HEADER SIGNALING PROTEIN 21-SEP-16 5LXI TITLE GABARAP-L1 ATG4B LIR COMPLEX COMPND MOL_ID: 1; COMPND 2 MOLECULE: GAMMA-AMINOBUTYRIC ACID RECEPTOR-ASSOCIATED PROTEIN-LIKE 1; COMPND 3 CHAIN: D, B; COMPND 4 SYNONYM: EARLY ESTROGEN-REGULATED PROTEIN,GABA(A) RECEPTOR-ASSOCIATED COMPND 5 PROTEIN-LIKE 1,GLANDULAR EPITHELIAL CELL PROTEIN 1,GEC-1; COMPND 6 ENGINEERED: YES; COMPND 7 MOL_ID: 2; COMPND 8 MOLECULE: CYSTEINE PROTEASE ATG4B; COMPND 9 CHAIN: C, E; COMPND 10 FRAGMENT: UNP RESIDUES 384-393; COMPND 11 SYNONYM: AUT-LIKE 1 CYSTEINE ENDOPEPTIDASE,AUTOPHAGIN-1,AUTOPHAGY- COMPND 12 RELATED CYSTEINE ENDOPEPTIDASE 1,AUTOPHAGY-RELATED PROTEIN 4 HOMOLOG COMPND 13 B,HAPG4B; COMPND 14 EC: 3.4.22.-; COMPND 15 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 3 ORGANISM_COMMON: HUMAN; SOURCE 4 ORGANISM_TAXID: 9606; SOURCE 5 GENE: GABARAPL1, GEC1; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 7 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 8 EXPRESSION_SYSTEM_VARIANT: ROSETTA PLYSS; SOURCE 9 MOL_ID: 2; SOURCE 10 SYNTHETIC: YES; SOURCE 11 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 12 ORGANISM_COMMON: HUMAN; SOURCE 13 ORGANISM_TAXID: 9606 KEYWDS LIR, GABARAP, ATG8, LC3, SIGNALING PROTEIN EXPDTA X-RAY DIFFRACTION AUTHOR S.MOUILLERON,M.SKYTTE RASMUSSEN,B.KUMAR SHRESTHA,M.WIRTH,K.BOWITZ AUTHOR 2 LARSEN,Y.ABUDU PRINCELY,E.SJOTTEM,S.TOOZE,T.LAMARK,T.JOHANSEN,R.LEE REVDAT 4 17-JAN-24 5LXI 1 LINK REVDAT 3 31-MAY-17 5LXI 1 JRNL REVDAT 2 22-MAR-17 5LXI 1 JRNL REVDAT 1 08-FEB-17 5LXI 0 JRNL AUTH M.SKYTTE RASMUSSEN,S.MOUILLERON,B.KUMAR SHRESTHA,M.WIRTH, JRNL AUTH 2 R.LEE,K.BOWITZ LARSEN,Y.ABUDU PRINCELY,N.O'REILLY,E.SJTTEM, JRNL AUTH 3 S.A.TOOZE,T.LAMARK,T.JOHANSEN JRNL TITL ATG4B CONTAINS A C-TERMINAL LIR MOTIF IMPORTANT FOR BINDING JRNL TITL 2 AND EFFICIENT CLEAVAGE OF MAMMALIAN ORTHOLOGS OF YEAST ATG8. JRNL REF AUTOPHAGY V. 13 834 2017 JRNL REFN ESSN 1554-8635 JRNL PMID 28287329 JRNL DOI 10.1080/15548627.2017.1287651 REMARK 2 REMARK 2 RESOLUTION. 1.44 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX (1.10.1_2155: ???) REMARK 3 AUTHORS : PAUL ADAMS,PAVEL AFONINE,VINCENT CHEN,IAN REMARK 3 : DAVIS,KRESHNA GOPAL,RALF GROSSE-KUNSTLEVE, REMARK 3 : LI-WEI HUNG,ROBERT IMMORMINO,TOM IOERGER, REMARK 3 : AIRLIE MCCOY,ERIK MCKEE,NIGEL MORIARTY, REMARK 3 : REETAL PAI,RANDY READ,JANE RICHARDSON, REMARK 3 : DAVID RICHARDSON,TOD ROMO,JIM SACCHETTINI, REMARK 3 : NICHOLAS SAUTER,JACOB SMITH,LAURENT REMARK 3 : STORONI,TOM TERWILLIGER,PETER ZWART REMARK 3 REMARK 3 REFINEMENT TARGET : ML REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.44 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 31.21 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.350 REMARK 3 COMPLETENESS FOR RANGE (%) : 95.0 REMARK 3 NUMBER OF REFLECTIONS : 46205 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.199 REMARK 3 R VALUE (WORKING SET) : 0.197 REMARK 3 FREE R VALUE : 0.230 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.900 REMARK 3 FREE R VALUE TEST SET COUNT : 2265 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT (IN BINS). REMARK 3 BIN RESOLUTION RANGE COMPL. NWORK NFREE RWORK RFREE REMARK 3 1 31.2147 - 3.6268 0.97 2848 178 0.1644 0.1717 REMARK 3 2 3.6268 - 2.8794 0.98 2846 152 0.1755 0.1942 REMARK 3 3 2.8794 - 2.5156 0.97 2821 127 0.1899 0.2292 REMARK 3 4 2.5156 - 2.2856 0.97 2798 169 0.1896 0.2453 REMARK 3 5 2.2856 - 2.1219 0.97 2776 154 0.1832 0.2596 REMARK 3 6 2.1219 - 1.9968 0.96 2806 138 0.1772 0.2295 REMARK 3 7 1.9968 - 1.8968 0.96 2731 165 0.1895 0.2485 REMARK 3 8 1.8968 - 1.8142 0.95 2735 163 0.2001 0.2709 REMARK 3 9 1.8142 - 1.7444 0.95 2777 121 0.2192 0.2644 REMARK 3 10 1.7444 - 1.6842 0.94 2706 124 0.2342 0.2806 REMARK 3 11 1.6842 - 1.6316 0.94 2754 124 0.2487 0.3345 REMARK 3 12 1.6316 - 1.5849 0.94 2683 138 0.2753 0.3242 REMARK 3 13 1.5849 - 1.5432 0.93 2667 116 0.3014 0.3563 REMARK 3 14 1.5432 - 1.5055 0.92 2676 138 0.3102 0.3381 REMARK 3 15 1.5055 - 1.4713 0.92 2668 118 0.3285 0.4055 REMARK 3 16 1.4713 - 1.4400 0.92 2648 140 0.3637 0.4177 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : FLAT BULK SOLVENT MODEL REMARK 3 SOLVENT RADIUS : 1.11 REMARK 3 SHRINKAGE RADIUS : 0.90 REMARK 3 K_SOL : NULL REMARK 3 B_SOL : NULL REMARK 3 REMARK 3 ERROR ESTIMATES. REMARK 3 COORDINATE ERROR (MAXIMUM-LIKELIHOOD BASED) : 0.230 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 32.480 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : NULL REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : NULL REMARK 3 B22 (A**2) : NULL REMARK 3 B33 (A**2) : NULL REMARK 3 B12 (A**2) : NULL REMARK 3 B13 (A**2) : NULL REMARK 3 B23 (A**2) : NULL REMARK 3 REMARK 3 TWINNING INFORMATION. REMARK 3 FRACTION: NULL REMARK 3 OPERATOR: NULL REMARK 3 REMARK 3 DEVIATIONS FROM IDEAL VALUES. REMARK 3 RMSD COUNT REMARK 3 BOND : 0.014 2252 REMARK 3 ANGLE : 1.159 3056 REMARK 3 CHIRALITY : 0.101 313 REMARK 3 PLANARITY : 0.008 399 REMARK 3 DIHEDRAL : 22.708 875 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : NULL REMARK 3 REMARK 3 NCS DETAILS REMARK 3 NUMBER OF NCS GROUPS : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 5LXI COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 22-SEP-16. REMARK 100 THE DEPOSITION ID IS D_1200001530. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 08-OCT-15 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 : DIAMOND REMARK 200 BEAMLINE : I03 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.976 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS3 6M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XIA2 REMARK 200 DATA SCALING SOFTWARE : XIA2 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 46217 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.440 REMARK 200 RESOLUTION RANGE LOW (A) : 35.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 96.0 REMARK 200 DATA REDUNDANCY : 3.100 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : 0.03800 REMARK 200 FOR THE DATA SET : 10.1000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.44 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.47 REMARK 200 COMPLETENESS FOR SHELL (%) : 93.7 REMARK 200 DATA REDUNDANCY IN SHELL : 3.00 REMARK 200 R MERGE FOR SHELL (I) : 0.35000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 1.300 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: 2R2Q REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 42.78 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.15 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.1 M MGCL2, 24.6 % PEG 400, 29.5 % REMARK 280 PEG 8000, 0.1M TRIS 8.5, VAPOR DIFFUSION, SITTING DROP, REMARK 280 TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: C 1 2 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,Y,-Z REMARK 290 3555 X+1/2,Y+1/2,Z REMARK 290 4555 -X+1/2,Y+1/2,-Z REMARK 290 REMARK 290 WHERE NNN -> OPERATOR NUMBER REMARK 290 MMM -> TRANSLATION VECTOR REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY TRANSFORMATIONS REMARK 290 THE FOLLOWING TRANSFORMATIONS OPERATE ON THE ATOM/HETATM REMARK 290 RECORDS IN THIS ENTRY TO PRODUCE CRYSTALLOGRAPHICALLY REMARK 290 RELATED MOLECULES. REMARK 290 SMTRY1 1 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 1 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 1 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 2 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 2 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 3 1.000000 0.000000 0.000000 62.44400 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 36.18850 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 62.44400 REMARK 290 SMTRY2 4 0.000000 1.000000 0.000000 36.18850 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: TETRAMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TETRAMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 4850 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 13700 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -22.