HEADER PROTEIN TRANSPORT 30-MAR-14 4PZG TITLE CRYSTAL STRUCTURE OF HUMAN SORTING NEXIN 10 (SNX10) COMPND MOL_ID: 1; COMPND 2 MOLECULE: SORTING NEXIN-10; COMPND 3 CHAIN: A, B; COMPND 4 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: SNX10; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS SORTING NEXIN, PROTEIN TRANSPORT, PHOX-HOMOLOGY DOMAIN EXPDTA X-RAY DIFFRACTION AUTHOR T.XU,J.XU,Q.WANG,J.LIU REVDAT 3 20-NOV-24 4PZG 1 REMARK SEQADV HETSYN REVDAT 2 03-DEC-14 4PZG 1 JRNL REVDAT 1 24-SEP-14 4PZG 0 JRNL AUTH T.XU,J.XU,Y.YE,Q.WANG,X.SHU,D.PEI,J.LIU JRNL TITL STRUCTURE OF HUMAN SNX10 REVEALS INSIGHTS INTO ITS ROLE IN JRNL TITL 2 HUMAN AUTOSOMAL RECESSIVE OSTEOPETROSIS. JRNL REF PROTEINS V. 82 3483 2014 JRNL REFN ISSN 0887-3585 JRNL PMID 25212774 JRNL DOI 10.1002/PROT.24689 REMARK 2 REMARK 2 RESOLUTION. 2.80 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.7.0029 REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN REMARK 3 REMARK 3 REFINEMENT TARGET : MAXIMUM LIKELIHOOD REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.80 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 49.45 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 98.7 REMARK 3 NUMBER OF REFLECTIONS : 25133 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) : 0.197 REMARK 3 R VALUE (WORKING SET) : 0.194 REMARK 3 FREE R VALUE : 0.237 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 1277 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) : 2.80 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.87 REMARK 3 REFLECTION IN BIN (WORKING SET) : 1612 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 92.50 REMARK 3 BIN R VALUE (WORKING SET) : 0.3400 REMARK 3 BIN FREE R VALUE SET COUNT : 102 REMARK 3 BIN FREE R VALUE : 0.3700 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2558 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 87 REMARK 3 SOLVENT ATOMS : 15 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 42.05 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 1.14000 REMARK 3 B22 (A**2) : 1.14000 REMARK 3 B33 (A**2) : -3.69000 REMARK 3 B12 (A**2) : 1.14000 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): 0.250 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.227 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.164 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 8.622 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.929 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.894 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 2687 ; 0.019 ; 0.019 REMARK 3 BOND LENGTHS OTHERS (A): 2531 ; 0.006 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 3592 ; 1.970 ; 1.950 REMARK 3 BOND ANGLES OTHERS (DEGREES): 5778 ; 1.255 ; 3.001 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 300 ; 7.387 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 150 ;37.470 ;23.200 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 