HEADER HYDROLASE 06-MAY-04 1T6C TITLE STRUCTURAL CHARACTERIZATION OF THE PPX/GPPA PROTEIN FAMILY: CRYSTAL TITLE 2 STRUCTURE OF THE AQUIFEX AEOLICUS FAMILY MEMBER COMPND MOL_ID: 1; COMPND 2 MOLECULE: EXOPOLYPHOSPHATASE; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: PPX/GPPA PHOSPHATASE; COMPND 5 EC: 3.6.1.11, 3.6.1.40; COMPND 6 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: AQUIFEX AEOLICUS; SOURCE 3 ORGANISM_TAXID: 224324; SOURCE 4 STRAIN: VF5; SOURCE 5 GENE: PPX; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: ROSETTA(DE3)PLYSS; SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PET28A KEYWDS ALPHA/BETA PROTEIN, ACTIN-LIKE FOLD, HYDROLASE EXPDTA X-RAY DIFFRACTION AUTHOR O.KRISTENSEN,M.LAURBERG,A.LILJAS,J.S.KASTRUP,M.GAJHEDE REVDAT 5 03-APR-24 1T6C 1 REMARK REVDAT 4 13-MAR-24 1T6C 1 REMARK SEQADV LINK REVDAT 3 13-JUL-11 1T6C 1 VERSN REVDAT 2 24-FEB-09 1T6C 1 VERSN REVDAT 1 03-AUG-04 1T6C 0 JRNL AUTH O.KRISTENSEN,M.LAURBERG,A.LILJAS,J.S.KASTRUP,M.GAJHEDE JRNL TITL STRUCTURAL CHARACTERIZATION OF THE STRINGENT RESPONSE JRNL TITL 2 RELATED EXOPOLYPHOSPHATASE/GUANOSINE PENTAPHOSPHATE JRNL TITL 3 PHOSPHOHYDROLASE PROTEIN FAMILY JRNL REF BIOCHEMISTRY V. 43 8894 2004 JRNL REFN ISSN 0006-2960 JRNL PMID 15248747 JRNL DOI 10.1021/BI049083C REMARK 1 REMARK 1 REFERENCE 1 REMARK 1 AUTH A.KURODA,K.NOMURA,R.OHTOMO,J.KATO,T.IKEDA,N.TAKIGUCHI, REMARK 1 AUTH 2 H.OHTAKE,A.KORNBERG REMARK 1 TITL ROLE OF INORGANIC POLYPHOSPHATE IN PROMOTING RIBOSOMAL REMARK 1 TITL 2 PROTEIN DEGRADATION BY THE LON PROTEASE IN E. COLI REMARK 1 REF SCIENCE V. 293 705 2001 REMARK 1 REFN ISSN 0036-8075 REMARK 1 PMID 11474114 REMARK 1 DOI 10.1126/SCIENCE.1061315 REMARK 1 REFERENCE 2 REMARK 1 AUTH J.D.KEASLING,L.BERTSCH,A.KORNBERG REMARK 1 TITL GUANOSINE PENTAPHOSPHATE PHOSPHOHYDROLASE OF ESCHERICHIA REMARK 1 TITL 2 COLI IS A LONG-CHAIN EXOPOLYPHOSPHATASE REMARK 1 REF PROC.NATL.ACAD.SCI.USA V. 90 7029 1993 REMARK 1 REFN ISSN 0027-8424 REMARK 1 PMID 8394006 REMARK 1 DOI 10.1073/PNAS.90.15.7029 REMARK 1 REFERENCE 3 REMARK 1 AUTH J.REIZER,A.REIZER,M.H.SAIER JR.,P.BORK,C.SANDER REMARK 1 TITL EXOPOLYPHOSPHATE PHOSPHATASE AND GUANOSINE PENTAPHOSPHATE REMARK 1 TITL 2 PHOSPHATASE BELONG TO THE SUGAR KINASE/ACTIN/HSP 70 REMARK 1 TITL 3 SUPERFAMILY REMARK 1 REF TRENDS BIOCHEM.SCI. V. 18 247 1993 REMARK 1 REFN ISSN 0968-0004 REMARK 1 PMID 8212131 REMARK 1 DOI 10.1016/0968-0004(93)90172-J REMARK 2 REMARK 2 RESOLUTION. 1.53 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.1.24 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) : 1.53 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 15.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 95.6 REMARK 3 NUMBER OF REFLECTIONS : 46991 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) : 0.162 REMARK 3 FREE R VALUE : 0.217 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 1.000 REMARK 3 FREE R VALUE TEST SET COUNT : 472 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) : 1.53 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.57 REMARK 3 REFLECTION IN BIN (WORKING SET) : 2892 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 