PDB Short entry for 4OJK HEADER HYDROLASE/PROTEIN BINDING 21-JAN-14 4OJK TITLE STRUCTURE OF THE CGMP DEPENDENT PROTEIN KINASE II AND RAB11B COMPLEX COMPND MOL_ID: 1; COMPND 2 MOLECULE: RAS-RELATED PROTEIN RAB-11B; COMPND 3 CHAIN: A, B; COMPND 4 SYNONYM: GTP-BINDING PROTEIN YPT3; COMPND 5 EC: 3.6.5.2; COMPND 6 ENGINEERED: YES; COMPND 7 MUTATION: YES; COMPND 8 MOL_ID: 2; COMPND 9 MOLECULE: CGMP-DEPENDENT PROTEIN KINASE 2; COMPND 10 CHAIN: C, D; COMPND 11 FRAGMENT: UNP RESIDUES 40-83; COMPND 12 SYNONYM: CGK 2, CGK2, CGMP-DEPENDENT PROTEIN KINASE II, CGKII; 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 GENE: RAB11B, YPT3; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 MOL_ID: 2; SOURCE 9 ORGANISM_SCIENTIFIC: RATTUS NORVEGICUS; SOURCE 10 ORGANISM_COMMON: BROWN RAT,RAT,RATS; SOURCE 11 ORGANISM_TAXID: 10116; SOURCE 12 GENE: PRKG2; SOURCE 13 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 14 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS SMALL GTPASE, LEUCINE ZIPPER, TRAFFICKING, SERINE/THREONINE KINASE, KEYWDS 2 MEMBRANE ASSOCIATED, HYDROLASE-PROTEIN BINDING COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR A.S.REGER,M.P.YANG,E.GUO,C.KIM REVDAT 5 20-SEP-23 4OJK 1 REMARK SEQADV REVDAT 4 22-NOV-17 4OJK 1 REMARK REVDAT 3 01-OCT-14 4OJK 1 JRNL REVDAT 2 20-AUG-14 4OJK 1 REMARK REVDAT 1 06-AUG-14 4OJK 0 JRNL AUTH A.S.REGER,M.P.YANG,S.KOIDE-YOSHIDA,E.GUO,S.MEHTA,K.YUASA, JRNL AUTH 2 A.LIU,D.E.CASTEEL,C.KIM JRNL TITL CRYSTAL STRUCTURE OF THE CGMP-DEPENDENT PROTEIN KINASE II JRNL TITL 2 LEUCINE ZIPPER AND RAB11B PROTEIN COMPLEX REVEALS MOLECULAR JRNL TITL 3 DETAILS OF G-KINASE-SPECIFIC INTERACTIONS. JRNL REF J.BIOL.CHEM. V. 289 25393 2014 JRNL REFN ISSN 0021-9258 JRNL PMID 25070890 JRNL DOI 10.1074/JBC.M114.575894 REMARK 2 REMARK 2 RESOLUTION. 2.66 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX (PHENIX.REFINE: 1.8.1_1168) REMARK 3 AUTHORS : PAUL ADAMS,PAVEL AFONINE,VINCENT CHEN,IAN REMARK 3 : DAVIS,KRESHNA GOPAL,RALF GROSSE-KUNSTLEVE, REMARK 3 : LI-WEI HUNG,ROBERT IMMORMINO,TOM IOERGER, REMARK 3 : AIRLIE MCCOY,ERIK MCKEE,NIGEL MORIARTY, REMARK 3 : REETAL PAI,RANDY READ,JANE RICHARDSON, REMARK 3 : DAVID RICHARDSON,TOD ROMO,JIM SACCHETTINI, REMARK 3 : NICHOLAS SAUTER,JACOB SMITH,LAURENT REMARK 3 : STORONI,TOM TERWILLIGER,PETER ZWART REMARK 3 REMARK 3 REFINEMENT TARGET : ML REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.66 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 19.95 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.350 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.2 REMARK 3 NUMBER OF REFLECTIONS : 21125 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.204 REMARK 3 R VALUE (WORKING SET) : 0.201 REMARK 3 FREE R VALUE : 0.251 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.980 