HEADER TRANSFERASE 23-OCT-08 3EZS TITLE CRYSTAL STRUCTURE OF AMINOTRANSFERASE ASPB (NP_207418.1) FROM TITLE 2 HELICOBACTER PYLORI 26695 AT 2.19 A RESOLUTION COMPND MOL_ID: 1; COMPND 2 MOLECULE: AMINOTRANSFERASE ASPB; COMPND 3 CHAIN: A, B; COMPND 4 SYNONYM: SOLUTE-BINDING SIGNATURE AND MITOCHONDRIAL SIGNATURE PROTEIN COMPND 5 (ASPB); COMPND 6 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HELICOBACTER PYLORI 26695; SOURCE 3 ORGANISM_COMMON: CAMPYLOBACTER PYLORI; SOURCE 4 ORGANISM_TAXID: 85962; SOURCE 5 GENE: NP_207418.1, HP_0624; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: HK100; SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: SPEEDET KEYWDS NP_207418.1, AMINOTRANSFERASE ASPB, STRUCTURAL GENOMICS, JOINT CENTER KEYWDS 2 FOR STRUCTURAL GENOMICS, JCSG, PROTEIN STRUCTURE INITIATIVE, PSI-2, KEYWDS 3 AMINOTRANSFERASE CLASS I AND II, TRANSFERASE EXPDTA X-RAY DIFFRACTION AUTHOR JOINT CENTER FOR STRUCTURAL GENOMICS (JCSG) REVDAT 6 01-FEB-23 3EZS 1 REMARK SEQADV REVDAT 5 24-JUL-19 3EZS 1 REMARK LINK REVDAT 4 25-OCT-17 3EZS 1 REMARK REVDAT 3 13-JUL-11 3EZS 1 VERSN REVDAT 2 24-FEB-09 3EZS 1 VERSN REVDAT 1 18-NOV-08 3EZS 0 JRNL AUTH JOINT CENTER FOR STRUCTURAL GENOMICS (JCSG) JRNL TITL CRYSTAL STRUCTURE OF AMINOTRANSFERASE ASPB (NP_207418.1) JRNL TITL 2 FROM HELICOBACTER PYLORI 26695 AT 2.19 A RESOLUTION JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 2.19 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 : MAXIMUM LIKELIHOOD WITH PHASES REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.19 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 44.28 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 98.5 REMARK 3 NUMBER OF REFLECTIONS : 40803 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) : 0.161 REMARK 3 R VALUE (WORKING SET) : 0.159 REMARK 3 FREE R VALUE : 0.215 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 2056 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) : 2.19 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.25 REMARK 3 REFLECTION IN BIN (WORKING SET) : 2341 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 81.62 REMARK 3 BIN R VALUE (WORKING SET) : 0.2150 REMARK 3 BIN FREE R VALUE SET COUNT : 115 REMARK 3 BIN FREE R VALUE : 0.2840 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 5988 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 42 REMARK 3 SOLVENT ATOMS : 402 REMARK 3 REMARK 3 B VALUES. REMARK 3 B VALUE TYPE : LIKELY RESIDUAL REMARK 3 FROM WILSON PLOT (A**2) : 29.51 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 43.55 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.63000 REMARK 3 B22 (A**2) : 0.13000 REMARK 3 B33 (A**2) : -0.77000 REMARK 3 B12 (A**2) : 0.00000 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): 0.256 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.198 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.139 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 10.513 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.963 