HEADER ISOMERASE 18-SEP-09 3JX9 TITLE CRYSTAL STRUCTURE OF PUTATIVE PHOSPHOHEPTOSE ISOMERASE TITLE 2 (YP_001815198.1) FROM EXIGUOBACTERIUM SP. 255-15 AT 1.95 A RESOLUTION COMPND MOL_ID: 1; COMPND 2 MOLECULE: PUTATIVE PHOSPHOHEPTOSE ISOMERASE; COMPND 3 CHAIN: A, B; COMPND 4 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: EXIGUOBACTERIUM SIBIRICUM 255-15; SOURCE 3 ORGANISM_TAXID: 262543; SOURCE 4 STRAIN: DSM 17290 / JCM 13490 / 255-15; SOURCE 5 GENE: EXIG_2733, YP_001815198.1; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: HK100; SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: SPEEDET KEYWDS YP_001815198.1, PUTATIVE PHOSPHOHEPTOSE ISOMERASE, STRUCTURAL KEYWDS 2 GENOMICS, JOINT CENTER FOR STRUCTURAL GENOMICS, JCSG, PROTEIN KEYWDS 3 STRUCTURE INITIATIVE, PSI-2, UNKNOWN FUNCTION, ISOMERASE EXPDTA X-RAY DIFFRACTION AUTHOR JOINT CENTER FOR STRUCTURAL GENOMICS (JCSG) REVDAT 5 01-FEB-23 3JX9 1 REMARK SEQADV REVDAT 4 24-JUL-19 3JX9 1 REMARK LINK REVDAT 3 25-OCT-17 3JX9 1 REMARK REVDAT 2 13-JUL-11 3JX9 1 VERSN REVDAT 1 29-SEP-09 3JX9 0 JRNL AUTH JOINT CENTER FOR STRUCTURAL GENOMICS (JCSG) JRNL TITL CRYSTAL STRUCTURE OF PUTATIVE PHOSPHOHEPTOSE ISOMERASE JRNL TITL 2 (YP_001815198.1) FROM EXIGUOBACTERIUM SP. 255-15 AT 1.95 A JRNL TITL 3 RESOLUTION JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 1.95 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.2.0019 REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN REMARK 3 REMARK 3 REFINEMENT TARGET : MAXIMUM LIKELIHOOD WITH PHASES REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.95 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 29.41 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 3 NUMBER OF REFLECTIONS : 33677 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 CROSS-VALIDATION METHOD : THROUGHOUT REMARK 3 FREE R VALUE TEST SET SELECTION : RANDOM REMARK 3 R VALUE (WORKING + TEST SET) : 0.164 REMARK 3 R VALUE (WORKING SET) : 0.163 REMARK 3 FREE R VALUE : 0.188 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 1706 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) : 1.95 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.00 REMARK 3 REFLECTION IN BIN (WORKING SET) : 2336 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 100.0 REMARK 3 BIN R VALUE (WORKING SET) : 0.2120 REMARK 3 BIN FREE R VALUE SET COUNT : 131 REMARK 3 BIN FREE R VALUE : 0.2480 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2646 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 9 REMARK 3 SOLVENT ATOMS : 312 REMARK 3 REMARK 3 B VALUES. REMARK 3 B VALUE TYPE : LIKELY RESIDUAL REMARK 3 FROM WILSON PLOT (A**2) : 27.80 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 31.65 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.47000 REMARK 3 B22 (A**2) : 0.47000 REMARK 3 B33 (A**2) : -0.70000 REMARK 3 B12 (A**2) : 0.23000 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): 0.126 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.115 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.078 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 5.154 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.966 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.951 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 2764 ; 0.016 