HEADER SUGAR BINDING PROTEIN 24-JAN-02 1GUB TITLE HINGE-BENDING MOTION OF D-ALLOSE BINDING PROTEIN FROM ESCHERICHIA TITLE 2 COLI: THREE OPEN CONFORMATIONS CAVEAT 1GUB THERE ARE CHIRALITY ERRORS IN C-ALPHA CENTERS COMPND MOL_ID: 1; COMPND 2 MOLECULE: D-ALLOSE-BINDING PERIPLASMIC PROTEIN; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: ALBP SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: ESCHERICHIA COLI; SOURCE 3 ORGANISM_TAXID: 83333; SOURCE 4 STRAIN: K12 KEYWDS SUGAR-BINDING PROTEIN, PERIPLASMIC BINDING PROTEIN, ALLOSE, HINGE KEYWDS 2 BENDING, CONFORMATIONAL CHANGE, SUGAR BINDING PROTEIN EXPDTA X-RAY DIFFRACTION AUTHOR U.MAGNUSSON,B.N.CHAUDHURI,J.KO,C.PARK,T.A.JONES,S.L.MOWBRAY REVDAT 5 13-DEC-23 1GUB 1 LINK REVDAT 4 24-JUL-19 1GUB 1 REMARK REVDAT 3 24-FEB-09 1GUB 1 VERSN REVDAT 2 04-JUL-03 1GUB 1 COMPND REVDAT 1 06-MAR-03 1GUB 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. 3.10 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) : 3.10 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 29.75 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 99.5 REMARK 3 NUMBER OF REFLECTIONS : 7191 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) : 0.284 REMARK 3 R VALUE (WORKING SET) : 0.280 REMARK 3 FREE R VALUE : 0.339 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 7.100 REMARK 3 FREE R VALUE TEST SET COUNT : 550 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) : 3.10 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 3.18 REMARK 3 REFLECTION IN BIN (WORKING SET) : 515 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : NULL REMARK 3 BIN R VALUE (WORKING SET) : 0.2860 REMARK 3 BIN FREE R VALUE SET COUNT : 30 REMARK 3 BIN FREE R VALUE : 0.3060 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2133 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 1 REMARK 3 SOLVENT ATOMS : 10 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 34.37 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 OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): NULL REMARK 3 ESU BASED ON FREE R VALUE (A): 0.589 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.503 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 27.453 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.841 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.781 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 2161 ; 0.074 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): 2016 ; 0.042 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 2921 ; 3.290 ; 1.966 REMARK 3 BOND ANGLES OTHERS (DEGREES): 4715 ; 2.414 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 287 ; 7.037 ; 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): 342 ; 0.358 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 2422 ; 0.015 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 377 ; 0.003 ; 0.020 REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 482 ; 0.231 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): 2351 ; 0.231 ; 0.200 REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION OTHERS (A): 1476 ; 0.122 ; 0.200 REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 16 ; 0.118 ; 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): 38 ; 0.886 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): 60 ; 0.628 ; 0.200 REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 5 ; 0.288 ; 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): 1425 ; 8.367 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 2274 ;12.191 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 736 ; 4.338 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 647 ; 5.941 ; 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 1GUB 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_1290009287. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : NULL REMARK 200 TEMPERATURE (KELVIN) : 100.0 REMARK 200 PH : 9.00 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : EMBL/DESY, HAMBURG REMARK 200 BEAMLINE : BW7B REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.89 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 : DENZO REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 625 REMARK 200 RESOLUTION RANGE HIGH (A) : 3.080 REMARK 200 RESOLUTION RANGE LOW (A) : 29.