PDB Short entry for 2GIL HEADER PROTEIN TRANSPORT 29-MAR-06 2GIL TITLE STRUCTURE OF THE EXTREMELY SLOW GTPASE RAB6A IN THE GTP BOUND FORM AT TITLE 2 1.8 RESOLUTION COMPND MOL_ID: 1; COMPND 2 MOLECULE: RAS-RELATED PROTEIN RAB-6A; COMPND 3 CHAIN: A, B, C, D; COMPND 4 FRAGMENT: RAB6AND12CD33 (RESIDUES 12-173); COMPND 5 SYNONYM: RAB-6; COMPND 6 ENGINEERED: YES 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 BL21(DE3); SOURCE 6 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 7 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 9 EXPRESSION_SYSTEM_PLASMID: PET19 KEYWDS PROTEIN-NUCLEOTIDE COMPLEX, GTPASE-FOLD, PROTEIN TRANSPORT EXPDTA X-RAY DIFFRACTION AUTHOR T.BERGBREDE,O.PYLYPENKO,A.RAK,K.ALEXANDROV REVDAT 4 30-AUG-23 2GIL 1 REMARK LINK REVDAT 3 18-OCT-17 2GIL 1 REMARK REVDAT 2 24-FEB-09 2GIL 1 VERSN REVDAT 1 27-JUN-06 2GIL 0 JRNL AUTH T.BERGBREDE,O.PYLYPENKO,A.RAK,A.ALEXANDROV JRNL TITL STRUCTURE OF THE EXTREMELY SLOW GTPASE RAB6A IN THE GTP JRNL TITL 2 BOUND FORM AT 1.8 RESOLUTION JRNL REF J.STRUCT.BIOL. V. 152 235 2005 JRNL REFN ISSN 1047-8477 JRNL PMID 16332443 JRNL DOI 10.1016/J.JSB.2005.10.001 REMARK 2 REMARK 2 RESOLUTION. 1.82 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.2.0019 REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN REMARK 3 REMARK 3 REFINEMENT TARGET : ENGH & HUBER REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.82 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 19.05 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 3 NUMBER OF REFLECTIONS : 46121 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) : 0.208 REMARK 3 R VALUE (WORKING SET) : 0.205 REMARK 3 FREE R VALUE : 0.277 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 2428 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) : 1.82 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.87 REMARK 3 REFLECTION IN BIN (WORKING SET) : 1492 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 52.00 REMARK 3 BIN R VALUE (WORKING SET) : 0.2110 REMARK 3 BIN FREE R VALUE SET COUNT : 79 REMARK 3 BIN FREE R VALUE : 0.2590 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 5194 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 132 REMARK 3 SOLVENT ATOMS : 739 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 25.99 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 26.73 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : NULL REMARK 3 B22 (A**2) : NULL REMARK 3 B33 (A**2) : NULL REMARK 3 B12 (A**2) : NULL REMARK 3 B13 (A**2) : NULL REMARK 3 B23 (A**2) : NULL REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.201 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.187 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.124 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 3.892 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.928 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.878 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 5413 ; 0.012 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 7336 ; 1.400 ; 1.981 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 642 ; 5.799 