HEADER HYDROLASE 30-APR-11 2YHG TITLE AB INITIO PHASING OF A NUCLEOSIDE HYDROLASE-RELATED HYPOTHETICAL TITLE 2 PROTEIN FROM SACCHAROPHAGUS DEGRADANS THAT IS ASSOCIATED WITH TITLE 3 CARBOHYDRATE METABOLISM COMPND MOL_ID: 1; COMPND 2 MOLECULE: CELLULOSE-BINDING PROTEIN; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: RESIDUES 520-933; COMPND 5 SYNONYM: SDE_182CT; COMPND 6 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: SACCHAROPHAGUS DEGRADANS; SOURCE 3 ORGANISM_TAXID: 203122; SOURCE 4 STRAIN: 2-40; SOURCE 5 ATCC: 43961; 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_VECTOR: PET28 KEYWDS HYDROLASE, GLYCOSIDE HYDROLASE EXPDTA X-RAY DIFFRACTION AUTHOR J.H.HEHEMANN,C.MARSTERS,A.B.BORASTON REVDAT 3 13-JUN-18 2YHG 1 JRNL REMARK REVDAT 2 21-SEP-11 2YHG 1 JRNL REVDAT 1 03-AUG-11 2YHG 0 JRNL AUTH J.H.HEHEMANN,C.MARSTERS,A.B.BORASTON JRNL TITL AB INITIO PHASING OF A NUCLEOSIDE HYDROLASE-RELATED JRNL TITL 2 HYPOTHETICAL PROTEIN FROM SACCHAROPHAGUS DEGRADANS THAT IS JRNL TITL 3 ASSOCIATED WITH CARBOHYDRATE METABOLISM. JRNL REF PROTEINS V. 79 2992 2011 JRNL REFN ESSN 1097-0134 JRNL PMID 21905122 JRNL DOI 10.1002/PROT.23126 REMARK 2 REMARK 2 RESOLUTION. 1.08 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) : 1.08 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 62.73 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 95.9 REMARK 3 NUMBER OF REFLECTIONS : 165083 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) : 0.134 REMARK 3 R VALUE (WORKING SET) : 0.133 REMARK 3 FREE R VALUE : 0.151 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 8709 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) : 1.08 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.11 REMARK 3 REFLECTION IN BIN (WORKING SET) : 9300 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 73.68 REMARK 3 BIN R VALUE (WORKING SET) : 0.2050 REMARK 3 BIN FREE R VALUE SET COUNT : 463 REMARK 3 BIN FREE R VALUE : 0.2300 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 3140 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 34 REMARK 3 SOLVENT ATOMS : 426 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 12.40 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 8.80 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.46000 REMARK 3 B22 (A**2) : -0.17000 REMARK 3 B33 (A**2) : -0.29000 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): 0.025 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.025 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.014 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 0.630 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.977 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): 3406 ; 0.012 ; 0.021 REMARK 3 BOND LENGTHS OTHERS (A): 2250 ; 0.000 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 4676 ; 1.526 ; 1.933 REMARK 3 BOND ANGLES OTHERS (DEGREES): 5494 ; 0.897 