HEADER PROTEIN TRANSPORT, SUGAR BINDING PROTEIN05-OCT-09 3K42 TITLE CRYSTAL STRUCTURE OF SCD-MPR MUTANT E19Q/K137M PH 7.0 COMPND MOL_ID: 1; COMPND 2 MOLECULE: CATION-DEPENDENT MANNOSE-6-PHOSPHATE RECEPTOR; COMPND 3 CHAIN: A, B; COMPND 4 FRAGMENT: UNP RESIDUES 29-182; COMPND 5 SYNONYM: CD MAN-6-P RECEPTOR, CD-MPR, 46 KDA MANNOSE 6-PHOSPHATE COMPND 6 RECEPTOR, MPR 46; COMPND 7 ENGINEERED: YES; COMPND 8 MUTATION: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: BOS TAURUS; SOURCE 3 ORGANISM_COMMON: BOVINE,COW,DOMESTIC CATTLE,DOMESTIC COW; SOURCE 4 ORGANISM_TAXID: 9913; SOURCE 5 GENE: M6PR; SOURCE 6 EXPRESSION_SYSTEM: PICHIA PASTORIS; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 4922; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: X-33; SOURCE 9 EXPRESSION_SYSTEM_PLASMID: PPICZALPHAA KEYWDS TRANSPORT, LYSOSOME, MANNOSE, RECEPTOR, SUGAR BINDING, GLYCOPROTEIN, KEYWDS 2 MEMBRANE, PHOSPHOPROTEIN, TRANSMEMBRANE, PROTEIN TRANSPORT, SUGAR KEYWDS 3 BINDING PROTEIN EXPDTA X-RAY DIFFRACTION AUTHOR L.J.OLSON,G.SUN,R.N.BOHNSACK,F.C.PETERSON,N.M.DAHMS,J.J.P.KIM REVDAT 8 16-OCT-24 3K42 1 REMARK REVDAT 7 06-SEP-23 3K42 1 REMARK REVDAT 6 13-OCT-21 3K42 1 SEQADV HETSYN REVDAT 5 29-JUL-20 3K42 1 COMPND REMARK HETNAM LINK REVDAT 5 2 1 SITE REVDAT 4 01-NOV-17 3K42 1 REMARK REVDAT 3 13-JUL-11 3K42 1 VERSN REVDAT 2 19-JAN-10 3K42 1 JRNL REVDAT 1 24-NOV-09 3K42 0 JRNL AUTH L.J.OLSON,G.SUN,R.N.BOHNSACK,F.C.PETERSON,N.M.DAHMS,J.J.KIM JRNL TITL INTERMONOMER INTERACTIONS ARE ESSENTIAL FOR LYSOSOMAL ENZYME JRNL TITL 2 BINDING BY THE CATION-DEPENDENT MANNOSE 6-PHOSPHATE JRNL TITL 3 RECEPTOR. JRNL REF BIOCHEMISTRY V. 49 236 2010 JRNL REFN ISSN 0006-2960 JRNL PMID 19928875 JRNL DOI 10.1021/BI901725X REMARK 2 REMARK 2 RESOLUTION. 2.30 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : CNS REMARK 3 AUTHORS : BRUNGER,ADAMS,CLORE,DELANO,GROS,GROSSE- REMARK 3 : KUNSTLEVE,JIANG,KUSZEWSKI,NILGES,PANNU, REMARK 3 : READ,RICE,SIMONSON,WARREN REMARK 3 REMARK 3 REFINEMENT TARGET : NULL REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.30 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 36.27 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 DATA CUTOFF HIGH (ABS(F)) : NULL REMARK 3 DATA CUTOFF LOW (ABS(F)) : NULL REMARK 3 COMPLETENESS (WORKING+TEST) (%) : 96.3 REMARK 3 NUMBER OF REFLECTIONS : 22239 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 CROSS-VALIDATION METHOD : NULL REMARK 3 FREE R VALUE TEST SET SELECTION : NULL REMARK 3 R VALUE (WORKING SET) : 0.228 REMARK 3 FREE R VALUE : 0.249 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 6.600 REMARK 3 FREE R VALUE TEST SET COUNT : 1530 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 : NULL REMARK 3 BIN RESOLUTION RANGE HIGH (A) : NULL REMARK 3 BIN RESOLUTION RANGE LOW (A) : NULL REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : NULL REMARK 3 REFLECTIONS IN BIN (WORKING SET) : NULL