HEADER ACTIVE-SITE CARBOXYMETHYLATION 04-JUN-97 1DSS TITLE STRUCTURE OF ACTIVE-SITE CARBOXYMETHYLATED D-GLYCERALDEHYDE-3- TITLE 2 PHOSPHATE DEHYDROGENASE FROM PALINURUS VERSICOLOR COMPND MOL_ID: 1; COMPND 2 MOLECULE: D-GLYCERALDEHYDE-3-PHOSPHATE-DEHYDROGENASE; COMPND 3 CHAIN: G, R; COMPND 4 FRAGMENT: NAD+ BINDING DOMAIN AND CATALYTIC DOMAIN; COMPND 5 EC: 1.2.1.12; COMPND 6 OTHER_DETAILS: NAD+ SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: PALINURUS VERSICOLOR; SOURCE 3 ORGANISM_COMMON: SOUTH CHINA SEA LOBSTER; SOURCE 4 ORGANISM_TAXID: 82835; SOURCE 5 ORGAN: TAIL MUSCLE KEYWDS ACTIVE-SITE CARBOXYMETHYLATION, D-GLYCERALDEHYDE-3-PHOSPHATE- KEYWDS 2 DEHYDROGENASE, 'THE-HALF-OF-SITES' REACTION, MOLECULAR SYMMETRY EXPDTA X-RAY DIFFRACTION AUTHOR S.SONG,Z.LIN REVDAT 4 03-APR-24 1DSS 1 REMARK SEQADV LINK REVDAT 3 13-JUL-11 1DSS 1 VERSN REVDAT 2 24-FEB-09 1DSS 1 VERSN REVDAT 1 09-DEC-98 1DSS 0 JRNL AUTH S.Y.SONG,Y.B.XU,Z.J.LIN,C.L.TSOU JRNL TITL STRUCTURE OF ACTIVE SITE CARBOXYMETHYLATED JRNL TITL 2 D-GLYCERALDEHYDE-3-PHOSPHATE DEHYDROGENASE FROM PALINURUS JRNL TITL 3 VERSICOLOR. JRNL REF J.MOL.BIOL. V. 287 719 1999 JRNL REFN ISSN 0022-2836 JRNL PMID 10191140 JRNL DOI 10.1006/JMBI.1999.2628 REMARK 1 REMARK 1 REFERENCE 1 REMARK 1 AUTH Z.J.LIN,J.LI,F.M.ZHANG,S.Y.SONG,J.YANG,S.J.LIANG,C.L.TSOU REMARK 1 TITL STRUCTURE OF D-GLYCERALDEHYDE-3-PHOSPHATE DEHYDROGENASE FROM REMARK 1 TITL 2 PALINURUS VERSICOLOR CARRYING THE FLUORESCENT NAD REMARK 1 TITL 3 DERIVATIVES AT 2.7 A RESOLUTION REMARK 1 REF ARCH.BIOCHEM.BIOPHYS. V. 302 161 1993 REMARK 1 REFN ISSN 0003-9861 REMARK 1 REFERENCE 2 REMARK 1 AUTH S.Y.SONG,Y.G.GAO,J.M.ZHOU,C.L.TSOU REMARK 1 TITL PRELIMINARY CRYSTALLOGRAPHIC STUDIES OF LOBSTER REMARK 1 TITL 2 D-GLYCERALDEHYDE-3-PHOSPHATE DEHYDROGENASE AND THE MODIFIED REMARK 1 TITL 3 ENZYME CARRYING THE FLUORESCENT DERIVATIVE REMARK 1 REF J.MOL.BIOL. V. 171 225 1983 REMARK 1 REFN ISSN 0022-2836 REMARK 2 REMARK 2 RESOLUTION. 1.88 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : X-PLOR REMARK 3 AUTHORS : BRUNGER REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.88 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 6.