HEADER ISOMERASE 18-AUG-09 3IPT TITLE CRYSTAL STRUCTURE OF KETOSTEROID ISOMERASE Y16S/D40N FROM PSEUDOMONAS TITLE 2 PUTIDA WITH BOUND EQUILENIN COMPND MOL_ID: 1; COMPND 2 MOLECULE: STEROID DELTA-ISOMERASE; COMPND 3 CHAIN: A, B, C, D; COMPND 4 SYNONYM: DELTA(5)-3-KETOSTEROID ISOMERASE; COMPND 5 EC: 5.3.3.1; COMPND 6 ENGINEERED: YES; COMPND 7 MUTATION: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: PSEUDOMONAS PUTIDA; SOURCE 3 ORGANISM_TAXID: 303; SOURCE 4 GENE: KSI; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 6 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 7 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 9 EXPRESSION_SYSTEM_PLASMID: PET21C KEYWDS ENZYME-LIGAND COMPLEX, PROTEIN CAVITY, ISOMERASE, LIPID METABOLISM, KEYWDS 2 STEROID METABOLISM EXPDTA X-RAY DIFFRACTION AUTHOR T.D.FENN,P.A.SIGALA,D.HERSCHLAG REVDAT 4 13-OCT-21 3IPT 1 REMARK SEQADV REVDAT 3 28-APR-10 3IPT 1 JRNL REVDAT 2 09-FEB-10 3IPT 1 JRNL REVDAT 1 12-JAN-10 3IPT 0 JRNL AUTH D.A.KRAUT,P.A.SIGALA,T.D.FENN,D.HERSCHLAG JRNL TITL DISSECTING THE PARADOXICAL EFFECTS OF HYDROGEN BOND JRNL TITL 2 MUTATIONS IN THE KETOSTEROID ISOMERASE OXYANION HOLE. JRNL REF PROC.NATL.ACAD.SCI.USA V. 107 1960 2010 JRNL REFN ISSN 0027-8424 JRNL PMID 20080683 JRNL DOI 10.1073/PNAS.0911168107 REMARK 2 REMARK 2 RESOLUTION. 1.63 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 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 : ML REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.63 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 43.41 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 0.090 REMARK 3 COMPLETENESS FOR RANGE (%) : 82.3 REMARK 3 NUMBER OF REFLECTIONS : 60155 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.209 REMARK 3 R VALUE (WORKING SET) : 0.207 REMARK 3 FREE R VALUE : 0.245 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.030 REMARK 3 FREE R VALUE TEST SET COUNT : 3023 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 43.4236 - 4.5717 0.99 3217 170 0.1821 0.2224 REMARK 3 2 4.5717 - 3.6292 0.99 3143 171 0.1660 0.1879 REMARK 3 3 3.6292 - 3.1706 0.99 3153 166 0.1870 0.2124 REMARK 3 4 3.1706 - 2.8808 1.00 3175 175 0.2149 0.2571 REMARK 3 5 2.8808 - 2.6744 0.99 3119 159 0.2337 0.2914 REMARK 3 6 2.6744 - 2.5167 0.98 3111 160 0.2148 0.2282 REMARK 3 7 2.5167 - 2.3907 0.98 3096 163 0.2146 0.2618 REMARK 3 8 2.3907 - 2.2866 0.98 3092 168 0.2051 0.2354 REMARK 3 9 2.2866 - 2.1986 0.97 3035 156 0.2060 0.2622 REMARK 3 10 2.1986 - 2.1227 0.96 3042 171 0.2098 0.2712 REMARK 3 11 2.1227 - 2.0563 0.96 3024 141 0.2337 0.2562 REMARK 3 12 2.0563 - 1.9976 0.95 3016 145 0.2326 0.2912 REMARK 3 13 1.9976 - 1.9450 0.94 2914 168 0.2454 0.2833 REMARK 3 14 1.9450 - 1.8975 0.92 2911 141 0.2438 0.3207 REMARK 3 15 1.8975 - 1.8544 0.84 2636 138 0.2574 0.3236 REMARK 3 16 1.8544 - 1.8149 0.78 2444 123 0.2688 0.2875 REMARK 3 17 1.8149 - 1.7786 0.70 2182 128 0.2616 0.3346 REMARK 3 18 1.7786 - 1.7451 0.61 1896 109 0.2588 0.3238 REMARK 3 19 1.7451 - 1.7139 0.53 1658 103 0.2666 0.2985 REMARK 3 20 1.7139 - 1.6848 0.43 1323 77 0.2851 0.3040 REMARK 3 21 1.6848 - 1.6577 0.37 1162 52 0.2757 0.3267 REMARK 3 22 1.6577 - 1.6322 0.25 784 39 0.2875 0.3473 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : FLAT BULK SOLVENT MODEL REMARK 3 SOLVENT RADIUS : 1.11 REMARK 3 SHRINKAGE RADIUS : 0.90 REMARK 3 K_SOL : 0.35 REMARK 3 B_SOL : 49.76 REMARK 3 REMARK 3 ERROR ESTIMATES. REMARK 3 COORDINATE ERROR (MAXIMUM-LIKELIHOOD BASED) : 1.290 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 30.970 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 22.09 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 50.79 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -13.86100 REMARK 3 B22 (A**2) : -10.00100 REMARK 3 B33 (A**2) : 7.37500 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 3.96500 REMARK 3 B23 (A**2) : 0.00000 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 : 0.031 4175 REMARK 3 ANGLE : 2.696 5702 REMARK 3 CHIRALITY : 0.211 604 REMARK 3 PLANARITY : 0.015 761 REMARK 3 DIHEDRAL : 18.572 1548 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 1 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: CHAIN D REMARK 3 ORIGIN FOR THE GROUP (A): 12.9794 -5.6705 0.8690 REMARK 3 T TENSOR REMARK 3 T11: 0.1496 T22: 0.1935 REMARK 3 T33: 0.2061 T12: 0.0042 REMARK 3 T13: -0.0070 T23: -0.0178 REMARK 3 L TENSOR REMARK 3 L11: 1.4791 L22: 0.7277 REMARK 3 L33: 0.4273 L12: 0.0779 REMARK 3 L13: 0.1105 L23: -0.4157 REMARK 3 S TENSOR REMARK 3 S11: 0.0105 S12: -0.0310 S13: 0.1063 REMARK 3 S21: 0.0313 S22: -0.1082 S23: -0.1967 REMARK 3 S31: 0.0402 S32: 0.1743 S33: 0.0653 REMARK 3 REMARK 3 NCS DETAILS REMARK 3 NUMBER OF NCS GROUPS : 1 REMARK 3 NCS GROUP : 1 REMARK 3 NCS OPERATOR : 1 REMARK 3 REFERENCE SELECTION: CHAIN A AND (RESSEQ 2:61 OR RESSEQ 65:127 REMARK 3 ) REMARK 3 SELECTION : CHAIN B AND (RESSEQ 2:61 OR RESSEQ 65:127 REMARK 3 ) REMARK 3 ATOM PAIRS NUMBER : 894 REMARK 3 RMSD : 0.225 REMARK 3 NCS OPERATOR : 2 REMARK 3 REFERENCE SELECTION: CHAIN A AND (RESSEQ 2:61 OR RESSEQ 65:127 REMARK 3 ) REMARK 3 SELECTION : CHAIN C AND (RESSEQ 2:61 OR RESSEQ 65:127 REMARK 3 ) REMARK 3 ATOM PAIRS NUMBER : 971 REMARK 3 RMSD : 0.182 REMARK 3 NCS OPERATOR : 3 REMARK 3 REFERENCE SELECTION: CHAIN A AND (RESSEQ 2:61 OR RESSEQ 65:127 REMARK 3 ) REMARK 3 SELECTION : CHAIN D AND (RESSEQ 2:61 OR RESSEQ 65:127 REMARK 3 ) REMARK 3 ATOM PAIRS NUMBER : 923 REMARK 3 RMSD : 0.191 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 3IPT COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 25-AUG-09. REMARK 100 THE DEPOSITION ID IS D_1000054713. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 19-NOV-08 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7.2 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : ALS REMARK 200 BEAMLINE : 8.2.2 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.0 REMARK 200 MONOCHROMATOR : DOUBLE CRYSTAL, SI(111) REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 315 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 60155 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.630 REMARK 200 RESOLUTION RANGE LOW (A) : 43.410 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 82.3 REMARK 200 DATA REDUNDANCY : NULL REMARK 200 R MERGE (I) : 0.16600 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 9.7000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.63 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : NULL REMARK 200 COMPLETENESS FOR SHELL (%) : NULL REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : 0.16600 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 9.700 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHASER REMARK 200 STARTING MODEL: PDB 2PZV REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 52.28 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.58 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.9 M AMMONIUM SULFATE, 40 MM REMARK 280 POTASSIUM PHOSPHATE, PH 7.2, HANGING DROP, TEMPERATURE 293K, REMARK 280 VAPOR DIFFUSION, HANGING DROP REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 1 21 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,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 36.20050 REMARK 290 SMTRY3 2 0.000000 0.000000 -1.000000 0.00000 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1, 2 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 300 REMARK: THE BIOLOGICAL UNIT IS A DIMER. THERE ARE 2 BIOLOGICAL REMARK 300 UNITS IN THE ASYMMETRIC UNIT (CHAINS A & B AND CHAINS C & D). 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 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 2420 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 12620 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -11.0 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 REMARK 350 BIOMOLECULE: 2 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 2500 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 12540 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -11.