HEADER OXIDOREDUCTASE 03-JUL-96 1XSM TITLE PROTEIN R2 OF RIBONUCLEOTIDE REDUCTASE FROM MOUSE COMPND MOL_ID: 1; COMPND 2 MOLECULE: RIBONUCLEOTIDE REDUCTASE R2; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: R2; COMPND 5 EC: 1.17.4.1; COMPND 6 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: MUS MUSCULUS; SOURCE 3 ORGANISM_COMMON: HOUSE MOUSE; SOURCE 4 ORGANISM_TAXID: 10090; SOURCE 5 GENE: NRDD; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_PLASMID: PET; SOURCE 9 EXPRESSION_SYSTEM_GENE: NRDD; SOURCE 10 OTHER_DETAILS: T7-RNA POLYMERASE KEYWDS OXIDOREDUCTASE, DNA REPLICATION, IRON EXPDTA X-RAY DIFFRACTION AUTHOR B.KAUPPI,B.N.NIELSEN,S.RAMASWAMY,I.KJOLLER-LARSEN,M.THELANDER, AUTHOR 2 L.THELANDER,H.EKLUND REVDAT 4 22-MAY-24 1XSM 1 REMARK REVDAT 3 09-AUG-23 1XSM 1 REMARK LINK REVDAT 2 24-FEB-09 1XSM 1 VERSN REVDAT 1 11-JAN-97 1XSM 0 JRNL AUTH B.KAUPPI,B.B.NIELSEN,S.RAMASWAMY,I.K.LARSEN,M.THELANDER, JRNL AUTH 2 L.THELANDER,H.EKLUND JRNL TITL THE THREE-DIMENSIONAL STRUCTURE OF MAMMALIAN RIBONUCLEOTIDE JRNL TITL 2 REDUCTASE PROTEIN R2 REVEALS A MORE-ACCESSIBLE IRON-RADICAL JRNL TITL 3 SITE THAN ESCHERICHIA COLI R2. JRNL REF J.MOL.BIOL. V. 262 706 1996 JRNL REFN ISSN 0022-2836 JRNL PMID 8876648 JRNL DOI 10.1006/JMBI.1996.0546 REMARK 1 REMARK 1 REFERENCE 1 REMARK 1 AUTH P.NORDLUND,H.EKLUND REMARK 1 TITL STRUCTURE AND FUNCTION OF THE ESCHERICHIA COLI REMARK 1 TITL 2 RIBONUCLEOTIDE REDUCTASE PROTEIN R2 REMARK 1 REF J.MOL.BIOL. V. 232 123 1993 REMARK 1 REFN ISSN 0022-2836 REMARK 2 REMARK 2 RESOLUTION. 2.30 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) : 2.30 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 25.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 DATA CUTOFF HIGH (ABS(F)) : NULL REMARK 3 DATA CUTOFF LOW (ABS(F)) : NULL REMARK 3 COMPLETENESS (WORKING+TEST) (%) : 95.9 REMARK 3 NUMBER OF REFLECTIONS : NULL REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 CROSS-VALIDATION METHOD : NULL REMARK 3 FREE R VALUE TEST SET SELECTION : NULL REMARK 3 R VALUE (WORKING SET) : 0.191 REMARK 3 FREE R VALUE : 0.250 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 10.000 REMARK 3 FREE R VALUE TEST SET COUNT : 1370 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 : NULL REMARK 3 BIN RESOLUTION RANGE HIGH (A) : NULL REMARK 3 BIN RESOLUTION RANGE LOW (A) : NULL REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : NULL REMARK 3 REFLECTIONS IN BIN (WORKING SET) : NULL REMARK 3 BIN R VALUE (WORKING SET) : NULL REMARK 3 BIN FREE R VALUE : NULL REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : NULL REMARK 3 BIN FREE R VALUE TEST SET COUNT : NULL 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 : 2376 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 1 REMARK 3 SOLVENT ATOMS : 90 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 38.00 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 COORDINATE ERROR. REMARK 