HEADER PROTEIN TRANSPORT 26-JUN-03 1OIX TITLE X-RAY STRUCTURE OF THE SMALL G PROTEIN RAB11A IN COMPLEX WITH GDP AND TITLE 2 PI COMPND MOL_ID: 1; COMPND 2 MOLECULE: RAS-RELATED PROTEIN RAB-11A; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: RESIDUES 1-173; COMPND 5 SYNONYM: RAB-11,24KG, YL8, RAB11A; COMPND 6 ENGINEERED: YES; COMPND 7 MUTATION: YES; COMPND 8 OTHER_DETAILS: DELETION MUTANT LACKING THE 43 C-TERMINAL RESIDUES 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 KEYWDS SMALL G PROTEIN, INTRACELLULAR TRAFFICKING, GTP-BINDING, LIPOPROTEIN, KEYWDS 2 PRENYLATION, PROTEIN TRANSPORT EXPDTA X-RAY DIFFRACTION AUTHOR S.PASQUALATO,F.SENIC-MATUGLIA,L.RENAULT,B.GOUD,J.SALAMERO,J.CHERFILS REVDAT 4 13-DEC-23 1OIX 1 REMARK LINK REVDAT 3 24-FEB-09 1OIX 1 VERSN REVDAT 2 27-APR-05 1OIX 1 JRNL REVDAT 1 25-JAN-05 1OIX 0 JRNL AUTH S.PASQUALATO,J.CHERFILS JRNL TITL CRYSTALLOGRAPHIC EVIDENCE FOR SUBSTRATE-ASSISTED GTP JRNL TITL 2 HYDROLYSIS BY A SMALL GTP BINDING PROTEIN JRNL REF STRUCTURE V. 13 533 2005 JRNL REFN ISSN 0969-2126 JRNL PMID 15837192 JRNL DOI 10.1016/J.STR.2005.01.014 REMARK 1 REMARK 1 REFERENCE 1 REMARK 1 AUTH S.PASQUALATO,F.SENIC-MATUGLIA,L.RENAULT,B.GOUD,J.SALAMERO, REMARK 1 AUTH 2 J.CHERFILS REMARK 1 TITL THE STRUCTURAL GDP/GTP CYCLE OF RAB11 REVEALS A NOVEL REMARK 1 TITL 2 INTERFACE INVOLVED IN THE DYNAMICS OF RECYCLING ENDOSOMES REMARK 1 REF J.BIOL.CHEM. V. 279 11480 2004 REMARK 1 REFN ISSN 0021-9258 REMARK 1 PMID 14699104 REMARK 1 DOI 10.1074/JBC.M310558200 REMARK 2 REMARK 2 RESOLUTION. 1.70 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : CNS 1.1 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 : NULL REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.70 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 30.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 DATA CUTOFF HIGH (ABS(F)) : NULL REMARK 3 DATA CUTOFF LOW (ABS(F)) : NULL REMARK 3 COMPLETENESS (WORKING+TEST) (%) : 99.1 REMARK 3 NUMBER OF REFLECTIONS : 19373 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) : 0.201 REMARK 3 FREE R VALUE : 0.229 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 8.400 REMARK 3 FREE R VALUE TEST SET COUNT : 1620 REMARK 3 ESTIMATED ERROR OF FREE R VALUE : 0.006 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) : 1.70 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.81 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 98.30 REMARK 3 REFLECTIONS IN BIN (WORKING SET) : 2845 REMARK 3 BIN R VALUE (WORKING SET) : 0.2300 REMARK 3 BIN FREE R VALUE : 0.2690 REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : 9.00 REMARK 3 BIN FREE R VALUE TEST SET COUNT : 281 REMARK 3 ESTIMATED ERROR OF BIN FREE R VALUE : 0.016 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 1330 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 35 REMARK 3 SOLVENT ATOMS : 163 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 17.10 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 24.10 