HEADER LYASE 13-MAR-09 3GMA TITLE GLUTACONYL-COA DECARBOXYLASE A SUBUNIT FROM CLOSTRIDIUM SYMBIOSUM CO- TITLE 2 CRYSTALLIZED WITH GLUTARYL-COA COMPND MOL_ID: 1; COMPND 2 MOLECULE: GLUTACONYL-COA DECARBOXYLASE SUBUNIT A; COMPND 3 CHAIN: A, B; COMPND 4 EC: 4.1.1.70; COMPND 5 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: CLOSTRIDIUM SYMBIOSUM; SOURCE 3 ORGANISM_TAXID: 1512; SOURCE 4 STRAIN: HB25; SOURCE 5 GENE: GCDA; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: ROSETTA (DE3)PLYSS; SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PASK-IBA7PLUS KEYWDS GLUTACONYL-COA DECARBOXYLASE, SODIUM ION TRANSPORT, BIOTIN, GLUTAMATE KEYWDS 2 FERMENTATION, LYASE EXPDTA X-RAY DIFFRACTION AUTHOR D.KRESS,D.BRUGEL,W.BUCKEL,L.-O.ESSEN REVDAT 3 01-NOV-23 3GMA 1 REMARK REVDAT 2 05-FEB-14 3GMA 1 JRNL VERSN REVDAT 1 28-JUL-09 3GMA 0 JRNL AUTH D.KRESS,D.BRUGEL,I.SCHALL,D.LINDER,W.BUCKEL,L.-O.ESSEN JRNL TITL AN ASYMMETRIC MODEL FOR NA+-TRANSLOCATING GLUTACONYL-COA JRNL TITL 2 DECARBOXYLASES JRNL REF J.BIOL.CHEM. V. 284 28401 2009 JRNL REFN ISSN 0021-9258 JRNL PMID 19654317 JRNL DOI 10.1074/JBC.M109.037762 REMARK 2 REMARK 2 RESOLUTION. 2.60 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 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) : 2.60 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 68.52 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.5 REMARK 3 NUMBER OF REFLECTIONS : 61000 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) : 0.189 REMARK 3 R VALUE (WORKING SET) : 0.189 REMARK 3 FREE R VALUE : 0.209 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 1.100 REMARK 3 FREE R VALUE TEST SET COUNT : 700 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) : 2.60 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.66 REMARK 3 REFLECTION IN BIN (WORKING SET) : 4154 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 92.73 REMARK 3 BIN R VALUE (WORKING SET) : 0.3010 REMARK 3 BIN FREE R VALUE SET COUNT : 55 REMARK 3 BIN FREE R VALUE : 0.2700 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 8692 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 112 REMARK 3 SOLVENT ATOMS : 352 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 36.74 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.30000 REMARK 3 B22 (A**2) : -0.30000 REMARK 3 B33 (A**2) : 0.45000 REMARK 3 B12 (A**2) : -0.15000 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): 0.303 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.211 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.152 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 7.099 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.938 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.933 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 9014 ; 0.008 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 