PDB Short entry for 3PQZ HEADER PROTEIN BINDING 29-NOV-10 3PQZ TITLE GRB7 SH2 WITH PEPTIDE 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; COMPND 5 SYNONYM: B47, EPIDERMAL GROWTH FACTOR RECEPTOR GRB-7, GRB7 ADAPTER COMPND 6 PROTEIN; COMPND 7 ENGINEERED: YES; COMPND 8 MOL_ID: 2; COMPND 9 MOLECULE: CYCLIC PEPTIDE; COMPND 10 CHAIN: L, M; COMPND 11 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: GRB7; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PGEX; SOURCE 11 MOL_ID: 2; SOURCE 12 SYNTHETIC: YES; SOURCE 13 OTHER_DETAILS: SEQUENCE DESIGNED BY PHASE DISPLAY. PEPTIDE WAS MADE SOURCE 14 SYNTHETICALLY KEYWDS SH2, BINDS PHOSPHOTYROSINE, TYROSINE KINASES, CYTOPLASMIC, PROTEIN KEYWDS 2 BINDING EXPDTA X-RAY DIFFRACTION AUTHOR J.A.WILCE REVDAT 2 21-SEP-11 3PQZ 1 JRNL REVDAT 1 20-JUL-11 3PQZ 0 JRNL AUTH N.D.AMBAYE,S.C.PERO,M.J.GUNZBURG,M.YAP,D.J.CLAYTON, JRNL AUTH 2 M.P.DEL BORGO,P.PERLMUTTER,M.I.AGUILAR,G.S.SHUKLA, JRNL AUTH 3 E.PELETSKAYA,M.M.COOKSON,D.N.KRAG,M.C.WILCE,J.A.WILCE JRNL TITL STRUCTURAL BASIS OF BINDING BY CYCLIC NONPHOSPHORYLATED JRNL TITL 2 PEPTIDE ANTAGONISTS OF GRB7 IMPLICATED IN BREAST CANCER JRNL TITL 3 PROGRESSION JRNL REF J.MOL.BIOL. V. 412 397 2011 JRNL REFN ISSN 0022-2836 JRNL PMID 21802427 JRNL DOI 10.1016/J.JMB.2011.07.030 REMARK 2 REMARK 2 RESOLUTION. 2.41 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX (PHENIX.REFINE: 1.7_650) REMARK 3 AUTHORS : PAUL ADAMS,PAVEL AFONINE,VICENT CHEN,IAN REMARK 3 : DAVIS,KRESHNA GOPAL,RALF GROSSE- REMARK 3 : KUNSTLEVE,LI-WEI HUNG,ROBERT IMMORMINO, REMARK 3 : TOM IOERGER,AIRLIE MCCOY,ERIK MCKEE,NIGEL REMARK 3 : MORIARTY,REETAL PAI,RANDY READ,JANE REMARK 3 : RICHARDSON,DAVID RICHARDSON,TOD ROMO,JIM REMARK 3 : SACCHETTINI,NICHOLAS SAUTER,JACOB SMITH, REMARK 3 : LAURENT STORONI,TOM TERWILLIGER,PETER REMARK 3 : ZWART REMARK 3 REMARK 3 REFINEMENT TARGET : ML REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.41 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 32.88 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.350 REMARK 3 COMPLETENESS FOR RANGE (%) : 92.8 REMARK 3 NUMBER OF REFLECTIONS : 15595 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.240 REMARK 3 R VALUE (WORKING SET) : 0.238 REMARK 3 FREE R VALUE : 0.277 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 780 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT (IN BINS). REMARK 3 BIN RESOLUTION RANGE COMPL. NWORK NFREE RWORK RFREE REMARK 3 1 32.8855 - 4.3827 0.91 2466 131 0.2213 0.2480 REMARK 3 2 4.3827 - 3.4799 0.95 2533 134 0.2034 0.2353 REMARK 3 3 3.4799 - 3.0404 0.94 2484 122 0.2186 0.2623 REMARK 3 4 3.0404 - 2.7626 0.94 2502 124 0.2692 0.3372 REMARK 3 5 2.7626 - 2.5646 0.93 2463 146 