REMARK 3 FREE R VALUE TEST SET COUNT : 1051 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 19.9498 - 5.2841 0.98 2644 141 0.1982 0.2376 REMARK 3 2 5.2841 - 4.2070 0.99 2547 135 0.1504 0.1950 REMARK 3 3 4.2070 - 3.6790 1.00 2512 132 0.1708 0.2228 REMARK 3 4 3.6790 - 3.3444 0.99 2500 133 0.2096 0.2561 REMARK 3 5 3.3444 - 3.1056 0.99 2485 129 0.2670 0.3629 REMARK 3 6 3.1056 - 2.9231 0.99 2468 127 0.2852 0.3369 REMARK 3 7 2.9231 - 2.7771 0.99 2464 129 0.3066 0.4082 REMARK 3 8 2.7771 - 2.6565 0.99 2454 125 0.3391 0.3869 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : FLAT BULK SOLVENT MODEL REMARK 3 SOLVENT RADIUS : 1.11 REMARK 3 SHRINKAGE RADIUS : 0.90 REMARK 3 K_SOL : NULL REMARK 3 B_SOL : NULL REMARK 3 REMARK 3 ERROR ESTIMATES. REMARK 3 COORDINATE ERROR (MAXIMUM-LIKELIHOOD BASED) : 0.390 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 30.620 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 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 : 0.003 3184 REMARK 3 ANGLE : 0.694 4330 REMARK 3 CHIRALITY : 0.047 518 REMARK 3 PLANARITY : 0.001 539 REMARK 3 DIHEDRAL : 13.795 1118 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 9 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 6 THROUGH 47 ) REMARK 3 ORIGIN FOR THE GROUP (A): -45.3362 4.5853 -18.3510 REMARK 3 T TENSOR REMARK 3 T11: 0.4054 T22: 0.2738 REMARK 3 T33: 0.4036 T12: -0.0044 REMARK 3 T13: 0.0579 T23: 0.0367 REMARK 3 L TENSOR REMARK 3 L11: 4.7804 L22: 5.9893 REMARK 3 L33: 5.3109 L12: -1.7239 REMARK 3 L13: 2.8765 L23: -1.6861 REMARK 3 S TENSOR REMARK 3 S11: 0.1091 S12: 0.4430 S13: -0.3741 REMARK 3 S21: -0.2991 S22: -0.3157 S23: -0.0783 REMARK 3 S31: 0.5199 S32: 0.2486 S33: 0.2062 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 48 THROUGH 83 ) REMARK 3 ORIGIN FOR THE GROUP (A): -41.6396 -0.3697 -12.2643 REMARK 3 T TENSOR REMARK 3 T11: 0.4713 T22: 0.2216 REMARK 3 T33: 0.6179 T12: 0.0131 REMARK 3 T13: -0.0235 T23: 0.0572 REMARK 3 L TENSOR REMARK 3 L11: 1.7508 L22: 6.6140 REMARK 3 L33: 7.7717 L12: 2.2839 REMARK 3 L13: -1.4960 L23: -4.1417 REMARK 3 S TENSOR REMARK 3 S11: -0.0531 S12: 0.0894 S13: -0.1630 REMARK 3 S21: -0.1073 S22: -0.1837 S23: -0.5924 REMARK 3 S31: -0.2735 S32: 0.1256 S33: -0.0099 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 84 THROUGH 179 ) REMARK 3 ORIGIN FOR THE GROUP (A): -45.2929 14.2557 -7.8417 REMARK 3 T TENSOR REMARK 3 T11: 0.6314 T22: 0.3367 REMARK 3 T33: 0.4503 T12: -0.1521 REMARK 3 T13: -0.0808 T23: 0.0934 REMARK 3 L TENSOR REMARK 3 L11: 5.2725 L22: 4.1420 REMARK 3 L33: 3.7409 L12: -0.8364 REMARK 3 L13: 0.8673 L23: -0.0055 REMARK 3 S TENSOR REMARK 3 S11: 0.1562 S12: -0.5014 S13: 0.0998 REMARK 3 S21: 0.9478 S22: -0.4916 S23: -0.4223 REMARK 3 S31: -0.2191 S32: 0.1221 S33: 0.3098 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 