HEADER STRUCTURAL GENOMICS, UNKNOWN FUNCTION 03-JUN-08 3DC7 TITLE CRYSTAL STRUCTURE OF THE PROTEIN Q88SR8 FROM LACTOBACILLUS PLANTARUM. TITLE 2 NORTHEAST STRUCTURAL GENOMICS CONSORTIUM TARGET LPR109. COMPND MOL_ID: 1; COMPND 2 MOLECULE: PUTATIVE UNCHARACTERIZED PROTEIN LP_3323; COMPND 3 CHAIN: A, B, C SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: LACTOBACILLUS PLANTARUM; SOURCE 3 ORGANISM_TAXID: 1590 KEYWDS NESG LPR109 X-RAY LP_3323, STRUCTURAL GENOMICS, PSI-2, PROTEIN KEYWDS 2 STRUCTURE INITIATIVE, NORTHEAST STRUCTURAL GENOMICS CONSORTIUM, KEYWDS 3 UNKNOWN FUNCTION EXPDTA X-RAY DIFFRACTION AUTHOR A.P.KUZIN,M.ABASHIDZE,S.M.VOROBIEV,J.SEETHARAMAN,L.ZHAO,L.MAO, AUTHOR 2 C.CICCOSANTI,R.XIAO,R.NAIR,M.C.BARAN,T.B.ACTON,B.ROST, AUTHOR 3 G.T.MONTELIONE,J.F.HUNT,L.TONG,NORTHEAST STRUCTURAL GENOMICS AUTHOR 4 CONSORTIUM (NESG) REVDAT 4 25-OCT-17 3DC7 1 REMARK REVDAT 3 13-JUL-11 3DC7 1 VERSN REVDAT 2 24-FEB-09 3DC7 1 VERSN REVDAT 1 05-AUG-08 3DC7 0 JRNL AUTH A.P.KUZIN,M.ABASHIDZE,S.M.VOROBIEV,J.SEETHARAMAN,L.ZHAO, JRNL AUTH 2 L.MAO,C.CICCOSANTI,R.XIAO,R.NAIR,M.C.BARAN,T.B.ACTON,B.ROST, JRNL AUTH 3 G.T.MONTELIONE,J.F.HUNT,L.TONG JRNL TITL CRYSTAL STRUCTURE OF THE PROTEIN Q88SR8 FROM LACTOBACILLUS JRNL TITL 2 PLANTARUM. NORTHEAST STRUCTURAL GENOMICS CONSORTIUM TARGET JRNL TITL 3 LPR109. (CASP TARGET) JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 2.12 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) : 2.12 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 19.74 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 3 NUMBER OF REFLECTIONS : 29260 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) : 0.186 REMARK 3 R VALUE (WORKING SET) : 0.184 REMARK 3 FREE R VALUE : 0.224 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 1572 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) : 2.12 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.18 REMARK 3 REFLECTION IN BIN (WORKING SET) : 1527 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 100.0 REMARK 3 BIN R VALUE (WORKING SET) : 0.2180 REMARK 3 BIN FREE R VALUE SET COUNT : 73 REMARK 3 BIN FREE R VALUE : 0.3480 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 4852 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 18 REMARK 3 SOLVENT ATOMS : 155 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 29.19 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.02000 REMARK 3 B22 (A**2) : -0.02000 REMARK 3 B33 (A**2) : 0.01000 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): 0.299 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.202 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.142 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 5.470 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.949 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.929 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 5087 ; 0.010 ; 0.021 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 