HEADER BIOSYNTHETIC PROTEIN 04-DEC-09 3KY8 TITLE CRYSTAL STRUCTURE OF PUTATIVE RIBOFLAVIN BIOSYNTHESIS PROTEIN TITLE 2 (YP_001092907.1) FROM SHEWANELLA SP. PV-4 AT 2.12 A RESOLUTION COMPND MOL_ID: 1; COMPND 2 MOLECULE: PUTATIVE RIBOFLAVIN BIOSYNTHESIS PROTEIN; COMPND 3 CHAIN: A, B; COMPND 4 SYNONYM: BIFUNCTIONAL DEAMINASE-REDUCTASE DOMAIN PROTEIN; COMPND 5 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: SHEWANELLA LOIHICA; SOURCE 3 ORGANISM_TAXID: 323850; SOURCE 4 STRAIN: ATCC BAA-1088 / PV-4; SOURCE 5 GENE: SHEW_0776; 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 PUTATIVE RIBOFLAVIN BIOSYNTHESIS PROTEIN, STRUCTURAL GENOMICS, JOINT KEYWDS 2 CENTER FOR STRUCTURAL GENOMICS, JCSG, PROTEIN STRUCTURE INITIATIVE, KEYWDS 3 PSI-2, BIOSYNTHETIC PROTEIN EXPDTA X-RAY DIFFRACTION AUTHOR JOINT CENTER FOR STRUCTURAL GENOMICS (JCSG) REVDAT 5 01-FEB-23 3KY8 1 REMARK SEQADV REVDAT 4 17-JUL-19 3KY8 1 REMARK LINK REVDAT 3 25-OCT-17 3KY8 1 REMARK REVDAT 2 13-JUL-11 3KY8 1 VERSN REVDAT 1 22-DEC-09 3KY8 0 JRNL AUTH JOINT CENTER FOR STRUCTURAL GENOMICS (JCSG) JRNL TITL CRYSTAL STRUCTURE OF PUTATIVE RIBOFLAVIN BIOSYNTHESIS JRNL TITL 2 PROTEIN (YP_001092907.1) FROM SHEWANELLA SP. PV-4 AT 2.12 A JRNL TITL 3 RESOLUTION JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 2.12 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) : 2.12 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 30.03 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.7 REMARK 3 NUMBER OF REFLECTIONS : 24610 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) : 0.184 REMARK 3 R VALUE (WORKING SET) : 0.181 REMARK 3 FREE R VALUE : 0.231 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 1256 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) : 2.12 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.18 REMARK 3 REFLECTION IN BIN (WORKING SET) : 1686 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 99.49 REMARK 3 BIN R VALUE (WORKING SET) : 0.2540 REMARK 3 BIN FREE R VALUE SET COUNT : 82 REMARK 3 BIN FREE R VALUE : 0.3170 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2811 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 76 REMARK 3 SOLVENT ATOMS : 197 REMARK 3 REMARK 3 B VALUES. REMARK 3 B VALUE TYPE : LIKELY RESIDUAL REMARK 3 FROM WILSON PLOT (A**2) : 35.55 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 37.95 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 1.43000 REMARK 3 B22 (A**2) : 1.43000 REMARK 3 B33 (A**2) : -2.86000 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 OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.210 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.182 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.139 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 10.193 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.962 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.945 