82.00 REMARK 3 BIN R VALUE (WORKING SET) : 0.2470 REMARK 3 BIN FREE R VALUE SET COUNT : 30 REMARK 3 BIN FREE R VALUE : 0.2980 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2456 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 53 REMARK 3 SOLVENT ATOMS : 390 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 19.00 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 16.25 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.88000 REMARK 3 B22 (A**2) : -1.00000 REMARK 3 B33 (A**2) : 1.88000 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): 0.073 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.085 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.058 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 1.703 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.969 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.934 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 2609 ; 0.013 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): 2552 ; 0.002 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 3517 ; 1.494 ; 2.000 REMARK 3 BOND ANGLES OTHERS (DEGREES): 5955 ; 0.850 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 305 ; 5.188 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): NULL ; NULL ; NULL REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 412 ; 0.087 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 2728 ; 0.006 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 503 ; 0.002 ; 0.020 REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 549 ; 0.216 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): 3004 ; 0.240 ; 0.200 REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION OTHERS (A): 1677 ; 0.084 ; 0.200 REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 280 ; 0.171 ; 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): 13 ; 0.175 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): 90 ; 0.298 ; 0.200 REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 45 ; 0.226 ; 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): 1533 ; 0.879 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 2519 ; 1.698 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1076 ; 2.617 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 998 ; 4.485 ; 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 : NULL REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : BABINET MODEL WITH 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: NULL REMARK 4 REMARK 4 1T6C COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 11-MAY-04. REMARK 100 THE DEPOSITION ID IS D_1000022367. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 13-AUG-00 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 6.4 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : MAX II REMARK 200 BEAMLINE : I711 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.993 REMARK 200 MONOCHROMATOR : BENDABLE ASYMMETRICALLY CUT REMARK 200 SI(111) CRYSTAL IN COMBINATION REMARK 200 WITH VERTICALLY FOCUSING MIRROR REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : IMAGE PLATE REMARK 200 DETECTOR MANUFACTURER : MARRESEARCH REMARK 200 INTENSITY-INTEGRATION SOFTWARE : MOSFLM REMARK 200 DATA SCALING SOFTWARE : CCP4 (SCALA) REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 47505 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.530 REMARK 200 RESOLUTION RANGE LOW (A) : 15.