7 THROUGH 66 ) REMARK 3 ORIGIN FOR THE GROUP (A): -32.5886 40.8765 -7.1580 REMARK 3 T TENSOR REMARK 3 T11: 0.4966 T22: 0.4515 REMARK 3 T33: 0.4701 T12: -0.1455 REMARK 3 T13: -0.0002 T23: -0.0206 REMARK 3 L TENSOR REMARK 3 L11: 7.8936 L22: 9.5089 REMARK 3 L33: 5.2470 L12: -0.1867 REMARK 3 L13: 2.9573 L23: 0.4252 REMARK 3 S TENSOR REMARK 3 S11: -0.0053 S12: 0.1193 S13: 0.4009 REMARK 3 S21: 0.1239 S22: -0.2662 S23: -0.4526 REMARK 3 S31: 0.0126 S32: 0.3182 S33: 0.2490 REMARK 3 TLS GROUP : 5 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 67 THROUGH 95 ) REMARK 3 ORIGIN FOR THE GROUP (A): -31.3356 38.7606 4.5921 REMARK 3 T TENSOR REMARK 3 T11: 0.9278 T22: 0.5125 REMARK 3 T33: 0.3918 T12: -0.1232 REMARK 3 T13: -0.1705 T23: -0.0993 REMARK 3 L TENSOR REMARK 3 L11: 6.6461 L22: 1.8049 REMARK 3 L33: 3.7741 L12: 1.0267 REMARK 3 L13: -1.0598 L23: -2.2851 REMARK 3 S TENSOR REMARK 3 S11: 0.6947 S12: -1.1340 S13: -0.0198 REMARK 3 S21: 0.4681 S22: -0.3068 S23: -0.0301 REMARK 3 S31: 0.1358 S32: 0.0780 S33: -0.4110 REMARK 3 TLS GROUP : 6 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 96 THROUGH 135 ) REMARK 3 ORIGIN FOR THE GROUP (A): -33.1843 30.7912 6.7573 REMARK 3 T TENSOR REMARK 3 T11: 1.1957 T22: 0.6503 REMARK 3 T33: 0.5605 T12: -0.4021 REMARK 3 T13: -0.3257 T23: 0.1071 REMARK 3 L TENSOR REMARK 3 L11: 4.4676 L22: 0.8518 REMARK 3 L33: 4.1711 L12: 0.4798 REMARK 3 L13: 0.1248 L23: -2.0625 REMARK 3 S TENSOR REMARK 3 S11: 0.7710 S12: -0.9566 S13: 0.1077 REMARK 3 S21: 1.4055 S22: -0.7163 S23: -0.9673 REMARK 3 S31: 0.4265 S32: 0.2913 S33: -0.2128 REMARK 3 TLS GROUP : 7 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 136 THROUGH 178 ) REMARK 3 ORIGIN FOR THE GROUP (A): -40.8729 31.8836 -0.9430 REMARK 3 T TENSOR REMARK 3 T11: 0.7994 T22: 0.4638 REMARK 3 T33: 0.4090 T12: -0.1898 REMARK 3 T13: -0.0590 T23: -0.0439 REMARK 3 L TENSOR REMARK 3 L11: 4.6507 L22: 5.1642 REMARK 3 L33: 1.5269 L12: 0.8671 REMARK 3 L13: -0.1714 L23: 0.6738 REMARK 3 S TENSOR REMARK 3 S11: 0.1978 S12: -0.3260 S13: -0.1950 REMARK 3 S21: 1.2075 S22: -0.4861 S23: -0.0154 REMARK 3 S31: 0.5603 S32: -0.0872 S33: 0.1712 REMARK 3 TLS GROUP : 8 REMARK 3 SELECTION: CHAIN 'C' AND (RESID 47 THROUGH 83 ) REMARK 3 ORIGIN FOR THE GROUP (A): -40.0768 -10.6545 -11.3843 REMARK 3 T TENSOR REMARK 3 T11: 0.4199 T22: 0.4168 REMARK 3 T33: 0.4936 T12: 0.0859 REMARK 3 T13: 0.0165 T23: 0.1626 REMARK 3 L TENSOR REMARK 3 L11: 2.9925 L22: 6.4093 REMARK 3 L33: 7.4253 L12: 4.2664 REMARK 3 L13: 2.8690 L23: 2.3412 REMARK 3 S TENSOR REMARK 3 S11: -0.1480 S12: -0.3781 S13: 0.2799 REMARK 3 S21: 0.0395 S22: -0.4731 S23: -0.3998 REMARK 3 S31: 0.4661 S32: 0.4792 S33: 0.4339 REMARK 3 TLS GROUP : 9 REMARK 3 SELECTION: CHAIN 'D' AND (RESID 49 THROUGH 81 ) REMARK 3 ORIGIN FOR THE GROUP (A): -31.5994 56.2862 -0.6158 REMARK 3 T TENSOR REMARK 3 T11: 0.6598 T22: 0.3639 REMARK 3 T33: 0.7973 T12: -0.1099 REMARK 3 T13: 0.3330 T23: -0.1650 REMARK 3 L TENSOR REMARK 3 L11: 9.0962 L22: 2.7866 REMARK 3 L33: 6.0625 L12: -0.6029 REMARK 3 L13: 4.3971 L23: 0.0455 REMARK 3 S TENSOR REMARK 3 S11: -0.2655 S12: -2.2337 S13: 0.4806 REMARK 3 S21: 1.5224 S22: -0.2581 S23: 0.9297 REMARK 3 S31: 0.9133 S32: -0.8138 S33: 0.0734 REMARK 3 REMARK 3 NCS DETAILS REMARK 3 NUMBER OF NCS GROUPS : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 4OJK COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 23-JAN-14. REMARK 100 THE DEPOSITION ID IS D_1000084573. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 08-AUG-12 REMARK 200 TEMPERATURE (KELVIN) : 77 REMARK 200 PH : 8.2 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : APS REMARK 200 BEAMLINE : 31-ID REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : .97931 REMARK 200 MONOCHROMATOR : KOHZU HLD-4 DOUBLE CRYSTAL REMARK 200 DIAMOND (111) REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : RAYONIX MX-225 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : MOSFLM REMARK 200 DATA SCALING SOFTWARE : SCALA REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 21139 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.657 REMARK 200 RESOLUTION RANGE LOW (A) : 19.949 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 1.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.2 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) : 2.66 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.80 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.5 REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : 0.69500 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> FOR SHELL : 3.500 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: PDB ENTRY 2F9L REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 61.71 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.21 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.056M SODIUM PHOSPHATE MONOBASIC REMARK 280 MONOHYDRATE, 1.344 M POTASSIUM PHOSPHATE DIBASIC, 10 MM REMARK 280 ETHYLENEDIAMINETETRAACETIC ACID DISODIUM SALT DEHYDRATE., PH 8.2, REMARK 280 VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 295K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 43 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+3/4 REMARK 290 4555 Y+1/2,-X+1/2,Z+1/4 REMARK 290 5555 -X+1/2,Y+1/2,-Z+3/4 REMARK 290 6555 X+1/2,-Y+1/2,-Z+1/4 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 38.49850 REMARK 290 SMTRY1 3 0.000000 -1.000000 0.000000 68.00350 REMARK 290 SMTRY2 3 1.000000 0.000000 0.000000 68.00350 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 57.74775 REMARK 290 SMTRY1 4 0.000000 1.000000 0.000000 68.00350 REMARK 290 