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: D, B, C, E REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 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 D -5 REMARK 465 PRO D -4 REMARK 465 THR D -3 REMARK 465 MET D -2 REMARK 465 GLY D -1 REMARK 465 SER D 0 REMARK 465 GLY B -5 REMARK 465 PRO B -4 REMARK 465 THR B -3 REMARK 465 MET B -2 REMARK 465 GLY B -1 REMARK 465 SER B 0 REMARK 465 LYS B 117 REMARK 465 GLU E 384 REMARK 465 ASP E 385 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 MET D 1 CG SD CE REMARK 470 LYS D 2 CG CD CE NZ REMARK 470 GLU D 7 CG CD OE1 OE2 REMARK 470 LYS D 23 CG CD CE NZ REMARK 470 LYS D 24 CG CD CE NZ REMARK 470 GLU D 96 CD OE1 OE2 REMARK 470 GLU D 101 CG CD OE1 OE2 REMARK 470 LYS D 117 CG CD CE NZ REMARK 470 MET B 1 CG SD CE REMARK 470 LYS B 2 CG CD CE NZ REMARK 470 LYS B 16 CG CD CE NZ REMARK 470 GLU B 19 CG CD OE1 OE2 REMARK 470 LYS B 20 NZ REMARK 470 LYS B 23 CG CD CE NZ REMARK 470 LYS B 24 CG CD CE NZ REMARK 470 LYS B 66 CE NZ REMARK 470 GLU B 112 CD OE1 OE2 REMARK 470 ASP C 385 CG OD1 OD2 REMARK 470 ASP E 387 CG OD1 OD2 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 O4 PEG B 203 O HOH B 301 2.14 REMARK 500 O HOH D 335 O HOH D 338 2.14 REMARK 500 NH2 ARG D 67 O HOH D 301 2.16 REMARK 500 OE1 GLU D 112 O HOH D 302 2.19 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 D 40 65.67 -102.30 REMARK 500 ARG B 40 51.68 -99.78 REMARK 500 HIS B 69 32.75 71.20 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 MG D 201 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HOH D 304 O REMARK 620 2 HOH D 317 O 86.9 REMARK 620 3 HOH D 340 O 89.1 94.0 REMARK 620 4 HOH D 343 O 93.5 88.2 176.7 REMARK 620 5 HOH D 348 O 87.5 172.2 91.4 86.7 REMARK 620 N 1 2 3 4 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG B 202 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP B 54 OD2 REMARK 620 2 HOH B 302 O 85.1 REMARK 620 3 HOH B 306 O 102.0 89.0 REMARK 620 4 HOH B 323 O 85.6 169.5 88.1 REMARK 620 5 HOH B 332 O 94.4 92.4 163.6 93.2 REMARK 620 6 SEP C 392 O1P 72.8 70.2 33.8 102.3 158.8 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG B 201 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HOH B 308 O REMARK 620 2 HOH B 313 O 106.9 REMARK 620 3 HOH B 320 O 75.4 176.7 REMARK 620 4 HOH B 336 O 164.0 84.1 93.2 REMARK 620 N 1 2 3 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue MG D 201 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue PGE D 202 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue PGE D 203 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue EDO D 204 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue PER D 205 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue PER D 206 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue MG B 201 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue MG B 202 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue PEG B 203 DBREF 5LXI D 1 117 UNP Q9H0R8 GBRL1_HUMAN 1 117 DBREF 5LXI B 1 117 UNP Q9H0R8 GBRL1_HUMAN 1 117 DBREF 