HEADER MEMBRANE TRANSPORT 07-NOV-06 2J9E TITLE STRUCTURE OF GLNK1 WITH BOUND EFFECTORS INDICATES REGULATORY MECHANISM TITLE 2 FOR AMMONIA UPTAKE COMPND MOL_ID: 1; COMPND 2 MOLECULE: HYPOTHETICAL NITROGEN REGULATORY PII-LIKE PROTEIN MJ0059; COMPND 3 CHAIN: A, B, C; COMPND 4 SYNONYM: GLNK1; COMPND 5 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: METHANOCOCCUS JANNASCHII; SOURCE 3 ORGANISM_TAXID: 2190; SOURCE 4 STRAIN: AMJFT37; SOURCE 5 ATCC: 625482; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PET28-D2 KEYWDS EM SINGLE PARTICLE, NITROGEN METABOLISM, SIGNALLING, TRANSCRIPTION, KEYWDS 2 MEMBRANE TRANSPORT, HYPOTHETICAL PROTEIN, TRANSCRIPTION REGULATION EXPDTA X-RAY DIFFRACTION AUTHOR O.YILDIZ,C.KALTHOFF,S.RAUNSER,W.KUEHLBRANDT REVDAT 4 13-DEC-23 2J9E 1 REMARK LINK REVDAT 3 22-DEC-09 2J9E 1 VERSN REVDAT 2 24-FEB-09 2J9E 1 VERSN REVDAT 1 16-JAN-07 2J9E 0 JRNL AUTH O.YILDIZ,C.KALTHOFF,S.RAUNSER,W.KUHLBRANDT JRNL TITL STRUCTURE OF GLNK1 WITH BOUND EFFECTORS INDICATES REGULATORY JRNL TITL 2 MECHANISM FOR AMMONIA UPTAKE. JRNL REF EMBO J. V. 26 589 2007 JRNL REFN ISSN 0261-4189 JRNL PMID 17203075 JRNL DOI 10.1038/SJ.EMBOJ.7601492 REMARK 2 REMARK 2 RESOLUTION. 1.62 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.2.0019 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) : 1.62 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 19.89 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 3 NUMBER OF REFLECTIONS : 45308 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) : 0.144 REMARK 3 R VALUE (WORKING SET) : 0.142 REMARK 3 FREE R VALUE : 0.190 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 2385 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) : 1.62 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.67 REMARK 3 REFLECTION IN BIN (WORKING SET) : 2419 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : NULL REMARK 3 BIN R VALUE (WORKING SET) : 0.1260 REMARK 3 BIN FREE R VALUE SET COUNT : 128 REMARK 3 BIN FREE R VALUE : 0.1650 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2688 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 113 REMARK 3 SOLVENT ATOMS : 392 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 20.48 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.47000 REMARK 3 B22 (A**2) : 0.03000 REMARK 3 B33 (A**2) : -0.50000 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): 0.109 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.085 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.056 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 3.498 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.970 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.951 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 2973 ; 0.013 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): 2078 ; 0.002 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 4050 ; 1.636 ; 2.043 REMARK 3 BOND ANGLES OTHERS (DEGREES): 5138 ; 0.939 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 389 ; 5.872 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 123 ;37.794 ;24.715 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 597 ;14.982 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 25 ;11.440 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 