HEADER HYDROLASE 30-JUN-06 2HJG TITLE THE CRYSTAL STRUCTURE OF THE B. SUBTILIS YPHC GTPASE IN COMPLEX WITH TITLE 2 GDP COMPND MOL_ID: 1; COMPND 2 MOLECULE: GTP-BINDING PROTEIN ENGA; COMPND 3 CHAIN: A; COMPND 4 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: BACILLUS SUBTILIS; SOURCE 3 ORGANISM_TAXID: 1423; SOURCE 4 STRAIN: 168; SOURCE 5 GENE: ENGA; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: E. COLI TUNER (DE3); SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PETBLUE-1; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PMAT1 KEYWDS GTPASE ENGA KH-DOMAIN, HYDROLASE EXPDTA X-RAY DIFFRACTION AUTHOR S.P.MUENCH,L.XU,S.E.SEDELNIKOVA,D.W.RICE REVDAT 4 24-JAN-18 2HJG 1 AUTHOR REVDAT 3 24-FEB-09 2HJG 1 VERSN REVDAT 2 29-AUG-06 2HJG 1 JRNL REVDAT 1 08-AUG-06 2HJG 0 JRNL AUTH S.P.MUENCH,L.XU,S.E.SEDELNIKOVA,D.W.RICE JRNL TITL THE ESSENTIAL GTPASE YPHC DISPLAYS A MAJOR DOMAIN JRNL TITL 2 REARRANGEMENT ASSOCIATED WITH NUCLEOTIDE BINDING. JRNL REF PROC.NATL.ACAD.SCI.USA V. 103 12359 2006 JRNL REFN ISSN 0027-8424 JRNL PMID 16894162 JRNL DOI 10.1073/PNAS.0602585103 REMARK 1 REMARK 1 REFERENCE 1 REMARK 1 AUTH L.XU,S.P.MUENCH,A.ROUJEINIKOVA,S.E.SEDELNIKOVA,D.W.RICE REMARK 1 TITL CLONING, PURIFICATION AND PRELIMINARY CRYSTALLOGRAPHIC REMARK 1 TITL 2 ANALYSIS OF THE BACILLUS SUBTILIS GTPASE YPHC-GDP COMPLEX. REMARK 1 REF ACTA CRYSTALLOGR.,SECT.F V. 62 435 2006 REMARK 1 REFN ESSN 1744-3091 REMARK 1 PMID 16682769 REMARK 1 DOI 10.1107/S1744309106011456 REMARK 2 REMARK 2 RESOLUTION. 2.50 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.2.0005 REMARK 3 AUTHORS : MURSHUDOV,VAGIN,DODSON REMARK 3 REMARK 3 REFINEMENT TARGET : MAXIMUM LIKELIHOOD REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.50 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 19.96 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 3 NUMBER OF REFLECTIONS : 15364 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) : 0.218 REMARK 3 R VALUE (WORKING SET) : 0.215 REMARK 3 FREE R VALUE : 0.274 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 814 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) : 2.50 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.56 REMARK 3 REFLECTION IN BIN (WORKING SET) : 1076 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 100.0 REMARK 3 BIN R VALUE (WORKING SET) : 0.2540 REMARK 3 BIN FREE R VALUE SET COUNT : 67 REMARK 3 BIN FREE R VALUE : 0.3190 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 3147 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 57 REMARK 3 SOLVENT ATOMS : 31 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 41.46 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -2.29000 REMARK 3 B22 (A**2) : -0.61000 REMARK 3 B33 (A**2) : 2.89000 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): 0.633 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.319 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.232 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 22.068 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.932 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.895 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 3266 ; 0.010 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): 2974 ; 0.006 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 4431 ; 1.251 ; 1.977 REMARK 3 BOND ANGLES OTHERS (DEGREES): 6902 ; 0.766 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 395 ;12.283 