HEADER TRANSFERASE 04-FEB-03 1J3L TITLE STRUCTURE OF THE RNA-PROCESSING INHIBITOR RRAA FROM THERMUS TITLE 2 THERMOPHILIS COMPND MOL_ID: 1; COMPND 2 MOLECULE: DEMETHYLMENAQUINONE METHYLTRANSFERASE; COMPND 3 CHAIN: A, B, C, D, E, F; COMPND 4 EC: 2.1.1.-; COMPND 5 ENGINEERED: YES; COMPND 6 MUTATION: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: THERMUS THERMOPHILUS; SOURCE 3 ORGANISM_TAXID: 274; SOURCE 4 STRAIN: HD8; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 7 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 8 EXPRESSION_SYSTEM_PLASMID: PET11A KEYWDS VITAMINE K2, STRUCTURAL GENOMICS, RIKEN STRUCTURAL KEYWDS 2 GENOMICS/PROTEOMICS INITIATIVE, RSGI, TRANSFERASE EXPDTA X-RAY DIFFRACTION AUTHOR P.H.REHSE,M.MIYANO,T.H.TAHIROV,RIKEN STRUCTURAL GENOMICS/PROTEOMICS AUTHOR 2 INITIATIVE (RSGI) REVDAT 4 27-DEC-23 1J3L 1 REMARK LINK REVDAT 3 24-FEB-09 1J3L 1 VERSN REVDAT 2 08-FEB-05 1J3L 1 AUTHOR JRNL KEYWDS REMARK REVDAT 2 2 1 TITLE REVDAT 1 17-FEB-04 1J3L 0 JRNL AUTH P.H.REHSE,C.KUROISHI,T.H.TAHIROV JRNL TITL STRUCTURE OF THE RNA-PROCESSING INHIBITOR RRAA FROM THERMUS JRNL TITL 2 THERMOPHILIS. JRNL REF ACTA CRYSTALLOGR.,SECT.D V. 60 1997 2004 JRNL REFN ISSN 0907-4449 JRNL PMID 15502308 JRNL DOI 10.1107/S0907444904021146 REMARK 2 REMARK 2 RESOLUTION. 2.30 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : CNS 1.1 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) : 2.30 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 38.40 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 DATA CUTOFF HIGH (ABS(F)) : 231118.500 REMARK 3 DATA CUTOFF LOW (ABS(F)) : 0.0000 REMARK 3 COMPLETENESS (WORKING+TEST) (%) : 85.3 REMARK 3 NUMBER OF REFLECTIONS : 66983 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) : 0.206 REMARK 3 FREE R VALUE : 0.274 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 6.000 REMARK 3 FREE R VALUE TEST SET COUNT : 3996 REMARK 3 ESTIMATED ERROR OF FREE R VALUE : 0.004 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) : 2.30 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.44 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 82.60 REMARK 3 REFLECTIONS IN BIN (WORKING SET) : 10097 REMARK 3 BIN R VALUE (WORKING SET) : 0.2770 REMARK 3 BIN FREE R VALUE : 0.3200 REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : 6.60 REMARK 3 BIN FREE R VALUE TEST SET COUNT : 709 REMARK 3 ESTIMATED ERROR OF BIN FREE R VALUE : 0.012 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 7291 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 3 REMARK 3 SOLVENT ATOMS : 398 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 22.40 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 49.10 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.48000 REMARK 3 B22 (A**2) : -3.20000 REMARK 3 B33 (A**2) : 3.68000 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) : 0.28 REMARK 3 ESD FROM SIGMAA (A) : 0.30 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) : 0.39 REMARK 3 ESD FROM C-V SIGMAA (A) : 0.35 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 BOND LENGTHS (A) : 0.006 REMARK 3 BOND ANGLES (DEGREES) : 1.300 REMARK 3 DIHEDRAL ANGLES (DEGREES) : 23.90 REMARK 3 IMPROPER ANGLES (DEGREES) : 0.800 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) : 4.560 ; 1.500 REMARK 3 MAIN-CHAIN ANGLE (A**2) : 6.010 ; 2.000 REMARK 3 SIDE-CHAIN BOND (A**2) : 6.700 ; 2.000 REMARK 3 SIDE-CHAIN ANGLE (A**2) : 8.390 ; 2.500 REMARK 3 REMARK 3 BULK SOLVENT MODELING. REMARK 3 METHOD USED : FLAT MODEL REMARK 3 KSOL : 0.30 REMARK 3 BSOL : 42.21 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 : WATER_REP.PARAM REMARK 3 PARAMETER FILE 3 : ION.PARAM REMARK 3 PARAMETER FILE 4 : 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 : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: THE FOLLOWING RESIDUES HAVE BEEN BUILT REMARK 3 INTO WEAK DENSITY AND THEREFORE REMARK 3 SHOULD BE INTERPRETTED WITH CAUTION: REMARK 3 A1, B160-164, C159-161, D158-163, REMARK 3 E158-161 AND F154:157 REMARK 4 REMARK 4 1J3L COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 10-FEB-03. REMARK 100 THE DEPOSITION ID IS D_1000005587. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 09-JUL-02 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 8.3 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SPRING-8 REMARK 200 BEAMLINE : BL26B1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.97900, 0.97925, 0.97000 REMARK 200 MONOCHROMATOR : SI 111 REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : IMAGE PLATE REMARK 200 DETECTOR MANUFACTURER : RIGAKU RAXIS V REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 191090 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.300 REMARK 200 RESOLUTION RANGE LOW (A) : 38.500 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 98.9 REMARK 200 DATA REDUNDANCY : 5.050 REMARK 200 R MERGE (I) : 0.08400 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 15.9600 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.30 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.38 REMARK 200 COMPLETENESS FOR SHELL (%) : 92.3 REMARK 200 DATA REDUNDANCY IN SHELL : 4.90 REMARK 200 R MERGE FOR SHELL (I) : 0.43200 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 3.320 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: MAD REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MAD REMARK 200 SOFTWARE USED: SOLVE REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 41.46 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.12 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: PEG 1000, MAGNESIUM CHLORIDE, TRIS-CL, REMARK 280 PH 8.3, VAPOR DIFFUSION, SITTING DROP, TEMPERATURE 296K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: C 2 2 21 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,-Y,Z+1/2 