10 20 30 40 50 60 70 80 3PEP - Header ----|----|----|----|----|----|----|----|----|----|----|----|----|----|----|----| Asymmetric UnitHEADER HYDROLASE (ACID PROTEINASE) 24-OCT-89 3PEP
TITLE REVISED 2.3 ANGSTROMS STRUCTURE OF PORCINE PEPSIN. EVIDENCE TITLE 2 FOR A FLEXIBLE SUBDOMAIN
COMPND MOL_ID: 1; COMPND 2 MOLECULE: PEPSIN; COMPND 3 CHAIN: A; COMPND 4 EC: 3.4.23.1; COMPND 5 ENGINEERED: YES
SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: SUS SCROFA; SOURCE 3 ORGANISM_COMMON: PIG; SOURCE 4 ORGANISM_TAXID: 9823
KEYWDS HYDROLASE (ACID PROTEINASE)
EXPDTA X-RAY DIFFRACTION
AUTHOR C.ABAD-ZAPATERO,J.W.ERICKSON
REVDAT 3 24-FEB-09 3PEP 1 VERSN REVDAT 2 01-APR-03 3PEP 1 JRNL REVDAT 1 15-APR-90 3PEP 0
JRNL AUTH C.ABAD-ZAPATERO,T.J.RYDEL,J.ERICKSON JRNL TITL REVISED 2.3 A STRUCTURE OF PORCINE PEPSIN: JRNL TITL 2 EVIDENCE FOR A FLEXIBLE SUBDOMAIN JRNL REF PROTEINS V. 8 62 1990 JRNL REFN ISSN 0887-3585 JRNL PMID 2217165 JRNL DOI 10.1002/PROT.340080109
REMARK 1
REMARK 2 REMARK 2 RESOLUTION. 2.30 ANGSTROMS.
REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PROLSQ REMARK 3 AUTHORS : KONNERT,HENDRICKSON REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.30 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 5.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : NULL REMARK 3 NUMBER OF REFLECTIONS : 8742 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 CROSS-VALIDATION METHOD : NULL REMARK 3 FREE R VALUE TEST SET SELECTION : NULL REMARK 3 R VALUE (WORKING + TEST SET) : 0.171 REMARK 3 R VALUE (WORKING SET) : NULL 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 FIT/AGREEMENT OF MODEL WITH ALL DATA. 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 : 2429 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 0 REMARK 3 SOLVENT ATOMS : 212 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : NULL 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) : NULL REMARK 3 ESD FROM SIGMAA (A) : NULL REMARK 3 LOW RESOLUTION CUTOFF (A) : NULL REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 DISTANCE RESTRAINTS. RMS SIGMA REMARK 3 BOND LENGTH (A) : 0.018 ; 0.020 REMARK 3 ANGLE DISTANCE (A) : 0.052 ; 0.040 REMARK 3 INTRAPLANAR 1-4 DISTANCE (A) : 0.064 ; 0.050 REMARK 3 H-BOND OR METAL COORDINATION (A) : NULL ; NULL REMARK 3 REMARK 3 PLANE RESTRAINT (A) : 0.018 ; 0.020 REMARK 3 CHIRAL-CENTER RESTRAINT (A**3) : 0.165 ; 0.150 REMARK 3 REMARK 3 NON-BONDED CONTACT RESTRAINTS. REMARK 3 SINGLE TORSION (A) : NULL ; NULL REMARK 3 MULTIPLE TORSION (A) : NULL ; NULL REMARK 3 H-BOND (X...Y) (A) : NULL ; NULL REMARK 3 H-BOND (X-H...Y) (A) : 0.106 ; 0.500 REMARK 3 REMARK 3 CONFORMATIONAL TORSION ANGLE RESTRAINTS. REMARK 3 SPECIFIED (DEGREES) : NULL ; NULL REMARK 3 PLANAR (DEGREES) : 