PDB Short entry for 3W6P HEADER HYDROLASE 17-FEB-13 3W6P TITLE CRYSTAL STRUCTURE OF HUMAN DLP1 IN COMPLEX WITH GDP.ALF4 COMPND MOL_ID: 1; COMPND 2 MOLECULE: DYNAMIN-1-LIKE PROTEIN; COMPND 3 CHAIN: A, B; COMPND 4 SYNONYM: DNM1P/VPS1P-LIKE PROTEIN, DVLP, DYNAMIN FAMILY MEMBER COMPND 5 PROLINE-RICH CARBOXYL-TERMINAL DOMAIN LESS, DYMPLE, DYNAMIN-LIKE COMPND 6 PROTEIN, DYNAMIN-LIKE PROTEIN 4, DYNAMIN-LIKE PROTEIN IV, HDYNIV, COMPND 7 DYNAMIN-RELATED PROTEIN 1; COMPND 8 EC: 3.6.5.5; COMPND 9 ENGINEERED: YES; COMPND 10 OTHER_DETAILS: CHIMERA PROTEIN OF UNP RESIDUES 1-329 AND 709-736 FROM COMPND 11 UNIPROT O00429, LINKED WITH LINKER RESIDUES HGTDS. SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 3 ORGANISM_COMMON: HUMAN; SOURCE 4 ORGANISM_TAXID: 9606; SOURCE 5 GENE: DNM1L, DLP1, DRP1; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: ROSETTA(DE3); SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PET32A KEYWDS HYDROLASE, DNM1L, GTPASE, MEMBRANE FISSION, MITOCHONDRIAL FISSION, KEYWDS 2 MICROTUBULE, NUCLEOTIDE-BINDING, MOTOR PROTEIN EXPDTA X-RAY DIFFRACTION AUTHOR H.KISHIDA,S.SUGIO REVDAT 4 08-NOV-23 3W6P 1 REMARK SEQADV LINK REVDAT 3 16-AUG-17 3W6P 1 SOURCE REMARK REVDAT 2 23-JUL-14 3W6P 1 JRNL REVDAT 1 19-FEB-14 3W6P 0 JRNL AUTH H.KISHIDA,S.SUGIO JRNL TITL CRYSTAL STRUCTURE OF GTPASE DOMAIN FUSED WITH MINIMAL STALKS JRNL TITL 2 FROM HUMAN DYNAMIN-1-LIKE PROTEIN (DLP1) IN COMPLEX WITH JRNL TITL 3 SEVERAL NUCLEOTIDE ANALOGUES JRNL REF CURR TOP PEPT PROTEIN RES. V. 14 67 2013 JRNL REFN ISSN 0972-4524 REMARK 2 REMARK 2 RESOLUTION. 1.70 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.5.0110 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) : 1.70 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 30.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 98.7 REMARK 3 NUMBER OF REFLECTIONS : 75441 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) : 0.184 REMARK 3 R VALUE (WORKING SET) : 0.182 REMARK 3 FREE R VALUE : 0.214 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 4006 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) : 1.70 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.74 REMARK 3 REFLECTION IN BIN (WORKING SET) : 5406 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 97.68 REMARK 3 BIN R VALUE (WORKING SET) : 0.2150 REMARK 3 BIN FREE R VALUE SET COUNT : 312 REMARK 3 BIN FREE R VALUE : 0.2490 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 5289 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 97 REMARK 3 SOLVENT ATOMS : 704 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 18.17 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.14000 REMARK 3 B22 (A**2) : -0.15000 REMARK 3 B33 (A**2) : 0.29000 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): 0.109 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.106 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.063 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 