HEADER OXIDOREDUCTASE 23-DEC-09 3L6D TITLE CRYSTAL STRUCTURE OF PUTATIVE OXIDOREDUCTASE FROM PSEUDOMONAS PUTIDA TITLE 2 KT2440 COMPND MOL_ID: 1; COMPND 2 MOLECULE: PUTATIVE OXIDOREDUCTASE; COMPND 3 CHAIN: A, B; COMPND 4 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: PSEUDOMONAS PUTIDA; SOURCE 3 ORGANISM_TAXID: 160488; SOURCE 4 STRAIN: KT2440; SOURCE 5 GENE: NP_744942.1, PP2798; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21(DE3)CODON+RIL; SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: BC-PSGX3(BC) KEYWDS STRUCTURAL GENOMICS, PROTEIN STRUCTURE INITIATIVE, OXIDOREDUCTASE, KEYWDS 2 PSI-2, NEW YORK SGX RESEARCH CENTER FOR STRUCTURAL GENOMICS, NYSGXRC EXPDTA X-RAY DIFFRACTION AUTHOR V.N.MALASHKEVICH,Y.PATSKOVSKY,R.TORO,J.M.SAUDER,S.K.BURLEY,S.C.ALMO, AUTHOR 2 NEW YORK SGX RESEARCH CENTER FOR STRUCTURAL GENOMICS (NYSGXRC) REVDAT 9 30-OCT-24 3L6D 1 REMARK REVDAT 8 10-FEB-21 3L6D 1 AUTHOR JRNL SEQADV LINK REVDAT 7 21-NOV-18 3L6D 1 AUTHOR REVDAT 6 01-NOV-17 3L6D 1 REMARK REVDAT 5 20-MAY-15 3L6D 1 JRNL REVDAT 4 24-OCT-12 3L6D 1 AUTHOR JRNL REVDAT 3 13-JUL-11 3L6D 1 VERSN REVDAT 2 22-DEC-10 3L6D 1 AUTHOR KEYWDS REVDAT 1 12-JAN-10 3L6D 0 JRNL AUTH V.N.MALASHKEVICH,Y.PATSKOVSKY,R.TORO,J.M.SAUDER,S.K.BURLEY, JRNL AUTH 2 S.C.ALMO JRNL TITL CRYSTAL STRUCTURE OF PUTATIVE OXIDOREDUCTASE FROM JRNL TITL 2 PSEUDOMONAS PUTIDA KT2440 JRNL REF TO BE PUBLISHED JRNL REFN REMARK 1 REMARK 1 REFERENCE 1 REMARK 1 AUTH M.GAND,H.MULLER,R.WARDENGA,M.HOHNE REMARK 1 TITL CHARACTERIZATION OF THREE NOVEL ENZYMES WITH IMINE REDUCTASE REMARK 1 TITL 2 ACTIVITY REMARK 1 REF J.MOL.CATAL., B ENZYM. V. 110 126 2015 REMARK 1 REFN ISSN 1381-1177 REMARK 1 DOI 10.1016/J.MOLCATB.2014.09.017 REMARK 2 REMARK 2 RESOLUTION. 1.90 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN REMARK 3 REMARK 3 REFINEMENT TARGET : MAXIMUM LIKELIHOOD REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.90 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 19.94 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 98.5 REMARK 3 NUMBER OF REFLECTIONS : 51537 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 CROSS-VALIDATION METHOD : THROUGHOUT REMARK 3 FREE R VALUE TEST SET SELECTION : RANDOM REMARK 3 R VALUE (WORKING + TEST SET) : 0.211 REMARK 3 R VALUE (WORKING SET) : 0.208 REMARK 3 FREE R VALUE : 0.260 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 2610 REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 20 REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 1.90 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.95 REMARK 3 REFLECTION IN BIN (WORKING SET) : 3278 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 91.35 REMARK 3 BIN R VALUE (WORKING SET) : 0.5030 REMARK 3 BIN FREE R VALUE SET COUNT : 186 REMARK 3 BIN FREE R VALUE : 0.5090 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 4438 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 0 REMARK 3 SOLVENT ATOMS : 314 REMARK 3 REMARK 3 B VALUES. REMARK 3 B VALUE TYPE : LIKELY RESIDUAL REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 