HEADER HYDROLASE 23-MAR-06 2GFT TITLE CRYSTAL STRUCTURE OF THE E263A NUCLEOPHILE MUTANT OF BACILLUS TITLE 2 LICHENIFORMIS ENDO-BETA-1,4-GALACTANASE IN COMPLEX WITH GALACTOTRIOSE COMPND MOL_ID: 1; COMPND 2 MOLECULE: GLYCOSYL HYDROLASE FAMILY 53; COMPND 3 CHAIN: A, B; COMPND 4 EC: 3.2.1.89; COMPND 5 ENGINEERED: YES; COMPND 6 MUTATION: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: BACILLUS LICHENIFORMIS; SOURCE 3 ORGANISM_TAXID: 1402; SOURCE 4 EXPRESSION_SYSTEM: BACILLUS SUBTILIS; SOURCE 5 EXPRESSION_SYSTEM_TAXID: 1423 KEYWDS BETA-ALPHA-8-BARREL, PROTEIN-OLIGOSACCHARIDE COMPLEX, NUCLEOPHILE KEYWDS 2 INACTIVE MUTANT, HYDROLASE EXPDTA X-RAY DIFFRACTION AUTHOR D.WELNER,J.LE NOURS,L.DE MARIA,C.T.JORGENSEN,L.L.H.CHRISTENSEN, AUTHOR 2 S.LARSEN,L.LO LEGGIO REVDAT 6 14-FEB-24 2GFT 1 REMARK REVDAT 5 20-OCT-21 2GFT 1 SEQADV HETSYN REVDAT 4 29-JUL-20 2GFT 1 COMPND REMARK SEQADV HETNAM REVDAT 4 2 1 LINK SITE ATOM REVDAT 3 24-JAN-18 2GFT 1 AUTHOR REMARK REVDAT 2 24-FEB-09 2GFT 1 VERSN REVDAT 1 13-JUN-06 2GFT 0 JRNL AUTH J.LE NOURS,L.DE MARIA,D.WELNER,C.T.JORGENSEN, JRNL AUTH 2 L.L.H.CHRISTENSEN,S.LARSEN,L.LO LEGGIO JRNL TITL OLIGOSACCHARIDE BINDING OF BACILLUS LICHENIFORMIS JRNL TITL 2 ENDO-BETA-1,4-GALACTANASE JRNL REF TO BE PUBLISHED JRNL REFN REMARK 1 REMARK 1 REFERENCE 1 REMARK 1 AUTH C.RYTTERSGAARD,J.LE NOURS,L.LO LEGGIO,C.T.JORGENSEN, REMARK 1 AUTH 2 L.L.H.CHRISTENSEN,M.BJORNVAD,S.LARSEN REMARK 1 TITL THE STRUCTURE OF ENDO-BETA-1,4-GALACTANASE FROM BACILLUS REMARK 1 TITL 2 LICHENIFORMIS IN COMPLEX WITH TWO OLIGOSACCHARIDE PRODUCTS REMARK 1 REF J.MOL.BIOL. V. 341 107 2004 REMARK 1 REFN ISSN 0022-2836 REMARK 1 PMID 15312766 REMARK 1 DOI 10.1016/J.JMB.2004.05.017 REMARK 2 REMARK 2 RESOLUTION. 2.30 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.2.0005 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) : 2.30 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 30.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 87.3 REMARK 3 NUMBER OF REFLECTIONS : 30191 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) : 0.183 REMARK 3 R VALUE (WORKING SET) : 0.180 REMARK 3 FREE R VALUE : 0.232 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 1606 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) : 2.30 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.35 REMARK 3 REFLECTION IN BIN (WORKING SET) : 1884 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 75.10 REMARK 3 BIN R VALUE (WORKING SET) : 0.2350 REMARK 3 BIN FREE R VALUE SET COUNT : 91 REMARK 3 BIN FREE R VALUE : 0.3260 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 5997 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 70 REMARK 3 SOLVENT