HEADER CELL ADHESION 09-NOV-16 5MC9 TITLE CRYSTAL STRUCTURE OF THE HETEROTRIMERIC INTEGRIN-BINDING REGION OF TITLE 2 LAMININ-111 COMPND MOL_ID: 1; COMPND 2 MOLECULE: LAMININ SUBUNIT ALPHA-1; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: UNP RESIDUES 2079-2707; COMPND 5 SYNONYM: LAMININ A CHAIN,LAMININ-1 SUBUNIT ALPHA,LAMININ-3 SUBUNIT COMPND 6 ALPHA,S-LAMININ SUBUNIT ALPHA,S-LAM ALPHA; COMPND 7 ENGINEERED: YES; COMPND 8 OTHER_DETAILS: MOUSE LAMININ ALPHA1 CHAIN, RESIDUES WITH DISORDERED COMPND 9 SIDE CHAINS ARE ALANINE; COMPND 10 MOL_ID: 2; COMPND 11 MOLECULE: LAMININ SUBUNIT BETA-1; COMPND 12 CHAIN: B; COMPND 13 FRAGMENT: UNP RESIDUES 1735-1786; COMPND 14 SYNONYM: LAMININ B1 CHAIN,LAMININ-1 SUBUNIT BETA,LAMININ-10 SUBUNIT COMPND 15 BETA,LAMININ-12 SUBUNIT BETA,LAMININ-2 SUBUNIT BETA,LAMININ-6 SUBUNIT COMPND 16 BETA,LAMININ-8 SUBUNIT BETA; COMPND 17 ENGINEERED: YES; COMPND 18 OTHER_DETAILS: MOUSE LAMININ BETA1 CHAIN, RESIDUES WITH DISORDERED COMPND 19 SIDE CHAINS ARE ALANINE; COMPND 20 MOL_ID: 3; COMPND 21 MOLECULE: LAMININ SUBUNIT GAMMA-1; COMPND 22 CHAIN: C; COMPND 23 FRAGMENT: UNP RESIDUES 1548-1607; COMPND 24 SYNONYM: LAMININ B2 CHAIN,LAMININ-1 SUBUNIT GAMMA,LAMININ-10 SUBUNIT COMPND 25 GAMMA,LAMININ-11 SUBUNIT GAMMA,LAMININ-2 SUBUNIT GAMMA,LAMININ-3 COMPND 26 SUBUNIT GAMMA,LAMININ-4 SUBUNIT GAMMA,LAMININ-6 SUBUNIT GAMMA, COMPND 27 LAMININ-7 SUBUNIT GAMMA,LAMININ-8 SUBUNIT GAMMA,LAMININ-9 SUBUNIT COMPND 28 GAMMA,S-LAMININ SUBUNIT GAMMA,S-LAM GAMMA; COMPND 29 ENGINEERED: YES; COMPND 30 OTHER_DETAILS: MOUSE LAMININ GAMMA1 CHAIN, RESIDUES WITH DISORDERED COMPND 31 SIDE CHAINS ARE ALANINE SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: MUS MUSCULUS; SOURCE 3 ORGANISM_COMMON: MOUSE; SOURCE 4 ORGANISM_TAXID: 10090; SOURCE 5 GENE: LAMA1, LAMA, LAMA-1; SOURCE 6 EXPRESSION_SYSTEM: HOMO SAPIENS; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 9606; SOURCE 8 EXPRESSION_SYSTEM_CELL_LINE: HEK293F; SOURCE 9 MOL_ID: 2; SOURCE 10 ORGANISM_SCIENTIFIC: MUS MUSCULUS; SOURCE 11 ORGANISM_COMMON: MOUSE; SOURCE 12 ORGANISM_TAXID: 10090; SOURCE 13 GENE: LAMB1, LAMB-1, LAMB1-1; SOURCE 14 EXPRESSION_SYSTEM: HOMO SAPIENS; SOURCE 15 EXPRESSION_SYSTEM_TAXID: 9606; SOURCE 16 EXPRESSION_SYSTEM_CELL_LINE: HEK293F; SOURCE 17 MOL_ID: 3; SOURCE 18 ORGANISM_SCIENTIFIC: MUS MUSCULUS; SOURCE 19 ORGANISM_COMMON: MOUSE; SOURCE 20 ORGANISM_TAXID: 10090; SOURCE 21 GENE: LAMC1, LAMB-2, LAMC-1; SOURCE 22 EXPRESSION_SYSTEM: HOMO SAPIENS; SOURCE 23 EXPRESSION_SYSTEM_TAXID: 9606; SOURCE 24 EXPRESSION_SYSTEM_CELL_LINE: HEK293F KEYWDS EXTRACELLULAR MATRIX, CELL ADHESION, COILED COIL, LAMININ G-LIKE KEYWDS 2 DOMAIN EXPDTA X-RAY DIFFRACTION AUTHOR D.PULIDO,E.HOHENESTER REVDAT 2 22-MAR-17 5MC9 1 JRNL REVDAT 1 08-FEB-17 5MC9 0 JRNL AUTH D.PULIDO,S.A.HUSSAIN,E.HOHENESTER JRNL TITL CRYSTAL STRUCTURE OF THE HETEROTRIMERIC INTEGRIN-BINDING JRNL TITL 2 REGION OF LAMININ-111. JRNL REF STRUCTURE V. 25 530 2017 JRNL REFN ISSN 1878-4186 JRNL PMID 28132784 JRNL DOI 10.1016/J.STR.2017.01.002 REMARK 2 REMARK 2 RESOLUTION. 