HEADER TRANSFERASE 26-JUL-07 2QQE TITLE THYMIDINE KINASE FROM THERMOTOGA MARITIMA IN COMPLEX WITH THYMIDINE COMPND MOL_ID: 1; COMPND 2 MOLECULE: THYMIDINE KINASE; COMPND 3 CHAIN: A, B; COMPND 4 EC: 2.7.1.21; COMPND 5 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: THERMOTOGA MARITIMA; SOURCE 3 ORGANISM_TAXID: 2336; SOURCE 4 GENE: TDK; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 511693; SOURCE 7 EXPRESSION_SYSTEM_STRAIN: BL21; SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 9 EXPRESSION_SYSTEM_PLASMID: PET14B KEYWDS TMTK IN COMPLEX WITH THYMIDINE, CLOSE CONFORMATION, ATP-BINDING, KEYWDS 2 CYTOPLASM, DNA SYNTHESIS, KINASE, NUCLEOTIDE-BINDING, TRANSFERASE EXPDTA X-RAY DIFFRACTION AUTHOR D.SEGURA-PENA,J.LICHTER,M.TRANI,M.KONRAD,A.LAVIE,S.LUTZ REVDAT 3 21-FEB-24 2QQE 1 REMARK REVDAT 2 30-DEC-08 2QQE 1 JRNL VERSN REVDAT 1 16-OCT-07 2QQE 0 JRNL AUTH D.SEGURA-PENA,J.LICHTER,M.TRANI,M.KONRAD,A.LAVIE,S.LUTZ JRNL TITL QUATERNARY STRUCTURE CHANGE AS A MECHANISM FOR THE JRNL TITL 2 REGULATION OF THYMIDINE KINASE 1-LIKE ENZYMES. JRNL REF STRUCTURE V. 15 1555 2007 JRNL REFN ISSN 0969-2126 JRNL PMID 18073106 JRNL DOI 10.1016/J.STR.2007.09.025 REMARK 2 REMARK 2 RESOLUTION. 1.90 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.2.0019 REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN REMARK 3 REMARK 3 REFINEMENT TARGET : MAXIMUM LIKELIHOOD REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.90 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 12.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 96.8 REMARK 3 NUMBER OF REFLECTIONS : 22601 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 + TEST SET) : 0.241 REMARK 3 R VALUE (WORKING SET) : 0.236 REMARK 3 FREE R VALUE : 0.286 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 10.100 REMARK 3 FREE R VALUE TEST SET COUNT : 2528 REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 20 REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 1.90 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.95 REMARK 3 REFLECTION IN BIN (WORKING SET) : 1665 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 98.27 REMARK 3 BIN R VALUE (WORKING SET) : 0.2890 REMARK 3 BIN FREE R VALUE SET COUNT : 156 REMARK 3 BIN FREE R VALUE : 0.3660 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2504 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 36 REMARK 3 SOLVENT ATOMS : 49 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 31.70 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 27.58 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.60000 REMARK 3 B22 (A**2) : -0.70000 REMARK 3 B33 (A**2) : 1.60000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 0.48000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.216 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.192 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.146 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 4.838 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.920 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.888 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 2578 ; 0.017 