HEADER PROTEIN TRANSPORT 07-SEP-10 2XQQ TITLE HUMAN DYNEIN LIGHT CHAIN (DYNLL2) IN COMPLEX WITH AN IN VITRO EVOLVED TITLE 2 PEPTIDE (AC-SRGTQTE). COMPND MOL_ID: 1; COMPND 2 MOLECULE: DYNEIN LIGHT CHAIN 2, CYTOPLASMIC; COMPND 3 CHAIN: A, B, C, D; COMPND 4 SYNONYM: DYNEIN LIGHT CHAIN LC8-TYPE 2,8 KDA DYNEIN LIGHT CHAIN B; COMPND 5 ENGINEERED: YES; COMPND 6 MOL_ID: 2; COMPND 7 MOLECULE: SAC-ARG-GLY-THR-GLN-THR-GLU; COMPND 8 CHAIN: E, F, G, H; COMPND 9 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 3 ORGANISM_COMMON: HUMAN; SOURCE 4 ORGANISM_TAXID: 9606; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 7 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 9 EXPRESSION_SYSTEM_PLASMID: PET-15B; SOURCE 10 MOL_ID: 2; SOURCE 11 SYNTHETIC: YES; SOURCE 12 ORGANISM_SCIENTIFIC: SYNTHETIC CONSTRUCT; SOURCE 13 ORGANISM_TAXID: 32630 KEYWDS PROTEIN TRANSPORT, DIMER INTERFACE EXPDTA X-RAY DIFFRACTION AUTHOR P.RAPALI,L.RADNAI,D.SUVEGES,C.HETENYI,V.HARMAT,F.TOLGYESI, AUTHOR 2 W.Y.WAHLGREN,G.KATONA,L.NYITRAY,G.PAL REVDAT 6 20-DEC-23 2XQQ 1 REMARK REVDAT 5 08-MAY-19 2XQQ 1 REMARK REVDAT 4 06-MAR-19 2XQQ 1 REMARK LINK REVDAT 3 20-NOV-13 2XQQ 1 REMARK REVDAT 2 28-SEP-11 2XQQ 1 JRNL REMARK VERSN REVDAT 1 04-MAY-11 2XQQ 0 JRNL AUTH P.RAPALI,L.RADNAI,D.SUVEGES,V.HARMAT,F.TOLGYESI, JRNL AUTH 2 W.Y.WAHLGREN,G.KATONA,L.NYITRAY,G.PAL JRNL TITL DIRECTED EVOLUTION REVEALS THE BINDING MOTIF PREFERENCE OF JRNL TITL 2 THE LC8/DYNLL HUB PROTEIN AND PREDICTS LARGE NUMBERS OF JRNL TITL 3 NOVEL BINDERS IN THE HUMAN PROTEOME JRNL REF PLOS ONE V. 6 18818 2011 JRNL REFN ESSN 1932-6203 JRNL PMID 21533121 JRNL DOI 10.1371/JOURNAL.PONE.0018818 REMARK 2 REMARK 2 RESOLUTION. 1.31 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.5.0109 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) : 1.31 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 151.84 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 96.0 REMARK 3 NUMBER OF REFLECTIONS : 77776 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) : 0.124 REMARK 3 R VALUE (WORKING SET) : 0.123 REMARK 3 FREE R VALUE : 0.156 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 4096 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) : 1.31 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.34 REMARK 3 REFLECTION IN BIN (WORKING SET) : 3930 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 66.87 REMARK 3 BIN R VALUE (WORKING SET) : 0.1850 REMARK 3 BIN FREE R VALUE SET COUNT : 215 REMARK 3 BIN FREE R VALUE : 0.2170 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 3040 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 4 REMARK 3 SOLVENT ATOMS : 361 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 10.50 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 10.47 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.42000 REMARK 3 B22 (A**2) : -0.06000 REMARK 3 B33 (A**2) : -0.36000 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): 