HEADER OXIDOREDUCTASE 28-JAN-08 3C3S TITLE ROLE OF A GLUTAMATE BRIDGE SPANNING THE DIMERIC INTERFACE OF HUMAN TITLE 2 MANGANESE SUPEROXIDE DISMUTASE COMPND MOL_ID: 1; COMPND 2 MOLECULE: SUPEROXIDE DISMUTASE [MN]; COMPND 3 CHAIN: A, B; COMPND 4 FRAGMENT: UNP RESIDUES 25-222; COMPND 5 EC: 1.15.1.1; COMPND 6 ENGINEERED: YES; COMPND 7 MUTATION: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 3 ORGANISM_COMMON: HUMAN; SOURCE 4 ORGANISM_TAXID: 9606; SOURCE 5 GENE: SOD2; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: QC774; SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID KEYWDS METALLOENZYME, ACETYLATION, MANGANESE, METAL-BINDING, MITOCHONDRION, KEYWDS 2 OXIDOREDUCTASE, POLYMORPHISM, TRANSIT PEPTIDE EXPDTA X-RAY DIFFRACTION AUTHOR P.S.QUINT,J.F.DOMSIC,D.E.CABELLI,R.MCKENNA,D.N.SILVERMAN REVDAT 4 30-AUG-23 3C3S 1 REMARK REVDAT 3 20-OCT-21 3C3S 1 REMARK SEQADV LINK REVDAT 2 24-FEB-09 3C3S 1 VERSN REVDAT 1 22-APR-08 3C3S 0 JRNL AUTH P.S.QUINT,J.F.DOMSIC,D.E.CABELLI,R.MCKENNA,D.N.SILVERMAN JRNL TITL ROLE OF A GLUTAMATE BRIDGE SPANNING THE DIMERIC INTERFACE OF JRNL TITL 2 HUMAN MANGANESE SUPEROXIDE DISMUTASE. JRNL REF BIOCHEMISTRY V. 47 4621 2008 JRNL REFN ISSN 0006-2960 JRNL PMID 18373354 JRNL DOI 10.1021/BI7024518 REMARK 2 REMARK 2 RESOLUTION. 2.50 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : CNS 1.2 REMARK 3 AUTHORS : BRUNGER,ADAMS,CLORE,DELANO,GROS,GROSSE- REMARK 3 : KUNSTLEVE,JIANG,KUSZEWSKI,NILGES,PANNU, REMARK 3 : READ,RICE,SIMONSON,WARREN REMARK 3 REMARK 3 REFINEMENT TARGET : ENGH & HUBER REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.50 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 19.97 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 DATA CUTOFF HIGH (ABS(F)) : 491477.910 REMARK 3 DATA CUTOFF LOW (ABS(F)) : 0.0000 REMARK 3 COMPLETENESS (WORKING+TEST) (%) : 88.6 REMARK 3 NUMBER OF REFLECTIONS : 15267 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 SET) : 0.179 REMARK 3 FREE R VALUE : 0.221 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.900 REMARK 3 FREE R VALUE TEST SET COUNT : 747 REMARK 3 ESTIMATED ERROR OF FREE R VALUE : 0.008 REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 6 REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 2.50 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.66 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 89.00 REMARK 3 REFLECTIONS IN BIN (WORKING SET) : 2347 REMARK 3 BIN R VALUE (WORKING SET) : 0.2040 REMARK 3 BIN FREE R VALUE : 0.2530 REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : 5.40 REMARK 3 BIN FREE R VALUE TEST SET COUNT : 134 REMARK 3 ESTIMATED ERROR OF BIN FREE R VALUE : 0.022 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 3100 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 12 REMARK 3 SOLVENT ATOMS : 103 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 29.40 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 27.90 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.45000 REMARK 3 B22 (A**2) : 0.45000 REMARK 3 B33 (A**2) : -0.91000 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 