HEADER HYDROLASE 06-MAR-14 4PRW TITLE XYLANASE T6 (XT6) FROM GEOBACILLUS STEAROTHERMOPHILUS IN COMPLEX WITH TITLE 2 XYLOHEXAOSE COMPND MOL_ID: 1; COMPND 2 MOLECULE: ENDO-1,4-BETA-XYLANASE; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: XYLANASE, 1,4-BETA-D-XYLAN XYLANOHYDROLASE; COMPND 5 EC: 3.2.1.8; 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 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 5 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS TIM BARREL, HYDROLASE, CARBOHYDRATE/SUGAR BINDING, EXTRACELLULAR EXPDTA X-RAY DIFFRACTION AUTHOR R.D.DANN,H.V.SOLOMON,S.LANSKY,A.BEN-DAVID,N.LAVID,R.SALAMA,Y.SHOHAM, AUTHOR 2 G.SHOHAM REVDAT 3 08-NOV-23 4PRW 1 HETSYN LINK REVDAT 2 29-JUL-20 4PRW 1 COMPND REMARK SEQADV HETNAM REVDAT 2 2 1 LINK SITE ATOM REVDAT 1 11-MAR-15 4PRW 0 JRNL AUTH R.D.DANN,H.V.SOLOMON,S.LANSKY,A.BEN-DAVID,N.LAVID,R.SALAMA, JRNL AUTH 2 Y.SHOHAM,G.SHOHAM JRNL TITL XYLANASE T6 (XT6) FROM GEOBACILLUS STEAROTHERMOPHILUS IN JRNL TITL 2 COMPLEX WITH XYLOHEXAOSE JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 1.80 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.7.0032 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) : 1.80 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 43.07 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 89.4 REMARK 3 NUMBER OF REFLECTIONS : 45528 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) : 0.153 REMARK 3 R VALUE (WORKING SET) : 0.151 REMARK 3 FREE R VALUE : 0.194 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 2449 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) : 1.80 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.85 REMARK 3 REFLECTION IN BIN (WORKING SET) : 1607 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 42.78 REMARK 3 BIN R VALUE (WORKING SET) : 0.2680 REMARK 3 BIN FREE R VALUE SET COUNT : 78 REMARK 3 BIN FREE R VALUE : 0.3350 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 3036 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 68 REMARK 3 SOLVENT ATOMS : 477 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 25.62 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.88000 REMARK 3 B22 (A**2) : 0.40000 REMARK 3 B33 (A**2) : -0.71000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : -0.20000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.100 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.106 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.065 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 2.145 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.969 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.951 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 3308 ; 0.021 ; 0.019 REMARK 3 BOND LENGTHS OTHERS (A): 3087 ; 0.001 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 4511 ; 2.158 ; 1.962 REMARK 3 BOND ANGLES OTHERS (DEGREES): 7134 ; 1.011 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 393 ; 6.779 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 170 ;34.803 ;25.176 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 560 ;14.615 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 