PDB Short entry for 1O87 HEADER PROTEIN TRANSPORT 25-NOV-02 1O87 TITLE A NEW MGGDP COMPLEX OF THE FFH NG DOMAIN COMPND MOL_ID: 1; COMPND 2 MOLECULE: SIGNAL RECOGNITION PARTICLE PROTEIN; COMPND 3 CHAIN: A, B; COMPND 4 FRAGMENT: NG GTPASE DOMAIN, RESIDUES 1-296; COMPND 5 SYNONYM: FIFTY-FOUR HOMOLOG, FFH; COMPND 6 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: THERMUS AQUATICUS; SOURCE 3 ORGANISM_TAXID: 271; SOURCE 4 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 5 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS PROTEIN TRANSPORT, FFH, SIGNAL RECOGNITION PARTICLE, SRP, KEYWDS 2 GTPASE, GTP-BINDING, RNA-BINDING EXPDTA X-RAY DIFFRACTION AUTHOR D.M.FREYMANN REVDAT 3 24-FEB-09 1O87 1 VERSN REVDAT 2 25-MAR-04 1O87 1 JRNL REVDAT 1 02-JAN-04 1O87 0 JRNL AUTH P.J.FOCIA,H.ALAM,T.LU,U.D.RAMIREZ,D.M.FREYMANN JRNL TITL NOVEL PROTEIN AND MG2+ CONFIGURATIONS IN THE JRNL TITL 2 MG2+GDP COMPLEX OF THE SRP GTPASE FFH JRNL REF PROTEINS: STRUCT.,FUNCT., V. 54 222 2004 JRNL REF 2 GENET. JRNL REFN ISSN 0887-3585 JRNL PMID 14696184 JRNL DOI 10.1002/PROT.10598 REMARK 2 REMARK 2 RESOLUTION. 2.1 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.1.19 REMARK 3 AUTHORS : MURSHUDOV,VAGIN,DODSON REMARK 3 REMARK 3 REFINEMENT TARGET : MAXIMUM LIKELIHOOD REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.10 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 56.80 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 97.1 REMARK 3 NUMBER OF REFLECTIONS : 38000 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) : 0.197 REMARK 3 R VALUE (WORKING SET) : 0.195 REMARK 3 FREE R VALUE : 0.237 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 2023 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) : 2.10 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.15 REMARK 3 REFLECTION IN BIN (WORKING SET) : 2710 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : NULL REMARK 3 BIN R VALUE (WORKING SET) : 0.2000 REMARK 3 BIN FREE R VALUE SET COUNT : 144 REMARK 3 BIN FREE R VALUE : 0.2830 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 4620 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 76 REMARK 3 SOLVENT ATOMS : 274 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 23.96 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.37000 REMARK 3 B22 (A**2) : -0.64000 REMARK 3 B33 (A**2) : 1.35000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 0.45000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.220 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.184 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.133 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 4.928 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.941 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.913 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 4771 ; 0.018 ; 0.021 REMARK 3 BOND LENGTHS OTHERS (A): 4655 ; 0.002 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 6440 ; 1.669 ; 2.027 REMARK 3 BOND ANGLES OTHERS (DEGREES): 10744 ; 0.881 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 605 ; 5.567 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): NULL ; NULL ; NULL REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 727 ; 0.087 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 5274 ; 0.006 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 951 ; 0.002 ; 0.020 REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 1020 ; 0.212 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): 5344 ; 0.243 ; 0.200 REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION OTHERS (A): 2995 ; 0.085 ; 0.200 REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 240 ; 0.180 ; 0.200 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): 23 ; 0.215 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): 101 ; 0.320 ; 0.200 REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 19 ; 0.247 ; 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): 2979 ; 0.849 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 4737 ; 1.580 ; 2.000 REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1792 ; 2.654 ; 3.000 REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1703 ; 4.527 ; 4.500 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: HYDROGENS HAVE BEEN ADDED IN THE REMARK 3 RIDING POSITIONS REMARK 4 REMARK 4 1O87 COMPLIES WITH FORMAT V. 3.15, 01-DEC-08 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 26-NOV-02. REMARK 100 THE PDBE ID CODE IS EBI-11782. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 14-JUN-98 REMARK 200 TEMPERATURE (KELVIN) : 100.0 REMARK 200 PH : 7.00 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : APS REMARK 200 BEAMLINE : 5ID-B REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.96392 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MARRESEARCH REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 40999 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.100 REMARK 200 RESOLUTION RANGE LOW (A) : 20.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : -3.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.5 REMARK 200 DATA REDUNDANCY : 3.200 REMARK 200 R MERGE (I) : 0.04500 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 24.1000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.10 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.17 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.9 REMARK 200 DATA REDUNDANCY IN SHELL : 3.20 REMARK 200 R MERGE FOR SHELL (I) : 0.15900 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> FOR SHELL : 6.100 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MAD REMARK 200 SOFTWARE USED: AMORE REMARK 200 STARTING MODEL: PDB ENTRY 1FFH REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): NULL REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): NULL REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 4.0 M SODIUM FORMATE 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 56.81550 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 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 300 DETAILS:CHAIN B WAS TRANSFORMED USING CRYSTALLOGRAPHIC REMARK 300 SYMMETRYTO BRING CHAINS B INTO CONTACT WITH REMARK 300 CHAIN A AND PLACETHEM IN THE SAME ASYMMETRIC REMARK 300 UNIT. REMARK 350 REMARK 350 GENERATING THE BIOMOLECULE 