HEADER ENDOCYTOSIS 29-JUN-09 3I2W TITLE CRYSTAL STRUCTURE OF EFC/F-BAR DOMAIN OF DROSOPHILA SYNDAPIN/PACSIN COMPND MOL_ID: 1; COMPND 2 MOLECULE: SYNDAPIN; COMPND 3 CHAIN: A, B; COMPND 4 FRAGMENT: EFC/F-BAR DOMAIN, UNP RESIDUES 14-303 OUT OF 494; COMPND 5 SYNONYM: LD46328P; COMPND 6 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: DROSOPHILA MELANOGASTER; SOURCE 3 ORGANISM_COMMON: FRUIT FLY; SOURCE 4 ORGANISM_TAXID: 7227; SOURCE 5 GENE: CG33094, DMEL_CG33094, SYND, SYNDAPIN; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 9 EXPRESSION_SYSTEM_PLASMID: PGEX-4T-1 KEYWDS EFC, FBAR, SH3 DOMAIN, ENDOCYTOSIS EXPDTA X-RAY DIFFRACTION AUTHOR M.A.EDELING,D.J.OWEN,L.M.TRAUB REVDAT 2 13-NOV-24 3I2W 1 REMARK LINK REVDAT 1 02-MAR-10 3I2W 0 JRNL AUTH M.A.EDELING,S.SANKER,T.SHIMA,P.K.UMASANKAR,S.HONING,H.Y.KIM, JRNL AUTH 2 L.A.DAVIDSON,S.C.WATKINS,M.TSANG,D.J.OWEN,L.M.TRAUB JRNL TITL STRUCTURAL REQUIREMENTS FOR PACSIN/SYNDAPIN OPERATION DURING JRNL TITL 2 ZEBRAFISH EMBRYONIC NOTOCHORD DEVELOPMENT. JRNL REF PLOS ONE V. 4 E8150 2009 JRNL REFN ESSN 1932-6203 JRNL PMID 19997509 JRNL DOI 10.1371/JOURNAL.PONE.0008150 REMARK 2 REMARK 2 RESOLUTION. 2.67 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 : MAXIMUM LIKELIHOOD WITH PHASES REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.67 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 39.07 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.7 REMARK 3 NUMBER OF REFLECTIONS : 28462 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) : 0.235 REMARK 3 R VALUE (WORKING SET) : 0.234 REMARK 3 FREE R VALUE : 0.258 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 1522 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) : 2.68 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.74 REMARK 3 REFLECTION IN BIN (WORKING SET) : 2010 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 96.89 REMARK 3 BIN R VALUE (WORKING SET) : 0.3440 REMARK 3 BIN FREE R VALUE SET COUNT : 106 REMARK 3 BIN FREE R VALUE : 0.3540 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 4612 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 15 REMARK 3 SOLVENT ATOMS : 104 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 43.03 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 3.73000 REMARK 3 B22 (A**2) : -4.54000 REMARK 3 B33 (A**2) : 0.81000 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): 0.449 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.286 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.203 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 9.876 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.914 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.895 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 4720 ; 0.023 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 6345 ; 2.108 ; 1.932 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 552 ; 6.881 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 244 ;35.891 ;25.328 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 923 ;20.734 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 21 ;13.461 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 