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 467 ; 7.202 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 163 ;39.467 ;24.233 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 518 ;10.168 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 22 ;20.354 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 501 ; 0.111 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 3966 ; 0.014 ; 0.021 REMARK 3 GENERAL PLANES OTHERS (A): 706 ; 0.002 ; 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): 2130 ; 1.895 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 871 ; 0.755 ; 1.500 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 3442 ; 2.595 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1276 ; 4.139 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1207 ; 5.075 ; 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): 5656 ; 2.742 ; 1.000 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 2YHG COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 30-APR-11. REMARK 100 THE DEPOSITION ID IS D_1290048149. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : NULL REMARK 200 TEMPERATURE (KELVIN) : 113 REMARK 200 PH : 5.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SSRL REMARK 200 BEAMLINE : BL9-2 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.97884 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MARRESEARCH REMARK 200 INTENSITY-INTEGRATION SOFTWARE : IMOSFLM REMARK 200 DATA SCALING SOFTWARE : SCALA REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 173965 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.080 REMARK 200 RESOLUTION RANGE LOW (A) : 40.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 2.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 96.2 REMARK 200 DATA REDUNDANCY : 9.000 REMARK 200 R MERGE (I) : 0.06000 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 17.3000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.08 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.14 REMARK 200 COMPLETENESS FOR SHELL (%) : 82.9 REMARK 200 DATA REDUNDANCY IN SHELL : 5.80 REMARK 200 R MERGE FOR SHELL (I) : 0.39000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 3.800 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: DIRECT METHODS REMARK 200 SOFTWARE USED: ACORN REMARK 200 STARTING MODEL: NONE REMARK 200 REMARK 200 REMARK: NONE REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 47.50 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.34 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.2 M NACL, 0.1 M BIS-TRIS, PH 5.5, REMARK 280 25% POLYETHYLENE GLYCOL 3350. REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 21 21 21 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X+1/2,-Y,Z+1/2 REMARK 290 3555 -X,Y+1/2,-Z+1/2 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 27.29000 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 62.73000 