cmd.read_pdbstr("""\ HEADER VIRAL PROTEIN 27-AUG-22 8GPY \ TITLE CRYSTAL STRUCTURE OF OMICRON BA.4/5 RBD IN COMPLEX WITH A NEUTRALIZING \ TITLE 2 ANTIBODY SCFV \ COMPND MOL_ID: 1; \ COMPND 2 MOLECULE: SPIKE PROTEIN S1; \ COMPND 3 CHAIN: A, B; \ COMPND 4 ENGINEERED: YES; \ COMPND 5 MOL_ID: 2; \ COMPND 6 MOLECULE: SCFV; \ COMPND 7 CHAIN: C, E; \ COMPND 8 ENGINEERED: YES \ SOURCE MOL_ID: 1; \ SOURCE 2 ORGANISM_SCIENTIFIC: SEVERE ACUTE RESPIRATORY SYNDROME CORONAVIRUS \ SOURCE 3 2; \ SOURCE 4 ORGANISM_TAXID: 2697049; \ SOURCE 5 GENE: S, 2; \ SOURCE 6 EXPRESSION_SYSTEM: TRICHOPLUSIA; \ SOURCE 7 EXPRESSION_SYSTEM_TAXID: 7110; \ SOURCE 8 MOL_ID: 2; \ SOURCE 9 ORGANISM_SCIENTIFIC: HOMO SAPIENS; \ SOURCE 10 ORGANISM_TAXID: 9606; \ SOURCE 11 EXPRESSION_SYSTEM: TRICHOPLUSIA; \ SOURCE 12 EXPRESSION_SYSTEM_TAXID: 7110 \ KEYWDS OMICRON, CRYSTAL STRCTURE, NEUTRALIZING ANTIBODY, SCFV, VIRAL PROTEIN \ EXPDTA X-RAY DIFFRACTION \ AUTHOR Y.X.GAO,Z.D.SONG,W.M.WANG,Y.GUO \ REVDAT 4 23-OCT-24 8GPY 1 REMARK \ REVDAT 3 13-MAR-24 8GPY 1 COMPND SOURCE REMARK DBREF \ REVDAT 3 2 1 SEQRES HELIX SHEET SSBOND \ REVDAT 3 3 1 ATOM \ REVDAT 2 29-NOV-23 8GPY 1 REMARK \ REVDAT 1 28-JUN-23 8GPY 0 \ JRNL AUTH Y.GUO,G.ZHANG,Q.YANG,X.XIE,Y.LU,X.CHENG,H.WANG,J.LIANG, \ JRNL AUTH 2 J.TANG,Y.GAO,H.SHANG,J.DAI,Y.SHI,J.ZHOU,J.ZHOU,H.GUO,H.YANG, \ JRNL AUTH 3 J.QI,L.LIU,S.MA,B.ZHANG,Q.HUO,Y.XIE,J.WU,F.DONG,S.ZHANG, \ JRNL AUTH 4 Z.LOU,Y.GAO,Z.SONG,W.WANG,Z.SUN,X.YANG,D.XIONG,F.LIU,X.CHEN, \ JRNL AUTH 5 P.ZHU,X.WANG,T.CHENG,Z.RAO \ JRNL TITL DISCOVERY AND CHARACTERIZATION OF POTENT PAN-VARIANT \ JRNL TITL 2 SARS-COV-2 NEUTRALIZING ANTIBODIES FROM INDIVIDUALS WITH \ JRNL TITL 3 OMICRON BREAKTHROUGH INFECTION. \ JRNL REF NAT COMMUN V. 14 3537 2023 \ JRNL REFN ESSN 2041-1723 \ JRNL PMID 37322000 \ JRNL DOI 10.1038/S41467-023-39267-X \ REMARK 2 \ REMARK 2 RESOLUTION. 2.51 ANGSTROMS. \ REMARK 3 \ REMARK 3 REFINEMENT. \ REMARK 3 PROGRAM : PHENIX 1.19.2_4158 \ 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) : 2.51 \ REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 49.60 \ REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.350 \ REMARK 3 COMPLETENESS FOR RANGE (%) : 71.9 \ REMARK 3 NUMBER OF REFLECTIONS : 48308 \ REMARK 3 \ REMARK 3 FIT TO DATA USED IN REFINEMENT. \ REMARK 3 R VALUE (WORKING + TEST SET) : 0.217 \ REMARK 3 R VALUE (WORKING SET) : 0.215 \ REMARK 3 FREE R VALUE : 0.251 \ REMARK 3 FREE R VALUE TEST SET SIZE (%) : 6.690 \ REMARK 3 FREE R VALUE TEST SET COUNT : 3230 \ 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 49.6000 - 7.1200 0.98 2679 194 0.1866 0.2191 \ REMARK 3 2 7.1200 - 5.6500 1.00 2715 200 0.1936 0.2161 \ REMARK 3 3 5.6500 - 4.9400 0.99 2703 199 0.1739 0.2419 \ REMARK 3 4 4.9400 - 4.4900 0.99 2692 192 0.1620 0.1807 \ REMARK 3 5 4.4900 - 4.1700 0.99 2710 187 0.1671 0.1999 \ REMARK 3 