HEADER VIRAL PROTEIN 17-AUG-11 3TGS TITLE CRYSTAL STRUCTURE OF HIV-1 CLADE C STRAIN C1086 GP120 CORE IN COMPLEX TITLE 2 WITH NBD-556 COMPND MOL_ID: 1; COMPND 2 MOLECULE: HIV-1 CLADE C1086 GP120 CORE; COMPND 3 CHAIN: A, B; COMPND 4 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HUMAN IMMUNODEFICIENCY VIRUS 1; SOURCE 3 ORGANISM_COMMON: HIV-1; SOURCE 4 ORGANISM_TAXID: 11676; SOURCE 5 EXPRESSION_SYSTEM: HOMO SAPIENS; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 9606; SOURCE 7 EXPRESSION_SYSTEM_CELL_LINE: HEK 293; SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 9 EXPRESSION_SYSTEM_PLASMID: PVRC8400 KEYWDS HIV-1 GP120, CLADE C1086, COMPLEX, NBD-556, VIRAL PROTEIN EXPDTA X-RAY DIFFRACTION AUTHOR Y.D.KWON,P.D.KWONG REVDAT 5 29-JUL-20 3TGS 1 COMPND REMARK HETNAM LINK REVDAT 5 2 1 SITE REVDAT 4 08-NOV-17 3TGS 1 REMARK REVDAT 3 17-DEC-14 3TGS 1 HETSYN REMARK REVDAT 2 23-MAY-12 3TGS 1 JRNL REVDAT 1 04-APR-12 3TGS 0 JRNL AUTH Y.D.KWON,A.FINZI,X.WU,C.DOGO-ISONAGIE,L.K.LEE,L.R.MOORE, JRNL AUTH 2 S.D.SCHMIDT,J.STUCKEY,Y.YANG,T.ZHOU,J.ZHU,D.A.VICIC, JRNL AUTH 3 A.K.DEBNATH,L.SHAPIRO,C.A.BEWLEY,J.R.MASCOLA,J.G.SODROSKI, JRNL AUTH 4 P.D.KWONG JRNL TITL UNLIGANDED HIV-1 GP120 CORE STRUCTURES ASSUME THE CD4-BOUND JRNL TITL 2 CONFORMATION WITH REGULATION BY QUATERNARY INTERACTIONS AND JRNL TITL 3 VARIABLE LOOPS. JRNL REF PROC.NATL.ACAD.SCI.USA V. 109 5663 2012 JRNL REFN ISSN 0027-8424 JRNL PMID 22451932 JRNL DOI 10.1073/PNAS.1112391109 REMARK 2 REMARK 2 RESOLUTION. 2.70 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 1.6.4_486 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) : 2.70 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 44.84 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 73.5 REMARK 3 NUMBER OF REFLECTIONS : 17156 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.242 REMARK 3 R VALUE (WORKING SET) : 0.239 REMARK 3 FREE R VALUE : 0.295 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.020 REMARK 3 FREE R VALUE TEST SET COUNT : 861 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 44.8434 - 4.8584 0.99 3827 189 0.2414 0.2778 REMARK 3 2 4.8584 - 3.8570 1.00 3684 210 0.2022 0.2474 REMARK 3 3 3.8570 - 3.3696 0.97 3538 190 0.2199 0.2626 REMARK 3 4 3.3696 - 3.0616 0.75 2764 134 0.2725 0.4142 REMARK 3 5 3.0616 - 2.8422 0.47 1712 95 0.3271 0.3915 REMARK 3 6 2.8422 - 2.6746 0.21 770 43 0.3690 0.4612 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : FLAT BULK SOLVENT MODEL REMARK 3 SOLVENT RADIUS : 1.00 REMARK 3 SHRINKAGE RADIUS : 0.72 REMARK 3 K_SOL : 0.29 REMARK 3 B_SOL : 25.12 REMARK 3 REMARK 3 ERROR ESTIMATES. REMARK 3 COORDINATE ERROR (MAXIMUM-LIKELIHOOD BASED) : 0.440 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 30.590 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) : -18.14290 REMARK 