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : 3.000 REMARK 3 DATA CUTOFF HIGH (ABS(F)) : 100000000.000 REMARK 3 DATA CUTOFF LOW (ABS(F)) : 70.0000 REMARK 3 COMPLETENESS (WORKING+TEST) (%) : 81.0 REMARK 3 NUMBER OF REFLECTIONS : 58730 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) : 0.172 REMARK 3 FREE R VALUE : 0.218 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 10.150 REMARK 3 FREE R VALUE TEST SET COUNT : 5961 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 : 1 REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 1.88 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.96 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 49.73 REMARK 3 REFLECTIONS IN BIN (WORKING SET) : 4019 REMARK 3 BIN R VALUE (WORKING SET) : 0.2666 REMARK 3 BIN FREE R VALUE : 0.2820 REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : 8.34 REMARK 3 BIN FREE R VALUE TEST SET COUNT : 462 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 : 5020 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 108 REMARK 3 SOLVENT ATOMS : 400 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 14.73 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 17.25 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : NULL REMARK 3 B22 (A**2) : NULL REMARK 3 B33 (A**2) : NULL REMARK 3 B12 (A**2) : NULL REMARK 3 B13 (A**2) : NULL REMARK 3 B23 (A**2) : NULL REMARK 3 REMARK 3 ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM LUZZATI PLOT (A) : 0.20 REMARK 3 ESD FROM SIGMAA (A) : NULL REMARK 3 LOW RESOLUTION CUTOFF (A) : 6.00 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) : 0.012 REMARK 3 BOND ANGLES (DEGREES) : 2.650 REMARK 3 DIHEDRAL ANGLES (DEGREES) : 25.92 REMARK 3 IMPROPER ANGLES (DEGREES) : 1.790 REMARK 3 REMARK 3 ISOTROPIC THERMAL MODEL : NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. RMS SIGMA REMARK 3 MAIN-CHAIN BOND (A**2) : NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE (A**2) : NULL ; NULL REMARK 3 SIDE-CHAIN BOND (A**2) : NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE (A**2) : NULL ; NULL REMARK 3 REMARK 3 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 : PARAM19CM.PRO REMARK 3 PARAMETER FILE 2 : PARAM.NAD REMARK 3 PARAMETER FILE 3 : NULL REMARK 3 TOPOLOGY FILE 1 : TOPH19CM.PRO REMARK 3 TOPOLOGY FILE 2 : TOPOLOGY.NAD REMARK 3 TOPOLOGY FILE 3 : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: DURING THE REFINEMENT, NO NCS REMARK 3 RESTRAINTS WERE USED. REMARK 4 REMARK 4 1DSS COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY BNL. REMARK 100 THE DEPOSITION ID IS D_1000172928. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : NOV-90 REMARK 200 TEMPERATURE (KELVIN) : 280 REMARK 200 PH : 6.1 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : PHOTON FACTORY REMARK 200 BEAMLINE : BL-6A 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 : SI(111) REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : DIFFRACTOMETER REMARK 200 DETECTOR MANUFACTURER : WEISSENBERG REMARK 200 INTENSITY-INTEGRATION SOFTWARE : WEIS REMARK 200 DATA SCALING SOFTWARE : WEIS REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 78030 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.800 REMARK 200 RESOLUTION RANGE LOW (A) : 150.