HEADER REPLICATION 14-NOV-22 8F5M TITLE CRYSTAL STRUCTURE OF P74 GP62 COMPND MOL_ID: 1; COMPND 2 MOLECULE: ENVELOPE GLYCOPROTEIN GP62; COMPND 3 CHAIN: A, B; COMPND 4 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: THERMUS VIRUS P74-26; SOURCE 3 ORGANISM_COMMON: THERMUS THERMOPHILUS PHAGE P74-26; SOURCE 4 ORGANISM_TAXID: 466052; SOURCE 5 GENE: P74P62; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS POLYMERASE, THERMOPHAGE, REPLICATION EXPDTA X-RAY DIFFRACTION AUTHOR B.BAE,S.K.NAIR REVDAT 1 17-JAN-24 8F5M 0 JRNL AUTH A.CHABAN,L.MINAKHIN,E.GOLDOBINA,B.BAE,Y.HAO,S.BORUKHOV, JRNL AUTH 2 L.PUTZEYS,M.BOON,F.KABINGER,R.LAVIGNE,K.S.MAKAROVA, JRNL AUTH 3 E.V.KOONIN,S.K.NAIR,S.TAGAMI,K.SEVERINOV,M.L.SOKOLOVA JRNL TITL TAIL-TAPE-FUSED VIRION AND NON-VIRION RNA POLYMERASES OF A JRNL TITL 2 THERMOPHILIC VIRUS WITH AN EXTREMELY LONG TAIL. JRNL REF NAT COMMUN V. 15 317 2024 JRNL REFN ESSN 2041-1723 JRNL PMID 38182597 JRNL DOI 10.1038/S41467-023-44630-Z REMARK 2 REMARK 2 RESOLUTION. 2.40 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC REFMAC5 REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.40 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 25.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 94.5 REMARK 3 NUMBER OF REFLECTIONS : 74282 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 CROSS-VALIDATION METHOD : THROUGHOUT REMARK 3 FREE R VALUE TEST SET SELECTION : RANDOM REMARK 3 R VALUE (WORKING + TEST SET) : 0.188 REMARK 3 R VALUE (WORKING SET) : 0.186 REMARK 3 FREE R VALUE : 0.231 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 3937 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 9317 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 2 REMARK 3 SOLVENT ATOMS : 831 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 42.42 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.36000 REMARK 3 B22 (A**2) : -0.08000 REMARK 3 B33 (A**2) : 0.43000 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 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.254 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.213 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.145 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 6.406 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 DISTANCE RESTRAINTS. RMS SIGMA REMARK 3 BOND LENGTH (A) : NULL ; NULL REMARK 3 ANGLE DISTANCE (A) : NULL ; NULL REMARK 3 INTRAPLANAR 1-4 DISTANCE (A) : NULL ; NULL REMARK 3 H-BOND OR METAL COORDINATION (A) : NULL ; NULL REMARK 3 REMARK 3 PLANE RESTRAINT (A) : NULL ; NULL REMARK 3 CHIRAL-CENTER RESTRAINT (A**3) : NULL ; NULL REMARK 3 REMARK 3 NON-BONDED CONTACT RESTRAINTS. REMARK 3 SINGLE TORSION (A) : NULL ; NULL REMARK 3 MULTIPLE TORSION (A) : NULL ; NULL REMARK 3 H-BOND (X...Y) (A) : NULL ; NULL