HEADER SIGNALING PROTEIN 19-OCT-05 2D4H TITLE CRYSTAL-STRUCTURE OF THE N-TERMINAL LARGE GTPASE DOMAIN OF HUMAN TITLE 2 GUANYLATE BINDING PROTEIN 1 (HGBP1) IN COMPLEX WITH GMP COMPND MOL_ID: 1; COMPND 2 MOLECULE: INTERFERON-INDUCED GUANYLATE-BINDING PROTEIN 1; COMPND 3 CHAIN: A, B; COMPND 4 FRAGMENT: N-TERMINAL LARGE GTPASE DOMAIN; COMPND 5 SYNONYM: GTP-BINDING PROTEIN 1, GUANINE NUCLEOTIDE-BINDING PROTEIN 1, COMPND 6 HUGBP-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: GBP1; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 511693; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21; SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PQE9 KEYWDS PROTEIN- GUANINE NUCLEOTIDE COMPLEX, SIGNALING PROTEIN EXPDTA X-RAY DIFFRACTION AUTHOR A.GHOSH,G.J.K.PRAEFCKE,L.RENAULT,A.WITTINGHOFER,C.HERRMANN REVDAT 5 24-JAN-18 2D4H 1 AUTHOR REVDAT 4 11-OCT-17 2D4H 1 REMARK REVDAT 3 13-JUL-11 2D4H 1 VERSN REVDAT 2 24-FEB-09 2D4H 1 VERSN REVDAT 1 07-MAR-06 2D4H 0 JRNL AUTH A.GHOSH,G.J.PRAEFCKE,L.RENAULT,A.WITTINGHOFER,C.HERRMANN JRNL TITL HOW GUANYLATE-BINDING PROTEINS ACHIEVE ASSEMBLY-STIMULATED JRNL TITL 2 PROCESSIVE CLEAVAGE OF GTP TO GMP. JRNL REF NATURE V. 440 101 2006 JRNL REFN ISSN 0028-0836 JRNL PMID 16511497 JRNL DOI 10.1038/NATURE04510 REMARK 1 REMARK 1 REFERENCE 1 REMARK 1 AUTH B.PRAKASH,L.RENAULT,G.J.PRAEFCKE,C.HERRMANN,A.WITTINGHOFER REMARK 1 TITL TRIPHOSPHATE STRUCTURE OF GUANYLATE-BINDING PROTEIN 1 AND REMARK 1 TITL 2 IMPLICATIONS FOR NUCLEOTIDE BINDING AND GTPASE MECHANISM. REMARK 1 REF EMBO J. V. 19 4555 2000 REMARK 1 REFN ISSN 0261-4189 REMARK 1 PMID 10970849 REMARK 1 DOI 10.1093/EMBOJ/19.17.4555 REMARK 1 REFERENCE 2 REMARK 1 AUTH B.PRAKASH,G.J.PRAEFCKE,L.RENAULT,C.HERRMANN,A.WITTINGHOFER REMARK 1 TITL STRUCTURE OF HUMAN GUANYLATE-BINDING PROTEIN 1 REPRESENTING REMARK 1 TITL 2 A UNIQUE CLASS OF GTP-BINDING PROTEINS. REMARK 1 REF NATURE V. 403 567 2000 REMARK 1 REFN ISSN 0028-0836 REMARK 1 PMID 10676968 REMARK 1 DOI 10.1038/35000617 REMARK 2 REMARK 2 RESOLUTION. 2.90 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.1.24 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) : 2.90 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 19.92 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.2 REMARK 3 NUMBER OF REFLECTIONS : 13093 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) : 0.235 REMARK 3 R VALUE (WORKING SET) : 0.233 REMARK 3 FREE R VALUE : 0.275 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.200 REMARK 3 FREE R VALUE TEST SET COUNT : 718 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) : 2.90 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.97 REMARK 3 REFLECTION IN BIN (WORKING SET) : 939 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : NULL REMARK 3 BIN R VALUE (WORKING SET) : 0.3010 REMARK 3 BIN FREE R VALUE SET COUNT : 61 REMARK 3 BIN FREE R VALUE : 0.3570 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 4611 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 48 REMARK 3 SOLVENT ATOMS : 119 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) : 33.11 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.07000 REMARK 3 B22 (A**2) : -1.38000 REMARK 3 B33 (A**2) : 1.24000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : -0.30000 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): 0.492 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.370 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 19.337 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.888 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.865 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 4762 ; 0.006 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 6447 ; 0.964 ; 1.981 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 575 ; 4.111 ; 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): 730 ; 0.055 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 3498 ; 0.002 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 2414 ; 0.203 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 202 ; 0.127 ; 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): 92 ; 0.223 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 15 ; 0.143 ; 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): 2902 ; 0.628 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 4699 ; 1.164 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1860 ; 0.854 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1748 ; 1.592 ; 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 : 1 REMARK 3 REMARK 3 NCS GROUP NUMBER : 1 REMARK 3 CHAIN NAMES : A B C D REMARK 3 NUMBER OF COMPONENTS NCS GROUP : 2 REMARK 3 COMPONENT C SSSEQI TO C SSSEQI CODE REMARK 3 1 A 7 A 313 4 REMARK 3 1 B 7 B 311 4 REMARK 3 2 A 593 A 593 1 REMARK 3 2 B 593 B 593 1 REMARK 3 GROUP CHAIN COUNT RMS WEIGHT REMARK 3 TIGHT POSITIONAL 1 A (A): 33 ; 0.09 ; 0.05 REMARK 3 MEDIUM POSITIONAL 1 A (A): 4302 ; 0.74 ; 0.50 REMARK 3 TIGHT THERMAL 1 A (A**2): 33 ; 0.25 ; 0.50 REMARK 3 MEDIUM THERMAL 1 A (A**2): 4302 ; 3.07 ; 2.00 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 7 A 316 REMARK 3 ORIGIN FOR THE GROUP (A): 9.3715 0.5149 15.1662 REMARK 3 T TENSOR REMARK 3 T11: 0.0135 T22: 0.0841 REMARK 3 T33: 0.0341 T12: 0.0050 REMARK 3 T13: 0.0166 T23: 0.0071 REMARK 3 L TENSOR REMARK 3 L11: 1.1875 L22: 1.0743 REMARK 3 L33: 0.5463 L12: 0.1558 REMARK 3 L13: 0.2151 L23: 0.0098 REMARK 3 S TENSOR REMARK 3 S11: -0.0164 S12: -0.0012 S13: 0.0125 REMARK 3 