HEADER STRUCTURAL GENOMICS, UNKNOWN FUNCTION 13-JUL-07 2QM2 TITLE PUTATIVE HOPJ TYPE III EFFECTOR PROTEIN FROM VIBRIO PARAHAEMOLYTICUS COMPND MOL_ID: 1; COMPND 2 MOLECULE: PUTATIVE HOPJ TYPE III EFFECTOR PROTEIN; COMPND 3 CHAIN: A, B; COMPND 4 SYNONYM: UNCHARACTERIZED PROTEIN VPA0580; COMPND 5 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: VIBRIO PARAHAEMOLYTICUS; SOURCE 3 ORGANISM_TAXID: 223926; SOURCE 4 STRAIN: RIMD 2210633; SOURCE 5 GENE: VPA0580; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 7 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PMCSG7 KEYWDS ALPHA-BETA STRUCTURE, STRUCTURAL GENOMICS, PSI-2, PROTEIN STRUCTURE KEYWDS 2 INITIATIVE, MIDWEST CENTER FOR STRUCTURAL GENOMICS, MCSG, UNKNOWN KEYWDS 3 FUNCTION EXPDTA X-RAY DIFFRACTION AUTHOR Y.KIM,C.CHANG,L.VOLKART,J.ABDULLAH,A.JOACHIMIAK,MIDWEST CENTER FOR AUTHOR 2 STRUCTURAL GENOMICS (MCSG) REVDAT 5 15-NOV-23 2QM2 1 REMARK REVDAT 4 30-AUG-23 2QM2 1 REMARK SEQADV LINK REVDAT 3 13-JUL-11 2QM2 1 VERSN REVDAT 2 24-FEB-09 2QM2 1 VERSN REVDAT 1 31-JUL-07 2QM2 0 JRNL AUTH Y.KIM,C.CHANG,L.VOLKART,J.ABDULLAH,A.JOACHIMIAK JRNL TITL CRYSTAL STRUCTURE OF PUTATIVE HOPJ TYPE III EFFECTOR PROTEIN JRNL TITL 2 FROM VIBRIO PARAHAEMOLYTICUS. JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 2.09 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.2.0000 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) : 2.09 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 38.49 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 88.7 REMARK 3 NUMBER OF REFLECTIONS : 13915 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) : 0.217 REMARK 3 R VALUE (WORKING SET) : 0.209 REMARK 3 FREE R VALUE : 0.281 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 10.100 REMARK 3 FREE R VALUE TEST SET COUNT : 1570 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) : 2.09 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.15 REMARK 3 REFLECTION IN BIN (WORKING SET) : 569 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : NULL REMARK 3 BIN R VALUE (WORKING SET) : 0.2210 REMARK 3 BIN FREE R VALUE SET COUNT : 71 REMARK 3 BIN FREE R VALUE : 0.3130 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 1855 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 16 REMARK 3 SOLVENT ATOMS : 200 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) : 42.72 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 1.24000 REMARK 3 B22 (A**2) : -3.92000 REMARK 3 B33 (A**2) : 2.69000 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): 0.308 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.252 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.151 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 10.446 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.934 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.871 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 2039 ; 0.018 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 2776 ; 1.773 ; 1.936 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 258 ; 6.855 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 119 ;44.372 ;26.303 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 332 ;20.209 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 6 ;20.168 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 289 ; 0.130 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 1648 ; 0.007 