HEADER BINDING PROTEIN 13-MAR-01 1H9M TITLE TWO CRYSTAL STRUCTURES OF THE CYTOPLASMIC MOLYBDATE-BINDING PROTEIN TITLE 2 MODG SUGGEST A NOVEL COOPERATIVE BINDING MECHANISM AND PROVIDE TITLE 3 INSIGHTS INTO LIGAND-BINDING SPECIFICITY. PEG-GROWN FORM WITH TITLE 4 MOLYBDATE BOUND COMPND MOL_ID: 1; COMPND 2 MOLECULE: MOLYBDENUM-BINDING-PROTEIN; COMPND 3 CHAIN: A, B; COMPND 4 SYNONYM: MODG; COMPND 5 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: AZOTOBACTER VINELANDII; SOURCE 3 ORGANISM_TAXID: 354; SOURCE 4 STRAIN: E162; SOURCE 5 CELLULAR_LOCATION: CYTOPLASM; SOURCE 6 GENE: MODG; SOURCE 7 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 8 EXPRESSION_SYSTEM_TAXID: 511693; SOURCE 9 EXPRESSION_SYSTEM_STRAIN: BL21; SOURCE 10 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 11 EXPRESSION_SYSTEM_VECTOR: PDJW373; SOURCE 12 EXPRESSION_SYSTEM_GENE: MODG KEYWDS BINDING PROTEIN, MOLYBDATE HOMEOSTASIS EXPDTA X-RAY DIFFRACTION AUTHOR L.DELARBRE,C.E.M.STEVENSON,D.J.WHITE,L.A.MITCHENALL,R.N.PAU, AUTHOR 2 D.M.LAWSON REVDAT 4 13-DEC-23 1H9M 1 REMARK REVDAT 3 06-MAR-19 1H9M 1 REMARK REVDAT 2 24-FEB-09 1H9M 1 VERSN REVDAT 1 11-MAY-01 1H9M 0 JRNL AUTH L.DELARBRE,C.E.M.STEVENSON,D.J.WHITE,L.A.MITCHENALL,R.N.PAU, JRNL AUTH 2 D.M.LAWSON JRNL TITL TWO CRYSTAL STRUCTURES OF THE CYTOPLASMIC MOLYBDATE-BINDING JRNL TITL 2 PROTEIN MODG SUGGEST A NOVEL COOPERATIVE BINDING MECHANISM JRNL TITL 3 AND PROVIDE INSIGHTS INTO LIGAND-BINDING SPECIFICITY JRNL REF J.MOL.BIOL. V. 308 1063 2001 JRNL REFN ISSN 0022-2836 JRNL PMID 11352591 JRNL DOI 10.1006/JMBI.2001.4636 REMARK 2 REMARK 2 RESOLUTION. 1.65 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.65 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 40.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 98.7 REMARK 3 NUMBER OF REFLECTIONS : 28231 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) : NULL REMARK 3 R VALUE (WORKING SET) : 0.191 REMARK 3 FREE R VALUE : 0.226 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 1385 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 1954 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 32 REMARK 3 SOLVENT ATOMS : 79 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 19.90 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 27.00 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 OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.111 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.108 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): NULL REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): NULL REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 DISTANCE RESTRAINTS. RMS SIGMA REMARK 3 BOND LENGTH (A) : 0.026 ; 0.020 REMARK 3 ANGLE DISTANCE (A) : 0.038 ; 0.040 REMARK 3 INTRAPLANAR 1-4 DISTANCE (A) : 0.043 ; 0.050 REMARK 3 H-BOND OR METAL COORDINATION (A) : NULL ; NULL REMARK 3 REMARK 3 PLANE RESTRAINT (A) : 0.023 ; 0.030 REMARK 3 CHIRAL-CENTER RESTRAINT (A**3) : 0.162 ; 0.150 REMARK 3 REMARK 3 NON-BONDED CONTACT