HEADER OXIDOREDUCTASE 30-SEP-14 4RGV TITLE CRYSTAL STRUCTURE OF THE METHANOCALDOCOCCUS JANNASCHII G1PDH COMPND MOL_ID: 1; COMPND 2 MOLECULE: GLYCEROL-1-PHOSPHATE DEHYDROGENASE; COMPND 3 CHAIN: A, B; COMPND 4 SYNONYM: G1P DEHYDROGENASE, G1PDH, ENANTIOMERIC GLYCEROPHOSPHATE COMPND 5 SYNTHASE, SN-GLYCEROL-1-PHOSPHATE DEHYDROGENASE; COMPND 6 EC: 1.1.1.261; COMPND 7 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: METHANOCALDOCOCCUS JANNASCHII; SOURCE 3 ORGANISM_TAXID: 243232; SOURCE 4 STRAIN: ATCC 43067 / DSM 2661 / JAL-1 / JCM 10045 / NBRC 100440; SOURCE 5 GENE: EGSA, MJ0712; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: ROSETTA 2 (DE3); SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PET151D KEYWDS DEHYDROGENASE, OXIDOREDUCTASE, ROSSMAN FOLD, METAL ION BINDING, KEYWDS 2 NADP(H) BINDING, ZN BINDING, SN-GLYCEROL-1-PHOSPHATE DEHYDROGENASE EXPDTA X-RAY DIFFRACTION AUTHOR V.CARBONE,R.S.RONIMUS,L.R.SCHOFIELD,A.J.SUTHERLAND-SMITH REVDAT 6 20-SEP-23 4RGV 1 REMARK SEQADV LINK REVDAT 5 22-NOV-17 4RGV 1 REMARK REVDAT 4 30-SEP-15 4RGV 1 REMARK REVDAT 3 23-SEP-15 4RGV 1 JRNL REVDAT 2 02-SEP-15 4RGV 1 JRNL REVDAT 1 22-JUL-15 4RGV 0 JRNL AUTH V.CARBONE,L.R.SCHOFIELD,Y.ZHANG,C.SANG,D.DEY,I.M.HANNUS, JRNL AUTH 2 W.F.MARTIN,A.J.SUTHERLAND-SMITH,R.S.RONIMUS JRNL TITL STRUCTURE AND EVOLUTION OF THE ARCHAEAL LIPID SYNTHESIS JRNL TITL 2 ENZYME SN-GLYCEROL-1-PHOSPHATE DEHYDROGENASE. JRNL REF J.BIOL.CHEM. V. 290 21690 2015 JRNL REFN ISSN 0021-9258 JRNL PMID 26175150 JRNL DOI 10.1074/JBC.M115.647461 REMARK 2 REMARK 2 RESOLUTION. 2.45 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.8.0049 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) : 2.45 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 46.07 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : NULL REMARK 3 NUMBER OF REFLECTIONS : 24057 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) : 0.193 REMARK 3 R VALUE (WORKING SET) : 0.193 REMARK 3 FREE R VALUE : 0.231 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 1318 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) : 2.46 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.52 REMARK 3 REFLECTION IN BIN (WORKING SET) : 1733 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 94.59 REMARK 3 BIN R VALUE (WORKING SET) : 0.2750 REMARK 3 BIN FREE R VALUE SET COUNT : 87 REMARK 3 BIN FREE R VALUE : 0.3570 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 5164 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 4 REMARK 3 SOLVENT ATOMS : 20 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 61.58 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 1.82000 REMARK 3 B22 (A**2) : 1.03000 REMARK 3 B33 (A**2) : -2.85000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : -0.04000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.609 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.270 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.248 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 25.488 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.954 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.939 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 5250 ; 0.015 ; 0.019 REMARK 3 BOND LENGTHS OTHERS (A): 5248 ; 0.002 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 7071 ; 1.526 ; 1.985 REMARK 3 BOND ANGLES OTHERS (DEGREES): 12135 ; 2.503 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 656 ; 5.351 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 202 ;37.677 ;24.653 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 1014 ;21.074 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 23 ;20.736 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 823 ; 0.092 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 5745 ; 0.007 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 1070 ; 0.016 ; 0.020 REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): NULL ; NULL ; NULL 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): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): NULL ; NULL ; NULL 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): 2639 ; 2.190 ; 3.175 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 2638 ; 2.190 ; 3.174 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 3290 ; 3.343 ; 4.757 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): 3291 ; 3.342 ; 4.757 REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 2611 ; 2.641 ; 3.436 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): 2611 ; 2.641 ; 3.436 REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): 3781 ; 3.924 ; 5.061 REMARK 3 LONG RANGE B REFINED ATOMS (A**2): 6051 ; 5.413 ;25.325 REMARK 3 LONG RANGE B OTHER ATOMS (A**2): 6051 ; 5.413 ;25.321 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 NCS TYPE: LOCAL REMARK 3 NUMBER OF DIFFERENT NCS PAIRS : 3 REMARK 3 GROUP CHAIN1 RANGE CHAIN2 RANGE COUNT RMS WEIGHT REMARK 3 1 A 2 63 B 2 59 2722 0.20 0.05 REMARK 3 2 A 63 112 B 63 112 2412 0.13 0.05 REMARK 3 3 A 116 334 B 116 334 12653 0.16 0.05 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 2 REMARK 3 REMARK 3 TLS GROUP : 1 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 2 A 335 REMARK 3 ORIGIN FOR THE GROUP (A): 20.8428 0.0726 44.1090 REMARK 3 T TENSOR REMARK 3 T11: 0.2470 T22: 0.2914 REMARK 3 T33: 0.0184 T12: 0.0354 REMARK 3 T13: 0.0333 T23: 0.0190 REMARK 3 L TENSOR REMARK 3 L11: 1.1858 L22: 2.7221 REMARK 3 L33: 2.9680 L12: 0.6395 REMARK 3 L13: -0.7426 L23: -1.1763 REMARK 3 S TENSOR REMARK 3 S11: -0.0382 S12: -0.1339 S13: 0.0502 REMARK 3 S21: 0.2123 S22: 0.1698 S23: 0.2133 