31.43 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.06000 REMARK 3 B22 (A**2) : 0.25000 REMARK 3 B33 (A**2) : -0.20000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : -0.10000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.162 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.158 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.122 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 9.393 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.957 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.934 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 4565 ; 0.015 ; 0.021 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 6202 ; 1.455 ; 1.925 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 594 ; 5.458 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 208 ;36.562 ;23.221 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 700 ;16.298 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 32 ;17.030 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 705 ; 0.107 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 3510 ; 0.007 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) OTHERS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 MAIN-CHAIN BOND REFINED ATOMS (A**2): 2919 ; 1.302 ; 3.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 4629 ; 3.963 ;50.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1646 ; 8.571 ;50.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1570 ; 1.555 ; 4.500 REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 ANISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 RIGID-BOND RESTRAINTS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; FREE ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; BONDED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 NCS RESTRAINTS STATISTICS REMARK 3 NUMBER OF DIFFERENT NCS GROUPS : 1 REMARK 3 REMARK 3 NCS GROUP NUMBER : 1 REMARK 3 CHAIN NAMES : A B REMARK 3 NUMBER OF COMPONENTS NCS GROUP : 1 REMARK 3 COMPONENT C SSSEQI TO C SSSEQI CODE REMARK 3 1 A 99999 A 99999 1 REMARK 3 1 B 99999 B 99999 1 REMARK 3 GROUP CHAIN COUNT RMS WEIGHT REMARK 3 TIGHT POSITIONAL 1 A (A): 2181 ; 0.630 ; 5.000 REMARK 3 TIGHT THERMAL 1 A (A**2): 2181 ; 2.640 ;10.000 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 2 REMARK 3 REMARK 3 TLS GROUP : 1 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 2 A 294 REMARK 3 ORIGIN FOR THE GROUP (A): 32.7463 16.4393 33.0506 REMARK 3 T TENSOR REMARK 3 T11: 0.0733 T22: 0.0384 REMARK 3 T33: 0.0687 T12: 0.0215 REMARK 3 T13: 0.0016 T23: 0.0214 REMARK 3 L TENSOR REMARK 3 L11: 1.3130 L22: 0.2256 REMARK 3 L33: 0.6538 L12: 0.3932 REMARK 3 L13: 0.4775 L23: 0.3126 REMARK 3 S TENSOR REMARK 3 S11: 0.0668 S12: -0.1367 S13: -0.0361 REMARK 3 S21: 0.0129 S22: -0.0655 S23: -0.0214 REMARK 3 S31: 0.1269 S32: -0.0281 S33: -0.0012 REMARK 3 REMARK 3 TLS GROUP : 2 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : B 2 B 296 REMARK 3 ORIGIN FOR THE GROUP (A): 5.3799 14.9601 17.8994 REMARK 3 T TENSOR REMARK 3 T11: 0.0885 T22: 0.0085 REMARK 3 T33: 0.0655 