RESTRAINTS. REMARK 3 SINGLE TORSION (A) : 0.180 ; 0.300 REMARK 3 MULTIPLE TORSION (A) : 0.265 ; 0.300 REMARK 3 H-BOND (X...Y) (A) : 0.131 ; 0.300 REMARK 3 H-BOND (X-H...Y) (A) : NULL ; NULL REMARK 3 REMARK 3 CONFORMATIONAL TORSION ANGLE RESTRAINTS. REMARK 3 SPECIFIED (DEGREES) : NULL ; NULL REMARK 3 PLANAR (DEGREES) : 4.400 ; 7.000 REMARK 3 STAGGERED (DEGREES) : 14.300; 15.000 REMARK 3 TRANSVERSE (DEGREES) : 51.700; 20.000 REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. RMS SIGMA REMARK 3 MAIN-CHAIN BOND (A**2) : 4.430 ; 3.000 REMARK 3 MAIN-CHAIN ANGLE (A**2) : 3.967 ; 5.000 REMARK 3 SIDE-CHAIN BOND (A**2) : 4.995 ; 6.000 REMARK 3 SIDE-CHAIN ANGLE (A**2) : 6.918 ; 8.000 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 1H9M COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 13-MAR-01. REMARK 100 THE DEPOSITION ID IS D_1290005992. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 15-JUN-99 REMARK 200 TEMPERATURE (KELVIN) : 100.0 REMARK 200 PH : 7.50 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : ESRF REMARK 200 BEAMLINE : ID14-2 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.933 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MARRESEARCH REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 28231 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.650 REMARK 200 RESOLUTION RANGE LOW (A) : 41.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : -3.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 200 DATA REDUNDANCY : 12.40 REMARK 200 R MERGE (I) : 0.04400 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 41.7000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.65 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.68 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : 0.10700 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> FOR SHELL : 8.800 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: 1H9J REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 41.00 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 1.34 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: VAPOUR DIFFUSION. 20% PEG 4000, 5% REMARK 280 ISOPROPANOL IN 100MM HEPES PH7.5 WITH 2MM NA2MOO4., PH 7.50, REMARK 280 VAPOR DIFFUSION REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: H 3 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -Y,X-Y,Z REMARK 290 3555 -X+Y,-X,Z REMARK 290 4555 X+2/3,Y+1/3,Z+1/3 REMARK 290 5555 -Y+2/3,X-Y+1/3,Z+1/3 REMARK 290 6555 -X+Y+2/3,-X+1/3,Z+1/3 REMARK 290 7555 X+1/3,Y+2/3,Z+2/3 REMARK 290 8555 -Y+1/3,X-Y+2/3,Z+2/3 REMARK 290 9555 -X+Y+1/3,-X+2/3,Z+2/3 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 0.00000 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 0.00000 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 40.98000 REMARK 290 SMTRY2 4 0.000000 1.000000 0.000000 23.65981 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 31.13900 REMARK 290 SMTRY1 5 -0.500000 -0.866025 0.000000 40.98000 REMARK 290 SMTRY2 5 0.866025 -0.500000 0.000000 