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 253 ;36.997 ;23.636 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 979 ;15.831 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 47 ;20.478 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 842 ; 0.088 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 3955 ; 0.005 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 2800 ; 0.207 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 3709 ; 0.306 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 605 ; 0.167 ; 0.200 REMARK 3 H-BOND (X...Y) OTHERS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION REFINED ATOMS (A): 4 ; 0.081 ; 0.200 REMARK 3 POTENTIAL METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW REFINED ATOMS (A): 89 ; 0.204 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 46 ; 0.190 ; 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): 3310 ; 0.814 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 5196 ; 1.343 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 2444 ; 1.894 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 2140 ; 2.835 ; 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 : 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 2GIL COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 03-APR-06. REMARK 100 THE DEPOSITION ID IS D_1000037163. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : NULL 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 : ESRF REMARK 200 BEAMLINE : ID14-4 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.0398 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 4 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : PRODC REMARK 200 DATA SCALING SOFTWARE : XDS REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 48538 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.820 REMARK 200 RESOLUTION RANGE LOW (A) : 19.050 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 87.7 REMARK 200 DATA REDUNDANCY : 1.900 REMARK 200 R MERGE (I) : 0.05600 REMARK 200 R SYM (I) : 0.03200 REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 17.4400 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.82 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.90 REMARK 200 COMPLETENESS FOR SHELL (%) : 52.2 REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : 0.24900 REMARK 200 R SYM FOR SHELL (I) : 0.14600 REMARK 200 <I/SIGMA(I)> FOR SHELL : 4.300 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 1D5C REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 41.85 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.12 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 100MM TRISHCL, 1M LICL, 32% (W/V) REMARK 280 POLYETHYLENE GLYCOL 1000, 3.3MM NONYL-D-GLUCOSIDE, PH 8.0, VAPOR REMARK 280 DIFFUSION, HANGING DROP, TEMPERATURE 293K 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 62.42650 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, 3, 4 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 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 350 REMARK 350 BIOMOLECULE: 3 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: MONOMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: C 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: 4 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: MONOMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: D 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 LYS A 13 REMARK 465 LYS C 13 REMARK 465 LYS D 13 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 TYR B 56 CG CD1 CD2 CE1 CE2 CZ OH REMARK 470 ASP B 59 CG OD1 OD2 REMARK 470 ARG B 60 CG CD NE CZ NH1 NH2 REMARK 470 LEU D 78 CG CD1 CD2 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 D 94 CB - CG - OD1 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 GLU A 58 68.75 35.23 REMARK 500 ARG A 76 47.48 -94.10 REMARK 500 VAL A 119 146.70 -170.53 REMARK 500 LYS A 127 35.92 77.80 REMARK 500 LEU B 57 -53.19 -120.07 REMARK 500 GLU B 58 -99.55 -104.64 REMARK 500 ASP B 118 37.88 -86.13 REMARK 500 LYS B 127 32.42 75.71 REMARK 500 LYS C 53 137.09 -174.48 REMARK 500 GLU C 58 66.03 37.60 REMARK 500 ASP C 118 45.74 -85.14 REMARK 500 LYS C 127 31.77 85.78 REMARK 500 LEU D 57 -88.02 -133.54 REMARK 500 ASP D 59 -48.03 -139.61 REMARK 500 ASP D 118 47.06 -99.03 REMARK 500 LYS D 127 34.49 82.16 REMARK 500 ASN D 162 -0.09 72.04 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 A1201 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 THR A 27 OG1 REMARK 620 2 THR A 45 OG1 83.3 REMARK 620 3 GTP A1200 O2G 169.4 87.5 REMARK 620 4 GTP A1200 O2B 94.9 170.0 93.4 REMARK 620 5 HOH A1304 O 94.6 93.1 91.0 96.8 REMARK 620 6 HOH A1305 O 86.0 86.8 88.4 83.3 179.3 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG B2201 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 THR B 27 OG1 REMARK 620 2 THR B 45 OG1 86.3 REMARK 620 3 GTP B2200 O2G 175.0 89.2 REMARK 620 4 GTP B2200 O2B 89.8 172.4 94.5 REMARK 620 5 HOH B2335 O 87.3 86.4 90.2 87.0 REMARK 620 6 HOH B2336 O 86.1 94.3 96.4 91.9 173.3 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG C3201 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 THR C 27 OG1 REMARK 620 2 THR C 45 OG1 85.2 REMARK 620 3 GTP C3200 O2G 174.8 91.0 REMARK 620 4 GTP C3200 O2B 92.7 177.8 91.2 REMARK 620 5 HOH C3331 O 92.9 91.4 90.7 88.8 REMARK 620 6 HOH C3332 O 87.8 89.4 88.7 90.4 179.0 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG D4201 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 THR D 27 OG1 REMARK 620 2 THR D 45 OG1 84.8 REMARK 620 3 GTP D4200 O2G 176.3 91.5 REMARK 620 4 GTP D4200 O2B 92.2 176.7 91.5 REMARK 620 5 HOH D4329 O 79.5 90.3 100.1 88.0 REMARK 620 6 HOH D4330 O 92.4 92.8 88.4 88.5 171.0 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 1201 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG B 2201 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG C 3201 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG D 4201 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GTP A 1200 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GTP B 2200 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GTP C 3200 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GTP D 4200 DBREF 2GIL A 13 174 UNP P20340 RAB6A_HUMAN 12 173 DBREF 2GIL B 13 