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): 1842 ; 0.001 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 3758 ; 1.426 ; 1.987 REMARK 3 BOND ANGLES OTHERS (DEGREES): 4522 ; 0.958 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 349 ; 5.698 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 117 ;39.305 ;24.359 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 486 ;14.300 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 15 ;16.812 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 438 ; 0.086 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 3060 ; 0.005 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 535 ; 0.001 ; 0.020 REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 555 ; 0.217 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): 1902 ; 0.197 ; 0.200 REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 1344 ; 0.174 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): 1361 ; 0.088 ; 0.200 REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 240 ; 0.145 ; 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 ; 0.295 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): 41 ; 0.241 ; 0.200 REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 10 ; 0.167 ; 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): 1891 ; 2.092 ; 3.000 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 698 ; 0.616 ; 3.000 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 2772 ; 2.889 ; 5.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1135 ; 5.208 ; 8.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 986 ; 6.993 ;11.000 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 : 1 REMARK 3 REMARK 3 NCS GROUP NUMBER : 1 REMARK 3 CHAIN NAMES : A B REMARK 3 NUMBER OF COMPONENTS NCS GROUP : 1 REMARK 3 COMPONENT C SSSEQI TO C SSSEQI CODE REMARK 3 1 A 0 A 168 4 REMARK 3 1 B 0 B 168 4 REMARK 3 GROUP CHAIN COUNT RMS WEIGHT REMARK 3 MEDIUM POSITIONAL 1 A (A): 2158 ; 0.370 ; 0.500 REMARK 3 MEDIUM THERMAL 1 A (A**2): 2158 ; 0.970 ; 2.000 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 2 REMARK 3 REMARK 3 TLS GROUP : 1 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 0 A 168 REMARK 3 ORIGIN FOR THE GROUP (A): -10.3582 29.3934 19.7280 REMARK 3 T TENSOR REMARK 3 T11: -0.0480 T22: -0.0967 REMARK 3 T33: -0.0813 T12: -0.0429 REMARK 3 T13: 0.0045 T23: -0.0061 REMARK 3 L TENSOR REMARK 3 L11: 1.9027 L22: 0.8751 REMARK 3 L33: 1.4888 L12: 0.2042 REMARK 3 L13: 0.7561 L23: -0.0737 REMARK 3 S TENSOR REMARK 3 S11: 0.0458 S12: -0.0338 S13: -0.0071 REMARK 3 S21: 0.0752 S22: -0.0316 S23: -0.0195 REMARK 3 S31: -0.0092 S32: 0.0476 S33: -0.0143 REMARK 3 REMARK 3 TLS GROUP : 2 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : B 0 B 168 REMARK 3 ORIGIN FOR THE GROUP (A): -21.8095 20.9487 0.7447 REMARK 3 T TENSOR REMARK 3 T11: -0.0163 T22: -0.0412 REMARK 3 T33: -0.0810 T12: -0.0488 REMARK 3 T13: -0.0084 T23: -0.0249 REMARK 3 L TENSOR REMARK 3 L11: 1.8684 L22: 1.8865 REMARK 3 L33: 1.0620 L12: 1.1484 REMARK 3 L13: 0.2402 L23: 0.4242 REMARK 3 S TENSOR REMARK 3 S11: -0.0567 S12: 0.2928 S13: -0.1175 REMARK 3 S21: -0.2018 S22: 0.0948 S23: -0.0345 REMARK 3 S31: 0.0165 S32: 0.0118 S33: -0.0382 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : MASK REMARK 3 PARAMETERS FOR MASK CALCULATION REMARK 3 VDW PROBE RADIUS : 1.20 REMARK 3 ION PROBE RADIUS : 0.80 REMARK 3 SHRINKAGE RADIUS : 0.80 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: 1. HYDROGENS HAVE BEEN ADDED IN THE REMARK 3 RIDING POSITIONS. 