REMARK 3 H-BOND (X-H...Y) (A) : NULL ; NULL REMARK 3 REMARK 3 CONFORMATIONAL TORSION ANGLE RESTRAINTS. REMARK 3 SPECIFIED (DEGREES) : NULL ; NULL REMARK 3 PLANAR (DEGREES) : NULL ; NULL REMARK 3 STAGGERED (DEGREES) : NULL ; NULL REMARK 3 TRANSVERSE (DEGREES) : NULL ; NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. RMS SIGMA REMARK 3 MAIN-CHAIN BOND (A**2) : NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE (A**2) : NULL ; NULL REMARK 3 SIDE-CHAIN BOND (A**2) : NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE (A**2) : NULL ; NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: HYDROGENS HAVE BEEN USED IF PRESENT IN REMARK 3 THE INPUT REMARK 4 REMARK 4 8F5M COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 15-NOV-22. REMARK 100 THE DEPOSITION ID IS D_1000270046. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 13-APR-14 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 : APS REMARK 200 BEAMLINE : 21-ID-G REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.98756 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MARMOSAIC 300 MM CCD REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : XSCALE REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 84905 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.380 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 : 8.000 REMARK 200 R MERGE (I) : 0.10700 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 13.7000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.38 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.42 REMARK 200 COMPLETENESS FOR SHELL (%) : NULL REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : 1.29500 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: SAD REMARK 200 SOFTWARE USED: AUTOSHARP REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 68.00 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.84 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 20-30 % PEG 3350, 100 MM KCL, VAPOR REMARK 280 DIFFUSION, HANGING DROP, TEMPERATURE 273K 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 90.54450 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 90.54450 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 55.46850 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 105.05100 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 6 -1.000000 0.000000 0.000000 55.46850 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 105.05100 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 90.54450 REMARK 290 SMTRY1 7 -1.000000 0.000000 0.000000 55.46850 REMARK 290 SMTRY2 7 0.000000 1.000000 0.000000 105.05100 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 90.54450 REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 55.46850 REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 