HEADER IMMUNE SYSTEM/RNA 11-SEP-07 2R8S TITLE HIGH RESOLUTION STRUCTURE OF A SPECIFIC SYNTHETIC FAB BOUND TO P4-P6 TITLE 2 RNA RIBOZYME DOMAIN COMPND MOL_ID: 1; COMPND 2 MOLECULE: P4-P6 RNA RIBOZYME DOMAIN; COMPND 3 CHAIN: R; COMPND 4 ENGINEERED: YES; COMPND 5 MUTATION: YES; COMPND 6 MOL_ID: 2; COMPND 7 MOLECULE: FAB LIGHT CHAIN; COMPND 8 CHAIN: L; COMPND 9 MOL_ID: 3; COMPND 10 MOLECULE: FAB HEAVY CHAIN; COMPND 11 CHAIN: H SOURCE MOL_ID: 1; SOURCE 2 SYNTHETIC: YES; SOURCE 3 OTHER_DETAILS: SEQUENCE OCCURS NATURALLY IN TETRAHYMENA THERMOPHILA; SOURCE 4 SYNTHESIZED BY IN VITRO TRANSCRIPTION; SOURCE 5 MOL_ID: 2; SOURCE 6 ORGANISM_SCIENTIFIC: MUS MUSCULUS; SOURCE 7 ORGANISM_COMMON: HOUSE MOUSE; SOURCE 8 ORGANISM_TAXID: 10090; SOURCE 9 OTHER_DETAILS: FAB SELECTION WAS DONE USING A REDUCED CODON FAB SOURCE 10 LIBRARY DISPLAYED ON THE M13 PHAGE; SOURCE 11 MOL_ID: 3; SOURCE 12 ORGANISM_SCIENTIFIC: MUS MUSCULUS; SOURCE 13 ORGANISM_COMMON: HOUSE MOUSE; SOURCE 14 ORGANISM_TAXID: 10090; SOURCE 15 OTHER_DETAILS: FAB SELECTION WAS DONE USING A REDUCED CODON FAB SOURCE 16 LIBRARY DISPLAYED ON THE M13 PHAGE KEYWDS PROTEIN-RNA COMPLEX, FAB-RNA COMPLEX, IMMUNE SYSTEM-RNA COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR J.D.YE,V.TERESHKO,S.S.SIDHU,S.KOIDE,A.A.KOSSIAKOFF,J.A.PICCIRILLI REVDAT 6 30-OCT-24 2R8S 1 REMARK REVDAT 5 30-AUG-23 2R8S 1 REMARK SEQADV LINK REVDAT 4 13-JUL-11 2R8S 1 VERSN REVDAT 3 24-FEB-09 2R8S 1 VERSN REVDAT 2 22-JUL-08 2R8S 1 JRNL REVDAT 1 04-DEC-07 2R8S 0 JRNL AUTH J.D.YE,V.TERESHKO,J.K.FREDERIKSEN,A.KOIDE,F.A.FELLOUSE, JRNL AUTH 2 S.S.SIDHU,S.KOIDE,A.A.KOSSIAKOFF,J.A.PICCIRILLI JRNL TITL SYNTHETIC ANTIBODIES FOR SPECIFIC RECOGNITION AND JRNL TITL 2 CRYSTALLIZATION OF STRUCTURED RNA JRNL REF PROC.NATL.ACAD.SCI.USA V. 105 82 2008 JRNL REFN ISSN 0027-8424 JRNL PMID 18162543 JRNL DOI 10.1073/PNAS.0709082105 REMARK 2 REMARK 2 RESOLUTION. 1.95 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.2 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) : 1.95 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 20.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 98.6 REMARK 3 NUMBER OF REFLECTIONS : 77127 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) : 0.196 REMARK 3 R VALUE (WORKING SET) : 0.195 REMARK 3 FREE R VALUE : 0.226 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 3875 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) : 1.95 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.00 REMARK 3 REFLECTION IN BIN (WORKING SET) : 5207 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 96.12 REMARK 3 BIN R VALUE (WORKING SET) : 0.2530 REMARK 3 BIN FREE R VALUE SET COUNT : 261 REMARK 3 BIN FREE R VALUE : 0.2870 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 3263 REMARK 3 NUCLEIC ACID ATOMS : 3404 REMARK 3 HETEROGEN ATOMS : 4 REMARK 3 SOLVENT ATOMS : 529 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) : 35.92 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -2.23000 