2. A MET-INHIBITION PROTOCOL WAS USED FOR REMARK 3 SELENOMETHIONINE INCORPORATION DURING PROTEIN EXPRESSION. THE REMARK 3 OCCUPANCY OF THE SE ATOMS IN THE MSE RESIDUES WAS REDUCED TO REMARK 3 0.75 FOR THE REDUCED SCATTERING POWER DUE TO PARTIAL S-MET REMARK 3 INCORPORATION. 3. ATOM RECORDS CONTAIN RESIDUAL B FACTORS ONLY. REMARK 3 4. CL IONS AND GLYCEROL MOLECULES ARE MODELED BASED ON REMARK 3 CRYSTALLIZATION AND CRYOPROTECTION CONDITIONS. REMARK 4 REMARK 4 3JX9 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 21-SEP-09. REMARK 100 THE DEPOSITION ID IS D_1000055274. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 11-JUN-09 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7.5 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) : 0.97864 REMARK 200 MONOCHROMATOR : SINGLE CRYSTAL SI(111) BENT REMARK 200 MONOCHROMATOR (HORIZONTAL REMARK 200 FOCUSING) REMARK 200 OPTICS : FLAT MIRROR (VERTICAL FOCUSING) REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MARMOSAIC 325 MM CCD REMARK 200 INTENSITY-INTEGRATION SOFTWARE : MOSFLM REMARK 200 DATA SCALING SOFTWARE : SCALA 3.2.5 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 33717 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.950 REMARK 200 RESOLUTION RANGE LOW (A) : 29.412 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 200 DATA REDUNDANCY : 5.500 REMARK 200 R MERGE (I) : 0.08600 REMARK 200 R SYM (I) : 0.08600 REMARK 200 FOR THE DATA SET : 14.0000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.95 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.00 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : 5.60 REMARK 200 R MERGE FOR SHELL (I) : 0.57700 REMARK 200 R SYM FOR SHELL (I) : 0.57700 REMARK 200 FOR SHELL : 1.300 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: SAD 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 (%): 58.18 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.94 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 1.6000M (NH4)2SO4, 0.1000M NACL, 0.1M REMARK 280 HEPES PH 7.5, NANODROP, VAPOR DIFFUSION, SITTING DROP, REMARK 280 TEMPERATURE 277K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 32 2 1 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 4555 Y,X,-Z REMARK 290 5555 X-Y,-Y,-Z+1/3 REMARK 290 6555 -X,-X+Y,-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 78.43467 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 39.21733 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 39.21733 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 78.43467 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 300 REMARK: ANALYTICAL SIZE EXCLUSION CHROMATOGRAPHY SUPPORTS THE REMARK 300 ASSIGNMENT OF A MONOMER AS THE SIGNIFICANT OLIGOMERIZATION REMARK 300 STATE IN SOLUTION. 