HEADER OXIDOREDUCTASE 01-NOV-18 6I2Q TITLE CRYSTAL STRUCTURE OF THE WILD-TYPE SUCA DOMAIN OF MYCOBACTERIUM TITLE 2 SMEGMATIS KGD (ALPHA-KETOGLUTARATE DECARBOXYLASE), IN COMPLEX WITH TITLE 3 GARA COMPND MOL_ID: 1; COMPND 2 MOLECULE: MULTIFUNCTIONAL 2-OXOGLUTARATE METABOLISM ENZYME; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: 2-HYDROXY-3-OXOADIPATE SYNTHASE,HOAS,2-OXOGLUTARATE CARBOXY- COMPND 5 LYASE,2-OXOGLUTARATE DECARBOXYLASE,ALPHA-KETOGLUTARATE DECARBOXYLASE, COMPND 6 KGD,ALPHA-KETOGLUTARATE-GLYOXYLATE CARBOLIGASE; COMPND 7 EC: 2.2.1.5,4.1.1.71,1.2.4.2,2.3.1.61; COMPND 8 ENGINEERED: YES; COMPND 9 MOL_ID: 2; COMPND 10 MOLECULE: GLYCOGEN ACCUMULATION REGULATOR GARA; COMPND 11 CHAIN: B; COMPND 12 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: MYCOBACTERIUM SMEGMATIS (STRAIN ATCC 700084 / SOURCE 3 MC(2)155); SOURCE 4 ORGANISM_TAXID: 246196; SOURCE 5 STRAIN: ATCC 700084 / MC(2)155; SOURCE 6 GENE: KGD, SUCA, MSMEG_5049, MSMEI_4922; SOURCE 7 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 8 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 9 MOL_ID: 2; SOURCE 10 ORGANISM_SCIENTIFIC: MYCOBACTERIUM SMEGMATIS (STRAIN ATCC 700084 / SOURCE 11 MC(2)155); SOURCE 12 ORGANISM_TAXID: 246196; SOURCE 13 STRAIN: ATCC 700084 / MC(2)155; SOURCE 14 GENE: GARA, MSMEG_3647, MSMEI_3561; SOURCE 15 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 16 EXPRESSION_SYSTEM_TAXID: 469008 KEYWDS OXOGLUTARATE DEHYDROGENASE, DECARBOXYLASE, OXIDOREDUCTASE EXPDTA X-RAY DIFFRACTION AUTHOR T.WAGNER,M.BELLINZONI,P.M.ALZARI REVDAT 2 24-JAN-24 6I2Q 1 REMARK REVDAT 1 22-MAY-19 6I2Q 0 SPRSDE 22-MAY-19 6I2Q 2XT9 JRNL AUTH T.WAGNER,G.ANDRE-LEROUX,V.HINDIE,N.BARILONE,M.N.LISA,S.HOOS, JRNL AUTH 2 B.RAYNAL,B.VULLIEZ-LE NORMAND,H.M.O'HARE,M.BELLINZONI, JRNL AUTH 3 P.M.ALZARI JRNL TITL STRUCTURAL INSIGHTS INTO THE FUNCTIONAL VERSATILITY OF AN JRNL TITL 2 FHA DOMAIN PROTEIN IN MYCOBACTERIAL SIGNALING. JRNL REF SCI.SIGNAL. V. 12 2019 JRNL REFN ESSN 1937-9145 JRNL PMID 31064884 JRNL DOI 10.1126/SCISIGNAL.AAV9504 REMARK 2 REMARK 2 RESOLUTION. 2.15 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : BUSTER 2.10.3 REMARK 3 AUTHORS : BRICOGNE,BLANC,BRANDL,FLENSBURG,KELLER, REMARK 3 : PACIOREK,ROVERSI,SHARFF,SMART,VONRHEIN, REMARK 3 : WOMACK,MATTHEWS,TEN EYCK,TRONRUD REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.15 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 31.48 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 98.7 REMARK 3 NUMBER OF REFLECTIONS : 65660 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) : 0.165 REMARK 3 R VALUE (WORKING SET) : 0.163 REMARK 3 FREE R VALUE : 0.191 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.140 REMARK 3 FREE R VALUE TEST SET COUNT : 3372 REMARK 3 ESTIMATED ERROR OF FREE R VALUE : NULL REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 20 REMARK 3 BIN RESOLUTION RANGE HIGH (ANGSTROMS) : 2.15 REMARK 3 BIN RESOLUTION RANGE LOW (ANGSTROMS) : 2.21 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 98.21 REMARK 3 REFLECTIONS