PDB Short entry for 3VAG HEADER RNA BINDING PROTEIN/DNA 29-DEC-11 3VAG TITLE STRUCTURE OF U2AF65 VARIANT WITH BRU3C2 DNA COMPND MOL_ID: 1; COMPND 2 MOLECULE: SPLICING FACTOR U2AF 65 KDA SUBUNIT; COMPND 3 CHAIN: A, B; COMPND 4 FRAGMENT: RNA BINDING DOMAINS 1 AND 2; COMPND 5 SYNONYM: U2 AUXILIARY FACTOR 65 KDA SUBUNIT, HU2AF(65), HU2AF65, U2 COMPND 6 SNRNP AUXILIARY FACTOR LARGE SUBUNIT; COMPND 7 ENGINEERED: YES; COMPND 8 MOL_ID: 2; COMPND 9 MOLECULE: DNA 5'-D(*U*CP*(BRU)P*UP*UP*UP*U)-3'; COMPND 10 CHAIN: P, E; COMPND 11 ENGINEERED: YES; COMPND 12 OTHER_DETAILS: BRU3C2 DNA SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 3 ORGANISM_COMMON: HUMAN; SOURCE 4 ORGANISM_TAXID: 9606; SOURCE 5 GENE: U2AF2, U2AF65; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21; SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PGEX-6P; SOURCE 11 MOL_ID: 2; SOURCE 12 SYNTHETIC: YES; SOURCE 13 OTHER_DETAILS: DNA KEYWDS RNA SPLICING FACTOR, RNA RECOGNITION MOTIF, RNA BINDING PROTEIN, RNA KEYWDS 2 BINDING PROTEIN-DNA COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR J.L.JENKINS,C.L.KIELKOPF REVDAT 4 28-FEB-24 3VAG 1 REMARK SEQADV LINK REVDAT 3 16-AUG-17 3VAG 1 SOURCE REVDAT 2 22-MAY-13 3VAG 1 JRNL REVDAT 1 13-FEB-13 3VAG 0 JRNL AUTH J.L.JENKINS,A.A.AGRAWAL,A.GUPTA,M.R.GREEN,C.L.KIELKOPF JRNL TITL U2AF65 ADAPTS TO DIVERSE PRE-MRNA SPLICE SITES THROUGH JRNL TITL 2 CONFORMATIONAL SELECTION OF SPECIFIC AND PROMISCUOUS RNA JRNL TITL 3 RECOGNITION MOTIFS. JRNL REF NUCLEIC ACIDS RES. V. 41 3859 2013 JRNL REFN ISSN 0305-1048 JRNL PMID 23376934 JRNL DOI 10.1093/NAR/GKT046 REMARK 2 REMARK 2 RESOLUTION. 2.19 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.2.0019 REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN REMARK 3 REMARK 3 REFINEMENT TARGET : MAXIMUM LIKELIHOOD REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.19 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 41.88 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 95.4 REMARK 3 NUMBER OF REFLECTIONS : 23012 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) : 0.195 REMARK 3 R VALUE (WORKING SET) : 0.191 REMARK 3 FREE R VALUE : 0.232 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 9.900 REMARK 3 FREE R VALUE TEST SET COUNT : 2535 REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 20 REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 2.19 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.25 REMARK 3 REFLECTION IN BIN (WORKING SET) : 1474 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 84.98 REMARK 3 BIN R VALUE (WORKING SET) : 0.2230 REMARK 3 BIN FREE R VALUE SET COUNT : 173 REMARK 3 BIN FREE R VALUE : 0.2800 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2686 REMARK 3 NUCLEIC ACID ATOMS : 224 REMARK 3 HETEROGEN ATOMS : 110 REMARK 3 SOLVENT ATOMS : 156 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 41.30 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -1.24000 REMARK 3 B22 (A**2) : -0.46000 REMARK 3 B33 (A**2) : 