23.65981 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 31.13900 REMARK 290 SMTRY1 6 -0.500000 0.866025 0.000000 40.98000 REMARK 290 SMTRY2 6 -0.866025 -0.500000 0.000000 23.65981 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 31.13900 REMARK 290 SMTRY1 7 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 7 0.000000 1.000000 0.000000 47.31963 REMARK 290 SMTRY3 7 0.000000 0.000000 1.000000 62.27800 REMARK 290 SMTRY1 8 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 8 0.866025 -0.500000 0.000000 47.31963 REMARK 290 SMTRY3 8 0.000000 0.000000 1.000000 62.27800 REMARK 290 SMTRY1 9 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 9 -0.866025 -0.500000 0.000000 47.31963 REMARK 290 SMTRY3 9 0.000000 0.000000 1.000000 62.27800 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: BIOMOLECULE 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: TRIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TRIMERIC REMARK 350 SOFTWARE USED: PQS 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 -0.500000 -0.866025 0.000000 40.98000 REMARK 350 BIOMT2 2 0.866025 -0.500000 0.000000 70.97944 REMARK 350 BIOMT3 2 0.000000 0.000000 1.000000 0.00000 REMARK 350 BIOMT1 3 -0.500000 0.866025 0.000000 -40.98000 REMARK 350 BIOMT2 3 -0.866025 -0.500000 0.000000 70.97944 REMARK 350 BIOMT3 3 0.000000 0.000000 1.000000 0.00000 REMARK 350 REMARK 350 BIOMOLECULE: 2 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: TRIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TRIMERIC REMARK 350 SOFTWARE USED: PQS REMARK 350 APPLY THE FOLLOWING TO CHAINS: 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 -0.500000 -0.866025 0.000000 81.96000 REMARK 350 BIOMT2 2 0.866025 -0.500000 0.000000 0.00000 REMARK 350 BIOMT3 2 0.000000 0.000000 1.000000 0.00000 REMARK 350 BIOMT1 3 -0.500000 0.866025 0.000000 40.98000 REMARK 350 BIOMT2 3 -0.866025 -0.500000 0.000000 70.97944 REMARK 350 BIOMT3 3 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 MO MOO A1142 LIES ON A SPECIAL POSITION. REMARK 375 O1 MOO A1142 LIES ON A SPECIAL POSITION. REMARK 375 MO MOO A1143 LIES ON A SPECIAL POSITION. REMARK 375 O1 MOO A1143 LIES ON A SPECIAL POSITION. REMARK 375 MO MOO B1142 LIES ON A SPECIAL POSITION. REMARK 375 O1 MOO B1142 LIES ON A SPECIAL POSITION. REMARK 375 MO MOO B1143 LIES ON A SPECIAL POSITION. REMARK 375 O1 MOO B1143 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 GLY A -3 REMARK 465 SER A -2 REMARK 465 HIS A -1 REMARK 465 ALA A 142 REMARK 465 GLY B -3 REMARK 465 SER B -2 REMARK 465 HIS B -1 REMARK 465 ALA B 142 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 LYS A 34 CE NZ REMARK 470 GLN A 102 CG CD OE1 NE2 REMARK 470 LYS A 113 CD CE NZ REMARK 470 GLU A 114 CG CD OE1 OE2 REMARK 470 GLU A 118 CG CD OE1 OE2 REMARK 470 LYS A 122 CD CE NZ REMARK 470 MET B 1 SD CE REMARK 470 LYS B 10 CD CE NZ REMARK 470 ASP B 26 CG OD1 OD2 REMARK 470 LYS B 34 CE NZ REMARK 470 LYS B 86 CE NZ REMARK 470 GLN B 102 CG CD OE1 NE2 REMARK 470 LYS B 113 CG CD CE NZ REMARK 