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 30.79000 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 62.73000 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 27.29000 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 30.79000 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 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 APPLY THE FOLLOWING TO CHAINS: A REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 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 497 REMARK 465 GLY A 498 REMARK 465 SER A 499 REMARK 465 SER A 500 REMARK 465 HIS A 501 REMARK 465 HIS A 502 REMARK 465 HIS A 503 REMARK 465 HIS A 504 REMARK 465 HIS A 505 REMARK 465 HIS A 506 REMARK 465 SER A 507 REMARK 465 SER A 508 REMARK 465 GLY A 509 REMARK 465 LEU A 510 REMARK 465 VAL A 511 REMARK 465 PRO A 512 REMARK 465 ARG A 513 REMARK 465 GLY A 514 REMARK 465 SER A 515 REMARK 465 HIS A 516 REMARK 465 MET A 517 REMARK 465 ALA A 518 REMARK 465 ARG A 519 REMARK 465 GLY A 520 REMARK 465 GLU A 521 REMARK 465 GLY A 522 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 591 CE NZ REMARK 470 GLU A 594 CG CD OE1 OE2 REMARK 470 GLN A 933 CG CD OE1 NE2 REMARK 480 REMARK 480 ZERO OCCUPANCY ATOM REMARK 480 THE FOLLOWING RESIDUES HAVE ATOMS MODELED WITH ZERO REMARK 480 OCCUPANCY. THE LOCATION AND PROPERTIES OF THESE ATOMS REMARK 480 MAY NOT BE RELIABLE. (M=MODEL NUMBER; RES=RESIDUE NAME; REMARK 480 C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE): REMARK 480 M RES C SSEQI ATOMS REMARK 480 LYS A 801 CD CE NZ REMARK 480 ARG A 915 NH1 NH2 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 NE2 HIS A 719 O HOH A 2207 2.10 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 CYS A 564 CA - CB - SG ANGL. DEV. = 9.7 DEGREES REMARK 500 SER A 858 O - C - N ANGL. DEV. = -11.5 DEGREES REMARK 500 GLY A 859 C - N - CA ANGL. DEV. = -14.0 DEGREES REMARK 500 ARG A 926 NE - CZ - NH2 ANGL. DEV. = -3.3 DEGREES REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: TORSION ANGLES REMARK 500 REMARK 500 TORSION ANGLES OUTSIDE THE EXPECTED RAMACHANDRAN REGIONS: REMARK 500 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 500 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT:(10X,I3,1X,A3,1X,A1,I4,A1,4X,F7.2,3X,F7.2) REMARK 500 REMARK 500 EXPECTED VALUES: GJ KLEYWEGT AND TA JONES (1996). PHI/PSI- REMARK 500 CHOLOGY: RAMACHANDRAN REVISITED. STRUCTURE 4, 1395 - 1400 REMARK 500 REMARK 500 M RES CSSEQI PSI PHI REMARK 500 ASP A 532 59.59 -90.05 REMARK 500 THR A 561 -157.57 -154.38 REMARK 500 LYS A 566 84.98 -159.76 REMARK 500 LYS A 566 91.05 -162.73 REMARK 500 LEU A 682 -19.87 71.73 REMARK 500 TYR A 735 -78.77 -122.35 REMARK 500 SER A 799 21.93 -152.40 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: PLANAR GROUPS REMARK 500 REMARK 500 PLANAR GROUPS IN THE FOLLOWING RESIDUES HAVE A TOTAL REMARK 500 RMS DISTANCE OF ALL ATOMS FROM THE BEST-FIT