HEADER RNA-BINDING PROTEIN/RNA 11-AUG-05 2ANR TITLE CRYSTAL STRUCTURE (II) OF NOVA-1 KH1/KH2 DOMAIN TANDEM WITH 25NT RNA TITLE 2 HAIRPIN COMPND MOL_ID: 1; COMPND 2 MOLECULE: 5'-R(*CP*(5BU) COMPND 3 P*CP*GP*CP*GP*GP*AP*UP*CP*AP*GP*UP*CP*AP*CP*CP*CP*AP*AP*GP*CP*GP*AP*G COMPND 4 )-3'; COMPND 5 CHAIN: B; COMPND 6 ENGINEERED: YES; COMPND 7 MOL_ID: 2; COMPND 8 MOLECULE: RNA-BINDING PROTEIN NOVA-1; COMPND 9 CHAIN: A; COMPND 10 FRAGMENT: KH1/KH2 DOMAINS; COMPND 11 SYNONYM: NEURO-ONCOLOGICAL VENTRAL ANTIGEN 1,VENTRAL NEURON-SPECIFIC COMPND 12 PROTEIN 1; COMPND 13 ENGINEERED: YES; COMPND 14 MUTATION: YES SOURCE MOL_ID: 1; SOURCE 2 SYNTHETIC: YES; SOURCE 3 MOL_ID: 2; SOURCE 4 ORGANISM_SCIENTIFIC: MUS MUSCULUS; SOURCE 5 ORGANISM_COMMON: MOUSE; SOURCE 6 ORGANISM_TAXID: 10090; SOURCE 7 GENE: NOVA1; SOURCE 8 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 9 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS PROTEIN-RNA COMPLEX, KH DOMAIN, HAIRPIN, RNA-BINDING PROTEIN-RNA KEYWDS 2 COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR L.MALININA,M.TEPLOVA,K.MUSUNURU,A.TEPLOV,J.C.DARNELL,S.K.BURLEY, AUTHOR 2 R.B.DARNELL,D.J.PATEL REVDAT 11 30-OCT-24 2ANR 1 REMARK REVDAT 10 20-DEC-23 2ANR 1 COMPND SOURCE DBREF SEQADV REVDAT 9 15-NOV-23 2ANR 1 REMARK REVDAT 8 23-AUG-23 2ANR 1 REMARK REVDAT 7 20-OCT-21 2ANR 1 SEQADV REVDAT 6 03-FEB-21 2ANR 1 AUTHOR JRNL REMARK SEQADV REVDAT 6 2 1 LINK REVDAT 5 11-OCT-17 2ANR 1 REMARK REVDAT 4 02-NOV-11 2ANR 1 JRNL REVDAT 3 13-JUL-11 2ANR 1 VERSN REVDAT 2 24-FEB-09 2ANR 1 VERSN REVDAT 1 24-OCT-06 2ANR 0 JRNL AUTH M.TEPLOVA,L.MALININA,J.C.DARNELL,J.SONG,M.LU,R.ABAGYAN, JRNL AUTH 2 K.MUSUNURU,A.TEPLOV,S.K.BURLEY,R.B.DARNELL,D.J.PATEL JRNL TITL PROTEIN-RNA AND PROTEIN-PROTEIN RECOGNITION BY DUAL KH1/2 JRNL TITL 2 DOMAINS OF THE NEURONAL SPLICING FACTOR NOVA-1. JRNL REF STRUCTURE V. 19 930 2011 JRNL REFN ISSN 0969-2126 JRNL PMID 21742260 JRNL DOI 10.1016/J.STR.2011.05.002 REMARK 2 REMARK 2 RESOLUTION. 1.94 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 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) : 1.94 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 20.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 94.2 REMARK 3 NUMBER OF REFLECTIONS : 16202 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) : 0.230 REMARK 3 R VALUE (WORKING SET) : 0.227 REMARK 3 FREE R VALUE : 0.268 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 830 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) : 1.94 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.99 REMARK 3 REFLECTION IN BIN (WORKING SET) : 1045 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : NULL REMARK 3 BIN R VALUE (WORKING SET) : 0.3440 REMARK 3 BIN FREE R VALUE SET COUNT : 61 REMARK 3 BIN FREE R VALUE : 0.4090 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 1177 REMARK 3 NUCLEIC ACID ATOMS : 531 REMARK 3 HETEROGEN ATOMS : 3 REMARK 3 SOLVENT ATOMS : 106 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) : 25.00 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 1.72000 REMARK 3 B22 (A**2) : -0.38000 REMARK 3 B33 (A**2) : -1.76000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : -1.85000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.218 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.186 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.169 