PDB Short entry for 1XDD HEADER IMMUNE SYSTEM 06-SEP-04 1XDD TITLE X-RAY STRUCTURE OF LFA-1 I-DOMAIN IN COMPLEX WITH LFA703 AT 2.2A TITLE 2 RESOLUTION COMPND MOL_ID: 1; COMPND 2 MOLECULE: INTEGRIN ALPHA-L; COMPND 3 CHAIN: A, B; COMPND 4 FRAGMENT: I-DOMAIN; COMPND 5 SYNONYM: LEUKOCYTE ADHESION GLYCOPROTEIN LFA-1 ALPHA CHAIN, LFA-1A, COMPND 6 LEUKOCYTE FUNCTION ASSOCIATED MOLECULE 1, ALPHA CHAIN, CD11A, COMPND 7 ALPHALBETA2, CD11A/CD18; COMPND 8 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 3 ORGANISM_COMMON: HUMAN; SOURCE 4 ORGANISM_TAXID: 9606; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 7 EXPRESSION_SYSTEM_STRAIN: BL21 PLYSS; SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 9 EXPRESSION_SYSTEM_PLASMID: PET17B KEYWDS ROSSMANN FOLD, I-DOMAIN, IMMUNE SYSTEM EXPDTA X-RAY DIFFRACTION AUTHOR G.WEITZ-SCHMIDT,K.WELZENBACH,J.DAWSON,J.KALLEN REVDAT 6 25-OCT-23 1XDD 1 REMARK SEQADV LINK REVDAT 5 12-NOV-14 1XDD 1 KEYWDS REVDAT 4 20-FEB-13 1XDD 1 VERSN REMARK REVDAT 3 24-FEB-09 1XDD 1 VERSN REVDAT 2 07-DEC-04 1XDD 1 JRNL REVDAT 1 21-SEP-04 1XDD 0 JRNL AUTH G.WEITZ-SCHMIDT,K.WELZENBACH,J.DAWSON,J.KALLEN JRNL TITL IMPROVED LYMPHOCYTE FUNCTION-ASSOCIATED ANTIGEN-1 (LFA-1) JRNL TITL 2 INHIBITION BY STATIN DERIVATIVES: MOLECULAR BASIS DETERMINED JRNL TITL 3 BY X-RAY ANALYSIS AND MONITORING OF LFA-1 CONFORMATIONAL JRNL TITL 4 CHANGES IN VITRO AND EX VIVO JRNL REF J.BIOL.CHEM. V. 279 46764 2004 JRNL REFN ISSN 0021-9258 JRNL PMID 15304496 JRNL DOI 10.1074/JBC.M407951200 REMARK 2 REMARK 2 RESOLUTION. 2.20 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.1.9999 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) : 2.20 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 8.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.7 REMARK 3 NUMBER OF REFLECTIONS : 27286 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) : 0.164 REMARK 3 R VALUE (WORKING SET) : 0.161 REMARK 3 FREE R VALUE : 0.206 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 1464 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) : 2.20 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.25 REMARK 3 REFLECTION IN BIN (WORKING SET) : 1860 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : NULL REMARK 3 BIN R VALUE (WORKING SET) : 0.1820 REMARK 3 BIN FREE R VALUE SET COUNT : 95 REMARK 3 BIN FREE R VALUE : 0.2730 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2936 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 90 REMARK 3 SOLVENT ATOMS : 277 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 30.97 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.06000 REMARK 3 B22 (A**2) : 0.06000 REMARK 3 B33 (A**2) : -0.12000 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): 0.177 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.162 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.103 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 3.966 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.965 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.942 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 3132 ; 0.018 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): 2836 ; 0.001 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 4236 ; 1.512 ; 2.001 REMARK 3 