HEADER HYDROLASE ACTIVATOR/PROTEIN TRANSPORT 27-FEB-06 2G77 TITLE CRYSTAL STRUCTURE OF GYP1 TBC DOMAIN IN COMPLEX WITH RAB33 GTPASE TITLE 2 BOUND TO GDP AND ALF3 COMPND MOL_ID: 1; COMPND 2 MOLECULE: GTPASE-ACTIVATING PROTEIN GYP1; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: GYP1 TBC DOMAIN; COMPND 5 SYNONYM: GAP FOR YPT1; COMPND 6 ENGINEERED: YES; COMPND 7 MUTATION: YES; COMPND 8 MOL_ID: 2; COMPND 9 MOLECULE: RAS-RELATED PROTEIN RAB-33B; COMPND 10 CHAIN: B; COMPND 11 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: SACCHAROMYCES CEREVISIAE; SOURCE 3 ORGANISM_COMMON: BAKER'S YEAST; SOURCE 4 ORGANISM_TAXID: 4932; SOURCE 5 GENE: GYP1; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21(DE3) RIL CODON PLUS; SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PET15B; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: MODIFIED PET15B; SOURCE 11 MOL_ID: 2; SOURCE 12 ORGANISM_SCIENTIFIC: MUS MUSCULUS; SOURCE 13 ORGANISM_COMMON: HOUSE MOUSE; SOURCE 14 ORGANISM_TAXID: 10090; SOURCE 15 GENE: RAB33B; SOURCE 16 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 17 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 18 EXPRESSION_SYSTEM_STRAIN: BL21(DE3) RIL CODON PLUS; SOURCE 19 EXPRESSION_SYSTEM_VECTOR_TYPE: PET15B; SOURCE 20 EXPRESSION_SYSTEM_PLASMID: MODIFIED PET15B KEYWDS PROTEIN TRANSPORT, GYP1 TBC DOMAIN, RAB33, VESICULAR TRAFFICKING, KEYWDS 2 HYDROLASE ACTIVATOR-PROTEIN TRANSPORT COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR X.PAN,S.EATHIRAJ,M.MUNSON,D.G.LAMBRIGHT REVDAT 3 20-OCT-21 2G77 1 REMARK SEQADV LINK REVDAT 2 24-FEB-09 2G77 1 VERSN REVDAT 1 25-JUL-06 2G77 0 JRNL AUTH X.PAN,S.EATHIRAJ,M.MUNSON,D.G.LAMBRIGHT JRNL TITL TBC-DOMAIN GAPS FOR RAB GTPASES ACCELERATE GTP HYDROLYSIS BY JRNL TITL 2 A DUAL-FINGER MECHANISM. JRNL REF NATURE V. 442 303 2006 JRNL REFN ISSN 0028-0836 JRNL PMID 16855591 JRNL DOI 10.1038/NATURE04847 REMARK 2 REMARK 2 RESOLUTION. 2.26 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.2.0005 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) : 2.26 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 8.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 98.7 REMARK 3 NUMBER OF REFLECTIONS : 30553 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) : 0.207 REMARK 3 R VALUE (WORKING SET) : 0.205 REMARK 3 FREE R VALUE : 0.244 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 1634 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) : 2.26 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.32 REMARK 3 REFLECTION IN BIN (WORKING SET) : 2072 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 97.46 REMARK 3 BIN R VALUE (WORKING SET) : 0.2380 REMARK 3 BIN FREE R VALUE SET COUNT : 112 REMARK 3 BIN FREE R VALUE : 0.3490 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 4141 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 33 REMARK 3 SOLVENT ATOMS : 416 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 27.00 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 39.54 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -1.88000 REMARK 3 B22 (A**2) : 4.63000 REMARK 3 B33 (A**2) : -2.75000 