HEADER HYDROLASE(GLUCANASE) 11-MAR-94 1CPM TITLE NATIVE-LIKE IN VIVO FOLDING OF A CIRCULARLY PERMUTED JELLYROLL PROTEIN TITLE 2 SHOWN BY CRYSTAL STRUCTURE ANALYSIS COMPND MOL_ID: 1; COMPND 2 MOLECULE: CIRCULARLY PERMUTED; COMPND 3 CHAIN: A; COMPND 4 EC: 3.2.1.73; COMPND 5 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: PAENIBACILLUS MACERANS; SOURCE 3 ORGANISM_TAXID: 44252 KEYWDS HYDROLASE(GLUCANASE) EXPDTA X-RAY DIFFRACTION AUTHOR M.HAHN,U.HEINEMANN REVDAT 5 14-AUG-19 1CPM 1 REMARK REVDAT 4 17-JUL-19 1CPM 1 REMARK REVDAT 3 29-NOV-17 1CPM 1 HELIX REVDAT 2 24-FEB-09 1CPM 1 VERSN REVDAT 1 22-JUN-94 1CPM 0 JRNL AUTH M.HAHN,K.PIOTUKH,R.BORRISS,U.HEINEMANN JRNL TITL NATIVE-LIKE IN VIVO FOLDING OF A CIRCULARLY PERMUTED JRNL TITL 2 JELLYROLL PROTEIN SHOWN BY CRYSTAL STRUCTURE ANALYSIS. JRNL REF PROC.NATL.ACAD.SCI.USA V. 91 10417 1994 JRNL REFN ISSN 0027-8424 JRNL PMID 7937966 JRNL DOI 10.1073/PNAS.91.22.10417 REMARK 1 REMARK 1 REFERENCE 1 REMARK 1 AUTH T.KEITEL,O.SIMON,R.BORRISS,U.HEINEMANN REMARK 1 TITL MOLECULAR AND ACTIVE-SITE STRUCTURE OF A BACILLUS REMARK 1 TITL 2 1,3-1,4-BETA-GLUCANASE REMARK 1 REF PROC.NATL.ACAD.SCI.USA V. 90 5287 1993 REMARK 1 REFN ISSN 0027-8424 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) : 8.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : 1.000 REMARK 3 COMPLETENESS FOR RANGE (%) : NULL REMARK 3 NUMBER OF REFLECTIONS : 12507 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) : 0.153 REMARK 3 R VALUE (WORKING SET) : 0.153 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 : 1693 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 1 REMARK 3 SOLVENT ATOMS : 125 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 1CPM 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_1000172460. 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 : NULL REMARK 200 RESOLUTION RANGE HIGH (A) : NULL REMARK 200 RESOLUTION RANGE LOW (A) : NULL REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : NULL REMARK 200 DATA REDUNDANCY : NULL REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 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 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 (%): 47.58 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.35 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: NULL 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 19.71500 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 64.17000 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 22.15000 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 64.17000 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 19.71500 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 22.15000 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: 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 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 47 CD GLU A 47 OE2 -0.069 REMARK 500 GLU A 73 CD GLU A 73 OE1 0.092 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 PRO A 39 C - N - CD ANGL. DEV. = -16.2 DEGREES REMARK 500 ASP A 46 CB - CG - OD1 ANGL. DEV. = -6.0 DEGREES REMARK 500 PHE A 86 CB - CG - CD1 ANGL. DEV. = -4.3 DEGREES REMARK 500 ASP A 103 CB - CG - OD1 ANGL. DEV. = 6.9 DEGREES REMARK 500 ASP A 132 CB - CG - OD1 ANGL. DEV. = 6.2 DEGREES REMARK 500 ASP A 132 CB - CG - OD2 ANGL. DEV. = -7.2 DEGREES REMARK 500 ASP A 133 CB - CG - OD1 ANGL. DEV. = -5.6 DEGREES REMARK 500 ASP A 149 CB - CG - OD1 ANGL. DEV. = 5.5 DEGREES REMARK 500 ASP A 149 CB - CG - OD2 ANGL. DEV. = -7.7 DEGREES REMARK 500 ASP A 178 CB - CG - OD1 ANGL. DEV. = 7.0 DEGREES REMARK 500 