PDB Short entry for 3I5Y HEADER HYDROLASE/RNA 06-JUL-09 3I5Y TITLE STRUCTURE OF MSS116P BOUND TO SSRNA CONTAINING A SINGLE 5-BRU AND AMP- TITLE 2 PNP COMPND MOL_ID: 1; COMPND 2 MOLECULE: ATP-DEPENDENT RNA HELICASE MSS116; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: UNP RESIDUES 37 TO 597; COMPND 5 EC: 3.6.1.-; COMPND 6 ENGINEERED: YES; COMPND 7 MOL_ID: 2; COMPND 8 MOLECULE: 5'-R(*UP*UP*UP*(5BU)P*UP*UP*UP*UP*UP*U)-3'; COMPND 9 CHAIN: B; COMPND 10 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: SACCHAROMYCES CEREVISIAE; SOURCE 3 ORGANISM_COMMON: YEAST; SOURCE 4 ORGANISM_TAXID: 4932; SOURCE 5 GENE: MSS116, YD9346.05C, YDR194C; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: ROSETTA2; SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PMAL; SOURCE 11 MOL_ID: 2; SOURCE 12 SYNTHETIC: YES; SOURCE 13 OTHER_DETAILS: RNA FRAGMENT COMMERCIALLY AVAILABLE KEYWDS PROTEIN-RNA COMPLEX, RNA HELICASE, DEAD-BOX, ATP-BINDING, HELICASE, KEYWDS 2 HYDROLASE, MITOCHONDRION, MRNA PROCESSING, MRNA SPLICING, KEYWDS 3 NUCLEOTIDE-BINDING, RNA-BINDING, TRANSIT PEPTIDE, TRANSLATION KEYWDS 4 REGULATION, HYDROLASE-RNA COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR M.DEL CAMPO,A.M.LAMBOWITZ REVDAT 4 06-SEP-23 3I5Y 1 REMARK SEQADV LINK REVDAT 3 13-JUL-11 3I5Y 1 VERSN REVDAT 2 29-SEP-09 3I5Y 1 JRNL REVDAT 1 08-SEP-09 3I5Y 0 JRNL AUTH M.DEL CAMPO,A.M.LAMBOWITZ JRNL TITL STRUCTURE OF THE YEAST DEAD BOX PROTEIN MSS116P REVEALS TWO JRNL TITL 2 WEDGES THAT CRIMP RNA JRNL REF MOL.CELL V. 35 598 2009 JRNL REFN ISSN 1097-2765 JRNL PMID 19748356 JRNL DOI 10.1016/J.MOLCEL.2009.07.032 REMARK 2 REMARK 2 RESOLUTION. 2.49 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.5.0070 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) : 2.49 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 34.88 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 94.4 REMARK 3 NUMBER OF REFLECTIONS : 20426 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) : 0.206 REMARK 3 R VALUE (WORKING SET) : 0.204 REMARK 3 FREE R VALUE : 0.242 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.900 REMARK 3 FREE R VALUE TEST SET COUNT : 1057 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) : 2.49 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.56 REMARK 3 REFLECTION IN BIN (WORKING SET) : 1204 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 75.60 REMARK 3 BIN R VALUE (WORKING SET) : 0.2770 REMARK 3 BIN FREE R VALUE SET COUNT : 57 REMARK 3 BIN FREE R VALUE : 0.3280 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 3979 REMARK 3 NUCLEIC ACID ATOMS : 191 REMARK 3 HETEROGEN ATOMS : 32 REMARK 3 SOLVENT ATOMS : 85 REMARK 3 REMARK 3 B VALUES. REMARK 3 B VALUE TYPE : LIKELY RESIDUAL 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) : 