HEADER HYDROLASE 09-JUL-03 1PZ2 TITLE CRYSTAL STRUCTURE OF A TRANSIENT COVALENT REACTION INTERMEDIATE OF A TITLE 2 FAMILY 51 ALPHA-L-ARABINOFURANOSIDASE CAVEAT 1PZ2 AHR A 550 HAS WRONG CHIRALITY AT ATOM C2 AHR A 550 HAS WRONG CAVEAT 2 1PZ2 CHIRALITY AT ATOM C1 AHR B 550 HAS WRONG CHIRALITY AT ATOM CAVEAT 3 1PZ2 C2 AHR B 550 HAS WRONG CHIRALITY AT ATOM C1 COMPND MOL_ID: 1; COMPND 2 MOLECULE: ALPHA-L-ARABINOFURANOSIDASE; COMPND 3 CHAIN: A, B; COMPND 4 SYNONYM: ARABINOSIDASE; COMPND 5 EC: 3.2.1.55; COMPND 6 ENGINEERED: YES; COMPND 7 MUTATION: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: GEOBACILLUS STEAROTHERMOPHILUS; SOURCE 3 ORGANISM_TAXID: 1422; SOURCE 4 STRAIN: T-6; SOURCE 5 GENE: ABFA; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS BETA-ALPHA8-BARREL, HYDROLASE EXPDTA X-RAY DIFFRACTION AUTHOR K.HOEVEL,D.SHALLOM,K.NIEFIND,V.BELAKHOV,G.SHOHAM,T.BAASOV,Y.SHOHAM, AUTHOR 2 D.SCHOMBURG REVDAT 7 09-OCT-24 1PZ2 1 REMARK REVDAT 6 27-OCT-21 1PZ2 1 SEQADV HETSYN LINK REVDAT 5 29-JUL-20 1PZ2 1 CAVEAT COMPND REMARK HETNAM REVDAT 5 2 1 LINK SITE ATOM REVDAT 4 11-OCT-17 1PZ2 1 REMARK REVDAT 3 24-FEB-09 1PZ2 1 VERSN REVDAT 2 14-OCT-03 1PZ2 1 REMARK REVDAT 1 07-OCT-03 1PZ2 0 JRNL AUTH K.HOEVEL,D.SHALLOM,K.NIEFIND,V.BELAKHOV,G.SHOHAM,T.BAASOV, JRNL AUTH 2 Y.SHOHAM,D.SCHOMBURG JRNL TITL CRYSTAL STRUCTURE AND SNAPSHOTS ALONG THE REACTION PATHWAY JRNL TITL 2 OF A FAMILY 51 ALPHA-L-ARABINOFURANOSIDASE JRNL REF EMBO J. V. 22 4922 2003 JRNL REFN ISSN 0261-4189 JRNL PMID 14517232 JRNL DOI 10.1093/EMBOJ/CDG494 REMARK 2 REMARK 2 RESOLUTION. 2.00 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.00 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 20.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 93.3 REMARK 3 NUMBER OF REFLECTIONS : 157884 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 CROSS-VALIDATION METHOD : NULL REMARK 3 FREE R VALUE TEST SET SELECTION : RANDOM REMARK 3 R VALUE (WORKING + TEST SET) : NULL REMARK 3 R VALUE (WORKING SET) : 0.169 REMARK 3 FREE R VALUE : 0.215 REMARK 3 FREE R VALUE TEST SET SIZE (%) : NULL REMARK 3 FREE R VALUE TEST SET COUNT : 3790 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 7972 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 18 REMARK 3 SOLVENT ATOMS : 767 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : NULL REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : NULL REMARK 3 B22 (A**2) : NULL REMARK 3 B33 (A**2) : NULL REMARK 3 B12 (A**2) : NULL REMARK 3 B13 (A**2) : NULL REMARK 3 B23 (A**2) : NULL REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): NULL REMARK 3 ESU BASED ON FREE R