HEADER HYDROLASE 22-OCT-14 4WR2 TITLE CRYSTAL STRUCTURE OF A PUTATIVE PYRIMIDINE-SPECIFIC RIBONUCLEOSIDE TITLE 2 HYDROLASE (RIHA) PROTEIN FROM SHEWANELLA LOIHICA PV-4 (SHEW_0697, TITLE 3 TARGET PSI-029635) WITH DIVALENT CATION AND PEG 400 BOUND AT THE TITLE 4 ACTIVE SITE COMPND MOL_ID: 1; COMPND 2 MOLECULE: PYRIMIDINE-SPECIFIC RIBONUCLEOSIDE HYDROLASE RIHA; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: CYTIDINE/URIDINE-SPECIFIC HYDROLASE; COMPND 5 EC: 3.2.-.-; COMPND 6 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: SHEWANELLA LOIHICA; SOURCE 3 ORGANISM_TAXID: 323850; SOURCE 4 STRAIN: ATCC BAA-1088 / PV-4; SOURCE 5 GENE: RIHA, SHEW_0697; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PET KEYWDS HYDROLASE, PYRIMIDINE-SPECIFIC, PROTEIN STRUCTURE INITIATIVE, PSI, KEYWDS 2 DIVALENT CATION BINDING SITE, STRUCTURAL GENOMICS, NEW YORK KEYWDS 3 STRUCTURAL GENOMICS RESEARCH CONSORTIUM, NYSGRC EXPDTA X-RAY DIFFRACTION AUTHOR D.M.HIMMEL,R.BHOSLE,R.TORO,B.HILLERICH,A.GIZZI,S.GARFORTH,A.KAR, AUTHOR 2 M.K.CHAN,J.LAFLUER,H.PATEL,B.MATIKAINEN,S.CHAMALA,S.LIM,A.CELIKGIL, AUTHOR 3 G.VILLEGAS,B.EVANS,J.LOVE,A.FISER,R.D.SEIDEL,J.B.BONANNO,S.C.ALMO, AUTHOR 4 NEW YORK STRUCTURAL GENOMICS RESEARCH CONSORTIUM (NYSGRC) REVDAT 2 22-NOV-17 4WR2 1 SOURCE REMARK REVDAT 1 12-NOV-14 4WR2 0 JRNL AUTH D.M.HIMMEL,R.BHOSLE,R.TORO,B.HILLERICH,A.GIZZI,S.GARFORTH, JRNL AUTH 2 A.KAR,M.K.CHAN,J.LAFLUER,H.PATEL,B.MATIKAINEN,S.CHAMALA, JRNL AUTH 3 S.LIM,A.CELIKGIL,G.VILLEGAS,B.EVANS,J.LOVE,A.FISER, JRNL AUTH 4 R.D.SEIDEL,J.B.BONANNO,S.C.ALMO JRNL TITL CRYSTAL STRUCTURE OF A PUTATIVE PYRIMIDINE-SPECIFIC JRNL TITL 2 RIBONUCLEOSIDE HYDROLASE (RIHA) PROTEIN FROM SHEWANELLA JRNL TITL 3 LOIHICA PV-4 (SHEW_0697, TARGET PSI-029635) WITH DIVALENT JRNL TITL 4 CATION AND PEG 400 BOUND AT THE ACTIVE SITE JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 1.70 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.8.0073 REMARK 3 AUTHORS : MURSHUDOV,VAGIN,DODSON REMARK 3 REMARK 3 REFINEMENT TARGET : MAXIMUM LIKELIHOOD REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.70 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 29.77 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.2 REMARK 3 NUMBER OF REFLECTIONS : 104560 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) : 0.157 REMARK 3 R VALUE (WORKING SET) : 0.157 REMARK 3 FREE R VALUE : 0.171 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 3.700 REMARK 3 FREE R VALUE TEST SET COUNT : 1997 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) : 1.70 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.74 REMARK 3 REFLECTION IN BIN (WORKING SET) : 3742 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 96.81 REMARK 3 BIN R VALUE (WORKING SET) : 0.2480 REMARK 3 BIN FREE R VALUE SET COUNT : 143 REMARK 3 BIN FREE R VALUE : 0.2700 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2345 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 17 REMARK 3 SOLVENT ATOMS : 284 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 22.82 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 31.37 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 3.20000 REMARK 3 B22 (A**2) : -1.64000 REMARK 3 B33 (A**2) : -1.56000 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): 