REMARK 3 B22 (A**2) : 0.94000 REMARK 3 B33 (A**2) : 1.04000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : -0.40000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.157 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.141 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.104 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 8.147 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.960 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.945 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 7180 ; 0.007 ; 0.020 REMARK 3 BOND LENGTHS OTHERS (A): 3546 ; 0.002 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 10516 ; 1.330 ; 2.517 REMARK 3 BOND ANGLES OTHERS (DEGREES): 8877 ; 1.022 ; 2.480 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 429 ; 7.445 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 127 ;32.954 ;24.016 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 531 ;14.124 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 13 ;14.991 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 1310 ; 0.059 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 5403 ; 0.005 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 670 ; 0.001 ; 0.020 REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 1167 ; 0.162 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): 4062 ; 0.205 ; 0.200 REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 3089 ; 0.212 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): 2451 ; 0.080 ; 0.200 REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 605 ; 0.147 ; 0.200 REMARK 3 H-BOND (X...Y) OTHERS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION REFINED ATOMS (A): 3 ; 0.038 ; 0.200 REMARK 3 POTENTIAL METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW REFINED ATOMS (A): 17 ; 0.151 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): 54 ; 0.183 ; 0.200 REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 31 ; 0.141 ; 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): 2182 ; 1.271 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 873 ; 0.326 ; 1.500 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 3482 ; 2.092 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 6768 ; 2.349 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 7034 ; 3.183 ; 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 : 3 REMARK 3 REMARK 3 TLS GROUP : 1 REMARK 3 NUMBER OF COMPONENTS GROUP : 2 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : R 102 R 261 REMARK 3 RESIDUE RANGE : R 1001 R 1004 REMARK 3 ORIGIN FOR THE GROUP (A): 73.6258 -30.9957 20.2968 REMARK 3 T TENSOR REMARK 3 T11: 0.0197 T22: 0.0176 REMARK 3 T33: -0.0486 T12: 0.0260 REMARK 3 T13: 0.0057 T23: 0.0039 REMARK 3 L TENSOR REMARK 3 L11: 0.3487 L22: 0.1881 REMARK 3 L33: 0.5512 L12: -0.0440 REMARK 3 L13: -0.1734 L23: 0.0985 REMARK 3 S TENSOR REMARK 3 S11: -0.0758 S12: 0.1597 S13: 0.0044 REMARK 3 S21: -0.0714 S22: 0.0529 