HEADER IMMUNE SYSTEM 12-APR-10 3MJ6 TITLE CRYSTAL STRUCTURE OF THE GAMMADELTA T CELL COSTIMULATORY RECEPTOR TITLE 2 JUNCTIONAL ADHESION MOLECULE-LIKE PROTEIN, JAML COMPND MOL_ID: 1; COMPND 2 MOLECULE: JUNCTIONAL ADHESION MOLECULE-LIKE; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: EXTRACELLULAR DOMAIN (UNP RESIDUES 21-280); COMPND 5 SYNONYM: DENDRITIC CELL-SPECIFIC PROTEIN CREA7, MCREA7; COMPND 6 ENGINEERED: YES; COMPND 7 MUTATION: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: MUS MUSCULUS; SOURCE 3 ORGANISM_COMMON: MOUSE; SOURCE 4 ORGANISM_TAXID: 10090; SOURCE 5 GENE: AMICA1, GM638, JAML; SOURCE 6 EXPRESSION_SYSTEM: DROSOPHILA MELANOGASTER; SOURCE 7 EXPRESSION_SYSTEM_COMMON: FRUIT FLY; SOURCE 8 EXPRESSION_SYSTEM_TAXID: 7227; SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PMT/BIP/V5-HIS A KEYWDS IMMUNOGLOBULIN TANDEM DOMAIN, CELL ADHESION, CELL JUNCTION, KEYWDS 2 GLYCOPROTEIN, IMMUNOGLOBULIN DOMAIN, MEMBRANE, COSTIMULATION, KEYWDS 3 TRANSMEMBRANE, IMMUNE SYSTEM EXPDTA X-RAY DIFFRACTION AUTHOR P.VERDINO,I.A.WILSON REVDAT 2 29-JUL-20 3MJ6 1 COMPND REMARK SEQADV HETNAM REVDAT 2 2 1 LINK SITE ATOM REVDAT 1 22-SEP-10 3MJ6 0 JRNL AUTH P.VERDINO,D.A.WITHERDEN,W.L.HAVRAN,I.A.WILSON JRNL TITL THE MOLECULAR INTERACTION OF CAR AND JAML RECRUITS THE JRNL TITL 2 CENTRAL CELL SIGNAL TRANSDUCER PI3K. JRNL REF SCIENCE V. 329 1210 2010 JRNL REFN ISSN 0036-8075 JRNL PMID 20813955 JRNL DOI 10.1126/SCIENCE.1187996 REMARK 1 REMARK 1 REFERENCE 1 REMARK 1 AUTH D.A.WITHERDEN,P.VERDINO,S.E.RIEDER,O.GARIJO,R.E.MILLS, REMARK 1 AUTH 2 L.TEYTON,W.H.FISCHER,I.A.WILSON,W.L.HAVRAN REMARK 1 TITL THE JUNCTIONAL ADHESION MOLECULE JAML IS A COSTIMULATORY REMARK 1 TITL 2 RECEPTOR FOR EPITHELIAL GAMMADELTA T CELL ACTIVATION. REMARK 1 REF SCIENCE V. 329 1205 2010 REMARK 1 REFN ISSN 0036-8075 REMARK 1 PMID 20813954 REMARK 1 DOI 10.1126/SCIENCE.1192698 REMARK 2 REMARK 2 RESOLUTION. 2.19 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.2.0019 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) : 2.19 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 50.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.3 REMARK 3 NUMBER OF REFLECTIONS : 15098 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) : 0.172 REMARK 3 R VALUE (WORKING SET) : 0.170 REMARK 3 FREE R VALUE : 0.213 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 799 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) : 2.19 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.25 REMARK 3 REFLECTION IN BIN (WORKING SET) : 1032 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 94.20 REMARK 3 BIN R VALUE (WORKING SET) : 0.2100 REMARK 3 BIN FREE R VALUE SET COUNT : 57 REMARK 3 BIN FREE R VALUE : 0.3040 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 1828 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 77 REMARK 3 SOLVENT ATOMS : 129 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 34.90 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 37.61 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.16000 REMARK 3 B22 (A**2) : 0.16000 REMARK 3 B33 (A**2) : -0.33000 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): 0.209 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.176 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.128 