HEADER UNKNOWN FUNCTION 29-JAN-10 3LM3 TITLE CRYSTAL STRUCTURE OF A PUTATIVE GLYCOSIDE HYDROLASE/DEACETYLASE TITLE 2 (BDI_3119) FROM PARABACTEROIDES DISTASONIS AT 1.44 A RESOLUTION COMPND MOL_ID: 1; COMPND 2 MOLECULE: UNCHARACTERIZED PROTEIN; COMPND 3 CHAIN: A; COMPND 4 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: PARABACTEROIDES DISTASONIS; SOURCE 3 ORGANISM_TAXID: 435591; SOURCE 4 STRAIN: ATCC 8503 / DSM 20701 / NCTC 11152; SOURCE 5 GENE: BDI_3119; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_STRAIN: HK100; SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 9 EXPRESSION_SYSTEM_PLASMID: SPEEDET KEYWDS STRUCTURAL GENOMICS, JOINT CENTER FOR STRUCTURAL GENOMICS, JCSG, KEYWDS 2 PROTEIN STRUCTURE INITIATIVE, PSI-2, UNKNOWN FUNCTION EXPDTA X-RAY DIFFRACTION AUTHOR JOINT CENTER FOR STRUCTURAL GENOMICS (JCSG) REVDAT 6 01-FEB-23 3LM3 1 REMARK SEQADV REVDAT 5 17-JUL-19 3LM3 1 REMARK LINK REVDAT 4 01-NOV-17 3LM3 1 REMARK REVDAT 3 13-JUL-11 3LM3 1 VERSN REVDAT 2 23-MAR-11 3LM3 1 HEADER TITLE KEYWDS REVDAT 1 16-FEB-10 3LM3 0 JRNL AUTH JOINT CENTER FOR STRUCTURAL GENOMICS (JCSG) JRNL TITL CRYSTAL STRUCTURE OF PROTEIN OF UNKNOWN FUNCTION JRNL TITL 2 (YP_001304447.1) FROM PARABACTEROIDES DISTASONIS ATCC 8503 JRNL TITL 3 AT 1.44 A RESOLUTION JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 1.44 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.5.0102 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) : 1.44 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 74.72 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 3 NUMBER OF REFLECTIONS : 85380 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) : 0.142 REMARK 3 R VALUE (WORKING SET) : 0.141 REMARK 3 FREE R VALUE : 0.160 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 4270 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) : 1.44 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.48 REMARK 3 REFLECTION IN BIN (WORKING SET) : 5900 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 99.84 REMARK 3 BIN R VALUE (WORKING SET) : 0.2410 REMARK 3 BIN FREE R VALUE SET COUNT : 298 REMARK 3 BIN FREE R VALUE : 0.2800 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 3545 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 21 REMARK 3 SOLVENT ATOMS : 560 REMARK 3 REMARK 3 B VALUES. REMARK 3 B VALUE TYPE : LIKELY RESIDUAL REMARK 3 FROM WILSON PLOT (A**2) : 19.78 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 13.23 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.01000 REMARK 3 B22 (A**2) : 0.01000 REMARK 3 B33 (A**2) : -0.01000 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): 0.054 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.054 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.032 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 1.854 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.975 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.970 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 3957 ; 0.013 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): 2804 ; 0.001 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 5407 ; 1.498 ; 1.938 REMARK 3 BOND ANGLES OTHERS (DEGREES): 6800 ; 0.902 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 509 ; 6.442 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 