T12: -0.0104 REMARK 3 T13: 0.0134 T23: -0.0082 REMARK 3 L TENSOR REMARK 3 L11: 1.6755 L22: 0.2626 REMARK 3 L33: 0.6373 L12: -0.2006 REMARK 3 L13: 0.4701 L23: -0.2520 REMARK 3 S TENSOR REMARK 3 S11: 0.0715 S12: -0.0282 S13: -0.0436 REMARK 3 S21: 0.0233 S22: -0.0352 S23: 0.0322 REMARK 3 S31: 0.0661 S32: 0.0400 S33: -0.0363 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : BABINET MODEL WITH MASK REMARK 3 PARAMETERS FOR MASK CALCULATION REMARK 3 VDW PROBE RADIUS : 1.40 REMARK 3 ION PROBE RADIUS : 0.80 REMARK 3 SHRINKAGE RADIUS : 0.80 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: HYDROGENS HAVE BEEN ADDED IN THE RIDING REMARK 3 POSITIONS, U VALUES RESIDUAL ONLY REMARK 4 REMARK 4 3L6D COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 04-JAN-10. REMARK 100 THE DEPOSITION ID IS D_1000056889. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 19-NOV-09 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : NSLS REMARK 200 BEAMLINE : X29A REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : NULL REMARK 200 WAVELENGTH OR RANGE (A) : 0.9791 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 315 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO, HKL-2000 REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 51537 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.760 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 96.3 REMARK 200 DATA REDUNDANCY : 3.000 REMARK 200 R MERGE (I) : 0.08200 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 5.0000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.76 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.82 REMARK 200 COMPLETENESS FOR SHELL (%) : 89.5 REMARK 200 DATA REDUNDANCY IN SHELL : 2.70 REMARK 200 R MERGE FOR SHELL (I) : 0.76500 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> FOR SHELL : NULL REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: SAD REMARK 200 SOFTWARE USED: SHELX, SHELXD REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 50.31 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.48 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 100MM HEPES PH 7.5, 25% PEG 3350, REMARK 280 200MM MAGNESIUM CHLORIDE HEXAHYDRATE, VAPOR DIFFUSION, SITTING REMARK 280 DROP, TEMPERATURE 298K 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 18.82350 REMARK 290 SMTRY3 2 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 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 8770 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 24300 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -84.0 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 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 MSE A 1 REMARK 465 ARG A 295 REMARK 465 GLU A 296 REMARK 465 GLN A 297 REMARK 465 GLU A 298 REMARK 465 GLU A 299 REMARK 465 GLY A 300 REMARK 465 HIS A 301 REMARK 465 HIS A 302 REMARK 465 HIS A 303 REMARK 465 HIS A 304 REMARK 465 HIS A 305 REMARK 465 HIS A 306 REMARK 465 MSE B 1 REMARK 465 GLN B 297 REMARK 465 GLU B 298 REMARK 465 GLU B 299 REMARK 465 GLY B 300 REMARK 465 HIS B 301 REMARK 465 