REMARK 3 S31: -0.1858 S32: -0.5735 S33: -0.1316 REMARK 3 REMARK 3 TLS GROUP : 2 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : B 1 B 335 REMARK 3 ORIGIN FOR THE GROUP (A): 33.4428 -14.1121 15.9382 REMARK 3 T TENSOR REMARK 3 T11: 0.2849 T22: 0.2138 REMARK 3 T33: 0.0460 T12: -0.0558 REMARK 3 T13: 0.0662 T23: -0.0347 REMARK 3 L TENSOR REMARK 3 L11: 1.5410 L22: 2.9239 REMARK 3 L33: 2.5822 L12: -0.2766 REMARK 3 L13: 0.1454 L23: -0.3113 REMARK 3 S TENSOR REMARK 3 S11: 0.0467 S12: 0.3487 S13: -0.0797 REMARK 3 S21: -0.3258 S22: -0.0421 S23: -0.3108 REMARK 3 S31: 0.1255 S32: 0.1132 S33: -0.0045 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : MASK REMARK 3 PARAMETERS FOR MASK CALCULATION REMARK 3 VDW PROBE RADIUS : 1.20 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 4RGV COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 03-OCT-14. REMARK 100 THE DEPOSITION ID IS D_1000087330. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 26-NOV-12 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 8.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : AUSTRALIAN SYNCHROTRON REMARK 200 BEAMLINE : MX2 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.91840 REMARK 200 MONOCHROMATOR : SILICON DOUBLE CRYSTAL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 315 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : SCALA REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 25920 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.450 REMARK 200 RESOLUTION RANGE LOW (A) : 46.070 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 2.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 98.4 REMARK 200 DATA REDUNDANCY : NULL REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : NULL REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.45 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.56 REMARK 200 COMPLETENESS FOR SHELL (%) : 98.5 REMARK 200 DATA REDUNDANCY IN SHELL : 3.10 REMARK 200 R MERGE FOR SHELL (I) : 0.55100 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 2.000 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: 3CE9 REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 43.03 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.16 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 30% (V/V) P550MME/P20K, 0.1 M TRIS, PH REMARK 280 8.5, VAPOR DIFFUSION, SITTING DROP, TEMPERATURE 294K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 1 21 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,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 29.77600 REMARK 290 SMTRY3 2 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 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: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 2600 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 