480 ;19.942 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 28 ;21.886 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 374 ; 0.102 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 3008 ; 0.010 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 696 ; 0.005 ; 0.020 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): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL 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 NCS TYPE: LOCAL REMARK 3 NUMBER OF DIFFERENT NCS PAIRS : 1 REMARK 3 GROUP CHAIN1 RANGE CHAIN2 RANGE COUNT RMS WEIGHT REMARK 3 1 A 8 156 B 8 156 8806 0.150 0.050 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 4PZG COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 04-APR-14. REMARK 100 THE DEPOSITION ID IS D_1000085412. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 13-MAR-14 REMARK 200 TEMPERATURE (KELVIN) : NULL REMARK 200 PH : 7.0 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SSRF REMARK 200 BEAMLINE : BL17U REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9792 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 315 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : NULL REMARK 200 DATA SCALING SOFTWARE : AIMLESS 0.1.29 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 25144 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.800 REMARK 200 RESOLUTION RANGE LOW (A) : 49.450 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 98.7 REMARK 200 DATA REDUNDANCY : 6.500 REMARK 200 R MERGE (I) : 0.13600 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 10.5000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.80 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.95 REMARK 200 COMPLETENESS FOR SHELL (%) : 94.6 REMARK 200 DATA REDUNDANCY IN SHELL : 3.80 REMARK 200 R MERGE FOR SHELL (I) : 0.67400 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 2.200 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: NULL REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 76.53 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 5.24 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 4 M SODIUM NITRATE, 0.1 M BIS-TRIS REMARK 280 PROPANE PH 7.0, VAPOR DIFFUSION, TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 32 2 1 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 Y,X,-Z REMARK 290 5555 X-Y,-Y,-Z+1/3 REMARK 290 6555 -X,-X+Y,-Z+2/3 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 28.22000 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 14.11000 REMARK 290 SMTRY1 4 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 4 0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 5 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 5 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 14.11000 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 28.22000 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: 