IN BIN (WORKING + TEST SET) : 4746 REMARK 3 BIN R VALUE (WORKING + TEST SET) : 0.2080 REMARK 3 REFLECTIONS IN BIN (WORKING SET) : 4464 REMARK 3 BIN R VALUE (WORKING SET) : 0.2051 REMARK 3 BIN FREE R VALUE : 0.2570 REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : 5.94 REMARK 3 BIN FREE R VALUE TEST SET COUNT : 282 REMARK 3 ESTIMATED ERROR OF BIN FREE R VALUE : NULL REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 7167 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 28 REMARK 3 SOLVENT ATOMS : 356 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 44.27 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 56.30 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -5.41620 REMARK 3 B22 (A**2) : 3.55790 REMARK 3 B33 (A**2) : 1.85820 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 COORDINATE ERROR. REMARK 3 ESD FROM LUZZATI PLOT (A) : 0.220 REMARK 3 DPI (BLOW EQ-10) BASED ON R VALUE (A) : 0.163 REMARK 3 DPI (BLOW EQ-9) BASED ON FREE R VALUE (A) : 0.139 REMARK 3 DPI (CRUICKSHANK) BASED ON R VALUE (A) : 0.162 REMARK 3 DPI (CRUICKSHANK) BASED ON FREE R VALUE (A) : 0.140 REMARK 3 REMARK 3 REFERENCES: BLOW, D. (2002) ACTA CRYST D58, 792-797 REMARK 3 CRUICKSHANK, D.W.J. (1999) ACTA CRYST D55, 583-601 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.960 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.953 REMARK 3 REMARK 3 NUMBER OF GEOMETRIC FUNCTION TERMS DEFINED : 15 REMARK 3 TERM COUNT WEIGHT FUNCTION. REMARK 3 BOND LENGTHS : 7354 ; 2.000 ; HARMONIC REMARK 3 BOND ANGLES : 9969 ; 2.000 ; HARMONIC REMARK 3 TORSION ANGLES : 3416 ; 2.000 ; SINUSOIDAL REMARK 3 TRIGONAL CARBON PLANES : NULL ; NULL ; NULL REMARK 3 GENERAL PLANES : 1294 ; 5.000 ; HARMONIC REMARK 3 ISOTROPIC THERMAL FACTORS : 7354 ; 20.000 ; HARMONIC REMARK 3 BAD NON-BONDED CONTACTS : 0 ; 5.000 ; SEMIHARMONIC REMARK 3 IMPROPER TORSIONS : NULL ; NULL ; NULL REMARK 3 PSEUDOROTATION ANGLES : NULL ; NULL ; NULL REMARK 3 CHIRAL IMPROPER TORSION : 944 ; 5.000 ; SEMIHARMONIC REMARK 3 SUM OF OCCUPANCIES : NULL ; NULL ; NULL REMARK 3 UTILITY DISTANCES : NULL ; NULL ; NULL REMARK 3 UTILITY ANGLES : NULL ; NULL ; NULL REMARK 3 UTILITY TORSION : NULL ; NULL ; NULL REMARK 3 IDEAL-DIST CONTACT TERM : 8762 ; 4.000 ; SEMIHARMONIC REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 BOND LENGTHS (A) : 0.010 REMARK 3 BOND ANGLES (DEGREES) : 0.99 REMARK 3 PEPTIDE OMEGA TORSION ANGLES (DEGREES) : 3.49 REMARK 3 OTHER TORSION ANGLES (DEGREES) : 2.68 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 3 REMARK 3 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: { A|361 - A|813 } REMARK 3 ORIGIN FOR THE GROUP (A): 53.1380 -15.8290 11.8610 REMARK 3 T TENSOR REMARK 3 T11: 0.1823 T22: 0.0482 REMARK 3 T33: 0.1710 T12: -0.0113 REMARK 3 T13: -0.0222 T23: 0.0425 REMARK 3 L TENSOR REMARK 3 L11: 0.9259 L22: 0.4488 REMARK 3 L33: 1.4643 L12: -0.1709 REMARK 3 L13: 0.0133 L23: -0.1992 REMARK 3 S TENSOR REMARK 3 S11: 0.0414 S12: -0.0781 S13: -0.1892 REMARK 3 S21: 0.0114 S22: -0.1117 S23: -0.0625 REMARK 3 S31: 