105.05100 REMARK 290 SMTRY3 8 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 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 1690 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 52350 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -28.0 KCAL/MOL 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 MET A 1 REMARK 465 GLY A 2 REMARK 465 VAL A 595 REMARK 465 ASP A 596 REMARK 465 GLY A 597 REMARK 465 MET A 598 REMARK 465 ASP A 599 REMARK 465 THR A 600 REMARK 465 SER A 601 REMARK 465 ALA A 602 REMARK 465 ASN A 603 REMARK 465 ARG A 604 REMARK 465 ALA A 605 REMARK 465 PRO A 606 REMARK 465 LEU A 607 REMARK 465 ASP A 608 REMARK 465 THR A 609 REMARK 465 LEU A 610 REMARK 465 PHE A 611 REMARK 465 ALA A 612 REMARK 465 ASP A 613 REMARK 465 LEU A 614 REMARK 465 PHE A 615 REMARK 465 ARG A 616 REMARK 465 VAL A 617 REMARK 465 MET B 1 REMARK 465 GLY B 2 REMARK 465 THR B 3 REMARK 465 VAL B 595 REMARK 465 ASP B 596 REMARK 465 GLY B 597 REMARK 465 MET B 598 REMARK 465 ASP B 599 REMARK 465 THR B 600 REMARK 465 SER B 601 REMARK 465 ALA B 602 REMARK 465 ASN B 603 REMARK 465 ARG B 604 REMARK 465 ALA B 605 REMARK 465 PRO B 606 REMARK 465 LEU B 607 REMARK 465 ASP B 608 REMARK 465 THR B 609 REMARK 465 LEU B 610 REMARK 465 PHE B 611 REMARK 465 ALA B 612 REMARK 465 ASP B 613 REMARK 465 LEU B 614 REMARK 465 PHE B 615 REMARK 465 ARG B 616 REMARK 465 VAL B 617 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 1028 O HOH A 1181 1.97 REMARK 500 O GLU B 501 O HOH B 801 2.09 REMARK 500 O HOH A 1144 O HOH A 1228 2.13 REMARK 500 O HOH A 1179 O HOH A 1188 2.14 REMARK 500 SD MET A 136 O HOH A 1180 2.15 REMARK 500 O HOH A 1190 O HOH A 1236 2.17 REMARK 500 O HOH B 1112 O HOH B 1154 2.18 REMARK 500 NH2 ARG A 565 O HOH A 801 2.19 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 B 1087 O HOH B 1087 3655 2.04 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND ANGLES 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,A3,1X,A1,I4,A1,3(1X,A4,2X),12X,F5.1) 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 ATM2 ATM3 REMARK 500 ARG A 146 CG - CD - NE ANGL. DEV. = -13.0 DEGREES REMARK 500 GLN A 201 CB - CA - C ANGL. DEV. = -16.3 DEGREES REMARK 500 GLU A 384 CB - CA - C ANGL. DEV. = 13.7 DEGREES REMARK 500 ARG A 503 CG - CD - NE ANGL. DEV. = -13.8 DEGREES REMARK 500 ASN A 554 CB - CA - C ANGL. DEV. = -12.5 DEGREES REMARK 500 ARG B 499 NE - CZ - NH2 ANGL. DEV. = -3.2 DEGREES REMARK 500 ARG B 503 CG - CD - NE ANGL. DEV. = -17.1 DEGREES REMARK 500 ARG B 503 NE - CZ - NH2 ANGL. DEV. = -3.4 DEGREES 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 GLU A 4 116.18 84.80 REMARK 500 ASP A 62 -112.51 43.82 REMARK 500 ASP A 112 99.30 -63.66 REMARK 500 PRO A 120 135.27 -39.69 REMARK 500 ASN A 129 