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.37000 REMARK 3 B22 (A**2) : 0.37000 REMARK 3 B33 (A**2) : -0.73000 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) : 0.20 REMARK 3 ESD FROM SIGMAA (A) : 0.12 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) : 0.23 REMARK 3 ESD FROM C-V SIGMAA (A) : 0.18 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 BOND LENGTHS (A) : 0.020 REMARK 3 BOND ANGLES (DEGREES) : 2.100 REMARK 3 DIHEDRAL ANGLES (DEGREES) : 25.70 REMARK 3 IMPROPER ANGLES (DEGREES) : 3.970 REMARK 3 REMARK 3 ISOTROPIC THERMAL MODEL : NULL 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 : 0.37 REMARK 3 BSOL : 44.05 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 : PROTEIN_REP.PARAM REMARK 3 PARAMETER FILE 2 : GDP_XPLOR_PAR.TXT REMARK 3 PARAMETER FILE 3 : WATER_REP.PARAM REMARK 3 PARAMETER FILE 4 : ION.PARAM REMARK 3 PARAMETER FILE 5 : NULL REMARK 3 TOPOLOGY FILE 1 : PROTEIN.TOP REMARK 3 TOPOLOGY FILE 2 : GDP_XPLOR_TOP.TXT REMARK 3 TOPOLOGY FILE 3 : WATER.TOP REMARK 3 TOPOLOGY FILE 4 : ION.TOP REMARK 3 TOPOLOGY FILE 5 : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: FINAL ROUND OF REFINEMENT WAS CARRIED REMARK 3 OUT WITH REFMAC REMARK 4 REMARK 4 1OIX COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 26-JUN-03. REMARK 100 THE DEPOSITION ID IS D_1290012945. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 09-NOV-02 REMARK 200 TEMPERATURE (KELVIN) : 100.0 REMARK 200 PH : 6.50 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : ESRF REMARK 200 BEAMLINE : ID14-1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.934 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC CCD REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 19517 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.700 REMARK 200 RESOLUTION RANGE LOW (A) : 30.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.2 REMARK 200 DATA REDUNDANCY : 12.60 REMARK 200 R MERGE (I) : 0.04600 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 13.2000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.70 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.76 REMARK 200 COMPLETENESS FOR SHELL (%) : 97.1 REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : 0.27900 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 1OIW REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 38.19 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 1.99 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 1.4 M NACL, 0.15 M NAH2PO4, 0.15 M REMARK 280 KH2PO4,0.1 M NAMES PH6.5, PH 6.50 REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: I 4 2 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,-Y,Z REMARK 290 3555 -Y,X,Z REMARK 290 4555 Y,-X,Z REMARK 290 5555 -X,Y,-Z REMARK 290 6555 X,-Y,-Z REMARK 290 7555 Y,X,-Z REMARK 290 8555 -Y,-X,-Z REMARK 290 9555 X+1/2,Y+1/2,Z+1/2 REMARK 290 10555 -X+1/2,-Y+1/2,Z+1/2 REMARK 290 11555 -Y+1/2,X+1/2,Z+1/2 REMARK 290 12555 Y+1/2,-X+1/2,Z+1/2 REMARK 290 13555 -X+1/2,Y+1/2,-Z+1/2 REMARK 290 14555 