HEADER METAL BINDING PROTEIN 29-AUG-17 5OVO TITLE STRUCTURE OF DRAG-GLNZ-DELTA42-54 COMPLEX FROM AZOSPIRILLUM BRASILENSE CAVEAT 5OVO THR A 169 HAS WRONG CHIRALITY AT ATOM CB COMPND MOL_ID: 1; COMPND 2 MOLECULE: ADP-RIBOSYL-(DINITROGEN REDUCTASE) HYDROLASE; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: DINITROGENASE REDUCTASE ACTIVACTING GLICOHYDROLASE; COMPND 5 ENGINEERED: YES; COMPND 6 MOL_ID: 2; COMPND 7 MOLECULE: NITROGEN REGULATORY PROTEIN P-II 1; COMPND 8 CHAIN: B; COMPND 9 SYNONYM: PII-LIKE PROTEIN PZ,PZ PROTEIN,TRANSCRIPTIONAL REGULATOR; COMPND 10 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: AZOSPIRILLUM BRASILENSE; SOURCE 3 ORGANISM_TAXID: 192; SOURCE 4 GENE: DRAG, AMK58_04675; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 7 MOL_ID: 2; SOURCE 8 ORGANISM_SCIENTIFIC: AZOSPIRILLUM BRASILENSE; SOURCE 9 ORGANISM_TAXID: 192; SOURCE 10 GENE: GLNZ, ABAZ39_13575, AMK58_13670; SOURCE 11 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 12 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS GLYCOHYDROLASE, METAL BINDING PROTEIN EXPDTA X-RAY DIFFRACTION AUTHOR C.L.BERTHOLD,M.HOGBOM REVDAT 3 08-MAY-24 5OVO 1 REMARK REVDAT 2 16-OCT-19 5OVO 1 REMARK REVDAT 1 11-OCT-17 5OVO 0 JRNL AUTH C.L.BERTHOLD,M.HOGBOM JRNL TITL STRUCTURE OF DRAG-GLNZ-DELTA42-54 COMPLEX FROM AZOSPIRILLUM JRNL TITL 2 BRASILENSE JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 1.55 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 : NULL REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.55 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 45.60 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 3 NUMBER OF REFLECTIONS : 74016 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) : 0.145 REMARK 3 R VALUE (WORKING SET) : 0.144 REMARK 3 FREE R VALUE : 0.165 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 3881 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) : 1.55 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.59 REMARK 3 REFLECTION IN BIN (WORKING SET) : 5536 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 99.86 REMARK 3 BIN R VALUE (WORKING SET) : 0.3710 REMARK 3 BIN FREE R VALUE SET COUNT : 231 REMARK 3 BIN FREE R VALUE : 0.4280 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 3019 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 57 REMARK 3 SOLVENT ATOMS : 507 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 14.90 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -3.42000 REMARK 3 B22 (A**2) : -3.42000 REMARK 3 B33 (A**2) : 6.85000 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 OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.012 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.012 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.027 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 0.703 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.973 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.960 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 3192 ; 0.025 ; 0.019 REMARK 3 BOND LENGTHS OTHERS (A): 3062 ; 0.001 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 4342 ; 2.443 ; 1.974 REMARK 3 BOND ANGLES OTHERS (DEGREES): 7026 ; 2.547 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 407 ; 5.851 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 144 ;36.601 ;23.542 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 539 ;15.940 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 27 ;19.937 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 488 ; 0.181 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 3625 ; 0.013 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 736 ; 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): 1591 ; 1.313 ; 1.244 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 1590 ; 1.310 ; 1.244 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 1988 ; 1.652 ; 1.870 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): 1989 ; 1.652 ; 1.870 REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1601 ; 1.983 ; 1.456 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): 1602 ; 1.982 ; 1.456 REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): 2346 ; 2.625 ; 2.119 REMARK 3 LONG RANGE B REFINED ATOMS (A**2): 4206 ; 4.842 ;12.205 REMARK 3 LONG RANGE B OTHER ATOMS (A**2): 3926 ; 4.448 ;11.064 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 NUMBER OF DIFFERENT NCS GROUPS : NULL REMARK 3 REMARK 3 TWIN DETAILS REMARK 3 NUMBER OF TWIN DOMAINS : 2 REMARK 3 TWIN DOMAIN : 1 REMARK 3 TWIN OPERATOR : H, K, L REMARK 3 TWIN FRACTION : 0.588 REMARK 3 TWIN DOMAIN : 2 REMARK 3 TWIN OPERATOR : K, H, -L REMARK 3 TWIN FRACTION : 0.412 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : NULL REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : NULL 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 5OVO COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 30-AUG-17. REMARK 100 THE DEPOSITION ID IS D_1200006434. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 07-FEB-14 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : NULL REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : BESSY REMARK 200 BEAMLINE : 14.1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.91841 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS3 S 6M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : XSCALE REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 77898 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.550 REMARK 200 RESOLUTION RANGE LOW (A) : 46.800 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.8 REMARK 200 DATA REDUNDANCY : 5.200 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 10.9000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : NULL REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : NULL REMARK 200 COMPLETENESS FOR SHELL (%) : NULL REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : NULL REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: NULL REMARK 200 SOFTWARE USED: MOLREP REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 61.60 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.20 