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 1226 ; 0.264 ; 0.200 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): 224 ; 0.215 ; 0.200 REMARK 3 H-BOND (X...Y) OTHERS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION REFINED ATOMS (A): 4 ; 0.127 ; 0.200 REMARK 3 POTENTIAL METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW REFINED ATOMS (A): 59 ; 0.213 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 16 ; 0.187 ; 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): 1249 ; 0.863 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 2015 ; 1.584 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 794 ; 3.008 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 761 ; 4.503 ; 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 5 A 122 REMARK 3 ORIGIN FOR THE GROUP (A): 25.2793 7.5815 14.2511 REMARK 3 T TENSOR REMARK 3 T11: -0.1271 T22: -0.1343 REMARK 3 T33: -0.1107 T12: 0.0009 REMARK 3 T13: 0.0113 T23: -0.0008 REMARK 3 L TENSOR REMARK 3 L11: 0.3863 L22: 1.0934 REMARK 3 L33: 0.3801 L12: -0.1524 REMARK 3 L13: -0.1970 L23: -0.2861 REMARK 3 S TENSOR REMARK 3 S11: 0.0106 S12: -0.0373 S13: 0.0682 REMARK 3 S21: -0.0444 S22: -0.0112 S23: -0.0417 REMARK 3 S31: 0.0471 S32: 0.0024 S33: 0.0006 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 7 B 122 REMARK 3 ORIGIN FOR THE GROUP (A): 20.0654 31.5062 16.8531 REMARK 3 T TENSOR REMARK 3 T11: -0.1330 T22: -0.1450 REMARK 3 T33: -0.1181 T12: 0.0017 REMARK 3 T13: -0.0026 T23: -0.0155 REMARK 3 L TENSOR REMARK 3 L11: 0.4156 L22: 1.9982 REMARK 3 L33: 0.5976 L12: -0.0448 REMARK 3 L13: 0.2130 L23: -0.0723 REMARK 3 S TENSOR REMARK 3 S11: 0.0163 S12: 0.0045 S13: 0.0152 REMARK 3 S21: -0.0623 S22: -0.0078 S23: 0.1032 REMARK 3 S31: 0.0065 S32: -0.0215 S33: -0.0085 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : 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: NULL REMARK 4 REMARK 4 2QM2 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 20-JUL-07. REMARK 100 THE DEPOSITION ID IS D_1000043768. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 16-APR-07 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7.6 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : APS REMARK 200 BEAMLINE : 19-ID REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.97930 REMARK 200 MONOCHROMATOR : DOUBLE CRYSTAL, SI111 REMARK 200 OPTICS : MIRRORS REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 315 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-3000 REMARK 200 DATA SCALING SOFTWARE : HKL-3000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 15501 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.090 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 89.0 REMARK 200 DATA REDUNDANCY : 10.10 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : 0.11100 REMARK 200 FOR THE DATA SET : 14.5000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.09 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.18 REMARK 200 COMPLETENESS FOR SHELL (%) : 55.6 REMARK 200 DATA REDUNDANCY IN SHELL : 7.30 REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : 0.22400 REMARK 200 FOR SHELL : 7.200 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT, SAD REMARK 200 SOFTWARE USED: MOLREP, HKL-3000 REMARK 200 STARTING MODEL: PDB ENTRY 2QHQ REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 51.60 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.54 