HEADER NUCLEOTIDE BINDING 24-AUG-06 2J45 TITLE WATER STRUCTURE OF T. AQUATICUS FFH NG DOMAIN AT 1.1A RESOLUTION COMPND MOL_ID: 1; COMPND 2 MOLECULE: SIGNAL RECOGNITION PARTICLE PROTEIN; COMPND 3 CHAIN: A, B; COMPND 4 FRAGMENT: G DOMAIN, RESIDUES 1-296; COMPND 5 SYNONYM: FIFTY-FOUR HOMOLOG; 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 RIBONUCLEOPROTEIN, NUCLEOTIDE-BINDING, SRP, FFH, WATER, GTPASE, RNA- KEYWDS 2 BINDING, GTP-BINDING, SIGNAL RECOGNITION PARTICLE, NUCLEOTIDE KEYWDS 3 BINDING EXPDTA X-RAY DIFFRACTION AUTHOR D.M.FREYMANN,U.D.RAMIREZ REVDAT 5 13-DEC-23 2J45 1 LINK REVDAT 4 22-MAY-19 2J45 1 REMARK LINK REVDAT 3 24-FEB-09 2J45 1 VERSN REVDAT 2 07-DEC-06 2J45 1 JRNL DBREF REVDAT 1 30-NOV-06 2J45 0 JRNL AUTH U.D.RAMIREZ,D.M.FREYMANN JRNL TITL ANALYSIS OF PROTEIN HYDRATION IN ULTRA-HIGH RESOLUTION JRNL TITL 2 STRUCTURES OF THE SRP GTPASE FFH JRNL REF ACTA CRYSTALLOGR.,SECT.D V. 62 1520 2006 JRNL REFN ISSN 0907-4449 JRNL PMID 17139088 JRNL DOI 10.1107/S0907444906040807 REMARK 1 REMARK 1 REFERENCE 1 REMARK 1 AUTH U.D.RAMIREZ,G.MINASOV,P.J.FOCIA,R.STROUD,P.WALTER,P.KUHN, REMARK 1 AUTH 2 D.M.FREYMANN REMARK 1 TITL STRUCTURAL BASIS FOR MOBILITY IN THE 1.1A CRYSTAL STRUCTURE REMARK 1 TITL 2 OF THE NG DOMAIN OF T. AQUATICUS FFH REMARK 1 REF J.MOL.BIOL. V. 320 783 2002 REMARK 1 REFN ISSN 0022-2836 REMARK 1 PMID 12095255 REMARK 1 DOI 10.1016/S0022-2836(02)00476-X REMARK 2 REMARK 2 RESOLUTION. 1.14 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5 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) : 1.14 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 29.84 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 87.0 REMARK 3 NUMBER OF REFLECTIONS : 170680 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) : 0.121 REMARK 3 R VALUE (WORKING SET) : 0.119 REMARK 3 FREE R VALUE : 0.154 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 7.100 REMARK 3 FREE R VALUE TEST SET COUNT : 13120 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) : 1.14 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.16 REMARK 3 REFLECTION IN BIN (WORKING SET) : 10257 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : NULL REMARK 3 BIN R VALUE (WORKING SET) : 0.1570 REMARK 3 BIN FREE R VALUE SET COUNT : 794 REMARK 3 BIN FREE R VALUE : 0.1900 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 4562 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 59 REMARK 3 SOLVENT ATOMS : 900 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 16.09 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): 0.040 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.040 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.022 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 1.008 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.983 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.975 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 6966 ; 0.015 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): 6773 ; 0.002 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 9508 ; 2.099 ; 2.031 REMARK 3 BOND ANGLES OTHERS (DEGREES): 15703 ; 0.889 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 949 ; 5.859 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 326 ;34.376 ;22.454 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 