HEADER HYDROLASE 13-JUL-16 5KUT TITLE HMIRO2 C-TERMINAL GTPASE DOMAIN, GDP-BOUND COMPND MOL_ID: 1; COMPND 2 MOLECULE: MITOCHONDRIAL RHO GTPASE 2; COMPND 3 CHAIN: A, B, C; COMPND 4 FRAGMENT: C-TERMINAL GTPASE DOMAIN (UNP RESIDUES 409-588); COMPND 5 SYNONYM: HMIRO-2, RAS HOMOLOG GENE FAMILY MEMBER T2; COMPND 6 EC: 3.6.5.-; COMPND 7 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: RHOT2, ARHT2, C16ORF39; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS MIRO, GTPASE, PARKIN, MITOCHONDRIA, HYDROLASE EXPDTA X-RAY DIFFRACTION AUTHOR J.L.KLOSOWIAK,P.J.FOCIA,S.E.RICE,D.M.FREYMANN REVDAT 2 04-OCT-23 5KUT 1 REMARK LINK REVDAT 1 21-SEP-16 5KUT 0 JRNL AUTH J.L.KLOSOWIAK,S.PARK,K.P.SMITH,M.E.FRENCH,P.J.FOCIA, JRNL AUTH 2 D.M.FREYMANN,S.E.RICE JRNL TITL STRUCTURAL INSIGHTS INTO PARKIN SUBSTRATE LYSINE TARGETING JRNL TITL 2 FROM MINIMAL MIRO SUBSTRATES. JRNL REF SCI REP V. 6 33019 2016 JRNL REFN ESSN 2045-2322 JRNL PMID 27605430 JRNL DOI 10.1038/SREP33019 REMARK 2 REMARK 2 RESOLUTION. 1.69 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX (1.10_2155: ???) 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 : NULL REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.69 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 37.58 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 0.020 REMARK 3 COMPLETENESS FOR RANGE (%) : 98.7 REMARK 3 NUMBER OF REFLECTIONS : 56761 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.219 REMARK 3 R VALUE (WORKING SET) : 0.218 REMARK 3 FREE R VALUE : 0.239 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.960 REMARK 3 FREE R VALUE TEST SET COUNT : 2804 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 37.5854 - 5.2560 0.98 3441 193 0.1650 0.1546 REMARK 3 2 5.2560 - 4.1736 1.00 3515 207 0.1502 0.1783 REMARK 3 3 4.1736 - 3.6465 1.00 3506 154 0.1649 0.2064 REMARK 3 4 3.6465 - 3.3133 1.00 3549 171 0.1790 0.2138 REMARK 3 5 3.3133 - 3.0760 1.00 3517 171 0.1894 0.2083 REMARK 3 6 3.0760 - 2.8947 1.00 3498 175 0.2117 0.2250 REMARK 3 7 2.8947 - 2.7497 1.00 3548 183 0.2039 0.2124 REMARK 3 8 2.7497 - 2.6301 1.00 3477 192 0.2040 0.2463 REMARK 3 9 2.6301 - 2.5289 1.00 3528 161 0.2122 0.2336 REMARK 3 10 2.5289 - 2.4416 1.00 3518 177 0.2100 0.2047 REMARK 3 11 2.4416 - 2.3653 1.00 3462 220 0.2166 0.2236 REMARK 3 12 2.3653 - 2.2977 1.00 3507 189 0.2297 0.2908 REMARK 3 13 2.2977 - 2.2372 0.96 3384 191 0.3517 0.3939 REMARK 3 14 2.2372 - 2.1826 0.95 3349 188 0.3187 0.3695 REMARK 3 15 2.1826 - 2.1330 1.00 3474 182 0.2602 0.3229 REMARK 3 16 2.1330 - 2.0876 0.99 3431 206 0.2442 0.2655 REMARK 3 17 2.0876 - 2.0459 1.00 3512 175 0.2407 0.2601 REMARK 3 18 2.0459 - 2.0073 0.99 3570 152 0.2522 0.2764 REMARK 3 19 2.0073 - 1.9714 0.99 3461 184 0.2710 0.2612 REMARK 3 20 1.9714 - 1.9380 0.99 3471 149 0.3183 0.3779 REMARK 3 21 1.9380 - 1.9067 0.96 3383 169 0.4661 0.5028 REMARK 