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.4M NAH2PO4, 1.6M K2HPO4, 0.1M REMARK 280 IMIDAZOLE PH 8.0, 0.2M NACL PH 7.6, VAPOR DIFFUSION, SITTING REMARK 280 DROP, TEMPERATURE 295K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: C 2 2 21 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,-Y,Z+1/2 REMARK 290 3555 -X,Y,-Z+1/2 REMARK 290 4555 X,-Y,-Z REMARK 290 5555 X+1/2,Y+1/2,Z REMARK 290 6555 -X+1/2,-Y+1/2,Z+1/2 REMARK 290 7555 -X+1/2,Y+1/2,-Z+1/2 REMARK 290 8555 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 36.22250 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 36.22250 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 4 0.000000 -1.000000 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 43.81100 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 45.44300 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 6 -1.000000 0.000000 0.000000 43.81100 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 45.44300 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 36.22250 REMARK 290 SMTRY1 7 -1.000000 0.000000 0.000000 43.81100 REMARK 290 SMTRY2 7 0.000000 1.000000 0.000000 45.44300 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 36.22250 REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 43.81100 REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 45.44300 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 0.00000 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1 REMARK 300 AUTHORS STATE THAT THE BIOLOGICAL UNIT OF THIS PROTEIN REMARK 300 IS UNKNOWN. SEE REMARK 350 FOR THE PROGRAM GENERATED REMARK 300 ASSEMBLY INFORMATION FOR THE STRUCTURE IN THIS ENTRY. REMARK 300 THE REMARK MAY ALSO PROVIDE INFORMATION ON BURIED REMARK 300 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 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 2150 ANGSTROM**2 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 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TETRAMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 5600 ANGSTROM**2 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 BIOMT1 2 -1.000000 0.000000 0.000000 87.62200 REMARK 350 BIOMT2 2 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 2 0.000000 0.000000 -1.000000 36.22250 REMARK 375 REMARK 375 SPECIAL POSITION REMARK 375 THE FOLLOWING ATOMS ARE FOUND TO BE WITHIN 0.15 ANGSTROMS REMARK 375 OF A SYMMETRY RELATED ATOM AND ARE ASSUMED TO BE ON SPECIAL REMARK 375 POSITIONS. REMARK 375 REMARK 375 ATOM RES CSSEQI REMARK 375 HOH A 270 LIES ON A SPECIAL POSITION. 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 SER A -2 REMARK 465 ASN A -1 REMARK 465 ALA A 0 REMARK 465 MSE A 1 REMARK 465 ALA A 2 REMARK 465 LEU A 3 REMARK 465 GLY A 4 REMARK 465 SER B -2 REMARK 465 ASN B -1 REMARK 465 ALA B 0 REMARK 465 MSE B 1 REMARK 465 ALA B 2 REMARK 465 LEU B 3 REMARK 465 GLY B 4 REMARK 465 PHE B 5 REMARK 465 GLY B 6 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 OG1 THR A 116 O HOH A 275 2.08 REMARK 500 OG SER B 117 O HOH A 275 2.18 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 58 -39.18 -34.55 REMARK 500 GLU A 87 -62.08 -104.09 REMARK 500 ASP A 97 136.34 -34.06 REMARK 500 LYS B 8 -47.43 -3.29 REMARK 500 ASN B 58 -31.38 -39.20 REMARK 500 PHE B 81 5.51 -63.53 REMARK 500 ASN B 96 18.11 -140.17 REMARK 500 ASP B 97 132.73 -37.81 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 