HEADER STRUCTURAL GENOMICS, UNKNOWN FUNCTION 10-MAY-07 2PW6 TITLE CRYSTAL STRUCTURE OF UNCHARACTERIZED PROTEIN JW3007 FROM ESCHERICHIA TITLE 2 COLI K12 COMPND MOL_ID: 1; COMPND 2 MOLECULE: UNCHARACTERIZED PROTEIN YGID; COMPND 3 CHAIN: A; COMPND 4 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: ESCHERICHIA COLI; SOURCE 3 ORGANISM_TAXID: 83333; SOURCE 4 STRAIN: K12; SOURCE 5 GENE: YGID, B3039, JW3007; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 9 EXPRESSION_SYSTEM_PLASMID: PCR2.1-TOPO KEYWDS JW3007, UNCHARACTERIZED PROTEIN, ESCHERICHIA COLI STRUCTURAL KEYWDS 2 GENOMICS, PROTEIN STRUCTURE, RIKEN AND PSI, PROTEIN STRUCTURE KEYWDS 3 INITIATIVE, SOUTHEAST COLLABORATORY FOR STRUCTURAL GENOMICS, SECSG, KEYWDS 4 RIKEN STRUCTURAL GENOMICS/PROTEOMICS INITIATIVE, RSGI, STRUCTURAL KEYWDS 5 GENOMICS, UNKNOWN FUNCTION EXPDTA X-RAY DIFFRACTION AUTHOR M.G.NEWTON,Y.TAKAGI,A.EBIHARA,A.SHINKAI,S.KURAMITSU,S.YOKAYAMA,Y.LI, AUTHOR 2 L.CHEN,J.ZHU,J.RUBLE,Z.J.LIU,J.P.ROSE,B.-C.WANG,SOUTHEAST AUTHOR 3 COLLABORATORY FOR STRUCTURAL GENOMICS (SECSG),RIKEN STRUCTURAL AUTHOR 4 GENOMICS/PROTEOMICS INITIATIVE (RSGI) REVDAT 5 24-JAN-18 2PW6 1 AUTHOR JRNL REVDAT 4 13-SEP-17 2PW6 1 REMARK REVDAT 3 13-JUL-11 2PW6 1 VERSN REVDAT 2 24-FEB-09 2PW6 1 VERSN REVDAT 1 12-JUN-07 2PW6 0 JRNL AUTH M.G.NEWTON,Y.TAKAGI,A.EBIHARA,A.SHINKAI,S.KURAMITSU, JRNL AUTH 2 S.YOKAYAMA,Y.LI,L.CHEN,J.ZHU,J.RUBLE,Z.J.LIU,J.P.ROSE, JRNL AUTH 3 B.-C.WANG JRNL TITL CRYSTAL STRUCTURE OF UNCHARACTERIZED PROTEIN JW3007 FROM JRNL TITL 2 ESCHERICHIA COLI K12. JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 2.27 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.2.0019 REMARK 3 AUTHORS : MURSHUDOV,VAGIN,DODSON REMARK 3 REMARK 3 REFINEMENT TARGET : MAXIMUM LIKELIHOOD REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.27 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 72.74 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 99.4 REMARK 3 NUMBER OF REFLECTIONS : 15481 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) : 0.236 REMARK 3 R VALUE (WORKING SET) : 0.235 REMARK 3 FREE R VALUE : 0.267 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 825 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) : 2.27 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.33 REMARK 3 REFLECTION IN BIN (WORKING SET) : 1101 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 97.24 REMARK 3 BIN R VALUE (WORKING SET) : 0.3480 REMARK 3 BIN FREE R VALUE SET COUNT : 61 REMARK 3 BIN FREE R VALUE : 0.3550 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 1869 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 3 REMARK 3 SOLVENT ATOMS : 51 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 48.68 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.98000 REMARK 3 B22 (A**2) : -0.98000 REMARK 3 B33 (A**2) : 1.47000 REMARK 3 B12 (A**2) : -0.49000 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): 0.270 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.218 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.169 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 6.833 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.936 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.918 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 1928 ; 0.016 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 2638 ; 1.703 ; 1.950 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 241 ; 7.772 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 77 ;38.492 ;23.896 