10 20 30 40 50 60 70 80 1LF8 - Header ----|----|----|----|----|----|----|----|----|----|----|----|----|----|----|----| Asymmetric UnitHEADER SIGNALING PROTEIN 10-APR-02 1LF8
TITLE COMPLEX OF GGA3-VHS DOMAIN AND CI-MPR C-TERMINAL TITLE 2 PHOSPHOPEPTIDE
COMPND MOL_ID: 1; COMPND 2 MOLECULE: ADP-RIBOSYLATION FACTOR BINDING PROTEIN GGA3; COMPND 3 CHAIN: A, B, C, D; COMPND 4 FRAGMENT: VHS DOMAIN (RESIDUES 1-166); COMPND 5 SYNONYM: GOLGI-LOCALIZED, GAMMA EAR-CONTAINING, ARF- COMPND 6 BINDING PROTEIN 3; COMPND 7 ENGINEERED: YES; COMPND 8 MOL_ID: 2; COMPND 9 MOLECULE: CATION-INDEPENDENT MANNOSE-6-PHOSPHATE RECEPTOR; COMPND 10 CHAIN: E, F, G, H; COMPND 11 FRAGMENT: C-TERMINUS (RESIDUES 2480-2491); COMPND 12 SYNONYM: CI MAN-6-P RECEPTOR, CI-MPR, INSULIN-LIKE GROWTH COMPND 13 FACTOR II RECEPTOR; COMPND 14 ENGINEERED: YES
SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 3 ORGANISM_COMMON: HUMAN; SOURCE 4 ORGANISM_TAXID: 9606; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 6 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 7 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 9 EXPRESSION_SYSTEM_PLASMID: PHIS-PARALLEL2; SOURCE 10 MOL_ID: 2; SOURCE 11 SYNTHETIC: YES; SOURCE 12 OTHER_DETAILS: THE PEPTIDE WAS CHEMICALLY SYNTHESIZED. THE SOURCE 13 SEQUENCE OF THE PEPTIDE IS NATURALLY FOUND IN HOMO SAPIENS SOURCE 14 (HUMAN).
KEYWDS VHS DOMAIN, PROTEIN-PHOSPHOPEPTIDE COMPLEX, SIGNALING KEYWDS 2 PROTEIN
EXPDTA X-RAY DIFFRACTION
AUTHOR Y.KATO,S.MISRA,R.PUERTOLLANO,J.H.HURLEY,J.S.BONIFACINO
REVDAT 3 24-FEB-09 1LF8 1 VERSN REVDAT 2 01-APR-03 1LF8 1 JRNL REVDAT 1 26-JUN-02 1LF8 0
JRNL AUTH Y.KATO,S.MISRA,R.PUERTOLLANO,J.H.HURLEY, JRNL AUTH 2 J.S.BONIFACINO JRNL TITL PHOSPHOREGULATION OF SORTING SIGNAL-VHS DOMAIN JRNL TITL 2 INTERACTIONS BY A DIRECT ELECTROSTATIC MECHANISM. JRNL REF NAT.STRUCT.BIOL. V. 9 532 2002 JRNL REFN ISSN 1072-8368 JRNL PMID 12032548
REMARK 1
REMARK 2 REMARK 2 RESOLUTION. 2.30 ANGSTROMS.
REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : CNS 1.1 REMARK 3 AUTHORS : BRUNGER,ADAMS,CLORE,DELANO,GROS,GROSSE- REMARK 3 : KUNSTLEVE,JIANG,KUSZEWSKI,NILGES, PANNU, REMARK 3 : READ,RICE,SIMONSON,WARREN REMARK 3 REMARK 3 REFINEMENT TARGET : ENGH & HUBER REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.30 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 89.83 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 DATA CUTOFF HIGH (ABS(F)) : 713707.580 REMARK 3 DATA CUTOFF LOW (ABS(F)) : 0.0000 REMARK 3 COMPLETENESS (WORKING+TEST) (%) : 91.8 REMARK 3 NUMBER OF REFLECTIONS : 36130 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 SET) : 0.211 REMARK 3 FREE R VALUE : 0.255 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 10.000 REMARK 3 FREE R VALUE TEST SET COUNT : 3600 REMARK 3 ESTIMATED ERROR OF FREE R VALUE : 0.004 REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 6 REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 2.30 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.44 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 80.40 REMARK 3 REFLECTIONS IN BIN (WORKING SET) : 4702 REMARK 3 BIN R VALUE (WORKING SET) : 0.2640 REMARK 3 BIN FREE R VALUE : 0.3220 REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : 9.70 REMARK 3 BIN FREE R VALUE TEST SET COUNT : 503 REMARK 3 ESTIMATED ERROR OF BIN FREE R VALUE : 0.014 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 5293 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 0 REMARK 3 SOLVENT ATOMS : 300 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 31.50 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 49.80 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 5.14000 REMARK 3 B22 (A**2) : 2.96000 REMARK 3 B33 (A**2) : -8.10000 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 COORDINATE ERROR. REMARK 3 ESD FROM LUZZATI PLOT (A) : 0.27 REMARK 3 ESD FROM SIGMAA (A) : 0.23 REMARK 3 LOW RESOLUTION CUTOFF (A) : 5.00 REMARK 3 REMARK 3 CROSS-VALIDATED ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM C-V LUZZATI PLOT (A) : 0.35 REMARK 3 ESD FROM C-V SIGMAA (A) : 0.30 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 BOND LENGTHS (A) : 0.006 REMARK 3 BOND ANGLES (DEGREES) : 1.30 REMARK 3 DIHEDRAL ANGLES (DEGREES) : 19.40 REMARK 3 IMPROPER ANGLES (DEGREES) : 1.48 REMARK 3 REMARK 3 ISOTROPIC THERMAL MODEL : RESTRAINED REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. RMS SIGMA REMARK 3 MAIN-CHAIN BOND (A**2) : 1.460 ; 1.500 REMARK 3 MAIN-CHAIN ANGLE (A**2) : 2.390 ; 2.000 REMARK 3 SIDE-CHAIN BOND (A**2) : 2.250 ; 2.000 REMARK 3 SIDE-CHAIN ANGLE (A**2) : 3.390 ; 2.500 REMARK 3 REMARK 3 BULK SOLVENT MODELING. REMARK 3 METHOD USED : FLAT MODEL REMARK 3 KSOL : 0.34 REMARK 3 BSOL : 42.66 REMARK 3 REMARK 3 NCS MODEL : NULL REMARK 3 REMARK 3 NCS RESTRAINTS. RMS SIGMA/WEIGHT REMARK 3 GROUP 1 POSITIONAL (A) : NULL ; NULL REMARK 3 GROUP 1 B-FACTOR (A**2) : NULL ; NULL REMARK 3 REMARK 3 PARAMETER FILE 1 : PROTEIN_REP.PARAM REMARK 3 PARAMETER FILE 2 : DNA-RNA_REP.PARAM REMARK 3 PARAMETER FILE 3 : WATER_REP.PARAM REMARK 3 PARAMETER FILE 4 : ION.PARAM REMARK 3 PARAMETER FILE 5 : SEP2.PAR REMARK 3 PARAMETER FILE 6 : NULL REMARK 3 TOPOLOGY FILE 1 : PROTEIN.TOP REMARK 3 TOPOLOGY FILE 2 : DNA-RNA.TOP REMARK 3 TOPOLOGY FILE 3 : WATER.TOP REMARK 3 TOPOLOGY FILE 4 : ION.TOP REMARK 3 TOPOLOGY FILE 5 : SEP2.TOP REMARK 3 TOPOLOGY FILE 6 : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL
REMARK 4 REMARK 4 1LF8 COMPLIES WITH FORMAT V. 3.15, 01-DEC-08
REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 15-APR-02. REMARK 100 THE RCSB ID CODE IS RCSB015895.
REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 25-OCT-01 REMARK 200 TEMPERATURE (KELVIN) : 95 REMARK 200 PH : NULL REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : N REMARK 200 RADIATION SOURCE : ROTATING ANODE REMARK 200 BEAMLINE : NULL REMARK 200 X-RAY GENERATOR MODEL : RIGAKU RU200 REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.5418 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : OSMIC MIRRORS REMARK 200 REMARK 200 DETECTOR TYPE : IMAGE PLATE REMARK 200 DETECTOR MANUFACTURER : RIGAKU RAXIS IV REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 37720 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.300 REMARK 200 RESOLUTION RANGE LOW (A) : 100.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : -3.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 96.1 REMARK 200 DATA REDUNDANCY : 6.100 REMARK 200 R MERGE (I) : 0.06200 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 20.5000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.30 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.38 REMARK 200 COMPLETENESS FOR SHELL (%) : 91.5 REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : 0.35600 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> FOR SHELL : 4.400 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: FOURIER SYNTHESIS REMARK 200 SOFTWARE USED: CNS REMARK 200 STARTING MODEL: PDB ENTRY 1JUQ REMARK 200 REMARK 200 REMARK: NULL
REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 52.80 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.61 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 100MM CAPS 10.2-11.0, 200 MM REMARK 280 LITHIUM SULFATE, 1.3-2M SODIUM/POTASSIUM PHOSPHATE, VAPOR REMARK 280 DIFFUSION, HANGING DROP, TEMPERATURE 293K
REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: C 2 2 21 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 -X,Y,-Z+1/2 REMARK 290 4555 X,-Y,-Z REMARK 290 5555 X+1/2,Y+1/2,Z REMARK 290 6555 -X+1/2,-Y+1/2,Z+1/2 REMARK 290 7555 -X+1/2,Y+1/2,-Z+1/2 REMARK 290 8555 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 54.29000 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 54.29000 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 5 1.000000 0.000000 0.000000 62.27000 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 64.85000 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 6 -1.000000 0.000000 0.000000 62.27000 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 64.85000 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 54.29000 REMARK 290 SMTRY1 7 -1.000000 0.000000 0.000000 62.27000 REMARK 290 SMTRY2 7 0.000000 1.000000 0.000000 64.85000 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 54.29000 REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 62.27000 REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 64.85000 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 0.00000 REMARK 290 REMARK 290 REMARK: NULL
REMARK 300 REMARK 300 BIOMOLECULE: 1, 2, 3, 4 REMARK 300 SEE REMARK 350 FOR THE AUTHOR PROVIDED AND/OR PROGRAM REMARK 300 GENERATED ASSEMBLY INFORMATION FOR THE STRUCTURE IN REMARK 300 THIS ENTRY. THE REMARK MAY ALSO PROVIDE INFORMATION ON REMARK 300 BURIED SURFACE AREA. REMARK 300 REMARK: EACH VHS DOMAIN/PHOSPHOPEPTIDE COMPLEX CORRESPONDS TO A REMARK 300 SINGLE BIOLOGICAL UNIT. THERE ARE THE EQUIVALENT OF 4 BIOLOGICAL REMARK 300 COMPLEXES PER ASYMMETRIC UNIT. THE APPARENT VHS DOMAIN DIMER IS REMARK 300 LIKELY A CRYSTALLIZATION ARTIFACT.
