HEADER EXOCYTOSIS 14-JUN-17 5W5D TITLE CRYSTAL STRUCTURE OF THE PRIMED SNARE-COMPLEXIN-SYNAPTOTAGMIN-1 C2B TITLE 2 COMPLEX COMPND MOL_ID: 1; COMPND 2 MOLECULE: VESICLE-ASSOCIATED MEMBRANE PROTEIN 2; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: UNP RESIDUES 29-66; COMPND 5 SYNONYM: VAMP-2,SYNAPTOBREVIN-2; COMPND 6 ENGINEERED: YES; COMPND 7 MOL_ID: 2; COMPND 8 MOLECULE: SYNTAXIN-1A; COMPND 9 CHAIN: B; COMPND 10 FRAGMENT: UNP RESIDUES 191-256; COMPND 11 SYNONYM: NEURON-SPECIFIC ANTIGEN HPC-1,SYNAPTOTAGMIN-ASSOCIATED 35 COMPND 12 KDA PROTEIN,P35A; COMPND 13 ENGINEERED: YES; COMPND 14 MOL_ID: 3; COMPND 15 MOLECULE: SYNAPTOSOMAL-ASSOCIATED PROTEIN 25; COMPND 16 CHAIN: C; COMPND 17 FRAGMENT: UNP RESIDUES 7-83; COMPND 18 SYNONYM: SNAP-25,SUPER PROTEIN,SUP,SYNAPTOSOMAL-ASSOCIATED 25 KDA COMPND 19 PROTEIN; COMPND 20 ENGINEERED: YES; COMPND 21 MOL_ID: 4; COMPND 22 MOLECULE: SYNAPTOSOMAL-ASSOCIATED PROTEIN 25; COMPND 23 CHAIN: D; COMPND 24 FRAGMENT: UNP RESIDUES 141-204; COMPND 25 SYNONYM: SNAP-25,SUPER PROTEIN,SUP,SYNAPTOSOMAL-ASSOCIATED 25 KDA COMPND 26 PROTEIN; COMPND 27 ENGINEERED: YES; COMPND 28 MOL_ID: 5; COMPND 29 MOLECULE: COMPLEXIN-1; COMPND 30 CHAIN: E; COMPND 31 FRAGMENT: UNP RESIDUES 1-83; COMPND 32 SYNONYM: COMPLEXIN I,CPX I,SYNAPHIN-2; COMPND 33 ENGINEERED: YES; COMPND 34 MOL_ID: 6; COMPND 35 MOLECULE: SYNAPTOTAGMIN-1; COMPND 36 CHAIN: F; COMPND 37 FRAGMENT: UNP RESIDUES 270-421; COMPND 38 SYNONYM: SYNAPTOTAGMIN I,SYTI,P65; COMPND 39 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: RATTUS NORVEGICUS; SOURCE 3 ORGANISM_COMMON: RAT; SOURCE 4 ORGANISM_TAXID: 10116; SOURCE 5 GENE: VAMP2, SYB2; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 MOL_ID: 2; SOURCE 9 ORGANISM_SCIENTIFIC: RATTUS NORVEGICUS; SOURCE 10 ORGANISM_COMMON: RAT; SOURCE 11 ORGANISM_TAXID: 10116; SOURCE 12 GENE: STX1A, SAP; SOURCE 13 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 14 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 15 MOL_ID: 3; SOURCE 16 ORGANISM_SCIENTIFIC: RATTUS NORVEGICUS; SOURCE 17 ORGANISM_COMMON: RAT; SOURCE 18 ORGANISM_TAXID: 10116; SOURCE 19 GENE: SNAP25, SNAP; SOURCE 20 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 21 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 22 MOL_ID: 4; SOURCE 23 ORGANISM_SCIENTIFIC: RATTUS NORVEGICUS; SOURCE 24 ORGANISM_COMMON: RAT; SOURCE 25 ORGANISM_TAXID: 10116; SOURCE 26 GENE: SNAP25, SNAP; SOURCE 27 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 28 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 29 MOL_ID: 5; SOURCE 30 ORGANISM_SCIENTIFIC: RATTUS NORVEGICUS; SOURCE 31 ORGANISM_COMMON: RAT; SOURCE 32 ORGANISM_TAXID: 10116; SOURCE 33 GENE: CPLX1; SOURCE 34 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 