3 ESD FROM LUZZATI PLOT (A) : NULL REMARK 3 ESD FROM SIGMAA (A) : NULL REMARK 3 LOW RESOLUTION CUTOFF (A) : NULL 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) : 0.018 REMARK 3 BOND ANGLES (DEGREES) : 2.300 REMARK 3 DIHEDRAL ANGLES (DEGREES) : NULL REMARK 3 IMPROPER ANGLES (DEGREES) : NULL 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 : NULL REMARK 3 TOPOLOGY FILE 1 : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 1XSM 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_1000177307. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 15-FEB-92 REMARK 200 TEMPERATURE (KELVIN) : 277 REMARK 200 PH : 4.7 REMARK 200 NUMBER OF CRYSTALS USED : 9 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SRS REMARK 200 BEAMLINE : PX9.6 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.87 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : IMAGE PLATE REMARK 200 DETECTOR MANUFACTURER : RIGAKU RAXIS IIC REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 17131 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.300 REMARK 200 RESOLUTION RANGE LOW (A) : 25.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 95.9 REMARK 200 DATA REDUNDANCY : 8.800 REMARK 200 R MERGE (I) : 0.10400 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 17.6000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.29 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.38 REMARK 200 COMPLETENESS FOR SHELL (%) : 70.9 REMARK 200 DATA REDUNDANCY IN SHELL : 4.00 REMARK 200 R MERGE FOR SHELL (I) : 0.28300 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : NULL 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: PDB ENTRY 1RIB REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 40.00 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.14 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 1.0-1.2 M NACL, 0.1 M SODIUM ACETATE, REMARK 280 PH 4.7, 0-4% PEG4000. 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 46.45000 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 46.45000 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 38.53900 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 54.46600 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 6 -1.000000 0.000000 0.000000 38.53900 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 54.46600 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 46.45000 REMARK 290 SMTRY1 7 -1.000000 0.000000 0.000000 38.53900 REMARK 290 SMTRY2 7 0.000000 1.000000 0.000000 54.46600 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 46.45000 REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 38.53900 REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 54.46600 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 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 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 2 0.000000 -1.000000 0.000000 108.93200 REMARK 350 BIOMT3 2 