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 9.735 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.962 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.947 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 1967 ; 0.016 ; 0.021 REMARK 3 BOND LENGTHS OTHERS (A): 1357 ; 0.010 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 2655 ; 1.716 ; 1.988 REMARK 3 BOND ANGLES OTHERS (DEGREES): 3279 ; 1.296 ; 3.002 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 236 ; 8.007 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 94 ;40.550 ;23.936 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 353 ;16.657 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 17 ;22.573 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 303 ; 0.127 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 2122 ; 0.006 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 384 ; 0.001 ; 0.020 REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 270 ; 0.201 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): 1380 ; 0.210 ; 0.200 REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 889 ; 0.170 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): 1165 ; 0.096 ; 0.200 REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 113 ; 0.199 ; 0.200 REMARK 3 H-BOND (X...Y) OTHERS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION REFINED ATOMS (A): 3 ; 0.031 ; 0.200 REMARK 3 POTENTIAL METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW REFINED ATOMS (A): 22 ; 0.141 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): 52 ; 0.237 ; 0.200 REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 14 ; 0.123 ; 0.200 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): 1164 ; 0.862 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 475 ; 0.183 ; 1.500 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 1879 ; 1.642 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 825 ; 2.625 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 773 ; 4.414 ; 4.500 REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 ANISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 RIGID-BOND RESTRAINTS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; FREE ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; BONDED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 NCS RESTRAINTS STATISTICS REMARK 3 NUMBER OF DIFFERENT NCS GROUPS : NULL REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 2 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 10 A 122 REMARK 3 ORIGIN FOR THE GROUP (A): 30.1028 14.2243 -0.2836 REMARK 3 T TENSOR REMARK 3 T11: -0.2362 T22: -0.1808 REMARK 3 T33: -0.1477 T12: -0.0121 REMARK 3 T13: 0.0001 T23: -0.0210 REMARK 3 L TENSOR REMARK 3 L11: 3.1244 L22: 1.8808 REMARK 3 L33: 7.1322 L12: -0.4362 REMARK 3 L13: -2.4036 L23: 0.5467 REMARK 3 S TENSOR REMARK 3 S11: -0.0622 S12: -0.0357 S13: 0.0615 REMARK 3 S21: -0.0476 S22: 0.0377 S23: -0.0866 REMARK 3 S31: -0.0644 S32: -0.0248 S33: 0.0245 REMARK 3 REMARK 3 TLS GROUP : 2 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 123 A 236 REMARK 3 ORIGIN FOR THE GROUP (A): 5.3045 12.8850 13.4525 REMARK 3 T TENSOR REMARK 3 T11: -0.1731 T22: -0.1837 REMARK 3 T33: -0.1763 T12: 0.0249 REMARK 3 T13: -0.0374 