HEADER TRANSCRIPTION REGULATOR 24-NOV-08 3FD3 TITLE STRUCTURE OF THE C-TERMINAL DOMAINS OF A LYSR FAMILY PROTEIN FROM TITLE 2 AGROBACTERIUM TUMEFACIENS STR. C58. COMPND MOL_ID: 1; COMPND 2 MOLECULE: CHROMOSOME REPLICATION INITIATION INHIBITOR PROTEIN; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: RESIDUES 94-301; COMPND 5 SYNONYM: TRANSCRIPTIONAL REGULATOR, LYSR FAMILY; COMPND 6 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: AGROBACTERIUM TUMEFACIENS STR.; SOURCE 3 ORGANISM_TAXID: 176299; SOURCE 4 STRAIN: C58; SOURCE 5 GENE: AGR_C_1691, ATU0928, ORIC; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: MODIFIED P11 KEYWDS AGROBACTERIUM TUMEFACIENS, STRUCTURAL GENOMICS, LYSR, PSI-2, PROTEIN KEYWDS 2 STRUCTURE INITIATIVE, MIDWEST CENTER FOR STRUCTURAL GENOMICS, MCSG, KEYWDS 3 DNA-BINDING, TRANSCRIPTION, TRANSCRIPTION REGULATION, TRANSCRIPTION KEYWDS 4 REGULATOR EXPDTA X-RAY DIFFRACTION AUTHOR M.E.CUFF,X.XU,H.ZENG,A.EDWARDS,A.SAVCHENKO,A.JOACHIMIAK,MIDWEST AUTHOR 2 CENTER FOR STRUCTURAL GENOMICS (MCSG) REVDAT 4 27-DEC-23 3FD3 1 REMARK HETSYN LINK REVDAT 3 01-NOV-17 3FD3 1 REMARK REVDAT 2 13-JUL-11 3FD3 1 VERSN REVDAT 1 03-FEB-09 3FD3 0 JRNL AUTH M.E.CUFF,X.XU,H.ZENG,A.EDWARDS,A.SAVCHENKO,A.JOACHIMIAK JRNL TITL STRUCTURE OF THE C-TERMINAL DOMAINS OF A LYSR FAMILY PROTEIN JRNL TITL 2 FROM AGROBACTERIUM TUMEFACIENS STR. C58. JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 1.70 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 WITH PHASES REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.70 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 37.16 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 98.2 REMARK 3 NUMBER OF REFLECTIONS : 30737 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) : 0.171 REMARK 3 R VALUE (WORKING SET) : 0.169 REMARK 3 FREE R VALUE : 0.200 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 1550 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) : 1.70 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.74 REMARK 3 REFLECTION IN BIN (WORKING SET) : 1767 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 81.69 REMARK 3 BIN R VALUE (WORKING SET) : 0.2740 REMARK 3 BIN FREE R VALUE SET COUNT : 80 REMARK 3 BIN FREE R VALUE : 0.2740 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 1572 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 40 REMARK 3 SOLVENT ATOMS : 236 REMARK 3 REMARK 3 B VALUES. REMARK 3 B VALUE TYPE : LIKELY RESIDUAL REMARK 3 FROM WILSON PLOT (A**2) : 25.60 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 26.75 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 1.49000 REMARK 3 B22 (A**2) : 1.49000 REMARK 3 B33 (A**2) : -2.97000 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): 0.091 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.091 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.060 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 4.123 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.968 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.961 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 1819 ; 0.014 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): 1225 ; 0.001 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 2494 ; 1.381 ; 1.976 REMARK 3 BOND ANGLES OTHERS (DEGREES): 2911 ; 0.831 ; 3.005 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 240 ; 5.874 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 77 ;34.188 ;22.338 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 