174 UNP P20340 RAB6A_HUMAN 12 173 DBREF 2GIL C 13 174 UNP P20340 RAB6A_HUMAN 12 173 DBREF 2GIL D 13 174 UNP P20340 RAB6A_HUMAN 12 173 SEQRES 1 A 162 LYS PHE LYS LEU VAL PHE LEU GLY GLU GLN SER VAL GLY SEQRES 2 A 162 LYS THR SER LEU ILE THR ARG PHE MET TYR ASP SER PHE SEQRES 3 A 162 ASP ASN THR TYR GLN ALA THR ILE GLY ILE ASP PHE LEU SEQRES 4 A 162 SER LYS THR MET TYR LEU GLU ASP ARG THR VAL ARG LEU SEQRES 5 A 162 GLN LEU TRP ASP THR ALA GLY GLN GLU ARG PHE ARG SER SEQRES 6 A 162 LEU ILE PRO SER TYR ILE ARG ASP SER THR VAL ALA VAL SEQRES 7 A 162 VAL VAL TYR ASP ILE THR ASN VAL ASN SER PHE GLN GLN SEQRES 8 A 162 THR THR LYS TRP ILE ASP ASP VAL ARG THR GLU ARG GLY SEQRES 9 A 162 SER ASP VAL ILE ILE MET LEU VAL GLY ASN LYS THR ASP SEQRES 10 A 162 LEU ALA ASP LYS ARG GLN VAL SER ILE GLU GLU GLY GLU SEQRES 11 A 162 ARG LYS ALA LYS GLU LEU ASN VAL MET PHE ILE GLU THR SEQRES 12 A 162 SER ALA LYS ALA GLY TYR ASN VAL LYS GLN LEU PHE ARG SEQRES 13 A 162 ARG VAL ALA ALA ALA LEU SEQRES 1 B 162 LYS PHE LYS LEU VAL PHE LEU GLY GLU GLN SER VAL GLY SEQRES 2 B 162 LYS THR SER LEU ILE THR ARG PHE MET TYR ASP SER PHE SEQRES 3 B 162 ASP ASN THR TYR GLN ALA THR ILE GLY ILE ASP PHE LEU SEQRES 4 B 162 SER LYS THR MET TYR LEU GLU ASP ARG THR VAL ARG LEU SEQRES 5 B 162 GLN LEU TRP ASP THR ALA GLY GLN GLU ARG PHE ARG SER SEQRES 6 B 162 LEU ILE PRO SER TYR ILE ARG ASP SER THR VAL ALA VAL SEQRES 7 B 162 VAL VAL TYR ASP ILE THR ASN VAL ASN SER PHE GLN GLN SEQRES 8 B 162 THR THR LYS TRP ILE ASP ASP VAL ARG THR GLU ARG GLY SEQRES 9 B 162 SER ASP VAL ILE ILE MET LEU VAL GLY ASN LYS THR ASP SEQRES 10 B 162 LEU ALA ASP LYS ARG GLN VAL SER ILE GLU GLU GLY GLU SEQRES 11 B 162 ARG LYS ALA LYS GLU LEU ASN VAL MET PHE ILE GLU THR SEQRES 12 B 162 SER ALA LYS ALA GLY TYR ASN VAL LYS GLN LEU PHE ARG SEQRES 13 B 162 ARG VAL ALA ALA ALA LEU SEQRES 1 C 162 LYS PHE LYS LEU VAL PHE LEU GLY GLU GLN SER VAL GLY SEQRES 2 C 162 LYS THR SER LEU ILE THR ARG PHE MET TYR ASP SER PHE SEQRES 3 C 162 ASP ASN THR TYR GLN ALA THR ILE GLY ILE ASP PHE LEU SEQRES 4 C 162 SER LYS THR MET TYR LEU GLU ASP ARG THR VAL ARG LEU SEQRES 5 C 162 GLN LEU TRP ASP THR ALA GLY GLN GLU ARG PHE ARG SER SEQRES 6 C 162 LEU ILE PRO SER TYR ILE ARG ASP SER THR VAL ALA VAL SEQRES 7 C 162 VAL VAL TYR ASP ILE THR ASN VAL ASN SER PHE GLN GLN SEQRES 8 C 162 THR THR LYS TRP ILE ASP ASP VAL ARG THR GLU ARG GLY SEQRES 9 C 162 SER ASP VAL ILE ILE MET LEU VAL GLY ASN LYS THR ASP SEQRES 10 C 162 LEU ALA ASP LYS ARG GLN VAL SER ILE GLU GLU GLY GLU SEQRES 11 C 162 ARG LYS ALA LYS GLU LEU ASN VAL MET PHE ILE GLU THR SEQRES 12 C 162 SER ALA LYS ALA GLY TYR ASN VAL LYS GLN LEU PHE ARG SEQRES 13 C 162 ARG VAL ALA ALA ALA LEU SEQRES 1 D 162 LYS PHE LYS LEU VAL PHE LEU GLY GLU GLN SER VAL GLY SEQRES 2 D 162 LYS THR SER LEU ILE THR ARG PHE MET TYR ASP SER PHE SEQRES 3 D 162 ASP ASN THR TYR GLN ALA THR ILE GLY ILE ASP PHE LEU SEQRES 4 D 162 SER LYS THR MET TYR LEU GLU ASP ARG THR VAL ARG LEU SEQRES 5 D 162 GLN LEU TRP ASP THR ALA GLY GLN GLU ARG PHE ARG SER SEQRES 6 D 162 LEU ILE PRO SER TYR ILE ARG ASP SER THR VAL ALA VAL SEQRES 7 D 162 VAL VAL TYR ASP ILE