472 ; 0.087 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 3204 ; 0.005 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 530 ; 0.001 ; 0.020 REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 578 ; 0.226 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): 2351 ; 0.218 ; 0.200 REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 1410 ; 0.167 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): 1725 ; 0.084 ; 0.200 REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 329 ; 0.182 ; 0.200 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): 19 ; 0.318 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): 54 ; 0.278 ; 0.200 REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 27 ; 0.199 ; 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): 1783 ; 2.193 ; 3.000 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 2929 ; 3.364 ; 4.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1211 ; 4.208 ; 5.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1097 ; 6.010 ; 7.000 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 : NULL REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : BABINET MODEL WITH MASK REMARK 3 PARAMETERS FOR MASK CALCULATION REMARK 3 VDW PROBE RADIUS : 1.40 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 2J9E COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 07-NOV-06. REMARK 100 THE DEPOSITION ID IS D_1290030449. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 09-DEC-05 REMARK 200 TEMPERATURE (KELVIN) : 100.0 REMARK 200 PH : 4.60 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SLS REMARK 200 BEAMLINE : X10SA REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9765 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MARRESEARCH REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : XSCALE REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 47704 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.600 REMARK 200 RESOLUTION RANGE LOW (A) : 30.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 8.600 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 92.0 REMARK 200 DATA REDUNDANCY : 9.400 REMARK 200 R MERGE (I) : 0.03000 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 27.8000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.60 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.70 REMARK 200 COMPLETENESS FOR SHELL (%) : 57.7 REMARK 200 DATA REDUNDANCY IN SHELL : 6.50 REMARK 200 R MERGE FOR SHELL (I) : 0.16000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 8.600 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHASER REMARK 200 STARTING MODEL: PDB ENTRY 2J9C REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 49.13 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.42 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: PH 4.60 REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 21 21 21 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X+1/2,-Y,Z+1/2 REMARK 290 3555 -X,Y+1/2,-Z+1/2 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 30.20000 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 41.10000 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 38.90000 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 