HEADER IMMUNE SYSTEM 01-AUG-19 6Q0E TITLE INFERRED PRECURSOR (UCA) OF THE HUMAN ANTIBODY LINEAGE 652 IN COMPLEX TITLE 2 WITH INFLUENZA HEMAGGLUTININ HEAD DOMAIN OF A/BEIJING/262/95(H1N1) COMPND MOL_ID: 1; COMPND 2 MOLECULE: HEMAGGLUTININ; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: HEAD DOMAIN, RESIDUES 65-280; COMPND 5 ENGINEERED: YES; COMPND 6 MOL_ID: 2; COMPND 7 MOLECULE: FAB LAMBDA LIGHT CHAIN; COMPND 8 CHAIN: L; COMPND 9 ENGINEERED: YES; COMPND 10 MOL_ID: 3; COMPND 11 MOLECULE: FAB HEAVY CHAIN; COMPND 12 CHAIN: H; COMPND 13 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: INFLUENZA A VIRUS (A/BEIJING/262/1995(H1N1)); SOURCE 3 ORGANISM_TAXID: 518922; SOURCE 4 STRAIN: A/BEIJING/262/1995(H1N1); SOURCE 5 GENE: HA; SOURCE 6 EXPRESSION_SYSTEM: TRICHOPLUSIA NI; SOURCE 7 EXPRESSION_SYSTEM_COMMON: CABBAGE LOOPER; SOURCE 8 EXPRESSION_SYSTEM_TAXID: 7111; SOURCE 9 EXPRESSION_SYSTEM_CELL_LINE: BTI-TN-5B1-4; SOURCE 10 MOL_ID: 2; SOURCE 11 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 12 ORGANISM_COMMON: HUMAN; SOURCE 13 ORGANISM_TAXID: 9606; SOURCE 14 GENE: IGL; SOURCE 15 EXPRESSION_SYSTEM: HOMO SAPIENS; SOURCE 16 EXPRESSION_SYSTEM_COMMON: HUMAN; SOURCE 17 EXPRESSION_SYSTEM_TAXID: 9606; SOURCE 18 EXPRESSION_SYSTEM_CELL_LINE: 293F; SOURCE 19 MOL_ID: 3; SOURCE 20 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 21 ORGANISM_COMMON: HUMAN; SOURCE 22 ORGANISM_TAXID: 9606; SOURCE 23 GENE: IGH; SOURCE 24 EXPRESSION_SYSTEM: HOMO SAPIENS; SOURCE 25 EXPRESSION_SYSTEM_COMMON: HUMAN; SOURCE 26 EXPRESSION_SYSTEM_TAXID: 9606; SOURCE 27 EXPRESSION_SYSTEM_CELL_LINE: 293F KEYWDS ANTIBODY, IMMUNE SYSTEM EXPDTA X-RAY DIFFRACTION AUTHOR K.R.MCCARTHY,S.C.HARRISON REVDAT 2 01-JAN-20 6Q0E 1 JRNL REVDAT 1 18-DEC-19 6Q0E 0 JRNL AUTH K.R.MCCARTHY,D.D.RAYMOND,K.T.DO,A.G.SCHMIDT,S.C.HARRISON JRNL TITL AFFINITY MATURATION IN A HUMAN HUMORAL RESPONSE TO INFLUENZA JRNL TITL 2 HEMAGGLUTININ. JRNL REF PROC.NATL.ACAD.SCI.USA 2019 JRNL REFN ESSN 1091-6490 JRNL PMID 31843892 JRNL DOI 10.1073/PNAS.1915620116 REMARK 2 REMARK 2 RESOLUTION. 2.15 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 1.14_3260 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) : 2.15 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 48.29 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.340 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.5 REMARK 3 NUMBER OF REFLECTIONS : 40536 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.231 REMARK 3 R VALUE (WORKING SET) : 0.230 REMARK 3 FREE R VALUE : 0.249 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.050 REMARK 3 FREE R VALUE TEST SET COUNT : 2046 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 48.2900 - 5.3000 1.00 2804 131 0.2120 0.2166 REMARK 3 2 5.3000 - 4.2076 1.00 2642 150 0.1598 0.1770 REMARK 3 3 4.2076 - 3.6759 1.00 2602 