HEADER SIGNALING PROTEIN 28-OCT-16 5M7O TITLE CRYSTAL STRUCTURE OF NTRX FROM BRUCELLA ABORTUS PROCESSED WITH THE TITLE 2 CRYSTALDIRECT AUTOMATED MOUNTING AND CRYO-COOLING TECHNOLOGY COMPND MOL_ID: 1; COMPND 2 MOLECULE: NITROGEN ASSIMILATION REGULATORY PROTEIN; COMPND 3 CHAIN: A, B; COMPND 4 ENGINEERED: YES; COMPND 5 OTHER_DETAILS: PROTEIN CHAIN NOT BUILT BETWEEN RESIDUES 137-142, COMPND 6 FLEXIBLE REGION NOT CLEARLY VISIBLE IN THE ELECTRON DENSITY. ALSO THE COMPND 7 INITIAL G AND THE FINAL V ARE NOT SEEN IN THE ELECTRON DENSITY. SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: BRUCELLA ABORTUS STR. 2308 A; SOURCE 3 ORGANISM_TAXID: 641140; SOURCE 4 GENE: BAAA_2000042; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 7 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 8 EXPRESSION_SYSTEM_PLASMID: PET28 KEYWDS CRYSTALDIRECT, SIGNALING PROTEIN, BRUCELLOSIS, TWO-COMPONENT SYSTEM EXPDTA X-RAY DIFFRACTION AUTHOR I.CORNACIU,I.FERNANDEZ,G.HOFFMANN,M.C.CARRICA,F.A.GOLDBAUM, AUTHOR 2 J.A.MARQUEZ REVDAT 2 26-APR-17 5M7O 1 JRNL REVDAT 1 25-JAN-17 5M7O 0 JRNL AUTH I.FERNANDEZ,I.CORNACIU,M.D.CARRICA,E.UCHIKAWA,G.HOFFMANN, JRNL AUTH 2 R.SIEIRA,J.A.MARQUEZ,F.A.GOLDBAUM JRNL TITL THREE-DIMENSIONAL STRUCTURE OF FULL-LENGTH NTRX, AN UNUSUAL JRNL TITL 2 MEMBER OF THE NTRC FAMILY OF RESPONSE REGULATORS. JRNL REF J. MOL. BIOL. V. 429 1192 2017 JRNL REFN ESSN 1089-8638 JRNL PMID 28088479 JRNL DOI 10.1016/J.JMB.2016.12.022 REMARK 2 REMARK 2 RESOLUTION. 2.20 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.8.0155 REMARK 3 AUTHORS : MURSHUDOV,VAGIN,DODSON REMARK 3 REMARK 3 REFINEMENT TARGET : NULL REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.20 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 50.02 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 99.7 REMARK 3 NUMBER OF REFLECTIONS : 64403 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) : 0.230 REMARK 3 R VALUE (WORKING SET) : 0.227 REMARK 3 FREE R VALUE : 0.269 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 3401 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) : 2.20 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.26 REMARK 3 REFLECTION IN BIN (WORKING SET) : 4670 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 99.27 REMARK 3 BIN R VALUE (WORKING SET) : 0.4150 REMARK 3 BIN FREE R VALUE SET COUNT : 247 REMARK 3 BIN FREE R VALUE : 0.4220 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 6822 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 2 REMARK 3 SOLVENT ATOMS : 122 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 58.37 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -2.52000 REMARK 3 B22 (A**2) : -0.93000 REMARK 3 B33 (A**2) : 3.45000 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): 