REMARK 3 BIN R VALUE (WORKING SET) : NULL REMARK 3 BIN FREE R VALUE : NULL REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : NULL REMARK 3 BIN FREE R VALUE TEST SET COUNT : NULL 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 : 2268 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 88 REMARK 3 SOLVENT ATOMS : 180 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 31.57 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.36500 REMARK 3 B22 (A**2) : 0.36500 REMARK 3 B33 (A**2) : -0.73100 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 ESD FROM SIGMAA (A) : NULL REMARK 3 LOW RESOLUTION CUTOFF (A) : NULL REMARK 3 REMARK 3 CROSS-VALIDATED ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM C-V LUZZATI PLOT (A) : NULL REMARK 3 ESD FROM C-V SIGMAA (A) : NULL REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 BOND LENGTHS (A) : NULL REMARK 3 BOND ANGLES (DEGREES) : NULL REMARK 3 DIHEDRAL ANGLES (DEGREES) : NULL REMARK 3 IMPROPER ANGLES (DEGREES) : NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL MODEL : NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. RMS SIGMA REMARK 3 MAIN-CHAIN BOND (A**2) : 1.589 ; 1.500 REMARK 3 MAIN-CHAIN ANGLE (A**2) : 2.744 ; 2.000 REMARK 3 SIDE-CHAIN BOND (A**2) : 2.021 ; 2.000 REMARK 3 SIDE-CHAIN ANGLE (A**2) : 2.987 ; 2.500 REMARK 3 REMARK 3 BULK SOLVENT MODELING. REMARK 3 METHOD USED : NULL REMARK 3 KSOL : NULL REMARK 3 BSOL : 47.80 REMARK 3 REMARK 3 NCS MODEL : NULL REMARK 3 REMARK 3 NCS RESTRAINTS. RMS SIGMA/WEIGHT REMARK 3 GROUP 1 POSITIONAL (A) : NULL ; NULL REMARK 3 GROUP 1 B-FACTOR (A**2) : NULL ; NULL REMARK 3 REMARK 3 PARAMETER FILE 1 : CNS_TOPPAR:PROTEIN_REP.PARAM REMARK 3 PARAMETER FILE 2 : CNS_TOPPAR:WATER_REP.PARAM REMARK 3 PARAMETER FILE 3 : CNS_TOPPAR:CARBOHYDRATE.PARAM REMARK 3 PARAMETER FILE 4 : CNS_TOPPAR:ION.PARAM REMARK 3 PARAMETER FILE 5 : G1P.PAR REMARK 3 PARAMETER FILE 6 : NULL REMARK 3 TOPOLOGY FILE 1 : NULL REMARK 3 TOPOLOGY FILE 2 : NULL REMARK 3 TOPOLOGY FILE 3 : NULL REMARK 3 TOPOLOGY FILE 4 : NULL REMARK 3 TOPOLOGY FILE 5 : NULL REMARK 3 TOPOLOGY FILE 6 : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 3K42 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 07-OCT-09. REMARK 100 THE DEPOSITION ID IS D_1000055519. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 14-APR-09 REMARK 200 TEMPERATURE (KELVIN) : 98 REMARK 200 PH : 7.0 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : N REMARK 200 RADIATION SOURCE : ROTATING ANODE REMARK 200 BEAMLINE : NULL REMARK 200 X-RAY GENERATOR MODEL : RIGAKU MICROMAX-007 REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.54 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : IMAGE PLATE REMARK 200 DETECTOR MANUFACTURER : RIGAKU RAXIS IV++ REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO, HKL-2000 REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 23014 