53.38 -109.84 REMARK 500 GLN A 201 -1.27 -143.67 REMARK 500 ASP A 331 150.40 -46.94 REMARK 500 GLU A 351 90.09 -48.71 REMARK 500 ALA A 352 101.25 -165.95 REMARK 500 LEU A 353 -86.67 -69.15 REMARK 500 HIS A 354 79.71 68.77 REMARK 500 PRO A 523 153.89 -44.12 REMARK 500 ASN A 554 -34.51 -35.72 REMARK 500 LEU B 51 37.94 -167.33 REMARK 500 ASP B 62 -121.14 40.35 REMARK 500 PRO B 78 152.54 -45.17 REMARK 500 ASP B 112 96.76 -58.40 REMARK 500 PRO B 122 5.05 -57.05 REMARK 500 ASN B 129 56.61 -110.05 REMARK 500 GLN B 201 14.36 -150.77 REMARK 500 LYS B 356 108.75 152.76 REMARK 500 ASP B 357 113.62 80.05 REMARK 500 LEU B 358 -90.64 -170.24 REMARK 500 PRO B 359 35.15 -89.72 REMARK 500 LYS B 361 133.82 161.41 REMARK 500 ARG B 419 6.73 -69.51 REMARK 500 PHE B 431 96.73 -68.92 REMARK 500 HIS B 502 -11.24 77.37 REMARK 500 PRO B 523 167.37 -48.98 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: NON-CIS, NON-TRANS REMARK 500 REMARK 500 THE FOLLOWING PEPTIDE BONDS DEVIATE SIGNIFICANTLY FROM BOTH REMARK 500 CIS AND TRANS CONFORMATION. CIS BONDS, IF ANY, ARE LISTED REMARK 500 ON CISPEP RECORDS. TRANS IS DEFINED AS 180 +/- 30 AND REMARK 500 CIS IS DEFINED AS 0 +/- 30 DEGREES. REMARK 500 MODEL OMEGA REMARK 500 GLY B 350 GLU B 351 -145.66 REMARK 500 ASP B 436 PRO B 437 147.99 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 A1253 DISTANCE = 6.25 ANGSTROMS REMARK 525 HOH A1254 DISTANCE = 6.82 ANGSTROMS REMARK 525 HOH B1177 DISTANCE = 6.73 ANGSTROMS 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 MG A 700 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 327 OD1 REMARK 620 2 ASP A 329 OD1 56.4 REMARK 620 3 ASP A 331 OD1 60.5 60.8 REMARK 620 N 1 2 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG B 700 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP B 327 OD1 REMARK 620 2 ASP B 329 OD1 59.7 REMARK 620 3 ASP B 331 OD1 64.3 62.0 REMARK 620 N 1 2 DBREF 8F5M A 1 617 UNP A7XXN5 A7XXN5_BP742 27 643 DBREF 8F5M B 1 617 UNP A7XXN5 A7XXN5_BP742 27 643 SEQRES 1 A 617 MET GLY THR GLU ARG ILE GLY THR LEU LEU GLY TRP ASN SEQRES 2 A 617 LEU LEU GLU PHE PRO LYS GLU ARG VAL ARG GLU LEU GLN SEQRES 3 A 617 SER THR ALA GLU PRO THR GLU GLY SER TYR ARG ASN ILE SEQRES 4 A 617 LEU ASP GLY LEU VAL ASN LEU VAL LYS GLU ALA LEU GLY SEQRES 5 A 617 HIS ILE PRO ASP ALA LEU ILE GLY LYS ASP ASN VAL VAL SEQRES 6 A 617 MET TRP PRO GLY SER THR GLY ALA ASN PHE HIS LEU PRO SEQRES 7 A 617 GLY TRP ARG VAL SER ASP PHE VAL ARG ALA PRO SER ARG SEQRES 8 A 617 ALA ARG THR GLU LEU PRO THR SER SER LEU THR LEU ILE SEQRES 9 A 617 ARG GLY LYS LYS VAL PHE GLY ASP GLY ILE VAL GLY ILE SEQRES 10 A 617 PHE PRO PRO MET PRO GLU ILE VAL PRO SER PRO ASN GLY SEQRES 11 A 617 TRP ALA GLN VAL ARG MET PHE SER ARG ARG GLY ASN GLU SEQRES 12 A 617 ILE PHE ARG ALA TRP LYS