663 ; 0.136 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 3524 ; 0.008 ; 0.020 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): 2767 ; 1.024 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 4471 ; 2.048 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1953 ; 3.464 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1874 ; 5.877 ; 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 : 1.20 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 U VALUES : REFINED INDIVIDUALLY REMARK 4 REMARK 4 3I2W COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 09-JUL-09. REMARK 100 THE DEPOSITION ID IS D_1000053895. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 30-JUN-07 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : NULL REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : ESRF REMARK 200 BEAMLINE : ID29 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.979 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 315R REMARK 200 INTENSITY-INTEGRATION SOFTWARE : MOSFLM REMARK 200 DATA SCALING SOFTWARE : SCALA REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 30043 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.670 REMARK 200 RESOLUTION RANGE LOW (A) : 78.090 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.5 REMARK 200 DATA REDUNDANCY : 13.60 REMARK 200 R MERGE (I) : 0.11100 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 22.2000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.67 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.81 REMARK 200 COMPLETENESS FOR SHELL (%) : 96.7 REMARK 200 DATA REDUNDANCY IN SHELL : 13.80 REMARK 200 R MERGE FOR SHELL (I) : 0.37700 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 5.600 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: SIRAS REMARK 200 SOFTWARE USED: SHARP REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 67.07 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.74 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 17% PEG 3350, 0.1M DISODIUM PHOSPHATE, REMARK 280 VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 289K 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 31.29750 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 96.43000 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 42.76250 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 96.43000 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 31.29750 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 42.76250 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: 9670 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 29850 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -104.0 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 ASN A 169 REMARK 465 GLN A 170 REMARK 465 GLU A 171 REMARK 465 ARG A 172 REMARK 465 ASN A 173 REMARK 465 ALA A 174 REMARK 465 ASN A 175 REMARK 465 ALA A 176 REMARK 465 ASP A 177 REMARK 465 SER A 178 REMARK 465 SER A 179 REMARK 465 LEU A 180 REMARK 465 SER A 181 REMARK 465 PRO A 182 REMARK 465 ASP A 183 REMARK 465 GLN A 184 REMARK 465 VAL A 185 REMARK 465 LYS A 186 REMARK 465 LYS A 187 REMARK 465 MSE A 188 REMARK 465 PHE B 