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 35 % (V/V) GLYCEROL ETHOXYLATE, 0.2 M REMARK 280 LITHIUM CITRATE, VAPOR DIFFUSION, TEMPERATURE 298K 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 58.37000 REMARK 290 SMTRY2 4 0.000000 1.000000 0.000000 33.69994 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 35.20533 REMARK 290 SMTRY1 5 -0.500000 -0.866025 0.000000 58.37000 REMARK 290 SMTRY2 5 0.866025 -0.500000 0.000000 33.69994 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 35.20533 REMARK 290 SMTRY1 6 -0.500000 0.866025 0.000000 58.37000 REMARK 290 SMTRY2 6 -0.866025 -0.500000 0.000000 33.69994 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 35.20533 REMARK 290 SMTRY1 7 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 7 0.000000 1.000000 0.000000 67.39987 REMARK 290 SMTRY3 7 0.000000 0.000000 1.000000 70.41067 REMARK 290 SMTRY1 8 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 8 0.866025 -0.500000 0.000000 67.39987 REMARK 290 SMTRY3 8 0.000000 0.000000 1.000000 70.41067 REMARK 290 SMTRY1 9 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 9 -0.866025 -0.500000 0.000000 67.39987 REMARK 290 SMTRY3 9 0.000000 0.000000 1.000000 70.41067 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: HEXAMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: HEXAMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 17720 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 42340 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -158.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 350 BIOMT1 2 -0.500000 -0.866025 0.000000 0.00000 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 0.00000 REMARK 350 BIOMT2 3 -0.866025 -0.500000 0.000000 0.00000 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 HOH B 434 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 1 REMARK 465 THR A 2 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 OD2 ASP A 273 O HOH A 501 1.80 REMARK 500 O HOH B 417 O HOH B 425 1.98 REMARK 500 OH TYR A 39 O HOH A 502 1.98 REMARK 500 O HOH B 310 O HOH B 407 2.06 REMARK 500 OD1 ASP A 3 O HOH A 503 2.10 REMARK 500 O HOH A 557 O HOH A 800 2.10 REMARK 500 O HOH B 391 O HOH B 397 2.14 REMARK 500 NZ LYS B 34 O HOH B 301 2.15 REMARK 500 O HOH B 398 O HOH B 425 2.16 REMARK 500 OD1 ASP B 14 O HOH B 302 2.17 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 ARG A 82 CD ARG A 82 NE -0.103 REMARK 500 GLU A 119 CD GLU A 119 OE2 0.087 REMARK 500 GLU A 147 CD GLU A 147 OE1 0.066 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 ASP A 21 CB - CG - OD2 ANGL. DEV. = -5.6 DEGREES REMARK 500 ARG A 82 CG - CD - NE ANGL. DEV. = -12.7 DEGREES REMARK 500 ARG A 82 CD - NE - CZ ANGL. DEV. = 11.2 DEGREES REMARK 500 ARG A 82 NE - CZ - NH1 ANGL. DEV. = 11.9 DEGREES REMARK 500 ARG A 82 NE - CZ - NH2 ANGL. DEV. = -11.4 DEGREES REMARK 500 ASP A 97 CB - CG - OD2 ANGL. DEV. = 7.9 DEGREES REMARK 500 ASP A 100 CB - CG - OD1 ANGL. DEV. = 6.0 DEGREES REMARK 500 ASP A 100 CB - CG - OD2 ANGL. DEV. = -5.4 DEGREES REMARK 500 ARG A 107 NE - CZ - NH1 ANGL. DEV. = 3.2 DEGREES