HEADER OXIDOREDUCTASE 03-AUG-00 1FI2 TITLE CRYSTAL STRUCTURE OF GERMIN (OXALATE OXIDASE) COMPND MOL_ID: 1; COMPND 2 MOLECULE: OXALATE OXIDASE; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: GERMIN; COMPND 5 EC: 1.2.3.4 SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HORDEUM VULGARE; SOURCE 3 ORGANISM_TAXID: 4513 KEYWDS BETA-JELLYROLL, OXIDOREDUCTASE EXPDTA X-RAY DIFFRACTION AUTHOR E.J.WOO,J.M.DUNWELL,P.W.GOODENOUGH,A.C.MARVIER,R.W.PICKERSGILL REVDAT 3 13-JUL-11 1FI2 1 VERSN REVDAT 2 24-FEB-09 1FI2 1 VERSN REVDAT 1 01-MAY-01 1FI2 0 JRNL AUTH E.J.WOO,J.M.DUNWELL,P.W.GOODENOUGH,A.C.MARVIER, JRNL AUTH 2 R.W.PICKERSGILL JRNL TITL GERMIN IS A MANGANESE CONTAINING HOMOHEXAMER WITH OXALATE JRNL TITL 2 OXIDASE AND SUPEROXIDE DISMUTASE ACTIVITIES. JRNL REF NAT.STRUCT.BIOL. V. 7 1036 2000 JRNL REFN ISSN 1072-8368 JRNL PMID 11062559 JRNL DOI 10.1038/80954 REMARK 1 REMARK 1 REFERENCE 1 REMARK 1 AUTH E.J.WOO,J.M.DUNWELL,P.W.GOODENOUGH,R.W.PICKERSGILL REMARK 1 TITL BARLEY OXALATE OXIDASE IS A HEXAMERIC PROTEIN RELATED TO REMARK 1 TITL 2 SEED STORAGE PROTEINS: EVIDENCE FROM X-RAY CRYSTALLOGRAPHY REMARK 1 REF FEBS LETT. V. 437 87 1998 REMARK 1 REFN ISSN 0014-5793 REMARK 1 DOI 10.1016/S0014-5793(98)01203-4 REMARK 2 REMARK 2 RESOLUTION. 1.60 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC REMARK 3 AUTHORS : MURSHUDOV,VAGIN,DODSON REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.60 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 12.40 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 95.4 REMARK 3 NUMBER OF REFLECTIONS : 23707 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 CROSS-VALIDATION METHOD : NULL REMARK 3 FREE R VALUE TEST SET SELECTION : RANDOM REMARK 3 R VALUE (WORKING + TEST SET) : NULL REMARK 3 R VALUE (WORKING SET) : 0.196 REMARK 3 FREE R VALUE : 0.233 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 1199 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 1491 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 1 REMARK 3 SOLVENT ATOMS : 253 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 17.00 REMARK 3 MEAN B VALUE (OVERALL, A**2) : NULL REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : NULL REMARK 3 B22 (A**2) : NULL REMARK 3 B33 (A**2) : NULL REMARK 3 B12 (A**2) : NULL REMARK 3 B13 (A**2) : NULL REMARK 3 B23 (A**2) : NULL REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): NULL REMARK 3 ESU BASED ON FREE R VALUE (A): NULL REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): NULL REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): NULL REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 DISTANCE RESTRAINTS. RMS SIGMA REMARK 3 BOND LENGTH (A) : 0.006 ; NULL REMARK 3 ANGLE DISTANCE (A) : 0.024 ; NULL REMARK 3 INTRAPLANAR 1-4 DISTANCE (A) : NULL ; NULL REMARK 3 H-BOND OR METAL COORDINATION (A) : NULL ; NULL REMARK 3 REMARK 3 PLANE RESTRAINT (A) : NULL ; NULL REMARK 3 CHIRAL-CENTER RESTRAINT (A**3) : NULL ; NULL REMARK 3 REMARK 3 NON-BONDED