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 3472 ; 1.627 ; 1.997 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 316 ; 6.199 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 101 ;36.966 ;24.257 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 473 ;17.379 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 12 ; 9.700 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 407 ; 0.108 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 1848 ; 0.007 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 1171 ; 0.215 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 1773 ; 0.307 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 85 ; 0.133 ; 0.200 REMARK 3 H-BOND (X...Y) OTHERS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW REFINED ATOMS (A): 52 ; 0.352 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 8 ; 0.242 ; 0.200 REMARK 3 SYMMETRY H-BOND OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 MAIN-CHAIN BOND REFINED ATOMS (A**2): 1629 ; 0.949 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 2561 ; 1.579 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1061 ; 2.570 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 911 ; 3.919 ; 4.500 REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 ANISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 RIGID-BOND RESTRAINTS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; FREE ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; BONDED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 NCS RESTRAINTS STATISTICS REMARK 3 NUMBER OF DIFFERENT NCS GROUPS : 1 REMARK 3 REMARK 3 NCS GROUP NUMBER : 1 REMARK 3 CHAIN NAMES : A B REMARK 3 NUMBER OF COMPONENTS NCS GROUP : 3 REMARK 3 COMPONENT C SSSEQI TO C SSSEQI CODE REMARK 3 1 A 2 A 40 4 REMARK 3 1 B 2 B 40 4 REMARK 3 2 A 58 A 155 4 REMARK 3 2 B 58 B 155 4 REMARK 3 3 A 161 A 181 4 REMARK 3 3 B 161 B 181 4 REMARK 3 GROUP CHAIN COUNT RMS WEIGHT REMARK 3 MEDIUM POSITIONAL 1 A (A): 1216 ; 0.32 ; 0.50 REMARK 3 MEDIUM THERMAL 1 A (A**2): 1216 ; 0.80 ; 2.00 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : NULL REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : MASK REMARK 3 PARAMETERS FOR MASK CALCULATION REMARK 3 VDW PROBE RADIUS : 1.40 REMARK 3 ION PROBE RADIUS : 0.80 REMARK 3 SHRINKAGE RADIUS : 0.80 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: HYDROGENS HAVE BEEN ADDED IN THE RIDING REMARK 3 POSITIONS REMARK 4 REMARK 4 2QQE COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 31-JUL-07. REMARK 100 THE DEPOSITION ID IS D_1000043924. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 21-OCT-06 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 5.0 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : APS REMARK 200 BEAMLINE : 22-ID REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.0 REMARK 200 MONOCHROMATOR : MONOCROMATOR SI (111) SAGITTAL REMARK 200 FOCUSING REMARK 200 OPTICS : MIRRORS REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MARMOSAIC 300 MM CCD REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : XDS REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 23671 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.900 REMARK 200 RESOLUTION RANGE LOW (A) : 12.