2.13 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 1.9_1692 REMARK 3 AUTHORS : PAUL ADAMS,PAVEL AFONINE,VINCENT CHEN,IAN REMARK 3 : DAVIS,KRESHNA GOPAL,RALF GROSSE-KUNSTLEVE, REMARK 3 : LI-WEI HUNG,ROBERT IMMORMINO,TOM IOERGER, REMARK 3 : AIRLIE MCCOY,ERIK MCKEE,NIGEL MORIARTY, REMARK 3 : REETAL PAI,RANDY READ,JANE RICHARDSON, REMARK 3 : DAVID RICHARDSON,TOD ROMO,JIM SACCHETTINI, REMARK 3 : NICHOLAS SAUTER,JACOB SMITH,LAURENT REMARK 3 : STORONI,TOM TERWILLIGER,PETER ZWART REMARK 3 REMARK 3 REFINEMENT TARGET : NULL REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.13 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 56.90 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.350 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.2 REMARK 3 NUMBER OF REFLECTIONS : 47240 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.212 REMARK 3 R VALUE (WORKING SET) : 0.210 REMARK 3 FREE R VALUE : 0.238 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.880 REMARK 3 FREE R VALUE TEST SET COUNT : 2306 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT (IN BINS). REMARK 3 BIN RESOLUTION RANGE COMPL. NWORK NFREE RWORK RFREE REMARK 3 1 56.9000 - 5.3661 0.99 3003 166 0.1934 0.2081 REMARK 3 2 5.3661 - 4.2596 0.99 2838 157 0.1545 0.1688 REMARK 3 3 4.2596 - 3.7213 0.98 2841 131 0.1707 0.1817 REMARK 3 4 3.7213 - 3.3811 0.98 2786 144 0.1937 0.2369 REMARK 3 5 3.3811 - 3.1388 0.98 2753 156 0.2205 0.2648 REMARK 3 6 3.1388 - 2.9537 0.99 2824 129 0.2353 0.2776 REMARK 3 7 2.9537 - 2.8058 1.00 2838 121 0.2369 0.2954 REMARK 3 8 2.8058 - 2.6837 1.00 2841 121 0.2410 0.3080 REMARK 3 9 2.6837 - 2.5804 1.00 2782 147 0.2467 0.3031 REMARK 3 10 2.5804 - 2.4913 1.00 2784 143 0.2413 0.2757 REMARK 3 11 2.4913 - 2.4134 0.99 2763 151 0.2734 0.3084 REMARK 3 12 2.4134 - 2.3444 0.99 2761 173 0.2671 0.2966 REMARK 3 13 2.3444 - 2.2827 0.99 2782 150 0.2648 0.3072 REMARK 3 14 2.2827 - 2.2270 0.99 2754 145 0.2760 0.2927 REMARK 3 15 2.2270 - 2.1764 1.00 2789 140 0.2791 0.2923 REMARK 3 16 2.1764 - 2.1301 1.00 2795 132 0.2884 0.3148 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : NULL REMARK 3 SOLVENT RADIUS : 1.11 REMARK 3 SHRINKAGE RADIUS : 0.90 REMARK 3 K_SOL : NULL REMARK 3 B_SOL : NULL REMARK 3 REMARK 3 ERROR ESTIMATES. REMARK 3 COORDINATE ERROR (MAXIMUM-LIKELIHOOD BASED) : 0.260 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 25.190 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : NULL REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : NULL REMARK 3 B22 (A**2) : NULL REMARK 3 B33 (A**2) : NULL REMARK 3 B12 (A**2) : NULL REMARK 3 B13 (A**2) : NULL REMARK 3 B23 (A**2) : NULL REMARK 3 REMARK 3 TWINNING INFORMATION. REMARK 3 FRACTION: NULL REMARK 3 OPERATOR: NULL REMARK 3 REMARK 3 DEVIATIONS FROM IDEAL VALUES. REMARK 3 RMSD COUNT REMARK 3 BOND : 0.004 5421 REMARK 3 ANGLE : 0.698 7325 REMARK 3 CHIRALITY : 0.032 843 REMARK 3 PLANARITY : 0.003 947 REMARK 3 DIHEDRAL : 11.214 2004 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 1 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: ALL REMARK 3 ORIGIN FOR THE GROUP (A): 6.8846 -16.7014 -15.4714 REMARK 3 T TENSOR REMARK 3 T11: 0.2626 T22: 0.2293 REMARK 3 T33: 0.2442 T12: -0.0278 REMARK 3 T13: 0.0029 T23: 0.0334 REMARK 3 L TENSOR REMARK 3 L11: 0.7767 L22: 0.2663 REMARK 3 L33: 0.6700 L12: -0.0862 REMARK 3 L13: 0.2031 L23: 0.0708 REMARK 3 S TENSOR REMARK 3 S11: 0.0250 S12: 0.0468 S13: -0.0218 REMARK 3 S21: -0.0043 S22: -0.0021 S23: 0.0283 REMARK 3 S31: 0.0531 S32: 0.0009 S33: -0.0092 REMARK 3 REMARK 3 NCS DETAILS REMARK 3 NUMBER OF NCS GROUPS : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 5MC9 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 09-NOV-16. REMARK 100 THE DEPOSITION ID IS D_1200002263. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 11-SEP-16 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : NULL REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : DIAMOND REMARK 200 BEAMLINE : I04-1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.920 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS 6M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XIA2 REMARK 200 DATA SCALING SOFTWARE : AIMLESS REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 47309 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.130 REMARK 200 RESOLUTION RANGE LOW (A) : 56.900 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.4 REMARK 200 DATA REDUNDANCY : 4.300 REMARK 200 R MERGE (I) : 0.09200 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 11.5000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.13 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.19 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.8 REMARK 200 DATA REDUNDANCY IN SHELL : 4.30 REMARK 200 R MERGE FOR SHELL (I) : 0.78000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 1.900 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHASER REMARK 200 STARTING MODEL: 2WJS REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 55.29 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.75 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.02 M MAGNESIUM CHLORIDE HEXAHYDRATE, REMARK 280 0.1 M NA-HEPES (PH 7.5), 22% W/V POLY(ACRYLIC ACID SODIUM SALT) REMARK 