0.047 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.045 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.023 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 1.170 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.976 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.966 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 3332 ; 0.024 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): 2305 ; 0.001 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 4519 ; 2.010 ; 1.944 REMARK 3 BOND ANGLES OTHERS (DEGREES): 5652 ; 1.065 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 432 ; 6.368 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 164 ;31.095 ;24.756 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 639 ;12.936 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 13 ;14.427 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 478 ; 0.135 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 3741 ; 0.011 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 692 ; 0.002 ; 0.020 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): 1987 ; 2.405 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 799 ; 0.955 ; 1.500 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 3224 ; 3.490 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1345 ; 5.092 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1265 ; 7.464 ; 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): 5633 ; 1.382 ; 1.000 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 : 1.40 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 2XQQ COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 07-SEP-10. REMARK 100 THE DEPOSITION ID IS D_1290045170. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 03-NOV-09 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 4.6 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : ESRF REMARK 200 BEAMLINE : ID29 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.93 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 315R REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : XSCALE REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 81872 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.310 REMARK 200 RESOLUTION RANGE LOW (A) : 151.840 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 2.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 96.0 REMARK 200 DATA REDUNDANCY : 7.600 REMARK 200 R MERGE (I) : 0.07000 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 15.6600 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.31 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.34 REMARK 200 COMPLETENESS FOR SHELL (%) : 67.1 REMARK 200 DATA REDUNDANCY IN SHELL : 3.53 REMARK 200 R MERGE FOR SHELL (I) : 0.48000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 2.930 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHASER REMARK 200 STARTING MODEL: PDB ENTRY 1CMI REMARK 