HEADER METAL BINDING PROTEIN 03-DEC-03 1VJ2 TITLE CRYSTAL STRUCTURE OF A NOVEL FAMILY OF MANGANESE-CONTAINING CUPIN TITLE 2 (TM1459) FROM THERMOTOGA MARITIMA AT 1.65 A RESOLUTION COMPND MOL_ID: 1; COMPND 2 MOLECULE: NOVEL MANGANESE-CONTAINING CUPIN TM1459; COMPND 3 CHAIN: A, B; COMPND 4 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: THERMOTOGA MARITIMA; SOURCE 3 ORGANISM_TAXID: 2336; SOURCE 4 GENE: TM1459; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 7 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID KEYWDS NOVEL MANGANESE-CONTAINING CUPIN, STRUCTURAL GENOMICS, JOINT CENTER KEYWDS 2 FOR STRUCTURAL GENOMICS, JCSG, PROTEIN STRUCTURE INITIATIVE, PSI, KEYWDS 3 METAL BINDING PROTEIN EXPDTA X-RAY DIFFRACTION AUTHOR JOINT CENTER FOR STRUCTURAL GENOMICS (JCSG) REVDAT 9 20-SEP-23 1VJ2 1 REMARK REVDAT 8 25-JAN-23 1VJ2 1 REMARK SEQADV LINK REVDAT 7 18-JUL-18 1VJ2 1 REMARK REVDAT 6 04-OCT-17 1VJ2 1 REMARK REVDAT 5 23-MAR-11 1VJ2 1 HEADER TITLE KEYWDS REVDAT 4 24-FEB-09 1VJ2 1 VERSN REVDAT 3 24-OCT-06 1VJ2 1 REMARK KEYWDS REVDAT 2 03-AUG-04 1VJ2 1 JRNL TITLE KEYWDS COMPND REVDAT 1 09-DEC-03 1VJ2 0 SPRSDE 09-DEC-03 1VJ2 1O5N JRNL AUTH L.JAROSZEWSKI,R.SCHWARZENBACHER,F.VON DELFT,D.MCMULLAN, JRNL AUTH 2 L.S.BRINEN,J.M.CANAVES,X.DAI,A.M.DEACON,M.DIDONATO, JRNL AUTH 3 M.A.ELSLIGER,S.ESHAGI,R.FLOYD,A.GODZIK,C.GRITTINI, JRNL AUTH 4 S.K.GRZECHNIK,E.HAMPTON,I.LEVIN,C.KARLAK,H.E.KLOCK, JRNL AUTH 5 E.KOESEMA,J.S.KOVARIK,A.KREUSCH,P.KUHN,S.A.LESLEY, JRNL AUTH 6 T.M.MCPHILLIPS,M.D.MILLER,A.MORSE,K.MOY,J.OUYANG,R.PAGE, JRNL AUTH 7 K.QUIJANO,R.REYES,F.REZEZADEH,A.ROBB,E.SIMS,G.SPRAGGON, JRNL AUTH 8 R.C.STEVENS,H.VAN DEN BEDEM,J.VELASQUEZ,J.VINCENT,X.WANG, JRNL AUTH 9 B.WEST,G.WOLF,Q.XU,K.O.HODGSON,J.WOOLEY,I.A.WILSON JRNL TITL CRYSTAL STRUCTURE OF A NOVEL MANGANESE-CONTAINING CUPIN JRNL TITL 2 (TM1459) FROM THERMOTOGA MARITIMA AT 1.65 A RESOLUTION. JRNL REF PROTEINS V. 56 611 2004 JRNL REFN ISSN 0887-3585 JRNL PMID 15229893 JRNL DOI 10.1002/PROT.20130 REMARK 2 REMARK 2 RESOLUTION. 1.65 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 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) : 1.65 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 33.07 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 97.8 REMARK 3 NUMBER OF REFLECTIONS : 33262 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) : 0.210 REMARK 3 R VALUE (WORKING SET) : 0.208 REMARK 3 FREE R VALUE : 0.249 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.900 REMARK 3 FREE R VALUE TEST SET COUNT : 1729 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) : 1.65 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.69 REMARK 3 REFLECTION IN BIN (WORKING SET) : 2159 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : NULL REMARK 3 BIN R VALUE (WORKING SET) : 0.3100 REMARK 3 BIN FREE R VALUE SET COUNT : 100 REMARK 3 BIN FREE R VALUE : 0.3860 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 1850 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 6 REMARK 3 SOLVENT ATOMS : 169 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 30.49 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 24.62 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): 0.100 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.104 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.097 