HEADER VIRAL PROTEIN 04-FEB-10 3LP3 TITLE P15 HIV RNASEH DOMAIN WITH INHIBITOR MK3 COMPND MOL_ID: 1; COMPND 2 MOLECULE: P15; COMPND 3 CHAIN: A, B; COMPND 4 FRAGMENT: RESIDUES 1014-1149; COMPND 5 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HUMAN IMMUNODEFICIENCY VIRUS TYPE 1; SOURCE 3 ORGANISM_COMMON: HIV-1; SOURCE 4 ORGANISM_TAXID: 11676; SOURCE 5 GENE: GAG-POL; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID KEYWDS REVERSE TRANSCRIPTASE, RNASE H, HIV, AIDS, CAPSID MATURATION, DNA KEYWDS 2 INTEGRATION, DNA-DIRECTED DNA POLYMERASE, ENDONUCLEASE, HOST KEYWDS 3 CYTOPLASM, HOST NUCLEUS, MULTIFUNCTIONAL ENZYME, RNA-BINDING, RNA- KEYWDS 4 DIRECTED DNA POLYMERASE, VIRAL NUCLEOPROTEIN, VIRION, VIRAL PROTEIN EXPDTA X-RAY DIFFRACTION AUTHOR Y.YAN,S.K.MUNSHI,G.S.PRASAD,H.P.SU REVDAT 4 21-FEB-24 3LP3 1 REMARK SEQADV LINK REVDAT 3 01-NOV-17 3LP3 1 REMARK REVDAT 2 21-JUL-10 3LP3 1 JRNL REVDAT 1 09-JUN-10 3LP3 0 JRNL AUTH H.P.SU,Y.YAN,G.S.PRASAD,R.F.SMITH,C.L.DANIELS, JRNL AUTH 2 P.D.ABEYWICKREMA,J.C.REID,H.M.LOUGHRAN,M.KORNIENKO,S.SHARMA, JRNL AUTH 3 J.A.GROBLER,B.XU,V.SARDANA,T.J.ALLISON,P.D.WILLIAMS, JRNL AUTH 4 P.L.DARKE,D.J.HAZUDA,S.MUNSHI JRNL TITL STRUCTURAL BASIS FOR THE INHIBITION OF RNASE H ACTIVITY OF JRNL TITL 2 HIV-1 REVERSE TRANSCRIPTASE BY RNASE H ACTIVE SITE-DIRECTED JRNL TITL 3 INHIBITORS. JRNL REF J.VIROL. V. 84 7625 2010 JRNL REFN ISSN 0022-538X JRNL PMID 20484498 JRNL DOI 10.1128/JVI.00353-10 REMARK 2 REMARK 2 RESOLUTION. 2.80 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN REMARK 3 REMARK 3 REFINEMENT TARGET : MAXIMUM LIKELIHOOD REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.80 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 34.88 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 3 NUMBER OF REFLECTIONS : 7751 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) : 0.232 REMARK 3 R VALUE (WORKING SET) : 0.229 REMARK 3 FREE R VALUE : 0.288 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.800 REMARK 3 FREE R VALUE TEST SET COUNT : 387 REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 20 REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 2.80 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.87 REMARK 3 REFLECTION IN BIN (WORKING SET) : 576 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 99.51 REMARK 3 BIN R VALUE (WORKING SET) : 0.2880 REMARK 3 BIN FREE R VALUE SET COUNT : 32 REMARK 3 BIN FREE R VALUE : 0.4250 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2020 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 64 REMARK 3 SOLVENT ATOMS : 20 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 37.31 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.17000 REMARK 3 B22 (A**2) : -0.17000 REMARK 3 B33 (A**2) : 0.25000 REMARK 3 B12 (A**2) : -0.08000 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): NULL REMARK 3 ESU BASED ON FREE R VALUE (A): 0.428 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.346 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 17.816 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.902 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.852 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 2110 ; 0.006 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 2860 ; 1.029 ; 2.004 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 260 ; 4.764 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 90 ;40.386 ;27.111 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 378 ;17.695 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 4 ; 9.577 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 324 ; 0.064 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 1568 ; 0.002 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 935 ; 0.183 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 1451 ; 0.292 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 