12241 ; 1.144 ; 1.983 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 1122 ; 5.476 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 401 ;37.809 ;25.112 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 1494 ;14.350 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 40 ;15.597 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 1326 ; 0.077 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 6892 ; 0.003 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 4433 ; 0.192 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 6202 ; 0.302 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 551 ; 0.109 ; 0.200 REMARK 3 H-BOND (X...Y) OTHERS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW REFINED ATOMS (A): 180 ; 0.168 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 40 ; 0.097 ; 0.200 REMARK 3 SYMMETRY H-BOND OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 MAIN-CHAIN BOND REFINED ATOMS (A**2): 5732 ; 0.476 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 9015 ; 0.825 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 3723 ; 0.945 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 3224 ; 1.563 ; 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): NULL ; NULL ; NULL REMARK 3 SPHERICITY; FREE ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; BONDED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 NCS RESTRAINTS STATISTICS REMARK 3 NUMBER OF DIFFERENT NCS GROUPS : 1 REMARK 3 REMARK 3 NCS GROUP NUMBER : 1 REMARK 3 CHAIN NAMES : B A REMARK 3 NUMBER OF COMPONENTS NCS GROUP : 2 REMARK 3 COMPONENT C SSSEQI TO C SSSEQI CODE REMARK 3 1 B 3 B 379 1 REMARK 3 1 A 3 A 379 1 REMARK 3 2 B 382 B 586 1 REMARK 3 2 A 382 A 586 1 REMARK 3 GROUP CHAIN COUNT RMS WEIGHT REMARK 3 TIGHT POSITIONAL 1 B (A): 4303 ; 0.02 ; 0.05 REMARK 3 TIGHT THERMAL 1 B (A**2): 4303 ; 0.05 ; 0.50 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 : 1.20 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 REMARK 4 REMARK 4 3GMA COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 19-MAR-09. REMARK 100 THE DEPOSITION ID IS D_1000052037. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 11-SEP-08 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : NULL REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : N REMARK 200 RADIATION SOURCE : ROTATING ANODE REMARK 200 BEAMLINE : NULL REMARK 200 X-RAY GENERATOR MODEL : ENRAF-NONIUS FR591 REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.54179 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : IMAGE PLATE REMARK 200 DETECTOR MANUFACTURER : MAR SCANNER 345 MM PLATE REMARK 200 INTENSITY-INTEGRATION SOFTWARE : MOSFLM REMARK 200 DATA SCALING SOFTWARE : SCALA 3.2.25 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 61822 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.594 REMARK 200 