HEADER HYDROLASE 24-MAR-20 5RDJ TITLE PANDDA ANALYSIS GROUP DEPOSITION -- ENDOTHIAPEPSIN GROUND STATE MODEL TITLE 2 43 COMPND MOL_ID: 1; COMPND 2 MOLECULE: ENDOTHIAPEPSIN; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: ASPARTATE PROTEASE; COMPND 5 EC: 3.4.23.22 SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: CRYPHONECTRIA PARASITICA; SOURCE 3 ORGANISM_COMMON: CHESTNUT BLIGHT FUNGUS; SOURCE 4 ORGANISM_TAXID: 5116 KEYWDS FRAGMAX, FRAGMAXAPP, FRAGMENT SCREENING, HYDROLASE, INHIBITION, F2X- KEYWDS 2 ENTRY EXPDTA X-RAY DIFFRACTION AUTHOR M.S.WEISS,J.WOLLENHAUPT,A.METZ,T.BARTHEL,G.M.A.LIMA,A.HEINE, AUTHOR 2 U.MUELLER,G.KLEBE REVDAT 3 09-OCT-24 5RDJ 1 REMARK REVDAT 2 17-JUN-20 5RDJ 1 JRNL REVDAT 1 03-JUN-20 5RDJ 0 JRNL AUTH J.WOLLENHAUPT,A.METZ,T.BARTHEL,G.M.A.LIMA,A.HEINE,U.MUELLER, JRNL AUTH 2 G.KLEBE,M.S.WEISS JRNL TITL F2X-UNIVERSAL AND F2X-ENTRY: STRUCTURALLY DIVERSE COMPOUND JRNL TITL 2 LIBRARIES FOR CRYSTALLOGRAPHIC FRAGMENT SCREENING. JRNL REF STRUCTURE V. 28 694 2020 JRNL REFN ISSN 0969-2126 JRNL PMID 32413289 JRNL DOI 10.1016/J.STR.2020.04.019 REMARK 2 REMARK 2 RESOLUTION. 0.93 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.8.0238 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) : 0.93 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 42.80 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 92.6 REMARK 3 NUMBER OF REFLECTIONS : 190783 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) : 0.151 REMARK 3 R VALUE (WORKING SET) : 0.151 REMARK 3 FREE R VALUE : 0.151 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 10201 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) : 0.93 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 0.95 REMARK 3 REFLECTION IN BIN (WORKING SET) : 7777 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 50.90 REMARK 3 BIN R VALUE (WORKING SET) : 0.1510 REMARK 3 BIN FREE R VALUE SET COUNT : 10201 REMARK 3 BIN FREE R VALUE : 0.1513 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2369 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 57 REMARK 3 SOLVENT ATOMS : 334 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 14.04 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 12.21 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.20000 REMARK 3 B22 (A**2) : 0.28000 REMARK 3 B33 (A**2) : 0.10000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : -0.29000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.018 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.019 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.015 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 0.291 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.979 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.975 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 2590 ; 0.018 ; 0.013 REMARK 3 BOND LENGTHS OTHERS (A): 2260 ; 0.001 ; 0.017 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 3557 ; 1.956 ; 1.636 REMARK 3 BOND ANGLES OTHERS (DEGREES): 5277 ; 1.633 ; 1.559 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 365 ; 6.886 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 84 ;30.138 ;24.881 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 