HEADER STRUCTURAL GENOMICS, UNKNOWN FUNCTION 31-DEC-04 1YF9 TITLE STRUCTURAL ANALYSIS OF LEISHMANIA MAJOR UBIQUITIN CONJUGATING ENZYME TITLE 2 E2 COMPND MOL_ID: 1; COMPND 2 MOLECULE: UBIQUITIN CARRIER PROTEIN 4; COMPND 3 CHAIN: A, B, C; COMPND 4 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: LEISHMANIA MAJOR; SOURCE 3 ORGANISM_TAXID: 5664; SOURCE 4 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 5 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 6 EXPRESSION_SYSTEM_STRAIN: BL21STAR(DE3); SOURCE 7 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 8 EXPRESSION_SYSTEM_PLASMID: PET14B; SOURCE 9 OTHER_DETAILS: T7 SYSTEM KEYWDS SGPP, STRUCTURAL GENOMICS, PSI, PROTEIN STRUCTURE INITIATIVE, KEYWDS 2 UBIQUITIN CONJUGATING ENZYME, STRUCTURAL GENOMICS OF PATHOGENIC KEYWDS 3 PROTOZOA CONSORTIUM, UNKNOWN FUNCTION EXPDTA X-RAY DIFFRACTION AUTHOR STRUCTURAL GENOMICS OF PATHOGENIC PROTOZOA CONSORTIUM (SGPP) REVDAT 4 14-FEB-24 1YF9 1 REMARK REVDAT 3 13-JUL-11 1YF9 1 VERSN REVDAT 2 24-FEB-09 1YF9 1 VERSN REVDAT 1 22-FEB-05 1YF9 0 JRNL AUTH J.BOSCH,W.G.J.HOL JRNL TITL STRUCTURAL ANALYSIS OF LEISHMANIA MAJOR UBIQUITIN JRNL TITL 2 CONJUGATING ENZYME E2 JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 2.00 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.2.0005 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) : 2.00 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 50.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 91.7 REMARK 3 NUMBER OF REFLECTIONS : 54915 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) : 0.186 REMARK 3 R VALUE (WORKING SET) : 0.185 REMARK 3 FREE R VALUE : 0.210 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 2919 REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 10 REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 2.00 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.11 REMARK 3 REFLECTION IN BIN (WORKING SET) : 5243 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 61.17 REMARK 3 BIN R VALUE (WORKING SET) : 0.2580 REMARK 3 BIN FREE R VALUE SET COUNT : 293 REMARK 3 BIN FREE R VALUE : 0.2730 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 3882 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 6 REMARK 3 SOLVENT ATOMS : 296 REMARK 3 REMARK 3 B VALUES. REMARK 3 B VALUE TYPE : LIKELY RESIDUAL REMARK 3 FROM WILSON PLOT (A**2) : 37.14 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 47.01 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.45000 REMARK 3 B22 (A**2) : -0.45000 REMARK 3 B33 (A**2) : 0.90000 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): 0.132 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.124 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.092 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 6.324 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.961 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.952 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 4160 ; 0.009 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 5682 ; 1.153 ; 1.948 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 474 ; 5.428 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 228 ;31.495 ;23.114 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 683 ;14.488 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 42 ;15.649 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 612 ; 0.088 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 3275 ; 0.004 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 1709 ; 0.187 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 2812 ; 0.303 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 286 ; 0.128 ; 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): 76 ; 0.210 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 26 ; 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): 2504 ; 1.212 ; 4.000 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 4029 ; 1.931 ; 6.