PDB Short entry for 2QMS HEADER SIGNALING PROTEIN 16-JUL-07 2QMS TITLE CRYSTAL STRUCTURE OF A SIGNALING MOLECULE COMPND MOL_ID: 1; COMPND 2 MOLECULE: GROWTH FACTOR RECEPTOR-BOUND PROTEIN 7; COMPND 3 CHAIN: A, B, C, D; COMPND 4 FRAGMENT: SH2 DOMAIN (RESIDUES 415-532); COMPND 5 SYNONYM: GRB7 ADAPTER PROTEIN, EPIDERMAL GROWTH FACTOR RECEPTOR GRB- COMPND 6 7, B47; COMPND 7 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 3 ORGANISM_COMMON: HUMAN; SOURCE 4 GENE: GRB7; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_STRAIN: BL21(DE3).PLYSS; SOURCE 7 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 8 EXPRESSION_SYSTEM_PLASMID: PGEX4T2 KEYWDS SH2 DOMAIN, ALPHA/BETA FOLD, SIGNALING PROTEIN EXPDTA X-RAY DIFFRACTION AUTHOR C.J.PORTER,M.C.WILCE,J.A.WILCE REVDAT 3 21-FEB-24 2QMS 1 REMARK SEQADV REVDAT 2 24-FEB-09 2QMS 1 VERSN REVDAT 1 22-JUL-08 2QMS 0 JRNL AUTH C.J.PORTER,J.M.MATTHEWS,J.P.MACKAY,S.E.PURSGLOVE, JRNL AUTH 2 J.W.SCHMIDBERGER,P.J.LEEDMAN,S.C.PERO,D.N.KRAG,M.C.WILCE, JRNL AUTH 3 J.A.WILCE JRNL TITL GRB7 SH2 DOMAIN STRUCTURE AND INTERACTIONS WITH A CYCLIC JRNL TITL 2 PEPTIDE INHIBITOR OF CANCER CELL MIGRATION AND JRNL TITL 3 PROLIFERATION. JRNL REF BMC STRUCT.BIOL. V. 7 58 2007 JRNL REFN ESSN 1472-6807 JRNL PMID 17894853 JRNL DOI 10.1186/1472-6807-7-58 REMARK 2 REMARK 2 RESOLUTION. 2.10 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 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) : 2.10 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 30.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.2 REMARK 3 NUMBER OF REFLECTIONS : 25218 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 CROSS-VALIDATION METHOD : THROUGHOUT REMARK 3 FREE R VALUE TEST SET SELECTION : RANDOM REMARK 3 R VALUE (WORKING + TEST SET) : 0.203 REMARK 3 R VALUE (WORKING SET) : 0.201 REMARK 3 FREE R VALUE : 0.255 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 1269 REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 20 REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 2.10 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.15 REMARK 3 REFLECTION IN BIN (WORKING SET) : 1731 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 99.34 REMARK 3 BIN R VALUE (WORKING SET) : 0.2540 REMARK 3 BIN FREE R VALUE SET COUNT : 89 REMARK 3 BIN FREE R VALUE : 0.2890 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 3692 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 35 REMARK 3 SOLVENT ATOMS : 181 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 28.40 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 37.85 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.63000 REMARK 3 B22 (A**2) : -0.54000 REMARK 3 B33 (A**2) : 1.17000 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): 0.291 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.220 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.166 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 6.160 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.956 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.928 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 3757 ; 0.014 ; 0.021 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 5086 ; 1.486 ; 1.970 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 458 ; 6.793 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 187 ;32.359 ;22.727 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 660 ;15.359 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 39 ;17.822 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 