HEADER STRUCTURAL GENOMICS, UNKNOWN FUNCTION 25-NOV-08 3FDJ TITLE THE STRUCTURE OF A DEGV FAMILY PROTEIN FROM EUBACTERIUM ELIGENS. COMPND MOL_ID: 1; COMPND 2 MOLECULE: DEGV FAMILY PROTEIN; COMPND 3 CHAIN: A; COMPND 4 ENGINEERED: YES; COMPND 5 OTHER_DETAILS: ASSEMBLY.20070618:0-0:0-0 COMPND 6 (ZVNW5VJFOAACMF8NLOPRFTMWH60:01:1-275) GENE SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: EUBACTERIUM ELIGENS; SOURCE 3 ORGANISM_TAXID: 39485; SOURCE 4 GENE: ASSEMBLY.20070618:0-0:0-0 (ZVNW5VJFOAACMF8NLOPRFTMWH60:01:1- SOURCE 5 275); 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: PMCSG19 KEYWDS DEGV, GUT MICROBIOME, STRUCTURAL GENOMICS, PSI-2, PROTEIN STRUCTURE KEYWDS 2 INITIATIVE, MIDWEST CENTER FOR STRUCTURAL GENOMICS, MCSG, UNKNOWN KEYWDS 3 FUNCTION EXPDTA X-RAY DIFFRACTION AUTHOR M.E.CUFF,R.HENDRICKS,L.FREEMAN,A.JOACHIMIAK,MIDWEST CENTER FOR AUTHOR 2 STRUCTURAL GENOMICS (MCSG) REVDAT 5 27-DEC-23 3FDJ 1 REMARK DBREF LINK REVDAT 4 01-NOV-17 3FDJ 1 REMARK REVDAT 3 13-JUL-11 3FDJ 1 VERSN REVDAT 2 09-MAR-10 3FDJ 1 HET HETATM HETNAM REVDAT 1 03-FEB-09 3FDJ 0 JRNL AUTH M.E.CUFF,R.HENDRICKS,L.FREEMAN,A.JOACHIMIAK JRNL TITL THE STRUCTURE OF A DEGV FAMILY PROTEIN FROM EUBACTERIUM JRNL TITL 2 ELIGENS. JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 1.80 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) : 1.80 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 48.91 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.5 REMARK 3 NUMBER OF REFLECTIONS : 29849 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) : 0.162 REMARK 3 R VALUE (WORKING SET) : 0.160 REMARK 3 FREE R VALUE : 0.191 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 1512 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) : 1.80 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.85 REMARK 3 REFLECTION IN BIN (WORKING SET) : 1990 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 97.19 REMARK 3 BIN R VALUE (WORKING SET) : 0.2260 REMARK 3 BIN FREE R VALUE SET COUNT : 123 REMARK 3 BIN FREE R VALUE : 0.2560 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2099 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 41 REMARK 3 SOLVENT ATOMS : 317 REMARK 3 REMARK 3 B VALUES. REMARK 3 B VALUE TYPE : LIKELY RESIDUAL REMARK 3 FROM WILSON PLOT (A**2) : 19.10 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 15.94 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.08000 REMARK 3 B22 (A**2) : -0.08000 REMARK 3 B33 (A**2) : 0.15000 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): 0.110 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.105 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.063 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 4.447 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.962 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.949 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 2243 ; 0.014 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): 1536 ; 0.001 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 3016 ; 1.374 ; 1.992 REMARK 3 BOND ANGLES OTHERS (DEGREES): 3714 ; 0.870 ; 3.003 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 293 ; 5.665 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 93 ;29.853 ;24.839 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 413 ;14.955 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 13 ;15.538 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 340 ; 0.082 