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1872 ; 3.001 ; 6.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1653 ; 3.937 ;10.000 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 : 2 REMARK 3 REMARK 3 NCS GROUP NUMBER : 1 REMARK 3 CHAIN NAMES : A B C REMARK 3 NUMBER OF COMPONENTS NCS GROUP : 2 REMARK 3 COMPONENT C SSSEQI TO C SSSEQI CODE REMARK 3 1 A 14 A 86 2 REMARK 3 1 B 14 B 86 2 REMARK 3 1 C 14 C 86 2 REMARK 3 2 A 91 A 170 2 REMARK 3 2 B 91 B 170 2 REMARK 3 2 C 91 C 170 2 REMARK 3 GROUP CHAIN COUNT RMS WEIGHT REMARK 3 TIGHT POSITIONAL 1 A (A): 612 ; 0.05 ; 0.05 REMARK 3 TIGHT POSITIONAL 1 B (A): 612 ; 0.04 ; 0.05 REMARK 3 TIGHT POSITIONAL 1 C (A): 612 ; 0.06 ; 0.05 REMARK 3 MEDIUM POSITIONAL 1 A (A): 586 ; 0.32 ; 0.50 REMARK 3 MEDIUM POSITIONAL 1 B (A): 586 ; 0.33 ; 0.50 REMARK 3 MEDIUM POSITIONAL 1 C (A): 586 ; 0.35 ; 0.50 REMARK 3 TIGHT THERMAL 1 A (A**2): 612 ; 0.11 ; 0.50 REMARK 3 TIGHT THERMAL 1 B (A**2): 612 ; 0.10 ; 0.50 REMARK 3 TIGHT THERMAL 1 C (A**2): 612 ; 0.11 ; 0.50 REMARK 3 MEDIUM THERMAL 1 A (A**2): 586 ; 0.76 ; 2.00 REMARK 3 MEDIUM THERMAL 1 B (A**2): 586 ; 0.73 ; 2.00 REMARK 3 MEDIUM THERMAL 1 C (A**2): 586 ; 0.77 ; 2.00 REMARK 3 REMARK 3 NCS GROUP NUMBER : 2 REMARK 3 CHAIN NAMES : B C REMARK 3 NUMBER OF COMPONENTS NCS GROUP : 1 REMARK 3 COMPONENT C SSSEQI TO C SSSEQI CODE REMARK 3 1 B 87 B 90 1 REMARK 3 1 C 87 C 90 1 REMARK 3 GROUP CHAIN COUNT RMS WEIGHT REMARK 3 TIGHT POSITIONAL 2 B (A): 30 ; 0.03 ; 0.05 REMARK 3 TIGHT THERMAL 2 B (A**2): 30 ; 0.16 ; 0.50 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 3 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 13 A 170 REMARK 3 ORIGIN FOR THE GROUP (A): 26.2360 25.2560 16.7020 REMARK 3 T TENSOR REMARK 3 T11: -0.2367 T22: -0.0825 REMARK 3 T33: -0.1682 T12: -0.0161 REMARK 3 T13: -0.0356 T23: -0.1148 REMARK 3 L TENSOR REMARK 3 L11: 4.6585 L22: 1.3106 REMARK 3 L33: 1.1395 L12: -0.4234 REMARK 3 L13: 0.8625 L23: -0.0040 REMARK 3 S TENSOR REMARK 3 S11: 0.0770 S12: -0.2678 S13: 0.0818 REMARK 3 S21: 0.1691 S22: 0.0476 S23: -0.1458 REMARK 3 S31: 0.0215 S32: 0.0486 S33: -0.1245 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 11 B 170 REMARK 3 ORIGIN FOR THE GROUP (A): 19.5830 -6.1170 14.7860 REMARK 3 T TENSOR REMARK 3 T11: 0.0250 T22: -0.1302 REMARK 3 T33: -0.0653 T12: 0.0527 REMARK 3 T13: -0.0460 T23: 0.0604 REMARK 3 L TENSOR REMARK 3 L11: 6.0395 L22: 4.4323 REMARK 3 L33: 1.9967 L12: 1.8502 REMARK 3 L13: -0.8034 L23: -0.1584 REMARK 3 S TENSOR REMARK 3 S11: 0.0042 S12: -0.5143 S13: -0.8880 REMARK 3 S21: 0.4641 S22: -0.0720 S23: -0.2474 REMARK 3 S31: 0.4998 S32: 0.0361 S33: 0.0678 REMARK 3 REMARK 3 TLS GROUP : 3 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : C 13 C 171 REMARK 3 ORIGIN FOR THE GROUP (A): -4.4070 15.5360 17.7660 REMARK 3 T TENSOR REMARK 3 T11: -0.2709 T22: 0.0241 REMARK 3 T33: -0.2325 T12: -0.0550 REMARK 3 T13: 0.0587 T23: -0.0604 REMARK 3 L TENSOR REMARK 3 L11: 2.3213 L22: 4.5215 REMARK 3 L33: 1.5710 L12: -0.4651 REMARK 3 L13: -0.2618 L23: 1.2325 REMARK 3 S TENSOR REMARK 3 S11: 0.0192 S12: -0.3621 S13: -0.0045 REMARK 3 S21: 0.1855 S22: -0.1179 S23: 0.0606 REMARK 3 S31: 0.1823 S32: -0.1682 S33: 0.0987 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 : 1.20 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 1YF9 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 04-JAN-05. REMARK 100 THE DEPOSITION ID IS D_1000031449. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 09-DEC-04 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 : ALS REMARK 200 BEAMLINE : 8.2.1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.97957, 0.95372, 0.97975 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 4 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : MOSFLM REMARK 200 DATA SCALING SOFTWARE : CCP4 (SCALA) REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 54915 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.000 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 (%) : 91.7 REMARK 200 DATA REDUNDANCY : 6.300 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : 0.07700 REMARK 200 FOR THE DATA SET : 13.3000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.00 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.11 REMARK 200 COMPLETENESS FOR SHELL (%) : 61.2 REMARK 200 DATA REDUNDANCY IN SHELL : 4.00 REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : 0.81800 REMARK 200 FOR SHELL : 1.600 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: MAD REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MAD REMARK 200 SOFTWARE USED: SHELXS REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 69.30 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 4.04 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 3 M SODIUM CHLORIDE 0.1 M HEPES, PH REMARK 280 7.0, VAPOR DIFFUSION, SITTING DROP, TEMPERATURE 298K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 43 21 2 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 -Y+1/2,X+1/2,Z+3/4 REMARK 290 4555 Y+1/2,-X+1/2,Z+1/4 REMARK 290 5555 -X+1/2,Y+1/2,-Z+3/4 REMARK 290 6555 X+1/2,-Y+1/2,-Z+1/4 REMARK 290 7555 Y,X,-Z REMARK 290 8555 -Y,-X,-Z+1/2 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 69.77350 REMARK 290 SMTRY1 3 0.000000 -1.000000 0.000000 57.22400 REMARK 290 SMTRY2 3 1.000000 0.000000 0.000000 57.22400 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 104.66025 REMARK 290 SMTRY1 4 0.000000 1.000000 0.000000 57.22400 REMARK 290 SMTRY2 4 -1.000000 0.000000 0.000000 57.22400 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 34.88675 REMARK 290 SMTRY1 5 -1.000000 0.000000 0.000000 57.22400 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 57.22400 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 104.66025 REMARK 290 SMTRY1 6 1.000000 0.000000 0.000000 57.22400 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 57.22400 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 34.88675 REMARK 290 SMTRY1 7 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY2 7 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 8 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY2 8 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 69.77350 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: TRIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TRIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 4640 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 22830 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -71.