35 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 36 MOL_ID: 6; SOURCE 37 ORGANISM_SCIENTIFIC: RATTUS NORVEGICUS; SOURCE 38 ORGANISM_COMMON: RAT; SOURCE 39 ORGANISM_TAXID: 10116; SOURCE 40 GENE: SYT1; SOURCE 41 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 42 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS PREFUSION PRIMED COMPLEX, NEURONAL EXOCYTOSIS, SYNAPTOTAGMIN, SNARE KEYWDS 2 COMPLEX, COMPLEXIN, SYNCHRONOUS NEUROTRANSMITTER RELEASE, EXOCYTOSIS EXPDTA X-RAY DIFFRACTION AUTHOR Q.ZHOU,A.T.BRUNGER REVDAT 4 04-OCT-23 5W5D 1 LINK REVDAT 3 06-SEP-17 5W5D 1 JRNL REVDAT 2 30-AUG-17 5W5D 1 JRNL REVDAT 1 23-AUG-17 5W5D 0 JRNL AUTH Q.ZHOU,P.ZHOU,A.L.WANG,D.WU,M.ZHAO,T.C.SUDHOF,A.T.BRUNGER JRNL TITL THE PRIMED SNARE-COMPLEXIN-SYNAPTOTAGMIN COMPLEX FOR JRNL TITL 2 NEURONAL EXOCYTOSIS. JRNL REF NATURE V. 548 420 2017 JRNL REFN ESSN 1476-4687 JRNL PMID 28813412 JRNL DOI 10.1038/NATURE23484 REMARK 2 REMARK 2 RESOLUTION. 2.50 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 1.11.1_2575 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) : 2.50 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 44.60 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.390 REMARK 3 COMPLETENESS FOR RANGE (%) : 93.2 REMARK 3 NUMBER OF REFLECTIONS : 22138 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.200 REMARK 3 R VALUE (WORKING SET) : 0.198 REMARK 3 FREE R VALUE : 0.231 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.970 REMARK 3 FREE R VALUE TEST SET COUNT : 1099 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 2.9430 - 2.4960 0.82 0 387 0.2545 0.2937 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) : 0.270 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 28.480 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 69.46 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 : NULL NULL REMARK 3 ANGLE : NULL NULL REMARK 3 CHIRALITY : NULL NULL REMARK 3 PLANARITY : NULL NULL REMARK 3 DIHEDRAL : NULL NULL 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 5W5D COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 19-JUN-17. REMARK 100 THE DEPOSITION ID IS D_1000228455. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 30-NOV-15 REMARK 200 TEMPERATURE (KELVIN) : 80 REMARK 200 PH : 6.5-7.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : APS REMARK 200 BEAMLINE : 24-ID-C REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9791 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS 6M-F REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : SCALA REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 22138 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.496 REMARK 200 RESOLUTION RANGE LOW (A) : 