6 4.1700 - 3.9200 0.99 2712 197 0.1902 0.2059 \ REMARK 3 7 3.9200 - 3.7200 0.98 2663 190 0.2005 0.2632 \ REMARK 3 8 3.7200 - 3.5600 0.98 2679 183 0.2195 0.2739 \ REMARK 3 9 3.5600 - 3.4300 0.98 2665 185 0.2258 0.2890 \ REMARK 3 10 3.4200 - 3.3100 0.94 2549 186 0.2427 0.2906 \ REMARK 3 11 3.3100 - 3.2000 0.90 2446 172 0.2635 0.2477 \ REMARK 3 12 3.2000 - 3.1100 0.85 2391 158 0.2439 0.3494 \ REMARK 3 13 3.1100 - 3.0300 0.78 2131 162 0.2789 0.2754 \ REMARK 3 14 3.0300 - 2.9600 0.74 1952 140 0.2791 0.3324 \ REMARK 3 15 2.9600 - 2.8900 0.65 1818 126 0.2965 0.3099 \ REMARK 3 16 2.8900 - 2.8300 0.60 1603 127 0.3011 0.3398 \ REMARK 3 17 2.8300 - 2.7700 0.54 1466 113 0.3024 0.2675 \ REMARK 3 18 2.7700 - 2.7200 0.49 1357 81 0.3000 0.3407 \ REMARK 3 19 2.7200 - 2.6700 0.40 1091 84 0.3023 0.3083 \ REMARK 3 20 2.6700 - 2.6200 0.29 765 67 0.3220 0.2767 \ REMARK 3 21 2.6200 - 2.5800 0.22 616 44 0.3531 0.3493 \ REMARK 3 22 2.5800 - 2.5400 0.15 419 26 0.4146 0.4941 \ REMARK 3 23 2.5400 - 2.5100 0.09 256 17 0.4697 0.6206 \ 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) : 0.320 \ REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 27.580 \ REMARK 3 \ REMARK 3 B VALUES. \ REMARK 3 FROM WILSON PLOT (A**2) : 37.53 \ REMARK 3 MEAN B VALUE (OVERALL, A**2) : 45.01 \ 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 : NULL \ 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 8GPY COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 \ REMARK 100 \ REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 26-SEP-22. \ REMARK 100 THE DEPOSITION ID IS D_1300031884. \ REMARK 200 \ REMARK 200 EXPERIMENTAL DETAILS \ REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION \ REMARK 200 DATE OF DATA COLLECTION : 22-AUG-22 \ 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 : SSRF \ REMARK 200 BEAMLINE : BL10U2 \ REMARK 200 X-RAY GENERATOR MODEL : NULL \ REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M \ REMARK 200 WAVELENGTH OR RANGE (A) : 0.9785 \ REMARK 200 MONOCHROMATOR : NULL \ REMARK 200 OPTICS : NULL \ REMARK 200 \ REMARK 200 DETECTOR TYPE : PIXEL \ REMARK 200 DETECTOR MANUFACTURER : DECTRIS EIGER X 16M \ REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 \ REMARK 200 DATA SCALING SOFTWARE : HKL-2000 \ REMARK 200 \ REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 48308 \ REMARK 200 RESOLUTION RANGE HIGH (A) : 2.500 \ REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 \ REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL \ REMARK 200 \ REMARK 200 OVERALL. \ REMARK 200 COMPLETENESS FOR RANGE (%) : 100.0 \ REMARK 200 DATA REDUNDANCY : 6.700 \ REMARK 200 R MERGE (I) : 0.12500 \ REMARK 200 R SYM (I) : NULL \ REMARK 200 FOR THE DATA SET : 6.3000 \ REMARK 200 \ REMARK 200 IN THE HIGHEST RESOLUTION SHELL. \ REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.50 \ REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.54 \ REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 \ REMARK 200 DATA REDUNDANCY IN SHELL : 6.60 \ REMARK 200 R MERGE FOR SHELL (I) : 2.06000 \ 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: PHENIX \ REMARK 200 STARTING MODEL: 4NIK \ REMARK 200 \ REMARK 200 REMARK: NULL \ REMARK 280 \ REMARK 280 CRYSTAL \ REMARK 280 SOLVENT CONTENT, VS (%): 53.92 \ REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.67 \ REMARK 280 \ REMARK 280 CRYSTALLIZATION CONDITIONS: POTASSIUM FORMATE, PEG 3350, VAPOR \ REMARK 280 DIFFUSION, SITTING DROP, TEMPERATURE 289K \ 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 61.43150 \ REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 46.04600 \ REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 \ REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 61.43150 \ REMARK 290 SMTRY2 4 0.000000 1.000000 0.000000 46.04600 \ REMARK 290 SMTRY3 4 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: TRIMERIC \ REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, E \ 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: TRIMERIC \ REMARK 350 APPLY THE FOLLOWING TO CHAINS: 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 THR A 333 \ REMARK 465 ASN A 334 \ REMARK 465 LEU A 335 \ REMARK 465 PRO A 527 \ REMARK 465 LYS A 528 \ REMARK 465 LYS A 529 \ REMARK 465 SER A 530 \ REMARK 465 ALA A 531 \ REMARK 465 ALA A 532 \ REMARK 465 ALA A 533 \ REMARK 465 THR B 333 \ REMARK 465 GLY B 476 \ REMARK 465 ASN B 481 \ REMARK 465 GLY B 482 \ REMARK 465 VAL B 483 \ REMARK 465 ALA B 484 \ REMARK 465 GLY B 485 \ REMARK 465 VAL B 486 \ REMARK 465 LEU B 517 \ REMARK 465 LEU B 518 \ REMARK 465 HIS B 519 \ REMARK 465 ALA B 520 \ REMARK 465 PRO B 521 \ REMARK 465 ALA B 522 \ REMARK 465 PRO B 527 \ REMARK 465 LYS B 528 \ REMARK 465 LYS B 529 \ REMARK 465 SER B 530 \ REMARK 465 ALA B 531 \ REMARK 465 ALA B 532 \ REMARK 465 ALA B 533 \ REMARK 465 GLN C 121 \ REMARK 465 SER C 122 \ REMARK 465 ALA C 230 \ REMARK 465 ALA C 231 \ REMARK 465 ALA C 232 \ REMARK 465 SER E 120 \ REMARK 465 ALA E 232 \ REMARK 480 \ REMARK 480 ZERO OCCUPANCY ATOM \ REMARK 480 THE FOLLOWING RESIDUES HAVE ATOMS MODELED WITH ZERO \ REMARK 480 OCCUPANCY. THE LOCATION AND PROPERTIES OF THESE ATOMS \ REMARK 480 MAY NOT BE RELIABLE. (M=MODEL NUMBER; RES=RESIDUE NAME; \ REMARK 480 C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE): \ REMARK 480 M RES C SSEQI ATOMS \ REMARK 480 GLU C 1 CG CD OE1 OE2 \ REMARK 480 LEU C 11 CG CD1 CD2 \ REMARK 480 GLU C 89 CG CD OE1 OE2 \ REMARK 480 ARG C 112 NE CZ NH1 NH2 \ REMARK 480 SER C 131 OG \ REMARK 480 GLN C 136 CG CD OE1 NE2 \ REMARK 480 LYS C 164 CE NZ \ REMARK 480 GLU C 203 CD OE1 OE2 \ REMARK 480 LYS C 225 CE NZ \ REMARK 480 GLU E 1 CG CD OE1 OE2 \ REMARK 480 LEU