0.2971 S32: 0.0929 S33: 0.0702 REMARK 3 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: { A|831 - A|2002 } REMARK 3 ORIGIN FOR THE GROUP (A): 19.2300 15.6890 13.0080 REMARK 3 T TENSOR REMARK 3 T11: 0.1574 T22: 0.3459 REMARK 3 T33: 0.1317 T12: 0.1764 REMARK 3 T13: 0.0573 T23: -0.0622 REMARK 3 L TENSOR REMARK 3 L11: 0.8793 L22: 0.5621 REMARK 3 L33: 2.1650 L12: 0.0161 REMARK 3 L13: -0.1474 L23: 0.2656 REMARK 3 S TENSOR REMARK 3 S11: 0.0881 S12: -0.1398 S13: 0.2012 REMARK 3 S21: 0.0942 S22: -0.0832 S23: 0.1275 REMARK 3 S31: -0.4921 S32: -0.7964 S33: -0.0049 REMARK 3 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: { B|51 - B|147 } REMARK 3 ORIGIN FOR THE GROUP (A): 50.4980 -31.9900 41.4220 REMARK 3 T TENSOR REMARK 3 T11: 0.4969 T22: 0.3448 REMARK 3 T33: 0.2950 T12: -0.0712 REMARK 3 T13: 0.0421 T23: 0.2777 REMARK 3 L TENSOR REMARK 3 L11: 4.2015 L22: 4.6489 REMARK 3 L33: 7.0496 L12: 1.7389 REMARK 3 L13: -0.4302 L23: -0.2646 REMARK 3 S TENSOR REMARK 3 S11: -0.1211 S12: -1.0595 S13: -0.6359 REMARK 3 S21: 0.2499 S22: -0.2406 S23: -0.0837 REMARK 3 S31: 1.1575 S32: 0.1205 S33: 0.3617 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 6I2Q COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 02-NOV-18. REMARK 100 THE DEPOSITION ID IS D_1200012716. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 29-MAY-09 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : NULL REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SOLEIL REMARK 200 BEAMLINE : PROXIMA 1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9800 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 315R REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : AIMLESS REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 65695 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.150 REMARK 200 RESOLUTION RANGE LOW (A) : 47.830 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 98.9 REMARK 200 DATA REDUNDANCY : 5.000 REMARK 200 R MERGE (I) : 0.06200 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 16.6000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.15 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.20 REMARK 200 COMPLETENESS FOR SHELL (%) : NULL REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : 0.74700 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: 2YIC REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 55.88 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.79 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 100 MM HEPES-NA PH 7.0, 50% MPD, VAPOR REMARK 280 DIFFUSION, HANGING DROP, TEMPERATURE 291K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: C 2 2 21 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 -X,Y,-Z+1/2 REMARK 290 4555 X,-Y,-Z REMARK 290 5555 X+1/2,Y+1/2,Z REMARK 290 6555 -X+1/2,-Y+1/2,Z+1/2 REMARK 290 7555 -X+1/2,Y+1/2,-Z+1/2 REMARK 290 8555 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 51.40400 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 51.40400 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 5 1.000000 