131 0.1884 0.2024 REMARK 3 4 3.6759 - 3.3399 1.00 2583 128 0.2204 0.2416 REMARK 3 5 3.3399 - 3.1006 1.00 2566 150 0.2216 0.2425 REMARK 3 6 3.1006 - 2.9178 1.00 2554 123 0.2336 0.2388 REMARK 3 7 2.9178 - 2.7717 1.00 2604 133 0.2522 0.2712 REMARK 3 8 2.7717 - 2.6510 1.00 2549 137 0.2745 0.3087 REMARK 3 9 2.6510 - 2.5490 1.00 2541 142 0.2575 0.2903 REMARK 3 10 2.5490 - 2.4610 1.00 2540 132 0.2621 0.3014 REMARK 3 11 2.4610 - 2.3841 1.00 2548 136 0.2695 0.2983 REMARK 3 12 2.3841 - 2.3159 1.00 2531 149 0.2748 0.3107 REMARK 3 13 2.3159 - 2.2550 0.98 2452 130 0.3235 0.2921 REMARK 3 14 2.2550 - 2.2000 0.96 2446 134 0.4124 0.4485 REMARK 3 15 2.2000 - 2.1500 1.00 2528 140 0.3042 0.3514 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) : 26.080 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 28.93 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 39.53 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 : NULL NULL REMARK 3 ANGLE : NULL NULL REMARK 3 CHIRALITY : NULL NULL REMARK 3 PLANARITY : NULL NULL REMARK 3 DIHEDRAL : NULL NULL REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 7 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 52 THROUGH 115 ) REMARK 3 ORIGIN FOR THE GROUP (A): -14.0897 -13.5984 127.3627 REMARK 3 T TENSOR REMARK 3 T11: 0.3035 T22: 0.2841 REMARK 3 T33: 0.3246 T12: 0.0380 REMARK 3 T13: -0.1135 T23: -0.0615 REMARK 3 L TENSOR REMARK 3 L11: 0.5692 L22: 0.2659 REMARK 3 L33: 0.4921 L12: -0.3275 REMARK 3 L13: -0.1497 L23: -0.2000 REMARK 3 S TENSOR REMARK 3 S11: 0.2079 S12: -0.0090 S13: -0.2808 REMARK 3 S21: 0.1571 S22: -0.0094 S23: -0.0417 REMARK 3 S31: 0.1337 S32: 0.2061 S33: -0.0000 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 116 THROUGH 163 ) REMARK 3 ORIGIN FOR THE GROUP (A): -20.9710 -3.6016 110.4781 REMARK 3 T TENSOR REMARK 3 T11: 0.3327 T22: 0.3221 REMARK 3 T33: 0.2322 T12: 0.0609 REMARK 3 T13: -0.0733 T23: -0.0432 REMARK 3 L TENSOR REMARK 3 L11: 0.3240 L22: 0.2322 REMARK 3 L33: 0.3270 L12: 0.3785 REMARK 3 L13: -0.0555 L23: -0.0570 REMARK 3 S TENSOR REMARK 3 S11: -0.0946 S12: 0.1812 S13: -0.1014 REMARK 3 S21: -0.1822 S22: 0.1943 S23: 0.1168 REMARK 3 S31: -0.0891 S32: -0.1002 S33: -0.0000 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 164 THROUGH 263 ) REMARK 3 ORIGIN FOR THE GROUP (A): -16.1283 3.1752 119.2134 REMARK 3 T TENSOR REMARK 3 T11: 0.2808 T22: 0.2236 REMARK 3 T33: 0.2114 T12: 0.0070 REMARK 3 T13: -0.0209 T23: -0.0498 REMARK 3 L TENSOR REMARK 3 L11: 1.0822 L22: 0.7479 REMARK 3 L33: 0.6626 L12: 0.4174 REMARK 3 L13: 0.1929 L23: 0.2779 REMARK 3 S TENSOR REMARK 3 S11: 0.1250 S12: 0.0686 S13: -0.0394 REMARK 3 S21: -0.1128 S22: -0.0368 S23: 0.1126 REMARK 3 S31: -0.3341 S32: 0.1161 S33: 0.0000 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: CHAIN 'L' AND (RESID 2 THROUGH 109 ) REMARK 3 ORIGIN FOR THE GROUP (A): -10.1015 -13.2308 83.5468 REMARK 3 T TENSOR REMARK 3 T11: 0.2241 T22: 0.2612 REMARK 3 T33: 0.2031 T12: 0.0055 REMARK 3 T13: -0.0252 T23: -0.0266 REMARK 3 L TENSOR REMARK 3 L11: 0.7186 L22: 1.1155 REMARK 3 L33: 0.6099 L12: 0.2611 REMARK 3 L13: -0.1637 L23: 0.2489 REMARK 3 S TENSOR REMARK 3 S11: -0.0356 S12: -0.1354 S13: -0.0002 REMARK 3 S21: 0.2024 S22: -0.0215 S23: 0.0376 REMARK 3 S31: 0.0359 S32: -0.0424 S33: -0.0000 REMARK 3 TLS GROUP : 5 REMARK 3 SELECTION: CHAIN 'L' AND (RESID 110 THROUGH 213 ) REMARK 3 ORIGIN FOR THE GROUP (A): -19.5629 -14.6432 46.7770 REMARK 3 T TENSOR REMARK 3 T11: 0.1518 T22: 0.1667 REMARK 3 T33: 0.1873 T12: -0.0086 REMARK 3 T13: 0.0007 T23: 0.0083 REMARK 3 L TENSOR REMARK 3 L11: 0.0992 L22: 1.3247 REMARK 3 L33: 0.4131 L12: -0.2074 REMARK 3 L13: 0.3518 L23: -0.4272 REMARK 3 S TENSOR REMARK 3 S11: 0.0152 S12: 0.0158 S13: 0.0204 REMARK 3 S21: -0.0231 S22: -0.0262 S23: -0.0476 REMARK 3 S31: -0.0001 S32: -0.0133 S33: -0.0000 REMARK 3 TLS GROUP : 6 REMARK 3 SELECTION: CHAIN 'H' AND (RESID 1 THROUGH 136 ) REMARK 3 ORIGIN FOR THE GROUP (A): -12.2867 7.1760 80.0096 REMARK 3 T TENSOR REMARK 3 T11: 0.2142 T22: 0.2364 REMARK 3 T33: 0.2310 T12: 0.0166 REMARK 3 T13: -0.0199 T23: -0.0658 REMARK 3 L TENSOR REMARK 3 L11: 0.2210 L22: 0.9674 REMARK 3 L33: 1.5052 L12: -0.1732 REMARK 3 L13: 0.6815 L23: -0.4672 REMARK 3 S TENSOR REMARK 3 S11: -0.0906 S12: -0.0740 S13: 0.0868 REMARK 3 S21: 0.1030 S22: -0.0018 S23: -0.0364 REMARK 3 S31: -0.2583 S32: -0.1516 S33: -0.0000 REMARK 3 TLS GROUP : 7 REMARK 3 SELECTION: CHAIN 'H' AND (RESID 137 THROUGH 231 ) REMARK 3 ORIGIN FOR THE GROUP (A): -28.8662 -3.9607 53.7131 REMARK 3 T TENSOR REMARK 3 T11: 0.1712 T22: 0.1467 REMARK 3 T33: 0.1863 T12: -0.0038 REMARK 3 T13: 0.0244 T23: 0.0157 REMARK 3 L TENSOR REMARK 3 L11: 0.3892 L22: 0.8609 REMARK 3 L33: 0.7383 L12: -0.3681 REMARK 3 L13: -0.0592 L23: 0.1587 REMARK 3 S TENSOR REMARK 3 S11: -0.0200 S12: 0.0723 S13: -0.0131 REMARK 3 S21: 0.0453 S22: 0.0455 S23: 0.0957 REMARK 3 S31: 0.0474 S32: -0.0014 S33: -0.0000 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 6Q0E COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 05-AUG-19. REMARK 100 THE DEPOSITION ID IS D_1000243386. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 26-MAY-17 REMARK 200 TEMPERATURE (KELVIN) : 291.15 REMARK 200 PH : 6.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : ALS REMARK 200 BEAMLINE : 8.2.2 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9793 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 315R REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : XSCALE REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 40694 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.150 REMARK 200 RESOLUTION RANGE LOW (A) : 48.292 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.5 