HEADER EYE LENS PROTEIN 10-FEB-98 1A45 TITLE GAMMAF CRYSTALLIN FROM BOVINE LENS COMPND MOL_ID: 1; COMPND 2 MOLECULE: GAMMAF CRYSTALLIN; COMPND 3 CHAIN: A SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: BOS TAURUS; SOURCE 3 ORGANISM_COMMON: CATTLE; SOURCE 4 ORGANISM_TAXID: 9913; SOURCE 5 ORGAN: LENS KEYWDS EYE LENS PROTEIN EXPDTA X-RAY DIFFRACTION AUTHOR B.V.NORLEDGE,R.HAY,O.A.BATEMAN,C.SLINGSBY,H.E.WHITE,D.S.MOSS, AUTHOR 2 P.F.LINDLEY,H.P.C.DRIESSEN REVDAT 4 02-AUG-23 1A45 1 REMARK REVDAT 3 24-FEB-09 1A45 1 VERSN REVDAT 2 01-APR-03 1A45 1 JRNL REVDAT 1 17-JUN-98 1A45 0 SPRSDE 17-JUN-98 1A45 2GCR JRNL AUTH B.V.NORLEDGE,R.E.HAY,O.A.BATEMAN,C.SLINGSBY,H.P.DRIESSEN JRNL TITL TOWARDS A MOLECULAR UNDERSTANDING OF PHASE SEPARATION IN THE JRNL TITL 2 LENS: A COMPARISON OF THE X-RAY STRUCTURES OF TWO HIGH TC JRNL TITL 3 GAMMA-CRYSTALLINS, GAMMAE AND GAMMAF, WITH TWO LOW TC JRNL TITL 4 GAMMA-CRYSTALLINS, GAMMAB AND GAMMAD. JRNL REF EXP.EYE RES. V. 65 609 1997 JRNL REFN ISSN 0014-4835 JRNL PMID 9367641 JRNL DOI 10.1006/EXER.1997.0368 REMARK 1 REMARK 1 REFERENCE 1 REMARK 1 AUTH H.E.WHITE,H.P.DRIESSEN,C.SLINGSBY,D.S.MOSS,P.F.LINDLEY REMARK 1 TITL PACKING INTERACTIONS IN THE EYE-LENS. STRUCTURAL ANALYSIS, REMARK 1 TITL 2 INTERNAL SYMMETRY AND LATTICE INTERACTIONS OF BOVINE GAMMA REMARK 1 TITL 3 IVA-CRYSTALLIN REMARK 1 REF J.MOL.BIOL. V. 207 217 1989 REMARK 1 REFN ISSN 0022-2836 REMARK 1 REFERENCE 2 REMARK 1 AUTH H.E.WHITE,H.P.DRIESSEN,C.SLINGSBY,D.S.MOSS,W.G.TURNELL, REMARK 1 AUTH 2 P.F.LINDLEY REMARK 1 TITL THE USE OF PSEUDOSYMMETRY IN THE ROTATION FUNCTION OF GAMMA REMARK 1 TITL 2 IVA-CRYSTALLIN REMARK 1 REF ACTA CRYSTALLOGR.,SECT.B V. 44 172 1988 REMARK 1 REFN ISSN 0108-7681 REMARK 1 REFERENCE 3 REMARK 1 AUTH C.SLINGSBY,L.R.MILLER REMARK 1 TITL PURIFICATION AND CRYSTALLIZATION OF MAMMALIAN LENS REMARK 1 TITL 2 GAMMA-CRYSTALLINS REMARK 1 REF EXP.EYE RES. V. 37 517 1983 REMARK 1 REFN ISSN 0014-4835 REMARK 1 REFERENCE 4 REMARK 1 AUTH T.L.BLUNDELL,P.F.LINDLEY,D.S.MOSS,C.SLINGSBY,I.J.TICKLE, REMARK 1 AUTH 2 W.G.TURNELL REMARK 1 TITL THE LOW-RESOLUTION STRUCTURE ANALYSIS OF THE LENS PROTEIN REMARK 1 TITL 2 GAMMA-CRYSTALLIN REMARK 1 REF ACTA CRYSTALLOGR.,SECT.B V. 34 3653 1978 REMARK 1 REFN ISSN 0108-7681 REMARK 2 REMARK 2 RESOLUTION. 2.30 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : X-PLOR 3.1 REMARK 3 AUTHORS : BRUNGER REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.30 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 8.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 DATA CUTOFF HIGH (ABS(F)) : NULL REMARK 3 DATA CUTOFF LOW (ABS(F)) : NULL REMARK 3 COMPLETENESS (WORKING+TEST) (%) : 88.6 REMARK 3 NUMBER OF REFLECTIONS : 6115 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 SET) : 0.186 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 ESTIMATED ERROR OF FREE R VALUE : NULL REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : NULL REMARK 3 BIN RESOLUTION RANGE HIGH (A) : NULL REMARK 3 BIN RESOLUTION RANGE LOW (A) : NULL REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : NULL REMARK 3 REFLECTIONS IN BIN (WORKING SET) : NULL REMARK 3 BIN R VALUE (WORKING SET) : NULL REMARK 3 BIN FREE R VALUE : NULL REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : NULL REMARK 3 BIN FREE R VALUE TEST SET COUNT : NULL REMARK 3 ESTIMATED