HEADER TRANSFERASE 08-JUN-16 5B7S TITLE APO STRUCTURE OF CYSTEINE DESULFURASE FROM THERMOCOCCUS ONNURINEUS NA1 COMPND MOL_ID: 1; COMPND 2 MOLECULE: CYSTEINE DESULFURASE; COMPND 3 CHAIN: A, B; COMPND 4 EC: 2.8.1.7; COMPND 5 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: THERMOCOCCUS ONNURINEUS (STRAIN NA1); SOURCE 3 ORGANISM_TAXID: 523850; SOURCE 4 STRAIN: NA1; SOURCE 5 GENE: TON_0289; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID KEYWDS CYSTEINE DESULFURASE, L-CYSTEINE, METABOLIC PATHWAYS, TRANSFERASE EXPDTA X-RAY DIFFRACTION AUTHOR T.-H.HO,L.W.KANG REVDAT 5 15-NOV-23 5B7S 1 REMARK REVDAT 4 08-NOV-23 5B7S 1 REMARK REVDAT 3 13-JUN-18 5B7S 1 JRNL REVDAT 2 30-AUG-17 5B7S 1 REMARK REVDAT 1 14-JUN-17 5B7S 0 JRNL AUTH T.-H.HO,K.-H.HUYNH,D.Q.NGUYEN,H.PARK,K.JUNG,B.SUR,Y.-J.AHN, JRNL AUTH 2 S.-S.CHA,L.-W.KANG JRNL TITL CATALYTIC INTERMEDIATE CRYSTAL STRUCTURES OF CYSTEINE JRNL TITL 2 DESULFURASE FROM THE ARCHAEONTHERMOCOCCUS ONNURINEUS NA1. JRNL REF ARCHAEA V.2017 95293 2017 JRNL REFN ESSN 1472-3654 JRNL PMID 28536498 JRNL DOI 10.1155/2017/5395293 REMARK 2 REMARK 2 RESOLUTION. 2.58 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.8.0135 REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN REMARK 3 REMARK 3 REFINEMENT TARGET : NULL REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.58 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 36.36 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.2 REMARK 3 NUMBER OF REFLECTIONS : 27449 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) : 0.208 REMARK 3 R VALUE (WORKING SET) : 0.203 REMARK 3 FREE R VALUE : 0.295 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 1465 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) : 2.58 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.65 REMARK 3 REFLECTION IN BIN (WORKING SET) : 1799 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 90.55 REMARK 3 BIN R VALUE (WORKING SET) : 0.3030 REMARK 3 BIN FREE R VALUE SET COUNT : 108 REMARK 3 BIN FREE R VALUE : 0.3790 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 6151 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 12 REMARK 3 SOLVENT ATOMS : 101 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 52.86 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.02000 REMARK 3 B22 (A**2) : -0.03000 REMARK 3 B33 (A**2) : 0.02000 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): 0.867 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.371 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.285 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 13.368 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.944 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.880 