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): 0.291 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.218 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.155 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 6.205 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.943 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.920 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 4276 ; 0.007 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 5805 ; 0.987 ; 1.942 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 501 ; 4.713 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 215 ;36.869 ;24.000 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 738 ;14.166 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 28 ;14.393 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 637 ; 0.069 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 3241 ; 0.003 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 2166 ; 0.181 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 2938 ; 0.298 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 397 ; 0.127 ; 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): 36 ; 0.166 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 30 ; 0.155 ; 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): 2626 ; 0.519 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 4107 ; 0.912 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1935 ; 0.817 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1696 ; 1.320 ; 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 : NULL REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : NULL 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 2G77 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 02-MAR-06. REMARK 100 THE DEPOSITION ID IS D_1000036774. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 09-FEB-05; 09-FEB-05 REMARK 200 TEMPERATURE (KELVIN) : 100; NULL REMARK 200 PH : 7.0 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y; Y REMARK 200 RADIATION SOURCE : NSLS; NSLS REMARK 200 BEAMLINE : X29A; X29A REMARK 200 X-RAY GENERATOR MODEL : NULL; NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M; M REMARK 200 WAVELENGTH OR RANGE (A) : 0.979026; 0.9793, 0.9790, 0.9670 REMARK 200 MONOCHROMATOR : SI 111 CHANNEL; SI 111 CHANNEL REMARK 200 OPTICS : NULL; NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD; CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 4; ADSC QUANTUM 315 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 33046 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.260 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 1017.00 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.0 REMARK 200 DATA REDUNDANCY : 5.000 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : 0.06500 REMARK 200 FOR THE DATA SET : 9.9000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.26 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.34 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.9 REMARK 200 DATA REDUNDANCY IN SHELL : 5.10 REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : 0.35400 REMARK 200 FOR