1.852 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.947 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.930 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 5465 ; 0.009 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 7378 ; 1.215 ; 2.004 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 669 ; 4.929 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 230 ;29.827 ;24.435 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 1020 ;13.152 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 45 ;17.358 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 882 ; 0.079 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 3925 ; 0.005 ; 0.021 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): NULL ; NULL ; NULL 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): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): NULL ; NULL ; NULL 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): 3369 ; 0.625 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 5482 ; 1.176 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 2096 ; 1.845 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1896 ; 3.112 ; 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 : 1.40 REMARK 3 ION PROBE RADIUS : 0.80 REMARK 3 SHRINKAGE RADIUS : 0.80 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 3W6P COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 27-FEB-13. REMARK 100 THE DEPOSITION ID IS D_1000095954. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 15-SEP-10 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 6.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SLS REMARK 200 BEAMLINE : X06DA REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.0000 REMARK 200 MONOCHROMATOR : SI 111 REMARK 200 OPTICS : MIRRORS REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MARMOSAIC 225 MM CCD REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : XSCALE REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 79457 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.700 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 98.7 REMARK 200 DATA REDUNDANCY : 4.800 REMARK 200 R MERGE (I) : 0.06100 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 20.1000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.70 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.74 REMARK 200 COMPLETENESS FOR SHELL (%) : 97.7 REMARK 200 DATA REDUNDANCY IN SHELL : 4.60 REMARK 200 R MERGE FOR SHELL (I) : 0.36100 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: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHASER REMARK 200 STARTING MODEL: 3W6N REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 44.76 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.23 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 20% PEG 550 MME, 0.05M CALCIUM REMARK 280 CHLORIDE, 0.1M BIS-TRIS-HCL, PH 6.5, VAPOR DIFFUSION, HANGING REMARK 280 DROP, TEMPERATURE 293K 