44.599 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 93.2 REMARK 200 DATA REDUNDANCY : 13.00 REMARK 200 R MERGE (I) : 0.11500 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 17.4000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.50 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.54 REMARK 200 COMPLETENESS FOR SHELL (%) : 66.1 REMARK 200 DATA REDUNDANCY IN SHELL : 7.30 REMARK 200 R MERGE FOR SHELL (I) : 0.40800 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 2.700 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHASER 2.7.16 REMARK 200 STARTING MODEL: 1KIL, 3F04, 1UOW REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 58.53 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.97 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 100 MM HEPES, PH7.0, 15-17% PEG3350, REMARK 280 240 MM SODIUM MALONATE, VAPOR DIFFUSION, HANGING DROP, REMARK 280 TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 21 21 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,-Y,Z REMARK 290 3555 -X+1/2,Y+1/2,-Z REMARK 290 4555 X+1/2,-Y+1/2,-Z REMARK 290 REMARK 290 WHERE NNN -> OPERATOR NUMBER REMARK 290 MMM -> TRANSLATION VECTOR REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY TRANSFORMATIONS REMARK 290 THE FOLLOWING TRANSFORMATIONS OPERATE ON THE ATOM/HETATM REMARK 290 RECORDS IN THIS ENTRY TO PRODUCE CRYSTALLOGRAPHICALLY REMARK 290 RELATED MOLECULES. REMARK 290 SMTRY1 1 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 1 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 1 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 2 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 42.60100 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 44.59950 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 42.60100 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 44.59950 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: DODECAMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B, C, D, E, 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 BIOMT1 2 1.000000 0.000000 0.000000 42.60100 REMARK 350 BIOMT2 2 0.000000 -1.000000 0.000000 44.59950 REMARK 350 BIOMT3 2 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 F 551 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 GLY A 27 REMARK 465 SER A 28 REMARK 465 MET B 190 REMARK 465 ALA B 191 REMARK 465 ARG B 246 REMARK 465 ALA B 247 REMARK 465 VAL B 248 REMARK 465 SER B 249 REMARK 465 ASP B 250 REMARK 465 THR B 251 REMARK 465 LYS B 252 REMARK 465 LYS B 253 REMARK 465 ALA B 254 REMARK 465 VAL B 255 REMARK 465 LYS B 256 REMARK 465 MET C 7 REMARK 465 ARG C 8 REMARK 465 ASN C 9 REMARK 465 GLU C 10 REMARK 465 LYS C 72 REMARK 465 GLU C 73 REMARK 465 ALA C 74 REMARK 465 GLU