HEADER OXIDOREDUCTASE 19-MAY-06 2DQ4 TITLE CRYSTAL STRUCTURE OF THREONINE 3-DEHYDROGENASE COMPND MOL_ID: 1; COMPND 2 MOLECULE: L-THREONINE 3-DEHYDROGENASE; COMPND 3 CHAIN: A, B; COMPND 4 SYNONYM: THREONINE 3-DEHYDROGENASE; COMPND 5 EC: 1.1.1.103; COMPND 6 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: THERMUS THERMOPHILUS; SOURCE 3 ORGANISM_TAXID: 274; SOURCE 4 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 5 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS NAD-DEPENDENT, OXIDOREDUCTASE, STRUCTURAL GENOMICS, NPPSFA, NATIONAL KEYWDS 2 PROJECT ON PROTEIN STRUCTURAL AND FUNCTIONAL ANALYSES, RIKEN KEYWDS 3 STRUCTURAL GENOMICS/PROTEOMICS INITIATIVE, RSGI EXPDTA X-RAY DIFFRACTION AUTHOR R.OMI,T.YAO,M.GOTO,I.MIYAHARA,K.HIROTSU,RIKEN STRUCTURAL AUTHOR 2 GENOMICS/PROTEOMICS INITIATIVE (RSGI) REVDAT 5 25-OCT-23 2DQ4 1 REMARK LINK REVDAT 4 13-JUL-11 2DQ4 1 VERSN REVDAT 3 24-FEB-09 2DQ4 1 VERSN REVDAT 2 16-OCT-07 2DQ4 1 AUTHOR KEYWDS REMARK REVDAT 1 12-JUN-07 2DQ4 0 JRNL AUTH R.OMI,T.YAO,M.GOTO,I.MIYAHARA,K.HIROTSU JRNL TITL CRYSTAL STRUCTURE OF THREONINE 3-DEHYDROGENASE JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 2.50 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 : NULL REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.50 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 19.99 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 DATA CUTOFF HIGH (ABS(F)) : 2494200.990 REMARK 3 DATA CUTOFF LOW (ABS(F)) : 0.0000 REMARK 3 COMPLETENESS (WORKING+TEST) (%) : 99.6 REMARK 3 NUMBER OF REFLECTIONS : 51703 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) : 0.207 REMARK 3 FREE R VALUE : 0.237 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 10.100 REMARK 3 FREE R VALUE TEST SET COUNT : 5213 REMARK 3 ESTIMATED ERROR OF FREE R VALUE : 0.003 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) : 2.50 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.66 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 99.90 REMARK 3 REFLECTIONS IN BIN (WORKING SET) : 7626 REMARK 3 BIN R VALUE (WORKING SET) : 0.2700 REMARK 3 BIN FREE R VALUE : 0.3230 REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : 10.00 REMARK 3 BIN FREE R VALUE TEST SET COUNT : 843 REMARK 3 ESTIMATED ERROR OF BIN FREE R VALUE : 0.011 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 5138 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 28 REMARK 3 SOLVENT ATOMS : 178 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 44.60 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 41.10 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 1.31000 REMARK 3 B22 (A**2) : 1.31000 REMARK 3 B33 (A**2) : -2.63000 REMARK 3 B12 (A**2) : 3.67000 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) : 0.31 REMARK 3 ESD FROM SIGMAA (A) : 0.28 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) : 0.36 REMARK 3 ESD FROM C-V SIGMAA (A) : 0.37 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 BOND LENGTHS (A) : 0.011 REMARK 3 BOND ANGLES (DEGREES) : 1.700 REMARK 3 DIHEDRAL ANGLES (DEGREES) : 25.20 REMARK 3 IMPROPER ANGLES (DEGREES) : 