CONTACT RESTRAINTS. REMARK 3 SINGLE TORSION (A) : NULL ; NULL REMARK 3 MULTIPLE TORSION (A) : NULL ; NULL REMARK 3 H-BOND (X...Y) (A) : NULL ; NULL REMARK 3 H-BOND (X-H...Y) (A) : NULL ; NULL REMARK 3 REMARK 3 CONFORMATIONAL TORSION ANGLE RESTRAINTS. REMARK 3 SPECIFIED (DEGREES) : NULL ; NULL REMARK 3 PLANAR (DEGREES) : NULL ; NULL REMARK 3 STAGGERED (DEGREES) : NULL ; NULL REMARK 3 TRANSVERSE (DEGREES) : NULL ; NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. RMS SIGMA REMARK 3 MAIN-CHAIN BOND (A**2) : NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE (A**2) : NULL ; NULL REMARK 3 SIDE-CHAIN BOND (A**2) : NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE (A**2) : NULL ; NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 1FI2 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 21-AUG-00. REMARK 100 THE RCSB ID CODE IS RCSB011608. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 11-JUL-99; 13-FEB-99 REMARK 200 TEMPERATURE (KELVIN) : 100; 100 REMARK 200 PH : 5.0 REMARK 200 NUMBER OF CRYSTALS USED : 2 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y; N REMARK 200 RADIATION SOURCE : SRS; ROTATING ANODE REMARK 200 BEAMLINE : PX9.6; NULL REMARK 200 X-RAY GENERATOR MODEL : NULL; MACSCIENCE REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M; NULL REMARK 200 WAVELENGTH OR RANGE (A) : 0.870; 1.5418 REMARK 200 MONOCHROMATOR : NULL; NULL REMARK 200 OPTICS : NULL; NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD; IMAGE PLATE REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 4; MACSCIENCE REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 23707 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.600 REMARK 200 RESOLUTION RANGE LOW (A) : 12.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 1.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 95.4 REMARK 200 DATA REDUNDANCY : 14.000 REMARK 200 R MERGE (I) : 0.07000 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 24.4000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.60 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.66 REMARK 200 COMPLETENESS FOR SHELL (%) : 85.3 REMARK 200 DATA REDUNDANCY IN SHELL : 5.00 REMARK 200 R MERGE FOR SHELL (I) : 0.08300 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : NULL REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH; NULL REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MIR REMARK 200 SOFTWARE USED: MLPHARE REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 33.00 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.30 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 2.2 M AMMONIUM SULFATE, 5% 2- REMARK 280 PROPANOL, PH 5.0, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 301K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: H 3 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -Y,X-Y,Z REMARK 290 3555 -X+Y,-X,Z REMARK 290 4555 Y,X,-Z REMARK 290 5555 X-Y,-Y,-Z REMARK 290 6555 -X,-X+Y,-Z REMARK 290 7555 X+2/3,Y+1/3,Z+1/3 REMARK 