HEADER HYDROLASE 16-DEC-09 3L31 TITLE CRYSTAL STRUCTURE OF THE CBS AND DRTGG DOMAINS OF THE REGULATORY TITLE 2 REGION OF CLOSTRIDIUM PERFRINGENS PYROPHOSPHATASE COMPLEXED WITH THE TITLE 3 INHIBITOR, AMP COMPND MOL_ID: 1; COMPND 2 MOLECULE: PROBABLE MANGANASE-DEPENDENT INORGANIC PYROPHOSPHATASE; COMPND 3 CHAIN: A, B; COMPND 4 FRAGMENT: REGULATORY REGION (UNP RESIDUES 66-306); COMPND 5 EC: 3.6.1.1; COMPND 6 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: CLOSTRIDIUM PERFRINGENS; SOURCE 3 ORGANISM_TAXID: 195102; SOURCE 4 STRAIN: STR. 13; SOURCE 5 GENE: CPE2055; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21-CODONPLUS(DE3)-RIL; SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PET36B KEYWDS CLOSTRIDIUM PERFRINGENS, FAMILY II, INORGANIC, PYROPHOSPHATASE, CBS KEYWDS 2 DOMAIN, BATEMAN DOMAIN, AMP, DRTGG, HYDROLASE EXPDTA X-RAY DIFFRACTION AUTHOR H.TUOMINEN,A.SALMINEN,E.OKSANEN,J.JAMSEN,O.HEIKKILA,L.LEHTIO, AUTHOR 2 N.N.MAGRETOVA,A.GOLDMAN,A.A.BAYKOV,R.LAHTI REVDAT 2 20-MAR-24 3L31 1 REMARK SEQADV REVDAT 1 21-APR-10 3L31 0 JRNL AUTH H.TUOMINEN,A.SALMINEN,E.OKSANEN,J.JAMSEN,O.HEIKKILA, JRNL AUTH 2 L.LEHTIO,N.N.MAGRETOVA,A.GOLDMAN,A.A.BAYKOV,R.LAHTI JRNL TITL CRYSTAL STRUCTURES OF THE CBS AND DRTGG DOMAINS OF THE JRNL TITL 2 REGULATORY REGION OF CLOSTRIDIUMPERFRINGENS PYROPHOSPHATASE JRNL TITL 3 COMPLEXED WITH THE INHIBITOR, AMP, AND ACTIVATOR, JRNL TITL 4 DIADENOSINE TETRAPHOSPHATE. JRNL REF J.MOL.BIOL. 2010 JRNL REFN ESSN 1089-8638 JRNL PMID 20303981 JRNL DOI 10.1016/J.JMB.2010.03.019 REMARK 2 REMARK 2 RESOLUTION. 2.30 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.4.0078 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) : 2.30 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 20.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.0 REMARK 3 NUMBER OF REFLECTIONS : 23426 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) : 0.219 REMARK 3 R VALUE (WORKING SET) : 0.216 REMARK 3 FREE R VALUE : 0.277 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.300 REMARK 3 FREE R VALUE TEST SET COUNT : 1305 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) : 2.30 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.36 REMARK 3 REFLECTION IN BIN (WORKING SET) : 1685 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 98.67 REMARK 3 BIN R VALUE (WORKING SET) : 0.3250 REMARK 3 BIN FREE R VALUE SET COUNT : 100 REMARK 3 BIN FREE R VALUE : 0.4620 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 3533 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 46 REMARK 3 SOLVENT ATOMS : 97 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 52.71 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 42.62 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 3.55000 REMARK 3 B22 (A**2) : -1.02000 REMARK 3 B33 (A**2) : -2.52000 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): 0.332 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.259 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.190 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 17.613 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.954 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.931 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 3653 ; 