1.110 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) : 1.090 ; 1.500 REMARK 3 MAIN-CHAIN ANGLE (A**2) : 1.750 ; 2.000 REMARK 3 SIDE-CHAIN BOND (A**2) : 26.140; 2.000 REMARK 3 SIDE-CHAIN ANGLE (A**2) : 23.920; 2.500 REMARK 3 REMARK 3 BULK SOLVENT MODELING. REMARK 3 METHOD USED : FLAT MODEL REMARK 3 KSOL : 0.34 REMARK 3 BSOL : 33.05 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 : NULL REMARK 3 TOPOLOGY FILE 1 : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: RESOLUTION-DEPENDENT WEIGHTING SCHEME REMARK 3 OTHER REFINEMENT REMARKS: BULK SOLVENT MODEL USED REMARK 4 REMARK 4 2DQ4 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 24-MAY-06. REMARK 100 THE DEPOSITION ID IS D_1000025709. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 03-JUL-03 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 6.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SPRING-8 REMARK 200 BEAMLINE : BL45XU 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 : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : IMAGE PLATE REMARK 200 DETECTOR MANUFACTURER : RIGAKU RAXIS V REMARK 200 INTENSITY-INTEGRATION SOFTWARE : CRYSTALCLEAR REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 51941 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.500 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.8 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) : 2.50 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.59 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.8 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: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: AMORE REMARK 200 STARTING MODEL: KETOSE REDUCTASE(ID:1E3J) REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 75.05 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 4.93 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: SODIUM ACETATE, MES PH6.5, VAPOR REMARK 280 DIFFUSION, HANGING DROP, TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 61 2 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -Y,X-Y,Z+1/3 REMARK 290 3555 -X+Y,-X,Z+2/3 REMARK 290 4555 -X,-Y,Z+1/2 REMARK 290 5555 Y,-X+Y,Z+5/6 REMARK 290 6555 X-Y,X,Z+1/6 REMARK 290 7555 Y,X,-Z+1/3 REMARK 290 8555 X-Y,-Y,-Z REMARK 290 9555 -X,-X+Y,-Z+2/3 REMARK 290 10555 -Y,-X,-Z+5/6 REMARK 290 11555 -X+Y,Y,-Z+1/2 REMARK 290 12555 X,X-Y,-Z+1/6 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 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 2 0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 89.90467 REMARK 290 SMTRY1 3 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 3 -0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 179.80933 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 134.85700 REMARK 290 SMTRY1 5 0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 5 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 224.76167 REMARK 290 SMTRY1 6 0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 6 0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 44.95233 REMARK 290 SMTRY1 7 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 7 