E 11 CG CD1 CD2 \ REMARK 480 GLU E 89 CG CD OE1 OE2 \ REMARK 480 ARG E 112 NE CZ NH1 NH2 \ REMARK 480 SER E 131 OG \ REMARK 480 GLN E 136 CG CD OE1 NE2 \ REMARK 480 LYS E 164 CE NZ \ REMARK 480 LYS E 225 CE NZ \ 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 ASN A 370 40.21 -105.99 \ REMARK 500 PHE A 371 -154.84 -119.12 \ REMARK 500 TYR B 369 -87.58 -128.45 \ REMARK 500 ALA B 372 -175.25 62.26 \ REMARK 500 PHE B 374 70.64 63.56 \ REMARK 500 GLU C 43 -161.58 -113.42 \ REMARK 500 THR C 102 -79.09 -100.04 \ REMARK 500 ASP C 148 -86.14 -114.39 \ REMARK 500 TYR C 154 58.44 -103.70 \ REMARK 500 VAL C 173 -47.93 71.69 \ REMARK 500 ALA C 206 -170.69 -170.01 \ REMARK 500 VAL E 64 -14.50 -141.04 \ REMARK 500 THR E 102 -75.39 -114.54 \ REMARK 500 ASP E 148 -86.52 -128.18 \ REMARK 500 VAL E 173 -45.40 71.76 \ REMARK 500 PRO E 177 -177.20 -68.92 \ REMARK 500 ASP E 182 1.23 -69.37 \ REMARK 500 ALA E 206 -173.58 -177.08 \ REMARK 500 \ REMARK 500 REMARK: NULL \ DBREF 8GPY A 333 530 UNP P0DTC2 SPIKE_SARS2 333 530 \ DBREF 8GPY B 333 530 UNP P0DTC2 SPIKE_SARS2 333 530 \ DBREF 8GPY C 1 232 PDB 8GPY 8GPY 1 232 \ DBREF 8GPY E 1 232 PDB 8GPY 8GPY 1 232 \ SEQADV 8GPY ASP A 339 UNP P0DTC2 GLY 339 VARIANT \ SEQADV 8GPY PHE A 371 UNP P0DTC2 SER 371 VARIANT \ SEQADV 8GPY PRO A 373 UNP P0DTC2 SER 373 VARIANT \ SEQADV 8GPY PHE A 375 UNP P0DTC2 SER 375 VARIANT \ SEQADV 8GPY ALA A 376 UNP P0DTC2 THR 376 VARIANT \ SEQADV 8GPY ASN A 405 UNP P0DTC2 ASP 405 VARIANT \ SEQADV 8GPY SER A 408 UNP P0DTC2 ARG 408 VARIANT \ SEQADV 8GPY ASN A 417 UNP P0DTC2 LYS 417 VARIANT \ SEQADV 8GPY LYS A 440 UNP P0DTC2 ASN 440 VARIANT \ SEQADV 8GPY ARG A 452 UNP P0DTC2 LEU 452 VARIANT \ SEQADV 8GPY ASN A 477 UNP P0DTC2 SER 477 VARIANT \ SEQADV 8GPY LYS A 478 UNP P0DTC2 THR 478 VARIANT \ SEQADV 8GPY ALA A 484 UNP P0DTC2 GLU 484 VARIANT \ SEQADV 8GPY VAL A 486 UNP P0DTC2 PHE 486 VARIANT \ SEQADV 8GPY ARG A 498 UNP P0DTC2 GLN 498 VARIANT \ SEQADV 8GPY TYR A 501 UNP P0DTC2 ASN 501 VARIANT \ SEQADV 8GPY HIS A 505 UNP P0DTC2 TYR 505 VARIANT \ SEQADV 8GPY ALA A 531 UNP P0DTC2 EXPRESSION TAG \ SEQADV 8GPY ALA A 532 UNP P0DTC2 EXPRESSION TAG \ SEQADV 8GPY ALA A 533 UNP P0DTC2 EXPRESSION TAG \ SEQADV 8GPY ASP B 339 UNP P0DTC2 GLY 339 VARIANT \ SEQADV 8GPY PHE B 371 UNP P0DTC2 SER 371 VARIANT \ SEQADV 8GPY PRO B 373 UNP P0DTC2 SER 373 VARIANT \ SEQADV 8GPY PHE B 375 UNP P0DTC2 SER 375 VARIANT \ SEQADV 8GPY ALA B 376 UNP P0DTC2 THR 376 VARIANT \ SEQADV 8GPY ASN B 405 UNP P0DTC2 ASP 405 VARIANT \ SEQADV 8GPY SER B 408 UNP P0DTC2 ARG 408 VARIANT \ SEQADV 8GPY ASN B 417 UNP P0DTC2 LYS 417 VARIANT \ SEQADV 8GPY LYS B 440 UNP P0DTC2 ASN 440 VARIANT \ SEQADV 8GPY ARG B 452 UNP P0DTC2 LEU 452 VARIANT \ SEQADV 8GPY ASN B 477 UNP P0DTC2 SER 477 VARIANT \ SEQADV 8GPY LYS B 478 UNP P0DTC2 THR 478 VARIANT \ SEQADV 8GPY ALA B 484 UNP P0DTC2 GLU 484 