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 148 ;33.420 ;24.459 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 554 ;16.346 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 19 ;19.100 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 502 ; 0.071 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 3573 ; 0.004 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 655 ; 0.002 ; 0.020 REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 670 ; 0.202 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): 2930 ; 0.196 ; 0.200 REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 1593 ; 0.179 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): 1768 ; 0.083 ; 0.200 REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 74 ; 0.143 ; 0.200 REMARK 3 H-BOND (X...Y) OTHERS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION REFINED ATOMS (A): 1 ; 0.089 ; 0.200 REMARK 3 POTENTIAL METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW REFINED ATOMS (A): 9 ; 0.093 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): 50 ; 0.249 ; 0.200 REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 8 ; 0.179 ; 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): 2132 ; 1.296 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 809 ; 0.062 ; 1.500 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 3221 ; 0.816 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1414 ; 1.863 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1210 ; 2.644 ; 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 : NULL REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : 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 REMARK 4 REMARK 4 2HJG COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 07-JUL-06. REMARK 100 THE DEPOSITION ID IS D_1000038412. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 27-JUN-05 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 8.0 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SRS REMARK 200 BEAMLINE : PX10.1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9794, 0.9797, 1.0094 REMARK 200 MONOCHROMATOR : DOUBLE CRYSTAL REMARK 200 SI(III)MONOCHROMATOR REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MAR CCD 165 MM REMARK 200 INTENSITY-INTEGRATION SOFTWARE : MOSFLM REMARK 200 DATA SCALING SOFTWARE : CCP4 (SCALA) REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 16253 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.500 REMARK 200 RESOLUTION RANGE LOW (A) : 30.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 2.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 200 DATA REDUNDANCY : 6.800 REMARK 200 R MERGE (I) : 0.09800 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 17.8000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.50 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.65 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.0 REMARK 200 DATA REDUNDANCY IN SHELL : 6.80 REMARK 200 R MERGE FOR SHELL (I) : 0.32000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 5.100 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 (%): 46.12 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.28 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.2M SODIUM FLOURIDE, 20% (W/V) REMARK 280 PEG3350, PH 8.0, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 290K 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 31.35550 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 