HEADER PROTEIN TRANSPORT 28-DEC-12 3W3T TITLE CRYSTAL STRUCTURE OF KAP121P COMPND MOL_ID: 1; COMPND 2 MOLECULE: IMPORTIN SUBUNIT BETA-3; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: KARYOPHERIN SUBUNIT BETA-3, KARYOPHERIN-121, PROTEIN COMPND 5 SECRETION ENHANCER 1; COMPND 6 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: SACCHAROMYCES CEREVISIAE; SOURCE 3 ORGANISM_COMMON: BAKER'S YEAST; SOURCE 4 ORGANISM_TAXID: 559292; SOURCE 5 STRAIN: ATCC 204508 / S288C; SOURCE 6 GENE: PSE1, KAP121, YMR308C, YM9952.10C; SOURCE 7 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 8 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS HEAT REPEAT, NUCLEAR IMPORT, PROTEIN TRANSPORT EXPDTA X-RAY DIFFRACTION AUTHOR J.KOBAYASHI,Y.MATSUURA REVDAT 3 08-NOV-23 3W3T 1 SEQADV REVDAT 2 29-JAN-14 3W3T 1 JRNL REVDAT 1 10-APR-13 3W3T 0 JRNL AUTH J.KOBAYASHI,Y.MATSUURA JRNL TITL STRUCTURAL BASIS FOR CELL-CYCLE-DEPENDENT NUCLEAR IMPORT JRNL TITL 2 MEDIATED BY THE KARYOPHERIN KAP121P. JRNL REF J.MOL.BIOL. V. 425 1852 2013 JRNL REFN ISSN 0022-2836 JRNL PMID 23541588 JRNL DOI 10.1016/J.JMB.2013.02.035 REMARK 2 REMARK 2 RESOLUTION. 2.90 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.7.0029 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) : 2.90 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 28.32 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 99.6 REMARK 3 NUMBER OF REFLECTIONS : 30302 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) : 0.203 REMARK 3 R VALUE (WORKING SET) : 0.201 REMARK 3 FREE R VALUE : 0.247 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 1621 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) : 2.90 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.98 REMARK 3 REFLECTION IN BIN (WORKING SET) : 2219 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 99.15 REMARK 3 BIN R VALUE (WORKING SET) : 0.3560 REMARK 3 BIN FREE R VALUE SET COUNT : 117 REMARK 3 BIN FREE R VALUE : 0.3920 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 7845 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 0 REMARK 3 SOLVENT ATOMS : 0 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 81.89 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -5.03000 REMARK 3 B22 (A**2) : 5.36000 REMARK 3 B33 (A**2) : 0.47000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : -2.04000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): NULL REMARK 3 ESU BASED ON FREE R VALUE (A): 0.372 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.295 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 16.063 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.953 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.927 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 7980 ; 0.013 ; 0.019 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 