RESOLUTION RANGE LOW (A) : 70.711 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 98.7 REMARK 200 DATA REDUNDANCY : 6.500 REMARK 200 R MERGE (I) : 0.10300 REMARK 200 R SYM (I) : 0.10300 REMARK 200 FOR THE DATA SET : 6.7380 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.59 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.73 REMARK 200 COMPLETENESS FOR SHELL (%) : 91.4 REMARK 200 DATA REDUNDANCY IN SHELL : 6.10 REMARK 200 R MERGE FOR SHELL (I) : 0.45500 REMARK 200 R SYM FOR SHELL (I) : 0.45500 REMARK 200 FOR SHELL : 1.700 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: 1PIX REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 69.35 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 4.01 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: CO-CRYSTALLIZED WITH SUBSTRATE REMARK 280 ANALOGON GLUTARYL-COA, VAPOR DIFFUSION, HANGING DROP REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 31 2 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -Y,X-Y,Z+1/3 REMARK 290 3555 -X+Y,-X,Z+2/3 REMARK 290 4555 Y,X,-Z REMARK 290 5555 X-Y,-Y,-Z+2/3 REMARK 290 6555 -X,-X+Y,-Z+1/3 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 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 2 0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 47.13433 REMARK 290 SMTRY1 3 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 3 -0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 94.26867 REMARK 290 SMTRY1 4 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 4 0.866025 0.500000 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 0.00000 REMARK 290 SMTRY2 5 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 94.26867 REMARK 290 SMTRY1 6 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 6 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 47.13433 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 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TETRAMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 30200 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 69870 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -148.0 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 350 BIOMT1 2 -0.500000 -0.866025 0.000000 0.00000 REMARK 350 BIOMT2 2 -0.866025 0.500000 0.000000 0.00000 REMARK 350 BIOMT3 2 0.000000 0.000000 -1.000000 -94.26867 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 1 REMARK 465 ASN A 2 REMARK 465 GLY A 221 REMARK 465 ILE A 222 REMARK 465 LEU A 223 REMARK 465 SER A 224 REMARK 465 GLY A 225 REMARK 465 MET A 226 REMARK 465 ASN A 227 REMARK 465 PRO A 228 REMARK 465 LYS A 229 REMARK 465 GLY A 230 REMARK 465 TYR A 231 REMARK 465 ILE A 232 REMARK 465 ASP A 233 REMARK 465 ASP A 234 REMARK 465 GLU A 235 REMARK 465 LEU A 502 REMARK 465 VAL A 503 REMARK 465 LYS A 504 REMARK 465 ALA A 505 REMARK 465 LYS A 506 REMARK 465 