3 B22 (A**2) : -15.72000 REMARK 3 B33 (A**2) : -16.82200 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 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 : 0.010 5964 REMARK 3 ANGLE : 0.699 8098 REMARK 3 CHIRALITY : 0.044 934 REMARK 3 PLANARITY : 0.003 1014 REMARK 3 DIHEDRAL : 16.654 2240 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 8 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: CHAIN A AND RESI 44:89 REMARK 3 ORIGIN FOR THE GROUP (A): -3.4264 -21.0186 15.9902 REMARK 3 T TENSOR REMARK 3 T11: 0.6252 T22: 0.4908 REMARK 3 T33: 0.3678 T12: 0.0785 REMARK 3 T13: 0.1254 T23: -0.0105 REMARK 3 L TENSOR REMARK 3 L11: 0.2534 L22: 0.8178 REMARK 3 L33: 1.8258 L12: -0.4571 REMARK 3 L13: 0.0676 L23: -0.0069 REMARK 3 S TENSOR REMARK 3 S11: -0.0591 S12: 0.3220 S13: -0.4139 REMARK 3 S21: 0.0788 S22: 0.1271 S23: -0.2373 REMARK 3 S31: 0.1554 S32: 0.6606 S33: 0.1807 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: CHAIN A AND RESI 90:254 REMARK 3 ORIGIN FOR THE GROUP (A): -8.8785 -12.3600 19.3471 REMARK 3 T TENSOR REMARK 3 T11: 0.1962 T22: 0.2981 REMARK 3 T33: 0.0158 T12: 0.0089 REMARK 3 T13: 0.2068 T23: 0.1019 REMARK 3 L TENSOR REMARK 3 L11: 0.7367 L22: 3.1911 REMARK 3 L33: 3.9861 L12: 0.4576 REMARK 3 L13: -0.6224 L23: 0.3564 REMARK 3 S TENSOR REMARK 3 S11: 0.0802 S12: 0.1189 S13: 0.1491 REMARK 3 S21: -0.3247 S22: -0.2455 S23: -1.2860 REMARK 3 S31: -0.1686 S32: 0.8808 S33: 0.0729 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: CHAIN A AND RESI 255:472 REMARK 3 ORIGIN FOR THE GROUP (A): -24.0527 -9.4899 33.1623 REMARK 3 T TENSOR REMARK 3 T11: 0.2380 T22: 0.1489 REMARK 3 T33: -0.0215 T12: -0.0176 REMARK 3 T13: 0.0003 T23: -0.0014 REMARK 3 L TENSOR REMARK 3 L11: 1.9585 L22: 2.7002 REMARK 3 L33: 2.2049 L12: 0.4254 REMARK 3 L13: 0.8096 L23: -0.2870 REMARK 3 S TENSOR REMARK 3 S11: -0.0397 S12: -0.2925 S13: 0.0386 REMARK 3 S21: 0.4175 S22: -0.1763 S23: -0.0311 REMARK 3 S31: -0.2854 S32: -0.1856 S33: 0.0366 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: CHAIN A AND RESI 473:492 REMARK 3 ORIGIN FOR THE GROUP (A): -4.1492 -10.4032 23.8999 REMARK 3 T TENSOR REMARK 3 T11: -0.0216 T22: 0.6545 REMARK 3 T33: 0.4944 T12: 0.0127 REMARK 3 T13: 0.0878 T23: -0.0644 REMARK 3 L TENSOR REMARK 3 L11: 0.3476 L22: 1.1227 REMARK 3 L33: 1.3292 L12: 0.6224 REMARK 3 L13: 0.5710 L23: 1.0660 REMARK 3 S TENSOR REMARK 3 S11: 0.1869 S12: -0.3703 S13: -0.6337 REMARK 3 S21: 0.1230 S22: 0.3006 S23: -0.3217 REMARK 3 S31: -0.1249 S32: 0.7444 S33: -0.5121 REMARK 3 TLS GROUP : 5 REMARK 3 SELECTION: CHAIN B AND RESI 44:89 REMARK 3 ORIGIN FOR THE GROUP (A): -26.2647 -39.5909 2.5853 REMARK 3 T TENSOR REMARK 3 T11: 0.9790 T22: 0.5594 REMARK 3 T33: 0.4045 T12: -0.1067 REMARK 3 T13: -0.3542 T23: 0.1261 REMARK 3 L TENSOR REMARK 3 L11: 0.9880 L22: 1.1092 REMARK 3 L33: 