VARIANT \ SEQADV 8GPY VAL B 486 UNP P0DTC2 PHE 486 VARIANT \ SEQADV 8GPY ARG B 498 UNP P0DTC2 GLN 498 VARIANT \ SEQADV 8GPY TYR B 501 UNP P0DTC2 ASN 501 VARIANT \ SEQADV 8GPY HIS B 505 UNP P0DTC2 TYR 505 VARIANT \ SEQADV 8GPY ALA B 531 UNP P0DTC2 EXPRESSION TAG \ SEQADV 8GPY ALA B 532 UNP P0DTC2 EXPRESSION TAG \ SEQADV 8GPY ALA B 533 UNP P0DTC2 EXPRESSION TAG \ SEQRES 1 A 201 THR ASN LEU CYS PRO PHE ASP GLU VAL PHE ASN ALA THR \ SEQRES 2 A 201 ARG PHE ALA SER VAL TYR ALA TRP ASN ARG LYS ARG ILE \ SEQRES 3 A 201 SER ASN CYS VAL ALA ASP TYR SER VAL LEU TYR ASN PHE \ SEQRES 4 A 201 ALA PRO PHE PHE ALA PHE LYS CYS TYR GLY VAL SER PRO \ SEQRES 5 A 201 THR LYS LEU ASN ASP LEU CYS PHE THR ASN VAL TYR ALA \ SEQRES 6 A 201 ASP SER PHE VAL ILE ARG GLY ASN GLU VAL SER GLN ILE \ SEQRES 7 A 201 ALA PRO GLY GLN THR GLY ASN ILE ALA ASP TYR ASN TYR \ SEQRES 8 A 201 LYS LEU PRO ASP ASP PHE THR GLY CYS VAL ILE ALA TRP \ SEQRES 9 A 201 ASN SER ASN LYS LEU ASP SER LYS VAL GLY GLY ASN TYR \ SEQRES 10 A 201 ASN TYR ARG TYR ARG LEU PHE ARG LYS SER ASN LEU LYS \ SEQRES 11 A 201 PRO PHE GLU ARG ASP ILE SER THR GLU ILE TYR GLN ALA \ SEQRES 12 A 201 GLY ASN LYS PRO CYS ASN GLY VAL ALA GLY VAL ASN CYS \ SEQRES 13 A 201 TYR PHE PRO LEU GLN SER TYR GLY PHE ARG PRO THR TYR \ SEQRES 14 A 201 GLY VAL GLY HIS GLN PRO TYR ARG VAL VAL VAL LEU SER \ SEQRES 15 A 201 PHE GLU LEU LEU HIS ALA PRO ALA THR VAL CYS GLY PRO \ SEQRES 16 A 201 LYS LYS SER ALA ALA ALA \ SEQRES 1 B 201 THR ASN LEU CYS PRO PHE ASP GLU VAL PHE ASN ALA THR \ SEQRES 2 B 201 ARG PHE ALA SER VAL TYR ALA TRP ASN ARG LYS ARG ILE \ SEQRES 3 B 201 SER ASN CYS VAL ALA ASP TYR SER VAL LEU TYR ASN PHE \ SEQRES 4 B 201 ALA PRO PHE PHE ALA PHE LYS CYS TYR GLY VAL SER PRO \ SEQRES 5 B 201 THR LYS LEU ASN ASP LEU CYS PHE THR ASN VAL TYR ALA \ SEQRES 6 B 201 ASP SER PHE VAL ILE ARG GLY ASN GLU VAL SER GLN ILE \ SEQRES 7 B 201 ALA PRO GLY GLN THR GLY ASN ILE ALA ASP TYR ASN TYR \ SEQRES 8 B 201 LYS LEU PRO ASP ASP PHE THR GLY CYS VAL ILE ALA TRP \ SEQRES 9 B 201 ASN SER ASN LYS LEU ASP SER LYS VAL GLY GLY ASN TYR \ SEQRES 10 B 201 ASN TYR ARG TYR ARG LEU PHE ARG LYS SER ASN LEU LYS \ SEQRES 11 B 201 PRO PHE GLU ARG ASP ILE SER THR GLU ILE TYR GLN ALA \ SEQRES 12 B 201 GLY ASN LYS PRO CYS ASN GLY VAL ALA GLY VAL ASN CYS \ SEQRES 13 B 201 TYR PHE PRO LEU GLN SER TYR GLY PHE ARG PRO THR TYR \ SEQRES 14 B 201 GLY VAL GLY HIS GLN PRO TYR ARG VAL VAL VAL LEU SER \ SEQRES 15 B 201 PHE GLU LEU LEU HIS ALA PRO ALA THR VAL CYS GLY PRO \ SEQRES 16 B 201 LYS LYS SER ALA ALA ALA \ SEQRES 1 C 232 GLU VAL ARG LEU LEU GLU SER GLY GLY GLY LEU VAL GLN \ SEQRES 2 C 232 PRO GLY GLY SER LEU ARG LEU SER CYS ALA ALA SER GLY \ SEQRES 3 C 232 PHE THR PHE ASN ASP TYR ALA MET SER TRP VAL ARG GLN \ SEQRES 4 C 232 ALA PRO GLY GLU GLY LEU GLU TRP VAL SER THR ILE SER \ SEQRES 5 C 232 TYR