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 95.8 REMARK 200 DATA REDUNDANCY : 6.900 REMARK 200 R MERGE (I) : 0.06900 REMARK 200 R SYM (I) : 0.06100 REMARK 200 FOR THE DATA SET : 22.8000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.53 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.61 REMARK 200 COMPLETENESS FOR SHELL (%) : 84.6 REMARK 200 DATA REDUNDANCY IN SHELL : 2.70 REMARK 200 R MERGE FOR SHELL (I) : 0.34100 REMARK 200 R SYM FOR SHELL (I) : 0.24000 REMARK 200 FOR SHELL : 2.200 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT WITH REMARK 200 PARTIAL MODEL, FOLLOWED BY THE ARP/WARP PROCEDURE. REMARK 200 SOFTWARE USED: CNS REMARK 200 STARTING MODEL: A VERY INCOMPLETE MODEL WAS OBTAINED THROUGH REMARK 200 EXPERIMENTAL PHASING AND ARP/WARP TRACING OF THE TYPE II CRYSTAL REMARK 200 FORM REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 46.40 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.30 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: MPD, MES, TRIS, KCL, DTT, THE CRYSTAL REMARK 280 WAS SOAKED IN K2HGI4/KI CONTAINING SOLUTION, PH 6.4, VAPOR REMARK 280 DIFFUSION, HANGING DROP, TEMPERATURE 293K 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 25.38800 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 45.39150 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 35.14350 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 45.39150 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 25.38800 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 35.14350 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: THE BIOLOGICAL RELEVANT UNIT IS MONOMERIC. 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: MONOMERIC 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 GLY A -2 REMARK 465 SER A -1 REMARK 465 HIS A 0 REMARK 465 MET A 1 REMARK 465 SER A 2 REMARK 465 LEU A 3 REMARK 465 ASP A 4 REMARK 465 ASN A 5 REMARK 465 LYS A 6 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 OD2 ASP A 15 O HOH A 875 1.99 REMARK 500 NZ LYS A 153 O HOH A 992 2.07 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS REMARK 500 REMARK 500 THE FOLLOWING ATOMS THAT ARE RELATED BY CRYSTALLOGRAPHIC REMARK 500 SYMMETRY ARE IN CLOSE CONTACT. AN ATOM LOCATED WITHIN 0.15 REMARK 500 ANGSTROMS OF A SYMMETRY RELATED ATOM IS ASSUMED TO BE ON A REMARK 500 SPECIAL POSITION AND IS, THEREFORE, LISTED IN REMARK 375 REMARK 500 INSTEAD OF REMARK 500. ATOMS WITH NON-BLANK ALTERNATE REMARK 500 LOCATION INDICATORS ARE NOT INCLUDED IN THE CALCULATIONS. REMARK 500 REMARK 500 DISTANCE CUTOFF: REMARK 500 2.2 ANGSTROMS FOR CONTACTS NOT INVOLVING HYDROGEN ATOMS REMARK 500 1.6 ANGSTROMS FOR CONTACTS INVOLVING HYDROGEN ATOMS REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI SSYMOP DISTANCE REMARK 500 OE1 GLU A 195 OH TYR A 224 3655 1.93 REMARK 500 O HOH A 606 O HOH A 925 3745 