PDB Short entry for 2E2X HEADER SIGNALING PROTEIN 18-NOV-06 2E2X TITLE SEC14 HOMOLOGY MODULE OF NEUROFIBROMIN IN COMPLEX WITH TITLE 2 PHOSPHATITYLETHANOLAMINE COMPND MOL_ID: 1; COMPND 2 MOLECULE: NEUROFIBROMIN; COMPND 3 CHAIN: A, B; COMPND 4 FRAGMENT: NF1; COMPND 5 SYNONYM: NEUROFIBROMIN SEC-PH SEGMENT, NEUROFIBROMATOSIS-RELATED COMPND 6 PROTEIN NF-1; COMPND 7 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 BL21(DE3); 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 KEYWDS SEC14, PH SUPERFOLD, PE, CRAL-TRIO DOMAIN, SIGNALING PROTEIN EXPDTA X-RAY DIFFRACTION AUTHOR I.D'ANGELO,S.WELTI,K.SCHEFFZEK REVDAT 3 25-OCT-23 2E2X 1 SEQADV REVDAT 2 24-FEB-09 2E2X 1 VERSN REVDAT 1 02-OCT-07 2E2X 0 JRNL AUTH S.WELTI,S.FRATERMAN,I.D'ANGELO,M.WILM,K.SCHEFFZEK JRNL TITL THE SEC14 HOMOLOGY MODULE OF NEUROFIBROMIN BINDS CELLULAR JRNL TITL 2 GLYCEROPHOSPHOLIPIDS: MASS SPECTROMETRY AND STRUCTURE OF A JRNL TITL 3 LIPID COMPLEX JRNL REF J.MOL.BIOL. V. 366 551 2007 JRNL REFN ISSN 0022-2836 JRNL PMID 17187824 JRNL DOI 10.1016/J.JMB.2006.11.055 REMARK 1 REMARK 1 REFERENCE 1 REMARK 1 AUTH I.D'ANGELO,S.WELTI,F.BONNEAU,K.SCHEFFZEK REMARK 1 TITL A NOVEL BIPARTITE PHOSPHOLIPID-BINDING MODULE IN THE REMARK 1 TITL 2 NEUROFIBROMATOSIS TYPE 1 PROTEIN REMARK 1 REF EMBO REP. V. 7 174 2006 REMARK 1 REFN ISSN 1469-221X REMARK 1 PMID 16397625 REMARK 1 DOI 10.1038/SJ.EMBOR.7400602 REMARK 2 REMARK 2 RESOLUTION. 2.50 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.0 REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN REMARK 3 REMARK 3 REFINEMENT TARGET : ENGH & HUBER REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.50 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 15.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : NULL REMARK 3 NUMBER OF REFLECTIONS : 49260 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) : 0.260 REMARK 3 R VALUE (WORKING SET) : 0.254 REMARK 3 FREE R VALUE : 0.283 REMARK 3 FREE R VALUE TEST SET SIZE (%) : NULL REMARK 3 FREE R VALUE TEST SET COUNT : 2411 REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : NULL REMARK 3 BIN RESOLUTION RANGE HIGH (A) : NULL REMARK 3 BIN RESOLUTION RANGE LOW (A) : NULL REMARK 3 REFLECTION IN BIN (WORKING SET) : NULL REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : NULL REMARK 3 BIN R VALUE (WORKING SET) : NULL REMARK 3 BIN FREE R VALUE SET COUNT : NULL REMARK 3 BIN FREE R VALUE : NULL REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 4028 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 116 REMARK 3 SOLVENT ATOMS : 74 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : NULL REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : NULL REMARK 3 B22 (A**2) : NULL REMARK 3 B33 (A**2) : NULL REMARK 3 B12 (A**2) : NULL REMARK 3 B13 (A**2) : NULL REMARK 3 B23 (A**2) : NULL 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): NULL REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): NULL REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): NULL REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : NULL REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : NULL REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): NULL ; NULL ; NULL REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): NULL ; NULL ; NULL REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): NULL ; NULL ; NULL REMARK 3 GENERAL PLANES REFINED ATOMS (A): NULL ; NULL ; NULL 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 : NULL REMARK 3 PARAMETERS FOR MASK CALCULATION REMARK 3 VDW PROBE RADIUS : NULL REMARK 3 ION PROBE RADIUS : NULL REMARK 3 SHRINKAGE RADIUS : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 2E2X COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 30-NOV-06. REMARK 100 THE DEPOSITION ID IS D_1000026157. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 06-FEB-05 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 6 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : ESRF REMARK 200 BEAMLINE : ID14-4 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9537 REMARK 200 MONOCHROMATOR : THREE DIAMOND + KHOZU 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 : SCALA REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 52887 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.500 REMARK 200 RESOLUTION RANGE LOW (A) : 15.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 97.9 REMARK 200 DATA REDUNDANCY : NULL REMARK 200 R MERGE (I) : 0.07000 REMARK 200 R SYM (I) : 0.15200 REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : NULL REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.50 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.60 REMARK 200 COMPLETENESS FOR SHELL (%) : 95.3 REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : 0.33400 REMARK 200 <I/SIGMA(I)> FOR SHELL : 4.100 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: CNS REMARK 200 STARTING MODEL: PDB ENTRY 2D4Q REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 57.70 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.91 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 5% PEG 4000, 0.25M NAPP, MES, PH 6, REMARK 280 VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 291K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 41 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+1/4 REMARK 290 4555 Y+1/2,-X+1/2,Z+3/4 REMARK 290 5555 -X+1/2,Y+1/2,-Z+1/4 REMARK 290 6555 X+1/2,-Y+1/2,-Z+3/4 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 60.95000 REMARK 290 SMTRY1 3 0.000000 -1.000000 0.000000 55.05000 REMARK 290 SMTRY2 3 1.000000 0.000000 0.000000 