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 2516 ; 0.005 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 424 ; 0.001 ; 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): 1416 ; 0.734 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 589 ; 0.214 ; 1.500 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 2271 ; 1.452 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 827 ; 2.840 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 745 ; 4.364 ; 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 : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A -3 A 148 REMARK 3 ORIGIN FOR THE GROUP (A): 14.2854 -2.5082 35.2832 REMARK 3 T TENSOR REMARK 3 T11: 0.0637 T22: 0.0098 REMARK 3 T33: 0.0158 T12: 0.0104 REMARK 3 T13: -0.0225 T23: -0.0073 REMARK 3 L TENSOR REMARK 3 L11: 1.0077 L22: 1.5618 REMARK 3 L33: 0.7317 L12: -0.1169 REMARK 3 L13: -0.0428 L23: -0.0494 REMARK 3 S TENSOR REMARK 3 S11: -0.0094 S12: 0.0844 S13: -0.0332 REMARK 3 S21: -0.1608 S22: -0.0253 S23: 0.1279 REMARK 3 S31: 0.0360 S32: -0.0181 S33: 0.0347 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 149 A 275 REMARK 3 ORIGIN FOR THE GROUP (A): 13.9021 18.2778 38.2921 REMARK 3 T TENSOR REMARK 3 T11: 0.0685 T22: 0.0005 REMARK 3 T33: 0.0071 T12: 0.0031 REMARK 3 T13: -0.0118 T23: -0.0006 REMARK 3 L TENSOR REMARK 3 L11: 1.2873 L22: 1.7889 REMARK 3 L33: 0.8239 L12: -0.2108 REMARK 3 L13: -0.0358 L23: -0.0079 REMARK 3 S TENSOR REMARK 3 S11: 0.0131 S12: 0.0009 S13: 0.0785 REMARK 3 S21: -0.0210 S22: -0.0238 S23: -0.0044 REMARK 3 S31: -0.0867 S32: 0.0027 S33: 0.0107 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 3FDJ COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 01-DEC-08. REMARK 100 THE DEPOSITION ID IS D_1000050455. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 19-OCT-08 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 5 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) : 0.97942,0.97929 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 : 30039 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.800 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 (%) : 99.9 REMARK 200 DATA REDUNDANCY : 7.700 REMARK 200 R MERGE (I) : 0.13200 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 19.8730 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.80 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.83 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : 7.80 REMARK 200 R MERGE FOR SHELL (I) : 0.80400 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 (%): 50.87 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.50 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.2M SODIUM ACETATE, 20% PEG 3350, REMARK 280 VAPOR DIFFUSION, SITTING DROP, TEMPERATURE 277K, PH 5 REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 41 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+1/4 REMARK 290 4555 Y+1/2,-X+1/2,Z+3/4 REMARK 290 5555 -X+1/2,Y+1/2,-Z+1/4 REMARK 290 6555 X+1/2,-Y+1/2,-Z+3/4 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 93.27900 REMARK 290 SMTRY1 3 0.000000 -1.000000 0.000000 28.72250 REMARK 290 SMTRY2 3 1.000000 0.000000 0.000000 28.72250 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 46.63950 REMARK 290 SMTRY1 4 0.000000 1.000000 0.000000 28.72250 REMARK 290 SMTRY2 4 -1.000000 0.000000 0.000000 28.72250 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 139.91850 REMARK 290 SMTRY1 5 -1.000000 0.000000 0.000000 28.72250 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 