HEADER TRANSFERASE/SIGNALING PROTEIN 10-SEP-08 3EG1 TITLE CRYSTAL STRUCTURE OF THE N114Q MUTANT OF ABL-SH3 DOMAIN COMPLEXED WITH TITLE 2 A DESIGNED HIGH-AFFINITY PEPTIDE LIGAND: IMPLICATIONS FOR SH3-LIGAND TITLE 3 INTERACTIONS COMPND MOL_ID: 1; COMPND 2 MOLECULE: PROTO-ONCOGENE TYROSINE-PROTEIN KINASE ABL1; COMPND 3 CHAIN: A, B; COMPND 4 FRAGMENT: SH3 DOMAIN, RESIDUES 60-121; COMPND 5 SYNONYM: P150, C- ABL, ABELSON MURINE LEUKEMIA VIRAL ONCOGENE HOMOLOG COMPND 6 1; COMPND 7 EC: 2.7.10.2; COMPND 8 ENGINEERED: YES; COMPND 9 MUTATION: YES; COMPND 10 MOL_ID: 2; COMPND 11 MOLECULE: P41 PEPTIDE; COMPND 12 CHAIN: C, D; COMPND 13 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 3 ORGANISM_COMMON: HUMAN; SOURCE 4 ORGANISM_TAXID: 9606; SOURCE 5 STRAIN: PBAT4; SOURCE 6 GENE: ABL1, ABL, JTK7; SOURCE 7 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 8 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 9 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 10 EXPRESSION_SYSTEM_VECTOR: PBAT4; SOURCE 11 MOL_ID: 2; SOURCE 12 SYNTHETIC: YES; SOURCE 13 ORGANISM_SCIENTIFIC: SYNTHETIC CONSTRUCT; SOURCE 14 ORGANISM_TAXID: 32630; SOURCE 15 OTHER_DETAILS: THE AUTHOR STATES THAT THE P41 PEPTIDE IS A MEMBER OF SOURCE 16 A GROUP OF PEPTIDE LIGANDS DESIGNED TO BIND SPECIFICALLY THE ABL-SH3 SOURCE 17 DOMAIN. KEYWDS BETA, SH3 DOMAIN, ATP-BINDING, CELL ADHESION, CYTOSKELETON, KINASE, KEYWDS 2 LIPOPROTEIN, MAGNESIUM, MANGANESE, METAL-BINDING, MYRISTATE, KEYWDS 3 NUCLEOTIDE-BINDING, NUCLEUS, PHOSPHOPROTEIN, PROTO-ONCOGENE, SH2 KEYWDS 4 DOMAIN, TRANSFERASE, TYROSINE-PROTEIN KINASE, SIGNALING PROTEIN, KEYWDS 5 TRANSFERASE-SIGNALING PROTEIN COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR A.CAMARA-ARTIGAS REVDAT 6 16-OCT-24 3EG1 1 REMARK REVDAT 5 30-AUG-23 3EG1 1 REMARK REVDAT 4 20-OCT-21 3EG1 1 SOURCE REMARK SEQADV LINK REVDAT 3 13-JUL-11 3EG1 1 VERSN REVDAT 2 16-FEB-10 3EG1 1 JRNL REVDAT 1 15-SEP-09 3EG1 0 JRNL AUTH A.PALENCIA,A.CAMARA-ARTIGAS,M.T.PISABARRO,J.C.MARTINEZ, JRNL AUTH 2 I.LUQUE JRNL TITL ROLE OF INTERFACIAL WATER MOLECULES IN PROLINE-RICH LIGAND JRNL TITL 2 RECOGNITION BY THE SRC HOMOLOGY 3 DOMAIN OF ABL. JRNL REF J.BIOL.CHEM. V. 285 2823 2010 JRNL REFN ISSN 0021-9258 JRNL PMID 19906645 JRNL DOI 10.1074/JBC.M109.048033 REMARK 1 REMARK 1 REFERENCE 1 REMARK 1 AUTH A.CAMARA-ARTIGAS,A.PALENCIA,J.C.MARTINEZ,I.LUQUE,J.A.GAVIRA, REMARK 1 AUTH 2 J.M.GARCIA-RUIZ REMARK 1 TITL CRYSTALLIZATION BY CAPILLARY COUNTER-DIFFUSION AND STRUCTURE REMARK 1 TITL 2 DETERMINATION OF THE N114A MUTANT OF THE SH3 DOMAIN OF ABL REMARK 1 TITL 3 TYROSINE KINASE COMPLEXED WITH A HIGH-AFFINITY PEPTIDE REMARK 1 TITL 4 LIGAND REMARK 1 REF ACTA CRYSTALLOGR.,SECT.D V. 63 646 2007 REMARK 1 REFN ISSN 0907-4449 REMARK 2 REMARK 2 RESOLUTION. 1.85 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.2.0019 REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN REMARK 3 REMARK 3 REFINEMENT TARGET : MAXIMUM LIKELIHOOD REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.85 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 18.