PDB Short entry for 1YEL HEADER STRUCTURAL GENOMICS, UNKNOWN FUNCTION 28-DEC-04 1YEL TITLE STRUCTURE OF THE HYPOTHETICAL ARABIDOPSIS THALIANA PROTEIN AT1G16640.1 COMPND MOL_ID: 1; COMPND 2 MOLECULE: AT1G16640; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: SEQUENCE DATABASE RESIDUES 1-102; COMPND 5 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 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 7 EXPRESSION_SYSTEM_STRAIN: SG13009[PREP4]; SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 9 EXPRESSION_SYSTEM_PLASMID: PQE30 KEYWDS CESG, PROTEIN STRUCTURE INITIATIVE, STRUCTURAL GENOMICS, PSI, CENTER KEYWDS 2 FOR EUKARYOTIC STRUCTURAL GENOMICS, UNKNOWN FUNCTION EXPDTA SOLUTION NMR NUMMDL 20 AUTHOR F.C.PETERSON,J.K.WALTNER,B.L.LYTLE,B.F.VOLKMAN,CENTER FOR EUKARYOTIC AUTHOR 2 STRUCTURAL GENOMICS (CESG) REVDAT 6 02-MAR-22 1YEL 1 REMARK SEQADV REVDAT 5 24-FEB-09 1YEL 1 VERSN REVDAT 4 12-FEB-08 1YEL 1 REMARK REVDAT 3 13-SEP-05 1YEL 1 JRNL REVDAT 2 30-AUG-05 1YEL 1 JRNL REVDAT 1 18-JAN-05 1YEL 0 JRNL AUTH J.K.WALTNER,F.C.PETERSON,B.L.LYTLE,B.F.VOLKMAN JRNL TITL STRUCTURE OF THE B3 DOMAIN FROM ARABIDOPSIS THALIANA PROTEIN JRNL TITL 2 AT1G16640 JRNL REF PROTEIN SCI. V. 14 2478 2005 JRNL REFN ISSN 0961-8368 JRNL PMID 16081658 JRNL DOI 10.1110/PS.051606305 REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : XWINNMR 3.5, X-PLOR NIH REMARK 3 AUTHORS : BRUKER BIOSPIN (XWINNMR), G. MARIUS CLORE (X-PLOR) REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: STRUCTURES ARE BASED ON A TOTAL OF 1294 REMARK 3 NOE RESTRAINTS (241 INTRA, 301 SEQUENTIAL, 193 MEDIUM, AND 559 REMARK 3 LONG RANGE), AND 144 PHI AND PSI DIHEDRAL ANGLE CONSTRAINTS. REMARK 4 REMARK 4 1YEL COMPLIES WITH FORMAT V. 3.15, 01-DEC-08 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 29-DEC-04. REMARK 100 THE DEPOSITION ID IS D_1000031428. 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 : 70 MM REMARK 210 PRESSURE : AMBIENT REMARK 210 SAMPLE CONTENTS : 0.8 MM AT1G16640 U-15N,13C, 20 REMARK 210 MM PO4, 50 MM NACL, 90% H2O, 10% REMARK 210 D2O REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 3D_13C-SEPARATED_NOESY; 3D_15N REMARK 210 -SEPARATED_NOESY; 3D 13C- REMARK 210 SEPARATED NOESY (AROMATIC) REMARK 210 SPECTROMETER FIELD STRENGTH : 600 MHZ REMARK 210 SPECTROMETER MODEL : AVANCE REMARK 210 SPECTROMETER MANUFACTURER : BRUKER REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : NMRPIPE 2004, SPSCAN, XEASY 1.3, REMARK 210 GARANT 2.1, CYANA 1.0.6 REMARK 210 METHOD USED : AUTOMATED METHODS WERE USED FOR REMARK 210 BACKBONE CHEMICAL SHIFT REMARK 210 ASSIGNMENT AND ITERATIVE NOE REMARK 210 REFINEMENT. FINAL STRUCTURES REMARK 210 WERE OBTAINED BY MOLECULAR REMARK 210 DYNAMICS IN EXPLICIT SOLVENT. REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 100 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 20 REMARK 210 CONFORMERS, SELECTION CRITERIA : TARGET FUNCTION REMARK 210 REMARK 210 BEST REPRESENTATIVE CONFORMER IN THIS ENSEMBLE : 1 REMARK 210 REMARK 210 REMARK: ALL TRIPLE-RESONANCE AND NOESY SPECTRA WERE ACQUIRED USING REMARK 210 A CRYOGENIC PROBE. 