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.300 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 200 DATA REDUNDANCY : 5.200 REMARK 200 R MERGE (I) : 0.09300 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 9.7000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.30 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.38 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : 5.10 REMARK 200 R MERGE FOR SHELL (I) : 0.48100 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : NULL 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: PDB ENTRY 1M6P REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 67.42 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.78 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.1M HEPES PH 7.0, 3M AMMONIUM REMARK 280 SULFATE, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 292K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: I 4 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,-Y,Z REMARK 290 3555 -Y,X,Z REMARK 290 4555 Y,-X,Z REMARK 290 5555 X+1/2,Y+1/2,Z+1/2 REMARK 290 6555 -X+1/2,-Y+1/2,Z+1/2 REMARK 290 7555 -Y+1/2,X+1/2,Z+1/2 REMARK 290 8555 Y+1/2,-X+1/2,Z+1/2 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 0.00000 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 3 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY2 4 -1.000000 0.000000 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 51.29100 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 51.29100 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 50.07250 REMARK 290 SMTRY1 6 -1.000000 0.000000 0.000000 51.29100 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 51.29100 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 50.07250 REMARK 290 SMTRY1 7 0.000000 -1.000000 0.000000 51.29100 REMARK 290 SMTRY2 7 1.000000 0.000000 0.000000 51.29100 REMARK 290 SMTRY3 7 0.000000 0.000000 1.000000 50.07250 REMARK 290 SMTRY1 8 0.000000 1.000000 0.000000 51.29100 REMARK 290 SMTRY2 8 -1.000000 0.000000 0.000000 51.29100 REMARK 290 SMTRY3 8 0.000000 0.000000 1.000000 50.07250 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: DIMERIC 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 350 REMARK 350 BIOMOLECULE: 2 REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 3640 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 14560 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -106.0 KCAL/MOL 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 APPLY THE FOLLOWING TO CHAINS: B REMARK 350 BIOMT1 2 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT2 2 -1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT3 2 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 THR A 1 REMARK 465 GLU A 2 REMARK 465 GLU A 11 REMARK 465 LYS A 12 REMARK 465 GLY A 13 REMARK 465 LYS A 14 REMARK 465 GLU A 134 REMARK 465 ARG A 135 REMARK 465 GLY A 136 REMARK 465 MET A 137 REMARK 465 VAL A 138 REMARK 465 GLN A 139 