HEADER RNA BINDING PROTEIN 10-FEB-06 2FZR OBSLTE 29-AUG-06 2FZR 2HZC TITLE CRYSTAL STRUCTURE OF THE N-TERMINAL RRM OF THE U2AF LARGE TITLE 2 SUBUNIT COMPND MOL_ID: 1; COMPND 2 MOLECULE: SPLICING FACTOR U2AF 65 KDA SUBUNIT; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: U2 AUXILIARY FACTOR 65 KDA SUBUNIT, U2 SNRNP COMPND 5 AUXILIARY FACTOR LARGE SUBUNIT, HU2AF65; COMPND 6 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 3 ORGANISM_COMMON: HUMAN; SOURCE 4 GENE: U2AF65; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_COMMON: BACTERIA; SOURCE 7 EXPRESSION_SYSTEM_STRAIN: BL21; SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 9 EXPRESSION_SYSTEM_PLASMID: PGEX-6P KEYWDS RNA RECOGNITION MOTIF, RNA BINDING PROTEIN, RNA SPLICING, KEYWDS 2 ALTERNATIVE CONFORMATIONS EXPDTA X-RAY DIFFRACTION AUTHOR C.L.KIELKOPF,K.R.THICKMAN REVDAT 2 29-AUG-06 2FZR 1 OBSLTE REVDAT 1 25-JUL-06 2FZR 0 JRNL AUTH E.A.SICKMIER,K.E.FRATO,S.PARANAWITHANA,H.SHEN, JRNL AUTH 2 M.R.GREEN,C.L.KIELKOPF JRNL TITL STRUCTURAL BASIS OF POLYPYRIMIDINE TRACT JRNL TITL 2 RECOGNITION BY THE ESSENTIAL SPLICING FACTOR JRNL TITL 3 U2AF65. JRNL REF MOL.CELL V. 23 49 2006 JRNL REFN ASTM JMOBAK UK ISSN 0022-2836 REMARK 1 REMARK 2 REMARK 2 RESOLUTION. 1.47 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : SHELXL-97 REMARK 3 AUTHORS : G.M.SHELDRICK REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.47 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 20.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : NULL REMARK 3 CROSS-VALIDATION METHOD : NULL REMARK 3 FREE R VALUE TEST SET SELECTION : RANDOM REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT (NO CUTOFF). REMARK 3 R VALUE (WORKING + TEST SET, NO CUTOFF) : 0.137 REMARK 3 R VALUE (WORKING SET, NO CUTOFF) : 0.139 REMARK 3 FREE R VALUE (NO CUTOFF) : 0.220 REMARK 3 FREE R VALUE TEST SET SIZE (%, NO CUTOFF) : NULL REMARK 3 FREE R VALUE TEST SET COUNT (NO CUTOFF) : 773 REMARK 3 TOTAL NUMBER OF REFLECTIONS (NO CUTOFF) : 13454 REMARK 3 REMARK 3 FIT/AGREEMENT OF MODEL FOR DATA WITH F>4SIG(F). REMARK 3 R VALUE (WORKING + TEST SET, F>4SIG(F)) : NULL REMARK 3 R VALUE (WORKING SET, F>4SIG(F)) : NULL REMARK 3 FREE R VALUE (F>4SIG(F)) : NULL REMARK 3 FREE R VALUE TEST SET SIZE (%, F>4SIG(F)) : NULL REMARK 3 FREE R VALUE TEST SET COUNT (F>4SIG(F)) : NULL REMARK 3 TOTAL NUMBER OF REFLECTIONS (F>4SIG(F)) : NULL REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 722 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 21 REMARK 3 SOLVENT ATOMS : 164 REMARK 3 REMARK 3 MODEL REFINEMENT. REMARK 3 OCCUPANCY SUM OF NON-HYDROGEN ATOMS : NULL REMARK 3 OCCUPANCY SUM OF HYDROGEN ATOMS : NULL REMARK 3 NUMBER OF DISCRETELY DISORDERED RESIDUES : NULL REMARK 3 NUMBER OF LEAST-SQUARES PARAMETERS : NULL REMARK 3 NUMBER OF RESTRAINTS : NULL REMARK 3 REMARK 3 RMS DEVIATIONS FROM RESTRAINT TARGET VALUES. REMARK 3 BOND LENGTHS (A) : 0.015 REMARK 3 ANGLE DISTANCES (A) : NULL REMARK 3 SIMILAR DISTANCES (NO TARGET VALUES) (A) : NULL REMARK 3 DISTANCES FROM RESTRAINT PLANES (A) : NULL REMARK 3 ZERO CHIRAL VOLUMES (A**3) : NULL REMARK 3 NON-ZERO CHIRAL VOLUMES (A**3) : NULL REMARK 3 ANTI-BUMPING DISTANCE RESTRAINTS (A) : NULL REMARK 3 RIGID-BOND ADP COMPONENTS (A**2) : NULL REMARK 3 SIMILAR ADP COMPONENTS (A**2) : NULL REMARK 3 APPROXIMATELY ISOTROPIC ADPS (A**2) : NULL REMARK 3 REMARK 3 BULK SOLVENT MODELING. REMARK 3 METHOD USED: NULL REMARK 3 REMARK 3 STEREOCHEMISTRY TARGET VALUES : ENGH & HUBER REMARK 3 SPECIAL CASE: NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 2FZR COMPLIES WITH FORMAT V. 2.3, 09-JULY-1998 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 14-FEB-2006. REMARK 100 THE RCSB ID CODE IS RCSB036507. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 15-SEP-2003 REMARK 200 TEMPERATURE (KELVIN) : 100.0 REMARK 200 PH : 6.50 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : N REMARK 200 RADIATION SOURCE : ROTATING ANODE REMARK 200 BEAMLINE : NULL REMARK 200 X-RAY GENERATOR MODEL : BRUKER MICROSTAR REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.54, 0.9798, 0.9795, 0.9568 REMARK 200 MONOCHROMATOR : GOEBEL MIRRORS REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : X8 PROTEUM CCD REMARK 200 INTENSITY-INTEGRATION SOFTWARE : PROTEUM REMARK 200 DATA SCALING SOFTWARE : PROTEUM REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 13454 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.470 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 (%) : 92.1 REMARK 200 DATA REDUNDANCY : NULL REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : NULL REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.47 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.52 REMARK 200 COMPLETENESS FOR SHELL (%) : 82.3 REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : NULL REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: MAD REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MAD REMARK 200 SOFTWARE USED: SOLVE REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 39.26 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.03 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 20% PEG MME500, 0.2M ZN ACETATE, REMARK 280 0.1M MES, PH 6.5, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE REMARK 280 298K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 43 21 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,-Y,1/2+Z REMARK 290 3555 1/2-Y,1/2+X,3/4+Z REMARK 290 4555 1/2+Y,1/2-X,1/4+Z REMARK 290 5555 1/2-X,1/2+Y,3/4-Z REMARK 290 6555 1/2+X,1/2-Y,1/4-Z REMARK 290 7555 Y,X,-Z REMARK 290 8555 -Y,-X,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 92.35500 REMARK 290 SMTRY1 3 0.000000 -1.000000 0.000000 14.53500 REMARK 290 SMTRY2 3 1.000000 0.000000 0.000000 14.53500 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 138.53250 REMARK 290 SMTRY1 4 0.000000 1.000000 0.000000 14.53500 REMARK 290 SMTRY2 4 -1.000000 0.000000 0.000000 14.53500 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 46.17750 REMARK 290 SMTRY1 5 -1.000000 0.000000 0.000000 14.53500 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 14.53500 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 138.53250 REMARK 290 SMTRY1 6 1.000000 0.000000 0.000000 14.53500 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 14.53500 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 46.17750 REMARK 290 SMTRY1 7 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY2 7 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 8 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY2 8 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 92.35500 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1 REMARK 300 THIS ENTRY CONTAINS THE CRYSTALLOGRAPHIC ASYMMETRIC UNIT REMARK 300 WHICH