GLY VAL ILE VAL THR HIS PRO SEQRES 13 A 617 ASN VAL LYS GLU PRO LEU VAL ALA PHE ASP ASP GLY TYR SEQRES 14 A 617 GLY VAL GLU GLU LEU GLY ASP VAL LEU GLU ILE HIS ALA SEQRES 15 A 617 ILE LEU LEU GLN THR GLN PHE THR ALA GLU TYR THR VAL SEQRES 16 A 617 GLN GLY LEU TYR TYR GLN GLY ILE PRO GLY TRP TRP ARG SEQRES 17 A 617 TYR LEU ASP LEU ASP PHE ALA PHE PRO PRO ASP LYS ALA SEQRES 18 A 617 LYS LEU VAL GLU ALA GLY ALA PRO LEU GLU LEU LEU TYR SEQRES 19 A 617 PRO ILE ALA GLN TYR LEU LYS LEU LYS GLY PRO ASN THR SEQRES 20 A 617 GLY PHE GLY GLY ILE LEU LEU SER PRO LYS ILE LEU PRO SEQRES 21 A 617 PHE LEU GLY LEU HIS GLY LEU GLU ASP GLY GLY LEU LEU SEQRES 22 A 617 ALA TYR THR ARG ARG TRP ARG PRO GLY GLU ARG VAL ILE SEQRES 23 A 617 PHE ASN ARG ARG PRO ASP LEU PRO THR GLY GLN SER ALA SEQRES 24 A 617 VAL GLU LEU THR TYR LEU GLY LEU SER PRO ILE ALA ASP SEQRES 25 A 617 SER VAL ILE ALA HIS GLU GLY ASP ILE ALA SER THR GLY SEQRES 26 A 617 ALA ASP TYR ASP GLY ASP ILE GLY TYR LEU PHE PRO THR SEQRES 27 A 617 PRO GLU LYS GLY GLY LEU TYR MET PRO PHE HIS GLY GLU SEQRES 28 A 617 ALA LEU HIS ARG LYS ASP LEU PRO THR LYS ASP TYR GLU SEQRES 29 A 617 SER GLY LEU HIS ARG TRP ALA GLY GLN VAL HIS ALA ALA SEQRES 30 A 617 HIS ILE LEU GLY ARG VAL GLU VAL ASN THR ARG ARG LEU SEQRES 31 A 617 LEU ASP VAL ALA TRP ALA ASN GLY GLU ASP VAL PRO GLN SEQRES 32 A 617 ASP TYR LEU HIS ALA ALA THR GLU MET ILE GLN VAL ALA SEQRES 33 A 617 VAL ASP ARG GLN LYS ARG ASP ILE GLN TRP PRO ASP PHE SEQRES 34 A 617 ASP PHE LYS SER VAL LYS ASP PRO VAL MET THR ASP PHE SEQRES 35 A 617 TRP ARG LEU ALA VAL PRO GLY GLY LYS LEU THR PRO GLU SEQRES 36 A 617 GLY ASN THR PRO ALA ALA LYS ILE THR ASN ARG TRP ARG SEQRES 37 A 617 ALA TRP GLU THR LEU ASP GLY TYR VAL GLY HIS PRO HIS SEQRES 38 A 617 MET LYS ASN ASP LEU LYS PRO LEU ALA SER LYS ILE SER SEQRES 39 A 617 ARG VAL LEU ALA ARG GLY GLU HIS ARG ARG PRO GLY PRO SEQRES 40 A 617 VAL LEU ALA ALA LEU ALA PHE ALA LEU LEU ALA PRO GLU SEQRES 41 A 617 PRO ARG PRO LYS GLU VAL GLU ASP LEU LEU THR ALA GLY SEQRES 42 A 617 LEU GLN SER GLY LYS ARG HIS ALA VAL TYR ASP ALA LEU SEQRES 43 A 617 VAL GLN MET GLY LEU PRO ALA ASN GLN ALA THR ASP HIS SEQRES 44 A 617 PRO GLU LEU TRP LEU ARG LEU ALA SER LYS GLU GLU LEU SEQRES 45 A 617 GLU ALA ILE PHE LYS GLN LEU GLY TYR ARG PRO ALA MET SEQRES 46 A 617 GLU GLU LEU GLU GLU ALA LEU ASN ALA VAL ASP GLY MET SEQRES 47 A 617 ASP THR SER ALA ASN ARG ALA PRO LEU ASP THR LEU PHE SEQRES 48 A 617 ALA ASP LEU PHE ARG VAL SEQRES 1 B 617 MET GLY THR GLU ARG ILE GLY THR LEU LEU GLY TRP ASN SEQRES 2 B 617 LEU LEU GLU PHE PRO LYS GLU ARG VAL ARG GLU LEU GLN SEQRES 3 B 617 SER THR ALA GLU PRO THR GLU GLY SER TYR ARG ASN ILE SEQRES 4 B 617 LEU ASP GLY LEU VAL ASN LEU VAL LYS GLU ALA LEU GLY SEQRES 5 B 617 HIS ILE PRO ASP ALA LEU ILE