HEADER STRUCTURAL GENOMICS, UNKNOWN FUNCTION 31-MAY-07 2Q4N TITLE ENSEMBLE REFINEMENT OF THE CRYSTAL STRUCTURE OF PROTEIN FROM TITLE 2 ARABIDOPSIS THALIANA AT1G79260 COMPND MOL_ID: 1; COMPND 2 MOLECULE: UNCHARACTERIZED PROTEIN AT1G79260; COMPND 3 CHAIN: A; COMPND 4 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 STRAIN: CV. COLUMBIA; SOURCE 6 GENE: AT1G79260, YUP8H12R.14; SOURCE 7 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 8 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 9 EXPRESSION_SYSTEM_STRAIN: B834 P(RARE2); SOURCE 10 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 11 EXPRESSION_SYSTEM_PLASMID: PVP-16 KEYWDS ENSEMBLE REFINEMENT, REFINEMENT METHODOLOGY DEVELOPMENT, AT1G79260, KEYWDS 2 STRUCTURAL GENOMICS, PROTEIN STRUCTURE INITIATIVE, PSI, CENTER FOR KEYWDS 3 EUKARYOTIC STRUCTURAL GENOMICS, CESG, UNKNOWN FUNCTION EXPDTA X-RAY DIFFRACTION NUMMDL 8 AUTHOR E.J.LEVIN,D.A.KONDRASHOV,G.E.WESENBERG,G.N.PHILLIPS JR.,CENTER FOR AUTHOR 2 EUKARYOTIC STRUCTURAL GENOMICS (CESG) REVDAT 7 13-NOV-24 2Q4N 1 REMARK REVDAT 6 15-NOV-23 2Q4N 1 REMARK REVDAT 5 30-AUG-23 2Q4N 1 SEQADV LINK REVDAT 4 10-AUG-11 2Q4N 1 REMARK REVDAT 3 24-FEB-09 2Q4N 1 VERSN REVDAT 2 02-OCT-07 2Q4N 1 JRNL REVDAT 1 19-JUN-07 2Q4N 0 JRNL AUTH E.J.LEVIN,D.A.KONDRASHOV,G.E.WESENBERG,G.N.PHILLIPS JRNL TITL ENSEMBLE REFINEMENT OF PROTEIN CRYSTAL STRUCTURES: JRNL TITL 2 VALIDATION AND APPLICATION. JRNL REF STRUCTURE V. 15 1040 2007 JRNL REFN ISSN 0969-2126 JRNL PMID 17850744 JRNL DOI 10.1016/J.STR.2007.06.019 REMARK 2 REMARK 2 RESOLUTION. 1.32 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : CNS 1.1 REMARK 3 AUTHORS : BRUNGER,ADAMS,CLORE,DELANO,GROS,GROSSE- REMARK 3 : KUNSTLEVE,JIANG,KUSZEWSKI,NILGES,PANNU, REMARK 3 : READ,RICE,SIMONSON,WARREN REMARK 3 REMARK 3 REFINEMENT TARGET : MAXIMUM LIKELIHOOD USING AMPLITUDES REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.32 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 29.26 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 DATA CUTOFF HIGH (ABS(F)) : 1022417.188 REMARK 3 DATA CUTOFF LOW (ABS(F)) : 0.0000 REMARK 3 COMPLETENESS (WORKING+TEST) (%) : 95.3 REMARK 3 NUMBER OF REFLECTIONS : 40645 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 CROSS-VALIDATION METHOD : THROUGHOUT REMARK 3 FREE R VALUE TEST SET SELECTION : RANDOM REMARK 3 R VALUE (WORKING SET) : 0.152 REMARK 3 FREE R VALUE : 0.195 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 2068 REMARK 3 ESTIMATED ERROR OF FREE R VALUE : 0.004 REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 6 REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 1.32 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.40 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 92.00 REMARK 3 REFLECTIONS IN