PDB Short entry for 1JX5 HEADER CELL ADHESION 05-SEP-01 1JX5 TITLE THEORETICAL MODEL OF THE BETA-PROPELLER DOMAIN OF INTEGRIN TITLE 2 ALPHAIIB COMPND MOL_ID: 1; COMPND 2 MOLECULE: INTEGRIN ALPHA-IIB; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: BETA-PROPELLER DOMAIN SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 3 ORGANISM_COMMON: HUMAN KEYWDS BETA-PROPELLER, CALCIUM EXPDTA THEORETICAL MODEL AUTHOR T.KAMATA,K.K.TIEU,T.A.SPRINGER,Y.TAKADA REVDAT 2 21-DEC-01 1JX5 1 JRNL REVDAT 1 19-SEP-01 1JX5 0 JRNL AUTH T.KAMATA,K.K.TIEU,A.IRIE,T.A.SPRINGER,Y.TAKADA JRNL TITL AMINO ACID RESIDUES IN THE ALPHA IIB SUBUNIT THAT JRNL TITL 2 ARE CRITICAL FOR LIGAND BINDING TO INTEGRIN ALPHA JRNL TITL 3 IIBBETA 3 ARE CLUSTERED IN THE BETA-PROPELLER JRNL TITL 4 MODEL. JRNL REF J.BIOL.CHEM. V. 276 44275 2001 JRNL REFN ASTM JBCHA3 US ISSN 0021-9258 REMARK 1 REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : NULL REMARK 3 AUTHORS : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: SEGMOD BY M. LEVITT WAS ALSO USED REMARK 3 FOR REFINEMENT. REMARK 4 REMARK 4 1JX5 COMPLIES WITH FORMAT V. 2.3, 09-JULY-1998 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 06-SEP-2001. REMARK 100 THE RCSB ID CODE IS RCSB014288. REMARK 220 REMARK 220 EXPERIMENTAL DETAILS REMARK 220 EXPERIMENT TYPE : THEORETICAL MODELLING REMARK 220 REMARK 220 REMARK: NULL REMARK 225 REMARK 225 THEORETICAL MODEL REMARK 225 THE COORDINATES IN THIS ENTRY REPRESENT A MODEL STRUCTURE. REMARK 225 PROTEIN DATA BANK CONVENTIONS REQUIRE THAT CRYST1 AND REMARK 225 SCALE RECORDS BE INCLUDED, BUT THE VALUES ON THESE REMARK 225 RECORDS ARE MEANINGLESS. 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),F6.3) REMARK 500 REMARK 500 EXPECTED VALUES: ENGH AND HUBER, 1991 REMARK 500 REMARK 500 M RES CSSEQI ATM1 RES CSSEQI ATM2 DEVIATION REMARK 500 CYS A 146 CB CYS A 146 SG 0.134 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: ENGH AND HUBER, 1991 REMARK 500 REMARK 500 M RES CSSEQI ATM1 ATM2 ATM3 REMARK 500 GLN A 18 CG - CD - OE1 ANGL. DEV. =-75.9 DEGREES REMARK 500 GLN A 18 CG - CD - NE2 ANGL. DEV. =-23.2 DEGREES REMARK 500 CYS A 146 CB - CA - C ANGL. DEV. =-30.2 DEGREES REMARK 500 ASN A 227 CB - CG - OD1 ANGL. DEV. =-74.7 DEGREES REMARK 500 ASN A 227 CB - CG - ND2 ANGL. DEV. =-23.9 DEGREES REMARK 500 GLN A 395 CG - CD - OE1 ANGL. DEV. =-75.4 DEGREES REMARK 500 GLN A 395 CG - CD - NE2 ANGL. DEV. =-23.6 DEGREES 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 M RES CSSEQI PSI PHI REMARK 500 