HEADER OXIDOREDUCTASE 22-MAY-16 5K4U TITLE THREE-DIMENSIONAL STRUCTURE OF L-THREONINE 3-DEHYDROGENASE FROM TITLE 2 TRYPANOSOMA BRUCEI SHOWING DIFFERENT ACTIVE SITE LOOP CONFORMATIONS TITLE 3 BETWEEN DIMER SUBUNITS, REFINED TO 1.9 ANGSTROMS COMPND MOL_ID: 1; COMPND 2 MOLECULE: L-THREONINE 3-DEHYDROGENASE; COMPND 3 CHAIN: A, C; COMPND 4 EC: 1.1.1.103; COMPND 5 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: TRYPANOSOMA BRUCEI; SOURCE 3 ORGANISM_TAXID: 5691; SOURCE 4 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 5 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS SHORT-CHAIN DEHYDROGENASE, LIGAND-BOUND, HOLO, OXIDOREDUCTASE EXPDTA X-RAY DIFFRACTION AUTHOR E.K.ADJOGATSE,J.B.COOPER,P.T.ERSKINE REVDAT 4 08-MAY-24 5K4U 1 REMARK REVDAT 3 10-OCT-18 5K4U 1 JRNL REVDAT 2 19-SEP-18 5K4U 1 JRNL REVDAT 1 15-NOV-17 5K4U 0 JRNL AUTH E.ADJOGATSE,P.ERSKINE,S.A.WELLS,J.M.KELLY,J.D.WILDEN, JRNL AUTH 2 A.W.E.CHAN,D.SELWOOD,A.COKER,S.WOOD,J.B.COOPER JRNL TITL STRUCTURE AND FUNCTION OF L-THREONINE-3-DEHYDROGENASE FROM JRNL TITL 2 THE PARASITIC PROTOZOAN TRYPANOSOMA BRUCEI REVEALED BY X-RAY JRNL TITL 3 CRYSTALLOGRAPHY AND GEOMETRIC SIMULATIONS. JRNL REF ACTA CRYSTALLOGR D STRUCT V. 74 861 2018 JRNL REF 2 BIOL JRNL REFN ISSN 2059-7983 JRNL PMID 30198897 JRNL DOI 10.1107/S2059798318009208 REMARK 2 REMARK 2 RESOLUTION. 1.90 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.7.0032 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) : 1.90 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 28.55 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 97.7 REMARK 3 NUMBER OF REFLECTIONS : 49596 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) : 0.174 REMARK 3 R VALUE (WORKING SET) : 0.172 REMARK 3 FREE R VALUE : 0.223 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 2679 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) : 1.90 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.95 REMARK 3 REFLECTION IN BIN (WORKING SET) : 3584 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 97.55 REMARK 3 BIN R VALUE (WORKING SET) : 0.1860 REMARK 3 BIN FREE R VALUE SET COUNT : 204 REMARK 3 BIN FREE R VALUE : 0.2490 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 5002 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 138 REMARK 3 SOLVENT ATOMS : 228 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 23.97 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.11000 REMARK 3 B22 (A**2) : 0.16000 REMARK 3 B33 (A**2) : -0.05000 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): 0.146 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.143 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.092 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 3.027 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.950 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.923 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 5250 ; 0.019 ; 0.020 REMARK 3 BOND LENGTHS OTHERS (A): 5007 ; 0.001 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 7128 ; 1.940 ; 2.012 REMARK 3 BOND ANGLES OTHERS (DEGREES): 11518 ; 0.929 ; 3.002 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 638 ; 6.804 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 206 ;35.428 ;23.883 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 894 ;14.596 