1324 ;12.463 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 103 ;17.463 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 1022 ; 0.093 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 8228 ; 0.009 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 1493 ; 0.004 ; 0.020 REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 1372 ; 0.261 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): 6508 ; 0.197 ; 0.200 REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 2850 ; 0.176 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): 3805 ; 0.086 ; 0.200 REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 610 ; 0.201 ; 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): 29 ; 0.323 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): 116 ; 0.333 ; 0.200 REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 80 ; 0.246 ; 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): 4341 ; 3.172 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 7040 ; 4.075 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 2652 ; 6.885 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 2467 ; 9.100 ; 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 : 1.20 REMARK 3 ION PROBE RADIUS : 0.80 REMARK 3 SHRINKAGE RADIUS : 0.80 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NO WATER HYDROGEN ATOMS ARE INCLUDED IN REMARK 3 THESE COORDINATES REMARK 4 REMARK 4 2J45 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 24-AUG-06. REMARK 100 THE DEPOSITION ID IS D_1290029830. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 23-NOV-02 REMARK 200 TEMPERATURE (KELVIN) : 100.0 REMARK 200 PH : 6.10 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : APS REMARK 200 BEAMLINE : 14-BM-C REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.90 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC CCD REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 195214 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.140 REMARK 200 RESOLUTION RANGE LOW (A) : 30.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : -3.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 93.0 REMARK 200 DATA REDUNDANCY : 3.800 REMARK 200 R MERGE (I) : 0.05000 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 24.6000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.14 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.16 REMARK 200 COMPLETENESS FOR SHELL (%) : 88.8 REMARK 200 DATA REDUNDANCY IN SHELL : 3.20 REMARK 200 R MERGE FOR SHELL (I) : 0.31000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 4.000 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: NULL REMARK 200 STARTING MODEL: PDB ENTRY 1JPN REMARK 200 REMARK 200 REMARK: DATA WERE COLLECTED IN THREE OVERLAPPING RESOLUTION PASSES REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 45.30 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.30 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 30% MPD, 100MM MES, PH 6.1, 20MM REMARK 280 CACL2, 2MM MGCL2, PH 6.10 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 54.30100 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 27.15150 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 54.30100 REMARK 290 SMTRY2 4 0.000000 1.000000 0.000000 27.15150 REMARK 290 SMTRY3 4 