HEADER SIGNALING PROTEIN 16-AUG-19 6SKU TITLE LEGIONELLA EFFECTOR ANKX IN COMPLEX WITH HUMAN RAB1B COMPND MOL_ID: 1; COMPND 2 MOLECULE: PHOSPHOCHOLINE TRANSFERASE ANKX; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: PC TRANSFERASE,ANKYRIN REPEAT-CONTAINING PROTEIN X; COMPND 5 EC: 2.7.1.-; COMPND 6 ENGINEERED: YES; COMPND 7 MUTATION: YES; COMPND 8 MOL_ID: 2; COMPND 9 MOLECULE: RAS-RELATED PROTEIN RAB-1B; COMPND 10 CHAIN: B; COMPND 11 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: LEGIONELLA PNEUMOPHILA SUBSP. PNEUMOPHILA SOURCE 3 (STRAIN PHILADELPHIA 1 / ATCC 33152 / DSM 7513); SOURCE 4 ORGANISM_TAXID: 272624; SOURCE 5 STRAIN: PHILADELPHIA 1 / ATCC 33152 / DSM 7513; SOURCE 6 GENE: ANKX, LEGA8, LPG0695; SOURCE 7 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 8 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 MOL_ID: 2; SOURCE 11 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 12 ORGANISM_COMMON: HUMAN; SOURCE 13 ORGANISM_TAXID: 9606; SOURCE 14 GENE: RAB1B; SOURCE 15 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 16 EXPRESSION_SYSTEM_TAXID: 469008 KEYWDS DISEASE, POST TRANSLATIONAL MODIFICATION, CROSSLINK, SMALL G-PROTEIN, KEYWDS 2 SIGNALING PROTEIN EXPDTA X-RAY DIFFRACTION AUTHOR S.ERNST,F.ECKER,M.KASPERS,P.OCHTROP,C.HEDBERG,M.GROLL,A.ITZEN REVDAT 2 24-JAN-24 6SKU 1 REMARK REVDAT 1 10-JUN-20 6SKU 0 JRNL AUTH S.ERNST,F.ECKER,M.S.KASPERS,P.OCHTROP,C.HEDBERG,M.GROLL, JRNL AUTH 2 A.ITZEN JRNL TITL LEGIONELLAEFFECTOR ANKX DISPLACES THE SWITCH II REGION FOR JRNL TITL 2 RAB1B PHOSPHOCHOLINATION. JRNL REF SCI ADV V. 6 Z8041 2020 JRNL REFN ESSN 2375-2548 JRNL PMID 32440549 JRNL DOI 10.1126/SCIADV.AAZ8041 REMARK 2 REMARK 2 RESOLUTION. 3.20 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.8.0238 REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN REMARK 3 REMARK 3 REFINEMENT TARGET : NULL REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 3.20 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 30.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 97.4 REMARK 3 NUMBER OF REFLECTIONS : 24372 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) : 0.249 REMARK 3 R VALUE (WORKING SET) : 0.247 REMARK 3 FREE R VALUE : 0.288 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 1283 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) : 3.20 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 3.28 REMARK 3 REFLECTION IN BIN (WORKING SET) : 1789 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 98.33 REMARK 3 BIN R VALUE (WORKING SET) : 0.4060 REMARK 3 BIN FREE R VALUE SET COUNT : 95 REMARK 3 BIN FREE R VALUE : 0.4060 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 7528 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 29 REMARK 3 SOLVENT ATOMS : 0 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 138.7 