HEADER RIBOSOME 08-NOV-99 1DD4 TITLE CRYSTAL STRUCTURE OF RIBOSOMAL PROTEIN L12 FROM THERMOTOGA MARITIM COMPND MOL_ID: 1; COMPND 2 MOLECULE: 50S RIBOSOMAL PROTEIN L7/L12; COMPND 3 CHAIN: A, B; COMPND 4 MOL_ID: 2; COMPND 5 MOLECULE: 50S RIBOSOMAL PROTEIN L7/L12; COMPND 6 CHAIN: C, D SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: THERMOTOGA MARITIMA; SOURCE 3 ORGANISM_TAXID: 2336; SOURCE 4 MOL_ID: 2; SOURCE 5 ORGANISM_SCIENTIFIC: THERMOTOGA MARITIMA; SOURCE 6 ORGANISM_TAXID: 2336 KEYWDS DIMER FORMATION, FLEXIBILITY, HINGE REGION, FOUR-HELIX-BUNDLE, FIVE- KEYWDS 2 HELIX- BUNDLE, ALPHA-BETA STRUCTURE, HELICAL HAIRPIN, DOMAINS, KEYWDS 3 RIBOSOME EXPDTA X-RAY DIFFRACTION AUTHOR M.C.WAHL,G.P.BOURENKOV,H.D.BARTUNIK,R.HUBER REVDAT 5 22-MAY-24 1DD4 1 REMARK REVDAT 4 08-FEB-23 1DD4 1 REMARK REVDAT 3 24-FEB-09 1DD4 1 VERSN REVDAT 2 07-MAR-06 1DD4 1 JRNL REMARK DBREF MASTER REVDAT 1 13-NOV-00 1DD4 0 JRNL AUTH M.C.WAHL,G.P.BOURENKOV,H.D.BARTUNIK,R.HUBER JRNL TITL FLEXIBILITY, CONFORMATIONAL DIVERSITY AND TWO DIMERIZATION JRNL TITL 2 MODES IN COMPLEXES OF RIBOSOMAL PROTEIN L12. JRNL REF EMBO J. V. 19 174 2000 JRNL REFN ISSN 0261-4189 JRNL PMID 10637222 JRNL DOI 10.1093/EMBOJ/19.2.174 REMARK 2 REMARK 2 RESOLUTION. 2.40 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : CNS 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 : ENGH & HUBER REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.40 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 8.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : 2.000 REMARK 3 DATA CUTOFF HIGH (ABS(F)) : NULL REMARK 3 DATA CUTOFF LOW (ABS(F)) : NULL REMARK 3 COMPLETENESS (WORKING+TEST) (%) : 92.6 REMARK 3 NUMBER OF REFLECTIONS : 16993 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 CROSS-VALIDATION METHOD : NULL REMARK 3 FREE R VALUE TEST SET SELECTION : RANDOM REMARK 3 R VALUE (WORKING SET) : 0.229 REMARK 3 FREE R VALUE : 0.241 REMARK 3 FREE R VALUE TEST SET SIZE (%) : NULL REMARK 3 FREE R VALUE TEST SET COUNT : 850 REMARK 3 ESTIMATED ERROR OF FREE R VALUE : NULL REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : NULL REMARK 3 BIN RESOLUTION RANGE HIGH (A) : NULL REMARK 3 BIN RESOLUTION RANGE LOW (A) : NULL REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : NULL REMARK 3 REFLECTIONS IN BIN (WORKING SET) : NULL REMARK 3 BIN R VALUE (WORKING SET) : NULL REMARK 3 BIN FREE R VALUE : NULL REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : NULL REMARK 3 BIN FREE R VALUE TEST SET COUNT : NULL REMARK 3 ESTIMATED ERROR OF BIN FREE R VALUE : NULL REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2452 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 36 REMARK 3 SOLVENT ATOMS : 289 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : NULL REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : NULL REMARK 3 B22 (A**2) : NULL REMARK 3 B33 (A**2) : NULL REMARK 3 B12 (A**2) : NULL REMARK 3 B13 (A**2) : NULL REMARK 3 B23 (A**2) : NULL REMARK 3 REMARK 3 ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM LUZZATI PLOT (A) : NULL REMARK 3 ESD FROM SIGMAA (A) : NULL REMARK 3 LOW RESOLUTION CUTOFF (A) : NULL REMARK 3 REMARK 3 CROSS-VALIDATED ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM C-V LUZZATI PLOT (A) : NULL REMARK 3 ESD FROM C-V SIGMAA (A) : NULL REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 BOND LENGTHS (A) : 0.008 REMARK 3 BOND ANGLES (DEGREES) : 1.410 REMARK 3 DIHEDRAL ANGLES (DEGREES) : NULL REMARK 3 IMPROPER ANGLES (DEGREES) : NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL MODEL : NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. RMS SIGMA REMARK 3 MAIN-CHAIN BOND (A**2) : NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE (A**2) : NULL ; NULL REMARK 3 SIDE-CHAIN BOND (A**2) : NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE (A**2) : NULL ; NULL REMARK 3 REMARK 3 BULK SOLVENT MODELING. REMARK 3 METHOD USED : NULL REMARK 3 KSOL : NULL REMARK 3 BSOL : NULL 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 : TABR_CNS.PARAM REMARK 3 PARAMETER FILE 3 : WATER_REP.PARAM REMARK 3 PARAMETER FILE 4 : NULL REMARK 3 TOPOLOGY FILE 1 : NULL REMARK 3 TOPOLOGY FILE 2 : NULL REMARK 3 TOPOLOGY FILE 3 : NULL REMARK 3 TOPOLOGY FILE 4 : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 1DD4 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 12-NOV-99. REMARK 100 THE DEPOSITION ID IS D_1000009985. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : NULL REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 4.0 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : MPG/DESY, HAMBURG REMARK 200 BEAMLINE : BW6 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.25 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MARRESEARCH REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 19877 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.400 REMARK 200 RESOLUTION RANGE LOW (A) : 16.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 1.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 91.2 REMARK 200 DATA REDUNDANCY : 65.80 REMARK 200 R MERGE (I) : 0.05100 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 12.5000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.40 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.50 REMARK 200 COMPLETENESS FOR SHELL (%) : 93.7 REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : 0.16600 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: NULL REMARK 200 SOFTWARE USED: MLPHARE REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 65.46 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.56 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 3.23M AMMONIUM SULFATE, 0.1M CITRATE, REMARK 280 7% (V/V) POLYETHYLENE GLYCOL 200, PH 4.0, VAPOR DIFFUSION, REMARK 280 HANGING DROP, TEMPERATURE 291K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: I 21 3 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X+1/2,-Y,Z+1/2 REMARK 290 3555 -X,Y+1/2,-Z+1/2 REMARK 290 4555 X+1/2,-Y+1/2,-Z REMARK 290 5555 Z,X,Y REMARK 290 6555 Z+1/2,-X+1/2,-Y REMARK 290 7555 -Z+1/2,-X,Y+1/2 REMARK 290 8555 -Z,X+1/2,-Y+1/2 REMARK 290 9555 Y,Z,X REMARK 290 10555 -Y,Z+1/2,-X+1/2 REMARK 290 11555 Y+1/2,-Z+1/2,-X REMARK 290 12555 -Y+1/2,-Z,X+1/2 REMARK 290 13555 X+1/2,Y+1/2,Z+1/2 REMARK 290 14555 -X,-Y+1/2,Z REMARK 290 15555 -X+1/2,Y,-Z REMARK 290 16555 X,-Y,-Z+1/2 REMARK 290 17555 Z+1/2,X+1/2,Y+1/2 REMARK 290 18555 Z,-X,-Y+1/2 REMARK 290 19555 -Z,-X+1/2,Y REMARK 290 20555 -Z+1/2,X,-Y REMARK 290 21555 Y+1/2,Z+1/2,X+1/2 REMARK 290 22555 -Y+1/2,Z,-X REMARK 290 23555 Y,-Z,-X+1/2 REMARK 290 24555 -Y,-Z+1/2,X 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 72.37200 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 72.37200 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 72.37200 