299 REMARK 465 VAL B 300 REMARK 465 GLU B 301 REMARK 465 TYR B 302 REMARK 465 THR B 303 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 HOH B 325 O HOH B 327 2.16 REMARK 500 CG2 THR A 27 OE2 GLU A 133 2.17 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND LENGTHS REMARK 500 REMARK 500 THE STEREOCHEMICAL PARAMETERS OF THE FOLLOWING RESIDUES REMARK 500 HAVE VALUES WHICH DEVIATE FROM EXPECTED VALUES BY MORE REMARK 500 THAN 6*RMSD (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 500 IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT: (10X,I3,1X,2(A3,1X,A1,I4,A1,1X,A4,3X),1X,F6.3) REMARK 500 REMARK 500 EXPECTED VALUES PROTEIN: ENGH AND HUBER, 1999 REMARK 500 EXPECTED VALUES NUCLEIC ACID: CLOWNEY ET AL 1996 REMARK 500 REMARK 500 M RES CSSEQI ATM1 RES CSSEQI ATM2 DEVIATION REMARK 500 CYS A 37 CB CYS A 37 SG -0.097 REMARK 500 SER A 159 CB SER A 159 OG 0.106 REMARK 500 CYS A 252 CB CYS A 252 SG -0.144 REMARK 500 GLU B 244 CG GLU B 244 CD 0.105 REMARK 500 GLU B 244 CD GLU B 244 OE1 0.073 REMARK 500 GLU B 244 CD GLU B 244 OE2 0.101 REMARK 500 CYS B 252 CB CYS B 252 SG -0.110 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND ANGLES REMARK 500 REMARK 500 THE STEREOCHEMICAL PARAMETERS OF THE FOLLOWING RESIDUES REMARK 500 HAVE VALUES WHICH DEVIATE FROM EXPECTED VALUES BY MORE REMARK 500 THAN 6*RMSD (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 500 IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT: (10X,I3,1X,A3,1X,A1,I4,A1,3(1X,A4,2X),12X,F5.1) REMARK 500 REMARK 500 EXPECTED VALUES PROTEIN: ENGH AND HUBER, 1999 REMARK 500 EXPECTED VALUES NUCLEIC ACID: CLOWNEY ET AL 1996 REMARK 500 REMARK 500 M RES CSSEQI ATM1 ATM2 ATM3 REMARK 500 ASP B 254 CB - CG - OD1 ANGL. DEV. = 6.1 DEGREES 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 ASP A 106 -66.02 -133.95 REMARK 500 LEU A 123 -127.51 45.51 REMARK 500 SER A 260 -3.69 -56.29 REMARK 500 GLU A 301 -175.85 -65.26 REMARK 500 ASN B 291 38.65 -86.30 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 304 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ILE A 69 O REMARK 620 2 GLU A 70 O 65.0 REMARK 620 3 GLY A 72 O 77.7 77.7 REMARK 620 4 GLU A 74 O 117.6 175.5 106.2 REMARK 620 5 GLU A 79 OE2 80.4 95.0 158.0 82.2 REMARK 620 N 1 2 3 4 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 NA B 304 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ILE B 69 O REMARK 620 2 GLU B 70 O 67.3 REMARK 620 3 GLY B 72 O 80.7 77.9 REMARK 620 4 GLU B 74 O 112.8 174.9 97.0 REMARK 620 5 GLU B 79 OE2 81.6 95.2 162.3 89.9 REMARK 620 6 HOH B 322 O 129.0 65.3 72.3 112.7 119.9 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 GOL A 1 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NA A 304 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NA A 3 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL B 2 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NA B 304 DBREF 3I2W A 14 303 UNP Q9VDI1 Q9VDI1_DROME 14 303 DBREF 3I2W B 14 303 UNP Q9VDI1 Q9VDI1_DROME 14 303 SEQRES 1 A 290 SER ASP SER PHE TRP GLU PRO GLY ASN TYR LYS ARG THR SEQRES 2 A 290 THR LYS ARG ILE GLU ASP GLY TYR LYS LEU CYS ASN ASP SEQRES 3 A 290 LEU