HEADER OXIDOREDUCTASE 03-JAN-02 1KQ3 TITLE CRYSTAL STRUCTURE OF A GLYCEROL DEHYDROGENASE (TM0423) FROM THERMOTOGA TITLE 2 MARITIMA AT 1.5 A RESOLUTION COMPND MOL_ID: 1; COMPND 2 MOLECULE: GLYCEROL DEHYDROGENASE; COMPND 3 CHAIN: A; COMPND 4 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: THERMOTOGA MARITIMA; SOURCE 3 ORGANISM_TAXID: 2336; SOURCE 4 GENE: TM0423; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 7 EXPRESSION_SYSTEM_STRAIN: DL41; SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 9 EXPRESSION_SYSTEM_PLASMID: PMH1 KEYWDS GLYCEROL DEHYDROGENASE, STRUCTURAL GENOMICS, JOINT CENTER FOR KEYWDS 2 STRUCTURAL GENOMICS, JCSG, PROTEIN STRUCTURE INITIATIVE, PSI, KEYWDS 3 OXIDOREDUCTASE EXPDTA X-RAY DIFFRACTION AUTHOR I.A.WILSON,M.D.MILLER,JOINT CENTER FOR STRUCTURAL GENOMICS (JCSG) REVDAT 12 14-FEB-24 1KQ3 1 REMARK SEQADV LINK REVDAT 11 11-OCT-17 1KQ3 1 REMARK REVDAT 10 01-FEB-17 1KQ3 1 AUTHOR REVDAT 9 13-JUL-11 1KQ3 1 VERSN REVDAT 8 28-JUL-10 1KQ3 1 HEADER TITLE KEYWDS REVDAT 7 24-FEB-09 1KQ3 1 VERSN REVDAT 6 18-JAN-05 1KQ3 1 AUTHOR KEYWDS REMARK REVDAT 5 29-JUL-03 1KQ3 1 SOURCE REMARK ATOM REVDAT 4 22-JUL-03 1KQ3 1 REMARK REVDAT 3 18-SEP-02 1KQ3 1 JRNL REVDAT 2 24-JUL-02 1KQ3 1 KEYWDS REVDAT 1 27-FEB-02 1KQ3 0 JRNL AUTH S.A.LESLEY,P.KUHN,A.GODZIK,A.M.DEACON,I.MATHEWS,A.KREUSCH, JRNL AUTH 2 G.SPRAGGON,H.E.KLOCK,D.MCMULLAN,T.SHIN,J.VINCENT,A.ROBB, JRNL AUTH 3 L.S.BRINEN,M.D.MILLER,T.M.MCPHILLIPS,M.A.MILLER,D.SCHEIBE, JRNL AUTH 4 J.M.CANAVES,C.GUDA,L.JAROSZEWSKI,T.L.SELBY,M.-A.ELSLIGER, JRNL AUTH 5 J.WOOLEY,S.S.TAYLOR,K.O.HODGSON,I.A.WILSON,P.G.SCHULTZ, JRNL AUTH 6 R.C.STEVENS JRNL TITL STRUCTURAL GENOMICS OF THE THERMOTOGA MARITIMA PROTEOME JRNL TITL 2 IMPLEMENTED IN A HIGH-THROUGHPUT STRUCTURE DETERMINATION JRNL TITL 3 PIPELINE JRNL REF PROC.NATL.ACAD.SCI.USA V. 99 11664 2002 JRNL REFN ISSN 0027-8424 JRNL PMID 12193646 JRNL DOI 10.1073/PNAS.142413399 REMARK 2 REMARK 2 RESOLUTION. 1.50 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 : STANDARD CNS DICTIONARY/ENGH & HUBER REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.50 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 20.00 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) (%) : NULL REMARK 3 NUMBER OF REFLECTIONS : 61064 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) : 0.173 REMARK 3 FREE R VALUE : 0.189 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 3082 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 : 2792 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 10 REMARK 3 SOLVENT ATOMS : 227 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 15.00 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 16.10 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.39600 REMARK 3 B22 (A**2) : 0.39600 REMARK 3 B33 (A**2) : -0.79300 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) : 0.17 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) : 0.005 REMARK 3 BOND ANGLES (DEGREES) : 1.180 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) : 1.024 ; 1.500 REMARK 3 MAIN-CHAIN ANGLE (A**2) : 1.518 ; 2.000 REMARK 3 SIDE-CHAIN BOND (A**2) : 2.158 ; 2.000 REMARK 3 SIDE-CHAIN ANGLE (A**2) : 3.130 ; 2.500 