10 20 30 40 50 60 70 80 1RQH - Header ----|----|----|----|----|----|----|----|----|----|----|----|----|----|----|----| Asymmetric UnitHEADER TRANSFERASE 05-DEC-03 1RQH
TITLE PROPIONIBACTERIUM SHERMANII TRANSCARBOXYLASE 5S SUBUNIT BOUND TO TITLE 2 PYRUVIC ACID
COMPND MOL_ID: 1; COMPND 2 MOLECULE: TRANSCARBOXYLASE 5S SUBUNIT; COMPND 3 CHAIN: A; COMPND 4 EC: 2.1.3.1; COMPND 5 ENGINEERED: YES; COMPND 6 OTHER_DETAILS: RESIDUE 184 EXISTS IN TWO ALTERNATE CONFORMATIONS: COMPND 7 KCX AND LYS
SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: PROPIONIBACTERIUM FREUDENREICHII SUBSP. SOURCE 3 SHERMANII; SOURCE 4 ORGANISM_TAXID: 1752; SOURCE 5 STRAIN: SUBSP. SHERMANII; SOURCE 6 GENE: 5S; SOURCE 7 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 8 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 9 EXPRESSION_SYSTEM_STRAIN: TUNER(DE3)PLACI; SOURCE 10 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 11 EXPRESSION_SYSTEM_PLASMID: PETBLUE-2
KEYWDS TIM-BARREL, CARBAMYLATED LYSINE, TRANSCARBOXYLASE, COBALT, PYRUVIC KEYWDS 2 ACID, TRANSFERASE
EXPDTA X-RAY DIFFRACTION
AUTHOR P.R.HALL,R.ZHENG,L.ANTONY,M.PUSZTAI-CAREY,P.R.CAREY,V.C.YEE
REVDAT 4 16-NOV-11 1RQH 1 VERSN HETATM REVDAT 3 24-FEB-09 1RQH 1 VERSN REVDAT 2 28-SEP-04 1RQH 1 JRNL REVDAT 1 07-SEP-04 1RQH 0
JRNL AUTH P.R.HALL,R.ZHENG,L.ANTONY,M.PUSZTAI-CAREY,P.R.CAREY,V.C.YEE JRNL TITL TRANSCARBOXYLASE 5S STRUCTURES: ASSEMBLY AND CATALYTIC JRNL TITL 2 MECHANISM OF A MULTIENZYME COMPLEX SUBUNIT. JRNL REF EMBO J. V. 23 3621 2004 JRNL REFN ISSN 0261-4189 JRNL PMID 15329673 JRNL DOI 10.1038/SJ.EMBOJ.7600373
REMARK 1 REMARK 1 REFERENCE 1 REMARK 1 AUTH P.R.HALL,R.ZHENG,M.PUSZTAI-CAREY,F.VAN DEN AKKER,P.R.CAREY, REMARK 1 AUTH 2 V.C.YEE REMARK 1 TITL EXPRESSION AND CRYSTALLIZATION OF SEVERAL FORMS OF THE REMARK 1 TITL 2 PROPIONIBACTERIUM SHERMANII TRANSCARBOXYLASE 5S SUBUNIT. REMARK 1 REF ACTA CRYSTALLOGR.,SECT.D V. 60 521 2004 REMARK 1 REFN ISSN 0907-4449 REMARK 1 PMID 14993680 REMARK 1 DOI 10.1107/S0907444903028294
REMARK 2 REMARK 2 RESOLUTION. 2.00 ANGSTROMS.
REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : CNS 1.1 REMARK 3 AUTHORS : BRUNGER,ADAMS,CLORE,DELANO,GROS,GROSSE- REMARK 3 : KUNSTLEVE,JIANG,KUSZEWSKI,NILGES,PANNU, REMARK 3 : READ,RICE,SIMONSON,WARREN REMARK 3 REMARK 3 REFINEMENT TARGET : ENGH & HUBER REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.00 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 28.09 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 DATA CUTOFF HIGH (ABS(F)) : 370661.430 REMARK 3 DATA CUTOFF LOW (ABS(F)) : 0.0000 REMARK 3 COMPLETENESS (WORKING+TEST) (%) : 92.6 REMARK 3 NUMBER OF REFLECTIONS : 34906 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 SET) : 0.164 REMARK 3 FREE R VALUE : 0.197 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.700 REMARK 3 FREE R VALUE TEST SET COUNT : 1657 REMARK 3 ESTIMATED ERROR OF FREE R VALUE : 0.005 REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 6 REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 2.00 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.13 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 82.20 REMARK 3 REFLECTIONS IN BIN (WORKING SET) : 4845 REMARK 3 BIN R VALUE (WORKING SET) : 0.2060 REMARK 3 BIN FREE R VALUE : 0.2440 REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : 5.10 REMARK 3 BIN FREE R VALUE TEST SET COUNT : 260 REMARK 3 ESTIMATED ERROR OF BIN FREE R VALUE : 0.015 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 3665 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 7 REMARK 3 SOLVENT ATOMS : 415 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 17.20 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 32.60 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.18000 REMARK 3 B22 (A**2) : 0.13000 REMARK 3 B33 (A**2) : -0.31000 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) : 0.19 REMARK 3 ESD FROM SIGMAA (A) : 0.15 REMARK 3 LOW RESOLUTION CUTOFF (A) : 5.00 REMARK 3 REMARK 3 CROSS-VALIDATED ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM C-V LUZZATI PLOT (A) : 0.23 REMARK 3 ESD FROM C-V SIGMAA (A) : 0.19 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 BOND LENGTHS (A) : 0.007 REMARK 3 BOND ANGLES (DEGREES) : 1.20 REMARK 3 DIHEDRAL ANGLES (DEGREES) : 22.80 REMARK 3 IMPROPER ANGLES (DEGREES) : 1.01 REMARK 3 REMARK 3 ISOTROPIC THERMAL MODEL : RESTRAINED REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. RMS SIGMA REMARK 3 MAIN-CHAIN BOND (A**2) : 1.930 ; 3.000 REMARK 3 MAIN-CHAIN ANGLE (A**2) : 2.580 ; 3.500 REMARK 3 SIDE-CHAIN BOND (A**2) : 3.280 ; 3.500 REMARK 3 SIDE-CHAIN ANGLE (A**2) : 4.420 ; 4.000 REMARK 3 REMARK 3 BULK SOLVENT MODELING. REMARK 3 METHOD USED : FLAT MODEL REMARK 3 KSOL : 0.32 REMARK 3 BSOL : 49.05 REMARK 3 REMARK 3 NCS MODEL : NULL REMARK 3 REMARK 3 NCS RESTRAINTS. RMS SIGMA/WEIGHT REMARK 3 GROUP 1 POSITIONAL (A) : NULL ; NULL REMARK 3 GROUP 1 B-FACTOR (A**2) : NULL ; NULL REMARK 3 REMARK 3 PARAMETER FILE 1 : PROTEIN_REP2.PARAM REMARK 3 PARAMETER FILE 2 : ION.PARAM REMARK 3 PARAMETER FILE 3 : WATER_REP.PARAM REMARK 3 PARAMETER FILE 4 : LIG_DUNDEE.PAR REMARK 3 PARAMETER FILE 5 : NULL REMARK 3 TOPOLOGY FILE 1 : PROTEIN.TOP REMARK 3 TOPOLOGY FILE 2 : LIG_DUNDEE.TOP REMARK 3 TOPOLOGY FILE 3 : NULL REMARK 3 TOPOLOGY FILE 4 : NULL REMARK 3 TOPOLOGY FILE 5 : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: RESIDUE 184 EXISTS IN TWO ALTERNATE REMARK 3 CONFORMATIONS: KCX AND LYS.
REMARK 4 REMARK 4 1RQH COMPLIES WITH FORMAT V. 3.15, 01-DEC-08
REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 10-DEC-03. REMARK 100 THE RCSB ID CODE IS RCSB020955.
REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 22-MAY-03 REMARK 200 TEMPERATURE (KELVIN) : 95 REMARK 200 PH : 7.0 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 : RIGAKU RUH3R REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.5418 REMARK 200 MONOCHROMATOR : YALE MIRRORS REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : IMAGE PLATE REMARK 200 DETECTOR MANUFACTURER : RIGAKU RAXIS IV REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 34906 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.000 REMARK 200 RESOLUTION RANGE LOW (A) : 30.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 92.8 REMARK 200 DATA REDUNDANCY : 4.600 REMARK 200 R MERGE (I) : 0.08700 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 16.3000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.00 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.07 REMARK 200 COMPLETENESS FOR SHELL (%) : 80.5 REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : 0.21800 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> FOR SHELL : 4.300 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: ISOMORPHOUS REPLACEMENT REMARK 200 SOFTWARE USED: CNS REMARK 200 STARTING MODEL: PDB ENTRY 1RQB REMARK 200 REMARK 200 REMARK: NULL
REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 46.73 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.31 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: PEG 4000, TRIS, PH 7.0, VAPOR REMARK 280 DIFFUSION, SITTING DROP, TEMPERATURE 293K
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 39.37350 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 39.37350 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 48.01250 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 72.86000 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 6 -1.000000 0.000000 0.000000 48.01250 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 72.86000 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 39.37350 REMARK 290 SMTRY1 7 -1.000000 0.000000 0.000000 48.01250 REMARK 290 SMTRY2 7 0.000000 1.000000 0.000000 72.86000 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 39.37350 REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 48.01250 REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 72.86000 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: DIMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: A 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 -1.000000 0.000000 0.000000 192.05000 REMARK 350 BIOMT2 2 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 2 0.000000 0.000000 -1.000000 -39.37350
REMARK 375 REMARK 375 SPECIAL POSITION REMARK 375 THE FOLLOWING ATOMS ARE FOUND TO BE WITHIN 0.15 ANGSTROMS REMARK 375 OF A SYMMETRY RELATED ATOM AND ARE ASSUMED TO BE ON SPECIAL REMARK 375 POSITIONS. REMARK 375 REMARK 375 ATOM RES CSSEQI REMARK 375 HOH A1000 LIES ON A SPECIAL POSITION. REMARK 375 HOH A 607 LIES ON A SPECIAL POSITION. REMARK 375 HOH A 676 LIES ON A SPECIAL POSITION.