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): 0.603 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.287 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.195 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): NULL REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.938 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.916 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 4287 ; 0.008 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): 2885 ; 0.001 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 5836 ; 1.073 ; 2.043 REMARK 3 BOND ANGLES OTHERS (DEGREES): 7094 ; 0.809 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 508 ; 5.588 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 171 ;34.392 ;24.678 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 756 ;13.347 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 22 ;18.255 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): NULL ; NULL ; NULL REMARK 3 GENERAL PLANES REFINED ATOMS (A): 4522 ; 0.004 ; 0.021 REMARK 3 GENERAL PLANES OTHERS (A): 803 ; 0.001 ; 0.020 REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): NULL ; NULL ; NULL 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): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): NULL ; NULL ; NULL 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): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL 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 : 6 REMARK 3 REMARK 3 TLS GROUP : 1 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 88 A 113 REMARK 3 ORIGIN FOR THE GROUP (A): 76.4650 43.6110 28.0380 REMARK 3 T TENSOR REMARK 3 T11: 0.3487 T22: 0.2167 REMARK 3 T33: 0.1519 T12: -0.0117 REMARK 3 T13: 0.0637 T23: -0.1559 REMARK 3 L TENSOR REMARK 3 L11: 5.6485 L22: 4.0899 REMARK 3 L33: 2.4200 L12: -0.4869 REMARK 3 L13: 0.5530 L23: -1.0318 REMARK 3 S TENSOR REMARK 3 S11: -0.1093 S12: -0.8319 S13: 0.3096 REMARK 3 S21: 0.8476 S22: 0.0964 S23: 0.0823 REMARK 3 S31: -0.4776 S32: -0.0828 S33: 0.0129 REMARK 3 REMARK 3 TLS GROUP : 2 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 114 A 334 REMARK 3 ORIGIN FOR THE GROUP (A): 80.9670 37.9220 10.0580 REMARK 3 T TENSOR REMARK 3 T11: 0.0298 T22: 0.0122 REMARK 3 T33: 0.0828 T12: -0.0107 REMARK 3 T13: -0.0113 T23: -0.0115 REMARK 3 L TENSOR REMARK 3 L11: 2.1361 L22: 1.6424 REMARK 3 L33: 1.1288 L12: 0.5232 REMARK 3 L13: -0.4479 L23: -0.1376 REMARK 3 S TENSOR REMARK 3 S11: 0.0570 S12: -0.1310 S13: 0.2452 REMARK 3 S21: 0.1980 S22: -0.0540 S23: -0.0653 REMARK 3 S31: -0.0898 S32: 0.0909 S33: -0.0030 REMARK 3 REMARK 3 TLS GROUP : 3 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 335 A 564 REMARK 3 ORIGIN FOR THE GROUP (A): 65.8980 10.0780 12.9180 REMARK 3 T TENSOR REMARK 3 T11: 0.0238 T22: 0.0205 REMARK 