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 92.8 REMARK 3 NUMBER OF REFLECTIONS : 10098 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) : 0.192 REMARK 3 R VALUE (WORKING SET) : 0.185 REMARK 3 FREE R VALUE : 0.248 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 9.900 REMARK 3 FREE R VALUE TEST SET COUNT : 998 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) : 1.85 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.90 REMARK 3 REFLECTION IN BIN (WORKING SET) : 474 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 69.63 REMARK 3 BIN R VALUE (WORKING SET) : 0.2020 REMARK 3 BIN FREE R VALUE SET COUNT : 58 REMARK 3 BIN FREE R VALUE : 0.2860 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 1045 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 10 REMARK 3 SOLVENT ATOMS : 54 REMARK 3 REMARK 3 B VALUES. REMARK 3 B VALUE TYPE : LIKELY RESIDUAL REMARK 3 FROM WILSON PLOT (A**2) : 17.69 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 16.61 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.14000 REMARK 3 B22 (A**2) : -0.09000 REMARK 3 B33 (A**2) : -0.05000 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): 0.178 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.170 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.106 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 7.118 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.954 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.926 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 1091 ; 0.012 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 1500 ; 2.106 ; 1.976 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 132 ; 6.363 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 47 ;37.555 ;25.319 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 147 ;15.556 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 2 ;16.349 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 155 ; 0.151 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 862 ; 0.014 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 516 ; 0.228 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 746 ; 0.323 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 53 ; 0.156 ; 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): 53 ; 0.179 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 12 ; 0.189 ; 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): 690 ; 1.312 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 1106 ; 1.934 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 466 ; 2.825 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 393 ; 3.849 ; 4.500 REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 ANISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 RIGID-BOND RESTRAINTS (A**2): 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 : 2 REMARK 3 REMARK 3 NCS GROUP NUMBER : 1 REMARK 3 CHAIN NAMES : A B REMARK 3 NUMBER OF COMPONENTS NCS GROUP : 2 REMARK 3 COMPONENT C SSSEQI TO C SSSEQI CODE REMARK 3 1 A 64 A 104 5 REMARK 3 1 B 64 B 104 5 REMARK 3 2 A 109 A 119 5 REMARK 3 2 B 109 B 119 5 REMARK 3 GROUP CHAIN COUNT RMS WEIGHT REMARK 3 MEDIUM POSITIONAL 1 A (A): 208 ; 0.170 ; 0.500 REMARK 3 LOOSE POSITIONAL 1 A (A): 202 ; 0.610 ; 5.000 REMARK 3 MEDIUM THERMAL 1 A (A**2): 208 ; 0.880 ; 2.000 REMARK 3 LOOSE THERMAL 1 A (A**2): 202 ; 1.850 ;10.000 REMARK 3 REMARK 3 NCS GROUP NUMBER : 2 REMARK 3 CHAIN NAMES : C D REMARK 3 NUMBER OF COMPONENTS NCS GROUP : 1 REMARK 3 COMPONENT C SSSEQI TO C SSSEQI CODE REMARK 3 1 C 0 C 10 4 REMARK 3 1 D 0 D 10 4 REMARK 3 GROUP CHAIN COUNT RMS WEIGHT REMARK 3 MEDIUM POSITIONAL 2 C (A): 72 ; 0.170 ; 0.500 REMARK 3 MEDIUM THERMAL 2 C (A**2): 72 ; 0.840 ; 2.000 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 14 REMARK 3 REMARK 3 TLS GROUP : 1 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 64 A 73 REMARK 3 ORIGIN FOR THE GROUP (A): -3.3516 8.5298 -13.5566 REMARK 3 T TENSOR REMARK 3 T11: -0.1143 T22: -0.0628 REMARK 3 T33: -0.1085 T12: 0.0021 REMARK 3 T13: -0.0304 T23: 0.0067 REMARK 3 L TENSOR REMARK 3 L11: 8.7591 L22: 9.1640 REMARK 3 L33: 7.6877 L12: -2.7481 REMARK 3 L13: 0.8999 L23: 4.2004 REMARK 3 S TENSOR REMARK 3 S11: 0.3111 S12: -0.3111 S13: -0.2955 REMARK 3 S21: 0.2099 S22: -0.0843 S23: -0.0008 REMARK 3 S31: 0.3968 S32: 0.2691 S33: -0.2268 REMARK 3 REMARK 3 TLS GROUP : 2 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 74 A 87 REMARK 3 ORIGIN FOR THE GROUP (A): -7.9956 12.5223 -9.4656 REMARK 3 T TENSOR REMARK 3 T11: -0.0977 T22: -0.0843 REMARK 3 T33: -0.0609 T12: -0.0075 REMARK 3 T13: 0.0329 T23: -0.0016 REMARK 3 L TENSOR REMARK 3 L11: 23.4244 L22: 3.9010 REMARK 3 L33: 3.9962 L12: -5.4805 REMARK 3 L13: 0.7792 L23: 1.1940 REMARK 3 S TENSOR REMARK 3 S11: 0.0133 S12: -0.0457 S13: 0.4917 REMARK 3 S21: 0.1098 S22: 0.0845 S23: -0.0456 REMARK 3 S31: -0.0284 S32: 0.0051 S33: -0.0978 REMARK 3 REMARK 3 TLS GROUP : 3 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 88 A 93 REMARK 3 ORIGIN FOR THE GROUP (A): -11.1521 1.6543 -13.4951 REMARK 3 T TENSOR REMARK 3 T11: -0.0546 T22: -0.0763 REMARK 3 T33: 0.0755 T12: 0.0234 REMARK 3 T13: 0.0287 T23: 0.0581 REMARK 3 L TENSOR REMARK 3 L11: 19.9043 L22: 4.1953 REMARK 3 L33: 19.8202 L12: -2.1112 REMARK 3 L13: 10.1342 L23: 6.5554 REMARK 3 S TENSOR REMARK 3 S11: -0.2563 S12: -0.3230 S13: -0.5923 REMARK 3 S21: 0.2549 S22: 0.2965 S23: 0.2887 REMARK 3 S31: 1.0282 S32: 0.3351 S33: -0.0402 REMARK 3 REMARK 3 TLS GROUP : 4 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 94 A 99 REMARK 3 ORIGIN FOR THE GROUP (A): -15.7228 9.7662 -22.0531 REMARK 3 T TENSOR REMARK 3 T11: -0.0757 T22: -0.0452 REMARK 3 T33: 0.0384 T12: 0.0536 REMARK 3 T13: -0.0696 T23: 0.0048 REMARK 3 L TENSOR REMARK 3 L11: 6.6799 L22: 19.1902 REMARK 3 L33: 20.5698 L12: 4.6249 REMARK 3 L13: 3.5426 L23: 6.0563 REMARK 3 S TENSOR REMARK 3 S11: 0.2340 S12: 0.4465 S13: -0.0640 REMARK 3 S21: -1.0319 S22: -0.3808 S23: 1.0244 REMARK 3 S31: 0.3669 S32: -0.7131 S33: 0.1468 REMARK 3 REMARK 3 TLS GROUP : 5 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 100 A 109 REMARK 3 ORIGIN FOR THE GROUP (A): -11.1473 6.0147 -6.7159 REMARK 3 T TENSOR REMARK 3 T11: -0.0325 T22: 0.0539 REMARK 3 T33: -0.0177 T12: 0.0697 REMARK 3 T13: -0.0209 T23: 0.0028 REMARK 3 L TENSOR REMARK 3 L11: 24.2608 L22: 5.3694 REMARK 3 L33: 23.2022 L12: -8.3338 REMARK 3 L13: -7.3889 L23: -4.3350 REMARK 3 S TENSOR REMARK 3 S11: -0.7235 S12: -1.8988 S13: -0.1415 REMARK 3 S21: 0.6172 S22: 0.7593 S23: -0.0814 REMARK 3 S31: 0.5885 S32: 1.3116 S33: -0.0358 REMARK 3 REMARK 3 TLS GROUP : 6 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 110 A 121 REMARK 3 ORIGIN FOR THE GROUP (A): -5.0277 6.2936 -16.9306 REMARK 3 T TENSOR REMARK 3 T11: -0.0049 T22: -0.1157 REMARK 3 T33: -0.0757 T12: -0.0060 REMARK 3 T13: 0.0079 T23: -0.0038 REMARK 3 L TENSOR REMARK 3 L11: 8.2578 L22: 4.3163 REMARK 3 L33: 3.1650 L12: -5.8739 REMARK 3 L13: 1.7039 L23: -1.6543 REMARK 3 S TENSOR REMARK 3 S11: -0.0157 S12: 0.0141 S13: -0.0074 REMARK 3 S21: -0.1553 S22: -0.0385 S23: -0.1895 REMARK 3 S31: 0.3579 S32: 0.3722 S33: 0.0542 REMARK 3 REMARK 3 TLS GROUP : 7 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : B 64 B 69 REMARK 3 ORIGIN FOR THE GROUP (A): -31.8837 2.1533 -9.3193 REMARK 3 T TENSOR REMARK 3 T11: -0.0235 T22: 0.0282 REMARK 3 T33: -0.0304 T12: 0.0305 REMARK 3 T13: -0.0683 T23: 0.0169 REMARK 3 L TENSOR REMARK 3 L11: 12.2038 L22: 17.8050 REMARK 3 L33: 21.3756 L12: 2.4741 REMARK 3 L13: -4.5110 L23: -1.5800 REMARK 3 S TENSOR REMARK 3 S11: 0.1838 S12: 1.3117 S13: 0.4366 REMARK 3 S21: -1.0604 S22: 0.2533 S23: -0.1832 REMARK 3 S31: 0.2418 S32: -0.4253 S33: -0.4370 REMARK 3 REMARK 3 TLS GROUP : 8 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : B 70 B 76 REMARK 3 ORIGIN FOR THE GROUP (A): -26.9551 3.7602 4.3758 REMARK 3 T TENSOR REMARK 3 T11: -0.0883 T22: -0.0474 REMARK 3 T33: -0.0621 T12: 0.0397 REMARK 3 T13: 0.0233 T23: -0.0765 REMARK 3 L TENSOR REMARK 3 L11: 11.6007 L22: 13.1771 REMARK 3 L33: 17.0841 L12: 4.8037 REMARK 3 L13: 6.1577 L23: 3.1860 REMARK 3 S TENSOR REMARK 3 S11: 0.1534 S12: -0.2600 S13: 0.5520 REMARK 3 S21: 0.3530 S22: -0.0034 S23: -0.1257 REMARK 3 S31: 0.4004 S32: 0.5206 S33: -0.1500 REMARK 3 REMARK 3 TLS GROUP : 9 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : B 77 B 87 REMARK 3 ORIGIN FOR THE GROUP (A): -26.7294 6.6380 -0.8088 REMARK 3 T TENSOR REMARK 3 T11: -0.0768 T22: -0.0857 REMARK 3 T33: -0.0404 T12: -0.0047 REMARK 3 T13: 0.0080 T23: -0.0011 REMARK 3 L TENSOR REMARK 3 L11: 32.9398 L22: 3.6196 REMARK 3 L33: 5.2894 L12: 0.1601 REMARK 3 L13: 6.1147 L23: 0.3231 REMARK 3 S TENSOR REMARK 3 S11: 0.1634 S12: -0.2783 S13: 0.3503 REMARK 3 S21: -0.0492 S22: -0.2521 S23: 0.0674 REMARK 3 S31: -0.2583 S32: 0.0234 S33: 0.0887 REMARK 3 REMARK 3 TLS GROUP : 10 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : B 88 B 93 REMARK 3 ORIGIN FOR THE GROUP (A): -23.4661 1.8684 -10.6803 REMARK 3 T TENSOR REMARK 3 T11: -0.0434 T22: -0.0688 REMARK 3 T33: -0.0831 T12: -0.0217 REMARK 3 T13: -0.0207 T23: -0.0022 REMARK 3 L TENSOR REMARK 3 L11: 27.8752 L22: 30.3396 REMARK 3 L33: 8.2894 L12: -24.3902 REMARK 3 L13: -1.6982 L23: -1.5957 REMARK 3 S TENSOR REMARK 3 S11: -0.2414 S12: 0.1998 S13: -0.2677 REMARK 3 S21: -0.2141 S22: 0.0700 S23: 0.3464 REMARK 3 S31: 0.4712 S32: -0.2601 S33: 0.1714 REMARK 3 REMARK 3 TLS GROUP : 11 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : B 94 B 102 REMARK 3 ORIGIN FOR THE GROUP (A): -19.4207 -4.2114 -3.4429 REMARK 3 T TENSOR REMARK 3 T11: -0.0630 T22: -0.0413 REMARK 3 T33: -0.0375 T12: 0.0697 REMARK 3 T13: -0.0161 T23: -0.0013 REMARK 3 L TENSOR REMARK 3 L11: 6.4953 L22: 16.3868 REMARK 3 L33: 9.6765 L12: -3.4693 REMARK 3 L13: 0.9400 L23: -2.0236 REMARK 3 S TENSOR REMARK 3 S11: 0.4396 S12: 0.2826 S13: -0.2884 REMARK 3 S21: -0.6262 S22: -0.4457 S23: -0.4078 REMARK 3 S31: 0.8835 S32: 0.7205 S33: 0.0061 REMARK 3 REMARK 3 TLS GROUP : 12 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : B 103 B 119 REMARK 3 ORIGIN FOR THE GROUP (A): -26.2549 3.4366 -4.8635 REMARK 3 T TENSOR REMARK 3 T11: -0.0971 T22: -0.0836 REMARK 3 T33: -0.0742 T12: 0.0238 REMARK 3 T13: -0.0087 T23: -0.0330 REMARK 3 L TENSOR REMARK 3 L11: 7.0967 L22: 4.0949 REMARK 3 L33: 4.4336 L12: 2.8609 REMARK 3 L13: -1.2243 L23: -2.3191 REMARK 3 S TENSOR REMARK 3 S11: 0.1811 S12: 0.1605 S13: 0.3711 REMARK 3 S21: -0.3058 S22: -0.2358 S23: 0.1538 REMARK 3 S31: -0.0744 S32: -0.2244 S33: 0.0547 REMARK 3 REMARK 3 TLS GROUP : 13 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : C 1 C 10 REMARK 3 ORIGIN FOR THE GROUP (A): -11.5095 16.6731 -20.1805 REMARK 3 T TENSOR REMARK 3 T11: -0.0243 T22: -0.0730 REMARK 3 T33: 0.0028 T12: 0.0073 REMARK 3 T13: -0.0301 T23: 0.0389 REMARK 3 L TENSOR REMARK 3 L11: 12.9842 L22: 6.0150 REMARK 3 L33: 7.2800 L12: 5.4948 REMARK 3 L13: -5.4242 L23: -4.5260 REMARK 3 S TENSOR REMARK 3 S11: 0.1559 S12: 0.1025 S13: -0.0869 REMARK 3 S21: -0.1054 S22: -0.2859 S23: -0.0994 REMARK 3 S31: -0.5100 S32: 0.2295 S33: 0.1300 REMARK 3 REMARK 3 TLS GROUP : 14 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : D 1 D 10 REMARK 3 ORIGIN FOR THE GROUP (A): -22.9282 -4.1184 4.6118 REMARK 3 T TENSOR REMARK 3 T11: 0.0001 T22: -0.0407 REMARK 3 T33: -0.0776 T12: 0.0694 REMARK 3 T13: -0.0210 T23: 0.0296 REMARK 3 L TENSOR REMARK 3 L11: 2.1446 L22: 8.7831 REMARK 3 L33: 9.3245 L12: 2.0286 REMARK 3 L13: 2.6821 L23: -3.8645 REMARK 3 S TENSOR REMARK 3 S11: 0.2451 S12: -0.5930 S13: -0.0448 REMARK 3 S21: -0.0634 S22: -0.0277 S23: 0.3342 REMARK 3 S31: 0.4587 S32: -0.3767 S33: -0.2174 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : MASK 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: HYDROGENS HAVE BEEN ADDED IN THE RIDING REMARK 3 POSITIONS REMARK 4 REMARK 4 3EG1 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 16-SEP-08. REMARK 100 THE DEPOSITION ID IS D_1000049277. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 19-DEC-05 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 3.5 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 : BRUKER AXS MICROSTAR REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.54 REMARK 200 MONOCHROMATOR : BRUKER MICROSTAR MICRO-FOCUS REMARK 200 OPTICS : MONTEL OPTICS REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : BRUKER SMART 6000 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : SAINT REMARK 200 DATA SCALING SOFTWARE : SAINT, SCALA REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 10158 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.850 REMARK 200 RESOLUTION RANGE LOW (A) : 47.636 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 92.8 REMARK 200 DATA REDUNDANCY : 7.600 REMARK 200 R MERGE (I) : 0.06530 REMARK 200 R SYM (I) : 0.06530 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) : 1.85 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.95 REMARK 200 COMPLETENESS FOR SHELL (%) : 72.5 REMARK 200 DATA REDUNDANCY