66 ; 0.100 ; 0.200 REMARK 3 H-BOND (X...Y) OTHERS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION REFINED ATOMS (A): 1 ; 0.019 ; 0.200 REMARK 3 POTENTIAL METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW REFINED ATOMS (A): 41 ; 0.184 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 4 ; 0.116 ; 0.200 REMARK 3 SYMMETRY H-BOND OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 MAIN-CHAIN BOND REFINED ATOMS (A**2): 1360 ; 0.379 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 2104 ; 0.693 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 912 ; 0.427 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 756 ; 0.764 ; 4.500 REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 ANISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 RIGID-BOND RESTRAINTS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; FREE ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; BONDED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 NCS RESTRAINTS STATISTICS REMARK 3 NUMBER OF DIFFERENT NCS GROUPS : 1 REMARK 3 REMARK 3 NCS GROUP NUMBER : 1 REMARK 3 CHAIN NAMES : A B REMARK 3 NUMBER OF COMPONENTS NCS GROUP : 1 REMARK 3 COMPONENT C SSSEQI TO C SSSEQI CODE REMARK 3 1 A 426 A 556 4 REMARK 3 1 B 426 B 556 4 REMARK 3 GROUP CHAIN COUNT RMS WEIGHT REMARK 3 MEDIUM POSITIONAL 1 A (A): 1010 ; 0.37 ; 0.50 REMARK 3 MEDIUM THERMAL 1 A (A**2): 1010 ; 0.15 ; 2.00 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : NULL REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : MASK REMARK 3 PARAMETERS FOR MASK CALCULATION REMARK 3 VDW PROBE RADIUS : 1.20 REMARK 3 ION PROBE RADIUS : 0.80 REMARK 3 SHRINKAGE RADIUS : 0.80 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: HYDROGENS HAVE BEEN ADDED IN THE RIDING REMARK 3 POSITIONS REMARK 4 REMARK 4 3LP3 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 16-FEB-10. REMARK 100 THE DEPOSITION ID IS D_1000057553. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : NULL REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 6.8 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : N REMARK 200 RADIATION SOURCE : ROTATING ANODE REMARK 200 BEAMLINE : NULL REMARK 200 X-RAY GENERATOR MODEL : RIGAKU FR-E+ SUPERBRIGHT REMARK 200 MONOCHROMATIC OR LAUE (M/L) : NULL REMARK 200 WAVELENGTH OR RANGE (A) : 1.54 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : SATURN 944+ REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 8172 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.800 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 : 5.800 REMARK 200 R MERGE (I) : 0.09800 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 10.0000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.80 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.90 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : 5.70 REMARK 200 R MERGE FOR SHELL (I) : 0.35900 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: FOURIER SYNTHESIS 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 (%): 56.35 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.82 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.1 M SODIUM CITRATE PH 5.0, 15-20% REMARK 280 PEG 8000, HANGING DROP, TEMPERATURE 298K, PH 6.8 REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 31 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -Y,X-Y,Z+1/3 REMARK 290 3555 -X+Y,-X,Z+2/3 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 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 2 0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 37.59100 REMARK 290 SMTRY1 3 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 3 -0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 75.18200 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1, 2, 3 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 300 REMARK: HE BIOLOGICAL UNIT IS A MONOMER. THERE ARE 2 BIOLOGICAL REMARK 300 UNITS IN THE ASYMMETRIC UNIT 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: MONOMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: A 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: MONOMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: 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: 3 REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 1900 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 12830 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -30.