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 94.0 REMARK 200 DATA REDUNDANCY : 1.070 REMARK 200 R MERGE (I) : 0.07900 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 4.2000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.80 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.88 REMARK 200 COMPLETENESS FOR SHELL (%) : 56.5 REMARK 200 DATA REDUNDANCY IN SHELL : 1.07 REMARK 200 R MERGE FOR SHELL (I) : 0.07900 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> FOR SHELL : 2.100 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: NULL REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: X-PLOR REMARK 200 STARTING MODEL: HOLO-GAPDH FROM PALINURUS VERSICOLOR (2.0A) REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 62.00 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.27 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: THE PROTEIN SOLUTIONS CONTAINED 0.5MM REMARK 280 NAD+, 1.0MM EDTA, 1.6M AMMONIUM SULFATE IN 0.1M PHOSPHATE REMARK 280 BUFFER(PH 6.1) AND AN ENZYME CONCENTRATION OF 8MG/ML; THE REMARK 280 SOLUTION IN RESERVOIR CONTAINED 2.7M AMMONIUM SULFATE IN SAME REMARK 280 BUFFER, ROOM TEMPERATURE OF 17 DEGREES C., TEMPERATURE 290K 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 64.05000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 49.80500 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 64.05000 REMARK 290 SMTRY2 4 0.000000 1.000000 0.000000 49.80500 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 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: 21340 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 41770 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -299.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: G, R REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 350 BIOMT1 2 -1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 2 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 2 0.000000 0.000000 -1.000000 0.00000 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 HIS G 108 NE2 HIS G 108 CD2 -0.080 REMARK 500 HIS R 50 NE2 HIS R 50 CD2 -0.073 REMARK 500 HIS R 108 NE2 HIS R 108 CD2 -0.082 REMARK 500 HIS R 327 NE2 HIS R 327 CD2 -0.070 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 