BIN (WORKING SET) : 6114 REMARK 3 BIN R VALUE (WORKING SET) : 0.1460 REMARK 3 BIN FREE R VALUE : 0.1860 REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : 5.10 REMARK 3 BIN FREE R VALUE TEST SET COUNT : 331 REMARK 3 ESTIMATED ERROR OF BIN FREE R VALUE : 0.010 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 1203 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 0 REMARK 3 SOLVENT ATOMS : 329 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 11.10 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.00000 REMARK 3 B22 (A**2) : 0.00000 REMARK 3 B33 (A**2) : 0.00000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 0.00000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM LUZZATI PLOT (A) : 0.10 REMARK 3 ESD FROM SIGMAA (A) : -0.0 REMARK 3 LOW RESOLUTION CUTOFF (A) : 5.00 REMARK 3 REMARK 3 CROSS-VALIDATED ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM C-V LUZZATI PLOT (A) : 0.13 REMARK 3 ESD FROM C-V SIGMAA (A) : NULL REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 BOND LENGTHS (A) : 0.042 REMARK 3 BOND ANGLES (DEGREES) : 3.000 REMARK 3 DIHEDRAL ANGLES (DEGREES) : 26.80 REMARK 3 IMPROPER ANGLES (DEGREES) : 2.270 REMARK 3 REMARK 3 ISOTROPIC THERMAL MODEL : RESTRAINED REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. RMS SIGMA REMARK 3 MAIN-CHAIN BOND (A**2) : 1.130 ; 1.500 REMARK 3 MAIN-CHAIN ANGLE (A**2) : 1.620 ; 2.000 REMARK 3 SIDE-CHAIN BOND (A**2) : 1.930 ; 2.000 REMARK 3 SIDE-CHAIN ANGLE (A**2) : 2.680 ; 2.500 REMARK 3 REMARK 3 BULK SOLVENT MODELING. REMARK 3 METHOD USED : FLAT MODEL REMARK 3 KSOL : 0.37 REMARK 3 BSOL : 63.59 REMARK 3 REMARK 3 NCS MODEL : NULL REMARK 3 REMARK 3 NCS RESTRAINTS. RMS SIGMA/WEIGHT REMARK 3 GROUP 1 POSITIONAL (A) : NULL ; NULL REMARK 3 GROUP 1 B-FACTOR (A**2) : NULL ; NULL REMARK 3 REMARK 3 PARAMETER FILE 1 : PROTEIN_REP.PARAM REMARK 3 PARAMETER FILE 2 : WATER_REP.PARAM REMARK 3 PARAMETER FILE 3 : NULL REMARK 3 TOPOLOGY FILE 1 : PROTEIN.TOP REMARK 3 TOPOLOGY FILE 2 : WATER.TOP REMARK 3 TOPOLOGY FILE 3 : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: REMARK 3 THIS PDB ENTRY IS A RE-REFINEMENT USING AN ENSEMBLE MODEL OF THE REMARK 3 PREVIOUSLY REMARK 3 DEPOSITED SINGLE-CONFORMER STRUCTURE 2A13 AND REMARK 3 THE FIRST DATA SET IN THE DEPOSITED STRUCTURE FACTOR FILE REMARK 3 FOR 2A13 ALONG WITH THE R-FREE SET DEFINED THEREIN. THE COORDINATES REMARK 3 WERE GENERATED BY AN AUTOMATED PROTOCOL FROM AN INITIAL MODEL REMARK 3 CONSISTING REMARK 3 OF 8 IDENTICAL COPIES OF THE PROTEIN AND NON-WATER REMARK 3 HETERO-ATOMS ASSIGNED FRACTIONAL OCCUPANCIES ADDING UP TO ONE, AND REMARK 3 A REMARK 3 SINGLE COPY OF THE SOLVENT MOLECULES. REFINEMENT WAS CARRIED OUT REMARK 3 WITH REMARK 3 ALL THE CONFORMERS PRESENT SIMULTANEOUSLY AND WITH THE