HEADER HYDROLASE 03-FEB-05 1YRB TITLE PAB0955 CRYSTAL STRUCTURE : A GTPASE IN GDP AND MG BOUND FORM FROM TITLE 2 PYROCOCCUS ABYSSI COMPND MOL_ID: 1; COMPND 2 MOLECULE: ATP(GTP)BINDING PROTEIN; COMPND 3 CHAIN: A, B; COMPND 4 FRAGMENT: RESIDUES 1-248; COMPND 5 SYNONYM: PAB0955 GENE PRODUCT; COMPND 6 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: PYROCOCCUS ABYSSI; SOURCE 3 ORGANISM_TAXID: 29292; SOURCE 4 GENE: PAB0955; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 7 EXPRESSION_SYSTEM_STRAIN: ROSETTA(DE3)PLYS; SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 9 EXPRESSION_SYSTEM_PLASMID: PCRT7/NT-TOPO KEYWDS GTP BINDING PROTEIN, GTPASE, P-LOOP, ROSSMANN FOLD, GDP, HYDROLASE EXPDTA X-RAY DIFFRACTION AUTHOR S.GRAS,P.CARPENTIER,J.ARMENGAUD,D.HOUSSET REVDAT 6 25-OCT-23 1YRB 1 REMARK SEQADV LINK REVDAT 5 11-OCT-17 1YRB 1 REMARK REVDAT 4 12-NOV-14 1YRB 1 KEYWDS REVDAT 3 09-MAR-11 1YRB 1 JRNL AUTHOR REMARK REVDAT 2 24-FEB-09 1YRB 1 VERSN REVDAT 1 14-FEB-06 1YRB 0 JRNL AUTH S.GRAS,V.CHAUMONT,B.FERNANDEZ,P.CARPENTIER, JRNL AUTH 2 F.CHARRIER-SAVOURNIN,S.SCHMITT,C.PINEAU,D.FLAMENT,A.HECKER, JRNL AUTH 3 P.FORTERRE,J.ARMENGAUD,D.HOUSSET JRNL TITL STRUCTURAL INSIGHTS INTO A NEW HOMODIMERIC SELF-ACTIVATED JRNL TITL 2 GTPASE FAMILY. JRNL REF EMBO REP. V. 8 569 2007 JRNL REFN ISSN 1469-221X JRNL PMID 17468740 JRNL DOI 10.1038/SJ.EMBOR.7400958 REMARK 1 REMARK 1 REFERENCE 1 REMARK 1 AUTH S.GRAS,B.FERNANDEZ,V.CHAUMONT,P.CARPENTIER,J.ARMENGAUD, REMARK 1 AUTH 2 D.HOUSSET REMARK 1 TITL EXPRESSION, PURIFICATION, CRYSTALLIZATION AND PRELIMINARY REMARK 1 TITL 2 CRYSTALLOGRAPHIC ANALYSIS OF THE PAB0955 GENE PRODUCT REMARK 1 REF ACTA CRYSTALLOGR.,SECT.F V. 61 208 2005 REMARK 1 REFN ESSN 1744-3091 REMARK 1 DOI 10.1107/S1744309105000035 REMARK 2 REMARK 2 RESOLUTION. 1.75 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.2.0005 REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN REMARK 3 REMARK 3 REFINEMENT TARGET : MAXIMUM LIKELIHOOD REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.75 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 15.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 98.8 REMARK 3 NUMBER OF REFLECTIONS : 59763 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) : 0.196 REMARK 3 R VALUE (WORKING SET) : 0.195 REMARK 3 FREE R VALUE : 0.247 REMARK 3 FREE R VALUE TEST SET SIZE (%) : NULL REMARK 3 FREE R VALUE TEST SET COUNT : 6086 REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 15 REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 1.75 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.81 REMARK 3 REFLECTION IN BIN (WORKING SET) : 5603 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 95.29 REMARK 3 BIN R VALUE (WORKING SET) : 0.2490 REMARK 3 BIN FREE R VALUE SET COUNT : 528 REMARK 3 BIN FREE R VALUE : 0.3000 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 4216 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 59 REMARK 3 SOLVENT ATOMS : 381 