ATOMS : 294 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 32.16 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.25000 REMARK 3 B22 (A**2) : 2.71000 REMARK 3 B33 (A**2) : -1.88000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 1.56000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.507 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.259 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.176 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 7.186 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.954 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.922 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 6230 ; 0.012 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 8478 ; 1.293 ; 1.937 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 771 ; 5.858 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 293 ;37.685 ;24.846 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 945 ;15.947 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 20 ;25.974 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 907 ; 0.089 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 4817 ; 0.005 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 3022 ; 0.203 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 4252 ; 0.304 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 439 ; 0.155 ; 0.200 REMARK 3 H-BOND (X...Y) OTHERS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION REFINED ATOMS (A): 10 ; 0.131 ; 0.200 REMARK 3 POTENTIAL METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW REFINED ATOMS (A): 57 ; 0.238 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 13 ; 0.138 ; 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): 3898 ; 0.604 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 6080 ; 1.022 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 2731 ; 1.533 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 2398 ; 2.449 ; 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 : 1 REMARK 3 REMARK 3 NCS GROUP NUMBER : 1 REMARK 3 CHAIN NAMES : A B REMARK 3 NUMBER OF COMPONENTS NCS GROUP : 33 REMARK 3 COMPONENT C SSSEQI TO C SSSEQI CODE REMARK 3 1 A 11 A 12 5 REMARK 3 1 B 11 B 12 5 REMARK 3 2 A 13 A 13 3 REMARK 3 2 B 13 B 13 3 REMARK 3 3 A 14 A 20 1 REMARK 3 3 B 14 B 20 1 REMARK 3 4 A 21 A 22 3 REMARK 3 4 B 21 B 22 3 REMARK 3 5 A 23 A 88 1 REMARK 3 5 B 23 B 88 1 REMARK 3 6 A 89 A 89 3 REMARK 3 6 B 89 B 89 3 REMARK 3 7 A 90 A 132 1 REMARK 3 7 B 90 B 132 1 REMARK 3 8 A 133 A 133 3 REMARK 3 8 B 133 B 133 3 REMARK 3 9 A 134 A 144 1 REMARK 3 9 B 134 B 144 1 REMARK 3 10 A 145 A 145 3 REMARK 3 10 B 145 B 145 3 REMARK 3 11 A 146 A 187 1 REMARK 3 11 B 146 B 187 1 