PLANE REMARK 500 BY MORE THAN AN EXPECTED VALUE OF 6*RMSD, WITH AN REMARK 500 RMSD 0.02 ANGSTROMS, OR AT LEAST ONE ATOM HAS REMARK 500 AN RMSD GREATER THAN THIS VALUE REMARK 500 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 500 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 M RES CSSEQI RMS TYPE REMARK 500 ARG A 926 0.09 SIDE CHAIN REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: MAIN CHAIN PLANARITY REMARK 500 REMARK 500 THE FOLLOWING RESIDUES HAVE A PSEUDO PLANARITY REMARK 500 TORSION ANGLE, C(I) - CA(I) - N(I+1) - O(I), GREATER REMARK 500 10.0 DEGREES. (M=MODEL NUMBER; RES=RESIDUE NAME; REMARK 500 C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 500 I=INSERTION CODE). REMARK 500 REMARK 500 M RES CSSEQI ANGLE REMARK 500 GLY A 859 15.47 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 A1934 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 532 OD1 REMARK 620 2 ASP A 539 OD1 89.2 REMARK 620 3 TRP A 647 O 85.4 155.3 REMARK 620 4 ASP A 740 OD2 146.8 85.2 86.2 REMARK 620 5 HOH A2013 O 71.3 112.0 89.0 140.5 REMARK 620 6 HOH A2026 O 127.0 78.4 123.6 83.8 66.6 REMARK 620 7 HOH A2130 O 133.8 128.6 69.6 71.6 70.0 54.5 REMARK 620 8 ASP A 539 OD2 72.8 51.5 104.0 78.2 140.6 127.5 149.4 REMARK 620 N 1 2 3 4 5 6 7 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CA A1936 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASN A 827 OD1 REMARK 620 2 HIS A 828 O 85.6 REMARK 620 3 ASP A 862 OD1 171.1 93.4 REMARK 620 4 ASP A 866 OD2 77.4 161.5 102.2 REMARK 620 5 ASP A 916 OD2 86.6 86.2 84.4 85.5 REMARK 620 6 ASP A 862 OD2 136.3 122.9 50.9 75.2 123.9 REMARK 620 7 ASP A 864 OD2 73.5 78.7 115.1 103.0 155.7 80.3 REMARK 620 N 1 2 3 4 5 6 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG A1937 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HOH A2386 O REMARK 620 2 HOH A2387 O 95.4 REMARK 620 3 TYR A 881 O 74.6 91.6 REMARK 620 4 ASP A 879 O 174.1 88.8 101.2 REMARK 620 5 ASP A 879 OD1 99.3 165.2 94.1 76.7 REMARK 620 6 GLY A 876 O 88.8 92.3 163.3 95.1 86.2 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG A1938 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLY A 724 O REMARK 620 2 GLN A 721 O 110.8 REMARK 620 N 1 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN A1941 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HOH A2328 O REMARK 620 2 HIS A 723 NE2 178.1 REMARK 620 3 ASP A 816 OD1 89.3 91.0 REMARK 620 4 HOH A2209 O 92.6 85.5 89.6 REMARK 620 5 HOH A2210 O 84.1 95.6 173.2 92.5 REMARK 620 6 EDO A1944 O2 81.7 100.1 97.3 170.9 80.0 REMARK 620 N 1 2 3 4 5 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CA A 1934 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CL A 1935 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CA A 1936 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG A 1937 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG A 1938 