LYS A 507 REMARK 465 ALA A 508 REMARK 465 GLY A 509 REMARK 465 GLU A 510 REMARK 465 ASP A 511 REMARK 465 LEU A 512 REMARK 465 GLY A 587 REMARK 465 LYS A 588 REMARK 465 MET B 1 REMARK 465 ASN B 2 REMARK 465 ILE B 222 REMARK 465 LEU B 223 REMARK 465 SER B 224 REMARK 465 GLY B 225 REMARK 465 MET B 226 REMARK 465 ASN B 227 REMARK 465 PRO B 228 REMARK 465 LYS B 229 REMARK 465 GLY B 230 REMARK 465 TYR B 231 REMARK 465 ILE B 232 REMARK 465 LYS B 506 REMARK 465 LYS B 507 REMARK 465 ALA B 508 REMARK 465 GLY B 509 REMARK 465 GLU B 510 REMARK 465 ASP B 511 REMARK 465 LEU B 512 REMARK 465 GLY B 587 REMARK 465 LYS B 588 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 238 CG CD OE1 OE2 REMARK 470 GLN A 244 CG CD OE1 NE2 REMARK 470 GLU A 246 CG CD OE1 OE2 REMARK 470 LYS A 249 CG CD CE NZ REMARK 470 GLU B 238 CG CD OE1 OE2 REMARK 470 GLN B 239 CG CD OE1 NE2 REMARK 470 GLU B 246 CG CD OE1 OE2 REMARK 470 LYS B 249 CG CD CE NZ REMARK 470 LYS B 251 CE NZ REMARK 470 LYS B 501 CG CD CE NZ REMARK 470 VAL B 503 CG1 CG2 REMARK 470 LYS B 504 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 ASN A 85 65.88 -158.59 REMARK 500 ASN A 149 77.97 -154.41 REMARK 500 ASN A 164 166.64 87.33 REMARK 500 ARG A 166 64.06 -117.39 REMARK 500 ALA A 195 -105.82 54.17 REMARK 500 ILE A 260 -61.13 -90.46 REMARK 500 GLU A 264 -63.91 -95.69 REMARK 500 ASN A 336 19.30 57.21 REMARK 500 TYR A 390 -169.29 -118.54 REMARK 500 GLU A 430 11.63 84.37 REMARK 500 ARG A 455 -87.69 -136.74 REMARK 500 ALA A 459 -163.04 54.93 REMARK 500 ASN B 85 64.64 -159.24 REMARK 500 ASN B 149 76.62 -155.56 REMARK 500 ASN B 164 167.90 87.31 REMARK 500 ARG B 166 60.03 -118.12 REMARK 500 ALA B 195 -103.82 52.87 REMARK 500 GLU B 264 -63.13 -99.87 REMARK 500 ASP B 335 126.43 -38.48 REMARK 500 ASN B 336 18.93 57.38 REMARK 500 TYR B 390 -167.90 -119.65 REMARK 500 GLU B 430 13.77 81.39 REMARK 500 ARG B 455 -86.86 -137.67 REMARK 500 ALA B 459 -163.73 54.39 REMARK 500 ASN B 564 61.83 -150.01 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 GRA A 589 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GRA B 589 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 3GF3 RELATED DB: PDB REMARK 900 GLUTACONYL-COA DECARBOXYLASE A SUBUNIT FROM CLOSTRIDIUM SYMBIOSUM REMARK 900 CO-CRYSTALLIZED WITH GLUTACONYL-COA REMARK 900 RELATED ID: 3GF7 RELATED DB: PDB REMARK 900 GLUTACONYL-COA DECARBOXYLASE A SUBUNIT FROM CLOSTRIDIUM SYMBIOSUM REMARK 900 APOPROTEIN REMARK 900 RELATED ID: 3GLM RELATED DB: PDB REMARK 900 GLUTACONYL-COA DECARBOXYLASE A SUBUNIT FROM CLOSTRIDIUM SYMBIOSUM REMARK 900 CO-CRYSTALLIZED WITH CROTONYL-COA DBREF 3GMA A 1 588 UNP B7TVP1 B7TVP1_CLOSY 1 588 DBREF 3GMA B 1 588 UNP B7TVP1 B7TVP1_CLOSY 1 588 SEQRES 1 A 588 MET ASN MET TYR SER MET PRO GLY TYR PHE GLN ASN MET SEQRES 2 A 588 PRO THR ILE GLY LYS GLU LEU VAL ASN PRO ASN PRO GLU SEQRES 3 