3 T33: 0.0742 T12: -0.0038 REMARK 3 T13: -0.0026 T23: 0.0328 REMARK 3 L TENSOR REMARK 3 L11: 1.4219 L22: 2.0559 REMARK 3 L33: 0.7471 L12: 0.1063 REMARK 3 L13: -0.0952 L23: -0.1103 REMARK 3 S TENSOR REMARK 3 S11: 0.0317 S12: -0.1515 S13: -0.1677 REMARK 3 S21: 0.0878 S22: 0.0278 S23: 0.0763 REMARK 3 S31: 0.0821 S32: -0.0140 S33: -0.0595 REMARK 3 REMARK 3 TLS GROUP : 4 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 565 A 596 REMARK 3 ORIGIN FOR THE GROUP (A): 81.4150 -10.8190 5.8770 REMARK 3 T TENSOR REMARK 3 T11: 0.1344 T22: 0.0977 REMARK 3 T33: 0.2647 T12: 0.0603 REMARK 3 T13: 0.0467 T23: 0.0460 REMARK 3 L TENSOR REMARK 3 L11: 8.8181 L22: 2.7356 REMARK 3 L33: 7.0366 L12: 1.2431 REMARK 3 L13: 2.1183 L23: 2.5517 REMARK 3 S TENSOR REMARK 3 S11: -0.0660 S12: 0.2740 S13: 0.0333 REMARK 3 S21: -0.3411 S22: 0.2036 S23: -0.0890 REMARK 3 S31: 0.3089 S32: 0.7561 S33: -0.1376 REMARK 3 REMARK 3 TLS GROUP : 5 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : B 1 B 10 REMARK 3 ORIGIN FOR THE GROUP (A): 82.1290 16.7430 -1.7940 REMARK 3 T TENSOR REMARK 3 T11: 0.2582 T22: 0.0574 REMARK 3 T33: 0.2118 T12: -0.0135 REMARK 3 T13: 0.0906 T23: -0.0618 REMARK 3 L TENSOR REMARK 3 L11: 3.2933 L22: 5.8504 REMARK 3 L33: 2.7151 L12: 2.0861 REMARK 3 L13: -2.2838 L23: -3.6968 REMARK 3 S TENSOR REMARK 3 S11: -0.3385 S12: 0.2722 S13: -0.4440 REMARK 3 S21: -0.7423 S22: -0.0354 S23: -0.5046 REMARK 3 S31: 0.4733 S32: -0.0755 S33: 0.3739 REMARK 3 REMARK 3 TLS GROUP : 6 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 1000 A 1000 REMARK 3 ORIGIN FOR THE GROUP (A): 66.7680 33.9120 16.7670 REMARK 3 T TENSOR REMARK 3 T11: 0.0243 T22: 0.0512 REMARK 3 T33: 0.1827 T12: -0.0007 REMARK 3 T13: 0.0339 T23: -0.0511 REMARK 3 L TENSOR REMARK 3 L11: 0.0778 L22: 0.0358 REMARK 3 L33: 8.9036 L12: 0.0527 REMARK 3 L13: 0.8243 L23: 0.5542 REMARK 3 S TENSOR REMARK 3 S11: 0.0002 S12: -0.0411 S13: 0.0166 REMARK 3 S21: -0.0080 S22: -0.0153 S23: 0.0155 REMARK 3 S31: -0.1753 S32: -0.3865 S33: 0.0151 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : 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 RIDING REMARK 3 POSITIONS REMARK 4 REMARK 4 3I5Y COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 21-JUL-09. REMARK 100 THE DEPOSITION ID IS D_1000054005. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 16-OCT-08 REMARK 200 TEMPERATURE (KELVIN) : 93 REMARK 200 PH : 7.0 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : APS REMARK 200 BEAMLINE : 21-ID-D REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.91842 REMARK 200 MONOCHROMATOR : SI(111) REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : IMAGE PLATE REMARK 200 DETECTOR MANUFACTURER : MAR SCANNER 300 MM PLATE REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 21524 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.500 REMARK 200 RESOLUTION RANGE LOW (A) : 35.