HEADER TRANSFERASE 07-MAR-16 5INJ TITLE CRYSTAL STRUCTURE OF PRENYLTRANSFERASE PRIB TERNARY COMPLEX WITH L- TITLE 2 TRYPTOPHAN AND DIMETHYLALLYL THIOLODIPHOSPHATE (DMSPP) COMPND MOL_ID: 1; COMPND 2 MOLECULE: PRENYLTRANSFERASE; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: PRIB; COMPND 5 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: STREPTOMYCES SP. RM-5-8; SOURCE 3 ORGANISM_TAXID: 1429103; SOURCE 4 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 5 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS PRENYLTRANSFERASE, TRYPTOPHAN, DMSPP, INDOLE-PT, ABBA FAMILY, PT KEYWDS 2 FOLD, STRUCTURAL GENOMICS, PSI-2, PROTEIN STRUCTURE INITIATIVE, KEYWDS 3 ENZYME DISCOVERY FOR NATURAL PRODUCT BIOSYNTHESIS, NATPRO, KEYWDS 4 TRANSFERASE EXPDTA X-RAY DIFFRACTION AUTHOR H.CAO,S.ELSHAHAWI,J.BENACH,S.R.WASSERMAN,L.L.MORISCO,J.W.KOSS, AUTHOR 2 J.S.THORSON,G.N.PHILLIPS JR.,ENZYME DISCOVERY FOR NATURAL PRODUCT AUTHOR 3 BIOSYNTHESIS (NATPRO) REVDAT 9 06-MAR-24 5INJ 1 REMARK REVDAT 8 23-SEP-20 5INJ 1 AUTHOR HETSYN REVDAT 7 04-DEC-19 5INJ 1 REMARK REVDAT 6 02-OCT-19 5INJ 1 COMPND REMARK HET HETNAM REVDAT 6 2 1 FORMUL SITE ATOM REVDAT 5 27-SEP-17 5INJ 1 REMARK REVDAT 4 29-MAR-17 5INJ 1 JRNL REVDAT 3 22-FEB-17 5INJ 1 JRNL REVDAT 2 25-JAN-17 5INJ 1 JRNL REVDAT 1 11-MAY-16 5INJ 0 JRNL AUTH S.I.ELSHAHAWI,H.CAO,K.A.SHAABAN,L.V.PONOMAREVA, JRNL AUTH 2 T.SUBRAMANIAN,M.L.FARMAN,H.P.SPIELMANN,G.N.PHILLIPS, JRNL AUTH 3 J.S.THORSON,S.SINGH JRNL TITL STRUCTURE AND SPECIFICITY OF A PERMISSIVE BACTERIAL JRNL TITL 2 C-PRENYLTRANSFERASE. JRNL REF NAT. CHEM. BIOL. V. 13 366 2017 JRNL REFN ESSN 1552-4469 JRNL PMID 28166207 JRNL DOI 10.1038/NCHEMBIO.2285 REMARK 2 REMARK 2 RESOLUTION. 1.40 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 1.10_2155 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) : 1.40 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 28.82 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.340 REMARK 3 COMPLETENESS FOR RANGE (%) : 96.1 REMARK 3 NUMBER OF REFLECTIONS : 65074 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.163 REMARK 3 R VALUE (WORKING SET) : 0.162 REMARK 3 FREE R VALUE : 0.197 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 3.070 REMARK 3 FREE R VALUE TEST SET COUNT : 2000 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 1.4350 - 1.4000 0.79 3736 118 0.3283 0.3490 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) : 0.180 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 21.530 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 23.40 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 : NULL NULL REMARK 3 ANGLE : NULL NULL REMARK 3 CHIRALITY : NULL NULL REMARK 3 PLANARITY : NULL NULL REMARK 3 DIHEDRAL : NULL NULL 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 5INJ COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 08-MAR-16. REMARK 100 THE DEPOSITION ID IS D_1000219131. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 14-AUG-15 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 8.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : APS REMARK 200 BEAMLINE : 31-ID REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.97931 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : RAYONIX MX225HE REMARK 200 INTENSITY-INTEGRATION SOFTWARE : MOSFLM REMARK 200 DATA SCALING SOFTWARE : SCALA 3.2.5 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 65094 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.186 REMARK 200 RESOLUTION RANGE LOW (A) : 28.820 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 96.2 REMARK 200 DATA REDUNDANCY : 3.500 REMARK 200 R MERGE (I) : 0.07500 REMARK 200 R SYM (I) : 0.07500 REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 6.6000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.40 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.48 REMARK 200 COMPLETENESS FOR SHELL (%) : 87.2 REMARK 200 DATA REDUNDANCY IN SHELL : 2.90 REMARK 200 R MERGE FOR SHELL (I) : 0.65600 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> FOR SHELL : 1.200 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: SAD REMARK 200 SOFTWARE USED: PHASER, AUTOSOL REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 39.06 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.02 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: PRIB WAS CRYSTALLIZED BY SITTING DROP REMARK 280 VAPOR DIFFUSION METHOD BY 1:1 V/V MIXING OF 10 MG/ML PRIB REMARK 280 SOLUTION IN THE PRESENCE OF 1 MM L-TRYPTOPHAN WITH RESERVOIR REMARK 280 SOLUTION CONTAINING 0.1 M TRIS PH 8.5, 20% W/V PEG 3350, 0.1 M REMARK 280 MGCL2. THE MIXED DROPS OF 0.4-1 UL WERE EQUILIBRATED OVER A REMARK 280 RESERVOIR SOLUTION OF 50 UL AND INCUBATED AT 20OC IN THE DARK. REMARK 280 THE TERNARY COMPLEX WAS OBTAINED BY 1:1.5 V/V SOAKING A SOLUTION REMARK 280 OF SUBSTRATE MIMIC 25 MM DIMETHYLALLYL S-THIOLODIPHOSPHATE REMARK 280 (DMSAPP), 0.05 M TRIS PH 8.5, 10% W/V PEG 3350, 0.05 M MGCL2 REMARK 280 INTO PRIB CRYSTALS. THE IODINE DERIVATIVE WAS PREPARED BY 1:3 V/ REMARK 280 V SOAKING A SOLUTION OF 0.5 M SODIUM IODIDE, 0.05 M TRIS PH 8.5, REMARK 280 10% W/V PEG 3350, 0.05 M MGCL2 INTO PRIB CRYSTALS, VAPOR REMARK 280 DIFFUSION, SITTING DROP, TEMPERATURE 293.15K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: C 1 2 1 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+1/2,Y+1/2,Z REMARK 290 4555 -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 0.00000 REMARK 