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.5 REMARK 200 DATA REDUNDANCY : 11.30 REMARK 200 R MERGE (I) : 0.00940 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 7.1000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 3.08 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 3.16 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.9 REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : 0.03400 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> FOR SHELL : 2.300 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 (%): 62.00 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.23 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: PH 9.00 REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 4 3 2 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,Y,-Z REMARK 290 4555 X,-Y,-Z REMARK 290 5555 Z,X,Y REMARK 290 6555 Z,-X,-Y REMARK 290 7555 -Z,-X,Y REMARK 290 8555 -Z,X,-Y REMARK 290 9555 Y,Z,X REMARK 290 10555 -Y,Z,-X REMARK 290 11555 Y,-Z,-X REMARK 290 12555 -Y,-Z,X REMARK 290 13555 Y,X,-Z REMARK 290 14555 -Y,-X,-Z REMARK 290 15555 Y,-X,Z REMARK 290 16555 -Y,X,Z REMARK 290 17555 X,Z,-Y REMARK 290 18555 -X,Z,Y REMARK 290 19555 -X,-Z,-Y REMARK 290 20555 X,-Z,Y REMARK 290 21555 Z,Y,-X REMARK 290 22555 Z,-Y,X REMARK 290 23555 -Z,Y,X REMARK 290 24555 -Z,-Y,-X 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 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 0.00000 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 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY2 5 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY1 6 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY2 6 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 6 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY1 7 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY2 7 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 7 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY1 8 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY2 8 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 8 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY1 9 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY2 9 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY3 9 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY1 10 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY2 10 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY3 10 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY1 11 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY2 11 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY3 11 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY1 12 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY2 12 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY3 12 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY1 13 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY2 13 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 13 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 14 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY2 14 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 14 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 15 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY2 15 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 15 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 16 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY2 16 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 16 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 17 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 17 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY3 17 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY1 18 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 18 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY3 18 