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 6.097 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.953 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.937 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 1890 ; 0.018 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): 1754 ; 0.001 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 2548 ; 1.652 ; 1.958 REMARK 3 BOND ANGLES OTHERS (DEGREES): 4090 ; 0.854 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 226 ; 6.971 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 92 ;32.829 ;23.913 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 350 ;18.157 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 14 ;23.596 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 278 ; 0.103 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 2070 ; 0.007 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 382 ; 0.001 ; 0.020 REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 326 ; 0.186 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): 1738 ; 0.193 ; 0.200 REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION OTHERS (A): 1274 ; 0.091 ; 0.200 REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 2 ; 0.054 ; 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): 9 ; 0.137 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): 26 ; 0.272 ; 0.200 REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 10 ; 0.151 ; 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): 1472 ; 1.179 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 1844 ; 1.351 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 860 ; 2.509 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 704 ; 3.338 ; 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 : 2 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 6 A 114 REMARK 3 RESIDUE RANGE : B 1 B 5 REMARK 3 ORIGIN FOR THE GROUP (A): 30.9488 2.1018 -1.1180 REMARK 3 T TENSOR REMARK 3 T11: -0.0697 T22: -0.1221 REMARK 3 T33: -0.0714 T12: -0.0759 REMARK 3 T13: 0.0396 T23: -0.0145 REMARK 3 L TENSOR REMARK 3 L11: 1.0866 L22: 2.5819 REMARK 3 L33: 3.0850 L12: 0.2610 REMARK 3 L13: 0.1628 L23: 0.1244 REMARK 3 S TENSOR REMARK 3 S11: -0.1230 S12: 0.1356 S13: 0.0144 REMARK 3 S21: -0.2357 S22: 0.1545 S23: -0.2043 REMARK 3 S31: -0.0159 S32: 0.1418 S33: -0.0314 REMARK 3 REMARK 3 TLS GROUP : 2 REMARK 3 NUMBER OF COMPONENTS GROUP : 2 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : B 6 B 114 REMARK 3 RESIDUE RANGE : A 1 A 5 REMARK 3 ORIGIN FOR THE GROUP (A): 32.7388 -0.6700 20.0896 REMARK 3 T TENSOR REMARK 3 T11: -0.0513 T22: -0.1289 REMARK 3 T33: -0.0508 T12: 0.0795 REMARK 3 T13: -0.0339 T23: -0.0264 REMARK 3 L TENSOR REMARK 3 L11: 0.7375 L22: 2.6298 REMARK 3 L33: 3.1667 L12: -0.2080 REMARK 3 L13: -0.3128 L23: -0.0480 REMARK 3 S TENSOR REMARK 3 S11: -0.1185 S12: -0.0741 S13: -0.0578 REMARK 3 S21: 0.2293 S22: 0.1742 S23: -0.2228 REMARK 3 S31: 0.1390 S32: 0.2142 S33: -0.0557 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: 1. HYDROGENS HAVE BEEN ADDED IN THE REMARK 3 RIDING POSITIONS. 2. THE BOUND METAL WAS IDENTIFIED AS REMARK 3 TRANSITION METAL BY ITS COORDINATION GEOMETRY, AND AS MANGANESE REMARK 3 BY COMPARISON WITH THE HOMOLOGOUS STRUCTURE TM1287 (1O4T) AS REMARK 3 WELL AS BY HAVING BEST B-FACTOR AGREEMENT WITH SURROUNDING REMARK 3 ATOMS. 