HEADER ENDOCYTOSIS 15-JUL-20 6ZSI TITLE THE MECHANISM OF ACTIVATION OF THE ACTIN BINDING PROTEIN EHBP1 BY RAB8 TITLE 2 FAMILY MEMBERS. COMPND MOL_ID: 1; COMPND 2 MOLECULE: RAS-RELATED PROTEIN RAB-8A; COMPND 3 CHAIN: A, B; COMPND 4 SYNONYM: ONCOGENE C-MEL; COMPND 5 ENGINEERED: YES; COMPND 6 MOL_ID: 2; COMPND 7 MOLECULE: EH DOMAIN-BINDING PROTEIN 1; COMPND 8 CHAIN: C, D; COMPND 9 ENGINEERED: YES; COMPND 10 MUTATION: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 3 ORGANISM_COMMON: HUMAN; SOURCE 4 ORGANISM_TAXID: 9606; SOURCE 5 GENE: RAB8A, MEL, RAB8; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 MOL_ID: 2; SOURCE 9 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 10 ORGANISM_COMMON: HUMAN; SOURCE 11 ORGANISM_TAXID: 9606; SOURCE 12 GENE: EHBP1, KIAA0903, NACSIN; SOURCE 13 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 14 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS RAB GTPASE, EHBP1, BMERB DOMAIN, CH DOMAIN, ENDOCYTOSIS EXPDTA X-RAY DIFFRACTION AUTHOR A.RAI,N.BLEIMLING,I.R.VETTER,R.S.GOODY REVDAT 3 31-JAN-24 6ZSI 1 REMARK REVDAT 2 14-OCT-20 6ZSI 1 REMARK REVDAT 1 02-SEP-20 6ZSI 0 JRNL AUTH A.RAI,N.BLEIMLING,I.R.VETTER,R.S.GOODY JRNL TITL THE MECHANISM OF ACTIVATION OF THE ACTIN BINDING PROTEIN JRNL TITL 2 EHBP1 BY RAB8 FAMILY MEMBERS. JRNL REF NAT COMMUN V. 11 4187 2020 JRNL REFN ESSN 2041-1723 JRNL PMID 32826901 JRNL DOI 10.1038/S41467-020-17792-3 REMARK 2 REMARK 2 RESOLUTION. 1.91 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 1.9_1692 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) : 1.91 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 46.11 REMARK 3 MIN(FOBS/SIGMA_FOBS) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 99.5 REMARK 3 NUMBER OF REFLECTIONS : 52591 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.225 REMARK 3 R VALUE (WORKING SET) : 0.223 REMARK 3 FREE R VALUE : 0.267 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 2630 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 46.1080 - 5.1057 1.00 2802 148 0.1891 0.2205 REMARK 3 2 5.1057 - 4.0533 1.00 2703 143 0.1696 0.2397 REMARK 3 3 4.0533 - 3.5412 1.00 2665 140 0.2006 0.2475 REMARK 3 4 3.5412 - 3.2175 1.00 2650 139 0.2340 0.2853 REMARK 3 5 3.2175 - 2.9869 1.00 2684 142 0.2686 0.3159 REMARK 3 6 2.9869 - 2.8109 1.00 2640 139 0.2510 0.2585 REMARK 3 7 2.8109 - 2.6701 1.00 2649 139 0.2508 0.2821 REMARK 3 8 2.6701 - 2.5539 1.00 2622 138 0.2563 0.3134 REMARK 3 9 2.5539 - 2.4556 1.00 2637 139 0.2609 0.2914 REMARK 3 10 2.4556 - 2.3708 1.00 2602 137 0.2544 0.2951 REMARK 3 11 2.3708 - 2.2967 1.00 2667 140 0.2500 0.2899 REMARK 3 12 2.2967 - 2.2311 1.00 2591 136 0.2576 0.2723 REMARK 3 13 2.2311 - 2.1723 1.00 2600 137 0.2726 0.3680 REMARK 3 14 2.1723 - 2.1193 1.00 2633 139 0.2698 0.3058 REMARK 3 15 2.1193 - 2.0711 1.00 2582 136 0.2710 0.2983 REMARK 3 16 2.0711 - 2.0271 1.00 2650 