C 75 REMARK 465 LYS C 76 REMARK 465 ASN C 77 REMARK 465 LEU C 78 REMARK 465 LYS C 79 REMARK 465 ASP C 80 REMARK 465 LEU C 81 REMARK 465 GLY C 82 REMARK 465 LYS C 83 REMARK 465 MET D 140 REMARK 465 ALA D 141 REMARK 465 ASN D 196 REMARK 465 GLN D 197 REMARK 465 ARG D 198 REMARK 465 ALA D 199 REMARK 465 THR D 200 REMARK 465 LYS D 201 REMARK 465 MET D 202 REMARK 465 LEU D 203 REMARK 465 GLY D 204 REMARK 465 MET E 1 REMARK 465 GLU E 2 REMARK 465 PHE E 3 REMARK 465 VAL E 4 REMARK 465 MET E 5 REMARK 465 LYS E 6 REMARK 465 GLN E 7 REMARK 465 ALA E 8 REMARK 465 LEU E 9 REMARK 465 GLY E 10 REMARK 465 GLY E 11 REMARK 465 ALA E 12 REMARK 465 THR E 13 REMARK 465 LYS E 14 REMARK 465 ASP E 15 REMARK 465 MET E 16 REMARK 465 GLY E 17 REMARK 465 LYS E 18 REMARK 465 MET E 19 REMARK 465 LEU E 20 REMARK 465 GLY E 21 REMARK 465 GLY E 22 REMARK 465 ASP E 23 REMARK 465 GLU E 24 REMARK 465 GLU E 25 REMARK 465 LYS E 26 REMARK 465 ASP E 27 REMARK 465 PRO E 28 REMARK 465 ASP E 29 REMARK 465 ALA E 30 REMARK 465 ALA E 31 REMARK 465 GLU E 79 REMARK 465 ALA E 80 REMARK 465 GLU E 81 REMARK 465 ALA E 82 REMARK 465 GLN E 83 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 66 CG CD NE CZ NH1 NH2 REMARK 470 LEU B 192 CG CD1 CD2 REMARK 470 HIS B 239 CG ND1 CD2 CE1 NE2 REMARK 470 ASP B 242 CG OD1 OD2 REMARK 470 GLU B 245 CG CD OE1 OE2 REMARK 470 LEU C 11 CG CD1 CD2 REMARK 470 GLU C 12 CB CG CD OE1 OE2 REMARK 470 GLU C 13 CB CG CD OE1 OE2 REMARK 470 MET C 14 CG SD CE REMARK 470 GLN C 15 CG CD OE1 NE2 REMARK 470 ARG C 16 CG CD NE CZ NH1 NH2 REMARK 470 GLU C 62 CG CD OE1 OE2 REMARK 470 GLN C 69 CG CD OE1 NE2 REMARK 470 ASP C 70 CG OD1 OD2 REMARK 470 ARG D 142 CG CD NE CZ NH1 NH2 REMARK 470 GLU D 143 CG CD OE1 OE2 REMARK 470 ASN D 144 CG OD1 ND2 REMARK 470 GLU D 183 CG CD OE1 OE2 REMARK 470 LYS D 184 CG CD CE NZ REMARK 470 ASP D 186 CG OD1 OD2 REMARK 470 ASN D 188 CG OD1 ND2 REMARK 470 LYS D 189 CG CD CE NZ REMARK 470 ASP D 193 CG OD1 OD2 REMARK 470 LYS E 32 CG CD CE NZ REMARK 470 LYS E 33 CG CD CE NZ REMARK 470 GLU E 34 CG CD OE1 OE2 REMARK 470 GLU E 35 CG CD OE1 OE2 REMARK 470 GLU E 36 CG CD OE1 OE2 REMARK 470 ARG E 37 CG CD NE CZ NH1 NH2 REMARK 470 GLN E 38 CG CD OE1 NE2 REMARK 470 GLU E 39 CG CD OE1 OE2 REMARK 470 LEU E 41 CG CD1 CD2 REMARK 470 ARG E 42 CG CD NE CZ NH1 NH2 REMARK 470 GLU E 45 CG CD OE1 OE2 REMARK 470 GLU E 46 CG CD OE1 OE2 REMARK 470 GLU E 47 CG CD OE1 OE2 REMARK 470 ARG E 48 CG CD NE CZ NH1 NH2 REMARK 470 LYS E 49 CG CD CE NZ REMARK 470 LYS E 51 CG CD CE NZ REMARK 470 TYR E 52 CG CD1 CD2 CE1 CE2 CZ OH REMARK 470 LYS E 54 CG CD CE NZ REMARK 470 LYS E 73 CG CD CE NZ REMARK 470 LYS E 74 CG CD CE NZ REMARK 470 LYS E 75 CG CD CE NZ REMARK 470 GLU E 76 CG CD OE1 OE2 REMARK 470 GLU E 77 CG