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 281 ;15.814 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 7 ;22.464 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 286 ; 0.122 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 1484 ; 0.006 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 895 ; 0.213 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 1264 ; 0.308 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 69 ; 0.142 ; 0.200 REMARK 3 H-BOND (X...Y) OTHERS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION REFINED ATOMS (A): 2 ; 0.055 ; 0.200 REMARK 3 POTENTIAL METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW REFINED ATOMS (A): 29 ; 0.228 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 4 ; 0.245 ; 0.200 REMARK 3 SYMMETRY H-BOND OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION REFINED ATOMS (A): 1 ; 0.482 ; 0.200 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): 1236 ; 1.022 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 1942 ; 1.554 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 815 ; 2.197 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 696 ; 3.008 ; 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): 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 2PW6 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 11-MAY-07. REMARK 100 THE DEPOSITION ID IS D_1000042841. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 06-AUG-06 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 8.0 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : APS REMARK 200 BEAMLINE : 22-ID REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.97243 REMARK 200 MONOCHROMATOR : SI CHANNEL 220 REMARK 200 OPTICS : ROSENBAUM REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MARMOSAIC 300 MM CCD REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 16342 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.270 REMARK 200 RESOLUTION RANGE LOW (A) : 72.740 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 1.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.6 REMARK 200 DATA REDUNDANCY : 20.70 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : 0.09600 REMARK 200 FOR THE DATA SET : 18.1000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.27 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.35 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : 20.70 REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : 0.63000 REMARK 200 FOR SHELL : 5.630 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: SAD REMARK 200 SOFTWARE USED: SCA2STRUCTURE REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 56.83 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.85 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 2 MICROLITER DROPS CONTAINING EQUAL REMARK 280 VOLUMES OF PROTEIN CONCENTRATE (11.38 MG/ML) IN 20MM TRIS-HCL, REMARK 280 200MM NACL, 1MM DTT AND RESEVOIR SOLUTION CONTAINING 0.1M HEPES, REMARK 280 0.8M SODIUM ACETATE, AND 0.05M CADMIUM SULFATE, PH 8.0, VAPOR REMARK 280 DIFFUSION, SITTING DROP, TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 31 2 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -Y,X-Y,Z+1/3 REMARK 290 3555 -X+Y,-X,Z+2/3 REMARK 290 4555 Y,X,-Z REMARK 290 5555 X-Y,-Y,-Z+2/3 REMARK 290 6555 -X,-X+Y,-Z+1/3 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 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 2 0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 28.50300 REMARK 290 SMTRY1 3 