T23: -0.0139 REMARK 3 L TENSOR REMARK 3 L11: 3.9754 L22: 1.6649 REMARK 3 L33: 4.6304 L12: 0.9059 REMARK 3 L13: -1.8826 L23: -0.4667 REMARK 3 S TENSOR REMARK 3 S11: 0.0777 S12: 0.1514 S13: -0.1887 REMARK 3 S21: 0.1177 S22: 0.1057 S23: 0.0518 REMARK 3 S31: 0.1115 S32: -0.3087 S33: -0.1835 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. CNS WAS ALSO USED FOR THE REFINEMENT. REMARK 4 REMARK 4 3MJ6 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 19-APR-10. REMARK 100 THE DEPOSITION ID IS D_1000058610. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 17-FEB-05 REMARK 200 TEMPERATURE (KELVIN) : 100.0 REMARK 200 PH : 7.25 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : ALS REMARK 200 BEAMLINE : 8.2.1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.07812, 0.99984 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : KOHZU: DOUBLE CRYSTAL SI(111) REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 210 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 15924 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.190 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.7 REMARK 200 DATA REDUNDANCY : 3.600 REMARK 200 R MERGE (I) : 0.08300 REMARK 200 R SYM (I) : 0.08300 REMARK 200 FOR THE DATA SET : 11.1000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.19 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.24 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.2 REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : 0.41500 REMARK 200 R SYM FOR SHELL (I) : 0.41500 REMARK 200 FOR SHELL : 2.000 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: MAD REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MAD REMARK 200 SOFTWARE USED: PHASER, SHELX, RESOLVE REMARK 200 STARTING MODEL: OBTAINED BY MAD PHASING OF A TA6BR12 SOAKED JAML REMARK 200 CRYSTAL AND SUBSEQUENT MR INTO THE NATIVE HIGH RESOLUTION DATA REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 52.36 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.58 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 3.25 M NA-FORMATE, 0.1 M IMIDAZOLE, PH REMARK 280 7.25, VAPOR DIFFUSION, SITTING DROP, TEMPERATURE 295K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 43 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,-Y,Z+1/2 REMARK 290 3555 -Y,X,Z+3/4 REMARK 290 4555 Y,-X,Z+1/4 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 41.23850 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 61.85775 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 20.61925 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, 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 ARG A -1 REMARK 465 SER A 0 REMARK 465 GLN A 1 REMARK 465 GLY A 2 REMARK 465 LEU A 3 REMARK 465 PRO A 4 REMARK 465 GLY A 5 REMARK 465 LEU A 6 REMARK 465 THR A 7 REMARK 465 VAL A 8 REMARK 465 SER A 9 REMARK 465 GLU A 237 REMARK 465 PHE A 238 REMARK 465 GLN A 239 REMARK 465 ARG A 240 REMARK 465 THR A 241 REMARK 465 ILE A 242 REMARK 465 SER A 243 REMARK 465 PRO A 244 REMARK 465 THR A 245 REMARK 465 PRO A 246 REMARK 465 PRO A 247 REMARK 465 THR A 248 REMARK 465 ASP A 249 REMARK 465 LYS A 250 REMARK 465 GLY A 251 REMARK 465 GLN A 252 REMARK 465 GLN A 253 REMARK 465 GLY A 254 REMARK 465 ILE A 255 REMARK 465 LEU A 256 REMARK 465 ASN