HEADER BIOTIN-BINDING PROTEIN 17-DEC-10 2Y32 TITLE CRYSTAL STRUCTURE OF BRADAVIDIN COMPND MOL_ID: 1; COMPND 2 MOLECULE: BLR5658 PROTEIN; COMPND 3 CHAIN: A, B, C, D; COMPND 4 FRAGMENT: RESIDUES 26-163; COMPND 5 SYNONYM: BRADAVIDIN; COMPND 6 ENGINEERED: YES; COMPND 7 OTHER_DETAILS: AUTHORS REPORT RESIDUES 1-25 ARE A SIGNAL PEPTIDE THAT COMPND 8 IS ABSENT IN CRYSTALLIZED FORM SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: BRADYRHIZOBIUM JAPONICUM; SOURCE 3 ORGANISM_TAXID: 375; SOURCE 4 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 5 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS BIOTIN-BINDING PROTEIN EXPDTA X-RAY DIFFRACTION AUTHOR J.LEPPINIEMI,T.GRONROOS,M.S.JOHNSON,M.S.KULOMAA,V.P.HYTONEN, AUTHOR 2 T.T.AIRENNE REVDAT 4 08-MAY-19 2Y32 1 REMARK REVDAT 3 17-JAN-18 2Y32 1 REMARK REVDAT 2 06-JUN-12 2Y32 1 JRNL REVDAT 1 28-DEC-11 2Y32 0 JRNL AUTH J.LEPPINIEMI,T.GRONROOS,J.A.E.MAATTA,M.S.JOHNSON, JRNL AUTH 2 M.S.KULOMAA,V.P.HYTONEN,T.T.AIRENNE JRNL TITL STRUCTURE OF BRADAVIDIN - C-TERMINAL RESIDUES ACT AS JRNL TITL 2 INTRINSIC LIGANDS. JRNL REF PLOS ONE V. 7 35962 2012 JRNL REFN ESSN 1932-6203 JRNL PMID 22574129 JRNL DOI 10.1371/JOURNAL.PONE.0035962 REMARK 2 REMARK 2 RESOLUTION. 1.78 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.5.0102 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) : 1.78 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 28.64 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 3 NUMBER OF REFLECTIONS : 44303 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) : 0.146 REMARK 3 R VALUE (WORKING SET) : 0.144 REMARK 3 FREE R VALUE : 0.182 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 2365 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) : 1.78 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.83 REMARK 3 REFLECTION IN BIN (WORKING SET) : 3208 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 100.0 REMARK 3 BIN R VALUE (WORKING SET) : 0.1820 REMARK 3 BIN FREE R VALUE SET COUNT : 167 REMARK 3 BIN FREE R VALUE : 0.2340 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 4034 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 0 REMARK 3 SOLVENT ATOMS : 680 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 18.01 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.35000 REMARK 3 B22 (A**2) : 0.18000 REMARK 3 B33 (A**2) : 0.18000 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): 0.114 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.109 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.046 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 3.123 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.966 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.951 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 4230 ; 0.014 ; 0.021 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 5814 ; 1.382 ; 1.901 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 591 ; 5.904 