HEADER TRANSPORT PROTEIN 12-MAY-05 1ZO2 TITLE STRUCTURE OF NUCLEAR TRANSPORT FACTOR 2 (NTF2) FROM CRYPTOSPORIDIUM TITLE 2 PARVUM COMPND MOL_ID: 1; COMPND 2 MOLECULE: NUCLEAR TRANSPORT FACTOR 2; COMPND 3 CHAIN: A, B; COMPND 4 SYNONYM: NTF2; COMPND 5 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: CRYPTOSPORIDIUM PARVUM; SOURCE 3 ORGANISM_TAXID: 5807; SOURCE 4 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 5 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 6 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 7 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 8 EXPRESSION_SYSTEM_PLASMID: PET28 KEYWDS NUCLEAR TRANSPORT, STRUCTURAL GENOMICS, STRUCTURAL GENOMICS KEYWDS 2 CONSORTIUM, SGC, TRANSPORT PROTEIN EXPDTA X-RAY DIFFRACTION AUTHOR J.CHOE,J.D.ARTZ,M.GAO,J.LEW,Y.ZHAO,C.ARROWSMITH,A.EDWARDS, AUTHOR 2 M.SUNDSTROM,A.BOCHKAREV,R.HUI,STRUCTURAL GENOMICS CONSORTIUM (SGC) REVDAT 5 23-AUG-23 1ZO2 1 REMARK REVDAT 4 11-OCT-17 1ZO2 1 REMARK REVDAT 3 24-FEB-09 1ZO2 1 VERSN REVDAT 2 26-DEC-06 1ZO2 1 JRNL REVDAT 1 31-MAY-05 1ZO2 0 JRNL AUTH M.VEDADI,J.LEW,J.ARTZ,M.AMANI,Y.ZHAO,A.DONG,G.A.WASNEY, JRNL AUTH 2 M.GAO,T.HILLS,S.BROKX,W.QIU,S.SHARMA,A.DIASSITI,Z.ALAM, JRNL AUTH 3 M.MELONE,A.MULICHAK,A.WERNIMONT,J.BRAY,P.LOPPNAU, JRNL AUTH 4 O.PLOTNIKOVA,K.NEWBERRY,E.SUNDARARAJAN,S.HOUSTON,J.WALKER, JRNL AUTH 5 W.TEMPEL,A.BOCHKAREV,I.KOZIERADZKI,A.EDWARDS,C.ARROWSMITH, JRNL AUTH 6 D.ROOS,K.KAIN,R.HUI JRNL TITL GENOME-SCALE PROTEIN EXPRESSION AND STRUCTURAL BIOLOGY OF JRNL TITL 2 PLASMODIUM FALCIPARUM AND RELATED APICOMPLEXAN ORGANISMS. JRNL REF MOL.BIOCHEM.PARASITOL. V. 151 100 2007 JRNL REFN ISSN 0166-6851 JRNL PMID 17125854 JRNL DOI 10.1016/J.MOLBIOPARA.2006.10.011 REMARK 2 REMARK 2 RESOLUTION. 1.60 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : CNS 1.1 REMARK 3 AUTHORS : BRUNGER,ADAMS,CLORE,DELANO,GROS,GROSSE- REMARK 3 : KUNSTLEVE,JIANG,KUSZEWSKI,NILGES,PANNU, REMARK 3 : READ,RICE,SIMONSON,WARREN REMARK 3 REMARK 3 REFINEMENT TARGET : ENGH & HUBER REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.60 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 35.16 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 DATA CUTOFF HIGH (ABS(F)) : 823352.820 REMARK 3 DATA CUTOFF LOW (ABS(F)) : 0.0000 REMARK 3 COMPLETENESS (WORKING+TEST) (%) : 91.8 REMARK 3 NUMBER OF REFLECTIONS : 28649 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 SET) : 0.212 REMARK 3 FREE R VALUE : 0.253 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.900 REMARK 3 FREE R VALUE TEST SET COUNT : 1375 REMARK 3 ESTIMATED ERROR OF FREE R VALUE : 0.007 REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 6 REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 1.60 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.70 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 60.60 REMARK 3 REFLECTIONS IN BIN (WORKING SET) : 2936 REMARK 3 BIN R VALUE (WORKING SET) : 0.3620 REMARK 3 BIN FREE R VALUE : 0.3450 REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : 4.80 REMARK 3 BIN FREE R VALUE TEST SET COUNT : 148 REMARK 3 ESTIMATED ERROR OF BIN FREE R VALUE : 0.028 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 1998 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 0 REMARK 3 SOLVENT ATOMS : 178 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 22.50 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 19.30 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 3.23000 REMARK 3 B22 (A**2) : -1.74000 REMARK 3 B33 (A**2) : -1.49000 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 COORDINATE ERROR. REMARK 3 ESD FROM LUZZATI PLOT (A) : 0.22 REMARK 3 ESD FROM SIGMAA (A) : 0.19 REMARK 3 LOW RESOLUTION CUTOFF (A) : 5.00 REMARK 3 REMARK 3 CROSS-VALIDATED ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM C-V LUZZATI PLOT (A) : 0.25 REMARK 3 ESD FROM C-V SIGMAA (A) : 0.17 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 BOND LENGTHS (A) : 0.007 REMARK 3 BOND ANGLES (DEGREES) : 1.200 REMARK 3 DIHEDRAL ANGLES (DEGREES) : 25.70 REMARK 3 IMPROPER ANGLES (DEGREES) : 0.800 REMARK 3 REMARK 3 ISOTROPIC THERMAL MODEL : RESTRAINED REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. RMS SIGMA REMARK 3 MAIN-CHAIN BOND (A**2) : NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE (A**2) : NULL ; NULL REMARK 3 SIDE-CHAIN BOND (A**2) : NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE (A**2) : NULL ; NULL REMARK 3 REMARK 3 BULK SOLVENT MODELING. REMARK 3 METHOD USED : FLAT MODEL REMARK 3 KSOL : 0.40 REMARK 3 BSOL : 51.84 REMARK 3 REMARK 3 NCS MODEL : NULL REMARK 3 REMARK 3 NCS RESTRAINTS. RMS SIGMA/WEIGHT REMARK 3 GROUP 1 POSITIONAL (A) : NULL ; NULL REMARK 3 GROUP 1 B-FACTOR (A**2) : NULL ; NULL REMARK 3 REMARK 3 PARAMETER FILE 1 : PROTEIN_REP.PARAM REMARK 3 PARAMETER FILE 2 : WATER_REP.PARAM REMARK 3 PARAMETER FILE 3 : ION.PARAM REMARK 3 PARAMETER FILE 4 : NULL REMARK 3 TOPOLOGY FILE 1 : PROTEIN.TOP REMARK 3 TOPOLOGY FILE 2 : WATER.TOP REMARK 3 TOPOLOGY FILE 3 : NULL REMARK 3 TOPOLOGY FILE 4 : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 1ZO2 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 13-MAY-05. REMARK 100 THE DEPOSITION ID IS D_1000032942. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 11-MAY-05 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : N REMARK 200 RADIATION SOURCE : ROTATING ANODE REMARK 200 BEAMLINE : NULL REMARK 200 X-RAY GENERATOR MODEL : RIGAKU FR-E REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.5418 REMARK 200 MONOCHROMATOR : CONFOCAL MAXFLUX OPTICS REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : IMAGE PLATE REMARK 200 DETECTOR MANUFACTURER : RIGAKU RAXIS IV REMARK 200 INTENSITY-INTEGRATION SOFTWARE : COLLECT REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 28649 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.600 REMARK 200 RESOLUTION RANGE LOW (A) : 35.300 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 91.8 REMARK 200 DATA REDUNDANCY : 6.700 REMARK 200 R MERGE (I) : 0.04600 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 35.7000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.60 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.66 REMARK 200 COMPLETENESS FOR SHELL (%) : 56.2 REMARK 200 DATA REDUNDANCY IN SHELL : 4.20 REMARK 200 R MERGE FOR SHELL (I) : 0.26900 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> FOR SHELL : 5.200 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: MOLREP REMARK 200 STARTING MODEL: PDB ENTRY 1GYB REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 41.70 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.10 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: PEG 3350, AMMONIUM PHOSPHATE, PH 7.5, REMARK 280 VAPOR DIFFUSION, SITTING DROP, TEMPERATURE 291K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 21 21 21 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X+1/2,-Y,Z+1/2 REMARK 290 3555 -X,Y+1/2,-Z+1/2 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 21.75800 