HEADER ENDOCYTOSIS 28-MAR-07 2ENO TITLE SOLUTION STRUCTURE OF THE PDZ DOMAIN FROM HUMAN SYNAPTOJANIN 2 BINDING TITLE 2 PROTEIN COMPND MOL_ID: 1; COMPND 2 MOLECULE: SYNAPTOJANIN-2-BINDING PROTEIN; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: PDZ DOMAIN; COMPND 5 SYNONYM: MITOCHONDRIAL OUTER MEMBRANE PROTEIN 25; COMPND 6 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: SYNJ2BP; SOURCE 6 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 7 EXPRESSION_SYSTEM_PLASMID: P050509-14; SOURCE 8 OTHER_DETAILS: CELL FREE PROTEIN SYNTHESIS KEYWDS MITOCHONDRIAL OUTER MEMBRANE PROTEIN 25, STRUCTURAL GENOMICS, NPPSFA, KEYWDS 2 NATIONAL PROJECT ON PROTEIN STRUCTURAL AND FUNCTIONAL ANALYSES, KEYWDS 3 RIKEN STRUCTURAL GENOMICS/PROTEOMICS INITIATIVE, RSGI, ENDOCYTOSIS EXPDTA SOLUTION NMR NUMMDL 20 AUTHOR H.ENDO,M.YOSHIDA,F.HAYASHI,S.YOKOYAMA,RIKEN STRUCTURAL AUTHOR 2 GENOMICS/PROTEOMICS INITIATIVE (RSGI) REVDAT 3 09-MAR-22 2ENO 1 REMARK SEQADV REVDAT 2 24-FEB-09 2ENO 1 VERSN REVDAT 1 02-OCT-07 2ENO 0 JRNL AUTH H.ENDO,M.YOSHIDA,F.HAYASHI,S.YOKOYAMA JRNL TITL SOLUTION STRUCTURE OF THE PDZ DOMAIN FROM HUMAN SYNAPTOJANIN JRNL TITL 2 2 BINDING PROTEIN 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 2.0.17 REMARK 3 AUTHORS : VARIAN (VNMR), GUNTERT, P. (CYANA) REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 2ENO COMPLIES WITH FORMAT V. 3.15, 01-DEC-08 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 31-MAY-07. REMARK 100 THE DEPOSITION ID IS D_1000026883. 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 : 1.22MM 13C, 15N-LABELED PROTEIN; REMARK 210 20MM D-TRIS-HCL(PH 7.0), 100MM REMARK 210 NACL; 1MM D-DTT; 0.02% NAN3, 10% REMARK 210 D2O; 90% H2O REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 3D_13C-SEPARATED_NOESY; 3D_15N REMARK 210 -SEPARATED_NOESY REMARK 210 SPECTROMETER FIELD STRENGTH : 800 MHZ REMARK 210 SPECTROMETER MODEL : INOVA REMARK 210 SPECTROMETER MANUFACTURER : VARIAN REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : NMRPIPE 20060702, NMRVIEW 5.0.4, REMARK 210 KUJIRA 0.9820, CYANA 2.0.17 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: 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 PHE A 32 144.78 -172.88 REMARK 500 1 GLN A 41 100.89 -37.46 REMARK 500 1 TYR A 42 -25.47 -39.78 REMARK 500 1 ARG A 65 -73.53 -39.60 REMARK 500 1 ILE A 72 95.95 -62.69 REMARK 500 1 ALA A 95 -73.77 -37.04 REMARK 500 1 GLN A 110 84.13 -67.02 REMARK 500 2 VAL A 12 51.07 -98.10 REMARK 500 2 TYR A 14 126.04 -39.16 REMARK 500 2 LEU A 30 -72.05 -127.89 REMARK 500 2 GLN A 41 109.16 -42.86 REMARK 500 2 TYR A 42 -18.62 -49.43 REMARK 500 2 ASN A 57 43.62 -107.16 REMARK 500 2 ARG A 65 -62.04 -92.54 REMARK 500 2 GLU A 68 161.37 -43.25 REMARK 500 2 ASN A 82 43.04 34.41 REMARK 500 2 TYR A 97 -70.47 -39.20 REMARK 500 2 ASN A 111 109.44 -162.16 REMARK 500 3 SER A 6 135.32 -39.68 REMARK 500 3 VAL A 12 40.32 37.79 REMARK 500 3 SER A 28 -55.34 -125.39 REMARK 500 3 TYR A 42 -36.16 -39.73 REMARK 500 3 ASP A 46 76.92 -117.66 