HEADER HYDROLASE/PROTEIN BINDING 12-OCT-11 3VIV TITLE 1510-N MEMBRANE-BOUND STOMATIN-SPECIFIC PROTEASE K138A MUTANT IN TITLE 2 COMPLEX WITH A SUBSTRATE PEPTIDE COMPND MOL_ID: 1; COMPND 2 MOLECULE: 441AA LONG HYPOTHETICAL NFED PROTEIN; COMPND 3 CHAIN: A, B; COMPND 4 FRAGMENT: RESIDUES 16-236; COMPND 5 SYNONYM: 1510-N MEMBRANE PROTEASE; COMPND 6 ENGINEERED: YES; COMPND 7 MUTATION: YES; COMPND 8 MOL_ID: 2; COMPND 9 MOLECULE: PH STOMATIN PH1511; COMPND 10 CHAIN: C; COMPND 11 FRAGMENT: RESIDUES 234-243; COMPND 12 SYNONYM: UNCHARACTERIZED PROTEIN PH1511; COMPND 13 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: PYROCOCCUS HORIKOSHII; SOURCE 3 ORGANISM_TAXID: 70601; SOURCE 4 STRAIN: OT3; SOURCE 5 GENE: PH1510; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 9 EXPRESSION_SYSTEM_PLASMID: PET21B; SOURCE 10 MOL_ID: 2; SOURCE 11 SYNTHETIC: YES; SOURCE 12 ORGANISM_SCIENTIFIC: PYROCOCCUS HORIKOSHII OT3; SOURCE 13 ORGANISM_TAXID: 70601; SOURCE 14 OTHER_DETAILS: SYNTHETIC PEPTIDE KEYWDS PROTEIN-PEPTIDE COMPLEX, ALPHA / BETA MOTIF, PROTEASE, MEMBRANE KEYWDS 2 PROTEIN STOMATIN, HYDROLASE-PROTEIN BINDING COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR H.YOKOYAMA,I.MATSUI,S.FUJII REVDAT 3 08-NOV-23 3VIV 1 REMARK SEQADV REVDAT 2 22-NOV-17 3VIV 1 REMARK REVDAT 1 23-MAY-12 3VIV 0 JRNL AUTH H.YOKOYAMA,N.TAKIZAWA,D.KOBAYASHI,I.MATSUI,S.FUJII JRNL TITL CRYSTAL STRUCTURE OF A MEMBRANE STOMATIN-SPECIFIC PROTEASE JRNL TITL 2 IN COMPLEX WITH A SUBSTRATE PEPTIDE JRNL REF BIOCHEMISTRY V. 51 3872 2012 JRNL REFN ISSN 0006-2960 JRNL PMID 22475127 JRNL DOI 10.1021/BI300098K REMARK 1 REMARK 1 REFERENCE 1 REMARK 1 AUTH H.YOKOYAMA,S.HAMAMATSU,S.FUJII,I.MATSUI REMARK 1 TITL NOVEL DIMER STRUCTURE OF A MEMBRANE-BOUND PROTEASE WITH A REMARK 1 TITL 2 CATALYTIC SER-LYS DYAD AND ITS LINKAGE TO STOMATIN. REMARK 1 REF J.SYNCHROTRON RADIAT. V. 15 254 2008 REMARK 1 REFN ISSN 0909-0495 REMARK 1 PMID 18421152 REMARK 1 DOI 10.1107/S0909049507068471 REMARK 1 REFERENCE 2 REMARK 1 AUTH H.YOKOYAMA,E.MATSUI,T.AKIBA,K.HARATA,I.MATSUI REMARK 1 TITL MOLECULAR STRUCTURE OF A NOVEL MEMBRANE PROTEASE SPECIFIC REMARK 1 TITL 2 FOR A STOMATIN HOMOLOG FROM THE HYPERTHERMOPHILIC ARCHAEON REMARK 1 TITL 3 PYROCOCCUS HORIKOSHII. REMARK 1 REF J.MOL.BIOL. V. 358 1152 2006 REMARK 1 REFN ISSN 0022-2836 REMARK 1 PMID 16574150 REMARK 1 DOI 10.1016/J.JMB.2006.02.052 REMARK 2 REMARK 2 RESOLUTION. 2.25 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.5.0088 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) : 2.25 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 19.74 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 98.3 REMARK 3 NUMBER OF REFLECTIONS : 27366 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) : 0.216 REMARK 3 R VALUE (WORKING SET) : 0.212 REMARK 3 FREE R VALUE : 0.248 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 10.000 REMARK 3 FREE R VALUE TEST SET COUNT : 2738 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) : 2.25 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.31 REMARK 3 REFLECTION IN BIN (WORKING SET) : 1810 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 99.80 REMARK 3 BIN R VALUE (WORKING SET) : 0.2530 REMARK 3 BIN FREE R VALUE SET COUNT : 195 REMARK 3 BIN FREE R VALUE : 0.2970 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 3435 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 28 REMARK 