S23: 0.0345 REMARK 3 S31: 0.1054 S32: 0.0236 S33: 0.0229 REMARK 3 REMARK 3 TLS GROUP : 2 REMARK 3 NUMBER OF COMPONENTS GROUP : 2 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : L 1 L 214 REMARK 3 RESIDUE RANGE : L 1001 L 1131 REMARK 3 ORIGIN FOR THE GROUP (A): 37.4817 1.8910 46.7597 REMARK 3 T TENSOR REMARK 3 T11: -0.0321 T22: -0.0397 REMARK 3 T33: -0.0567 T12: 0.0680 REMARK 3 T13: -0.0331 T23: -0.0041 REMARK 3 L TENSOR REMARK 3 L11: 0.8963 L22: 0.8209 REMARK 3 L33: 0.3082 L12: -0.4232 REMARK 3 L13: -0.2112 L23: 0.2521 REMARK 3 S TENSOR REMARK 3 S11: 0.0560 S12: 0.0467 S13: 0.0469 REMARK 3 S21: -0.0504 S22: -0.0983 S23: 0.0109 REMARK 3 S31: -0.0300 S32: -0.1065 S33: 0.0423 REMARK 3 REMARK 3 TLS GROUP : 3 REMARK 3 NUMBER OF COMPONENTS GROUP : 2 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : H 1 H 224 REMARK 3 RESIDUE RANGE : H 1001 H 1141 REMARK 3 ORIGIN FOR THE GROUP (A): 51.3201 -1.6548 58.6821 REMARK 3 T TENSOR REMARK 3 T11: -0.0112 T22: -0.0512 REMARK 3 T33: -0.0501 T12: 0.0194 REMARK 3 T13: -0.0112 T23: 0.0046 REMARK 3 L TENSOR REMARK 3 L11: 0.9529 L22: 0.5593 REMARK 3 L33: 0.6722 L12: -0.2678 REMARK 3 L13: -0.4182 L23: 0.2167 REMARK 3 S TENSOR REMARK 3 S11: 0.0628 S12: -0.0518 S13: -0.0315 REMARK 3 S21: 0.0090 S22: -0.0877 S23: -0.0508 REMARK 3 S31: 0.0046 S32: -0.0616 S33: 0.0249 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: HYDROGENS HAVE BEEN ADDED IN THE RIDING REMARK 3 POSITIONS REMARK 4 REMARK 4 2R8S COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 26-SEP-07. REMARK 100 THE DEPOSITION ID IS D_1000044567. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 29-MAY-06; 05-JUN-06; 15-JUN-06 REMARK 200 TEMPERATURE (KELVIN) : 100; 100; 100 REMARK 200 PH : 5.9 REMARK 200 NUMBER OF CRYSTALS USED : 3 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y; Y; Y REMARK 200 RADIATION SOURCE : APS; APS; APS REMARK 200 BEAMLINE : 19-BM; 23-ID-D; 22-ID REMARK 200 X-RAY GENERATOR MODEL : NULL; NULL; NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M; M; M REMARK 200 WAVELENGTH OR RANGE (A) : NULL; NULL; NULL REMARK 200 MONOCHROMATOR : NULL; NULL; NULL REMARK 200 OPTICS : MIRRORS; MIRRORS; MIRRORS REMARK 200 REMARK 200 DETECTOR TYPE : CCD; IMAGE PLATE; IMAGE PLATE REMARK 200 DETECTOR MANUFACTURER : SBC-2; MAR SCANNER 345 MM PLATE; REMARK 200 MAR SCANNER 345 MM PLATE REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 77127 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.950 REMARK 200 RESOLUTION RANGE LOW (A) : 20.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 98.6 REMARK 200 DATA REDUNDANCY : 5.200 REMARK 200 R MERGE (I) : 0.08800 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 16.7000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.95 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.00 REMARK 200 COMPLETENESS FOR SHELL (%) : NULL REMARK 200 DATA REDUNDANCY IN SHELL : 2.70 REMARK 200 R MERGE FOR SHELL (I) : 