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 350 BIOMOLECULE: 2 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: 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 400 REMARK 400 COMPOUND REMARK 400 ESSENTIAL FOR EFFICIENT EXPORT OF EXTRA-CYTOPLASMIC REMARK 400 PROTEINS. BINDS TO THE SIGNAL SEQUENCE OF PROTEINS WHEN REMARK 400 IT EMERGES FROM THE RIBOSOMES. TWO DOMAIN ARCHITECTURE: NG-DOMAIN REMARK 400 BINDS GTP, M-DOMAIN BINDS RNA AND SIGNAL PEPTIDE OF THE PROTEIN REMARK 400 TO BE TRANSPORTED. MEMBER OF THE SRP FAMILY OF GTP-BINDING PROTEINS 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 296 REMARK 465 VAL A 297 REMARK 465 ASP B 296 REMARK 465 VAL B 297 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 NZ LYS A 123 - O GLY A 153 2.20 REMARK 500 NZ LYS A 175 - OE2 GLU A 179 2.12 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 REMARK 500 MG MG A 1301 O HOH B 2110 1644 2.19 REMARK 500 MG MG A 1301 O HOH B 2111 1644 2.20 REMARK 500 MG MG B 1301 O HOH A 2085 1654 2.19 REMARK 500 O HOH A 2085 MG MG B 1301 1644 2.19 REMARK 500 O HOH B 2110 MG MG A 1301 1654 2.19 REMARK 500 O HOH B 2111 MG MG A 1301 1654 2.20 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 32 NE - CZ - NH2 ANGL. DEV. = -3.1 DEGREES REMARK 500 ASP A 50 CB - CG - OD2 ANGL. DEV. = 5.8 DEGREES REMARK 500 ASP A 195 CB - CG - OD2 ANGL. DEV. = 5.8 DEGREES REMARK 500 ASP B 161 CB - CG - OD2 ANGL. DEV. = 6.5 DEGREES REMARK 500 ASP B 182 CB - CG - OD2 ANGL. DEV. = 7.7 DEGREES REMARK 500 ASP B 250 CB - CG - OD2 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 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 LYS A 96 -166.02 -116.34 REMARK 500 ALA A 140 12.34 56.65 REMARK 500 LYS B 96 -156.42 -118.94 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 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 A1300 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HOH A2055 O REMARK 620 2 THR A 112 OG1 88.1 REMARK 620 3 HOH A2127 O 89.6 93.6 REMARK 620 4 HOH A2128 O 86.0 173.3 89.6 REMARK 620 5 GDP A1299 O1B 172.5 92.3 82.8 93.9 REMARK 620 6 HOH A2074 O 88.9 88.0 177.8 88.7 98.6 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG A1301 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 212 O REMARK 620 2 HOH A2091 O 90.8 REMARK 620 3 HOH A2032 O 130.1 122.7 REMARK 620 4 HOH A2090 O 77.9 94.2 127.9 REMARK 620 5 HOH A2092 O 92.8 170.9 49.3 94.7 REMARK 620 N 1 2 3 4 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG B1300 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 THR B 112 OG1 REMARK 620 2 GDP B1299 O1B 94.4 REMARK 620 3 HOH B2143 O 88.4 77.5 REMARK 620 4 HOH B2067 O 99.3 164.3 95.2 REMARK 620 5 HOH B2098 O 93.4 99.7 176.8 87.2 REMARK 620 N 1 2 3 4 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG B1301 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HOH B2117 O REMARK 620 2 ASP B 212 O 91.1 REMARK 620 3 HOH B2116 O 91.5 74.7 REMARK 620 N 1 2 REMARK 650 REMARK 650 HELIX REMARK 650 DETERMINATION METHOD: AUTHOR PROVIDED. REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CL A1296 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG A1300 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG A1301 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG B1300 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG B1301 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GDP A1299 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GDP B1299 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE FMT A1297 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE FMT A1298 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE FMT B1296 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE FMT B1297 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE FMT B1298 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1FFH RELATED DB: PDB REMARK 900 N AND GTPASE DOMAINS OF THE SIGNAL REMARK 900 SEQUENCE RECOGNITIONPROTEIN FFH FROM THERMUS REMARK 900 AQUATICUS REMARK 900 RELATED ID: 1JPJ RELATED DB: PDB REMARK 900 GMPPNP COMPLEX OF SRP GTPASE NG DOMAIN REMARK 900 RELATED ID: 1JPN RELATED DB: PDB REMARK 900 GMPPNP COMPLEX OF SRP GTPASE NG DOMAIN REMARK 900 RELATED ID: 1LS1 RELATED DB: PDB REMARK 900 T. AQUATICUS FFH NG DOMAIN AT 1.1A REMARK 900 RESOLUTION REMARK 900 RELATED ID: 1NG1 RELATED DB: PDB REMARK 900 N AND GTPASE DOMAINS OF THE SIGNAL REMARK 900 SEQUENCE RECOGNITIONPROTEIN FFH FROM THERMUS REMARK 900 AQUATICUS REMARK 900 RELATED ID: 2FFH RELATED DB: PDB REMARK 900 THE SIGNAL SEQUENCE BINDING PROTEIN FFH FROM REMARK 900 THERMUSAQUATICUS REMARK 900 RELATED ID: 2NG1 RELATED DB: PDB REMARK 900 N AND GTPASE DOMAINS OF THE SIGNAL REMARK 900 SEQUENCE RECOGNITIONPROTEIN FFH FROM THERMUS REMARK 900 AQUATICUS REMARK 900 RELATED ID: 3NG1 RELATED DB: PDB REMARK 900 N AND GTPASE DOMAINS OF THE SIGNAL REMARK 900 SEQUENCE RECOGNITIONPROTEIN FFH FROM THERMUS REMARK 900 AQUATICUS DBREF 1O87 A 1 1 PDB 1O87 1O87 1 1 DBREF 1O87 A 2 297 UNP O07347 SR54_THEAQ 1 296 DBREF 1O87 B 1 1 PDB 1O87 1O87 1 1 DBREF 1O87 B 2 297 UNP O07347 SR54_THEAQ 1 296 SEQRES 1 A 297 MET PHE GLN GLN LEU SER ALA ARG LEU GLN GLU ALA ILE SEQRES 2 A 297 GLY ARG LEU ARG GLY ARG GLY ARG ILE THR GLU GLU ASP SEQRES 3 A 297 LEU LYS ALA THR LEU ARG GLU ILE ARG ARG ALA LEU MET SEQRES 4 A 297 ASP ALA ASP VAL ASN LEU GLU VAL ALA ARG ASP PHE VAL SEQRES 5 A 297 GLU ARG VAL ARG GLU GLU ALA LEU GLY LYS GLN VAL LEU SEQRES 6 A 297 GLU SER LEU THR PRO ALA GLU VAL ILE LEU ALA THR VAL SEQRES 7 A 297 TYR GLU ALA LEU LYS GLU ALA LEU GLY GLY GLU ALA ARG SEQRES 8 A 297 LEU PRO VAL LEU LYS ASP ARG ASN LEU TRP PHE LEU VAL SEQRES 9 A 297 GLY LEU GLN GLY SER GLY LYS THR THR THR ALA ALA LYS SEQRES 10 A 297 LEU ALA LEU TYR TYR LYS GLY LYS GLY ARG ARG PRO LEU SEQRES 11 A 297 LEU VAL ALA ALA ASP THR GLN ARG PRO ALA ALA ARG GLU SEQRES 12 A 297 GLN LEU ARG LEU LEU GLY GLU LYS VAL GLY VAL PRO VAL SEQRES 13 A 297 LEU GLU VAL MET ASP GLY GLU SER PRO GLU SER ILE ARG SEQRES 14 A 297 ARG ARG VAL GLU GLU LYS ALA ARG LEU GLU ALA ARG ASP SEQRES 15 A 297 LEU ILE LEU VAL ASP THR ALA GLY ARG LEU GLN ILE ASP SEQRES 16 A 297 GLU PRO LEU MET GLY GLU LEU ALA ARG LEU LYS GLU VAL SEQRES 17 A 297 LEU GLY PRO ASP GLU VAL LEU LEU VAL LEU ASP ALA MET SEQRES 18 A 297 THR GLY GLN GLU ALA LEU SER VAL ALA ARG ALA PHE ASP SEQRES 19 A 297 GLU LYS VAL GLY