GLY LYS ASP ASN VAL VAL SEQRES 6 B 617 MET TRP PRO GLY SER THR GLY ALA ASN PHE HIS LEU PRO SEQRES 7 B 617 GLY TRP ARG VAL SER ASP PHE VAL ARG ALA PRO SER ARG SEQRES 8 B 617 ALA ARG THR GLU LEU PRO THR SER SER LEU THR LEU ILE SEQRES 9 B 617 ARG GLY LYS LYS VAL PHE GLY ASP GLY ILE VAL GLY ILE SEQRES 10 B 617 PHE PRO PRO MET PRO GLU ILE VAL PRO SER PRO ASN GLY SEQRES 11 B 617 TRP ALA GLN VAL ARG MET PHE SER ARG ARG GLY ASN GLU SEQRES 12 B 617 ILE PHE ARG ALA TRP LYS GLY VAL ILE VAL THR HIS PRO SEQRES 13 B 617 ASN VAL LYS GLU PRO LEU VAL ALA PHE ASP ASP GLY TYR SEQRES 14 B 617 GLY VAL GLU GLU LEU GLY ASP VAL LEU GLU ILE HIS ALA SEQRES 15 B 617 ILE LEU LEU GLN THR GLN PHE THR ALA GLU TYR THR VAL SEQRES 16 B 617 GLN GLY LEU TYR TYR GLN GLY ILE PRO GLY TRP TRP ARG SEQRES 17 B 617 TYR LEU ASP LEU ASP PHE ALA PHE PRO PRO ASP LYS ALA SEQRES 18 B 617 LYS LEU VAL GLU ALA GLY ALA PRO LEU GLU LEU LEU TYR SEQRES 19 B 617 PRO ILE ALA GLN TYR LEU LYS LEU LYS GLY PRO ASN THR SEQRES 20 B 617 GLY PHE GLY GLY ILE LEU LEU SER PRO LYS ILE LEU PRO SEQRES 21 B 617 PHE LEU GLY LEU HIS GLY LEU GLU ASP GLY GLY LEU LEU SEQRES 22 B 617 ALA TYR THR ARG ARG TRP ARG PRO GLY GLU ARG VAL ILE SEQRES 23 B 617 PHE ASN ARG ARG PRO ASP LEU PRO THR GLY GLN SER ALA SEQRES 24 B 617 VAL GLU LEU THR TYR LEU GLY LEU SER PRO ILE ALA ASP SEQRES 25 B 617 SER VAL ILE ALA HIS GLU GLY ASP ILE ALA SER THR GLY SEQRES 26 B 617 ALA ASP TYR ASP GLY ASP ILE GLY TYR LEU PHE PRO THR SEQRES 27 B 617 PRO GLU LYS GLY GLY LEU TYR MET PRO PHE HIS GLY GLU SEQRES 28 B 617 ALA LEU HIS ARG LYS ASP LEU PRO THR LYS ASP TYR GLU SEQRES 29 B 617 SER GLY LEU HIS ARG TRP ALA GLY GLN VAL HIS ALA ALA SEQRES 30 B 617 HIS ILE LEU GLY ARG VAL GLU VAL ASN THR ARG ARG LEU SEQRES 31 B 617 LEU ASP VAL ALA TRP ALA ASN GLY GLU ASP VAL PRO GLN SEQRES 32 B 617 ASP TYR LEU HIS ALA ALA THR GLU MET ILE GLN VAL ALA SEQRES 33 B 617 VAL ASP ARG GLN LYS ARG ASP ILE GLN TRP PRO ASP PHE SEQRES 34 B 617 ASP PHE LYS SER VAL LYS ASP PRO VAL MET THR ASP PHE SEQRES 35 B 617 TRP ARG LEU ALA VAL PRO GLY GLY LYS LEU THR PRO GLU SEQRES 36 B 617 GLY ASN THR PRO ALA ALA LYS ILE THR ASN ARG TRP ARG SEQRES 37 B 617 ALA TRP GLU THR LEU ASP GLY TYR VAL GLY HIS PRO HIS SEQRES 38 B 617 MET LYS ASN ASP LEU LYS PRO LEU ALA SER LYS ILE SER SEQRES 39 B 617 ARG VAL LEU ALA ARG GLY GLU HIS ARG ARG PRO GLY PRO SEQRES 40 B 617 VAL LEU ALA ALA LEU ALA PHE ALA LEU LEU ALA PRO GLU SEQRES 41 B 617 PRO ARG PRO LYS GLU VAL GLU ASP LEU LEU THR ALA GLY SEQRES 42 B 617 LEU GLN SER GLY LYS ARG HIS ALA VAL TYR ASP ALA LEU SEQRES 43 B 617 VAL GLN MET GLY LEU PRO ALA ASN GLN ALA THR ASP HIS SEQRES 44 B 617 PRO GLU LEU TRP LEU ARG LEU ALA SER LYS GLU GLU LEU SEQRES 45 B 617 GLU ALA ILE PHE LYS GLN LEU GLY TYR ARG PRO ALA MET SEQRES 46 B 617 