568 ; 0.094 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 2835 ; 0.006 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 1547 ; 0.202 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 2512 ; 0.302 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 230 ; 0.144 ; 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): 159 ; 0.227 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 29 ; 0.128 ; 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): 2356 ; 1.776 ; 2.000 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 3626 ; 2.771 ; 3.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1580 ; 1.772 ; 2.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1455 ; 2.610 ; 3.000 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 : 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 : BABINET MODEL WITH 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 2QMS COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 18-JUL-07. REMARK 100 THE DEPOSITION ID IS D_1000043794. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 01-JAN-04 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 6.1 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : N REMARK 200 RADIATION SOURCE : ROTATING ANODE REMARK 200 BEAMLINE : NULL REMARK 200 X-RAY GENERATOR MODEL : RIGAKU RUH2R REMARK 200 MONOCHROMATIC OR LAUE (M/L) : NULL REMARK 200 WAVELENGTH OR RANGE (A) : 1.5418 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : OSMIC MIRRORS REMARK 200 REMARK 200 DETECTOR TYPE : IMAGE PLATE REMARK 200 DETECTOR MANUFACTURER : MAR SCANNER 345 MM PLATE REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO REMARK 200 DATA SCALING SOFTWARE : D*TREK, SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 25401 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.100 REMARK 200 RESOLUTION RANGE LOW (A) : 44.700 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.1 REMARK 200 DATA REDUNDANCY : 3.100 REMARK 200 R MERGE (I) : 0.08400 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 12.6000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.10 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.15 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.4 REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : 0.50500 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> FOR SHELL : 2.200 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: MOLREP REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 36.30 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 1.93 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.1M SODIUM CITRATE PH6.1, 22.5% PEG REMARK 280 4000, 0.2M AMMONIUM SULPHATE, 5 % GLYCEROL, VAPOR DIFFUSION, REMARK 280 HANGING DROP, TEMPERATURE 295K 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 31.32450 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 52.84250 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 31.95200 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 52.84250 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 31.32450 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 31.95200 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, 4 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 300 REMARK: THE BIOLOGICAL UNIT IS A DIMER. THERE ARE 2 BIOLOGICAL REMARK 300 UNITS IN THE ASYMMETRIC UNIT (CHAINS A & B AND CHAINS C & D) 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 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 2240 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 12080 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -11.