0.222 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.198 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.247 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 11.245 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.954 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.930 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 6915 ; 0.012 ; 0.019 REMARK 3 BOND LENGTHS OTHERS (A): 6868 ; 0.006 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 9338 ; 1.560 ; 1.976 REMARK 3 BOND ANGLES OTHERS (DEGREES): 15718 ; 0.981 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 879 ; 5.897 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 319 ;31.301 ;23.229 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 1242 ;14.385 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 80 ;17.713 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 1082 ; 0.082 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 7819 ; 0.006 ; 0.021 REMARK 3 GENERAL PLANES OTHERS (A): 1533 ; 0.002 ; 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): 3531 ; 3.806 ; 5.646 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 3530 ; 3.805 ; 5.645 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 4405 ; 5.874 ; 8.444 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): 4406 ; 5.874 ; 8.445 REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 3384 ; 4.189 ; 6.104 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): 3385 ; 4.188 ; 6.105 REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): 4934 ; 6.779 ; 8.966 REMARK 3 LONG RANGE B REFINED ATOMS (A**2): 7442 ; 9.306 ;66.589 REMARK 3 LONG RANGE B OTHER ATOMS (A**2): 7438 ; 9.310 ;66.604 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 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 5M7O COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 28-OCT-16. REMARK 100 THE DEPOSITION ID IS D_1200002029. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 04-JUL-16 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 : ESRF REMARK 200 BEAMLINE : ID29 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9762 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS3 6M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : SCALA REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 67838 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.200 REMARK 200 RESOLUTION RANGE LOW (A) : 50.020 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.8 REMARK 200 DATA REDUNDANCY : 5.600 REMARK 200 R MERGE (I) : 0.15200 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 8.0000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.20 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.32 