HEADER CHAPERONE 22-MAY-09 2WJ5 TITLE RAT ALPHA CRYSTALLIN DOMAIN COMPND MOL_ID: 1; COMPND 2 MOLECULE: HEAT SHOCK PROTEIN BETA-6; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: ALPHA-CRYSTALLIN DOMAIN, RESIDUES 65-162; COMPND 5 SYNONYM: HEAT SHOCK 20 KDA-LIKE PROTEIN P20, HSPB6; COMPND 6 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: RATTUS NORVEGICUS; SOURCE 3 ORGANISM_COMMON: RAT; SOURCE 4 ORGANISM_TAXID: 10116; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS CHAPERONE, DISULFIDE BOND, STRESS RESPONSE EXPDTA X-RAY DIFFRACTION AUTHOR C.E.NAYLOR,C.BAGNERIS,O.A.BATEMAN,N.CRONIN,N.H.KEEP,C.SLINGSBY REVDAT 5 13-DEC-23 2WJ5 1 REMARK REVDAT 4 22-MAY-19 2WJ5 1 TITLE REMARK REVDAT 3 15-MAY-19 2WJ5 1 REMARK REVDAT 2 29-SEP-09 2WJ5 1 JRNL REVDAT 1 11-AUG-09 2WJ5 0 JRNL AUTH C.BAGNERIS,O.A.BATEMAN,C.E.NAYLOR,N.CRONIN,W.C.BOELENS, JRNL AUTH 2 N.H.KEEP,C.SLINGSBY JRNL TITL CRYSTAL STRUCTURES OF ALPHA-CRYSTALLIN DOMAIN DIMERS OF JRNL TITL 2 ALPHAB-CRYSTALLIN AND HSP20. JRNL REF J.MOL.BIOL. V. 392 1242 2009 JRNL REFN ISSN 0022-2836 JRNL PMID 19646995 JRNL DOI 10.1016/J.JMB.2009.07.069 REMARK 2 REMARK 2 RESOLUTION. 1.12 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX (PHENIX.REFINE) REMARK 3 AUTHORS : PAUL ADAMS,PAVEL AFONINE,VINCENT CHEN,IAN REMARK 3 : DAVIS,KRESHNA GOPAL,RALF GROSSE-KUNSTLEVE, REMARK 3 : LI-WEI HUNG,ROBERT IMMORMINO,TOM IOERGER, REMARK 3 : AIRLIE MCCOY,ERIK MCKEE,NIGEL MORIARTY, REMARK 3 : REETAL PAI,RANDY READ,JANE RICHARDSON, REMARK 3 : DAVID RICHARDSON,TOD ROMO,JIM SACCHETTINI, REMARK 3 : NICHOLAS SAUTER,JACOB SMITH,LAURENT REMARK 3 : STORONI,TOM TERWILLIGER,PETER ZWART REMARK 3 REMARK 3 REFINEMENT TARGET : ML REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.12 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 28.07 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.380 REMARK 3 COMPLETENESS FOR RANGE (%) : 91.5 REMARK 3 NUMBER OF REFLECTIONS : 39185 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.154 REMARK 3 R VALUE (WORKING SET) : 0.152 REMARK 3 FREE R VALUE : 0.180 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 1967 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT (IN BINS). REMARK 3 BIN RESOLUTION RANGE COMPL. NWORK NFREE RWORK RFREE REMARK 3 1 28.0795 - 2.6986 0.99 2969 151 0.1741 0.1954 REMARK 3 2 2.6986 - 2.1422 0.99 2900 170 0.1450 0.1745 REMARK 3 3 2.1422 - 1.8715 0.99 2884 164 0.1157 0.1370 REMARK 3 4 1.8715 - 1.7004 1.00 2928 137 0.1193 0.1482 REMARK 3 5 1.7004 - 1.5785 1.00 2904 133 0.1163 0.1773 REMARK 3 6 1.5785 - 1.4855 0.99 2891 144 0.1149 0.1559 REMARK 3 7 1.4855 - 1.4111 1.00 2871 141 0.1194 0.1749 REMARK 3 8 1.4111 - 1.3497 1.00 2867 170 0.1245 0.1496 REMARK 3 9 1.3497 - 1.2977 0.99 2931 143 0.1360 0.1660 REMARK 3 10 1.2977 - 1.2529 0.99 2861 160 0.1489 0.1783 REMARK 3 11 1.2529 - 1.2137 0.94 2696 154 0.1570 0.1944 REMARK 3 12 1.2137 - 1.1791 0.77 2258 112 0.1761 0.2339 REMARK 3 13 1.1791 - 1.1480 0.64 1806 111 0.1975 0.2306 REMARK 3 