HEADER RNA BINDING PROTEIN/RNA 27-AUG-99 1CX0 OBSLTE 29-OCT-14 1CX0 4PR6 TITLE HEPATITIS DELTA VIRUS RIBOZYME COMPND MOL_ID: 1; COMPND 2 MOLECULE: HDV RIBOZYME SELF-CLEAVED; COMPND 3 CHAIN: B; COMPND 4 ENGINEERED: YES; COMPND 5 MOL_ID: 2; COMPND 6 MOLECULE: U1A PROTEIN; COMPND 7 CHAIN: A; COMPND 8 FRAGMENT: RNA BINDING DOMAIN; COMPND 9 ENGINEERED: YES; COMPND 10 MUTATION: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HEPATITIS DELTA VIRUS; SOURCE 3 ORGANISM_TAXID: 12475; SOURCE 4 MOL_ID: 2; SOURCE 5 ORGANISM_SCIENTIFIC: HEPATITIS DELTA VIRUS; SOURCE 6 ORGANISM_TAXID: 12475 KEYWDS NESTED DOUBLE PSEUDOKNOT RNA STRUCTURE, RNA BINDING PROTEIN-RNA KEYWDS 2 COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR A.R.FERRE-D'AMARE,K.ZHOU,J.A.DOUDNA REVDAT 6 29-OCT-14 1CX0 1 OBSLTE VERSN REVDAT 5 24-FEB-09 1CX0 1 VERSN REVDAT 4 01-APR-03 1CX0 1 JRNL REVDAT 3 26-JUN-00 1CX0 1 CRYST1 SEQADV DBREF REVDAT 2 10-NOV-99 1CX0 1 SOURCE REVDAT 1 08-SEP-99 1CX0 0 JRNL AUTH A.R.FERRE-D'AMARE,K.ZHOU,J.A.DOUDNA JRNL TITL CRYSTAL STRUCTURE OF A HEPATITIS DELTA VIRUS RIBOZYME. JRNL REF NATURE V. 395 567 1998 JRNL REFN ISSN 0028-0836 JRNL PMID 9783582 JRNL DOI 10.1038/26912 REMARK 2 REMARK 2 RESOLUTION. 2.30 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : CNS 0.9 REMARK 3 AUTHORS : BRUNGER,ADAMS,CLORE,DELANO,GROS,GROSSE- REMARK 3 : KUNSTLEVE,JIANG,KUSZEWSKI,NILGES,PANNU, REMARK 3 : READ,RICE,SIMONSON,WARREN REMARK 3 REMARK 3 REFINEMENT TARGET : CNS REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.30 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 18.58 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 DATA CUTOFF HIGH (ABS(F)) : 2081254.800 REMARK 3 DATA CUTOFF LOW (ABS(F)) : 0.0000 REMARK 3 COMPLETENESS (WORKING+TEST) (%) : 95.6 REMARK 3 NUMBER OF REFLECTIONS : 18903 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 SET) : 0.246 REMARK 3 FREE R VALUE : 0.279 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 9.900 REMARK 3 FREE R VALUE TEST SET COUNT : 1863 REMARK 3 ESTIMATED ERROR OF FREE R VALUE : 0.006 REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 6 REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 2.30 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.44 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 96.50 REMARK 3 REFLECTIONS IN BIN (WORKING SET) : 2799 REMARK 3 BIN R VALUE (WORKING SET) : 0.3840 REMARK 3 BIN FREE R VALUE : 0.4020 REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : 10.70 REMARK 3 BIN FREE R VALUE TEST SET COUNT : 337 REMARK 3 ESTIMATED ERROR OF BIN FREE R VALUE : 0.022 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 771 REMARK 3 NUCLEIC ACID ATOMS : 1532 REMARK 3 HETEROGEN ATOMS : 12 REMARK 3 SOLVENT ATOMS : 64 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 47.90 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 66.80 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -9.57000 REMARK 3 