A 588 ASN GLU GLN GLU ILE LYS ALA VAL GLU SER ASP ILE HIS SEQRES 4 A 588 GLU SER ILE LYS LYS ALA LEU ASP ALA GLY ILE THR SER SEQRES 5 A 588 GLU GLU LYS LEU ASN GLU ARG GLY GLN LEU SER ALA MET SEQRES 6 A 588 GLN ARG ILE ASN ALA LEU ILE ASP PRO GLY THR TRP CYS SEQRES 7 A 588 PRO LEU ASN SER LEU PHE ASN PRO GLU ASN ASN LYS PHE SEQRES 8 A 588 GLY THR THR ASN ILE VAL ASN GLY LEU GLY ARG VAL ASP SEQRES 9 A 588 GLY LYS TRP VAL TYR ILE VAL ALA SER ASP ASN LYS LYS SEQRES 10 A 588 MET ALA GLY ALA TRP VAL PRO GLY GLN ALA GLU ASN LEU SEQRES 11 A 588 ILE ARG CYS SER ASP ALA ALA LYS MET MET HIS LEU PRO SEQRES 12 A 588 LEU ILE TYR LEU LEU ASN CYS SER GLY VAL GLU PHE PRO SEQRES 13 A 588 ASN GLN ASP LYS VAL TYR PRO ASN ARG ARG GLY GLY GLY SEQRES 14 A 588 THR PRO PHE PHE ARG ASN SER GLU LEU ASN GLN LEU GLY SEQRES 15 A 588 ILE PRO VAL ILE VAL GLY ILE TYR GLY THR ASN PRO ALA SEQRES 16 A 588 GLY GLY GLY TYR HIS SER ILE SER PRO THR ILE LEU ILE SEQRES 17 A 588 ALA HIS GLN ASP ALA ASN MET ALA VAL GLY GLY ALA GLY SEQRES 18 A 588 ILE LEU SER GLY MET ASN PRO LYS GLY TYR ILE ASP ASP SEQRES 19 A 588 GLU ALA ALA GLU GLN ILE ILE ALA ALA GLN ILE GLU ASN SEQRES 20 A 588 SER LYS LEU LYS VAL PRO ALA PRO GLY SER VAL PRO ILE SEQRES 21 A 588 HIS TYR ASP GLU THR GLY PHE PHE ARG GLU VAL TYR GLN SEQRES 22 A 588 ASN ASP LEU GLY VAL ILE ASP GLY ILE LYS LYS TYR ILE SEQRES 23 A 588 SER TYR LEU PRO ALA TYR ASN LEU GLU PHE PHE ARG VAL SEQRES 24 A 588 ASP THR PRO LYS ALA PRO GLN LEU PRO ALA GLU ASP LEU SEQRES 25 A 588 TYR SER ILE ILE PRO MET ASN GLN LYS ARG PRO TYR ASP SEQRES 26 A 588 ILE TYR GLU VAL ILE ALA ARG LEU PHE ASP ASN SER GLU SEQRES 27 A 588 PHE SER GLU TYR LYS LYS GLY TYR GLY PRO GLU MET VAL SEQRES 28 A 588 THR GLY LEU ALA LYS VAL ASN GLY LEU LEU VAL GLY VAL SEQRES 29 A 588 ILE ALA ASN VAL GLN GLY LEU LEU MET ASN TYR PRO GLU SEQRES 30 A 588 TYR LYS GLN ASN SER VAL GLY ILE GLY GLY LYS LEU TYR SEQRES 31 A 588 ARG GLN GLY LEU ILE LYS MET ASN GLU PHE VAL THR LEU SEQRES 32 A 588 CYS ALA ARG ASP ARG ILE PRO LEU ILE TRP LEU GLN ASP SEQRES 33 A 588 THR THR GLY ILE ASP VAL GLY ASP GLU ALA GLU LYS ALA SEQRES 34 A 588 GLU LEU LEU GLY LEU GLY GLN SER LEU ILE TYR SER ILE SEQRES 35 A 588 GLU ASN SER LYS LEU PRO SER LEU GLU ILE THR ILE ARG SEQRES 36 A 588 LYS ALA SER ALA ALA ALA HIS TYR VAL LEU GLY GLY PRO SEQRES 37 A 588 GLN GLY ASN ASN THR ASN VAL PHE SER ILE GLY THR GLY SEQRES 38 A 588 ALA CYS GLU TYR TYR VAL MET PRO GLY GLU THR ALA ALA SEQRES 39 A 588 ASN ALA MET TYR SER ARG LYS LEU VAL LYS ALA LYS LYS SEQRES 40 A 588 ALA GLY GLU ASP LEU GLN PRO ILE ILE GLY LYS MET ASN SEQRES 41 A 588 ASP MET ILE GLN MET TYR THR ASP LYS SER ARG PRO LYS SEQRES 42 A 588 TYR CYS THR GLU LYS GLY MET VAL ASP GLU ILE VAL ASP SEQRES 43 A 588 MET THR GLU VAL ARG PRO TYR ILE GLN ALA PHE THR GLU SEQRES 44 A 588 ALA ALA TYR GLN ASN PRO GLN SER ILE CYS