S21: 0.0372 S22: 0.0074 S23: 0.0028 REMARK 3 S31: -0.0026 S32: -0.0314 S33: 0.0090 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 7 B 311 REMARK 3 ORIGIN FOR THE GROUP (A): 5.9897 44.7562 5.5610 REMARK 3 T TENSOR REMARK 3 T11: 0.0541 T22: 0.0598 REMARK 3 T33: 0.0550 T12: 0.0398 REMARK 3 T13: -0.0036 T23: -0.0011 REMARK 3 L TENSOR REMARK 3 L11: 0.2801 L22: 2.0009 REMARK 3 L33: 1.1923 L12: -0.1982 REMARK 3 L13: -0.0306 L23: -0.2346 REMARK 3 S TENSOR REMARK 3 S11: -0.0348 S12: -0.0772 S13: 0.0128 REMARK 3 S21: -0.0226 S22: 0.0262 S23: -0.0022 REMARK 3 S31: 0.1438 S32: -0.0608 S33: 0.0086 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: NULL REMARK 4 REMARK 4 2D4H COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 20-OCT-05. REMARK 100 THE DEPOSITION ID IS D_1000024975. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 11-NOV-02 REMARK 200 TEMPERATURE (KELVIN) : 100.0 REMARK 200 PH : NULL REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : ESRF REMARK 200 BEAMLINE : BM30A REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.980 REMARK 200 MONOCHROMATOR : 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 : XDS REMARK 200 DATA SCALING SOFTWARE : XDS REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 14479 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.900 REMARK 200 RESOLUTION RANGE LOW (A) : 30.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : -3.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 97.2 REMARK 200 DATA REDUNDANCY : NULL REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : NULL REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.90 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.95 REMARK 200 COMPLETENESS FOR SHELL (%) : 96.5 REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : NULL REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: AMORE REMARK 200 STARTING MODEL: PDB ENTRY: 2B8W REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 43.17 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.16 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 20% PEG 3350, 130 MM NH4NO3, VAPOR REMARK 280 DIFFUSION, HANGING DROP, TEMPERATURE 298K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 1 21 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,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 86.72500 REMARK 290 SMTRY3 2 0.000000 0.000000 -1.000000 0.00000 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1, 2 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: TWO BIOLOGICAL ASSEMBLIES ARE 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: 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 350 REMARK 350 BIOMOLECULE: 2 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: MONOMERIC 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 A -10 REMARK 465 HIS A -9 REMARK 465 HIS A -8 REMARK 465 HIS A -7 REMARK 465 HIS A -6 REMARK 465 HIS A -5 REMARK 465 HIS A -4 REMARK 465 MET A -3 REMARK 465 ARG A -2 REMARK 465 GLY A -1 REMARK 465 SER A 0 REMARK 465 MET A 1 REMARK 465 ALA A 2 REMARK 465 SER A 3 REMARK 465 GLU A 4 REMARK 465 SER A 73 REMARK 465 HIS A 74 REMARK 465 THR A 75 REMARK 465 LYS A 106 REMARK 465 GLY A 107 REMARK 465 ASP A 108 REMARK 465 ASN A 161 REMARK 465 GLU A 162 REMARK 465 ASN A 163 REMARK 465 GLU A 164 REMARK 465 VAL A 165 REMARK 465 GLU A 166 REMARK 465 ASP A 167 REMARK 465 LEU A 317 REMARK 465 MET B -10 REMARK 465 HIS B -9 REMARK 465 HIS B -8 REMARK 465 HIS B -7 REMARK 465 HIS B -6 REMARK 465 HIS B -5 REMARK 465 HIS B -4 REMARK 465 MET B -3 REMARK 465 ARG B -2 REMARK 465 GLY B -1 REMARK 465 SER B 0 REMARK 465 MET B 1 REMARK 465 ALA B 2 REMARK 465 SER B 3 REMARK 465 GLU B 4 REMARK 465 ILE B 5 REMARK 465 THR B 70 REMARK 465 VAL B 71 REMARK 465 GLN B 72 REMARK 465 SER B 73 REMARK 465 HIS B 74 REMARK 465 THR B 75 REMARK 465 ASP B 103 REMARK 465 VAL B 104 REMARK 465 GLU B 105 REMARK 465 LYS B 106 REMARK 465 GLY B 107 REMARK 465 ASP B 108 REMARK 465 ASN B 109 REMARK 465 PRO B 158 REMARK 465 ASP B 159 REMARK 465 GLU B 160 REMARK 465 ASN B 161 REMARK 465 GLU B 162 REMARK 465 ASN B 163 REMARK 465 GLU B 164 REMARK 465 VAL B 165 REMARK 465 GLU B 166 REMARK 465 MET B 312 REMARK 465 GLU B 313 REMARK 465 ASN B 314 REMARK 465 ALA B 315 REMARK 465 VAL B 316 REMARK 465 LEU B 317 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 GLN B 110 CG CD OE1 NE2 REMARK 470 SER B 157 OG 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 ASP A 216 CB - CG - OD2 ANGL. DEV. = 5.6 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 HIS A 6 -57.58 -1.40 REMARK 500 MET A 7 90.63 -15.23 REMARK 500 VAL A 71 -79.35 -68.75 REMARK 500 LEU A 101 109.35 -56.30 REMARK 500 GLN A 110 93.00 -65.65 REMARK 500 ASN A 111 23.68 -76.26 REMARK 500 ASP A 184 17.67 45.29 REMARK 500 PHE A 185 49.22 -102.58 REMARK 500 LEU A 187 -85.59 -68.22 REMARK 500 ASP A 188 65.85 35.41 REMARK 500 ASP A 192 -61.64 -108.89 REMARK 500 THR A 212 45.26 -83.23 REMARK 500 THR A 218 36.64 -77.05 REMARK 500 PHE A 219 -35.60 -142.45 REMARK 500 LYS A 246 87.55 -64.27 REMARK 500 ALA A 248 105.30 59.00 REMARK 500 LEU A 250 45.71 79.53 REMARK 500 ASP A 308 -83.00 -93.27 REMARK 500 LEU A 309 105.31 62.09 REMARK 500 ASN B 16 45.98 -95.40 REMARK 500 THR B 17 87.49 -67.69 REMARK 500 ASN B 18 94.05 55.12 REMARK 500 ALA B 33 39.73 -93.09 REMARK 500 LYS B 63 -124.14 -78.05 REMARK 500 LEU B 101 18.35 -146.38 REMARK 500 SER B 168 -94.18 -78.86 REMARK 500 ALA B 169 -27.00 -172.59 REMARK 500 SER B 186 