280 5100, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 288K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 21 21 21 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X+1/2,-Y,Z+1/2 REMARK 290 3555 -X,Y+1/2,-Z+1/2 REMARK 290 4555 X+1/2,-Y+1/2,-Z 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 31.38000 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 67.62000 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 49.18000 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 67.62000 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 31.38000 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 49.18000 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 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: TRIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TRIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 6470 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 33310 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -76.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B, C 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 ALA A 2075 REMARK 465 PRO A 2076 REMARK 465 LEU A 2077 REMARK 465 ALA A 2078 REMARK 465 MET A 2079 REMARK 465 LYS A 2080 REMARK 465 ASP A 2081 REMARK 465 MET A 2082 REMARK 465 ALA A 2539 REMARK 465 GLU A 2540 REMARK 465 GLU A 2541 REMARK 465 ALA A 2542 REMARK 465 GLY A 2543 REMARK 465 GLY A 2544 REMARK 465 ALA A 2545 REMARK 465 GLN A 2546 REMARK 465 GLN A 2688 REMARK 465 SER A 2689 REMARK 465 LEU A 2690 REMARK 465 HIS A 2691 REMARK 465 ARG A 2692 REMARK 465 GLU A 2693 REMARK 465 HIS A 2694 REMARK 465 GLY A 2695 REMARK 465 GLU A 2696 REMARK 465 LEU A 2697 REMARK 465 PRO A 2698 REMARK 465 PRO A 2699 REMARK 465 GLU A 2700 REMARK 465 PRO A 2701 REMARK 465 PRO A 2702 REMARK 465 THR A 2703 REMARK 465 LEU A 2704 REMARK 465 PRO A 2705 REMARK 465 GLN A 2706 REMARK 465 PRO A 2707 REMARK 465 GLY B 1731 REMARK 465 ALA B 1732 REMARK 465 LEU B 1733 REMARK 465 ALA B 1734 REMARK 465 SER B 1735 REMARK 465 ALA C 1544 REMARK 465 PRO C 1545 REMARK 465 LEU C 1546 REMARK 465 ALA C 1547 REMARK 465 LYS C 1548 REMARK 465 ALA C 1549 REMARK 465 SER C 1550 REMARK 465 ASP C 1551 REMARK 465 LEU C 1552 REMARK 465 LYS C 1606 REMARK 465 PRO C 1607 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 A2083 CG CD OE1 OE2 REMARK 470 MET A2084 CG SD CE REMARK 470 GLN A2085 CG CD OE1 NE2 REMARK 470 ASN A2087 CG OD1 ND2 REMARK 470 LEU A2088 CG CD1 CD2 REMARK 470 LEU A2089 CG CD1 CD2 REMARK 470 LEU A2090 CG CD1 CD2 REMARK 470 ASP A2091 CG OD1 OD2 REMARK 470 GLU A2101 CG CD OE1 OE2 REMARK 470 GLU A2232 CG CD OE1 OE2 REMARK 470 LYS A2267 CG CD CE NZ REMARK 470 LYS A2288 CG CD CE NZ REMARK 470 ARG A2368 CG CD NE CZ NH1 NH2 REMARK 470 GLU A2438 CG CD OE1 OE2 REMARK 470 