HEADER OXIDOREDUCTASE 16-MAR-98 1PGJ TITLE X-RAY STRUCTURE OF 6-PHOSPHOGLUCONATE DEHYDROGENASE FROM THE PROTOZOAN TITLE 2 PARASITE T. BRUCEI COMPND MOL_ID: 1; COMPND 2 MOLECULE: 6-PHOSPHOGLUCONATE DEHYDROGENASE; COMPND 3 CHAIN: A, B; COMPND 4 SYNONYM: 6PGDH, 6-PGDH; COMPND 5 EC: 1.1.1.44; COMPND 6 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: TRYPANOSOMA BRUCEI; SOURCE 3 ORGANISM_TAXID: 5691; SOURCE 4 STRAIN: BRUCEI; SOURCE 5 VARIANT: TRUC427; SOURCE 6 CELL_LINE: BL21; SOURCE 7 GENE: T. BRUCEI GND; SOURCE 8 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 9 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 10 EXPRESSION_SYSTEM_STRAIN: BL21 (DE3); SOURCE 11 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 12 EXPRESSION_SYSTEM_PLASMID: PT7GND; SOURCE 13 EXPRESSION_SYSTEM_GENE: T. BRUCEI GND KEYWDS OXIDOREDUCTASE, CHOH(D)-NADP+(B) EXPDTA X-RAY DIFFRACTION AUTHOR J.DOHNALEK,C.PHILLIPS,S.GOVER,M.P.BARRETT,M.J.ADAMS REVDAT 6 22-MAY-24 1PGJ 1 REMARK REVDAT 5 09-AUG-23 1PGJ 1 REMARK REVDAT 4 29-NOV-17 1PGJ 1 HELIX REVDAT 3 16-NOV-11 1PGJ 1 VERSN HETATM REVDAT 2 24-FEB-09 1PGJ 1 VERSN REVDAT 1 11-NOV-98 1PGJ 0 JRNL AUTH C.PHILLIPS,J.DOHNALEK,S.GOVER,M.P.BARRETT,M.J.ADAMS JRNL TITL A 2.8 A RESOLUTION STRUCTURE OF 6-PHOSPHOGLUCONATE JRNL TITL 2 DEHYDROGENASE FROM THE PROTOZOAN PARASITE TRYPANOSOMA JRNL TITL 3 BRUCEI: COMPARISON WITH THE SHEEP ENZYME ACCOUNTS FOR JRNL TITL 4 DIFFERENCES IN ACTIVITY WITH COENZYME AND SUBSTRATE JRNL TITL 5 ANALOGUES. JRNL REF J.MOL.BIOL. V. 282 667 1998 JRNL REFN ISSN 0022-2836 JRNL PMID 9737929 JRNL DOI 10.1006/JMBI.1998.2059 REMARK 1 REMARK 1 REFERENCE 1 REMARK 1 AUTH M.P.BARRETT,C.PHILLIPS,M.J.ADAMS,R.W.LE PAGE REMARK 1 TITL OVEREXPRESSION IN ESCHERICHIA COLI AND PURIFICATION OF THE REMARK 1 TITL 2 6-PHOSPHOGLUCONATE DEHYDROGENASE OF TRYPANOSOMA BRUCEI REMARK 1 REF PROTEIN EXPR.PURIF. V. 5 44 1994 REMARK 1 REFN ISSN 1046-5928 REMARK 1 REFERENCE 2 REMARK 1 AUTH M.J.ADAMS,G.H.ELLIS,S.GOVER,C.E.NAYLOR,C.PHILLIPS REMARK 1 TITL CRYSTALLOGRAPHIC STUDY OF COENZYME, COENZYME ANALOGUE AND REMARK 1 TITL 2 SUBSTRATE BINDING IN 6-PHOSPHOGLUCONATE DEHYDROGENASE: REMARK 1 TITL 3 IMPLICATIONS FOR NADP SPECIFICITY AND THE ENZYME MECHANISM REMARK 1 REF STRUCTURE V. 2 651 1994 REMARK 1 REFN ISSN 0969-2126 REMARK 1 REFERENCE 3 REMARK 1 AUTH M.J.ADAMS,G.H.ELLIS,S.GOVER,C.E.NAYLOR,C.PHILLIPS REMARK 1 TITL ERRATUM. CRYSTALLOGRAPHIC STUDY OF COENZYME, COENZYME REMARK 1 TITL 2 ANALOGUE AND SUBSTRATE BINDING IN 6-PHOSPHOGLUCONATE REMARK 1 TITL 3 DEHYDROGENASE: IMPLICATIONS FOR NADP SPECIFICITY AND THE REMARK 1 TITL 4 ENZYME MECHANISM REMARK 1 REF STRUCTURE V. 2 784 1994 REMARK 1 REFN ISSN 0969-2126 REMARK 1 REFERENCE 4 REMARK 1 AUTH C.PHILLIPS,M.P.BARRETT,S.GOVER,R.W.LE PAGE,M.J.ADAMS REMARK 1 TITL PRELIMINARY CRYSTALLOGRAPHIC STUDY OF 6-PHOSPHOGLUCONATE REMARK 1 TITL 2 DEHYDROGENASE FROM TRYPANOSOMA BRUCEI REMARK 1 REF J.MOL.BIOL. V. 233 317 1993 REMARK 1 REFN ISSN 0022-2836 REMARK 2 REMARK 2 RESOLUTION. 