HEADER HYDROLASE 09-JAN-17 5MTE TITLE CRYSTAL STRUCTURE OF PDF FROM THE VIBRIO PARAHAEMOLYTICUS TITLE 2 BACTERIOPHAGE VP16T IN COMPLEX WITH ACTINONIN - CRYSTAL FORM II COMPND MOL_ID: 1; COMPND 2 MOLECULE: PUTATIVE UNCHARACTERIZED PROTEIN ORF60T; COMPND 3 CHAIN: A, B; COMPND 4 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: VIBRIO PHAGE VP16T; SOURCE 3 ORGANISM_TAXID: 238892; SOURCE 4 GENE: ORF60T; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 7 EXPRESSION_SYSTEM_VARIANT: PAL421TR; SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: PBAD/MYC-HISA KEYWDS PDF, PEPTIDE DEFORMYLASE, TYPE 1B, BACTERIOPHAGE VP16T, ACTINONIN, KEYWDS 2 HYDROLASE EXPDTA X-RAY DIFFRACTION AUTHOR S.FIEULAINE,R.GRZELA,C.GIGLIONE,T.MEINNEL REVDAT 3 17-JAN-24 5MTE 1 LINK REVDAT 2 03-JAN-18 5MTE 1 JRNL REVDAT 1 29-NOV-17 5MTE 0 JRNL AUTH R.GRZELA,J.NUSBAUM,S.FIEULAINE,F.LAVECCHIA,M.DESMADRIL, JRNL AUTH 2 N.NHIRI,A.VAN DORSSELAER,S.CIANFERANI,E.JACQUET,T.MEINNEL, JRNL AUTH 3 C.GIGLIONE JRNL TITL PEPTIDE DEFORMYLASES FROM VIBRIO PARAHAEMOLYTICUS PHAGE AND JRNL TITL 2 BACTERIA DISPLAY SIMILAR DEFORMYLASE ACTIVITY AND INHIBITOR JRNL TITL 3 BINDING CLEFTS. JRNL REF BIOCHIM. BIOPHYS. ACTA V.1866 348 2018 JRNL REFN ISSN 0006-3002 JRNL PMID 29101077 JRNL DOI 10.1016/J.BBAPAP.2017.10.007 REMARK 2 REMARK 2 RESOLUTION. 1.40 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.2.0019 REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN 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) : 41.67 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 3 NUMBER OF REFLECTIONS : 57002 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) : 0.188 REMARK 3 R VALUE (WORKING SET) : 0.187 REMARK 3 FREE R VALUE : 0.203 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 3001 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) : 1.40 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.44 REMARK 3 REFLECTION IN BIN (WORKING SET) : 4112 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 100.0 REMARK 3 BIN R VALUE (WORKING SET) : 0.3610 REMARK 3 BIN FREE R VALUE SET COUNT : 217 REMARK 3 BIN FREE R VALUE : 0.3740 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2041 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 59 REMARK 3 SOLVENT ATOMS : 309 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 23.50 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.18000 REMARK 3 B22 (A**2) : 0.18000 REMARK 3 B33 (A**2) : -0.27000 REMARK 3 B12 (A**2) : 0.09000 REMARK 3 B13 (A**2) : 0.00000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.060 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.060 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.043 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 1.872 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.971 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.966 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 2135 ; 0.008 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 2901 ; 1.337 ; 1.981 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 272 ; 5.495 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 76 ;37.189 ;24.474 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 346 ;12.187 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 9 ;17.012 