HEADER SIGNALING PROTEIN 31-MAY-07 2Q4F TITLE ENSEMBLE REFINEMENT OF THE CRYSTAL STRUCTURE OF PUTATIVE HISTIDINE- TITLE 2 CONTAINING PHOSPHOTRANSFER PROTEIN FROM RICE, AK104879 COMPND MOL_ID: 1; COMPND 2 MOLECULE: HISTIDINE-CONTAINING PHOSPHOTRANSFER PROTEIN 1; COMPND 3 CHAIN: A, B; COMPND 4 SYNONYM: OSHP1; COMPND 5 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: ORYZA SATIVA; SOURCE 3 ORGANISM_COMMON: RICE; SOURCE 4 ORGANISM_TAXID: 4530; SOURCE 5 STRAIN: CV. JAPONICA; SOURCE 6 GENE: HP1, AK104879, OS09G0567400, LOC_OS09G39400, OJ1155_H10.30; SOURCE 7 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 8 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 9 EXPRESSION_SYSTEM_STRAIN: B834(DE3) P(LACI+RARE); SOURCE 10 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 11 EXPRESSION_SYSTEM_PLASMID: PVP-13 KEYWDS ENSEMBLE REFINEMENT, REFINEMENT METHODOLOGY DEVELOPMENT, AK104879, KEYWDS 2 PHOSPHORELAY MEDIATOR, HP1, STRUCTURAL GENOMICS, PROTEIN STRUCTURE KEYWDS 3 INITIATIVE, PSI, CENTER FOR EUKARYOTIC STRUCTURAL GENOMICS, CESG, KEYWDS 4 SIGNALING PROTEIN 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 5 30-AUG-23 2Q4F 1 SEQADV REVDAT 4 10-AUG-11 2Q4F 1 REMARK REVDAT 3 24-FEB-09 2Q4F 1 VERSN REVDAT 2 02-OCT-07 2Q4F 1 JRNL REVDAT 1 19-JUN-07 2Q4F 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. 2.00 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) : 2.00 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 37.77 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 DATA CUTOFF HIGH (ABS(F)) : 2337234.500 REMARK 3 DATA CUTOFF LOW (ABS(F)) : 0.0000 REMARK 3 COMPLETENESS (WORKING+TEST) (%) : 99.0 REMARK 3 NUMBER OF REFLECTIONS : 24416 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) : 0.145 REMARK 3 FREE R VALUE : 0.222 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 1248 REMARK 3 ESTIMATED ERROR OF FREE R VALUE : 0.006 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) : 2.00 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.13 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 99.50 REMARK 3 REFLECTIONS IN BIN (WORKING SET) : 3814 REMARK 3 BIN R VALUE (WORKING SET) : 0.1550 REMARK 3 BIN FREE R VALUE : 0.2570 REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : 4.90 REMARK 3 BIN FREE R VALUE TEST SET COUNT : 195 REMARK 3 ESTIMATED ERROR OF BIN FREE R VALUE : 0.018 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2181 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 0 REMARK 3 SOLVENT ATOMS : 319 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 19.60 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) : 0.15 REMARK 3 ESD FROM SIGMAA (A) : 