0.081 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.066 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.042 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 2.633 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.973 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.968 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 2426 ; 0.010 ; 0.019 REMARK 3 BOND LENGTHS OTHERS (A): 2367 ; 0.001 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 3303 ; 1.312 ; 2.000 REMARK 3 BOND ANGLES OTHERS (DEGREES): 5462 ; 1.839 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 306 ; 7.324 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 96 ;37.800 ;24.896 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 361 ;10.772 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 12 ;23.519 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 388 ; 0.065 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 2697 ; 0.006 ; 0.021 REMARK 3 GENERAL PLANES OTHERS (A): 493 ; 0.003 ; 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): 1230 ; 1.132 ; 2.825 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 1229 ; 1.123 ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 1534 ; 1.189 ; 4.219 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): 2426 ; 6.133 ; 3.000 REMARK 3 SPHERICITY; FREE ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; BONDED ATOMS (A**2): 2378 ;12.078 ; 5.000 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 : 1.30 REMARK 3 ION PROBE RADIUS : 0.90 REMARK 3 SHRINKAGE RADIUS : 0.90 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 4WR2 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 27-OCT-14. REMARK 100 THE DEPOSITION ID IS D_1000204043. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 17-OCT-13 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 5.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : APS REMARK 200 BEAMLINE : 31-ID REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.97931 REMARK 200 MONOCHROMATOR : GRAPHITE REMARK 200 OPTICS : MIRRORS REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : RAYONIX MX225HE REMARK 200 INTENSITY-INTEGRATION SOFTWARE : NULL REMARK 200 DATA SCALING SOFTWARE : SCALEPACK HKL DATA PROCESSING REMARK 200 SYSTEM VERSION 1.99.2 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 104560 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.700 REMARK 200 RESOLUTION RANGE LOW (A) : 30.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.5 REMARK 200 DATA REDUNDANCY : 7.700 REMARK 200 R MERGE (I) : 0.07800 REMARK 200 R SYM (I) : 0.07800 REMARK 200 FOR THE DATA SET : 8.6000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.70 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.76 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.2 REMARK 200 DATA REDUNDANCY IN SHELL : 7.60 REMARK 200 R MERGE FOR SHELL (I) : 0.97000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : NULL REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: SAD REMARK 200 SOFTWARE USED: PHENIX 1.9-1692 REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 63.32 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.35 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: PROTEIN (18.02 MG/ML, 20 MM HEPES PH REMARK 280 7.5, 150 MM SODIUM CHLORIDE, 5% V/V GLYCEROL, 5 MM DTT) WAS REMARK 280 COMBINED WITH AN EQUAL VOLUME OF RESERVOIR (100 MM SODIUM REMARK 280 CITRATE PH 5.5, 40% PEG 600), CRYOPROTECTION (100 MM SODIUM REMARK 280 CITRATE PH 5.5, 40% PEG 600), VAPOR DIFFUSION, SITTING DROP, REMARK 280 TEMPERATURE 298K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: I 2 2 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,-Y,Z REMARK 290 3555 -X,Y,-Z REMARK 290 4555 X,-Y,-Z REMARK 290 5555 X+1/2,Y+1/2,Z+1/2 REMARK 290 6555 -X+1/2,-Y+1/2,Z+1/2 REMARK 290 7555 -X+1/2,Y+1/2,-Z+1/2 REMARK 290 8555 X+1/2,-Y+1/2,-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 0.00000 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 4 0.000000 -1.000000 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 30.03900 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 57.52350 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 70.82000 REMARK 290 SMTRY1 6 -1.000000 0.000000 0.000000 30.03900 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 57.52350 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 70.82000 REMARK 290 SMTRY1 7 -1.000000 0.000000 0.000000 30.03900 REMARK 290 SMTRY2 7 0.000000 1.000000 0.000000 57.52350 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 70.82000 REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 30.03900 REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 57.52350 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 70.82000 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 300 REMARK: BIOLOGICAL UNIT IS A MONOMER 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: TETRAMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TETRAMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 10720 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 42650 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -98.0 KCAL/MOL 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 350 BIOMT1 2 -1.000000 0.000000 0.000000 60.07800 REMARK 350 BIOMT2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 350 BIOMT3 2 0.000000 0.000000 1.000000 0.00000 REMARK 350 BIOMT1 3 -1.000000 0.000000 0.000000 60.07800 REMARK 350 BIOMT2 3 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 3 0.000000 0.000000 -1.000000 141.64000 REMARK 350 BIOMT1 4 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 4 0.000000 -1.000000 0.000000 0.00000 REMARK 350 BIOMT3 4 0.000000 0.000000 -1.000000 141.64000 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 A 523 LIES ON A SPECIAL POSITION. REMARK 375 HOH A 560 LIES ON A SPECIAL POSITION. 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 MSE A 23 REMARK 465 THR A 24 REMARK 465 GLN A 25 REMARK 465 SER A 26 REMARK 465 ASN A 27 REMARK 465 ALA A 28 REMARK 465 ALA A 29 REMARK 465 PRO A 30 REMARK 465 HIS A 31 REMARK 465 SER A 32 REMARK 465 HIS A 33 REMARK 465 ALA A 34 REMARK 465 ALA A 35 REMARK 465 ASN A 36 REMARK 465 ALA A 37 REMARK 465 SER A 38 REMARK 465 PRO A 39 REMARK 465 ASP A 125 REMARK 465 ASN A 126 REMARK 465 VAL A 127 REMARK 465 HIS A 128 REMARK 465 GLY A 129 REMARK 465 GLU A 130 REMARK 465 SER A 131 REMARK 465 GLY A 132 REMARK 465 LEU A 133 REMARK 465 ASP A 134 