B22 (A**2) : -9.57000 REMARK 3 B33 (A**2) : 19.15000 REMARK 3 B12 (A**2) : 1.53000 REMARK 3 B13 (A**2) : 0.00000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM LUZZATI PLOT (A) : 0.39 REMARK 3 ESD FROM SIGMAA (A) : 0.51 REMARK 3 LOW RESOLUTION CUTOFF (A) : 5.00 REMARK 3 REMARK 3 CROSS-VALIDATED ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM C-V LUZZATI PLOT (A) : 0.45 REMARK 3 ESD FROM C-V SIGMAA (A) : 0.54 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 BOND LENGTHS (A) : 0.011 REMARK 3 BOND ANGLES (DEGREES) : 1.400 REMARK 3 DIHEDRAL ANGLES (DEGREES) : 20.900 REMARK 3 IMPROPER ANGLES (DEGREES) : 1.990 REMARK 3 REMARK 3 ISOTROPIC THERMAL MODEL : RESTRAINED REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. RMS SIGMA REMARK 3 MAIN-CHAIN BOND (A**2) : 2.070 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE (A**2) : 3.210 ; 2.000 REMARK 3 SIDE-CHAIN BOND (A**2) : 1.930 ; 2.000 REMARK 3 SIDE-CHAIN ANGLE (A**2) : 2.570 ; 2.000 REMARK 3 REMARK 3 BULK SOLVENT MODELING. REMARK 3 METHOD USED : FLAT MODEL REMARK 3 KSOL : 0.34 REMARK 3 BSOL : 48.58 REMARK 3 REMARK 3 NCS MODEL : NULL REMARK 3 REMARK 3 NCS RESTRAINTS. RMS SIGMA/WEIGHT REMARK 3 GROUP 1 POSITIONAL (A) : NULL ; NULL REMARK 3 GROUP 1 B-FACTOR (A**2) : NULL ; NULL REMARK 3 REMARK 3 PARAMETER FILE 1 : PROTEIN_REP.PA REMARK 3 PARAMETER FILE 2 : DNA-RNA_REP.PA REMARK 3 PARAMETER FILE 3 : WATER_REP.PARA REMARK 3 PARAMETER FILE 4 : ION.PARAM REMARK 3 PARAMETER FILE 5 : NULL REMARK 3 TOPOLOGY FILE 1 : PROTEIN.TOP REMARK 3 TOPOLOGY FILE 2 : DNA-RNA.TOP REMARK 3 TOPOLOGY FILE 3 : WATER.TOP REMARK 3 TOPOLOGY FILE 4 : ION.TOP REMARK 3 TOPOLOGY FILE 5 : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 1CX0 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 31-AUG-99. REMARK 100 THE RCSB ID CODE IS RCSB009597. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 01-JAN-98 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7.0 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : CHESS REMARK 200 BEAMLINE : F1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9209 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 4 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 18903 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.300 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 (%) : 95.6 REMARK 200 DATA REDUNDANCY : 3.840 REMARK 200 R MERGE (I) : 0.06600 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 25.9000 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) : 2.40 REMARK 200 COMPLETENESS FOR SHELL (%) : 96.5 REMARK 200 DATA REDUNDANCY IN SHELL : 3.84 REMARK 200 R MERGE FOR SHELL (I) : 0.04100 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : NULL REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: NULL REMARK 200 SOFTWARE USED: SHARP REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 61.48 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.19 