THR A 42 113.60 36.19 REMARK 500 ASP A 71 -51.32 64.95 REMARK 500 THR A 86 137.10 72.86 REMARK 500 GLU A 157 -111.30 37.88 REMARK 500 ASP A 245 38.68 -12.78 REMARK 500 ASN A 249 -96.82 122.45 REMARK 500 TRP A 260 -128.72 115.24 REMARK 500 ASP A 297 83.48 105.19 REMARK 500 MET A 314 120.20 40.50 REMARK 500 SER A 316 -115.65 24.92 REMARK 500 ARG A 317 -23.24 142.60 REMARK 500 LYS A 321 -38.73 63.71 REMARK 500 SER A 358 -51.46 68.14 REMARK 500 TYR A 371 -75.81 79.97 REMARK 500 ILE A 427 36.16 -4.69 REMARK 500 TYR A 432 -84.31 104.85 REMARK 500 TYR A 440 119.06 21.16 REMARK 500 ASN A 443 -117.82 -167.08 DBREF 1JX5 A 1 452 UNP P08514 ITAB_HUMAN 32 483 SEQRES 1 A 452 LEU ASN LEU ASP PRO VAL GLN LEU THR PHE TYR ALA GLY SEQRES 2 A 452 PRO ASN GLY SER GLN PHE GLY PHE SER LEU ASP PHE HIS SEQRES 3 A 452 LYS ASP SER HIS GLY ARG VAL ALA ILE VAL VAL GLY ALA SEQRES 4 A 452 PRO ARG THR LEU GLY PRO SER GLN GLU GLU THR GLY GLY SEQRES 5 A 452 VAL PHE LEU CYS PRO TRP ARG ALA GLU GLY GLY GLN CYS SEQRES 6 A 452 PRO SER LEU LEU PHE ASP LEU ARG ASP GLU THR ARG ASN SEQRES 7 A 452 VAL GLY SER GLN THR LEU GLN THR PHE LYS ALA ARG GLN SEQRES 8 A 452 GLY LEU GLY ALA SER VAL VAL SER TRP SER ASP VAL ILE SEQRES 9 A 452 VAL ALA CYS ALA PRO TRP GLN HIS TRP ASN VAL LEU GLU SEQRES 10 A 452 LYS THR GLU GLU ALA GLU LYS THR PRO VAL GLY SER CYS SEQRES 11 A 452 PHE LEU ALA GLN PRO GLU SER GLY ARG ARG ALA GLU TYR SEQRES 12 A 452 SER PRO CYS ARG GLY ASN THR LEU SER ARG ILE TYR VAL SEQRES 13 A 452 GLU ASN ASP PHE SER TRP ASP LYS ARG TYR CYS GLU ALA SEQRES 14 A 452 GLY PHE SER SER VAL VAL THR GLN ALA GLY GLU LEU VAL SEQRES 15 A 452 LEU GLY ALA PRO GLY GLY TYR TYR PHE LEU GLY LEU LEU SEQRES 16 A 452 ALA GLN ALA PRO VAL ALA ASP ILE PHE SER SER TYR ARG SEQRES 17 A 452 PRO GLY ILE LEU LEU TRP HIS VAL SER SER GLN SER LEU SEQRES 18 A 452 SER PHE ASP SER SER ASN PRO GLU TYR PHE ASP GLY TYR SEQRES 19 A 452 TRP GLY TYR SER VAL ALA VAL GLY GLU PHE ASP GLY ASP SEQRES 20 A 452 LEU ASN THR THR GLU TYR VAL VAL GLY ALA PRO THR TRP SEQRES 21 A 452 SER TRP THR LEU GLY ALA VAL GLU ILE LEU ASP SER TYR SEQRES 22 A 452 TYR GLN ARG LEU HIS ARG LEU ARG ALA GLU GLN MET ALA SEQRES 23 A 452 SER TYR PHE GLY HIS SER VAL ALA VAL THR ASP VAL ASN SEQRES 24 A 452 GLY ASP GLY ARG HIS ASP LEU LEU VAL GLY ALA PRO LEU SEQRES 25 A 452 TYR MET GLU SER ARG ALA ASP ARG LYS LEU ALA GLU VAL SEQRES 26 A 452 GLY ARG VAL TYR LEU PHE LEU GLN PRO ARG GLY PRO HIS SEQRES 27 A 452 ALA LEU GLY ALA PRO SER LEU LEU LEU THR GLY THR GLN SEQRES 28 A 452 