2.82 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : X-PLOR 3.1 REMARK 3 AUTHORS : BRUNGER REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.82 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 19.76 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 DATA CUTOFF HIGH (ABS(F)) : NULL REMARK 3 DATA CUTOFF LOW (ABS(F)) : 0.0000 REMARK 3 COMPLETENESS (WORKING+TEST) (%) : 97.7 REMARK 3 NUMBER OF REFLECTIONS : 29307 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 CROSS-VALIDATION METHOD : SEE JRNL REFERENCE REMARK 3 FREE R VALUE TEST SET SELECTION : RANDOM REMARK 3 R VALUE (WORKING SET) : 0.186 REMARK 3 FREE R VALUE : 0.273 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.900 REMARK 3 FREE R VALUE TEST SET COUNT : 1436 REMARK 3 ESTIMATED ERROR OF FREE R VALUE : NULL REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 8 REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 2.82 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.93 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 93.80 REMARK 3 REFLECTIONS IN BIN (WORKING SET) : 2611 REMARK 3 BIN R VALUE (WORKING SET) : 0.2680 REMARK 3 BIN FREE R VALUE : 0.3520 REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : 5.40 REMARK 3 BIN FREE R VALUE TEST SET COUNT : 150 REMARK 3 ESTIMATED ERROR OF BIN FREE R VALUE : NULL REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 7302 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 20 REMARK 3 SOLVENT ATOMS : 129 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 26.50 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : NULL REMARK 3 B22 (A**2) : NULL REMARK 3 B33 (A**2) : NULL REMARK 3 B12 (A**2) : NULL REMARK 3 B13 (A**2) : NULL REMARK 3 B23 (A**2) : NULL REMARK 3 REMARK 3 ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM LUZZATI PLOT (A) : 0.30 REMARK 3 ESD FROM SIGMAA (A) : NULL REMARK 3 LOW RESOLUTION CUTOFF (A) : NULL REMARK 3 REMARK 3 CROSS-VALIDATED ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM C-V LUZZATI PLOT (A) : NULL REMARK 3 ESD FROM C-V SIGMAA (A) : NULL REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 BOND LENGTHS (A) : 0.013 REMARK 3 BOND ANGLES (DEGREES) : 1.700 REMARK 3 DIHEDRAL ANGLES (DEGREES) : NULL REMARK 3 IMPROPER ANGLES (DEGREES) : NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL MODEL : TARGET SIGMA FOR 1-2 B FA PAIRS (BOND), REMARK 3 1-3 PAIRS (ANGLE) REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. RMS SIGMA REMARK 3 MAIN-CHAIN BOND (A**2) : 2.890 ; 1.500 REMARK 3 MAIN-CHAIN ANGLE (A**2) : 4.490 ; 2.000 REMARK 3 SIDE-CHAIN BOND (A**2) : 2.890 ; 1.500 REMARK 3 SIDE-CHAIN ANGLE (A**2) : 4.490 ; 