6878 ; 1.270 ; 1.927 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 637 ; 6.088 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 245 ;34.960 ;23.388 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 727 ;16.249 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 30 ;21.199 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 734 ; 0.085 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 3980 ; 0.004 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 2407 ; 0.196 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 3444 ; 0.310 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 236 ; 0.152 ; 0.200 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): 26 ; 0.233 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 9 ; 0.199 ; 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): 3136 ; 0.667 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 4999 ; 1.318 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1996 ; 2.352 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1876 ; 3.564 ; 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 : 1 REMARK 3 REMARK 3 TLS GROUP : 1 REMARK 3 NUMBER OF COMPONENTS GROUP : 9 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : B 236 B 279 REMARK 3 RESIDUE RANGE : C 250 C 308 REMARK 3 RESIDUE RANGE : A 236 A 291 REMARK 3 RESIDUE RANGE : B 233 B 234 REMARK 3 RESIDUE RANGE : C 233 C 234 REMARK 3 RESIDUE RANGE : A 233 A 235 REMARK 3 RESIDUE RANGE : B 18 B 226 REMARK 3 RESIDUE RANGE : C 18 C 225 REMARK 3 RESIDUE RANGE : A 18 A 230 REMARK 3 ORIGIN FOR THE GROUP (A): 7.1310 45.6390 77.0760 REMARK 3 T TENSOR REMARK 3 T11: -0.0865 T22: -0.0340 REMARK 3 T33: -0.0362 T12: -0.0015 REMARK 3 T13: 0.0112 T23: -0.0056 REMARK 3 L TENSOR REMARK 3 L11: 0.2344 L22: 0.8311 REMARK 3 L33: 0.7256 L12: -0.0329 REMARK 3 L13: -0.0426 L23: 0.2843 REMARK 3 S TENSOR REMARK 3 S11: 0.0007 S12: -0.0288 S13: 0.0543 REMARK 3 S21: -0.0250 S22: 0.0238 S23: 0.0296 REMARK 3 S31: -0.0852 S32: -0.0393 S33: -0.0245 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 : 1.20 REMARK 3 ION PROBE RADIUS : 0.80 REMARK 3 SHRINKAGE RADIUS : 0.80 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 3DC7 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 09-JUN-08. REMARK 100 THE DEPOSITION ID IS D_1000047855. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 22-MAY-08 REMARK 200 TEMPERATURE (KELVIN) : 100 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) : 0.9791, 0.9679, 0.9794 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MARMOSAIC 325 MM CCD REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 54518 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.120 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : -3.