HEADER SUGAR BINDING PROTEIN 30-SEP-10 3P1U TITLE CRYSTAL STRUCTURE OF A SUSD HOMOLOG (BDI_0600) FROM PARABACTEROIDES TITLE 2 DISTASONIS ATCC 8503 AT 2.05 A RESOLUTION COMPND MOL_ID: 1; COMPND 2 MOLECULE: SUSD HOMOLOG; COMPND 3 CHAIN: A, B; COMPND 4 FRAGMENT: SEQUENCE DATABASE RESIDUES 26-553; COMPND 5 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: PARABACTEROIDES DISTASONIS ATCC 8503; SOURCE 3 ORGANISM_TAXID: 435591; SOURCE 4 STRAIN: DSM 20701 / NCTC 11152; SOURCE 5 ATCC: 8503; SOURCE 6 GENE: BDI_0600; SOURCE 7 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 8 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 9 EXPRESSION_SYSTEM_STRAIN: HK100; SOURCE 10 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 11 EXPRESSION_SYSTEM_PLASMID: SPEEDET KEYWDS STRUCTURAL GENOMICS, JOINT CENTER FOR STRUCTURAL GENOMICS, JCSG, KEYWDS 2 PROTEIN STRUCTURE INITIATIVE, PSI-BIOLOGY, SUGAR BINDING PROTEIN EXPDTA X-RAY DIFFRACTION AUTHOR JOINT CENTER FOR STRUCTURAL GENOMICS (JCSG) REVDAT 3 01-FEB-23 3P1U 1 REMARK SEQADV LINK REVDAT 2 20-JUL-11 3P1U 1 KEYWDS REVDAT 1 03-NOV-10 3P1U 0 JRNL AUTH JOINT CENTER FOR STRUCTURAL GENOMICS (JCSG) JRNL TITL CRYSTAL STRUCTURE OF A SUSD HOMOLOG (YP_001301998.1) FROM JRNL TITL 2 PARABACTEROIDES DISTASONIS ATCC 8503 AT 2.05 A RESOLUTION JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 2.05 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : BUSTER-TNT BUSTER 2.8.0 REMARK 3 AUTHORS : BRICOGNE,BLANC,BRANDL,FLENSBURG,KELLER, REMARK 3 : PACIOREK,ROVERSI,SHARFF,SMART,VONRHEIN, REMARK 3 : WOMACK,MATTHEWS,TEN EYCK,TRONRUD REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.05 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 28.70 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : NULL REMARK 3 NUMBER OF REFLECTIONS : 69269 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) : 0.244 REMARK 3 R VALUE (WORKING SET) : 0.243 REMARK 3 FREE R VALUE : 0.265 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.060 REMARK 3 FREE R VALUE TEST SET COUNT : 3503 REMARK 3 ESTIMATED ERROR OF FREE R VALUE : NULL REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 20 REMARK 3 BIN RESOLUTION RANGE HIGH (ANGSTROMS) : 2.05 REMARK 3 BIN RESOLUTION RANGE LOW (ANGSTROMS) : 2.10 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : NULL REMARK 3 REFLECTIONS IN BIN (WORKING + TEST SET) : 5083 REMARK 3 BIN R VALUE (WORKING + TEST SET) : 0.2027 REMARK 3 REFLECTIONS IN BIN (WORKING SET) : 4834 REMARK 3 BIN R VALUE (WORKING SET) : 0.2017 REMARK 3 BIN FREE R VALUE : 0.2216 REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : 4.90 REMARK 3 BIN FREE R VALUE TEST SET COUNT : 249 REMARK 3 ESTIMATED ERROR OF BIN FREE R VALUE : NULL REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 8073 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 5 REMARK 3 SOLVENT ATOMS : 592 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 