PDB Short entry for 4HUM HEADER TRANSPORT PROTEIN 02-NOV-12 4HUM TITLE MATE TRANSPORTER NORM-NG IN COMPLEX WITH ETHIDIUM AND MONOBODY CAVEAT 4HUM ET 501 A LIGAND HAS REAL SPACE R VALUE 0.492 COMPND MOL_ID: 1; COMPND 2 MOLECULE: MULTIDRUG EFFLUX PROTEIN; COMPND 3 CHAIN: A; COMPND 4 ENGINEERED: YES; COMPND 5 MOL_ID: 2; COMPND 6 MOLECULE: PROTEIN B; COMPND 7 CHAIN: B; COMPND 8 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: NEISSERIA GONORRHOEAE; SOURCE 3 ORGANISM_TAXID: 940296; SOURCE 4 GENE: NGTW08_0430; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 7 MOL_ID: 2; SOURCE 8 ORGANISM_SCIENTIFIC: ESCHERICHIA COLI; SOURCE 9 ORGANISM_TAXID: 562; SOURCE 10 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 11 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS TRANSPORT PROTEIN EXPDTA X-RAY DIFFRACTION AUTHOR M.LU REVDAT 3 28-FEB-24 4HUM 1 REMARK SEQADV REVDAT 2 06-MAR-13 4HUM 1 JRNL REVDAT 1 06-FEB-13 4HUM 0 JRNL AUTH M.LU,J.SYMERSKY,M.RADCHENKO,A.KOIDE,Y.GUO,R.NIE,S.KOIDE JRNL TITL STRUCTURES OF A NA+-COUPLED, SUBSTRATE-BOUND MATE MULTIDRUG JRNL TITL 2 TRANSPORTER. JRNL REF PROC.NATL.ACAD.SCI.USA V. 110 2099 2013 JRNL REFN ISSN 0027-8424 JRNL PMID 23341609 JRNL DOI 10.1073/PNAS.1219901110 REMARK 2 REMARK 2 RESOLUTION. 3.49 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.6.0117 REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN REMARK 3 REMARK 3 REFINEMENT TARGET : MAXIMUM LIKELIHOOD WITH PHASES REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 3.49 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 20.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 99.1 REMARK 3 NUMBER OF REFLECTIONS : 22889 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) : 0.315 REMARK 3 R VALUE (WORKING SET) : 0.314 REMARK 3 FREE R VALUE : 0.331 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 1231 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) : 3.49 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 3.58 REMARK 3 REFLECTION IN BIN (WORKING SET) : 1330 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 89.48 REMARK 3 BIN R VALUE (WORKING SET) : 0.4820 REMARK 3 BIN FREE R VALUE SET COUNT : 74 REMARK 3 BIN FREE R VALUE : 0.4500 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 4215 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 24 REMARK 3 SOLVENT ATOMS : 0 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 194.9 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 8.15000 REMARK 3 B22 (A**2) : 8.15000 REMARK 3 B33 (A**2) : -12.23000 REMARK 3 B12 (A**2) : 4.08000 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): 0.947 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.508 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.563 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 86.677 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.912 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.906 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 4361 ; 0.013 ; 0.020 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 5941 ; 2.126 ; 1.960 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 