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A 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 APPLY THE FOLLOWING TO CHAINS: B REMARK 350 BIOMT1 2 1.000000 0.000000 0.000000 -25.62800 REMARK 350 BIOMT2 2 0.000000 1.000000 0.000000 -44.38900 REMARK 350 BIOMT3 2 0.000000 0.000000 1.000000 0.00000 REMARK 465 REMARK 465 MISSING RESIDUES REMARK 465 THE FOLLOWING RESIDUES WERE NOT LOCATED IN THE REMARK 465 EXPERIMENT. (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 465 IDENTIFIER; SSSEQ=SEQUENCE NUMBER; I=INSERTION CODE.) REMARK 465 REMARK 465 M RES C SSSEQI REMARK 465 GLY A 425 REMARK 465 ARG A 557 REMARK 465 LYS A 558 REMARK 465 ILE A 559 REMARK 465 LEU A 560 REMARK 465 PHE A 561 REMARK 465 LEU A 562 REMARK 465 GLY B 425 REMARK 465 ARG B 557 REMARK 465 LYS B 558 REMARK 465 ILE B 559 REMARK 465 LEU B 560 REMARK 465 PHE B 561 REMARK 465 LEU B 562 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 471 78.78 50.69 REMARK 500 REMARK 500 REMARK: NULL REMARK 620 REMARK 620 METAL COORDINATION REMARK 620 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 620 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE): REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MN A 1 MN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 LP9 A 3 O11 REMARK 620 2 LP9 A 3 O12 68.2 REMARK 620 3 HOH A 4 O 79.0 73.8 REMARK 620 4 ASP A 443 OD2 147.5 97.5 68.9 REMARK 620 5 ASP A 549 OD2 91.5 147.6 77.8 86.3 REMARK 620 N 1 2 3 4 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MN A 2 MN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 LP9 A 3 O12 REMARK 620 2 ASP A 443 OD1 108.7 REMARK 620 3 GLU A 478 OE2 140.2 88.7 REMARK 620 4 ASP A 498 OD1 102.4 115.1 101.7 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MN B 2 MN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 LP9 B 1 O12 REMARK 620 2 LP9 B 1 O11 75.3 REMARK 620 3 ASP B 443 OD1 101.2 169.6 REMARK 620 4 ASP B 549 OD2 152.7 85.1 94.6 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MN B 3 MN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 LP9 B 1 O12 REMARK 620 2 LP9 B 1 N 70.0 REMARK 620 3 ASP B 443 OD2 94.6 162.3 REMARK 620 4 GLU B 478 OE1 126.1 89.7 92.9 REMARK 620 5 ASP B 498 OD2 121.5 102.4 93.0 111.2 REMARK 620 N 1 2 3 4 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MN A 1 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MN A 2 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE LP9 A 3 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE LP9 B 1 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MN B 2 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MN B 3 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 3LP0 RELATED DB: PDB REMARK 900 RELATED ID: 3LP1 RELATED DB: PDB REMARK 900 RELATED ID: 3LP2 RELATED DB: PDB DBREF 3LP3 A 427 562 UNP P0C6F2 POL_HV1LW 1014 1149 DBREF 3LP3 B 427 562 UNP P0C6F2 POL_HV1LW 1014 1149 SEQADV 3LP3 GLY A 425 UNP P0C6F2 INSERTION SEQADV 3LP3 SER A 426 UNP P0C6F2 INSERTION SEQADV 3LP3 GLY B 425 UNP P0C6F2 INSERTION SEQADV 3LP3 SER B 426 UNP P0C6F2 INSERTION SEQRES 1 A 138 GLY SER TYR GLN LEU GLU LYS GLU PRO ILE VAL GLY ALA SEQRES 2 A 138 GLU THR PHE TYR VAL ASP GLY ALA ALA ASN ARG GLU THR SEQRES 3 A 138 LYS LEU GLY LYS ALA GLY TYR VAL THR ASN LYS GLY ARG SEQRES 4 A 138 GLN LYS VAL VAL PRO LEU THR ASN THR THR ASN GLN LYS SEQRES 