14 ;16.001 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 481 ; 0.153 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 3768 ; 0.011 ; 0.021 REMARK 3 GENERAL PLANES OTHERS (A): 774 ; 0.003 ; 0.020 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): 1549 ; 2.235 ; 2.151 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 1549 ; 2.224 ; 2.151 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 1949 ; 3.107 ; 3.212 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): 1950 ; 3.113 ; 3.216 REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1759 ; 3.663 ; 2.579 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): 1756 ; 3.633 ; 2.577 REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): 2557 ; 5.476 ; 3.713 REMARK 3 LONG RANGE B REFINED ATOMS (A**2): 4349 ;10.432 ;20.638 REMARK 3 LONG RANGE B OTHER ATOMS (A**2): 4057 ; 9.862 ;19.461 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 : 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 4PRW COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 24-MAR-14. REMARK 100 THE DEPOSITION ID IS D_1000085143. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 10-SEP-13 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 6.7 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 REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.54 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : IMAGE PLATE REMARK 200 DETECTOR MANUFACTURER : RIGAKU RAXIS HTC REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-3000 REMARK 200 DATA SCALING SOFTWARE : HKL-3000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 45528 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.800 REMARK 200 RESOLUTION RANGE LOW (A) : 43.070 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 89.4 REMARK 200 DATA REDUNDANCY : 4.600 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) : 1.80 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.90 REMARK 200 COMPLETENESS FOR SHELL (%) : 49.0 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: REFMAC 5.7.0032 REMARK 200 STARTING MODEL: 1R86 REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 63.09 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.33 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 30% PEG 4K, 0.01M ZNCL2, 0.1M MES REMARK 280 BUFFER, PH 6.7, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: C 1 2 1 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+1/2,Y+1/2,Z REMARK 290 4555 -X+1/2,Y+1/2,-Z REMARK 290 REMARK 290 WHERE NNN -> OPERATOR NUMBER REMARK 290 MMM -> TRANSLATION VECTOR REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY TRANSFORMATIONS REMARK 290 THE FOLLOWING TRANSFORMATIONS OPERATE ON THE ATOM/HETATM REMARK 290 RECORDS IN THIS ENTRY TO PRODUCE CRYSTALLOGRAPHICALLY REMARK 290 RELATED MOLECULES. REMARK 290 SMTRY1 1 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 1 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 1 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 2 -1.000000 0.000000 0.000000 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 60.90000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 