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -3.24000 REMARK 3 B22 (A**2) : 13.21000 REMARK 3 B33 (A**2) : -8.53000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : -3.23000 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): 0.532 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.544 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 76.522 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.946 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.915 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 7699 ; 0.002 ; 0.013 REMARK 3 BOND LENGTHS OTHERS (A): 7285 ; 0.001 ; 0.017 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 10400 ; 1.236 ; 1.645 REMARK 3 BOND ANGLES OTHERS (DEGREES): 16976 ; 1.029 ; 1.580 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 945 ; 5.692 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 376 ;32.210 ;23.856 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 1430 ;16.364 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 32 ;12.102 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 1018 ; 0.042 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 8451 ; 0.002 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 1489 ; 0.001 ; 0.020 REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): NULL ; NULL ; NULL 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): NULL ; NULL ; NULL 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): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): NULL ; NULL ; NULL 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): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL 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): 14980 ; 0.154 ; 3.000 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 : 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 8 A 800 REMARK 3 ORIGIN FOR THE GROUP (A): -37.3615 -15.1267 32.0530 REMARK 3 T TENSOR REMARK 3 T11: 0.0627 T22: 0.1815 REMARK 3 T33: 0.2837 T12: 0.0221 REMARK 3 T13: -0.0515 T23: -0.0108 REMARK 3 L TENSOR REMARK 3 L11: 0.5702 L22: 0.1568 REMARK 3 L33: 1.9545 L12: 0.1640 REMARK 3 L13: 0.7557 L23: 0.4863 REMARK 3 S TENSOR REMARK 3 S11: -0.1184 S12: -0.2774 S13: 0.0224 REMARK 3 S21: -0.0934 S22: -0.0485 S23: 0.1389 REMARK 3 S31: -0.3429 S32: -0.1949 S33: 0.1669 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 2 B 202 REMARK 3 ORIGIN FOR THE GROUP (A): -53.0103 -20.7643 17.8871 REMARK 3 T TENSOR REMARK 3 T11: 0.0173 T22: 0.2121 REMARK 3 T33: 0.1662 T12: 0.0200 REMARK 3 T13: -0.0210 T23: -0.1024 REMARK 3 L TENSOR REMARK 3 L11: 1.2900 L22: 1.9408 REMARK 3 L33: 2.9468 L12: 0.0084 REMARK 3 L13: -0.6063 L23: -0.3464 REMARK 3 S TENSOR REMARK 3 S11: 0.0169 S12: -0.4073 S13: 0.0607 REMARK 3 S21: 0.0570 S22: -0.1427 S23: 0.1403 REMARK 3 S31: -0.1852 S32: -0.1727 S33: 0.1258 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : NULL REMARK 3 PARAMETERS FOR MASK CALCULATION REMARK 3 VDW PROBE RADIUS : 1.20 REMARK 3 ION PROBE RADIUS : 0.80 REMARK 3 SHRINKAGE RADIUS : 0.80 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: HYDROGENS HAVE BEEN ADDED IN THE RIDING REMARK 3 POSITIONS U VALUES : WITH TLS ADDED REMARK 4 REMARK 4 6SKU COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 16-AUG-19. REMARK 100 THE DEPOSITION ID IS D_1292103892. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 26-OCT-18 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 6.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SLS REMARK 200 BEAMLINE : X06SA REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.0 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS EIGER X 16M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : XSCALE REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 25684 REMARK 200 RESOLUTION RANGE HIGH (A) : 3.200 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 97.5 REMARK 200 DATA REDUNDANCY : 3.100 REMARK 200 R MERGE (I) : 0.04500 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 13.9000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 3.20 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 3.30 REMARK 200 COMPLETENESS FOR SHELL (%) : NULL REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : 0.57000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 2.300 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHASER REMARK 200 STARTING MODEL: 4BES, 3NKV REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 66.92 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.72 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 3.5 M SODIUM FORMATE, PH 6.5, VAPOR REMARK 280 DIFFUSION, SITTING DROP, TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: C 1 2 1 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 X+1/2,Y+1/2,Z 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 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 1.000000 0.000000 0.000000 85.67500 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 34.23500 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 85.67500 REMARK 290 SMTRY2 4 0.000000 1.000000 0.000000 34.23500 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 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 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 4550 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 44570 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -24.0 KCAL/MOL 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 -2 REMARK 465 HIS A -1 REMARK 465 MET A 0 REMARK 465 MET A 1 REMARK 465 VAL A 2 REMARK 465 LYS A 3 REMARK 465 ILE A 4 REMARK 465 MET A 5 REMARK 465 PRO A 6 REMARK 465 ASN A 7 REMARK 465 LYS A 86 REMARK 465 LYS A 87 REMARK 465 VAL A 88 REMARK 465 GLU A 89 REMARK 465 GLU A 90 REMARK 465 LEU A 