SMTRY2 4 -1.000000 0.000000 0.000000 68.00350 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 19.24925 REMARK 290 SMTRY1 5 -1.000000 0.000000 0.000000 68.00350 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 68.00350 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 57.74775 REMARK 290 SMTRY1 6 1.000000 0.000000 0.000000 68.00350 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 68.00350 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 19.24925 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 38.49850 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 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TETRAMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 6730 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 18230 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -52.0 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 APPLY THE FOLLOWING TO CHAINS: B, D REMARK 350 BIOMT1 2 -1.000000 0.000000 0.000000 -68.00350 REMARK 350 BIOMT2 2 0.000000 1.000000 0.000000 -68.00350 REMARK 350 BIOMT3 2 0.000000 0.000000 -1.000000 -19.24925 REMARK 350 REMARK 350 BIOMOLECULE: 2 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 2250 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 10990 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -19.0 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 AUTHOR DETERMINED BIOLOGICAL UNIT: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 1970 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 9740 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -16.0 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 GLN A 180 REMARK 465 ILE A 181 REMARK 465 ALA A 182 REMARK 465 ASP A 183 REMARK 465 ARG A 184 REMARK 465 ALA A 185 REMARK 465 ALA A 186 REMARK 465 HIS A 187 REMARK 465 ASP A 188 REMARK 465 GLU A 189 REMARK 465 SER A 190 REMARK 465 PRO A 191 REMARK 465 GLY A 192 REMARK 465 ASN A 193 REMARK 465 ASN A 194 REMARK 465 VAL A 195 REMARK 465 VAL A 196 REMARK 465 ASP A 197 REMARK 465 ILE A 198 REMARK 465 SER A 199 REMARK 465 VAL A 200 REMARK 465 PRO A 201 REMARK 465 PRO A 202 REMARK 465 THR A 203 REMARK 465 THR A 204 REMARK 465 ASP A 205 REMARK 465 GLY B 6 REMARK 465 SER B 40 REMARK 465 LYS B 41 REMARK 465 SER B 42 REMARK 465 THR B 43 REMARK 465 ALA B 68 REMARK 465 GLY B 69 REMARK 465 GLN B 70 REMARK 465 GLU B 71 REMARK 465 ARG B 72 REMARK 465 TYR B 73 REMARK 465 ARG B 74 REMARK 465 ALA B 75 REMARK 465 LYS B 179 REMARK 465 GLN B 180 REMARK 465 ILE B 181 REMARK 465 ALA B 182 REMARK 465 ASP B 183 REMARK 465 ARG B 184 REMARK 465 ALA B 185 REMARK 465 ALA B 186 REMARK 465 HIS B 187 REMARK 465 ASP B 188 REMARK 465 GLU B 189 REMARK 465 SER B 190 REMARK 465 PRO B 191 REMARK 465 GLY B 192 REMARK 465 ASN B 193 REMARK 465 ASN B 194 REMARK 465 VAL B 195 REMARK 465 