X+1/2,-Y+1/2,-Z+1/2 REMARK 290 15555 Y+1/2,X+1/2,-Z+1/2 REMARK 290 16555 -Y+1/2,-X+1/2,-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 0.00000 REMARK 290 SMTRY1 3 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY2 4 -1.000000 0.000000 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 0.00000 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 6 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 0.00000 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 0.00000 REMARK 290 SMTRY1 9 1.000000 0.000000 0.000000 37.03850 REMARK 290 SMTRY2 9 0.000000 1.000000 0.000000 37.03850 REMARK 290 SMTRY3 9 0.000000 0.000000 1.000000 62.45250 REMARK 290 SMTRY1 10 -1.000000 0.000000 0.000000 37.03850 REMARK 290 SMTRY2 10 0.000000 -1.000000 0.000000 37.03850 REMARK 290 SMTRY3 10 0.000000 0.000000 1.000000 62.45250 REMARK 290 SMTRY1 11 0.000000 -1.000000 0.000000 37.03850 REMARK 290 SMTRY2 11 1.000000 0.000000 0.000000 37.03850 REMARK 290 SMTRY3 11 0.000000 0.000000 1.000000 62.45250 REMARK 290 SMTRY1 12 0.000000 1.000000 0.000000 37.03850 REMARK 290 SMTRY2 12 -1.000000 0.000000 0.000000 37.03850 REMARK 290 SMTRY3 12 0.000000 0.000000 1.000000 62.45250 REMARK 290 SMTRY1 13 -1.000000 0.000000 0.000000 37.03850 REMARK 290 SMTRY2 13 0.000000 1.000000 0.000000 37.03850 REMARK 290 SMTRY3 13 0.000000 0.000000 -1.000000 62.45250 REMARK 290 SMTRY1 14 1.000000 0.000000 0.000000 37.03850 REMARK 290 SMTRY2 14 0.000000 -1.000000 0.000000 37.03850 REMARK 290 SMTRY3 14 0.000000 0.000000 -1.000000 62.45250 REMARK 290 SMTRY1 15 0.000000 1.000000 0.000000 37.03850 REMARK 290 SMTRY2 15 1.000000 0.000000 0.000000 37.03850 REMARK 290 SMTRY3 15 0.000000 0.000000 -1.000000 62.45250 REMARK 290 SMTRY1 16 0.000000 -1.000000 0.000000 37.03850 REMARK 290 SMTRY2 16 -1.000000 0.000000 0.000000 37.03850 REMARK 290 SMTRY3 16 0.000000 0.000000 -1.000000 62.45250 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: PQS 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 375 REMARK 375 SPECIAL POSITION REMARK 375 THE FOLLOWING ATOMS ARE FOUND TO BE WITHIN 0.15 ANGSTROMS REMARK 375 OF A SYMMETRY RELATED ATOM AND ARE ASSUMED TO BE ON SPECIAL REMARK 375 POSITIONS. REMARK 375 REMARK 375 ATOM RES CSSEQI REMARK 375 HOH A2038 LIES ON A SPECIAL POSITION. REMARK 375 HOH A2041 LIES ON A SPECIAL POSITION. REMARK 375 HOH A2042 LIES ON A SPECIAL POSITION. REMARK 375 HOH A2116 LIES ON A SPECIAL POSITION. REMARK 375 HOH A2120 LIES ON A SPECIAL POSITION. REMARK 375 HOH A2156 LIES ON A SPECIAL POSITION. REMARK 400 REMARK 400 COMPOUND REMARK 400 ENGINEERED MUTATION GLN 70 LEU IN CHAIN A 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 -18 REMARK 465 ARG A -17 REMARK 465 GLY A -16 REMARK 465 SER A -15 REMARK 465 HIS A -14 REMARK 465 HIS A -13 REMARK 465 HIS A -12 REMARK 465 HIS A -11 REMARK 465 HIS A -10 REMARK 465 HIS A -9 REMARK 465 GLY A -8 REMARK 465 ILE A -7 REMARK 465 PRO A -6 REMARK 465 LEU A -5 REMARK 465 PRO A -4 REMARK 465 GLY A -3 REMARK 465 ARG A -2 REMARK 465 ALA