HEADER LYASE 07-JUN-10 3NDO TITLE CRYSTAL STRUCTURE OF DEOXYRIBOSE PHOSPHATE ALDOLASE FROM MYCOBACTERIUM TITLE 2 SMEGMATIS COMPND MOL_ID: 1; COMPND 2 MOLECULE: DEOXYRIBOSE-PHOSPHATE ALDOLASE; COMPND 3 CHAIN: A, B; COMPND 4 EC: 4.1.2.4; COMPND 5 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: MYCOBACTERIUM SMEGMATIS; SOURCE 3 ORGANISM_TAXID: 1772; SOURCE 4 GENE: DEOC, MSMEG_0922; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 7 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 9 EXPRESSION_SYSTEM_PLASMID: AVA0421 KEYWDS SSGCID, NIH, NIAID, SBRI, UW, EMERALD BIOSTRUCTURES, ALS KEYWDS 2 COLLABORATIVE CRYSTALLOGRAPHY, DEOXYRIBOSEPHOSPHATE ALDOLASE, KEYWDS 3 MYCOBACTERIUM SMEGMATIS, STRUCTURAL GENOMICS, SEATTLE STRUCTURAL KEYWDS 4 GENOMICS CENTER FOR INFECTIOUS DISEASE, LYASE EXPDTA X-RAY DIFFRACTION AUTHOR SSGCID,SEATTLE STRUCTURAL GENOMICS CENTER FOR INFECTIOUS DISEASE AUTHOR 2 (SSGCID) REVDAT 4 06-SEP-23 3NDO 1 REMARK SEQADV REVDAT 3 24-JAN-18 3NDO 1 AUTHOR REVDAT 2 22-APR-15 3NDO 1 JRNL VERSN REVDAT 1 21-JUL-10 3NDO 0 JRNL AUTH L.BAUGH,I.PHAN,D.W.BEGLEY,M.C.CLIFTON,B.ARMOUR,D.M.DRANOW, JRNL AUTH 2 B.M.TAYLOR,M.M.MURUTHI,J.ABENDROTH,J.W.FAIRMAN,D.FOX, JRNL AUTH 3 S.H.DIETERICH,B.L.STAKER,A.S.GARDBERG,R.CHOI,S.N.HEWITT, JRNL AUTH 4 A.J.NAPULI,J.MYERS,L.K.BARRETT,Y.ZHANG,M.FERRELL,E.MUNDT, JRNL AUTH 5 K.THOMPKINS,N.TRAN,S.LYONS-ABBOTT,A.ABRAMOV,A.SEKAR, JRNL AUTH 6 D.SERBZHINSKIY,D.LORIMER,G.W.BUCHKO,R.STACY,L.J.STEWART, JRNL AUTH 7 T.E.EDWARDS,W.C.VAN VOORHIS,P.J.MYLER JRNL TITL INCREASING THE STRUCTURAL COVERAGE OF TUBERCULOSIS DRUG JRNL TITL 2 TARGETS. JRNL REF TUBERCULOSIS (EDINB) V. 95 142 2015 JRNL REFN ISSN 1472-9792 JRNL PMID 25613812 JRNL DOI 10.1016/J.TUBE.2014.12.003 REMARK 2 REMARK 2 RESOLUTION. 1.25 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.5.0109 REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN REMARK 3 REMARK 3 REFINEMENT TARGET : MAXIMUM LIKELIHOOD REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.25 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 33.47 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.8 REMARK 3 NUMBER OF REFLECTIONS : 119884 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) : 0.124 REMARK 3 R VALUE (WORKING SET) : 0.123 REMARK 3 FREE R VALUE : 0.144 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 6012 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) : 1.25 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.28 REMARK 3 REFLECTION IN BIN (WORKING SET) : 8454 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 99.77 REMARK 3 BIN R VALUE (WORKING SET) : 0.1460 REMARK 3 BIN FREE R VALUE SET COUNT : 407 REMARK 3 BIN FREE R VALUE : 0.1810 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 3082 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 37 REMARK 3 SOLVENT ATOMS : 543 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 14.38 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 7.91 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.19000 REMARK 3 B22 (A**2) : -0.13000 REMARK 3 B33 (A**2) : -0.06000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : -0.17000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): NULL REMARK 3 ESU BASED ON FREE R VALUE (A): 0.033 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.018 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 0.833 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.978 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.973 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 3198 ; 0.018 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): 