ASP A 178 CB - CG - OD2 ANGL. DEV. = -5.9 DEGREES REMARK 500 ARG A 191 NE - CZ - NH1 ANGL. DEV. = 4.0 DEGREES REMARK 500 ARG A 191 NE - CZ - NH2 ANGL. DEV. = -3.2 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 ASN A 26 140.10 174.47 REMARK 500 ALA A 40 15.48 -67.62 REMARK 500 HIS A 41 19.97 -149.20 REMARK 500 ASN A 156 -90.93 -75.52 REMARK 500 ASN A 187 50.52 -102.82 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 215 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 PRO A 165 O REMARK 620 2 HOH A 216 O 78.9 REMARK 620 3 HOH A 217 O 100.8 76.4 REMARK 620 4 GLY A 201 O 85.0 91.7 165.3 REMARK 620 5 ASP A 149 O 73.7 146.4 89.9 104.7 REMARK 620 6 ASP A 149 OD1 144.9 136.2 89.9 92.9 73.1 REMARK 620 7 HOH A 218 O 145.9 68.8 82.3 85.4 140.5 68.2 REMARK 620 N 1 2 3 4 5 6 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CA A 215 DBREF 1CPM A 1 156 UNP P23904 GUB_PAEMA 82 237 SEQRES 1 A 214 PHE ASP CYS ALA GLU TYR ARG SER THR ASN ILE TYR GLY SEQRES 2 A 214 TYR GLY LEU TYR GLU VAL SER MET LYS PRO ALA LYS ASN SEQRES 3 A 214 THR GLY ILE VAL SER SER PHE PHE THR TYR THR GLY PRO SEQRES 4 A 214 ALA HIS GLY THR GLN TRP ASP GLU ILE ASP ILE GLU PHE SEQRES 5 A 214 LEU GLY LYS ASP THR THR LYS VAL GLN PHE ASN TYR TYR SEQRES 6 A 214 THR ASN GLY VAL GLY GLY HIS GLU LYS VAL ILE SER LEU SEQRES 7 A 214 GLY PHE ASP ALA SER LYS GLY PHE HIS THR TYR ALA PHE SEQRES 8 A 214 ASP TRP GLN PRO GLY TYR ILE LYS TRP TYR VAL ASP GLY SEQRES 9 A 214 VAL LEU LYS HIS THR ALA THR ALA ASN ILE PRO SER THR SEQRES 10 A 214 PRO GLY LYS ILE MET MET ASN LEU TRP ASN GLY THR GLY SEQRES 11 A 214 VAL ASP ASP TRP LEU GLY SER TYR ASN GLY ALA ASN PRO SEQRES 12 A 214 LEU TYR ALA GLU TYR ASP TRP VAL LYS TYR THR SER ASN SEQRES 13 A 214 GLN THR GLY GLY SER PHE PHE GLU PRO PHE ASN SER TYR SEQRES 14 A 214 ASN SER GLY THR TRP GLU LYS ALA ASP GLY TYR SER ASN SEQRES 15 A 214 GLY GLY VAL PHE ASN CYS THR TRP ARG ALA ASN ASN VAL SEQRES 16 A 214 ASN PHE THR ASN ASP GLY LYS LEU LYS LEU GLY LEU THR SEQRES 17 A 214 SER SER ALA TYR ASN ALA HET CA A 215 1 HETNAM CA CALCIUM ION FORMUL 2 CA CA 2+ FORMUL 3 HOH *125(H2 O) HELIX 1 H1 ASP A 132 LEU A 135 1 4 SHEET 1 S1 7 TRP A 174 LYS A 176 0 SHEET 2 S1 7 ASP A 2 SER A 8 -1 O ARG A 7 N GLU A 175 SHEET 3 S1 7 LYS A 120 ASN A 127 -1 O MET A 123 N TYR A 6 SHEET 4 S1 7 ILE A 29 THR A 37 -1 O PHE A 34 N MET A 122 SHEET 5 S1 7 ASP A 46 LEU A 53 -1 N PHE A 52 O SER A 31 SHEET 6 S1 7 LYS A 59 TYR A 65 -1 O ASN A 63 N ASP A 49 SHEET 7 S1 7 LYS A 74 SER A 77 -1 N ILE A 76 O VAL A 60 SHEET 1 S2 7 VAL A 195 PHE A 197 0 SHEET 2 S2 7 LEU A 203 LEU A 207 -1 N LEU A 205 O ASN A 196 SHEET 3 S2 7 LEU A 144 SER A 155 -1 O TYR A 148 N LEU A 203 SHEET 4 S2 7 GLY A 15 LYS A 22 -1 O SER A 20 N ASP A 149 SHEET 5 S2 7 HIS A 87 GLN A 94 -1 O PHE A 91 N TYR A 17 SHEET 6 S2 7 TYR A 97 VAL A 102 -1 O TYR A 97 N GLN A 94 SHEET 7 S2 7 VAL A 105 ALA A 110 -1 N LYS A 107 O TRP A 100 SSBOND 1 CYS A 3 CYS A 188 1555 1555 2.04 LINK CA CA A 215 O PRO A 165 1555 1555 2.27 LINK CA CA A 215 O HOH A 216 1555 1555 2.41 LINK CA CA A 215 O HOH A 217 1555 1555 2.32 LINK CA CA A 215 O GLY A 201 1555 1555 2.30 LINK CA CA A 215 O ASP A 149 1555 1555 2.31 LINK CA CA A 215 OD1 ASP A 149 1555 1555 2.25 LINK CA CA A 215 O HOH A 218 1555 1555 2.24 CISPEP 1 ASN A 142 PRO A 143 0 -1.07 SITE 1 AC1 6 ASP A 149 PRO A 165 GLY A 201 HOH A 216 SITE 2 AC1 6 HOH A 217 HOH A 218 CRYST1 39.430 44.300 128.340 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 0.025361 0.000000 0.000000 0.00000 SCALE2 0.000000 0.022573 0.000000 0.00000 SCALE3 0.000000 0.000000 0.007792 0.00000