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 2940 ; 0.016 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): 1921 ; 0.002 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 3994 ; 1.590 ; 1.982 REMARK 3 BOND ANGLES OTHERS (DEGREES): 4720 ; 0.961 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 367 ; 6.427 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 128 ;39.495 ;25.312 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 493 ;14.800 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 10 ;11.108 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 458 ; 0.094 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 3244 ; 0.006 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 570 ; 0.001 ; 0.020 REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 473 ; 0.250 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): 1947 ; 0.199 ; 0.200 REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 1408 ; 0.178 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): 1581 ; 0.088 ; 0.200 REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 141 ; 0.153 ; 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): 31 ; 0.211 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): 65 ; 0.229 ; 0.200 REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 13 ; 0.209 ; 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): 1877 ; 1.983 ; 3.000 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 743 ; 0.675 ; 3.000 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 2943 ; 2.865 ; 5.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1218 ; 4.916 ; 8.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1051 ; 6.566 ;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 1 A 176 4 REMARK 3 1 B 1 B 176 4 REMARK 3 GROUP CHAIN COUNT RMS WEIGHT REMARK 3 MEDIUM POSITIONAL 1 A (A): 2202 ; 0.720 ; 0.500 REMARK 3 MEDIUM THERMAL 1 A (A**2): 2202 ; 1.300 ; 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 -6 A 177 REMARK 3 ORIGIN FOR THE GROUP (A): 12.3130 22.3774 62.6231 REMARK 3 T TENSOR REMARK 3 T11: -0.0475 T22: -0.1097 REMARK 3 T33: -0.0954 T12: 0.0197 REMARK 3 T13: -0.0167 T23: 0.0225 REMARK 3 L TENSOR REMARK 3 L11: 1.3919 L22: 0.8889 REMARK 3 L33: 1.2695 L12: -0.1582 REMARK 3 L13: -0.3057 L23: 0.3108 REMARK 3 S TENSOR REMARK 3 S11: 0.0042 S12: -0.1060 S13: 0.0205 REMARK 3 S21: 0.0517 S22: 0.0320 S23: 0.0269 REMARK 3 S31: 0.0356 S32: -0.0884 S33: -0.0362 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 1 B 177 REMARK 3 ORIGIN FOR THE GROUP (A): 31.0194 10.8320 39.7749 REMARK 3 T TENSOR REMARK 3 T11: -0.0443 T22: -0.0609 REMARK 3 T33: -0.0705 T12: 0.0140 REMARK 3 T13: -0.0029 T23: 0.0009 REMARK 3 L TENSOR REMARK 3 L11: 0.8282 L22: 1.4269 REMARK 3 L33: 1.2518 L12: -0.5436 REMARK 3 L13: -1.0169 L23: 0.6374 REMARK 3 S TENSOR REMARK 3 S11: 0.0009 S12: 0.0294 S13: 0.0208 REMARK 3 S21: -0.1371 S22: 