HIS B 302 REMARK 465 HIS B 303 REMARK 465 HIS B 304 REMARK 465 HIS B 305 REMARK 465 HIS B 306 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 B 349 O HOH B 446 2.16 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 NH2 ARG B 90 OE1 GLU B 296 2555 2.18 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 114 CA - CB - CG ANGL. DEV. = 15.5 DEGREES REMARK 500 LEU A 242 CA - CB - CG ANGL. DEV. = 15.2 DEGREES REMARK 500 LEU B 3 CA - CB - CG ANGL. DEV. = 15.0 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 ASP A 106 -19.29 96.31 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: NON-CIS, NON-TRANS REMARK 500 REMARK 500 THE FOLLOWING PEPTIDE BONDS DEVIATE SIGNIFICANTLY FROM BOTH REMARK 500 CIS AND TRANS CONFORMATION. CIS BONDS, IF ANY, ARE LISTED REMARK 500 ON CISPEP RECORDS. TRANS IS DEFINED AS 180 +/- 30 AND REMARK 500 CIS IS DEFINED AS 0 +/- 30 DEGREES. REMARK 500 MODEL OMEGA REMARK 500 THR B 102 ASN B 103 -148.04 REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: NYSGXRC-11130D RELATED DB: TARGETDB DBREF 3L6D A 4 301 UNP Q88J51 Q88J51_PSEPK 5 302 DBREF 3L6D B 4 301 UNP Q88J51 Q88J51_PSEPK 5 302 SEQADV 3L6D MSE A 1 UNP Q88J51 EXPRESSION TAG SEQADV 3L6D SER A 2 UNP Q88J51 EXPRESSION TAG SEQADV 3L6D LEU A 3 UNP Q88J51 EXPRESSION TAG SEQADV 3L6D GLU A 299 UNP Q88J51 PRO 300 CONFLICT SEQADV 3L6D HIS A 302 UNP Q88J51 EXPRESSION TAG SEQADV 3L6D HIS A 303 UNP Q88J51 EXPRESSION TAG SEQADV 3L6D HIS A 304 UNP Q88J51 EXPRESSION TAG SEQADV 3L6D HIS A 305 UNP Q88J51 EXPRESSION TAG SEQADV 3L6D HIS A 306 UNP Q88J51 EXPRESSION TAG SEQADV 3L6D MSE B 1 UNP Q88J51 EXPRESSION TAG SEQADV 3L6D SER B 2 UNP Q88J51 EXPRESSION TAG SEQADV 3L6D LEU B 3 UNP Q88J51 EXPRESSION TAG SEQADV 3L6D GLU B 299 UNP Q88J51 PRO 300 CONFLICT SEQADV 3L6D HIS B 302 UNP Q88J51 EXPRESSION TAG SEQADV 3L6D HIS B 303 UNP Q88J51 EXPRESSION TAG SEQADV 3L6D HIS B 304 UNP Q88J51 EXPRESSION TAG SEQADV 3L6D HIS B 305 UNP Q88J51 EXPRESSION TAG SEQADV 3L6D HIS B 306 UNP Q88J51 EXPRESSION TAG SEQRES 1 A 306 MSE SER LEU SER ASP GLU SER PHE GLU PHE ASP VAL SER SEQRES 2 A 306 VAL ILE GLY LEU GLY ALA MSE GLY THR ILE MSE ALA GLN SEQRES 3 A 306 VAL LEU LEU LYS GLN GLY LYS ARG VAL ALA ILE TRP ASN SEQRES 4 A 306 ARG SER PRO GLY LYS ALA ALA ALA LEU VAL ALA ALA GLY SEQRES 5 A 306 ALA HIS LEU CYS GLU SER VAL LYS ALA ALA LEU SER ALA SEQRES 6 A 306 SER PRO ALA THR ILE PHE VAL LEU LEU ASP ASN HIS ALA SEQRES 7 A 306 THR HIS GLU VAL LEU GLY MSE PRO GLY VAL ALA ARG ALA SEQRES 8 A 306 LEU ALA HIS ARG THR ILE VAL ASP TYR THR THR ASN ALA SEQRES 9 A 306 GLN ASP GLU GLY LEU ALA LEU GLN GLY LEU VAL ASN GLN SEQRES 10 A 306 ALA GLY GLY HIS TYR VAL LYS GLY MSE ILE VAL ALA TYR SEQRES 11 A 306 PRO ARG ASN VAL GLY HIS ARG GLU SER HIS SER ILE HIS SEQRES 12 A 306 THR GLY ASP ARG GLU ALA PHE GLU GLN HIS ARG ALA LEU SEQRES 13 A 306 LEU GLU GLY LEU ALA GLY HIS THR VAL PHE LEU PRO TRP SEQRES 14 A 306 ASP GLU ALA LEU ALA PHE ALA THR VAL LEU HIS ALA HIS SEQRES 15 A 306 ALA PHE ALA ALA MSE VAL THR PHE PHE GLU ALA VAL GLY SEQRES 16 A 306 ALA GLY ASP ARG PHE GLY LEU PRO