COORDINATE ERROR. REMARK 3 ESD FROM LUZZATI PLOT (A) : 0.23 REMARK 3 ESD FROM SIGMAA (A) : 0.17 REMARK 3 LOW RESOLUTION CUTOFF (A) : 5.00 REMARK 3 REMARK 3 CROSS-VALIDATED ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM C-V LUZZATI PLOT (A) : 0.30 REMARK 3 ESD FROM C-V SIGMAA (A) : 0.22 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 BOND LENGTHS (A) : 0.010 REMARK 3 BOND ANGLES (DEGREES) : 1.400 REMARK 3 DIHEDRAL ANGLES (DEGREES) : 21.10 REMARK 3 IMPROPER ANGLES (DEGREES) : 2.460 REMARK 3 REMARK 3 ISOTROPIC THERMAL MODEL : RESTRAINED REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. RMS SIGMA REMARK 3 MAIN-CHAIN BOND (A**2) : 1.120 ; 1.500 REMARK 3 MAIN-CHAIN ANGLE (A**2) : 1.810 ; 2.000 REMARK 3 SIDE-CHAIN BOND (A**2) : 1.890 ; 2.000 REMARK 3 SIDE-CHAIN ANGLE (A**2) : 2.830 ; 2.500 REMARK 3 REMARK 3 BULK SOLVENT MODELING. REMARK 3 METHOD USED : FLAT MODEL REMARK 3 KSOL : 0.40 REMARK 3 BSOL : 45.65 REMARK 3 REMARK 3 NCS MODEL : NULL REMARK 3 REMARK 3 NCS RESTRAINTS. RMS SIGMA/WEIGHT REMARK 3 GROUP 1 POSITIONAL (A) : NULL ; NULL REMARK 3 GROUP 1 B-FACTOR (A**2) : NULL ; NULL REMARK 3 REMARK 3 PARAMETER FILE 1 : PROTEIN_REP.PARAM REMARK 3 PARAMETER FILE 2 : ION.PARAM REMARK 3 PARAMETER FILE 3 : WATER.PARAM REMARK 3 PARAMETER FILE 4 : SULFO.PARAM REMARK 3 PARAMETER FILE 5 : NULL REMARK 3 TOPOLOGY FILE 1 : PROTEIN.TOP REMARK 3 TOPOLOGY FILE 2 : WATER.TOP REMARK 3 TOPOLOGY FILE 3 : ION.TOP REMARK 3 TOPOLOGY FILE 4 : SULFO.TOP REMARK 3 TOPOLOGY FILE 5 : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: BULK SOLVENT MODEL USED REMARK 4 REMARK 4 3C3S COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 02-FEB-08. REMARK 100 THE DEPOSITION ID IS D_1000046304. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : NULL REMARK 200 TEMPERATURE (KELVIN) : 300 REMARK 200 PH : 8.0 REMARK 200 NUMBER OF CRYSTALS USED : 2 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : N REMARK 200 RADIATION SOURCE : ROTATING ANODE REMARK 200 BEAMLINE : NULL REMARK 200 X-RAY GENERATOR MODEL : RIGAKU RUH3R REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.54178 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : OSMIC MIRRORS REMARK 200 REMARK 200 DETECTOR TYPE : IMAGE PLATE REMARK 200 DETECTOR MANUFACTURER : RIGAKU RAXIS IV++ REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 15609 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.500 REMARK 200 RESOLUTION RANGE LOW (A) : 20.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 90.1 REMARK 200 DATA REDUNDANCY : 5.400 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : 0.11400 REMARK 200 FOR THE DATA SET : 22.2000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.50 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.59 REMARK 200 COMPLETENESS FOR SHELL (%) : 92.7 REMARK 200 DATA REDUNDANCY IN SHELL : 6.20 REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : 0.21000 REMARK 200 FOR SHELL : NULL REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: CNS REMARK 200 STARTING MODEL: PDB ENTRY 1LUV REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 52.81 