41.10000 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 30.20000 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 38.90000 REMARK 290 SMTRY3 4 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: TRIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TRIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 11740 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 15130 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -91.1 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, 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 ARG A 47 REMARK 465 GLY A 48 REMARK 465 ARG A 49 REMARK 465 GLU A 50 REMARK 465 HIS A 115 REMARK 465 HIS A 116 REMARK 465 HIS A 117 REMARK 465 HIS C 115 REMARK 465 HIS C 116 REMARK 465 HIS C 117 REMARK 470 REMARK 470 MISSING ATOM REMARK 470 THE FOLLOWING RESIDUES HAVE MISSING ATOMS (M=MODEL NUMBER; REMARK 470 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 470 I=INSERTION CODE): REMARK 470 M RES CSSEQI ATOMS REMARK 470 ARG A 45 CG CD NE CZ NH1 NH2 REMARK 470 LEU A 113 CG CD1 CD2 REMARK 470 GLU A 114 CG CD OE1 OE2 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 OE1 GLU C 5 O HOH C 2010 1.96 REMARK 500 NZ LYS C 34 O HOH C 2045 2.03 REMARK 500 O5 AKG C 1119 O HOH C 2143 2.04 REMARK 500 OE2 GLU C 14 O HOH C 2024 2.09 REMARK 500 O2G ATP A 1115 O HOH A 2105 2.13 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 LEU C 63 CA - CB - CG ANGL. DEV. = 14.0 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 ARG A 45 116.00 176.64 REMARK 500 VAL C 53 -31.22 -132.17 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 GLN B 39 GLY B 40 40.00 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 NA B1119 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU B 14 OE1 REMARK 620 2 GLU B 14 OE2 49.2 REMARK 620 3 HOH C2087 O 141.0 127.6 REMARK 620 N 1 2 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG C1116 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ATP C1115 O1A REMARK 620 2 ATP C1115 O2B 87.7 REMARK 620 3 ATP C1115 O3G 88.0 91.3 REMARK 620 4 HOH C2052 O 94.4 88.9 177.6 REMARK 620 5 HOH C2066 O 92.4 174.5 94.2 85.6 REMARK 620 6 HOH C2137 O 175.1 89.3 88.2 89.4 91.0 REMARK 620 N 1 2 3 4 5 REMARK 700 REMARK 700 SHEET REMARK 700 THE SHEET STRUCTURE OF THIS MOLECULE IS BIFURCATED. IN REMARK 700 ORDER TO REPRESENT THIS FEATURE IN THE SHEET RECORDS BELOW, REMARK 700 TWO SHEETS ARE DEFINED. REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ACT A 1116 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CL A 1117 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CL A 1118 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NA B 1119 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG C 1116 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CL C 1117 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CL C 1118 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ATP A 1115 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ATP B 1118 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ATP C 1115 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE AKG C 1119 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 2J9C RELATED DB: PDB REMARK 900 STRUCTURE OF GLNK1 WITH BOUND EFFECTORS INDICATES REGULATORY