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 42.77150 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 30.86650 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 42.77150 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 21.75800 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 30.86650 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: 2730 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 11240 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -14.0 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 MET A 0 REMARK 465 ASP A 1 REMARK 465 GLN A 2 REMARK 465 LEU A 127 REMARK 465 GLY A 128 REMARK 465 MET B 0 REMARK 465 ASP B 1 REMARK 465 GLN B 2 REMARK 465 LEU B 127 REMARK 465 GLY B 128 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 28 69.68 -164.35 REMARK 500 ASP A 46 -18.15 77.78 REMARK 500 ASN B 28 78.83 -153.77 REMARK 500 ASP B 46 -4.96 80.26 REMARK 500 ASN B 63 79.13 -103.32 REMARK 500 REMARK 500 REMARK: NULL DBREF 1ZO2 A 0 128 UNP Q5CQI4 Q5CQI4_CRYPV 1 129 DBREF 1ZO2 B 0 128 UNP Q5CQI4 Q5CQI4_CRYPV 1 129 SEQRES 1 A 129 MET ASP GLN SER ILE ASN LEU ASN PRO GLN PHE ASP GLN SEQRES 2 A 129 ILE GLY LYS GLN PHE VAL GLN HIS TYR TYR GLN THR PHE SEQRES 3 A 129 GLN THR ASN ARG PRO ALA LEU GLY GLY LEU TYR GLY PRO SEQRES 4 A 129 GLN SER MET LEU THR TRP GLU ASP THR GLN PHE GLN GLY SEQRES 5 A 129 GLN ALA ASN ILE VAL ASN LYS PHE ASN SER LEU ASN PHE SEQRES 6 A 129 GLN ARG VAL GLN PHE GLU ILE THR ARG VAL ASP CYS GLN SEQRES 7 A 129 PRO SER PRO ASN ASN GLY SER ILE VAL PHE VAL THR GLY SEQRES 8 A 129 ASP VAL ARG ILE ASP ASP GLY GLN PRO LEU LYS PHE SER SEQRES 9 A 129 GLN VAL PHE ASN LEU MET PRO SER GLY ASN GLY GLY PHE SEQRES 10 A 129 MET ILE PHE ASN ASP LEU PHE ARG LEU ASN LEU GLY SEQRES 1 B 129 MET ASP GLN SER ILE ASN LEU ASN PRO GLN PHE ASP GLN SEQRES 2 B 129 ILE GLY LYS GLN PHE VAL GLN HIS TYR TYR GLN THR PHE SEQRES 3 B 129 GLN THR ASN ARG PRO ALA LEU GLY GLY LEU TYR GLY PRO SEQRES 4 B 129 GLN SER MET LEU THR TRP GLU ASP THR GLN PHE GLN GLY SEQRES 5 B 129 GLN ALA ASN ILE VAL ASN LYS PHE ASN SER LEU ASN PHE SEQRES 6 B 129 GLN ARG VAL GLN PHE GLU ILE THR ARG VAL ASP CYS GLN SEQRES 7 B 129 PRO SER PRO ASN ASN GLY SER ILE VAL PHE VAL THR GLY SEQRES 8 B 129 ASP VAL ARG ILE ASP ASP GLY GLN PRO LEU LYS PHE SER SEQRES 9 B 129 GLN VAL PHE ASN LEU MET PRO SER GLY ASN GLY GLY PHE SEQRES 10 B 129 MET ILE PHE ASN ASP LEU PHE ARG LEU ASN LEU GLY FORMUL 3 HOH *178(H2 O) HELIX 1 1 GLN A 9 ASN A 28 1 20 HELIX 2 2 ARG A 29 GLY A 34 5 6 HELIX 3 3 GLY A 51 ASN A 63 1 13 HELIX 4 4 GLN B 9 ASN B 28 1 20 HELIX 5 5 ARG B 29 GLY B 34 5 6 HELIX 6 6 GLY B 51 LEU B 62 1 12 SHEET 1 A 6 THR A 47 GLN A 50 0 SHEET 2 A 6 TYR A 36 TRP A 44 -1 N TRP A 44 O THR A 47 SHEET 3 A 6 PHE A 116 LEU A 125 1 O PHE A 123 N THR A 43 SHEET 4 A 6 LEU A 100 PRO A 110 -1 N ASN A 107 O PHE A 119 SHEET 5 A 6 SER A 84 ILE A 94 -1 N SER A 84 O LEU A 108 SHEET 6 A 6 VAL A 67 PRO A 78 -1 N GLN A 77 O ILE A 85 SHEET 1 B 6 THR B 47 GLN B 50 0 SHEET 2 B 6 TYR B 36 TRP B 44 -1 N LEU B 42 O PHE B 49 SHEET 3 B 6 PHE B 116 ARG B 124 1 O PHE B 123 N THR B 43 SHEET 4 B 6 LEU B 100 PRO B 110 -1 N MET B 109 O MET B 117 SHEET 5 B 6 SER B 84 ILE B 94 -1 N VAL B 86 O PHE B 106 SHEET 6 B 6 VAL B 67 PRO B 78 -1 N GLN B 77 O ILE B 85 CRYST1 43.516 61.733 85.543 90.00 90.00 90.00 P 21 21 21 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 0.022980 0.000000 0.000000 0.00000 SCALE2 0.000000 0.016199 0.000000 0.00000 SCALE3 0.000000 0.000000 0.011690 0.00000