0.000000 0.000000 -1.000000 92.90000 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 LEU A 2 REMARK 465 SER A 3 REMARK 465 VAL A 4 REMARK 465 ARG A 5 REMARK 465 THR A 6 REMARK 465 PRO A 7 REMARK 465 LEU A 8 REMARK 465 ALA A 9 REMARK 465 THR A 10 REMARK 465 ILE A 11 REMARK 465 ALA A 12 REMARK 465 ASP A 13 REMARK 465 GLN A 14 REMARK 465 GLN A 15 REMARK 465 GLN A 16 REMARK 465 LEU A 17 REMARK 465 GLN A 18 REMARK 465 LEU A 19 REMARK 465 SER A 20 REMARK 465 PRO A 21 REMARK 465 LEU A 22 REMARK 465 LYS A 23 REMARK 465 ARG A 24 REMARK 465 LEU A 25 REMARK 465 THR A 26 REMARK 465 LEU A 27 REMARK 465 ALA A 28 REMARK 465 ASP A 29 REMARK 465 LYS A 30 REMARK 465 GLU A 31 REMARK 465 ASN A 32 REMARK 465 THR A 33 REMARK 465 PRO A 34 REMARK 465 PRO A 35 REMARK 465 THR A 36 REMARK 465 LEU A 37 REMARK 465 SER A 38 REMARK 465 SER A 39 REMARK 465 THR A 40 REMARK 465 ARG A 41 REMARK 465 VAL A 42 REMARK 465 LEU A 43 REMARK 465 ALA A 44 REMARK 465 SER A 45 REMARK 465 LYS A 46 REMARK 465 ALA A 47 REMARK 465 ALA A 48 REMARK 465 ARG A 49 REMARK 465 ARG A 50 REMARK 465 ILE A 51 REMARK 465 PHE A 52 REMARK 465 GLN A 53 REMARK 465 ASP A 54 REMARK 465 SER A 55 REMARK 465 ALA A 56 REMARK 465 GLU A 57 REMARK 465 LEU A 58 REMARK 465 GLU A 59 REMARK 465 SER A 60 REMARK 465 LYS A 61 REMARK 465 ALA A 62 REMARK 465 PRO A 63 REMARK 465 THR A 64 REMARK 465 ASN A 353 REMARK 465 ILE A 354 REMARK 465 SER A 355 REMARK 465 LEU A 356 REMARK 465 GLU A 357 REMARK 465 GLY A 358 REMARK 465 LYS A 359 REMARK 465 THR A 360 REMARK 465 ASN A 361 REMARK 465 PHE A 362 REMARK 465 PHE A 363 REMARK 465 GLU A 364 REMARK 465 LYS A 365 REMARK 465 ARG A 366 REMARK 465 VAL A 367 REMARK 465 GLY A 368 REMARK 465 GLU A 369 REMARK 465 TYR A 370 REMARK 465 GLN A 371 REMARK 465 ARG A 372 REMARK 465 MET A 373 REMARK 465 GLY A 374 REMARK 465 VAL A 375 REMARK 465 MET A 376 REMARK 465 SER A 377 REMARK 465 ASN A 378 REMARK 465 SER A 379 REMARK 465 THR A 380 REMARK 465 GLU A 381 REMARK 465 ASN A 382 REMARK 465 SER A 383 REMARK 465 PHE A 384 REMARK 465 THR A 385 REMARK 465 LEU A 386 REMARK 465 ASP A 387 REMARK 465 ALA A 388 REMARK 465 ASP A 389 REMARK 465 PHE A 390 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 GLU A 352 CG CD OE1 OE2 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 850 O HOH A 850 3756 1.73 REMARK 500 NZ LYS A 121 OE2 GLU A 219 8466 1.98 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 A 69 CD GLU A 69 OE1 0.067 REMARK 500 GLU A 118 CD GLU A 118 OE2 0.069 REMARK 500 GLU A 148 CD GLU A 148 OE2 0.078 REMARK 500 GLU A 153 CD GLU A 153 OE2 0.074 REMARK 500 GLU A 190 CD GLU A 190 OE1 0.089 REMARK 500 GLU A 224 CD GLU A 224 OE2 0.070 REMARK 500 GLU A 261 CD GLU A 261 OE1 0.067 REMARK 500 GLU A 267 CD GLU A 267 OE2 0.066 REMARK 500 GLU A 287 CD GLU A 287 OE2 0.081 REMARK 500 GLU A 303 CD GLU A 303 OE1 0.076 REMARK 500 GLU A 307 CD GLU A 307 OE2 0.072 REMARK 500 GLU A 345 CD GLU A 345 OE2 0.072 