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 72.37200 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 72.37200 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 72.37200 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 5 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY2 5 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY1 6 0.000000 0.000000 1.000000 72.37200 REMARK 290 SMTRY2 6 -1.000000 0.000000 0.000000 72.37200 REMARK 290 SMTRY3 6 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY1 7 0.000000 0.000000 -1.000000 72.37200 REMARK 290 SMTRY2 7 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 7 0.000000 1.000000 0.000000 72.37200 REMARK 290 SMTRY1 8 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY2 8 1.000000 0.000000 0.000000 72.37200 REMARK 290 SMTRY3 8 0.000000 -1.000000 0.000000 72.37200 REMARK 290 SMTRY1 9 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY2 9 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY3 9 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY1 10 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY2 10 0.000000 0.000000 1.000000 72.37200 REMARK 290 SMTRY3 10 -1.000000 0.000000 0.000000 72.37200 REMARK 290 SMTRY1 11 0.000000 1.000000 0.000000 72.37200 REMARK 290 SMTRY2 11 0.000000 0.000000 -1.000000 72.37200 REMARK 290 SMTRY3 11 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY1 12 0.000000 -1.000000 0.000000 72.37200 REMARK 290 SMTRY2 12 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY3 12 1.000000 0.000000 0.000000 72.37200 REMARK 290 SMTRY1 13 1.000000 0.000000 0.000000 72.37200 REMARK 290 SMTRY2 13 0.000000 1.000000 0.000000 72.37200 REMARK 290 SMTRY3 13 0.000000 0.000000 1.000000 72.37200 REMARK 290 SMTRY1 14 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 14 0.000000 -1.000000 0.000000 72.37200 REMARK 290 SMTRY3 14 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 15 -1.000000 0.000000 0.000000 72.37200 REMARK 290 SMTRY2 15 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 15 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 16 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 16 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 16 0.000000 0.000000 -1.000000 72.37200 REMARK 290 SMTRY1 17 0.000000 0.000000 1.000000 72.37200 REMARK 290 SMTRY2 17 1.000000 0.000000 0.000000 72.37200 REMARK 290 SMTRY3 17 0.000000 1.000000 0.000000 72.37200 REMARK 290 SMTRY1 18 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY2 18 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 18 0.000000 -1.000000 0.000000 72.37200 REMARK 290 SMTRY1 19 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY2 19 -1.000000 0.000000 0.000000 72.37200 REMARK 290 SMTRY3 19 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY1 20 0.000000 0.000000 -1.000000 72.37200 REMARK 290 SMTRY2 20 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 20 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY1 21 0.000000 1.000000 0.000000 72.37200 REMARK 290 SMTRY2 21 0.000000 0.000000 1.000000 72.37200 REMARK 290 SMTRY3 21 1.000000 0.000000 0.000000 72.37200 REMARK 290 SMTRY1 22 0.000000 -1.000000 0.000000 72.37200 REMARK 290 SMTRY2 22 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY3 22 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY1 23 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY2 23 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY3 