16.65 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 18.77 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 1.63020 REMARK 3 B22 (A**2) : 1.63020 REMARK 3 B33 (A**2) : -3.26040 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 COORDINATE ERROR. REMARK 3 ESD FROM LUZZATI PLOT (A) : NULL REMARK 3 DPI (BLOW EQ-10) BASED ON R VALUE (A) : NULL REMARK 3 DPI (BLOW EQ-9) BASED ON FREE R VALUE (A) : NULL REMARK 3 DPI (CRUICKSHANK) BASED ON R VALUE (A) : NULL REMARK 3 DPI (CRUICKSHANK) BASED ON FREE R VALUE (A) : NULL REMARK 3 REMARK 3 REFERENCES: BLOW, D. (2002) ACTA CRYST D58, 792-797 REMARK 3 CRUICKSHANK, D.W.J. (1999) ACTA CRYST D55, 583-601 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.854 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.840 REMARK 3 REMARK 3 NUMBER OF GEOMETRIC FUNCTION TERMS DEFINED : 15 REMARK 3 TERM COUNT WEIGHT FUNCTION. REMARK 3 BOND LENGTHS : 8338 ; 2.000 ; HARMONIC REMARK 3 BOND ANGLES : 11343 ; 10.000 ; HARMONIC REMARK 3 TORSION ANGLES : 2866 ; 10.000 ; SINUSOIDAL REMARK 3 TRIGONAL CARBON PLANES : 233 ; 2.000 ; HARMONIC REMARK 3 GENERAL PLANES : 1216 ; 5.000 ; HARMONIC REMARK 3 ISOTROPIC THERMAL FACTORS : 8338 ; 20.000 ; HARMONIC REMARK 3 BAD NON-BONDED CONTACTS : NULL ; NULL ; NULL REMARK 3 IMPROPER TORSIONS : NULL ; NULL ; NULL REMARK 3 PSEUDOROTATION ANGLES : NULL ; NULL ; NULL REMARK 3 CHIRAL IMPROPER TORSION : 1085 ; 5.000 ; SEMIHARMONIC REMARK 3 SUM OF OCCUPANCIES : NULL ; NULL ; NULL REMARK 3 UTILITY DISTANCES : NULL ; NULL ; NULL REMARK 3 UTILITY ANGLES : NULL ; NULL ; NULL REMARK 3 UTILITY TORSION : NULL ; NULL ; NULL REMARK 3 IDEAL-DIST CONTACT TERM : 10979 ; 4.000 ; SEMIHARMONIC REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 BOND LENGTHS (A) : 0.010 REMARK 3 BOND ANGLES (DEGREES) : 0.37 REMARK 3 PEPTIDE OMEGA TORSION ANGLES (DEGREES) : 3.85 REMARK 3 OTHER TORSION ANGLES (DEGREES) : 13.57 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 2 REMARK 3 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: CHAIN A REMARK 3 ORIGIN FOR THE GROUP (A): -42.4473 13.0140 75.1758 REMARK 3 T TENSOR REMARK 3 T11: -0.0868 T22: -0.0585 REMARK 3 T33: -0.0542 T12: 0.0021 REMARK 3 T13: 0.0087 T23: 0.0234 REMARK 3 L TENSOR REMARK 3 L11: 0.2527 L22: 0.3714 REMARK 3 L33: 0.2603 L12: 0.0579 REMARK 3 L13: -0.0213 L23: -0.0252 REMARK 3 S TENSOR REMARK 3 S11: -0.0018 S12: 0.0112 S13: -0.0026 REMARK 3 S21: 0.0008 S22: -0.0027 S23: 0.0222 REMARK 3 S31: -0.0026 S32: -0.0458 S33: 0.0045 REMARK 3 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: CHAIN B REMARK 3 ORIGIN FOR THE GROUP (A): -43.6159 -8.6921 127.6560 REMARK 3 T TENSOR REMARK 3 T11: -0.0933 T22: -0.0809 REMARK 3 T33: -0.0385 T12: -0.0040 REMARK 3 T13: 0.0047 T23: 0.0247 REMARK 3 L TENSOR REMARK 3 L11: 0.3152 L22: 0.4956 REMARK 3 L33: 0.2410 L12: -0.0961 REMARK 3 L13: 0.0868 L23: -0.0773 REMARK 3 S TENSOR REMARK 3 S11: 0.0223 S12: 0.0020 S13: -0.0093 REMARK 3 S21: 0.0504 S22: 0.0119 S23: 0.0521 REMARK 3 S31: -0.0243 S32: -0.0104 S33: -0.0342 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: 1. A MET-INHIBITION PROTOCOL WAS USED REMARK 3 FOR SELENOMETHIONINE INCORPORATION DURING PROTEIN EXPRESSION. REMARK 3 THE OCCUPANCY OF THE SE ATOMS IN THE MSE RESIDUES WAS REDUCED TO REMARK 3 0.75 FOR THE REDUCED SCATTERING POWER DUE TO PARTIAL S-MET REMARK 3 INCORPORATION. 