548 ;12.591 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 151 ;36.011 ;21.788 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 658 ;26.187 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 20 ;21.639 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 670 ; 0.155 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 3252 ; 0.012 ; 0.021 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) OTHERS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): NULL ; NULL ; NULL 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): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL 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 : NULL REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 2 REMARK 3 REMARK 3 TLS GROUP : 1 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 5 A 463 REMARK 3 ORIGIN FOR THE GROUP (A): 7.8419 -49.5070 27.0258 REMARK 3 T TENSOR REMARK 3 T11: 0.0513 T22: 0.5153 REMARK 3 T33: 0.3006 T12: -0.1100 REMARK 3 T13: -0.0248 T23: -0.0151 REMARK 3 L TENSOR REMARK 3 L11: 1.2512 L22: 0.3926 REMARK 3 L33: 3.5501 L12: 0.5544 REMARK 3 L13: 1.5708 L23: 1.0635 REMARK 3 S TENSOR REMARK 3 S11: -0.0464 S12: 0.4320 S13: -0.0844 REMARK 3 S21: -0.0006 S22: -0.0054 S23: 0.0198 REMARK 3 S31: -0.1778 S32: 0.2878 S33: 0.0517 REMARK 3 REMARK 3 TLS GROUP : 2 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : B 1 B 91 REMARK 3 ORIGIN FOR THE GROUP (A): -32.1993 -60.3044 8.6660 REMARK 3 T TENSOR REMARK 3 T11: 0.0347 T22: 0.5236 REMARK 3 T33: 0.3229 T12: 0.1125 REMARK 3 T13: -0.0286 T23: -0.0916 REMARK 3 L TENSOR REMARK 3 L11: 1.1824 L22: 3.5069 REMARK 3 L33: 5.6857 L12: -0.9421 REMARK 3 L13: -2.1538 L23: -0.4667 REMARK 3 S TENSOR REMARK 3 S11: -0.0700 S12: -0.4322 S13: -0.1034 REMARK 3 S21: -0.0196 S22: 0.2044 S23: 0.2779 REMARK 3 S31: 0.0240 S32: 0.8723 S33: -0.1344 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 USED IF PRESENT IN REMARK 3 THE INPUT REMARK 4 REMARK 4 4HUM COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 07-NOV-12. REMARK 100 THE DEPOSITION ID IS D_1000075940. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 01-JAN-10 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 8 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : APS REMARK 200 BEAMLINE : 23-ID-D REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.0 REMARK 200 MONOCHROMATOR : 1 REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 1 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 24111 REMARK 200 RESOLUTION RANGE HIGH (A) : 3.490 REMARK 200 RESOLUTION RANGE LOW (A) : 60.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 3.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 98.9 REMARK 200 DATA REDUNDANCY : NULL REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : NULL REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : NULL REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : NULL REMARK 200 COMPLETENESS FOR SHELL (%) : NULL REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> FOR SHELL : NULL REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: AB INITIO PHASING REMARK 200 