55.05000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 30.47500 REMARK 290 SMTRY1 4 0.000000 1.000000 0.000000 55.05000 REMARK 290 SMTRY2 4 -1.000000 0.000000 0.000000 55.05000 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 91.42500 REMARK 290 SMTRY1 5 -1.000000 0.000000 0.000000 55.05000 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 55.05000 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 30.47500 REMARK 290 SMTRY1 6 1.000000 0.000000 0.000000 55.05000 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 55.05000 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 91.42500 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 60.95000 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: DIMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 375 REMARK 375 SPECIAL POSITION REMARK 375 THE FOLLOWING ATOMS ARE FOUND TO BE WITHIN 0.15 ANGSTROMS REMARK 375 OF A SYMMETRY RELATED ATOM AND ARE ASSUMED TO BE ON SPECIAL REMARK 375 POSITIONS. REMARK 375 REMARK 375 ATOM RES CSSEQI REMARK 375 HOH A1821 LIES ON A SPECIAL POSITION. REMARK 375 HOH B1845 LIES ON A SPECIAL POSITION. 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 1540 REMARK 465 ALA A 1541 REMARK 465 MET A 1542 REMARK 465 THR A 1543 REMARK 465 GLY A 1544 REMARK 465 SER A 1545 REMARK 465 SER A 1546 REMARK 465 LYS A 1547 REMARK 465 PHE A 1548 REMARK 465 GLU A 1549 REMARK 465 GLU A 1550 REMARK 465 PHE A 1551 REMARK 465 MET A 1552 REMARK 465 THR A 1553 REMARK 465 ARG A 1554 REMARK 465 HIS A 1555 REMARK 465 GLN A 1556 REMARK 465 VAL A 1557 REMARK 465 HIS A 1558 REMARK 465 GLU A 1559 REMARK 465 LYS A 1560 REMARK 465 GLU A 1561 REMARK 465 GLU A 1562 REMARK 465 PHE A 1563 REMARK 465 LYS A 1564 REMARK 465 ALA A 1565 REMARK 465 LEU A 1566 REMARK 465 GLY B 1540 REMARK 465 ALA B 1541 REMARK 465 MET B 1542 REMARK 465 THR B 1543 REMARK 465 GLY B 1544 REMARK 465 SER B 1545 REMARK 465 SER B 1546 REMARK 465 LYS B 1547 REMARK 465 PHE B 1548 REMARK 465 GLU B 1549 REMARK 465 GLU B 1550 REMARK 465 PHE B 1551 REMARK 465 MET B 1552 REMARK 465 THR B 1553 REMARK 465 ARG B 1554 REMARK 465 HIS B 1555 REMARK 465 GLN B 1556 REMARK 465 VAL B 1557 REMARK 465 HIS B 1558 REMARK 465 GLU B 1559 REMARK 465 LYS B 1560 REMARK 465 GLU B 1561 REMARK 465 GLU B 1562 REMARK 465 PHE B 1563 REMARK 465 LYS B 1564 REMARK 465 ALA B 1565 REMARK 465 LEU B 1566 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 A1567 CG CD CE NZ REMARK 470 THR A1568 OG1 CG2 REMARK 470 LEU A1569 CG CD1 CD2 REMARK 470 LYS B1567 CG CD CE NZ REMARK 470 LEU B1569 CG CD1 CD2 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 LYS B 1593 ND2 ASN B 1598 1.97 REMARK 500 O2P PEV B 500 O HOH B 1829 2.06 REMARK 500 CE1 TYR B 1668 C26 PEV B 500 2.08 REMARK 500 O CYS B 1690 N LYS B 1693 2.10 REMARK 500 CD1 ILE B 