0.48000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> FOR SHELL : 1.600 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH; SINGLE WAVELENGTH; SINGLE REMARK 200 WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: MOLREP REMARK 200 STARTING MODEL: PDB ENTRY 1TZI 1HR2 REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 55.16 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.74 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 34% MPD, 0.1M SODIUM CITRATE, 0.2M REMARK 280 AMMONIUM ACETATE, 25 MM MAGNESIUM CHLORIDE, PH 5.9, VAPOR REMARK 280 DIFFUSION, HANGING DROP, TEMPERATURE 277K 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 66.54250 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 26.61500 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 66.54250 REMARK 290 SMTRY2 4 0.000000 1.000000 0.000000 26.61500 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 300 REMARK: THIS ENTRY CONTAIN ONE ASYMMETRIC UNIT COMPOSED OF FAB REMARK 300 LIGHT AND HEAVY CHAINS L AND H AND RNA CHAIN R. 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: TRIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TRIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 6510 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 41880 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -92.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: R, L, H 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 LYS H 137 REMARK 465 SER H 138 REMARK 465 THR H 139 REMARK 465 SER H 140 REMARK 465 GLY H 141 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 SER H 136 CA C O CB OG 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 A R 125 C1' - O4' - C4' ANGL. DEV. = -4.9 DEGREES REMARK 500 G R 134 N1 - C6 - O6 ANGL. DEV. = -3.6 DEGREES REMARK 500 G R 164 O4' - C1' - N9 ANGL. DEV. = 7.0 DEGREES REMARK 500 A R 171 O4' - C1' - N9 ANGL. DEV. = 4.3 DEGREES REMARK 500 A R 184 O5' - C5' - C4' ANGL. DEV. = -5.8 DEGREES REMARK 500 C R 193 O4' - C1' - N1 ANGL. DEV. = 5.4 DEGREES REMARK 500 ASP L 151 CB - CG - OD2 ANGL. DEV. = 5.5 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 PRO L 8 120.71 6.48 REMARK 500 SER L 30 -121.70 42.47 REMARK 500 ALA L 51 -44.17 68.98 REMARK 500 ALA L 84 170.96 177.47 REMARK 500 ASN L 138 61.04 60.01 REMARK 500 LYS H 43 -165.87 -118.57 REMARK 500 TYR H 55 83.56 53.16 REMARK 500 ALA H 92 165.27 179.54 REMARK 500 LYS H 222 -70.93 -99.14 REMARK 500 SER H 223 -35.26 167.84 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 SER L 7 PRO L 8 -105.99 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 R1001 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 A R 183 OP1 REMARK 620 2 A R 184 OP2 83.5 REMARK 620 3 A R 186 OP2 89.4 90.3 REMARK 620 4 HOH R1005 O 92.0 86.2 176.1 REMARK 620 5 HOH R1006 O 92.8 176.1 91.2 92.4 REMARK 620 6 HOH R1007 O 175.1 92.5 87.8 90.6 91.2 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG R1002 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 A R 184 OP1 