THR ASN VAL ASN SER PHE GLN GLN SEQRES 8 D 162 THR THR LYS TRP ILE ASP ASP VAL ARG THR GLU ARG GLY SEQRES 9 D 162 SER ASP VAL ILE ILE MET LEU VAL GLY ASN LYS THR ASP SEQRES 10 D 162 LEU ALA ASP LYS ARG GLN VAL SER ILE GLU GLU GLY GLU SEQRES 11 D 162 ARG LYS ALA LYS GLU LEU ASN VAL MET PHE ILE GLU THR SEQRES 12 D 162 SER ALA LYS ALA GLY TYR ASN VAL LYS GLN LEU PHE ARG SEQRES 13 D 162 ARG VAL ALA ALA ALA LEU HET MG A1201 1 HET GTP A1200 32 HET MG B2201 1 HET GTP B2200 32 HET MG C3201 1 HET GTP C3200 32 HET MG D4201 1 HET GTP D4200 32 HETNAM MG MAGNESIUM ION HETNAM GTP GUANOSINE-5'-TRIPHOSPHATE FORMUL 5 MG 4(MG 2+) FORMUL 6 GTP 4(C10 H16 N5 O14 P3) FORMUL 13 HOH *739(H2 O) HELIX 1 1 GLY A 25 ASP A 36 1 12 HELIX 2 2 GLN A 72 ARG A 76 5 5 HELIX 3 3 LEU A 78 ASP A 85 1 8 HELIX 4 4 ASN A 97 GLN A 103 1 7 HELIX 5 5 GLN A 103 GLY A 116 1 14 HELIX 6 6 LEU A 130 ARG A 134 5 5 HELIX 7 7 SER A 137 LEU A 148 1 12 HELIX 8 8 ASN A 162 ALA A 172 1 11 HELIX 9 9 GLY B 25 ASP B 36 1 12 HELIX 10 10 GLN B 72 LEU B 78 5 7 HELIX 11 11 ILE B 79 SER B 86 1 8 HELIX 12 12 ASN B 97 GLN B 103 1 7 HELIX 13 13 GLN B 103 GLY B 116 1 14 HELIX 14 14 LEU B 130 ARG B 134 5 5 HELIX 15 15 SER B 137 ASN B 149 1 13 HELIX 16 16 ASN B 162 LEU B 174 1 13 HELIX 17 17 GLY C 25 ASP C 36 1 12 HELIX 18 18 GLN C 72 SER C 77 5 6 HELIX 19 19 LEU C 78 SER C 86 1 9 HELIX 20 20 ASN C 97 GLN C 103 1 7 HELIX 21 21 GLN C 103 GLY C 116 1 14 HELIX 22 22 LEU C 130 ARG C 134 5 5 HELIX 23 23 SER C 137 ASN C 149 1 13 HELIX 24 24 ASN C 162 ALA C 172 1 11 HELIX 25 25 GLY D 25 ASP D 36 1 12 HELIX 26 26 GLN D 72 LEU D 78 5 7 HELIX 27 27 ILE D 79 ASP D 85 1 7 HELIX 28 28 ASN D 97 GLN D 103 1 7 HELIX 29 29 GLN D 103 GLY D 116 1 14 HELIX 30 30 LEU D 130 ARG D 134 5 5 HELIX 31 31 SER D 137 ASN D 149 1 13 HELIX 32 32 ASN D 162 LEU D 174 1 13 SHEET 1 A12 MET A 151 GLU A 154 0 SHEET 2 A12 ILE A 120 ASN A 126 1 N ILE A 121 O MET A 151 SHEET 3 A12 VAL A 88 ASP A 94 1 N VAL A 91 O VAL A 124 SHEET 4 A12 LYS A 15 LEU A 19 1 N LEU A 19 O VAL A 90 SHEET 5 A12 THR A 61 ASP A 68 1 O TRP A 67 N LEU A 16 SHEET 6 A12 ASP A 49 TYR A 56 -1 N LEU A 51 O LEU A 66 SHEET 7 A12 ILE B 48 TYR B 56 -1 O SER B 52 N PHE A 50 SHEET 8 A12 THR B 61 THR B 69 -1 O LEU B 66 N LEU B 51 SHEET 9 A12 PHE B 14 LEU B 19 1 N PHE B 14 O GLN B 65 SHEET 10 A12 VAL B 88 ASP B 94 1 O VAL B 90 N VAL B 17 SHEET 11 A12 ILE B 120 ASN B 126 1 O VAL B 124 N VAL B 91 SHEET 12 A12 MET B 151 GLU B 154 1 O MET B 151 N ILE B 121 SHEET 1 B12 MET C 151 THR C 155 0 SHEET 2 B12 ILE C 120 ASN C 126 1 N ILE C 121 O MET C 151 SHEET 3 B12 VAL C 88 ASP C 94 1 N TYR C 93 O VAL C 124 SHEET 4 B12 LYS C 15 LEU C 19 1 N LEU C 19 O VAL C 90 SHEET 5 B12 ARG C 60 THR C 69 1 O TRP C 67 N LEU C 16 SHEET 6 B12 ILE C 48 LEU C 57 -1 N ASP C 49 O ASP C 68 SHEET 7 B12 ILE D 48 TYR D 56 -1 O PHE D 50 N SER C 52 SHEET 8 B12 THR D 61 THR D 69 -1 O ASP D 68 N ASP D 49 SHEET 9 B12 LYS D 15 GLY D 20 1 N LEU D 16 O TRP D 67 SHEET 10 B12 VAL D 88 ASP D 94 1 O VAL D 90 N VAL D 17 SHEET 11 B12 ILE D 120 ASN D 126 1 O ASN D 126 N TYR D 93 SHEET 12 B12 MET D 151 GLU D 154 1 O MET D 151 N ILE D 121 LINK OG1 THR A 27 