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 25.70500 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 64.36500 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 54.56500 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 64.36500 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 25.70500 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 54.56500 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 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: 6080 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 31000 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -69.0 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 GLU A 73 REMARK 465 ASP A 74 REMARK 465 LYS A 75 REMARK 465 ARG A 76 REMARK 465 LYS A 77 REMARK 465 THR A 78 REMARK 465 THR A 79 REMARK 465 GLY A 80 REMARK 465 GLU A 81 REMARK 465 GLU A 82 REMARK 465 ASN A 83 REMARK 465 GLY A 84 REMARK 465 VAL A 85 REMARK 465 GLU A 86 REMARK 465 ALA A 87 REMARK 465 GLU A 88 REMARK 465 ASN A 320 REMARK 465 SER A 321 REMARK 465 TYR A 322 REMARK 465 GLY A 323 REMARK 465 GLU A 324 REMARK 465 PRO A 325 REMARK 465 VAL A 326 REMARK 465 ASP A 327 REMARK 465 ASP A 328 REMARK 465 LYS A 329 REMARK 465 HIS A 330 REMARK 465 GLY A 331 REMARK 465 THR A 332 REMARK 465 ASP A 333 REMARK 465 SER A 334 REMARK 465 LYS B 77 REMARK 465 THR B 78 REMARK 465 THR B 79 REMARK 465 GLY B 80 REMARK 465 GLU B 81 REMARK 465 GLU B 82 REMARK 465 ASN B 83 REMARK 465 GLY B 84 REMARK 465 SER B 321 REMARK 465 TYR B 322 REMARK 465 GLY B 323 REMARK 465 GLU B 324 REMARK 465 PRO B 325 REMARK 465 VAL B 326 REMARK 465 ASP B 327 REMARK 465 ASP B 328 REMARK 465 LYS B 329 REMARK 465 HIS B 330 REMARK 465 GLY B 331 REMARK 465 THR B 332 REMARK 465 ASP B 333 REMARK 465 SER B 334 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 AL ALF B 802 O HOH B 1135 2.00 REMARK 500 O3B GDP A 801 AL ALF A 802 2.01 REMARK 500 O3B GDP B 801 AL ALF B 802 2.03 REMARK 500 AL ALF A 802 O HOH A 1103 2.03 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 97 -124.69 43.69 REMARK 500 ASN A 122 54.03 -141.24 REMARK 500 LYS A 152 -35.89 -132.89 REMARK 500 ASN A 178 49.67 -93.44 REMARK 500 ARG A 209 26.93 -147.25 REMARK 500 VAL A 234 -78.17 -101.04 REMARK 500 LEU A 318 91.97 -68.69 REMARK 500 VAL B 58 -59.67 -120.76 REMARK 500 LYS B 97 -122.62 50.04 REMARK 500 LYS B 152 -40.06 -131.60 REMARK 500 ASN B 178 56.50 -91.62 REMARK 500 ARG B 209 26.41 -147.12 REMARK 500 VAL B 234 -71.71 -108.45 REMARK 500 LEU B 319 83.22 -69.84 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 NA A 804 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 SER A 35 OG REMARK 620 2 GLY A 54 O 95.3 REMARK 620 3 GLY A 56 O 82.5 94.2 REMARK 620 4 GDP A 801 O3B 99.3 117.5 147.8 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG A 803 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 SER A 39 OG REMARK 620 2 THR A 59 OG1 87.3 REMARK 620 3 GDP A 801 O2B 94.7 172.7 REMARK 620 4 HOH A1101 O 83.7 86.5 