5.500 ; 3.000 REMARK 3 STAGGERED (DEGREES) : 19.200; 15.000 REMARK 3 TRANSVERSE (DEGREES) : NULL ; NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. RMS SIGMA REMARK 3 MAIN-CHAIN BOND (A**2) : 2.400 ; 1.000 REMARK 3 MAIN-CHAIN ANGLE (A**2) : 3.900 ; 1.500 REMARK 3 SIDE-CHAIN BOND (A**2) : 2.800 ; 1.500 REMARK 3 SIDE-CHAIN ANGLE (A**2) : 4.200 ; 2.000 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: THE DENSITY FOR HOH 757 IS ELONGATED REMARK 3 AND ITS SHAPE COULD VERY WELL CORRESPOND TO AN ETHANOL REMARK 3 MOLECULE (EOH 901). THE SAME IS TRUE FOR HOH 694 (EOH 902). REMARK 3 THUS THIS ENTRY CONTAINS TENTATIVE COORDINATES FOR TWO WELL- REMARK 3 DEFINED ETHANOL MOLECULES IN THE VICINITY OF THE ACTIVE SITE REMARK 3 (CORRESPONDING TO THESE TWO WATER MOLECULES). A THIRD, WEAKER, REMARK 3 ETHANOL COULD BE HYDROGEN BONDED TO ASP 32 BUT THE DENSITY IS REMARK 3 NOT UNEQUIVOCAL. THIS ETHANOL WOULD COMPRISE WATERS 452, 752, REMARK 3 AND 756. APPROXIMATELY 10 PER CENT OF THE SOLVENT MOLECULES REMARK 3 ARE PROBABLY ETHANOL MOLECULES. THE SPACE GROUP SETTING USED REMARK 3 IN THIS ANALYSIS IS THE FIRST SETTING FOR MONOCLINIC SPACE REMARK 3 GROUPS, WITH THE Z AXIS AS THE UNIQUE AXIS. FOR DETAILS PLEASE REMARK 3 CONSULT THE INTERNATIONAL TABLES FOR X-RAY CRYSTALLOGRAPHY. REMARK 3 THE ELECTRON DENSITY FOR RESIDUES 292 - 296 IS WEAK IN THE REMARK 3 FINAL MAP, INDICATING HIGH MOBILITY AND/OR DISORDER. THE REMARK 3 CONFORMATION FOR THESE RESIDUES SHOULD BE CONSIDERED AS REMARK 3 TENTATIVE. THE ELECTRON DENSITY IS ALSO WEAK FOR RESIDUES IN REMARK 3 THE TURN ASP 278 - SER 281.
REMARK 4 REMARK 4 3PEP COMPLIES WITH FORMAT V. 3.15, 01-DEC-08
REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY BNL.
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 <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: NULL REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL
REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 41.27 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.09 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: NULL
REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 1 1 21 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,-Y,Z+1/2 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 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 18.22000 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: 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 C2 EOH A 901 O HOH A 757 0.74 REMARK 500 C1 EOH A 901 O HOH A 757 0.86 REMARK 500 C2 EOH A 902 O HOH A 694 1.05 REMARK 500 C1 EOH A 902 O HOH A 694 2.16 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 VAL A 40 N VAL A 40 CA -0.203 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 THR A 22 CA - CB - CG2 