0.018 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): 2348 ; 0.001 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 4972 ; 1.540 ; 1.992 REMARK 3 BOND ANGLES OTHERS (DEGREES): 5841 ; 1.259 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 467 ; 6.318 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 143 ;36.003 ;26.364 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 660 ;16.697 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 12 ;22.310 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 615 ; 0.083 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 3987 ; 0.007 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 617 ; 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): 2335 ; 0.895 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 932 ; 0.182 ; 1.500 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 3798 ; 1.680 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1318 ; 2.351 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1174 ; 3.771 ; 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 66 A 299 REMARK 3 ORIGIN FOR THE GROUP (A): -14.7390 -1.9500 28.2430 REMARK 3 T TENSOR REMARK 3 T11: 0.1292 T22: 0.3011 REMARK 3 T33: 0.1919 T12: -0.0082 REMARK 3 T13: -0.0211 T23: -0.0094 REMARK 3 L TENSOR REMARK 3 L11: 0.0541 L22: 5.4788 REMARK 3 L33: 1.4734 L12: 0.5047 REMARK 3 L13: -0.1005 L23: 0.0619 REMARK 3 S TENSOR REMARK 3 S11: 0.0224 S12: 0.0873 S13: 0.0733 REMARK 3 S21: 0.3198 S22: 0.0194 S23: -0.1087 REMARK 3 S31: 0.2153 S32: -0.0269 S33: -0.0417 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 68 B 298 REMARK 3 ORIGIN FOR THE GROUP (A): -14.1360 -1.6010 4.0330 REMARK 3 T TENSOR REMARK 3 T11: 0.3300 T22: 0.2716 REMARK 3 T33: 0.1300 T12: -0.0136 REMARK 3 T13: 0.0034 T23: 0.0643 REMARK 3 L TENSOR REMARK 3 L11: 0.0290 L22: 4.5149 REMARK 3 L33: 1.7944 L12: 0.0037 REMARK 3 L13: -0.2273 L23: -0.2446 REMARK 3 S TENSOR REMARK 3 S11: -0.0554 S12: -0.0817 S13: 0.1652 REMARK 3 S21: -0.5659 S22: 0.1119 S23: -0.0589 REMARK 3 S31: 0.4253 S32: -0.0148 S33: -0.0565 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: HYDROGENS HAVE BEEN ADDED IN THE RIDING REMARK 3 POSITIONS U VALUES: WITH TLS ADDED REMARK 4 REMARK 4 3L31 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 24-DEC-09. REMARK 100 THE DEPOSITION ID IS D_1000056769. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 02-DEC-06 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 8.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : ESRF REMARK 200 BEAMLINE : ID14-4 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.975501 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM Q315R REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : XSCALE, XDS REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 24771 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.300 REMARK 200 RESOLUTION RANGE LOW (A) : 20.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : -3.