1620 C13 PEV B 500 2.13 REMARK 500 OD1 ASP A 1623 OG1 THR A 1709 2.15 REMARK 500 O CYS B 1690 N GLY B 1692 2.15 REMARK 500 CE1 TYR A 1668 C26 PEV A 400 2.16 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 GLN B1596 CG GLN B1596 CD 0.145 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 B1595 CA - C - N ANGL. DEV. = -14.3 DEGREES REMARK 500 ASP B1600 C - N - CA ANGL. DEV. = -21.9 DEGREES REMARK 500 PRO B1691 C - N - CA ANGL. DEV. = 12.1 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 THR A1568 45.50 -155.30 REMARK 500 ALA A1575 113.17 -166.53 REMARK 500 GLN A1596 -111.18 89.02 REMARK 500 ILE A1597 77.08 -52.57 REMARK 500 HIS A1626 28.35 49.54 REMARK 500 VAL A1643 5.78 -150.59 REMARK 500 GLU A1699 96.41 -53.57 REMARK 500 LYS A1704 45.47 -108.53 REMARK 500 ALA A1726 -168.70 -164.77 REMARK 500 GLN B1596 -99.14 -26.77 REMARK 500 TYR B1614 8.27 -58.36 REMARK 500 HIS B1626 15.63 56.78 REMARK 500 VAL B1643 -32.81 -132.74 REMARK 500 PRO B1691 -21.59 -20.06 REMARK 500 ALA B1726 -162.11 -174.25 REMARK 500 GLU B1768 -79.53 -76.82 REMARK 500 ASP B1774 -168.37 -176.36 REMARK 500 HIS B1793 149.45 -171.32 REMARK 500 GLU B1795 38.52 -85.48 REMARK 500 TRP B1810 -73.09 -64.95 REMARK 500 LEU B1812 34.72 -80.16 REMARK 500 SER B1813 12.45 -165.45 REMARK 500 REMARK 500 REMARK: NULL REMARK 615 REMARK 615 ZERO OCCUPANCY ATOM REMARK 615 THE FOLLOWING RESIDUES HAVE ATOMS MODELED WITH ZERO REMARK 615 OCCUPANCY. THE LOCATION AND PROPERTIES OF THESE ATOMS REMARK 615 MAY NOT BE RELIABLE. (M=MODEL NUMBER; RES=RESIDUE NAME; REMARK 615 C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE): REMARK 615 M RES C SSEQI REMARK 615 PEV A 400 REMARK 615 PEV B 500 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 2D4Q RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF THE SEC-PH SEGMENT OF NEUROFIBROMIN IN COMPLEX REMARK 900 WITH DETERGENT DBREF 2E2X A 1545 1816 UNP P21359 NF1_HUMAN 1566 1837 DBREF 2E2X B 1545 1816 UNP P21359 NF1_HUMAN 1566 1837 SEQADV 2E2X GLY A 1540 UNP P21359 EXPRESSION TAG SEQADV 2E2X ALA A 1541 UNP P21359 EXPRESSION TAG SEQADV 2E2X MET A 1542 UNP P21359 EXPRESSION TAG SEQADV 2E2X THR A 1543 UNP P21359 EXPRESSION TAG SEQADV 2E2X GLY A 1544 UNP P21359 EXPRESSION TAG SEQADV 2E2X GLY B 1540 UNP P21359 EXPRESSION TAG SEQADV 2E2X ALA B 1541 UNP P21359 EXPRESSION TAG SEQADV 2E2X MET B 1542 UNP P21359 EXPRESSION TAG SEQADV 2E2X THR B 1543 UNP P21359 EXPRESSION TAG SEQADV 2E2X GLY B 1544 UNP P21359 EXPRESSION TAG SEQRES 1 A 277 GLY ALA MET THR GLY SER SER LYS PHE GLU GLU PHE MET SEQRES 2 A 277 THR ARG HIS GLN VAL HIS GLU LYS GLU GLU PHE LYS ALA SEQRES 3 A 277 LEU LYS THR LEU SER ILE PHE TYR GLN ALA GLY THR SER SEQRES 4 A 277 LYS ALA GLY ASN PRO ILE PHE TYR TYR VAL ALA ARG ARG SEQRES 5 A 277 PHE LYS THR GLY GLN ILE ASN GLY ASP LEU LEU