0.0159 S23: -0.1212 REMARK 3 S31: -0.0643 S32: 0.1001 S33: -0.0168 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. ATOM RECORDS CONTAIN RESIDUAL B FACTORS REMARK 3 ONLY. 3. A MET-INHIBITION PROTOCOL WAS USED FOR SELENOMETHIONINE REMARK 3 INCORPORATION DURING PROTEIN EXPRESSION. THE OCCUPANCY OF THE SE REMARK 3 ATOMS IN THE MSE RESIDUES WAS REDUCED TO 0.75 FOR THE REDUCED REMARK 3 SCATTERING POWER DUE TO PARTIAL S-MET INCORPORATION. 4. SULFATE REMARK 3 (SO4) IONS AND GLYCEROL (GOL) MOLECULES ARE MODELED BASED ON REMARK 3 CRYSTALLIZATION CONDITION. 5. UNIDENTIFIED LIGANDS (UNL) HAVE REMARK 3 BEEN MODELED IN ELECTRON DENSITY FOUND NEAR THE PUTATIVE ACTIVE REMARK 3 SITES. REMARK 4 REMARK 4 3KY8 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 10-DEC-09. REMARK 100 THE DEPOSITION ID IS D_1000056596. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 09-JUL-09 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 5.6 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) : 0.91837,0.97917,0.97870 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 : XDS REMARK 200 DATA SCALING SOFTWARE : XSCALE REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 24676 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.120 REMARK 200 RESOLUTION RANGE LOW (A) : 30.029 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : -3.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.6 REMARK 200 DATA REDUNDANCY : NULL REMARK 200 R MERGE (I) : 0.09600 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 11.7000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.12 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.20 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.2 REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : 0.94800 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 1.500 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: MAD REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MAD REMARK 200 SOFTWARE USED: SHELX, SHELXD, AUTOSHARP REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 46.60 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.30 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.5000M (NH4)2SO4, 1.0000M LI2SO4, REMARK 280 0.1M CITRATE PH 5.6, NANODROP, VAPOR DIFFUSION, SITTING DROP, REMARK 280 TEMPERATURE 277K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 43 21 2 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 -Y+1/2,X+1/2,Z+3/4 REMARK 290 4555 Y+1/2,-X+1/2,Z+1/4 REMARK 290 5555 -X+1/2,Y+1/2,-Z+3/4 REMARK 290 6555 X+1/2,-Y+1/2,-Z+1/4 REMARK 290 7555 Y,X,-Z REMARK 290 8555 -Y,-X,-Z+1/2 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 78.48700 REMARK 290 SMTRY1 3 0.000000 -1.000000 0.000000 36.33950 REMARK 290 SMTRY2 3 1.000000 0.000000 0.000000 36.33950 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 117.73050 REMARK 290 SMTRY1 4 0.000000 1.000000 0.000000 