214 ;33.997 ;23.411 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 687 ;12.618 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 35 ;16.191 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 545 ; 0.094 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 4509 ; 0.009 ; 0.021 REMARK 3 GENERAL PLANES OTHERS (A): 883 ; 0.002 ; 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): 2292 ; 1.348 ; 3.000 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 931 ; 0.376 ; 3.000 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 3737 ; 2.182 ; 5.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1665 ; 3.197 ; 8.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1632 ; 4.865 ;11.000 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 : 1 REMARK 3 REMARK 3 TLS GROUP : 1 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 41 A 476 REMARK 3 ORIGIN FOR THE GROUP (A): 3.4584 43.6492 1.0412 REMARK 3 T TENSOR REMARK 3 T11: 0.0053 T22: 0.0029 REMARK 3 T33: 0.0050 T12: 0.0002 REMARK 3 T13: -0.0041 T23: 0.0011 REMARK 3 L TENSOR REMARK 3 L11: 0.3878 L22: 0.4441 REMARK 3 L33: 0.3979 L12: -0.0059 REMARK 3 L13: 0.1128 L23: -0.0094 REMARK 3 S TENSOR REMARK 3 S11: -0.0288 S12: 0.0180 S13: 0.0212 REMARK 3 S21: 0.0268 S22: 0.0026 S23: -0.0217 REMARK 3 S31: -0.0329 S32: -0.0143 S33: 0.0262 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: 1. HYDROGENS HAVE BEEN ADDED IN THE REMARK 3 RIDING POSITIONS. 2. A MET-INHIBITION PROTOCOL WAS USED FOR REMARK 3 SELENOMETHIONINE INCORPORATION DURING PROTEIN EXPRESSION. THE REMARK 3 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. 3. ATOM RECORDS CONTAIN RESIDUAL B FACTORS ONLY. REMARK 3 4. PEG FRAGMENT (PEG) MODELED WAS PRESENT IN CRYSTALLIZATION/ REMARK 3 CRYO CONDITIONS. 5. RAMACHANDRAN OUTLIER (A141) IS SUPPORTED BY REMARK 3 CLEAR DENSITY. THE REGION BETWEEN 205-213 IS POORLY ORDERED AND REMARK 3 THERE IS UNINTERPRETED DENSITY NEAR THIS REGION. REMARK 4 REMARK 4 3LM3 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 01-FEB-10. REMARK 100 THE DEPOSITION ID IS D_1000057445. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 02-DEC-09 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7.3 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) : 0.97895 REMARK 200 MONOCHROMATOR : SINGLE CRYSTAL SI(111) BENT REMARK 200 MONOCHROMATOR (HORIZONTAL REMARK 200 FOCUSING) REMARK 200 OPTICS : FLAT MIRROR (VERTICAL FOCUSING) REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MARMOSAIC 325 MM CCD REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : XSCALE REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 85438 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.440 REMARK 200 RESOLUTION RANGE LOW (A) : 74.720 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : -3.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 200 DATA REDUNDANCY : NULL REMARK 200 R MERGE (I) : 0.08800 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 19.2000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.44 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.49 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.9 REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : 0.98700 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 2.300 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: SAD REMARK 200 SOFTWARE USED: SHELX, SHELXD, AUTOSHARP REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 44.16 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.20 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 20.0000% POLYETHYLENE GLYCOL 3350, REMARK 280 0.2000M CAACETATE, NO BUFFER PH 7.3, NANODROP, VAPOR DIFFUSION, REMARK 280 SITTING DROP, TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 61 2 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -Y,X-Y,Z+1/3 REMARK 290 3555 -X+Y,-X,Z+2/3 REMARK 290 4555 -X,-Y,Z+1/2 REMARK 290 5555 Y,-X+Y,Z+5/6 REMARK 290 6555 X-Y,X,Z+1/6 REMARK 290 7555 Y,X,-Z+1/3 REMARK 290 8555 X-Y,-Y,-Z REMARK 290 9555 -X,-X+Y,-Z+2/3 REMARK 290 10555 -Y,-X,-Z+5/6 REMARK 290 11555 -X+Y,Y,-Z+1/2 REMARK 290 12555 X,X-Y,-Z+1/6 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 34.58200 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 69.16400 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 51.87300 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 86.45500 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 17.29100 REMARK 290 SMTRY1 7 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 7 0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 34.58200 REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 9 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 9 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 9 0.000000 0.000000 -1.000000 69.16400 REMARK 290 SMTRY1 10 0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 10 -0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 10 0.000000 0.000000 -1.000000 86.45500 REMARK 290 SMTRY1 11 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 11 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 11 0.000000 0.000000 -1.000000 51.87300 REMARK 290 SMTRY1 12 0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 12 0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 12 0.000000 0.000000 -1.000000 17.29100 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: 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 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 O2 PEG A 2 LIES ON A SPECIAL POSITION. REMARK 375 HOH A 928 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 GLY A 0 REMARK 465 ALA A 30 REMARK 465 ALA A 31 REMARK 465 ASP A 32 REMARK 465 PRO A 33 REMARK 465 VAL A 34 REMARK 465 VAL A 35 REMARK 465 VAL A 36 REMARK 465 PRO A 37 REMARK 465 ALA A 38 REMARK 465 ASN A 39 REMARK 465 MSE A 40 REMARK 465 ILE A 207 REMARK 465 ASP A 208 REMARK 465 LYS A 477 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 GLU A 149 CD OE1 OE2 REMARK 470 LYS A 164 CD CE NZ REMARK 470 LYS A 234 CG CD CE NZ REMARK 470 LYS A 406 CG CD CE NZ 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 NH2 ARG A 186 O HOH A 957 2.19 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 ASN A 95 53.06 -149.22 REMARK 500 TYR A 140 -40.27 73.96 REMARK 500 PHE A 179 90.80 -69.26 REMARK 500 ALA A 199 27.97 -142.13 REMARK 500 ALA A 212 38.33 -142.05 REMARK 500 HIS A 226 128.71 -171.94 REMARK 500 THR A 277 -89.63 -128.01 REMARK 500 ASP A 299 -91.24 -103.09 REMARK 500 ASN A 368 106.09 -161.83 REMARK 500 ASN A 441 -88.51 -140.79 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 PEG A 1 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PEG