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 350 APPLY THE FOLLOWING TO CHAINS: C REMARK 350 BIOMT1 2 -1.000000 0.000000 0.000000 62.64900 REMARK 350 BIOMT2 2 0.000000 1.000000 0.000000 -31.95200 REMARK 350 BIOMT3 2 0.000000 0.000000 -1.000000 52.84250 REMARK 350 REMARK 350 BIOMOLECULE: 2 REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 2260 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 12180 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -10.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: 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 350 APPLY THE FOLLOWING TO CHAINS: D REMARK 350 BIOMT1 2 -1.000000 0.000000 0.000000 62.64900 REMARK 350 BIOMT2 2 0.000000 1.000000 0.000000 -31.95200 REMARK 350 BIOMT3 2 0.000000 0.000000 -1.000000 52.84250 REMARK 350 REMARK 350 BIOMOLECULE: 3 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 350 REMARK 350 BIOMOLECULE: 4 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: DIMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: C, D REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 465 REMARK 465 MISSING RESIDUES REMARK 465 THE FOLLOWING RESIDUES WERE NOT LOCATED IN THE REMARK 465 EXPERIMENT. (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 465 IDENTIFIER; SSSEQ=SEQUENCE NUMBER; I=INSERTION CODE.) REMARK 465 REMARK 465 M RES C SSSEQI REMARK 465 GLY A 413 REMARK 465 SER A 414 REMARK 465 PRO A 415 REMARK 465 ALA A 416 REMARK 465 SER A 417 REMARK 465 GLY A 418 REMARK 465 THR A 419 REMARK 465 GLY B 413 REMARK 465 SER B 414 REMARK 465 PRO B 415 REMARK 465 ALA B 416 REMARK 465 SER B 417 REMARK 465 GLY B 418 REMARK 465 THR B 419 REMARK 465 GLY C 413 REMARK 465 SER C 414 REMARK 465 PRO C 415 REMARK 465 ALA C 416 REMARK 465 SER C 417 REMARK 465 GLY C 418 REMARK 465 THR C 419 REMARK 465 GLY D 413 REMARK 465 SER D 414 REMARK 465 PRO D 415 REMARK 465 ALA D 416 REMARK 465 SER D 417 REMARK 465 GLY D 418 REMARK 465 THR D 419 REMARK 480 REMARK 480 ZERO OCCUPANCY ATOM REMARK 480 THE FOLLOWING RESIDUES HAVE ATOMS MODELED WITH ZERO REMARK 480 OCCUPANCY. THE LOCATION AND PROPERTIES OF THESE ATOMS REMARK 480 MAY NOT BE RELIABLE. (M=MODEL NUMBER; RES=RESIDUE NAME; REMARK 480 C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE): REMARK 480 M RES C SSEQI ATOMS REMARK 480 GLU A 439 CG CD OE1 OE2 REMARK 480 GLU A 487 CG CD OE1 OE2 REMARK 480 ARG B 462 CG CD NE CZ NH1 NH2 REMARK 480 HIS C 426 CG ND1 CD2 CE1 NE2 REMARK 480 GLN C 429 CD OE1 NE2 REMARK 480 ARG C 443 CG CD NE CZ NH1 NH2 REMARK 480 ARG C 462 CG CD NE CZ NH1 NH2 REMARK 480 LYS C 476 CD CE NZ REMARK 480 HIS D 426 CB CG ND1 CD2 CE1 NE2 REMARK 480 ARG D 427 CG CD NE CZ NH1 NH2 REMARK 480 GLU D 439 CG CD OE1 OE2 REMARK 480 ARG D 443 CG CD NE CZ NH1 NH2 REMARK 480 GLN D 461 CG CD OE1 NE2 REMARK 480 ARG D 462 CG CD NE CZ NH1 NH2 REMARK 480 LYS D 476 CG CD CE NZ REMARK 480 ARG D 490 CG CD NE CZ NH1 NH2 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 C 429 CG GLN C 429 CD 0.343 REMARK 500 LYS C 476 CG LYS C 476 CD -0.325 REMARK 500 GLN D 461 CB GLN D 461 CG -0.357 REMARK 500 ARG D 462 CB ARG D 462 CG -0.256 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 A 504 CB - CG - OD1 ANGL. DEV. = 5.6 DEGREES REMARK 500 HIS C 426 CA - CB - CG ANGL. DEV. = 12.4 DEGREES REMARK 500 LYS C 476 CB - CG - CD ANGL. DEV. = 20.2 DEGREES REMARK 500 ARG D 427 CA - CB - CG ANGL. DEV. = 14.5 DEGREES REMARK 500 GLU D 439 CA - CB - CG