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: 1130 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 8570 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -7.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, E 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: 1130 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 8900 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -8.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: B, F 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: 1130 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 8460 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -8.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: C, G REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 350 REMARK 350 BIOMOLECULE: 4 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 1100 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 8980 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -7.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: D, H 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 -4 REMARK 465 ALA A -3 REMARK 465 MET A -2 REMARK 465 GLY A -1 REMARK 465 SER A 0 REMARK 465 MET A 1 REMARK 465 ALA A 2 REMARK 465 GLU A 3 REMARK 465 ALA A 4 REMARK 465 GLU A 5 REMARK 465 GLY A 6 REMARK 465 PRO A 158 REMARK 465 SER A 159 REMARK 465 PRO A 160 REMARK 465 PRO A 161 REMARK 465 PRO A 162 REMARK 465 ARG A 163 REMARK 465 PRO A 164 REMARK 465 LYS A 165 REMARK 465 ASN A 166 REMARK 465 GLY B -4 REMARK 465 ALA B -3 REMARK 465 MET B -2 REMARK 465 PRO B 158 REMARK 465 SER B 159 REMARK 465 PRO B 160 REMARK 465 PRO B 161 REMARK 465 PRO B 162 REMARK 465 ARG B 163 REMARK 465 PRO B 164 REMARK 465 LYS B 165 REMARK 465 ASN B 166 REMARK 465 GLY C -4 REMARK 465 ALA C -3 REMARK 465 MET C -2 REMARK 465 GLY C -1 REMARK 465 SER C 0 REMARK 465 MET C 1 REMARK 465 ALA C 2 REMARK 465 GLU C 3 REMARK 465 ALA C 4 REMARK 465 GLU C 5 REMARK 465 GLY C 6 REMARK 465 GLU C 7 REMARK 465 ILE C 157 REMARK 465 PRO C 158 REMARK 465 SER C 159 REMARK 465 PRO C 160 REMARK 465 PRO C 161 REMARK 465 PRO C 162 REMARK 465 ARG C 163 REMARK 465 PRO C 164 REMARK 465 LYS C 165 REMARK 465 ASN C 166 REMARK 465 GLY D -4 REMARK 465 ALA D -3 REMARK 465 MET D -2 REMARK 465 PRO D 158 REMARK 465 SER D 159 REMARK 465 PRO D 160 REMARK 465 PRO D 161 REMARK 465 PRO D 162 REMARK 465 ARG D 163 REMARK 465 PRO D 164 REMARK 465 LYS D 165 REMARK 465 ASN D 166 REMARK 465 PHE E 301 REMARK 465 HIS E 302 REMARK 465 ASP E 303 REMARK 465 ASP E 304 REMARK 465 PHE F 301 REMARK 465 HIS F 302 REMARK 465 ASP F 303 REMARK 465 ASP F 304 REMARK 465 PHE G 301 REMARK 465 HIS G 302 REMARK 465 ASP G 303 REMARK 465 ASP G 304 REMARK 465 PHE H 301 REMARK 465 HIS H 302 REMARK 465 ASP H 303 REMARK 465 ASP H 304