3 22 1.9067 - 1.8774 0.95 3317 175 0.4174 0.4215 REMARK 3 23 1.8774 - 1.8498 0.99 3500 170 0.3231 0.3390 REMARK 3 24 1.8498 - 1.8237 0.99 3509 151 0.3063 0.2836 REMARK 3 25 1.8237 - 1.7991 0.98 3439 180 0.3166 0.3043 REMARK 3 26 1.7991 - 1.7757 0.98 3469 191 0.3283 0.3714 REMARK 3 27 1.7757 - 1.7535 0.99 3412 194 0.3269 0.3189 REMARK 3 28 1.7535 - 1.7324 0.98 3445 210 0.3399 0.3181 REMARK 3 29 1.7324 - 1.7123 0.99 3385 204 0.3474 0.3667 REMARK 3 30 1.7123 - 1.6930 0.97 3474 167 0.3764 0.3745 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : NULL 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) : 0.230 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 27.930 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 : 0.005 4081 REMARK 3 ANGLE : 0.640 5590 REMARK 3 CHIRALITY : 0.044 624 REMARK 3 PLANARITY : 0.005 721 REMARK 3 DIHEDRAL : 11.677 2467 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : NULL 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 5KUT COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 14-JUL-16. REMARK 100 THE DEPOSITION ID IS D_1000222771. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 26-MAR-15 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : NULL REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : APS REMARK 200 BEAMLINE : 21-ID-D REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.978720 REMARK 200 MONOCHROMATOR : SI(111) REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MARMOSAIC 300 MM CCD REMARK 200 INTENSITY-INTEGRATION SOFTWARE : MOSFLM REMARK 200 DATA SCALING SOFTWARE : AIMLESS REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 57061 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.690 REMARK 200 RESOLUTION RANGE LOW (A) : 52.800 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.2 REMARK 200 DATA REDUNDANCY : 6.700 REMARK 200 R MERGE (I) : 0.08500 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 10.1000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.69 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : NULL REMARK 200 COMPLETENESS FOR SHELL (%) : NULL REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : NULL REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHENIX REMARK 200 STARTING MODEL: PDB ENTRY 4C0L REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 41.84 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.11 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 14 MG/ML PROTEIN, 0.2 M MAGNESIUM REMARK 280 FORMATE, 20% W/V PEG3350, VAPOR DIFFUSION, SITTING DROP, REMARK 280 TEMPERATURE 294K 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 51.94500 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 51.94500 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 40.30500 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 61.38000 