PRO MET HIS SEQRES 45 A 588 GLN MET LEU THR PRO ARG SER THR ARG GLU PHE GLU THR SEQRES 46 A 588 PHE GLY LYS SEQRES 1 B 588 MET ASN MET TYR SER MET PRO GLY TYR PHE GLN ASN MET SEQRES 2 B 588 PRO THR ILE GLY LYS GLU LEU VAL ASN PRO ASN PRO GLU SEQRES 3 B 588 ASN GLU GLN GLU ILE LYS ALA VAL GLU SER ASP ILE HIS SEQRES 4 B 588 GLU SER ILE LYS LYS ALA LEU ASP ALA GLY ILE THR SER SEQRES 5 B 588 GLU GLU LYS LEU ASN GLU ARG GLY GLN LEU SER ALA MET SEQRES 6 B 588 GLN ARG ILE ASN ALA LEU ILE ASP PRO GLY THR TRP CYS SEQRES 7 B 588 PRO LEU ASN SER LEU PHE ASN PRO GLU ASN ASN LYS PHE SEQRES 8 B 588 GLY THR THR ASN ILE VAL ASN GLY LEU GLY ARG VAL ASP SEQRES 9 B 588 GLY LYS TRP VAL TYR ILE VAL ALA SER ASP ASN LYS LYS SEQRES 10 B 588 MET ALA GLY ALA TRP VAL PRO GLY GLN ALA GLU ASN LEU SEQRES 11 B 588 ILE ARG CYS SER ASP ALA ALA LYS MET MET HIS LEU PRO SEQRES 12 B 588 LEU ILE TYR LEU LEU ASN CYS SER GLY VAL GLU PHE PRO SEQRES 13 B 588 ASN GLN ASP LYS VAL TYR PRO ASN ARG ARG GLY GLY GLY SEQRES 14 B 588 THR PRO PHE PHE ARG ASN SER GLU LEU ASN GLN LEU GLY SEQRES 15 B 588 ILE PRO VAL ILE VAL GLY ILE TYR GLY THR ASN PRO ALA SEQRES 16 B 588 GLY GLY GLY TYR HIS SER ILE SER PRO THR ILE LEU ILE SEQRES 17 B 588 ALA HIS GLN ASP ALA ASN MET ALA VAL GLY GLY ALA GLY SEQRES 18 B 588 ILE LEU SER GLY MET ASN PRO LYS GLY TYR ILE ASP ASP SEQRES 19 B 588 GLU ALA ALA GLU GLN ILE ILE ALA ALA GLN ILE GLU ASN SEQRES 20 B 588 SER LYS LEU LYS VAL PRO ALA PRO GLY SER VAL PRO ILE SEQRES 21 B 588 HIS TYR ASP GLU THR GLY PHE PHE ARG GLU VAL TYR GLN SEQRES 22 B 588 ASN ASP LEU GLY VAL ILE ASP GLY ILE LYS LYS TYR ILE SEQRES 23 B 588 SER TYR LEU PRO ALA TYR ASN LEU GLU PHE PHE ARG VAL SEQRES 24 B 588 ASP THR PRO LYS ALA PRO GLN LEU PRO ALA GLU ASP LEU SEQRES 25 B 588 TYR SER ILE ILE PRO MET ASN GLN LYS ARG PRO TYR ASP SEQRES 26 B 588 ILE TYR GLU VAL ILE ALA ARG LEU PHE ASP ASN SER GLU SEQRES 27 B 588 PHE SER GLU TYR LYS LYS GLY TYR GLY PRO GLU MET VAL SEQRES 28 B 588 THR GLY LEU ALA LYS VAL ASN GLY LEU LEU VAL GLY VAL SEQRES 29 B 588 ILE ALA ASN VAL GLN GLY LEU LEU MET ASN TYR PRO GLU SEQRES 30 B 588 TYR LYS GLN ASN SER VAL GLY ILE GLY GLY LYS LEU TYR SEQRES 31 B 588 ARG GLN GLY LEU ILE LYS MET ASN GLU PHE VAL THR LEU SEQRES 32 B 588 CYS ALA ARG ASP ARG ILE PRO LEU ILE TRP LEU GLN ASP SEQRES 33 B 588 THR THR GLY ILE ASP VAL GLY ASP GLU ALA GLU LYS ALA SEQRES 34 B 588 GLU LEU LEU GLY LEU GLY GLN SER LEU ILE TYR SER ILE SEQRES 35 B 588 GLU ASN SER LYS LEU PRO SER LEU GLU ILE THR ILE ARG SEQRES 36 B 588 LYS ALA SER ALA ALA ALA HIS TYR VAL LEU GLY GLY PRO SEQRES 37 B 588 GLN GLY ASN ASN THR ASN VAL PHE SER ILE GLY THR GLY SEQRES 38 B 588 ALA CYS GLU TYR TYR VAL MET PRO GLY GLU THR ALA ALA SEQRES 39 B 588 ASN ALA MET TYR SER ARG LYS LEU VAL LYS ALA LYS LYS SEQRES 40 B 588 ALA GLY GLU ASP LEU GLN PRO ILE ILE GLY LYS MET ASN SEQRES 