TRP G 84 CD1 - CG - CD2 ANGL. DEV. = 5.7 DEGREES REMARK 500 TRP G 84 CE2 - CD2 - CG ANGL. DEV. = -5.2 DEGREES REMARK 500 TRP G 193 CD1 - CG - CD2 ANGL. DEV. = 5.8 DEGREES REMARK 500 TRP G 193 CE2 - CD2 - CG ANGL. DEV. = -5.0 DEGREES REMARK 500 ARG G 194 NE - CZ - NH1 ANGL. DEV. = 3.2 DEGREES REMARK 500 ARG G 231 NE - CZ - NH1 ANGL. DEV. = 4.1 DEGREES REMARK 500 ARG G 245 NE - CZ - NH2 ANGL. DEV. = -4.0 DEGREES REMARK 500 ARG G 288 NE - CZ - NH1 ANGL. DEV. = 7.6 DEGREES REMARK 500 ARG G 288 NE - CZ - NH2 ANGL. DEV. = -7.0 DEGREES REMARK 500 TRP G 310 CD1 - CG - CD2 ANGL. DEV. = 5.2 DEGREES REMARK 500 TRP G 310 CE2 - CD2 - CG ANGL. DEV. = -5.5 DEGREES REMARK 500 ARG R 13 NE - CZ - NH1 ANGL. DEV. = 3.4 DEGREES REMARK 500 ARG R 13 NE - CZ - NH2 ANGL. DEV. = -6.2 DEGREES REMARK 500 TRP R 84 CD1 - CG - CD2 ANGL. DEV. = 6.5 DEGREES REMARK 500 TRP R 84 CE2 - CD2 - CG ANGL. DEV. = -5.9 DEGREES REMARK 500 TRP R 193 CD1 - CG - CD2 ANGL. DEV. = 6.2 DEGREES REMARK 500 TRP R 193 CE2 - CD2 - CG ANGL. DEV. = -5.0 DEGREES REMARK 500 ARG R 194 NE - CZ - NH1 ANGL. DEV. = 8.3 DEGREES REMARK 500 ARG R 194 NE - CZ - NH2 ANGL. DEV. = -7.3 DEGREES REMARK 500 ARG R 245 NE - CZ - NH2 ANGL. DEV. = -3.3 DEGREES REMARK 500 ARG R 288 NE - CZ - NH1 ANGL. DEV. = 4.0 DEGREES REMARK 500 ARG R 288 NE - CZ - NH2 ANGL. DEV. = -3.6 DEGREES REMARK 500 TRP R 310 CD1 - CG - CD2 ANGL. DEV. = 5.9 DEGREES REMARK 500 TRP R 310 CE2 - CD2 - CG ANGL. DEV. = -5.9 DEGREES REMARK 500 ARG R 320 NE - CZ - NH1 ANGL. DEV. = 3.0 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 PHE G 8 57.41 -100.37 REMARK 500 ASN G 75 46.55 -141.66 REMARK 500 SER G 119 45.90 -88.18 REMARK 500 ASP G 124 -23.07 -145.36 REMARK 500 ASN G 133 28.46 -142.44 REMARK 500 ALA G 147 -153.72 64.56 REMARK 500 GLU G 166 117.99 70.53 REMARK 500 VAL G 237 126.50 84.36 REMARK 500 SER G 333 77.87 62.13 REMARK 500 PHE R 8 55.85 -95.05 REMARK 500 ASN R 75 56.87 -145.52 REMARK 500 PRO R 83 56.39 -65.29 REMARK 500 SER R 119 41.21 -92.52 REMARK 500 ASP R 124 -17.14 -158.28 REMARK 500 ALA R 147 -154.65 59.15 REMARK 500 GLU R 166 122.57 70.41 REMARK 500 ASP R 192 86.52 -152.68 REMARK 500 VAL R 237 122.15 85.57 REMARK 500 SER R 333 85.56 60.75 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: NON-CIS, NON-TRANS REMARK 500 REMARK 500 THE FOLLOWING PEPTIDE BONDS DEVIATE SIGNIFICANTLY FROM BOTH REMARK 500 CIS AND TRANS CONFORMATION. CIS BONDS, IF ANY, ARE LISTED REMARK 500 ON CISPEP RECORDS. TRANS IS DEFINED AS 180 +/- 30 AND REMARK 500 CIS IS DEFINED AS 0 +/- 30 DEGREES. REMARK 500 MODEL OMEGA REMARK 500 ASN G 202 ILE G 203 149.94 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: PLANAR GROUPS REMARK 500 REMARK 500 PLANAR GROUPS IN THE FOLLOWING RESIDUES HAVE A TOTAL REMARK 500 RMS DISTANCE OF ALL ATOMS FROM THE BEST-FIT PLANE REMARK 500 BY MORE THAN AN EXPECTED VALUE OF 6*RMSD, WITH AN REMARK 500 RMSD 0.02 ANGSTROMS, OR AT LEAST ONE ATOM HAS REMARK 500 AN RMSD GREATER THAN THIS VALUE REMARK 500 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 500 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 M RES CSSEQI RMS TYPE REMARK 500 ARG G 288 0.10 SIDE CHAIN REMARK 500 ARG R 13 0.17 SIDE CHAIN REMARK 500 TYR R 137 0.08 SIDE CHAIN REMARK 500 ARG R 194 0.11 SIDE CHAIN REMARK 500 ARG R 288 0.08 SIDE CHAIN REMARK 500 REMARK 500 REMARK: NULL REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AVG REMARK 800 EVIDENCE_CODE: UNKNOWN REMARK 800 SITE_DESCRIPTION: ACTIVE SITE. REMARK 800 REMARK 800 SITE_IDENTIFIER: AVR REMARK 800 EVIDENCE_CODE: UNKNOWN REMARK 800 SITE_DESCRIPTION: ACTIVE SITE. REMARK 800 REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 G 501 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 G 502 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 R 501 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 R 502 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NAD G 335 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NAD R 335 DBREF 1DSS G 1 334 UNP P56649 G3P_PALVE 1 333 DBREF 1DSS R 1 334 UNP P56649 G3P_PALVE 1 333 SEQADV 1DSS CCS G 149 UNP P56649 CYS 148 CONFLICT SEQADV 1DSS CCS R 149 UNP P56649 CYS 148 CONFLICT SEQRES 1 G 333 SER LYS ILE GLY ILE ASN GLY PHE GLY ARG ILE GLY ARG SEQRES 2 G 333 LEU VAL LEU ARG ALA ALA LEU GLU MET GLY ALA GLN VAL SEQRES 3 G 333 VAL ALA VAL ASN ASP PRO PHE ILE ALA LEU GLU TYR MET SEQRES 4 G 333 VAL TYR MET PHE LYS TYR ASP SER THR HIS GLY MET PHE SEQRES 5 G 333 LYS GLY GLU VAL LYS ALA GLU ASP GLY ALA LEU VAL VAL SEQRES 6 G 333 ASP GLY LYS LYS ILE THR VAL PHE ASN GLU MET LYS PRO SEQRES 7 G 333 GLU ASN ILE PRO TRP SER LYS ALA GLY ALA GLU TYR ILE SEQRES 8 G 333 VAL GLU SER THR GLY VAL PHE THR THR ILE GLU LYS ALA SEQRES 9 G 333 SER ALA HIS PHE LYS GLY GLY ALA LYS LYS VAL ILE ILE SEQRES 10 G 333 SER ALA PRO SER ALA ASP ALA PRO MET PHE VAL CYS GLY SEQRES 11 G 333 VAL ASN LEU GLU LYS TYR SER LYS ASP MET LYS VAL VAL SEQRES 12 G 333 SER ASN ALA SER CCS THR THR ASN CYS LEU ALA PRO VAL SEQRES 13 G 333 ALA LYS VAL LEU HIS GLU ASN PHE GLU ILE VAL GLU GLY SEQRES 14 G 333 LEU MET THR