ASN B 96 ASP B 97 148.39 REMARK 500 REMARK 500 REMARK: NULL 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 NA B 202 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 LEU A 69 O REMARK 620 2 GLU B 110 O 125.8 REMARK 620 3 ILE B 112 O 125.3 90.8 REMARK 620 4 HOH B 233 O 87.9 142.8 78.9 REMARK 620 5 HOH B 241 O 141.1 65.1 88.0 78.7 REMARK 620 N 1 2 3 4 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 K A 201 K REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU A 110 O REMARK 620 2 ILE A 112 O 104.3 REMARK 620 3 ASN B 70 O 163.8 91.0 REMARK 620 4 HOH B 251 O 99.7 142.4 64.3 REMARK 620 N 1 2 3 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE K A 201 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NA B 202 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE TRS B 203 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL A 204 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: APC86649 RELATED DB: TARGETDB REMARK 900 RELATED ID: 2QHQ RELATED DB: PDB REMARK 900 LYSYL METHYLATED PROTEIN DBREF 2QM2 A 1 122 UNP Q87IM6 Q87IM6_VIBPA 1 122 DBREF 2QM2 B 1 122 UNP Q87IM6 Q87IM6_VIBPA 1 122 SEQADV 2QM2 SER A -2 UNP Q87IM6 CLONING ARTIFACT SEQADV 2QM2 ASN A -1 UNP Q87IM6 CLONING ARTIFACT SEQADV 2QM2 ALA A 0 UNP Q87IM6 CLONING ARTIFACT SEQADV 2QM2 MSE A 1 UNP Q87IM6 MET 1 MODIFIED RESIDUE SEQADV 2QM2 MSE A 7 UNP Q87IM6 MET 7 MODIFIED RESIDUE SEQADV 2QM2 MSE A 9 UNP Q87IM6 MET 9 MODIFIED RESIDUE SEQADV 2QM2 MSE A 31 UNP Q87IM6 MET 31 MODIFIED RESIDUE SEQADV 2QM2 MSE A 105 UNP Q87IM6 MET 105 MODIFIED RESIDUE SEQADV 2QM2 SER B -2 UNP Q87IM6 CLONING ARTIFACT SEQADV 2QM2 ASN B -1 UNP Q87IM6 CLONING ARTIFACT SEQADV 2QM2 ALA B 0 UNP Q87IM6 CLONING ARTIFACT SEQADV 2QM2 MSE B 1 UNP Q87IM6 MET 1 MODIFIED RESIDUE SEQADV 2QM2 MSE B 7 UNP Q87IM6 MET 7 MODIFIED RESIDUE SEQADV 2QM2 MSE B 9 UNP Q87IM6 MET 9 MODIFIED RESIDUE SEQADV 2QM2 MSE B 31 UNP Q87IM6 MET 31 MODIFIED RESIDUE SEQADV 2QM2 MSE B 105 UNP Q87IM6 MET 105 MODIFIED RESIDUE SEQRES 1 A 125 SER ASN ALA MSE ALA LEU GLY PHE GLY MSE LYS MSE GLU SEQRES 2 A 125 LEU GLN GLN PHE LEU ASP ALA LEU ALA SER SER PRO GLU SEQRES 3 A 125 LYS ILE GLU PHE GLU THR THR MSE ALA VAL ILE GLU ASP SEQRES 4 A 125 ASN TYR ASP PHE THR PRO ALA ALA PHE THR ASN GLY ASN SEQRES 5 A 125 THR GLN ASN ASP ALA ASN GLU ASN ASN GLY SER CYS LYS SEQRES 6 A 125 ILE PHE ALA PHE GLY LEU LEU ASN ALA LEU ASP LYS GLU SEQRES 7 A 125 ALA THR LEU ALA CYS PHE GLY ARG PHE TYR ARG GLU ASP SEQRES 8 A 125 VAL LEU LEU HIS PRO GLU ASN ASN ASP HIS GLN ASN ILE SEQRES 9 A 125 ARG ASN PHE MSE VAL THR GLY TRP GLU GLY ILE GLN PHE SEQRES 10 A 125 GLU THR SER ALA LEU THR ALA LYS SEQRES 1 B 125 SER ASN ALA MSE ALA LEU GLY PHE GLY MSE LYS MSE GLU SEQRES 2 B 125 LEU GLN GLN PHE LEU ASP ALA LEU ALA SER SER PRO GLU SEQRES 3 B 125 LYS ILE GLU PHE GLU THR THR MSE ALA VAL ILE GLU ASP SEQRES 4 B 125 ASN TYR ASP PHE THR PRO ALA ALA PHE THR ASN GLY ASN SEQRES 5 B 125 THR GLN ASN ASP ALA ASN GLU ASN ASN GLY SER CYS LYS SEQRES 6 B 125 ILE PHE ALA PHE GLY LEU LEU ASN ALA LEU ASP LYS GLU SEQRES 7 B 125 ALA THR LEU ALA CYS PHE GLY ARG PHE TYR ARG GLU ASP SEQRES 8 B 125 VAL LEU LEU HIS PRO GLU ASN ASN ASP HIS GLN ASN ILE SEQRES 9 B 125 ARG ASN PHE MSE VAL THR GLY TRP GLU GLY ILE GLN PHE SEQRES 10 B 125 GLU THR SER ALA LEU THR ALA LYS MODRES 2QM2 MSE A 7 MET SELENOMETHIONINE MODRES 2QM2 MSE A 9 MET SELENOMETHIONINE MODRES 2QM2 MSE