0.2121 L12: 0.1907 REMARK 3 L13: 0.4541 L23: 0.1617 REMARK 3 S TENSOR REMARK 3 S11: -0.3359 S12: 0.5726 S13: 0.2465 REMARK 3 S21: -0.8102 S22: 0.0173 S23: 0.2423 REMARK 3 S31: -0.5938 S32: -0.0111 S33: 0.3451 REMARK 3 TLS GROUP : 6 REMARK 3 SELECTION: CHAIN B AND RESI 90:254 REMARK 3 ORIGIN FOR THE GROUP (A): -23.6067 -46.9869 9.9730 REMARK 3 T TENSOR REMARK 3 T11: 0.4525 T22: 0.1881 REMARK 3 T33: 0.4126 T12: -0.0726 REMARK 3 T13: -0.5179 T23: 0.1900 REMARK 3 L TENSOR REMARK 3 L11: 1.5806 L22: 1.4574 REMARK 3 L33: 1.4900 L12: 0.6377 REMARK 3 L13: 0.3479 L23: -0.4249 REMARK 3 S TENSOR REMARK 3 S11: -0.2131 S12: 0.1252 S13: 0.4187 REMARK 3 S21: -0.8968 S22: 0.3854 S23: 0.6599 REMARK 3 S31: 0.3223 S32: -0.2913 S33: -0.0590 REMARK 3 TLS GROUP : 7 REMARK 3 SELECTION: CHAIN B AND RESI 255:472 REMARK 3 ORIGIN FOR THE GROUP (A): -13.7273 -46.3817 28.2304 REMARK 3 T TENSOR REMARK 3 T11: 0.1760 T22: 0.2814 REMARK 3 T33: 0.1704 T12: 0.0976 REMARK 3 T13: -0.1655 T23: -0.1706 REMARK 3 L TENSOR REMARK 3 L11: 4.8021 L22: 2.2641 REMARK 3 L33: 2.1443 L12: 1.0237 REMARK 3 L13: -2.3830 L23: -1.3877 REMARK 3 S TENSOR REMARK 3 S11: -0.1949 S12: -1.1125 S13: 0.5320 REMARK 3 S21: -0.2061 S22: 0.2812 S23: 0.3581 REMARK 3 S31: 0.3472 S32: 0.3894 S33: 0.0012 REMARK 3 TLS GROUP : 8 REMARK 3 SELECTION: CHAIN B AND RESI 473:492 REMARK 3 ORIGIN FOR THE GROUP (A): -29.6768 -47.0172 13.1459 REMARK 3 T TENSOR REMARK 3 T11: 0.2055 T22: 0.3869 REMARK 3 T33: 0.6727 T12: -0.1404 REMARK 3 T13: -0.4969 T23: 0.2671 REMARK 3 L TENSOR REMARK 3 L11: 0.1905 L22: 1.2924 REMARK 3 L33: 4.5615 L12: 0.2166 REMARK 3 L13: -0.7354 L23: 0.5040 REMARK 3 S TENSOR REMARK 3 S11: -0.2633 S12: 0.4914 S13: 0.4418 REMARK 3 S21: -0.5338 S22: 0.0943 S23: 0.7226 REMARK 3 S31: 0.2832 S32: -0.8275 S33: -0.2369 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 3TGS COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 24-AUG-11. REMARK 100 THE DEPOSITION ID IS D_1000067458. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 07-AUG-09 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 6.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : APS REMARK 200 BEAMLINE : 22-ID REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : IMAGE PLATE REMARK 200 DETECTOR MANUFACTURER : MAR SCANNER 300 MM PLATE REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 17560 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.700 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 74.0 REMARK 200 DATA REDUNDANCY : 5.200 REMARK 200 R MERGE (I) : 0.11600 REMARK 200 R SYM (I) : 0.09600 REMARK 200 FOR THE DATA SET : 26.2000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.70 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.80 REMARK 200 COMPLETENESS FOR SHELL (%) : 26.3 REMARK 200 DATA REDUNDANCY IN SHELL : 