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 : WATER_REP.PARAM REMARK 3 PARAMETER FILE 3 : ION.PARAM REMARK 3 PARAMETER FILE 4 : TRIS.PARAM REMARK 3 PARAMETER FILE 5 : NULL REMARK 3 PARAMETER FILE 6 : 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 TOPOLOGY FILE 5 : NULL REMARK 3 TOPOLOGY FILE 6 : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 1KQ3 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 07-JAN-02. REMARK 100 THE DEPOSITION ID IS D_1000015218. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 29-MAY-01 REMARK 200 TEMPERATURE (KELVIN) : 100.0 REMARK 200 PH : 6.20 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SSRL REMARK 200 BEAMLINE : BL9-2 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.980 REMARK 200 MONOCHROMATOR : DOUBLE CRYSTAL MONOCHROMATOR REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 4 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : MOSFLM REMARK 200 DATA SCALING SOFTWARE : SCALA, CCP4 (SCALA) REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 61417 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.500 REMARK 200 RESOLUTION RANGE LOW (A) : 20.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.4 REMARK 200 DATA REDUNDANCY : 4.500 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : 0.04400 REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 9.1000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.50 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.54 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : 4.50 REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : 0.23400 REMARK 200 <I/SIGMA(I)> FOR SHELL : 2.800 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: MAD REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MAD REMARK 200 SOFTWARE USED: SOLVE, RESOLVE REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 46.59 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.30 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 35% MPD, 0.1M NA/K PHOSPHATE, PH 6.2, REMARK 280 VAPOR DIFFUSION, SITTING DROP, TEMPERATURE 293K, PH 6.20 REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: I 4 2 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,-Y,Z REMARK 290 3555 -Y,X,Z REMARK 290 4555 Y,-X,Z REMARK 290 5555 -X,Y,-Z REMARK 290 6555 X,-Y,-Z REMARK 290 7555 Y,X,-Z REMARK 290 8555 -Y,-X,-Z REMARK 290 9555 X+1/2,Y+1/2,Z+1/2 REMARK 290 10555 -X+1/2,-Y+1/2,Z+1/2 REMARK 290 11555 -Y+1/2,X+1/2,Z+1/2 REMARK 290 12555 Y+1/2,-X+1/2,Z+1/2 REMARK 290 13555 -X+1/2,Y+1/2,-Z+1/2 REMARK 290 14555 X+1/2,-Y+1/2,-Z+1/2 REMARK 290 15555 Y+1/2,X+1/2,-Z+1/2 REMARK 290 16555 -Y+1/2,-X+1/2,-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 0.00000 REMARK 290 SMTRY1 3 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY2 4 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 5 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 6 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 0.00000 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 0.00000 REMARK 290 SMTRY1 9 1.000000 0.000000 0.000000 52.86500 REMARK 290 SMTRY2 9 0.000000 1.000000 0.000000 52.86500 REMARK 290 SMTRY3 9 0.000000 0.000000 1.000000 67.89500 REMARK 