A 31 MET SELENOMETHIONINE MODRES 2QM2 MSE A 105 MET SELENOMETHIONINE MODRES 2QM2 MSE B 7 MET SELENOMETHIONINE MODRES 2QM2 MSE B 9 MET SELENOMETHIONINE MODRES 2QM2 MSE B 31 MET SELENOMETHIONINE MODRES 2QM2 MSE B 105 MET SELENOMETHIONINE HET MSE A 7 8 HET MSE A 9 8 HET MSE A 31 8 HET MSE A 105 8 HET MSE B 7 8 HET MSE B 9 8 HET MSE B 31 8 HET MSE B 105 8 HET K A 201 1 HET GOL A 204 6 HET NA B 202 1 HET TRS B 203 16 HETNAM MSE SELENOMETHIONINE HETNAM K POTASSIUM ION HETNAM GOL GLYCEROL HETNAM NA SODIUM ION HETNAM TRS 2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL HETSYN GOL GLYCERIN; PROPANE-1,2,3-TRIOL HETSYN TRS TRIS BUFFER FORMUL 1 MSE 8(C5 H11 N O2 SE) FORMUL 3 K K 1+ FORMUL 4 GOL C3 H8 O3 FORMUL 5 NA NA 1+ FORMUL 6 TRS C4 H12 N O3 1+ FORMUL 7 HOH *200(H2 O) HELIX 1 1 GLU A 10 SER A 21 1 12 HELIX 2 2 PRO A 22 ILE A 25 5 4 HELIX 3 3 GLU A 26 ASN A 37 1 12 HELIX 4 4 ASN A 57 ASN A 70 1 14 HELIX 5 5 ASP A 73 CYS A 80 1 8 HELIX 6 6 GLY A 82 GLU A 87 1 6 HELIX 7 7 HIS A 98 GLY A 108 1 11 HELIX 8 8 GLU B 10 SER B 21 1 12 HELIX 9 9 PRO B 22 ILE B 25 5 4 HELIX 10 10 GLU B 26 ASN B 37 1 12 HELIX 11 11 ASN B 57 ASN B 70 1 14 HELIX 12 12 ASP B 73 PHE B 81 1 9 HELIX 13 13 PHE B 81 GLU B 87 1 7 HELIX 14 14 HIS B 98 GLY B 111 1 14 SHEET 1 A 2 TYR A 38 PHE A 40 0 SHEET 2 A 2 LEU A 119 ALA A 121 -1 O THR A 120 N ASP A 39 SHEET 1 B 3 THR A 50 ASN A 52 0 SHEET 2 B 3 PHE A 45 ASN A 47 -1 N PHE A 45 O ASN A 52 SHEET 3 B 3 ILE A 112 PHE A 114 -1 O GLN A 113 N THR A 46 SHEET 1 C 2 TYR B 38 PHE B 40 0 SHEET 2 C 2 LEU B 119 ALA B 121 -1 O THR B 120 N ASP B 39 SHEET 1 D 3 THR B 50 ASN B 52 0 SHEET 2 D 3 PHE B 45 ASN B 47 -1 N ASN B 47 O THR B 50 SHEET 3 D 3 ILE B 112 PHE B 114 -1 O GLN B 113 N THR B 46 LINK C GLY A 6 N MSE A 7 1555 1555 1.33 LINK C MSE A 7 N LYS A 8 1555 1555 1.32 LINK C LYS A 8 N MSE A 9 1555 1555 1.33 LINK C MSE A 9 N GLU A 10 1555 1555 1.32 LINK C THR A 30 N MSE A 31 1555 1555 1.34 LINK C MSE A 31 N ALA A 32 1555 1555 1.34 LINK C PHE A 104 N MSE A 105 1555 1555 1.33 LINK C MSE A 105 N VAL A 106 1555 1555 1.34 LINK C MSE B 7 N LYS B 8 1555 1555 1.33 LINK C LYS B 8 N MSE B 9 1555 1555 1.34 LINK C MSE B 9 N GLU B 10 1555 1555 1.33 LINK C THR B 30 N MSE B 31 1555 1555 1.33 LINK C MSE B 31 N ALA B 32 1555 1555 1.34 LINK C PHE B 104 N MSE B 105 1555 1555 1.32 LINK C MSE B 105 N VAL B 106 1555 1555 1.34 LINK O LEU A 69 NA NA B 202 1555 1555 2.52 LINK O GLU A 110 K K A 201 1555 1555 2.79 LINK O ILE A 112 K K A 201 1555 1555 2.69 LINK K K A 201 O ASN B 70 1555 1555 2.68 LINK K K A 201 O HOH B 251 1555 1555 2.60 LINK O AGLU B 110 NA NA B 202 1555 1555 2.97 LINK O ILE B 112 NA NA B 202 1555 1555 2.65 LINK NA NA B 202 O HOH B 233 1555 1555 2.96 LINK NA NA B 202 O HOH B 241 1555 1555 2.33 SITE 1 AC1 6 TRP A 109 GLU A 110 ILE A 112 ASN B 70 SITE 2 AC1 6 HOH B 229 HOH B 251 SITE 1 AC2 6 LEU A 69 TRP B 109 GLU B 110 ILE B 112 SITE 2 AC2 6 HOH B 233 HOH B 241 SITE 1 AC3 11 ASN A 57 ASP A 97 HIS A 98 ASN B 57 SITE 2 AC3 11 ASP B 97 HIS B 98 GLN B 99 HOH B 218 SITE 3 AC3 11 HOH B 226 HOH B 237 HOH B 255 SITE 1 AC4 8 ALA A 65 LEU A 68 LEU A 69 PHE A 114 SITE 2 AC4 8 SER A 117 ALA A 118 LEU A 119 HOH A 258 CRYST1 87.622 90.886 72.445 90.00 90.00 90.00 C 2 2 21 16 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 0.011413 0.000000 0.000000 0.00000 SCALE2 0.000000 0.011003 0.000000 0.00000 SCALE3 0.000000 0.000000 0.013804 0.00000