PDB Short entry for 1O1Z HEADER HYDROLASE 12-FEB-03 1O1Z TITLE CRYSTAL STRUCTURE OF GLYCEROPHOSPHODIESTER PHOSPHODIESTERASE (GDPD) TITLE 2 (TM1621) FROM THERMOTOGA MARITIMA AT 1.60 A RESOLUTION COMPND MOL_ID: 1; COMPND 2 MOLECULE: GLYCEROPHOSPHODIESTER PHOSPHODIESTERASE; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: GDPD; COMPND 5 EC: 3.1.4.46; COMPND 6 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: THERMOTOGA MARITIMA; SOURCE 3 ORGANISM_TAXID: 2336; SOURCE 4 GENE: TM1621; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 7 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID KEYWDS TM1621, GLYCEROPHOSPHODIESTER PHOSPHODIESTERASE (GDPD), STRUCTURAL KEYWDS 2 GENOMICS, JCSG, PSI, PROTEIN STRUCTURE INITIATIVE, JOINT CENTER FOR KEYWDS 3 STRUCTURAL GENOMICS, HYDROLASE EXPDTA X-RAY DIFFRACTION AUTHOR JOINT CENTER FOR STRUCTURAL GENOMICS (JCSG) REVDAT 10 25-JAN-23 1O1Z 1 REMARK SEQADV LINK REVDAT 9 18-JUL-18 1O1Z 1 REMARK REVDAT 8 04-OCT-17 1O1Z 1 REMARK REVDAT 7 13-JUL-11 1O1Z 1 VERSN REVDAT 6 24-FEB-09 1O1Z 1 VERSN REVDAT 5 18-JAN-05 1O1Z 1 AUTHOR KEYWDS REMARK JRNL REVDAT 4 03-AUG-04 1O1Z 1 JRNL COMPND KEYWDS TITLE REVDAT 3 29-JUL-03 1O1Z 1 REMARK REVDAT 2 22-JUL-03 1O1Z 1 REMARK REVDAT 1 01-APR-03 1O1Z 0 JRNL AUTH E.SANTELLI,R.SCHWARZENBACHER,D.MCMULLAN,T.BIORAC,L.S.BRINEN, JRNL AUTH 2 J.M.CANAVES,J.CAMBELL,X.DAI,A.M.DEACON,M.A.ELSLIGER, JRNL AUTH 3 S.ESHAGI,R.FLOYD,A.GODZIK,C.GRITTINI,S.K.GRZECHNIK, JRNL AUTH 4 L.JAROSZEWSKI,C.KARLAK,H.E.KLOCK,E.KOESEMA,J.S.KOVARIK, JRNL AUTH 5 A.KREUSCH,P.KUHN,S.A.LESLEY,T.M.MCPHILLIPS,M.D.MILLER, JRNL AUTH 6 A.MORSE,K.MOY,J.OUYANG,R.PAGE,K.QUIJANO,F.REZEZADEH,A.ROBB, JRNL AUTH 7 R.C.STEVENS,H.VAN DEN BEDEM,J.VELASQUEZ,J.VINCENT, JRNL AUTH 8 F.VON DELFT,X.WANG,B.WEST,G.WOLF,Q.XU,K.O.HODGSON,J.WOOLEY, JRNL AUTH 9 I.A.WILSON JRNL TITL CRYSTAL STRUCTURE OF A GLYCEROPHOSPHODIESTER JRNL TITL 2 PHOSPHODIESTERASE (GDPD) FROM THERMOTOGA MARITIMA (TM1621) JRNL TITL 3 AT 1.60 A RESOLUTION. JRNL REF PROTEINS V. 56 167 2004 JRNL REFN ISSN 0887-3585 JRNL PMID 15162496 JRNL DOI 10.1002/PROT.20120 REMARK 2 REMARK 2 RESOLUTION. 1.60 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.1.955 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) : 1.60 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 48.18 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 97.8 REMARK 3 NUMBER OF REFLECTIONS : 36027 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) : 0.141 REMARK 3 R VALUE (WORKING SET) : 0.139 REMARK 3 FREE R VALUE : 0.180 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 1926 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) : 1.60 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.64 REMARK 3 REFLECTION IN BIN (WORKING SET) : 2413 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : NULL REMARK 3 BIN R VALUE (WORKING SET) : 0.1650 REMARK 3 BIN FREE R VALUE SET COUNT : 137 REMARK 3 BIN FREE R VALUE : 0.2180 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 1831 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 1 REMARK 3 SOLVENT ATOMS : 422 REMARK 3 REMARK 3 B VALUES. REMARK 3 B VALUE TYPE : LIKELY RESIDUAL REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 13.32 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.00000 REMARK 3 B22 (A**2) : 0.06000 REMARK 3 B33 (A**2) : -0.06000 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): 0.067 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.075 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.041 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 2.507 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.974 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.956 