HEADER PROTEIN TRANSPORT, RNA BINDING PROTEIN 26-OCT-09 3KES TITLE CRYSTAL STRUCTURE OF THE AUTOPROTEOLYTIC DOMAIN FROM THE NUCLEAR PORE TITLE 2 COMPLEX COMPONENT NUP145 FROM SACCHAROMYCES CEREVISIAE IN THE TITLE 3 HEXAGONAL, P61 SPACE GROUP COMPND MOL_ID: 1; COMPND 2 MOLECULE: NUCLEOPORIN NUP145; COMPND 3 CHAIN: A, B; COMPND 4 FRAGMENT: RESIDUES 442 TO 605; COMPND 5 SYNONYM: NUCLEAR PORE PROTEIN NUP145, NUCLEOPORIN NUP145N, N-NUP145, COMPND 6 NUCLEOPORIN NUP145C, C-NUP145; COMPND 7 EC: 3.4.21.-; COMPND 8 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: SACCHAROMYCES CEREVISIAE; SOURCE 3 ORGANISM_COMMON: BREWER'S YEAST,LAGER BEER YEAST,YEAST; SOURCE 4 ORGANISM_TAXID: 4932; SOURCE 5 GENE: NUP145, RAT10, YGL092W; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 7 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21(DE3)-CODON+RIL; SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: BC-PSGX3(BC); MODIFIED PET26B KEYWDS NUCLEAR PORE COMPLEX, NUP145, NUP145-N, YEAST, AUTOPROTEOLYSIS, KEYWDS 2 PROTEIN MATURATION, POST-TRANSLATIONAL MODIFICATION, STRUCTURAL KEYWDS 3 GENOMICS, PSI-2, PROTEIN STRUCTURE INITIATIVE, NYSGXRC, RNA-BINDING, KEYWDS 4 NEW YORK SGX RESEARCH CENTER FOR STRUCTURAL GENOMICS, PROTEIN KEYWDS 5 TRANSPORT, RNA BINDING PROTEIN EXPDTA X-RAY DIFFRACTION AUTHOR P.SAMPATHKUMAR,S.A.OZYURT,J.DO,K.BAIN,M.DICKEY,T.GHEYI,A.SALI, AUTHOR 2 S.J.KIM,J.PHILLIPS,U.PIEPER,J.FERNANDEZ-MARTINEZ,J.D.FRANKE, AUTHOR 3 S.ATWELL,D.A.THOMPSON,J.S.EMTAGE,S.WASSERMAN,M.ROUT,J.M.SAUDER, AUTHOR 4 S.K.BURLEY,NEW YORK SGX RESEARCH CENTER FOR STRUCTURAL GENOMICS AUTHOR 5 (NYSGXRC) REVDAT 5 10-FEB-21 3KES 1 AUTHOR JRNL REMARK LINK REVDAT 4 21-NOV-18 3KES 1 AUTHOR REVDAT 3 01-NOV-17 3KES 1 REMARK REVDAT 2 10-OCT-12 3KES 1 JRNL VERSN REVDAT 1 22-DEC-09 3KES 0 JRNL AUTH P.SAMPATHKUMAR,S.A.OZYURT,J.DO,K.T.BAIN,M.DICKEY, JRNL AUTH 2 L.A.RODGERS,T.GHEYI,A.SALI,S.J.KIM,J.PHILLIPS,U.PIEPER, JRNL AUTH 3 J.FERNANDEZ-MARTINEZ,J.D.FRANKE,A.MARTEL,H.TSURUTA,S.ATWELL, JRNL AUTH 4 D.A.THOMPSON,J.S.EMTAGE,S.R.WASSERMAN,M.P.ROUT,J.M.SAUDER, JRNL AUTH 5 S.K.BURLEY JRNL TITL STRUCTURES OF THE AUTOPROTEOLYTIC DOMAIN FROM THE JRNL TITL 2 SACCHAROMYCES CEREVISIAE NUCLEAR PORE COMPLEX COMPONENT, JRNL TITL 3 NUP145. JRNL REF PROTEINS V. 78 1992 2010 JRNL REFN ISSN 0887-3585 JRNL PMID 20310066 JRNL DOI 10.1002/PROT.22707 REMARK 2 REMARK 2 RESOLUTION. 2.10 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 REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.10 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 25.52 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 3 NUMBER OF REFLECTIONS : 34114 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) : 0.192 REMARK 3 R VALUE (WORKING SET) : 0.190 REMARK 3 FREE R VALUE : 0.230 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 1727 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) : 2.10 