ANGL. DEV. = -8.7 DEGREES REMARK 500 TRP A 39 CD1 - CG - CD2 ANGL. DEV. = 5.4 DEGREES REMARK 500 TRP A 39 CB - CG - CD1 ANGL. DEV. = -8.9 DEGREES REMARK 500 VAL A 40 N - CA - CB ANGL. DEV. = 16.1 DEGREES REMARK 500 VAL A 40 CA - C - O ANGL. DEV. = -22.3 DEGREES REMARK 500 VAL A 40 C - N - CA ANGL. DEV. = 26.1 DEGREES REMARK 500 VAL A 40 CA - C - N ANGL. DEV. = 24.6 DEGREES REMARK 500 TYR A 86 CB - CG - CD2 ANGL. DEV. = -3.8 DEGREES REMARK 500 ASP A 149 CB - CG - OD1 ANGL. DEV. = 5.9 DEGREES REMARK 500 ASP A 195 CB - CG - OD1 ANGL. DEV. = 5.4 DEGREES REMARK 500 ASP A 242 CB - CG - OD2 ANGL. DEV. = 5.8 DEGREES REMARK 500 CYS A 249 CA - CB - SG ANGL. DEV. = -10.9 DEGREES REMARK 500 ARG A 307 NE - CZ - NH2 ANGL. DEV. = 3.5 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 ASP A 11 22.94 46.76 REMARK 500 SER A 62 20.83 -66.47 REMARK 500 ASN A 98 68.53 33.55 REMARK 500 PRO A 108 -171.05 -67.62 REMARK 500 PRO A 116 -4.58 -59.00 REMARK 500 ALA A 124 -167.52 -101.90 REMARK 500 VAL A 136 -64.29 -25.13 REMARK 500 ASP A 159 71.56 60.14 REMARK 500 SER A 185 -76.10 -111.79 REMARK 500 MET A 199 -75.84 -90.79 REMARK 500 ALA A 205 -47.43 -152.69 REMARK 500 SER A 281 -147.98 -165.67 REMARK 500 THR A 293 -48.63 -13.86 REMARK 500 GLU A 297 86.43 -5.99 REMARK 500 ASN A 318 46.30 39.68 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: NON-CIS, NON-TRANS REMARK 500 REMARK 500 THE FOLLOWING PEPTIDE BONDS DEVIATE SIGNIFICANTLY FROM BOTH REMARK 500 CIS AND TRANS CONFORMATION. CIS BONDS, IF ANY, ARE LISTED REMARK 500 ON CISPEP RECORDS. TRANS IS DEFINED AS 180 +/- 30 AND REMARK 500 CIS IS DEFINED AS 0 +/- 30 DEGREES. REMARK 500 MODEL OMEGA REMARK 500 VAL A 40 PRO A 41 135.85 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 154 0.09 SIDE_CHAIN REMARK 500 TYR A 175 0.08 SIDE_CHAIN REMARK 500 TYR A 310 0.07 SIDE_CHAIN REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: MAIN CHAIN PLANARITY REMARK 500 REMARK 500 THE FOLLOWING RESIDUES HAVE A PSEUDO PLANARITY REMARK 500 TORSION, C(I) - CA(I) - N(I+1) - O(I), GREATER REMARK 500 10.0 DEGREES. (M=MODEL NUMBER; RES=RESIDUE NAME; REMARK 500 C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 500 I=INSERTION CODE). REMARK 500 REMARK 500 M RES CSSEQI ANGLE REMARK 500 VAL A 40 -13.75 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CHIRAL CENTERS REMARK 500 REMARK 500 UNEXPECTED CONFIGURATION OF THE FOLLOWING CHIRAL REMARK 500 CENTER(S) USING IMPROPER CA--C--CB--N CHIRALITY REMARK 500 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: (11X,I3,1X,A3,1X,A1,I4,A1,6X,F5.1,6X,A1,10X,A1,3X,A16) REMARK 500 REMARK 500 M RES CSSEQI IMPROPER EXPECTED FOUND DETAILS REMARK 500 VAL A 40 3.6 L D EXPECTING SP3 REMARK 500 REMARK 500 REMARK: NULL
