PDB Short entry for 2CE2 HEADER SIGNALING PROTEIN 02-FEB-06 2CE2 TITLE CRYSTAL STRUCTURE ANALYSIS OF A FLUORESCENT FORM OF H-RAS P21 IN TITLE 2 COMPLEX WITH GDP COMPND MOL_ID: 1; COMPND 2 MOLECULE: GTPASE HRAS; COMPND 3 CHAIN: X; COMPND 4 FRAGMENT: RESIDUES 1-166; COMPND 5 SYNONYM: H-RAS P21, TRANSFORMING PROTEIN P21, C-H-RAS-1; COMPND 6 ENGINEERED: YES; COMPND 7 MUTATION: YES; COMPND 8 OTHER_DETAILS: AN IANBD FLUOROPHORE WAS ATTACHED TO CYS-32 SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 3 ORGANISM_COMMON: HUMAN; SOURCE 4 ORGANISM_TAXID: 9606; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 7 EXPRESSION_SYSTEM_STRAIN: CK600K; SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 9 EXPRESSION_SYSTEM_PLASMID: PTAC RAS KEYWDS SIGNALING PROTEIN, GUANINE NUCLEOTIDE BINDING PROTEIN, FLUORESCENCE, KEYWDS 2 MEMBRANE, LIPOPROTEIN, PALMITATE, PRENYLATION EXPDTA X-RAY DIFFRACTION NUMMDL 2 AUTHOR B.U.KLINK,R.S.GOODY,A.J.SCHEIDIG REVDAT 7 06-FEB-19 2CE2 1 REMARK REVDAT 6 30-JAN-19 2CE2 1 REMARK REVDAT 5 28-JUN-17 2CE2 1 REMARK CONECT REVDAT 4 22-APR-15 2CE2 1 NUMMDL REMARK FORMUL SITE REVDAT 4 2 1 HETATM CONECT MASTER REVDAT 3 13-JUL-11 2CE2 1 VERSN REVDAT 2 24-FEB-09 2CE2 1 VERSN REVDAT 1 23-AUG-06 2CE2 0 JRNL AUTH B.U.KLINK,R.S.GOODY,A.J.SCHEIDIG JRNL TITL A NEWLY DESIGNED MICROSPECTROFLUOROMETER FOR KINETIC STUDIES JRNL TITL 2 ON PROTEIN CRYSTALS IN COMBINATION WITH X-RAY DIFFRACTION JRNL REF BIOPHYS.J. V. 91 981 2006 JRNL REFN ISSN 0006-3495 JRNL PMID 16698776 JRNL DOI 10.1529/BIOPHYSJ.105.078931 REMARK 2 REMARK 2 RESOLUTION. 1.00 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.2.0005 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) : 1.00 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 50.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 97.0 REMARK 3 NUMBER OF REFLECTIONS : 76394 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 CROSS-VALIDATION METHOD : THROUGHOUT REMARK 3 FREE R VALUE TEST SET SELECTION : RANDOM REMARK 3 R VALUE (WORKING + TEST SET) : 0.145 REMARK 3 R VALUE (WORKING SET) : 0.144 REMARK 3 FREE R VALUE : 0.163 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 4021 REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 20 REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 1.00 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.03 REMARK 3 REFLECTION IN BIN (WORKING SET) : 5493 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : NULL REMARK 3 BIN R VALUE (WORKING SET) : 0.2700 REMARK 3 BIN FREE R VALUE SET COUNT : 290 REMARK 3 BIN FREE R VALUE : 0.2770 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 1317 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 50 REMARK 3 SOLVENT ATOMS : 263 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) : 8.87 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.53000 REMARK 3 B22 (A**2) : -0.17000 REMARK 3 B33 (A**2) : -0.36000 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): 0.032 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.033 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.029 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 1.202 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.979 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.969 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 2776 ; 0.012 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): 2456 ; 0.001 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 3764 ; 1.719 ; 2.004 