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 1909 ; 0.012 ; 0.021 REMARK 3 BOND LENGTHS OTHERS (A): 1796 ; 0.002 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 2571 ; 1.411 ; 1.969 REMARK 3 BOND ANGLES OTHERS (DEGREES): 4177 ; 0.882 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 225 ; 6.079 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 97 ;34.050 ;24.124 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 376 ;10.828 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 15 ;19.046 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 296 ; 0.091 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 2072 ; 0.006 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 390 ; 0.001 ; 0.020 REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 383 ; 0.211 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): 2207 ; 0.238 ; 0.200 REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION OTHERS (A): 1177 ; 0.080 ; 0.200 REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 248 ; 0.230 ; 0.200 REMARK 3 H-BOND (X...Y) OTHERS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION REFINED ATOMS (A): 3 ; 0.115 ; 0.200 REMARK 3 POTENTIAL METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW REFINED ATOMS (A): 15 ; 0.306 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): 48 ; 0.336 ; 0.200 REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 45 ; 0.244 ; 0.200 REMARK 3 SYMMETRY H-BOND OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 MAIN-CHAIN BOND REFINED ATOMS (A**2): 1129 ; 1.790 ; 4.000 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 1841 ; 3.054 ; 6.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 780 ; 4.411 ;10.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 730 ; 6.905 ;13.000 REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 ANISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 RIGID-BOND RESTRAINTS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; FREE ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; BONDED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 NCS RESTRAINTS STATISTICS REMARK 3 NUMBER OF DIFFERENT NCS GROUPS : NULL REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 1 REMARK 3 REMARK 3 TLS GROUP : 1 REMARK 3 NUMBER OF COMPONENTS GROUP : 3 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A -3 A 222 REMARK 3 RESIDUE RANGE : A 602 A 602 REMARK 3 RESIDUE RANGE : A 603 A 958 REMARK 3 ORIGIN FOR THE GROUP (A): 20.0943 8.3707 2.9538 REMARK 3 T TENSOR REMARK 3 T11: 0.0002 T22: -0.0243 REMARK 3 T33: 0.0241 T12: 0.0026 REMARK 3 T13: 0.0081 T23: 0.0158 REMARK 3 L TENSOR REMARK 3 L11: 0.8771 L22: 0.5342 REMARK 3 L33: 1.2711 L12: 0.1355 REMARK 3 L13: -0.1374 L23: 0.2144 REMARK 3 S TENSOR REMARK 3 S11: -0.0123 S12: 0.0176 S13: 0.0003 REMARK 3 S21: -0.0051 S22: -0.0029 S23: 0.0649 REMARK 3 S31: -0.0301 S32: -0.0980 S33: 0.0152 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : BABINET MODEL WITH 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: WEAK CONTINUOUS DIFFERENCE DENSITY AT REMARK 3 THE N-TERMINUS WAS MODELLED AS HIS-TAG RESIDUES, BUT AT HALF REMARK 3 OCCUPANCY.THE CONTINUED PRESENCE OF SPURIOUS DIFFERENCE DENSITY REMARK 3 IMPLIES THAT THIS STILL IS AN INCOMPLETE DESCRIPTION OF THE N- REMARK 3 TERMINUS. XFIT/CCP4/TLS WAS ALSO USED IN REFINEMENT. REMARK 4 REMARK 4 1O1Z COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 23-FEB-03. REMARK 100 THE DEPOSITION ID IS D_1000001703. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 26-OCT-02 REMARK 200 TEMPERATURE (KELVIN) : 100.0 REMARK 200 PH : 9.60 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : APS REMARK 200 BEAMLINE : 19-BM REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.98011, 0.97938, 0.97918, REMARK 200 0.95671 REMARK 200 MONOCHROMATOR : ROSENBAUM-ROCK DOUBLE-CRYSTAL REMARK 200 MONOCHROMATOR REMARK 200 OPTICS : WATER COOLED; SAGITALLY FOCUSING REMARK 200 2ND CRYSTAL, ROSENBAUM-ROCK REMARK 200 VERTICAL FOCUSING MIRROR REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : APS-1 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 38012 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.600 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 200 DATA REDUNDANCY : 6.710 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : 0.05000 REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 62.0100 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.60 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.66 REMARK 200 COMPLETENESS FOR SHELL (%) : 95.3 REMARK 200 DATA REDUNDANCY IN SHELL : 3.51 REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : 0.19600 REMARK 200 <I/SIGMA(I)> FOR SHELL : 10.06 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: MAD REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MAD REMARK 200 SOFTWARE USED: SOLVE, RESOLVE REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 44.16 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.22 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 40% (V/V) PEG-600, 0.1M CHES PH 9.5, REMARK 280 PH 9.6, VAPOR DIFFUSION,SITTING DROP,NANODROP, TEMPERATURE 277K, REMARK 280 PH 9.60 REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 21 21 2 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 66.20500 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 20.89500 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 66.20500 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 20.89500 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 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 -11 REMARK 465 GLY A -10 REMARK 465 SER A -9 REMARK 465 ASP A -8 REMARK 465 LYS A -7 REMARK 465 ILE A -6 REMARK 465 HIS A -5 REMARK 465 HIS A -4 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 HIS A -1 CG ND1 CD2 CE1 NE2 REMARK 470 ILE A 110 CD1 REMARK 470 GLU A 142 CG CD OE1 OE2 REMARK 470 GLU A 143 CD OE1 OE2 REMARK 470 LYS A 184 CE NZ REMARK 470 LYS A 202 CE NZ REMARK 470 ARG A 205 CG CD NE CZ 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 O HOH A 911 O HOH A 913 1.81 REMARK 500 OE1 GLU A 149 O HOH A 895 1.82 REMARK 500 O HOH A 667 O HOH A 888 1.86 REMARK 500 O HOH A 799 O HOH A 907 1.98 REMARK 500 O HOH A 955 O HOH A 1024 2.09 REMARK 500 O HOH A 702 O HOH A 847 2.11 REMARK 500 O HOH A 679 O HOH A 693 2.12 REMARK 500 O HOH A 679 O HOH A 891 2.12 REMARK 500 O HOH A 681 O HOH A 888 2.14 REMARK 500 O HOH A 860 O HOH A 947 2.14 REMARK 500 ND2 ASN A 150 O HOH A 894 2.14 REMARK 500 OD2 ASP A 35 O HOH A 847 2.18 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 714 O HOH A 954 1556 1.81 REMARK 500 O HOH A 809 O HOH A 954 1556 2.16 REMARK 500 O HOH A 791 O HOH A 855 3555 2.17 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 91 CB - CG - OD2 ANGL. DEV. = 6.4 DEGREES REMARK 500 ARG A 154 NE - CZ - NH1 ANGL. DEV. = 5.2 DEGREES REMARK 500 ARG A 154 NE - CZ - NH2 ANGL. DEV. = -4.8 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 ASP A 75 48.73 37.23 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 NA A 602 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 SER A 111 O REMARK 620 2 ARG A 114 O 89.2 REMARK 620 3 ASP A 125 OD2 175.8 90.2 REMARK 620 4 HOH A 655 O 96.8 136.4 86.5 REMARK 620 5 HOH A 656 O 84.7 132.6 92.7 91.0 REMARK 620 N 1 2 3 4 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NA A 602 