36.33950 REMARK 290 SMTRY2 4 -1.000000 0.000000 0.000000 36.33950 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 39.24350 REMARK 290 SMTRY1 5 -1.000000 0.000000 0.000000 36.33950 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 36.33950 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 117.73050 REMARK 290 SMTRY1 6 1.000000 0.000000 0.000000 36.33950 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 36.33950 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 39.24350 REMARK 290 SMTRY1 7 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY2 7 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 8 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY2 8 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 78.48700 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: CRYSTAL PACKING AND ANALYTICAL SIZE EXCLUSION REMARK 300 CHROMATOGRAPHY COUPLED WITH STATIC LIGHT SCATTERING SUPPORT THE REMARK 300 ASSIGNMENT OF A DIMER AS A SIGNIFICANT OLIGOMERIZATION STATE IN REMARK 300 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: 6040 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 17660 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -90.0 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 MSE A -18 REMARK 465 GLY A -17 REMARK 465 SER A -16 REMARK 465 ASP A -15 REMARK 465 LYS A -14 REMARK 465 ILE A -13 REMARK 465 HIS A -12 REMARK 465 HIS A -11 REMARK 465 HIS A -10 REMARK 465 HIS A -9 REMARK 465 HIS A -8 REMARK 465 HIS A -7 REMARK 465 ALA A 178 REMARK 465 MSE B -18 REMARK 465 GLY B -17 REMARK 465 SER B -16 REMARK 465 ASP B -15 REMARK 465 LYS B -14 REMARK 465 ILE B -13 REMARK 465 HIS B -12 REMARK 465 HIS B -11 REMARK 465 HIS B -10 REMARK 465 HIS B -9 REMARK 465 HIS B -8 REMARK 465 HIS B -7 REMARK 465 GLU B -6 REMARK 465 ASN B -5 REMARK 465 LEU B -4 REMARK 465 TYR B -3 REMARK 465 PHE B -2 REMARK 465 GLN B -1 REMARK 465 GLY B 0 REMARK 465 ALA B 178 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 18 NZ REMARK 470 ARG A 52 CZ NH1 NH2 REMARK 470 ASP A 62 CG OD1 OD2 REMARK 470 THR A 77 OG1 CG2 REMARK 470 THR A 79 OG1 CG2 REMARK 470 LYS A 93 CG CD CE NZ REMARK 470 LYS B 21 CE NZ REMARK 470 LYS B 93 CG CD CE NZ REMARK 470 LYS B 95 CE NZ REMARK 470 LYS B 124 CE NZ REMARK 470 ARG B 177 CD NE CZ NH1 NH2 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 12 CB - CG - OD1 ANGL. DEV. = 8.4 DEGREES REMARK 500 ASP A 12 CB - CG - OD2 ANGL. DEV. = -6.5 DEGREES REMARK 500 ARG B 52 NE - CZ - NH1 ANGL. DEV. = 3.1 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 ASP A 166 -32.02 68.75 REMARK 500 ASN B 30 61.95 -152.21 REMARK 500 LYS B 160 141.10 -170.23 REMARK 500 ASP B 166 -35.74 65.54 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 SO4 A 181 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL A 182 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL A 183 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 