THR VAL HIS ALA VAL THR ALA THR GLN LYS SEQRES 15 G 333 THR VAL ASP GLY PRO SER ALA LYS ASP TRP ARG GLY GLY SEQRES 16 G 333 ARG GLY ALA ALA GLN ASN ILE ILE PRO SER SER THR GLY SEQRES 17 G 333 ALA ALA LYS ALA VAL GLY LYS VAL ILE PRO GLU LEU ASP SEQRES 18 G 333 GLY LYS LEU THR GLY MET ALA PHE ARG VAL PRO THR PRO SEQRES 19 G 333 ASN VAL SER VAL VAL ASP LEU THR VAL ARG LEU GLY LYS SEQRES 20 G 333 GLU CYS SER TYR ASP ASP ILE LYS ALA ALA MET LYS ALA SEQRES 21 G 333 ALA SER GLU GLY PRO LEU GLN GLY VAL LEU GLY TYR THR SEQRES 22 G 333 GLU ASP ASP VAL VAL SER CYS ASP PHE THR GLY ASP ASN SEQRES 23 G 333 ARG SER SER ILE PHE ASP ALA LYS ALA GLY ILE GLN LEU SEQRES 24 G 333 SER LYS THR PHE VAL LYS VAL VAL SER TRP TYR ASP ASN SEQRES 25 G 333 GLU PHE GLY TYR SER GLN ARG VAL ILE ASP LEU ILE LYS SEQRES 26 G 333 HIS MET GLN LYS VAL ASP SER ALA SEQRES 1 R 333 SER LYS ILE GLY ILE ASN GLY PHE GLY ARG ILE GLY ARG SEQRES 2 R 333 LEU VAL LEU ARG ALA ALA LEU GLU MET GLY ALA GLN VAL SEQRES 3 R 333 VAL ALA VAL ASN ASP PRO PHE ILE ALA LEU GLU TYR MET SEQRES 4 R 333 VAL TYR MET PHE LYS TYR ASP SER THR HIS GLY MET PHE SEQRES 5 R 333 LYS GLY GLU VAL LYS ALA GLU ASP GLY ALA LEU VAL VAL SEQRES 6 R 333 ASP GLY LYS LYS ILE THR VAL PHE ASN GLU MET LYS PRO SEQRES 7 R 333 GLU ASN ILE PRO TRP SER LYS ALA GLY ALA GLU TYR ILE SEQRES 8 R 333 VAL GLU SER THR GLY VAL PHE THR THR ILE GLU LYS ALA SEQRES 9 R 333 SER ALA HIS PHE LYS GLY GLY ALA LYS LYS VAL ILE ILE SEQRES 10 R 333 SER ALA PRO SER ALA ASP ALA PRO MET PHE VAL CYS GLY SEQRES 11 R 333 VAL ASN LEU GLU LYS TYR SER LYS ASP MET LYS VAL VAL SEQRES 12 R 333 SER ASN ALA SER CCS THR THR ASN CYS LEU ALA PRO VAL SEQRES 13 R 333 ALA LYS VAL LEU HIS GLU ASN PHE GLU ILE VAL GLU GLY SEQRES 14 R 333 LEU MET THR THR VAL HIS ALA VAL THR ALA THR GLN LYS SEQRES 15 R 333 THR VAL ASP GLY PRO SER ALA LYS ASP TRP ARG GLY GLY SEQRES 16 R 333 ARG GLY ALA ALA GLN ASN ILE ILE PRO SER SER THR GLY SEQRES 17 R 333 ALA ALA LYS ALA VAL GLY LYS VAL ILE PRO GLU LEU ASP SEQRES 18 R 333 GLY LYS LEU THR GLY MET ALA PHE ARG VAL PRO THR PRO SEQRES 19 R 333 ASN VAL SER VAL VAL ASP LEU THR VAL ARG LEU GLY LYS SEQRES 20 R 333 GLU CYS SER TYR ASP ASP ILE LYS ALA ALA MET LYS ALA SEQRES 21 R 333 ALA SER GLU GLY PRO LEU GLN GLY VAL LEU GLY TYR THR SEQRES 22 R 333 GLU ASP ASP VAL VAL SER CYS ASP PHE THR GLY ASP ASN SEQRES 23 R 333 ARG SER SER ILE PHE ASP ALA LYS ALA GLY ILE GLN LEU SEQRES 24 R 333 SER LYS THR PHE VAL LYS VAL VAL SER TRP TYR ASP ASN SEQRES 25 R 333 GLU PHE GLY TYR SER GLN ARG VAL ILE ASP LEU ILE LYS SEQRES 