ERROR OF BIN FREE R VALUE : NULL REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 1481 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 0 REMARK 3 SOLVENT ATOMS : 207 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 CROSS-VALIDATED ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM C-V LUZZATI PLOT (A) : NULL REMARK 3 ESD FROM C-V SIGMAA (A) : NULL REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 BOND LENGTHS (A) : 0.012 REMARK 3 BOND ANGLES (DEGREES) : 1.623 REMARK 3 DIHEDRAL ANGLES (DEGREES) : 27.30 REMARK 3 IMPROPER ANGLES (DEGREES) : 1.478 REMARK 3 REMARK 3 ISOTROPIC THERMAL MODEL : NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. RMS SIGMA REMARK 3 MAIN-CHAIN BOND (A**2) : NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE (A**2) : NULL ; NULL REMARK 3 SIDE-CHAIN BOND (A**2) : NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE (A**2) : NULL ; NULL REMARK 3 REMARK 3 NCS MODEL : NULL REMARK 3 REMARK 3 NCS RESTRAINTS. RMS SIGMA/WEIGHT REMARK 3 GROUP 1 POSITIONAL (A) : NULL ; NULL REMARK 3 GROUP 1 B-FACTOR (A**2) : NULL ; NULL REMARK 3 REMARK 3 PARAMETER FILE 1 : NULL REMARK 3 TOPOLOGY FILE 1 : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: THE AUTHORS ALSO USED REFINEMENT REMARK 3 PROGRAM RESTRAIN (DRIESSEN, HANEEF, HARRIS, HOWLIN, KHAN & MOSS, REMARK 3 J. APPL. CRYSTALLOGR. 22, 510, 1989). REMARK 4 REMARK 4 1A45 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY BNL. REMARK 100 THE DEPOSITION ID IS D_1000170369. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : JUN-83 REMARK 200 TEMPERATURE (KELVIN) : 300 REMARK 200 PH : 7.0 REMARK 200 NUMBER OF CRYSTALS USED : 3 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SRS REMARK 200 BEAMLINE : PX7.2 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.5418 REMARK 200 MONOCHROMATOR : GRAPHITE(002) REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : FILM REMARK 200 DETECTOR MANUFACTURER : NULL REMARK 200 INTENSITY-INTEGRATION SOFTWARE : MOSFLM REMARK 200 DATA SCALING SOFTWARE : CCP4 (AGROVATA, ROTAVATA REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 6300 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.300 REMARK 200 RESOLUTION RANGE LOW (A) : 24.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 88.7 REMARK 200 DATA REDUNDANCY : 4.000 REMARK 200 R MERGE (I) : 0.10400 REMARK 200 R SYM (I) : NULL REMARK 200 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 FOR SHELL : NULL REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: NULL REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: X-PLOR 3.1 REMARK 200 STARTING MODEL: PDB ENTRY 4GCR REMARK 200 REMARK 200 REMARK: DATA WERE COLLECTED USING THE OSCILLATION METHOD ON AN REMARK 200 ARNDT-WONACOTT CAMERA. THERE IS INCOMPLETE DATA TO 2.1 A. REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 32.00 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 1.80 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: PH 7.0 REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: C 2 2 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 3555 -X,Y,-Z+1/2 REMARK 290 4555 X,-Y,-Z REMARK 290 5555 X+1/2,Y+1/2,Z 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 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 93.10000 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 