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 27.30 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 33.88 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.23000 REMARK 3 B22 (A**2) : -0.76000 REMARK 3 B33 (A**2) : 0.66000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 0.78000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.118 REMARK 3 ESU BASED ON FREE R VALUE (A): NULL REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.072 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 2.209 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.963 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : NULL REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 4486 ; 0.008 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 6083 ; 1.215 ; 1.996 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 525 ; 4.918 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 220 ;30.596 ;23.591 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 807 ;15.387 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 32 ;16.148 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 662 ; 0.078 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 3380 ; 0.004 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 2279 ; 0.234 ; 0.300 REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 3072 ; 0.326 ; 0.500 REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 597 ; 0.232 ; 0.500 REMARK 3 H-BOND (X...Y) OTHERS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION REFINED ATOMS (A): 1 ; 0.082 ; 0.500 REMARK 3 POTENTIAL METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW REFINED ATOMS (A): 67 ; 0.275 ; 0.300 REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 23 ; 0.236 ; 0.500 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): 2693 ; 1.107 ; 2.000 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 4274 ; 1.799 ; 3.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 2029 ; 1.676 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1809 ; 2.198 ; 4.000 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 : 1.20 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 1YRB COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 10-FEB-05. REMARK 100 THE DEPOSITION ID IS D_1000031841. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 10-SEP-04 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 5.6 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : ESRF REMARK 200 BEAMLINE : ID14-2 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 : MIRROR 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 : 59865 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.750 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 98.6 REMARK 200 DATA REDUNDANCY : 4.700 REMARK 200 R MERGE (I) : 0.09800 REMARK 200 R SYM (I) : 0.09800 REMARK 200 FOR THE DATA SET : 12.4700 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.75 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.80 REMARK 