HEADER ENDOCYTOSIS/EXOCYTOSIS 26-MAY-04 1WFM TITLE THE FIRST C2 DOMAIN OF HUMAN SYNAPTOTAGMIN XIII COMPND MOL_ID: 1; COMPND 2 MOLECULE: SYNAPTOTAGMIN XIII; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: C2 DOMAIN; COMPND 5 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: KAZUSA CDNA FH02770; SOURCE 6 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 7 EXPRESSION_SYSTEM_PLASMID: P040113-87; SOURCE 8 OTHER_DETAILS: CELL-FREE PROTEIN SYNTHESIS KEYWDS C2 DOMAIN, EXOCYTOSIS, NEUROTRANSMITTER RELEASE, RIKEN STRUCTURAL KEYWDS 2 GENOMICS/PROTEOMICS INITIATIVE, RSGI, STRUCTURAL GENOMICS, KEYWDS 3 ENDOCYTOSIS-EXOCYTOSIS COMPLEX EXPDTA SOLUTION NMR NUMMDL 20 AUTHOR T.NAGASHIMA,F.HAYASHI,S.YOKOYAMA,RIKEN STRUCTURAL GENOMICS/PROTEOMICS AUTHOR 2 INITIATIVE (RSGI) REVDAT 3 02-MAR-22 1WFM 1 REMARK SEQADV REVDAT 2 24-FEB-09 1WFM 1 VERSN REVDAT 1 26-NOV-04 1WFM 0 JRNL AUTH T.NAGASHIMA,F.HAYASHI,S.YOKOYAMA JRNL TITL THE FIRST C2 DOMAIN OF HUMAN SYNAPTOTAGMIN XIII JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : VNMR 6.1C, CYANA 1.0.7 REMARK 3 AUTHORS : VARIAN (VNMR), GUENTERT, P. (CYANA) REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 1WFM COMPLIES WITH FORMAT V. 3.15, 01-DEC-08 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 01-JUN-04. REMARK 100 THE DEPOSITION ID IS D_1000023525. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 298 REMARK 210 PH : 7.0 REMARK 210 IONIC STRENGTH : 120MM REMARK 210 PRESSURE : AMBIENT REMARK 210 SAMPLE CONTENTS : 1.07MM 13C/15N-LABELED PROTEIN; REMARK 210 20MM D-TRIS, 100MM NACL, 5MM D- REMARK 210 DTT, 0.02% NAN3 REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 3D_13C-SEPARATED_NOESY; 3D_15N REMARK 210 -SEPARATED_NOESY REMARK 210 SPECTROMETER FIELD STRENGTH : 900 MHZ REMARK 210 SPECTROMETER MODEL : INOVA REMARK 210 SPECTROMETER MANUFACTURER : VARIAN REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : NMRPIPE 20020425, NMRVIEW 5.0.4, REMARK 210 KUJIRA 0.8992, CYANA 1.0.7 REMARK 210 METHOD USED : TORSION ANGLE DYNAMICS REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 100 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 20 REMARK 210 CONFORMERS, SELECTION CRITERIA : STRUCTURES WITH THE LEAST REMARK 210 RESTRAINT VIOLATIONS, TARGET REMARK 210 FUNCTION REMARK 210 REMARK 210 BEST REPRESENTATIVE CONFORMER IN THIS ENSEMBLE : 1 REMARK 210 REMARK 210 REMARK: NULL REMARK 215 REMARK 215 NMR STUDY REMARK 215 THE COORDINATES IN THIS ENTRY WERE GENERATED FROM SOLUTION REMARK 215 NMR DATA. PROTEIN DATA BANK CONVENTIONS REQUIRE THAT REMARK 215 CRYST1 AND SCALE RECORDS BE INCLUDED, BUT THE VALUES ON REMARK 215 THESE RECORDS ARE MEANINGLESS. 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 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 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS 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 LYS A 14 H VAL A 36 1.51 REMARK 500 O ALA A 83 H GLU A 86 1.53 REMARK 500 O LEU A 94 H LEU A 111 1.55 REMARK 500 O GLU A 110 H LYS A 131 1.57 REMARK 500 H LEU A 28 O LEU A 80 1.58 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 1 SER A 3 152.33 66.12 REMARK 500 1 SER A 8 -62.35 -144.52 REMARK 500 1 TRP A 9 157.04 65.80 REMARK 500 1 ASP A 20 111.99 -160.60 REMARK 500 1 ASP A 41 86.52 170.38 REMARK 500 1 LEU A 65 153.93 -47.93 REMARK 500 1 HIS A 71 90.12 -173.06 REMARK 500 1 CYS A 99 105.78 -56.54 REMARK 500 1 ARG A 104 86.67 -65.47 REMARK 500 1 HIS A 105 -26.39 160.33 REMARK 500 1 SER A 106 -65.06 84.84 REMARK 500 1 THR A 118 -84.12 -113.20 REMARK 500 1 LYS A 131 58.83 -90.14 REMARK 500 1 THR A 132 -38.79 -38.65 REMARK 