HEADER CELL ADHESION 12-AUG-13 4M76 TITLE INTEGRIN I DOMAIN OF COMPLEMENT RECEPTOR 3 IN COMPLEX WITH C3D COMPND MOL_ID: 1; COMPND 2 MOLECULE: COMPLEMENT C3; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: UNP RESIDUES 994-1288; COMPND 5 SYNONYM: C3 AND PZP-LIKE ALPHA-2-MACROGLOBULIN DOMAIN-CONTAINING COMPND 6 PROTEIN 1, COMPLEMENT C3 BETA CHAIN, COMPLEMENT C3 ALPHA CHAIN, C3A COMPND 7 ANAPHYLATOXIN, ACYLATION STIMULATING PROTEIN, ASP, C3ADESARG, COMPND 8 COMPLEMENT C3B ALPHA' CHAIN, COMPLEMENT C3C ALPHA' CHAIN FRAGMENT 1, COMPND 9 COMPLEMENT C3DG FRAGMENT, COMPLEMENT C3G FRAGMENT, COMPLEMENT C3D COMPND 10 FRAGMENT, COMPLEMENT C3F FRAGMENT, COMPLEMENT C3C ALPHA' CHAIN COMPND 11 FRAGMENT 2; COMPND 12 ENGINEERED: YES; COMPND 13 MUTATION: YES; COMPND 14 MOL_ID: 2; COMPND 15 MOLECULE: INTEGRIN ALPHA-M; COMPND 16 CHAIN: B; COMPND 17 FRAGMENT: UNP RESIDUES 143-337; COMPND 18 SYNONYM: CD11 ANTIGEN-LIKE FAMILY MEMBER B, CR-3 ALPHA CHAIN, CELL COMPND 19 SURFACE GLYCOPROTEIN MAC-1 SUBUNIT ALPHA, LEUKOCYTE ADHESION RECEPTOR COMPND 20 MO1, NEUTROPHIL ADHERENCE RECEPTOR; COMPND 21 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 3 ORGANISM_COMMON: HUMAN; SOURCE 4 ORGANISM_TAXID: 9606; SOURCE 5 GENE: C3, CPAMD1; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PETM-20; SOURCE 11 MOL_ID: 2; SOURCE 12 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 13 ORGANISM_COMMON: HUMAN; SOURCE 14 ORGANISM_TAXID: 9606; SOURCE 15 GENE: CD11B, CR3A, ITGAM; SOURCE 16 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 17 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 18 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 19 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 20 EXPRESSION_SYSTEM_PLASMID: PETM-11 KEYWDS INTEGRIN, COMPLEMENT RECEPTOR, IMMUNITY, INNATE IMMUNITY, KEYWDS 2 INFLAMMATION, PHAGOCYTOSIS, MAC-1, CD11B/CD18, ALPHAMBETA2, KEYWDS 3 MACROPHAGE, ROSSMANN FOLD, I DOMAIN, VON WILLEBRAND FACTOR A (VWA), KEYWDS 4 ALPHA-ALPHA BARREL, ADHESION, CELL ADHESION EXPDTA X-RAY DIFFRACTION AUTHOR G.BAJIC,L.YATIME,T.VORUP-JENSEN,G.R.ANDERSEN REVDAT 5 20-SEP-23 4M76 1 REMARK SEQADV LINK REVDAT 4 12-NOV-14 4M76 1 KEYWDS REVDAT 3 06-NOV-13 4M76 1 AUTHOR REVDAT 2 23-OCT-13 4M76 1 JRNL REVDAT 1 02-OCT-13 4M76 0 JRNL AUTH G.BAJIC,L.YATIME,R.B.SIM,T.VORUP-JENSEN,G.R.ANDERSEN JRNL TITL STRUCTURAL INSIGHT ON THE RECOGNITION OF SURFACE-BOUND JRNL TITL 2 OPSONINS BY THE INTEGRIN I DOMAIN OF COMPLEMENT RECEPTOR 3. JRNL REF PROC.NATL.ACAD.SCI.USA V. 110 16426 2013 JRNL REFN ISSN 0027-8424 JRNL PMID 24065820 JRNL DOI 10.1073/PNAS.1311261110 REMARK 2 REMARK 2 RESOLUTION. 