REMARK 500 MET A 130 CG - SD - CE ANGL. DEV. = -18.7 DEGREES REMARK 500 ARG A 131 NE - CZ - NH1 ANGL. DEV. = 3.1 DEGREES REMARK 500 LEU A 140 CB - CG - CD1 ANGL. DEV. = 14.7 DEGREES REMARK 500 ASP A 143 CB - CG - OD1 ANGL. DEV. = 7.0 DEGREES REMARK 500 ARG A 148 NE - CZ - NH2 ANGL. DEV. = 3.4 DEGREES REMARK 500 ASP A 164 CB - CG - OD1 ANGL. DEV. = 6.2 DEGREES REMARK 500 ASP A 164 CB - CG - OD2 ANGL. DEV. = -7.3 DEGREES REMARK 500 THR A 169 CA - CB - CG2 ANGL. DEV. = 9.9 DEGREES REMARK 500 ARG A 176 NE - CZ - NH2 ANGL. DEV. = 3.9 DEGREES REMARK 500 ASP A 182 CB - CG - OD1 ANGL. DEV. = 7.3 DEGREES REMARK 500 ARG A 187 NE - CZ - NH1 ANGL. DEV. = 4.5 DEGREES REMARK 500 PHE A 202 CB - CG - CD2 ANGL. DEV. = -4.3 DEGREES REMARK 500 ASP A 215 CB - CG - OD1 ANGL. DEV. = 6.6 DEGREES REMARK 500 ASP A 215 CB - CG - OD2 ANGL. DEV. = -8.0 DEGREES REMARK 500 ASP A 273 CB - CG - OD1 ANGL. DEV. = 5.6 DEGREES REMARK 500 ARG A 290 NE - CZ - NH2 ANGL. DEV. = -3.0 DEGREES REMARK 500 GLU B 15 OE1 - CD - OE2 ANGL. DEV. = 7.2 DEGREES REMARK 500 ARG B 17 NE - CZ - NH1 ANGL. DEV. = 5.3 DEGREES REMARK 500 ARG B 17 NE - CZ - NH2 ANGL. DEV. = -3.4 DEGREES REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: TORSION ANGLES REMARK 500 REMARK 500 TORSION ANGLES OUTSIDE THE EXPECTED RAMACHANDRAN REGIONS: REMARK 500 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 500 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT:(10X,I3,1X,A3,1X,A1,I4,A1,4X,F7.2,3X,F7.2) REMARK 500 REMARK 500 EXPECTED VALUES: GJ KLEYWEGT AND TA JONES (1996). PHI/PSI- REMARK 500 CHOLOGY: RAMACHANDRAN REVISITED. STRUCTURE 4, 1395 - 1400 REMARK 500 REMARK 500 M RES CSSEQI PSI PHI REMARK 500 PHE A 29 -1.94 74.43 REMARK 500 THR A 59 -158.93 -128.88 REMARK 500 VAL A 94 79.82 68.52 REMARK 500 ALA A 209 35.10 -143.90 REMARK 500 ASN B 108 -125.21 51.59 REMARK 500 REMARK 500 REMARK: NULL REMARK 525 REMARK 525 SOLVENT REMARK 525 REMARK 525 THE SOLVENT MOLECULES HAVE CHAIN IDENTIFIERS THAT REMARK 525 INDICATE THE POLYMER CHAIN WITH WHICH THEY ARE MOST REMARK 525 CLOSELY ASSOCIATED. THE REMARK LISTS ALL THE SOLVENT REMARK 525 MOLECULES WHICH ARE MORE THAN 5A AWAY FROM THE REMARK 525 NEAREST POLYMER CHAIN (M = MODEL NUMBER; REMARK 525 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE REMARK 525 NUMBER; I=INSERTION CODE): REMARK 525 REMARK 525 M RES CSSEQI REMARK 525 HOH A 840 DISTANCE = 5.94 ANGSTROMS REMARK 525 HOH A 841 DISTANCE = 5.96 ANGSTROMS REMARK 525 HOH A 842 DISTANCE = 6.02 ANGSTROMS REMARK 525 HOH A 843 DISTANCE = 6.19 ANGSTROMS REMARK 525 HOH A 844 DISTANCE = 6.27 ANGSTROMS REMARK 525 HOH A 845 DISTANCE = 6.29 ANGSTROMS REMARK 525 HOH A 846 DISTANCE = 6.55 ANGSTROMS REMARK 525 HOH A 847 DISTANCE = 6.80 ANGSTROMS REMARK 525 HOH A 848 DISTANCE = 6.90 ANGSTROMS REMARK 525 HOH A 849 DISTANCE = 7.61 ANGSTROMS REMARK 525 HOH A 850 DISTANCE = 7.98 ANGSTROMS REMARK 525 HOH A 851 DISTANCE = 9.22 ANGSTROMS REMARK 525 HOH A 852 DISTANCE = 9.78 ANGSTROMS REMARK 525 HOH A 853 DISTANCE = 9.88 ANGSTROMS REMARK 525 HOH B 451 DISTANCE = 6.05 ANGSTROMS REMARK 525 HOH