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.5 REMARK 200 DATA REDUNDANCY IN SHELL : 5.40 REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 0.800 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: SAD REMARK 200 SOFTWARE USED: SHELXCD REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 62.92 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.32 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 3.36 M SODIUM FORMATE, VAPOR REMARK 280 DIFFUSION, SITTING DROP, TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: C 2 2 21 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,-Y,Z+1/2 REMARK 290 3555 -X,Y,-Z+1/2 REMARK 290 4555 X,-Y,-Z REMARK 290 5555 X+1/2,Y+1/2,Z REMARK 290 6555 -X+1/2,-Y+1/2,Z+1/2 REMARK 290 7555 -X+1/2,Y+1/2,-Z+1/2 REMARK 290 8555 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 55.92500 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 55.92500 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 5 1.000000 0.000000 0.000000 62.38900 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 95.61400 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 6 -1.000000 0.000000 0.000000 62.38900 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 95.61400 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 55.92500 REMARK 290 SMTRY1 7 -1.000000 0.000000 0.000000 62.38900 REMARK 290 SMTRY2 7 0.000000 1.000000 0.000000 95.61400 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 55.92500 REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 62.38900 REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 95.61400 REMARK 290 SMTRY3 8 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: 9060 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 39290 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -51.0 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 GLY A 0 REMARK 465 ASP A 138 REMARK 465 GLN A 139 REMARK 465 LEU A 140 REMARK 465 GLU A 141 REMARK 465 VAL A 453 REMARK 465 GLY B 0 REMARK 465 THR B 136 REMARK 465 GLY B 137 REMARK 465 ASP B 138 REMARK 465 GLN B 139 REMARK 465 LEU B 140 REMARK 465 GLU B 141 REMARK 465 LEU B 142 REMARK 465 ASP B 389 REMARK 465 THR B 390 REMARK 465 LEU B 391 REMARK 465 PRO B 392 REMARK 465 ARG B 393 REMARK 465 ALA B 394 REMARK 465 PRO B 395 REMARK 465 THR B 396 REMARK 465 GLU B 397 REMARK 465 SER B 398 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 134 CG CD CE NZ REMARK 470 ASN A 163 CG OD1 ND2 REMARK 470 GLU A 288 CG CD OE1 OE2 REMARK 470 LYS A 337 CG CD CE NZ REMARK 470 VAL B 143 CG1 CG2 REMARK 470 GLN B 151 CG CD OE1 NE2 REMARK 470 ARG B 244 CG CD NE CZ NH1 NH2 REMARK 470 GLU B 245 CG CD OE1 OE2 REMARK 470 LYS B 325 CG CD CE NZ REMARK 470 GLU B 329 CG CD OE1 OE2 REMARK 470 LYS B 334 CG CD CE NZ REMARK 