2.60000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 0.79000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.246 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.199 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.134 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 8.951 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.955 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.934 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 3107 ; 0.009 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): 2077 ; 0.001 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 4236 ; 1.207 ; 2.093 REMARK 3 BOND ANGLES OTHERS (DEGREES): 5078 ; 0.891 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 350 ; 5.190 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 131 ;34.081 ;24.885 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 462 ;14.150 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 14 ;11.511 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 459 ; 0.066 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 3242 ; 0.003 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 562 ; 0.001 ; 0.020 REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 433 ; 0.177 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): 1949 ; 0.177 ; 0.200 REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 1403 ; 0.174 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): 1486 ; 0.079 ; 0.200 REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 93 ; 0.159 ; 0.200 REMARK 3 H-BOND (X...Y) OTHERS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW REFINED ATOMS (A): 13 ; 0.192 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): 30 ; 0.278 ; 0.200 REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 6 ; 0.110 ; 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): 2232 ; 0.610 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 715 ; 0.082 ; 1.500 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 2766 ; 0.687 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1611 ; 1.204 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1469 ; 1.950 ; 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 : 4 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 143 A 237 REMARK 3 ORIGIN FOR THE GROUP (A): -11.0359 -19.8399 31.1886 REMARK 3 T TENSOR REMARK 3 T11: -0.2014 T22: -0.1970 REMARK 3 T33: -0.1140 T12: -0.0281 REMARK 3 T13: 0.0139 T23: -0.0553 REMARK 3 L TENSOR REMARK 3 L11: 1.7054 L22: 2.7574 REMARK 3 L33: 4.4728 L12: 1.0372 REMARK 3 L13: -0.2247 L23: -1.1320 REMARK 3 S TENSOR REMARK 3 S11: -0.0723 S12: -0.0131 S13: -0.2738 REMARK 3 S21: -0.0329 S22: -0.0488 S23: -0.2241 REMARK 3 S31: 0.0468 S32: 0.0756 S33: 0.1211 REMARK 3 REMARK 3 TLS GROUP : 2 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 258 A 336 REMARK 3 ORIGIN FOR THE GROUP (A): -32.7624 5.7772 26.8913 REMARK 3 T TENSOR REMARK 3 T11: -0.1366 T22: -0.2132 REMARK 3 T33: -0.0722 T12: -0.0890 REMARK 3 T13: 0.0244 T23: -0.0457 REMARK 3 L TENSOR REMARK 3 L11: 