14 1.1480 - 1.1200 0.50 1452 77 0.2077 0.2075 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : FLAT BULK SOLVENT MODEL REMARK 3 SOLVENT RADIUS : 1.11 REMARK 3 SHRINKAGE RADIUS : 0.90 REMARK 3 K_SOL : 0.43 REMARK 3 B_SOL : 99.00 REMARK 3 REMARK 3 ERROR ESTIMATES. REMARK 3 COORDINATE ERROR (MAXIMUM-LIKELIHOOD BASED) : 0.090 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 16.210 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 8.40 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 18.60 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.26020 REMARK 3 B22 (A**2) : -3.62320 REMARK 3 B33 (A**2) : -0.36780 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 0.42530 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 TWINNING INFORMATION. REMARK 3 FRACTION: NULL REMARK 3 OPERATOR: NULL REMARK 3 REMARK 3 DEVIATIONS FROM IDEAL VALUES. REMARK 3 RMSD COUNT REMARK 3 BOND : 0.025 872 REMARK 3 ANGLE : 2.530 1212 REMARK 3 CHIRALITY : 0.151 129 REMARK 3 PLANARITY : 0.020 170 REMARK 3 DIHEDRAL : 18.655 337 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : NULL REMARK 3 REMARK 3 NCS DETAILS REMARK 3 NUMBER OF NCS GROUPS : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 2WJ5 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 22-MAY-09. REMARK 100 THE DEPOSITION ID IS D_1290039898. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 05-JAN-08 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 6.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : DIAMOND REMARK 200 BEAMLINE : I04 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9757 REMARK 200 MONOCHROMATOR : SI CRYSTAL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC CCD REMARK 200 INTENSITY-INTEGRATION SOFTWARE : MOSFLM REMARK 200 DATA SCALING SOFTWARE : SCALA REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 39225 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.120 REMARK 200 RESOLUTION RANGE LOW (A) : 28.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 91.6 REMARK 200 DATA REDUNDANCY : 6.700 REMARK 200 R MERGE (I) : 0.09000 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 10.7000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.12 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.15 REMARK 200 COMPLETENESS FOR SHELL (%) : 51.5 REMARK 200 DATA REDUNDANCY IN SHELL : 4.50 REMARK 200 R MERGE FOR SHELL (I) : 0.40000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 2.500 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: PDB ENTRY 1GME REMARK 200 REMARK 200 REMARK: NONE REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 54.00 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.66 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: SINGLE CRYSTALS OF RAT HSP20 ACD GREW REMARK 280 AT 16 DEGREESIN 100 MM MES PH 6.5, BETWEEN 45-52% V/V PEG 200, REMARK 280 AT A PROTEIN CONCENTRATION OF AROUND 10 MG/ML USING 1 UL PROTEIN REMARK 280 SOLUTION AND 2 UL RESERVOIR SOLUTION., VAPOR DIFFUSION, REMARK 280 