HEADER RNA BINDING PROTEIN 16-SEP-24 9JKP TITLE CRYSTAL STRUCTURE OF THE STAPHYLOCOCCUS AUREUS GTPASE ERA IN COMPLEX TITLE 2 WITH GDP COMPND MOL_ID: 1; COMPND 2 MOLECULE: GTPASE ERA; COMPND 3 CHAIN: B; COMPND 4 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: STAPHYLOCOCCUS AUREUS (STRAIN NCTC 8325 / PS SOURCE 3 47); SOURCE 4 ORGANISM_TAXID: 93061; SOURCE 5 GENE: ERA, SAOUHSC_01668; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 7 EXPRESSION_SYSTEM_TAXID: 469008 KEYWDS RIBOSOME, MATURATION, GTPASE, RNA BINDING PROTEIN EXPDTA X-RAY DIFFRACTION AUTHOR E.KLOCHKOVA,A.BIKTIMIROV,D.ISLAMOV,A.BELOUSOV,M.YUSUPOV,K.USACHEV REVDAT 1 18-DEC-24 9JKP 0 JRNL AUTH E.KLOCHKOVA,A.BIKTIMIROV,D.ISLAMOV,A.BELOUSOV,S.VALIDOV, JRNL AUTH 2 M.YUSUPOV,K.USACHEV JRNL TITL CRYSTAL STRUCTURE OF THE GDP-BOUND GTPASE ERA FROM JRNL TITL 2 STAPHYLOCOCCUS AUREUS. JRNL REF BIOCHEM.BIOPHYS.RES.COMMUN. V. 735 50852 2024 JRNL REFN ESSN 1090-2104 JRNL PMID 39432921 JRNL DOI 10.1016/J.BBRC.2024.150852 REMARK 2 REMARK 2 RESOLUTION. 2.76 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.8.0430 (REFMACAT 0.4.82) REMARK 3 AUTHORS : NULL REMARK 3 REMARK 3 REFINEMENT TARGET : NULL REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.76 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 48.20 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 99.6 REMARK 3 NUMBER OF REFLECTIONS : 20348 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 CROSS-VALIDATION METHOD : FREE R-VALUE REMARK 3 FREE R VALUE TEST SET SELECTION : NULL REMARK 3 R VALUE (WORKING + TEST SET) : NULL REMARK 3 R VALUE (WORKING SET) : 0.170 REMARK 3 FREE R VALUE : 0.224 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.003 REMARK 3 FREE R VALUE TEST SET COUNT : 1018 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) : 2.76 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.83 REMARK 3 REFLECTION IN BIN (WORKING SET) : 1317 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 94.87 REMARK 3 BIN R VALUE (WORKING SET) : 0.3780 REMARK 3 BIN FREE R VALUE SET COUNT : 70 REMARK 3 BIN FREE R VALUE : 0.3720 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2404 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 29 REMARK 3 SOLVENT ATOMS : 17 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 98.10 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -3.49800 REMARK 3 B22 (A**2) : -3.49800 REMARK 3 B33 (A**2) : 6.99600 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): NULL REMARK 3 ESU BASED ON FREE R VALUE (A): 0.224 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.240 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 31.059 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.963 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.946 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 2478 ; 0.012 ; 0.012 REMARK 3 BOND LENGTHS OTHERS (A): 2417 ; 0.007 ; 0.016 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 3345 ; 2.570 ; 1.834 REMARK 3 BOND ANGLES OTHERS (DEGREES): 5584 ; 1.290 ; 1.790 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 298 ;10.179 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 15 ;14.724 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 474 ;17.819 ;10.