REMARK 465 ASP A 140 REMARK 465 THR B 1 REMARK 465 GLU B 2 REMARK 465 GLU B 3 REMARK 465 LYS B 4 REMARK 465 GLU B 11 REMARK 465 LYS B 12 REMARK 465 GLY B 13 REMARK 465 LYS B 14 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 GLU B 134 O HOH B 680 1.45 REMARK 500 O GLN B 40 O ASP B 43 1.64 REMARK 500 O SER B 16 N LYS B 18 1.87 REMARK 500 C GLU B 134 O HOH B 680 1.99 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS REMARK 500 REMARK 500 THE FOLLOWING ATOMS THAT ARE RELATED BY CRYSTALLOGRAPHIC REMARK 500 SYMMETRY ARE IN CLOSE CONTACT. AN ATOM LOCATED WITHIN 0.15 REMARK 500 ANGSTROMS OF A SYMMETRY RELATED ATOM IS ASSUMED TO BE ON A REMARK 500 SPECIAL POSITION AND IS, THEREFORE, LISTED IN REMARK 375 REMARK 500 INSTEAD OF REMARK 500. ATOMS WITH NON-BLANK ALTERNATE REMARK 500 LOCATION INDICATORS ARE NOT INCLUDED IN THE CALCULATIONS. REMARK 500 REMARK 500 DISTANCE CUTOFF: REMARK 500 2.2 ANGSTROMS FOR CONTACTS NOT INVOLVING HYDROGEN ATOMS REMARK 500 1.6 ANGSTROMS FOR CONTACTS INVOLVING HYDROGEN ATOMS REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI SSYMOP DISTANCE REMARK 500 NZ LYS A 24 NE2 GLN B 31 4555 0.94 REMARK 500 NZ LYS A 24 CD GLN B 31 4555 1.53 REMARK 500 CE LYS A 24 NE2 GLN B 31 4555 1.77 REMARK 500 OG1 THR A 27 OG1 THR B 27 4555 2.06 REMARK 500 NZ LYS A 24 OE1 GLN B 31 4555 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 GLY B 39 C GLN B 40 N 0.145 REMARK 500 SER B 41 CA SER B 41 CB -0.093 REMARK 500 SER B 41 CB SER B 41 OG -0.116 REMARK 500 PRO B 42 CA PRO B 42 C -0.124 REMARK 500 GLU B 133 C GLU B 134 N 0.190 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 MET B 44 CG - SD - CE ANGL. DEV. = 9.7 DEGREES REMARK 500 ARG B 53 NE - CZ - NH2 ANGL. DEV. = 3.0 DEGREES REMARK 500 ARG B 79 NE - CZ - NH2 ANGL. DEV. = 3.2 DEGREES REMARK 500 ARG B 108 NE - CZ - NH2 ANGL. DEV. = 3.1 DEGREES REMARK 500 ARG B 111 NE - CZ - NH2 ANGL. DEV. = 3.0 DEGREES REMARK 500 ARG B 121 NE - CZ - NH2 ANGL. DEV. = 3.2 DEGREES REMARK 500 ARG B 135 NE - CZ - NH2 ANGL. DEV. = 3.7 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 THR A 5 -169.84 -118.38 REMARK 500 SER A 16 82.95 53.27 REMARK 500 ASN A 90 56.58 77.13 REMARK 500 TRP A 91 139.60 164.39 REMARK 500 ALA A 125 131.04 -171.15 REMARK 500 SER B 16 67.30 -117.30 REMARK 500 GLU B 17 -14.91 -40.31 REMARK 500 SER B 41 171.10 -52.80 REMARK 500 PRO B 42 97.23 -18.04 REMARK 500 ASP B 43 100.64 132.56 REMARK 500 CYS B 106 50.14 37.36 REMARK 500 ALA B 125 127.38 -178.13 REMARK 500 SER B 132 -172.74 -171.41 REMARK 500 GLU B 133 -168.03 -106.57 REMARK 500 ARG B 135 19.05 -162.68 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 GLU A 15 SER A 16 131.95 REMARK 500 SER B 41 PRO B 42 -109.20 REMARK 500 SER B 132 GLU B 133 109.71 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: PLANAR GROUPS REMARK 500 REMARK 500 PLANAR GROUPS IN THE FOLLOWING RESIDUES HAVE A TOTAL REMARK 500 RMS DISTANCE