3 SOLVENT ATOMS : 144 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 52.00 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 52.39 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.05000 REMARK 3 B22 (A**2) : 0.05000 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): NULL REMARK 3 ESU BASED ON FREE R VALUE (A): 0.222 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.148 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 13.102 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.946 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.929 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 3520 ; 0.013 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 4776 ; 1.338 ; 1.985 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 443 ; 6.027 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 139 ;37.231 ;24.820 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 602 ;15.945 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 16 ;22.471 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 563 ; 0.084 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 2597 ; 0.007 ; 0.021 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL 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): 2222 ; 0.589 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 3609 ; 1.151 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1298 ; 2.018 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1167 ; 3.372 ; 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 19 A 237 REMARK 3 ORIGIN FOR THE GROUP (A): 25.5740 4.8580 19.2260 REMARK 3 T TENSOR REMARK 3 T11: 0.0605 T22: 0.0147 REMARK 3 T33: 0.0586 T12: 0.0081 REMARK 3 T13: 0.0232 T23: 0.0067 REMARK 3 L TENSOR REMARK 3 L11: 2.6823 L22: 4.2580 REMARK 3 L33: 2.6177 L12: 1.5119 REMARK 3 L13: 0.2078 L23: -0.5481 REMARK 3 S TENSOR REMARK 3 S11: -0.1518 S12: 0.0211 S13: -0.1288 REMARK 3 S21: -0.1145 S22: 0.0323 S23: -0.4268 REMARK 3 S31: -0.2076 S32: -0.0520 S33: 0.1196 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 19 B 237 REMARK 3 ORIGIN FOR THE GROUP (A): 26.0440 42.5350 20.7320 REMARK 3 T TENSOR REMARK 3 T11: 0.1779 T22: 0.0213 REMARK 3 T33: 0.1074 T12: -0.0242 REMARK 3 T13: -0.0945 T23: -0.0103 REMARK 3 L TENSOR REMARK 3 L11: 2.9340 L22: 2.9546 REMARK 3 L33: 3.5506 L12: -0.1398 REMARK 3 L13: -0.4639 L23: 0.6453 REMARK 3 S TENSOR REMARK 3 S11: -0.2636 S12: -0.0258 S13: 0.2396 REMARK 3 S21: -0.4582 S22: 0.1346 S23: 0.0531 REMARK 3 S31: 0.0171 S32: 0.0702 S33: 0.1290 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : MASK REMARK 3 PARAMETERS FOR MASK CALCULATION REMARK 3 VDW PROBE RADIUS : 1.40 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: RESIDUAL ONLY REMARK 4 REMARK 4 3VIV COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 19-OCT-11. REMARK 100 THE DEPOSITION ID IS D_1000095099. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 19-DEC-10 REMARK 200 TEMPERATURE (KELVIN) : 95 REMARK 200 PH : 7.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : PHOTON FACTORY REMARK 200 BEAMLINE : AR-NW12A REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.0000 REMARK 200 MONOCHROMATOR : SI(111) REMARK 200 OPTICS : MIRROR REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 210R REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO, HKL-2000 REMARK 200 DATA SCALING SOFTWARE : SCALEPACK, HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 27554 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.250 REMARK 200 RESOLUTION RANGE LOW (A) : 20.