85.86 179.03 REMARK 500 LEU B 187 -161.56 -74.51 REMARK 500 LEU B 189 116.00 74.97 REMARK 500 THR B 218 1.43 -69.08 REMARK 500 PHE B 230 79.88 -119.29 REMARK 500 ARG B 245 126.58 -2.32 REMARK 500 SER B 283 -66.41 -27.18 REMARK 500 ASN B 289 -166.24 -121.48 REMARK 500 SER B 305 34.60 -83.58 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 5GP A 593 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE 5GP B 593 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 2B8W RELATED DB: PDB REMARK 900 SAME PROTEIN (N-TERMINAL LARGE GTPASE DOMAIN) IN COMPLEX WITH GMP/ REMARK 900 ALF4 REMARK 900 RELATED ID: 2B92 RELATED DB: PDB REMARK 900 SAME PROTEIN (N-TERMINAL LARGE GTPASE DOMAIN) IN COMPLEX WITH GDP/ REMARK 900 ALF3 REMARK 900 RELATED ID: 1DG3 RELATED DB: PDB REMARK 900 THE FULL LENGTH PROTEIN WITH H507Q MUTATION AND IN NUCLEOTIDE FREE REMARK 900 STATE REMARK 900 RELATED ID: 1F5N RELATED DB: PDB REMARK 900 THE FULL LENGTH PROTEIN WITH H507Q MUTATION AND IN COMPLEX WITH NON- REMARK 900 HYDROLYSABLE GTP ANALOGUE GPPNHP DBREF 2D4H A 1 317 UNP P32455 GBP1_HUMAN 1 317 DBREF 2D4H B 1 317 UNP P32455 GBP1_HUMAN 1 317 SEQADV 2D4H MET A -10 UNP P32455 CLONING ARTIFACT SEQADV 2D4H HIS A -9 UNP P32455 EXPRESSION TAG SEQADV 2D4H HIS A -8 UNP P32455 EXPRESSION TAG SEQADV 2D4H HIS A -7 UNP P32455 EXPRESSION TAG SEQADV 2D4H HIS A -6 UNP P32455 EXPRESSION TAG SEQADV 2D4H HIS A -5 UNP P32455 EXPRESSION TAG SEQADV 2D4H HIS A -4 UNP P32455 EXPRESSION TAG SEQADV 2D4H MET A -3 UNP P32455 CLONING ARTIFACT SEQADV 2D4H ARG A -2 UNP P32455 CLONING ARTIFACT SEQADV 2D4H GLY A -1 UNP P32455 CLONING ARTIFACT SEQADV 2D4H SER A 0 UNP P32455 CLONING ARTIFACT SEQADV 2D4H MET B -10 UNP P32455 CLONING ARTIFACT SEQADV 2D4H HIS B -9 UNP P32455 EXPRESSION TAG SEQADV 2D4H HIS B -8 UNP P32455 EXPRESSION TAG SEQADV 2D4H HIS B -7 UNP P32455 EXPRESSION TAG SEQADV 2D4H HIS B -6 UNP P32455 EXPRESSION TAG SEQADV 2D4H HIS B -5 UNP P32455 EXPRESSION TAG SEQADV 2D4H HIS B -4 UNP P32455 EXPRESSION TAG SEQADV 2D4H MET B -3 UNP P32455 CLONING ARTIFACT SEQADV 2D4H ARG B -2 UNP P32455 CLONING ARTIFACT SEQADV 2D4H GLY B -1 UNP P32455 CLONING ARTIFACT SEQADV 2D4H SER B 0 UNP P32455 CLONING ARTIFACT SEQRES 1 A 328 MET HIS HIS HIS HIS HIS HIS MET ARG GLY SER MET ALA SEQRES 2 A 328 SER GLU ILE HIS MET THR GLY PRO MET CYS LEU ILE GLU SEQRES 3 A 328 ASN THR ASN GLY ARG LEU MET ALA ASN PRO GLU ALA LEU SEQRES 4 A 328 LYS ILE LEU SER ALA ILE THR GLN PRO MET VAL VAL VAL SEQRES 5 A 328 ALA ILE VAL GLY LEU TYR ARG THR GLY LYS SER TYR LEU SEQRES 6 A 328 MET ASN LYS LEU ALA GLY LYS LYS LYS GLY PHE SER LEU SEQRES 7 A 328 GLY SER THR VAL GLN SER HIS THR LYS GLY ILE TRP MET SEQRES 8 A 328 TRP CYS VAL PRO HIS PRO LYS LYS PRO GLY HIS ILE LEU