BOND ANGLES OTHERS (DEGREES): 6640 ; 0.843 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 360 ; 6.706 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 136 ;35.764 ;25.294 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 562 ;15.333 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 6 ;15.820 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 476 ; 0.095 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 3370 ; 0.006 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 628 ; 0.001 ; 0.020 REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 547 ; 0.209 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): 2644 ; 0.184 ; 0.200 REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION OTHERS (A): 1680 ; 0.091 ; 0.200 REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 212 ; 0.176 ; 0.200 REMARK 3 H-BOND (X...Y) OTHERS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION REFINED ATOMS (A): 1 ; 0.075 ; 0.200 REMARK 3 POTENTIAL METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW REFINED ATOMS (A): 8 ; 0.123 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): 23 ; 0.176 ; 0.200 REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 14 ; 0.241 ; 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): 2322 ; 1.581 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 740 ; 0.265 ; 1.500 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 2936 ; 1.847 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1639 ; 2.855 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1298 ; 4.125 ; 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 : NULL REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : BABINET MODEL WITH 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 REMARK 4 REMARK 4 1XDD COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 08-SEP-04. REMARK 100 THE DEPOSITION ID IS D_1000030232. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 15-SEP-99 REMARK 200 TEMPERATURE (KELVIN) : 293 REMARK 200 PH : 4.6 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : ESRF REMARK 200 BEAMLINE : BM1A REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.80074 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : IMAGE PLATE REMARK 200 DETECTOR MANUFACTURER : MARRESEARCH REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 28795 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.200 REMARK 200 RESOLUTION RANGE LOW (A) : 8.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.8 REMARK 200 DATA REDUNDANCY : 7.400 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : 0.09400 REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 22.7000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.20 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.28 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : 0.28600 REMARK 200 <I/SIGMA(I)> FOR SHELL : 7.800 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: X-PLOR REMARK 200 STARTING MODEL: PDB ENTRY 1CQP REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 64.20 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.50 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: AMMONIUM ACETATE, SODIUM ACETATE, REMARK 280 GLYCEROL, PEG4000, PH 4.6, VAPOR DIFFUSION, HANGING DROP, REMARK 