0.06 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) : 0.25 REMARK 3 ESD FROM C-V SIGMAA (A) : 0.17 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 BOND LENGTHS (A) : 0.023 REMARK 3 BOND ANGLES (DEGREES) : 1.800 REMARK 3 DIHEDRAL ANGLES (DEGREES) : 18.30 REMARK 3 IMPROPER ANGLES (DEGREES) : 1.160 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) : 1.430 ; 1.500 REMARK 3 MAIN-CHAIN ANGLE (A**2) : 1.930 ; 2.000 REMARK 3 SIDE-CHAIN BOND (A**2) : 2.350 ; 2.000 REMARK 3 SIDE-CHAIN ANGLE (A**2) : 3.080 ; 2.500 REMARK 3 REMARK 3 BULK SOLVENT MODELING. REMARK 3 METHOD USED : FLAT MODEL REMARK 3 KSOL : 0.36 REMARK 3 BSOL : 46.66 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 1YVI AND REMARK 3 THE FIRST DATA SET IN THE DEPOSITED STRUCTURE FACTOR FILE REMARK 3 FOR 1YVI 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 2Q4F COMPLIES WITH FORMAT V. 3.15, 01-DEC-08 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 04-JUN-07. REMARK 100 THE DEPOSITION ID IS D_1000043135. 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) : N 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 : APS-1 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 1YVI REMARK 200 REMARK 200 REMARK: AUTHOR USED THE SF DATA FROM ENTRY 1YVI. REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 55.60 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.80 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: NULL REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 43 21 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,-Y,Z+1/2 REMARK 290 3555 -Y+1/2,X+1/2,Z+3/4 REMARK 290 4555 Y+1/2,-X+1/2,Z+1/4 REMARK 290 5555 -X+1/2,Y+1/2,-Z+3/4 REMARK 290 6555 X+1/2,-Y+1/2,-Z+1/4 REMARK 290 7555 Y,X,-Z REMARK 290 8555 -Y,-X,-Z+1/2 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 34.78400 REMARK 290 SMTRY1 3 0.000000 -1.000000 0.000000 50.27900 REMARK 290 SMTRY2 3 1.000000 0.000000 0.000000 50.27900 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 52.17600 REMARK 290 SMTRY1 4 0.000000 1.000000 0.000000 50.27900 REMARK 290 SMTRY2 4 -1.000000 0.000000 0.000000 50.27900 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 17.39200 REMARK 290 SMTRY1 5 -1.000000 0.000000 0.000000 50.27900 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 50.27900 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 52.17600 REMARK 290 SMTRY1 6 1.000000 0.000000 0.000000 50.27900 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 50.27900 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 17.39200 REMARK 290 SMTRY1 7 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY2 7 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 