28590 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -110.0 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 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 -32 REMARK 465 HIS A -31 REMARK 465 HIS A -30 REMARK 465 HIS A -29 REMARK 465 HIS A -28 REMARK 465 HIS A -27 REMARK 465 HIS A -26 REMARK 465 GLY A -25 REMARK 465 LYS A -24 REMARK 465 PRO A -23 REMARK 465 ILE A -22 REMARK 465 PRO A -21 REMARK 465 ASN A -20 REMARK 465 PRO A -19 REMARK 465 LEU A -18 REMARK 465 LEU A -17 REMARK 465 GLY A -16 REMARK 465 LEU A -15 REMARK 465 ASP A -14 REMARK 465 SER A -13 REMARK 465 THR A -12 REMARK 465 GLU A -11 REMARK 465 ASN A -10 REMARK 465 LEU A -9 REMARK 465 TYR A -8 REMARK 465 PHE A -7 REMARK 465 GLN A -6 REMARK 465 GLY A -5 REMARK 465 ILE A -4 REMARK 465 ASP A -3 REMARK 465 PRO A -2 REMARK 465 PHE A -1 REMARK 465 THR A 0 REMARK 465 MET A 1 REMARK 465 LEU A 59 REMARK 465 GLU A 60 REMARK 465 ILE A 61 REMARK 465 GLU A 62 REMARK 465 ILE A 114 REMARK 465 ARG A 115 REMARK 465 MET B -32 REMARK 465 HIS B -31 REMARK 465 HIS B -30 REMARK 465 HIS B -29 REMARK 465 HIS B -28 REMARK 465 HIS B -27 REMARK 465 HIS B -26 REMARK 465 GLY B -25 REMARK 465 LYS B -24 REMARK 465 PRO B -23 REMARK 465 ILE B -22 REMARK 465 PRO B -21 REMARK 465 ASN B -20 REMARK 465 PRO B -19 REMARK 465 LEU B -18 REMARK 465 LEU B -17 REMARK 465 GLY B -16 REMARK 465 LEU B -15 REMARK 465 ASP B -14 REMARK 465 SER B -13 REMARK 465 THR B -12 REMARK 465 GLU B -11 REMARK 465 ASN B -10 REMARK 465 LEU B -9 REMARK 465 TYR B -8 REMARK 465 PHE B -7 REMARK 465 GLN B -6 REMARK 465 GLY B -5 REMARK 465 ILE B -4 REMARK 465 ASP B -3 REMARK 465 PRO B -2 REMARK 465 PHE B -1 REMARK 465 THR B 0 REMARK 465 ILE B 61 REMARK 465 GLU B 62 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 ASN A 27 60.23 38.23 REMARK 500 ASN A 30 81.73 -153.04 REMARK 500 VAL A 121 -160.56 -111.64 REMARK 500 ASN A 242 42.12 -100.37 REMARK 500 LYS A 267 -8.28 -57.83 REMARK 500 ARG A 317 -123.55 43.09 REMARK 500 LEU B 59 22.86 -75.81 REMARK 500 VAL B 121 -153.56 -117.39 REMARK 500 ASN B 242 40.52 -109.45 REMARK 500 ARG B 317 -127.39 65.49 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 MG A 401 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 148 O REMARK 620 2 ASN A 152 OD1 91.6 REMARK 620 3 ALA A 221 O 142.0 85.8 REMARK 620 N 1 2 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN A 402 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 148 OD1 REMARK 620 2 HIS A 226 NE2 121.3 REMARK 620 3 HIS A 247 NE2 103.3 88.1 REMARK 620 N 1 2 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG B 401 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP B 148 O REMARK 620 2 ASN B 152 OD1 94.1 REMARK 620 3 ALA B 221 O 141.9 92.7 REMARK 620 N 1 2 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 