SEQRES 9 A 328 VAL LEU LEU ASP THR GLU GLY LEU GLY ASP VAL GLU LYS SEQRES 10 A 328 GLY ASP ASN GLN ASN ASP SER TRP ILE PHE ALA LEU ALA SEQRES 11 A 328 VAL LEU LEU SER SER THR PHE VAL TYR ASN SER ILE GLY SEQRES 12 A 328 THR ILE ASN GLN GLN ALA MET ASP GLN LEU TYR TYR VAL SEQRES 13 A 328 THR GLU LEU THR HIS ARG ILE ARG SER LYS SER SER PRO SEQRES 14 A 328 ASP GLU ASN GLU ASN GLU VAL GLU ASP SER ALA ASP PHE SEQRES 15 A 328 VAL SER PHE PHE PRO ASP PHE VAL TRP THR LEU ARG ASP SEQRES 16 A 328 PHE SER LEU ASP LEU GLU ALA ASP GLY GLN PRO LEU THR SEQRES 17 A 328 PRO ASP GLU TYR LEU THR TYR SER LEU LYS LEU LYS LYS SEQRES 18 A 328 GLY THR SER GLN LYS ASP GLU THR PHE ASN LEU PRO ARG SEQRES 19 A 328 LEU CYS ILE ARG LYS PHE PHE PRO LYS LYS LYS CYS PHE SEQRES 20 A 328 VAL PHE ASP ARG PRO VAL HIS ARG ARG LYS LEU ALA GLN SEQRES 21 A 328 LEU GLU LYS LEU GLN ASP GLU GLU LEU ASP PRO GLU PHE SEQRES 22 A 328 VAL GLN GLN VAL ALA ASP PHE CYS SER TYR ILE PHE SER SEQRES 23 A 328 ASN SER LYS THR LYS THR LEU SER GLY GLY ILE GLN VAL SEQRES 24 A 328 ASN GLY PRO ARG LEU GLU SER LEU VAL LEU THR TYR VAL SEQRES 25 A 328 ASN ALA ILE SER SER GLY ASP LEU PRO CYS MET GLU ASN SEQRES 26 A 328 ALA VAL LEU SEQRES 1 B 328 MET HIS HIS HIS HIS HIS HIS MET ARG GLY SER MET ALA SEQRES 2 B 328 SER GLU ILE HIS MET THR GLY PRO MET CYS LEU ILE GLU SEQRES 3 B 328 ASN THR ASN GLY ARG LEU MET ALA ASN PRO GLU ALA LEU SEQRES 4 B 328 LYS ILE LEU SER ALA ILE THR GLN PRO MET VAL VAL VAL SEQRES 5 B 328 ALA ILE VAL GLY LEU TYR ARG THR GLY LYS SER TYR LEU SEQRES 6 B 328 MET ASN LYS LEU ALA GLY LYS LYS LYS GLY PHE SER LEU SEQRES 7 B 328 GLY SER THR VAL GLN SER HIS THR LYS GLY ILE TRP MET SEQRES 8 B 328 TRP CYS VAL PRO HIS PRO LYS LYS PRO GLY HIS ILE LEU SEQRES 9 B 328 VAL LEU LEU ASP THR GLU GLY LEU GLY ASP VAL GLU LYS SEQRES 10 B 328 GLY ASP ASN GLN ASN ASP SER TRP ILE PHE ALA LEU ALA SEQRES 11 B 328 VAL LEU LEU SER SER THR PHE VAL TYR ASN SER ILE GLY SEQRES 12 B 328 THR ILE ASN GLN GLN ALA MET ASP GLN LEU TYR TYR VAL SEQRES 13 B 328 THR GLU LEU THR HIS ARG ILE ARG SER LYS SER SER PRO SEQRES 14 B 328 ASP GLU ASN GLU ASN GLU VAL GLU ASP SER ALA ASP PHE SEQRES 15 B 328 VAL SER PHE PHE PRO ASP PHE VAL TRP THR LEU ARG ASP SEQRES 16 B 328 PHE SER LEU ASP LEU GLU ALA ASP GLY GLN PRO LEU THR SEQRES 17 B 328 PRO ASP GLU TYR LEU THR TYR SER LEU LYS LEU LYS LYS SEQRES 18 B 328 GLY THR SER GLN LYS ASP GLU THR PHE ASN LEU PRO ARG SEQRES 19 B 328 LEU CYS ILE ARG LYS PHE PHE PRO LYS LYS LYS CYS PHE SEQRES 20 B 328 VAL PHE ASP ARG PRO VAL HIS ARG ARG LYS LEU ALA GLN SEQRES 21 B 328 LEU GLU LYS LEU GLN ASP GLU GLU LEU ASP PRO GLU PHE SEQRES 22 B 328 VAL GLN GLN VAL ALA ASP PHE CYS SER TYR ILE PHE SER SEQRES 23 B 328 ASN SER LYS THR LYS THR LEU SER