HEADER IMMUNE SYSTEM 23-FEB-17 5N88 TITLE CRYSTAL STRUCTURE OF ANTIBODY BOUND TO VIRAL PROTEIN COMPND MOL_ID: 1; COMPND 2 MOLECULE: VH59 ANTIBODY; COMPND 3 CHAIN: H, A; COMPND 4 ENGINEERED: YES; COMPND 5 MOL_ID: 2; COMPND 6 MOLECULE: PC4 AND SFRS1-INTERACTING PROTEIN; COMPND 7 CHAIN: D; COMPND 8 SYNONYM: CLL-ASSOCIATED ANTIGEN KW-7,DENSE FINE SPECKLES 70 KDA COMPND 9 PROTEIN,DFS 70,LENS EPITHELIUM-DERIVED GROWTH FACTOR,TRANSCRIPTIONAL COMPND 10 COACTIVATOR P75/P52; COMPND 11 ENGINEERED: YES; COMPND 12 MOL_ID: 3; COMPND 13 MOLECULE: PC4 AND SFRS1-INTERACTING PROTEIN; COMPND 14 CHAIN: E; COMPND 15 SYNONYM: CLL-ASSOCIATED ANTIGEN KW-7,DENSE FINE SPECKLES 70 KDA COMPND 16 PROTEIN,DFS 70,LENS EPITHELIUM-DERIVED GROWTH FACTOR,TRANSCRIPTIONAL COMPND 17 COACTIVATOR P75/P52; COMPND 18 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 3 ORGANISM_COMMON: HUMAN; SOURCE 4 ORGANISM_TAXID: 9606; SOURCE 5 GENE: PSIP1; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 7 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 8 EXPRESSION_SYSTEM_VARIANT: C41; SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PRK-172; SOURCE 11 MOL_ID: 2; SOURCE 12 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 13 ORGANISM_COMMON: HUMAN; SOURCE 14 ORGANISM_TAXID: 9606; SOURCE 15 GENE: PSIP1, DFS70, LEDGF, PSIP2; SOURCE 16 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 17 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 18 EXPRESSION_SYSTEM_VARIANT: C41; SOURCE 19 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 20 EXPRESSION_SYSTEM_PLASMID: PRK-172; SOURCE 21 MOL_ID: 3; SOURCE 22 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 23 ORGANISM_COMMON: HUMAN; SOURCE 24 ORGANISM_TAXID: 9606; SOURCE 25 GENE: PSIP1, DFS70, LEDGF, PSIP2; SOURCE 26 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 27 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 28 EXPRESSION_SYSTEM_VARIANT: C41; SOURCE 29 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 30 EXPRESSION_SYSTEM_PLASMID: PRK-172 KEYWDS MLL: HIV: INTRACELLULAR ANTIBODY: INTEGRASE: LEDGF, AIDS, IMMUNE KEYWDS 2 SYSTEM EXPDTA X-RAY DIFFRACTION AUTHOR L.BAO,C.HANNON,A.CRUZ-MIGONI,D.PTCHELKINE,M.-Y.SUN,M.DERVENI, AUTHOR 2 W.BUNJOBPOL,J.S.CHAMBERS,A.SIMMONS,S.E.V.PHILLIPS,T.H.RABBITTS REVDAT 3 16-OCT-19 5N88 1 REMARK REVDAT 2 27-DEC-17 5N88 1 REMARK REVDAT 1 20-DEC-17 5N88 0 JRNL AUTH L.BAO,C.HANNON,A.CRUZ-MIGNONI,D.PTCHELKINE,M.Y.SUN,A.MILLER, JRNL AUTH 2 W.BUNJOBPOL,C.E.QUEVEDO,M.DERVENI,J.CHAMBERS,A.SIMMONS, JRNL AUTH 3 S.E.V.PHILLIPS,T.H.RABBITTS JRNL TITL INTRACELLULAR IMMUNIZATION AGAINST HIV INFECTION WITH AN JRNL TITL 2 INTRACELLULAR ANTIBODY THAT MIMICS HIV INTEGRASE BINDING TO JRNL TITL 3 THE CELLULAR LEDGF PROTEIN. JRNL REF SCI REP V. 7 16869 2017 JRNL REFN ESSN 2045-2322 JRNL PMID 29203900 JRNL DOI 10.1038/S41598-017-16742-2 REMARK 2 REMARK 2 RESOLUTION. 1.70 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.8.0155 REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN REMARK 3 REMARK 3 REFINEMENT TARGET : NULL REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.70 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 14.92 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 88.3 REMARK 3 NUMBER OF REFLECTIONS : 28647 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) : 0.191 REMARK 3 R VALUE (WORKING SET) : 0.188 REMARK 3 FREE R VALUE : 0.252 