HEADER TRANSFERASE 10-AUG-00 1FKQ TITLE RECOMBINANT GOAT ALPHA-LACTALBUMIN T29V COMPND MOL_ID: 1; COMPND 2 MOLECULE: ALPHA-LACTALBUMIN; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: B-HELIX; COMPND 5 SYNONYM: LACTOSE SYNTHASE B PROTEIN; COMPND 6 EC: 2.4.1.22; COMPND 7 ENGINEERED: YES; COMPND 8 MUTATION: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: CAPRA HIRCUS; SOURCE 3 ORGANISM_COMMON: GOAT; SOURCE 4 ORGANISM_TAXID: 9925; SOURCE 5 GENE: A CLONED GENE OF GOAT LACTA; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); 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-PUT7LA-T29V; SOURCE 11 EXPRESSION_SYSTEM_GENE: A CLONED GENE OF GOAT CDNA KEYWDS LACTOSE SYNTHASE COMPONENT, CALCIUM BINDING METALLOPROTEIN, KEYWDS 2 GLYCOPROTEIN, TRANSFERASE EXPDTA X-RAY DIFFRACTION AUTHOR K.HORII,M.MATSUSHIMA,K.TSUMOTO,I.KUMAGAI REVDAT 4 03-NOV-21 1FKQ 1 REMARK SEQADV LINK REVDAT 3 24-FEB-09 1FKQ 1 VERSN REVDAT 2 13-MAR-02 1FKQ 1 JRNL REVDAT 1 14-FEB-01 1FKQ 0 JRNL AUTH K.HORII,M.SAITO,T.YODA,K.TSUMOTO,M.MATSUSHIMA,K.KUWAJIMA, JRNL AUTH 2 I.KUMAGAI JRNL TITL CONTRIBUTION OF THR29 TO THE THERMODYNAMIC STABILITY OF GOAT JRNL TITL 2 ALPHA-LACTALBUMIN AS DETERMINED BY EXPERIMENTAL AND JRNL TITL 3 THEORETICAL APPROACHES. JRNL REF PROTEINS V. 45 16 2001 JRNL REFN ISSN 0887-3585 JRNL PMID 11536356 JRNL DOI 10.1002/PROT.1119 REMARK 1 REMARK 1 REFERENCE 1 REMARK 1 AUTH T.K.CHAUDHURI,K.HORII,T.YODA,M.ARAI,S.NAGATA,T.P.TERADA, REMARK 1 AUTH 2 H.UCHIYAMA,T.IKURA,K.TSUMOTO,H.KATAOKA,M.MATSUSHIMA, REMARK 1 AUTH 3 K.KUWAJIMA,I.KUMAGAI REMARK 1 TITL EFFECT OF THE EXTRA N-TERMINAL METHIONINE RESIDUE ON THE REMARK 1 TITL 2 STABILITY AND FOLDING OF RECOMBINANT ALPHA-LACTALBUMIN REMARK 1 TITL 3 EXPRESSED IN ESCHERICHIA COLI REMARK 1 REF J.MOL.BIOL. V. 285 1179 1999 REMARK 1 REFN ISSN 0022-2836 REMARK 1 DOI 10.1006/JMBI.1998.2362 REMARK 2 REMARK 2 RESOLUTION. 1.80 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : X-PLOR 3.851 REMARK 3 AUTHORS : BRUNGER REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.80 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 8.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : 2.000 REMARK 3 DATA CUTOFF HIGH (ABS(F)) : NULL REMARK 3 DATA CUTOFF LOW (ABS(F)) : NULL REMARK 3 COMPLETENESS (WORKING+TEST) (%) : 84.7 REMARK 3 NUMBER OF REFLECTIONS : 8323 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 CROSS-VALIDATION METHOD : NULL REMARK 3 FREE R VALUE TEST SET SELECTION : RANDOM REMARK 3 R VALUE (WORKING SET) : 0.189 REMARK 3 FREE R VALUE : 0.241 REMARK 3 FREE R VALUE TEST SET SIZE (%) : NULL REMARK 3 FREE R VALUE TEST SET COUNT : 953 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 : 1003 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 1 REMARK 3 SOLVENT ATOMS : 64 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) : 0.006 REMARK 3 BOND ANGLES (DEGREES) : 1.256 REMARK 3 DIHEDRAL ANGLES (DEGREES) : NULL REMARK 3 IMPROPER ANGLES (DEGREES) : NULL 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: NULL REMARK 4 REMARK 4 1FKQ COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 21-AUG-00. REMARK 100 THE DEPOSITION ID IS D_1000011673. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 08-JAN-98 REMARK 200 TEMPERATURE (KELVIN) : 282.5 REMARK 200 PH : 5.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : N REMARK 200 RADIATION SOURCE : ROTATING ANODE REMARK 200 BEAMLINE : NULL REMARK 200 X-RAY GENERATOR MODEL : MACSCIENCE REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.5418 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : IMAGE PLATE REMARK 200 DETECTOR MANUFACTURER : MACSCIENCE REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 10970 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.750 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 (%) : 90.4 REMARK 200 DATA REDUNDANCY : 4.300 REMARK 200 R MERGE (I) : 0.09200 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 6.7000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.75 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.81 REMARK 200 COMPLETENESS FOR SHELL (%) : 87.8 REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : 0.37500 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: NULL REMARK 200 SOFTWARE USED: X-PLOR REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 38.42 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.00 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: PEG 4000, AMMONIUM SULFATE, CALCIUM REMARK 280 CHLORIDE, POTASSIUM PHOSPHATE, PH 5.5, VAPOR DIFFUSION, HANGING REMARK 280 DROP, TEMPERATURE 277.0K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 21 21 21 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X+1/2,-Y,Z+1/2 REMARK 290 3555 -X,Y+1/2,-Z+1/2 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 21.37500 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 22.57000 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 29.69000 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 22.57000 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 21.37500 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 29.69000 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 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: 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 GLU A 1 61.64 72.10 REMARK 500 ASP A 46 18.29 -141.82 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 CA A 124 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 LYS A 79 O REMARK 620 2 ASP A 82 OD1 91.5 REMARK 620 3 ASP A 84 O 169.8 79.1 REMARK 620 4 ASP A 87 OD1 93.4 149.1 92.7 REMARK 620 5 ASP A 88 OD2 105.0 135.5 84.7 72.0 REMARK 620 6 HOH A 126 O 86.1 75.5 87.6 74.5 145.2 REMARK 620 7 HOH A 135 O 87.4 68.7 92.9 141.9 71.1 143.4 REMARK 620 N 1 2 3 4 5 6 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 124 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1HMK RELATED DB: PDB REMARK 900 RECOMBINANT GOAT ALPHA-LACTALBUMIN WILD-TYPE REMARK 900 RELATED ID: 1HFY RELATED DB: PDB REMARK 900 AUTHENTIC GOAT ALPHA-LACTALBUMIN REMARK 900 RELATED ID: 1FKV RELATED DB: PDB REMARK 900 RECOMBINANT GOAT ALPHA-LACTALBUMIN T29I DBREF 1FKQ A 1 123 UNP P00712 LALBA_CAPHI 20 142 SEQADV 1FKQ MET A 0 UNP P00712 CLONING ARTIFACT SEQADV 1FKQ VAL A 29 UNP P00712 THR 48 ENGINEERED MUTATION SEQRES 1 A 124 MET GLU GLN LEU THR LYS CYS GLU VAL PHE GLN LYS LEU SEQRES 2 A 124 LYS ASP LEU LYS ASP TYR GLY GLY VAL SER LEU PRO GLU SEQRES 3 A 124 TRP VAL CYS VAL ALA PHE HIS THR SER GLY TYR ASP THR SEQRES 4 A 124 GLN ALA ILE VAL GLN ASN ASN ASP SER THR GLU TYR GLY SEQRES 5 A 124 LEU PHE GLN ILE ASN ASN LYS ILE TRP CYS LYS ASP ASP SEQRES 6 A 124 GLN ASN PRO HIS SER ARG ASN ILE CYS ASN ILE SER CYS SEQRES 7 A 124 ASP LYS PHE LEU ASP ASP ASP LEU THR ASP ASP ILE VAL SEQRES 8 A 124 CYS ALA LYS LYS ILE LEU ASP LYS VAL GLY ILE ASN TYR SEQRES 9 A 124 TRP LEU ALA HIS LYS ALA LEU CYS SER GLU LYS LEU ASP SEQRES 10 A 124 GLN TRP LEU CYS GLU LYS LEU HET CA A 124 1 HETNAM CA CALCIUM ION FORMUL 2 CA CA 2+ FORMUL 3 HOH *64(H2 O) HELIX 1 1 THR A 4 LEU A 12 1 9 HELIX 2 2 LYS A 13 LYS A 16 5 4 HELIX 3 3 ASP A 17 ASP A 17 5 1 HELIX 4 4 SER A 22 GLY A 35 1 14 HELIX 5 5 CYS A 77 LEU A 81 5 5 HELIX 6 6 LEU A 85 GLY A 100 1 16 HELIX 7 7 ILE A 101 TRP A 104 5 4 HELIX 8 8 HIS A 107 CYS A 111 5 5 HELIX 9 9 LYS A 114 LEU A 119 5 6 SHEET 1 A 3 ILE A 41 GLN A 43 0 SHEET 2 A 3 THR A 48 TYR A 50 -1 N GLU A 49 O VAL A 42 SHEET 3 A 3 ILE A 55 ASN A 56 -1 O ILE A 55 N TYR A 50 SSBOND 1 CYS A 6 CYS A 120 1555 1555 2.03 SSBOND 2 CYS A 28 CYS A 111 1555 1555 2.03 SSBOND 3 CYS A 61 CYS A 77 1555 1555 2.03 SSBOND 4 CYS A 73 CYS A 91 1555 1555 2.03 LINK O LYS A 79 CA CA A 124 1555 1555 2.45 LINK OD1 ASP A 82 CA CA A 124 1555 1555 2.59 LINK O ASP A 84 CA CA A 124 1555 1555 2.32 LINK OD1 ASP A 87 CA CA A 124 1555 1555 2.36 LINK OD2 ASP A 88 CA CA A 124 1555 1555 2.42 LINK CA CA A 124 O HOH A 126 1555 1555 2.58 LINK CA CA A 124 O HOH A 135 1555 1555 2.57 SITE 1 AC1 7 LYS A 79 ASP A 82 ASP A 84 ASP A 87 SITE 2 AC1 7 ASP A 88 HOH A 126 HOH A 135 CRYST1 42.750 59.380 45.140 90.00 90.00 90.00 P 21 21 21 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 0.023392 0.000000 0.000000 0.00000 SCALE2 0.000000 0.016841 0.000000 0.00000 SCALE3 0.000000 0.000000 0.022153 0.00000