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.1 REMARK 200 DATA REDUNDANCY : 9.700 REMARK 200 R MERGE (I) : 0.07800 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 20.4000 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 (%) : 97.5 REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : 0.22900 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 7.500 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: MAD REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MAD REMARK 200 SOFTWARE USED: SNB REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 38.71 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.01 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.1M MGSO4, 0.1M BIS-TRIS, 16% PEG8K, REMARK 280 PH 5.5, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 293K 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 24.30500 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 62.77500 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 50.72000 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 62.77500 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 24.30500 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 50.72000 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: TRIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TRIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 4880 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 21760 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -19.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B, C 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 MSE A 1 REMARK 465 ILE A 2 REMARK 465 ALA A 3 REMARK 465 MSE A 4 REMARK 465 ILE A 5 REMARK 465 VAL A 6 REMARK 465 LYS A 7 REMARK 465 GLY A 8 REMARK 465 GLY A 9 REMARK 465 LEU A 10 REMARK 465 ALA A 11 REMARK 465 MSE A 12 REMARK 465 ALA A 13 REMARK 465 ILE A 14 REMARK 465 SER A 15 REMARK 465 ASN A 16 REMARK 465 GLY A 17 REMARK 465 HIS A 231 REMARK 465 HIS A 232 REMARK 465 MSE B 1 REMARK 465 ILE B 2 REMARK 465 ALA B 3 REMARK 465 MSE B 4 REMARK 465 ILE B 5 REMARK 465 VAL B 6 REMARK 465 LYS B 7 REMARK 465 GLY B 8 REMARK 465 GLY B 9 REMARK 465 LEU B 10 REMARK 465 ALA B 11 REMARK 465 MSE B 12 REMARK 465 ALA B 13 REMARK 465 ILE B 14 REMARK 465 SER B 15 REMARK 465 ASN B 16 REMARK 465 GLY B 17 REMARK 465 HIS B 227 REMARK 465 HIS B 228 REMARK 465 HIS B 229 REMARK 465 HIS B 230 REMARK 465 HIS B 231 REMARK 465 HIS B 232 REMARK 465 MSE C 1 REMARK 465 ILE C 2 REMARK 465 ALA C 3 REMARK 465 MSE C 4 REMARK 465 ILE C 5 REMARK 465 VAL C 6 REMARK 465 LYS C 7 REMARK 465 GLY C 8 REMARK 465 GLY C 9 REMARK 465 LEU C 10 REMARK 465 ALA C 11 REMARK 465 MSE C 12 REMARK 465 ALA C 13 REMARK 465 ILE C 14 REMARK 465 SER C 15 REMARK 465 ASN C 16 REMARK 465 GLY C 17 REMARK 465 GLU C 226 REMARK 465 HIS C 227 REMARK 465 HIS C 228 REMARK 465 HIS C 229 REMARK 465 HIS C 230 REMARK 465 HIS C 231 REMARK 465 HIS C 232 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 ARG C 75 NE - CZ - NH2 ANGL. DEV. = -3.1 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 29 -144.47 -107.67 REMARK 500 ASN A 35 28.64 -66.49 REMARK 500 VAL A 151 -77.91 -109.97 REMARK 500 ASP A 200 21.41 -157.95 REMARK 500 LEU A 202 -53.84 -128.97 REMARK 500 ASP B 29 -142.48 -111.02 REMARK 500 VAL B 151 -77.85 -106.37 REMARK 500 ASP B 200 17.99 -152.15 REMARK 500 LEU B 202 -55.08 -125.55 REMARK 500 ASP C 29 -143.59 -106.40 REMARK 500 ASN C 35 20.97 -141.14 REMARK 500 VAL C 151 -82.48 -102.82 REMARK 500 ASP C 200 22.89 -162.49 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 C 233 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 183 OD1 REMARK 620 2 HIS C 177 N 129.0 REMARK 620 3 HOH A 289 O 70.1 154.6 REMARK 620 N 1 2 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 NA B 233 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP B 29 N REMARK 620 2 ASP B 29 OD1 81.3 REMARK 620 3 PHE B 89 O 103.2 116.0 REMARK 620 N 1 2 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 A 233 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NA B 233 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG B 234 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 A 235 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NA C 233 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 C 234 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: LPR109 RELATED DB: TARGETDB DBREF 3DC7 A 1 224 UNP Q88SR8 Q88SR8_LACPL 1 224 DBREF 3DC7 B 1 224 UNP Q88SR8 Q88SR8_LACPL 1 224 DBREF 3DC7 C 1 224 UNP Q88SR8 Q88SR8_LACPL 1 224 SEQADV 3DC7 LEU A 225 UNP Q88SR8 EXPRESSION TAG SEQADV 3DC7 GLU A 226 UNP Q88SR8 EXPRESSION TAG SEQADV 3DC7 HIS A 227 UNP Q88SR8 EXPRESSION TAG SEQADV 3DC7 HIS A 228 UNP Q88SR8 EXPRESSION TAG SEQADV 3DC7 HIS A 229 UNP Q88SR8 EXPRESSION TAG SEQADV 3DC7 HIS A 230 UNP Q88SR8 EXPRESSION TAG SEQADV 3DC7 HIS A 231 UNP Q88SR8 EXPRESSION TAG SEQADV 3DC7 HIS A 232 UNP Q88SR8 EXPRESSION TAG SEQADV 3DC7 LEU B 225 UNP Q88SR8 EXPRESSION TAG SEQADV 3DC7 GLU B 226 UNP Q88SR8 EXPRESSION TAG SEQADV 3DC7 HIS B 227 UNP Q88SR8 EXPRESSION TAG SEQADV 3DC7 HIS B 228 UNP Q88SR8 EXPRESSION TAG SEQADV 3DC7 HIS B 229 UNP Q88SR8 EXPRESSION TAG SEQADV 3DC7 HIS B 230 UNP Q88SR8 EXPRESSION TAG SEQADV 3DC7 HIS B 231 UNP Q88SR8 EXPRESSION TAG SEQADV 3DC7 HIS B 232 UNP Q88SR8 EXPRESSION TAG SEQADV 3DC7 LEU C 225 UNP Q88SR8 EXPRESSION TAG SEQADV 3DC7 GLU C 226 UNP Q88SR8 EXPRESSION TAG SEQADV 3DC7 HIS C 227 UNP Q88SR8 EXPRESSION TAG SEQADV 3DC7 HIS C 228 UNP Q88SR8 EXPRESSION TAG SEQADV 3DC7 HIS C 229 UNP Q88SR8 EXPRESSION TAG SEQADV 3DC7 HIS C 230 UNP Q88SR8 EXPRESSION TAG SEQADV 3DC7 HIS C 231 UNP Q88SR8 EXPRESSION TAG SEQADV 3DC7 HIS C 232 UNP Q88SR8 EXPRESSION TAG SEQRES 1 A 232 MSE ILE ALA MSE ILE VAL LYS GLY GLY LEU ALA MSE ALA SEQRES 2 A 232 ILE SER ASN GLY HIS VAL SER PHE LYS ARG PRO ALA TRP SEQRES 3 A 232 LEU GLY ASP SER ILE THR ALA ASN ASN GLY LEU ALA THR SEQRES 4 A 232 VAL HIS TYR HIS ASP ILE LEU ALA ALA ASP TRP ASP VAL SEQRES 5 A 232 GLU ARG SER ASP ASN LEU GLY ILE SER GLY SER THR ILE SEQRES 6 A 232 GLY SER ARG TYR ASP ALA MSE ALA VAL ARG