A 257 REMARK 465 GLY A 258 REMARK 465 ASN A 259 REMARK 465 GLN A 260 REMARK 465 HIS A 261 REMARK 465 HIS A 262 REMARK 465 HIS A 263 REMARK 465 HIS A 264 REMARK 465 HIS A 265 REMARK 465 HIS A 266 REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS IN SAME ASYMMETRIC UNIT REMARK 500 REMARK 500 THE FOLLOWING ATOMS ARE IN CLOSE CONTACT. REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI DISTANCE REMARK 500 O HOH A 717 O HOH A 718 1.90 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: TORSION ANGLES REMARK 500 REMARK 500 TORSION ANGLES OUTSIDE THE EXPECTED RAMACHANDRAN REGIONS: REMARK 500 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 500 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT:(10X,I3,1X,A3,1X,A1,I4,A1,4X,F7.2,3X,F7.2) REMARK 500 REMARK 500 EXPECTED VALUES: GJ KLEYWEGT AND TA JONES (1996). PHI/PSI- REMARK 500 CHOLOGY: RAMACHANDRAN REVISITED. STRUCTURE 4, 1395 - 1400 REMARK 500 REMARK 500 M RES CSSEQI PSI PHI REMARK 500 ASP A 45 -130.15 -107.64 REMARK 500 ASP A 47 -4.15 93.51 REMARK 500 ASP A 48 1.73 52.48 REMARK 500 ASP A 76 98.67 -69.88 REMARK 500 HIS A 79 55.48 -142.32 REMARK 500 CYS A 138 115.48 -161.14 REMARK 500 ASN A 197 32.83 72.11 REMARK 500 THR A 205 63.45 37.47 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 A 45 LYS A 46 149.44 REMARK 500 ASP A 47 ASP A 48 -149.44 REMARK 500 REMARK 500 REMARK: NULL REMARK 620 REMARK 620 METAL COORDINATION REMARK 620 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 620 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE): REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 NA A 503 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 VAL A 35 O REMARK 620 2 TYR A 56 OH 89.8 REMARK 620 3 ASN A 59 OD1 176.9 87.1 REMARK 620 4 HOH A 609 O 90.5 176.2 92.6 REMARK 620 5 HOH A 610 O 91.5 86.7 88.3 97.1 REMARK 620 6 HOH A 611 O 92.7 90.7 87.4 85.6 175.1 REMARK 620 N 1 2 3 4 5 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 3MJ7 RELATED DB: PDB REMARK 900 RELATED ID: 3MJ8 RELATED DB: PDB REMARK 900 RELATED ID: 3MJ9 RELATED DB: PDB DBREF 3MJ6 A 1 260 UNP Q80UL9 JAML1_MOUSE 21 280 SEQADV 3MJ6 ARG A -1 UNP Q80UL9 EXPRESSION TAG SEQADV 3MJ6 SER A 0 UNP Q80UL9 EXPRESSION TAG SEQADV 3MJ6 ARG A 124 UNP Q80UL9 LYS 144 ENGINEERED MUTATION SEQADV 3MJ6 GLN A 211 UNP Q80UL9 ARG 231 ENGINEERED MUTATION SEQADV 3MJ6 HIS A 261 UNP Q80UL9 EXPRESSION TAG SEQADV 3MJ6 HIS A 262 UNP Q80UL9 EXPRESSION TAG SEQADV 3MJ6 HIS A 263 UNP Q80UL9 EXPRESSION TAG SEQADV 3MJ6 HIS A 264 UNP Q80UL9 EXPRESSION TAG SEQADV 3MJ6 HIS A 265 UNP Q80UL9 EXPRESSION TAG SEQADV 3MJ6 HIS A 266 UNP Q80UL9 EXPRESSION TAG SEQRES 1 A 268 ARG SER GLN GLY LEU PRO GLY LEU THR VAL SER SER PRO SEQRES 2 A 268 GLN LEU ARG VAL HIS VAL GLY GLU SER VAL LEU MET GLY SEQRES 3 A 268 CYS VAL VAL GLN ARG THR GLU GLU LYS HIS VAL ASP ARG SEQRES 4 A 268 VAL ASP TRP LEU PHE SER LYS ASP LYS ASP ASP ALA SER SEQRES 5 A 268 GLU TYR VAL LEU PHE TYR TYR SER ASN LEU SER VAL PRO SEQRES 6 A 268 THR GLY ARG PHE GLN ASN ARG SER HIS LEU VAL GLY ASP SEQRES 7 A 268 THR PHE HIS ASN ASP GLY SER LEU LEU LEU GLN ASP VAL SEQRES 8 A 268 GLN LYS ALA ASP GLU GLY ILE TYR THR CYS GLU ILE ARG SEQRES 9 A 268 LEU LYS ASN GLU SER MET VAL MET LYS LYS PRO VAL GLU SEQRES 10 A 268 LEU TRP VAL LEU PRO GLU GLU