PDB Short entry for 1GUD HEADER PERIPLASMIC BINDING PROTEIN 24-JAN-02 1GUD TITLE HINGE-BENDING MOTION OF D-ALLOSE BINDING PROTEIN FROM ESCHERICHIA TITLE 2 COLI: THREE OPEN CONFORMATIONS COMPND MOL_ID: 1; COMPND 2 MOLECULE: D-ALLOSE-BINDING PERIPLASMIC PROTEIN; COMPND 3 CHAIN: A, B; COMPND 4 SYNONYM: ALBP SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: ESCHERICHIA COLI; SOURCE 3 ORGANISM_TAXID: 83333; SOURCE 4 STRAIN: K12 KEYWDS PERIPLASMIC BINDING PROTEIN, ALLOSE, HINGE BENDING, CONFORMATIONAL KEYWDS 2 CHANGE EXPDTA X-RAY DIFFRACTION AUTHOR U.MAGNUSSON,B.N.CHAUDHURI,J.KO,C.PARK,T.A.JONES,S.L.MOWBRAY REVDAT 3 13-DEC-23 1GUD 1 LINK REVDAT 2 24-FEB-09 1GUD 1 VERSN REVDAT 1 06-MAR-03 1GUD 0 JRNL AUTH B.N.CHAUDHURI,J.KO,C.PARK,T.A.JONES,S.L.MOWBRAY JRNL TITL STRUCTURE OF D-ALLOSE BINDING PROTEIN FROM ESCHERICHIA COLI JRNL TITL 2 BOUND TO D-ALLOSE AT 1.8 A RESOLUTION JRNL REF J.MOL.BIOL. V. 286 1519 1999 JRNL REFN ISSN 0022-2836 JRNL PMID 10064713 JRNL DOI 10.1006/JMBI.1999.2571 REMARK 1 REMARK 1 REFERENCE 1 REMARK 1 AUTH C.KIM,S.SONG,C.PARK REMARK 1 TITL THE D-ALLOSE OPERON OF ESCHERICHIA COLI K-12 REMARK 1 REF J.BACTERIOL. V. 179 7631 1997 REMARK 1 REFN ISSN 0021-9193 REMARK 1 PMID 9401019 REMARK 2 REMARK 2 RESOLUTION. 1.71 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.1.19 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) : 1.71 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 70.71 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 3 NUMBER OF REFLECTIONS : 58061 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) : 0.173 REMARK 3 R VALUE (WORKING SET) : 0.172 REMARK 3 FREE R VALUE : 0.212 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 3.900 REMARK 3 FREE R VALUE TEST SET COUNT : 2341 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) : 1.71 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.75 REMARK 3 REFLECTION IN BIN (WORKING SET) : 4181 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : NULL REMARK 3 BIN R VALUE (WORKING SET) : 0.1880 REMARK 3 BIN FREE R VALUE SET COUNT : 161 REMARK 3 BIN FREE R VALUE : 0.2180 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 4265 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 8 REMARK 3 SOLVENT ATOMS : 497 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 12.20 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.05000 REMARK 3 B22 (A**2) : 0.09000 REMARK 3 B33 (A**2) : -0.04000 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): 0.104 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.105 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.063 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 1.875 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.951 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.926 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 4331 ; 0.018 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): 4032 ; 0.002 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 5842 ; 1.505 ; 1.966 REMARK 3 BOND ANGLES OTHERS (DEGREES): 9430 ; 0.812 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 574 ; 