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B, C 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: HEXAMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 13860 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 41070 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -160.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B, C 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 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT2 2 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT3 2 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 GLY A 1 REMARK 465 PRO A 2 REMARK 465 GLY A 3 REMARK 465 SER A 4 REMARK 465 MET A 5 REMARK 465 SER A 6 REMARK 465 GLY A 7 REMARK 465 ALA A 8 REMARK 465 GLY A 9 REMARK 465 ASN A 10 REMARK 465 LEU A 11 REMARK 465 ARG A 12 REMARK 465 HIS A 171 REMARK 465 GLY B 1 REMARK 465 PRO B 2 REMARK 465 GLY B 3 REMARK 465 SER B 4 REMARK 465 MET B 5 REMARK 465 SER B 6 REMARK 465 GLY B 7 REMARK 465 ALA B 8 REMARK 465 GLY B 9 REMARK 465 ASN B 10 REMARK 465 HIS B 171 REMARK 465 GLY C 1 REMARK 465 PRO C 2 REMARK 465 GLY C 3 REMARK 465 SER C 4 REMARK 465 MET C 5 REMARK 465 SER C 6 REMARK 465 GLY C 7 REMARK 465 ALA C 8 REMARK 465 GLY C 9 REMARK 465 ASN C 10 REMARK 465 LEU C 11 REMARK 465 ARG C 12 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 HIS C 171 CG ND1 CD2 CE1 NE2 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 34 -151.42 -94.82 REMARK 500 VAL A 113 -58.85 -128.33 REMARK 500 ASP A 139 91.20 -160.14 REMARK 500 SER B 34 -151.47 -95.43 REMARK 500 VAL B 113 -59.85 -126.33 REMARK 500 ASP B 139 89.85 -159.54 REMARK 500 SER C 34 -153.55 -95.89 REMARK 500 VAL C 113 -60.28 -127.72 REMARK 500 ASP C 139 87.05 -155.99 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 CL B 400 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CL C 500 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CL A 600 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: LMAJ005461AAB RELATED DB: TARGETDB REMARK 999 REMARK 999 SEQUENCE REMARK 999 A DATABASE REFERENCE SEQUENCE FOR UBIQUITIN REMARK 999 CARRIER PROTEIN 4 CAN BE FOUND AT GENEDB, REMARK 999 ID LMJF32.0700. DBREF 1YF9 A 5 171 UNP Q4Q5L3 Q4Q5L3_LEIMA 1 167 DBREF 1YF9 B 5 171 UNP Q4Q5L3 Q4Q5L3_LEIMA 1 167 DBREF 1YF9 C 5 171 UNP Q4Q5L3 Q4Q5L3_LEIMA 1 167 SEQRES 1 A 171 GLY PRO GLY SER MET SER GLY ALA GLY ASN LEU ARG SER SEQRES 2 A 171 ASN ARG ARG ARG GLU MET ASP TYR MET ARG LEU CYS ASN SEQRES 3 A 171 SER THR ARG LYS VAL TYR PRO SER ASP THR VAL ALA GLU SEQRES 4 A 171 PHE TRP VAL GLU PHE LYS GLY PRO GLU GLY THR PRO TYR SEQRES 5 A 171 GLU ASP GLY THR TRP MET LEU HIS VAL GLN LEU PRO SER SEQRES 6 A 171 ASP TYR PRO PHE LYS SER PRO SER ILE GLY PHE CYS ASN SEQRES 7 A 171 ARG ILE LEU HIS PRO ASN VAL ASP GLU ARG SER GLY SER SEQRES 8 A 171 VAL CYS LEU ASP VAL ILE ASN GLN THR TRP THR PRO MET SEQRES 9 A 171 TYR GLN LEU GLU ASN ILE PHE ASP VAL PHE LEU PRO GLN SEQRES 10 A 171 LEU LEU ARG TYR PRO ASN PRO SER ASP PRO LEU ASN VAL SEQRES 11 A 171 GLN ALA ALA HIS LEU LEU HIS ALA ASP ARG VAL GLY PHE SEQRES 12 A 171 ASP ALA LEU LEU ARG GLU HIS VAL SER THR HIS ALA THR SEQRES 13 A 171 PRO GLN LYS ALA LEU GLU SER ILE PRO GLU ALA TYR ARG SEQRES 14 A 171 PRO HIS SEQRES 1 B 171 GLY PRO GLY SER MET SER GLY ALA GLY ASN LEU ARG SER SEQRES 2 B 171 ASN ARG ARG ARG GLU MET ASP TYR MET ARG LEU CYS ASN SEQRES 3 B 171 SER THR ARG LYS VAL TYR PRO SER ASP THR VAL ALA GLU SEQRES 4 B 171 PHE TRP VAL GLU PHE LYS GLY PRO GLU GLY THR PRO TYR SEQRES 5 B 171 GLU ASP GLY THR TRP MET LEU HIS VAL GLN LEU PRO SER SEQRES 6 B 171 ASP TYR PRO PHE LYS