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.15 REMARK 3 REFLECTION IN BIN (WORKING SET) : 2369 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 100.0 REMARK 3 BIN R VALUE (WORKING SET) : 0.2120 REMARK 3 BIN FREE R VALUE SET COUNT : 124 REMARK 3 BIN FREE R VALUE : 0.2490 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2306 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 88 REMARK 3 SOLVENT ATOMS : 161 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 32.40 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 35.22 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.04000 REMARK 3 B22 (A**2) : 0.04000 REMARK 3 B33 (A**2) : -0.05000 REMARK 3 B12 (A**2) : 0.02000 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): 0.139 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.138 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.087 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 3.141 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.949 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.929 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 2454 ; 0.019 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): 1695 ; 0.002 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 3296 ; 1.494 ; 1.949 REMARK 3 BOND ANGLES OTHERS (DEGREES): 4082 ; 0.901 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 299 ; 5.948 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 109 ;38.409 ;23.211 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 354 ;12.446 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 13 ;11.826 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 357 ; 0.091 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 2691 ; 0.007 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 542 ; 0.001 ; 0.020 REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 481 ; 0.212 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): 1843 ; 0.203 ; 0.200 REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 1195 ; 0.186 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): 1242 ; 0.090 ; 0.200 REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 153 ; 0.141 ; 0.200 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): 8 ; 0.270 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): 57 ; 0.303 ; 0.200 REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 7 ; 0.149 ; 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): 1597 ; 1.767 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 595 ; 0.315 ; 1.500 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 2387 ; 2.166 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1077 ; 3.038 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 905 ; 4.097 ; 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 : NULL 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 : 1.40 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 3KES COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 27-OCT-09. REMARK 100 THE DEPOSITION ID IS D_1000055901. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 02-AUG-09 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : NULL REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : APS REMARK 200 BEAMLINE : 31-ID REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.97929 REMARK 200 MONOCHROMATOR : DIAMOND REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : RAYONIX MX225HE REMARK 200 INTENSITY-INTEGRATION SOFTWARE : MOSFLM REMARK 200 DATA SCALING SOFTWARE : SCALA REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 34126 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.100 REMARK 200 RESOLUTION RANGE LOW (A) : 25.920 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.2 REMARK 200 DATA REDUNDANCY : 21.70 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : 0.08900 REMARK 200 FOR THE DATA SET : 21.2000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.10 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.21 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.0 REMARK 200 DATA REDUNDANCY IN SHELL : 19.80 REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : 0.50200 REMARK 200 FOR SHELL : 8.200 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: SAD REMARK 200 SOFTWARE USED: SHELX C, SHELXD REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 66.04 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.62 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 1600MM TRI-SODIUM CITRATE DEHYDRATE, REMARK 280 VAPOR DIFFUSION, SITTING DROP, TEMPERATURE 294K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 61 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -Y,X-Y,Z+1/3 REMARK 290 3555 -X+Y,-X,Z+2/3 REMARK 290 4555 -X,-Y,Z+1/2 REMARK 290 5555 Y,-X+Y,Z+5/6 REMARK 290 6555 X-Y,X,Z+1/6 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 18.71800 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 37.43600 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 28.07700 REMARK 290 SMTRY1 5 0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 5 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 46.79500 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 9.35900 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 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 MSE A 440 REMARK 465 SER A 441 REMARK 465 LEU A 442 REMARK 465 ASN A 443 REMARK 465 LYS A 444 REMARK 465 GLN A 445 REMARK 465 ASP A 446 REMARK 465 GLY A 447 REMARK 465 GLU A 448 REMARK 465 ASN A 449 REMARK 465 THR A 450 REMARK 465 LEU A 451 REMARK 465 GLN A 452 REMARK 465 HIS A 453 REMARK 465 GLU A 454 REMARK 465 LYS A 455 REMARK 465 SER A 456 REMARK 465 SER A 457 REMARK 465 SER A 458 REMARK 465 ASP A 557 REMARK 465 LYS A 558 REMARK 465 LYS A 559 REMARK 465 THR A 560 REMARK 465 LYS A 561 REMARK 465 LYS A 562 REMARK 465 GLY A 607 REMARK 465 HIS A 