290 SMTRY1 3 1.000000 0.000000 0.000000 52.69800 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 41.71100 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 52.69800 REMARK 290 SMTRY2 4 0.000000 1.000000 0.000000 41.71100 REMARK 290 SMTRY3 4 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: MONOMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA 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 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 GLY A 2 REMARK 465 SER A 3 REMARK 465 SER A 4 REMARK 465 HIS A 5 REMARK 465 HIS A 6 REMARK 465 HIS A 7 REMARK 465 HIS A 8 REMARK 465 HIS A 9 REMARK 465 HIS A 10 REMARK 465 SER A 11 REMARK 465 SER A 12 REMARK 465 GLY A 13 REMARK 465 LEU A 14 REMARK 465 VAL A 15 REMARK 465 PRO A 16 REMARK 465 ARG A 17 REMARK 465 GLY A 18 REMARK 465 SER A 19 REMARK 465 HIS A 20 REMARK 465 MET A 21 REMARK 465 GLY A 22 REMARK 465 GLY A 23 REMARK 465 PRO A 24 REMARK 465 MET A 25 REMARK 465 SER A 26 REMARK 465 GLY A 27 REMARK 465 PHE A 28 REMARK 465 HIS A 29 REMARK 465 SER A 30 REMARK 465 GLY A 31 REMARK 465 GLU A 32 REMARK 465 PRO A 275 REMARK 465 GLY A 276 REMARK 465 ASP A 277 REMARK 465 PRO A 278 REMARK 465 GLY A 279 REMARK 465 PRO A 280 REMARK 465 THR A 281 REMARK 465 GLU A 282 REMARK 465 ASP A 283 REMARK 465 THR A 397 REMARK 465 ARG A 398 REMARK 465 ASP A 399 REMARK 465 ARG A 400 REMARK 465 ALA A 401 REMARK 465 ARG A 402 REMARK 465 ALA A 403 REMARK 465 ARG A 404 REMARK 465 LEU A 405 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 HE2 HIS A 239 HG1 THR A 294 1.24 REMARK 500 HD1 HIS A 369 O HOH A 604 1.29 REMARK 500 HE21 GLN A 207 O HOH A 614 1.48 REMARK 500 HH11 ARG A 197 O HOH A 617 1.58 REMARK 500 HE ARG A 148 O HOH A 624 1.58 REMARK 500 O HOH A 869 O HOH A 956 1.77 REMARK 500 O HOH A 844 O HOH A 885 1.79 REMARK 500 O HOH A 1072 O HOH A 1108 1.84 REMARK 500 O HOH A 1031 O HOH A 1041 1.87 REMARK 500 O HOH A 791 O HOH A 799 1.88 REMARK 500 O HOH A 991 O HOH A 1004 1.91 REMARK 500 O HOH A 1055 O HOH A 1126 1.93 REMARK 500 O HOH A 951 O HOH A 1017 1.98 REMARK 500 OE2 GLU A 387 O HOH A 601 1.98 REMARK 500 O HOH A 1020 O HOH A 1086 1.99 REMARK 500 O HOH A 622 O HOH A 883 2.01 REMARK 500 O HOH A 788 O HOH A 1092 2.01 REMARK 500 OG SER A 254 O HOH A 602 2.01 REMARK 500 O HOH A 777 O HOH A 812 2.03 REMARK 500 O HOH A 1045 O HOH A 1098 2.05 REMARK 500 O HOH A 945 O HOH A 1037 2.06 REMARK 500 O HOH A 885 O HOH A 963 2.07 REMARK 500 O GLY A 226 O HOH A 603 2.07 REMARK 500 O HOH A 894 O HOH A 1006 2.08 REMARK 500 ND1 HIS A 369 O HOH A 604 2.09 REMARK 500 O3 TRS A 502 O HOH A 605 2.10 REMARK 500 SG CYS A 295 O HOH A 794 2.10 REMARK 500 O HOH A 950 O HOH A 955 2.11 REMARK 500 O HOH A 832 O HOH A 893 2.11 REMARK 500 O HOH