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 30 ;16.808 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 811 ; 0.120 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 5740 ; 0.010 ; 0.021 REMARK 3 GENERAL PLANES OTHERS (A): 1086 ; 0.001 ; 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): 2563 ; 2.039 ; 2.192 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 2557 ; 2.027 ; 2.187 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 3194 ; 2.842 ; 3.271 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: NULL REMARK 4 REMARK 4 5K4U COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 22-MAY-16. REMARK 100 THE DEPOSITION ID IS D_1000221749. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 19-FEB-12 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 : DIAMOND REMARK 200 BEAMLINE : I04-1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9173 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS 2M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XIA2 REMARK 200 DATA SCALING SOFTWARE : SCALA 3.3.9 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 61881 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.790 REMARK 200 RESOLUTION RANGE LOW (A) : 29.290 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 98.0 REMARK 200 DATA REDUNDANCY : 3.300 REMARK 200 R MERGE (I) : 0.07400 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 12.7000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.79 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.89 REMARK 200 COMPLETENESS FOR SHELL (%) : 97.5 REMARK 200 DATA REDUNDANCY IN SHELL : 3.30 REMARK 200 R MERGE FOR SHELL (I) : 0.46000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : NULL REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: MOLREP REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 43.94 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.19 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.1M TRI-SODIUM CITRATE, 30% W/V PEG REMARK 280 4K, 0.2M SODIUM ACETATE, NAD+ (8.5MM), PH 5.6, VAPOR DIFFUSION, REMARK 280 HANGING DROP, TEMPERATURE 298K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 21 21 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,-Y,Z REMARK 290 3555 -X+1/2,Y+1/2,-Z 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 0.00000 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 45.03700 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 66.54750 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 45.03700 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 66.54750 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: 7310 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 24260 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -32.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, 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 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS IN SAME ASYMMETRIC UNIT REMARK 500 REMARK 500 THE FOLLOWING ATOMS ARE IN CLOSE CONTACT. REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI DISTANCE REMARK 500 O HOH A 6501 O HOH A 6613 2.12 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 A6084 NE - CZ - NH1 ANGL. DEV. = 7.5 DEGREES REMARK 500 ARG A6084 NE - CZ - NH2 ANGL. DEV. = -7.5 DEGREES REMARK 500 ASP A6300 CB - CG - OD1 ANGL. DEV. = 5.6 