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 6297 ; 0.013 ; 0.019 REMARK 3 BOND LENGTHS OTHERS (A): 6073 ; 0.003 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 8535 ; 1.810 ; 1.968 REMARK 3 BOND ANGLES OTHERS (DEGREES): 13983 ; 1.167 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 795 ; 7.844 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 273 ;38.422 ;24.103 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 1035 ;21.485 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 33 ;15.371 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 959 ; 0.123 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 7098 ; 0.007 ; 0.021 REMARK 3 GENERAL PLANES OTHERS (A): 1387 ; 0.002 ; 0.020 REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): NULL ; NULL ; NULL 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): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): NULL ; NULL ; NULL 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): 3186 ; 3.375 ; 5.092 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 3185 ; 3.374 ; 5.091 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 3979 ; 5.171 ; 7.632 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL 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 : NULL REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : NULL 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: HYDROGENS HAVE BEEN ADDED IN THE RIDING REMARK 3 POSITIONS U VALUES : REFINED INDIVIDUALLY REMARK 4 REMARK 4 5B7S COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 09-JUN-16. REMARK 100 THE DEPOSITION ID IS D_1300000685. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 11-JUN-14 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 8.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : PAL/PLS REMARK 200 BEAMLINE : 7A (6B, 6C1) REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.979 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 270 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO REMARK 200 DATA SCALING SOFTWARE : DENZO REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 28968 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.580 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 200 DATA REDUNDANCY : 6.800 REMARK 200 R MERGE (I) : 0.11900 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 29.1000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.60 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.64 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : 7.10 REMARK 200 R MERGE FOR SHELL (I) : 0.41300 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> FOR SHELL : 7.100 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: MAD REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: MOLREP REMARK 200 STARTING MODEL: 1T3I REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 52.33 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.58 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.03M MGCL2, 0.03 M CACL2, 15% (V/V) REMARK 280 GLYCEROL, 15% (W/V) PEG 4000, 0.1M TRIS (BASE)/ BICINE PH 8.5, REMARK 280 VAPOR DIFFUSION, SITTING DROP, TEMPERATURE 287K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 21 21 21 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X+1/2,-Y,Z+1/2 REMARK 290 3555 -X,Y+1/2,-Z+1/2 REMARK 290 4555 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 33.50300 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 72.72200 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 46.26350 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 72.72200 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 33.50300 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 46.26350 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 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: 7620 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 26080 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -41.0 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 -19 REMARK 465 HIS A -18 REMARK 465 HIS A -17 REMARK 465 HIS A -16 REMARK 465 HIS A -15 REMARK 465 HIS A -14 REMARK 465 HIS A -13 REMARK 465 SER A -12 REMARK 465 SER A -11 REMARK 465 GLU A -10 REMARK 465 ASN A -9 REMARK 465 LEU A -8 REMARK 465 TYR A -7 REMARK 465 PHE A -6 REMARK 465 GLN A -5 REMARK 465 GLY A -4 REMARK 465 HIS A -3 REMARK 465 MET A -2 REMARK 465 GLY A 396 REMARK 465 LEU A 397 REMARK 465 LYS A 398 REMARK 465 THR A 399 REMARK 465 MET B -19 REMARK 465 HIS B -18 REMARK 465 HIS B -17 REMARK 465 HIS B -16 REMARK 465 HIS B -15 REMARK 465 HIS B -14 REMARK 465 HIS B -13 REMARK 465 SER B -12 REMARK 465 SER B -11 REMARK 465 GLU B -10 REMARK 465 ASN B -9 REMARK 465 LEU B -8 REMARK 465 TYR B -7 REMARK 465 PHE B -6 REMARK 465 GLN B -5 REMARK 465 GLY B -4 REMARK 465 HIS B -3 REMARK 465 LYS B 398 REMARK 465 THR B 399 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 GLU A 5 CG CD OE1 OE2 REMARK 470 HIS B 48 CG ND1 CD2 CE1 NE2 REMARK 470 ARG B 49 CG CD NE CZ NH1 NH2 REMARK 470 LYS B 67 CG CD CE NZ REMARK 470 LYS B 76 CG CD CE NZ REMARK 470 LYS B 102 CG CD CE NZ REMARK 470 ARG B 103 CG CD NE CZ NH1 NH2 REMARK 470 LYS B 127 CG CD CE NZ REMARK 470 LYS B 131 CG CD CE NZ REMARK 470 GLU B 136 CG CD OE1 OE2 REMARK 470 GLU B 149 CG CD OE1 OE2 REMARK 470 LYS B 150 CG CD CE NZ REMARK 470 LYS B 151 CG CD CE NZ REMARK 470 LYS B 156 CG CD CE NZ REMARK 470 LYS B 178 CG CD CE NZ REMARK 470 LYS B 181 CG CD CE NZ REMARK 470 ARG B 230 CG CD NE CZ NH1 