REMARK 3 12 A 188 A 188 3 REMARK 3 12 B 188 B 188 3 REMARK 3 13 A 189 A 190 1 REMARK 3 13 B 189 B 190 1 REMARK 3 14 A 191 A 191 3 REMARK 3 14 B 191 B 191 3 REMARK 3 15 A 192 A 192 5 REMARK 3 15 B 192 B 192 5 REMARK 3 16 A 193 A 219 1 REMARK 3 16 B 193 B 219 1 REMARK 3 17 A 220 A 221 3 REMARK 3 17 B 220 B 221 3 REMARK 3 18 A 222 A 222 1 REMARK 3 18 B 222 B 222 1 REMARK 3 19 A 223 A 223 3 REMARK 3 19 B 223 B 223 3 REMARK 3 20 A 224 A 311 1 REMARK 3 20 B 224 B 311 1 REMARK 3 21 A 312 A 312 3 REMARK 3 21 B 312 B 312 3 REMARK 3 22 A 313 A 331 3 REMARK 3 22 B 313 B 331 3 REMARK 3 23 A 332 A 332 3 REMARK 3 23 B 332 B 332 3 REMARK 3 24 A 333 A 357 1 REMARK 3 24 B 333 B 357 1 REMARK 3 25 A 358 A 358 3 REMARK 3 25 B 358 B 358 3 REMARK 3 26 A 359 A 362 1 REMARK 3 26 B 359 B 362 1 REMARK 3 27 A 363 A 363 5 REMARK 3 27 B 363 B 363 5 REMARK 3 28 A 364 A 377 1 REMARK 3 28 B 364 B 377 1 REMARK 3 29 A 378 A 378 3 REMARK 3 29 B 378 B 378 3 REMARK 3 30 A 379 A 388 1 REMARK 3 30 B 379 B 388 1 REMARK 3 31 A 389 A 389 3 REMARK 3 31 B 389 B 389 3 REMARK 3 32 A 390 A 395 1 REMARK 3 32 B 390 B 395 1 REMARK 3 33 A 396 A 396 5 REMARK 3 33 B 396 B 396 5 REMARK 3 GROUP CHAIN COUNT RMS WEIGHT REMARK 3 TIGHT POSITIONAL 1 A (A): 2786 ; 0.08 ; 0.05 REMARK 3 MEDIUM POSITIONAL 1 A (A): 21 ; 0.79 ; 0.50 REMARK 3 LOOSE POSITIONAL 1 A (A): 187 ; 1.18 ; 5.00 REMARK 3 TIGHT THERMAL 1 A (A**2): 2786 ; 0.13 ; 0.50 REMARK 3 MEDIUM THERMAL 1 A (A**2): 21 ; 0.39 ; 2.00 REMARK 3 LOOSE THERMAL 1 A (A**2): 187 ; 2.58 ; 10.00 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : NULL 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 2GFT COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 26-APR-06. REMARK 100 THE DEPOSITION ID IS D_1000037063. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 02-MAR-04 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 : I711 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : NULL REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MAR CCD 165 MM REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 31812 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.300 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 (%) : 88.0 REMARK 200 DATA REDUNDANCY : NULL REMARK 200 R MERGE (I) : 0.06400 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) : 2.30 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.38 REMARK 200 COMPLETENESS FOR SHELL (%) : 81.9 REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : 0.34600 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: FOURIER SYNTHESIS REMARK 200 SOFTWARE USED: NULL REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 47.20 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.33 