B 452 DISTANCE = 6.12 ANGSTROMS REMARK 525 HOH B 453 DISTANCE = 6.19 ANGSTROMS REMARK 525 HOH B 454 DISTANCE = 7.14 ANGSTROMS 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 303 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 TYR A 122 O REMARK 620 2 ADP A 301 O1B 158.9 REMARK 620 N 1 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG A 302 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 245 OD2 REMARK 620 2 HOH A 514 O 109.9 REMARK 620 3 HOH A 531 O 143.8 92.4 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 ADP A 301 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue MG A 302 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue MG A 303 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue ADP B 201 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue MN B 202 DBREF 5OVO A 1 297 UNP A7XNI2 A7XNI2_AZOBR 1 297 DBREF 5OVO B 1 112 UNP P70731 P70731_AZOBR 1 112 SEQADV 5OVO B UNP P70731 GLN 42 DELETION SEQADV 5OVO B UNP P70731 THR 43 DELETION SEQADV 5OVO B UNP P70731 GLU 44 DELETION SEQADV 5OVO B UNP P70731 ILE 45 DELETION SEQADV 5OVO B UNP P70731 TYR 46 DELETION SEQADV 5OVO B UNP P70731 ARG 47 DELETION SEQADV 5OVO B UNP P70731 GLY 48 DELETION SEQADV 5OVO B UNP P70731 ALA 49 DELETION SEQADV 5OVO B UNP P70731 GLU 50 DELETION SEQADV 5OVO B UNP P70731 TYR 51 DELETION SEQADV 5OVO B UNP P70731 SER 52 DELETION SEQADV 5OVO B UNP P70731 VAL 53 DELETION SEQADV 5OVO B UNP P70731 SER 54 DELETION SEQRES 1 A 297 MET THR ASP HIS SER ILE ARG SER ARG ALA LEU GLY ALA SEQRES 2 A 297 TYR LEU GLY LEU ALA CYS GLY ASP ALA LEU GLY ALA THR SEQRES 3 A 297 VAL GLU PHE LEU THR LYS GLY GLU ILE ALA HIS GLN TYR SEQRES 4 A 297 GLY VAL HIS LYS HIS ILE LYS GLY GLY GLY TRP LEU LYS SEQRES 5 A 297 LEU PRO ALA GLY GLN VAL THR ASP ASP THR GLU MET SER SEQRES 6 A 297 ILE HIS LEU GLY ARG ALA ILE LEU ALA ALA PRO GLU TRP SEQRES 7 A 297 ASP ALA ARG ARG ALA ALA GLU GLU PHE ALA VAL TRP LEU SEQRES 8 A 297 LYS GLY VAL PRO VAL ASP VAL GLY ASP THR THR ARG ARG SEQRES 9 A 297 GLY ILE ARG ARG PHE ILE MET HIS GLY THR LEU SER GLU SEQRES 10 A 297 PRO GLU SER GLU TYR HIS ALA GLY ASN GLY ALA ALA MET SEQRES 11 A 297 ARG ASN LEU PRO VAL ALA LEU ALA THR LEU GLY ASP ASP SEQRES 12 A 297 ALA ALA PHE GLU ARG TRP THR VAL GLU GLN ALA HIS ILE SEQRES 13 A 297 THR HIS CYS ASN ALA MET SER ASP ALA ALA THR LEU THR SEQRES 14 A 297 LEU GLY HIS MET VAL ARG ARG LEU VAL LEU GLY GLY ASP SEQRES 15 A 297 VAL ARG ASP VAL ARG ASP GLU SER ASN LYS LEU ILE ALA SEQRES 16 A 297 LYS HIS ARG GLN PHE LYS PHE GLN PRO TYR ARG GLY LEU SEQRES 17 A 297 ALA THR ALA TYR ILE VAL ASP THR MET GLN THR VAL MET SEQRES 18 A 297 HIS TYR TYR PHE GLN THR ASP SER VAL GLU SER CYS VAL SEQRES 19 A 297 VAL GLU THR VAL ASN GLN GLY GLY ASP ALA ASP THR THR SEQRES 20 A 297 GLY ALA ILE ALA GLY MET LEU ALA GLY ALA THR TYR GLY SEQRES 21 A 297 VAL GLU THR ILE PRO PRO ARG TRP LEU ARG LYS LEU ASP SEQRES 22 A 297 ARG ASP VAL TYR ASN GLU ILE CYS ALA GLN VAL ASP GLY SEQRES 23 A 297 LEU LEU ALA ARG ALA PRO ALA LEU LYS GLN GLY SEQRES 1 B 99 MET LYS LEU VAL MET ALA ILE ILE LYS PRO PHE LYS LEU