91 REMARK 465 GLN A 92 REMARK 465 GLU A 93 REMARK 465 GLY B -1 REMARK 465 PRO B 0 REMARK 465 MET B 1 REMARK 465 GLU B 67 REMARK 465 ARG B 68 REMARK 465 PHE B 69 REMARK 465 ARG B 70 REMARK 465 THR B 71 REMARK 465 ILE B 72 REMARK 465 THR B 73 REMARK 465 GLY B 173 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 CB MET A 700 CG ARG A 727 2.16 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 LEU A 11 20.28 43.90 REMARK 500 ARG A 44 -72.25 -49.16 REMARK 500 GLU A 69 52.67 35.85 REMARK 500 PHE A 143 -60.99 -102.13 REMARK 500 ASN A 154 74.46 53.05 REMARK 500 PRO A 157 14.90 -66.54 REMARK 500 ASN A 189 35.40 71.12 REMARK 500 ASN A 242 -77.13 -102.29 REMARK 500 ASN A 262 43.13 -101.55 REMARK 500 ASP A 316 -129.12 51.96 REMARK 500 TYR A 351 71.48 41.65 REMARK 500 SER A 361 -53.72 -139.51 REMARK 500 GLN A 384 159.77 -49.61 REMARK 500 ASN A 459 55.84 -94.89 REMARK 500 GLU A 488 46.74 71.97 REMARK 500 LYS A 551 23.86 -150.59 REMARK 500 LEU A 585 29.92 -145.72 REMARK 500 ASP A 648 -60.56 -101.69 REMARK 500 LYS A 650 76.19 -116.95 REMARK 500 PRO A 655 98.84 -60.69 REMARK 500 ASN A 656 -36.86 -39.43 REMARK 500 GLU A 688 133.06 -175.57 REMARK 500 LEU A 705 119.70 -162.62 REMARK 500 ARG A 726 -151.24 37.75 REMARK 500 ASP A 764 60.02 65.68 REMARK 500 LYS A 771 -0.24 82.16 REMARK 500 HIS A 786 -72.90 -88.53 REMARK 500 THR B 39 55.89 31.43 REMARK 500 ILE B 40 51.88 35.22 REMARK 500 ASP B 43 -4.00 88.45 REMARK 500 LYS B 121 37.62 71.52 REMARK 500 ALA B 154 3.19 84.90 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 B 202 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 SER B 21 OG REMARK 620 2 ASP B 62 OD2 65.4 REMARK 620 3 GDP B 201 O2B 59.8 113.9 REMARK 620 N 1 2 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue GDP B 201 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue MG B 202 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 4BES RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF THE LEGIONELLA PNEUMOPHILA FIC DOMAIN- REMARK 900 CONTAINING EFFECTOR ANKX PROTEIN IN COMPLEX WITH CYTIDINE REMARK 900 MONOPHOSPHATE AND PHOSPHOCHOLINE REMARK 900 RELATED ID: 3NKV RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF RAB1B COVALENTLY MODIFIED WITH AMP AT Y77 DBREF 6SKU A 1 800 UNP Q5ZXN6 ANKX_LEGPH 1 800 DBREF 6SKU B 2 173 UNP Q9H0U4 RAB1B_HUMAN 3 174 SEQADV 6SKU GLY A -2 UNP Q5ZXN6 EXPRESSION TAG SEQADV 6SKU HIS A -1 UNP Q5ZXN6 EXPRESSION TAG SEQADV 6SKU MET A 0 UNP Q5ZXN6 EXPRESSION TAG SEQADV 6SKU SER A 48 UNP Q5ZXN6 CYS 48 ENGINEERED MUTATION SEQADV 6SKU SER A 84 UNP Q5ZXN6 CYS 84 ENGINEERED MUTATION SEQADV 6SKU CYS A 108 UNP Q5ZXN6 GLY 108 ENGINEERED MUTATION SEQADV 6SKU SER A 172 UNP Q5ZXN6 CYS 172 ENGINEERED MUTATION SEQADV 6SKU GLY B -1 UNP Q9H0U4 EXPRESSION TAG SEQADV 6SKU PRO B 0 UNP Q9H0U4 EXPRESSION TAG SEQADV 6SKU MET B 1 UNP Q9H0U4 EXPRESSION TAG SEQRES 