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: PEG MME 2000, LITHIUM SULPHATE, REMARK 280 SPERMINE, TRIS, COBALT HEXAMMINE, MAGNESIUM CHLORIDE, PH 7.0, REMARK 280 VAPOR DIFFUSION, SITTING DROP, TEMPERATURE 25K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: H 3 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -Y,X-Y,Z REMARK 290 3555 -X+Y,-X,Z REMARK 290 4555 Y,X,-Z REMARK 290 5555 X-Y,-Y,-Z REMARK 290 6555 -X,-X+Y,-Z REMARK 290 7555 X+2/3,Y+1/3,Z+1/3 REMARK 290 8555 -Y+2/3,X-Y+1/3,Z+1/3 REMARK 290 9555 -X+Y+2/3,-X+1/3,Z+1/3 REMARK 290 10555 Y+2/3,X+1/3,-Z+1/3 REMARK 290 11555 X-Y+2/3,-Y+1/3,-Z+1/3 REMARK 290 12555 -X+2/3,-X+Y+1/3,-Z+1/3 REMARK 290 13555 X+1/3,Y+2/3,Z+2/3 REMARK 290 14555 -Y+1/3,X-Y+2/3,Z+2/3 REMARK 290 15555 -X+Y+1/3,-X+2/3,Z+2/3 REMARK 290 16555 Y+1/3,X+2/3,-Z+2/3 REMARK 290 17555 X-Y+1/3,-Y+2/3,-Z+2/3 REMARK 290 18555 -X+1/3,-X+Y+2/3,-Z+2/3 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 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 2 0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 3 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 3 -0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 4 0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 5 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 5 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 6 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 6 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 7 1.000000 0.000000 0.000000 54.67500 REMARK 290 SMTRY2 7 0.000000 1.000000 0.000000 31.56663 REMARK 290 SMTRY3 7 0.000000 0.000000 1.000000 63.56000 REMARK 290 SMTRY1 8 -0.500000 -0.866025 0.000000 54.67500 REMARK 290 SMTRY2 8 0.866025 -0.500000 0.000000 31.56663 REMARK 290 SMTRY3 8 0.000000 0.000000 1.000000 63.56000 REMARK 290 SMTRY1 9 -0.500000 0.866025 0.000000 54.67500 REMARK 290 SMTRY2 9 -0.866025 -0.500000 0.000000 31.56663 REMARK 290 SMTRY3 9 0.000000 0.000000 1.000000 63.56000 REMARK 290 SMTRY1 10 -0.500000 0.866025 0.000000 54.67500 REMARK 290 SMTRY2 10 0.866025 0.500000 0.000000 31.56663 REMARK 290 SMTRY3 10 0.000000 0.000000 -1.000000 63.56000 REMARK 290 SMTRY1 11 1.000000 0.000000 0.000000 54.67500 REMARK 290 SMTRY2 11 0.000000 -1.000000 0.000000 31.56663 REMARK 290 SMTRY3 11 0.000000 0.000000 -1.000000 63.56000 REMARK 290 SMTRY1 12 -0.500000 -0.866025 0.000000 54.67500 REMARK 290 SMTRY2 12 -0.866025 0.500000 0.000000 31.56663 REMARK 290 SMTRY3 12 0.000000 0.000000 -1.000000 63.56000 REMARK 290 SMTRY1 13 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 13 0.000000 1.000000 0.000000 63.13325 REMARK 290 SMTRY3 13 0.000000 0.000000 1.000000 127.12000 REMARK 290 SMTRY1 14 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 14 0.866025 -0.500000 0.000000 63.13325 REMARK 290 SMTRY3 14 0.000000 0.000000 1.000000 127.12000 REMARK 290 SMTRY1 15 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 15 -0.866025 -0.500000 0.000000 63.13325 REMARK 