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 24-35% (W/V) PEG 1500 SOAK: FEW REMARK 280 SECONDS, 0.3-0.5 M METHYL- (1 4)-GALACTOTETRAOSIDE, 15% PEG 1500 REMARK 280 AND 15% PEG 400., VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 296K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 1 21 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,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 39.67700 REMARK 290 SMTRY3 2 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 APPLY THE FOLLOWING TO CHAINS: A, C 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 APPLY THE FOLLOWING TO CHAINS: B, 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 ALA A 1 REMARK 465 HIS A 2 REMARK 465 ARG A 3 REMARK 465 ASP A 4 REMARK 465 SER A 5 REMARK 465 GLY A 6 REMARK 465 THR A 7 REMARK 465 ALA A 8 REMARK 465 LYS A 9 REMARK 465 SER A 10 REMARK 465 PHE A 397 REMARK 465 LYS A 398 REMARK 465 ASN A 399 REMARK 465 ALA B 1 REMARK 465 HIS B 2 REMARK 465 ARG B 3 REMARK 465 ASP B 4 REMARK 465 SER B 5 REMARK 465 GLY B 6 REMARK 465 THR B 7 REMARK 465 ALA B 8 REMARK 465 LYS B 9 REMARK 465 SER B 10 REMARK 465 LYS B 398 REMARK 465 ASN B 399 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 PHE B 364 CE1 PHE B 364 CZ -0.116 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 ARG A 66 NE - CZ - NH2 ANGL. DEV. = -3.9 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 PRO A 73 45.94 -77.82 REMARK 500 GLN A 121 58.92 -141.11 REMARK 500 ALA A 323 28.31 -153.16 REMARK 500 ARG A 332 42.69 -97.53 REMARK 500 ASP A 359 -70.85 -118.86 REMARK 500 VAL A 369 16.45 -141.57 REMARK 500 PRO B 73 44.13 -76.28 REMARK 500 TRP B 115 116.93 -37.09 REMARK 500 GLU B 165 59.07 38.69 REMARK 500 ALA B 323 33.09 -155.80 REMARK 500 ARG B 332 32.60 -95.88 REMARK 500 ASP B 359 -73.08 -115.84 REMARK 500 PHE B 364 150.79 -46.69 REMARK 500 VAL B 369 19.55 -142.39 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 901 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 272 OD1 REMARK 620 2 ASP A 274 OD1 89.6 REMARK 620 3 HIS A 276 O 75.7 101.9 REMARK 620 4 ASN A 278 OD1 85.9 168.6 87.1 REMARK 620 5 SER A 367 O 166.3 97.3 91.2 89.3 REMARK 620 6 ASP A 370 OD2 99.0 81.7 173.5 88.6 93.7 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CA B 902 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP B 272 OD1 REMARK 620 2 ASP B 274 OD1 85.6 REMARK 620 3 HIS B 276 O 75.6 95.4 REMARK 620 4 ASN B 278 OD1 86.4 171.3 85.8 REMARK 620 5 SER B 367 O 162.4 95.7 86.9 93.0 REMARK 620 6 ASP B 370 OD2 99.7 88.7 173.5 89.4 97.8 REMARK 620 N 1 2 3 4 5 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 2CCR RELATED DB: PDB REMARK 900 RELATED ID: 