8.1398 L22: 2.4989 REMARK 3 L33: 3.3487 L12: 1.5999 REMARK 3 L13: 0.7488 L23: 0.4020 REMARK 3 S TENSOR REMARK 3 S11: -0.0399 S12: 0.1547 S13: -0.0075 REMARK 3 S21: -0.2380 S22: 0.1762 S23: -0.0510 REMARK 3 S31: -0.2543 S32: 0.1398 S33: -0.1363 REMARK 3 REMARK 3 TLS GROUP : 3 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : B 143 B 237 REMARK 3 ORIGIN FOR THE GROUP (A): 26.1570 -27.8794 28.7470 REMARK 3 T TENSOR REMARK 3 T11: -0.1832 T22: -0.1432 REMARK 3 T33: -0.1451 T12: -0.0486 REMARK 3 T13: -0.0547 T23: 0.0226 REMARK 3 L TENSOR REMARK 3 L11: 4.9897 L22: 5.4589 REMARK 3 L33: 3.5134 L12: 2.4561 REMARK 3 L13: -0.5846 L23: -0.4918 REMARK 3 S TENSOR REMARK 3 S11: -0.2394 S12: 0.1626 S13: -0.0272 REMARK 3 S21: -0.2313 S22: 0.2775 S23: 0.2387 REMARK 3 S31: 0.1757 S32: -0.3415 S33: -0.0382 REMARK 3 REMARK 3 TLS GROUP : 4 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : B 258 B 336 REMARK 3 ORIGIN FOR THE GROUP (A): 4.9510 -3.7552 13.8095 REMARK 3 T TENSOR REMARK 3 T11: -0.1270 T22: -0.1236 REMARK 3 T33: -0.1908 T12: -0.0717 REMARK 3 T13: 0.0300 T23: 0.0014 REMARK 3 L TENSOR REMARK 3 L11: 6.9215 L22: 3.6839 REMARK 3 L33: 7.3955 L12: 1.0584 REMARK 3 L13: 2.1572 L23: -0.2306 REMARK 3 S TENSOR REMARK 3 S11: -0.1571 S12: 0.3996 S13: 0.1658 REMARK 3 S21: -0.2880 S22: -0.0093 S23: -0.2420 REMARK 3 S31: -0.3684 S32: 0.0768 S33: 0.1664 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : MASK REMARK 3 PARAMETERS FOR MASK CALCULATION REMARK 3 VDW PROBE RADIUS : 1.40 REMARK 3 ION PROBE RADIUS : 0.80 REMARK 3 SHRINKAGE RADIUS : 0.80 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: HYDROGENS HAVE BEEN ADDED IN THE RIDING REMARK 3 POSITIONS REMARK 4 REMARK 4 3VAG COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 09-JAN-12. REMARK 100 THE DEPOSITION ID IS D_1000069798. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 25-JUN-07 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 6.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : CHESS REMARK 200 BEAMLINE : A1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.987 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 210 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 26702 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.190 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : -1.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.3 REMARK 200 DATA REDUNDANCY : 5.300 REMARK 200 R MERGE (I) : 0.09800 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 18.8000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.19 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.27 REMARK 200 COMPLETENESS FOR SHELL (%) : 94.6 REMARK 200 DATA REDUNDANCY IN SHELL : 4.00 REMARK 200 R MERGE FOR SHELL (I) : 0.44100 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: FOURIER SYNTHESIS REMARK 200 SOFTWARE USED: NULL REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 59.61 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.04 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 