HEADER DNA BINDING PROTEIN 01-OCT-08 3EQX TITLE CRYSTAL STRUCTURE OF A FIC FAMILY PROTEIN (SO_4266) FROM SHEWANELLA TITLE 2 ONEIDENSIS AT 1.6 A RESOLUTION COMPND MOL_ID: 1; COMPND 2 MOLECULE: FIC DOMAIN CONTAINING TRANSCRIPTIONAL REGULATOR; COMPND 3 CHAIN: A, B; COMPND 4 ENGINEERED: YES; COMPND 5 MUTATION: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: SHEWANELLA ONEIDENSIS; SOURCE 3 ORGANISM_TAXID: 70863; SOURCE 4 GENE: NP_719793.1, SO_4266; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 7 EXPRESSION_SYSTEM_STRAIN: HK100; SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 9 EXPRESSION_SYSTEM_PLASMID: SPEEDET KEYWDS FIC FAMILY PROTEIN, STRUCTURAL GENOMICS, JOINT CENTER FOR STRUCTURAL KEYWDS 2 GENOMICS, JCSG, PROTEIN STRUCTURE INITIATIVE, PSI-2, DNA BINDING KEYWDS 3 PROTEIN EXPDTA X-RAY DIFFRACTION AUTHOR JOINT CENTER FOR STRUCTURAL GENOMICS (JCSG) REVDAT 9 01-FEB-23 3EQX 1 REMARK SEQADV REVDAT 8 24-JUL-19 3EQX 1 REMARK LINK REVDAT 7 25-OCT-17 3EQX 1 REMARK REVDAT 6 13-JUL-11 3EQX 1 VERSN REVDAT 5 28-JUL-10 3EQX 1 HEADER TITLE KEYWDS REVDAT 4 12-MAY-09 3EQX 1 JRNL REVDAT 3 10-MAR-09 3EQX 1 JRNL REVDAT 2 24-FEB-09 3EQX 1 VERSN REVDAT 1 14-OCT-08 3EQX 0 SPRSDE 14-OCT-08 3EQX 2QC0 JRNL AUTH D.DAS,S.S.KRISHNA,D.MCMULLAN,M.D.MILLER,Q.XU,P.ABDUBEK, JRNL AUTH 2 C.ACOSTA,T.ASTAKHOVA,H.L.AXELROD,P.BURRA,D.CARLTON,H.J.CHIU, JRNL AUTH 3 T.CLAYTON,M.C.DELLER,L.DUAN,Y.ELIAS,M.A.ELSLIGER,D.ERNST, JRNL AUTH 4 J.FEUERHELM,A.GRZECHNIK,S.K.GRZECHNIK,J.HALE,G.W.HAN, JRNL AUTH 5 L.JAROSZEWSKI,K.K.JIN,H.E.KLOCK,M.W.KNUTH,P.KOZBIAL,A.KUMAR, JRNL AUTH 6 D.MARCIANO,A.T.MORSE,K.D.MURPHY,E.NIGOGHOSSIAN,L.OKACH, JRNL AUTH 7 S.OOMMACHEN,J.PAULSEN,R.REYES,C.L.RIFE,N.SEFCOVIC,H.TIEN, JRNL AUTH 8 C.B.TRAME,C.V.TROUT,H.VAN DEN BEDEM,D.WEEKES,A.WHITE, JRNL AUTH 9 K.O.HODGSON,J.WOOLEY,A.M.DEACON,A.GODZIK,S.A.LESLEY, JRNL AUTH10 I.A.WILSON JRNL TITL CRYSTAL STRUCTURE OF THE FIC (FILAMENTATION INDUCED BY CAMP) JRNL TITL 2 FAMILY PROTEIN SO4266 (GI|24375750) FROM SHEWANELLA JRNL TITL 3 ONEIDENSIS MR-1 AT 1.6 A RESOLUTION. JRNL REF PROTEINS V. 75 264 2009 JRNL REFN ISSN 0887-3585 JRNL PMID 19127588 JRNL DOI 10.1002/PROT.22338 REMARK 2 REMARK 2 RESOLUTION. 1.60 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 WITH PHASES REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.60 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 29.55 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.3 REMARK 3 NUMBER OF REFLECTIONS : 106418 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) : 0.170 REMARK 3 R VALUE (WORKING SET) : 0.168 REMARK 3 FREE R VALUE : 0.197 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 5304 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) : 1.60 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.64 REMARK 3 REFLECTION IN BIN (WORKING SET) : 7337 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 98.75 REMARK 3 BIN R VALUE (WORKING SET) : 0.2240 REMARK 3 BIN FREE R VALUE SET COUNT : 400 REMARK 