REMARK 3 BOND ANGLES OTHERS (DEGREES): 5706 ; 0.802 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 330 ; 7.142 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 138 ;37.180 ;24.493 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 480 ;13.825 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 22 ;18.923 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 414 ; 0.085 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 3078 ; 0.006 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 554 ; 0.001 ; 0.020 REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 176 ; 0.241 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): 1305 ; 0.196 ; 0.200 REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 673 ; 0.188 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): 875 ; 0.091 ; 0.200 REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 288 ; 0.214 ; 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): 19 ; 0.301 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): 39 ; 0.347 ; 0.200 REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 50 ; 0.188 ; 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): 2142 ; 0.968 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 2658 ; 1.042 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1360 ; 1.734 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1106 ; 2.424 ; 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 : X 1 X 190 REMARK 3 ORIGIN FOR THE GROUP (A): 10.4980 36.9880 15.1460 REMARK 3 T TENSOR REMARK 3 T11: -0.0559 T22: -0.0608 REMARK 3 T33: -0.0383 T12: -0.0162 REMARK 3 T13: 0.0084 T23: -0.0085 REMARK 3 L TENSOR REMARK 3 L11: 0.5213 L22: 0.8820 REMARK 3 L33: 0.9431 L12: 0.2442 REMARK 3 L13: -0.1480 L23: 0.1523 REMARK 3 S TENSOR REMARK 3 S11: -0.0065 S12: -0.0462 S13: -0.0416 REMARK 3 S21: 0.0125 S22: -0.0080 S23: -0.0393 REMARK 3 S31: 0.0758 S32: 0.0324 S33: 0.0145 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 : X 2001 X 2434 REMARK 3 ORIGIN FOR THE GROUP (A): 9.8340 38.1740 13.4000 REMARK 3 T TENSOR REMARK 3 T11: -0.0060 T22: -0.0066 REMARK 3 T33: 0.0230 T12: -0.0063 REMARK 3 T13: -0.0048 T23: -0.0118 REMARK 3 L TENSOR REMARK 3 L11: 1.0888 L22: 1.5574 REMARK 3 L33: 1.3060 L12: 0.8576 REMARK 3 L13: -0.3451 L23: 0.0348 REMARK 3 S TENSOR REMARK 3 S11: -0.0546 S12: 0.0211 S13: -0.0130 REMARK 3 S21: -0.0717 S22: 0.0229 S23: 0.0240 REMARK 3 S31: 0.0529 S32: 0.0327 S33: 0.0318 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: HYDROGENS HAVE BEEN ADDED IN THE RIDING REMARK 3 POSITIONS. AN IANBD FLUOROPHORE WAS ATTACHED TO CYS-32. THE REMARK 3 STRUCTURE WAS REFINED USING TWO ALTERNATIVE CONFORMATIONS FOR REMARK 3 THE WHOLE PROTEIN CHAIN. THE CLOSE CONTACTS WITH WATER MOLECULES REMARK 3 ARE CAUSED BY THE TREATMENT OF THE WHOLE PROTEIN CHAIN WITH TWO REMARK 3 ALTERNATIVE CONFORMATIONS, BUT ONLY ONE POSITION PER WATER REMARK 3 MOLECULE. REMARK 4 REMARK 4 2CE2 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 02-FEB-06. REMARK 100 THE DEPOSITION ID IS D_1290027542. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 20-APR-04 REMARK 200 TEMPERATURE (KELVIN) : 100.0 REMARK 200 PH : 7.60 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SLS REMARK 200 BEAMLINE : X06SA REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.82655 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MARRESEARCH REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : XSCALE REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 82821 REMARK 200 RESOLUTION RANGE HIGH (A) : 0.990 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 (%) : 97.0 REMARK 200 DATA REDUNDANCY : 4.700 REMARK 200 R MERGE (I) : 0.05000 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 14.9600 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 0.99 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.00 REMARK 200 COMPLETENESS FOR SHELL (%) : 96.7 REMARK 200 DATA REDUNDANCY IN SHELL : 4.00 REMARK 200 R MERGE FOR SHELL (I) : 0.60000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> FOR SHELL : 2.330 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: MOLREP REMARK 200 STARTING MODEL: PDB ENTRY 4Q21 REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 39.60 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.10 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: PROTEIN SOLUTION: 17.22 MG/ML PROTEIN, REMARK 280 64 MM TRIS PH 7.6, 20 MM MAGNESIUM CHLORIDE, 10 MM DTT, 0,1 MM REMARK 280 SODIUM AZIDE; RESERVOIR SOLUTION: 64 MM TRIS PH 7.6, 20 MM REMARK 280 MAGNESIUM CHLORIDE, 10 MM DTT, 0,1 MM SODIUM AZIDE, 35% PEG 400 REMARK 280 MIXTURE OF EQUAL VOLUMES OF PROTEIN AND RESERVOIR SOLUTION, REMARK 280 VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 291.15K, PH 7.60 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 58.10000 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 58.10000 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 24.50000 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 26.95000 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 6 -1.000000 0.000000 0.000000 24.50000 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 26.95000 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 58.10000 REMARK 290 SMTRY1 7 -1.000000 0.000000 0.000000 24.50000 REMARK 290 SMTRY2 7 0.000000 1.000000 0.000000 26.95000 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 58.10000 REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 24.50000 REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 26.95000 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: MONOMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 APPLY THE FOLLOWING TO CHAINS: X 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 400 REMARK 400 COMPOUND REMARK 400 ENGINEERED RESIDUE IN CHAIN X, TYR 32 TO CYS REMARK 400 ENGINEERED RESIDUE IN CHAIN X, CYS 118 TO SER 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 2 CYS X 80 CB CYS X 80 SG -0.168 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 1 GLU X 63 -107.57 -33.76 REMARK 500 1 LYS X 117 37.26 76.13 REMARK 500 1 ALA X 121 43.26 -91.76 REMARK 500 2 ASN X 26 34.62 77.32 REMARK 500 2 ASP X 33 114.67 -33.27 REMARK 500 2 GLN X 61 -125.75 -89.37 REMARK 500 2 GLU X 63 108.67 172.96 REMARK 500 2 LYS X 117 35.69 78.49 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 GLU X 62 GLU X 63 1 -149.97 REMARK 500 GLU X 63 TYR X 64 1 -132.35 REMARK 500 REMARK 500 REMARK: NULL REMARK 525 REMARK 525 SOLVENT REMARK 525 REMARK 525 THE SOLVENT MOLECULES HAVE CHAIN IDENTIFIERS THAT REMARK 525 INDICATE THE POLYMER CHAIN WITH WHICH THEY ARE MOST REMARK 525 CLOSELY ASSOCIATED. THE REMARK LISTS ALL THE SOLVENT REMARK 525 MOLECULES WHICH ARE MORE THAN 5A AWAY FROM THE REMARK 525 NEAREST POLYMER CHAIN (M = MODEL NUMBER; REMARK 525 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE REMARK 525 NUMBER; I=INSERTION CODE): REMARK 525 REMARK 525 M RES CSSEQI REMARK 525 HOH X2175 