41 B 588 ASP MET ILE GLN MET TYR THR ASP LYS SER ARG PRO LYS SEQRES 42 B 588 TYR CYS THR GLU LYS GLY MET VAL ASP GLU ILE VAL ASP SEQRES 43 B 588 MET THR GLU VAL ARG PRO TYR ILE GLN ALA PHE THR GLU SEQRES 44 B 588 ALA ALA TYR GLN ASN PRO GLN SER ILE CYS PRO MET HIS SEQRES 45 B 588 GLN MET LEU THR PRO ARG SER THR ARG GLU PHE GLU THR SEQRES 46 B 588 PHE GLY LYS HET GRA A 589 56 HET GRA B 589 56 HETNAM GRA GLUTARYL-COENZYME A FORMUL 3 GRA 2(C26 H42 N7 O19 P3 S) FORMUL 5 HOH *352(H2 O) HELIX 1 1 MET A 6 GLN A 11 1 6 HELIX 2 2 ASN A 24 ALA A 48 1 25 HELIX 3 3 SER A 52 ARG A 59 1 8 HELIX 4 4 SER A 63 ILE A 72 1 10 HELIX 5 5 LYS A 117 ALA A 121 5 5 HELIX 6 6 GLY A 125 HIS A 141 1 17 HELIX 7 7 GLU A 154 PRO A 156 5 3 HELIX 8 8 ASN A 157 TYR A 162 1 6 HELIX 9 9 GLY A 169 LEU A 181 1 13 HELIX 10 10 ALA A 195 SER A 203 1 9 HELIX 11 11 ALA A 236 LYS A 251 1 16 HELIX 12 12 SER A 257 TYR A 262 1 6 HELIX 13 13 ASN A 274 LEU A 289 1 16 HELIX 14 14 ASN A 293 ARG A 298 5 6 HELIX 15 15 PRO A 308 GLU A 310 5 3 HELIX 16 16 ASP A 311 ILE A 316 1 6 HELIX 17 17 ASP A 325 PHE A 334 1 10 HELIX 18 18 ASP A 335 GLU A 338 5 4 HELIX 19 19 TYR A 390 ASP A 407 1 18 HELIX 20 20 GLY A 423 ALA A 429 1 7 HELIX 21 21 GLU A 430 LYS A 446 1 17 HELIX 22 22 ALA A 460 LEU A 465 1 6 HELIX 23 23 PRO A 489 SER A 499 1 11 HELIX 24 24 GLN A 513 LYS A 529 1 17 HELIX 25 25 ARG A 531 LYS A 538 1 8 HELIX 26 26 ASP A 546 THR A 548 5 3 HELIX 27 27 GLU A 549 TYR A 562 1 14 HELIX 28 28 PRO A 570 MET A 574 5 5 HELIX 29 29 LEU A 575 PHE A 586 1 12 HELIX 30 30 MET B 6 GLN B 11 1 6 HELIX 31 31 ASN B 24 ALA B 48 1 25 HELIX 32 32 SER B 52 ARG B 59 1 8 HELIX 33 33 SER B 63 ILE B 72 1 10 HELIX 34 34 LYS B 117 ALA B 121 5 5 HELIX 35 35 GLY B 125 HIS B 141 1 17 HELIX 36 36 GLU B 154 PRO B 156 5 3 HELIX 37 37 ASN B 157 TYR B 162 1 6 HELIX 38 38 GLY B 169 LEU B 181 1 13 HELIX 39 39 ALA B 195 SER B 203 1 9 HELIX 40 40 ASP B 233 LYS B 251 1 19 HELIX 41 41 SER B 257 TYR B 262 1 6 HELIX 42 42 ASN B 274 LEU B 289 1 16 HELIX 43 43 ASN B 293 ARG B 298 5 6 HELIX 44 44 PRO B 308 GLU B 310 5 3 HELIX 45 45 ASP B 311 ILE B 316 1 6 HELIX 46 46 ASP B 325 PHE B 334 1 10 HELIX 47 47 ASP B 335 GLU B 338 5 4 HELIX 48 48 TYR B 390 ASP B 407 1 18 HELIX 49 49 GLY B 423 ALA B 429 1 7 HELIX 50 50 GLU B 430 LYS B 446 1 17 HELIX 51 51 ALA B 460 LEU B 465 1 6 HELIX 52 52 PRO B 489 SER B 499 1 11 HELIX 53 53 ARG B 500 ALA B 505 1 6 HELIX 54 54 GLN B 513 LYS B 529 1 17 HELIX 55 55 ARG B 531 LYS B 538 1 8 HELIX 56 56 ASP B 546 THR B 548 5 3 HELIX 57 57 GLU B 549 TYR B 562 1 14 HELIX 58 58 PRO B 570 MET B 574 5 5 HELIX 59 59 LEU B 575 PHE B 586 1 12 SHEET 1 A 7 CYS A 78 LEU A 80 0 SHEET 2 A 7 ILE A 96 VAL A 103 -1 O LEU A 100 N CYS A 78 SHEET 3 A 7 LYS A 106 SER A 113 -1 O LYS A 106 N VAL A 103 SHEET 4 A 7 LEU A 144 LEU A 148 1 O ILE A 145 N TYR A 109 SHEET 5 A 7 VAL A 185 