608 REMARK 465 HIS A 609 REMARK 465 HIS A 610 REMARK 465 HIS A 611 REMARK 465 HIS A 612 REMARK 465 HIS A 613 REMARK 465 MSE B 440 REMARK 465 SER B 441 REMARK 465 LEU B 442 REMARK 465 ASN B 443 REMARK 465 LYS B 444 REMARK 465 GLN B 445 REMARK 465 ASP B 446 REMARK 465 GLY B 447 REMARK 465 GLU B 448 REMARK 465 ASN B 449 REMARK 465 THR B 450 REMARK 465 LEU B 451 REMARK 465 GLN B 452 REMARK 465 LYS B 558 REMARK 465 LYS B 559 REMARK 465 HIS B 608 REMARK 465 HIS B 609 REMARK 465 HIS B 610 REMARK 465 HIS B 611 REMARK 465 HIS B 612 REMARK 465 HIS B 613 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 476 CG CD CE NZ REMARK 470 LYS A 507 CG CD CE NZ REMARK 470 GLU A 511 CG CD OE1 OE2 REMARK 470 LYS A 516 CG CD CE NZ REMARK 470 ARG A 521 CG CD NE CZ NH1 NH2 REMARK 470 GLU A 532 CG CD OE1 OE2 REMARK 470 LYS A 565 CG CD CE NZ REMARK 470 LYS A 569 CG CD CE NZ REMARK 470 LYS A 579 CG CD CE NZ REMARK 470 ARG A 584 CG CD NE CZ NH1 NH2 REMARK 470 GLU A 585 CG CD OE1 OE2 REMARK 470 HIS B 453 CG ND1 CD2 CE1 NE2 REMARK 470 GLU B 454 CG CD OE1 OE2 REMARK 470 LYS B 455 CG CD CE NZ REMARK 470 LYS B 476 CG CD CE NZ REMARK 470 LYS B 507 CG CD CE NZ REMARK 470 LYS B 561 CG CD CE NZ REMARK 470 LYS B 562 CG CD CE NZ REMARK 470 LYS B 565 CG CD CE NZ REMARK 470 LYS B 579 CG CD CE NZ REMARK 470 ARG B 584 CG CD NE CZ NH1 NH2 REMARK 470 GLU B 585 CG CD OE1 OE2 REMARK 480 REMARK 480 ZERO OCCUPANCY ATOM REMARK 480 THE FOLLOWING RESIDUES HAVE ATOMS MODELED WITH ZERO REMARK 480 OCCUPANCY. THE LOCATION AND PROPERTIES OF THESE ATOMS REMARK 480 MAY NOT BE RELIABLE. (M=MODEL NUMBER; RES=RESIDUE NAME; REMARK 480 C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE): REMARK 480 M RES C SSEQI ATOMS REMARK 480 MSE A 537 CA CB CG SE CE 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 SER A 508 107.08 -161.20 REMARK 500 SER A 523 9.16 -67.35 REMARK 500 HIS A 604 -174.86 176.43 REMARK 500 GLU B 454 -3.28 -59.19 REMARK 500 ALA B 480 63.90 -151.29 REMARK 500 SER B 508 110.25 -176.88 REMARK 500 LYS B 561 1.87 56.26 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 EDO A 2 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO A 3 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO A 4 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO A 5 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO A 7 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO A 16 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO B 1 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO B 6 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO B 8 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO B 9 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO B 10 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO B 11 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO B 12 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO B 13 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO B 14 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO B 15 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO B 17 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO B 18 REMARK 800 REMARK 800 SITE_IDENTIFIER: CC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO B 19 REMARK 800 REMARK 800 SITE_IDENTIFIER: CC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO B 20 REMARK 800 REMARK 800 SITE_IDENTIFIER: CC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO B 21 REMARK 800 REMARK 800 SITE_IDENTIFIER: CC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO B 22 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 3KEP RELATED DB: PDB REMARK 900 SAME STRUCTURE IN THE TETRAGONAL SPACE GROUP P43212 REMARK 900 RELATED ID: NYSGXRC-15145A RELATED DB: TARGETDB DBREF 3KES A 442 605 UNP P49687 NU145_YEAST 442 605 DBREF 3KES B 442 605 UNP P49687 NU145_YEAST 442 605 SEQADV 3KES MSE A 440 UNP P49687 EXPRESSION TAG SEQADV 3KES SER A 441 UNP P49687 EXPRESSION TAG SEQADV 3KES GLU A 606 UNP P49687 EXPRESSION TAG SEQADV 3KES GLY A 607 UNP P49687 EXPRESSION TAG SEQADV 3KES HIS A 608 UNP P49687 EXPRESSION TAG SEQADV 3KES HIS A 609 UNP P49687 EXPRESSION TAG SEQADV 3KES HIS A 610 UNP P49687 EXPRESSION TAG SEQADV 3KES HIS A 611 UNP P49687 EXPRESSION TAG SEQADV 3KES HIS A 612 UNP P49687 EXPRESSION TAG SEQADV 3KES HIS A 613 UNP P49687 EXPRESSION TAG SEQADV 3KES MSE B 440 UNP P49687 EXPRESSION TAG SEQADV 3KES SER B 441 UNP P49687 EXPRESSION TAG SEQADV 3KES GLU B 606 UNP P49687 EXPRESSION TAG SEQADV 3KES GLY B 607 UNP P49687 EXPRESSION TAG SEQADV 3KES HIS B 608 UNP P49687 EXPRESSION TAG SEQADV 3KES HIS B 609 UNP P49687 EXPRESSION TAG SEQADV 3KES HIS B 610 UNP P49687 EXPRESSION TAG SEQADV 3KES HIS B 611 UNP P49687 EXPRESSION TAG SEQADV 3KES HIS B 612 UNP P49687 EXPRESSION TAG SEQADV 3KES HIS B 613 UNP P49687 EXPRESSION TAG SEQRES 1 A 174 MSE SER LEU ASN LYS GLN ASP GLY GLU ASN THR LEU GLN SEQRES 2 A 174 HIS GLU LYS SER SER SER PHE GLY TYR TRP CYS SER PRO SEQRES 3 A 174 SER PRO GLU GLN LEU GLU ARG LEU SER LEU LYS GLN LEU SEQRES 4 A 174 ALA ALA VAL SER ASN PHE VAL ILE GLY ARG ARG GLY TYR SEQRES 5 A 174 GLY CYS ILE THR PHE GLN HIS ASP VAL ASP LEU THR ALA SEQRES 6 A 174 PHE THR LYS SER PHE ARG GLU GLU LEU PHE GLY LYS ILE SEQRES 7 A 174 VAL ILE PHE ARG SER SER LYS THR VAL GLU VAL TYR PRO SEQRES 8 A 174 ASP GLU ALA THR LYS PRO MSE ILE GLY HIS GLY LEU ASN SEQRES 9 A 174 VAL PRO ALA ILE ILE THR LEU GLU ASN VAL TYR PRO VAL SEQRES 10 A 174 ASP LYS LYS THR LYS LYS PRO MSE LYS ASP THR THR LYS SEQRES 11 A 174 PHE ALA GLU PHE GLN VAL PHE ASP ARG LYS LEU ARG SER SEQRES 12 A 174 MSE ARG GLU MSE ASN TYR ILE SER TYR ASN PRO PHE GLY SEQRES 13 A 174 GLY THR TRP THR PHE LYS VAL ASN HIS PHE GLU GLY HIS SEQRES 14 A 174 HIS HIS HIS HIS HIS SEQRES 1 B 174 MSE SER LEU ASN LYS GLN ASP GLY GLU ASN THR LEU GLN SEQRES 2 B 174 HIS GLU LYS SER SER SER PHE GLY TYR TRP CYS SER