0.000000 0.000000 70.62500 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 83.92300 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 6 -1.000000 0.000000 0.000000 70.62500 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 83.92300 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 51.40400 REMARK 290 SMTRY1 7 -1.000000 0.000000 0.000000 70.62500 REMARK 290 SMTRY2 7 0.000000 1.000000 0.000000 83.92300 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 51.40400 REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 70.62500 REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 83.92300 REMARK 290 SMTRY3 8 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: TETRAMERIC 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 350 APPLY THE FOLLOWING TO CHAINS: A, B REMARK 350 BIOMT1 2 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 350 BIOMT3 2 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 360 REMARK 465 ARG A 398 REMARK 465 SER A 399 REMARK 465 HIS A 400 REMARK 465 PRO A 401 REMARK 465 ASP A 402 REMARK 465 LEU A 403 REMARK 465 ASP A 404 REMARK 465 VAL A 405 REMARK 465 ASN A 406 REMARK 465 ASP A 422 REMARK 465 GLY A 423 REMARK 465 PHE A 424 REMARK 465 ALA A 425 REMARK 465 GLY A 426 REMARK 465 GLU A 562 REMARK 465 GLY A 563 REMARK 465 ASN A 564 REMARK 465 LEU A 565 REMARK 465 ASN A 566 REMARK 465 PRO A 567 REMARK 465 SER A 568 REMARK 465 GLN A 569 REMARK 465 ALA A 570 REMARK 465 HIS A 571 REMARK 465 GLY A 572 REMARK 465 SER A 573 REMARK 465 GLU A 814 REMARK 465 ILE A 815 REMARK 465 GLU A 816 REMARK 465 PRO A 817 REMARK 465 SER A 818 REMARK 465 GLU A 819 REMARK 465 SER A 820 REMARK 465 VAL A 821 REMARK 465 GLU A 822 REMARK 465 ALA A 823 REMARK 465 ASP A 824 REMARK 465 GLN A 825 REMARK 465 GLN A 826 REMARK 465 ILE A 827 REMARK 465 PRO A 828 REMARK 465 SER A 829 REMARK 465 LYS A 830 REMARK 465 GLY B 44 REMARK 465 SER B 45 REMARK 465 GLY B 46 REMARK 465 VAL B 47 REMARK 465 GLU B 48 REMARK 465 GLY B 49 REMARK 465 LEU B 50 REMARK 465 GLY B 148 REMARK 465 PRO B 149 REMARK 465 LYS B 150 REMARK 465 SER B 151 REMARK 465 ASP B 152 REMARK 465 ASP B 153 REMARK 465 SER B 154 REMARK 465 GLY B 155 REMARK 465 SER B 156 REMARK 465 ASN B 157 REMARK 465 ALA B 158 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 361 CG OD1 OD2 REMARK 470 GLU A 364 CG CD OE1 OE2 REMARK 470 ARG A 369 CG CD NE CZ NH1 NH2 REMARK 470 TRP A 413 CG CD1 CD2 NE1 CE2 CE3 CZ2 REMARK 470 TRP A 413 CZ3 CH2 REMARK 470 VAL A 427 CG1 CG2 REMARK 470 ARG A 429 CG CD NE CZ NH1 NH2 REMARK 470 LYS A 470 CG CD CE NZ REMARK 470 ASP A 472 CG OD1 OD2 REMARK 470 LYS A 473 CG CD CE NZ REMARK 470 LYS A 504 CG CD CE NZ REMARK 470 GLU A 560 CG CD OE1 OE2 REMARK 470 PHE A 561 CG CD1 CD2 CE1 CE2 CZ REMARK 470 LYS A 577 CG CD CE NZ REMARK 470 LYS A 772 CG CD CE NZ REMARK 470 LYS A 812 CG CD CE NZ REMARK 470 HIS A 813 CG ND1 CD2 CE1 NE2 REMARK 470 ARG A1106 CG CD NE CZ NH1 NH2 REMARK 470 LYS A1164 CG CD CE NZ REMARK 470 LYS A1212 CG CD CE NZ 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 THR A 395 