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 346 ; 0.088 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 1561 ; 0.005 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 1007 ; 0.209 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 1495 ; 0.300 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 189 ; 0.136 ; 0.200 REMARK 3 H-BOND (X...Y) OTHERS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION REFINED ATOMS (A): 3 ; 0.142 ; 0.200 REMARK 3 POTENTIAL METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW REFINED ATOMS (A): 42 ; 0.200 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 23 ; 0.198 ; 0.200 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): 1402 ; 0.717 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 2187 ; 1.113 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 818 ; 1.872 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 713 ; 2.812 ; 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 : NULL 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 1 A 137 REMARK 3 ORIGIN FOR THE GROUP (A): -4.5390 -32.7350 16.4510 REMARK 3 T TENSOR REMARK 3 T11: -0.0783 T22: -0.1085 REMARK 3 T33: -0.1237 T12: 0.0339 REMARK 3 T13: 0.0006 T23: 0.0010 REMARK 3 L TENSOR REMARK 3 L11: 1.6005 L22: 2.0189 REMARK 3 L33: 1.3864 L12: 0.0861 REMARK 3 L13: -0.5336 L23: 0.6456 REMARK 3 S TENSOR REMARK 3 S11: 0.0136 S12: 0.0198 S13: 0.0250 REMARK 3 S21: 0.0722 S22: -0.0507 S23: 0.0274 REMARK 3 S31: -0.0528 S32: -0.0484 S33: 0.0371 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 1 B 137 REMARK 3 ORIGIN FOR THE GROUP (A): 7.5770 -21.3130 -6.1710 REMARK 3 T TENSOR REMARK 3 T11: -0.1416 T22: -0.0817 REMARK 3 T33: -0.1065 T12: -0.0004 REMARK 3 T13: 0.0105 T23: -0.0136 REMARK 3 L TENSOR REMARK 3 L11: 1.3626 L22: 1.9920 REMARK 3 L33: 1.6000 L12: -0.6035 REMARK 3 L13: 0.2771 L23: 0.6344 REMARK 3 S TENSOR REMARK 3 S11: 0.0656 S12: 0.1047 S13: 0.0278 REMARK 3 S21: -0.1125 S22: -0.0539 S23: -0.0403 REMARK 3 S31: -0.0564 S32: -0.1059 S33: -0.0117 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : NULL REMARK 3 PARAMETERS FOR MASK CALCULATION REMARK 3 VDW PROBE RADIUS : 1.20 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 REMARK 4 REMARK 4 5MTE COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 09-JAN-17. REMARK 100 THE DEPOSITION ID IS D_1200002990. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 25-JUL-13 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 5.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SOLEIL REMARK 200 BEAMLINE : PROXIMA 1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.980110 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS 6M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : XDS REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 60005 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.400 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 2.