HEADER BIOSYNTHETIC PROTEIN 08-AUG-18 6AF6 TITLE PIGA WITH FAD AND PROLINE COMPND MOL_ID: 1; COMPND 2 MOLECULE: L-PROLYL-[PEPTIDYL-CARRIER PROTEIN] DEHYDROGENASE; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: FLAVOPROTEIN DESATURASE PIGA,L-PROLYL-PCP DEHYDROGENASE; COMPND 5 EC: 1.3.8.14; COMPND 6 ENGINEERED: YES; COMPND 7 MUTATION: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: SERRATIA SP. (STRAIN ATCC 39006); SOURCE 3 ORGANISM_TAXID: 104623; SOURCE 4 STRAIN: ATCC 39006; SOURCE 5 ATCC: 39006; SOURCE 6 GENE: PIGA; SOURCE 7 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 8 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS RED PIGMENT, PYRROLE, ACYL-COA OXIDASE, FAD, TETRAMER, BIOSYNTHETIC KEYWDS 2 PROTEIN EXPDTA X-RAY DIFFRACTION AUTHOR C.-C.LEE,T.-P.KO,A.H.J.WANG REVDAT 3 22-NOV-23 6AF6 1 LINK REVDAT 2 06-FEB-19 6AF6 1 JRNL REVDAT 1 05-SEP-18 6AF6 0 JRNL AUTH C.-C.LEE,T.-P.KO,C.T.CHEN,Y.T.CHAN,S.Y.LO,J.Y.CHANG, JRNL AUTH 2 Y.W.CHEN,T.F.CHUNG,H.J.HSIEH,C.D.HSIAO,A.H.J.WANG JRNL TITL CRYSTAL STRUCTURE OF PIGA: A PROLYL THIOESTER-OXIDIZING JRNL TITL 2 ENZYME IN PRODIGIOSIN BIOSYNTHESIS. JRNL REF CHEMBIOCHEM V. 20 193 2019 JRNL REFN ESSN 1439-7633 JRNL PMID 30095206 JRNL DOI 10.1002/CBIC.201800409 REMARK 2 REMARK 2 RESOLUTION. 1.62 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX (1.12_2829: ???) REMARK 3 AUTHORS : PAUL ADAMS,PAVEL AFONINE,VINCENT CHEN,IAN REMARK 3 : DAVIS,KRESHNA GOPAL,RALF GROSSE-KUNSTLEVE, REMARK 3 : LI-WEI HUNG,ROBERT IMMORMINO,TOM IOERGER, REMARK 3 : AIRLIE MCCOY,ERIK MCKEE,NIGEL MORIARTY, REMARK 3 : REETAL PAI,RANDY READ,JANE RICHARDSON, REMARK 3 : DAVID RICHARDSON,TOD ROMO,JIM SACCHETTINI, REMARK 3 : NICHOLAS SAUTER,JACOB SMITH,LAURENT REMARK 3 : STORONI,TOM TERWILLIGER,PETER ZWART REMARK 3 REMARK 3 REFINEMENT TARGET : NULL REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.62 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 19.52 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.340 REMARK 3 COMPLETENESS FOR RANGE (%) : 96.3 REMARK 3 NUMBER OF REFLECTIONS : 66136 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.156 REMARK 3 R VALUE (WORKING SET) : 0.155 REMARK 3 FREE R VALUE : 0.180 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 3.020 REMARK 3 FREE R VALUE TEST SET COUNT : 1995 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT (IN BINS). REMARK 3 BIN RESOLUTION RANGE COMPL. NWORK NFREE RWORK RFREE REMARK 3 1 19.5175 - 3.8948 1.00 4965 162 0.1387 0.1643 REMARK 3 2 3.8948 - 3.0954 1.00 4811 152 0.1323 0.1519 REMARK 3 3 3.0954 - 2.7053 1.00 4780 146 0.1498 0.1640 REMARK 3 4 2.7053 - 2.4584 1.00 4785 147 0.1509 0.1756 REMARK 3 5 2.4584 - 2.2825 1.00 4757 150 0.1535 0.1941 REMARK 3 6 2.2825 - 2.1481 1.00 4728 149 0.1547 0.1751 REMARK 3 7 2.1481 - 2.0407 1.00 4746 151 0.1660 0.1915 REMARK 3 8 2.0407 - 1.9519 1.00 4739 144 0.1665 0.2054 REMARK 3 9 1.9519 - 1.8768 1.00 4706 