3.07 -69.81 REMARK 500 ARG A 445 -118.69 -102.30 REMARK 500 TYR A 451 -15.26 -145.86 REMARK 500 ILE A 549 -55.83 -121.10 REMARK 500 PHE A 558 52.04 -104.29 REMARK 500 GLU A 607 -13.27 75.03 REMARK 500 PHE A 682 -101.41 63.04 REMARK 500 CYS A 741 -156.89 -150.18 REMARK 500 LYS A 812 30.74 -92.24 REMARK 500 PHE A 991 -62.34 -120.50 REMARK 500 THR A1021 -36.95 -136.95 REMARK 500 ARG A1024 61.64 60.92 REMARK 500 GLU A1034 122.39 -39.63 REMARK 500 LYS A1070 -80.25 -128.48 REMARK 500 ASP B 72 -2.81 -150.72 REMARK 500 HIS B 97 -60.52 -121.00 REMARK 500 REMARK 500 REMARK: NULL REMARK 620 REMARK 620 METAL COORDINATION REMARK 620 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 620 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE): REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG A2002 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 645 OD1 REMARK 620 2 ASN A 678 OD1 89.4 REMARK 620 3 ILE A 680 O 101.6 85.7 REMARK 620 4 TPP A2001 O1A 91.2 176.1 90.4 REMARK 620 5 TPP A2001 O1B 166.5 88.5 91.6 91.8 REMARK 620 6 HOH A2116 O 81.9 83.6 168.7 100.3 84.5 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CA A2003 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A1004 OD1 REMARK 620 2 ASP A1004 OD2 50.4 REMARK 620 3 HIS A1055 O 121.1 85.7 REMARK 620 4 ASP A1058 OD2 152.4 154.4 82.9 REMARK 620 5 ILE A1060 O 74.4 101.0 162.6 84.4 REMARK 620 6 HOH A2131 O 77.6 118.7 98.9 85.8 91.9 REMARK 620 7 HOH A2391 O 113.3 76.6 85.2 79.6 80.8 164.2 REMARK 620 N 1 2 3 4 5 6 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue TPP A 2001 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue MG A 2002 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue CA A 2003 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 2XT9 RELATED DB: PDB DBREF 6I2Q A 361 1227 UNP A0R2B1 KGD_MYCS2 361 1227 DBREF 6I2Q B 45 158 UNP A0QYG2 GARA_MYCS2 45 158 SEQADV 6I2Q GLY A 360 UNP A0R2B1 EXPRESSION TAG SEQADV 6I2Q GLY B 44 UNP A0QYG2 EXPRESSION TAG SEQRES 1 A 868 GLY ASP SER ILE GLU ASP LYS ASN ALA ARG VAL ILE GLU SEQRES 2 A 868 LEU ILE ALA ALA TYR ARG ASN ARG GLY HIS LEU MET ALA SEQRES 3 A 868 ASP ILE ASP PRO LEU ARG LEU ASP ASN THR ARG PHE ARG SEQRES 4 A 868 SER HIS PRO ASP LEU ASP VAL ASN SER HIS GLY LEU THR SEQRES 5 A 868 LEU TRP ASP LEU ASP ARG GLU PHE LYS VAL ASP GLY PHE SEQRES 6 A 868 ALA GLY VAL GLN ARG LYS LYS LEU ARG ASP ILE LEU SER SEQRES 7 A 868 VAL LEU ARG ASP ALA TYR CYS ARG HIS VAL GLY VAL GLU SEQRES 8 A 868 TYR THR HIS ILE LEU GLU PRO GLU GLN GLN ARG TRP ILE SEQRES 9 A 868 GLN GLU ARG VAL GLU THR LYS HIS ASP LYS PRO THR VAL SEQRES 10 A 868 ALA GLU GLN LYS TYR ILE LEU SER LYS LEU ASN ALA ALA SEQRES 11 A 868 GLU ALA PHE GLU THR PHE LEU GLN THR LYS TYR VAL GLY SEQRES 12 A 868 GLN LYS ARG PHE SER LEU GLU GLY ALA GLU THR VAL ILE SEQRES 13 A 868 PRO MET MET ASP ALA VAL ILE ASP GLN CYS ALA GLU HIS SEQRES 14 A 868 GLY LEU ASP GLU VAL VAL ILE ALA MET PRO HIS ARG GLY SEQRES 15 A 868 ARG LEU ASN VAL LEU ALA ASN ILE VAL GLY LYS PRO TYR SEQRES 16 A 868 SER GLN ILE PHE SER GLU PHE GLU GLY ASN