POTENTIAL REMARK 3 ENERGY REMARK 3 TERMS CORRESPONDING TO INTERACTIONS BETWEEN THE DIFFERENT REMARK 3 CONFORMERS REMARK 3 EXCLUDED. THE HELIX AND SHEET RECORDS WERE CALCULATED USING REMARK 3 COORDINATES REMARK 3 FROM THE FIRST CONFORMER ONLY. THE STRUCTURE VISUALIZATION PROGRAM REMARK 3 PYMOL IS WELL-SUITED FOR DIRECTLY VIEWING THE ENSEMBLE MODEL REMARK 3 PRESENTED IN THIS PDB FILE. REMARK 4 REMARK 4 2Q4N COMPLIES WITH FORMAT V. 3.15, 01-DEC-08 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 05-JUN-07. REMARK 100 THE DEPOSITION ID IS D_1000043143. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : NULL REMARK 200 TEMPERATURE (KELVIN) : NULL REMARK 200 PH : NULL REMARK 200 NUMBER OF CRYSTALS USED : NULL REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : NULL REMARK 200 RADIATION SOURCE : NULL REMARK 200 BEAMLINE : NULL REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : NULL REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : NULL REMARK 200 DETECTOR MANUFACTURER : NULL REMARK 200 INTENSITY-INTEGRATION SOFTWARE : NULL REMARK 200 DATA SCALING SOFTWARE : NULL REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : NULL REMARK 200 RESOLUTION RANGE HIGH (A) : NULL REMARK 200 RESOLUTION RANGE LOW (A) : NULL REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : NULL REMARK 200 DATA REDUNDANCY : NULL REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : NULL REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : NULL REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : NULL REMARK 200 COMPLETENESS FOR SHELL (%) : NULL REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> FOR SHELL : NULL REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: RE-REFINEMENT USING REMARK 200 ENSEMBLE MODEL REMARK 200 SOFTWARE USED: CNS 1.1 REMARK 200 STARTING MODEL: PDB ENTRY 2A13 REMARK 200 REMARK 200 REMARK: AUTHOR USED THE SF DATA FROM ENTRY 2A13. REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 48.50 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.40 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: NULL REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 21 21 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,-Y,Z REMARK 290 3555 -X+1/2,Y+1/2,-Z REMARK 290 4555 X+1/2,-Y+1/2,-Z REMARK 290 REMARK 290 WHERE NNN -> OPERATOR NUMBER REMARK 290 MMM -> TRANSLATION VECTOR REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY TRANSFORMATIONS REMARK 290 THE FOLLOWING TRANSFORMATIONS OPERATE ON THE ATOM/HETATM REMARK 290 RECORDS IN THIS ENTRY TO PRODUCE CRYSTALLOGRAPHICALLY REMARK 290 RELATED MOLECULES. REMARK 290 SMTRY1 1 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 1 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 1 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 