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 -10 REMARK 465 ALA A -9 REMARK 465 ILE A -8 REMARK 465 SER A -7 REMARK 465 ARG A -6 REMARK 465 GLU A -5 REMARK 465 LEU A -4 REMARK 465 VAL A -3 REMARK 465 ASP A -2 REMARK 465 PRO A -1 REMARK 465 ASN A 0 REMARK 465 SER A 1 REMARK 465 SER A 2 REMARK 465 PRO A 3 REMARK 465 GLU A 475 REMARK 465 GLY A 476 REMARK 465 ASP A 477 REMARK 465 GLU A 478 REMARK 465 LYS A 479 REMARK 465 SER A 480 REMARK 465 LEU A 481 REMARK 465 ALA A 482 REMARK 465 VAL A 483 REMARK 465 ALA A 484 REMARK 465 GLY A 485 REMARK 465 PRO A 486 REMARK 465 VAL A 487 REMARK 465 THR A 488 REMARK 465 TYR A 489 REMARK 465 ASN A 490 REMARK 465 VAL A 491 REMARK 465 ASN A 492 REMARK 465 VAL A 493 REMARK 465 GLY A 494 REMARK 465 GLY A 495 REMARK 465 THR A 496 REMARK 465 VAL A 497 REMARK 465 ARG A 498 REMARK 465 GLU A 499 REMARK 465 VAL A 500 REMARK 465 THR A 501 REMARK 465 VAL A 502 REMARK 465 GLN A 503 REMARK 465 GLN A 504 REMARK 465 ALA A 505 REMARK 465 THR A 506 REMARK 465 ARG A 507 REMARK 465 ALA A 508 REMARK 465 SER A 509 REMARK 465 GLN A 510 REMARK 465 PRO A 511 REMARK 465 GLU A 512 REMARK 465 LEU A 513 REMARK 465 ALA A 514 REMARK 465 PRO A 515 REMARK 465 GLU A 516 REMARK 465 ASP A 517 REMARK 465 PRO A 518 REMARK 465 GLU A 519 REMARK 465 ASP A 520 REMARK 465 LEU A 521 REMARK 465 GLU A 522 REMARK 465 HIS A 523 REMARK 465 HIS A 524 REMARK 465 HIS A 525 REMARK 465 HIS A 526 REMARK 465 HIS A 527 REMARK 465 HIS A 528
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 OE2 GLU A 458 O HOH A 1016 2.14 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS REMARK 500 REMARK 500 THE FOLLOWING ATOMS THAT ARE RELATED BY CRYSTALLOGRAPHIC REMARK 500 SYMMETRY ARE IN CLOSE CONTACT. AN ATOM LOCATED WITHIN 0.15 REMARK 500 ANGSTROMS OF A SYMMETRY RELATED ATOM IS ASSUMED TO BE ON A REMARK 500 SPECIAL POSITION AND IS, THEREFORE, LISTED IN REMARK 375 REMARK 500 INSTEAD OF REMARK 500. ATOMS WITH NON-BLANK ALTERNATE REMARK 500 LOCATION INDICATORS ARE NOT INCLUDED IN THE CALCULATIONS. REMARK 500 REMARK 500 DISTANCE CUTOFF: REMARK 500 2.2 ANGSTROMS FOR CONTACTS NOT INVOLVING HYDROGEN ATOMS REMARK 500 1.6 ANGSTROMS FOR CONTACTS INVOLVING HYDROGEN ATOMS REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI SSYMOP DISTANCE REMARK 500 O HOH A 712 O HOH A 712 4555 1.71 REMARK 500 O HOH A 712 O HOH A 834 4555 2.14 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 GLU A 5 CB GLU A 5 CG -0.128 REMARK 500 GLU A 7 CB GLU A 7 CG -0.126 REMARK 500 GLU A 10 CB GLU A 10 CG -0.126 REMARK 500 GLU A 13 CB GLU A 13 CG -0.128 REMARK 500 GLU A 18 CB GLU A 18 CG -0.126 REMARK 500 GLU A 36 CB GLU A 36 CG -0.127 REMARK 500 GLU A 54 CB GLU A 54 CG -0.126 REMARK 500 GLU A 70 CB GLU A 70 CG -0.127 REMARK 500 GLU A 74 CB GLU A 74 CG -0.126 REMARK 500 GLU A 106 CB GLU A 106 CG -0.127 REMARK 500 GLU A 117 CB GLU A 117 CG -0.127 REMARK 500 GLU A 164 CB GLU A 164 CG -0.127 REMARK 500 GLU A 224 CB GLU A 224 CG -0.126 REMARK 500 GLU A 232 CB GLU A 232 