1.6M AMMONIUM SULFATE, 10% DIOXANE, REMARK 280 0.1M MES PH 6.5, DEOXY-BIG CHAP, VAPOR DIFFUSION, HANGING DROP, REMARK 280 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 83.41250 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 18.74950 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 83.41250 REMARK 290 SMTRY2 4 0.000000 1.000000 0.000000 18.74950 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: TETRAMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B, P, E 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 DU P 1 REMARK 465 DU E 8 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 DC P 2 P OP1 OP2 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 DC P 2 O4' - C1' - N1 ANGL. DEV. = 2.5 DEGREES REMARK 500 BRU P 3 C3' - O3' - P ANGL. DEV. = 7.7 DEGREES REMARK 500 DU P 4 O4' - C1' - N1 ANGL. DEV. = 2.6 DEGREES REMARK 500 DU P 5 O4' - C1' - N1 ANGL. DEV. = 2.3 DEGREES REMARK 500 REMARK 500 REMARK: NULL REMARK 610 REMARK 610 MISSING HETEROATOM REMARK 610 THE FOLLOWING RESIDUES HAVE MISSING ATOMS (M=MODEL NUMBER; REMARK 610 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 610 I=INSERTION CODE): REMARK 610 M RES C SSEQI REMARK 610 CPQ B 404 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE DIO A 401 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE DIO A 402 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE DIO A 403 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 A 404 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 A 405 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 A 406 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 A 407 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL A 408 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE DIO B 401 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE DIO B 402 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE DIO B 403 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 B 405 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 B 406 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 B 407 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL B 408 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 2G4B RELATED DB: PDB REMARK 900 U2AF65 VARIANT WITH POLYURIDINE TRACT REMARK 900 RELATED ID: 2HZC RELATED DB: PDB REMARK 900 N-TERMINAL RRM OF U2AF65 REMARK 900 RELATED ID: 3VAF RELATED DB: PDB REMARK 900 RELATED ID: 3VAH RELATED DB: PDB REMARK 900 RELATED ID: 3VAI RELATED DB: PDB REMARK 900 RELATED ID: 3VAJ RELATED DB: PDB REMARK 900 RELATED ID: 3VAK RELATED DB: PDB REMARK 900 RELATED ID: 3VAL RELATED DB: PDB REMARK 900 RELATED ID: 3VAM RELATED DB: PDB REMARK 900 RELATED ID: 3VAN RELATED DB: PDB REMARK 900 RELATED ID: 3VAO RELATED DB: PDB DBREF 3VAG A 148 237 UNP P26368 U2AF2_HUMAN 148 237 DBREF 3VAG A 258 336 UNP P26368 U2AF2_HUMAN 258 336 DBREF 3VAG B 148 237 UNP P26368 U2AF2_HUMAN 148 237 DBREF 3VAG B 258 336 UNP P26368 U2AF2_HUMAN 258 336 DBREF 3VAG P 1 7 PDB 3VAG 3VAG 1 7 DBREF 3VAG E 2 8 