ILE A 189 1 O GLY A 188 N TYR A 146 SHEET 6 A 7 ILE A 206 HIS A 210 1 O ILE A 208 N ILE A 189 SHEET 7 A 7 GLU A 270 TYR A 272 1 O GLU A 270 N ALA A 209 SHEET 1 B 2 THR A 192 PRO A 194 0 SHEET 2 B 2 ASN A 214 ALA A 216 1 O ALA A 216 N ASN A 193 SHEET 1 C 7 SER A 340 GLU A 341 0 SHEET 2 C 7 MET A 350 VAL A 357 -1 O LEU A 354 N SER A 340 SHEET 3 C 7 LEU A 360 ASN A 367 -1 O VAL A 364 N GLY A 353 SHEET 4 C 7 LEU A 411 GLN A 415 1 O ILE A 412 N GLY A 363 SHEET 5 C 7 SER A 449 THR A 453 1 O ILE A 452 N TRP A 413 SHEET 6 C 7 ASN A 474 GLY A 479 1 O ILE A 478 N THR A 453 SHEET 7 C 7 GLU A 543 ILE A 544 1 O GLU A 543 N GLY A 479 SHEET 1 D 2 LEU A 371 LEU A 372 0 SHEET 2 D 2 GLY A 384 ILE A 385 -1 O GLY A 384 N LEU A 372 SHEET 1 E 2 LYS A 388 LEU A 389 0 SHEET 2 E 2 GLY A 419 ILE A 420 1 O GLY A 419 N LEU A 389 SHEET 1 F 2 LYS A 456 SER A 458 0 SHEET 2 F 2 GLU A 484 TYR A 486 1 O GLU A 484 N ALA A 457 SHEET 1 G 7 CYS B 78 LEU B 80 0 SHEET 2 G 7 ILE B 96 VAL B 103 -1 O LEU B 100 N CYS B 78 SHEET 3 G 7 LYS B 106 SER B 113 -1 O LYS B 106 N VAL B 103 SHEET 4 G 7 LEU B 144 LEU B 148 1 O ILE B 145 N TYR B 109 SHEET 5 G 7 VAL B 185 ILE B 189 1 O GLY B 188 N TYR B 146 SHEET 6 G 7 ILE B 206 HIS B 210 1 O ILE B 208 N ILE B 189 SHEET 7 G 7 GLU B 270 TYR B 272 1 O GLU B 270 N ALA B 209 SHEET 1 H 2 THR B 192 PRO B 194 0 SHEET 2 H 2 ASN B 214 ALA B 216 1 O ALA B 216 N ASN B 193 SHEET 1 I 7 SER B 340 GLU B 341 0 SHEET 2 I 7 MET B 350 VAL B 357 -1 O LEU B 354 N SER B 340 SHEET 3 I 7 LEU B 360 ASN B 367 -1 O ALA B 366 N VAL B 351 SHEET 4 I 7 LEU B 411 GLN B 415 1 O LEU B 414 N ILE B 365 SHEET 5 I 7 SER B 449 THR B 453 1 O ILE B 452 N TRP B 413 SHEET 6 I 7 ASN B 474 GLY B 479 1 O ILE B 478 N THR B 453 SHEET 7 I 7 GLU B 543 ILE B 544 1 O GLU B 543 N GLY B 479 SHEET 1 J 2 LEU B 371 MET B 373 0 SHEET 2 J 2 VAL B 383 ILE B 385 -1 O GLY B 384 N LEU B 372 SHEET 1 K 2 LYS B 388 LEU B 389 0 SHEET 2 K 2 GLY B 419 ILE B 420 1 O GLY B 419 N LEU B 389 SHEET 1 L 2 LYS B 456 SER B 458 0 SHEET 2 L 2 GLU B 484 TYR B 486 1 O GLU B 484 N ALA B 457 CISPEP 1 TYR A 375 PRO A 376 0 -0.59 CISPEP 2 ALA B 220 GLY B 221 0 -0.77 CISPEP 3 TYR B 375 PRO B 376 0 -1.11 SITE 1 AC1 19 ILE A 50 THR A 51 MET A 118 SER A 151 SITE 2 AC1 19 GLY A 152 VAL A 153 GLU A 154 PHE A 155 SITE 3 AC1 19 THR A 192 PRO A 194 ALA A 195 GLY A 196 SITE 4 AC1 19 ALA A 459 ALA A 460 VAL A 487 MET A 497 SITE 5 AC1 19 ARG A 500 LYS A 501 HOH A 747 SITE 1 AC2 13 MET B 118 SER B 151 GLY B 152 VAL B 153 SITE 2 AC2 13 GLU B 154 PHE B 155 ALA B 195 GLY B 196 SITE 3 AC2 13 ALA B 459 ALA B 460 VAL B 487 ARG B 500 SITE 4 AC2 13 HOH B 732 CRYST1 156.472 156.472 141.403 90.00 90.00 120.00 P 31 2 1 12 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 0.006391 0.003690 0.000000 0.00000 SCALE2 0.000000 0.007380 0.000000 0.00000 SCALE3 0.000000 0.000000 0.007072 0.00000