PRO SEQRES 3 B 174 SER PRO GLU GLN LEU GLU ARG LEU SER LEU LYS GLN LEU SEQRES 4 B 174 ALA ALA VAL SER ASN PHE VAL ILE GLY ARG ARG GLY TYR SEQRES 5 B 174 GLY CYS ILE THR PHE GLN HIS ASP VAL ASP LEU THR ALA SEQRES 6 B 174 PHE THR LYS SER PHE ARG GLU GLU LEU PHE GLY LYS ILE SEQRES 7 B 174 VAL ILE PHE ARG SER SER LYS THR VAL GLU VAL TYR PRO SEQRES 8 B 174 ASP GLU ALA THR LYS PRO MSE ILE GLY HIS GLY LEU ASN SEQRES 9 B 174 VAL PRO ALA ILE ILE THR LEU GLU ASN VAL TYR PRO VAL SEQRES 10 B 174 ASP LYS LYS THR LYS LYS PRO MSE LYS ASP THR THR LYS SEQRES 11 B 174 PHE ALA GLU PHE GLN VAL PHE ASP ARG LYS LEU ARG SER SEQRES 12 B 174 MSE ARG GLU MSE ASN TYR ILE SER TYR ASN PRO PHE GLY SEQRES 13 B 174 GLY THR TRP THR PHE LYS VAL ASN HIS PHE GLU GLY HIS SEQRES 14 B 174 HIS HIS HIS HIS HIS MODRES 3KES MSE A 537 MET SELENOMETHIONINE MODRES 3KES MSE A 564 MET SELENOMETHIONINE MODRES 3KES MSE A 583 MET SELENOMETHIONINE MODRES 3KES MSE A 586 MET SELENOMETHIONINE MODRES 3KES MSE B 537 MET SELENOMETHIONINE MODRES 3KES MSE B 564 MET SELENOMETHIONINE MODRES 3KES MSE B 583 MET SELENOMETHIONINE MODRES 3KES MSE B 586 MET SELENOMETHIONINE HET MSE A 537 13 HET MSE A 564 8 HET MSE A 583 8 HET MSE A 586 8 HET MSE B 537 8 HET MSE B 564 8 HET MSE B 583 8 HET MSE B 586 8 HET EDO A 2 4 HET EDO A 3 4 HET EDO A 4 4 HET EDO A 5 4 HET EDO A 7 4 HET EDO A 16 4 HET EDO B 1 4 HET EDO B 6 4 HET EDO B 8 4 HET EDO B 9 4 HET EDO B 10 4 HET EDO B 11 4 HET EDO B 12 4 HET EDO B 13 4 HET EDO B 14 4 HET EDO B 15 4 HET EDO B 17 4 HET EDO B 18 4 HET EDO B 19 4 HET EDO B 20 4 HET EDO B 21 4 HET EDO B 22 4 HETNAM MSE SELENOMETHIONINE HETNAM EDO 1,2-ETHANEDIOL HETSYN EDO ETHYLENE GLYCOL FORMUL 1 MSE 8(C5 H11 N O2 SE) FORMUL 3 EDO 22(C2 H6 O2) FORMUL 25 HOH *161(H2 O) HELIX 1 1 SER A 466 GLU A 471 1 6 HELIX 2 2 SER A 474 ALA A 479 1 6 HELIX 3 3 LEU A 502 THR A 506 5 5 HELIX 4 4 SER A 508 PHE A 514 1 7 HELIX 5 5 ASP A 531 LYS A 535 5 5 HELIX 6 6 LYS A 569 MSE A 583 1 15 HELIX 7 7 HIS B 453 PHE B 459 5 7 HELIX 8 8 SER B 466 ARG B 472 1 7 HELIX 9 9 SER B 474 ALA B 479 1 6 HELIX 10 10 LEU B 502 THR B 506 5 5 HELIX 11 11 SER B 508 PHE B 514 1 7 HELIX 12 12 ASP B 531 LYS B 535 5 5 HELIX 13 13 LYS B 569 MSE B 583 1 15 SHEET 1 A 6 TYR A 461 SER A 464 0 SHEET 2 A 6 VAL A 485 ARG A 488 -1 O GLY A 487 N TRP A 462 SHEET 3 A 6 GLY A 492 PHE A 496 -1 O ILE A 494 N ILE A 486 SHEET 4 A 6 ALA A 546 LEU A 550 -1 O ILE A 547 N THR A 495 SHEET 5 A 6 THR A 597 VAL A 602 -1 O PHE A 600 N ILE A 548 SHEET 6 A 6 ASN A 587 ASN A 592 -1 N ILE A 589 O THR A 599 SHEET 1 B 2 VAL A 518 ARG A 521 0 SHEET 2 B 2 THR A 525 VAL A 528 -1 O GLU A 527 N ILE A 519 SHEET 1 C 6 TYR B 461 SER B 464 0 SHEET 2 C 6 VAL B 485 ARG B 488 -1 O VAL B 485 N SER B 464 SHEET 3 C 6 GLY B 492 PHE B 496 -1 O ILE B 494 N ILE B 486 SHEET 4 C 6 ALA B 546 LEU B 550 -1 O ILE B 547 N THR B 495 SHEET 5 C 6 THR B 597 VAL B 602 -1 O PHE B 600 N ILE B 548 SHEET 6 C 6 