2019 ; 0.001 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 4365 ; 1.773 ; 1.984 REMARK 3 BOND ANGLES OTHERS (DEGREES): 4990 ; 1.090 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 465 ; 6.117 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 91 ;29.638 ;23.626 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 464 ;10.465 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 19 ;16.428 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 556 ; 0.118 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 3660 ; 0.010 ; 0.021 REMARK 3 GENERAL PLANES OTHERS (A): 593 ; 0.005 ; 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): 2247 ; 2.243 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 935 ; 2.154 ; 1.500 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 3561 ; 2.995 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 951 ; 4.084 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 795 ; 5.939 ; 4.500 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): 3156 ; 2.051 ; 3.000 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 : MASK REMARK 3 PARAMETERS FOR MASK CALCULATION REMARK 3 VDW PROBE RADIUS : 1.40 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 REMARK 4 REMARK 4 3NDO COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 08-JUN-10. REMARK 100 THE DEPOSITION ID IS D_1000059698. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 29-MAY-10 REMARK 200 TEMPERATURE (KELVIN) : 100.0 REMARK 200 PH : 5.50 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : ALS REMARK 200 BEAMLINE : 5.0.2 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9795 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 315 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : XSCALE REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 119986 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.250 REMARK 200 RESOLUTION RANGE LOW (A) : 33.470 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : -3.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.8 REMARK 200 DATA REDUNDANCY : 4.300 REMARK 200 R MERGE (I) : 0.07300 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 14.1900 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.25 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.28 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : 4.30 REMARK 200 R MERGE FOR SHELL (I) : 0.52000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> FOR SHELL : 5.000 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MR, MR REMARK 200 SOFTWARE USED: PHASER REMARK 200 STARTING MODEL: 1J2W REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 49.43 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.43 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: JCSG SCREEN CONDITION H10: 100MM BIS REMARK 280 -TRIS PH 5.5, 25% PEG 3350, 200 MM AMMONIUM ACETATE; PROTEIN AT REMARK 280 4.6 MG/ML, VAPOR DIFFUSION, SITTING DROP, TEMPERATURE 290K, PH REMARK 280 5.50 REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 1 21 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,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 36.60000 REMARK 290 SMTRY3 2 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: 3660 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 16170 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -21.0 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 GLY A -3 REMARK 465 PRO A -2 REMARK 465 GLY A -1 REMARK 465 SER A 0 REMARK 465 MET A 1 REMARK 465 THR A 2 REMARK 465 GLY B -3 REMARK 465 PRO B -2 REMARK 465 GLY B -1 REMARK 465 SER B 0 REMARK 465 MET