LEU ASN PRO SEQRES 17 A 868 SER GLN ALA HIS GLY SER GLY ASP VAL LYS TYR HIS LEU SEQRES 18 A 868 GLY ALA THR GLY THR TYR ILE GLN MET PHE GLY ASP ASN SEQRES 19 A 868 ASP ILE GLU VAL SER LEU THR ALA ASN PRO SER HIS LEU SEQRES 20 A 868 GLU ALA VAL ASP PRO VAL LEU GLU GLY LEU VAL ARG ALA SEQRES 21 A 868 LYS GLN ASP LEU LEU ASP THR GLY GLU GLU GLY SER ASP SEQRES 22 A 868 ASN ARG PHE SER VAL VAL PRO LEU MET LEU HIS GLY ASP SEQRES 23 A 868 ALA ALA PHE ALA GLY GLN GLY VAL VAL ALA GLU THR LEU SEQRES 24 A 868 ASN LEU ALA LEU LEU ARG GLY TYR ARG THR GLY GLY THR SEQRES 25 A 868 ILE HIS ILE VAL VAL ASN ASN GLN ILE GLY PHE THR THR SEQRES 26 A 868 ALA PRO THR ASP SER ARG SER SER GLU TYR CYS THR ASP SEQRES 27 A 868 VAL ALA LYS MET ILE GLY ALA PRO ILE PHE HIS VAL ASN SEQRES 28 A 868 GLY ASP ASP PRO GLU ALA CYS ALA TRP VAL ALA ARG LEU SEQRES 29 A 868 ALA VAL ASP PHE ARG GLN ALA PHE LYS LYS ASP VAL VAL SEQRES 30 A 868 ILE ASP MET LEU CYS TYR ARG ARG ARG GLY HIS ASN GLU SEQRES 31 A 868 GLY ASP ASP PRO SER MET THR GLN PRO TYR MET TYR ASP SEQRES 32 A 868 VAL ILE ASP THR LYS ARG GLY SER ARG LYS ALA TYR THR SEQRES 33 A 868 GLU ALA LEU ILE GLY ARG GLY ASP ILE SER MET LYS GLU SEQRES 34 A 868 ALA GLU ASP ALA LEU ARG ASP TYR GLN GLY GLN LEU GLU SEQRES 35 A 868 ARG VAL PHE ASN GLU VAL ARG GLU LEU GLU LYS HIS GLU SEQRES 36 A 868 ILE GLU PRO SER GLU SER VAL GLU ALA ASP GLN GLN ILE SEQRES 37 A 868 PRO SER LYS LEU ALA THR ALA VAL ASP LYS ALA MET LEU SEQRES 38 A 868 GLN ARG ILE GLY ASP ALA HIS LEU ALA LEU PRO GLU GLY SEQRES 39 A 868 PHE THR VAL HIS PRO ARG VAL ARG PRO VAL LEU GLU LYS SEQRES 40 A 868 ARG ARG GLU MET ALA TYR GLU GLY ARG ILE ASP TRP ALA SEQRES 41 A 868 PHE ALA GLU LEU LEU ALA LEU GLY SER LEU ILE ALA GLU SEQRES 42 A 868 GLY LYS LEU VAL ARG LEU SER GLY GLN ASP THR GLN ARG SEQRES 43 A 868 GLY THR PHE THR GLN ARG HIS ALA VAL ILE VAL ASP ARG SEQRES 44 A 868 LYS THR GLY GLU GLU PHE THR PRO LEU GLN LEU LEU ALA SEQRES 45 A 868 THR ASN PRO ASP GLY THR PRO THR GLY GLY LYS PHE LEU SEQRES 46 A 868 VAL TYR ASN SER ALA LEU SER GLU PHE ALA ALA VAL GLY SEQRES 47 A 868 PHE GLU TYR GLY TYR SER VAL GLY ASN PRO ASP ALA MET SEQRES 48 A 868 VAL LEU TRP GLU ALA GLN PHE GLY ASP PHE VAL ASN GLY SEQRES 49 A 868 ALA GLN SER ILE ILE ASP GLU PHE ILE SER SER GLY GLU SEQRES 50 A 868 ALA LYS TRP GLY GLN LEU SER ASP VAL VAL LEU LEU LEU SEQRES 51 A 868 PRO HIS GLY HIS GLU GLY GLN GLY PRO ASP HIS THR SER SEQRES 52 A 868 GLY ARG ILE GLU ARG PHE LEU GLN LEU TRP ALA GLU GLY SEQRES 53 A 868 SER MET THR ILE ALA MET PRO SER THR PRO ALA ASN TYR SEQRES 54 A 868 PHE HIS LEU LEU ARG ARG HIS GLY LYS ASP GLY ILE GLN SEQRES 55 A 868 ARG PRO LEU ILE VAL PHE THR PRO LYS SER MET LEU ARG SEQRES 56 A 868 ASN LYS ALA ALA VAL SER ASP ILE ARG ASP PHE THR GLU SEQRES 57 A 868 SER LYS PHE ARG SER VAL LEU GLU GLU PRO MET TYR THR SEQRES 58 A 868 ASP GLY GLU GLY ASP ARG ASN LYS VAL THR ARG LEU LEU SEQRES 59 A 868 LEU THR SER GLY LYS ILE TYR TYR GLU LEU ALA ALA ARG SEQRES 60 A 868 LYS ALA LYS GLU ASN ARG GLU ASP VAL ALA ILE VAL ARG SEQRES 61 A 868 ILE GLU