5.308 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): NULL ; NULL ; NULL REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 684 ; 0.096 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 4844 ; 0.006 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 754 ; 0.001 ; 0.020 REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 891 ; 0.215 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): 4449 ; 0.242 ; 0.200 REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION OTHERS (A): 2453 ; 0.085 ; 0.200 REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 303 ; 0.165 ; 0.200 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): 34 ; 0.290 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): 89 ; 0.285 ; 0.200 REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 49 ; 0.200 ; 0.200 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): 2852 ; 0.937 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 4548 ; 1.656 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1479 ; 2.948 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1294 ; 4.718 ; 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 : NULL REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : BABINET MODEL WITH MASK REMARK 3 PARAMETERS FOR MASK CALCULATION REMARK 3 VDW PROBE RADIUS : 1.40 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 1GUD COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 24-JAN-02. REMARK 100 THE DEPOSITION ID IS D_1290009285. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 15-DEC-00 REMARK 200 TEMPERATURE (KELVIN) : 100.0 REMARK 200 PH : 8.00 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : ESRF REMARK 200 BEAMLINE : ID14-4 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.94 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : NULL REMARK 200 DETECTOR MANUFACTURER : NULL REMARK 200 INTENSITY-INTEGRATION SOFTWARE : NULL REMARK 200 DATA SCALING SOFTWARE : NULL REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 8404 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.710 REMARK 200 RESOLUTION RANGE LOW (A) : 35.580 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 200 DATA REDUNDANCY : 7.200 REMARK 200 R MERGE (I) : 0.00930 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 13.9000 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 (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : 0.03600 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> FOR SHELL : 6.300 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: AMORE REMARK 200 STARTING MODEL: PDB ENTRY 1RPJ REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 45.20 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.25 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: PH 8.00 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 30.11450 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 71.05650 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 32.04800 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 71.05650 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 30.11450 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 