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 2.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 94.5 REMARK 200 DATA REDUNDANCY : NULL REMARK 200 R MERGE (I) : 0.09800 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 25.1000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.50 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.56 REMARK 200 COMPLETENESS FOR SHELL (%) : 75.5 REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : 0.42600 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> FOR SHELL : 3.500 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: REFMAC 5.5.0070 REMARK 200 STARTING MODEL: PDB ENTRY 3I5X REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 47.30 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.33 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 8% TACSIMATE, 15% PEG 3350, PH 7.0, REMARK 280 VAPOR DIFFUSION, SITTING DROP, TEMPERATURE 295K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 21 21 2 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 44.59500 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 63.17600 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 44.59500 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 63.17600 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 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 3810 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 21710 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -34.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 465 REMARK 465 MISSING RESIDUES REMARK 465 THE FOLLOWING RESIDUES WERE NOT LOCATED IN THE REMARK 465 EXPERIMENT. (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 465 IDENTIFIER; SSSEQ=SEQUENCE NUMBER; I=INSERTION CODE.) REMARK 465 REMARK 465 M RES C SSSEQI REMARK 465 GLY A 35 REMARK 465 SER A 36 REMARK 465 LEU A 37 REMARK 465 TYR A 38 REMARK 465 ASN A 39 REMARK 465 ASP A 40 REMARK 465 GLY A 41 REMARK 465 ASN A 42 REMARK 465 ARG A 43 REMARK 465 ASP A 44 REMARK 465 GLN A 45 REMARK 465 ARG A 46 REMARK 465 ASN A 47 REMARK 465 PHE A 48 REMARK 465 GLY A 49 REMARK 465 ARG A 50 REMARK 465 ASN A 51 REMARK 465 GLN A 52 REMARK 465 ARG A 53 REMARK 465 ASN A 54 REMARK 465 ASN A 55 REMARK 465 ASN A 56 REMARK 465 SER A 57 REMARK 465 ASN A 58 REMARK 465 ARG A 59 REMARK 465 TYR A 60 REMARK 465 ARG A 61 REMARK 465 ASN A 62 REMARK 465 SER A 63 REMARK 465 ARG A 64 REMARK 465 PHE A 65 REMARK 465 ASN A 66 REMARK 465 SER A 67 REMARK 465 ARG A 68 REMARK 465 PRO A 69 REMARK 465 ARG A 70 REMARK 465 THR A 71 REMARK 465 ARG A 72 REMARK 465 SER A 73 REMARK 465 ARG A 74 REMARK 465 GLU A 75 REMARK 465 ASP A 76 REMARK 465 ASP A 77 REMARK 465 ASP A 78 REMARK 465 GLU A 79 REMARK 465 