290 8555 -Y+2/3,X-Y+1/3,Z+1/3 REMARK 290 9555 -X+Y+2/3,-X+1/3,Z+1/3 REMARK 290 10555 Y+2/3,X+1/3,-Z+1/3 REMARK 290 11555 X-Y+2/3,-Y+1/3,-Z+1/3 REMARK 290 12555 -X+2/3,-X+Y+1/3,-Z+1/3 REMARK 290 13555 X+1/3,Y+2/3,Z+2/3 REMARK 290 14555 -Y+1/3,X-Y+2/3,Z+2/3 REMARK 290 15555 -X+Y+1/3,-X+2/3,Z+2/3 REMARK 290 16555 Y+1/3,X+2/3,-Z+2/3 REMARK 290 17555 X-Y+1/3,-Y+2/3,-Z+2/3 REMARK 290 18555 -X+1/3,-X+Y+2/3,-Z+2/3 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 0.00000 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 0.00000 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 0.00000 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 0.00000 REMARK 290 SMTRY1 7 1.000000 0.000000 0.000000 47.79650 REMARK 290 SMTRY2 7 0.000000 1.000000 0.000000 27.59532 REMARK 290 SMTRY3 7 0.000000 0.000000 1.000000 35.70300 REMARK 290 SMTRY1 8 -0.500000 -0.866025 0.000000 47.79650 REMARK 290 SMTRY2 8 0.866025 -0.500000 0.000000 27.59532 REMARK 290 SMTRY3 8 0.000000 0.000000 1.000000 35.70300 REMARK 290 SMTRY1 9 -0.500000 0.866025 0.000000 47.79650 REMARK 290 SMTRY2 9 -0.866025 -0.500000 0.000000 27.59532 REMARK 290 SMTRY3 9 0.000000 0.000000 1.000000 35.70300 REMARK 290 SMTRY1 10 -0.500000 0.866025 0.000000 47.79650 REMARK 290 SMTRY2 10 0.866025 0.500000 0.000000 27.59532 REMARK 290 SMTRY3 10 0.000000 0.000000 -1.000000 35.70300 REMARK 290 SMTRY1 11 1.000000 0.000000 0.000000 47.79650 REMARK 290 SMTRY2 11 0.000000 -1.000000 0.000000 27.59532 REMARK 290 SMTRY3 11 0.000000 0.000000 -1.000000 35.70300 REMARK 290 SMTRY1 12 -0.500000 -0.866025 0.000000 47.79650 REMARK 290 SMTRY2 12 -0.866025 0.500000 0.000000 27.59532 REMARK 290 SMTRY3 12 0.000000 0.000000 -1.000000 35.70300 REMARK 290 SMTRY1 13 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 13 0.000000 1.000000 0.000000 55.19064 REMARK 290 SMTRY3 13 0.000000 0.000000 1.000000 71.40600 REMARK 290 SMTRY1 14 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 14 0.866025 -0.500000 0.000000 55.19064 REMARK 290 SMTRY3 14 0.000000 0.000000 1.000000 71.40600 REMARK 290 SMTRY1 15 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 15 -0.866025 -0.500000 0.000000 55.19064 REMARK 290 SMTRY3 15 0.000000 0.000000 1.000000 71.40600 REMARK 290 SMTRY1 16 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 16 0.866025 0.500000 0.000000 55.19064 REMARK 290 SMTRY3 16 0.000000 0.000000 -1.000000 71.40600 REMARK 290 SMTRY1 17 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 17 0.000000 -1.000000 0.000000 55.19064 REMARK 290 SMTRY3 17 0.000000 0.000000 -1.000000 71.40600 REMARK 290 SMTRY1 18 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 18 -0.866025 0.500000 0.000000 55.19064 REMARK 290 SMTRY3 18 0.000000 0.000000 -1.000000 71.40600 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: HEXAMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: HEXAMERIC REMARK 350 SOFTWARE USED: PISA,PQS REMARK 350 TOTAL BURIED SURFACE AREA: 34040 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 