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 350 REMARK 350 COORDINATES FOR A COMPLETE MULTIMER REPRESENTING THE KNOWN REMARK 350 BIOLOGICALLY SIGNIFICANT OLIGOMERIZATION STATE OF THE REMARK 350 MOLECULE CAN BE GENERATED BY APPLYING BIOMT TRANSFORMATIONS REMARK 350 GIVEN BELOW. BOTH NON-CRYSTALLOGRAPHIC AND REMARK 350 CRYSTALLOGRAPHIC OPERATIONS ARE GIVEN. REMARK 350 REMARK 350 BIOMOLECULE: 1 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: MONOMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PQS REMARK 350 APPLY THE FOLLOWING TO CHAINS: A REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 350 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 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 LYS A 83 CE NZ REMARK 470 ARG A 98 CG CD NE CZ NH1 NH2 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 OH TYR A 79 OE2 GLU A 285 1.73 REMARK 500 OD1 ASP B 40 O HOH B 2102 2.02 REMARK 500 O VAL A 64 O HOH A 2140 2.05 REMARK 500 OD1 ASP B 40 O HOH B 2101 2.12 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 128 NE - CZ - NH2 ANGL. DEV. = -4.7 DEGREES REMARK 500 ARG A 142 NE - CZ - NH1 ANGL. DEV. = 3.4 DEGREES REMARK 500 ASP A 195 CB - CG - OD2 ANGL. DEV. = 5.8 DEGREES REMARK 500 ARG A 204 NE - CZ - NH2 ANGL. DEV. = -3.8 DEGREES REMARK 500 ASP A 234 CB - CG - OD1 ANGL. DEV. = 6.3 DEGREES REMARK 500 ARG B 231 NE - CZ - NH2 ANGL. DEV. = -3.1 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 PHE A 2 68.11 34.32 REMARK 500 ASP A 42 20.78 80.51 REMARK 500 LYS A 96 -157.10 -145.52 REMARK 500 GLN A 224 -33.38 -38.72 REMARK 500 ASP A 248 -20.48 -38.97 REMARK 500 ALA A 251 -76.06 -149.44 REMARK 500 ARG A 252 -57.29 -169.22 REMARK 500 SER A 273 164.45 173.57 REMARK 500 GLN B 63 32.22 72.44 REMARK 500 ARG B 128 71.74 -112.59 REMARK 500 VAL B 159 172.38 -55.96 REMARK 500 ASP B 296 24.00 92.40 REMARK 500 REMARK 500 REMARK: NULL REMARK 525 REMARK 525 SOLVENT REMARK 525 REMARK 525 THE SOLVENT MOLECULES HAVE CHAIN IDENTIFIERS THAT REMARK 525 INDICATE THE POLYMER CHAIN WITH WHICH THEY ARE MOST REMARK 525 CLOSELY ASSOCIATED. THE REMARK LISTS ALL THE SOLVENT REMARK 525 MOLECULES WHICH ARE MORE THAN 5A AWAY FROM THE REMARK 525 NEAREST POLYMER CHAIN (M = MODEL NUMBER; REMARK 525 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE REMARK 525 NUMBER; I=INSERTION CODE): REMARK 525 REMARK 525 M RES CSSEQI REMARK 525 HOH A2007 DISTANCE = 6.33 ANGSTROMS REMARK 525 HOH A2052 DISTANCE = 8.81 ANGSTROMS REMARK 525 HOH A2371 DISTANCE = 6.66 ANGSTROMS REMARK 620 REMARK 620 METAL COORDINATION REMARK 620 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 620 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE): REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CA A1401 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU A 46 OE1 REMARK 620 2 GLU A 46 OE2 52.0 REMARK 620 3 GLU A 207 OE1 78.3 81.6 REMARK 620 4 GLU A 207 OE2 117.4 81.5 52.6 REMARK 620 5 HOH A2350 O 144.9 157.6 88.4 76.5 REMARK 620 6 GLU B 72 OE1 77.5 103.9 143.5 163.0 96.0 REMARK 620 7 GLU B 72 OE2 77.5 69.6 150.0 127.4 121.5 44.2 REMARK 620 8 HOH B2156 O 131.3 89.5 130.0 77.5 81.7 86.4 59.8 REMARK 620 9 HOH B2157 O 82.3 134.0 84.0 121.6 63.9 66.1 109.9 131.6 REMARK 620 N 1 2 3 4 5 6 7 8 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CA B1401 