470 LYS B 337 CG CD CE NZ REMARK 470 ASP B 375 CG OD1 OD2 REMARK 470 ASP B 381 CG OD1 OD2 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 O HOH A 645 O HOH A 645 3555 0.59 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 GLU B 386 CD GLU B 386 OE1 0.082 REMARK 500 GLU B 386 CD GLU B 386 OE2 0.080 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 53 CB - CG - OD1 ANGL. DEV. = 5.4 DEGREES REMARK 500 ARG A 158 NE - CZ - NH1 ANGL. DEV. = 3.2 DEGREES REMARK 500 ARG A 158 NE - CZ - NH2 ANGL. DEV. = -3.2 DEGREES REMARK 500 ARG A 189 NE - CZ - NH1 ANGL. DEV. = 3.0 DEGREES REMARK 500 ARG B 30 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 ARG A 312 58.13 -144.17 REMARK 500 ASN A 354 -137.25 53.63 REMARK 500 ASP A 381 -9.06 -58.36 REMARK 500 PRO A 384 -177.14 -61.93 REMARK 500 TRP B 55 -62.17 -91.61 REMARK 500 ASN B 87 45.44 -106.95 REMARK 500 VAL B 255 -60.24 -96.35 REMARK 500 ASN B 354 -132.60 53.59 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 501 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 9 OD1 REMARK 620 2 ASP A 10 OD1 85.6 REMARK 620 3 ASP A 53 OD2 73.7 74.8 REMARK 620 4 HOH A 618 O 88.2 152.8 78.0 REMARK 620 5 HOH A 658 O 151.3 82.9 77.9 90.1 REMARK 620 N 1 2 3 4 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG B 501 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP B 9 OD1 REMARK 620 2 ASP B 10 OD1 95.9 REMARK 620 3 GLU B 11 OE2 119.1 96.3 REMARK 620 4 ASP B 53 OD2 74.5 75.5 165.3 REMARK 620 5 HOH B 606 O 73.4 146.0 117.2 70.6 REMARK 620 6 HOH B 637 O 140.3 93.0 98.1 70.5 77.8 REMARK 620 N 1 2 3 4 5 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue MG A 501 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue MG B 501 DBREF 5M7O A 1 453 UNP C4IRH0 C4IRH0_BRUAO 1 453 DBREF 5M7O B 1 453 UNP C4IRH0 C4IRH0_BRUAO 1 453 SEQADV 5M7O GLY A 0 UNP C4IRH0 EXPRESSION TAG SEQADV 5M7O GLY B 0 UNP C4IRH0 EXPRESSION TAG SEQRES 1 A 454 GLY MET ALA ALA ASP ILE LEU VAL VAL ASP ASP GLU VAL SEQRES 2 A 454 ASP ILE ARG ASP LEU VAL ALA GLY ILE LEU SER ASP GLU SEQRES 3 A 454 GLY HIS GLU THR ARG THR ALA PHE ASP ALA ASP SER ALA SEQRES 4 A 454 LEU ALA ALA ILE ASN ASP ARG ALA PRO ARG LEU VAL PHE SEQRES 5 A 454 LEU ASP ILE TRP LEU GLN GLY SER ARG LEU ASP GLY LEU SEQRES 6 A 454 ALA LEU LEU ASP GLU ILE LYS LYS GLN HIS PRO GLU LEU SEQRES 7 A 454 PRO VAL VAL MET ILE SER GLY HIS GLY ASN ILE GLU THR SEQRES 8 A 454 ALA VAL SER ALA ILE ARG ARG GLY ALA TYR ASP PHE ILE SEQRES 9 A 454 GLU LYS PRO PHE LYS ALA ASP ARG LEU ILE LEU VAL ALA SEQRES 10 A 454 GLU ARG ALA LEU GLU THR SER LYS LEU LYS ARG GLU VAL SEQRES 11 A 454 SER ASP LEU ARG LYS ARG THR GLY ASP GLN LEU GLU LEU SEQRES 12 A 454 VAL GLY THR SER LEU ALA MET ASN GLN LEU ARG GLN THR SEQRES 13 A 454 ILE GLU ARG VAL