VALUE (A): NULL REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): NULL REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): NULL REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 DISTANCE RESTRAINTS. RMS SIGMA REMARK 3 BOND LENGTH (A) : NULL ; NULL REMARK 3 ANGLE DISTANCE (A) : NULL ; NULL REMARK 3 INTRAPLANAR 1-4 DISTANCE (A) : NULL ; NULL REMARK 3 H-BOND OR METAL COORDINATION (A) : NULL ; NULL REMARK 3 REMARK 3 PLANE RESTRAINT (A) : NULL ; NULL REMARK 3 CHIRAL-CENTER RESTRAINT (A**3) : NULL ; NULL REMARK 3 REMARK 3 NON-BONDED CONTACT RESTRAINTS. REMARK 3 SINGLE TORSION (A) : NULL ; NULL REMARK 3 MULTIPLE TORSION (A) : NULL ; NULL REMARK 3 H-BOND (X...Y) (A) : NULL ; NULL REMARK 3 H-BOND (X-H...Y) (A) : NULL ; NULL REMARK 3 REMARK 3 CONFORMATIONAL TORSION ANGLE RESTRAINTS. REMARK 3 SPECIFIED (DEGREES) : NULL ; NULL REMARK 3 PLANAR (DEGREES) : NULL ; NULL REMARK 3 STAGGERED (DEGREES) : NULL ; NULL REMARK 3 TRANSVERSE (DEGREES) : NULL ; NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. RMS SIGMA REMARK 3 MAIN-CHAIN BOND (A**2) : NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE (A**2) : NULL ; NULL REMARK 3 SIDE-CHAIN BOND (A**2) : NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE (A**2) : NULL ; NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 1PZ2 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 15-JUL-03. REMARK 100 THE DEPOSITION ID IS D_1000019713. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 19-NOV-02 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 8.0 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : N REMARK 200 RADIATION SOURCE : ROTATING ANODE REMARK 200 BEAMLINE : NULL REMARK 200 X-RAY GENERATOR MODEL : RIGAKU RU200 REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.54178 REMARK 200 MONOCHROMATOR : OSMIC MIRROR REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : IMAGE PLATE REMARK 200 DETECTOR MANUFACTURER : MARRESEARCH REMARK 200 INTENSITY-INTEGRATION SOFTWARE : MAR REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 157884 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.000 REMARK 200 RESOLUTION RANGE LOW (A) : 20.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 93.3 REMARK 200 DATA REDUNDANCY : NULL REMARK 200 R MERGE (I) : NULL 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) : 2.00 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.07 REMARK 200 COMPLETENESS FOR SHELL (%) : 96.2 REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : NULL 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: MOLECULAR REPLACEMENT 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 (%): 54.64 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.71 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 18 % PEG 3350, 0.2 M NH4F, 100 MM REMARK 280 TRIS/HCL, 5% 2-PROPANOL, PH 8.0, VAPOR DIFFUSION, SITTING DROP, REMARK 280 TEMPERATURE 298K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: H 3 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -Y,X-Y,Z REMARK 290 3555 -X+Y,-X,Z REMARK 290 4555 X+2/3,Y+1/3,Z+1/3 REMARK 290 5555 -Y+2/3,X-Y+1/3,Z+1/3 REMARK 290 6555 -X+Y+2/3,-X+1/3,Z+1/3 REMARK 290 7555 X+1/3,Y+2/3,Z+2/3 REMARK 290 8555 -Y+1/3,X-Y+2/3,Z+2/3 REMARK 290 9555 -X+Y+1/3,-X+2/3,Z+2/3 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 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 2 0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 3 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 3 -0.866025 -0.500000 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 89.71500 REMARK 290 SMTRY2 4 0.000000 1.000000 0.000000 51.79698 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 33.41033 REMARK 290 SMTRY1 5 -0.500000 -0.866025 0.000000 89.71500 REMARK 290 SMTRY2 5 0.866025 -0.500000 0.000000 51.79698 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 33.41033 REMARK 290 SMTRY1 6 -0.500000 0.866025 0.000000 89.71500 REMARK 290 SMTRY2 6 -0.866025 -0.500000 0.000000 51.79698 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 33.41033 REMARK 290 SMTRY1 7 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 7 0.000000 1.000000 0.000000 103.59396 REMARK 290 SMTRY3 7 0.000000 0.000000 1.000000 66.82067 REMARK 290 SMTRY1 8 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 8 0.866025 -0.500000 0.000000 103.59396 REMARK 290 SMTRY3 8 0.000000 0.000000 1.000000 66.82067 REMARK 290 SMTRY1 9 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 9 -0.866025 -0.500000 0.000000 103.59396 REMARK 290 SMTRY3 9 0.000000 0.000000 1.000000 66.82067 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 300 REMARK: THE SECOND PART OF THE BIOLOGICAL ASSEMBLY IS GENERATED REMARK 300 BY THE TWO FOLD AXIS 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: HEXAMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, 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 350 BIOMT1 2 -0.500000 -0.866025 0.000000 179.43000 REMARK 350 BIOMT2 2 0.866025 -0.500000 0.000000 0.00000 REMARK 350 BIOMT3 2 0.000000 0.000000 1.000000 0.00000 REMARK 350 BIOMT1 3 -0.500000 0.866025 0.000000 89.71500 REMARK 350 BIOMT2 3 -0.866025 -0.500000 0.000000 155.39094 REMARK 350 BIOMT3 3 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 MET A 