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: C, D 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 62 REMARK 465 GLY A 63 REMARK 465 GLY A 64 REMARK 465 GLU A 129 REMARK 465 PRO A 130 REMARK 465 GLN A 131 REMARK 465 MET B 1 REMARK 465 GLY B 62 REMARK 465 GLY B 63 REMARK 465 GLY B 64 REMARK 465 ARG B 128 REMARK 465 GLU B 129 REMARK 465 PRO B 130 REMARK 465 GLN B 131 REMARK 465 MET C 1 REMARK 465 GLY C 62 REMARK 465 GLY C 63 REMARK 465 GLY C 64 REMARK 465 ARG C 128 REMARK 465 GLU C 129 REMARK 465 PRO C 130 REMARK 465 GLN C 131 REMARK 465 MET D 1 REMARK 465 GLY D 62 REMARK 465 GLY D 63 REMARK 465 GLY D 64 REMARK 465 ARG D 128 REMARK 465 GLU D 129 REMARK 465 PRO D 130 REMARK 465 GLN D 131 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 C 39 O HOH C 158 1.97 REMARK 500 NH1 ARG B 106 O HOH B 163 2.04 REMARK 500 ND2 ASN C 93 O HOH C 221 2.09 REMARK 500 OG SER B 77 ND2 ASN B 79 2.15 REMARK 500 O HOH A 172 O HOH A 182 2.18 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 OD1 ASN C 93 O26 EQU D 1128 2555 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 PHE A 56 CZ PHE A 56 CE2 0.123 REMARK 500 SER A 77 CB SER A 77 OG 0.110 REMARK 500 ASN A 79 CB ASN A 79 CG 0.175 REMARK 500 CYS A 97 CB CYS A 97 SG -0.160 REMARK 500 VAL B 74 CA VAL B 74 CB 0.128 REMARK 500 SER B 77 CB SER B 77 OG 0.145 REMARK 500 PHE B 86 CE2 PHE B 86 CD2 0.177 REMARK 500 CYS B 97 CB CYS B 97 SG -0.099 REMARK 500 PHE B 107 CG PHE B 107 CD1 0.105 REMARK 500 TRP B 120 CE3 TRP B 120 CZ3 0.122 REMARK 500 TYR C 32 CG TYR C 32 CD1 0.090 REMARK 500 VAL C 104 CB VAL C 104 CG1 -0.134 REMARK 500 ARG D 75 CZ ARG D 75 NH2 0.081 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 LEU A 3 CB - CG - CD1 ANGL. DEV. = 11.2 DEGREES REMARK 500 ARG A 58 NE - CZ - NH1 ANGL. DEV. = 3.6 DEGREES REMARK 500 CYS A 97 CB - CA - C ANGL. DEV. = 8.2 DEGREES REMARK 500 ARG A 106 NE - CZ - NH1 ANGL. DEV. = 5.0 DEGREES REMARK 500 ARG A 106 NE - CZ - NH2 ANGL. DEV. = -6.9 DEGREES REMARK 500 MET A 116 CA - CB - CG ANGL. DEV. = -10.9 DEGREES REMARK 500 LEU A 125 CB - CG - CD1 ANGL. DEV. = -11.1 DEGREES REMARK 500 ARG A 128 NE - CZ - NH2 ANGL. DEV. = 5.3 DEGREES REMARK 500 TYR B 32 CB - CG - CD2 ANGL. DEV. = -4.4 DEGREES REMARK 500 ARG B 106 NE - CZ - NH1 ANGL. DEV. = 7.6 DEGREES REMARK 500 ARG B 106 NE - CZ - NH2 ANGL. DEV. = -8.5 DEGREES REMARK 500 GLU B 122 OE1 - CD - OE2 ANGL. DEV. = 8.0 DEGREES REMARK 500 ASP C 24 CB - CG - OD2 ANGL. DEV. = 6.3 DEGREES REMARK 500 ARG C 75 NE - CZ - NH1 ANGL. DEV. = -5.3 DEGREES REMARK 500 LEU C 99 CB - CG - CD1 ANGL. DEV. = 10.2 DEGREES REMARK 