SER GLY GLY SER THR TYR TYR ALA ASP SER VAL LYS \ SEQRES 6 C 232 GLY ARG PHE THR ILE SER ARG ASP ASN SER LYS ASN MET \ SEQRES 7 C 232 LEU TYR LEU GLN MET ASN SER LEU ARG ALA GLU ASP THR \ SEQRES 8 C 232 ALA LEU TYR TYR CYS ALA ASN GLY VAL ALA THR ALA ASP \ SEQRES 9 C 232 TRP TYR PHE ASP LEU TRP GLY ARG GLY THR LEU VAL THR \ SEQRES 10 C 232 VAL SER SER GLN SER ALA LEU THR GLN PRO ARG SER VAL \ SEQRES 11 C 232 SER GLY SER PRO GLY GLN SER VAL THR ILE SER CYS THR \ SEQRES 12 C 232 GLY THR SER SER ASP VAL GLY GLY TYR ASN TYR VAL SER \ SEQRES 13 C 232 TRP PHE GLN HIS HIS PRO GLY LYS ALA PRO LYS LEU MET \ SEQRES 14 C 232 ILE TYR ASP VAL THR ASP ARG PRO SER GLY VAL PRO ASP \ SEQRES 15 C 232 ARG PHE SER GLY SER LYS SER GLY ASN THR ALA SER LEU \ SEQRES 16 C 232 THR ILE SER GLY LEU GLN ALA GLU ASP ALA ALA ASP TYR \ SEQRES 17 C 232 TYR CYS CYS SER TYR ALA GLY THR TYR THR VAL PHE GLY \ SEQRES 18 C 232 GLY GLY THR LYS LEU THR VAL LEU ALA ALA ALA \ SEQRES 1 E 232 GLU VAL ARG LEU LEU GLU SER GLY GLY GLY LEU VAL GLN \ SEQRES 2 E 232 PRO GLY GLY SER LEU ARG LEU SER CYS ALA ALA SER GLY \ SEQRES 3 E 232 PHE THR PHE ASN ASP TYR ALA MET SER TRP VAL ARG GLN \ SEQRES 4 E 232 ALA PRO GLY GLU GLY LEU GLU TRP VAL SER THR ILE SER \ SEQRES 5 E 232 TYR SER GLY GLY SER THR TYR TYR ALA ASP SER VAL LYS \ SEQRES 6 E 232 GLY ARG PHE THR ILE SER ARG ASP ASN SER LYS ASN MET \ SEQRES 7 E 232 LEU TYR LEU GLN MET ASN SER LEU ARG ALA GLU ASP THR \ SEQRES 8 E 232 ALA LEU TYR TYR CYS ALA ASN GLY VAL ALA THR ALA ASP \ SEQRES 9 E 232 TRP TYR PHE ASP LEU TRP GLY ARG GLY THR LEU VAL THR \ SEQRES 10 E 232 VAL SER SER GLN SER ALA LEU THR GLN PRO ARG SER VAL \ SEQRES 11 E 232 SER GLY SER PRO GLY GLN SER VAL THR ILE SER CYS THR \ SEQRES 12 E 232 GLY THR SER SER ASP VAL GLY GLY TYR ASN TYR VAL SER \ SEQRES 13 E 232 TRP PHE GLN HIS HIS PRO GLY LYS ALA PRO LYS LEU MET \ SEQRES 14 E 232 ILE TYR ASP VAL THR ASP ARG PRO SER GLY VAL PRO ASP \ SEQRES 15 E 232 ARG PHE SER GLY SER LYS SER GLY ASN THR ALA SER LEU \ SEQRES 16 E 232 THR ILE SER GLY LEU GLN ALA GLU ASP ALA ALA ASP TYR \ SEQRES 17 E 232 TYR CYS CYS SER TYR ALA GLY THR TYR THR VAL PHE GLY \ SEQRES 18 E 232 GLY GLY THR LYS LEU THR VAL LEU ALA ALA ALA \ FORMUL 5 HOH *149(H2 O) \ HELIX 1 AA1 PRO A 337 ASN A 343 1 7 \ HELIX 2 AA2 TYR A 365 ASN A 370 1 6 \ HELIX 3 AA3 SER A 383 LEU A 387 5 5 \ HELIX 4 AA4 ASN A 405 ILE A 410 5 6 \ HELIX 5 AA5 GLY A 416 ASN A 422 1 7 \ HELIX 6 AA6 SER A 438 SER A 443 1 6 \ HELIX 7 AA7 PHE B 338 ASN B 343 1 6 \ HELIX 8 AA8 LYS B 386 ASP B 389 5 4 \ HELIX 9 AA9 ASN B 405 ILE B 410 5 6 \ HELIX 10 AB1 GLY B 416 ASN B 422 1 7 \ HELIX 11 AB2 SER B 438 SER B 443 1 6 \ HELIX 12 AB3 THR C 28 TYR C 32 5 5 \ HELIX 13 AB4 ARG C 87 THR C 91 5 5 \ HELIX 14 AB5 GLN C 201 ALA C 205 5 5 \ HELIX 15 AB6 THR E 28 TYR E 32 5 5 \ HELIX 16 AB7 ARG E 87 THR E 91 5 5 \ HELIX 17 AB8 GLN E 201 ALA E 205 5 5 \ SHEET 1 AA1 5 ASN A 354 ILE A 358 0 \ SHEET 2 AA1 5 ASN A 394 ARG A 403 -1 O VAL A 395 N ILE A 358 \ SHEET 3 AA1 5 PRO A 507 GLU A 516 -1 O VAL A 512 N ASP A 398 \ SHEET 4 AA1 5 GLY A 431 ASN A 437 -1 N ILE A 434 O VAL A 511 \ SHEET 5 AA1 5 ALA A 376 TYR A 380 -1 N TYR A 380 O GLY A 431 \ SHEET 1 AA2 2 CYS A 361 VAL A 362 0 \ SHEET 2 AA2 2 VAL A 524 CYS A 525 1 O CYS A 525 N CYS A 361 \ SHEET 1 AA3 2 ARG A 452 ARG A 454 0 \ SHEET 2 AA3 2 LEU A 492 SER A 494 -1 O GLN A 493 N TYR A 453 \ SHEET 1 AA4 2 TYR A 473 GLN A 474 0 \ SHEET 2 AA4 2 CYS A 488 TYR A 489 -1 O TYR A 489 N TYR A 473 \ SHEET 1 AA5 5 ASN B 354 ILE B 358 0 \ SHEET 2 AA5 5 VAL B 395 ARG B 403 -1 O VAL B 395 N ILE B 358 \ SHEET 3 AA5 5 PRO B 507 PHE B 515 -1 O TYR B 508 N ILE B 402 \ SHEET 4 AA5 5 GLY B 431 ASN B 437 -1 N ILE B 434 O VAL B 511 \ SHEET 5 AA5 5 PHE B 375 TYR B 380 -1 N LYS B 378 O VAL B 433 \ SHEET 1 AA6 3 CYS B 361 VAL B 362 0 \ SHEET 2 AA6 3 VAL B 524 CYS B 525 1 O CYS B 525 N CYS B 361 \ SHEET 3 AA6 3 CYS B 391 PHE B 392 -1 N PHE B 392 O VAL B 524 \ SHEET 1 AA7 2 ARG B 452 ARG B 454 0 \ SHEET 2 AA7 2 LEU B 492 SER B 494 -1 O GLN B 493 N TYR B 453 \ SHEET 1 AA8 2 TYR B 473 GLN B 474 0 \ SHEET 2 AA8 2 CYS B 488 TYR B 489 -1 O TYR B 489 N TYR B 473 \ SHEET 1 AA9 4 ARG C 3 SER C 7 0 \ SHEET 2 AA9 4 LEU C 18 SER C 25 -1 O ALA C 23 N LEU C 5 \ SHEET 3 AA9 4 MET C 78 MET C 83 -1 O LEU C 79 N CYS C 22 \ SHEET 4 AA9 4 PHE C 68 ASP C 73 -1 N SER C 71 O TYR C 80 \ SHEET 1 AB1 6 LEU C 11 VAL C 12 0 \ SHEET 2 AB1 6 THR C 114 VAL C 118 1 O THR C 117 N VAL C 12 \ SHEET 3 AB1 6 ALA C 92 ASN C 98 -1 N TYR C 94 O THR C 114 \ SHEET 4 AB1 6 MET C 34 GLN C 39 -1 N VAL C 37 O TYR C 95 \ SHEET 5 AB1 6 LEU C 45 ILE C 51 -1 O ILE C 51 N MET C 34 \ SHEET 6 AB1 6 THR C 58 TYR C 60 -1 O TYR C 59 N THR C 50 \ SHEET 1 AB2 4 LEU C 11 VAL C 12 0 \ SHEET 2 AB2 4 THR C 114 VAL C 118 1 O THR C 117 N VAL C 12 \ SHEET 3 AB2 4 ALA C 92 ASN C 98 -1 N TYR C 94 O THR C 114 \ SHEET 4 AB2 4 LEU C 109 TRP C 110 -1 O LEU C 109 N ASN C 98 \ SHEET 1 AB3 5 SER C 129 GLY C 132 0 \ SHEET 2 AB3 5 THR C 224 VAL C 228 1 O THR C 227 N VAL C 130 \ SHEET 3 AB3 5 ALA C 206 TYR C 213 -1 N ALA C 206 O LEU C 226 \ SHEET 4 AB3 5 VAL C 155 HIS C 160 -1 N SER C 156 O CYS C 211 \ SHEET 5 AB3 5 LYS C 167 ILE C 170 -1 O LYS C 167 N GLN C 159 \ SHEET 1 AB4 4 SER C 129 GLY C 132 0 \ SHEET 2 AB4 4 THR C 224 VAL C 228 1 O THR C 227 N VAL C 130 \ SHEET 3 AB4 4 ALA C 206 TYR C 213 -1 N ALA C 206 O LEU C 226 \ SHEET 4 AB4 4 THR C 218 PHE C 220 -1 O VAL C 219 N SER C 212 \ SHEET 1 AB5 3 VAL C 138 THR C 143 0 \ SHEET 2 AB5 3 THR C 192 ILE C 197 -1 O LEU C 195 N ILE C 140 \ SHEET 3 AB5 3 PHE C 184 SER C 189 -1 N SER C 187 O SER C 194 \ SHEET 1 AB6 4 ARG E 3 SER E 7 0 \ SHEET 2 AB6 4 LEU E 18 SER E 25 -1 O ALA E 23 N LEU E 5 \ SHEET 