HEADER OXIDOREDUCTASE 02-FEB-12 4DJN TITLE CRYSTAL STRUCTURE OF A RIBONUCLEOTIDE REDUCTASE M2 B (RNRR2) FROM HOMO TITLE 2 SAPIENS AT 2.20 A RESOLUTION COMPND MOL_ID: 1; COMPND 2 MOLECULE: RIBONUCLEOSIDE-DIPHOSPHATE REDUCTASE SUBUNIT M2 B; COMPND 3 CHAIN: A, B; COMPND 4 SYNONYM: TP53-INDUCIBLE RIBONUCLEOTIDE REDUCTASE M2 B, P53-INDUCIBLE COMPND 5 RIBONUCLEOTIDE REDUCTASE SMALL SUBUNIT 2-LIKE PROTEIN, P53R2; COMPND 6 EC: 1.17.4.1; COMPND 7 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 3 ORGANISM_COMMON: HUMAN; SOURCE 4 ORGANISM_TAXID: 9606; SOURCE 5 GENE: RRM2B, P53R2; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: PB1; SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: SPEEDET KEYWDS DNA REPLICATION, P53 INDUCIBLE, METAL-BINDING, NUCLEUS, STRUCTURAL KEYWDS 2 GENOMICS, JOINT CENTER FOR STRUCTURAL GENOMICS, JCSG, PROTEIN KEYWDS 3 STRUCTURE INITIATIVE, PSI-BIOLOGY, OXIDOREDUCTASE, PARTNERSHIP FOR KEYWDS 4 T-CELL BIOLOGY, TCELL EXPDTA X-RAY DIFFRACTION AUTHOR JOINT CENTER FOR STRUCTURAL GENOMICS (JCSG),PARTNERSHIP FOR T-CELL AUTHOR 2 BIOLOGY (TCELL) REVDAT 5 30-OCT-24 4DJN 1 REMARK REVDAT 4 01-FEB-23 4DJN 1 REMARK SEQADV LINK REVDAT 3 15-NOV-17 4DJN 1 REMARK REVDAT 2 21-OCT-15 4DJN 1 AUTHOR REVDAT 1 09-MAY-12 4DJN 0 JRNL AUTH JOINT CENTER FOR STRUCTURAL GENOMICS (JCSG), JRNL AUTH 2 PARTNERSHIP FOR T-CELL BIOLOGY (TCELL) JRNL TITL CRYSTAL STRUCTURE OF A RIBONUCLEOTIDE REDUCTASE M2 B (RNRR2) JRNL TITL 2 FROM HOMO SAPIENS AT 2.20 A RESOLUTION JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 2.20 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.6.0117 REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN REMARK 3 REMARK 3 REFINEMENT TARGET : MAXIMUM LIKELIHOOD WITH PHASES REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.20 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 29.83 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 97.1 REMARK 3 NUMBER OF REFLECTIONS : 45754 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) : 0.195 REMARK 3 R VALUE (WORKING SET) : 0.193 REMARK 3 FREE R VALUE : 0.219 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 2320 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) : 2928 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 96.89 REMARK 3 BIN R VALUE (WORKING SET) : 0.2820 REMARK 3 BIN FREE R VALUE SET COUNT : 157 REMARK 3 BIN FREE R VALUE : 0.3300 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 4674 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 13 REMARK 3 SOLVENT ATOMS : 121 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 56.18 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 1.07000 REMARK 3 B22 (A**2) : 0.88000 REMARK 3 B33 (A**2) : -1.95000 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): 0.196 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.165 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.122 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 10.232 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.961 