VAL B 196 REMARK 465 ASP B 197 REMARK 465 ILE B 198 REMARK 465 SER B 199 REMARK 465 VAL B 200 REMARK 465 PRO B 201 REMARK 465 PRO B 202 REMARK 465 THR B 203 REMARK 465 THR B 204 REMARK 465 ASP B 205 REMARK 465 GLY C 38 REMARK 465 SER C 39 REMARK 465 LYS C 40 REMARK 465 ASP C 41 REMARK 465 ALA C 42 REMARK 465 GLU C 43 REMARK 465 LEU C 44 REMARK 465 GLN C 45 REMARK 465 GLU C 46 REMARK 465 GLY D 38 REMARK 465 SER D 39 REMARK 465 LYS D 40 REMARK 465 ASP D 41 REMARK 465 ALA D 42 REMARK 465 GLU D 43 REMARK 465 LEU D 44 REMARK 465 GLN D 45 REMARK 465 GLU D 46 REMARK 465 ARG D 47 REMARK 465 GLU D 48 REMARK 465 LEU D 82 REMARK 465 GLN D 83 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 72 CZ NH1 NH2 REMARK 470 ARG A 74 CZ NH1 NH2 REMARK 470 GLU A 103 CG CD OE1 OE2 REMARK 470 LYS A 107 CG CD CE NZ REMARK 470 ARG A 110 CG CD NE CZ NH1 NH2 REMARK 470 SER A 115 OG REMARK 470 LYS A 179 CG CD CE NZ REMARK 470 GLU B 39 CG CD OE1 OE2 REMARK 470 ILE B 44 CG1 CG2 CD1 REMARK 470 GLU B 47 CG CD OE1 OE2 REMARK 470 THR B 77 OG1 CG2 REMARK 470 ARG B 82 CZ NH1 NH2 REMARK 470 GLU B 100 CG CD OE1 OE2 REMARK 470 GLU B 103 CG CD OE1 OE2 REMARK 470 ARG B 104 CG CD NE CZ NH1 NH2 REMARK 470 ARG B 110 CG CD NE CZ NH1 NH2 REMARK 470 SER B 115 OG REMARK 470 ASN B 116 CG OD1 ND2 REMARK 470 GLU B 144 CG CD OE1 OE2 REMARK 470 LYS B 145 CG CD CE NZ REMARK 470 GLU B 171 CG CD OE1 OE2 REMARK 470 ARG B 174 CG CD NE CZ NH1 NH2 REMARK 470 GLN B 178 CG CD OE1 NE2 REMARK 470 ARG C 47 CG CD NE CZ NH1 NH2 REMARK 470 GLU C 48 CG CD OE1 OE2 REMARK 470 HIS C 50 CG ND1 CD2 CE1 NE2 REMARK 470 LEU C 51 CG CD1 CD2 REMARK 470 LYS C 52 CG CD CE NZ REMARK 470 GLU C 53 CG CD OE1 OE2 REMARK 470 ARG C 55 CZ NH1 NH2 REMARK 470 LYS C 81 CD CE NZ REMARK 470 GLN C 83 CG CD OE1 NE2 REMARK 470 TYR D 49 CG CD1 CD2 CE1 CE2 CZ OH REMARK 470 HIS D 50 CG ND1 CD2 CE1 NE2 REMARK 470 LEU D 51 CG CD1 CD2 REMARK 470 LYS D 52 CG CD CE NZ REMARK 470 GLU D 53 CG CD OE1 OE2 REMARK 470 ARG D 55 CG CD NE CZ NH1 NH2 REMARK 470 GLU D 56 CG CD OE1 OE2 REMARK 470 LEU D 58 CG CD1 CD2 REMARK 470 LYS D 60 CG CD CE NZ REMARK 470 LYS D 75 CG CD CE NZ REMARK 470 LYS D 81 CG CD CE NZ 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 SER A 7 -158.79 -90.76 REMARK 500 ILE A 44 -157.54 -137.34 REMARK 500 ARG A 72 -25.60 -161.79 REMARK 500 LEU A 128 35.56 -95.65 REMARK 500 GLN A 178 36.65 -87.65 REMARK 500 ARG B 33 17.42 -149.06 REMARK 500 LEU B 128 41.39 -106.24 REMARK 500 LEU C 82 -93.20 -99.88 REMARK 500 HIS D 50 37.00 -88.13 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 GDP A 301 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GDP B 301 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1ZXA RELATED DB: PDB REMARK 900 SOLUTION STRUCTURE OF THE COILED-COIL DOMAIN OF CGMP-DEPENDENT REMARK 900 PROTEIN KINASE