CD OE1 OE2 REMARK 470 ARG E 78 CG CD NE CZ NH1 NH2 REMARK 470 GLN F 270 CG CD OE1 NE2 REMARK 470 GLU F 271 CG CD OE1 OE2 REMARK 470 VAL F 419 CG1 CG2 REMARK 470 LYS F 420 CG CD CE NZ REMARK 470 LYS F 421 CG CD CE NZ 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 MET F 416 O HOH F 501 2.11 REMARK 500 OE1 GLU B 234 O HOH B 301 2.16 REMARK 500 OG SER F 308 O HOH F 502 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 GLN E 38 97.44 -69.73 REMARK 500 GLU E 39 96.15 -67.11 REMARK 500 GLU F 271 -1.02 66.79 REMARK 500 LEU F 294 -66.62 -92.88 REMARK 500 ASP F 309 72.20 -118.24 REMARK 500 LEU F 323 -73.77 -83.40 REMARK 500 LYS F 369 -146.58 -130.25 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 C 101 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HOH C 204 O REMARK 620 2 HOH C 207 O 108.1 REMARK 620 3 HOH C 208 O 68.2 71.3 REMARK 620 4 HOH D 306 O 127.1 72.5 62.1 REMARK 620 5 HOH D 311 O 78.9 140.4 76.0 72.8 REMARK 620 6 HOH D 312 O 135.9 113.7 138.9 80.1 78.1 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 C 101 DBREF 5W5D A 28 66 UNP P63045 VAMP2_RAT 28 66 DBREF 5W5D B 191 256 UNP P32851 STX1A_RAT 191 256 DBREF 5W5D C 7 83 UNP P60881 SNP25_RAT 7 83 DBREF 5W5D D 141 204 UNP P60881 SNP25_RAT 141 204 DBREF 5W5D E 1 83 UNP P63041 CPLX1_RAT 1 83 DBREF 5W5D F 270 421 UNP P21707 SYT1_RAT 270 421 SEQADV 5W5D GLY A 27 UNP P63045 EXPRESSION TAG SEQADV 5W5D MET B 190 UNP P32851 INITIATING METHIONINE SEQADV 5W5D MET D 140 UNP P60881 INITIATING METHIONINE SEQRES 1 A 40 GLY SER ASN ARG ARG LEU GLN GLN THR GLN ALA GLN VAL SEQRES 2 A 40 ASP GLU VAL VAL ASP ILE MET ARG VAL ASN VAL ASP LYS SEQRES 3 A 40 VAL LEU GLU ARG ASP GLN LYS LEU SER GLU LEU ASP ASP SEQRES 4 A 40 ARG SEQRES 1 B 67 MET ALA LEU SER GLU ILE GLU THR ARG HIS SER GLU ILE SEQRES 2 B 67 ILE LYS LEU GLU ASN SER ILE ARG GLU LEU HIS ASP MET SEQRES 3 B 67 PHE MET ASP MET ALA MET LEU VAL GLU SER GLN GLY GLU SEQRES 4 B 67 MET ILE ASP ARG ILE GLU TYR ASN VAL GLU HIS ALA VAL SEQRES 5 B 67 ASP TYR VAL GLU ARG ALA VAL SER ASP THR LYS LYS ALA SEQRES 6 B 67 VAL LYS SEQRES 1 C 77 MET ARG ASN GLU LEU GLU GLU MET GLN ARG ARG ALA ASP SEQRES 2 C 77 GLN LEU ALA ASP GLU SER LEU GLU SER THR ARG ARG MET SEQRES 3 C 77 LEU GLN LEU VAL GLU GLU SER LYS ASP ALA GLY ILE ARG SEQRES 4 C 77 THR LEU VAL MET LEU ASP GLU GLN GLY GLU GLN LEU ASP SEQRES 5 C 77 ARG VAL GLU GLU GLY MET ASN HIS ILE ASN GLN ASP MET SEQRES 6 C 77 LYS GLU ALA GLU LYS ASN LEU LYS ASP LEU GLY LYS SEQRES 1 D 65 MET ALA ARG GLU ASN GLU MET ASP GLU ASN LEU GLU GLN SEQRES 2 D 65 VAL SER GLY ILE ILE GLY ASN LEU ARG HIS MET ALA LEU SEQRES 3 D 65 ASP MET GLY ASN GLU ILE ASP THR GLN ASN ARG GLN ILE SEQRES 4 D 65 ASP ARG ILE MET GLU LYS ALA ASP SER ASN LYS THR ARG