139 0.2787 0.2995 REMARK 3 17 2.0271 - 1.9865 1.00 2641 139 0.2927 0.3066 REMARK 3 18 1.9865 - 1.9490 1.00 2579 136 0.3040 0.3531 REMARK 3 19 1.9490 - 1.9142 0.90 2364 124 0.3276 0.3501 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) : 0.250 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 29.940 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 41.47 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 : 0.009 5128 REMARK 3 ANGLE : 1.231 6887 REMARK 3 CHIRALITY : 0.052 763 REMARK 3 PLANARITY : 0.004 877 REMARK 3 DIHEDRAL : 16.674 1997 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 4 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: (CHAIN A AND RESSEQ 7:177) REMARK 3 ORIGIN FOR THE GROUP (A): 64.7296 32.1399 31.1899 REMARK 3 T TENSOR REMARK 3 T11: 0.4185 T22: 0.3764 REMARK 3 T33: 0.3163 T12: 0.1574 REMARK 3 T13: -0.0529 T23: -0.0779 REMARK 3 L TENSOR REMARK 3 L11: 4.7401 L22: 3.0690 REMARK 3 L33: 9.5806 L12: 0.2741 REMARK 3 L13: 4.2505 L23: 0.9137 REMARK 3 S TENSOR REMARK 3 S11: -0.4491 S12: -0.5304 S13: 0.3164 REMARK 3 S21: -0.1114 S22: -0.1827 S23: 0.3035 REMARK 3 S31: -1.2002 S32: -1.2743 S33: 0.2709 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: (CHAIN B AND RESSEQ 6:178) REMARK 3 ORIGIN FOR THE GROUP (A): 43.9123 48.1522 52.2546 REMARK 3 T TENSOR REMARK 3 T11: 0.2533 T22: 0.2018 REMARK 3 T33: 0.2339 T12: -0.0064 REMARK 3 T13: 0.0512 T23: 0.0156 REMARK 3 L TENSOR REMARK 3 L11: 4.5418 L22: 2.4577 REMARK 3 L33: 2.4090 L12: 0.5514 REMARK 3 L13: 1.4727 L23: 0.4044 REMARK 3 S TENSOR REMARK 3 S11: -0.1734 S12: 0.3091 S13: 0.0920 REMARK 3 S21: -0.1635 S22: 0.1030 S23: -0.0246 REMARK 3 S31: -0.2155 S32: 0.2958 S33: 0.0476 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: (CHAIN C AND RESSEQ 18:147) REMARK 3 ORIGIN FOR THE GROUP (A): 43.0581 22.5973 8.8420 REMARK 3 T TENSOR REMARK 3 T11: 0.6759 T22: 0.5941 REMARK 3 T33: 0.5387 T12: 0.0935 REMARK 3 T13: 0.0049 T23: -0.1640 REMARK 3 L TENSOR REMARK 3 L11: 4.5054 L22: 1.1817 REMARK 3 L33: 1.7252 L12: -0.6122 REMARK 3 L13: 1.4456 L23: -0.1507 REMARK 3 S TENSOR REMARK 3 S11: -0.2417 S12: -0.1872 S13: -0.5511 REMARK 3 S21: 0.0268 S22: 0.1576 S23: 0.2904 REMARK 3 S31: 0.0057 S32: -0.1761 S33: 0.0723 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: (CHAIN D AND RESSEQ 18:150) REMARK 3 ORIGIN FOR THE GROUP (A): 68.2153 39.0202 73.5112 REMARK 3 T TENSOR REMARK 3 T11: 0.6372 T22: 0.6627 REMARK 3 T33: 0.4723 T12: 0.0179 REMARK 3 T13: -0.0426 T23: 0.0141 REMARK 3 L TENSOR REMARK 3 L11: 4.3048 L22: 0.9319 REMARK 3 L33: 0.6599 L12: -0.3148 REMARK 3 L13: 0.8131 L23: -0.1996 REMARK 3 S TENSOR REMARK 3 S11: 0.2354 S12: -0.2735 S13: -0.3949 REMARK 3 S21: -0.0029 S22: -0.0361 S23: -0.1433 REMARK 3 S31: 0.1200 S32: 0.1735 S33: -0.1390 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 6ZSI COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 16-JUL-20. REMARK 100 THE DEPOSITION ID IS D_1292108473. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 04-JUN-19 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 6.0 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SLS REMARK 200 BEAMLINE : X10SA REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.919532 REMARK 200 MONOCHROMATOR : M REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS 6M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : XDS REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 52601 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.910 REMARK 200 RESOLUTION RANGE LOW (A) : 46.108 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.5 REMARK 200 DATA REDUNDANCY : 11.24 REMARK 200 R MERGE (I) : 0.06800 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 19.7500 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.91 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.96 REMARK 200 COMPLETENESS FOR SHELL (%) : 93.3 REMARK 200 DATA REDUNDANCY IN SHELL : 6.47 REMARK 200 R MERGE FOR SHELL (I) : 0.87200 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 2.070 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: 5SZI REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 48.31 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.38 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.1 M MES PH 6.0 5% W/V PEG 3000 30% REMARK 280 V/V PEG 200, VAPOR DIFFUSION, SITTING DROP, TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: C 1 2 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,Y,-Z REMARK 290 3555 X+1/2,Y+1/2,Z 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 0.00000 REMARK 290 SMTRY2 2 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 3 1.000000 0.000000 0.000000 58.18000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 17.69000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 58.18000 REMARK 290 SMTRY2 4 0.000000 1.000000 0.000000 17.69000 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 REMARK 300 SEE REMARK 350 FOR THE AUTHOR PROVIDED AND/OR PROGRAM REMARK 300 GENERATED ASSEMBLY INFORMATION FOR THE STRUCTURE IN REMARK 300 THIS ENTRY. THE REMARK MAY ALSO PROVIDE INFORMATION ON REMARK 300 BURIED SURFACE AREA. REMARK 350 REMARK 350 COORDINATES FOR A COMPLETE MULTIMER REPRESENTING THE KNOWN REMARK 350 BIOLOGICALLY SIGNIFICANT OLIGOMERIZATION STATE OF THE REMARK 350 MOLECULE CAN BE GENERATED BY APPLYING BIOMT TRANSFORMATIONS REMARK 350 GIVEN BELOW. BOTH NON-CRYSTALLOGRAPHIC AND REMARK 350 CRYSTALLOGRAPHIC OPERATIONS ARE GIVEN. REMARK 350 REMARK 350 BIOMOLECULE: 1 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 2730 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 16660 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -17.0 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: 