PDB Short entry for 5DDP HEADER RNA BINDING PROTEIN/RNA 25-AUG-15 5DDP TITLE L-GLUTAMINE RIBOSWITCH BOUND WITH L-GLUTAMINE COMPND MOL_ID: 1; COMPND 2 MOLECULE: RNA (61-MER); COMPND 3 CHAIN: A, B; COMPND 4 MOL_ID: 2; COMPND 5 MOLECULE: U1 SMALL NUCLEAR RIBONUCLEOPROTEIN A; COMPND 6 CHAIN: C, D; COMPND 7 SYNONYM: U1A; COMPND 8 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: SYNECHOCOCCUS ELONGATUS; SOURCE 3 ORGANISM_TAXID: 32046; SOURCE 4 MOL_ID: 2; SOURCE 5 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 6 ORGANISM_COMMON: HUMAN; SOURCE 7 ORGANISM_TAXID: 9606; SOURCE 8 GENE: SNRPA; SOURCE 9 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 10 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS RIBOSWITCH, L-GLUTAMINE, BOUND-FORM, RNA, RNA BINDING PROTEIN-RNA KEYWDS 2 COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR A.REN,D.J.PATEL REVDAT 4 06-MAR-24 5DDP 1 LINK REVDAT 3 04-DEC-19 5DDP 1 REMARK REVDAT 2 20-SEP-17 5DDP 1 REMARK REVDAT 1 23-DEC-15 5DDP 0 JRNL AUTH A.REN,Y.XUE,A.PESELIS,A.SERGANOV,H.M.AL-HASHIMI,D.J.PATEL JRNL TITL STRUCTURAL AND DYNAMIC BASIS FOR LOW-AFFINITY, JRNL TITL 2 HIGH-SELECTIVITY BINDING OF L-GLUTAMINE BY THE GLUTAMINE JRNL TITL 3 RIBOSWITCH. JRNL REF CELL REP V. 13 1800 2015 JRNL REFN ESSN 2211-1247 JRNL PMID 26655897 JRNL DOI 10.1016/J.CELREP.2015.10.062 REMARK 2 REMARK 2 RESOLUTION. 2.30 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 1.7.3_928 REMARK 3 AUTHORS : PAUL ADAMS,PAVEL AFONINE,VINCENT CHEN,IAN REMARK 3 : DAVIS,KRESHNA GOPAL,RALF GROSSE-KUNSTLEVE, REMARK 3 : LI-WEI HUNG,ROBERT IMMORMINO,TOM IOERGER, REMARK 3 : AIRLIE MCCOY,ERIK MCKEE,NIGEL MORIARTY, REMARK 3 : REETAL PAI,RANDY READ,JANE RICHARDSON, REMARK 3 : DAVID RICHARDSON,TOD ROMO,JIM SACCHETTINI, REMARK 3 : NICHOLAS SAUTER,JACOB SMITH,LAURENT REMARK 3 : STORONI,TOM TERWILLIGER,PETER ZWART REMARK 3 REMARK 3 REFINEMENT TARGET : ML REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.30 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 38.99 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.360 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.7 REMARK 3 NUMBER OF REFLECTIONS : 27279 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.193 REMARK 3 R VALUE (WORKING SET) : 0.190 REMARK 3 FREE R VALUE : 0.243 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.090 REMARK 3 FREE R VALUE TEST SET COUNT : 1389 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT (IN BINS). REMARK 3 BIN RESOLUTION RANGE COMPL. NWORK NFREE RWORK RFREE REMARK 3 1 38.9948 - 4.9568 0.99 2623 161 0.1557 0.1882 REMARK 3 2 4.9568 - 3.9355 1.00 2615 125 0.1452 0.1940 REMARK 3 3 3.9355 - 3.4384 1.00 2627 115 0.1613 0.1748 REMARK 3 4 3.4384 - 3.1242 1.00 2608 142 0.1869 0.2228 REMARK 3 5 3.1242 - 2.9003 1.00 2565 132 0.2022 0.2909 REMARK 3 6 2.9003 - 2.7294 1.00 2590 157 0.2520 0.3383 REMARK 3 7 2.7294 - 2.5927 1.00 2570 148 0.2735 0.3633 REMARK 3 8 2.5927 - 2.4799 1.00 2583 140 0.2951 0.3964 REMARK 3 9 2.4799 - 2.3844 1.00 2574 141 0.2858 0.3712 REMARK 3 10 2.3844 - 2.3021 0.98 2535 128 0.3010 0.3853 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : FLAT BULK SOLVENT MODEL REMARK 