A 2 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PEG A 3 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 394748 RELATED DB: TARGETDB REMARK 999 REMARK 999 SEQUENCE REMARK 999 THE CONSTRUCT (RESIDUES 30-477) 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 3LM3 A 30 477 UNP A6LGL1 A6LGL1_PARD8 30 477 SEQADV 3LM3 GLY A 0 UNP A6LGL1 EXPRESSION TAG SEQRES 1 A 449 GLY ALA ALA ASP PRO VAL VAL VAL PRO ALA ASN MSE GLU SEQRES 2 A 449 PRO LEU THR ILE GLU GLY ASN ARG PHE VAL THR LEU CYS SEQRES 3 A 449 ILE MSE ILE ARG THR THR PRO TRP GLU VAL SER ARG ASP SEQRES 4 A 449 VAL LYS LEU HIS PRO ARG ASP GLU VAL ASP TRP HIS THR SEQRES 5 A 449 LEU GLU GLY VAL ARG ALA LEU ARG GLU ALA PHE ALA THR SEQRES 6 A 449 ASN ASN PRO ASN GLY ARG LEU THR TRP GLY PHE THR MSE SEQRES 7 A 449 ASN ALA LEU GLU ASP GLY ARG LYS ASN TYR ARG GLU ILE SEQRES 8 A 449 ARG ASP TYR VAL VAL GLU CYS GLN LYS LYS TYR GLY ASP SEQRES 9 A 449 GLU VAL THR TYR PHE PRO GLY TYR PHE PRO ALA MSE TYR SEQRES 10 A 449 LEU PRO ARG GLU ARG VAL ASN ARG GLU MSE SER GLU ALA SEQRES 11 A 449 ILE GLU ILE ILE SER LYS MSE VAL GLY ASN GLY TYR ARG SEQRES 12 A 449 PRO GLN SER ILE MSE GLY GLY PHE LEU SER ALA ASP ASN SEQRES 13 A 449 LEU ARG TYR LEU ALA GLU LYS GLU ASN ILE HIS VAL ALA SEQRES 14 A 449 HIS ALA VAL ILE TRP SER GLN HIS ASN ILE ASP GLY GLY SEQRES 15 A 449 GLY ALA ASP GLY SER PRO SER TYR PRO PHE TYR PRO SER SEQRES 16 A 449 THR GLU HIS PHE CYS LYS PRO ALA GLN GLY LYS SER ASP SEQRES 17 A 449 PHE ILE ASP CYS VAL ASN LEU ASP GLY TRP THR MSE ASP SEQRES 18 A 449 PHE ILE CYS ALA ARG ARG SER GLY GLN THR GLY HIS GLY SEQRES 19 A 449 ILE ASP GLY TYR ASN SER ARG ARG GLY VAL GLY PRO ILE SEQRES 20 A 449 GLU THR TYR LYS GLY TRP GLY LEU ASP LEU GLY HIS ARG SEQRES 21 A 449 GLU VAL MSE HIS THR GLU ALA ILE HIS PHE ASP LYS GLY SEQRES 22 A 449 LEU GLU LEU ASN GLY PHE GLY TRP VAL ALA ASN ILE TRP SEQRES 23 A 449 GLU ALA GLN MSE VAL HIS GLU PHE GLY LYS ASP LEU ILE SEQRES 24 A 449 CYS ASP ALA MSE LYS MSE TRP VAL THR GLY THR LYS GLU SEQRES 25 A 449 ARG TRP PRO ASP THR HIS PHE VAL THR PHE GLY GLU PHE SEQRES 26 A 449 GLY GLU LEU TRP ARG LYS GLN TYR LYS SER ASN ASP ASP SEQRES 27 A 449 TRP ASN TYR ARG PHE VAL GLU ARG GLY SER GLY LEU GLY SEQRES 28 A 449 ASP SER TYR ASN ASN LEU GLU ILE LYS TRP PHE MSE ASN SEQRES 29 A 449 LYS GLU PHE ARG LEU ALA LEU LEU ARG ASP TRP HIS THR SEQRES 30 A 449 LYS ASN SER PRO ALA TYR VAL ILE ASP PHE THR ARG TYR SEQRES 31 A 449 ASP LEU GLN ALA HIS GLU PRO ALA ASP PRO SER PRO GLU SEQRES 32 A 449 LYS PRO ALA LYS ASP TRP SER LEU ILE ASN LYS ILE ASN SEQRES 33 A 449 GLN LYS ALA LEU ARG PRO GLN ASP LYS PRO VAL LEU ILE SEQRES 34 A 449 ASP LYS LEU GLU LYS GLU ASP GLN ASP LEU ILE ARG LYS SEQRES 35 A 449 TYR TYR PRO GLU LEU LEU LYS MODRES 3LM3 MSE A 56 MET SELENOMETHIONINE MODRES 3LM3 MSE A 106 MET SELENOMETHIONINE MODRES 3LM3 MSE A 144 MET SELENOMETHIONINE MODRES 3LM3 MSE A 155 MET SELENOMETHIONINE MODRES 3LM3 MSE A 165 MET SELENOMETHIONINE MODRES 3LM3 MSE A 176 MET SELENOMETHIONINE MODRES 3LM3 MSE A 248 MET SELENOMETHIONINE MODRES 3LM3 MSE A 291 MET SELENOMETHIONINE MODRES 3LM3 MSE A 318 MET SELENOMETHIONINE MODRES 3LM3 MSE A 331 MET SELENOMETHIONINE MODRES 3LM3 MSE A 333 MET SELENOMETHIONINE MODRES 3LM3 MSE A 391 MET SELENOMETHIONINE HET MSE A 56 8 HET MSE A 106 8 HET MSE A 144 13 HET MSE A 