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 98.7 REMARK 200 DATA REDUNDANCY : 10.60 REMARK 200 R MERGE (I) : 0.05400 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 67.9000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.25 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.33 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : 0.34100 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 9.800 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: MOLREP REMARK 200 STARTING MODEL: PDB ENTRY 3BPP REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 55.22 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.75 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 1.0M IMIDAZOLE, PH 7.5, VAPOR REMARK 280 DIFFUSION, HANGING DROP, TEMPERATURE 293K 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 45.88400 REMARK 290 SMTRY1 3 0.000000 -1.000000 0.000000 55.73650 REMARK 290 SMTRY2 3 1.000000 0.000000 0.000000 55.73650 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 68.82600 REMARK 290 SMTRY1 4 0.000000 1.000000 0.000000 55.73650 REMARK 290 SMTRY2 4 -1.000000 0.000000 0.000000 55.73650 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 22.94200 REMARK 290 SMTRY1 5 -1.000000 0.000000 0.000000 55.73650 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 55.73650 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 68.82600 REMARK 290 SMTRY1 6 1.000000 0.000000 0.000000 55.73650 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 55.73650 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 22.94200 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 45.88400 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: TRIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TRIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 3990 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 18900 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -22.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B, C 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 CL CL A 304 LIES ON A SPECIAL POSITION. 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 15 REMARK 465 SER A 16 REMARK 465 PRO A 17 REMARK 465 ILE A 18 REMARK 465 GLU A 238 REMARK 465 HIS A 239 REMARK 465 HIS A 240 REMARK 465 HIS A 241 REMARK 465 HIS A 242 REMARK 465 HIS A 243 REMARK 465 HIS A 244 REMARK 465 MET B 15 REMARK 465 SER B 16 REMARK 465 PRO B 17 REMARK 465 ILE B 18 REMARK 465 GLU B 238 REMARK 465 HIS B 239 REMARK 465 HIS B 240 REMARK 465 HIS B 241 REMARK 465 HIS B 242 REMARK 465 HIS B 243 REMARK 465 HIS B 244 REMARK 465 MET C 242 REMARK 465 GLU C 243 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 120 CB CYS A 120 SG -0.130 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 SER A 97 -127.40 54.93 REMARK 500 ALA A 119 73.99 53.27 REMARK 500 ASP A 236 -35.92 -37.79 REMARK 500 ALA B 95 74.95 -118.79 REMARK 500 SER B 97 -133.06 57.98 REMARK 500 ALA B 119 74.10 56.83 REMARK 500 GLN B 128 -70.68 -54.86 REMARK 500 ASN B 129 71.90 -110.36 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 GOL A 301 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE IMD A 302 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE IMD A 303 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CL