2 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 30.02800 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 40.01300 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 30.02800 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 40.01300 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 REMARK 290 REMARK: NULL 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: DIMERIC 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 350 BIOMT1 2 -1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 2 0.000000 -1.000000 0.000000 160.05200 REMARK 350 BIOMT3 2 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. (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 465 IDENTIFIER; SSSEQ=SEQUENCE NUMBER; I=INSERTION CODE.) REMARK 465 REMARK 465 M RES C SSSEQI REMARK 465 1 SER A 1 REMARK 465 1 ASN A 2 REMARK 465 1 GLN A 3 REMARK 465 1 LEU A 4 REMARK 465 1 GLN A 5 REMARK 465 1 GLN A 6 REMARK 465 1 LEU A 7 REMARK 465 1 GLN A 8 REMARK 465 1 ASN A 9 REMARK 465 1 PRO A 10 REMARK 465 1 GLY A 11 REMARK 465 1 GLU A 12 REMARK 465 1 SER A 13 REMARK 465 2 SER A 1 REMARK 465 2 ASN A 2 REMARK 465 2 GLN A 3 REMARK 465 2 LEU A 4 REMARK 465 2 GLN A 5 REMARK 465 2 GLN A 6 REMARK 465 2 LEU A 7 REMARK 465 2 GLN A 8 REMARK 465 2 ASN A 9 REMARK 465 2 PRO A 10 REMARK 465 2 GLY A 11 REMARK 465 2 GLU A 12 REMARK 465 2 SER A 13 REMARK 465 3 SER A 1 REMARK 465 3 ASN A 2 REMARK 465 3 GLN A 3 REMARK 465 3 LEU A 4 REMARK 465 3 GLN A 5 REMARK 465 3 GLN A 6 REMARK 465 3 LEU A 7 REMARK 465 3 GLN A 8 REMARK 465 3 ASN A 9 REMARK 465 3 PRO A 10 REMARK 465 3 GLY A 11 REMARK 465 3 GLU A 12 REMARK 465 3 SER A 13 REMARK 465 4 SER A 1 REMARK 465 4 ASN A 2 REMARK 465 4 GLN A 3 REMARK 465 4 LEU A 4 REMARK 465 4 GLN A 5 REMARK 465 4 GLN A 6 REMARK 465 4 LEU A 7 REMARK 465 4 GLN A 8 REMARK 465 4 ASN A 9 REMARK 465 4 PRO A 10 REMARK 465 4 GLY A 11 REMARK 465 4 GLU A 12 REMARK 465 4 SER A 13 REMARK 465 5 SER A 1 REMARK 465 5 ASN A 2 REMARK 465 5 GLN A 3 REMARK 465 5 LEU A 4 REMARK 465 5 GLN A 5 REMARK 465 5 GLN A 6 REMARK 465 5 LEU A 7 REMARK 465 5 GLN A 8 REMARK 465 5 ASN A 9 REMARK 465 5 PRO A 10 REMARK 465 5 GLY A 11 REMARK 465 5 GLU A 12 REMARK 465 5 SER A 13 REMARK 465 6 SER A 1 REMARK 465 6 ASN A 2 REMARK 465 6 GLN A 3 REMARK 465 6 LEU A 4 REMARK 465 6 GLN A 5 REMARK 465 6 GLN A 6 REMARK 465 6 LEU A 7 REMARK 465 6 GLN A 8 REMARK 465 6 ASN A 9 REMARK 465 6 PRO A 10 REMARK 465 6 GLY A 11 REMARK 465 6 GLU A 12 REMARK 465 6 SER A 13 REMARK 465 7 SER A 1 REMARK 465 7 ASN A 2 REMARK 465 7 GLN A 3 REMARK 465 7 LEU A 4 REMARK 465 7 GLN A 5 REMARK 465 7 GLN A 6 REMARK 465 7 LEU A 7 REMARK 465 7 GLN A 8 REMARK 465 7 ASN A 9 REMARK 465 7 PRO A 10 REMARK 465 7 GLY A 11 REMARK 465 7 GLU A 12 REMARK 465 7 SER A 13 REMARK 465 8 SER A 1 REMARK 