1 A 803 GLY HIS MET MET VAL LYS ILE MET PRO ASN LEU PRO GLY SEQRES 2 A 803 LEU TYR PHE LEU GLN ALA TYR PRO SER GLU GLU ILE TRP SEQRES 3 A 803 ARG LEU PHE VAL ASP GLY ARG PHE TRP SER LYS GLU ASN SEQRES 4 A 803 GLY TRP ARG GLY TYR GLU SER ARG GLU PRO GLY SER LEU SEQRES 5 A 803 ASN ALA ALA LEU GLU SER LEU CYS SER ILE ALA LEU GLN SEQRES 6 A 803 VAL GLU LYS SER GLY GLU GLU PHE GLU LEU SER VAL ASP SEQRES 7 A 803 LEU ILE LYS ARG ILE HIS LYS LYS SER GLY LYS LYS VAL SEQRES 8 A 803 GLU GLU LEU GLN GLU LYS ASN PRO GLY GLU LEU ARG THR SEQRES 9 A 803 ASP GLU PRO VAL SER PHE CYS ILE PRO ALA GLY ARG ALA SEQRES 10 A 803 SER ILE LYS GLY ILE GLU GLU PHE LEU SER LEU VAL PHE SEQRES 11 A 803 LEU THR GLU GLY GLY ALA GLU PHE GLY PRO GLY LYS ALA SEQRES 12 A 803 GLY PRO PHE GLY PRO ARG PHE ASP LYS ASN TYR PHE LYS SEQRES 13 A 803 ASN LEU ASN PRO GLU GLN ILE PRO ASP LEU ALA LYS GLN SEQRES 14 A 803 ILE TYR PHE ASP MET SER LYS TYR GLY HIS SER ASN THR SEQRES 15 A 803 ASN HIS PHE TYR LEU ALA VAL MET LYS ASN VAL ASP VAL SEQRES 16 A 803 TYR LEU GLU LYS ILE THR GLN SER TYR ASN LYS GLU ILE SEQRES 17 A 803 LYS THR ALA GLU THR LEU ASP GLU LYS LEU LYS ILE ILE SEQRES 18 A 803 VAL LYS HIS ILE ARG MET TYR GLU VAL LEU HIS PRO PHE SEQRES 19 A 803 ARG ASP ALA ASN GLY ARG THR PHE VAL ASN ASN LEU LEU SEQRES 20 A 803 ASN ILE LEU LEU MET GLN GLN GLY LEU PRO PRO ALA THR SEQRES 21 A 803 PHE TYR GLU PRO ASN VAL PHE ASP LEU TYR SER ALA GLU SEQRES 22 A 803 GLU LEU VAL VAL VAL VAL LYS GLU ALA ILE PHE ASN THR SEQRES 23 A 803 VAL GLU ILE ILE GLU GLN SER LYS ARG LYS THR PRO ILE SEQRES 24 A 803 THR LEU TYR GLY TYR HIS SER SER LEU GLU GLU GLN THR SEQRES 25 A 803 LYS PHE ARG ASP MET LEU ASP SER PRO SER TYR GLU LYS SEQRES 26 A 803 ILE LYS HIS MET ASP PHE SER ASP LEU ASN PRO GLU LYS SEQRES 27 A 803 LEU HIS LEU LYS THR GLN LYS CYS LEU SER SER LEU ASN SEQRES 28 A 803 GLU GLN TYR PRO LEU HIS ARG GLY ALA ILE TYR LEU SER SEQRES 29 A 803 ASP PRO GLY GLU ILE LYS LEU LEU LEU SER ASN ARG ASN SEQRES 30 A 803 GLU SER GLN ILE ASN GLN GLN ILE GLU GLN GLY ALA PRO SEQRES 31 A 803 PRO ILE TYR VAL GLY LYS THR PRO ALA HIS LEU ALA VAL SEQRES 32 A 803 ILE SER GLY ASN MET ALA MET LEU ASP GLU LEU ILE ALA SEQRES 33 A 803 LYS LYS ALA ASP LEU SER LEU GLN ASP TYR ASP GLY LYS SEQRES 34 A 803 THR ALA LEU HIS TYR ALA ALA GLU CYS GLY ASN MET GLN SEQRES 35 A 803 ILE MET GLY LYS ILE LEU LYS VAL VAL LEU SER GLN GLU SEQRES 36 A 803 ASP ALA ILE LYS VAL LEU ASN ILE LYS ASP ASN HIS GLY SEQRES 37 A 803 LYS THR ALA PHE HIS TYR ALA ALA GLU PHE GLY THR PRO SEQRES 38 A 803 GLU LEU ILE SER ALA LEU THR THR THR GLU VAL ILE GLN SEQRES 39 A 803 ILE ASN GLU PRO ASP ASN SER GLY SER SER ALA ILE THR SEQRES 40 A 803 LEU ALA TYR LYS ASN HIS LYS LEU LYS ILE PHE ASP GLU SEQRES 41 A 803 LEU LEU ASN SER GLY ALA ASP ILE SER ASP GLU LEU LEU SEQRES 42 A 803 ASP ALA ILE TRP ALA ARG LYS ASP LYS GLU THR