1R8L RELATED DB: PDB REMARK 900 RELATED ID: 1UR0 RELATED DB: PDB REMARK 900 RELATED ID: 1UR4 RELATED DB: PDB DBREF 2GFT A 1 399 GB 52005769 AAU25711 27 425 DBREF 2GFT B 1 399 GB 52005769 AAU25711 27 425 SEQADV 2GFT HIS A 2 GB 52005769 ALA 28 CONFLICT SEQADV 2GFT ALA A 263 GB 52005769 GLU 289 ENGINEERED MUTATION SEQADV 2GFT HIS B 2 GB 52005769 ALA 28 CONFLICT SEQADV 2GFT ALA B 263 GB 52005769 GLU 289 ENGINEERED MUTATION SEQRES 1 A 399 ALA HIS ARG ASP SER GLY THR ALA LYS SER GLY LEU TYR SEQRES 2 A 399 VAL GLU LYS VAL SER GLY LEU ARG LYS ASP PHE ILE LYS SEQRES 3 A 399 GLY VAL ASP VAL SER SER ILE ILE ALA LEU GLU GLU SER SEQRES 4 A 399 GLY VAL ALA PHE TYR ASN GLU SER GLY LYS LYS GLN ASP SEQRES 5 A 399 ILE PHE LYS THR LEU LYS GLU ALA GLY VAL ASN TYR VAL SEQRES 6 A 399 ARG VAL ARG ILE TRP ASN ASP PRO TYR ASP ALA ASN GLY SEQRES 7 A 399 ASN GLY TYR GLY GLY GLY ASN ASN ASP LEU GLU LYS ALA SEQRES 8 A 399 ILE GLN ILE GLY LYS ARG ALA THR ALA ASN GLY MET LYS SEQRES 9 A 399 LEU LEU ALA ASP PHE HIS TYR SER ASP PHE TRP ALA ASP SEQRES 10 A 399 PRO ALA LYS GLN LYS ALA PRO LYS ALA TRP ALA ASN LEU SEQRES 11 A 399 ASN PHE GLU ASP LYS LYS THR ALA LEU TYR GLN TYR THR SEQRES 12 A 399 LYS GLN SER LEU LYS ALA MET LYS ALA ALA GLY ILE ASP SEQRES 13 A 399 ILE GLY MET VAL GLN VAL GLY ASN GLU THR ASN GLY GLY SEQRES 14 A 399 LEU ALA GLY GLU THR ASP TRP ALA LYS MET SER GLN LEU SEQRES 15 A 399 PHE ASN ALA GLY SER GLN ALA VAL ARG GLU THR ASP SER SEQRES 16 A 399 ASN ILE LEU VAL ALA LEU HIS PHE THR ASN PRO GLU THR SEQRES 17 A 399 SER GLY ARG TYR ALA TRP ILE ALA GLU THR LEU HIS ARG SEQRES 18 A 399 HIS HIS VAL ASP TYR ASP VAL PHE ALA SER SER TYR TYR SEQRES 19 A 399 PRO PHE TRP HIS GLY THR LEU LYS ASN LEU THR SER VAL SEQRES 20 A 399 LEU THR SER VAL ALA ASP THR TYR GLY LYS LYS VAL MET SEQRES 21 A 399 VAL ALA ALA THR SER TYR THR TYR THR ALA GLU ASP GLY SEQRES 22 A 399 ASP GLY HIS GLY ASN THR ALA PRO LYS ASN GLY GLN THR SEQRES 23 A 399 LEU ASN ASN PRO VAL THR VAL GLN GLY GLN ALA ASN ALA SEQRES 24 A 399 VAL ARG ASP VAL ILE GLN ALA VAL SER ASP VAL GLY GLU SEQRES 25 A 399 ALA GLY ILE GLY VAL PHE TYR TRP GLU PRO ALA TRP ILE SEQRES 26 A 399 PRO VAL GLY PRO ALA HIS ARG LEU GLU LYS ASN LYS ALA SEQRES 27 A 399 LEU TRP GLU THR TYR GLY SER GLY TRP ALA THR SER TYR SEQRES 28 A 399 ALA ALA GLU TYR ASP PRO GLU ASP ALA GLY LYS TRP PHE SEQRES 29 A 399 GLY GLY SER ALA VAL ASP ASN GLN ALA LEU PHE ASP PHE SEQRES 30 A 399 LYS GLY ARG PRO LEU PRO SER LEU HIS VAL PHE GLN TYR SEQRES 31 A 399 VAL ASP THR GLY THR PRO PHE LYS ASN SEQRES 1 B 399 ALA HIS ARG ASP SER GLY THR ALA LYS SER GLY LEU TYR SEQRES 2 B 399 VAL GLU LYS VAL SER GLY LEU ARG LYS ASP PHE ILE LYS SEQRES 3 B 399 GLY VAL ASP VAL