VAL A 80 REMARK 465 HIS A 81 REMARK 465 PHE A 82 REMARK 465 ASP A 83 REMARK 465 LYS A 84 REMARK 465 THR A 85 REMARK 465 THR A 86 REMARK 465 PHE A 87 REMARK 465 TYR A 597 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 GLU A 96 CG CD OE1 OE2 REMARK 470 ASP A 97 CG OD1 OD2 REMARK 470 ASN A 98 CG OD1 ND2 REMARK 470 LYS A 100 CG CD CE NZ REMARK 470 GLU A 109 CD OE1 OE2 REMARK 470 LYS A 115 CG CD CE NZ REMARK 470 GLU A 125 CD OE1 OE2 REMARK 470 LYS A 294 CE NZ REMARK 470 LYS A 311 CG CD CE NZ REMARK 470 GLN A 313 CG CD OE1 NE2 REMARK 470 LYS A 314 CE NZ REMARK 470 LYS A 323 CE NZ REMARK 470 LYS A 333 CG CD CE NZ REMARK 470 LYS A 368 CD CE NZ REMARK 470 LYS A 409 CE NZ REMARK 470 GLU A 456 CG CD OE1 OE2 REMARK 470 LYS A 482 CD CE NZ REMARK 470 LYS A 504 CD CE NZ REMARK 470 LYS A 542 CE NZ REMARK 470 ARG A 545 CZ NH1 NH2 REMARK 470 ARG A 574 CD NE CZ NH1 NH2 REMARK 470 ARG A 575 CG CD NE CZ NH1 NH2 REMARK 470 LYS A 579 CD CE NZ REMARK 470 LYS A 589 CE NZ REMARK 470 ARG A 595 CZ NH1 NH2 REMARK 470 ASP A 596 CG OD1 OD2 REMARK 470 U B 2 C2 O2 N3 C4 O4 C5 C6 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 ASN A 207 94.84 -163.00 REMARK 500 ASP A 434 2.13 -66.54 REMARK 500 REMARK 500 REMARK: NULL REMARK 620 REMARK 620 METAL COORDINATION REMARK 620 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 620 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE): REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG A 900 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ANP A1000 O3G REMARK 620 2 ANP A1000 O1B 96.6 REMARK 620 3 HOH A1008 O 86.7 131.5 REMARK 620 4 HOH A1045 O 77.1 151.0 76.9 REMARK 620 5 HOH A1048 O 80.6 79.3 148.1 71.8 REMARK 620 6 HOH A1074 O 155.7 103.5 90.0 78.7 89.8 REMARK 620 N 1 2 3 4 5 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ANP A 1000 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG A 900 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 3I5X RELATED DB: PDB REMARK 900 RELATED ID: 3I61 RELATED DB: PDB REMARK 900 RELATED ID: 3I62 RELATED DB: PDB DBREF 3I5Y A 37 597 UNP P15424 MS116_YEAST 37 597 DBREF 3I5Y B 1 10 PDB 3I5Y 3I5Y 1 10 SEQADV 3I5Y GLY A 35 UNP P15424 EXPRESSION TAG SEQADV 3I5Y SER A 36 UNP P15424 EXPRESSION TAG SEQRES 1 A 563 GLY SER LEU TYR ASN ASP GLY ASN ARG ASP GLN ARG ASN SEQRES 2 A 563 PHE GLY ARG ASN GLN ARG ASN ASN ASN SER ASN ARG TYR SEQRES 3 A 563 ARG ASN SER ARG PHE ASN SER ARG PRO ARG THR ARG SER SEQRES 4 A 563 ARG GLU ASP ASP ASP GLU VAL HIS PHE ASP LYS THR THR SEQRES 5 A 563 PHE SER LYS LEU ILE HIS VAL PRO LYS GLU ASP ASN SER SEQRES 6 A 563 LYS GLU VAL THR LEU ASP SER LEU LEU GLU GLU GLY VAL SEQRES 7 A 563 LEU ASP LYS GLU ILE HIS LYS ALA ILE THR ARG MET GLU SEQRES 8 A 563 PHE PRO GLY LEU THR PRO VAL GLN GLN LYS THR ILE LYS SEQRES 9 A 563 PRO ILE LEU