REMARK 500 3 TYR A 97 -72.17 -37.65 REMARK 500 4 SER A 3 166.10 -49.31 REMARK 500 4 TYR A 14 131.95 -172.91 REMARK 500 4 TYR A 42 -28.97 -37.95 REMARK 500 4 ASP A 46 72.06 -102.47 REMARK 500 4 LYS A 55 152.20 -48.97 REMARK 500 4 TYR A 97 -71.00 -48.29 REMARK 500 4 GLN A 108 139.63 -36.28 REMARK 500 5 MET A 8 163.94 -42.43 REMARK 500 5 ILE A 72 93.13 -62.31 REMARK 500 5 ASN A 82 54.96 39.17 REMARK 500 5 SER A 115 112.20 -173.97 REMARK 500 5 SER A 118 110.34 -35.34 REMARK 500 6 TYR A 14 119.74 -34.65 REMARK 500 6 LEU A 30 -64.61 -128.58 REMARK 500 6 PHE A 32 142.43 -172.21 REMARK 500 6 THR A 38 -29.36 -38.03 REMARK 500 6 ASN A 57 41.86 -108.63 REMARK 500 6 ILE A 72 96.84 -66.80 REMARK 500 7 ASN A 9 50.85 34.80 REMARK 500 7 LEU A 30 -179.96 -62.78 REMARK 500 7 PHE A 32 141.27 -170.72 REMARK 500 7 GLN A 41 105.42 -34.39 REMARK 500 7 ILE A 72 95.96 -58.85 REMARK 500 7 SER A 119 116.60 -169.39 REMARK 500 8 SER A 6 101.69 -43.43 REMARK 500 8 LEU A 30 -178.48 -54.69 REMARK 500 REMARK 500 THIS ENTRY HAS 142 RAMACHANDRAN OUTLIERS. REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: HSI002006307.1 RELATED DB: TARGETDB DBREF 2ENO A 8 114 UNP P57105 SYJ2B_HUMAN 1 107 SEQADV 2ENO GLY A 1 UNP P57105 EXPRESSION TAG SEQADV 2ENO SER A 2 UNP P57105 EXPRESSION TAG SEQADV 2ENO SER A 3 UNP P57105 EXPRESSION TAG SEQADV 2ENO GLY A 4 UNP P57105 EXPRESSION TAG SEQADV 2ENO SER A 5 UNP P57105 EXPRESSION TAG SEQADV 2ENO SER A 6 UNP P57105 EXPRESSION TAG SEQADV 2ENO GLY A 7 UNP P57105 EXPRESSION TAG SEQADV 2ENO SER A 115 UNP P57105 EXPRESSION TAG SEQADV 2ENO GLY A 116 UNP P57105 EXPRESSION TAG SEQADV 2ENO PRO A 117 UNP P57105 EXPRESSION TAG SEQADV 2ENO SER A 118 UNP P57105 EXPRESSION TAG SEQADV 2ENO SER A 119 UNP P57105 EXPRESSION TAG SEQADV 2ENO GLY A 120 UNP P57105 EXPRESSION TAG SEQRES 1 A 120 GLY SER SER GLY SER SER GLY MET ASN GLY ARG VAL ASP SEQRES 2 A 120 TYR LEU VAL THR GLU GLU GLU ILE ASN LEU THR ARG GLY SEQRES 3 A 120 PRO SER GLY LEU GLY PHE ASN ILE VAL GLY GLY THR ASP SEQRES 4 A 120 GLN GLN TYR VAL SER ASN ASP SER GLY ILE TYR VAL SER SEQRES 5 A 120 ARG ILE LYS GLU ASN GLY ALA ALA ALA LEU ASP GLY ARG SEQRES 6 A 120 LEU GLN GLU GLY ASP LYS ILE LEU SER VAL ASN GLY GLN SEQRES 7 A 120 ASP LEU LYS ASN LEU LEU HIS GLN ASP ALA VAL ASP LEU SEQRES 8 A 120 PHE ARG ASN ALA GLY TYR ALA VAL SER LEU ARG VAL GLN SEQRES 9 A 120 HIS ARG LEU GLN VAL GLN ASN GLY PRO ILE SER GLY PRO SEQRES 10 A 120 SER SER GLY HELIX 1 1 GLY A 58 ASP A 63 1 6 HELIX 2 2 LEU A 84 ALA A 95 1 12 SHEET 1 A 5 TYR A 14 THR A 24 0 SHEET 2 A 5 ALA A 98 GLN A 108 -1 O LEU A 101 N ILE A 21 SHEET 3 A 5 LYS A 71 VAL A 75 -1 N SER A 74 O ARG A 102 SHEET 4 A 5 ILE A 49 ILE A 54 -1 N ILE A 49 O ILE A 72 SHEET 5 A 5 PHE A 32 VAL A 35 -1 N VAL A 35 O TYR A 50 SHEET 1 B 4 TYR A 14 THR A 24 0 SHEET 2 B 4 ALA A 98 GLN A 108 -1 O LEU A 101 N ILE A 21 SHEET 3 B 4 LYS A 71 VAL A 75 -1 N SER A 74 O ARG A 102 SHEET 4 B 4 GLN A 78 ASP A 79 -1 O GLN A 78 N VAL A 75 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