ASP B 148 OD1 REMARK 620 2 HIS B 226 NE2 114.4 REMARK 620 3 HIS B 247 NE2 112.6 95.4 REMARK 620 N 1 2 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG A 401 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN A 402 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG B 401 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN B 402 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 4RFL RELATED DB: PDB REMARK 900 THE SAME PROTEIN COMPLEXED WITH NADPH REMARK 900 RELATED ID: 4RGQ RELATED DB: PDB REMARK 900 THE SAME PROTEIN COMPLEXED WITH NADPH AND DHAP DBREF 4RGV A 1 335 UNP Q58122 G1PDH_METJA 1 335 DBREF 4RGV B 1 335 UNP Q58122 G1PDH_METJA 1 335 SEQADV 4RGV MET A -32 UNP Q58122 EXPRESSION TAG SEQADV 4RGV HIS A -31 UNP Q58122 EXPRESSION TAG SEQADV 4RGV HIS A -30 UNP Q58122 EXPRESSION TAG SEQADV 4RGV HIS A -29 UNP Q58122 EXPRESSION TAG SEQADV 4RGV HIS A -28 UNP Q58122 EXPRESSION TAG SEQADV 4RGV HIS A -27 UNP Q58122 EXPRESSION TAG SEQADV 4RGV HIS A -26 UNP Q58122 EXPRESSION TAG SEQADV 4RGV GLY A -25 UNP Q58122 EXPRESSION TAG SEQADV 4RGV LYS A -24 UNP Q58122 EXPRESSION TAG SEQADV 4RGV PRO A -23 UNP Q58122 EXPRESSION TAG SEQADV 4RGV ILE A -22 UNP Q58122 EXPRESSION TAG SEQADV 4RGV PRO A -21 UNP Q58122 EXPRESSION TAG SEQADV 4RGV ASN A -20 UNP Q58122 EXPRESSION TAG SEQADV 4RGV PRO A -19 UNP Q58122 EXPRESSION TAG SEQADV 4RGV LEU A -18 UNP Q58122 EXPRESSION TAG SEQADV 4RGV LEU A -17 UNP Q58122 EXPRESSION TAG SEQADV 4RGV GLY A -16 UNP Q58122 EXPRESSION TAG SEQADV 4RGV LEU A -15 UNP Q58122 EXPRESSION TAG SEQADV 4RGV ASP A -14 UNP Q58122 EXPRESSION TAG SEQADV 4RGV SER A -13 UNP Q58122 EXPRESSION TAG SEQADV 4RGV THR A -12 UNP Q58122 EXPRESSION TAG SEQADV 4RGV GLU A -11 UNP Q58122 EXPRESSION TAG SEQADV 4RGV ASN A -10 UNP Q58122 EXPRESSION TAG SEQADV 4RGV LEU A -9 UNP Q58122 EXPRESSION TAG SEQADV 4RGV TYR A -8 UNP Q58122 EXPRESSION TAG SEQADV 4RGV PHE A -7 UNP Q58122 EXPRESSION TAG SEQADV 4RGV GLN A -6 UNP Q58122 EXPRESSION TAG SEQADV 4RGV GLY A -5 UNP Q58122 EXPRESSION TAG SEQADV 4RGV ILE A -4 UNP Q58122 EXPRESSION TAG SEQADV 4RGV ASP A -3 UNP Q58122 EXPRESSION TAG SEQADV 4RGV PRO A -2 UNP Q58122 EXPRESSION TAG SEQADV 4RGV PHE A -1 UNP Q58122 EXPRESSION TAG SEQADV 4RGV THR A 0 UNP Q58122 EXPRESSION TAG SEQADV 4RGV MET B -32 UNP Q58122 EXPRESSION TAG SEQADV 4RGV HIS B -31 UNP Q58122 EXPRESSION TAG SEQADV 4RGV HIS B -30 UNP Q58122 EXPRESSION TAG SEQADV 4RGV HIS B -29 UNP Q58122 EXPRESSION TAG SEQADV 4RGV HIS B -28 UNP Q58122 EXPRESSION TAG SEQADV 4RGV HIS B -27 UNP Q58122 EXPRESSION TAG SEQADV 4RGV HIS B -26 UNP Q58122 EXPRESSION TAG SEQADV 4RGV GLY B -25 UNP Q58122 EXPRESSION TAG SEQADV 4RGV LYS B -24 UNP Q58122 EXPRESSION TAG SEQADV 4RGV PRO B -23 UNP Q58122 EXPRESSION TAG SEQADV 4RGV ILE B -22 UNP Q58122 EXPRESSION TAG SEQADV 4RGV