IN SHELL : 1.26 REMARK 200 R MERGE FOR SHELL (I) : 0.24260 REMARK 200 R SYM FOR SHELL (I) : 0.26490 REMARK 200 <I/SIGMA(I)> FOR SHELL : 3.490 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: PDB ENTRY 2O88 REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 34.98 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 1.89 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 2M AMMONIUM SULPHATE, 0.4 M NACL, 0.1 REMARK 280 M SODIUM CITRATE, 10% GLYCEROL, PH 3.5, VAPOR DIFFUSION, HANGING REMARK 280 DROP, TEMPERATURE 288K 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 22.99800 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 27.83100 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 23.81800 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 27.83100 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 22.99800 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 23.81800 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1, 2, 3 REMARK 300 SEE REMARK 350 FOR THE AUTHOR PROVIDED AND/OR PROGRAM REMARK 300 GENERATED ASSEMBLY INFORMATION FOR THE STRUCTURE IN REMARK 300 THIS ENTRY. THE REMARK MAY ALSO PROVIDE INFORMATION ON REMARK 300 BURIED SURFACE AREA. REMARK 350 REMARK 350 COORDINATES FOR A COMPLETE MULTIMER REPRESENTING THE KNOWN REMARK 350 BIOLOGICALLY SIGNIFICANT OLIGOMERIZATION STATE OF THE REMARK 350 MOLECULE CAN BE GENERATED BY APPLYING BIOMT TRANSFORMATIONS REMARK 350 GIVEN BELOW. BOTH NON-CRYSTALLOGRAPHIC AND REMARK 350 CRYSTALLOGRAPHIC OPERATIONS ARE GIVEN. REMARK 350 REMARK 350 BIOMOLECULE: 1 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: TETRAMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B, 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 350 REMARK 350 BIOMOLECULE: 2 REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 1110 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 4370 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -9.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, C 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: 3 REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 1120 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 3970 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -8.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: B, 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 MET A 59 REMARK 465 GLU A 60 REMARK 465 ASN A 61 REMARK 465 ASP A 62 REMARK 465 PRO A 63 REMARK 465 MET B 59 REMARK 465 GLU B 60 REMARK 465 ASN B 61 REMARK 465 ASP B 62 REMARK 465 PRO B 63 REMARK 465 ASN B 120 REMARK 465 SER B 121 REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: TORSION ANGLES REMARK 500 REMARK 500 TORSION ANGLES OUTSIDE THE EXPECTED RAMACHANDRAN REGIONS: REMARK 500 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 500 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT:(10X,I3,1X,A3,1X,A1,I4,A1,4X,F7.2,3X,F7.2) REMARK 500 REMARK 500 EXPECTED VALUES: GJ KLEYWEGT AND TA JONES (1996). PHI/PSI- REMARK 500 CHOLOGY: RAMACHANDRAN REVISITED. STRUCTURE 4, 1395 - 1400 REMARK 500 REMARK 500 M RES CSSEQI PSI PHI REMARK 500 ASN A 106 17.10 -146.26 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 ACE C 0 