NH2 REMARK 470 GLU B 231 CG CD OE1 OE2 REMARK 470 GLU B 232 CG CD OE1 OE2 REMARK 470 LYS B 301 CG CD CE NZ REMARK 470 GLU B 305 CG CD OE1 OE2 REMARK 470 LYS B 362 CG CD CE NZ REMARK 470 GLU B 392 CG CD OE1 OE2 REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS REMARK 500 REMARK 500 THE FOLLOWING ATOMS THAT ARE RELATED BY CRYSTALLOGRAPHIC REMARK 500 SYMMETRY ARE IN CLOSE CONTACT. AN ATOM LOCATED WITHIN 0.15 REMARK 500 ANGSTROMS OF A SYMMETRY RELATED ATOM IS ASSUMED TO BE ON A REMARK 500 SPECIAL POSITION AND IS, THEREFORE, LISTED IN REMARK 375 REMARK 500 INSTEAD OF REMARK 500. ATOMS WITH NON-BLANK ALTERNATE REMARK 500 LOCATION INDICATORS ARE NOT INCLUDED IN THE CALCULATIONS. REMARK 500 REMARK 500 DISTANCE CUTOFF: REMARK 500 2.2 ANGSTROMS FOR CONTACTS NOT INVOLVING HYDROGEN ATOMS REMARK 500 1.6 ANGSTROMS FOR CONTACTS INVOLVING HYDROGEN ATOMS REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI SSYMOP DISTANCE REMARK 500 O HOH A 552 O HOH B 502 4445 2.05 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 ARG A 44 NE - CZ - NH1 ANGL. DEV. = 3.1 DEGREES REMARK 500 VAL A 47 C - N - CA ANGL. DEV. = 16.6 DEGREES REMARK 500 VAL A 47 CB - CA - C ANGL. DEV. = 12.0 DEGREES REMARK 500 GLU A 113 N - CA - C ANGL. DEV. = -16.7 DEGREES REMARK 500 ARG B 44 NE - CZ - NH1 ANGL. DEV. = 4.2 DEGREES REMARK 500 ARG B 44 NE - CZ - NH2 ANGL. DEV. = -4.0 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 MET A 1 88.55 -178.84 REMARK 500 VAL A 7 -63.57 63.17 REMARK 500 TYR A 43 40.50 -148.68 REMARK 500 ALA A 45 162.27 177.63 REMARK 500 VAL A 47 145.64 103.34 REMARK 500 HIS A 48 50.29 72.97 REMARK 500 ARG A 49 36.26 34.35 REMARK 500 LEU A 97 35.92 -145.11 REMARK 500 TYR A 112 -93.95 -76.98 REMARK 500 GLU A 113 128.47 130.68 REMARK 500 LEU A 118 -67.72 -139.18 REMARK 500 LLP A 216 -131.01 -89.23 REMARK 500 GLU A 231 -38.85 -39.04 REMARK 500 HIS A 346 30.81 -96.41 REMARK 500 CYS A 356 21.23 47.32 REMARK 500 LEU A 358 -44.43 179.29 REMARK 500 SER B 0 104.55 -38.85 REMARK 500 PHE B 20 43.73 -108.92 REMARK 500 TYR B 43 41.06 -144.22 REMARK 500 VAL B 47 -144.22 -95.54 REMARK 500 PHE B 77 -62.29 -29.74 REMARK 500 LEU B 118 -55.29 -142.49 REMARK 500 LLP B 216 -125.87 -93.03 REMARK 500 PRO B 218 0.72 -69.74 REMARK 500 GLU B 232 -36.69 -33.17 REMARK 500 PRO B 239 109.94 -47.74 REMARK 500 ALA B 357 47.17 -149.58 REMARK 500 ASN B 367 41.16 -94.59 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: NON-CIS, NON-TRANS REMARK 500 REMARK 500 THE FOLLOWING PEPTIDE BONDS DEVIATE SIGNIFICANTLY FROM BOTH REMARK 500 CIS AND TRANS CONFORMATION. CIS BONDS, IF ANY, ARE LISTED REMARK 500 ON CISPEP RECORDS. TRANS IS DEFINED AS 180 +/- 30 AND REMARK 500 CIS IS DEFINED AS 0 +/- 30 DEGREES. REMARK 500 