REMARK 200 DATA REDUNDANCY : 7.050 REMARK 200 R MERGE (I) : 0.14080 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 13.2100 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.15 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.23 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.8 REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : NULL 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: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 49.88 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.45 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 100 MM SODIUM CHLORIDE, 30% (V/V) PEG REMARK 280 400, 100 MM MES, PH 6.5, VAPOR DIFFUSION, HANGING DROP, REMARK 280 TEMPERATURE 291.15K 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 26.01500 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 100.35000 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 34.89000 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 100.35000 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 26.01500 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 34.89000 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 APPLY THE FOLLOWING TO CHAINS: A, L, H 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 ASN A 88 REMARK 465 PRO A 89 REMARK 465 GLU A 90 REMARK 465 ASN A 91 REMARK 465 PHE A 264 REMARK 465 GLY A 265 REMARK 465 SER A 266 REMARK 465 GLY A 267 REMARK 465 ALA A 268 REMARK 465 LEU A 269 REMARK 465 GLU A 270 REMARK 465 VAL A 271 REMARK 465 LEU A 272 REMARK 465 PHE A 273 REMARK 465 GLN A 274 REMARK 465 ALA L -1 REMARK 465 SER L 0 REMARK 465 SER L 1 REMARK 465 CYS L 214 REMARK 465 SER L 215 REMARK 465 ALA H -1 REMARK 465 SER H 0 REMARK 465 SER H 232 REMARK 465 CYS H 233 REMARK 465 ASP H 234 REMARK 465 LYS H 235 REMARK 465 HIS H 236 REMARK 465 HIS H 237 REMARK 465 HIS H 238 REMARK 465 HIS H 239 REMARK 465 HIS H 240 REMARK 465 HIS H 241 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 HG CYS A 94 SG CYS A 139 1.01 REMARK 500 HG CYS A 94 HG CYS A 139 1.33 REMARK 500 H ASP L 7 O HOH L 404 1.41 REMARK 500 HH TYR L 86 O HOH L 405 1.56 REMARK 500 HH TYR A 256 O HOH A 406 1.56 REMARK 500 H GLY L 161 O HOH L 411 1.58 REMARK 500 SG CYS A 94 SG CYS A 139 1.61 REMARK 500 O HOH L 445 O HOH L 491 1.84 REMARK 500 O HOH A 429 O HOH A 470 1.88 REMARK 500 O HOH H 405 O HOH H 500 1.93 REMARK 500 O HOH L 504 O HOH L 516 1.94 REMARK 500 O HOH A 441 O HOH A 464 1.95 REMARK 500 OD2 ASP H 90 O HOH H 401 1.96 REMARK 500 O HOH L 442 O HOH L 462 1.99 REMARK 500 OG SER H 132 O HOH H 402 2.00 REMARK 500 OG SER H 194 O HOH H 403 2.01 REMARK 500 O HOH H 510 O HOH H 521 2.01 REMARK 500 OE1 GLU L 201 O HOH L 401 2.03 REMARK 500 O SER A 125 O HOH A 401 2.03 REMARK 500 O HOH H 477 O HOH H 502 2.04 REMARK 500 O SER H 145 O HOH H 404 2.05 REMARK 500 O HOH A 423 O HOH A 