TYR GLN ALA SEQRES 7 A 232 ILE PRO GLU ASP ALA ASP PHE ILE ALA VAL PHE GLY GLY SEQRES 8 A 232 VAL ASN ASP TYR GLY ARG ASP GLN PRO LEU GLY GLN TYR SEQRES 9 A 232 GLY ASP CYS ASP MSE THR THR PHE TYR GLY ALA LEU MSE SEQRES 10 A 232 MSE LEU LEU THR GLY LEU GLN THR ASN TRP PRO THR VAL SEQRES 11 A 232 PRO LYS LEU PHE ILE SER ALA ILE HIS ILE GLY SER ASP SEQRES 12 A 232 PHE GLY GLY SER PHE SER ALA VAL THR ASN GLY LEU GLY SEQRES 13 A 232 TYR ARG GLN SER ASP TYR GLU ALA ALA ILE ALA GLN MSE SEQRES 14 A 232 THR ALA ASP TYR GLY VAL PRO HIS LEU SER LEU TYR ARG SEQRES 15 A 232 ASP ALA GLY MSE THR PHE ALA ILE PRO ALA GLN ALA ALA SEQRES 16 A 232 ILE TYR SER VAL ASP THR LEU HIS PRO ASN ASN ALA GLY SEQRES 17 A 232 HIS ARG VAL ILE ALA ARG LYS LEU GLN SER PHE LEU ASP SEQRES 18 A 232 SER HIS PHE LEU GLU HIS HIS HIS HIS HIS HIS SEQRES 1 B 232 MSE ILE ALA MSE ILE VAL LYS GLY GLY LEU ALA MSE ALA SEQRES 2 B 232 ILE SER ASN GLY HIS VAL SER PHE LYS ARG PRO ALA TRP SEQRES 3 B 232 LEU GLY ASP SER ILE THR ALA ASN ASN GLY LEU ALA THR SEQRES 4 B 232 VAL HIS TYR HIS ASP ILE LEU ALA ALA ASP TRP ASP VAL SEQRES 5 B 232 GLU ARG SER ASP ASN LEU GLY ILE SER GLY SER THR ILE SEQRES 6 B 232 GLY SER ARG TYR ASP ALA MSE ALA VAL ARG TYR GLN ALA SEQRES 7 B 232 ILE PRO GLU ASP ALA ASP PHE ILE ALA VAL PHE GLY GLY SEQRES 8 B 232 VAL ASN ASP TYR GLY ARG ASP GLN PRO LEU GLY GLN TYR SEQRES 9 B 232 GLY ASP CYS ASP MSE THR THR PHE TYR GLY ALA LEU MSE SEQRES 10 B 232 MSE LEU LEU THR GLY LEU GLN THR ASN TRP PRO THR VAL SEQRES 11 B 232 PRO LYS LEU PHE ILE SER ALA ILE HIS ILE GLY SER ASP SEQRES 12 B 232 PHE GLY GLY SER PHE SER ALA VAL THR ASN GLY LEU GLY SEQRES 13 B 232 TYR ARG GLN SER ASP TYR GLU ALA ALA ILE ALA GLN MSE SEQRES 14 B 232 THR ALA ASP TYR GLY VAL PRO HIS LEU SER LEU TYR ARG SEQRES 15 B 232 ASP ALA GLY MSE THR PHE ALA ILE PRO ALA GLN ALA ALA SEQRES 16 B 232 ILE TYR SER VAL ASP THR LEU HIS PRO ASN ASN ALA GLY SEQRES 17 B 232 HIS ARG VAL ILE ALA ARG LYS LEU GLN SER PHE LEU ASP SEQRES 18 B 232 SER HIS PHE LEU GLU HIS HIS HIS HIS HIS HIS SEQRES 1 C 232 MSE ILE ALA MSE ILE VAL LYS GLY GLY LEU ALA MSE ALA SEQRES 2 C 232 ILE SER ASN GLY HIS VAL SER PHE LYS ARG PRO ALA TRP SEQRES 3 C 232 LEU GLY ASP SER ILE THR ALA ASN ASN GLY LEU ALA THR SEQRES 4 C 232 VAL HIS TYR HIS ASP ILE LEU ALA ALA ASP TRP ASP VAL SEQRES 5 C 232 GLU ARG SER ASP ASN LEU GLY ILE SER GLY SER THR ILE SEQRES 6 C 232 GLY SER ARG TYR ASP ALA MSE ALA VAL ARG TYR GLN ALA SEQRES 7 C 232 ILE PRO GLU ASP ALA ASP PHE ILE ALA VAL PHE GLY GLY SEQRES 8 C 232 VAL ASN ASP TYR GLY ARG ASP GLN PRO LEU GLY GLN TYR SEQRES 9 C 232 GLY ASP CYS ASP MSE THR THR PHE TYR GLY ALA LEU MSE SEQRES 10 C 232 MSE LEU LEU THR GLY LEU GLN THR ASN TRP PRO THR VAL SEQRES 11 C 232 PRO LYS LEU PHE ILE SER ALA ILE HIS ILE GLY SER ASP SEQRES 12 C 232 PHE GLY GLY SER PHE SER ALA VAL THR ASN GLY LEU GLY SEQRES 13 C 232 TYR ARG GLN SER ASP TYR GLU ALA ALA ILE ALA GLN MSE SEQRES 14 C 232 THR