290 SMTRY3 15 0.000000 0.000000 1.000000 127.12000 REMARK 290 SMTRY1 16 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 16 0.866025 0.500000 0.000000 63.13325 REMARK 290 SMTRY3 16 0.000000 0.000000 -1.000000 127.12000 REMARK 290 SMTRY1 17 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 17 0.000000 -1.000000 0.000000 63.13325 REMARK 290 SMTRY3 17 0.000000 0.000000 -1.000000 127.12000 REMARK 290 SMTRY1 18 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 18 -0.866025 0.500000 0.000000 63.13325 REMARK 290 SMTRY3 18 0.000000 0.000000 -1.000000 127.12000 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 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS REMARK 500 REMARK 500 THE FOLLOWING ATOMS THAT ARE RELATED BY CRYSTALLOGRAPHIC REMARK 500 SYMMETRY ARE IN CLOSE CONTACT. AN ATOM LOCATED WITHIN 0.15 REMARK 500 ANGSTROMS OF A SYMMETRY RELATED ATOM IS ASSUMED TO BE ON A REMARK 500 SPECIAL POSITION AND IS, THEREFORE, LISTED IN REMARK 375 REMARK 500 INSTEAD OF REMARK 500. ATOMS WITH NON-BLANK ALTERNATE REMARK 500 LOCATION INDICATORS ARE NOT INCLUDED IN THE CALCULATIONS. REMARK 500 REMARK 500 DISTANCE CUTOFF: REMARK 500 2.2 ANGSTROMS FOR CONTACTS NOT INVOLVING HYDROGEN ATOMS REMARK 500 1.6 ANGSTROMS FOR CONTACTS INVOLVING HYDROGEN ATOMS REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI SSYMOP DISTANCE REMARK 500 O HOH A 353 O HOH A 353 4555 0.94 REMARK 500 O HOH A 301 O HOH A 301 4555 1.21 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 C B 122 C2' - C3' - O3' ANGL. DEV. = 13.6 DEGREES REMARK 500 C B 152 C2' - C3' - O3' ANGL. DEV. = 16.6 DEGREES REMARK 500 G B 162 N9 - C1' - C2' ANGL. DEV. = 8.1 DEGREES REMARK 500 C B 163 C2' - C3' - O3' ANGL. DEV. = 14.8 DEGREES REMARK 500 G B 164 C2' - C3' - O3' ANGL. DEV. = 13.7 DEGREES REMARK 500 U B 167 C2' - C3' - O3' ANGL. DEV. = 9.8 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 ASN A 16 31.32 73.48 REMARK 500 LYS A 96 2.30 -69.27 REMARK 500 MSE A 97 -74.11 -107.05 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 410 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 LYS A 50 N REMARK 620 2 G B 158 OP2 123.8 REMARK 620 N 1 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG B 402 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 G B 170 N7 REMARK 620 2 G B 170 O6 70.9 REMARK 620 N 1 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG B 403 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HOH B 305 O REMARK 620 2 A B 153 OP2 99.0 REMARK 620 3 C B 152 O2' 100.3 54.1 REMARK 620 4 LYS A 88 NZ 104.1 111.8 59.0 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG B 407 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 G B 117 OP1 REMARK 620 2 C B 118 OP2 125.5 REMARK 620 N 1 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 402 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG B 403 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG B 404 