2.000 REMARK 3 REMARK 3 NCS MODEL : RESTRAINTS REMARK 3 REMARK 3 NCS RESTRAINTS. RMS SIGMA/WEIGHT REMARK 3 GROUP 1 POSITIONAL (A) : 0.10 ; 80 REMARK 3 GROUP 1 B-FACTOR (A**2) : 2.14 ; 2.0 REMARK 3 REMARK 3 PARAMETER FILE 1 : PARHCSDX.PRO REMARK 3 PARAMETER FILE 2 : PARAM19.SOL REMARK 3 PARAMETER FILE 3 : NULL REMARK 3 TOPOLOGY FILE 1 : TOPHCSDX.PRO REMARK 3 TOPOLOGY FILE 2 : TOPH19.SOL REMARK 3 TOPOLOGY FILE 3 : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: FOR DETAILS OF RESTRAINED RESIDUES AND REMARK 3 PARAMETERS USED IN BULK SOLVENT MODELLING, SEE JRNL REFERENCE. REMARK 3 COORDINATES GIVEN ARE THOSE AFTER A FINAL NON-PARTITIONED (I.E., REMARK 3 ALL DATA) REFINEMENT CYCLE, FOR WHICH R = 0.188 AND BIN R = REMARK 3 0.267. REMARK 4 REMARK 4 1PGJ 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_1000175661. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : NOV-92 REMARK 200 TEMPERATURE (KELVIN) : 293 REMARK 200 PH : 7.0 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : N REMARK 200 RADIATION SOURCE : ROTATING ANODE REMARK 200 BEAMLINE : NULL REMARK 200 X-RAY GENERATOR MODEL : RIGAKU RUH2R REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.5418 REMARK 200 MONOCHROMATOR : GRAPHITE(002) REMARK 200 OPTICS : COLLIMATOR, DUAL SLITS REMARK 200 REMARK 200 DETECTOR TYPE : IMAGE PLATE REMARK 200 DETECTOR MANUFACTURER : MARRESEARCH REMARK 200 INTENSITY-INTEGRATION SOFTWARE : MOSFLM REMARK 200 DATA SCALING SOFTWARE : SSM REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 29373 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.800 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 (%) : 95.9 REMARK 200 DATA REDUNDANCY : 7.200 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : 0.09900 REMARK 200 FOR THE DATA SET : 17.9000 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: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: X-PLOR 3.1 REMARK 200 STARTING MODEL: SHEEP DIMER - SEE PDB ENTRY 2PGD REMARK 200 REMARK 200 REMARK: DATA COLLECTED BY OSCILLATION METHOD IN STEPS OF 1 DEGREE REMARK 200 IN PHI. R SYM GIVEN IS FOR I > 4 SIG(I). REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 58.50 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.96 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: CRYSTALLISED FROM HANGING DROP WHICH REMARK 280 ALSO CONTAINED 50MM POTASSIUM PHOSPHATE, 5MM DTT AND 30% REMARK 280 SATURATED AMMONIUM SULPHATE, PH 7.0. THE WELL SOLUTION WAS 45% REMARK 280 SATURATED AMMONIUM SULPHATE., VAPOR DIFFUSION - HANGING DROP, REMARK 280 VAPOR DIFFUSION, HANGING DROP REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 31 2 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -Y,X-Y,Z+1/3 REMARK 290 3555 -X+Y,-X,Z+2/3 REMARK 290 4555 Y,X,-Z REMARK 290 5555 X-Y,-Y,-Z+2/3 REMARK 290 6555 -X,-X+Y,-Z+1/3 