32.04800 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1, 2 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 350 REMARK 350 BIOMOLECULE: 2 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: B 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: 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 CYS A 199 CB CYS A 199 SG -0.105 REMARK 500 ALA B 1 CA ALA B 1 CB -0.127 REMARK 500 GLU B 135 CD GLU B 135 OE2 0.099 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 ASP A 227 CB - CG - OD2 ANGL. DEV. = 5.4 DEGREES 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 LYS A 58 -131.05 -114.72 REMARK 500 ASP A 91 -86.93 69.77 REMARK 500 ASP A 227 -35.27 134.21 REMARK 500 ASP B 91 -64.31 70.03 REMARK 500 ASP B 95 95.40 -67.83 REMARK 500 ASP B 227 -37.28 132.34 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 ZN A1291 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU A 3 OE1 REMARK 620 2 ASP A 35 OD1 89.9 REMARK 620 3 ASP A 35 OD2 82.5 52.2 REMARK 620 4 ASP B 18 OD1 168.5 90.1 106.5 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN B1292 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU A 53 OE1 REMARK 620 2 GLU B 53 OE2 75.9 REMARK 620 3 HOH B2238 O 80.7 85.2 REMARK 620 4 HOH B2239 O 106.6 109.1 165.0 REMARK 620 5 HOH B2240 O 60.2 60.0 131.7 62.1 REMARK 620 N 1 2 3 4 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN B1289 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 LYS A 120 NZ REMARK 620 2 ASP A 282 OD1 94.0 REMARK 620 3 GLU B 264 OE2 173.3 90.3 REMARK 620 4 HOH B2228 O 96.8 80.2 88.9 REMARK 620 5 HOH B2229 O 88.0 113.5 85.7 165.3 REMARK 620 6 HOH B2230 O 98.4 158.5 79.1 81.0 84.5 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN B1291 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU A 132 OE1 REMARK 620 2 GLU A 132 OE2 52.7 REMARK 620 3 GLU B 132 OE1 113.0 158.8 REMARK 620 4 GLU B 132 OE2 61.1 113.2 58.2 REMARK 620 5 HOH B2235 O 166.3 113.9 79.0 132.5 REMARK 620 6 HOH B2236 O 92.6 93.1 70.5 97.7 85.0 REMARK 620 7 HOH B2237 O 88.5 84.4 112.6 86.3 93.0 175.9 REMARK 620 N 1 2 3 4 5 6 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN A1290 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU A 157 OE1 REMARK 620 2 GLU A 157 OE2 54.3 REMARK 620 3 HOH A2255 O 103.4 103.5 REMARK 620 4 GLU B 135 OE1 133.3 89.4 114.2 REMARK 620 5 GLU B 135 OE2 81.7 70.6 168.2 56.6 REMARK 620 N 1 2 3 4 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN A1289 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 182 OD2 REMARK 620 2 ASP A 182 OD1 53.8 REMARK 620 3 HOH A2252 O 88.3 91.1 REMARK 620 4 HOH A2253 O 85.2 86.1 173.4 REMARK 620 5 HOH A2254 O 139.2 85.6 89.9 95.8 REMARK 620 6 GLU B 277 OE1 82.5 136.1 90.7 87.2 138.3 REMARK 620 7 GLU B 277 OE2 137.7 168.3 91.6 92.4 83.1 55.2 REMARK 620 N 1 2 3 4 5 6 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN A1292 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU A 264 OE1 REMARK 620 2 GLU A 264 OE2 54.3 REMARK 620 3 GLN A 288 O 124.0 110.7 REMARK 620 4 GLN A 288 OXT 147.4 94.7 52.4 REMARK 620 5 HOH A2256 O 100.4 81.5 