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 HOH D 217 O HOH D 251 0.00 REMARK 500 N GLU D 70 O HOH D 240 1.92 REMARK 500 O LEU D 66 O HOH D 240 2.02 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS REMARK 500 REMARK 500 THE FOLLOWING ATOMS THAT ARE RELATED BY CRYSTALLOGRAPHIC REMARK 500 SYMMETRY ARE IN CLOSE CONTACT. AN ATOM LOCATED WITHIN 0.15 REMARK 500 ANGSTROMS OF A SYMMETRY RELATED ATOM IS ASSUMED TO BE ON A REMARK 500 SPECIAL POSITION AND IS, THEREFORE, LISTED IN REMARK 375 REMARK 500 INSTEAD OF REMARK 500. ATOMS WITH NON-BLANK ALTERNATE REMARK 500 LOCATION INDICATORS ARE NOT INCLUDED IN THE CALCULATIONS. REMARK 500 REMARK 500 DISTANCE CUTOFF: REMARK 500 2.2 ANGSTROMS FOR CONTACTS NOT INVOLVING HYDROGEN ATOMS REMARK 500 1.6 ANGSTROMS FOR CONTACTS INVOLVING HYDROGEN ATOMS REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI SSYMOP DISTANCE REMARK 500 O HOH D 258 O HOH D 258 3555 0.99 REMARK 500 O HOH B 176 O HOH B 176 4555 1.20 REMARK 500 O HOH D 252 O HOH D 252 3555 1.49 REMARK 500 O HOH C 232 O HOH C 232 3655 2.14 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 TYR A 101 -107.46 -126.91 REMARK 500 LEU A 125 67.43 -112.94 REMARK 500 LEU A 156 28.11 -74.89 REMARK 500 TYR B 101 -87.66 -132.94 REMARK 500 LEU B 125 66.08 -118.88 REMARK 500 LEU B 156 53.65 -91.32 REMARK 500 TYR C 101 -108.04 -124.53 REMARK 500 GLU C 128 77.21 -111.33 REMARK 500 TYR D 101 -82.37 -126.06 REMARK 500 REMARK 500 REMARK: NULL
REMARK 525 REMARK 525 SOLVENT REMARK 525 REMARK 525 THE SOLVENT MOLECULES HAVE CHAIN IDENTIFIERS THAT REMARK 525 INDICATE THE POLYMER CHAIN WITH WHICH THEY ARE MOST REMARK 525 CLOSELY ASSOCIATED. THE REMARK LISTS ALL THE SOLVENT REMARK 525 MOLECULES WHICH ARE MORE THAN 5A AWAY FROM THE REMARK 525 NEAREST POLYMER CHAIN (M = MODEL NUMBER; REMARK 525 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE REMARK 525 NUMBER; I=INSERTION CODE): REMARK 525 REMARK 525 M RES CSSEQI REMARK 525 HOH C 240 DISTANCE = 5.40 ANGSTROMS
REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1JPL RELATED DB: PDB REMARK 900 GGA3-VHS COMPLEX WITH (UNPHOSPHORYLATED) PEPTIDE FROM CI- REMARK 900 MPR C-TERMINUS REMARK 900 RELATED ID: 1JUQ RELATED DB: PDB REMARK 900 GGA3-VHS COMPLEX WITH PEPTIDE FROM CD-MPR C-TERMINUS REMARK 900 RELATED ID: 1JWG RELATED DB: PDB REMARK 900 GGA1-VHS COMPLEX WITH PEPTIDE FROM CI-MPR C-TERMINUS REMARK 900 RELATED ID: 1JWF RELATED DB: PDB REMARK 900 STRUCTURE OF NATIVE GGA1-VHS DOMAIN
