HEADER ISOMERASE 21-JUL-09 3IDV TITLE CRYSTAL STRUCTURE OF THE A0A FRAGMENT OF ERP72 COMPND MOL_ID: 1; COMPND 2 MOLECULE: PROTEIN DISULFIDE-ISOMERASE A4; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: A0A CATALYTIC DOMAINS; COMPND 5 SYNONYM: PROTEIN ERP-72, ERP72; COMPND 6 EC: 5.3.4.1; COMPND 7 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 3 ORGANISM_COMMON: HUMAN; SOURCE 4 ORGANISM_TAXID: 9606; SOURCE 5 GENE: PDIA4, ERP70, ERP72; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 511693; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21; SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PGEX-6P-1 KEYWDS THIOREDOXIN-LIKE FOLD, DISULFIDE BOND, ENDOPLASMIC RETICULUM, KEYWDS 2 ISOMERASE, REDOX-ACTIVE CENTER EXPDTA X-RAY DIFFRACTION AUTHOR G.KOZLOV,K.GEHRING REVDAT 4 06-SEP-23 3IDV 1 REMARK SEQADV LINK REVDAT 3 13-JUL-11 3IDV 1 VERSN REVDAT 2 25-AUG-10 3IDV 1 JRNL REVDAT 1 07-JUL-10 3IDV 0 JRNL AUTH G.KOZLOV,S.AZEROUAL,A.ROSENAUER,P.MAATTANEN,A.Y.DENISOV, JRNL AUTH 2 D.Y.THOMAS,K.GEHRING JRNL TITL STRUCTURE OF THE CATALYTIC A(0)A FRAGMENT OF THE PROTEIN JRNL TITL 2 DISULFIDE ISOMERASE ERP72. JRNL REF J.MOL.BIOL. V. 401 618 2010 JRNL REFN ISSN 0022-2836 JRNL PMID 20600112 JRNL DOI 10.1016/J.JMB.2010.06.045 REMARK 2 REMARK 2 RESOLUTION. 1.95 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.2.0005 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) : 1.95 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 45.83 REMARK 3 DATA CUTOFF (SIGMA(F)) : 1.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 3 NUMBER OF REFLECTIONS : 18308 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) : 0.208 REMARK 3 R VALUE (WORKING SET) : 0.206 REMARK 3 FREE R VALUE : 0.246 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 990 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) : 1.95 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.00 REMARK 3 REFLECTION IN BIN (WORKING SET) : 1284 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 98.98 REMARK 3 BIN R VALUE (WORKING SET) : 0.1880 REMARK 3 BIN FREE R VALUE SET COUNT : 77 REMARK 3 BIN FREE R VALUE : 0.2660 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 1854 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 3 REMARK 3 SOLVENT ATOMS : 71 REMARK 3 REMARK 3 B VALUES. REMARK 3 B VALUE TYPE : LIKELY RESIDUAL REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 22.47 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.01000 REMARK 3 B22 (A**2) : -0.01000 REMARK 3 B33 (A**2) : 0.01000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 0.00000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.176 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.159 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.105 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 7.057 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.946 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.938 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 1902 ; 0.014 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 2584 ; 1.440 ; 1.981 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 233 ; 5.275 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 86 ;29.631 ;25.233 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 324 ;17.882 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 8 ;18.067 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 283 ; 0.126 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 1453 ; 0.005 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 818 ; 0.224 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 1302 ; 0.309 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 87 ; 0.244 ; 0.200 REMARK 3 H-BOND (X...Y) OTHERS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION REFINED ATOMS (A): 2 ; 0.135 ; 0.200 REMARK 3 POTENTIAL METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW REFINED ATOMS (A): 40 ; 0.167 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 9 ; 0.269 ; 0.200 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): 1210 ; 0.935 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 1918 ; 1.573 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 788 ; 2.452 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 666 ; 4.076 ; 4.500 