SER SER GLU ASP HIS ASP VAL ILE ALA ARG SEQRES 10 A 563 ALA LYS THR GLY THR GLY LYS THR PHE ALA PHE LEU ILE SEQRES 11 A 563 PRO ILE PHE GLN HIS LEU ILE ASN THR LYS PHE ASP SER SEQRES 12 A 563 GLN TYR MET VAL LYS ALA VAL ILE VAL ALA PRO THR ARG SEQRES 13 A 563 ASP LEU ALA LEU GLN ILE GLU ALA GLU VAL LYS LYS ILE SEQRES 14 A 563 HIS ASP MET ASN TYR GLY LEU LYS LYS TYR ALA CYS VAL SEQRES 15 A 563 SER LEU VAL GLY GLY THR ASP PHE ARG ALA ALA MET ASN SEQRES 16 A 563 LYS MET ASN LYS LEU ARG PRO ASN ILE VAL ILE ALA THR SEQRES 17 A 563 PRO GLY ARG LEU ILE ASP VAL LEU GLU LYS TYR SER ASN SEQRES 18 A 563 LYS PHE PHE ARG PHE VAL ASP TYR LYS VAL LEU ASP GLU SEQRES 19 A 563 ALA ASP ARG LEU LEU GLU ILE GLY PHE ARG ASP ASP LEU SEQRES 20 A 563 GLU THR ILE SER GLY ILE LEU ASN GLU LYS ASN SER LYS SEQRES 21 A 563 SER ALA ASP ASN ILE LYS THR LEU LEU PHE SER ALA THR SEQRES 22 A 563 LEU ASP ASP LYS VAL GLN LYS LEU ALA ASN ASN ILE MET SEQRES 23 A 563 ASN LYS LYS GLU CYS LEU PHE LEU ASP THR VAL ASP LYS SEQRES 24 A 563 ASN GLU PRO GLU ALA HIS GLU ARG ILE ASP GLN SER VAL SEQRES 25 A 563 VAL ILE SER GLU LYS PHE ALA ASN SER ILE PHE ALA ALA SEQRES 26 A 563 VAL GLU HIS ILE LYS LYS GLN ILE LYS GLU ARG ASP SER SEQRES 27 A 563 ASN TYR LYS ALA ILE ILE PHE ALA PRO THR VAL LYS PHE SEQRES 28 A 563 THR SER PHE LEU CYS SER ILE LEU LYS ASN GLU PHE LYS SEQRES 29 A 563 LYS ASP LEU PRO ILE LEU GLU PHE HIS GLY LYS ILE THR SEQRES 30 A 563 GLN ASN LYS ARG THR SER LEU VAL LYS ARG PHE LYS LYS SEQRES 31 A 563 ASP GLU SER GLY ILE LEU VAL CYS THR ASP VAL GLY ALA SEQRES 32 A 563 ARG GLY MET ASP PHE PRO ASN VAL HIS GLU VAL LEU GLN SEQRES 33 A 563 ILE GLY VAL PRO SER GLU LEU ALA ASN TYR ILE HIS ARG SEQRES 34 A 563 ILE GLY ARG THR ALA ARG SER GLY LYS GLU GLY SER SER SEQRES 35 A 563 VAL LEU PHE ILE CYS LYS ASP GLU LEU PRO PHE VAL ARG SEQRES 36 A 563 GLU LEU GLU ASP ALA LYS ASN ILE VAL ILE ALA LYS GLN SEQRES 37 A 563 GLU LYS TYR GLU PRO SER GLU GLU ILE LYS SER GLU VAL SEQRES 38 A 563 LEU GLU ALA VAL THR GLU GLU PRO GLU ASP ILE SER ASP SEQRES 39 A 563 ILE VAL ILE SER LEU ILE SER SER TYR ARG SER CYS ILE SEQRES 40 A 563 LYS GLU TYR ARG PHE SER GLU ARG ARG ILE LEU PRO GLU SEQRES 41 A 563 ILE ALA SER THR TYR GLY VAL LEU LEU ASN ASP PRO GLN SEQRES 42 A 563 LEU LYS ILE PRO VAL SER ARG ARG PHE LEU ASP LYS LEU SEQRES 43 A 563 GLY LEU SER ARG SER PRO ILE GLY LYS ALA MET PHE GLU SEQRES 44 A 563 ILE ARG ASP TYR SEQRES 1 B 10 U U U 5BU U U U U U U MODRES 3I5Y 5BU B 4 U 5-BROMO-URIDINE-5'-MONOPHOSPHATE HET 5BU B 4 21 HET ANP A1000 31 HET MG A 900 1 HETNAM 5BU 5-BROMO-URIDINE-5'-MONOPHOSPHATE HETNAM ANP PHOSPHOAMINOPHOSPHONIC ACID-ADENYLATE ESTER HETNAM MG MAGNESIUM ION FORMUL 2 5BU C9 H12 BR N2 O9 P FORMUL 3 ANP C10 H17 N6 O12 P3 FORMUL 4 MG MG 2+ FORMUL 5 HOH *85(H2 O) HELIX 1 1 THR A 103 GLU A 