HEADER HYDROLASE 08-JUL-09 3I7M TITLE N-TERMINAL DOMAIN OF XAA-PRO DIPEPTIDASE FROM LACTOBACILLUS BREVIS. COMPND MOL_ID: 1; COMPND 2 MOLECULE: XAA-PRO DIPEPTIDASE; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: MERNAME-AA019 PEPTIDASE. METALLO PEPTIDASE. MEROPS FAMILY COMPND 5 M24B; COMPND 6 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: LACTOBACILLUS BREVIS; SOURCE 3 ORGANISM_TAXID: 387344; SOURCE 4 STRAIN: ATCC 367; SOURCE 5 GENE: LVIS_1204; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 7 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PET15B MODIFIED KEYWDS STRUCTURAL GENOMICS, APC64794.2, XAA-PRO DIPEPTIDASE, METALLO KEYWDS 2 PEPTIDASE, CREATINASE/PROLIDASE N-TERMINAL DOMAIN, PSI-2, PROTEIN KEYWDS 3 STRUCTURE INITIATIVE, MIDWEST CENTER FOR STRUCTURAL GENOMICS, MCSG, KEYWDS 4 HYDROLASE EXPDTA X-RAY DIFFRACTION AUTHOR J.OSIPIUK,X.XU,H.CUI,J.NG,A.SAVCHENKO,A.M.EDWARDS,A.JOACHIMIAK, AUTHOR 2 MIDWEST CENTER FOR STRUCTURAL GENOMICS (MCSG) REVDAT 4 20-NOV-24 3I7M 1 LINK REVDAT 3 01-NOV-17 3I7M 1 REMARK REVDAT 2 13-JUL-11 3I7M 1 VERSN REVDAT 1 14-JUL-09 3I7M 0 JRNL AUTH J.OSIPIUK,X.XU,H.CUI,J.NG,A.SAVCHENKO,A.M.EDWARDS, JRNL AUTH 2 A.JOACHIMIAK JRNL TITL X-RAY CRYSTAL STRUCTURE OF N-TERMINAL DOMAIN OF XAA-PRO JRNL TITL 2 DIPEPTIDASE FROM LACTOBACILLUS BREVIS. JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 1.46 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.5.0054 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) : 1.46 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 36.50 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.4 REMARK 3 NUMBER OF REFLECTIONS : 22596 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) : 0.164 REMARK 3 R VALUE (WORKING SET) : 0.163 REMARK 3 FREE R VALUE : 0.198 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 1149 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) : 1.46 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.49 REMARK 3 REFLECTION IN BIN (WORKING SET) : 1515 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 95.05 REMARK 3 BIN R VALUE (WORKING SET) : 0.2750 REMARK 3 BIN FREE R VALUE SET COUNT : 79 REMARK 3 BIN FREE R VALUE : 0.2970 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 1077 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 0 REMARK 3 SOLVENT ATOMS : 193 REMARK 3 REMARK 3 B VALUES. REMARK 3 B VALUE TYPE : LIKELY RESIDUAL REMARK 3 FROM WILSON PLOT (A**2) : 27.00 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 16.36 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.37000 REMARK 3 B22 (A**2) : -0.33000 REMARK 3 B33 (A**2) : 0.15000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 0.38000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.071 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.074 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.045 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 2.605 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.973 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): 1229 ; 0.020 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): 803 ; 0.001 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 1699 ; 1.791 ; 1.927 REMARK 3 BOND ANGLES OTHERS (DEGREES): 1993 ; 0.998 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 163 ; 6.072 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 67 ;32.960 ;25.672 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 205 ;13.664 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 3 ;26.763 