3 SOLVENT RADIUS : 0.90 REMARK 3 SHRINKAGE RADIUS : 0.60 REMARK 3 K_SOL : 0.32 REMARK 3 B_SOL : 46.24 REMARK 3 REMARK 3 ERROR ESTIMATES. REMARK 3 COORDINATE ERROR (MAXIMUM-LIKELIHOOD BASED) : 0.430 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 26.940 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : NULL REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -7.78370 REMARK 3 B22 (A**2) : 3.47680 REMARK 3 B33 (A**2) : 4.30700 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : -4.99310 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 TWINNING INFORMATION. REMARK 3 FRACTION: NULL REMARK 3 OPERATOR: NULL REMARK 3 REMARK 3 DEVIATIONS FROM IDEAL VALUES. REMARK 3 RMSD COUNT REMARK 3 BOND : 0.020 4564 REMARK 3 ANGLE : 0.937 6800 REMARK 3 CHIRALITY : 0.070 839 REMARK 3 PLANARITY : 0.006 388 REMARK 3 DIHEDRAL : 14.762 2059 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : NULL REMARK 3 REMARK 3 NCS DETAILS REMARK 3 NUMBER OF NCS GROUPS : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 5DDP COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 26-AUG-15. REMARK 100 THE DEPOSITION ID IS D_1000213066. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 02-APR-13 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : NULL REMARK 200 NUMBER OF CRYSTALS USED : NULL REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : APS REMARK 200 BEAMLINE : 24-ID-E REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9792 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 315 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 27308 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.300 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 200 DATA REDUNDANCY : 3.800 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 18.1000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.30 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.38 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : 3.60 REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> FOR SHELL : 2.300 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: NULL REMARK 200 SOFTWARE USED: PHASER REMARK 200 STARTING MODEL: NULL 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: 0.1 M HEPES-SODIUM, PH 7.0, 40% (V/V) REMARK 280 2-METHYL-2,4-PENTANEDIOL, EVAPORATION, TEMPERATURE 293K 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 43.10250 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 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 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 3060 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 14460 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -91.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, D 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 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 3060 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 14180 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -86.