REMARK 620 2 A R 186 OP1 87.4 REMARK 620 3 A R 187 OP2 168.0 89.5 REMARK 620 4 G R 188 OP2 106.4 161.6 79.3 REMARK 620 5 HOH R1008 O 97.2 90.8 94.4 75.8 REMARK 620 6 HOH R1009 O 81.6 90.1 86.9 103.6 178.5 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG R1003 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 G R 188 O6 REMARK 620 2 HOH R1010 O 91.5 REMARK 620 3 HOH R1011 O 88.3 174.4 REMARK 620 4 HOH R1012 O 94.4 92.2 82.2 REMARK 620 5 HOH R1013 O 84.7 92.9 92.7 174.8 REMARK 620 6 HOH R1014 O 169.8 98.2 82.4 88.4 91.6 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG R1004 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 G R 257 O6 REMARK 620 2 U R 258 O4 85.6 REMARK 620 3 HOH R1015 O 104.6 81.7 REMARK 620 4 HOH R1016 O 85.1 99.5 170.3 REMARK 620 5 HOH R1017 O 91.9 163.2 82.9 96.8 REMARK 620 N 1 2 3 4 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG R 1001 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG R 1002 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG R 1003 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG R 1004 DBREF 2R8S R 104 261 GB 10840 V01416 155 312 DBREF 2R8S L 1 214 PDB 2R8S 2R8S 1 214 DBREF 2R8S H 1 224 PDB 2R8S 2R8S 1 224 SEQADV 2R8S G R 102 GB 10840 EXPRESSION TAG SEQADV 2R8S G R 103 GB 10840 EXPRESSION TAG SEQADV 2R8S R GB 10840 C 259 DELETION SEQRES 1 R 159 G G A A U U G C G G G A A SEQRES 2 R 159 A G G G G U C A A C A G C SEQRES 3 R 159 C G U U C A G U A C C A A SEQRES 4 R 159 G U C U C A G G G G A A A SEQRES 5 R 159 C U U U G A G A U G G C C SEQRES 6 R 159 U U G C A A A G G G U A U SEQRES 7 R 159 G G U A A U A A G C U G A SEQRES 8 R 159 C G G A C A U G G U C C U SEQRES 9 R 159 A A C A C G C A G C C A A SEQRES 10 R 159 G U C C U A A G U C A A C SEQRES 11 R 159 A G A U C U U C U G U U G SEQRES 12 R 159 A U A U G G A U G C A G U SEQRES 13 R 159 U C A SEQRES 1 L 214 ASP ILE GLN MET THR GLN SER PRO SER SER LEU SER ALA SEQRES 2 L 214 SER VAL GLY ASP ARG VAL THR ILE THR CYS ARG ALA SER SEQRES 3 L 214 GLN SER VAL SER SER ALA VAL ALA TRP TYR GLN GLN LYS SEQRES 4 L 214 PRO GLY LYS ALA PRO LYS LEU LEU ILE TYR SER ALA SER SEQRES 5 L 214 SER LEU TYR SER GLY VAL PRO SER ARG PHE SER GLY SER SEQRES 6 L 214 ARG SER GLY THR ASP PHE THR LEU THR ILE SER SER LEU SEQRES 7 L 214 GLN PRO GLU ASP PHE ALA THR TYR TYR CYS GLN GLN SER SEQRES 8 L 214 TYR SER SER PRO ILE THR PHE GLY GLN GLY THR LYS VAL SEQRES 9 L 214 GLU ILE LYS ARG THR VAL ALA ALA PRO SER VAL PHE ILE SEQRES 10 L 214 PHE PRO PRO SER ASP GLU GLN LEU LYS SER GLY THR ALA SEQRES 11 L 214 SER VAL VAL CYS LEU LEU ASN ASN PHE TYR PRO ARG GLU SEQRES 12 L 214 ALA LYS VAL GLN TRP LYS VAL ASP ASN ALA LEU GLN SER SEQRES 13 L 214 GLY ASN SER GLN GLU SER VAL THR GLU GLN ASP SER LYS SEQRES 14 L 214 ASP SER THR TYR SER LEU SER SER THR LEU THR LEU SER SEQRES 15 L 214 LYS ALA ASP TYR GLU LYS HIS LYS VAL TYR ALA CYS GLU SEQRES 16 L 214 VAL THR HIS GLN GLY LEU SER SER PRO VAL THR LYS SER SEQRES 17 L 214 PHE ASN