148 0.1697 0.1897 REMARK 3 10 1.8768 - 1.8121 1.00 4720 149 0.1859 0.2133 REMARK 3 11 1.8121 - 1.7555 0.99 4631 142 0.1848 0.1936 REMARK 3 12 1.7555 - 1.7053 0.93 4387 136 0.1878 0.2199 REMARK 3 13 1.7053 - 1.6605 0.83 3885 114 0.1891 0.2129 REMARK 3 14 1.6605 - 1.6200 0.74 3501 105 0.1899 0.2260 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : NULL REMARK 3 SOLVENT RADIUS : 1.11 REMARK 3 SHRINKAGE RADIUS : 0.90 REMARK 3 K_SOL : NULL REMARK 3 B_SOL : NULL REMARK 3 REMARK 3 ERROR ESTIMATES. REMARK 3 COORDINATE ERROR (MAXIMUM-LIKELIHOOD BASED) : 0.120 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 17.650 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : NULL REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : NULL REMARK 3 B22 (A**2) : NULL REMARK 3 B33 (A**2) : NULL REMARK 3 B12 (A**2) : NULL REMARK 3 B13 (A**2) : NULL REMARK 3 B23 (A**2) : NULL REMARK 3 REMARK 3 TWINNING INFORMATION. REMARK 3 FRACTION: NULL REMARK 3 OPERATOR: NULL REMARK 3 REMARK 3 DEVIATIONS FROM IDEAL VALUES. REMARK 3 RMSD COUNT REMARK 3 BOND : 0.018 3240 REMARK 3 ANGLE : 1.676 4369 REMARK 3 CHIRALITY : 0.118 474 REMARK 3 PLANARITY : 0.010 552 REMARK 3 DIHEDRAL : 19.916 1937 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : NULL REMARK 3 REMARK 3 NCS DETAILS REMARK 3 NUMBER OF NCS GROUPS : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 6AF6 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 22-AUG-18. REMARK 100 THE DEPOSITION ID IS D_1300008659. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 26-JUL-18 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 4.0 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : NSRRC REMARK 200 BEAMLINE : TPS 05A REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.0000 REMARK 200 MONOCHROMATOR : SI(111) REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : RAYONIX MX300-HS REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 68585 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.620 REMARK 200 RESOLUTION RANGE LOW (A) : 20.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.8 REMARK 200 DATA REDUNDANCY : 7.200 REMARK 200 R MERGE (I) : 0.06300 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 30.2000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.62 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.68 REMARK 200 COMPLETENESS FOR SHELL (%) : 98.9 REMARK 200 DATA REDUNDANCY IN SHELL : 5.80 REMARK 200 R MERGE FOR SHELL (I) : 0.53700 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 3.200 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHENIX REMARK 200 STARTING MODEL: 5ZW8 REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 59.88 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.07 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 5MM L-PROLYLGLYCINE, 1.6M (NH4)2SO4, REMARK 280 2% PEG 400, 0.1M CITRIC ACID, PH 4.0, VAPOR DIFFUSION, SITTING REMARK 280 