200 REMARK 200 REMARK: NONE REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 27.20 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 1.70 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: HANGING DROP VAPOR DIFFUSION AT 293K REMARK 280 WITH A RESERVOIR SOLUTION 31% PEG 4000, 0.4 M NH4AC, 0.1 M NAAC REMARK 280 PH 4.6, 2UL RESERVOIR SOLUTION AND 2UL PROTEIN SOLUTION, VAPOR REMARK 280 DIFFUSION, HANGING DROP 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 17.80000 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 75.92000 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 32.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 75.92000 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 17.80000 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 32.00000 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, 3 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: TETRAMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TETRAMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 4480 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 8280 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -8.4 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, C, E, G 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: TETRAMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TETRAMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 4680 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 8600 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -10.1 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: B, F 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 APPLY THE FOLLOWING TO CHAINS: D, H REMARK 350 BIOMT1 2 1.000000 0.000000 0.000000 -17.80000 REMARK 350 BIOMT2 2 0.000000 -1.000000 0.000000 32.00000 REMARK 350 BIOMT3 2 0.000000 0.000000 -1.000000 0.00000 REMARK 350 REMARK 350 BIOMOLECULE: 3 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: TETRAMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TETRAMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 4680 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 8600 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -10.1 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: D, H 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 APPLY THE FOLLOWING TO CHAINS: B, F REMARK 350 BIOMT1 2 1.000000 0.000000 0.000000 17.80000 REMARK 350 BIOMT2 2 0.000000 -1.000000 0.000000 32.00000 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 MET A 1 REMARK 465 SER A 2 REMARK 465 MET C 1 REMARK 465 SER C 2 REMARK 465 ASP C 3 REMARK 465 MET D 1 REMARK 465 SER D 2 REMARK 465 ASP D 3 REMARK 465 ARG D 4 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 5 CD CE NZ REMARK 470 LYS A 48 CE NZ REMARK 470 LYS C 5 CG CD CE NZ REMARK 470 ASP C 16 CG OD1 OD2 REMARK 470 GLN C 27 CD OE1 NE2 REMARK 470 ASN C 33 CG OD1 ND2 REMARK 470 LYS C 48 CE NZ REMARK 470 GLU D 15 CD OE1 OE2 REMARK 470 