PDB Short entry for 1KSH HEADER SIGNALING PROTEIN/HYDROLASE 13-JAN-02 1KSH TITLE COMPLEX OF ARL2 AND PDE DELTA, CRYSTAL FORM 2 (NATIVE) COMPND MOL_ID: 1; COMPND 2 MOLECULE: ARF-LIKE PROTEIN 2; COMPND 3 CHAIN: A; COMPND 4 ENGINEERED: YES; COMPND 5 MUTATION: YES; COMPND 6 MOL_ID: 2; COMPND 7 MOLECULE: RETINAL ROD RHODOPSIN-SENSITIVE CGMP 3',5'-CYCLIC COMPND 8 PHOSPHODIESTERASE DELTA-SUBUNIT; COMPND 9 CHAIN: B; COMPND 10 SYNONYM: GMP-PDE DELTA, P17 PROTEIN; COMPND 11 EC: 3.1.4.17; COMPND 12 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: MUS MUSCULUS; SOURCE 3 ORGANISM_COMMON: HOUSE MOUSE; SOURCE 4 ORGANISM_TAXID: 10090; SOURCE 5 GENE: ARL2; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: B834; SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PGEX KG; SOURCE 11 MOL_ID: 2; SOURCE 12 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 13 ORGANISM_COMMON: HUMAN; SOURCE 14 ORGANISM_TAXID: 9606; SOURCE 15 GENE: PDE6D OR PDED; SOURCE 16 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 17 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 18 EXPRESSION_SYSTEM_STRAIN: B834; SOURCE 19 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 20 EXPRESSION_SYSTEM_PLASMID: PET28A KEYWDS SMALL GTPASE, SMALL GTP-BINDING PROTEIN, ARF FAMILY, EFFECTOR KEYWDS 2 MOLECULE, IMMUNOGLOBULINE-LIKE FOLD, GDI, SIGNALING PROTEIN- KEYWDS 3 HYDROLASE COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR M.HANZAL-BAYER,L.RENAULT,P.ROVERSI,A.WITTINGHOFER,R.C.HILLIG REVDAT 4 16-AUG-23 1KSH 1 REMARK REVDAT 3 27-OCT-21 1KSH 1 REMARK SEQADV LINK REVDAT 2 24-FEB-09 1KSH 1 VERSN REVDAT 1 08-MAY-02 1KSH 0 JRNL AUTH M.HANZAL-BAYER,L.RENAULT,P.ROVERSI,A.WITTINGHOFER,R.C.HILLIG JRNL TITL THE COMPLEX OF ARL2-GTP AND PDE DELTA: FROM STRUCTURE TO JRNL TITL 2 FUNCTION. JRNL REF EMBO J. V. 21 2095 2002 JRNL REFN ISSN 0261-4189 JRNL PMID 11980706 JRNL DOI 10.1093/EMBOJ/21.9.2095 REMARK 1 REMARK 1 REFERENCE 1 REMARK 1 AUTH L.RENAULT,M.HANZAL-BAYER,R.C.HILLIG REMARK 1 TITL COEXPRESSION, COPURIFICATION, CRYSTALLIZATION AND REMARK 1 TITL 2 PRELIMINARY X-RAY ANALYSIS OF A COMPLEX OF ARL2-GTP AND PDE REMARK 1 TITL 3 DELTA REMARK 1 REF ACTA CRYSTALLOGR.,SECT.D V. 57 1167 2001 REMARK 1 REFN ISSN 0907-4449 REMARK 1 DOI 10.1107/S0907444901009556 REMARK 1 REFERENCE 2 REMARK 1 AUTH R.C.HILLIG,M.HANZAL-BAYER,M.LINARI,J.BECKER,A.WITTINGHOFER, REMARK 1 AUTH 2 L.RENAULT REMARK 1 TITL STRUCTURAL AND BIOCHEMICAL PROPERTIES SHOW ARL3-GDP AS A REMARK 1 TITL 2 DISTINCT GTP-BINDING PROTEIN REMARK 1 REF STRUCTURE V. 8 1239 2000 REMARK 1 REFN ISSN 0969-2126 REMARK 1 DOI 10.1016/S0969-2126(00)00531-1 REMARK 1 REFERENCE 3 REMARK 1 AUTH M.LINARI,M.HANZAL-BAYER,J.BECKER REMARK 1 TITL THE DELTA SUBUNIT OF ROD SPECIFIC CYCLIC GMP REMARK 1 TITL 2 PHOSPHODIESTERASE, PDE DELTA, INTERACTS WITH THE ARF-LIKE REMARK 1 TITL 3 PROTEIN ARL3 IN A GTP SPECIFIC MANNER REMARK 1 REF FEBS LETT. V. 458 55 1999 REMARK 1 REFN ISSN 0014-5793 REMARK 1 DOI 10.1016/S0014-5793(99)01117-5 REMARK 2 REMARK 2 RESOLUTION. 