CG -0.127 REMARK 500 GLU A 255 CB GLU A 255 CG -0.127 REMARK 500 GLU A 259 CB GLU A 259 CG -0.126 REMARK 500 GLU A 262 CB GLU A 262 CG -0.127 REMARK 500 GLU A 293 CB GLU A 293 CG -0.126 REMARK 500 GLU A 316 CB GLU A 316 CG -0.127 REMARK 500 GLU A 325 CB GLU A 325 CG -0.127 REMARK 500 GLU A 330 CB GLU A 330 CG -0.126 REMARK 500 GLU A 334 CB GLU A 334 CG -0.127 REMARK 500 GLU A 367 CB GLU A 367 CG -0.127 REMARK 500 GLU A 374 CB GLU A 374 CG -0.127 REMARK 500 GLU A 399 CB GLU A 399 CG -0.127 REMARK 500 GLU A 400 CB GLU A 400 CG -0.127 REMARK 500 GLU A 418 CB GLU A 418 CG -0.125 REMARK 500 GLU A 420 CB GLU A 420 CG -0.128 REMARK 500 GLU A 425 CB GLU A 425 CG -0.126 REMARK 500 GLU A 437 CB GLU A 437 CG -0.126 REMARK 500 GLU A 454 CB GLU A 454 CG -0.126 REMARK 500 GLU A 458 CB GLU A 458 CG -0.125 REMARK 500 GLU A 473 CB GLU A 473 CG -0.127 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 ARG A 22 -83.27 -139.15 REMARK 500 CYS A 55 14.69 -142.48 REMARK 500 LEU A 97 -129.66 54.20 REMARK 500 LEU A 247 -177.21 74.55 REMARK 500 ASN A 269 52.54 -113.94 REMARK 500 ALA A 324 69.90 -118.26 REMARK 500 MET A 364 -84.78 -74.11 REMARK 500 GLU A 367 103.28 -49.03 REMARK 500 TYR A 368 22.25 45.35 REMARK 500 GLU A 418 -7.18 -140.27 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: MAIN CHAIN PLANARITY REMARK 500 REMARK 500 THE FOLLOWING RESIDUES HAVE A PSEUDO PLANARITY REMARK 500 TORSION ANGLE, C(I) - CA(I) - N(I+1) - O(I), GREATER REMARK 500 10.0 DEGREES. (M=MODEL NUMBER; RES=RESIDUE NAME; REMARK 500 C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 500 I=INSERTION CODE). REMARK 500 REMARK 500 M RES CSSEQI ANGLE REMARK 500 ARG A 279 11.65 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 CO A 601 CO REMARK 620 N RES CSSEQI ATOM REMARK 620 1 KCX A 184 OQ1 REMARK 620 2 HOH A 670 O 89.8 REMARK 620 3 ASP A 23 OD1 149.2 90.8 REMARK 620 4 KCX A 184 OQ2 53.1 81.1 96.7 REMARK 620 5 HIS A 215 NE2 88.5 174.7 88.0 93.9 REMARK 620 6 HIS A 217 NE2 116.5 85.6 94.2 162.9 99.6 REMARK 620 N 1 2 3 4 5
REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CO A 601 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PYR A 602
REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1RQB RELATED DB: PDB REMARK 900 PROPIONIBACTERIUM SHERMANII TRANSCARBOXYLASE 5S SUBUNIT REMARK 900 RELATED ID: 1RQE RELATED DB: PDB REMARK 900 PROPIONIBACTERIUM SHERMANII TRANSCARBOXYLASE 5S SUBUNIT REMARK 900 BOUND TO OXALOACETATE REMARK 900 RELATED ID: 1RR2 RELATED DB: PDB REMARK 900 PROPIONIBACTERIUM SHERMANII TRANSCARBOXYLASE 5S SUBUNIT REMARK 900 BOUND TO 2-KETOBUTYRIC ACID REMARK 900 RELATED ID: 1S3H RELATED DB: PDB REMARK 900 PROPIONIBACTERIUM SHERMANII TRANSCARBOXYLASE 5S SUBUNIT A59T REMARK 900 RELATED ID: 1S27 RELATED DB: PDB REMARK 900 PROPIONIBACTERIUM SHERMANII TRANSCARBOXYLASE 5S SUBUNIT REMARK 900 (M186I)
REMARK 999 REMARK 999 SEQUENCE REMARK 999 RESIDUE 184 EXISTS IN TWO ALTERNATE REMARK 999 CONFORMATIONS: KCX, CARBAMYLATED LYSINE, REMARK 999 AND LYS.