500 ASP C 103 CB - CG - OD1 ANGL. DEV. = 5.5 DEGREES REMARK 500 LEU C 125 CB - CG - CD1 ANGL. DEV. = -15.7 DEGREES REMARK 500 TYR D 32 CB - CG - CD2 ANGL. DEV. = -4.1 DEGREES REMARK 500 ARG D 106 NE - CZ - NH1 ANGL. DEV. = 4.9 DEGREES REMARK 500 ARG D 106 NE - CZ - NH2 ANGL. DEV. = -4.4 DEGREES REMARK 500 LEU D 125 CB - CG - CD1 ANGL. DEV. = -16.2 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 ASN A 93 63.88 38.57 REMARK 500 TRP A 120 168.05 179.51 REMARK 500 ALA C 33 157.52 -45.96 REMARK 500 ALA C 36 153.17 -42.67 REMARK 500 PHE C 42 127.76 -39.99 REMARK 500 ASN C 93 65.48 35.49 REMARK 500 GLU D 51 -70.65 -53.94 REMARK 500 ASN D 93 69.99 37.76 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 TRP A 120 -10.18 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 EQU A 1128 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EQU B 1128 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EQU C 1128 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EQU D 1128 DBREF 3IPT A 1 131 UNP P07445 SDIS_PSEPU 1 131 DBREF 3IPT B 1 131 UNP P07445 SDIS_PSEPU 1 131 DBREF 3IPT C 1 131 UNP P07445 SDIS_PSEPU 1 131 DBREF 3IPT D 1 131 UNP P07445 SDIS_PSEPU 1 131 SEQADV 3IPT SER A 16 UNP P07445 TYR 16 ENGINEERED MUTATION SEQADV 3IPT ASN A 40 UNP P07445 ASP 40 ENGINEERED MUTATION SEQADV 3IPT SER B 16 UNP P07445 TYR 16 ENGINEERED MUTATION SEQADV 3IPT ASN B 40 UNP P07445 ASP 40 ENGINEERED MUTATION SEQADV 3IPT SER C 16 UNP P07445 TYR 16 ENGINEERED MUTATION SEQADV 3IPT ASN C 40 UNP P07445 ASP 40 ENGINEERED MUTATION SEQADV 3IPT SER D 16 UNP P07445 TYR 16 ENGINEERED MUTATION SEQADV 3IPT ASN D 40 UNP P07445 ASP 40 ENGINEERED MUTATION SEQRES 1 A 131 MET ASN LEU PRO THR ALA GLN GLU VAL GLN GLY LEU MET SEQRES 2 A 131 ALA ARG SER ILE GLU LEU VAL ASP VAL GLY ASP ILE GLU SEQRES 3 A 131 ALA ILE VAL GLN MET TYR ALA ASP ASP ALA THR VAL GLU SEQRES 4 A 131 ASN PRO PHE GLY GLN PRO PRO ILE HIS GLY ARG GLU GLN SEQRES 5 A 131 ILE ALA ALA PHE TYR ARG GLN GLY LEU GLY GLY GLY LYS SEQRES 6 A 131 VAL ARG ALA CYS LEU THR GLY PRO VAL ARG ALA SER HIS SEQRES 7 A 131 ASN GLY CYS GLY ALA MET PRO PHE ARG VAL GLU MET VAL SEQRES 8 A 131 TRP ASN GLY GLN PRO CYS ALA LEU ASP VAL ILE ASP VAL SEQRES 9 A 131 MET ARG PHE ASP GLU HIS GLY ARG ILE GLN THR MET GLN SEQRES 10 A 131 ALA TYR TRP SER GLU VAL ASN LEU SER VAL ARG GLU PRO SEQRES 11 A 131 GLN SEQRES 1 B 131 MET ASN LEU PRO THR ALA GLN GLU VAL GLN GLY LEU MET SEQRES 2 B 131 ALA ARG SER ILE GLU LEU VAL ASP VAL GLY ASP ILE GLU SEQRES 3 B 131 ALA ILE VAL GLN MET TYR ALA ASP ASP ALA THR VAL GLU SEQRES 4 B 131 ASN PRO PHE GLY GLN PRO PRO ILE HIS GLY ARG GLU GLN SEQRES 5 B 131 ILE ALA ALA PHE