PRO B -21 UNP Q58122 EXPRESSION TAG SEQADV 4RGV ASN B -20 UNP Q58122 EXPRESSION TAG SEQADV 4RGV PRO B -19 UNP Q58122 EXPRESSION TAG SEQADV 4RGV LEU B -18 UNP Q58122 EXPRESSION TAG SEQADV 4RGV LEU B -17 UNP Q58122 EXPRESSION TAG SEQADV 4RGV GLY B -16 UNP Q58122 EXPRESSION TAG SEQADV 4RGV LEU B -15 UNP Q58122 EXPRESSION TAG SEQADV 4RGV ASP B -14 UNP Q58122 EXPRESSION TAG SEQADV 4RGV SER B -13 UNP Q58122 EXPRESSION TAG SEQADV 4RGV THR B -12 UNP Q58122 EXPRESSION TAG SEQADV 4RGV GLU B -11 UNP Q58122 EXPRESSION TAG SEQADV 4RGV ASN B -10 UNP Q58122 EXPRESSION TAG SEQADV 4RGV LEU B -9 UNP Q58122 EXPRESSION TAG SEQADV 4RGV TYR B -8 UNP Q58122 EXPRESSION TAG SEQADV 4RGV PHE B -7 UNP Q58122 EXPRESSION TAG SEQADV 4RGV GLN B -6 UNP Q58122 EXPRESSION TAG SEQADV 4RGV GLY B -5 UNP Q58122 EXPRESSION TAG SEQADV 4RGV ILE B -4 UNP Q58122 EXPRESSION TAG SEQADV 4RGV ASP B -3 UNP Q58122 EXPRESSION TAG SEQADV 4RGV PRO B -2 UNP Q58122 EXPRESSION TAG SEQADV 4RGV PHE B -1 UNP Q58122 EXPRESSION TAG SEQADV 4RGV THR B 0 UNP Q58122 EXPRESSION TAG SEQRES 1 A 368 MET HIS HIS HIS HIS HIS HIS GLY LYS PRO ILE PRO ASN SEQRES 2 A 368 PRO LEU LEU GLY LEU ASP SER THR GLU ASN LEU TYR PHE SEQRES 3 A 368 GLN GLY ILE ASP PRO PHE THR MET ILE ILE VAL THR PRO SEQRES 4 A 368 ARG TYR THR ILE ILE GLU ASP GLY ALA ILE ASN LYS ILE SEQRES 5 A 368 GLU GLU ILE LEU LYS LYS LEU ASN LEU LYS ASN PRO LEU SEQRES 6 A 368 VAL ILE THR GLY LYS ASN THR LYS LYS TYR CYS ARG PHE SEQRES 7 A 368 PHE TYR ASP ILE VAL TYR TYR ASP GLU ILE LEU ASN ASN SEQRES 8 A 368 LEU GLU ILE GLU LEU LYS LYS TYR THR ALA TYR ASP CYS SEQRES 9 A 368 VAL ILE GLY ILE GLY GLY GLY ARG SER ILE ASP THR GLY SEQRES 10 A 368 LYS TYR LEU ALA TYR LYS LEU GLY ILE PRO PHE ILE SER SEQRES 11 A 368 VAL PRO THR THR ALA SER ASN ASP GLY ILE ALA SER PRO SEQRES 12 A 368 ILE VAL SER ILE ARG GLN PRO SER PHE MET VAL ASP ALA SEQRES 13 A 368 PRO ILE ALA ILE ILE ALA ASP THR GLU ILE ILE LYS LYS SEQRES 14 A 368 SER PRO ARG ARG LEU LEU SER ALA GLY MET GLY ASP ILE SEQRES 15 A 368 VAL SER ASN ILE THR ALA VAL LEU ASP TRP LYS LEU ALA SEQRES 16 A 368 TYR LYS GLU LYS GLY GLU LYS TYR SER GLU SER SER ALA SEQRES 17 A 368 ILE PHE SER LYS THR ILE ALA LYS GLU LEU ILE SER TYR SEQRES 18 A 368 VAL LEU ASN SER ASP LEU SER GLU TYR HIS ASN LYS LEU SEQRES 19 A 368 VAL LYS ALA LEU VAL GLY SER GLY ILE ALA ILE ALA ILE SEQRES 20 A 368 ALA ASN SER SER ARG PRO ALA SER GLY SER GLU HIS LEU SEQRES 21 A 368 PHE SER HIS ALA LEU ASP LYS LEU LYS GLU GLU TYR ASN SEQRES 22 A 368 LEU ASN ILE ASN SER LEU HIS GLY GLU GLN CYS GLY ILE SEQRES 23 A 368 GLY THR ILE MET MET SER TYR LEU HIS GLU LYS GLU ASN SEQRES 24 A 368 LYS LYS LEU SER GLY LEU HIS GLU LYS ILE LYS MET SER SEQRES 25 A 368 LEU LYS LYS VAL ASP ALA PRO THR THR ALA LYS GLU LEU SEQRES 26 A 368 GLY PHE ASP GLU ASP ILE ILE ILE GLU ALA LEU