5 A 138 THR GLU LEU GLN ALA ILE TYR LEU ALA LEU GLN ASP SER SEQRES 6 A 138 GLY LEU GLU VAL ASN ILE VAL THR ASP SER GLN TYR ALA SEQRES 7 A 138 LEU GLY ILE ILE GLN ALA GLN PRO ASP LYS SER GLU SER SEQRES 8 A 138 GLU LEU VAL ASN GLN ILE ILE GLU GLN LEU ILE LYS LYS SEQRES 9 A 138 GLU LYS VAL TYR LEU ALA TRP VAL PRO ALA HIS LYS GLY SEQRES 10 A 138 ILE GLY GLY ASN GLU GLN VAL ASP LYS LEU VAL SER ALA SEQRES 11 A 138 GLY ILE ARG LYS ILE LEU PHE LEU SEQRES 1 B 138 GLY SER TYR GLN LEU GLU LYS GLU PRO ILE VAL GLY ALA SEQRES 2 B 138 GLU THR PHE TYR VAL ASP GLY ALA ALA ASN ARG GLU THR SEQRES 3 B 138 LYS LEU GLY LYS ALA GLY TYR VAL THR ASN LYS GLY ARG SEQRES 4 B 138 GLN LYS VAL VAL PRO LEU THR ASN THR THR ASN GLN LYS SEQRES 5 B 138 THR GLU LEU GLN ALA ILE TYR LEU ALA LEU GLN ASP SER SEQRES 6 B 138 GLY LEU GLU VAL ASN ILE VAL THR ASP SER GLN TYR ALA SEQRES 7 B 138 LEU GLY ILE ILE GLN ALA GLN PRO ASP LYS SER GLU SER SEQRES 8 B 138 GLU LEU VAL ASN GLN ILE ILE GLU GLN LEU ILE LYS LYS SEQRES 9 B 138 GLU LYS VAL TYR LEU ALA TRP VAL PRO ALA HIS LYS GLY SEQRES 10 B 138 ILE GLY GLY ASN GLU GLN VAL ASP LYS LEU VAL SER ALA SEQRES 11 B 138 GLY ILE ARG LYS ILE LEU PHE LEU HET MN A 1 1 HET MN A 2 1 HET LP9 A 3 30 HET LP9 B 1 30 HET MN B 2 1 HET MN B 3 1 HETNAM MN MANGANESE (II) ION HETNAM LP9 3-[4-(DIETHYLAMINO)PHENOXY]-6-(ETHOXYCARBONYL)-5,8- HETNAM 2 LP9 DIHYDROXY-7-OXO-7,8-DIHYDRO-1,8-NAPHTHYRIDIN-1-IUM FORMUL 3 MN 4(MN 2+) FORMUL 5 LP9 2(C21 H23 N3 O6) FORMUL 9 HOH *20(H2 O) HELIX 1 1 THR A 473 ASP A 488 1 16 HELIX 2 2 SER A 499 ALA A 508 1 10 HELIX 3 3 SER A 515 LYS A 527 1 13 HELIX 4 4 ILE A 542 ALA A 554 1 13 HELIX 5 5 THR B 473 ASP B 488 1 16 HELIX 6 6 SER B 499 GLN B 509 1 11 HELIX 7 7 SER B 515 LYS B 528 1 14 HELIX 8 8 ILE B 542 SER B 553 1 12 SHEET 1 A10 LYS A 530 TRP A 535 0 SHEET 2 A10 GLU A 492 THR A 497 1 N ILE A 495 O TYR A 532 SHEET 3 A10 GLU A 438 ALA A 446 1 N PHE A 440 O ASN A 494 SHEET 4 A10 GLY A 453 THR A 459 -1 O VAL A 458 N TYR A 441 SHEET 5 A10 GLN A 464 LEU A 469 -1 O VAL A 467 N ALA A 455 SHEET 6 A10 GLN B 464 LEU B 469 -1 O GLN B 464 N VAL A 466 SHEET 7 A10 GLY B 453 THR B 459 -1 N GLY B 453 O LEU B 469 SHEET 8 A10 GLU B 438 ALA B 446 -1 N TYR B 441 O VAL B 458 SHEET 9 A10 GLU B 492 THR B 497 1 O ASN B 494 N PHE B 440 SHEET 10 A10 LYS B 530 TRP B 535 1 O ALA B 534 N ILE B 495 LINK MN MN A 1 O11 LP9 A 3 1555 1555 2.02 LINK MN MN A 1 O12 LP9 A 3 1555 1555 2.73 LINK MN MN A 1 O HOH A 4 1555 1555 2.38 LINK MN MN A 1 OD2 ASP A 443 1555 1555 2.46 LINK MN MN A 1 OD2 ASP A 549 1555 1555 1.94 LINK MN MN A 2 O12 LP9 A 3 1555 1555 1.72 LINK MN MN A 2 OD1 ASP A 443 1555 1555 2.38 LINK MN MN A 2 OE2 GLU A 478 1555 1555 1.92 LINK MN MN A 2 OD1 ASP A 498 1555 1555 1.98 LINK O12 LP9 B 1 MN MN B 2 1555 1555 2.11 LINK O11 LP9 B 1 MN MN B 2 1555 1555 2.37 LINK O12 LP9 B 1 MN MN B 3 1555 1555 2.19 LINK N LP9 B 1 MN MN B 3 1555 1555 2.43 LINK MN MN B 2 OD1 ASP B 443 1555 1555 2.33 LINK MN MN B 2 OD2 ASP B 549 1555 1555 1.93 LINK MN MN B 3 OD2 ASP B 443 1555 1555 2.22 LINK MN MN B 3 OE1 GLU B 478 1555 1555 2.07 LINK MN MN B 3 OD2 ASP B 498 1555 1555 2.12 SITE 1 AC1 5 MN A 2 LP9 A 3 HOH A 4 ASP A 443 SITE 2 AC1 5 ASP A 549 SITE 1 AC2 5 MN A 1 LP9 A 3 ASP A 443 GLU A 478 SITE 2 AC2 5 ASP A 498 SITE 1 AC3 12 MN A 1 MN A 2 HOH A 4 ASP A 443 SITE 2 AC3 12 GLN A 475 GLU A 478 ASP A 498 HIS A 539 SITE 3 AC3 12 ASP A 549 SER A 553 GLN B 500 TRP B 535 SITE 1 AC4 10 GLN A 500 MN B 2 MN B 3 ASP B 443 SITE 2 AC4 10 ARG B 448 GLN B 475 GLU B 478 ASP B 498 SITE 3 AC4 10 HIS B 539 ASP B 549 SITE 1 AC5 4 LP9 B 1 HOH B 5 ASP B 443 ASP B 549 SITE 1 AC6 4 LP9 B 1 ASP B 443 GLU B 478 ASP B 498 CRYST1 51.256 51.256 112.773 90.00 90.00 120.00 P 31 6 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 0.019510 0.011264 0.000000 0.00000 SCALE2 0.000000 0.022528 0.000000 0.00000 SCALE3 0.000000 0.000000 0.008867 0.00000