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HOH A2456 O REMARK 620 2 HOH A2459 O 78.7 REMARK 620 3 GLU B 46 OE1 79.4 77.6 REMARK 620 4 GLU B 46 OE2 94.2 129.3 51.9 REMARK 620 5 GLU B 207 OE2 145.6 131.6 118.4 78.4 REMARK 620 6 GLU B 207 OE1 160.1 90.4 82.0 79.8 52.1 REMARK 620 7 HOH B2306 O 98.9 74.7 151.9 154.8 78.6 94.0 REMARK 620 8 HOH B2307 O 71.8 138.6 123.0 82.0 73.8 125.3 81.8 REMARK 620 N 1 2 3 4 5 6 7 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NA A1299 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CA A1401 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CA B1401 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MRD A1300 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MES A1302 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MES A1303 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MRD B1298 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MES B1299 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO B1300 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1FFH RELATED DB: PDB REMARK 900 N AND GTPASE DOMAINS OF THE SIGNAL SEQUENCE RECOGNITIONPROTEIN FFH REMARK 900 FROM THERMUS 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 RESOLUTION REMARK 900 RELATED ID: 1NG1 RELATED DB: PDB REMARK 900 N AND GTPASE DOMAINS OF THE SIGNAL SEQUENCE RECOGNITIONPROTEIN FFH REMARK 900 FROM THERMUS AQUATICUS REMARK 900 RELATED ID: 1O87 RELATED DB: PDB REMARK 900 A NEW MGGDP COMPLEX OF THE FFH NG DOMAIN REMARK 900 RELATED ID: 1OKK RELATED DB: PDB REMARK 900 A SCARILY SYMMETRIC HOMO-HETERODIMER REMARK 900 RELATED ID: 1RJ9 RELATED DB: PDB REMARK 900 STRUCTURE OF THE HETERODIMER OF THE CONSERVED GTPASEDOMAINS OF THE REMARK 900 SIGNAL RECOGNITION PARTICLE (FFH) AND ITSRECEPTOR ( FTSY) REMARK 900 RELATED ID: 1RY1 RELATED DB: PDB REMARK 900 STRUCTURE OF THE SIGNAL RECOGNITION PARTICLE INTERACTINGWITH THE REMARK 900 ELONGATION-ARRESTED RIBOSOME REMARK 900 RELATED ID: 2C03 RELATED DB: PDB REMARK 900 GDP COMPLEX OF SRP GTPASE FFH NG DOMAIN REMARK 900 RELATED ID: 2C04 RELATED DB: PDB REMARK 900 GMPPCP COMPLEX OF SRP GTPASE FFH NG DOMAIN AT ULTRA-HIGH RESOLUTION REMARK 900 RELATED ID: 2CNW RELATED DB: PDB REMARK 900 GDPALF4 COMPLEX OF THE SRP GTPASES FFH AND FTSY REMARK 900 RELATED ID: 2FFH RELATED DB: PDB REMARK 900 THE SIGNAL SEQUENCE BINDING PROTEIN FFH FROM THERMUSAQUATICUS REMARK 900 RELATED ID: 2J46 RELATED DB: PDB REMARK 900 WATER STRUCTURE OF T. AQUATICUS FFH NG DOMAIN AT 1.1A RESOLUTION REMARK 900 RELATED ID: 2NG1 RELATED DB: PDB REMARK 900 N AND GTPASE DOMAINS OF THE SIGNAL SEQUENCE RECOGNITIONPROTEIN FFH REMARK 900 FROM THERMUS AQUATICUS REMARK 900 RELATED ID: 3NG1 RELATED DB: PDB REMARK 900 N AND GTPASE DOMAINS OF THE SIGNAL SEQUENCE RECOGNITIONPROTEIN FFH REMARK 900 FROM THERMUS AQUATICUS DBREF 2J45 A 1 1 PDB 2J45 2J45 1 1 DBREF 2J45 A 2 297 UNP O07347 SRP54_THEAQ 1 296 DBREF 2J45 B 1 1 PDB 2J45 2J45 1 1 DBREF 2J45 B 2 297 UNP O07347 SRP54_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 NA A1299 1 HET MRD A1300 21 HET MES A1302 24 HET MES A1303 24 HET CA A1401 1 HET MRD B1298 21 HET MES B1299 24 HET EDO B1300 9 HET CA B1401 1 HETNAM NA SODIUM ION HETNAM MRD (4R)-2-METHYLPENTANE-2,4-DIOL HETNAM MES 2-(N-MORPHOLINO)-ETHANESULFONIC ACID HETNAM CA CALCIUM ION HETNAM EDO 1,2-ETHANEDIOL HETSYN