0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 89.90467 REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 9 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 9 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 9 0.000000 0.000000 -1.000000 179.80933 REMARK 290 SMTRY1 10 0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 10 -0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 10 0.000000 0.000000 -1.000000 224.76167 REMARK 290 SMTRY1 11 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 11 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 11 0.000000 0.000000 -1.000000 134.85700 REMARK 290 SMTRY1 12 0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 12 0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 12 0.000000 0.000000 -1.000000 44.95233 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: TETRAMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TETRAMERIC REMARK 350 SOFTWARE USED: PISA,PQS REMARK 350 TOTAL BURIED SURFACE AREA: 11780 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 47770 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -199.0 KCAL/MOL 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 136.34900 REMARK 350 BIOMT2 2 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 2 0.000000 0.000000 -1.000000 134.85700 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 GLN A 333 CG CD OE1 NE2 REMARK 470 LYS B 46 CG CD CE NZ REMARK 470 ARG B 225 CG CD NE CZ NH1 NH2 REMARK 470 ARG B 316 CG CD NE CZ NH1 NH2 REMARK 470 GLN B 333 CG CD OE1 NE2 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 LEU B 291 CA - C - N ANGL. DEV. = -14.4 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 PRO A 79 -160.29 -76.29 REMARK 500 ALA A 95 46.90 -150.43 REMARK 500 ASN A 103 60.60 -106.11 REMARK 500 VAL A 115 -44.47 -141.56 REMARK 500 VAL A 163 -5.08 -141.30 REMARK 500 SER A 230 -93.93 -172.96 REMARK 500 LEU A 276 -69.02 -123.34 REMARK 500 TRP A 292 -35.30 95.01 REMARK 500 LEU A 329 -85.04 -50.84 REMARK 500 ALA A 330 -20.10 -36.11 REMARK 500 GLN A 333 -65.85 -10.37 REMARK 500 VAL A 335 -80.99 -103.52 REMARK 500 PRO B 9 64.31 -68.84 REMARK 500 PRO B 79 -165.29 -66.16 REMARK 500 ALA B 95 38.92 -142.60 REMARK 500 VAL B 115 -53.41 -131.94 REMARK 500 GLU B 217 -20.31 -141.12 REMARK 500 SER B 230 -89.39 -159.26 REMARK 500 LEU B 276 -67.65 -124.22 REMARK 500 TRP B 292 -40.44 97.08 REMARK 500 SER B 310 -51.73 -29.52 REMARK 500 VAL B 335 -84.77 -113.17 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 501 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 38 SG REMARK 620 2 HIS A 63 NE2 97.5 REMARK 620 3 GLU A 64 OE2 109.6 123.1 REMARK 620 N 1 2 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN A 502 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 93 SG REMARK 620 2 CYS A 96 SG 102.9 REMARK 620 3 CYS A 99 SG 122.7 100.5 REMARK 620 4 CYS A 107 SG 99.9 116.0 115.0 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN B 503 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS B 38 SG REMARK 620 2 HIS B 63 NE2 99.8 REMARK 620 3 GLU B 64 OE2 107.7 121.1 REMARK 620 N 1 2 