30.83500 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 60.90000 REMARK 290 SMTRY2 4 0.000000 1.000000 0.000000 30.83500 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 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: PISA 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 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 A 506 LIES ON A SPECIAL POSITION. REMARK 375 HOH A 647 LIES ON A SPECIAL POSITION. REMARK 375 HOH A 704 LIES ON A SPECIAL POSITION. REMARK 375 HOH A 775 LIES ON A SPECIAL POSITION. REMARK 375 HOH A 808 LIES ON A SPECIAL POSITION. REMARK 375 HOH A 810 LIES ON A SPECIAL POSITION. REMARK 375 HOH A 883 LIES ON A SPECIAL POSITION. 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 LYS A 1 REMARK 465 ASN A 2 REMARK 465 ALA A 3 REMARK 465 ASP A 4 REMARK 465 SER A 5 REMARK 465 TYR A 6 REMARK 465 ALA A 7 REMARK 465 LYS A 8 REMARK 470 REMARK 470 MISSING ATOM REMARK 470 THE FOLLOWING RESIDUES HAVE MISSING ATOMS (M=MODEL NUMBER; REMARK 470 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 470 I=INSERTION CODE): REMARK 470 M RES CSSEQI ATOMS REMARK 470 LYS A 114 CG CD CE NZ 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 A 656 O HOH A 958 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 ALA A 348 C LYS A 349 N 0.166 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 342 CB - CG - OD1 ANGL. DEV. = 5.5 DEGREES REMARK 500 ASP A 377 CB - CG - OD1 ANGL. DEV. = 6.7 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 ASN A 59 -31.34 -135.37 REMARK 500 ASN A 169 54.54 -93.53 REMARK 500 GLU A 265 47.24 -140.93 REMARK 500 REMARK 500 REMARK: NULL REMARK 620 REMARK 620 METAL COORDINATION REMARK 620 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 620 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE): REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN A 409 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A 11 NE2 REMARK 620 2 ASP A 365 OD2 120.5 REMARK 620 N 1 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN A 408 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 21 OD2 REMARK 620 2 HOH A 550 O 93.1 REMARK 620 3 HOH A 615 O 91.3 175.5 REMARK 620 4 HOH A 771 O 92.2 89.9 89.5 REMARK 620 5 HOH A 809 O 179.6 87.0 88.5 88.1 REMARK 620 6 HOH A 954 O 90.9 89.8 90.6 176.9 88.8 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN A 415 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU A 27 O REMARK 620 2 SER A 307 O 100.8 REMARK 620 3 ILE A 310 O 94.3 83.8 REMARK 620 4 HOH A 551 O 170.0 89.2 86.0 REMARK 620 5 HOH A 576 O 89.1 167.4 103.5 81.2 REMARK 620 N 1 2 3 4 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN A 413 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU A 58 OE2 REMARK 620 2 GLU A 58 OE1 54.1 REMARK 620 3 HIS A 322 NE2 101.6 122.2 REMARK 620 4 HOH A 961 O 104.7 125.3 110.6 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN A 411 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 282 OD2 REMARK 620 2 HOH A 672 O 73.2 REMARK 620 3 HOH A 959 O 100.7 164.4 REMARK 620 4 HOH A 963 O 106.1 78.9 89.3 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN A 