HEADER HYDROLASE 25-FEB-08 3CCG TITLE CRYSTAL STRUCTURE OF PREDICTED HD SUPERFAMILY HYDROLASE INVOLVED IN TITLE 2 NAD METABOLISM (NP_347894.1) FROM CLOSTRIDIUM ACETOBUTYLICUM AT 1.50 TITLE 3 A RESOLUTION COMPND MOL_ID: 1; COMPND 2 MOLECULE: HD SUPERFAMILY HYDROLASE; COMPND 3 CHAIN: A; COMPND 4 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: CLOSTRIDIUM ACETOBUTYLICUM ATCC 824; SOURCE 3 ORGANISM_TAXID: 272562; SOURCE 4 STRAIN: DSM 792 / JCM 1419 / LMG 5710 / VKM B-1787; SOURCE 5 GENE: NP_347894.1, CA_C1263; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: HK100; SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: SPEEDET KEYWDS NP_347894.1, PREDICTED HD SUPERFAMILY HYDROLASE INVOLVED IN NAD KEYWDS 2 METABOLISM, HD DOMAIN, STRUCTURAL GENOMICS, JOINT CENTER FOR KEYWDS 3 STRUCTURAL GENOMICS, JCSG, PROTEIN STRUCTURE INITIATIVE, PSI-2, KEYWDS 4 HYDROLASE EXPDTA X-RAY DIFFRACTION AUTHOR JOINT CENTER FOR STRUCTURAL GENOMICS (JCSG) REVDAT 6 01-FEB-23 3CCG 1 REMARK SEQADV LINK REVDAT 5 24-JUL-19 3CCG 1 REMARK LINK REVDAT 4 25-OCT-17 3CCG 1 REMARK REVDAT 3 13-JUL-11 3CCG 1 VERSN REVDAT 2 24-FEB-09 3CCG 1 VERSN REVDAT 1 11-MAR-08 3CCG 0 JRNL AUTH JOINT CENTER FOR STRUCTURAL GENOMICS (JCSG) JRNL TITL CRYSTAL STRUCTURE OF PREDICTED HD SUPERFAMILY HYDROLASE JRNL TITL 2 INVOLVED IN NAD METABOLISM (NP_347894.1) FROM CLOSTRIDIUM JRNL TITL 3 ACETOBUTYLICUM AT 1.50 A RESOLUTION JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 1.50 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.4.0067 REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN REMARK 3 REMARK 3 REFINEMENT TARGET : MAXIMUM LIKELIHOOD WITH PHASES REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.50 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 25.87 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.6 REMARK 3 NUMBER OF REFLECTIONS : 30979 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) : 0.182 REMARK 3 R VALUE (WORKING SET) : 0.180 REMARK 3 FREE R VALUE : 0.217 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 1560 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) : 1.50 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.54 REMARK 3 REFLECTION IN BIN (WORKING SET) : 2152 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 98.56 REMARK 3 BIN R VALUE (WORKING SET) : 0.2310 REMARK 3 BIN FREE R VALUE SET COUNT : 109 REMARK 3 BIN FREE R VALUE : 0.2840 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 1472 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 7 REMARK 3 SOLVENT ATOMS : 198 REMARK 3 REMARK 3 B VALUES. REMARK 3 B VALUE TYPE : LIKELY RESIDUAL REMARK 3 FROM WILSON PLOT (A**2) : 17.06 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 15.36 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.75000 REMARK 3 B22 (A**2) : 0.29000 REMARK 3 B33 (A**2) : -0.70000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : -1.00000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.079 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.082 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.053 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 1.381 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.964 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.945 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 1639 ; 0.017 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): 1103 ; 0.001 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 2227 ; 1.563 ; 1.965 REMARK 3 BOND ANGLES OTHERS (DEGREES): 2694 ; 1.065 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 214 ; 3.972 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 77 ;33.877 ;24.156 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 295 ;11.479 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 11 ;13.723 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 241 ; 0.078 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 1897 ; 0.007 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 341 ; 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): 1012 ; 1.826 ; 3.000 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 417 ; 0.527 ; 3.000 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 1634 ; 2.848 ; 5.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 627 ; 4.390 ; 8.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 593 ; 6.330 ;11.000 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 : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 0 A 188 REMARK 3 ORIGIN FOR THE GROUP (A): 0.0000 0.0000 0.0000 REMARK 3 T TENSOR REMARK 3 T11: 0.0000 T22: 0.0000 REMARK 3 T33: 0.0000 T12: 0.0000 REMARK 3 T13: 0.0000 T23: 0.0000 REMARK 3 L TENSOR REMARK 3 L11: 0.0000 L22: 0.0000 REMARK 3 L33: 0.0000 L12: 0.0000 REMARK 3 L13: 0.0000 L23: 0.0000 REMARK 3 S TENSOR REMARK 3 S11: 0.0000 S12: 0.0000 S13: 0.0000 REMARK 3 S21: 0.0000 S22: 0.0000 S23: 0.0000 REMARK 3 S31: 0.0000 S32: 0.0000 S33: 0.0000 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: REMARK 3 1. HYDROGENS HAVE BEEN ADDED IN THE RIDING POSITIONS. REMARK 3 2. ATOM RECORD CONTAINS RESIDUAL B FACTORS ONLY. REMARK 3 3. A MET-INHIBITION PROTOCOL WAS USED FOR SELENOMETHIONINE REMARK 3 INCORPORATION DURING PROTEIN EXPRESSION. THE OCCUPANCY REMARK 3 OF THE SE ATOMS IN THE MSE RESIDUES WAS REDUCED TO 0.75 REMARK 3 TO ACCOUNT FOR THE REDUCED SCATTERING POWER DUE TO PARTIAL REMARK 3 S-MET INCORPORATION. REMARK 3 4. IRON HAS BEEN MODELED IN THE PUTATIVE ACTIVE SITE BASED ON AN REMARK 3 X-RAY REMARK 3 FLUORESCENCE SCAN FOR METAL, ANOMALOUS DIFFERENCE FOURIERS, AND REMARK 3 COORDINATION GEOMETRY. REMARK 3 5. PHOSPHATE IS MODELED BASED ON ELECTRON DENSITY AND PROPOSED REMARK 3 FUNCTION. REMARK 4 REMARK 4 3CCG COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 28-FEB-08. REMARK 100 THE DEPOSITION ID IS D_1000046608. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 01-FEB-08 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 5.9 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SSRL REMARK 200 BEAMLINE : BL11-1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.91837, 0.97922, 0.97874 REMARK 200 MONOCHROMATOR : SINGLE CRYSTAL SI(111) BENT REMARK 200 (HORIZONTAL FOCUSING) REMARK 200 OPTICS : FLAT MIRROR (VERTICAL FOCUSING) REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MARMOSAIC 325 MM CCD REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : XSCALE REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 30979 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.500 REMARK 200 RESOLUTION RANGE LOW (A) : 25.872 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : -3.