GLN LEU ALA PRO LEU PRO ARG ARG ARG LEU ALA SEQRES 62 A 868 GLU THR LEU ASP ARG TYR PRO ASN VAL LYS GLU LYS PHE SEQRES 63 A 868 TRP VAL GLN GLU GLU PRO ALA ASN GLN GLY ALA TRP PRO SEQRES 64 A 868 SER PHE GLY LEU THR LEU PRO GLU ILE LEU PRO ASP HIS SEQRES 65 A 868 PHE THR GLY LEU LYS ARG ILE SER ARG ARG ALA MET SER SEQRES 66 A 868 ALA PRO SER SER GLY SER SER LYS VAL HIS ALA VAL GLU SEQRES 67 A 868 GLN GLN GLU ILE LEU ASP THR ALA PHE GLY SEQRES 1 B 115 GLY SER GLY VAL GLU GLY LEU PRO SER GLY SER ALA LEU SEQRES 2 B 115 LEU VAL VAL LYS ARG GLY PRO ASN ALA GLY SER ARG PHE SEQRES 3 B 115 LEU LEU ASP GLN PRO THR THR SER ALA GLY ARG HIS PRO SEQRES 4 B 115 ASP SER ASP ILE PHE LEU ASP ASP VAL THR VAL SER ARG SEQRES 5 B 115 ARG HIS ALA GLU PHE ARG LEU GLU GLY GLY GLU PHE GLN SEQRES 6 B 115 VAL VAL ASP VAL GLY SER LEU ASN GLY THR TYR VAL ASN SEQRES 7 B 115 ARG GLU PRO VAL ASP SER ALA VAL LEU ALA ASN GLY ASP SEQRES 8 B 115 GLU VAL GLN ILE GLY LYS PHE ARG LEU VAL PHE LEU THR SEQRES 9 B 115 GLY PRO LYS SER ASP ASP SER GLY SER ASN ALA HET TPP A2001 26 HET MG A2002 1 HET CA A2003 1 HETNAM TPP THIAMINE DIPHOSPHATE HETNAM MG MAGNESIUM ION HETNAM CA CALCIUM ION FORMUL 3 TPP C12 H19 N4 O7 P2 S 1+ FORMUL 4 MG MG 2+ FORMUL 5 CA CA 2+ FORMUL 6 HOH *356(H2 O) HELIX 1 AA1 SER A 362 GLY A 381 1 20 HELIX 2 AA2 HIS A 382 ALA A 385 5 4 HELIX 3 AA3 ASP A 393 PHE A 397 5 5 HELIX 4 AA4 THR A 411 LEU A 415 5 5 HELIX 5 AA5 LEU A 432 CYS A 444 1 13 HELIX 6 AA6 GLU A 456 THR A 469 1 14 HELIX 7 AA7 THR A 475 TYR A 500 1 26 HELIX 8 AA8 GLN A 503 SER A 507 5 5 HELIX 9 AA9 THR A 513 HIS A 528 1 16 HELIX 10 AB1 GLY A 541 ILE A 549 1 9 HELIX 11 AB2 PRO A 553 PHE A 558 1 6 HELIX 12 AB3 ASP A 575 HIS A 579 5 5 HELIX 13 AB4 ALA A 608 LEU A 624 1 17 HELIX 14 AB5 ASP A 645 GLN A 651 1 7 HELIX 15 AB6 GLN A 651 ASN A 659 1 9 HELIX 16 AB7 ALA A 685 SER A 689 5 5 HELIX 17 AB8 THR A 696 GLY A 703 5 8 HELIX 18 AB9 ASP A 713 LYS A 732 1 20 HELIX 19 AC1 ASP A 752 THR A 756 5 5 HELIX 20 AC2 GLN A 757 ASP A 765 1 9 HELIX 21 AC3 GLY A 769 ARG A 781 1 13 HELIX 22 AC4 SER A 785 LYS A 812 1 28 HELIX 23 AC5 ASP A 836 HIS A 847 1 12 HELIX 24 AC6 VAL A 860 GLY A 874 1 15 HELIX 25 AC7 ASP A 877 GLU A 892 1 16 HELIX 26 AC8 THR A 925 THR A 932 5 8 HELIX 27 AC9 GLU A 952 ASN A 966 1 15 HELIX 28 AD1 PHE A 977 GLY A 983 5 7 HELIX 29 AD2 ALA A 984 PHE A 991 1 8 HELIX 30 AD3 SER A 994 GLY A 1000 1 7 HELIX 31 AD4 ARG A 1024 TRP A 1032 1 9 HELIX 32 AD5 THR A 1044 ASP A 1058 1 15 HELIX 33 AD6 LYS A 1070 ASN A 1075 5 6 HELIX 34 AD7 ILE A 1082 GLU A 1087 1 6 HELIX 35 AD8 GLU A 1096 ASP A 1101 1 6 HELIX 36 AD9 ASP A 1105 VAL A 1109 5 5 HELIX 37 AE1 LYS A 1118 GLU A 1130 1 13 HELIX 38 AE2 PRO A 1147 ASP A 1156 1 10 HELIX 39 AE3 ALA A 1176 LEU A 1188 1 13 HELIX 40 AE4 LEU A 1188 THR A 1193 1 6 HELIX 41 AE5 SER A 1210 PHE A 1226 1 17 SHEET 1 AA1 2 GLU A 418 LYS A 420 0 SHEET 2 AA1 2 ARG A 429 LYS A 431 -1 O LYS A 430 N PHE A 419 SHEET 1 AA2 8 VAL A 447 GLU A 450 0 SHEET 2 AA2 8 ILE A 706 ASN A 710 -1 O HIS A 708 N GLY A 448 SHEET 3 AA2 8 VAL A 735 LEU A 740 