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.930 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 6285 ; 0.012 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): 4361 ; 0.002 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 8539 ; 1.519 ; 1.982 REMARK 3 BOND ANGLES OTHERS (DEGREES): 10628 ; 1.012 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 780 ; 3.445 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 290 ;31.376 ;23.759 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 1064 ;10.377 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 38 ;12.211 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 938 ; 0.088 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 6954 ; 0.005 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 1320 ; 0.001 ; 0.020 REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 1249 ; 0.201 ; 0.300 REMARK 3 NON-BONDED CONTACTS OTHERS (A): 4339 ; 0.176 ; 0.300 REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 3042 ; 0.180 ; 0.500 REMARK 3 NON-BONDED TORSION OTHERS (A): 2933 ; 0.086 ; 0.500 REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 533 ; 0.174 ; 0.500 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): 9 ; 0.138 ; 0.300 REMARK 3 SYMMETRY VDW OTHERS (A): 45 ; 0.239 ; 0.300 REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 21 ; 0.197 ; 0.500 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): 3987 ; 1.498 ; 3.000 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 1500 ; 0.432 ; 3.000 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 6160 ; 2.274 ; 5.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 2705 ; 4.291 ; 8.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 2364 ; 5.549 ;11.000 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 0 A 373 5 REMARK 3 1 B 0 B 373 5 REMARK 3 GROUP CHAIN COUNT RMS WEIGHT REMARK 3 MEDIUM POSITIONAL 1 A (A): 2180 ; 0.230 ; 0.500 REMARK 3 LOOSE POSITIONAL 1 A (A): 2768 ; 0.430 ; 5.000 REMARK 3 MEDIUM THERMAL 1 A (A**2): 2180 ; 0.740 ; 2.000 REMARK 3 LOOSE THERMAL 1 A (A**2): 2768 ; 1.830 ;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 0 A 373 REMARK 3 ORIGIN FOR THE GROUP (A): 26.3870 25.0560 37.2480 REMARK 3 T TENSOR REMARK 3 T11: -0.0996 T22: -0.1148 REMARK 3 T33: -0.0904 T12: 0.0093 REMARK 3 T13: -0.0251 T23: -0.0081 REMARK 3 L TENSOR REMARK 3 L11: 0.5662 L22: 0.9599 REMARK 3 L33: 0.7521 L12: 0.0352 REMARK 3 L13: -0.1021 L23: -0.1423 REMARK 3 S TENSOR REMARK 3 S11: -0.0177 S12: -0.0252 S13: 0.0053 REMARK 3 S21: -0.0205 S22: 0.0125 S23: -0.0736 REMARK 3 S31: 0.0233 S32: 0.0223 S33: 0.0053 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 0 B 373 REMARK 3 ORIGIN FOR THE GROUP (A): 36.0850 20.1700 71.9320 REMARK 3 T TENSOR REMARK 3 T11: -0.1181 T22: -0.0827 REMARK 3 T33: -0.1095 T12: -0.0056 REMARK 3 T13: -0.0045 T23: -0.0132 REMARK 3 L TENSOR REMARK 3 L11: 0.6566 L22: 0.7101 REMARK 3 L33: 1.2137 L12: -0.1331 REMARK 3 L13: 0.0475 L23: -0.0316 REMARK 3 S TENSOR REMARK 3 S11: -0.0410 S12: 0.0167 S13: -0.0481 REMARK 3 S21: -0.0250 S22: -0.0131 S23: 0.0401 REMARK 3 S31: -0.0063 S32: 0.0043 S33: 0.0541 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 : 1.20 REMARK 3 ION PROBE RADIUS : 0.80 REMARK 3 SHRINKAGE RADIUS : 0.80 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: 1. HYDROGENS HAVE BEEN ADDED IN REMARK 3 RIDING POSITIONS. 