REMARK 525 REMARK 525 SOLVENT REMARK 525 REMARK 525 THE SOLVENT MOLECULES HAVE CHAIN IDENTIFIERS THAT REMARK 525 INDICATE THE POLYMER CHAIN WITH WHICH THEY ARE MOST REMARK 525 CLOSELY ASSOCIATED. THE REMARK LISTS ALL THE SOLVENT REMARK 525 MOLECULES WHICH ARE MORE THAN 5A AWAY FROM THE REMARK 525 NEAREST POLYMER CHAIN (M = MODEL NUMBER; REMARK 525 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE REMARK 525 NUMBER; I=INSERTION CODE): REMARK 525 REMARK 525 M RES CSSEQI REMARK 525 HOH A 399 DISTANCE = 17.47 ANGSTROMS REMARK 525 HOH A 400 DISTANCE = 6.21 ANGSTROMS REMARK 525 HOH A 404 DISTANCE = 13.42 ANGSTROMS REMARK 525 HOH A 405 DISTANCE = 8.60 ANGSTROMS REMARK 525 HOH A 410 DISTANCE = 10.97 ANGSTROMS REMARK 525 HOH A 411 DISTANCE = 12.03 ANGSTROMS REMARK 525 HOH A 414 DISTANCE = 10.81 ANGSTROMS REMARK 525 HOH A 415 DISTANCE = 25.80 ANGSTROMS REMARK 525 HOH A 416 DISTANCE = 13.90 ANGSTROMS REMARK 525 HOH A 419 DISTANCE = 12.02 ANGSTROMS REMARK 525 HOH A 421 DISTANCE = 19.41 ANGSTROMS REMARK 525 HOH A 422 DISTANCE = 9.20 ANGSTROMS REMARK 525 HOH A 428 DISTANCE = 17.52 ANGSTROMS REMARK 525 HOH A 431 DISTANCE = 9.99 ANGSTROMS REMARK 525 HOH A 434 DISTANCE = 10.90 ANGSTROMS REMARK 525 HOH A 436 DISTANCE = 13.93 ANGSTROMS REMARK 525 HOH A 438 DISTANCE = 8.75 ANGSTROMS REMARK 525 HOH A 443 DISTANCE = 13.68 ANGSTROMS REMARK 525 HOH A 444 DISTANCE = 11.20 ANGSTROMS REMARK 525 HOH A 445 DISTANCE = 23.62 ANGSTROMS REMARK 525 HOH A 447 DISTANCE = 16.14 ANGSTROMS REMARK 525 HOH A 448 DISTANCE = 51.67 ANGSTROMS REMARK 525 HOH A 449 DISTANCE = 11.49 ANGSTROMS REMARK 525 HOH A 451 DISTANCE = 17.37 ANGSTROMS REMARK 525 HOH A 453 DISTANCE = 9.71 ANGSTROMS REMARK 525 HOH A 454 DISTANCE = 7.02 ANGSTROMS REMARK 525 HOH A 455 DISTANCE = 15.15 ANGSTROMS REMARK 525 HOH A 457 DISTANCE = 15.23 ANGSTROMS REMARK 525 HOH A 458 DISTANCE = 5.93 ANGSTROMS REMARK 525 HOH A 461 DISTANCE = 10.63 ANGSTROMS REMARK 525 HOH A 470 DISTANCE = 14.28 ANGSTROMS REMARK 525 HOH A 471 DISTANCE = 13.09 ANGSTROMS REMARK 525 HOH A 472 DISTANCE = 14.94 ANGSTROMS REMARK 525 HOH A 473 DISTANCE = 14.10 ANGSTROMS REMARK 525 HOH A 474 DISTANCE = 22.89 ANGSTROMS REMARK 525 HOH A 476 DISTANCE = 20.28 ANGSTROMS REMARK 525 HOH A 480 DISTANCE = 28.86 ANGSTROMS REMARK 525 HOH A 484 DISTANCE = 24.30 ANGSTROMS REMARK 525 HOH A 486 DISTANCE = 30.87 ANGSTROMS REMARK 525 HOH A 487 DISTANCE = 5.91 ANGSTROMS REMARK 525 HOH A 488 DISTANCE = 6.42 ANGSTROMS REMARK 525 HOH A 489 DISTANCE = 8.04 ANGSTROMS REMARK 525 HOH A 493 DISTANCE = 11.37 ANGSTROMS REMARK 525 HOH A 494 DISTANCE = 7.59 ANGSTROMS REMARK 525 HOH A 495 DISTANCE = 30.17 ANGSTROMS REMARK 525 HOH A 497 DISTANCE = 14.57 ANGSTROMS REMARK 525 HOH A 498 DISTANCE = 6.39 ANGSTROMS REMARK 525 HOH A 499 