LYS A2439 CG CD CE NZ REMARK 470 ASP A2538 CG OD1 OD2 REMARK 470 HIS A2548 CG ND1 CD2 CE1 NE2 REMARK 470 LYS A2623 CG CD CE NZ REMARK 470 GLU A2637 CG CD OE1 OE2 REMARK 470 MET A2643 CG SD CE REMARK 470 LYS B1736 CG CD CE NZ REMARK 470 LEU B1737 CG CD1 CD2 REMARK 470 GLN B1738 CG CD OE1 NE2 REMARK 470 LEU B1739 CG CD1 CD2 REMARK 470 LEU B1740 CG CD1 CD2 REMARK 470 GLU B1741 CG CD OE1 OE2 REMARK 470 ASP B1742 CG OD1 OD2 REMARK 470 ASP C1553 CG OD1 OD2 REMARK 470 ARG C1554 CG CD NE CZ NH1 NH2 REMARK 470 LYS C1555 CG CD CE NZ REMARK 470 VAL C1556 CG1 CG2 REMARK 470 SER C1557 OG REMARK 470 ASP C1558 CG OD1 OD2 REMARK 470 LEU C1559 CG CD1 CD2 REMARK 470 GLU C1560 CG CD OE1 OE2 REMARK 470 SER C1561 OG REMARK 470 GLU C1605 CG CD OE1 OE2 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 MET A2084 -41.42 69.02 REMARK 500 ASN A2205 49.81 -83.67 REMARK 500 SER A2314 -20.73 80.49 REMARK 500 TYR A2323 170.41 179.95 REMARK 500 SER A2379 33.26 -143.00 REMARK 500 ARG A2404 -114.45 54.98 REMARK 500 ARG A2473 -13.00 77.37 REMARK 500 CYS A2489 41.64 -141.29 REMARK 500 SER A2586 53.44 -105.07 REMARK 500 ARG A2599 -106.00 56.92 REMARK 500 ASP A2607 -124.27 52.21 REMARK 500 GLU A2673 116.64 -165.96 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 CA A9001 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A2173 OD2 REMARK 620 2 LEU A2190 O 83.0 REMARK 620 3 VAL A2247 O 96.0 91.5 REMARK 620 4 ASP A2249 OD1 74.6 155.6 100.1 REMARK 620 5 HOH A9225 O 70.6 81.9 165.6 81.7 REMARK 620 6 HOH A9308 O 146.8 76.6 110.2 118.3 80.8 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CA A9002 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A2360 OD2 REMARK 620 2 LEU A2377 O 84.6 REMARK 620 3 ASP A2433 O 88.4 90.4 REMARK 620 4 ASN A2435 OD1 94.7 176.2 93.3 REMARK 620 5 HOH A9149 O 69.0 88.7 157.4 87.5 REMARK 620 6 HOH A9339 O 171.7 98.3 99.3 82.0 103.2 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 CA A 9001 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue CA A 9002 DBREF 5MC9 A 2079 2707 UNP P19137 LAMA1_MOUSE 2079 2707 DBREF 5MC9 B 1735 1786 UNP P02469 LAMB1_MOUSE 1735 1786 DBREF 5MC9 C 1548 1607 UNP P02468 LAMC1_MOUSE 1548 1607 SEQADV 5MC9 ALA A 2075 UNP P19137 EXPRESSION TAG SEQADV 5MC9 PRO A 2076 UNP P19137 EXPRESSION TAG SEQADV 5MC9 LEU A 2077 UNP P19137 EXPRESSION TAG SEQADV 5MC9 ALA A 2078 UNP P19137 EXPRESSION TAG SEQADV 5MC9 GLY B 1731 UNP P02469 EXPRESSION TAG SEQADV 5MC9 ALA B 1732 UNP P02469 EXPRESSION TAG SEQADV 5MC9 LEU B 1733 UNP P02469 EXPRESSION TAG SEQADV 5MC9 ALA B 1734 UNP P02469 EXPRESSION TAG SEQADV 5MC9 ALA C 1544 UNP P02468 EXPRESSION TAG SEQADV 5MC9 PRO C 1545 UNP P02468 EXPRESSION TAG SEQADV 5MC9 LEU C 1546 UNP P02468 EXPRESSION TAG SEQADV 5MC9 ALA C 1547 UNP P02468 EXPRESSION