274 ;12.793 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 18 ;21.629 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 276 ; 0.081 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 2097 ; 0.006 ; 0.021 REMARK 3 GENERAL PLANES OTHERS (A): 387 ; 0.002 ; 0.020 REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): NULL ; NULL ; NULL 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): NULL ; NULL ; NULL 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): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): NULL ; NULL ; NULL 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): 1131 ; 0.760 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 453 ; 0.218 ; 1.500 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 1839 ; 1.389 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 688 ; 2.234 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 654 ; 3.503 ; 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 : 2 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 112 A 184 REMARK 3 RESIDUE RANGE : A 286 A 318 REMARK 3 ORIGIN FOR THE GROUP (A): 25.2238 14.8350 15.9164 REMARK 3 T TENSOR REMARK 3 T11: 0.0148 T22: 0.0709 REMARK 3 T33: 0.0106 T12: -0.0112 REMARK 3 T13: -0.0070 T23: 0.0026 REMARK 3 L TENSOR REMARK 3 L11: 1.1326 L22: 1.2435 REMARK 3 L33: 2.4099 L12: -0.3423 REMARK 3 L13: 0.5069 L23: -0.1748 REMARK 3 S TENSOR REMARK 3 S11: 0.0175 S12: -0.0535 S13: 0.0566 REMARK 3 S21: 0.0110 S22: -0.0382 S23: -0.0827 REMARK 3 S31: -0.0532 S32: 0.1446 S33: 0.0207 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 185 A 285 REMARK 3 ORIGIN FOR THE GROUP (A): 24.5179 3.3905 -8.8982 REMARK 3 T TENSOR REMARK 3 T11: 0.1047 T22: 0.0424 REMARK 3 T33: 0.0223 T12: 0.0654 REMARK 3 T13: -0.0196 T23: -0.0167 REMARK 3 L TENSOR REMARK 3 L11: 1.2012 L22: 1.6913 REMARK 3 L33: 3.4801 L12: 0.1066 REMARK 3 L13: 0.4836 L23: 0.6556 REMARK 3 S TENSOR REMARK 3 S11: 0.0452 S12: 0.0673 S13: -0.0809 REMARK 3 S21: 0.0605 S22: 0.0608 S23: -0.1669 REMARK 3 S31: 0.4152 S32: 0.2653 S33: -0.1061 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 HYDROGENS HAVE BEEN ADDED IN THE RIDING POSITIONS REMARK 3 U VALUES : RESIDUAL ONLY REMARK 4 REMARK 4 3FD3 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 29-NOV-08. REMARK 100 THE DEPOSITION ID IS D_1000050439. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 07-AUG-08 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 : APS REMARK 200 BEAMLINE : 19-ID REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.97935,0.97948 REMARK 200 MONOCHROMATOR : SAGITALLY FOCUSED SI(111) REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 315 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO, HKL-3000 REMARK 200 DATA SCALING SOFTWARE : SCALEPACK, HKL-3000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 30842 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.700 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : -3.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 98.3 REMARK 200 DATA REDUNDANCY : 14.80 REMARK 200 R MERGE (I) : 0.07400 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 51.0000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.70 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.73 REMARK 200 COMPLETENESS FOR SHELL (%) : 78.4 REMARK 200 DATA REDUNDANCY IN SHELL : 10.20 REMARK 200 R MERGE FOR SHELL (I) : 0.40500 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: MLPHARE, DM 6.0, HKL-3000, SHELXD, SOLVE, RESOLVE, REMARK 200 CCP4 REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 58.84 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.99 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.1M SODIUM CITRATE PH5.6, 0.1M REMARK 280 AMMONIUM ACETATE, 15% PEG 4000, 1/800 (W/W) ENDOPROTEINASE GLU-C REMARK 280 V8, VAPOR DIFFUSION, TEMPERATURE 295K 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,Z+1/2 REMARK 290 3555 -Y+1/2,X+1/2,Z+3/4 REMARK 290 4555 Y+1/2,-X+1/2,Z+1/4 REMARK 290 5555 -X+1/2,Y+1/2,-Z+3/4 REMARK 290 6555 X+1/2,-Y+1/2,-Z+1/4 REMARK 290 7555 Y,X,-Z REMARK 290 8555 -Y,-X,-Z+1/2 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 94.01350 REMARK 290 SMTRY1 3 0.000000 -1.000000 0.000000 26.80650 REMARK 290 SMTRY2 3 1.000000 0.000000 0.000000 26.80650 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 141.02025 REMARK 290 SMTRY1 4 0.000000 1.000000 0.000000 26.80650 REMARK 290 SMTRY2 4 -1.000000 0.000000 0.000000 26.80650 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 47.00675 REMARK 290 SMTRY1 5 -1.000000 0.000000 0.000000 26.80650 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 26.80650 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 141.02025 REMARK 290 SMTRY1 6 1.000000 0.000000 0.000000 26.80650 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 26.80650 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 47.00675 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 94.01350 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 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 2470 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 17860 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -14.0 KCAL/MOL 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 350 BIOMT1 2 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT2 2 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT3 2 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 319 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 OD1 ASP A 246 O HOH A 417 2.11 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 THR A 126 -89.39 -122.19 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 CA A 1 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HOH A 5 O REMARK 620 2 LEU A 260 O 97.4 REMARK 620 3 EDO A 322 O2 81.7 146.8 REMARK 620 4 HOH A 408 O 163.3 99.2 84.2 REMARK 620 N 1 2 3 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CA A 1 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE P33 A 320 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PG4 A 321 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO A 322 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: APC7761 RELATED DB: TARGETDB DBREF 3FD3 A 112 319 UNP A9CJQ0 A9CJQ0_AGRT5 94 301 SEQRES 1 A 208 ARG VAL THR LEU ASN ILE ALA THR ASN ALA ASP SER LEU SEQRES 2 A 208 GLY THR TRP PHE LEU ASP ALA VAL SER LYS PHE THR GLY SEQRES 3 A 208 GLY SER ASP TYR LEU VAL ASN ILE ALA VAL ASP ASP GLN SEQRES 4 A 208 ASP HIS THR VAL GLU TRP LEU ARG GLY GLY ARG VAL LEU SEQRES 5 A 208 ALA ALA VAL THR ALA HIS ASP LYS PRO VAL GLN GLY CYS SEQRES 6 A 208 ARG VAL THR PRO LEU GLY VAL LEU ARG TYR HIS ALA THR SEQRES 7 A 208 ALA SER PRO ASP PHE MSE ALA ARG HIS PHE ALA ASP GLY SEQRES 8 A 208 VAL THR PRO ALA ALA LEU ALA ARG ALA PRO GLY LEU THR SEQRES 9 A 208 PHE ASN GLN LYS ASP ARG LEU GLN ALA SER TRP ILE ARG SEQRES 10 A 208 THR ALA LEU GLY GLU ASP VAL SER TYR PRO THR HIS TRP SEQRES 11 A 208 LEU PRO SER THR ASP GLY PHE VAL LYS ALA SER LEU ALA SEQRES 12 A 208 GLY MSE GLY TRP GLY LEU ASN PRO VAL GLN LEU VAL