2.80 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 1.8.2_1309 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 : ML REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.80 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 45.11 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 2.020 REMARK 3 COMPLETENESS FOR RANGE (%) : 98.9 REMARK 3 NUMBER OF REFLECTIONS : 12885 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.198 REMARK 3 R VALUE (WORKING SET) : 0.194 REMARK 3 FREE R VALUE : 0.242 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 7.540 REMARK 3 FREE R VALUE TEST SET COUNT : 972 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 45.1128 - 5.3613 0.99 1741 154 0.1753 0.2082 REMARK 3 2 5.3613 - 4.2564 0.99 1704 150 0.1693 0.2111 REMARK 3 3 4.2564 - 3.7187 0.99 1718 121 0.1860 0.2531 REMARK 3 4 3.7187 - 3.3788 0.99 1701 142 0.2038 0.2630 REMARK 3 5 3.3788 - 3.1367 1.00 1682 141 0.2340 0.2784 REMARK 3 6 3.1367 - 2.9518 1.00 1691 144 0.2384 0.3354 REMARK 3 7 2.9518 - 2.8040 0.96 1676 120 0.2871 0.3376 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : FLAT BULK SOLVENT MODEL 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) : 0.400 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 28.120 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 67.17 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 74.35 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 : 0.002 3848 REMARK 3 ANGLE : 0.657 5201 REMARK 3 CHIRALITY : 0.043 577 REMARK 3 PLANARITY : 0.002 675 REMARK 3 DIHEDRAL : 11.005 1435 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 16 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: ( CHAIN A AND RESID 992:1038 ) REMARK 3 ORIGIN FOR THE GROUP (A): 17.0658 -15.3445 9.4890 REMARK 3 T TENSOR REMARK 3 T11: 0.4830 T22: 0.5828 REMARK 3 T33: 0.7223 T12: -0.2384 REMARK 3 T13: 0.2351 T23: -0.1210 REMARK 3 L TENSOR REMARK 3 L11: 0.1137 L22: 0.0876 REMARK 3 L33: 0.1105 L12: -0.1005 REMARK 3 L13: 0.1158 L23: -0.1003 REMARK 3 S TENSOR REMARK 3 S11: -0.1151 S12: 0.2599 S13: 0.1339 REMARK 3 S21: -0.0625 S22: -0.0754 S23: -0.2378 REMARK 3 S31: -0.0308 S32: 0.0879 S33: -0.2708 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: ( CHAIN A AND RESID 1039:1075 ) REMARK 3 ORIGIN FOR THE GROUP (A): 25.0717 -7.8182 22.4205 REMARK 3 T TENSOR REMARK 3 T11: 0.5692 T22: 0.4621 REMARK 3 T33: 0.9649 T12: -0.2469 REMARK 3 T13: 0.0148 T23: -0.2269 REMARK 3 L TENSOR REMARK 3 L11: 0.1599 L22: 0.1935 REMARK 3 L33: 0.2953 L12: 0.0267 REMARK 3 L13: -0.0005 L23: -0.1263 REMARK 3 S TENSOR REMARK 3 S11: -0.2039 S12: 0.0500 S13: 0.0834 REMARK 3 S21: 0.1235 S22: -0.1530 S23: -0.2603 REMARK 3 S31: -0.2413 S32: 0.0581 S33: -0.3723 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: ( CHAIN A AND RESID 1076:1164 ) REMARK 3 ORIGIN FOR THE GROUP (A): 14.2597 -13.7842 