HEADER RNA BINDING PROTEIN 03-OCT-14 4WKR TITLE LARP7 WRAPPING UP THE 3' HAIRPIN OF 7SK NON-CODING RNA (302-332) COMPND MOL_ID: 1; COMPND 2 MOLECULE: LA-RELATED PROTEIN 7; COMPND 3 CHAIN: A, B; COMPND 4 FRAGMENT: N-TERMINAL DOMAIN, UNP RESIDUES 1-208; COMPND 5 SYNONYM: LA RIBONUCLEOPROTEIN DOMAIN FAMILY MEMBER 7,P-TEFB- COMPND 6 INTERACTION PROTEIN FOR 7SK STABILITY,PIP7S; COMPND 7 ENGINEERED: YES; COMPND 8 MOL_ID: 2; COMPND 9 MOLECULE: 7SK GGHP4 (300-332); COMPND 10 CHAIN: C, D; COMPND 11 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 3 ORGANISM_COMMON: HUMAN; SOURCE 4 ORGANISM_TAXID: 9606; SOURCE 5 GENE: LARP7, HDCMA18P; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 7 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: ROSETTA; SOURCE 9 EXPRESSION_SYSTEM_PLASMID: PET15; SOURCE 10 MOL_ID: 2; SOURCE 11 SYNTHETIC: YES; SOURCE 12 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 13 ORGANISM_COMMON: HUMAN; SOURCE 14 ORGANISM_TAXID: 9606 KEYWDS RNA-BINDING PROTEIN, RNA RECOGNITION MOTIF, PHOSPHOPROTEIN, PROTEIN, KEYWDS 2 NUCLEUS, LA MOTIF, RNA BINDING PROTEIN EXPDTA X-RAY DIFFRACTION AUTHOR E.UCHIKAWA,K.S.NATCHIAR,X.HAN,F.PROUX,P.ROBLIN,E.ZHANG,A.DURAND, AUTHOR 2 B.P.KLAHOLZ,A.-C.DOCK-BREGEON REVDAT 3 10-JAN-24 4WKR 1 REMARK REVDAT 2 15-APR-15 4WKR 1 JRNL REVDAT 1 18-MAR-15 4WKR 0 JRNL AUTH E.UCHIKAWA,K.S.NATCHIAR,X.HAN,F.PROUX,P.ROBLIN,E.ZHANG, JRNL AUTH 2 A.DURAND,B.P.KLAHOLZ,A.C.DOCK-BREGEON JRNL TITL STRUCTURAL INSIGHT INTO THE MECHANISM OF STABILIZATION OF JRNL TITL 2 THE 7SK SMALL NUCLEAR RNA BY LARP7. JRNL REF NUCLEIC ACIDS RES. V. 43 3373 2015 JRNL REFN ESSN 1362-4962 JRNL PMID 25753663 JRNL DOI 10.1093/NAR/GKV173 REMARK 2 REMARK 2 RESOLUTION. 3.20 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : BUSTER 2.10.0 REMARK 3 AUTHORS : BRICOGNE,BLANC,BRANDL,FLENSBURG,KELLER, REMARK 3 : PACIOREK,ROVERSI,SHARFF,SMART,VONRHEIN, REMARK 3 : WOMACK,MATTHEWS,TEN EYCK,TRONRUD REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 3.20 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 59.06 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 94.0 REMARK 3 NUMBER OF REFLECTIONS : 8155 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 CROSS-VALIDATION METHOD : FREE R-VALUE REMARK 3 FREE R VALUE TEST SET SELECTION : RANDOM REMARK 3 R VALUE (WORKING + TEST SET) : 0.223 REMARK 3 R VALUE (WORKING SET) : 0.221 REMARK 3 FREE R VALUE : 0.274 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.680 REMARK 3 FREE R VALUE TEST SET COUNT : 382 REMARK 3 ESTIMATED ERROR OF FREE R VALUE : NULL REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 5 REMARK 3 BIN RESOLUTION RANGE HIGH (ANGSTROMS) : 3.20 REMARK 3 BIN RESOLUTION RANGE LOW (ANGSTROMS) : 3.58 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 94.04 REMARK 3 REFLECTIONS IN BIN (WORKING + TEST SET) : 