4370 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 17930 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: 0.0 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 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 N NO3 A 302 LIES ON A SPECIAL POSITION. REMARK 375 O2 NO3 A 302 LIES ON A SPECIAL POSITION. REMARK 375 N NO3 A 305 LIES ON A SPECIAL POSITION. REMARK 375 O2 NO3 A 305 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 MET A 1 REMARK 465 PHE A 2 REMARK 465 PRO A 3 REMARK 465 GLU A 4 REMARK 465 GLN A 5 REMARK 465 GLN A 6 REMARK 465 LYS A 7 REMARK 465 ASP A 160 REMARK 465 GLU A 161 REMARK 465 GLU A 162 REMARK 465 GLY A 163 REMARK 465 LYS A 164 REMARK 465 LYS A 165 REMARK 465 GLU A 166 REMARK 465 ASN A 167 REMARK 465 ASP A 168 REMARK 465 ILE A 169 REMARK 465 ASP A 170 REMARK 465 TYR A 171 REMARK 465 ASP A 172 REMARK 465 SER A 173 REMARK 465 GLU A 174 REMARK 465 SER A 175 REMARK 465 SER A 176 REMARK 465 SER A 177 REMARK 465 SER A 178 REMARK 465 GLY A 179 REMARK 465 LEU A 180 REMARK 465 GLY A 181 REMARK 465 HIS A 182 REMARK 465 SER A 183 REMARK 465 SER A 184 REMARK 465 ASP A 185 REMARK 465 ASP A 186 REMARK 465 SER A 187 REMARK 465 SER A 188 REMARK 465 SER A 189 REMARK 465 HIS A 190 REMARK 465 GLY A 191 REMARK 465 CYS A 192 REMARK 465 LYS A 193 REMARK 465 VAL A 194 REMARK 465 ASN A 195 REMARK 465 THR A 196 REMARK 465 ALA A 197 REMARK 465 PRO A 198 REMARK 465 GLN A 199 REMARK 465 GLU A 200 REMARK 465 SER A 201 REMARK 465 LEU A 202 REMARK 465 GLU A 203 REMARK 465 HIS A 204 REMARK 465 HIS A 205 REMARK 465 HIS A 206 REMARK 465 HIS A 207 REMARK 465 HIS A 208 REMARK 465 HIS A 209 REMARK 465 MET B 1 REMARK 465 PHE B 2 REMARK 465 PRO B 3 REMARK 465 GLU B 4 REMARK 465 GLN B 5 REMARK 465 GLN B 6 REMARK 465 LYS B 7 REMARK 465 GLU B 158 REMARK 465 GLU B 159 REMARK 465 ASP B 160 REMARK 465 GLU B 161 REMARK 465 GLU B 162 REMARK 465 GLY B 163 REMARK 465 LYS B 164 REMARK 465 LYS B 165 REMARK 465 GLU B 166 REMARK 465 ASN B 167 REMARK 465 ASP B 168 REMARK 465 ILE B 169 REMARK 465 ASP B 170 REMARK 465 TYR B 171 REMARK 465 ASP B 172 REMARK 465 SER B 173 REMARK 465 GLU B 174 REMARK 465 SER B 175 REMARK 465 SER B 176 REMARK 465 SER B 177 REMARK 465 SER B 178 REMARK 465 GLY B 179 REMARK 465 LEU B 180 REMARK 465 GLY B 181 REMARK 465 HIS B 182 REMARK 465 SER B 183 REMARK 465 SER B 184 REMARK 465 ASP B 185 REMARK 465 ASP B 186 REMARK 465 SER B 187 REMARK 465 SER B 188 REMARK 465 SER B 189 REMARK 465 HIS B 190 REMARK 465 GLY B 191 REMARK 465 CYS B 192 REMARK 465 LYS B 193 REMARK 465 VAL B 194 REMARK 465 ASN B 195 REMARK 465 THR B 196 REMARK 465 ALA B 197 REMARK 465 PRO B 198 REMARK 465 GLN B 199 REMARK 465 GLU B 200 REMARK 465 SER B 201 REMARK 465 LEU B 202 REMARK 465 GLU B 203 REMARK 465 HIS B 204 REMARK 465 HIS B 205 REMARK 465 HIS B 206 REMARK 465 HIS B 207 REMARK 465 HIS B 208 REMARK 465 HIS B 209 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 