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 165 ;39.523 ;26.121 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 610 ;11.221 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): NULL ; NULL ; NULL REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 667 ; 0.112 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 3232 ; 0.007 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL 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): 2743 ; 0.760 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 4383 ; 1.346 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1487 ; 2.142 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1408 ; 3.159 ; 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 : 4 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 1 A 150 REMARK 3 ORIGIN FOR THE GROUP (A): 39.0030 -2.3130 54.9710 REMARK 3 T TENSOR REMARK 3 T11: 0.0715 T22: 0.0521 REMARK 3 T33: 0.0772 T12: 0.0007 REMARK 3 T13: -0.0045 T23: 0.0094 REMARK 3 L TENSOR REMARK 3 L11: 1.1251 L22: 0.6579 REMARK 3 L33: 1.0166 L12: 0.1887 REMARK 3 L13: -0.1951 L23: -0.3573 REMARK 3 S TENSOR REMARK 3 S11: 0.0122 S12: 0.0235 S13: 0.0744 REMARK 3 S21: 0.0085 S22: 0.0221 S23: 0.0701 REMARK 3 S31: -0.0145 S32: -0.1151 S33: -0.0343 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 : B 1 B 150 REMARK 3 ORIGIN FOR THE GROUP (A): 60.5880 8.9990 36.5820 REMARK 3 T TENSOR REMARK 3 T11: 0.1049 T22: 0.0906 REMARK 3 T33: 0.1056 T12: -0.0202 REMARK 3 T13: -0.0044 T23: 0.0345 REMARK 3 L TENSOR REMARK 3 L11: 0.8785 L22: 0.7988 REMARK 3 L33: 1.5088 L12: 0.2107 REMARK 3 L13: -0.1147 L23: -0.3453 REMARK 3 S TENSOR REMARK 3 S11: -0.0157 S12: 0.0482 S13: 0.0334 REMARK 3 S21: -0.0831 S22: -0.0501 S23: -0.1481 REMARK 3 S31: -0.1094 S32: 0.2199 S33: 0.0657 REMARK 3 REMARK 3 TLS GROUP : 3 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : C 1 C 150 REMARK 3 ORIGIN FOR THE GROUP (A): 42.8500 5.8520 32.1140 REMARK 3 T TENSOR REMARK 3 T11: 0.1003 T22: 0.0772 REMARK 3 T33: 0.0868 T12: -0.0110 REMARK 3 T13: -0.0170 T23: 0.0177 REMARK 3 L TENSOR REMARK 3 L11: 0.6846 L22: 0.8069 REMARK 3 L33: 1.2917 L12: 0.0877 REMARK 3 L13: 0.0832 L23: -0.4652 REMARK 3 S TENSOR REMARK 3 S11: -0.0347 S12: 0.0877 S13: 0.0446 REMARK 3 S21: -0.1255 S22: 0.0349 S23: 0.0761 REMARK 3 S31: 0.0244 S32: -0.1085 S33: -0.0001 REMARK 3 REMARK 3 TLS GROUP : 4 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : D 1 D 150 REMARK 3 ORIGIN FOR THE GROUP (A): 57.1380 -3.1170 58.4040 REMARK 3 T TENSOR REMARK 3 T11: 0.0588 T22: 0.0469 REMARK 3 T33: 0.0721 T12: -0.0024 REMARK 3 T13: -0.0011 T23: 0.0120 REMARK 3 L TENSOR REMARK 3 L11: 0.8739 L22: 0.9148 REMARK 3 L33: 1.1962 L12: -0.0138 REMARK 3 L13: 0.0584 L23: -0.3526 REMARK 3 S TENSOR REMARK 3 S11: -0.0046 S12: -0.0305 S13: 0.0195 REMARK 3 S21: 0.0651 S22: -0.0312 S23: -0.0616 REMARK 3 S31: 0.0048 S32: 0.0937 S33: 0.0358 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: HYDROGENS HAVE BEEN ADDED IN THE RIDING REMARK 3 POSITIONS. REMARK 4 REMARK 4 2Y32 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 17-DEC-10. REMARK 100 THE DEPOSITION ID IS D_1290042768. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 07-JUN-06 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : NULL REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : MAX II REMARK 200 BEAMLINE : I911-2 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.04192 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MARRESEARCH SX-165 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : XSCALE REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 46670 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.780 REMARK 200 RESOLUTION RANGE LOW (A) : 25.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : -3.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 200 DATA REDUNDANCY : 9.600 REMARK 200 R MERGE (I) : 0.09000 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 18.0000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.78 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.88 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : 9.60 REMARK 200 R MERGE FOR SHELL (I) : 0.42000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 5.900 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: AN ENSEMBLE OF THREE HOMOLOGY MODELS OF BRADAVIDIN REMARK 200 BASED ON PDB ENTRIES 1AVD, 1MK5, AND 2UYW. REMARK 200 REMARK 200 REMARK: HOMOLOGY MODELS WERE CREATED USING MODELLER. REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 41.00 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.10 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.7 MICROLITER OF WELL SOLUTION REMARK 280 CONTAINING 25% PEG 4000, 0.17 M AMMONIUM ACETATE, AND 0.08 M REMARK 280 SODIUM ACETATE, PH 4.6 WERE MIXED WITH 0.8 MICROLITER OF PROTEIN REMARK 280 SOLUTION CONTAINING 0.4 MG PER ML OF PROTEIN, 50 MM SODIUM REMARK 280 ACETATE, PH 4. THE PROTEIN SOLUTION WAS DILUTED WITH SATURATED REMARK 280 SOLUTION OF 4-HYDROXYAZOBENZENE-2-CARBOXYLIC ACID IN 1 TO 10 REMARK 280 VOLUME RATIO BEFORE CRYSTALLIZATION, WHICH WAS AT RT USING THE REMARK 280 VAPOUR DIFFUSION METHOD AND SITTING DROPS., VAPOR DIFFUSION, REMARK 280 SITTING DROP 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 23.35600 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 60.13000 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 42.43400 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 60.13000 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 23.35600 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 42.43400 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: TETRAMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TETRAMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 14040 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 19950 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -97.