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : -3.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 98.5 REMARK 200 DATA REDUNDANCY : 3.600 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : 0.07620 REMARK 200 FOR THE DATA SET : 13.0000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.90 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.07 REMARK 200 COMPLETENESS FOR SHELL (%) : 95.5 REMARK 200 DATA REDUNDANCY IN SHELL : 3.50 REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : 0.33400 REMARK 200 FOR SHELL : NULL REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHASER REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 38.81 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.01 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 60-65% MPD + 0.1 M SODIUM ACETATE, PH REMARK 280 5.0, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 298K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: C 1 2 1 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 55.79500 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 26.41000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 55.79500 REMARK 290 SMTRY2 4 0.000000 1.000000 0.000000 26.41000 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 300 REMARK: THE TETRAMERIC BIOLOGICAL ASSEMBLY IS GENERATED FROM THE REMARK 300 DIMER IN THE ASSIMETRIC UNIT BY THE OPERATION (-X, Y, -Z) 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: 8400 ANGSTROM**2 REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, 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 350 BIOMT1 2 -1.000000 0.000000 0.000000 111.59000 REMARK 350 BIOMT2 2 0.000000 1.000000 0.000000 0.00000 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 MET A 1 REMARK 465 ILE A 41 REMARK 465 ASP A 42 REMARK 465 SER A 43 REMARK 465 ARG A 44 REMARK 465 TYR A 45 REMARK 465 HIS A 46 REMARK 465 SER A 47 REMARK 465 THR A 48 REMARK 465 MET A 49 REMARK 465 ILE A 50 REMARK 465 VAL A 51 REMARK 465 SER A 52 REMARK 465 HIS A 53 REMARK 465 SER A 54 REMARK 465 GLY A 55 REMARK 465 GLY A 156 REMARK 465 LYS A 182 REMARK 465 ARG A 183 REMARK 465 VAL A 184 REMARK 465 MET B 1 REMARK 465 ILE B 41 REMARK 465 ASP B 42 REMARK 465 SER B 43 REMARK 465 ARG B 44 REMARK 465 TYR B 45 REMARK 465 HIS B 46 REMARK 465 SER B 47 REMARK 465 THR B 48 REMARK 465 MET B 49 REMARK 465 ILE B 50 REMARK 465 VAL B 51 REMARK 465 SER B 52 REMARK 465 HIS B 53 REMARK 465 SER B 54 REMARK 465 GLY B 55 REMARK 465 ASN B 56 REMARK 465 GLY B 57 REMARK 465 GLY B 156 REMARK 465 GLY B 157 REMARK 465 GLU B 158 REMARK 465 GLU B 159 REMARK 465 GLU B 160 REMARK 465 LYS B 182 REMARK 465 ARG B 183 REMARK 465 VAL B 184 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 ASN A 56 CG OD1 ND2 REMARK 470 VAL A 58 CG1 CG2 REMARK 470 GLU A 159 CG CD OE1 OE2 REMARK 470 GLU A 160 CG CD OE1 OE2 REMARK 470 ILE A 161 CG1 CG2 CD1 REMARK 470 ASP A 162 CG OD1 OD2 REMARK 470 GLN A 166 CG CD OE1 NE2 REMARK 470 VAL B 58 CG1 CG2 REMARK 470 GLU B 59 CG CD OE1 OE2 REMARK 470 ILE B 161 CG1 CG2 CD1 REMARK 470 ASP B 162 CG OD1 OD2 REMARK 470 VAL