DBREF 1LF8 A 1 166 UNP Q9NZ52 GGA3_HUMAN 1 166 DBREF 1LF8 B 1 166 UNP Q9NZ52 GGA3_HUMAN 1 166 DBREF 1LF8 C 1 166 UNP Q9NZ52 GGA3_HUMAN 1 166 DBREF 1LF8 D 1 166 UNP Q9NZ52 GGA3_HUMAN 1 166 DBREF 1LF8 E 301 312 UNP P11717 MPRI_HUMAN 2480 2491 DBREF 1LF8 F 301 312 UNP P11717 MPRI_HUMAN 2480 2491 DBREF 1LF8 G 301 312 UNP P11717 MPRI_HUMAN 2480 2491 DBREF 1LF8 H 301 312 UNP P11717 MPRI_HUMAN 2480 2491
SEQADV 1LF8 GLY A -4 UNP Q9NZ52 CLONING ARTIFACT SEQADV 1LF8 ALA A -3 UNP Q9NZ52 CLONING ARTIFACT SEQADV 1LF8 MET A -2 UNP Q9NZ52 CLONING ARTIFACT SEQADV 1LF8 GLY A -1 UNP Q9NZ52 CLONING ARTIFACT SEQADV 1LF8 SER A 0 UNP Q9NZ52 CLONING ARTIFACT SEQADV 1LF8 GLY B -4 UNP Q9NZ52 CLONING ARTIFACT SEQADV 1LF8 ALA B -3 UNP Q9NZ52 CLONING ARTIFACT SEQADV 1LF8 MET B -2 UNP Q9NZ52 CLONING ARTIFACT SEQADV 1LF8 GLY B -1 UNP Q9NZ52 CLONING ARTIFACT SEQADV 1LF8 SER B 0 UNP Q9NZ52 CLONING ARTIFACT SEQADV 1LF8 GLY C -4 UNP Q9NZ52 CLONING ARTIFACT SEQADV 1LF8 ALA C -3 UNP Q9NZ52 CLONING ARTIFACT SEQADV 1LF8 MET C -2 UNP Q9NZ52 CLONING ARTIFACT SEQADV 1LF8 GLY C -1 UNP Q9NZ52 CLONING ARTIFACT SEQADV 1LF8 SER C 0 UNP Q9NZ52 CLONING ARTIFACT SEQADV 1LF8 GLY D -4 UNP Q9NZ52 CLONING ARTIFACT SEQADV 1LF8 ALA D -3 UNP Q9NZ52 CLONING ARTIFACT SEQADV 1LF8 MET D -2 UNP Q9NZ52 CLONING ARTIFACT SEQADV 1LF8 GLY D -1 UNP Q9NZ52 CLONING ARTIFACT SEQADV 1LF8 SER D 0 UNP Q9NZ52 CLONING ARTIFACT SEQADV 1LF8 SEP E 305 UNP P11717 SER 2484 MODIFIED RESIDUE SEQADV 1LF8 SEP F 305 UNP P11717 SER 2484 MODIFIED RESIDUE SEQADV 1LF8 SEP G 305 UNP P11717 SER 2484 MODIFIED RESIDUE SEQADV 1LF8 SEP H 305 UNP P11717 SER 2484 MODIFIED RESIDUE
SEQRES 1 A 171 GLY ALA MET GLY SER MET ALA GLU ALA GLU GLY GLU SER SEQRES 2 A 171 LEU GLU SER TRP LEU ASN LYS ALA THR ASN PRO SER ASN SEQRES 3 A 171 ARG GLN GLU ASP TRP GLU TYR ILE ILE GLY PHE CYS ASP SEQRES 4 A 171 GLN ILE ASN LYS GLU LEU GLU GLY PRO GLN ILE ALA VAL SEQRES 5 A 171 ARG LEU LEU ALA HIS LYS ILE GLN SER PRO GLN GLU TRP SEQRES 6 A 171 GLU ALA LEU GLN ALA LEU THR VAL LEU GLU ALA CYS MET SEQRES 7 A 171 LYS ASN CYS GLY ARG ARG PHE HIS ASN GLU VAL GLY LYS SEQRES 8 A 171 PHE ARG PHE LEU ASN GLU LEU ILE LYS VAL VAL SER PRO SEQRES 9 A 171 LYS TYR LEU GLY ASP ARG VAL SER GLU LYS VAL LYS THR SEQRES 10 A 171 LYS VAL ILE GLU LEU LEU TYR SER TRP THR MET ALA LEU SEQRES 11 A 171 PRO GLU GLU ALA LYS ILE LYS ASP ALA TYR HIS MET LEU SEQRES 12 A 171 LYS ARG GLN GLY ILE VAL GLN SER ASP PRO PRO ILE PRO SEQRES 13 A 171 VAL ASP