REMARK 900 MECHANISM FOR AMMONIA UPTAKE REMARK 900 RELATED ID: 2J9D RELATED DB: PDB REMARK 900 STRUCTURE OF GLNK1 WITH BOUND EFFECTORS INDICATES REGULATORY REMARK 900 MECHANISM FOR AMMONIA UPTAKE DBREF 2J9E A -1 0 PDB 2J9E 2J9E -1 0 DBREF 2J9E A 1 112 UNP Q60381 Y059_METJA 1 112 DBREF 2J9E A 113 117 PDB 2J9E 2J9E 113 117 DBREF 2J9E B -1 0 PDB 2J9E 2J9E -1 0 DBREF 2J9E B 1 112 UNP Q60381 Y059_METJA 1 112 DBREF 2J9E B 113 117 PDB 2J9E 2J9E 113 117 DBREF 2J9E C -1 0 PDB 2J9E 2J9E -1 0 DBREF 2J9E C 1 112 UNP Q60381 Y059_METJA 1 112 DBREF 2J9E C 113 117 PDB 2J9E 2J9E 113 117 SEQRES 1 A 119 GLY SER MET LYS LYS VAL GLU ALA ILE ILE ARG PRO GLU SEQRES 2 A 119 LYS LEU GLU ILE VAL LYS LYS ALA LEU SER ASP ALA GLY SEQRES 3 A 119 TYR VAL GLY MET THR VAL SER GLU VAL LYS GLY ARG GLY SEQRES 4 A 119 VAL GLN GLY GLY ILE VAL GLU ARG TYR ARG GLY ARG GLU SEQRES 5 A 119 TYR ILE VAL ASP LEU ILE PRO LYS VAL LYS ILE GLU LEU SEQRES 6 A 119 VAL VAL LYS GLU GLU ASP VAL ASP ASN VAL ILE ASP ILE SEQRES 7 A 119 ILE CYS GLU ASN ALA ARG THR GLY ASN PRO GLY ASP GLY SEQRES 8 A 119 LYS ILE PHE VAL ILE PRO VAL GLU ARG VAL VAL ARG VAL SEQRES 9 A 119 ARG THR LYS GLU GLU GLY LYS GLU ALA LEU LEU GLU HIS SEQRES 10 A 119 HIS HIS SEQRES 1 B 119 GLY SER MET LYS LYS VAL GLU ALA ILE ILE ARG PRO GLU SEQRES 2 B 119 LYS LEU GLU ILE VAL LYS LYS ALA LEU SER ASP ALA GLY SEQRES 3 B 119 TYR VAL GLY MET THR VAL SER GLU VAL LYS GLY ARG GLY SEQRES 4 B 119 VAL GLN GLY GLY ILE VAL GLU ARG TYR ARG GLY ARG GLU SEQRES 5 B 119 TYR ILE VAL ASP LEU ILE PRO LYS VAL LYS ILE GLU LEU SEQRES 6 B 119 VAL VAL LYS GLU GLU ASP VAL ASP ASN VAL ILE ASP ILE SEQRES 7 B 119 ILE CYS GLU ASN ALA ARG THR GLY ASN PRO GLY ASP GLY SEQRES 8 B 119 LYS ILE PHE VAL ILE PRO VAL GLU ARG VAL VAL ARG VAL SEQRES 9 B 119 ARG THR LYS GLU GLU GLY LYS GLU ALA LEU LEU GLU HIS SEQRES 10 B 119 HIS HIS SEQRES 1 C 119 GLY SER MET LYS LYS VAL GLU ALA ILE ILE ARG PRO GLU SEQRES 2 C 119 LYS LEU GLU ILE VAL LYS LYS ALA LEU SER ASP ALA GLY SEQRES 3 C 119 TYR VAL GLY MET THR VAL SER GLU VAL LYS GLY ARG GLY SEQRES 4 C 119 VAL GLN GLY GLY ILE VAL GLU ARG TYR ARG GLY ARG GLU SEQRES 5 C 119 TYR ILE VAL ASP LEU ILE PRO LYS VAL LYS ILE GLU LEU SEQRES 6 C 119 VAL VAL LYS GLU GLU ASP VAL ASP ASN VAL ILE ASP ILE SEQRES 7 C 119 ILE CYS GLU ASN ALA ARG THR GLY ASN PRO GLY ASP GLY SEQRES 8 C 119 LYS ILE PHE VAL ILE PRO VAL GLU ARG VAL VAL ARG VAL SEQRES 9 C 119 ARG THR LYS GLU GLU GLY LYS GLU ALA LEU LEU GLU HIS SEQRES 10 C 119 HIS HIS HET ATP A1115 31 HET ACT A1116 4 HET CL A1117 1 HET CL A1118 1 HET ATP B1118 31 HET NA B1119 1 HET ATP C1115 31 HET MG C1116 1 HET CL C1117 1 HET CL C1118 1 HET AKG C1119 10 HETNAM ATP ADENOSINE-5'-TRIPHOSPHATE HETNAM ACT ACETATE ION HETNAM CL CHLORIDE ION HETNAM NA SODIUM ION HETNAM MG MAGNESIUM ION HETNAM AKG 2-OXOGLUTARIC ACID FORMUL 4 ATP 3(C10 H16 N5 O13 P3) FORMUL 5 ACT C2 H3 O2 1- FORMUL 6 CL 4(CL 1-) FORMUL 9 NA NA 1+ FORMUL 11 MG MG 2+ FORMUL 14 AKG C5 H6 O5 FORMUL 15 HOH *392(H2 O) HELIX 1 1 ARG A 9 GLU A 11 5 3 HELIX 2 2 LYS A 12 ALA A 23 1 12 HELIX 3 3 ASP A 69 ARG A 82 1 14 HELIX 4 4 GLY A 108 LEU A 113 5 6 HELIX 5 5 ARG B 9 GLU B 11 5 3 HELIX 6 6 LYS B 12 ALA B 23 1 12 HELIX 7 7 ASP B 69 ARG B 82 1 14 HELIX 8 8 GLY B 108 LEU B 113 5 6 HELIX 9 9 LYS C 12 ALA C 