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.949 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 4848 ; 0.009 ; 0.020 REMARK 3 BOND LENGTHS OTHERS (A): 3348 ; 0.004 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 6561 ; 1.173 ; 1.948 REMARK 3 BOND ANGLES OTHERS (DEGREES): 8113 ; 1.108 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 584 ; 4.950 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 241 ;37.007 ;23.983 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 834 ;14.822 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 27 ;15.375 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 702 ; 0.066 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 5378 ; 0.006 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 1089 ; 0.004 ; 0.020 REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 1190 ; 0.216 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): 2835 ; 0.210 ; 0.200 REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 2420 ; 0.187 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): 2031 ; 0.104 ; 0.200 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): 32 ; 0.200 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): 44 ; 0.188 ; 0.200 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): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B OTHER ATOMS (A**2): NULL ; NULL ; NULL 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 : 2 REMARK 3 REMARK 3 TLS GROUP : 1 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 28 A 314 REMARK 3 ORIGIN FOR THE GROUP (A): 3.0060 16.8250 95.2030 REMARK 3 T TENSOR REMARK 3 T11: 0.0787 T22: 0.1252 REMARK 3 T33: 0.0543 T12: 0.0436 REMARK 3 T13: 0.0126 T23: 0.0618 REMARK 3 L TENSOR REMARK 3 L11: 2.0474 L22: 1.2664 REMARK 3 L33: 2.8617 L12: -0.1598 REMARK 3 L13: -1.6240 L23: -0.1677 REMARK 3 S TENSOR REMARK 3 S11: -0.1193 S12: -0.4099 S13: -0.0949 REMARK 3 S21: 0.1888 S22: -0.0844 S23: -0.1685 REMARK 3 S31: 0.0953 S32: 0.4265 S33: 0.2037 REMARK 3 REMARK 3 TLS GROUP : 2 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : B 27 B 313 REMARK 3 ORIGIN FOR THE GROUP (A): 12.1830 37.2480 69.9760 REMARK 3 T TENSOR REMARK 3 T11: 0.0618 T22: 0.0635 REMARK 3 T33: 0.0278 T12: -0.0272 REMARK 3 T13: 0.0081 T23: -0.0224 REMARK 3 L TENSOR REMARK 3 L11: 1.6775 L22: 0.8845 REMARK 3 L33: 2.7200 L12: -0.1237 REMARK 3 L13: -1.5144 L23: 0.3234 REMARK 3 S TENSOR REMARK 3 S11: 0.1738 S12: -0.0334 S13: 0.1497 REMARK 3 S21: -0.0056 S22: -0.0387 S23: -0.0198 REMARK 3 S31: -0.3176 S32: 0.2104 S33: -0.1352 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : BABINET MODEL WITH MASK 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: 1. HYDROGENS HAVE BEEN ADDED IN THE REMARK 3 RIDING POSITIONS. 2. ATOM RECORD CONTAINS SUM OF TLS AND REMARK 3 RESIDUAL B FACTORS. 3. ANISOU RECORD CONTAINS SUM OF TLS AND REMARK 3 RESIDUAL U FACTORS. 4. WATERS WERE EXCLUDED FROM AUTOMATIC TLS REMARK 3 ASSIGNMENT. 