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG A 1939 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CL A 1940 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN A 1941 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO A 1942 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO A 1943 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO A 1944 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE BTB A 1945 DBREF 2YHG A 520 933 UNP Q21PD3 Q21PD3_SACD2 520 933 SEQADV 2YHG MET A 497 UNP Q21PD3 EXPRESSION TAG SEQADV 2YHG GLY A 498 UNP Q21PD3 EXPRESSION TAG SEQADV 2YHG SER A 499 UNP Q21PD3 EXPRESSION TAG SEQADV 2YHG SER A 500 UNP Q21PD3 EXPRESSION TAG SEQADV 2YHG HIS A 501 UNP Q21PD3 EXPRESSION TAG SEQADV 2YHG HIS A 502 UNP Q21PD3 EXPRESSION TAG SEQADV 2YHG HIS A 503 UNP Q21PD3 EXPRESSION TAG SEQADV 2YHG HIS A 504 UNP Q21PD3 EXPRESSION TAG SEQADV 2YHG HIS A 505 UNP Q21PD3 EXPRESSION TAG SEQADV 2YHG HIS A 506 UNP Q21PD3 EXPRESSION TAG SEQADV 2YHG SER A 507 UNP Q21PD3 EXPRESSION TAG SEQADV 2YHG SER A 508 UNP Q21PD3 EXPRESSION TAG SEQADV 2YHG GLY A 509 UNP Q21PD3 EXPRESSION TAG SEQADV 2YHG LEU A 510 UNP Q21PD3 EXPRESSION TAG SEQADV 2YHG VAL A 511 UNP Q21PD3 EXPRESSION TAG SEQADV 2YHG PRO A 512 UNP Q21PD3 EXPRESSION TAG SEQADV 2YHG ARG A 513 UNP Q21PD3 EXPRESSION TAG SEQADV 2YHG GLY A 514 UNP Q21PD3 EXPRESSION TAG SEQADV 2YHG SER A 515 UNP Q21PD3 EXPRESSION TAG SEQADV 2YHG HIS A 516 UNP Q21PD3 EXPRESSION TAG SEQADV 2YHG MET A 517 UNP Q21PD3 EXPRESSION TAG SEQADV 2YHG ALA A 518 UNP Q21PD3 EXPRESSION TAG SEQADV 2YHG ARG A 519 UNP Q21PD3 EXPRESSION TAG SEQRES 1 A 437 MET GLY SER SER HIS HIS HIS HIS HIS HIS SER SER GLY SEQRES 2 A 437 LEU VAL PRO ARG GLY SER HIS MET ALA ARG GLY GLU GLY SEQRES 3 A 437 GLY ARG TYR ARG VAL ILE HIS THR THR ASP MET GLY ALA SEQRES 4 A 437 ASP PRO ASP ASP GLU GLN SER LEU VAL ARG GLN LEU VAL SEQRES 5 A 437 MET ALA ASN GLU TYR ASP LEU GLU GLY ILE ILE THR THR SEQRES 6 A 437 THR GLY CYS TRP LYS LYS SER THR SER ASN THR ALA TYR SEQRES 7 A 437 VAL ASP ARG ILE LEU ASN ALA TYR SER GLN ALA TYR PRO SEQRES 8 A 437 ASN LEU SER LYS HIS ALA GLU GLY PHE PRO THR PRO ALA SEQRES 9 A 437 TYR LEU ASP SER ILE ASN VAL MET GLY GLN ARG GLY TYR SEQRES 10 A 437 GLY MET GLY ASP VAL GLY SER GLY LYS ASP SER ALA GLY SEQRES 11 A 437 SER ASN LEU ILE ILE ALA ALA VAL ASP LYS ASP ASP PRO SEQRES 12 A 437 ARG PRO VAL TRP ALA THR CYS TRP GLY GLY CYS ASN THR SEQRES 13 A 437 ILE ALA GLN ALA VAL TRP LYS VAL GLN ASN THR ARG SER SEQRES 14 A 437 GLN ALA GLN LEU ASP ALA PHE ILE SER LYS LEU ARG VAL SEQRES 15 A 437 TYR ASP ILE LEU GLY GLN ASP ASN ALA GLY THR TRP LEU SEQRES 16 A 437 ALA LYS ASN PHE PRO ASN LEU ILE TYR ILE ARG ALA ARG SEQRES 17 A 437 SER VAL TYR SER TRP GLN PRO SER ASP SER TYR LEU ASP SEQRES 18 A 437 ASN HIS ILE GLN SER HIS GLY ALA LEU GLY ALA VAL TYR SEQRES 19 A 437 PRO ASN ARG ARG TYR ALA THR GLU GLY ASP THR PRO ALA SEQRES 20 A 437 PHE LEU HIS MET