OF ALL ATOMS FROM THE BEST-FIT PLANE REMARK 500 BY MORE THAN AN EXPECTED VALUE OF 6*RMSD, WITH AN REMARK 500 RMSD 0.02 ANGSTROMS, OR AT LEAST ONE ATOM HAS REMARK 500 AN RMSD GREATER THAN THIS VALUE REMARK 500 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 500 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 M RES CSSEQI RMS TYPE REMARK 500 ARG A 108 0.29 SIDE CHAIN REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: MAIN CHAIN PLANARITY REMARK 500 REMARK 500 THE FOLLOWING RESIDUES HAVE A PSEUDO PLANARITY REMARK 500 TORSION ANGLE, C(I) - CA(I) - N(I+1) - O(I), GREATER REMARK 500 10.0 DEGREES. (M=MODEL NUMBER; RES=RESIDUE NAME; REMARK 500 C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 500 I=INSERTION CODE). REMARK 500 REMARK 500 M RES CSSEQI ANGLE REMARK 500 TRP A 91 12.04 REMARK 500 SER B 41 -13.06 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 NAG A 3001 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 3K41 RELATED DB: PDB REMARK 900 RELATED ID: 3K43 RELATED DB: PDB DBREF 3K42 A 1 154 UNP P11456 MPRD_BOVIN 29 182 DBREF 3K42 B 1 154 UNP P11456 MPRD_BOVIN 29 182 SEQADV 3K42 GLN A 19 UNP P11456 GLU 47 ENGINEERED MUTATION SEQADV 3K42 GLN A 31 UNP P11456 ASN 59 ENGINEERED MUTATION SEQADV 3K42 GLN A 57 UNP P11456 ASN 85 ENGINEERED MUTATION SEQADV 3K42 GLN A 68 UNP P11456 ASN 96 ENGINEERED MUTATION SEQADV 3K42 GLN A 87 UNP P11456 ASN 115 ENGINEERED MUTATION SEQADV 3K42 MET A 137 UNP P11456 LYS 165 ENGINEERED MUTATION SEQADV 3K42 GLN B 19 UNP P11456 GLU 47 ENGINEERED MUTATION SEQADV 3K42 GLN B 31 UNP P11456 ASN 59 ENGINEERED MUTATION SEQADV 3K42 GLN B 57 UNP P11456 ASN 85 ENGINEERED MUTATION SEQADV 3K42 GLN B 68 UNP P11456 ASN 96 ENGINEERED MUTATION SEQADV 3K42 GLN B 87 UNP P11456 ASN 115 ENGINEERED MUTATION SEQADV 3K42 MET B 137 UNP P11456 LYS 165 ENGINEERED MUTATION SEQRES 1 A 154 THR GLU GLU LYS THR CYS ASP LEU VAL GLY GLU LYS GLY SEQRES 2 A 154 LYS GLU SER GLU LYS GLN LEU ALA LEU LEU LYS ARG LEU SEQRES 3 A 154 THR PRO LEU PHE GLN LYS SER PHE GLU SER THR VAL GLY SEQRES 4 A 154 GLN SER PRO ASP MET TYR SER TYR VAL PHE ARG VAL CYS SEQRES 5 A 154 ARG GLU ALA GLY GLN HIS SER SER GLY ALA GLY LEU VAL SEQRES 6 A 154 GLN ILE GLN LYS SER ASN GLY LYS GLU THR VAL VAL GLY SEQRES 7 A 154 ARG PHE ASN GLU THR GLN ILE PHE GLN GLY SER ASN TRP SEQRES 8 A 154 ILE MET LEU ILE TYR LYS GLY GLY ASP GLU TYR ASP ASN SEQRES 9 A 154 HIS CYS GLY ARG GLU GLN ARG ARG ALA VAL VAL MET ILE SEQRES 10 A 154 SER CYS ASN ARG HIS THR LEU ALA ASP ASN PHE ASN PRO SEQRES 11 A 154 VAL SER GLU GLU ARG GLY MET VAL GLN ASP CYS PHE TYR SEQRES 12 A 154 LEU PHE GLU MET ASP SER SER LEU ALA CYS SER SEQRES 1 B 154 THR GLU GLU LYS THR CYS ASP LEU VAL GLY GLU LYS GLY SEQRES 2 B 154 LYS GLU SER GLU LYS GLN LEU ALA LEU LEU LYS ARG LEU SEQRES 3 B 154 THR PRO LEU PHE GLN LYS SER PHE GLU SER THR VAL GLY SEQRES 4 B 154 GLN SER PRO ASP MET TYR SER TYR VAL PHE ARG VAL