ARG THR LEU ILE PRO SER PRO PRO PRO ARG PRO SEQRES 14 A 171 LYS ASN SEQRES 1 B 171 GLY ALA MET GLY SER MET ALA GLU ALA GLU GLY GLU SER SEQRES 2 B 171 LEU GLU SER TRP LEU ASN LYS ALA THR ASN PRO SER ASN SEQRES 3 B 171 ARG GLN GLU ASP TRP GLU TYR ILE ILE GLY PHE CYS ASP SEQRES 4 B 171 GLN ILE ASN LYS GLU LEU GLU GLY PRO GLN ILE ALA VAL SEQRES 5 B 171 ARG LEU LEU ALA HIS LYS ILE GLN SER PRO GLN GLU TRP SEQRES 6 B 171 GLU ALA LEU GLN ALA LEU THR VAL LEU GLU ALA CYS MET SEQRES 7 B 171 LYS ASN CYS GLY ARG ARG PHE HIS ASN GLU VAL GLY LYS SEQRES 8 B 171 PHE ARG PHE LEU ASN GLU LEU ILE LYS VAL VAL SER PRO SEQRES 9 B 171 LYS TYR LEU GLY ASP ARG VAL SER GLU LYS VAL LYS THR SEQRES 10 B 171 LYS VAL ILE GLU LEU LEU TYR SER TRP THR MET ALA LEU SEQRES 11 B 171 PRO GLU GLU ALA LYS ILE LYS ASP ALA TYR HIS MET LEU SEQRES 12 B 171 LYS ARG GLN GLY ILE VAL GLN SER ASP PRO PRO ILE PRO SEQRES 13 B 171 VAL ASP ARG THR LEU ILE PRO SER PRO PRO PRO ARG PRO SEQRES 14 B 171 LYS ASN SEQRES 1 C 171 GLY ALA MET GLY SER MET ALA GLU ALA GLU GLY GLU SER SEQRES 2 C 171 LEU GLU SER TRP LEU ASN LYS ALA THR ASN PRO SER ASN SEQRES 3 C 171 ARG GLN GLU ASP TRP GLU TYR ILE ILE GLY PHE CYS ASP SEQRES 4 C 171 GLN ILE ASN LYS GLU LEU GLU GLY PRO GLN ILE ALA VAL SEQRES 5 C 171 ARG LEU LEU ALA HIS LYS ILE GLN SER PRO GLN GLU TRP SEQRES 6 C 171 GLU ALA LEU GLN ALA LEU THR VAL LEU GLU ALA CYS MET SEQRES 7 C 171 LYS ASN CYS GLY ARG ARG PHE HIS ASN GLU VAL GLY LYS SEQRES 8 C 171 PHE ARG PHE LEU ASN GLU LEU ILE LYS VAL VAL SER PRO SEQRES 9 C 171 LYS TYR LEU GLY ASP ARG VAL SER GLU LYS VAL LYS THR SEQRES 10 C 171 LYS VAL ILE GLU LEU LEU TYR SER TRP THR MET ALA LEU SEQRES 11 C 171 PRO GLU GLU ALA LYS ILE LYS ASP ALA TYR HIS MET LEU SEQRES 12 C 171 LYS ARG GLN GLY ILE VAL GLN SER ASP PRO PRO ILE PRO SEQRES 13 C 171 VAL ASP ARG THR LEU ILE PRO SER PRO PRO PRO ARG PRO SEQRES 14 C 171 LYS ASN SEQRES 1 D 171 GLY ALA MET GLY SER MET ALA GLU ALA GLU GLY GLU SER SEQRES 2 D 171 LEU GLU SER TRP LEU ASN LYS ALA THR ASN PRO SER ASN SEQRES 3 D 171 ARG GLN GLU ASP TRP GLU TYR ILE ILE GLY PHE CYS ASP SEQRES 4 D 171 GLN ILE ASN LYS GLU LEU GLU GLY PRO GLN ILE ALA VAL SEQRES 5 D 171 ARG LEU LEU ALA HIS LYS ILE GLN SER PRO GLN GLU TRP SEQRES 6 D 171 GLU ALA LEU GLN ALA LEU THR VAL LEU GLU ALA CYS MET SEQRES 7 D 171 LYS ASN CYS GLY ARG ARG PHE HIS ASN GLU VAL GLY LYS SEQRES 8 D 171 PHE ARG PHE LEU ASN GLU LEU ILE LYS VAL VAL SER PRO SEQRES 9 D 171 LYS TYR LEU GLY ASP ARG VAL SER GLU LYS VAL LYS THR SEQRES 10 D 171 LYS VAL ILE GLU LEU LEU TYR SER TRP THR MET ALA LEU SEQRES 