31.7924 REMARK 3 T TENSOR REMARK 3 T11: 0.1901 T22: -0.2727 REMARK 3 T33: 0.2572 T12: -0.0581 REMARK 3 T13: -0.2032 T23: -0.3324 REMARK 3 L TENSOR REMARK 3 L11: 0.0560 L22: 0.3368 REMARK 3 L33: 0.0206 L12: -0.1000 REMARK 3 L13: -0.0300 L23: 0.0596 REMARK 3 S TENSOR REMARK 3 S11: 0.0459 S12: -0.0720 S13: 0.0561 REMARK 3 S21: 0.2675 S22: -0.0167 S23: -0.1553 REMARK 3 S31: 0.0698 S32: 0.0343 S33: -0.0339 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: ( CHAIN A AND RESID 1165:1225 ) REMARK 3 ORIGIN FOR THE GROUP (A): -1.7691 -21.6040 29.3424 REMARK 3 T TENSOR REMARK 3 T11: 0.3214 T22: 0.3194 REMARK 3 T33: 0.1555 T12: -0.0873 REMARK 3 T13: 0.0077 T23: -0.0050 REMARK 3 L TENSOR REMARK 3 L11: 0.0391 L22: 0.7096 REMARK 3 L33: 0.3950 L12: -0.0865 REMARK 3 L13: 0.0785 L23: 0.1574 REMARK 3 S TENSOR REMARK 3 S11: 0.0350 S12: -0.0460 S13: 0.1128 REMARK 3 S21: 0.6487 S22: -0.1642 S23: 0.1349 REMARK 3 S31: 0.1550 S32: -0.3151 S33: -0.1380 REMARK 3 TLS GROUP : 5 REMARK 3 SELECTION: ( CHAIN A AND RESID 1226:1268 ) REMARK 3 ORIGIN FOR THE GROUP (A): 1.5152 -20.1767 14.9636 REMARK 3 T TENSOR REMARK 3 T11: 0.2444 T22: 0.1899 REMARK 3 T33: 0.0628 T12: -0.0404 REMARK 3 T13: 0.0036 T23: -0.0116 REMARK 3 L TENSOR REMARK 3 L11: 0.3167 L22: 0.1644 REMARK 3 L33: 0.0389 L12: -0.1888 REMARK 3 L13: 0.0716 L23: -0.0115 REMARK 3 S TENSOR REMARK 3 S11: -0.0707 S12: 0.0890 S13: 0.0890 REMARK 3 S21: 0.0053 S22: 0.0366 S23: -0.1122 REMARK 3 S31: -0.0764 S32: -0.1109 S33: -0.0322 REMARK 3 TLS GROUP : 6 REMARK 3 SELECTION: ( CHAIN A AND RESID 1269:1287 ) REMARK 3 ORIGIN FOR THE GROUP (A): 9.3384 -22.3030 15.0609 REMARK 3 T TENSOR REMARK 3 T11: 0.1892 T22: 0.2703 REMARK 3 T33: 0.3996 T12: -0.0439 REMARK 3 T13: 0.1254 T23: -0.0018 REMARK 3 L TENSOR REMARK 3 L11: 0.2820 L22: 0.0128 REMARK 3 L33: 0.5844 L12: -0.0562 REMARK 3 L13: 0.4058 L23: -0.0809 REMARK 3 S TENSOR REMARK 3 S11: -0.1187 S12: 0.0424 S13: 0.0674 REMARK 3 S21: -0.0002 S22: -0.0576 S23: -0.0373 REMARK 3 S31: 0.0191 S32: 0.0389 S33: -0.1171 REMARK 3 TLS GROUP : 7 REMARK 3 SELECTION: ( CHAIN B AND RESID 132:146 ) REMARK 3 ORIGIN FOR THE GROUP (A): -16.0600 -43.6703 8.0613 REMARK 3 T TENSOR REMARK 3 T11: 0.3186 T22: 0.6676 REMARK 3 T33: 0.4288 T12: -0.2551 REMARK 3 T13: 0.0910 T23: -0.3160 REMARK 3 L TENSOR REMARK 3 L11: 0.0685 L22: 0.1072 REMARK 3 L33: 0.0527 L12: -0.0870 REMARK 3 L13: 0.0592 L23: -0.0734 REMARK 3 S TENSOR REMARK 3 S11: 0.0216 S12: 0.0632 S13: -0.1051 REMARK 3 S21: -0.0380 S22: -0.0176 S23: 0.0830 REMARK 3 S31: 0.0896 S32: -0.0797 S33: 0.0997 REMARK 3 TLS GROUP : 8 REMARK 3 SELECTION: ( CHAIN B AND RESID 147:162 ) REMARK 3 ORIGIN FOR THE GROUP (A): -14.0489 -39.2460 -0.5886 REMARK 3 T TENSOR REMARK 3 T11: 0.4131 T22: 0.7229 REMARK 3 