GLN GLN LEU ILE GLN GLU ARG ALA ASP ILE GLU LYS SEQRES 4 A 290 GLY TYR ALA LYS SER LEU ARG THR TRP SER LYS LYS TRP SEQRES 5 A 290 GLY GLU LEU ILE GLU LYS GLY PRO GLU TYR GLY THR THR SEQRES 6 A 290 GLU ALA ALA TRP LYS GLY VAL LEU THR GLU SER GLU ARG SEQRES 7 A 290 ILE SER ASP VAL HIS MSE LYS ILE LYS ASP ASN LEU CYS SEQRES 8 A 290 ASN ASP VAL ASN SER GLN ILE LYS THR TRP GLN LYS GLU SEQRES 9 A 290 ASN TYR HIS HIS THR LEU MSE GLN ILE LYS GLU ARG LYS SEQRES 10 A 290 ASP LEU GLU ASP LEU PHE LYS LYS ALA GLN LYS PRO TRP SEQRES 11 A 290 ALA LYS LEU LEU ALA LYS VAL GLU LYS ALA LYS ALA ASP SEQRES 12 A 290 TYR HIS SER ALA CYS LYS THR GLU ARG SER ALA THR ASN SEQRES 13 A 290 GLN GLU ARG ASN ALA ASN ALA ASP SER SER LEU SER PRO SEQRES 14 A 290 ASP GLN VAL LYS LYS MSE HIS ASP ARG VAL GLN LYS THR SEQRES 15 A 290 LYS ASP GLN VAL GLN LYS CYS ARG GLU LYS TYR GLU GLN SEQRES 16 A 290 ALA ILE ALA GLU ILE THR LYS TYR ASN SER VAL TYR ILE SEQRES 17 A 290 GLU ASP MSE THR SER VAL PHE GLU LYS CYS GLN THR PHE SEQRES 18 A 290 GLU LYS THR ARG LEU GLN PHE PHE LYS GLU ILE LEU PHE SEQRES 19 A 290 ASN VAL HIS SER CYS LEU ASP LEU THR LYS VAL GLN SER SEQRES 20 A 290 LEU PRO GLN ILE TYR GLU GLU PHE SER HIS THR ILE ASN SEQRES 21 A 290 ASN ALA ASP GLN GLN LYS ASP LEU LYS TRP TRP SER ASN SEQRES 22 A 290 ASN HIS GLY ILE ASN MSE ALA MSE ASN TRP PRO SER PHE SEQRES 23 A 290 VAL GLU TYR THR SEQRES 1 B 290 SER ASP SER PHE TRP GLU PRO GLY ASN TYR LYS ARG THR SEQRES 2 B 290 THR LYS ARG ILE GLU ASP GLY TYR LYS LEU CYS ASN ASP SEQRES 3 B 290 LEU GLN GLN LEU ILE GLN GLU ARG ALA ASP ILE GLU LYS SEQRES 4 B 290 GLY TYR ALA LYS SER LEU ARG THR TRP SER LYS LYS TRP SEQRES 5 B 290 GLY GLU LEU ILE GLU LYS GLY PRO GLU TYR GLY THR THR SEQRES 6 B 290 GLU ALA ALA TRP LYS GLY VAL LEU THR GLU SER GLU ARG SEQRES 7 B 290 ILE SER ASP VAL HIS MSE LYS ILE LYS ASP ASN LEU CYS SEQRES 8 B 290 ASN ASP VAL ASN SER GLN ILE LYS THR TRP GLN LYS GLU SEQRES 9 B 290 ASN TYR HIS HIS THR LEU MSE GLN ILE LYS GLU ARG LYS SEQRES 10 B 290 ASP LEU GLU ASP LEU PHE LYS LYS ALA GLN LYS PRO TRP SEQRES 11 B 290 ALA LYS LEU LEU ALA LYS VAL GLU LYS ALA LYS ALA ASP SEQRES 12 B 290 TYR HIS SER ALA CYS LYS THR GLU ARG SER ALA THR ASN SEQRES 13 B 290 GLN GLU ARG ASN ALA ASN ALA ASP SER SER LEU SER PRO SEQRES 14 B 290 ASP GLN VAL LYS LYS MSE HIS ASP ARG VAL GLN LYS THR SEQRES 15 B 290 LYS ASP GLN VAL GLN LYS CYS ARG GLU LYS TYR GLU GLN SEQRES 16 B 290 ALA ILE ALA GLU ILE THR LYS TYR ASN SER VAL TYR ILE SEQRES 17 B 290 GLU ASP MSE THR SER VAL PHE GLU LYS CYS GLN THR PHE SEQRES 18 B 290 GLU LYS THR ARG LEU GLN PHE PHE LYS GLU ILE LEU PHE SEQRES 19 B 290 ASN VAL HIS SER CYS LEU ASP LEU THR LYS VAL GLN SER SEQRES 20 B 290 LEU PRO GLN ILE TYR GLU GLU PHE SER HIS THR ILE ASN SEQRES 21 B 290 ASN ALA ASP GLN GLN LYS ASP LEU LYS TRP TRP SER ASN SEQRES 22 B 290 ASN HIS GLY ILE ASN MSE ALA MSE ASN TRP PRO SER PHE SEQRES 23 B 290 VAL GLU TYR THR MODRES 3I2W MSE A 97 MET SELENOMETHIONINE MODRES 3I2W MSE A 124 MET SELENOMETHIONINE MODRES 3I2W MSE A 224 MET SELENOMETHIONINE MODRES 3I2W MSE A 292 MET SELENOMETHIONINE MODRES 3I2W MSE A 294 MET SELENOMETHIONINE MODRES 3I2W MSE B 97 MET SELENOMETHIONINE