3.60 REMARK 200 R MERGE FOR SHELL (I) : 0.22200 REMARK 200 R SYM FOR SHELL (I) : 0.21700 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: NULL REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 51.57 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.54 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 16% PEG 1500, 0.1M CACL2, 0.1M REMARK 280 IMIDAZOLE, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 293K, PH REMARK 280 6.5 REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: C 2 2 21 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 -X,Y,-Z+1/2 REMARK 290 4555 X,-Y,-Z REMARK 290 5555 X+1/2,Y+1/2,Z REMARK 290 6555 -X+1/2,-Y+1/2,Z+1/2 REMARK 290 7555 -X+1/2,Y+1/2,-Z+1/2 REMARK 290 8555 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 95.74000 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 95.74000 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 5 1.000000 0.000000 0.000000 33.48000 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 63.00000 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 6 -1.000000 0.000000 0.000000 33.48000 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 63.00000 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 95.74000 REMARK 290 SMTRY1 7 -1.000000 0.000000 0.000000 33.48000 REMARK 290 SMTRY2 7 0.000000 1.000000 0.000000 63.00000 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 95.74000 REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 33.48000 REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 63.00000 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 0.00000 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: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA 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 350 REMARK 350 BIOMOLECULE: 2 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA 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 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 620 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 ASN A 317 REMARK 465 GLY A 318 REMARK 465 GLY A 319 REMARK 465 SER A 320 REMARK 465 GLY A 321 REMARK 465 SER A 322 REMARK 465 GLY A 323 REMARK 465 GLY A 324 REMARK 465 GLN A 459A REMARK 465 SER A 459B REMARK 465 ASN A 459C REMARK 465 GLU A 459D REMARK 465 THR A 459E REMARK 465 ASN B 317 REMARK 465 GLY B 318 REMARK 465 GLY B 319 REMARK 465 SER B 320 REMARK 465 GLY B 321 REMARK 465 SER B 322 REMARK 465 GLY B 323 REMARK 465 GLY B 324 REMARK 465 GLN B 459A REMARK 465 SER B 459B REMARK 465 ASN B 459C REMARK 465 GLU B 459D REMARK 465 THR B 459E 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 ND2 ASN A 234 C1 NAG A 501 1.11 REMARK 500 ND2 ASN A 339 O5 NAG A 505 2.06 REMARK 500 ND2 ASN A 234 O5 NAG A 501 2.10 REMARK 500 CG ASN A 234 C1 NAG A 501 2.18 REMARK 500 REMARK 500 REMARK: NULL 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),1X,F6.3) 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 RES CSSEQI ATM2 DEVIATION REMARK 500 HIS A 287 CG HIS A 287 ND1 -0.105 REMARK 500 HIS A 287 NE2 HIS A 287 CD2 -0.081 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 LYS A 46 -167.37 -164.64 REMARK 500 ASP A 57 48.78 -93.52 REMARK 500 SER A 115 -78.71 -61.80 REMARK 500 ASP A 211 102.30 -172.25 REMARK 500 PRO A 220 171.91 -59.63 REMARK 500 LYS A 231 30.31 -78.15 REMARK 500 THR A 232 6.59 -151.27 REMARK 500 CYS A 239 102.66 -160.94 REMARK 500 THR A 248 -167.65 -100.95 REMARK 500 GLN A 258 -48.03 76.84 REMARK 500 GLU A 268 -100.95 -87.38 REMARK 500 THR A 341 -74.71 -55.02 REMARK 500 SER A 356 83.50 -176.79 REMARK 500 SER A 365 -70.22 -36.38 REMARK 500 HIS A 405 -153.71 -109.99 REMARK 500 THR A 406 135.87 -175.11 REMARK 500 LYS A 487 118.05 -168.42 REMARK 500 LYS B 46 -169.55 -166.28 REMARK 500 LEU B 52 -167.26 -76.42 REMARK 500 ASN B 80 80.80 -150.02 REMARK 500 PRO B 212 154.96 -47.10 REMARK 500 PRO B 220 173.91 -57.86 REMARK 500 THR B 248 -163.33 -110.13 REMARK 500 GLN B 258 -71.61 70.75 REMARK 500 GLU B 268 -103.70 -99.29 REMARK 500 ASN B 276 99.25 -166.64 REMARK 500 THR B 341 -72.02 -57.45 REMARK 500 SER B 356 93.47 -161.63 REMARK 500 HIS B 405 -148.79 -107.81 REMARK 500 THR B 465 97.06 -161.41 REMARK 500 LYS B 487 111.51 -171.00 REMARK 500 REMARK 500 REMARK: NULL REMARK 610 REMARK 610 MISSING HETEROATOM REMARK 610 THE FOLLOWING RESIDUES HAVE MISSING ATOMS (M=MODEL NUMBER; REMARK 610 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 610 I=INSERTION CODE): REMARK 610 M RES C SSEQI REMARK 610 NAG A 501 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 3TGQ RELATED DB: PDB REMARK 900 RELATED ID: 3TGR RELATED DB: PDB REMARK 900 RELATED ID: 3TGT RELATED DB: PDB REMARK 900 RELATED ID: 3TIH RELATED DB: PDB DBREF 3TGS A 44 492 PDB 3TGS 3TGS 44 492 DBREF 3TGS B 44 492 PDB 3TGS 3TGS 44 492 SEQRES 1 A 358 VAL TRP LYS GLU ALA LYS THR THR LEU PHE CYS ALA SER SEQRES 2 A 358 ASP ALA LYS ALA TYR GLU LYS GLU VAL HIS ASN VAL TRP SEQRES 3 A 358 ALA THR HIS ALA CYS VAL PRO THR ASP PRO ASN PRO GLN SEQRES 4 A 358 GLU MET VAL LEU ALA ASN VAL THR GLU ASN PHE ASN MET SEQRES 5 A 358 TRP LYS ASN ASP MET VAL GLU GLN MET HIS GLU ASP ILE SEQRES 6 A 358 ILE SER LEU TRP ASP GLU SER LEU LYS PRO CYS VAL LYS SEQRES 7 A 358 LEU THR GLY GLY SER ALA ILE THR GLN ALA CYS PRO LYS SEQRES 8 A 358 VAL SER PHE ASP PRO ILE PRO LEU HIS TYR CYS ALA PRO SEQRES 9 A 358 ALA GLY PHE ALA ILE LEU LYS CYS ASN ASN LYS THR PHE SEQRES 10 A 358 ASN GLY THR GLY PRO CYS ARG ASN VAL SER THR VAL GLN SEQRES 11 A 358 CYS THR HIS GLY ILE LYS PRO VAL VAL SER THR GLN LEU SEQRES 12 A 358 LEU LEU ASN GLY SER LEU ALA GLU GLU GLU ILE ILE ILE SEQRES 13 A 358 ARG SER GLU ASN LEU THR ASN