ALA PRO THR ASN SER ARG ILE MET ILE SEQRES 14 A 454 THR GLY PRO SER GLY ALA GLY LYS GLU LEU VAL ALA ARG SEQRES 15 A 454 ALA ILE HIS ALA GLN SER SER ARG ALA ASN GLY PRO PHE SEQRES 16 A 454 VAL THR VAL ASN ALA ALA THR ILE THR PRO GLU ARG MET SEQRES 17 A 454 GLU ILE GLU LEU PHE GLY THR GLU MET ASP GLY GLY GLU SEQRES 18 A 454 ARG LYS VAL GLY ALA LEU GLU GLU ALA HIS GLY GLY ILE SEQRES 19 A 454 LEU TYR LEU ASP GLU VAL ALA ASP MET PRO ARG GLU THR SEQRES 20 A 454 GLN ASN LYS ILE LEU ARG VAL LEU VAL ASP GLN GLN PHE SEQRES 21 A 454 GLU ARG VAL GLY GLY THR LYS ARG VAL LYS VAL ASP VAL SEQRES 22 A 454 ARG ILE ILE SER SER THR ALA GLN ASN LEU GLU GLY MET SEQRES 23 A 454 ILE ALA GLU GLY THR PHE ARG GLU ASP LEU PHE HIS ARG SEQRES 24 A 454 LEU SER VAL VAL PRO VAL GLN VAL PRO ALA LEU ALA ALA SEQRES 25 A 454 ARG ARG GLU ASP ILE PRO SER LEU VAL GLU PHE PHE MET SEQRES 26 A 454 LYS GLN ILE ALA GLU GLN ALA GLY ILE LYS PRO ARG LYS SEQRES 27 A 454 ILE GLY PRO ASP ALA MET ALA VAL LEU GLN ALA HIS SER SEQRES 28 A 454 TRP PRO GLY ASN LEU ARG GLN LEU ARG ASN ASN VAL GLU SEQRES 29 A 454 ARG LEU MET ILE LEU THR ARG GLY ASP ASP PRO ASP GLU SEQRES 30 A 454 LEU VAL THR ALA ASP LEU LEU PRO ALA GLU ILE GLY ASP SEQRES 31 A 454 THR LEU PRO ARG ALA PRO THR GLU SER ASP GLN HIS ILE SEQRES 32 A 454 MET ALA LEU PRO LEU ARG GLU ALA ARG GLU ARG PHE GLU SEQRES 33 A 454 LYS GLU TYR LEU ILE ALA GLN ILE ASN ARG PHE GLY GLY SEQRES 34 A 454 ASN ILE SER ARG THR ALA GLU PHE VAL GLY MET GLU ARG SEQRES 35 A 454 SER ALA LEU HIS ARG LYS LEU LYS SER LEU GLY VAL SEQRES 1 B 454 GLY MET ALA ALA ASP ILE LEU VAL VAL ASP ASP GLU VAL SEQRES 2 B 454 ASP ILE ARG ASP LEU VAL ALA GLY ILE LEU SER ASP GLU SEQRES 3 B 454 GLY HIS GLU THR ARG THR ALA PHE ASP ALA ASP SER ALA SEQRES 4 B 454 LEU ALA ALA ILE ASN ASP ARG ALA PRO ARG LEU VAL PHE SEQRES 5 B 454 LEU ASP ILE TRP LEU GLN GLY SER ARG LEU ASP GLY LEU SEQRES 6 B 454 ALA LEU LEU ASP GLU ILE LYS LYS GLN HIS PRO GLU LEU SEQRES 7 B 454 PRO VAL VAL MET ILE SER GLY HIS GLY ASN ILE GLU THR SEQRES 8 B 454 ALA VAL SER ALA ILE ARG ARG GLY ALA TYR ASP PHE ILE SEQRES 9 B 454 GLU LYS PRO PHE LYS ALA ASP ARG LEU ILE LEU VAL ALA SEQRES 10 B 454 GLU ARG ALA LEU GLU THR SER LYS LEU LYS ARG GLU VAL SEQRES 11 B 454 SER ASP LEU ARG LYS ARG THR GLY ASP GLN LEU GLU LEU SEQRES 12 B 454 VAL GLY THR SER LEU ALA MET ASN GLN LEU ARG GLN THR SEQRES 13 B 454 ILE GLU ARG VAL ALA PRO THR ASN SER ARG ILE MET ILE SEQRES 14 B 454 THR GLY PRO SER GLY ALA GLY LYS GLU LEU VAL ALA ARG SEQRES 15 B 454 ALA ILE HIS ALA GLN SER SER ARG ALA ASN GLY PRO PHE SEQRES 16 B 454 VAL THR VAL ASN ALA ALA THR ILE THR PRO GLU ARG MET SEQRES 17 B 454 GLU ILE GLU LEU PHE GLY THR GLU MET ASP GLY GLY GLU SEQRES 18 B 454 ARG LYS VAL GLY ALA LEU GLU GLU ALA HIS GLY GLY