MODRES 3I2W MSE B 124 MET SELENOMETHIONINE MODRES 3I2W MSE B 188 MET SELENOMETHIONINE MODRES 3I2W MSE B 224 MET SELENOMETHIONINE MODRES 3I2W MSE B 292 MET SELENOMETHIONINE MODRES 3I2W MSE B 294 MET SELENOMETHIONINE HET MSE A 97 8 HET MSE A 124 8 HET MSE A 224 8 HET MSE A 292 8 HET MSE A 294 8 HET MSE B 97 8 HET MSE B 124 8 HET MSE B 188 8 HET MSE B 224 8 HET MSE B 292 8 HET MSE B 294 8 HET GOL A 1 6 HET NA A 304 1 HET NA A 3 1 HET GOL B 2 6 HET NA B 304 1 HETNAM MSE SELENOMETHIONINE HETNAM GOL GLYCEROL HETNAM NA SODIUM ION HETSYN GOL GLYCERIN; PROPANE-1,2,3-TRIOL FORMUL 1 MSE 11(C5 H11 N O2 SE) FORMUL 3 GOL 2(C3 H8 O3) FORMUL 4 NA 3(NA 1+) FORMUL 8 HOH *104(H2 O) HELIX 1 1 TYR A 23 GLY A 72 1 50 HELIX 2 2 TYR A 75 ASP A 106 1 32 HELIX 3 3 ASP A 106 TYR A 119 1 14 HELIX 4 4 LYS A 127 THR A 163 1 37 HELIX 5 5 ASP A 197 ASP A 254 1 58 HELIX 6 6 LEU A 255 VAL A 258 5 4 HELIX 7 7 SER A 260 ASN A 274 1 15 HELIX 8 8 ASP A 276 HIS A 288 1 13 HELIX 9 9 TYR B 23 GLY B 72 1 50 HELIX 10 10 TYR B 75 ASP B 106 1 32 HELIX 11 11 ASP B 106 TYR B 119 1 14 HELIX 12 12 LYS B 127 ASN B 173 1 47 HELIX 13 13 SER B 181 ASP B 254 1 74 HELIX 14 14 LEU B 255 VAL B 258 5 4 HELIX 15 15 GLN B 259 ASN B 274 1 16 HELIX 16 16 ASP B 276 GLY B 289 1 14 SHEET 1 A 2 HIS A 121 THR A 122 0 SHEET 2 A 2 GLN A 125 ILE A 126 -1 O GLN A 125 N THR A 122 SHEET 1 B 2 HIS B 121 THR B 122 0 SHEET 2 B 2 GLN B 125 ILE B 126 -1 O GLN B 125 N THR B 122 LINK C HIS A 96 N MSE A 97 1555 1555 1.31 LINK C MSE A 97 N LYS A 98 1555 1555 1.32 LINK C LEU A 123 N MSE A 124 1555 1555 1.32 LINK C MSE A 124 N GLN A 125 1555 1555 1.34 LINK C ASP A 223 N MSE A 224 1555 1555 1.32 LINK C MSE A 224 N THR A 225 1555 1555 1.33 LINK C ASN A 291 N MSE A 292 1555 1555 1.33 LINK C MSE A 292 N ALA A 293 1555 1555 1.34 LINK C ALA A 293 N MSE A 294 1555 1555 1.33 LINK C MSE A 294 N ASN A 295 1555 1555 1.34 LINK C HIS B 96 N MSE B 97 1555 1555 1.34 LINK C MSE B 97 N LYS B 98 1555 1555 1.32 LINK C LEU B 123 N MSE B 124 1555 1555 1.34 LINK C MSE B 124 N GLN B 125 1555 1555 1.32 LINK C LYS B 187 N MSE B 188 1555 1555 1.32 LINK C MSE B 188 N HIS B 189 1555 1555 1.32 LINK C ASP B 223 N MSE B 224 1555 1555 1.32 LINK C MSE B 224 N THR B 225 1555 1555 1.34 LINK C ASN B 291 N MSE B 292 1555 1555 1.32 LINK C MSE B 292 N ALA B 293 1555 1555 1.33 LINK C ALA B 293 N MSE B 294 1555 1555 1.32 LINK C MSE B 294 N ASN B 295 1555 1555 1.33 LINK O ILE A 69 NA NA A 304 1555 1555 2.89 LINK O GLU A 70 NA NA A 304 1555 1555 2.81 LINK O GLY A 72 NA NA A 304 1555 1555 2.41 LINK O GLU A 74 NA NA A 304 1555 1555 2.36 LINK OE2 GLU A 79 NA NA A 304 1555 1555 2.66 LINK O ILE B 69 NA NA B 304 1555 1555 2.77 LINK O GLU B 70 NA NA B 304 1555 1555 2.81 LINK O GLY B 72 NA NA B 304 1555 1555 2.73 LINK O GLU B 74 NA NA B 304 1555 1555 2.43 LINK OE2 GLU B 79 NA NA B 304 1555 1555 2.53 LINK NA NA B 304 O HOH B 322 1555 1555 2.55 SITE 1 AC1 7 ILE A 50 GLY A 53 SER A 57 ILE B 50 SITE 2 AC1 7 GLY B 53 TYR B 54 SER B 57 SITE 1 AC2 5 ILE A 69 GLU A 70 GLY A 72 GLU A 74 SITE 2 AC2 5 GLU A 79 SITE 1 AC3 1 ASN A 273 SITE 1 AC4 9 HIS B 121 ASP B 177 SER B 178 LEU B 180 SITE 2 AC4 9 PRO B 182 ASN B 286 ASN B 291 