10868 ; 1.788 ; 1.973 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 1011 ; 6.004 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 325 ;41.007 ;25.354 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 1323 ;20.744 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 27 ;19.458 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 1323 ; 0.122 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 5878 ; 0.007 ; 0.021 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): NULL ; NULL ; NULL 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): NULL ; NULL ; NULL 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): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): NULL ; NULL ; NULL 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): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL 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 : 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: HYDROGENS HAVE BEEN USED IF PRESENT IN REMARK 3 THE INPUT REMARK 4 REMARK 4 3W3T COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 22-JAN-13. REMARK 100 THE DEPOSITION ID IS D_1000095850. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 06-JUL-11 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7.0 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SPRING-8 REMARK 200 BEAMLINE : BL41XU REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.0 REMARK 200 MONOCHROMATOR : ROTATED-INCLINED DOUBLE-CRYSTAL REMARK 200 MONOCHROMATOR 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 : AIMLESS REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 31943 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.900 REMARK 200 RESOLUTION RANGE LOW (A) : 31.100 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.6 REMARK 200 DATA REDUNDANCY : NULL REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : NULL REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.90 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 3.06 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.7 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: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: MOLREP REMARK 200 STARTING MODEL: 3W3Z REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 59.82 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.06 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.1M HEPES, 10% 2-POPANOL, 24% PEG REMARK 280 20000, PH 7.0, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 1 21 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,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 62.19500 REMARK 290 SMTRY3 2 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: 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 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 1 REMARK 465 SER A 2 REMARK 465 ALA