2. ATOM RECORD CONTAINS RESIDUAL B FACTORS REMARK 3 ONLY. 3. A MET-INHIBITION PROTOCOL WAS USED FOR REMARK 3 SELENOMETHIONINE INCORPORATION DURING PROTEIN EXPRESSION. THE REMARK 3 OCCUPANCY OF THE SE ATOMS IN THE MSE RESIDUES WAS REDUCED TO REMARK 3 0.75 TO ACCOUNT FOR THE REDUCED SCATTERING POWER DUE TO REMARK 3 PARTIAL S-MET INCORPORATION. 4. ETHYLENE GLYCOL (EDO) USED REMARK 3 AS A CRYOPROTECTANT WAS MODELED INTO THE STRUCTURE. REMARK 3 5. BASED ON HOMOLOGUS STRUCTURES THAT BIND PYRIDOXAL-5'PHOSPHATE REMARK 3 (PLP), SUCH AS 1O4S, A PHOSPHATE MOLECULE HAS BEEN MODELED IN REMARK 3 EACH CHAIN AT THE SITE OF THE CORRESPONDING PHOSPHATE MOIETY OF REMARK 3 PLP. THERE IS NO ELECTRON DENSITY SUPPORT FOR THE REST OF THE PLP REMARK 3 MOLECULE REMARK 4 REMARK 4 3EZS COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 24-OCT-08. REMARK 100 THE DEPOSITION ID IS D_1000049966. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 11-AUG-08 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 : SSRL REMARK 200 BEAMLINE : BL9-2 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.91162,0.97932 REMARK 200 MONOCHROMATOR : DOUBLE CRYSTAL MONOCHROMATOR REMARK 200 OPTICS : FLAT COLLIMATING MIRROR, TOROID REMARK 200 FOCUSING MIRROR REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MARMOSAIC 325 MM CCD REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : XSCALE REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 40833 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.190 REMARK 200 RESOLUTION RANGE LOW (A) : 44.281 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : -3.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 98.3 REMARK 200 DATA REDUNDANCY : 5.300 REMARK 200 R MERGE (I) : 0.11200 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 12.8000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.19 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.27 REMARK 200 COMPLETENESS FOR SHELL (%) : 85.8 REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : 0.61200 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 2.290 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: MAD REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MAD REMARK 200 SOFTWARE USED: SHELX, SHELXD, AUTOSHARP REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 45.94 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.28 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 15.0000% GLYCEROL, 8.5000% ISO REMARK 280 -PROPANOL, 17.0000% PEG-4000, 0.1M HEPES PH 7.5, NANODROP, VAPOR REMARK 280 DIFFUSION, SITTING DROP, TEMPERATURE 277K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 21 21 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,-Y,Z REMARK 290 3555 -X+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 46.32400 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 53.12450 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 46.32400 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 53.12450 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: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 6860 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 28330 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -33.0 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 HIS A 374 REMARK 465 ALA A 375 REMARK 465 GLY B 0 REMARK 465 ALA B 375 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 16 CE NZ REMARK 470 PRO A 32 CG CD REMARK 470 LYS A 56 NZ REMARK 470 LYS A 72 CE NZ REMARK 470 LYS A 76 CE NZ REMARK 470 GLN A 106 CD OE1 NE2 REMARK 470 LYS A 149 CE NZ REMARK 470 GLU A 153 CG CD OE1 OE2 REMARK 470 GLU A 217 CD OE1 OE2 REMARK 470 LYS A 251 CE NZ REMARK 470 LYS A 300 CD CE NZ REMARK 470 GLN A 316 CD OE1 NE2 REMARK 470 ARG A 343 CD NE CZ NH1 NH2 REMARK 470 ASN A 373 CG OD1 ND2 REMARK 470 GLU B 4 CG CD OE1 OE2 REMARK 470 PHE B 8 CG CD1 CD2 CE1 CE2 CZ REMARK 470 ARG B 12 NE CZ NH1 NH2 REMARK 470 LYS B 22 NZ REMARK 470 ARG B 23 NE CZ NH1 NH2 REMARK 470 ILE B 29 CG1 CG2 CD1 REMARK 470 GLU B 31 CG CD OE1 OE2 REMARK 470 GLU B 61 CD OE1 OE2 REMARK 470 GLU B 81 OE1 OE2 REMARK 470 GLU B 148 CG CD OE1 OE2 REMARK 470 LYS B 149 CG CD CE NZ REMARK 470 LYS B 184 NZ REMARK 470 LYS B 220 CE NZ REMARK 470 GLU B 250 CG CD OE1 OE2 REMARK 470 LYS B 251 CE NZ REMARK 470 ARG B 279 NE CZ NH1 NH2 REMARK 470 LYS B 362 CG CD CE NZ REMARK 470 GLU B 372 CD OE1 OE2 REMARK 470 ASN B 373 CG OD1 ND2 REMARK 470 HIS B 374 CG ND1 CD2 CE1 NE2 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 PRO A 32 C - N - CA ANGL. DEV. = 9.4 DEGREES REMARK 500 ARG B 68 NE - CZ - NH1 ANGL. DEV. = 3.1 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 32 139.20 -39.16 REMARK 500 GLN A 33 51.60 -112.10 REMARK 500 PHE A 59 166.30 67.06 REMARK 500 ASN A 201 -88.79 -119.76 REMARK 500 ASP A 245 107.09 -44.94 REMARK 500 PRO A 306 44.28 -79.14 REMARK 500 SER A 308 -178.58 69.00 REMARK 500 PHE B 59 171.76 65.54 REMARK 500 ASN B 201 -80.63 -138.69 REMARK 500 ASN B 216 57.08 -116.01 REMARK 500 ALA B 234 56.29 -140.51 REMARK 500 ASP B 245 100.10 -48.29 REMARK 500 PRO B 306 39.29 -79.63 REMARK 500 SER B 308 -178.69 71.39 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 PO4 B 376 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PO4 A 376 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO A 377 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO B 377 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO B 378 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO B 379 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO A 378 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO B 380 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO B 381 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO A 379 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 