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B, C, D 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 LYS A 138 REMARK 465 LYS B 138 REMARK 465 LYS D 138 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 O HOH A 2096 O HOH A 2106 1.82 REMARK 500 O HOH B 2070 O HOH B 2081 1.89 REMARK 500 O HOH C 2076 O HOH C 2088 1.89 REMARK 500 O HOH D 2018 O HOH D 2031 1.96 REMARK 500 OD1 ASN D 81 O HOH D 2111 2.00 REMARK 500 O HOH A 2035 O HOH A 2037 2.00 REMARK 500 O HOH D 2070 O HOH D 2075 2.04 REMARK 500 O HOH A 2037 O HOH A 2068 2.08 REMARK 500 O HOH A 2032 O HOH C 2046 2.12 REMARK 500 N GLY C 68 O HOH C 2091 2.16 REMARK 500 O HOH D 2070 O HOH D 2074 2.16 REMARK 500 O HOH A 2016 O HOH A 2017 2.17 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 O HOH A 2150 O HOH D 2150 1455 1.72 REMARK 500 O HOH D 2052 O HOH D 2162 4446 1.97 REMARK 500 O HOH A 2010 O HOH C 2010 2655 2.19 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 ASN A 4 28.53 -140.37 REMARK 500 ASN A 34 76.41 -119.23 REMARK 500 LEU C 118 -3.97 77.24 REMARK 500 ASN D 4 54.34 -145.29 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 A2033 DISTANCE = 7.52 ANGSTROMS REMARK 525 HOH A2081 DISTANCE = 5.87 ANGSTROMS REMARK 525 HOH A2086 DISTANCE = 6.59 ANGSTROMS REMARK 525 HOH D2017 DISTANCE = 6.36 ANGSTROMS REMARK 700 REMARK 700 SHEET REMARK 700 DETERMINATION METHOD: DSSP REMARK 700 THE SHEETS PRESENTED AS "AA" IN EACH CHAIN ON SHEET RECORDS REMARK 700 BELOW IS ACTUALLY AN 8-STRANDED BARREL THIS IS REPRESENTED BY REMARK 700 A 9-STRANDED SHEET IN WHICH THE FIRST AND LAST STRANDS REMARK 700 ARE IDENTICAL. REMARK 700 THE SHEETS PRESENTED AS "BA" IN EACH CHAIN ON SHEET RECORDS REMARK 700 BELOW IS ACTUALLY AN 8-STRANDED BARREL THIS IS REPRESENTED BY REMARK 700 A 9-STRANDED SHEET IN WHICH THE FIRST AND LAST STRANDS REMARK 700 ARE IDENTICAL. REMARK 700 THE SHEETS PRESENTED AS "CA" IN EACH CHAIN ON SHEET RECORDS REMARK 700 BELOW IS ACTUALLY AN 8-STRANDED BARREL THIS IS REPRESENTED BY REMARK 700 A 9-STRANDED SHEET IN WHICH THE FIRST AND LAST STRANDS REMARK 700 ARE IDENTICAL. REMARK 700 THE SHEETS PRESENTED AS "DA" IN EACH CHAIN ON SHEET RECORDS REMARK 700 BELOW IS ACTUALLY AN -5-STRANDED BARREL THIS IS REPRESENTED BY REMARK 700 A -4-STRANDED SHEET IN WHICH THE FIRST AND LAST STRANDS REMARK 700 ARE IDENTICAL. REMARK 999 REMARK 999 SEQUENCE REMARK 999 RESIDUES 1-25 CORRESPOND TO A SIGNAL PEPTIDE THAT IS REMARK 999 ASSUMED TO BE ABSENT FROM THE CRYSTALLIZED PROTEIN. DBREF 2Y32 A 1 138 UNP Q89IH6 Q89IH6_BRAJA 26 163 DBREF 2Y32 B 1 138 UNP Q89IH6 Q89IH6_BRAJA 26 163 DBREF 2Y32 C 1 138 UNP Q89IH6 Q89IH6_BRAJA 26 163 DBREF 2Y32 D 1 138 UNP Q89IH6 Q89IH6_BRAJA 26 163 SEQRES 1 A 138 GLN SER VAL ASN TRP THR TRP THR ASN GLN TYR GLY SER SEQRES 2 A 138 THR LEU ALA ILE THR SER PHE ASN SER ASN THR GLY ALA SEQRES 3 A 138 ILE THR GLY THR TYR THR ASN ASN ALA ALA ASN SER CYS SEQRES 4 A 138 ASP GLU GLY LYS PRO GLN GLY VAL THR GLY TRP LEU ALA SEQRES 5 A 138 TYR