HEADER HYDROLASE 01-APR-11 3RDK TITLE PROTEIN CRYSTAL STRUCTURE OF XYLANASE A1 OF PAENIBACILLUS SP. JDR-2 COMPND MOL_ID: 1; COMPND 2 MOLECULE: ENDO-1,4-BETA-XYLANASE; COMPND 3 CHAIN: A, B; COMPND 4 FRAGMENT: CATALYTIC DOMAIN; COMPND 5 EC: 3.2.1.8; COMPND 6 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: PAENIBACILLUS SP. JDR-2; SOURCE 3 ORGANISM_TAXID: 324057; SOURCE 4 STRAIN: JDR-2; SOURCE 5 GENE: PJDR2_0221; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PETXYNA1CD KEYWDS (BETA/ALPHA)8 BARREL, GH10, XYLANASE, HYDROLASE EXPDTA X-RAY DIFFRACTION AUTHOR E.POZHARSKI,F.J.ST JOHN REVDAT 6 21-FEB-24 3RDK 1 HETSYN REVDAT 5 29-JUL-20 3RDK 1 COMPND REMARK SEQADV HETNAM REVDAT 5 2 1 LINK SITE ATOM REVDAT 4 25-OCT-17 3RDK 1 REMARK REVDAT 3 14-NOV-12 3RDK 1 JRNL REVDAT 2 10-OCT-12 3RDK 1 JRNL REVDAT 1 04-APR-12 3RDK 0 JRNL AUTH F.J.ST JOHN,J.F.PRESTON,E.POZHARSKI JRNL TITL NOVEL STRUCTURAL FEATURES OF XYLANASE A1 FROM PAENIBACILLUS JRNL TITL 2 SP. JDR-2. JRNL REF J.STRUCT.BIOL. V. 180 303 2012 JRNL REFN ISSN 1047-8477 JRNL PMID 23000703 JRNL DOI 10.1016/J.JSB.2012.09.007 REMARK 2 REMARK 2 RESOLUTION. 1.49 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.5.0102 REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN REMARK 3 REMARK 3 REFINEMENT TARGET : MAXIMUM LIKELIHOOD REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.49 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 117.04 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 99.7 REMARK 3 NUMBER OF REFLECTIONS : 140983 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) : 0.147 REMARK 3 R VALUE (WORKING SET) : 0.145 REMARK 3 FREE R VALUE : 0.184 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 7447 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) : 1.49 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.53 REMARK 3 REFLECTION IN BIN (WORKING SET) : 10358 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 99.94 REMARK 3 BIN R VALUE (WORKING SET) : 0.3170 REMARK 3 BIN FREE R VALUE SET COUNT : 530 REMARK 3 BIN FREE R VALUE : 0.3360 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 5300 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 140 REMARK 3 SOLVENT ATOMS : 720 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 30.79 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.75000 REMARK 3 B22 (A**2) : 0.75000 REMARK 3 B33 (A**2) : -1.50000 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): 0.061 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.059 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.045 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 2.776 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.980 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.971 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 5778 ; 0.029 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 7877 ; 2.321 ; 1.965 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 719 ; 6.963 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 295 ;37.002 ;25.797 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 953 ;13.920 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 19 ;12.646 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 870 ; 0.188 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 4441 ; 0.013 ; 0.021 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) OTHERS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 MAIN-CHAIN BOND REFINED ATOMS (A**2): 3436 ; 2.652 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 5561 ; 3.612 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 2342 ; 5.479 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 2299 ; 7.428 ; 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): 5778 ; 3.164 ; 3.000 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 : 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 3RDK COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 23-MAY-11. REMARK 100 THE DEPOSITION ID IS D_1000064799. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 07-FEB-09 REMARK 200 TEMPERATURE (KELVIN) : 105 REMARK 200 PH : 7.1 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SSRL REMARK 200 BEAMLINE : BL12-2 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.979 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MARMOSAIC 325 MM CCD REMARK 200 INTENSITY-INTEGRATION SOFTWARE : NULL REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 148538 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.490 REMARK 200 RESOLUTION RANGE LOW (A) : 117.040 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : NULL REMARK 200 DATA REDUNDANCY : 8.800 REMARK 200 R MERGE (I) : 0.04700 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 33.7000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : NULL REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : NULL REMARK 200 COMPLETENESS FOR SHELL (%) : NULL 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: PHASER REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 58.22 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.94 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: PROTEIN TO MOTHER LIQUOR AT 2:1 RATIO. REMARK 280 MOTHER LIQUOR, 18% PEG 3350, 100MM HEPES, 200MM MGCL2, PH 7.1, REMARK 280 VAPOR DIFFUSION, SITTING DROP, TEMPERATURE 294.5K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 43 21 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,-Y,Z+1/2 REMARK 290 3555 -Y+1/2,X+1/2,Z+3/4 REMARK 290 4555 Y+1/2,-X+1/2,Z+1/4 REMARK 290 5555 -X+1/2,Y+1/2,-Z+3/4 REMARK 290 6555 X+1/2,-Y+1/2,-Z+1/4 REMARK 290 7555 Y,X,-Z REMARK 290 8555 -Y,-X,-Z+1/2 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 33.17750 REMARK 290 SMTRY1 3 0.000000 -1.000000 0.000000 82.55650 REMARK 290 SMTRY2 3 1.000000 0.000000 0.000000 82.55650 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 49.76625 REMARK 290 SMTRY1 4 0.000000 1.000000 0.000000 82.55650 REMARK 290 SMTRY2 4 -1.000000 0.000000 0.000000 82.55650 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 