LEU TYR GLY ARG PHE GLY SER ALA ILE ALA PRO LEU GLY SEQRES 29 A 452 ASP LEU ASP ARG ASP GLY TYR ASN ASP ILE ALA VAL ALA SEQRES 30 A 452 ALA PRO TYR GLY GLY PRO SER GLY ARG GLY GLN VAL LEU SEQRES 31 A 452 VAL PHE LEU GLY GLN SER GLU GLY LEU ARG SER ARG PRO SEQRES 32 A 452 SER GLN VAL LEU ASP SER PRO PHE PRO THR GLY SER ALA SEQRES 33 A 452 PHE GLY PHE SER LEU ARG GLY ALA VAL ASP ILE ASP ASP SEQRES 34 A 452 ASN GLY TYR PRO ASP LEU ILE VAL GLY ALA TYR GLY ALA SEQRES 35 A 452 ASN GLN VAL ALA VAL TYR ARG ALA GLN PRO HET CA A 453 1 HET CA A 454 1 HET CA A 455 1 HET CA A 456 1 HETNAM CA CALCIUM ION FORMUL 2 CA 4(CA 2+) HELIX 1 1 TRP A 110 ASN A 114 5 5 SHEET 1 A 4 VAL A 6 TYR A 11 0 SHEET 2 A 4 VAL A 445 ARG A 449 -1 O ARG A 449 N VAL A 6 SHEET 3 A 4 ASP A 434 VAL A 437 -1 N LEU A 435 O TYR A 448 SHEET 4 A 4 LEU A 421 ARG A 422 -1 N ARG A 422 O ILE A 436 SHEET 1 B 4 SER A 22 PHE A 25 0 SHEET 2 B 4 ALA A 34 GLY A 38 -1 O VAL A 36 N ASP A 24 SHEET 3 B 4 GLY A 52 PRO A 57 -1 O PHE A 54 N VAL A 37 SHEET 4 B 4 SER A 67 PHE A 70 -1 O LEU A 69 N VAL A 53 SHEET 1 C 4 VAL A 97 SER A 99 0 SHEET 2 C 4 ILE A 104 ALA A 106 -1 O VAL A 105 N VAL A 98 SHEET 3 C 4 CYS A 130 GLN A 134 -1 O ALA A 133 N ILE A 104 SHEET 4 C 4 GLY A 138 TYR A 143 -1 O ALA A 141 N LEU A 132 SHEET 1 D 3 SER A 172 VAL A 175 0 SHEET 2 D 3 GLU A 180 ALA A 185 -1 O GLY A 184 N SER A 172 SHEET 3 D 3 LEU A 194 PRO A 199 -1 O LEU A 194 N ALA A 185 SHEET 1 E 4 VAL A 239 ALA A 240 0 SHEET 2 E 4 GLU A 252 VAL A 255 -1 O VAL A 254 N ALA A 240 SHEET 3 E 4 ALA A 266 ASP A 271 -1 O GLU A 268 N VAL A 255 SHEET 4 E 4 ARG A 276 ARG A 281 -1 O HIS A 278 N ILE A 269 SHEET 1 F 4 VAL A 293 VAL A 295 0 SHEET 2 F 4 LEU A 306 ALA A 310 -1 O LEU A 307 N ALA A 294 SHEET 3 F 4 ARG A 327 LEU A 332 -1 O PHE A 331 N LEU A 306 SHEET 4 F 4 GLY A 341 THR A 348 -1 O LEU A 347 N VAL A 328 SHEET 1 G 4 GLY A 357 PRO A 362 0 SHEET 2 G 4 ASP A 373 ALA A 377 -1 O ALA A 377 N GLY A 357 SHEET 3 G 4 VAL A 389 LEU A 393 -1 O LEU A 390 N VAL A 376 SHEET 4 G 4 PRO A 403 LEU A 407 -1 O SER A 404 N VAL A 391 SSBOND 1 CYS A 56 CYS A 65 SSBOND 2 CYS A 107 CYS A 130 SSBOND 3 CYS A 146 CYS A 167 CISPEP 1 GLY A 44 PRO A 45 0 -6.04 CISPEP 2 SER A 144 PRO A 145 0 -1.48 CISPEP 3 ALA A 310 PRO A 311 0 -2.72 CISPEP 4 VAL A 425 ASP A 426 0 4.20 CRYST1 1.000 1.000 1.000 90.00 90.00 90.00 P 1 1 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 1.000000 0.000000 0.000000 0.00000 SCALE2 0.000000 1.000000 0.000000 0.00000 SCALE3 0.000000 0.000000 1.000000 0.00000