1HQ1 - Header Asymmetric Unit

HEADER SIGNALING PROTEIN/RNA 13-DEC-00 1HQ1

TITLE STRUCTURAL AND ENERGETIC ANALYSIS OF RNA RECOGNITION BY A TITLE 2 UNIVERSALLY CONSERVED PROTEIN FROM THE SIGNAL RECOGNITION TITLE 3 PARTICLE

COMPND MOL_ID: 1; COMPND 2 MOLECULE: 4.5S RNA DOMAIN IV; COMPND 3 CHAIN: B; COMPND 4 FRAGMENT: RESIDUES 32-74; COMPND 5 ENGINEERED: YES; COMPND 6 MOL_ID: 2; COMPND 7 MOLECULE: SIGNAL RECOGNITION PARTICLE PROTEIN; COMPND 8 CHAIN: A; COMPND 9 FRAGMENT: C TERMINAL DOMAIN (RESIDUES 328-432); COMPND 10 SYNONYM: FIFTY-FOUR HOMOLOG, FFH-M DOMAIN, P48; COMPND 11 ENGINEERED: YES

SOURCE MOL_ID: 1; SOURCE 2 SYNTHETIC: YES; SOURCE 3 MOL_ID: 2; SOURCE 4 ORGANISM_SCIENTIFIC: ESCHERICHIA COLI; SOURCE 5 ORGANISM_TAXID: 562; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 9 EXPRESSION_SYSTEM_PLASMID: PEXFFHM8

KEYWDS PROTEIN-RNA COMPLEX, DOUBLE HELIX, TETRALOOP, INTERNAL LOOP, KEYWDS 2 SIGNAL RECOGNITION PARTICLE, SRP, RIBONUCLEOPROTEIN, KEYWDS 3 SIGNALING PROTEIN/RNA COMPLEX

EXPDTA X-RAY DIFFRACTION

AUTHOR R.T.BATEY,M.B.SAGAR,J.A.DOUDNA

REVDAT 3 24-FEB-09 1HQ1 1 VERSN REVDAT 2 02-APR-01 1HQ1 1 AUTHOR JRNL REVDAT 1 03-JAN-01 1HQ1 0

JRNL AUTH R.T.BATEY,M.B.SAGAR,J.A.DOUDNA JRNL TITL STRUCTURAL AND ENERGETIC ANALYSIS OF RNA JRNL TITL 2 RECOGNITION BY A UNIVERSALLY CONSERVED PROTEIN JRNL TITL 3 FROM THE SIGNAL RECOGNITION PARTICLE. JRNL REF J.MOL.BIOL. V. 307 229 2001 JRNL REFN ISSN 0022-2836 JRNL PMID 11243816 JRNL DOI 10.1006/JMBI.2000.4454

REMARK 1

REMARK 2 REMARK 2 RESOLUTION. 1.52 ANGSTROMS.

REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : SHELXL-97 REMARK 3 AUTHORS : G.M.SHELDRICK REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.52 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 10.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 88.8 REMARK 3 CROSS-VALIDATION METHOD : FREE R REMARK 3 FREE R VALUE TEST SET SELECTION : RANDOM REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT (NO CUTOFF). REMARK 3 R VALUE (WORKING + TEST SET, NO CUTOFF) : 0.156 REMARK 3 R VALUE (WORKING SET, NO CUTOFF) : 0.151 REMARK 3 FREE R VALUE (NO CUTOFF) : 0.199 REMARK 3 FREE R VALUE TEST SET SIZE (%, NO CUTOFF) : 0.000 REMARK 3 FREE R VALUE TEST SET COUNT (NO CUTOFF) : 2031 REMARK 3 TOTAL NUMBER OF REFLECTIONS (NO CUTOFF) : 1178959 REMARK 3 REMARK 3 FIT/AGREEMENT OF MODEL FOR DATA WITH F>4SIG(F). REMARK 3 R VALUE (WORKING + TEST SET, F>4SIG(F)) : 0.150 REMARK 3 R VALUE (WORKING SET, F>4SIG(F)) : NULL REMARK 3 FREE R VALUE (F>4SIG(F)) : NULL REMARK 3 FREE R VALUE TEST SET SIZE (%, F>4SIG(F)) : 0.000 REMARK 3 FREE R VALUE TEST SET COUNT (F>4SIG(F)) : NULL REMARK 3 TOTAL NUMBER OF REFLECTIONS (F>4SIG(F)) : 38752 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 606 REMARK 3 NUCLEIC ACID ATOMS : 1054 REMARK 3 HETEROGEN ATOMS : 7 REMARK 3 SOLVENT ATOMS : 287 REMARK 3 REMARK 3 MODEL REFINEMENT. REMARK 3 OCCUPANCY SUM OF NON-HYDROGEN ATOMS : 1952.00 REMARK 3 OCCUPANCY SUM OF HYDROGEN ATOMS : 0.00 REMARK 3 NUMBER OF DISCRETELY DISORDERED RESIDUES : NULL REMARK 3 NUMBER OF LEAST-SQUARES PARAMETERS : 1758 REMARK 3 NUMBER OF RESTRAINTS : 2208 REMARK 3 REMARK 3 RMS DEVIATIONS FROM RESTRAINT TARGET VALUES. REMARK 3 BOND LENGTHS (A) : 0.010 REMARK 3 ANGLE DISTANCES (A) : 0.030 REMARK 3 SIMILAR DISTANCES (NO TARGET VALUES) (A) : 0.000 REMARK 3 DISTANCES FROM RESTRAINT PLANES (A) : 0.023 REMARK 3 ZERO CHIRAL VOLUMES (A**3) : 0.040 REMARK 3 NON-ZERO CHIRAL VOLUMES (A**3) : 0.060 REMARK 3 ANTI-BUMPING DISTANCE RESTRAINTS (A) : 0.010 REMARK 3 RIGID-BOND ADP COMPONENTS (A**2) : 0.000 REMARK 3 SIMILAR ADP COMPONENTS (A**2) : 0.050 REMARK 3 APPROXIMATELY ISOTROPIC ADPS (A**2) : 0.100 REMARK 3 REMARK 3 BULK SOLVENT MODELING. REMARK 3 METHOD USED: NULL REMARK 3 REMARK 3 STEREOCHEMISTRY TARGET VALUES : ENGH AND HUBER REMARK 3 SPECIAL CASE: NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL

REMARK 4 REMARK 4 1HQ1 COMPLIES WITH FORMAT V. 3.15, 01-DEC-08

REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 18-DEC-00. REMARK 100 THE RCSB ID CODE IS RCSB012504.

REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 20-MAY-99 REMARK 200 TEMPERATURE (KELVIN) : 100.0 REMARK 200 PH : 5.6 REMARK 200 NUMBER OF CRYSTALS USED : 3 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : ALS REMARK 200 BEAMLINE : 5.0.2 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.039177, 1.039988, 0.999 REMARK 200 MONOCHROMATOR : DOUBLE CRYSTAL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : NULL REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 51967 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.520 REMARK 200 RESOLUTION RANGE LOW (A) : 40.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 98.2 REMARK 200 DATA REDUNDANCY : 10.800 REMARK 200 R MERGE (I) : 0.07000 REMARK 200 R SYM (I) : 0.06900 REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 35.3000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.52 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.57 REMARK 200 COMPLETENESS FOR SHELL (%) : 89.3 REMARK 200 DATA REDUNDANCY IN SHELL : 2.50 REMARK 200 R MERGE FOR SHELL (I) : 0.49000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> FOR SHELL : 1.600 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: MAD REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: AMORE REMARK 200 STARTING MODEL: 1DUL REMARK 200 REMARK 200 REMARK: NULL

REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 60.62 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.12 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: NA-MES, ISOPROPANOL, POTASSIUM REMARK 280 CHLORIDE, MAGNESIUM CHLORIDE, MPD, PH 5.6, EVAPORATION, REMARK 280 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 68.27750 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 39.16850 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 68.27750 REMARK 290 SMTRY2 4 0.000000 1.000000 0.000000 39.16850 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 APPLY THE FOLLOWING TO CHAINS: B, 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 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 MET A 13A REMARK 465 LYS A 13B REMARK 465 ASN A 13C REMARK 465 MET A 13D REMARK 465 GLY A 13E REMARK 465 GLY A 13F REMARK 465 MET A 13G REMARK 465 ALA A 13H REMARK 465 SER A 13I REMARK 465 LEU A 13J REMARK 465 MET A 13K REMARK 465 GLY A 13L REMARK 465 LYS A 13M REMARK 465 LEU A 13N REMARK 465 PRO A 13O REMARK 465 GLY A 13P REMARK 465 MET A 13Q REMARK 465 GLY A 13R REMARK 465 GLN A 13S REMARK 465 ILE A 13T REMARK 465 PRO A 13U REMARK 465 ASP A 13V REMARK 465 ASN A 13W REMARK 465 VAL A 13X REMARK 465 LYS A 13Y REMARK 465 SER A 13Z REMARK 465 GLN A 14A REMARK 465 MET A 14B REMARK 465 LYS A 84