16.58875 REMARK 290 SMTRY1 5 -1.000000 0.000000 0.000000 82.55650 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 82.55650 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 49.76625 REMARK 290 SMTRY1 6 1.000000 0.000000 0.000000 82.55650 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 82.55650 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 16.58875 REMARK 290 SMTRY1 7 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY2 7 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 8 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY2 8 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 33.17750 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 300 REMARK: AUTHORS STATE THAT GEL FILTRATION CHROMATOGRAPHY INDICATES REMARK 300 XYNA1CD IS MONOMERIC. 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 GLY A 1 REMARK 465 SER A 2 REMARK 465 HIS A 3 REMARK 465 MET A 4 REMARK 465 PRO A 338 REMARK 465 ALA A 339 REMARK 465 GLU A 340 REMARK 465 GLN A 341 REMARK 465 GLY B 1 REMARK 465 SER B 2 REMARK 465 HIS B 3 REMARK 465 PRO B 338 REMARK 465 ALA B 339 REMARK 465 GLU B 340 REMARK 465 GLN B 341 REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS IN SAME ASYMMETRIC UNIT REMARK 500 REMARK 500 THE FOLLOWING ATOMS ARE IN CLOSE CONTACT. REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI DISTANCE REMARK 500 O HOH B 446 O HOH B 654 2.10 REMARK 500 O4 XYP D 2 O5 XYP D 3 2.12 REMARK 500 O4 XYP C 2 O5 XYP C 3 2.16 REMARK 500 NE2 GLN B 120 O HOH B 475 2.19 REMARK 500 OE2 GLU B 24 O HOH B 359 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 CL CL A 351 CL CL A 351 7555 1.70 REMARK 500 O HOH B 525 O HOH B 525 7555 2.09 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 GLU A 27 CB GLU A 27 CG -0.122 REMARK 500 VAL A 41 CB VAL A 41 CG2 -0.142 REMARK 500 ASN A 128 CB ASN A 128 CG 0.142 REMARK 500 GLU A 177 CD GLU A 177 OE2 0.075 REMARK 500 GLU A 294 CG GLU A 294 CD 0.099 REMARK 500 GLU A 294 CD GLU A 294 OE1 0.070 REMARK 500 TYR A 332 CE2 TYR A 332 CD2 0.100 REMARK 500 LYS B 223 CE LYS B 223 NZ 0.186 REMARK 500 GLU B 262 CD GLU B 262 OE1 0.067 REMARK 500 TYR B 283 CD1 TYR B 283 CE1 0.097 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 30 NE - CZ - NH1 ANGL. DEV. = -3.8 DEGREES REMARK 500 LEU A 112 CB - CG - CD1 ANGL. DEV. = 11.2 DEGREES REMARK 500 ARG A 176 NE - CZ - NH2 ANGL. DEV. = -3.3 DEGREES REMARK 500 LYS A 223 CD - CE - NZ ANGL. DEV. = -14.0 DEGREES REMARK 500 LEU A 273 CB - CG - CD2 ANGL. DEV. = -10.8 DEGREES REMARK 500 ARG A 301 NE - CZ - NH2 ANGL. DEV. = -3.2 DEGREES REMARK 500 ASP A 337 N - CA - CB ANGL. DEV. = 11.0 DEGREES REMARK 500 ARG B 116 NE - CZ - NH1 ANGL. DEV. = 3.4 DEGREES REMARK 500 ASP B 197 CB - CG - OD1 ANGL. DEV. = 6.5 DEGREES REMARK 500 ASP B 211 CB - CG - OD1 ANGL. DEV. = 5.6 DEGREES REMARK 500 ASP B 264 CB - CG - OD2 ANGL. DEV. = 5.8 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 ASN A 45 -18.82 -140.63 REMARK 500 ASN A 100 30.95 -62.56 REMARK 500 ASN A 101 37.35 33.19 REMARK 500 ASN A 