8 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY2 8 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 34.78400 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1, 2 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 350 REMARK 350 BIOMOLECULE: 2 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: MONOMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: B 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. (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 GLU A 36 REMARK 465 1 GLY A 37 REMARK 465 1 GLY A 38 REMARK 465 1 TYR A 144 REMARK 465 1 ASP A 145 REMARK 465 1 PRO A 146 REMARK 465 1 LYS A 147 REMARK 465 1 GLN A 148 REMARK 465 1 GLN A 149 REMARK 465 1 SER B 1 REMARK 465 1 ALA B 2 REMARK 465 1 GLU B 36 REMARK 465 1 GLY B 37 REMARK 465 1 GLY B 38 REMARK 465 1 THR B 39 REMARK 465 1 ALA B 143 REMARK 465 1 TYR B 144 REMARK 465 1 ASP B 145 REMARK 465 1 PRO B 146 REMARK 465 1 LYS B 147 REMARK 465 1 GLN B 148 REMARK 465 1 GLN B 149 REMARK 465 2 GLU A 36 REMARK 465 2 GLY A 37 REMARK 465 2 GLY A 38 REMARK 465 2 TYR A 144 REMARK 465 2 ASP A 145 REMARK 465 2 PRO A 146 REMARK 465 2 LYS A 147 REMARK 465 2 GLN A 148 REMARK 465 2 GLN A 149 REMARK 465 2 SER B 1 REMARK 465 2 ALA B 2 REMARK 465 2 GLU B 36 REMARK 465 2 GLY B 37 REMARK 465 2 GLY B 38 REMARK 465 2 THR B 39 REMARK 465 2 ALA B 143 REMARK 465 2 TYR B 144 REMARK 465 2 ASP B 145 REMARK 465 2 PRO B 146 REMARK 465 2 LYS B 147 REMARK 465 2 GLN B 148 REMARK 465 2 GLN B 149 REMARK 465 3 GLU A 36 REMARK 465 3 GLY A 37 REMARK 465 3 GLY A 38 REMARK 465 3 TYR A 144 REMARK 465 3 ASP A 145 REMARK 465 3 PRO A 146 REMARK 465 3 LYS A 147 REMARK 465 3 GLN A 148 REMARK 465 3 GLN A 149 REMARK 465 3 SER B 1 REMARK 465 3 ALA B 2 REMARK 465 3 GLU B 36 REMARK 465 3 GLY B 37 REMARK 465 3 GLY B 38 REMARK 465 3 THR B 39 REMARK 465 3 ALA B 143 REMARK 465 3 TYR B 144 REMARK 465 3 ASP B 145 REMARK 465 3 PRO B 146 REMARK 465 3 LYS B 147 REMARK 465 3 GLN B 148 REMARK 465 3 GLN B 149 REMARK 465 4 GLU A 36 REMARK 465 4 GLY A 37 REMARK 465 4 GLY A 38 REMARK 465 4 TYR A 144 REMARK 465 4 ASP A 145 REMARK 465 4 PRO A 146 REMARK 465 4 LYS A 147 REMARK 465 4 GLN A 148 REMARK 465 4 GLN A 149 REMARK 465 4 SER B 1 REMARK 465 4 ALA B 2 REMARK 465 4 GLU B 36 REMARK 465 4 GLY B 37 REMARK 465 4 GLY B 38 REMARK 465 4 THR B 39 REMARK 465 4 ALA B 143 REMARK 465 4 TYR B 144 REMARK 465 4 ASP B 145 REMARK 465 4 PRO B 146 REMARK 465 4 LYS B 147 REMARK 465 4 GLN B 148 REMARK 465 4 GLN B 149 REMARK 465 5 GLU A 36 REMARK 465 5 GLY A 37 REMARK 465 5 GLY A 38 REMARK 465 5 TYR A 144 REMARK 465 5 ASP A 145 REMARK 465 5 PRO A 146 REMARK 465 5 LYS A 147 REMARK 465 5 GLN A 