HEADER TRANSPORT PROTEIN 28-JUL-15 5CWT TITLE CRYSTAL STRUCTURE OF CHAETOMIUM THERMOPHILUM NUP57 COMPND MOL_ID: 1; COMPND 2 MOLECULE: NUCLEOPORIN NUP57; COMPND 3 CHAIN: A, B, C, D; COMPND 4 FRAGMENT: UNP RESIDUES 265-317; COMPND 5 SYNONYM: NUCLEAR PORE PROTEIN NUP57; COMPND 6 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: CHAETOMIUM THERMOPHILUM (STRAIN DSM 1495 / CBS SOURCE 3 144.50 / IMI 039719); SOURCE 4 ORGANISM_TAXID: 759272; SOURCE 5 STRAIN: DSM 1495 / CBS 144.50 / IMI 039719; SOURCE 6 GENE: NUP57, CTHT_0010940; SOURCE 7 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 8 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS NUCLEOCYTOPLASMIC TRANSPORT, TRANSPORT PROTEIN EXPDTA X-RAY DIFFRACTION AUTHOR C.J.BLEY,A.HOELZ REVDAT 9 06-MAR-24 5CWT 1 REMARK REVDAT 8 25-DEC-19 5CWT 1 REMARK REVDAT 7 01-NOV-17 5CWT 1 REMARK REVDAT 6 27-SEP-17 5CWT 1 REMARK REVDAT 5 20-JUL-16 5CWT 1 REMARK REVDAT 4 14-OCT-15 5CWT 1 JRNL REVDAT 3 30-SEP-15 5CWT 1 TITLE REVDAT 2 23-SEP-15 5CWT 1 JRNL REVDAT 1 16-SEP-15 5CWT 0 JRNL AUTH T.STUWE,C.J.BLEY,K.THIERBACH,S.PETROVIC,S.SCHILBACH, JRNL AUTH 2 D.J.MAYO,T.PERRICHES,E.J.RUNDLET,Y.E.JEON,L.N.COLLINS, JRNL AUTH 3 F.M.HUBER,D.H.LIN,M.PADUCH,A.KOIDE,V.LU,J.FISCHER,E.HURT, JRNL AUTH 4 S.KOIDE,A.A.KOSSIAKOFF,A.HOELZ JRNL TITL ARCHITECTURE OF THE FUNGAL NUCLEAR PORE INNER RING COMPLEX. JRNL REF SCIENCE V. 350 56 2015 JRNL REFN ESSN 1095-9203 JRNL PMID 26316600 JRNL DOI 10.1126/SCIENCE.AAC9176 REMARK 2 REMARK 2 RESOLUTION. 2.50 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 1.8.2_1309 REMARK 3 AUTHORS : PAUL ADAMS,PAVEL AFONINE,VINCENT CHEN,IAN REMARK 3 : DAVIS,KRESHNA GOPAL,RALF GROSSE-KUNSTLEVE, REMARK 3 : LI-WEI HUNG,ROBERT IMMORMINO,TOM IOERGER, REMARK 3 : AIRLIE MCCOY,ERIK MCKEE,NIGEL MORIARTY, REMARK 3 : REETAL PAI,RANDY READ,JANE RICHARDSON, REMARK 3 : DAVID RICHARDSON,TOD ROMO,JIM SACCHETTINI, REMARK 3 : NICHOLAS SAUTER,JACOB SMITH,LAURENT REMARK 3 : STORONI,TOM TERWILLIGER,PETER ZWART REMARK 3 REMARK 3 REFINEMENT TARGET : ML REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.50 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 19.26 REMARK 3 MIN(FOBS/SIGMA_FOBS) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 86.9 REMARK 3 NUMBER OF REFLECTIONS : 8126 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.246 REMARK 3 R VALUE (WORKING SET) : 0.241 REMARK 3 FREE R VALUE : 0.293 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 9.960 REMARK 3 FREE R VALUE TEST SET COUNT : 809 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT (IN BINS). REMARK 3 BIN RESOLUTION RANGE COMPL. NWORK NFREE RWORK RFREE REMARK 3 1 2.6549 - 2.5000 0.00 0 0 0.0000 0.3117 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : FLAT BULK SOLVENT MODEL REMARK 3 SOLVENT RADIUS : NULL REMARK 3 SHRINKAGE RADIUS : NULL REMARK 3 K_SOL : NULL REMARK 3 B_SOL : NULL REMARK 3 REMARK 3 ERROR ESTIMATES. REMARK 3 COORDINATE ERROR (MAXIMUM-LIKELIHOOD BASED) : NULL REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : NULL REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : NULL REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : NULL REMARK 3 B22 (A**2) : NULL REMARK 3 B33 (A**2) : NULL REMARK 3 B12 (A**2) : NULL REMARK 3 B13 (A**2) : NULL REMARK 3 B23 (A**2) : NULL REMARK 3 REMARK 3 TWINNING INFORMATION. REMARK 3 FRACTION: NULL REMARK 3 OPERATOR: NULL REMARK 3 REMARK 3 DEVIATIONS FROM IDEAL VALUES. REMARK 3 RMSD COUNT REMARK 3 BOND : 0.002 1321 REMARK 3 ANGLE : 0.443 1749 REMARK 3 CHIRALITY : 0.031 174 REMARK 3 PLANARITY : 0.001 226 REMARK 3 DIHEDRAL : 14.238 541 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : NULL REMARK 3 REMARK 3 NCS DETAILS REMARK 3 NUMBER OF NCS GROUPS : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 5CWT COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 28-JUL-15. REMARK 100 THE DEPOSITION ID IS D_1000212242. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 17-JUL-14 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 8.0 REMARK 200 NUMBER OF CRYSTALS USED : NULL REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SSRL REMARK 200 BEAMLINE : BL12-2 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.0000 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 : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 8970 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.500 REMARK 200 RESOLUTION RANGE LOW (A) : 20.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 98.0 REMARK 200 DATA REDUNDANCY : 15.20 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : 0.04300 REMARK 200 FOR THE DATA SET : 58.3000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : NULL REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : NULL REMARK 200 COMPLETENESS FOR SHELL (%) : NULL REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : NULL REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: AB INITIO PHASING REMARK 200 SOFTWARE USED: PHENIX REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 50.06 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.46 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 5 % (W/V) PEG 1,000 12 % (W/V) PEG REMARK 280 8,000, PH 8.0, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 294K 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 21.12600 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 69.35450 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 21.18050 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 69.35450 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 21.12600 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 21.18050 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 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 300 REMARK: NUP57 IS A HOMO-DIMER IN SOLUTION BY SEC-MALS 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: 1510 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 6690 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -16.0 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 350 REMARK 350 BIOMOLECULE: 2 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: 1520 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 6460 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -15.