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 3 -0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 57.00600 REMARK 290 SMTRY1 4 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 4 0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 5 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 5 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 57.00600 REMARK 290 SMTRY1 6 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 6 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 28.50300 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 300 REMARK: THE BIOLOGICAL ASSEMBLY IS A HOMO-DIMER GENERATED BY A REMARK 300 DIAGONAL TWO-FOLD ROTATION AXIS OF THE SPACE GROUP [X,Y,Z; Y,X,-Z]. REMARK 300 THE HOMO-DIMER HAS A VERY HIGH COMPLEXATION SIGNIFICANCE SCORE (CSS) REMARK 300 OF 0.967 [PISA WEB SITE RESULTS AT EBI]. THE OTHER FOUR COMPONENTS REMARK 300 OF THE UNIT CELL ARE GENERATED BY OPERATION OF THE THREE-FOLD SCREW REMARK 300 AXIS 3(1). 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: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA,PQS REMARK 350 TOTAL BURIED SURFACE AREA: 2350 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 18970 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -202.0 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 -0.500000 0.866025 0.000000 0.00000 REMARK 350 BIOMT2 2 0.866025 0.500000 0.000000 0.00000 REMARK 350 BIOMT3 2 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 ZN ZN A 273 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 MSE A 1 REMARK 465 THR A 2 REMARK 465 PRO A 3 REMARK 465 LEU A 4 REMARK 465 VAL A 5 REMARK 465 LYS A 6 REMARK 465 ASP A 7 REMARK 465 ILE A 8 REMARK 465 ILE A 9 REMARK 465 MSE A 10 REMARK 465 SER A 11 REMARK 465 SER A 12 REMARK 465 THR A 13 REMARK 465 SER A 24 REMARK 465 PRO A 71 REMARK 465 PRO A 72 REMARK 465 THR A 73 REMARK 465 ILE A 74 REMARK 465 HIS A 75 REMARK 465 ASP A 76 REMARK 465 PHE A 77 REMARK 465 GLY A 78 REMARK 465 GLY A 79 REMARK 465 PHE A 80 REMARK 465 PRO A 81 REMARK 465 GLN A 82 REMARK 465 ALA A 83 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 PRO A 25 CG CD REMARK 470 ASN A 27 CB CG OD1 ND2 REMARK 470 VAL A 28 CB CG1 CG2 REMARK 470 LEU A 29 CB CG CD1 CD2 REMARK 470 GLU A 30 CB CG CD OE1 OE2 REMARK 470 ARG A 36 CG CD NE CZ NH1 NH2 REMARK 470 SER A 37 OG REMARK 470 LYS A 40 CG CD CE NZ REMARK 470 ILE A 51 CD1 REMARK 470 GLU A 69 CG CD OE1 OE2 REMARK 470 THR A 70 OG1 CG2 REMARK 470 SER A 188 CB OG 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 SER A 37 CB LYS A 40 2.19 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 86 CB - CG - OD1 ANGL. DEV. = -5.9 DEGREES REMARK 500 ASP A 86 CB - CG - OD2 ANGL. DEV. = 7.8 DEGREES REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: TORSION ANGLES REMARK 500 REMARK 500 TORSION ANGLES OUTSIDE THE EXPECTED RAMACHANDRAN REGIONS: REMARK 500 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 500 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT:(10X,I3,1X,A3,1X,A1,I4,A1,4X,F7.2,3X,F7.2) REMARK 500 REMARK 500 EXPECTED VALUES: GJ KLEYWEGT AND TA JONES (1996). PHI/PSI- REMARK 500 CHOLOGY: RAMACHANDRAN REVISITED. STRUCTURE 4, 1395 - 1400 REMARK 500 REMARK 500 M RES CSSEQI PSI PHI REMARK 500 ASN A 27 -144.15 -147.74 REMARK 500 VAL A 28 -108.91 -162.16 REMARK 500 LEU A 29 -59.45 157.70 REMARK 500 ASP A 31 -94.11 -117.08 REMARK 500 LYS A 40 -113.73 65.64 REMARK 500 ASN A 174 115.42 -171.31 REMARK 500 HIS A 177 84.19 -158.39 REMARK 500 SER A 188 -6.37 145.38 REMARK 500 ASN A 218 40.01 -91.12 REMARK 