200 COMPLETENESS FOR SHELL (%) : 93.5 REMARK 200 DATA REDUNDANCY IN SHELL : 4.00 REMARK 200 R MERGE FOR SHELL (I) : 0.37200 REMARK 200 R SYM FOR SHELL (I) : 0.37200 REMARK 200 FOR SHELL : 5.910 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: 1YR6 REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 51.28 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.52 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 13% PEG4000, 20MM DTT, 10% GLYCEROL, REMARK 280 50MM NACL, 0.2M AMMONIUM ACETATE, 0.1M TRI-SODIUM CITRATE REMARK 280 DIHYDRATE, 0.65MM GDP, 1MM WO4, PH 5.6, VAPOR DIFFUSION, HANGING REMARK 280 DROP, TEMPERATURE 277K 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 42.60500 REMARK 290 SMTRY3 2 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 BIOLOGICAL ASSEMBLY IS A DIMER, WHICH IS PRESENT IN THE REMARK 300 ASYMMETRIC UNIT REMARK 350 REMARK 350 COORDINATES FOR A COMPLETE MULTIMER REPRESENTING THE KNOWN REMARK 350 BIOLOGICALLY SIGNIFICANT OLIGOMERIZATION STATE OF THE REMARK 350 MOLECULE CAN BE GENERATED BY APPLYING BIOMT TRANSFORMATIONS REMARK 350 GIVEN BELOW. BOTH NON-CRYSTALLOGRAPHIC AND REMARK 350 CRYSTALLOGRAPHIC OPERATIONS ARE GIVEN. REMARK 350 REMARK 350 BIOMOLECULE: 1 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 5980 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 21550 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -82.0 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 ASP A 246 REMARK 465 LEU A 247 REMARK 465 THR A 248 REMARK 465 LEU B 247 REMARK 465 THR B 248 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 OG SER B 47 O HOH B 554 1.75 REMARK 500 OG SER A 47 O HOH A 514 1.78 REMARK 500 OH TYR B 84 O HOH B 633 1.80 REMARK 500 O HOH A 616 O HOH A 676 1.95 REMARK 500 OG SER B 500 O ASN B 95 2.02 REMARK 500 ND2 ASN A 140 O HOH A 533 2.02 REMARK 500 O MET A 487 O HOH A 587 2.03 REMARK 500 O HOH A 538 O HOH A 663 2.14 REMARK 500 OD2 ASP A 232 O HOH A 570 2.16 REMARK 500 OE1 GLU B 120 O HOH B 678 2.17 REMARK 500 O HOH A 550 O HOH A 627 2.18 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 566 O HOH B 612 2556 2.14 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 PRO B 215 -178.08 -53.03 REMARK 500 VAL B 217 131.28 76.50 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 501 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 THR A 14 OG1 REMARK 620 2 GDP A 401 O1B 93.4 REMARK 620 3 HOH A 502 O 84.1 91.0 REMARK 620 4 HOH A 504 O 89.7 89.9 173.8 REMARK 620 5 HOH A 506 O 176.9 88.5 98.3 87.9 REMARK 620 6 HOH A 507 O 89.7 175.5 92.6 86.8 88.3 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG B 503 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HOH A 510 O REMARK 620 2 HOH A 582 O 73.2 REMARK 620 N 1 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG B 502 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 THR B 14 OG1 REMARK 620 2 GDP B 402 O1B 95.2 REMARK 620 3 HOH B 504 O 82.1 96.6 REMARK 620 4 HOH B 505 O 87.2 176.0 