T33: 0.2665 T12: -0.2811 REMARK 3 T13: 0.0037 T23: -0.1789 REMARK 3 L TENSOR REMARK 3 L11: 0.0060 L22: 0.0078 REMARK 3 L33: 0.0203 L12: -0.0075 REMARK 3 L13: -0.0104 L23: 0.0115 REMARK 3 S TENSOR REMARK 3 S11: -0.0773 S12: 0.0136 S13: 0.0243 REMARK 3 S21: -0.0080 S22: 0.0019 S23: 0.0010 REMARK 3 S31: -0.0231 S32: -0.0351 S33: -0.0472 REMARK 3 TLS GROUP : 9 REMARK 3 SELECTION: ( CHAIN B AND RESID 163:176 ) REMARK 3 ORIGIN FOR THE GROUP (A): -23.7288 -46.6957 2.6940 REMARK 3 T TENSOR REMARK 3 T11: 0.3252 T22: 0.6115 REMARK 3 T33: 0.4403 T12: -0.2804 REMARK 3 T13: 0.0581 T23: -0.1581 REMARK 3 L TENSOR REMARK 3 L11: 0.0073 L22: 0.0100 REMARK 3 L33: 0.0033 L12: 0.0097 REMARK 3 L13: -0.0051 L23: -0.0058 REMARK 3 S TENSOR REMARK 3 S11: 0.0185 S12: -0.0201 S13: -0.0268 REMARK 3 S21: -0.0209 S22: 0.0077 S23: 0.0417 REMARK 3 S31: -0.0073 S32: 0.0046 S33: 0.0016 REMARK 3 TLS GROUP : 10 REMARK 3 SELECTION: ( CHAIN B AND RESID 178:185 ) REMARK 3 ORIGIN FOR THE GROUP (A): -20.6471 -37.0424 13.8782 REMARK 3 T TENSOR REMARK 3 T11: 0.3369 T22: 0.5805 REMARK 3 T33: 0.5242 T12: -0.0721 REMARK 3 T13: 0.1525 T23: -0.1115 REMARK 3 L TENSOR REMARK 3 L11: 0.0026 L22: 0.0473 REMARK 3 L33: 0.0133 L12: 0.0039 REMARK 3 L13: 0.0010 L23: 0.0127 REMARK 3 S TENSOR REMARK 3 S11: -0.0475 S12: 0.0144 S13: 0.0172 REMARK 3 S21: 0.0881 S22: 0.0667 S23: 0.0524 REMARK 3 S31: 0.0025 S32: -0.0026 S33: -0.0012 REMARK 3 TLS GROUP : 11 REMARK 3 SELECTION: ( CHAIN B AND RESID 186:221 ) REMARK 3 ORIGIN FOR THE GROUP (A): -21.8463 -40.2806 9.9718 REMARK 3 T TENSOR REMARK 3 T11: 0.1946 T22: 0.4878 REMARK 3 T33: 0.2856 T12: -0.2217 REMARK 3 T13: 0.0071 T23: -0.0877 REMARK 3 L TENSOR REMARK 3 L11: 0.0437 L22: 0.0712 REMARK 3 L33: 0.0018 L12: -0.0169 REMARK 3 L13: 0.0021 L23: -0.0135 REMARK 3 S TENSOR REMARK 3 S11: -0.0415 S12: 0.0190 S13: 0.0007 REMARK 3 S21: 0.0399 S22: 0.0088 S23: -0.0535 REMARK 3 S31: 0.0384 S32: -0.0901 S33: -0.0086 REMARK 3 TLS GROUP : 12 REMARK 3 SELECTION: ( CHAIN B AND RESID 222:241 ) REMARK 3 ORIGIN FOR THE GROUP (A): -25.5264 -51.5872 11.0423 REMARK 3 T TENSOR REMARK 3 T11: 0.3882 T22: 0.5587 REMARK 3 T33: 0.5211 T12: -0.2940 REMARK 3 T13: 0.2330 T23: -0.2822 REMARK 3 L TENSOR REMARK 3 L11: 0.1882 L22: 0.2120 REMARK 3 L33: 0.0413 L12: 0.0182 REMARK 3 L13: -0.0007 L23: -0.0924 REMARK 3 S TENSOR REMARK 3 S11: 0.0349 S12: 0.0055 S13: 0.0016 REMARK 3 S21: 0.0073 S22: 0.0663 S23: 0.0196 REMARK 3 S31: 0.0105 S32: -0.0111 S33: 0.2685 REMARK 3 TLS GROUP : 13 REMARK 3 SELECTION: ( CHAIN B AND RESID 242:255 ) REMARK 3 ORIGIN FOR THE GROUP (A): -8.0064 -45.6754 20.8486 REMARK 3 T TENSOR REMARK 3 T11: 0.6677 T22: 0.4057 REMARK 3 T33: 0.5248 T12: -0.1993 REMARK 3 T13: 0.1190 T23: -0.1294 REMARK 3 L TENSOR REMARK 3 