B 1 REMARK 465 THR B 2 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 ASP A 3 CG OD1 OD2 REMARK 470 ARG A 122 CG CD NE CZ NH1 NH2 REMARK 470 GLU A 185 CG CD OE1 OE2 REMARK 470 GLU A 199 CG CD OE1 OE2 REMARK 470 ASP B 3 CG OD1 OD2 REMARK 470 LYS B 19 CG CD CE NZ REMARK 470 GLU B 185 CG CD OE1 OE2 REMARK 470 GLU B 199 CG CD OE1 OE2 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 NZ LYS A 160 C01 UNL A 301 1.29 REMARK 500 NZ LYS B 160 C01 UNL B 301 1.32 REMARK 500 O HOH A 288 O HOH A 537 2.00 REMARK 500 O HOH A 480 O HOH A 519 2.15 REMARK 500 O HOH A 366 O HOH A 522 2.17 REMARK 500 O HOH A 339 O HOH A 552 2.18 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND LENGTHS 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,2(A3,1X,A1,I4,A1,1X,A4,3X),1X,F6.3) 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 RES CSSEQI ATM2 DEVIATION REMARK 500 SER A 50 CB SER A 50 OG -0.082 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 152 CD - NE - CZ ANGL. DEV. = 11.4 DEGREES REMARK 500 ARG A 152 NE - CZ - NH2 ANGL. DEV. = -4.1 DEGREES REMARK 500 CYS B 43 CA - CB - SG ANGL. DEV. = 7.7 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 A 139 -72.24 -136.29 REMARK 500 SER B 139 -70.32 -139.50 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 NH4 A 228 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL A 229 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL A 230 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL B 228 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL B 229 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: MYSMA.00289.B RELATED DB: TARGETDB DBREF 3NDO A 1 227 UNP A0QQY7 A0QQY7_MYCS2 1 227 DBREF 3NDO B 1 227 UNP A0QQY7 A0QQY7_MYCS2 1 227 SEQADV 3NDO GLY A -3 UNP A0QQY7 EXPRESSION TAG SEQADV 3NDO PRO A -2 UNP A0QQY7 EXPRESSION TAG SEQADV 3NDO GLY A -1 UNP A0QQY7 EXPRESSION TAG SEQADV 3NDO SER A 0 UNP A0QQY7 EXPRESSION TAG SEQADV 3NDO GLY B -3 UNP A0QQY7 EXPRESSION TAG SEQADV 3NDO PRO B -2 UNP A0QQY7 EXPRESSION TAG SEQADV 3NDO GLY B -1 UNP A0QQY7 EXPRESSION TAG SEQADV 3NDO SER B 0 UNP A0QQY7 EXPRESSION TAG SEQRES 1 A 231 GLY PRO GLY SER MET THR ASP HIS THR ARG ALA GLN VAL SEQRES 2 A 231 ALA ALA LEU VAL ASP HIS THR LEU LEU LYS PRO GLU ALA SEQRES 3 A 231 THR PRO SER ASP VAL THR ALA LEU VAL ASP GLU ALA ALA SEQRES 4 A 231 ASP LEU GLY VAL PHE ALA VAL CYS VAL SER PRO PRO LEU SEQRES 5 A 231 VAL SER VAL ALA ALA GLY VAL ALA PRO SER GLY LEU ALA SEQRES 6 A 231 ILE ALA ALA VAL ALA GLY PHE PRO SER GLY LYS HIS VAL SEQRES 7 A 231 PRO GLY ILE LYS ALA THR GLU ALA GLU LEU ALA VAL ALA SEQRES 8 A 231 ALA GLY ALA THR GLU ILE ASP MET VAL ILE ASP VAL GLY SEQRES 9 A 231 ALA ALA LEU ALA GLY ASP LEU ASP ALA VAL SER ALA ASP SEQRES 10 A 231 ILE THR ALA VAL ARG LYS ALA VAL ARG ALA ALA THR LEU SEQRES 11 A 231 LYS VAL ILE VAL GLU SER ALA ALA LEU LEU GLU PHE SER SEQRES 12 A 231 GLY GLU PRO LEU LEU ALA ASP VAL CYS ARG VAL ALA ARG SEQRES 13 A 231 ASP ALA GLY ALA ASP PHE VAL LYS THR SER THR GLY PHE SEQRES 14 A 231 HIS PRO SER GLY GLY ALA SER VAL GLN ALA VAL GLU ILE SEQRES 15 A 231 MET ALA ARG THR VAL GLY GLU ARG LEU GLY VAL LYS ALA SEQRES 16 A 231 SER GLY GLY ILE ARG THR ALA GLU GLN ALA ALA ALA MET SEQRES 17 A 231 LEU ASP ALA GLY ALA THR ARG LEU GLY LEU SER GLY SER SEQRES 18 A 231 ARG ALA VAL LEU ASP GLY PHE GLY SER ALA SEQRES 1 B 231 GLY PRO GLY SER MET THR ASP HIS THR ARG ALA GLN VAL SEQRES 2 B 231 ALA ALA LEU VAL ASP HIS THR LEU LEU LYS PRO GLU ALA SEQRES 3 B 231 THR PRO SER ASP VAL THR ALA LEU VAL ASP GLU ALA ALA SEQRES 4 B 231 ASP LEU GLY VAL PHE ALA VAL CYS VAL SER PRO PRO LEU SEQRES 5 B 231 VAL