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: B, C 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 ALA C 1 REMARK 465 VAL C 2 REMARK 465 MET C 96 REMARK 465 LYS C 97 REMARK 465 ALA D 1 REMARK 465 MET D 96 REMARK 465 LYS D 97 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 C 95 CG CD CE NZ REMARK 470 VAL D 2 CG1 CG2 REMARK 470 LYS D 95 CG CD CE NZ 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 O HOH B 209 O HOH B 280 2.01 REMARK 500 O HOH A 209 O HOH A 307 2.06 REMARK 500 O6 G A 46 O HOH A 201 2.09 REMARK 500 O HOH B 211 O HOH B 228 2.10 REMARK 500 O HOH A 207 O HOH A 340 2.16 REMARK 500 O HOH A 262 O HOH A 345 2.16 REMARK 500 OP1 C A 21 O HOH A 202 2.18 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 G A 26 C4 - N9 - C1' ANGL. DEV. = -7.8 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 ASP C 91 38.20 -70.89 REMARK 500 ILE C 92 -28.96 -145.40 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 NA A 110 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 G A 12 O2' REMARK 620 2 HOH A 275 O 118.1 REMARK 620 3 C B 33 O2' 93.9 115.4 REMARK 620 N 1 2 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 NA A 108 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 C A 21 O2' REMARK 620 2 HOH A 294 O 109.1 REMARK 620 3 HOH A 314 O 74.5 142.5 REMARK 620 4 HOH A 345 O 135.1 76.0 76.6 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 NA A 109 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 U A 32 O4 REMARK 620 2 G A 46 O6 103.3 REMARK 620 3 G A 47 O6 81.5 80.2 REMARK 620 4 HOH A 201 O 109.4 41.9 122.1 REMARK 620 5 HOH A 264 O 70.1 147.8 127.5 108.9 REMARK 620 6 HOH A 267 O 170.4 77.8 89.3 77.9 114.1 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 NA B 109 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 C A 33 O2' REMARK 620 2 HOH A 288 O 76.1 REMARK 620 3 HOH B 243 O 75.2 4.0 REMARK 620 N 1 2 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG A 106 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 G A 61 O3' REMARK 620 2 HOH A 203 O 59.0 REMARK 620 N 1 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG A 102 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLN A 101 OXT REMARK 620 2 HOH A 237 O 87.1 REMARK 620 3 HOH A 240 O 175.4 93.4 REMARK 620 4 HOH A 241 O 92.1 86.3 92.5 REMARK 620 5 HOH A 281 O 94.7 168.8 85.7 82.5 REMARK 620 6 HOH A 285 O 88.2 106.1 87.3 167.6 85.1 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG A 103 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HOH A 218 O REMARK 620 2 HOH A 245 O 107.9 REMARK 620 3 HOH A 248 O 89.4 91.8 REMARK 620 4 HOH A 269 O 85.2 88.3 174.4 REMARK 620 5 HOH A 348 O 75.9 174.1 92.7 87.6 REMARK 620 6 HOH A 351 O 152.0 99.1 96.8 88.7 76.6 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG A 104 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HOH A 220 O REMARK 620 2 HOH A 236 O 76.7 REMARK 620 N 1 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG A 105 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HOH A 255 O REMARK 620 2 HOH A 261 O 111.5 REMARK 620 3 HOH A 332 O 97.3 67.4 REMARK 620 4 HOH A 347 O 122.1 73.1 132.2 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 NA A 107 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HOH A 219 O REMARK 620 2 HOH A 261 O 128.0 REMARK 620 3 HOH A 320 O 57.7 143.8 REMARK 620 4 HOH A 332 O 79.6 69.4 