390859 RELATED DB: TARGETDB REMARK 999 REMARK 999 SEQUENCE REMARK 999 SEQUENCE THE CONSTRUCT WAS EXPRESSED WITH A PURIFICATION TAG REMARK 999 MGSDKIHHHHHHENLYFQG. THE TAG WAS REMOVED WITH TEV PROTEASE LEAVING REMARK 999 ONLY A GLYCINE (0) FOLLOWED BY THE TARGET SEQUENCE. DBREF 3EZS A 1 375 UNP O25341 O25341_HELPY 1 375 DBREF 3EZS B 1 375 UNP O25341 O25341_HELPY 1 375 SEQADV 3EZS GLY A 0 UNP O25341 EXPRESSION TAG SEQADV 3EZS GLY B 0 UNP O25341 EXPRESSION TAG SEQRES 1 A 376 GLY MSE THR PHE GLU PRO TYR PRO PHE GLU ARG LEU ARG SEQRES 2 A 376 ALA LEU LEU LYS GLU ILE THR PRO LYS LYS ARG GLY LEU SEQRES 3 A 376 ASP LEU GLY ILE GLY GLU PRO GLN PHE GLU THR PRO LYS SEQRES 4 A 376 PHE ILE GLN ASP ALA LEU LYS ASN HIS THR HIS SER LEU SEQRES 5 A 376 ASN ILE TYR PRO LYS SER ALA PHE GLU GLU SER LEU ARG SEQRES 6 A 376 ALA ALA GLN ARG GLY PHE PHE LYS ARG ARG PHE LYS ILE SEQRES 7 A 376 GLU LEU LYS GLU ASN GLU LEU ILE SER THR LEU GLY SER SEQRES 8 A 376 ARG GLU VAL LEU PHE ASN PHE PRO SER PHE VAL LEU PHE SEQRES 9 A 376 ASP TYR GLN ASN PRO THR ILE ALA TYR PRO ASN PRO PHE SEQRES 10 A 376 TYR GLN ILE TYR GLU GLY ALA ALA LYS PHE ILE LYS ALA SEQRES 11 A 376 LYS SER LEU LEU MSE PRO LEU THR LYS GLU ASN ASP PHE SEQRES 12 A 376 THR PRO SER LEU ASN GLU LYS GLU LEU GLN GLU VAL ASP SEQRES 13 A 376 LEU VAL ILE LEU ASN SER PRO ASN ASN PRO THR GLY ARG SEQRES 14 A 376 THR LEU SER LEU GLU GLU LEU ILE SER TRP VAL LYS LEU SEQRES 15 A 376 ALA LEU LYS HIS ASP PHE ILE LEU ILE ASN ASP GLU CYS SEQRES 16 A 376 TYR SER GLU ILE TYR GLU ASN THR PRO PRO PRO SER LEU SEQRES 17 A 376 LEU GLU ALA CYS MSE LEU ALA GLY ASN GLU ALA PHE LYS SEQRES 18 A 376 ASN VAL LEU VAL ILE HIS SER LEU SER LYS ARG SER SER SEQRES 19 A 376 ALA PRO GLY LEU ARG SER GLY PHE ILE ALA GLY ASP SER SEQRES 20 A 376 ARG LEU LEU GLU LYS TYR LYS ALA PHE ARG ALA TYR LEU SEQRES 21 A 376 GLY TYR THR SER ALA ASN ALA ILE GLN LYS ALA SER GLU SEQRES 22 A 376 ALA ALA TRP LEU ASP ASP ARG HIS ALA GLU PHE PHE ARG SEQRES 23 A 376 ASN ILE TYR ALA ASN ASN LEU LYS LEU ALA ARG LYS ILE SEQRES 24 A 376 PHE LYS ASN THR LEU ILE TYR PRO TYR SER PHE TYR VAL SEQRES 25 A 376 TYR LEU PRO VAL GLN ASN GLY GLU ASN PHE ALA LYS THR SEQRES 26 A 376 LEU TYR GLN ASN GLU GLY ILE ILE THR LEU PRO ALA LEU SEQRES 27 A 376 TYR LEU GLY ARG ASN ARG ILE GLY ALA ASP TYR VAL ARG SEQRES 28 A 376 LEU ALA LEU VAL TYR ASP THR PRO LEU LEU GLU LYS PRO SEQRES 29 A 376 LEU GLU ILE ILE GLU THR TYR ARG GLU ASN HIS ALA SEQRES 1 B 376 GLY MSE THR PHE GLU PRO TYR PRO PHE GLU ARG LEU ARG SEQRES 2 B 376 ALA LEU LEU LYS GLU ILE THR PRO LYS LYS ARG GLY LEU SEQRES 3 B 376 ASP LEU GLY ILE GLY GLU PRO GLN PHE GLU THR PRO LYS SEQRES 4 B 376 PHE ILE GLN ASP ALA LEU LYS ASN HIS THR HIS SER LEU SEQRES 5 B 376 ASN ILE TYR PRO LYS SER ALA PHE GLU GLU SER LEU ARG SEQRES 6 B 376 ALA ALA GLN ARG GLY PHE PHE LYS ARG ARG PHE LYS ILE SEQRES 7 B 376 GLU LEU LYS GLU ASN GLU LEU ILE SER THR LEU GLY SER SEQRES 8 B 376 ARG GLU VAL LEU PHE ASN PHE PRO SER PHE VAL LEU PHE SEQRES 9 B 376 ASP TYR GLN ASN PRO THR ILE ALA TYR