3 BIN FREE R VALUE : 0.2800 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 5810 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 10 REMARK 3 SOLVENT ATOMS : 814 REMARK 3 REMARK 3 B VALUES. REMARK 3 B VALUE TYPE : LIKELY RESIDUAL REMARK 3 FROM WILSON PLOT (A**2) : 19.47 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 23.39 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 1.05000 REMARK 3 B22 (A**2) : -0.94000 REMARK 3 B33 (A**2) : -0.10000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 0.00000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.084 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.083 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.055 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 3.098 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.966 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.955 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 6177 ; 0.018 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): 4109 ; 0.001 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 8474 ; 1.636 ; 1.970 REMARK 3 BOND ANGLES OTHERS (DEGREES): 10159 ; 1.035 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 805 ; 3.889 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 281 ;37.878 ;24.982 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 1092 ;10.687 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 31 ;10.261 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 997 ; 0.108 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 6849 ; 0.007 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 1164 ; 0.001 ; 0.020 REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 1450 ; 0.225 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): 4356 ; 0.189 ; 0.200 REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 3101 ; 0.183 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): 2896 ; 0.088 ; 0.200 REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 616 ; 0.161 ; 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): 20 ; 0.206 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): 58 ; 0.215 ; 0.200 REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 41 ; 0.180 ; 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): 4192 ; 2.246 ; 3.000 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 1487 ; 0.575 ; 3.000 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 6203 ; 2.803 ; 5.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 2612 ; 4.889 ; 8.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 2232 ; 6.642 ;11.000 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 : 1 REMARK 3 REMARK 3 NCS GROUP NUMBER : 1 REMARK 3 CHAIN NAMES : A B REMARK 3 NUMBER OF COMPONENTS NCS GROUP : 1 REMARK 3 COMPONENT C SSSEQI TO C SSSEQI CODE REMARK 3 1 A 11 A 370 6 REMARK 3 1 B 11 B 370 6 REMARK 3 GROUP CHAIN COUNT RMS WEIGHT REMARK 3 LOOSE POSITIONAL 1 A (A): 4510 ; 0.500 ; 5.000 REMARK 3 LOOSE THERMAL 1 A (A**2): 4510 ; 3.650 ;10.000 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 2 A 370 REMARK 3 ORIGIN FOR THE GROUP (A): 17.9683 11.8622 -75.3204 REMARK 3 T TENSOR REMARK 3 T11: -0.0709 T22: -0.0518 REMARK 3 T33: -0.0190 T12: -0.0057 REMARK 3 T13: 0.0038 T23: -0.0147 REMARK 3 L TENSOR REMARK 3 L11: 0.6927 L22: 1.1745 REMARK 3 L33: 0.7830 L12: 0.1875 REMARK 3 L13: -0.1320 L23: -0.1913 REMARK 3 S TENSOR REMARK 3 S11: -0.0297 S12: 0.0571 S13: -0.1512 REMARK 3 S21: -0.0874 S22: 0.0158 S23: 0.0099 REMARK 3 S31: 0.0210 S32: -0.0212 S33: 0.0139 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 11 B 370 REMARK 3 ORIGIN FOR THE GROUP (A): 18.1914 49.6890 -84.8692 REMARK 3 T TENSOR REMARK 3 T11: -0.0699 T22: -0.0497 REMARK 3 T33: -0.0447 T12: 0.0117 REMARK 3 T13: 0.0098 T23: 0.0093 REMARK 3 L TENSOR REMARK 3 L11: 0.3281 L22: 0.9125 REMARK 3 L33: 0.8867 L12: 0.0131 REMARK 3 L13: 0.0600 L23: 0.1258 REMARK 3 S TENSOR REMARK 3 S11: -0.0191 S12: 0.0280 S13: 0.0557 REMARK 3 S21: -0.0473 S22: -0.0048 S23: 0.0074 REMARK 3 S31: 0.0004 S32: -0.0641 S33: 0.0238 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : MASK REMARK 3 PARAMETERS FOR MASK CALCULATION REMARK 3 VDW PROBE RADIUS : 1.20 REMARK 3 ION PROBE RADIUS : 0.80 REMARK 3 SHRINKAGE RADIUS : 0.80 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: REMARK 3 1. HYDROGENS HAVE BEEN ADDED IN THE RIDING POSITIONS REMARK 3 2. A MET-INHIBITION PROTOCOL WAS USED FOR SELENOMETHIONINE REMARK 3 INCORPORATION DURING PROTEIN EXPRESSION. THE OCCUPANCY REMARK 3 OF THE SE ATOMS IN THE MSE RESIDUES WAS REDUCED TO REMARK 3 0.75 TO ACCOUNT FOR THE REDUCED SCATTERING POWER DUE TO REMARK 3 PARTIAL S-MET INCORPORATION REMARK 3 3. ATOM RECORD CONTAINS RESIDUAL B FACTORS ONLY. REMARK 3 4. MODELING EXPERIMENTS SUGGEST THAT THE ELECTRON DENSITY REMARK 3 NEAR THE HPFXXGNG MOTIF (PRESENT IN FIC PROTEINS) STARTING REMARK 3 AT HIS198 IN CHAIN A IS LIKELY TO BE A PORTION (B1-B4) OF REMARK 3 THE PARTIALLY MISSING N-TERMINUS OF CHAIN B FROM A SYMMETRY REMARK 3 RELATED MOLECULE. B1(MSE) IS SUPPORTED BY REMARK 3 A SIGNIGICANT PEAK IN THE ANOMALOUS DIFFERENCE FOURIER MAP REMARK 3 CALCULATED FOR THIS SELENOMETHIONINE DERIVATIZED PROTEIN CRYSTAL. REMARK 3 5. PGE HAS BEEN MODELED BASED ON CRYSTALLIZATION CONDITIONS. REMARK 3 6. RESIDUES A344-A345 IN CHAIN A AND B5-B10 ARE DISORDERED REMARK 3 AND HAVE NOT BEEN MODELLED. REMARK 4 REMARK 4 3EQX COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 02-OCT-08. REMARK 100 THE DEPOSITION ID IS D_1000049664. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 13-MAY-07 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7.1 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SSRL REMARK 200 BEAMLINE : BL11-1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.91837,0.97905,0.97935 REMARK 200 MONOCHROMATOR : SINGLE CRYSTAL SI(111) BENT REMARK 200 MONOCHROMATOR (HORIZONTAL REMARK 200 FOCUSING) REMARK 200 OPTICS : FLAT MIRROR (VERTICAL FOCUSING) REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MARMOSAIC 325 MM CCD REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : XSCALE REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 106471 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.600 REMARK 200 RESOLUTION RANGE LOW (A) : 29.553 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : -3.