470 GLU B 114 CG CD OE1 OE2 REMARK 470 LYS B 122 CE NZ REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS REMARK 500 REMARK 500 THE FOLLOWING ATOMS THAT ARE RELATED BY CRYSTALLOGRAPHIC REMARK 500 SYMMETRY ARE IN CLOSE CONTACT. AN ATOM LOCATED WITHIN 0.15 REMARK 500 ANGSTROMS OF A SYMMETRY RELATED ATOM IS ASSUMED TO BE ON A REMARK 500 SPECIAL POSITION AND IS, THEREFORE, LISTED IN REMARK 375 REMARK 500 INSTEAD OF REMARK 500. ATOMS WITH NON-BLANK ALTERNATE REMARK 500 LOCATION INDICATORS ARE NOT INCLUDED IN THE CALCULATIONS. REMARK 500 REMARK 500 DISTANCE CUTOFF: REMARK 500 2.2 ANGSTROMS FOR CONTACTS NOT INVOLVING HYDROGEN ATOMS REMARK 500 1.6 ANGSTROMS FOR CONTACTS INVOLVING HYDROGEN ATOMS REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI SSYMOP DISTANCE REMARK 500 MO MOO B 1143 O2 MOO B 1143 3665 1.72 REMARK 500 MO MOO A 1143 O2 MOO A 1143 2665 1.73 REMARK 500 MO MOO B 1142 O2 MOO B 1142 3665 1.76 REMARK 500 MO MOO A 1142 O2 MOO A 1142 2665 1.77 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 VAL A 38 C VAL A 38 O -0.514 REMARK 500 VAL A 38 C VAL A 39 N 0.226 REMARK 500 VAL B 38 C VAL B 38 O -0.136 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 ARG A 6 NE - CZ - NH1 ANGL. DEV. = -5.0 DEGREES REMARK 500 VAL A 38 CA - C - N ANGL. DEV. = -21.5 DEGREES REMARK 500 VAL A 56 CG1 - CB - CG2 ANGL. DEV. = 10.3 DEGREES REMARK 500 ARG A 78 NE - CZ - NH1 ANGL. DEV. = 4.5 DEGREES REMARK 500 SER A 128 O - C - N ANGL. DEV. = 9.8 DEGREES REMARK 500 ARG B 6 CD - NE - CZ ANGL. DEV. = 10.4 DEGREES REMARK 500 ARG B 6 NE - CZ - NH1 ANGL. DEV. = -5.2 DEGREES REMARK 500 ARG B 6 NE - CZ - NH2 ANGL. DEV. = 7.8 DEGREES REMARK 500 VAL B 58 CA - CB - CG2 ANGL. DEV. = 10.8 DEGREES REMARK 500 LYS B 60 CA - CB - CG ANGL. DEV. = 13.3 DEGREES REMARK 500 PRO B 62 O - C - N ANGL. DEV. = -11.8 DEGREES REMARK 500 ARG B 74 CD - NE - CZ ANGL. DEV. = 11.3 DEGREES REMARK 500 ARG B 78 NE - CZ - NH1 ANGL. DEV. = 3.8 DEGREES REMARK 500 SER B 128 O - C - N ANGL. DEV. = 10.7 DEGREES REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: TORSION ANGLES REMARK 500 REMARK 500 TORSION ANGLES OUTSIDE THE EXPECTED RAMACHANDRAN REGIONS: REMARK 500 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 500 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT:(10X,I3,1X,A3,1X,A1,I4,A1,4X,F7.2,3X,F7.2) REMARK 500 REMARK 500 EXPECTED VALUES: GJ KLEYWEGT AND TA JONES (1996). PHI/PSI- REMARK 500 CHOLOGY: RAMACHANDRAN REVISITED. STRUCTURE 4, 1395 - 1400 REMARK 500 REMARK 500 M RES CSSEQI PSI PHI REMARK 500 LYS A 86 -63.64 -94.42 REMARK 500 LYS B 86 -60.98 -91.09 REMARK 500 LEU B 101 -169.20 -104.29 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: MAIN CHAIN PLANARITY REMARK 500 REMARK 500 THE FOLLOWING RESIDUES HAVE A PSEUDO PLANARITY REMARK 500 TORSION ANGLE, C(I) - CA(I) - N(I+1) - O(I), GREATER REMARK 500 10.0 DEGREES. (M=MODEL NUMBER; RES=RESIDUE NAME; REMARK 500 C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 500 I=INSERTION CODE). REMARK 500 REMARK 