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.61 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 100MM IMIDZOLE, 100MM MALIC ACID, 3.0M REMARK 280 AMMONIUM SULFATE, PH 8.0, VAPOR DIFFUSION, HANGING DROP, REMARK 280 TEMPERATURE 300K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 61 2 2 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 -X,-Y,Z+1/2 REMARK 290 5555 Y,-X+Y,Z+5/6 REMARK 290 6555 X-Y,X,Z+1/6 REMARK 290 7555 Y,X,-Z+1/3 REMARK 290 8555 X-Y,-Y,-Z REMARK 290 9555 -X,-X+Y,-Z+2/3 REMARK 290 10555 -Y,-X,-Z+5/6 REMARK 290 11555 -X+Y,Y,-Z+1/2 REMARK 290 12555 X,X-Y,-Z+1/6 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 80.83367 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 161.66733 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 121.25050 REMARK 290 SMTRY1 5 0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 5 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 202.08417 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 40.41683 REMARK 290 SMTRY1 7 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 7 0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 80.83367 REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 9 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 9 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 9 0.000000 0.000000 -1.000000 161.66733 REMARK 290 SMTRY1 10 0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 10 -0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 10 0.000000 0.000000 -1.000000 202.08417 REMARK 290 SMTRY1 11 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 11 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 11 0.000000 0.000000 -1.000000 121.25050 REMARK 290 SMTRY1 12 0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 12 0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 12 0.000000 0.000000 -1.000000 40.41683 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1, 2, 3, 4 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: TETRAMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TETRAMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 9180 ANGSTROM**2 REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B 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 40.63500 REMARK 350 BIOMT2 2 -0.866025 -0.500000 0.000000 70.38188 REMARK 350 BIOMT3 2 0.000000 0.000000 -1.000000 202.08417 REMARK 350 REMARK 350 BIOMOLECULE: 2 REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 2220 ANGSTROM**2 REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B 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 REMARK 350 BIOMOLECULE: 3 REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 2150 ANGSTROM**2 REMARK 350 APPLY THE FOLLOWING TO CHAINS: B 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 40.63500 REMARK 350 BIOMT2 2 -0.866025 -0.500000 0.000000 70.38188 REMARK 350 BIOMT3 2 0.000000 0.000000 -1.000000 202.08417 REMARK 350 REMARK 350 BIOMOLECULE: 4 REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 2110 ANGSTROM**2 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 40.63500 REMARK 350 BIOMT2 2 -0.866025 -0.500000 0.000000 70.38188 REMARK 350 BIOMT3 2 0.000000 0.000000 -1.000000 202.08417 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 HOH A 322 LIES ON A SPECIAL POSITION. REMARK 375 HOH B 315 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 LYS A 197 REMARK 465 LYS A 198 REMARK 465 LYS B 197 REMARK 465 LYS B 198 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 O2 SO4 B 401 O HOH B 333 1.43 REMARK 500 O4 SO4 B 401 O HOH B 332 1.84 REMARK 500 O4 SO4 A 402 O HOH A 334 1.89 REMARK 500 O3 SO4 B 401 O HOH B 331 2.13 REMARK 500 ND2 ASN A 67 O HOH A 245 2.14 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 LYS A 44 N LYS A 44 CA -0.141 REMARK 500 LYS A 44 C LYS A 44 O -0.149 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 PRO A 8 7.61 -69.32 REMARK 500 ASN A 142 -135.22 48.09 REMARK 500 TYR A 165 -16.71 -157.12 REMARK 500 LYS A 170 -139.70 49.15 REMARK 500 TYR B 9 -168.37 -126.37 REMARK 500 ASN B 142 -132.98 48.22 REMARK 500 TYR B 165 -22.04 -153.74 REMARK 500 LYS B 170 -138.79 52.73 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 TRP A 125 LEU A 126 146.40 REMARK 500 LEU B 60 GLN B 61 -144.11 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 MN A 199 MN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 159 OD1 REMARK 620 2 HOH A 338 O 88.0 REMARK 620 N 1 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MN B 199 MN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP B 159 OD1 REMARK 620 2 HOH B 337 O 94.9 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 MN A 199 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MN B 199 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 B 401 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 A 402 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 3C3T RELATED DB: PDB REMARK 900 SAME PROTEIN WITH MUTATION E162D DBREF 3C3S A 1 198 UNP P04179 SODM_HUMAN 25 222 DBREF 3C3S B 1 198 UNP P04179 SODM_HUMAN 25 222 SEQADV 3C3S ALA A 162 UNP P04179 GLU 186 ENGINEERED MUTATION SEQADV 3C3S ALA B 162 UNP P04179 GLU 186 ENGINEERED MUTATION SEQRES 1 A 198 LYS HIS SER LEU PRO ASP LEU PRO TYR ASP TYR GLY ALA SEQRES 2 A 198 LEU GLU PRO HIS ILE ASN ALA GLN ILE MET GLN LEU HIS SEQRES 3 A 198 HIS SER LYS HIS HIS ALA ALA TYR VAL ASN ASN LEU ASN SEQRES 4 A 198 VAL THR GLU GLU LYS TYR GLN GLU ALA LEU ALA LYS GLY SEQRES 5 A 198 ASP VAL THR ALA GLN ILE ALA LEU GLN PRO ALA LEU LYS SEQRES 6 A 198 PHE ASN GLY GLY GLY HIS ILE ASN HIS SER ILE PHE TRP SEQRES 7 A 198 THR ASN LEU SER PRO ASN GLY GLY GLY GLU PRO LYS GLY SEQRES 8 A 198 GLU LEU LEU GLU ALA ILE LYS ARG ASP PHE GLY SER PHE SEQRES 9 A 198 ASP LYS PHE LYS GLU LYS LEU THR ALA ALA SER VAL GLY SEQRES 10 A 198 VAL GLN GLY SER GLY TRP GLY TRP LEU GLY PHE ASN LYS SEQRES 11 A 198 GLU ARG GLY HIS LEU GLN ILE ALA ALA CYS PRO ASN GLN SEQRES 12 A 198 ASP PRO LEU GLN GLY THR THR GLY LEU ILE PRO LEU LEU SEQRES 13 A 198 GLY ILE ASP VAL TRP ALA HIS ALA TYR TYR LEU GLN TYR SEQRES 14 A 198 LYS ASN VAL ARG PRO ASP TYR LEU LYS ALA ILE TRP ASN SEQRES 15 A 198 VAL ILE ASN TRP GLU ASN VAL THR GLU ARG TYR MET ALA SEQRES 16 A 198 CYS LYS LYS SEQRES 