28.72250 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 46.63950 REMARK 290 SMTRY1 6 1.000000 0.000000 0.000000 28.72250 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 28.72250 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 139.91850 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 93.27900 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: MONOMERIC REMARK 350 SOFTWARE USED: PISA 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 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 SER A -2 REMARK 465 ASN A -1 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 CYS A 199 CB CYS A 199 SG -0.125 REMARK 500 CYS A 226 CB CYS A 226 SG -0.102 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 10 -3.59 72.49 REMARK 500 ASP A 36 -164.92 -127.43 REMARK 500 SER A 114 -146.84 -161.08 REMARK 500 ASN A 230 58.05 -143.49 REMARK 500 GLU A 264 165.10 68.90 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 NA A 279 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 LYS A 157 O REMARK 620 2 ALA A 176 O 79.3 REMARK 620 3 ILE A 181 O 102.6 109.0 REMARK 620 4 HOH A 307 O 98.1 164.2 86.8 REMARK 620 5 HOH A 311 O 85.8 79.2 169.0 85.1 REMARK 620 N 1 2 3 4 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE P6G A 276 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO A 277 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PG4 A 278 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NA A 279 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ACY A 280 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: APC21124 RELATED DB: TARGETDB DBREF 3FDJ A -2 275 PDB 3FDJ 3FDJ -2 275 SEQRES 1 A 278 SER ASN ALA MSE ARG LEU VAL ALA ASP SER ALA CYS ASP SEQRES 2 A 278 ILE LYS GLU LEU ARG GLY MSE VAL PHE LYS ALA VAL PRO SEQRES 3 A 278 LEU THR ILE SER THR ASP ASN GLU GLU PHE CYS ASP ASP SEQRES 4 A 278 GLY GLN LEU ASP ILE HIS ARG MSE LEU ASP ILE LEU GLU SEQRES 5 A 278 LYS HIS LYS GLY ARG SER TYR THR ALA CYS PRO GLY ILE SEQRES 6 A 278 ASP ALA TRP LEU GLU ALA PHE GLY ASP ASP ASP GLU ILE SEQRES 7 A 278 PHE VAL VAL THR ILE THR ALA GLY MSE SER GLY THR TYR SEQRES 8 A 278 ASN SER ALA MSE ALA ALA ARG ALA VAL TYR LEU GLU GLU SEQRES 9 A 278 HIS PRO GLN ALA LYS VAL ARG VAL ILE ASP SER LYS SER SEQRES 10 A 278 THR GLY PRO GLN MSE ARG ILE ILE LEU GLU GLN LEU GLN SEQRES 11 A 278 GLN MSE ILE GLU GLU GLY LYS LYS PHE GLU GLU ILE ASP SEQRES 12 A 278 GLY ALA ILE ASP ALA TYR MSE GLN LYS THR ARG LEU PHE SEQRES 13 A 278 CYS SER LEU LYS SER LEU HIS ASN LEU ALA GLN ASN GLY SEQRES 14 A 278 ARG VAL SER LYS VAL VAL ALA SER ALA ALA GLU VAL LEU SEQRES 15 A 278 GLY ILE SER VAL ILE GLY THR ALA SER SER HIS GLY THR SEQRES 16 A 278 LEU GLU ALA ILE GLY LYS CYS ARG GLY ASP LYS LYS LEU SEQRES 17 A 278 LEU VAL LYS LEU GLN ALA LEU LEU ASP ASP ALA GLY TYR SEQRES 18 A 278 GLU GLY GLY LYS LEU ARG ILE CYS HIS VAL GLU ASN GLU SEQRES 19 A 278 ALA LEU ALA ASP LYS ILE ALA ASP MSE ILE LYS GLN ALA SEQRES 20 A 278 TYR GLY THR THR ASP VAL CYS VAL TYR LYS ALA GLY GLY SEQRES 21 A 278 LEU CYS SER TYR TYR ALA GLU ARG GLY GLY ILE ILE LEU SEQRES 22 A 278 SER CYS GLU THR LYS MODRES 3FDJ MSE A 1 MET SELENOMETHIONINE MODRES 3FDJ MSE A 17 MET SELENOMETHIONINE MODRES 3FDJ MSE A 44 MET SELENOMETHIONINE MODRES 3FDJ MSE A 84 MET SELENOMETHIONINE MODRES 3FDJ MSE A 92 MET SELENOMETHIONINE MODRES 3FDJ MSE A 119 MET SELENOMETHIONINE MODRES 3FDJ MSE A 129 MET SELENOMETHIONINE MODRES 3FDJ MSE A 147 MET SELENOMETHIONINE