VAL THR GLY LEU VAL LEU THR LYS LEU SEQRES 20 A 297 ASP GLY ASP ALA ARG GLY GLY ALA ALA LEU SER ALA ARG SEQRES 21 A 297 HIS VAL THR GLY LYS PRO ILE TYR PHE ALA GLY VAL SER SEQRES 22 A 297 GLU LYS PRO GLU GLY LEU GLU PRO PHE TYR PRO GLU ARG SEQRES 23 A 297 LEU ALA GLY ARG ILE LEU GLY MET GLY ASP VAL SEQRES 1 B 297 MET PHE GLN GLN LEU SER ALA ARG LEU GLN GLU ALA ILE SEQRES 2 B 297 GLY ARG LEU ARG GLY ARG GLY ARG ILE THR GLU GLU ASP SEQRES 3 B 297 LEU LYS ALA THR LEU ARG GLU ILE ARG ARG ALA LEU MET SEQRES 4 B 297 ASP ALA ASP VAL ASN LEU GLU VAL ALA ARG ASP PHE VAL SEQRES 5 B 297 GLU ARG VAL ARG GLU GLU ALA LEU GLY LYS GLN VAL LEU SEQRES 6 B 297 GLU SER LEU THR PRO ALA GLU VAL ILE LEU ALA THR VAL SEQRES 7 B 297 TYR GLU ALA LEU LYS GLU ALA LEU GLY GLY GLU ALA ARG SEQRES 8 B 297 LEU PRO VAL LEU LYS ASP ARG ASN LEU TRP PHE LEU VAL SEQRES 9 B 297 GLY LEU GLN GLY SER GLY LYS THR THR THR ALA ALA LYS SEQRES 10 B 297 LEU ALA LEU TYR TYR LYS GLY LYS GLY ARG ARG PRO LEU SEQRES 11 B 297 LEU VAL ALA ALA ASP THR GLN ARG PRO ALA ALA ARG GLU SEQRES 12 B 297 GLN LEU ARG LEU LEU GLY GLU LYS VAL GLY VAL PRO VAL SEQRES 13 B 297 LEU GLU VAL MET ASP GLY GLU SER PRO GLU SER ILE ARG SEQRES 14 B 297 ARG ARG VAL GLU GLU LYS ALA ARG LEU GLU ALA ARG ASP SEQRES 15 B 297 LEU ILE LEU VAL ASP THR ALA GLY ARG LEU GLN ILE ASP SEQRES 16 B 297 GLU PRO LEU MET GLY GLU LEU ALA ARG LEU LYS GLU VAL SEQRES 17 B 297 LEU GLY PRO ASP GLU VAL LEU LEU VAL LEU ASP ALA MET SEQRES 18 B 297 THR GLY GLN GLU ALA LEU SER VAL ALA ARG ALA PHE ASP SEQRES 19 B 297 GLU LYS VAL GLY VAL THR GLY LEU VAL LEU THR LYS LEU SEQRES 20 B 297 ASP GLY ASP ALA ARG GLY GLY ALA ALA LEU SER ALA ARG SEQRES 21 B 297 HIS VAL THR GLY LYS PRO ILE TYR PHE ALA GLY VAL SER SEQRES 22 B 297 GLU LYS PRO GLU GLY LEU GLU PRO PHE TYR PRO GLU ARG SEQRES 23 B 297 LEU ALA GLY ARG ILE LEU GLY MET GLY ASP VAL HET CL A1296 1 HET MG A1300 1 HET MG A1301 1 HET MG B1300 1 HET MG B1301 1 HET GDP A1299 28 HET GDP B1299 28 HET FMT A1297 3 HET FMT A1298 3 HET FMT B1296 3 HET FMT B1297 3 HET FMT B1298 3 HETNAM CL CHLORIDE ION HETNAM MG MAGNESIUM ION HETNAM GDP GUANOSINE-5'-DIPHOSPHATE HETNAM FMT FORMIC ACID FORMUL 3 CL CL 1- FORMUL 4 MG 4(MG 2+) FORMUL 8 GDP 2(C10 H15 N5 O11 P2) FORMUL 10 FMT 5(C H2 O2) FORMUL 15 HOH *274(H2 O1) HELIX 1 1 PHE A 2 ARG A 15 1 14 HELIX 2 2 THR A 23 ALA A 41 1 19 HELIX 3 3 ASN A 44 LYS A 62 1 19 HELIX 4 4 THR A 69 LEU A 86 1 18 HELIX 5 5 GLY A 110 LYS A 125 1 16 HELIX 6 6 ALA A 140 GLY A 153 1 14 HELIX 7 7 SER A 164 GLU A 179 1 16 HELIX 8 8 ASP A 195 GLY A 210 1 16 HELIX 9 9 GLY A 223 GLY A 238 5 16 HELIX 10 10 GLY A 253 GLY A 264 1 12 HELIX 11 11 TYR A 283 LEU A 292 1 10 HELIX 12 12 PHE B 2 ARG B 15 1 14 HELIX 13 13 THR B 23 ALA B 41 1 19 HELIX 14 14 ASN B 44 LYS B 62 1 19 HELIX 15 15 THR B 69 GLY B 87 1 19 HELIX 16 16 GLY B 110 LYS B 125 1 16 HELIX 17 17 ARG B 138 GLY B 153 1 16 HELIX 18 18 SER B 164 GLU B 179 1 16 HELIX 19 19 ASP B 195 GLY B 210 1 16 HELIX 20 20 GLY B 223 VAL B 237 5 15 HELIX 21 21 GLY B 253 GLY B 264 1 12 HELIX 22 22 TYR B 283 LEU B 292 1 10 SHEET 1 AA 8 VAL A 156 GLU A 158 0 SHEET 2 AA 8 PRO A 129 ALA A 133 1 O LEU A 131 N LEU A 157 SHEET 