DBREF 1RQH A 2 505 GB 38304072 CAE54442 2 505
SEQADV 1RQH MET A -10 GB 38304072 CLONING ARTIFACT SEQADV 1RQH ALA A -9 GB 38304072 CLONING ARTIFACT SEQADV 1RQH ILE A -8 GB 38304072 CLONING ARTIFACT SEQADV 1RQH SER A -7 GB 38304072 CLONING ARTIFACT SEQADV 1RQH ARG A -6 GB 38304072 CLONING ARTIFACT SEQADV 1RQH GLU A -5 GB 38304072 CLONING ARTIFACT SEQADV 1RQH LEU A -4 GB 38304072 CLONING ARTIFACT SEQADV 1RQH VAL A -3 GB 38304072 CLONING ARTIFACT SEQADV 1RQH ASP A -2 GB 38304072 CLONING ARTIFACT SEQADV 1RQH PRO A -1 GB 38304072 CLONING ARTIFACT SEQADV 1RQH ASN A 0 GB 38304072 CLONING ARTIFACT SEQADV 1RQH SER A 1 GB 38304072 CLONING ARTIFACT SEQADV 1RQH KCX A 184 GB 38304072 LYS 184 MICROHETEROGENEITY SEQADV 1RQH THR A 506 GB 38304072 CLONING ARTIFACT SEQADV 1RQH ARG A 507 GB 38304072 CLONING ARTIFACT SEQADV 1RQH ALA A 508 GB 38304072 CLONING ARTIFACT SEQADV 1RQH SER A 509 GB 38304072 CLONING ARTIFACT SEQADV 1RQH GLN A 510 GB 38304072 CLONING ARTIFACT SEQADV 1RQH PRO A 511 GB 38304072 CLONING ARTIFACT SEQADV 1RQH GLU A 512 GB 38304072 CLONING ARTIFACT SEQADV 1RQH LEU A 513 GB 38304072 CLONING ARTIFACT SEQADV 1RQH ALA A 514 GB 38304072 CLONING ARTIFACT SEQADV 1RQH PRO A 515 GB 38304072 CLONING ARTIFACT SEQADV 1RQH GLU A 516 GB 38304072 CLONING ARTIFACT SEQADV 1RQH ASP A 517 GB 38304072 CLONING ARTIFACT SEQADV 1RQH PRO A 518 GB 38304072 CLONING ARTIFACT SEQADV 1RQH GLU A 519 GB 38304072 CLONING ARTIFACT SEQADV 1RQH ASP A 520 GB 38304072 CLONING ARTIFACT SEQADV 1RQH LEU A 521 GB 38304072 CLONING ARTIFACT SEQADV 1RQH GLU A 522 GB 38304072 CLONING ARTIFACT SEQADV 1RQH HIS A 523 GB 38304072 CLONING ARTIFACT SEQADV 1RQH HIS A 524 GB 38304072 CLONING ARTIFACT SEQADV 1RQH HIS A 525 GB 38304072 CLONING ARTIFACT SEQADV 1RQH HIS A 526 GB 38304072 CLONING ARTIFACT SEQADV 1RQH HIS A 527 GB 38304072 CLONING ARTIFACT SEQADV 1RQH HIS A 528 GB 38304072 CLONING ARTIFACT
SEQRES 1 A 539 MET ALA ILE SER ARG GLU LEU VAL ASP PRO ASN SER SER SEQRES 2 A 539 PRO ARG GLU ILE GLU VAL SER GLU PRO ARG GLU VAL GLY SEQRES 3 A 539 ILE THR GLU LEU VAL LEU ARG ASP ALA HIS GLN SER LEU SEQRES 4 A 539 MET ALA THR ARG MET ALA MET GLU ASP MET VAL GLY ALA SEQRES 5 A 539 CYS ALA ASP ILE ASP ALA ALA GLY TYR TRP SER VAL GLU SEQRES 6 A 539 CYS TRP GLY GLY ALA THR TYR ASP SER CYS ILE ARG PHE SEQRES 7 A 539 LEU ASN GLU ASP PRO TRP GLU ARG LEU ARG THR PHE ARG SEQRES 8 A 539 LYS LEU MET PRO ASN SER ARG LEU GLN MET LEU LEU ARG SEQRES 9 A 539 GLY GLN ASN LEU