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN B 504 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS B 93 SG REMARK 620 2 CYS B 96 SG 104.0 REMARK 620 3 CYS B 99 SG 119.7 105.9 REMARK 620 4 CYS B 107 SG 104.0 117.2 106.7 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 501 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN A 502 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN B 503 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN B 504 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MES A 505 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MES B 506 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: TTK003000029.1 RELATED DB: TARGETDB DBREF 2DQ4 A 1 343 UNP Q5SKS4 TDH_THET8 1 343 DBREF 2DQ4 B 1 343 UNP Q5SKS4 TDH_THET8 1 343 SEQRES 1 A 343 MET ARG ALA LEU ALA LYS LEU ALA PRO GLU GLU GLY LEU SEQRES 2 A 343 THR LEU VAL ASP ARG PRO VAL PRO GLU PRO GLY PRO GLY SEQRES 3 A 343 GLU ILE LEU VAL ARG VAL GLU ALA ALA SER ILE CYS GLY SEQRES 4 A 343 THR ASP LEU HIS ILE TRP LYS TRP ASP ALA TRP ALA ARG SEQRES 5 A 343 GLY ARG ILE ARG PRO PRO LEU VAL THR GLY HIS GLU PHE SEQRES 6 A 343 SER GLY VAL VAL GLU ALA VAL GLY PRO GLY VAL ARG ARG SEQRES 7 A 343 PRO GLN VAL GLY ASP HIS VAL SER LEU GLU SER HIS ILE SEQRES 8 A 343 VAL CYS HIS ALA CYS PRO ALA CYS ARG THR GLY ASN TYR SEQRES 9 A 343 HIS VAL CYS LEU ASN THR GLN ILE LEU GLY VAL ASP ARG SEQRES 10 A 343 ASP GLY GLY PHE ALA GLU TYR VAL VAL VAL PRO ALA GLU SEQRES 11 A 343 ASN ALA TRP VAL ASN PRO LYS ASP LEU PRO PHE GLU VAL SEQRES 12 A 343 ALA ALA ILE LEU GLU PRO PHE GLY ASN ALA VAL HIS THR SEQRES 13 A 343 VAL TYR ALA GLY SER GLY VAL SER GLY LYS SER VAL LEU SEQRES 14 A 343 ILE THR GLY ALA GLY PRO ILE GLY LEU MET ALA ALA MET SEQRES 15 A 343 VAL VAL ARG ALA SER GLY ALA GLY PRO ILE LEU VAL SER SEQRES 16 A 343 ASP PRO ASN PRO TYR ARG LEU ALA PHE ALA ARG PRO TYR SEQRES 17 A 343 ALA ASP ARG LEU VAL ASN PRO LEU GLU GLU ASP LEU LEU SEQRES 18 A 343 GLU VAL VAL ARG ARG VAL THR GLY SER GLY VAL GLU VAL SEQRES 19 A 343 LEU LEU GLU PHE SER GLY ASN GLU ALA ALA ILE HIS GLN SEQRES 20 A 343 GLY LEU MET ALA LEU ILE PRO GLY GLY GLU ALA ARG ILE SEQRES 21 A 343 LEU GLY ILE PRO SER ASP PRO ILE ARG PHE ASP LEU ALA SEQRES 22 A 343 GLY GLU LEU VAL MET ARG GLY ILE THR ALA PHE GLY ILE SEQRES 23 A 343 ALA GLY ARG ARG LEU TRP GLN THR TRP MET GLN GLY THR SEQRES 24 A 343 ALA LEU VAL TYR SER GLY ARG VAL ASP LEU SER PRO LEU SEQRES 25 A 343 LEU THR HIS ARG LEU PRO LEU SER ARG TYR ARG GLU ALA SEQRES 26 A 343 PHE GLY LEU LEU ALA SER GLY GLN ALA VAL LYS VAL ILE SEQRES 27 A 343 LEU ASP PRO LYS ALA SEQRES 1 B 343 MET ARG ALA LEU ALA LYS LEU ALA PRO GLU GLU GLY LEU SEQRES 2 B 343 THR LEU VAL ASP ARG PRO VAL PRO GLU PRO GLY PRO GLY SEQRES 3 B 343 GLU ILE LEU VAL ARG VAL GLU ALA ALA SER ILE CYS GLY SEQRES 4 B 343 THR ASP LEU HIS ILE TRP LYS TRP ASP ALA TRP ALA ARG SEQRES 5 B 343 GLY ARG ILE ARG PRO PRO LEU VAL THR GLY HIS GLU PHE SEQRES 6 B 343 SER GLY VAL VAL GLU ALA VAL GLY PRO GLY VAL ARG ARG SEQRES 7 B 343 PRO GLN VAL GLY ASP HIS VAL SER LEU GLU SER HIS ILE SEQRES 8 B 343 VAL CYS HIS ALA CYS PRO ALA CYS ARG THR GLY ASN TYR