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 : 2 REMARK 3 REMARK 3 TLS GROUP : 1 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 54 A 176 REMARK 3 ORIGIN FOR THE GROUP (A): 12.4165 -24.7428 19.9515 REMARK 3 T TENSOR REMARK 3 T11: .0630 T22: .0449 REMARK 3 T33: .0475 T12: .0239 REMARK 3 T13: .0003 T23: .0245 REMARK 3 L TENSOR REMARK 3 L11: 1.7600 L22: 2.7677 REMARK 3 L33: 1.8010 L12: .7383 REMARK 3 L13: .3158 L23: .8600 REMARK 3 S TENSOR REMARK 3 S11: -.0119 S12: .0291 S13: .0213 REMARK 3 S21: -.1034 S22: .0564 S23: -.0197 REMARK 3 S31: -.0445 S32: -.0520 S33: -.0445 REMARK 3 REMARK 3 TLS GROUP : 2 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 177 A 288 REMARK 3 ORIGIN FOR THE GROUP (A): -14.6925 -14.2418 31.3842 REMARK 3 T TENSOR REMARK 3 T11: -.0135 T22: .0411 REMARK 3 T33: .0721 T12: .0016 REMARK 3 T13: -.0300 T23: -.0117 REMARK 3 L TENSOR REMARK 3 L11: 2.8192 L22: 5.1850 REMARK 3 L33: 2.6467 L12: .6673 REMARK 3 L13: -.5812 L23: .6047 REMARK 3 S TENSOR REMARK 3 S11: .0994 S12: .1830 S13: .0136 REMARK 3 S21: .0761 S22: .0734 S23: -.7018 REMARK 3 S31: -.0324 S32: .0653 S33: -.1729 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: NULL REMARK 4 REMARK 4 3IDV COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 03-AUG-09. REMARK 100 THE DEPOSITION ID IS D_1000054288. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 03-NOV-07 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 8.0 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : CHESS REMARK 200 BEAMLINE : A1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9995 REMARK 200 MONOCHROMATOR : SI 111 CHANNEL REMARK 200 OPTICS : MIRRORS REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 210 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 18308 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.950 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 1.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 200 DATA REDUNDANCY : 8.500 REMARK 200 R MERGE (I) : 0.12000 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 14.8000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.95 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.02 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.9 REMARK 200 DATA REDUNDANCY IN SHELL : 7.00 REMARK 200 R MERGE FOR SHELL (I) : 0.37400 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 6.900 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHASER REMARK 200 STARTING MODEL: 2B5E REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 47.34 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.34 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.01M ZINC CHLORIDE, 20% PEG 6000, REMARK 280 0.1M TRIS-HCL, PH 8.0, VAPOR DIFFUSION, HANGING DROP, REMARK 280 TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 41 21 2 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 3555 -Y+1/2,X+1/2,Z+1/4 REMARK 290 4555 Y+1/2,-X+1/2,Z+3/4 REMARK 290 5555 -X+1/2,Y+1/2,-Z+1/4 REMARK 290 6555 X+1/2,-Y+1/2,-Z+3/4 REMARK 290 7555 Y,X,-Z REMARK 290 8555 -Y,-X,-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 83.24850 REMARK 290 SMTRY1 3 0.000000 -1.000000 0.000000 27.44150 REMARK 290 SMTRY2 3 1.000000 0.000000 0.000000 27.44150 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 41.62425 REMARK 290 SMTRY1 4 0.000000 1.000000 0.000000 27.44150 REMARK 290 SMTRY2 4 -1.000000 0.000000 0.000000 27.44150 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 124.87275 REMARK 290 SMTRY1 5 -1.000000 0.000000 0.000000 27.44150 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 27.44150 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 41.62425 REMARK 290 SMTRY1 6 1.000000 0.000000 0.000000 27.44150 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 27.44150 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 124.87275 REMARK 290 SMTRY1 7 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY2 7 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 8 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY2 8 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 83.24850 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 GLY A 48 REMARK 465 PRO A 49 REMARK 465 LEU A 50 REMARK 465 GLY A 51 REMARK 465 SER A 52 REMARK 465 GLU A 53 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 OE1 GLU A 189 