DROP, TEMPERATURE 291K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: I 2 2 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,-Y,Z REMARK 290 3555 -X,Y,-Z REMARK 290 4555 X,-Y,-Z REMARK 290 5555 X+1/2,Y+1/2,Z+1/2 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+1/2 REMARK 290 REMARK 290 WHERE NNN -> OPERATOR NUMBER REMARK 290 MMM -> TRANSLATION VECTOR REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY TRANSFORMATIONS REMARK 290 THE FOLLOWING TRANSFORMATIONS OPERATE ON THE ATOM/HETATM REMARK 290 RECORDS IN THIS ENTRY TO PRODUCE CRYSTALLOGRAPHICALLY REMARK 290 RELATED MOLECULES. REMARK 290 SMTRY1 1 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 1 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 1 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 2 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 0.00000 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 42.78700 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 43.15300 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 72.88550 REMARK 290 SMTRY1 6 -1.000000 0.000000 0.000000 42.78700 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 43.15300 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 72.88550 REMARK 290 SMTRY1 7 -1.000000 0.000000 0.000000 42.78700 REMARK 290 SMTRY2 7 0.000000 1.000000 0.000000 43.15300 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 72.88550 REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 42.78700 REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 43.15300 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 72.88550 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: 22980 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 48180 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -164.0 KCAL/MOL 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 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 350 BIOMT1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 3 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 3 0.000000 0.000000 -1.000000 0.00000 REMARK 350 BIOMT1 4 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 4 0.000000 -1.000000 0.000000 0.00000 REMARK 350 BIOMT3 4 0.000000 0.000000 -1.000000 0.00000 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 CL CL A 504 LIES ON A SPECIAL POSITION. REMARK 375 HOH A 868 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 THR A 384 REMARK 465 SER A 385 REMARK 465 SER A 386 REMARK 465 GLY A 387 REMARK 465 SER A 388 REMARK 465 LEU A 389 REMARK 465 VAL A 390 REMARK 465 PRO A 391 REMARK 465 ARG A 392 REMARK 465 GLY A 393 REMARK 465 SER A 394 REMARK 465 HIS A 395 REMARK 465 HIS A 396 REMARK 465 HIS A 397 REMARK 465 HIS A 398 REMARK 465 HIS A 399 REMARK 465 HIS A 400 REMARK 465 HIS A 401 REMARK 465 HIS A 402 REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS IN SAME ASYMMETRIC UNIT REMARK 500 REMARK 500 THE FOLLOWING ATOMS