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY1 19 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 19 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY3 19 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY1 20 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 20 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY3 20 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY1 21 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY2 21 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 21 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY1 22 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY2 22 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 22 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY1 23 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY2 23 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 23 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY1 24 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY2 24 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 24 -1.000000 0.000000 0.000000 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 A2001 LIES ON A SPECIAL POSITION. 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 CB ALA A 1 NI NI A 1289 1.21 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 CB ALA A 1 CB ALA A 1 6566 1.19 REMARK 500 CA ALA A 1 CB ALA A 1 12665 1.33 REMARK 500 C ALA A 1 CB ALA A 1 12665 2.00 REMARK 500 N ALA A 1 CB ALA A 1 12665 2.10 REMARK 500 REMARK 500 REMARK: NULL 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 ALA A 1 N ALA A 1 CA 0.225 REMARK 500 ALA A 1 CA ALA A 1 CB 0.913 REMARK 500 ALA A 1 CA ALA A 1 C -0.437 REMARK 500 ALA A 1 C ALA A 1 O 0.504 REMARK 500 TYR A 4 CA TYR A 4 CB -0.137 REMARK 500 TYR A 4 CE2 TYR A 4 CD2 0.127 REMARK 500 VAL A 6 CA VAL A 6 CB -0.134 REMARK 500 VAL A 7 CB VAL A 7 CG1 -0.130 REMARK 500 LYS A 9 C LYS A 9 O 0.266 REMARK 500 SER A 12 CB SER A 12 OG 0.088 REMARK 500 ASN A 13 CG ASN A 13 ND2 0.192 REMARK 500 PHE A 15 CZ PHE A 15 CE2 -0.159 REMARK 500 TRP A 16 CE3 TRP A 16 CZ3 -0.179 REMARK 500 TRP A 16 C TRP A 16 O -0.130 REMARK 500 VAL A 17 CB VAL A 17 CG1 -0.205 REMARK 500 VAL A 17 CB VAL A 17 CG2 -0.156 REMARK 500 MET A 19 CG MET A 19 SD -0.173 REMARK 500 ILE A 23 CB ILE A 23 CG2 -0.200 REMARK 500 GLU A 24 CD GLU A 24 OE1 -0.115 REMARK 500 GLU A 24 C GLU A 24 O -0.119 REMARK 500 ASP A 25 CG ASP A 25 OD1 0.139 REMARK 500 ALA A 27 CA ALA A 27 CB 0.173 REMARK 500 VAL A 32 CB VAL A 32 CG1 -0.160 REMARK 500 VAL A 32 CB VAL A 32 CG2 -0.140 REMARK 500 SER A 33 N SER A 33 CA -0.143 REMARK 500 ASP A 35 C ASP A 35 O -0.147 REMARK 500 ILE A 36 C ILE A 36 O -0.117 REMARK 500 PHE A 37 CB PHE A 37 CG 0.103 REMARK 500 PHE A 37 CD1 PHE A 37 CE1 -0.341 REMARK 500 PHE A 37 CE1 PHE A 37 CZ -0.138 REMARK 500 PHE A 37 CZ PHE A 37 CE2 -0.138 REMARK 500 PHE A 37 CE2 PHE A 37 CD2 -0.242 REMARK 500 ALA A 38 CA ALA A 38 CB -0.213 REMARK 500 SER A 41 CB SER A 41 OG 0.099 REMARK 500 ASP A 44 CA ASP A 44 C -0.157 REMARK 500 GLN A 50 CG GLN A 50 CD -0.204 REMARK 500 GLN A 50 CD GLN A 50 OE1 -0.153 REMARK 500 LEU A 51 C LEU A 51 O -0.122 REMARK 500 PHE A 52 CZ PHE A 52 CE2 -0.238 REMARK 500 GLU A 53 CD GLU A 53 OE1 -0.119 REMARK 500 ASP A 54 CB ASP A 54 CG 0.196 REMARK 500 SER A 56 CA SER A 56 CB -0.121 REMARK 500 ASN A 57 CA ASN A 57 CB 0.170 REMARK 500 LYS A 58 C LYS A 58 O 0.138 REMARK 500 TYR A 60 CG TYR A 60 CD2 -0.115 REMARK 500 LYS A 61 CE LYS A 61 NZ 0.276 REMARK 500 LYS A 61 C LYS A 61 O -0.116 REMARK 500 GLY A 62 C GLY A 62 O -0.123 REMARK 500 PHE A 65 CE1 PHE A 65 CZ -0.114 REMARK 500 LEU A 68 CG LEU A 68 CD1 -0.273 REMARK 500 REMARK 500 THIS ENTRY HAS 149 BOND DEVIATIONS. 