SHELL : 4.930 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH; MAD REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MAD REMARK 200 SOFTWARE USED: SHARP REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 50.41 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.48 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 10~15% POLYETHYLENE GLYCOL 6000, 100 REMARK 280 MM SODIUM ACETATE, 10% GLYCEROL, 20 MM NAF, 2MM ALCL3, 50 MM REMARK 280 HEPES, PH7.0, EVAPORATION, TEMPERATURE 277K 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 36.10000 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 51.28050 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 47.26300 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 51.28050 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 36.10000 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 47.26300 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1 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: BIOLOGICAL UNIT IS SAME AS PROTEIN COMPLEX IN THE REMARK 300 ASYMMETRIC UNIT 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: 3740 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 21910 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -21.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B 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 228 REMARK 465 GLY A 229 REMARK 465 HIS A 230 REMARK 465 HIS A 231 REMARK 465 HIS A 232 REMARK 465 HIS A 233 REMARK 465 HIS A 234 REMARK 465 HIS A 235 REMARK 465 GLY A 236 REMARK 465 SER A 237 REMARK 465 LEU A 238 REMARK 465 VAL A 239 REMARK 465 PRO A 240 REMARK 465 ARG A 241 REMARK 465 GLY A 242 REMARK 465 SER A 243 REMARK 465 ASP A 244 REMARK 465 VAL A 245 REMARK 465 GLU A 511 REMARK 465 VAL A 512 REMARK 465 THR A 513 REMARK 465 SER A 514 REMARK 465 SER A 515 REMARK 465 TYR A 516 REMARK 465 SER A 517 REMARK 465 MET A 518 REMARK 465 SER A 519 REMARK 465 SER A 520 REMARK 465 ASN A 521 REMARK 465 ASP A 522 REMARK 465 ILE A 523 REMARK 465 LYS A 524 REMARK 465 PRO A 525 REMARK 465 PRO A 526 REMARK 465 VAL A 527 REMARK 465 THR A 528 REMARK 465 PRO A 529 REMARK 465 THR A 530 REMARK 465 GLU A 531 REMARK 465 PRO A 532 REMARK 465 ARG A 533 REMARK 465 VAL A 534 REMARK 465 ALA A 535 REMARK 465 SER A 536 REMARK 465 PHE A 537 REMARK 465 VAL A 538 REMARK 465 THR A 539 REMARK 465 PRO A 540 REMARK 465 THR A 541 REMARK 465 LYS A 542 REMARK 465 ASP A 543 REMARK 465 PHE A 544 REMARK 465 GLN A 545 REMARK 465 SER A 546 REMARK 465 PRO A 547 REMARK 465 THR A 548 REMARK 465 THR A 549 REMARK 465 ALA A 550 REMARK 465 LEU A 551 REMARK 465 SER A 552 REMARK 465 ASN A 553 REMARK 465 MET A 554 REMARK 465 THR A 555 REMARK 465 PRO A 556 REMARK 465 ASN A 557 REMARK 465 ASN A 558 REMARK 465 ALA A 559 REMARK 465 VAL A 560 REMARK 465 GLU A 561 REMARK 465 ASP A 562 REMARK 465 SER A 563 REMARK 465 GLY A 564 REMARK 465 LYS A 565 REMARK 465 MET A 566 REMARK 465 ARG A 567 REMARK 465 SER A 634 REMARK 465 HIS A 635 REMARK 465 TRP A 636 REMARK 465 LEU A 637 REMARK 465 MET B 5 REMARK 465 GLY B 6 REMARK 465 HIS B 7 REMARK 465 HIS B 8 REMARK 465 HIS B 9 REMARK 465 HIS B 10 REMARK 465 HIS B 