86.9 REMARK 620 5 HOH B 506 O 175.5 89.0 96.0 88.6 REMARK 620 6 HOH B 507 O 88.6 87.2 170.2 89.7 93.0 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 501 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG B 502 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG B 503 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GDP A 401 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GDP B 402 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1YR6 RELATED DB: PDB REMARK 900 THE SAME PROTEIN IN APO FORM REMARK 900 RELATED ID: 1YR7 RELATED DB: PDB REMARK 900 THE SAME PROTEIN IN GTP-GAMMA-S BOUND FORM REMARK 900 RELATED ID: 1YR8 RELATED DB: PDB REMARK 900 THE SAME PROTEIN IN GTP BOUND FORM REMARK 900 RELATED ID: 1YR9 RELATED DB: PDB REMARK 900 THE SAME PROTEIN IN GDP AND PO4 BOUND FORM REMARK 900 RELATED ID: 1YRA RELATED DB: PDB REMARK 900 THE SAME PROTEIN IN GDP BOUND FORM REMARK 900 RELATED ID: 2OXR RELATED DB: PDB DBREF 1YRB A 1 248 GB 5458856 CAB50343 30 277 DBREF 1YRB B 1 248 GB 5458856 CAB50343 30 277 SEQADV 1YRB MET A 487 GB 5458856 EXPRESSION TAG SEQADV 1YRB ARG A 488 GB 5458856 EXPRESSION TAG SEQADV 1YRB GLY A 489 GB 5458856 EXPRESSION TAG SEQADV 1YRB SER A 490 GB 5458856 EXPRESSION TAG SEQADV 1YRB HIS A 491 GB 5458856 EXPRESSION TAG SEQADV 1YRB HIS A 492 GB 5458856 EXPRESSION TAG SEQADV 1YRB HIS A 493 GB 5458856 EXPRESSION TAG SEQADV 1YRB HIS A 494 GB 5458856 EXPRESSION TAG SEQADV 1YRB HIS A 495 GB 5458856 EXPRESSION TAG SEQADV 1YRB HIS A 496 GB 5458856 EXPRESSION TAG SEQADV 1YRB GLY A 497 GB 5458856 EXPRESSION TAG SEQADV 1YRB MET A 498 GB 5458856 EXPRESSION TAG SEQADV 1YRB ALA A 499 GB 5458856 EXPRESSION TAG SEQADV 1YRB SER A 500 GB 5458856 EXPRESSION TAG SEQADV 1YRB MET B 487 GB 5458856 EXPRESSION TAG SEQADV 1YRB ARG B 488 GB 5458856 EXPRESSION TAG SEQADV 1YRB GLY B 489 GB 5458856 EXPRESSION TAG SEQADV 1YRB SER B 490 GB 5458856 EXPRESSION TAG SEQADV 1YRB HIS B 491 GB 5458856 EXPRESSION TAG SEQADV 1YRB HIS B 492 GB 5458856 EXPRESSION TAG SEQADV 1YRB HIS B 493 GB 5458856 EXPRESSION TAG SEQADV 1YRB HIS B 494 GB 5458856 EXPRESSION TAG SEQADV 1YRB HIS B 495 GB 5458856 EXPRESSION TAG SEQADV 1YRB HIS B 496 GB 5458856 EXPRESSION TAG SEQADV 1YRB GLY B 497 GB 5458856 EXPRESSION TAG SEQADV 1YRB MET B 498 GB 5458856 EXPRESSION TAG SEQADV 1YRB ALA B 499 GB 5458856 EXPRESSION TAG SEQADV 1YRB SER B 500 GB 5458856 EXPRESSION TAG SEQRES 1 A 262 MET ARG GLY SER HIS HIS HIS HIS HIS HIS GLY MET ALA SEQRES 2 A 262 SER MET ILE VAL VAL PHE VAL GLY THR ALA GLY SER GLY SEQRES 3 A 262 LYS THR THR LEU THR GLY GLU PHE GLY ARG TYR LEU GLU SEQRES 4 A 262 ASP ASN TYR LYS VAL ALA TYR VAL ASN LEU ASP THR GLY SEQRES 5 A 262 VAL LYS GLU LEU PRO TYR GLU PRO SER ILE ASP VAL ARG SEQRES 6 A 262 GLU PHE VAL THR VAL GLU GLU ILE MET ARG GLU GLY TYR SEQRES 7 A 262 GLY PRO ASN GLY ALA ILE VAL GLU SER TYR ASP ARG LEU SEQRES 8 A 262 MET GLU LYS PHE ASN GLU TYR LEU ASN LYS ILE LEU ARG SEQRES 9 A 262 LEU GLU LYS GLU ASN ASP TYR