B 181 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 B 182 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 B 183 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL B 184 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL B 185 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 394242 RELATED DB: TARGETDB REMARK 999 REMARK 999 SEQUENCE REMARK 999 THE CONSTRUCT (RESIDUES 1-178) WAS EXPRESSED WITH A PURIFICATION REMARK 999 TAG MGSDKIHHHHHHENLYFQG. DBREF 3KY8 A 1 178 UNP A3QB00 A3QB00_SHELP 1 178 DBREF 3KY8 B 1 178 UNP A3QB00 A3QB00_SHELP 1 178 SEQADV 3KY8 MSE A -18 UNP A3QB00 EXPRESSION TAG SEQADV 3KY8 GLY A -17 UNP A3QB00 EXPRESSION TAG SEQADV 3KY8 SER A -16 UNP A3QB00 EXPRESSION TAG SEQADV 3KY8 ASP A -15 UNP A3QB00 EXPRESSION TAG SEQADV 3KY8 LYS A -14 UNP A3QB00 EXPRESSION TAG SEQADV 3KY8 ILE A -13 UNP A3QB00 EXPRESSION TAG SEQADV 3KY8 HIS A -12 UNP A3QB00 EXPRESSION TAG SEQADV 3KY8 HIS A -11 UNP A3QB00 EXPRESSION TAG SEQADV 3KY8 HIS A -10 UNP A3QB00 EXPRESSION TAG SEQADV 3KY8 HIS A -9 UNP A3QB00 EXPRESSION TAG SEQADV 3KY8 HIS A -8 UNP A3QB00 EXPRESSION TAG SEQADV 3KY8 HIS A -7 UNP A3QB00 EXPRESSION TAG SEQADV 3KY8 GLU A -6 UNP A3QB00 EXPRESSION TAG SEQADV 3KY8 ASN A -5 UNP A3QB00 EXPRESSION TAG SEQADV 3KY8 LEU A -4 UNP A3QB00 EXPRESSION TAG SEQADV 3KY8 TYR A -3 UNP A3QB00 EXPRESSION TAG SEQADV 3KY8 PHE A -2 UNP A3QB00 EXPRESSION TAG SEQADV 3KY8 GLN A -1 UNP A3QB00 EXPRESSION TAG SEQADV 3KY8 GLY A 0 UNP A3QB00 EXPRESSION TAG SEQADV 3KY8 MSE B -18 UNP A3QB00 EXPRESSION TAG SEQADV 3KY8 GLY B -17 UNP A3QB00 EXPRESSION TAG SEQADV 3KY8 SER B -16 UNP A3QB00 EXPRESSION TAG SEQADV 3KY8 ASP B -15 UNP A3QB00 EXPRESSION TAG SEQADV 3KY8 LYS B -14 UNP A3QB00 EXPRESSION TAG SEQADV 3KY8 ILE B -13 UNP A3QB00 EXPRESSION TAG SEQADV 3KY8 HIS B -12 UNP A3QB00 EXPRESSION TAG SEQADV 3KY8 HIS B -11 UNP A3QB00 EXPRESSION TAG SEQADV 3KY8 HIS B -10 UNP A3QB00 EXPRESSION TAG SEQADV 3KY8 HIS B -9 UNP A3QB00 EXPRESSION TAG SEQADV 3KY8 HIS B -8 UNP A3QB00 EXPRESSION TAG SEQADV 3KY8 HIS B -7 UNP A3QB00 EXPRESSION TAG SEQADV 3KY8 GLU B -6 UNP A3QB00 EXPRESSION TAG SEQADV 3KY8 ASN B -5 UNP A3QB00 EXPRESSION TAG SEQADV 3KY8 LEU B -4 UNP A3QB00 EXPRESSION TAG SEQADV 3KY8 TYR B -3 UNP A3QB00 EXPRESSION TAG SEQADV 3KY8 PHE B -2 UNP A3QB00 EXPRESSION TAG SEQADV 3KY8 GLN B -1 UNP A3QB00 EXPRESSION TAG SEQADV 3KY8 GLY B 0 UNP A3QB00 EXPRESSION TAG SEQRES 1 A 197 MSE GLY SER ASP LYS ILE HIS HIS HIS HIS HIS HIS GLU SEQRES 2 A 197 ASN LEU TYR PHE GLN GLY MSE ALA ASN ILE VAL PHE ILE SEQRES 3 A 197 ALA THR SER LEU ASP GLY TYR ILE ALA ASP LYS ARG GLY SEQRES 4 A 197 LYS LEU ASP TRP LEU HIS SER VAL PRO ASN PRO ASN ASN SEQRES 5 A 197 VAL ASP THR GLY PHE VAL ALA LEU MSE GLU ARG VAL ASP SEQRES 6 A 197 GLY LEU VAL MSE GLY ARG ASN THR LEU ASP MSE VAL LEU SEQRES 7 A 197 SER PHE ASP CYS ASP TRP PRO TYR SER LYS PRO VAL PHE SEQRES 8 A 