11 REMARK 465 HIS B 12 REMARK 465 GLY B 13 REMARK 465 SER B 14 REMARK 465 SER B 15 REMARK 465 SER B 16 REMARK 465 CYS B 17 REMARK 465 ALA B 18 REMARK 465 VAL B 19 REMARK 465 SER B 20 REMARK 465 GLY B 21 REMARK 465 ALA B 22 REMARK 465 SER B 23 REMARK 465 GLY B 24 REMARK 465 CYS B 25 REMARK 465 LEU B 26 REMARK 465 PRO B 27 REMARK 465 PRO B 28 REMARK 465 ALA B 29 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 GLN A 246 CG CD OE1 NE2 REMARK 470 GLN A 510 CG CD OE1 NE2 REMARK 470 GLN A 568 CG CD OE1 NE2 REMARK 470 LYS A 608 CG CD CE NZ REMARK 470 ASP A 631 CG OD1 OD2 REMARK 470 THR A 633 OG1 CG2 REMARK 470 ARG B 30 CG CD NE CZ NH1 NH2 REMARK 470 MET B 99 CG SD CE REMARK 470 LEU B 137 CG CD1 CD2 REMARK 470 ASN B 139 CG OD1 ND2 REMARK 470 ASP B 140 CG OD1 OD2 REMARK 470 HIS B 202 CG ND1 CD2 CE1 NE2 REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND LENGTHS REMARK 500 REMARK 500 THE STEREOCHEMICAL PARAMETERS OF THE FOLLOWING RESIDUES REMARK 500 HAVE VALUES WHICH DEVIATE FROM EXPECTED VALUES BY MORE REMARK 500 THAN 6*RMSD (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 500 IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT: (10X,I3,1X,2(A3,1X,A1,I4,A1,1X,A4,3X),1X,F6.3) REMARK 500 REMARK 500 EXPECTED VALUES PROTEIN: ENGH AND HUBER, 1999 REMARK 500 EXPECTED VALUES NUCLEIC ACID: CLOWNEY ET AL 1996 REMARK 500 REMARK 500 M RES CSSEQI ATM1 RES CSSEQI ATM2 DEVIATION REMARK 500 GLU A 612 CB GLU A 612 CG 0.126 REMARK 500 CYS B 54 CB CYS B 54 SG -0.099 REMARK 500 CYS B 150 CB CYS B 150 SG -0.117 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND ANGLES REMARK 500 REMARK 500 THE STEREOCHEMICAL PARAMETERS OF THE FOLLOWING RESIDUES REMARK 500 HAVE VALUES WHICH DEVIATE FROM EXPECTED VALUES BY MORE REMARK 500 THAN 6*RMSD (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 500 IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT: (10X,I3,1X,A3,1X,A1,I4,A1,3(1X,A4,2X),12X,F5.1) REMARK 500 REMARK 500 EXPECTED VALUES PROTEIN: ENGH AND HUBER, 1999 REMARK 500 EXPECTED VALUES NUCLEIC ACID: CLOWNEY ET AL 1996 REMARK 500 REMARK 500 M RES CSSEQI ATM1 ATM2 ATM3 REMARK 500 ASP A 272 CB - CG - OD1 ANGL. DEV. = 5.5 DEGREES REMARK 500 ARG A 286 NE - CZ - NH2 ANGL. DEV. = -3.9 DEGREES REMARK 500 ARG A 482 NE - CZ - NH1 ANGL. DEV. = 4.7 DEGREES REMARK 500 ARG A 482 NE - CZ - NH2 ANGL. DEV. = -5.4 DEGREES REMARK 500 ARG B 153 NE - CZ - NH1 ANGL. DEV. = -4.7 DEGREES REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: TORSION ANGLES REMARK 500 REMARK 500 TORSION ANGLES OUTSIDE THE EXPECTED RAMACHANDRAN REGIONS: REMARK 500 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 500 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT:(10X,I3,1X,A3,1X,A1,I4,A1,4X,F7.2,3X,F7.2) REMARK 500 REMARK 500 EXPECTED VALUES: GJ KLEYWEGT AND TA JONES (1996). PHI/PSI- REMARK 500 CHOLOGY: RAMACHANDRAN REVISITED. STRUCTURE 4, 1395 - 1400 REMARK 500 REMARK 500 M RES CSSEQI PSI PHI REMARK 500 TYR A 296 -61.78 -90.33 REMARK 500 PHE A 323 59.93 -106.25 REMARK 500 ILE A 436 37.60 -141.46 REMARK 500 ASP A 438 -17.71 -48.93 REMARK 500 ALA A 632 100.56 -174.97 REMARK 500 ASN B 43 7.55 81.78 