HEADER SIGNALING PROTEIN 06-JUN-05 1ZX2 TITLE CRYSTAL STRUCTURE OF YEAST UBP3-ASSOCIATED PROTEIN BRE5 COMPND MOL_ID: 1; COMPND 2 MOLECULE: UBP3-ASSOCIATED PROTEIN BRE5; COMPND 3 CHAIN: A, B; COMPND 4 FRAGMENT: NTF2-LIKE DOMAINS (RESIDUES 1-146); COMPND 5 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: SACCHAROMYCES CEREVISIAE; SOURCE 3 ORGANISM_COMMON: BAKER'S YEAST; SOURCE 4 ORGANISM_TAXID: 4932; SOURCE 5 GENE: BRE5; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 7 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PGEX4T KEYWDS UBP3, DEUBIQUTINATE, NTF2, SIGNALING PROTEIN EXPDTA X-RAY DIFFRACTION AUTHOR K.LI,K.ZHAO,B.OSSAREH-NAZARI,G.DA,C.DARGEMONT,R.MARMORSTEIN REVDAT 5 16-OCT-24 1ZX2 1 SEQADV REVDAT 4 13-JUL-11 1ZX2 1 VERSN REVDAT 3 24-FEB-09 1ZX2 1 VERSN REVDAT 2 30-AUG-05 1ZX2 1 JRNL REVDAT 1 21-JUN-05 1ZX2 0 JRNL AUTH K.LI,K.ZHAO,B.OSSAREH-NAZARI,G.DA,C.DARGEMONT,R.MARMORSTEIN JRNL TITL STRUCTURAL BASIS FOR INTERACTION BETWEEN THE UBP3 JRNL TITL 2 DEUBIQUITINATING ENZYME AND ITS BRE5 COFACTOR JRNL REF J.BIOL.CHEM. V. 280 29176 2005 JRNL REFN ISSN 0021-9258 JRNL PMID 15955808 JRNL DOI 10.1074/JBC.M502975200 REMARK 1 REMARK 1 REFERENCE 1 REMARK 1 AUTH M.COHEN,F.STUTZ,N.BELGAREH,R.HAGUENAUER-TSAPIS,C.DARGEMONT REMARK 1 TITL UBP3 REQUIRES A COFACTOR, BRE5, TO SPECIFICALLY REMARK 1 TITL 2 DE-UBIQUITINATE THE COPII PROTEIN, SEC23 REMARK 1 REF NAT.CELL BIOL. V. 5 661 2003 REMARK 1 REFN ISSN 1465-7392 REMARK 2 REMARK 2 RESOLUTION. 2.10 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.1.24 REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN REMARK 3 REMARK 3 REFINEMENT TARGET : MAXIMUM LIKELIHOOD REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.10 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 79.06 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 99.3 REMARK 3 NUMBER OF REFLECTIONS : 27084 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) : 0.190 REMARK 3 R VALUE (WORKING SET) : 0.188 REMARK 3 FREE R VALUE : 0.213 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 1445 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) : 2.10 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.15 REMARK 3 REFLECTION IN BIN (WORKING SET) : 1951 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : NULL REMARK 3 BIN R VALUE (WORKING SET) : 0.1870 REMARK 3 BIN FREE R VALUE SET COUNT : 116 REMARK 3 BIN FREE R VALUE : 0.2710 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2101 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 0 REMARK 3 SOLVENT ATOMS : 146 REMARK 3 REMARK 3 B VALUES. REMARK 3 B VALUE TYPE : LIKELY RESIDUAL REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 28.15 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.70000 REMARK 3 B22 (A**2) : -0.70000 REMARK 3 B33 (A**2) : 1.05000 REMARK 3 B12 (A**2) : -0.35000 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): 0.142 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.131 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.079 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 2.883 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.946 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.942 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 