SER VAL ALA ALA GLY VAL ALA PRO SER GLY LEU ALA SEQRES 6 B 231 ILE ALA ALA VAL ALA GLY PHE PRO SER GLY LYS HIS VAL SEQRES 7 B 231 PRO GLY ILE LYS ALA THR GLU ALA GLU LEU ALA VAL ALA SEQRES 8 B 231 ALA GLY ALA THR GLU ILE ASP MET VAL ILE ASP VAL GLY SEQRES 9 B 231 ALA ALA LEU ALA GLY ASP LEU ASP ALA VAL SER ALA ASP SEQRES 10 B 231 ILE THR ALA VAL ARG LYS ALA VAL ARG ALA ALA THR LEU SEQRES 11 B 231 LYS VAL ILE VAL GLU SER ALA ALA LEU LEU GLU PHE SER SEQRES 12 B 231 GLY GLU PRO LEU LEU ALA ASP VAL CYS ARG VAL ALA ARG SEQRES 13 B 231 ASP ALA GLY ALA ASP PHE VAL LYS THR SER THR GLY PHE SEQRES 14 B 231 HIS PRO SER GLY GLY ALA SER VAL GLN ALA VAL GLU ILE SEQRES 15 B 231 MET ALA ARG THR VAL GLY GLU ARG LEU GLY VAL LYS ALA SEQRES 16 B 231 SER GLY GLY ILE ARG THR ALA GLU GLN ALA ALA ALA MET SEQRES 17 B 231 LEU ASP ALA GLY ALA THR ARG LEU GLY LEU SER GLY SER SEQRES 18 B 231 ARG ALA VAL LEU ASP GLY PHE GLY SER ALA HET NH4 A 228 1 HET UNL A 301 6 HET GOL A 229 6 HET GOL A 230 6 HET UNL B 301 6 HET GOL B 228 6 HET GOL B 229 12 HETNAM NH4 AMMONIUM ION HETNAM UNL UNKNOWN LIGAND HETNAM GOL GLYCEROL HETSYN GOL GLYCERIN; PROPANE-1,2,3-TRIOL FORMUL 3 NH4 H4 N 1+ FORMUL 5 GOL 4(C3 H8 O3) FORMUL 10 HOH *543(H2 O) HELIX 1 1 THR A 5 ALA A 11 1 7 HELIX 2 2 THR A 23 GLY A 38 1 16 HELIX 3 3 SER A 45 PRO A 47 5 3 HELIX 4 4 LEU A 48 ALA A 56 1 9 HELIX 5 5 VAL A 74 ALA A 88 1 15 HELIX 6 6 ASP A 98 ALA A 104 1 7 HELIX 7 7 ASP A 106 VAL A 121 1 16 HELIX 8 8 GLU A 131 SER A 139 1 9 HELIX 9 9 GLY A 140 ALA A 154 1 15 HELIX 10 10 SER A 172 GLY A 184 1 13 HELIX 11 11 THR A 197 ALA A 207 1 11 HELIX 12 12 GLY A 216 GLY A 225 1 10 HELIX 13 13 THR B 5 ALA B 11 1 7 HELIX 14 14 THR B 23 GLY B 38 1 16 HELIX 15 15 SER B 45 PRO B 47 5 3 HELIX 16 16 LEU B 48 ALA B 56 1 9 HELIX 17 17 VAL B 74 ALA B 88 1 15 HELIX 18 18 ASP B 98 ALA B 104 1 7 HELIX 19 19 ASP B 106 VAL B 121 1 16 HELIX 20 20 GLU B 131 SER B 139 1 9 HELIX 21 21 GLY B 140 ALA B 154 1 15 HELIX 22 22 SER B 172 GLY B 184 1 13 HELIX 23 23 THR B 197 ALA B 207 1 11 HELIX 24 24 GLY B 216 GLY B 223 1 8 SHEET 1 A 9 VAL A 13 THR A 16 0 SHEET 2 A 9 ALA A 41 VAL A 44 1 O ALA A 41 N HIS A 15 SHEET 3 A 9 ALA A 61 ALA A 66 1 O ALA A 63 N VAL A 42 SHEET 4 A 9 GLU A 92 VAL A 96 1 O ASP A 94 N ALA A 64 SHEET 5 A 9 THR A 125 ILE A 129 1 O ILE A 129 N MET A 95 SHEET 6 A 9 PHE A 158 LYS A 160 1 O LYS A 160 N VAL A 128 SHEET 7 A 9 GLY A 188 SER A 192 1 O LYS A 190 N VAL A 159 SHEET 8 A 9 ARG A 211 LEU A 214 1 O GLY A 213 N ALA A 191 SHEET 9 A 9 VAL A 13 THR A 16 1 N ASP A 14 O LEU A 212 SHEET 1 B 9 VAL B 13 THR B 16 0 SHEET 2 B 9 ALA B 41 VAL B 44 1 O ALA B 41 N HIS B 15 SHEET 3 B 9 ALA B 61 ALA B 66 1 O ALA B 63 N VAL B 42 SHEET 4 B 9 GLU B 92 VAL B 96 1 O ASP B 94 N ALA B 64 SHEET 5 B 9 THR B 125 ILE B 129 1 O ILE B 129 N MET B 95 SHEET 6 B 9 PHE B 158 LYS B 160 1 O LYS B 160 N VAL B 128 SHEET 7 B 9 GLY B 188 SER B 192 1 O LYS B 190 N VAL B 159 SHEET 8 B 9 ARG B 211 LEU B 214 1 O GLY B 213 N ALA B 191 SHEET 9 B 9 VAL B 13 THR B 16 1 N ASP B 14 O LEU B 212 CISPEP 1 PHE A 68 PRO A 69 0 3.87 CISPEP 2 PHE B 68 PRO B 69 0 1.43 SITE 1 AC1 1 HOH A 431 SITE 1 AC2 4 PRO A 142 ASP A 146 ARG A 149 HOH A 462 SITE 1 AC3 3 GLU A 137 SER A 139 HOH A 421 SITE 1 AC4 5 PRO B 142 ASP B 146 ARG B 149 HOH B 402 SITE 2 AC4 5 HOH B 525 SITE 1 AC5 6 ALA B 156 ASP B 157 ARG B 186 LEU B 187 SITE 2 AC5 6 HOH B 286 HOH B 333 CRYST1 46.980 73.200 64.380 90.00 91.00 90.00 P 1 21 1 4 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 0.021286 0.000000 0.000373 0.00000 SCALE2 0.000000 0.013661 0.000000 0.00000 SCALE3 0.000000 0.000000 0.015535 0.00000