0.3056 0.3748 REMARK 3 6 2.5646 - 2.4135 0.89 2367 123 0.3043 0.3282 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : FLAT BULK SOLVENT MODEL REMARK 3 SOLVENT RADIUS : 1.00 REMARK 3 SHRINKAGE RADIUS : 0.72 REMARK 3 K_SOL : 0.41 REMARK 3 B_SOL : 53.97 REMARK 3 REMARK 3 ERROR ESTIMATES. REMARK 3 COORDINATE ERROR (MAXIMUM-LIKELIHOOD BASED) : 0.330 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 31.850 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 33.23 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.08960 REMARK 3 B22 (A**2) : -0.73230 REMARK 3 B33 (A**2) : 0.82190 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : -2.11870 REMARK 3 B23 (A**2) : -0.00000 REMARK 3 REMARK 3 TWINNING INFORMATION. REMARK 3 FRACTION: NULL REMARK 3 OPERATOR: NULL REMARK 3 REMARK 3 DEVIATIONS FROM IDEAL VALUES. REMARK 3 RMSD COUNT REMARK 3 BOND : 0.010 3601 REMARK 3 ANGLE : 1.205 4708 REMARK 3 CHIRALITY : 0.092 512 REMARK 3 PLANARITY : 0.004 601 REMARK 3 DIHEDRAL : 16.760 1276 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 6 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: chain 'A' and (resseq 424:528) REMARK 3 ORIGIN FOR THE GROUP (A): 13.3572 -10.9193 17.6851 REMARK 3 T TENSOR REMARK 3 T11: 0.1254 T22: 0.1175 REMARK 3 T33: 0.0977 T12: 0.1164 REMARK 3 T13: 0.0638 T23: 0.0082 REMARK 3 L TENSOR REMARK 3 L11: 0.0986 L22: 0.1127 REMARK 3 L33: 0.1031 L12: 0.0743 REMARK 3 L13: 0.0044 L23: -0.0712 REMARK 3 S TENSOR REMARK 3 S11: -0.0012 S12: -0.0072 S13: 0.0023 REMARK 3 S21: -0.0252 S22: -0.0425 S23: 0.0138 REMARK 3 S31: 0.0510 S32: 0.0372 S33: -0.0243 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: chain 'B' and (resseq 423:529) REMARK 3 ORIGIN FOR THE GROUP (A): -6.2484 -11.1744 -6.0155 REMARK 3 T TENSOR REMARK 3 T11: 0.0886 T22: 0.1804 REMARK 3 T33: 0.1194 T12: 0.0413 REMARK 3 T13: 0.0227 T23: 0.0460 REMARK 3 L TENSOR REMARK 3 L11: 0.2545 L22: 0.1973 REMARK 3 L33: 0.1652 L12: 0.0003 REMARK 3 L13: 0.1752 L23: 0.0102 REMARK 3 S TENSOR REMARK 3 S11: -0.0482 S12: -0.0663 S13: 0.0348 REMARK 3 S21: 0.0224 S22: -0.0189 S23: -0.0073 REMARK 3 S31: 0.0278 S32: 0.0722 S33: -0.0041 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: chain 'C' and (resseq 430:527) REMARK 3 ORIGIN FOR THE GROUP (A): 22.1921 -1.1643 -9.1780 REMARK 3 T TENSOR REMARK 3 T11: 0.0700 T22: 0.0671 REMARK 3 T33: -0.0068 T12: 0.1258 REMARK 3 T13: -0.0007 T23: 0.0573 REMARK 3 L TENSOR REMARK 3 L11: 0.0647 L22: 0.0391 REMARK 3 L33: 0.0796 L12: -0.0315 REMARK 3 L13: -0.0186 L23: 0.0388 REMARK 3 S TENSOR REMARK 3 S11: -0.0110 S12: -0.0459 S13: -0.0171 REMARK 3 S21: 0.0334 S22: 0.0235 S23: 0.0224 REMARK 3 S31: -0.0021 S32: -0.0364 S33: 0.0462 