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 183 ; 0.109 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 1415 ; 0.010 ; 0.021 REMARK 3 GENERAL PLANES OTHERS (A): 241 ; 0.003 ; 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): 731 ; 1.107 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 284 ; 0.364 ; 1.500 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 1206 ; 1.803 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 498 ; 2.710 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 479 ; 4.123 ; 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 : 2 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 2 A 90 REMARK 3 ORIGIN FOR THE GROUP (A): 9.8130 5.3560 10.3614 REMARK 3 T TENSOR REMARK 3 T11: 0.0667 T22: 0.0487 REMARK 3 T33: 0.0324 T12: 0.0524 REMARK 3 T13: -0.0055 T23: -0.0063 REMARK 3 L TENSOR REMARK 3 L11: 1.8307 L22: 1.9316 REMARK 3 L33: 0.7059 L12: -1.0189 REMARK 3 L13: -0.1976 L23: -0.0956 REMARK 3 S TENSOR REMARK 3 S11: 0.1662 S12: 0.0649 S13: 0.0519 REMARK 3 S21: -0.1267 S22: -0.1299 S23: 0.0571 REMARK 3 S31: -0.0894 S32: -0.0474 S33: -0.0363 REMARK 3 REMARK 3 TLS GROUP : 2 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 91 A 135 REMARK 3 ORIGIN FOR THE GROUP (A): 15.8872 -3.4276 14.8207 REMARK 3 T TENSOR REMARK 3 T11: 0.0467 T22: 0.0333 REMARK 3 T33: 0.0619 T12: 0.0199 REMARK 3 T13: -0.0103 T23: -0.0060 REMARK 3 L TENSOR REMARK 3 L11: 1.7196 L22: 1.4355 REMARK 3 L33: 1.1746 L12: -0.5655 REMARK 3 L13: 0.2869 L23: 0.4607 REMARK 3 S TENSOR REMARK 3 S11: 0.1399 S12: 0.0395 S13: -0.1126 REMARK 3 S21: -0.1098 S22: -0.1072 S23: 0.0102 REMARK 3 S31: -0.0402 S32: -0.0179 S33: -0.0327 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 U VALUES : RESIDUAL ONLY REMARK 4 REMARK 4 3I7M COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 09-JUL-09. REMARK 100 THE DEPOSITION ID IS D_1000054065. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 29-JUN-09 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 8.5 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) : 0.9792 REMARK 200 MONOCHROMATOR : DOUBLE CRYSTAL MONOCHROMATOR REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 210R REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO, HKL-3000 REMARK 200 DATA SCALING SOFTWARE : SCALEPACK, HKL-3000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 22642 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.460 REMARK 200 RESOLUTION RANGE LOW (A) : 36.500 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 200 DATA REDUNDANCY : 9.100 REMARK 200 R MERGE (I) : 0.05300 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 14.6000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.46 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.49 REMARK 200 COMPLETENESS FOR SHELL (%) : 98.8 REMARK 200 DATA REDUNDANCY IN SHELL : 3.20 REMARK 200 R MERGE FOR SHELL (I) : 0.55000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> FOR SHELL : 2.050 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: SAD REMARK 200 SOFTWARE USED: SHELXD, MLPHARE, DM, SOLVE, RESOLVE, HKL-3000 REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 39.49 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.03 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.1 M TRIS BUFFER, 0.2 M AMMONIUM REMARK 280 SULFATE, 25% PEG-3350, PH 8.5, VAPOR DIFFUSION, SITTING DROP, REMARK 280 TEMPERATURE 291K 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 26.93350 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 25.48100 