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): NULL ; NULL ; NULL REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 374 ; 0.136 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 2828 ; 0.011 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 526 ; 0.006 ; 0.020 REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 330 ; 0.140 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): 83 ; 0.082 ; 0.200 REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 1077 ; 0.131 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 36 ; 0.072 ; 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): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 MAIN-CHAIN BOND REFINED ATOMS (A**2): 1195 ;19.715 ; 7.096 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 1196 ;19.707 ; 7.098 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 1492 ;28.861 ;12.859 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): 1493 ;28.864 ;12.860 REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1283 ;20.083 ; 7.503 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): 1283 ;20.065 ; 7.504 REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1853 ;29.524 ;13.761 REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): 1854 ;29.516 ;13.761 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): 4895 ; 4.918 ; 3.000 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 : 1 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 : B 2 B 300 REMARK 3 ORIGIN FOR THE GROUP (A): 31.9210 18.1211 -43.3582 REMARK 3 T TENSOR REMARK 3 T11: 0.0637 T22: 0.3966 REMARK 3 T33: 0.0327 T12: 0.0094 REMARK 3 T13: -0.0129 T23: 0.0670 REMARK 3 L TENSOR REMARK 3 L11: 1.6490 L22: 1.8550 REMARK 3 L33: 4.8259 L12: 0.8190 REMARK 3 L13: -2.4749 L23: -1.5349 REMARK 3 S TENSOR REMARK 3 S11: -0.0193 S12: 0.1064 S13: -0.0723 REMARK 3 S21: -0.2756 S22: 0.0579 S23: -0.0088 REMARK 3 S31: 0.1271 S32: -0.2894 S33: -0.0386 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : MASK BULK SOLVENT 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 THEIR REMARK 3 RIDING POSITIONS REMARK 4 REMARK 4 9JKP COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 24-SEP-24. REMARK 100 THE DEPOSITION ID IS D_1300051556. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 01-MAR-24 REMARK 200 TEMPERATURE (KELVIN) : 80 REMARK 200 PH : 8.3 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : LNLS SIRIUS REMARK 200 BEAMLINE : MANACA REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.977 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS 2M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : NULL REMARK 200 DATA SCALING SOFTWARE : XDS JANUARY 10, 2022 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 20362 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.760 REMARK 200 RESOLUTION RANGE LOW (A) : 48.200 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.5 REMARK 200 DATA REDUNDANCY : 2.000 REMARK 200 R MERGE (I) : 0.02500 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 15.3000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 4.12 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 4.71 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : 0.01900 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 26.40 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: NULL REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 77.38 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 5.44 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.228M TRI-POTASSIUM CITRATE PH 8.3, REMARK 280 25% W/V POLYETHYLENE GLYCOL 3350, VAPOR DIFFUSION, HANGING DROP, REMARK 280 TEMPERATURE 295.15K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 41 21 2 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 -Y+1/2,X+1/2,Z+1/4 REMARK 290 4555 Y+1/2,-X+1/2,Z+3/4 REMARK 290 5555 -X+1/2,Y+1/2,-Z+1/4 REMARK 290 6555 X+1/2,-Y+1/2,-Z+3/4 