ARE IN CLOSE CONTACT. REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI DISTANCE REMARK 500 O HOH A 647 O HOH A 845 1.79 REMARK 500 O HOH A 793 O HOH A 859 1.94 REMARK 500 O HOH A 823 O HOH A 885 1.94 REMARK 500 O HOH A 810 O HOH A 967 1.95 REMARK 500 O HOH A 1051 O HOH A 1091 1.98 REMARK 500 O HOH A 606 O HOH A 822 1.99 REMARK 500 O HOH A 837 O HOH A 1047 2.06 REMARK 500 OD1 ASN A 138 O HOH A 601 2.06 REMARK 500 O HOH A 908 O HOH A 927 2.06 REMARK 500 O HOH A 856 O HOH A 981 2.07 REMARK 500 O HOH A 1014 O HOH A 1056 2.08 REMARK 500 O HOH A 667 O HOH A 767 2.09 REMARK 500 O HOH A 730 O HOH A 989 2.11 REMARK 500 ND2 ASN A 217 O HOH A 602 2.13 REMARK 500 O HOH A 615 O HOH A 885 2.13 REMARK 500 O HOH A 646 O HOH A 651 2.14 REMARK 500 O HOH A 847 O HOH A 1084 2.15 REMARK 500 ND1 HIS A 57 O HOH A 603 2.17 REMARK 500 O HOH A 994 O HOH A 1043 2.17 REMARK 500 O HOH A 965 O HOH A 1028 2.18 REMARK 500 O HOH A 902 O HOH A 998 2.19 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 967 O HOH A 1090 2555 2.01 REMARK 500 O HOH A 1010 O HOH A 1010 4555 2.06 REMARK 500 O HOH A 621 O HOH A 622 7555 2.15 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 GLN A 338 CG GLN A 338 CD 0.162 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 ASP A 135 CB - CG - OD2 ANGL. DEV. = -6.5 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 CYS A 96 -56.17 -129.24 REMARK 500 ALA A 127 -50.69 -120.56 REMARK 500 REMARK 500 REMARK: NULL REMARK 525 REMARK 525 SOLVENT REMARK 525 REMARK 525 THE SOLVENT MOLECULES HAVE CHAIN IDENTIFIERS THAT REMARK 525 INDICATE THE POLYMER CHAIN WITH WHICH THEY ARE MOST REMARK 525 CLOSELY ASSOCIATED. THE REMARK LISTS ALL THE SOLVENT REMARK 525 MOLECULES WHICH ARE MORE THAN 5A AWAY FROM THE REMARK 525 NEAREST POLYMER CHAIN (M = MODEL NUMBER; REMARK 525 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE REMARK 525 NUMBER; I=INSERTION CODE): REMARK 525 REMARK 525 M RES CSSEQI REMARK 525 HOH A1100 DISTANCE = 5.84 ANGSTROMS REMARK 525 HOH A1101 DISTANCE = 5.90 ANGSTROMS REMARK 525 HOH A1102 DISTANCE = 6.43 ANGSTROMS REMARK 525 HOH A1103 DISTANCE = 6.49 ANGSTROMS REMARK 525 HOH A1104 DISTANCE = 6.67 ANGSTROMS REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue FAD A 501 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue O4B A 502 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue O4B A 503 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue CL A 504 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue PRO A 505 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for Di-peptide PRO A 506 and GLY A REMARK 800 507 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 5ZW0 RELATED DB: PDB REMARK 900 APO FORM REMARK 900 RELATED ID: 5ZW2 RELATED DB: PDB REMARK 900 FAD COMPLEX REMARK 900 RELATED ID: 5ZW7 RELATED DB: PDB REMARK 900 FAD COMPLEX HIGH RESOLUTION REMARK 900 RELATED ID: 5ZW8 RELATED DB: PDB REMARK 900 FAD AND