SOFTWARE USED: SHARP REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 83.96 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 7.67 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: PEG, PH 8, VAPOR DIFFUSION, REMARK 280 TEMPERATURE 300K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 32 2 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -Y,X-Y,Z+2/3 REMARK 290 3555 -X+Y,-X,Z+1/3 REMARK 290 4555 Y,X,-Z REMARK 290 5555 X-Y,-Y,-Z+1/3 REMARK 290 6555 -X,-X+Y,-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 151.65067 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 75.82533 REMARK 290 SMTRY1 4 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 4 0.866025 0.500000 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 0.00000 REMARK 290 SMTRY2 5 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 75.82533 REMARK 290 SMTRY1 6 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 6 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 151.65067 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 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 GLU B -7 REMARK 465 ASN B -6 REMARK 465 LEU B -5 REMARK 465 TYR B -4 REMARK 465 PHE B -3 REMARK 465 GLN B -2 REMARK 465 GLY B -1 REMARK 465 SER B 0 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 ALA A 137 O GLY A 199 1.71 REMARK 500 O ALA B 24 OG SER B 53 1.90 REMARK 500 O SER A 460 CD1 LEU B 8 1.98 REMARK 500 O LEU A 441 N TRP A 443 2.12 REMARK 500 O THR A 96 N GLN A 99 2.19 REMARK 500 O ILE A 254 N TYR A 258 2.19 REMARK 500 O TYR B 68 O ASN B 88 2.19 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 PRO A 166 C - N - CA ANGL. DEV. = -12.6 DEGREES REMARK 500 CYS A 444 CA - CB - SG ANGL. DEV. = 10.6 DEGREES REMARK 500 PRO B 15 C - N - CA ANGL. DEV. = 10.8 DEGREES REMARK 500 PRO B 15 C - N - CD ANGL. DEV. = -16.6 DEGREES REMARK 500 VAL B 30 CB - CA - C ANGL. DEV. = -11.9 DEGREES REMARK 500 TYR B 31 C - N - CA ANGL. DEV. = -15.2 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 ASP A 6 -50.20 -144.00 REMARK 500 PHE A 10 -96.61 -50.09 REMARK 500 SER A 11 77.94 -110.99 REMARK 500 LYS A 15 41.83 -158.80 REMARK 500 ILE A 17 -95.89 -136.98 REMARK 500 LEU A 20 -21.21 -37.72 REMARK 500 MET A 27 31.54 -84.13 REMARK 500 ASP A 41 -55.77 -26.73 REMARK 500 MET A 44 10.48 -144.65 REMARK 500 LEU A 58 -12.49 -46.88 REMARK 500 SER A 60 32.58 -64.11 REMARK 500 SER A 61 13.43 -148.76 REMARK 500 ALA A 64 20.23 -62.36 REMARK 500 TYR A 67 -96.08 -96.91 REMARK 500 ILE A 68 -30.80 -36.04 REMARK 500 MET A 71 -35.58 -38.29 REMARK 500 ILE A 73 -55.33 -23.45 REMARK 500 MET A 80 -68.92 -9.65 REMARK 500 ALA A 87 -130.34 -84.69 REMARK 500 THR A 90 11.41 -68.40 REMARK 500 LEU A 105 -25.65 160.32 REMARK 500 ILE A 119 67.06 -65.08 REMARK 500 THR A 120 51.77 -148.93 REMARK 500 PRO A 121 14.60 -62.67 REMARK 500 PHE A 122 65.89 -68.83 REMARK 500 TRP A 125 -30.03 -164.10 REMARK 500 LEU A 126 -152.89 -122.49 REMARK 500 SER A 129 -19.12 78.31 REMARK 500 ASP A 130 49.24 -155.47 REMARK 500 TYR A 131 -38.98 -170.63 REMARK 500 VAL A 132 -70.35 -63.96 REMARK 500 GLU A 133 143.02 70.39 REMARK 500 ALA A 