280 TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 43 21 2 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+1/2,X+1/2,Z+3/4 REMARK 290 4555 Y+1/2,-X+1/2,Z+1/4 REMARK 290 5555 -X+1/2,Y+1/2,-Z+3/4 REMARK 290 6555 X+1/2,-Y+1/2,-Z+1/4 REMARK 290 7555 Y,X,-Z REMARK 290 8555 -Y,-X,-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 41.40000 REMARK 290 SMTRY1 3 0.000000 -1.000000 0.000000 58.35000 REMARK 290 SMTRY2 3 1.000000 0.000000 0.000000 58.35000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 62.10000 REMARK 290 SMTRY1 4 0.000000 1.000000 0.000000 58.35000 REMARK 290 SMTRY2 4 -1.000000 0.000000 0.000000 58.35000 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 20.70000 REMARK 290 SMTRY1 5 -1.000000 0.000000 0.000000 58.35000 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 58.35000 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 62.10000 REMARK 290 SMTRY1 6 1.000000 0.000000 0.000000 58.35000 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 58.35000 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 20.70000 REMARK 290 SMTRY1 7 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY2 7 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 8 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY2 8 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 41.40000 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 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 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 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 HOH B 576 LIES ON A SPECIAL POSITION. REMARK 465 REMARK 465 MISSING RESIDUES REMARK 465 THE FOLLOWING RESIDUES WERE NOT LOCATED IN THE REMARK 465 EXPERIMENT. (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 465 IDENTIFIER; SSSEQ=SEQUENCE NUMBER; I=INSERTION CODE.) REMARK 465 REMARK 465 M RES C SSSEQI REMARK 465 MET A 124 REMARK 465 ALA A 125 REMARK 465 SER A 126 REMARK 465 LYS A 127 REMARK 465 GLU A 310 REMARK 465 GLY A 311 REMARK 465 MET B 124 REMARK 465 ALA B 125 REMARK 465 SER B 126 REMARK 465 LYS B 127 REMARK 465 GLU B 310 REMARK 465 GLY B 311 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 NE2 GLN B 143 O HOH A 482 6466 2.14 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 ASP A 253 CB - CG - OD2 ANGL. DEV. = 5.6 DEGREES REMARK 500 ARG A 256 NE - CZ - NH1 ANGL. DEV. = 3.1 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 ASN A 163 -16.32 88.42 REMARK 500 SER A 174 -100.81 -142.93 REMARK 500 LEU A 203 37.35 73.64 REMARK 500 LEU A 204 -132.53 -123.82 REMARK 500 ASP A 244 -166.37 -111.15 REMARK 500 SER B 174 -103.38 -146.25 REMARK 500 LYS B 190 -20.59 59.17 REMARK 500 LEU B 204 -140.30 -127.80 REMARK 500 LEU B 205 -158.50 -90.16 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 MG A 312 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 SER A 139 OG REMARK 620 2 SER A 141 OG 95.4 REMARK 620 3 ASP A 239 OD1 91.7 84.0 REMARK 620 4 HOH A 403 O 84.9 165.9 81.9 REMARK 620 5 HOH A 405 O 97.6 98.8 169.9 95.2 REMARK 620 6 HOH A 408 O 177.8 86.7 87.6 92.9 82.9 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG B 312 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 SER B 139 OG REMARK 620 2 SER B 141 OG 90.9 REMARK 620 3 ASP B 239 OD1 96.3 86.2 