SEQRES 5 D 65 ILE ASP GLU ALA ASN GLN ARG ALA THR LYS MET LEU GLY SEQRES 1 E 83 MET GLU PHE VAL MET LYS GLN ALA LEU GLY GLY ALA THR SEQRES 2 E 83 LYS ASP MET GLY LYS MET LEU GLY GLY ASP GLU GLU LYS SEQRES 3 E 83 ASP PRO ASP ALA ALA LYS LYS GLU GLU GLU ARG GLN GLU SEQRES 4 E 83 ALA LEU ARG GLN ALA GLU GLU GLU ARG LYS ALA LYS TYR SEQRES 5 E 83 ALA LYS MET GLU ALA GLU ARG GLU VAL MET ARG GLN GLY SEQRES 6 E 83 ILE ARG ASP LYS TYR GLY ILE LYS LYS LYS GLU GLU ARG SEQRES 7 E 83 GLU ALA GLU ALA GLN SEQRES 1 F 152 GLN GLU LYS LEU GLY ASP ILE CYS PHE SER LEU ARG TYR SEQRES 2 F 152 VAL PRO THR ALA GLY LYS LEU THR VAL VAL ILE LEU GLU SEQRES 3 F 152 ALA LYS ASN LEU LYS LYS MET ASP VAL GLY GLY LEU SER SEQRES 4 F 152 ASP PRO TYR VAL LYS ILE HIS LEU MET GLN ASN GLY LYS SEQRES 5 F 152 ARG LEU LYS LYS LYS LYS THR THR ILE LYS LYS ASN THR SEQRES 6 F 152 LEU ASN PRO TYR TYR ASN GLU SER PHE SER PHE GLU VAL SEQRES 7 F 152 PRO PHE GLU GLN ILE GLN LYS VAL GLN VAL VAL VAL THR SEQRES 8 F 152 VAL LEU ASP TYR ASP LYS ILE GLY LYS ASN ASP ALA ILE SEQRES 9 F 152 GLY LYS VAL PHE VAL GLY TYR ASN SER THR GLY ALA GLU SEQRES 10 F 152 LEU ARG HIS TRP SER ASP MET LEU ALA ASN PRO ARG ARG SEQRES 11 F 152 PRO ILE ALA GLN TRP HIS THR LEU GLN VAL GLU GLU GLU SEQRES 12 F 152 VAL ASP ALA MET LEU ALA VAL LYS LYS HET MG C 101 1 HETNAM MG MAGNESIUM ION FORMUL 7 MG MG 2+ FORMUL 8 HOH *105(H2 O) HELIX 1 AA1 ASN A 29 ASP A 65 1 37 HELIX 2 AA2 SER B 193 GLU B 245 1 53 HELIX 3 AA3 GLU C 12 MET C 71 1 60 HELIX 4 AA4 GLU D 143 ALA D 195 1 53 HELIX 5 AA5 ALA E 40 GLY E 71 1 32 HELIX 6 AA6 GLN F 351 GLN F 353 5 3 HELIX 7 AA7 ASP F 365 ILE F 367 5 3 HELIX 8 AA8 GLY F 384 ASN F 396 1 13 HELIX 9 AA9 VAL F 409 ALA F 418 1 10 SHEET 1 AA1 4 TYR F 338 GLU F 346 0 SHEET 2 AA1 4 LYS F 288 LYS F 297 -1 N VAL F 291 O PHE F 343 SHEET 3 AA1 4 ASP F 275 VAL F 283 -1 N CYS F 277 O GLU F 295 SHEET 4 AA1 4 ILE F 401 THR F 406 -1 O GLN F 403 N PHE F 278 SHEET 1 AA2 4 LYS F 321 LYS F 327 0 SHEET 2 AA2 4 PRO F 310 GLN F 318 -1 N ILE F 314 O LYS F 326 SHEET 3 AA2 4 VAL F 355 ASP F 363 -1 O VAL F 358 N HIS F 315 SHEET 4 AA2 4 ALA F 372 GLY F 379 -1 O ILE F 373 N VAL F 361 LINK MG MG C 101 O HOH C 204 1555 1555 2.27 LINK MG MG C 101 O HOH C 207 1555 1555 2.54 LINK MG MG C 101 O HOH C 208 1555 1555 2.37 LINK MG MG C 101 O HOH D 306 1555 1555 2.07 LINK MG MG C 101 O HOH D 311 1555 1555 2.28 LINK MG MG C 101 O HOH D 312 1555 1555 2.09 SITE 1 AC1 7 ASP C 58 HOH C 204 HOH C 207 HOH C 208 SITE 2 AC1 7 HOH D 306 HOH D 311 HOH D 312 CRYST1 85.202 89.199 87.202 90.00 90.00 90.00 P 21 21 2 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 0.011737 0.000000 0.000000 0.00000 SCALE2 0.000000 0.011211 0.000000 0.00000 SCALE3 0.000000 0.000000 0.011468 0.00000