23 1 12 HELIX 10 10 ASP C 69 ARG C 82 1 14 HELIX 11 11 LYS C 109 LEU C 113 5 5 SHEET 1 AA 6 ARG A 98 ARG A 101 0 SHEET 2 AA 6 LYS B 90 VAL B 96 -1 O ILE B 91 N VAL A 100 SHEET 3 AA 6 MET B 1 ILE B 8 -1 O MET B 1 N VAL B 96 SHEET 4 AA 6 ILE B 56 LYS B 66 -1 O VAL B 59 N ILE B 8 SHEET 5 AA 6 MET B 28 ARG B 36 -1 O THR B 29 N GLU B 62 SHEET 6 AA 6 MET A 28 ARG A 36 1 O MET A 28 N ARG B 36 SHEET 1 AB 6 ARG A 98 ARG A 101 0 SHEET 2 AB 6 LYS B 90 VAL B 96 -1 O ILE B 91 N VAL A 100 SHEET 3 AB 6 MET B 1 ILE B 8 -1 O MET B 1 N VAL B 96 SHEET 4 AB 6 ILE B 56 LYS B 66 -1 O VAL B 59 N ILE B 8 SHEET 5 AB 6 MET B 28 ARG B 36 -1 O THR B 29 N GLU B 62 SHEET 6 AB 6 MET C 28 ARG C 36 -1 O LYS C 34 N VAL B 30 SHEET 1 AC 2 ILE A 42 VAL A 43 0 SHEET 2 AC 2 ILE A 52 VAL A 53 -1 O VAL A 53 N ILE A 42 SHEET 1 BA 2 VAL B 43 TYR B 46 0 SHEET 2 BA 2 ARG B 49 ILE B 52 -1 O ARG B 49 N TYR B 46 SHEET 1 CA 2 ARG C 45 TYR C 46 0 SHEET 2 CA 2 ARG C 49 GLU C 50 -1 O ARG C 49 N TYR C 46 LINK OE1 GLU B 14 NA NA B1119 1555 1555 2.54 LINK OE2 GLU B 14 NA NA B1119 1555 1555 2.75 LINK NA NA B1119 O HOH C2087 1555 1555 1.97 LINK O1A ATP C1115 MG MG C1116 1555 1555 2.11 LINK O2B ATP C1115 MG MG C1116 1555 1555 2.07 LINK O3G ATP C1115 MG MG C1116 1555 1555 2.03 LINK MG MG C1116 O HOH C2052 1555 1555 2.11 LINK MG MG C1116 O HOH C2066 1555 1555 2.08 LINK MG MG C1116 O HOH C2137 1555 1555 2.08 CISPEP 1 GLU A 44 ARG A 45 0 -5.50 CISPEP 2 ARG A 45 TYR A 46 0 -5.57 CISPEP 3 GLY B 40 GLY B 41 0 -5.63 CISPEP 4 GLY B 41 ILE B 42 0 -2.16 SITE 1 AC1 6 GLU A 14 HOH A2111 HOH A2112 GLU B 79 SITE 2 AC1 6 ILE C 15 LYS C 18 SITE 1 AC2 3 LYS A 3 LYS B 3 LYS C 3 SITE 1 AC3 2 ARG A 103 ARG B 82 SITE 1 AC4 3 GLU B 14 LYS B 17 HOH C2087 SITE 1 AC5 4 ATP C1115 HOH C2052 HOH C2066 HOH C2137 SITE 1 AC6 6 HOH A2005 LYS C 3 GLU C 5 LYS C 60 SITE 2 AC6 6 GLU C 62 HOH C2010 SITE 1 AC7 2 ARG B 103 GLY C 84 SITE 1 AC8 29 ILE A 7 GLY A 35 ARG A 36 GLY A 37 SITE 2 AC8 29 VAL A 38 GLN A 39 LYS A 58 PRO A 86 SITE 3 AC8 29 GLY A 87 ASP A 88 GLY A 89 LYS A 90 SITE 4 AC8 29 HOH A2083 HOH A2103 HOH A2104 HOH A2105 SITE 5 AC8 29 HOH A2106 HOH A2107 HOH A2108 HOH A2109 SITE 6 AC8 29 HOH A2110 GLY C 27 MET C 28 THR C 29 SITE 7 AC8 29 GLU C 62 LEU C 63 VAL C 64 ARG C 101 SITE 8 AC8 29 ARG C 103 SITE 1 AC9 24 GLY A 27 MET A 28 THR A 29 GLU A 62 SITE 2 AC9 24 LEU A 63 VAL A 64 ARG A 101 ARG A 103 SITE 3 AC9 24 ILE B 7 GLY B 35 ARG B 36 GLY B 37 SITE 4 AC9 24 VAL B 38 GLN B 39 LYS B 58 PRO B 86 SITE 5 AC9 24 GLY B 87 ASP B 88 GLY B 89 LYS B 90 SITE 6 AC9 24 HOH B2105 HOH B2135 HOH B2136 HOH B2137 SITE 1 BC1 27 GLY B 27 MET B 28 THR B 29 GLU B 62 SITE 2 BC1 27 VAL B 64 ARG B 101 ARG B 103 HIS B 115 SITE 3 BC1 27 ILE C 7 GLY C 35 ARG C 36 GLY C 37 SITE 4 BC1 27 VAL C 38 LYS C 58 PRO C 86 GLY C 87 SITE 5 BC1 27 ASP C 88 GLY C 89 LYS C 90 MG C1116 SITE 6 BC1 27 HOH C2052 HOH C2065 HOH C2066 HOH C2137 SITE 7 BC1 27 HOH C2138 HOH C2139 HOH C2140 SITE 1 BC2 8 GLU C 50 TYR C 51 ILE C 52 VAL C 53 SITE 2 BC2 8 ASP C 54 HOH C2141 HOH C2142 HOH C2143 CRYST1 60.400 77.800 82.200 90.00 90.00 90.00 P 21 21 21 12 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 0.016556 0.000000 0.000000 0.00000 SCALE2 0.000000 0.012853 0.000000 0.00000 SCALE3 0.000000 0.000000 0.012165 0.00000