DISTANCE = 7.26 ANGSTROMS REMARK 525 HOH A 500 DISTANCE = 11.01 ANGSTROMS REMARK 525 HOH A 502 DISTANCE = 8.90 ANGSTROMS REMARK 525 HOH A 505 DISTANCE = 6.47 ANGSTROMS REMARK 525 HOH A 507 DISTANCE = 5.75 ANGSTROMS REMARK 525 HOH A 508 DISTANCE = 14.81 ANGSTROMS REMARK 525 HOH A 509 DISTANCE = 6.70 ANGSTROMS REMARK 525 HOH A 513 DISTANCE = 16.30 ANGSTROMS REMARK 525 HOH A 514 DISTANCE = 8.31 ANGSTROMS REMARK 525 HOH A 515 DISTANCE = 6.64 ANGSTROMS REMARK 525 HOH A 520 DISTANCE = 16.07 ANGSTROMS REMARK 525 HOH A 525 DISTANCE = 20.47 ANGSTROMS REMARK 525 HOH A 538 DISTANCE = 16.96 ANGSTROMS REMARK 525 HOH A 543 DISTANCE = 14.57 ANGSTROMS REMARK 525 HOH A 544 DISTANCE = 15.74 ANGSTROMS REMARK 525 HOH A 546 DISTANCE = 7.08 ANGSTROMS REMARK 525 HOH A 549 DISTANCE = 7.15 ANGSTROMS REMARK 525 HOH A 553 DISTANCE = 16.38 ANGSTROMS REMARK 525 HOH A 558 DISTANCE = 18.37 ANGSTROMS REMARK 525 HOH A 569 DISTANCE = 15.47 ANGSTROMS REMARK 525 HOH A 570 DISTANCE = 8.48 ANGSTROMS REMARK 525 HOH A 572 DISTANCE = 30.26 ANGSTROMS REMARK 525 HOH A 580 DISTANCE = 5.58 ANGSTROMS REMARK 525 HOH A 581 DISTANCE = 7.25 ANGSTROMS REMARK 525 HOH A 582 DISTANCE = 13.16 ANGSTROMS REMARK 525 HOH A 584 DISTANCE = 7.91 ANGSTROMS REMARK 525 HOH A 589 DISTANCE = 5.04 ANGSTROMS REMARK 525 HOH A 590 DISTANCE = 11.63 ANGSTROMS REMARK 525 HOH A 594 DISTANCE = 6.27 ANGSTROMS REMARK 525 HOH A 601 DISTANCE = 18.57 ANGSTROMS REMARK 525 HOH A 602 DISTANCE = 33.03 ANGSTROMS REMARK 525 HOH A 603 DISTANCE = 9.50 ANGSTROMS REMARK 525 HOH A 604 DISTANCE = 6.49 ANGSTROMS REMARK 525 HOH A 609 DISTANCE = 5.78 ANGSTROMS REMARK 525 HOH A 619 DISTANCE = 5.09 ANGSTROMS REMARK 525 HOH A 621 DISTANCE = 8.63 ANGSTROMS REMARK 525 HOH A 623 DISTANCE = 14.01 ANGSTROMS REMARK 525 HOH A 624 DISTANCE = 21.38 ANGSTROMS REMARK 525 HOH A 635 DISTANCE = 5.01 ANGSTROMS REMARK 525 HOH A 641 DISTANCE = 5.14 ANGSTROMS REMARK 525 HOH A 642 DISTANCE = 13.64 ANGSTROMS REMARK 525 HOH A 644 DISTANCE = 5.06 ANGSTROMS REMARK 525 HOH A 646 DISTANCE = 11.35 ANGSTROMS REMARK 525 HOH A 648 DISTANCE = 10.62 ANGSTROMS REMARK 525 HOH A 649 DISTANCE = 11.72 ANGSTROMS REMARK 525 HOH A 652 DISTANCE = 11.93 ANGSTROMS REMARK 525 HOH A 657 DISTANCE = 9.10 ANGSTROMS REMARK 525 HOH A 659 DISTANCE = 7.34 ANGSTROMS REMARK 525 HOH A 660 DISTANCE = 13.37 ANGSTROMS REMARK 525 HOH A 661 DISTANCE = 6.68 ANGSTROMS REMARK 525 HOH A 665 DISTANCE = 19.40 ANGSTROMS REMARK 525 HOH A 668 DISTANCE = 6.26 ANGSTROMS REMARK 525 HOH A 677 DISTANCE = 12.69 ANGSTROMS REMARK 525 HOH A 683 DISTANCE = 5.92 ANGSTROMS REMARK 525 HOH A 684 DISTANCE = 26.99 ANGSTROMS REMARK 525 HOH A 699 DISTANCE = 24.66 ANGSTROMS REMARK 525 HOH A 707 DISTANCE = 19.50 ANGSTROMS REMARK 525 HOH A 717 DISTANCE = 11.57 ANGSTROMS