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 6 -1.000000 0.000000 0.000000 40.30500 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 61.38000 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 51.94500 REMARK 290 SMTRY1 7 -1.000000 0.000000 0.000000 40.30500 REMARK 290 SMTRY2 7 0.000000 1.000000 0.000000 61.38000 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 51.94500 REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 40.30500 REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 61.38000 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 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: MONOMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: A 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: MONOMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: 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 350 REMARK 350 BIOMOLECULE: 3 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: MONOMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: 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 375 REMARK 375 SPECIAL POSITION REMARK 375 THE FOLLOWING ATOMS ARE FOUND TO BE WITHIN 0.15 ANGSTROMS REMARK 375 OF A SYMMETRY RELATED ATOM AND ARE ASSUMED TO BE ON SPECIAL REMARK 375 POSITIONS. REMARK 375 REMARK 375 ATOM RES CSSEQI REMARK 375 HOH A 833 LIES ON A SPECIAL POSITION. REMARK 375 HOH C 784 LIES ON A SPECIAL POSITION. 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 GLU A 583 REMARK 465 SER A 588 REMARK 465 LEU A 589 REMARK 465 GLU A 590 REMARK 465 HIS A 591 REMARK 465 HIS A 592 REMARK 465 HIS A 593 REMARK 465 HIS A 594 REMARK 465 HIS A 595 REMARK 465 HIS A 596 REMARK 465 ASP B 445 REMARK 465 LEU B 579 REMARK 465 VAL B 580 REMARK 465 HIS B 581 REMARK 465 ALA B 582 REMARK 465 GLU B 583 REMARK 465 LEU B 584 REMARK 465 HIS B 585 REMARK 465 PRO B 586 REMARK 465 SER B 587 REMARK 465 SER B 588 REMARK 465 LEU B 589 REMARK 465 GLU B 590 REMARK 465 HIS B 591 REMARK 465 HIS B 592 REMARK 465 HIS B 593 REMARK 465 HIS B 594 REMARK 465 HIS B 595 REMARK 465 HIS B 596 REMARK 465 MET C 408 REMARK 465 LYS C 409 REMARK 465 GLY C 410 REMARK 465 GLN C 411 REMARK 465 ALA C 533 REMARK 465 VAL C 534 REMARK 465 SER C 535 REMARK 465 HIS C 578 REMARK 465 LEU C 579 REMARK 465 VAL C 580 REMARK 465 HIS C 581 REMARK 465 ALA C 582 REMARK 465 GLU C 583 REMARK 465 LEU C 584 REMARK 465 HIS C 585 REMARK 465 PRO C 586 REMARK 465 SER C 587 REMARK 465 SER C 588 REMARK 465 LEU C 589 REMARK 465 GLU C 590 REMARK 465 HIS C 591 REMARK 465 HIS C 592 REMARK 465 HIS C 593 REMARK 465 HIS C 594 REMARK 465 HIS C 595 REMARK 465 HIS C 596 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 447 CG CD NE CZ NH1 NH2 REMARK 470 ARG B 447 CG CD NE CZ NH1 NH2 REMARK 470 ARG C 447 CG CD NE CZ NH1 NH2 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 A 810 O HOH A 830 1.81 REMARK 500 O HOH C 785 O HOH C 808 