N LYS B 79 O2 NO3 B 302 2.05 REMARK 500 NH1 ARG B 53 O1 NO3 B 304 2.06 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 TRP A 59 CB TRP A 59 CG -0.125 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 ARG A 52 NE - CZ - NH1 ANGL. DEV. = 3.0 DEGREES REMARK 500 LEU A 69 CA - CB - CG ANGL. DEV. = 15.1 DEGREES REMARK 500 ARG A 103 NE - CZ - NH1 ANGL. DEV. = 3.3 DEGREES REMARK 500 ARG B 94 NE - CZ - NH1 ANGL. DEV. = 5.8 DEGREES REMARK 500 ARG B 94 NE - CZ - NH2 ANGL. DEV. = -4.6 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 HIS A 27 23.55 90.85 REMARK 500 PRO A 77 -177.30 -69.06 REMARK 500 MET A 85 -9.34 -59.82 REMARK 500 GLU A 158 -91.77 90.02 REMARK 500 ASP B 24 -41.67 -18.17 REMARK 500 PHE B 25 -137.71 -86.97 REMARK 500 TRP B 26 32.50 -92.50 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: NON-CIS, NON-TRANS REMARK 500 REMARK 500 THE FOLLOWING PEPTIDE BONDS DEVIATE SIGNIFICANTLY FROM BOTH REMARK 500 CIS AND TRANS CONFORMATION. CIS BONDS, IF ANY, ARE LISTED REMARK 500 ON CISPEP RECORDS. TRANS IS DEFINED AS 180 +/- 30 AND REMARK 500 CIS IS DEFINED AS 0 +/- 30 DEGREES. REMARK 500 MODEL OMEGA REMARK 500 ASP B 24 PHE B 25 -147.50 REMARK 500 REMARK 500 REMARK: NULL REMARK 610 REMARK 610 MISSING HETEROATOM REMARK 610 THE FOLLOWING RESIDUES HAVE MISSING ATOMS (M=MODEL NUMBER; REMARK 610 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 610 I=INSERTION CODE): REMARK 610 M RES C SSEQI REMARK 610 PE5 A 306 REMARK 610 PE5 A 307 REMARK 610 PE5 A 308 REMARK 610 PE5 A 309 REMARK 610 PE5 A 310 REMARK 610 PE5 B 307 REMARK 610 PE5 B 308 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NO3 A 301 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NO3 A 302 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NO3 A 303 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NO3 A 304 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NO3 A 305 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PE5 A 306 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PE5 A 307 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PE5 A 308 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PE5 A 309 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PE5 A 310 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NO3 B 301 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NO3 B 302 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NO3 B 303 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NO3 B 304 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NO3 B 305 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NO3 B 306 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PE5 B 307 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PE5 B 308 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 4ON3 RELATED DB: PDB DBREF 4PZG A 1 201 UNP Q9Y5X0 SNX10_HUMAN 1 201 DBREF 4PZG B 1 201 UNP Q9Y5X0 SNX10_HUMAN 1 201 SEQADV 4PZG