2.16 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 15 CB - CG - OD2 ANGL. DEV. = 6.8 DEGREES REMARK 500 LEU A 109 CA - CB - CG ANGL. DEV. = 14.7 DEGREES REMARK 500 ASP A 265 CB - CG - OD2 ANGL. DEV. = 5.5 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 ILE A 165 52.03 -103.28 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 502 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 141 O REMARK 620 2 GLY A 143 N 76.1 REMARK 620 3 GLY A 143 O 130.1 54.7 REMARK 620 4 SER A 146 O 78.5 56.8 69.0 REMARK 620 5 SER A 146 OG 118.2 115.6 81.1 65.3 REMARK 620 6 GLU A 148 OE1 80.8 156.3 146.7 113.7 71.5 REMARK 620 7 HOH A 685 O 139.2 142.9 90.6 127.4 63.9 60.7 REMARK 620 8 HOH A 689 O 91.7 74.2 83.0 131.0 149.7 111.7 90.7 REMARK 620 N 1 2 3 4 5 6 7 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE IOD A 501 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CA A 502 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CL A 503 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CL A 504 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CL A 505 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MPD A 600 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MPD A 601 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MPD A 602 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MPD A 603 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MPD A 604 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MPD A 605 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1T6D RELATED DB: PDB REMARK 900 THE SAME PROTEIN(V82M/C138M/V306M) AT RESOLUTION 2.15 A DBREF 1T6C A 1 312 UNP O67040 O67040_AQUAE 1 312 SEQADV 1T6C GLY A -2 UNP O67040 CLONING ARTIFACT SEQADV 1T6C SER A -1 UNP O67040 CLONING ARTIFACT SEQADV 1T6C HIS A 0 UNP O67040 CLONING ARTIFACT SEQRES 1 A 315 GLY SER HIS MET SER LEU ASP ASN LYS PRO ILE MET ARG SEQRES 2 A 315 VAL ALA SER ILE ASP ILE GLY SER TYR SER VAL ARG LEU SEQRES 3 A 315 THR ILE ALA GLN ILE LYS ASP GLY LYS LEU SER ILE ILE SEQRES 4 A 315 LEU GLU ARG GLY ARG ILE THR SER LEU GLY THR LYS VAL SEQRES 5 A 315 LYS GLU THR GLY ARG LEU GLN GLU ASP ARG ILE GLU GLU SEQRES 6 A 315 THR ILE GLN VAL LEU LYS GLU TYR LYS LYS LEU ILE ASP SEQRES 7 A 315 GLU PHE LYS VAL GLU ARG VAL LYS ALA VAL ALA THR GLU SEQRES 8 A 315 ALA ILE ARG ARG ALA LYS ASN ALA GLU GLU PHE LEU GLU SEQRES 9 A 315 ARG VAL LYS ARG GLU VAL GLY LEU VAL VAL GLU VAL ILE SEQRES 10 A 315 THR PRO GLU GLN GLU GLY ARG TYR ALA TYR LEU ALA VAL SEQRES 11 A 315 ALA TYR SER LEU LYS PRO GLU GLY GLU VAL CYS VAL VAL SEQRES 12 A 315 ASP GLN GLY GLY GLY SER THR GLU TYR VAL PHE GLY LYS SEQRES 13 A 315 GLY TYR LYS VAL ARG GLU VAL ILE SER LEU PRO ILE GLY SEQRES 14 A 315 ILE VAL ASN LEU THR GLU THR PHE PHE LYS GLN ASP PRO SEQRES 15 A 315 PRO THR GLU GLU GLU VAL LYS ARG PHE PHE GLU PHE LEU SEQRES 16 A 315 GLU LYS GLU LEU SER LYS VAL LYS LYS PRO VAL ASP THR SEQRES 17 A 315 ILE VAL GLY LEU GLY GLY THR ILE THR THR LEU ALA ALA SEQRES 18 A 315 LEU GLU TYR ASN VAL TYR PRO TYR ASP PRO GLN LYS VAL SEQRES 19 A 315 HIS GLY LYS VAL LEU THR TYR GLY GLN ILE LYS LYS TRP SEQRES 20 A 315 PHE ASP THR PHE LYS GLU ILE