500 17 SER A 3 115.35 -169.88 REMARK 500 17 LYS A 100 -70.13 -46.94 REMARK 500 17 PRO A 125 -155.39 -78.91 REMARK 500 17 LYS A 126 56.05 -118.43 REMARK 500 18 GLN A 35 -79.32 -104.06 REMARK 500 18 LEU A 44 -75.01 -77.10 REMARK 500 18 PHE A 83 -152.52 -130.26 REMARK 500 18 SER A 87 -62.78 -29.31 REMARK 500 19 SER A 2 -42.24 -138.52 REMARK 500 19 SER A 5 57.67 -65.94 REMARK 500 19 ASN A 117 27.82 -77.47 REMARK 500 20 SER A 3 97.89 -66.89 REMARK 500 20 PHE A 83 -152.07 -137.74 REMARK 500 20 ASN A 86 11.81 -143.74 REMARK 500 20 TRP A 115 -62.83 -25.90 REMARK 500 20 THR A 128 -68.77 -125.13 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 2 TYR A 78 0.08 SIDE_CHAIN REMARK 500 2 ARG A 113 0.11 SIDE_CHAIN REMARK 500 3 TYR A 78 0.09 SIDE_CHAIN REMARK 500 6 TYR A 78 0.09 SIDE_CHAIN REMARK 500 6 ARG A 113 0.12 SIDE_CHAIN REMARK 500 7 TYR A 78 0.10 SIDE_CHAIN REMARK 500 8 ARG A 28 0.07 SIDE_CHAIN REMARK 500 8 ARG A 113 0.08 SIDE_CHAIN REMARK 500 10 ARG A 113 0.09 SIDE_CHAIN REMARK 500 12 TYR A 78 0.07 SIDE_CHAIN REMARK 500 12 TYR A 103 0.09 SIDE_CHAIN REMARK 500 15 TYR A 78 0.12 SIDE_CHAIN REMARK 500 16 ARG A 28 0.10 SIDE_CHAIN REMARK 500 16 ARG A 113 0.10 SIDE_CHAIN REMARK 500 17 ARG A 28 0.10 SIDE_CHAIN REMARK 500 17 TYR A 78 0.08 SIDE_CHAIN REMARK 500 18 ARG A 28 0.10 SIDE_CHAIN REMARK 500 18 TYR A 78 0.09 SIDE_CHAIN REMARK 500 19 TYR A 78 0.10 SIDE_CHAIN REMARK 500 19 ARG A 113 0.12 SIDE_CHAIN REMARK 500 20 TYR A 103 0.07 SIDE_CHAIN REMARK 500 REMARK 500 REMARK: NULL
REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 5929 RELATED DB: BMRB REMARK 900 CHEMICAL SHIFTS REMARK 900 RELATED ID: ATR001001566 RELATED DB: TARGETDB
DBREF 1VEE A 8 128 UNP Q9M158 Y4105_ARATH 134 254
SEQADV 1VEE GLY A 1 UNP Q9M158 CLONING ARTIFACT SEQADV 1VEE SER A 2 UNP Q9M158 CLONING ARTIFACT SEQADV 1VEE SER A 3 UNP Q9M158 CLONING ARTIFACT SEQADV 1VEE GLY A 4 UNP Q9M158 CLONING ARTIFACT SEQADV 1VEE SER A 5 UNP Q9M158 CLONING ARTIFACT SEQADV 1VEE SER A 6 UNP Q9M158 CLONING ARTIFACT SEQADV 1VEE GLY A 7 UNP Q9M158 CLONING ARTIFACT SEQADV 1VEE SER A 129 UNP Q9M158 CLONING ARTIFACT SEQADV 1VEE GLY A 130 UNP Q9M158 CLONING ARTIFACT SEQADV 1VEE PRO A 131 UNP Q9M158 CLONING ARTIFACT SEQADV 1VEE SER A 132 UNP Q9M158 CLONING ARTIFACT SEQADV 1VEE SER A 133 UNP Q9M158 CLONING ARTIFACT SEQADV 1VEE GLY A 134 UNP Q9M158 CLONING ARTIFACT
SEQRES 1 A 134 GLY SER SER GLY SER SER GLY SER ALA LYS ASN ALA TYR SEQRES 2 A 134 THR LYS LEU GLY THR ASP ASP ASN ALA GLN LEU LEU ASP SEQRES 3 A 134 ILE ARG ALA THR ALA ASP PHE ARG GLN VAL GLY SER PRO SEQRES 4 A 134 ASN ILE LYS GLY LEU GLY LYS LYS ALA VAL SER THR VAL SEQRES 5 A 134 TYR ASN GLY GLU ASP LYS PRO GLY PHE LEU LYS LYS LEU SEQRES 6 A 134 SER LEU LYS PHE LYS ASP PRO GLU ASN THR THR LEU TYR SEQRES 7 A 134 ILE LEU ASP LYS PHE ASP GLY ASN SER GLU LEU VAL ALA SEQRES 8 A 134 GLU LEU VAL ALA LEU ASN GLY PHE LYS SER ALA TYR ALA SEQRES 9 A 134 ILE LYS ASP GLY ALA GLU GLY PRO ARG GLY TRP LEU ASN SEQRES 10 A 134 SER SER LEU PRO TRP ILE GLU PRO LYS LYS THR SER GLY SEQRES 11 A 134 PRO SER SER GLY
HELIX 1 1 SER A 8 ASP A 19 1 12 HELIX 2 2 ALA A 29 VAL A 36 1 8 HELIX 3 3 ASN A 54 GLU A 56 5 3 HELIX 4 4 ASP A 57 LEU A 67 1 11 HELIX 5 5 ASP A 71 ASN A 74 5 4 HELIX 6 6 ASN A 86 GLY A 98 1 13 HELIX 7 7 TRP A 115 SER A 119 5 5
SHEET 1 A 4 VAL A 49 SER A 50 0 SHEET 2 A 4 ALA A 22 ASP A 26 1 N ASP A 26 O VAL A 49 SHEET 3 A 4 THR A 76 LEU A 80 1 O TYR A 78 N LEU A 25 SHEET 4 A 4 SER A 101 ALA A 104 1 O TYR A 103 N ILE A 79 SHEET 1 B 2 SER A 38 PRO A 39 0 SHEET 2 B 2 TRP A 122 ILE A 123 -1 O ILE A 123 N SER A 38
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