5. A MET-INHIBITION PROTOCOL WAS USED FOR REMARK 3 SELENOMETHIONINE INCORPORATION DURING PROTEIN EXPRESSION. THE REMARK 3 OCCUPANCY OF THE SE ATOMS IN THE MSE RESIDUES WAS REDUCED TO REMARK 3 0.75 FOR THE REDUCED SCATTERING POWER DUE TO PARTIAL S-MET REMARK 3 INCORPORATION. 6. SULFATE ION (SO4) AND 1,2-ETHANEDIOL (EDO) REMARK 3 MOLECULES FROM THE CRYSTALLIZATION/CRYOPROTECTION SOLUTION ARE REMARK 3 MODELED. 7. NCS RESTRAINTS WERE APPLIED USING REFMAC'S LOCAL NCS REMARK 3 OPTION (NCSR LOCAL). NCS GROUP 1 CHAIN A (28-312) TO CHAIN B (28- REMARK 3 312) COUNT: 9996, RMS: 0.16, WEIGHT: 0.05. REMARK 4 REMARK 4 4DJN COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 07-FEB-12. REMARK 100 THE DEPOSITION ID IS D_1000070412. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 08-DEC-11 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 6.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SSRL REMARK 200 BEAMLINE : BL12-2 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.97895 REMARK 200 MONOCHROMATOR : DOUBLE CRYSTAL SI(111) REMARK 200 OPTICS : RHODIUM-COATED VERTICAL AND REMARK 200 HORIZONTAL FOCUSING MIRRORS; REMARK 200 LIQUID-NITROGEN COOLED DOUBLE REMARK 200 CRYSTAL SI(111) MONOCHROMATOR REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS 6M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : MOSFLM REMARK 200 DATA SCALING SOFTWARE : SCALA 3.3.20 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 45830 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.200 REMARK 200 RESOLUTION RANGE LOW (A) : 29.834 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 97.5 REMARK 200 DATA REDUNDANCY : 6.300 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : 0.10500 REMARK 200 FOR THE DATA SET : 9.8000 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) : 2.26 REMARK 200 COMPLETENESS FOR SHELL (%) : 95.8 REMARK 200 DATA REDUNDANCY IN SHELL : 3.90 REMARK 200 R MERGE FOR SHELL (I) : 0.73000 REMARK 200 R SYM FOR SHELL (I) : 0.73000 REMARK 200 FOR SHELL : 1.700 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: SAD REMARK 200 SOFTWARE USED: SHELX, SHARP, SHELXD REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 60.57 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.12 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 2.0M AMMONIUM SULFATE, 0.1M SODIUM REMARK 280 CACODYLATE PH 6.5, NANODROP, VAPOR DIFFUSION, SITTING DROP, REMARK 280 TEMPERATURE 277K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 21 21 21 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X+1/2,-Y,Z+1/2 REMARK 290 3555 -X,Y+1/2,-Z+1/2 REMARK 290 4555 X+1/2,-Y+1/2,-Z REMARK 290 REMARK 290 WHERE NNN -> OPERATOR NUMBER REMARK 290 MMM -> TRANSLATION VECTOR REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY TRANSFORMATIONS REMARK 290 THE FOLLOWING TRANSFORMATIONS OPERATE ON THE ATOM/HETATM REMARK 290 RECORDS IN THIS ENTRY TO PRODUCE CRYSTALLOGRAPHICALLY REMARK 290 RELATED MOLECULES. REMARK 290 SMTRY1 1 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 1 