REMARK 290 3555 -X,Y,-Z+1/2 REMARK 290 4555 X,-Y,-Z REMARK 290 5555 X+1/2,Y+1/2,Z REMARK 290 6555 -X+1/2,-Y+1/2,Z+1/2 REMARK 290 7555 -X+1/2,Y+1/2,-Z+1/2 REMARK 290 8555 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 135.15950 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 135.15950 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 0.00000 REMARK 290 SMTRY1 5 1.000000 0.000000 0.000000 30.93600 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 54.53400 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 6 -1.000000 0.000000 0.000000 30.93600 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 54.53400 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 135.15950 REMARK 290 SMTRY1 7 -1.000000 0.000000 0.000000 30.93600 REMARK 290 SMTRY2 7 0.000000 1.000000 0.000000 54.53400 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 135.15950 REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 30.93600 REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 54.53400 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 0.00000 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1, 2 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 300 REMARK: THE BIOLOGICAL ASSEMBLY IS A TRIMER, TWO OF WHICH ARE IN REMARK 300 THE ASSYMETRIC UNIT. TRIMER 1 IS MADE UP OF CHAINS A,B AND C, REMARK 300 TRIMER 2 IS MADE UP OF CHAINS D, E AND F. 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 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 350 REMARK 350 BIOMOLECULE: 2 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: TRIMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: D, E, F 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 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 B1053 LIES ON A SPECIAL POSITION. REMARK 375 HOH C 228 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 SER C 162 REMARK 465 GLY C 163 REMARK 465 GLY C 164 REMARK 465 SER F 158 REMARK 465 GLY F 159 REMARK 465 VAL F 160 REMARK 465 ARG F 161 REMARK 465 SER F 162 REMARK 465 GLY F 163 REMARK 465 GLY F 164 REMARK 470 REMARK 470 MISSING ATOM REMARK 470 THE FOLLOWING RESIDUES HAVE MISSING ATOMS (M=MODEL NUMBER; REMARK 470 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 470 I=INSERTION CODE): REMARK 470 M RES CSSEQI ATOMS REMARK 470 SER A 162 CB OG REMARK 470 VAL B 160 CB CG1 CG2 REMARK 470 PRO F 157 C O 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 GLU A 2 -147.06 -153.48 REMARK 500 ALA A 3 157.79 -38.16 REMARK 500 ARG A 161 -42.82 -151.81 REMARK 500 SER A 162 11.63 167.35 REMARK 500 GLU B 2 -105.67 -80.24 REMARK 500 TYR B 12 72.63 -118.00 REMARK 500 SER B 158 33.83 -62.70 REMARK 500 VAL B 160 38.73 -168.90 REMARK 500 ARG B 161 -161.36 35.93 REMARK 500 SER B 162 -53.63 66.88 REMARK 500 PRO C 105 48.22 -68.19 REMARK 500 GLU C 121 -68.44 -93.63 REMARK 500 ASP C 127 52.47 39.09 REMARK 500 SER C 158 -165.60 -123.01 REMARK 500 VAL C 160 -71.23 -45.62 REMARK 500 GLU D 2 -123.61 177.18 REMARK 500 ALA D 3 109.49 56.08 REMARK 500 TYR D 12 73.58 -116.26 REMARK 500 LEU D 38 125.97 -171.04 REMARK 500 ALA D 56 96.85 -17.36 REMARK 500 LEU D 73 131.25 -178.26 REMARK 500 ASP D 97 40.50 73.91 REMARK 500 PRO D 105 57.70 -68.28 REMARK 500 GLU D 147 -5.95 -45.98 REMARK 500 PRO D 157 -107.15 -85.96 REMARK 500 SER D 158 -171.68 73.88 REMARK 500 ARG D 161 49.52 -157.21 REMARK 500 ALA E 3 109.93 64.26 REMARK 500 THR E 37 171.13 -50.07 REMARK 500 LEU E 38 116.27 -176.79 REMARK 500 VAL E 40 159.12 178.17 REMARK 500 ALA E 45 -72.26 -30.68 REMARK 500 LEU E 51 19.29 -67.89 REMARK 500 GLU E 53 13.00 -65.43 REMARK 500 GLU E 54 146.90 41.56 REMARK 500 ALA E 56 106.73 54.10 REMARK 500 ALA E 78 -72.41 -46.08 REMARK 500 LYS E 84 76.37 -108.29 REMARK 500 TRP E 86 122.06 -170.48 REMARK 500 ASP E 97 48.26 70.45 REMARK 500 PRO E 105 34.90 -65.46 REMARK 500 GLU E 121 -87.55 -59.10 REMARK 500 LYS E 131 76.96 -162.42 REMARK 500 PRO E 154 -36.20 -38.78 REMARK 500 PRO E 156 158.01 -36.05 REMARK 500 PRO E 157 -164.38 -54.39 REMARK 500 VAL E 160 -70.46 -133.85 REMARK 500 SER E 162 -63.51 -155.32 REMARK 500 ALA F 3 97.54 66.76 REMARK 500 TYR F 12 54.75 -140.46 REMARK 500 REMARK 500 THIS ENTRY HAS 64 RAMACHANDRAN OUTLIERS. 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 MG A1001 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU A 155 OE1 REMARK 620 2 ASP D 97 OD2 90.3 REMARK 620 3 GLU D 100 OE2 143.4 93.5 REMARK 620 4 HOH D 191 O 81.1 51.5 128.3 REMARK 620 N 1 2 3 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG A 1001 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CL A 1002 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CL B 1003 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: TTK003000249 RELATED DB: TARGETDB DBREF 1J3L A 1 164 UNP P83846 P83846_THETH 1 164 DBREF 1J3L B 1 164 UNP P83846 P83846_THETH 1 164 DBREF 1J3L C 1 164 UNP P83846 P83846_THETH 1 164 DBREF 1J3L D 1 164 UNP P83846 P83846_THETH 1 164 DBREF 1J3L E 1 164 UNP P83846 P83846_THETH 1 164 DBREF 1J3L F 1 164 UNP P83846 P83846_THETH 1 164 SEQRES 1 A 164 MET GLU ALA ARG THR THR ASP LEU SER ASP LEU TYR PRO SEQRES 2 A 164 GLU GLY GLU ALA LEU PRO MSE VAL PHE LYS SER PHE GLY SEQRES 3 A 164 GLY ARG ALA ARG PHE ALA GLY ARG VAL ARG THR LEU ARG SEQRES 4 A 164 VAL PHE GLU ASP ASN ALA LEU VAL ARG LYS VAL LEU GLU SEQRES 5 A 164 GLU GLU GLY ALA GLY GLN VAL LEU PHE VAL ASP GLY GLY SEQRES 6 A 164 GLY SER LEU ARG THR ALA LEU LEU GLY GLY ASN LEU ALA SEQRES 7 A 164 ARG ARG ALA TRP GLU LYS GLY TRP ALA GLY VAL VAL VAL SEQRES 8 A 164 HIS GLY ALA VAL ARG ASP THR GLU GLU LEU ARG GLU VAL SEQRES 9 A 164 PRO ILE GLY LEU LEU ALA LEU ALA ALA THR PRO LYS LYS SEQRES 10 A 164 SER ALA LYS GLU GLY LYS GLY GLU VAL ASP VAL PRO LEU SEQRES 11 A 164 LYS VAL LEU GLY VAL GLU VAL LEU PRO GLY SER PHE LEU SEQRES 12 A 