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG B 405 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG A 406 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG B 407 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG B 408 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG B 409 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG A 410 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG B 411 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG B 412 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1DRZ RELATED DB: PDB DBREF 1CX0 A 4 98 UNP P09012 SNRPA_HUMAN 4 98 DBREF 1CX0 B 101 172 PDB 1CX0 1CX0 101 172 SEQADV 1CX0 HIS A 31 UNP P09012 TYR 31 ENGINEERED SEQADV 1CX0 ARG A 36 UNP P09012 GLN 36 ENGINEERED SEQADV 1CX0 MSE A 51 UNP P09012 MET 51 ENGINEERED SEQADV 1CX0 MSE A 72 UNP P09012 MET 72 ENGINEERED SEQADV 1CX0 MSE A 82 UNP P09012 MET 82 ENGINEERED SEQADV 1CX0 MSE A 97 UNP P09012 MET 97 ENGINEERED SEQADV 1CX0 ALA A 98 UNP P09012 LYS 98 ENGINEERED SEQRES 1 B 72 G G C C G G C A U G G U C SEQRES 2 B 72 C C A G C C U C C U C G C SEQRES 3 B 72 U G G C G C C G G C U G G SEQRES 4 B 72 G C A A C A C C A U U G C SEQRES 5 B 72 A C U C C G G U G G C G A SEQRES 6 B 72 A U G G G A C SEQRES 1 A 95 PRO GLU THR ARG PRO ASN HIS THR ILE TYR ILE ASN ASN SEQRES 2 A 95 LEU ASN GLU LYS ILE LYS LYS ASP GLU LEU LYS LYS SER SEQRES 3 A 95 LEU HIS ALA ILE PHE SER ARG PHE GLY GLN ILE LEU ASP SEQRES 4 A 95 ILE LEU VAL SER ARG SER LEU LYS MSE ARG GLY GLN ALA SEQRES 5 A 95 PHE VAL ILE PHE LYS GLU VAL SER SER ALA THR ASN ALA SEQRES 6 A 95 LEU ARG SER MSE GLN GLY PHE PRO PHE TYR ASP LYS PRO SEQRES 7 A 95 MSE ARG ILE GLN TYR ALA LYS THR ASP SER ASP ILE ILE SEQRES 8 A 95 ALA LYS MSE ALA MODRES 1CX0 MSE A 51 MET SELENOMETHIONINE MODRES 1CX0 MSE A 72 MET SELENOMETHIONINE MODRES 1CX0 MSE A 82 MET SELENOMETHIONINE MODRES 1CX0 MSE A 97 MET SELENOMETHIONINE HET MSE A 51 8 HET MSE A 72 8 HET MSE A 82 8 HET MSE A 97 8 HET MG B 401 1 HET MG B 402 1 HET MG B 403 1 HET MG B 404 1 HET MG B 405 1 HET MG A 406 1 HET MG B 407 1 HET MG B 408 1 HET MG B 409 1 HET MG A 410 1 HET MG B 411 1 HET MG B 412 1 HETNAM MSE SELENOMETHIONINE HETNAM MG MAGNESIUM ION FORMUL 2 MSE 4(C5 H11 N O2 SE) FORMUL 3 MG 12(MG 2+) FORMUL 15 HOH *64(H2 O) HELIX 1 1 LYS A 22 SER A 35 1 14 HELIX 2 2 ARG A 36 GLY A 38 5 3 HELIX 3 3 GLU A 61 MSE A 72 1 12 HELIX 4 4 SER A 91 LYS A 96 1 6 SHEET 1 A 4 ILE A 40 VAL A 45 0 SHEET 2 A 4 GLN A 54 PHE A 59 -1 O PHE A 56 N LEU A 44 SHEET 3 A 4 THR A 11 ASN A 15 -1 O ILE A 12 N VAL A 57 SHEET 4 A 4 ARG A 83 TYR A 86 -1 N ARG A 83 O ASN A 15 SHEET 1 B 2 PRO A 76 PHE A 77 0 SHEET 2 B 2 LYS A 80 PRO A 81 -1 O LYS A 80 N PHE A 77 LINK C LYS A 50 N MSE A 51 1555 1555 1.32 LINK C MSE A 51 N ARG A 52 1555 1555 1.32 LINK C SER A 71 N MSE A 72 1555 1555 1.33 LINK C MSE A 72 N GLN A 73 1555 1555 1.32 LINK C PRO A 81 N MSE A 82 1555 1555 1.32 LINK C MSE A 82 N ARG A 83 1555 1555 1.33 LINK C LYS A 96 N MSE A 