GLU GLU LEU GLU GLU ALA LEU ASN ALA VAL ASP GLY MET SEQRES 47 B 617 ASP THR SER ALA ASN ARG ALA PRO LEU ASP THR LEU PHE SEQRES 48 B 617 ALA ASP LEU PHE ARG VAL HET MG A 700 1 HET MG B 700 1 HETNAM MG MAGNESIUM ION FORMUL 3 MG 2(MG 2+) FORMUL 5 HOH *831(H2 O) HELIX 1 AA1 ARG A 5 LEU A 10 1 6 HELIX 2 AA2 PRO A 18 SER A 27 1 10 HELIX 3 AA3 THR A 32 GLY A 52 1 21 HELIX 4 AA4 PRO A 78 ARG A 87 1 10 HELIX 5 AA5 SER A 99 LEU A 101 5 3 HELIX 6 AA6 ASP A 166 GLY A 168 5 3 HELIX 7 AA7 THR A 194 GLY A 202 1 9 HELIX 8 AA8 GLY A 205 LEU A 210 5 6 HELIX 9 AA9 PRO A 217 ALA A 226 1 10 HELIX 10 AB1 PRO A 229 TYR A 234 5 6 HELIX 11 AB2 PRO A 235 GLN A 238 5 4 HELIX 12 AB3 LYS A 257 LEU A 262 1 6 HELIX 13 AB4 HIS A 317 ALA A 322 1 6 HELIX 14 AB5 SER A 323 GLY A 325 5 3 HELIX 15 AB6 THR A 338 GLY A 342 5 5 HELIX 16 AB7 SER A 365 ASN A 397 1 33 HELIX 17 AB8 PRO A 402 ARG A 419 1 18 HELIX 18 AB9 VAL A 438 VAL A 447 1 10 HELIX 19 AC1 PRO A 459 ALA A 469 1 11 HELIX 20 AC2 TRP A 470 TYR A 476 5 7 HELIX 21 AC3 HIS A 479 LEU A 486 1 8 HELIX 22 AC4 LEU A 486 GLU A 501 1 16 HELIX 23 AC5 PRO A 505 LEU A 516 1 12 HELIX 24 AC6 PRO A 523 GLY A 537 1 15 HELIX 25 AC7 LYS A 538 MET A 549 1 12 HELIX 26 AC8 PRO A 552 ALA A 556 5 5 HELIX 27 AC9 HIS A 559 ALA A 567 1 9 HELIX 28 AD1 SER A 568 LEU A 579 1 12 HELIX 29 AD2 PRO A 583 ALA A 594 1 12 HELIX 30 AD3 ARG B 5 LEU B 10 1 6 HELIX 31 AD4 PRO B 18 SER B 27 1 10 HELIX 32 AD5 THR B 32 GLY B 52 1 21 HELIX 33 AD6 GLY B 79 ARG B 81 5 3 HELIX 34 AD7 VAL B 82 ARG B 87 1 6 HELIX 35 AD8 SER B 99 LEU B 101 5 3 HELIX 36 AD9 ASP B 166 GLY B 168 5 3 HELIX 37 AE1 THR B 194 GLY B 202 1 9 HELIX 38 AE2 GLY B 205 LEU B 210 5 6 HELIX 39 AE3 PRO B 217 ALA B 226 1 10 HELIX 40 AE4 PRO B 229 TYR B 234 5 6 HELIX 41 AE5 PRO B 235 GLN B 238 5 4 HELIX 42 AE6 LYS B 257 LEU B 262 1 6 HELIX 43 AE7 ILE B 321 GLY B 325 5 5 HELIX 44 AE8 THR B 338 GLY B 342 5 5 HELIX 45 AE9 SER B 365 GLY B 398 1 34 HELIX 46 AF1 PRO B 402 ARG B 419 1 18 HELIX 47 AF2 VAL B 438 VAL B 447 1 10 HELIX 48 AF3 LYS B 462 ALA B 469 1 8 HELIX 49 AF4 TRP B 470 TYR B 476 5 7 HELIX 50 AF5 HIS B 479 LEU B 486 1 8 HELIX 51 AF6 LEU B 486 GLU B 501 1 16 HELIX 52 AF7 PRO B 505 LEU B 516 1 12 HELIX 53 AF8 PRO B 523 SER B 536 1 14 HELIX 54 AF9 LYS B 538 MET B 549 1 12 HELIX 55 AG1 PRO B 552 ALA B 556 5 5 HELIX 56 AG2 HIS B 559 ALA B 567 1 9 HELIX 57 AG3 SER B 568 LEU B 579 1 12 HELIX 58 AG4 PRO B 583 ASN B 593 1 11 SHEET 1 AA1 3 ASN A 13 GLU A 16 0 SHEET 2 AA1 3 VAL A 64 TRP A 67 -1 O TRP A 67 N ASN A 13 SHEET 3 AA1 3 ILE A 59 LYS A 61 -1 N ILE A 59 O MET A 66 SHEET 1 AA2 5 ASN A 74 PHE A 75 0 SHEET 2 AA2 5 GLU A 143 THR A 154 1 O ILE A 144 N ASN A 74 SHEET 3 AA2 5 ILE A 114 PHE A 118 1 N PHE A 118 O VAL A 153 SHEET 4 AA2 5 LEU A 162 ALA A 164 -1 O LEU A 162 N ILE A 