PDB 3VAG 3VAG 2 8 SEQADV 3VAG GLY A 143 UNP P26368 EXPRESSION TAG SEQADV 3VAG PRO A 144 UNP P26368 EXPRESSION TAG SEQADV 3VAG LEU A 145 UNP P26368 EXPRESSION TAG SEQADV 3VAG GLY A 146 UNP P26368 EXPRESSION TAG SEQADV 3VAG SER A 147 UNP P26368 EXPRESSION TAG SEQADV 3VAG GLY B 143 UNP P26368 EXPRESSION TAG SEQADV 3VAG PRO B 144 UNP P26368 EXPRESSION TAG SEQADV 3VAG LEU B 145 UNP P26368 EXPRESSION TAG SEQADV 3VAG GLY B 146 UNP P26368 EXPRESSION TAG SEQADV 3VAG SER B 147 UNP P26368 EXPRESSION TAG SEQRES 1 A 174 GLY PRO LEU GLY SER ALA ARG ARG LEU TYR VAL GLY ASN SEQRES 2 A 174 ILE PRO PHE GLY ILE THR GLU GLU ALA MET MET ASP PHE SEQRES 3 A 174 PHE ASN ALA GLN MET ARG LEU GLY GLY LEU THR GLN ALA SEQRES 4 A 174 PRO GLY ASN PRO VAL LEU ALA VAL GLN ILE ASN GLN ASP SEQRES 5 A 174 LYS ASN PHE ALA PHE LEU GLU PHE ARG SER VAL ASP GLU SEQRES 6 A 174 THR THR GLN ALA MET ALA PHE ASP GLY ILE ILE PHE GLN SEQRES 7 A 174 GLY GLN SER LEU LYS ILE ARG ARG PRO HIS ASP TYR GLN SEQRES 8 A 174 PRO LEU PRO GLY ALA HIS LYS LEU PHE ILE GLY GLY LEU SEQRES 9 A 174 PRO ASN TYR LEU ASN ASP ASP GLN VAL LYS GLU LEU LEU SEQRES 10 A 174 THR SER PHE GLY PRO LEU LYS ALA PHE ASN LEU VAL LYS SEQRES 11 A 174 ASP SER ALA THR GLY LEU SER LYS GLY TYR ALA PHE CYS SEQRES 12 A 174 GLU TYR VAL ASP ILE ASN VAL THR ASP GLN ALA ILE ALA SEQRES 13 A 174 GLY LEU ASN GLY MET GLN LEU GLY ASP LYS LYS LEU LEU SEQRES 14 A 174 VAL GLN ARG ALA SER SEQRES 1 B 174 GLY PRO LEU GLY SER ALA ARG ARG LEU TYR VAL GLY ASN SEQRES 2 B 174 ILE PRO PHE GLY ILE THR GLU GLU ALA MET MET ASP PHE SEQRES 3 B 174 PHE ASN ALA GLN MET ARG LEU GLY GLY LEU THR GLN ALA SEQRES 4 B 174 PRO GLY ASN PRO VAL LEU ALA VAL GLN ILE ASN GLN ASP SEQRES 5 B 174 LYS ASN PHE ALA PHE LEU GLU PHE ARG SER VAL ASP GLU SEQRES 6 B 174 THR THR GLN ALA MET ALA PHE ASP GLY ILE ILE PHE GLN SEQRES 7 B 174 GLY GLN SER LEU LYS ILE ARG ARG PRO HIS ASP TYR GLN SEQRES 8 B 174 PRO LEU PRO GLY ALA HIS LYS LEU PHE ILE GLY GLY LEU SEQRES 9 B 174 PRO ASN TYR LEU ASN ASP ASP GLN VAL LYS GLU LEU LEU SEQRES 10 B 174 THR SER PHE GLY PRO LEU LYS ALA PHE ASN LEU VAL LYS SEQRES 11 B 174 ASP SER ALA THR GLY LEU SER LYS GLY TYR ALA PHE CYS SEQRES 12 B 174 GLU TYR VAL ASP ILE ASN VAL THR ASP GLN ALA ILE ALA SEQRES 13 B 174 GLY LEU ASN GLY MET GLN LEU GLY ASP LYS LYS LEU LEU SEQRES 14 B 174 VAL GLN ARG ALA SER SEQRES 1 P 7 DU DC BRU DU DU DU DU SEQRES 1 E 7 DU DC BRU DU DU DU DU MODRES 3VAG BRU P 3 DU MODRES 3VAG BRU E 4 DU HET BRU P 3 20 HET BRU E 4 20 HET DIO A 401 6 HET DIO A 402 6 HET DIO A 403 6 HET SO4 A 404 5 HET SO4 A 405 5 HET SO4 A 406 5 HET SO4 A 407 5 HET GOL A 408 6 HET DIO B 401 6 HET DIO B 402 6 HET DIO B 403 6 HET CPQ B 404 27 HET SO4 B 405 5 HET SO4 B 406 5 HET SO4 B 407 5 HET GOL B 408 6 HETNAM BRU 5-BROMO-2'-DEOXYURIDINE-5'-MONOPHOSPHATE HETNAM DIO 1,4-DIETHYLENE DIOXIDE HETNAM SO4 SULFATE ION HETNAM GOL GLYCEROL HETNAM CPQ N,N-BIS(3-D-GLUCONAMIDOPROPYL)DEOXYCHOLAMIDE HETSYN GOL GLYCERIN; PROPANE-1,2,3-TRIOL HETSYN CPQ DEOXY-BIGCHAP FORMUL 3 BRU 2(C9 H12 BR N2 