ANGL. DEV. = 13.9 DEGREES REMARK 500 PRO D 464 C - N - CA ANGL. DEV. = 9.4 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 ASP A 496 36.30 -146.88 REMARK 500 ARG B 427 9.97 83.61 REMARK 500 GLU C 488 47.60 38.67 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: PLANAR GROUPS REMARK 500 REMARK 500 PLANAR GROUPS IN THE FOLLOWING RESIDUES HAVE A TOTAL REMARK 500 RMS DISTANCE OF ALL ATOMS FROM THE BEST-FIT PLANE REMARK 500 BY MORE THAN AN EXPECTED VALUE OF 6*RMSD, WITH AN REMARK 500 RMSD 0.02 ANGSTROMS, OR AT LEAST ONE ATOM HAS REMARK 500 AN RMSD GREATER THAN THIS VALUE REMARK 500 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 500 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 M RES CSSEQI RMS TYPE REMARK 500 HIS C 426 0.08 SIDE CHAIN 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 SO4 D 301 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 B 302 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 A 303 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 A 305 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 C 306 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 B 307 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 C 308 DBREF 2QMS A 415 532 UNP Q14451 GRB7_HUMAN 415 532 DBREF 2QMS B 415 532 UNP Q14451 GRB7_HUMAN 415 532 DBREF 2QMS C 415 532 UNP Q14451 GRB7_HUMAN 415 532 DBREF 2QMS D 415 532 UNP Q14451 GRB7_HUMAN 415 532 SEQADV 2QMS GLY A 413 UNP Q14451 CLONING ARTIFACT SEQADV 2QMS SER A 414 UNP Q14451 CLONING ARTIFACT SEQADV 2QMS GLY B 413 UNP Q14451 CLONING ARTIFACT SEQADV 2QMS SER B 414 UNP Q14451 CLONING ARTIFACT SEQADV 2QMS GLY C 413 UNP Q14451 CLONING ARTIFACT SEQADV 2QMS SER C 414 UNP Q14451 CLONING ARTIFACT SEQADV 2QMS GLY D 413 UNP Q14451 CLONING ARTIFACT SEQADV 2QMS SER D 414 UNP Q14451 CLONING ARTIFACT SEQRES 1 A 120 GLY SER PRO ALA SER GLY THR SER LEU SER ALA ALA ILE SEQRES 2 A 120 HIS ARG THR GLN LEU TRP PHE HIS GLY ARG ILE SER ARG SEQRES 3 A 120 GLU GLU SER GLN ARG LEU ILE GLY GLN GLN GLY LEU VAL SEQRES 4 A 120 ASP GLY LEU PHE LEU VAL ARG GLU SER GLN ARG ASN PRO SEQRES 5 A 120 GLN GLY PHE VAL LEU SER LEU CYS HIS LEU GLN LYS VAL SEQRES 6 A 120 LYS HIS TYR LEU ILE LEU PRO SER GLU GLU GLU GLY ARG SEQRES 7 A 120 LEU TYR PHE SER MET ASP ASP GLY GLN THR ARG PHE THR SEQRES 8 A 120 ASP LEU LEU GLN LEU VAL GLU PHE HIS GLN LEU ASN ARG SEQRES 9 A 120 GLY ILE LEU PRO CYS LEU LEU ARG HIS CYS CYS THR ARG SEQRES 10 A 120 VAL ALA LEU SEQRES 1 B 120 GLY SER PRO ALA SER GLY THR SER LEU SER ALA ALA ILE SEQRES 2 B 120 HIS ARG THR GLN LEU TRP PHE HIS GLY ARG ILE SER ARG SEQRES 3 B 120 GLU GLU SER GLN ARG LEU ILE GLY GLN GLN GLY LEU VAL SEQRES 4 B 120 ASP GLY LEU PHE LEU VAL ARG GLU SER GLN ARG ASN PRO SEQRES 5 B 120 GLN GLY PHE VAL LEU SER LEU CYS HIS LEU GLN LYS VAL SEQRES 6 B 120 LYS HIS TYR LEU ILE LEU PRO SER GLU GLU GLU GLY ARG SEQRES 7 B 120 LEU TYR PHE SER MET ASP ASP GLY GLN THR ARG PHE THR SEQRES 8 B 120 ASP LEU LEU GLN LEU VAL GLU PHE HIS GLN LEU ASN ARG SEQRES 9 B 120 GLY ILE LEU PRO CYS LEU LEU ARG HIS CYS CYS THR ARG SEQRES 10 B 120 VAL ALA LEU SEQRES 1 C 120 GLY SER PRO ALA SER GLY THR SER LEU SER ALA ALA ILE SEQRES 2 C 120 HIS ARG THR GLN LEU TRP PHE HIS GLY ARG ILE SER ARG SEQRES 3 C 120 GLU GLU SER GLN ARG LEU ILE GLY GLN GLN GLY LEU VAL SEQRES 4 C 120 ASP GLY LEU PHE LEU VAL ARG GLU SER GLN ARG ASN PRO SEQRES 5 C 120 GLN GLY PHE VAL LEU SER LEU CYS HIS LEU GLN LYS VAL SEQRES 6 C 120 LYS HIS TYR LEU ILE LEU PRO SER GLU GLU GLU GLY ARG SEQRES 7 C 120 LEU TYR PHE SER MET ASP ASP