DEGREES REMARK 500 ARG C6084 NE - CZ - NH1 ANGL. DEV. = 5.0 DEGREES REMARK 500 ARG C6084 NE - CZ - NH2 ANGL. DEV. = -4.2 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 SER C6118 -154.20 -101.66 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 NAD A 6401 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue GOL A 6402 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue GOL A 6403 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue ACT A 6404 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue ACT A 6405 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue ACT A 6406 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue ACT A 6407 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue NAD C 6401 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue GOL C 6402 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue GOL C 6403 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue GOL C 6404 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue ACT C 6405 DBREF 5K4U A 6003 6321 UNP Q7YW97 Q7YW97_9TRYP 14 332 DBREF 5K4U C 6003 6321 UNP Q7YW97 Q7YW97_9TRYP 14 332 SEQADV 5K4U MET A 6002 UNP Q7YW97 INITIATING METHIONINE SEQADV 5K4U MET C 6002 UNP Q7YW97 INITIATING METHIONINE SEQRES 1 A 320 MET PRO ARG VAL LEU VAL THR GLY ALA LEU GLY GLN ILE SEQRES 2 A 320 GLY THR ASP LEU SER LEU ALA LEU ARG ASP LYS PHE GLY SEQRES 3 A 320 ALA ASP SER VAL LEU VAL SER ASP VAL VAL GLU PRO GLY SEQRES 4 A 320 ALA LYS HIS PRO LEU ALA GLY LEU LYS GLY VAL GLU LYS SEQRES 5 A 320 LEU ASP CYS LEU ASP SER ASN GLY PHE GLU LYS LEU VAL SEQRES 6 A 320 LYS GLU PHE LYS PRO THR TRP MET TYR HIS LEU PRO ALA SEQRES 7 A 320 ILE MET SER VAL ARG GLY GLU ALA GLU PRO ASP LEU ALA SEQRES 8 A 320 MET ASP ILE ASN VAL ASN THR THR ARG TYR ALA LEU GLU SEQRES 9 A 320 LEU ALA ARG LYS TYR ASN ILE ARG ILE PHE ILE PRO SER SEQRES 10 A 320 THR ILE ALA ALA PHE GLY ASP LYS CYS GLY LYS THR MET SEQRES 11 A 320 THR LYS ASP ASP THR ILE MET ASN PRO SER THR VAL TYR SEQRES 12 A 320 GLY VAL THR LYS VAL TYR THR GLU LEU LEU GLY THR TRP SEQRES 13 A 320 TYR ARG GLN LYS TYR GLY VAL ASP PHE ARG SER VAL ARG SEQRES 14 A 320 LEU PRO GLY ILE ILE SER ALA ALA THR LEU PRO GLY GLY SEQRES 15 A 320 GLY ALA THR ASP TYR ALA ILE HIS MET TYR HIS SER ALA SEQRES 16 A 320 LEU LEU GLN LYS LYS CYS VAL CYS PRO VAL LEU PRO TYR SEQRES 17 A 320 GLU SER LEU PRO MET MET TYR MET PRO ASP THR LEU ASN SEQRES 18 A 320 SER LEU VAL LYS ILE MET GLU ALA PRO LEU GLU LYS LEU SEQRES 19 A 320 THR ARG THR VAL TYR ASN ILE THR GLY PHE SER PHE SER SEQRES 20 A 320 PRO SER GLU LEU ARG PHE SER ILE GLU ARG CYS THR ASP SEQRES 21 A 320 ARG THR ILE GLU VAL GLU TYR VAL GLU GLY PRO ALA GLN SEQRES 22 A 320 LYS ILE ALA ASN SER TRP PRO ASP SER LEU ASP ASP SER SEQRES 23 A 320 ASN ALA ARG ASN ASP TRP GLY HIS GLN VAL LYS TYR ASP SEQRES 24 A 320 ILE ASP MET MET SER GLU ASP MET LEU ARG GLN ILE PRO SEQRES 25 A 320 ILE LEU HIS GLY LEU PRO SER LEU SEQRES 1 C 320 MET PRO ARG VAL LEU VAL THR GLY ALA LEU GLY GLN ILE SEQRES 2 C 320 GLY THR ASP LEU SER LEU ALA LEU ARG ASP LYS PHE GLY SEQRES 3 C 320 ALA ASP SER VAL LEU VAL SER ASP VAL VAL GLU PRO GLY SEQRES 4 C 320 ALA LYS HIS PRO LEU ALA GLY LEU LYS GLY VAL GLU LYS SEQRES 5 C 320 LEU ASP CYS LEU ASP SER ASN GLY PHE GLU LYS LEU VAL SEQRES 6 C 320 LYS GLU PHE LYS PRO THR TRP MET TYR HIS LEU PRO ALA SEQRES 7 C 