2257 REMARK 3 BIN R VALUE (WORKING + TEST SET) : 0.2596 REMARK 3 REFLECTIONS IN BIN (WORKING SET) : 2146 REMARK 3 BIN R VALUE (WORKING SET) : 0.2570 REMARK 3 BIN FREE R VALUE : 0.3076 REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : 4.92 REMARK 3 BIN FREE R VALUE TEST SET COUNT : 111 REMARK 3 ESTIMATED ERROR OF BIN FREE R VALUE : NULL REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2528 REMARK 3 NUCLEIC ACID ATOMS : 168 REMARK 3 HETEROGEN ATOMS : 0 REMARK 3 SOLVENT ATOMS : 5 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 106.9 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 93.76 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -7.98410 REMARK 3 B22 (A**2) : 6.35580 REMARK 3 B33 (A**2) : 1.62830 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : -14.76080 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM LUZZATI PLOT (A) : 0.707 REMARK 3 DPI (BLOW EQ-10) BASED ON R VALUE (A) : NULL REMARK 3 DPI (BLOW EQ-9) BASED ON FREE R VALUE (A) : 0.505 REMARK 3 DPI (CRUICKSHANK) BASED ON R VALUE (A) : NULL REMARK 3 DPI (CRUICKSHANK) BASED ON FREE R VALUE (A) : NULL REMARK 3 REMARK 3 REFERENCES: BLOW, D. (2002) ACTA CRYST D58, 792-797 REMARK 3 CRUICKSHANK, D.W.J. (1999) ACTA CRYST D55, 583-601 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.919 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.905 REMARK 3 REMARK 3 NUMBER OF GEOMETRIC FUNCTION TERMS DEFINED : 15 REMARK 3 TERM COUNT WEIGHT FUNCTION. REMARK 3 BOND LENGTHS : 2749 ; 2.000 ; HARMONIC REMARK 3 BOND ANGLES : 3743 ; 2.000 ; HARMONIC REMARK 3 TORSION ANGLES : 990 ; 2.000 ; SINUSOIDAL REMARK 3 TRIGONAL CARBON PLANES : 63 ; 2.000 ; HARMONIC REMARK 3 GENERAL PLANES : 386 ; 5.000 ; HARMONIC REMARK 3 ISOTROPIC THERMAL FACTORS : 2749 ; 20.000 ; HARMONIC REMARK 3 BAD NON-BONDED CONTACTS : NULL ; NULL ; NULL REMARK 3 IMPROPER TORSIONS : NULL ; NULL ; NULL REMARK 3 PSEUDOROTATION ANGLES : NULL ; NULL ; NULL REMARK 3 CHIRAL IMPROPER TORSION : 366 ; 5.000 ; SEMIHARMONIC REMARK 3 SUM OF OCCUPANCIES : NULL ; NULL ; NULL REMARK 3 UTILITY DISTANCES : NULL ; NULL ; NULL REMARK 3 UTILITY ANGLES : NULL ; NULL ; NULL REMARK 3 UTILITY TORSION : NULL ; NULL ; NULL REMARK 3 IDEAL-DIST CONTACT TERM : 3109 ; 4.000 ; SEMIHARMONIC REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 BOND LENGTHS (A) : 0.010 REMARK 3 BOND ANGLES (DEGREES) : 1.32 REMARK 3 PEPTIDE OMEGA TORSION ANGLES (DEGREES) : 2.73 REMARK 3 OTHER TORSION ANGLES (DEGREES) : 24.14 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 4WKR COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 06-OCT-14. REMARK 100 THE DEPOSITION ID IS D_1000203995. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 18-DEC-12 REMARK 200 TEMPERATURE (KELVIN) : 140 REMARK 200 PH : 7.0 REMARK 200 NUMBER OF CRYSTALS USED : NULL REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SLS REMARK 200 BEAMLINE : X10SA REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.0 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS 6M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : IMOSFLM REMARK 200 DATA SCALING SOFTWARE : SCALA REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 8165 REMARK 200 RESOLUTION RANGE HIGH (A) : 3.200 REMARK 200 RESOLUTION RANGE LOW (A) : 92.580 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 95.2 REMARK 200 DATA REDUNDANCY : 3.400 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 5.4100 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 3.20 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 3.50 REMARK 200 COMPLETENESS FOR SHELL (%) : 94.9 REMARK 200 DATA REDUNDANCY IN SHELL : 3.40 REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 2.000 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHASER REMARK 200 STARTING MODEL: 2VOO REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 61.17 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.17 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 30% PEG 3350 & 0.1 M SUCCINIC ACID, PH REMARK 280 7.0, VAPOR DIFFUSION, SITTING 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 81.72600 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 16.75000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 81.72600 REMARK 290 SMTRY2 4 0.000000 1.000000 0.000000 16.75000 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1, 2 REMARK 300 SEE REMARK 350 FOR THE AUTHOR PROVIDED AND/OR PROGRAM REMARK 300 GENERATED ASSEMBLY INFORMATION FOR THE STRUCTURE IN REMARK 300 THIS ENTRY. THE REMARK MAY ALSO PROVIDE INFORMATION ON REMARK 300 BURIED SURFACE AREA. REMARK 350 REMARK 350 COORDINATES FOR A COMPLETE MULTIMER REPRESENTING THE KNOWN REMARK 350 BIOLOGICALLY SIGNIFICANT OLIGOMERIZATION STATE OF THE REMARK 350 MOLECULE CAN BE GENERATED BY APPLYING BIOMT TRANSFORMATIONS REMARK 350 GIVEN BELOW. BOTH NON-CRYSTALLOGRAPHIC AND REMARK 350 CRYSTALLOGRAPHIC OPERATIONS ARE GIVEN. REMARK 350 REMARK 350 BIOMOLECULE: 1 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, C REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 350 REMARK 350 BIOMOLECULE: 2 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 APPLY THE FOLLOWING TO CHAINS: B, D REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 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 MET A 1 REMARK 465 GLU A 2 REMARK 465 THR A 3 REMARK 465 GLU A 4 REMARK 465 SER A 5 REMARK 465 GLY A 6 REMARK 465 ASN A 7 REMARK 465 GLN A 8 REMARK 465 GLU A 9 REMARK 465 LYS A 10 REMARK 465 VAL A 11 REMARK 465 MET A 12 REMARK 465 GLU A 13 REMARK 465 GLU A 14 REMARK 465 GLU A 15 REMARK 465 SER A 16 REMARK 465 THR A 17 REMARK 465 GLU A 18 REMARK 465 LYS A 19 REMARK 465 LYS A 20 REMARK 465 LYS A 21 