197 VAL LEU SER ASN THR MSE THR GLU VAL PRO GLN GLY TYR SEQRES 9 A 197 GLU ASP LYS VAL PHE LEU VAL LYS GLY LYS LEU VAL ASP SEQRES 10 A 197 ILE ILE ALA ASP LEU ASN ALA LYS GLY PHE ASN GLU LEU SEQRES 11 A 197 TYR ILE ASP GLY GLY VAL THR ILE GLN ASN PHE LEU LYS SEQRES 12 A 197 GLU ASP LEU ILE ASP GLU MSE VAL ILE THR ARG PHE PRO SEQRES 13 A 197 ILE LEU LEU GLY GLY GLY VAL PRO LEU PHE GLY GLU LEU SEQRES 14 A 197 GLU SER SER LEU SER PHE ASN VAL ILE LYS SER GLU VAL SEQRES 15 A 197 VAL LEU ASP SER LEU THR GLN THR THR TYR HIS ARG LYS SEQRES 16 A 197 ARG ALA SEQRES 1 B 197 MSE GLY SER ASP LYS ILE HIS HIS HIS HIS HIS HIS GLU SEQRES 2 B 197 ASN LEU TYR PHE GLN GLY MSE ALA ASN ILE VAL PHE ILE SEQRES 3 B 197 ALA THR SER LEU ASP GLY TYR ILE ALA ASP LYS ARG GLY SEQRES 4 B 197 LYS LEU ASP TRP LEU HIS SER VAL PRO ASN PRO ASN ASN SEQRES 5 B 197 VAL ASP THR GLY PHE VAL ALA LEU MSE GLU ARG VAL ASP SEQRES 6 B 197 GLY LEU VAL MSE GLY ARG ASN THR LEU ASP MSE VAL LEU SEQRES 7 B 197 SER PHE ASP CYS ASP TRP PRO TYR SER LYS PRO VAL PHE SEQRES 8 B 197 VAL LEU SER ASN THR MSE THR GLU VAL PRO GLN GLY TYR SEQRES 9 B 197 GLU ASP LYS VAL PHE LEU VAL LYS GLY LYS LEU VAL ASP SEQRES 10 B 197 ILE ILE ALA ASP LEU ASN ALA LYS GLY PHE ASN GLU LEU SEQRES 11 B 197 TYR ILE ASP GLY GLY VAL THR ILE GLN ASN PHE LEU LYS SEQRES 12 B 197 GLU ASP LEU ILE ASP GLU MSE VAL ILE THR ARG PHE PRO SEQRES 13 B 197 ILE LEU LEU GLY GLY GLY VAL PRO LEU PHE GLY GLU LEU SEQRES 14 B 197 GLU SER SER LEU SER PHE ASN VAL ILE LYS SER GLU VAL SEQRES 15 B 197 VAL LEU ASP SER LEU THR GLN THR THR TYR HIS ARG LYS SEQRES 16 B 197 ARG ALA MODRES 3KY8 MSE A 1 MET SELENOMETHIONINE MODRES 3KY8 MSE A 42 MET SELENOMETHIONINE MODRES 3KY8 MSE A 50 MET SELENOMETHIONINE MODRES 3KY8 MSE A 57 MET SELENOMETHIONINE MODRES 3KY8 MSE A 78 MET SELENOMETHIONINE MODRES 3KY8 MSE A 131 MET SELENOMETHIONINE MODRES 3KY8 MSE B 1 MET SELENOMETHIONINE MODRES 3KY8 MSE B 42 MET SELENOMETHIONINE MODRES 3KY8 MSE B 50 MET SELENOMETHIONINE MODRES 3KY8 MSE B 57 MET SELENOMETHIONINE MODRES 3KY8 MSE B 78 MET SELENOMETHIONINE MODRES 3KY8 MSE B 131 MET SELENOMETHIONINE HET MSE A 1 8 HET MSE A 42 8 HET MSE A 50 8 HET MSE A 57 8 HET MSE A 78 8 HET MSE A 131 8 HET MSE B 1 8 HET MSE B 42 8 HET MSE B 50 8 HET MSE B 57 16 HET MSE B 78 8 HET MSE B 131 8 HET UNL A 179 8 HET UNL A 180 6 HET SO4 A 181 5 HET GOL A 182 6 HET GOL A 183 6 HET UNL B 179 4 HET UNL B 180 14 HET SO4 B 181 5 HET SO4 B 182 5 HET SO4 B 183 5 HET GOL B 184 6 HET GOL B 185 6 HETNAM MSE SELENOMETHIONINE HETNAM UNL UNKNOWN LIGAND HETNAM SO4 SULFATE ION HETNAM GOL GLYCEROL HETSYN GOL GLYCERIN; PROPANE-1,2,3-TRIOL FORMUL 1 MSE 12(C5 H11 N O2 SE) FORMUL 5 SO4 4(O4 S 2-) FORMUL 6 GOL 4(C3 H8 O3) FORMUL 15 HOH *197(H2 O) HELIX 1 1 LEU A 22 VAL A 28 5 7 HELIX 2 2 GLY A 37 VAL A 45 1 9 HELIX 3 3 ARG A 52 LEU A 59 1 8 HELIX 4 4 LYS A 95 LYS A 106 1 12 HELIX 5 5 GLY A 115 GLU A 125 1 11 