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.200 REMARK 3 FREE R VALUE TEST SET COUNT : 1562 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) : 1.70 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.74 REMARK 3 REFLECTION IN BIN (WORKING SET) : 2162 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 90.81 REMARK 3 BIN R VALUE (WORKING SET) : 0.2510 REMARK 3 BIN FREE R VALUE SET COUNT : 121 REMARK 3 BIN FREE R VALUE : 0.2760 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 3252 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 0 REMARK 3 SOLVENT ATOMS : 320 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 20.01 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.00000 REMARK 3 B22 (A**2) : 0.00000 REMARK 3 B33 (A**2) : 0.00000 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): 0.169 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.160 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.108 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 3.290 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.950 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.911 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 3320 ; 0.018 ; 0.019 REMARK 3 BOND LENGTHS OTHERS (A): 3180 ; 0.002 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 4475 ; 1.933 ; 1.952 REMARK 3 BOND ANGLES OTHERS (DEGREES): 7307 ; 1.077 ; 3.001 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 413 ; 6.673 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 147 ;36.566 ;23.741 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 615 ;15.708 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 24 ;16.689 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 499 ; 0.114 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 3742 ; 0.009 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 786 ; 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): 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 : NULL 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: REFMAC5 REMARK 4 REMARK 4 5N88 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 24-FEB-17. REMARK 100 THE DEPOSITION ID IS D_1200003661. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 29-APR-13 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 8.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : DIAMOND REMARK 200 BEAMLINE : I04-1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9795 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS 6M-F REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : AIMLESS REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 115544 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.700 REMARK 200 RESOLUTION RANGE LOW (A) : 15.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 90.4 REMARK 200 DATA REDUNDANCY : 3.730 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 2.9000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : NULL REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : NULL REMARK 200 COMPLETENESS FOR SHELL (%) : NULL REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : NULL REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHASER, PHASER REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 28.83 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 1.73 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 25.0% PEG 3350, 10MM TRIS PH8.5, VAPOR REMARK 280 DIFFUSION, TEMPERATURE 277K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,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 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: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 1390 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 10350 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -11.