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ACE D 0 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 A 2 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 B 1 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 2O88 RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF THE N114A MUTANT OF ABL-SH3 DOMAIN COMPLEXED REMARK 900 WITH A DESIGNED HIGH-AFFINITY PEPTIDE LIGAND: IMPLICATIONS FOR SH3- REMARK 900 LIGAND INTERACTIONS REMARK 900 RELATED ID: 1BBZ RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF THE ABL-SH3 DOMAIN COMPLEXED WITH A DESIGNED REMARK 900 HIGH-AFFINITY PEPTIDE LIGAND: IMPLICATIONS FOR SH3-LIGAND REMARK 900 INTERACTIONS REMARK 900 RELATED ID: 3EG0 RELATED DB: PDB REMARK 900 RELATED ID: 3EG2 RELATED DB: PDB REMARK 900 RELATED ID: 3EG3 RELATED DB: PDB DBREF 3EG1 A 60 121 UNP P00519 ABL1_HUMAN 60 121 DBREF 3EG1 B 60 121 UNP P00519 ABL1_HUMAN 60 121 DBREF 3EG1 C 0 10 PDB 3EG1 3EG1 0 10 DBREF 3EG1 D 0 10 PDB 3EG1 3EG1 0 10 SEQADV 3EG1 MET A 59 UNP P00519 INITIATING METHIONINE SEQADV 3EG1 GLN A 114 UNP P00519 ASN 114 ENGINEERED MUTATION SEQADV 3EG1 MET B 59 UNP P00519 INITIATING METHIONINE SEQADV 3EG1 GLN B 114 UNP P00519 ASN 114 ENGINEERED MUTATION SEQRES 1 A 63 MET GLU ASN ASP PRO ASN LEU PHE VAL ALA LEU TYR ASP SEQRES 2 A 63 PHE VAL ALA SER GLY ASP ASN THR LEU SER ILE THR LYS SEQRES 3 A 63 GLY GLU LYS LEU ARG VAL LEU GLY TYR ASN HIS ASN GLY SEQRES 4 A 63 GLU TRP CYS GLU ALA GLN THR LYS ASN GLY GLN GLY TRP SEQRES 5 A 63 VAL PRO SER GLN TYR ILE THR PRO VAL ASN SER SEQRES 1 B 63 MET GLU ASN ASP PRO ASN LEU PHE VAL ALA LEU TYR ASP SEQRES 2 B 63 PHE VAL ALA SER GLY ASP ASN THR LEU SER ILE THR LYS SEQRES 3 B 63 GLY GLU LYS LEU ARG VAL LEU GLY TYR ASN HIS ASN GLY SEQRES 4 B 63 GLU TRP CYS GLU ALA GLN THR LYS ASN GLY GLN GLY TRP SEQRES 5 B 63 VAL PRO SER GLN TYR ILE THR PRO VAL ASN SER SEQRES 1 C 11 ACE ALA PRO SER TYR SER PRO PRO PRO PRO PRO SEQRES 1 D 11 ACE ALA PRO SER TYR SER PRO PRO PRO PRO PRO HET ACE C 0 3 HET ACE D 0 3 HET SO4 A 2 5 HET SO4 B 1 5 HETNAM ACE ACETYL GROUP HETNAM SO4 SULFATE ION FORMUL 3 ACE 2(C2 H4 O) FORMUL 5 SO4 2(O4 S 2-) FORMUL 7 HOH *54(H2 O) SHEET 1 A 5 GLY A 107 PRO A 112 0 SHEET 2 A 5 TRP A 99 THR A 104 -1 N THR A 104 O GLY A 107 SHEET 3 A 5 LYS A 87 TYR A 93 -1 N LEU A 91 O GLU A 101 SHEET 4 A 5 LEU A 65 ALA A 68 -1 N PHE A 66 O LEU A 88 SHEET 5 A 5 ILE A 116 PRO A 118 -1 O THR A 117 N VAL A 67 SHEET 1 B 5 GLY B 107 PRO B 112 0 SHEET 2 B 5 TRP B 99 THR B 104 -1 N THR B 104 O GLY B 107 SHEET 3 B 5 LYS B 87 TYR B 93 -1 N LEU B 91 O GLU B 101 SHEET 4 B 5 LEU B 65 ALA B 68 -1 N PHE B 66 O LEU B 88 SHEET 5 B 5 ILE B 116 PRO B 118 -1 O THR B 117 N VAL B 67 LINK C ACE C 0 N ALA C 1 1555 1555 1.34 LINK C ACE D 0 N ALA D 1 1555 1555 1.33 SITE 1 AC1 4 TRP A 110 ARG B 89 GLN B 103 ALA C 1 SITE 1 AC2 4 GLN A 103 ASN B 78 TRP B 110 ALA D 1 SITE 1 AC3 5 HOH A 48 ASN A 94 HIS A 95 ARG B 89 SITE 2 AC3 5 ALA C 1 SITE 1 AC4 3 ASN B 94 HIS B 95 HOH B 132 CRYST1 45.996 47.636 55.662 90.00 90.00 90.00 P 21 21 21 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 0.021741 0.000000 0.000000 0.00000 SCALE2 0.000000 0.020993 0.000000 0.00000 SCALE3 0.000000 0.000000 0.017966 0.00000