GLU F 7 CG CD OE1 OE2 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 CE MET A 17 O HOH A 2075 1.94 REMARK 500 O HOH D 2050 O HOH D 2053 1.96 REMARK 500 O HOH D 2068 O HOH D 2069 2.11 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS REMARK 500 REMARK 500 THE FOLLOWING ATOMS THAT ARE RELATED BY CRYSTALLOGRAPHIC REMARK 500 SYMMETRY ARE IN CLOSE CONTACT. AN ATOM LOCATED WITHIN 0.15 REMARK 500 ANGSTROMS OF A SYMMETRY RELATED ATOM IS ASSUMED TO BE ON A REMARK 500 SPECIAL POSITION AND IS, THEREFORE, LISTED IN REMARK 375 REMARK 500 INSTEAD OF REMARK 500. ATOMS WITH NON-BLANK ALTERNATE REMARK 500 LOCATION INDICATORS ARE NOT INCLUDED IN THE CALCULATIONS. REMARK 500 REMARK 500 DISTANCE CUTOFF: REMARK 500 2.2 ANGSTROMS FOR CONTACTS NOT INVOLVING HYDROGEN ATOMS REMARK 500 1.6 ANGSTROMS FOR CONTACTS INVOLVING HYDROGEN ATOMS REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI SSYMOP DISTANCE REMARK 500 CD1 ILE A 34 O HOH B 2023 3655 2.16 REMARK 500 O HOH A 2029 O HOH A 2061 3745 2.17 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND LENGTHS 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,2(A3,1X,A1,I4,A1,1X,A4,3X),1X,F6.3) 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 RES CSSEQI ATM2 DEVIATION REMARK 500 CYS A 24 CB CYS A 24 SG -0.100 REMARK 500 GLY A 89 C GLY A 89 O 0.148 REMARK 500 TYR B 77 CD1 TYR B 77 CE1 0.092 REMARK 500 GLU C 15 CD GLU C 15 OE1 0.109 REMARK 500 GLY C 89 C GLY C 89 O 0.150 REMARK 500 LYS D 5 C LYS D 5 O 0.124 REMARK 500 CYS D 24 CB CYS D 24 SG -0.170 REMARK 500 GLU G 7 CD GLU G 7 OE2 0.069 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 GLY C 89 CA - C - O ANGL. DEV. = 13.7 DEGREES REMARK 500 ASP D 23 CB - CG - OD1 ANGL. DEV. = 5.4 DEGREES REMARK 500 ARG E 2 NE - CZ - NH1 ANGL. DEV. = 3.2 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 ASN A 51 153.03 78.20 REMARK 500 MET B 13 144.40 -170.08 REMARK 500 ASN B 51 160.35 75.45 REMARK 500 MET C 13 147.06 -173.88 REMARK 500 ASN C 51 147.69 75.44 REMARK 500 ASN D 51 155.83 72.12 REMARK 500 REMARK 500 REMARK: NULL REMARK 525 REMARK 525 SOLVENT REMARK 525 REMARK 525 THE SOLVENT MOLECULES HAVE CHAIN IDENTIFIERS THAT REMARK 525 INDICATE THE POLYMER CHAIN WITH WHICH THEY ARE MOST REMARK 525 CLOSELY ASSOCIATED. THE REMARK LISTS ALL THE SOLVENT REMARK 525 MOLECULES WHICH ARE MORE THAN 5A AWAY FROM THE REMARK 525 NEAREST POLYMER CHAIN (M = MODEL NUMBER; REMARK 525 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE REMARK 525 NUMBER; I=INSERTION CODE): REMARK 525 REMARK 525 M RES CSSEQI REMARK 525 HOH C2024 DISTANCE = 6.59 ANGSTROMS REMARK 525 HOH D2012 DISTANCE = 5.81 ANGSTROMS REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ACT B 1090 DBREF 2XQQ A 1 89 UNP Q96FJ2 DYL2_HUMAN 1 89 DBREF 2XQQ B 1 89 UNP Q96FJ2 DYL2_HUMAN 1 89 DBREF 2XQQ C 1 89 UNP Q96FJ2 DYL2_HUMAN 1 89 DBREF 2XQQ D 1 89 UNP Q96FJ2 DYL2_HUMAN 1 89 DBREF 2XQQ E 1 7 PDB 2XQQ 2XQQ 1 7 DBREF 2XQQ F 1 7 