11 D 171 PRO GLU GLU ALA LYS ILE LYS ASP ALA TYR HIS MET LEU SEQRES 12 D 171 LYS ARG GLN GLY ILE VAL GLN SER ASP PRO PRO ILE PRO SEQRES 13 D 171 VAL ASP ARG THR LEU ILE PRO SER PRO PRO PRO ARG PRO SEQRES 14 D 171 LYS ASN SEQRES 1 E 12 PHE HIS ASP ASP SEP ASP GLU ASP LEU LEU HIS ILE SEQRES 1 F 12 PHE HIS ASP ASP SEP ASP GLU ASP LEU LEU HIS ILE SEQRES 1 G 12 PHE HIS ASP ASP SEP ASP GLU ASP LEU LEU HIS ILE SEQRES 1 H 12 PHE HIS ASP ASP SEP ASP GLU ASP LEU LEU HIS ILE
MODRES 1LF8 SEP E 305 SER PHOSPHOSERINE MODRES 1LF8 SEP F 305 SER PHOSPHOSERINE MODRES 1LF8 SEP G 305 SER PHOSPHOSERINE MODRES 1LF8 SEP H 305 SER PHOSPHOSERINE
HET SEP E 305 10 HET SEP F 305 10 HET SEP G 305 10 HET SEP H 305 20
HETNAM SEP PHOSPHOSERINE
HETSYN SEP PHOSPHONOSERINE
FORMUL 5 SEP 4(C3 H8 N O6 P) FORMUL 9 HOH *300(H2 O)
HELIX 1 1 SER A 8 ASN A 18 1 11 HELIX 2 2 ASP A 25 GLU A 39 1 15 HELIX 3 3 GLU A 41 GLN A 55 1 15 HELIX 4 4 GLN A 58 CYS A 76 1 19 HELIX 5 5 CYS A 76 GLY A 85 1 10 HELIX 6 6 LYS A 86 SER A 98 1 13 HELIX 7 7 LEU A 102 VAL A 106 5 5 HELIX 8 8 SER A 107 LEU A 125 1 19 HELIX 9 9 GLU A 128 GLN A 141 1 14 HELIX 10 10 GLY B -1 ALA B 2 5 4 HELIX 11 11 GLU B 3 ASN B 18 1 16 HELIX 12 12 ASP B 25 GLU B 39 1 15 HELIX 13 13 GLU B 41 GLN B 55 1 15 HELIX 14 14 GLN B 58 CYS B 76 1 19 HELIX 15 15 CYS B 76 GLY B 85 1 10 HELIX 16 16 LYS B 86 SER B 98 1 13 HELIX 17 17 LEU B 102 VAL B 106 5 5 HELIX 18 18 SER B 107 LEU B 125 1 19 HELIX 19 19 GLU B 128 GLN B 141 1 14 HELIX 20 20 SER C 8 THR C 17 1 10 HELIX 21 21 ASP C 25 GLU C 39 1 15 HELIX 22 22 GLU C 41 GLN C 55 1 15 HELIX 23 23 GLN C 58 CYS C 76 1 19 HELIX 24 24 CYS C 76 GLY C 85 1 10 HELIX 25 25 LYS C 86 SER C 98 1 13 HELIX 26 26 LEU C 102 VAL C 106 5 5 HELIX 27 27 SER C 107 LEU C 125 1 19 HELIX 28 28 GLU C 128 GLN C 141 1 14 HELIX 29 29 GLY D -1 ALA D 2 5 4 HELIX 30 30 GLU D 3 THR D 17 1 15 HELIX 31 31 ASP D 25 GLU D 39 1 15 HELIX 32 32 GLU D 41 GLN D 55 1 15 HELIX 33 33 GLN D 58 CYS D 76 1 19 HELIX 34 34 CYS D 76 GLY D 85 1 10 HELIX 35 35 LYS D 86 SER D 98 1 13 HELIX 36 36 SER D 107 LEU D 125 1 19 HELIX 37 37 GLU D 128 GLN D 141 1 14
LINK C SEP E 305 N ASP E 306 1555 1555 1.33 LINK C SEP F 305 N ASP F 306 1555 1555 1.33 LINK C SEP G 305 N ASP G 306 1555 1555 1.33 LINK C BSEP H 305 N ASP H 306 1555 1555 1.33 LINK C ASEP H 305 N ASP H 306 1555 1555 1.32
CRYST1 124.540 129.700 108.580 90.00 90.00 90.00 C 2 2 21 32
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 0.008030 0.000000 0.000000 0.00000
SCALE2 0.000000 0.007710 0.000000 0.00000
SCALE3 0.000000 0.000000 0.009210 0.00000