465 8 ASN A 2 REMARK 465 8 GLN A 3 REMARK 465 8 LEU A 4 REMARK 465 8 GLN A 5 REMARK 465 8 GLN A 6 REMARK 465 8 LEU A 7 REMARK 465 8 GLN A 8 REMARK 465 8 ASN A 9 REMARK 465 8 PRO A 10 REMARK 465 8 GLY A 11 REMARK 465 8 GLU A 12 REMARK 465 8 SER A 13 REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND LENGTHS 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,2(A3,1X,A1,I4,A1,1X,A4,3X),1X,F6.3) 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 RES CSSEQI ATM2 DEVIATION REMARK 500 1 PHE A 19 CZ PHE A 19 CE2 0.118 REMARK 500 1 PHE A 52 CE1 PHE A 52 CZ 0.196 REMARK 500 1 SER A 55 CA SER A 55 CB 0.118 REMARK 500 1 ILE A 60 CA ILE A 60 CB 0.142 REMARK 500 1 GLU A 102 CG GLU A 102 CD 0.124 REMARK 500 1 GLU A 102 CD GLU A 102 OE1 0.072 REMARK 500 1 SER A 132 CA SER A 132 CB 0.187 REMARK 500 1 SER A 132 CB SER A 132 OG 0.092 REMARK 500 1 SER A 143 CB SER A 143 OG 0.124 REMARK 500 1 TYR A 144 CE2 TYR A 144 CD2 0.093 REMARK 500 1 THR A 151 C THR A 151 O 0.120 REMARK 500 2 PRO A 18 CG PRO A 18 CD 0.211 REMARK 500 2 VAL A 20 CB VAL A 20 CG1 0.150 REMARK 500 2 VAL A 20 CB VAL A 20 CG2 0.154 REMARK 500 2 TYR A 25 CE1 TYR A 25 CZ 0.096 REMARK 500 2 ARG A 31 CG ARG A 31 CD 0.179 REMARK 500 2 PHE A 52 CE1 PHE A 52 CZ 0.147 REMARK 500 2 ALA A 61 CA ALA A 61 CB 0.158 REMARK 500 2 TYR A 62 CE1 TYR A 62 CZ 0.087 REMARK 500 2 GLU A 78 CD GLU A 78 OE2 -0.074 REMARK 500 2 GLU A 102 CG GLU A 102 CD 0.110 REMARK 500 2 GLN A 113 CG GLN A 113 CD 0.142 REMARK 500 2 SER A 132 CA SER A 132 CB 0.128 REMARK 500 2 TYR A 144 CZ TYR A 144 CE2 0.090 REMARK 500 2 VAL A 145 CB VAL A 145 CG2 0.168 REMARK 500 2 MSE A 148 CG MSE A 148 SE 0.232 REMARK 500 2 ALA A 161 CA ALA A 161 CB 0.148 REMARK 500 3 GLN A 33 CA GLN A 33 CB 0.140 REMARK 500 3 GLU A 35 CG GLU A 35 CD 0.115 REMARK 500 3 TYR A 46 CG TYR A 46 CD1 0.083 REMARK 500 3 TYR A 46 CZ TYR A 46 CE2 0.080 REMARK 500 3 GLU A 48 CD GLU A 48 OE1 -0.074 REMARK 500 3 ALA A 77 CA ALA A 77 CB 0.141 REMARK 500 3 TYR A 81 CG TYR A 81 CD1 0.080 REMARK 500 3 TYR A 81 CE2 TYR A 81 CD2 0.138 REMARK 500 3 GLU A 91 CD GLU A 91 OE2 0.075 REMARK 500 3 VAL A 101 CB VAL A 101 CG1 0.191 REMARK 500 3 GLU A 102 CG GLU A 102 CD 0.096 REMARK 500 3 GLU A 102 CD GLU A 102 OE1 0.067 REMARK 500 3 TYR A 108 CG TYR A 108 CD1 0.095 REMARK 500 3 TYR A 108 CE2 TYR A 108 CD2 0.153 REMARK 500 3 GLU A 136 CB GLU A 136 CG 0.120 REMARK 500 3 TYR A 144 CD1 TYR A 144 CE1 0.168 REMARK 500 3 TYR A 144 CE1 TYR A 144 CZ 0.096 REMARK 500 3 TYR A 144 CE2 TYR A 144 CD2 -0.117 REMARK 500 3 MSE A 148 CG MSE A 148 SE -0.231 REMARK 500 4 ILE A 50 CB ILE A 50 CG2 0.204 REMARK 500 4 PHE A 52 CE1 PHE A 52 CZ 0.127 REMARK 500 4 ALA A 77 CA ALA A 77 CB 0.149 REMARK 500 4 SER A 97 CA SER A 97 CB 0.104 REMARK 500 REMARK 500 THIS ENTRY HAS 105 