A -1 REMARK 465 MET A 1 REMARK 465 GLY A 2 REMARK 465 THR A 3 REMARK 465 ARG A 4 REMARK 465 ASP A 5 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 ASP A 6 CG OD1 OD2 REMARK 470 GLU A 7 CG CD OE1 OE2 REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS IN SAME ASYMMETRIC UNIT REMARK 500 REMARK 500 THE FOLLOWING ATOMS ARE IN CLOSE CONTACT. REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI DISTANCE REMARK 500 NH1 ARG A 82 O HOH A 2090 1.97 REMARK 500 O HOH A 2029 O HOH A 2031 2.09 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS REMARK 500 REMARK 500 THE FOLLOWING ATOMS THAT ARE RELATED BY CRYSTALLOGRAPHIC REMARK 500 SYMMETRY ARE IN CLOSE CONTACT. AN ATOM LOCATED WITHIN 0.15 REMARK 500 ANGSTROMS OF A SYMMETRY RELATED ATOM IS ASSUMED TO BE ON A REMARK 500 SPECIAL POSITION AND IS, THEREFORE, LISTED IN REMARK 375 REMARK 500 INSTEAD OF REMARK 500. ATOMS WITH NON-BLANK ALTERNATE REMARK 500 LOCATION INDICATORS ARE NOT INCLUDED IN THE CALCULATIONS. REMARK 500 REMARK 500 DISTANCE CUTOFF: REMARK 500 2.2 ANGSTROMS FOR CONTACTS NOT INVOLVING HYDROGEN ATOMS REMARK 500 1.6 ANGSTROMS FOR CONTACTS INVOLVING HYDROGEN ATOMS REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI SSYMOP DISTANCE REMARK 500 O HOH A 2064 O HOH A 2154 16555 2.05 REMARK 500 O HOH A 2024 O HOH A 2132 7555 2.17 REMARK 500 REMARK 500 REMARK: NULL 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 A 82 NE - CZ - NH2 ANGL. DEV. = 3.9 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 GLU A 7 107.23 63.32 REMARK 500 LYS A 125 35.60 74.47 REMARK 500 SER A 158 -3.40 74.63 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 A2017 DISTANCE = 6.04 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 A 301 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 SER A 25 OG REMARK 620 2 THR A 43 OG1 75.4 REMARK 620 3 GDP A 201 O3B 90.8 166.1 REMARK 620 4 PO4 A 202 O1 163.9 89.1 104.8 REMARK 620 5 HOH A2069 O 88.7 87.5 94.4 85.9 REMARK 620 6 HOH A2161 O 89.7 91.3 86.5 95.3 178.2 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 PO4 A 202 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG A 301 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CL A 401 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 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: 1OIV RELATED DB: PDB REMARK 900 X-RAY STRUCTURE OF THE SMALL G PROTEIN RAB11A IN COMPLEX WITH GDP REMARK 900 RELATED ID: 1OIW RELATED DB: PDB REMARK 900 X-RAY STRUCTURE OF THE SMALL G PROTEIN RAB11A IN COMPLEX WITH REMARK 900 GTPGAMMAS REMARK 999 REMARK 999 SEQUENCE REMARK 999 RESIDUES OF THE N-TERMINAL HIS6-TAG AND LINKER WERE REMARK 999 DISORDERED AND NOT VISIBLE IN THE ELECTRON DENSITY MAP, AS REMARK 999 WELL AS THE FIRST 5 RESIDUES OF RAB11A. ASP6 AND GLU7 WERE REMARK 999 MODELLED AS ALANINES BECAUSE SIDE CHAINS WERE NOT VISIBLE. DBREF 1OIX A -18 -1 PDB 1OIX 1OIX -18 -1 DBREF 1OIX A 1 173 UNP P24410 R11A_HUMAN 1 173 SEQADV 1OIX LEU A 70 UNP P24410 GLN 70 ENGINEERED MUTATION SEQRES 1 A 