REMARK 500 SER B 98 -60.93 -94.45 REMARK 500 MET B 99 -27.00 -140.93 REMARK 500 SER B 201 31.45 -85.56 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 B 503 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 THR B 47 OG1 REMARK 620 2 THR B 65 OG1 84.3 REMARK 620 3 GDP B 501 O3B 96.0 175.9 REMARK 620 4 AF3 B 502 F1 164.6 81.6 97.6 REMARK 620 5 HOH B 504 O 92.8 88.2 95.8 92.9 REMARK 620 6 HOH B 632 O 85.8 93.4 82.6 88.9 177.8 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 AF3 B 502 AL REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GDP B 501 O1B REMARK 620 2 AF3 B 502 F1 97.8 REMARK 620 3 AF3 B 502 F2 97.9 119.6 REMARK 620 4 AF3 B 502 F3 74.0 119.6 120.8 REMARK 620 5 MG B 503 MG 73.0 33.7 100.2 129.9 REMARK 620 6 HOH B 550 O 168.2 81.4 92.6 96.1 110.3 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 MG B 503 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GDP B 501 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE AF3 B 502 DBREF 2G77 A 244 637 UNP Q08484 GYP1_YEAST 244 637 DBREF 2G77 B 14 202 UNP O35963 RB33B_MOUSE 14 202 SEQADV 2G77 MET A 228 UNP Q08484 CLONING ARTIFACT SEQADV 2G77 GLY A 229 UNP Q08484 CLONING ARTIFACT SEQADV 2G77 HIS A 230 UNP Q08484 CLONING ARTIFACT SEQADV 2G77 HIS A 231 UNP Q08484 CLONING ARTIFACT SEQADV 2G77 HIS A 232 UNP Q08484 CLONING ARTIFACT SEQADV 2G77 HIS A 233 UNP Q08484 CLONING ARTIFACT SEQADV 2G77 HIS A 234 UNP Q08484 CLONING ARTIFACT SEQADV 2G77 HIS A 235 UNP Q08484 CLONING ARTIFACT SEQADV 2G77 GLY A 236 UNP Q08484 CLONING ARTIFACT SEQADV 2G77 SER A 237 UNP Q08484 CLONING ARTIFACT SEQADV 2G77 LEU A 238 UNP Q08484 CLONING ARTIFACT SEQADV 2G77 VAL A 239 UNP Q08484 CLONING ARTIFACT SEQADV 2G77 PRO A 240 UNP Q08484 CLONING ARTIFACT SEQADV 2G77 ARG A 241 UNP Q08484 CLONING ARTIFACT SEQADV 2G77 GLY A 242 UNP Q08484 CLONING ARTIFACT SEQADV 2G77 SER A 243 UNP Q08484 CLONING ARTIFACT SEQADV 2G77 LYS A 405 UNP Q08484 GLU 405 ENGINEERED MUTATION SEQADV 2G77 MET B 5 UNP O35963 CLONING ARTIFACT SEQADV 2G77 GLY B 6 UNP O35963 CLONING ARTIFACT SEQADV 2G77 HIS B 7 UNP O35963 CLONING ARTIFACT SEQADV 2G77 HIS B 8 UNP O35963 CLONING ARTIFACT SEQADV 2G77 HIS B 9 UNP O35963 CLONING ARTIFACT SEQADV 2G77 HIS B 10 UNP O35963 CLONING ARTIFACT SEQADV 2G77 HIS B 11 UNP O35963 CLONING ARTIFACT SEQADV 2G77 HIS B 12 UNP O35963 CLONING ARTIFACT SEQADV 2G77 GLY B 13 UNP O35963 CLONING ARTIFACT SEQADV 2G77 MSE B 116 UNP O35963 MET 116 MODIFIED RESIDUE SEQADV 2G77 MSE B 119 UNP O35963 MET 119 MODIFIED RESIDUE SEQADV 2G77 MSE B 172 UNP O35963 MET 172 MODIFIED RESIDUE SEQADV 2G77 MSE B 193 UNP O35963 MET 193 MODIFIED RESIDUE SEQRES 1 A 410 MET GLY HIS HIS HIS HIS HIS HIS GLY SER LEU VAL PRO SEQRES 2 A 410 ARG GLY SER ASP VAL GLN GLU LEU ASN SER ILE ILE GLN SEQRES 3 A 410 ARG ILE SER LYS PHE ASP ASN ILE LEU LYS ASP LYS THR SEQRES 4 A 410 ILE ILE ASN GLN GLN ASP LEU ARG GLN ILE SER TRP ASN SEQRES 5 A 410 GLY ILE PRO LYS ILE HIS ARG PRO VAL VAL TRP LYS LEU SEQRES 6 A 410 LEU ILE GLY TYR LEU PRO VAL ASN THR LYS ARG GLN GLU SEQRES 7 A 410 GLY PHE LEU GLN ARG LYS ARG LYS GLU TYR ARG ASP SER SEQRES 8 A 410 LEU LYS HIS THR PHE SER ASP GLN HIS