SEQRES 2 B 99 ASP GLU VAL ARG GLU ALA LEU THR SER LEU GLY ILE GLN SEQRES 3 B 99 GLY LEU THR VAL SER GLU VAL LYS GLY PHE GLY ARG GLN SEQRES 4 B 99 LYS GLY PHE LEU PRO LYS VAL LYS VAL GLU VAL ALA VAL SEQRES 5 B 99 SER ASP ASP GLN TYR GLU GLN VAL VAL GLU ALA ILE GLN SEQRES 6 B 99 LYS ALA ALA ASN THR GLY ARG ILE GLY ASP GLY LYS ILE SEQRES 7 B 99 PHE VAL LEU ASP ILE ALA GLN ALA VAL ARG ILE ARG THR SEQRES 8 B 99 GLY GLU THR ASN THR GLU ALA LEU HET ADP A 301 27 HET MG A 302 1 HET MG A 303 1 HET ADP B 201 27 HET MN B 202 1 HETNAM ADP ADENOSINE-5'-DIPHOSPHATE HETNAM MG MAGNESIUM ION HETNAM MN MANGANESE (II) ION FORMUL 3 ADP 2(C10 H15 N5 O10 P2) FORMUL 4 MG 2(MG 2+) FORMUL 7 MN MN 2+ FORMUL 8 HOH *507(H2 O) HELIX 1 AA1 ASP A 3 ALA A 25 1 23 HELIX 2 AA2 THR A 26 GLU A 28 5 3 HELIX 3 AA3 THR A 31 GLY A 40 1 10 HELIX 4 AA4 GLY A 48 LYS A 52 5 5 HELIX 5 AA5 THR A 59 ALA A 74 1 16 HELIX 6 AA6 ASP A 79 GLY A 93 1 15 HELIX 7 AA7 GLY A 99 GLY A 113 1 15 HELIX 8 AA8 ALA A 128 ARG A 131 5 4 HELIX 9 AA9 ASN A 132 THR A 139 1 8 HELIX 10 AB1 ASP A 142 HIS A 155 1 14 HELIX 11 AB2 ASN A 160 LEU A 179 1 20 HELIX 12 AB3 ASP A 182 HIS A 197 1 16 HELIX 13 AB4 ARG A 198 LYS A 201 5 4 HELIX 14 AB5 TYR A 212 THR A 227 1 16 HELIX 15 AB6 SER A 229 ASN A 239 1 11 HELIX 16 AB7 ASP A 243 GLY A 260 1 18 HELIX 17 AB8 VAL A 261 ILE A 264 5 4 HELIX 18 AB9 PRO A 265 ARG A 270 1 6 HELIX 19 AC1 ASP A 273 ALA A 289 1 17 HELIX 20 AC2 ARG A 290 LYS A 295 5 6 HELIX 21 AC3 LYS B 12 LEU B 23 1 12 HELIX 22 AC4 GLN B 69 ASN B 82 1 14 HELIX 23 AC5 THR B 107 LEU B 112 5 6 SHEET 1 AA1 4 THR B 29 GLY B 35 0 SHEET 2 AA1 4 LEU B 56 VAL B 65 -1 O LYS B 60 N SER B 31 SHEET 3 AA1 4 LYS B 2 ILE B 8 -1 N VAL B 4 O VAL B 63 SHEET 4 AA1 4 GLY B 89 ASP B 95 -1 O LEU B 94 N LEU B 3 LINK O TYR A 122 MG MG A 303 1555 1555 2.89 LINK OD2 ASP A 245 MG MG A 302 1555 1555 2.67 LINK O1B ADP A 301 MG MG A 303 1555 1555 2.88 LINK MG MG A 302 O HOH A 514 1555 1555 2.84 LINK MG MG A 302 O HOH A 531 1555 1555 2.90 CISPEP 1 GLN A 203 PRO A 204 0 -4.38 SITE 1 AC1 22 GLY A 99 ASP A 100 THR A 101 THR A 102 SITE 2 AC1 22 GLU A 121 TYR A 122 ALA A 124 GLY A 125 SITE 3 AC1 22 ASN A 126 GLY A 127 HIS A 158 TYR A 212 SITE 4 AC1 22 MG A 303 HOH A 505 HOH A 509 HOH A 538 SITE 5 AC1 22 HOH A 543 HOH A 546 HOH A 584 HOH A 637 SITE 6 AC1 22 HOH A 659 HOH A 713 SITE 1 AC2 6 GLU A 28 ASP A 243 ASP A 245 THR A 246 SITE 2 AC2 6 HOH A 514 HOH A 531 SITE 1 AC3 6 THR A 101 TYR A 122 HIS A 123 ALA A 124 SITE 2 AC3 6 GLY A 125 ADP A 301 SITE 1 AC4 23 ILE B 7 GLY B 27 LEU B 28 THR B 29 SITE 2 AC4 23 GLY B 35 PHE B 36 GLY B 37 ARG B 38 SITE 3 AC4 23 GLN B 39 LYS B 58 GLU B 62 VAL B 63 SITE 4 AC4 23 ALA B 64 ILE B 86 GLY B 87 LYS B 90 SITE 5 AC4 23 ARG B 101 ARG B 103 HOH B 306 HOH B 329 SITE 6 AC4 23 HOH B 349 HOH B 355 HOH B 356 SITE 1 AC5 4 ARG A 103 ARG A 107 GLN B 26 GLY B 27 CRYST1 116.740 116.740 105.616 90.00 90.00 120.00 H 3 9 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 0.008566 0.004946 0.000000 0.00000 SCALE2 0.000000 0.009891 0.000000 0.00000 SCALE3 0.000000 0.000000 0.009468 0.00000