L11: 0.0050 L22: 0.0103 REMARK 3 L33: 0.0096 L12: -0.0031 REMARK 3 L13: 0.0066 L23: -0.0002 REMARK 3 S TENSOR REMARK 3 S11: 0.0879 S12: 0.0232 S13: -0.0361 REMARK 3 S21: 0.0268 S22: 0.0594 S23: -0.0202 REMARK 3 S31: -0.0159 S32: 0.0622 S33: 0.0053 REMARK 3 TLS GROUP : 14 REMARK 3 SELECTION: ( CHAIN B AND RESID 256:278 ) REMARK 3 ORIGIN FOR THE GROUP (A): -10.3114 -52.1223 12.1806 REMARK 3 T TENSOR REMARK 3 T11: 0.5911 T22: 0.7176 REMARK 3 T33: 0.9088 T12: -0.3100 REMARK 3 T13: 0.3053 T23: -0.4125 REMARK 3 L TENSOR REMARK 3 L11: 0.0141 L22: 0.2335 REMARK 3 L33: 0.0325 L12: 0.0438 REMARK 3 L13: 0.0220 L23: 0.0687 REMARK 3 S TENSOR REMARK 3 S11: -0.0126 S12: -0.0043 S13: -0.0531 REMARK 3 S21: 0.0896 S22: 0.0017 S23: -0.0750 REMARK 3 S31: 0.0270 S32: 0.0317 S33: 0.0072 REMARK 3 TLS GROUP : 15 REMARK 3 SELECTION: ( CHAIN B AND RESID 279:294 ) REMARK 3 ORIGIN FOR THE GROUP (A): -5.0266 -54.9823 11.0408 REMARK 3 T TENSOR REMARK 3 T11: 0.7155 T22: 0.5471 REMARK 3 T33: 1.0097 T12: -0.1698 REMARK 3 T13: 0.2294 T23: -0.3933 REMARK 3 L TENSOR REMARK 3 L11: 0.0095 L22: 0.0106 REMARK 3 L33: 0.0088 L12: -0.0046 REMARK 3 L13: 0.0052 L23: -0.0091 REMARK 3 S TENSOR REMARK 3 S11: 0.0554 S12: 0.0019 S13: -0.0214 REMARK 3 S21: -0.0541 S22: 0.0073 S23: 0.0725 REMARK 3 S31: 0.0707 S32: 0.0154 S33: 0.0274 REMARK 3 TLS GROUP : 16 REMARK 3 SELECTION: ( CHAIN B AND RESID 295:310 ) REMARK 3 ORIGIN FOR THE GROUP (A): -10.9720 -52.1646 -2.7103 REMARK 3 T TENSOR REMARK 3 T11: 0.8724 T22: 0.9153 REMARK 3 T33: 0.7390 T12: 0.0970 REMARK 3 T13: 0.1237 T23: -0.4705 REMARK 3 L TENSOR REMARK 3 L11: 0.0188 L22: 0.0920 REMARK 3 L33: 0.0502 L12: -0.0346 REMARK 3 L13: 0.0256 L23: -0.0679 REMARK 3 S TENSOR REMARK 3 S11: 0.0365 S12: -0.0078 S13: 0.0199 REMARK 3 S21: -0.0502 S22: 0.0242 S23: -0.0360 REMARK 3 S31: -0.0174 S32: -0.0149 S33: 0.0420 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 4M76 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 26-AUG-13. REMARK 100 THE DEPOSITION ID IS D_1000081551. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : NULL REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SLS REMARK 200 BEAMLINE : X06DA REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : PSI PILATUS 6M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : XSCALE REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 12888 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.800 REMARK 200 RESOLUTION RANGE LOW (A) : 98.895 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : -3.