500 ASN A 229 76.30 -151.19 REMARK 500 GLN A 248 -52.77 -122.93 REMARK 500 LEU A 266 109.38 -51.36 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: NON-CIS, NON-TRANS REMARK 500 REMARK 500 THE FOLLOWING PEPTIDE BONDS DEVIATE SIGNIFICANTLY FROM BOTH REMARK 500 CIS AND TRANS CONFORMATION. CIS BONDS, IF ANY, ARE LISTED REMARK 500 ON CISPEP RECORDS. TRANS IS DEFINED AS 180 +/- 30 AND REMARK 500 CIS IS DEFINED AS 0 +/- 30 DEGREES. REMARK 500 MODEL OMEGA REMARK 500 GLN A 39 LYS A 40 74.22 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 272 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A 22 NE2 REMARK 620 2 HIS A 57 NE2 110.8 REMARK 620 3 HIS A 234 NE2 112.7 94.5 REMARK 620 4 HOH A 277 O 84.2 160.0 91.5 REMARK 620 5 ASP A 86 OD2 106.5 78.6 140.1 84.5 REMARK 620 6 ASP A 86 OD1 152.7 86.2 86.0 75.2 54.6 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN A 274 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A 177 O REMARK 620 2 HIS A 177 ND1 77.6 REMARK 620 N 1 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN A 273 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A 121 ND1 REMARK 620 2 HIS A 121 ND1 103.7 REMARK 620 N 1 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN A 272 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN A 273 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN A 274 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: ECO002003007.1 RELATED DB: TARGETDB DBREF 2PW6 A 1 271 UNP P24197 YGID_ECOLI 1 271 SEQADV 2PW6 MSE A 1 UNP P24197 MET 1 MODIFIED RESIDUE SEQADV 2PW6 MSE A 10 UNP P24197 MET 10 MODIFIED RESIDUE SEQADV 2PW6 MSE A 15 UNP P24197 MET 15 MODIFIED RESIDUE SEQADV 2PW6 MSE A 26 UNP P24197 MET 26 MODIFIED RESIDUE SEQADV 2PW6 MSE A 43 UNP P24197 MET 43 MODIFIED RESIDUE SEQADV 2PW6 MSE A 68 UNP P24197 MET 68 MODIFIED RESIDUE SEQADV 2PW6 MSE A 130 UNP P24197 MET 130 MODIFIED RESIDUE SEQADV 2PW6 MSE A 138 UNP P24197 MET 138 MODIFIED RESIDUE SEQADV 2PW6 MSE A 155 UNP P24197 MET 155 MODIFIED RESIDUE SEQADV 2PW6 MSE A 168 UNP P24197 MET 168 MODIFIED RESIDUE SEQADV 2PW6 MSE A 260 UNP P24197 MET 260 MODIFIED RESIDUE SEQADV 2PW6 MSE A 265 UNP P24197 MET 265 MODIFIED RESIDUE SEQRES 1 A 271 MSE THR PRO LEU VAL LYS ASP ILE ILE MSE SER SER THR SEQRES 2 A 271 ARG MSE PRO ALA LEU PHE LEU GLY HIS GLY SER PRO MSE SEQRES 3 A 271 ASN VAL LEU GLU ASP ASN LEU TYR THR ARG SER TRP GLN SEQRES 4 A 271 LYS LEU GLY MSE THR LEU PRO ARG PRO GLN ALA ILE VAL SEQRES 5 A 271 VAL VAL SER ALA HIS TRP PHE THR ARG GLY THR GLY VAL SEQRES 6 A 271 THR ALA MSE GLU THR PRO PRO THR ILE HIS ASP PHE GLY SEQRES 7 A 271 GLY PHE PRO GLN ALA LEU TYR ASP THR HIS TYR PRO ALA SEQRES 8 A 271 PRO GLY SER PRO ALA LEU ALA GLN ARG LEU VAL GLU LEU SEQRES 9 A 271 LEU ALA PRO ILE PRO VAL THR LEU ASP LYS GLU ALA TRP SEQRES 10 A 271 GLY PHE ASP HIS GLY SER TRP GLY VAL LEU ILE LYS MSE SEQRES 11 A 271 TYR PRO ASP ALA ASP ILE PRO MSE VAL GLN LEU SER ILE SEQRES 12 A 271 ASP SER SER LYS PRO ALA ALA TRP HIS PHE GLU MSE GLY SEQRES 13 A 271 ARG LYS LEU ALA ALA LEU ARG ASP GLU GLY ILE MSE LEU SEQRES 14 A 271 VAL ALA SER GLY ASN VAL VAL HIS ASN LEU ARG THR VAL SEQRES 15 A 271 LYS TRP HIS GLY ASP SER SER PRO TYR PRO TRP ALA THR SEQRES 16 A 271 SER PHE ASN GLU TYR VAL LYS ALA ASN LEU THR TRP GLN SEQRES 17 A 271 GLY PRO VAL GLU GLN HIS PRO LEU VAL ASN TYR LEU ASP SEQRES 18 A 271 HIS GLU GLY GLY THR LEU SER ASN PRO THR PRO GLU HIS SEQRES 19 A 271 TYR LEU PRO LEU LEU TYR VAL LEU GLY ALA TRP ASP GLY SEQRES 20 A 271 GLN GLU PRO ILE THR ILE PRO VAL GLU