2155 ; 0.032 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): 1908 ; 0.009 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 2914 ; 2.396 ; 1.932 REMARK 3 BOND ANGLES OTHERS (DEGREES): 4438 ; 1.642 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 256 ; 7.810 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): NULL ; NULL ; NULL REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 330 ; 0.226 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 2354 ; 0.011 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 478 ; 0.005 ; 0.020 REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 425 ; 0.244 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): 2097 ; 0.274 ; 0.200 REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION OTHERS (A): 1338 ; 0.104 ; 0.200 REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 112 ; 0.197 ; 0.200 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): 28 ; 0.633 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): 62 ; 0.421 ; 0.200 REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 15 ; 0.192 ; 0.200 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): 1294 ; 1.624 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 2104 ; 3.046 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 861 ; 4.089 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 810 ; 6.637 ; 4.500 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 0 A 141 REMARK 3 ORIGIN FOR THE GROUP (A): -5.5880 34.0000 91.1010 REMARK 3 T TENSOR REMARK 3 T11: 0.0133 T22: 0.1489 REMARK 3 T33: 0.0552 T12: -0.0262 REMARK 3 T13: 0.0153 T23: 0.0304 REMARK 3 L TENSOR REMARK 3 L11: 1.8702 L22: 0.7485 REMARK 3 L33: 0.3314 L12: -0.2836 REMARK 3 L13: -0.3584 L23: -0.1174 REMARK 3 S TENSOR REMARK 3 S11: -0.0118 S12: 0.0305 S13: -0.1874 REMARK 3 S21: -0.0691 S22: 0.0144 S23: 0.0377 REMARK 3 S31: 0.0462 S32: -0.1388 S33: -0.0026 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 2 B 143 REMARK 3 ORIGIN FOR THE GROUP (A): 16.6960 34.2760 90.7500 REMARK 3 T TENSOR REMARK 3 T11: 0.0271 T22: 0.1116 REMARK 3 T33: 0.0516 T12: 0.0188 REMARK 3 T13: 0.0149 T23: 0.0414 REMARK 3 L TENSOR REMARK 3 L11: 1.0731 L22: 0.6861 REMARK 3 L33: 0.9486 L12: -0.2756 REMARK 3 L13: -0.1185 L23: 0.0852 REMARK 3 S TENSOR REMARK 3 S11: 0.0504 S12: -0.0717 S13: -0.0814 REMARK 3 S21: -0.0536 S22: -0.0712 S23: -0.0013 REMARK 3 S31: 0.0051 S32: 0.0463 S33: 0.0208 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 : 1.40 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 1ZX2 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 14-JUN-05. REMARK 100 THE DEPOSITION ID IS D_1000033218. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 12-OCT-04 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 5.