137 40.13 -83.26 REMARK 500 TYR A 139 -53.77 3.02 REMARK 500 PHE A 142 -84.62 -61.26 REMARK 500 ALA A 149 -20.63 -34.19 REMARK 500 ALA A 155 4.72 -66.97 REMARK 500 ALA A 158 -70.19 -43.35 REMARK 500 SER A 161 36.75 -155.58 REMARK 500 LEU A 163 59.96 -110.36 REMARK 500 ASN A 164 71.85 164.98 REMARK 500 SER A 173 34.83 -66.04 REMARK 500 PHE A 174 -64.28 -125.41 REMARK 500 ALA A 175 25.28 -70.06 REMARK 500 ASN A 184 -58.45 -21.72 REMARK 500 TYR A 189 126.63 -175.09 REMARK 500 LYS A 191 -156.00 -87.53 REMARK 500 PHE A 192 -30.61 -36.31 REMARK 500 MET A 194 52.65 -67.22 REMARK 500 PRO A 195 28.11 -68.92 REMARK 500 REMARK 500 THIS ENTRY HAS 154 RAMACHANDRAN OUTLIERS. 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 ALA A 54 ALA A 55 130.42 REMARK 500 GLN A 138 TYR A 139 138.54 REMARK 500 MET A 194 PRO A 195 -143.84 REMARK 500 LEU A 215 ALA A 216 145.02 REMARK 500 TYR A 220 ILE A 221 145.62 REMARK 500 PHE A 226 PHE A 227 145.00 REMARK 500 THR A 338 VAL A 339 146.80 REMARK 500 LEU A 387 ARG A 388 150.00 REMARK 500 LEU A 452 VAL A 453 148.87 REMARK 500 GLU B 27 TYR B 28 133.26 REMARK 500 SER B 76 TYR B 77 149.98 REMARK 500 REMARK 500 REMARK: NULL REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ET A 501 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 4HUK RELATED DB: PDB REMARK 900 RELATED ID: 4HUL RELATED DB: PDB REMARK 900 RELATED ID: 4HUN RELATED DB: PDB DBREF 4HUM A 5 459 UNP E8SM44 E8SM44_NEIGO 5 459 DBREF 4HUM B -7 91 PDB 4HUM 4HUM -7 91 SEQADV 4HUM SER A 460 UNP E8SM44 EXPRESSION TAG SEQADV 4HUM SER A 461 UNP E8SM44 EXPRESSION TAG SEQADV 4HUM GLY A 462 UNP E8SM44 EXPRESSION TAG SEQADV 4HUM LEU A 463 UNP E8SM44 EXPRESSION TAG SEQRES 1 A 459 LEU ASP ARG PHE SER PHE SER VAL PHE LEU LYS GLU ILE SEQRES 2 A 459 ARG LEU LEU THR ALA LEU ALA LEU PRO MET LEU LEU ALA SEQRES 3 A 459 GLN VAL ALA GLN VAL GLY ILE GLY PHE VAL ASP THR VAL SEQRES 4 A 459 MET ALA GLY GLY ALA GLY LYS GLU ASP LEU ALA ALA VAL SEQRES 5 A 459 ALA LEU GLY SER SER ALA PHE ALA THR VAL TYR ILE THR SEQRES 6 A 459 PHE MET GLY ILE MET ALA ALA LEU ASN PRO MET ILE ALA SEQRES 7 A 459 GLN LEU TYR GLY ALA GLY LYS THR GLY GLU ALA GLY GLU SEQRES 8 A 459 THR GLY ARG GLN GLY ILE TRP PHE GLY LEU ILE LEU GLY SEQRES 9 A 459 ILE PHE GLY MET ILE LEU MET TRP ALA ALA ILE THR PRO SEQRES 10 A 459 PHE ARG ASN TRP LEU THR LEU SER ASP TYR VAL GLU GLY SEQRES 11 A 459 THR MET ALA GLN TYR MET LEU PHE THR SER LEU ALA MET SEQRES 12 A 459 PRO ALA ALA MET VAL HIS ARG ALA LEU HIS ALA TYR ALA SEQRES 13 A 459 SER SER LEU ASN ARG PRO ARG LEU ILE MET LEU VAL SER SEQRES 14 A 459 PHE ALA ALA PHE VAL LEU ASN VAL PRO LEU ASN TYR ILE SEQRES 15 A 459 PHE VAL TYR GLY LYS PHE GLY MET PRO ALA LEU GLY GLY SEQRES 16 A 459 ALA GLY CYS GLY VAL ALA THR MET ALA VAL PHE TRP PHE SEQRES 17 A 459 SER ALA LEU ALA LEU TRP ILE TYR ILE ALA LYS GLU LYS SEQRES 18 A 459 PHE PHE ARG PRO PHE GLY LEU THR ALA LYS PHE GLY LYS SEQRES 19 A 459 PRO ASP TRP ALA VAL PHE LYS GLN ILE TRP LYS ILE GLY SEQRES 20 A 459 ALA PRO ILE GLY LEU SER TYR PHE LEU GLU ALA SER ALA SEQRES 21 A 459 PHE SER PHE ILE VAL PHE LEU ILE ALA PRO PHE GLY GLU SEQRES 22 A 459 ASP