ILE TYR SEQRES 6 A 277 HIS VAL LEU LEU THR LEU LYS PRO TYR TYR ALA LYS PRO SEQRES 7 A 277 TYR GLU ILE VAL VAL ASP LEU THR HIS THR GLY PRO SER SEQRES 8 A 277 ASN ARG PHE LYS THR ASP PHE LEU SER LYS TRP PHE VAL SEQRES 9 A 277 VAL PHE PRO GLY PHE ALA TYR ASP ASN VAL SER ALA VAL SEQRES 10 A 277 TYR ILE TYR ASN CYS ASN SER TRP VAL ARG GLU TYR THR SEQRES 11 A 277 LYS TYR HIS GLU ARG LEU LEU THR GLY LEU LYS GLY SER SEQRES 12 A 277 LYS ARG LEU VAL PHE ILE ASP CYS PRO GLY LYS LEU ALA SEQRES 13 A 277 GLU HIS ILE GLU HIS GLU GLN GLN LYS LEU PRO ALA ALA SEQRES 14 A 277 THR LEU ALA LEU GLU GLU ASP LEU LYS VAL PHE HIS ASN SEQRES 15 A 277 ALA LEU LYS LEU ALA HIS LYS ASP THR LYS VAL SER ILE SEQRES 16 A 277 LYS VAL GLY SER THR ALA VAL GLN VAL THR SER ALA GLU SEQRES 17 A 277 ARG THR LYS VAL LEU GLY GLN SER VAL PHE LEU ASN ASP SEQRES 18 A 277 ILE TYR TYR ALA SER GLU ILE GLU GLU ILE CYS LEU VAL SEQRES 19 A 277 ASP GLU ASN GLN PHE THR LEU THR ILE ALA ASN GLN GLY SEQRES 20 A 277 THR PRO LEU THR PHE MET HIS GLN GLU CYS GLU ALA ILE SEQRES 21 A 277 VAL GLN SER ILE ILE HIS ILE ARG THR ARG TRP GLU LEU SEQRES 22 A 277 SER GLN PRO ASP SEQRES 1 B 277 GLY ALA MET THR GLY SER SER LYS PHE GLU GLU PHE MET SEQRES 2 B 277 THR ARG HIS GLN VAL HIS GLU LYS GLU GLU PHE LYS ALA SEQRES 3 B 277 LEU LYS THR LEU SER ILE PHE TYR GLN ALA GLY THR SER SEQRES 4 B 277 LYS ALA GLY ASN PRO ILE PHE TYR TYR VAL ALA ARG ARG SEQRES 5 B 277 PHE LYS THR GLY GLN ILE ASN GLY ASP LEU LEU ILE TYR SEQRES 6 B 277 HIS VAL LEU LEU THR LEU LYS PRO TYR TYR ALA LYS PRO SEQRES 7 B 277 TYR GLU ILE VAL VAL ASP LEU THR HIS THR GLY PRO SER SEQRES 8 B 277 ASN ARG PHE LYS THR ASP PHE LEU SER LYS TRP PHE VAL SEQRES 9 B 277 VAL PHE PRO GLY PHE ALA TYR ASP ASN VAL SER ALA VAL SEQRES 10 B 277 TYR ILE TYR ASN CYS ASN SER TRP VAL ARG GLU TYR THR SEQRES 11 B 277 LYS TYR HIS GLU ARG LEU LEU THR GLY LEU LYS GLY SER SEQRES 12 B 277 LYS ARG LEU VAL PHE ILE ASP CYS PRO GLY LYS LEU ALA SEQRES 13 B 277 GLU HIS ILE GLU HIS GLU GLN GLN LYS LEU PRO ALA ALA SEQRES 14 B 277 THR LEU ALA LEU GLU GLU ASP LEU LYS VAL PHE HIS ASN SEQRES 15 B 277 ALA LEU LYS LEU ALA HIS LYS ASP THR LYS VAL SER ILE SEQRES 16 B 277 LYS VAL GLY SER THR ALA VAL GLN VAL THR SER ALA GLU SEQRES 17 B 277 ARG THR LYS VAL LEU GLY GLN SER VAL PHE LEU ASN ASP SEQRES 18 B 277 ILE TYR TYR ALA SER GLU ILE GLU GLU ILE CYS LEU VAL SEQRES 19 B 277 ASP GLU ASN GLN PHE THR LEU THR ILE ALA ASN GLN GLY SEQRES 20 B 277 THR PRO LEU THR PHE MET HIS GLN GLU CYS GLU ALA ILE SEQRES 21 B 277 VAL GLN SER ILE ILE HIS ILE ARG THR ARG TRP GLU LEU SEQRES 22 B 277 SER GLN PRO ASP HET PEV A 400 49 HET PEV B 500 49 HET POP B 601 9 HET POP B 602 9 HETNAM PEV (1S)-2-{[(2-AMINOETHOXY)(HYDROXY)PHOSPHORYL]OXY}-1- HETNAM 2 PEV [(PALMITOYLOXY)METHYL]ETHYL STEARATE HETNAM POP PYROPHOSPHATE 