500 M RES CSSEQI ANGLE REMARK 500 LEU A 49 11.49 REMARK 500 ILE B 80 10.12 REMARK 500 LEU B 119 12.71 REMARK 500 ASN B 135 11.63 REMARK 500 ILE B 137 11.45 REMARK 500 REMARK 500 REMARK: NULL REMARK 610 REMARK 610 MISSING HETEROATOM REMARK 610 THE FOLLOWING RESIDUES HAVE MISSING ATOMS (M=MODEL NUMBER; REMARK 610 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 610 I=INSERTION CODE): REMARK 610 M RES C SSEQI REMARK 610 MOO A 1142 REMARK 610 MOO A 1143 REMARK 610 MOO B 1142 REMARK 610 MOO B 1143 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MOO A1142 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MOO A1143 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MOO A1144 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MOO A1145 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MOO B1142 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MOO B1143 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MOO B1144 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MOO B1145 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1ATG RELATED DB: PDB REMARK 900 AZOTOBACTER VINELANDII PERIPLASMIC MOLYBDATE- BINDINGPROTEIN REMARK 900 RELATED ID: 1H9J RELATED DB: PDB REMARK 900 TWO CRYSTAL STRUCTURES OF THE CYTOPLASMIC MOLYBDATE-BINDING PROTEIN REMARK 900 MODG SUGGEST A NOVEL COOPERATIVE BINDING MECHANISM AND PROVIDE REMARK 900 INSIGHTS INTO LIGAND-BINDING SPECIFICITY. REMARK 900 RELATED ID: 1H9K RELATED DB: PDB REMARK 900 TWO CRYSTAL STRUCTURES OF THE CYTOPLASMIC MOLYBDATE-BINDING PROTEIN REMARK 900 MODG SUGGEST A NOVEL COOPERATIVE BINDING MECHANISM AND PROVIDE REMARK 900 INSIGHTS INTO LIGAND-BINDING SPECIFICITY. PHOSPHATE-GROWN FORM WITH REMARK 900 TUNGSTATE AND PHOSPHATE BOUND DBREF 1H9M A -3 -1 PDB 1H9M 1H9M -3 -1 DBREF 1H9M A 1 142 UNP Q44529 Q44529 1 142 DBREF 1H9M B -3 -1 PDB 1H9M 1H9M -3 -1 DBREF 1H9M B 1 142 UNP Q44529 Q44529 1 142 SEQRES 1 A 145 GLY SER HIS MET LYS ILE SER ALA ARG ASN VAL PHE LYS SEQRES 2 A 145 GLY THR VAL SER ALA LEU LYS GLU GLY ALA VAL ASN ALA SEQRES 3 A 145 GLU VAL ASP ILE LEU LEU GLY GLY GLY ASP LYS LEU ALA SEQRES 4 A 145 ALA VAL VAL THR LEU GLU SER ALA ARG SER LEU GLN LEU SEQRES 5 A 145 ALA ALA GLY LYS GLU VAL VAL ALA VAL VAL LYS ALA PRO SEQRES 6 A 145 TRP VAL LEU LEU MET THR ASP SER SER GLY TYR ARG LEU SEQRES 7 A 145 SER ALA ARG ASN ILE LEU THR GLY THR VAL LYS THR ILE SEQRES 8 A 145 GLU THR GLY ALA VAL ASN ALA GLU VAL THR LEU ALA LEU SEQRES 9 A 145 GLN GLY GLY THR GLU ILE THR SER MET VAL THR LYS GLU SEQRES 10 A 145 ALA VAL ALA GLU LEU GLY LEU LYS PRO GLY ALA SER ALA SEQRES 11 A 145 SER ALA VAL ILE LYS ALA SER ASN VAL ILE LEU GLY VAL SEQRES 12 A 145 PRO ALA SEQRES 1 B 145 GLY SER HIS MET LYS ILE SER ALA ARG ASN VAL PHE LYS SEQRES 2 B 145 GLY THR VAL SER ALA LEU LYS GLU GLY ALA VAL ASN ALA SEQRES 3 B 145 GLU VAL ASP ILE LEU LEU GLY GLY GLY ASP LYS LEU ALA SEQRES 4 B 145 ALA VAL VAL THR LEU GLU SER ALA ARG SER LEU GLN LEU SEQRES 5 B 145 ALA ALA GLY LYS GLU VAL VAL ALA VAL VAL LYS ALA PRO SEQRES 6 B 