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 HIS A 286 -75.48 -97.55 REMARK 500 LYS A 296 71.62 -150.42 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 PRO A 57 GLY A 58 108.96 REMARK 500 GLY A 58 HIS A 59 -146.25 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 ANGLE, 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 PRO A 57 10.28 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 781 DISTANCE = 6.34 ANGSTROMS REMARK 620 REMARK 620 METAL COORDINATION REMARK 620 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 620 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE): REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CA A 401 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 56 OD1 REMARK 620 2 ASP A 61 OD1 88.0 REMARK 620 3 ASP A 61 OD2 71.5 50.7 REMARK 620 4 SER A 170 O 87.7 136.2 86.9 REMARK 620 5 ASP A 287 OD2 143.7 72.6 72.5 86.0 REMARK 620 6 HOH A 678 O 70.0 60.6 99.8 152.9 121.1 REMARK 620 7 HOH A 598 O 70.4 127.4 141.9 91.6 145.4 66.9 REMARK 620 8 HOH A 747 O 135.5 132.3 145.2 75.1 76.7 109.8 69.4 REMARK 620 N 1 2 3 4 5 6 7 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue CA A 401 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue 1PE A 402 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: NYSGRC-029635 RELATED DB: TARGETTRACK DBREF 4WR2 A 23 357 UNP A3QAS1 A3QAS1_SHELP 1 335 SEQRES 1 A 335 MSE THR GLN SER ASN ALA ALA PRO HIS SER HIS ALA ALA SEQRES 2 A 335 ASN ALA SER PRO LYS ALA ILE ARG PRO LEU ALA SER ALA SEQRES 3 A 335 THR PRO ILE ILE LEU ASP CYS ASP PRO GLY HIS ASP ASP SEQRES 4 A 335 ALA ILE SER LEU ILE LEU ALA LEU SER SER GLU ARG LEU SEQRES 5 A 335 ASN PRO LEU ALA VAL THR THR SER ALA GLY ASN GLN THR SEQRES 6 A 335 PRO ASP LYS THR LEU ASN ASN ALA LEU ARG ILE LEU THR SEQRES 7 A 335 LEU LEU ASN ARG ALA ASP MSE PRO VAL ALA GLY GLY ALA SEQRES 8 A 335 VAL LYS PRO LEU ALA ARG GLU LEU ILE ILE ALA ASP ASN SEQRES 9 A 335 VAL HIS GLY GLU SER GLY LEU ASP GLY PRO LYS LEU PRO SEQRES 10 A 335 ASP PRO SER PHE ASP PRO LEU THR GLN ASN ALA ILE GLU SEQRES 11 A 335 LEU MSE ALA GLU LYS VAL ARG GLN SER ALA VAL PRO VAL SEQRES 12 A 335 THR LEU VAL PRO SER GLY PRO LEU THR ASN ILE ALA LEU SEQRES 13 A 335 PHE ILE ALA ASN TYR PRO GLU LEU HIS SER LYS VAL GLU SEQRES 14 A 335 ARG ILE VAL LEU MSE GLY GLY ALA ALA GLY VAL GLY ASN SEQRES 15 A 335 TRP THR PRO ALA ALA GLU PHE ASN ILE PHE VAL ASP PRO SEQRES 16 A 335 GLU ALA ALA ASP MSE VAL PHE LYS SER GLY ILE PRO ILE SEQRES 17 A 335 THR MSE CYS GLY LEU ASP VAL THR HIS GLU ALA GLN ILE SEQRES 18 A 335 MSE ASP GLU ASP ILE GLU ARG ILE ARG ALA ILE PRO ASN SEQRES 19 A 335 PRO VAL ALA GLN CYS VAL ALA GLU LEU LEU ASP PHE PHE SEQRES 20 A 335 MSE ILE TYR HIS ARG ASP PRO LYS TRP GLY PHE THR GLY SEQRES 21 A 335 ALA PRO LEU HIS ASP PRO CYS THR ILE ALA TRP LEU LEU SEQRES 22 A 335 LYS PRO GLU LEU PHE THR ALA GLN GLU CYS TRP VAL GLY SEQRES 23 A 335 VAL GLU THR LYS GLY GLU TYR THR GLN GLY MSE THR VAL SEQRES 24 A 335 VAL ASP ARG TYR GLN LEU THR GLY LYS THR ALA ASN ALA SEQRES 25 A 335 THR VAL LEU PHE ASP LEU ASP ARG GLN GLY PHE VAL ASP SEQRES 26 A 335 LEU ILE VAL ASP CYS LEU SER ALA TYR ASN MODRES 4WR2 MSE A 107 MET MODIFIED RESIDUE MODRES 4WR2 MSE A 154 MET MODIFIED RESIDUE MODRES 4WR2 MSE A 196 MET MODIFIED RESIDUE MODRES 