133.0 82.3 REMARK 620 6 HOH A2257 O 102.9 154.8 90.6 109.3 94.0 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN B1290 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ALA B 1 O REMARK 620 2 HOH B2231 O 155.0 REMARK 620 3 HOH B2232 O 89.6 111.0 REMARK 620 4 HOH B2233 O 106.3 87.7 91.5 REMARK 620 5 HOH B2234 O 78.1 80.2 116.1 152.2 REMARK 620 N 1 2 3 4 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN A1289 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN A1290 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN A1291 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN A1292 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN B1289 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN B1290 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN B1291 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN B1292 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1GUB RELATED DB: PDB REMARK 900 HINGE-BENDING MOTION OF D-ALLOSE BINDING PROTEIN FROM ESCHERICHIA REMARK 900 COLI: THREE OPEN CONFORMATIONS REMARK 900 RELATED ID: 1RPJ RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF D-ALLOSE BINDING PROTEIN FROMESCHERICHIA COLI DBREF 1GUD A 1 288 UNP P39265 ALSB_ECOLI 24 311 DBREF 1GUD B 1 288 UNP P39265 ALSB_ECOLI 24 311 SEQRES 1 A 288 ALA ALA GLU TYR ALA VAL VAL LEU LYS THR LEU SER ASN SEQRES 2 A 288 PRO PHE TRP VAL ASP MET LYS LYS GLY ILE GLU ASP GLU SEQRES 3 A 288 ALA LYS THR LEU GLY VAL SER VAL ASP ILE PHE ALA SER SEQRES 4 A 288 PRO SER GLU GLY ASP PHE GLN SER GLN LEU GLN LEU PHE SEQRES 5 A 288 GLU ASP LEU SER ASN LYS ASN TYR LYS GLY ILE ALA PHE SEQRES 6 A 288 ALA PRO LEU SER SER VAL ASN LEU VAL MET PRO VAL ALA SEQRES 7 A 288 ARG ALA TRP LYS LYS GLY ILE TYR LEU VAL ASN LEU ASP SEQRES 8 A 288 GLU LYS ILE ASP MET ASP ASN LEU LYS LYS ALA GLY GLY SEQRES 9 A 288 ASN VAL GLU ALA PHE VAL THR THR ASP ASN VAL ALA VAL SEQRES 10 A 288 GLY ALA LYS GLY ALA SER PHE ILE ILE ASP LYS LEU GLY SEQRES 11 A 288 ALA GLU GLY GLY GLU VAL ALA ILE ILE GLU GLY LYS ALA SEQRES 12 A 288 GLY ASN ALA SER GLY GLU ALA ARG ARG ASN GLY ALA THR SEQRES 13 A 288 GLU ALA PHE LYS LYS ALA SER GLN ILE LYS LEU VAL ALA SEQRES 14 A 288 SER GLN PRO ALA ASP TRP ASP ARG ILE LYS ALA LEU ASP SEQRES 15 A 288 VAL ALA THR ASN VAL LEU GLN ARG ASN PRO ASN ILE LYS SEQRES 16 A 288 ALA ILE TYR CYS ALA ASN ASP THR MET ALA MET GLY VAL SEQRES 17 A 288 ALA GLN ALA VAL ALA ASN ALA GLY LYS THR GLY LYS VAL SEQRES 18 A 288 LEU VAL VAL GLY THR ASP GLY ILE PRO GLU ALA ARG LYS SEQRES 19 A 288 MET VAL GLU ALA GLY GLN MET THR ALA THR VAL ALA GLN SEQRES 20 A 288 ASN PRO ALA ASP ILE GLY ALA THR GLY LEU LYS LEU MET SEQRES 21 A 288 VAL ASP ALA GLU LYS SER GLY LYS VAL ILE PRO LEU ASP SEQRES 22 A 288 LYS ALA PRO GLU PHE LYS LEU VAL ASP SER ILE LEU VAL SEQRES 23 A 288 THR GLN SEQRES 1 B 288 ALA ALA GLU TYR ALA VAL VAL LEU LYS THR LEU SER ASN SEQRES 2 B 288 PRO PHE TRP VAL ASP MET LYS LYS GLY ILE GLU ASP GLU SEQRES 3 B 288 ALA LYS THR LEU GLY VAL SER VAL ASP ILE PHE ALA SER SEQRES 4 B 288 PRO SER GLU GLY ASP PHE GLN SER GLN LEU GLN LEU PHE SEQRES 5 B 288 GLU ASP LEU SER ASN LYS ASN TYR LYS