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: 2730 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 17170 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -22.0 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 GLY A -1 REMARK 465 HIS A 0 REMARK 465 MET A 1 REMARK 465 ALA A 2 REMARK 465 LYS A 3 REMARK 465 LYS A 175 REMARK 465 LYS A 176 REMARK 465 GLY B -1 REMARK 465 HIS B 0 REMARK 465 MET B 1 REMARK 465 ALA B 2 REMARK 465 LYS B 176 REMARK 465 GLY C 1057 REMARK 465 HIS C 1058 REMARK 465 MET C 1059 REMARK 465 ASP C 1060 REMARK 465 GLU C 1061 REMARK 465 VAL C 1062 REMARK 465 LEU C 1063 REMARK 465 ASN C 1064 REMARK 465 LYS C 1065 REMARK 465 GLY C 1066 REMARK 465 PHE C 1067 REMARK 465 LYS C 1068 REMARK 465 ASP C 1069 REMARK 465 THR C 1070 REMARK 465 SER C 1071 REMARK 465 GLN C 1072 REMARK 465 TYR C 1073 REMARK 465 GLU C 1204 REMARK 465 GLU C 1205 REMARK 465 GLU C 1206 REMARK 465 ASP C 1207 REMARK 465 GLU C 1208 REMARK 465 HIS C 1209 REMARK 465 LEU C 1210 REMARK 465 GLU C 1211 REMARK 465 ARG C 1212 REMARK 465 GLY D 1057 REMARK 465 HIS D 1058 REMARK 465 MET D 1059 REMARK 465 ASP D 1060 REMARK 465 GLU D 1061 REMARK 465 VAL D 1062 REMARK 465 LEU D 1063 REMARK 465 ASN D 1064 REMARK 465 LYS D 1065 REMARK 465 GLY D 1066 REMARK 465 PHE D 1067 REMARK 465 LYS D 1068 REMARK 465 ASP D 1069 REMARK 465 THR D 1070 REMARK 465 SER D 1071 REMARK 465 GLN D 1072 REMARK 465 TYR D 1073 REMARK 465 ASP D 1207 REMARK 465 GLU D 1208 REMARK 465 HIS D 1209 REMARK 465 LEU D 1210 REMARK 465 GLU D 1211 REMARK 465 ARG D 1212 REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS IN SAME ASYMMETRIC UNIT REMARK 500 REMARK 500 THE FOLLOWING ATOMS ARE IN CLOSE CONTACT. REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI DISTANCE REMARK 500 O ALA A 81 O HOH A 301 2.04 REMARK 500 NH2 ARG C 1091 OE2 GLU C 1118 2.09 REMARK 500 OH TYR D 1101 NH1 ARG D 1107 2.11 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 LYS A 122 33.43 73.08 REMARK 500 ASN A 157 17.30 59.37 REMARK 500 MET A 173 -159.70 -74.61 REMARK 500 PHE B 37 98.26 -67.66 REMARK 500 MET C1103 -46.94 81.33 REMARK 500 GLU C1110 -67.58 -90.31 REMARK 500 VAL D1075 46.99 -104.36 REMARK 500 GLU D1204 67.83 -112.38 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 GLU D 1204 GLU D 1205 149.76 REMARK 500 REMARK 500 REMARK: NULL REMARK 620 REMARK 620 METAL COORDINATION REMARK 620 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 620 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE): REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG A 203 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 THR A 22 OG1 REMARK 620 2 THR A 40 OG1 83.8 REMARK 620 3 GNP A 201 O3G 170.9 87.6 REMARK 620 4 GNP A 201 O2B 92.6 176.3 96.0 REMARK 620 5 HOH A 306 O 87.5 90.8 89.4 90.2 REMARK 620 6 HOH A 311 O 90.4 87.9 92.5 91.0 177.6 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG B 203 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 THR B 22 OG1 REMARK 620 2 THR B 40 OG1 82.3 REMARK 620 3 GNP B 201 O3G 169.8 88.8 REMARK 620 4 GNP B 201 O2B 93.8 176.2 94.9 REMARK 620 5 HOH B 302 O 87.7 89.3 97.4 90.8 REMARK 620 6 HOH B 303 O 84.6 89.9 90.2 89.5 172.3 REMARK 620 N 1 2 3 4 5 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue GNP A 201 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue PEG A 202 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue MG A 203 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue GNP B 201 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue PEG B 202 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue MG B 203 DBREF 6ZSI A 1 176 UNP P61006 RAB8A_HUMAN 1 176 DBREF 6ZSI B 1 176 UNP P61006 RAB8A_HUMAN 1 176 DBREF 6ZSI C 1060 1212 UNP Q8NDI1 EHBP1_HUMAN 1060 1212 DBREF 6ZSI D 1060 1212 UNP Q8NDI1 EHBP1_HUMAN 1060 1212 SEQADV 6ZSI GLY A -1 UNP P61006 EXPRESSION TAG SEQADV 6ZSI HIS A 0 UNP P61006 EXPRESSION TAG SEQADV 6ZSI GLY B -1 UNP P61006 EXPRESSION TAG SEQADV 6ZSI HIS B 0 UNP P61006 EXPRESSION TAG SEQADV 6ZSI GLY C 1057 UNP Q8NDI1 EXPRESSION TAG SEQADV 6ZSI HIS C 1058 UNP Q8NDI1 EXPRESSION TAG SEQADV 6ZSI MET C 1059 UNP Q8NDI1 EXPRESSION TAG SEQADV 6ZSI ALA C 1116 UNP Q8NDI1 MET 1116 ENGINEERED MUTATION SEQADV 6ZSI GLY D 1057 UNP Q8NDI1 EXPRESSION TAG SEQADV 6ZSI HIS D 1058 UNP Q8NDI1 EXPRESSION TAG SEQADV 6ZSI MET D 1059 UNP Q8NDI1 EXPRESSION TAG SEQADV 6ZSI ALA D 1116 UNP Q8NDI1 MET 1116 ENGINEERED MUTATION SEQRES 1 A 178 GLY HIS MET ALA LYS THR TYR ASP TYR LEU PHE LYS LEU SEQRES 2 A 178 LEU LEU ILE GLY ASP SER GLY VAL GLY LYS THR CYS VAL SEQRES 3 A 178 LEU PHE ARG PHE SER GLU ASP ALA PHE ASN SER THR PHE SEQRES 4 A 178 ILE SER THR ILE GLY ILE ASP PHE LYS ILE ARG THR ILE SEQRES 5 A 178 GLU LEU ASP GLY LYS ARG ILE LYS LEU GLN ILE TRP ASP SEQRES 6 A 178 THR ALA GLY GLN GLU ARG PHE ARG THR ILE THR THR ALA SEQRES 7 A 178 TYR TYR ARG GLY ALA MET GLY ILE MET LEU VAL TYR ASP SEQRES 8 A 178 ILE THR ASN GLU LYS SER PHE ASP ASN ILE ARG ASN TRP SEQRES 9 A 178 ILE ARG ASN ILE GLU GLU HIS ALA SER ALA ASP VAL GLU SEQRES 10 A 178 LYS MET ILE LEU GLY ASN LYS CYS ASP VAL ASN ASP LYS SEQRES 11 A 178 ARG GLN VAL SER LYS GLU ARG GLY GLU LYS LEU ALA LEU SEQRES 12 A 178 ASP TYR GLY ILE LYS PHE MET GLU THR SER ALA LYS ALA SEQRES 13 A 178 ASN ILE ASN VAL GLU ASN ALA PHE PHE THR LEU ALA ARG SEQRES 14 A 178 ASP ILE LYS ALA LYS MET ASP LYS LYS SEQRES 1 B 178 GLY HIS MET ALA LYS THR TYR ASP TYR LEU PHE LYS LEU SEQRES 2 B 178 LEU LEU ILE GLY ASP SER GLY VAL GLY LYS THR CYS VAL SEQRES 3 B 178 LEU PHE ARG PHE SER GLU ASP ALA PHE ASN SER THR PHE SEQRES 4 B 178 ILE SER THR ILE GLY ILE ASP PHE LYS ILE ARG THR ILE SEQRES 5 B 178 GLU LEU ASP GLY LYS ARG ILE LYS LEU GLN ILE TRP ASP SEQRES 6 B 178 THR ALA GLY GLN GLU ARG PHE ARG