2. SULFATE FROM THE CRYSTALLIZATION BUFFER IS REMARK 3 MODELED INTO THE STRUCTURE. 3. ATOM RECORD CONTAINS SUM OF TLS REMARK 3 AND RESIDUAL B ANISOU RECORD CONTAINS SUM OF TLS AND RESIDUAL U REMARK 3 FACTORS. 4. LYS 64 ON THE A AND B SUBUNITS AND PRO 462 ON THE A REMARK 3 AND B SUBUNITS ARE RAMACHANDRAN OUTLIERS, BUT THEIR MODELING IS REMARK 3 SUPPORTED BY ELECTRON DENSITY. 5. THE R AND R-FREE VALUES ARE REMARK 3 ELEVATED COMPARED WITH OTHER STRUCTURES IN THE PDB REFINED AT REMARK 3 THE SAME RESOLUTION, AND THIS CAN LIKELY BE ATTRIBUTED TO REMARK 3 UNIDENTIFIED CRYSTAL DISORDERS THAT RESULT IN REDUCED DATA REMARK 3 QUALITY. 6. THE REFINEMENT WAS RESTRAINED AGAINST THE MAD PHASES. REMARK 4 REMARK 4 3P1U COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 06-OCT-10. REMARK 100 THE DEPOSITION ID IS D_1000061851. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 11-JUN-09 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 4.47 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SSRL REMARK 200 BEAMLINE : BL11-1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.91837,0.97916,0.97860 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MARMOSAIC 325 MM CCD REMARK 200 INTENSITY-INTEGRATION SOFTWARE : MOSFLM REMARK 200 DATA SCALING SOFTWARE : SCALA REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 69272 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.050 REMARK 200 RESOLUTION RANGE LOW (A) : 28.701 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 200 DATA REDUNDANCY : 5.700 REMARK 200 R MERGE (I) : 0.25200 REMARK 200 R SYM (I) : 0.25200 REMARK 200 FOR THE DATA SET : 7.3000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.05 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.10 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : 5.70 REMARK 200 R MERGE FOR SHELL (I) : 0.96500 REMARK 200 R SYM FOR SHELL (I) : 0.96500 REMARK 200 FOR SHELL : 0.800 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: MAD REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MAD REMARK 200 SOFTWARE USED: SOLVE REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 47.72 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.35 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 1.13M AMMONIUM SULFATE, 0.1M PHOSPHATE REMARK 280 -CITRATE PH 4.47, NANODROP, VAPOR DIFFUSION, SITTING DROP, REMARK 280 TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 6 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -Y,X-Y,Z REMARK 290 