BOND DEVIATIONS. REMARK 500 REMARK 500 REMARK: NULL 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 PHE A 19 CB - CG - CD2 ANGL. DEV. = -6.2 DEGREES REMARK 500 1 PHE A 19 CB - CG - CD1 ANGL. DEV. = 7.1 DEGREES REMARK 500 1 PRO A 42 C - N - CA ANGL. DEV. = 10.9 DEGREES REMARK 500 1 PRO A 42 C - N - CD ANGL. DEV. = -13.7 DEGREES REMARK 500 1 PHE A 52 CB - CG - CD2 ANGL. DEV. = 4.8 DEGREES REMARK 500 1 ARG A 85 NE - CZ - NH1 ANGL. DEV. = 3.8 DEGREES REMARK 500 1 ARG A 85 NE - CZ - NH2 ANGL. DEV. = -3.1 DEGREES REMARK 500 1 ASP A 87 CB - CG - OD2 ANGL. DEV. = 5.8 DEGREES REMARK 500 1 THR A 151 N - CA - CB ANGL. DEV. = 13.3 DEGREES REMARK 500 1 THR A 151 OG1 - CB - CG2 ANGL. DEV. = -14.8 DEGREES REMARK 500 1 LYS A 165 CD - CE - NZ ANGL. DEV. = -14.1 DEGREES REMARK 500 2 VAL A 20 CG1 - CB - CG2 ANGL. DEV. = -18.0 DEGREES REMARK 500 2 LEU A 27 CB - CG - CD1 ANGL. DEV. = 10.8 DEGREES REMARK 500 2 ARG A 31 NE - CZ - NH1 ANGL. DEV. = 4.9 DEGREES REMARK 500 2 ARG A 31 NE - CZ - NH2 ANGL. DEV. = -7.1 DEGREES REMARK 500 2 LYS A 65 CG - CD - CE ANGL. DEV. = -19.7 DEGREES REMARK 500 2 MSE A 75 CG - SE - CE ANGL. DEV. = 20.3 DEGREES REMARK 500 2 ARG A 85 NE - CZ - NH1 ANGL. DEV. = 7.0 DEGREES REMARK 500 2 ARG A 85 NE - CZ - NH2 ANGL. DEV. = -4.7 DEGREES REMARK 500 2 LYS A 105 CD - CE - NZ ANGL. DEV. = 25.1 DEGREES REMARK 500 2 ARG A 133 NE - CZ - NH1 ANGL. DEV. = 8.5 DEGREES REMARK 500 2 ARG A 133 NE - CZ - NH2 ANGL. DEV. = -5.9 DEGREES REMARK 500 3 GLU A 35 OE1 - CD - OE2 ANGL. DEV. = -9.7 DEGREES REMARK 500 3 TYR A 81 CB - CG - CD2 ANGL. DEV. = -6.0 DEGREES REMARK 500 3 TYR A 81 CG - CD2 - CE2 ANGL. DEV. = -6.7 DEGREES REMARK 500 3 ARG A 83 NE - CZ - NH2 ANGL. DEV. = -3.4 DEGREES REMARK 500 3 ARG A 85 NE - CZ - NH1 ANGL. DEV. = 5.7 DEGREES REMARK 500 3 ARG A 85 NE - CZ - NH2 ANGL. DEV. = -5.0 DEGREES REMARK 500 3 VAL A 92 CG1 - CB - CG2 ANGL. DEV. = -10.6 DEGREES REMARK 500 3 LEU A 121 CA - CB - CG ANGL. DEV. = 16.1 DEGREES REMARK 500 3 LEU A 121 CB - CG - CD1 ANGL. DEV. = -10.6 DEGREES REMARK 500 3 ARG A 133 NE - CZ - NH2 ANGL. DEV. = 4.8 DEGREES REMARK 500 3 TYR A 144 CB - CG - CD2 ANGL. DEV. = -4.3 DEGREES REMARK 500 3 TYR A 144 CB - CG - CD1 ANGL. DEV. = 5.0 DEGREES REMARK 500 3 TYR A 144 CG - CD2 - CE2 ANGL. DEV. = 8.1 DEGREES REMARK 500 4 ARG A 31 NE - CZ - NH2 ANGL. DEV. = -3.3 DEGREES REMARK 500 4 ILE A 50 CG1 - CB - CG2 ANGL. DEV. = 13.9 DEGREES REMARK 500 4 ARG A 83 NE - CZ - NH1 ANGL. DEV. = -3.1 DEGREES REMARK 500 4 ARG A 83 NE - CZ - NH2 ANGL. DEV. = 3.0 DEGREES REMARK 500 4 ARG A 85 NE - CZ - NH1 ANGL. DEV. = 5.7 DEGREES REMARK 500 4 ARG A 85 NE - CZ - NH2 ANGL. DEV. = -5.0 DEGREES REMARK 500 4 GLU A 91 OE1 - CD - OE2 ANGL. DEV. = -8.2 DEGREES REMARK 500 4 SER A 97 CA - CB - OG ANGL. DEV. = -16.8 DEGREES