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: C, D 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 SER A 0 REMARK 465 ASP A 1 REMARK 465 GLN A 2 REMARK 465 ILE A 3 REMARK 465 ASN A 4 REMARK 465 GLN A 5 REMARK 465 ALA A 6 REMARK 465 GLY A 7 REMARK 465 ILE A 8 REMARK 465 THR A 9 REMARK 465 GLU A 10 REMARK 465 SER A 11 REMARK 465 GLN A 53 REMARK 465 SER B 0 REMARK 465 ASP B 1 REMARK 465 GLN B 2 REMARK 465 ILE B 3 REMARK 465 ASN B 4 REMARK 465 GLN B 5 REMARK 465 ALA B 6 REMARK 465 GLY B 7 REMARK 465 ILE B 8 REMARK 465 THR B 9 REMARK 465 GLU B 10 REMARK 465 SER B 11 REMARK 465 ASP B 12 REMARK 465 GLY B 13 REMARK 465 LEU B 14 REMARK 465 GLY B 15 REMARK 465 GLU B 16 REMARK 465 GLN B 53 REMARK 465 SER C 0 REMARK 465 ASP C 1 REMARK 465 GLN C 2 REMARK 465 ILE C 3 REMARK 465 ASN C 4 REMARK 465 GLN C 5 REMARK 465 ALA C 6 REMARK 465 GLY C 7 REMARK 465 ILE C 8 REMARK 465 THR C 9 REMARK 465 GLU C 10 REMARK 465 SER C 11 REMARK 465 ASP C 12 REMARK 465 GLN C 53 REMARK 465 SER D 0 REMARK 465 ASP D 1 REMARK 465 GLN D 2 REMARK 465 ILE D 3 REMARK 465 ASN D 4 REMARK 465 GLN D 5 REMARK 465 ALA D 6 REMARK 465 GLY D 7 REMARK 465 ILE D 8 REMARK 465 THR D 9 REMARK 465 GLU D 10 REMARK 465 SER D 11 REMARK 465 ASP D 12 REMARK 465 GLY D 13 REMARK 465 LEU D 14 REMARK 465 GLY D 15 REMARK 465 GLU D 16 REMARK 465 GLU D 17 REMARK 465 GLN D 53 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 5CWU RELATED DB: PDB REMARK 900 RELATED ID: 5CWV RELATED DB: PDB REMARK 900 RELATED ID: 5CWW RELATED DB: PDB DBREF 5CWT A 1 53 UNP G0S0R2 NUP57_CHATD 265 317 DBREF 5CWT B 1 53 UNP G0S0R2 NUP57_CHATD 265 317 DBREF 5CWT C 1 53 UNP G0S0R2 NUP57_CHATD 265 317 DBREF 5CWT D 1 53 UNP G0S0R2 NUP57_CHATD 265 317 SEQADV 5CWT SER A 0 UNP G0S0R2 EXPRESSION TAG SEQADV 5CWT SER B 0 UNP G0S0R2 EXPRESSION TAG SEQADV 5CWT SER C 0 UNP G0S0R2 EXPRESSION TAG SEQADV 5CWT SER D 0 UNP G0S0R2 EXPRESSION TAG SEQRES 1 A 54 SER ASP GLN ILE ASN GLN ALA GLY ILE THR GLU SER ASP SEQRES 2 A 54 GLY LEU GLY GLU GLU ILE GLU ALA LYS ALA LYS LYS ILE SEQRES 3 A 54 LEU GLU ASP TYR ASP LYS GLN LEU GLN HIS LEU LYS LYS SEQRES 4 A 54 GLN VAL GLU GLU ALA LYS LYS ASP PHE GLU GLU TRP GLU SEQRES 5 A 54 LYS GLN SEQRES 1 B 54 SER ASP GLN ILE ASN GLN ALA GLY ILE THR GLU SER ASP SEQRES 2 B 54 GLY LEU GLY GLU GLU ILE GLU ALA LYS ALA LYS LYS ILE SEQRES 3 B 54 LEU GLU ASP TYR ASP LYS GLN LEU GLN HIS LEU LYS LYS SEQRES 4 B 54 GLN VAL GLU GLU ALA LYS LYS ASP PHE GLU GLU TRP GLU SEQRES 5 B 54 LYS GLN SEQRES 1 C 54 SER ASP GLN ILE ASN GLN ALA GLY ILE THR GLU SER ASP SEQRES 2 C 54 GLY LEU GLY GLU GLU ILE GLU ALA LYS ALA LYS LYS ILE SEQRES 3 C 54 LEU GLU ASP TYR ASP LYS GLN LEU GLN HIS LEU LYS LYS SEQRES 4 C 54 GLN VAL GLU GLU ALA LYS LYS ASP PHE GLU GLU TRP GLU SEQRES 5 C 54 LYS GLN SEQRES 1 D 54 SER ASP GLN ILE ASN GLN ALA GLY ILE THR GLU SER ASP SEQRES 2 D 54 GLY LEU GLY GLU GLU ILE GLU ALA LYS ALA LYS LYS ILE SEQRES 3 D 54 LEU GLU ASP TYR ASP LYS GLN LEU GLN HIS LEU LYS LYS SEQRES 4 D 54 GLN VAL GLU GLU ALA LYS LYS ASP PHE GLU GLU TRP GLU SEQRES 5 D 54 LYS GLN FORMUL 5 HOH *18(H2 O) HELIX 1 AA1 GLY A 13 GLU A 51 1 39 HELIX 2 AA2 ILE B 18 GLU B 51 1 34 HELIX 3 AA3 LEU C 14 LYS C 52 1 39 HELIX 4 AA4 GLU D 19 GLU D 51 1 33 CRYST1 42.252 42.361 138.709 90.00 90.00 90.00 P 21 21 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 0.023668 0.000000 0.000000 0.00000 SCALE2 0.000000 0.023607 0.000000 0.00000 SCALE3 0.000000 0.000000 0.007209 0.00000