110 1 8 HELIX 2 2 ASP A 114 ARG A 123 1 10 HELIX 3 3 THR A 130 SER A 142 1 13 HELIX 4 4 GLY A 157 THR A 173 1 17 HELIX 5 5 THR A 189 MET A 206 1 18 HELIX 6 6 ASN A 207 TYR A 213 5 7 HELIX 7 7 ASP A 223 ARG A 235 1 13 HELIX 8 8 THR A 242 PHE A 258 1 17 HELIX 9 9 GLU A 268 LEU A 273 1 6 HELIX 10 10 PHE A 277 ASN A 292 1 16 HELIX 11 11 ASP A 310 ALA A 316 1 7 HELIX 12 12 ASN A 317 MET A 320 5 4 HELIX 13 13 ALA A 353 ARG A 370 1 18 HELIX 14 14 THR A 382 LYS A 398 1 17 HELIX 15 15 THR A 411 ASP A 425 1 15 HELIX 16 16 ASP A 434 ALA A 437 5 4 HELIX 17 17 LEU A 457 GLY A 465 1 9 HELIX 18 18 GLU A 484 ASN A 496 1 13 HELIX 19 19 SER A 508 VAL A 519 1 12 HELIX 20 20 GLU A 522 CYS A 540 1 19 HELIX 21 21 SER A 547 SER A 557 1 11 HELIX 22 22 SER A 557 LEU A 563 1 7 HELIX 23 23 SER A 573 GLY A 581 1 9 HELIX 24 24 SER A 585 MET A 591 1 7 SHEET 1 A 8 LYS A 89 VAL A 93 0 SHEET 2 A 8 GLU A 324 ASP A 329 1 O PHE A 327 N ILE A 91 SHEET 3 A 8 HIS A 146 ARG A 151 1 N ILE A 149 O LEU A 328 SHEET 4 A 8 LYS A 300 SER A 305 1 O LEU A 303 N VAL A 148 SHEET 5 A 8 TYR A 263 ASP A 267 1 N LEU A 266 O LEU A 302 SHEET 6 A 8 ALA A 183 VAL A 186 1 N VAL A 186 O VAL A 265 SHEET 7 A 8 ILE A 238 ALA A 241 1 O ALA A 241 N ILE A 185 SHEET 8 A 8 CYS A 215 LEU A 218 1 N LEU A 218 O ILE A 240 SHEET 1 B 7 ILE A 403 PHE A 406 0 SHEET 2 B 7 GLY A 428 CYS A 432 1 O VAL A 431 N LEU A 404 SHEET 3 B 7 LYS A 375 PHE A 379 1 N ILE A 378 O LEU A 430 SHEET 4 B 7 GLU A 447 ILE A 451 1 O LEU A 449 N ILE A 377 SHEET 5 B 7 GLY A 474 CYS A 481 1 O PHE A 479 N GLN A 450 SHEET 6 B 7 ILE A 342 SER A 349 1 N SER A 349 O ILE A 480 SHEET 7 B 7 LYS A 501 TYR A 505 1 O GLU A 503 N ILE A 348 SHEET 1 C 2 ILE A 570 VAL A 572 0 SHEET 2 C 2 PHE A 592 ILE A 594 1 O GLU A 593 N VAL A 572 LINK O3' U B 3 P 5BU B 4 1555 1555 1.59 LINK O3' 5BU B 4 P U B 5 1555 1555 1.59 LINK MG MG A 900 O3G ANP A1000 1555 1555 1.93 LINK MG MG A 900 O1B ANP A1000 1555 1555 1.83 LINK MG MG A 900 O HOH A1008 1555 1555 2.16 LINK MG MG A 900 O HOH A1045 1555 1555 2.09 LINK MG MG A 900 O HOH A1048 1555 1555 2.18 LINK MG MG A 900 O HOH A1074 1555 1555 1.93 SITE 1 AC1 28 PHE A 126 GLY A 128 LEU A 129 THR A 130 SITE 2 AC1 28 GLN A 133 LYS A 153 THR A 154 GLY A 155 SITE 3 AC1 28 THR A 156 GLY A 157 LYS A 158 THR A 159 SITE 4 AC1 28 PHE A 160 GLU A 268 GLY A 439 ASP A 441 SITE 5 AC1 28 ARG A 466 ARG A 469 SER A 470 MG A 900 SITE 6 AC1 28 HOH A1008 HOH A1010 HOH A1045 HOH A1048 SITE 7 AC1 28 HOH A1073 HOH A1074 HOH A1075 HOH A1080 SITE 1 AC2 5 ANP A1000 HOH A1008 HOH A1045 HOH A1048 SITE 2 AC2 5 HOH A1074 CRYST1 89.190 126.352 55.990 90.00 90.00 90.00 P 21 21 2 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 0.011212 0.000000 0.000000 0.00000 SCALE2 0.000000 0.007914 0.000000 0.00000 SCALE3 0.000000 0.000000 0.017860 0.00000