55.30500 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 32.52250 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 55.30500 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 31.35550 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 32.52250 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: THE BIOLOGICAL ASSEMBLY IS A MONOMER 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 APPLY THE FOLLOWING TO CHAINS: A REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 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 MSE A 1 REMARK 465 GLY A 2 REMARK 465 ILE A 30 REMARK 465 VAL A 31 REMARK 465 GLU A 32 REMARK 465 ASP A 33 REMARK 465 THR A 34 REMARK 465 PRO A 35 REMARK 465 GLY A 36 REMARK 465 VAL A 37 REMARK 465 THR A 38 REMARK 465 ARG A 39 REMARK 465 ASP A 40 REMARK 465 THR A 58 REMARK 465 GLY A 59 REMARK 465 GLY A 60 REMARK 465 ILE A 61 REMARK 465 ASP A 62 REMARK 465 ILE A 63 REMARK 465 GLY A 64 REMARK 465 ASP A 65 REMARK 465 GLU A 66 REMARK 465 THR A 124 REMARK 465 GLU A 125 REMARK 465 MSE A 126 REMARK 465 ARG A 127 REMARK 465 ALA A 128 REMARK 465 ASN A 205 REMARK 465 VAL A 206 REMARK 465 ALA A 207 REMARK 465 GLY A 208 REMARK 465 THR A 209 REMARK 465 THR A 210 REMARK 465 ARG A 211 REMARK 465 ASP A 212 REMARK 465 ALA A 213 REMARK 470 REMARK 470 MISSING ATOM REMARK 470 THE FOLLOWING RESIDUES HAVE MISSING ATOMS (M=MODEL NUMBER; REMARK 470 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 470 I=INSERTION CODE): REMARK 470 M RES CSSEQI ATOMS REMARK 470 GLU A 26 CD OE1 OE2 REMARK 470 ARG A 73 CG CD NE CZ NH1 NH2 REMARK 470 ARG A 93 NH1 NH2 REMARK 470 ASN A 129 CG OD1 ND2 REMARK 470 LYS A 253 CE NZ REMARK 470 ARG A 277 CD NE CZ NH1 NH2 REMARK 470 LYS A 345 CD CE NZ REMARK 470 ARG A 411 NE CZ NH1 NH2 REMARK 470 LYS A 429 CD CE NZ 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 TYR A 131 O - C - N ANGL. DEV. = 12.0 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 A 13 27.82 81.86 REMARK 500 ASN A 50 30.02 -85.21 REMARK 500 PHE A 68 -80.51 -73.05 REMARK 500 TYR A 131 -85.90 -106.44 REMARK 500 ASP A 132 50.46 -115.76 REMARK 500 GLN A 222 -5.33 72.03 REMARK 500 ASP A 300 82.46 -69.61 REMARK 500 PHE A 317 64.72 -117.76 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 ASP A 122 ASN A 123 148.65 REMARK 500 ARG A 435 LYS A 436 73.92 REMARK 500 REMARK 500 REMARK: NULL REMARK 620 REMARK 620 METAL COORDINATION REMARK 620 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 620 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE): REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN A 900 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A 406 NE2 REMARK 620 2 HIS A 375 ND1 95.8 REMARK 620 3 GLU A 311 OE1 100.6 142.4 REMARK 620 N 1 2 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN A 900 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GDP A 500 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GDP A 800 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1MKY RELATED DB: PDB REMARK 900 STRUCTURAL ANALYSIS OF THE DOMAIN INTERACTIONS IN DER, A SWITCH REMARK 900 PROTEIN CONTAINING TWO GTPASE DOMAINS DBREF 2HJG A 1 436 UNP P50743 ENGA_BACSU 1 436 SEQADV 2HJG MSE A 1 UNP P50743 MET 1 MODIFIED RESIDUE SEQADV 2HJG MSE A 80 UNP P50743 MET 80 MODIFIED RESIDUE SEQADV 2HJG MSE A 89 UNP P50743 MET 89 MODIFIED RESIDUE SEQADV 2HJG MSE A 126 UNP P50743 MET 126 MODIFIED RESIDUE SEQADV 2HJG MSE A 195 UNP P50743 MET 195 