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 98.7 REMARK 200 DATA REDUNDANCY : NULL REMARK 200 R MERGE (I) : 0.04200 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 13.8300 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.60 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.66 REMARK 200 COMPLETENESS FOR SHELL (%) : 98.7 REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : 0.52400 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 2.000 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: MAD REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MAD REMARK 200 SOFTWARE USED: SHELX, SOLVE REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 47.95 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.36 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.2M NAF, 20.0% PEG-3350, NO BUFFER PH REMARK 280 7.1, NANODROP, VAPOR DIFFUSION, SITTING DROP, TEMPERATURE 277K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 21 21 21 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X+1/2,-Y,Z+1/2 REMARK 290 3555 -X,Y+1/2,-Z+1/2 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 35.60500 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 70.50000 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 40.15000 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 70.50000 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 35.60500 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 40.15000 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 300 REMARK: AUTHORS STATE THAT SIZE EXCLUSION CHROMATOGRAPHY SUPPORTS REMARK 300 THE ASSIGNMENT OF A DIMER AS THE SIGNIFICANT OLIGOMERIZATION STATE. 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: A, B 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 GLY A 0 REMARK 465 MSE A 1 REMARK 465 GLN A 344 REMARK 465 SER A 345 REMARK 465 ALA A 371 REMARK 465 LEU A 372 REMARK 465 GLY B 0 REMARK 465 ALA B 5 REMARK 465 GLU B 6 REMARK 465 GLN B 7 REMARK 465 ALA B 8 REMARK 465 TYR B 9 REMARK 465 ASN B 10 REMARK 465 ALA B 371 REMARK 465 LEU B 372 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 20 NZ REMARK 470 GLN A 148 CG CD OE1 NE2 REMARK 470 GLU A 287 CG CD OE1 OE2 REMARK 470 GLN A 291 OE1 NE2 REMARK 470 LYS A 295 CG CD CE NZ REMARK 470 GLU A 318 CD OE1 OE2 REMARK 470 LYS A 347 CG CD CE NZ REMARK 470 GLU A 348 CD OE1 OE2 REMARK 470 LYS A 349 CD CE NZ REMARK 470 GLU B 2 CG CD OE1 OE2 REMARK 470 GLN B 4 OE1 NE2 REMARK 470 LYS B 20 CE NZ REMARK 470 LYS B 347 CG CD CE NZ REMARK 470 LYS B 349 CG CD CE NZ REMARK 470 GLN B 366 CD OE1 NE2 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 DISTANCE REMARK 500 ND2 