3555 -X+Y,-X,Z REMARK 290 4555 -X,-Y,Z REMARK 290 5555 Y,-X+Y,Z REMARK 290 6555 X-Y,X,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 -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 0.00000 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 0.00000 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 0.00000 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 0.00000 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 0.00000 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1, 2 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 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 350 REMARK 350 BIOMOLECULE: 2 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: MONOMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 APPLY THE FOLLOWING TO CHAINS: 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 GLY A 0 REMARK 465 ASN A 26 REMARK 465 GLU A 27 REMARK 465 ASN A 28 REMARK 465 PRO A 29 REMARK 465 ASP A 30 REMARK 465 LYS A 31 REMARK 465 PRO A 32 REMARK 465 THR A 33 REMARK 465 ASP A 34 REMARK 465 ASP A 35 REMARK 465 VAL A 36 REMARK 465 ASN A 37 REMARK 465 TYR A 38 REMARK 465 GLY B 0 REMARK 465 ASN B 26 REMARK 465 GLU B 27 REMARK 465 ASN B 28 REMARK 465 PRO B 29 REMARK 465 ASP B 30 REMARK 465 LYS B 31 REMARK 465 PRO B 32 REMARK 465 THR B 33 REMARK 465 ASP B 34 REMARK 465 ASP B 35 REMARK 465 VAL B 36 REMARK 465 ASN B 37 REMARK 465 TYR B 38 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 ASN A 39 CG OD1 ND2 REMARK 470 MSE A 40 CG SE CE REMARK 470 GLU A 116 CG CD OE1 OE2 REMARK 470 LYS A 117 CE NZ REMARK 470 ASP A 118 CG OD1 OD2 REMARK 470 LYS A 119 CG CD CE NZ REMARK 470 LYS A 162 CE NZ REMARK 470 ASP A 176 CG OD1 OD2 REMARK 470 LYS A 200 CG CD CE NZ REMARK 470 GLN A 298 CG CD OE1 NE2 REMARK 470 VAL A 301 CG1 CG2 REMARK 470 TYR A 367 CG CD1 CD2 CE1 CE2 CZ OH REMARK 470 GLN A 442 CG CD OE1 NE2 REMARK 470 LYS A 526 CE NZ REMARK 470 LYS A 553 CD CE REMARK 470 ASN B 39 CG OD1 ND2 REMARK 470 MSE B 40 CG SE CE REMARK 470 LYS B 117 CG CD CE NZ REMARK 470 LYS B 119 CG CD CE NZ REMARK 470 SER B 185 OG REMARK 470 GLN B 298 CG CD OE1 NE2 REMARK 470 LYS B 429 CE NZ REMARK 470 GLN B 442 CG CD OE1 NE2 REMARK 470 LYS B 524 CD CE NZ REMARK 470 LYS B 553 CG CD CE NZ 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 ILE A 54 77.11 61.44 REMARK 500 ASN A 58 -75.06 -112.80 REMARK 500 LYS A 64 -81.20 -91.90 REMARK 500 GLN A 67 -85.95 -138.88 REMARK 500 ASN A 290 -44.96 69.84 REMARK 500 LEU A 464 30.13 -98.69 REMARK 500 ASP A 487 104.23 -38.85 REMARK 500 ASN A 518 41.84 -142.28 REMARK 500 ILE B 54 76.00 61.77 REMARK 500 ASN B 58 -74.65 -113.10 REMARK 500 LYS B 64 -81.31 -91.83 REMARK 500 GLN B 67 -85.66 -138.88 REMARK 500 ASP B 118 88.14 -161.23 REMARK 500 ASN B 290 -45.13 70.18 REMARK 500 LEU B 464 32.32 -98.34 REMARK 500 ASP B 487 104.28 -38.75 REMARK 500 ASN B 518 41.72 -142.13 REMARK 500 REMARK 500 REMARK: NULL REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 B 554 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 394774 RELATED DB: TARGETDB REMARK 999 REMARK 999 SEQUENCE REMARK 999 THE CONSTRUCT (RESIDUES 26-553) WAS EXPRESSED WITH A PURIFICATION REMARK 999 TAG MGSDKIHHHHHHENLYFQG. THE TAG WAS REMOVED WITH TEV PROTEASE REMARK 999 LEAVING ONLY A GLYCINE (0) FOLLOWED BY THE TARGET SEQUENCE. DBREF 3P1U A 26 553 UNP A6L9L2 A6L9L2_PARD8 26 553 DBREF 3P1U B 26 553 UNP A6L9L2 A6L9L2_PARD8 26 553 SEQADV 3P1U GLY A 0 UNP A6L9L2 EXPRESSION TAG SEQADV 3P1U GLY B 0 UNP A6L9L2 EXPRESSION TAG SEQRES 1 A 529 GLY ASN GLU ASN PRO ASP LYS PRO THR ASP ASP VAL ASN SEQRES 2 A 529 TYR ASN MSE ASN GLU PRO ARG LEU ALA SER THR LEU ARG SEQRES 3 A 529 GLY GLY LEU ILE ILE GLU GLY ASN VAL GLU GLN ARG LEU SEQRES 4 A 529 LYS PRO LEU GLN ILE ASP PHE TYR SER GLN MSE THR VAL SEQRES 5 A 529 ASP GLY GLY GLY TRP GLY THR LYS ASN TYR ILE GLN ASP SEQRES 6 A 529 ASP GLU TRP ASN ASN LEU VAL TRP GLU GLU TYR LEU LYS SEQRES 7 A 529 GLN ILE ALA SER ILE ASN ILE VAL ILE ARG SER LEU THR SEQRES 8 A 529 GLU LYS ASP LYS ASP ALA TYR ALA ASN THR ILE ALA PHE SEQRES 9 A 529 ALA ARG ILE TRP ARG VAL TYR VAL HIS THR LEU ALA ALA SEQRES 10 A 529 ASP LYS PHE GLY PRO MSE PRO PHE PRO ALA TYR GLU ILE SEQRES 11 A 529 VAL GLU ALA ASN PRO PRO TYR LYS SER LEU LYS ASP ILE SEQRES 12 A 529 TYR ASP GLU TYR PHE ARG GLU LEU ASP ALA ALA ILE ASN SEQRES 13 A 529 GLY PHE ASN ASP SER ALA GLN PRO ILE PHE SER ASP ALA SEQRES 14 A 529 GLY ILE ASP LEU ILE TYR LYS ASN ASP VAL SER LYS TRP SEQRES 15 A 529 LYS ARG PHE ALA ASN SER LEU ARG LEU ARG LEU ALA VAL SEQRES 16 A 529 ARG LEU THR GLU VAL ASP GLN GLU LYS CYS ILE ALA GLU SEQRES 17 A 529 ALA ASN ALA ALA ILE SER SER PRO ALA GLY LEU ILE SER SEQRES 18 A 529 ASP LYS ALA ASP ASN ALA TYR MSE PRO PRO LYS ALA ASP SEQRES 19 A 529 GLY SER TRP GLY GLN ASP TYR ASN TYR THR MSE PHE GLN SEQRES 20 A 529 ILE THR TRP SER GLY PRO ILE CYS MSE SER LYS SER VAL SEQRES 21 A 529 GLU LYS LEU VAL THR ASN ILE GLY GLY VAL ALA TRP PRO SEQRES 22 A 529 GLN GLY VAL VAL ASN GLN THR SER GLY VAL ALA VAL SER SEQRES 23 A 529 SER VAL HIS PRO GLU LYS VAL ASP PRO ARG ALA PRO LYS SEQRES 24 A 529 ILE PHE GLN PRO GLY ILE GLU ASN GLY ASP TRP LYS GLY SEQRES 25 A 529 LEU VAL TYR GLY PRO LYS ALA GLU GLU ALA ASN THR GLY SEQRES 26 A 529 ILE TYR GLN SER LYS GLN CYS ALA GLU LEU GLY PHE ILE SEQRES 27 A 529 ILE LYS ASP GLY TYR PRO TYR LYS SER ARG PRO TYR ASP SEQRES 28 A 529 LEU PHE LEU SER GLU GLU VAL HIS PHE LEU LYS ALA GLU SEQRES 29 A 529 LEU TYR ALA ARG GLY PHE ILE ALA GLY ASP ALA LYS SER SEQRES 30 A 529 GLU TYR GLU ALA GLY VAL ARG ALA SER PHE ALA THR TRP SEQRES 31 A 529 GLY VAL THR SER GLU VAL ASP ASP TYR LEU THR SER THR SEQRES 32 A 529 GLU LYS ASN GLU ALA GLY THR SER ALA ARG TYR ASP ASP SEQRES 33 A 529 GLN GLN GLY ALA GLY ASN THR ALA LEU GLU LYS ILE ILE SEQRES 34 A 529 THR GLN LYS TYR ILE ALA GLY ILE PRO ASP LEU ALA GLN SEQRES 35 A 529 GLU GLY TRP ASN ASP