IA REMARK 900 RELATED ID: 3NMD RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF THE LEUCINE ZIPPER DOMAIN OF CGMP DEPENDENT REMARK 900 PROTEIN KINASE I BETA REMARK 900 RELATED ID: 2F9L RELATED DB: PDB REMARK 900 3D STRUCTURE OF INACTIVE HUMAN RAB11B GTPASE REMARK 900 RELATED ID: 2F9M RELATED DB: PDB REMARK 900 3D STRUCTURE OF ACTIVE HUMAN RAB11B GTPASE DBREF 4OJK A 8 205 UNP Q15907 RB11B_HUMAN 8 205 DBREF 4OJK B 8 205 UNP Q15907 RB11B_HUMAN 8 205 DBREF 4OJK C 40 83 UNP Q64595 KGP2_RAT 40 83 DBREF 4OJK D 40 83 UNP Q64595 KGP2_RAT 40 83 SEQADV 4OJK GLY A 6 UNP Q15907 EXPRESSION TAG SEQADV 4OJK SER A 7 UNP Q15907 EXPRESSION TAG SEQADV 4OJK GLY B 6 UNP Q15907 EXPRESSION TAG SEQADV 4OJK SER B 7 UNP Q15907 EXPRESSION TAG SEQADV 4OJK GLY C 38 UNP Q64595 EXPRESSION TAG SEQADV 4OJK SER C 39 UNP Q64595 EXPRESSION TAG SEQADV 4OJK GLY D 38 UNP Q64595 EXPRESSION TAG SEQADV 4OJK SER D 39 UNP Q64595 EXPRESSION TAG SEQRES 1 A 200 GLY SER TYR ASP TYR LEU PHE LYS VAL VAL LEU ILE GLY SEQRES 2 A 200 ASP SER GLY VAL GLY LYS SER ASN LEU LEU SER ARG PHE SEQRES 3 A 200 THR ARG ASN GLU PHE ASN LEU GLU SER LYS SER THR ILE SEQRES 4 A 200 GLY VAL GLU PHE ALA THR ARG SER ILE GLN VAL ASP GLY SEQRES 5 A 200 LYS THR ILE LYS ALA GLN ILE TRP ASP THR ALA GLY GLN SEQRES 6 A 200 GLU ARG TYR ARG ALA ILE THR SER ALA TYR TYR ARG GLY SEQRES 7 A 200 ALA VAL GLY ALA LEU LEU VAL TYR ASP ILE ALA LYS HIS SEQRES 8 A 200 LEU THR TYR GLU ASN VAL GLU ARG TRP LEU LYS GLU LEU SEQRES 9 A 200 ARG ASP HIS ALA ASP SER ASN ILE VAL ILE MET LEU VAL SEQRES 10 A 200 GLY ASN LYS SER ASP LEU ARG HIS LEU ARG ALA VAL PRO SEQRES 11 A 200 THR ASP GLU ALA ARG ALA PHE ALA GLU LYS ASN ASN LEU SEQRES 12 A 200 SER PHE ILE GLU THR SER ALA LEU ASP SER THR ASN VAL SEQRES 13 A 200 GLU GLU ALA PHE LYS ASN ILE LEU THR GLU ILE TYR ARG SEQRES 14 A 200 ILE VAL SER GLN LYS GLN ILE ALA ASP ARG ALA ALA HIS SEQRES 15 A 200 ASP GLU SER PRO GLY ASN ASN VAL VAL ASP ILE SER VAL SEQRES 16 A 200 PRO PRO THR THR ASP SEQRES 1 B 200 GLY SER TYR ASP TYR LEU PHE LYS VAL VAL LEU ILE GLY SEQRES 2 B 200 ASP SER GLY VAL GLY LYS SER ASN LEU LEU SER ARG PHE SEQRES 3 B 200 THR ARG ASN GLU PHE ASN LEU GLU SER LYS SER THR ILE SEQRES 4 B 200 GLY VAL GLU PHE ALA THR ARG SER ILE GLN VAL ASP GLY SEQRES 5 B 200 LYS THR ILE LYS ALA GLN ILE TRP ASP THR ALA GLY GLN SEQRES 6 B 200 GLU ARG TYR ARG ALA ILE THR SER ALA TYR TYR ARG GLY SEQRES 7 B 200 ALA VAL GLY ALA LEU LEU VAL TYR ASP ILE ALA LYS HIS SEQRES 8 B 200 LEU THR TYR GLU ASN VAL GLU ARG TRP LEU LYS GLU LEU SEQRES 9 B 200 ARG ASP HIS ALA ASP SER ASN ILE VAL ILE MET LEU VAL SEQRES 10 B 200 GLY ASN LYS SER ASP LEU ARG HIS LEU ARG ALA VAL PRO SEQRES 11 B 200 THR ASP GLU ALA ARG ALA PHE ALA GLU LYS ASN ASN LEU SEQRES 12 B 200 SER PHE ILE GLU THR SER ALA LEU ASP SER THR ASN VAL SEQRES 13 B 