164 LEU ALA ASP GLU ASP GLY LEU LEU LEU LEU PRO GLU PRO SEQRES 13 A 164 PRO SER GLY VAL ARG SER GLY GLY SEQRES 1 B 164 MET GLU ALA ARG THR THR ASP LEU SER ASP LEU TYR PRO SEQRES 2 B 164 GLU GLY GLU ALA LEU PRO MSE VAL PHE LYS SER PHE GLY SEQRES 3 B 164 GLY ARG ALA ARG PHE ALA GLY ARG VAL ARG THR LEU ARG SEQRES 4 B 164 VAL PHE GLU ASP ASN ALA LEU VAL ARG LYS VAL LEU GLU SEQRES 5 B 164 GLU GLU GLY ALA GLY GLN VAL LEU PHE VAL ASP GLY GLY SEQRES 6 B 164 GLY SER LEU ARG THR ALA LEU LEU GLY GLY ASN LEU ALA SEQRES 7 B 164 ARG ARG ALA TRP GLU LYS GLY TRP ALA GLY VAL VAL VAL SEQRES 8 B 164 HIS GLY ALA VAL ARG ASP THR GLU GLU LEU ARG GLU VAL SEQRES 9 B 164 PRO ILE GLY LEU LEU ALA LEU ALA ALA THR PRO LYS LYS SEQRES 10 B 164 SER ALA LYS GLU GLY LYS GLY GLU VAL ASP VAL PRO LEU SEQRES 11 B 164 LYS VAL LEU GLY VAL GLU VAL LEU PRO GLY SER PHE LEU SEQRES 12 B 164 LEU ALA ASP GLU ASP GLY LEU LEU LEU LEU PRO GLU PRO SEQRES 13 B 164 PRO SER GLY VAL ARG SER GLY GLY SEQRES 1 C 164 MET GLU ALA ARG THR THR ASP LEU SER ASP LEU TYR PRO SEQRES 2 C 164 GLU GLY GLU ALA LEU PRO MSE VAL PHE LYS SER PHE GLY SEQRES 3 C 164 GLY ARG ALA ARG PHE ALA GLY ARG VAL ARG THR LEU ARG SEQRES 4 C 164 VAL PHE GLU ASP ASN ALA LEU VAL ARG LYS VAL LEU GLU SEQRES 5 C 164 GLU GLU GLY ALA GLY GLN VAL LEU PHE VAL ASP GLY GLY SEQRES 6 C 164 GLY SER LEU ARG THR ALA LEU LEU GLY GLY ASN LEU ALA SEQRES 7 C 164 ARG ARG ALA TRP GLU LYS GLY TRP ALA GLY VAL VAL VAL SEQRES 8 C 164 HIS GLY ALA VAL ARG ASP THR GLU GLU LEU ARG GLU VAL SEQRES 9 C 164 PRO ILE GLY LEU LEU ALA LEU ALA ALA THR PRO LYS LYS SEQRES 10 C 164 SER ALA LYS GLU GLY LYS GLY GLU VAL ASP VAL PRO LEU SEQRES 11 C 164 LYS VAL LEU GLY VAL GLU VAL LEU PRO GLY SER PHE LEU SEQRES 12 C 164 LEU ALA ASP GLU ASP GLY LEU LEU LEU LEU PRO GLU PRO SEQRES 13 C 164 PRO SER GLY VAL ARG SER GLY GLY SEQRES 1 D 164 MET GLU ALA ARG THR THR ASP LEU SER ASP LEU TYR PRO SEQRES 2 D 164 GLU GLY GLU ALA LEU PRO MSE VAL PHE LYS SER PHE GLY SEQRES 3 D 164 GLY ARG ALA ARG PHE ALA GLY ARG VAL ARG THR LEU ARG SEQRES 4 D 164 VAL PHE GLU ASP ASN ALA LEU VAL ARG LYS VAL LEU GLU SEQRES 5 D 164 GLU GLU GLY ALA GLY GLN VAL LEU PHE VAL ASP GLY GLY SEQRES 6 D 164 GLY SER LEU ARG THR ALA LEU LEU GLY GLY ASN LEU ALA SEQRES 7 D 164 ARG ARG ALA TRP GLU LYS GLY TRP ALA GLY VAL VAL VAL SEQRES 8 D 164 HIS GLY ALA VAL ARG ASP THR GLU GLU LEU ARG GLU VAL SEQRES 9 D 164 PRO ILE GLY LEU LEU ALA LEU ALA ALA THR PRO LYS LYS SEQRES 10 D 164 SER ALA LYS GLU GLY LYS GLY GLU VAL ASP VAL PRO LEU SEQRES 11 D 164 LYS VAL LEU GLY VAL GLU VAL LEU PRO GLY SER PHE LEU SEQRES 12 D 164 LEU ALA ASP GLU ASP GLY LEU LEU LEU LEU PRO GLU PRO SEQRES 13 D 164 PRO SER GLY VAL ARG SER GLY GLY SEQRES 1 E 164 MET GLU ALA ARG THR THR ASP LEU SER ASP LEU TYR PRO SEQRES 2 E 164 GLU GLY GLU ALA LEU PRO MSE VAL PHE LYS SER PHE GLY SEQRES 3 E 164 GLY ARG ALA ARG PHE ALA GLY ARG VAL ARG THR LEU ARG SEQRES 4 E 164 