LYS ARG ARG LEU ASN LEU PRO ARG SEQRES 36 A 529 LEU ASP VAL ALA VAL TYR ARG ASP GLN ALA VAL TYR ASN SEQRES 37 A 529 ASN ASN ASP LYS ASP ILE LEU LYS SER ALA ASN PHE ILE SEQRES 38 A 529 LYS ARG MSE ARG TYR PRO THR LYS GLU SER LEU ILE ASN SEQRES 39 A 529 ALA THR GLU TYR GLU LYS GLY LYS SER MSE LEU GLY GLY SEQRES 40 A 529 LYS GLY ASP ILE VAL SER THR PRO LEU TRP TRP ASP LYS SEQRES 41 A 529 ASN SER ASN TYR CYS THR SER SER LYS SEQRES 1 B 529 GLY ASN GLU ASN PRO ASP LYS PRO THR ASP ASP VAL ASN SEQRES 2 B 529 TYR ASN MSE ASN GLU PRO ARG LEU ALA SER THR LEU ARG SEQRES 3 B 529 GLY GLY LEU ILE ILE GLU GLY ASN VAL GLU GLN ARG LEU SEQRES 4 B 529 LYS PRO LEU GLN ILE ASP PHE TYR SER GLN MSE THR VAL SEQRES 5 B 529 ASP GLY GLY GLY TRP GLY THR LYS ASN TYR ILE GLN ASP SEQRES 6 B 529 ASP GLU TRP ASN ASN LEU VAL TRP GLU GLU TYR LEU LYS SEQRES 7 B 529 GLN ILE ALA SER ILE ASN ILE VAL ILE ARG SER LEU THR SEQRES 8 B 529 GLU LYS ASP LYS ASP ALA TYR ALA ASN THR ILE ALA PHE SEQRES 9 B 529 ALA ARG ILE TRP ARG VAL TYR VAL HIS THR LEU ALA ALA SEQRES 10 B 529 ASP LYS PHE GLY PRO MSE PRO PHE PRO ALA TYR GLU ILE SEQRES 11 B 529 VAL GLU ALA ASN PRO PRO TYR LYS SER LEU LYS ASP ILE SEQRES 12 B 529 TYR ASP GLU TYR PHE ARG GLU LEU ASP ALA ALA ILE ASN SEQRES 13 B 529 GLY PHE ASN ASP SER ALA GLN PRO ILE PHE SER ASP ALA SEQRES 14 B 529 GLY ILE ASP LEU ILE TYR LYS ASN ASP VAL SER LYS TRP SEQRES 15 B 529 LYS ARG PHE ALA ASN SER LEU ARG LEU ARG LEU ALA VAL SEQRES 16 B 529 ARG LEU THR GLU VAL ASP GLN GLU LYS CYS ILE ALA GLU SEQRES 17 B 529 ALA ASN ALA ALA ILE SER SER PRO ALA GLY LEU ILE SER SEQRES 18 B 529 ASP LYS ALA ASP ASN ALA TYR MSE PRO PRO LYS ALA ASP SEQRES 19 B 529 GLY SER TRP GLY GLN ASP TYR ASN TYR THR MSE PHE GLN SEQRES 20 B 529 ILE THR TRP SER GLY PRO ILE CYS MSE SER LYS SER VAL SEQRES 21 B 529 GLU LYS LEU VAL THR ASN ILE GLY GLY VAL ALA TRP PRO SEQRES 22 B 529 GLN GLY VAL VAL ASN GLN THR SER GLY VAL ALA VAL SER SEQRES 23 B 529 SER VAL HIS PRO GLU LYS VAL ASP PRO ARG ALA PRO LYS SEQRES 24 B 529 ILE PHE GLN PRO GLY ILE GLU ASN GLY ASP TRP LYS GLY SEQRES 25 B 529 LEU VAL TYR GLY PRO LYS ALA GLU GLU ALA ASN THR GLY SEQRES 26 B 529 ILE TYR GLN SER LYS GLN CYS ALA GLU LEU GLY PHE ILE SEQRES 27 B 529 ILE LYS ASP GLY TYR PRO TYR LYS SER ARG PRO TYR ASP SEQRES 28 B 529 LEU PHE LEU SER GLU GLU VAL HIS PHE LEU LYS ALA GLU SEQRES 29 B 529 LEU TYR ALA ARG GLY PHE ILE ALA GLY ASP ALA LYS SER SEQRES 30 B 529 GLU TYR GLU ALA GLY VAL ARG ALA SER PHE ALA THR TRP SEQRES 31 B 529 GLY VAL THR SER GLU VAL ASP ASP TYR LEU THR SER THR SEQRES 32 B 529 GLU LYS ASN GLU ALA GLY THR SER ALA ARG TYR ASP ASP SEQRES 33 B 529 GLN GLN GLY ALA GLY ASN THR ALA LEU GLU LYS ILE ILE SEQRES 34 B 529 THR GLN LYS TYR ILE ALA GLY ILE PRO ASP LEU ALA GLN SEQRES 35 B 529 GLU GLY TRP ASN ASP LYS ARG ARG LEU ASN LEU PRO ARG SEQRES 36 B 529 LEU ASP VAL ALA VAL TYR ARG ASP GLN ALA VAL TYR ASN SEQRES 37 B 529 ASN ASN ASP LYS ASP ILE LEU