1.97 REMARK 500 O HOH B 742 O HOH B 809 2.02 REMARK 500 O HOH B 775 O HOH B 822 2.06 REMARK 500 O HOH C 758 O HOH C 790 2.06 REMARK 500 OE1 GLU B 448 O HOH B 701 2.09 REMARK 500 O HOH B 828 O HOH C 797 2.10 REMARK 500 O HOH B 736 O HOH B 775 2.14 REMARK 500 O HOH A 796 O HOH A 824 2.16 REMARK 500 OG1 THR C 565 O HOH C 701 2.16 REMARK 500 NH2 ARG A 439 OE1 GLU A 448 2.19 REMARK 500 O HOH B 789 O HOH B 810 2.19 REMARK 500 OD2 ASP C 475 O HOH C 702 2.19 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 A 819 O HOH B 802 3554 2.19 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 HIS A 443 5.02 -63.43 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 B 830 DISTANCE = 6.00 ANGSTROMS 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 602 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 SER A 430 OG REMARK 620 2 GLU A 471 OE2 90.7 REMARK 620 3 GDP A 601 O1B 95.5 94.9 REMARK 620 4 HOH A 740 O 87.1 177.7 86.2 REMARK 620 5 HOH A 744 O 172.3 90.6 91.9 91.4 REMARK 620 6 HOH A 771 O 84.9 91.3 173.8 87.7 87.5 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG B 602 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 SER B 430 OG REMARK 620 2 GLU B 471 OE2 93.2 REMARK 620 3 GDP B 601 O2B 92.5 90.4 REMARK 620 4 HOH B 724 O 88.1 176.0 85.7 REMARK 620 5 HOH B 751 O 177.4 88.2 89.7 90.7 REMARK 620 6 HOH B 784 O 90.2 91.4 176.6 92.4 87.5 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG C 602 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 SER C 430 OG REMARK 620 2 GLU C 471 OE2 94.2 REMARK 620 3 GDP C 601 O2B 95.1 94.4 REMARK 620 4 HOH C 713 O 175.3 86.2 89.6 REMARK 620 5 HOH C 739 O 83.6 173.9 91.5 95.5 REMARK 620 6 HOH C 742 O 83.1 87.1 177.7 92.2 87.0 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 GDP A 601 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue MG A 602 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue GDP B 601 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue MG B 602 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue GDP C 601 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue MG C 602 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 5KSO RELATED DB: PDB REMARK 900 RELATED ID: 5KSP RELATED DB: PDB REMARK 900 RELATED ID: 5KSY RELATED DB: PDB REMARK 900 RELATED ID: 5KSZ RELATED DB: PDB REMARK 900 RELATED ID: 5KTY RELATED DB: PDB REMARK 900 RELATED ID: 5KU1 RELATED DB: PDB DBREF 5KUT A 409 588 UNP Q8IXI1 MIRO2_HUMAN 409 588 DBREF 5KUT B 409 588 UNP Q8IXI1 MIRO2_HUMAN 409 588 DBREF 5KUT C 409 588 UNP Q8IXI1 MIRO2_HUMAN 409 588 SEQADV 5KUT MET A 408 UNP Q8IXI1 INITIATING METHIONINE SEQADV 5KUT CYS A 425 UNP Q8IXI1 ARG 425 VARIANT SEQADV 5KUT LEU A 589 UNP Q8IXI1 EXPRESSION TAG SEQADV 5KUT GLU A 590 UNP Q8IXI1 EXPRESSION TAG SEQADV 5KUT HIS A 591 UNP Q8IXI1 EXPRESSION TAG SEQADV 5KUT HIS A 592 UNP Q8IXI1 EXPRESSION TAG SEQADV 