320 ILE MET SER VAL ARG GLY GLU ALA GLU PRO ASP LEU ALA SEQRES 8 C 320 MET ASP ILE ASN VAL ASN THR THR ARG TYR ALA LEU GLU SEQRES 9 C 320 LEU ALA ARG LYS TYR ASN ILE ARG ILE PHE ILE PRO SER SEQRES 10 C 320 THR ILE ALA ALA PHE GLY ASP LYS CYS GLY LYS THR MET SEQRES 11 C 320 THR LYS ASP ASP THR ILE MET ASN PRO SER THR VAL TYR SEQRES 12 C 320 GLY VAL THR LYS VAL TYR THR GLU LEU LEU GLY THR TRP SEQRES 13 C 320 TYR ARG GLN LYS TYR GLY VAL ASP PHE ARG SER VAL ARG SEQRES 14 C 320 LEU PRO GLY ILE ILE SER ALA ALA THR LEU PRO GLY GLY SEQRES 15 C 320 GLY ALA THR ASP TYR ALA ILE HIS MET TYR HIS SER ALA SEQRES 16 C 320 LEU LEU GLN LYS LYS CYS VAL CYS PRO VAL LEU PRO TYR SEQRES 17 C 320 GLU SER LEU PRO MET MET TYR MET PRO ASP THR LEU ASN SEQRES 18 C 320 SER LEU VAL LYS ILE MET GLU ALA PRO LEU GLU LYS LEU SEQRES 19 C 320 THR ARG THR VAL TYR ASN ILE THR GLY PHE SER PHE SER SEQRES 20 C 320 PRO SER GLU LEU ARG PHE SER ILE GLU ARG CYS THR ASP SEQRES 21 C 320 ARG THR ILE GLU VAL GLU TYR VAL GLU GLY PRO ALA GLN SEQRES 22 C 320 LYS ILE ALA ASN SER TRP PRO ASP SER LEU ASP ASP SER SEQRES 23 C 320 ASN ALA ARG ASN ASP TRP GLY HIS GLN VAL LYS TYR ASP SEQRES 24 C 320 ILE ASP MET MET SER GLU ASP MET LEU ARG GLN ILE PRO SEQRES 25 C 320 ILE LEU HIS GLY LEU PRO SER LEU HET NAD A6401 44 HET GOL A6402 6 HET GOL A6403 6 HET ACT A6404 4 HET ACT A6405 4 HET ACT A6406 4 HET ACT A6407 4 HET NAD C6401 44 HET GOL C6402 6 HET GOL C6403 6 HET GOL C6404 6 HET ACT C6405 4 HETNAM NAD NICOTINAMIDE-ADENINE-DINUCLEOTIDE HETNAM GOL GLYCEROL HETNAM ACT ACETATE ION HETSYN GOL GLYCERIN; PROPANE-1,2,3-TRIOL FORMUL 3 NAD 2(C21 H27 N7 O14 P2) FORMUL 4 GOL 5(C3 H8 O3) FORMUL 6 ACT 5(C2 H3 O2 1-) FORMUL 15 HOH *228(H2 O) HELIX 1 AA1 GLY A 6012 GLY A 6027 1 16 HELIX 2 AA2 ASP A 6058 LYS A 6070 1 13 HELIX 3 AA3 MET A 6081 GLU A 6088 1 8 HELIX 4 AA4 GLU A 6088 TYR A 6110 1 23 HELIX 5 AA5 ALA A 6121 PHE A 6123 5 3 HELIX 6 AA6 THR A 6142 GLY A 6163 1 22 HELIX 7 AA7 GLY A 6184 THR A 6186 5 3 HELIX 8 AA8 ASP A 6187 LEU A 6198 1 12 HELIX 9 AA9 MET A 6217 ALA A 6230 1 14 HELIX 10 AB1 PRO A 6231 LEU A 6235 5 5 HELIX 11 AB2 SER A 6248 ASP A 6261 1 14 HELIX 12 AB3 GLY A 6271 SER A 6279 1 9 HELIX 13 AB4 ASP A 6286 GLY A 6294 1 9 HELIX 14 AB5 ASP A 6300 GLY A 6317 1 18 HELIX 15 AB6 GLY C 6012 GLY C 6027 1 16 HELIX 16 AB7 ASP C 6058 LYS C 6070 1 13 HELIX 17 AB8 MET C 6081 GLU C 6088 1 8 HELIX 18 AB9 GLU C 6088 TYR C 6110 1 23 HELIX 19 AC1 ALA C 6121 PHE C 6123 5 3 HELIX 20 AC2 THR C 6142 GLY C 6163 1 22 HELIX 21 AC3 ASP C 6187 GLN C 6199 1 13 HELIX 22 AC4 MET C 6217 ALA C 6230 1 14 HELIX 23 AC5 PRO C 6231 LEU C 6235 5 5 HELIX 24 AC6 SER C 6248 ASP C 6261 1 14 HELIX 25 AC7 GLY C 6271 SER C 6279 1 9 HELIX 26 AC8 ASP C 6286 GLY C 6294 1 9 HELIX 27 AC9 ASP C 6300 GLY C 6317 1 18 SHEET 1 AA1 7 VAL A6051 LYS A6053 0 SHEET 2 AA1 7 VAL A6031 ASP A6035 1 N VAL A6033 O GLU A6052 SHEET 3 AA1 7 VAL A6005 THR A6008 1 N VAL A6005 O LEU A6032 SHEET 4 AA1 7 TRP A6073 HIS A6076 1 O TYR A6075 N LEU A6006 SHEET 5 AA1 7 ARG A6113 PHE A6115 1 O PHE A6115 N MET A6074 SHEET 6 AA1 7 PHE A6166 LEU A6171 1 O ARG A6167 N ILE A6114 SHEET 7 AA1 7 SER A6118 THR A6119 1 N SER A6118 O VAL A6169 SHEET 1 AA2 7 VAL A6051 LYS A6053 0 SHEET 2 AA2 7 VAL A6031 ASP A6035 1 N VAL A6033 O GLU A6052 SHEET 3 AA2 7 VAL A6005 THR A6008 1 N VAL A6005 O LEU A6032 