36900 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -280.0 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 350 BIOMT1 3 -0.500000 0.866025 0.000000 0.00000 REMARK 350 BIOMT2 3 -0.866025 -0.500000 0.000000 0.00000 REMARK 350 BIOMT3 3 0.000000 0.000000 1.000000 0.00000 REMARK 350 BIOMT1 4 -0.500000 0.866025 0.000000 0.00000 REMARK 350 BIOMT2 4 0.866025 0.500000 0.000000 0.00000 REMARK 350 BIOMT3 4 0.000000 0.000000 -1.000000 107.10900 REMARK 350 BIOMT1 5 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 5 0.000000 -1.000000 0.000000 0.00000 REMARK 350 BIOMT3 5 0.000000 0.000000 -1.000000 107.10900 REMARK 350 BIOMT1 6 -0.500000 -0.866025 0.000000 0.00000 REMARK 350 BIOMT2 6 -0.866025 0.500000 0.000000 0.00000 REMARK 350 BIOMT3 6 0.000000 0.000000 -1.000000 107.10900 REMARK 400 REMARK 400 COMPOUND REMARK 400 The germin dimer is structurally related REMARK 400 to the 7S seed storage protein monomer REMARK 400 (eg phaseolin monomer). Each germin REMARK 400 monomer binds a single manganese ion. 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 NH2 ARG A 121 NH2 ARG A 121 12556 1.74 REMARK 500 OD1 ASP A 35 NH1 ARG A 121 5556 1.91 REMARK 500 O HOH A 235 O HOH A 261 2555 1.94 REMARK 500 O GLY A 71 O HOH A 234 5556 2.02 REMARK 500 O HOH A 386 NE ARG A 121 14544 2.04 REMARK 500 O HOH A 234 O HOH A 417 5556 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 15 CB - CG - OD2 ANGL. DEV. = 5.8 DEGREES REMARK 500 ASP A 35 CB - CG - OD1 ANGL. DEV. = -10.2 DEGREES REMARK 500 ASP A 35 CB - CG - OD2 ANGL. DEV. = 15.7 DEGREES REMARK 500 ARG A 121 CD - NE - CZ ANGL. DEV. = 31.2 DEGREES REMARK 500 ARG A 121 NE - CZ - NH2 ANGL. DEV. = 4.0 DEGREES REMARK 500 ARG A 133 CD - NE - CZ ANGL. DEV. = 18.8 DEGREES REMARK 500 ARG A 133 NE - CZ - NH1 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 CYS A 10 72.50 -157.89 REMARK 500 THR A 69 -7.28 72.48 REMARK 500 ARG A 133 121.36 -39.36 REMARK 500 ASN A 154 41.78 -101.48 REMARK 500 SER A 170 -178.95 -66.07 REMARK 500 REMARK 500 REMARK: NULL REMARK 525 REMARK 525 SOLVENT REMARK 525 REMARK 525 THE SOLVENT MOLECULES HAVE CHAIN IDENTIFIERS THAT REMARK 525 INDICATE THE POLYMER CHAIN WITH WHICH THEY ARE MOST REMARK 525 CLOSELY ASSOCIATED. THE REMARK LISTS ALL THE SOLVENT REMARK 525 MOLECULES WHICH ARE MORE THAN 5A AWAY FROM THE REMARK 525 NEAREST POLYMER CHAIN (M = MODEL NUMBER; REMARK 525 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE REMARK 525 NUMBER; I=INSERTION CODE): REMARK 525 REMARK 525 M RES CSSEQI REMARK 525 HOH A 359 DISTANCE = 5.14 ANGSTROMS REMARK 525 HOH A 414 DISTANCE = 5.04 ANGSTROMS REMARK 525 HOH A 429 DISTANCE = 5.10 ANGSTROMS REMARK 525 HOH A 446 DISTANCE = 5.02 ANGSTROMS REMARK 525 HOH A 454 DISTANCE = 5.20 ANGSTROMS 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 202 MN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A 90 NE2 REMARK 620 2 GLU A 95 OE1 91.2 REMARK 620 3 HIS A 137 NE2 97.4 88.0 REMARK 620 4 HOH A 213 O 79.1 105.1 