86.8 REMARK 620 5 HOH A1102 O 83.5 92.8 94.3 167.2 REMARK 620 N 1 2 3 4 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 NA B 804 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 SER B 35 OG REMARK 620 2 GLY B 54 O 96.0 REMARK 620 3 GLY B 56 O 84.8 93.2 REMARK 620 4 GDP B 801 O3B 98.9 116.5 149.2 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG B 803 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 SER B 39 OG REMARK 620 2 THR B 59 OG1 86.4 REMARK 620 3 GDP B 801 O2B 95.0 172.9 REMARK 620 4 HOH B1134 O 82.7 85.7 87.6 REMARK 620 5 HOH B1136 O 83.2 95.4 91.7 165.8 REMARK 620 N 1 2 3 4 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CA B 805 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HOH B1015 O REMARK 620 2 HOH B1051 O 61.3 REMARK 620 3 HOH B1126 O 82.0 76.8 REMARK 620 4 HOH B1127 O 74.0 55.2 132.0 REMARK 620 5 HOH B1131 O 142.3 141.3 78.4 141.2 REMARK 620 6 HOH B1167 O 69.3 130.4 102.3 106.9 83.8 REMARK 620 7 HOH B1223 O 124.3 124.3 151.0 72.6 73.0 79.5 REMARK 620 8 HOH B1224 O 127.4 66.2 84.0 78.9 82.1 163.1 87.4 REMARK 620 N 1 2 3 4 5 6 7 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 801 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ALF A 802 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG A 803 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NA A 804 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GDP B 801 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ALF B 802 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG B 803 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NA B 804 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CA B 805 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PG4 B 806 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PG4 B 807 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 3W6N RELATED DB: PDB REMARK 900 RELATED ID: 3W6O RELATED DB: PDB DBREF 3W6P A 1 329 UNP O00429 DNM1L_HUMAN 1 329 DBREF 3W6P A 709 736 UNP O00429 DNM1L_HUMAN 709 736 DBREF 3W6P B 1 329 UNP O00429 DNM1L_HUMAN 1 329 DBREF 3W6P B 709 736 UNP O00429 DNM1L_HUMAN 709 736 SEQADV 3W6P GLY A -1 UNP O00429 EXPRESSION TAG SEQADV 3W6P PRO A 0 UNP O00429 EXPRESSION TAG SEQADV 3W6P HIS A 330 UNP O00429 LINKER SEQADV 3W6P GLY A 331 UNP O00429 LINKER SEQADV 3W6P THR A 332 UNP O00429 LINKER SEQADV 3W6P ASP A 333 UNP O00429 LINKER SEQADV 3W6P SER A 334 UNP O00429 LINKER SEQADV 3W6P GLY B -1 UNP O00429 EXPRESSION TAG SEQADV 3W6P PRO B 0 UNP O00429 EXPRESSION TAG SEQADV 3W6P HIS B 330 UNP O00429 LINKER SEQADV 3W6P GLY B 331 UNP O00429 LINKER SEQADV 3W6P THR B 332 UNP O00429 LINKER SEQADV 3W6P ASP B 333 UNP O00429 LINKER SEQADV 3W6P SER B 334 UNP O00429 LINKER SEQRES 1 A 364 GLY PRO MET GLU ALA LEU ILE PRO VAL ILE ASN LYS LEU SEQRES 2 A 364 GLN ASP VAL PHE ASN THR VAL GLY ALA ASP ILE ILE GLN SEQRES 3 A 364 LEU PRO GLN ILE VAL VAL VAL GLY THR GLN SER SER GLY SEQRES 4 A 364 LYS SER SER VAL LEU GLU SER LEU VAL GLY ARG ASP