TYR VAL ALA ALA GLN GLN VAL GLY ILE SER LEU SER SEQRES 23 A 459 GLY ILE LEU TYR MET ILE PRO GLN SER VAL GLY SER ALA SEQRES 24 A 459 GLY THR VAL ARG ILE GLY PHE SER LEU GLY ARG ARG GLU SEQRES 25 A 459 PHE SER ARG ALA ARG TYR ILE SER GLY VAL SER LEU VAL SEQRES 26 A 459 SER GLY TRP VAL LEU ALA VAL ILE THR VAL LEU SER LEU SEQRES 27 A 459 VAL LEU PHE ARG SER PRO LEU ALA SER MET TYR ASN ASP SEQRES 28 A 459 ASP PRO ALA VAL LEU SER ILE ALA SER THR VAL LEU LEU SEQRES 29 A 459 PHE ALA GLY LEU PHE GLN PRO ALA ASP PHE THR GLN CYS SEQRES 30 A 459 ILE ALA SER TYR ALA LEU ARG GLY TYR LYS VAL THR LYS SEQRES 31 A 459 VAL PRO MET PHE ILE HIS ALA ALA ALA PHE TRP GLY CYS SEQRES 32 A 459 GLY LEU LEU PRO GLY TYR LEU LEU ALA TYR ARG PHE ASP SEQRES 33 A 459 MET GLY ILE TYR GLY PHE TRP THR ALA LEU ILE ALA SER SEQRES 34 A 459 LEU THR ILE ALA ALA VAL ALA LEU VAL TRP CYS LEU GLU SEQRES 35 A 459 LYS TYR SER MET GLU LEU VAL LYS SER HIS LYS ALA VAL SEQRES 36 A 459 SER SER GLY LEU SEQRES 1 B 99 GLU ASN LEU TYR PHE GLN GLY SER VAL SER SER VAL PRO SEQRES 2 B 99 THR LYS LEU GLU VAL VAL ALA ALA THR PRO THR SER LEU SEQRES 3 B 99 LEU ILE SER TRP ASP ALA ARG GLY GLU TYR VAL VAL TYR SEQRES 4 B 99 TYR ARG ILE THR TYR GLY GLU THR GLY GLY ASN SER PRO SEQRES 5 B 99 VAL GLN GLU PHE THR VAL PRO GLY SER SER SER THR ALA SEQRES 6 B 99 THR ILE SER GLY LEU SER PRO GLY VAL ASP TYR THR ILE SEQRES 7 B 99 THR VAL TYR ALA ARG SER TYR TYR TRP GLY TRP TYR SER SEQRES 8 B 99 PRO ILE SER ILE ASN TYR ARG THR HET ET A 501 24 HETNAM ET ETHIDIUM FORMUL 3 ET C21 H20 N3 1+ HELIX 1 1 LEU A 28 VAL A 32 5 5 HELIX 2 2 GLN A 34 PHE A 39 1 6 HELIX 3 3 VAL A 40 ALA A 45 5 6 HELIX 4 4 ALA A 64 ALA A 76 1 13 HELIX 5 5 PRO A 79 LEU A 84 1 6 HELIX 6 6 GLY A 91 GLY A 104 1 14 HELIX 7 7 LEU A 107 ILE A 119 1 13 HELIX 8 8 GLN A 138 SER A 144 1 7 HELIX 9 9 ALA A 150 ALA A 158 1 9 HELIX 10 10 TYR A 159 SER A 162 5 4 HELIX 11 11 LEU A 168 SER A 173 1 6 HELIX 12 12 ALA A 176 TYR A 189 1 14 HELIX 13 13 ALA A 200 LEU A 215 1 16 HELIX 14 14 ALA A 216 ILE A 221 5 6 HELIX 15 15 PHE A 244 LEU A 256 1 13 HELIX 16 16 GLY A 276 ALA A 281 1 6 HELIX 17 17 ALA A 282 LEU A 293 1 12 HELIX 18 18 PRO A 297 SER A 299 5 3 HELIX 19 19 VAL A 300 ARG A 314 1 15 HELIX 20 20 SER A 324 TRP A 332 1 9 HELIX 21 21 VAL A 333 THR A 338 1 6 HELIX 22 22 VAL A 339 LEU A 344 1 6 HELIX 23 23 LEU A 368 PHE A 373 1 6 HELIX 24 24 GLN A 374 ALA A 383 1 10 HELIX 25 25 SER A 384 LEU A 387 5 4 HELIX 26 26 ILE A 436 CYS A 444 1 9 SHEET 1 A 4 GLY B 37 GLU B 38 0 SHEET 2 A 4 TYR B 68 TYR B 73 -1 O THR B 69 N GLY B 37 SHEET 3 A 4 TYR B 32 ILE B 34 -1 N ARG B 33 O TYR B 73 SHEET 4 A 4 PHE B 48 VAL B 50 -1 O VAL B 50 N TYR B 32 SHEET 1 B 3 GLY B 37 GLU B 38 0 SHEET 2 B 3 TYR B 68 TYR B 73 -1 O THR B 69 N GLY B 37 SHEET 3 B 3 PRO B 84 ILE B 87 -1 O ILE B 87 N ILE B 70 SITE 1 AC1 6 ASP A 41 SER A 61 PHE A 265 SER A 288 SITE 2 AC1 6 ASP A 355 ASP A 356 CRYST1 119.026 119.026 227.476 90.00 90.00 120.00 P 32 2 1 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 0.008402 0.004851 0.000000 0.00000 SCALE2 0.000000 0.009701 0.000000 0.00000 SCALE3 0.000000 0.000000 0.004396 0.00000