VAL LEU ILE ASP THR PRO SEQRES 10 A 262 GLY GLN MET GLU THR PHE LEU PHE HIS GLU PHE GLY VAL SEQRES 11 A 262 ARG LEU MET GLU ASN LEU PRO TYR PRO LEU VAL VAL TYR SEQRES 12 A 262 ILE SER ASP PRO GLU ILE LEU LYS LYS PRO ASN ASP TYR SEQRES 13 A 262 CYS PHE VAL ARG PHE PHE ALA LEU LEU ILE ASP LEU ARG SEQRES 14 A 262 LEU GLY ALA THR THR ILE PRO ALA LEU ASN LYS VAL ASP SEQRES 15 A 262 LEU LEU SER GLU GLU GLU LYS GLU ARG HIS ARG LYS TYR SEQRES 16 A 262 PHE GLU ASP ILE ASP TYR LEU THR ALA ARG LEU LYS LEU SEQRES 17 A 262 ASP PRO SER MET GLN GLY LEU MET ALA TYR LYS MET CYS SEQRES 18 A 262 SER MET MET THR GLU VAL LEU PRO PRO VAL ARG VAL LEU SEQRES 19 A 262 TYR LEU SER ALA LYS THR ARG GLU GLY PHE GLU ASP LEU SEQRES 20 A 262 GLU THR LEU ALA TYR GLU HIS TYR CYS THR CYS GLY ASP SEQRES 21 A 262 LEU THR SEQRES 1 B 262 MET ARG GLY SER HIS HIS HIS HIS HIS HIS GLY MET ALA SEQRES 2 B 262 SER MET ILE VAL VAL PHE VAL GLY THR ALA GLY SER GLY SEQRES 3 B 262 LYS THR THR LEU THR GLY GLU PHE GLY ARG TYR LEU GLU SEQRES 4 B 262 ASP ASN TYR LYS VAL ALA TYR VAL ASN LEU ASP THR GLY SEQRES 5 B 262 VAL LYS GLU LEU PRO TYR GLU PRO SER ILE ASP VAL ARG SEQRES 6 B 262 GLU PHE VAL THR VAL GLU GLU ILE MET ARG GLU GLY TYR SEQRES 7 B 262 GLY PRO ASN GLY ALA ILE VAL GLU SER TYR ASP ARG LEU SEQRES 8 B 262 MET GLU LYS PHE ASN GLU TYR LEU ASN LYS ILE LEU ARG SEQRES 9 B 262 LEU GLU LYS GLU ASN ASP TYR VAL LEU ILE ASP THR PRO SEQRES 10 B 262 GLY GLN MET GLU THR PHE LEU PHE HIS GLU PHE GLY VAL SEQRES 11 B 262 ARG LEU MET GLU ASN LEU PRO TYR PRO LEU VAL VAL TYR SEQRES 12 B 262 ILE SER ASP PRO GLU ILE LEU LYS LYS PRO ASN ASP TYR SEQRES 13 B 262 CYS PHE VAL ARG PHE PHE ALA LEU LEU ILE ASP LEU ARG SEQRES 14 B 262 LEU GLY ALA THR THR ILE PRO ALA LEU ASN LYS VAL ASP SEQRES 15 B 262 LEU LEU SER GLU GLU GLU LYS GLU ARG HIS ARG LYS TYR SEQRES 16 B 262 PHE GLU ASP ILE ASP TYR LEU THR ALA ARG LEU LYS LEU SEQRES 17 B 262 ASP PRO SER MET GLN GLY LEU MET ALA TYR LYS MET CYS SEQRES 18 B 262 SER MET MET THR GLU VAL LEU PRO PRO VAL ARG VAL LEU SEQRES 19 B 262 TYR LEU SER ALA LYS THR ARG GLU GLY PHE GLU ASP LEU SEQRES 20 B 262 GLU THR LEU ALA TYR GLU HIS TYR CYS THR CYS GLY ASP SEQRES 21 B 262 LEU THR HET MG A 501 1 HET GDP A 401 28 HET MG B 502 1 HET MG B 503 1 HET GDP B 402 28 HETNAM MG MAGNESIUM ION HETNAM GDP GUANOSINE-5'-DIPHOSPHATE FORMUL 3 MG 3(MG 2+) FORMUL 4 GDP 2(C10 H15 N5 O11 P2) FORMUL 8 HOH *381(H2 O) HELIX 1 1 GLY A 12 GLU A 25 1 14 HELIX 2 2 ARG A 51 PHE A 53 5 3 HELIX 3 3 THR A 55 ARG A 61 1 7 HELIX 4 4 GLY A 65 GLU A 79 1 15 HELIX 5 5 LYS A 80 ASN A 95 1 16 HELIX 6 6 GLN A 105 HIS A 112 1 8 HELIX 7 7 HIS A 112 ASN A 121 1 10 HELIX 8 8 ASP A 132 LEU A 136 5 5 HELIX 9 9 LYS A 138 GLY A 157 1 20 HELIX 10 10 LYS A 166 LEU A 170 5 5 HELIX 11 11 SER A 171 ASP A 184 1 14 HELIX 12 12 ASP A 184 ASP A 195 1 12 HELIX 13 13 SER A 197 LEU A 214 1 18 HELIX 14 14 GLY A 229 GLY A 245 1 17 HELIX 15 15 GLY B 12 ASP B 26 1 15 HELIX 16 16 ARG B 51 PHE B 53 5 3 HELIX 17 17 THR B 