PDB 2XQQ 2XQQ 1 7 DBREF 2XQQ G 1 7 PDB 2XQQ 2XQQ 1 7 DBREF 2XQQ H 1 7 PDB 2XQQ 2XQQ 1 7 SEQRES 1 A 89 MET SER ASP ARG LYS ALA VAL ILE LYS ASN ALA ASP MET SEQRES 2 A 89 SER GLU ASP MET GLN GLN ASP ALA VAL ASP CYS ALA THR SEQRES 3 A 89 GLN ALA MET GLU LYS TYR ASN ILE GLU LYS ASP ILE ALA SEQRES 4 A 89 ALA TYR ILE LYS LYS GLU PHE ASP LYS LYS TYR ASN PRO SEQRES 5 A 89 THR TRP HIS CYS ILE VAL GLY ARG ASN PHE GLY SER TYR SEQRES 6 A 89 VAL THR HIS GLU THR LYS HIS PHE ILE TYR PHE TYR LEU SEQRES 7 A 89 GLY GLN VAL ALA ILE LEU LEU PHE LYS SER GLY SEQRES 1 B 89 MET SER ASP ARG LYS ALA VAL ILE LYS ASN ALA ASP MET SEQRES 2 B 89 SER GLU ASP MET GLN GLN ASP ALA VAL ASP CYS ALA THR SEQRES 3 B 89 GLN ALA MET GLU LYS TYR ASN ILE GLU LYS ASP ILE ALA SEQRES 4 B 89 ALA TYR ILE LYS LYS GLU PHE ASP LYS LYS TYR ASN PRO SEQRES 5 B 89 THR TRP HIS CYS ILE VAL GLY ARG ASN PHE GLY SER TYR SEQRES 6 B 89 VAL THR HIS GLU THR LYS HIS PHE ILE TYR PHE TYR LEU SEQRES 7 B 89 GLY GLN VAL ALA ILE LEU LEU PHE LYS SER GLY SEQRES 1 C 89 MET SER ASP ARG LYS ALA VAL ILE LYS ASN ALA ASP MET SEQRES 2 C 89 SER GLU ASP MET GLN GLN ASP ALA VAL ASP CYS ALA THR SEQRES 3 C 89 GLN ALA MET GLU LYS TYR ASN ILE GLU LYS ASP ILE ALA SEQRES 4 C 89 ALA TYR ILE LYS LYS GLU PHE ASP LYS LYS TYR ASN PRO SEQRES 5 C 89 THR TRP HIS CYS ILE VAL GLY ARG ASN PHE GLY SER TYR SEQRES 6 C 89 VAL THR HIS GLU THR LYS HIS PHE ILE TYR PHE TYR LEU SEQRES 7 C 89 GLY GLN VAL ALA ILE LEU LEU PHE LYS SER GLY SEQRES 1 D 89 MET SER ASP ARG LYS ALA VAL ILE LYS ASN ALA ASP MET SEQRES 2 D 89 SER GLU ASP MET GLN GLN ASP ALA VAL ASP CYS ALA THR SEQRES 3 D 89 GLN ALA MET GLU LYS TYR ASN ILE GLU LYS ASP ILE ALA SEQRES 4 D 89 ALA TYR ILE LYS LYS GLU PHE ASP LYS LYS TYR ASN PRO SEQRES 5 D 89 THR TRP HIS CYS ILE VAL GLY ARG ASN PHE GLY SER TYR SEQRES 6 D 89 VAL THR HIS GLU THR LYS HIS PHE ILE TYR PHE TYR LEU SEQRES 7 D 89 GLY GLN VAL ALA ILE LEU LEU PHE LYS SER GLY SEQRES 1 E 7 SAC ARG GLY THR GLN THR GLU SEQRES 1 F 7 SAC ARG GLY THR GLN THR GLU SEQRES 1 G 7 SAC ARG GLY THR GLN THR GLU SEQRES 1 H 7 SAC ARG GLY THR GLN THR GLU MODRES 2XQQ SAC E 1 SER N-ACETYL-SERINE MODRES 2XQQ SAC F 1 SER N-ACETYL-SERINE MODRES 2XQQ SAC G 1 SER N-ACETYL-SERINE MODRES 2XQQ SAC H 1 SER N-ACETYL-SERINE HET SAC E 1 9 HET SAC F 1 9 HET SAC G 1 9 HET SAC H 1 9 HET ACT B1090 4 HETNAM SAC N-ACETYL-SERINE HETNAM ACT ACETATE ION FORMUL 5 SAC 4(C5 H9 N O4) FORMUL 9 ACT C2 H3 O2 1- FORMUL 10 HOH *361(H2 O) HELIX 1 1 SER A 14 TYR A 32 1 19 HELIX 2 2 ILE A 34 ASN A 51 1 18 HELIX 3 3 MET B 1 ARG B 4 5 4 HELIX 4 4 SER B 14 TYR B 32 1 19 HELIX 5 5 ILE B 34 ASN B 51 1 18 HELIX 6 6 SER C 14 TYR C 32 1 19 HELIX 7 7 ILE C 34 ASN C 51 1 18 HELIX 8 8 SER D 14 TYR D 32 1 19 HELIX 9 9 ILE D 34 ASN D 51 1 18 SHEET 1 AA 5 ALA A 6 MET A 13 0 SHEET 2 AA 5 HIS A 72 LEU A 78 -1 O PHE A 73 N ASP A 12 SHEET 3 AA 5 VAL A 81 LYS A 87 -1 O VAL A 81 N LEU A 78 SHEET 4 AA 5 TRP A 54 VAL A 66 -1 O HIS A 55 N PHE A 86 