465 2.05 REMARK 500 O HOH H 489 O HOH H 519 2.05 REMARK 500 O3S MES H 301 O HOH H 405 2.06 REMARK 500 O HOH L 448 O HOH L 475 2.07 REMARK 500 O LEU A 164 O HOH A 402 2.08 REMARK 500 O TYR A 161 O HOH A 403 2.08 REMARK 500 O HOH L 513 O HOH H 522 2.10 REMARK 500 O LYS H 65 O HOH H 406 2.11 REMARK 500 O LYS H 146 O HOH H 407 2.13 REMARK 500 O2S MES H 301 O HOH H 405 2.15 REMARK 500 O HOH H 405 O HOH H 513 2.15 REMARK 500 N ASN H 33 O HOH H 408 2.16 REMARK 500 O HOH L 402 O HOH L 469 2.17 REMARK 500 OG SER L 203 O HOH L 402 2.18 REMARK 500 O PRO H 219 O HOH H 409 2.18 REMARK 500 REMARK 500 REMARK: NULL 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 O HOH H 458 O HOH H 498 3455 2.05 REMARK 500 O HOH H 474 O HOH H 507 3455 2.09 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 SER A 125 -40.06 -132.44 REMARK 500 CYS A 139 61.09 -108.65 REMARK 500 GLU A 173 19.06 58.53 REMARK 500 HIS A 196 -29.81 79.21 REMARK 500 ASN A 199 75.34 -112.89 REMARK 500 LYS L 50 -109.44 53.66 REMARK 500 SER L 66 120.00 -163.64 REMARK 500 ALA L 83 -175.10 -171.03 REMARK 500 ASP L 154 -106.21 58.15 REMARK 500 ASN L 173 -4.17 70.48 REMARK 500 SER H 30 98.30 -59.90 REMARK 500 THR H 106 52.42 -96.01 REMARK 500 ASP H 161 74.55 49.83 REMARK 500 SER H 178 96.43 -65.40 REMARK 500 REMARK 500 REMARK: NULL REMARK 525 REMARK 525 SOLVENT REMARK 525 REMARK 525 THE SOLVENT MOLECULES HAVE CHAIN IDENTIFIERS THAT REMARK 525 INDICATE THE POLYMER CHAIN WITH WHICH THEY ARE MOST REMARK 525 CLOSELY ASSOCIATED. THE REMARK LISTS ALL THE SOLVENT REMARK 525 MOLECULES WHICH ARE MORE THAN 5A AWAY FROM THE REMARK 525 NEAREST POLYMER CHAIN (M = MODEL NUMBER; REMARK 525 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE REMARK 525 NUMBER; I=INSERTION CODE): REMARK 525 REMARK 525 M RES CSSEQI REMARK 525 HOH A 478 DISTANCE = 6.60 ANGSTROMS REMARK 525 HOH L 526 DISTANCE = 5.88 ANGSTROMS REMARK 525 HOH L 527 DISTANCE = 7.03 ANGSTROMS REMARK 525 HOH H 532 DISTANCE = 6.31 ANGSTROMS REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue GOL A 301 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue 2PE L 301 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue MES H 301 DBREF 6Q0E A 52 267 UNP B4UPF7 B4UPF7_9INFA 65 280 DBREF 6Q0E L -1 215 PDB 6Q0E 6Q0E -1 215 DBREF 6Q0E H -1 241 PDB 6Q0E 6Q0E -1 241 SEQADV 6Q0E ALA A 268 UNP B4UPF7 EXPRESSION TAG SEQADV 6Q0E LEU A 269 UNP B4UPF7 EXPRESSION TAG SEQADV 6Q0E GLU A 270 UNP B4UPF7 EXPRESSION TAG SEQADV 6Q0E VAL A 271 UNP B4UPF7 EXPRESSION TAG SEQADV 6Q0E LEU A 272 UNP B4UPF7 EXPRESSION TAG SEQADV 6Q0E PHE A 273 UNP B4UPF7 EXPRESSION TAG SEQADV 6Q0E GLN A 274 UNP B4UPF7 EXPRESSION TAG SEQRES 1 A 223 ALA PRO LEU GLN LEU GLY ASN CYS SER VAL ALA GLY TRP SEQRES 2 A 223 ILE LEU GLY ASN PRO GLU CYS GLU SER LEU ILE SER LYS SEQRES 3 A 223 GLU SER TRP SER TYR ILE VAL GLU THR