148 REMARK 465 5 GLN A 149 REMARK 465 5 SER B 1 REMARK 465 5 ALA B 2 REMARK 465 5 GLU B 36 REMARK 465 5 GLY B 37 REMARK 465 5 GLY B 38 REMARK 465 5 THR B 39 REMARK 465 5 ALA B 143 REMARK 465 5 TYR B 144 REMARK 465 5 ASP B 145 REMARK 465 5 PRO B 146 REMARK 465 5 LYS B 147 REMARK 465 5 GLN B 148 REMARK 465 5 GLN B 149 REMARK 465 6 GLU A 36 REMARK 465 6 GLY A 37 REMARK 465 6 GLY A 38 REMARK 465 6 TYR A 144 REMARK 465 6 ASP A 145 REMARK 465 6 PRO A 146 REMARK 465 6 LYS A 147 REMARK 465 6 GLN A 148 REMARK 465 6 GLN A 149 REMARK 465 6 SER B 1 REMARK 465 6 ALA B 2 REMARK 465 6 GLU B 36 REMARK 465 6 GLY B 37 REMARK 465 6 GLY B 38 REMARK 465 6 THR B 39 REMARK 465 6 ALA B 143 REMARK 465 6 TYR B 144 REMARK 465 6 ASP B 145 REMARK 465 6 PRO B 146 REMARK 465 6 LYS B 147 REMARK 465 6 GLN B 148 REMARK 465 6 GLN B 149 REMARK 465 7 GLU A 36 REMARK 465 7 GLY A 37 REMARK 465 7 GLY A 38 REMARK 465 7 TYR A 144 REMARK 465 7 ASP A 145 REMARK 465 7 PRO A 146 REMARK 465 7 LYS A 147 REMARK 465 7 GLN A 148 REMARK 465 7 GLN A 149 REMARK 465 7 SER B 1 REMARK 465 7 ALA B 2 REMARK 465 7 GLU B 36 REMARK 465 7 GLY B 37 REMARK 465 7 GLY B 38 REMARK 465 7 THR B 39 REMARK 465 7 ALA B 143 REMARK 465 7 TYR B 144 REMARK 465 7 ASP B 145 REMARK 465 7 PRO B 146 REMARK 465 7 LYS B 147 REMARK 465 7 GLN B 148 REMARK 465 7 GLN B 149 REMARK 465 8 GLU A 36 REMARK 465 8 GLY A 37 REMARK 465 8 GLY A 38 REMARK 465 8 TYR A 144 REMARK 465 8 ASP A 145 REMARK 465 8 PRO A 146 REMARK 465 8 LYS A 147 REMARK 465 8 GLN A 148 REMARK 465 8 GLN A 149 REMARK 465 8 SER B 1 REMARK 465 8 ALA B 2 REMARK 465 8 GLU B 36 REMARK 465 8 GLY B 37 REMARK 465 8 GLY B 38 REMARK 465 8 THR B 39 REMARK 465 8 ALA B 143 REMARK 465 8 TYR B 144 REMARK 465 8 ASP B 145 REMARK 465 8 PRO B 146 REMARK 465 8 LYS B 147 REMARK 465 8 GLN B 148 REMARK 465 8 GLN B 149 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 2 GLU A 45 CB GLU A 45 CG 0.116 REMARK 500 2 TYR A 125 CE2 TYR A 125 CD2 0.095 REMARK 500 3 GLU A 66 CG GLU A 66 CD 0.095 REMARK 500 3 TYR A 125 CE2 TYR A 125 CD2 0.096 REMARK 500 3 CYS B 113 CB CYS B 113 SG -0.120 REMARK 500 5 TYR A 125 CE2 TYR A 125 CD2 0.102 REMARK 500 5 CYS B 51 CB CYS B 51 SG 0.130 REMARK 500 6 TYR A 125 CE2 TYR A 125 CD2 0.103 REMARK 500 7 TYR A 125 CE2 TYR A 125 CD2 0.105 REMARK 500 8 TYR A 125 CE2 TYR A 125 CD2 0.103 REMARK 500 8 CYS B 98 CB CYS B 98 SG -0.138 REMARK 500 8 MET B 99 CG MET B 99 SD 0.162 REMARK 500 8 CYS B 113 CB CYS B 113 SG -0.146 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 ARG B 121 NE - CZ - NH2 ANGL. DEV. = -3.7 DEGREES REMARK 500 2 ARG B 121 NE - CZ - NH2 ANGL. DEV. = -3.8 DEGREES REMARK 500 3 ASP B 111 CB - CG - OD1 ANGL. DEV. = -6.8 