GLY ILE GLU MSE SEQRES 21 A 271 GLY SER LEU SER MSE LEU SER VAL GLN ILE GLY MODRES 2PW6 MSE A 15 MET SELENOMETHIONINE MODRES 2PW6 MSE A 26 MET SELENOMETHIONINE MODRES 2PW6 MSE A 43 MET SELENOMETHIONINE MODRES 2PW6 MSE A 68 MET SELENOMETHIONINE MODRES 2PW6 MSE A 130 MET SELENOMETHIONINE MODRES 2PW6 MSE A 138 MET SELENOMETHIONINE MODRES 2PW6 MSE A 155 MET SELENOMETHIONINE MODRES 2PW6 MSE A 168 MET SELENOMETHIONINE MODRES 2PW6 MSE A 260 MET SELENOMETHIONINE MODRES 2PW6 MSE A 265 MET SELENOMETHIONINE HET MSE A 15 8 HET MSE A 26 8 HET MSE A 43 8 HET MSE A 68 8 HET MSE A 130 8 HET MSE A 138 8 HET MSE A 155 8 HET MSE A 168 8 HET MSE A 260 8 HET MSE A 265 8 HET ZN A 272 1 HET ZN A 273 1 HET ZN A 274 1 HETNAM MSE SELENOMETHIONINE HETNAM ZN ZINC ION FORMUL 1 MSE 10(C5 H11 N O2 SE) FORMUL 2 ZN 3(ZN 2+) FORMUL 5 HOH *51(H2 O) HELIX 1 1 ASN A 32 LEU A 45 1 14 HELIX 2 2 SER A 94 ALA A 106 1 13 HELIX 3 3 ASP A 120 TYR A 131 1 12 HELIX 4 4 PRO A 148 ALA A 160 1 13 HELIX 5 5 ALA A 161 GLU A 165 5 5 HELIX 6 6 TYR A 191 ALA A 203 1 13 HELIX 7 7 PRO A 210 HIS A 214 5 5 HELIX 8 8 ASN A 218 HIS A 222 5 5 HELIX 9 9 GLY A 224 ASN A 229 1 6 HELIX 10 10 TYR A 235 ALA A 244 1 10 SHEET 1 A 8 VAL A 110 ASP A 113 0 SHEET 2 A 8 THR A 63 THR A 66 1 N VAL A 65 O ASP A 113 SHEET 3 A 8 MSE A 138 ASP A 144 -1 O SER A 142 N GLY A 64 SHEET 4 A 8 ALA A 50 THR A 60 1 N TRP A 58 O ILE A 143 SHEET 5 A 8 ILE A 167 GLY A 173 1 O VAL A 170 N VAL A 54 SHEET 6 A 8 ALA A 17 GLY A 21 1 N LEU A 18 O ALA A 171 SHEET 7 A 8 VAL A 268 ILE A 270 -1 O ILE A 270 N ALA A 17 SHEET 8 A 8 ILE A 251 THR A 252 -1 N THR A 252 O GLN A 269 SHEET 1 B 2 ILE A 258 GLU A 259 0 SHEET 2 B 2 LEU A 263 SER A 264 -1 O LEU A 263 N GLU A 259 LINK NE2 HIS A 22 ZN ZN A 272 1555 1555 2.40 LINK NE2 HIS A 57 ZN ZN A 272 1555 1555 2.29 LINK O HIS A 177 ZN ZN A 274 1555 1555 2.29 LINK ND1 HIS A 177 ZN ZN A 274 1555 1555 2.05 LINK NE2 HIS A 234 ZN ZN A 272 1555 1555 1.98 LINK C ARG A 14 N MSE A 15 1555 1555 1.33 LINK C MSE A 15 N PRO A 16 1555 1555 1.35 LINK C PRO A 25 N MSE A 26 1555 1555 1.33 LINK C MSE A 26 N ASN A 27 1555 1555 1.34 LINK C GLY A 42 N MSE A 43 1555 1555 1.33 LINK C MSE A 43 N THR A 44 1555 1555 1.33 LINK C ALA A 67 N MSE A 68 1555 1555 1.34 LINK C MSE A 68 N GLU A 69 1555 1555 1.33 LINK C LYS A 129 N MSE A 130 1555 1555 1.34 LINK C MSE A 130 N TYR A 131 1555 1555 1.33 LINK C PRO A 137 N MSE A 138 1555 1555 1.33 LINK C MSE A 138 N VAL A 139 1555 1555 1.33 LINK C GLU A 154 N MSE A 155 1555 1555 1.34 LINK C MSE A 155 N GLY A 156 1555 1555 1.33 LINK C ILE A 167 N MSE A 168 1555 1555 1.33 LINK C MSE A 168 N LEU A 169 1555 1555 1.32 LINK C GLU A 259 N MSE A 260 1555 1555 1.33 LINK C MSE A 260 N GLY A 261 1555 1555 1.34 LINK C SER A 264 N MSE A 265 1555 1555 1.33 LINK C MSE A 265 N LEU A 266 1555 1555 1.33 LINK ZN ZN A 272 O HOH A 277 1555 1555 2.69 LINK ZN ZN A 273 ND1 HIS A 121 1555 1555 2.52 LINK ZN ZN A 272 OD2 ASP A 86 1555 4555 1.54 LINK ZN ZN A 272 OD1 ASP A 86 1555 4555 2.77 LINK ZN ZN A 273 ND1 HIS A 121 1555 4555 2.52 CISPEP 1 ASN A 27 VAL A 28 0 -1.55 CISPEP 2 ALA A 106 PRO A 107 0 3.23 CISPEP 3 GLY A 186 ASP A 187 0 5.14 CISPEP 4 GLU A 223 GLY A 224 0 20.99 SITE 1 AC1 5 HIS A 22 HIS A 57 ASP A 86 HIS A 234 SITE 2 AC1 5 HOH A 277 SITE 1 AC2 1 HIS A 121 SITE 1 AC3 1 HIS A 177 CRYST1 83.940 83.940 85.509 90.00 90.00 120.00 P 31 2 1 6 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 0.011913 0.006878 0.000000 0.00000 SCALE2 0.000000 0.013756 0.000000 0.00000 SCALE3 0.000000 0.000000 0.011695 0.00000