290 SMTRY1 10 -1.000000 0.000000 0.000000 52.86500 REMARK 290 SMTRY2 10 0.000000 -1.000000 0.000000 52.86500 REMARK 290 SMTRY3 10 0.000000 0.000000 1.000000 67.89500 REMARK 290 SMTRY1 11 0.000000 -1.000000 0.000000 52.86500 REMARK 290 SMTRY2 11 1.000000 0.000000 0.000000 52.86500 REMARK 290 SMTRY3 11 0.000000 0.000000 1.000000 67.89500 REMARK 290 SMTRY1 12 0.000000 1.000000 0.000000 52.86500 REMARK 290 SMTRY2 12 -1.000000 0.000000 0.000000 52.86500 REMARK 290 SMTRY3 12 0.000000 0.000000 1.000000 67.89500 REMARK 290 SMTRY1 13 -1.000000 0.000000 0.000000 52.86500 REMARK 290 SMTRY2 13 0.000000 1.000000 0.000000 52.86500 REMARK 290 SMTRY3 13 0.000000 0.000000 -1.000000 67.89500 REMARK 290 SMTRY1 14 1.000000 0.000000 0.000000 52.86500 REMARK 290 SMTRY2 14 0.000000 -1.000000 0.000000 52.86500 REMARK 290 SMTRY3 14 0.000000 0.000000 -1.000000 67.89500 REMARK 290 SMTRY1 15 0.000000 1.000000 0.000000 52.86500 REMARK 290 SMTRY2 15 1.000000 0.000000 0.000000 52.86500 REMARK 290 SMTRY3 15 0.000000 0.000000 -1.000000 67.89500 REMARK 290 SMTRY1 16 0.000000 -1.000000 0.000000 52.86500 REMARK 290 SMTRY2 16 -1.000000 0.000000 0.000000 52.86500 REMARK 290 SMTRY3 16 0.000000 0.000000 -1.000000 67.89500 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 300 REMARK: THE FUNCTIONAL MOLECULE IS A MONOMER. REMARK 300 THE COORDINATES DESCRIBE THE ASYMMETRIC UNIT. 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 SOFTWARE DETERMINED QUATERNARY STRUCTURE: OCTAMERIC REMARK 350 SOFTWARE USED: PISA,PQS REMARK 350 TOTAL BURIED SURFACE AREA: 32390 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 94950 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -526.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 350 BIOMT1 2 -1.000000 0.000000 0.000000 105.73000 REMARK 350 BIOMT2 2 0.000000 -1.000000 0.000000 105.73000 REMARK 350 BIOMT3 2 0.000000 0.000000 1.000000 0.00000 REMARK 350 BIOMT1 3 0.000000 -1.000000 0.000000 105.73000 REMARK 350 BIOMT2 3 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT3 3 0.000000 0.000000 1.000000 0.00000 REMARK 350 BIOMT1 4 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT2 4 -1.000000 0.000000 0.000000 105.73000 REMARK 350 BIOMT3 4 0.000000 0.000000 1.000000 0.00000 REMARK 350 BIOMT1 5 -1.000000 0.000000 0.000000 105.73000 REMARK 350 BIOMT2 5 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 5 0.000000 0.000000 -1.000000 0.00000 REMARK 350 BIOMT1 6 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 6 0.000000 -1.000000 0.000000 105.73000 REMARK 350 BIOMT3 6 0.000000 0.000000 -1.000000 0.00000 REMARK 350 BIOMT1 7 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT2 7 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT3 7 0.000000 0.000000 -1.000000 0.00000 REMARK 350 BIOMT1 8 0.000000 -1.000000 0.000000 105.73000 REMARK 350 BIOMT2 8 -1.000000 0.000000 0.000000 105.73000 REMARK 350 BIOMT3 8 0.000000 0.000000 -1.000000 0.00000 REMARK 375 REMARK 375 SPECIAL POSITION REMARK 375 THE FOLLOWING ATOMS ARE FOUND TO BE WITHIN 0.15 ANGSTROMS REMARK 375 OF A SYMMETRY RELATED ATOM AND ARE ASSUMED TO BE ON SPECIAL REMARK 375 POSITIONS. REMARK 375 REMARK 375 ATOM RES CSSEQI REMARK 375 HOH A2995 LIES ON A SPECIAL POSITION. 