O8 P) FORMUL 5 DIO 6(C4 H8 O2) FORMUL 8 SO4 7(O4 S 2-) FORMUL 12 GOL 2(C3 H8 O3) FORMUL 16 CPQ C42 H75 N3 O15 FORMUL 21 HOH *156(H2 O) HELIX 1 1 THR A 161 GLY A 176 1 16 HELIX 2 2 SER A 204 ALA A 211 1 8 HELIX 3 3 MET A 212 ASP A 215 5 4 HELIX 4 4 ASN A 271 SER A 281 1 11 HELIX 5 5 ASN A 311 ASN A 321 1 11 HELIX 6 6 GLY B 143 ALA B 148 5 6 HELIX 7 7 THR B 161 GLY B 177 1 17 HELIX 8 8 SER B 204 MET B 212 1 9 HELIX 9 9 ALA B 213 ASP B 215 5 3 HELIX 10 10 ASN B 271 THR B 280 1 10 HELIX 11 11 ASP B 309 ASN B 311 5 3 HELIX 12 12 VAL B 312 ASN B 321 1 10 SHEET 1 A 4 VAL A 186 ASN A 192 0 SHEET 2 A 4 PHE A 197 PHE A 202 -1 O PHE A 197 N ASN A 192 SHEET 3 A 4 ARG A 150 GLY A 154 -1 N VAL A 153 O ALA A 198 SHEET 4 A 4 LYS A 225 ARG A 227 -1 O LYS A 225 N GLY A 154 SHEET 1 B 2 ILE A 218 PHE A 219 0 SHEET 2 B 2 GLN A 222 SER A 223 -1 O GLN A 222 N PHE A 219 SHEET 1 C 4 LEU A 285 ASP A 293 0 SHEET 2 C 4 LEU A 298 TYR A 307 -1 O GLU A 306 N LYS A 286 SHEET 3 C 4 LEU A 261 GLY A 264 -1 N LEU A 261 O CYS A 305 SHEET 4 C 4 LEU A 331 ARG A 334 -1 O GLN A 333 N PHE A 262 SHEET 1 D 2 GLN A 324 LEU A 325 0 SHEET 2 D 2 LYS A 328 LYS A 329 -1 O LYS A 328 N LEU A 325 SHEET 1 E 4 VAL B 186 ASN B 192 0 SHEET 2 E 4 PHE B 197 PHE B 202 -1 O PHE B 197 N ASN B 192 SHEET 3 E 4 ARG B 150 GLY B 154 -1 N VAL B 153 O ALA B 198 SHEET 4 E 4 LYS B 225 ARG B 227 -1 O LYS B 225 N GLY B 154 SHEET 1 F 2 ILE B 218 PHE B 219 0 SHEET 2 F 2 GLN B 222 SER B 223 -1 O GLN B 222 N PHE B 219 SHEET 1 G 4 LEU B 285 ASP B 293 0 SHEET 2 G 4 LEU B 298 TYR B 307 -1 O GLU B 306 N LYS B 286 SHEET 3 G 4 LEU B 261 GLY B 264 -1 N ILE B 263 O ALA B 303 SHEET 4 G 4 LEU B 331 ARG B 334 -1 O GLN B 333 N PHE B 262 SHEET 1 H 2 GLN B 324 LEU B 325 0 SHEET 2 H 2 LYS B 328 LYS B 329 -1 O LYS B 328 N LEU B 325 LINK O3' DC P 2 P BRU P 3 1555 1555 1.61 LINK O3' BRU P 3 P DU P 4 1555 1555 1.61 LINK O3' DC E 3 P BRU E 4 1555 1555 1.61 LINK O3' BRU E 4 P DU E 5 1555 1555 1.61 CISPEP 1 GLY A 143 PRO A 144 0 -5.79 SITE 1 AC1 6 ASN A 268 TYR A 269 ASN A 271 GLY A 297 SITE 2 AC1 6 LEU A 298 SER A 299 SITE 1 AC2 4 PRO A 144 ALA A 148 GLN A 233 LEU A 325 SITE 1 AC3 4 GLN A 180 ALA A 181 GLU A 207 ALA A 318 SITE 1 AC4 2 LYS A 225 ARG A 227 SITE 1 AC5 3 GLN A 190 HOH A 527 DU P 6 SITE 1 AC6 6 ARG A 149 ARG A 150 GLU A 201 SER A 281 SITE 2 AC6 6 HOH A 504 DU P 7 SITE 1 AC7 3 ARG A 228 TYR A 232 ILE A 310 SITE 1 AC8 5 ILE A 191 ASN A 192 GLN A 193 ASP A 194 SITE 2 AC8 5 LYS B 329 SITE 1 AC9 4 LEU B 285 LYS B 286 ALA B 287 HOH B 543 SITE 1 BC1 2 GLY B 183 HIS B 259 SITE 1 BC2 4 ASN B 268 LEU B 298 SER B 299 HOH B 539 SITE 1 BC3 3 ARG B 149 SER B 204 VAL B 205 SITE 1 BC4 4 ARG A 174 LYS B 225 ARG B 227 HOH E 103 SITE 1 BC5 2 ARG B 228 HOH B 548 SITE 1 BC6 5 ALA B 181 ILE B 317 GLN B 333 ARG B 334 SITE 2 BC6 5 HOH B 506 CRYST1 166.825 37.499 100.925 90.00 125.35 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 0.005994 0.000000 0.004252 0.00000 SCALE2 0.000000 0.026667 0.000000 0.00000 SCALE3 0.000000 0.000000 0.012148 0.00000