191 MET ARG GLY SER HIS HIS HIS HIS HIS HIS GLY ILE PRO SEQRES 2 A 191 LEU PRO GLY ARG ALA MET GLY THR ARG ASP ASP GLU TYR SEQRES 3 A 191 ASP TYR LEU PHE LYS VAL VAL LEU ILE GLY ASP SER GLY SEQRES 4 A 191 VAL GLY LYS SER ASN LEU LEU SER ARG PHE THR ARG ASN SEQRES 5 A 191 GLU PHE ASN LEU GLU SER LYS SER THR ILE GLY VAL GLU SEQRES 6 A 191 PHE ALA THR ARG SER ILE GLN VAL ASP GLY LYS THR ILE SEQRES 7 A 191 LYS ALA GLN ILE TRP ASP THR ALA GLY LEU GLU ARG TYR SEQRES 8 A 191 ARG ALA ILE THR SER ALA TYR TYR ARG GLY ALA VAL GLY SEQRES 9 A 191 ALA LEU LEU VAL TYR ASP ILE ALA LYS HIS LEU THR TYR SEQRES 10 A 191 GLU ASN VAL GLU ARG TRP LEU LYS GLU LEU ARG ASP HIS SEQRES 11 A 191 ALA ASP SER ASN ILE VAL ILE MET LEU VAL GLY ASN LYS SEQRES 12 A 191 SER ASP LEU ARG HIS LEU ARG ALA VAL PRO THR ASP GLU SEQRES 13 A 191 ALA ARG ALA PHE ALA GLU LYS ASN GLY LEU SER PHE ILE SEQRES 14 A 191 GLU THR SER ALA LEU ASP SER THR ASN VAL GLU ALA ALA SEQRES 15 A 191 PHE GLN THR ILE LEU THR GLU ILE TYR HET GDP A 201 28 HET PO4 A 202 5 HET MG A 301 1 HET CL A 401 1 HETNAM GDP GUANOSINE-5'-DIPHOSPHATE HETNAM PO4 PHOSPHATE ION HETNAM MG MAGNESIUM ION HETNAM CL CHLORIDE ION FORMUL 2 GDP C10 H15 N5 O11 P2 FORMUL 3 PO4 O4 P 3- FORMUL 4 MG MG 2+ FORMUL 5 CL CL 1- FORMUL 6 HOH *163(H2 O) HELIX 1 1 GLY A 23 ASN A 34 1 12 HELIX 2 2 THR A 77 ARG A 82 1 6 HELIX 3 3 LYS A 95 ASN A 101 1 7 HELIX 4 4 ASN A 101 ALA A 113 1 13 HELIX 5 5 LYS A 125 ARG A 132 5 8 HELIX 6 6 PRO A 135 ASN A 146 1 12 HELIX 7 7 ASN A 160 TYR A 173 1 14 SHEET 1 AA 6 VAL A 46 VAL A 55 0 SHEET 2 AA 6 LYS A 58 THR A 67 -1 O LYS A 58 N VAL A 55 SHEET 3 AA 6 TYR A 10 GLY A 18 1 O TYR A 10 N LYS A 61 SHEET 4 AA 6 GLY A 86 ASP A 92 1 O GLY A 86 N VAL A 15 SHEET 5 AA 6 VAL A 118 ASN A 124 1 O VAL A 118 N ALA A 87 SHEET 6 AA 6 SER A 149 GLU A 152 1 O SER A 149 N LEU A 121 LINK OG SER A 25 MG MG A 301 1555 1555 2.12 LINK OG1 THR A 43 MG MG A 301 1555 1555 2.17 LINK O3B GDP A 201 MG MG A 301 1555 1555 2.04 LINK O1 PO4 A 202 MG MG A 301 1555 1555 2.06 LINK MG MG A 301 O HOH A2069 1555 1555 2.17 LINK MG MG A 301 O HOH A2161 1555 1555 2.11 SITE 1 AC1 13 SER A 20 GLY A 21 LYS A 24 SER A 42 SITE 2 AC1 13 THR A 43 ALA A 68 GLY A 69 GDP A 201 SITE 3 AC1 13 MG A 301 HOH A2069 HOH A2161 HOH A2162 SITE 4 AC1 13 HOH A2163 SITE 1 AC2 6 SER A 25 THR A 43 GDP A 201 PO4 A 202 SITE 2 AC2 6 HOH A2069 HOH A2161 SITE 1 AC3 4 ARG A 72 TYR A 73 HOH A2019 HOH A2072 SITE 1 AC4 27 GLY A 21 VAL A 22 GLY A 23 LYS A 24 SITE 2 AC4 27 SER A 25 ASN A 26 PHE A 36 ASN A 37 SITE 3 AC4 27 LEU A 38 GLU A 39 SER A 40 ASN A 124 SITE 4 AC4 27 LYS A 125 ASP A 127 LEU A 128 SER A 154 SITE 5 AC4 27 ALA A 155 LEU A 156 PO4 A 202 MG A 301 SITE 6 AC4 27 HOH A2039 HOH A2069 HOH A2079 HOH A2158 SITE 7 AC4 27 HOH A2159 HOH A2160 HOH A2161 CRYST1 74.077 74.077 124.905 90.00 90.00 90.00 I 4 2 2 16 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 0.013499 0.000000 0.000000 0.00000 SCALE2 0.000000 0.013499 0.000000 0.00000 SCALE3 0.000000 0.000000 0.008006 0.00000