1 REMARK 465 ALA A 2 REMARK 465 THR A 3 REMARK 465 LYS A 4 REMARK 465 ARG A 502 REMARK 465 MET B 1 REMARK 465 ALA B 2 REMARK 465 THR B 3 REMARK 465 LYS B 4 REMARK 465 ARG B 502 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 CD2 HIS B 289 O HOH B 901 0.46 REMARK 500 CD2 HIS A 30 O HOH A 918 0.71 REMARK 500 NE2 HIS A 30 O HOH A 918 0.82 REMARK 500 CD2 HIS B 165 O HOH B 900 1.11 REMARK 500 NE2 HIS B 289 O HOH B 901 1.40 REMARK 500 CG HIS B 289 O HOH B 901 1.78 REMARK 500 CG HIS A 30 O HOH A 918 1.84 REMARK 500 CE1 HIS A 30 O HOH A 918 1.88 REMARK 500 CE1 HIS A 244 O HOH A 921 1.89 REMARK 500 O HOH B 759 O HOH B 905 2.10 REMARK 500 ND1 HIS A 244 O HOH A 921 2.12 REMARK 500 CD2 HIS A 340 O HOH A 922 2.13 REMARK 500 NE2 HIS B 165 O HOH B 900 2.14 REMARK 500 O HOH B 644 O HOH B 717 2.19 REMARK 500 CG HIS A 340 O HOH A 922 2.19 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 667 O HOH A 924 3665 2.13 REMARK 500 O HOH B 791 O HOH B 914 3665 2.19 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 VAL B 212 CB VAL B 212 CG1 -0.128 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 96 CB - CG - OD2 ANGL. DEV. = 5.8 DEGREES REMARK 500 VAL A 212 CB - CA - C ANGL. DEV. = -13.2 DEGREES REMARK 500 ASP A 342 CB - CG - OD1 ANGL. DEV. = 5.6 DEGREES REMARK 500 ASP A 398 CB - CG - OD2 ANGL. DEV. = 5.8 DEGREES REMARK 500 ASP A 404 CB - CG - OD2 ANGL. DEV. = 5.4 DEGREES REMARK 500 ASP A 445 CB - CG - OD2 ANGL. DEV. = 5.9 DEGREES REMARK 500 ASP B 96 CB - CG - OD2 ANGL. DEV. = 6.6 DEGREES REMARK 500 ASP B 154 CB - CG - OD2 ANGL. DEV. = 5.4 DEGREES REMARK 500 LEU B 243 CA - CB - CG ANGL. DEV. = 14.6 DEGREES REMARK 500 ASP B 265 CB - CG - OD2 ANGL. DEV. = 5.8 DEGREES REMARK 500 ASP B 293 CB - CG - OD2 ANGL. DEV. = 5.9 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 ALA A 17 158.89 178.16 REMARK 500 GLU A 41 87.30 -152.20 REMARK 500 ALA A 224 -53.77 83.45 REMARK 500 ASN A 249 66.69 -109.58 REMARK 500 ASN A 296 174.95 178.92 REMARK 500 TYR A 299 -39.32 -168.97 REMARK 500 ASN A 354 -46.63 63.06 REMARK 500 ILE A 356 64.96 31.31 REMARK 500 ASN A 364 16.39 56.48 REMARK 500 ASP A 482 68.08 24.86 REMARK 500 SER B 26 -157.52 -143.83 REMARK 500 VAL B 35 -69.73 -96.23 REMARK 500 SER B 148 176.17 177.40 REMARK 500 ASN B 217 140.80 -170.72 REMARK 500 ALA B 224 -50.51 84.69 REMARK 500 ASN B 249 64.73 -114.61 REMARK 500 ASN B 296 167.94 170.92 REMARK 500 TYR B 299 -33.53 -171.69 REMARK 500 TRP B 311 34.43 80.53 REMARK 500 ASN B 354 -48.25 65.85 REMARK 500 ILE B 356 68.86 32.97 REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1PZ3 RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF A TRANSIENT COVALENT REACTION INTERMEDIATE OF REMARK 900 A FAMILY 51 ALPHA-L-ARABINOFURANOSIDASE REMARK 900 RELATED ID: 1QW8 RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF A FAMILY 51 ALPHA-L-ARABINOFURANOSIDASE IN REMARK 900 COMPLEX WITH ARA-ALPHA(1,3)-XYL REMARK 900 RELATED ID: 1QW9 RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF A FAMILY 51 ALPHA-L-ARABINOFURANOSIDASE IN REMARK 900 COMPLEX WITH 4-NITROPHENYL-ARA DBREF 1PZ2 A 1 502 UNP Q9XBQ3 ABFA_BACST 0 501 DBREF 1PZ2 B 1 502 UNP Q9XBQ3 ABFA_BACST 0 501 SEQADV 1PZ2 ALA A 175 UNP Q9XBQ3 GLU 174 ENGINEERED MUTATION SEQADV 1PZ2 ALA B 175 UNP Q9XBQ3 GLU 174 ENGINEERED MUTATION SEQRES 1 A 502 MET ALA THR LYS LYS ALA THR MET ILE ILE GLU LYS ASP SEQRES 2 A 502 PHE LYS ILE ALA GLU ILE ASP LYS ARG ILE TYR GLY SER SEQRES 3 A 502 PHE ILE GLU HIS LEU GLY ARG ALA VAL TYR GLY GLY ILE SEQRES 4 A 502 TYR GLU PRO GLY HIS PRO GLN ALA ASP GLU ASN GLY PHE SEQRES 5 A 502 ARG GLN ASP VAL ILE GLU LEU VAL LYS GLU LEU GLN VAL SEQRES 6 A 502 PRO ILE ILE ARG TYR PRO GLY GLY ASN PHE VAL SER GLY SEQRES 7 A 502 TYR ASN TRP GLU ASP GLY VAL GLY PRO LYS GLU GLN ARG SEQRES 8 A 502 PRO ARG ARG LEU ASP LEU ALA TRP LYS SER VAL GLU THR SEQRES 9 A 502 ASN GLU ILE GLY LEU ASN GLU PHE MET ASP TRP ALA LYS SEQRES 10 A 502 MET VAL GLY ALA GLU VAL ASN MET ALA VAL ASN LEU GLY SEQRES 11 A 502 THR ARG GLY ILE ASP ALA ALA ARG ASN LEU VAL GLU TYR SEQRES 12 A 502 CYS ASN HIS PRO SER GLY SER TYR TYR SER ASP LEU ARG SEQRES 13 A 502 ILE ALA HIS GLY TYR LYS GLU PRO HIS LYS ILE LYS THR SEQRES 14 A 502 TRP CYS LEU GLY ASN ALA MET ASP GLY PRO TRP GLN ILE SEQRES 15 A 502 GLY HIS LYS THR ALA VAL GLU TYR GLY ARG ILE ALA CYS SEQRES 16 A 502 GLU ALA ALA LYS VAL MET LYS TRP VAL ASP PRO THR ILE SEQRES 17 A 502 GLU LEU VAL VAL CYS GLY SER SER ASN ARG ASN MET PRO SEQRES 18 A 502 THR PHE ALA GLU TRP GLU ALA THR VAL LEU ASP HIS THR SEQRES 19 A 502 TYR ASP HIS VAL ASP TYR ILE SER LEU HIS GLN TYR TYR SEQRES 20 A 502 GLY ASN ARG ASP ASN ASP THR ALA ASN TYR LEU ALA LEU SEQRES 21 A 502 SER LEU GLU MET ASP ASP PHE ILE ARG SER VAL VAL ALA SEQRES 22 A 502 ILE ALA ASP TYR VAL LYS ALA LYS LYS ARG SER LYS LYS SEQRES 23 A 502 THR ILE HIS LEU SER PHE ASP GLU TRP ASN VAL TRP TYR SEQRES 24 A 502 HIS SER ASN GLU ALA ASP LYS LEU ILE GLU PRO TRP THR SEQRES 25 A 502 VAL ALA PRO PRO LEU LEU GLU ASP ILE TYR ASN PHE GLU SEQRES 26 A 502 ASP ALA LEU LEU VAL GLY CYS MET LEU ILE THR LEU MET SEQRES 27 A 502 LYS HIS ALA ASP ARG VAL LYS ILE ALA CYS LEU ALA GLN SEQRES 28 A 502 LEU VAL ASN VAL ILE ALA PRO ILE MET THR GLU LYS ASN SEQRES 29 A 502 GLY PRO ALA TRP LYS GLN THR ILE TYR TYR