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 1 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 2 -1.000000 0.000000 0.000000 34.52650 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 66.83400 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 49.38100 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 66.83400 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 34.52650 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 49.38100 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1 REMARK 300 SEE REMARK 350 FOR THE AUTHOR PROVIDED AND/OR PROGRAM REMARK 300 GENERATED ASSEMBLY INFORMATION FOR THE STRUCTURE IN REMARK 300 THIS ENTRY. THE REMARK MAY ALSO PROVIDE INFORMATION ON REMARK 300 BURIED SURFACE AREA. REMARK 300 REMARK: CRYSTAL PACKING ANALYSIS SUGGESTS THE ASSIGNMENT OF A DIMER REMARK 300 AS THE SIGNIFICANT OLIGOMERIZATION STATE. 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: 3700 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 23270 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -27.0 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 13 REMARK 465 GLN A 14 REMARK 465 ASP A 15 REMARK 465 GLU A 16 REMARK 465 ARG A 17 REMARK 465 SER A 18 REMARK 465 SER A 19 REMARK 465 SER A 20 REMARK 465 ASP A 21 REMARK 465 THR A 22 REMARK 465 ASN A 23 REMARK 465 GLU A 24 REMARK 465 SER A 25 REMARK 465 GLU A 26 REMARK 465 ILE A 27 REMARK 465 ILE A 315 REMARK 465 SER A 316 REMARK 465 LEU A 317 REMARK 465 GLU A 318 REMARK 465 GLY A 319 REMARK 465 LYS A 320 REMARK 465 THR A 321 REMARK 465 ASN A 322 REMARK 465 GLY B 0 REMARK 465 ASP B 13 REMARK 465 GLN B 14 REMARK 465 ASP B 15 REMARK 465 GLU B 16 REMARK 465 ARG B 17 REMARK 465 SER B 18 REMARK 465 SER B 19 REMARK 465 SER B 20 REMARK 465 ASP B 21 REMARK 465 THR B 22 REMARK 465 ASN B 23 REMARK 465 GLU B 24 REMARK 465 SER B 25 REMARK 465 GLU B 26 REMARK 465 ASN B 314 REMARK 465 ILE B 315 REMARK 465 SER B 316 REMARK 465 LEU B 317 REMARK 465 GLU B 318 REMARK 465 GLY B 319 REMARK 465 LYS B 320 REMARK 465 THR B 321 REMARK 465 ASN B 322 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 37 CD CE NZ REMARK 470 LYS A 80 CE NZ REMARK 470 LYS A 82 CD CE NZ REMARK 470 SER A 99 OG REMARK 470 GLU A 109 CG CD OE1 OE2 REMARK 470 LYS A 150 CG CD CE NZ REMARK 470 LYS A 151 CG CD CE NZ REMARK 470 GLU A 153 CG CD OE1 OE2 REMARK 470 ARG A 179 CG CD NE CZ NH1 NH2 REMARK 470 LYS A 180 CG CD CE NZ REMARK 470 ASP B 100 CG OD1 OD2 REMARK 470 ILE B 102 CG1 CG2 CD1 REMARK 470 VAL B 103 CG1 CG2 REMARK 470 GLU B 105 CG CD OE1 OE2 REMARK 470 ARG B 147 CZ NH1 NH2 REMARK 470 ARG B 179 CG CD NE CZ NH1 NH2 REMARK 470 LYS B 180 CG CD CE NZ 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 110 -75.32 -104.17 REMARK 500 ASP A 178 101.69 -59.34 REMARK 500 GLU A 268 -58.68 -122.70 REMARK 500 ILE B 102 175.34 -52.62 REMARK 500 ASN B 104 45.26 -73.99 REMARK 500 PHE B 198 -1.04 71.74 REMARK 500 MSE B 214 72.13 59.71 REMARK 500 GLU B 268 -57.65 -124.81 REMARK 500 REMARK 500 REMARK: NULL REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 B 400 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO B 401 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO B 402 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: JCSG-423470 RELATED DB: TARGETTRACK REMARK 999 REMARK 999 SEQUENCE REMARK 999 THIS CONSTRUCT WAS EXPRESSED WITH A PURIFICATION TAG REMARK 999 MGSDKIHHHHHHENLYFQG. THE TAG WAS REMOVED WITH TEV PROTEASE LEAVING REMARK 999 ONLY A GLYCINE (0) FOLLOWED BY RESIDUES 13-322 OF THE TARGET REMARK 999 SEQUENCE. DBREF 4DJN A 13 322 UNP Q7LG56 RIR2B_HUMAN 13 322 DBREF 4DJN B 13 322 UNP Q7LG56 RIR2B_HUMAN 13 322 SEQADV 4DJN GLY A 0 UNP Q7LG56 EXPRESSION TAG SEQADV 4DJN GLY B 0 UNP Q7LG56 EXPRESSION TAG SEQRES 1 A 311 GLY ASP GLN ASP GLU ARG SER SER SER ASP THR ASN GLU SEQRES 2 A 311 SER GLU ILE LYS SER ASN GLU GLU PRO LEU LEU ARG LYS SEQRES 3 A 311 SER SER ARG ARG PHE VAL ILE PHE PRO ILE GLN TYR PRO SEQRES 4 A 311 ASP ILE TRP LYS MSE TYR LYS GLN ALA GLN ALA SER PHE SEQRES 5 A 311 TRP THR ALA GLU GLU VAL ASP LEU SER LYS ASP LEU PRO SEQRES 6 A 311 HIS TRP ASN LYS LEU LYS ALA ASP GLU LYS TYR PHE ILE SEQRES 7 A 311 SER HIS ILE LEU ALA PHE PHE ALA ALA SER ASP GLY ILE SEQRES 8 A 311 VAL ASN GLU ASN LEU VAL GLU ARG PHE SER GLN GLU VAL SEQRES 9 A 311 GLN VAL PRO GLU ALA ARG CYS PHE TYR GLY PHE GLN ILE SEQRES 10 A 311 LEU ILE GLU ASN VAL HIS SER GLU MSE TYR SER LEU LEU SEQRES 11 A 311 ILE ASP THR TYR ILE ARG ASP PRO LYS LYS ARG GLU PHE SEQRES 12 A 311 LEU PHE ASN ALA ILE GLU THR MSE PRO TYR VAL LYS LYS SEQRES 13 A 311 LYS ALA ASP TRP ALA LEU ARG TRP ILE ALA ASP ARG LYS SEQRES 14 A 311 SER THR PHE GLY GLU ARG VAL VAL ALA PHE ALA ALA VAL SEQRES 15 A 311 GLU GLY VAL PHE PHE SER GLY SER PHE ALA ALA ILE PHE SEQRES 16 A 311 TRP LEU LYS LYS ARG GLY LEU MSE PRO GLY LEU THR PHE SEQRES 17 A 311 SER ASN GLU LEU ILE SER ARG ASP GLU GLY LEU HIS CYS SEQRES 18 A 311 ASP PHE ALA CYS LEU MSE PHE GLN TYR LEU VAL ASN LYS SEQRES 19 A 311 PRO SER GLU GLU ARG VAL ARG GLU ILE ILE VAL ASP ALA SEQRES 20 A 311 VAL LYS ILE GLU GLN GLU PHE LEU THR GLU ALA LEU PRO SEQRES 21 A 311 VAL GLY LEU ILE GLY MSE ASN CYS ILE LEU MSE LYS GLN SEQRES 22 A 311 TYR ILE GLU PHE VAL ALA ASP ARG LEU LEU VAL GLU LEU SEQRES 23 A 311 GLY PHE SER LYS VAL PHE GLN ALA GLU ASN PRO PHE ASP SEQRES 24 A 311 PHE MSE GLU ASN ILE SER LEU GLU GLY LYS THR ASN SEQRES 1 B 311 GLY ASP GLN ASP GLU ARG SER SER SER ASP THR ASN GLU SEQRES 2 B 311 SER GLU ILE LYS SER ASN GLU GLU PRO LEU LEU ARG LYS SEQRES 3 B 311 SER SER ARG ARG PHE VAL ILE PHE PRO ILE GLN TYR PRO SEQRES 4 B 311 ASP ILE TRP LYS MSE TYR LYS GLN ALA GLN ALA SER PHE SEQRES 5 B 311 TRP THR ALA GLU GLU VAL ASP LEU SER LYS ASP LEU PRO SEQRES 6 B 311 HIS TRP ASN LYS LEU LYS ALA ASP GLU LYS TYR PHE ILE SEQRES 7 B 311 SER HIS ILE LEU ALA PHE PHE ALA ALA SER ASP GLY ILE SEQRES 8 B 311 VAL ASN GLU ASN LEU VAL GLU ARG PHE SER GLN GLU VAL SEQRES 9 B 311 GLN VAL PRO GLU ALA ARG CYS PHE TYR GLY PHE GLN ILE SEQRES 10 B 311 LEU ILE GLU ASN VAL