117 SHEET 5 AA2 5 THR A 102 ILE A 104 1 N THR A 102 O VAL A 163 SHEET 1 AA3 5 ALA A 92 PRO A 97 0 SHEET 2 AA3 5 VAL A 177 LEU A 185 -1 O ALA A 182 N ALA A 92 SHEET 3 AA3 5 TRP A 131 ARG A 140 -1 N ARG A 139 O VAL A 177 SHEET 4 AA3 5 GLU A 143 THR A 154 -1 O GLY A 150 N VAL A 134 SHEET 5 AA3 5 TYR A 169 GLY A 170 -1 O TYR A 169 N ALA A 147 SHEET 1 AA4 2 ASP A 211 PHE A 214 0 SHEET 2 AA4 2 LEU A 240 LYS A 243 -1 O LYS A 243 N ASP A 211 SHEET 1 AA5 7 PHE A 249 LEU A 254 0 SHEET 2 AA5 7 SER A 313 ALA A 316 1 O VAL A 314 N LEU A 254 SHEET 3 AA5 7 GLY A 271 ALA A 274 -1 N LEU A 273 O ILE A 315 SHEET 4 AA5 7 ALA A 299 TYR A 304 1 O THR A 303 N LEU A 272 SHEET 5 AA5 7 ARG A 284 ASN A 288 -1 N PHE A 287 O VAL A 300 SHEET 6 AA5 7 ILE A 332 PHE A 336 -1 O PHE A 336 N ILE A 286 SHEET 7 AA5 7 PHE A 249 LEU A 254 -1 N GLY A 251 O GLY A 333 SHEET 1 AA6 2 THR A 360 LYS A 361 0 SHEET 2 AA6 2 ASP A 423 ILE A 424 -1 O ASP A 423 N LYS A 361 SHEET 1 AA7 3 ASN B 13 GLU B 16 0 SHEET 2 AA7 3 VAL B 64 TRP B 67 -1 O TRP B 67 N ASN B 13 SHEET 3 AA7 3 ILE B 59 LYS B 61 -1 N ILE B 59 O MET B 66 SHEET 1 AA8 5 ASN B 74 PHE B 75 0 SHEET 2 AA8 5 GLU B 143 THR B 154 1 O ILE B 144 N ASN B 74 SHEET 3 AA8 5 ILE B 114 PHE B 118 1 N PHE B 118 O VAL B 153 SHEET 4 AA8 5 LEU B 162 ALA B 164 -1 O ALA B 164 N VAL B 115 SHEET 5 AA8 5 THR B 102 ILE B 104 1 N THR B 102 O VAL B 163 SHEET 1 AA9 5 ALA B 92 PRO B 97 0 SHEET 2 AA9 5 VAL B 177 LEU B 185 -1 O ALA B 182 N ALA B 92 SHEET 3 AA9 5 TRP B 131 ARG B 140 -1 N ARG B 135 O HIS B 181 SHEET 4 AA9 5 GLU B 143 THR B 154 -1 O GLY B 150 N VAL B 134 SHEET 5 AA9 5 TYR B 169 GLY B 170 -1 O TYR B 169 N ALA B 147 SHEET 1 AB1 2 ASP B 211 PHE B 214 0 SHEET 2 AB1 2 LEU B 240 LYS B 243 -1 O LYS B 241 N ASP B 213 SHEET 1 AB2 7 PHE B 249 LEU B 254 0 SHEET 2 AB2 7 SER B 313 ALA B 316 1 O VAL B 314 N LEU B 254 SHEET 3 AB2 7 GLY B 271 ALA B 274 -1 N LEU B 273 O ILE B 315 SHEET 4 AB2 7 ALA B 299 LEU B 307 1 O LEU B 305 N LEU B 272 SHEET 5 AB2 7 ARG B 284 ASN B 288 -1 N PHE B 287 O VAL B 300 SHEET 6 AB2 7 ILE B 332 PHE B 336 -1 O PHE B 336 N ILE B 286 SHEET 7 AB2 7 PHE B 249 LEU B 254 -1 N GLY B 251 O GLY B 333 LINK OD1 ASP A 327 MG MG A 700 1555 1555 2.98 LINK OD1 ASP A 329 MG MG A 700 1555 1555 2.94 LINK OD1 ASP A 331 MG MG A 700 1555 1555 2.95 LINK OD1 ASP B 327 MG MG B 700 1555 1555 2.81 LINK OD1 ASP B 329 MG MG B 700 1555 1555 2.86 LINK OD1 ASP B 331 MG MG B 700 1555 1555 2.88 CISPEP 1 TYR A 234 PRO A 235 0 -11.12 CISPEP 2 ARG A 290 PRO A 291 0 8.61 CISPEP 3 TYR B 234 PRO B 235 0 -11.06 CISPEP 4 ARG B 290 PRO B 291 0 2.78 CRYST1 110.937 210.102 181.089 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 0.009014 0.000000 0.000000 0.00000 SCALE2 0.000000 0.004760 0.000000 0.00000 SCALE3 0.000000 0.000000 0.005522 0.00000