SER PRO SER ILE GLY PHE CYS ASN SEQRES 7 B 171 ARG ILE LEU HIS PRO ASN VAL ASP GLU ARG SER GLY SER SEQRES 8 B 171 VAL CYS LEU ASP VAL ILE ASN GLN THR TRP THR PRO MET SEQRES 9 B 171 TYR GLN LEU GLU ASN ILE PHE ASP VAL PHE LEU PRO GLN SEQRES 10 B 171 LEU LEU ARG TYR PRO ASN PRO SER ASP PRO LEU ASN VAL SEQRES 11 B 171 GLN ALA ALA HIS LEU LEU HIS ALA ASP ARG VAL GLY PHE SEQRES 12 B 171 ASP ALA LEU LEU ARG GLU HIS VAL SER THR HIS ALA THR SEQRES 13 B 171 PRO GLN LYS ALA LEU GLU SER ILE PRO GLU ALA TYR ARG SEQRES 14 B 171 PRO HIS SEQRES 1 C 171 GLY PRO GLY SER MET SER GLY ALA GLY ASN LEU ARG SER SEQRES 2 C 171 ASN ARG ARG ARG GLU MET ASP TYR MET ARG LEU CYS ASN SEQRES 3 C 171 SER THR ARG LYS VAL TYR PRO SER ASP THR VAL ALA GLU SEQRES 4 C 171 PHE TRP VAL GLU PHE LYS GLY PRO GLU GLY THR PRO TYR SEQRES 5 C 171 GLU ASP GLY THR TRP MET LEU HIS VAL GLN LEU PRO SER SEQRES 6 C 171 ASP TYR PRO PHE LYS SER PRO SER ILE GLY PHE CYS ASN SEQRES 7 C 171 ARG ILE LEU HIS PRO ASN VAL ASP GLU ARG SER GLY SER SEQRES 8 C 171 VAL CYS LEU ASP VAL ILE ASN GLN THR TRP THR PRO MET SEQRES 9 C 171 TYR GLN LEU GLU ASN ILE PHE ASP VAL PHE LEU PRO GLN SEQRES 10 C 171 LEU LEU ARG TYR PRO ASN PRO SER ASP PRO LEU ASN VAL SEQRES 11 C 171 GLN ALA ALA HIS LEU LEU HIS ALA ASP ARG VAL GLY PHE SEQRES 12 C 171 ASP ALA LEU LEU ARG GLU HIS VAL SER THR HIS ALA THR SEQRES 13 C 171 PRO GLN LYS ALA LEU GLU SER ILE PRO GLU ALA TYR ARG SEQRES 14 C 171 PRO HIS HET CL A 600 1 HET CL A 401 1 HET CL B 400 1 HET CL B 501 1 HET CL C 500 1 HET CL C 601 1 HETNAM CL CHLORIDE ION FORMUL 4 CL 6(CL 1-) FORMUL 10 HOH *296(H2 O) HELIX 1 1 ASN A 14 ASN A 26 1 13 HELIX 2 2 CYS A 93 TRP A 101 1 9 HELIX 3 3 LEU A 107 VAL A 113 1 7 HELIX 4 4 VAL A 113 TYR A 121 1 9 HELIX 5 5 ASN A 129 ASP A 139 1 11 HELIX 6 6 ASP A 139 ALA A 155 1 17 HELIX 7 7 THR A 156 SER A 163 1 8 HELIX 8 8 ILE A 164 ARG A 169 5 6 HELIX 9 9 ASN B 14 ASN B 26 1 13 HELIX 10 10 CYS B 93 TRP B 101 1 9 HELIX 11 11 GLN B 106 VAL B 113 1 8 HELIX 12 12 VAL B 113 TYR B 121 1 9 HELIX 13 13 ASN B 129 ASP B 139 1 11 HELIX 14 14 ASP B 139 ALA B 155 1 17 HELIX 15 15 THR B 156 SER B 163 1 8 HELIX 16 16 ILE B 164 ARG B 169 5 6 HELIX 17 17 ASN C 14 ASN C 26 1 13 HELIX 18 18 CYS C 93 TRP C 101 1 9 HELIX 19 19 LEU C 107 VAL C 113 1 7 HELIX 20 20 VAL C 113 TYR C 121 1 9 HELIX 21 21 ASN C 129 ASP C 139 1 11 HELIX 22 22 ASP C 139 ALA C 155 1 17 HELIX 23 23 THR C 156 SER C 163 1 8 HELIX 24 24 ILE C 164 ARG C 169 5 6 SHEET 1 A 4 VAL A 31 PRO A 33 0 SHEET 2 A 4 GLU A 39 LYS A 45 -1 O TRP A 41 N TYR A 32 SHEET 3 A 4 THR A 56 GLN A 62 -1 O LEU A 59 N VAL A 42 SHEET 4 A 4 SER A 73 PHE A 76 -1 O GLY A 75 N HIS A 60 SHEET 1 B 4 VAL B 31 PRO B 33 0 SHEET 2 B 4 GLU B 39 LYS B 45 -1 O TRP B 41 N TYR B 32 SHEET 3 B 4 THR B 56 GLN B 62 -1 O TRP B 57 N PHE B 44 SHEET 4 B 4 SER B 73 PHE B 76 -1 O GLY B 75 N HIS B 60 SHEET 1 C 4 VAL C 31 PRO C 33 0 SHEET 2 C 4 GLU C 39 LYS C 45 -1 O TRP C 41 N TYR C 32 SHEET 3 C 4 THR C 56 GLN C 62 -1 O VAL C 61 N PHE C 40 SHEET 4 C 4 SER C 73 PHE C 76 -1 O GLY C 75 N HIS C 60 CISPEP 1 TYR A 67 PRO A 68 0 2.36 CISPEP 2 TYR B 67 PRO B 68 0 0.74 CISPEP 3 TYR C 67 PRO C 68 0 1.61 SITE 1 AC1 3 ASN A 123 HOH A 676 ARG B 23 SITE 1 AC2 3 ASN B 123 HOH B 521 ARG C 23 SITE 1 AC3 3 ARG A 23 ASN C 123 HOH C 633 CRYST1 114.448 114.448 139.547 90.00 90.00 90.00 P 43 21 2 24 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 0.008738 0.000000 0.000000 0.00000 SCALE2 0.000000 0.008738 0.000000 0.00000 SCALE3 0.000000 0.000000 0.007166 0.00000