LYS SER ALA ASN PHE ILE SEQRES 38 B 529 LYS ARG MSE ARG TYR PRO THR LYS GLU SER LEU ILE ASN SEQRES 39 B 529 ALA THR GLU TYR GLU LYS GLY LYS SER MSE LEU GLY GLY SEQRES 40 B 529 LYS GLY ASP ILE VAL SER THR PRO LEU TRP TRP ASP LYS SEQRES 41 B 529 ASN SER ASN TYR CYS THR SER SER LYS MODRES 3P1U MSE A 40 MET SELENOMETHIONINE MODRES 3P1U MSE A 74 MET SELENOMETHIONINE MODRES 3P1U MSE A 147 MET SELENOMETHIONINE MODRES 3P1U MSE A 253 MET SELENOMETHIONINE MODRES 3P1U MSE A 269 MET SELENOMETHIONINE MODRES 3P1U MSE A 280 MET SELENOMETHIONINE MODRES 3P1U MSE A 508 MET SELENOMETHIONINE MODRES 3P1U MSE A 528 MET SELENOMETHIONINE MODRES 3P1U MSE B 40 MET SELENOMETHIONINE MODRES 3P1U MSE B 74 MET SELENOMETHIONINE MODRES 3P1U MSE B 147 MET SELENOMETHIONINE MODRES 3P1U MSE B 253 MET SELENOMETHIONINE MODRES 3P1U MSE B 269 MET SELENOMETHIONINE MODRES 3P1U MSE B 280 MET SELENOMETHIONINE MODRES 3P1U MSE B 508 MET SELENOMETHIONINE MODRES 3P1U MSE B 528 MET SELENOMETHIONINE HET MSE A 40 5 HET MSE A 74 8 HET MSE A 147 8 HET MSE A 253 8 HET MSE A 269 8 HET MSE A 280 8 HET MSE A 508 8 HET MSE A 528 8 HET MSE B 40 5 HET MSE B 74 8 HET MSE B 147 8 HET MSE B 253 8 HET MSE B 269 8 HET MSE B 280 8 HET MSE B 508 8 HET MSE B 528 8 HET SO4 B 554 5 HETNAM MSE SELENOMETHIONINE HETNAM SO4 SULFATE ION FORMUL 1 MSE 16(C5 H11 N O2 SE) FORMUL 3 SO4 O4 S 2- FORMUL 4 HOH *592(H2 O) HELIX 1 1 ASN A 41 ILE A 54 1 14 HELIX 2 2 ASN A 58 LYS A 64 1 7 HELIX 3 3 GLN A 67 GLN A 73 1 7 HELIX 4 4 TRP A 81 TYR A 86 5 6 HELIX 5 5 ASP A 89 LYS A 119 1 31 HELIX 6 6 TYR A 122 GLY A 145 1 24 HELIX 7 7 SER A 163 PHE A 182 1 20 HELIX 8 8 ASP A 192 ASP A 196 5 5 HELIX 9 9 ASP A 202 ARG A 220 1 19 HELIX 10 10 ASP A 225 SER A 239 1 15 HELIX 11 11 ASP A 246 ASN A 250 5 5 HELIX 12 12 ASN A 266 ILE A 272 1 7 HELIX 13 13 SER A 281 THR A 289 1 9 HELIX 14 14 ARG A 320 ILE A 324 1 5 HELIX 15 15 LYS A 342 ALA A 346 5 5 HELIX 16 16 THR A 348 CYS A 356 5 9 HELIX 17 17 LEU A 378 ARG A 392 1 15 HELIX 18 18 ASP A 398 TRP A 414 1 17 HELIX 19 19 VAL A 416 THR A 425 1 10 HELIX 20 20 THR A 447 ALA A 459 1 13 HELIX 21 21 LEU A 464 ASN A 476 1 13 HELIX 22 22 LYS A 500 PHE A 504 5 5 HELIX 23 23 LYS A 513 ASN A 518 1 6 HELIX 24 24 ASN A 518 GLY A 530 1 13 HELIX 25 25 MSE B 40 ILE B 54 1 15 HELIX 26 26 ASN B 58 LYS B 64 1 7 HELIX 27 27 GLN B 67 GLN B 73 1 7 HELIX 28 28 TRP B 81 TYR B 86 5 6 HELIX 29 29 ASP B 89 LYS B 119 1 31 HELIX 30 30 TYR B 122 GLY B 145 1 24 HELIX 31 31 SER B 163 PHE B 182 1 20 HELIX 32 32 ASP B 192 ASP B 196 5 5 HELIX 33 33 ASP B 202 ARG B 220 1 19 HELIX 34 34 ASP B 225 SER B 239 1 15 HELIX 35 35 ASP B 246 ASN B 250 5 5 HELIX 36 36 ASN B 266 ILE B 272 1 7 HELIX 37 37 SER B 281 THR B 289 1 9 HELIX 38 38 ARG B 320 ILE B 324 1 5 HELIX 39 39 LYS B 342 ALA B 346 5 5 HELIX 40 40 THR B 348 CYS B 356 5 9 HELIX 41 41 LEU B 378 ARG B 392 1 15 HELIX 42 42 ASP B 398 TRP B 414 1 17 HELIX 43 43 VAL B 416 THR B 425 1 10 HELIX 44 44 THR