PRO ASN PRO GLU SEQRES 4 A 223 ASN GLY THR CYS TYR PRO GLY TYR PHE ALA ASP TYR GLU SEQRES 5 A 223 GLU LEU ARG GLU GLN LEU SER SER VAL SER SER PHE GLU SEQRES 6 A 223 ARG PHE GLU ILE PHE PRO LYS GLU SER SER TRP PRO ASN SEQRES 7 A 223 HIS THR VAL THR GLY VAL THR ALA SER CYS SER HIS ASN SEQRES 8 A 223 GLY LYS SER SER PHE TYR ARG ASN LEU LEU TRP LEU THR SEQRES 9 A 223 GLU LYS ASN GLY LEU TYR PRO ASN LEU SER ASN SER TYR SEQRES 10 A 223 VAL ASN ASN LYS GLU LYS GLU VAL LEU VAL LEU TRP GLY SEQRES 11 A 223 VAL HIS HIS PRO SER ASN ILE ARG ASP GLN ARG ALA ILE SEQRES 12 A 223 TYR HIS THR GLU ASN ALA TYR VAL SER VAL VAL SER SER SEQRES 13 A 223 HIS TYR SER ARG ARG PHE THR PRO GLU ILE ALA LYS ARG SEQRES 14 A 223 PRO LYS VAL ARG GLY GLN GLU GLY ARG ILE ASN TYR TYR SEQRES 15 A 223 TRP THR LEU LEU GLU PRO GLY ASP THR ILE ILE PHE GLU SEQRES 16 A 223 ALA ASN GLY ASN LEU ILE ALA PRO TRP TYR ALA PHE ALA SEQRES 17 A 223 LEU SER ARG GLY PHE GLY SER GLY ALA LEU GLU VAL LEU SEQRES 18 A 223 PHE GLN SEQRES 1 L 217 ALA SER SER SER GLU LEU THR GLN ASP PRO ALA VAL SER SEQRES 2 L 217 VAL ALA LEU GLY GLN THR VAL ARG ILE THR CYS GLN GLY SEQRES 3 L 217 ASP SER LEU ARG SER TYR TYR ALA SER TRP TYR GLN GLN SEQRES 4 L 217 LYS PRO GLY GLN ALA PRO VAL LEU VAL ILE TYR GLY LYS SEQRES 5 L 217 ASN ASN ARG PRO SER GLY ILE PRO ASP ARG PHE SER GLY SEQRES 6 L 217 SER SER SER GLY ASN THR ALA SER LEU THR ILE THR GLY SEQRES 7 L 217 ALA GLN ALA GLU ASP GLU ALA ASP TYR TYR CYS ASN SER SEQRES 8 L 217 ARG ASP SER SER GLY ASN HIS PRO VAL VAL PHE GLY GLY SEQRES 9 L 217 GLY THR LYS LEU THR VAL LEU GLY GLN PRO LYS GLY ALA SEQRES 10 L 217 PRO SER VAL THR LEU PHE PRO PRO SER SER GLU GLU LEU SEQRES 11 L 217 GLN ALA ASN LYS ALA THR LEU VAL CYS LEU ILE SER ASP SEQRES 12 L 217 PHE TYR PRO GLY ALA VAL THR VAL ALA TRP LYS ALA ASP SEQRES 13 L 217 SER SER PRO VAL LYS ALA GLY VAL GLU THR THR THR PRO SEQRES 14 L 217 SER LYS GLN SER ASN ASN LYS TYR ALA ALA SER SER TYR SEQRES 15 L 217 LEU SER LEU THR PRO GLU GLN TRP LYS SER HIS ARG SER SEQRES 16 L 217 TYR SER CYS GLN VAL THR HIS GLU GLY SER THR VAL GLU SEQRES 17 L 217 LYS THR VAL ALA PRO THR GLU CYS SER SEQRES 1 H 243 ALA SER GLN VAL GLN LEU GLN GLU SER GLY PRO GLY LEU SEQRES 2 H 243 VAL LYS PRO SER GLY THR LEU SER LEU THR CYS ALA VAL SEQRES 3 H 243 SER GLY GLY SER ILE SER SER SER ASN TRP TRP SER TRP SEQRES 4 H 243 VAL ARG GLN PRO PRO GLY LYS GLY LEU GLU TRP ILE GLY SEQRES 5 H 243 GLU ILE TYR HIS SER GLY SER THR ASN TYR ASN PRO SER SEQRES 6 H 243 LEU LYS SER ARG VAL THR ILE SER VAL ASP LYS SER LYS SEQRES 7 H 243 ASN GLN PHE SER LEU LYS LEU SER SER VAL THR ALA ALA SEQRES 8 H 243 ASP THR ALA VAL TYR TYR CYS ALA ARG ALA PRO PRO TYR SEQRES 9 H 243 CYS SER SER THR SER CYS PRO ASP ASP TYR TYR TYR TYR SEQRES 10 H 243 TYR MET ASP VAL TRP GLY LYS GLY THR THR VAL THR VAL SEQRES 11 H 243 SER GLY ALA SER