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 98.1 REMARK 200 DATA REDUNDANCY : NULL REMARK 200 R MERGE (I) : 0.04900 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 16.7700 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.80 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 3.00 REMARK 200 COMPLETENESS FOR SHELL (%) : 94.3 REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : 0.29100 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 4.470 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: PDB ENTRIES 1IDO, 1C3D REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 48.33 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.38 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: PEG 3350, PH 7, VAPOR DIFFUSION, REMARK 280 HANGING DROP, TEMPERATURE 298K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: C 1 2 1 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 X+1/2,Y+1/2,Z 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 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 1.000000 0.000000 0.000000 72.23000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 32.56000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 72.23000 REMARK 290 SMTRY2 4 0.000000 1.000000 0.000000 32.56000 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: 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 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 GLY A 991 REMARK 465 ASP A 1288 REMARK 465 GLY B 124 REMARK 465 ALA B 125 REMARK 465 MET B 126 REMARK 465 GLY B 127 REMARK 465 SER B 128 REMARK 465 PRO B 129 REMARK 465 GLN B 130 REMARK 465 GLU B 131 REMARK 465 GLN B 311 REMARK 465 LEU B 312 REMARK 465 ARG B 313 REMARK 465 GLU B 314 REMARK 465 LYS B 315 REMARK 465 GLY B 316 REMARK 465 PHE B 317 REMARK 465 ALA B 318 REMARK 465 ILE B 319 REMARK 465 GLU B 320 REMARK 465 GLY B 321 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 1419 O HOH A 1420 2.04 REMARK 500 O HOH A 1419 O HOH A 1421 2.17 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 HIS A1126 87.43 -69.82 REMARK 500 LYS A1139 -134.25 165.92 REMARK 500 LYS A1225 84.82 56.42 REMARK 500 LEU B 164 55.69 -141.11 REMARK 500 LYS B 166 47.30 72.22 REMARK 500 LYS B 168 61.66 -105.00 REMARK 500 SER B 177 -110.26 -154.91 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 NI B 401 NI REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A1247 OD1 REMARK 620 2 SER B 142 OG 110.8 REMARK 620 3 SER B 144 OG 97.9 101.0 REMARK 620 4 THR B 209 OG1 88.6 87.3 166.6 REMARK 620 5 HOH B 501 O 93.0 147.7 96.7 71.2 REMARK 620 6 HOH B 502 O 162.2 86.2 83.3 86.9 69.2 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 NI A1301 NI REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HOH A1419 O REMARK 620 2 HOH A1420 O 62.4 REMARK 620 3 HOH A1421 O 66.5 128.6 REMARK 620 N 1 2 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NI A 1301 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NI B 401 DBREF 4M76 A 