A 304 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL B 301 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE IMD B 302 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 2DEO RELATED DB: PDB REMARK 900 THE SAME PROTEIN (WILD-TYPE) REMARK 900 RELATED ID: 3BPP RELATED DB: PDB REMARK 900 THE SAME PROTEIN (K138A MUTANT) DBREF 3VIV A 16 236 UNP O59179 O59179_PYRHO 16 236 DBREF 3VIV B 16 236 UNP O59179 O59179_PYRHO 16 236 DBREF 3VIV C 234 243 UNP O59180 Y1511_PYRHO 234 243 SEQADV 3VIV MET A 15 UNP O59179 EXPRESSION TAG SEQADV 3VIV ALA A 138 UNP O59179 LYS 138 ENGINEERED MUTATION SEQADV 3VIV LEU A 237 UNP O59179 EXPRESSION TAG SEQADV 3VIV GLU A 238 UNP O59179 EXPRESSION TAG SEQADV 3VIV HIS A 239 UNP O59179 EXPRESSION TAG SEQADV 3VIV HIS A 240 UNP O59179 EXPRESSION TAG SEQADV 3VIV HIS A 241 UNP O59179 EXPRESSION TAG SEQADV 3VIV HIS A 242 UNP O59179 EXPRESSION TAG SEQADV 3VIV HIS A 243 UNP O59179 EXPRESSION TAG SEQADV 3VIV HIS A 244 UNP O59179 EXPRESSION TAG SEQADV 3VIV MET B 15 UNP O59179 EXPRESSION TAG SEQADV 3VIV ALA B 138 UNP O59179 LYS 138 ENGINEERED MUTATION SEQADV 3VIV LEU B 237 UNP O59179 EXPRESSION TAG SEQADV 3VIV GLU B 238 UNP O59179 EXPRESSION TAG SEQADV 3VIV HIS B 239 UNP O59179 EXPRESSION TAG SEQADV 3VIV HIS B 240 UNP O59179 EXPRESSION TAG SEQADV 3VIV HIS B 241 UNP O59179 EXPRESSION TAG SEQADV 3VIV HIS B 242 UNP O59179 EXPRESSION TAG SEQADV 3VIV HIS B 243 UNP O59179 EXPRESSION TAG SEQADV 3VIV HIS B 244 UNP O59179 EXPRESSION TAG SEQRES 1 A 230 MET SER PRO ILE LEU ALA LYS ASN ILE VAL TYR VAL ALA SEQRES 2 A 230 GLN ILE LYS GLY GLN ILE THR SER TYR THR TYR ASP GLN SEQRES 3 A 230 PHE ASP ARG TYR ILE THR ILE ALA GLU GLN ASP ASN ALA SEQRES 4 A 230 GLU ALA ILE ILE ILE GLU LEU ASP THR PRO GLY GLY ARG SEQRES 5 A 230 ALA ASP ALA MET MET ASN ILE VAL GLN ARG ILE GLN GLN SEQRES 6 A 230 SER LYS ILE PRO VAL ILE ILE TYR VAL TYR PRO PRO GLY SEQRES 7 A 230 ALA SER ALA ALA SER ALA GLY THR TYR ILE ALA LEU GLY SEQRES 8 A 230 SER HIS LEU ILE ALA MET ALA PRO GLY THR SER ILE GLY SEQRES 9 A 230 ALA CYS ARG PRO ILE LEU GLY TYR SER GLN ASN GLY SER SEQRES 10 A 230 ILE ILE GLU ALA PRO PRO ALA ILE THR ASN TYR PHE ILE SEQRES 11 A 230 ALA TYR ILE LYS SER LEU ALA GLN GLU SER GLY ARG ASN SEQRES 12 A 230 ALA THR ILE ALA GLU GLU PHE ILE THR LYS ASP LEU SER SEQRES 13 A 230 LEU THR PRO GLU GLU ALA LEU LYS TYR GLY VAL ILE GLU SEQRES 14 A 230 VAL VAL ALA ARG ASP ILE ASN GLU LEU LEU LYS LYS SER SEQRES 15 A 230 ASN GLY MET LYS THR LYS ILE PRO VAL ASN GLY ARG TYR SEQRES 16 A 230 VAL THR LEU ASN PHE THR ASN VAL GLU VAL ARG TYR LEU SEQRES 17 A 230 ALA PRO SER PHE LYS ASP LYS LEU ILE SER TYR ILE THR SEQRES 18 A 230 ASP LEU GLU HIS HIS HIS HIS HIS HIS SEQRES 1 B 230 MET SER PRO ILE LEU ALA LYS ASN ILE VAL TYR VAL ALA SEQRES 2 B 230 GLN ILE LYS GLY GLN ILE THR SER TYR THR TYR ASP GLN SEQRES 3 B 230 PHE ASP ARG TYR ILE THR ILE ALA GLU GLN ASP ASN ALA SEQRES 4 B 230 GLU ALA ILE ILE ILE GLU LEU ASP THR PRO GLY GLY ARG SEQRES 5 B 230 ALA ASP ALA MET MET ASN ILE VAL GLN ARG ILE GLN GLN SEQRES 6 B 230 SER LYS ILE PRO VAL ILE ILE TYR VAL TYR PRO PRO GLY SEQRES 7 B 230 ALA SER ALA ALA SER ALA GLY THR TYR ILE ALA LEU GLY SEQRES 8 B 230 SER HIS LEU ILE ALA MET ALA PRO GLY THR SER ILE GLY SEQRES 9 B 230 ALA CYS ARG PRO ILE LEU GLY TYR SER GLN ASN GLY SER SEQRES 10 B 230 ILE ILE GLU ALA PRO PRO ALA ILE THR ASN TYR PHE ILE SEQRES 11 B 230 ALA TYR ILE