REMARK 465 GLU A 22 REMARK 465 VAL A 23 REMARK 465 GLU A 24 REMARK 465 LYS A 25 REMARK 465 LYS A 26 REMARK 465 LYS A 27 REMARK 465 ARG A 28 REMARK 465 PRO A 190 REMARK 465 GLU A 191 REMARK 465 GLU A 192 REMARK 465 ALA A 193 REMARK 465 PRO A 194 REMARK 465 ARG A 195 REMARK 465 LYS A 196 REMARK 465 PRO A 197 REMARK 465 GLY A 198 REMARK 465 ILE A 199 REMARK 465 PHE A 200 REMARK 465 PRO A 201 REMARK 465 LYS A 202 REMARK 465 THR A 203 REMARK 465 VAL A 204 REMARK 465 LYS A 205 REMARK 465 ASN A 206 REMARK 465 LYS A 207 REMARK 465 PRO A 208 REMARK 465 MET B 1 REMARK 465 GLU B 2 REMARK 465 THR B 3 REMARK 465 GLU B 4 REMARK 465 SER B 5 REMARK 465 GLY B 6 REMARK 465 ASN B 7 REMARK 465 GLN B 8 REMARK 465 GLU B 9 REMARK 465 LYS B 10 REMARK 465 VAL B 11 REMARK 465 MET B 12 REMARK 465 GLU B 13 REMARK 465 GLU B 14 REMARK 465 GLU B 15 REMARK 465 SER B 16 REMARK 465 THR B 17 REMARK 465 GLU B 18 REMARK 465 LYS B 19 REMARK 465 LYS B 20 REMARK 465 LYS B 21 REMARK 465 GLU B 22 REMARK 465 VAL B 23 REMARK 465 GLU B 24 REMARK 465 LYS B 25 REMARK 465 LYS B 26 REMARK 465 LYS B 27 REMARK 465 ARG B 28 REMARK 465 PRO B 190 REMARK 465 GLU B 191 REMARK 465 GLU B 192 REMARK 465 ALA B 193 REMARK 465 PRO B 194 REMARK 465 ARG B 195 REMARK 465 LYS B 196 REMARK 465 PRO B 197 REMARK 465 GLY B 198 REMARK 465 ILE B 199 REMARK 465 PHE B 200 REMARK 465 PRO B 201 REMARK 465 LYS B 202 REMARK 465 THR B 203 REMARK 465 VAL B 204 REMARK 465 LYS B 205 REMARK 465 ASN B 206 REMARK 465 LYS B 207 REMARK 465 PRO B 208 REMARK 465 G C -31 REMARK 465 G C -30 REMARK 465 C C -29 REMARK 465 G C -28 REMARK 465 C C -27 REMARK 465 U C -26 REMARK 465 G C -25 REMARK 465 C C -24 REMARK 465 A C -23 REMARK 465 U C -22 REMARK 465 G C -21 REMARK 465 U C -20 REMARK 465 G C -19 REMARK 465 G C -18 REMARK 465 C C -17 REMARK 465 A C -16 REMARK 465 G C -15 REMARK 465 U C -14 REMARK 465 C C -13 REMARK 465 U C -12 REMARK 465 G C -11 REMARK 465 C C -10 REMARK 465 C C -9 REMARK 465 U C -8 REMARK 465 U C -7 REMARK 465 U C -6 REMARK 465 G D -31 REMARK 465 G D -30 REMARK 465 C D -29 REMARK 465 G D -28 REMARK 465 C D -27 REMARK 465 U D -26 REMARK 465 G D -25 REMARK 465 C D -24 REMARK 465 A D -23 REMARK 465 U D -22 REMARK 465 G D -21 REMARK 465 U D -20 REMARK 465 G D -19 REMARK 465 G D -18 REMARK 465 C D -17 REMARK 465 A D -16 REMARK 465 G D -15 REMARK 465 U D -14 REMARK 465 C D -13 REMARK 465 U D -12 REMARK 465 G D -11 REMARK 465 C D -10 REMARK 465 C D -9 REMARK 465 U D -8 REMARK 465 U D -7 REMARK 465 U D -6 REMARK 470 REMARK 470 MISSING ATOM REMARK 470 THE FOLLOWING RESIDUES HAVE MISSING ATOMS (M=MODEL NUMBER; REMARK 470 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 470 I=INSERTION CODE): REMARK 470 M RES CSSEQI ATOMS REMARK 470 LYS A 40 CG CD CE NZ REMARK 470 LYS A 63 CG CD CE NZ REMARK 470 LYS A 82 CG CD CE NZ REMARK 470 ASP A 86 CG OD1 OD2 REMARK 470 