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: chain 'D' and (resseq 429:527) REMARK 3 ORIGIN FOR THE GROUP (A): -14.7345 -0.8938 21.3334 REMARK 3 T TENSOR REMARK 3 T11: 0.2145 T22: 0.2997 REMARK 3 T33: 0.1739 T12: 0.0375 REMARK 3 T13: 0.0612 T23: 0.0768 REMARK 3 L TENSOR REMARK 3 L11: 0.1376 L22: 0.1924 REMARK 3 L33: 0.1611 L12: 0.0930 REMARK 3 L13: 0.0303 L23: 0.0147 REMARK 3 S TENSOR REMARK 3 S11: 0.0026 S12: 0.0260 S13: 0.0569 REMARK 3 S21: -0.0879 S22: -0.0132 S23: -0.0626 REMARK 3 S31: -0.0799 S32: 0.0974 S33: -0.0213 REMARK 3 TLS GROUP : 5 REMARK 3 SELECTION: chain 'L' REMARK 3 ORIGIN FOR THE GROUP (A): -0.6648 -11.4400 14.2238 REMARK 3 T TENSOR REMARK 3 T11: 0.1371 T22: 0.1701 REMARK 3 T33: 0.0986 T12: 0.0494 REMARK 3 T13: 0.0121 T23: -0.0623 REMARK 3 L TENSOR REMARK 3 L11: 0.0874 L22: 0.0879 REMARK 3 L33: 0.1225 L12: -0.0037 REMARK 3 L13: 0.0056 L23: 0.0168 REMARK 3 S TENSOR REMARK 3 S11: -0.0007 S12: -0.0090 S13: 0.0027 REMARK 3 S21: 0.0006 S22: -0.0151 S23: 0.0134 REMARK 3 S31: 0.0009 S32: -0.0176 S33: -0.0002 REMARK 3 TLS GROUP : 6 REMARK 3 SELECTION: chain 'M' REMARK 3 ORIGIN FOR THE GROUP (A): 8.0971 -11.4017 -2.5158 REMARK 3 T TENSOR REMARK 3 T11: 0.1801 T22: 0.2181 REMARK 3 T33: 0.1179 T12: 0.0797 REMARK 3 T13: -0.0400 T23: 0.0170 REMARK 3 L TENSOR REMARK 3 L11: 0.1714 L22: 0.1379 REMARK 3 L33: 0.1642 L12: -0.0555 REMARK 3 L13: 0.1003 L23: -0.0919 REMARK 3 S TENSOR REMARK 3 S11: 0.0094 S12: 0.0080 S13: -0.0078 REMARK 3 S21: -0.0047 S22: 0.0003 S23: 0.0012 REMARK 3 S31: 0.0050 S32: 0.0156 S33: 0.0031 REMARK 3 REMARK 3 NCS DETAILS REMARK 3 NUMBER OF NCS GROUPS : 3 REMARK 3 NCS GROUP : 1 REMARK 3 NCS OPERATOR : 1 REMARK 3 REFERENCE SELECTION: chain A and (resseq 429:442 or resseq REMARK 3 444:461 or resseq 466:487 or resseq 493: REMARK 3 500 or resseq 502:515 or resseq 517:528 ) REMARK 3 SELECTION : chain B and (resseq 429:442 or resseq REMARK 3 444:461 or resseq 466:487 or resseq 493: REMARK 3 500 or resseq 502:515 or resseq 517:528 ) REMARK 3 ATOM PAIRS NUMBER : 705 REMARK 3 RMSD : 0.119 REMARK 3 NCS GROUP : 2 REMARK 3 NCS OPERATOR : 1 REMARK 3 REFERENCE SELECTION: chain C and (resseq 430:461 or resseq REMARK 3 466:487 or resseq 500:527 ) REMARK 3 SELECTION : chain D and (resseq 430:461 or resseq REMARK 3 466:487 or resseq 500:527 ) REMARK 3 ATOM PAIRS NUMBER : 634 REMARK 3 RMSD : 0.029 REMARK 3 NCS GROUP : 3 REMARK 3 NCS OPERATOR : 1 REMARK 3 REFERENCE SELECTION: chain L and (resseq 1:10 ) REMARK 3 SELECTION : chain M and (resseq 1:10 ) REMARK 3 ATOM PAIRS NUMBER : 91 REMARK 3 RMSD : 0.005 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 3PQZ COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 14-DEC-10. REMARK 100 THE RCSB ID CODE IS RCSB062713. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 01-JUL-08 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 6.6 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : AUSTRALIAN SYNCHROTRON REMARK 200 BEAMLINE : MX1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.0 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : AREA DETECTOR REMARK 200 DETECTOR MANUFACTURER : MAR CCD 165 MM REMARK 200 INTENSITY-INTEGRATION SOFTWARE : MOSFLM REMARK 200 DATA SCALING SOFTWARE : SCALA REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 15617 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.400 REMARK 200 RESOLUTION RANGE LOW (A) : 34.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : -3.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 93.1 REMARK 200 DATA REDUNDANCY : NULL REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL 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) : 2.41 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.62 REMARK 200 COMPLETENESS FOR SHELL (%) : 92.0 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 <I/SIGMA(I)> 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 REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 36.83 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 1.95 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 17.5% PEG3350, 0.1M GLYCINE, 10% REMARK 280 GLYCEROL, PH 6.6, VAPOR DIFFUSION, SITTING DROP, TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 1 21 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,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 0.00000 REMARK 290 SMTRY2 2 0.000000 1.000000 0.000000 39.55500 REMARK 290 SMTRY3 2 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: TRIMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, D, L 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: TRIMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: B, C, M 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 ALA A 416 REMARK 465 SER A 417 REMARK 465 GLY A 418 REMARK 465 THR A 419 REMARK 465 SER A 420 REMARK 465 LEU A 421 REMARK 465 SER A 422 REMARK 465 ALA A 423 REMARK 465 ASN A 463 REMARK 465 ARG A 529 REMARK 465 VAL A 530 REMARK 465 ALA A 531 REMARK 465 LEU A 532 REMARK 465 ALA B 416 REMARK 465 SER B 417 REMARK 465 GLY B 418 REMARK 465 THR B 419 REMARK 465 SER B 420 REMARK 465 LEU B 421 REMARK 465 SER B 422 REMARK 465 PRO B 464 REMARK 465 GLU B 488 REMARK 465 VAL B 530 REMARK 465 ALA B 531 REMARK 465 LEU B 532 REMARK 465 ALA C 416 REMARK 465 SER C 417 REMARK 465 GLY C 418 REMARK 465 THR C 419 REMARK 465 SER C 420 REMARK 465 LEU C 421 REMARK 465 SER C 422 REMARK 465 ALA C 423 REMARK 465 ALA C 424 REMARK 465 ILE C 425 