MODEL OMEGA REMARK 500 SER A 0 MET A 1 37.99 REMARK 500 TYR A 112 GLU A 113 60.09 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 GOL A 401 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue GOL B 401 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 5B7U RELATED DB: PDB DBREF 5B7S A 1 399 UNP B6YT87 B6YT87_THEON 1 399 DBREF 5B7S B 1 399 UNP B6YT87 B6YT87_THEON 1 399 SEQADV 5B7S MET A -19 UNP B6YT87 EXPRESSION TAG SEQADV 5B7S HIS A -18 UNP B6YT87 EXPRESSION TAG SEQADV 5B7S HIS A -17 UNP B6YT87 EXPRESSION TAG SEQADV 5B7S HIS A -16 UNP B6YT87 EXPRESSION TAG SEQADV 5B7S HIS A -15 UNP B6YT87 EXPRESSION TAG SEQADV 5B7S HIS A -14 UNP B6YT87 EXPRESSION TAG SEQADV 5B7S HIS A -13 UNP B6YT87 EXPRESSION TAG SEQADV 5B7S SER A -12 UNP B6YT87 EXPRESSION TAG SEQADV 5B7S SER A -11 UNP B6YT87 EXPRESSION TAG SEQADV 5B7S GLU A -10 UNP B6YT87 EXPRESSION TAG SEQADV 5B7S ASN A -9 UNP B6YT87 EXPRESSION TAG SEQADV 5B7S LEU A -8 UNP B6YT87 EXPRESSION TAG SEQADV 5B7S TYR A -7 UNP B6YT87 EXPRESSION TAG SEQADV 5B7S PHE A -6 UNP B6YT87 EXPRESSION TAG SEQADV 5B7S GLN A -5 UNP B6YT87 EXPRESSION TAG SEQADV 5B7S GLY A -4 UNP B6YT87 EXPRESSION TAG SEQADV 5B7S HIS A -3 UNP B6YT87 EXPRESSION TAG SEQADV 5B7S MET A -2 UNP B6YT87 EXPRESSION TAG SEQADV 5B7S ALA A -1 UNP B6YT87 EXPRESSION TAG SEQADV 5B7S SER A 0 UNP B6YT87 EXPRESSION TAG SEQADV 5B7S MET B -19 UNP B6YT87 EXPRESSION TAG SEQADV 5B7S HIS B -18 UNP B6YT87 EXPRESSION TAG SEQADV 5B7S HIS B -17 UNP B6YT87 EXPRESSION TAG SEQADV 5B7S HIS B -16 UNP B6YT87 EXPRESSION TAG SEQADV 5B7S HIS B -15 UNP B6YT87 EXPRESSION TAG SEQADV 5B7S HIS B -14 UNP B6YT87 EXPRESSION TAG SEQADV 5B7S HIS B -13 UNP B6YT87 EXPRESSION TAG SEQADV 5B7S SER B -12 UNP B6YT87 EXPRESSION TAG SEQADV 5B7S SER B -11 UNP B6YT87 EXPRESSION TAG SEQADV 5B7S GLU B -10 UNP B6YT87 EXPRESSION TAG SEQADV 5B7S ASN B -9 UNP B6YT87 EXPRESSION TAG SEQADV 5B7S LEU B -8 UNP B6YT87 EXPRESSION TAG SEQADV 5B7S TYR B -7 UNP B6YT87 EXPRESSION TAG SEQADV 5B7S PHE B -6 UNP B6YT87 EXPRESSION TAG SEQADV 5B7S GLN B -5 UNP B6YT87 EXPRESSION TAG SEQADV 5B7S GLY B -4 UNP B6YT87 EXPRESSION TAG SEQADV 5B7S HIS B -3 UNP B6YT87 EXPRESSION TAG SEQADV 5B7S MET B -2 UNP B6YT87 EXPRESSION TAG SEQADV 5B7S ALA B -1 UNP B6YT87 EXPRESSION TAG SEQADV 5B7S SER B 0 UNP B6YT87 EXPRESSION TAG SEQRES 1 A 419 MET HIS HIS HIS HIS HIS HIS SER SER GLU ASN LEU TYR SEQRES 2 A 419 PHE GLN GLY HIS MET ALA SER MET ARG ILE PRO GLU ASP SEQRES 3 A 419 VAL ARG LYS ASP ILE PRO LEU THR ASN GLU VAL ILE TYR SEQRES 4 A 419 PHE ASP ASN THR ALA THR SER LEU THR PRO LYS PRO VAL SEQRES 5 A 419 VAL GLU ALA MET ASP GLU TYR TYR LEU LYS TYR ARG ALA SEQRES 6 A 419 ASN VAL HIS ARG GLY VAL HIS ARG LEU SER GLN MET ALA SEQRES 7 A 419 THR HIS LYS