LYS A 120 CG CD CE NZ REMARK 470 LYS A 134 CG CD CE NZ REMARK 470 ASN A 135 CG OD1 ND2 REMARK 470 LYS A 147 CG CD CE NZ REMARK 470 LYS A 160 CG CD CE NZ REMARK 470 LYS A 176 CG CD CE NZ REMARK 470 GLU A 177 CG CD OE1 OE2 REMARK 470 GLU A 184 CG CD OE1 OE2 REMARK 470 GLU B 62 CG CD OE1 OE2 REMARK 470 LYS B 63 CG CD CE NZ REMARK 470 ASP B 70 CG OD1 OD2 REMARK 470 LYS B 82 CG CD CE NZ REMARK 470 PRO B 114 CG CD REMARK 470 GLU B 117 CG CD OE1 OE2 REMARK 470 LYS B 120 CG CD CE NZ REMARK 470 ASN B 135 CG OD1 ND2 REMARK 470 LYS B 176 CG CD CE NZ REMARK 470 GLU B 177 CG CD OE1 OE2 REMARK 470 LYS B 181 CG CD CE NZ REMARK 470 C C -5 C5' C4' O4' C3' O3' C2' O2' REMARK 470 C C -5 C1' N1 C2 O2 N3 C4 N4 REMARK 470 C C -5 C5 C6 REMARK 470 U C -4 C5' C4' O4' C3' O3' C2' O2' REMARK 470 U C -4 C1' N1 C2 O2 N3 C4 O4 REMARK 470 U C -4 C5 C6 REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND LENGTHS 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,2(A3,1X,A1,I4,A1,1X,A4,3X),1X,F6.3) 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 RES CSSEQI ATM2 DEVIATION REMARK 500 TYR A 68 C VAL A 69 N -0.206 REMARK 500 LEU B 104 C GLU B 105 N -0.252 REMARK 500 C D -5 C1' C D -5 N1 0.135 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 TYR A 68 N - CA - C ANGL. DEV. = 27.2 DEGREES REMARK 500 TYR A 68 O - C - N ANGL. DEV. = -14.2 DEGREES REMARK 500 LEU A 104 CB - CA - C ANGL. DEV. = -11.8 DEGREES REMARK 500 GLU A 105 C - N - CA ANGL. DEV. = 47.0 DEGREES REMARK 500 GLU A 105 N - CA - CB ANGL. DEV. = -27.8 DEGREES REMARK 500 GLU A 105 N - CA - C ANGL. DEV. = 18.9 DEGREES REMARK 500 SER A 161 CB - CA - C ANGL. DEV. = 17.9 DEGREES REMARK 500 SER A 161 N - CA - C ANGL. DEV. = -22.1 DEGREES REMARK 500 ASN A 188 O - C - N ANGL. DEV. = -21.8 DEGREES REMARK 500 LEU B 102 N - CA - C ANGL. DEV. = -18.5 DEGREES REMARK 500 LEU B 104 CA - C - N ANGL. DEV. = 17.2 DEGREES REMARK 500 LEU B 104 O - C - N ANGL. DEV. = -18.5 DEGREES REMARK 500 GLU B 105 CB - CA - C ANGL. DEV. = -21.8 DEGREES REMARK 500 GLU B 105 N - CA - C ANGL. DEV. = 32.1 DEGREES REMARK 500 GLU B 105 CA - C - N ANGL. DEV. = -17.2 DEGREES REMARK 500 SER B 161 CB - CA - C ANGL. DEV. = 17.4 DEGREES REMARK 500 SER B 161 N - CA - C ANGL. DEV. = -22.4 DEGREES REMARK 500 C D -5 C3' - C2' - C1' ANGL. DEV. = -6.2 DEGREES REMARK 500 U D -4 C3' - C2' - C1' ANGL. DEV. = 5.2 DEGREES REMARK 500 U D -4 C3' - O3' - P ANGL. DEV. = 13.6 DEGREES REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: TORSION ANGLES REMARK 500 REMARK 500 TORSION ANGLES OUTSIDE THE EXPECTED RAMACHANDRAN REGIONS: REMARK 500 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 500 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT:(10X,I3,1X,A3,1X,A1,I4,A1,4X,F7.2,3X,F7.2) REMARK 500 REMARK 500 EXPECTED VALUES: GJ KLEYWEGT AND TA JONES (1996). PHI/PSI- REMARK 500 CHOLOGY: RAMACHANDRAN REVISITED. STRUCTURE 4, 1395 - 1400 REMARK 500 REMARK 500 M RES CSSEQI PSI PHI REMARK 500 ASP A 48 -78.68 -22.78 REMARK 500 LYS A 53 -80.35 -78.57 REMARK 500 SER A 64 -36.06 -177.29 REMARK 500 ARG A 65 -15.60 61.65 REMARK 500 LEU A 83 -64.77 -92.09 REMARK 500 VAL A 100 115.54 78.21 REMARK 500 ASP A 103 173.55 70.29 REMARK 500 LYS A 112 -9.99 76.32 REMARK 500 ASN A 135 -21.01 61.89 REMARK 500 VAL A 136 -4.58 47.37 REMARK 500 ASN A 137 173.85 54.21 REMARK 500 SER A 161 -120.99 70.56 REMARK 500 THR A 175 119.43 76.63 REMARK 500 PHE B 44 -61.27 -95.84 REMARK 500 ASP B 48 -78.17 -21.55 REMARK 500 LYS B 53 -80.55 -78.28 REMARK 500 SER B 64 -157.03 -171.64 REMARK 500 ARG B 65 -161.39 -76.03 REMARK 500 TYR B 68 119.93 69.93 REMARK 500 LEU B 83 -64.31 -91.41 REMARK 500 VAL B 100 167.00 164.84 REMARK 500 ASP B 103 -85.24 -94.96 REMARK 500 LYS B 112 -5.93 74.78 REMARK 500 ASN B 135 -21.34 62.06 REMARK 500 VAL B 136 -3.88 47.49 REMARK 500 ASN B 137 173.80 53.78 REMARK 500 SER B 161 -122.67 70.40 REMARK 500 PHE B 173 -152.33 -94.49 REMARK 500 THR B 175 -5.60 58.63 REMARK 500 LYS B 176 -18.34 66.26 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: MAIN CHAIN PLANARITY REMARK 500 REMARK 500 THE FOLLOWING RESIDUES HAVE A PSEUDO PLANARITY REMARK 500 TORSION ANGLE, C(I) - CA(I) - N(I+1) - O(I), GREATER REMARK 500 10.0 DEGREES. (M=MODEL NUMBER; RES=RESIDUE NAME; REMARK 500 C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 500 I=INSERTION CODE). REMARK 500 REMARK 500 M RES CSSEQI ANGLE REMARK 500 ASN A 188 -31.18 REMARK 500 REMARK 500 REMARK: NULL DBREF 4WKR A 1 208 UNP Q4G0J3 LARP7_HUMAN 8 215 DBREF 4WKR B 1 208 UNP Q4G0J3 LARP7_HUMAN 8 215 DBREF 4WKR C -31 -1 PDB 4WKR 4WKR -31 -1 DBREF 4WKR D -31 -1 PDB 4WKR 4WKR -31 -1 SEQRES 1 A 208 MET GLU THR GLU SER GLY ASN GLN GLU LYS VAL MET GLU SEQRES 2 A 208 GLU GLU SER THR GLU LYS LYS LYS GLU VAL GLU LYS LYS SEQRES 3 A 208 LYS ARG SER ARG VAL LYS GLN VAL LEU ALA ASP ILE ALA SEQRES 4 A 208 LYS GLN VAL ASP PHE TRP PHE GLY ASP ALA ASN LEU HIS SEQRES 5 A 208 LYS ASP ARG PHE LEU ARG GLU GLN ILE GLU LYS SER ARG SEQRES 6 A 208 ASP GLY TYR VAL ASP ILE SER LEU LEU VAL SER PHE ASN SEQRES 7 A 208 LYS MET LYS LYS LEU THR THR ASP GLY LYS LEU ILE ALA SEQRES 8 A 208 ARG ALA LEU ARG SER SER ALA VAL VAL GLU LEU ASP LEU SEQRES 9 A 208 GLU GLY THR ARG ILE ARG ARG LYS LYS PRO LEU GLY GLU SEQRES 10 A 208 ARG PRO LYS ASP GLU ASP GLU ARG THR VAL TYR VAL GLU SEQRES 11 A 208 LEU LEU PRO LYS ASN VAL ASN HIS SER TRP ILE GLU ARG SEQRES 12 A 208 VAL PHE GLY LYS CYS GLY ASN VAL VAL TYR ILE SER ILE SEQRES 13 A 208 PRO HIS TYR LYS SER THR GLY ASP PRO LYS GLY PHE ALA SEQRES 14 A 208 PHE VAL GLU PHE GLU THR LYS GLU GLN ALA ALA LYS ALA SEQRES 15 A 208 ILE GLU PHE LEU ASN ASN PRO PRO GLU GLU ALA PRO ARG SEQRES 16 A 208 LYS PRO GLY ILE PHE PRO LYS THR VAL LYS ASN