MODRES 3FDJ MSE A 240 MET SELENOMETHIONINE HET MSE A 1 8 HET MSE A 17 16 HET MSE A 44 8 HET MSE A 84 8 HET MSE A 92 8 HET MSE A 119 8 HET MSE A 129 8 HET MSE A 147 8 HET MSE A 240 8 HET P6G A 276 19 HET EDO A 277 4 HET PG4 A 278 13 HET NA A 279 1 HET ACY A 280 4 HETNAM MSE SELENOMETHIONINE HETNAM P6G HEXAETHYLENE GLYCOL HETNAM EDO 1,2-ETHANEDIOL HETNAM PG4 TETRAETHYLENE GLYCOL HETNAM NA SODIUM ION HETNAM ACY ACETIC ACID HETSYN P6G POLYETHYLENE GLYCOL PEG400 HETSYN EDO ETHYLENE GLYCOL FORMUL 1 MSE 9(C5 H11 N O2 SE) FORMUL 2 P6G C12 H26 O7 FORMUL 3 EDO C2 H6 O2 FORMUL 4 PG4 C8 H18 O5 FORMUL 5 NA NA 1+ FORMUL 6 ACY C2 H4 O2 FORMUL 7 HOH *317(H2 O) HELIX 1 1 ALA A 8 ASP A 10 5 3 HELIX 2 2 ASP A 40 LYS A 50 1 11 HELIX 3 3 GLY A 61 GLY A 70 1 10 HELIX 4 4 GLY A 86 GLU A 100 1 15 HELIX 5 5 GLY A 116 GLU A 132 1 17 HELIX 6 6 LYS A 135 GLN A 148 1 14 HELIX 7 7 LEU A 159 ASN A 165 1 7 HELIX 8 8 SER A 169 ALA A 175 1 7 HELIX 9 9 ALA A 176 VAL A 178 5 3 HELIX 10 10 GLY A 201 GLY A 217 1 17 HELIX 11 11 ASN A 230 GLY A 246 1 17 HELIX 12 12 GLY A 256 GLU A 264 1 9 SHEET 1 A 4 VAL A 18 VAL A 22 0 SHEET 2 A 4 ARG A 2 ASP A 6 1 N LEU A 3 O VAL A 18 SHEET 3 A 4 GLU A 74 THR A 79 1 O VAL A 78 N VAL A 4 SHEET 4 A 4 LYS A 106 ASP A 111 1 O ILE A 110 N VAL A 77 SHEET 1 B 3 GLU A 32 CYS A 34 0 SHEET 2 B 3 THR A 25 SER A 27 -1 N ILE A 26 O PHE A 33 SHEET 3 B 3 TYR A 56 ALA A 58 -1 O TYR A 56 N SER A 27 SHEET 1 C 6 LEU A 193 ARG A 200 0 SHEET 2 C 6 ILE A 181 ALA A 187 -1 N ILE A 184 O ILE A 196 SHEET 3 C 6 THR A 150 LEU A 156 -1 N LEU A 156 O VAL A 183 SHEET 4 C 6 ILE A 268 GLU A 273 -1 O LEU A 270 N PHE A 153 SHEET 5 C 6 LEU A 223 HIS A 227 -1 N ARG A 224 O SER A 271 SHEET 6 C 6 VAL A 250 LYS A 254 1 O CYS A 251 N ILE A 225 LINK C ALA A 0 N MSE A 1 1555 1555 1.33 LINK C MSE A 1 N ARG A 2 1555 1555 1.32 LINK C GLY A 16 N AMSE A 17 1555 1555 1.33 LINK C GLY A 16 N BMSE A 17 1555 1555 1.33 LINK C AMSE A 17 N VAL A 18 1555 1555 1.33 LINK C BMSE A 17 N VAL A 18 1555 1555 1.33 LINK C ARG A 43 N MSE A 44 1555 1555 1.33 LINK C MSE A 44 N LEU A 45 1555 1555 1.33 LINK C GLY A 83 N MSE A 84 1555 1555 1.33 LINK C MSE A 84 N SER A 85 1555 1555 1.33 LINK C ALA A 91 N MSE A 92 1555 1555 1.33 LINK C MSE A 92 N ALA A 93 1555 1555 1.33 LINK C GLN A 118 N MSE A 119 1555 1555 1.33 LINK C MSE A 119 N ARG A 120 1555 1555 1.34 LINK C GLN A 128 N MSE A 129 1555 1555 1.33 LINK C MSE A 129 N ILE A 130 1555 1555 1.32 LINK C TYR A 146 N MSE A 147 1555 1555 1.33 LINK C MSE A 147 N GLN A 148 1555 1555 1.32 LINK C ASP A 239 N MSE A 240 1555 1555 1.34 LINK C MSE A 240 N ILE A 241 1555 1555 1.33 LINK O LYS A 157 NA NA A 279 1555 1555 2.57 LINK O ALA A 176 NA NA A 279 1555 1555 2.43 LINK O ILE A 181 NA NA A 279 1555 1555 2.36 LINK NA NA A 279 O HOH A 307 1555 1555 2.13 LINK NA NA A 279 O HOH A 311 1555 1555 2.28 SITE 1 AC1 9 LEU A 24 THR A 57 ILE A 80 MSE A 84 SITE 2 AC1 9 SER A 85 LEU A 152 ARG A 167 TYR A 262 SITE 3 AC1 9 HOH A 312 SITE 1 AC2 2 ARG A 151 ALA A 187 SITE 1 AC3 7 SER A 27 ASP A 29 TYR A 56 GLY A 166 SITE 2 AC3 7 ARG A 167 HOH A 494 HOH A 520 SITE 1 AC4 6 LYS A 157 ALA A 176 VAL A 178 ILE A 181 SITE 2 AC4 6 HOH A 307 HOH A 311 SITE 1 AC5 5 ARG A 108 ASP A 144 ILE A 181 ARG A 200 SITE 2 AC5 5 HOH A 493 CRYST1 57.445 57.445 186.558 90.00 90.00 90.00 P 41 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 0.017408 0.000000 0.000000 0.00000 SCALE2 0.000000 0.017408 0.000000 0.00000 SCALE3 0.000000 0.000000 0.005360 0.00000