REMARK 500 4 ARG A 133 NE - CZ - NH1 ANGL. DEV. = 3.8 DEGREES REMARK 500 4 ARG A 147 NE - CZ - NH2 ANGL. DEV. = -3.2 DEGREES REMARK 500 4 MSE A 148 CA - CB - CG ANGL. DEV. = 10.3 DEGREES REMARK 500 4 MSE A 148 CB - CG - SE ANGL. DEV. = -27.4 DEGREES REMARK 500 4 LEU A 166 CB - CG - CD1 ANGL. DEV. = -10.3 DEGREES REMARK 500 4 LEU A 166 CB - CG - CD2 ANGL. DEV. = 12.8 DEGREES REMARK 500 5 ARG A 31 NE - CZ - NH1 ANGL. DEV. = -4.1 DEGREES REMARK 500 REMARK 500 THIS ENTRY HAS 102 ANGLE DEVIATIONS. 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 PRO A 58 40.36 -97.44 REMARK 500 1 MSE A 75 -84.19 -115.14 REMARK 500 1 LYS A 127 25.48 -146.81 REMARK 500 1 LYS A 129 -70.18 -104.64 REMARK 500 2 TYR A 25 2.88 -66.04 REMARK 500 2 TYR A 38 135.46 174.43 REMARK 500 2 PRO A 39 -54.87 -25.36 REMARK 500 2 GLU A 70 -4.17 -56.68 REMARK 500 2 SER A 71 -25.79 -146.65 REMARK 500 2 MSE A 75 -89.20 -113.17 REMARK 500 2 ILE A 90 136.65 -175.98 REMARK 500 2 LYS A 127 -40.94 -140.03 REMARK 500 2 HIS A 158 -60.12 -129.93 REMARK 500 3 TYR A 38 149.43 171.25 REMARK 500 3 LYS A 127 -43.94 -139.41 REMARK 500 3 LYS A 129 -87.89 -86.16 REMARK 500 3 THR A 151 -33.22 -31.40 REMARK 500 3 HIS A 158 -64.01 -131.44 REMARK 500 4 THR A 40 -80.69 -84.61 REMARK 500 4 PRO A 58 44.91 -76.62 REMARK 500 4 GLU A 70 57.82 -97.34 REMARK 500 4 SER A 71 -21.07 156.89 REMARK 500 4 MSE A 75 -83.49 -115.96 REMARK 500 4 LYS A 127 -4.71 -141.38 REMARK 500 4 HIS A 158 -57.25 -125.06 REMARK 500 5 PRO A 39 -16.26 -49.85 REMARK 500 5 PRO A 58 49.90 -77.58 REMARK 500 5 MSE A 75 -80.39 -125.67 REMARK 500 5 HIS A 158 -51.66 -132.25 REMARK 500 6 TYR A 38 149.67 176.65 REMARK 500 6 PRO A 58 46.33 -77.44 REMARK 500 6 MSE A 75 -73.17 -119.44 REMARK 500 6 ASN A 153 96.17 -165.92 REMARK 500 6 HIS A 158 -38.70 -135.14 REMARK 500 7 VAL A 59 138.12 -173.33 REMARK 500 7 SER A 71 -19.01 -163.17 REMARK 500 7 MSE A 75 -69.60 -122.30 REMARK 500 7 LEU A 155 122.65 -36.69 REMARK 500 7 HIS A 158 -59.15 -132.03 REMARK 500 8 PRO A 58 38.71 -82.77 REMARK 500 8 SER A 71 -18.68 176.89 REMARK 500 8 MSE A 75 -112.47 -103.52 REMARK 500 8 LYS A 127 -50.66 -134.76 REMARK 500 8 HIS A 158 -43.29 -131.15 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 38 0.10 SIDE CHAIN REMARK 500 3 TYR A 46 0.10 SIDE CHAIN REMARK 500 3 TYR A 62 0.07 SIDE CHAIN REMARK 500 3 TYR A 81 0.12 SIDE CHAIN REMARK 500 4 TYR A 46 0.07 SIDE CHAIN REMARK 500 4 TYR A 81 0.09 SIDE CHAIN REMARK 500 5 TYR A 81 0.10 SIDE CHAIN REMARK 500 5 TYR A 144 0.14 SIDE CHAIN REMARK 500 6 PHE A 19 0.08 SIDE CHAIN REMARK 500 7 TYR A 81 0.06 SIDE CHAIN REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: MAIN CHAIN PLANARITY REMARK 500 REMARK 500 THE FOLLOWING RESIDUES HAVE A PSEUDO PLANARITY REMARK 500 TORSION