HEADER PHOSPHOTRANSFERASE 03-NOV-94 1SPH TITLE REFINED STRUCTURES OF THE ACTIVE S83C AND IMPAIRED S46D HPRS: EVIDENCE TITLE 2 THAT PHOSPHORYLATION DOES NOT REQUIRE A BACKBONE CONFORMATIONAL TITLE 3 TRANSITION COMPND MOL_ID: 1; COMPND 2 MOLECULE: HISTIDINE-CONTAINING PHOSPHOCARRIER PROTEIN HPR; COMPND 3 CHAIN: A, B; COMPND 4 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: BACILLUS SUBTILIS; SOURCE 3 ORGANISM_TAXID: 1423; SOURCE 4 GENE: PTSH; SOURCE 5 EXPRESSION_SYSTEM_PLASMID: PRE GENE: PTSH KEYWDS PHOSPHOTRANSFERASE EXPDTA X-RAY DIFFRACTION AUTHOR D.-I.LIAO,O.HERZBERG REVDAT 6 14-FEB-24 1SPH 1 SEQADV REVDAT 5 14-AUG-19 1SPH 1 REMARK REVDAT 4 17-JUL-19 1SPH 1 REMARK REVDAT 3 24-FEB-09 1SPH 1 VERSN REVDAT 2 01-APR-03 1SPH 1 JRNL REVDAT 1 07-FEB-95 1SPH 0 JRNL AUTH D.I.LIAO,O.HERZBERG JRNL TITL REFINED STRUCTURES OF THE ACTIVE SER83-->CYS AND IMPAIRED JRNL TITL 2 SER46-->ASP HISTIDINE-CONTAINING PHOSPHOCARRIER PROTEINS. JRNL REF STRUCTURE V. 2 1203 1994 JRNL REFN ISSN 0969-2126 JRNL PMID 7704530 JRNL DOI 10.1016/S0969-2126(94)00122-7 REMARK 1 REMARK 1 REFERENCE 1 REMARK 1 AUTH O.HERZBERG,P.REDDY,S.SUTRINA,M.H.SAIER JUNIOR,J.REIZER, REMARK 1 AUTH 2 G.KAPADIA REMARK 1 TITL STRUCTURE OF THE HISTIDINE-CONTAINING PHOSPHOCARRIER PROTEIN REMARK 1 TITL 2 HPR FROM BACILLUS SUBTILIS AT 2.0-ANGSTROMS RESOLUTION REMARK 1 REF PROC.NATL.ACAD.SCI.USA V. 89 2499 1992 REMARK 1 REFN ISSN 0027-8424 REMARK 1 REFERENCE 2 REMARK 1 AUTH G.KAPADIA,J.REIZER,S.SUTRINA,M.H.SAIER JUNIOR,P.REDDY, REMARK 1 AUTH 2 O.HERZBERG REMARK 1 TITL CRYSTALLIZATION OF THE BACILLUS SUBTILIS REMARK 1 TITL 2 HISTIDINE-CONTAINING PHOSPHOCARRIER PROTEIN HPR AND SOME OF REMARK 1 TITL 3 ITS SITE-DIRECTED MUTANTS REMARK 1 REF J.MOL.BIOL. V. 211 1 1990 REMARK 1 REFN ISSN 0022-2836 REMARK 2 REMARK 2 RESOLUTION. 2.00 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : TNT REMARK 3 AUTHORS : TRONRUD,TEN EYCK,MATTHEWS REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.00 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 10.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : 2.000 REMARK 3 COMPLETENESS FOR RANGE (%) : NULL REMARK 3 NUMBER OF REFLECTIONS : 7710 REMARK 3 REMARK 3 USING DATA ABOVE SIGMA CUTOFF. REMARK 3 CROSS-VALIDATION METHOD : NULL REMARK 3 FREE R VALUE TEST SET SELECTION : NULL REMARK 3 R VALUE (WORKING + TEST SET) : 0.143 REMARK 3 R VALUE (WORKING SET) : 0.143 REMARK 3 FREE R VALUE : NULL REMARK 3 FREE R VALUE TEST SET SIZE (%) : NULL REMARK 3 FREE R VALUE TEST SET COUNT : NULL REMARK 3 REMARK 3 USING ALL DATA, NO SIGMA CUTOFF. REMARK 3 R VALUE (WORKING + TEST SET, NO CUTOFF) : NULL REMARK 3 R VALUE (WORKING SET, NO CUTOFF) : NULL REMARK 3 FREE R VALUE (NO CUTOFF) : NULL REMARK 3 FREE R VALUE TEST SET SIZE (%, NO CUTOFF) : NULL REMARK 3 FREE R VALUE TEST SET COUNT (NO CUTOFF) : NULL REMARK 3 TOTAL NUMBER OF REFLECTIONS (NO CUTOFF) : NULL REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 1270 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 0 REMARK 3 SOLVENT ATOMS : 114 REMARK 3 REMARK 3 WILSON B VALUE (FROM FCALC, A**2) : NULL REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. RMS WEIGHT COUNT REMARK 3 BOND LENGTHS (A) : NULL ; NULL ; NULL REMARK 3 BOND ANGLES (DEGREES) : NULL ; NULL ; NULL REMARK 3 TORSION ANGLES (DEGREES) : NULL ; NULL ; NULL REMARK 3 PSEUDOROTATION ANGLES (DEGREES) : NULL ; NULL ; NULL REMARK 3 TRIGONAL CARBON PLANES (A) : NULL ; NULL ; NULL REMARK 3 GENERAL PLANES (A) : NULL ; NULL ; NULL REMARK 3 ISOTROPIC THERMAL FACTORS (A**2) : NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS (A) : NULL ; NULL ; NULL REMARK 3 REMARK 3 INCORRECT CHIRAL-CENTERS (COUNT) : NULL REMARK 3 REMARK 3 BULK SOLVENT MODELING. REMARK 3 METHOD USED : NULL REMARK 3 KSOL : NULL REMARK 3 BSOL : NULL REMARK 3 REMARK 3 RESTRAINT LIBRARIES. REMARK 3 STEREOCHEMISTRY : NULL REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 1SPH COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY BNL. REMARK 100 THE DEPOSITION ID IS D_1000176463. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : NULL REMARK 200 TEMPERATURE (KELVIN) : NULL REMARK 200 PH : NULL REMARK 200 NUMBER OF CRYSTALS USED : NULL REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : NULL REMARK 200 RADIATION SOURCE : NULL REMARK 200 BEAMLINE : NULL REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : NULL REMARK 200 WAVELENGTH OR RANGE (A) : NULL REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : NULL REMARK 200 DETECTOR MANUFACTURER : NULL REMARK 200 INTENSITY-INTEGRATION SOFTWARE : NULL REMARK 200 DATA SCALING SOFTWARE : NULL REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 9111 REMARK 200 RESOLUTION RANGE HIGH (A) : NULL REMARK 200 RESOLUTION RANGE LOW (A) : NULL REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 92.0 REMARK 200 DATA REDUNDANCY : NULL REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : NULL REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : NULL REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : NULL REMARK 200 COMPLETENESS FOR SHELL (%) : NULL REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> FOR SHELL : NULL REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: NULL REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: NULL REMARK 200 SOFTWARE USED: X-PLOR REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 37.55 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 1.97 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: NULL REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 1 21 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,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 0.00000 REMARK 290 SMTRY2 2 0.000000 1.000000 0.000000 12.85000 REMARK 290 SMTRY3 2 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: MTRIX REMARK 300 THE TRANSFORMATIONS PRESENTED ON MTRIX RECORDS BELOW REMARK 300 DESCRIBE NON-CRYSTALLOGRAPHIC RELATIONSHIPS AMONG THE REMARK 300 VARIOUS DOMAINS IN THIS ENTRY. APPLYING THE APPROPRIATE REMARK 300 MTRIX TRANSFORMATION TO CHAIN A WILL YIELD APPROXIMATE REMARK 300 COORDINATES FOR CHAIN B. REMARK 300 REMARK 300 APPLIED TO TRANSFORMED TO REMARK 300 MTRIX CHAIN RESIDUES CHAIN RESIDUES RMSD REMARK 300 M1 A 2 - A 88 B 2 - B 88 0.29 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 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 1 REMARK 465 MET B 1 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 69 O HOH A 241 2.08 REMARK 500 REMARK 500 REMARK: NULL 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 GLU A 79 CD GLU A 79 OE2 0.074 REMARK 500 GLU A 84 CD GLU A 84 OE1 0.077 REMARK 500 GLU B 36 CD GLU B 36 OE2 0.067 REMARK 500 GLU B 78 CD GLU B 78 OE1 0.071 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 11 CB - CG - OD2 ANGL. DEV. = -8.0 DEGREES REMARK 500 ARG A 17 NE - CZ - NH2 ANGL. DEV. = 