SER SER ILE ILE ALA LEU GLU GLU SER SEQRES 4 B 399 GLY VAL ALA PHE TYR ASN GLU SER GLY LYS LYS GLN ASP SEQRES 5 B 399 ILE PHE LYS THR LEU LYS GLU ALA GLY VAL ASN TYR VAL SEQRES 6 B 399 ARG VAL ARG ILE TRP ASN ASP PRO TYR ASP ALA ASN GLY SEQRES 7 B 399 ASN GLY TYR GLY GLY GLY ASN ASN ASP LEU GLU LYS ALA SEQRES 8 B 399 ILE GLN ILE GLY LYS ARG ALA THR ALA ASN GLY MET LYS SEQRES 9 B 399 LEU LEU ALA ASP PHE HIS TYR SER ASP PHE TRP ALA ASP SEQRES 10 B 399 PRO ALA LYS GLN LYS ALA PRO LYS ALA TRP ALA ASN LEU SEQRES 11 B 399 ASN PHE GLU ASP LYS LYS THR ALA LEU TYR GLN TYR THR SEQRES 12 B 399 LYS GLN SER LEU LYS ALA MET LYS ALA ALA GLY ILE ASP SEQRES 13 B 399 ILE GLY MET VAL GLN VAL GLY ASN GLU THR ASN GLY GLY SEQRES 14 B 399 LEU ALA GLY GLU THR ASP TRP ALA LYS MET SER GLN LEU SEQRES 15 B 399 PHE ASN ALA GLY SER GLN ALA VAL ARG GLU THR ASP SER SEQRES 16 B 399 ASN ILE LEU VAL ALA LEU HIS PHE THR ASN PRO GLU THR SEQRES 17 B 399 SER GLY ARG TYR ALA TRP ILE ALA GLU THR LEU HIS ARG SEQRES 18 B 399 HIS HIS VAL ASP TYR ASP VAL PHE ALA SER SER TYR TYR SEQRES 19 B 399 PRO PHE TRP HIS GLY THR LEU LYS ASN LEU THR SER VAL SEQRES 20 B 399 LEU THR SER VAL ALA ASP THR TYR GLY LYS LYS VAL MET SEQRES 21 B 399 VAL ALA ALA THR SER TYR THR TYR THR ALA GLU ASP GLY SEQRES 22 B 399 ASP GLY HIS GLY ASN THR ALA PRO LYS ASN GLY GLN THR SEQRES 23 B 399 LEU ASN ASN PRO VAL THR VAL GLN GLY GLN ALA ASN ALA SEQRES 24 B 399 VAL ARG ASP VAL ILE GLN ALA VAL SER ASP VAL GLY GLU SEQRES 25 B 399 ALA GLY ILE GLY VAL PHE TYR TRP GLU PRO ALA TRP ILE SEQRES 26 B 399 PRO VAL GLY PRO ALA HIS ARG LEU GLU LYS ASN LYS ALA SEQRES 27 B 399 LEU TRP GLU THR TYR GLY SER GLY TRP ALA THR SER TYR SEQRES 28 B 399 ALA ALA GLU TYR ASP PRO GLU ASP ALA GLY LYS TRP PHE SEQRES 29 B 399 GLY GLY SER ALA VAL ASP ASN GLN ALA LEU PHE ASP PHE SEQRES 30 B 399 LYS GLY ARG PRO LEU PRO SER LEU HIS VAL PHE GLN TYR SEQRES 31 B 399 VAL ASP THR GLY THR PRO PHE LYS ASN HET GAL C 1 12 HET GAL C 2 11 HET GAL C 3 11 HET GAL D 1 12 HET GAL D 2 11 HET GAL D 3 11 HET CA A 901 1 HET CA B 902 1 HETNAM GAL BETA-D-GALACTOPYRANOSE HETNAM CA CALCIUM ION HETSYN GAL BETA-D-GALACTOSE; D-GALACTOSE; GALACTOSE FORMUL 3 GAL 6(C6 H12 O6) FORMUL 5 CA 2(CA 2+) FORMUL 7 HOH *294(H2 O) HELIX 1 1 SER A 32 SER A 39 1 8 HELIX 2 2 ASP A 52 ALA A 60 1 9 HELIX 3 3 ASP A 87 ASN A 101 1 15 HELIX 4 4 PRO A 124 ALA A 128 5 5 HELIX 5 5 ASN A 131 ALA A 153 1 23 HELIX 6 6 ASP A 175 ASP A 194 1 20 HELIX 7 7 GLY A 210 HIS A 222 1 13 HELIX 8 8 THR A 240 GLY A 256 1 17 HELIX 9 9 THR A 292 ASP A 309 1 18 HELIX 10 10 PRO A 329 HIS A 331 5 3 HELIX 11 11 ARG A 332 GLY A 344 1 13 HELIX 12 12 THR A 349 GLU A 354 5 6 HELIX 13 13 ASP A 359 PHE A 364 1 6 HELIX 