143 56.22 38.44 REMARK 500 GLU A 262 51.09 -147.18 REMARK 500 LEU A 320 -165.95 -116.99 REMARK 500 ASN B 45 -17.63 -144.11 REMARK 500 ASN B 143 59.34 32.67 REMARK 500 ASN B 146 65.93 -117.07 REMARK 500 GLU B 262 51.86 -143.86 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 ILE A 336 ASP A 337 130.82 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 MG A 354 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ILE A 21 O REMARK 620 2 GOL A 347 O2 118.5 REMARK 620 3 GOL A 347 O2 115.9 22.5 REMARK 620 N 1 2 DBREF 3RDK A 5 338 UNP C6CRV0 C6CRV0_PAESJ 518 851 DBREF 3RDK B 5 338 UNP C6CRV0 C6CRV0_PAESJ 518 851 SEQADV 3RDK GLY A 1 UNP C6CRV0 EXPRESSION TAG SEQADV 3RDK SER A 2 UNP C6CRV0 EXPRESSION TAG SEQADV 3RDK HIS A 3 UNP C6CRV0 EXPRESSION TAG SEQADV 3RDK MET A 4 UNP C6CRV0 EXPRESSION TAG SEQADV 3RDK ALA A 339 UNP C6CRV0 EXPRESSION TAG SEQADV 3RDK GLU A 340 UNP C6CRV0 EXPRESSION TAG SEQADV 3RDK GLN A 341 UNP C6CRV0 EXPRESSION TAG SEQADV 3RDK GLY B 1 UNP C6CRV0 EXPRESSION TAG SEQADV 3RDK SER B 2 UNP C6CRV0 EXPRESSION TAG SEQADV 3RDK HIS B 3 UNP C6CRV0 EXPRESSION TAG SEQADV 3RDK MET B 4 UNP C6CRV0 EXPRESSION TAG SEQADV 3RDK ALA B 339 UNP C6CRV0 EXPRESSION TAG SEQADV 3RDK GLU B 340 UNP C6CRV0 EXPRESSION TAG SEQADV 3RDK GLN B 341 UNP C6CRV0 EXPRESSION TAG SEQRES 1 A 341 GLY SER HIS MET ALA PRO LEU LYS ASP VAL TYR LYS ASN SEQRES 2 A 341 ASP PHE LEU ILE GLY ASN ALA ILE SER ALA GLU ASP LEU SEQRES 3 A 341 GLU GLY THR ARG LEU GLU LEU LEU LYS MET HIS HIS ASP SEQRES 4 A 341 VAL VAL THR ALA GLY ASN ALA MET LYS PRO ASP ALA LEU SEQRES 5 A 341 GLN PRO THR LYS GLY ASN PHE THR PHE THR ALA ALA ASP SEQRES 6 A 341 ALA MET ILE ASP LYS VAL LEU ALA GLU GLY MET LYS MET SEQRES 7 A 341 HIS GLY HIS VAL LEU VAL TRP HIS GLN GLN SER PRO ALA SEQRES 8 A 341 TRP LEU ASN THR LYS LYS ASP ASP ASN ASN ASN THR VAL SEQRES 9 A 341 PRO LEU GLY ARG ASP GLU ALA LEU ASP ASN LEU ARG THR SEQRES 10 A 341 HIS ILE GLN THR VAL MET LYS HIS PHE GLY ASN LYS VAL SEQRES 11 A 341 ILE SER TRP ASP VAL VAL ASN GLU ALA MET ASN ASP ASN SEQRES 12 A 341 PRO SER ASN PRO ALA ASP TYR LYS ALA SER LEU ARG GLN SEQRES 13 A 341 THR PRO TRP TYR GLN ALA ILE GLY SER ASP TYR VAL GLU SEQRES 14 A 341 GLN ALA PHE LEU ALA ALA ARG GLU VAL LEU ASP GLU ASN SEQRES 15 A 341 PRO SER TRP ASN ILE LYS LEU TYR TYR ASN ASP TYR ASN SEQRES 16 A 341 GLU ASP ASN GLN ASN LYS ALA THR ALA ILE TYR ASN MET SEQRES 17 A 341 VAL LYS ASP ILE ASN ASP ARG TYR ALA ALA ALA HIS ASN SEQRES 18 A 341 GLY LYS LEU LEU ILE ASP GLY VAL GLY MET GLN GLY HIS SEQRES 19 A 341 TYR ASN ILE ASN THR ASN PRO ASP ASN VAL LYS LEU SER SEQRES 20 A 341 LEU GLU LYS PHE ILE SER LEU GLY VAL GLU VAL SER VAL SEQRES 21 A 341 SER GLU LEU ASP VAL THR ALA GLY ASN ASN TYR THR LEU SEQRES 22 A 341 PRO GLU ASN LEU ALA VAL GLY GLN ALA TYR LEU TYR ALA SEQRES 23 A 341 GLN LEU PHE LYS LEU TYR LYS GLU HIS ALA ASP HIS ILE SEQRES 24 A 341 ALA ARG VAL THR PHE TRP GLY MET ASP ASP ASN THR SER SEQRES 25 A 341 TRP ARG ALA GLU ASN ASN PRO LEU LEU PHE ASP LYS ASN SEQRES 26 A 341 LEU GLN ALA LYS PRO