200 GLU GLU ALA PHE LYS ASN ILE LEU THR GLU ILE TYR ARG SEQRES 14 B 200 ILE VAL SER GLN LYS GLN ILE ALA ASP ARG ALA ALA HIS SEQRES 15 B 200 ASP GLU SER PRO GLY ASN ASN VAL VAL ASP ILE SER VAL SEQRES 16 B 200 PRO PRO THR THR ASP SEQRES 1 C 46 GLY SER LYS ASP ALA GLU LEU GLN GLU ARG GLU TYR HIS SEQRES 2 C 46 LEU LYS GLU LEU ARG GLU GLN LEU ALA LYS GLN THR VAL SEQRES 3 C 46 ALA ILE ALA GLU LEU THR GLU GLU LEU GLN SER LYS CYS SEQRES 4 C 46 ILE GLN LEU ASN LYS LEU GLN SEQRES 1 D 46 GLY SER LYS ASP ALA GLU LEU GLN GLU ARG GLU TYR HIS SEQRES 2 D 46 LEU LYS GLU LEU ARG GLU GLN LEU ALA LYS GLN THR VAL SEQRES 3 D 46 ALA ILE ALA GLU LEU THR GLU GLU LEU GLN SER LYS CYS SEQRES 4 D 46 ILE GLN LEU ASN LYS LEU GLN HET GDP A 301 28 HET GDP B 301 28 HETNAM GDP GUANOSINE-5'-DIPHOSPHATE FORMUL 5 GDP 2(C10 H15 N5 O11 P2) FORMUL 7 HOH *21(H2 O) HELIX 1 1 GLY A 23 ASN A 34 1 12 HELIX 2 2 TYR A 73 ALA A 75 5 3 HELIX 3 3 ILE A 76 ARG A 82 1 7 HELIX 4 4 LYS A 95 ASN A 101 1 7 HELIX 5 5 ASN A 101 ALA A 113 1 13 HELIX 6 6 LYS A 125 ARG A 132 5 8 HELIX 7 7 PRO A 135 ASN A 146 1 12 HELIX 8 8 ASN A 160 GLN A 178 1 19 HELIX 9 9 GLY B 23 ASN B 34 1 12 HELIX 10 10 THR B 77 ARG B 82 1 6 HELIX 11 11 LYS B 95 ASN B 101 1 7 HELIX 12 12 ASN B 101 ALA B 113 1 13 HELIX 13 13 LYS B 125 ARG B 132 5 8 HELIX 14 14 PRO B 135 ASN B 146 1 12 HELIX 15 15 ASN B 160 SER B 177 1 18 HELIX 16 16 GLU C 48 LYS C 81 1 34 HELIX 17 17 LEU D 51 ASN D 80 1 30 SHEET 1 A 6 PHE A 48 VAL A 55 0 SHEET 2 A 6 LYS A 58 ASP A 66 -1 O ALA A 62 N ARG A 51 SHEET 3 A 6 TYR A 10 ILE A 17 1 N TYR A 10 O LYS A 61 SHEET 4 A 6 ALA A 84 ASP A 92 1 O VAL A 90 N ILE A 17 SHEET 5 A 6 VAL A 118 ASN A 124 1 O VAL A 122 N LEU A 89 SHEET 6 A 6 SER A 149 GLU A 152 1 O SER A 149 N LEU A 121 SHEET 1 B 6 GLU B 47 VAL B 55 0 SHEET 2 B 6 LYS B 58 ASP B 66 -1 O ILE B 60 N ILE B 53 SHEET 3 B 6 TYR B 10 ILE B 17 1 N VAL B 14 O TRP B 65 SHEET 4 B 6 GLY B 86 ASP B 92 1 O VAL B 90 N ILE B 17 SHEET 5 B 6 VAL B 118 ASN B 124 1 O VAL B 122 N LEU B 89 SHEET 6 B 6 SER B 149 GLU B 152 1 O SER B 149 N LEU B 121 SITE 1 AC1 22 ASP A 19 GLY A 21 VAL A 22 GLY A 23 SITE 2 AC1 22 LYS A 24 SER A 25 ASN A 26 PHE A 36 SITE 3 AC1 22 ASN A 37 LEU A 38 GLU A 39 LYS A 41 SITE 4 AC1 22 ARG A 74 ALA A 75 ASN A 124 LYS A 125 SITE 5 AC1 22 ASP A 127 LEU A 128 SER A 154 ALA A 155 SITE 6 AC1 22 LEU A 156 HOH A 401 SITE 1 AC2 17 ASP B 19 GLY B 21 VAL B 22 GLY B 23 SITE 2 AC2 17 LYS B 24 SER B 25 ASN B 26 PHE B 36 SITE 3 AC2 17 ASN B 37 LEU B 38 GLU B 39 ASN B 124 SITE 4 AC2 17 LYS B 125 ASP B 127 SER B 154 ALA B 155 SITE 5 AC2 17 LEU B 156 CRYST1 136.007 136.007 76.997 90.00 90.00 90.00 P 43 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 0.007353 0.000000 0.000000 0.00000 SCALE2 0.000000 0.007353 0.000000 0.00000 SCALE3 0.000000 0.000000 0.012987 0.00000