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 98.3 REMARK 200 DATA REDUNDANCY : NULL REMARK 200 R MERGE (I) : 0.03800 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 11.5300 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.50 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.55 REMARK 200 COMPLETENESS FOR SHELL (%) : 96.7 REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : 0.36200 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 2.100 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: MAD REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MAD REMARK 200 SOFTWARE USED: SHELX, SHELXD, AUTOSHARP REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 44.95 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.23 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: NANODROP, 0.2M MG FORMATE, 20.0% PEG REMARK 280 3350, 0.001M SPERMINE TETRA-HCL, NO BUFFER PH 5.9, VAPOR REMARK 280 DIFFUSION, SITTING DROP, TEMPERATURE 277K 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 45.27000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 18.16000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 45.27000 REMARK 290 SMTRY2 4 0.000000 1.000000 0.000000 18.16000 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: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 1390 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 17530 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -7.2 KCAL/MOL 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 350 BIOMT1 2 -1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 2 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 2 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 189 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 GLU A 17 CD OE1 OE2 REMARK 470 LYS A 18 CD CE NZ REMARK 470 LYS A 21 CD CE NZ REMARK 470 GLU A 72 CG CD OE1 OE2 REMARK 470 GLU A 76 CD OE1 OE2 REMARK 470 ASN A 80 CG OD1 ND2 REMARK 470 LEU A 84 N REMARK 470 GLU A 102 CD OE1 OE2 REMARK 470 LYS A 138 CE NZ REMARK 470 ASP A 141 CG OD1 OD2 REMARK 470 LYS A 145 CE NZ REMARK 470 LYS A 153 NZ REMARK 470 ARG A 187 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 OH TYR A 4 OE2 GLU A 42 1.83 REMARK 500 O HOH A 201 O HOH A 261 1.89 REMARK 500 OE2 GLU A 64 O HOH A 201 2.03 REMARK 500 O HOH A 201 O HOH A 245 2.17 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 O3 PO4 A 192 O HOH A 201 4555 2.03 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 TYR A 82 CG TYR A 82 CD1 -0.086 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 80 74.65 -115.85 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 FE A 191 FE REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A 22 NE2 REMARK 620 2 HIS A 51 NE2 97.5 REMARK 620 3 ASP A 52 OD2 90.1 82.6 REMARK 620 4 ASP A 129 OD1 77.5 96.6 167.4 REMARK 620 5 PO4 A 192 O4 82.2 173.4 90.8 89.8 REMARK 620 6 HOH A 195 O 175.0 83.9 94.8 97.7 97.0 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 FE A 190 FE REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 52 OD1 REMARK 620 2 HIS A 85 NE2 86.7 REMARK 620 3 HIS A 111 NE2 90.7 93.6 REMARK 620 4 PO4 A 192 O1 92.2 93.1 172.9 REMARK 620 5 HOH A 195 O 89.0 175.6 87.5 86.1 REMARK 620 6 HOH A 199 O 176.6 94.4 92.4 84.5 89.8 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 FE A 190 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE FE A 191 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PO4 A 192 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 367850 RELATED DB: TARGETDB REMARK 999 REMARK 999 SEQUENCE REMARK 999 THE CONSTRUCT WAS EXPRESSED WITH A PURIFICATION TAG REMARK 999 MGSDKIHHHHHH. THE TAG WAS REMOVED WITH TEV PROTEASE REMARK 999 LEAVING ONLY A GLYCINE (0) FOLLOWED BY THE TARGET SEQUENCE. DBREF 3CCG A 1 189 UNP Q97JL1 Q97JL1_CLOAB 1 189 SEQADV 3CCG GLY A 0 UNP Q97JL1 EXPRESSION TAG SEQRES 1 A 190 GLY MSE TRP SER TYR ASP LYS ILE THR ASP