A 1080 O HOH A 1121 2.12 REMARK 500 O HOH A 845 O HOH A 930 2.12 REMARK 500 O HOH A 1110 O HOH A 1127 2.12 REMARK 500 O HOH A 698 O HOH A 817 2.13 REMARK 500 O HOH A 791 O HOH A 901 2.13 REMARK 500 O HOH A 815 O HOH A 1061 2.14 REMARK 500 O HOH A 621 O HOH A 896 2.14 REMARK 500 O HOH A 891 O HOH A 904 2.14 REMARK 500 O HOH A 907 O HOH A 1095 2.15 REMARK 500 OD2 ASP A 339 O HOH A 606 2.17 REMARK 500 O HOH A 844 O HOH A 963 2.17 REMARK 500 O HOH A 962 O HOH A 1064 2.17 REMARK 500 O HOH A 1047 O HOH A 1051 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 HH22 ARG A 148 HH22 ARG A 148 2455 1.30 REMARK 500 O HOH A 974 O HOH A 974 2556 1.74 REMARK 500 O HOH A 941 O HOH A 1093 2556 1.94 REMARK 500 O HOH A 639 O HOH A 639 2455 1.99 REMARK 500 O HOH A 909 O HOH A 1011 1554 2.02 REMARK 500 O HOH A 1067 O HOH A 1092 4455 2.05 REMARK 500 O HOH A 717 O HOH A 1018 1554 2.10 REMARK 500 O HOH A 1002 O HOH A 1068 4445 2.14 REMARK 500 O HOH A 735 O HOH A 813 4455 2.17 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 ARG A 74 CB ARG A 74 CG -0.206 REMARK 500 CYS A 115 CB CYS A 115 SG -0.105 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND ANGLES REMARK 500 REMARK 500 THE STEREOCHEMICAL PARAMETERS OF THE FOLLOWING RESIDUES REMARK 500 HAVE VALUES WHICH DEVIATE FROM EXPECTED VALUES BY MORE REMARK 500 THAN 6*RMSD (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 500 IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT: (10X,I3,1X,A3,1X,A1,I4,A1,3(1X,A4,2X),12X,F5.1) REMARK 500 REMARK 500 EXPECTED VALUES PROTEIN: ENGH AND HUBER, 1999 REMARK 500 EXPECTED VALUES NUCLEIC ACID: CLOWNEY ET AL 1996 REMARK 500 REMARK 500 M RES CSSEQI ATM1 ATM2 ATM3 REMARK 500 ARG A 83 NE - CZ - NH2 ANGL. DEV. = -5.2 DEGREES REMARK 500 ARG A 252 NE - CZ - NH1 ANGL. DEV. = 3.8 DEGREES REMARK 500 ARG A 252 NE - CZ - NH2 ANGL. DEV. = -4.3 DEGREES REMARK 500 ARG A 316 NE - CZ - NH1 ANGL. DEV. = -4.9 DEGREES REMARK 500 ASP A 322 CB - CG - OD1 ANGL. DEV. = -5.8 DEGREES REMARK 500 ARG A 328 NE - CZ - NH2 ANGL. DEV. = -3.1 DEGREES REMARK 500 ARG A 376 NE - CZ - NH2 ANGL. DEV. = 4.7 DEGREES REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: TORSION ANGLES REMARK 500 REMARK 500 TORSION ANGLES OUTSIDE THE EXPECTED RAMACHANDRAN REGIONS: REMARK 500 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 500 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT:(10X,I3,1X,A3,1X,A1,I4,A1,4X,F7.2,3X,F7.2) REMARK 500 REMARK 500 EXPECTED VALUES: GJ KLEYWEGT AND TA JONES (1996). PHI/PSI- REMARK 500 CHOLOGY: RAMACHANDRAN REVISITED. STRUCTURE 4, 1395 - 1400 REMARK 500 REMARK 500 M RES CSSEQI PSI PHI REMARK 500 PRO A 92 34.58 -88.10 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: PLANAR