MODIFIED RESIDUE SEQADV 2HJG MSE A 233 UNP P50743 MET 233 MODIFIED RESIDUE SEQADV 2HJG MSE A 306 UNP P50743 MET 306 MODIFIED RESIDUE SEQADV 2HJG MSE A 328 UNP P50743 MET 328 MODIFIED RESIDUE SEQADV 2HJG MSE A 340 UNP P50743 MET 340 MODIFIED RESIDUE SEQADV 2HJG MSE A 364 UNP P50743 MET 364 MODIFIED RESIDUE SEQADV 2HJG MSE A 369 UNP P50743 MET 369 MODIFIED RESIDUE SEQADV 2HJG MSE A 405 UNP P50743 MET 405 MODIFIED RESIDUE SEQRES 1 A 436 MSE GLY LYS PRO VAL VAL ALA ILE VAL GLY ARG PRO ASN SEQRES 2 A 436 VAL GLY LYS SER THR ILE PHE ASN ARG ILE ALA GLY GLU SEQRES 3 A 436 ARG ILE SER ILE VAL GLU ASP THR PRO GLY VAL THR ARG SEQRES 4 A 436 ASP ARG ILE TYR SER SER ALA GLU TRP LEU ASN TYR ASP SEQRES 5 A 436 PHE ASN LEU ILE ASP THR GLY GLY ILE ASP ILE GLY ASP SEQRES 6 A 436 GLU PRO PHE LEU ALA GLN ILE ARG GLN GLN ALA GLU ILE SEQRES 7 A 436 ALA MSE ASP GLU ALA ASP VAL ILE ILE PHE MSE VAL ASN SEQRES 8 A 436 GLY ARG GLU GLY VAL THR ALA ALA ASP GLU GLU VAL ALA SEQRES 9 A 436 LYS ILE LEU TYR ARG THR LYS LYS PRO VAL VAL LEU ALA SEQRES 10 A 436 VAL ASN LYS LEU ASP ASN THR GLU MSE ARG ALA ASN ILE SEQRES 11 A 436 TYR ASP PHE TYR SER LEU GLY PHE GLY GLU PRO TYR PRO SEQRES 12 A 436 ILE SER GLY THR HIS GLY LEU GLY LEU GLY ASP LEU LEU SEQRES 13 A 436 ASP ALA VAL ALA GLU HIS PHE LYS ASN ILE PRO GLU THR SEQRES 14 A 436 LYS TYR ASN GLU GLU VAL ILE GLN PHE CYS LEU ILE GLY SEQRES 15 A 436 ARG PRO ASN VAL GLY LYS SER SER LEU VAL ASN ALA MSE SEQRES 16 A 436 LEU GLY GLU GLU ARG VAL ILE VAL SER ASN VAL ALA GLY SEQRES 17 A 436 THR THR ARG ASP ALA VAL ASP THR SER PHE THR TYR ASN SEQRES 18 A 436 GLN GLN GLU PHE VAL ILE VAL ASP THR ALA GLY MSE ARG SEQRES 19 A 436 LYS LYS GLY LYS VAL TYR GLU THR THR GLU LYS TYR SER SEQRES 20 A 436 VAL LEU ARG ALA LEU LYS ALA ILE ASP ARG SER GLU VAL SEQRES 21 A 436 VAL ALA VAL VAL LEU ASP GLY GLU GLU GLY ILE ILE GLU SEQRES 22 A 436 GLN ASP LYS ARG ILE ALA GLY TYR ALA HIS GLU ALA GLY SEQRES 23 A 436 LYS ALA VAL VAL ILE VAL VAL ASN LYS TRP ASP ALA VAL SEQRES 24 A 436 ASP LYS ASP GLU SER THR MSE LYS GLU PHE GLU GLU ASN SEQRES 25 A 436 ILE ARG ASP HIS PHE GLN PHE LEU ASP TYR ALA PRO ILE SEQRES 26 A 436 LEU PHE MSE SER ALA LEU THR LYS LYS ARG ILE HIS THR SEQRES 27 A 436 LEU MSE PRO ALA ILE ILE LYS ALA SER GLU ASN HIS SER SEQRES 28 A 436 LEU ARG VAL GLN THR ASN VAL LEU ASN ASP VAL ILE MSE SEQRES 29 A 436 ASP ALA VAL ALA MSE ASN PRO THR PRO THR HIS ASN GLY SEQRES 30 A 436 SER ARG LEU LYS ILE TYR TYR ALA THR GLN VAL SER VAL SEQRES 31 A 436 LYS PRO PRO SER PHE VAL VAL PHE VAL ASN ASP PRO GLU SEQRES 32 A 436 LEU MSE HIS PHE SER TYR GLU ARG PHE LEU GLU ASN ARG SEQRES 33 A 436 ILE ARG ASP ALA PHE GLY PHE GLU GLY THR PRO ILE LYS SEQRES 34 A 436 ILE PHE ALA ARG ALA ARG LYS MODRES 2HJG MSE A 80 MET SELENOMETHIONINE MODRES 2HJG MSE A 89 MET SELENOMETHIONINE MODRES 2HJG MSE A 195 MET SELENOMETHIONINE MODRES 2HJG MSE A 233 MET SELENOMETHIONINE MODRES 2HJG MSE A 306 MET SELENOMETHIONINE MODRES 2HJG MSE A 328 MET SELENOMETHIONINE MODRES 2HJG MSE A 340 MET SELENOMETHIONINE MODRES 2HJG MSE A 364 MET SELENOMETHIONINE MODRES 2HJG MSE A 369 MET SELENOMETHIONINE MODRES 2HJG MSE A 405 MET SELENOMETHIONINE HET MSE A 80 8 HET MSE A 89 8 HET MSE A 195 8 HET MSE A 233 8 HET MSE A 306 8 HET MSE A 328 8 HET MSE A 340 8 HET MSE A 364 8 HET MSE A 369 8 HET MSE A 405 8 HET ZN A 900 1 HET GDP A 500 28 HET GDP A 800 28 HETNAM MSE SELENOMETHIONINE HETNAM ZN ZINC ION HETNAM GDP GUANOSINE-5'-DIPHOSPHATE FORMUL 1 