THR LYS GLY PRO SER VAL PHE PRO LEU SEQRES 12 H 243 ALA PRO SER SER LYS SER THR SER GLY GLY THR ALA ALA SEQRES 13 H 243 LEU GLY CYS LEU VAL LYS ASP TYR PHE PRO GLU PRO VAL SEQRES 14 H 243 THR VAL SER TRP ASN SER GLY ALA LEU THR SER GLY VAL SEQRES 15 H 243 HIS THR PHE PRO ALA VAL LEU GLN SER SER GLY LEU TYR SEQRES 16 H 243 SER LEU SER SER VAL VAL THR VAL PRO SER SER SER LEU SEQRES 17 H 243 GLY THR GLN THR TYR ILE CYS ASN VAL ASN HIS LYS PRO SEQRES 18 H 243 SER ASN THR LYS VAL ASP LYS ARG VAL GLU PRO LYS SER SEQRES 19 H 243 CYS ASP LYS HIS HIS HIS HIS HIS HIS HET GOL A 301 14 HET 2PE L 301 66 HET MES H 301 25 HETNAM GOL GLYCEROL HETNAM 2PE NONAETHYLENE GLYCOL HETNAM MES 2-(N-MORPHOLINO)-ETHANESULFONIC ACID HETSYN GOL GLYCERIN; PROPANE-1,2,3-TRIOL FORMUL 4 GOL C3 H8 O3 FORMUL 5 2PE C18 H38 O10 FORMUL 6 MES C6 H13 N O4 S FORMUL 7 HOH *337(H2 O) HELIX 1 AA1 SER A 60 GLY A 67 1 8 HELIX 2 AA2 ASN A 68 GLU A 72 5 5 HELIX 3 AA3 ASP A 101 LEU A 109 1 9 HELIX 4 AA4 ASN A 187 TYR A 195 1 9 HELIX 5 AA5 ASP L 25 SER L 29 5 5 HELIX 6 AA6 GLN L 78 GLU L 82 5 5 HELIX 7 AA7 SER L 124 ALA L 130 1 7 HELIX 8 AA8 THR L 184 SER L 190 1 7 HELIX 9 AA9 PRO H 62 SER H 66 5 5 HELIX 10 AB1 THR H 87 THR H 91 5 5 HELIX 11 AB2 PRO H 109 TYR H 114 5 6 HELIX 12 AB3 SER H 173 ALA H 175 5 3 HELIX 13 AB4 LYS H 218 ASN H 221 5 4 SHEET 1 AA1 2 LEU A 54 GLN A 55 0 SHEET 2 AA1 2 ILE A 83 VAL A 84 1 O VAL A 84 N LEU A 54 SHEET 1 AA2 5 VAL A 112 GLU A 119 0 SHEET 2 AA2 5 TYR A 256 ARG A 262 -1 O ALA A 257 N PHE A 118 SHEET 3 AA2 5 GLU A 175 HIS A 184 -1 N LEU A 177 O PHE A 258 SHEET 4 AA2 5 LEU A 251 PRO A 254 -1 O ILE A 252 N GLY A 181 SHEET 5 AA2 5 LEU A 151 TRP A 153 -1 N LEU A 152 O ALA A 253 SHEET 1 AA3 4 VAL A 112 GLU A 119 0 SHEET 2 AA3 4 TYR A 256 ARG A 262 -1 O ALA A 257 N PHE A 118 SHEET 3 AA3 4 GLU A 175 HIS A 184 -1 N LEU A 177 O PHE A 258 SHEET 4 AA3 4 ARG A 229 LEU A 237 -1 O ARG A 229 N HIS A 184 SHEET 1 AA4 2 THR A 136 SER A 140 0 SHEET 2 AA4 2 SER A 145 SER A 146 -1 O SER A 146 N THR A 136 SHEET 1 AA5 4 LEU A 164 VAL A 169 0 SHEET 2 AA5 4 THR A 242 ALA A 247 -1 O ALA A 247 N LEU A 164 SHEET 3 AA5 4 VAL A 202 VAL A 205 -1 N SER A 203 O GLU A 246 SHEET 4 AA5 4 SER A 210 PHE A 213 -1 O PHE A 213 N VAL A 202 SHEET 1 AA6 4 THR L 5 GLN L 6 0 SHEET 2 AA6 4 VAL L 18 GLN L 23 -1 O GLN L 23 N THR L 5 SHEET 3 AA6 4 THR L 69 ILE L 74 -1 O ALA L 70 N CYS L 22 SHEET 4 AA6 4 PHE L 61 SER L 66 -1 N SER L 62 O THR L 73 SHEET 1 AA7 5 ALA L 9 ALA L 13 0 SHEET 2 AA7 5 THR L 104 LEU L 109 1 O THR L 107 N VAL L 12 SHEET 3 AA7 5 ALA L 83 ARG L 90 -1 N ALA L 83 O LEU L 106 SHEET 4 AA7 5 SER L 33 GLN L 37 -1 N SER L 33 O ASN L 88 SHEET 5 AA7 5 VAL L 44 ILE L 47 -1 O VAL L 46 N TRP L 34 SHEET 1 AA8 4 ALA L 9 ALA L 13 0 SHEET 2 AA8 4 THR L 104 LEU L 109 1 O THR L 107 N VAL L 12 SHEET 3 AA8 4 ALA L 83 ARG L 90 -1 N ALA L 83 