PRO ARG ASP LEU ARG VAL SEQRES 11 A 268 ARG VAL GLY ASP THR THR GLN MET ARG CYS SER ILE GLN SEQRES 12 A 268 SER THR GLU GLU LYS ARG VAL THR LYS VAL ASN TRP MET SEQRES 13 A 268 PHE SER SER GLY SER HIS THR GLU GLU GLU THR VAL LEU SEQRES 14 A 268 SER TYR ASP SER ASN MET ARG SER GLY LYS PHE GLN SER SEQRES 15 A 268 LEU GLY ARG PHE ARG ASN ARG VAL ASP LEU THR GLY ASP SEQRES 16 A 268 ILE SER ARG ASN ASP GLY SER ILE LYS LEU GLN THR VAL SEQRES 17 A 268 LYS GLU SER ASP GLN GLY ILE TYR THR CYS SER ILE TYR SEQRES 18 A 268 VAL GLY LYS LEU GLU SER ARG LYS THR ILE VAL LEU HIS SEQRES 19 A 268 VAL VAL GLN ASP GLU PHE GLN ARG THR ILE SER PRO THR SEQRES 20 A 268 PRO PRO THR ASP LYS GLY GLN GLN GLY ILE LEU ASN GLY SEQRES 21 A 268 ASN GLN HIS HIS HIS HIS HIS HIS MODRES 3MJ6 ASN A 69 ASN GLYCOSYLATION SITE MODRES 3MJ6 ASN A 105 ASN GLYCOSYLATION SITE MODRES 3MJ6 ASN A 59 ASN GLYCOSYLATION SITE HET NAG B 1 14 HET FUC B 2 10 HET NAG A 301 14 HET NAG A 401 14 HET NA A 503 1 HET FMT A 601 3 HET FMT A 602 3 HET FMT A 603 3 HET FMT A 604 3 HET FMT A 605 3 HET FMT A 606 3 HET FMT A 607 3 HET FMT A 608 3 HETNAM NAG 2-ACETAMIDO-2-DEOXY-BETA-D-GLUCOPYRANOSE HETNAM FUC ALPHA-L-FUCOPYRANOSE HETNAM NA SODIUM ION HETNAM FMT FORMIC ACID FORMUL 2 NAG 3(C8 H15 N O6) FORMUL 2 FUC C6 H12 O5 FORMUL 5 NA NA 1+ FORMUL 6 FMT 8(C H2 O2) FORMUL 14 HOH *129(H2 O) HELIX 1 1 GLY A 65 GLN A 68 5 4 HELIX 2 2 GLN A 90 GLU A 94 5 5 HELIX 3 3 ASP A 193 ASN A 197 5 5 HELIX 4 4 LYS A 207 GLN A 211 5 5 SHEET 1 A 6 GLN A 12 HIS A 16 0 SHEET 2 A 6 VAL A 109 LEU A 119 1 O TRP A 117 N LEU A 13 SHEET 3 A 6 GLY A 95 LEU A 103 -1 N GLY A 95 O LEU A 116 SHEET 4 A 6 VAL A 35 SER A 43 -1 N SER A 43 O ILE A 96 SHEET 5 A 6 GLU A 51 TYR A 57 -1 O GLU A 51 N PHE A 42 SHEET 6 A 6 LEU A 60 PRO A 63 -1 O VAL A 62 N PHE A 55 SHEET 1 B 4 SER A 71 LEU A 73 0 SHEET 2 B 4 LEU A 84 LEU A 86 -1 O LEU A 85 N HIS A 72 SHEET 3 B 4 VAL A 21 MET A 23 -1 N VAL A 21 O LEU A 86 SHEET 4 B 4 GLN A 141 SER A 142 1 O GLN A 141 N LEU A 22 SHEET 1 C 6 ASP A 125 ARG A 129 0 SHEET 2 C 6 LEU A 223 VAL A 234 1 O VAL A 230 N LEU A 126 SHEET 3 C 6 GLY A 212 VAL A 220 -1 N TYR A 214 O ILE A 229 SHEET 4 C 6 LYS A 150 SER A 156 -1 N LYS A 150 O TYR A 219 SHEET 5 C 6 GLU A 164 ASP A 170 -1 O LEU A 167 N TRP A 153 SHEET 6 C 6 LYS A 177 GLN A 179 -1 O PHE A 178 N SER A 168 SHEET 1 D 3 THR A 134 MET A 136 0 SHEET 2 D 3 ILE A 201 LEU A 203 -1 O LEU A 203 N THR A 134 SHEET 3 D 3 VAL A 188 LEU A 190 -1 N ASP A 189 O LYS A 202 SSBOND 1 CYS A 25 CYS A 99 1555 1555 2.06 SSBOND 2 CYS A 138 CYS A 216 1555 1555 2.16 LINK ND2 ASN A 59 C1 NAG A 301 1555 1555 1.47 LINK ND2 ASN A 69 C1 NAG A 401 1555 1555 1.46 LINK ND2 ASN A 105 C1 NAG B 1 1555 1555 1.47 LINK O6 NAG B 1 C1 FUC B 2 1555 1555 1.46 LINK O VAL A 35 NA NA A 503 1555 1555 2.37 LINK OH TYR A 56 NA NA A 503 1555 1555 2.53 LINK OD1 ASN A 59 NA NA A 503 1555 1555 2.38 LINK NA NA A 503 O HOH A 609 1555 1555 2.39 LINK NA NA A 503 O HOH A 610 1555 1555 2.50 LINK NA NA A 503 O HOH A 611 1555 1555 2.43 CRYST1 61.946 61.946 82.477 90.00 90.00 90.00 P 43 4 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 0.016143 0.000000 0.000000 0.00000 SCALE2 0.000000 0.016143 0.000000 0.00000 SCALE3 0.000000 0.000000 0.012125 0.00000 MASTER 399 0 13 4 19 0 0 6 0 0 0 21 END