ALA SEQRES 13 A 208 GLU HIS LEU ALA ALA GLY ARG LEU VAL GLU LEU MSE PRO SEQRES 14 A 208 GLY THR PRO LEU ASP ILE PRO LEU TYR TRP GLN VAL ASN SEQRES 15 A 208 ARG LEU ALA ALA GLU ARG LEU ALA GLY LEU THR ALA ASN SEQRES 16 A 208 MSE VAL GLY THR ALA ARG VAL VAL LEU MSE PRO VAL GLY MODRES 3FD3 MSE A 195 MET SELENOMETHIONINE MODRES 3FD3 MSE A 256 MET SELENOMETHIONINE MODRES 3FD3 MSE A 279 MET SELENOMETHIONINE MODRES 3FD3 MSE A 307 MET SELENOMETHIONINE MODRES 3FD3 MSE A 316 MET SELENOMETHIONINE HET MSE A 195 8 HET MSE A 256 8 HET MSE A 279 16 HET MSE A 307 16 HET MSE A 316 16 HET CA A 1 1 HET P33 A 320 22 HET PG4 A 321 13 HET EDO A 322 4 HETNAM MSE SELENOMETHIONINE HETNAM CA CALCIUM ION HETNAM P33 3,6,9,12,15,18-HEXAOXAICOSANE-1,20-DIOL HETNAM PG4 TETRAETHYLENE GLYCOL HETNAM EDO 1,2-ETHANEDIOL HETSYN P33 HEPTAETHYLENE GLYCOL; PEG330 HETSYN EDO ETHYLENE GLYCOL FORMUL 1 MSE 5(C5 H11 N O2 SE) FORMUL 2 CA CA 2+ FORMUL 3 P33 C14 H30 O8 FORMUL 4 PG4 C8 H18 O5 FORMUL 5 EDO C2 H6 O2 FORMUL 6 HOH *236(H2 O) HELIX 1 1 ASN A 120 GLY A 125 1 6 HELIX 2 2 TRP A 127 GLY A 138 1 12 HELIX 3 3 HIS A 152 GLY A 159 1 8 HELIX 4 4 SER A 191 PHE A 199 1 9 HELIX 5 5 THR A 204 ALA A 209 1 6 HELIX 6 6 ARG A 221 GLY A 232 1 12 HELIX 7 7 SER A 244 ALA A 254 1 11 HELIX 8 8 VAL A 263 ALA A 272 1 10 HELIX 9 9 LEU A 300 LEU A 315 1 16 SHEET 1 A 6 LEU A 142 VAL A 147 0 SHEET 2 A 6 THR A 114 THR A 119 1 N LEU A 115 O LEU A 142 SHEET 3 A 6 ALA A 164 THR A 167 1 O ALA A 164 N ALA A 118 SHEET 4 A 6 LEU A 284 VAL A 292 -1 O TYR A 289 N THR A 167 SHEET 5 A 6 ARG A 177 ALA A 190 -1 N LEU A 184 O ILE A 286 SHEET 6 A 6 GLY A 259 PRO A 262 -1 O GLY A 259 N THR A 189 SHEET 1 B 6 LEU A 142 VAL A 147 0 SHEET 2 B 6 THR A 114 THR A 119 1 N LEU A 115 O LEU A 142 SHEET 3 B 6 ALA A 164 THR A 167 1 O ALA A 164 N ALA A 118 SHEET 4 B 6 LEU A 284 VAL A 292 -1 O TYR A 289 N THR A 167 SHEET 5 B 6 ARG A 177 ALA A 190 -1 N LEU A 184 O ILE A 286 SHEET 6 B 6 VAL A 276 GLU A 277 -1 O VAL A 276 N ALA A 190 SHEET 1 C 2 GLY A 213 THR A 215 0 SHEET 2 C 2 THR A 239 TRP A 241 1 O HIS A 240 N GLY A 213 LINK C PHE A 194 N MSE A 195 1555 1555 1.34 LINK C MSE A 195 N ALA A 196 1555 1555 1.33 LINK C GLY A 255 N MSE A 256 1555 1555 1.33 LINK C MSE A 256 N GLY A 257 1555 1555 1.33 LINK C LEU A 278 N AMSE A 279 1555 1555 1.33 LINK C LEU A 278 N BMSE A 279 1555 1555 1.33 LINK C AMSE A 279 N PRO A 280 1555 1555 1.34 LINK C BMSE A 279 N PRO A 280 1555 1555 1.34 LINK C ASN A 306 N AMSE A 307 1555 1555 1.34 LINK C ASN A 306 N BMSE A 307 1555 1555 1.33 LINK C AMSE A 307 N VAL A 308 1555 1555 1.33 LINK C BMSE A 307 N VAL A 308 1555 1555 1.34 LINK C LEU A 315 N AMSE A 316 1555 1555 1.33 LINK C LEU A 315 N BMSE A 316 1555 1555 1.33 LINK C AMSE A 316 N PRO A 317 1555 1555 1.35 LINK C BMSE A 316 N PRO A 317 1555 1555 1.35 LINK CA CA A 1 O HOH A 5 1555 1555 2.41 LINK CA CA A 1 O LEU A 260 1555 1555 2.41 LINK CA CA A 1 O2 EDO A 322 1555 1555 2.34 LINK CA CA A 1 O HOH A 408 1555 1555 2.29 SITE 1 AC1 5 HOH A 5 PHE A 248 LEU A 260 EDO A 322 SITE 2 AC1 5 HOH A 408 SITE 1 AC2 9 HOH A 100 VAL A 113 GLY A 160 LEU A 163 SITE 2 AC2 9 ASN A 293 ALA A 296 ARG A 299 HOH A 425 SITE 3 AC2 9 HOH A 432 SITE 1 AC3 4 ASN A 144 ARG A 161 TRP A 241 HOH A 423 SITE 1 AC4 7 CA A 1 ASP A 122 ASP A 220 LEU A 222 SITE 2 AC4 7 HOH A 408 HOH A 443 HOH A 444 CRYST1 53.613 53.613 188.027 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 0.018652 0.000000 0.000000 0.00000 SCALE2 0.000000 0.018652 0.000000 0.00000 SCALE3 0.000000 0.000000 0.005318 0.00000