LEU A 202 UNP Q9Y5X0 EXPRESSION TAG SEQADV 4PZG GLU A 203 UNP Q9Y5X0 EXPRESSION TAG SEQADV 4PZG HIS A 204 UNP Q9Y5X0 EXPRESSION TAG SEQADV 4PZG HIS A 205 UNP Q9Y5X0 EXPRESSION TAG SEQADV 4PZG HIS A 206 UNP Q9Y5X0 EXPRESSION TAG SEQADV 4PZG HIS A 207 UNP Q9Y5X0 EXPRESSION TAG SEQADV 4PZG HIS A 208 UNP Q9Y5X0 EXPRESSION TAG SEQADV 4PZG HIS A 209 UNP Q9Y5X0 EXPRESSION TAG SEQADV 4PZG LEU B 202 UNP Q9Y5X0 EXPRESSION TAG SEQADV 4PZG GLU B 203 UNP Q9Y5X0 EXPRESSION TAG SEQADV 4PZG HIS B 204 UNP Q9Y5X0 EXPRESSION TAG SEQADV 4PZG HIS B 205 UNP Q9Y5X0 EXPRESSION TAG SEQADV 4PZG HIS B 206 UNP Q9Y5X0 EXPRESSION TAG SEQADV 4PZG HIS B 207 UNP Q9Y5X0 EXPRESSION TAG SEQADV 4PZG HIS B 208 UNP Q9Y5X0 EXPRESSION TAG SEQADV 4PZG HIS B 209 UNP Q9Y5X0 EXPRESSION TAG SEQRES 1 A 209 MET PHE PRO GLU GLN GLN LYS GLU GLU PHE VAL SER VAL SEQRES 2 A 209 TRP VAL ARG ASP PRO ARG ILE GLN LYS GLU ASP PHE TRP SEQRES 3 A 209 HIS SER TYR ILE ASP TYR GLU ILE CYS ILE HIS THR ASN SEQRES 4 A 209 SER MET CYS PHE THR MET LYS THR SER CYS VAL ARG ARG SEQRES 5 A 209 ARG TYR ARG GLU PHE VAL TRP LEU ARG GLN ARG LEU GLN SEQRES 6 A 209 SER ASN ALA LEU LEU VAL GLN LEU PRO GLU LEU PRO SER SEQRES 7 A 209 LYS ASN LEU PHE PHE ASN MET ASN ASN ARG GLN HIS VAL SEQRES 8 A 209 ASP GLN ARG ARG GLN GLY LEU GLU ASP PHE LEU ARG LYS SEQRES 9 A 209 VAL LEU GLN ASN ALA LEU LEU LEU SER ASP SER SER LEU SEQRES 10 A 209 HIS LEU PHE LEU GLN SER HIS LEU ASN SER GLU ASP ILE SEQRES 11 A 209 GLU ALA CYS VAL SER GLY GLN THR LYS TYR SER VAL GLU SEQRES 12 A 209 GLU ALA ILE HIS LYS PHE ALA LEU MET ASN ARG ARG PHE SEQRES 13 A 209 PRO GLU GLU ASP GLU GLU GLY LYS LYS GLU ASN ASP ILE SEQRES 14 A 209 ASP TYR ASP SER GLU SER SER SER SER GLY LEU GLY HIS SEQRES 15 A 209 SER SER ASP ASP SER SER SER HIS GLY CYS LYS VAL ASN SEQRES 16 A 209 THR ALA PRO GLN GLU SER LEU GLU HIS HIS HIS HIS HIS SEQRES 17 A 209 HIS SEQRES 1 B 209 MET PHE PRO GLU GLN GLN LYS GLU GLU PHE VAL SER VAL SEQRES 2 B 209 TRP VAL ARG ASP PRO ARG ILE GLN LYS GLU ASP PHE TRP SEQRES 3 B 209 HIS SER TYR ILE ASP TYR GLU ILE CYS ILE HIS THR ASN SEQRES 4 B 209 SER MET CYS PHE THR MET LYS THR SER CYS VAL ARG ARG SEQRES 5 B 209 ARG TYR ARG GLU PHE VAL TRP LEU ARG GLN ARG LEU GLN SEQRES 6 B 209 SER ASN ALA LEU LEU VAL GLN LEU PRO GLU LEU PRO SER SEQRES 7 B 209 LYS ASN LEU PHE PHE ASN MET ASN ASN ARG GLN HIS VAL SEQRES 8 B 209 ASP GLN ARG ARG GLN GLY LEU GLU ASP PHE LEU ARG LYS SEQRES 9 B 209 VAL LEU GLN ASN ALA LEU LEU LEU SER ASP SER SER LEU SEQRES 10 B 209 HIS LEU PHE LEU GLN SER HIS LEU ASN SER GLU ASP ILE SEQRES 11 B 209 GLU ALA CYS VAL SER GLY GLN THR LYS TYR SER VAL GLU SEQRES 12 B 209 GLU ALA ILE HIS LYS PHE ALA LEU MET ASN ARG ARG PHE SEQRES 13 B 209 PRO GLU GLU ASP GLU GLU GLY LYS LYS GLU ASN ASP ILE SEQRES 14 B 209 ASP TYR ASP SER GLU SER SER SER SER GLY LEU GLY HIS SEQRES 15 B 209 SER SER ASP ASP SER SER SER HIS GLY CYS LYS VAL ASN SEQRES 16 B 209 THR ALA PRO