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 75 NE - CZ - NH2 ANGL. DEV. = 3.4 DEGREES REMARK 500 ASN A 77 CA - C - N ANGL. DEV. = 16.8 DEGREES REMARK 500 ASN A 77 O - C - N ANGL. DEV. = -13.4 DEGREES REMARK 500 ARG A 79 NE - CZ - NH2 ANGL. DEV. = 3.8 DEGREES REMARK 500 ARG A 80 NE - CZ - NH2 ANGL. DEV. = 3.5 DEGREES REMARK 500 PHE A 81 O - C - N ANGL. DEV. = 11.3 DEGREES REMARK 500 ASP A 113 CB - CG - OD2 ANGL. DEV. = -7.1 DEGREES REMARK 500 ASP A 123 CB - CG - OD2 ANGL. DEV. = -5.7 DEGREES REMARK 500 ASP A 139 CB - CG - OD1 ANGL. DEV. = 6.0 DEGREES REMARK 500 ASP A 139 CB - CG - OD2 ANGL. DEV. = -6.8 DEGREES REMARK 500 ARG A 149 NE - CZ - NH2 ANGL. DEV. = 3.5 DEGREES REMARK 500 ASP A 182 CB - CG - OD1 ANGL. DEV. = 7.4 DEGREES REMARK 500 ASP A 182 CB - CG - OD2 ANGL. DEV. = -7.5 DEGREES REMARK 500 PRO A 188 C - N - CD ANGL. DEV. = -24.3 DEGREES REMARK 500 ARG A 191 NE - CZ - NH1 ANGL. DEV. = 3.4 DEGREES REMARK 500 ASP A 209 CB - CG - OD2 ANGL. DEV. = -5.7 DEGREES REMARK 500 ARG A 225 CD - NE - CZ ANGL. DEV. = 10.4 DEGREES REMARK 500 ARG A 225 NE - CZ - NH1 ANGL. DEV. = 8.0 DEGREES REMARK 500 ARG A 225 NE - CZ - NH2 ANGL. DEV. = -8.0 DEGREES REMARK 500 ASP A 266 CB - CG - OD1 ANGL. DEV. = 6.1 DEGREES REMARK 500 ASP A 266 CB - CG - OD2 ANGL. DEV. = -7.6 DEGREES REMARK 500 ASP A 272 CB - CG - OD1 ANGL. DEV. = 6.2 DEGREES REMARK 500 ASP A 272 CB - CG - OD2 ANGL. DEV. = -6.6 DEGREES REMARK 500 TYR A 324 CB - CG - CD1 ANGL. DEV. = -4.6 DEGREES REMARK 500 ASP A 330 CB - CG - OD1 ANGL. DEV. = 6.8 DEGREES REMARK 500 ASP A 330 CB - CG - OD2 ANGL. DEV. = -6.3 DEGREES REMARK 500 ARG A 343 NE - CZ - NH1 ANGL. DEV. = 5.7 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 PRO A 66 -118.38 -78.78 REMARK 500 GLU A 76 64.09 -54.31 REMARK 500 ASN A 77 19.44 -152.75 REMARK 500 ARG A 80 -153.79 -120.71 REMARK 500 PHE A 81 46.79 98.39 REMARK 500 PRO A 85 99.25 -58.87 REMARK 500 ASP A 113 -30.05 -23.47 REMARK 500 ALA A 119 34.55 -66.48 REMARK 500 ARG A 149 -64.70 -134.16 REMARK 500 PRO A 188 -23.06 -34.98 REMARK 500 ARG A 191 -61.89 -26.91 REMARK 500 ASN A 196 41.07 -96.28 REMARK 500 CYS A 203 2.31 -60.73 REMARK 500 LYS A 218 31.36 -96.60 REMARK 500 MET A 253 76.92 33.57 REMARK 500 LEU A 313 -35.71 -38.50 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 FE A 401 FE REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU A 170 OE2 REMARK 620 2 GLU A 170 OE1 54.9 REMARK 620 3 GLU A 233 OE2 127.1 166.7 REMARK 620 4 GLU A 267 OE1 152.0 123.4 62.1 REMARK 620 5 GLU A 267 OE2 97.2 87.9 104.2 55.8 REMARK 620 N 1 2 3 4 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE FE A 401 DBREF 1XSM A 1 390 UNP P11157 RIR2_MOUSE 1 390 SEQRES 1 A 390 MET LEU SER VAL ARG THR PRO LEU ALA THR ILE ALA ASP SEQRES 2 A 390 GLN GLN GLN LEU GLN LEU SER PRO LEU LYS ARG LEU THR SEQRES 3 A 390 LEU ALA ASP LYS GLU ASN THR PRO PRO THR LEU SER SER SEQRES 4 A 390 THR ARG VAL LEU ALA SER LYS