5LXI C 384 393 UNP Q9Y4P1 ATG4B_HUMAN 384 393 DBREF 5LXI E 384 393 UNP Q9Y4P1 ATG4B_HUMAN 384 393 SEQADV 5LXI GLY D -5 UNP Q9H0R8 EXPRESSION TAG SEQADV 5LXI PRO D -4 UNP Q9H0R8 EXPRESSION TAG SEQADV 5LXI THR D -3 UNP Q9H0R8 EXPRESSION TAG SEQADV 5LXI MET D -2 UNP Q9H0R8 EXPRESSION TAG SEQADV 5LXI GLY D -1 UNP Q9H0R8 EXPRESSION TAG SEQADV 5LXI SER D 0 UNP Q9H0R8 EXPRESSION TAG SEQADV 5LXI GLY B -5 UNP Q9H0R8 EXPRESSION TAG SEQADV 5LXI PRO B -4 UNP Q9H0R8 EXPRESSION TAG SEQADV 5LXI THR B -3 UNP Q9H0R8 EXPRESSION TAG SEQADV 5LXI MET B -2 UNP Q9H0R8 EXPRESSION TAG SEQADV 5LXI GLY B -1 UNP Q9H0R8 EXPRESSION TAG SEQADV 5LXI SER B 0 UNP Q9H0R8 EXPRESSION TAG SEQRES 1 D 123 GLY PRO THR MET GLY SER MET LYS PHE GLN TYR LYS GLU SEQRES 2 D 123 ASP HIS PRO PHE GLU TYR ARG LYS LYS GLU GLY GLU LYS SEQRES 3 D 123 ILE ARG LYS LYS TYR PRO ASP ARG VAL PRO VAL ILE VAL SEQRES 4 D 123 GLU LYS ALA PRO LYS ALA ARG VAL PRO ASP LEU ASP LYS SEQRES 5 D 123 ARG LYS TYR LEU VAL PRO SER ASP LEU THR VAL GLY GLN SEQRES 6 D 123 PHE TYR PHE LEU ILE ARG LYS ARG ILE HIS LEU ARG PRO SEQRES 7 D 123 GLU ASP ALA LEU PHE PHE PHE VAL ASN ASN THR ILE PRO SEQRES 8 D 123 PRO THR SER ALA THR MET GLY GLN LEU TYR GLU ASP ASN SEQRES 9 D 123 HIS GLU GLU ASP TYR PHE LEU TYR VAL ALA TYR SER ASP SEQRES 10 D 123 GLU SER VAL TYR GLY LYS SEQRES 1 B 123 GLY PRO THR MET GLY SER MET LYS PHE GLN TYR LYS GLU SEQRES 2 B 123 ASP HIS PRO PHE GLU TYR ARG LYS LYS GLU GLY GLU LYS SEQRES 3 B 123 ILE ARG LYS LYS TYR PRO ASP ARG VAL PRO VAL ILE VAL SEQRES 4 B 123 GLU LYS ALA PRO LYS ALA ARG VAL PRO ASP LEU ASP LYS SEQRES 5 B 123 ARG LYS TYR LEU VAL PRO SER ASP LEU THR VAL GLY GLN SEQRES 6 B 123 PHE TYR PHE LEU ILE ARG LYS ARG ILE HIS LEU ARG PRO SEQRES 7 B 123 GLU ASP ALA LEU PHE PHE PHE VAL ASN ASN THR ILE PRO SEQRES 8 B 123 PRO THR SER ALA THR MET GLY GLN LEU TYR GLU ASP ASN SEQRES 9 B 123 HIS GLU GLU ASP TYR PHE LEU TYR VAL ALA TYR SER ASP SEQRES 10 B 123 GLU SER VAL TYR GLY LYS SEQRES 1 C 10 GLU ASP GLU ASP PHE GLU ILE LEU SEP LEU SEQRES 1 E 10 GLU ASP GLU ASP PHE GLU ILE LEU SEP LEU MODRES 5LXI SEP C 392 SER MODIFIED RESIDUE MODRES 5LXI SEP E 392 SER MODIFIED RESIDUE HET SEP C 392 10 HET SEP E 392 10 HET MG D 201 1 HET PGE D 202 10 HET PGE D 203 10 HET EDO D 204 4 HET PER D 205 2 HET PER D 206 2 HET MG B 201 1 HET MG B 202 1 HET PEG B 203 7 HETNAM SEP PHOSPHOSERINE HETNAM MG MAGNESIUM ION HETNAM PGE TRIETHYLENE GLYCOL HETNAM EDO 1,2-ETHANEDIOL HETNAM PER PEROXIDE ION HETNAM PEG DI(HYDROXYETHYL)ETHER HETSYN SEP PHOSPHONOSERINE HETSYN EDO ETHYLENE GLYCOL FORMUL 3 SEP 2(C3 H8 N O6 P) FORMUL 5 MG 3(MG 2+) FORMUL 6 PGE 2(C6 H14 O4) FORMUL 8 EDO C2 H6 O2 FORMUL 9 PER 2(O2 2-) FORMUL 13 PEG C4 H10 O3 FORMUL 14 HOH *100(H2 O) HELIX 1 AA1 PHE D 3 HIS D 9 