ASN B 587 ASN B 592 -1 N ILE B 589 O THR B 599 SHEET 1 D 2 VAL B 518 ARG B 521 0 SHEET 2 D 2 THR B 525 VAL B 528 -1 O GLU B 527 N ILE B 519 LINK C PRO A 536 N MSE A 537 1555 1555 1.32 LINK C MSE A 537 N ILE A 538 1555 1555 1.33 LINK C PRO A 563 N MSE A 564 1555 1555 1.33 LINK C MSE A 564 N LYS A 565 1555 1555 1.33 LINK C SER A 582 N MSE A 583 1555 1555 1.33 LINK C MSE A 583 N ARG A 584 1555 1555 1.33 LINK C GLU A 585 N MSE A 586 1555 1555 1.32 LINK C MSE A 586 N ASN A 587 1555 1555 1.32 LINK C PRO B 536 N MSE B 537 1555 1555 1.33 LINK C MSE B 537 N ILE B 538 1555 1555 1.31 LINK C PRO B 563 N MSE B 564 1555 1555 1.33 LINK C MSE B 564 N LYS B 565 1555 1555 1.33 LINK C SER B 582 N MSE B 583 1555 1555 1.32 LINK C MSE B 583 N ARG B 584 1555 1555 1.32 LINK C GLU B 585 N MSE B 586 1555 1555 1.32 LINK C MSE B 586 N ASN B 587 1555 1555 1.34 CISPEP 1 SER A 464 PRO A 465 0 -6.46 CISPEP 2 SER B 464 PRO B 465 0 -3.26 SITE 1 AC1 6 HOH A 120 TRP A 462 CYS A 463 SER A 466 SITE 2 AC1 6 PRO A 467 PHE B 570 SITE 1 AC2 6 SER A 482 ASN A 483 GLN A 497 HIS A 498 SITE 2 AC2 6 ASP A 499 ARG B 581 SITE 1 AC3 5 ARG A 489 GLY A 490 GLU A 551 HOH A 615 SITE 2 AC3 5 PHE B 594 SITE 1 AC4 3 HOH A 32 HIS A 498 ASP A 499 SITE 1 AC5 5 ASP A 577 TYR A 588 TYR A 591 VAL B 485 SITE 2 AC5 5 HOH B 619 SITE 1 AC6 4 HOH A 102 PHE A 594 GLY A 595 ARG B 489 SITE 1 AC7 3 VAL A 485 ASP B 577 TYR B 591 SITE 1 AC8 5 PHE A 570 TRP B 462 CYS B 463 SER B 466 SITE 2 AC8 5 PRO B 467 SITE 1 AC9 5 HOH B 128 GLN B 497 PRO B 545 LYS B 601 SITE 2 AC9 5 ASN B 603 SITE 1 BC1 6 HOH B 56 HOH B 158 ALA B 480 VAL B 481 SITE 2 BC1 6 SER B 482 ASP B 499 SITE 1 BC2 6 PHE A 594 HOH B 25 ARG B 488 ARG B 489 SITE 2 BC2 6 GLY B 490 GLU B 551 SITE 1 BC3 9 EDO B 22 HOH B 161 ASP B 501 LEU B 502 SITE 2 BC3 9 THR B 503 ALA B 504 PHE B 505 TYR B 529 SITE 3 BC3 9 GLY B 541 SITE 1 BC4 6 EDO B 13 HOH B 100 GLU B 471 THR B 506 SITE 2 BC4 6 SER B 508 PHE B 509 SITE 1 BC5 6 EDO B 12 PRO B 467 GLU B 471 SER B 508 SITE 2 BC5 6 PHE B 509 ARG B 510 SITE 1 BC6 3 SER A 482 HOH B 136 HIS B 540 SITE 1 BC7 3 GLU B 572 VAL B 575 PHE B 576 SITE 1 BC8 3 EDO B 18 HOH B 153 SER B 582 SITE 1 BC9 8 EDO B 17 EDO B 19 HOH B 128 HOH B 150 SITE 2 BC9 8 HIS B 498 VAL B 575 ARG B 578 LYS B 579 SITE 1 CC1 10 EDO B 18 EDO B 20 HOH B 150 HIS B 498 SITE 2 CC1 10 ILE B 538 GLY B 539 VAL B 544 PRO B 545 SITE 3 CC1 10 ARG B 578 HOH B 614 SITE 1 CC2 7 EDO B 19 EDO B 21 HOH B 150 HIS B 498 SITE 2 CC2 7 ASP B 499 GLY B 539 ARG B 578 SITE 1 CC3 9 EDO B 20 HOH B 101 HOH B 111 ALA B 479 SITE 2 CC3 9 ASP B 499 VAL B 500 ASP B 501 GLY B 539 SITE 3 CC3 9 GLY B 541 SITE 1 CC4 5 EDO B 11 HOH B 107 ASP B 501 THR B 503 SITE 2 CC4 5 PRO B 536 CRYST1 135.052 135.052 56.154 90.00 90.00 120.00 P 61 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 0.007405 0.004275 0.000000 0.00000 SCALE2 0.000000 0.008550 0.000000 0.00000 SCALE3 0.000000 0.000000 0.017808 0.00000