23 -1.000000 0.000000 0.000000 72.37200 REMARK 290 SMTRY1 24 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY2 24 0.000000 0.000000 -1.000000 72.37200 REMARK 290 SMTRY3 24 1.000000 0.000000 0.000000 0.00000 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: TETRAMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TETRAMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 10060 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 14530 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -74.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B, C, D 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 SOFTWARE DETERMINED QUATERNARY STRUCTURE: OCTAMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 24960 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 24210 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -192.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B, C, D 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 -72.37200 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 PRO C 36 REMARK 465 VAL C 37 REMARK 465 ALA C 38 REMARK 465 VAL C 39 REMARK 465 ALA C 40 REMARK 470 REMARK 470 MISSING ATOM REMARK 470 THE FOLLOWING RESIDUES HAVE MISSING ATOMS (M=MODEL NUMBER; REMARK 470 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 470 I=INSERTION CODE): REMARK 470 M RES CSSEQI ATOMS REMARK 470 THR C 32 OG1 CG2 REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS IN SAME ASYMMETRIC UNIT 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 O THR C 14 O SER C 16 2.14 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS REMARK 500 REMARK 500 THE FOLLOWING ATOMS THAT ARE RELATED BY CRYSTALLOGRAPHIC REMARK 500 SYMMETRY ARE IN CLOSE CONTACT. AN ATOM LOCATED WITHIN 0.15 REMARK 500 ANGSTROMS OF A SYMMETRY RELATED ATOM IS ASSUMED TO BE ON A REMARK 500 SPECIAL POSITION AND IS, THEREFORE, LISTED IN REMARK 375 REMARK 500 INSTEAD OF REMARK 500. ATOMS WITH NON-BLANK ALTERNATE REMARK 500 LOCATION INDICATORS ARE NOT INCLUDED IN THE CALCULATIONS. REMARK 500 REMARK 500 DISTANCE CUTOFF: REMARK 500 2.2 ANGSTROMS FOR CONTACTS NOT INVOLVING HYDROGEN ATOMS REMARK 500 1.6 ANGSTROMS FOR CONTACTS INVOLVING HYDROGEN ATOMS REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI SSYMOP DISTANCE REMARK 500 O HOH B 209 O HOH B 209 16555 1.56 REMARK 500 CB ALA C 33 CB ALA C 33 14545 1.72 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 THR A 57 N - CA - C ANGL. DEV. = -21.3 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 GLU A 11 5.51 -68.80 REMARK 500 GLU A 54 3.00 -59.93 REMARK 500 LYS A 56 26.74 44.69 REMARK 500 GLU A 58 128.25 70.97 REMARK 500 ALA A 100 46.51 -86.67 REMARK 500 GLU B 55 -92.10 -95.67 REMARK 500 LYS B 56 25.37 173.40 REMARK 500 SER B 65 134.02 175.72 REMARK 500 LEU B 83 -165.81 -65.17 REMARK 500 LEU B 85 -73.50 -43.69 REMARK 500 ALA B 100 26.83 -55.17 REMARK 500 LYS B 103 146.91 -174.03 REMARK 500 GLU B 109 -63.23 -93.65 REMARK 500 THR C 14 147.79 58.35 REMARK 500 GLU C 17 -53.02 67.52 REMARK 500 VAL C 31 107.03 -59.52 REMARK 500 THR C 32 -94.00 -91.95 REMARK 500 ALA C 33 -57.74 72.94 REMARK 500 ALA D 34 133.31 90.94 REMARK 500 REMARK 500 REMARK: NULL REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE TBR A 401 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE TBR A 402 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1DD3 RELATED DB: PDB REMARK 900 1DD3 CONTAINS THE