THR MET SEQRES 27 A 368 ALA HIS LYS ILE ARG ASN ARG TRP THR ILE LEU ARG ASP SEQRES 28 A 368 GLY LEU SER ARG GLU GLU ALA ARG LYS LEU ALA GLU GLU SEQRES 29 A 368 THR GLY VAL ILE SEQRES 1 B 368 MET HIS HIS HIS HIS HIS HIS GLY LYS PRO ILE PRO ASN SEQRES 2 B 368 PRO LEU LEU GLY LEU ASP SER THR GLU ASN LEU TYR PHE SEQRES 3 B 368 GLN GLY ILE ASP PRO PHE THR MET ILE ILE VAL THR PRO SEQRES 4 B 368 ARG TYR THR ILE ILE GLU ASP GLY ALA ILE ASN LYS ILE SEQRES 5 B 368 GLU GLU ILE LEU LYS LYS LEU ASN LEU LYS ASN PRO LEU SEQRES 6 B 368 VAL ILE THR GLY LYS ASN THR LYS LYS TYR CYS ARG PHE SEQRES 7 B 368 PHE TYR ASP ILE VAL TYR TYR ASP GLU ILE LEU ASN ASN SEQRES 8 B 368 LEU GLU ILE GLU LEU LYS LYS TYR THR ALA TYR ASP CYS SEQRES 9 B 368 VAL ILE GLY ILE GLY GLY GLY ARG SER ILE ASP THR GLY SEQRES 10 B 368 LYS TYR LEU ALA TYR LYS LEU GLY ILE PRO PHE ILE SER SEQRES 11 B 368 VAL PRO THR THR ALA SER ASN ASP GLY ILE ALA SER PRO SEQRES 12 B 368 ILE VAL SER ILE ARG GLN PRO SER PHE MET VAL ASP ALA SEQRES 13 B 368 PRO ILE ALA ILE ILE ALA ASP THR GLU ILE ILE LYS LYS SEQRES 14 B 368 SER PRO ARG ARG LEU LEU SER ALA GLY MET GLY ASP ILE SEQRES 15 B 368 VAL SER ASN ILE THR ALA VAL LEU ASP TRP LYS LEU ALA SEQRES 16 B 368 TYR LYS GLU LYS GLY GLU LYS TYR SER GLU SER SER ALA SEQRES 17 B 368 ILE PHE SER LYS THR ILE ALA LYS GLU LEU ILE SER TYR SEQRES 18 B 368 VAL LEU ASN SER ASP LEU SER GLU TYR HIS ASN LYS LEU SEQRES 19 B 368 VAL LYS ALA LEU VAL GLY SER GLY ILE ALA ILE ALA ILE SEQRES 20 B 368 ALA ASN SER SER ARG PRO ALA SER GLY SER GLU HIS LEU SEQRES 21 B 368 PHE SER HIS ALA LEU ASP LYS LEU LYS GLU GLU TYR ASN SEQRES 22 B 368 LEU ASN ILE ASN SER LEU HIS GLY GLU GLN CYS GLY ILE SEQRES 23 B 368 GLY THR ILE MET MET SER TYR LEU HIS GLU LYS GLU ASN SEQRES 24 B 368 LYS LYS LEU SER GLY LEU HIS GLU LYS ILE LYS MET SER SEQRES 25 B 368 LEU LYS LYS VAL ASP ALA PRO THR THR ALA LYS GLU LEU SEQRES 26 B 368 GLY PHE ASP GLU ASP ILE ILE ILE GLU ALA LEU THR MET SEQRES 27 B 368 ALA HIS LYS ILE ARG ASN ARG TRP THR ILE LEU ARG ASP SEQRES 28 B 368 GLY LEU SER ARG GLU GLU ALA ARG LYS LEU ALA GLU GLU SEQRES 29 B 368 THR GLY VAL ILE HET MG A 401 1 HET ZN A 402 1 HET MG B 401 1 HET ZN B 402 1 HETNAM MG MAGNESIUM ION HETNAM ZN ZINC ION FORMUL 3 MG 2(MG 2+) FORMUL 4 ZN 2(ZN 2+) FORMUL 7 HOH *20(H2 O) HELIX 1 1 GLY A 14 ASN A 17 5 4 HELIX 2 2 LYS A 18 LEU A 26 1 9 HELIX 3 3 GLY A 36 CYS A 43 5 8 HELIX 4 4 TYR A 52 ASN A 58 1 7 HELIX 5 5 GLY A 77 GLY A 92 1 16 HELIX 6 6 ASN A 104 ALA A 108 5 5 HELIX 7 7 THR A 131 LYS A 136 1 6 HELIX 8 8 PRO A 138 GLY A 167 1 30 HELIX 9 9 SER A 171 SER A 192 1 22 HELIX 10 10 GLU A 196 ASN A 216 1 21 HELIX 11 11 GLY A 223 TYR A 239 1 17 HELIX 12 12 LEU A 246 ASN A 266 1 21 HELIX 13 13 LYS A 267 SER A 270 5 4 HELIX 14 14 GLY A 271 VAL A 283 1 13 HELIX 15 15 THR A 288 GLY A 