O HOH A 307 2.00 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 OD1 ASP A 112 O HOH A 307 8545 2.16 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 VAL A 167 CG1 - CB - CG2 ANGL. DEV. = 11.3 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 ARG A 155 59.65 -90.38 REMARK 500 GLU A 240 64.22 -102.95 REMARK 500 ALA A 285 64.91 -111.66 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 ZN A 502 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 277 OD2 REMARK 620 2 ASP A 277 OD1 54.3 REMARK 620 3 GLU A 281 OE2 131.2 82.6 REMARK 620 4 SER A 288 O 97.3 147.8 113.6 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 ZN A 501 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN A 502 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CL A 503 DBREF 3IDV A 53 284 UNP P13667 PDIA4_HUMAN 53 284 SEQADV 3IDV GLY A 48 UNP P13667 EXPRESSION TAG SEQADV 3IDV PRO A 49 UNP P13667 EXPRESSION TAG SEQADV 3IDV LEU A 50 UNP P13667 EXPRESSION TAG SEQADV 3IDV GLY A 51 UNP P13667 EXPRESSION TAG SEQADV 3IDV SER A 52 UNP P13667 EXPRESSION TAG SEQADV 3IDV ALA A 285 UNP P13667 EXPRESSION TAG SEQADV 3IDV ALA A 286 UNP P13667 EXPRESSION TAG SEQADV 3IDV ALA A 287 UNP P13667 EXPRESSION TAG SEQADV 3IDV SER A 288 UNP P13667 EXPRESSION TAG SEQRES 1 A 241 GLY PRO LEU GLY SER GLU ASP ASP LEU GLU VAL LYS GLU SEQRES 2 A 241 GLU ASN GLY VAL LEU VAL LEU ASN ASP ALA ASN PHE ASP SEQRES 3 A 241 ASN PHE VAL ALA ASP LYS ASP THR VAL LEU LEU GLU PHE SEQRES 4 A 241 TYR ALA PRO TRP CYS GLY HIS CYS LYS GLN PHE ALA PRO SEQRES 5 A 241 GLU TYR GLU LYS ILE ALA ASN ILE LEU LYS ASP LYS ASP SEQRES 6 A 241 PRO PRO ILE PRO VAL ALA LYS ILE ASP ALA THR SER ALA SEQRES 7 A 241 SER VAL LEU ALA SER ARG PHE ASP VAL SER GLY TYR PRO SEQRES 8 A 241 THR ILE LYS ILE LEU LYS LYS GLY GLN ALA VAL ASP TYR SEQRES 9 A 241 GLU GLY SER ARG THR GLN GLU GLU ILE VAL ALA LYS VAL SEQRES 10 A 241 ARG GLU VAL SER GLN PRO ASP TRP THR PRO PRO PRO GLU SEQRES 11 A 241 VAL THR LEU VAL LEU THR LYS GLU ASN PHE ASP GLU VAL SEQRES 12 A 241 VAL ASN ASP ALA ASP ILE ILE LEU VAL GLU PHE TYR ALA SEQRES 13 A 241 PRO TRP CYS GLY HIS CYS LYS LYS LEU ALA PRO GLU TYR SEQRES 14 A 241 GLU LYS ALA ALA LYS GLU LEU SER LYS ARG SER PRO PRO SEQRES 15 A 241 ILE PRO LEU ALA LYS VAL ASP ALA THR ALA GLU THR ASP SEQRES 16 A 241 LEU ALA LYS ARG PHE ASP VAL SER GLY TYR PRO THR LEU SEQRES 17 A 241 LYS ILE PHE ARG LYS GLY ARG PRO TYR ASP TYR ASN GLY SEQRES 18 A 241 PRO ARG GLU LYS TYR GLY ILE VAL ASP TYR MET ILE GLU SEQRES 19 A 241 GLN SER GLY ALA ALA ALA SER HET ZN A 501 1 HET ZN A 502 1 HET CL A 503 1 HETNAM ZN ZINC ION HETNAM CL CHLORIDE ION FORMUL 2 ZN 2(ZN 2+) FORMUL 4 CL CL 1- FORMUL 5 HOH *71(H2 O) HELIX 1 1 ASN A 71 ALA A 77 1 7 HELIX 2 2 CYS A 91 ASP A 110 1 20 HELIX 3 3 ALA A 125 PHE A 132 1 8 HELIX 4 4 THR A 156 GLN A 169 1 14 HELIX 5 5 ASN A 186 ALA A 194 1 9 HELIX 6 6 GLY A 207 LYS A 211 5 5 HELIX 7 7 LEU A 212 LYS A 225 1 14 HELIX 8 8 GLU A 240 PHE A 247 1 8 HELIX 9 9 GLU A 271 SER A 283 1 13 SHEET 1 A 6 LYS A 59 GLU A 61 0 SHEET 2 A 6 VAL A 64 VAL A 66 -1 O VAL A 64 N GLU A 61 SHEET 3 A 6 VAL A 117 ASP A 121 1 O LYS A 119 N LEU A 65 SHEET 4 A 6 THR A 81 TYR A 87 1 N GLU A 85 O ILE A 120 SHEET 5 A 6 THR A 139 LYS A 144 -1 O LYS A 141 N LEU A 84 SHEET 6 A 6 GLN A 147 ASP A 150 -1 O GLN A 147 N LYS A 144 SHEET 1 B 5 LEU A 180 VAL A 181 0 SHEET 2 B 5 LEU A 232 ASP A 236 1 O LEU A 232 N LEU A 180 SHEET 3 B 5 ILE A 196 TYR A 202 1 N GLU A 200 O VAL A 235 SHEET 4 B 5 THR A 254 ARG A 259 -1 O THR A 254 N PHE A 201 SHEET 5 B 5 ARG A 262 ASP A 265 -1 O TYR A 264 N ILE A 257 LINK OD1 ASP A 193 ZN ZN A 501 1555 1555 1.93 LINK OD2 ASP A 277 ZN ZN A 502 1555 1555 2.18 LINK OD1 ASP A 277 ZN ZN A 502 1555 1555 2.58 LINK OE2 GLU A 281 ZN ZN A 502 1555 1555 1.89 LINK O SER A 288 ZN ZN A 502 1555 1555 2.04 CISPEP 1 ASP A 112 PRO A 113 0 -6.22 CISPEP 2 TYR A 137 PRO A 138 0 -9.96 CISPEP 3 SER A 227 PRO A 228 0 -3.29 CISPEP 4 TYR A 252 PRO A 253 0 -7.95 SITE 1 AC1 4 ASP A 80 HIS A 93 ASP A 193 CL A 503 SITE 1 AC2 4 HIS A 208 ASP A 277 GLU A 281 SER A 288 SITE 1 AC3 1 ZN A 501 CRYST1 54.883 54.883 166.497 90.00 90.00 90.00 P 41 21 2 8 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 0.018221 0.000000 0.000000 0.00000 SCALE2 0.000000 0.018221 0.000000 0.00000 SCALE3 0.000000 0.000000 0.006006 0.00000