DISTANCE = 6.40 ANGSTROMS REMARK 525 HOH X2255 DISTANCE = 6.73 ANGSTROMS REMARK 525 HOH X2154 DISTANCE = 6.52 ANGSTROMS REMARK 525 HOH X2172 DISTANCE = 6.93 ANGSTROMS REMARK 620 REMARK 620 METAL COORDINATION REMARK 620 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 620 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE): REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG X 170 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GDP X 180 O2B REMARK 620 2 SER X 17 OG 90.6 REMARK 620 N 1 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG X 170 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GDP X 180 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE XY2 X 190 DBREF 2CE2 X 1 166 UNP P01112 RASH_HUMAN 1 166 SEQADV 2CE2 CYS X 32 UNP P01112 TYR 32 ENGINEERED MUTATION SEQADV 2CE2 SER X 118 UNP P01112 CYS 118 ENGINEERED MUTATION SEQRES 1 X 166 MET THR GLU TYR LYS LEU VAL VAL VAL GLY ALA GLY GLY SEQRES 2 X 166 VAL GLY LYS SER ALA LEU THR ILE GLN LEU ILE GLN ASN SEQRES 3 X 166 HIS PHE VAL ASP GLU CYS ASP PRO THR ILE GLU ASP SER SEQRES 4 X 166 TYR ARG LYS GLN VAL VAL ILE ASP GLY GLU THR CYS LEU SEQRES 5 X 166 LEU ASP ILE LEU ASP THR ALA GLY GLN GLU GLU TYR SER SEQRES 6 X 166 ALA MET ARG ASP GLN TYR MET ARG THR GLY GLU GLY PHE SEQRES 7 X 166 LEU CYS VAL PHE ALA ILE ASN ASN THR LYS SER PHE GLU SEQRES 8 X 166 ASP ILE HIS GLN TYR ARG GLU GLN ILE LYS ARG VAL LYS SEQRES 9 X 166 ASP SER ASP ASP VAL PRO MET VAL LEU VAL GLY ASN LYS SEQRES 10 X 166 SER ASP LEU ALA ALA ARG THR VAL GLU SER ARG GLN ALA SEQRES 11 X 166 GLN ASP LEU ALA ARG SER TYR GLY ILE PRO TYR ILE GLU SEQRES 12 X 166 THR SER ALA LYS THR ARG GLN GLY VAL GLU ASP ALA PHE SEQRES 13 X 166 TYR THR LEU VAL ARG GLU ILE ARG GLN HIS HET MG X 170 1 HET GDP X 180 28 HET XY2 X 190 21 HETNAM MG MAGNESIUM ION HETNAM GDP GUANOSINE-5'-DIPHOSPHATE HETNAM XY2 N,N'-DIMETHYL-N-(ACETYL)-N'-(7-NITROBENZ-2-OXA-1,3- HETNAM 2 XY2 DIAZOL-4-YL)ETHYLENEDIAMINE FORMUL 2 MG MG 2+ FORMUL 3 GDP C10 H15 N5 O11 P2 FORMUL 4 XY2 C12 H15 N5 O4 FORMUL 5 HOH *263(H2 O) HELIX 1 1 GLY X 15 ASN X 26 1 12 HELIX 2 2 SER X 65 GLY X 75 1 11 HELIX 3 3 ASN X 86 ASP X 105 1 20 HELIX 4 4 GLU X 126 TYR X 137 1 12 HELIX 5 5 GLY X 151 GLN X 165 1 15 SHEET 1 XA 6 ASP X 38 ILE X 46 0 SHEET 2 XA 6 GLU X 49 ASP X 57 -1 O GLU X 49 N ILE X 46 SHEET 3 XA 6 GLU X 3 GLY X 10 1 O TYR X 4 N ASP X 54 SHEET 4 XA 6 GLY X 77 ALA X 83 1 O GLY X 77 N VAL X 7 SHEET 5 XA 6 MET X 111 ASN X 116 1 O VAL X 112 N CYS X 80 SHEET 6 XA 6 TYR X 141 THR X 144 1 O ILE X 142 N GLY X 115 LINK SG ACYS X 32 C19AXY2 X 190 1555 1555 1.76 LINK MG A MG X 170 O2BAGDP X 180 1555 1555 2.02 LINK MG A MG X 170 OG ASER X 17 1555 1555 2.21 SITE 1 AC1 6 SER X 17 GDP X 180 HOH X2012 HOH X2017 SITE 2 AC1 6 HOH X2216 HOH X2248 SITE 1 AC2 28 MET X 1 THR X 2 GLY X 13 VAL X 14 SITE 2 AC2 28 GLY X 15 LYS X 16 SER X 17 ALA X 18 SITE 3 AC2 28 PHE X 28 VAL X 29 ASP X 30 CYS X 32 SITE 4 AC2 28 ASN X 116 LYS X 117 ASP X 119 LEU X 120 SITE 5 AC2 28 SER X 145 ALA X 146 LYS X 147 MG X 170 SITE 6 AC2 28 HOH X2012 HOH X2015 HOH X2017 HOH X2052 SITE 7 AC2 28 HOH X2060 HOH X2194 HOH X2216 HOH X2217 SITE 1 AC3 11 ILE X 21 GLN X 25 CYS X 32 ASP X 33 SITE 2 AC3 11 ILE X 36 TYR X 40 GLN X 43 HOH X2065 SITE 3 AC3 11 HOH X2086 HOH X2112 HOH X2241 CRYST1 49.000 53.900 116.200 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 0.020408 0.000000 0.000000 0.00000 SCALE2 0.000000 0.018553 0.000000 0.00000 SCALE3 0.000000 0.000000 0.008606 0.00000