TAG SEQRES 1 A 633 ALA PRO LEU ALA MET LYS ASP MET GLU MET GLN ALA ASN SEQRES 2 A 633 LEU LEU LEU ASP ARG LEU LYS PRO LEU LYS THR LEU GLU SEQRES 3 A 633 GLU ASN LEU SER ARG ASN LEU SER GLU ILE LYS LEU LEU SEQRES 4 A 633 ILE SER ARG ALA ARG LYS GLN ALA ALA SER ILE LYS VAL SEQRES 5 A 633 ALA VAL SER ALA ASP ARG ASP CYS ILE ARG ALA TYR GLN SEQRES 6 A 633 PRO GLN THR SER SER THR ASN TYR ASN THR LEU ILE LEU SEQRES 7 A 633 ASN VAL LYS THR GLN GLU PRO ASP ASN LEU LEU PHE TYR SEQRES 8 A 633 LEU GLY SER SER SER SER SER ASP PHE LEU ALA VAL GLU SEQRES 9 A 633 MET ARG ARG GLY LYS VAL ALA PHE LEU TRP ASP LEU GLY SEQRES 10 A 633 SER GLY SER THR ARG LEU GLU PHE PRO GLU VAL SER ILE SEQRES 11 A 633 ASN ASN ASN ARG TRP HIS SER ILE TYR ILE THR ARG PHE SEQRES 12 A 633 GLY ASN MET GLY SER LEU SER VAL LYS GLU ALA SER ALA SEQRES 13 A 633 ALA GLU ASN PRO PRO VAL ARG THR SER LYS SER PRO GLY SEQRES 14 A 633 PRO SER LYS VAL LEU ASP ILE ASN ASN SER THR LEU MET SEQRES 15 A 633 PHE VAL GLY GLY LEU GLY GLY GLN ILE LYS LYS SER PRO SEQRES 16 A 633 ALA VAL LYS VAL THR HIS PHE LYS GLY CYS MET GLY GLU SEQRES 17 A 633 ALA PHE LEU ASN GLY LYS SER ILE GLY LEU TRP ASN TYR SEQRES 18 A 633 ILE GLU ARG GLU GLY LYS CYS ASN GLY CYS PHE GLY SER SEQRES 19 A 633 SER GLN ASN GLU ASP SER SER PHE HIS PHE ASP GLY SER SEQRES 20 A 633 GLY TYR ALA MET VAL GLU LYS THR LEU ARG PRO THR VAL SEQRES 21 A 633 THR GLN ILE VAL ILE LEU PHE SER THR PHE SER PRO ASN SEQRES 22 A 633 GLY LEU LEU PHE TYR LEU ALA SER ASN GLY THR LYS ASP SEQRES 23 A 633 PHE LEU SER ILE GLU LEU VAL ARG GLY ARG VAL LYS VAL SEQRES 24 A 633 MET VAL ASP LEU GLY SER GLY PRO LEU THR LEU MET THR SEQRES 25 A 633 ASP ARG ARG TYR ASN ASN GLY THR TRP TYR LYS ILE ALA SEQRES 26 A 633 PHE GLN ARG ASN ARG LYS GLN GLY LEU LEU ALA VAL PHE SEQRES 27 A 633 ASP ALA TYR ASP THR SER ASP LYS GLU THR LYS GLN GLY SEQRES 28 A 633 GLU THR PRO GLY ALA ALA SER ASP LEU ASN ARG LEU GLU SEQRES 29 A 633 LYS ASP LEU ILE TYR VAL GLY GLY LEU PRO HIS SER LYS SEQRES 30 A 633 ALA VAL ARG LYS GLY VAL SER SER ARG SER TYR VAL GLY SEQRES 31 A 633 CYS ILE LYS ASN LEU GLU ILE SER ARG SER THR PHE ASP SEQRES 32 A 633 LEU LEU ARG ASN SER TYR GLY VAL ARG LYS GLY CYS ALA SEQRES 33 A 633 LEU GLU PRO ILE GLN SER VAL SER PHE LEU ARG GLY GLY SEQRES 34 A 633 TYR VAL GLU MET PRO PRO LYS SER LEU SER PRO GLU SER SEQRES 35 A 633 SER LEU LEU ALA THR PHE ALA THR LYS ASN SER SER GLY SEQRES 36 A 633 ILE LEU LEU VAL ALA LEU GLY LYS ASP ALA GLU GLU ALA SEQRES 37 A 633 GLY GLY ALA GLN ALA HIS VAL PRO PHE PHE SER ILE MET SEQRES 38 A 633 LEU LEU GLU GLY ARG ILE GLU VAL HIS VAL ASN SER GLY SEQRES 39 A 633 ASP GLY THR SER LEU ARG LYS ALA LEU LEU HIS ALA PRO SEQRES 40 A 633 THR GLY SER TYR SER ASP GLY GLN GLU HIS SER ILE SER SEQRES 41 A 633 LEU VAL ARG ASN ARG