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 -11 REMARK 465 GLY A -10 REMARK 465 SER A -9 REMARK 465 ASP A -8 REMARK 465 LYS A -7 REMARK 465 ILE A -6 REMARK 465 HIS A -5 REMARK 465 HIS A -4 REMARK 465 HIS A -3 REMARK 465 HIS A -2 REMARK 465 HIS A -1 REMARK 465 THR A 364 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 HOH A 2975 O HOH A 3062 2.07 REMARK 500 REMARK 500 REMARK: NULL 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 MET A 167 SD MET A 167 CE -0.608 REMARK 500 MET A 321 SD MET A 321 CE -0.382 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 ALA A 116 61.99 -113.61 REMARK 500 ALA A 124 58.42 -93.65 REMARK 500 ALA A 249 -123.14 -152.30 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 401 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 169 OD1 REMARK 620 2 HIS A 252 NE2 95.6 REMARK 620 3 HIS A 269 NE2 91.7 102.9 REMARK 620 4 TRS A2922 N 169.8 91.7 93.5 REMARK 620 5 TRS A2922 O2 91.0 87.3 169.1 82.4 REMARK 620 6 TRS A2922 O1 101.6 160.3 86.0 70.1 83.2 REMARK 620 N 1 2 3 4 5 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 401 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CL A 501 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE TRS A 2922 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1JPU RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF BACILLUS STEAROTHERMOPHILUS GLYCEROL REMARK 900 DEHYDROGENASE REMARK 900 RELATED ID: 1JQ5 RELATED DB: PDB REMARK 900 BACILLUS STEAROTHERMOPHILUS GLYCEROL DEHYDROGENASE COMPLEX WITH NAD+ REMARK 900 RELATED ID: 1JQA RELATED DB: PDB REMARK 900 BACILLUS STERATHERMOPHILUS GLYCEROL DEHYDROGENASE COMPLEX WITH REMARK 900 GLYCEROL REMARK 900 RELATED ID: 282296 RELATED DB: TARGETDB DBREF 1KQ3 A 1 364 UNP Q9WYQ4 Q9WYQ4_THEMA 1 364 SEQADV 1KQ3 MET A -11 UNP Q9WYQ4 EXPRESSION TAG SEQADV 1KQ3 GLY A -10 UNP Q9WYQ4 EXPRESSION TAG SEQADV 1KQ3 SER A -9 UNP Q9WYQ4 EXPRESSION TAG SEQADV 1KQ3 ASP A -8 UNP Q9WYQ4 EXPRESSION TAG SEQADV 1KQ3 LYS A -7 UNP Q9WYQ4 EXPRESSION TAG SEQADV 1KQ3 ILE A -6 UNP Q9WYQ4 EXPRESSION TAG SEQADV 1KQ3 HIS A -5 UNP Q9WYQ4 EXPRESSION TAG SEQADV 1KQ3 HIS A -4 UNP Q9WYQ4 EXPRESSION TAG SEQADV 1KQ3 HIS A -3 UNP Q9WYQ4 EXPRESSION TAG SEQADV 1KQ3 HIS A -2 UNP Q9WYQ4 EXPRESSION TAG SEQADV 1KQ3 HIS A -1 UNP Q9WYQ4 EXPRESSION TAG SEQADV 1KQ3 HIS A 0 UNP Q9WYQ4 EXPRESSION TAG SEQRES 1 A 376 MET GLY SER ASP LYS ILE HIS HIS HIS HIS HIS HIS MET SEQRES 2 A 376 ILE THR THR THR ILE PHE PRO GLY ARG TYR VAL GLN GLY SEQRES 3 A 376 ALA GLY ALA ILE ASN ILE LEU GLU GLU GLU LEU SER ARG SEQRES 4 A 376 PHE GLY GLU ARG ALA PHE VAL VAL ILE ASP ASP PHE VAL SEQRES 5 A 376 ASP LYS ASN VAL LEU GLY GLU ASN PHE PHE SER SER PHE SEQRES 6 A 376 THR LYS VAL ARG VAL ASN LYS GLN ILE PHE GLY GLY GLU SEQRES 7 A 376 CYS SER ASP GLU GLU ILE GLU ARG LEU SER GLY LEU VAL SEQRES 8 A 376 GLU GLU GLU THR ASP VAL VAL VAL GLY ILE GLY GLY GLY SEQRES 9 A 376 LYS THR LEU ASP THR ALA LYS ALA VAL ALA TYR LYS LEU SEQRES 10 A 376 LYS LYS PRO VAL VAL ILE VAL PRO THR ILE ALA SER THR SEQRES 11 A 376 ASP ALA PRO CYS SER ALA LEU SER VAL ILE TYR THR PRO SEQRES 12 A 376 ASN GLY GLU PHE LYS ARG TYR LEU PHE LEU PRO ARG ASN SEQRES 13 A 376 PRO ASP VAL