LYS PRO SEQRES 1 B 208 MET GLU THR GLU SER GLY ASN GLN GLU LYS VAL MET GLU SEQRES 2 B 208 GLU GLU SER THR GLU LYS LYS LYS GLU VAL GLU LYS LYS SEQRES 3 B 208 LYS ARG SER ARG VAL LYS GLN VAL LEU ALA ASP ILE ALA SEQRES 4 B 208 LYS GLN VAL ASP PHE TRP PHE GLY ASP ALA ASN LEU HIS SEQRES 5 B 208 LYS ASP ARG PHE LEU ARG GLU GLN ILE GLU LYS SER ARG SEQRES 6 B 208 ASP GLY TYR VAL ASP ILE SER LEU LEU VAL SER PHE ASN SEQRES 7 B 208 LYS MET LYS LYS LEU THR THR ASP GLY LYS LEU ILE ALA SEQRES 8 B 208 ARG ALA LEU ARG SER SER ALA VAL VAL GLU LEU ASP LEU SEQRES 9 B 208 GLU GLY THR ARG ILE ARG ARG LYS LYS PRO LEU GLY GLU SEQRES 10 B 208 ARG PRO LYS ASP GLU ASP GLU ARG THR VAL TYR VAL GLU SEQRES 11 B 208 LEU LEU PRO LYS ASN VAL ASN HIS SER TRP ILE GLU ARG SEQRES 12 B 208 VAL PHE GLY LYS CYS GLY ASN VAL VAL TYR ILE SER ILE SEQRES 13 B 208 PRO HIS TYR LYS SER THR GLY ASP PRO LYS GLY PHE ALA SEQRES 14 B 208 PHE VAL GLU PHE GLU THR LYS GLU GLN ALA ALA LYS ALA SEQRES 15 B 208 ILE GLU PHE LEU ASN ASN PRO PRO GLU GLU ALA PRO ARG SEQRES 16 B 208 LYS PRO GLY ILE PHE PRO LYS THR VAL LYS ASN LYS PRO SEQRES 1 C 31 G G C G C U G C A U G U G SEQRES 2 C 31 G C A G U C U G C C U U U SEQRES 3 C 31 C U U U U SEQRES 1 D 31 G G C G C U G C A U G U G SEQRES 2 D 31 G C A G U C U G C C U U U SEQRES 3 D 31 C U U U U FORMUL 5 HOH *5(H2 O) HELIX 1 AA1 SER A 29 PHE A 46 1 18 HELIX 2 AA2 GLY A 47 ASP A 54 1 8 HELIX 3 AA3 ASP A 54 LYS A 63 1 10 HELIX 4 AA4 ILE A 71 SER A 76 1 6 HELIX 5 AA5 PHE A 77 LYS A 82 1 6 HELIX 6 AA6 ASP A 86 LEU A 94 1 9 HELIX 7 AA7 ASP A 121 THR A 126 1 6 HELIX 8 AA8 VAL A 136 LYS A 147 1 12 HELIX 9 AA9 THR A 175 GLU A 184 1 10 HELIX 10 AB1 ARG B 30 PHE B 46 1 17 HELIX 11 AB2 GLY B 47 ASP B 54 1 8 HELIX 12 AB3 ASP B 54 LYS B 63 1 10 HELIX 13 AB4 ILE B 71 SER B 76 1 6 HELIX 14 AB5 PHE B 77 LYS B 82 1 6 HELIX 15 AB6 ASP B 86 LEU B 94 1 9 HELIX 16 AB7 ASP B 121 ARG B 125 1 5 HELIX 17 AB8 VAL B 136 LYS B 147 1 12 HELIX 18 AB9 LYS B 176 GLU B 184 1 9 SHEET 1 AA1 2 VAL A 69 ASP A 70 0 SHEET 2 AA1 2 ARG A 108 ILE A 109 -1 O ILE A 109 N VAL A 69 SHEET 1 AA2 3 VAL A 127 GLU A 130 0 SHEET 2 AA2 3 PHE A 168 PHE A 173 -1 O VAL A 171 N VAL A 127 SHEET 3 AA2 3 VAL A 151 SER A 155 -1 N TYR A 153 O GLU A 172 SHEET 1 AA3 3 VAL B 69 ASP B 70 0 SHEET 2 AA3 3 ARG B 108 ARG B 110 -1 O ILE B 109 N VAL B 69 SHEET 3 AA3 3 GLU B 101 LEU B 102 -1 N GLU B 101 O ARG B 110 SHEET 1 AA4 3 THR B 126 GLU B 130 0 SHEET 2 AA4 3 PHE B 168 GLU B 172 -1 O VAL B 171 N VAL B 127 SHEET 3 AA4 3 TYR B 153 SER B 155 -1 N TYR B 153 O GLU B 172 CISPEP 1 PRO A 133 LYS A 134 0 -0.88 CISPEP 2 PRO B 133 LYS B 134 0 -2.54 CRYST1 163.452 33.500 119.080 90.00 128.99 90.00 C 1 2 1 8 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 0.006118 0.000000 0.004952 0.00000 SCALE2 0.000000 0.029851 0.000000 0.00000 SCALE3 0.000000 0.000000 0.010804 0.00000