SEQRES 9 B 343 HIS VAL CYS LEU ASN THR GLN ILE LEU GLY VAL ASP ARG SEQRES 10 B 343 ASP GLY GLY PHE ALA GLU TYR VAL VAL VAL PRO ALA GLU SEQRES 11 B 343 ASN ALA TRP VAL ASN PRO LYS ASP LEU PRO PHE GLU VAL SEQRES 12 B 343 ALA ALA ILE LEU GLU PRO PHE GLY ASN ALA VAL HIS THR SEQRES 13 B 343 VAL TYR ALA GLY SER GLY VAL SER GLY LYS SER VAL LEU SEQRES 14 B 343 ILE THR GLY ALA GLY PRO ILE GLY LEU MET ALA ALA MET SEQRES 15 B 343 VAL VAL ARG ALA SER GLY ALA GLY PRO ILE LEU VAL SER SEQRES 16 B 343 ASP PRO ASN PRO TYR ARG LEU ALA PHE ALA ARG PRO TYR SEQRES 17 B 343 ALA ASP ARG LEU VAL ASN PRO LEU GLU GLU ASP LEU LEU SEQRES 18 B 343 GLU VAL VAL ARG ARG VAL THR GLY SER GLY VAL GLU VAL SEQRES 19 B 343 LEU LEU GLU PHE SER GLY ASN GLU ALA ALA ILE HIS GLN SEQRES 20 B 343 GLY LEU MET ALA LEU ILE PRO GLY GLY GLU ALA ARG ILE SEQRES 21 B 343 LEU GLY ILE PRO SER ASP PRO ILE ARG PHE ASP LEU ALA SEQRES 22 B 343 GLY GLU LEU VAL MET ARG GLY ILE THR ALA PHE GLY ILE SEQRES 23 B 343 ALA GLY ARG ARG LEU TRP GLN THR TRP MET GLN GLY THR SEQRES 24 B 343 ALA LEU VAL TYR SER GLY ARG VAL ASP LEU SER PRO LEU SEQRES 25 B 343 LEU THR HIS ARG LEU PRO LEU SER ARG TYR ARG GLU ALA SEQRES 26 B 343 PHE GLY LEU LEU ALA SER GLY GLN ALA VAL LYS VAL ILE SEQRES 27 B 343 LEU ASP PRO LYS ALA HET ZN A 501 1 HET ZN A 502 1 HET MES A 505 12 HET ZN B 503 1 HET ZN B 504 1 HET MES B 506 12 HETNAM ZN ZINC ION HETNAM MES 2-(N-MORPHOLINO)-ETHANESULFONIC ACID FORMUL 3 ZN 4(ZN 2+) FORMUL 5 MES 2(C6 H13 N O4 S) FORMUL 9 HOH *178(H2 O) HELIX 1 1 CYS A 38 LYS A 46 1 9 HELIX 2 2 ASP A 48 ILE A 55 1 8 HELIX 3 3 CYS A 96 THR A 101 1 6 HELIX 4 4 ASN A 103 CYS A 107 5 5 HELIX 5 5 PRO A 140 ALA A 145 1 6 HELIX 6 6 ILE A 146 ALA A 159 1 14 HELIX 7 7 GLY A 174 SER A 187 1 14 HELIX 8 8 ASN A 198 ALA A 203 1 6 HELIX 9 9 PHE A 204 ARG A 206 5 3 HELIX 10 10 ASP A 219 GLY A 229 1 11 HELIX 11 11 ASN A 241 ALA A 251 1 11 HELIX 12 12 ASP A 271 LEU A 276 1 6 HELIX 13 13 VAL A 277 GLY A 280 5 4 HELIX 14 14 TRP A 292 SER A 304 1 13 HELIX 15 15 LEU A 309 PRO A 311 5 3 HELIX 16 16 ARG A 321 GLY A 332 1 12 HELIX 17 17 CYS B 38 TRP B 47 1 10 HELIX 18 18 ASP B 48 ILE B 55 1 8 HELIX 19 19 CYS B 96 GLY B 102 1 7 HELIX 20 20 ASN B 103 CYS B 107 5 5 HELIX 21 21 PRO B 140 ALA B 145 1 6 HELIX 22 22 ILE B 146 ALA B 159 1 14 HELIX 23 23 GLY B 174 ALA B 186 1 13 HELIX 24 24 ASN B 198 ALA B 205 1 8 HELIX 25 25 ASP B 219 GLY B 229 1 11 HELIX 26 26 ASN B 241 ALA B 251 1 11 HELIX 27 27 ASP B 271 LEU B 276 1 6 HELIX 28 28 TRP B 292 SER B 304 1 13 HELIX 29 29 LEU B 309 LEU B 313 5 5 HELIX 30 30 ARG B 321 SER B 331 1 11 SHEET 1 A 3 THR A 14 ASP A 17 0 SHEET 2 A 3 ARG A 2 LYS A 6 -1 N ALA A 3 O VAL A 16 SHEET 3 A 3 LEU A 59 VAL A 60 -1 O LEU A 59 N LYS A 6 SHEET 1 B 5 TYR A 124 PRO A 128 0 SHEET 2 B 5 GLU A 27 SER A 36 -1 N VAL A 30 O VAL A 125 SHEET 3 B 5 GLU A 64 VAL A 72 -1 O VAL A 68 N ARG A 31 SHEET 4 B 5 HIS A 84 LEU A 87 -1 O VAL A 85 N GLY A 67 SHEET 5 B 5 ALA A 132 ASN A 135 -1 O ASN A 135 N HIS A 84 SHEET 1 C 4 TYR A 124 PRO A 128 0 SHEET 2 C 4 GLU A 27 SER A 36 -1 N VAL A 30 O VAL A 125 SHEET 3 C 4 LYS A 336 ASP A 340 -1 O LEU A 339 N