SHEET 4 AA2 7 TRP A6073 HIS A6076 1 O TYR A6075 N LEU A6006 SHEET 5 AA2 7 ARG A6113 PHE A6115 1 O PHE A6115 N MET A6074 SHEET 6 AA2 7 PHE A6166 LEU A6171 1 O ARG A6167 N ILE A6114 SHEET 7 AA2 7 VAL A6239 ASN A6241 1 O TYR A6240 N SER A6168 SHEET 1 AA3 3 GLY A6173 ILE A6175 0 SHEET 2 AA3 3 LEU A6212 TYR A6216 1 O PRO A6213 N GLY A6173 SHEET 3 AA3 3 PHE A6245 PHE A6247 -1 O PHE A6247 N LEU A6212 SHEET 1 AA4 2 CYS A6202 CYS A6204 0 SHEET 2 AA4 2 VAL A6266 TYR A6268 1 O GLU A6267 N CYS A6204 SHEET 1 AA5 7 VAL C6051 LYS C6053 0 SHEET 2 AA5 7 VAL C6031 ASP C6035 1 N VAL C6033 O GLU C6052 SHEET 3 AA5 7 VAL C6005 THR C6008 1 N VAL C6005 O LEU C6032 SHEET 4 AA5 7 TRP C6073 HIS C6076 1 O TYR C6075 N THR C6008 SHEET 5 AA5 7 ARG C6113 PHE C6115 1 O PHE C6115 N HIS C6076 SHEET 6 AA5 7 PHE C6166 LEU C6171 1 O ARG C6167 N ILE C6114 SHEET 7 AA5 7 SER C6118 THR C6119 1 N SER C6118 O VAL C6169 SHEET 1 AA6 7 VAL C6051 LYS C6053 0 SHEET 2 AA6 7 VAL C6031 ASP C6035 1 N VAL C6033 O GLU C6052 SHEET 3 AA6 7 VAL C6005 THR C6008 1 N VAL C6005 O LEU C6032 SHEET 4 AA6 7 TRP C6073 HIS C6076 1 O TYR C6075 N THR C6008 SHEET 5 AA6 7 ARG C6113 PHE C6115 1 O PHE C6115 N HIS C6076 SHEET 6 AA6 7 PHE C6166 LEU C6171 1 O ARG C6167 N ILE C6114 SHEET 7 AA6 7 VAL C6239 ASN C6241 1 O TYR C6240 N ARG C6170 SHEET 1 AA7 3 GLY C6173 ILE C6175 0 SHEET 2 AA7 3 LEU C6212 TYR C6216 1 O MET C6215 N ILE C6175 SHEET 3 AA7 3 PHE C6245 PHE C6247 -1 O PHE C6245 N MET C6214 SHEET 1 AA8 2 CYS C6202 CYS C6204 0 SHEET 2 AA8 2 VAL C6266 TYR C6268 1 O GLU C6267 N CYS C6204 SITE 1 AC1 30 GLY A6009 LEU A6011 GLY A6012 GLN A6013 SITE 2 AC1 30 ILE A6014 ASP A6035 VAL A6036 LEU A6054 SITE 3 AC1 30 ASP A6055 CYS A6056 LEU A6077 PRO A6078 SITE 4 AC1 30 MET A6081 ILE A6095 PRO A6117 SER A6118 SITE 5 AC1 30 THR A6119 TYR A6144 LYS A6148 LEU A6171 SITE 6 AC1 30 PRO A6172 GLY A6173 ILE A6174 GLY A6182 SITE 7 AC1 30 ACT A6406 HOH A6503 HOH A6506 HOH A6515 SITE 8 AC1 30 HOH A6516 HOH A6546 SITE 1 AC2 7 ARG A6159 LEU A6232 LEU A6235 THR A6236 SITE 2 AC2 7 ARG A6237 HOH A6507 HOH A6537 SITE 1 AC3 6 ASP A6017 SER A6176 ALA A6177 ALA A6178 SITE 2 AC3 6 TYR A6216 GLN A6311 SITE 1 AC4 3 ARG A6237 THR A6238 LYS C6126 SITE 1 AC5 3 THR A6236 ARG A6237 LYS C6126 SITE 1 AC6 5 SER A6082 THR A6119 TYR A6144 GLY A6184 SITE 2 AC6 5 NAD A6401 SITE 1 AC7 4 LYS A6025 ASN A6222 LYS A6226 GLU A6229 SITE 1 AC8 30 GLY C6009 LEU C6011 GLY C6012 GLN C6013 SITE 2 AC8 30 ILE C6014 ASP C6035 VAL C6036 LEU C6054 SITE 3 AC8 30 ASP C6055 CYS C6056 LEU C6077 PRO C6078 SITE 4 AC8 30 ALA C6079 MET C6081 ILE C6095 PRO C6117 SITE 5 AC8 30 SER C6118 THR C6119 TYR C6144 LYS C6148 SITE 6 AC8 30 LEU C6171 PRO C6172 ILE C6174 ACT C6405 SITE 7 AC8 30 HOH C6504 HOH C6526 HOH C6527 HOH C6529 SITE 8 AC8 30 HOH C6533 HOH C6547 SITE 1 AC9 4 ASP C6017 ALA C6177 ALA C6178 TYR C6216 SITE 1 AD1 6 ARG C6159 LEU C6232 LEU C6235 ARG C6237 SITE 2 AD1 6 HOH C6522 HOH C6543 SITE 1 AD2 8 ARG A6159 GLN A6160 LYS A6161 GLY A6163 SITE 2 AD2 8 LEU C6207 GLN C6274 LYS C6275 ASN C6278 SITE 1 AD3 5 MET C6081 THR C6119 TYR C6144 NAD C6401 SITE 2 AD3 5 HOH C6502 CRYST1 90.074 133.095 55.606 90.00 90.00 90.00 P 21 21 2 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 0.011102 0.000000 0.000000 0.00000 SCALE2 0.000000 0.007513 0.000000 0.00000 SCALE3 0.000000 0.000000 0.017984 0.00000