TYR ARG GLN GLY LEU GLY GLY GLY LYS SEQRES 6 B 131 VAL ARG ALA CYS LEU THR GLY PRO VAL ARG ALA SER HIS SEQRES 7 B 131 ASN GLY CYS GLY ALA MET PRO PHE ARG VAL GLU MET VAL SEQRES 8 B 131 TRP ASN GLY GLN PRO CYS ALA LEU ASP VAL ILE ASP VAL SEQRES 9 B 131 MET ARG PHE ASP GLU HIS GLY ARG ILE GLN THR MET GLN SEQRES 10 B 131 ALA TYR TRP SER GLU VAL ASN LEU SER VAL ARG GLU PRO SEQRES 11 B 131 GLN SEQRES 1 C 131 MET ASN LEU PRO THR ALA GLN GLU VAL GLN GLY LEU MET SEQRES 2 C 131 ALA ARG SER ILE GLU LEU VAL ASP VAL GLY ASP ILE GLU SEQRES 3 C 131 ALA ILE VAL GLN MET TYR ALA ASP ASP ALA THR VAL GLU SEQRES 4 C 131 ASN PRO PHE GLY GLN PRO PRO ILE HIS GLY ARG GLU GLN SEQRES 5 C 131 ILE ALA ALA PHE TYR ARG GLN GLY LEU GLY GLY GLY LYS SEQRES 6 C 131 VAL ARG ALA CYS LEU THR GLY PRO VAL ARG ALA SER HIS SEQRES 7 C 131 ASN GLY CYS GLY ALA MET PRO PHE ARG VAL GLU MET VAL SEQRES 8 C 131 TRP ASN GLY GLN PRO CYS ALA LEU ASP VAL ILE ASP VAL SEQRES 9 C 131 MET ARG PHE ASP GLU HIS GLY ARG ILE GLN THR MET GLN SEQRES 10 C 131 ALA TYR TRP SER GLU VAL ASN LEU SER VAL ARG GLU PRO SEQRES 11 C 131 GLN SEQRES 1 D 131 MET ASN LEU PRO THR ALA GLN GLU VAL GLN GLY LEU MET SEQRES 2 D 131 ALA ARG SER ILE GLU LEU VAL ASP VAL GLY ASP ILE GLU SEQRES 3 D 131 ALA ILE VAL GLN MET TYR ALA ASP ASP ALA THR VAL GLU SEQRES 4 D 131 ASN PRO PHE GLY GLN PRO PRO ILE HIS GLY ARG GLU GLN SEQRES 5 D 131 ILE ALA ALA PHE TYR ARG GLN GLY LEU GLY GLY GLY LYS SEQRES 6 D 131 VAL ARG ALA CYS LEU THR GLY PRO VAL ARG ALA SER HIS SEQRES 7 D 131 ASN GLY CYS GLY ALA MET PRO PHE ARG VAL GLU MET VAL SEQRES 8 D 131 TRP ASN GLY GLN PRO CYS ALA LEU ASP VAL ILE ASP VAL SEQRES 9 D 131 MET ARG PHE ASP GLU HIS GLY ARG ILE GLN THR MET GLN SEQRES 10 D 131 ALA TYR TRP SER GLU VAL ASN LEU SER VAL ARG GLU PRO SEQRES 11 D 131 GLN HET EQU A1128 20 HET EQU B1128 20 HET EQU C1128 20 HET EQU D1128 20 HETNAM EQU EQUILENIN FORMUL 5 EQU 4(C18 H18 O2) FORMUL 9 HOH *221(H2 O) HELIX 1 1 THR A 5 GLY A 23 1 19 HELIX 2 2 ASP A 24 MET A 31 1 8 HELIX 3 3 GLY A 49 LEU A 61 1 13 HELIX 4 4 SER A 121 VAL A 123 5 3 HELIX 5 5 THR B 5 GLY B 23 1 19 HELIX 6 6 ASP B 24 MET B 31 1 8 HELIX 7 7 GLY B 49 LEU B 61 1 13 HELIX 8 8 SER B 121 VAL B 123 5 3 HELIX 9 9 THR C 5 GLY C 23 1 19 HELIX 10 10 ASP C 24 MET C 31 1 8 HELIX 11 11 GLY C 49 LEU C 61 1 13 HELIX 12 12 SER C 121 VAL C 123 5 3 HELIX 13 13 THR D 5 GLY D 23 1 19 HELIX 14 14 ASP D 24 MET D 31 1 8 HELIX 15 15 GLY D 49 LEU D 61 1 13 HELIX 16 16 SER D 121 VAL D 123 5 3 SHEET 1 A 6 ILE A 47 HIS A 48 0 SHEET 2 A 6 TYR A 32 GLU A 39 -1 N VAL A 38 O ILE A 47 SHEET 3 A 6 ILE A 113 TYR A 119 1 O ILE A 113 N ALA A 33 SHEET 4 A 6 GLN A 95 PHE A 107 -1 N ILE A 102 