REMARK 525 HOH A 721 DISTANCE = 17.48 ANGSTROMS REMARK 525 HOH A 722 DISTANCE = 14.56 ANGSTROMS REMARK 525 HOH A 723 DISTANCE = 5.03 ANGSTROMS REMARK 525 HOH A 736 DISTANCE = 16.81 ANGSTROMS REMARK 525 HOH A 741 DISTANCE = 9.72 ANGSTROMS REMARK 525 HOH A 743 DISTANCE = 10.80 ANGSTROMS REMARK 525 HOH A 744 DISTANCE = 16.46 ANGSTROMS REMARK 525 HOH A 748 DISTANCE = 27.80 ANGSTROMS REMARK 525 HOH A 750 DISTANCE = 10.42 ANGSTROMS
REMARK 610 REMARK 610 MISSING HETEROATOM REMARK 610 THE FOLLOWING RESIDUES HAVE MISSING ATOMS (M=MODEL NUMBER; REMARK 610 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 610 I=INSERTION CODE): REMARK 610 M RES C SSEQI REMARK 610 EOH A 901 REMARK 610 EOH A 902
REMARK 700 REMARK 700 SHEET REMARK 700 SHEET VI CORRESPONDS TO SHEET C2 (POSSIBLY FOR PSI2) OF REMARK 700 PROTEIN DATA BANK ENTRY *2APR* (RHIZOPUSPEPSIN, A SIMILAR REMARK 700 ASPARTYL PROTEINASE). IN PEPSIN THIS SHEET HAS ONE MORE REMARK 700 STRAND. THE EXTENDED SHEET VII CORRESPONDS TO SHEETS C1 REMARK 700 (POSSIBLY BECAUSE OF PSI1) AND BIFURCATED SHEET 4A OF REMARK 700 *2APR**. THE EXTENDED SHEET DESCRIPTION WAS USED IN THIS REMARK 700 ENTRY BECAUSE THERE ARE THREE GOOD HYDROGEN BONDS BETWEEN REMARK 700 STRANDS 3 AND 4. THE OVERALL STRUCTURE IS WELL CONSERVED REMARK 700 BETWEEN THE TWO ENZYMES AS WELL AS AMONG OTHER FUNGAL REMARK 700 PROTEINASES (PENNICILLOPEPSIN AND ENDOTHIAPEPSIN).
REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EOH A 901 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EOH A 902
DBREF 3PEP A 1 326 UNP P00791 PEPA_PIG 60 386
SEQADV 3PEP A UNP P00791 ILE 289 DELETION SEQADV 3PEP ASP A 263 UNP P00791 ASN 323 CONFLICT
SEQRES 1 A 326 ILE GLY ASP GLU PRO LEU GLU ASN TYR LEU ASP THR GLU SEQRES 2 A 326 TYR PHE GLY THR ILE GLY ILE GLY THR PRO ALA GLN ASP SEQRES 3 A 326 PHE THR VAL ILE PHE ASP THR GLY SER SER ASN LEU TRP SEQRES 4 A 326 VAL PRO SER VAL TYR CYS SER SER LEU ALA CYS SER ASP SEQRES 5 A 326 HIS ASN GLN PHE ASN PRO ASP ASP SER SER THR PHE GLU SEQRES 6 A 326 ALA THR SER GLN GLU LEU SER ILE THR TYR GLY THR GLY SEQRES 7 A 326 SER MET THR GLY ILE LEU GLY TYR ASP THR VAL GLN VAL SEQRES 8 A 326 GLY GLY ILE SER ASP THR ASN GLN ILE PHE GLY LEU SER SEQRES 9 A 326 GLU THR GLU PRO GLY SER PHE LEU TYR TYR ALA PRO PHE SEQRES 10 A 326 ASP GLY ILE LEU GLY LEU ALA TYR PRO SER ILE SER ALA SEQRES 11 A 326 SER GLY ALA THR PRO VAL PHE ASP ASN LEU TRP ASP GLN SEQRES 12 A 326 GLY LEU VAL SER GLN ASP LEU PHE SER VAL TYR LEU SER SEQRES 13 A 326 SER ASN ASP ASP SER GLY SER VAL VAL LEU LEU GLY GLY SEQRES 14 A 326 ILE ASP SER SER TYR TYR THR GLY SER LEU ASN TRP VAL SEQRES 15 A 326 PRO VAL SER VAL GLU GLY TYR TRP GLN ILE THR LEU ASP SEQRES 16 A 326 SER ILE THR MET ASP GLY GLU THR ILE ALA CYS