SER ARG ASP ILE SEQRES 9 A 410 PRO THR TRP HIS GLN ILE GLU ILE ASP ILE PRO ARG THR SEQRES 10 A 410 ASN PRO HIS ILE PRO LEU TYR GLN PHE LYS SER VAL GLN SEQRES 11 A 410 ASN SER LEU GLN ARG ILE LEU TYR LEU TRP ALA ILE ARG SEQRES 12 A 410 HIS PRO ALA SER GLY TYR VAL GLN GLY ILE ASN ASP LEU SEQRES 13 A 410 VAL THR PRO PHE PHE GLU THR PHE LEU THR GLU TYR LEU SEQRES 14 A 410 PRO PRO SER GLN ILE ASP ASP VAL LYS ILE LYS ASP PRO SEQRES 15 A 410 SER THR TYR MET VAL ASP GLU GLN ILE THR ASP LEU GLU SEQRES 16 A 410 ALA ASP THR PHE TRP CYS LEU THR LYS LEU LEU GLU GLN SEQRES 17 A 410 ILE THR ASP ASN TYR ILE HIS GLY GLN PRO GLY ILE LEU SEQRES 18 A 410 ARG GLN VAL LYS ASN LEU SER GLN LEU VAL LYS ARG ILE SEQRES 19 A 410 ASP ALA ASP LEU TYR ASN HIS PHE GLN ASN GLU HIS VAL SEQRES 20 A 410 GLU PHE ILE GLN PHE ALA PHE ARG TRP MET ASN CYS LEU SEQRES 21 A 410 LEU MET ARG GLU PHE GLN MET GLY THR VAL ILE ARG MET SEQRES 22 A 410 TRP ASP THR TYR LEU SER GLU THR SER GLN GLU VAL THR SEQRES 23 A 410 SER SER TYR SER MET SER SER ASN ASP ILE LYS PRO PRO SEQRES 24 A 410 VAL THR PRO THR GLU PRO ARG VAL ALA SER PHE VAL THR SEQRES 25 A 410 PRO THR LYS ASP PHE GLN SER PRO THR THR ALA LEU SER SEQRES 26 A 410 ASN MET THR PRO ASN ASN ALA VAL GLU ASP SER GLY LYS SEQRES 27 A 410 MET ARG GLN SER SER LEU ASN GLU PHE HIS VAL PHE VAL SEQRES 28 A 410 CYS ALA ALA PHE LEU ILE LYS TRP SER ASP GLN LEU MET SEQRES 29 A 410 GLU MET ASP PHE GLN GLU THR ILE THR PHE LEU GLN ASN SEQRES 30 A 410 PRO PRO THR LYS ASP TRP THR GLU THR ASP ILE GLU MET SEQRES 31 A 410 LEU LEU SER GLU ALA PHE ILE TRP GLN SER LEU TYR LYS SEQRES 32 A 410 ASP ALA THR SER HIS TRP LEU SEQRES 1 B 198 MET GLY HIS HIS HIS HIS HIS HIS GLY SER SER SER CYS SEQRES 2 B 198 ALA VAL SER GLY ALA SER GLY CYS LEU PRO PRO ALA ARG SEQRES 3 B 198 SER ARG ILE PHE LYS ILE ILE VAL ILE GLY ASP SER ASN SEQRES 4 B 198 VAL GLY LYS THR CYS LEU THR TYR ARG PHE CYS ALA GLY SEQRES 5 B 198 ARG PHE PRO ASP ARG THR GLU ALA THR ILE GLY VAL ASP SEQRES 6 B 198 PHE ARG GLU ARG ALA VAL ASP ILE ASP GLY GLU ARG ILE SEQRES 7 B 198 LYS ILE GLN LEU TRP ASP THR ALA GLY GLN GLU ARG PHE SEQRES 8 B 198 ARG LYS SER MET VAL GLN HIS TYR TYR ARG ASN VAL HIS SEQRES 9 B 198 ALA VAL VAL PHE VAL TYR ASP MSE THR ASN MSE ALA SER SEQRES 10 B 198 PHE HIS SER LEU PRO ALA TRP ILE GLU GLU CYS LYS GLN SEQRES 11 B 198 HIS LEU LEU ALA ASN ASP ILE PRO ARG ILE LEU VAL GLY SEQRES 12 B 198 ASN LYS CYS ASP LEU ARG SER ALA ILE GLN VAL PRO THR SEQRES 13 B 198 ASP LEU ALA GLN LYS PHE ALA ASP THR HIS SER MSE PRO SEQRES 14 B 198 LEU PHE GLU THR SER ALA LYS ASN PRO ASN ASP ASN ASP SEQRES 15 B 198 HIS VAL GLU ALA ILE PHE MSE THR LEU ALA HIS LYS LEU SEQRES 16 B 198 LYS SER HIS MODRES 2G77 MSE B 116 MET SELENOMETHIONINE MODRES 2G77 MSE B 119 MET SELENOMETHIONINE MODRES 2G77 MSE B 172 MET SELENOMETHIONINE MODRES 2G77 MSE B 193 MET SELENOMETHIONINE HET MSE B 116 8 HET MSE B 119 8 HET MSE B 172 8 HET MSE B 193 8 HET MG B 503 1 HET GDP B 501 28 HET AF3 B 502 4 HETNAM MSE SELENOMETHIONINE HETNAM MG MAGNESIUM ION HETNAM GDP GUANOSINE-5'-DIPHOSPHATE HETNAM AF3 ALUMINUM FLUORIDE FORMUL 2 MSE 4(C5 H11 N O2 SE) FORMUL 3 MG MG 2+ FORMUL 4 GDP