2- HETSYN PEV PHOSPHATIDYLETHANOLAMINE; 1-PALMITOYL-2-OLEOYL-SN- HETSYN 2 PEV GLYCERO-3-PHOSPHOETHANOLAMINE FORMUL 3 PEV 2(C39 H78 N O8 P) FORMUL 5 POP 2(H2 O7 P2 2-) FORMUL 7 HOH *74(H2 O) HELIX 1 1 ASN A 1598 ALA A 1615 1 18 HELIX 2 2 GLY A 1628 ARG A 1632 5 5 HELIX 3 3 LYS A 1634 TRP A 1641 1 8 HELIX 4 4 PRO A 1646 ASN A 1652 1 7 HELIX 5 5 ASN A 1662 HIS A 1672 1 11 HELIX 6 6 LEU A 1675 LYS A 1680 5 6 HELIX 7 7 CYS A 1690 GLU A 1696 1 7 HELIX 8 8 HIS A 1697 GLN A 1702 5 6 HELIX 9 9 PRO A 1706 LEU A 1712 1 7 HELIX 10 10 GLU A 1795 SER A 1813 1 19 HELIX 11 11 LYS B 1567 SER B 1570 5 4 HELIX 12 12 ARG B 1590 PHE B 1592 5 3 HELIX 13 13 GLY B 1595 LYS B 1611 1 17 HELIX 14 14 GLY B 1628 ARG B 1632 5 5 HELIX 15 15 LYS B 1634 SER B 1639 1 6 HELIX 16 16 LYS B 1640 VAL B 1643 5 4 HELIX 17 17 PRO B 1646 ASN B 1652 1 7 HELIX 18 18 ASN B 1662 HIS B 1672 1 11 HELIX 19 19 ARG B 1674 LEU B 1679 5 6 HELIX 20 20 GLY B 1692 HIS B 1697 5 6 HELIX 21 21 GLU B 1699 GLN B 1703 5 5 HELIX 22 22 PRO B 1706 LEU B 1712 1 7 HELIX 23 23 GLU B 1795 LEU B 1812 1 18 SHEET 1 A 5 PHE A1572 THR A1577 0 SHEET 2 A 5 PRO A1583 VAL A1588 -1 O TYR A1586 N TYR A1573 SHEET 3 A 5 TYR A1618 ASP A1623 1 O VAL A1621 N PHE A1585 SHEET 4 A 5 VAL A1653 TYR A1659 1 O TYR A1657 N VAL A1622 SHEET 5 A 5 LEU A1685 ILE A1688 1 O ILE A1688 N ILE A1658 SHEET 1 B 7 ASN A1759 TYR A1763 0 SHEET 2 B 7 ALA A1740 SER A1745 -1 N VAL A1741 O TYR A1762 SHEET 3 B 7 THR A1730 GLY A1737 -1 N GLY A1737 O ALA A1740 SHEET 4 B 7 LEU A1716 LEU A1725 -1 N LYS A1724 O THR A1730 SHEET 5 B 7 LEU A1789 MET A1792 -1 O MET A1792 N LEU A1723 SHEET 6 B 7 GLN A1777 ILE A1782 -1 N LEU A1780 O LEU A1789 SHEET 7 B 7 ILE A1767 ASP A1774 -1 N CYS A1771 O THR A1779 SHEET 1 C 2 THR A1749 VAL A1751 0 SHEET 2 C 2 GLN A1754 VAL A1756 -1 O VAL A1756 N THR A1749 SHEET 1 D 5 PHE B1572 THR B1577 0 SHEET 2 D 5 PRO B1583 VAL B1588 -1 O TYR B1586 N TYR B1573 SHEET 3 D 5 TYR B1618 ASP B1623 1 O ASP B1623 N TYR B1587 SHEET 4 D 5 VAL B1653 TYR B1659 1 O TYR B1657 N VAL B1622 SHEET 5 D 5 LEU B1685 ILE B1688 1 O VAL B1686 N ILE B1658 SHEET 1 E 7 ASN B1759 TYR B1763 0 SHEET 2 E 7 ALA B1740 SER B1745 -1 N VAL B1741 O TYR B1762 SHEET 3 E 7 THR B1730 GLY B1737 -1 N GLY B1737 O ALA B1740 SHEET 4 E 7 LYS B1717 LEU B1725 -1 N LYS B1717 O VAL B1736 SHEET 5 E 7 GLN B1785 MET B1792 -1 O MET B1792 N LEU B1723 SHEET 6 E 7 GLN B1777 ILE B1782 -1 N LEU B1780 O LEU B1789 SHEET 7 E 7 ILE B1767 ASP B1774 -1 N CYS B1771 O THR B1779 SHEET 1 F 2 THR B1749 VAL B1751 0 SHEET 2 F 2 GLN B1754 VAL B1756 -1 O VAL B1756 N THR B1749 CRYST1 110.100 110.100 121.900 90.00 90.00 90.00 P 41 21 2 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 0.009083 0.000000 0.000000 0.00000 SCALE2 0.000000 0.009083 0.000000 0.00000 SCALE3 0.000000 0.000000 0.008203 0.00000