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 ASP A 21 CG OD1 OD2 REMARK 470 ASP A 22 CG OD1 OD2 REMARK 470 LYS A 23 CG CD CE NZ REMARK 470 LYS A 83 CG CD CE NZ

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 C B 134 C3' - C2' - C1' ANGL. DEV. = -5.2 DEGREES REMARK 500 U B 135 C2 - N3 - C4 ANGL. DEV. = -3.7 DEGREES REMARK 500 U B 137 N1 - C2 - O2 ANGL. DEV. = -5.0 DEGREES REMARK 500 U B 137 N3 - C2 - O2 ANGL. DEV. = 4.9 DEGREES REMARK 500 U B 139 C6 - N1 - C2 ANGL. DEV. = 4.2 DEGREES REMARK 500 U B 139 C5 - C6 - N1 ANGL. DEV. = -3.4 DEGREES REMARK 500 U B 139 N3 - C4 - O4 ANGL. DEV. = -7.0 DEGREES REMARK 500 U B 139 C5 - C4 - O4 ANGL. DEV. = 4.9 DEGREES REMARK 500 A B 140 N1 - C2 - N3 ANGL. DEV. = -5.0 DEGREES REMARK 500 A B 140 C2 - N3 - C4 ANGL. DEV. = 3.3 DEGREES REMARK 500 A B 140 N1 - C6 - N6 ANGL. DEV. = 6.7 DEGREES REMARK 500 A B 140 C5 - C6 - N6 ANGL. DEV. = -6.1 DEGREES REMARK 500 A B 143 N1 - C2 - N3 ANGL. DEV. = -3.1 DEGREES REMARK 500 G B 145 C3' - C2' - C1' ANGL. DEV. = -4.6 DEGREES REMARK 500 G B 145 C2 - N3 - C4 ANGL. DEV. = 3.0 DEGREES REMARK 500 C B 147 O5' - C5' - C4' ANGL. DEV. = -7.0 DEGREES REMARK 500 G B 150 C2 - N3 - C4 ANGL. DEV. = 3.5 DEGREES REMARK 500 C B 153 C4 - C5 - C6 ANGL. DEV. = 4.1 DEGREES REMARK 500 C B 153 C5 - C6 - N1 ANGL. DEV. = -3.9 DEGREES REMARK 500 G B 154 N9 - C1' - C2' ANGL. DEV. = -8.2 DEGREES REMARK 500 A B 156 N9 - C1' - C2' ANGL. DEV. = 10.0 DEGREES REMARK 500 G B 159 O5' - C5' - C4' ANGL. DEV. = -6.8 DEGREES REMARK 500 G B 159 C5' - C4' - C3' ANGL. DEV. = -9.3 DEGREES REMARK 500 G B 159 C2 - N3 - C4 ANGL. DEV. = -3.1 DEGREES REMARK 500 C B 163 C4 - C5 - C6 ANGL. DEV. = 3.1 DEGREES REMARK 500 C B 163 C5 - C6 - N1 ANGL. DEV. = -3.2 DEGREES REMARK 500 C B 166 C2 - N3 - C4 ANGL. DEV. = 3.6 DEGREES REMARK 500 C B 166 N3 - C4 - C5 ANGL. DEV. = -4.2 DEGREES REMARK 500 A B 168 N1 - C6 - N6 ANGL. DEV. = 4.2 DEGREES REMARK 500 A B 169 N9 - C4 - C5 ANGL. DEV. = 3.1 DEGREES REMARK 500 A B 173 O5' - C5' - C4' ANGL. DEV. = -5.1 DEGREES REMARK 500 C B 177 C6 - N1 - C2 ANGL. DEV. = 3.0 DEGREES REMARK 500 C B 177 C5 - C6 - N1 ANGL. DEV. = -3.8 DEGREES REMARK 500 ASP A 22 C - N - CA ANGL. DEV. = 47.2 DEGREES REMARK 500 ARG A 40 CD - NE - CZ ANGL. DEV. = 12.4 DEGREES REMARK 500 ARG A 40 NE - CZ - NH2 ANGL. DEV. = 3.3 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 ARG A 12 64.48 -100.30 REMARK 500 ASP A 22 -6.71 20.09 REMARK 500 VAL A 24 -43.86 160.47 REMARK 500 LYS A 47 -159.21 -108.32 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: NON-CIS, NON-TRANS REMARK 500 REMARK 500 THE FOLLOWING PEPTIDE BONDS DEVIATE SIGNIFICANTLY FROM BOTH REMARK 500 CIS AND TRANS CONFORMATION. CIS BONDS, IF ANY, ARE LISTED REMARK 500 ON CISPEP RECORDS. TRANS IS DEFINED AS 180 +/- 30 AND REMARK 500 CIS IS DEFINED AS 0 +/- 30 DEGREES. REMARK 500 MODEL OMEGA REMARK 500 ASP A 21 ASP A 22 -53.00 