GROUPS REMARK 500 REMARK 500 PLANAR GROUPS IN THE FOLLOWING RESIDUES HAVE A TOTAL REMARK 500 RMS DISTANCE OF ALL ATOMS FROM THE BEST-FIT PLANE REMARK 500 BY MORE THAN AN EXPECTED VALUE OF 6*RMSD, WITH AN REMARK 500 RMSD 0.02 ANGSTROMS, OR AT LEAST ONE ATOM HAS REMARK 500 AN RMSD GREATER THAN THIS VALUE REMARK 500 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 500 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 M RES CSSEQI RMS TYPE REMARK 500 ARG A 108 0.09 SIDE CHAIN 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 TRP A 501 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue TRS A 502 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue DST A 503 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: NATPRO-GO.131339 RELATED DB: TARGETTRACK DBREF 5INJ A 1 405 PDB 5INJ 5INJ 1 405 SEQRES 1 A 405 MET GLY SER SER HIS HIS HIS HIS HIS HIS SER SER GLY SEQRES 2 A 405 LEU VAL PRO ARG GLY SER HIS MET GLY GLY PRO MET SER SEQRES 3 A 405 GLY PHE HIS SER GLY GLU ALA LEU LEU GLY ASP LEU ALA SEQRES 4 A 405 THR GLY GLN LEU THR ARG LEU CYS GLU VAL ALA GLY LEU SEQRES 5 A 405 THR GLU ALA ASP THR ALA ALA TYR THR GLY VAL LEU ILE SEQRES 6 A 405 GLU SER LEU GLY THR SER ALA GLY ARG PRO LEU SER LEU SEQRES 7 A 405 PRO PRO PRO SER ARG THR PHE LEU SER ASP ASP HIS THR SEQRES 8 A 405 PRO VAL GLU PHE SER LEU ALA PHE LEU PRO GLY ARG ALA SEQRES 9 A 405 PRO HIS LEU ARG VAL LEU VAL GLU PRO GLY CYS SER SER SEQRES 10 A 405 GLY ASP ASP LEU ALA GLU ASN GLY ARG ALA GLY LEU ARG SEQRES 11 A 405 ALA VAL HIS THR MET ALA ASP ARG TRP GLY PHE SER THR SEQRES 12 A 405 GLU GLN LEU ASP ARG LEU GLU ASP LEU PHE PHE PRO SER SEQRES 13 A 405 SER PRO GLU GLY PRO LEU ALA LEU TRP CYS ALA LEU GLU SEQRES 14 A 405 LEU ARG SER GLY GLY VAL PRO GLY VAL LYS VAL TYR LEU SEQRES 15 A 405 ASN PRO ALA ALA ASN GLY ALA ASP ARG ALA ALA GLU THR SEQRES 16 A 405 VAL ARG GLU ALA LEU ALA ARG LEU GLY HIS LEU GLN ALA SEQRES 17 A 405 PHE ASP ALA LEU PRO ARG ALA ASP GLY PHE PRO PHE LEU SEQRES 18 A 405 ALA LEU ASP LEU GLY ASP TRP ASP ALA PRO ARG VAL LYS SEQRES 19 A 405 ILE TYR LEU LYS HIS LEU GLY MET SER ALA ALA ASP ALA SEQRES 20 A 405 GLY SER LEU PRO ARG MET SER PRO ALA PRO SER ARG GLU SEQRES 21 A 405 GLN LEU GLU GLU PHE PHE ARG THR ALA GLY ASP LEU PRO SEQRES 22 A 405 ALA PRO GLY ASP PRO GLY PRO THR GLU ASP THR GLY ARG SEQRES 23 A 405 LEU ALA GLY ARG PRO ALA LEU THR CYS HIS SER PHE THR SEQRES 24 A 405 GLU THR ALA THR GLY ARG PRO SER GLY TYR THR LEU HIS SEQRES 25 A 405 VAL PRO VAL ARG ASP TYR VAL ARG HIS ASP GLY GLU ALA SEQRES 26 A 405 ARG ASP ARG ALA VAL ALA VAL LEU ARG GLU HIS ASP MET SEQRES 27 A 405 ASP SER ALA ALA LEU ASP ARG ALA LEU ALA ALA VAL SER SEQRES 28 A 405 PRO ARG PRO LEU SER ASP GLY VAL GLY LEU ILE ALA