78.1 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 NA A 111 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HOH A 264 O REMARK 620 2 HOH A 301 O 97.4 REMARK 620 3 HOH A 324 O 109.8 65.6 REMARK 620 N 1 2 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 NA B 107 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 U B 32 O4 REMARK 620 2 G B 46 O6 103.9 REMARK 620 3 G B 47 O6 78.1 75.4 REMARK 620 4 HOH B 252 O 91.4 63.2 133.5 REMARK 620 5 HOH B 254 O 74.8 158.3 124.4 95.0 REMARK 620 N 1 2 3 4 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 NA B 110 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 U B 32 O4 REMARK 620 2 HOH B 239 O 56.6 REMARK 620 3 HOH B 244 O 144.4 91.7 REMARK 620 4 HOH B 254 O 67.7 94.3 137.2 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG B 102 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLN B 101 O REMARK 620 2 HOH B 232 O 165.1 REMARK 620 3 HOH B 237 O 96.3 98.4 REMARK 620 4 HOH B 238 O 92.2 88.3 97.8 REMARK 620 5 HOH B 261 O 87.9 77.9 171.8 74.9 REMARK 620 6 HOH B 263 O 90.0 85.6 98.0 163.8 89.1 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG B 103 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HOH B 211 O REMARK 620 2 HOH B 235 O 84.6 REMARK 620 3 HOH B 253 O 101.6 83.1 REMARK 620 4 HOH B 304 O 78.9 163.5 99.1 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG B 104 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HOH B 216 O REMARK 620 2 HOH B 249 O 81.7 REMARK 620 3 HOH B 275 O 144.0 74.1 REMARK 620 4 HOH B 279 O 83.2 89.1 70.3 REMARK 620 5 HOH B 296 O 111.4 80.2 90.5 160.1 REMARK 620 6 HOH B 301 O 112.7 160.9 87.2 80.7 104.4 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG B 105 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HOH B 208 O REMARK 620 2 HOH B 289 O 108.9 REMARK 620 3 HOH B 297 O 93.0 90.1 REMARK 620 4 HOH B 298 O 80.0 171.1 89.3 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 NA B 106 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HOH B 208 O REMARK 620 2 HOH B 245 O 143.5 REMARK 620 3 HOH B 246 O 120.0 59.5 REMARK 620 4 HOH B 265 O 95.2 72.3 131.5 REMARK 620 5 HOH B 295 O 92.4 54.3 59.6 89.2 REMARK 620 N 1 2 3 4 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 NA B 108 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HOH B 209 O REMARK 620 2 HOH B 228 O 97.5 REMARK 620 3 HOH B 293 O 73.2 97.0 REMARK 620 N 1 2 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue GLN A 101 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue MG A 102 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue MG A 103 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue MG A 104 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue MG A 105 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue MG A 106 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue NA A 107 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue NA A 108 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue NA A 109 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue NA A 110 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue NA A 111 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue GLN B 101 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue MG B 102 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue MG B 103 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue MG B 104 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue MG B 105 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue NA B 106 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue NA B 107 REMARK 800 REMARK 800 SITE_IDENTIFIER: AE1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue NA B 108 REMARK 800 REMARK 800 SITE_IDENTIFIER: AE2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue NA B 109 REMARK 800 REMARK 800 SITE_IDENTIFIER: AE3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue NA B 110 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 5DDO RELATED DB: PDB REMARK 900 RELATED ID: 5DDQ RELATED DB: PDB REMARK 900 RELATED ID: 5DDR RELATED DB: PDB DBREF 5DDP A 1 61 PDB 5DDP 5DDP 1 61 DBREF 5DDP B 1 61 PDB 5DDP 5DDP 1 61 DBREF 5DDP C 1 97 UNP P09012 SNRPA_HUMAN 2 98 DBREF 5DDP D 1 97 UNP P09012 SNRPA_HUMAN 2 98 SEQADV 5DDP HIS C 30 UNP P09012 TYR 31 ENGINEERED MUTATION SEQADV 5DDP ARG C 35 UNP P09012 GLN 36 ENGINEERED MUTATION SEQADV 5DDP HIS D 30 UNP P09012 TYR 31 ENGINEERED MUTATION SEQADV 5DDP ARG D 35 UNP P09012 GLN 36 ENGINEERED MUTATION SEQRES 1 A 61 C G U U G A C C C A G G A SEQRES 2 A 61 A A C U G G G C G G A A G SEQRES 3 A 61 U A A G G U C C A U U G C SEQRES 4 A 61 A C U C C G G G C C U G A SEQRES 5 A 61 A G C A A C G C G SEQRES 1 B 61 C G U U G A C C C A G G A SEQRES 2 B 61 A A C U G G G C G G A A G SEQRES 3 B 61 U A A G G U C C A U U G C SEQRES 4 B 61 A C U C C G G G C C U G A SEQRES 5 B 61 A G C A A C G C G SEQRES 1 C 97 ALA VAL PRO GLU THR ARG PRO ASN HIS THR ILE TYR ILE SEQRES 2 C 97 ASN ASN LEU ASN GLU LYS ILE LYS LYS ASP GLU LEU LYS SEQRES 3 C 97 LYS SER LEU HIS ALA ILE PHE SER ARG PHE GLY GLN ILE SEQRES 4 C 97 LEU ASP ILE LEU VAL SER ARG SER LEU LYS MET ARG GLY SEQRES 5 C 97 GLN ALA PHE VAL ILE PHE LYS GLU VAL SER SER ALA THR SEQRES 6 C 97 ASN ALA LEU ARG SER MET GLN GLY PHE PRO PHE TYR ASP SEQRES 7 C 97 LYS PRO MET ARG ILE GLN TYR ALA LYS THR ASP SER ASP SEQRES 8 C 97 ILE ILE ALA LYS MET LYS SEQRES 1 D 97 ALA VAL PRO GLU THR ARG PRO ASN HIS THR ILE TYR ILE SEQRES 2 D 97 ASN ASN LEU ASN GLU LYS ILE LYS LYS ASP GLU LEU LYS SEQRES 3 D 97 LYS SER LEU HIS ALA ILE PHE SER ARG PHE GLY GLN ILE SEQRES 4 D 97 LEU ASP ILE LEU VAL SER ARG SER LEU LYS MET ARG GLY SEQRES 5 D 97 GLN ALA PHE VAL ILE PHE LYS GLU VAL SER SER ALA THR SEQRES 6 D 97 ASN ALA LEU ARG SER MET GLN GLY PHE PRO PHE TYR ASP SEQRES 7 D 97 LYS PRO MET ARG ILE GLN TYR ALA LYS THR ASP SER ASP SEQRES 8 D 97 ILE ILE ALA LYS MET LYS HET GLN A 101 10 HET MG A 102 1 HET MG A 103 1 HET MG A 104 1 HET MG A 105 1 HET MG A 106 1 HET NA A 107 1 HET NA A 108 1 HET NA A 109 1 HET NA A 110 1 HET NA A 111 1 HET GLN B 101 10 HET MG B 102 1 HET MG B 103 1 HET MG B 104 1 HET MG B 105 1 HET NA B 106 1 HET NA B 107 1 HET NA B 108 1 HET NA B 109 1 HET NA B 110 1 HETNAM GLN GLUTAMINE HETNAM MG MAGNESIUM ION HETNAM NA SODIUM ION FORMUL 5 GLN 2(C5 H10 N2 O3) FORMUL 6 MG 9(MG 2+) FORMUL 11 NA 10(NA 1+) FORMUL 