ARG VAL ILE THR ILE GLN VAL ASP SEQRES 42 A 633 GLU ASN SER PRO VAL GLU MET LYS LEU GLY PRO LEU THR SEQRES 43 A 633 GLU GLY LYS THR ILE ASP ILE SER ASN LEU TYR ILE GLY SEQRES 44 A 633 GLY LEU PRO GLU ASP LYS ALA THR PRO MET LEU LYS MET SEQRES 45 A 633 ARG THR SER PHE HIS GLY CYS ILE LYS ASN VAL VAL LEU SEQRES 46 A 633 ASP ALA GLN LEU LEU ASP PHE THR HIS ALA THR GLY SER SEQRES 47 A 633 GLU GLN VAL GLU LEU ASP THR CYS LEU LEU ALA GLU GLU SEQRES 48 A 633 PRO MET GLN SER LEU HIS ARG GLU HIS GLY GLU LEU PRO SEQRES 49 A 633 PRO GLU PRO PRO THR LEU PRO GLN PRO SEQRES 1 B 56 GLY ALA LEU ALA SER LYS LEU GLN LEU LEU GLU ASP LEU SEQRES 2 B 56 GLU ARG LYS TYR GLU ASP ASN GLN LYS TYR LEU GLU ASP SEQRES 3 B 56 LYS ALA GLN GLU LEU VAL ARG LEU GLU GLY GLU VAL ARG SEQRES 4 B 56 SER LEU LEU LYS ASP ILE SER GLU LYS VAL ALA VAL TYR SEQRES 5 B 56 SER THR CYS LEU SEQRES 1 C 64 ALA PRO LEU ALA LYS ALA SER ASP LEU ASP ARG LYS VAL SEQRES 2 C 64 SER ASP LEU GLU SER GLU ALA ARG LYS GLN GLU ALA ALA SEQRES 3 C 64 ILE MET ASP TYR ASN ARG ASP ILE ALA GLU ILE ILE LYS SEQRES 4 C 64 ASP ILE HIS ASN LEU GLU ASP ILE LYS LYS THR LEU PRO SEQRES 5 C 64 THR GLY CYS PHE ASN THR PRO SER ILE GLU LYS PRO HET CA A9001 1 HET CA A9002 1 HETNAM CA CALCIUM ION FORMUL 4 CA 2(CA 2+) FORMUL 6 HOH *294(H2 O) HELIX 1 AA1 LEU A 2089 ASP A 2091 5 3 HELIX 2 AA2 ARG A 2092 SER A 2123 1 32 HELIX 3 AA3 GLY A 2617 GLU A 2621 5 5 HELIX 4 AA4 ASP A 2665 ALA A 2669 5 5 HELIX 5 AA5 GLN B 1738 CYS B 1785 1 48 HELIX 6 AA6 ARG C 1554 LEU C 1594 1 41 SHEET 1 AA1 6 ARG A2237 LYS A2240 0 SHEET 2 AA1 6 MET A2220 GLU A2227 -1 N LEU A2223 O ARG A2237 SHEET 3 AA1 6 HIS A2210 PHE A2217 -1 N SER A2211 O LYS A2226 SHEET 4 AA1 6 TYR A2147 LYS A2155 -1 N VAL A2154 O HIS A2210 SHEET 5 AA1 6 PHE A2284 LEU A2285 -1 O PHE A2284 N ILE A2151 SHEET 6 AA1 6 LYS A2288 SER A2289 -1 O LYS A2288 N LEU A2285 SHEET 1 AA2 7 ARG A2237 LYS A2240 0 SHEET 2 AA2 7 MET A2220 GLU A2227 -1 N LEU A2223 O ARG A2237 SHEET 3 AA2 7 HIS A2210 PHE A2217 -1 N SER A2211 O LYS A2226 SHEET 4 AA2 7 TYR A2147 LYS A2155 -1 N VAL A2154 O HIS A2210 SHEET 5 AA2 7 LYS A2277 MET A2280 -1 O CYS A2279 N LYS A2155 SHEET 6 AA2 7 ALA A2127 ASP A2131 -1 N VAL A2128 O MET A2280 SHEET 7 AA2 7 ASN A2303 CYS A2305 -1 O ASN A2303 N SER A2129 SHEET 1 AA3 7 SER A2194 PHE A2199 0 SHEET 2 AA3 7 LYS A2183 ASP A2189 -1 N PHE A2186 O LEU A2197 SHEET 3 AA3 7 PHE A2174 ARG A2180 -1 N ALA A2176 O LEU A2187 SHEET 4 AA3 7 ASN A2161 GLY A2167 -1 N ASN A2161 O MET A2179 SHEET 5 AA3 7 LEU A2255 PHE A2257 -1 O PHE A2257 N TYR A2165 SHEET 6 AA3 7 ILE A2135 TYR A2138 -1 N TYR A2138 O MET A2256 SHEET 7 AA3 7 GLU A2297 GLU A2299 -1 O GLU A2299 N ILE A2135 SHEET 1 AA4 8 PRO A2381 MET A2385 0 SHEET 2 AA4 8 ARG A2370 ASP A2376 -1 N VAL A2373 O LEU A2384 