GLY ILE ALA PHE SEQRES 6 B 288 ALA PRO LEU SER SER VAL ASN LEU VAL MET PRO VAL ALA SEQRES 7 B 288 ARG ALA TRP LYS LYS GLY ILE TYR LEU VAL ASN LEU ASP SEQRES 8 B 288 GLU LYS ILE ASP MET ASP ASN LEU LYS LYS ALA GLY GLY SEQRES 9 B 288 ASN VAL GLU ALA PHE VAL THR THR ASP ASN VAL ALA VAL SEQRES 10 B 288 GLY ALA LYS GLY ALA SER PHE ILE ILE ASP LYS LEU GLY SEQRES 11 B 288 ALA GLU GLY GLY GLU VAL ALA ILE ILE GLU GLY LYS ALA SEQRES 12 B 288 GLY ASN ALA SER GLY GLU ALA ARG ARG ASN GLY ALA THR SEQRES 13 B 288 GLU ALA PHE LYS LYS ALA SER GLN ILE LYS LEU VAL ALA SEQRES 14 B 288 SER GLN PRO ALA ASP TRP ASP ARG ILE LYS ALA LEU ASP SEQRES 15 B 288 VAL ALA THR ASN VAL LEU GLN ARG ASN PRO ASN ILE LYS SEQRES 16 B 288 ALA ILE TYR CYS ALA ASN ASP THR MET ALA MET GLY VAL SEQRES 17 B 288 ALA GLN ALA VAL ALA ASN ALA GLY LYS THR GLY LYS VAL SEQRES 18 B 288 LEU VAL VAL GLY THR ASP GLY ILE PRO GLU ALA ARG LYS SEQRES 19 B 288 MET VAL GLU ALA GLY GLN MET THR ALA THR VAL ALA GLN SEQRES 20 B 288 ASN PRO ALA ASP ILE GLY ALA THR GLY LEU LYS LEU MET SEQRES 21 B 288 VAL ASP ALA GLU LYS SER GLY LYS VAL ILE PRO LEU ASP SEQRES 22 B 288 LYS ALA PRO GLU PHE LYS LEU VAL ASP SER ILE LEU VAL SEQRES 23 B 288 THR GLN HET ZN A1289 1 HET ZN A1290 1 HET ZN A1291 1 HET ZN A1292 1 HET ZN B1289 1 HET ZN B1290 1 HET ZN B1291 1 HET ZN B1292 1 HETNAM ZN ZINC ION FORMUL 3 ZN 8(ZN 2+) FORMUL 11 HOH *497(H2 O) HELIX 1 1 ASN A 13 GLY A 31 1 19 HELIX 2 2 ASP A 44 ASN A 57 1 14 HELIX 3 3 LEU A 73 LYS A 83 1 11 HELIX 4 4 ASP A 95 ALA A 102 1 8 HELIX 5 5 ASP A 113 GLY A 130 1 18 HELIX 6 6 ALA A 131 GLY A 133 5 3 HELIX 7 7 ASN A 145 LYS A 161 1 17 HELIX 8 8 ASP A 176 ASN A 191 1 16 HELIX 9 9 ASN A 201 ALA A 215 1 15 HELIX 10 10 ILE A 229 ALA A 238 1 10 HELIX 11 11 ASN A 248 SER A 266 1 19 HELIX 12 12 ASN B 13 GLY B 31 1 19 HELIX 13 13 ASP B 44 ASN B 57 1 14 HELIX 14 14 LEU B 73 LYS B 83 1 11 HELIX 15 15 ASP B 95 ALA B 102 1 8 HELIX 16 16 ASP B 113 GLY B 130 1 18 HELIX 17 17 ASN B 145 LYS B 161 1 17 HELIX 18 18 ASP B 176 ASN B 191 1 16 HELIX 19 19 ASN B 201 ALA B 215 1 15 HELIX 20 20 ILE B 229 ALA B 238 1 10 HELIX 21 21 ASN B 248 SER B 266 1 19 SHEET 1 AA 6 VAL A 34 ALA A 38 0 SHEET 2 AA 6 GLU A 3 LEU A 8 1 O TYR A 4 N ASP A 35 SHEET 3 AA 6 TYR A 60 PHE A 65 1 N LYS A 61 O GLU A 3 SHEET 4 AA 6 TYR A 86 LEU A 90 1 O TYR A 86 N ILE A 63 SHEET 5 AA 6 ALA A 108 THR A 111 1 O ALA A 108 N ASN A 89 SHEET 6 AA 6 GLU A 277 LEU A 280 1 O GLU A 277 N PHE A 109 SHEET 1 AB 6 ILE A 165 PRO A 172 0 SHEET 2 AB 6 GLY A 134 GLU A 140 1 O GLY A 134 N LYS A 166 SHEET 3 AB 6 ALA A 196 CYS A 199 1 O ALA A 196 N ALA A 137 SHEET 4 AB 6 LEU A 222 THR A 226 1 O LEU A 222 N ILE A 197 SHEET 5 AB 6 ALA A 243 ALA A 246 1 O ALA A 243 N GLY A 225 SHEET 6 AB 6 ILE A 284 VAL A 286 -1 O ILE A 284 N ALA A 246 SHEET 1 BA 6 SER B 33 PHE B 37 0 SHEET 2 BA 6 GLU B 3 VAL B 7 1 O TYR B 4 N ASP B 35 SHEET 3 BA 6 GLY B 62 PHE B 65 1 O GLY B 62 N ALA B 5 SHEET 4 BA 6 TYR B 86 LEU B 90 1 O TYR B 86 N ILE B 63 SHEET 5 BA 6 ALA B 108 THR B 111 1 O ALA B 108 N ASN B 89 SHEET 6 BA 6 GLU B 277 LEU B 280 1 O GLU B 277 N PHE B 109 SHEET 1 BB 6 ILE B 165 PRO B 