293 1 6 HELIX 16 16 ASP A 295 MET A 305 1 11 HELIX 17 17 ALA A 306 ARG A 310 5 5 HELIX 18 18 SER A 321 THR A 332 1 12 HELIX 19 19 GLY B 14 ASN B 17 5 4 HELIX 20 20 LYS B 18 LEU B 26 1 9 HELIX 21 21 GLY B 36 LYS B 40 5 5 HELIX 22 22 TYR B 52 ASN B 57 1 6 HELIX 23 23 GLY B 77 GLY B 92 1 16 HELIX 24 24 ASN B 104 ALA B 108 5 5 HELIX 25 25 THR B 131 LYS B 136 1 6 HELIX 26 26 PRO B 138 SER B 151 1 14 HELIX 27 27 SER B 151 GLY B 167 1 17 HELIX 28 28 SER B 171 SER B 192 1 22 HELIX 29 29 GLU B 196 ASN B 216 1 21 HELIX 30 30 GLY B 223 TYR B 239 1 17 HELIX 31 31 LEU B 246 ASN B 266 1 21 HELIX 32 32 LYS B 267 SER B 270 5 4 HELIX 33 33 GLY B 271 VAL B 283 1 13 HELIX 34 34 THR B 288 GLY B 293 1 6 HELIX 35 35 ASP B 295 MET B 305 1 11 HELIX 36 36 ALA B 306 ARG B 310 5 5 HELIX 37 37 SER B 321 THR B 332 1 12 SHEET 1 A 7 ILE A 3 VAL A 4 0 SHEET 2 A 7 TYR B 8 GLU B 12 -1 O THR B 9 N ILE A 3 SHEET 3 A 7 ALA B 126 ASP B 130 1 O ILE B 127 N ILE B 10 SHEET 4 A 7 PHE B 95 PRO B 99 1 N SER B 97 O ILE B 128 SHEET 5 A 7 CYS B 71 GLY B 76 1 N GLY B 74 O ILE B 96 SHEET 6 A 7 PRO B 31 THR B 35 1 N ILE B 34 O ILE B 75 SHEET 7 A 7 ILE B 49 TYR B 51 1 O VAL B 50 N VAL B 33 SHEET 1 B 7 ILE A 49 TYR A 51 0 SHEET 2 B 7 PRO A 31 THR A 35 1 N VAL A 33 O VAL A 50 SHEET 3 B 7 CYS A 71 GLY A 76 1 O ILE A 73 N ILE A 34 SHEET 4 B 7 PHE A 95 PRO A 99 1 O ILE A 96 N VAL A 72 SHEET 5 B 7 ALA A 126 ASP A 130 1 O ILE A 128 N SER A 97 SHEET 6 B 7 TYR A 8 GLU A 12 1 N ILE A 10 O ALA A 129 SHEET 7 B 7 ILE B 2 VAL B 4 -1 O ILE B 3 N THR A 9 SHEET 1 C 2 ILE A 111 VAL A 112 0 SHEET 2 C 2 PHE A 119 MET A 120 -1 O PHE A 119 N VAL A 112 SHEET 1 D 2 ILE B 111 VAL B 112 0 SHEET 2 D 2 PHE B 119 MET B 120 -1 O PHE B 119 N VAL B 112 LINK O ASP A 148 MG MG A 401 1555 1555 2.43 LINK OD1 ASP A 148 ZN ZN A 402 1555 1555 2.10 LINK OD1 ASN A 152 MG MG A 401 1555 1555 2.63 LINK O ALA A 221 MG MG A 401 1555 1555 2.75 LINK NE2 HIS A 226 ZN ZN A 402 1555 1555 2.00 LINK NE2 HIS A 247 ZN ZN A 402 1555 1555 2.62 LINK O ASP B 148 MG MG B 401 1555 1555 2.57 LINK OD1 ASP B 148 ZN ZN B 402 1555 1555 2.44 LINK OD1 ASN B 152 MG MG B 401 1555 1555 2.53 LINK O ALA B 221 MG MG B 401 1555 1555 2.63 LINK NE2 HIS B 226 ZN ZN B 402 1555 1555 2.15 LINK NE2 HIS B 247 ZN ZN B 402 1555 1555 2.45 CISPEP 1 GLN A 116 PRO A 117 0 3.75 CISPEP 2 GLN B 116 PRO B 117 0 11.08 SITE 1 AC1 5 ASP A 105 ASP A 148 SER A 151 ASN A 152 SITE 2 AC1 5 ALA A 221 SITE 1 AC2 3 ASP A 148 HIS A 226 HIS A 247 SITE 1 AC3 5 ASP B 105 ASP B 148 SER B 151 ASN B 152 SITE 2 AC3 5 ALA B 221 SITE 1 AC4 3 ASP B 148 HIS B 226 HIS B 247 CRYST1 49.765 59.552 119.825 90.00 90.39 90.00 P 1 21 1 4 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 0.020094 0.000000 0.000136 0.00000 SCALE2 0.000000 0.016792 0.000000 0.00000 SCALE3 0.000000 0.000000 0.008346 0.00000