PRO ASN PRO PHE SEQRES 10 B 376 TYR GLN ILE TYR GLU GLY ALA ALA LYS PHE ILE LYS ALA SEQRES 11 B 376 LYS SER LEU LEU MSE PRO LEU THR LYS GLU ASN ASP PHE SEQRES 12 B 376 THR PRO SER LEU ASN GLU LYS GLU LEU GLN GLU VAL ASP SEQRES 13 B 376 LEU VAL ILE LEU ASN SER PRO ASN ASN PRO THR GLY ARG SEQRES 14 B 376 THR LEU SER LEU GLU GLU LEU ILE SER TRP VAL LYS LEU SEQRES 15 B 376 ALA LEU LYS HIS ASP PHE ILE LEU ILE ASN ASP GLU CYS SEQRES 16 B 376 TYR SER GLU ILE TYR GLU ASN THR PRO PRO PRO SER LEU SEQRES 17 B 376 LEU GLU ALA CYS MSE LEU ALA GLY ASN GLU ALA PHE LYS SEQRES 18 B 376 ASN VAL LEU VAL ILE HIS SER LEU SER LYS ARG SER SER SEQRES 19 B 376 ALA PRO GLY LEU ARG SER GLY PHE ILE ALA GLY ASP SER SEQRES 20 B 376 ARG LEU LEU GLU LYS TYR LYS ALA PHE ARG ALA TYR LEU SEQRES 21 B 376 GLY TYR THR SER ALA ASN ALA ILE GLN LYS ALA SER GLU SEQRES 22 B 376 ALA ALA TRP LEU ASP ASP ARG HIS ALA GLU PHE PHE ARG SEQRES 23 B 376 ASN ILE TYR ALA ASN ASN LEU LYS LEU ALA ARG LYS ILE SEQRES 24 B 376 PHE LYS ASN THR LEU ILE TYR PRO TYR SER PHE TYR VAL SEQRES 25 B 376 TYR LEU PRO VAL GLN ASN GLY GLU ASN PHE ALA LYS THR SEQRES 26 B 376 LEU TYR GLN ASN GLU GLY ILE ILE THR LEU PRO ALA LEU SEQRES 27 B 376 TYR LEU GLY ARG ASN ARG ILE GLY ALA ASP TYR VAL ARG SEQRES 28 B 376 LEU ALA LEU VAL TYR ASP THR PRO LEU LEU GLU LYS PRO SEQRES 29 B 376 LEU GLU ILE ILE GLU THR TYR ARG GLU ASN HIS ALA MODRES 3EZS MSE A 1 MET SELENOMETHIONINE MODRES 3EZS MSE A 134 MET SELENOMETHIONINE MODRES 3EZS MSE A 212 MET SELENOMETHIONINE MODRES 3EZS MSE B 1 MET SELENOMETHIONINE MODRES 3EZS MSE B 134 MET SELENOMETHIONINE MODRES 3EZS MSE B 212 MET SELENOMETHIONINE HET MSE A 1 13 HET MSE A 134 8 HET MSE A 212 8 HET MSE B 1 8 HET MSE B 134 8 HET MSE B 212 8 HET PO4 A 376 5 HET EDO A 377 4 HET EDO A 378 4 HET EDO A 379 4 HET PO4 B 376 5 HET EDO B 377 4 HET EDO B 378 4 HET EDO B 379 4 HET EDO B 380 4 HET EDO B 381 4 HETNAM MSE SELENOMETHIONINE HETNAM PO4 PHOSPHATE ION HETNAM EDO 1,2-ETHANEDIOL HETSYN EDO ETHYLENE GLYCOL FORMUL 1 MSE 6(C5 H11 N O2 SE) FORMUL 3 PO4 2(O4 P 3-) FORMUL 4 EDO 8(C2 H6 O2) FORMUL 13 HOH *402(H2 O) HELIX 1 1 TYR A 6 LYS A 16 1 11 HELIX 2 2 PRO A 37 ASN A 46 1 10 HELIX 3 3 HIS A 47 ILE A 53 5 7 HELIX 4 4 GLU A 60 LYS A 76 1 17 HELIX 5 5 LYS A 80 ASN A 82 5 3 HELIX 6 6 SER A 90 LEU A 102 1 13 HELIX 7 7 GLN A 118 ILE A 127 1 10 HELIX 8 8 THR A 137 ASP A 141 5 5 HELIX 9 9 ASN A 147 VAL A 154 1 8 HELIX 10 10 SER A 171 ASP A 186 1 16 HELIX 11 11 SER A 206 ALA A 214 1 9 HELIX 12 12 ALA A 234 ARG A 238 5 5 HELIX 13 13 ASP A 245 ALA A 257 1 13 HELIX 14 14 ALA A 264 ASP A 277 1 14 HELIX 15 15 ASP A 278 PHE A 299 1 22 HELIX 16 16 ASN A 317 GLY A 330 1 14 HELIX 17 17 LEU A 337 GLY A 340 5 4 HELIX 18 18 ASP A 356 GLU A 372 1 17 HELIX 19 19 TYR B 6 LYS B 16 1 11 HELIX 20 20 PRO B 37 ASN B 46 1 10 HELIX 21 21 HIS B 47 ILE B 53 5 7 HELIX 22 22 GLU B 60 LYS B 76 1 17 HELIX 23 23 LYS B 80 ASN B 82 5 3 HELIX 24 24 SER B 90 LEU B 102 1 13 HELIX 25 25 GLN B 118 ILE B 127 1 10 HELIX 26 26 THR B 137 ASP B 141 5 5 HELIX 27 27 ASN B 147 VAL