THR ILE THR THR ALA SEQRES 7 B 178 TYR TYR ARG GLY ALA MET GLY ILE MET LEU VAL TYR ASP SEQRES 8 B 178 ILE THR ASN GLU LYS SER PHE ASP ASN ILE ARG ASN TRP SEQRES 9 B 178 ILE ARG ASN ILE GLU GLU HIS ALA SER ALA ASP VAL GLU SEQRES 10 B 178 LYS MET ILE LEU GLY ASN LYS CYS ASP VAL ASN ASP LYS SEQRES 11 B 178 ARG GLN VAL SER LYS GLU ARG GLY GLU LYS LEU ALA LEU SEQRES 12 B 178 ASP TYR GLY ILE LYS PHE MET GLU THR SER ALA LYS ALA SEQRES 13 B 178 ASN ILE ASN VAL GLU ASN ALA PHE PHE THR LEU ALA ARG SEQRES 14 B 178 ASP ILE LYS ALA LYS MET ASP LYS LYS SEQRES 1 C 156 GLY HIS MET ASP GLU VAL LEU ASN LYS GLY PHE LYS ASP SEQRES 2 C 156 THR SER GLN TYR VAL VAL GLY GLU LEU ALA ALA LEU GLU SEQRES 3 C 156 ASN GLU GLN LYS GLN ILE ASP THR ARG ALA ALA LEU VAL SEQRES 4 C 156 GLU LYS ARG LEU ARG TYR LEU MET ASP THR GLY ARG ASN SEQRES 5 C 156 THR GLU GLU GLU GLU ALA MET ALA GLN GLU TRP PHE MET SEQRES 6 C 156 LEU VAL ASN LYS LYS ASN ALA LEU ILE ARG ARG MET ASN SEQRES 7 C 156 GLN LEU SER LEU LEU GLU LYS GLU HIS ASP LEU GLU ARG SEQRES 8 C 156 ARG TYR GLU LEU LEU ASN ARG GLU LEU ARG ALA MET LEU SEQRES 9 C 156 ALA ILE GLU ASP TRP GLN LYS THR GLU ALA GLN LYS ARG SEQRES 10 C 156 ARG GLU GLN LEU LEU LEU ASP GLU LEU VAL ALA LEU VAL SEQRES 11 C 156 ASN LYS ARG ASP ALA LEU VAL ARG ASP LEU ASP ALA GLN SEQRES 12 C 156 GLU LYS GLN ALA GLU GLU GLU ASP GLU HIS LEU GLU ARG SEQRES 1 D 156 GLY HIS MET ASP GLU VAL LEU ASN LYS GLY PHE LYS ASP SEQRES 2 D 156 THR SER GLN TYR VAL VAL GLY GLU LEU ALA ALA LEU GLU SEQRES 3 D 156 ASN GLU GLN LYS GLN ILE ASP THR ARG ALA ALA LEU VAL SEQRES 4 D 156 GLU LYS ARG LEU ARG TYR LEU MET ASP THR GLY ARG ASN SEQRES 5 D 156 THR GLU GLU GLU GLU ALA MET ALA GLN GLU TRP PHE MET SEQRES 6 D 156 LEU VAL ASN LYS LYS ASN ALA LEU ILE ARG ARG MET ASN SEQRES 7 D 156 GLN LEU SER LEU LEU GLU LYS GLU HIS ASP LEU GLU ARG SEQRES 8 D 156 ARG TYR GLU LEU LEU ASN ARG GLU LEU ARG ALA MET LEU SEQRES 9 D 156 ALA ILE GLU ASP TRP GLN LYS THR GLU ALA GLN LYS ARG SEQRES 10 D 156 ARG GLU GLN LEU LEU LEU ASP GLU LEU VAL ALA LEU VAL SEQRES 11 D 156 ASN LYS ARG ASP ALA LEU VAL ARG ASP LEU ASP ALA GLN SEQRES 12 D 156 GLU LYS GLN ALA GLU GLU GLU ASP GLU HIS LEU GLU ARG HET GNP A 201 32 HET PEG A 202 7 HET MG A 203 1 HET GNP B 201 32 HET PEG B 202 7 HET MG B 203 1 HETNAM GNP PHOSPHOAMINOPHOSPHONIC ACID-GUANYLATE ESTER HETNAM PEG DI(HYDROXYETHYL)ETHER HETNAM MG MAGNESIUM ION FORMUL 5 GNP 2(C10 H17 N6 O13 P3) FORMUL 6 PEG 2(C4 H10 O3) FORMUL 7 MG 2(MG 2+) FORMUL 11 HOH *42(H2 O) HELIX 1 AA1 GLY A 20 ASP A 31 1 12 HELIX 2 AA2 GLN A 67 ARG A 69 5 3 HELIX 3 AA3 PHE A 70 ALA A 76 1 7 HELIX 4 AA4 ASN A 92 ASN A 98 1 7 HELIX 5 AA5 ASN A 98 ALA A 110 1 13 HELIX 6 AA6 VAL A 125 ARG A 129 5 5 HELIX 7 AA7 SER A 132 GLY A 144 1 13 HELIX 8 AA8 ASN A 157 ALA A 171 1 15 HELIX 9 AA9 GLY B 20 ASP B 31 1 12 HELIX 10 AB1 GLN B 67 ARG B 69 5 3 HELIX 11 AB2 PHE B 70 ALA