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 6.103 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.948 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.927 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 1796 ; 0.013 ; 0.021 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 2535 ; 1.682 ; 2.030 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 152 ; 7.170 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): NULL ; NULL ; NULL REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 290 ; 0.110 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 1121 ; 0.007 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 806 ; 0.211 ; 0.200 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): 86 ; 0.160 ; 0.200 REMARK 3 H-BOND (X...Y) OTHERS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION REFINED ATOMS (A): 3 ; 0.262 ; 0.200 REMARK 3 POTENTIAL METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW REFINED ATOMS (A): 30 ; 0.172 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 5 ; 0.222 ; 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): 765 ; 0.636 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 1238 ; 1.084 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1029 ; 1.699 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1297 ; 2.233 ; 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 : 2 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 3 A 178 REMARK 3 ORIGIN FOR THE GROUP (A): 63.5814 4.8748 10.8711 REMARK 3 T TENSOR REMARK 3 T11: 0.1949 T22: 0.0778 REMARK 3 T33: 0.2368 T12: 0.0523 REMARK 3 T13: -0.0789 T23: -0.0104 REMARK 3 L TENSOR REMARK 3 L11: 3.7787 L22: 2.7356 REMARK 3 L33: 2.3635 L12: 1.0571 REMARK 3 L13: 1.3332 L23: 0.1923 REMARK 3 S TENSOR REMARK 3 S11: -0.0263 S12: 0.0314 S13: -0.1331 REMARK 3 S21: 0.6712 S22: -0.0459 S23: -0.4716 REMARK 3 S31: 0.0107 S32: 0.0039 S33: 0.0722 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 : B 201 B 225 REMARK 3 ORIGIN FOR THE GROUP (A): 48.8347 -16.8254 -1.6941 REMARK 3 T TENSOR REMARK 3 T11: 0.0928 T22: 0.3052 REMARK 3 T33: 0.1404 T12: 0.0576 REMARK 3 T13: 0.1082 T23: 0.0056 REMARK 3 L TENSOR REMARK 3 L11: 1.2181 L22: 2.7282 REMARK 3 L33: 2.1422 L12: 0.3749 REMARK 3 L13: 1.2297 L23: 0.6884 REMARK 3 S TENSOR REMARK 3 S11: 0.1339 S12: 0.2452 S13: 0.0350 REMARK 3 S21: 0.0746 S22: -0.0422 S23: -0.1659 REMARK 3 S31: -0.0263 S32: -0.4289 S33: -0.0917 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 : 1.40 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 2ANR COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 23-AUG-05. REMARK 100 THE DEPOSITION ID IS D_1000034107. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 07-FEB-03 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 5.6 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : NSLS REMARK 200 BEAMLINE : X4A REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.919826 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, HKL-2000 REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 16720 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.940 REMARK 200 RESOLUTION RANGE LOW (A) : 39.600 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 92.5 REMARK 200 DATA REDUNDANCY : 6.550 REMARK 200 R MERGE (I) : 0.11400 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : NULL REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.94 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.01 REMARK 200 COMPLETENESS FOR SHELL (%) : 89.6 REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : 0.46400 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> FOR SHELL : NULL REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: AMORE REMARK 200 STARTING MODEL: PDB ENTRY 2ANN REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 48.43 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.40 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: PEG 4000, ISOPROPANOL, POTASSIUM REMARK 280 CLORIDE, MAGNESIUM CLORIDE, PH 5.6, VAPOR DIFFUSION, TEMPERATURE REMARK 280 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: C 1 2 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,Y,-Z REMARK 290 3555 X+1/2,Y+1/2,Z REMARK 290 4555 -X+1/2,Y+1/2,-Z REMARK 290 REMARK 290 WHERE NNN -> OPERATOR NUMBER REMARK 290 MMM -> TRANSLATION VECTOR REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY TRANSFORMATIONS REMARK 290 THE FOLLOWING TRANSFORMATIONS OPERATE ON THE ATOM/HETATM REMARK 290 RECORDS IN THIS ENTRY TO PRODUCE CRYSTALLOGRAPHICALLY REMARK 290 RELATED MOLECULES. REMARK 290 SMTRY1 1 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 1 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 1 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 2 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 2 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 3 1.000000 0.000000 0.000000 79.72650 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 18.94250 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 79.72650 REMARK 290 SMTRY2 4 0.000000 1.000000 0.000000 18.94250 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1 REMARK 300 SEE REMARK 350 FOR THE AUTHOR PROVIDED AND/OR PROGRAM REMARK 300 GENERATED ASSEMBLY INFORMATION FOR THE STRUCTURE IN REMARK 300 THIS ENTRY. THE REMARK MAY ALSO PROVIDE INFORMATION ON REMARK 300 BURIED SURFACE AREA. REMARK 350 REMARK 350 COORDINATES FOR A COMPLETE MULTIMER REPRESENTING THE KNOWN REMARK 350 BIOLOGICALLY SIGNIFICANT OLIGOMERIZATION STATE OF THE REMARK 350 MOLECULE CAN BE GENERATED BY APPLYING BIOMT TRANSFORMATIONS REMARK 350 GIVEN BELOW. BOTH NON-CRYSTALLOGRAPHIC AND REMARK 350 CRYSTALLOGRAPHIC OPERATIONS ARE GIVEN. REMARK 350 REMARK 350 BIOMOLECULE: 1 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: DIMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: B, A REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 465 REMARK 465 MISSING RESIDUES REMARK 465 THE FOLLOWING RESIDUES WERE NOT LOCATED IN THE REMARK 465 EXPERIMENT. (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 465 IDENTIFIER; SSSEQ=SEQUENCE NUMBER; I=INSERTION CODE.) REMARK 465 REMARK 465 M RES C SSSEQI REMARK 465 PRO A 1 REMARK 465 LEU A 2 REMARK 465 VAL A 83 REMARK 465 ALA A 84 REMARK 465 LYS A 85 REMARK 465 THR A 86 REMARK 465 GLU A 87 REMARK 465 PRO A 88 REMARK 465 VAL A 89 REMARK 465 SER A 90 REMARK 465 ILE A 91 REMARK 465 LEU A 92 REMARK 465 GLN A 93 REMARK 465 PRO A 94 REMARK 465 GLN A 95 REMARK 465 THR A 96 REMARK 465 THR A 97 REMARK 465 VAL A 98 REMARK 465 ASN A 99 REMARK 465 ASP A 144 REMARK 465 GLY A 145 REMARK 465 ILE A 146 REMARK 465 ASN A 147 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 5BU B 202 O3' - P - O5' ANGL. DEV. = -15.1 DEGREES REMARK 500 G B 207 O4' - C1' - N9 ANGL. DEV. = 5.9 DEGREES REMARK 500 G B 212 C3' - C2' - C1' 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 MSE A 79 -31.99 -137.63 REMARK 500 PRO A 80 70.06 -59.93 REMARK 500 GLN A 141 -87.29 -64.12 REMARK 500 LYS A 142 85.78 -174.83 REMARK 500 GLN A 149 33.23 -97.89 REMARK 500 ASP A 176 127.13 -175.84 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 MSE A 79 PRO A 80 -138.69 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 K B 301 K REMARK 620 N RES CSSEQI ATOM REMARK 620 1 G B 206 O6 REMARK 620 2 G B 207 N1 55.5 REMARK 620 3 G B 207 O6 82.1 38.2 REMARK 620 4 MG B 302 MG 114.3 81.7 43.5 REMARK 620 5 HOH B 304 O 86.7 141.3 139.9 110.9 REMARK 620 6 MG B 306 MG 35.7 72.9 109.4 149.1 80.7 REMARK 620 7 HOH B 321 O 91.5 100.1 71.8 46.1 70.1 121.2 REMARK 620 8 HOH B 322 O 94.2 53.3 69.7 96.2 149.9 82.6 139.8 REMARK 620 9 HOH B 332 O 72.5 99.1 136.8 171.5 73.8 37.0 141.2 77.8 REMARK 620 N 1 2 3 4 5 6 7 8 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG B 306 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 G B 206 O6 REMARK 620 2 HOH B 323 O 102.2 REMARK 620 3 HOH B 332 O 89.6 167.6 REMARK 620 4 HOH B 333 O 95.9 87.0 87.9 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG B 302 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 G B 207 O6 REMARK 620 2 HOH B 303 O 99.7 REMARK 620 3 HOH B 321 O 88.5 92.1 REMARK 620 4 HOH B 324 O 162.1 97.2 96.6 REMARK 620 5 HOH B 334 O 90.0 169.4 84.1 73.5 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 K B 301 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG B 302 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG B 306 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 2ANN RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE (1) OF NOVA-1 KH1/KH2 TANDEM WITH 25NT RNA HAIRPIN DBREF 2ANR B 201 225 PDB 2ANR 2ANR 201 225 DBREF 2ANR A 5 178 UNP Q9JKN6 NOVA1_MOUSE 49 246 SEQADV 2ANR PRO A 1 UNP Q9JKN6 EXPRESSION TAG SEQADV 2ANR LEU A 2 UNP Q9JKN6 EXPRESSION TAG SEQADV 2ANR GLY A 3 UNP Q9JKN6 EXPRESSION TAG SEQADV 2ANR SER A 4 UNP Q9JKN6 EXPRESSION TAG SEQADV 2ANR A UNP Q9JKN6 ARG 146 DELETION SEQADV 2ANR A UNP Q9JKN6 ILE 147 DELETION SEQADV 2ANR A UNP Q9JKN6 LYS 148 DELETION SEQADV 2ANR A UNP Q9JKN6 GLN 149 DELETION SEQADV 2ANR A UNP Q9JKN6 THR 150 DELETION SEQADV 2ANR A UNP Q9JKN6 LEU 151 DELETION SEQADV 2ANR A UNP Q9JKN6 PRO 152 DELETION SEQADV 2ANR A UNP Q9JKN6 SER 153 DELETION SEQADV 2ANR A UNP Q9JKN6 SER 154 DELETION SEQADV 2ANR A UNP Q9JKN6 PRO 155 DELETION SEQADV 2ANR A UNP Q9JKN6 THR 156 DELETION SEQADV 2ANR A UNP Q9JKN6 THR 157 DELETION SEQADV 2ANR A UNP Q9JKN6 THR 158 DELETION SEQADV 2ANR A UNP Q9JKN6 LYS 159 DELETION SEQADV 2ANR A UNP Q9JKN6 SER 160 DELETION SEQADV 2ANR A UNP Q9JKN6 SER 161 DELETION SEQADV 2ANR A UNP Q9JKN6 PRO 162 DELETION SEQADV 2ANR A UNP Q9JKN6 SER 163 DELETION SEQADV 2ANR A UNP Q9JKN6 ASP 164 DELETION SEQADV 2ANR A UNP Q9JKN6 PRO 165 DELETION SEQADV 2ANR A UNP Q9JKN6 MET 166 DELETION SEQADV 2ANR A UNP Q9JKN6 THR 167 DELETION SEQADV 2ANR A UNP Q9JKN6 THR 168 DELETION SEQADV 2ANR A UNP Q9JKN6 SER 169 DELETION SEQADV 2ANR ASN A 150 UNP Q9JKN6 GLU 218 ENGINEERED MUTATION SEQRES 1 B 25 C 5BU C G C G G A U C A G U SEQRES 2 B 25 C A C C C A A G C G A G SEQRES 1 A 178 PRO LEU GLY SER GLN TYR PHE LEU LYS VAL LEU