4WR2 MSE A 222 MET MODIFIED RESIDUE MODRES 4WR2 MSE A 232 MET MODIFIED RESIDUE MODRES 4WR2 MSE A 244 MET MODIFIED RESIDUE MODRES 4WR2 MSE A 270 MET MODIFIED RESIDUE MODRES 4WR2 MSE A 319 MET MODIFIED RESIDUE HET MSE A 107 8 HET MSE A 154 8 HET MSE A 196 8 HET MSE A 222 8 HET MSE A 232 8 HET MSE A 244 8 HET MSE A 270 8 HET MSE A 319 8 HET CA A 401 1 HET 1PE A 402 32 HETNAM MSE SELENOMETHIONINE HETNAM CA CALCIUM ION HETNAM 1PE PENTAETHYLENE GLYCOL HETSYN 1PE PEG400 FORMUL 1 MSE 8(C5 H11 N O2 SE) FORMUL 2 CA CA 2+ FORMUL 3 1PE C10 H22 O6 FORMUL 4 HOH *284(H2 O) HELIX 1 AA1 GLY A 58 LEU A 69 1 12 HELIX 2 AA2 THR A 87 LEU A 102 1 16 HELIX 3 AA3 ASN A 149 SER A 161 1 13 HELIX 4 AA4 LEU A 173 TYR A 183 1 11 HELIX 5 AA5 PRO A 184 SER A 188 5 5 HELIX 6 AA6 GLU A 210 ASP A 216 1 7 HELIX 7 AA7 ASP A 216 SER A 226 1 11 HELIX 8 AA8 GLY A 234 HIS A 239 1 6 HELIX 9 AA9 MSE A 244 ALA A 253 1 10 HELIX 10 AB1 ASN A 256 HIS A 273 1 18 HELIX 11 AB2 ASP A 275 GLY A 279 5 5 HELIX 12 AB3 ASP A 287 LYS A 296 1 10 HELIX 13 AB4 ASP A 341 SER A 354 1 14 HELIX 14 AB5 ALA A 355 ASN A 357 5 3 SHEET 1 AA1 8 VAL A 109 GLY A 111 0 SHEET 2 AA1 8 LEU A 74 THR A 81 1 N VAL A 79 O ALA A 110 SHEET 3 AA1 8 THR A 49 CYS A 55 1 N ILE A 51 O LEU A 77 SHEET 4 AA1 8 VAL A 165 PRO A 169 1 O VAL A 168 N ILE A 52 SHEET 5 AA1 8 VAL A 190 MSE A 196 1 O VAL A 194 N LEU A 167 SHEET 6 AA1 8 ILE A 230 CYS A 233 1 O CYS A 233 N LEU A 195 SHEET 7 AA1 8 ALA A 334 LEU A 340 1 O THR A 335 N ILE A 230 SHEET 8 AA1 8 PHE A 300 CYS A 305 -1 N THR A 301 O PHE A 338 SHEET 1 AA2 2 GLN A 242 ILE A 243 0 SHEET 2 AA2 2 ALA A 283 PRO A 284 -1 O ALA A 283 N ILE A 243 SHEET 1 AA3 2 VAL A 307 VAL A 309 0 SHEET 2 AA3 2 THR A 320 VAL A 322 -1 O VAL A 321 N GLY A 308 LINK OD1 ASP A 56 CA CA A 401 1555 1555 2.50 LINK OD1 ASP A 61 CA CA A 401 1555 1555 2.56 LINK OD2 ASP A 61 CA CA A 401 1555 1555 2.59 LINK C ASP A 106 N MSE A 107 1555 1555 1.33 LINK C MSE A 107 N PRO A 108 1555 1555 1.35 LINK C LEU A 153 N MSE A 154 1555 1555 1.34 LINK C MSE A 154 N ALA A 155 1555 1555 1.33 LINK O SER A 170 CA CA A 401 1555 1555 2.34 LINK C LEU A 195 N MSE A 196 1555 1555 1.35 LINK C MSE A 196 N GLY A 197 1555 1555 1.32 LINK C ASP A 221 N MSE A 222 1555 1555 1.33 LINK C MSE A 222 N VAL A 223 1555 1555 1.33 LINK C THR A 231 N MSE A 232 1555 1555 1.33 LINK C MSE A 232 N CYS A 233 1555 1555 1.34 LINK C ILE A 243 N MSE A 244 1555 1555 1.33 LINK C MSE A 244 N ASP A 245 1555 1555 1.33 LINK C PHE A 269 N MSE A 270 1555 1555 1.33 LINK C MSE A 270 N ILE A 271 1555 1555 1.33 LINK OD2 ASP A 287 CA CA A 401 1555 1555 2.54 LINK C GLY A 318 N MSE A 319 1555 1555 1.33 LINK C MSE A 319 N THR A 320 1555 1555 1.33 LINK CA CA A 401 O HOH A 678 1555 1555 2.90 LINK CA CA A 401 O HOH A 598 1555 1555 2.57 LINK CA CA A 401 O HOH A 747 1555 1555 2.60 SITE 1 AC1 7 ASP A 56 ASP A 61 SER A 170 ASP A 287 SITE 2 AC1 7 HOH A 598 HOH A 678 HOH A 747 SITE 1 AC2 7 ASN A 85 VAL A 202 ASN A 204 LEU A 235 SITE 2 AC2 7 TRP A 278 PHE A 280 HIS A 286 CRYST1 60.078 115.047 141.640 90.00 90.00 90.00 I 2 2 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 0.016645 0.000000 0.000000 0.00000 SCALE2 0.000000 0.008692 0.000000 0.00000 SCALE3 0.000000 0.000000 0.007060 0.00000 MASTER 400 0 10 14 12 0 4 6 0 0 0 26 END