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.7 REMARK 200 DATA REDUNDANCY : 4.320 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : 0.03600 REMARK 200 FOR THE DATA SET : 16.7400 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) : 1.44 REMARK 200 COMPLETENESS FOR SHELL (%) : 98.6 REMARK 200 DATA REDUNDANCY IN SHELL : 4.30 REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : 0.95400 REMARK 200 FOR SHELL : NULL 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: 1LRY REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 51.62 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.54 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 28% PEG-1000 100MM SODIUM ACETATE, PH REMARK 280 5.5, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 292K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 32 2 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -Y,X-Y,Z+2/3 REMARK 290 3555 -X+Y,-X,Z+1/3 REMARK 290 4555 Y,X,-Z REMARK 290 5555 X-Y,-Y,-Z+1/3 REMARK 290 6555 -X,-X+Y,-Z+2/3 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 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 2 0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 83.26000 REMARK 290 SMTRY1 3 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 3 -0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 41.63000 REMARK 290 SMTRY1 4 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 4 0.866025 0.500000 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 0.00000 REMARK 290 SMTRY2 5 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 41.63000 REMARK 290 SMTRY1 6 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 6 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 83.26000 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 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 350 REMARK 350 BIOMOLECULE: 2 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: 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 470 REMARK 470 MISSING ATOM REMARK 470 THE FOLLOWING RESIDUES HAVE MISSING ATOMS (M=MODEL NUMBER; REMARK 470 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 470 I=INSERTION CODE): REMARK 470 M RES CSSEQI ATOMS REMARK 470 LYS A 2 CG CD CE NZ REMARK 470 LYS A 5 CG CD CE NZ REMARK 470 LYS A 63 CG CD CE NZ REMARK 470 LYS A 118 CG CD CE NZ REMARK 470 ASP B 7 CG OD1 OD2 REMARK 470 LYS B 25 CG CD CE NZ REMARK 470 ARG B 58 CG CD NE CZ NH1 NH2 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 383 O HOH B 387 2.07 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 NI NI B 203 O HOH A 301 5545 1.69 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 CYS A 124 CA - CB - SG ANGL. DEV. = 8.0 DEGREES REMARK 500 CYS B 59 CA - CB - SG ANGL. DEV. = -11.7 DEGREES REMARK 500 CYS B 124 CA - CB - SG ANGL. DEV. = 9.7 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 ASP B 6 -90.81 32.66 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 A 459 DISTANCE = 5.95 ANGSTROMS REMARK 525 HOH A 460 DISTANCE = 6.77 ANGSTROMS REMARK 525 HOH B 449 DISTANCE = 6.00 ANGSTROMS REMARK 620 REMARK 620 METAL COORDINATION REMARK 620 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 620 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE): REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 NI A 203 NI REMARK 620 N RES CSSEQI ATOM REMARK 620 1 MET A 1 N REMARK 620 2 MET A 1 O 80.6 REMARK 620 3 HOH A 349 O 99.2 83.9 REMARK 620 4 HOH A 362 O 163.2 83.9 85.5 REMARK 620 5 HOH A 389 O 86.9 86.3 167.5 85.8 REMARK 620 6 HIS B 74 NE2 101.1 177.4 97.7 94.2 91.8 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 NI B 204 NI REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A 12 NE2 