ASN A 53 O HOH A 456 2.15 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 ASP A 336 CB - CG - OD2 ANGL. DEV. = -5.4 DEGREES REMARK 500 ASP B 136 CB - CG - OD1 ANGL. DEV. = 6.7 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 18 -156.72 -97.23 REMARK 500 GLU A 88 117.15 -161.00 REMARK 500 LEU A 321 -59.95 70.25 REMARK 500 ASP B 18 -158.72 -100.09 REMARK 500 HIS B 353 79.39 -117.40 REMARK 500 REMARK 500 REMARK: NULL REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PGE A 373 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 376495 RELATED DB: TARGETDB REMARK 999 REMARK 999 SEQUENCE REMARK 999 THE CONSTRUCT WAS EXPRESSED WITH A PURIFICATION TAG REMARK 999 MGSDKIHHHHHHENLYFQG. THE TAG WAS REMOVED WITH TEV PROTEASE LEAVING REMARK 999 ONLY A GLYCINE (0) FOLLOWED BY THE TARGET SEQUENCE. DNA SEQUENCING REMARK 999 OF THE CLONED CONSTRUCT SHOWS A CYSTEINE AT POSITION 109 INSTEAD OF REMARK 999 A GLYCINE. THE CYSTEINE AT POSITION 109 IS SUPPORTED BY THE REMARK 999 ELECTRON DENSITY. DBREF 3EQX A 1 372 UNP Q8E9K5 Q8E9K5_SHEON 1 372 DBREF 3EQX B 1 372 UNP Q8E9K5 Q8E9K5_SHEON 1 372 SEQADV 3EQX GLY A 0 UNP Q8E9K5 EXPRESSION TAG SEQADV 3EQX CYS A 109 UNP Q8E9K5 GLY 109 SEE REMARK 999 SEQADV 3EQX GLY B 0 UNP Q8E9K5 EXPRESSION TAG SEQADV 3EQX CYS B 109 UNP Q8E9K5 GLY 109 SEE REMARK 999 SEQRES 1 A 373 GLY MSE GLU TRP GLN ALA GLU GLN ALA TYR ASN HIS LEU SEQRES 2 A 373 PRO PRO LEU PRO LEU ASP SER LYS LEU ALA GLU LEU ALA SEQRES 3 A 373 GLU THR LEU PRO ILE LEU LYS ALA CYS ILE PRO ALA ARG SEQRES 4 A 373 ALA ALA LEU ALA GLU LEU LYS GLN ALA GLY GLU LEU LEU SEQRES 5 A 373 PRO ASN GLN GLY LEU LEU ILE ASN LEU LEU PRO LEU LEU SEQRES 6 A 373 GLU ALA GLN GLY SER SER GLU ILE GLU ASN ILE VAL THR SEQRES 7 A 373 THR THR ASP LYS LEU PHE GLN TYR ALA GLN GLU ASP SER SEQRES 8 A 373 GLN ALA ASP PRO MSE THR LYS GLU ALA LEU ARG TYR ARG SEQRES 9 A 373 THR ALA LEU TYR GLN CYS PHE THR GLN LEU SER ASN ARG SEQRES 10 A 373 PRO LEU CYS VAL THR THR ALA LEU GLU ILE CYS SER THR SEQRES 11 A 373 ILE LYS SER VAL GLN MSE ASP VAL ARG LYS VAL PRO GLY SEQRES 12 A 373 THR SER LEU THR ASN GLN ALA THR GLY GLU VAL ILE TYR SEQRES 13 A 373 THR PRO PRO ALA GLY GLU SER VAL ILE ARG ASP LEU LEU SEQRES 14 A 373 SER ASN TRP GLU ALA PHE LEU HIS ASN GLN ASP ASP VAL SEQRES 15 A 373 ASP PRO LEU ILE LYS MSE ALA MSE ALA HIS TYR GLN PHE SEQRES 16 A 373 GLU ALA ILE HIS PRO PHE ILE ASP GLY ASN GLY ARG THR SEQRES 17 A 373 GLY ARG VAL LEU ASN ILE LEU TYR LEU ILE ASP GLN GLN SEQRES 18 A 373 LEU LEU SER ALA PRO ILE LEU TYR LEU SER ARG TYR ILE SEQRES 19 A 373 VAL ALA HIS LYS GLN ASP TYR TYR ARG LEU LEU LEU ASN SEQRES 20 A 373 VAL THR THR GLN GLN GLU TRP GLN PRO TRP ILE ILE PHE SEQRES 21 A 373 ILE LEU ASN ALA VAL GLU GLN THR ALA LYS TRP THR THR SEQRES 22 A 373 HIS LYS ILE ALA ALA ALA ARG GLU LEU ILE ALA HIS THR SEQRES 23 A 373 THR GLU TYR VAL ARG GLN GLN LEU PRO LYS ILE TYR SER SEQRES 24 A 373 HIS GLU LEU VAL GLN VAL ILE PHE GLU GLN PRO TYR CYS SEQRES 25 A 373 ARG ILE GLN ASN LEU