ALA TYR TYR GLY VAL ILE ASP PRO SEQRES 27 A 341 ALA GLU GLN SEQRES 1 B 341 GLY SER HIS MET ALA PRO LEU LYS ASP VAL TYR LYS ASN SEQRES 2 B 341 ASP PHE LEU ILE GLY ASN ALA ILE SER ALA GLU ASP LEU SEQRES 3 B 341 GLU GLY THR ARG LEU GLU LEU LEU LYS MET HIS HIS ASP SEQRES 4 B 341 VAL VAL THR ALA GLY ASN ALA MET LYS PRO ASP ALA LEU SEQRES 5 B 341 GLN PRO THR LYS GLY ASN PHE THR PHE THR ALA ALA ASP SEQRES 6 B 341 ALA MET ILE ASP LYS VAL LEU ALA GLU GLY MET LYS MET SEQRES 7 B 341 HIS GLY HIS VAL LEU VAL TRP HIS GLN GLN SER PRO ALA SEQRES 8 B 341 TRP LEU ASN THR LYS LYS ASP ASP ASN ASN ASN THR VAL SEQRES 9 B 341 PRO LEU GLY ARG ASP GLU ALA LEU ASP ASN LEU ARG THR SEQRES 10 B 341 HIS ILE GLN THR VAL MET LYS HIS PHE GLY ASN LYS VAL SEQRES 11 B 341 ILE SER TRP ASP VAL VAL ASN GLU ALA MET ASN ASP ASN SEQRES 12 B 341 PRO SER ASN PRO ALA ASP TYR LYS ALA SER LEU ARG GLN SEQRES 13 B 341 THR PRO TRP TYR GLN ALA ILE GLY SER ASP TYR VAL GLU SEQRES 14 B 341 GLN ALA PHE LEU ALA ALA ARG GLU VAL LEU ASP GLU ASN SEQRES 15 B 341 PRO SER TRP ASN ILE LYS LEU TYR TYR ASN ASP TYR ASN SEQRES 16 B 341 GLU ASP ASN GLN ASN LYS ALA THR ALA ILE TYR ASN MET SEQRES 17 B 341 VAL LYS ASP ILE ASN ASP ARG TYR ALA ALA ALA HIS ASN SEQRES 18 B 341 GLY LYS LEU LEU ILE ASP GLY VAL GLY MET GLN GLY HIS SEQRES 19 B 341 TYR ASN ILE ASN THR ASN PRO ASP ASN VAL LYS LEU SER SEQRES 20 B 341 LEU GLU LYS PHE ILE SER LEU GLY VAL GLU VAL SER VAL SEQRES 21 B 341 SER GLU LEU ASP VAL THR ALA GLY ASN ASN TYR THR LEU SEQRES 22 B 341 PRO GLU ASN LEU ALA VAL GLY GLN ALA TYR LEU TYR ALA SEQRES 23 B 341 GLN LEU PHE LYS LEU TYR LYS GLU HIS ALA ASP HIS ILE SEQRES 24 B 341 ALA ARG VAL THR PHE TRP GLY MET ASP ASP ASN THR SER SEQRES 25 B 341 TRP ARG ALA GLU ASN ASN PRO LEU LEU PHE ASP LYS ASN SEQRES 26 B 341 LEU GLN ALA LYS PRO ALA TYR TYR GLY VAL ILE ASP PRO SEQRES 27 B 341 ALA GLU GLN HET XYS C 1 10 HET XYP C 2 9 HET XYP C 3 9 HET GCV C 4 13 HET XYS D 1 10 HET XYP D 2 9 HET XYP D 3 9 HET GCV D 4 13 HET GOL A 346 6 HET GOL A 347 12 HET CL A 348 1 HET GOL A 349 6 HET CL A 350 1 HET CL A 351 1 HET GOL A 352 12 HET GOL A 353 6 HET MG A 354 1 HET GOL B 346 6 HET GOL B 347 12 HET GOL B 348 6 HET GOL B 349 6 HETNAM XYS ALPHA-D-XYLOPYRANOSE HETNAM XYP BETA-D-XYLOPYRANOSE HETNAM GCV 4-O-METHYL-ALPHA-D-GLUCOPYRANURONIC ACID HETNAM GOL GLYCEROL HETNAM CL CHLORIDE ION HETNAM MG MAGNESIUM ION HETSYN XYS ALPHA-D-XYLOSE; D-XYLOSE; XYLOSE; XYLOPYRANOSE HETSYN XYP BETA-D-XYLOSE; D-XYLOSE; XYLOSE HETSYN GCV 4-O-METHYL-ALPHA-D-GLUCURONIC ACID; 4-O-METHYL-D- HETSYN 2 GCV GLUCURONIC ACID; 4-O-METHYL-GLUCURONIC ACID HETSYN GOL GLYCERIN; PROPANE-1,2,3-TRIOL FORMUL 3 XYS 2(C5 H10 O5) FORMUL 3 XYP 4(C5 H10 O5) FORMUL 3 GCV 2(C7 H12 O7) FORMUL 5 GOL 9(C3 H8 O3) FORMUL 7 CL 3(CL 1-) FORMUL 13 MG MG 2+ FORMUL 18 HOH *720(H2 O) HELIX 1 1 PRO A 6 TYR A 11 1 6 HELIX 2 2 SER A 22 LEU A 26 5 5 HELIX 3 3 GLU A 27 HIS A 38 1 12 HELIX 4 4 LYS A 48 GLN A 53 1 6 HELIX 5 5 PHE A 61 GLU A 74 1 14 HELIX 6 6 PRO A 90 LEU A 93 5 4 HELIX 7 7 GLY A 107 GLY A 127 1 21 