PROLINE COMPLEX DBREF 6AF6 A 1 386 UNP Q5W271 PIGA_SERS3 1 386 SEQADV 6AF6 ALA A 244 UNP Q5W271 GLU 244 ENGINEERED MUTATION SEQADV 6AF6 GLY A 387 UNP Q5W271 EXPRESSION TAG SEQADV 6AF6 SER A 388 UNP Q5W271 EXPRESSION TAG SEQADV 6AF6 LEU A 389 UNP Q5W271 EXPRESSION TAG SEQADV 6AF6 VAL A 390 UNP Q5W271 EXPRESSION TAG SEQADV 6AF6 PRO A 391 UNP Q5W271 EXPRESSION TAG SEQADV 6AF6 ARG A 392 UNP Q5W271 EXPRESSION TAG SEQADV 6AF6 GLY A 393 UNP Q5W271 EXPRESSION TAG SEQADV 6AF6 SER A 394 UNP Q5W271 EXPRESSION TAG SEQADV 6AF6 HIS A 395 UNP Q5W271 EXPRESSION TAG SEQADV 6AF6 HIS A 396 UNP Q5W271 EXPRESSION TAG SEQADV 6AF6 HIS A 397 UNP Q5W271 EXPRESSION TAG SEQADV 6AF6 HIS A 398 UNP Q5W271 EXPRESSION TAG SEQADV 6AF6 HIS A 399 UNP Q5W271 EXPRESSION TAG SEQADV 6AF6 HIS A 400 UNP Q5W271 EXPRESSION TAG SEQADV 6AF6 HIS A 401 UNP Q5W271 EXPRESSION TAG SEQADV 6AF6 HIS A 402 UNP Q5W271 EXPRESSION TAG SEQRES 1 A 402 MET ASP PHE ASN LEU SER ASN SER GLN SER ASP ILE TYR SEQRES 2 A 402 GLU SER ALA TYR ARG PHE ALA CYS ASP VAL LEU ASP GLN SEQRES 3 A 402 ASP ALA GLN THR ARG ILE SER GLN LYS ILE LEU SER THR SEQRES 4 A 402 GLU LEU TRP LYS LYS ALA ALA ALA TYR GLY PHE ALA HIS SEQRES 5 A 402 GLY PRO VAL SER HIS GLN PHE GLY GLY SER GLU LEU GLY SEQRES 6 A 402 ALA LEU ASP THR ALA LEU MET ILE GLU ALA LEU GLY LYS SEQRES 7 A 402 GLY SER ARG ASP ILE GLY LEU SER PHE SER LEU CYS ALA SEQRES 8 A 402 HIS LEU CYS ALA CYS VAL ILE PRO LEU TYR ARG PHE GLY SEQRES 9 A 402 SER SER GLU LEU LYS ASP LYS TYR LEU GLU SER LEU VAL SEQRES 10 A 402 THR GLY LYS LEU ILE ALA ALA ASN ALA ALA THR GLU PRO SEQRES 11 A 402 ASP ALA GLY SER ASP ILE TYR ASN MET GLN ALA THR ALA SEQRES 12 A 402 GLN PRO CYS GLU GLY GLY TYR ILE LEU ASN GLY LYS LYS SEQRES 13 A 402 ILE PHE ILE THR ASN ALA PRO ILE ALA ASP VAL PHE ILE SEQRES 14 A 402 ILE TYR ALA LYS THR ASN PRO ASP HIS GLY PHE LEU GLY SEQRES 15 A 402 VAL SER ALA PHE LEU ILE GLU LYS GLY THR PRO GLY LEU SEQRES 16 A 402 ASN VAL GLY GLU VAL ILE PRO LYS ASP CYS LEU SER ASN SEQRES 17 A 402 CYS PRO TRP SER GLU ILE VAL PHE ASN ASP ILE PHE ILE SEQRES 18 A 402 PRO GLN SER GLN ARG ILE GLY MET GLU GLY ALA GLY GLY SEQRES 19 A 402 ALA ILE PHE HIS ASP SER MET ILE TRP ALA LYS GLY CYS SEQRES 20 A 402 LEU SER ALA LEU PHE VAL GLY GLY LEU ALA ARG LEU LEU SEQRES 21 A 402 GLU THR THR LEU GLU TYR ALA LYS ALA ARG GLN GLN PHE SEQRES 22 A 402 GLY LYS ALA ILE GLY GLN PHE GLN SER VAL SER ASN ARG SEQRES 23 A 402 ILE ILE ASP MET LYS LEU ARG LEU GLU GLN CYS ARG LEU SEQRES 24 A 402 MET LEU TYR ARG ALA CYS TRP LYS HIS ASP GLN GLY GLN SEQRES 25 A 402 ASP ALA GLU ALA ASP ILE ALA MET SER LYS LEU LEU ILE SEQRES 26 A 402 SER GLU TYR ALA VAL GLN SER GLY LEU ASP ALA ILE GLN SEQRES 27 A 402 THR PHE GLY GLY ALA ALA MET ASP GLN GLU LEU GLY LEU SEQRES 28 A 402 VAL ARG HIS LEU LEU ASN MET ILE PRO SER ARG ILE PHE SEQRES 29 A 402 SER GLY THR ASN ASP ILE GLN LYS GLU ILE ILE ALA ARG SEQRES 30 A 402 LYS LEU GLY LEU ARG GLY THR