GLY GLY ILE GLN VAL SEQRES 24 B 328 ASN GLY PRO ARG LEU GLU SER LEU VAL LEU THR TYR VAL SEQRES 25 B 328 ASN ALA ILE SER SER GLY ASP LEU PRO CYS MET GLU ASN SEQRES 26 B 328 ALA VAL LEU HET 5GP A 593 24 HET 5GP B 593 24 HETNAM 5GP GUANOSINE-5'-MONOPHOSPHATE FORMUL 3 5GP 2(C10 H14 N5 O8 P) FORMUL 5 HOH *119(H2 O) HELIX 1 1 ASN A 24 ILE A 34 1 11 HELIX 2 2 GLY A 50 GLY A 60 1 11 HELIX 3 3 ASN A 111 SER A 123 1 13 HELIX 4 4 ASN A 135 LYS A 155 1 21 HELIX 5 5 THR A 197 LEU A 206 1 10 HELIX 6 6 ASP A 216 PHE A 230 1 15 HELIX 7 7 GLN A 254 LEU A 258 5 5 HELIX 8 8 ASP A 259 SER A 277 1 19 HELIX 9 9 ASN A 289 SER A 306 1 18 HELIX 10 10 ASN B 24 ALA B 33 1 10 HELIX 11 11 GLY B 50 ALA B 59 1 10 HELIX 12 12 ASN B 111 SER B 123 1 13 HELIX 13 13 ASN B 135 SER B 156 1 22 HELIX 14 14 THR B 197 LEU B 206 1 10 HELIX 15 15 SER B 213 PHE B 230 1 18 HELIX 16 16 GLN B 254 LEU B 258 5 5 HELIX 17 17 ASP B 259 SER B 277 1 19 HELIX 18 18 ASN B 289 SER B 305 1 17 SHEET 1 A 8 ARG A 20 ALA A 23 0 SHEET 2 A 8 MET A 11 THR A 17 -1 N GLU A 15 O MET A 22 SHEET 3 A 8 GLY A 77 PRO A 84 -1 O MET A 80 N MET A 11 SHEET 4 A 8 ILE A 92 GLU A 99 -1 O LEU A 93 N VAL A 83 SHEET 5 A 8 MET A 38 GLY A 45 1 N ILE A 43 O LEU A 96 SHEET 6 A 8 THR A 125 ILE A 131 1 O VAL A 127 N VAL A 44 SHEET 7 A 8 ASP A 177 ARG A 183 1 O ASP A 177 N PHE A 126 SHEET 8 A 8 LYS A 233 VAL A 237 1 O PHE A 236 N LEU A 182 SHEET 1 B 2 PHE A 65 SER A 66 0 SHEET 2 B 2 LYS A 252 LEU A 253 -1 O LEU A 253 N PHE A 65 SHEET 1 C 8 MET B 22 ALA B 23 0 SHEET 2 C 8 MET B 11 GLU B 15 -1 N GLU B 15 O MET B 22 SHEET 3 C 8 GLY B 77 PRO B 84 -1 O MET B 80 N MET B 11 SHEET 4 C 8 ILE B 92 GLU B 99 -1 O LEU B 93 N VAL B 83 SHEET 5 C 8 MET B 38 GLY B 45 1 N ILE B 43 O LEU B 96 SHEET 6 C 8 THR B 125 ILE B 131 1 O ASN B 129 N VAL B 44 SHEET 7 C 8 ASP B 177 ARG B 183 1 O THR B 181 N TYR B 128 SHEET 8 C 8 LYS B 233 VAL B 237 1 O PHE B 236 N LEU B 182 SHEET 1 D 2 PHE B 65 SER B 66 0 SHEET 2 D 2 LYS B 252 LEU B 253 -1 O LEU B 253 N PHE B 65 LINK N2 5GP A 593 OD2 ASP A 184 1555 1555 2.47 LINK N2 5GP B 593 OD2 ASP B 184 1555 1555 2.69 SITE 1 AC1 13 ARG A 48 THR A 49 GLY A 50 LYS A 51 SITE 2 AC1 13 SER A 52 PHE A 65 SER A 66 GLY A 68 SITE 3 AC1 13 ARG A 183 ASP A 184 PRO A 241 HOH A 599 SITE 4 AC1 13 HOH A 606 SITE 1 AC2 15 ARG B 48 THR B 49 GLY B 50 LYS B 51 SITE 2 AC2 15 SER B 52 PHE B 65 SER B 66 GLY B 68 SITE 3 AC2 15 ILE B 131 ARG B 183 ASP B 184 PRO B 241 SITE 4 AC2 15 HOH B 598 HOH B 640 HOH B 649 CRYST1 39.921 173.450 49.632 90.00 110.85 90.00 P 1 21 1 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 0.025049 0.000000 0.009539 0.00000 SCALE2 0.000000 0.005765 0.000000 0.00000 SCALE3 0.000000 0.000000 0.021560 0.00000 MASTER 483 0 2 18 20 0 8 6 0 0 0 52 END