407 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 297 OD1 REMARK 620 2 ALA A 374 O 96.8 REMARK 620 3 ASP A 377 OD1 150.9 84.8 REMARK 620 4 LYS A 379 O 90.0 171.5 86.8 REMARK 620 5 HOH A 585 O 77.3 90.5 73.6 85.9 REMARK 620 6 HOH A 953 O 139.4 91.9 69.3 86.3 142.4 REMARK 620 7 HOH A 957 O 74.1 90.5 135.1 96.4 151.3 66.2 REMARK 620 N 1 2 3 4 5 6 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1R86 RELATED DB: PDB REMARK 900 RELATED ID: 1HIZ RELATED DB: PDB REMARK 900 RELATED ID: 3MMD RELATED DB: PDB REMARK 900 RELATED ID: 1R85 RELATED DB: PDB REMARK 900 RELATED ID: 1R87 RELATED DB: PDB DBREF 4PRW A 1 379 UNP P40943 XYN1_GEOSE 29 407 SEQADV 4PRW GLN A 159 UNP P40943 GLU 187 ENGINEERED MUTATION SEQRES 1 A 379 LYS ASN ALA ASP SER TYR ALA LYS LYS PRO HIS ILE SER SEQRES 2 A 379 ALA LEU ASN ALA PRO GLN LEU ASP GLN ARG TYR LYS ASN SEQRES 3 A 379 GLU PHE THR ILE GLY ALA ALA VAL GLU PRO TYR GLN LEU SEQRES 4 A 379 GLN ASN GLU LYS ASP VAL GLN MET LEU LYS ARG HIS PHE SEQRES 5 A 379 ASN SER ILE VAL ALA GLU ASN VAL MET LYS PRO ILE SER SEQRES 6 A 379 ILE GLN PRO GLU GLU GLY LYS PHE ASN PHE GLU GLN ALA SEQRES 7 A 379 ASP ARG ILE VAL LYS PHE ALA LYS ALA ASN GLY MET ASP SEQRES 8 A 379 ILE ARG PHE HIS THR LEU VAL TRP HIS SER GLN VAL PRO SEQRES 9 A 379 GLN TRP PHE PHE LEU ASP LYS GLU GLY LYS PRO MET VAL SEQRES 10 A 379 ASN GLU THR ASP PRO VAL LYS ARG GLU GLN ASN LYS GLN SEQRES 11 A 379 LEU LEU LEU LYS ARG LEU GLU THR HIS ILE LYS THR ILE SEQRES 12 A 379 VAL GLU ARG TYR LYS ASP ASP ILE LYS TYR TRP ASP VAL SEQRES 13 A 379 VAL ASN GLN VAL VAL GLY ASP ASP GLY LYS LEU ARG ASN SEQRES 14 A 379 SER PRO TRP TYR GLN ILE ALA GLY ILE ASP TYR ILE LYS SEQRES 15 A 379 VAL ALA PHE GLN ALA ALA ARG LYS TYR GLY GLY ASP ASN SEQRES 16 A 379 ILE LYS LEU TYR MET ASN ASP TYR ASN THR GLU VAL GLU SEQRES 17 A 379 PRO LYS ARG THR ALA LEU TYR ASN LEU VAL LYS GLN LEU SEQRES 18 A 379 LYS GLU GLU GLY VAL PRO ILE ASP GLY ILE GLY HIS GLN SEQRES 19 A 379 SER HIS ILE GLN ILE GLY TRP PRO SER GLU ALA GLU ILE SEQRES 20 A 379 GLU LYS THR ILE ASN MET PHE ALA ALA LEU GLY LEU ASP SEQRES 21 A 379 ASN GLN ILE THR GLU LEU ASP VAL SER MET TYR GLY TRP SEQRES 22 A 379 PRO PRO ARG ALA TYR PRO THR TYR ASP ALA ILE PRO LYS SEQRES 23 A 379 GLN LYS PHE LEU ASP GLN ALA ALA ARG TYR ASP ARG LEU SEQRES 24 A 379 PHE LYS LEU TYR GLU LYS LEU SER ASP LYS ILE SER ASN SEQRES 25 A 379 VAL THR PHE TRP GLY ILE ALA ASP ASN HIS THR TRP LEU SEQRES 26 A 379 ASP SER ARG ALA ASP VAL TYR TYR ASP ALA ASN GLY ASN SEQRES 27 A 379 VAL VAL VAL ASP PRO ASN ALA PRO TYR ALA LYS VAL GLU SEQRES 28 A 379 LYS GLY LYS GLY LYS ASP ALA PRO PHE VAL PHE GLY PRO SEQRES 29 A 379 ASP TYR LYS VAL LYS PRO ALA TYR TRP ALA ILE ILE ASP SEQRES 30 A 379 HIS LYS HET XYP B 1 10 HET XYP B 2 9 HET XYP B 3 9 HET XYP B 4 9 HET XYP B 5 9 HET XYP B 6 9 HET ZN A 407 1 HET ZN A 408 1 HET ZN A 409 1 HET SO4 A 410 5 HET ZN A 411 1 HET CL A 412 1 HET ZN A 413 1 HET CL A 414 1 HET ZN A 415 1 HETNAM XYP BETA-D-XYLOPYRANOSE HETNAM ZN ZINC ION HETNAM SO4 SULFATE ION HETNAM CL CHLORIDE ION HETSYN XYP BETA-D-XYLOSE; D-XYLOSE; XYLOSE FORMUL 2 XYP 6(C5 H10 O5) FORMUL 3 ZN 6(ZN 2+) FORMUL 6 SO4 O4 S 