PDB Short entry for 5H4Y HEADER METAL BINDING PROTEIN 02-NOV-16 5H4Y TITLE CRYSTAL STRUCTURE OF HUMAN SYNAPTOTAGMIN 5 C2A DOMAIN COMPND MOL_ID: 1; COMPND 2 MOLECULE: SYNAPTOTAGMIN-5; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: UNP RESIDUES 102-242; COMPND 5 SYNONYM: SYNAPTOTAGMIN V,SYTV; COMPND 6 ENGINEERED: YES; COMPND 7 MUTATION: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 3 ORGANISM_COMMON: HUMAN; SOURCE 4 ORGANISM_TAXID: 9606; SOURCE 5 GENE: SYT5; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: K12; SOURCE 9 EXPRESSION_SYSTEM_PLASMID: P28 KEYWDS METAL BINDING PROTEIN EXPDTA X-RAY DIFFRACTION AUTHOR X.QIU,Y.GAO,M.TENG,L.NIU REVDAT 4 20-MAR-24 5H4Y 1 LINK REVDAT 3 16-AUG-17 5H4Y 1 REMARK REVDAT 2 11-JAN-17 5H4Y 1 JRNL REVDAT 1 30-NOV-16 5H4Y 0 JRNL AUTH X.QIU,J.GE,Y.GAO,M.TENG,L.NIU JRNL TITL STRUCTURAL ANALYSIS OF CA(2+)-BINDING POCKET OF JRNL TITL 2 SYNAPTOTAGMIN 5 C2A DOMAIN JRNL REF INT. J. BIOL. MACROMOL. V. 95 946 2017 JRNL REFN ISSN 1879-0003 JRNL PMID 27793683 JRNL DOI 10.1016/J.IJBIOMAC.2016.10.083 REMARK 2 REMARK 2 RESOLUTION. 1.90 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.5.0072 REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN REMARK 3 REMARK 3 REFINEMENT TARGET : NULL REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.90 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 30.76 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 99.8 REMARK 3 NUMBER OF REFLECTIONS : 10897 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) : 0.173 REMARK 3 R VALUE (WORKING SET) : 0.171 REMARK 3 FREE R VALUE : 0.212 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.800 REMARK 3 FREE R VALUE TEST SET COUNT : 549 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) : 1.90 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.95 REMARK 3 REFLECTION IN BIN (WORKING SET) : 781 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 99.03 REMARK 3 BIN R VALUE (WORKING SET) : 0.2620 REMARK 3 BIN FREE R VALUE SET COUNT : 40 REMARK 3 BIN FREE R VALUE : 0.3260 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 1008 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 7 REMARK 3 SOLVENT ATOMS : 128 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 19.67 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.26000 REMARK 3 B22 (A**2) : -0.26000 REMARK 3 B33 (A**2) : 0.39000 REMARK 3 B12 (A**2) : -0.13000 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): 0.140 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.132 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.079 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 2.598 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.957 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.931 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 1034 ; 0.011 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 1399 ; 1.256 ; 1.974 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 125 ; 6.268 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 52 ;34.840 ;22.692 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 168 ;13.056 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 11 ;11.634 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 149 ; 0.087 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 807 ; 0.006 ; 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): 630 ; 0.609 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 1006 ; 1.198 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 404 ; 2.259 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 393 ; 3.927 ; 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 : NULL 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: HYDROGENS HAVE BEEN ADDED IN THE RIDING REMARK 3 POSITIONS, SF FILE CONTAINS FRIEDEL PAIRS UNDER I/F_MINUS AND I/ REMARK 3 F_PLUS COLUMNS. REMARK 4 REMARK 4 5H4Y COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 04-NOV-16. REMARK 100 THE DEPOSITION ID IS D_1300002018. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 15-NOV-09 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 5.6 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : N REMARK 200 RADIATION SOURCE : ROTATING ANODE REMARK 200 BEAMLINE : NULL REMARK 200 X-RAY GENERATOR MODEL : CU FINE FOCUS REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.54178 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : IMAGE PLATE REMARK 200 DETECTOR MANUFACTURER : RIGAKU REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 11445 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.900 REMARK 200 RESOLUTION RANGE LOW (A) : 35.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 200 DATA REDUNDANCY : 12.10 REMARK 200 R MERGE (I) : 0.07900 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 33.9000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.90 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.93 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.1 REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : 0.42500 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> FOR SHELL : 5.700 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: MOLREP REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: THE ENTRY CONTAINS FRIEDEL PAIRS IN F_PLUS/MINUS COLUMNS. REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 40.89 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.08 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.1M CALCIUM ACETATE, 0.1M SODIUM REMARK 280 ACETATE PH 5.6, 12.5%(W/V) PEG4000, VAPOR DIFFUSION, HANGING REMARK 280 DROP, TEMPERATURE 284K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 65 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -Y,X-Y,Z+2/3 REMARK 290 3555 -X+Y,-X,Z+1/3 REMARK 290 4555 -X,-Y,Z+1/2 REMARK 290 5555 Y,-X+Y,Z+1/6 REMARK 290 6555 X-Y,X,Z+5/6 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 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 2 0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 18.70133 REMARK 290 SMTRY1 3 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 3 -0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 9.35067 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 14.02600 REMARK 290 SMTRY1 5 0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 5 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 4.67533 REMARK 290 SMTRY1 6 0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 6 0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 23.37667 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: MONOMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 260 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 7260 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -36.0 KCAL/MOL 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 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 93 REMARK 465 GLY A 94 REMARK 465 HIS A 95 REMARK 465 HIS A 96 REMARK 465 HIS A 97 REMARK 465 HIS A 98 REMARK 465 HIS A 99 REMARK 465 HIS A 100 REMARK 465 MET A 101 REMARK 465 GLN A 102 REMARK 465 VAL A 103 REMARK 465 ALA A 104 REMARK 465 ASP A 105 REMARK 465 LYS A 106 REMARK 465 ARG A 234 REMARK 465 GLU A 235 REMARK 465 GLU A 236 REMARK 465 GLN A 237 REMARK 465 GLU A 238 REMARK 465 LYS A 239 REMARK 465 LEU A 240 REMARK 465 GLY A 241 REMARK 465 ASP A 242 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 HIS A 107 N CA CB CG ND1 CD2 CE1 REMARK 470 HIS A 107 NE2 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 OE1 GLN A 111 O HOH A 401 2.03 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 CA A 302 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 LEU A 138 O REMARK 620 2 ASP A 139 OD1 87.4 REMARK 620 3 ASP A 197 OD2 88.2 82.7 REMARK 620 4 ASP A 199 OD1 158.1 71.9 82.4 REMARK 620 5 ASP A 199 OD2 150.6 118.4 107.7 51.1 REMARK 620 6 ASP A 205 OD2 83.9 168.9 90.1 115.7 71.8 REMARK 620 7 HOH A 504 O 89.5 84.1 166.7 95.2 80.2 102.6 REMARK 620 N 1 2 3 4 5 6 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CA A 301 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 139 OD1 REMARK 620 2 ASP A 139 OD2 51.5 REMARK 620 3 ASP A 145 OD2 131.5 80.1 REMARK 620 4 ASP A 197 OD1 92.1 98.3 93.3 REMARK 620 5 PHE A 198 O 145.3 163.0 83.0 80.9 REMARK 620 6 ASP A 199 OD1 70.2 119.4 154.8 98.9 77.3 REMARK 620 7 HOH A 448 O 99.5 85.9 76.1 167.8 91.6 88.8 REMARK 620 N 1 2 3 4 5 6 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CA A 303 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 