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: H, E REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 350 REMARK 350 BIOMOLECULE: 2 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 1340 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 10270 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -13.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: D, 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 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 O HOH H 234 O HOH H 275 1.78 REMARK 500 O HOH H 216 O HOH H 279 1.82 REMARK 500 O HOH E 561 O HOH E 579 1.89 REMARK 500 SD MET E 413 O HOH E 563 1.92 REMARK 500 NZ LYS E 360 O HOH E 501 2.00 REMARK 500 O HOH D 506 O HOH D 550 2.03 REMARK 500 O HOH D 506 O HOH D 536 2.06 REMARK 500 O HOH E 574 O HOH E 578 2.12 REMARK 500 O HOH H 272 O HOH H 292 2.14 REMARK 500 O HOH D 524 O HOH D 558 2.16 REMARK 500 NH1 ARG A 67 O HOH A 201 2.18 REMARK 500 O PHE H 111 O HOH H 201 2.19 REMARK 500 O HOH D 537 O HOH D 545 2.19 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 O HOH H 285 O HOH D 536 1455 1.83 REMARK 500 O HOH H 252 O HOH D 538 1455 1.90 REMARK 500 O HOH A 270 O HOH E 519 1464 2.07 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 ASP H 62 CB - CG - OD1 ANGL. DEV. = 6.5 DEGREES REMARK 500 ARG A 19 NE - CZ - NH2 ANGL. DEV. = 3.2 DEGREES REMARK 500 ARG A 98 NE - CZ - NH2 ANGL. DEV. = 3.0 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 E 367 65.53 -158.95 REMARK 500 HIS E 393 54.77 -103.62 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 H 293 DISTANCE = 7.57 ANGSTROMS DBREF 5N88 H 1 126 PDB 5N88 5N88 1 126 DBREF 5N88 D 347 425 UNP O75475 PSIP1_HUMAN 347 425 DBREF 5N88 A 1 126 PDB 5N88 5N88 1 126 DBREF 5N88 E 347 424 UNP O75475 PSIP1_HUMAN 347 424 SEQADV 5N88 GLY E 345 UNP O75475 EXPRESSION TAG SEQADV 5N88 SER E 346 UNP O75475 EXPRESSION TAG SEQRES 1 H 126 GLU VAL GLN LEU LEU GLU SER GLY GLY GLY LEU VAL GLN SEQRES 2 H 126 PRO GLY GLY SER LEU ARG LEU SER CYS ALA ALA SER GLY SEQRES 3 H 126 PHE THR PHE SER THR PHE SER MET ASN TRP VAL ARG GLN SEQRES 4 H 126 ALA PRO GLY LYS GLY LEU GLU TRP VAL SER TYR ILE SER SEQRES 5 H 126 ARG THR SER LYS THR ILE TYR TYR ALA ASP SER VAL LYS SEQRES 6 H 126 GLY ARG PHE THR ILE SER ARG ASP ASN SER LYS ASN THR SEQRES 7 H 126 LEU TYR LEU GLN MET ASN SER LEU ARG ALA GLU ASP THR SEQRES 8 H 126 ALA VAL TYR TYR CYS ALA ARG GLY GLY TRP ALA LEU GLY SEQRES 9 H 126 ASP GLU ILE PRO SER SER PHE LEU GLU PHE ASP TYR TRP SEQRES 10 H 126 GLY GLN GLY THR LEU VAL THR VAL SER SEQRES 1 D 79 SER MET ASP SER ARG LEU GLN ARG ILE HIS ALA GLU ILE SEQRES 2 D 79 LYS ASN SER LEU LYS ILE ASP ASN LEU ASP VAL ASN ARG SEQRES 3 D 79 CYS ILE GLU ALA LEU ASP GLU LEU ALA SER LEU GLN VAL SEQRES 4 D 79 THR MET GLN GLN ALA GLN LYS HIS THR GLU MET ILE THR SEQRES 5 D 79 THR LEU LYS LYS ILE ARG ARG PHE LYS VAL SER GLN VAL SEQRES 6 D 79 ILE MET GLU LYS SER THR MET LEU TYR ASN LYS PHE LYS SEQRES 7 D 79 ASN SEQRES 1 A 126 GLU VAL GLN LEU LEU GLU SER GLY GLY GLY LEU VAL GLN SEQRES 2 A 126 PRO GLY GLY SER LEU ARG LEU SER CYS ALA ALA SER GLY SEQRES 3 A 126 PHE