DEGREES REMARK 500 3 ARG B 121 NE - CZ - NH2 ANGL. DEV. = -3.6 DEGREES REMARK 500 4 ARG A 56 NE - CZ - NH1 ANGL. DEV. = 3.5 DEGREES REMARK 500 4 ARG A 56 NE - CZ - NH2 ANGL. DEV. = -3.6 DEGREES REMARK 500 4 ARG A 121 NE - CZ - NH1 ANGL. DEV. = 4.9 DEGREES REMARK 500 4 ARG A 121 NE - CZ - NH2 ANGL. DEV. = -3.6 DEGREES REMARK 500 5 ARG B 56 NE - CZ - NH2 ANGL. DEV. = -3.3 DEGREES REMARK 500 5 ARG B 121 NE - CZ - NH2 ANGL. DEV. = -3.8 DEGREES REMARK 500 5 ASP B 123 CB - CG - OD2 ANGL. DEV. = -7.1 DEGREES REMARK 500 6 ASP B 52 CB - CG - OD1 ANGL. DEV. = 7.5 DEGREES REMARK 500 7 LEU A 137 CA - CB - CG ANGL. DEV. = 17.9 DEGREES REMARK 500 8 ASP A 73 CB - CG - OD1 ANGL. DEV. = 5.7 DEGREES REMARK 500 8 LEU B 33 CA - CB - CG ANGL. DEV. = 14.3 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 ALA A 2 -71.78 -136.31 REMARK 500 1 MET A 17 -60.69 -24.87 REMARK 500 1 ASP A 24 -169.36 -122.61 REMARK 500 1 ALA B 4 -79.85 -29.22 REMARK 500 1 ASP B 24 -168.41 -118.81 REMARK 500 1 GLN B 31 10.04 -63.84 REMARK 500 1 MET B 32 -44.41 -136.70 REMARK 500 1 ILE B 58 -39.40 -29.86 REMARK 500 2 ASP A 24 -148.83 -112.97 REMARK 500 2 PRO A 40 11.82 -63.05 REMARK 500 2 ASP B 24 -168.29 -124.80 REMARK 500 2 LYS B 108 50.01 72.78 REMARK 500 3 ASP A 24 -165.07 -118.33 REMARK 500 3 ARG A 56 -78.49 -54.76 REMARK 500 3 GLN A 67 159.50 -34.96 REMARK 500 3 ALA A 91 48.58 -87.13 REMARK 500 3 GLN A 92 -30.45 -38.24 REMARK 500 3 ALA B 4 -109.62 -6.66 REMARK 500 3 ALA B 5 -93.49 -20.13 REMARK 500 3 LEU B 6 -62.00 -28.57 REMARK 500 3 ARG B 7 -79.46 -52.56 REMARK 500 3 ASP B 8 -47.96 -23.38 REMARK 500 3 ASP B 24 -166.91 -127.05 REMARK 500 4 PHE A 124 -77.22 -56.03 REMARK 500 4 MET A 134 -70.72 -77.50 REMARK 500 4 ASP B 24 -159.43 -72.05 REMARK 500 4 ALA B 91 74.91 -68.18 REMARK 500 4 ASP B 107 4.40 -67.85 REMARK 500 5 ASP A 24 -169.52 -116.07 REMARK 500 5 PRO A 40 -77.03 -67.23 REMARK 500 5 VAL A 120 2.63 -69.53 REMARK 500 5 ASN A 129 -71.20 -53.20 REMARK 500 5 PHE B 18 -86.68 -64.03 REMARK 500 5 SER B 19 -25.91 -31.68 REMARK 500 5 LEU B 33 34.76 -77.23 REMARK 500 5 GLN B 34 11.30 -140.76 REMARK 500 5 ASP B 53 -77.20 -60.83 REMARK 500 5 ALA B 91 48.32 -80.60 REMARK 500 5 GLN B 92 -75.17 -14.59 REMARK 500 5 GLN B 103 -38.43 -37.28 REMARK 500 5 ILE B 141 24.05 -65.29 REMARK 500 6 LEU A 64 -78.75 -59.23 REMARK 500 6 LEU A 65 -1.82 -34.96 REMARK 500 6 ALA A 91 70.37 -112.79 REMARK 500 6 GLN A 142 61.38 -68.80 REMARK 500 6 ALA B 4 -78.43 -25.80 REMARK 500 6 SER B 19 8.89 -64.75 REMARK 500 6 ASP B 24 -155.46 -154.54 REMARK 500 6 GLU B 25 -35.67 -39.41 REMARK 500 7 ASP A 24 -167.59 -108.32 REMARK 500 REMARK 500 THIS ENTRY HAS 60 RAMACHANDRAN