1 7 HELIX 2 AA2 PRO D 10 TYR D 25 1 16 HELIX 3 AA3 THR D 56 HIS D 69 1 14 HELIX 4 AA4 THR D 90 HIS D 99 1 10 HELIX 5 AA5 PHE B 3 HIS B 9 1 7 HELIX 6 AA6 PRO B 10 TYR B 25 1 16 HELIX 7 AA7 THR B 56 ILE B 68 1 13 HELIX 8 AA8 THR B 90 HIS B 99 1 10 SHEET 1 AA1 5 PHE D 77 PHE D 79 0 SHEET 2 AA1 5 LEU D 105 SER D 110 -1 O ALA D 108 N PHE D 79 SHEET 3 AA1 5 ARG D 28 LYS D 35 1 N ILE D 32 O LEU D 105 SHEET 4 AA1 5 LYS D 48 PRO D 52 -1 O VAL D 51 N VAL D 29 SHEET 5 AA1 5 GLU C 389 ILE C 390 1 O GLU C 389 N LEU D 50 SHEET 1 AA2 5 PHE B 77 PHE B 79 0 SHEET 2 AA2 5 LEU B 105 SER B 110 -1 O ALA B 108 N PHE B 79 SHEET 3 AA2 5 ARG B 28 LYS B 35 1 N ILE B 32 O VAL B 107 SHEET 4 AA2 5 LYS B 48 PRO B 52 -1 O TYR B 49 N VAL B 31 SHEET 5 AA2 5 GLU E 389 ILE E 390 1 O GLU E 389 N LEU B 50 LINK C LEU C 391 N SEP C 392 1555 1555 1.32 LINK C SEP C 392 N LEU C 393 1555 1555 1.33 LINK C LEU E 391 N SEP E 392 1555 1555 1.32 LINK C SEP E 392 N LEU E 393 1555 1555 1.32 LINK MG MG D 201 O HOH D 304 1555 1555 2.13 LINK MG MG D 201 O HOH D 317 1555 1555 2.09 LINK MG MG D 201 O HOH D 340 1555 1555 2.18 LINK MG MG D 201 O HOH D 343 1555 1555 2.01 LINK MG MG D 201 O HOH D 348 1555 1554 2.06 LINK OD2 ASP B 54 MG MG B 202 1555 1555 2.03 LINK MG MG B 201 O HOH B 308 1555 1555 2.05 LINK MG MG B 201 O HOH B 313 1555 1555 1.94 LINK MG MG B 201 O HOH B 320 1555 1555 2.34 LINK MG MG B 201 O HOH B 336 1555 1555 2.16 LINK MG MG B 202 O HOH B 302 1555 1555 2.21 LINK MG MG B 202 O HOH B 306 1555 1555 2.17 LINK MG MG B 202 O HOH B 323 1555 1555 2.04 LINK MG MG B 202 O HOH B 332 1555 1555 1.96 LINK MG MG B 202 O1P SEP C 392 4555 1555 2.31 SITE 1 AC1 7 ASP D 45 HIS D 69 HOH D 304 HOH D 317 SITE 2 AC1 7 HOH D 340 HOH D 343 HOH D 348 SITE 1 AC2 10 TYR D 61 ARG D 65 ALA D 75 LEU D 76 SITE 2 AC2 10 PHE D 77 PHE D 78 ILE D 84 THR D 87 SITE 3 AC2 10 PGE D 203 HOH D 323 SITE 1 AC3 11 VAL D 57 TYR D 61 ARG D 65 ALA D 75 SITE 2 AC3 11 PHE D 77 ILE D 84 PRO D 85 THR D 87 SITE 3 AC3 11 PGE D 202 HOH D 323 HOH D 339 SITE 1 AC4 4 GLN D 59 PHE D 62 LEU D 63 HOH D 310 SITE 1 AC5 5 ARG B 28 TYR D 25 PRO D 26 ASP D 27 SITE 2 AC5 5 ARG D 28 SITE 1 AC6 5 TYR B 25 PRO B 26 ASP B 27 ARG B 28 SITE 2 AC6 5 ARG D 28 SITE 1 AC7 6 HIS B 69 ASN B 98 HOH B 308 HOH B 313 SITE 2 AC7 6 HOH B 320 HOH B 336 SITE 1 AC8 6 ASP B 54 HOH B 302 HOH B 306 HOH B 323 SITE 2 AC8 6 HOH B 332 SEP C 392 SITE 1 AC9 5 TYR B 61 ALA B 75 PHE B 77 THR B 87 SITE 2 AC9 5 HOH B 301 CRYST1 124.888 72.377 30.620 90.00 99.21 90.00 C 1 2 1 8 ORIGX1 1.000000 0.000000 0.000000 0.00000 ORIGX2 0.000000 1.000000 0.000000 0.00000 ORIGX3 0.000000 0.000000 1.000000 0.00000 SCALE1 0.008007 0.000000 0.001299 0.00000 SCALE2 0.000000 0.013817 0.000000 0.00000 SCALE3 0.000000 0.000000 0.033085 0.00000