ALA ASN PRO GLY LEU ASN ASP PRO SER SEQRES 21 A 437 VAL VAL SER MET GLY GLY TRP GLY GLY ARG PHE PRO SER SEQRES 22 A 437 LYS GLN ALA GLY VAL ARG GLY MET SER CYS MET SER GLY SEQRES 23 A 437 GLU ASP ALA VAL TYR ASP THR TYR TYR MET TYR THR GLU SEQRES 24 A 437 ASN GLY GLU SER ILE LYS ARG TRP SER THR ALA ILE HIS SEQRES 25 A 437 ASN ASP PHE GLN ALA ARG MET ASP TRP ALA ILE GLU SER SEQRES 26 A 437 ASN TYR SER ALA ALA ASN HIS HIS PRO VAL PRO VAL VAL SEQRES 27 A 437 ASN ASN ASP ALA ASN GLU ALA VAL MET TYR LEU ASN ALA SEQRES 28 A 437 SER ALA GLY SER THR VAL SER LEU ASP ALA SER GLY SER SEQRES 29 A 437 SER ASP PRO ASP GLY ASP SER LEU ASN TYR SER TRP SER SEQRES 30 A 437 HIS TYR GLY GLU ALA ASP SER TYR SER GLY SER VAL SER SEQRES 31 A 437 ILE SER ASN SER SER SER ALA SER ALA ASN VAL GLN ILE SEQRES 32 A 437 PRO SER ASN ALA GLY GLY LYS ASP ILE HIS ILE LEU LEU SEQRES 33 A 437 THR LEU ARG ASP ASN GLY SER PRO ASN LEU TYR ALA TYR SEQRES 34 A 437 ARG ARG VAL VAL ILE ASN VAL GLN HET CA A1934 1 HET CL A1935 1 HET CA A1936 1 HET MG A1937 1 HET MG A1938 1 HET MG A1939 1 HET CL A1940 1 HET ZN A1941 1 HET EDO A1942 4 HET EDO A1943 4 HET EDO A1944 4 HET BTB A1945 14 HETNAM CA CALCIUM ION HETNAM CL CHLORIDE ION HETNAM MG MAGNESIUM ION HETNAM ZN ZINC ION HETNAM EDO 1,2-ETHANEDIOL HETNAM BTB 2-[BIS-(2-HYDROXY-ETHYL)-AMINO]-2-HYDROXYMETHYL- HETNAM 2 BTB PROPANE-1,3-DIOL HETSYN EDO ETHYLENE GLYCOL HETSYN BTB BIS-TRIS BUFFER FORMUL 2 CA 2(CA 2+) FORMUL 3 CL 2(CL 1-) FORMUL 5 MG 3(MG 2+) FORMUL 9 ZN ZN 2+ FORMUL 10 EDO 3(C2 H6 O2) FORMUL 13 BTB C8 H19 N O5 FORMUL 14 HOH *426(H2 O) HELIX 1 1 PRO A 537 MET A 549 1 13 HELIX 2 2 ALA A 550 TYR A 553 5 4 HELIX 3 3 THR A 572 SER A 590 1 19 HELIX 4 4 THR A 598 ILE A 605 1 8 HELIX 5 5 TYR A 613 VAL A 618 5 6 HELIX 6 6 SER A 624 LYS A 636 1 13 HELIX 7 7 CYS A 650 ARG A 664 1 15 HELIX 8 8 SER A 665 LYS A 675 1 11 HELIX 9 9 ASP A 685 PHE A 695 1 11 HELIX 10 10 SER A 712 ILE A 720 1 9 HELIX 11 11 HIS A 723 VAL A 729 1 7 HELIX 12 12 THR A 741 HIS A 746 1 6 HELIX 13 13 MET A 777 SER A 781 5 5 HELIX 14 14 GLU A 783 ASP A 788 5 6 HELIX 15 15 ILE A 800 ARG A 802 5 3 HELIX 16 16 TRP A 803 GLU A 820 1 18 HELIX 17 17 ASN A 822 ALA A 826 5 5 SHEET 1 AA 6 ASN A 606 MET A 608 0 SHEET 2 AA 6 ASP A 554 THR A 560 1 O ILE A 558 N VAL A 607 SHEET 3 AA 6 ARG A 526 THR A 531 1 O VAL A 527 N GLU A 556 SHEET 4 AA 6 VAL A 642 CYS A 646 1 O TRP A 643 N ILE A 528 SHEET 5 AA 6 LEU A 676 ILE A 681 1 O ARG A 677 N ALA A 644 SHEET 6 AA 6 ILE A 699 ALA A 703 1 O ILE A 699 N VAL A 678 SHEET 1 AB 2 SER A 769 ALA A 772 0 SHEET 2 AB 2 TYR A 791 THR A 794 -1 O MET A 792 N GLN A 771 SHEET 1 AC 4 MET A 843 SER A 848 0 SHEET 2 AC 4 TYR A 923 GLN A 933 1 O ARG A 927 N MET A 843 SHEET 3 AC 4 ASP A 907 ASP A 916 -1 O ILE A 908 N ILE A 930 SHEET 4 AC 4 LEU A 868 HIS A 874 -1 O ASN A 869 N ARG A 915 SHEET 1 AD 3 THR A 852 ASP A 856 0 SHEET 2 AD 3 SER A 894 GLN A 898 -1 O