PRO PHE MET SEQRES 30 A 502 HIS ALA SER VAL TYR GLY ARG GLY VAL ALA LEU HIS PRO SEQRES 31 A 502 VAL ILE SER SER PRO LYS TYR ASP SER LYS ASP PHE THR SEQRES 32 A 502 ASP VAL PRO TYR LEU GLU SER ILE ALA VAL TYR ASN GLU SEQRES 33 A 502 GLU LYS GLU GLU VAL THR ILE PHE ALA VAL ASN ARG ASP SEQRES 34 A 502 MET GLU ASP ALA LEU LEU LEU GLU CYS ASP VAL ARG SER SEQRES 35 A 502 PHE GLU ASP TYR ARG VAL ILE GLU HIS ILE VAL LEU GLU SEQRES 36 A 502 HIS ASP ASN VAL LYS GLN THR ASN SER ALA GLN SER SER SEQRES 37 A 502 PRO VAL VAL PRO HIS ARG ASN GLY ASP ALA GLN LEU SER SEQRES 38 A 502 ASP ARG LYS VAL SER ALA THR LEU PRO LYS LEU SER TRP SEQRES 39 A 502 ASN VAL ILE ARG LEU GLY LYS ARG SEQRES 1 B 502 MET ALA THR LYS LYS ALA THR MET ILE ILE GLU LYS ASP SEQRES 2 B 502 PHE LYS ILE ALA GLU ILE ASP LYS ARG ILE TYR GLY SER SEQRES 3 B 502 PHE ILE GLU HIS LEU GLY ARG ALA VAL TYR GLY GLY ILE SEQRES 4 B 502 TYR GLU PRO GLY HIS PRO GLN ALA ASP GLU ASN GLY PHE SEQRES 5 B 502 ARG GLN ASP VAL ILE GLU LEU VAL LYS GLU LEU GLN VAL SEQRES 6 B 502 PRO ILE ILE ARG TYR PRO GLY GLY ASN PHE VAL SER GLY SEQRES 7 B 502 TYR ASN TRP GLU ASP GLY VAL GLY PRO LYS GLU GLN ARG SEQRES 8 B 502 PRO ARG ARG LEU ASP LEU ALA TRP LYS SER VAL GLU THR SEQRES 9 B 502 ASN GLU ILE GLY LEU ASN GLU PHE MET ASP TRP ALA LYS SEQRES 10 B 502 MET VAL GLY ALA GLU VAL ASN MET ALA VAL ASN LEU GLY SEQRES 11 B 502 THR ARG GLY ILE ASP ALA ALA ARG ASN LEU VAL GLU TYR SEQRES 12 B 502 CYS ASN HIS PRO SER GLY SER TYR TYR SER ASP LEU ARG SEQRES 13 B 502 ILE ALA HIS GLY TYR LYS GLU PRO HIS LYS ILE LYS THR SEQRES 14 B 502 TRP CYS LEU GLY ASN ALA MET ASP GLY PRO TRP GLN ILE SEQRES 15 B 502 GLY HIS LYS THR ALA VAL GLU TYR GLY ARG ILE ALA CYS SEQRES 16 B 502 GLU ALA ALA LYS VAL MET LYS TRP VAL ASP PRO THR ILE SEQRES 17 B 502 GLU LEU VAL VAL CYS GLY SER SER ASN ARG ASN MET PRO SEQRES 18 B 502 THR PHE ALA GLU TRP GLU ALA THR VAL LEU ASP HIS THR SEQRES 19 B 502 TYR ASP HIS VAL ASP TYR ILE SER LEU HIS GLN TYR TYR SEQRES 20 B 502 GLY ASN ARG ASP ASN ASP THR ALA ASN TYR LEU ALA LEU SEQRES 21 B 502 SER LEU GLU MET ASP ASP PHE ILE ARG SER VAL VAL ALA SEQRES 22 B 502 ILE ALA ASP TYR VAL LYS ALA LYS LYS ARG SER LYS LYS SEQRES 23 B 502 THR ILE HIS LEU SER PHE ASP GLU TRP ASN VAL TRP TYR SEQRES 24 B 502 HIS SER ASN GLU ALA ASP LYS LEU ILE GLU PRO TRP THR SEQRES 25 B 502 VAL ALA PRO PRO LEU LEU GLU ASP ILE TYR ASN PHE GLU SEQRES 26 B 502 ASP ALA LEU LEU VAL GLY CYS MET LEU ILE THR LEU MET SEQRES 27 B 502 LYS HIS ALA ASP ARG VAL LYS ILE ALA CYS LEU ALA GLN SEQRES 28 B 502 LEU VAL ASN VAL ILE ALA PRO ILE MET THR GLU LYS ASN SEQRES 29 B 502 GLY PRO ALA TRP LYS GLN THR