26 R 333 HIS MET GLN LYS VAL ASP SER ALA MODRES 1DSS CCS G 149 CYS CARBOXYMETHYLATED CYSTEINE MODRES 1DSS CCS R 149 CYS CARBOXYMETHYLATED CYSTEINE HET CCS G 149 10 HET CCS R 149 10 HET SO4 G 501 5 HET SO4 G 502 5 HET NAD G 335 44 HET SO4 R 501 5 HET SO4 R 502 5 HET NAD R 335 44 HETNAM CCS CARBOXYMETHYLATED CYSTEINE HETNAM SO4 SULFATE ION HETNAM NAD NICOTINAMIDE-ADENINE-DINUCLEOTIDE FORMUL 1 CCS 2(C5 H9 N O4 S) FORMUL 3 SO4 4(O4 S 2-) FORMUL 5 NAD 2(C21 H27 N7 O14 P2) FORMUL 9 HOH *400(H2 O) HELIX 1 1 ARG G 10 GLU G 21 1 12 HELIX 2 2 LEU G 37 LYS G 45 1 9 HELIX 3 3 PRO G 79 ASN G 81 5 3 HELIX 4 4 TRP G 84 ALA G 87 1 4 HELIX 5 5 ILE G 102 GLY G 111 1 10 HELIX 6 6 LEU G 134 LYS G 136 5 3 HELIX 7 7 CCS G 149 PHE G 165 1 17 HELIX 8 8 ARG G 194 GLY G 196 5 3 HELIX 9 9 ALA G 210 VAL G 217 1 8 HELIX 10 10 PRO G 219 LEU G 221 5 3 HELIX 11 11 TYR G 252 GLU G 264 1 13 HELIX 12 12 SER G 280 PHE G 283 5 4 HELIX 13 13 PHE G 315 SER G 333 1 19 HELIX 14 14 ARG R 10 GLU R 21 1 12 HELIX 15 15 LEU R 37 LYS R 45 1 9 HELIX 16 16 PRO R 79 ASN R 81 5 3 HELIX 17 17 TRP R 84 ALA R 87 1 4 HELIX 18 18 ILE R 102 PHE R 109 1 8 HELIX 19 19 LEU R 134 LYS R 136 5 3 HELIX 20 20 CCS R 149 PHE R 165 1 17 HELIX 21 21 ARG R 194 GLY R 196 5 3 HELIX 22 22 ALA R 210 VAL R 217 1 8 HELIX 23 23 PRO R 219 LEU R 221 5 3 HELIX 24 24 TYR R 252 GLU R 264 1 13 HELIX 25 25 SER R 280 PHE R 283 5 4 HELIX 26 26 ALA R 294 ALA R 296 5 3 SHEET 1 A 8 VAL G 143 SER G 145 0 SHEET 2 A 8 LYS G 115 ILE G 118 1 N VAL G 116 O VAL G 144 SHEET 3 A 8 TYR G 91 GLU G 94 1 N ILE G 92 O LYS G 115 SHEET 4 A 8 ILE G 3 ASN G 6 1 N GLY G 4 O TYR G 91 SHEET 5 A 8 VAL G 27 ASN G 31 1 N VAL G 28 O ILE G 3 SHEET 6 A 8 LYS G 69 PHE G 74 1 N THR G 72 O VAL G 30 SHEET 7 A 8 ALA G 63 VAL G 66 -1 N VAL G 66 O LYS G 69 SHEET 8 A 8 VAL G 57 GLU G 60 -1 N GLU G 60 O ALA G 63 SHEET 1 B 6 ILE G 204 SER G 207 0 SHEET 2 B 6 LEU G 225 ARG G 231 -1 N ARG G 231 O ILE G 204 SHEET 3 B 6 ILE G 167 HIS G 176 1 N GLY G 170 O THR G 226 SHEET 4 B 6 SER G 238 LEU G 246 -1 N ARG G 245 O VAL G 168 SHEET 5 B 6 PHE G 304 TYR G 311 -1 N TYR G 311 O SER G 238 SHEET 6 B 6 ILE G 298 SER G 301 -1 N SER G 301 O PHE G 304 SHEET 1 C 2 LEU G 271 THR G 274 0 SHEET 2 C 2 SER G 290 ASP G 293 1 N SER G 290 O GLY G 272 SHEET 1 D 8 VAL R 143 SER R 145 0 SHEET 2 D 8 LYS R 115 ILE R 118 1 N VAL R 116 O VAL R 144 SHEET 3 D 8 TYR R 91 GLU R 94 1 N ILE R 92 O LYS R 115 SHEET 4 D 8 ILE R 3 ASN R 6 1 N GLY R 4 O TYR R 91 SHEET 5 D 8 VAL R 27 ASN R 31 1 N VAL R 28 O ILE R 3 SHEET 6 D 8 LYS R 69 PHE R 74 1 N THR R 