5KUT HIS A 593 UNP Q8IXI1 EXPRESSION TAG SEQADV 5KUT HIS A 594 UNP Q8IXI1 EXPRESSION TAG SEQADV 5KUT HIS A 595 UNP Q8IXI1 EXPRESSION TAG SEQADV 5KUT HIS A 596 UNP Q8IXI1 EXPRESSION TAG SEQADV 5KUT MET B 408 UNP Q8IXI1 INITIATING METHIONINE SEQADV 5KUT CYS B 425 UNP Q8IXI1 ARG 425 VARIANT SEQADV 5KUT LEU B 589 UNP Q8IXI1 EXPRESSION TAG SEQADV 5KUT GLU B 590 UNP Q8IXI1 EXPRESSION TAG SEQADV 5KUT HIS B 591 UNP Q8IXI1 EXPRESSION TAG SEQADV 5KUT HIS B 592 UNP Q8IXI1 EXPRESSION TAG SEQADV 5KUT HIS B 593 UNP Q8IXI1 EXPRESSION TAG SEQADV 5KUT HIS B 594 UNP Q8IXI1 EXPRESSION TAG SEQADV 5KUT HIS B 595 UNP Q8IXI1 EXPRESSION TAG SEQADV 5KUT HIS B 596 UNP Q8IXI1 EXPRESSION TAG SEQADV 5KUT MET C 408 UNP Q8IXI1 INITIATING METHIONINE SEQADV 5KUT CYS C 425 UNP Q8IXI1 ARG 425 VARIANT SEQADV 5KUT LEU C 589 UNP Q8IXI1 EXPRESSION TAG SEQADV 5KUT GLU C 590 UNP Q8IXI1 EXPRESSION TAG SEQADV 5KUT HIS C 591 UNP Q8IXI1 EXPRESSION TAG SEQADV 5KUT HIS C 592 UNP Q8IXI1 EXPRESSION TAG SEQADV 5KUT HIS C 593 UNP Q8IXI1 EXPRESSION TAG SEQADV 5KUT HIS C 594 UNP Q8IXI1 EXPRESSION TAG SEQADV 5KUT HIS C 595 UNP Q8IXI1 EXPRESSION TAG SEQADV 5KUT HIS C 596 UNP Q8IXI1 EXPRESSION TAG SEQRES 1 A 189 MET LYS GLY GLN THR GLN ARG SER VAL LEU LEU CYS LYS SEQRES 2 A 189 VAL VAL GLY ALA CYS GLY VAL GLY LYS SER ALA PHE LEU SEQRES 3 A 189 GLN ALA PHE LEU GLY ARG GLY LEU GLY HIS GLN ASP THR SEQRES 4 A 189 ARG GLU GLN PRO PRO GLY TYR ALA ILE ASP THR VAL GLN SEQRES 5 A 189 VAL ASN GLY GLN GLU LYS TYR LEU ILE LEU CYS GLU VAL SEQRES 6 A 189 GLY THR ASP GLY LEU LEU ALA THR SER LEU ASP ALA THR SEQRES 7 A 189 CYS ASP VAL ALA CYS LEU MET PHE ASP GLY SER ASP PRO SEQRES 8 A 189 LYS SER PHE ALA HIS CYS ALA SER VAL TYR LYS HIS HIS SEQRES 9 A 189 TYR MET ASP GLY GLN THR PRO CYS LEU PHE VAL SER SER SEQRES 10 A 189 LYS ALA ASP LEU PRO GLU GLY VAL ALA VAL SER GLY PRO SEQRES 11 A 189 SER PRO ALA GLU PHE CYS ARG LYS HIS ARG LEU PRO ALA SEQRES 12 A 189 PRO VAL PRO PHE SER CYS ALA GLY PRO ALA GLU PRO SER SEQRES 13 A 189 THR THR ILE PHE THR GLN LEU ALA THR MET ALA ALA PHE SEQRES 14 A 189 PRO HIS LEU VAL HIS ALA GLU LEU HIS PRO SER SER LEU SEQRES 15 A 189 GLU HIS HIS HIS HIS HIS HIS SEQRES 1 B 189 MET LYS GLY GLN THR GLN ARG SER VAL LEU LEU CYS LYS SEQRES 2 B 189 VAL VAL GLY ALA CYS GLY VAL GLY LYS SER ALA PHE LEU SEQRES 3 B 189 GLN ALA PHE LEU GLY ARG GLY LEU GLY HIS GLN ASP THR SEQRES 4 B 189 ARG GLU GLN PRO PRO GLY TYR ALA ILE ASP THR VAL GLN SEQRES 5 B 189 VAL ASN GLY GLN GLU LYS TYR LEU ILE LEU CYS GLU VAL SEQRES 6 B 189 GLY THR ASP GLY LEU LEU ALA THR SER LEU ASP ALA THR SEQRES 7 B 189 CYS ASP VAL ALA CYS LEU MET PHE ASP GLY SER ASP PRO SEQRES 8 B 189 LYS SER PHE ALA HIS CYS ALA SER VAL TYR LYS HIS HIS SEQRES 9 B 189 TYR MET ASP GLY GLN THR PRO CYS LEU PHE VAL SER SER SEQRES 10 B 189 LYS ALA ASP LEU PRO GLU GLY VAL ALA VAL SER GLY PRO SEQRES 11 B 189 SER