GLY GLN THR ARG PHE THR SEQRES 8 C 120 ASP LEU LEU GLN LEU VAL GLU PHE HIS GLN LEU ASN ARG SEQRES 9 C 120 GLY ILE LEU PRO CYS LEU LEU ARG HIS CYS CYS THR ARG SEQRES 10 C 120 VAL ALA LEU SEQRES 1 D 120 GLY SER PRO ALA SER GLY THR SER LEU SER ALA ALA ILE SEQRES 2 D 120 HIS ARG THR GLN LEU TRP PHE HIS GLY ARG ILE SER ARG SEQRES 3 D 120 GLU GLU SER GLN ARG LEU ILE GLY GLN GLN GLY LEU VAL SEQRES 4 D 120 ASP GLY LEU PHE LEU VAL ARG GLU SER GLN ARG ASN PRO SEQRES 5 D 120 GLN GLY PHE VAL LEU SER LEU CYS HIS LEU GLN LYS VAL SEQRES 6 D 120 LYS HIS TYR LEU ILE LEU PRO SER GLU GLU GLU GLY ARG SEQRES 7 D 120 LEU TYR PHE SER MET ASP ASP GLY GLN THR ARG PHE THR SEQRES 8 D 120 ASP LEU LEU GLN LEU VAL GLU PHE HIS GLN LEU ASN ARG SEQRES 9 D 120 GLY ILE LEU PRO CYS LEU LEU ARG HIS CYS CYS THR ARG SEQRES 10 D 120 VAL ALA LEU HET SO4 A 303 5 HET SO4 A 305 5 HET SO4 B 302 5 HET SO4 B 307 5 HET SO4 C 306 5 HET SO4 C 308 5 HET SO4 D 301 5 HETNAM SO4 SULFATE ION FORMUL 5 SO4 7(O4 S 2-) FORMUL 12 HOH *181(H2 O) HELIX 1 1 SER A 420 ILE A 425 1 6 HELIX 2 2 SER A 437 GLN A 448 1 12 HELIX 3 3 ASP A 504 GLN A 513 1 10 HELIX 4 4 SER B 420 ILE B 425 1 6 HELIX 5 5 SER B 437 GLN B 448 1 12 HELIX 6 6 ASP B 504 GLN B 513 1 10 HELIX 7 7 SER C 420 HIS C 426 1 7 HELIX 8 8 SER C 437 GLN C 447 1 11 HELIX 9 9 ASP C 504 ASN C 515 1 12 HELIX 10 10 SER D 420 HIS D 426 1 7 HELIX 11 11 SER D 437 GLN D 448 1 12 HELIX 12 12 ASP D 504 ASN D 515 1 12 SHEET 1 A 5 PHE A 432 ARG A 435 0 SHEET 2 A 5 LEU A 454 GLU A 459 1 O VAL A 457 N HIS A 433 SHEET 3 A 5 PHE A 467 HIS A 473 -1 O SER A 470 N LEU A 456 SHEET 4 A 5 LYS A 476 GLU A 486 -1 O ILE A 482 N PHE A 467 SHEET 5 A 5 LEU A 491 SER A 494 -1 O SER A 494 N LEU A 483 SHEET 1 B 3 PHE A 432 ARG A 435 0 SHEET 2 B 3 LEU A 454 GLU A 459 1 O VAL A 457 N HIS A 433 SHEET 3 B 3 HIS A 525 CYS A 526 1 O HIS A 525 N PHE A 455 SHEET 1 C 5 PHE B 432 ARG B 435 0 SHEET 2 C 5 LEU B 454 GLU B 459 1 O VAL B 457 N HIS B 433 SHEET 3 C 5 PHE B 467 HIS B 473 -1 O SER B 470 N LEU B 456 SHEET 4 C 5 LYS B 476 GLU B 487 -1 O TYR B 480 N LEU B 469 SHEET 5 C 5 ARG B 490 SER B 494 -1 O ARG B 490 N GLU B 487 SHEET 1 D 3 PHE B 432 ARG B 435 0 SHEET 2 D 3 LEU B 454 GLU B 459 1 O VAL B 457 N HIS B 433 SHEET 3 D 3 HIS B 525 CYS B 526 1 O HIS B 525 N PHE B 455 SHEET 1 E 5 ARG C 490 SER C 494 0 SHEET 2 E 5 LYS C 476 GLU C 487 -1 N LEU C 483 O SER C 494 SHEET 3 E 5 PHE C 467 HIS C 473 -1 N PHE C 467 O ILE C 482 SHEET 4 E 5 LEU C 454 GLU C 459 -1 N LEU C 454 O CYS C 472 SHEET 5 E 5 HIS C 525 CYS C 526 1 O HIS C 525 N PHE C 455 SHEET 1 F 5 ARG D 490 SER D 494 0 SHEET 2 F 5 LYS D 476 GLU D 487 -1 N GLU D 487 O ARG D 490 SHEET 3 F 5 PHE D 467 HIS D 473 -1 N PHE D 467 O ILE D 482 SHEET 4 F 5 LEU D 454 GLU D 459 -1 N LEU D 456 O SER D 470 SHEET 5 F 5 HIS D 525 CYS D 526 1 O HIS D 525 N PHE D 455 SITE 1 AC1 5 ARG D 438 ARG D 458 SER D 460 GLN D 461 SITE 2 AC1 5 ARG D 462 SITE 1 AC2 4 ARG B 516 CYS B 521 LEU B 522 ARG B 524 SITE 1 AC3 5 ARG A 462 ARG A 516 CYS A 521 LEU A 522 SITE 2 AC3 5 ARG A 524 SITE 1 AC4 7 HOH A 17 HOH A 142 ARG A 438 ARG A 458 SITE 2 AC4 7 SER A 460 GLN A 461 ARG A 462 SITE 1 AC5 5 HOH C 145 ARG C 516 CYS C 521 LEU C 522 SITE 2 AC5 5 ARG C 524 SITE 1 AC6 4 ARG B 438 ARG B 458 SER B 460 GLN B 461 SITE 1 AC7 5 ARG C 438 ARG C 458 SER C 460 GLN C 461 SITE 2 AC7 5 ARG C 462 CRYST1 62.649 63.904 105.685 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 0.015962 0.000000 0.000000 0.00000 SCALE2 0.000000 0.015648 0.000000 0.00000 SCALE3 0.000000 0.000000 0.009462 0.00000