LEU GLY TYR ARG HIS TYR ASN ASP GLU SEQRES 10 A 539 VAL VAL ASP ARG PHE VAL ASP LYS SER ALA GLU ASN GLY SEQRES 11 A 539 MET ASP VAL PHE ARG VAL PHE ASP ALA MET ASN ASP PRO SEQRES 12 A 539 ARG ASN MET ALA HIS ALA MET ALA ALA VAL LYS LYS ALA SEQRES 13 A 539 GLY LYS HIS ALA GLN GLY THR ILE CYS TYR THR ILE SER SEQRES 14 A 539 PRO VAL HIS THR VAL GLU GLY TYR VAL LYS LEU ALA GLY SEQRES 15 A 539 GLN LEU LEU ASP MET GLY ALA ASP SER ILE ALA LEU KCX SEQRES 16 A 539 ASP MET ALA ALA LEU LEU LYS PRO GLN PRO ALA TYR ASP SEQRES 17 A 539 ILE ILE LYS ALA ILE LYS ASP THR TYR GLY GLN LYS THR SEQRES 18 A 539 GLN ILE ASN LEU HIS CYS HIS SER THR THR GLY VAL THR SEQRES 19 A 539 GLU VAL SER LEU MET LYS ALA ILE GLU ALA GLY VAL ASP SEQRES 20 A 539 VAL VAL ASP THR ALA ILE SER SER MET SER LEU GLY PRO SEQRES 21 A 539 GLY HIS ASN PRO THR GLU SER VAL ALA GLU MET LEU GLU SEQRES 22 A 539 GLY THR GLY TYR THR THR ASN LEU ASP TYR ASP ARG LEU SEQRES 23 A 539 HIS LYS ILE ARG ASP HIS PHE LYS ALA ILE ARG PRO LYS SEQRES 24 A 539 TYR LYS LYS PHE GLU SER LYS THR LEU VAL ASP THR SER SEQRES 25 A 539 ILE PHE LYS SER GLN ILE PRO GLY GLY MET LEU SER ASN SEQRES 26 A 539 MET GLU SER GLN LEU ARG ALA GLN GLY ALA GLU ASP LYS SEQRES 27 A 539 MET ASP GLU VAL MET ALA GLU VAL PRO ARG VAL ARG LYS SEQRES 28 A 539 ALA ALA GLY PHE PRO PRO LEU VAL THR PRO SER SER GLN SEQRES 29 A 539 ILE VAL GLY THR GLN ALA VAL PHE ASN VAL MET MET GLY SEQRES 30 A 539 GLU TYR LYS ARG MET THR GLY GLU PHE ALA ASP ILE MET SEQRES 31 A 539 LEU GLY TYR TYR GLY ALA SER PRO ALA ASP ARG ASP PRO SEQRES 32 A 539 LYS VAL VAL LYS LEU ALA GLU GLU GLN SER GLY LYS LYS SEQRES 33 A 539 PRO ILE THR GLN ARG PRO ALA ASP LEU LEU PRO PRO GLU SEQRES 34 A 539 TRP GLU LYS GLN SER LYS GLU ALA ALA THR LEU LYS GLY SEQRES 35 A 539 PHE ASN GLY THR ASP GLU ASP VAL LEU THR TYR ALA LEU SEQRES 36 A 539 PHE PRO GLN VAL ALA PRO VAL PHE PHE GLU HIS ARG ALA SEQRES 37 A 539 GLU GLY PRO HIS SER VAL ALA LEU THR ASP ALA GLN LEU SEQRES 38 A 539 LYS ALA GLU ALA GLU GLY ASP GLU LYS SER LEU ALA VAL SEQRES 39 A 539 ALA GLY PRO VAL THR TYR ASN VAL ASN VAL GLY GLY THR SEQRES 40 A 539 VAL ARG GLU VAL THR VAL GLN GLN ALA THR ARG ALA SER SEQRES 41 A 539 GLN PRO GLU LEU ALA PRO GLU ASP PRO GLU ASP LEU GLU SEQRES 42 A 539 HIS HIS HIS HIS HIS HIS
MODRES 1RQH KCX A 184 LYS LYSINE NZ-CARBOXYLIC ACID
HET KCX A 184 12 HET CO A 601 1 HET PYR A 602 6
HETNAM KCX LYSINE NZ-CARBOXYLIC ACID HETNAM CO COBALT (II) ION HETNAM PYR PYRUVIC ACID