ANGLE, C(I) - CA(I) - N(I+1) - O(I), GREATER REMARK 500 10.0 DEGREES. (M=MODEL NUMBER; RES=RESIDUE NAME; REMARK 500 C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 500 I=INSERTION CODE). REMARK 500 REMARK 500 M RES CSSEQI ANGLE REMARK 500 1 THR A 151 -10.87 REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: GO.6462 RELATED DB: TARGETDB REMARK 900 RELATED ID: 2A13 RELATED DB: PDB REMARK 900 ORIGINAL REFINEMENT BASED ON SAME DATA AND R-FREE SET. DBREF 2Q4N A 2 166 UNP O64527 Y1926_ARATH 2 166 SEQADV 2Q4N SER A 1 UNP O64527 EXPRESSION TAG SEQADV 2Q4N MSE A 75 UNP O64527 MET 75 MODIFIED RESIDUE SEQADV 2Q4N MSE A 148 UNP O64527 MET 148 MODIFIED RESIDUE SEQRES 1 A 166 SER ASN GLN LEU GLN GLN LEU GLN ASN PRO GLY GLU SER SEQRES 2 A 166 PRO PRO VAL HIS PRO PHE VAL ALA PRO LEU SER TYR LEU SEQRES 3 A 166 LEU GLY THR TRP ARG GLY GLN GLY GLU GLY GLU TYR PRO SEQRES 4 A 166 THR ILE PRO SER PHE ARG TYR GLY GLU GLU ILE ARG PHE SEQRES 5 A 166 SER HIS SER GLY LYS PRO VAL ILE ALA TYR THR GLN LYS SEQRES 6 A 166 THR TRP LYS LEU GLU SER GLY ALA PRO MSE HIS ALA GLU SEQRES 7 A 166 SER GLY TYR PHE ARG PRO ARG PRO ASP GLY SER ILE GLU SEQRES 8 A 166 VAL VAL ILE ALA GLN SER THR GLY LEU VAL GLU VAL GLN SEQRES 9 A 166 LYS GLY THR TYR ASN VAL ASP GLU GLN SER ILE LYS LEU SEQRES 10 A 166 LYS SER ASP LEU VAL GLY ASN ALA SER LYS VAL LYS GLU SEQRES 11 A 166 ILE SER ARG GLU PHE GLU LEU VAL ASP GLY LYS LEU SER SEQRES 12 A 166 TYR VAL VAL ARG MSE SER THR THR THR ASN PRO LEU GLN SEQRES 13 A 166 PRO HIS LEU LYS ALA ILE LEU ASP LYS LEU MODRES 2Q4N MSE A 75 MET SELENOMETHIONINE MODRES 2Q4N MSE A 148 MET SELENOMETHIONINE HET MSE A 75 8 HET MSE A 148 8 HETNAM MSE SELENOMETHIONINE FORMUL 1 MSE 2(C5 H11 N O2 SE) FORMUL 2 HOH *329(H2 O) HELIX 1 1 VAL A 20 LEU A 27 5 8 SHEET 1 A11 GLY A 28 TYR A 38 0 SHEET 2 A11 ILE A 41 SER A 53 -1 O TYR A 46 N GLY A 34 SHEET 3 A11 ILE A 60 TRP A 67 -1 O ALA A 61 N SER A 53 SHEET 4 A11 PRO A 74 PRO A 84 -1 O GLU A 78 N GLN A 64 SHEET 5 A11 SER A 89 GLN A 96 -1 O VAL A 93 N TYR A 81 SHEET 6 A11 VAL A 101 ASN A 109 -1 O GLY A 106 N ILE A 90 SHEET 7 A11 SER A 114 GLY A 123 -1 O LYS A 118 N LYS A 105 SHEET 8 A11 VAL A 128 VAL A 138 -1 O PHE A 135 N ILE A 115 SHEET 9 A11 LYS A 141 THR A 150 -1 O LYS A 141 N VAL A 138 SHEET 10 A11 GLN A 156 LYS A 165 -1 O LEU A 163 N LEU A 142 SHEET 11 A11 GLY A 28 TYR A 38 -1 N GLU A 37 O HIS A 158 LINK C PRO A 74 N MSE A 75 1555 1555 1.35 LINK C MSE A 75 N HIS A 76 1555 1555 1.35 LINK C ARG A 147 N MSE A 148 1555 1555 1.35 LINK C MSE A 148 N SER A 149 1555 1555 1.34 CRYST1 60.056 80.026 36.886 90.00 90.00 90.00 P 21 21 2 4 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 0.016651 0.000000 0.000000 0.00000 SCALE2 0.000000 0.012496 0.000000 0.00000 SCALE3 0.000000 0.000000 0.027111 0.00000 MODEL 1