THR PHE SER THR PHE SER MET ASN TRP VAL ARG GLN SEQRES 4 A 126 ALA PRO GLY LYS GLY LEU GLU TRP VAL SER TYR ILE SER SEQRES 5 A 126 ARG THR SER LYS THR ILE TYR TYR ALA ASP SER VAL LYS SEQRES 6 A 126 GLY ARG PHE THR ILE SER ARG ASP ASN SER LYS ASN THR SEQRES 7 A 126 LEU TYR LEU GLN MET ASN SER LEU ARG ALA GLU ASP THR SEQRES 8 A 126 ALA VAL TYR TYR CYS ALA ARG GLY GLY TRP ALA LEU GLY SEQRES 9 A 126 ASP GLU ILE PRO SER SER PHE LEU GLU PHE ASP TYR TRP SEQRES 10 A 126 GLY GLN GLY THR LEU VAL THR VAL SER SEQRES 1 E 80 GLY SER SER MET ASP SER ARG LEU GLN ARG ILE HIS ALA SEQRES 2 E 80 GLU ILE LYS ASN SER LEU LYS ILE ASP ASN LEU ASP VAL SEQRES 3 E 80 ASN ARG CYS ILE GLU ALA LEU ASP GLU LEU ALA SER LEU SEQRES 4 E 80 GLN VAL THR MET GLN GLN ALA GLN LYS HIS THR GLU MET SEQRES 5 E 80 ILE THR THR LEU LYS LYS ILE ARG ARG PHE LYS VAL SER SEQRES 6 E 80 GLN VAL ILE MET GLU LYS SER THR MET LEU TYR ASN LYS SEQRES 7 E 80 PHE LYS FORMUL 5 HOH *320(H2 O) HELIX 1 AA1 THR H 28 PHE H 32 5 5 HELIX 2 AA2 ASP H 62 LYS H 65 5 4 HELIX 3 AA3 ARG H 87 THR H 91 5 5 HELIX 4 AA4 SER H 110 LEU H 112 5 3 HELIX 5 AA5 MET D 348 LEU D 363 1 16 HELIX 6 AA6 ASP D 369 LEU D 383 1 15 HELIX 7 AA7 THR D 386 HIS D 393 1 8 HELIX 8 AA8 HIS D 393 ARG D 404 1 12 HELIX 9 AA9 SER D 409 ASN D 425 1 17 HELIX 10 AB1 THR A 28 PHE A 32 5 5 HELIX 11 AB2 ASP A 62 LYS A 65 5 4 HELIX 12 AB3 ASN A 74 LYS A 76 5 3 HELIX 13 AB4 ARG A 87 THR A 91 5 5 HELIX 14 AB5 SER A 110 PHE A 114 5 5 HELIX 15 AB6 SER E 346 LEU E 363 1 18 HELIX 16 AB7 ASP E 369 LEU E 383 1 15 HELIX 17 AB8 THR E 386 HIS E 393 1 8 HELIX 18 AB9 HIS E 393 ARG E 404 1 12 HELIX 19 AC1 SER E 409 LYS E 424 1 16 SHEET 1 AA1 4 GLN H 3 SER H 7 0 SHEET 2 AA1 4 LEU H 18 SER H 25 -1 O ALA H 23 N LEU H 5 SHEET 3 AA1 4 THR H 78 MET H 83 -1 O LEU H 81 N LEU H 20 SHEET 4 AA1 4 PHE H 68 ASP H 73 -1 N SER H 71 O TYR H 80 SHEET 1 AA2 6 GLY H 10 VAL H 12 0 SHEET 2 AA2 6 THR H 121 VAL H 125 1 O THR H 124 N VAL H 12 SHEET 3 AA2 6 ALA H 92 GLY H 99 -1 N TYR H 94 O THR H 121 SHEET 4 AA2 6 MET H 34 GLN H 39 -1 N VAL H 37 O TYR H 95 SHEET 5 AA2 6 LEU H 45 ILE H 51 -1 O ILE H 51 N MET H 34 SHEET 6 AA2 6 ILE H 58 TYR H 60 -1 O TYR H 59 N TYR H 50 SHEET 1 AA3 4 GLY H 10 VAL H 12 0 SHEET 2 AA3 4 THR H 121 VAL H 125 1 O THR H 124 N VAL H 12 SHEET 3 AA3 4 ALA H 92 GLY H 99 -1 N TYR H 94 O THR H 121 SHEET 4 AA3 4 PHE H 114 TRP H 117 -1 O ASP H 115 N ARG H 98 SHEET 1 AA4 4 GLN A 3 SER A 7 0 SHEET 2 AA4 4 LEU A 18 SER A 25 -1 O SER A 21 N SER A 7 SHEET 3 AA4 4 THR A 78 MET A 83 -1 O LEU A 81 N LEU A 20 SHEET 4 AA4 4 PHE A 68 ASP A 73 -1 N THR A 69 O GLN A 82 SHEET 1 AA5 6 LEU A 11 VAL A 12 0 SHEET 2 AA5 6 THR A 121 VAL A 125 1 O THR A 124 N VAL A 12 SHEET 3 AA5 6 ALA A 92 ARG A 98 -1 N TYR A 94 O THR A 121 SHEET 4 AA5 6 MET A 34 GLN A 39 -1 N VAL A 37 O TYR A 95 SHEET 5 AA5 6 GLU A 46 ILE A 51 -1 O GLU A 46 N ARG A 38 SHEET 6 AA5 6 ILE A 58 TYR A 60 -1 O TYR A 59 N TYR A 50 SHEET 1 AA6 4 LEU A 11 VAL A 12 0 SHEET 2 AA6 4 THR A 121 VAL A 125 1 O THR A 124 N VAL A 12 SHEET 3 AA6 4 ALA A 92 ARG A 98 -1 N TYR A 94 O THR A 121 SHEET 4 AA6 4 TYR A 116 TRP A 117 -1 O TYR A 116 N ARG A 98 SSBOND 1 CYS H 22 CYS H 96 1555 1555 2.20 SSBOND 2 CYS A 22 CYS A 96 1555 1555 2.11 CRYST1 35.061 41.408 58.660 104.04 96.07 100.49 P 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 0.028522 0.005283 0.004615 0.00000 SCALE2 0.000000 0.024561 0.006828 0.00000 SCALE3 0.000000 0.000000 0.017794 0.00000