LYS SER LEU ALA GLN GLU SER GLY ARG ASN SEQRES 12 B 230 ALA THR ILE ALA GLU GLU PHE ILE THR LYS ASP LEU SER SEQRES 13 B 230 LEU THR PRO GLU GLU ALA LEU LYS TYR GLY VAL ILE GLU SEQRES 14 B 230 VAL VAL ALA ARG ASP ILE ASN GLU LEU LEU LYS LYS SER SEQRES 15 B 230 ASN GLY MET LYS THR LYS ILE PRO VAL ASN GLY ARG TYR SEQRES 16 B 230 VAL THR LEU ASN PHE THR ASN VAL GLU VAL ARG TYR LEU SEQRES 17 B 230 ALA PRO SER PHE LYS ASP LYS LEU ILE SER TYR ILE THR SEQRES 18 B 230 ASP LEU GLU HIS HIS HIS HIS HIS HIS SEQRES 1 C 10 ASN VAL ILE VAL LEU MET LEU PRO MET GLU HET GOL A 301 6 HET IMD A 302 5 HET IMD A 303 5 HET CL A 304 1 HET GOL B 301 6 HET IMD B 302 5 HETNAM GOL GLYCEROL HETNAM IMD IMIDAZOLE HETNAM CL CHLORIDE ION HETSYN GOL GLYCERIN; PROPANE-1,2,3-TRIOL FORMUL 4 GOL 2(C3 H8 O3) FORMUL 5 IMD 3(C3 H5 N2 1+) FORMUL 7 CL CL 1- FORMUL 10 HOH *144(H2 O) HELIX 1 1 THR A 34 ASP A 51 1 18 HELIX 2 2 ALA A 67 GLN A 79 1 13 HELIX 3 3 SER A 97 GLY A 105 1 9 HELIX 4 4 PRO A 136 SER A 154 1 19 HELIX 5 5 ASN A 157 LYS A 167 1 11 HELIX 6 6 THR A 172 TYR A 179 1 8 HELIX 7 7 ASP A 188 ASN A 197 1 10 HELIX 8 8 SER A 225 LEU A 237 1 13 HELIX 9 9 THR B 34 ASP B 51 1 18 HELIX 10 10 ARG B 66 SER B 80 1 15 HELIX 11 11 SER B 97 GLY B 105 1 9 HELIX 12 12 PRO B 136 SER B 154 1 19 HELIX 13 13 ASN B 157 LYS B 167 1 11 HELIX 14 14 THR B 172 TYR B 179 1 8 HELIX 15 15 ASP B 188 ASN B 197 1 10 HELIX 16 16 SER B 225 LEU B 237 1 13 SHEET 1 A 6 VAL A 184 VAL A 185 0 SHEET 2 A 6 LEU A 108 MET A 111 1 N MET A 111 O VAL A 184 SHEET 3 A 6 VAL A 84 VAL A 88 1 N VAL A 88 O ALA A 110 SHEET 4 A 6 ALA A 55 ASP A 61 1 N ILE A 58 O TYR A 87 SHEET 5 A 6 ILE A 23 LYS A 30 1 N ALA A 27 O GLU A 59 SHEET 6 A 6 GLU A 218 TYR A 221 1 O ARG A 220 N VAL A 24 SHEET 1 B 4 GLY A 65 ARG A 66 0 SHEET 2 B 4 VAL C 235 ILE C 236 1 O ILE C 236 N GLY A 65 SHEET 3 B 4 PRO A 122 TYR A 126 1 N ILE A 123 O VAL C 235 SHEET 4 B 4 ILE A 132 GLU A 134 -1 O ILE A 133 N GLY A 125 SHEET 1 C 3 SER A 94 ALA A 96 0 SHEET 2 C 3 SER A 116 GLY A 118 1 O SER A 116 N ALA A 95 SHEET 3 C 3 SER A 170 LEU A 171 -1 O LEU A 171 N ILE A 117 SHEET 1 D 6 VAL B 184 VAL B 185 0 SHEET 2 D 6 LEU B 108 MET B 111 1 N MET B 111 O VAL B 184 SHEET 3 D 6 VAL B 84 VAL B 88 1 N VAL B 88 O ALA B 110 SHEET 4 D 6 ALA B 55 ASP B 61 1 N ILE B 58 O ILE B 85 SHEET 5 D 6 ASN B 22 LYS B 30 1 N TYR B 25 O ILE B 57 SHEET 6 D 6 VAL B 217 LEU B 222 1 O LEU B 222 N VAL B 26 SHEET 1 E 3 SER B 94 ALA B 96 0 SHEET 2 E 3 SER B 116 GLY B 118 1 O SER B 116 N ALA B 95 SHEET 3 E 3 SER B 170 LEU B 171 -1 O LEU B 171 N ILE B 117 SHEET 1 F 2 ILE B 123 TYR B 126 0 SHEET 2 F 2 ILE B 132 GLU B 134 -1 O ILE B 133 N GLY B 125 CISPEP 1 TYR A 89 PRO A 90 0 0.50 CISPEP 2 TYR B 89 PRO B 90 0 -1.42 SITE 1 AC1 8 GLY A 180 GLU A 183 LYS A 202 HOH A 435 SITE 2 AC1 8 ARG B 156 ALA B 158 THR B 159 HOH B 438 SITE 1 AC2 5 ALA A 53 GLU A 54 PRO A 83 ARG A 208 SITE 2 AC2 5 VAL A 210 SITE 1 AC3 4 ALA A 27 GLN A 28 GLU A 59 LEU A 222 SITE 1 AC4 2 ARG A 208 THR A 211 SITE 1 AC5 9 ARG A 156 ALA A 158 THR A 159 GLY B 155 SITE 2 AC5 9 LEU B 177 GLY B 180 ILE B 182 GLU B 183 SITE 3 AC5 9 LYS B 202 SITE 1 AC6 4 GLU B 54 LYS B 81 PRO B 83 VAL B 210 CRYST1 111.473 111.473 91.768 90.00 90.00 90.00 P 43 21 2 16 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 0.008971 0.000000 0.000000 0.00000 SCALE2 0.000000 0.008971 0.000000 0.00000 SCALE3 0.000000 0.000000 0.010897 0.00000