GLN GLU SER LEU GLU HIS HIS HIS HIS HIS SEQRES 17 B 209 HIS HET NO3 A 301 4 HET NO3 A 302 4 HET NO3 A 303 4 HET NO3 A 304 4 HET NO3 A 305 4 HET PE5 A 306 5 HET PE5 A 307 4 HET PE5 A 308 13 HET PE5 A 309 5 HET PE5 A 310 4 HET NO3 B 301 4 HET NO3 B 302 4 HET NO3 B 303 4 HET NO3 B 304 4 HET NO3 B 305 4 HET NO3 B 306 4 HET PE5 B 307 6 HET PE5 B 308 6 HETNAM NO3 NITRATE ION HETNAM PE5 3,6,9,12,15,18,21,24-OCTAOXAHEXACOSAN-1-OL HETSYN PE5 2-(2-{2-[2-(2-{2-[2-(2-ETHOXY-ETHOXY)-ETHOXY]-ETHOXY}- HETSYN 2 PE5 ETHOXY)-ETHOXY]-ETHOXY}-ETHOXY)-ETHANOL; POLYETHYLENE HETSYN 3 PE5 GLYCOL PEG400 FORMUL 3 NO3 11(N O3 1-) FORMUL 8 PE5 7(C18 H38 O9) FORMUL 21 HOH *15(H2 O) HELIX 1 1 ARG A 53 ALA A 68 1 16 HELIX 2 2 LYS A 79 PHE A 83 5 5 HELIX 3 3 ASN A 87 GLN A 107 1 21 HELIX 4 4 ASN A 108 SER A 113 1 6 HELIX 5 5 ASP A 114 SER A 123 1 10 HELIX 6 6 ASN A 126 SER A 135 1 10 HELIX 7 7 SER A 141 ARG A 154 1 14 HELIX 8 8 TYR B 54 ALA B 68 1 15 HELIX 9 9 ASN B 87 GLN B 107 1 21 HELIX 10 10 ASN B 108 SER B 113 1 6 HELIX 11 11 ASP B 114 SER B 123 1 10 HELIX 12 12 ASN B 126 SER B 135 1 10 HELIX 13 13 SER B 141 ARG B 154 1 14 SHEET 1 A 3 VAL A 11 GLN A 21 0 SHEET 2 A 3 TYR A 29 THR A 38 -1 O GLU A 33 N ARG A 16 SHEET 3 A 3 THR A 47 ARG A 52 -1 O VAL A 50 N ILE A 34 SHEET 1 B 3 VAL B 11 GLU B 23 0 SHEET 2 B 3 HIS B 27 THR B 38 -1 O TYR B 29 N GLN B 21 SHEET 3 B 3 THR B 47 ARG B 53 -1 O VAL B 50 N ILE B 34 SSBOND 1 CYS A 35 CYS A 49 1555 1555 2.20 SSBOND 2 CYS B 35 CYS B 49 1555 1555 2.20 SITE 1 AC1 8 MET A 45 LYS A 46 THR A 47 ARG A 154 SITE 2 AC1 8 MET B 45 LYS B 46 THR B 47 ARG B 154 SITE 1 AC2 3 ASN A 84 ASN A 87 HIS A 90 SITE 1 AC3 5 ILE A 30 ARG A 53 TYR A 54 ARG A 55 SITE 2 AC3 5 ASN A 80 SITE 1 AC4 5 SER A 28 LYS A 79 ASN A 80 LEU A 81 SITE 2 AC4 5 PE5 A 308 SITE 1 AC5 2 ARG A 61 GLN A 65 SITE 1 AC6 7 THR A 47 SER A 48 CYS A 49 ASN A 153 SITE 2 AC6 7 ARG A 154 ARG B 154 PHE B 156 SITE 1 AC7 3 HIS A 27 ARG A 55 TRP A 59 SITE 1 AC8 5 SER A 28 ASN A 80 LEU A 81 PHE A 83 SITE 2 AC8 5 NO3 A 304 SITE 1 AC9 4 GLU A 75 LEU A 76 SER A 78 PE5 A 310 SITE 1 BC1 4 TRP A 26 ARG A 61 LEU A 76 PE5 A 309 SITE 1 BC2 7 TYR B 54 ARG B 55 ASN B 80 THR B 138 SITE 2 BC2 7 LYS B 139 TYR B 140 NO3 B 304 SITE 1 BC3 6 TYR B 54 PRO B 77 SER B 78 LYS B 79 SITE 2 BC3 6 ASN B 80 ARG B 94 SITE 1 BC4 6 TYR B 29 ILE B 30 PHE B 83 MET B 85 SITE 2 BC4 6 ARG B 94 NO3 B 304 SITE 1 BC5 5 ARG B 53 TYR B 54 ARG B 55 NO3 B 301 SITE 2 BC5 5 NO3 B 303 SITE 1 BC6 6 ALA B 68 LEU B 69 LEU B 70 ASN B 86 SITE 2 BC6 6 ASN B 87 ARG B 88 SITE 1 BC7 4 LEU B 81 PHE B 82 HIS B 124 MET B 152 SITE 1 BC8 4 ARG B 61 GLU B 75 LEU B 76 LYS B 139 SITE 1 BC9 4 ASN A 39 GLU B 143 HIS B 147 LYS B 148 CRYST1 205.859 205.859 42.330 90.00 90.00 120.00 P 32 2 1 12 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 0.004858 0.002805 0.000000 0.00000 SCALE2 0.000000 0.005609 0.000000 0.00000 SCALE3 0.000000 0.000000 0.023624 0.00000