O LEU L 106 SHEET 4 AA8 4 VAL L 98 PHE L 100 -1 O VAL L 99 N SER L 89 SHEET 1 AA9 4 SER L 117 PHE L 121 0 SHEET 2 AA9 4 ALA L 133 PHE L 142 -1 O VAL L 136 N PHE L 121 SHEET 3 AA9 4 TYR L 175 LEU L 183 -1 O LEU L 183 N ALA L 133 SHEET 4 AA9 4 VAL L 162 THR L 164 -1 N GLU L 163 O TYR L 180 SHEET 1 AB1 4 SER L 117 PHE L 121 0 SHEET 2 AB1 4 ALA L 133 PHE L 142 -1 O VAL L 136 N PHE L 121 SHEET 3 AB1 4 TYR L 175 LEU L 183 -1 O LEU L 183 N ALA L 133 SHEET 4 AB1 4 SER L 168 LYS L 169 -1 N SER L 168 O ALA L 176 SHEET 1 AB2 4 SER L 156 VAL L 158 0 SHEET 2 AB2 4 THR L 148 ALA L 153 -1 N ALA L 153 O SER L 156 SHEET 3 AB2 4 TYR L 194 HIS L 200 -1 O GLN L 197 N ALA L 150 SHEET 4 AB2 4 SER L 203 VAL L 209 -1 O SER L 203 N HIS L 200 SHEET 1 AB3 4 GLN H 3 SER H 7 0 SHEET 2 AB3 4 THR H 17 SER H 25 -1 O ALA H 23 N GLN H 5 SHEET 3 AB3 4 GLN H 78 SER H 84 -1 O LEU H 83 N LEU H 18 SHEET 4 AB3 4 VAL H 68 ASP H 73 -1 N ASP H 73 O GLN H 78 SHEET 1 AB4 6 LEU H 11 VAL H 12 0 SHEET 2 AB4 6 THR H 124 VAL H 128 1 O THR H 127 N VAL H 12 SHEET 3 AB4 6 ALA H 92 ALA H 99 -1 N ALA H 92 O VAL H 126 SHEET 4 AB4 6 TRP H 34 GLN H 40 -1 N VAL H 38 O TYR H 95 SHEET 5 AB4 6 GLU H 47 ILE H 52 -1 O GLU H 47 N ARG H 39 SHEET 6 AB4 6 THR H 58 TYR H 60 -1 O ASN H 59 N GLU H 51 SHEET 1 AB5 4 SER H 137 LEU H 141 0 SHEET 2 AB5 4 THR H 152 TYR H 162 -1 O LYS H 160 N SER H 137 SHEET 3 AB5 4 TYR H 193 PRO H 202 -1 O TYR H 193 N TYR H 162 SHEET 4 AB5 4 HIS H 181 THR H 182 -1 N HIS H 181 O VAL H 198 SHEET 1 AB6 4 THR H 148 SER H 149 0 SHEET 2 AB6 4 THR H 152 TYR H 162 -1 O THR H 152 N SER H 149 SHEET 3 AB6 4 TYR H 193 PRO H 202 -1 O TYR H 193 N TYR H 162 SHEET 4 AB6 4 VAL H 186 LEU H 187 -1 N VAL H 186 O SER H 194 SHEET 1 AB7 3 THR H 168 TRP H 171 0 SHEET 2 AB7 3 TYR H 211 HIS H 217 -1 O ASN H 214 N SER H 170 SHEET 3 AB7 3 THR H 222 VAL H 228 -1 O VAL H 228 N TYR H 211 SSBOND 1 CYS A 59 CYS A 71 1555 1555 2.04 SSBOND 2 CYS L 22 CYS L 87 1555 1555 2.03 SSBOND 3 CYS L 137 CYS L 196 1555 1555 2.04 SSBOND 4 CYS H 22 CYS H 96 1555 1555 2.04 SSBOND 5 CYS H 103 CYS H 108 1555 1555 2.03 SSBOND 6 CYS H 157 CYS H 213 1555 1555 2.04 CISPEP 1 TYR L 143 PRO L 144 0 1.08 CISPEP 2 PHE H 163 PRO H 164 0 -4.34 CISPEP 3 GLU H 165 PRO H 166 0 -3.36 SITE 1 AC1 6 ALA A 137 SER A 138 ARG A 224 GLY A 225 SITE 2 AC1 6 GLN A 226 HOH A 440 SITE 1 AC2 14 GLY H 43 PRO L 8 GLU L 82 ALA L 83 SITE 2 AC2 14 ASP L 84 TYR L 86 LYS L 105 LEU L 106 SITE 3 AC2 14 THR L 107 GLY L 145 TYR L 175 HOH L 410 SITE 4 AC2 14 HOH L 423 HOH L 454 SITE 1 AC3 9 SER H 173 ASN H 214 LYS H 223 ASP H 225 SITE 2 AC3 9 HOH H 405 HOH H 493 GLN L 197 THR L 204 SITE 3 AC3 9 GLU L 206 CRYST1 52.030 69.780 200.700 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 0.019220 0.000000 0.000000 0.00000 SCALE2 0.000000 0.014331 0.000000 0.00000 SCALE3 0.000000 0.000000 0.004983 0.00000