REMARK 290 7555 Y,X,-Z REMARK 290 8555 -Y,-X,-Z+1/2 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 122.45250 REMARK 290 SMTRY1 3 0.000000 -1.000000 0.000000 39.07300 REMARK 290 SMTRY2 3 1.000000 0.000000 0.000000 39.07300 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 61.22625 REMARK 290 SMTRY1 4 0.000000 1.000000 0.000000 39.07300 REMARK 290 SMTRY2 4 -1.000000 0.000000 0.000000 39.07300 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 183.67875 REMARK 290 SMTRY1 5 -1.000000 0.000000 0.000000 39.07300 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 39.07300 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 61.22625 REMARK 290 SMTRY1 6 1.000000 0.000000 0.000000 39.07300 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 39.07300 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 183.67875 REMARK 290 SMTRY1 7 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY2 7 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 8 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY2 8 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 122.45250 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 TOTAL BURIED SURFACE AREA: 770 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 15470 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -12.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: 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 MET B 1 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 B 15 NE - CZ - NH2 ANGL. DEV. = -3.2 DEGREES REMARK 500 THR B 51 OG1 - CB - CG2 ANGL. DEV. = -15.5 DEGREES REMARK 500 MET B 77 CG - SD - CE ANGL. DEV. = 16.6 DEGREES REMARK 500 ARG B 102 NE - CZ - NH1 ANGL. DEV. = 3.0 DEGREES REMARK 500 MET B 219 CG - SD - CE ANGL. DEV. = 10.7 DEGREES REMARK 500 GLU B 297 N - CA - CB ANGL. DEV. = -11.7 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 ASN B 113 48.30 -96.20 REMARK 500 LYS B 124 35.33 75.89 REMARK 500 LYS B 176 96.31 -65.08 REMARK 500 ARG B 237 112.69 76.33 REMARK 500 SER B 239 -7.49 -58.50 REMARK 500 LYS B 241 128.23 -39.55 REMARK 500 GLN B 299 157.24 174.03 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 ILE B 152 SER B 153 147.73 REMARK 500 GLU B 207 ILE B 208 140.50 REMARK 500 GLN B 240 LYS B 241 143.21 REMARK 500 GLY B 242 ILE B 243 142.51 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: PLANAR GROUPS REMARK 500 REMARK 500 PLANAR GROUPS IN THE FOLLOWING RESIDUES HAVE A TOTAL REMARK 500 RMS DISTANCE OF ALL ATOMS FROM THE BEST-FIT PLANE REMARK 500 BY MORE THAN AN EXPECTED VALUE OF 6*RMSD, WITH AN REMARK 500 RMSD 0.02 ANGSTROMS, OR AT LEAST ONE ATOM HAS REMARK 500 AN RMSD GREATER THAN THIS VALUE REMARK 500 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 500 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 M RES CSSEQI RMS TYPE REMARK 500 ARG B 15 0.11 SIDE CHAIN REMARK 500 ARG B 26 0.12 SIDE CHAIN REMARK 500 ARG B 197 0.09 SIDE CHAIN REMARK 500 ARG B 258 0.07 SIDE CHAIN REMARK 500 ARG B 281 0.15 SIDE CHAIN REMARK 500 ARG B 284 0.09 SIDE CHAIN REMARK 500 REMARK 500 REMARK: NULL DBREF 9JKP B 3 300 UNP Q2FY06 ERA_STAA8 2 299 SEQADV 9JKP MET B 1 UNP Q2FY06 INITIATING METHIONINE SEQADV 9JKP GLY B 2 UNP Q2FY06 EXPRESSION TAG SEQRES 1 B 300 MET GLY THR GLU HIS LYS SER GLY PHE VAL SER ILE ILE SEQRES 2 B 300 GLY ARG PRO ASN VAL GLY LYS SER THR PHE VAL ASN ARG SEQRES 3 B 300 VAL ILE GLY HIS LYS ILE ALA ILE MET SER ASP LYS ALA SEQRES 4 B 300 GLN THR THR ARG ASN LYS ILE GLN GLY VAL MET THR ARG SEQRES 5 B 300 ASP ASP ALA GLN ILE ILE PHE ILE ASP THR PRO GLY ILE SEQRES 6 B 300 HIS LYS PRO