VAL LEU VAL ASP THR GLU ILE VAL ALA LYS SEQRES 14 A 376 ALA PRO ALA ARG PHE LEU VAL ALA GLY MET GLY ASP ALA SEQRES 15 A 376 LEU ALA THR TRP PHE GLU ALA GLU SER CYS LYS GLN LYS SEQRES 16 A 376 TYR ALA PRO ASN MET THR GLY ARG LEU GLY SER MET THR SEQRES 17 A 376 ALA TYR ALA LEU ALA ARG LEU CYS TYR GLU THR LEU LEU SEQRES 18 A 376 GLU TYR GLY VAL LEU ALA LYS ARG SER VAL GLU GLU LYS SEQRES 19 A 376 SER VAL THR PRO ALA LEU GLU LYS ILE VAL GLU ALA ASN SEQRES 20 A 376 THR LEU LEU SER GLY LEU GLY PHE GLU SER GLY GLY LEU SEQRES 21 A 376 ALA ALA ALA HIS ALA ILE HIS ASN GLY LEU THR VAL LEU SEQRES 22 A 376 GLU ASN THR HIS LYS TYR LEU HIS GLY GLU LYS VAL ALA SEQRES 23 A 376 ILE GLY VAL LEU ALA SER LEU PHE LEU THR ASP LYS PRO SEQRES 24 A 376 ARG LYS MET ILE GLU GLU VAL TYR SER PHE CYS GLU GLU SEQRES 25 A 376 VAL GLY LEU PRO THR THR LEU ALA GLU ILE GLY LEU ASP SEQRES 26 A 376 GLY VAL SER ASP GLU ASP LEU MET LYS VAL ALA GLU LYS SEQRES 27 A 376 ALA CYS ASP LYS ASN GLU THR ILE HIS ASN GLU PRO GLN SEQRES 28 A 376 PRO VAL THR SER LYS ASP VAL PHE PHE ALA LEU LYS ALA SEQRES 29 A 376 ALA ASP ARG TYR GLY ARG MET ARG LYS ASN LEU THR HET ZN A 401 1 HET CL A 501 1 HET TRS A2922 8 HETNAM ZN ZINC ION HETNAM CL CHLORIDE ION HETNAM TRS 2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL HETSYN TRS TRIS BUFFER FORMUL 2 ZN ZN 2+ FORMUL 3 CL CL 1- FORMUL 4 TRS C4 H12 N O3 1+ FORMUL 5 HOH *227(H2 O) HELIX 1 1 GLY A 16 ASN A 19 5 4 HELIX 2 2 ILE A 20 ARG A 27 1 8 HELIX 3 3 ASP A 37 VAL A 44 1 8 HELIX 4 4 ASN A 48 PHE A 53 5 6 HELIX 5 5 SER A 68 GLY A 77 1 10 HELIX 6 6 GLY A 91 LEU A 105 1 15 HELIX 7 7 THR A 152 ALA A 158 1 7 HELIX 8 8 PRO A 159 TYR A 184 1 26 HELIX 9 9 SER A 194 GLU A 221 1 28 HELIX 10 10 THR A 225 GLY A 247 1 23 HELIX 11 11 ALA A 249 THR A 259 1 11 HELIX 12 12 VAL A 260 HIS A 265 5 6 HELIX 13 13 LEU A 268 THR A 284 1 17 HELIX 14 14 PRO A 287 GLY A 302 1 16 HELIX 15 15 THR A 306 GLY A 311 5 6 HELIX 16 16 SER A 316 CYS A 328 1 13 HELIX 17 17 GLU A 332 GLU A 337 5 6 HELIX 18 18 THR A 342 LYS A 361 1 20 SHEET 1 A 6 ARG A 10 GLY A 14 0 SHEET 2 A 6 VAL A 147 ASP A 151 1 O VAL A 148 N VAL A 12 SHEET 3 A 6 VAL A 109 PRO A 113 1 N ILE A 111 O VAL A 147 SHEET 4 A 6 VAL A 85 GLY A 90 1 N GLY A 88 O VAL A 112 SHEET 5 A 6 ARG A 31 ILE A 36 1 N VAL A 35 O VAL A 87 SHEET 6 A 6 ARG A 57 ILE A 62 1 O GLN A 61 N VAL A 34 SHEET 1 B 2 LEU A 125 TYR A 129 0 SHEET 2 B 2 PHE A 135 PHE A 140 -1 O LEU A 139 N SER A 126 LINK OD1 ASP A 169 ZN ZN A 401 1555 1555 2.10 LINK NE2 HIS A 252 ZN ZN A 401 1555 1555 2.07 LINK NE2 HIS A 269 ZN ZN A 401 1555 1555 2.06 LINK ZN ZN A 401 N TRS A2922 1555 1555 2.21 LINK ZN ZN A 401 O2 TRS A2922 1555 1555 2.11 LINK ZN ZN A 401 O1 TRS A2922 1555 1555 2.13 SITE 1 AC1 4 ASP A 169 HIS A 252 HIS A 269 TRS A2922 SITE 1 AC2 7 ASP A 119 ASP A 169 THR A 173 SER A 239 SITE 2 AC2 7 HIS A 252 TRS A2922 HOH A2932 SITE 1 AC3 8 ASP A 119 ASP A 169 PHE A 243 HIS A 252 SITE 2 AC3 8 HIS A 269 ZN A 401 CL A 501 HOH A3121 CRYST1 105.730 105.730 135.790 90.00 90.00 90.00 I 4 2 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 0.009458 0.000000 0.000000 0.00000 SCALE2 0.000000 0.009458 0.000000 0.00000 SCALE3 0.000000 0.000000 0.007364 0.00000