TYR GLU GLU SER ARG LYS ILE VAL ALA ASP SEQRES 8 A 419 PHE ILE GLY ALA LYS PHE GLU GLU ILE VAL PHE THR LYS SEQRES 9 A 419 ASN THR SER GLU SER LEU ASN LEU VAL ALA LEU GLY LEU SEQRES 10 A 419 GLY HIS ILE PHE LYS ARG GLY ASP LYS ILE VAL THR THR SEQRES 11 A 419 PRO TYR GLU HIS HIS SER ASP LEU LEU PRO TRP GLN ARG SEQRES 12 A 419 LEU ALA THR LYS LEU GLY LEU LYS LEU GLU PHE ILE GLU SEQRES 13 A 419 GLY ASP ASP GLU GLY ASN LEU ASP LEU SER ASP ALA GLU SEQRES 14 A 419 LYS LYS ILE LYS GLY ALA LYS LEU VAL ALA VAL GLN HIS SEQRES 15 A 419 VAL SER ASN ALA LEU GLY VAL ILE HIS GLU VAL GLU GLU SEQRES 16 A 419 LEU GLY LYS ILE ALA LYS ASP GLU GLY ALA ILE PHE VAL SEQRES 17 A 419 VAL ASP ALA ALA GLN SER ALA GLY HIS MET GLU VAL ASN SEQRES 18 A 419 VAL LYS LYS LEU HIS ALA ASP PHE LEU ALA PHE SER GLY SEQRES 19 A 419 HIS LLP GLY PRO MET GLY PRO THR GLY ILE GLY VAL LEU SEQRES 20 A 419 TYR ILE ARG GLU GLU PHE PHE ASP THR PHE GLU PRO PRO SEQRES 21 A 419 LEU ILE GLY GLY GLY THR ILE GLU ASP VAL SER LEU ASP SEQRES 22 A 419 GLY TYR LYS LEU THR GLU PRO PRO GLU ARG PHE GLU ALA SEQRES 23 A 419 GLY THR PRO ASN ILE GLY GLY ALA ILE GLY LEU ALA ALA SEQRES 24 A 419 GLY ILE ARG TYR ILE GLU ARG ILE GLY LEU GLY ARG ILE SEQRES 25 A 419 GLU ARG GLN GLU HIS LYS LEU VAL LYS ARG THR THR GLU SEQRES 26 A 419 GLY LEU ASP GLU LEU GLU VAL PRO TRP TYR GLY PRO ARG SEQRES 27 A 419 ASN LEU LYS LYS HIS ALA GLY VAL VAL SER PHE ASN VAL SEQRES 28 A 419 PRO GLY LEU HIS PRO HIS ASP VAL ALA ALA ILE LEU ASP SEQRES 29 A 419 ASP HIS SER ILE MET VAL ARG SER GLY HIS HIS CYS ALA SEQRES 30 A 419 LEU PRO VAL MET LYS LYS LEU GLY ILE ASN GLY THR VAL SEQRES 31 A 419 ARG ALA SER PHE HIS VAL TYR ASN SER LEU GLU GLU VAL SEQRES 32 A 419 GLU THR PHE LEU GLY VAL MET GLU GLU LEU VAL LYS GLY SEQRES 33 A 419 LEU LYS THR SEQRES 1 B 419 MET HIS HIS HIS HIS HIS HIS SER SER GLU ASN LEU TYR SEQRES 2 B 419 PHE GLN GLY HIS MET ALA SER MET ARG ILE PRO GLU ASP SEQRES 3 B 419 VAL ARG LYS ASP ILE PRO LEU THR ASN GLU VAL ILE TYR SEQRES 4 B 419 PHE ASP ASN THR ALA THR SER LEU THR PRO LYS PRO VAL SEQRES 5 B 419 VAL GLU ALA MET ASP GLU TYR TYR LEU LYS TYR ARG ALA SEQRES 6 B 419 ASN VAL HIS ARG GLY VAL HIS ARG LEU SER GLN MET ALA SEQRES 7 B 419 THR HIS LYS TYR GLU GLU SER ARG LYS ILE VAL ALA ASP SEQRES 8 B 419 PHE ILE GLY ALA LYS PHE GLU GLU ILE VAL PHE THR LYS SEQRES 9 B 419 ASN THR SER GLU SER LEU ASN LEU VAL ALA LEU GLY LEU SEQRES 10 B 419 GLY HIS ILE PHE LYS ARG GLY ASP LYS ILE VAL THR THR SEQRES 11 B 419 PRO TYR GLU HIS HIS SER ASP LEU LEU PRO TRP GLN ARG SEQRES 12 B 419 LEU ALA THR LYS LEU GLY LEU LYS LEU GLU PHE ILE GLU SEQRES 13 B 419 GLY ASP ASP GLU GLY ASN LEU ASP LEU SER ASP ALA GLU SEQRES 14 B 419 LYS LYS ILE LYS GLY ALA LYS LEU VAL ALA VAL GLN HIS