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 ALA A 1 CB - CA - C ANGL. DEV. = -13.5 DEGREES REMARK 500 ALA A 1 N - CA - CB ANGL. DEV. = -9.3 DEGREES REMARK 500 ALA A 1 N - CA - C ANGL. DEV. = 30.7 DEGREES REMARK 500 ALA A 1 CA - C - O ANGL. DEV. = -17.2 DEGREES REMARK 500 ALA A 1 CA - C - N ANGL. DEV. = 29.1 DEGREES REMARK 500 ALA A 1 O - C - N ANGL. DEV. = -16.9 DEGREES REMARK 500 THR A 10 OG1 - CB - CG2 ANGL. DEV. = -15.0 DEGREES REMARK 500 VAL A 34 CG1 - CB - CG2 ANGL. DEV. = -16.3 DEGREES REMARK 500 PHE A 52 CB - CG - CD2 ANGL. DEV. = 4.4 DEGREES REMARK 500 ASP A 54 CB - CG - OD2 ANGL. DEV. = 6.2 DEGREES REMARK 500 LEU A 68 CB - CG - CD2 ANGL. DEV. = 11.1 DEGREES REMARK 500 TYR A 86 CB - CG - CD2 ANGL. DEV. = 6.8 DEGREES REMARK 500 TYR A 86 CB - CG - CD1 ANGL. DEV. = -5.2 DEGREES REMARK 500 ASP A 91 CB - CG - OD2 ANGL. DEV. = 8.7 DEGREES REMARK 500 ARG A 151 NE - CZ - NH1 ANGL. DEV. = 3.0 DEGREES REMARK 500 ARG A 151 NE - CZ - NH2 ANGL. DEV. = -3.3 DEGREES REMARK 500 ARG A 177 NE - CZ - NH2 ANGL. DEV. = -5.1 DEGREES REMARK 500 ASP A 182 CB - CG - OD2 ANGL. DEV. = 6.3 DEGREES REMARK 500 ASP A 202 CB - CG - OD2 ANGL. DEV. = 5.7 DEGREES REMARK 500 LEU A 222 CB - CG - CD2 ANGL. DEV. = 11.0 DEGREES REMARK 500 ASP A 227 CB - CG - OD2 ANGL. DEV. = 5.7 DEGREES REMARK 500 ARG A 233 NE - CZ - NH1 ANGL. DEV. = 5.9 DEGREES REMARK 500 ARG A 233 NE - CZ - NH2 ANGL. DEV. = -5.5 DEGREES REMARK 500 VAL A 269 CG1 - CB - CG2 ANGL. DEV. = -11.5 DEGREES REMARK 500 LEU A 280 CB - CG - CD1 ANGL. DEV. = 11.1 DEGREES REMARK 500 VAL A 281 CG1 - CB - CG2 ANGL. DEV. = -12.7 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 ASP A 44 70.60 -100.35 REMARK 500 ASP A 91 -88.50 62.04 REMARK 500 ASP A 95 101.82 -59.25 REMARK 500 ALA A 108 145.35 -170.34 REMARK 500 ASP A 113 99.69 -60.32 REMARK 500 ILE A 139 99.17 -66.17 REMARK 500 ALA A 169 96.09 -160.95 REMARK 500 TRP A 175 89.13 -45.53 REMARK 500 ASP A 227 -46.02 99.10 REMARK 500 ASN A 248 77.27 -113.93 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: NON-CIS, NON-TRANS REMARK 500 REMARK 500 THE FOLLOWING PEPTIDE BONDS DEVIATE SIGNIFICANTLY FROM BOTH REMARK 500 CIS AND TRANS CONFORMATION. CIS BONDS, IF ANY, ARE LISTED REMARK 500 ON CISPEP RECORDS. TRANS IS DEFINED AS 180 +/- 30 AND REMARK 500 CIS IS DEFINED AS 0 +/- 30 DEGREES. REMARK 500 MODEL OMEGA REMARK 500 ALA A 1 ALA A 2 -141.93 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: MAIN CHAIN PLANARITY REMARK 500 REMARK 500 THE FOLLOWING RESIDUES HAVE A PSEUDO PLANARITY REMARK 500 TORSION ANGLE, C(I) - CA(I) - N(I+1) - O(I), GREATER REMARK 500 10.0 DEGREES. (M=MODEL NUMBER; RES=RESIDUE NAME; REMARK 500 C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 500 I=INSERTION CODE). REMARK 500 REMARK 500 M RES CSSEQI ANGLE REMARK 500 ALA A 1 -26.36 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 NI A1289 NI REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ALA A 1 N REMARK 620 2 ALA A 1 N 137.6 REMARK 620 N 1 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NI A1289 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1GUD 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 1GUB A 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 HET NI A1289 1 HETNAM NI NICKEL (II) ION FORMUL 2 NI NI 2+ FORMUL 3 HOH *10(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 GLY A 84 1 12 HELIX 4 4 ASP A 95 GLY A 103 1 9 HELIX 5 5 ASP A 113 GLY A 130 1 18 HELIX 6 6 ASN A 145 ALA A 162 1 18 HELIX 7 7 ASP A 176 ASN A 191 1 16 HELIX 8 8 ASN A 201 GLY A 216 1 16 HELIX 9 9 ILE A 229 GLY A 239 1 11 HELIX 10 10 ASN A 248 GLY A 267 1 20 SHEET 1 AA 6 VAL A 34 ALA A 38 0 SHEET 2 AA 6 TYR A 4 LEU A 8 1 O TYR A 4 N ASP A 35 SHEET 3 AA 6 GLY A 62 PHE A 65 1 O GLY A 62 N ALA A 5 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 GLN A 171 0 SHEET 2 AB 6 GLY A 134 ILE A 139 1 O GLY A 134 N LYS A 166 SHEET 3 AB 6 ILE A 194 CYS A 199 1 N LYS A 195 O GLU A 135 SHEET 4 AB 6 LEU A 222 ASP A 227 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 THR A 287 -1 O ILE A 284 N ALA A 246 LINK N ALA A 1 NI NI A1289 6566 1555 2.48 LINK N ALA A 1 NI NI A1289 12665 1555 2.09 SITE 1 AC1 2 ALA A 1 HOH A2001 CRYST1 133.100 133.100 133.100 90.00 90.00 90.00 P 4 3 2 24 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 0.007513 0.000000 0.000000 0.00000 SCALE2 0.000000 0.007513 0.000000 0.00000 SCALE3 0.000000 0.000000 0.007513 0.00000