A 3 REMARK 465 PRO A 22 REMARK 465 ILE A 39 REMARK 465 THR A 40 REMARK 465 ASN A 546 REMARK 465 ASN A 547 REMARK 465 LYS A 548 REMARK 465 ASP A 549 REMARK 465 ILE A 592 REMARK 465 ASP A 593 REMARK 465 GLU A 594 REMARK 465 GLY A 737 REMARK 465 THR A 738 REMARK 465 GLN A 739 REMARK 465 ASN A 740 REMARK 465 HIS A 813 REMARK 465 GLY A 814 REMARK 465 ASP A 815 REMARK 465 GLY A 816 REMARK 465 ASN A 822 REMARK 465 ILE A 823 REMARK 465 ASP A 824 REMARK 465 GLU A 825 REMARK 465 GLU A 826 REMARK 465 GLU A 827 REMARK 465 ASP A 828 REMARK 465 GLY A 890 REMARK 465 GLY A 891 REMARK 465 PHE A 952 REMARK 465 PRO A 953 REMARK 465 ASN A 979 REMARK 465 SER A 980 REMARK 465 ASN A 981 REMARK 465 ILE A 982 REMARK 465 PRO A 983 REMARK 465 ASN A 984 REMARK 465 VAL A 985 REMARK 465 ASN A 1019 REMARK 465 SER A 1020 REMARK 465 PRO A 1021 REMARK 465 ILE A 1022 REMARK 465 VAL A 1023 REMARK 465 CYS A 1024 REMARK 465 ALA A 1025 REMARK 465 GLN A 1026 REMARK 465 THR A 1046 REMARK 465 GLU A 1047 REMARK 465 ARG A 1048 REMARK 465 GLU A 1049 REMARK 465 GLY A 1050 REMARK 465 GLN A 1051 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 GLU A 6 CG CD OE1 OE2 REMARK 470 GLN A 14 CG CD OE1 NE2 REMARK 470 ASN A 24 CG OD1 ND2 REMARK 470 GLN A 25 CG CD OE1 NE2 REMARK 470 SER A 28 OG REMARK 470 VAL A 29 CG1 CG2 REMARK 470 GLU A 31 CG CD OE1 OE2 REMARK 470 LYS A 32 CG CD CE NZ REMARK 470 SER A 35 OG REMARK 470 GLU A 41 CG CD OE1 OE2 REMARK 470 LYS A 77 CG CD CE NZ REMARK 470 ARG A 95 NE CZ NH1 NH2 REMARK 470 LYS A 96 CG CD CE NZ REMARK 470 LYS A 108 CG CD CE NZ REMARK 470 LYS A 149 CG CD CE NZ REMARK 470 LYS A 258 CG CD CE NZ REMARK 470 GLN A 266 CG CD OE1 NE2 REMARK 470 GLN A 304 CG CD OE1 NE2 REMARK 470 GLU A 330 CG CD OE1 OE2 REMARK 470 GLU A 341 CG CD OE1 OE2 REMARK 470 GLN A 370 CG CD OE1 NE2 REMARK 470 LYS A 408 CG CD CE NZ REMARK 470 GLU A 462 CG CD OE1 OE2 REMARK 470 ASP A 595 CG OD1 OD2 REMARK 470 ASP A 596 CG OD1 OD2 REMARK 470 ARG A 599 CG CD NE CZ NH1 NH2 REMARK 470 GLU A 643 CG CD OE1 OE2 REMARK 470 GLN A 659 CG CD OE1 NE2 REMARK 470 VAL A 660 CG1 CG2 REMARK 470 LYS A 663 CG CD CE NZ REMARK 470 GLU A 741 CG CD OE1 OE2 REMARK 470 GLU A 765 CG CD OE1 OE2 REMARK 470 GLU A 807 CG CD OE1 OE2 REMARK 470 ARG A 812 CG CD NE CZ NH1 NH2 REMARK 470 LYS A 855 CG CD CE NZ REMARK 470 GLN A 948 CG CD OE1 NE2 REMARK 470 LYS A 956 CG CD CE NZ REMARK 470 GLU A 958 CG CD OE1 OE2 REMARK 470 LYS A1002 CG CD CE NZ REMARK 470 GLN A1010 CG CD OE1 NE2 REMARK 470 GLN A1014 CG CD OE1 NE2 REMARK 470 GLU A1017 CG CD OE1 OE2 REMARK 470 ASN A1018 CG OD1 ND2 REMARK 470 ARG A1043 CG CD NE CZ NH1 NH2 REMARK 470 LYS A1059 CG CD CE NZ REMARK 470 PHE A1063 CG CD1 CD2 CE1 CE2 CZ REMARK 470 ASN A1074 CG OD1 ND2 REMARK 470 LYS A1086 CG CD CE NZ 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 NZ LYS A 898 OD1 ASP A 937 1.70 REMARK 