172 0 SHEET 2 BB 6 GLY B 134 GLU B 140 1 O GLY B 134 N LYS B 166 SHEET 3 BB 6 ILE B 194 CYS B 199 1 N LYS B 195 O GLU B 135 SHEET 4 BB 6 LEU B 222 ASP B 227 1 O LEU B 222 N ILE B 197 SHEET 5 BB 6 ALA B 243 ALA B 246 1 O ALA B 243 N GLY B 225 SHEET 6 BB 6 ILE B 284 VAL B 286 -1 O ILE B 284 N ALA B 246 LINK OE1 GLU A 3 ZN ZN A1291 1555 1555 2.06 LINK OD1 ASP A 35 ZN ZN A1291 1555 1555 2.68 LINK OD2 ASP A 35 ZN ZN A1291 1555 1555 2.15 LINK OE1 GLU A 53 ZN ZN B1292 3655 1555 2.57 LINK NZ LYS A 120 ZN ZN B1289 3555 1555 2.38 LINK OE1 GLU A 132 ZN ZN B1291 3545 1555 2.48 LINK OE2 GLU A 132 ZN ZN B1291 3545 1555 2.38 LINK OE1 GLU A 157 ZN ZN A1290 1555 1555 2.47 LINK OE2 GLU A 157 ZN ZN A1290 1555 1555 2.40 LINK OD2 ASP A 182 ZN ZN A1289 1555 1555 2.54 LINK OD1 ASP A 182 ZN ZN A1289 1555 1555 2.22 LINK OE1 GLU A 264 ZN ZN A1292 3555 1555 2.34 LINK OE2 GLU A 264 ZN ZN A1292 3555 1555 2.42 LINK OD1 ASP A 282 ZN ZN B1289 3555 1555 2.38 LINK O GLN A 288 ZN ZN A1292 1555 1555 2.05 LINK OXT GLN A 288 ZN ZN A1292 1555 1555 2.14 LINK ZN ZN A1289 O HOH A2252 1555 1555 2.51 LINK ZN ZN A1289 O HOH A2253 1555 1555 2.38 LINK ZN ZN A1289 O HOH A2254 1555 1555 2.49 LINK ZN ZN A1289 OE1 GLU B 277 1555 2564 2.46 LINK ZN ZN A1289 OE2 GLU B 277 1555 2564 2.30 LINK ZN ZN A1290 O HOH A2255 1555 1555 2.33 LINK ZN ZN A1290 OE1 GLU B 135 1555 2554 2.31 LINK ZN ZN A1290 OE2 GLU B 135 1555 2554 2.45 LINK ZN ZN A1291 OD1 ASP B 18 1555 1555 2.16 LINK ZN ZN A1292 O HOH A2256 1555 1555 2.43 LINK ZN ZN A1292 O HOH A2257 1555 1555 2.53 LINK O ALA B 1 ZN ZN B1290 1555 1555 2.19 LINK OE2 GLU B 53 ZN ZN B1292 1555 1555 2.70 LINK OE1 GLU B 132 ZN ZN B1291 1555 1555 2.47 LINK OE2 GLU B 132 ZN ZN B1291 1555 1555 1.72 LINK OE2 GLU B 264 ZN ZN B1289 1555 1555 2.24 LINK ZN ZN B1289 O HOH B2228 1555 1555 2.49 LINK ZN ZN B1289 O HOH B2229 1555 1555 2.33 LINK ZN ZN B1289 O HOH B2230 1555 1555 2.41 LINK ZN ZN B1290 O HOH B2231 1555 1555 2.20 LINK ZN ZN B1290 O HOH B2232 1555 1555 2.40 LINK ZN ZN B1290 O HOH B2233 1555 1555 2.40 LINK ZN ZN B1290 O HOH B2234 1555 1555 2.23 LINK ZN ZN B1291 O HOH B2235 1555 1555 2.44 LINK ZN ZN B1291 O HOH B2236 1555 1555 2.23 LINK ZN ZN B1291 O HOH B2237 1555 1555 2.29 LINK ZN ZN B1292 O HOH B2238 1555 1555 2.35 LINK ZN ZN B1292 O HOH B2239 1555 1555 2.31 LINK ZN ZN B1292 O HOH B2240 1555 1555 2.30 SITE 1 AC1 5 ASP A 182 HOH A2252 HOH A2253 HOH A2254 SITE 2 AC1 5 GLU B 277 SITE 1 AC2 3 GLU A 157 HOH A2255 GLU B 135 SITE 1 AC3 3 GLU A 3 ASP A 35 ASP B 18 SITE 1 AC4 5 GLU A 237 GLU A 264 GLN A 288 HOH A2256 SITE 2 AC4 5 HOH A2257 SITE 1 AC5 6 LYS A 120 ASP A 282 GLU B 264 HOH B2228 SITE 2 AC5 6 HOH B2229 HOH B2230 SITE 1 AC6 5 ALA B 1 HOH B2231 HOH B2232 HOH B2233 SITE 2 AC6 5 HOH B2234 SITE 1 AC7 5 GLU A 132 GLU B 132 HOH B2235 HOH B2236 SITE 2 AC7 5 HOH B2237 SITE 1 AC8 6 GLU A 53 GLN B 50 GLU B 53 HOH B2238 SITE 2 AC8 6 HOH B2239 HOH B2240 CRYST1 60.229 64.096 142.113 90.00 90.00 90.00 P 21 21 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 0.016611 0.000000 0.000000 0.00000 SCALE2 0.000000 0.015601 0.000000 0.00000 SCALE3 0.000000 0.000000 0.007037 0.00000