FORMUL 1 KCX C7 H14 N2 O4 FORMUL 2 CO CO 2+ FORMUL 3 PYR C3 H4 O3 FORMUL 4 HOH *415(H2 O)
HELIX 1 1 ARG A 22 MET A 29 1 8 HELIX 2 2 ALA A 34 GLY A 40 5 7 HELIX 3 3 ALA A 41 ALA A 47 1 7 HELIX 4 4 ALA A 59 PHE A 67 1 9 HELIX 5 5 ASP A 71 MET A 83 1 13 HELIX 6 6 ARG A 93 LEU A 97 5 5 HELIX 7 7 ASN A 104 ASN A 118 1 15 HELIX 8 8 ASP A 131 ALA A 145 1 15 HELIX 9 9 THR A 162 MET A 176 1 15 HELIX 10 10 LYS A 191 GLY A 207 1 17 HELIX 11 11 VAL A 222 ALA A 233 1 12 HELIX 12 12 ILE A 242 SER A 246 5 5 HELIX 13 13 PRO A 253 MET A 260 1 8 HELIX 14 14 ASP A 271 ARG A 286 1 16 HELIX 15 15 PRO A 287 GLU A 293 5 7 HELIX 16 16 SER A 301 GLN A 306 1 6 HELIX 17 17 PRO A 308 ALA A 321 1 14 HELIX 18 18 ALA A 324 ASP A 326 5 3 HELIX 19 19 LYS A 327 ALA A 342 1 16 HELIX 20 20 PRO A 350 MET A 365 1 16 HELIX 21 21 THR A 372 LEU A 380 1 9 HELIX 22 22 ASP A 391 GLY A 403 1 13 HELIX 23 23 ARG A 410 LEU A 415 5 6 HELIX 24 24 GLU A 418 ALA A 427 1 10 HELIX 25 25 THR A 435 PHE A 445 1 11 HELIX 26 26 VAL A 448 ARG A 456 1 9 HELIX 27 27 ALA A 457 GLY A 459 5 3 HELIX 28 28 THR A 466 ALA A 474 1 9
SHEET 1 A 2 ARG A 12 GLU A 13 0 SHEET 2 A 2 TYR A 266 THR A 267 1 O THR A 267 N ARG A 12 SHEET 1 B 9 GLY A 15 GLU A 18 0 SHEET 2 B 9 SER A 52 GLY A 57 1 O GLU A 54 N GLU A 18 SHEET 3 B 9 LEU A 88 LEU A 92 1 O GLN A 89 N CYS A 55 SHEET 4 B 9 VAL A 122 VAL A 125 1 O VAL A 122 N LEU A 88 SHEET 5 B 9 HIS A 148 CYS A 154 1 O HIS A 148 N PHE A 123 SHEET 6 B 9 SER A 180 ASP A 185 1 O ALA A 182 N GLY A 151 SHEET 7 B 9 ILE A 212 CYS A 216 1 O HIS A 215 N ASP A 185 SHEET 8 B 9 VAL A 237 THR A 240 1 O VAL A 237 N LEU A 214 SHEET 9 B 9 GLY A 15 GLU A 18 1 N THR A 17 O THR A 240
LINK C LEU A 183 N AKCX A 184 1555 1555 1.33 LINK C AKCX A 184 N ASP A 185 1555 1555 1.33 LINK CO CO A 601 OQ1AKCX A 184 1555 1555 2.14 LINK CO CO A 601 O HOH A 670 1555 1555 2.41 LINK CO CO A 601 OD1 ASP A 23 1555 1555 2.03 LINK CO CO A 601 OQ2AKCX A 184 1555 1555 2.31 LINK CO CO A 601 NE2 HIS A 215 1555 1555 2.19 LINK CO CO A 601 NE2 HIS A 217 1555 1555 2.17
CISPEP 1 THR A 349 PRO A 350 0 0.11
SITE 1 AC1 5 ASP A 23 KCX A 184 HIS A 215 HIS A 217 SITE 2 AC1 5 HOH A 670 SITE 1 AC2 9 ARG A 22 ASP A 23 GLN A 26 GLY A 58 SITE 2 AC2 9 ALA A 59 LEU A 91 KCX A 184 MET A 186 SITE 3 AC2 9 HOH A 670
CRYST1 96.025 145.720 78.747 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 0.010414 0.000000 0.000000 0.00000
SCALE2 0.000000 0.006862 0.000000 0.00000
SCALE3 0.000000 0.000000 0.012699 0.00000