ASN ALA LYS THR ILE ILE SEQRES 14 A 358 VAL HIS LEU ASN GLU SER VAL ASN ILE VAL CYS THR ARG SEQRES 15 A 358 PRO ASN ASN GLY GLY SER GLY SER GLY GLY ASN ILE ARG SEQRES 16 A 358 GLN ALA HIS CYS ASN ILE ASN GLU SER LYS TRP ASN ASN SEQRES 17 A 358 THR LEU GLN LYS VAL GLY GLU GLU LEU ALA LYS HIS PHE SEQRES 18 A 358 PRO SER LYS THR ILE LYS PHE GLU PRO SER SER GLY GLY SEQRES 19 A 358 ASP LEU GLU ILE THR THR HIS SER PHE ASN CYS ARG GLY SEQRES 20 A 358 GLU PHE PHE TYR CYS ASN THR SER ASP LEU PHE ASN GLY SEQRES 21 A 358 THR TYR ARG ASN GLY THR TYR ASN HIS THR GLY ARG SER SEQRES 22 A 358 SER ASN GLY THR ILE THR LEU GLN CYS LYS ILE LYS GLN SEQRES 23 A 358 ILE ILE ASN MET TRP GLN GLU VAL GLY ARG ALA ILE TYR SEQRES 24 A 358 ALA PRO PRO ILE GLU GLY GLU ILE THR CYS ASN SER ASN SEQRES 25 A 358 ILE THR GLY LEU LEU LEU LEU ARG ASP GLY GLY GLN SER SEQRES 26 A 358 ASN GLU THR ASN ASP THR GLU THR PHE ARG PRO GLY GLY SEQRES 27 A 358 GLY ASP MET ARG ASP ASN TRP ARG SER GLU LEU TYR LYS SEQRES 28 A 358 TYR LYS VAL VAL GLU ILE LYS SEQRES 1 B 358 VAL TRP LYS GLU ALA LYS THR THR LEU PHE CYS ALA SER SEQRES 2 B 358 ASP ALA LYS ALA TYR GLU LYS GLU VAL HIS ASN VAL TRP SEQRES 3 B 358 ALA THR HIS ALA CYS VAL PRO THR ASP PRO ASN PRO GLN SEQRES 4 B 358 GLU MET VAL LEU ALA ASN VAL THR GLU ASN PHE ASN MET SEQRES 5 B 358 TRP LYS ASN ASP MET VAL GLU GLN MET HIS GLU ASP ILE SEQRES 6 B 358 ILE SER LEU TRP ASP GLU SER LEU LYS PRO CYS VAL LYS SEQRES 7 B 358 LEU THR GLY GLY SER ALA ILE THR GLN ALA CYS PRO LYS SEQRES 8 B 358 VAL SER PHE ASP PRO ILE PRO LEU HIS TYR CYS ALA PRO SEQRES 9 B 358 ALA GLY PHE ALA ILE LEU LYS CYS ASN ASN LYS THR PHE SEQRES 10 B 358 ASN GLY THR GLY PRO CYS ARG ASN VAL SER THR VAL GLN SEQRES 11 B 358 CYS THR HIS GLY ILE LYS PRO VAL VAL SER THR GLN LEU SEQRES 12 B 358 LEU LEU ASN GLY SER LEU ALA GLU GLU GLU ILE ILE ILE SEQRES 13 B 358 ARG SER GLU ASN LEU THR ASN ASN ALA LYS THR ILE ILE SEQRES 14 B 358 VAL HIS LEU ASN GLU SER VAL ASN ILE VAL CYS THR ARG SEQRES 15 B 358 PRO ASN ASN GLY GLY SER GLY SER GLY GLY ASN ILE ARG SEQRES 16 B 358 GLN ALA HIS CYS ASN ILE ASN GLU SER LYS TRP ASN ASN SEQRES 17 B 358 THR LEU GLN LYS VAL GLY GLU GLU LEU ALA LYS HIS PHE SEQRES 18 B 358 PRO SER LYS THR ILE LYS PHE GLU PRO SER SER GLY GLY SEQRES 19 B 358 ASP LEU GLU ILE THR THR HIS SER PHE ASN CYS ARG GLY SEQRES 20 B 358 GLU PHE PHE TYR CYS ASN THR SER ASP LEU PHE ASN GLY SEQRES 21 B 358 THR TYR ARG ASN GLY THR TYR ASN HIS THR GLY ARG SER SEQRES 22 B 358 SER ASN GLY THR ILE THR LEU GLN CYS LYS ILE LYS GLN SEQRES 23 B 358 ILE ILE ASN MET TRP GLN GLU VAL GLY ARG ALA ILE TYR SEQRES 24 B 358 ALA PRO PRO ILE GLU GLY GLU ILE THR CYS ASN SER ASN SEQRES 25 B 358 ILE THR GLY LEU LEU LEU LEU ARG ASP GLY GLY GLN SER SEQRES 26 B 358 ASN GLU THR ASN ASP THR GLU THR PHE ARG PRO GLY GLY SEQRES 27 B 358 