GLY ASN THR GLY THR ALA ILE SER PHE SER VAL ASN SEQRES 6 A 138 PHE LEU GLY CYS GLY SER THR THR VAL TRP THR GLY GLN SEQRES 7 A 138 LEU ASN ASN ALA THR GLY PHE GLN GLY LEU TRP TYR LEU SEQRES 8 A 138 SER LEU ALA GLU ALA VAL ALA TRP ASN GLY ILE SER ALA SEQRES 9 A 138 GLY ALA ASP THR PHE THR PHE SER SER GLY ASP LYS ALA SEQRES 10 A 138 LEU LEU THR LYS SER GLY VAL ASP LEU LYS ALA GLY SER SEQRES 11 A 138 GLU LYS LEU SER ASN THR LYS LYS SEQRES 1 B 138 GLN SER VAL ASN TRP THR TRP THR ASN GLN TYR GLY SER SEQRES 2 B 138 THR LEU ALA ILE THR SER PHE ASN SER ASN THR GLY ALA SEQRES 3 B 138 ILE THR GLY THR TYR THR ASN ASN ALA ALA ASN SER CYS SEQRES 4 B 138 ASP GLU GLY LYS PRO GLN GLY VAL THR GLY TRP LEU ALA SEQRES 5 B 138 TYR GLY ASN THR GLY THR ALA ILE SER PHE SER VAL ASN SEQRES 6 B 138 PHE LEU GLY CYS GLY SER THR THR VAL TRP THR GLY GLN SEQRES 7 B 138 LEU ASN ASN ALA THR GLY PHE GLN GLY LEU TRP TYR LEU SEQRES 8 B 138 SER LEU ALA GLU ALA VAL ALA TRP ASN GLY ILE SER ALA SEQRES 9 B 138 GLY ALA ASP THR PHE THR PHE SER SER GLY ASP LYS ALA SEQRES 10 B 138 LEU LEU THR LYS SER GLY VAL ASP LEU LYS ALA GLY SER SEQRES 11 B 138 GLU LYS LEU SER ASN THR LYS LYS SEQRES 1 C 138 GLN SER VAL ASN TRP THR TRP THR ASN GLN TYR GLY SER SEQRES 2 C 138 THR LEU ALA ILE THR SER PHE ASN SER ASN THR GLY ALA SEQRES 3 C 138 ILE THR GLY THR TYR THR ASN ASN ALA ALA ASN SER CYS SEQRES 4 C 138 ASP GLU GLY LYS PRO GLN GLY VAL THR GLY TRP LEU ALA SEQRES 5 C 138 TYR GLY ASN THR GLY THR ALA ILE SER PHE SER VAL ASN SEQRES 6 C 138 PHE LEU GLY CYS GLY SER THR THR VAL TRP THR GLY GLN SEQRES 7 C 138 LEU ASN ASN ALA THR GLY PHE GLN GLY LEU TRP TYR LEU SEQRES 8 C 138 SER LEU ALA GLU ALA VAL ALA TRP ASN GLY ILE SER ALA SEQRES 9 C 138 GLY ALA ASP THR PHE THR PHE SER SER GLY ASP LYS ALA SEQRES 10 C 138 LEU LEU THR LYS SER GLY VAL ASP LEU LYS ALA GLY SER SEQRES 11 C 138 GLU LYS LEU SER ASN THR LYS LYS SEQRES 1 D 138 GLN SER VAL ASN TRP THR TRP THR ASN GLN TYR GLY SER SEQRES 2 D 138 THR LEU ALA ILE THR SER PHE ASN SER ASN THR GLY ALA SEQRES 3 D 138 ILE THR GLY THR TYR THR ASN ASN ALA ALA ASN SER CYS SEQRES 4 D 138 ASP GLU GLY LYS PRO GLN GLY VAL THR GLY TRP LEU ALA SEQRES 5 D 138 TYR GLY ASN THR GLY THR ALA ILE SER PHE SER VAL ASN SEQRES 6 D 138 PHE LEU GLY CYS GLY SER THR THR VAL TRP THR GLY GLN SEQRES 7 D 138 LEU ASN ASN ALA THR GLY PHE GLN GLY LEU TRP TYR LEU SEQRES 8 D 138 SER LEU ALA GLU ALA VAL ALA TRP ASN GLY ILE SER ALA SEQRES 9 D 138 GLY ALA ASP THR PHE THR PHE SER SER GLY ASP LYS ALA SEQRES 10 D 138 LEU LEU THR LYS SER GLY VAL ASP LEU LYS ALA GLY SER SEQRES 11 D 138 GLU LYS LEU SER ASN THR LYS LYS FORMUL 5 HOH *680(H2 O) HELIX 1 1 LYS A 116 THR A 120 5 5 HELIX 2 2 LYS B 116 THR B 120 5 5 HELIX 3 3 LYS D 116 THR D 120 5 5 SHEET 1 AA 9 SER A 2 THR A 8 0 SHEET 2 AA 9 THR A 14 PHE A 20 -1 O LEU A 15 N TRP A 7 SHEET 3 AA 9 ALA A 26 THR A 32 -1 O THR A 28 N THR A 18 SHEET 4 AA 9 GLN A 45 TYR A 53 -1 O GLN A 45 N TYR A 31 SHEET 5 AA 9 THR