B 163 CG1 CG2 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 CB SER A 22 O HOH B 511 2655 1.92 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 ASP A 101 CB - CG - OD1 ANGL. DEV. = 5.7 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 VAL A 58 8.70 -177.18 REMARK 500 GLU A 59 57.74 95.61 REMARK 500 ASN A 147 13.76 -158.74 REMARK 500 ASP A 162 103.38 -173.47 REMARK 500 ASN B 147 10.83 -156.26 REMARK 500 LYS B 168 -37.38 -133.55 REMARK 500 REMARK 500 REMARK: NULL REMARK 620 REMARK 620 METAL COORDINATION REMARK 620 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 620 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE): REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN A 400 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 140 SG REMARK 620 2 CYS A 143 SG 100.2 REMARK 620 3 CYS A 173 SG 115.3 115.9 REMARK 620 4 CYS A 176 SG 110.7 117.3 98.3 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN B 402 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS B 140 SG REMARK 620 2 CYS B 143 SG 105.5 REMARK 620 3 CYS B 173 SG 115.5 119.9 REMARK 620 4 CYS B 176 SG 97.8 124.2 92.3 REMARK 620 N 1 2 3 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN A 400 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN B 402 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE THM A 501 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE THM B 502 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 2QPO RELATED DB: PDB REMARK 900 RELATED ID: 2QQ0 RELATED DB: PDB DBREF 2QQE A 1 184 UNP Q9WYN2 KITH_THEMA 1 184 DBREF 2QQE B 1 184 UNP Q9WYN2 KITH_THEMA 1 184 SEQRES 1 A 184 MET SER GLY LYS LEU THR VAL ILE THR GLY PRO MET TYR SEQRES 2 A 184 SER GLY LYS THR THR GLU LEU LEU SER PHE VAL GLU ILE SEQRES 3 A 184 TYR LYS LEU GLY LYS LYS LYS VAL ALA VAL PHE LYS PRO SEQRES 4 A 184 LYS ILE ASP SER ARG TYR HIS SER THR MET ILE VAL SER SEQRES 5 A 184 HIS SER GLY ASN GLY VAL GLU ALA HIS VAL ILE GLU ARG SEQRES 6 A 184 PRO GLU GLU MET ARG LYS TYR ILE GLU GLU ASP THR ARG SEQRES 7 A 184 GLY VAL PHE ILE ASP GLU VAL GLN PHE PHE ASN PRO SER SEQRES 8 A 184 LEU PHE GLU VAL VAL LYS ASP LEU LEU ASP ARG GLY ILE SEQRES 9 A 184 ASP VAL PHE CYS ALA GLY LEU ASP LEU THR HIS LYS GLN SEQRES 10 A 184 ASN PRO PHE GLU THR THR ALA LEU LEU LEU SER LEU ALA SEQRES 11 A 184 ASP THR VAL ILE LYS LYS LYS ALA VAL CYS HIS ARG CYS SEQRES 12 A 184 GLY GLU TYR ASN ALA THR LEU THR LEU LYS VAL ALA GLY SEQRES 13 A 184 GLY GLU GLU GLU ILE ASP VAL GLY GLY GLN GLU LYS TYR SEQRES 14 A 184 ILE ALA VAL CYS ARG ASP CYS TYR ASN THR LEU LYS LYS SEQRES 15 A 184 ARG VAL SEQRES 1 B 184 MET SER GLY LYS LEU THR VAL ILE THR GLY PRO MET TYR SEQRES 2 B 184 SER GLY LYS THR THR GLU LEU LEU SER PHE VAL GLU ILE SEQRES 3 B 184 TYR LYS LEU GLY LYS LYS LYS VAL ALA VAL PHE LYS PRO SEQRES 4 B 184 LYS ILE ASP SER ARG TYR HIS SER THR MET ILE VAL SER SEQRES 5 B 184 HIS SER GLY ASN GLY VAL GLU ALA HIS VAL ILE GLU ARG SEQRES 6 B 184 PRO GLU GLU MET ARG LYS TYR ILE GLU GLU ASP THR ARG SEQRES 7 B 184 GLY VAL PHE ILE ASP GLU VAL GLN PHE PHE ASN PRO SER SEQRES 8 B 184 LEU PHE GLU VAL VAL LYS ASP LEU LEU ASP ARG GLY ILE SEQRES 9 B 184 ASP