994 1288 UNP P01024 CO3_HUMAN 994 1288 DBREF 4M76 B 127 321 UNP P11215 ITAM_HUMAN 143 337 SEQADV 4M76 GLY A 991 UNP P01024 EXPRESSION TAG SEQADV 4M76 ALA A 992 UNP P01024 EXPRESSION TAG SEQADV 4M76 MET A 993 UNP P01024 EXPRESSION TAG SEQADV 4M76 ALA A 1010 UNP P01024 CYS 1010 ENGINEERED MUTATION SEQADV 4M76 GLY B 124 UNP P11215 EXPRESSION TAG SEQADV 4M76 ALA B 125 UNP P11215 EXPRESSION TAG SEQADV 4M76 MET B 126 UNP P11215 EXPRESSION TAG SEQADV 4M76 SER B 128 UNP P11215 CYS 144 ENGINEERED MUTATION SEQADV 4M76 GLY B 316 UNP P11215 ILE 332 ENGINEERED MUTATION SEQRES 1 A 298 GLY ALA MET ALA VAL ASP ALA GLU ARG LEU LYS HIS LEU SEQRES 2 A 298 ILE VAL THR PRO SER GLY ALA GLY GLU GLN ASN MET ILE SEQRES 3 A 298 GLY MET THR PRO THR VAL ILE ALA VAL HIS TYR LEU ASP SEQRES 4 A 298 GLU THR GLU GLN TRP GLU LYS PHE GLY LEU GLU LYS ARG SEQRES 5 A 298 GLN GLY ALA LEU GLU LEU ILE LYS LYS GLY TYR THR GLN SEQRES 6 A 298 GLN LEU ALA PHE ARG GLN PRO SER SER ALA PHE ALA ALA SEQRES 7 A 298 PHE VAL LYS ARG ALA PRO SER THR TRP LEU THR ALA TYR SEQRES 8 A 298 VAL VAL LYS VAL PHE SER LEU ALA VAL ASN LEU ILE ALA SEQRES 9 A 298 ILE ASP SER GLN VAL LEU CYS GLY ALA VAL LYS TRP LEU SEQRES 10 A 298 ILE LEU GLU LYS GLN LYS PRO ASP GLY VAL PHE GLN GLU SEQRES 11 A 298 ASP ALA PRO VAL ILE HIS GLN GLU MET ILE GLY GLY LEU SEQRES 12 A 298 ARG ASN ASN ASN GLU LYS ASP MET ALA LEU THR ALA PHE SEQRES 13 A 298 VAL LEU ILE SER LEU GLN GLU ALA LYS ASP ILE CYS GLU SEQRES 14 A 298 GLU GLN VAL ASN SER LEU PRO GLY SER ILE THR LYS ALA SEQRES 15 A 298 GLY ASP PHE LEU GLU ALA ASN TYR MET ASN LEU GLN ARG SEQRES 16 A 298 SER TYR THR VAL ALA ILE ALA GLY TYR ALA LEU ALA GLN SEQRES 17 A 298 MET GLY ARG LEU LYS GLY PRO LEU LEU ASN LYS PHE LEU SEQRES 18 A 298 THR THR ALA LYS ASP LYS ASN ARG TRP GLU ASP PRO GLY SEQRES 19 A 298 LYS GLN LEU TYR ASN VAL GLU ALA THR SER TYR ALA LEU SEQRES 20 A 298 LEU ALA LEU LEU GLN LEU LYS ASP PHE ASP PHE VAL PRO SEQRES 21 A 298 PRO VAL VAL ARG TRP LEU ASN GLU GLN ARG TYR TYR GLY SEQRES 22 A 298 GLY GLY TYR GLY SER THR GLN ALA THR PHE MET VAL PHE SEQRES 23 A 298 GLN ALA LEU ALA GLN TYR GLN LYS ASP ALA PRO ASP SEQRES 1 B 198 GLY ALA MET GLY SER PRO GLN GLU ASP SER ASP ILE ALA SEQRES 2 B 198 PHE LEU ILE ASP GLY SER GLY SER ILE ILE PRO HIS ASP SEQRES 3 B 198 PHE ARG ARG MET LYS GLU PHE VAL SER THR VAL MET GLU SEQRES 4 B 198 GLN LEU LYS LYS SER LYS THR LEU PHE SER LEU MET GLN SEQRES 5 B 198 TYR SER GLU GLU PHE ARG ILE HIS PHE THR PHE LYS GLU SEQRES 6 B 198 PHE GLN ASN ASN PRO ASN PRO ARG SER LEU VAL LYS PRO SEQRES 7 B 198 ILE THR GLN LEU LEU GLY ARG THR HIS THR ALA THR GLY SEQRES 8 B 198 ILE ARG LYS VAL VAL ARG GLU LEU PHE ASN ILE THR ASN SEQRES 9 B 198 GLY ALA ARG LYS ASN ALA PHE LYS ILE LEU VAL VAL ILE SEQRES 10 