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.0 REMARK 200 DATA REDUNDANCY : 7.300 REMARK 200 R MERGE (I) : 0.08900 REMARK 200 R SYM (I) : 0.08900 REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 16.4100 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.30 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.45 REMARK 200 COMPLETENESS FOR SHELL (%) : 98.7 REMARK 200 DATA REDUNDANCY IN SHELL : 5.40 REMARK 200 R MERGE FOR SHELL (I) : 0.28900 REMARK 200 R SYM FOR SHELL (I) : 0.28900 REMARK 200 <I/SIGMA(I)> FOR SHELL : 5.300 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: SAD REMARK 200 SOFTWARE USED: SHELX, SHELXD REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 49.48 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.43 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 15% PEG 4000, 100MM TRIS/HCL PH 8.5, REMARK 280 20MM MGCL2, 0.15MM AMP, VAPOR DIFFUSION, HANGING DROP, REMARK 280 TEMPERATURE 298K 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 29.48000 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 58.18000 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 39.80500 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 58.18000 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 29.48000 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 39.80500 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: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 3640 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 21130 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -17.0 KCAL/MOL 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 MET A 65 REMARK 465 ILE A 300 REMARK 465 SER A 301 REMARK 465 THR A 302 REMARK 465 HIS A 303 REMARK 465 LYS A 304 REMARK 465 LYS A 305 REMARK 465 LYS A 306 REMARK 465 LEU A 307 REMARK 465 GLU A 308 REMARK 465 HIS A 309 REMARK 465 HIS A 310 REMARK 465 HIS A 311 REMARK 465 HIS A 312 REMARK 465 HIS A 313 REMARK 465 HIS A 314 REMARK 465 HIS A 315 REMARK 465 HIS A 316 REMARK 465 MET B 65 REMARK 465 VAL B 66 REMARK 465 LYS B 67 REMARK 465 LEU B 299 REMARK 465 ILE B 300 REMARK 465 SER B 301 REMARK 465 THR B 302 REMARK 465 HIS B 303 REMARK 465 LYS B 304 REMARK 465 LYS B 305 REMARK 465 LYS B 306 REMARK 465 LEU B 307 REMARK 465 GLU B 308 REMARK 465 HIS B 309 REMARK 465 HIS B 310 REMARK 465 HIS B 311 REMARK 465 HIS B 312 REMARK 465 HIS B 313 REMARK 465 HIS B 314 REMARK 465 HIS B 315 REMARK 465 HIS B 316 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 VAL A 66 CG1 CG2 REMARK 470 ILE A 127 CG1 CG2 CD1 REMARK 470 TRP A 128 CG CD1 CD2 NE1 CE2 CE3 CZ2 REMARK 470 TRP A 128 CZ3 CH2 REMARK 470 GLU A 216 CG CD OE1 OE2 REMARK 470 GLU A 267 CG CD OE1 OE2 REMARK 470 LEU B 68 CG CD1 CD2 REMARK 470 LYS B 69 CG CD CE NZ REMARK 470 ILE B 127 CG1 CG2 CD1 REMARK 470 TRP B 128 CG CD1 CD2 NE1 CE2 CE3 CZ2 REMARK 470 TRP B 128 CZ3 CH2 REMARK 470 GLU B 267 CG CD OE1 OE2 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 LYS A 67 150.49 -48.30 REMARK 500 ASN A 131 -0.05 84.87 REMARK 500 ALA A 168 72.05 -69.15 REMARK 500 ASP A 189 31.27 -86.90 REMARK 500 LEU B 73 164.68 -48.80 REMARK 500 LYS B 77 47.78 -95.93 REMARK 500 ALA B 172 -72.02 -36.34 REMARK 500 GLU B 181 127.99 -33.59 REMARK 500 ASP B 189 44.71 -89.67 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 AMP A 1 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE AMP B 1 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 3L2B RELATED DB: PDB REMARK 900 THE SAME PROTEIN COMPLEXED WITH DIADENOSINE