B 447 ALA B 459 1 13 HELIX 45 45 LEU B 464 ASN B 476 1 13 HELIX 46 46 LYS B 500 PHE B 504 5 5 HELIX 47 47 LYS B 513 ASN B 518 1 6 HELIX 48 48 ASN B 518 GLY B 530 1 13 SHEET 1 A 2 VAL A 76 ASP A 77 0 SHEET 2 A 2 ILE A 278 CYS A 279 -1 O CYS A 279 N VAL A 76 SHEET 1 B 2 MSE A 147 PRO A 148 0 SHEET 2 B 2 TYR A 161 LYS A 162 -1 O LYS A 162 N MSE A 147 SHEET 1 C 2 ALA A 251 MSE A 253 0 SHEET 2 C 2 TYR A 374 PHE A 377 -1 O TYR A 374 N MSE A 253 SHEET 1 D 2 PHE A 325 GLN A 326 0 SHEET 2 D 2 GLU A 358 LEU A 359 -1 O GLU A 358 N GLN A 326 SHEET 1 E 2 ILE A 363 LYS A 364 0 SHEET 2 E 2 TYR A 367 PRO A 368 -1 O TYR A 367 N LYS A 364 SHEET 1 F 2 VAL B 76 ASP B 77 0 SHEET 2 F 2 ILE B 278 CYS B 279 -1 O CYS B 279 N VAL B 76 SHEET 1 G 2 MSE B 147 PRO B 148 0 SHEET 2 G 2 TYR B 161 LYS B 162 -1 O LYS B 162 N MSE B 147 SHEET 1 H 2 ALA B 251 MSE B 253 0 SHEET 2 H 2 TYR B 374 PHE B 377 -1 O TYR B 374 N MSE B 253 SHEET 1 I 2 PHE B 325 GLN B 326 0 SHEET 2 I 2 GLU B 358 LEU B 359 -1 O GLU B 358 N GLN B 326 SHEET 1 J 2 ILE B 363 LYS B 364 0 SHEET 2 J 2 TYR B 367 PRO B 368 -1 O TYR B 367 N LYS B 364 LINK C ASN A 39 N MSE A 40 1555 1555 1.36 LINK C MSE A 40 N ASN A 41 1555 1555 1.34 LINK C GLN A 73 N MSE A 74 1555 1555 1.36 LINK C MSE A 74 N THR A 75 1555 1555 1.36 LINK C PRO A 146 N MSE A 147 1555 1555 1.33 LINK C MSE A 147 N PRO A 148 1555 1555 1.36 LINK C TYR A 252 N MSE A 253 1555 1555 1.34 LINK C MSE A 253 N PRO A 254 1555 1555 1.35 LINK C THR A 268 N MSE A 269 1555 1555 1.35 LINK C MSE A 269 N PHE A 270 1555 1555 1.35 LINK C CYS A 279 N MSE A 280 1555 1555 1.34 LINK C MSE A 280 N SER A 281 1555 1555 1.34 LINK C ARG A 507 N MSE A 508 1555 1555 1.34 LINK C MSE A 508 N ARG A 509 1555 1555 1.35 LINK C SER A 527 N MSE A 528 1555 1555 1.36 LINK C MSE A 528 N LEU A 529 1555 1555 1.36 LINK C ASN B 39 N MSE B 40 1555 1555 1.35 LINK C MSE B 40 N ASN B 41 1555 1555 1.35 LINK C GLN B 73 N MSE B 74 1555 1555 1.36 LINK C MSE B 74 N THR B 75 1555 1555 1.35 LINK C PRO B 146 N MSE B 147 1555 1555 1.33 LINK C MSE B 147 N PRO B 148 1555 1555 1.36 LINK C TYR B 252 N MSE B 253 1555 1555 1.34 LINK C MSE B 253 N PRO B 254 1555 1555 1.35 LINK C THR B 268 N MSE B 269 1555 1555 1.35 LINK C MSE B 269 N PHE B 270 1555 1555 1.35 LINK C CYS B 279 N MSE B 280 1555 1555 1.34 LINK C MSE B 280 N SER B 281 1555 1555 1.34 LINK C ARG B 507 N MSE B 508 1555 1555 1.34 LINK C MSE B 508 N ARG B 509 1555 1555 1.34 LINK C SER B 527 N MSE B 528 1555 1555 1.36 LINK C MSE B 528 N LEU B 529 1555 1555 1.36 CISPEP 1 ILE A 461 PRO A 462 0 0.29 CISPEP 2 LEU A 477 PRO A 478 0 -2.10 CISPEP 3 ILE B 461 PRO B 462 0 0.69 CISPEP 4 LEU B 477 PRO B 478 0 -2.44 SITE 1 AC1 4 ARG A 130 ARG B 130 ALA B 177 HOH B1049 CRYST1 130.242 130.242 114.822 90.00 90.00 120.00 P 6 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 0.007678 0.004433 0.000000 0.00000 SCALE2 0.000000 0.008866 0.000000 0.00000 SCALE3 0.000000 0.000000 0.008709 0.00000