3.7 DEGREES REMARK 500 ASP A 30 CA - CB - CG ANGL. DEV. = 13.2 DEGREES REMARK 500 ASP A 30 CB - CG - OD1 ANGL. DEV. = -5.9 DEGREES REMARK 500 ASP A 30 CB - CG - OD2 ANGL. DEV. = 8.6 DEGREES REMARK 500 ILE A 47 CA - CB - CG2 ANGL. DEV. = 13.6 DEGREES REMARK 500 MET A 48 CA - CB - CG ANGL. DEV. = 10.7 DEGREES REMARK 500 MET A 51 CG - SD - CE ANGL. DEV. = 10.6 DEGREES REMARK 500 LEU A 74 CB - CG - CD2 ANGL. DEV. = -13.5 DEGREES REMARK 500 GLN B 3 CB - CA - C ANGL. DEV. = -14.6 DEGREES REMARK 500 ARG B 17 NE - CZ - NH1 ANGL. DEV. = 3.1 DEGREES REMARK 500 ARG B 17 NE - CZ - NH2 ANGL. DEV. = -6.9 DEGREES REMARK 500 VAL B 21 CA - CB - CG1 ANGL. DEV. = -9.5 DEGREES REMARK 500 ASP B 32 CB - CG - OD1 ANGL. DEV. = -6.9 DEGREES REMARK 500 ASP B 32 CB - CG - OD2 ANGL. DEV. = 6.0 DEGREES REMARK 500 MET B 48 CG - SD - CE ANGL. DEV. = -11.4 DEGREES REMARK 500 ASP B 72 CB - CG - OD1 ANGL. DEV. = 5.6 DEGREES REMARK 500 ASP B 72 CB - CG - OD2 ANGL. DEV. = -6.6 DEGREES REMARK 500 REMARK 500 REMARK: NULL REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: ACA REMARK 800 EVIDENCE_CODE: AUTHOR REMARK 800 SITE_DESCRIPTION: ACTIVE SITE HISTIDINE IN CHAIN A REMARK 800 REMARK 800 SITE_IDENTIFIER: ACB REMARK 800 EVIDENCE_CODE: AUTHOR REMARK 800 SITE_DESCRIPTION: ACTIVE SITE HISTIDINE IN CHAIN B DBREF 1SPH A 2 88 UNP P08877 PTHP_BACSU 1 87 DBREF 1SPH B 2 88 UNP P08877 PTHP_BACSU 1 87 SEQADV 1SPH ASP A 46 UNP P08877 SER 45 CONFLICT SEQADV 1SPH ASP B 46 UNP P08877 SER 45 CONFLICT SEQRES 1 A 88 MET ALA GLN LYS THR PHE LYS VAL THR ALA ASP SER GLY SEQRES 2 A 88 ILE HIS ALA ARG PRO ALA THR VAL LEU VAL GLN THR ALA SEQRES 3 A 88 SER LYS TYR ASP ALA ASP VAL ASN LEU GLU TYR ASN GLY SEQRES 4 A 88 LYS THR VAL ASN LEU LYS ASP ILE MET GLY VAL MET SER SEQRES 5 A 88 LEU GLY ILE ALA LYS GLY ALA GLU ILE THR ILE SER ALA SEQRES 6 A 88 SER GLY ALA ASP GLU ASN ASP ALA LEU ASN ALA LEU GLU SEQRES 7 A 88 GLU THR MET LYS SER GLU GLY LEU GLY GLU SEQRES 1 B 88 MET ALA GLN LYS THR PHE LYS VAL THR ALA ASP SER GLY SEQRES 2 B 88 ILE HIS ALA ARG PRO ALA THR VAL LEU VAL GLN THR ALA SEQRES 3 B 88 SER LYS TYR ASP ALA ASP VAL ASN LEU GLU TYR ASN GLY SEQRES 4 B 88 LYS THR VAL ASN LEU LYS ASP ILE MET GLY VAL MET SER SEQRES 5 B 88 LEU GLY ILE ALA LYS GLY ALA GLU ILE THR ILE SER ALA SEQRES 6 B 88 SER GLY ALA ASP GLU ASN ASP ALA LEU ASN ALA LEU GLU SEQRES 7 B 88 GLU THR MET LYS SER GLU GLY LEU GLY GLU FORMUL 3 HOH *114(H2 O) HELIX 1 1 HIS A 15 SER A 27 1 13 HELIX 2 2 ASP A 46 GLY A 54 1 9 HELIX 3 3 ASP A 69 GLU A 84 1 16 HELIX 4 4 HIS B 15 SER B 27 1 13 HELIX 5 5 ASP B 46 LEU B 53 1 8 HELIX 6 6 ASP B 69 GLU B 84 1 16 SHEET 1 A 4 GLN A 3 LYS A 7 0 SHEET 2 A 4 GLU A 60 SER A 66 -1 O ILE A 61 N PHE A 6 SHEET 3 A 4 ASP A 32 TYR A 37 -1 N ASP A 32 O SER A 66 SHEET 4 A 4 LYS A 40 ASN A 43 -1 N LYS A 40 O TYR A 37 SHEET 1 B 4 GLN B 3 LYS B 7 0 SHEET 2 B 4 GLU B 60 SER B 66 -1 O ILE B 61 N PHE B 6 SHEET 3 B 4 ASP B 32 TYR B 37 -1 N ASP B 32 O SER B 66 SHEET 4 B 4 LYS B 40 ASN B 43 -1 O LYS B 40 N TYR B 37 SITE 1 ACA 1 HIS A 15 SITE 1 ACB 1 HIS B 15 CRYST1 49.500 25.700 60.400 90.00 108.90 90.00 P 1 21 1 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 0.020202 0.000000 0.006917 0.00000 SCALE2 0.000000 0.038911 0.000000 0.00000 SCALE3 0.000000 0.000000 0.017500 0.00000 MTRIX1 1 -0.674130 -0.029560 -0.738020 45.94000 1 MTRIX2 1 0.045520 -0.998960 -0.001580 3.92000 1 MTRIX3 1 -0.737210 -0.034660 0.674770 20.11000 1