3. THE ACTIVE SITE OF SUBUNIT A NEAR CYS106 HAS BEEN REMARK 3 MODELED AS TYPE UNL. REMARK 4 REMARK 4 1VJ2 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 05-DEC-03. REMARK 100 THE DEPOSITION ID IS D_1000001913. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 09-JAN-02 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 5.2 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SSRL REMARK 200 BEAMLINE : BL11-1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.972386 REMARK 200 MONOCHROMATOR : SINGLE CRYSTAL SI(311) BENT REMARK 200 MONOCHROMATOR REMARK 200 OPTICS : FLAT MIRROR REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 315 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : MOSFLM REMARK 200 DATA SCALING SOFTWARE : SCALA 4.2), CCP4 (SCALA) REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 35029 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.650 REMARK 200 RESOLUTION RANGE LOW (A) : 48.130 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 97.8 REMARK 200 DATA REDUNDANCY : 3.600 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : 0.05700 REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 15.6000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.65 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.74 REMARK 200 COMPLETENESS FOR SHELL (%) : 87.6 REMARK 200 DATA REDUNDANCY IN SHELL : 2.70 REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : 0.46600 REMARK 200 <I/SIGMA(I)> FOR SHELL : 1.900 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: MOLREP REMARK 200 STARTING MODEL: 1FI2 REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 54.20 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.71 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 50% (V/V) PEG-200, 0.1M PHOSPHATE REMARK 280 -CITRATE PH 4.2 0.2M NACL, PH 5.2, VAPOR DIFFUSION,SITTING DROP, REMARK 280 NANODROP, TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 32 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -Y,X-Y,Z+2/3 REMARK 290 3555 -X+Y,-X,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 64.17800 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 32.08900 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: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 3990 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 10240 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -44.0 KCAL/MOL 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 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 MET A -11 REMARK 465 GLY A -10 REMARK 465 SER A -9 REMARK 465 ASP A -8 REMARK 465 LYS A -7 REMARK 465 ILE A -6 REMARK 465 HIS A -5 REMARK 465 HIS A -4 REMARK 465 HIS A -3 REMARK 465 HIS A -2 REMARK 465 HIS A -1 REMARK 465 HIS A 0 REMARK 465 MET B -11 REMARK 465 GLY B -10 REMARK 465 SER B -9 REMARK 465 ASP B -8 REMARK 465 LYS B -7 REMARK 465 ILE B -6 REMARK 465 HIS B -5 REMARK 465 HIS B -4 REMARK 465 HIS B -3 REMARK 465 HIS B -2 REMARK 465 HIS B -1 REMARK 465 HIS B 0 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 B 147 O HOH B 196 2.08 REMARK 500 O HOH A 151 O HOH A 157 2.14 REMARK 500 O HOH B 163 O HOH B 177 2.14 REMARK 500 O HOH A 151 O HOH A 189 2.15 REMARK 500 OH TYR A 7 OE2 GLU A 103 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 97 CB - CG - OD2 ANGL. DEV. = 5.8 DEGREES REMARK 500 ARG B 95 NE - CZ - NH1 ANGL. DEV. = 3.5 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 35 -52.24 -124.48 REMARK 500 PRO A 55 38.54 -74.45 REMARK 500 GLU A 80 126.95 -39.99 REMARK 500 ASN B 35 -48.96 -130.21 REMARK 500 PRO B 55 38.35 -80.46 REMARK 500 REMARK 500 REMARK: NULL REMARK 600 REMARK 600 HETEROGEN REMARK 600 THE ACTIVE SITE OF SUBUNIT A NEAR CYS106 REMARK 600 HAS BEEN MODELED AS TYPE UNL. 