SER GLY SEQRES 17 A 326 GLY CYS GLN ALA ILE VAL ASP THR GLY THR SER LEU LEU SEQRES 18 A 326 THR GLY PRO THR SER ALA ILE ALA ASN ILE GLN SER ASP SEQRES 19 A 326 ILE GLY ALA SER GLU ASN SER ASP GLY GLU MET VAL ILE SEQRES 20 A 326 SER CYS SER SER ILE ASP SER LEU PRO ASP ILE VAL PHE SEQRES 21 A 326 THR ILE ASP GLY VAL GLN TYR PRO LEU SER PRO SER ALA SEQRES 22 A 326 TYR ILE LEU GLN ASP ASP ASP SER CYS THR SER GLY PHE SEQRES 23 A 326 GLU GLY MET ASP VAL PRO THR SER SER GLY GLU LEU TRP SEQRES 24 A 326 ILE LEU GLY ASP VAL PHE ILE ARG GLN TYR TYR THR VAL SEQRES 25 A 326 PHE ASP ARG ALA ASN ASN LYS VAL GLY LEU ALA PRO VAL SEQRES 26 A 326 ALA
HET EOH A 901 3 HET EOH A 902 3
HETNAM EOH ETHANOL
FORMUL 2 EOH 2(C2 H6 O) FORMUL 4 HOH *206(H2 O)
HELIX 1 A LEU A 48 ASP A 52 1 5 HELIX 2 H1 PRO A 58 ASP A 60 5 3 HELIX 3 B SER A 110 TYR A 114 1 5 HELIX 4 H2 PRO A 126 ILE A 128 5 3 HELIX 5 H3 ALA A 130 GLY A 132 5 3 HELIX 6 C VAL A 136 ASP A 142 1 7 HELIX 7 H4 SER A 172 TYR A 174 5 3 HELIX 8 D THR A 225 ILE A 235 1 11 HELIX 9 E CYS A 249 LEU A 255 1 7 HELIX 10 F PRO A 271 TYR A 274 1 4 HELIX 11 G ASP A 303 ILE A 306 1 4
SHEET 1 I 6 GLY A 2 PRO A 5 0 SHEET 2 I 6 VAL A 164 LEU A 167 -1 SHEET 3 I 6 LEU A 150 TYR A 154 -1 SHEET 4 I 6 TYR A 309 ASP A 314 -1 SHEET 5 I 6 LYS A 319 PRO A 324 -1 SHEET 6 I 6 ASN A 180 PRO A 183 -1 SHEET 1 II 4 GLN A 25 THR A 28 0 SHEET 2 II 4 PHE A 15 ILE A 20 -1 SHEET 3 II 4 ASP A 87 VAL A 91 -1 SHEET 4 II 4 ILE A 94 THR A 97 -1 SHEET 1 III 4 GLU A 202 THR A 203 0 SHEET 2 III 4 SER A 196 THR A 198 -1 SHEET 3 III 4 ILE A 258 ILE A 262 -1 SHEET 4 III 4 VAL A 265 LEU A 269 -1 SHEET 1 IV 3 GLU A 70 THR A 74 0 SHEET 2 IV 3 SER A 79 ILE A 83 -1 SHEET 3 IV 3 GLU A 105 THR A 106 -1 SHEET 1 V 4 SER A 238 ASN A 240 0 SHEET 2 V 4 MET A 245 ILE A 247 -1 SHEET 3 V 4 CYS A 282 SER A 284 -1 SHEET 4 V 4 ILE A 275 GLN A 277 -1 SHEET 1 VI 5 GLN A 191 ASP A 195 0 SHEET 2 VI 5 CYS A 210 VAL A 214 -1 SHEET 3 VI 5 LEU A 298 LEU A 301 1 SHEET 4 VI 5 LEU A 221 GLY A 223 -1 SHEET 5 VI 5 PHE A 286 GLY A 288 -1 SHEET 1 VII 6 VAL A 29 ASP A 32 0 SHEET 2 VII 6 GLY A 119 GLY A 122 1 SHEET 3 VII 6 LEU A 38 PRO A 41 -1 SHEET 4 VII 6 ASN A 98 SER A 104 1 SHEET 5 VII 6 LEU A 84 TYR A 86 -1 SHEET 6 VII 6 GLU A 65 GLN A 69 -1
SSBOND 1 CYS A 45 CYS A 50 1555 1555 2.01 SSBOND 2 CYS A 206 CYS A 210 1555 1555 2.04 SSBOND 3 CYS A 249 CYS A 282 1555 1555 2.00
CISPEP 1 THR A 22 PRO A 23 0 -7.96
SITE 1 AC1 5 GLU A 13 TYR A 14 THR A 216 ASP A 303 SITE 2 AC1 5 HOH A 757 SITE 1 AC2 2 THR A 74 HOH A 694
CRYST1 55.270 73.820 36.440 90.00 90.00 103.38 P 1 1 21 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 0.018093 0.004304 0.000000 0.00000
SCALE2 0.000000 0.013924 0.000000 0.00000
SCALE3 0.000000 0.000000 0.027442 0.00000