ALA ASP TYR GLY VAL PRO HIS LEU SER LEU TYR ARG SEQRES 15 C 232 ASP ALA GLY MSE THR PHE ALA ILE PRO ALA GLN ALA ALA SEQRES 16 C 232 ILE TYR SER VAL ASP THR LEU HIS PRO ASN ASN ALA GLY SEQRES 17 C 232 HIS ARG VAL ILE ALA ARG LYS LEU GLN SER PHE LEU ASP SEQRES 18 C 232 SER HIS PHE LEU GLU HIS HIS HIS HIS HIS HIS MODRES 3DC7 MSE A 72 MET SELENOMETHIONINE MODRES 3DC7 MSE A 109 MET SELENOMETHIONINE MODRES 3DC7 MSE A 117 MET SELENOMETHIONINE MODRES 3DC7 MSE A 118 MET SELENOMETHIONINE MODRES 3DC7 MSE A 169 MET SELENOMETHIONINE MODRES 3DC7 MSE A 186 MET SELENOMETHIONINE MODRES 3DC7 MSE B 72 MET SELENOMETHIONINE MODRES 3DC7 MSE B 109 MET SELENOMETHIONINE MODRES 3DC7 MSE B 117 MET SELENOMETHIONINE MODRES 3DC7 MSE B 118 MET SELENOMETHIONINE MODRES 3DC7 MSE B 169 MET SELENOMETHIONINE MODRES 3DC7 MSE B 186 MET SELENOMETHIONINE MODRES 3DC7 MSE C 72 MET SELENOMETHIONINE MODRES 3DC7 MSE C 109 MET SELENOMETHIONINE MODRES 3DC7 MSE C 117 MET SELENOMETHIONINE MODRES 3DC7 MSE C 118 MET SELENOMETHIONINE MODRES 3DC7 MSE C 169 MET SELENOMETHIONINE MODRES 3DC7 MSE C 186 MET SELENOMETHIONINE HET MSE A 72 8 HET MSE A 109 8 HET MSE A 117 8 HET MSE A 118 8 HET MSE A 169 8 HET MSE A 186 8 HET MSE B 72 8 HET MSE B 109 8 HET MSE B 117 8 HET MSE B 118 8 HET MSE B 169 8 HET MSE B 186 8 HET MSE C 72 8 HET MSE C 109 8 HET MSE C 117 8 HET MSE C 118 8 HET MSE C 169 8 HET MSE C 186 8 HET SO4 A 233 5 HET SO4 A 235 5 HET NA B 233 1 HET MG B 234 1 HET NA C 233 1 HET SO4 C 234 5 HETNAM MSE SELENOMETHIONINE HETNAM SO4 SULFATE ION HETNAM NA SODIUM ION HETNAM MG MAGNESIUM ION FORMUL 1 MSE 18(C5 H11 N O2 SE) FORMUL 4 SO4 3(O4 S 2-) FORMUL 6 NA 2(NA 1+) FORMUL 7 MG MG 2+ FORMUL 10 HOH *155(H2 O) HELIX 1 1 HIS A 41 ASP A 51 1 11 HELIX 2 2 ALA A 71 TYR A 76 1 6 HELIX 3 3 GLN A 77 ILE A 79 5 3 HELIX 4 4 GLY A 91 ARG A 97 1 7 HELIX 5 5 THR A 111 TRP A 127 1 17 HELIX 6 6 ARG A 158 TYR A 173 1 16 HELIX 7 7 LEU A 180 ALA A 184 1 5 HELIX 8 8 ILE A 190 SER A 198 1 9 HELIX 9 9 ASN A 205 PHE A 224 1 20 HELIX 10 10 LEU A 225 HIS A 228 5 4 HELIX 11 11 HIS B 41 ASP B 51 1 11 HELIX 12 12 ALA B 71 TYR B 76 1 6 HELIX 13 13 GLN B 77 ILE B 79 5 3 HELIX 14 14 GLY B 91 ARG B 97 1 7 HELIX 15 15 THR B 111 TRP B 127 1 17 HELIX 16 16 ARG B 158 TYR B 173 1 16 HELIX 17 17 LEU B 180 ALA B 184 1 5 HELIX 18 18 ILE B 190 SER B 198 1 9 HELIX 19 19 ASN B 205 PHE B 224 1 20 HELIX 20 20 HIS C 41 ASP C 51 1 11 HELIX 21 21 ALA C 71 TYR C 76 1 6 HELIX 22 22 GLN C 77 ILE C 79 5 3 HELIX 23 23 GLY C 91 ARG C 97 1 7 HELIX 24 24 THR C 111 TRP C 127 1 17 HELIX 25 25 ARG C 158 TYR C 173 1 16 HELIX 26 26 LEU C 180 ALA C 184 1 5 HELIX 27 27 ILE C 190 SER C 198 1 9 HELIX 28 28 ASN C 205 PHE C 224 1 20 SHEET 1 A 5 ASP A 56 GLY A 59 0 SHEET 2 A 5 PRO A 24 GLY A 28 1 N TRP A 26 O LEU A 58 SHEET 3 A 5 PHE A 85 PHE A 89 1 O ALA A 87 N LEU A 27 SHEET 4 A 5 LYS A 132 SER A 136 1 O ILE A 135 N VAL A 88 SHEET 5 A 5 HIS A 177 SER A 179 1 O LEU A 178 N PHE A 134 SHEET 1 B 