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 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 2 0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 38.91333 REMARK 290 SMTRY1 3 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 3 -0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 77.82667 REMARK 290 SMTRY1 4 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 4 0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 5 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 5 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 77.82667 REMARK 290 SMTRY1 6 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 6 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 38.91333 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: 13480 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 32480 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -143.0 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 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 HOH B 544 LIES ON A SPECIAL POSITION. 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 GLY A 103 N - CA - C ANGL. DEV. = 17.4 DEGREES REMARK 500 PRO A 390 C - N - CA ANGL. DEV. = 13.9 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 ALA A 78 -152.09 -168.65 REMARK 500 ASP A 97 172.53 -49.83 REMARK 500 ASN A 104 37.97 104.52 REMARK 500 ARG A 112 -71.83 -74.90 REMARK 500 ASP A 166 0.77 -63.53 REMARK 500 ASN A 227 -40.12 80.02 REMARK 500 TYR A 294 42.95 -92.93 REMARK 500 TYR A 314 100.80 -167.54 REMARK 500 LYS A 319 27.14 -78.20 REMARK 500 PRO A 390 -19.80 -37.70 REMARK 500 GLU A 422 50.42 -95.61 REMARK 500 LYS A 466 -129.31 -100.15 REMARK 500 LEU B 9 58.02 -117.38 REMARK 500 ARG B 32 -75.64 -57.40 REMARK 500 LYS B 42 -78.37 -54.66 REMARK 500 PRO B 48 4.35 -56.33 REMARK 500 GLU B 57 -75.20 -58.70 REMARK 500 ASP B 97 171.15 -57.65 REMARK 500 PHE B 107 -21.92 -38.65 REMARK 500 PRO B 140 -167.87 -102.24 REMARK 500 ASP B 166 -59.20 -28.30 REMARK 500 ASP B 167 8.63 -66.88 REMARK 500 ASN B 227 -44.73 72.90 REMARK 500 TYR B 294 45.02 -96.86 REMARK 500 TYR B 314 106.33 -162.10 REMARK 500 THR B 401 -73.08 -53.42 REMARK 500 GLU B 422 48.84 -93.50 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: PLANAR GROUPS REMARK 500 REMARK 500 PLANAR GROUPS IN THE FOLLOWING RESIDUES HAVE A TOTAL REMARK 500 RMS DISTANCE OF ALL ATOMS FROM THE BEST-FIT PLANE REMARK 500 BY MORE THAN AN EXPECTED VALUE OF 6*RMSD, WITH AN REMARK 500 RMSD 0.02 ANGSTROMS, OR AT LEAST ONE ATOM HAS REMARK 500 AN RMSD GREATER THAN THIS VALUE REMARK 500 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 500 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 M RES CSSEQI RMS TYPE REMARK 500 TYR A 187 0.07 SIDE CHAIN REMARK 500 TYR A 445 0.07 SIDE CHAIN REMARK 500 TYR B 187 0.06 SIDE CHAIN 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 