199 OD2 REMARK 620 2 SER A 202 OG 86.6 REMARK 620 3 ARG A 203 O 93.2 95.3 REMARK 620 4 ASP A 205 OD1 105.1 168.2 82.7 REMARK 620 5 ASP A 205 OD2 65.8 142.8 110.0 47.5 REMARK 620 6 HOH A 495 O 92.6 80.9 172.8 99.8 76.3 REMARK 620 7 HOH A 505 O 170.8 85.7 92.4 82.8 118.8 81.3 REMARK 620 N 1 2 3 4 5 6 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue CA A 301 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue CA A 302 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue CA A 303 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue ACT A 304 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 5H4Z RELATED DB: PDB DBREF 5H4Y A 102 242 UNP O00445 SYT5_HUMAN 102 242 SEQADV 5H4Y MET A 93 UNP O00445 INITIATING METHIONINE SEQADV 5H4Y GLY A 94 UNP O00445 EXPRESSION TAG SEQADV 5H4Y HIS A 95 UNP O00445 EXPRESSION TAG SEQADV 5H4Y HIS A 96 UNP O00445 EXPRESSION TAG SEQADV 5H4Y HIS A 97 UNP O00445 EXPRESSION TAG SEQADV 5H4Y HIS A 98 UNP O00445 EXPRESSION TAG SEQADV 5H4Y HIS A 99 UNP O00445 EXPRESSION TAG SEQADV 5H4Y HIS A 100 UNP O00445 EXPRESSION TAG SEQADV 5H4Y MET A 101 UNP O00445 EXPRESSION TAG SEQADV 5H4Y GLN A 111 UNP O00445 ARG 111 ENGINEERED MUTATION SEQRES 1 A 150 MET GLY HIS HIS HIS HIS HIS HIS MET GLN VAL ALA ASP SEQRES 2 A 150 LYS HIS GLU LEU GLY GLN LEU GLN TYR SER LEU ASP TYR SEQRES 3 A 150 ASP PHE GLN SER GLY GLN LEU LEU VAL GLY ILE LEU GLN SEQRES 4 A 150 ALA MET GLY LEU ALA ALA LEU ASP LEU GLY GLY SER SER SEQRES 5 A 150 ASP PRO TYR VAL ARG VAL TYR LEU LEU PRO ASP LYS ARG SEQRES 6 A 150 ARG ARG TYR GLU THR LYS VAL HIS ARG GLN THR LEU ASN SEQRES 7 A 150 PRO HIS PHE GLY GLU THR PHE ALA PHE LYS VAL PRO TYR SEQRES 8 A 150 VAL GLU LEU GLY GLY ARG VAL LEU VAL MET ALA VAL TYR SEQRES 9 A 150 ASP PHE ASP ARG PHE SER ARG ASN ASP ALA ILE GLY GLU SEQRES 10 A 150 VAL ARG VAL PRO MET SER SER VAL ASP LEU GLY ARG PRO SEQRES 11 A 150 VAL GLN ALA TRP ARG GLU LEU GLN ALA ALA PRO ARG GLU SEQRES 12 A 150 GLU GLN GLU LYS LEU GLY ASP HET CA A 301 1 HET CA A 302 1 HET CA A 303 1 HET ACT A 304 4 HETNAM CA CALCIUM ION HETNAM ACT ACETATE ION FORMUL 2 CA 3(CA 2+) FORMUL 5 ACT C2 H3 O2 1- FORMUL 6 HOH *128(H2 O) HELIX 1 AA1 PRO A 182 GLY A 188 5 7 HELIX 2 AA2 SER A 215 VAL A 217 5 3 SHEET 1 AA1 4 HIS A 172 LYS A 180 0 SHEET 2 AA1 4 GLN A 124 MET A 133 -1 N LEU A 125 O PHE A 179 SHEET 3 AA1 4 GLN A 111 ASP A 119 -1 N ASP A 117 O LEU A 126 SHEET 4 AA1 4 VAL A 223 GLU A 228 -1 O VAL A 223 N LEU A 116 SHEET 1 AA2 4 ARG A 159 GLU A 161 0 SHEET 2 AA2 4 PRO A 146 LEU A 153 -1 N VAL A 150 O TYR A 160 SHEET 3 AA2 4 VAL A 190 ASP A 197 -1 O ALA A 194 N ARG A 149 SHEET 4 AA2 4 ASP A 205 PRO A 213 -1 O GLY A 208 N VAL A 195 LINK O LEU A 138 CA CA A 302 1555 1555 2.42 LINK OD1 ASP A 139 CA CA A 301 1555 1555 2.54 LINK OD2 ASP A 139 CA CA A 301 1555 1555 2.51 LINK OD1 ASP A 139 CA CA A 302 1555 1555 2.34 LINK OD2 ASP A 145 CA CA A 301 1555 1555 2.38 LINK OD1 ASP A 197 CA CA A 301 1555 1555 2.41 LINK OD2 ASP A 197 CA CA A 302 1555 1555 2.27 LINK O PHE A 198 CA CA A 301 1555 1555 2.37 LINK OD1 ASP A 199 CA CA A 301 1555 1555 2.44 LINK OD1 ASP A 199 CA CA A 302 1555 1555 2.53 LINK OD2 ASP A 199 CA CA A 302 1555 1555 2.50 LINK OD2 ASP A 199 CA CA A 303 1555 1555 2.31 LINK OG SER A 202 CA CA A 303 1555 1555 2.41 LINK O ARG A 203 CA CA A 303 1555 1555 2.35 LINK OD2 ASP A 205 CA CA A 302 1555 1555 2.36 LINK OD1 ASP A 205 CA CA A 303 1555 1555 2.51 LINK OD2 ASP A 205 CA CA A 303 1555 1555 2.87 LINK CA CA A 301 O HOH A 448 1555 1555 2.43 LINK CA CA A 302 O HOH A 504 1555 1555 2.45 LINK CA CA A 303 O HOH A 495 1555 1555 2.22 LINK CA CA A 303 O HOH A 505 1555 1555 2.41 CISPEP 1 LEU A 153 PRO A 154 0 6.78 SITE 1 AC1 6 ASP A 139 ASP A 145 ASP A 197 PHE A 198 SITE 2 AC1 6 ASP A 199 HOH A 448 SITE 1 AC2 6 LEU A 138 ASP A 139 ASP A 197 ASP A 199 SITE 2 AC2 6 ASP A 205 HOH A 504 SITE 1 AC3 6 ASP A 199 SER A 202 ARG A 203 ASP A 205 SITE 2 AC3 6 HOH A 495 HOH A 505 SITE 1 AC4 6 ASP A 199 ARG A 200 PHE A 201 HOH A 413 SITE 2 AC4 6 HOH A 415 HOH A 448 CRYST1 93.966 93.966 28.052 90.00 90.00 120.00 P 65 6 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 0.010642 0.006144 0.000000 0.00000 SCALE2 0.000000 0.012288 0.000000 0.00000 SCALE3 0.000000 0.000000 0.035648 0.00000