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 465 REMARK 465 MISSING RESIDUES REMARK 465 THE FOLLOWING RESIDUES WERE NOT LOCATED IN THE REMARK 465 EXPERIMENT. (RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 465 SSSEQ=SEQUENCE NUMBER; I=INSERTION CODE.) REMARK 465 MODELS 1-20 REMARK 465 RES C SSSEQI REMARK 465 GLY A -1 REMARK 465 SER A 0 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 HZ2 LYS A 80 O CYS A 102 1.57 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 64 -98.70 -94.49 REMARK 500 1 ASN A 75 90.96 60.11 REMARK 500 1 ASP A 87 -97.47 -88.37 REMARK 500 1 ARG A 88 20.27 -154.11 REMARK 500 1 ASP A 89 -154.61 -143.56 REMARK 500 1 HIS A 99 -42.37 170.89 REMARK 500 1 ASN A 100 -32.08 -177.51 REMARK 500 2 THR A 4 -72.91 -74.79 REMARK 500 2 THR A 64 -150.52 -85.21 REMARK 500 2 ASN A 75 94.89 57.80 REMARK 500 2 ARG A 90 41.74 -95.52 REMARK 500 3 ALA A 2 89.51 63.40 REMARK 500 3 GLU A 6 93.85 -61.38 REMARK 500 3 LYS A 20 -33.35 -134.55 REMARK 500 3 PHE A 32 95.94 -167.74 REMARK 500 3 THR A 64 -142.73 -101.31 REMARK 500 3 ASN A 75 82.81 55.63 REMARK 500 3 ASP A 87 -79.92 -96.31 REMARK 500 3 ARG A 88 16.49 -143.42 REMARK 500 3 HIS A 99 -48.46 -144.08 REMARK 500 3 MET A 101 -44.94 169.83 REMARK 500 4 SER A 15 -9.46 -58.38 REMARK 500 4 PHE A 32 103.24 -168.54 REMARK 500 4 THR A 64 -144.38 -99.16 REMARK 500 4 ASN A 75 92.38 56.22 REMARK 500 4 ASP A 89 -159.36 -106.08 REMARK 500 4 HIS A 99 -74.88 65.51 REMARK 500 4 ASN A 100 85.65 -169.68 REMARK 500 5 ASP A 3 78.39 68.42 REMARK 500 5 LYS A 20 -36.17 -136.22 REMARK 500 5 THR A 64 -103.65 -95.03 REMARK 500 5 ASN A 75 83.92 54.82 REMARK 500 5 ARG A 88 80.40 63.75 REMARK 500 5 ASP A 89 -168.67 -172.82 REMARK 500 6 ASP A 3 149.29 71.08 REMARK 500 6 THR A 64 -92.16 -90.00 REMARK 500 6 ASN A 75 82.75 60.77 REMARK 500 6 ASP A 87 -78.78 -81.79 REMARK 500 6 ARG A 88 24.23 -176.82 REMARK 500 6 HIS A 99 125.90 68.04 REMARK 500 7 GLU A 6 80.95 42.76 REMARK 500 7 PHE A 32 80.45 -161.35 REMARK 500 7 THR A 64 -144.55 -96.43 REMARK 500 7 ASN A 75 94.86 53.99 REMARK 500 7 ASP A 89 -159.63 -96.35 REMARK 500 7 ASN A 100 100.79 -160.08 REMARK 500 8 THR A 64 -141.53 -78.21 REMARK 500 8 ASN A 75 83.82 56.74 REMARK 500 8 ARG A 88 -0.05 84.47 REMARK 500 8 ASP A 89 -165.18 -101.13 REMARK 500 REMARK 500 THIS ENTRY HAS 126 RAMACHANDRAN OUTLIERS. 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 15 ARG A 53 0.08 SIDE CHAIN REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: GO.33931 RELATED DB: TARGETDB DBREF 1YEL A 1 102 UNP Q9FX77 Q9FX77_ARATH 1 102 SEQADV 1YEL GLY A -1 UNP Q9FX77 CLONING ARTIFACT SEQADV 1YEL SER A 0 UNP Q9FX77 CLONING ARTIFACT SEQRES 1 A 104 GLY SER MET ALA ASP THR GLY GLU VAL GLN PHE MET LYS SEQRES 2 A 104 PRO PHE ILE SER GLU LYS SER SER LYS SER LEU GLU ILE SEQRES 3 A 104 PRO LEU GLY PHE ASN GLU TYR PHE PRO ALA PRO PHE PRO SEQRES 4 A 104 ILE THR VAL ASP LEU LEU ASP TYR SER GLY ARG SER TRP SEQRES 5 A 104 THR VAL ARG MET LYS LYS ARG GLY GLU LYS VAL PHE LEU SEQRES 6 A 104 THR VAL GLY TRP GLU ASN PHE VAL LYS ASP ASN ASN LEU SEQRES 7 A 104 GLU ASP GLY LYS TYR LEU GLN PHE ILE TYR ASP ARG ASP SEQRES 8 A 104 ARG THR PHE TYR VAL ILE ILE TYR GLY HIS ASN MET CYS HELIX 1 1 PRO A 25 GLU A 30 1 6 HELIX 2 2 GLY A 66 ASN A 75 1 10 SHEET 1 A 7 VAL A 7 PRO A 12 0 SHEET 2 A 7 TYR A 81 TYR A 86 -1 O TYR A 86 N VAL A 7 SHEET 3 A 7 THR A 91 ILE A 96 -1 O ILE A 95 N GLN A 83 SHEET 4 A 7 THR A 39 LEU A 43 1 N LEU A 43 O VAL A 94 SHEET 5 A 7 SER A 49 ARG A 57 -1 O TRP A 50 N LEU A 42 SHEET 6 A 7 LYS A 60 LEU A 63 -1 O PHE A 62 N LYS A 55 SHEET 7 A 7 LEU A 22 GLU A 23 -1 N LEU A 22 O LEU A 63 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