500 1 SER A 133 85.87 55.03 REMARK 500 1 SER A 136 -57.91 74.73 REMARK 500 2 SER A 2 171.23 56.27 REMARK 500 2 SER A 3 150.01 62.37 REMARK 500 2 SER A 5 173.70 63.57 REMARK 500 2 SER A 6 148.01 66.01 REMARK 500 2 SER A 8 -54.42 -140.68 REMARK 500 2 TRP A 9 162.12 61.47 REMARK 500 2 ASN A 10 175.32 52.75 REMARK 500 2 THR A 31 -165.62 -79.09 REMARK 500 2 VAL A 36 79.78 -119.24 REMARK 500 2 SER A 38 153.28 -38.85 REMARK 500 2 HIS A 40 157.91 73.92 REMARK 500 2 HIS A 71 78.77 -161.83 REMARK 500 2 GLU A 75 34.61 -99.05 REMARK 500 2 ARG A 104 84.63 -59.23 REMARK 500 2 HIS A 105 177.39 171.79 REMARK 500 2 THR A 118 -84.89 -98.90 REMARK 500 2 SER A 119 -71.74 -38.95 REMARK 500 2 SER A 133 81.82 43.32 REMARK 500 3 SER A 2 175.88 179.14 REMARK 500 3 SER A 3 -63.12 69.47 REMARK 500 3 SER A 5 170.24 177.94 REMARK 500 3 SER A 6 168.73 178.19 REMARK 500 3 TRP A 9 64.86 80.36 REMARK 500 3 ASN A 10 163.94 177.93 REMARK 500 3 GLN A 11 162.94 -46.15 REMARK 500 3 SER A 38 95.75 -169.75 REMARK 500 3 HIS A 40 159.96 -49.08 REMARK 500 3 ASP A 41 154.51 72.14 REMARK 500 3 CYS A 44 179.42 72.89 REMARK 500 3 HIS A 71 77.25 -160.34 REMARK 500 3 VAL A 79 119.75 -166.99 REMARK 500 3 CYS A 99 150.37 -46.98 REMARK 500 3 ARG A 101 -67.07 -171.84 REMARK 500 3 SER A 103 36.92 84.07 REMARK 500 REMARK 500 THIS ENTRY HAS 324 RAMACHANDRAN OUTLIERS. REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: HSK002001399.1 RELATED DB: TARGETDB DBREF 1WFM A 8 132 UNP Q7L8C5 SYT13_HUMAN 155 279 SEQADV 1WFM GLY A 1 UNP Q7L8C5 CLONING ARTIFACT SEQADV 1WFM SER A 2 UNP Q7L8C5 CLONING ARTIFACT SEQADV 1WFM SER A 3 UNP Q7L8C5 CLONING ARTIFACT SEQADV 1WFM GLY A 4 UNP Q7L8C5 CLONING ARTIFACT SEQADV 1WFM SER A 5 UNP Q7L8C5 CLONING ARTIFACT SEQADV 1WFM SER A 6 UNP Q7L8C5 CLONING ARTIFACT SEQADV 1WFM GLY A 7 UNP Q7L8C5 CLONING ARTIFACT SEQADV 1WFM SER A 133 UNP Q7L8C5 CLONING ARTIFACT SEQADV 1WFM GLY A 134 UNP Q7L8C5 CLONING ARTIFACT SEQADV 1WFM PRO A 135 UNP Q7L8C5 CLONING ARTIFACT SEQADV 1WFM SER A 136 UNP Q7L8C5 CLONING ARTIFACT SEQADV 1WFM SER A 137 UNP Q7L8C5 CLONING ARTIFACT SEQADV 1WFM GLY A 138 UNP Q7L8C5 CLONING ARTIFACT SEQRES 1 A 138 GLY SER SER GLY SER SER GLY SER TRP ASN GLN ALA PRO SEQRES 2 A 138 LYS LEU HIS TYR CYS LEU ASP TYR ASP CYS GLN LYS ALA SEQRES 3 A 138 GLU LEU PHE VAL THR ARG LEU GLU ALA VAL THR SER ASN SEQRES 4 A 138 HIS ASP GLY GLY CYS ASP CYS TYR VAL GLN GLY SER VAL SEQRES 5 A 138 ALA ASN ARG THR GLY SER VAL GLU ALA GLN THR ALA LEU SEQRES 6 A 138 LYS LYS ARG GLN LEU HIS THR THR TRP GLU GLU GLY LEU SEQRES 7 A 138 VAL LEU PRO LEU ALA GLU GLU GLU LEU PRO THR ALA THR SEQRES 8 A 138 LEU THR LEU THR LEU ARG THR CYS ASP ARG PHE SER ARG SEQRES 9 A 138 HIS SER VAL ALA GLY GLU LEU ARG LEU GLY LEU ASP GLY SEQRES 10 A 138 THR SER VAL PRO LEU GLY ALA ALA GLN TRP GLY GLU LEU SEQRES 11 A 138 LYS THR SER GLY PRO SER SER GLY SHEET 1 A 3 THR A 72 THR A 73 0 SHEET 2 A 3 GLU A 27 VAL A 36 -1 N ALA A 35 O THR A 72 SHEET 3 A 3 LEU A 78 PRO A 81 -1 O LEU A 80 N LEU A 28 SHEET 1 B 4 THR A 72 THR A 73 0 SHEET 2 B 4 GLU A 27 VAL A 36 -1 N ALA A 35 O THR A 72 SHEET 3 B 4 LYS A 14 TYR A 21 -1 N LYS A 14 O VAL A 36 SHEET 4 B 4 GLN A 126 GLU A 129 -1 O GLY A 128 N LEU A 15 SHEET 1 C 4 GLY A 57 GLN A 62 0 SHEET 2 C 4 CYS A 46 ASN A 54 -1 N VAL A 52 O VAL A 59 SHEET 3 C 4 THR A 91 THR A 98 -1 O THR A 93 N SER A 51 SHEET 4 C 4 GLY A 109 GLY A 114 -1 O LEU A 111 N LEU A 94 CRYST1 1.000 1.000 1.000 90.00 90.00 90.00 P 1 1 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 1.000000 0.000000 0.000000 0.00000 SCALE2 0.000000 1.000000 0.000000 0.00000 SCALE3 0.000000 0.000000 1.000000 0.00000 MODEL 1