3 AB6 4 MET E 78 MET E 83 -1 O LEU E 81 N LEU E 20 \ SHEET 4 AB6 4 PHE E 68 ASP E 73 -1 N SER E 71 O TYR E 80 \ SHEET 1 AB7 6 LEU E 11 VAL E 12 0 \ SHEET 2 AB7 6 THR E 114 VAL E 118 1 O THR E 117 N VAL E 12 \ SHEET 3 AB7 6 ALA E 92 ASN E 98 -1 N TYR E 94 O THR E 114 \ SHEET 4 AB7 6 MET E 34 GLN E 39 -1 N VAL E 37 O TYR E 95 \ SHEET 5 AB7 6 LEU E 45 ILE E 51 -1 O ILE E 51 N MET E 34 \ SHEET 6 AB7 6 THR E 58 TYR E 60 -1 O TYR E 59 N THR E 50 \ SHEET 1 AB8 4 LEU E 11 VAL E 12 0 \ SHEET 2 AB8 4 THR E 114 VAL E 118 1 O THR E 117 N VAL E 12 \ SHEET 3 AB8 4 ALA E 92 ASN E 98 -1 N TYR E 94 O THR E 114 \ SHEET 4 AB8 4 LEU E 109 TRP E 110 -1 N LEU E 109 O ASN E 98 \ SHEET 1 AB9 5 SER E 129 GLY E 132 0 \ SHEET 2 AB9 5 THR E 224 VAL E 228 1 O THR E 227 N VAL E 130 \ SHEET 3 AB9 5 ALA E 206 TYR E 213 -1 N ALA E 206 O LEU E 226 \ SHEET 4 AB9 5 VAL E 155 HIS E 160 -1 N HIS E 160 O ASP E 207 \ SHEET 5 AB9 5 LYS E 167 ILE E 170 -1 O LYS E 167 N GLN E 159 \ SHEET 1 AC1 4 SER E 129 GLY E 132 0 \ SHEET 2 AC1 4 THR E 224 VAL E 228 1 O THR E 227 N VAL E 130 \ SHEET 3 AC1 4 ALA E 206 TYR E 213 -1 N ALA E 206 O LEU E 226 \ SHEET 4 AC1 4 THR E 218 PHE E 220 -1 O VAL E 219 N SER E 212 \ SHEET 1 AC2 3 VAL E 138 THR E 143 0 \ SHEET 2 AC2 3 THR E 192 ILE E 197 -1 O LEU E 195 N ILE E 140 \ SHEET 3 AC2 3 PHE E 184 SER E 189 -1 N SER E 185 O THR E 196 \ SSBOND 1 CYS A 336 CYS A 361 1555 1555 2.03 \ SSBOND 2 CYS A 379 CYS A 432 1555 1555 2.03 \ SSBOND 3 CYS A 480 CYS A 488 1555 1555 2.02 \ SSBOND 4 CYS B 336 CYS B 361 1555 1555 2.03 \ SSBOND 5 CYS B 379 CYS B 432 1555 1555 2.03 \ SSBOND 6 CYS B 391 CYS B 525 1555 1555 2.03 \ SSBOND 7 CYS B 480 CYS B 488 1555 1555 2.03 \ SSBOND 8 CYS C 22 CYS C 96 1555 1555 2.04 \ SSBOND 9 CYS C 142 CYS C 210 1555 1555 2.02 \ SSBOND 10 CYS E 22 CYS E 96 1555 1555 2.03 \ SSBOND 11 CYS E 142 CYS E 210 1555 1555 2.02 \ CRYST1 122.863 92.092 89.270 90.00 92.40 90.00 C 1 2 1 8 \ 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 0.008139 0.000000 0.000341 0.00000 \ SCALE2 0.000000 0.010859 0.000000 0.00000 \ SCALE3 0.000000 0.000000 0.011212 0.00000 \ TER 1525 GLY A 526 \ TER 2984 GLY B 526 \ TER 4689 LEU C 229 \ TER 6413 ALA E 231 \ CONECT 6 217 \ CONECT 217 6 \ CONECT 366 773 \ CONECT 773 366 \ CONECT 1172 1221 \ CONECT 1221 1172 \ CONECT 1547 1758 \ CONECT 1758 1547 \ CONECT 1907 2314 \ CONECT 1997 2979 \ CONECT 2314 1907 \ CONECT 2709 2723 \ CONECT 2723 2709 \ CONECT 2979 1997 \ CONECT 3138 3722 \ CONECT 3722 3138 \ CONECT 4041 4553 \ CONECT 4553 4041 \ CONECT 4843 5427 \ CONECT 5427 4843 \ CONECT 5755 6267 \ CONECT 6267 5755 \ MASTER 320 0 0 17 75 0 0 6 6558 4 22 68 \ END \ """, "8gpychainD") cmd.hide("all") cmd.color('grey70', "8gpychainD") cmd.show('cartoon', "8gpychainD") cmd.center("8gpychainD", state=0, origin=1) 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