ARG GLY GLU CYS SEQRES 1 H 224 GLU VAL GLN LEU VAL GLU SER GLY GLY GLY LEU VAL GLN SEQRES 2 H 224 PRO GLY GLY SER LEU ARG LEU SER CYS ALA ALA SER GLY SEQRES 3 H 224 PHE ASN LEU TYR SER SER SER ILE HIS TRP VAL ARG GLN SEQRES 4 H 224 ALA PRO GLY LYS GLY LEU GLU TRP VAL ALA TYR ILE SER SEQRES 5 H 224 SER SER TYR GLY TYR THR TYR TYR ALA ASP SER VAL LYS SEQRES 6 H 224 GLY ARG PHE THR ILE SER ALA ASP THR SER LYS ASN THR SEQRES 7 H 224 ALA TYR LEU GLN MET ASN SER LEU ARG ALA GLU ASP THR SEQRES 8 H 224 ALA VAL TYR TYR CYS ALA ARG ARG ALA ALA GLY MET SER SEQRES 9 H 224 THR TYR GLY PHE ASP TYR TRP GLY GLN GLY THR LEU VAL SEQRES 10 H 224 THR VAL SER SER ALA SER THR LYS GLY PRO SER VAL PHE SEQRES 11 H 224 PRO LEU ALA PRO SER SER LYS SER THR SER GLY GLY THR SEQRES 12 H 224 ALA ALA LEU GLY CYS LEU VAL LYS ASP TYR PHE PRO GLU SEQRES 13 H 224 PRO VAL THR VAL SER TRP ASN SER GLY ALA LEU THR SER SEQRES 14 H 224 GLY VAL HIS THR PHE PRO ALA VAL LEU GLN SER SER GLY SEQRES 15 H 224 LEU TYR SER LEU SER SER VAL VAL THR VAL PRO SER SER SEQRES 16 H 224 SER LEU GLY THR GLN THR TYR ILE CYS ASN VAL ASN HIS SEQRES 17 H 224 LYS PRO SER ASN THR LYS VAL ASP LYS LYS VAL GLU PRO SEQRES 18 H 224 LYS SER CYS HET MG R1001 1 HET MG R1002 1 HET MG R1003 1 HET MG R1004 1 HETNAM MG MAGNESIUM ION FORMUL 4 MG 4(MG 2+) FORMUL 8 HOH *529(H2 O) HELIX 1 1 GLN L 79 PHE L 83 5 5 HELIX 2 2 SER L 121 SER L 127 1 7 HELIX 3 3 LYS L 183 HIS L 189 1 7 HELIX 4 4 ASN H 28 TYR H 30 5 3 HELIX 5 5 ARG H 87 THR H 91 5 5 HELIX 6 6 SER H 164 ALA H 166 5 3 HELIX 7 7 SER H 195 LEU H 197 5 3 HELIX 8 8 LYS H 209 ASN H 212 5 4 SHEET 1 A 4 MET L 4 SER L 7 0 SHEET 2 A 4 VAL L 19 ALA L 25 -1 O ARG L 24 N THR L 5 SHEET 3 A 4 ASP L 70 ILE L 75 -1 O LEU L 73 N ILE L 21 SHEET 4 A 4 PHE L 62 SER L 67 -1 N SER L 67 O ASP L 70 SHEET 1 B 6 SER L 10 SER L 14 0 SHEET 2 B 6 THR L 102 LYS L 107 1 O LYS L 107 N ALA L 13 SHEET 3 B 6 ALA L 84 GLN L 90 -1 N ALA L 84 O VAL L 104 SHEET 4 B 6 VAL L 33 GLN L 38 -1 N GLN L 38 O THR L 85 SHEET 5 B 6 LYS L 45 TYR L 49 -1 O LEU L 47 N TRP L 35 SHEET 6 B 6 SER L 53 LEU L 54 -1 O SER L 53 N TYR L 49 SHEET 1 C 4 SER L 10 SER L 14 0 SHEET 2 C 4 THR L 102 LYS L 107 1 O LYS L 107 N ALA L 13 SHEET 3 C 4 ALA L 84 GLN L 90 -1 N ALA L 84 O VAL L 104 SHEET 4 C 4 THR L 97 PHE L 98 -1 O THR L 97 N GLN L 90 SHEET 1 D 4 SER L 114 PHE L 118 0 SHEET 2 D 4 THR L 129 PHE L 139 -1 O ASN L 137 N SER L 114 SHEET 3 D 4 TYR L 173 SER L 182 -1 O LEU L 175 N LEU L 136 SHEET 4 D 4 SER L 159 VAL L 163 -1 N GLN L 160 O THR L 178 SHEET 1 E 4 ALA L 153 LEU L 154 0 SHEET 2 E 4 LYS L 145 VAL L 150 -1 N VAL L 150 O ALA L 153 SHEET 3 E 4 VAL L 191 THR L 197 -1 O GLU L 195 N GLN L 147 SHEET 4 E 4 VAL L 205 ASN L 210 -1 O VAL L 205 N VAL L 196 SHEET 1 F 4 GLN H 3 SER H 7 0 SHEET 2 F 4 LEU H 18 SER H 25 -1 O ALA H 23 N VAL H 5 SHEET 3 F 4 THR H 78 MET H 83 -1 O MET H 83 N LEU H 18 SHEET 4 F 4 PHE H 68 ASP H 73 -1 N ASP H 73 O THR H 78 SHEET 1 G 6 GLY H 10 VAL H 12 0 SHEET 2 G 6 THR