A 58 PHE A 66 -1 O ALA A 59 N ALA A 52 SHEET 6 AA 9 SER A 71 GLN A 78 -1 O SER A 71 N PHE A 66 SHEET 7 AA 9 PHE A 85 LEU A 93 -1 N GLN A 86 O GLN A 78 SHEET 8 AA 9 ILE A 102 SER A 113 -1 O SER A 103 N LEU A 91 SHEET 9 AA 9 SER A 2 THR A 8 -1 O THR A 6 N SER A 112 SHEET 1 BA 9 SER B 2 THR B 8 0 SHEET 2 BA 9 THR B 14 PHE B 20 -1 O LEU B 15 N TRP B 7 SHEET 3 BA 9 ALA B 26 THR B 32 -1 O THR B 28 N THR B 18 SHEET 4 BA 9 GLN B 45 TYR B 53 -1 O GLN B 45 N TYR B 31 SHEET 5 BA 9 THR B 58 PHE B 66 -1 O ALA B 59 N ALA B 52 SHEET 6 BA 9 SER B 71 GLN B 78 -1 O SER B 71 N PHE B 66 SHEET 7 BA 9 PHE B 85 LEU B 93 -1 N GLN B 86 O GLN B 78 SHEET 8 BA 9 ILE B 102 SER B 113 -1 O SER B 103 N LEU B 91 SHEET 9 BA 9 SER B 2 THR B 8 -1 O THR B 6 N SER B 112 SHEET 1 CA 9 THR C 6 THR C 8 0 SHEET 2 CA 9 ILE C 102 SER C 113 -1 O THR C 110 N THR C 8 SHEET 3 CA 9 PHE C 85 LEU C 93 -1 O PHE C 85 N PHE C 109 SHEET 4 CA 9 SER C 71 GLN C 78 -1 O THR C 72 N SER C 92 SHEET 5 CA 9 THR C 58 PHE C 66 -1 O ILE C 60 N GLY C 77 SHEET 6 CA 9 GLN C 45 TYR C 53 -1 O GLY C 46 N ASN C 65 SHEET 7 CA 9 ALA C 26 THR C 32 -1 O ILE C 27 N GLY C 49 SHEET 8 CA 9 THR C 14 PHE C 20 -1 O THR C 14 N THR C 32 SHEET 9 CA 9 THR C 6 THR C 8 -1 O TRP C 7 N LEU C 15 SHEET 1 DA 9 SER D 2 THR D 8 0 SHEET 2 DA 9 THR D 14 PHE D 20 -1 O LEU D 15 N TRP D 7 SHEET 3 DA 9 ALA D 26 THR D 32 -1 O THR D 28 N THR D 18 SHEET 4 DA 9 PRO D 44 TYR D 53 -1 O GLN D 45 N TYR D 31 SHEET 5 DA 9 THR D 58 PHE D 66 0 SHEET 6 DA 9 SER D 71 GLN D 78 0 SHEET 7 DA 9 PHE D 85 LEU D 93 0 SHEET 8 DA 9 ILE D 102 SER D 113 0 SHEET 9 DA 9 SER D 2 THR D 8 -1 O THR D 6 N SER D 112 SSBOND 1 CYS A 39 CYS A 69 1555 1555 2.09 SSBOND 2 CYS B 39 CYS B 69 1555 1555 2.07 SSBOND 3 CYS C 39 CYS C 69 1555 1555 2.08 SSBOND 4 CYS D 39 CYS D 69 1555 1555 2.10 CRYST1 46.712 84.868 120.260 90.00 90.00 90.00 P 21 21 21 16 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 0.021408 0.000000 0.000000 0.00000 SCALE2 0.000000 0.011783 0.000000 0.00000 SCALE3 0.000000 0.000000 0.008315 0.00000 MTRIX1 1 -0.965590 -0.239500 -0.101400 103.42558 1 MTRIX2 1 -0.238290 0.658510 0.713850 -19.51832 1 MTRIX3 1 -0.104190 0.713450 -0.692920 80.25967 1 MTRIX1 2 0.918940 0.105730 0.379950 -13.49884 1 MTRIX2 2 0.102320 -0.994320 0.029220 -1.16503 1 MTRIX3 2 0.380880 0.012020 -0.924540 68.37930 1 MTRIX1 3 -0.944680 0.124730 -0.303350 110.60921 1 MTRIX2 3 0.147740 -0.663890 -0.733090 30.35186 1 MTRIX3 3 -0.292830 -0.737360 0.608730 34.37062 1 MTRIX1 4 -0.951470 0.133510 -0.277260 109.76263 1 MTRIX2 4 0.119010 -0.671220 -0.731640 31.62576 1 MTRIX3 4 -0.283780 -0.729140 0.622760 33.18629 1 MTRIX1 5 0.907240 0.114220 0.404800 -14.06161 1 MTRIX2 5 0.114550 -0.993140 0.023500 -1.57557 1 MTRIX3 5 0.404700 0.025040 -0.914100 66.61932 1 MTRIX1 6 -0.964540 -0.234210 -0.121680 104.30981 1 MTRIX2 6 -0.250140 0.664080 0.704580 -18.65276 1 MTRIX3 6 -0.084210 0.710030 -0.699120 79.51627 1 MASTER 431 0 0 3 36 0 0 24 0 0 0 44 END