EDO ETHYLENE GLYCOL FORMUL 3 NA NA 1+ FORMUL 4 MRD 2(C6 H14 O2) FORMUL 5 MES 3(C6 H13 N O4 S) FORMUL 7 CA 2(CA 2+) FORMUL 10 EDO C2 H6 O2 FORMUL 12 HOH *900(H2 O) 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 ARG A 138 GLY A 153 1 16 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 VAL A 237 1 15 HELIX 10 10 LYS A 246 ASP A 250 5 5 HELIX 11 11 GLY A 253 GLY A 264 1 12 HELIX 12 12 LYS A 275 GLU A 277 5 3 HELIX 13 13 TYR A 283 LEU A 292 1 10 HELIX 14 14 PHE B 2 ARG B 15 1 14 HELIX 15 15 THR B 23 ALA B 41 1 19 HELIX 16 16 ASN B 44 LYS B 62 1 19 HELIX 17 17 GLN B 63 SER B 67 5 5 HELIX 18 18 THR B 69 LEU B 86 1 18 HELIX 19 19 GLY B 110 LYS B 125 1 16 HELIX 20 20 ARG B 138 GLY B 153 1 16 HELIX 21 21 SER B 164 GLU B 179 1 16 HELIX 22 22 ASP B 195 GLY B 210 1 16 HELIX 23 23 GLY B 223 VAL B 237 1 15 HELIX 24 24 LYS B 246 ASP B 250 5 5 HELIX 25 25 GLY B 253 GLY B 264 1 12 HELIX 26 26 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 LEU B 100 VAL B 104 1 O TRP B 101 N VAL B 186 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 O BGLN A 107 O2S MES A1303 1555 1555 1.69 LINK OE1 GLU A 46 CA CA A1401 2655 1555 2.47 LINK OE2 GLU A 46 CA CA A1401 2655 1555 2.48 LINK OE1 GLU A 207 CA CA A1401 1555 1555 2.51 LINK OE2 GLU A 207 CA CA A1401 1555 1555 2.45 LINK NA NA A1299 O HOH A2476 1555 1555 2.55 LINK CA CA A1401 O HOH A2350 1555 1555 2.42 LINK CA CA A1401 OE1 GLU B 72 1555 2665 2.42 LINK CA CA A1401 OE2 GLU B 72 1555 2665 2.98 LINK CA CA A1401 O HOH B2156 1555 2665 2.40 LINK CA CA A1401 O HOH B2157 1555 2665 2.48 LINK O HOH A2456 CA CA B1401 1555 1555 2.37 LINK O HOH A2459 CA CA B1401 1555 1555 2.44 LINK OE1 GLU B 46 CA CA B1401 1555 1555 2.46 LINK OE2 GLU B 46 CA CA B1401 1555 1555 2.51 LINK OE2 GLU B 207 CA CA B1401 2656 1555 2.45 LINK OE1 GLU B 207 CA CA B1401 2656 1555 2.54 LINK CA CA B1401 O HOH B2306 1555 2656 2.35 LINK CA CA B1401 O HOH B2307 1555 2656 2.42 SITE 1 AC1 6 GLY A 110 THR A 112 THR A 113 MES A1303 SITE 2 AC1 6 HOH A2238 HOH A2476 SITE 1 AC2 6 GLU A 46 GLU A 207 HOH A2350 GLU B 72 SITE 2 AC2 6 HOH B2156 HOH B2157 SITE 1 AC3 6 HOH A2456 HOH A2459 GLU B 46 GLU B 207 SITE 2 AC3 6 HOH B2306 HOH B2307 SITE 1 AC4 4 LYS A 151 PRO A 276 HOH A2249 HOH A2465 SITE 1 AC5 11 ARG A 146 VAL A 156 LEU A 157 GLU A 158 SITE 2 AC5 11 HOH A2467 HOH A2468 HOH A2469 HOH A2470 SITE 3 AC5 11 HOH A2471 HOH A2472 ARG B 19 SITE 1 AC6 16 GLN A 107 GLY A 108 LYS A 111 THR A 112 SITE 2 AC6 16 ALA A 141 GLN A 144 GLY A 190 NA A1299 SITE 3 AC6 16 HOH A2186 HOH A2240 HOH A2473 HOH A2474 SITE 4 AC6 16 HOH A2475 HOH A2476 HOH A2477 HOH A2478 SITE 1 AC7 7 LEU B 247 TYR B 283 ARG B 286 LEU B 287 SITE 2 AC7 7 ARG B 290 HOH B2393 HOH B2394 SITE 1 AC8 10 GLN B 107 GLY B 108 SER B 109 GLY B 110 SITE 2 AC8 10 LYS B 111 THR B 112 THR B 113 GLN B 144 SITE 3 AC8 10 HOH B2195 HOH B2419 SITE 1 AC9 8 GLU A 285 HOH A2448 ARG B 35 ARG B 49 SITE 2 AC9 8 VAL B 52 HOH B2128 HOH B2420 HOH B2422 CRYST1 108.602 54.303 99.776 90.00 99.36 90.00 C 1 2 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 0.009208 0.000000 0.001518 0.00000 SCALE2 0.000000 0.018415 0.000000 0.00000 SCALE3 0.000000 0.000000 0.010158 0.00000 MTRIX1 1 -0.837332 0.022351 0.546238 65.87580 1 MTRIX2 1 0.020859 0.999743 -0.008932 0.00000 1 MTRIX3 1 -0.546297 0.003915 -0.837582 0.00000 1