SO4 A 505 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 A 507 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 B 505 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 B 507 DBREF 1PGJ A 1 478 UNP P31072 6PGD_TRYBB 2 479 DBREF 1PGJ B 1 478 UNP P31072 6PGD_TRYBB 2 479 SEQRES 1 A 478 SER MET ASP VAL GLY VAL VAL GLY LEU GLY VAL MET GLY SEQRES 2 A 478 ALA ASN LEU ALA LEU ASN ILE ALA GLU LYS GLY PHE LYS SEQRES 3 A 478 VAL ALA VAL PHE ASN ARG THR TYR SER LYS SER GLU GLU SEQRES 4 A 478 PHE MET LYS ALA ASN ALA SER ALA PRO PHE ALA GLY ASN SEQRES 5 A 478 LEU LYS ALA PHE GLU THR MET GLU ALA PHE ALA ALA SER SEQRES 6 A 478 LEU LYS LYS PRO ARG LYS ALA LEU ILE LEU VAL GLN ALA SEQRES 7 A 478 GLY ALA ALA THR ASP SER THR ILE GLU GLN LEU LYS LYS SEQRES 8 A 478 VAL PHE GLU LYS GLY ASP ILE LEU VAL ASP THR GLY ASN SEQRES 9 A 478 ALA HIS PHE LYS ASP GLN GLY ARG ARG ALA GLN GLN LEU SEQRES 10 A 478 GLU ALA ALA GLY LEU ARG PHE LEU GLY MET GLY ILE SER SEQRES 11 A 478 GLY GLY GLU GLU GLY ALA ARG LYS GLY PRO ALA PHE PHE SEQRES 12 A 478 PRO GLY GLY THR LEU SER VAL TRP GLU GLU ILE ARG PRO SEQRES 13 A 478 ILE VAL GLU ALA ALA ALA ALA LYS ALA ASP ASP GLY ARG SEQRES 14 A 478 PRO CYS VAL THR MET ASN GLY SER GLY GLY ALA GLY SER SEQRES 15 A 478 CYS VAL LYS MET TYR HIS ASN SER GLY GLU TYR ALA ILE SEQRES 16 A 478 LEU GLN ILE TRP GLY GLU VAL PHE ASP ILE LEU ARG ALA SEQRES 17 A 478 MET GLY LEU ASN ASN ASP GLU VAL ALA ALA VAL LEU GLU SEQRES 18 A 478 ASP TRP LYS SER LYS ASN PHE LEU LYS SER TYR MET LEU SEQRES 19 A 478 ASP ILE SER ILE ALA ALA ALA ARG ALA LYS ASP LYS ASP SEQRES 20 A 478 GLY SER TYR LEU THR GLU HIS VAL MET ASP ARG ILE GLY SEQRES 21 A 478 SER LYS GLY THR GLY LEU TRP SER ALA GLN GLU ALA LEU SEQRES 22 A 478 GLU ILE GLY VAL PRO ALA PRO SER LEU ASN MET ALA VAL SEQRES 23 A 478 VAL SER ARG GLN PHE THR MET TYR LYS THR GLU ARG GLN SEQRES 24 A 478 ALA ASN ALA SER ASN ALA PRO GLY ILE THR GLN SER PRO SEQRES 25 A 478 GLY TYR THR LEU LYS ASN LYS SER PRO SER GLY PRO GLU SEQRES 26 A 478 ILE LYS GLN LEU TYR ASP SER VAL CYS ILE ALA ILE ILE SEQRES 27 A 478 SER CYS TYR ALA GLN MET PHE GLN CYS LEU ARG GLU MET SEQRES 28 A 478 ASP LYS VAL HIS ASN PHE GLY LEU ASN LEU PRO ALA THR SEQRES 29 A 478 ILE ALA THR PHE ARG ALA GLY CYS ILE LEU GLN GLY TYR SEQRES 30 A 478 LEU LEU LYS PRO MET THR GLU ALA PHE GLU LYS ASN PRO SEQRES 31 A 478 ASN ILE SER ASN LEU MET CYS ALA PHE GLN THR GLU ILE SEQRES 32 A 478 ARG ALA GLY LEU GLN ASN TYR ARG ASP MET VAL ALA LEU SEQRES 33 A 478 ILE THR SER LYS LEU GLU VAL SER ILE PRO VAL LEU SER SEQRES 34 A 478 ALA SER LEU ASN TYR VAL THR ALA MET PHE THR PRO THR SEQRES 35 A 478 LEU LYS TYR GLY GLN LEU VAL SER LEU GLN ARG ASP VAL SEQRES 36 A 478 PHE GLY ARG HIS GLY TYR GLU ARG VAL ASP LYS ASP GLY SEQRES 37 A 478 ARG GLU SER PHE GLN TRP PRO GLU LEU GLN SEQRES 1 B 478 SER MET ASP