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : NSLS REMARK 200 BEAMLINE : X25 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9795, 0.9794, 0.9500, 0.9790 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 4 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 28566 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.100 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.2 REMARK 200 DATA REDUNDANCY : 10.40 REMARK 200 R MERGE (I) : 0.07600 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 28.3000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.10 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.18 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.6 REMARK 200 DATA REDUNDANCY IN SHELL : 10.90 REMARK 200 R MERGE FOR SHELL (I) : 0.37900 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 8.700 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: MAD REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MAD REMARK 200 SOFTWARE USED: SOLVE REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 50.00 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.50 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: PEG 3350, AMMONIUM SULFATE, PH 5.5, REMARK 280 VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 300K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 61 2 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -Y,X-Y,Z+1/3 REMARK 290 3555 -X+Y,-X,Z+2/3 REMARK 290 4555 -X,-Y,Z+1/2 REMARK 290 5555 Y,-X+Y,Z+5/6 REMARK 290 6555 X-Y,X,Z+1/6 REMARK 290 7555 Y,X,-Z+1/3 REMARK 290 8555 X-Y,-Y,-Z REMARK 290 9555 -X,-X+Y,-Z+2/3 REMARK 290 10555 -Y,-X,-Z+5/6 REMARK 290 11555 -X+Y,Y,-Z+1/2 REMARK 290 12555 X,X-Y,-Z+1/6 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 64.96533 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 129.93067 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 97.44800 REMARK 290 SMTRY1 5 0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 5 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 162.41333 REMARK 290 SMTRY1 6 0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 6 0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 32.48267 REMARK 290 SMTRY1 7 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 7 0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 64.96533 REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 9 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 9 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 9 0.000000 0.000000 -1.000000 129.93067 REMARK 290 SMTRY1 10 0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 10 -0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 10 0.000000 0.000000 -1.000000 162.41333 REMARK 290 SMTRY1 11 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 11 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 11 0.000000 0.000000 -1.000000 97.44800 REMARK 290 SMTRY1 12 0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 12 0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 12 0.000000 0.000000 -1.000000 32.48267 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: THE BIOLOGICAL ASSEMBLY IS A DIMER IN THE ASYMMETRIC UNIT. 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: 2330 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 13000 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -16.0 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 GLN A 43 REMARK 465 SER A 44 REMARK 465 LYS A 45 REMARK 465 SER A 46 REMARK 465 THR A 47 REMARK 465 ASN A 48 REMARK 465 GLU A 49 REMARK 465 LYS A 50 REMARK 465 ASP A 51 REMARK 465 ASP A 52 REMARK 465 VAL A 53 REMARK 465 LEU A 54 REMARK 465 SER A 142 REMARK 465 ASN A 143 REMARK 465 SER A 144 REMARK 465 