ILE SEQRES 19 B 454 LEU TYR LEU ASP GLU VAL ALA ASP MET PRO ARG GLU THR SEQRES 20 B 454 GLN ASN LYS ILE LEU ARG VAL LEU VAL ASP GLN GLN PHE SEQRES 21 B 454 GLU ARG VAL GLY GLY THR LYS ARG VAL LYS VAL ASP VAL SEQRES 22 B 454 ARG ILE ILE SER SER THR ALA GLN ASN LEU GLU GLY MET SEQRES 23 B 454 ILE ALA GLU GLY THR PHE ARG GLU ASP LEU PHE HIS ARG SEQRES 24 B 454 LEU SER VAL VAL PRO VAL GLN VAL PRO ALA LEU ALA ALA SEQRES 25 B 454 ARG ARG GLU ASP ILE PRO SER LEU VAL GLU PHE PHE MET SEQRES 26 B 454 LYS GLN ILE ALA GLU GLN ALA GLY ILE LYS PRO ARG LYS SEQRES 27 B 454 ILE GLY PRO ASP ALA MET ALA VAL LEU GLN ALA HIS SER SEQRES 28 B 454 TRP PRO GLY ASN LEU ARG GLN LEU ARG ASN ASN VAL GLU SEQRES 29 B 454 ARG LEU MET ILE LEU THR ARG GLY ASP ASP PRO ASP GLU SEQRES 30 B 454 LEU VAL THR ALA ASP LEU LEU PRO ALA GLU ILE GLY ASP SEQRES 31 B 454 THR LEU PRO ARG ALA PRO THR GLU SER ASP GLN HIS ILE SEQRES 32 B 454 MET ALA LEU PRO LEU ARG GLU ALA ARG GLU ARG PHE GLU SEQRES 33 B 454 LYS GLU TYR LEU ILE ALA GLN ILE ASN ARG PHE GLY GLY SEQRES 34 B 454 ASN ILE SER ARG THR ALA GLU PHE VAL GLY MET GLU ARG SEQRES 35 B 454 SER ALA LEU HIS ARG LYS LEU LYS SER LEU GLY VAL HET MG A 501 1 HET MG B 501 1 HETNAM MG MAGNESIUM ION FORMUL 3 MG 2(MG 2+) FORMUL 5 HOH *122(H2 O) HELIX 1 AA1 GLU A 11 GLU A 25 1 15 HELIX 2 AA2 ASP A 34 ARG A 45 1 12 HELIX 3 AA3 ASP A 62 HIS A 74 1 13 HELIX 4 AA4 ASN A 87 ARG A 97 1 11 HELIX 5 AA5 LYS A 108 GLY A 137 1 30 HELIX 6 AA6 SER A 146 ALA A 160 1 15 HELIX 7 AA7 GLY A 175 SER A 187 1 13 HELIX 8 AA8 THR A 203 GLU A 205 5 3 HELIX 9 AA9 ARG A 206 GLY A 213 1 8 HELIX 10 AB1 GLY A 224 ALA A 229 1 6 HELIX 11 AB2 GLU A 238 MET A 242 5 5 HELIX 12 AB3 PRO A 243 GLN A 257 1 15 HELIX 13 AB4 ASN A 281 GLY A 289 1 9 HELIX 14 AB5 ARG A 292 SER A 300 1 9 HELIX 15 AB6 ALA A 308 GLU A 314 5 7 HELIX 16 AB7 ASP A 315 GLY A 332 1 18 HELIX 17 AB8 GLY A 339 HIS A 349 1 11 HELIX 18 AB9 GLY A 353 THR A 369 1 17 HELIX 19 AC1 THR A 379 LEU A 383 5 5 HELIX 20 AC2 PRO A 384 ASP A 389 1 6 HELIX 21 AC3 ASP A 399 ALA A 404 1 6 HELIX 22 AC4 PRO A 406 PHE A 426 1 21 HELIX 23 AC5 ASN A 429 GLY A 438 1 10 HELIX 24 AC6 GLU A 440 GLY A 452 1 13 HELIX 25 AC7 GLU B 11 GLY B 26 1 16 HELIX 26 AC8 ASP B 34 ARG B 45 1 12 HELIX 27 AC9 ASP B 62 HIS B 74 1 13 HELIX 28 AD1 ASN B 87 ARG B 97 1 11 HELIX 29 AD2 LYS B 108 ARG B 133 1 26 HELIX 30 AD3 SER B 146 ALA B 160 1 15 HELIX 31 AD4 GLY B 175 GLN B 186 1 12 HELIX 32 AD5 ARG B 206 GLY B 213 1 8 HELIX 33 AD6 GLY B 224 HIS B 230 1 7 HELIX 34 AD7 GLU B 238 MET B 242 5 5 HELIX 35 AD8 PRO B 243 GLN B 257 1 15 HELIX 36 AD9 ASN B 281 GLU B 288 1 8 HELIX 37 AE1 ARG B 292 SER B 300 1 9 HELIX 38 AE2 ALA B 308 GLU B 314 5 7 HELIX 39 AE3 ASP B 315 GLY B 332 1 18 HELIX 40 AE4 GLY B 339 HIS B 349 1 11 