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: 3870 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 15080 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -52.0 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 GLU A 169 REMARK 465 GLU B 169 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 LYS A 3 NZ REMARK 470 LYS A 63 CD CE NZ REMARK 470 LYS A 69 CG CD CE NZ REMARK 470 LYS B 3 CD CE NZ REMARK 470 LYS B 63 CD CE NZ REMARK 470 LYS B 69 CG CD CE NZ 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 ARG A 141 NE - CZ - NH1 ANGL. DEV. = 4.7 DEGREES REMARK 500 ARG A 141 NE - CZ - NH2 ANGL. DEV. = -5.5 DEGREES REMARK 500 ARG B 141 NE - CZ - NH1 ANGL. DEV. = 3.1 DEGREES REMARK 500 ARG B 141 NE - CZ - NH2 ANGL. DEV. = -3.0 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 PHE A 129 53.92 -142.30 REMARK 500 GLU A 137 -63.42 -24.11 REMARK 500 ARG B 64 -0.99 89.65 REMARK 500 HIS B 71 -8.94 76.77 REMARK 500 PHE B 129 53.70 -144.48 REMARK 500 REMARK 500 REMARK: NULL REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CL A 170 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL A 171 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CL B 170 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CL B 171 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 392463 RELATED DB: TARGETDB REMARK 999 REMARK 999 SEQUENCE REMARK 999 THE CONSTRUCT WAS EXPRESSED WITH A PURIFICATION TAG REMARK 999 MGSDKIHHHHHHENLYFQG. THE TAG WAS REMOVED WITH TEV PROTEASE LEAVING REMARK 999 ONLY A GLYCINE (0) FOLLOWED BY THE TARGET SEQUENCE. DBREF 3JX9 A 1 169 UNP B1YEL3 B1YEL3_EXIS2 1 169 DBREF 3JX9 B 1 169 UNP B1YEL3 B1YEL3_EXIS2 1 169 SEQADV 3JX9 GLY A 0 UNP B1YEL3 EXPRESSION TAG SEQADV 3JX9 GLY B 0 UNP B1YEL3 EXPRESSION TAG SEQRES 1 A 170 GLY MSE LEU LYS ILE LEU ALA THR GLN PHE ASN GLY LYS SEQRES 2 A 170 LEU GLN THR LEU THR LYS GLN GLU ASP GLU LEU PHE ASP SEQRES 3 A 170 VAL VAL ARG LEU LEU ALA GLN ALA LEU VAL GLY GLN GLY SEQRES 4 A 170 LYS VAL TYR LEU ASP ALA TYR GLY GLU PHE GLU GLY LEU SEQRES 5 A 170 TYR PRO MSE LEU SER ASP GLY PRO ASP GLN MSE LYS ARG SEQRES 6 A 170 VAL THR LYS ILE LYS ASP HIS LYS THR LEU HIS ALA VAL SEQRES 7 A 170 ASP ARG VAL LEU ILE PHE THR PRO ASP THR GLU ARG SER SEQRES 8 A 170 ASP LEU LEU ALA SER LEU ALA ARG TYR ASP ALA TRP HIS SEQRES 9 A 170 THR PRO TYR SER ILE ILE THR LEU GLY ASP VAL THR GLU SEQRES 10 A 170 THR LEU GLU ARG SER ILE ALA PRO LEU ALA LEU LYS PHE SEQRES 11 A 170 ASP LYS GLY LEU LEU PRO ALA GLU ASP GLY SER ARG HIS SEQRES 12 A 170 GLY LEU PRO SER LEU ALA LEU GLY ALA PHE LEU LEU THR SEQRES 13 A 170 HIS ILE LEU THR GLN LEU GLN GLU MSE THR GLU GLU TRP SEQRES 14 A 170 GLU SEQRES 1 B 170 GLY MSE LEU LYS ILE LEU ALA THR GLN PHE ASN GLY LYS SEQRES 2 B 170 LEU GLN THR LEU THR LYS GLN GLU ASP GLU LEU PHE ASP SEQRES 3 B 170 VAL VAL ARG LEU LEU ALA GLN ALA LEU VAL GLY GLN GLY SEQRES 4 B 170 LYS VAL TYR LEU ASP ALA TYR GLY GLU PHE GLU GLY LEU SEQRES 5 B 170 TYR PRO MSE LEU SER ASP GLY PRO ASP GLN MSE LYS ARG SEQRES 6 B 170 VAL THR LYS ILE LYS ASP HIS LYS THR LEU HIS ALA VAL SEQRES 7 B 170 ASP ARG VAL LEU ILE PHE THR PRO ASP THR GLU ARG SER SEQRES 8 B 170 ASP LEU LEU ALA SER LEU ALA ARG TYR ASP ALA TRP HIS SEQRES 9 B 170 THR PRO TYR SER ILE ILE THR LEU GLY ASP VAL THR GLU SEQRES 10 B 170 THR LEU GLU ARG SER ILE ALA PRO LEU ALA LEU LYS PHE SEQRES 11 B 170 ASP LYS GLY LEU LEU PRO ALA GLU ASP GLY SER ARG HIS SEQRES 12 B 170 GLY LEU PRO SER LEU ALA LEU GLY ALA PHE LEU LEU THR SEQRES 13 B 170 HIS ILE LEU THR GLN LEU GLN GLU MSE THR GLU GLU TRP SEQRES 14 B 170 GLU MODRES 3JX9 MSE A 1 MET SELENOMETHIONINE MODRES 