HIS SER GLU MSE TYR SER LEU LEU SEQRES 11 B 311 ILE ASP THR TYR ILE ARG ASP PRO LYS LYS ARG GLU PHE SEQRES 12 B 311 LEU PHE ASN ALA ILE GLU THR MSE PRO TYR VAL LYS LYS SEQRES 13 B 311 LYS ALA ASP TRP ALA LEU ARG TRP ILE ALA ASP ARG LYS SEQRES 14 B 311 SER THR PHE GLY GLU ARG VAL VAL ALA PHE ALA ALA VAL SEQRES 15 B 311 GLU GLY VAL PHE PHE SER GLY SER PHE ALA ALA ILE PHE SEQRES 16 B 311 TRP LEU LYS LYS ARG GLY LEU MSE PRO GLY LEU THR PHE SEQRES 17 B 311 SER ASN GLU LEU ILE SER ARG ASP GLU GLY LEU HIS CYS SEQRES 18 B 311 ASP PHE ALA CYS LEU MSE PHE GLN TYR LEU VAL ASN LYS SEQRES 19 B 311 PRO SER GLU GLU ARG VAL ARG GLU ILE ILE VAL ASP ALA SEQRES 20 B 311 VAL LYS ILE GLU GLN GLU PHE LEU THR GLU ALA LEU PRO SEQRES 21 B 311 VAL GLY LEU ILE GLY MSE ASN CYS ILE LEU MSE LYS GLN SEQRES 22 B 311 TYR ILE GLU PHE VAL ALA ASP ARG LEU LEU VAL GLU LEU SEQRES 23 B 311 GLY PHE SER LYS VAL PHE GLN ALA GLU ASN PRO PHE ASP SEQRES 24 B 311 PHE MSE GLU ASN ILE SER LEU GLU GLY LYS THR ASN MODRES 4DJN MSE A 55 MET SELENOMETHIONINE MODRES 4DJN MSE A 137 MET SELENOMETHIONINE MODRES 4DJN MSE A 162 MET SELENOMETHIONINE MODRES 4DJN MSE A 214 MET SELENOMETHIONINE MODRES 4DJN MSE A 238 MET SELENOMETHIONINE MODRES 4DJN MSE A 277 MET SELENOMETHIONINE MODRES 4DJN MSE A 282 MET SELENOMETHIONINE MODRES 4DJN MSE A 312 MET SELENOMETHIONINE MODRES 4DJN MSE B 55 MET SELENOMETHIONINE MODRES 4DJN MSE B 137 MET SELENOMETHIONINE MODRES 4DJN MSE B 162 MET SELENOMETHIONINE MODRES 4DJN MSE B 214 MET SELENOMETHIONINE MODRES 4DJN MSE B 238 MET SELENOMETHIONINE MODRES 4DJN MSE B 277 MET SELENOMETHIONINE MODRES 4DJN MSE B 282 MET SELENOMETHIONINE MODRES 4DJN MSE B 312 MET SELENOMETHIONINE HET MSE A 55 8 HET MSE A 137 8 HET MSE A 162 8 HET MSE A 214 8 HET MSE A 238 8 HET MSE A 277 8 HET MSE A 282 8 HET MSE A 312 8 HET MSE B 55 8 HET MSE B 137 8 HET MSE B 162 8 HET MSE B 214 8 HET MSE B 238 8 HET MSE B 277 8 HET MSE B 282 8 HET MSE B 312 8 HET SO4 B 400 5 HET EDO B 401 4 HET EDO B 402 4 HETNAM MSE SELENOMETHIONINE HETNAM SO4 SULFATE ION HETNAM EDO 1,2-ETHANEDIOL HETSYN EDO ETHYLENE GLYCOL FORMUL 1 MSE 16(C5 H11 N O2 SE) FORMUL 3 SO4 O4 S 2- FORMUL 4 EDO 2(C2 H6 O2) FORMUL 6 HOH *121(H2 O) HELIX 1 1 LYS A 28 GLU A 32 5 5 HELIX 2 2 ARG A 36 ARG A 40 5 5 HELIX 3 3 TYR A 49 SER A 62 1 14 HELIX 4 4 THR A 65 VAL A 69 5 5 HELIX 5 5 LYS A 73 ASN A 79 1 7 HELIX 6 6 LYS A 82 ARG A 110 1 29 HELIX 7 7 ARG A 110 VAL A 115 1 6 HELIX 8 8 VAL A 117 ILE A 146 1 30 HELIX 9 9 ASP A 148 ASN A 157 1 10 HELIX 10 10 ASN A 157 MSE A 162 1 6 HELIX 11 11 MSE A 162 ASP A 178 1 17 HELIX 12 12 THR A 182 VAL A 196 1 15 HELIX 13 13 PHE A 198 ARG A 211 1 14 HELIX 14 14 MSE A 214 TYR A 241 1 28 HELIX 15 15 SER A 247 GLU A 268 1 22 HELIX 16 16 PRO A 271 GLY A 276 5 6 HELIX 17 17 ASN A 278 LEU A 297 1 20 HELIX 18 18 PHE A 309 GLU A 313 5 5 HELIX 19 19 ILE B 27 GLU B 32 5 6 HELIX 20 20 SER B 38 PHE B 42 5 5 HELIX 21 21 TYR B 49 SER B 62 1 14 HELIX 22 22 THR B 65 VAL B 69 5 5 HELIX 23 23 LYS B 73 ASN B 79 1 7 HELIX 24 24 