ALA A 35 SHEET 4 C 4 LEU A 313 PRO A 318 1 N HIS A 315 O ILE A 338 SHEET 1 D 2 HIS A 90 ILE A 91 0 SHEET 2 D 2 GLN A 111 ILE A 112 -1 O GLN A 111 N ILE A 91 SHEET 1 E12 ARG A 211 VAL A 213 0 SHEET 2 E12 ILE A 192 SER A 195 1 N VAL A 194 O VAL A 213 SHEET 3 E12 VAL A 168 THR A 171 1 N VAL A 168 O LEU A 193 SHEET 4 E12 VAL A 232 GLU A 237 1 O LEU A 236 N LEU A 169 SHEET 5 E12 LEU A 252 ILE A 260 1 O ARG A 259 N LEU A 235 SHEET 6 E12 THR A 282 GLY A 285 1 O PHE A 284 N ALA A 258 SHEET 7 E12 THR B 282 GLY B 285 -1 O ALA B 283 N ALA A 283 SHEET 8 E12 LEU B 252 ILE B 260 1 N ILE B 260 O PHE B 284 SHEET 9 E12 VAL B 232 GLU B 237 1 N LEU B 235 O ARG B 259 SHEET 10 E12 VAL B 168 THR B 171 1 N LEU B 169 O LEU B 236 SHEET 11 E12 ILE B 192 SER B 195 1 O LEU B 193 N ILE B 170 SHEET 12 E12 ARG B 211 VAL B 213 1 O VAL B 213 N VAL B 194 SHEET 1 F 2 ILE A 268 PHE A 270 0 SHEET 2 F 2 ILE B 268 PHE B 270 -1 O ILE B 268 N PHE A 270 SHEET 1 G 3 THR B 14 ASP B 17 0 SHEET 2 G 3 ARG B 2 LYS B 6 -1 N ALA B 5 O THR B 14 SHEET 3 G 3 LEU B 59 VAL B 60 -1 O LEU B 59 N LYS B 6 SHEET 1 H 5 TYR B 124 PRO B 128 0 SHEET 2 H 5 GLU B 27 SER B 36 -1 N VAL B 30 O VAL B 125 SHEET 3 H 5 GLU B 64 VAL B 72 -1 O ALA B 71 N LEU B 29 SHEET 4 H 5 HIS B 84 LEU B 87 -1 O VAL B 85 N GLY B 67 SHEET 5 H 5 ALA B 132 ASN B 135 -1 O TRP B 133 N SER B 86 SHEET 1 I 4 TYR B 124 PRO B 128 0 SHEET 2 I 4 GLU B 27 SER B 36 -1 N VAL B 30 O VAL B 125 SHEET 3 I 4 VAL B 337 ASP B 340 -1 O LEU B 339 N ALA B 35 SHEET 4 I 4 HIS B 315 PRO B 318 1 N LEU B 317 O ILE B 338 SHEET 1 J 2 HIS B 90 ILE B 91 0 SHEET 2 J 2 GLN B 111 ILE B 112 -1 O GLN B 111 N ILE B 91 LINK SG CYS A 38 ZN ZN A 501 1555 1555 2.40 LINK NE2 HIS A 63 ZN ZN A 501 1555 1555 2.33 LINK OE2 GLU A 64 ZN ZN A 501 1555 1555 2.28 LINK SG CYS A 93 ZN ZN A 502 1555 1555 2.54 LINK SG CYS A 96 ZN ZN A 502 1555 1555 2.44 LINK SG CYS A 99 ZN ZN A 502 1555 1555 2.28 LINK SG CYS A 107 ZN ZN A 502 1555 1555 2.46 LINK SG CYS B 38 ZN ZN B 503 1555 1555 2.47 LINK NE2 HIS B 63 ZN ZN B 503 1555 1555 2.21 LINK OE2 GLU B 64 ZN ZN B 503 1555 1555 2.51 LINK SG CYS B 93 ZN ZN B 504 1555 1555 2.43 LINK SG CYS B 96 ZN ZN B 504 1555 1555 2.45 LINK SG CYS B 99 ZN ZN B 504 1555 1555 2.47 LINK SG CYS B 107 ZN ZN B 504 1555 1555 2.30 CISPEP 1 PRO A 57 PRO A 58 0 -0.28 CISPEP 2 ARG A 78 PRO A 79 0 -0.04 CISPEP 3 GLY A 190 PRO A 191 0 -0.14 CISPEP 4 PRO B 57 PRO B 58 0 0.02 CISPEP 5 ARG B 78 PRO B 79 0 0.04 CISPEP 6 GLY B 190 PRO B 191 0 -0.55 SITE 1 AC1 3 CYS A 38 HIS A 63 GLU A 64 SITE 1 AC2 5 CYS A 93 HIS A 94 CYS A 96 CYS A 99 SITE 2 AC2 5 CYS A 107 SITE 1 AC3 3 CYS B 38 HIS B 63 GLU B 64 SITE 1 AC4 5 CYS B 93 HIS B 94 CYS B 96 CYS B 99 SITE 2 AC4 5 CYS B 107 SITE 1 AC5 6 GLY A 174 PRO A 175 ILE A 176 GLY A 177 SITE 2 AC5 6 PHE A 238 ILE A 263 SITE 1 AC6 7 GLY B 174 PRO B 175 ILE B 176 GLY B 177 SITE 2 AC6 7 PHE B 238 GLY B 262 ILE B 263 CRYST1 136.349 136.349 269.714 90.00 90.00 120.00 P 61 2 2 24 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 0.007334 0.004234 0.000000 0.00000 SCALE2 0.000000 0.008469 0.000000 0.00000 SCALE3 0.000000 0.000000 0.003708 0.00000