SEQRES 15 B 419 VAL SER ASN ALA LEU GLY VAL ILE HIS GLU VAL GLU GLU SEQRES 16 B 419 LEU GLY LYS ILE ALA LYS ASP GLU GLY ALA ILE PHE VAL SEQRES 17 B 419 VAL ASP ALA ALA GLN SER ALA GLY HIS MET GLU VAL ASN SEQRES 18 B 419 VAL LYS LYS LEU HIS ALA ASP PHE LEU ALA PHE SER GLY SEQRES 19 B 419 HIS LLP GLY PRO MET GLY PRO THR GLY ILE GLY VAL LEU SEQRES 20 B 419 TYR ILE ARG GLU GLU PHE PHE ASP THR PHE GLU PRO PRO SEQRES 21 B 419 LEU ILE GLY GLY GLY THR ILE GLU ASP VAL SER LEU ASP SEQRES 22 B 419 GLY TYR LYS LEU THR GLU PRO PRO GLU ARG PHE GLU ALA SEQRES 23 B 419 GLY THR PRO ASN ILE GLY GLY ALA ILE GLY LEU ALA ALA SEQRES 24 B 419 GLY ILE ARG TYR ILE GLU ARG ILE GLY LEU GLY ARG ILE SEQRES 25 B 419 GLU ARG GLN GLU HIS LYS LEU VAL LYS ARG THR THR GLU SEQRES 26 B 419 GLY LEU ASP GLU LEU GLU VAL PRO TRP TYR GLY PRO ARG SEQRES 27 B 419 ASN LEU LYS LYS HIS ALA GLY VAL VAL SER PHE ASN VAL SEQRES 28 B 419 PRO GLY LEU HIS PRO HIS ASP VAL ALA ALA ILE LEU ASP SEQRES 29 B 419 ASP HIS SER ILE MET VAL ARG SER GLY HIS HIS CYS ALA SEQRES 30 B 419 LEU PRO VAL MET LYS LYS LEU GLY ILE ASN GLY THR VAL SEQRES 31 B 419 ARG ALA SER PHE HIS VAL TYR ASN SER LEU GLU GLU VAL SEQRES 32 B 419 GLU THR PHE LEU GLY VAL MET GLU GLU LEU VAL LYS GLY SEQRES 33 B 419 LEU LYS THR MODRES 5B7S LLP A 216 LYS MODIFIED RESIDUE MODRES 5B7S LLP B 216 LYS MODIFIED RESIDUE HET LLP A 216 24 HET LLP B 216 24 HET GOL A 401 6 HET GOL B 401 6 HETNAM LLP (2S)-2-AMINO-6-[[3-HYDROXY-2-METHYL-5- HETNAM 2 LLP (PHOSPHONOOXYMETHYL)PYRIDIN-4- HETNAM 3 LLP YL]METHYLIDENEAMINO]HEXANOIC ACID HETNAM GOL GLYCEROL HETSYN LLP N'-PYRIDOXYL-LYSINE-5'-MONOPHOSPHATE HETSYN GOL GLYCERIN; PROPANE-1,2,3-TRIOL FORMUL 1 LLP 2(C14 H22 N3 O7 P) FORMUL 3 GOL 2(C3 H8 O3) FORMUL 5 HOH *101(H2 O) HELIX 1 AA1 VAL A 7 GLU A 16 5 10 HELIX 2 AA2 PRO A 29 TYR A 43 1 15 HELIX 3 AA3 HIS A 52 ILE A 73 1 22 HELIX 4 AA4 LYS A 76 GLU A 78 5 3 HELIX 5 AA5 ASN A 85 LEU A 97 1 13 HELIX 6 AA6 GLY A 98 PHE A 101 5 4 HELIX 7 AA7 HIS A 114 ASP A 117 5 4 HELIX 8 AA8 LEU A 118 GLY A 129 1 12 HELIX 9 AA9 ASP A 144 LYS A 153 1 10 HELIX 10 AB1 GLU A 172 GLY A 184 1 13 HELIX 11 AB2 GLU A 231 PHE A 234 5 4 HELIX 12 AB3 PRO A 261 GLU A 265 5 5 HELIX 13 AB4 ASN A 270 GLY A 288 1 19 HELIX 14 AB5 GLY A 288 LEU A 310 1 23 HELIX 15 AB6 ASN A 319 HIS A 323 5 5 HELIX 16 AB7 HIS A 335 HIS A 346 1 12 HELIX 17 AB8 LEU A 358 LYS A 363 1 6 HELIX 18 AB9 SER A 379 LYS A 395 1 17 HELIX 19 AC1 PRO B 4 LYS B 9 1 6 HELIX 20 AC2 ASP B 10 GLU B 16 5 7 HELIX 21 AC3 PRO B 29 TYR B 43 1 15 HELIX 22 AC4 HIS B 52 GLY B 74 1 23 HELIX 23 AC5 LYS B 76 GLU B 78 5 3 HELIX 24 AC6 ASN B 85 GLY B 98 1 14 HELIX 25 AC7 HIS B 99 PHE B 101 5 3 HELIX 26 AC8 HIS B 114 ASP B 117 5 4 HELIX 27 AC9 LEU B 118 GLY B 129 1 