500 NE1 TRP A 861 CE MET A 897 2.17 REMARK 500 REMARK 500 REMARK: NULL 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 LEU A 76 CA - CB - CG ANGL. DEV. = 16.3 DEGREES REMARK 500 CYS A 300 N - CA - CB ANGL. DEV. = -14.3 DEGREES REMARK 500 LEU A 364 CB - CG - CD2 ANGL. DEV. = -10.7 DEGREES REMARK 500 ALA A 646 CB - CA - C ANGL. DEV. = -9.8 DEGREES REMARK 500 ALA A 646 N - CA - C ANGL. DEV. = 31.6 DEGREES REMARK 500 LEU A 957 CB - CA - C ANGL. DEV. = 19.3 DEGREES REMARK 500 PHE A1073 CB - CA - C ANGL. DEV. = -16.2 DEGREES REMARK 500 ARG A1075 N - CA - CB ANGL. DEV. = -14.8 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 VAL A 8 -48.74 -27.32 REMARK 500 ILE A 91 -36.54 -36.29 REMARK 500 SER A 112 -159.41 -79.83 REMARK 500 SER A 214 0.17 -64.23 REMARK 500 LYS A 235 54.34 -118.07 REMARK 500 ALA A 253 57.60 -149.84 REMARK 500 ASP A 259 -3.23 73.27 REMARK 500 ASP A 325 69.98 -151.21 REMARK 500 SER A 504 173.92 -52.43 REMARK 500 LYS A 525 -134.01 52.41 REMARK 500 LYS A 530 -35.81 -38.43 REMARK 500 GLN A 661 52.08 -151.56 REMARK 500 ARG A 690 -113.89 39.22 REMARK 500 ILE A 704 -68.88 -120.46 REMARK 500 GLN A 810 40.72 -83.66 REMARK 500 LYS A 898 -48.68 -29.74 REMARK 500 LYS A 956 42.50 -82.76 REMARK 500 LYS A 994 19.02 -69.53 REMARK 500 LEU A1015 -2.52 -59.44 REMARK 500 ILE A1016 -71.14 -118.82 REMARK 500 PHE A1063 25.22 -72.91 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 ASP A 259 MET A 260 146.82 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: MAIN CHAIN PLANARITY REMARK 500 REMARK 500 THE FOLLOWING RESIDUES HAVE A PSEUDO PLANARITY REMARK 500 TORSION ANGLE, C(I) - CA(I) - N(I+1) - O(I), GREATER REMARK 500 10.0 DEGREES. (M=MODEL NUMBER; RES=RESIDUE NAME; REMARK 500 C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 500 I=INSERTION CODE). REMARK 500 REMARK 500 M RES CSSEQI ANGLE REMARK 500 PRO A 79 18.87 REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 3W3U RELATED DB: PDB REMARK 900 RELATED ID: 3W3V RELATED DB: PDB REMARK 900 RELATED ID: 3W3W RELATED DB: PDB REMARK 900 RELATED ID: 3W3X RELATED DB: PDB REMARK 900 RELATED ID: 3W3Y RELATED DB: PDB REMARK 900 RELATED ID: 3W3Z RELATED DB: PDB DBREF 3W3T A 1 1089 UNP P32337 IMB3_YEAST 1 1089 SEQADV 3W3T A UNP P32337 PRO 80 DELETION SEQADV 3W3T A UNP P32337 SER 81 DELETION SEQADV 3W3T A UNP P32337 SER 82 DELETION SEQADV 3W3T A UNP P32337 LYS 83 DELETION SEQADV 3W3T A UNP P32337 LEU 84 DELETION SEQADV 3W3T A UNP P32337 MET 85 DELETION SEQADV 3W3T A UNP P32337 ILE 86 DELETION SEQADV 3W3T A UNP P32337 MET 87 DELETION SEQADV 3W3T A UNP P32337 SER 88 DELETION SEQADV 3W3T A UNP P32337 LYS 89 DELETION SEQADV 3W3T A UNP P32337 ASN 90 DELETION SEQRES 1 A 1078 MET SER ALA LEU PRO GLU GLU VAL ASN ARG THR LEU LEU SEQRES 2 A 1078 GLN ILE VAL GLN ALA PHE ALA SER PRO ASP ASN GLN ILE SEQRES 3 A 1078 ARG SER