26 HOH *321(H2 O) HELIX 1 AA1 LYS C 21 SER C 34 1 14 HELIX 2 AA2 ARG C 35 GLY C 37 5 3 HELIX 3 AA3 GLU C 60 GLN C 72 1 13 HELIX 4 AA4 LYS D 21 SER D 34 1 14 HELIX 5 AA5 ARG D 35 GLY D 37 5 3 HELIX 6 AA6 GLU D 60 GLN D 72 1 13 HELIX 7 AA7 SER D 90 LYS D 95 1 6 SHEET 1 AA1 4 ILE C 39 LEU C 43 0 SHEET 2 AA1 4 ALA C 54 PHE C 58 -1 O PHE C 55 N LEU C 43 SHEET 3 AA1 4 THR C 10 ASN C 14 -1 N ILE C 13 O ALA C 54 SHEET 4 AA1 4 ARG C 82 TYR C 85 -1 O GLN C 84 N TYR C 12 SHEET 1 AA2 2 PRO C 75 PHE C 76 0 SHEET 2 AA2 2 LYS C 79 PRO C 80 -1 O LYS C 79 N PHE C 76 SHEET 1 AA3 4 ILE D 39 VAL D 44 0 SHEET 2 AA3 4 ALA D 54 PHE D 58 -1 O ILE D 57 N ASP D 41 SHEET 3 AA3 4 THR D 10 ASN D 14 -1 N ILE D 13 O ALA D 54 SHEET 4 AA3 4 ARG D 82 TYR D 85 -1 O GLN D 84 N TYR D 12 SHEET 1 AA4 2 PRO D 75 PHE D 76 0 SHEET 2 AA4 2 LYS D 79 PRO D 80 -1 O LYS D 79 N PHE D 76 LINK O2' G A 12 NA NA A 110 1555 1555 2.84 LINK O2' C A 21 NA NA A 108 1555 1555 2.73 LINK O4 U A 32 NA NA A 109 1555 1555 2.74 LINK O2' C A 33 NA NA B 109 1555 1554 3.11 LINK O6 G A 46 NA NA A 109 1555 1555 3.13 LINK O6 G A 47 NA NA A 109 1555 1555 2.54 LINK O3' G A 61 MG MG A 106 1555 1555 2.35 LINK OXT GLN A 101 MG MG A 102 1555 1555 1.92 LINK MG MG A 102 O HOH A 237 1555 1555 2.10 LINK MG MG A 102 O HOH A 240 1555 1555 2.12 LINK MG MG A 102 O HOH A 241 1555 1555 2.14 LINK MG MG A 102 O HOH A 281 1555 1555 2.09 LINK MG MG A 102 O HOH A 285 1555 1555 2.13 LINK MG MG A 103 O HOH A 218 1555 1555 2.04 LINK MG MG A 103 O HOH A 245 1555 1555 2.07 LINK MG MG A 103 O HOH A 248 1555 1555 2.17 LINK MG MG A 103 O HOH A 269 1555 1555 2.10 LINK MG MG A 103 O HOH A 348 1555 1555 2.10 LINK MG MG A 103 O HOH A 351 1555 1555 2.08 LINK MG MG A 104 O HOH A 220 1555 1555 2.08 LINK MG MG A 104 O HOH A 236 1555 1555 2.08 LINK MG MG A 105 O HOH A 255 1555 1555 2.08 LINK MG MG A 105 O HOH A 261 1555 1555 2.12 LINK MG MG A 105 O HOH A 332 1555 1555 2.90 LINK MG MG A 105 O HOH A 347 1555 1555 2.10 LINK MG MG A 106 O HOH A 203 1555 1555 2.09 LINK NA NA A 107 O HOH A 219 1555 1555 2.35 LINK NA NA A 107 O HOH A 261 1555 1555 2.48 LINK NA NA A 107 O HOH A 320 1555 1555 2.49 LINK NA NA A 107 O HOH A 332 1555 1555 2.54 LINK NA NA A 108 O HOH A 294 1555 1555 2.65 LINK NA NA A 108 O HOH A 314 1555 1555 2.63 LINK NA NA A 108 O HOH A 345 1555 1555 2.31 LINK NA NA A 109 O HOH A 201 1555 1555 2.27 LINK NA NA A 109 O HOH A 264 1555 1555 2.60 LINK NA NA A 109 O HOH A 267 1555 1555 2.57 LINK NA NA A 110 O HOH A 275 1555 1555 2.59 LINK NA NA A 110 O2' C B 33 1555 1555 3.19 LINK NA NA A 111 O HOH A 264 1555 1555 2.62 LINK NA NA A 111 O HOH A 301 1555 1555 2.53 LINK NA NA A 111 O HOH A 324 1555 1555 2.50 LINK O HOH A 288 NA NA B 109 1556 1555 2.56 LINK O4 U B 32 NA NA B 107 1555 1555 2.80 LINK O4 U B 32 NA NA B 110 1555 1555 3.17 LINK O6 G B 46 NA NA B 107 1555 1555 2.76 LINK O6 G B 47 NA NA B 107 1555 1555 2.79 LINK O GLN B 101 MG MG B 102 1555 1555 2.07 LINK MG MG B 102 O HOH B 232 1555 1555 2.12 LINK MG MG B 102 O HOH B 237 1555 1555 2.08 LINK MG MG B 102 O HOH B 238 1555 1555 2.11 LINK MG MG B 102 O HOH B 261 1555 1555 2.12 LINK MG MG B 102 O HOH B 263 1555 1555 2.05 LINK MG MG B 103 O HOH