LEU SEQRES 5 A 364 LEU PRO ARG GLY THR GLY ILE VAL THR ARG ARG PRO LEU SEQRES 6 A 364 ILE LEU GLN LEU VAL HIS VAL SER GLN GLU ASP LYS ARG SEQRES 7 A 364 LYS THR THR GLY GLU GLU ASN GLY VAL GLU ALA GLU GLU SEQRES 8 A 364 TRP GLY LYS PHE LEU HIS THR LYS ASN LYS LEU TYR THR SEQRES 9 A 364 ASP PHE ASP GLU ILE ARG GLN GLU ILE GLU ASN GLU THR SEQRES 10 A 364 GLU ARG ILE SER GLY ASN ASN LYS GLY VAL SER PRO GLU SEQRES 11 A 364 PRO ILE HIS LEU LYS ILE PHE SER PRO ASN VAL VAL ASN SEQRES 12 A 364 LEU THR LEU VAL ASP LEU PRO GLY MET THR LYS VAL PRO SEQRES 13 A 364 VAL GLY ASP GLN PRO LYS ASP ILE GLU LEU GLN ILE ARG SEQRES 14 A 364 GLU LEU ILE LEU ARG PHE ILE SER ASN PRO ASN SER ILE SEQRES 15 A 364 ILE LEU ALA VAL THR ALA ALA ASN THR ASP MET ALA THR SEQRES 16 A 364 SER GLU ALA LEU LYS ILE SER ARG GLU VAL ASP PRO ASP SEQRES 17 A 364 GLY ARG ARG THR LEU ALA VAL ILE THR LYS LEU ASP LEU SEQRES 18 A 364 MET ASP ALA GLY THR ASP ALA MET ASP VAL LEU MET GLY SEQRES 19 A 364 ARG VAL ILE PRO VAL LYS LEU GLY ILE ILE GLY VAL VAL SEQRES 20 A 364 ASN ARG SER GLN LEU ASP ILE ASN ASN LYS LYS SER VAL SEQRES 21 A 364 THR ASP SER ILE ARG ASP GLU TYR ALA PHE LEU GLN LYS SEQRES 22 A 364 LYS TYR PRO SER LEU ALA ASN ARG ASN GLY THR LYS TYR SEQRES 23 A 364 LEU ALA ARG THR LEU ASN ARG LEU LEU MET HIS HIS ILE SEQRES 24 A 364 ARG ASP CYS LEU PRO GLU LEU LYS THR ARG ILE ASN VAL SEQRES 25 A 364 LEU ALA ALA GLN TYR GLN SER LEU LEU ASN SER TYR GLY SEQRES 26 A 364 GLU PRO VAL ASP ASP LYS HIS GLY THR ASP SER ARG ARG SEQRES 27 A 364 LYS GLU ALA ALA ASP MET LEU LYS ALA LEU GLN GLY ALA SEQRES 28 A 364 SER GLN ILE ILE ALA GLU ILE ARG GLU THR HIS LEU TRP SEQRES 1 B 364 GLY PRO MET GLU ALA LEU ILE PRO VAL ILE ASN LYS LEU SEQRES 2 B 364 GLN ASP VAL PHE ASN THR VAL GLY ALA ASP ILE ILE GLN SEQRES 3 B 364 LEU PRO GLN ILE VAL VAL VAL GLY THR GLN SER SER GLY SEQRES 4 B 364 LYS SER SER VAL LEU GLU SER LEU VAL GLY ARG ASP LEU SEQRES 5 B 364 LEU PRO ARG GLY THR GLY ILE VAL THR ARG ARG PRO LEU SEQRES 6 B 364 ILE LEU GLN LEU VAL HIS VAL SER GLN GLU ASP LYS ARG SEQRES 7 B 364 LYS THR THR GLY GLU GLU ASN GLY VAL GLU ALA GLU GLU SEQRES 8 B 364 TRP GLY LYS PHE LEU HIS THR LYS ASN LYS LEU TYR THR SEQRES 9 B 364 ASP PHE ASP GLU ILE ARG GLN GLU ILE GLU ASN GLU THR SEQRES 10 B 364 GLU ARG ILE SER GLY ASN ASN LYS GLY VAL SER PRO GLU SEQRES 11 B 364 PRO ILE HIS LEU LYS ILE PHE SER PRO ASN VAL VAL ASN SEQRES 12 B 364 LEU THR LEU VAL ASP LEU PRO GLY MET THR LYS VAL PRO SEQRES 13 B 364 VAL GLY ASP GLN PRO LYS ASP ILE GLU LEU GLN ILE ARG SEQRES 14 B 364 GLU LEU ILE LEU ARG PHE ILE SER ASN PRO ASN SER ILE SEQRES 15 B 364 ILE LEU ALA VAL THR ALA ALA ASN THR ASP MET ALA THR SEQRES 16 B 364 SER GLU ALA LEU LYS ILE SER ARG GLU VAL ASP PRO ASP SEQRES 17 B 364 GLY ARG ARG THR LEU ALA VAL ILE THR LYS LEU ASP LEU SEQRES 18 B 364 MET ASP ALA GLY THR ASP ALA MET ASP VAL LEU MET GLY SEQRES 19 B 364 ARG VAL ILE PRO VAL LYS LEU GLY ILE ILE GLY VAL VAL SEQRES 20 B 364 ASN ARG