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 B1801 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HOH B9180 O REMARK 620 2 HOH B9011 O 94.9 REMARK 620 3 HOH B9015 O 91.5 90.2 REMARK 620 4 HOH B9025 O 88.7 90.5 179.3 REMARK 620 5 HOH B9028 O 89.4 175.8 89.2 90.1 REMARK 620 6 HOH B9038 O 171.1 93.9 86.8 92.9 81.9 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG B1802 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 C B 141 OP1 REMARK 620 2 HOH B9062 O 99.7 REMARK 620 3 HOH B9040 O 85.5 94.3 REMARK 620 4 HOH B9164 O 83.4 176.1 83.5 REMARK 620 5 HOH B9181 O 143.8 57.4 70.4 118.7 REMARK 620 6 HOH B9282 O 152.9 107.0 87.4 69.7 55.1 REMARK 620 7 HOH B9283 O 87.2 84.6 172.3 98.0 114.9 100.2 REMARK 620 N 1 2 3 4 5 6 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG B1803 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 K B4003 K REMARK 620 2 HOH B9073 O 164.7 REMARK 620 3 HOH B9129 O 94.7 75.4 REMARK 620 4 HOH B9199 O 79.8 88.2 88.8 REMARK 620 5 HOH B9106 O 96.6 92.3 167.3 87.6 REMARK 620 6 G B 149 OP2 93.1 99.8 98.2 170.5 86.9 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG B1804 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HOH B9286 O REMARK 620 2 HOH B9287 O 79.1 REMARK 620 3 HOH B9046 O 165.3 94.8 REMARK 620 4 HOH B9058 O 87.7 157.9 93.7 REMARK 620 5 HOH B9285 O 92.4 107.3 102.3 90.6 REMARK 620 N 1 2 3 4 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 K B4001 K REMARK 620 N RES CSSEQI ATOM REMARK 620 1 U B 146 O4 REMARK 620 2 C B 147 N3 61.8 REMARK 620 3 HOH B9024 O 108.8 92.8 REMARK 620 4 A B 164 N7 155.6 112.0 94.7 REMARK 620 5 G B 165 O6 74.5 114.6 148.7 88.9 REMARK 620 6 HOH B9006 O 117.3 160.1 68.2 76.9 82.5 REMARK 620 7 HOH B9018 O 68.6 115.1 66.2 129.5 87.6 52.7 REMARK 620 8 C B 147 O2 80.7 45.9 128.3 79.6 83.0 152.5 149.3 REMARK 620 N 1 2 3 4 5 6 7 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 K B4002 K REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HOH B9033 O REMARK 620 2 HOH B9049 O 128.6 REMARK 620 3 HOH B9189 O 71.9 77.2 REMARK 620 4 HOH B9196 O 84.7 125.1 74.8 REMARK 620 5 G B 136 O6 98.2 86.3 147.1 136.7 REMARK 620 6 U B 135 O4 79.5 150.6 126.0 57.5 80.5 REMARK 620 7 HOH B9244 O 142.4 83.5 102.5 58.5 103.6 74.4 REMARK 620 8 U B 137 O4 65.0 68.5 76.5 143.5 71.0 129.5 151.6 REMARK 620 N 1 2 3 4 5 6 7 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 K B4003 K REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HOH B9129 O REMARK 620 2 HOH B9199 O 61.4 REMARK 620 3 HOH B9106 O 85.8 58.5 REMARK 620 4 G B 149 OP2 62.5 90.6 53.9 REMARK 620 5 G B 150 N7 49.2 86.9 133.9 102.2 REMARK 620 6 G B 150 O6 94.8 73.7 124.9 157.0 61.0 REMARK 620 7 G B 162 N2 145.0 123.1 127.5 142.6 96.0 59.3 REMARK 620 8 A B 148 OP2 163.3 113.8 78.6 102.7 147.2 99.1 51.6 REMARK 620 9 G B 149 N7 96.3 149.6 145.8 97.0 62.8 89.1 63.0 93.2 REMARK 620 N 1 2 3 4 5 6 7 8

REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG B 1801 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG B 1802 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG B 1803 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG B 1804 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE K B 4001 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE K B 4002 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE K B 4003

DBREF 1HQ1 A 1 84 UNP P07019 SRP54_ECOLI 328 432 DBREF 1HQ1 B 130 178 PDB 1HQ1 1HQ1 130 178

SEQADV 1HQ1 SER A 58 UNP P07019 CYS 406 ENGINEERED

SEQRES 1 B 49 G G C U C U G U U U A C C SEQRES 2 B 49 A G G U C A G G U C C G A SEQRES 3 B 49 A A G G A A G C A G C C A SEQRES 4 B 49 A G G C A G A G C CCC SEQRES 1 A 105 GLY PHE ASP LEU ASN ASP PHE LEU GLU GLN LEU ARG GLN SEQRES 2 A 105 MET LYS ASN MET GLY GLY MET ALA SER LEU MET GLY LYS SEQRES 3 A 105 LEU PRO GLY MET GLY GLN ILE PRO ASP ASN VAL LYS SER SEQRES 4 A 105 GLN MET ASP ASP LYS VAL LEU VAL ARG MET GLU ALA ILE SEQRES 5 A 105 ILE ASN SER MET THR MET LYS GLU ARG ALA LYS PRO GLU SEQRES 6 A 105 ILE ILE LYS GLY SER ARG LYS ARG ARG ILE ALA ALA GLY SEQRES 7 A 105 SER GLY MET GLN VAL GLN ASP VAL ASN ARG LEU LEU LYS SEQRES 8 A 105 GLN PHE ASP ASP MET GLN ARG MET MET LYS LYS MET LYS SEQRES 9 A 105 LYS

MODRES 1HQ1 CCC B 178 C

HET CCC B 178 23 HET MG B1801 1 HET MG B1802 1 HET MG B1803 1 HET MG B1804 1 HET K B4001 1 HET K B4002 1 HET K B4003 1

HETNAM CCC CYTIDINE-5'-PHOSPHATE-2',3'-CYCLIC PHOSPHATE HETNAM MG MAGNESIUM ION HETNAM K POTASSIUM ION

FORMUL 1 CCC C9 H13 N3 O10 P2 FORMUL 3 MG 4(MG 2+) FORMUL 7 K 3(K 1+) FORMUL 10 HOH *287(H2 O)

HELIX 1 1 ASP A 3 ARG A 12 1 10 HELIX 2 2 VAL A 24 SER A 34 1 11 HELIX 3 3 THR A 36 LYS A 42 1 7 HELIX 4 4 PRO A 43 ILE A 46 5 4 HELIX 5 5 LYS A 47 SER A 58 1 12 HELIX 6 6 GLN A 61 LYS A 83 1 23