PHE A 145 REMARK 465 LYS A 146 REMARK 465 SER B 0 REMARK 465 MET B 1 REMARK 465 GLN B 43 REMARK 465 SER B 44 REMARK 465 LYS B 45 REMARK 465 SER B 46 REMARK 465 THR B 47 REMARK 465 ASN B 48 REMARK 465 GLU B 49 REMARK 465 LYS B 50 REMARK 465 ASP B 51 REMARK 465 ASP B 52 REMARK 465 VAL B 53 REMARK 465 LEU B 54 REMARK 465 SER B 144 REMARK 465 PHE B 145 REMARK 465 LYS B 146 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 ARG A 71 CG CD NE CZ NH1 NH2 REMARK 470 ARG B 71 CG CD NE CZ NH1 NH2 REMARK 470 ASN B 127 CG OD1 ND2 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 OE1 GLU B 63 O HOH B 231 2.02 REMARK 500 REMARK 500 REMARK: NULL 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 CE2 PHE B 10 CE2 PHE B 10 10665 1.75 REMARK 500 NH2 ARG B 21 NH2 ARG B 21 10665 1.85 REMARK 500 CE2 PHE B 10 CZ PHE B 10 10665 1.94 REMARK 500 CD2 PHE B 10 CZ PHE B 10 10665 2.09 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 36 CD GLU A 36 OE1 0.066 REMARK 500 GLU A 36 CD GLU A 36 OE2 0.072 REMARK 500 VAL A 59 CB VAL A 59 CG2 -0.152 REMARK 500 ARG A 62 CD ARG A 62 NE -0.114 REMARK 500 ARG A 139 CD ARG A 139 NE -0.133 REMARK 500 THR B 4 CB THR B 4 CG2 -0.215 REMARK 500 PHE B 10 CZ PHE B 10 CE2 0.119 REMARK 500 MET B 20 CG MET B 20 SD 0.177 REMARK 500 MET B 20 SD MET B 20 CE -0.489 REMARK 500 GLU B 36 CD GLU B 36 OE1 0.074 REMARK 500 ARG B 62 CD ARG B 62 NE -0.130 REMARK 500 THR B 103 CB THR B 103 CG2 -0.226 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 19 NE - CZ - NH1 ANGL. DEV. = 3.3 DEGREES REMARK 500 GLU A 36 OE1 - CD - OE2 ANGL. DEV. = 9.2 DEGREES REMARK 500 ARG A 62 CD - NE - CZ ANGL. DEV. = 12.5 DEGREES REMARK 500 ARG A 62 NE - CZ - NH1 ANGL. DEV. = 9.1 DEGREES REMARK 500 ARG A 62 NE - CZ - NH2 ANGL. DEV. = -10.9 DEGREES REMARK 500 LEU A 123 CB - CG - CD2 ANGL. DEV. = 15.0 DEGREES REMARK 500 ARG A 139 CG - CD - NE ANGL. DEV. = -16.8 DEGREES REMARK 500 ARG A 139 NE - CZ - NH1 ANGL. DEV. = 7.9 DEGREES REMARK 500 ARG A 139 NE - CZ - NH2 ANGL. DEV. = -12.7 DEGREES REMARK 500 THR B 4 N - CA - CB ANGL. DEV. = -12.2 DEGREES REMARK 500 ARG B 19 NE - CZ - NH2 ANGL. DEV. = -3.8 DEGREES REMARK 500 MET B 20 CG - SD - CE ANGL. DEV. = -18.4 DEGREES REMARK 500 GLU B 36 OE1 - CD - OE2 ANGL. DEV. = 8.0 DEGREES REMARK 500 ARG B 62 CD - NE - CZ ANGL. DEV. = 9.2 DEGREES REMARK 500 ARG B 62 NE - CZ - NH1 ANGL. DEV. = 8.0 DEGREES REMARK 500 ARG B 62 NE - CZ - NH2 ANGL. DEV. = -9.4 DEGREES REMARK 500 LEU B 81 CA - CB - CG ANGL. DEV. = 20.7 DEGREES REMARK 500 LEU B 99 CB - CG - CD2 ANGL. DEV. = 12.7 DEGREES REMARK 500 THR B 103 N - CA - CB ANGL. DEV. = -11.7 DEGREES REMARK 500 LEU B 123 CA - CB - CG ANGL. DEV. = 14.2 DEGREES REMARK 500 LEU B 123 CB - CG - CD1 ANGL. DEV. = 11.8 DEGREES REMARK 500 ARG B 139 NE - CZ - NH2 ANGL. DEV. = -5.8 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 MET A 1 -126.56 -135.46 REMARK 500 THR A 109 -60.95 -6.54 REMARK 500 THR A 111 -129.69 -127.25 REMARK 500 ASP B 23 87.25 -157.56 REMARK 500 THR B 109 52.02 38.06 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: NON-CIS, NON-TRANS REMARK 500 REMARK 500 THE FOLLOWING PEPTIDE BONDS DEVIATE SIGNIFICANTLY FROM BOTH REMARK 500 CIS AND TRANS CONFORMATION. CIS BONDS, IF ANY, ARE LISTED REMARK 500 