ILE PRO SEQRES 2 A 178 SER TYR ALA ALA GLY SER ILE ILE GLY LYS GLY GLY GLN SEQRES 3 A 178 THR ILE VAL GLN LEU GLN LYS GLU THR GLY ALA THR ILE SEQRES 4 A 178 LYS LEU SER LYS SER LYS ASP PHE TYR PRO GLY THR THR SEQRES 5 A 178 GLU ARG VAL CYS LEU ILE GLN GLY THR ILE GLU ALA LEU SEQRES 6 A 178 ASN ALA VAL HIS GLY PHE ILE ALA GLU LYS ILE ARG GLU SEQRES 7 A 178 MSE PRO GLN ASN VAL ALA LYS THR GLU PRO VAL SER ILE SEQRES 8 A 178 LEU GLN PRO GLN THR THR VAL ASN PRO ASP ARG ALA ASN SEQRES 9 A 178 GLN VAL LYS ILE ILE VAL PRO ASN SER THR ALA GLY LEU SEQRES 10 A 178 ILE ILE GLY LYS GLY GLY ALA THR VAL LYS ALA ILE MSE SEQRES 11 A 178 GLU GLN SER GLY ALA TRP VAL GLN LEU SER GLN LYS PRO SEQRES 12 A 178 ASP GLY ILE ASN LEU GLN ASN ARG VAL VAL THR VAL SER SEQRES 13 A 178 GLY GLU PRO GLU GLN ASN ARG LYS ALA VAL GLU LEU ILE SEQRES 14 A 178 ILE GLN LYS ILE GLN GLU ASP PRO GLN MODRES 2ANR MSE A 79 MET MODIFIED RESIDUE MODRES 2ANR MSE A 130 MET MODIFIED RESIDUE HET 5BU B 202 21 HET MSE A 79 8 HET MSE A 130 8 HET K B 301 1 HET MG B 302 1 HET MG B 306 1 HETNAM 5BU 5-BROMO-URIDINE-5'-MONOPHOSPHATE HETNAM MSE SELENOMETHIONINE HETNAM K POTASSIUM ION HETNAM MG MAGNESIUM ION FORMUL 1 5BU C9 H12 BR N2 O9 P FORMUL 2 MSE 2(C5 H11 N O2 SE) FORMUL 3 K K 1+ FORMUL 4 MG 2(MG 2+) FORMUL 6 HOH *106(H2 O) HELIX 1 1 SER A 14 GLY A 22 1 9 HELIX 2 2 GLY A 25 GLY A 36 1 12 HELIX 3 3 THR A 61 ARG A 77 1 17 HELIX 4 4 PRO A 100 ALA A 103 5 4 HELIX 5 5 ASN A 112 GLY A 120 1 9 HELIX 6 6 GLY A 123 SER A 133 1 11 HELIX 7 7 GLU A 158 GLU A 175 1 18 SHEET 1 A 6 THR A 38 LEU A 41 0 SHEET 2 A 6 GLU A 53 GLY A 60 -1 O LEU A 57 N LYS A 40 SHEET 3 A 6 TYR A 6 PRO A 13 -1 N TYR A 6 O GLY A 60 SHEET 4 A 6 GLN A 105 PRO A 111 -1 O ILE A 109 N LYS A 9 SHEET 5 A 6 ASN A 150 SER A 156 -1 O VAL A 153 N ILE A 108 SHEET 6 A 6 TRP A 136 LEU A 139 -1 N TRP A 136 O SER A 156 LINK O3' C B 201 P 5BU B 202 1555 1555 1.61 LINK O3' 5BU B 202 P C B 203 1555 1555 1.60 LINK C GLU A 78 N MSE A 79 1555 1555 1.33 LINK C MSE A 79 N PRO A 80 1555 1555 1.34 LINK C ILE A 129 N MSE A 130 1555 1555 1.33 LINK C MSE A 130 N GLU A 131 1555 1555 1.33 LINK O6 G B 206 K K B 301 1555 1555 2.60 LINK O6 G B 206 MG MG B 306 1555 1555 2.20 LINK N1 G B 207 K K B 301 1555 1555 3.65 LINK O6 G B 207 K K B 301 1555 1555 2.59 LINK O6 G B 207 MG MG B 302 1555 1555 2.18 LINK K K B 301 MG MG B 302 1555 1555 3.14 LINK K K B 301 O HOH B 304 1555 1555 3.23 LINK K K B 301 MG MG B 306 1555 1555 3.71 LINK K K B 301 O HOH B 321 1555 1555 2.79 LINK K K B 301 O HOH B 322 1555 1555 2.83 LINK K K B 301 O HOH B 332 1555 1555 2.70 LINK K K B 301 O HOH B 334 1555 1555 2.34 LINK MG MG B 302 O HOH B 303 1555 1555 2.10 LINK MG MG B 302 O HOH B 321 1555 1555 2.35 LINK MG MG B 302 O HOH B 324 1555 1555 3.11 LINK MG MG B 302 O HOH B 334 1555 1555 2.81 LINK MG MG B 306 O HOH B 323 1555 1555 2.35 LINK MG MG B 306 O HOH B 332 1555 1555 2.25 LINK MG MG B 306 O HOH B 333 1555 1555 2.28 SITE 1 AC1 7 G B 206 G B 207 MG B 302 HOH B 321 SITE 2 AC1 7 HOH B 322 HOH B 332 HOH B 334 SITE 1 AC2 5 G B 207 K B 301 HOH B 303 HOH B 321 SITE 2 AC2 5 HOH B 334 SITE 1 AC3 4 G B 206 HOH B 323 HOH B 332 HOH B 333 CRYST1 159.453 37.885 38.523 90.00 96.64 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 0.006270 0.000000 0.000730 0.00000 SCALE2 0.000000 0.026400 0.000000 0.00000 SCALE3 0.000000 0.000000 0.026130 0.00000