LINK O3' C B 177 P CCC B 178 1555 1555 1.60 LINK MG MG B1801 O HOH B9180 1555 1555 2.08 LINK MG MG B1801 O HOH B9011 1555 1555 2.07 LINK MG MG B1801 O HOH B9015 1555 1555 2.07 LINK MG MG B1801 O HOH B9025 1555 1555 2.07 LINK MG MG B1801 O HOH B9028 1555 1555 2.14 LINK MG MG B1801 O HOH B9038 1555 1555 2.13 LINK MG MG B1802 OP1 C B 141 1555 1555 2.09 LINK MG MG B1802 O HOH B9062 1555 1555 2.07 LINK MG MG B1802 O HOH B9040 1555 1555 2.11 LINK MG MG B1802 O HOH B9164 1555 1555 2.20 LINK MG MG B1802 O HOH B9181 1555 1555 2.58 LINK MG MG B1802 O HOH B9282 1555 1555 2.23 LINK MG MG B1802 O HOH B9283 1555 1555 1.80 LINK MG MG B1803 K K B4003 1555 1555 2.06 LINK MG MG B1803 O HOH B9073 1555 1555 2.26 LINK MG MG B1803 O HOH B9129 1555 1555 2.26 LINK MG MG B1803 O HOH B9199 1555 1555 2.02 LINK MG MG B1803 O HOH B9106 1555 1555 2.00 LINK MG MG B1803 OP2 G B 149 1555 1555 1.91 LINK MG MG B1804 O HOH B9286 1555 1555 1.95 LINK MG MG B1804 O HOH B9287 1555 1555 1.84 LINK MG MG B1804 O HOH B9046 1555 1555 2.03 LINK MG MG B1804 O HOH B9058 1555 1555 2.08 LINK MG MG B1804 O HOH B9285 1555 1555 2.29 LINK K K B4001 O4 U B 146 1555 1555 3.16 LINK K K B4001 N3 C B 147 1555 1555 3.04 LINK K K B4001 O HOH B9024 1555 1555 2.53 LINK K K B4001 N7 A B 164 1555 1555 3.17 LINK K K B4001 O6 G B 165 1555 1555 2.75 LINK K K B4001 O HOH B9006 1555 1555 2.89 LINK K K B4001 O HOH B9018 1555 1555 3.42 LINK K K B4001 O2 C B 147 1555 1555 2.80 LINK K K B4002 O HOH B9033 1555 1555 2.82 LINK K K B4002 O HOH B9049 1555 1555 2.75 LINK K K B4002 O HOH B9189 1555 1555 2.82 LINK K K B4002 O HOH B9196 1555 1555 3.02 LINK K K B4002 O6 G B 136 1555 1555 2.72 LINK K K B4002 O4 U B 135 1555 1555 2.97 LINK K K B4002 O HOH B9244 1555 1555 2.79 LINK K K B4002 O4 U B 137 1555 1555 3.23 LINK K K B4003 O HOH B9129 1555 1555 3.18 LINK K K B4003 O HOH B9199 1555 1555 2.62 LINK K K B4003 O HOH B9106 1555 1555 3.03 LINK K K B4003 OP2 G B 149 1555 1555 2.88 LINK K K B4003 N7 G B 150 1555 1555 3.21 LINK K K B4003 O6 G B 150 1555 1555 2.80 LINK K K B4003 N2 G B 162 1555 1555 3.66 LINK K K B4003 OP2 A B 148 1555 1555 3.01 LINK K K B4003 N7 G B 149 1555 1555 2.98

SITE 1 AC1 6 HOH B9011 HOH B9015 HOH B9025 HOH B9028 SITE 2 AC1 6 HOH B9038 HOH B9180 SITE 1 AC2 7 C B 141 HOH B9040 HOH B9062 HOH B9164 SITE 2 AC2 7 HOH B9181 HOH B9282 HOH B9283 SITE 1 AC3 6 G B 149 K B4003 HOH B9073 HOH B9106 SITE 2 AC3 6 HOH B9129 HOH B9199 SITE 1 AC4 5 HOH B9046 HOH B9058 HOH B9285 HOH B9286 SITE 2 AC4 5 HOH B9287 SITE 1 AC5 6 U B 146 C B 147 A B 164 G B 165 SITE 2 AC5 6 HOH B9006 HOH B9024 SITE 1 AC6 8 U B 135 G B 136 U B 137 HOH B9033 SITE 2 AC6 8 HOH B9049 HOH B9189 HOH B9196 HOH B9244 SITE 1 AC7 7 A B 148 G B 149 G B 150 G B 162 SITE 2 AC7 7 MG B1803 HOH B9106 HOH B9199

CRYST1 136.555 78.337 32.872 90.00 96.24 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 0.007323 0.000000 0.000801 0.00000

SCALE2 0.000000 0.012765 0.000000 0.00000

SCALE3 0.000000 0.000000 0.030602 0.00000