14 14 VAL A 369 ALA A 373 5 5 HELIX 15 15 LEU A 382 LEU A 385 5 4 HELIX 16 16 HIS A 386 GLY A 394 1 9 HELIX 17 17 SER B 32 SER B 39 1 8 HELIX 18 18 ASP B 52 ALA B 60 1 9 HELIX 19 19 ASP B 87 ASN B 101 1 15 HELIX 20 20 PRO B 124 ALA B 128 5 5 HELIX 21 21 ASN B 131 ALA B 153 1 23 HELIX 22 22 ASP B 175 ASP B 194 1 20 HELIX 23 23 GLY B 210 HIS B 222 1 13 HELIX 24 24 THR B 240 GLY B 256 1 17 HELIX 25 25 THR B 292 ASP B 309 1 18 HELIX 26 26 PRO B 329 HIS B 331 5 3 HELIX 27 27 ARG B 332 GLY B 344 1 13 HELIX 28 28 THR B 349 GLU B 354 5 6 HELIX 29 29 ASP B 359 PHE B 364 1 6 HELIX 30 30 VAL B 369 ALA B 373 5 5 HELIX 31 31 LEU B 382 LEU B 385 5 4 HELIX 32 32 HIS B 386 GLY B 394 1 9 SHEET 1 A 9 ILE A 25 ASP A 29 0 SHEET 2 A 9 TYR A 64 ILE A 69 1 O ARG A 66 N VAL A 28 SHEET 3 A 9 LYS A 104 PHE A 109 1 O ASP A 108 N VAL A 67 SHEET 4 A 9 ILE A 157 VAL A 162 1 O GLN A 161 N ALA A 107 SHEET 5 A 9 LEU A 198 PHE A 203 1 O ALA A 200 N VAL A 160 SHEET 6 A 9 VAL A 228 TYR A 233 1 O ALA A 230 N LEU A 201 SHEET 7 A 9 LYS A 258 THR A 264 1 O LYS A 258 N PHE A 229 SHEET 8 A 9 GLY A 314 TRP A 320 1 O TRP A 320 N THR A 264 SHEET 9 A 9 ILE A 25 ASP A 29 1 N ILE A 25 O ILE A 315 SHEET 1 B 9 ILE B 25 ASP B 29 0 SHEET 2 B 9 TYR B 64 ILE B 69 1 O ARG B 66 N VAL B 28 SHEET 3 B 9 LYS B 104 PHE B 109 1 O LEU B 106 N VAL B 65 SHEET 4 B 9 ILE B 157 VAL B 162 1 O GLN B 161 N ALA B 107 SHEET 5 B 9 LEU B 198 PHE B 203 1 O ALA B 200 N VAL B 160 SHEET 6 B 9 VAL B 228 TYR B 233 1 O ALA B 230 N LEU B 201 SHEET 7 B 9 LYS B 258 THR B 264 1 O ALA B 263 N TYR B 233 SHEET 8 B 9 GLY B 314 TRP B 320 1 O TRP B 320 N THR B 264 SHEET 9 B 9 ILE B 25 ASP B 29 1 N ILE B 25 O ILE B 315 LINK O4 GAL C 1 C1 GAL C 2 1555 1555 1.44 LINK O4 GAL C 2 C1 GAL C 3 1555 1555 1.44 LINK O4 GAL D 1 C1 GAL D 2 1555 1555 1.44 LINK O4 GAL D 2 C1 GAL D 3 1555 1555 1.44 LINK OD1 ASP A 272 CA CA A 901 1555 1555 2.42 LINK OD1 ASP A 274 CA CA A 901 1555 1555 2.24 LINK O HIS A 276 CA CA A 901 1555 1555 2.29 LINK OD1 ASN A 278 CA CA A 901 1555 1555 2.38 LINK O SER A 367 CA CA A 901 1555 1555 2.25 LINK OD2 ASP A 370 CA CA A 901 1555 1555 2.31 LINK OD1 ASP B 272 CA CA B 902 1555 1555 2.45 LINK OD1 ASP B 274 CA CA B 902 1555 1555 2.32 LINK O HIS B 276 CA CA B 902 1555 1555 2.38 LINK OD1 ASN B 278 CA CA B 902 1555 1555 2.39 LINK O SER B 367 CA CA B 902 1555 1555 2.27 LINK OD2 ASP B 370 CA CA B 902 1555 1555 2.20 CISPEP 1 ALA A 280 PRO A 281 0 6.19 CISPEP 2 ALA B 280 PRO B 281 0 3.52 CRYST1 50.273 79.354 103.906 90.00 100.56 90.00 P 1 21 1 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 0.019891 0.000000 0.003708 0.00000 SCALE2 0.000000 0.012602 0.000000 0.00000 SCALE3 0.000000 0.000000 0.009790 0.00000