155 8 HET MSE A 165 13 HET MSE A 176 8 HET MSE A 248 8 HET MSE A 291 8 HET MSE A 318 13 HET MSE A 331 8 HET MSE A 333 13 HET MSE A 391 8 HET PEG A 1 7 HET PEG A 2 7 HET PEG A 3 7 HETNAM MSE SELENOMETHIONINE HETNAM PEG DI(HYDROXYETHYL)ETHER FORMUL 1 MSE 12(C5 H11 N O2 SE) FORMUL 2 PEG 3(C4 H10 O3) FORMUL 5 HOH *560(H2 O) HELIX 1 1 GLU A 75 HIS A 79 5 5 HELIX 2 2 THR A 80 THR A 93 1 14 HELIX 3 3 THR A 105 ASP A 111 1 7 HELIX 4 4 ARG A 113 GLY A 131 1 19 HELIX 5 5 PHE A 141 LEU A 146 1 6 HELIX 6 6 PRO A 147 GLY A 167 1 21 HELIX 7 7 SER A 181 GLU A 192 1 12 HELIX 8 8 GLY A 233 PHE A 237 5 5 HELIX 9 9 ASP A 249 ARG A 254 1 6 HELIX 10 10 THR A 277 GLY A 282 1 6 HELIX 11 11 GLY A 282 ASP A 299 1 18 HELIX 12 12 ASP A 299 GLY A 306 1 8 HELIX 13 13 GLN A 317 GLY A 323 1 7 HELIX 14 14 GLY A 323 TRP A 342 1 20 HELIX 15 15 THR A 349 TYR A 361 1 13 HELIX 16 16 ARG A 449 LYS A 453 5 5 HELIX 17 17 LEU A 456 LEU A 460 5 5 HELIX 18 18 GLU A 461 TYR A 472 1 12 HELIX 19 19 PRO A 473 LEU A 476 5 4 SHEET 1 A 4 GLU A 133 TYR A 136 0 SHEET 2 A 4 THR A 101 PHE A 104 1 N TRP A 102 O GLU A 133 SHEET 3 A 4 ARG A 49 ILE A 57 1 N ILE A 57 O GLY A 103 SHEET 4 A 4 GLY A 308 GLU A 315 1 O TRP A 314 N CYS A 54 SHEET 1 B 4 GLU A 133 TYR A 136 0 SHEET 2 B 4 THR A 101 PHE A 104 1 N TRP A 102 O GLU A 133 SHEET 3 B 4 ARG A 49 ILE A 57 1 N ILE A 57 O GLY A 103 SHEET 4 B 4 HIS A 346 VAL A 348 1 O HIS A 346 N ARG A 49 SHEET 1 C 3 SER A 174 MSE A 176 0 SHEET 2 C 3 VAL A 196 VAL A 200 1 O HIS A 198 N ILE A 175 SHEET 3 C 3 VAL A 241 ASP A 244 1 O LEU A 243 N ALA A 197 SHEET 1 D 2 PRO A 222 SER A 223 0 SHEET 2 D 2 HIS A 226 PRO A 230 -1 O LYS A 229 N SER A 223 SHEET 1 E 4 TYR A 369 ARG A 374 0 SHEET 2 E 4 LEU A 385 MSE A 391 -1 O ILE A 387 N GLU A 373 SHEET 3 E 4 PHE A 395 ASP A 402 -1 O LEU A 397 N PHE A 390 SHEET 4 E 4 TYR A 411 ARG A 417 -1 O TYR A 411 N LEU A 400 LINK C ILE A 55 N MSE A 56 1555 1555 1.33 LINK C MSE A 56 N ILE A 57 1555 1555 1.33 LINK C THR A 105 N MSE A 106 1555 1555 1.33 LINK C MSE A 106 N ASN A 107 1555 1555 1.32 LINK C ALA A 143 N MSE A 144 1555 1555 1.32 LINK C MSE A 144 N TYR A 145 1555 1555 1.34 LINK C GLU A 154 N MSE A 155 1555 1555 1.33 LINK C MSE A 155 N SER A 156 1555 1555 1.33 LINK C LYS A 164 N MSE A 165 1555 1555 1.33 LINK C MSE A 165 N VAL A 166 1555 1555 1.33 LINK C ILE A 175 N MSE A 176 1555 1555 1.33 LINK C MSE A 176 N GLY A 177 1555 1555 1.33 LINK C THR A 247 N MSE A 248 1555 1555 1.33 LINK C MSE A 248 N ASP A 249 1555 1555 1.33 LINK C VAL A 290 N MSE A 291 1555 1555 1.33 LINK C MSE A 291 N HIS A 292 1555 1555 1.34 LINK C GLN A 317 N MSE A 318 1555 1555 1.33 LINK C MSE A 318 N VAL A 319 1555 1555 1.33 LINK C ALA A 330 N MSE A 331 1555 1555 1.34 LINK C MSE A 331 N LYS A 332 1555 1555 1.34 LINK C LYS A 332 N MSE A 333 1555 1555 1.33 LINK C MSE A 333 N TRP A 334 1555 1555 1.33 LINK C PHE A 390 N MSE A 391 1555 1555 1.32 LINK C MSE A 391 N ASN A 392 1555 1555 1.32 CISPEP 1 GLU A 41 PRO A 42 0 2.50 SITE 1 AC1 3 LEU A 400 ASP A 402 HOH A 488 SITE 1 AC2 4 TYR A 382 ASN A 384 HOH A 817 HOH A 837 SITE 1 AC3 2 GLN A 360 TYR A 361 CRYST1 124.359 124.359 103.746 90.00 90.00 120.00 P 61 2 2 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 0.008041 0.004643 0.000000 0.00000 SCALE2 0.000000 0.009285 0.000000 0.00000 SCALE3 0.000000 0.000000 0.009639 0.00000