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 115 MN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A 52 NE2 REMARK 620 2 HIS A 54 NE2 110.3 REMARK 620 3 HIS A 58 NE2 169.5 76.7 REMARK 620 4 HIS A 92 NE2 83.0 89.5 89.4 REMARK 620 5 HOH A 124 O 83.4 164.0 90.9 100.6 REMARK 620 6 HOH A 135 O 97.9 95.6 88.9 174.0 73.7 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MN B 115 MN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS B 52 NE2 REMARK 620 2 HIS B 54 NE2 94.2 REMARK 620 3 HIS B 58 NE2 171.2 88.7 REMARK 620 4 HIS B 92 NE2 99.3 92.8 88.8 REMARK 620 5 HOH B 137 O 88.8 82.2 83.4 170.8 REMARK 620 6 HOH B 161 O 83.9 166.2 91.3 101.1 84.1 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 115 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MN B 115 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE UNL A 116 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 283317 RELATED DB: TARGETDB DBREF 1VJ2 A 1 114 UNP Q9X1H0 Q9X1H0_THEMA 1 114 DBREF 1VJ2 B 1 114 UNP Q9X1H0 Q9X1H0_THEMA 1 114 SEQADV 1VJ2 MET A -11 UNP Q9X1H0 EXPRESSION TAG SEQADV 1VJ2 GLY A -10 UNP Q9X1H0 EXPRESSION TAG SEQADV 1VJ2 SER A -9 UNP Q9X1H0 EXPRESSION TAG SEQADV 1VJ2 ASP A -8 UNP Q9X1H0 EXPRESSION TAG SEQADV 1VJ2 LYS A -7 UNP Q9X1H0 EXPRESSION TAG SEQADV 1VJ2 ILE A -6 UNP Q9X1H0 EXPRESSION TAG SEQADV 1VJ2 HIS A -5 UNP Q9X1H0 EXPRESSION TAG SEQADV 1VJ2 HIS A -4 UNP Q9X1H0 EXPRESSION TAG SEQADV 1VJ2 HIS A -3 UNP Q9X1H0 EXPRESSION TAG SEQADV 1VJ2 HIS A -2 UNP Q9X1H0 EXPRESSION TAG SEQADV 1VJ2 HIS A -1 UNP Q9X1H0 EXPRESSION TAG SEQADV 1VJ2 HIS A 0 UNP Q9X1H0 EXPRESSION TAG SEQADV 1VJ2 MET B -11 UNP Q9X1H0 EXPRESSION TAG SEQADV 1VJ2 GLY B -10 UNP Q9X1H0 EXPRESSION TAG SEQADV 1VJ2 SER B -9 UNP Q9X1H0 EXPRESSION TAG SEQADV 1VJ2 ASP B -8 UNP Q9X1H0 EXPRESSION TAG SEQADV 1VJ2 LYS B -7 UNP Q9X1H0 EXPRESSION TAG SEQADV 1VJ2 ILE B -6 UNP Q9X1H0 EXPRESSION TAG SEQADV 1VJ2 HIS B -5 UNP Q9X1H0 EXPRESSION TAG SEQADV 1VJ2 HIS B -4 UNP Q9X1H0 EXPRESSION TAG SEQADV 1VJ2 HIS B -3 UNP Q9X1H0 EXPRESSION TAG SEQADV 1VJ2 HIS B -2 UNP Q9X1H0 EXPRESSION TAG SEQADV 1VJ2 HIS B -1 UNP Q9X1H0 EXPRESSION TAG SEQADV 1VJ2 HIS B 0 UNP Q9X1H0 EXPRESSION TAG SEQRES 1 A 126 MET GLY SER ASP LYS ILE HIS HIS HIS HIS HIS HIS MET SEQRES 2 A 126 ILE LEU LYS ARG ALA TYR ASP VAL THR PRO GLN LYS ILE SEQRES 3 A 126 SER THR ASP LYS VAL ARG GLY VAL ARG LYS ARG VAL LEU SEQRES 4 A 126 ILE GLY LEU LYS ASP ALA PRO ASN PHE VAL MET ARG LEU SEQRES 5 A 126 PHE THR VAL GLU PRO GLY GLY LEU ILE ASP ARG HIS SER SEQRES 6 A 126 HIS PRO TRP GLU HIS GLU ILE PHE VAL LEU LYS GLY LYS SEQRES 7 A 126 LEU THR VAL LEU LYS GLU GLN GLY GLU GLU THR VAL GLU SEQRES 8 A 126 GLU GLY PHE TYR ILE PHE VAL GLU PRO ASN GLU ILE HIS SEQRES 9 A 126 GLY PHE ARG ASN ASP THR ASP SER GLU VAL GLU PHE LEU SEQRES 10 A 126 CYS LEU ILE PRO LYS GLU GLY GLY GLU SEQRES 1 B 126 MET GLY SER ASP LYS ILE HIS HIS HIS HIS HIS HIS MET SEQRES 2 B 126 ILE