145 TRP VAL LEU LEU MET THR ASP SER SER GLY TYR ARG LEU SEQRES 7 B 145 SER ALA ARG ASN ILE LEU THR GLY THR VAL LYS THR ILE SEQRES 8 B 145 GLU THR GLY ALA VAL ASN ALA GLU VAL THR LEU ALA LEU SEQRES 9 B 145 GLN GLY GLY THR GLU ILE THR SER MET VAL THR LYS GLU SEQRES 10 B 145 ALA VAL ALA GLU LEU GLY LEU LYS PRO GLY ALA SER ALA SEQRES 11 B 145 SER ALA VAL ILE LYS ALA SER ASN VAL ILE LEU GLY VAL SEQRES 12 B 145 PRO ALA HET MOO A1142 3 HET MOO A1143 3 HET MOO A1144 5 HET MOO A1145 5 HET MOO B1142 3 HET MOO B1143 3 HET MOO B1144 5 HET MOO B1145 5 HETNAM MOO MOLYBDATE ION HETSYN MOO MOLYBDATE FORMUL 3 MOO 8(MO O4 2-) FORMUL 11 HOH *79(H2 O) HELIX 1 1 LEU A 41 LEU A 47 1 7 HELIX 2 2 LYS A 60 VAL A 64 5 5 HELIX 3 3 LYS A 113 LEU A 119 1 7 HELIX 4 4 LYS A 132 VAL A 136 5 5 HELIX 5 5 LEU B 41 LEU B 47 1 7 HELIX 6 6 LYS B 60 VAL B 64 5 5 HELIX 7 7 LYS B 113 LEU B 119 1 7 HELIX 8 8 LYS B 132 VAL B 136 5 5 SHEET 1 AA 5 LYS A 34 THR A 40 0 SHEET 2 AA 5 ASN A 22 LEU A 29 -1 O ALA A 23 N VAL A 39 SHEET 3 AA 5 ASN A 7 GLU A 18 -1 O THR A 12 N LEU A 28 SHEET 4 AA 5 GLU A 54 VAL A 59 -1 O VAL A 55 N GLY A 11 SHEET 5 AA 5 ILE A 137 GLY A 139 -1 O ILE A 137 N VAL A 58 SHEET 1 AB 5 LEU A 65 MET A 67 0 SHEET 2 AB 5 SER A 126 ILE A 131 -1 O SER A 128 N MET A 67 SHEET 3 AB 5 ASN A 79 THR A 90 -1 O ASN A 79 N ILE A 131 SHEET 4 AB 5 ASN A 94 LEU A 101 -1 O GLU A 96 N GLU A 89 SHEET 5 AB 5 GLU A 106 THR A 112 -1 O ILE A 107 N LEU A 99 SHEET 1 BA 5 LYS B 34 THR B 40 0 SHEET 2 BA 5 ASN B 22 LEU B 29 -1 O ALA B 23 N VAL B 39 SHEET 3 BA 5 ASN B 7 GLU B 18 -1 O THR B 12 N LEU B 28 SHEET 4 BA 5 GLU B 54 VAL B 59 -1 O VAL B 55 N GLY B 11 SHEET 5 BA 5 ILE B 137 GLY B 139 -1 O ILE B 137 N VAL B 58 SHEET 1 BB 5 LEU B 65 MET B 67 0 SHEET 2 BB 5 SER B 126 ILE B 131 -1 O SER B 128 N MET B 67 SHEET 3 BB 5 ASN B 79 THR B 90 -1 O ASN B 79 N ILE B 131 SHEET 4 BB 5 ASN B 94 ALA B 100 -1 O GLU B 96 N GLU B 89 SHEET 5 BB 5 GLU B 106 THR B 112 -1 O ILE B 107 N LEU B 99 SITE 1 AC1 3 ALA A 92 VAL A 93 ASN A 94 SITE 1 AC2 3 ALA A 20 VAL A 21 ASN A 22 SITE 1 AC3 10 SER A 4 ALA A 5 ARG A 6 LYS A 60 SITE 2 AC3 10 ALA A 61 PRO A 62 VAL A 111 THR A 112 SITE 3 AC3 10 ALA A 115 HOH A2023 SITE 1 AC4 9 VAL A 39 THR A 40 SER A 43 SER A 76 SITE 2 AC4 9 ALA A 77 ARG A 78 LYS A 132 ALA A 133 SITE 3 AC4 9 HOH A2036 SITE 1 AC5 3 ALA B 20 VAL B 21 ASN B 22 SITE 1 AC6 3 ALA B 92 VAL B 93 ASN B 94 SITE 1 AC7 10 SER B 4 ALA B 5 ARG B 6 LYS B 60 SITE 2 AC7 10 ALA B 61 PRO B 62 VAL B 111 THR B 112 SITE 3 AC7 10 ALA B 115 HOH B2032 SITE 1 AC8 9 VAL B 39 THR B 40 SER B 43 SER B 76 SITE 2 AC8 9 ALA B 77 ARG B 78 LYS B 132 ALA B 133 SITE 3 AC8 9 HOH B2043 CRYST1 81.960 81.960 93.417 90.00 90.00 120.00 H 3 18 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 0.012201 0.007044 0.000000 0.00000 SCALE2 0.000000 0.014088 0.000000 0.00000 SCALE3 0.000000 0.000000 0.010705 0.00000 MTRIX1 1 -0.502320 0.864680 -0.000620 0.11845 1 MTRIX2 1 0.864680 0.502320 0.002590 -0.19583 1 MTRIX3 1 0.002550 0.000760 -1.000000 93.35040 1