VAL GLU SER GLY LEU ALA LYS ARG SEQRES 26 A 373 GLN THR ALA SER VAL TYR LEU LYS GLN LEU CYS ASP ILE SEQRES 27 A 373 GLY VAL LEU GLU GLU VAL GLN SER GLY LYS GLU LYS LEU SEQRES 28 A 373 PHE VAL HIS PRO LYS PHE VAL THR LEU MSE THR LYS ASP SEQRES 29 A 373 SER ASN GLN PHE SER ARG TYR ALA LEU SEQRES 1 B 373 GLY MSE GLU TRP GLN ALA GLU GLN ALA TYR ASN HIS LEU SEQRES 2 B 373 PRO PRO LEU PRO LEU ASP SER LYS LEU ALA GLU LEU ALA SEQRES 3 B 373 GLU THR LEU PRO ILE LEU LYS ALA CYS ILE PRO ALA ARG SEQRES 4 B 373 ALA ALA LEU ALA GLU LEU LYS GLN ALA GLY GLU LEU LEU SEQRES 5 B 373 PRO ASN GLN GLY LEU LEU ILE ASN LEU LEU PRO LEU LEU SEQRES 6 B 373 GLU ALA GLN GLY SER SER GLU ILE GLU ASN ILE VAL THR SEQRES 7 B 373 THR THR ASP LYS LEU PHE GLN TYR ALA GLN GLU ASP SER SEQRES 8 B 373 GLN ALA ASP PRO MSE THR LYS GLU ALA LEU ARG TYR ARG SEQRES 9 B 373 THR ALA LEU TYR GLN CYS PHE THR GLN LEU SER ASN ARG SEQRES 10 B 373 PRO LEU CYS VAL THR THR ALA LEU GLU ILE CYS SER THR SEQRES 11 B 373 ILE LYS SER VAL GLN MSE ASP VAL ARG LYS VAL PRO GLY SEQRES 12 B 373 THR SER LEU THR ASN GLN ALA THR GLY GLU VAL ILE TYR SEQRES 13 B 373 THR PRO PRO ALA GLY GLU SER VAL ILE ARG ASP LEU LEU SEQRES 14 B 373 SER ASN TRP GLU ALA PHE LEU HIS ASN GLN ASP ASP VAL SEQRES 15 B 373 ASP PRO LEU ILE LYS MSE ALA MSE ALA HIS TYR GLN PHE SEQRES 16 B 373 GLU ALA ILE HIS PRO PHE ILE ASP GLY ASN GLY ARG THR SEQRES 17 B 373 GLY ARG VAL LEU ASN ILE LEU TYR LEU ILE ASP GLN GLN SEQRES 18 B 373 LEU LEU SER ALA PRO ILE LEU TYR LEU SER ARG TYR ILE SEQRES 19 B 373 VAL ALA HIS LYS GLN ASP TYR TYR ARG LEU LEU LEU ASN SEQRES 20 B 373 VAL THR THR GLN GLN GLU TRP GLN PRO TRP ILE ILE PHE SEQRES 21 B 373 ILE LEU ASN ALA VAL GLU GLN THR ALA LYS TRP THR THR SEQRES 22 B 373 HIS LYS ILE ALA ALA ALA ARG GLU LEU ILE ALA HIS THR SEQRES 23 B 373 THR GLU TYR VAL ARG GLN GLN LEU PRO LYS ILE TYR SER SEQRES 24 B 373 HIS GLU LEU VAL GLN VAL ILE PHE GLU GLN PRO TYR CYS SEQRES 25 B 373 ARG ILE GLN ASN LEU VAL GLU SER GLY LEU ALA LYS ARG SEQRES 26 B 373 GLN THR ALA SER VAL TYR LEU LYS GLN LEU CYS ASP ILE SEQRES 27 B 373 GLY VAL LEU GLU GLU VAL GLN SER GLY LYS GLU LYS LEU SEQRES 28 B 373 PHE VAL HIS PRO LYS PHE VAL THR LEU MSE THR LYS ASP SEQRES 29 B 373 SER ASN GLN PHE SER ARG TYR ALA LEU MODRES 3EQX MSE A 95 MET SELENOMETHIONINE MODRES 3EQX MSE A 135 MET SELENOMETHIONINE MODRES 3EQX MSE A 187 MET SELENOMETHIONINE MODRES 3EQX MSE A 189 MET SELENOMETHIONINE MODRES 3EQX MSE A 360 MET SELENOMETHIONINE MODRES 3EQX MSE B 1 MET SELENOMETHIONINE MODRES 3EQX MSE B 95 MET SELENOMETHIONINE MODRES 3EQX MSE B 135 MET SELENOMETHIONINE MODRES 3EQX MSE B 187 MET SELENOMETHIONINE MODRES 3EQX MSE B 189 MET SELENOMETHIONINE MODRES 3EQX MSE B 360 MET SELENOMETHIONINE HET MSE A 95 13 HET MSE A 135 8 HET MSE A 187 13 HET MSE A 189 8 HET MSE A 360 8 HET MSE B 1 8 HET MSE B 95 13 HET MSE B 135 8 HET MSE B 187 13 HET MSE B 189 8 HET MSE B 360 8 HET PGE A 373 10 HETNAM MSE SELENOMETHIONINE HETNAM PGE TRIETHYLENE GLYCOL FORMUL 1 MSE 