93.10000 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 17.55000 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 23.10000 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 6 -1.000000 0.000000 0.000000 17.55000 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 23.10000 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 93.10000 REMARK 290 SMTRY1 7 -1.000000 0.000000 0.000000 17.55000 REMARK 290 SMTRY2 7 0.000000 1.000000 0.000000 23.10000 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 93.10000 REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 17.55000 REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 23.10000 REMARK 290 SMTRY3 8 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: DIMERIC 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 0.00000 REMARK 350 BIOMT2 2 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 2 0.000000 0.000000 -1.000000 93.10000 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 SER A 20 -160.15 -163.63 REMARK 500 TYR A 65 0.62 -61.79 REMARK 500 ASN A 72 -165.51 -162.36 REMARK 500 SER A 87 141.91 68.66 REMARK 500 REMARK 500 REMARK: NULL REMARK 999 REMARK 999 SEQUENCE REMARK 999 THE RESIDUES HAVE BEEN NUMBERED ACCORDING TO THE HOMOLOGY REMARK 999 WITH BOVINE LENS GAMMA B-CRYSTALLIN. THEREFORE, THERE IS A REMARK 999 GAP AT RESIDUE 85 (NORLEDGE ET AL., 1997). DBREF 1A45 A 1 174 UNP P23005 CRGF_BOVIN 1 173 SEQRES 1 A 173 GLY LYS ILE THR PHE TYR GLU ASP ARG GLY PHE GLN GLY SEQRES 2 A 173 ARG HIS TYR GLU CYS SER SER ASP HIS SER ASN LEU GLN SEQRES 3 A 173 PRO TYR PHE SER ARG CYS ASN SER ILE ARG VAL ASP SER SEQRES 4 A 173 GLY CYS TRP MET LEU TYR GLU GLN PRO ASN PHE GLN GLY SEQRES 5 A 173 PRO GLN TYR PHE LEU ARG ARG GLY ASP TYR PRO ASP TYR SEQRES 6 A 173 GLN GLN TRP MET GLY LEU ASN ASP SER ILE ARG SER CYS SEQRES 7 A 173 ARG LEU ILE PRO HIS THR GLY SER HIS ARG LEU ARG ILE SEQRES 8 A 173 TYR GLU ARG GLU ASP TYR ARG GLY GLN MET VAL GLU ILE SEQRES 9 A 173 THR GLU ASP CYS SER SER LEU HIS ASP ARG PHE HIS PHE SEQRES 10 A 173 SER GLU ILE HIS SER PHE ASN VAL LEU GLU GLY TRP TRP SEQRES 11 A 173 VAL LEU TYR GLU MET THR ASN TYR ARG GLY ARG GLN TYR SEQRES 12 A 173 LEU LEU ARG PRO GLY ASP TYR ARG ARG TYR HIS ASP TRP SEQRES 13 A 173 GLY ALA THR ASN ALA ARG VAL GLY SER LEU ARG ARG ALA SEQRES 14 A 173 VAL ASP PHE TYR FORMUL 2 HOH *207(H2 O) HELIX 1 1 GLU A 96 TYR A 98 5 3 HELIX 2 2 TYR A 154 TRP A 157 5 4 SHEET 1 A 4 HIS A 15 CYS A 18 0 SHEET 2 A 4 LYS A 2 TYR A 6 -1 N PHE A 5 O TYR A 16 SHEET 3 A 4 SER A 34 SER A 39 -1 N SER A 39 O LYS A 2 SHEET 4 A 4 GLY A 60 TYR A 62 -1 N TYR A 62 O ILE A 35 SHEET 1 B 3 SER A 77 ILE A 81 0 SHEET 2 B 3 CYS A 41 TYR A 45 -1 N TYR A 45 O SER A 77 SHEET 3 B 3 GLN A 54 LEU A 57 -1 N LEU A 57 O TRP A 42 SHEET 1 C 4 MET A 102 ILE A 105 0 SHEET 2 C 4 ARG A 89 TYR A 93 -1 N ILE A 92 O VAL A 103 SHEET 3 C 4 SER A 123 GLU A 128 -1 N GLU A 128 O ARG A 89 SHEET 4 C 4 GLY A 149 TYR A 151 -1 N TYR A 151 O PHE A 124 SHEET 1 D 3 GLN A 143 LEU A 146 0 SHEET 2 D 3 TRP A 131 TYR A 134 -1 N LEU A 133 O TYR A 144 SHEET 3 D 3 SER A 166 ARG A 169 -1 N ARG A 168 O VAL A 132 CRYST1 35.100 46.200 186.200 90.00 90.00 90.00 C 2 2 21 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 0.028490 0.000000 0.000000 0.00000 SCALE2 0.000000 0.021645 0.000000 0.00000 SCALE3 0.000000 0.000000 0.005371 0.00000