REMARK 620 4 HOH B 502 O 173.5 84.1 87.5 REMARK 620 5 HOH B 503 O 85.0 170.4 85.7 100.6 REMARK 620 6 HOH B 505 O 91.0 92.1 172.5 85.1 96.6 REMARK 620 N 1 2 3 4 5 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG A 312 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG B 312 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE AAY A 401 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE AAY B 501 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1XDG RELATED DB: PDB REMARK 900 THE SAME PROTEIN COMPLEXED WITH LFA878 REMARK 999 REMARK 999 SEQUENCE REMARK 999 THE RESIDUE IS TRP ACCORDING TO LARSON R.S. ET AL. REMARK 999 [J. CELL BIOL. 108:703-712(1989)] OR LOFTUS B.J. ET AL. REMARK 999 [GENOMICS 60:295-308(1999)]. DBREF 1XDD A 127 311 UNP P20701 ITAL_HUMAN 152 336 DBREF 1XDD B 127 311 UNP P20701 ITAL_HUMAN 152 336 SEQADV 1XDD MET A 124 UNP P20701 CLONING ARTIFACT SEQADV 1XDD ALA A 125 UNP P20701 CLONING ARTIFACT SEQADV 1XDD SER A 126 UNP P20701 CLONING ARTIFACT SEQADV 1XDD TRP A 189 UNP P20701 ARG 214 SEE REMARK 999 SEQADV 1XDD MET B 124 UNP P20701 CLONING ARTIFACT SEQADV 1XDD ALA B 125 UNP P20701 CLONING ARTIFACT SEQADV 1XDD SER B 126 UNP P20701 CLONING ARTIFACT SEQADV 1XDD TRP B 189 UNP P20701 ARG 214 SEE REMARK 999 SEQRES 1 A 188 MET ALA SER LYS GLY ASN VAL ASP LEU VAL PHE LEU PHE SEQRES 2 A 188 ASP GLY SER MET SER LEU GLN PRO ASP GLU PHE GLN LYS SEQRES 3 A 188 ILE LEU ASP PHE MET LYS ASP VAL MET LYS LYS LEU SER SEQRES 4 A 188 ASN THR SER TYR GLN PHE ALA ALA VAL GLN PHE SER THR SEQRES 5 A 188 SER TYR LYS THR GLU PHE ASP PHE SER ASP TYR VAL LYS SEQRES 6 A 188 TRP LYS ASP PRO ASP ALA LEU LEU LYS HIS VAL LYS HIS SEQRES 7 A 188 MET LEU LEU LEU THR ASN THR PHE GLY ALA ILE ASN TYR SEQRES 8 A 188 VAL ALA THR GLU VAL PHE ARG GLU GLU LEU GLY ALA ARG SEQRES 9 A 188 PRO ASP ALA THR LYS VAL LEU ILE ILE ILE THR ASP GLY SEQRES 10 A 188 GLU ALA THR ASP SER GLY ASN ILE ASP ALA ALA LYS ASP SEQRES 11 A 188 ILE ILE ARG TYR ILE ILE GLY ILE GLY LYS HIS PHE GLN SEQRES 12 A 188 THR LYS GLU SER GLN GLU THR LEU HIS LYS PHE ALA SER SEQRES 13 A 188 LYS PRO ALA SER GLU PHE VAL LYS ILE LEU ASP THR PHE SEQRES 14 A 188 GLU LYS LEU LYS ASP LEU PHE THR GLU LEU GLN LYS LYS SEQRES 15 A 188 ILE TYR VAL ILE GLU GLY SEQRES 1 B 188 MET ALA SER LYS GLY ASN VAL ASP LEU VAL PHE LEU PHE SEQRES 2 B 188 ASP GLY SER MET SER LEU GLN PRO ASP GLU PHE GLN LYS SEQRES 3 B 188 ILE LEU ASP PHE MET LYS ASP VAL MET LYS LYS LEU SER SEQRES 4 B 188 ASN THR SER TYR GLN PHE ALA ALA VAL GLN PHE SER THR SEQRES 5 B 188 SER TYR LYS THR GLU PHE ASP PHE SER ASP TYR VAL LYS SEQRES 6 B 188 TRP LYS ASP PRO ASP ALA LEU LEU LYS HIS VAL LYS HIS SEQRES 7 B 188 MET LEU LEU LEU THR ASN THR PHE GLY ALA ILE ASN TYR SEQRES 8 B 188 VAL ALA THR GLU VAL PHE ARG GLU GLU LEU GLY ALA ARG SEQRES 9 B 188 PRO ASP ALA THR LYS VAL LEU ILE ILE ILE THR ASP GLY SEQRES 10 B 188 GLU ALA THR ASP SER GLY ASN ILE ASP ALA ALA LYS ASP SEQRES 11 B 188 ILE ILE ARG TYR ILE ILE GLY ILE GLY LYS HIS PHE GLN SEQRES 12 B 188 THR LYS GLU SER GLN GLU THR LEU HIS LYS PHE ALA SER SEQRES 13 B 188 LYS PRO ALA SER GLU PHE VAL LYS ILE LEU ASP THR PHE SEQRES 14 B 188 GLU LYS LEU LYS ASP LEU PHE THR GLU LEU GLN LYS LYS SEQRES 15 B 188 ILE TYR VAL ILE GLU GLY HET MG A 312 1 HET AAY