1 O ASP A 738 N PHE A 707 SHEET 4 AA2 8 ILE A 672 ASN A 677 1 N VAL A 675 O ILE A 737 SHEET 5 AA2 8 VAL A 637 GLY A 644 1 N HIS A 643 O VAL A 676 SHEET 6 AA2 8 GLU A 532 ALA A 536 1 N ALA A 536 O LEU A 642 SHEET 7 AA2 8 ASP A 594 LEU A 599 1 O SER A 598 N ILE A 535 SHEET 8 AA2 8 ALA A 582 ILE A 587 -1 N TYR A 586 O ILE A 595 SHEET 1 AA3 7 LYS A 942 ASN A 947 0 SHEET 2 AA3 7 LEU A 895 GLY A 900 1 N VAL A 896 O LEU A 944 SHEET 3 AA3 7 MET A 970 GLU A 974 1 O MET A 970 N ARG A 897 SHEET 4 AA3 7 VAL A1006 PRO A1010 1 O LEU A1008 N TRP A 973 SHEET 5 AA3 7 LEU A1064 THR A1068 1 O VAL A1066 N LEU A1009 SHEET 6 AA3 7 THR A1038 ALA A1040 1 N ALA A1040 O ILE A1065 SHEET 7 AA3 7 GLN A1142 ALA A1144 -1 O ALA A1144 N ILE A1039 SHEET 1 AA4 2 ILE A 915 VAL A 916 0 SHEET 2 AA4 2 GLU A 923 PHE A 924 -1 O PHE A 924 N ILE A 915 SHEET 1 AA5 5 VAL A1093 LEU A1094 0 SHEET 2 AA5 5 VAL A1135 ILE A1140 -1 O ARG A1139 N LEU A1094 SHEET 3 AA5 5 ARG A1111 THR A1115 1 N LEU A1113 O VAL A1138 SHEET 4 AA5 5 GLU A1163 PRO A1171 1 O VAL A1167 N LEU A1114 SHEET 5 AA5 5 LYS A1196 ARG A1200 1 O LYS A1196 N TRP A1166 SHEET 1 AA6 6 ARG B 68 LEU B 71 0 SHEET 2 AA6 6 ALA B 55 ARG B 61 -1 N ALA B 55 O LEU B 71 SHEET 3 AA6 6 PHE B 141 LEU B 146 -1 O ARG B 142 N LYS B 60 SHEET 4 AA6 6 GLU B 135 ILE B 138 -1 N VAL B 136 O LEU B 143 SHEET 5 AA6 6 THR B 118 VAL B 120 -1 N TYR B 119 O GLN B 137 SHEET 6 AA6 6 GLU B 123 VAL B 125 -1 O GLU B 123 N VAL B 120 SHEET 1 AA7 5 ILE B 86 PHE B 87 0 SHEET 2 AA7 5 THR B 75 GLY B 79 1 N SER B 77 O ILE B 86 SHEET 3 AA7 5 ALA B 98 GLU B 103 -1 O ALA B 98 N ALA B 78 SHEET 4 AA7 5 GLU B 106 ASP B 111 -1 O GLN B 108 N ARG B 101 SHEET 5 AA7 5 SER B 127 LEU B 130 -1 O LEU B 130 N PHE B 107 LINK OD1 ASP A 645 MG MG A2002 1555 1555 2.02 LINK OD1 ASN A 678 MG MG A2002 1555 1555 2.08 LINK O ILE A 680 MG MG A2002 1555 1555 2.15 LINK OD1 ASP A1004 CA CA A2003 1555 1555 2.63 LINK OD2 ASP A1004 CA CA A2003 1555 1555 2.56 LINK O HIS A1055 CA CA A2003 1555 1555 2.24 LINK OD2 ASP A1058 CA CA A2003 1555 1555 2.47 LINK O ILE A1060 CA CA A2003 1555 1555 2.21 LINK O1A TPP A2001 MG MG A2002 1555 1555 2.02 LINK O1B TPP A2001 MG MG A2002 1555 1555 2.26 LINK MG MG A2002 O HOH A2116 1555 1555 2.16 LINK CA CA A2003 O HOH A2131 1555 1555 2.43 LINK CA CA A2003 O HOH A2391 1555 1555 2.54 CISPEP 1 ALA A 1144 PRO A 1145 0 -4.77 SITE 1 AC1 23 ARG A 540 SER A 604 HIS A 605 LEU A 606 SITE 2 AC1 23 GLY A 644 ASP A 645 ALA A 646 ALA A 647 SITE 3 AC1 23 GLN A 651 ASN A 678 ILE A 680 GLY A 681 SITE 4 AC1 23 HIS A 747 GLN A 901 LEU A 950 GLU A 952 SITE 5 AC1 23 GLN A 976 PHE A 980 MG A2002 HOH A2116 SITE 6 AC1 23 HOH A2174 HOH A2245 HOH A2246 SITE 1 AC2 5 ASP A 645 ASN A 678 ILE A 680 TPP A2001 SITE 2 AC2 5 HOH A2116 SITE 1 AC3 6 ASP A1004 HIS A1055 ASP A1058 ILE A1060 SITE 2 AC3 6 HOH A2131 HOH A2391 CRYST1 141.250 167.846 102.808 90.00 90.00 90.00 C 2 2 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 0.007080 0.000000 0.000000 0.00000 SCALE2 0.000000 0.005958 0.000000 0.00000 SCALE3 0.000000 0.000000 0.009727 0.00000