1.80 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : CNS 1.0 REMARK 3 AUTHORS : BRUNGER,ADAMS,CLORE,DELANO,GROS,GROSSE- REMARK 3 : KUNSTLEVE,JIANG,KUSZEWSKI,NILGES,PANNU, REMARK 3 : READ,RICE,SIMONSON,WARREN REMARK 3 REMARK 3 REFINEMENT TARGET : ENGH & HUBER REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.80 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 34.68 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 DATA CUTOFF HIGH (ABS(F)) : 1490569.830 REMARK 3 DATA CUTOFF LOW (ABS(F)) : 0.0000 REMARK 3 COMPLETENESS (WORKING+TEST) (%) : 95.3 REMARK 3 NUMBER OF REFLECTIONS : 27584 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 SET) : 0.244 REMARK 3 FREE R VALUE : 0.271 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 9.900 REMARK 3 FREE R VALUE TEST SET COUNT : 2725 REMARK 3 ESTIMATED ERROR OF FREE R VALUE : 0.005 REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 6 REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 1.80 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.91 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 86.90 REMARK 3 REFLECTIONS IN BIN (WORKING SET) : 3678 REMARK 3 BIN R VALUE (WORKING SET) : 0.4130 REMARK 3 BIN FREE R VALUE : 0.4500 REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : 10.10 REMARK 3 BIN FREE R VALUE TEST SET COUNT : 414 REMARK 3 ESTIMATED ERROR OF BIN FREE R VALUE : 0.022 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2491 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 34 REMARK 3 SOLVENT ATOMS : 124 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 19.80 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 40.00 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 7.44000 REMARK 3 B22 (A**2) : -7.43000 REMARK 3 B33 (A**2) : -0.01000 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 COORDINATE ERROR. REMARK 3 ESD FROM LUZZATI PLOT (A) : 0.31 REMARK 3 ESD FROM SIGMAA (A) : 0.29 REMARK 3 LOW RESOLUTION CUTOFF (A) : 5.00 REMARK 3 REMARK 3 CROSS-VALIDATED ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM C-V LUZZATI PLOT (A) : 0.37 REMARK 3 ESD FROM C-V SIGMAA (A) : 0.32 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 BOND LENGTHS (A) : 0.007 REMARK 3 BOND ANGLES (DEGREES) : 1.400 REMARK 3 DIHEDRAL ANGLES (DEGREES) : 24.60 REMARK 3 IMPROPER ANGLES (DEGREES) : 0.710 REMARK 3 REMARK 3 ISOTROPIC THERMAL MODEL : ISOTROPIC REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. RMS SIGMA REMARK 3 MAIN-CHAIN BOND (A**2) : NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE (A**2) : NULL ; NULL REMARK 3 SIDE-CHAIN BOND (A**2) : NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE (A**2) : NULL ; NULL REMARK 3 REMARK 3 BULK SOLVENT MODELING. REMARK 3 METHOD USED : FLAT MODEL REMARK 3 KSOL : 0.32 REMARK 3 BSOL : 43.49 REMARK 3 REMARK 3 NCS MODEL : NULL REMARK 3 REMARK 3 NCS RESTRAINTS. RMS SIGMA/WEIGHT REMARK 3 GROUP 1 POSITIONAL (A) : NULL ; NULL REMARK 3 GROUP 1 B-FACTOR (A**2) : NULL ; NULL REMARK 3 REMARK 3 PARAMETER FILE 1 : NEW_PROTEIN_REP.PARAM REMARK 3 PARAMETER FILE 2 : ION.PARAM REMARK 3 PARAMETER FILE 3 : GDP.PARAM REMARK 3 PARAMETER FILE 4 : WATER_REP.PARAM REMARK 3 PARAMETER FILE 5 : NULL REMARK 3 TOPOLOGY FILE 1 : PROTEIN.TOP REMARK 3 TOPOLOGY FILE 2 : NULL REMARK 3 TOPOLOGY FILE 3 : NULL REMARK 3 TOPOLOGY FILE 4 : NULL REMARK 3 TOPOLOGY FILE 5 : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 1KSH COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 17-JAN-02. REMARK 100 THE DEPOSITION ID IS D_1000015296. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 23-MAR-01 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7.0 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : MPG/DESY, HAMBURG REMARK 200 BEAMLINE : BW6 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.005 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 : DENZO REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 28815 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.800 REMARK 200 RESOLUTION RANGE LOW (A) : 34.700 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.5 REMARK 200 DATA REDUNDANCY : 8.600 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : 0.04200 REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 38.8000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.80 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.84 REMARK 200 COMPLETENESS FOR SHELL (%) : 98.9 REMARK 200 DATA REDUNDANCY IN SHELL : 7.90 REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : 0.31600 REMARK 200 <I/SIGMA(I)> FOR SHELL : 4.800 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: COMBINATION OF MOLECULAR REMARK 200 REPLACEMENT AND SAD PHASING REMARK 200 SOFTWARE USED: AMORE, SHARP (SAD PHASING) REMARK 200 STARTING MODEL: ARL3-GDP, PDB ENTRY 1FZQ REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 36.20 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 1.90 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: PEG 5000 MME, HEPES, MGCL2, BETA REMARK 280 MERCAPTOETHANOL, GTP, GLYCEROL/XYLITOL AS CRYO PROTECTANT, PH REMARK 280 7.0, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 277K 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 22.22700 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 52.20450 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 32.69750 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 52.20450 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 22.22700 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 32.69750 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 DEPOSITED COORDINATES REPRESENT THE BIOLOGICAL ASSEMBLY REMARK 300 (CONSISTING OF ONE ARL2 MOLECULE (BOUND TO GDP/PO4) AND ONE PDE REMARK 300 DELTA MOLECULE). 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 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 GLY A -1 REMARK 465 SER A 0 REMARK 465 MET A 1 REMARK 465 GLY A 2 REMARK 465 LEU A 3 REMARK 465 LEU A 4 REMARK 465 THR A 5 REMARK 465 ILE A 6 REMARK 465 LEU A 7 REMARK 465 LYS A 8 REMARK 465 LYS A 9 REMARK 465 MET A 10 REMARK 465 LYS A 11 REMARK 465 GLN A 12 REMARK 465 LYS A 13 REMARK 465 GLU A 14 REMARK 465 VAL A 180 REMARK 465 PHE A 181 REMARK 465 THR A 182 REMARK 465 ALA A 183 REMARK 465 ASP A 184 REMARK 465 GLY B -1 REMARK 465 SER B 0 REMARK 465 MET B 1 REMARK 465 ALA B 111 REMARK 465 ALA B 112 REMARK 465 PRO B 113 REMARK 465 GLU B 114 REMARK 465 SER B 115 REMARK 465 GLN B 116 REMARK 465 MET B 117 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 LEU A 48 53.47 -107.78 REMARK 500 ASP A 95 