SAME MOLECULE IN SPACE GROUP C2221 DBREF 1DD4 A 1 128 UNP P29396 RL7_THEMA 1 128 DBREF 1DD4 B 1 128 UNP P29396 RL7_THEMA 1 128 DBREF 1DD4 C 1 40 UNP P29396 RL7_THEMA 1 40 DBREF 1DD4 D 1 40 UNP P29396 RL7_THEMA 1 40 SEQRES 1 A 128 MET THR ILE ASP GLU ILE ILE GLU ALA ILE GLU LYS LEU SEQRES 2 A 128 THR VAL SER GLU LEU ALA GLU LEU VAL LYS LYS LEU GLU SEQRES 3 A 128 ASP LYS PHE GLY VAL THR ALA ALA ALA PRO VAL ALA VAL SEQRES 4 A 128 ALA ALA ALA PRO VAL ALA GLY ALA ALA ALA GLY ALA ALA SEQRES 5 A 128 GLN GLU GLU LYS THR GLU PHE ASP VAL VAL LEU LYS SER SEQRES 6 A 128 PHE GLY GLN ASN LYS ILE GLN VAL ILE LYS VAL VAL ARG SEQRES 7 A 128 GLU ILE THR GLY LEU GLY LEU LYS GLU ALA LYS ASP LEU SEQRES 8 A 128 VAL GLU LYS ALA GLY SER PRO ASP ALA VAL ILE LYS SER SEQRES 9 A 128 GLY VAL SER LYS GLU GLU ALA GLU GLU ILE LYS LYS LYS SEQRES 10 A 128 LEU GLU GLU ALA GLY ALA GLU VAL GLU LEU LYS SEQRES 1 B 128 MET THR ILE ASP GLU ILE ILE GLU ALA ILE GLU LYS LEU SEQRES 2 B 128 THR VAL SER GLU LEU ALA GLU LEU VAL LYS LYS LEU GLU SEQRES 3 B 128 ASP LYS PHE GLY VAL THR ALA ALA ALA PRO VAL ALA VAL SEQRES 4 B 128 ALA ALA ALA PRO VAL ALA GLY ALA ALA ALA GLY ALA ALA SEQRES 5 B 128 GLN GLU GLU LYS THR GLU PHE ASP VAL VAL LEU LYS SER SEQRES 6 B 128 PHE GLY GLN ASN LYS ILE GLN VAL ILE LYS VAL VAL ARG SEQRES 7 B 128 GLU ILE THR GLY LEU GLY LEU LYS GLU ALA LYS ASP LEU SEQRES 8 B 128 VAL GLU LYS ALA GLY SER PRO ASP ALA VAL ILE LYS SER SEQRES 9 B 128 GLY VAL SER LYS GLU GLU ALA GLU GLU ILE LYS LYS LYS SEQRES 10 B 128 LEU GLU GLU ALA GLY ALA GLU VAL GLU LEU LYS SEQRES 1 C 40 MET THR ILE ASP GLU ILE ILE GLU ALA ILE GLU LYS LEU SEQRES 2 C 40 THR VAL SER GLU LEU ALA GLU LEU VAL LYS LYS LEU GLU SEQRES 3 C 40 ASP LYS PHE GLY VAL THR ALA ALA ALA PRO VAL ALA VAL SEQRES 4 C 40 ALA SEQRES 1 D 40 MET THR ILE ASP GLU ILE ILE GLU ALA ILE GLU LYS LEU SEQRES 2 D 40 THR VAL SER GLU LEU ALA GLU LEU VAL LYS LYS LEU GLU SEQRES 3 D 40 ASP LYS PHE GLY VAL THR ALA ALA ALA PRO VAL ALA VAL SEQRES 4 D 40 ALA HET TBR A 401 18 HET TBR A 402 18 HETNAM TBR HEXATANTALUM DODECABROMIDE HETSYN TBR DODECABROMOHEXATANTALUM FORMUL 5 TBR 2(BR12 TA6) FORMUL 7 HOH *289(H2 O) HELIX 1 1 THR A 2 GLU A 11 1 10 HELIX 2 2 THR A 14 GLY A 30 1 17 HELIX 3 3 PHE A 29 ALA A 35 1 7 HELIX 4 4 ALA A 34 GLU A 54 1 21 HELIX 5 5 ASN A 69 GLY A 82 1 14 HELIX 6 6 GLY A 84 GLU A 93 1 10 HELIX 7 7 SER A 107 GLU A 120 1 14 HELIX 8 8 THR B 2 LYS B 12 1 11 HELIX 9 9 THR B 14 GLY B 30 1 17 HELIX 10 10 GLY B 30 GLU B 55 1 26 HELIX 11 11 ASN B 69 GLY B 82 1 14 HELIX 12 12 GLY B 84 GLU B 93 1 10 HELIX 13 13 GLU B 109 ALA B 121 1 13 HELIX 14 14 MET C 1 GLU C 11 1 11 HELIX 15 15 THR C 14 PHE C 29 1 16 HELIX 16 16 MET D 1 LYS D 12 1 12 HELIX 17 17 THR D 14 PHE D 29 1 16 SHEET 1 A 3 VAL A 101 VAL A 106 0 SHEET 2 A 3 PHE A 59 SER A 65 -1 N PHE A 59 O VAL A 106 SHEET 3 A 3 GLU A 124 LEU A 127 -1 O GLU A 124 N LYS A 64 SHEET 1 B 3 VAL B 101 VAL B 106 0 SHEET 2 B 3 PHE B 59 SER B 65 -1 N PHE B 59 O VAL B 106 SHEET 3 B 3 GLU B 124 LEU B 127 -1 O GLU B 124 N LYS B 64 SITE 1 AC1 6 LYS A 12 LEU A 13 ALA A 51 GLU A 55 SITE 2 AC1 6 LYS B 103 GLU B 110 SITE 1 AC2 5 LYS A 103 GLU A 110 GLU B 11 LYS B 12 SITE 2 AC2 5 LEU B 13 CRYST1 144.744 144.744 144.744 90.00 90.00 90.00 I 21 3 48 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 0.006909 0.000000 0.000000 0.00000 SCALE2 0.000000 0.006909 0.000000 0.00000 SCALE3 0.000000 0.000000 0.006909 0.00000