HOH B 339 SITE 3 AC4 9 HOH B 341 SITE 1 AC5 6 ILE B 69 GLU B 70 GLY B 72 GLU B 74 SITE 2 AC5 6 GLU B 79 HOH B 322 CRYST1 62.595 85.525 192.860 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 0.015976 0.000000 0.000000 0.00000 SCALE2 0.000000 0.011692 0.000000 0.00000 SCALE3 0.000000 0.000000 0.005185 0.00000 CONECT 468 4621 CONECT 476 4621 CONECT 494 4621 CONECT 505 4621 CONECT 549 4621 CONECT 675 683 CONECT 683 675 684 CONECT 684 683 685 687 CONECT 685 684 686 691 CONECT 686 685 CONECT 687 684 688 CONECT 688 687 689 CONECT 689 688 690 CONECT 690 689 CONECT 691 685 CONECT 907 913 CONECT 913 907 914 CONECT 914 913 915 917 CONECT 915 914 916 921 CONECT 916 915 CONECT 917 914 918 CONECT 918 917 919 CONECT 919 918 920 CONECT 920 919 CONECT 921 915 CONECT 1571 1577 CONECT 1577 1571 1578 CONECT 1578 1577 1579 1581 CONECT 1579 1578 1580 1585 CONECT 1580 1579 CONECT 1581 1578 1582 CONECT 1582 1581 1583 CONECT 1583 1582 1584 CONECT 1584 1583 CONECT 1585 1579 CONECT 2145 2151 CONECT 2151 2145 2152 CONECT 2152 2151 2153 2155 CONECT 2153 2152 2154 2159 CONECT 2154 2153 CONECT 2155 2152 2156 CONECT 2156 2155 2157 CONECT 2157 2156 2158 CONECT 2158 2157 CONECT 2159 2153 CONECT 2161 2164 CONECT 2164 2161 2165 CONECT 2165 2164 2166 2168 CONECT 2166 2165 2167 2172 CONECT 2167 2166 CONECT 2168 2165 2169 CONECT 2169 2168 2170 CONECT 2170 2169 2171 CONECT 2171 2170 CONECT 2172 2166 CONECT 2721 4629 CONECT 2729 4629 CONECT 2747 4629 CONECT 2758 4629 CONECT 2802 4629 CONECT 2928 2936 CONECT 2936 2928 2937 CONECT 2937 2936 2938 2940 CONECT 2938 2937 2939 2944 CONECT 2939 2938 CONECT 2940 2937 2941 CONECT 2941 2940 2942 CONECT 2942 2941 2943 CONECT 2943 2942 CONECT 2944 2938 CONECT 3160 3166 CONECT 3166 3160 3167 CONECT 3167 3166 3168 3170 CONECT 3168 3167 3169 3174 CONECT 3169 3168 CONECT 3170 3167 3171 CONECT 3171 3170 3172 CONECT 3172 3171 3173 CONECT 3173 3172 CONECT 3174 3168 CONECT 3671 3678 CONECT 3678 3671 3679 CONECT 3679 3678 3680 3682 CONECT 3680 3679 3681 3686 CONECT 3681 3680 CONECT 3682 3679 3683 CONECT 3683 3682 3684 CONECT 3684 3683 3685 CONECT 3685 3684 CONECT 3686 3680 CONECT 3978 3984 CONECT 3984 3978 3985 CONECT 3985 3984 3986 3988 CONECT 3986 3985 3987 3992 CONECT 3987 3986 CONECT 3988 3985 3989 CONECT 3989 3988 3990 CONECT 3990 3989 3991 CONECT 3991 3990 CONECT 3992 3986 CONECT 4552 4558 CONECT 4558 4552 4559 CONECT 4559 4558 4560 4562 CONECT 4560 4559 4561 4566 CONECT 4561 4560 CONECT 4562 4559 4563 CONECT 4563 4562 4564 CONECT 4564 4563 4565 CONECT 4565 4564 CONECT 4566 4560 CONECT 4568 4571 CONECT 4571 4568 4572 CONECT 4572 4571 4573 4575 CONECT 4573 4572 4574 4579 CONECT 4574 4573 CONECT 4575 4572 4576 CONECT 4576 4575 4577 CONECT 4577 4576 4578 CONECT 4578 4577 CONECT 4579 4573 CONECT 4615 4616 4617 CONECT 4616 4615 CONECT 4617 4615 4618 4619 CONECT 4618 4617 CONECT 4619 4617 4620 CONECT 4620 4619 CONECT 4621 468 476 494 505 CONECT 4621 549 CONECT 4623 4624 4625 CONECT 4624 4623 CONECT 4625 4623 4626 4627 CONECT 4626 4625 CONECT 4627 4625 4628 CONECT 4628 4627 CONECT 4629 2721 2729 2747 2758 CONECT 4629 2802 4703 CONECT 4703 4629 MASTER 394 0 16 16 4 0 10 6 4731 2 137 46 END