MSE 10(C5 H11 N O2 SE) FORMUL 2 ZN ZN 2+ FORMUL 3 GDP 2(C10 H15 N5 O11 P2) FORMUL 5 HOH *31(H2 O) HELIX 1 1 GLY A 15 ILE A 23 1 9 HELIX 2 2 PRO A 67 ALA A 83 1 17 HELIX 3 3 THR A 97 TYR A 108 1 12 HELIX 4 4 PHE A 133 GLY A 137 5 5 HELIX 5 5 GLY A 151 HIS A 162 1 12 HELIX 6 6 PHE A 163 ILE A 166 5 4 HELIX 7 7 GLY A 187 GLY A 197 1 11 HELIX 8 8 ASP A 229 ARG A 234 1 6 HELIX 9 9 GLU A 244 SER A 258 1 15 HELIX 10 10 ILE A 272 ALA A 285 1 14 HELIX 11 11 LYS A 295 VAL A 299 5 5 HELIX 12 12 SER A 304 PHE A 317 1 14 HELIX 13 13 GLN A 318 ASP A 321 5 4 HELIX 14 14 ARG A 335 HIS A 337 5 3 HELIX 15 15 THR A 338 SER A 351 1 14 HELIX 16 16 GLN A 355 ASN A 370 1 16 HELIX 17 17 ASP A 401 MSE A 405 5 5 HELIX 18 18 HIS A 406 GLY A 422 1 17 SHEET 1 A 7 ALA A 24 ARG A 27 0 SHEET 2 A 7 ILE A 42 SER A 45 -1 O SER A 44 N GLY A 25 SHEET 3 A 7 ASN A 54 ILE A 56 -1 O LEU A 55 N TYR A 43 SHEET 4 A 7 VAL A 5 VAL A 9 1 N VAL A 6 O ASN A 54 SHEET 5 A 7 VAL A 85 ASN A 91 1 O ILE A 87 N ALA A 7 SHEET 6 A 7 VAL A 114 ASN A 119 1 O ALA A 117 N PHE A 88 SHEET 7 A 7 TYR A 142 PRO A 143 1 O TYR A 142 N LEU A 116 SHEET 1 B 7 VAL A 201 VAL A 203 0 SHEET 2 B 7 THR A 216 TYR A 220 -1 O THR A 219 N ILE A 202 SHEET 3 B 7 GLN A 223 ILE A 227 -1 O PHE A 225 N PHE A 218 SHEET 4 B 7 ILE A 176 ILE A 181 1 N PHE A 178 O VAL A 226 SHEET 5 B 7 VAL A 260 ASP A 266 1 O ALA A 262 N CYS A 179 SHEET 6 B 7 ALA A 288 ASN A 294 1 O VAL A 292 N LEU A 265 SHEET 7 B 7 ILE A 325 PHE A 327 1 O LEU A 326 N VAL A 293 SHEET 1 C 2 THR A 374 HIS A 375 0 SHEET 2 C 2 SER A 378 ARG A 379 -1 O SER A 378 N HIS A 375 SHEET 1 D 3 ILE A 382 SER A 389 0 SHEET 2 D 3 SER A 394 VAL A 399 -1 O PHE A 398 N TYR A 383 SHEET 3 D 3 LYS A 429 ALA A 434 1 O PHE A 431 N VAL A 397 LINK C ALA A 79 N MSE A 80 1555 1555 1.33 LINK C MSE A 80 N ASP A 81 1555 1555 1.33 LINK C PHE A 88 N MSE A 89 1555 1555 1.33 LINK C MSE A 89 N VAL A 90 1555 1555 1.33 LINK C ALA A 194 N MSE A 195 1555 1555 1.32 LINK C MSE A 195 N LEU A 196 1555 1555 1.33 LINK C GLY A 232 N MSE A 233 1555 1555 1.33 LINK C MSE A 233 N ARG A 234 1555 1555 1.33 LINK C THR A 305 N MSE A 306 1555 1555 1.33 LINK C MSE A 306 N LYS A 307 1555 1555 1.33 LINK C PHE A 327 N MSE A 328 1555 1555 1.33 LINK C MSE A 328 N SER A 329 1555 1555 1.33 LINK C LEU A 339 N MSE A 340 1555 1555 1.33 LINK C MSE A 340 N PRO A 341 1555 1555 1.34 LINK C ILE A 363 N MSE A 364 1555 1555 1.33 LINK C MSE A 364 N ASP A 365 1555 1555 1.33 LINK C ALA A 368 N MSE A 369 1555 1555 1.34 LINK C MSE A 369 N ASN A 370 1555 1555 1.33 LINK C LEU A 404 N MSE A 405 1555 1555 1.33 LINK C MSE A 405 N HIS A 406 1555 1555 1.32 LINK ZN ZN A 900 NE2 HIS A 406 1555 1555 1.97 LINK ZN ZN A 900 ND1 HIS A 375 1555 1555 2.09 LINK ZN ZN A 900 OE1 GLU A 311 1555 4466 2.19 CISPEP 1 LYS A 391 PRO A 392 0 -0.45 SITE 1 AC1 3 GLU A 311 HIS A 375 HIS A 406 SITE 1 AC2 15 ASN A 185 VAL A 186 GLY A 187 LYS A 188 SITE 2 AC2 15 SER A 189 SER A 190 LYS A 236 ASN A 294 SITE 3 AC2 15 LYS A 295 ASP A 297 SER A 329 ALA A 330 SITE 4 AC2 15 LEU A 331 ARG A 435 LYS A 436 SITE 1 AC3 13 PRO A 12 ASN A 13 VAL A 14 GLY A 15 SITE 2 AC3 13 LYS A 16 SER A 17 THR A 18 ASN A 119 SITE 3 AC3 13 LYS A 120 ASP A 122 SER A 145 GLY A 146 SITE 4 AC3 13 THR A 147 CRYST1 62.711 65.045 110.610 90.00 90.00 90.00 P 21 21 21 4 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 0.015946 0.000000 0.000000 0.00000 SCALE2 0.000000 0.015374 0.000000 0.00000 SCALE3 0.000000 0.000000 0.009041 0.00000