1 B 198 LYS HIS SER LEU PRO ASP LEU PRO TYR ASP TYR GLY ALA SEQRES 2 B 198 LEU GLU PRO HIS ILE ASN ALA GLN ILE MET GLN LEU HIS SEQRES 3 B 198 HIS SER LYS HIS HIS ALA ALA TYR VAL ASN ASN LEU ASN SEQRES 4 B 198 VAL THR GLU GLU LYS TYR GLN GLU ALA LEU ALA LYS GLY SEQRES 5 B 198 ASP VAL THR ALA GLN ILE ALA LEU GLN PRO ALA LEU LYS SEQRES 6 B 198 PHE ASN GLY GLY GLY HIS ILE ASN HIS SER ILE PHE TRP SEQRES 7 B 198 THR ASN LEU SER PRO ASN GLY GLY GLY GLU PRO LYS GLY SEQRES 8 B 198 GLU LEU LEU GLU ALA ILE LYS ARG ASP PHE GLY SER PHE SEQRES 9 B 198 ASP LYS PHE LYS GLU LYS LEU THR ALA ALA SER VAL GLY SEQRES 10 B 198 VAL GLN GLY SER GLY TRP GLY TRP LEU GLY PHE ASN LYS SEQRES 11 B 198 GLU ARG GLY HIS LEU GLN ILE ALA ALA CYS PRO ASN GLN SEQRES 12 B 198 ASP PRO LEU GLN GLY THR THR GLY LEU ILE PRO LEU LEU SEQRES 13 B 198 GLY ILE ASP VAL TRP ALA HIS ALA TYR TYR LEU GLN TYR SEQRES 14 B 198 LYS ASN VAL ARG PRO ASP TYR LEU LYS ALA ILE TRP ASN SEQRES 15 B 198 VAL ILE ASN TRP GLU ASN VAL THR GLU ARG TYR MET ALA SEQRES 16 B 198 CYS LYS LYS HET MN A 199 1 HET SO4 A 402 5 HET MN B 199 1 HET SO4 B 401 5 HETNAM MN MANGANESE (II) ION HETNAM SO4 SULFATE ION FORMUL 3 MN 2(MN 2+) FORMUL 4 SO4 2(O4 S 2-) FORMUL 7 HOH *103(H2 O) HELIX 1 1 ASN A 19 LYS A 29 1 11 HELIX 2 2 LYS A 29 GLY A 52 1 24 HELIX 3 3 ASP A 53 LEU A 60 1 8 HELIX 4 4 LEU A 60 ASN A 80 1 21 HELIX 5 5 LYS A 90 GLY A 102 1 13 HELIX 6 6 SER A 103 GLY A 117 1 15 HELIX 7 7 PRO A 145 GLY A 151 1 7 HELIX 8 8 TRP A 161 ALA A 164 5 4 HELIX 9 9 TYR A 165 LYS A 170 1 6 HELIX 10 10 VAL A 172 TRP A 181 1 10 HELIX 11 11 ASN A 182 ILE A 184 5 3 HELIX 12 12 ASN A 185 CYS A 196 1 12 HELIX 13 13 ASN B 19 LYS B 29 1 11 HELIX 14 14 LYS B 29 LYS B 51 1 23 HELIX 15 15 ASP B 53 LEU B 60 1 8 HELIX 16 16 PRO B 62 LEU B 81 1 20 HELIX 17 17 GLY B 91 GLY B 102 1 12 HELIX 18 18 SER B 103 GLY B 117 1 15 HELIX 19 19 PRO B 145 GLY B 151 1 7 HELIX 20 20 TRP B 161 ALA B 164 5 4 HELIX 21 21 TYR B 165 LYS B 170 1 6 HELIX 22 22 VAL B 172 TRP B 181 1 10 HELIX 23 23 ASN B 182 ILE B 184 5 3 HELIX 24 24 ASN B 185 ALA B 195 1 11 SHEET 1 A 3 HIS A 134 PRO A 141 0 SHEET 2 A 3 GLY A 122 ASN A 129 -1 N TRP A 125 O ALA A 138 SHEET 3 A 3 ILE A 153 ASP A 159 -1 O ILE A 158 N GLY A 124 SHEET 1 B 3 HIS B 134 PRO B 141 0 SHEET 2 B 3 GLY B 122 ASN B 129 -1 N GLY B 127 O GLN B 136 SHEET 3 B 3 ILE B 153 ASP B 159 -1 O ILE B 153 N PHE B 128 LINK OD1 ASP A 159 MN MN A 199 1555 1555 2.00 LINK MN MN A 199 O HOH A 338 1555 1555 2.01 LINK OD1 ASP B 159 MN MN B 199 1555 1555 1.92 LINK MN MN B 199 O HOH B 337 1555 1555 1.98 CISPEP 1 GLU A 15 PRO A 16 0 0.07 CISPEP 2 GLU B 15 PRO B 16 0 -0.06 SITE 1 AC1 4 HIS A 26 HIS A 74 ASP A 159 HIS A 163 SITE 1 AC2 4 HIS B 26 HIS B 74 ASP B 159 HIS B 163 SITE 1 AC3 5 HIS B 30 TRP B 161 HIS B 163 TYR B 165 SITE 2 AC3 5 ARG B 173 SITE 1 AC4 5 HIS A 30 TRP A 161 HIS A 163 TYR A 165 SITE 2 AC4 5 TYR A 166 CRYST1 81.270 81.270 242.501 90.00 90.00 120.00 P 61 2 2 24 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 0.012305 0.007104 0.000000 0.00000 SCALE2 0.000000 0.014208 0.000000 0.00000 SCALE3 0.000000 0.000000 0.004124 0.00000