68.02 -108.98 REMARK 500 ARG A 148 -1.85 -149.42 REMARK 500 THR B 35 -97.85 -116.07 REMARK 500 GLU B 36 122.37 -21.99 REMARK 500 ASP B 37 77.76 26.96 REMARK 500 LYS B 83 -114.19 60.67 REMARK 500 PRO B 119 -107.28 -32.22 REMARK 500 ALA B 120 -27.00 -176.14 REMARK 500 ASP B 136 -103.13 68.55 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 MG A 202 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 THR A 30 OG1 REMARK 620 2 THR A 47 OG1 85.6 REMARK 620 3 GDP A 201 O1B 88.7 174.3 REMARK 620 4 PO4 A 203 O1 174.4 99.4 86.3 REMARK 620 5 HOH A 205 O 93.9 89.6 90.8 88.6 REMARK 620 6 HOH A 206 O 85.6 90.2 89.4 91.9 179.5 REMARK 620 N 1 2 3 4 5 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG A 202 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PO4 A 203 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GDP A 201 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1KSG RELATED DB: PDB REMARK 900 COMPLEX OF ARL2 AND PDE DELTA, CRYSTAL FORM 1 REMARK 900 RELATED ID: 1KSJ RELATED DB: PDB REMARK 900 COMPLEX OF ARL2 AND PDE DELTA, CRYSTAL FORM 2 (SEMET) REMARK 900 RELATED ID: 1FZQ RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF MURINE ARL3-GDP REMARK 900 RELATED ID: 1DOA RELATED DB: PDB REMARK 900 STRUCTURE OF THE RHO FAMILY GTP-BINDING PROTEIN CDC42 IN COMPLEX REMARK 900 WITH THE MULTIFUNCTIONAL REGULATOR RHOGDI DBREF 1KSH A 1 184 UNP Q9D0J4 ARL2_MOUSE 1 184 DBREF 1KSH B 1 150 UNP O43924 PDE6D_HUMAN 1 150 SEQADV 1KSH GLY A -1 UNP Q9D0J4 CLONING ARTIFACT SEQADV 1KSH SER A 0 UNP Q9D0J4 CLONING ARTIFACT SEQADV 1KSH LEU A 33 UNP Q9D0J4 SER 33 ENGINEERED MUTATION SEQADV 1KSH CME A 135 UNP Q9D0J4 CYS 135 MODIFIED RESIDUE SEQADV 1KSH GLY B -1 UNP O43924 CLONING ARTIFACT SEQADV 1KSH SER B 0 UNP O43924 CLONING ARTIFACT SEQADV 1KSH CME B 86 UNP O43924 CYS 86 MODIFIED RESIDUE SEQRES 1 A 186 GLY SER MET GLY LEU LEU THR ILE LEU LYS LYS MET LYS SEQRES 2 A 186 GLN LYS GLU ARG GLU LEU ARG LEU LEU MET LEU GLY LEU SEQRES 3 A 186 ASP ASN ALA GLY LYS THR THR ILE LEU LYS LYS PHE ASN SEQRES 4 A 186 GLY GLU ASP VAL ASP THR ILE SER PRO THR LEU GLY PHE SEQRES 5 A 186 ASN ILE LYS THR LEU GLU HIS ARG GLY PHE LYS LEU ASN SEQRES 6 A 186 ILE TRP ASP VAL GLY GLY GLN LYS SER LEU ARG SER TYR SEQRES 7 A 186 TRP ARG ASN TYR PHE GLU SER THR ASP GLY LEU ILE TRP SEQRES 8 A 186 VAL VAL ASP SER ALA ASP ARG GLN ARG MET GLN ASP CYS SEQRES 9 A 186 GLN ARG GLU LEU GLN SER LEU LEU VAL GLU GLU ARG LEU SEQRES 10 A 186 ALA GLY ALA THR LEU LEU ILE PHE ALA ASN LYS GLN ASP SEQRES 11 A 186 LEU PRO GLY ALA LEU SER CME ASN ALA ILE GLN GLU ALA SEQRES 12 A 186 LEU GLU LEU ASP SER ILE ARG SER HIS HIS TRP ARG ILE SEQRES 13 A 186 GLN GLY CYS SER ALA VAL THR GLY GLU ASP LEU LEU PRO SEQRES 14 A 186 GLY ILE ASP TRP LEU LEU ASP ASP ILE SER SER ARG VAL SEQRES 15 A 186 PHE THR ALA ASP SEQRES 1 B 152 GLY SER MET SER ALA LYS ASP GLU ARG ALA ARG GLU ILE SEQRES 2 B 152 LEU ARG GLY PHE LYS LEU ASN TRP MET ASN LEU ARG ASP SEQRES 3 B 152 ALA GLU THR GLY LYS ILE LEU TRP GLN GLY THR GLU ASP SEQRES 4 B 152 LEU SER VAL PRO GLY VAL GLU HIS GLU ALA ARG VAL PRO SEQRES 5 B 152 LYS LYS ILE LEU LYS CYS LYS ALA VAL SER ARG GLU LEU SEQRES 6 B 152 ASN PHE SER SER THR GLU GLN MET GLU LYS