VAL GLY VAL VAL GLY LEU GLY VAL MET GLY SEQRES 2 B 478 ALA ASN LEU ALA LEU ASN ILE ALA GLU LYS GLY PHE LYS SEQRES 3 B 478 VAL ALA VAL PHE ASN ARG THR TYR SER LYS SER GLU GLU SEQRES 4 B 478 PHE MET LYS ALA ASN ALA SER ALA PRO PHE ALA GLY ASN SEQRES 5 B 478 LEU LYS ALA PHE GLU THR MET GLU ALA PHE ALA ALA SER SEQRES 6 B 478 LEU LYS LYS PRO ARG LYS ALA LEU ILE LEU VAL GLN ALA SEQRES 7 B 478 GLY ALA ALA THR ASP SER THR ILE GLU GLN LEU LYS LYS SEQRES 8 B 478 VAL PHE GLU LYS GLY ASP ILE LEU VAL ASP THR GLY ASN SEQRES 9 B 478 ALA HIS PHE LYS ASP GLN GLY ARG ARG ALA GLN GLN LEU SEQRES 10 B 478 GLU ALA ALA GLY LEU ARG PHE LEU GLY MET GLY ILE SER SEQRES 11 B 478 GLY GLY GLU GLU GLY ALA ARG LYS GLY PRO ALA PHE PHE SEQRES 12 B 478 PRO GLY GLY THR LEU SER VAL TRP GLU GLU ILE ARG PRO SEQRES 13 B 478 ILE VAL GLU ALA ALA ALA ALA LYS ALA ASP ASP GLY ARG SEQRES 14 B 478 PRO CYS VAL THR MET ASN GLY SER GLY GLY ALA GLY SER SEQRES 15 B 478 CYS VAL LYS MET TYR HIS ASN SER GLY GLU TYR ALA ILE SEQRES 16 B 478 LEU GLN ILE TRP GLY GLU VAL PHE ASP ILE LEU ARG ALA SEQRES 17 B 478 MET GLY LEU ASN ASN ASP GLU VAL ALA ALA VAL LEU GLU SEQRES 18 B 478 ASP TRP LYS SER LYS ASN PHE LEU LYS SER TYR MET LEU SEQRES 19 B 478 ASP ILE SER ILE ALA ALA ALA ARG ALA LYS ASP LYS ASP SEQRES 20 B 478 GLY SER TYR LEU THR GLU HIS VAL MET ASP ARG ILE GLY SEQRES 21 B 478 SER LYS GLY THR GLY LEU TRP SER ALA GLN GLU ALA LEU SEQRES 22 B 478 GLU ILE GLY VAL PRO ALA PRO SER LEU ASN MET ALA VAL SEQRES 23 B 478 VAL SER ARG GLN PHE THR MET TYR LYS THR GLU ARG GLN SEQRES 24 B 478 ALA ASN ALA SER ASN ALA PRO GLY ILE THR GLN SER PRO SEQRES 25 B 478 GLY TYR THR LEU LYS ASN LYS SER PRO SER GLY PRO GLU SEQRES 26 B 478 ILE LYS GLN LEU TYR ASP SER VAL CYS ILE ALA ILE ILE SEQRES 27 B 478 SER CYS TYR ALA GLN MET PHE GLN CYS LEU ARG GLU MET SEQRES 28 B 478 ASP LYS VAL HIS ASN PHE GLY LEU ASN LEU PRO ALA THR SEQRES 29 B 478 ILE ALA THR PHE ARG ALA GLY CYS ILE LEU GLN GLY TYR SEQRES 30 B 478 LEU LEU LYS PRO MET THR GLU ALA PHE GLU LYS ASN PRO SEQRES 31 B 478 ASN ILE SER ASN LEU MET CYS ALA PHE GLN THR GLU ILE SEQRES 32 B 478 ARG ALA GLY LEU GLN ASN TYR ARG ASP MET VAL ALA LEU SEQRES 33 B 478 ILE THR SER LYS LEU GLU VAL SER ILE PRO VAL LEU SER SEQRES 34 B 478 ALA SER LEU ASN TYR VAL THR ALA MET PHE THR PRO THR SEQRES 35 B 478 LEU LYS TYR GLY GLN LEU VAL SER LEU GLN ARG ASP VAL SEQRES 36 B 478 PHE GLY ARG HIS GLY TYR GLU ARG VAL ASP LYS ASP GLY SEQRES 37 B 478 ARG GLU SER PHE GLN TRP PRO GLU LEU GLN HET SO4 A 505 5 HET SO4 A 507 5 HET SO4 B 505 5 HET SO4 B 507 5 HETNAM SO4 SULFATE ION FORMUL 3 SO4 4(O4 S 2-) FORMUL 7 HOH *129(H2 O) HELIX 1 A VAL A 11 GLU A 22 1 12 HELIX 2 B TYR A 34 ALA A 43 1 10 HELIX 3 C MET A 59 SER A 65 1 7 HELIX 4 D ALA A 80 VAL A 92 1 13 HELIX 5 E PHE A 107 GLU A 118 1 12 HELIX 6 F GLY A 132 LYS A 138 1 7 HELIX 7 G LEU