C10 H15 N5 O11 P2 FORMUL 5 AF3 AL F3 FORMUL 6 HOH *416(H2 O) HELIX 1 1 ASN A 249 LYS A 263 1 15 HELIX 2 2 ASN A 269 TRP A 278 1 10 HELIX 3 3 HIS A 285 ILE A 294 1 10 HELIX 4 4 ASN A 300 LYS A 302 5 3 HELIX 5 5 ARG A 303 PHE A 323 1 21 HELIX 6 6 ASP A 330 ILE A 341 1 12 HELIX 7 7 PRO A 342 THR A 344 5 3 HELIX 8 8 ILE A 348 GLN A 352 5 5 HELIX 9 9 PHE A 353 ARG A 370 1 18 HELIX 10 10 GLY A 379 THR A 393 1 15 HELIX 11 11 GLU A 394 LEU A 396 5 3 HELIX 12 12 PRO A 397 VAL A 404 5 8 HELIX 13 13 ASP A 408 TYR A 412 5 5 HELIX 14 14 VAL A 414 GLN A 435 1 22 HELIX 15 15 ILE A 436 TYR A 440 5 5 HELIX 16 16 GLN A 444 ASP A 462 1 19 HELIX 17 17 ASP A 462 GLU A 472 1 11 HELIX 18 18 PHE A 476 CYS A 486 1 11 HELIX 19 19 LEU A 488 PHE A 492 5 5 HELIX 20 20 GLN A 493 THR A 508 1 16 HELIX 21 21 SER A 570 TRP A 586 1 17 HELIX 22 22 TRP A 586 MET A 591 1 6 HELIX 23 23 ASP A 594 ASN A 604 1 11 HELIX 24 24 THR A 611 TYR A 629 1 19 HELIX 25 25 GLY B 45 GLY B 56 1 12 HELIX 26 26 GLN B 92 LYS B 97 1 6 HELIX 27 27 MET B 99 TYR B 104 5 6 HELIX 28 28 ASN B 118 SER B 124 1 7 HELIX 29 29 SER B 124 GLN B 134 1 11 HELIX 30 30 LEU B 152 ILE B 156 5 5 HELIX 31 31 PRO B 159 HIS B 170 1 12 HELIX 32 32 ASN B 181 ASN B 183 5 3 HELIX 33 33 ASP B 184 SER B 201 1 18 SHEET 1 A 6 VAL B 68 ILE B 77 0 SHEET 2 A 6 GLU B 80 THR B 89 -1 O ILE B 84 N ARG B 73 SHEET 3 A 6 ARG B 32 ILE B 39 1 N ILE B 36 O GLN B 85 SHEET 4 A 6 ALA B 109 ASP B 115 1 O VAL B 111 N ILE B 37 SHEET 5 A 6 ARG B 143 ASN B 148 1 O ILE B 144 N PHE B 112 SHEET 6 A 6 LEU B 174 GLU B 176 1 O PHE B 175 N GLY B 147 LINK C ASP B 115 N MSE B 116 1555 1555 1.33 LINK C MSE B 116 N THR B 117 1555 1555 1.35 LINK C ASN B 118 N MSE B 119 1555 1555 1.33 LINK C MSE B 119 N ALA B 120 1555 1555 1.33 LINK C SER B 171 N MSE B 172 1555 1555 1.34 LINK C MSE B 172 N PRO B 173 1555 1555 1.35 LINK C PHE B 192 N MSE B 193 1555 1555 1.33 LINK C MSE B 193 N THR B 194 1555 1555 1.32 LINK OG1 THR B 47 MG MG B 503 1555 1555 2.04 LINK OG1 THR B 65 MG MG B 503 1555 1555 2.03 LINK O1B GDP B 501 AL AF3 B 502 1555 1555 2.37 LINK O3B GDP B 501 MG MG B 503 1555 1555 2.18 LINK AL AF3 B 502 MG MG B 503 1555 1555 3.63 LINK F1 AF3 B 502 MG MG B 503 1555 1555 2.43 LINK AL AF3 B 502 O HOH B 550 1555 1555 2.31 LINK MG MG B 503 O HOH B 504 1555 1555 2.01 LINK MG MG B 503 O HOH B 632 1555 1555 2.11 SITE 1 AC1 6 THR B 47 THR B 65 GDP B 501 AF3 B 502 SITE 2 AC1 6 HOH B 504 HOH B 632 SITE 1 AC2 24 ARG A 343 ASN B 43 VAL B 44 GLY B 45 SITE 2 AC2 24 LYS B 46 THR B 47 CYS B 48 PHE B 58 SITE 3 AC2 24 THR B 62 ASN B 148 LYS B 149 ASP B 151 SITE 4 AC2 24 SER B 178 ALA B 179 LYS B 180 AF3 B 502 SITE 5 AC2 24 MG B 503 HOH B 534 HOH B 537 HOH B 551 SITE 6 AC2 24 HOH B 564 HOH B 568 HOH B 601 HOH B 632 SITE 1 AC3 13 ARG A 343 GLN A 378 SER B 42 ASN B 43 SITE 2 AC3 13 LYS B 46 ALA B 64 THR B 65 THR B 89 SITE 3 AC3 13 ALA B 90 GLY B 91 GDP B 501 MG B 503 SITE 4 AC3 13 HOH B 550 CRYST1 72.200 94.526 102.561 90.00 90.00 90.00 P 21 21 21 4 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 0.013850 0.000000 0.000000 0.00000 SCALE2 0.000000 0.010579 0.000000 0.00000 SCALE3 0.000000 0.000000 0.009750 0.00000