B 198 THR ASP GLY GLU LYS PHE GLY ASP PRO LEU GLY TYR GLU SEQRES 11 B 198 ASP VAL ILE PRO GLU ALA ASP ARG GLU GLY VAL ILE ARG SEQRES 12 B 198 TYR VAL ILE GLY VAL GLY ASP ALA PHE ARG SER GLU LYS SEQRES 13 B 198 SER ARG GLN GLU LEU ASN THR ILE ALA SER LYS PRO PRO SEQRES 14 B 198 ARG ASP HIS VAL PHE GLN VAL ASN ASN PHE GLU ALA LEU SEQRES 15 B 198 LYS THR ILE GLN ASN GLN LEU ARG GLU LYS GLY PHE ALA SEQRES 16 B 198 ILE GLU GLY HET NI A1301 1 HET NI B 401 1 HETNAM NI NICKEL (II) ION FORMUL 3 NI 2(NI 2+) FORMUL 5 HOH *33(H2 O) HELIX 1 1 ASP A 996 ILE A 1004 5 9 HELIX 2 2 GLU A 1012 GLU A 1032 1 21 HELIX 3 3 LEU A 1039 ALA A 1058 1 20 HELIX 4 4 SER A 1075 ALA A 1089 1 15 HELIX 5 5 ASP A 1096 GLN A 1112 1 17 HELIX 6 6 HIS A 1126 ARG A 1134 5 9 HELIX 7 7 LYS A 1139 GLU A 1153 1 15 HELIX 8 8 SER A 1164 TYR A 1180 1 17 HELIX 9 9 ARG A 1185 GLN A 1198 1 14 HELIX 10 10 GLY A 1204 THR A 1213 1 10 HELIX 11 11 ALA A 1214 ASN A 1218 5 5 HELIX 12 12 LYS A 1225 LEU A 1243 1 19 HELIX 13 13 PHE A 1248 GLU A 1258 1 11 HELIX 14 14 SER A 1268 ALA A 1286 1 19 HELIX 15 15 ILE B 146 GLN B 163 1 18 HELIX 16 16 THR B 185 ASN B 192 1 8 HELIX 17 17 ASN B 194 LYS B 200 1 7 HELIX 18 18 HIS B 210 LEU B 222 1 13 HELIX 19 19 ASN B 224 GLY B 228 5 5 HELIX 20 20 GLY B 251 ASP B 254 5 4 HELIX 21 21 VAL B 255 GLU B 262 1 8 HELIX 22 22 GLU B 278 ALA B 288 1 11 HELIX 23 23 PRO B 291 ASP B 294 5 4 HELIX 24 24 ASN B 301 LEU B 305 5 5 SHEET 1 A 6 PHE B 180 PHE B 184 0 SHEET 2 A 6 THR B 169 TYR B 176 -1 N GLN B 175 O ARG B 181 SHEET 3 A 6 SER B 133 ASP B 140 1 N PHE B 137 O MET B 174 SHEET 4 A 6 PHE B 234 ILE B 240 1 O PHE B 234 N ASP B 134 SHEET 5 A 6 ILE B 265 GLY B 270 1 O ILE B 265 N LEU B 237 SHEET 6 A 6 VAL B 296 GLN B 298 1 O PHE B 297 N VAL B 268 SSBOND 1 CYS A 1101 CYS A 1158 1555 1555 2.03 LINK OD1 ASP A1247 NI NI B 401 1555 1555 1.98 LINK NI NI A1301 O HOH A1419 1555 1555 1.98 LINK NI NI A1301 O HOH A1420 1555 1555 1.97 LINK NI NI A1301 O HOH A1421 1555 1555 1.98 LINK OG SER B 142 NI NI B 401 1555 1555 1.98 LINK OG SER B 144 NI NI B 401 1555 1555 1.97 LINK OG1 THR B 209 NI NI B 401 1555 1555 2.00 LINK NI NI B 401 O HOH B 501 1555 1555 1.97 LINK NI NI B 401 O HOH B 502 1555 1555 1.97 CISPEP 1 GLU A 1138 LYS A 1139 0 -19.22 CISPEP 2 LYS B 165 LYS B 166 0 -2.34 CISPEP 3 SER B 167 LYS B 168 0 4.21 CISPEP 4 LYS B 290 PRO B 291 0 -0.15 SITE 1 AC1 5 ALA A 992 HOH A1419 HOH A1420 HOH A1421 SITE 2 AC1 5 HIS B 148 SITE 1 AC2 6 ASP A1247 SER B 142 SER B 144 THR B 209 SITE 2 AC2 6 HOH B 501 HOH B 502 CRYST1 144.460 65.120 62.540 90.00 115.69 90.00 C 1 2 1 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 0.006922 0.000000 0.003330 0.00000 SCALE2 0.000000 0.015356 0.000000 0.00000 SCALE3 0.000000 0.000000 0.017744 0.00000