3JX9 MSE A 54 MET SELENOMETHIONINE MODRES 3JX9 MSE A 62 MET SELENOMETHIONINE MODRES 3JX9 MSE A 164 MET SELENOMETHIONINE MODRES 3JX9 MSE B 1 MET SELENOMETHIONINE MODRES 3JX9 MSE B 54 MET SELENOMETHIONINE MODRES 3JX9 MSE B 62 MET SELENOMETHIONINE MODRES 3JX9 MSE B 164 MET SELENOMETHIONINE HET MSE A 1 8 HET MSE A 54 8 HET MSE A 62 8 HET MSE A 164 16 HET MSE B 1 16 HET MSE B 54 8 HET MSE B 62 8 HET MSE B 164 16 HET CL A 170 1 HET GOL A 171 6 HET CL B 170 1 HET CL B 171 1 HETNAM MSE SELENOMETHIONINE HETNAM CL CHLORIDE ION HETNAM GOL GLYCEROL HETSYN GOL GLYCERIN; PROPANE-1,2,3-TRIOL FORMUL 1 MSE 8(C5 H11 N O2 SE) FORMUL 3 CL 3(CL 1-) FORMUL 4 GOL C3 H8 O3 FORMUL 7 HOH *312(H2 O) HELIX 1 1 GLY A 0 THR A 17 1 18 HELIX 2 2 GLN A 19 GLY A 36 1 18 HELIX 3 3 GLY A 46 LEU A 51 5 6 HELIX 4 4 TYR A 52 ASP A 57 1 6 HELIX 5 5 ARG A 89 HIS A 103 1 15 HELIX 6 6 THR A 117 SER A 121 5 5 HELIX 7 7 PRO A 145 TRP A 168 1 24 HELIX 8 8 GLY B 0 LYS B 18 1 19 HELIX 9 9 GLN B 19 GLY B 36 1 18 HELIX 10 10 GLY B 46 GLY B 50 5 5 HELIX 11 11 LEU B 51 GLY B 58 1 8 HELIX 12 12 ARG B 89 HIS B 103 1 15 HELIX 13 13 THR B 117 SER B 121 5 5 HELIX 14 14 PRO B 145 TRP B 168 1 24 SHEET 1 A 5 VAL A 65 LYS A 67 0 SHEET 2 A 5 VAL A 40 ALA A 44 1 N LEU A 42 O THR A 66 SHEET 3 A 5 ARG A 79 THR A 84 1 O LEU A 81 N ASP A 43 SHEET 4 A 5 TYR A 106 THR A 110 1 O SER A 107 N ILE A 82 SHEET 5 A 5 LEU A 125 ALA A 126 1 O LEU A 125 N THR A 110 SHEET 1 B 2 LEU A 134 PRO A 135 0 SHEET 2 B 2 ARG A 141 HIS A 142 -1 O HIS A 142 N LEU A 134 SHEET 1 C 5 VAL B 65 LYS B 67 0 SHEET 2 C 5 VAL B 40 ALA B 44 1 N LEU B 42 O THR B 66 SHEET 3 C 5 ARG B 79 THR B 84 1 O LEU B 81 N TYR B 41 SHEET 4 C 5 TYR B 106 THR B 110 1 O ILE B 109 N ILE B 82 SHEET 5 C 5 LEU B 125 ALA B 126 1 O LEU B 125 N THR B 110 SHEET 1 D 2 LEU B 134 PRO B 135 0 SHEET 2 D 2 ARG B 141 HIS B 142 -1 O HIS B 142 N LEU B 134 LINK C GLY A 0 N MSE A 1 1555 1555 1.33 LINK C MSE A 1 N LEU A 2 1555 1555 1.34 LINK C PRO A 53 N MSE A 54 1555 1555 1.33 LINK C MSE A 54 N LEU A 55 1555 1555 1.33 LINK C GLN A 61 N MSE A 62 1555 1555 1.33 LINK C MSE A 62 N LYS A 63 1555 1555 1.33 LINK C GLU A 163 N AMSE A 164 1555 1555 1.32 LINK C GLU A 163 N BMSE A 164 1555 1555 1.34 LINK C AMSE A 164 N THR A 165 1555 1555 1.33 LINK C BMSE A 164 N THR A 165 1555 1555 1.33 LINK C GLY B 0 N AMSE B 1 1555 1555 1.32 LINK C GLY B 0 N BMSE B 1 1555 1555 1.35 LINK C AMSE B 1 N LEU B 2 1555 1555 1.33 LINK C BMSE B 1 N LEU B 2 1555 1555 1.33 LINK C PRO B 53 N MSE B 54 1555 1555 1.33 LINK C MSE B 54 N LEU B 55 1555 1555 1.33 LINK C GLN B 61 N MSE B 62 1555 1555 1.32 LINK C MSE B 62 N ALYS B 63 1555 1555 1.33 LINK C MSE B 62 N BLYS B 63 1555 1555 1.33 LINK C GLU B 163 N AMSE B 164 1555 1555 1.33 LINK C GLU B 163 N BMSE B 164 1555 1555 1.32 LINK C AMSE B 164 N THR B 165 1555 1555 1.33 LINK C BMSE B 164 N THR B 165 1555 1555 1.32 SITE 1 AC1 3 HIS A 75 ALA A 76 HOH A 310 SITE 1 AC2 8 ASP A 100 HIS A 103 THR A 104 TYR A 106 SITE 2 AC2 8 ARG A 120 HOH A 236 HOH A 266 HOH A 295 SITE 1 AC3 2 HIS B 75 HOH B 257 SITE 1 AC4 2 THR B 115 GLU B 116 CRYST1 81.658 81.658 117.652 90.00 90.00 120.00 P 32 2 1 12 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 0.012246 0.007070 0.000000 0.00000 SCALE2 0.000000 0.014141 0.000000 0.00000 SCALE3 0.000000 0.000000 0.008500 0.00000