GLY ASP MET ARG ASP ASN TRP ARG SER GLU LEU TYR LYS SEQRES 28 B 358 TYR LYS VAL VAL GLU ILE LYS MODRES 3TGS ASN B 262 ASN GLYCOSYLATION SITE MODRES 3TGS ASN A 289 ASN GLYCOSYLATION SITE MODRES 3TGS ASN A 339 ASN GLYCOSYLATION SITE MODRES 3TGS ASN B 289 ASN GLYCOSYLATION SITE MODRES 3TGS ASN A 392 ASN GLYCOSYLATION SITE MODRES 3TGS ASN B 392 ASN GLYCOSYLATION SITE MODRES 3TGS ASN A 262 ASN GLYCOSYLATION SITE MODRES 3TGS ASN A 448 ASN GLYCOSYLATION SITE MODRES 3TGS ASN A 276 ASN GLYCOSYLATION SITE MODRES 3TGS ASN A 386 ASN GLYCOSYLATION SITE MODRES 3TGS ASN B 234 ASN GLYCOSYLATION SITE MODRES 3TGS ASN B 386 ASN GLYCOSYLATION SITE HET NAG A 501 14 HET NAG A 502 14 HET NAG A 503 14 HET NAG A 504 14 HET NAG A 505 14 HET NAG A 506 14 HET 03G A 507 23 HET NAG A 508 14 HET NAG A 509 14 HET NAG B 501 14 HET 03G B 502 23 HET NAG B 503 14 HET NAG B 504 14 HET NAG B 505 14 HET NAG B 506 14 HETNAM NAG 2-ACETAMIDO-2-DEOXY-BETA-D-GLUCOPYRANOSE HETNAM 03G N-(4-CHLOROPHENYL)-N'-(2,2,6,6-TETRAMETHYLPIPERIDIN-4- HETNAM 2 03G YL)ETHANEDIAMIDE HETSYN 03G NBD-556 FORMUL 3 NAG 13(C8 H15 N O6) FORMUL 9 03G 2(C17 H24 CL N3 O2) FORMUL 18 HOH *104(H2 O) HELIX 1 1 GLU A 64 CYS A 74 1 11 HELIX 2 2 ASN A 98 SER A 115 1 18 HELIX 3 3 GLU A 335 PHE A 353 1 19 HELIX 4 4 ASP A 368 THR A 373 1 6 HELIX 5 5 MET A 475 TYR A 484 1 10 HELIX 6 6 GLU B 64 CYS B 74 1 11 HELIX 7 7 ASN B 98 LEU B 116 1 19 HELIX 8 8 GLU B 335 HIS B 352 1 18 HELIX 9 9 ASP B 368 THR B 373 1 6 HELIX 10 10 ASP B 474 TYR B 484 1 11 SHEET 1 A 3 VAL A 75 PRO A 76 0 SHEET 2 A 3 PHE A 53 SER A 56 1 N CYS A 54 O VAL A 75 SHEET 3 A 3 LEU A 215 CYS A 218 -1 O CYS A 218 N PHE A 53 SHEET 1 B 2 PHE A 93 ASN A 94 0 SHEET 2 B 2 THR A 236 GLY A 237 -1 O GLY A 237 N PHE A 93 SHEET 1 C 4 ALA A 200 THR A 202 0 SHEET 2 C 4 VAL A 120 LEU A 122 -1 N LYS A 121 O ILE A 201 SHEET 3 C 4 ARG A 432 ILE A 434 -1 O ILE A 434 N VAL A 120 SHEET 4 C 4 ILE A 423 ASN A 425 -1 N ILE A 424 O ALA A 433 SHEET 1 D 3 THR A 244 VAL A 245 0 SHEET 2 D 3 PHE A 223 LYS A 227 -1 N ILE A 225 O VAL A 245 SHEET 3 D 3 TYR A 486 GLU A 490 -1 O LYS A 487 N LEU A 226 SHEET 1 E 7 LEU A 259 LEU A 261 0 SHEET 2 E 7 ILE A 443 ARG A 456 -1 O GLY A 451 N LEU A 260 SHEET 3 E 7 ILE A 284 ARG A 298 -1 N CYS A 296 O CYS A 445 SHEET 4 E 7 GLN A 328 ASN A 334 -1 O HIS A 330 N THR A 297 SHEET 5 E 7 THR A 413 ILE A 420 -1 O ILE A 414 N ILE A 333 SHEET 6 E 7 GLU A 381 CYS A 385 -1 N TYR A 384 O LYS A 419 SHEET 7 E 7 HIS A 374 CYS A 378 -1 N CYS A 378 O GLU A 381 SHEET 1 F 6 ILE A 271 ARG A 273 0 SHEET 2 F 6 ILE A 284 ARG A 298 -1 O ILE A 285 N ARG A 273 SHEET 3 F 6 ILE A 443 ARG A 456 -1 O CYS A 445 N CYS A 296 SHEET 4 F 6 THR A 465 PRO A 470 -1 O ARG A 469 N LEU A 455 SHEET 5 F 6 THR A 358 PHE A 361 1 N LYS A 360 O PHE A 468 SHEET 6 F 6 GLY A 393 THR A 394 -1 O GLY A 393 N PHE A 