O TYR A 119 SHEET 5 A 6 CYS A 81 TRP A 92 -1 N GLY A 82 O MET A 105 SHEET 6 A 6 ARG A 75 ALA A 76 -1 N ARG A 75 O ALA A 83 SHEET 1 B 4 ARG A 67 LEU A 70 0 SHEET 2 B 4 CYS A 81 TRP A 92 -1 O GLU A 89 N ARG A 67 SHEET 3 B 4 GLN A 95 PHE A 107 -1 O MET A 105 N GLY A 82 SHEET 4 B 4 LEU A 125 VAL A 127 -1 O SER A 126 N ALA A 98 SHEET 1 C 6 ILE B 47 HIS B 48 0 SHEET 2 C 6 TYR B 32 GLU B 39 -1 N VAL B 38 O ILE B 47 SHEET 3 C 6 ILE B 113 TYR B 119 1 O MET B 116 N GLU B 39 SHEET 4 C 6 PRO B 96 PHE B 107 -1 N ILE B 102 O TYR B 119 SHEET 5 C 6 CYS B 81 VAL B 91 -1 N PHE B 86 O VAL B 101 SHEET 6 C 6 ARG B 75 ALA B 76 -1 N ARG B 75 O ALA B 83 SHEET 1 D 4 ARG B 67 LEU B 70 0 SHEET 2 D 4 CYS B 81 VAL B 91 -1 O GLU B 89 N ARG B 67 SHEET 3 D 4 PRO B 96 PHE B 107 -1 O VAL B 101 N PHE B 86 SHEET 4 D 4 LEU B 125 SER B 126 -1 O SER B 126 N ALA B 98 SHEET 1 E 6 ILE C 47 HIS C 48 0 SHEET 2 E 6 TYR C 32 GLU C 39 -1 N VAL C 38 O ILE C 47 SHEET 3 E 6 ILE C 113 TYR C 119 1 O ALA C 118 N GLU C 39 SHEET 4 E 6 GLN C 95 PHE C 107 -1 N ILE C 102 O TYR C 119 SHEET 5 E 6 CYS C 81 TRP C 92 -1 N MET C 90 O CYS C 97 SHEET 6 E 6 ARG C 75 ALA C 76 -1 N ARG C 75 O ALA C 83 SHEET 1 F 4 ARG C 67 LEU C 70 0 SHEET 2 F 4 CYS C 81 TRP C 92 -1 O GLU C 89 N ARG C 67 SHEET 3 F 4 GLN C 95 PHE C 107 -1 O CYS C 97 N MET C 90 SHEET 4 F 4 LEU C 125 SER C 126 -1 O SER C 126 N ALA C 98 SHEET 1 G 6 ILE D 47 HIS D 48 0 SHEET 2 G 6 TYR D 32 GLU D 39 -1 N VAL D 38 O ILE D 47 SHEET 3 G 6 ILE D 113 TYR D 119 1 O ALA D 118 N GLU D 39 SHEET 4 G 6 GLN D 95 PHE D 107 -1 N ILE D 102 O TYR D 119 SHEET 5 G 6 CYS D 81 TRP D 92 -1 N MET D 90 O CYS D 97 SHEET 6 G 6 ARG D 75 ALA D 76 -1 N ARG D 75 O ALA D 83 SHEET 1 H 4 ARG D 67 LEU D 70 0 SHEET 2 H 4 CYS D 81 TRP D 92 -1 O GLU D 89 N ARG D 67 SHEET 3 H 4 GLN D 95 PHE D 107 -1 O CYS D 97 N MET D 90 SHEET 4 H 4 LEU D 125 SER D 126 -1 O SER D 126 N ALA D 98 CISPEP 1 ASN A 40 PRO A 41 0 1.88 CISPEP 2 ASN B 40 PRO B 41 0 -0.55 CISPEP 3 ASN C 40 PRO C 41 0 -0.16 CISPEP 4 ASN D 40 PRO D 41 0 -4.18 SITE 1 AC1 8 ASN A 40 PHE A 86 MET A 90 LEU A 99 SITE 2 AC1 8 ASP A 103 MET A 116 TRP A 120 HOH A 174 SITE 1 AC2 7 ASN B 40 PHE B 86 MET B 90 LEU B 99 SITE 2 AC2 7 ASP B 103 MET B 116 TRP B 120 SITE 1 AC3 8 ASN C 40 PHE C 56 PHE C 86 MET C 90 SITE 2 AC3 8 LEU C 99 ASP C 103 MET C 116 TRP C 120 SITE 1 AC4 5 ASN D 40 PHE D 86 MET D 90 ASP D 103 SITE 2 AC4 5 MET D 116 CRYST1 50.694 72.401 81.328 90.00 91.16 90.00 P 1 21 1 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 0.019726 0.000000 0.000399 0.00000 SCALE2 0.000000 0.013812 0.000000 0.00000 SCALE3 0.000000 0.000000 0.012298 0.00000 MASTER 454 0 4 16 40 0 8 6 0 0 0 44 END