B 154 1 8 HELIX 28 28 SER B 171 HIS B 185 1 15 HELIX 29 29 SER B 206 ALA B 214 1 9 HELIX 30 30 LEU B 228 SER B 233 1 6 HELIX 31 31 ALA B 234 ARG B 238 5 5 HELIX 32 32 ASP B 245 GLY B 260 1 16 HELIX 33 33 ALA B 264 ASP B 277 1 14 HELIX 34 34 ASP B 278 PHE B 299 1 22 HELIX 35 35 ASN B 317 GLY B 330 1 14 HELIX 36 36 LEU B 337 GLY B 340 5 4 HELIX 37 37 ASP B 356 ASN B 373 1 18 SHEET 1 A 7 LEU A 84 THR A 87 0 SHEET 2 A 7 GLY A 240 GLY A 244 -1 O ILE A 242 N ILE A 85 SHEET 3 A 7 VAL A 222 SER A 227 -1 N HIS A 226 O PHE A 241 SHEET 4 A 7 ILE A 188 ASP A 192 1 N ASN A 191 O ILE A 225 SHEET 5 A 7 LEU A 156 LEU A 159 1 N LEU A 159 O ILE A 190 SHEET 6 A 7 THR A 109 ASN A 114 1 N ALA A 111 O ILE A 158 SHEET 7 A 7 LYS A 130 PRO A 135 1 O LYS A 130 N ILE A 110 SHEET 1 B 3 TYR A 310 PRO A 314 0 SHEET 2 B 3 TYR A 348 ALA A 352 -1 O VAL A 349 N LEU A 313 SHEET 3 B 3 LEU A 334 PRO A 335 -1 N LEU A 334 O ARG A 350 SHEET 1 C 7 LEU B 84 THR B 87 0 SHEET 2 C 7 GLY B 240 GLY B 244 -1 O ILE B 242 N ILE B 85 SHEET 3 C 7 VAL B 222 SER B 227 -1 N HIS B 226 O PHE B 241 SHEET 4 C 7 ILE B 188 ASP B 192 1 N ASN B 191 O ILE B 225 SHEET 5 C 7 LEU B 156 LEU B 159 1 N LEU B 159 O ILE B 190 SHEET 6 C 7 THR B 109 ASN B 114 1 N ALA B 111 O ILE B 158 SHEET 7 C 7 LYS B 130 PRO B 135 1 O LEU B 132 N ILE B 110 SHEET 1 D 3 TYR B 310 PRO B 314 0 SHEET 2 D 3 TYR B 348 ALA B 352 -1 O LEU B 351 N VAL B 311 SHEET 3 D 3 LEU B 334 PRO B 335 -1 N LEU B 334 O ARG B 350 LINK C GLY A 0 N MSE A 1 1555 1555 1.33 LINK C MSE A 1 N THR A 2 1555 1555 1.33 LINK C LEU A 133 N MSE A 134 1555 1555 1.33 LINK C MSE A 134 N PRO A 135 1555 1555 1.36 LINK C CYS A 211 N MSE A 212 1555 1555 1.33 LINK C MSE A 212 N LEU A 213 1555 1555 1.33 LINK C MSE B 1 N THR B 2 1555 1555 1.34 LINK C LEU B 133 N MSE B 134 1555 1555 1.34 LINK C MSE B 134 N PRO B 135 1555 1555 1.36 LINK C CYS B 211 N MSE B 212 1555 1555 1.33 LINK C MSE B 212 N LEU B 213 1555 1555 1.33 CISPEP 1 ASN A 114 PRO A 115 0 4.31 CISPEP 2 SER A 161 PRO A 162 0 -1.01 CISPEP 3 ASN A 164 PRO A 165 0 5.62 CISPEP 4 ASN B 114 PRO B 115 0 2.20 CISPEP 5 SER B 161 PRO B 162 0 -4.31 CISPEP 6 ASN B 164 PRO B 165 0 5.88 SITE 1 AC1 6 TYR A 54 SER B 90 ARG B 91 SER B 227 SITE 2 AC1 6 SER B 229 ARG B 238 SITE 1 AC2 8 SER A 90 ARG A 91 SER A 227 SER A 229 SITE 2 AC2 8 ARG A 238 HOH A 578 HOH A 716 TYR B 54 SITE 1 AC3 4 ASN A 160 SER A 161 ARG A 168 LEU A 170 SITE 1 AC4 2 LYS B 180 ASP B 356 SITE 1 AC5 2 MSE B 1 THR B 2 SITE 1 AC6 2 ALA B 129 SER B 131 SITE 1 AC7 4 LEU A 133 SER A 145 GLU A 150 HOH A 531 SITE 1 AC8 4 PRO B 144 ASN B 160 SER B 161 ARG B 168 SITE 1 AC9 4 THR B 169 LEU B 170 SER B 171 TYR B 307 SITE 1 BC1 6 TYR A 117 ASN A 160 ASN A 164 ASP A 192 SITE 2 BC1 6 TYR A 195 HOH A 381 CRYST1 92.648 106.249 80.201 90.00 90.00 90.00 P 21 21 2 8 ORIGX1 1.000000 0.000000 0.000000 0.00000 ORIGX2 0.000000 1.000000 0.000000 0.00000 ORIGX3 0.000000 0.000000 1.000000 0.00000 SCALE1 0.010794 0.000000 0.000000 0.00000 SCALE2 0.000000 0.009412 0.000000 0.00000 SCALE3 0.000000 0.000000 0.012469 0.00000