LEU LYS ARG ALA TYR ASP VAL THR PRO GLN LYS ILE SEQRES 3 B 126 SER THR ASP LYS VAL ARG GLY VAL ARG LYS ARG VAL LEU SEQRES 4 B 126 ILE GLY LEU LYS ASP ALA PRO ASN PHE VAL MET ARG LEU SEQRES 5 B 126 PHE THR VAL GLU PRO GLY GLY LEU ILE ASP ARG HIS SER SEQRES 6 B 126 HIS PRO TRP GLU HIS GLU ILE PHE VAL LEU LYS GLY LYS SEQRES 7 B 126 LEU THR VAL LEU LYS GLU GLN GLY GLU GLU THR VAL GLU SEQRES 8 B 126 GLU GLY PHE TYR ILE PHE VAL GLU PRO ASN GLU ILE HIS SEQRES 9 B 126 GLY PHE ARG ASN ASP THR ASP SER GLU VAL GLU PHE LEU SEQRES 10 B 126 CYS LEU ILE PRO LYS GLU GLY GLY GLU HET MN A 115 1 HET UNL A 116 4 HET MN B 115 1 HETNAM MN MANGANESE (II) ION HETNAM UNL UNKNOWN LIGAND FORMUL 3 MN 2(MN 2+) FORMUL 6 HOH *169(H2 O) HELIX 1 1 TYR A 7 VAL A 9 5 3 HELIX 2 2 GLU A 111 GLY A 113 5 3 HELIX 3 3 TYR B 7 VAL B 9 5 3 HELIX 4 4 GLU B 111 GLY B 113 5 3 SHEET 1 A 7 ILE A 2 ARG A 5 0 SHEET 2 A 7 PHE B 82 VAL B 86 -1 O TYR B 83 N LYS A 4 SHEET 3 A 7 HIS B 58 LYS B 64 -1 N ILE B 60 O ILE B 84 SHEET 4 A 7 VAL B 102 PRO B 109 -1 O LEU B 105 N PHE B 61 SHEET 5 A 7 PHE B 36 HIS B 52 -1 N ARG B 39 O CYS B 106 SHEET 6 A 7 VAL B 19 ILE B 28 -1 N ARG B 25 O LEU B 40 SHEET 7 A 7 GLN B 12 SER B 15 -1 N GLN B 12 O LYS B 24 SHEET 1 B 8 ILE A 2 ARG A 5 0 SHEET 2 B 8 PHE B 82 VAL B 86 -1 O TYR B 83 N LYS A 4 SHEET 3 B 8 HIS B 58 LYS B 64 -1 N ILE B 60 O ILE B 84 SHEET 4 B 8 VAL B 102 PRO B 109 -1 O LEU B 105 N PHE B 61 SHEET 5 B 8 PHE B 36 HIS B 52 -1 N ARG B 39 O CYS B 106 SHEET 6 B 8 HIS B 92 ARG B 95 -1 O PHE B 94 N ILE B 49 SHEET 7 B 8 LYS B 66 LYS B 71 -1 N THR B 68 O ARG B 95 SHEET 8 B 8 GLY B 74 GLU B 79 -1 O GLU B 76 N VAL B 69 SHEET 1 C 6 GLN A 12 ILE A 14 0 SHEET 2 C 6 VAL A 19 ILE A 28 -1 O VAL A 22 N ILE A 14 SHEET 3 C 6 PHE A 36 HIS A 52 -1 O LEU A 40 N ARG A 25 SHEET 4 C 6 HIS A 92 ARG A 95 -1 O PHE A 94 N ILE A 49 SHEET 5 C 6 LYS A 66 LEU A 70 -1 N THR A 68 O ARG A 95 SHEET 6 C 6 GLU A 75 GLU A 79 -1 O GLU A 76 N VAL A 69 SHEET 1 D 7 GLN A 12 ILE A 14 0 SHEET 2 D 7 VAL A 19 ILE A 28 -1 O VAL A 22 N ILE A 14 SHEET 3 D 7 PHE A 36 HIS A 52 -1 O LEU A 40 N ARG A 25 SHEET 4 D 7 VAL A 102 PRO A 109 -1 O VAL A 102 N VAL A 43 SHEET 5 D 7 HIS A 58 LYS A 64 -1 N GLU A 59 O LEU A 107 SHEET 6 D 7 PHE A 82 VAL A 86 -1 O ILE A 84 N ILE A 60 SHEET 7 D 7 ILE B 2 ARG B 5 -1 O LYS B 4 N TYR A 83 LINK NE2 HIS A 52 MN MN A 115 1555 1555 2.19 LINK NE2 HIS A 54 MN MN A 115 1555 1555 2.19 LINK NE2 HIS A 58 MN MN A 115 1555 1555 2.25 LINK NE2 HIS A 92 MN MN A 115 1555 1555 2.13 LINK MN MN A 115 O HOH A 124 1555 1555 2.24 LINK MN MN A 115 O HOH A 135 1555 1555 2.06 LINK NE2 HIS B 52 MN MN B 115 1555 1555 2.43 LINK NE2 HIS B 54 MN MN B 115 1555 1555 2.18 LINK NE2 HIS B 58 MN MN B 115 1555 1555 2.17 LINK NE2 HIS B 92 MN MN B 115 1555 1555 2.16 LINK MN MN B 115 O HOH B 137 1555 1555 1.96 LINK MN MN B 115 O HOH B 161 1555 1555 2.27 SITE 1 AC1 6 HIS A 52 HIS A 54 HIS A 58 HIS A 92 SITE 2 AC1 6 HOH A 124 HOH A 135 SITE 1 AC2 6 HIS B 52 HIS B 54 HIS B 58 HIS B 92 SITE 2 AC2 6 HOH B 137 HOH B 161 SITE 1 AC3 7 ILE A 49 PHE A 94 PHE A 104 CYS A 106 SITE 2 AC3 7 HOH A 124 HOH A 175 HOH A 190 CRYST1 52.550 52.550 96.267 90.00 90.00 120.00 P 32 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 0.019029 0.010987 0.000000 0.00000 SCALE2 0.000000 0.021973 0.000000 0.00000 SCALE3 0.000000 0.000000 0.010388 0.00000