LYS B 82 ILE B 102 1 21 HELIX 25 25 VAL B 103 GLU B 105 5 3 HELIX 26 26 ASN B 106 VAL B 115 1 10 HELIX 27 27 VAL B 117 ILE B 146 1 30 HELIX 28 28 ASP B 148 GLU B 160 1 13 HELIX 29 29 MSE B 162 ILE B 176 1 15 HELIX 30 30 THR B 182 VAL B 196 1 15 HELIX 31 31 PHE B 198 ARG B 211 1 14 HELIX 32 32 MSE B 214 TYR B 241 1 28 HELIX 33 33 SER B 247 GLU B 268 1 22 HELIX 34 34 PRO B 271 GLY B 276 5 6 HELIX 35 35 ASN B 278 LEU B 297 1 20 HELIX 36 36 PHE B 309 GLU B 313 5 5 LINK C LYS A 54 N MSE A 55 1555 1555 1.33 LINK C MSE A 55 N TYR A 56 1555 1555 1.33 LINK C GLU A 136 N MSE A 137 1555 1555 1.32 LINK C MSE A 137 N TYR A 138 1555 1555 1.33 LINK C THR A 161 N MSE A 162 1555 1555 1.34 LINK C MSE A 162 N PRO A 163 1555 1555 1.36 LINK C LEU A 213 N MSE A 214 1555 1555 1.33 LINK C MSE A 214 N PRO A 215 1555 1555 1.34 LINK C LEU A 237 N MSE A 238 1555 1555 1.34 LINK C MSE A 238 N PHE A 239 1555 1555 1.33 LINK C GLY A 276 N MSE A 277 1555 1555 1.33 LINK C MSE A 277 N ASN A 278 1555 1555 1.33 LINK C LEU A 281 N MSE A 282 1555 1555 1.33 LINK C MSE A 282 N LYS A 283 1555 1555 1.34 LINK C PHE A 311 N MSE A 312 1555 1555 1.34 LINK C MSE A 312 N GLU A 313 1555 1555 1.33 LINK C LYS B 54 N MSE B 55 1555 1555 1.32 LINK C MSE B 55 N TYR B 56 1555 1555 1.33 LINK C GLU B 136 N MSE B 137 1555 1555 1.32 LINK C MSE B 137 N TYR B 138 1555 1555 1.32 LINK C THR B 161 N MSE B 162 1555 1555 1.33 LINK C MSE B 162 N PRO B 163 1555 1555 1.35 LINK C LEU B 213 N MSE B 214 1555 1555 1.33 LINK C MSE B 214 N PRO B 215 1555 1555 1.34 LINK C LEU B 237 N MSE B 238 1555 1555 1.34 LINK C MSE B 238 N PHE B 239 1555 1555 1.33 LINK C GLY B 276 N MSE B 277 1555 1555 1.33 LINK C MSE B 277 N ASN B 278 1555 1555 1.33 LINK C LEU B 281 N MSE B 282 1555 1555 1.33 LINK C MSE B 282 N LYS B 283 1555 1555 1.33 LINK C PHE B 311 N MSE B 312 1555 1555 1.33 LINK C MSE B 312 N GLU B 313 1555 1555 1.33 CISPEP 1 PHE A 45 PRO A 46 0 0.79 CISPEP 2 PHE B 45 PRO B 46 0 1.64 SITE 1 AC1 5 TYR B 145 ILE B 146 ARG B 147 ASP B 148 SITE 2 AC1 5 LYS B 151 SITE 1 AC2 4 LYS B 28 THR B 182 PHE B 183 ARG B 186 SITE 1 AC3 5 HOH A 427 HIS B 91 MSE B 162 ALA B 269 SITE 2 AC3 5 HOH B 514 CRYST1 69.053 98.762 133.668 90.00 90.00 90.00 P 21 21 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 0.014482 0.000000 0.000000 0.00000 SCALE2 0.000000 0.010125 0.000000 0.00000 SCALE3 0.000000 0.000000 0.007481 0.00000 CONECT 228 235 CONECT 235 228 236 CONECT 236 235 237 239 CONECT 237 236 238 243 CONECT 238 237 CONECT 239 236 240 CONECT 240 239 241 CONECT 241 240 242 CONECT 242 241 CONECT 243 237 CONECT 895 902 CONECT 902 895 903 CONECT 903 902 904 906 CONECT 904 903 905 910 CONECT 905 904 CONECT 906 903 907 CONECT 907 906 908 CONECT 908 907 909 CONECT 909 908 CONECT 910 904 CONECT 1101 1106 CONECT 1106 1101 1107 CONECT 1107 1106 1108 1110 CONECT 1108 1107 1109 1114 CONECT 1109 1108 CONECT 1110 1107 1111 CONECT 1111 1110 1112 CONECT 1112 1111 1113 CONECT 1113 1112 CONECT 1114 1108 CONECT 1513 1519 CONECT 1519 1513 1520 CONECT 