B 76 1 7 HELIX 12 AB3 ASN B 92 ASN B 98 1 7 HELIX 13 AB4 ASN B 98 ALA B 110 1 13 HELIX 14 AB5 VAL B 125 ARG B 129 5 5 HELIX 15 AB6 SER B 132 GLY B 144 1 13 HELIX 16 AB7 ASN B 157 ASP B 174 1 18 HELIX 17 AB8 VAL C 1075 LEU C 1102 1 28 HELIX 18 AB9 THR C 1109 ALA C 1161 1 53 HELIX 19 AC1 GLU C 1163 LYS C 1167 5 5 HELIX 20 AC2 THR C 1168 GLN C 1199 1 32 HELIX 21 AC3 VAL D 1075 THR D 1105 1 31 HELIX 22 AC4 GLU D 1110 ALA D 1161 1 52 HELIX 23 AC5 GLU D 1163 LYS D 1167 5 5 HELIX 24 AC6 THR D 1168 GLU D 1204 1 37 SHEET 1 AA1 6 ILE A 43 LEU A 52 0 SHEET 2 AA1 6 LYS A 55 THR A 64 -1 O ILE A 57 N ILE A 50 SHEET 3 AA1 6 TYR A 7 ILE A 14 1 N PHE A 9 O GLN A 60 SHEET 4 AA1 6 GLY A 83 ASP A 89 1 O MET A 85 N LEU A 12 SHEET 5 AA1 6 GLU A 115 ASN A 121 1 O ASN A 121 N TYR A 88 SHEET 6 AA1 6 LYS A 146 GLU A 149 1 O LYS A 146 N ILE A 118 SHEET 1 AA2 6 ILE B 43 LEU B 52 0 SHEET 2 AA2 6 LYS B 55 THR B 64 -1 O ASP B 63 N ASP B 44 SHEET 3 AA2 6 TYR B 7 GLY B 15 1 N LEU B 11 O TRP B 62 SHEET 4 AA2 6 GLY B 83 ASP B 89 1 O MET B 85 N LEU B 12 SHEET 5 AA2 6 GLU B 115 ASN B 121 1 O GLU B 115 N ILE B 84 SHEET 6 AA2 6 LYS B 146 GLU B 149 1 O LYS B 146 N ILE B 118 LINK OG1 THR A 22 MG MG A 203 1555 1555 2.10 LINK OG1 THR A 40 MG MG A 203 1555 1555 2.13 LINK O3G GNP A 201 MG MG A 203 1555 1555 2.03 LINK O2B GNP A 201 MG MG A 203 1555 1555 1.91 LINK MG MG A 203 O HOH A 306 1555 1555 2.28 LINK MG MG A 203 O HOH A 311 1555 1555 2.03 LINK OG1 THR B 22 MG MG B 203 1555 1555 2.11 LINK OG1 THR B 40 MG MG B 203 1555 1555 2.07 LINK O3G GNP B 201 MG MG B 203 1555 1555 2.06 LINK O2B GNP B 201 MG MG B 203 1555 1555 1.94 LINK MG MG B 203 O HOH B 302 1555 1555 2.11 LINK MG MG B 203 O HOH B 303 1555 1555 2.13 SITE 1 AC1 26 SER A 17 GLY A 18 VAL A 19 GLY A 20 SITE 2 AC1 26 LYS A 21 THR A 22 CYS A 23 PHE A 33 SITE 3 AC1 26 ASN A 34 SER A 35 PHE A 37 SER A 39 SITE 4 AC1 26 THR A 40 GLY A 66 ASN A 121 LYS A 122 SITE 5 AC1 26 ASP A 124 VAL A 125 SER A 151 ALA A 152 SITE 6 AC1 26 LYS A 153 MG A 203 HOH A 306 HOH A 309 SITE 7 AC1 26 HOH A 311 HOH A 314 SITE 1 AC2 4 ARG A 71 ASN A 101 TRP A 102 ASN A 105 SITE 1 AC3 5 THR A 22 THR A 40 GNP A 201 HOH A 306 SITE 2 AC3 5 HOH A 311 SITE 1 AC4 26 SER B 17 GLY B 18 VAL B 19 GLY B 20 SITE 2 AC4 26 LYS B 21 THR B 22 CYS B 23 PHE B 33 SITE 3 AC4 26 ASN B 34 SER B 35 PHE B 37 SER B 39 SITE 4 AC4 26 THR B 40 GLY B 66 ASN B 121 LYS B 122 SITE 5 AC4 26 ASP B 124 VAL B 125 SER B 151 ALA B 152 SITE 6 AC4 26 LYS B 153 MG B 203 HOH B 302 HOH B 303 SITE 7 AC4 26 HOH B 316 HOH B 318 SITE 1 AC5 3 ARG B 71 ASN B 101 TRP B 102 SITE 1 AC6 5 THR B 22 THR B 40 GNP B 201 HOH B 302 SITE 2 AC6 5 HOH B 303 CRYST1 116.360 35.380 165.670 90.00 93.76 90.00 C 1 2 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 0.008594 0.000000 0.000564 0.00000 SCALE2 0.000000 0.028265 0.000000 0.00000 SCALE3 0.000000 0.000000 0.006049 0.00000