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 26.93350 REMARK 290 SMTRY2 4 0.000000 1.000000 0.000000 25.48100 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 GLY A -1 REMARK 465 HIS A 0 REMARK 465 MSE A 1 REMARK 465 ARG A 136 REMARK 465 GLY A 137 REMARK 465 SER A 138 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 180 O HOH A 260 1.72 REMARK 500 O HOH A 180 O HOH A 204 1.78 REMARK 500 OD1 ASP A 49 O HOH A 289 1.80 REMARK 500 NE2 GLN A 8 O HOH A 290 1.91 REMARK 500 OD1 ASN A 96 O HOH A 208 2.10 REMARK 500 OD1 ASP A 78 O HOH A 293 2.11 REMARK 500 OE2 GLU A 133 O HOH A 253 2.13 REMARK 500 CG2 ILE A 38 O HOH A 252 2.15 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 192 O HOH A 299 4555 2.03 REMARK 500 O HOH A 206 O HOH A 328 3545 2.16 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 51 CB - CG - OD2 ANGL. DEV. = -6.1 DEGREES REMARK 500 ASP A 125 CB - CG - OD1 ANGL. DEV. = 5.7 DEGREES REMARK 500 ASP A 125 CB - CG - OD2 ANGL. DEV. = -6.6 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 49 21.57 -143.38 REMARK 500 GLU A 98 -96.11 -102.86 REMARK 500 ALA A 121 68.27 -160.23 REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: APC64794.2 RELATED DB: TARGETDB DBREF 3I7M A 1 136 UNP Q03R62 Q03R62_LACBA 1 136 SEQADV 3I7M GLY A -1 UNP Q03R62 EXPRESSION TAG SEQADV 3I7M HIS A 0 UNP Q03R62 EXPRESSION TAG SEQADV 3I7M GLY A 137 UNP Q03R62 EXPRESSION TAG SEQADV 3I7M SER A 138 UNP Q03R62 EXPRESSION TAG SEQRES 1 A 140 GLY HIS MSE THR LYS LEU GLU GLN ILE GLN GLN TRP THR SEQRES 2 A 140 ALA GLN HIS HIS ALA SER MSE THR TYR LEU SER ASN PRO SEQRES 3 A 140 LYS THR ILE GLU TYR LEU THR GLY PHE GLY SER ASP PRO SEQRES 4 A 140 ILE GLU ARG VAL LEU ALA LEU VAL VAL PHE PRO ASP GLN SEQRES 5 A 140 ASP PRO PHE ILE PHE ALA PRO ALA LEU GLU VAL GLU VAL SEQRES 6 A 140 ILE LYS GLU THR GLY TRP GLN PHE PRO VAL ILE GLY TYR SEQRES 7 A 140 LEU ASP HIS GLU ASN PRO TRP ALA MSE ILE ALA ASP GLN SEQRES 8 A 140 VAL LYS GLN ARG HIS VAL ASN PRO GLU HIS VAL ALA ILE SEQRES 9 A 140 GLU LYS GLY GLN LEU GLN VAL ALA ARG MSE GLU ALA LEU SEQRES 10 A 140 ALA ALA GLN PHE SER ALA PRO SER PHE ASP LEU ASP ILE SEQRES 11 A 140 THR SER PHE ILE GLU HIS MSE ARG GLY SER MODRES 3I7M MSE A 18 MET SELENOMETHIONINE MODRES 3I7M MSE A 85 MET SELENOMETHIONINE MODRES 3I7M MSE A 112 MET SELENOMETHIONINE MODRES 3I7M MSE A 135 MET SELENOMETHIONINE HET MSE A 18 8 HET MSE A 85 13 HET MSE A 112 13 HET MSE A 135 8 HETNAM MSE SELENOMETHIONINE FORMUL 1 MSE 4(C5 H11 N O2 SE) FORMUL 2 HOH *193(H2 O) HELIX 1 1 THR A 2 HIS A 14 1 13 HELIX 2 2 ASN A 23 GLY A 32 1 10 HELIX 3 3 GLU A 60 GLU A 66 1 7 HELIX 4 4 ASN A 81 ARG A 93 1 13 HELIX 5 5 GLN A 108 ALA A 117 1 10 HELIX 6 6 ILE A 128 MSE A 135 1 8 SHEET 1 A 6 VAL A 73 TYR A 76 0 SHEET 2 A 6 PHE A 53 PRO A 57 1 N ILE A 54 O ILE A 74 SHEET 3 A 6 ALA A 43 VAL A 46 -1 N VAL A 45 O PHE A 53 SHEET 4 A 6 MSE A 18 LEU A 21 -1 N LEU A 21 O LEU A 44 SHEET 5 A 6 HIS A 99 ILE A 102 1 O ALA A 101 N TYR A 20 SHEET 6 A 6 SER A 123 ASP A 127 1 O SER A 123 N VAL A 100 LINK C SER A 17 N MSE A 18 1555 1555 1.32 LINK C MSE A 18 N THR A 19 1555 1555 1.34 LINK C ALA A 84 N MSE A 85 1555 1555 1.32 LINK C MSE A 85 N ILE A 86 1555 1555 1.33 LINK C ARG A 111 N MSE A 112 1555 1555 1.34 LINK C MSE A 112 N GLU A 113 1555 1555 1.32 LINK C HIS A 134 N MSE A 135 1555 1555 1.32 CRYST1 53.867 50.962 49.289 90.00 104.33 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 0.018564 0.000000 0.004742 0.00000 SCALE2 0.000000 0.019622 0.000000 0.00000 SCALE3 0.000000 0.000000 0.020940 0.00000