TETRAPHOSPHATE. DBREF 3L31 A 66 306 UNP Q8XIQ9 Q8XIQ9_CLOPE 66 306 DBREF 3L31 B 66 306 UNP Q8XIQ9 Q8XIQ9_CLOPE 66 306 SEQADV 3L31 MET A 65 UNP Q8XIQ9 INITIATING METHIONINE SEQADV 3L31 LEU A 307 UNP Q8XIQ9 EXPRESSION TAG SEQADV 3L31 GLU A 308 UNP Q8XIQ9 EXPRESSION TAG SEQADV 3L31 HIS A 309 UNP Q8XIQ9 EXPRESSION TAG SEQADV 3L31 HIS A 310 UNP Q8XIQ9 EXPRESSION TAG SEQADV 3L31 HIS A 311 UNP Q8XIQ9 EXPRESSION TAG SEQADV 3L31 HIS A 312 UNP Q8XIQ9 EXPRESSION TAG SEQADV 3L31 HIS A 313 UNP Q8XIQ9 EXPRESSION TAG SEQADV 3L31 HIS A 314 UNP Q8XIQ9 EXPRESSION TAG SEQADV 3L31 HIS A 315 UNP Q8XIQ9 EXPRESSION TAG SEQADV 3L31 HIS A 316 UNP Q8XIQ9 EXPRESSION TAG SEQADV 3L31 MET B 65 UNP Q8XIQ9 INITIATING METHIONINE SEQADV 3L31 LEU B 307 UNP Q8XIQ9 EXPRESSION TAG SEQADV 3L31 GLU B 308 UNP Q8XIQ9 EXPRESSION TAG SEQADV 3L31 HIS B 309 UNP Q8XIQ9 EXPRESSION TAG SEQADV 3L31 HIS B 310 UNP Q8XIQ9 EXPRESSION TAG SEQADV 3L31 HIS B 311 UNP Q8XIQ9 EXPRESSION TAG SEQADV 3L31 HIS B 312 UNP Q8XIQ9 EXPRESSION TAG SEQADV 3L31 HIS B 313 UNP Q8XIQ9 EXPRESSION TAG SEQADV 3L31 HIS B 314 UNP Q8XIQ9 EXPRESSION TAG SEQADV 3L31 HIS B 315 UNP Q8XIQ9 EXPRESSION TAG SEQADV 3L31 HIS B 316 UNP Q8XIQ9 EXPRESSION TAG SEQRES 1 A 252 MET VAL LYS LEU LYS VAL GLU ASP LEU GLU MET ASP LYS SEQRES 2 A 252 ILE ALA PRO LEU ALA PRO GLU VAL SER LEU LYS MET ALA SEQRES 3 A 252 TRP ASN ILE MET ARG ASP LYS ASN LEU LYS SER ILE PRO SEQRES 4 A 252 VAL ALA ASP GLY ASN ASN HIS LEU LEU GLY MET LEU SER SEQRES 5 A 252 THR SER ASN ILE THR ALA THR TYR MET ASP ILE TRP ASP SEQRES 6 A 252 SER ASN ILE LEU ALA LYS SER ALA THR SER LEU ASP ASN SEQRES 7 A 252 ILE LEU ASP THR LEU SER ALA GLU ALA GLN ASN ILE ASN SEQRES 8 A 252 GLU GLU ARG LYS VAL PHE PRO GLY LYS VAL VAL VAL ALA SEQRES 9 A 252 ALA MET GLN ALA GLU SER LEU LYS GLU PHE ILE SER GLU SEQRES 10 A 252 GLY ASP ILE ALA ILE ALA GLY ASP ARG ALA GLU ILE GLN SEQRES 11 A 252 ALA GLU LEU ILE GLU LEU LYS VAL SER LEU LEU ILE VAL SEQRES 12 A 252 THR GLY GLY HIS THR PRO SER LYS GLU ILE ILE GLU LEU SEQRES 13 A 252 ALA LYS LYS ASN ASN ILE THR VAL ILE THR THR PRO HIS SEQRES 14 A 252 ASP SER PHE THR ALA SER ARG LEU ILE VAL GLN SER LEU SEQRES 15 A 252 PRO VAL ASP TYR VAL MET THR LYS ASP ASN LEU VAL ALA SEQRES 16 A 252 VAL SER THR ASP ASP LEU VAL GLU ASP VAL LYS VAL THR SEQRES 17 A 252 MET SER GLU THR ARG TYR SER ASN TYR PRO VAL ILE ASP SEQRES 18 A 252 GLU ASN ASN LYS VAL VAL GLY SER ILE ALA ARG PHE HIS SEQRES 19 A 252 LEU ILE SER THR HIS LYS LYS LYS LEU GLU HIS HIS HIS SEQRES 20 A 252 HIS HIS HIS HIS HIS SEQRES 1 B 252 MET VAL LYS LEU LYS VAL GLU ASP LEU GLU MET ASP LYS SEQRES 2 B 252 ILE ALA PRO LEU ALA PRO GLU VAL SER LEU LYS MET ALA SEQRES 3 B 252 TRP ASN ILE MET ARG ASP LYS ASN LEU LYS SER ILE PRO SEQRES 4 B 252 VAL ALA ASP GLY ASN ASN HIS LEU LEU GLY MET LEU SER SEQRES 5 B 252 THR SER ASN ILE THR ALA THR TYR MET ASP ILE TRP ASP SEQRES 6 B 252 SER ASN ILE LEU ALA LYS SER ALA THR SER LEU ASP ASN SEQRES 7 B 252 ILE LEU ASP THR LEU SER ALA GLU ALA GLN ASN ILE ASN SEQRES 8 B 252 GLU GLU ARG LYS VAL PHE PRO GLY LYS VAL VAL VAL ALA SEQRES 9 B 252 ALA MET GLN ALA GLU SER LEU LYS GLU PHE ILE SER GLU SEQRES 10 B 252 GLY ASP ILE ALA ILE ALA GLY ASP ARG ALA GLU ILE GLN SEQRES 11 B 252 ALA GLU LEU ILE GLU LEU LYS VAL