2- FORMUL 8 CL 2(CL 1-) FORMUL 12 HOH *477(H2 O) HELIX 1 1 SER A 13 ALA A 17 5 5 HELIX 2 2 GLN A 19 LYS A 25 1 7 HELIX 3 3 GLU A 35 GLN A 40 5 6 HELIX 4 4 ASN A 41 PHE A 52 1 12 HELIX 5 5 LYS A 62 GLN A 67 1 6 HELIX 6 6 PHE A 75 GLY A 89 1 15 HELIX 7 7 PRO A 104 LEU A 109 5 6 HELIX 8 8 ASP A 121 LYS A 148 1 28 HELIX 9 9 SER A 170 GLY A 177 1 8 HELIX 10 10 ILE A 178 GLY A 193 1 16 HELIX 11 11 PRO A 209 GLU A 224 1 16 HELIX 12 12 SER A 243 LEU A 257 1 15 HELIX 13 13 THR A 280 ILE A 284 5 5 HELIX 14 14 PRO A 285 LEU A 306 1 22 HELIX 15 15 THR A 323 ALA A 329 5 7 HELIX 16 16 LYS A 369 ASP A 377 1 9 SHEET 1 A10 HIS A 236 GLN A 238 0 SHEET 2 A10 ASP A 260 SER A 269 1 O SER A 269 N ILE A 237 SHEET 3 A10 ILE A 310 PHE A 315 1 O THR A 314 N ILE A 263 SHEET 4 A10 THR A 29 VAL A 34 1 N GLY A 31 O PHE A 315 SHEET 5 A10 SER A 54 ALA A 57 1 O VAL A 56 N VAL A 34 SHEET 6 A10 ASP A 91 VAL A 98 1 O ARG A 93 N ILE A 55 SHEET 7 A10 TYR A 153 ASN A 158 1 O ASP A 155 N PHE A 94 SHEET 8 A10 LYS A 197 ASP A 202 1 O TYR A 199 N TRP A 154 SHEET 9 A10 GLY A 230 HIS A 233 1 O GLY A 232 N MET A 200 SHEET 10 A10 ASP A 260 SER A 269 1 O GLN A 262 N HIS A 233 SHEET 1 B 3 VAL A 339 VAL A 340 0 SHEET 2 B 3 VAL A 331 TYR A 333 -1 N TYR A 332 O VAL A 340 SHEET 3 B 3 LYS A 349 GLU A 351 -1 O GLU A 351 N VAL A 331 LINK O4 XYP B 1 C1 XYP B 2 1555 1555 1.44 LINK O4 XYP B 2 C1 XYP B 3 1555 1555 1.44 LINK O4 XYP B 3 C1 XYP B 4 1555 1555 1.44 LINK O4 XYP B 4 C1 XYP B 5 1555 1555 1.45 LINK O4 XYP B 5 C1 XYP B 6 1555 1555 1.44 LINK NE2 HIS A 11 ZN ZN A 409 1555 1555 2.07 LINK OD2 ASP A 21 ZN ZN A 408 1555 1555 2.04 LINK O GLU A 27 ZN ZN A 415 1555 1555 2.25 LINK OE2 GLU A 58 ZN ZN A 413 1555 1555 2.26 LINK OE1 GLU A 58 ZN ZN A 413 1555 1555 2.48 LINK OD2 ASP A 282 ZN ZN A 411 1555 1555 2.09 LINK OD1 ASP A 297 ZN ZN A 407 1555 1555 2.30 LINK O SER A 307 ZN ZN A 415 1555 1555 2.21 LINK O ILE A 310 ZN ZN A 415 1555 1555 2.34 LINK NE2 HIS A 322 ZN ZN A 413 1555 1555 1.96 LINK OD2 ASP A 365 ZN ZN A 409 1555 1555 1.92 LINK O ALA A 374 ZN ZN A 407 1555 1555 2.27 LINK OD1 ASP A 377 ZN ZN A 407 1555 1555 2.34 LINK O LYS A 379 ZN ZN A 407 1555 1555 2.39 LINK ZN ZN A 407 O HOH A 585 1555 1555 2.42 LINK ZN ZN A 407 O HOH A 953 1555 1555 2.43 LINK ZN ZN A 407 O HOH A 957 1555 1555 2.36 LINK ZN ZN A 408 O HOH A 550 1555 1555 2.16 LINK ZN ZN A 408 O HOH A 615 1555 1555 2.13 LINK ZN ZN A 408 O HOH A 771 1555 1555 2.09 LINK ZN ZN A 408 O HOH A 809 1555 1555 2.09 LINK ZN ZN A 408 O HOH A 954 1555 1555 2.09 LINK ZN ZN A 411 O HOH A 672 1555 1555 2.37 LINK ZN ZN A 411 O HOH A 959 1555 1555 2.53 LINK ZN ZN A 411 O HOH A 963 1555 1555 2.19 LINK ZN ZN A 413 O HOH A 961 1555 1555 1.95 LINK ZN ZN A 415 O HOH A 551 1555 1555 2.49 LINK ZN ZN A 415 O HOH A 576 1555 1555 2.46 CISPEP 1 HIS A 95 THR A 96 0 0.66 CISPEP 2 GLU A 208 PRO A 209 0 2.64 CISPEP 3 TRP A 241 PRO A 242 0 -7.55 CISPEP 4 TRP A 273 PRO A 274 0 -8.24 CRYST1 121.800 61.670 89.350 90.00 119.38 90.00 C 1 2 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 0.008210 0.000000 0.004622 0.00000 SCALE2 0.000000 0.016215 0.000000 0.00000 SCALE3 0.000000 0.000000 0.012844 0.00000