VAL PHE CYS ALA GLY LEU ASP LEU THR HIS LYS GLN SEQRES 10 B 184 ASN PRO PHE GLU THR THR ALA LEU LEU LEU SER LEU ALA SEQRES 11 B 184 ASP THR VAL ILE LYS LYS LYS ALA VAL CYS HIS ARG CYS SEQRES 12 B 184 GLY GLU TYR ASN ALA THR LEU THR LEU LYS VAL ALA GLY SEQRES 13 B 184 GLY GLU GLU GLU ILE ASP VAL GLY GLY GLN GLU LYS TYR SEQRES 14 B 184 ILE ALA VAL CYS ARG ASP CYS TYR ASN THR LEU LYS LYS SEQRES 15 B 184 ARG VAL HET ZN A 400 1 HET THM A 501 17 HET ZN B 402 1 HET THM B 502 17 HETNAM ZN ZINC ION HETNAM THM THYMIDINE HETSYN THM DEOXYTHYMIDINE; 2'-DEOXYTHYMIDINE FORMUL 3 ZN 2(ZN 2+) FORMUL 4 THM 2(C10 H14 N2 O5) FORMUL 7 HOH *49(H2 O) HELIX 1 1 GLY A 15 GLY A 30 1 16 HELIX 2 2 ARG A 65 ILE A 73 5 9 HELIX 3 3 GLU A 84 PHE A 88 5 5 HELIX 4 4 ASN A 89 PRO A 90 5 2 HELIX 5 5 SER A 91 ARG A 102 1 12 HELIX 6 6 PHE A 120 ALA A 130 1 11 HELIX 7 7 CYS A 173 LYS A 181 1 9 HELIX 8 8 GLY B 15 GLY B 30 1 16 HELIX 9 9 ARG B 65 TYR B 72 5 8 HELIX 10 10 GLU B 84 PHE B 88 5 5 HELIX 11 11 ASN B 89 PRO B 90 5 2 HELIX 12 12 SER B 91 ARG B 102 1 12 HELIX 13 13 PHE B 120 ALA B 130 1 11 HELIX 14 14 CYS B 173 LYS B 181 1 9 SHEET 1 A 6 HIS A 61 ILE A 63 0 SHEET 2 A 6 LYS A 33 PRO A 39 1 N VAL A 36 O HIS A 61 SHEET 3 A 6 THR A 77 ILE A 82 1 O PHE A 81 N ALA A 35 SHEET 4 A 6 ASP A 105 LEU A 111 1 O PHE A 107 N ILE A 82 SHEET 5 A 6 LEU A 5 GLY A 10 1 N ILE A 8 O CYS A 108 SHEET 6 A 6 THR A 132 LYS A 135 1 O ILE A 134 N VAL A 7 SHEET 1 B 2 ALA A 138 VAL A 139 0 SHEET 2 B 2 TYR A 146 ALA A 148 -1 O ALA A 148 N ALA A 138 SHEET 1 C 2 LEU A 150 LYS A 153 0 SHEET 2 C 2 TYR A 169 VAL A 172 -1 O ILE A 170 N LEU A 152 SHEET 1 D 6 ALA B 60 ILE B 63 0 SHEET 2 D 6 LYS B 33 PRO B 39 1 N VAL B 36 O HIS B 61 SHEET 3 D 6 THR B 77 ILE B 82 1 O PHE B 81 N PHE B 37 SHEET 4 D 6 ASP B 105 LEU B 111 1 O ALA B 109 N ILE B 82 SHEET 5 D 6 LEU B 5 GLY B 10 1 N ILE B 8 O CYS B 108 SHEET 6 D 6 THR B 132 LYS B 135 1 O ILE B 134 N VAL B 7 SHEET 1 E 2 ALA B 138 VAL B 139 0 SHEET 2 E 2 TYR B 146 ALA B 148 -1 O ALA B 148 N ALA B 138 SHEET 1 F 2 LEU B 150 LYS B 153 0 SHEET 2 F 2 TYR B 169 VAL B 172 -1 O ILE B 170 N LEU B 152 LINK SG CYS A 140 ZN ZN A 400 1555 1555 2.27 LINK SG CYS A 143 ZN ZN A 400 1555 1555 2.21 LINK SG CYS A 173 ZN ZN A 400 1555 1555 2.53 LINK SG CYS A 176 ZN ZN A 400 1555 1555 2.29 LINK SG CYS B 140 ZN ZN B 402 1555 1555 2.39 LINK SG CYS B 143 ZN ZN B 402 1555 1555 2.15 LINK SG CYS B 173 ZN ZN B 402 1555 1555 2.43 LINK SG CYS B 176 ZN ZN B 402 1555 1555 2.33 SITE 1 AC1 4 CYS A 140 CYS A 143 CYS A 173 CYS A 176 SITE 1 AC2 4 CYS B 140 CYS B 143 CYS B 173 CYS B 176 SITE 1 AC3 13 GLU A 84 GLN A 86 PHE A 87 LEU A 111 SITE 2 AC3 13 THR A 114 HIS A 115 THR A 151 GLU A 160 SITE 3 AC3 13 ILE A 161 ASP A 162 VAL A 163 GLY A 164 SITE 4 AC3 13 TYR A 169 SITE 1 AC4 12 GLU B 84 GLN B 86 PHE B 87 LEU B 111 SITE 2 AC4 12 THR B 114 HIS B 115 PHE B 120 ILE B 161 SITE 3 AC4 12 ASP B 162 VAL B 163 GLY B 164 TYR B 169 CRYST1 111.590 52.820 59.310 90.00 107.90 90.00 C 1 2 1 8 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 0.008961 0.000000 0.002895 0.00000 SCALE2 0.000000 0.018932 0.000000 0.00000 SCALE3 0.000000 0.000000 0.017719 0.00000