CYS SEQRES 5 B 154 ARG GLU ALA GLY GLN HIS SER SER GLY ALA GLY LEU VAL SEQRES 6 B 154 GLN ILE GLN LYS SER ASN GLY LYS GLU THR VAL VAL GLY SEQRES 7 B 154 ARG PHE ASN GLU THR GLN ILE PHE GLN GLY SER ASN TRP SEQRES 8 B 154 ILE MET LEU ILE TYR LYS GLY GLY ASP GLU TYR ASP ASN SEQRES 9 B 154 HIS CYS GLY ARG GLU GLN ARG ARG ALA VAL VAL MET ILE SEQRES 10 B 154 SER CYS ASN ARG HIS THR LEU ALA ASP ASN PHE ASN PRO SEQRES 11 B 154 VAL SER GLU GLU ARG GLY MET VAL GLN ASP CYS PHE TYR SEQRES 12 B 154 LEU PHE GLU MET ASP SER SER LEU ALA CYS SER MODRES 3K42 ASN B 81 ASN GLYCOSYLATION SITE HET NAG A3001 14 HET 1GP A7000 10 HET SO4 A6000 5 HET SO4 A6002 5 HET SO4 A6003 5 HET SO4 A6007 5 HET NAG B4001 14 HET 1GP B7001 10 HET SO4 B6001 5 HET SO4 B6004 5 HET SO4 B6005 5 HET SO4 B6006 5 HETNAM NAG 2-ACETAMIDO-2-DEOXY-BETA-D-GLUCOPYRANOSE HETNAM 1GP SN-GLYCEROL-1-PHOSPHATE HETNAM SO4 SULFATE ION HETSYN NAG N-ACETYL-BETA-D-GLUCOSAMINE; 2-ACETAMIDO-2-DEOXY-BETA- HETSYN 2 NAG D-GLUCOSE; 2-ACETAMIDO-2-DEOXY-D-GLUCOSE; 2-ACETAMIDO- HETSYN 3 NAG 2-DEOXY-GLUCOSE; N-ACETYL-D-GLUCOSAMINE FORMUL 3 NAG 2(C8 H15 N O6) FORMUL 4 1GP 2(C3 H9 O6 P) FORMUL 5 SO4 8(O4 S 2-) FORMUL 15 HOH *180(H2 O) HELIX 1 1 SER A 16 LEU A 26 1 11 HELIX 2 2 LEU A 26 GLN A 31 1 6 HELIX 3 3 HIS A 105 GLU A 109 5 5 HELIX 4 4 SER A 150 CYS A 153 5 4 HELIX 5 5 SER B 16 LEU B 26 1 11 HELIX 6 6 THR B 27 PHE B 30 5 4 HELIX 7 7 HIS B 105 GLU B 109 5 5 HELIX 8 8 GLY B 136 CYS B 141 1 6 HELIX 9 9 SER B 150 CYS B 153 5 4 SHEET 1 A 8 PHE A 34 VAL A 38 0 SHEET 2 A 8 TYR A 45 PHE A 49 -1 O TYR A 45 N VAL A 38 SHEET 3 A 8 ALA A 62 GLN A 68 -1 O ILE A 67 N SER A 46 SHEET 4 A 8 GLU A 74 GLY A 88 -1 O GLY A 78 N GLY A 63 SHEET 5 A 8 TRP A 91 GLY A 98 -1 O MET A 93 N PHE A 86 SHEET 6 A 8 ALA A 113 CYS A 119 -1 O ALA A 113 N TYR A 96 SHEET 7 A 8 TYR A 143 SER A 149 1 O PHE A 145 N VAL A 114 SHEET 8 A 8 ASP A 126 SER A 132 -1 N VAL A 131 O LEU A 144 SHEET 1 B 8 PHE B 34 VAL B 38 0 SHEET 2 B 8 TYR B 45 PHE B 49 -1 O TYR B 47 N SER B 36 SHEET 3 B 8 ALA B 62 GLN B 68 -1 O ILE B 67 N SER B 46 SHEET 4 B 8 GLU B 74 GLN B 87 -1 O THR B 75 N GLN B 66 SHEET 5 B 8 TRP B 91 GLY B 98 -1 O LYS B 97 N ARG B 79 SHEET 6 B 8 ALA B 113 CYS B 119 -1 O VAL B 115 N LEU B 94 SHEET 7 B 8 TYR B 143 SER B 149 1 O PHE B 145 N VAL B 114 SHEET 8 B 8 ASP B 126 PRO B 130 -1 N ASP B 126 O ASP B 148 SSBOND 1 CYS A 6 CYS A 52 1555 1555 2.04 SSBOND 2 CYS A 106 CYS A 141 1555 1555 2.04 SSBOND 3 CYS A 119 CYS A 153 1555 1555 2.03 SSBOND 4 CYS B 6 CYS B 52 1555 1555 2.03 SSBOND 5 CYS B 106 CYS B 141 1555 1555 2.03 SSBOND 6 CYS B 119 CYS B 153 1555 1555 2.04 LINK ND2 ASN B 81 C1 NAG B4001 1555 1555 1.43 CISPEP 1 SER A 41 PRO A 42 0 -0.02 CRYST1 102.582 102.582 100.145 90.00 90.00 90.00 I 4 16 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 0.009748 0.000000 0.000000 0.00000 SCALE2 0.000000 0.009748 0.000000 0.00000 SCALE3 0.000000 0.000000 0.009986 0.00000