VAL ALA GLU LYS ALA LEU SER GLU GLU TRP ILE SEQRES 4 A 1078 THR GLU ASN ASN ILE GLU TYR LEU LEU THR PHE LEU ALA SEQRES 5 A 1078 GLU GLN ALA ALA PHE SER GLN ASP THR THR VAL ALA ALA SEQRES 6 A 1078 LEU SER ALA VAL LEU PHE ARG LYS LEU ALA LEU LYS ALA SEQRES 7 A 1078 PRO ILE THR HIS ILE ARG LYS GLU VAL LEU ALA GLN ILE SEQRES 8 A 1078 ARG SER SER LEU LEU LYS GLY PHE LEU SER GLU ARG ALA SEQRES 9 A 1078 ASP SER ILE ARG HIS LYS LEU SER ASP ALA ILE ALA GLU SEQRES 10 A 1078 CYS VAL GLN ASP ASP LEU PRO ALA TRP PRO GLU LEU LEU SEQRES 11 A 1078 GLN ALA LEU ILE GLU SER LEU LYS SER GLY ASN PRO ASN SEQRES 12 A 1078 PHE ARG GLU SER SER PHE ARG ILE LEU THR THR VAL PRO SEQRES 13 A 1078 TYR LEU ILE THR ALA VAL ASP ILE ASN SER ILE LEU PRO SEQRES 14 A 1078 ILE PHE GLN SER GLY PHE THR ASP ALA SER ASP ASN VAL SEQRES 15 A 1078 LYS ILE ALA ALA VAL THR ALA PHE VAL GLY TYR PHE LYS SEQRES 16 A 1078 GLN LEU PRO LYS SER GLU TRP SER LYS LEU GLY ILE LEU SEQRES 17 A 1078 LEU PRO SER LEU LEU ASN SER LEU PRO ARG PHE LEU ASP SEQRES 18 A 1078 ASP GLY LYS ASP ASP ALA LEU ALA SER VAL PHE GLU SER SEQRES 19 A 1078 LEU ILE GLU LEU VAL GLU LEU ALA PRO LYS LEU PHE LYS SEQRES 20 A 1078 ASP MET PHE ASP GLN ILE ILE GLN PHE THR ASP MET VAL SEQRES 21 A 1078 ILE LYS ASN LYS ASP LEU GLU PRO PRO ALA ARG THR THR SEQRES 22 A 1078 ALA LEU GLU LEU LEU THR VAL PHE SER GLU ASN ALA PRO SEQRES 23 A 1078 GLN MET CYS LYS SER ASN GLN ASN TYR GLY GLN THR LEU SEQRES 24 A 1078 VAL MET VAL THR LEU ILE MET MET THR GLU VAL SER ILE SEQRES 25 A 1078 ASP ASP ASP ASP ALA ALA GLU TRP ILE GLU SER ASP ASP SEQRES 26 A 1078 THR ASP ASP GLU GLU GLU VAL THR TYR ASP HIS ALA ARG SEQRES 27 A 1078 GLN ALA LEU ASP ARG VAL ALA LEU LYS LEU GLY GLY GLU SEQRES 28 A 1078 TYR LEU ALA ALA PRO LEU PHE GLN TYR LEU GLN GLN MET SEQRES 29 A 1078 ILE THR SER THR GLU TRP ARG GLU ARG PHE ALA ALA MET SEQRES 30 A 1078 MET ALA LEU SER SER ALA ALA GLU GLY CYS ALA ASP VAL SEQRES 31 A 1078 LEU ILE GLY GLU ILE PRO LYS ILE LEU ASP MET VAL ILE SEQRES 32 A 1078 PRO LEU ILE ASN ASP PRO HIS PRO ARG VAL GLN TYR GLY SEQRES 33 A 1078 CYS CYS ASN VAL LEU GLY GLN ILE SER THR ASP PHE SER SEQRES 34 A 1078 PRO PHE ILE GLN ARG THR ALA HIS ASP ARG ILE LEU PRO SEQRES 35 A 1078 ALA LEU ILE SER LYS LEU THR SER GLU CYS THR SER ARG SEQRES 36 A 1078 VAL GLN THR HIS ALA ALA ALA ALA LEU VAL ASN PHE SER SEQRES 37 A 1078 GLU PHE ALA SER LYS ASP ILE LEU GLU PRO TYR LEU ASP SEQRES 38 A 1078 SER LEU LEU THR ASN LEU LEU VAL LEU LEU GLN SER ASN SEQRES 39 A 1078 LYS LEU TYR VAL GLN GLU GLN ALA LEU THR THR ILE ALA SEQRES 40 A 1078 PHE ILE ALA GLU ALA ALA LYS ASN LYS PHE ILE LYS TYR SEQRES 41 A 1078 TYR ASP THR LEU MET PRO LEU LEU LEU ASN VAL LEU LYS SEQRES 42 A 1078 VAL ASN ASN LYS ASP ASN SER VAL LEU LYS GLY LYS CYS SEQRES 43 A 1078 MET GLU CYS ALA THR LEU ILE GLY PHE ALA VAL GLY LYS SEQRES 44 A 1078 