VAL SER LYS THR ALA SEQRES 17 A 306 ARG LEU LEU LEU GLU THR SER ARG PHE PHE VAL ALA ASP SEQRES 18 A 306 ALA LEU GLU GLU ALA VAL ARG ARG LEU GLU THR GLN ASP SEQRES 19 A 306 PHE LYS GLY ASP GLN ALA ARG LEU ASP VAL HIS ALA ASP SEQRES 20 A 306 ALA PHE ALA HIS ILE ALA GLN SER LEU HIS ALA GLN GLY SEQRES 21 A 306 VAL TRP THR PRO VAL PHE ASP ALA VAL CYS GLN VAL VAL SEQRES 22 A 306 GLN ARG ALA ALA ALA MSE GLY TYR GLY ASP GLN ASP ILE SEQRES 23 A 306 ALA ALA THR THR LYS SER PHE ALA ARG GLU GLN GLU GLU SEQRES 24 A 306 GLY HIS HIS HIS HIS HIS HIS SEQRES 1 B 306 MSE SER LEU SER ASP GLU SER PHE GLU PHE ASP VAL SER SEQRES 2 B 306 VAL ILE GLY LEU GLY ALA MSE GLY THR ILE MSE ALA GLN SEQRES 3 B 306 VAL LEU LEU LYS GLN GLY LYS ARG VAL ALA ILE TRP ASN SEQRES 4 B 306 ARG SER PRO GLY LYS ALA ALA ALA LEU VAL ALA ALA GLY SEQRES 5 B 306 ALA HIS LEU CYS GLU SER VAL LYS ALA ALA LEU SER ALA SEQRES 6 B 306 SER PRO ALA THR ILE PHE VAL LEU LEU ASP ASN HIS ALA SEQRES 7 B 306 THR HIS GLU VAL LEU GLY MSE PRO GLY VAL ALA ARG ALA SEQRES 8 B 306 LEU ALA HIS ARG THR ILE VAL ASP TYR THR THR ASN ALA SEQRES 9 B 306 GLN ASP GLU GLY LEU ALA LEU GLN GLY LEU VAL ASN GLN SEQRES 10 B 306 ALA GLY GLY HIS TYR VAL LYS GLY MSE ILE VAL ALA TYR SEQRES 11 B 306 PRO ARG ASN VAL GLY HIS ARG GLU SER HIS SER ILE HIS SEQRES 12 B 306 THR GLY ASP ARG GLU ALA PHE GLU GLN HIS ARG ALA LEU SEQRES 13 B 306 LEU GLU GLY LEU ALA GLY HIS THR VAL PHE LEU PRO TRP SEQRES 14 B 306 ASP GLU ALA LEU ALA PHE ALA THR VAL LEU HIS ALA HIS SEQRES 15 B 306 ALA PHE ALA ALA MSE VAL THR PHE PHE GLU ALA VAL GLY SEQRES 16 B 306 ALA GLY ASP ARG PHE GLY LEU PRO VAL SER LYS THR ALA SEQRES 17 B 306 ARG LEU LEU LEU GLU THR SER ARG PHE PHE VAL ALA ASP SEQRES 18 B 306 ALA LEU GLU GLU ALA VAL ARG ARG LEU GLU THR GLN ASP SEQRES 19 B 306 PHE LYS GLY ASP GLN ALA ARG LEU ASP VAL HIS ALA ASP SEQRES 20 B 306 ALA PHE ALA HIS ILE ALA GLN SER LEU HIS ALA GLN GLY SEQRES 21 B 306 VAL TRP THR PRO VAL PHE ASP ALA VAL CYS GLN VAL VAL SEQRES 22 B 306 GLN ARG ALA ALA ALA MSE GLY TYR GLY ASP GLN ASP ILE SEQRES 23 B 306 ALA ALA THR THR LYS SER PHE ALA ARG GLU GLN GLU GLU SEQRES 24 B 306 GLY HIS HIS HIS HIS HIS HIS MODRES 3L6D MSE A 20 MET SELENOMETHIONINE MODRES 3L6D MSE A 24 MET SELENOMETHIONINE MODRES 3L6D MSE A 85 MET SELENOMETHIONINE MODRES 3L6D MSE A 126 MET SELENOMETHIONINE MODRES 3L6D MSE A 187 MET SELENOMETHIONINE MODRES 3L6D MSE A 279 MET SELENOMETHIONINE MODRES 3L6D MSE B 20 MET SELENOMETHIONINE MODRES 3L6D MSE B 24 MET SELENOMETHIONINE MODRES 3L6D MSE B 85 MET SELENOMETHIONINE MODRES 3L6D MSE B 126 MET SELENOMETHIONINE MODRES 3L6D MSE B 187 MET SELENOMETHIONINE MODRES 3L6D MSE B 279 MET SELENOMETHIONINE HET MSE A 20 8 HET MSE A 24 8 HET MSE A 85 8 HET MSE A 126 8 HET MSE A 187 8 HET MSE A 279 8 HET MSE B 20 8 HET MSE B 24 8 HET MSE B 85 8 HET MSE B 126 16 HET MSE B 187 8 HET MSE B 279 8 HETNAM MSE SELENOMETHIONINE FORMUL 1 MSE 12(C5 H11 N O2 SE) FORMUL 3 HOH *314(H2 O) HELIX 1 1 GLY A 18 GLN A 31 1 14 HELIX 2 2 SER A 41 GLY A 52 1 12 HELIX 3 3 SER A 58 SER A 66 1 9 HELIX 4 4 ASP A 75 GLY A 84 1 