SHEET 3 AA4 8 PHE A2361 VAL A2367 -1 N GLU A2365 O LYS A2372 SHEET 4 AA4 8 GLY A2348 LEU A2353 -1 N LEU A2353 O LEU A2362 SHEET 5 AA4 8 ILE A2442 VAL A2444 -1 O TYR A2443 N TYR A2352 SHEET 6 AA4 8 PHE A2316 VAL A2326 -1 N ALA A2324 O VAL A2444 SHEET 7 AA4 8 VAL A2463 ILE A2471 -1 O GLY A2464 N PHE A2318 SHEET 8 AA4 8 SER A2474 THR A2475 -1 O SER A2474 N ILE A2471 SHEET 1 AA5 7 ASP A2416 GLU A2426 0 SHEET 2 AA5 7 GLN A2406 ASP A2413 -1 N LEU A2409 O LYS A2423 SHEET 3 AA5 7 TYR A2396 ASN A2403 -1 N LYS A2397 O PHE A2412 SHEET 4 AA5 7 VAL A2334 SER A2342 -1 N ILE A2339 O ILE A2398 SHEET 5 AA5 7 VAL A2463 ILE A2471 -1 O CYS A2465 N SER A2342 SHEET 6 AA5 7 PHE A2316 VAL A2326 -1 N PHE A2318 O GLY A2464 SHEET 7 AA5 7 SER A2482 LYS A2487 -1 O ARG A2486 N HIS A2317 SHEET 1 AA6 8 ARG A2574 LEU A2578 0 SHEET 2 AA6 8 ARG A2560 ASN A2566 -1 N ILE A2561 O LEU A2578 SHEET 3 AA6 8 PHE A2551 LEU A2557 -1 N MET A2555 O GLU A2562 SHEET 4 AA6 8 GLY A2529 LEU A2535 -1 N ALA A2534 O PHE A2552 SHEET 5 AA6 8 ASN A2629 ILE A2632 -1 O TYR A2631 N VAL A2533 SHEET 6 AA6 8 SER A2496 MET A2507 -1 N VAL A2505 O ILE A2632 SHEET 7 AA6 8 GLY A2652 LEU A2659 -1 O GLY A2652 N PHE A2499 SHEET 8 AA6 8 GLN A2662 LEU A2663 -1 O GLN A2662 N LEU A2659 SHEET 1 AA7 7 VAL A2612 LYS A2615 0 SHEET 2 AA7 7 VAL A2601 VAL A2606 -1 N ILE A2604 O VAL A2612 SHEET 3 AA7 7 HIS A2591 ASN A2598 -1 N ASN A2598 O VAL A2601 SHEET 4 AA7 7 SER A2517 THR A2524 -1 N LEU A2518 O LEU A2595 SHEET 5 AA7 7 GLY A2652 LEU A2659 -1 O LYS A2655 N THR A2521 SHEET 6 AA7 7 SER A2496 MET A2507 -1 N PHE A2499 O GLY A2652 SHEET 7 AA7 7 GLY A2671 LEU A2677 -1 O GLY A2671 N GLU A2506 SSBOND 1 CYS A 2134 CYS A 2302 1555 1555 2.04 SSBOND 2 CYS A 2653 CYS A 2680 1555 1555 2.04 SSBOND 3 CYS B 1785 CYS C 1598 1555 1555 2.03 LINK OD2 ASP A2173 CA CA A9001 1555 1555 2.57 LINK O LEU A2190 CA CA A9001 1555 1555 2.46 LINK O VAL A2247 CA CA A9001 1555 1555 2.46 LINK OD1 ASP A2249 CA CA A9001 1555 1555 2.49 LINK OD2 ASP A2360 CA CA A9002 1555 1555 2.45 LINK O LEU A2377 CA CA A9002 1555 1555 2.40 LINK O ASP A2433 CA CA A9002 1555 1555 2.42 LINK OD1 ASN A2435 CA CA A9002 1555 1555 2.46 LINK CA CA A9001 O HOH A9225 1555 1555 2.93 LINK CA CA A9001 O HOH A9308 1555 1555 2.50 LINK CA CA A9002 O HOH A9149 1555 1555 2.73 LINK CA CA A9002 O HOH A9339 1555 1555 2.53 SITE 1 AC1 6 ASP A2173 LEU A2190 VAL A2247 ASP A2249 SITE 2 AC1 6 HOH A9225 HOH A9308 SITE 1 AC2 6 ASP A2360 LEU A2377 ASP A2433 ASN A2435 SITE 2 AC2 6 HOH A9149 HOH A9339 CRYST1 62.760 98.360 135.240 90.00 90.00 90.00 P 21 21 21 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 0.015934 0.000000 0.000000 0.00000 SCALE2 0.000000 0.010167 0.000000 0.00000 SCALE3 0.000000 0.000000 0.007394 0.00000 MASTER 389 0 2 6 50 0 4 6 0 0 0 59 END