339 ; 8.546 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 1 ;16.988 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 377 ; 0.107 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 2986 ; 0.010 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 529 ; 0.002 ; 0.020 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): 1381 ; 1.086 ; 1.110 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 1378 ; 1.081 ; 1.108 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 1738 ; 1.513 ; 1.678 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL 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 : MASK REMARK 3 PARAMETERS FOR MASK CALCULATION REMARK 3 VDW PROBE RADIUS : 1.20 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 : REFINED INDIVIDUALLY REMARK 4 REMARK 4 5RDJ COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 22-MAY-20. REMARK 100 THE DEPOSITION ID IS D_1001403083. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 30-MAR-19 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 4.6 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : MAX IV REMARK 200 BEAMLINE : BIOMAX REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.827 REMARK 200 MONOCHROMATOR : SI(111) REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS EIGER X 16M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : XSCALE REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 190783 REMARK 200 RESOLUTION RANGE HIGH (A) : 0.930 REMARK 200 RESOLUTION RANGE LOW (A) : 42.800 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 92.5 REMARK 200 DATA REDUNDANCY : 6.137 REMARK 200 R MERGE (I) : 0.04100 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 17.0600 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 0.93 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 0.98 REMARK 200 COMPLETENESS FOR SHELL (%) : 0.6 REMARK 200 DATA REDUNDANCY IN SHELL : 2.38 REMARK 200 R MERGE FOR SHELL (I) : 1.30900 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 0.650 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: FOURIER SYNTHESIS REMARK 200 SOFTWARE USED: REFMAC 5.8.0238 REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 34.95 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 1.89 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.1 M AMMONIUM ACETATE, 0.1 M SODIUM REMARK 280 ACETATE, 24-30% PEG 4000, PH 4.6, VAPOR DIFFUSION, SITTING DROP, REMARK 280 TEMPERATURE 290K 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 36.51850 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 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 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA 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 MET A -88 REMARK 465 SER A -87 REMARK 465 SER A -86 REMARK 465 PRO A -85 REMARK 465 LEU A -84 REMARK 465 LYS A -83 REMARK 465 ASN A -82 REMARK 465 ALA A -81 REMARK 465 LEU A -80 REMARK 465 VAL A -79 REMARK 465 THR A -78 REMARK 465 ALA A -77 REMARK 465 MET A -76 REMARK 465 LEU A -75 REMARK 465 ALA A -74 REMARK 465 GLY A -73 REMARK 465 GLY A -72 REMARK 465 ALA A -71 REMARK 465 LEU A -70 REMARK 465 SER A -69 REMARK 465 SER A -68 REMARK 465 PRO