REMARK 465 HIS C 426 REMARK 465 ARG C 427 REMARK 465 THR C 428 REMARK 465 GLN C 429 REMARK 465 GLY C 489 REMARK 465 THR C 528 REMARK 465 ARG C 529 REMARK 465 VAL C 530 REMARK 465 ALA C 531 REMARK 465 LEU C 532 REMARK 465 ALA D 416 REMARK 465 SER D 417 REMARK 465 GLY D 418 REMARK 465 THR D 419 REMARK 465 SER D 420 REMARK 465 LEU D 421 REMARK 465 SER D 422 REMARK 465 ALA D 423 REMARK 465 ALA D 424 REMARK 465 ILE D 425 REMARK 465 HIS D 426 REMARK 465 ARG D 427 REMARK 465 THR D 428 REMARK 465 GLU D 488 REMARK 465 GLY D 489 REMARK 465 THR D 528 REMARK 465 ARG D 529 REMARK 465 VAL D 530 REMARK 465 ALA D 531 REMARK 465 LEU D 532 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 ARG A 462 CG CD NE CZ NH1 NH2 REMARK 470 GLU A 486 CG CD OE1 OE2 REMARK 470 GLU A 488 CG CD OE1 OE2 REMARK 470 LEU A 491 CG CD1 CD2 REMARK 470 GLU B 439 CG CD OE1 OE2 REMARK 470 ARG B 462 CG CD NE CZ NH1 NH2 REMARK 470 GLN B 465 CG CD OE1 NE2 REMARK 470 GLU B 486 CG CD OE1 OE2 REMARK 470 GLU C 487 CG CD OE1 OE2 REMARK 470 GLU C 488 CG CD OE1 OE2 REMARK 470 ARG C 490 CG CD NE CZ NH1 NH2 REMARK 470 GLN D 429 CG CD OE1 NE2 REMARK 470 LEU D 430 CG CD1 CD2 REMARK 470 ARG D 443 CG CD NE CZ NH1 NH2 REMARK 470 GLN D 447 CG CD OE1 NE2 REMARK 470 GLN D 461 CG CD OE1 NE2 REMARK 470 ARG D 462 CG CD NE CZ NH1 NH2 REMARK 470 ASN D 463 CG OD1 ND2 REMARK 470 GLN D 465 CG CD OE1 NE2 REMARK 470 GLN D 475 CG CD OE1 NE2 REMARK 470 LEU D 483 CG CD1 CD2 REMARK 470 GLU D 487 CG CD OE1 OE2 REMARK 470 ARG D 490 CG CD NE CZ NH1 NH2 REMARK 470 CCS L 11 OZ2 REMARK 470 CCS M 11 OZ2 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 OE1 GLU D 510 O HOH D 29 2.01 REMARK 500 N ARG C 490 O HOH C 93 2.02 REMARK 500 CB ASP C 496 NE2 GLN C 499 2.07 REMARK 500 N GLN B 465 O HOH B 85 2.07 REMARK 500 O GLU A 459 O HOH A 28 2.07 REMARK 500 N TRP L 1 OZ1 CCS L 11 2.11 REMARK 500 N TRP M 1 OZ1 CCS M 11 2.18 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 ARG C 438 NE - CZ - NH2 ANGL. DEV. = -3.2 DEGREES REMARK 500 ASP D 496 CB - CG - OD1 ANGL. DEV. = 5.5 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 GLU A 487 107.10 -173.74 REMARK 500 GLU A 488 61.05 36.16 REMARK 500 ALA B 424 41.70 -81.93 REMARK 500 ILE B 425 -136.68 86.43 REMARK 500 HIS B 426 -34.87 13.87 REMARK 500 ARG C 462 -61.87 150.56 REMARK 500 GLU C 487 -85.65 -107.21 REMARK 500 ASP C 496 13.63 -142.44 REMARK 500 ASP C 497 46.03 70.86 REMARK 500 ARG C 524 -20.79 -141.15 REMARK 500 ARG D 462 -121.08 -108.44 REMARK 500 ASN D 463 103.31 58.40 REMARK 500 ASP D 496 32.83 -154.80 REMARK 500 ARG D 524 -20.48 -141.90 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: NON-CIS, NON-TRANS REMARK 500 REMARK 500 THE FOLLOWING PEPTIDE BONDS DEVIATE