166.4 REMARK 620 5 HIS A 88 NE2 95.4 166.7 79.7 87.6 REMARK 620 6 HOH A 223 O 165.5 82.4 95.4 89.9 93.6 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 MN A 202 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 2PHL RELATED DB: PDB REMARK 900 THE PHASEOLIN (VICILIN) TRIMER (2PHL) IS STRUCTURALLY REMARK 900 SIMILAR TO THE GERMIN HEXAMER. DBREF 1FI2 A 1 201 UNP P45850 OXO1_HORVU 1 201 SEQADV 1FI2 THR A 1 UNP P45850 SER 1 SEE REMARK 999 SEQRES 1 A 201 THR ASP PRO ASP PRO LEU GLN ASP PHE CYS VAL ALA ASP SEQRES 2 A 201 LEU ASP GLY LYS ALA VAL SER VAL ASN GLY HIS THR CYS SEQRES 3 A 201 LYS PRO MET SER GLU ALA GLY ASP ASP PHE LEU PHE SER SEQRES 4 A 201 SER LYS LEU THR LYS ALA GLY ASN THR SER THR PRO ASN SEQRES 5 A 201 GLY SER ALA VAL THR GLU LEU ASP VAL ALA GLU TRP PRO SEQRES 6 A 201 GLY THR ASN THR LEU GLY VAL SER MET ASN ARG VAL ASP SEQRES 7 A 201 PHE ALA PRO GLY GLY THR ASN PRO PRO HIS ILE HIS PRO SEQRES 8 A 201 ARG ALA THR GLU ILE GLY MET VAL MET LYS GLY GLU LEU SEQRES 9 A 201 LEU VAL GLY ILE LEU GLY SER LEU ASP SER GLY ASN LYS SEQRES 10 A 201 LEU TYR SER ARG VAL VAL ARG ALA GLY GLU THR PHE VAL SEQRES 11 A 201 ILE PRO ARG GLY LEU MET HIS PHE GLN PHE ASN VAL GLY SEQRES 12 A 201 LYS THR GLU ALA TYR MET VAL VAL SER PHE ASN SER GLN SEQRES 13 A 201 ASN PRO GLY ILE VAL PHE VAL PRO LEU THR LEU PHE GLY SEQRES 14 A 201 SER ASP PRO PRO ILE PRO THR PRO VAL LEU THR LYS ALA SEQRES 15 A 201 LEU ARG VAL GLU ALA GLY VAL VAL GLU LEU LEU LYS SER SEQRES 16 A 201 LYS PHE ALA GLY GLY SER HET MN A 202 1 HETNAM MN MANGANESE (II) ION FORMUL 2 MN MN 2+ FORMUL 3 HOH *253(H2 O) HELIX 1 1 PRO A 28 ALA A 32 5 5 HELIX 2 2 TRP A 64 ASN A 68 5 5 HELIX 3 3 SER A 111 GLY A 115 5 5 HELIX 4 4 VAL A 163 SER A 170 1 8 HELIX 5 5 PRO A 175 ARG A 184 1 10 HELIX 6 6 GLU A 186 PHE A 197 1 12 SHEET 1 A 5 SER A 54 LEU A 59 0 SHEET 2 A 5 SER A 73 PHE A 79 -1 O MET A 74 N LEU A 59 SHEET 3 A 5 ALA A 147 PHE A 153 -1 O ALA A 147 N PHE A 79 SHEET 4 A 5 GLU A 95 LYS A 101 -1 O ILE A 96 N SER A 152 SHEET 5 A 5 THR A 128 ILE A 131 -1 O PHE A 129 N GLY A 97 SHEET 1 B 5 LEU A 118 ARG A 124 0 SHEET 2 B 5 GLU A 103 LEU A 109 -1 O LEU A 104 N VAL A 123 SHEET 3 B 5 HIS A 137 ASN A 141 -1 O PHE A 138 N GLY A 107 SHEET 4 B 5 THR A 84 ILE A 89 -1 N ASN A 85 O GLN A 139 SHEET 5 B 5 VAL A 161 PHE A 162 -1 N VAL A 161 O ILE A 89 SSBOND 1 CYS A 10 CYS A 26 1555 1555 2.02 LINK MN MN A 202 NE2 HIS A 90 1555 1555 2.30 LINK MN MN A 202 OE1 GLU A 95 1555 1555 2.18 LINK MN MN A 202 NE2 HIS A 137 1555 1555 2.23 LINK MN MN A 202 O HOH A 213 1555 1555 2.44 LINK MN MN A 202 NE2 HIS A 88 1555 1555 2.27 LINK MN MN A 202 O HOH A 223 1555 1555 2.23 CISPEP 1 ASP A 171 PRO A 172 0 -2.61 SITE 1 AC1 6 HIS A 88 HIS A 90 GLU A 95 HIS A 137 SITE 2 AC1 6 HOH A 213 HOH A 223 CRYST1 95.593 95.593 107.109 90.00 90.00 120.00 H 3 2 18 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 0.010460 0.006040 0.000000 0.00000 SCALE2 0.000000 0.012080 0.000000 0.00000 SCALE3 0.000000 0.000000 0.009340 0.00000