97 1555 1555 1.33 LINK C MSE A 97 N ALA A 98 1555 1555 1.34 LINK MG MG A 410 N LYS A 50 1555 1555 2.91 LINK MG MG A 410 OP2 G B 158 1555 1555 3.14 LINK MG MG B 402 N7 G B 170 1555 1555 2.49 LINK MG MG B 402 O6 G B 170 1555 1555 2.84 LINK MG MG B 403 O HOH B 305 1555 1555 2.79 LINK MG MG B 403 OP2 A B 153 1555 1555 2.60 LINK MG MG B 403 O2' C B 152 1555 1555 2.56 LINK MG MG B 403 NZ LYS A 88 1555 1555 3.11 LINK MG MG B 404 O HOH B 359 1555 1555 2.59 LINK MG MG B 407 OP1 G B 117 1555 1555 2.81 LINK MG MG B 407 OP2 C B 118 1555 1555 2.77 LINK MG MG B 408 OP2 C B 119 1555 1555 2.57 LINK MG MG B 411 OP2 C B 136 1555 1555 2.81 LINK MG MG B 412 OP2 C B 124 1555 1555 2.66 SITE 1 AC1 2 G B 169 G B 170 SITE 1 AC2 5 LYS A 88 THR A 89 C B 152 A B 153 SITE 2 AC2 5 HOH B 305 SITE 1 AC3 2 G B 138 HOH B 359 SITE 1 AC4 1 G B 105 SITE 1 AC5 2 LYS A 23 LYS A 27 SITE 1 AC6 2 G B 117 C B 118 SITE 1 AC7 2 C B 119 U B 120 SITE 1 AC8 1 G B 110 SITE 1 AC9 3 LEU A 49 LYS A 50 G B 158 SITE 1 BC1 2 G B 135 C B 136 SITE 1 BC2 1 C B 124 CRYST1 109.350 109.350 190.680 90.00 90.00 120.00 H 3 2 18 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 0.009145 0.005280 0.000000 0.00000 SCALE2 0.000000 0.010560 0.000000 0.00000 SCALE3 0.000000 0.000000 0.005244 0.00000 TER 1533 C B 172 HETATM 1933 N MSE A 51 21.956 62.865 16.407 1.00 41.63 N HETATM 1934 CA MSE A 51 21.782 62.235 15.123 1.00 41.50 C HETATM 1935 C MSE A 51 22.838 61.305 14.581 1.00 42.81 C HETATM 1936 O MSE A 51 22.689 60.793 13.484 1.00 43.70 O HETATM 1937 CB MSE A 51 21.495 63.307 14.091 1.00 42.95 C HETATM 1938 CG MSE A 51 20.148 64.022 14.309 1.00 50.19 C HETATM 1939 SE MSE A 51 18.651 62.939 14.583 1.00 58.75 SE HETATM 1940 CE MSE A 51 18.425 62.849 16.308 1.00 48.52 C HETATM 2094 N MSE A 72 18.003 45.190 2.242 1.00 42.37 N HETATM 2095 CA MSE A 72 19.180 45.559 3.010 1.00 41.12 C HETATM 2096 C MSE A 72 19.091 45.482 4.533 1.00 39.49 C HETATM 2097 O MSE A 72 19.975 45.963 5.237 1.00 37.56 O HETATM 2098 CB MSE A 72 19.623 46.958 2.596 1.00 43.04 C HETATM 2099 CG MSE A 72 19.997 47.084 1.132 1.00 42.13 C HETATM 2100 SE MSE A 72 21.380 46.048 0.618 1.00 56.76 SE HETATM 2101 CE MSE A 72 21.217 46.053 -1.129 1.00 45.08 C HETATM 2180 N MSE A 82 23.334 46.934 9.616 1.00 34.21 N HETATM 2181 CA MSE A 82 22.498 48.093 9.359 1.00 40.08 C HETATM 2182 C MSE A 82 21.031 47.799 9.751 1.00 39.89 C HETATM 2183 O MSE A 82 20.471 46.757 9.360 1.00 37.47 O HETATM 2184 CB MSE A 82 22.622 48.363 7.868 1.00 42.50 C HETATM 2185 CG MSE A 82 22.079 49.629 7.303 1.00 43.68 C HETATM 2186 SE MSE A 82 22.341 49.537 5.504 1.00 55.11 SE HETATM 2187 CE MSE A 82 23.833 50.476 5.490 1.00 38.39 C HETATM 2301 N MSE A 97 6.713 68.787 -2.887 1.00 76.41 N HETATM 2302 CA MSE A 97 6.266 68.393 -4.225 1.00 83.14 C HETATM 2303 C MSE A 97 4.740 68.264 -4.280 1.00 85.15 C HETATM 2304 O MSE A 97 4.051 69.117 -4.843 1.00 83.94 O HETATM 2305 CB MSE A 97 6.897 67.048 -4.635 1.00 87.82 C