CONSISTS OF 1 CHAIN(S). SEE REMARK 350 FOR REMARK 300 INFORMATION ON GENERATING THE BIOLOGICAL MOLECULE(S). REMARK 350 REMARK 350 GENERATING THE BIOMOLECULE 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 APPLY THE FOLLOWING TO CHAINS: 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 375 REMARK 375 SPECIAL POSITION REMARK 375 THE FOLLOWING ATOMS ARE FOUND TO BE WITHIN 0.15 ANGSTROMS REMARK 375 OF A SYMMETRY RELATED ATOM AND ARE ASSUMED TO BE ON SPECIAL REMARK 375 POSITIONS. REMARK 375 REMARK 375 ATOM RES CSSEQI REMARK 375 ZN ZN 301 LIES ON A SPECIAL POSITION. REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS IN SAME ASYMMETRIC UNIT REMARK 500 REMARK 500 THE FOLLOWING ATOMS ARE IN CLOSE CONTACT. REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI REMARK 500 OE1 GLU A 162 ZN ZN 301 2.03 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: ENGH AND HUBER, 1991 REMARK 500 REMARK 500 M RES CSSEQI ATM1 ATM2 ATM3 REMARK 500 LEU A 145 C - N - CA ANGL. DEV. = 40.0 DEGREES REMARK 500 ARG A 150 CD - NE - CZ ANGL. DEV. = 24.2 DEGREES REMARK 500 ASN A 170 CB - CG - OD1 ANGL. DEV. = 20.7 DEGREES 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 GLN A 193 ASP A 194 127.91 REMARK 525 REMARK 525 SOLVENT REMARK 525 THE FOLLOWING SOLVENT MOLECULES LIE FARTHER THAN EXPECTED REMARK 525 FROM THE PROTEIN OR NUCLEIC ACID MOLECULE AND MAY BE REMARK 525 ASSOCIATED WITH A SYMMETRY RELATED MOLECULE (M=MODEL REMARK 525 NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE REMARK 525 NUMBER; I=INSERTION CODE): REMARK 525 REMARK 525 M RES CSSEQI REMARK 525 HOH 79 DISTANCE = 5.23 ANGSTROMS REMARK 525 HOH 97 DISTANCE = 7.78 ANGSTROMS REMARK 525 HOH 159 DISTANCE = 7.74 ANGSTROMS REMARK 600 REMARK 600 HETEROGEN REMARK 600 ACCORDING TO AUTHORS THE LIGAND P6G IS A REMARK 600 FRAGMENT OF PEG MONOMETHYLETHER 550 DBREF 2FZR A 148 229 UNP P26368 U2AF2_HUMAN 148 229 SEQADV 2FZR GLY A 143 UNP P26368 CLONING ARTIFACT SEQADV 2FZR PRO A 144 UNP P26368 CLONING ARTIFACT SEQADV 2FZR LEU A 145 UNP P26368 CLONING ARTIFACT SEQADV 2FZR GLY A 146 UNP P26368 CLONING ARTIFACT SEQADV 2FZR SER A 147 UNP P26368 CLONING ARTIFACT SEQRES 1 A 87 GLY PRO LEU GLY SER ALA ARG ARG LEU TYR VAL GLY ASN SEQRES 2 A 87 ILE PRO PHE GLY ILE THR GLU GLU ALA MET MET ASP PHE SEQRES 3 A 87 PHE ASN ALA GLN MET ARG LEU GLY GLY LEU THR GLN ALA SEQRES 4 A 87 PRO GLY ASN PRO VAL LEU ALA VAL GLN ILE ASN GLN ASP SEQRES 5 A 87 LYS ASN PHE ALA PHE LEU GLU PHE ARG SER VAL ASP GLU SEQRES 6 A 87 THR THR GLN ALA MET ALA PHE ASP GLY ILE ILE PHE GLN SEQRES 7 A 87 GLY GLN SER LEU LYS ILE ARG ARG PRO HET ZN 301 1 HET ZN 302 1 HET P6G 201 19 HETNAM ZN ZINC ION HETNAM P6G HEXAETHYLENE GLYCOL HETSYN P6G POLYETHYLENE GLYCOL PEG400 FORMUL 2 ZN 2(ZN 2+) FORMUL 4 P6G C12 H26 O7 FORMUL 5 HOH *164(H2 O1) HELIX 1 1 LEU A 145 ALA A 148 5 4 HELIX 2 2 THR A 161 GLY A 176 1 16 HELIX 3 3 SER A 204 MET A 212 1 9 HELIX 4 4 ALA A 213 ASP A 215 5 3 SHEET 1 A 4 VAL A 186 ILE A 191 0 SHEET 2 A 4 PHE A 197 PHE A 202 -1 O GLU A 201 N ALA A 188 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 CISPEP 1 GLY A 143 PRO A 144 0 -5.05 CISPEP 2 PRO A 144 LEU A 145 0 8.80 CRYST1 29.070 29.070 184.710 90.00 90.00 90.00 P 43 21 2 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 0.034400 0.000000 0.000000 0.00000 SCALE2 0.000000 0.034400 0.000000 0.00000 SCALE3 0.000000 0.000000 0.005414 0.00000