LYS HIS LYS LEU GLY ASP TYR MET MET LYS SEQRES 7 B 300 VAL ALA LYS ASN THR LEU SER GLU ILE ASP ALA ILE MET SEQRES 8 B 300 PHE MET VAL ASN ALA ASN GLU GLU ILE GLY ARG GLY ASP SEQRES 9 B 300 GLU TYR ILE ILE GLU MET LEU LYS ASN VAL LYS THR PRO SEQRES 10 B 300 VAL PHE LEU VAL LEU ASN LYS ILE ASP LEU VAL HIS PRO SEQRES 11 B 300 ASP GLU LEU MET PRO LYS ILE GLU GLU TYR GLN SER TYR SEQRES 12 B 300 MET ASP PHE THR GLU ILE VAL PRO ILE SER ALA LEU GLU SEQRES 13 B 300 GLY LEU ASN VAL ASP HIS PHE ILE ASP VAL LEU LYS THR SEQRES 14 B 300 TYR LEU PRO GLU GLY PRO LYS TYR TYR PRO ASP ASP GLN SEQRES 15 B 300 ILE SER ASP HIS PRO GLU GLN PHE VAL VAL GLY GLU ILE SEQRES 16 B 300 ILE ARG GLU LYS ILE LEU HIS LEU THR SER GLU GLU ILE SEQRES 17 B 300 PRO HIS ALA ILE GLY VAL ASN VAL ASP ARG MET VAL LYS SEQRES 18 B 300 GLU SER GLU ASP ARG VAL HIS ILE GLU ALA THR ILE TYR SEQRES 19 B 300 VAL GLU ARG GLY SER GLN LYS GLY ILE VAL ILE GLY LYS SEQRES 20 B 300 GLY GLY LYS LYS LEU LYS GLU VAL GLY LYS ARG ALA ARG SEQRES 21 B 300 ARG ASP ILE GLU MET LEU LEU GLY SER LYS VAL TYR LEU SEQRES 22 B 300 GLU LEU TRP VAL LYS VAL GLN ARG ASP TRP ARG ASN LYS SEQRES 23 B 300 VAL ASN PHE ILE ARG GLN ILE GLY TYR VAL GLU ASP GLN SEQRES 24 B 300 ASP HET GDP B 401 38 HET MG B 402 1 HETNAM GDP GUANOSINE-5'-DIPHOSPHATE HETNAM MG MAGNESIUM ION FORMUL 2 GDP C10 H15 N5 O11 P2 FORMUL 3 MG MG 2+ FORMUL 4 HOH *17(H2 O) HELIX 1 AA1 GLY B 19 GLY B 29 1 11 HELIX 2 AA2 ALA B 33 LYS B 38 1 6 HELIX 3 AA3 GLY B 73 ILE B 87 1 15 HELIX 4 AA4 GLY B 101 LEU B 111 1 11 HELIX 5 AA5 LYS B 124 VAL B 128 5 5 HELIX 6 AA6 HIS B 129 ASP B 131 5 3 HELIX 7 AA7 GLU B 132 SER B 142 1 11 HELIX 8 AA8 ASN B 159 TYR B 170 1 12 HELIX 9 AA9 HIS B 186 SER B 205 1 20 HELIX 10 AB1 ARG B 237 LYS B 241 5 5 HELIX 11 AB2 GLY B 246 GLY B 248 5 3 HELIX 12 AB3 GLY B 249 GLY B 268 1 20 SHEET 1 AA1 6 ILE B 46 ARG B 52 0 SHEET 2 AA1 6 ALA B 55 ILE B 60 -1 O PHE B 59 N GLN B 47 SHEET 3 AA1 6 LYS B 6 ILE B 13 1 N VAL B 10 O ILE B 60 SHEET 4 AA1 6 ALA B 89 ASN B 95 1 O MET B 91 N SER B 11 SHEET 5 AA1 6 VAL B 118 ASN B 123 1 O ASN B 123 N VAL B 94 SHEET 6 AA1 6 GLU B 148 ILE B 149 1 O GLU B 148 N LEU B 120 SHEET 1 AA2 4 ILE B 212 LYS B 221 0 SHEET 2 AA2 4 ARG B 226 VAL B 235 -1 O TYR B 234 N GLY B 213 SHEET 3 AA2 4 LYS B 270 GLN B 280 1 O TRP B 276 N ILE B 233 SHEET 4 AA2 4 ILE B 290 ASP B 298 -1 O ARG B 291 N VAL B 279 LINK O2A GDP B 401 MG MG B 402 1555 1555 2.85 CRYST1 78.146 78.146 244.905 90.00 90.00 90.00 P 41 21 2 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 0.012797 0.000000 0.000000 0.00000 SCALE2 0.000000 0.012797 0.000000 0.00000 SCALE3 0.000000 0.000000 0.004083 0.00000 CONECT 4811 4812 4813 4814 4815 CONECT 4812 4811 CONECT 4813 4811 CONECT 4814 4811 CONECT 4815 4811 4816 CONECT 4816 4815 4817 4818 4819 CONECT 4817 4816 CONECT 4818 4816 4849 CONECT 4819 4816 4820 CONECT 4820 4819 4821 4839 4840 CONECT 4821 4820 4822 4823 4841 CONECT 4822 4821 4827 CONECT 4823 4821 4824 4825 4842 CONECT 4824 4823 CONECT 4825 4823 4826 4827 4843 CONECT 4826 4825 CONECT 4827 4822 4825 4828 4844 CONECT 4828 4827 4829 4838 CONECT 4829 4828 4830 4845 CONECT 4830 4829 4831 CONECT 4831 4830 4832 4838 CONECT 4832 4831 4833 4834 CONECT 4833 4832 CONECT 4834 4832 4835 4846 CONECT 4835 4834 4836 4837 CONECT 4836 4835 4847 4848 CONECT 4837 4835 4838 CONECT 4838 4828 4831 4837 CONECT 4839 4820 CONECT 4840 4820 CONECT 4841 4821 CONECT 4842 4823 CONECT 4843 4825 CONECT 4844 4827 CONECT 4845 4829 CONECT 4846 4834 CONECT 4847 4836 CONECT 4848 4836 CONECT 4849 4818 MASTER 365 0 2 12 10 0 0 6 2450 1 39 24 END