HETATM 2306 CG MSE A 97 8.436 66.981 -4.588 1.00 94.81 C HETATM 2307 SE MSE A 97 9.140 65.379 -5.173 1.00102.59 SE HETATM 2308 CE MSE A 97 8.154 64.165 -4.184 1.00100.42 C TER 2315 ALA A 98 HETATM 2316 MG MG B 401 85.173 71.732 16.992 1.00 77.96 MG HETATM 2317 MG MG B 402 79.003 69.700 14.150 1.00 73.20 MG HETATM 2318 MG MG B 403 9.596 62.411 13.402 1.00 62.56 MG HETATM 2319 MG MG B 404 48.026 73.068 26.732 1.00 72.59 MG HETATM 2320 MG MG B 405 63.623 79.773 28.694 1.00 86.62 MG HETATM 2321 MG MG B 407 64.693 59.956 7.476 1.00 81.20 MG HETATM 2322 MG MG B 408 58.001 61.900 13.126 1.00 76.59 MG HETATM 2323 MG MG B 409 79.965 84.253 23.275 1.00 73.36 MG HETATM 2324 MG MG B 411 53.007 73.668 38.880 1.00 89.72 MG HETATM 2325 MG MG B 412 51.568 77.963 9.128 1.00 87.46 MG HETATM 2326 MG MG A 406 25.463 68.205 2.775 1.00 67.84 MG HETATM 2327 MG MG A 410 22.587 66.575 19.552 1.00 62.10 MG HETATM 2328 O HOH B 305 10.303 61.474 10.871 1.00 40.01 O HETATM 2329 O HOH B 306 13.784 56.061 20.670 1.00 48.13 O HETATM 2330 O HOH B 309 14.038 66.523 2.938 1.00 38.98 O HETATM 2331 O HOH B 326 17.758 65.184 9.049 1.00 44.65 O HETATM 2332 O HOH B 327 18.344 69.037 5.315 1.00 49.26 O HETATM 2333 O HOH B 328 12.448 72.128 11.838 1.00 64.04 O HETATM 2334 O HOH B 332 22.704 59.535 20.358 1.00 44.03 O HETATM 2335 O HOH B 333 29.711 64.456 28.325 1.00 54.92 O HETATM 2336 O HOH B 334 17.732 50.981 18.888 1.00 50.76 O HETATM 2337 O HOH B 336 19.883 59.122 23.571 1.00 62.82 O HETATM 2338 O HOH B 337 32.028 67.370 20.472 1.00 64.87 O HETATM 2339 O HOH B 338 72.902 69.965 15.349 1.00 60.48 O HETATM 2340 O HOH B 339 55.815 72.949 16.304 1.00 68.94 O HETATM 2341 O HOH B 342 29.012 66.674 17.923 1.00 61.57 O HETATM 2342 O HOH B 344 19.246 67.356 7.514 1.00 56.00 O HETATM 2343 O HOH B 345 9.637 65.500 11.519 1.00 48.80 O HETATM 2344 O HOH B 358 69.691 81.903 27.264 1.00 71.81 O HETATM 2345 O HOH B 359 46.049 73.472 28.350 1.00 63.38 O HETATM 2346 O HOH B 361 37.754 59.719 8.953 1.00 83.34 O HETATM 2347 O HOH B 364 76.003 74.354 36.934 1.00 75.35 O HETATM 2348 O HOH A 301 32.853 56.507 0.571 1.00 41.94 O HETATM 2349 O HOH A 302 27.055 59.115 12.335 1.00 46.41 O HETATM 2350 O HOH A 303 21.956 61.533 10.963 1.00 42.68 O HETATM 2351 O HOH A 304 29.269 58.014 10.995 1.00 37.67 O HETATM 2352 O HOH A 307 24.904 60.118 10.984 1.00 37.18 O HETATM 2353 O HOH A 308 10.604 43.595 -2.112 1.00 66.48 O HETATM 2354 O HOH A 310 5.893 59.243 2.113 1.00 44.66 O HETATM 2355 O HOH A 311 9.529 60.989 2.902 1.00 40.94 O HETATM 2356 O HOH A 312 3.519 58.180 2.032 1.00 53.85 O HETATM 2357 O HOH A 313 16.197 51.871 11.984 1.00 42.83 O HETATM 2358 O HOH A 314 25.534 53.645 15.861 1.00 48.40 O HETATM 2359 O HOH A 315 35.064 49.661 8.358 1.00 49.42 O HETATM 2360 O HOH A 316 22.983 65.914 5.261 1.00 41.63 O HETATM 2361 O HOH A 317 37.548 55.067 7.144 1.00 46.07 O HETATM 2362 O HOH A 318 39.946 60.356 5.256 1.00 51.95 O HETATM 2363 O HOH