TYR LEU MSE SEQRES 2 A 190 ASN ASN LEU GLY GLU LYS ARG TYR LYS HIS SER LEU GLY SEQRES 3 A 190 VAL MSE ASP THR ALA VAL ARG LEU ALA GLY ILE TYR ASN SEQRES 4 A 190 GLU ASP THR GLU LYS ALA ARG ILE ALA GLY LEU VAL HIS SEQRES 5 A 190 ASP CYS ALA LYS LYS LEU PRO GLY GLU LYS ILE ILE GLU SEQRES 6 A 190 ILE CYS THR ASN GLU GLY TYR GLU LEU GLY ASP GLU ASP SEQRES 7 A 190 ILE ARG ASN SER TYR LEU LEU HIS GLY LEU ALA GLY ARG SEQRES 8 A 190 ILE LEU ALA LYS LYS VAL ILE GLY ILE ASP ASP GLU ASP SEQRES 9 A 190 VAL LEU ASN ALA ILE GLU PHE HIS THR THR GLY ARG PRO SEQRES 10 A 190 ASN MSE SER LEU LEU GLU LYS ILE ILE TYR ILE ALA ASP SEQRES 11 A 190 TYR ILE GLU PRO GLY ARG GLU PHE LYS GLY VAL ASP GLU SEQRES 12 A 190 LEU ARG LYS ALA ALA ASP GLU ASP LEU ASN LYS ALA LEU SEQRES 13 A 190 LEU MSE SER PHE ASP ASN THR ILE LYS PHE VAL ILE ASP SEQRES 14 A 190 LYS GLY GLY PHE LEU HIS HIS ASN THR ILE GLU ALA ARG SEQRES 15 A 190 ASN TYR LEU ILE SER ARG LYS GLY MODRES 3CCG MSE A 1 MET SELENOMETHIONINE MODRES 3CCG MSE A 12 MET SELENOMETHIONINE MODRES 3CCG MSE A 27 MET SELENOMETHIONINE MODRES 3CCG MSE A 118 MET SELENOMETHIONINE MODRES 3CCG MSE A 157 MET SELENOMETHIONINE HET MSE A 1 8 HET MSE A 12 16 HET MSE A 27 8 HET MSE A 118 8 HET MSE A 157 16 HET FE A 190 1 HET FE A 191 1 HET PO4 A 192 5 HETNAM MSE SELENOMETHIONINE HETNAM FE FE (III) ION HETNAM PO4 PHOSPHATE ION FORMUL 1 MSE 5(C5 H11 N O2 SE) FORMUL 2 FE 2(FE 3+) FORMUL 4 PO4 O4 P 3- FORMUL 5 HOH *198(H2 O) HELIX 1 1 SER A 3 ASN A 38 1 36 HELIX 2 2 ASP A 40 HIS A 51 1 12 HELIX 3 3 PRO A 58 GLU A 69 1 12 HELIX 4 4 GLY A 74 ARG A 79 1 6 HELIX 5 5 LEU A 84 VAL A 96 1 13 HELIX 6 6 ASP A 101 PHE A 110 1 10 HELIX 7 7 SER A 119 GLU A 132 1 14 HELIX 8 8 GLY A 139 ASP A 150 1 12 HELIX 9 9 ASP A 150 GLY A 170 1 21 HELIX 10 10 HIS A 174 LYS A 188 1 15 LINK C GLY A 0 N MSE A 1 1555 1555 1.33 LINK C MSE A 1 N TRP A 2 1555 1555 1.33 LINK C LEU A 11 N AMSE A 12 1555 1555 1.33 LINK C LEU A 11 N BMSE A 12 1555 1555 1.33 LINK C AMSE A 12 N AASN A 13 1555 1555 1.33 LINK C BMSE A 12 N BASN A 13 1555 1555 1.33 LINK C VAL A 26 N MSE A 27 1555 1555 1.32 LINK C MSE A 27 N ASP A 28 1555 1555 1.33 LINK C ASN A 117 N MSE A 118 1555 1555 1.32 LINK C MSE A 118 N SER A 119 1555 1555 1.32 LINK C LEU A 156 N AMSE A 157 1555 1555 1.33 LINK C LEU A 156 N BMSE A 157 1555 1555 1.34 LINK C AMSE A 157 N SER A 158 1555 1555 1.33 LINK C BMSE A 157 N SER A 158 1555 1555 1.33 LINK NE2 HIS A 22 FE FE A 191 1555 1555 2.27 LINK NE2 HIS A 51 FE FE A 191 1555 1555 2.52 LINK OD1 ASP A 52 FE FE A 190 1555 1555 2.17 LINK OD2 ASP A 52 FE FE A 191 1555 1555 2.48 LINK NE2 HIS A 85 FE FE A 190 1555 1555 2.20 LINK NE2 HIS A 111 FE FE A 190 1555 1555 2.21 LINK OD1 ASP A 129 FE FE A 191 1555 1555 2.16 LINK FE FE A 190 O1 PO4 A 192 1555 1555 2.18 LINK FE FE A 190 O HOH A 195 1555 1555 2.05 LINK FE FE A 190 O HOH A 199 1555 1555 2.10 LINK FE FE A 191 O4 PO4 A 192 1555 1555 2.36 LINK FE FE A 191 O HOH A 195 1555 1555 1.71 SITE 1 AC1 5 ASP A 52 HIS A 85 HIS A 111 HOH A 195 SITE 2 AC1 5 HOH A 199 SITE 1 AC2 5 HIS A 22 HIS A 51 ASP A 52 ASP A 129 SITE 2 AC2 5 HOH A 195 SITE 1 AC3 15 ARG A 19 HIS A 22 ASP A 52 LYS A 55 SITE 2 AC3 15 GLU A 60 GLU A 64 HIS A 85 ASP A 129 SITE 3 AC3 15 ARG A 135 HOH A 195 HOH A 199 HOH A 201 SITE 4 AC3 15 HOH A 246 HOH A 250 HOH A 261 CRYST1 90.540 36.320 72.600 90.00 125.46 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 0.011045 0.000000 0.007867 0.00000 SCALE2 0.000000 0.027533 0.000000 0.00000 SCALE3 0.000000 0.000000 0.016911 0.00000