SER SER GLY SER LEU VAL SEQRES 31 A 402 PRO ARG GLY SER HIS HIS HIS HIS HIS HIS HIS HIS HET FAD A 501 53 HET O4B A 502 18 HET O4B A 503 18 HET CL A 504 1 HET PRO A 505 8 HET PRO A 506 7 HET GLY A 507 5 HETNAM FAD FLAVIN-ADENINE DINUCLEOTIDE HETNAM O4B 1,4,7,10,13,16-HEXAOXACYCLOOCTADECANE HETNAM CL CHLORIDE ION HETNAM PRO PROLINE HETNAM GLY GLYCINE FORMUL 2 FAD C27 H33 N9 O15 P2 FORMUL 3 O4B 2(C12 H24 O6) FORMUL 5 CL CL 1- FORMUL 6 PRO 2(C5 H9 N O2) FORMUL 8 GLY C2 H5 N O2 FORMUL 9 HOH *504(H2 O) HELIX 1 AA1 SER A 6 VAL A 23 1 18 HELIX 2 AA2 ASP A 27 GLN A 34 1 8 HELIX 3 AA3 SER A 38 GLY A 49 1 12 HELIX 4 AA4 SER A 56 GLY A 60 5 5 HELIX 5 AA5 GLY A 65 SER A 80 1 16 HELIX 6 AA6 ASP A 82 CYS A 96 1 15 HELIX 7 AA7 CYS A 96 GLY A 104 1 9 HELIX 8 AA8 SER A 105 THR A 118 1 14 HELIX 9 AA9 ASP A 135 MET A 139 5 5 HELIX 10 AB1 ALA A 162 ALA A 165 5 4 HELIX 11 AB2 GLY A 179 LEU A 181 5 3 HELIX 12 AB3 ALA A 232 CYS A 247 1 16 HELIX 13 AB4 SER A 249 ARG A 270 1 22 HELIX 14 AB5 PHE A 280 GLN A 310 1 31 HELIX 15 AB6 ALA A 314 GLY A 341 1 28 HELIX 16 AB7 GLY A 342 MET A 345 5 4 HELIX 17 AB8 GLY A 350 ILE A 359 1 10 HELIX 18 AB9 PRO A 360 ILE A 363 5 4 HELIX 19 AC1 THR A 367 LEU A 379 1 13 SHEET 1 AA1 4 ALA A 123 ALA A 126 0 SHEET 2 AA1 4 VAL A 167 LYS A 173 1 O ILE A 169 N ALA A 126 SHEET 3 AA1 4 VAL A 183 GLU A 189 -1 O SER A 184 N ALA A 172 SHEET 4 AA1 4 ARG A 226 ILE A 227 -1 O ILE A 227 N ALA A 185 SHEET 1 AA2 4 THR A 142 CYS A 146 0 SHEET 2 AA2 4 GLY A 149 THR A 160 -1 O GLY A 149 N CYS A 146 SHEET 3 AA2 4 TRP A 211 PRO A 222 -1 O ILE A 219 N LEU A 152 SHEET 4 AA2 4 LEU A 195 VAL A 197 -1 N ASN A 196 O VAL A 215 SHEET 1 AA3 2 GLN A 271 GLN A 272 0 SHEET 2 AA3 2 LYS A 275 ALA A 276 -1 O LYS A 275 N GLN A 272 LINK C PRO A 506 N GLY A 507 1555 1555 1.33 SITE 1 AC1 31 ASN A 125 ALA A 127 THR A 128 GLY A 133 SITE 2 AC1 31 SER A 134 PHE A 158 ILE A 159 THR A 160 SITE 3 AC1 31 TRP A 211 ARG A 270 GLN A 272 PHE A 273 SITE 4 AC1 31 PHE A 280 GLN A 281 VAL A 283 ARG A 286 SITE 5 AC1 31 GLN A 338 THR A 339 GLY A 342 ILE A 363 SITE 6 AC1 31 PHE A 364 THR A 367 ASP A 369 ILE A 370 SITE 7 AC1 31 PRO A 505 PRO A 506 HOH A 685 HOH A 713 SITE 8 AC1 31 HOH A 721 HOH A 810 HOH A 828 SITE 1 AC2 5 LEU A 41 LYS A 44 CYS A 146 ILE A 151 SITE 2 AC2 5 ASP A 218 SITE 1 AC3 4 PHE A 273 LYS A 275 GLN A 279 PHE A 280 SITE 1 AC4 2 GLN A 281 HOH A 747 SITE 1 AC5 6 ASN A 125 MET A 241 PHE A 364 SER A 365 SITE 2 AC5 6 FAD A 501 PRO A 506 SITE 1 AC6 11 THR A 128 GLY A 133 SER A 134 TYR A 137 SITE 2 AC6 11 PHE A 237 GLY A 366 FAD A 501 PRO A 505 SITE 3 AC6 11 HOH A 609 HOH A 612 HOH A 699 CRYST1 85.574 86.306 145.771 90.00 90.00 90.00 I 2 2 2 8 ORIGX1 1.000000 0.000000 0.000000 0.00000 ORIGX2 0.000000 1.000000 0.000000 0.00000 ORIGX3 0.000000 0.000000 1.000000 0.00000 SCALE1 0.011686 0.000000 0.000000 0.00000 SCALE2 0.000000 0.011587 0.000000 0.00000 SCALE3 0.000000 0.000000 0.006860 0.00000