ON CISPEP RECORDS. TRANS IS DEFINED AS 180 +/- 30 AND REMARK 500 CIS IS DEFINED AS 0 +/- 30 DEGREES. REMARK 500 MODEL OMEGA REMARK 500 MET A 1 GLY A 2 -147.41 REMARK 500 THR A 111 PRO A 112 -138.87 REMARK 500 REMARK 500 REMARK: NULL DBREF 1ZX2 A 1 146 UNP P53741 BRE5_YEAST 1 146 DBREF 1ZX2 B 1 146 UNP P53741 BRE5_YEAST 1 146 SEQADV 1ZX2 SER A 0 UNP P53741 CLONING ARTIFACT SEQADV 1ZX2 SER B 0 UNP P53741 CLONING ARTIFACT SEQRES 1 A 147 SER MET GLY VAL THR VAL GLN ASP ILE CYS PHE ALA PHE SEQRES 2 A 147 LEU GLN ASN TYR TYR GLU ARG MET ARG THR ASP PRO SER SEQRES 3 A 147 LYS LEU ALA TYR PHE TYR ALA SER THR ALA GLU LEU THR SEQRES 4 A 147 HIS THR ASN TYR GLN SER LYS SER THR ASN GLU LYS ASP SEQRES 5 A 147 ASP VAL LEU PRO THR VAL LYS VAL THR GLY ARG GLU ASN SEQRES 6 A 147 ILE ASN LYS PHE PHE SER ARG ASN ASP ALA LYS VAL ARG SEQRES 7 A 147 SER LEU LYS LEU LYS LEU ASP THR ILE ASP PHE GLN TYR SEQRES 8 A 147 THR GLY HIS LEU HIS LYS SER ILE LEU ILE MET ALA THR SEQRES 9 A 147 GLY GLU MET PHE TRP THR GLY THR PRO VAL TYR LYS PHE SEQRES 10 A 147 CYS GLN THR PHE ILE LEU LEU PRO SER SER ASN GLY SER SEQRES 11 A 147 THR PHE ASP ILE THR ASN ASP ILE ILE ARG PHE ILE SER SEQRES 12 A 147 ASN SER PHE LYS SEQRES 1 B 147 SER MET GLY VAL THR VAL GLN ASP ILE CYS PHE ALA PHE SEQRES 2 B 147 LEU GLN ASN TYR TYR GLU ARG MET ARG THR ASP PRO SER SEQRES 3 B 147 LYS LEU ALA TYR PHE TYR ALA SER THR ALA GLU LEU THR SEQRES 4 B 147 HIS THR ASN TYR GLN SER LYS SER THR ASN GLU LYS ASP SEQRES 5 B 147 ASP VAL LEU PRO THR VAL LYS VAL THR GLY ARG GLU ASN SEQRES 6 B 147 ILE ASN LYS PHE PHE SER ARG ASN ASP ALA LYS VAL ARG SEQRES 7 B 147 SER LEU LYS LEU LYS LEU ASP THR ILE ASP PHE GLN TYR SEQRES 8 B 147 THR GLY HIS LEU HIS LYS SER ILE LEU ILE MET ALA THR SEQRES 9 B 147 GLY GLU MET PHE TRP THR GLY THR PRO VAL TYR LYS PHE SEQRES 10 B 147 CYS GLN THR PHE ILE LEU LEU PRO SER SER ASN GLY SER SEQRES 11 B 147 THR PHE ASP ILE THR ASN ASP ILE ILE ARG PHE ILE SER SEQRES 12 B 147 ASN SER PHE LYS FORMUL 3 HOH *146(H2 O) HELIX 1 1 THR A 4 ASP A 23 1 20 HELIX 2 2 PRO A 24 TYR A 29 5 6 HELIX 3 3 GLY A 61 ASN A 72 1 12 HELIX 4 4 ASN A 72 SER A 78 1 7 HELIX 5 5 GLY A 92 LYS A 96 5 5 HELIX 6 6 THR B 4 ASP B 23 1 20 HELIX 7 7 PRO B 24 TYR B 29 5 6 HELIX 8 8 GLY B 61 ASN B 72 1 12 HELIX 9 9 ASN B 72 SER B 78 1 7 HELIX 10 10 GLY B 92 LYS B 96 5 5 SHEET 1 A 6 THR A 56 THR A 60 0 SHEET 2 A 6 TYR A 31 THR A 40 -1 N LEU A 37 O VAL A 59 SHEET 3 A 6 PHE A 131 PHE A 140 1 O ILE A 133 N ALA A 32 SHEET 4 A 6 TYR A 114 PRO A 124 -1 N LEU A 123 O ASP A 132 SHEET 5 A 6 SER A 97 TRP A 108 -1 N ALA A 102 O GLN A 118 SHEET 6 A 6 LEU A 79 THR A 91 -1 N GLN A 89 O LEU A 99 SHEET 1 B 6 THR B 56 THR B 60 0 SHEET 2 B 6 TYR B 31 THR B 40 -1 N LEU B 37 O VAL B 59 SHEET 3 B 6 PHE B 131 ILE B 141 1 O ILE B 133 N ALA B 32 SHEET 4 B 6 THR B 111 PRO B 124 -1 N THR B 119 O ILE B 137 SHEET 5 B 6 SER B 97 TRP B 108 -1 N ALA B 102 O GLN B 118 SHEET 6 B 6 LEU B 79 THR B 91 -1 N GLN B 89 O LEU B 99 SSBOND 1 CYS A 117 CYS B 117 1555 1555 2.01 CRYST1 90.909 90.909 194.896 90.00 90.00 120.00 P 61 2 2 24 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 0.011000 0.006351 0.000000 0.00000 SCALE2 0.000000 0.012702 0.000000 0.00000 SCALE3 0.000000 0.000000 0.005131 0.00000