A 401 60 HET MG B 312 1 HET AAY B 501 60 HETNAM MG MAGNESIUM ION HETNAM AAY 8-[2-((2S)-4-HYDROXY-1-{[5-(HYDROXYMETHYL)-6-METHOXY-2- HETNAM 2 AAY NAPHTHYL]METHYL}-6-OXOPIPERIDIN-2-YL)ETHYL]-3,7- HETNAM 3 AAY DIMETHYL-1,2,3,7,8,8A-HEXAHYDRONAPHTHALEN-1-YL 2- HETNAM 4 AAY METHYLBUTANOATE HETSYN AAY LFA703 FORMUL 3 MG 2(MG 2+) FORMUL 4 AAY 2(C37 H49 N O6) FORMUL 7 HOH *277(H2 O) HELIX 1 1 GLN A 143 LEU A 161 1 19 HELIX 2 2 ASP A 182 LYS A 190 1 9 HELIX 3 3 ASP A 191 LEU A 196 1 6 HELIX 4 4 ASN A 207 VAL A 219 1 13 HELIX 5 5 ARG A 221 GLY A 225 5 5 HELIX 6 6 ILE A 248 LYS A 252 5 5 HELIX 7 7 LYS A 263 GLN A 266 5 4 HELIX 8 8 THR A 267 THR A 273 1 7 HELIX 9 9 LEU A 274 ALA A 278 5 5 HELIX 10 10 PRO A 281 PHE A 285 1 5 HELIX 11 11 GLU A 293 ILE A 306 1 14 HELIX 12 12 GLN B 143 LEU B 161 1 19 HELIX 13 13 ASP B 182 LYS B 190 1 9 HELIX 14 14 ASP B 191 LEU B 196 1 6 HELIX 15 15 ASN B 207 VAL B 219 1 13 HELIX 16 16 ARG B 221 GLY B 225 5 5 HELIX 17 17 ILE B 248 LYS B 252 5 5 HELIX 18 18 LYS B 263 GLN B 266 5 4 HELIX 19 19 THR B 267 THR B 273 1 7 HELIX 20 20 PRO B 281 PHE B 285 1 5 HELIX 21 21 GLU B 293 LYS B 305 1 13 SHEET 1 A 6 TYR A 177 PHE A 181 0 SHEET 2 A 6 TYR A 166 PHE A 173 -1 N GLN A 172 O LYS A 178 SHEET 3 A 6 VAL A 130 ASP A 137 1 N LEU A 132 O GLN A 167 SHEET 4 A 6 THR A 231 THR A 238 1 O ILE A 235 N LEU A 135 SHEET 5 A 6 ILE A 255 ILE A 261 1 O ILE A 259 N ILE A 236 SHEET 6 A 6 VAL A 286 LEU A 289 1 O LYS A 287 N ILE A 258 SHEET 1 B 2 TYR A 307 VAL A 308 0 SHEET 2 B 2 ILE B 306 TYR B 307 1 O TYR B 307 N TYR A 307 SHEET 1 C 6 TYR B 177 PHE B 181 0 SHEET 2 C 6 GLN B 167 PHE B 173 -1 N GLN B 172 O LYS B 178 SHEET 3 C 6 VAL B 130 ASP B 137 1 N PHE B 134 O VAL B 171 SHEET 4 C 6 THR B 231 THR B 238 1 O ILE B 235 N VAL B 133 SHEET 5 C 6 ILE B 255 ILE B 261 1 O ILE B 259 N ILE B 236 SHEET 6 C 6 VAL B 286 LEU B 289 1 O LEU B 289 N GLY B 260 LINK OG SER A 139 MG MG A 312 1555 1555 2.10 LINK OG SER A 141 MG MG A 312 1555 1555 2.07 LINK OD1 ASP A 239 MG MG A 312 1555 1555 2.16 LINK MG MG A 312 O HOH A 403 1555 1555 2.20 LINK MG MG A 312 O HOH A 405 1555 1555 2.03 LINK MG MG A 312 O HOH A 408 1555 1555 1.92 LINK OG SER B 139 MG MG B 312 1555 1555 2.08 LINK OG SER B 141 MG MG B 312 1555 1555 2.03 LINK OD1 ASP B 239 MG MG B 312 1555 1555 2.09 LINK MG MG B 312 O HOH B 502 1555 1555 2.10 LINK MG MG B 312 O HOH B 503 1555 1555 2.06 LINK MG MG B 312 O HOH B 505 1555 1555 2.04 CISPEP 1 LYS A 280 PRO A 281 0 16.09 CISPEP 2 LYS B 280 PRO B 281 0 4.43 SITE 1 AC1 6 SER A 139 SER A 141 ASP A 239 HOH A 403 SITE 2 AC1 6 HOH A 405 HOH A 408 SITE 1 AC2 6 SER B 139 SER B 141 ASP B 239 HOH B 502 SITE 2 AC2 6 HOH B 503 HOH B 505 SITE 1 AC3 16 GLY A 128 VAL A 130 LEU A 132 TYR A 166 SITE 2 AC3 16 THR A 231 ILE A 235 TYR A 257 HOH A 421 SITE 3 AC3 16 HOH A 433 HOH A 476 HOH A 487 HOH A 507 SITE 4 AC3 16 GLN B 303 LYS B 304 LYS B 305 TYR B 307 SITE 1 AC4 11 LYS A 304 TYR A 307 VAL B 130 TYR B 166 SITE 2 AC4 11 THR B 231 ILE B 235 TYR B 257 GLU B 284 SITE 3 AC4 11 GLU B 301 HOH B 528 HOH B 541 CRYST1 116.700 116.700 82.800 90.00 90.00 90.00 P 43 21 2 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 0.008569 0.000000 0.000000 0.00000 SCALE2 0.000000 0.008569 0.000000 0.00000 SCALE3 0.000000 0.000000 0.012077 0.00000