ALA ALA ARG ARG ILE PHE SEQRES 5 A 390 GLN ASP SER ALA GLU LEU GLU SER LYS ALA PRO THR ASN SEQRES 6 A 390 PRO SER VAL GLU ASP GLU PRO LEU LEU ARG GLU ASN PRO SEQRES 7 A 390 ARG ARG PHE VAL VAL PHE PRO ILE GLU TYR HIS ASP ILE SEQRES 8 A 390 TRP GLN MET TYR LYS LYS ALA GLU ALA SER PHE TRP THR SEQRES 9 A 390 ALA GLU GLU VAL ASP LEU SER LYS ASP ILE GLN HIS TRP SEQRES 10 A 390 GLU ALA LEU LYS PRO ASP GLU ARG HIS PHE ILE SER HIS SEQRES 11 A 390 VAL LEU ALA PHE PHE ALA ALA SER ASP GLY ILE VAL ASN SEQRES 12 A 390 GLU ASN LEU VAL GLU ARG PHE SER GLN GLU VAL GLN VAL SEQRES 13 A 390 THR GLU ALA ARG CYS PHE TYR GLY PHE GLN ILE ALA MET SEQRES 14 A 390 GLU ASN ILE HIS SER GLU MET TYR SER LEU LEU ILE ASP SEQRES 15 A 390 THR TYR ILE LYS ASP PRO LYS GLU ARG GLU TYR LEU PHE SEQRES 16 A 390 ASN ALA ILE GLU THR MET PRO CYS VAL LYS LYS LYS ALA SEQRES 17 A 390 ASP TRP ALA LEU ARG TRP ILE GLY ASP LYS GLU ALA THR SEQRES 18 A 390 TYR GLY GLU ARG VAL VAL ALA PHE ALA ALA VAL GLU GLY SEQRES 19 A 390 ILE PHE PHE SER GLY SER PHE ALA SER ILE PHE TRP LEU SEQRES 20 A 390 LYS LYS ARG GLY LEU MET PRO GLY LEU THR PHE SER ASN SEQRES 21 A 390 GLU LEU ILE SER ARG ASP GLU GLY LEU HIS CYS ASP PHE SEQRES 22 A 390 ALA CYS LEU MET PHE LYS HIS LEU VAL HIS LYS PRO ALA SEQRES 23 A 390 GLU GLN ARG VAL ARG GLU ILE ILE THR ASN ALA VAL ARG SEQRES 24 A 390 ILE GLU GLN GLU PHE LEU THR GLU ALA LEU PRO VAL LYS SEQRES 25 A 390 LEU ILE GLY MET ASN CYS THR LEU MET LYS GLN TYR ILE SEQRES 26 A 390 GLU PHE VAL ALA ASP ARG LEU MET LEU GLU LEU GLY PHE SEQRES 27 A 390 ASN LYS ILE PHE ARG VAL GLU ASN PRO PHE ASP PHE MET SEQRES 28 A 390 GLU ASN ILE SER LEU GLU GLY LYS THR ASN PHE PHE GLU SEQRES 29 A 390 LYS ARG VAL GLY GLU TYR GLN ARG MET GLY VAL MET SER SEQRES 30 A 390 ASN SER THR GLU ASN SER PHE THR LEU ASP ALA ASP PHE HET FE A 401 1 HETNAM FE FE (III) ION FORMUL 2 FE FE 3+ FORMUL 3 HOH *90(H2 O) HELIX 1 1 VAL A 68 ASP A 70 5 3 HELIX 2 2 HIS A 89 SER A 101 1 13 HELIX 3 3 ALA A 105 GLU A 107 5 3 HELIX 4 4 LYS A 112 GLU A 118 5 7 HELIX 5 5 PRO A 122 GLU A 153 1 32 HELIX 6 6 THR A 157 TYR A 184 1 28 HELIX 7 7 PRO A 188 PHE A 195 1 8 HELIX 8 8 ALA A 197 THR A 200 1 4 HELIX 9 9 PRO A 202 GLY A 216 5 15 HELIX 10 10 TYR A 222 ILE A 235 1 14 HELIX 11 11 SER A 238 LYS A 249 1 12 HELIX 12 12 PRO A 254 HIS A 280 1 27 HELIX 13 13 GLU A 287 THR A 306 1 20 HELIX 14 14 VAL A 311 ILE A 314 5 4 HELIX 15 15 CYS A 318 GLU A 335 1 18 LINK OE2 GLU A 170 FE FE A 401 1555 1555 1.80 LINK OE1 GLU A 170 FE FE A 401 1555 1555 2.63 LINK OE2 GLU A 233 FE FE A 401 1555 1555 2.31 LINK OE1 GLU A 267 FE FE A 401 1555 1555 2.27 LINK OE2 GLU A 267 FE FE A 401 1555 1555 2.42 SITE 1 AC1 4 GLU A 170 GLU A 233 GLU A 267 HIS A 270 CRYST1 77.078 108.932 92.900 90.00 90.00 90.00 C 2 2 21 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 0.012974 0.000000 0.000000 0.00000 SCALE2 0.000000 0.009180 0.000000 0.00000 SCALE3 0.000000 0.000000 0.010764 0.00000