HELIX 6 6 LEU B 22 VAL B 28 5 7 HELIX 7 7 GLY B 37 VAL B 45 1 9 HELIX 8 8 GLY B 51 PHE B 61 1 11 HELIX 9 9 LYS B 95 LYS B 106 1 12 HELIX 10 10 GLY B 115 GLU B 125 1 11 SHEET 1 A 9 VAL A 89 VAL A 92 0 SHEET 2 A 9 VAL A 71 LEU A 74 1 N VAL A 71 O PHE A 90 SHEET 3 A 9 GLY A 47 GLY A 51 1 N LEU A 48 O PHE A 72 SHEET 4 A 9 GLU A 110 ASP A 114 1 O ASP A 114 N VAL A 49 SHEET 5 A 9 ALA A 2 SER A 10 1 N ILE A 4 O LEU A 111 SHEET 6 A 9 GLU A 130 PHE A 136 1 O PHE A 136 N THR A 9 SHEET 7 A 9 LEU A 168 ARG A 175 -1 O TYR A 173 N MSE A 131 SHEET 8 A 9 LEU A 154 VAL A 164 -1 N ASN A 157 O HIS A 174 SHEET 9 A 9 ILE B 138 LEU B 139 -1 O LEU B 139 N LEU A 154 SHEET 1 B 2 TYR A 14 ALA A 16 0 SHEET 2 B 2 VAL A 144 PRO A 145 -1 O VAL A 144 N ILE A 15 SHEET 1 C 9 ILE A 138 LEU A 139 0 SHEET 2 C 9 LEU B 154 VAL B 164 -1 O LEU B 154 N LEU A 139 SHEET 3 C 9 LEU B 168 ARG B 175 -1 O GLN B 170 N GLU B 162 SHEET 4 C 9 GLU B 130 ARG B 135 -1 N MSE B 131 O TYR B 173 SHEET 5 C 9 ALA B 2 THR B 9 1 N VAL B 5 O VAL B 132 SHEET 6 C 9 GLU B 110 ILE B 113 1 O LEU B 111 N ILE B 4 SHEET 7 C 9 GLY B 47 MSE B 50 1 N VAL B 49 O TYR B 112 SHEET 8 C 9 VAL B 71 LEU B 74 1 O PHE B 72 N LEU B 48 SHEET 9 C 9 VAL B 89 VAL B 92 1 O PHE B 90 N VAL B 73 SHEET 1 D 2 TYR B 14 ALA B 16 0 SHEET 2 D 2 VAL B 144 PRO B 145 -1 O VAL B 144 N ILE B 15 LINK C MSE A 1 N ALA A 2 1555 1555 1.33 LINK C MSE A 42 N GLU A 43 1555 1555 1.33 LINK C MSE A 50 N GLY A 51 1555 1555 1.32 LINK C MSE A 57 N VAL A 58 1555 1555 1.32 LINK C MSE A 78 N THR A 79 1555 1555 1.32 LINK C MSE A 131 N VAL A 132 1555 1555 1.33 LINK C MSE B 1 N ALA B 2 1555 1555 1.32 LINK C MSE B 42 N GLU B 43 1555 1555 1.33 LINK C MSE B 50 N GLY B 51 1555 1555 1.33 LINK C AMSE B 57 N VAL B 58 1555 1555 1.33 LINK C BMSE B 57 N VAL B 58 1555 1555 1.33 LINK C MSE B 78 N THR B 79 1555 1555 1.33 LINK C MSE B 131 N VAL B 132 1555 1555 1.33 SITE 1 AC1 9 GLY A 51 ARG A 52 ASN A 53 THR A 54 SITE 2 AC1 9 GLY A 115 GLY A 116 VAL A 117 THR A 118 SITE 3 AC1 9 HOH A 287 SITE 1 AC2 5 SER A 153 LEU A 154 SER A 155 ARG A 175 SITE 2 AC2 5 HOH A 254 SITE 1 AC3 6 MSE A 42 PRO A 66 TYR A 67 SER A 68 SITE 2 AC3 6 HOH A 250 HOH A 281 SITE 1 AC4 5 SER A 152 SER A 153 LYS B 18 ARG B 19 SITE 2 AC4 5 HOH B 234 SITE 1 AC5 9 GLY B 51 ARG B 52 ASN B 53 THR B 54 SITE 2 AC5 9 GLY B 115 GLY B 116 VAL B 117 THR B 118 SITE 3 AC5 9 HOH B 198 SITE 1 AC6 9 PRO A 70 PHE A 108 HOH A 207 HOH A 223 SITE 2 AC6 9 ARG B 52 SER B 75 ASN B 76 THR B 77 SITE 3 AC6 9 HOH B 188 SITE 1 AC7 7 SER B 153 SER B 155 ARG B 175 LYS B 176 SITE 2 AC7 7 ARG B 177 HOH B 256 HOH B 274 SITE 1 AC8 6 ASP B 126 ILE B 128 ASP B 129 ARG B 175 SITE 2 AC8 6 LYS B 176 ARG B 177 CRYST1 72.679 72.679 156.974 90.00 90.00 90.00 P 43 21 2 16 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 0.013759 0.000000 0.000000 0.00000 SCALE2 0.000000 0.013759 0.000000 0.00000 SCALE3 0.000000 0.000000 0.006370 0.00000