GLU LYS PHE HIS GLU HIS SER GLN GLU LEU ILE SER ILE SEQRES 45 A 1078 LEU VAL ALA LEU GLN ASN SER ASP ILE ASP GLU ASP ASP SEQRES 46 A 1078 ALA LEU ARG SER TYR LEU GLU GLN SER TRP SER ARG ILE SEQRES 47 A 1078 CYS ARG ILE LEU GLY ASP ASP PHE VAL PRO LEU LEU PRO SEQRES 48 A 1078 ILE VAL ILE PRO PRO LEU LEU ILE THR ALA LYS ALA THR SEQRES 49 A 1078 GLN ASP VAL GLY LEU ILE GLU GLU GLU GLU ALA ALA ASN SEQRES 50 A 1078 PHE GLN GLN TYR PRO ASP TRP ASP VAL VAL GLN VAL GLN SEQRES 51 A 1078 GLY LYS HIS ILE ALA ILE HIS THR SER VAL LEU ASP ASP SEQRES 52 A 1078 LYS VAL SER ALA MET GLU LEU LEU GLN SER TYR ALA THR SEQRES 53 A 1078 LEU LEU ARG GLY GLN PHE ALA VAL TYR VAL LYS GLU VAL SEQRES 54 A 1078 MET GLU GLU ILE ALA LEU PRO SER LEU ASP PHE TYR LEU SEQRES 55 A 1078 HIS ASP GLY VAL ARG ALA ALA GLY ALA THR LEU ILE PRO SEQRES 56 A 1078 ILE LEU LEU SER CYS LEU LEU ALA ALA THR GLY THR GLN SEQRES 57 A 1078 ASN GLU GLU LEU VAL LEU LEU TRP HIS LYS ALA SER SER SEQRES 58 A 1078 LYS LEU ILE GLY GLY LEU MET SER GLU PRO MET PRO GLU SEQRES 59 A 1078 ILE THR GLN VAL TYR HIS ASN SER LEU VAL ASN GLY ILE SEQRES 60 A 1078 LYS VAL MET GLY ASP ASN CYS LEU SER GLU ASP GLN LEU SEQRES 61 A 1078 ALA ALA PHE THR LYS GLY VAL SER ALA ASN LEU THR ASP SEQRES 62 A 1078 THR TYR GLU ARG MET GLN ASP ARG HIS GLY ASP GLY ASP SEQRES 63 A 1078 GLU TYR ASN GLU ASN ILE ASP GLU GLU GLU ASP PHE THR SEQRES 64 A 1078 ASP GLU ASP LEU LEU ASP GLU ILE ASN LYS SER ILE ALA SEQRES 65 A 1078 ALA VAL LEU LYS THR THR ASN GLY HIS TYR LEU LYS ASN SEQRES 66 A 1078 LEU GLU ASN ILE TRP PRO MET ILE ASN THR PHE LEU LEU SEQRES 67 A 1078 ASP ASN GLU PRO ILE LEU VAL ILE PHE ALA LEU VAL VAL SEQRES 68 A 1078 ILE GLY ASP LEU ILE GLN TYR GLY GLY GLU GLN THR ALA SEQRES 69 A 1078 SER MET LYS ASN ALA PHE ILE PRO LYS VAL THR GLU CYS SEQRES 70 A 1078 LEU ILE SER PRO ASP ALA ARG ILE ARG GLN ALA ALA SER SEQRES 71 A 1078 TYR ILE ILE GLY VAL CYS ALA GLN TYR ALA PRO SER THR SEQRES 72 A 1078 TYR ALA ASP VAL CYS ILE PRO THR LEU ASP THR LEU VAL SEQRES 73 A 1078 GLN ILE VAL ASP PHE PRO GLY SER LYS LEU GLU GLU ASN SEQRES 74 A 1078 ARG SER SER THR GLU ASN ALA SER ALA ALA ILE ALA LYS SEQRES 75 A 1078 ILE LEU TYR ALA TYR ASN SER ASN ILE PRO ASN VAL ASP SEQRES 76 A 1078 THR TYR THR ALA ASN TRP PHE LYS THR LEU PRO THR ILE SEQRES 77 A 1078 THR ASP LYS GLU ALA ALA SER PHE ASN TYR GLN PHE LEU SEQRES 78 A 1078 SER GLN LEU ILE GLU ASN ASN SER PRO ILE VAL CYS ALA SEQRES 79 A 1078 GLN SER ASN ILE SER ALA VAL VAL ASP SER VAL ILE GLN SEQRES 80 A 1078 ALA LEU ASN GLU ARG SER LEU THR GLU ARG GLU GLY GLN SEQRES 81 A 1078 THR VAL ILE SER SER VAL LYS LYS LEU LEU GLY PHE LEU SEQRES 82 A 1078 PRO SER SER ASP ALA MET ALA ILE PHE ASN ARG TYR PRO SEQRES 83 A 1078 ALA ASP ILE MET GLU LYS VAL HIS LYS TRP PHE ALA HELIX 1 1 PRO A 5 ALA A 20 1 16 HELIX 2 2 ASN A 24 TRP A 38 1 15 HELIX 3 3 ASN