72 O VAL R 30 SHEET 7 D 8 ALA R 63 VAL R 66 -1 N VAL R 66 O LYS R 69 SHEET 8 D 8 VAL R 57 GLU R 60 -1 N GLU R 60 O ALA R 63 SHEET 1 E 6 ILE R 204 SER R 206 0 SHEET 2 E 6 LEU R 225 ARG R 231 -1 N ARG R 231 O ILE R 204 SHEET 3 E 6 ILE R 167 HIS R 176 1 N GLY R 170 O THR R 226 SHEET 4 E 6 SER R 238 LEU R 246 -1 N ARG R 245 O VAL R 168 SHEET 5 E 6 PHE R 304 TYR R 311 -1 N TYR R 311 O SER R 238 SHEET 6 E 6 ILE R 298 SER R 301 -1 N SER R 301 O PHE R 304 SHEET 1 F 2 LEU R 271 THR R 274 0 SHEET 2 F 2 SER R 290 ASP R 293 1 N SER R 290 O GLY R 272 LINK C SER G 148 N CCS G 149 1555 1555 1.32 LINK C CCS G 149 N THR G 150 1555 1555 1.35 LINK C SER R 148 N CCS R 149 1555 1555 1.32 LINK C CCS R 149 N THR R 150 1555 1555 1.36 SITE 1 AVG 2 CCS G 149 HIS G 176 SITE 1 AVR 2 CCS R 149 HIS R 176 SITE 1 AC1 10 SER G 148 CCS G 149 THR G 150 HIS G 176 SITE 2 AC1 10 THR G 208 GLY G 209 HOH G 584 HOH G 620 SITE 3 AC1 10 HOH G 678 HOH G 717 SITE 1 AC2 7 CCS G 149 THR G 179 THR G 181 ARG G 231 SITE 2 AC2 7 NAD G 335 HOH G 530 HOH G 717 SITE 1 AC3 9 SER R 148 CCS R 149 THR R 150 HIS R 176 SITE 2 AC3 9 THR R 208 GLY R 209 HOH R 611 HOH R 675 SITE 3 AC3 9 HOH R 676 SITE 1 AC4 7 CCS R 149 THR R 179 THR R 181 ARG R 231 SITE 2 AC4 7 NAD R 335 HOH R 585 HOH R 675 SITE 1 AC5 35 ASN G 6 GLY G 7 PHE G 8 GLY G 9 SITE 2 AC5 35 ARG G 10 ILE G 11 ASN G 31 ASP G 32 SITE 3 AC5 35 PRO G 33 PHE G 34 MET G 77 SER G 95 SITE 4 AC5 35 THR G 96 GLY G 97 SER G 119 ALA G 120 SITE 5 AC5 35 CCS G 149 ALA G 180 ASN G 313 GLU G 314 SITE 6 AC5 35 TYR G 317 SO4 G 502 HOH G 505 HOH G 506 SITE 7 AC5 35 HOH G 512 HOH G 513 HOH G 530 HOH G 535 SITE 8 AC5 35 HOH G 536 HOH G 544 HOH G 552 HOH G 598 SITE 9 AC5 35 HOH G 619 HOH G 622 HOH G 651 SITE 1 AC6 36 ASN R 6 GLY R 7 GLY R 9 ARG R 10 SITE 2 AC6 36 ILE R 11 ASN R 31 ASP R 32 PRO R 33 SITE 3 AC6 36 PHE R 34 GLU R 76 MET R 77 SER R 95 SITE 4 AC6 36 THR R 96 GLY R 97 PHE R 99 SER R 119 SITE 5 AC6 36 ALA R 120 CCS R 149 ALA R 180 ASN R 313 SITE 6 AC6 36 GLU R 314 TYR R 317 SO4 R 502 HOH R 510 SITE 7 AC6 36 HOH R 511 HOH R 512 HOH R 533 HOH R 534 SITE 8 AC6 36 HOH R 535 HOH R 544 HOH R 585 HOH R 589 SITE 9 AC6 36 HOH R 590 HOH R 591 HOH R 615 HOH R 656 CRYST1 128.100 99.610 80.690 90.00 114.40 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 0.007806 0.000000 0.003541 0.00000 SCALE2 0.000000 0.010039 0.000000 0.00000 SCALE3 0.000000 0.000000 0.013609 0.00000 MTRIX1 1 -0.999940 -0.007960 -0.007110 -0.07499 1 MTRIX2 1 0.007930 -0.999960 0.004240 -0.01091 1 MTRIX3 1 -0.007140 0.004180 0.999970 0.12243 1