SER GLN LEU ASP ILE ASN ASN LYS LYS SER VAL SEQRES 21 B 364 THR ASP SER ILE ARG ASP GLU TYR ALA PHE LEU GLN LYS SEQRES 22 B 364 LYS TYR PRO SER LEU ALA ASN ARG ASN GLY THR LYS TYR SEQRES 23 B 364 LEU ALA ARG THR LEU ASN ARG LEU LEU MET HIS HIS ILE SEQRES 24 B 364 ARG ASP CYS LEU PRO GLU LEU LYS THR ARG ILE ASN VAL SEQRES 25 B 364 LEU ALA ALA GLN TYR GLN SER LEU LEU ASN SER TYR GLY SEQRES 26 B 364 GLU PRO VAL ASP ASP LYS HIS GLY THR ASP SER ARG ARG SEQRES 27 B 364 LYS GLU ALA ALA ASP MET LEU LYS ALA LEU GLN GLY ALA SEQRES 28 B 364 SER GLN ILE ILE ALA GLU ILE ARG GLU THR HIS LEU TRP HET GDP A 801 28 HET ALF A 802 5 HET MG A 803 1 HET NA A 804 1 HET GDP B 801 28 HET ALF B 802 5 HET MG B 803 1 HET NA B 804 1 HET CA B 805 1 HET PG4 B 806 13 HET PG4 B 807 13 HETNAM GDP GUANOSINE-5'-DIPHOSPHATE HETNAM ALF TETRAFLUOROALUMINATE ION HETNAM MG MAGNESIUM ION HETNAM NA SODIUM ION HETNAM CA CALCIUM ION HETNAM PG4 TETRAETHYLENE GLYCOL FORMUL 3 GDP 2(C10 H15 N5 O11 P2) FORMUL 4 ALF 2(AL F4 1-) FORMUL 5 MG 2(MG 2+) FORMUL 6 NA 2(NA 1+) FORMUL 11 CA CA 2+ FORMUL 12 PG4 2(C8 H18 O5) FORMUL 14 HOH *704(H2 O) HELIX 1 1 LEU A 4 GLY A 19 1 16 HELIX 2 2 GLY A 37 LEU A 45 1 9 HELIX 3 3 HIS A 95 LYS A 97 5 3 HELIX 4 4 ASP A 103 GLY A 120 1 18 HELIX 5 5 ASP A 161 SER A 175 1 15 HELIX 6 6 ASP A 190 THR A 193 5 4 HELIX 7 7 SER A 194 ASP A 204 1 11 HELIX 8 8 LYS A 216 MET A 220 5 5 HELIX 9 9 ALA A 226 MET A 231 1 6 HELIX 10 10 SER A 248 ASN A 254 1 7 HELIX 11 11 SER A 257 TYR A 273 1 17 HELIX 12 12 LEU A 276 ASN A 280 5 5 HELIX 13 13 GLY A 281 LEU A 318 1 38 HELIX 14 14 ARG A 710 GLU A 732 1 23 HELIX 15 15 LEU B 4 GLY B 19 1 16 HELIX 16 16 GLY B 37 LEU B 45 1 9 HELIX 17 17 HIS B 95 LYS B 97 5 3 HELIX 18 18 ASP B 103 GLY B 120 1 18 HELIX 19 19 ASP B 161 SER B 175 1 15 HELIX 20 20 ASP B 190 THR B 193 5 4 HELIX 21 21 SER B 194 ASP B 204 1 11 HELIX 22 22 LYS B 216 MET B 220 5 5 HELIX 23 23 ALA B 226 MET B 231 1 6 HELIX 24 24 SER B 248 ASN B 254 1 7 HELIX 25 25 SER B 257 TYR B 273 1 17 HELIX 26 26 LEU B 276 ASN B 280 5 5 HELIX 27 27 GLY B 281 LEU B 319 1 39 HELIX 28 28 ARG B 710 GLU B 732 1 23 SHEET 1 A 8 TRP A 90 PHE A 93 0 SHEET 2 A 8 ILE A 130 SER A 136 -1 O PHE A 135 N TRP A 90 SHEET 3 A 8 LEU A 63 HIS A 69 1 N VAL A 68 O ILE A 134 SHEET 4 A 8 LEU A 142 ASP A 146 -1 O LEU A 142 N LEU A 67 SHEET 5 A 8 GLN A 27 VAL A 31 1 N ILE A 28 O VAL A 145 SHEET 6 A 8 SER A 179 ALA A 186 1 O ILE A 180 N GLN A 27 SHEET 7 A 8 THR A 210 THR A 215 1 O LEU A 211 N ILE A 181 SHEET 8 A 8 ILE A 241 GLY A 243 1 O ILE A 242 N ALA A 212 SHEET 1 B 8 TRP B 90 PHE B 93 0 SHEET 2 B 8 ILE B 130 SER B 136 -1 O PHE B 135 N TRP B 90 SHEET 3 B 8 LEU B 63 HIS B 69 1 N VAL B 68 O ILE B 134 SHEET 4 B 8 LEU B 142 ASP B 146 -1 O LEU B 142 N LEU B 67 SHEET 5 B 8 GLN B 27 VAL B 31 1 N ILE B 28 O VAL B 145 SHEET 6 B 8 SER B 179 ALA B 186 1 O LEU B 182 N VAL B 29 SHEET 7 B 8 THR B 210 THR B 215 1 O LEU B 211 N ILE B 181 SHEET 8 B 8 ILE B 241 GLY B 243 1 O ILE