TEMPERATURE 289K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: C 1 2 1 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+1/2,Y+1/2,Z REMARK 290 4555 -X+1/2,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 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 3 1.000000 0.000000 0.000000 52.73950 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 18.98200 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 52.73950 REMARK 290 SMTRY2 4 0.000000 1.000000 0.000000 18.98200 REMARK 290 SMTRY3 4 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: PQS 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 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 A2151 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 PRO A 97 REMARK 465 PRO A 98 REMARK 465 ALA A 99 REMARK 465 ALA A 100 REMARK 465 LYS A 101 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 LYS A 20 CB LYS A 20 CG -0.200 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 41 NE - CZ - NH1 ANGL. DEV. = 3.8 DEGREES REMARK 500 ARG A 41 NE - CZ - NH1 ANGL. DEV. = -3.4 DEGREES REMARK 500 ARG A 45 NE - CZ - NH2 ANGL. DEV. = -3.1 DEGREES 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 A2011 DISTANCE = 6.33 ANGSTROMS REMARK 525 HOH A2012 DISTANCE = 6.97 ANGSTROMS REMARK 525 HOH A2018 DISTANCE = 6.49 ANGSTROMS REMARK 525 HOH A2019 DISTANCE = 5.88 ANGSTROMS REMARK 525 HOH A2020 DISTANCE = 6.02 ANGSTROMS REMARK 525 HOH A2053 DISTANCE = 5.87 ANGSTROMS REMARK 525 HOH A2066 DISTANCE = 6.91 ANGSTROMS REMARK 525 HOH A2075 DISTANCE = 6.31 ANGSTROMS REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 2WJ7 RELATED DB: PDB REMARK 900 HUMAN ALPHA B CRYSTALLIN REMARK 999 REMARK 999 SEQUENCE REMARK 999 THE ALPHA-CRYSTALLIN DOMAIN COMPRISES RESIDUES 65-162, REMARK 999 PRECEDED BY A GAM TAG DBREF 2WJ5 A 1 3 PDB 2WJ5 2WJ5 1 3 DBREF 2WJ5 A 4 101 UNP P97541 HSPB6_RAT 65 162 SEQRES 1 A 101 GLY ALA MET ALA GLN VAL PRO THR ASP PRO GLY TYR PHE SEQRES 2 A 101 SER VAL LEU LEU ASP VAL LYS HIS PHE SER PRO GLU GLU SEQRES 3 A 101 ILE SER VAL LYS VAL VAL GLY ASP HIS VAL GLU VAL HIS SEQRES 4 A 101 ALA ARG HIS GLU GLU ARG PRO ASP GLU HIS GLY PHE ILE SEQRES 5 A 101 ALA ARG GLU PHE HIS ARG ARG TYR ARG LEU PRO PRO GLY SEQRES 6 A 101 VAL ASP PRO ALA ALA VAL THR SER ALA LEU SER PRO GLU SEQRES 7 A 101 GLY VAL LEU SER ILE GLN ALA THR PRO ALA SER ALA GLN SEQRES 8 A 101 ALA SER LEU PRO SER PRO PRO ALA ALA LYS FORMUL 2 HOH *227(H2 O) HELIX 1 1 SER A 23 GLU A 25 5 3 SHEET 1 AA 3 PHE A 13 ASP A 18 0 SHEET 2 AA 3 VAL A 80 ALA A 85 -1 O LEU A 81 N LEU A 17 SHEET 3 AA 3 THR A 72 LEU A 75 -1 O THR A 72 N GLN A 84 SHEET 1 AB 3 ILE A 27 VAL A 32 0 SHEET 2 AB 3 HIS A 35 GLU A 44 -1 O HIS A 35 N VAL A 32 SHEET 3 AB 3 ILE A 52 ARG A 61 -1 O ILE A 52 N GLU A 44 CRYST1 105.479 37.964 28.081 90.00 91.55 90.00 C 1 2 1 4 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 0.009481 0.000000 0.000257 0.00000 SCALE2 0.000000 0.026341 0.000000 0.00000 SCALE3 0.000000 0.000000 0.035624 0.00000