SER LEU LEU ILE VAL SEQRES 12 B 252 THR GLY GLY HIS THR PRO SER LYS GLU ILE ILE GLU LEU SEQRES 13 B 252 ALA LYS LYS ASN ASN ILE THR VAL ILE THR THR PRO HIS SEQRES 14 B 252 ASP SER PHE THR ALA SER ARG LEU ILE VAL GLN SER LEU SEQRES 15 B 252 PRO VAL ASP TYR VAL MET THR LYS ASP ASN LEU VAL ALA SEQRES 16 B 252 VAL SER THR ASP ASP LEU VAL GLU ASP VAL LYS VAL THR SEQRES 17 B 252 MET SER GLU THR ARG TYR SER ASN TYR PRO VAL ILE ASP SEQRES 18 B 252 GLU ASN ASN LYS VAL VAL GLY SER ILE ALA ARG PHE HIS SEQRES 19 B 252 LEU ILE SER THR HIS LYS LYS LYS LEU GLU HIS HIS HIS SEQRES 20 B 252 HIS HIS HIS HIS HIS HET AMP A 1 23 HET AMP B 1 23 HETNAM AMP ADENOSINE MONOPHOSPHATE FORMUL 3 AMP 2(C10 H14 N5 O7 P) FORMUL 5 HOH *97(H2 O) HELIX 1 1 LYS A 69 LEU A 73 5 5 HELIX 2 2 SER A 86 ASP A 96 1 11 HELIX 3 3 THR A 117 ASP A 126 1 10 HELIX 4 4 ASN A 131 SER A 136 1 6 HELIX 5 5 SER A 139 LEU A 147 1 9 HELIX 6 6 GLN A 171 PHE A 178 5 8 HELIX 7 7 ARG A 190 LEU A 200 1 11 HELIX 8 8 SER A 214 ASN A 225 1 12 HELIX 9 9 ASP A 234 ILE A 242 1 9 HELIX 10 10 VAL A 243 LEU A 246 5 4 HELIX 11 11 PRO A 247 MET A 252 1 6 HELIX 12 12 LEU A 265 GLU A 275 1 11 HELIX 13 13 ALA A 295 LEU A 299 5 5 HELIX 14 14 SER B 86 LYS B 97 1 12 HELIX 15 15 THR B 117 ASP B 126 1 10 HELIX 16 16 ASN B 131 SER B 136 1 6 HELIX 17 17 SER B 139 LEU B 147 1 9 HELIX 18 18 GLN B 171 GLU B 173 5 3 HELIX 19 19 SER B 174 ILE B 179 1 6 HELIX 20 20 ARG B 190 LEU B 200 1 11 HELIX 21 21 SER B 214 ASN B 224 1 11 HELIX 22 22 ASP B 234 VAL B 243 1 10 HELIX 23 23 GLN B 244 LEU B 246 5 3 HELIX 24 24 PRO B 247 MET B 252 1 6 HELIX 25 25 LEU B 265 GLU B 275 1 11 SHEET 1 A 2 SER A 101 ALA A 105 0 SHEET 2 A 2 LEU A 111 SER A 116 -1 O LEU A 112 N VAL A 104 SHEET 1 B 5 GLU A 150 ASN A 153 0 SHEET 2 B 5 THR A 227 THR A 230 -1 O THR A 230 N GLU A 150 SHEET 3 B 5 LEU A 204 VAL A 207 1 N LEU A 205 O ILE A 229 SHEET 4 B 5 ILE A 184 ALA A 187 1 N ALA A 185 O ILE A 206 SHEET 5 B 5 VAL A 165 VAL A 167 1 N VAL A 166 O ILE A 184 SHEET 1 C 3 VAL A 260 SER A 261 0 SHEET 2 C 3 TYR A 281 ILE A 284 1 O PRO A 282 N VAL A 260 SHEET 3 C 3 VAL A 290 ILE A 294 -1 O ILE A 294 N TYR A 281 SHEET 1 D 2 SER B 101 ALA B 105 0 SHEET 2 D 2 LEU B 111 SER B 116 -1 O GLY B 113 N VAL B 104 SHEET 1 E 5 GLU B 150 ASN B 153 0 SHEET 2 E 5 THR B 227 THR B 230 -1 O THR B 230 N GLU B 150 SHEET 3 E 5 LEU B 204 VAL B 207 1 N VAL B 207 O ILE B 229 SHEET 4 E 5 ILE B 184 ALA B 187 1 N ALA B 185 O ILE B 206 SHEET 5 E 5 VAL B 165 VAL B 167 1 N VAL B 166 O ILE B 186 SHEET 1 F 3 VAL B 260 SER B 261 0 SHEET 2 F 3 TYR B 281 ILE B 284 1 O PRO B 282 N VAL B 260 SHEET 3 F 3 VAL B 290 ILE B 294 -1 O GLY B 292 N VAL B 283 SITE 1 AC1 14 HOH A 53 HOH A 57 MET A 114 SER A 116 SITE 2 AC1 14 SER A 118 ASN A 119 THR A 253 ASN A 256 SITE 3 AC1 14 LEU A 257 VAL A 258 TYR A 278 SER A 279 SITE 4 AC1 14 ASN A 280 LYS B 100 SITE 1 AC2 14 LYS A 100 HOH B 58 MET B 114 SER B 116 SITE 2 AC2 14 SER B 118 ASN B 119 THR B 253 ASN B 256 SITE 3 AC2 14 VAL B 258 ARG B 277 TYR B 278 SER B 279 SITE 4 AC2 14 ASN B 280 PRO B 282 CRYST1 58.960 79.610 116.360 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 0.016961 0.000000 0.000000 0.00000 SCALE2 0.000000 0.012561 0.000000 0.00000 SCALE3 0.000000 0.000000 0.008594 0.00000