SHEET 5 AA 5 ARG E 2 GLN E 5 1 O ARG E 2 N VAL A 66 SHEET 1 AB 6 ALA A 6 MET A 13 0 SHEET 2 AB 6 HIS A 72 LEU A 78 -1 O PHE A 73 N ASP A 12 SHEET 3 AB 6 VAL A 81 LYS A 87 -1 O VAL A 81 N LEU A 78 SHEET 4 AB 6 TRP A 54 VAL A 66 -1 O HIS A 55 N PHE A 86 SHEET 5 AB 6 TRP C 54 VAL C 66 -1 O CYS C 56 N TYR A 65 SHEET 6 AB 6 ARG G 2 GLN G 5 1 O ARG G 2 N VAL C 66 SHEET 1 CA 5 ALA C 6 MET C 13 0 SHEET 2 CA 5 HIS C 72 LEU C 78 -1 O PHE C 73 N ASP C 12 SHEET 3 CA 5 VAL C 81 LYS C 87 -1 O VAL C 81 N LEU C 78 SHEET 4 CA 5 TRP C 54 VAL C 66 -1 O HIS C 55 N PHE C 86 SHEET 5 CA 5 ARG G 2 GLN G 5 1 O ARG G 2 N VAL C 66 SHEET 1 AC 8 ALA A 6 MET A 13 0 SHEET 2 AC 8 HIS A 72 LEU A 78 -1 O PHE A 73 N ASP A 12 SHEET 3 AC 8 VAL A 81 LYS A 87 -1 O VAL A 81 N LEU A 78 SHEET 4 AC 8 TRP A 54 VAL A 66 -1 O HIS A 55 N PHE A 86 SHEET 5 AC 8 TRP C 54 VAL C 66 -1 O CYS C 56 N TYR A 65 SHEET 6 AC 8 VAL C 81 LYS C 87 -1 O ALA C 82 N GLY C 59 SHEET 7 AC 8 HIS C 72 LEU C 78 -1 O HIS C 72 N LYS C 87 SHEET 8 AC 8 ALA C 6 MET C 13 -1 O VAL C 7 N TYR C 77 SHEET 1 CB 6 ALA C 6 MET C 13 0 SHEET 2 CB 6 HIS C 72 LEU C 78 -1 O PHE C 73 N ASP C 12 SHEET 3 CB 6 VAL C 81 LYS C 87 -1 O VAL C 81 N LEU C 78 SHEET 4 CB 6 TRP C 54 VAL C 66 -1 O HIS C 55 N PHE C 86 SHEET 5 CB 6 TRP A 54 VAL A 66 -1 O CYS A 56 N TYR C 65 SHEET 6 CB 6 ARG E 2 GLN E 5 1 O ARG E 2 N VAL A 66 SHEET 1 BA 4 ALA B 6 MET B 13 0 SHEET 2 BA 4 HIS B 72 LEU B 78 -1 O PHE B 73 N ASP B 12 SHEET 3 BA 4 VAL B 81 LYS B 87 -1 O VAL B 81 N LEU B 78 SHEET 4 BA 4 TRP B 54 GLY B 59 -1 O HIS B 55 N PHE B 86 SHEET 1 BB 2 GLY B 63 VAL B 66 0 SHEET 2 BB 2 ARG F 2 GLN F 5 -1 O ARG F 2 N VAL B 66 SHEET 1 DA 4 VAL D 7 MET D 13 0 SHEET 2 DA 4 HIS D 72 LEU D 78 -1 O PHE D 73 N ASP D 12 SHEET 3 DA 4 VAL D 81 LYS D 87 -1 O VAL D 81 N LEU D 78 SHEET 4 DA 4 TRP D 54 GLY D 59 -1 O HIS D 55 N PHE D 86 SHEET 1 DB 2 GLY D 63 VAL D 66 0 SHEET 2 DB 2 ARG H 2 GLN H 5 -1 O ARG H 2 N VAL D 66 LINK C SAC E 1 N ARG E 2 1555 1555 1.34 LINK C SAC F 1 N ARG F 2 1555 1555 1.28 LINK C SAC G 1 N ARG G 2 1555 1555 1.33 LINK C SAC H 1 N ARG H 2 1555 1555 1.31 CISPEP 1 PRO A 52 THR A 53 0 11.89 CISPEP 2 PRO B 52 THR B 53 0 6.99 CISPEP 3 PRO C 52 THR C 53 0 6.40 CISPEP 4 LYS D 5 ALA D 6 0 0.78 CISPEP 5 PRO D 52 THR D 53 0 3.15 SITE 1 AC1 3 ASN B 33 GLU B 35 ILE B 38 CRYST1 35.600 64.000 151.840 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 0.028090 0.000000 0.000000 0.00000 SCALE2 0.000000 0.015625 0.000000 0.00000 SCALE3 0.000000 0.000000 0.006586 0.00000 MTRIX1 1 -0.717000 0.317400 -0.620700 48.24000 1 MTRIX2 1 -0.321600 -0.940500 -0.109600 53.32000 1 MTRIX3 1 -0.618500 0.121000 0.776400 28.93000 1 MTRIX1 2 0.945400 -0.320200 0.060790 12.75000 1 MTRIX2 2 -0.320000 -0.947300 -0.013080 87.97000 1 MTRIX3 2 0.061780 -0.007088 -0.998100 53.75000 1 MTRIX1 3 -0.626900 -0.610600 0.483900 73.72000 1 MTRIX2 3 0.545600 -0.787400 -0.286900 37.13000 1 MTRIX3 3 0.556200 0.084180 0.826800 14.90000 1