PRO ALA GLU PHE CYS ARG LYS HIS ARG LEU PRO ALA SEQRES 12 B 189 PRO VAL PRO PHE SER CYS ALA GLY PRO ALA GLU PRO SER SEQRES 13 B 189 THR THR ILE PHE THR GLN LEU ALA THR MET ALA ALA PHE SEQRES 14 B 189 PRO HIS LEU VAL HIS ALA GLU LEU HIS PRO SER SER LEU SEQRES 15 B 189 GLU HIS HIS HIS HIS HIS HIS SEQRES 1 C 189 MET LYS GLY GLN THR GLN ARG SER VAL LEU LEU CYS LYS SEQRES 2 C 189 VAL VAL GLY ALA CYS GLY VAL GLY LYS SER ALA PHE LEU SEQRES 3 C 189 GLN ALA PHE LEU GLY ARG GLY LEU GLY HIS GLN ASP THR SEQRES 4 C 189 ARG GLU GLN PRO PRO GLY TYR ALA ILE ASP THR VAL GLN SEQRES 5 C 189 VAL ASN GLY GLN GLU LYS TYR LEU ILE LEU CYS GLU VAL SEQRES 6 C 189 GLY THR ASP GLY LEU LEU ALA THR SER LEU ASP ALA THR SEQRES 7 C 189 CYS ASP VAL ALA CYS LEU MET PHE ASP GLY SER ASP PRO SEQRES 8 C 189 LYS SER PHE ALA HIS CYS ALA SER VAL TYR LYS HIS HIS SEQRES 9 C 189 TYR MET ASP GLY GLN THR PRO CYS LEU PHE VAL SER SER SEQRES 10 C 189 LYS ALA ASP LEU PRO GLU GLY VAL ALA VAL SER GLY PRO SEQRES 11 C 189 SER PRO ALA GLU PHE CYS ARG LYS HIS ARG LEU PRO ALA SEQRES 12 C 189 PRO VAL PRO PHE SER CYS ALA GLY PRO ALA GLU PRO SER SEQRES 13 C 189 THR THR ILE PHE THR GLN LEU ALA THR MET ALA ALA PHE SEQRES 14 C 189 PRO HIS LEU VAL HIS ALA GLU LEU HIS PRO SER SER LEU SEQRES 15 C 189 GLU HIS HIS HIS HIS HIS HIS HET GDP A 601 28 HET MG A 602 1 HET GDP B 601 28 HET MG B 602 1 HET GDP C 601 28 HET MG C 602 1 HETNAM GDP GUANOSINE-5'-DIPHOSPHATE HETNAM MG MAGNESIUM ION FORMUL 4 GDP 3(C10 H15 N5 O11 P2) FORMUL 5 MG 3(MG 2+) FORMUL 10 HOH *379(H2 O) HELIX 1 AA1 GLY A 428 LEU A 437 1 10 HELIX 2 AA2 ASP A 475 THR A 480 5 6 HELIX 3 AA3 LYS A 499 TYR A 512 1 14 HELIX 4 AA4 SER A 538 HIS A 546 1 9 HELIX 5 AA5 THR A 564 PHE A 576 1 13 HELIX 6 AA6 PRO A 577 VAL A 580 5 4 HELIX 7 AA7 GLY B 428 LEU B 437 1 10 HELIX 8 AA8 ASP B 475 THR B 480 5 6 HELIX 9 AA9 LYS B 499 TYR B 512 1 14 HELIX 10 AB1 SER B 538 HIS B 546 1 9 HELIX 11 AB2 THR B 564 PHE B 576 1 13 HELIX 12 AB3 GLY C 428 LEU C 437 1 10 HELIX 13 AB4 ASP C 475 THR C 480 5 6 HELIX 14 AB5 LYS C 499 TYR C 512 1 14 HELIX 15 AB6 SER C 538 HIS C 546 1 9 HELIX 16 AB7 THR C 564 PHE C 576 1 13 SHEET 1 AA1 6 TYR A 453 VAL A 460 0 SHEET 2 AA1 6 GLN A 463 GLY A 473 -1 O LEU A 469 N ALA A 454 SHEET 3 AA1 6 VAL A 416 GLY A 423 1 N CYS A 419 O ILE A 468 SHEET 4 AA1 6 VAL A 488 ASP A 494 1 O CYS A 490 N LYS A 420 SHEET 5 AA1 6 CYS A 519 SER A 524 1 O VAL A 522 N LEU A 491 SHEET 6 AA1 6 VAL A 552 PRO A 553 1 O VAL A 552 N PHE A 521 SHEET 1 AA2 6 TYR B 453 VAL B 460 0 SHEET 2 AA2 6 GLN B 463 GLY B 473 -1 O LEU B 469 N ALA B 454 SHEET 3 AA2 6 VAL B 416 GLY B 423 1 N CYS B 419 O ILE B 468 SHEET 4 AA2 6 VAL B 488 ASP B 494 1 O CYS B 490 N LYS B 420 SHEET 5 AA2 6 CYS B 519 SER B 524 1 O SER B 524 N PHE B 493 SHEET 6 AA2 6 VAL B 552 PRO B 553 1 O VAL B 552 N PHE B 521 SHEET 1 AA3 6 TYR C 453 VAL C 460 0 SHEET 2 AA3 6 GLN