PRO SER GLU GLU ARG SER SEQRES 21 A 315 LYS ARG PHE ARG GLN VAL GLU ASP ARG ARG ALA LYS VAL SEQRES 22 A 315 ILE LEU ALA GLY ILE GLY ILE PHE LEU LYS THR LEU GLU SEQRES 23 A 315 ILE PHE GLU LYS ASP CYS LEU ILE VAL SER ASP TRP GLY SEQRES 24 A 315 LEU ARG GLU GLY VAL LEU VAL SER GLU VAL LEU LYS GLU SEQRES 25 A 315 ASN HIS SER HET IOD A 501 1 HET CA A 502 1 HET CL A 503 1 HET CL A 504 1 HET CL A 505 1 HET MPD A 600 8 HET MPD A 601 8 HET MPD A 602 8 HET MPD A 603 8 HET MPD A 604 8 HET MPD A 605 8 HETNAM IOD IODIDE ION HETNAM CA CALCIUM ION HETNAM CL CHLORIDE ION HETNAM MPD (4S)-2-METHYL-2,4-PENTANEDIOL FORMUL 2 IOD I 1- FORMUL 3 CA CA 2+ FORMUL 4 CL 3(CL 1-) FORMUL 7 MPD 6(C6 H14 O2) FORMUL 13 HOH *390(H2 O) HELIX 1 1 LYS A 48 GLY A 53 1 6 HELIX 2 2 GLN A 56 PHE A 77 1 22 HELIX 3 3 THR A 87 ARG A 92 1 6 HELIX 4 4 ASN A 95 VAL A 107 1 13 HELIX 5 5 THR A 115 LEU A 131 1 17 HELIX 6 6 GLY A 166 PHE A 175 1 10 HELIX 7 7 THR A 181 SER A 197 1 17 HELIX 8 8 GLY A 210 TYR A 221 1 12 HELIX 9 9 ASP A 227 HIS A 232 1 6 HELIX 10 10 TYR A 238 LYS A 249 1 12 HELIX 11 11 PRO A 252 PHE A 260 1 9 HELIX 12 12 GLU A 264 ALA A 268 5 5 HELIX 13 13 VAL A 270 GLU A 286 1 17 HELIX 14 14 GLY A 296 HIS A 311 1 16 SHEET 1 A 5 LYS A 32 ILE A 42 0 SHEET 2 A 5 SER A 20 LYS A 29 -1 N ILE A 25 O LEU A 37 SHEET 3 A 5 MET A 9 ILE A 16 -1 N VAL A 11 O ALA A 26 SHEET 4 A 5 ARG A 81 ALA A 86 1 O VAL A 85 N ILE A 14 SHEET 5 A 5 VAL A 111 VAL A 113 1 O GLU A 112 N ALA A 84 SHEET 1 B 6 LYS A 156 LEU A 163 0 SHEET 2 B 6 SER A 146 LYS A 153 -1 N THR A 147 O LEU A 163 SHEET 3 B 6 GLU A 136 GLY A 143 -1 N VAL A 137 O GLY A 152 SHEET 4 B 6 THR A 205 LEU A 209 1 O VAL A 207 N VAL A 140 SHEET 5 B 6 CYS A 289 SER A 293 1 O ILE A 291 N GLY A 208 SHEET 6 B 6 VAL A 235 THR A 237 -1 N LEU A 236 O LEU A 290 LINK O ASP A 141 CA CA A 502 1555 1555 2.87 LINK N GLY A 143 CA CA A 502 1555 1555 3.40 LINK O GLY A 143 CA CA A 502 1555 1555 2.63 LINK O SER A 146 CA CA A 502 1555 1555 2.74 LINK OG SER A 146 CA CA A 502 1555 1555 3.23 LINK OE1 GLU A 148 CA CA A 502 1555 1555 2.68 LINK CA CA A 502 O HOH A 685 1555 1555 2.77 LINK CA CA A 502 O HOH A 689 1555 1555 2.76 CISPEP 1 ASP A 178 PRO A 179 0 2.12 CISPEP 2 TYR A 224 PRO A 225 0 -8.86 SITE 1 AC1 1 TYR A 226 SITE 1 AC2 6 ASP A 141 GLY A 143 SER A 146 GLU A 148 SITE 2 AC2 6 HOH A 685 HOH A 689 SITE 1 AC3 5 GLN A 142 GLY A 143 GLY A 145 GLY A 166 SITE 2 AC3 5 ILE A 167 SITE 1 AC4 4 GLY A 166 ASN A 169 HOH A 624 HOH A 972 SITE 1 AC5 2 GLN A 142 ARG A 267 SITE 1 AC6 4 LYS A 78 LYS A 258 HOH A 803 HOH A 975 SITE 1 AC7 2 HIS A 232 HOH A 976 SITE 1 AC8 6 GLU A 80 ARG A 81 VAL A 82 ARG A 259 SITE 2 AC8 6 MPD A 603 HOH A 695 SITE 1 AC9 6 ARG A 81 TRP A 244 THR A 247 GLU A 309 SITE 2 AC9 6 MPD A 602 HOH A 966 SITE 1 BC1 8 GLU A 136 LYS A 153 ARG A 158 TYR A 238 SITE 2 BC1 8 GLU A 283 HOH A 649 HOH A 753 HOH A 759 SITE 1 BC2 4 GLN A 118 TYR A 122 LEU A 125 SER A 304 CRYST1 50.776 70.287 90.783 90.00 90.00 90.00 P 21 21 21 4 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 0.019694 0.000000 0.000000 0.00000 SCALE2 0.000000 0.014227 0.000000 0.00000 SCALE3 0.000000 0.000000 0.011015 0.00000