H 115 VAL H 119 1 O LEU H 116 N GLY H 10 SHEET 3 G 6 ALA H 92 ALA H 100 -1 N ALA H 92 O VAL H 117 SHEET 4 G 6 SER H 32 GLN H 39 -1 N HIS H 35 O ALA H 97 SHEET 5 G 6 GLU H 46 ILE H 51 -1 O ALA H 49 N TRP H 36 SHEET 6 G 6 THR H 58 TYR H 60 -1 O TYR H 59 N TYR H 50 SHEET 1 H 4 GLY H 10 VAL H 12 0 SHEET 2 H 4 THR H 115 VAL H 119 1 O LEU H 116 N GLY H 10 SHEET 3 H 4 ALA H 92 ALA H 100 -1 N ALA H 92 O VAL H 117 SHEET 4 H 4 TYR H 110 TRP H 111 -1 O TYR H 110 N ARG H 98 SHEET 1 I 4 SER H 128 LEU H 132 0 SHEET 2 I 4 THR H 143 TYR H 153 -1 O LEU H 149 N PHE H 130 SHEET 3 I 4 TYR H 184 PRO H 193 -1 O LEU H 186 N VAL H 150 SHEET 4 I 4 VAL H 171 THR H 173 -1 N HIS H 172 O VAL H 189 SHEET 1 J 4 SER H 128 LEU H 132 0 SHEET 2 J 4 THR H 143 TYR H 153 -1 O LEU H 149 N PHE H 130 SHEET 3 J 4 TYR H 184 PRO H 193 -1 O LEU H 186 N VAL H 150 SHEET 4 J 4 VAL H 177 LEU H 178 -1 N VAL H 177 O SER H 185 SHEET 1 K 3 THR H 159 TRP H 162 0 SHEET 2 K 3 ILE H 203 HIS H 208 -1 O ASN H 207 N THR H 159 SHEET 3 K 3 THR H 213 LYS H 218 -1 O VAL H 215 N VAL H 206 SSBOND 1 CYS L 23 CYS L 88 1555 1555 2.07 SSBOND 2 CYS L 134 CYS L 194 1555 1555 2.05 SSBOND 3 CYS L 214 CYS H 224 1555 1555 2.03 SSBOND 4 CYS H 22 CYS H 96 1555 1555 2.06 SSBOND 5 CYS H 148 CYS H 204 1555 1555 2.03 LINK OP1 A R 183 MG MG R1001 1555 1555 2.16 LINK OP2 A R 184 MG MG R1001 1555 1555 2.15 LINK OP1 A R 184 MG MG R1002 1555 1555 2.14 LINK OP2 A R 186 MG MG R1001 1555 1555 2.15 LINK OP1 A R 186 MG MG R1002 1555 1555 2.15 LINK OP2 A R 187 MG MG R1002 1555 1555 2.14 LINK OP2 G R 188 MG MG R1002 1555 1555 2.15 LINK O6 G R 188 MG MG R1003 1555 1555 2.16 LINK O6 G R 257 MG MG R1004 1555 1555 2.20 LINK O4 U R 258 MG MG R1004 1555 1555 2.19 LINK MG MG R1001 O HOH R1005 1555 1555 2.02 LINK MG MG R1001 O HOH R1006 1555 1555 1.97 LINK MG MG R1001 O HOH R1007 1555 1555 1.95 LINK MG MG R1002 O HOH R1008 1555 1555 2.12 LINK MG MG R1002 O HOH R1009 1555 1555 2.10 LINK MG MG R1003 O HOH R1010 1555 1555 2.06 LINK MG MG R1003 O HOH R1011 1555 1555 2.15 LINK MG MG R1003 O HOH R1012 1555 1555 2.15 LINK MG MG R1003 O HOH R1013 1555 1555 2.09 LINK MG MG R1003 O HOH R1014 1555 1555 1.95 LINK MG MG R1004 O HOH R1015 1555 1555 2.40 LINK MG MG R1004 O HOH R1016 1555 1555 2.39 LINK MG MG R1004 O HOH R1017 1555 1555 2.34 CISPEP 1 SER L 94 PRO L 95 0 -3.61 CISPEP 2 TYR L 140 PRO L 141 0 5.92 CISPEP 3 PHE H 154 PRO H 155 0 -7.61 CISPEP 4 GLU H 156 PRO H 157 0 -1.28 SITE 1 AC1 6 A R 183 A R 184 A R 186 HOH R1005 SITE 2 AC1 6 HOH R1006 HOH R1007 SITE 1 AC2 6 A R 184 A R 186 A R 187 G R 188 SITE 2 AC2 6 HOH R1008 HOH R1009 SITE 1 AC3 6 G R 188 HOH R1010 HOH R1011 HOH R1012 SITE 2 AC3 6 HOH R1013 HOH R1014 SITE 1 AC4 6 G R 257 U R 258 HOH R1015 HOH R1016 SITE 2 AC4 6 HOH R1017 HOH R1018 CRYST1 133.085 53.230 160.555 90.00 108.42 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 0.007514 0.000000 0.002502 0.00000 SCALE2 0.000000 0.018786 0.000000 0.00000 SCALE3 0.000000 0.000000 0.006565 0.00000