C 463 GLY C 473 -1 O LYS C 465 N VAL C 458 SHEET 3 AA3 6 VAL C 416 GLY C 423 1 N CYS C 419 O ILE C 468 SHEET 4 AA3 6 VAL C 488 ASP C 494 1 O CYS C 490 N LYS C 420 SHEET 5 AA3 6 CYS C 519 SER C 524 1 O VAL C 522 N LEU C 491 SHEET 6 AA3 6 VAL C 552 PRO C 553 1 O VAL C 552 N PHE C 521 SSBOND 1 CYS A 425 CYS B 425 1555 1555 2.05 SSBOND 2 CYS C 425 CYS C 425 1555 3554 2.05 LINK OG SER A 430 MG MG A 602 1555 1555 2.08 LINK OE2 GLU A 471 MG MG A 602 1555 1555 2.00 LINK O1B GDP A 601 MG MG A 602 1555 1555 1.95 LINK MG MG A 602 O HOH A 740 1555 1555 2.12 LINK MG MG A 602 O HOH A 744 1555 1555 2.06 LINK MG MG A 602 O HOH A 771 1555 1555 2.12 LINK OG SER B 430 MG MG B 602 1555 1555 2.18 LINK OE2 GLU B 471 MG MG B 602 1555 1555 2.11 LINK O2B GDP B 601 MG MG B 602 1555 1555 2.11 LINK MG MG B 602 O HOH B 724 1555 1555 2.21 LINK MG MG B 602 O HOH B 751 1555 1555 2.08 LINK MG MG B 602 O HOH B 784 1555 1555 2.02 LINK OG SER C 430 MG MG C 602 1555 1555 2.14 LINK OE2 GLU C 471 MG MG C 602 1555 1555 2.06 LINK O2B GDP C 601 MG MG C 602 1555 1555 2.00 LINK MG MG C 602 O HOH C 713 1555 1555 2.38 LINK MG MG C 602 O HOH C 739 1555 1555 1.98 LINK MG MG C 602 O HOH C 742 1555 1555 2.03 CISPEP 1 GLY A 536 PRO A 537 0 -3.13 CISPEP 2 HIS A 585 PRO A 586 0 -6.29 CISPEP 3 GLY B 536 PRO B 537 0 1.18 CISPEP 4 GLY C 536 PRO C 537 0 -2.53 SITE 1 AC1 26 GLY A 426 VAL A 427 GLY A 428 LYS A 429 SITE 2 AC1 26 SER A 430 ALA A 431 LEU A 441 GLU A 471 SITE 3 AC1 26 LYS A 525 ASP A 527 LEU A 528 SER A 555 SITE 4 AC1 26 CYS A 556 MG A 602 HOH A 708 HOH A 714 SITE 5 AC1 26 HOH A 740 HOH A 744 HOH A 746 HOH A 747 SITE 6 AC1 26 HOH A 753 HOH A 770 HOH A 787 HOH A 792 SITE 7 AC1 26 HOH A 793 CYS B 425 SITE 1 AC2 6 SER A 430 GLU A 471 GDP A 601 HOH A 740 SITE 2 AC2 6 HOH A 744 HOH A 771 SITE 1 AC3 25 CYS A 425 ALA B 424 GLY B 426 VAL B 427 SITE 2 AC3 25 GLY B 428 LYS B 429 SER B 430 ALA B 431 SITE 3 AC3 25 LEU B 441 GLU B 471 LYS B 525 ASP B 527 SITE 4 AC3 25 LEU B 528 SER B 555 CYS B 556 MG B 602 SITE 5 AC3 25 HOH B 724 HOH B 728 HOH B 735 HOH B 738 SITE 6 AC3 25 HOH B 740 HOH B 751 HOH B 753 HOH B 768 SITE 7 AC3 25 HOH B 779 SITE 1 AC4 6 SER B 430 GLU B 471 GDP B 601 HOH B 724 SITE 2 AC4 6 HOH B 751 HOH B 784 SITE 1 AC5 24 ALA C 424 CYS C 425 GLY C 426 VAL C 427 SITE 2 AC5 24 GLY C 428 LYS C 429 SER C 430 ALA C 431 SITE 3 AC5 24 GLU C 471 LYS C 525 ASP C 527 LEU C 528 SITE 4 AC5 24 SER C 555 CYS C 556 MG C 602 HOH C 710 SITE 5 AC5 24 HOH C 713 HOH C 715 HOH C 716 HOH C 722 SITE 6 AC5 24 HOH C 736 HOH C 739 HOH C 752 HOH C 772 SITE 1 AC6 6 SER C 430 GLU C 471 GDP C 601 HOH C 713 SITE 2 AC6 6 HOH C 739 HOH C 742 CRYST1 80.610 122.760 103.890 90.00 90.00 90.00 C 2 2 21 24 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 0.012405 0.000000 0.000000 0.00000 SCALE2 0.000000 0.008146 0.000000 0.00000 SCALE3 0.000000 0.000000 0.009626 0.00000