10 HELIX 5 5 GLY A 87 LEU A 92 1 6 HELIX 6 6 ASP A 106 ALA A 118 1 13 HELIX 7 7 TYR A 130 VAL A 134 5 5 HELIX 8 8 ASP A 146 GLY A 159 1 14 HELIX 9 9 PRO A 168 PHE A 200 1 33 HELIX 10 10 PRO A 203 GLN A 233 1 31 HELIX 11 11 ARG A 241 GLN A 259 1 19 HELIX 12 12 THR A 263 MSE A 279 1 17 HELIX 13 13 ASP A 285 ALA A 294 5 10 HELIX 14 14 SER B 4 PHE B 8 5 5 HELIX 15 15 GLY B 18 GLN B 31 1 14 HELIX 16 16 SER B 41 ALA B 51 1 11 HELIX 17 17 SER B 58 SER B 66 1 9 HELIX 18 18 ASP B 75 MSE B 85 1 11 HELIX 19 19 GLY B 87 ALA B 93 1 7 HELIX 20 20 ALA B 104 ALA B 118 1 15 HELIX 21 21 TYR B 130 VAL B 134 5 5 HELIX 22 22 ASP B 146 HIS B 153 1 8 HELIX 23 23 HIS B 153 GLU B 158 1 6 HELIX 24 24 PRO B 168 PHE B 200 1 33 HELIX 25 25 PRO B 203 GLN B 233 1 31 HELIX 26 26 ARG B 241 GLY B 260 1 20 HELIX 27 27 THR B 263 MSE B 279 1 17 HELIX 28 28 ASP B 285 ALA B 294 5 10 SHEET 1 A 8 HIS A 54 LEU A 55 0 SHEET 2 A 8 VAL A 35 TRP A 38 1 N ILE A 37 O HIS A 54 SHEET 3 A 8 VAL A 12 ILE A 15 1 N VAL A 14 O ALA A 36 SHEET 4 A 8 ALA A 68 PHE A 71 1 O ILE A 70 N SER A 13 SHEET 5 A 8 THR A 96 ASP A 99 1 O VAL A 98 N PHE A 71 SHEET 6 A 8 HIS A 121 VAL A 128 1 O VAL A 123 N ILE A 97 SHEET 7 A 8 HIS A 140 GLY A 145 -1 O ILE A 142 N MSE A 126 SHEET 8 A 8 HIS A 163 PHE A 166 1 O VAL A 165 N HIS A 143 SHEET 1 B 8 HIS B 54 LEU B 55 0 SHEET 2 B 8 VAL B 35 TRP B 38 1 N ILE B 37 O HIS B 54 SHEET 3 B 8 VAL B 12 ILE B 15 1 N VAL B 14 O ALA B 36 SHEET 4 B 8 ALA B 68 PHE B 71 1 O ILE B 70 N SER B 13 SHEET 5 B 8 THR B 96 ASP B 99 1 O VAL B 98 N THR B 69 SHEET 6 B 8 HIS B 121 VAL B 128 1 O VAL B 123 N ASP B 99 SHEET 7 B 8 HIS B 140 GLY B 145 -1 O HIS B 140 N VAL B 128 SHEET 8 B 8 HIS B 163 PHE B 166 1 O VAL B 165 N HIS B 143 LINK C ALA A 19 N MSE A 20 1555 1555 1.33 LINK C MSE A 20 N GLY A 21 1555 1555 1.34 LINK C ILE A 23 N MSE A 24 1555 1555 1.34 LINK C MSE A 24 N ALA A 25 1555 1555 1.34 LINK C GLY A 84 N MSE A 85 1555 1555 1.33 LINK C MSE A 85 N PRO A 86 1555 1555 1.35 LINK C GLY A 125 N MSE A 126 1555 1555 1.32 LINK C MSE A 126 N ILE A 127 1555 1555 1.31 LINK C ALA A 186 N MSE A 187 1555 1555 1.33 LINK C MSE A 187 N VAL A 188 1555 1555 1.32 LINK C ALA A 278 N MSE A 279 1555 1555 1.34 LINK C MSE A 279 N GLY A 280 1555 1555 1.33 LINK C ALA B 19 N MSE B 20 1555 1555 1.33 LINK C MSE B 20 N GLY B 21 1555 1555 1.33 LINK C ILE B 23 N MSE B 24 1555 1555 1.32 LINK C MSE B 24 N ALA B 25 1555 1555 1.33 LINK C GLY B 84 N MSE B 85 1555 1555 1.33 LINK C MSE B 85 N PRO B 86 1555 1555 1.36 LINK C GLY B 125 N AMSE B 126 1555 1555 1.33 LINK C GLY B 125 N BMSE B 126 1555 1555 1.33 LINK C AMSE B 126 N ILE B 127 1555 1555 1.32 LINK C BMSE B 126 N ILE B 127 1555 1555 1.31 LINK C ALA B 186 N MSE B 187 1555 1555 1.33 LINK C MSE B 187 N VAL B 188 1555 1555 1.34 LINK C ALA B 278 N MSE B 279 1555 1555 1.33 LINK C MSE B 279 N GLY B 280 1555 1555 1.33 CRYST1 84.342 37.647 104.252 90.00 93.35 90.00 P 1 21 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 0.011856 0.000000 0.000695 0.00000 SCALE2 0.000000 0.026563 0.000000 0.00000 SCALE3 0.000000 0.000000 0.009609 0.00000