MG MG A1201 1555 1555 2.01 LINK OG1 THR A 45 MG MG A1201 1555 1555 2.17 LINK O2G GTP A1200 MG MG A1201 1555 1555 1.89 LINK O2B GTP A1200 MG MG A1201 1555 1555 1.99 LINK MG MG A1201 O HOH A1304 1555 1555 2.09 LINK MG MG A1201 O HOH A1305 1555 1555 2.13 LINK OG1 THR B 27 MG MG B2201 1555 1555 2.06 LINK OG1 THR B 45 MG MG B2201 1555 1555 2.13 LINK O2G GTP B2200 MG MG B2201 1555 1555 2.01 LINK O2B GTP B2200 MG MG B2201 1555 1555 2.06 LINK MG MG B2201 O HOH B2335 1555 1555 2.11 LINK MG MG B2201 O HOH B2336 1555 1555 2.04 LINK OG1 THR C 27 MG MG C3201 1555 1555 2.05 LINK OG1 THR C 45 MG MG C3201 1555 1555 2.17 LINK O2G GTP C3200 MG MG C3201 1555 1555 1.87 LINK O2B GTP C3200 MG MG C3201 1555 1555 2.09 LINK MG MG C3201 O HOH C3331 1555 1555 2.18 LINK MG MG C3201 O HOH C3332 1555 1555 2.03 LINK OG1 THR D 27 MG MG D4201 1555 1555 2.13 LINK OG1 THR D 45 MG MG D4201 1555 1555 2.10 LINK O2G GTP D4200 MG MG D4201 1555 1555 1.96 LINK O2B GTP D4200 MG MG D4201 1555 1555 2.05 LINK MG MG D4201 O HOH D4329 1555 1555 2.10 LINK MG MG D4201 O HOH D4330 1555 1555 2.10 SITE 1 AC1 5 THR A 27 THR A 45 GTP A1200 HOH A1304 SITE 2 AC1 5 HOH A1305 SITE 1 AC2 5 THR B 27 THR B 45 GTP B2200 HOH B2335 SITE 2 AC2 5 HOH B2336 SITE 1 AC3 5 THR C 27 THR C 45 GTP C3200 HOH C3331 SITE 2 AC3 5 HOH C3332 SITE 1 AC4 5 THR D 27 THR D 45 GTP D4200 HOH D4329 SITE 2 AC4 5 HOH D4330 SITE 1 AC5 27 GLN A 22 SER A 23 VAL A 24 GLY A 25 SITE 2 AC5 27 LYS A 26 THR A 27 SER A 28 PHE A 38 SITE 3 AC5 27 ASP A 39 ASN A 40 TYR A 42 ALA A 44 SITE 4 AC5 27 THR A 45 GLY A 71 ASN A 126 LYS A 127 SITE 5 AC5 27 ASP A 129 LEU A 130 SER A 156 ALA A 157 SITE 6 AC5 27 LYS A 158 MG A1201 HOH A1211 HOH A1222 SITE 7 AC5 27 HOH A1225 HOH A1304 HOH A1305 SITE 1 AC6 30 GLN B 22 SER B 23 VAL B 24 GLY B 25 SITE 2 AC6 30 LYS B 26 THR B 27 SER B 28 PHE B 38 SITE 3 AC6 30 ASP B 39 ASN B 40 TYR B 42 THR B 45 SITE 4 AC6 30 GLY B 71 ASN B 126 LYS B 127 ASP B 129 SITE 5 AC6 30 LEU B 130 SER B 156 ALA B 157 LYS B 158 SITE 6 AC6 30 MG B2201 HOH B2203 HOH B2215 HOH B2233 SITE 7 AC6 30 HOH B2261 HOH B2303 HOH B2304 HOH B2335 SITE 8 AC6 30 HOH B2336 TYR D 161 SITE 1 AC7 29 GLN C 22 SER C 23 VAL C 24 GLY C 25 SITE 2 AC7 29 LYS C 26 THR C 27 SER C 28 PHE C 38 SITE 3 AC7 29 ASP C 39 ASN C 40 TYR C 42 ALA C 44 SITE 4 AC7 29 THR C 45 GLY C 71 ASN C 126 LYS C 127 SITE 5 AC7 29 ASP C 129 LEU C 130 SER C 156 ALA C 157 SITE 6 AC7 29 LYS C 158 MG C3201 HOH C3207 HOH C3212 SITE 7 AC7 29 HOH C3222 HOH C3242 HOH C3243 HOH C3331 SITE 8 AC7 29 HOH C3332 SITE 1 AC8 29 TYR B 161 GLN D 22 SER D 23 VAL D 24 SITE 2 AC8 29 GLY D 25 LYS D 26 THR D 27 SER D 28 SITE 3 AC8 29 PHE D 38 ASP D 39 ASN D 40 TYR D 42 SITE 4 AC8 29 THR D 45 GLY D 71 ASN D 126 LYS D 127 SITE 5 AC8 29 ASP D 129 LEU D 130 SER D 156 ALA D 157 SITE 6 AC8 29 LYS D 158 MG D4201 HOH D4205 HOH D4224 SITE 7 AC8 29 HOH D4229 HOH D4261 HOH D4329 HOH D4330 SITE 8 AC8 29 HOH D4334 CRYST1 40.008 124.853 66.162 90.00 107.57 90.00 P 1 21 1 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 0.024995 -0.000001 0.007914 0.00000 SCALE2 0.000000 0.008009 0.000000 0.00000 SCALE3 0.000000 0.000000 0.015854 0.00000