A -67 REMARK 465 THR A -66 REMARK 465 LYS A -65 REMARK 465 GLN A -64 REMARK 465 HIS A -63 REMARK 465 VAL A -62 REMARK 465 GLY A -61 REMARK 465 ILE A -60 REMARK 465 PRO A -59 REMARK 465 VAL A -58 REMARK 465 ASN A -57 REMARK 465 ALA A -56 REMARK 465 SER A -55 REMARK 465 PRO A -54 REMARK 465 GLU A -53 REMARK 465 VAL A -52 REMARK 465 GLY A -51 REMARK 465 PRO A -50 REMARK 465 GLY A -49 REMARK 465 LYS A -48 REMARK 465 TYR A -47 REMARK 465 SER A -46 REMARK 465 PHE A -45 REMARK 465 LYS A -44 REMARK 465 GLN A -43 REMARK 465 VAL A -42 REMARK 465 ARG A -41 REMARK 465 ASN A -40 REMARK 465 PRO A -39 REMARK 465 ASN A -38 REMARK 465 TYR A -37 REMARK 465 LYS A -36 REMARK 465 PHE A -35 REMARK 465 ASN A -34 REMARK 465 GLY A -33 REMARK 465 PRO A -32 REMARK 465 LEU A -31 REMARK 465 SER A -30 REMARK 465 VAL A -29 REMARK 465 LYS A -28 REMARK 465 LYS A -27 REMARK 465 THR A -26 REMARK 465 TYR A -25 REMARK 465 LEU A -24 REMARK 465 LYS A -23 REMARK 465 TYR A -22 REMARK 465 GLY A -21 REMARK 465 VAL A -20 REMARK 465 PRO A -19 REMARK 465 ILE A -18 REMARK 465 PRO A -17 REMARK 465 ALA A -16 REMARK 465 TRP A -15 REMARK 465 LEU A -14 REMARK 465 GLU A -13 REMARK 465 ASP A -12 REMARK 465 ALA A -11 REMARK 465 VAL A -10 REMARK 465 GLN A -9 REMARK 465 ASN A -8 REMARK 465 SER A -7 REMARK 465 THR A -6 REMARK 465 SER A -5 REMARK 465 GLY A -4 REMARK 465 LEU A -3 REMARK 465 ALA A -2 REMARK 465 GLU A -1 REMARK 465 ARG A 0 REMARK 470 REMARK 470 MISSING ATOM REMARK 470 THE FOLLOWING RESIDUES HAVE MISSING ATOMS (M=MODEL NUMBER; REMARK 470 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 470 I=INSERTION CODE): REMARK 470 M RES CSSEQI ATOMS REMARK 470 LYS A 63 CE NZ REMARK 470 LYS A 68 CD CE NZ REMARK 470 LYS A 110 CE NZ REMARK 470 LYS A 111 CD CE NZ REMARK 470 LYS A 142 CE NZ REMARK 470 LYS A 149 CE NZ REMARK 470 LYS A 191 CG CD CE NZ REMARK 470 LYS A 243 CE NZ 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 O ACT A 404 O HOH A 501 1.91 REMARK 500 O HOH A 743 O HOH A 788 2.00 REMARK 500 O HOH A 748 O HOH A 794 2.03 REMARK 500 O HOH A 722 O HOH A 761 2.07 REMARK 500 OXT ACT A 404 O HOH A 502 2.17 REMARK 500 O HOH A 532 O HOH A 749 2.17 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 O HOH A 726 O HOH A 788 1455 1.63 REMARK 500 O HOH A 688 O HOH A 733 1656 1.90 REMARK 500 O HOH A 781 O HOH A 784 2747 1.97 REMARK 500 O HOH A 728 O HOH A 784 2747 2.05 REMARK 500 O HOH A 508 O HOH A 767 1556 2.10 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 ARG A 270 NE - CZ - NH1 ANGL. DEV. = 5.6 DEGREES REMARK 500 ARG A 270 NE - CZ - NH2 ANGL. DEV. = -4.0 DEGREES REMARK 500 ALA A 298 CB - CA - C ANGL. DEV. = 9.6 DEGREES 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 NA A 408 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 PG4 A 407 O1 REMARK 620 2 PG4 A 407 O2 57.6 REMARK 620 3 PG4 A 407 O4 139.6 108.3 REMARK 620 4 PG4 A 407 O5 107.3 139.9 56.7 REMARK 620 N 1 2 3 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 401 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue GOL A 402 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue GOL A 403 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue ACT A 404 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue ACT A 405 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue PGE A 406 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue PG4 A 407 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue NA A 408 DBREF 5RDJ A -88 330 UNP P11838 CARP_CRYPA 1 419 SEQRES 1 A 419 MET SER SER PRO LEU LYS ASN ALA LEU VAL THR ALA MET SEQRES 2 A 419 LEU ALA GLY GLY ALA LEU SER SER PRO THR LYS GLN HIS SEQRES 3 A 419 VAL GLY ILE PRO VAL ASN ALA SER PRO GLU VAL GLY PRO SEQRES 4 A 419 GLY LYS TYR SER PHE LYS GLN VAL ARG ASN PRO ASN TYR SEQRES 5 A 419 LYS PHE ASN GLY PRO LEU SER VAL LYS LYS THR TYR LEU SEQRES 6 A 419 LYS TYR GLY VAL PRO ILE PRO ALA TRP LEU GLU ASP ALA SEQRES 7 A 419 VAL GLN ASN SER THR SER GLY LEU ALA GLU ARG SER THR SEQRES 8 A 419 GLY SER ALA THR THR THR PRO ILE ASP SER LEU ASP ASP SEQRES 9 A 419 ALA TYR ILE THR PRO VAL GLN ILE GLY THR PRO ALA GLN SEQRES 10 A 419 THR LEU ASN LEU ASP PHE ASP THR GLY SER SER ASP LEU SEQRES 11 A 419 TRP VAL PHE SER SER GLU THR THR ALA SER GLU VAL ASP SEQRES 12 A 419 GLY GLN THR ILE TYR THR PRO SER LYS SER THR THR ALA SEQRES 13 A 419 LYS LEU LEU SER GLY ALA THR TRP SER ILE SER TYR GLY SEQRES 14 A 419 ASP GLY SER SER SER SER GLY ASP VAL TYR THR ASP THR SEQRES 15 A 419 VAL SER VAL GLY GLY LEU THR VAL THR GLY GLN ALA VAL SEQRES 16 A 419 GLU SER ALA LYS LYS VAL SER SER SER PHE THR GLU ASP SEQRES 17 A 419 SER THR ILE ASP GLY LEU LEU GLY LEU ALA PHE SER THR SEQRES 18 A 419 LEU ASN THR VAL SER PRO THR GLN GLN LYS THR PHE PHE SEQRES 19 A 419 ASP ASN ALA LYS ALA SER LEU ASP SER PRO VAL PHE THR SEQRES 20 A 419 ALA ASP LEU GLY TYR HIS ALA PRO GLY THR TYR ASN PHE SEQRES 21 A 419 GLY PHE ILE ASP THR THR ALA TYR THR GLY SER ILE THR SEQRES 22 A 419 TYR THR ALA VAL SER THR LYS GLN GLY PHE TRP GLU TRP SEQRES 23 A 419 THR SER THR GLY TYR ALA VAL GLY SER GLY THR PHE LYS SEQRES 24 A 419 SER THR SER ILE ASP GLY ILE ALA ASP THR GLY THR THR SEQRES 25 A 419 LEU LEU TYR LEU PRO ALA THR VAL VAL SER ALA TYR TRP SEQRES 26 A 419 ALA GLN VAL SER GLY ALA LYS SER SER SER SER VAL GLY SEQRES 27 A 419 GLY TYR VAL PHE PRO CYS SER ALA THR LEU PRO SER PHE SEQRES 28 A 419 THR PHE GLY VAL GLY SER ALA ARG ILE VAL ILE PRO GLY SEQRES 29 A 419 ASP TYR ILE ASP PHE GLY PRO ILE SER THR GLY SER SER SEQRES 30 A 419 SER CYS PHE GLY GLY ILE GLN SER SER ALA GLY ILE GLY SEQRES 31 A 419 ILE ASN ILE PHE GLY ASP VAL ALA LEU LYS ALA ALA PHE SEQRES 32 A 419 VAL VAL PHE ASN GLY ALA THR THR PRO THR LEU GLY PHE SEQRES 33 A 419 ALA SER LYS HET GOL A 401 6 HET GOL A 402 12 HET GOL A 403 6 HET ACT A 404 4 HET ACT A 405 4 HET PGE A 406 10 HET PG4 A 407 13 HET NA A 408 1 HET PEG A 409 7 HETNAM GOL GLYCEROL HETNAM ACT ACETATE ION HETNAM PGE TRIETHYLENE GLYCOL HETNAM PG4 TETRAETHYLENE GLYCOL HETNAM NA SODIUM ION HETNAM PEG DI(HYDROXYETHYL)ETHER HETSYN GOL GLYCERIN; PROPANE-1,2,3-TRIOL FORMUL 2 GOL 3(C3 H8 O3) FORMUL 5 ACT 2(C2 H3 O2 1-) FORMUL 7 PGE C6 H14 O4 FORMUL 8 PG4 C8 H18 O5 FORMUL 9 NA NA 1+ FORMUL 10 PEG C4 H10 O3 FORMUL 11 HOH *334(H2 O) HELIX 1 AA1 THR A 49 VAL A 53 5 5 HELIX 2 AA2 THR A 60 SER A 64 5 5 HELIX 3 AA3 SER A 113 GLU A 118 1 6 HELIX 4 AA4 PHE A 130 ASN A 134 5 5 HELIX 5 AA5 THR A 143 LYS A 149 1 7 HELIX 