LEU GLY SEQRES 43 A 803 LYS ILE ILE ALA LYS ASN GLU LYS ILE LEU LEU ASN LYS SEQRES 44 A 803 GLU ALA PHE ARG ILE ALA ILE SER LEU GLY SER VAL SER SEQRES 45 A 803 LEU VAL LYS LYS PHE LEU ARG ALA GLY VAL ASP ILE ASP SEQRES 46 A 803 ILE PRO LEU THR LYS ASP LYS ALA THR PRO LEU MET LEU SEQRES 47 A 803 SER ILE ASN SER GLY ASN PRO LYS LEU VAL SER TYR LEU SEQRES 48 A 803 LEU LYS LYS GLY ALA ASN THR ARG LEU THR ASP THR SER SEQRES 49 A 803 GLY ASN SER VAL LEU HIS TYR VAL PHE TYR SER LYS ALA SEQRES 50 A 803 GLU ASN ARG GLU ALA LEU ALA ASN ILE ILE THR GLU LYS SEQRES 51 A 803 ASP LYS LYS LEU ILE ASN GLN PRO ASN ALA ASN GLY ASN SEQRES 52 A 803 PRO PRO LEU TYR ASN ALA VAL VAL VAL ASN ASP LEU LYS SEQRES 53 A 803 MET ALA THR ILE LEU LEU GLU MET GLY ALA ARG VAL ASP SEQRES 54 A 803 PHE GLU ASP ARG LEU GLY ASN ASN ILE LEU HIS SER ALA SEQRES 55 A 803 MET ARG ARG CYS ASP LEU PRO ILE ILE LEU ASP ILE VAL SEQRES 56 A 803 LYS LYS ASP SER THR LEU LEU HIS LYS ARG ASN SER GLU SEQRES 57 A 803 ARG ARG ASN PRO PHE HIS GLN ALA LEU HIS GLU MET HIS SEQRES 58 A 803 THR PHE PRO SER SER LYS GLU THR GLU GLU ILE HIS PHE SEQRES 59 A 803 MET ASN LEU SER ASP LEU LEU LEU LYS GLU GLY VAL ASP SEQRES 60 A 803 LEU ASN LYS LYS ASP ILE LYS GLY LYS THR ILE LEU ASP SEQRES 61 A 803 ILE ALA LEU SER LYS GLN TYR PHE HIS LEU CYS VAL LYS SEQRES 62 A 803 LEU MET LYS ALA GLY ALA HIS THR ASN ILE SEQRES 1 B 175 GLY PRO MET PRO GLU TYR ASP TYR LEU PHE LYS LEU LEU SEQRES 2 B 175 LEU ILE GLY ASP SER GLY VAL GLY LYS SER CYS LEU LEU SEQRES 3 B 175 LEU ARG PHE ALA ASP ASP THR TYR THR GLU SER TYR ILE SEQRES 4 B 175 SER THR ILE GLY VAL ASP PHE LYS ILE ARG THR ILE GLU SEQRES 5 B 175 LEU ASP GLY LYS THR ILE LYS LEU GLN ILE TRP ASP THR SEQRES 6 B 175 ALA GLY GLN GLU ARG PHE ARG THR ILE THR SER SER TYR SEQRES 7 B 175 TYR ARG GLY ALA HIS GLY ILE ILE VAL VAL TYR ASP VAL SEQRES 8 B 175 THR ASP GLN GLU SER TYR ALA ASN VAL LYS GLN TRP LEU SEQRES 9 B 175 GLN GLU ILE ASP ARG TYR ALA SER GLU ASN VAL ASN LYS SEQRES 10 B 175 LEU LEU VAL GLY ASN LYS SER ASP LEU THR THR LYS LYS SEQRES 11 B 175 VAL VAL ASP ASN THR THR ALA LYS GLU PHE ALA ASP SER SEQRES 12 B 175 LEU GLY ILE PRO PHE LEU GLU THR SER ALA LYS ASN ALA SEQRES 13 B 175 THR ASN VAL GLU GLN ALA PHE MET THR MET ALA ALA GLU SEQRES 14 B 175 ILE LYS LYS ARG MET GLY HET GDP B 201 28 HET MG B 202 1 HETNAM GDP GUANOSINE-5'-DIPHOSPHATE HETNAM MG MAGNESIUM ION FORMUL 3 GDP C10 H15 N5 O11 P2 FORMUL 4 MG MG 2+ HELIX 1 AA1 LEU A 11 TYR A 17 1 7 HELIX 2 AA2 PRO A 18 PHE A 26 5 9 HELIX 3 AA3 ASP A 28 SER A 33 1 6 HELIX 4 AA4 TRP A 38 GLU A 45 1 8 HELIX 5 AA5 GLY A 47 VAL A 63 1 17 HELIX 6 AA6 SER A 73 LYS A 83 1 11 HELIX 7 AA7 PRO A 110 ALA A 114 5 5 HELIX 8 AA8 SER A 115 LEU A 125 1 11 HELIX 9 AA9 LEU A 125 GLY A 132 1 8 HELIX 10 AB1 GLN A 159 GLY A 175 1 17 HELIX 11 AB2 ASN A 189 ALA A 208 1 20 HELIX 12 AB3 ASP A 212 HIS A 