VAL PHE GLU ASP ASN ALA LEU VAL ARG LYS VAL LEU GLU SEQRES 5 E 164 GLU GLU GLY ALA GLY GLN VAL LEU PHE VAL ASP GLY GLY SEQRES 6 E 164 GLY SER LEU ARG THR ALA LEU LEU GLY GLY ASN LEU ALA SEQRES 7 E 164 ARG ARG ALA TRP GLU LYS GLY TRP ALA GLY VAL VAL VAL SEQRES 8 E 164 HIS GLY ALA VAL ARG ASP THR GLU GLU LEU ARG GLU VAL SEQRES 9 E 164 PRO ILE GLY LEU LEU ALA LEU ALA ALA THR PRO LYS LYS SEQRES 10 E 164 SER ALA LYS GLU GLY LYS GLY GLU VAL ASP VAL PRO LEU SEQRES 11 E 164 LYS VAL LEU GLY VAL GLU VAL LEU PRO GLY SER PHE LEU SEQRES 12 E 164 LEU ALA ASP GLU ASP GLY LEU LEU LEU LEU PRO GLU PRO SEQRES 13 E 164 PRO SER GLY VAL ARG SER GLY GLY SEQRES 1 F 164 MET GLU ALA ARG THR THR ASP LEU SER ASP LEU TYR PRO SEQRES 2 F 164 GLU GLY GLU ALA LEU PRO MSE VAL PHE LYS SER PHE GLY SEQRES 3 F 164 GLY ARG ALA ARG PHE ALA GLY ARG VAL ARG THR LEU ARG SEQRES 4 F 164 VAL PHE GLU ASP ASN ALA LEU VAL ARG LYS VAL LEU GLU SEQRES 5 F 164 GLU GLU GLY ALA GLY GLN VAL LEU PHE VAL ASP GLY GLY SEQRES 6 F 164 GLY SER LEU ARG THR ALA LEU LEU GLY GLY ASN LEU ALA SEQRES 7 F 164 ARG ARG ALA TRP GLU LYS GLY TRP ALA GLY VAL VAL VAL SEQRES 8 F 164 HIS GLY ALA VAL ARG ASP THR GLU GLU LEU ARG GLU VAL SEQRES 9 F 164 PRO ILE GLY LEU LEU ALA LEU ALA ALA THR PRO LYS LYS SEQRES 10 F 164 SER ALA LYS GLU GLY LYS GLY GLU VAL ASP VAL PRO LEU SEQRES 11 F 164 LYS VAL LEU GLY VAL GLU VAL LEU PRO GLY SER PHE LEU SEQRES 12 F 164 LEU ALA ASP GLU ASP GLY LEU LEU LEU LEU PRO GLU PRO SEQRES 13 F 164 PRO SER GLY VAL ARG SER GLY GLY MODRES 1J3L MSE A 20 MET SELENOMETHIONINE MODRES 1J3L MSE B 20 MET SELENOMETHIONINE MODRES 1J3L MSE C 20 MET SELENOMETHIONINE MODRES 1J3L MSE D 20 MET SELENOMETHIONINE MODRES 1J3L MSE E 20 MET SELENOMETHIONINE MODRES 1J3L MSE F 20 MET SELENOMETHIONINE HET MSE A 20 8 HET MSE B 20 8 HET MSE C 20 8 HET MSE D 20 8 HET MSE E 20 8 HET MSE F 20 8 HET MG A1001 1 HET CL A1002 1 HET CL B1003 1 HETNAM MSE SELENOMETHIONINE HETNAM MG MAGNESIUM ION HETNAM CL CHLORIDE ION FORMUL 1 MSE 6(C5 H11 N O2 SE) FORMUL 7 MG MG 2+ FORMUL 8 CL 2(CL 1-) FORMUL 10 HOH *398(H2 O) HELIX 1 1 ARG A 4 TYR A 12 1 9 HELIX 2 2 ASN A 44 GLU A 52 1 9 HELIX 3 3 GLY A 74 LYS A 84 1 11 HELIX 4 4 ASP A 97 ARG A 102 1 6 HELIX 5 5 ARG B 4 TYR B 12 1 9 HELIX 6 6 ASN B 44 GLU B 52 1 9 HELIX 7 7 GLY B 74 LYS B 84 1 11 HELIX 8 8 ASP B 97 ARG B 102 1 6 HELIX 9 9 ARG C 4 TYR C 12 1 9 HELIX 10 10 ASN C 44 GLU C 53 1 10 HELIX 11 11 GLY C 74 LYS C 84 1 11 HELIX 12 12 ASP C 97 ARG C 102 1 6 HELIX 13 13 THR D 6 TYR D 12 1 7 HELIX 14 14 ASN D 44 GLU D 53 1 10 HELIX 15 15 GLY D 74 LYS D 84 1 11 HELIX 16 16 ASP D 97 ARG D 102 1 6 HELIX 17 17 ARG E 4 TYR E 12 1 9 HELIX 18 18 ASN E 44 LEU E 51 1 8 HELIX 19 19 GLY E 74 LYS E 84 1 11 HELIX 20 20 ASP E 97 ARG E 102 1 6 HELIX 21 21 ARG F 4 ASP F 10 1 7 HELIX 22 22 ASN F 44 GLU F 52 1 9 HELIX 23 23 GLY F 74 LYS F 84 1 11 HELIX 24 24 ASP F 97 ARG F 102 1 6 SHEET 1 A 6 LYS A 23 SER