HELIX 8 8 ASN A 128 VAL A 130 5 3 HELIX 9 9 ASP A 149 LEU A 154 1 6 HELIX 10 10 THR A 157 GLY A 164 1 8 HELIX 11 11 ASP A 166 ASN A 182 1 17 HELIX 12 12 ASN A 198 HIS A 220 1 23 HELIX 13 13 ASN A 240 SER A 253 1 14 HELIX 14 14 PRO A 274 HIS A 295 1 22 HELIX 15 15 ASP A 308 SER A 312 5 5 HELIX 16 16 ARG A 314 ASN A 318 5 5 HELIX 17 17 LYS A 329 ASP A 337 1 9 HELIX 18 18 PRO B 6 TYR B 11 1 6 HELIX 19 19 SER B 22 LEU B 26 5 5 HELIX 20 20 GLU B 27 HIS B 38 1 12 HELIX 21 21 LYS B 48 GLN B 53 1 6 HELIX 22 22 PHE B 61 GLU B 74 1 14 HELIX 23 23 PRO B 90 LEU B 93 5 4 HELIX 24 24 GLY B 107 GLY B 127 1 21 HELIX 25 25 ASN B 128 VAL B 130 5 3 HELIX 26 26 ASP B 149 LEU B 154 1 6 HELIX 27 27 THR B 157 GLY B 164 1 8 HELIX 28 28 ASP B 166 ASN B 182 1 17 HELIX 29 29 ASN B 198 HIS B 220 1 23 HELIX 30 30 ASN B 240 SER B 253 1 14 HELIX 31 31 PRO B 274 HIS B 295 1 22 HELIX 32 32 ASP B 308 SER B 312 5 5 HELIX 33 33 ARG B 314 ASN B 318 5 5 HELIX 34 34 LYS B 329 ASP B 337 1 9 SHEET 1 A10 HIS A 234 ASN A 236 0 SHEET 2 A10 GLU A 257 THR A 266 1 O THR A 266 N TYR A 235 SHEET 3 A10 ILE A 299 PHE A 304 1 O THR A 303 N VAL A 260 SHEET 4 A10 LEU A 16 ILE A 21 1 N GLY A 18 O PHE A 304 SHEET 5 A10 VAL A 40 ALA A 43 1 O THR A 42 N ILE A 21 SHEET 6 A10 LYS A 77 VAL A 84 1 O HIS A 79 N VAL A 41 SHEET 7 A10 SER A 132 ASN A 137 1 O SER A 132 N GLY A 80 SHEET 8 A10 LYS A 188 ASP A 193 1 O TYR A 190 N TRP A 133 SHEET 9 A10 GLY A 228 MET A 231 1 O GLY A 230 N TYR A 191 SHEET 10 A10 GLU A 257 THR A 266 1 O SER A 259 N MET A 231 SHEET 1 B 2 THR A 95 LYS A 97 0 SHEET 2 B 2 THR A 103 PRO A 105 -1 O VAL A 104 N LYS A 96 SHEET 1 C10 HIS B 234 ASN B 236 0 SHEET 2 C10 GLU B 257 THR B 266 1 O ASP B 264 N TYR B 235 SHEET 3 C10 ILE B 299 PHE B 304 1 O THR B 303 N VAL B 260 SHEET 4 C10 LEU B 16 ILE B 21 1 N LEU B 16 O VAL B 302 SHEET 5 C10 VAL B 40 ALA B 43 1 O THR B 42 N ILE B 21 SHEET 6 C10 LYS B 77 VAL B 84 1 O HIS B 79 N VAL B 41 SHEET 7 C10 SER B 132 ASN B 137 1 O SER B 132 N GLY B 80 SHEET 8 C10 LYS B 188 ASP B 193 1 O TYR B 190 N TRP B 133 SHEET 9 C10 GLY B 228 MET B 231 1 O GLY B 230 N TYR B 191 SHEET 10 C10 GLU B 257 THR B 266 1 O SER B 259 N MET B 231 SHEET 1 D 2 THR B 95 LYS B 97 0 SHEET 2 D 2 THR B 103 PRO B 105 -1 O VAL B 104 N LYS B 96 LINK O4 XYS C 1 C1 XYP C 2 1555 1555 1.42 LINK O4 XYP C 2 C1 XYP C 3 1555 1555 1.48 LINK O2 XYP C 3 C1 GCV C 4 1555 1555 1.45 LINK O4 XYS D 1 C1 XYP D 2 1555 1555 1.44 LINK O4 XYP D 2 C1 XYP D 3 1555 1555 1.44 LINK O2 XYP D 3 C1 GCV D 4 1555 1555 1.50 LINK O ILE A 21 MG MG A 354 1555 1555 2.83 LINK O2 BGOL A 347 MG MG A 354 1555 1555 2.65 LINK O2 AGOL A 347 MG MG A 354 1555 1555 2.77 CISPEP 1 HIS A 81 VAL A 82 0 10.60 CISPEP 2 HIS B 81 VAL B 82 0 7.91 CRYST1 165.113 165.113 66.355 90.00 90.00 90.00 P 43 21 2 16 ORIGX1 1.000000 0.000000 0.000000 0.00000 ORIGX2 0.000000 1.000000 0.000000 0.00000 ORIGX3 0.000000 0.000000 1.000000 0.00000 SCALE1 0.006056 0.000000 0.000000 0.00000 SCALE2 0.000000 0.006056 0.000000 0.00000 SCALE3 0.000000 0.000000 0.015070 0.00000