SIGNIFICANTLY FROM BOTH REMARK 500 CIS AND TRANS CONFORMATION. CIS BONDS, IF ANY, ARE LISTED REMARK 500 ON CISPEP RECORDS. TRANS IS DEFINED AS 180 +/- 30 AND REMARK 500 CIS IS DEFINED AS 0 +/- 30 DEGREES. REMARK 500 MODEL OMEGA REMARK 500 ILE B 425 HIS B 426 -149.38 REMARK 500 ARG D 462 ASN D 463 -148.19 REMARK 500 REMARK 500 REMARK: NULL DBREF 3PQZ A 416 532 UNP Q14451 GRB7_HUMAN 416 532 DBREF 3PQZ B 416 532 UNP Q14451 GRB7_HUMAN 416 532 DBREF 3PQZ C 416 532 UNP Q14451 GRB7_HUMAN 416 532 DBREF 3PQZ D 416 532 UNP Q14451 GRB7_HUMAN 416 532 DBREF 3PQZ L 1 11 PDB 3PQZ 3PQZ 1 11 DBREF 3PQZ M 1 11 PDB 3PQZ 3PQZ 1 11 SEQRES 1 A 117 ALA SER GLY THR SER LEU SER ALA ALA ILE HIS ARG THR SEQRES 2 A 117 GLN LEU TRP PHE HIS GLY ARG ILE SER ARG GLU GLU SER SEQRES 3 A 117 GLN ARG LEU ILE GLY GLN GLN GLY LEU VAL ASP GLY LEU SEQRES 4 A 117 PHE LEU VAL ARG GLU SER GLN ARG ASN PRO GLN GLY PHE SEQRES 5 A 117 VAL LEU SER LEU CYS HIS LEU GLN LYS VAL LYS HIS TYR SEQRES 6 A 117 LEU ILE LEU PRO SER GLU GLU GLU GLY ARG LEU TYR PHE SEQRES 7 A 117 SER MET ASP ASP GLY GLN THR ARG PHE THR ASP LEU LEU SEQRES 8 A 117 GLN LEU VAL GLU PHE HIS GLN LEU ASN ARG GLY ILE LEU SEQRES 9 A 117 PRO CYS LEU LEU ARG HIS CYS CYS THR ARG VAL ALA LEU SEQRES 1 B 117 ALA SER GLY THR SER LEU SER ALA ALA ILE HIS ARG THR SEQRES 2 B 117 GLN LEU TRP PHE HIS GLY ARG ILE SER ARG GLU GLU SER SEQRES 3 B 117 GLN ARG LEU ILE GLY GLN GLN GLY LEU VAL ASP GLY LEU SEQRES 4 B 117 PHE LEU VAL ARG GLU SER GLN ARG ASN PRO GLN GLY PHE SEQRES 5 B 117 VAL LEU SER LEU CYS HIS LEU GLN LYS VAL LYS HIS TYR SEQRES 6 B 117 LEU ILE LEU PRO SER GLU GLU GLU GLY ARG LEU TYR PHE SEQRES 7 B 117 SER MET ASP ASP GLY GLN THR ARG PHE THR ASP LEU LEU SEQRES 8 B 117 GLN LEU VAL GLU PHE HIS GLN LEU ASN ARG GLY ILE LEU SEQRES 9 B 117 PRO CYS LEU LEU ARG HIS CYS CYS THR ARG VAL ALA LEU SEQRES 1 C 117 ALA SER GLY THR SER LEU SER ALA ALA ILE HIS ARG THR SEQRES 2 C 117 GLN LEU TRP PHE HIS GLY ARG ILE SER ARG GLU GLU SER SEQRES 3 C 117 GLN ARG LEU ILE GLY GLN GLN GLY LEU VAL ASP GLY LEU SEQRES 4 C 117 PHE LEU VAL ARG GLU SER GLN ARG ASN PRO GLN GLY PHE SEQRES 5 C 117 VAL LEU SER LEU CYS HIS LEU GLN LYS VAL LYS HIS TYR SEQRES 6 C 117 LEU ILE LEU PRO SER GLU GLU GLU GLY ARG LEU TYR PHE SEQRES 7 C 117 SER MET ASP ASP GLY GLN THR ARG PHE THR ASP LEU LEU SEQRES 8 C 117 GLN LEU VAL GLU PHE HIS GLN LEU ASN ARG GLY ILE LEU SEQRES 9 C 117 PRO CYS LEU LEU ARG HIS CYS CYS THR ARG VAL ALA LEU SEQRES 1 D 117 ALA SER GLY THR SER LEU SER ALA ALA ILE HIS ARG THR SEQRES 2 D 117 GLN LEU TRP PHE HIS GLY ARG ILE SER ARG GLU GLU SER SEQRES 3 D 117 GLN ARG LEU ILE GLY GLN GLN GLY LEU VAL ASP GLY LEU SEQRES 4 D 117 PHE LEU VAL ARG GLU SER GLN ARG ASN PRO GLN GLY