B 211 1555 1555 2.09 LINK MG MG B 103 O HOH B 235 1555 1555 2.06 LINK MG MG B 103 O HOH B 253 1555 1555 2.12 LINK MG MG B 103 O HOH B 304 1555 1555 2.09 LINK MG MG B 104 O HOH B 216 1555 1555 2.07 LINK MG MG B 104 O HOH B 249 1555 1555 2.09 LINK MG MG B 104 O HOH B 275 1555 1555 2.06 LINK MG MG B 104 O HOH B 279 1555 1555 2.07 LINK MG MG B 104 O HOH B 296 1555 1555 2.07 LINK MG MG B 104 O HOH B 301 1555 1555 2.06 LINK MG MG B 105 O HOH B 208 1555 1555 2.06 LINK MG MG B 105 O HOH B 289 1555 1555 2.09 LINK MG MG B 105 O HOH B 297 1555 1555 2.08 LINK MG MG B 105 O HOH B 298 1555 1555 2.15 LINK NA NA B 106 O HOH B 208 1555 1555 2.43 LINK NA NA B 106 O HOH B 245 1555 1555 2.65 LINK NA NA B 106 O HOH B 246 1555 1555 2.27 LINK NA NA B 106 O HOH B 265 1555 1555 2.64 LINK NA NA B 106 O HOH B 295 1555 1555 2.37 LINK NA NA B 107 O HOH B 252 1555 1555 2.61 LINK NA NA B 107 O HOH B 254 1555 1555 2.50 LINK NA NA B 108 O HOH B 209 1555 1555 2.30 LINK NA NA B 108 O HOH B 228 1555 1555 2.62 LINK NA NA B 108 O HOH B 293 1555 1555 2.36 LINK NA NA B 109 O HOH B 243 1555 1555 2.57 LINK NA NA B 110 O HOH B 239 1555 1555 2.44 LINK NA NA B 110 O HOH B 244 1555 1555 2.52 LINK NA NA B 110 O HOH B 254 1555 1555 2.54 SITE 1 AC1 14 C A 1 G A 22 G A 23 A A 24 SITE 2 AC1 14 G A 54 C A 58 G A 59 C A 60 SITE 3 AC1 14 MG A 102 HOH A 237 HOH A 241 HOH A 271 SITE 4 AC1 14 HOH A 281 HOH A 285 SITE 1 AC2 6 GLN A 101 HOH A 237 HOH A 240 HOH A 241 SITE 2 AC2 6 HOH A 281 HOH A 285 SITE 1 AC3 6 HOH A 218 HOH A 245 HOH A 248 HOH A 269 SITE 2 AC3 6 HOH A 348 HOH A 351 SITE 1 AC4 3 HOH A 220 HOH A 236 HOH A 340 SITE 1 AC5 6 HOH A 255 HOH A 261 HOH A 277 HOH A 332 SITE 2 AC5 6 HOH A 347 HOH A 349 SITE 1 AC6 2 G A 61 HOH A 203 SITE 1 AC7 6 G A 11 G A 12 HOH A 219 HOH A 261 SITE 2 AC7 6 HOH A 320 HOH A 332 SITE 1 AC8 5 G A 20 C A 21 HOH A 294 HOH A 314 SITE 2 AC8 5 HOH A 345 SITE 1 AC9 7 G A 31 U A 32 G A 46 G A 47 SITE 2 AC9 7 HOH A 201 HOH A 264 HOH A 267 SITE 1 AD1 5 G A 12 A A 13 A A 14 HOH A 275 SITE 2 AD1 5 C B 33 SITE 1 AD2 5 G A 31 U A 32 HOH A 264 HOH A 301 SITE 2 AD2 5 HOH A 324 SITE 1 AD3 14 C B 1 G B 22 G B 23 A B 24 SITE 2 AD3 14 G B 54 C B 58 G B 59 C B 60 SITE 3 AD3 14 MG B 102 HOH B 220 HOH B 237 HOH B 238 SITE 4 AD3 14 HOH B 261 HOH B 263 SITE 1 AD4 6 GLN B 101 HOH B 232 HOH B 237 HOH B 238 SITE 2 AD4 6 HOH B 261 HOH B 263 SITE 1 AD5 4 HOH B 211 HOH B 235 HOH B 253 HOH B 304 SITE 1 AD6 6 HOH B 216 HOH B 249 HOH B 275 HOH B 279 SITE 2 AD6 6 HOH B 296 HOH B 301 SITE 1 AD7 5 HOH B 208 HOH B 217 HOH B 289 HOH B 297 SITE 2 AD7 5 HOH B 298 SITE 1 AD8 7 G B 11 G B 12 HOH B 208 HOH B 245 SITE 2 AD8 7 HOH B 246 HOH B 265 HOH B 295 SITE 1 AD9 7 G B 31 U B 32 C B 33 G B 46 SITE 2 AD9 7 G B 47 HOH B 252 HOH B 254 SITE 1 AE1 6 G B 19 G B 20 C B 21 HOH B 209 SITE 2 AE1 6 HOH B 228 HOH B 293 SITE 1 AE2 5 C A 33 HOH A 288 G B 12 A B 13 SITE 2 AE2 5 HOH B 243 SITE 1 AE3 5 G B 31 U B 32 HOH B 239 HOH B 244 SITE 2 AE3 5 HOH B 254 CRYST1 60.648 86.205 60.713 90.00 100.04 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 0.016489 0.000000 0.002919 0.00000 SCALE2 0.000000 0.011600 0.000000 0.00000 SCALE3 0.000000 0.000000 0.016727 0.00000