A 24 0 SHEET 2 A 6 GLY A 107 ALA A 110 -1 O ALA A 110 N LYS A 23 SHEET 3 A 6 GLY A 88 HIS A 92 1 N VAL A 89 O LEU A 109 SHEET 4 A 6 GLN A 58 ASP A 63 1 N VAL A 62 O VAL A 90 SHEET 5 A 6 PHE A 31 ARG A 39 1 N LEU A 38 O ASP A 63 SHEET 6 A 6 GLU A 125 VAL A 126 -1 O GLU A 125 N ARG A 39 SHEET 1 B 8 LYS A 23 SER A 24 0 SHEET 2 B 8 GLY A 107 ALA A 110 -1 O ALA A 110 N LYS A 23 SHEET 3 B 8 GLY A 88 HIS A 92 1 N VAL A 89 O LEU A 109 SHEET 4 B 8 GLN A 58 ASP A 63 1 N VAL A 62 O VAL A 90 SHEET 5 B 8 PHE A 31 ARG A 39 1 N LEU A 38 O ASP A 63 SHEET 6 B 8 PHE A 142 ASP A 146 -1 O LEU A 143 N GLY A 33 SHEET 7 B 8 GLY A 149 LEU A 153 -1 O LEU A 153 N PHE A 142 SHEET 8 B 8 GLU A 16 LEU A 18 -1 N GLU A 16 O LEU A 152 SHEET 1 C 2 ALA A 94 VAL A 95 0 SHEET 2 C 2 ALA A 112 ALA A 113 1 O ALA A 112 N VAL A 95 SHEET 1 D 2 LEU A 130 VAL A 132 0 SHEET 2 D 2 VAL A 135 VAL A 137 -1 O VAL A 135 N VAL A 132 SHEET 1 E 6 LYS B 23 SER B 24 0 SHEET 2 E 6 GLY B 107 ALA B 113 -1 O ALA B 110 N LYS B 23 SHEET 3 E 6 GLY B 88 VAL B 95 1 N VAL B 91 O LEU B 109 SHEET 4 E 6 GLN B 58 ASP B 63 1 N VAL B 62 O VAL B 90 SHEET 5 E 6 PHE B 31 ARG B 39 1 N LEU B 38 O ASP B 63 SHEET 6 E 6 GLU B 125 VAL B 126 -1 O GLU B 125 N ARG B 39 SHEET 1 F 8 LYS B 23 SER B 24 0 SHEET 2 F 8 GLY B 107 ALA B 113 -1 O ALA B 110 N LYS B 23 SHEET 3 F 8 GLY B 88 VAL B 95 1 N VAL B 91 O LEU B 109 SHEET 4 F 8 GLN B 58 ASP B 63 1 N VAL B 62 O VAL B 90 SHEET 5 F 8 PHE B 31 ARG B 39 1 N LEU B 38 O ASP B 63 SHEET 6 F 8 PHE B 142 ASP B 146 -1 O LEU B 143 N GLY B 33 SHEET 7 F 8 GLY B 149 LEU B 153 -1 O LEU B 153 N PHE B 142 SHEET 8 F 8 GLU B 16 LEU B 18 -1 N GLU B 16 O LEU B 152 SHEET 1 G 2 LEU B 130 VAL B 132 0 SHEET 2 G 2 VAL B 135 VAL B 137 -1 O VAL B 135 N VAL B 132 SHEET 1 H 8 GLU C 16 LEU C 18 0 SHEET 2 H 8 GLY C 149 LEU C 153 -1 O LEU C 152 N GLU C 16 SHEET 3 H 8 PHE C 142 ASP C 146 -1 N PHE C 142 O LEU C 153 SHEET 4 H 8 PHE C 31 ARG C 39 -1 N GLY C 33 O LEU C 143 SHEET 5 H 8 VAL C 59 ASP C 63 1 O PHE C 61 N ARG C 36 SHEET 6 H 8 GLY C 88 VAL C 95 1 O VAL C 90 N VAL C 62 SHEET 7 H 8 GLY C 107 ALA C 113 1 O LEU C 109 N VAL C 91 SHEET 8 H 8 LYS C 23 SER C 24 -1 N LYS C 23 O ALA C 110 SHEET 1 I 5 GLU C 16 LEU C 18 0 SHEET 2 I 5 GLY C 149 LEU C 153 -1 O LEU C 152 N GLU C 16 SHEET 3 I 5 PHE C 142 ASP C 146 -1 N PHE C 142 O LEU C 153 SHEET 4 I 5 PHE C 31 ARG C 39 -1 N GLY C 33 O LEU C 143 SHEET 5 I 5 GLU C 125 VAL C 126 -1 O GLU C 125 N ARG C 39 SHEET 1 J 2 LEU C 130 VAL C 132 0 SHEET 2 J 2 VAL C 135 VAL C 137 -1 O VAL C 135 N VAL C 132 SHEET 1 K 6 LYS D 23 SER D 24 0 SHEET 2 K 6 GLY D 107 ALA D 113 -1 O ALA D 110 N LYS D 23 SHEET 3 K 6 GLY D 88 VAL D 95 1 N VAL D 89 O GLY D 107 SHEET 4 K 6 GLN D 58 ASP D 63 1 N VAL D 62 O VAL D 90 SHEET 5 K 6 PHE D 31 ARG D 39 1 N ARG D 34 O VAL D 59 SHEET 6 K 6 GLU D 125 VAL D 126 -1 O GLU D 125 N ARG D 39 SHEET 1 L 8 LYS D 23 SER D 24 0 SHEET 2 L 8 GLY D 107 ALA D 113 -1 O ALA D 110 N LYS D 23 SHEET 3 L 8 GLY D 88 VAL D 95 1 N VAL D 89 O GLY D 107 SHEET 4 L 8 GLN D 58 ASP D 63 1 N VAL D 62 O VAL D 90 SHEET 5 L 8 PHE D 31 ARG D 39 1 N ARG D 34 O VAL D 59 SHEET 6 L 8 PHE D 142 ASP D 146 -1 O ALA D 145 N PHE D 31 SHEET 7 L 8 GLY D 149 LEU D 153 -1 O GLY D 149 N ASP D 146 SHEET 8 L 8 GLU D 16 LEU D 18 -1 N GLU D 16 O LEU D 152 SHEET 1 M 2 LEU D 130 LYS D 131 0 SHEET 2 M 2 GLU D 136 VAL D 137 -1 O VAL D 137 N LEU D 130 SHEET 1 N 8 LYS E 23 SER E 24 0 SHEET 2 N 8 GLY E 107 ALA E 113 -1 O ALA E 110 N LYS E 23 SHEET 3 N 8 GLY E 88 VAL E 95 1 N VAL E 91 O LEU E 109 SHEET 4 N 8 GLN E 58 ASP E 63 1 N LEU E 60 O VAL E 90 SHEET 5 N 8 PHE E 31 VAL E 35 1 N ARG E 34 O VAL E 59 SHEET 6 N 8 PHE E 142 ASP E 146 -1 O ALA E 145 N PHE E 31 SHEET 7 N 8 GLY E 149 LEU E 153 -1 O LEU E 153 N PHE E 142 SHEET 8 N 8 GLU E 16 PRO E 19 -1 N GLU E 16 O LEU E 152 SHEET 1 O 6 LYS E 23 SER E 24 0 SHEET 2 O 6 GLY E 107 ALA E 113 -1 O ALA E 110 N LYS E 23 SHEET 3 O 6 GLY E 88 VAL E 95 1 N VAL E 91 O LEU E 109 SHEET 4 O 6 GLN E 58 ASP E 63 1 N LEU E 60 O VAL E 90 SHEET 5 O 6 LEU E 38 ARG E 39 1 N LEU E 38 O ASP E 63 SHEET 6 O 6 GLU E 125 VAL E 126 -1 O GLU E 125 N ARG E 39 SHEET 1 P 4 GLU F 16 PRO F 19 0 SHEET 2 P 4 GLY F 149 LEU F 153 -1 O LEU F 150 N LEU F 18 SHEET 3 P 4 SER F 141 ASP F 146 -1 N PHE F 142 O LEU F 153 SHEET 4 P 4 PHE F 31 VAL F 35 -1 N GLY F 33 O LEU F 143 SHEET 1 Q 6 LYS F 23 SER F 24 0 SHEET 2 Q 6 LEU F 108 ALA F 113 -1 O ALA F 110 N LYS F 23 SHEET 3 Q 6 VAL F 89 VAL F 95 1 N VAL F 91 O LEU F 109 SHEET 4 Q 6 LEU F 60 ASP F 63 1 N VAL F 62 O HIS F 92 SHEET 5 Q 6 THR F 37 ARG F 39 1 N LEU F 38 O ASP F 63 SHEET 6 Q 6 GLU F 125 VAL F 126 -1 O GLU F 125 N ARG F 39 SHEET 1 R 2 LEU F 130 LYS F 131 0 SHEET 2 R 2 GLU F 136 VAL F 137 -1 O VAL F 137 N LEU F 130 LINK C PRO A 19 N MSE A 20 1555 1555 1.33 LINK C MSE A 20 N VAL A 21 1555 1555 1.33 LINK C PRO B 19 N MSE B 20 1555 1555 1.33 LINK C MSE B 20 N VAL B 21 1555 1555 1.33 LINK C PRO C 19 N MSE C 20 1555 1555 1.33 LINK C MSE C 20 N VAL C 21 1555 1555 1.33 LINK C PRO D 19 N MSE D 20 1555 1555 1.33 LINK C MSE D 20 N VAL D 21 1555 1555 1.33 LINK C PRO E 19 N MSE E 20 1555 1555 1.33 LINK C MSE E 20 N VAL E 21 1555 1555 1.33 LINK C PRO F 19 N MSE F 20 1555 1555 1.33 LINK C MSE F 20 N VAL F 21 1555 1555 1.33 LINK OE1 GLU A 155 MG MG A1001 1555 1555 2.89 LINK MG MG A1001 OD2 ASP D 97 1555 1655 3.00 LINK MG MG A1001 OE2 GLU D 100 1555 1655 2.61 LINK MG MG A1001 O HOH D 191 1555 1655 3.06 SITE 1 AC1 4 GLU A 155 ASP D 97 GLU D 100 HOH D 191 SITE 1 AC2 3 GLY A 74 ASN A 76 LEU A 77 SITE 1 AC3 5 HOH A1011 ARG B 28 ALA B 29 ARG B 30 SITE 2 AC3 5 HOH B1049 CRYST1 61.872 109.068 270.319 90.00 90.00 90.00 C 2 2 21 48 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 0.016162 0.000000 0.000000 0.00000 SCALE2 0.000000 0.009169 0.000000 0.00000 SCALE3 0.000000 0.000000 0.003699 0.00000