A 319 23.234 47.270 -3.462 1.00 37.49 O HETATM 2364 O HOH A 320 13.085 55.511 -9.651 1.00 60.59 O HETATM 2365 O HOH A 321 12.750 55.788 -6.477 1.00 39.01 O HETATM 2366 O HOH A 322 21.089 67.819 17.029 1.00 46.72 O HETATM 2367 O HOH A 323 5.797 50.174 -1.960 1.00 46.27 O HETATM 2368 O HOH A 324 20.514 42.384 4.151 1.00 55.40 O HETATM 2369 O HOH A 325 29.382 59.807 13.501 1.00 57.61 O HETATM 2370 O HOH A 329 35.760 58.434 7.312 1.00 41.92 O HETATM 2371 O HOH A 330 26.929 58.004 -6.692 1.00 60.25 O HETATM 2372 O HOH A 331 19.883 57.833 -7.533 1.00 47.38 O HETATM 2373 O HOH A 335 7.967 67.321 5.639 1.00 44.64 O HETATM 2374 O HOH A 340 20.364 63.613 9.881 1.00 48.64 O HETATM 2375 O HOH A 341 37.819 56.637 5.452 1.00 54.80 O HETATM 2376 O HOH A 343 18.290 66.722 16.775 1.00 46.49 O HETATM 2377 O HOH A 346 25.496 49.670 9.889 1.00 33.45 O HETATM 2378 O HOH A 347 27.949 51.160 9.845 1.00 40.68 O HETATM 2379 O HOH A 348 34.162 63.054 15.383 1.00 53.71 O HETATM 2380 O HOH A 349 32.506 65.110 6.156 1.00 46.45 O HETATM 2381 O HOH A 350 32.047 64.765 9.062 1.00 33.77 O HETATM 2382 O HOH A 351 34.863 62.234 4.066 1.00 52.76 O HETATM 2383 O HOH A 352 34.700 61.709 1.464 1.00 45.30 O HETATM 2384 O HOH A 353 33.773 59.421 0.071 1.00 56.78 O HETATM 2385 O HOH A 354 34.994 64.900 4.668 1.00 46.03 O HETATM 2386 O HOH A 355 15.689 56.097 16.571 1.00 45.75 O HETATM 2387 O HOH A 356 -2.232 68.040 -2.817 1.00 67.96 O HETATM 2388 O HOH A 357 5.771 56.915 -4.945 1.00 53.18 O HETATM 2389 O HOH A 360 37.082 56.373 9.440 1.00 54.39 O HETATM 2390 O HOH A 362 30.464 66.209 9.930 1.00 47.19 O HETATM 2391 O HOH A 363 27.686 69.847 4.393 1.00 52.60 O CONECT 341 2321 CONECT 365 2321 CONECT 385 2322 CONECT 485 2325 CONECT 743 2324 CONECT 1091 2318 CONECT 1103 2318 CONECT 1205 2327 CONECT 1482 2317 CONECT 1485 2317 CONECT 1924 2327 CONECT 1926 1933 CONECT 1933 1926 1934 CONECT 1934 1933 1935 1937 CONECT 1935 1934 1936 1941 CONECT 1936 1935 CONECT 1937 1934 1938 CONECT 1938 1937 1939 CONECT 1939 1938 1940 CONECT 1940 1939 CONECT 1941 1935 CONECT 2090 2094 CONECT 2094 2090 2095 CONECT 2095 2094 2096 2098 CONECT 2096 2095 2097 2102 CONECT 2097 2096 CONECT 2098 2095 2099 CONECT 2099 2098 2100 CONECT 2100 2099 2101 CONECT 2101 2100 CONECT 2102 2096 CONECT 2175 2180 CONECT 2180 2175 2181 CONECT 2181 2180 2182 2184 CONECT 2182 2181 2183 2188 CONECT 2183 2182 CONECT 2184 2181 2185 CONECT 2185 2184 2186 CONECT 2186 2185 2187 CONECT 2187 2186 CONECT 2188 2182 CONECT 2241 2318 CONECT 2294 2301 CONECT 2301 2294 2302 CONECT 2302 2301 2303 2305 CONECT 2303 2302 2304 2309 CONECT 2304 2303 CONECT 2305 2302 2306 CONECT 2306 2305 2307 CONECT 2307 2306 2308 CONECT 2308 2307 CONECT 2309 2303 CONECT 2317 1482 1485 CONECT 2318 1091 1103 2241 2328 CONECT 2319 2345 CONECT 2321 341 365 CONECT 2322 385 CONECT 2324 743 CONECT 2325 485 CONECT 2327 1205 1924 CONECT 2328 2318 CONECT 2345 2319 MASTER 419 0 16 4 6 0 12 6 2379 2 62 14 END