PHE ARG LEU SEQRES 7 B 152 GLU GLN LYS VAL TYR PHE LYS GLY GLN CME LEU GLU GLU SEQRES 8 B 152 TRP PHE PHE GLU PHE GLY PHE VAL ILE PRO ASN SER THR SEQRES 9 B 152 ASN THR TRP GLN SER LEU ILE GLU ALA ALA PRO GLU SER SEQRES 10 B 152 GLN MET MET PRO ALA SER VAL LEU THR GLY ASN VAL ILE SEQRES 11 B 152 ILE GLU THR LYS PHE PHE ASP ASP ASP LEU LEU VAL SER SEQRES 12 B 152 THR SER ARG VAL ARG LEU PHE TYR VAL MODRES 1KSH CME A 135 CYS S,S-(2-HYDROXYETHYL)THIOCYSTEINE MODRES 1KSH CME B 86 CYS S,S-(2-HYDROXYETHYL)THIOCYSTEINE HET CME A 135 10 HET CME B 86 10 HET MG A 202 1 HET PO4 A 203 5 HET GDP A 201 28 HETNAM CME S,S-(2-HYDROXYETHYL)THIOCYSTEINE HETNAM MG MAGNESIUM ION HETNAM PO4 PHOSPHATE ION HETNAM GDP GUANOSINE-5'-DIPHOSPHATE FORMUL 1 CME 2(C5 H11 N O3 S2) FORMUL 3 MG MG 2+ FORMUL 4 PO4 O4 P 3- FORMUL 5 GDP C10 H15 N5 O11 P2 FORMUL 6 HOH *124(H2 O) HELIX 1 1 GLY A 28 ASN A 37 1 10 HELIX 2 2 GLN A 70 SER A 75 1 6 HELIX 3 3 TYR A 76 PHE A 81 5 6 HELIX 4 4 ASP A 95 GLN A 97 5 3 HELIX 5 5 ARG A 98 VAL A 111 1 14 HELIX 6 6 GLU A 112 ALA A 116 5 5 HELIX 7 7 SER A 134 LEU A 142 1 9 HELIX 8 8 GLU A 143 ILE A 147 5 5 HELIX 9 9 ASP A 164 SER A 178 1 15 HELIX 10 10 SER B 2 GLY B 14 1 13 HELIX 11 11 PRO B 50 CYS B 56 5 7 SHEET 1 A10 TRP A 152 GLY A 156 0 SHEET 2 A10 THR A 119 ASN A 125 1 N ILE A 122 O GLN A 155 SHEET 3 A10 GLY A 86 ASP A 92 1 N LEU A 87 O THR A 119 SHEET 4 A10 LEU A 17 LEU A 22 1 N LEU A 20 O ILE A 88 SHEET 5 A10 PHE A 60 VAL A 67 1 O TRP A 65 N MET A 21 SHEET 6 A10 PHE A 50 HIS A 57 -1 N LEU A 55 O LEU A 62 SHEET 7 A10 SER B 101 ILE B 109 1 O GLN B 106 N THR A 54 SHEET 8 A10 VAL B 59 SER B 67 -1 N PHE B 65 O ASN B 103 SHEET 9 A10 PHE B 15 ASP B 24 -1 N LYS B 16 O SER B 66 SHEET 10 A10 LYS B 29 GLY B 34 -1 O LEU B 31 N LEU B 22 SHEET 1 B 5 GLU B 46 VAL B 49 0 SHEET 2 B 5 LEU B 138 TYR B 149 1 O PHE B 148 N ALA B 47 SHEET 3 B 5 VAL B 127 ASP B 135 -1 N VAL B 127 O LEU B 147 SHEET 4 B 5 MET B 71 PHE B 82 -1 N LYS B 79 O GLU B 130 SHEET 5 B 5 GLN B 85 VAL B 97 -1 O TRP B 90 N GLN B 78 LINK C SER A 134 N CME A 135 1555 1555 1.33 LINK C CME A 135 N ASN A 136 1555 1555 1.33 LINK C GLN B 85 N CME B 86 1555 1555 1.33 LINK C CME B 86 N LEU B 87 1555 1555 1.33 LINK OG1 THR A 30 MG MG A 202 1555 1555 2.10 LINK OG1 THR A 47 MG MG A 202 1555 1555 2.23 LINK O1B GDP A 201 MG MG A 202 1555 1555 2.18 LINK MG MG A 202 O1 PO4 A 203 1555 1555 2.20 LINK MG MG A 202 O HOH A 205 1555 1555 2.14 LINK MG MG A 202 O HOH A 206 1555 1555 2.30 SITE 1 AC1 6 THR A 30 THR A 47 GDP A 201 PO4 A 203 SITE 2 AC1 6 HOH A 205 HOH A 206 SITE 1 AC2 9 ASP A 25 ASN A 26 LYS A 29 THR A 47 SITE 2 AC2 9 GLY A 68 GLY A 69 GDP A 201 MG A 202 SITE 3 AC2 9 HOH A 205 SITE 1 AC3 24 ASP A 25 ASN A 26 ALA A 27 GLY A 28 SITE 2 AC3 24 LYS A 29 THR A 30 THR A 31 ILE A 44 SITE 3 AC3 24 ASN A 125 LYS A 126 ASP A 128 LEU A 129 SITE 4 AC3 24 SER A 158 ALA A 159 VAL A 160 MG A 202 SITE 5 AC3 24 PO4 A 203 HOH A 205 HOH A 206 HOH A 210 SITE 6 AC3 24 HOH A 236 GLY B 84 GLN B 85 CME B 86 CRYST1 44.454 65.395 104.409 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 0.022495 0.000000 0.000000 0.00000 SCALE2 0.000000 0.015292 0.000000 0.00000 SCALE3 0.000000 0.000000 0.009578 0.00000