PHE SEQRES 5 D 117 VAL LEU SER LEU CYS HIS LEU GLN LYS VAL LYS HIS TYR SEQRES 6 D 117 LEU ILE LEU PRO SER GLU GLU GLU GLY ARG LEU TYR PHE SEQRES 7 D 117 SER MET ASP ASP GLY GLN THR ARG PHE THR ASP LEU LEU SEQRES 8 D 117 GLN LEU VAL GLU PHE HIS GLN LEU ASN ARG GLY ILE LEU SEQRES 9 D 117 PRO CYS LEU LEU ARG HIS CYS CYS THR ARG VAL ALA LEU SEQRES 1 L 11 TRP PHE GLU GLY TYR ASP ASN THR PHE PRO CCS SEQRES 1 M 11 TRP PHE GLU GLY TYR ASP ASN THR PHE PRO CCS MODRES 3PQZ CCS L 11 CYS CARBOXYMETHYLATED CYSTEINE MODRES 3PQZ CCS M 11 CYS CARBOXYMETHYLATED CYSTEINE HET CCS L 11 9 HET CCS M 11 9 HETNAM CCS CARBOXYMETHYLATED CYSTEINE FORMUL 5 CCS 2(C5 H9 N O4 S) FORMUL 7 HOH *103(H2 O) HELIX 1 1 ALA A 424 GLN A 429 5 6 HELIX 2 2 SER A 437 GLN A 448 1 12 HELIX 3 3 ASP A 504 ASN A 515 1 12 HELIX 4 4 SER B 437 GLN B 448 1 12 HELIX 5 5 ASP B 504 ASN B 515 1 12 HELIX 6 6 SER C 437 GLN C 448 1 12 HELIX 7 7 ASP C 504 ASN C 515 1 12 HELIX 8 8 SER D 437 GLN D 447 1 11 HELIX 9 9 ASP D 504 ASN D 515 1 12 SHEET 1 A 5 TYR A 492 SER A 494 0 SHEET 2 A 5 LYS A 476 SER A 485 -1 N LEU A 483 O SER A 494 SHEET 3 A 5 PHE A 467 HIS A 473 -1 N LEU A 471 O LYS A 478 SHEET 4 A 5 LEU A 454 GLU A 459 -1 N LEU A 456 O SER A 470 SHEET 5 A 5 HIS A 525 CYS A 526 1 O HIS A 525 N PHE A 455 SHEET 1 B 5 TYR B 492 SER B 494 0 SHEET 2 B 5 LYS B 476 SER B 485 -1 N LEU B 483 O SER B 494 SHEET 3 B 5 PHE B 467 HIS B 473 -1 N LEU B 471 O LYS B 478 SHEET 4 B 5 LEU B 454 GLU B 459 -1 N LEU B 454 O CYS B 472 SHEET 5 B 5 HIS B 525 CYS B 526 1 O HIS B 525 N PHE B 455 SHEET 1 C 5 LEU C 491 SER C 494 0 SHEET 2 C 5 VAL C 477 GLU C 486 -1 N LEU C 483 O SER C 494 SHEET 3 C 5 PHE C 467 CYS C 472 -1 N LEU C 471 O LYS C 478 SHEET 4 C 5 LEU C 454 GLU C 459 -1 N LEU C 454 O CYS C 472 SHEET 5 C 5 HIS C 525 CYS C 526 1 O HIS C 525 N PHE C 455 SHEET 1 D 5 PHE D 432 ARG D 435 0 SHEET 2 D 5 LEU D 454 GLU D 459 1 O GLU D 459 N GLY D 434 SHEET 3 D 5 PHE D 467 CYS D 472 -1 O CYS D 472 N LEU D 454 SHEET 4 D 5 VAL D 477 SER D 485 -1 O LYS D 478 N LEU D 471 SHEET 5 D 5 TYR D 492 SER D 494 -1 O SER D 494 N LEU D 483 SHEET 1 E 3 PHE D 432 ARG D 435 0 SHEET 2 E 3 LEU D 454 GLU D 459 1 O GLU D 459 N GLY D 434 SHEET 3 E 3 HIS D 525 CYS D 526 1 O HIS D 525 N PHE D 455 LINK N TRP L 1 CE CCS L 11 1555 1555 1.30 LINK C PRO L 10 N CCS L 11 1555 1555 1.33 LINK N TRP M 1 CE CCS M 11 1555 1555 1.29 LINK C PRO M 10 N CCS M 11 1555 1555 1.33 CISPEP 1 GLU A 488 GLY A 489 0 -24.02 CISPEP 2 GLN D 461 ARG D 462 0 -1.61 CRYST1 52.660 79.110 54.690 90.00 104.40 90.00 P 1 21 1 8 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 0.018990 0.000000 0.004876 0.00000 SCALE2 0.000000 0.012641 0.000000 0.00000 SCALE3 0.000000 0.000000 0.018878 0.00000