A 148 ALA A 161 1BENT BY PRO A 156 14 HELIX 8 H ALA A 180 ALA A 208 1 29 HELIX 9 I ASN A 213 SER A 225 1 13 HELIX 10 J TYR A 232 ARG A 242 1 11 HELIX 11 J* LEU A 251 HIS A 254 5 4 HELIX 12 K THR A 264 ILE A 275 1 12 HELIX 13 L PRO A 280 MET A 293 1 14 HELIX 14 M LYS A 295 ASN A 304 1 10 HELIX 15 N PRO A 324 HIS A 355 1 32 HELIX 16 O LEU A 361 ALA A 366 1 6 HELIX 17 P LEU A 379 LYS A 388 1 10 HELIX 18 Q GLN A 400 LYS A 420 1BENT AT GLY A 406 21 HELIX 19 R PRO A 426 MET A 438 1 13 HELIX 20 S TYR A 445 GLY A 457 1 13 HELIX 21 AA VAL B 11 GLU B 22 1 12 HELIX 22 BB TYR B 34 ALA B 43 1 10 HELIX 23 CC MET B 59 SER B 65 1 7 HELIX 24 DD ALA B 80 VAL B 92 1 13 HELIX 25 EE PHE B 107 ALA B 119 1 13 HELIX 26 FF GLY B 132 LYS B 138 1 7 HELIX 27 GG LEU B 148 ALA B 161 1BENT BY PRO B 156 14 HELIX 28 HH ALA B 180 ALA B 208 1 29 HELIX 29 II ASN B 213 SER B 225 1 13 HELIX 30 JJ TYR B 232 ARG B 242 1 11 HELIX 31 JJ* LEU B 251 HIS B 254 5 4 HELIX 32 KK THR B 264 ILE B 275 1 12 HELIX 33 LL PRO B 280 MET B 293 1 14 HELIX 34 MM LYS B 295 ASN B 304 1 10 HELIX 35 NN PRO B 324 HIS B 355 1 32 HELIX 36 OO LEU B 361 ALA B 366 1 6 HELIX 37 PP LEU B 379 LYS B 388 1 10 HELIX 38 QQ* LEU B 395 ALA B 398 5 4 HELIX 39 QQ GLN B 400 LYS B 420 1BENT AT GLY B 406 21 HELIX 40 RR PRO B 426 MET B 438 1 13 HELIX 41 SS TYR B 445 GLY B 457 1 13 SHEET 1 A 7 LEU A 53 ALA A 55 0 SHEET 2 A 7 VAL A 27 PHE A 30 1 O VAL A 27 N LYS A 54 SHEET 3 A 7 VAL A 4 VAL A 7 1 O VAL A 4 N ALA A 28 SHEET 4 A 7 LYS A 71 ILE A 74 1 O LYS A 71 N GLY A 5 SHEET 5 A 7 ILE A 98 ASP A 101 1 O ILE A 98 N ALA A 72 SHEET 6 A 7 ARG A 123 SER A 130 1 O ARG A 123 N LEU A 99 SHEET 7 A 7 ALA A 141 GLY A 146 -1 O ALA A 141 N SER A 130 SHEET 1 B 7 LEU B 53 ALA B 55 0 SHEET 2 B 7 VAL B 27 PHE B 30 1 O VAL B 27 N LYS B 54 SHEET 3 B 7 VAL B 4 VAL B 7 1 O VAL B 4 N ALA B 28 SHEET 4 B 7 LYS B 71 ILE B 74 1 O LYS B 71 N GLY B 5 SHEET 5 B 7 ILE B 98 ASP B 101 1 O ILE B 98 N ALA B 72 SHEET 6 B 7 ARG B 123 SER B 130 1 O ARG B 123 N LEU B 99 SHEET 7 B 7 ALA B 141 GLY B 146 -1 O ALA B 141 N SER B 130 CISPEP 1 LYS A 68 PRO A 69 0 0.04 CISPEP 2 LYS B 68 PRO B 69 0 0.45 SITE 1 AC1 7 TYR A 193 SER A 261 LYS A 262 ARG A 289 SITE 2 AC1 7 HOH A 542 ARG B 453 HIS B 459 SITE 1 AC2 5 ASN A 104 LYS A 185 ASN A 189 HOH A 519 SITE 2 AC2 5 HOH A 555 SITE 1 AC3 7 ARG A 453 HIS A 459 TYR B 193 SER B 261 SITE 2 AC3 7 LYS B 262 ARG B 289 HOH B 554 SITE 1 AC4 4 ASN B 104 LYS B 185 ASN B 189 HOH B 521 CRYST1 135.130 135.130 116.740 90.00 90.00 120.00 P 31 2 1 12 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 0.007400 0.004273 0.000000 0.00000 SCALE2 0.000000 0.008545 0.000000 0.00000 SCALE3 0.000000 0.000000 0.008566 0.00000 MTRIX1 1 0.481790 -0.853650 -0.197890 11.74451 1 MTRIX2 1 -0.852960 -0.508610 0.117370 -9.59825 1 MTRIX3 1 -0.200840 0.112250 -0.973170 128.33745 1