6 AA6 PRO A 228 ALA A 237 1 10 HELIX 7 AA7 PRO A 274 TYR A 277 5 4 HELIX 8 AA8 GLY A 306 LYS A 311 1 6 SHEET 1 AA1 9 LYS A 68 SER A 78 0 SHEET 2 AA1 9 SER A 84 VAL A 96 -1 O VAL A 89 N LEU A 70 SHEET 3 AA1 9 TYR A 17 ILE A 23 -1 N GLN A 22 O SER A 95 SHEET 4 AA1 9 GLY A 3 PRO A 9 -1 N THR A 8 O ILE A 18 SHEET 5 AA1 9 GLY A 167 PHE A 171 -1 O PHE A 171 N GLY A 3 SHEET 6 AA1 9 VAL A 156 ASP A 160 -1 N THR A 158 O ASN A 170 SHEET 7 AA1 9 PHE A 314 ASN A 318 -1 O PHE A 317 N PHE A 157 SHEET 8 AA1 9 THR A 324 ALA A 328 -1 O GLY A 326 N VAL A 316 SHEET 9 AA1 9 THR A 184 ALA A 187 -1 N THR A 186 O LEU A 325 SHEET 1 AA213 LYS A 68 SER A 78 0 SHEET 2 AA213 SER A 84 VAL A 96 -1 O VAL A 89 N LEU A 70 SHEET 3 AA213 LEU A 99 VAL A 112 -1 O VAL A 106 N TYR A 90 SHEET 4 AA213 LEU A 41 VAL A 43 1 N LEU A 41 O GLU A 107 SHEET 5 AA213 GLY A 124 GLY A 127 -1 O LEU A 125 N TRP A 42 SHEET 6 AA213 GLN A 28 ASP A 35 1 N ASP A 35 O LEU A 126 SHEET 7 AA213 TYR A 17 ILE A 23 -1 N ILE A 23 O GLN A 28 SHEET 8 AA213 GLY A 3 PRO A 9 -1 N THR A 8 O ILE A 18 SHEET 9 AA213 GLY A 167 PHE A 171 -1 O PHE A 171 N GLY A 3 SHEET 10 AA213 VAL A 156 ASP A 160 -1 N THR A 158 O ASN A 170 SHEET 11 AA213 PHE A 314 ASN A 318 -1 O PHE A 317 N PHE A 157 SHEET 12 AA213 THR A 324 ALA A 328 -1 O GLY A 326 N VAL A 316 SHEET 13 AA213 THR A 184 ALA A 187 -1 N THR A 186 O LEU A 325 SHEET 1 AA3 7 ALA A 269 ILE A 273 0 SHEET 2 AA3 7 PHE A 262 VAL A 266 -1 N PHE A 262 O ILE A 273 SHEET 3 AA3 7 GLU A 196 VAL A 204 -1 N ALA A 203 O THR A 263 SHEET 4 AA3 7 LYS A 210 ALA A 218 -1 O LYS A 210 N TYR A 202 SHEET 5 AA3 7 ASN A 303 PHE A 305 1 O PHE A 305 N ILE A 217 SHEET 6 AA3 7 LEU A 225 LEU A 227 -1 N TYR A 226 O ILE A 304 SHEET 7 AA3 7 ILE A 294 SER A 296 1 O GLN A 295 N LEU A 225 SHEET 1 AA4 4 LYS A 243 SER A 245 0 SHEET 2 AA4 4 GLY A 250 PRO A 254 -1 O VAL A 252 N LYS A 243 SHEET 3 AA4 4 SER A 289 GLY A 292 -1 O CYS A 290 N PHE A 253 SHEET 4 AA4 4 ASP A 279 PRO A 282 -1 N GLY A 281 O PHE A 291 SSBOND 1 CYS A 255 CYS A 290 1555 1555 2.06 LINK O1 PG4 A 407 NA NA A 408 1555 1555 3.02 LINK O2 PG4 A 407 NA NA A 408 1555 1555 3.05 LINK O4 PG4 A 407 NA NA A 408 1555 1555 3.01 LINK O5 PG4 A 407 NA NA A 408 1555 1555 2.73 CISPEP 1 THR A 25 PRO A 26 0 -8.57 CISPEP 2 SER A 137 PRO A 138 0 3.81 SITE 1 AC1 8 VAL A 272 PRO A 274 TYR A 277 ALA A 312 SITE 2 AC1 8 SER A 329 LYS A 330 HOH A 518 HOH A 646 SITE 1 AC2 8 SER A 297 ALA A 298 GLY A 301 ILE A 302 SITE 2 AC2 8 HOH A 504 HOH A 510 HOH A 621 HOH A 680 SITE 1 AC3 7 TRP A 236 VAL A 239 SER A 240 GLY A 241 SITE 2 AC3 7 ALA A 242 HOH A 503 HOH A 519 SITE 1 AC4 8 SER A 233 TYR A 251 HOH A 501 HOH A 502 SITE 2 AC4 8 HOH A 503 HOH A 515 HOH A 713 HOH A 719 SITE 1 AC5 7 CYS A 255 ASP A 279 GLY A 281 CYS A 290 SITE 2 AC5 7 HOH A 507 HOH A 535 HOH A 732 SITE 1 AC6 7 ALA A 187 SER A 189 GLU A 196 TRP A 197 SITE 2 AC6 7 THR A 198 ASP A 215 HOH A 745 SITE 1 AC7 4 ASP A 15 PHE A 280 ILE A 283 NA A 408 SITE 1 AC8 1 PG4 A 407 CRYST1 45.300 73.037 52.400 90.00 109.26 90.00 P 1 21 1 2 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 0.022075 0.000000 0.007715 0.00000 SCALE2 0.000000 0.013692 0.000000 0.00000 SCALE3 0.000000 0.000000 0.020216 0.00000