TYR SEQRES 29 A 405 LEU ALA LEU VAL HIS GLN ARG GLY ARG PRO THR ARG VAL SEQRES 30 A 405 THR VAL TYR VAL SER SER GLU ALA TYR GLU VAL ARG PRO SEQRES 31 A 405 PRO ARG GLU THR VAL PRO THR ARG ASP ARG ALA ARG ALA SEQRES 32 A 405 ARG LEU HET TRP A 501 27 HET TRS A 502 20 HET DST A 503 23 HETNAM TRP TRYPTOPHAN HETNAM TRS 2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL HETNAM DST DIMETHYLALLYL S-THIOLODIPHOSPHATE HETSYN TRS TRIS BUFFER HETSYN DST DMASPP; DMAPP; DMADP; DIMETHYLALLYL PYROPHOSPHATE; HETSYN 2 DST DIMETHYLALLYL DIPHOSPHATE; ISOPRENYL PYROPHOSPHATE FORMUL 2 TRP C11 H12 N2 O2 FORMUL 3 TRS C4 H12 N O3 1+ FORMUL 4 DST C5 H12 O6 P2 S FORMUL 5 HOH *532(H2 O) HELIX 1 AA1 LEU A 34 ALA A 50 1 17 HELIX 2 AA2 THR A 53 GLY A 69 1 17 HELIX 3 AA3 THR A 70 ARG A 74 5 5 HELIX 4 AA4 GLY A 114 GLY A 118 5 5 HELIX 5 AA5 ASP A 120 GLY A 140 1 21 HELIX 6 AA6 THR A 143 PHE A 154 1 12 HELIX 7 AA7 GLY A 188 ASP A 190 5 3 HELIX 8 AA8 ARG A 191 LEU A 203 1 13 HELIX 9 AA9 GLN A 207 LEU A 212 1 6 HELIX 10 AB1 SER A 243 LEU A 250 1 8 HELIX 11 AB2 SER A 258 ASP A 271 1 14 HELIX 12 AB3 PRO A 314 TYR A 318 5 5 HELIX 13 AB4 HIS A 321 HIS A 336 1 16 HELIX 14 AB5 ASP A 339 SER A 351 1 13 HELIX 15 AB6 PRO A 354 GLY A 358 5 5 SHEET 1 AA111 VAL A 93 PHE A 99 0 SHEET 2 AA111 HIS A 106 VAL A 111 -1 O LEU A 110 N GLU A 94 SHEET 3 AA111 TRP A 165 GLU A 169 -1 O CYS A 166 N VAL A 111 SHEET 4 AA111 GLY A 177 LEU A 182 -1 O GLY A 177 N GLU A 169 SHEET 5 AA111 GLY A 217 LEU A 225 -1 O LEU A 221 N LEU A 182 SHEET 6 AA111 VAL A 233 HIS A 239 -1 O LYS A 234 N ALA A 222 SHEET 7 AA111 ALA A 292 PHE A 298 -1 O THR A 294 N LEU A 237 SHEET 8 AA111 GLY A 308 VAL A 313 -1 O HIS A 312 N LEU A 293 SHEET 9 AA111 ILE A 362 GLN A 370 -1 O LEU A 365 N VAL A 313 SHEET 10 AA111 ARG A 376 SER A 382 -1 O ARG A 376 N VAL A 368 SHEET 11 AA111 VAL A 93 PHE A 99 -1 N PHE A 99 O VAL A 377 CISPEP 1 GLY A 160 PRO A 161 0 14.31 CISPEP 2 SER A 254 PRO A 255 0 -4.95 CISPEP 3 SER A 254 PRO A 255 0 -5.12 CISPEP 4 SER A 254 PRO A 255 0 -4.70 SITE 1 AC1 11 PHE A 85 LEU A 86 GLU A 94 TRP A 165 SITE 2 AC1 11 HIS A 312 ARG A 316 TYR A 364 DST A 503 SITE 3 AC1 11 HOH A 746 HOH A 780 HOH A 807 SITE 1 AC2 3 ALA A 131 THR A 134 HOH A 605 SITE 1 AC3 14 ARG A 108 LEU A 110 LYS A 179 TYR A 181 SITE 2 AC3 14 PHE A 220 ARG A 232 LYS A 234 TYR A 236 SITE 3 AC3 14 HIS A 312 ARG A 376 TYR A 380 TRP A 501 SITE 4 AC3 14 HOH A 666 HOH A 804 CRYST1 105.396 83.422 41.618 90.00 106.74 90.00 C 1 2 1 4 ORIGX1 1.000000 0.000000 0.000000 0.00000 ORIGX2 0.000000 1.000000 0.000000 0.00000 ORIGX3 0.000000 0.000000 1.000000 0.00000 SCALE1 0.009488 0.000000 0.002853 0.00000 SCALE2 0.000000 0.011987 0.000000 0.00000 SCALE3 0.000000 0.000000 0.025091 0.00000