ILE TYR TYR PRO PHE MET SEQRES 30 B 502 HIS ALA SER VAL TYR GLY ARG GLY VAL ALA LEU HIS PRO SEQRES 31 B 502 VAL ILE SER SER PRO LYS TYR ASP SER LYS ASP PHE THR SEQRES 32 B 502 ASP VAL PRO TYR LEU GLU SER ILE ALA VAL TYR ASN GLU SEQRES 33 B 502 GLU LYS GLU GLU VAL THR ILE PHE ALA VAL ASN ARG ASP SEQRES 34 B 502 MET GLU ASP ALA LEU LEU LEU GLU CYS ASP VAL ARG SER SEQRES 35 B 502 PHE GLU ASP TYR ARG VAL ILE GLU HIS ILE VAL LEU GLU SEQRES 36 B 502 HIS ASP ASN VAL LYS GLN THR ASN SER ALA GLN SER SER SEQRES 37 B 502 PRO VAL VAL PRO HIS ARG ASN GLY ASP ALA GLN LEU SER SEQRES 38 B 502 ASP ARG LYS VAL SER ALA THR LEU PRO LYS LEU SER TRP SEQRES 39 B 502 ASN VAL ILE ARG LEU GLY LYS ARG HET AHR A 550 9 HET AHR B 550 9 HETNAM AHR ALPHA-L-ARABINOFURANOSE HETSYN AHR ALPHA-L-ARABINOSE; L-ARABINOSE; ARABINOSE FORMUL 3 AHR 2(C5 H10 O5) FORMUL 5 HOH *767(H2 O) HELIX 1 1 ASP A 20 TYR A 24 5 5 HELIX 2 2 ARG A 53 GLN A 64 1 12 HELIX 3 3 GLY A 73 TYR A 79 5 7 HELIX 4 4 ASN A 80 VAL A 85 5 6 HELIX 5 5 PRO A 87 ARG A 91 5 5 HELIX 6 6 GLY A 108 GLY A 120 1 13 HELIX 7 7 GLY A 133 HIS A 146 1 14 HELIX 8 8 SER A 150 HIS A 159 1 10 HELIX 9 9 THR A 186 ASP A 205 1 20 HELIX 10 10 ALA A 224 TYR A 235 1 12 HELIX 11 11 ASP A 236 VAL A 238 5 3 HELIX 12 12 ASP A 253 ALA A 259 1 7 HELIX 13 13 LEU A 260 ARG A 283 1 24 HELIX 14 14 SER A 301 LYS A 306 1 6 HELIX 15 15 ASN A 323 HIS A 340 1 18 HELIX 16 16 ILE A 372 GLY A 383 1 12 HELIX 17 17 ASP B 20 TYR B 24 5 5 HELIX 18 18 ARG B 53 GLN B 64 1 12 HELIX 19 19 GLY B 73 TYR B 79 5 7 HELIX 20 20 ASN B 80 VAL B 85 5 6 HELIX 21 21 PRO B 87 ARG B 91 5 5 HELIX 22 22 GLY B 108 GLY B 120 1 13 HELIX 23 23 GLY B 133 HIS B 146 1 14 HELIX 24 24 SER B 150 HIS B 159 1 10 HELIX 25 25 THR B 186 ASP B 205 1 20 HELIX 26 26 ALA B 224 TYR B 235 1 12 HELIX 27 27 ASP B 236 VAL B 238 5 3 HELIX 28 28 ASP B 253 LEU B 258 1 6 HELIX 29 29 ALA B 259 ARG B 283 1 25 HELIX 30 30 SER B 301 LYS B 306 1 6 HELIX 31 31 ASN B 323 HIS B 340 1 18 HELIX 32 32 ILE B 372 GLY B 383 1 12 SHEET 1 A 5 VAL A 391 SER A 393 0 SHEET 2 A 5 ALA A 6 ILE A 9 -1 N THR A 7 O SER A 393 SHEET 3 A 5 LEU A 434 ASP A 439 1 O ASP A 439 N MET A 8 SHEET 4 A 5 LYS A 484 LEU A 489 -1 O LEU A 489 N LEU A 434 SHEET 5 A 5 GLN A 479 SER A 481 -1 N GLN A 479 O SER A 486 SHEET 1 B 6 LYS A 15 GLU A 18 0 SHEET 2 B 6 VAL A 386 LEU A 388 -1 O ALA A 387 N ALA A 17 SHEET 3 B 6 LEU A 408 ASN A 415 -1 O TYR A 414 N VAL A 386 SHEET 4 B 6 GLU A 420 ASN A 427 -1 O VAL A 426 N GLU A 409 SHEET 5 B 6 SER A 493 GLY A 500 -1 O ILE A 497 N ILE A 423 SHEET 6 B 6 ARG A 447 LEU A 454 -1 N ILE A 452 O VAL A 496 SHEET 1 C 9 GLY A 25 PHE A 27 0 SHEET 