5 ASP B 56 GLY B 59 0 SHEET 2 B 5 PRO B 24 GLY B 28 1 N TRP B 26 O ASP B 56 SHEET 3 B 5 PHE B 85 PHE B 89 1 O PHE B 89 N LEU B 27 SHEET 4 B 5 LYS B 132 SER B 136 1 O ILE B 135 N VAL B 88 SHEET 5 B 5 HIS B 177 SER B 179 1 O LEU B 178 N PHE B 134 SHEET 1 C 5 ASP C 56 GLY C 59 0 SHEET 2 C 5 PRO C 24 GLY C 28 1 N TRP C 26 O ASP C 56 SHEET 3 C 5 PHE C 85 PHE C 89 1 O PHE C 89 N LEU C 27 SHEET 4 C 5 LYS C 132 SER C 136 1 O ILE C 135 N VAL C 88 SHEET 5 C 5 HIS C 177 SER C 179 1 O LEU C 178 N PHE C 134 LINK C ALA A 71 N MSE A 72 1555 1555 1.32 LINK C MSE A 72 N ALA A 73 1555 1555 1.32 LINK C ASP A 108 N MSE A 109 1555 1555 1.33 LINK C MSE A 109 N THR A 110 1555 1555 1.33 LINK C LEU A 116 N MSE A 117 1555 1555 1.34 LINK C MSE A 117 N MSE A 118 1555 1555 1.33 LINK C MSE A 118 N LEU A 119 1555 1555 1.33 LINK C GLN A 168 N MSE A 169 1555 1555 1.32 LINK C MSE A 169 N THR A 170 1555 1555 1.33 LINK C GLY A 185 N MSE A 186 1555 1555 1.33 LINK C MSE A 186 N THR A 187 1555 1555 1.33 LINK C ALA B 71 N MSE B 72 1555 1555 1.33 LINK C MSE B 72 N ALA B 73 1555 1555 1.33 LINK C ASP B 108 N MSE B 109 1555 1555 1.32 LINK C MSE B 109 N THR B 110 1555 1555 1.34 LINK C LEU B 116 N MSE B 117 1555 1555 1.33 LINK C MSE B 117 N MSE B 118 1555 1555 1.33 LINK C MSE B 118 N LEU B 119 1555 1555 1.33 LINK C GLN B 168 N MSE B 169 1555 1555 1.33 LINK C MSE B 169 N THR B 170 1555 1555 1.33 LINK C GLY B 185 N MSE B 186 1555 1555 1.33 LINK C MSE B 186 N THR B 187 1555 1555 1.33 LINK C ALA C 71 N MSE C 72 1555 1555 1.33 LINK C MSE C 72 N ALA C 73 1555 1555 1.33 LINK C ASP C 108 N MSE C 109 1555 1555 1.33 LINK C MSE C 109 N THR C 110 1555 1555 1.33 LINK C LEU C 116 N MSE C 117 1555 1555 1.31 LINK C MSE C 117 N MSE C 118 1555 1555 1.33 LINK C MSE C 118 N LEU C 119 1555 1555 1.33 LINK C GLN C 168 N MSE C 169 1555 1555 1.33 LINK C MSE C 169 N THR C 170 1555 1555 1.33 LINK C GLY C 185 N MSE C 186 1555 1555 1.33 LINK C MSE C 186 N THR C 187 1555 1555 1.33 LINK OD1 ASP A 183 NA NA C 233 1555 1555 2.28 LINK N ASP B 29 NA NA B 233 1555 1555 2.39 LINK OD1 ASP B 29 NA NA B 233 1555 1555 2.24 LINK O PHE B 89 NA NA B 233 1555 1555 2.28 LINK OG SER B 160 MG MG B 234 1555 1555 2.18 LINK N HIS C 177 NA NA C 233 1555 1555 2.40 LINK NA NA C 233 O HOH A 289 1555 1555 2.25 SITE 1 AC1 3 ASN A 205 ASN A 206 HOH A 251 SITE 1 AC2 4 GLY B 28 ASP B 29 THR B 32 PHE B 89 SITE 1 AC3 2 SER B 160 ASP B 161 SITE 1 AC4 9 ALA A 167 THR A 170 ALA A 171 VAL A 175 SITE 2 AC4 9 PRO A 176 HIS A 177 HOH A 290 HOH A 291 SITE 3 AC4 9 ARG B 182 SITE 1 AC5 4 ASP A 183 HOH A 289 PRO C 176 HIS C 177 SITE 1 AC6 9 ILE C 45 GLY C 141 SER C 142 ALA C 150 SITE 2 AC6 9 PHE C 188 ALA C 189 ASN C 206 ARG C 210 SITE 3 AC6 9 HOH C 279 CRYST1 48.610 101.440 125.550 90.00 90.00 90.00 P 21 21 21 12 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 0.020572 0.000000 0.000000 0.00000 SCALE2 0.000000 0.009858 0.000000 0.00000 SCALE3 0.000000 0.000000 0.007965 0.00000