11(C5 H11 N O2 SE) FORMUL 3 PGE C6 H14 O4 FORMUL 4 HOH *814(H2 O) HELIX 1 1 SER A 19 GLU A 26 1 8 HELIX 2 2 THR A 27 LEU A 51 1 25 HELIX 3 3 ASN A 53 GLU A 73 1 21 HELIX 4 4 THR A 78 ALA A 86 1 9 HELIX 5 5 ASP A 93 LEU A 113 1 21 HELIX 6 6 CYS A 119 SER A 132 1 14 HELIX 7 7 GLY A 160 ASN A 177 1 18 HELIX 8 8 ASP A 182 HIS A 198 1 17 HELIX 9 9 GLY A 203 GLN A 219 1 17 HELIX 10 10 LEU A 229 HIS A 236 1 8 HELIX 11 11 HIS A 236 GLN A 251 1 16 HELIX 12 12 GLU A 252 LEU A 293 1 42 HELIX 13 13 SER A 298 GLN A 308 1 11 HELIX 14 14 ILE A 313 SER A 319 1 7 HELIX 15 15 LYS A 323 ILE A 337 1 15 HELIX 16 16 HIS A 353 LYS A 362 1 10 HELIX 17 17 ASP B 18 GLU B 26 1 9 HELIX 18 18 THR B 27 LEU B 51 1 25 HELIX 19 19 ASN B 53 GLU B 73 1 21 HELIX 20 20 THR B 78 TYR B 85 1 8 HELIX 21 21 ASP B 93 GLN B 112 1 20 HELIX 22 22 LEU B 113 ASN B 115 5 3 HELIX 23 23 CYS B 119 SER B 132 1 14 HELIX 24 24 GLY B 160 HIS B 176 1 17 HELIX 25 25 ASP B 182 HIS B 198 1 17 HELIX 26 26 GLY B 203 GLN B 219 1 17 HELIX 27 27 LEU B 229 HIS B 236 1 8 HELIX 28 28 HIS B 236 GLN B 251 1 16 HELIX 29 29 GLU B 252 LEU B 293 1 42 HELIX 30 30 SER B 298 GLN B 308 1 11 HELIX 31 31 ARG B 312 SER B 319 1 8 HELIX 32 32 LYS B 323 ILE B 337 1 15 HELIX 33 33 HIS B 353 LYS B 362 1 10 SHEET 1 A 2 LEU A 145 THR A 146 0 SHEET 2 A 2 VAL A 153 TYR A 155 -1 O TYR A 155 N LEU A 145 SHEET 1 B 3 TYR A 310 ARG A 312 0 SHEET 2 B 3 LEU A 350 VAL A 352 -1 O PHE A 351 N CYS A 311 SHEET 3 B 3 GLU A 341 VAL A 343 -1 N VAL A 343 O LEU A 350 SHEET 1 C 2 LEU B 145 THR B 146 0 SHEET 2 C 2 VAL B 153 TYR B 155 -1 O ILE B 154 N LEU B 145 SHEET 1 D 3 TYR B 310 CYS B 311 0 SHEET 2 D 3 GLU B 348 VAL B 352 -1 O PHE B 351 N CYS B 311 SHEET 3 D 3 GLU B 341 SER B 345 -1 N SER B 345 O GLU B 348 LINK C PRO A 94 N MSE A 95 1555 1555 1.34 LINK C MSE A 95 N THR A 96 1555 1555 1.33 LINK C GLN A 134 N MSE A 135 1555 1555 1.32 LINK C MSE A 135 N ASP A 136 1555 1555 1.33 LINK C LYS A 186 N MSE A 187 1555 1555 1.32 LINK C MSE A 187 N ALA A 188 1555 1555 1.35 LINK C ALA A 188 N MSE A 189 1555 1555 1.33 LINK C MSE A 189 N ALA A 190 1555 1555 1.32 LINK C LEU A 359 N MSE A 360 1555 1555 1.32 LINK C MSE A 360 N THR A 361 1555 1555 1.33 LINK C MSE B 1 N GLU B 2 1555 1555 1.33 LINK C PRO B 94 N MSE B 95 1555 1555 1.34 LINK C MSE B 95 N THR B 96 1555 1555 1.33 LINK C GLN B 134 N MSE B 135 1555 1555 1.33 LINK C MSE B 135 N ASP B 136 1555 1555 1.33 LINK C LYS B 186 N MSE B 187 1555 1555 1.32 LINK C MSE B 187 N ALA B 188 1555 1555 1.33 LINK C ALA B 188 N MSE B 189 1555 1555 1.33 LINK C MSE B 189 N ALA B 190 1555 1555 1.32 LINK C LEU B 359 N MSE B 360 1555 1555 1.32 LINK C MSE B 360 N THR B 361 1555 1555 1.33 SITE 1 AC1 7 LEU A 145 TYR A 192 TYR A 241 LEU A 244 SITE 2 AC1 7 LEU A 245 THR A 248 MSE B 1 CRYST1 71.210 80.300 141.000 90.00 90.00 90.00 P 21 21 21 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 0.014043 0.000000 0.000000 0.00000 SCALE2 0.000000 0.012453 0.000000 0.00000 SCALE3 0.000000 0.000000 0.007092 0.00000