12 HELIX 28 AD1 ASP B 144 ILE B 152 1 9 HELIX 29 AD2 GLU B 172 GLU B 183 1 12 HELIX 30 AD3 GLU B 231 PHE B 234 5 4 HELIX 31 AD4 PRO B 261 GLU B 265 5 5 HELIX 32 AD5 ASN B 270 GLY B 288 1 19 HELIX 33 AD6 GLY B 288 LEU B 310 1 23 HELIX 34 AD7 ASN B 319 HIS B 323 5 5 HELIX 35 AD8 HIS B 335 HIS B 346 1 12 HELIX 36 AD9 ALA B 357 GLY B 365 1 9 HELIX 37 AE1 SER B 379 LYS B 395 1 17 SHEET 1 AA1 2 ILE A 18 TYR A 19 0 SHEET 2 AA1 2 ILE A 348 MET A 349 1 O MET A 349 N ILE A 18 SHEET 1 AA2 7 ILE A 80 THR A 83 0 SHEET 2 AA2 7 GLY A 225 ILE A 229 -1 O GLY A 225 N THR A 83 SHEET 3 AA2 7 PHE A 209 SER A 213 -1 N LEU A 210 O TYR A 228 SHEET 4 AA2 7 ILE A 186 ASP A 190 1 N VAL A 189 O ALA A 211 SHEET 5 AA2 7 LEU A 157 GLN A 161 1 N VAL A 158 O VAL A 188 SHEET 6 AA2 7 LYS A 106 THR A 109 1 N VAL A 108 O ALA A 159 SHEET 7 AA2 7 LYS A 131 PHE A 134 1 O LYS A 131 N ILE A 107 SHEET 1 AA3 2 ILE A 247 VAL A 250 0 SHEET 2 AA3 2 TYR A 255 LEU A 257 -1 O LYS A 256 N ASP A 249 SHEET 1 AA4 3 VAL A 326 PHE A 329 0 SHEET 2 AA4 3 THR A 369 SER A 373 -1 O VAL A 370 N PHE A 329 SHEET 3 AA4 3 ARG A 351 GLY A 353 -1 N ARG A 351 O ARG A 371 SHEET 1 AA5 2 ILE B 18 TYR B 19 0 SHEET 2 AA5 2 ILE B 348 MET B 349 1 O MET B 349 N ILE B 18 SHEET 1 AA6 7 ILE B 80 THR B 83 0 SHEET 2 AA6 7 GLY B 225 ILE B 229 -1 O GLY B 225 N THR B 83 SHEET 3 AA6 7 PHE B 209 SER B 213 -1 N LEU B 210 O TYR B 228 SHEET 4 AA6 7 ILE B 186 ASP B 190 1 N VAL B 189 O PHE B 209 SHEET 5 AA6 7 LEU B 157 GLN B 161 1 N VAL B 158 O ILE B 186 SHEET 6 AA6 7 LYS B 106 THR B 109 1 N VAL B 108 O ALA B 159 SHEET 7 AA6 7 LYS B 131 PHE B 134 1 O LYS B 131 N ILE B 107 SHEET 1 AA7 2 ILE B 247 VAL B 250 0 SHEET 2 AA7 2 TYR B 255 LEU B 257 -1 O LYS B 256 N ASP B 249 SHEET 1 AA8 3 VAL B 326 PHE B 329 0 SHEET 2 AA8 3 THR B 369 SER B 373 -1 O VAL B 370 N PHE B 329 SHEET 3 AA8 3 ARG B 351 GLY B 353 -1 N ARG B 351 O ARG B 371 LINK C HIS A 215 N LLP A 216 1555 1555 1.32 LINK C LLP A 216 N GLY A 217 1555 1555 1.32 LINK C HIS B 215 N LLP B 216 1555 1555 1.33 LINK C LLP B 216 N GLY B 217 1555 1555 1.33 CISPEP 1 ALA A -1 SER A 0 0 2.03 CISPEP 2 PRO A 4 GLU A 5 0 23.02 CISPEP 3 ASP A 6 VAL A 7 0 -12.56 CISPEP 4 ASN A 46 VAL A 47 0 -2.57 CISPEP 5 LYS A 153 GLY A 154 0 -14.85 CISPEP 6 PRO A 260 PRO A 261 0 2.74 CISPEP 7 LYS A 363 LEU A 364 0 6.59 CISPEP 8 ILE B 3 PRO B 4 0 -5.04 CISPEP 9 PRO B 260 PRO B 261 0 -1.83 SITE 1 AC1 6 GLY A 74 ALA A 75 LYS A 76 GLU A 79 SITE 2 AC1 6 LYS A 203 TYR A 228 SITE 1 AC2 3 HIS B 346 LEU B 393 GLY B 396 CRYST1 67.006 92.527 145.444 90.00 90.00 90.00 P 21 21 21 8 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 0.014924 0.000000 0.000000 0.00000 SCALE2 0.000000 0.010808 0.000000 0.00000 SCALE3 0.000000 0.000000 0.006875 0.00000