361 SHEET 1 G 3 VAL B 75 PRO B 76 0 SHEET 2 G 3 PHE B 53 SER B 56 1 N SER B 56 O VAL B 75 SHEET 3 G 3 HIS B 216 CYS B 218 -1 O CYS B 218 N PHE B 53 SHEET 1 H 2 GLU B 91 ASN B 94 0 SHEET 2 H 2 THR B 236 CYS B 239 -1 O GLY B 237 N PHE B 93 SHEET 1 I 4 SER B 199 THR B 202 0 SHEET 2 I 4 VAL B 120 THR B 123 -1 N LYS B 121 O ILE B 201 SHEET 3 I 4 ARG B 432 ILE B 434 -1 O ILE B 434 N VAL B 120 SHEET 4 I 4 ILE B 423 ASN B 425 -1 N ILE B 424 O ALA B 433 SHEET 1 J 3 VAL B 242 VAL B 245 0 SHEET 2 J 3 PHE B 223 CYS B 228 -1 N ILE B 225 O VAL B 245 SHEET 3 J 3 TYR B 486 GLU B 490 -1 O LYS B 487 N LEU B 226 SHEET 1 K 7 LEU B 259 LEU B 261 0 SHEET 2 K 7 ILE B 443 ARG B 456 -1 O GLY B 451 N LEU B 260 SHEET 3 K 7 ILE B 284 ARG B 298 -1 N ILE B 294 O SER B 447 SHEET 4 K 7 GLN B 328 ASN B 334 -1 O HIS B 330 N THR B 297 SHEET 5 K 7 THR B 413 LYS B 421 -1 O ILE B 414 N ILE B 333 SHEET 6 K 7 GLU B 381 CYS B 385 -1 N TYR B 384 O LYS B 419 SHEET 7 K 7 HIS B 374 CYS B 378 -1 N CYS B 378 O GLU B 381 SHEET 1 L 6 ILE B 271 ARG B 273 0 SHEET 2 L 6 ILE B 284 ARG B 298 -1 O HIS B 287 N ILE B 271 SHEET 3 L 6 ILE B 443 ARG B 456 -1 O SER B 447 N ILE B 294 SHEET 4 L 6 THR B 465 PRO B 470 -1 O ARG B 469 N LEU B 455 SHEET 5 L 6 THR B 358 PHE B 361 1 N LYS B 360 O PHE B 468 SHEET 6 L 6 GLY B 393 TYR B 395 -1 O TYR B 395 N ILE B 359 SSBOND 1 CYS A 54 CYS A 74 1555 1555 2.03 SSBOND 2 CYS A 119 CYS A 205 1555 1555 2.04 SSBOND 3 CYS A 218 CYS A 247 1555 1555 2.03 SSBOND 4 CYS A 228 CYS A 239 1555 1555 2.03 SSBOND 5 CYS A 296 CYS A 331 1555 1555 2.04 SSBOND 6 CYS A 378 CYS A 445 1555 1555 2.03 SSBOND 7 CYS A 385 CYS A 418 1555 1555 2.03 SSBOND 8 CYS B 54 CYS B 74 1555 1555 2.03 SSBOND 9 CYS B 119 CYS B 205 1555 1555 2.03 SSBOND 10 CYS B 218 CYS B 247 1555 1555 2.03 SSBOND 11 CYS B 228 CYS B 239 1555 1555 2.03 SSBOND 12 CYS B 296 CYS B 331 1555 1555 2.04 SSBOND 13 CYS B 378 CYS B 445 1555 1555 2.03 SSBOND 14 CYS B 385 CYS B 418 1555 1555 2.03 LINK ND2 ASN A 262 C1 NAG A 502 1555 1555 1.44 LINK ND2 ASN A 276 C1 NAG A 503 1555 1555 1.44 LINK ND2 ASN A 289 C1 NAG A 504 1555 1555 1.41 LINK ND2 ASN A 339 C1 NAG A 505 1555 1555 1.42 LINK ND2 ASN A 386 C1 NAG A 506 1555 1555 1.44 LINK ND2 ASN A 392 C1 NAG A 508 1555 1555 1.44 LINK ND2 ASN A 448 C1 NAG A 509 1555 1555 1.44 LINK ND2 ASN B 234 C1 NAG B 501 1555 1555 1.44 LINK ND2 ASN B 262 C1 NAG B 503 1555 1555 1.39 LINK ND2 ASN B 289 C1 NAG B 504 1555 1555 1.44 LINK ND2 ASN B 386 C1 NAG B 505 1555 1555 1.50 LINK ND2 ASN B 392 C1 NAG B 506 1555 1555 1.44 CISPEP 1 ASP A 78 PRO A 79 0 -1.32 CISPEP 2 ASP B 78 PRO B 79 0 -6.76 CRYST1 66.960 126.000 191.480 90.00 90.00 90.00 C 2 2 21 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 0.014934 0.000000 0.000000 0.00000 SCALE2 0.000000 0.007937 0.000000 0.00000 SCALE3 0.000000 0.000000 0.005222 0.00000