B 242 N ALA B 212 LINK OG SER A 35 NA NA A 804 1555 1555 2.42 LINK OG SER A 39 MG MG A 803 1555 1555 2.09 LINK O GLY A 54 NA NA A 804 1555 1555 2.26 LINK O GLY A 56 NA NA A 804 1555 1555 2.26 LINK OG1 THR A 59 MG MG A 803 1555 1555 2.11 LINK O2B GDP A 801 MG MG A 803 1555 1555 1.98 LINK O3B GDP A 801 NA NA A 804 1555 1555 2.84 LINK MG MG A 803 O HOH A1101 1555 1555 2.26 LINK MG MG A 803 O HOH A1102 1555 1555 2.21 LINK OG SER B 35 NA NA B 804 1555 1555 2.42 LINK OG SER B 39 MG MG B 803 1555 1555 2.10 LINK O GLY B 54 NA NA B 804 1555 1555 2.27 LINK O GLY B 56 NA NA B 804 1555 1555 2.26 LINK OG1 THR B 59 MG MG B 803 1555 1555 2.10 LINK O2B GDP B 801 MG MG B 803 1555 1555 1.97 LINK O3B GDP B 801 NA NA B 804 1555 1555 2.87 LINK MG MG B 803 O HOH B1134 1555 1555 2.35 LINK MG MG B 803 O HOH B1136 1555 1555 2.20 LINK CA CA B 805 O HOH B1015 1555 1555 2.37 LINK CA CA B 805 O HOH B1051 1555 1555 2.90 LINK CA CA B 805 O HOH B1126 1555 1555 2.41 LINK CA CA B 805 O HOH B1127 1555 1555 2.52 LINK CA CA B 805 O HOH B1131 1555 1555 2.46 LINK CA CA B 805 O HOH B1167 1555 1555 2.34 LINK CA CA B 805 O HOH B1223 1555 1555 2.45 LINK CA CA B 805 O HOH B1224 1555 1555 2.55 SITE 1 AC1 26 SER A 35 SER A 36 GLY A 37 LYS A 38 SITE 2 AC1 26 SER A 39 SER A 40 ARG A 53 GLY A 54 SITE 3 AC1 26 THR A 55 LYS A 216 ASP A 218 LEU A 219 SITE 4 AC1 26 VAL A 245 ASN A 246 ARG A 247 SER A 248 SITE 5 AC1 26 GLN A 249 ILE A 252 ALF A 802 MG A 803 SITE 6 AC1 26 NA A 804 HOH A 901 HOH A1101 HOH A1102 SITE 7 AC1 26 ASP B 221 HOH B 909 SITE 1 AC2 12 GLN A 34 SER A 35 LYS A 38 GLY A 56 SITE 2 AC2 12 VAL A 58 THR A 59 GLY A 149 GDP A 801 SITE 3 AC2 12 MG A 803 NA A 804 HOH A1102 HOH A1103 SITE 1 AC3 6 SER A 39 THR A 59 GDP A 801 ALF A 802 SITE 2 AC3 6 HOH A1101 HOH A1102 SITE 1 AC4 5 SER A 35 GLY A 54 GLY A 56 GDP A 801 SITE 2 AC4 5 ALF A 802 SITE 1 AC5 26 ASP A 221 HOH A1193 SER B 35 SER B 36 SITE 2 AC5 26 GLY B 37 LYS B 38 SER B 39 SER B 40 SITE 3 AC5 26 ARG B 53 GLY B 54 THR B 55 LYS B 216 SITE 4 AC5 26 ASP B 218 LEU B 219 VAL B 245 ASN B 246 SITE 5 AC5 26 ARG B 247 SER B 248 GLN B 249 ILE B 252 SITE 6 AC5 26 ALF B 802 MG B 803 NA B 804 HOH B 946 SITE 7 AC5 26 HOH B1134 HOH B1136 SITE 1 AC6 12 GLN B 34 SER B 35 LYS B 38 GLY B 56 SITE 2 AC6 12 VAL B 58 THR B 59 GLY B 149 GDP B 801 SITE 3 AC6 12 MG B 803 NA B 804 HOH B1135 HOH B1136 SITE 1 AC7 6 SER B 39 THR B 59 GDP B 801 ALF B 802 SITE 2 AC7 6 HOH B1134 HOH B1136 SITE 1 AC8 5 SER B 35 GLY B 54 GLY B 56 GDP B 801 SITE 2 AC8 5 ALF B 802 SITE 1 AC9 8 HOH B1015 HOH B1051 HOH B1126 HOH B1127 SITE 2 AC9 8 HOH B1131 HOH B1167 HOH B1223 HOH B1224 SITE 1 BC1 3 MET A 220 MET B 220 HOH B 916 SITE 1 BC2 5 PRO A 205 ASP A 206 ARG B 172 ASN B 176 SITE 2 BC2 5 HOH B 937 CRYST1 51.410 109.130 128.730 90.00 90.00 90.00 P 21 21 21 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 0.019451 0.000000 0.000000 0.00000 SCALE2 0.000000 0.009163 0.000000 0.00000 SCALE3 0.000000 0.000000 0.007768 0.00000