55 GLU B 62 1 8 HELIX 18 18 GLY B 65 MET B 78 1 14 HELIX 19 19 LYS B 80 ASN B 95 1 16 HELIX 20 20 GLN B 105 HIS B 112 1 8 HELIX 21 21 HIS B 112 LEU B 122 1 11 HELIX 22 22 ASP B 132 LEU B 136 5 5 HELIX 23 23 LYS B 138 GLY B 157 1 20 HELIX 24 24 LYS B 166 LEU B 170 5 5 HELIX 25 25 SER B 171 GLU B 183 1 13 HELIX 26 26 ASP B 184 LEU B 194 1 11 HELIX 27 27 SER B 197 LEU B 214 1 18 HELIX 28 28 GLY B 229 CYS B 244 1 16 SHEET 1 A 7 ILE A 48 ASP A 49 0 SHEET 2 A 7 VAL A 30 ASN A 34 1 N ASN A 34 O ILE A 48 SHEET 3 A 7 TYR A 97 ASP A 101 1 O ASP A 101 N VAL A 33 SHEET 4 A 7 MET A 1 VAL A 6 1 N VAL A 3 O ILE A 100 SHEET 5 A 7 LEU A 126 SER A 131 1 O LEU A 126 N ILE A 2 SHEET 6 A 7 THR A 160 LEU A 164 1 O ILE A 161 N TYR A 129 SHEET 7 A 7 LEU A 220 TYR A 221 1 O LEU A 220 N LEU A 164 SHEET 1 B 7 ILE B 48 ASP B 49 0 SHEET 2 B 7 VAL B 30 ASN B 34 1 N ASN B 34 O ILE B 48 SHEET 3 B 7 TYR B 97 ASP B 101 1 O ASP B 101 N VAL B 33 SHEET 4 B 7 MET B 1 GLY B 7 1 N VAL B 3 O ILE B 100 SHEET 5 B 7 LEU B 126 SER B 131 1 O VAL B 128 N VAL B 4 SHEET 6 B 7 THR B 159 LEU B 164 1 O ILE B 161 N VAL B 127 SHEET 7 B 7 LEU B 220 TYR B 221 1 O LEU B 220 N LEU B 164 SSBOND 1 CYS A 143 CYS A 207 1555 1555 2.04 SSBOND 2 CYS B 143 CYS B 207 1555 1555 2.02 LINK OG1 THR A 14 MG MG A 501 1555 1555 2.08 LINK O1B GDP A 401 MG MG A 501 1555 1555 2.03 LINK MG MG A 501 O HOH A 502 1555 1555 2.16 LINK MG MG A 501 O HOH A 504 1555 1555 2.17 LINK MG MG A 501 O HOH A 506 1555 1555 2.04 LINK MG MG A 501 O HOH A 507 1555 1555 1.91 LINK O HOH A 510 MG MG B 503 1555 1555 3.14 LINK O HOH A 582 MG MG B 503 1555 1555 3.08 LINK OG1 THR B 14 MG MG B 502 1555 1555 2.08 LINK O1B GDP B 402 MG MG B 502 1555 1555 2.06 LINK MG MG B 502 O HOH B 504 1555 1555 2.16 LINK MG MG B 502 O HOH B 505 1555 1555 2.00 LINK MG MG B 502 O HOH B 506 1555 1555 2.14 LINK MG MG B 502 O HOH B 507 1555 1555 2.14 SITE 1 AC1 6 THR A 14 GDP A 401 HOH A 502 HOH A 504 SITE 2 AC1 6 HOH A 506 HOH A 507 SITE 1 AC2 6 THR B 14 GDP B 402 HOH B 504 HOH B 505 SITE 2 AC2 6 HOH B 506 HOH B 507 SITE 1 AC3 5 HOH A 582 GLY B 65 PRO B 66 ASN B 67 SITE 2 AC3 5 GLY B 68 SITE 1 AC4 21 GLY A 10 SER A 11 GLY A 12 LYS A 13 SITE 2 AC4 21 THR A 14 THR A 15 ASN A 165 LYS A 166 SITE 3 AC4 21 ASP A 168 LEU A 169 SER A 223 ALA A 224 SITE 4 AC4 21 LYS A 225 MG A 501 HOH A 502 HOH A 504 SITE 5 AC4 21 HOH A 506 HOH A 542 HOH A 595 HOH A 598 SITE 6 AC4 21 HOH A 626 SITE 1 AC5 20 GLY B 10 SER B 11 GLY B 12 LYS B 13 SITE 2 AC5 20 THR B 14 THR B 15 ASN B 165 LYS B 166 SITE 3 AC5 20 ASP B 168 LEU B 169 SER B 223 ALA B 224 SITE 4 AC5 20 LYS B 225 MG B 502 HOH B 506 HOH B 507 SITE 5 AC5 20 HOH B 522 HOH B 543 HOH B 572 HOH B 660 CRYST1 59.470 85.210 60.570 90.00 94.61 90.00 P 1 21 1 4 ORIGX1 1.000000 0.000000 0.000000 0.00000 ORIGX2 0.000000 1.000000 0.000000 0.00000 ORIGX3 0.000000 0.000000 1.000000 0.00000 SCALE1 0.016815 0.000000 0.001356 0.00000 SCALE2 0.000000 0.011736 0.000000 0.00000 SCALE3 0.000000 0.000000 0.016563 0.00000