ALA A 895 N LEU A 855 SHEET 3 AD 3 ILE A 887 SER A 888 -1 O SER A 888 N ASN A 896 SSBOND 1 CYS A 564 CYS A 779 1555 1555 2.04 SSBOND 2 CYS A 646 CYS A 650 1555 1555 2.05 LINK CA CA A1934 OD1 ASP A 532 1555 1555 2.60 LINK CA CA A1934 OD1 ASP A 539 1555 1555 2.41 LINK CA CA A1934 O TRP A 647 1555 1555 2.40 LINK CA CA A1934 OD2 ASP A 740 1555 1555 2.54 LINK CA CA A1934 O HOH A2013 1555 1555 2.49 LINK CA CA A1934 O HOH A2026 1555 1555 2.58 LINK CA CA A1934 O HOH A2130 1555 1555 3.02 LINK CA CA A1934 OD2 ASP A 539 1555 1555 2.59 LINK CA CA A1936 OD1 ASN A 827 1555 1555 2.40 LINK CA CA A1936 O HIS A 828 1555 1555 2.36 LINK CA CA A1936 OD1 ASP A 862 1555 1555 2.39 LINK CA CA A1936 OD2 ASP A 866 1555 1555 2.29 LINK CA CA A1936 OD2 ASP A 916 1555 1555 2.33 LINK CA CA A1936 OD2 ASP A 862 1555 1555 2.66 LINK CA CA A1936 OD2 ASP A 864 1555 1555 2.38 LINK MG MG A1937 O HOH A2386 1555 1555 2.73 LINK MG MG A1937 O HOH A2387 1555 1555 2.33 LINK MG MG A1937 O TYR A 881 1555 1555 2.30 LINK MG MG A1937 O ASP A 879 1555 1555 2.69 LINK MG MG A1937 OD1 ASP A 879 1555 1555 2.20 LINK MG MG A1937 O GLY A 876 1555 1555 2.34 LINK MG MG A1938 O GLY A 724 1555 1555 2.82 LINK MG MG A1938 O GLN A 721 1555 1555 2.75 LINK MG MG A1939 O SER A 799 1555 1555 2.71 LINK ZN ZN A1941 O HOH A2328 1555 1555 2.12 LINK ZN ZN A1941 NE2 HIS A 723 1555 1555 2.11 LINK ZN ZN A1941 OD1 ASP A 816 1555 1555 2.06 LINK ZN ZN A1941 O HOH A2209 1555 1555 2.08 LINK ZN ZN A1941 O HOH A2210 1555 1555 2.07 LINK ZN ZN A1941 O2 EDO A1944 1555 1555 2.10 CISPEP 1 ASP A 788 THR A 789 0 -7.93 CISPEP 2 SER A 919 PRO A 920 0 -9.14 CISPEP 3 SER A 919 PRO A 920 0 -10.25 SITE 1 AC1 7 ASP A 532 ASP A 539 TRP A 647 ASP A 740 SITE 2 AC1 7 HOH A2013 HOH A2026 HOH A2130 SITE 1 AC2 4 ARG A 766 ARG A 802 TYR A 875 MG A1939 SITE 1 AC3 6 ASN A 827 HIS A 828 ASP A 862 ASP A 864 SITE 2 AC3 6 ASP A 866 ASP A 916 SITE 1 AC4 5 GLY A 876 ASP A 879 TYR A 881 HOH A2386 SITE 2 AC4 5 HOH A2387 SITE 1 AC5 4 GLN A 721 SER A 722 GLY A 724 ALA A 728 SITE 1 AC6 7 GLY A 761 GLY A 762 GLY A 765 SER A 799 SITE 2 AC6 7 TRP A 803 TYR A 875 CL A1935 SITE 1 AC7 4 SER A 705 VAL A 706 TYR A 707 SER A 708 SITE 1 AC8 6 HIS A 723 ASP A 816 EDO A1944 HOH A2209 SITE 2 AC8 6 HOH A2210 HOH A2328 SITE 1 AC9 6 ARG A 611 ASP A 617 LYS A 622 ASP A 623 SITE 2 AC9 6 SER A 624 HOH A2090 SITE 1 BC1 6 ARG A 802 SER A 873 HIS A 874 TYR A 875 SITE 2 BC1 6 LEU A 911 HOH A2321 SITE 1 BC2 7 HIS A 723 ASP A 816 GLU A 820 ZN A1941 SITE 2 BC2 7 HOH A2210 HOH A2328 HOH A2334 SITE 1 BC3 12 ALA A 748 ASN A 749 TRP A 763 ASP A 810 SITE 2 BC3 12 ARG A 814 HIS A 829 GLU A 840 TYR A 923 SITE 3 BC3 12 ALA A 924 HOH A2033 HOH A2323 HOH A2349 CRYST1 54.580 61.580 125.460 90.00 90.00 90.00 P 21 21 21 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 0.018322 0.000000 0.000000 0.00000 SCALE2 0.000000 0.016239 0.000000 0.00000 SCALE3 0.000000 0.000000 0.007971 0.00000