REMARK 620 2 ASP B 26 OD1 111.5 REMARK 620 3 ASP B 30 OD2 107.8 3.7 REMARK 620 4 HOH B 303 O 108.0 4.4 2.8 REMARK 620 5 HOH B 312 O 109.7 1.8 1.9 3.2 REMARK 620 N 1 2 3 4 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 NI B 203 NI REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A 74 NE2 REMARK 620 2 ASP B 76 OD1 68.0 REMARK 620 3 HOH B 322 O 66.1 2.9 REMARK 620 N 1 2 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN A 202 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 85 SG REMARK 620 2 HIS A 127 NE2 115.4 REMARK 620 3 HIS A 131 NE2 97.4 103.0 REMARK 620 4 BB2 A 201 O4 91.1 104.2 144.5 REMARK 620 5 BB2 A 201 O2 152.1 91.4 83.1 74.0 REMARK 620 N 1 2 3 4 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN B 202 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS B 85 SG REMARK 620 2 HIS B 127 NE2 118.4 REMARK 620 3 HIS B 131 NE2 97.5 103.5 REMARK 620 4 BB2 B 201 O4 91.1 102.7 144.2 REMARK 620 5 BB2 B 201 O2 150.5 90.0 82.3 73.6 REMARK 620 N 1 2 3 4 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue BB2 A 201 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue ZN A 202 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue NI A 203 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue BB2 B 201 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue ZN B 202 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue NI B 203 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue NI B 204 DBREF 5MTE A 1 137 UNP Q6VT21 Q6VT21_9CAUD 1 137 DBREF 5MTE B 1 137 UNP Q6VT21 Q6VT21_9CAUD 1 137 SEQRES 1 A 137 MET LYS ILE LEU LYS ASP ASP ALA PRO GLU LEU HIS ALA SEQRES 2 A 137 ILE ALA ALA GLU VAL PRO HIS GLY GLU ASP VAL LYS ASP SEQRES 3 A 137 LEU VAL LEU ASP MET THR ALA ALA MET THR ALA ALA GLY SEQRES 4 A 137 GLY ILE GLY LEU ALA GLY ASN GLN VAL GLY VAL LEU LYS SEQRES 5 A 137 ARG ILE ILE VAL LEU ARG CYS PRO THR PHE LYS GLY CYS SEQRES 6 A 137 VAL ILE ASN PRO ILE ILE THR ARG HIS THR ASP GLY HIS SEQRES 7 A 137 VAL TYR SER PRO GLU GLY CYS LEU SER TYR PRO GLY LYS SEQRES 8 A 137 THR VAL ALA LYS LYS ARG ARG ASN LYS VAL VAL VAL GLU SEQRES 9 A 137 GLY TYR ASP MET ASP TRP GLN PRO ILE THR ILE ALA ALA SEQRES 10 A 137 LYS GLY LEU THR ALA PHE CYS LEU GLN HIS GLU ILE ASP SEQRES 11 A 137 HIS LEU ASN GLY VAL THR ILE SEQRES 1 B 137 MET LYS ILE LEU LYS ASP ASP ALA PRO GLU LEU HIS ALA SEQRES 2 B 137 ILE ALA ALA GLU VAL PRO HIS GLY GLU ASP VAL LYS ASP SEQRES 3 B 137 LEU VAL LEU ASP MET THR ALA ALA MET THR ALA ALA GLY SEQRES 4 B 137 GLY ILE GLY LEU ALA GLY ASN GLN VAL GLY VAL LEU LYS SEQRES 5 B 137 ARG ILE ILE VAL LEU ARG CYS PRO THR PHE LYS GLY CYS SEQRES 6 B 137 VAL ILE ASN PRO ILE ILE THR ARG HIS THR ASP GLY HIS SEQRES 7 B 137 VAL TYR SER PRO GLU GLY CYS LEU SER TYR PRO GLY LYS SEQRES 8 B 137 THR VAL ALA LYS LYS ARG ARG ASN LYS VAL VAL VAL GLU SEQRES 9 B 137 GLY TYR ASP MET ASP TRP GLN PRO ILE THR ILE ALA ALA SEQRES 10 B 137 LYS GLY LEU THR ALA PHE CYS LEU GLN HIS GLU ILE ASP SEQRES 11 B 137 HIS LEU ASN GLY VAL THR ILE HET BB2 A 201 27 HET ZN A 202 1 HET NI A 203 1 HET BB2 B 201 27 HET ZN B 202 1 HET NI B 203 1 HET NI B 204 1 HETNAM BB2 ACTINONIN HETNAM ZN ZINC ION HETNAM NI NICKEL (II) ION HETSYN BB2 2-[(FORMYL-HYDROXY-AMINO)-METHYL]-HEPTANOIC ACID [1-(2- HETSYN 2 BB2 HYDROXYMETHYL-PYRROLIDINE-1-CARBONYL)-2-METHYL- HETSYN 