229 1 18 HELIX 13 AB4 ALA A 234 VAL A 240 1 7 HELIX 14 AB5 ASN A 242 GLN A 251 1 10 HELIX 15 AB6 SER A 268 LYS A 293 1 26 HELIX 16 AB7 SER A 304 ASP A 313 1 10 HELIX 17 AB8 SER A 317 LYS A 322 1 6 HELIX 18 AB9 PRO A 333 LEU A 344 1 12 HELIX 19 AC1 TYR A 351 LEU A 360 1 10 HELIX 20 AC2 ASP A 362 SER A 371 1 10 HELIX 21 AC3 ASN A 374 ASN A 379 1 6 HELIX 22 AC4 THR A 394 SER A 402 1 9 HELIX 23 AC5 ASN A 404 LYS A 414 1 11 HELIX 24 AC6 THR A 427 CYS A 435 1 9 HELIX 25 AC7 ASN A 437 GLN A 451 1 15 HELIX 26 AC8 ASP A 453 ASN A 459 1 7 HELIX 27 AC9 THR A 467 PHE A 475 1 9 HELIX 28 AD1 THR A 477 THR A 486 1 10 HELIX 29 AD2 SER A 501 ASN A 509 1 9 HELIX 30 AD3 LYS A 511 SER A 521 1 11 HELIX 31 AD4 SER A 526 LYS A 537 1 12 HELIX 32 AD5 ASP A 538 GLU A 550 1 13 HELIX 33 AD6 ASN A 555 LEU A 565 1 11 HELIX 34 AD7 SER A 567 GLY A 578 1 12 HELIX 35 AD8 THR A 591 SER A 599 1 9 HELIX 36 AD9 ASN A 601 LYS A 611 1 11 HELIX 37 AE1 SER A 624 VAL A 629 1 6 HELIX 38 AE2 PHE A 630 SER A 632 5 3 HELIX 39 AE3 LYS A 633 ASP A 648 1 16 HELIX 40 AE4 PRO A 661 VAL A 669 1 9 HELIX 41 AE5 ASP A 671 MET A 681 1 11 HELIX 42 AE6 ASN A 694 MET A 700 1 7 HELIX 43 AE7 LEU A 705 SER A 716 1 12 HELIX 44 AE8 ARG A 727 HIS A 735 1 9 HELIX 45 AE9 SER A 742 LEU A 758 1 17 HELIX 46 AF1 LEU A 759 GLU A 761 5 3 HELIX 47 AF2 LYS A 773 LYS A 782 1 10 HELIX 48 AF3 HIS A 786 ALA A 794 1 9 HELIX 49 AF4 GLY B 19 ASP B 29 1 11 HELIX 50 AF5 ILE B 37 VAL B 42 5 6 HELIX 51 AF6 ASP B 91 ASN B 97 1 7 HELIX 52 AF7 ASN B 97 GLN B 103 1 7 HELIX 53 AF8 GLN B 103 ALA B 109 1 7 HELIX 54 AF9 LEU B 124 LYS B 128 5 5 HELIX 55 AG1 ASP B 131 LEU B 142 1 12 HELIX 56 AG2 ASN B 156 MET B 172 1 17 SHEET 1 AA1 4 SER A 106 CYS A 108 0 SHEET 2 AA1 4 HIS A 181 LEU A 184 -1 O TYR A 183 N PHE A 107 SHEET 3 AA1 4 PHE A 135 LYS A 139 -1 N GLY A 136 O PHE A 182 SHEET 4 AA1 4 ARG A 146 PHE A 147 -1 O ARG A 146 N LYS A 139 SHEET 1 AA2 6 PHE B 44 GLU B 50 0 SHEET 2 AA2 6 THR B 55 ASP B 62 -1 O ILE B 56 N ILE B 49 SHEET 3 AA2 6 PHE B 8 ILE B 13 1 N PHE B 8 O GLN B 59 SHEET 4 AA2 6 GLY B 82 ASP B 88 1 O ILE B 84 N LEU B 11 SHEET 5 AA2 6 ASN B 114 ASN B 120 1 O ASN B 120 N TYR B 87 SHEET 6 AA2 6 PHE B 146 GLU B 148 1 O LEU B 147 N LEU B 117 LINK OG SER B 21 MG MG B 202 1555 1555 2.42 LINK OD2 ASP B 62 MG MG B 202 1555 1555 2.83 LINK O2B GDP B 201 MG MG B 202 1555 1555 2.88 SITE 1 AC1 17 SER B 16 GLY B 17 VAL B 18 GLY B 19 SITE 2 AC1 17 LYS B 20 SER B 21 CYS B 22 TYR B 32 SITE 3 AC1 17 GLU B 34 ASN B 120 LYS B 121 ASP B 123 SITE 4 AC1 17 LEU B 124 SER B 150 ALA B 151 LYS B 152 SITE 5 AC1 17 MG B 202 SITE 1 AC2 4 SER B 21 ASP B 62 THR B 63 GDP B 201 CRYST1 171.350 68.470 137.370 90.00 98.93 90.00 C 1 2 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 0.005836 0.000000 0.000917 0.00000 SCALE2 0.000000 0.014605 0.000000 0.00000 SCALE3 0.000000 0.000000 0.007369 0.00000