OUTLIERS. REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: GO.33957 RELATED DB: TARGETDB REMARK 900 RELATED ID: 1YVI RELATED DB: PDB REMARK 900 ORIGINAL REFINEMENT BASED ON SAME DATA AND R-FREE SET. DBREF 2Q4F A 2 149 UNP Q6VAK4 HP1_ORYSJ 2 149 DBREF 2Q4F B 2 149 UNP Q6VAK4 HP1_ORYSJ 2 149 SEQADV 2Q4F SER A 1 UNP Q6VAK4 EXPRESSION TAG SEQADV 2Q4F SER B 1 UNP Q6VAK4 EXPRESSION TAG SEQRES 1 A 149 SER ALA ALA ALA ALA LEU ARG ASP GLN LEU THR ALA LEU SEQRES 2 A 149 LEU SER SER MET PHE SER GLN GLY LEU VAL ASP GLU GLN SEQRES 3 A 149 PHE GLN GLN LEU GLN MET LEU GLN ASP GLU GLY GLY THR SEQRES 4 A 149 PRO GLY PHE VAL SER GLU VAL VAL THR LEU PHE CYS ASP SEQRES 5 A 149 ASP ALA ASP ARG ILE ILE ASN GLU ILE ALA THR LEU LEU SEQRES 6 A 149 GLU GLN PRO VAL VAL ASN PHE ASP LYS VAL ASP ALA TYR SEQRES 7 A 149 VAL HIS GLN LEU LYS GLY SER SER ALA SER VAL GLY ALA SEQRES 8 A 149 GLN LYS VAL LYS PHE THR CYS MET GLN PHE ARG GLN PHE SEQRES 9 A 149 CYS GLN ASP LYS SER ARG ASP GLY CYS LEU MET ALA LEU SEQRES 10 A 149 ALA VAL VAL ARG ASN ASP PHE TYR ASP LEU ARG ASN LYS SEQRES 11 A 149 PHE GLN THR MET LEU GLN LEU GLU GLN GLN ILE GLN ALA SEQRES 12 A 149 TYR ASP PRO LYS GLN GLN SEQRES 1 B 149 SER ALA ALA ALA ALA LEU ARG ASP GLN LEU THR ALA LEU SEQRES 2 B 149 LEU SER SER MET PHE SER GLN GLY LEU VAL ASP GLU GLN SEQRES 3 B 149 PHE GLN GLN LEU GLN MET LEU GLN ASP GLU GLY GLY THR SEQRES 4 B 149 PRO GLY PHE VAL SER GLU VAL VAL THR LEU PHE CYS ASP SEQRES 5 B 149 ASP ALA ASP ARG ILE ILE ASN GLU ILE ALA THR LEU LEU SEQRES 6 B 149 GLU GLN PRO VAL VAL ASN PHE ASP LYS VAL ASP ALA TYR SEQRES 7 B 149 VAL HIS GLN LEU LYS GLY SER SER ALA SER VAL GLY ALA SEQRES 8 B 149 GLN LYS VAL LYS PHE THR CYS MET GLN PHE ARG GLN PHE SEQRES 9 B 149 CYS GLN ASP LYS SER ARG ASP GLY CYS LEU MET ALA LEU SEQRES 10 B 149 ALA VAL VAL ARG ASN ASP PHE TYR ASP LEU ARG ASN LYS SEQRES 11 B 149 PHE GLN THR MET LEU GLN LEU GLU GLN GLN ILE GLN ALA SEQRES 12 B 149 TYR ASP PRO LYS GLN GLN FORMUL 3 HOH *319(H2 O) HELIX 1 1 ALA A 2 GLN A 20 1 19 HELIX 2 2 ASP A 24 ASP A 35 1 12 HELIX 3 3 GLY A 41 GLU A 66 1 26 HELIX 4 4 ASN A 71 GLY A 90 1 20 HELIX 5 5 ALA A 91 ASP A 107 1 17 HELIX 6 6 SER A 109 GLN A 140 1 32 HELIX 7 7 ILE A 141 ALA A 143 5 3 HELIX 8 8 ALA B 3 GLN B 20 1 18 HELIX 9 9 ASP B 24 GLN B 34 1 11 HELIX 10 10 GLY B 41 LEU B 65 1 25 HELIX 11 11 ASN B 71 SER B 88 1 18 HELIX 12 12 ALA B 91 ASP B 107 1 17 HELIX 13 13 SER B 109 GLN B 142 1 34 CRYST1 100.558 100.558 69.568 90.00 90.00 90.00 P 43 21 2 16 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 0.009945 0.000000 0.000000 0.00000 SCALE2 0.000000 0.009945 0.000000 0.00000 SCALE3 0.000000 0.000000 0.014374 0.00000 MODEL 1