A 43 SER A 58 1 16 HELIX 4 4 ASP A 60 ALA A 78 1 19 HELIX 5 5 PRO A 79 ILE A 94 5 5 HELIX 6 6 ARG A 95 SER A 112 1 18 HELIX 7 7 ALA A 115 GLU A 128 1 14 HELIX 8 8 TRP A 137 LYS A 149 1 13 HELIX 9 9 ASN A 152 VAL A 166 1 15 HELIX 10 10 TYR A 168 VAL A 173 1 6 HELIX 11 11 ASP A 174 PHE A 186 1 13 HELIX 12 12 SER A 190 LEU A 208 1 19 HELIX 13 13 PRO A 209 ILE A 218 5 10 HELIX 14 14 LEU A 219 SER A 226 1 8 HELIX 15 15 LEU A 227 ASP A 233 1 7 HELIX 16 16 LYS A 235 ALA A 253 1 19 HELIX 17 17 PRO A 254 LYS A 258 5 5 HELIX 18 18 MET A 260 ASN A 274 1 15 HELIX 19 19 GLU A 278 ALA A 296 1 19 HELIX 20 20 ALA A 296 SER A 302 1 7 HELIX 21 21 ASN A 303 MET A 318 1 16 HELIX 22 22 ALA A 328 GLU A 333 1 6 HELIX 23 23 GLU A 342 THR A 377 1 36 HELIX 24 24 GLU A 380 ALA A 395 1 16 HELIX 25 25 CYS A 398 ILE A 403 1 6 HELIX 26 26 GLU A 405 ILE A 414 1 10 HELIX 27 27 PRO A 415 ASP A 419 5 5 HELIX 28 28 HIS A 421 PHE A 439 1 19 HELIX 29 29 PRO A 441 LEU A 459 1 19 HELIX 30 30 THR A 464 GLU A 480 1 17 HELIX 31 31 SER A 483 GLU A 488 1 6 HELIX 32 32 TYR A 490 GLN A 503 1 14 HELIX 33 33 LYS A 506 LYS A 525 1 20 HELIX 34 34 ASN A 526 LYS A 530 5 5 HELIX 35 35 TYR A 531 VAL A 545 1 15 HELIX 36 36 SER A 551 GLY A 569 1 19 HELIX 37 37 GLY A 569 HIS A 574 1 6 HELIX 38 38 HIS A 576 ASN A 589 1 14 HELIX 39 39 ASP A 596 GLY A 614 1 19 HELIX 40 40 ASP A 615 PRO A 619 5 5 HELIX 41 41 LEU A 620 ALA A 632 1 13 HELIX 42 42 GLU A 643 ALA A 647 5 5 HELIX 43 43 ASN A 648 TYR A 652 5 5 HELIX 44 44 HIS A 668 ARG A 690 1 23 HELIX 45 45 GLY A 691 VAL A 695 5 5 HELIX 46 46 TYR A 696 ILE A 704 1 9 HELIX 47 47 LEU A 706 PHE A 711 5 6 HELIX 48 48 HIS A 714 THR A 736 1 23 HELIX 49 49 GLU A 742 GLU A 761 1 20 HELIX 50 50 MET A 763 GLY A 782 1 20 HELIX 51 51 SER A 787 GLN A 810 1 24 HELIX 52 52 THR A 830 ASN A 850 1 21 HELIX 53 53 HIS A 852 ASN A 859 1 8 HELIX 54 54 ILE A 860 LEU A 869 1 10 HELIX 55 55 GLU A 872 TYR A 889 1 18 HELIX 56 56 THR A 894 ILE A 910 1 17 HELIX 57 57 ASP A 913 ALA A 931 1 19 HELIX 58 58 TYR A 935 VAL A 950 1 16 HELIX 59 59 ASN A 960 TYR A 978 1 19 HELIX 60 60 THR A 987 LYS A 994 1 8 HELIX 61 61 ASP A 1001 ASN A 1018 1 18 HELIX 62 62 ASN A 1028 GLU A 1042 1 15 HELIX 63 63 VAL A 1053 PHE A 1063 1 11 HELIX 64 64 PRO A 1065 ALA A 1071 1 7 HELIX 65 65 ILE A 1072 ARG A 1075 5 4 HELIX 66 66 PRO A 1077 LYS A 1086 1 10 SHEET 1 A 3 VAL A 638 LEU A 640 0 SHEET 2 A 3 HIS A 664 ILE A 667 -1 O ALA A 666 N GLY A 639 SHEET 3 A 3 ASP A 656 GLN A 659 -1 N ASP A 656 O ILE A 667 CISPEP 1 ALA A 78 PRO A 79 0 -22.36 CISPEP 2 SER A 440 PRO A 441 0 -3.33 CISPEP 3 LEU A 996 PRO A 997 0 5.11 CRYST1 77.770 124.390 85.185 90.00 117.02 90.00 P 1 21 1 2 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 0.012858 0.000000 0.006558 0.00000 SCALE2 0.000000 0.008039 0.000000 0.00000 SCALE3 0.000000 0.000000 0.013178 0.00000