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 283478 RELATED DB: TARGETDB DBREF 1O1Z A 2 222 UNP Q9X1V6 Q9X1V6_THEMA 2 222 SEQADV 1O1Z GLY A -10 UNP Q9X1V6 EXPRESSION TAG SEQADV 1O1Z SER A -9 UNP Q9X1V6 EXPRESSION TAG SEQADV 1O1Z ASP A -8 UNP Q9X1V6 EXPRESSION TAG SEQADV 1O1Z LYS A -7 UNP Q9X1V6 EXPRESSION TAG SEQADV 1O1Z ILE A -6 UNP Q9X1V6 EXPRESSION TAG SEQADV 1O1Z HIS A -5 UNP Q9X1V6 EXPRESSION TAG SEQADV 1O1Z HIS A -4 UNP Q9X1V6 EXPRESSION TAG SEQADV 1O1Z HIS A -3 UNP Q9X1V6 EXPRESSION TAG SEQADV 1O1Z HIS A -2 UNP Q9X1V6 EXPRESSION TAG SEQADV 1O1Z HIS A -1 UNP Q9X1V6 EXPRESSION TAG SEQADV 1O1Z HIS A 0 UNP Q9X1V6 EXPRESSION TAG SEQADV 1O1Z VAL A 1 UNP Q9X1V6 EXPRESSION TAG SEQRES 1 A 234 MET GLY SER ASP LYS ILE HIS HIS HIS HIS HIS HIS VAL SEQRES 2 A 234 ILE VAL LEU GLY HIS ARG GLY TYR SER ALA LYS TYR LEU SEQRES 3 A 234 GLU ASN THR LEU GLU ALA PHE MET LYS ALA ILE GLU ALA SEQRES 4 A 234 GLY ALA ASN GLY VAL GLU LEU ASP VAL ARG LEU SER LYS SEQRES 5 A 234 ASP GLY LYS VAL VAL VAL SER HIS ASP GLU ASP LEU LYS SEQRES 6 A 234 ARG LEU PHE GLY LEU ASP VAL LYS ILE ARG ASP ALA THR SEQRES 7 A 234 VAL SER GLU LEU LYS GLU LEU THR ASP GLY LYS ILE THR SEQRES 8 A 234 THR LEU LYS GLU VAL PHE GLU ASN VAL SER ASP ASP LYS SEQRES 9 A 234 ILE ILE ASN ILE GLU ILE LYS GLU ARG GLU ALA ALA ASP SEQRES 10 A 234 ALA VAL LEU GLU ILE SER LYS LYS ARG LYS ASN LEU ILE SEQRES 11 A 234 PHE SER SER PHE ASP LEU ASP LEU LEU ASP GLU LYS PHE SEQRES 12 A 234 LYS GLY THR LYS TYR GLY TYR LEU ILE ASP GLU GLU ASN SEQRES 13 A 234 TYR GLY SER ILE GLU ASN PHE VAL GLU ARG VAL GLU LYS SEQRES 14 A 234 GLU ARG PRO TYR SER LEU HIS VAL PRO TYR GLN ALA PHE SEQRES 15 A 234 GLU LEU GLU TYR ALA VAL GLU VAL LEU ARG SER PHE ARG SEQRES 16 A 234 LYS LYS GLY ILE VAL ILE PHE VAL TRP THR LEU ASN ASP SEQRES 17 A 234 PRO GLU ILE TYR ARG LYS ILE ARG ARG GLU ILE ASP GLY SEQRES 18 A 234 VAL ILE THR ASP GLU VAL GLU LEU PHE VAL LYS LEU ARG HET NA A 602 1 HETNAM NA SODIUM ION FORMUL 2 NA NA 1+ FORMUL 3 HOH *422(H2 O) HELIX 1 1 THR A 17 ALA A 27 1 11 HELIX 2 2 LYS A 53 GLY A 57 1 5 HELIX 3 3 ARG A 63 ALA A 65 5 3 HELIX 4 4 THR A 66 THR A 74 1 9 HELIX 5 5 THR A 80 VAL A 88 1 9 HELIX 6 6 GLU A 100 GLU A 102 5 3 HELIX 7 7 ALA A 103 LYS A 112 1 10 HELIX 8 8 ASP A 123 PHE A 131 1 9 HELIX 9 9 SER A 147 ARG A 159 1 13 HELIX 10 10 GLN A 168 GLU A 171 5 4 HELIX 11 11 LEU A 172 LYS A 185 1 14 HELIX 12 12 ASP A 196 ARG A 204 1 9 HELIX 13 13 ARG A 205 ILE A 207 5 3 HELIX 14 14 GLU A 214 LEU A 221 1 8 SHEET 1 A10 VAL A 44 VAL A 46 0 SHEET 2 A10 GLY A 31 LEU A 38 -1 O ARG A 37 N VAL A 45 SHEET 3 A10 ILE A 2 HIS A 6 1 O VAL A 3 N GLY A 31 SHEET 4 A10 GLY A 209 THR A 212 1 N VAL A 210 O ILE A 2 SHEET 5 A10 VAL A 188 TRP A 192 1 O ILE A 189 N GLY A 209 SHEET 6 A10 SER A 162 PRO A 166 1 O LEU A 163 N PHE A 190 SHEET 7 A10 TYR A 136 LEU A 139 1 O TYR A 136 N SER A 162 SHEET 8 A10 LEU A 117 SER A 121 1 O PHE A 119 N GLY A 137 SHEET 9 A10 ILE A 93 ILE A 98 1 O ILE A 94 N ILE A 118 SHEET 10 A10 GLY A 31 LEU A 38 1 O VAL A 32 N ASN A 95 SHEET 1 B 2 ASP A 51 LEU A 52 0 SHEET 2 B 2 LEU A 58 LYS A 61 -1 N LEU A 58 O LEU A 52 LINK O SER A 111 NA NA A 602 1555 1555 2.37 LINK O ARG A 114 NA NA A 602 1555 1555 2.22 LINK OD2 ASP A 125 NA NA A 602 3545 1555 2.31 LINK NA NA A 602 O HOH A 655 1555 3545 2.43 LINK NA NA A 602 O HOH A 656 1555 1555 2.38 CISPEP 1 TRP A 192 THR A 193 0 -23.47 SITE 1 AC1 6 SER A 111 LYS A 112 ARG A 114 ASP A 125 SITE 2 AC1 6 HOH A 655 HOH A 656 CRYST1 132.410 41.790 51.720 90.00 90.00 90.00 P 21 21 2 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 0.007552 0.000000 0.000000 0.00000 SCALE2 0.000000 0.023929 0.000000 0.00000 SCALE3 0.000000 0.000000 0.019335 0.00000