3 AA 8 LEU A 183 ASP A 187 1 O LEU A 183 N LEU A 130 SHEET 4 AA 8 ASN A 99 VAL A 104 1 O ASN A 99 N ILE A 184 SHEET 5 AA 8 GLU A 213 ASP A 219 1 O GLU A 213 N PHE A 102 SHEET 6 AA 8 GLY A 241 THR A 245 1 O GLY A 241 N LEU A 216 SHEET 7 AA 8 ILE A 267 GLY A 271 1 N TYR A 268 O LEU A 242 SHEET 8 AA 8 LEU A 279 PRO A 281 -1 O GLU A 280 N ALA A 270 SHEET 1 BA 8 VAL B 156 GLU B 158 0 SHEET 2 BA 8 PRO B 129 ALA B 133 1 O LEU B 131 N LEU B 157 SHEET 3 BA 8 LEU B 183 ASP B 187 1 O LEU B 183 N LEU B 130 SHEET 4 BA 8 ASN B 99 VAL B 104 1 O ASN B 99 N ILE B 184 SHEET 5 BA 8 GLU B 213 ASP B 219 1 O GLU B 213 N PHE B 102 SHEET 6 BA 8 GLY B 241 THR B 245 1 O GLY B 241 N LEU B 216 SHEET 7 BA 8 ILE B 267 GLY B 271 1 N TYR B 268 O LEU B 242 SHEET 8 BA 8 LEU B 279 PRO B 281 -1 O GLU B 280 N ALA B 270 LINK MG MG A1300 O HOH A2055 1555 1555 2.07 LINK MG MG A1300 OG1 THR A 112 1555 1555 2.08 LINK MG MG A1300 O HOH A2127 1555 1555 2.08 LINK MG MG A1300 O HOH A2128 1555 1555 2.07 LINK MG MG A1300 O1B GDP A1299 1555 1555 2.08 LINK MG MG A1300 O HOH A2074 1555 1555 2.11 LINK MG MG A1301 O ASP A 212 1555 1555 2.16 LINK MG MG A1301 O HOH A2091 1555 1555 2.20 LINK MG MG A1301 O HOH A2032 1555 1555 3.14 LINK MG MG A1301 O HOH A2090 1555 1555 2.20 LINK MG MG A1301 O HOH A2092 1555 1555 2.23 LINK MG MG B1300 O1B GDP B1299 1555 1555 2.06 LINK MG MG B1300 O HOH B2143 1555 1555 2.07 LINK MG MG B1300 O HOH B2067 1555 1555 2.09 LINK MG MG B1300 O HOH B2098 1555 1555 2.07 LINK MG MG B1300 OG1 THR B 112 1555 1555 2.03 LINK MG MG B1301 O ASP B 212 1555 1555 2.18 LINK MG MG B1301 O HOH B2116 1555 1555 2.18 LINK MG MG B1301 O HOH B2117 1555 1555 2.19 SITE 1 AC1 2 ARG A 32 ARG A 36 SITE 1 AC2 6 THR A 112 GDP A1299 HOH A2055 HOH A2074 SITE 2 AC2 6 HOH A2127 HOH A2128 SITE 1 AC3 4 ASP A 212 HOH A2090 HOH A2091 HOH A2092 SITE 1 AC4 5 THR B 112 GDP B1299 HOH B2067 HOH B2098 SITE 2 AC4 5 HOH B2143 SITE 1 AC5 3 ASP B 212 HOH B2116 HOH B2117 SITE 1 AC6 20 LEU A 106 GLY A 108 SER A 109 GLY A 110 SITE 2 AC6 20 LYS A 111 THR A 112 THR A 113 LYS A 117 SITE 3 AC6 20 GLN A 144 LYS A 246 ASP A 248 GLY A 271 SITE 4 AC6 20 VAL A 272 SER A 273 GLU A 274 MG A1300 SITE 5 AC6 20 HOH A2056 HOH A2127 HOH A2128 HOH A2129 SITE 1 AC7 19 LEU B 106 GLY B 108 SER B 109 GLY B 110 SITE 2 AC7 19 LYS B 111 THR B 112 THR B 113 LYS B 117 SITE 3 AC7 19 LYS B 246 ASP B 248 GLY B 271 VAL B 272 SITE 4 AC7 19 SER B 273 GLU B 274 MG B1300 HOH B2060 SITE 5 AC7 19 HOH B2061 HOH B2070 HOH B2143 SITE 1 AC8 5 PRO A 281 ARG A 286 SER B 67 THR B 69 SITE 2 AC8 5 VAL B 73 SITE 1 AC9 5 ARG A 191 GLN A 193 ASP A 195 LEU A 198 SITE 2 AC9 5 MET A 199 SITE 1 BC1 3 TYR B 79 GLU B 285 HOH B2141 SITE 1 BC2 7 SER A 67 THR A 69 VAL A 73 PRO B 281 SITE 2 BC2 7 ARG B 286 HOH B2134 HOH B2142 SITE 1 BC3 3 ARG B 191 LEU B 192 GLN B 193 CRYST1 55.415 113.631 61.382 90.00 111.76 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 0.018046 0.000000 0.007203 0.00000 SCALE2 0.000000 0.008800 0.000000 0.00000 SCALE3 0.000000 0.000000 0.017541 0.00000 MTRIX1 1 0.702938 -0.008749 0.711197 7.48320 1 MTRIX2 1 -0.011637 -0.999932 -0.000799 17.22840 1 MTRIX3 1 0.711155 -0.007715 -0.702992 -20.11660 1