1520 1519 1521 1523 CONECT 1521 1520 1522 1527 CONECT 1522 1521 CONECT 1523 1520 1524 CONECT 1524 1523 1525 CONECT 1525 1524 1526 CONECT 1526 1525 CONECT 1527 1521 CONECT 1700 1706 CONECT 1706 1700 1707 CONECT 1707 1706 1708 1710 CONECT 1708 1707 1709 1714 CONECT 1709 1708 CONECT 1710 1707 1711 CONECT 1711 1710 1712 CONECT 1712 1711 1713 CONECT 1713 1712 CONECT 1714 1708 CONECT 2024 2026 CONECT 2026 2024 2027 CONECT 2027 2026 2028 2030 CONECT 2028 2027 2029 2034 CONECT 2029 2028 CONECT 2030 2027 2031 CONECT 2031 2030 2032 CONECT 2032 2031 2033 CONECT 2033 2032 CONECT 2034 2028 CONECT 2058 2064 CONECT 2064 2058 2065 CONECT 2065 2064 2066 2068 CONECT 2066 2065 2067 2072 CONECT 2067 2066 CONECT 2068 2065 2069 CONECT 2069 2068 2070 CONECT 2070 2069 2071 CONECT 2071 2070 CONECT 2072 2066 CONECT 2314 2323 CONECT 2323 2314 2324 CONECT 2324 2323 2325 2327 CONECT 2325 2324 2326 2331 CONECT 2326 2325 CONECT 2327 2324 2328 CONECT 2328 2327 2329 CONECT 2329 2328 2330 CONECT 2330 2329 CONECT 2331 2325 CONECT 2587 2594 CONECT 2594 2587 2595 CONECT 2595 2594 2596 2598 CONECT 2596 2595 2597 2602 CONECT 2597 2596 CONECT 2598 2595 2599 CONECT 2599 2598 2600 CONECT 2600 2599 2601 CONECT 2601 2600 CONECT 2602 2596 CONECT 3252 3259 CONECT 3259 3252 3260 CONECT 3260 3259 3261 3263 CONECT 3261 3260 3262 3267 CONECT 3262 3261 CONECT 3263 3260 3264 CONECT 3264 3263 3265 CONECT 3265 3264 3266 CONECT 3266 3265 CONECT 3267 3261 CONECT 3475 3480 CONECT 3480 3475 3481 CONECT 3481 3480 3482 3484 CONECT 3482 3481 3483 3488 CONECT 3483 3482 CONECT 3484 3481 3485 CONECT 3485 3484 3486 CONECT 3486 3485 3487 CONECT 3487 3486 CONECT 3488 3482 CONECT 3887 3893 CONECT 3893 3887 3894 CONECT 3894 3893 3895 3897 CONECT 3895 3894 3896 3901 CONECT 3896 3895 CONECT 3897 3894 3898 CONECT 3898 3897 3899 CONECT 3899 3898 3900 CONECT 3900 3899 CONECT 3901 3895 CONECT 4071 4077 CONECT 4077 4071 4078 CONECT 4078 4077 4079 4081 CONECT 4079 4078 4080 4085 CONECT 4080 4079 CONECT 4081 4078 4082 CONECT 4082 4081 4083 CONECT 4083 4082 4084 CONECT 4084 4083 CONECT 4085 4079 CONECT 4395 4397 CONECT 4397 4395 4398 CONECT 4398 4397 4399 4401 CONECT 4399 4398 4400 4405 CONECT 4400 4399 CONECT 4401 4398 4402 CONECT 4402 4401 4403 CONECT 4403 4402 4404 CONECT 4404 4403 CONECT 4405 4399 CONECT 4429 4435 CONECT 4435 4429 4436 CONECT 4436 4435 4437 4439 CONECT 4437 4436 4438 4443 CONECT 4438 4437 CONECT 4439 4436 4440 CONECT 4440 4439 4441 CONECT 4441 4440 4442 CONECT 4442 4441 CONECT 4443 4437 CONECT 4685 4694 CONECT 4694 4685 4695 CONECT 4695 4694 4696 4698 CONECT 4696 4695 4697 4702 CONECT 4697 4696 CONECT 4698 4695 4699 CONECT 4699 4698 4700 CONECT 4700 4699 4701 CONECT 4701 4700 CONECT 4702 4696 CONECT 4712 4713 4714 4715 4716 CONECT 4713 4712 CONECT 4714 4712 CONECT 4715 4712 CONECT 4716 4712 CONECT 4717 4718 4719 CONECT 4718 4717 CONECT 4719 4717 4720 CONECT 4720 4719 CONECT 4721 4722 4723 CONECT 4722 4721 CONECT 4723 4721 4724 CONECT 4724 4723 MASTER 417 0 19 36 0 0 5 6 4808 2 173 48 END