HELIX 41 AE5 GLY B 353 THR B 369 1 17 HELIX 42 AE6 THR B 379 LEU B 383 5 5 HELIX 43 AE7 HIS B 401 LEU B 405 5 5 HELIX 44 AE8 PRO B 406 PHE B 426 1 21 HELIX 45 AE9 ASN B 429 GLY B 438 1 10 HELIX 46 AF1 GLU B 440 LEU B 451 1 12 SHEET 1 AA1 5 GLU A 28 ALA A 32 0 SHEET 2 AA1 5 ASP A 4 VAL A 8 1 N VAL A 7 O ARG A 30 SHEET 3 AA1 5 LEU A 49 ASP A 53 1 O PHE A 51 N VAL A 8 SHEET 4 AA1 5 VAL A 79 SER A 83 1 O VAL A 80 N VAL A 50 SHEET 5 AA1 5 ASP A 101 GLU A 104 1 O ILE A 103 N SER A 83 SHEET 1 AA2 5 PHE A 194 ASN A 198 0 SHEET 2 AA2 5 ILE A 233 ASP A 237 1 O TYR A 235 N VAL A 195 SHEET 3 AA2 5 ARG A 273 THR A 278 1 O ILE A 275 N LEU A 234 SHEET 4 AA2 5 ILE A 166 THR A 169 1 N ILE A 168 O SER A 276 SHEET 5 AA2 5 VAL A 302 GLN A 305 1 O VAL A 304 N THR A 169 SHEET 1 AA3 2 THR A 214 GLU A 215 0 SHEET 2 AA3 2 ARG A 221 LYS A 222 -1 O LYS A 222 N THR A 214 SHEET 1 AA4 2 GLN A 258 GLU A 260 0 SHEET 2 AA4 2 ARG A 267 LYS A 269 -1 O VAL A 268 N PHE A 259 SHEET 1 AA5 5 GLU B 28 ALA B 32 0 SHEET 2 AA5 5 ASP B 4 VAL B 8 1 N VAL B 7 O ARG B 30 SHEET 3 AA5 5 LEU B 49 ASP B 53 1 O PHE B 51 N VAL B 8 SHEET 4 AA5 5 VAL B 79 SER B 83 1 O VAL B 80 N VAL B 50 SHEET 5 AA5 5 ASP B 101 GLU B 104 1 O ILE B 103 N SER B 83 SHEET 1 AA6 5 PHE B 194 ASN B 198 0 SHEET 2 AA6 5 ILE B 233 ASP B 237 1 O TYR B 235 N VAL B 195 SHEET 3 AA6 5 ARG B 273 THR B 278 1 O ILE B 275 N LEU B 234 SHEET 4 AA6 5 ILE B 166 THR B 169 1 N ILE B 168 O SER B 276 SHEET 5 AA6 5 VAL B 302 GLN B 305 1 O VAL B 304 N THR B 169 SHEET 1 AA7 2 THR B 214 GLU B 215 0 SHEET 2 AA7 2 ARG B 221 LYS B 222 -1 O LYS B 222 N THR B 214 SHEET 1 AA8 2 GLN B 258 GLU B 260 0 SHEET 2 AA8 2 ARG B 267 LYS B 269 -1 O VAL B 268 N PHE B 259 LINK OD1 ASP A 9 MG MG A 501 1555 1555 2.44 LINK OD1 ASP A 10 MG MG A 501 1555 1555 2.33 LINK OD2 ASP A 53 MG MG A 501 1555 1555 2.46 LINK OD1 ASP B 9 MG MG B 501 1555 1555 2.82 LINK OD1 ASP B 10 MG MG B 501 1555 1555 2.41 LINK OE2 GLU B 11 MG MG B 501 1555 1555 2.61 LINK OD2 ASP B 53 MG MG B 501 1555 1555 2.79 LINK MG MG A 501 O HOH A 618 1555 1555 2.42 LINK MG MG A 501 O HOH A 658 1555 1555 2.73 LINK MG MG B 501 O HOH B 606 1555 1555 2.48 LINK MG MG B 501 O HOH B 637 1555 1555 2.29 CISPEP 1 LYS A 105 PRO A 106 0 -8.43 CISPEP 2 LYS B 105 PRO B 106 0 -7.70 SITE 1 AC1 7 ASP A 9 ASP A 10 GLU A 11 ASP A 53 SITE 2 AC1 7 LYS A 105 HOH A 618 HOH A 658 SITE 1 AC2 7 ASP B 9 ASP B 10 GLU B 11 ASP B 53 SITE 2 AC2 7 LYS B 105 HOH B 606 HOH B 637 CRYST1 124.778 191.228 111.850 90.00 90.00 90.00 C 2 2 21 16 ORIGX1 1.000000 0.000000 0.000000 0.00000 ORIGX2 0.000000 1.000000 0.000000 0.00000 ORIGX3 0.000000 0.000000 1.000000 0.00000 SCALE1 0.008014 0.000000 0.000000 0.00000 SCALE2 0.000000 0.005229 0.000000 0.00000 SCALE3 0.000000 0.000000 0.008941 0.00000