3 BB2 PROPYL]-AMIDE FORMUL 3 BB2 2(C19 H35 N3 O5) FORMUL 4 ZN 2(ZN 2+) FORMUL 5 NI 3(NI 2+) FORMUL 10 HOH *309(H2 O) HELIX 1 AA1 ALA A 8 HIS A 12 5 5 HELIX 2 AA2 VAL A 24 ALA A 38 1 15 HELIX 3 AA3 ASN A 46 GLY A 49 5 4 HELIX 4 AA4 GLY A 119 ASN A 133 1 15 HELIX 5 AA5 ALA B 8 ALA B 13 5 6 HELIX 6 AA6 VAL B 24 GLY B 39 1 16 HELIX 7 AA7 ASN B 46 GLY B 49 5 4 HELIX 8 AA8 GLY B 119 ASN B 133 1 15 SHEET 1 AA1 5 GLY A 42 ALA A 44 0 SHEET 2 AA1 5 ILE A 54 CYS A 59 -1 O VAL A 56 N LEU A 43 SHEET 3 AA1 5 PHE A 62 HIS A 74 -1 O PHE A 62 N CYS A 59 SHEET 4 AA1 5 LYS A 100 TYR A 106 -1 O TYR A 106 N ILE A 67 SHEET 5 AA1 5 PRO A 112 LYS A 118 -1 O ILE A 113 N GLY A 105 SHEET 1 AA2 2 VAL A 79 GLY A 84 0 SHEET 2 AA2 2 THR A 92 ARG A 97 -1 O VAL A 93 N GLU A 83 SHEET 1 AA3 5 GLY B 42 ALA B 44 0 SHEET 2 AA3 5 ILE B 54 CYS B 59 -1 O VAL B 56 N LEU B 43 SHEET 3 AA3 5 PHE B 62 HIS B 74 -1 O PHE B 62 N CYS B 59 SHEET 4 AA3 5 LYS B 100 TYR B 106 -1 O TYR B 106 N ILE B 67 SHEET 5 AA3 5 PRO B 112 LYS B 118 -1 O ILE B 115 N VAL B 103 SHEET 1 AA4 2 VAL B 79 GLU B 83 0 SHEET 2 AA4 2 VAL B 93 ARG B 97 -1 O VAL B 93 N GLU B 83 SSBOND 1 CYS A 59 CYS A 124 1555 1555 2.40 SSBOND 2 CYS B 59 CYS B 124 1555 1555 2.08 LINK N MET A 1 NI NI A 203 1555 1555 2.10 LINK O MET A 1 NI NI A 203 1555 1555 2.13 LINK NE2 HIS A 12 NI NI B 204 1555 3545 2.15 LINK NE2 HIS A 74 NI NI B 203 1555 5445 2.14 LINK SG CYS A 85 ZN ZN A 202 1555 1555 2.32 LINK NE2 HIS A 127 ZN ZN A 202 1555 1555 2.08 LINK NE2 HIS A 131 ZN ZN A 202 1555 1555 2.12 LINK O4 BB2 A 201 ZN ZN A 202 1555 1555 2.18 LINK O2 BB2 A 201 ZN ZN A 202 1555 1555 2.17 LINK NI NI A 203 O HOH A 349 1555 1555 2.07 LINK NI NI A 203 O HOH A 362 1555 1555 2.14 LINK NI NI A 203 O HOH A 389 1555 1555 2.22 LINK NI NI A 203 NE2 HIS B 74 1555 1555 2.06 LINK OD1 ASP B 26 NI NI B 204 1555 1555 1.86 LINK OD2 ASP B 30 NI NI B 204 1555 1555 1.96 LINK OD1 ASP B 76 NI NI B 203 1555 1555 2.03 LINK SG CYS B 85 ZN ZN B 202 1555 1555 2.32 LINK NE2 HIS B 127 ZN ZN B 202 1555 1555 2.09 LINK NE2 HIS B 131 ZN ZN B 202 1555 1555 2.13 LINK O4 BB2 B 201 ZN ZN B 202 1555 1555 2.27 LINK O2 BB2 B 201 ZN ZN B 202 1555 1555 2.19 LINK NI NI B 203 O HOH B 322 1555 1555 2.16 LINK NI NI B 204 O HOH B 303 1555 1555 1.81 LINK NI NI B 204 O HOH B 312 1555 1555 2.28 SITE 1 AC1 15 GLY A 40 ILE A 41 GLY A 42 GLN A 47 SITE 2 AC1 15 PRO A 82 GLU A 83 GLY A 84 CYS A 85 SITE 3 AC1 15 LEU A 86 CYS A 124 HIS A 127 GLU A 128 SITE 4 AC1 15 HIS A 131 ZN A 202 HOH A 323 SITE 1 AC2 5 GLN A 47 CYS A 85 HIS A 127 HIS A 131 SITE 2 AC2 5 BB2 A 201 SITE 1 AC3 5 MET A 1 HOH A 349 HOH A 362 HOH A 389 SITE 2 AC3 5 HIS B 74 SITE 1 AC4 15 GLY B 40 ILE B 41 GLY B 42 GLN B 47 SITE 2 AC4 15 PRO B 82 GLU B 83 GLY B 84 CYS B 85 SITE 3 AC4 15 LEU B 86 LEU B 120 CYS B 124 HIS B 127 SITE 4 AC4 15 GLU B 128 HIS B 131 ZN B 202 SITE 1 AC5 5 GLN B 47 CYS B 85 HIS B 127 HIS B 131 SITE 2 AC5 5 BB2 B 201 SITE 1 AC6 5 HIS A 74 HOH A 301 HOH A 413 ASP B 76 SITE 2 AC6 5 HOH B 322 SITE 1 AC7 5 HIS A 12 ASP B 26 ASP B 30 HOH B 303 SITE 2 AC7 5 HOH B 312 CRYST1 64.620 64.620 124.890 90.00 90.00 120.00 P 32 2 1 12 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 0.015475 0.008935 0.000000 0.00000 SCALE2 0.000000 0.017869 0.000000 0.00000 SCALE3 0.000000 0.000000 0.008007 0.00000