2 C 9 ILE A 67 TYR A 70 1 O ARG A 69 N SER A 26 SHEET 3 C 9 GLU A 122 VAL A 127 1 O ASN A 124 N TYR A 70 SHEET 4 C 9 THR A 169 LEU A 172 1 O CYS A 171 N MET A 125 SHEET 5 C 9 GLU A 209 VAL A 212 1 O VAL A 211 N LEU A 172 SHEET 6 C 9 TYR A 240 TYR A 247 1 O TYR A 240 N VAL A 212 SHEET 7 C 9 HIS A 289 VAL A 297 1 O HIS A 289 N ILE A 241 SHEET 8 C 9 VAL A 344 ALA A 350 1 O ILE A 346 N PHE A 292 SHEET 9 C 9 GLY A 25 PHE A 27 1 N GLY A 25 O LEU A 349 SHEET 1 D 2 ARG A 94 ASP A 96 0 SHEET 2 D 2 SER A 101 GLU A 103 -1 O GLU A 103 N ARG A 94 SHEET 1 E 2 ILE A 359 THR A 361 0 SHEET 2 E 2 ALA A 367 LYS A 369 -1 O TRP A 368 N MET A 360 SHEET 1 F 2 LYS A 396 TYR A 397 0 SHEET 2 F 2 VAL A 405 PRO A 406 -1 O VAL A 405 N TYR A 397 SHEET 1 G 5 VAL B 391 SER B 393 0 SHEET 2 G 5 ALA B 6 ILE B 9 -1 N ILE B 9 O VAL B 391 SHEET 3 G 5 LEU B 434 ASP B 439 1 O GLU B 437 N ALA B 6 SHEET 4 G 5 LYS B 484 LEU B 489 -1 O VAL B 485 N CYS B 438 SHEET 5 G 5 GLN B 479 LEU B 480 -1 N GLN B 479 O SER B 486 SHEET 1 H 6 LYS B 15 GLU B 18 0 SHEET 2 H 6 VAL B 386 LEU B 388 -1 O ALA B 387 N ALA B 17 SHEET 3 H 6 LEU B 408 ASN B 415 -1 O TYR B 414 N VAL B 386 SHEET 4 H 6 GLU B 420 ASN B 427 -1 O GLU B 420 N ASN B 415 SHEET 5 H 6 SER B 493 GLY B 500 -1 O ASN B 495 N ALA B 425 SHEET 6 H 6 ARG B 447 GLU B 455 -1 N ARG B 447 O GLY B 500 SHEET 1 I 9 GLY B 25 PHE B 27 0 SHEET 2 I 9 ILE B 67 TYR B 70 1 O ARG B 69 N SER B 26 SHEET 3 I 9 GLU B 122 VAL B 127 1 O ASN B 124 N ILE B 68 SHEET 4 I 9 THR B 169 LEU B 172 1 O CYS B 171 N VAL B 127 SHEET 5 I 9 GLU B 209 VAL B 212 1 O GLU B 209 N TRP B 170 SHEET 6 I 9 TYR B 240 TYR B 247 1 O TYR B 240 N VAL B 212 SHEET 7 I 9 HIS B 289 VAL B 297 1 O HIS B 289 N ILE B 241 SHEET 8 I 9 VAL B 344 ALA B 350 1 O ILE B 346 N PHE B 292 SHEET 9 I 9 GLY B 25 PHE B 27 1 N GLY B 25 O LEU B 349 SHEET 1 J 2 ARG B 94 ASP B 96 0 SHEET 2 J 2 SER B 101 GLU B 103 -1 O SER B 101 N ASP B 96 SHEET 1 K 2 ILE B 359 THR B 361 0 SHEET 2 K 2 ALA B 367 LYS B 369 -1 O TRP B 368 N MET B 360 SHEET 1 L 2 LYS B 396 TYR B 397 0 SHEET 2 L 2 VAL B 405 PRO B 406 -1 O VAL B 405 N TYR B 397 LINK OE1 GLU A 294 C1 AHR A 550 1555 1555 1.54 LINK OE1 GLU B 294 C1 AHR B 550 1555 1555 1.53 CISPEP 1 TYR A 70 PRO A 71 0 -1.87 CISPEP 2 GLY A 72 GLY A 73 0 5.00 CISPEP 3 ALA A 350 GLN A 351 0 -2.97 CISPEP 4 TYR B 70 PRO B 71 0 -5.73 CISPEP 5 GLY B 72 GLY B 73 0 3.58 CISPEP 6 ALA B 350 GLN B 351 0 -1.40 CRYST1 179.430 179.430 100.231 90.00 90.00 120.00 H 3 18 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 0.005573 0.003218 0.000000 0.00000 SCALE2 0.000000 0.006435 0.000000 0.00000 SCALE3 0.000000 0.000000 0.009977 0.00000