PDB Short entry for 1NBF HEADER HYDROLASE 02-DEC-02 1NBF TITLE CRYSTAL STRUCTURE OF A UBP-FAMILY DEUBIQUITINATING ENZYME IN ISOLATION TITLE 2 AND IN COMPLEX WITH UBIQUITIN ALDEHYDE COMPND MOL_ID: 1; COMPND 2 MOLECULE: UBIQUITIN CARBOXYL-TERMINAL HYDROLASE 7; COMPND 3 CHAIN: A, B, E; COMPND 4 FRAGMENT: HAUSP CORE DOMAIN; COMPND 5 SYNONYM: DEUBIQUITINATING ENZYME 7; COMPND 6 EC: 3.1.2.15; COMPND 7 ENGINEERED: YES; COMPND 8 MOL_ID: 2; COMPND 9 MOLECULE: UBIQUITIN ALDEHYDE; COMPND 10 CHAIN: C, D; COMPND 11 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: USP7; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_PLASMID: PGEX-2T; SOURCE 9 MOL_ID: 2; SOURCE 10 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 11 ORGANISM_COMMON: HUMAN; SOURCE 12 ORGANISM_TAXID: 9606; SOURCE 13 GENE: UBA52; SOURCE 14 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 15 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS DEUBIQUITINATING ENZYME, HAUSP, UBIQUITIN BINDING, CATALYTIC KEYWDS 2 MECHANISMS OF UPBS, HYDROLASE EXPDTA X-RAY DIFFRACTION AUTHOR M.HU,P.LI,M.LI,W.LI,T.YAO,J.-W.WU,W.GU,R.E.COHEN,Y.SHI REVDAT 3 03-OCT-18 1NBF 1 REMARK REVDAT 2 24-FEB-09 1NBF 1 VERSN REVDAT 1 07-JAN-03 1NBF 0 JRNL AUTH M.HU,P.LI,M.LI,W.LI,T.YAO,J.-W.WU,W.GU,R.E.COHEN,Y.SHI JRNL TITL CRYSTAL STRUCTURE OF A UBP-FAMILY DEUBIQUITINATING ENZYME IN JRNL TITL 2 ISOLATION AND IN COMPLEX WITH UBIQUITIN ALDEHYDE JRNL REF CELL(CAMBRIDGE,MASS.) V. 111 1041 2002 JRNL REFN ISSN 0092-8674 JRNL PMID 12507430 JRNL DOI 10.1016/S0092-8674(02)01199-6 REMARK 2 REMARK 2 RESOLUTION. 2.30 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : CNS REMARK 3 AUTHORS : BRUNGER,ADAMS,CLORE,DELANO,GROS,GROSSE- REMARK 3 : KUNSTLEVE,JIANG,KUSZEWSKI,NILGES,PANNU, REMARK 3 : READ,RICE,SIMONSON,WARREN REMARK 3 REMARK 3 REFINEMENT TARGET : ENGH & HUBER REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.30 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 20.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 DATA CUTOFF HIGH (ABS(F)) : NULL REMARK 3 DATA CUTOFF LOW (ABS(F)) : NULL REMARK 3 COMPLETENESS (WORKING+TEST) (%) : NULL REMARK 3 NUMBER OF REFLECTIONS : 59279 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 CROSS-VALIDATION METHOD : NULL REMARK 3 FREE R VALUE TEST SET SELECTION : RANDOM REMARK 3 R VALUE (WORKING SET) : 0.218 REMARK 3 FREE R VALUE : 0.262 REMARK 3 FREE R VALUE TEST SET SIZE (%) : NULL REMARK 3 FREE R VALUE TEST SET COUNT : 5997 REMARK 3 ESTIMATED ERROR OF FREE R VALUE : NULL REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : NULL REMARK 3 BIN RESOLUTION RANGE HIGH (A) : NULL REMARK 3 BIN RESOLUTION RANGE LOW (A) : NULL REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : NULL REMARK 3 REFLECTIONS IN BIN (WORKING SET) : NULL REMARK 3 BIN R VALUE (WORKING SET) : NULL REMARK 3 BIN FREE R VALUE : NULL REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : NULL REMARK 3 BIN FREE R VALUE TEST SET COUNT : NULL REMARK 3 ESTIMATED ERROR OF BIN FREE R VALUE : NULL REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 9602 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 0 REMARK 3 SOLVENT ATOMS : 374 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 ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM LUZZATI PLOT (A) : NULL REMARK 3 ESD FROM SIGMAA (A) : NULL REMARK 3 LOW RESOLUTION CUTOFF (A) : NULL REMARK 3 REMARK 3 CROSS-VALIDATED ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM C-V LUZZATI PLOT (A) : NULL REMARK 3 ESD FROM C-V SIGMAA (A) : NULL REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 BOND LENGTHS (A) : 0.008 REMARK 3 BOND ANGLES (DEGREES) : NULL REMARK 3 DIHEDRAL ANGLES (DEGREES) : NULL REMARK 3 IMPROPER ANGLES (DEGREES) : NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL MODEL : 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 BULK SOLVENT MODELING. REMARK 3 METHOD USED : NULL REMARK 3 KSOL : NULL REMARK 3 BSOL : NULL REMARK 3 REMARK 3 NCS MODEL : NULL REMARK 3 REMARK 3 NCS RESTRAINTS. RMS SIGMA/WEIGHT REMARK 3 GROUP 1 POSITIONAL (A) : NULL ; NULL REMARK 3 GROUP 1 B-FACTOR (A**2) : NULL ; NULL REMARK 3 REMARK 3 PARAMETER FILE 1 : NULL REMARK 3 TOPOLOGY FILE 1 : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 1NBF COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 10-DEC-02. REMARK 100 THE DEPOSITION ID IS D_1000017738. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 10-SEP-02 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 5.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : NSLS REMARK 200 BEAMLINE : X25 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 : MIRRORS REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 4 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 64563 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.300 REMARK 200 RESOLUTION RANGE LOW (A) : 99.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.7 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) : 2.30 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.35 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.8 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: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: AMORE REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 51.56 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.54 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: PEG3000, CITRATE, PH 5.5, VAPOR REMARK 280 DIFFUSION, HANGING DROP, TEMPERATURE 296K 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 49.86400 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 70.56700 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 50.58300 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 70.56700 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 49.86400 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 50.58300 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 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 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: 3650 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 19020 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -6.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, D 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: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 3760 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 18730 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -3.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: 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 350 REMARK 350 BIOMOLECULE: 3 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: MONOMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 APPLY THE FOLLOWING TO CHAINS: 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 ARG A 555 REMARK 465 LYS A 556 REMARK 465 GLU A 557 REMARK 465 ARG A 558 REMARK 465 GLN A 559 REMARK 465 GLU A 560 REMARK 465 ARG B 555 REMARK 465 LYS B 556 REMARK 465 GLU B 557 REMARK 465 ARG B 558 REMARK 465 GLN B 559 REMARK 465 GLU B 560 REMARK 465 TYR E 411 REMARK 465 ASP E 412 REMARK 465 PRO E 413 REMARK 465 GLN E 414 REMARK 465 THR E 415 REMARK 465 ASP E 416 REMARK 465 GLN E 417 REMARK 465 ARG E 555 REMARK 465 LYS E 556 REMARK 465 GLU E 557 REMARK 465 ARG E 558 REMARK 465 GLN E 559 REMARK 465 GLU E 560 REMARK 480 REMARK 480 ZERO OCCUPANCY ATOM REMARK 480 THE FOLLOWING RESIDUES HAVE ATOMS MODELED WITH ZERO REMARK 480 OCCUPANCY. THE LOCATION AND PROPERTIES OF THESE ATOMS REMARK 480 MAY NOT BE RELIABLE. (M=MODEL NUMBER; RES=RESIDUE NAME; REMARK 480 C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE): REMARK 480 M RES C SSEQI ATOMS REMARK 480 GLU C 324 CG CD OE1 OE2 REMARK 480 ARG C 354 CG CD NE CZ NH1 NH2 REMARK 480 GLU D 324 CG CD OE1 OE2 REMARK 480 ARG D 354 CG CD NE CZ NH1 NH2 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 ASN E 418 OD1 ASN E 460 2.17 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 471 C - N - CA ANGL. DEV. = 10.4 DEGREES REMARK 500 LEU A 505 CA - CB - CG ANGL. DEV. = 15.1 DEGREES REMARK 500 LYS A 554 N - CA - C ANGL. DEV. = -23.3 DEGREES REMARK 500 GLY B 382 N - CA - C ANGL. DEV. = -16.3 DEGREES REMARK 500 HIS B 384 N - CA - C ANGL. DEV. = -20.3 DEGREES REMARK 500 PRO B 471 C - N - CA ANGL. DEV. = 9.5 DEGREES REMARK 500 PRO E 471 C - N - CA ANGL. DEV. = 9.3 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 THR A 211 -37.01 -136.58 REMARK 500 SER A 252 3.01 -55.77 REMARK 500 SER A 270 170.10 -59.38 REMARK 500 MET A 407 63.64 -65.03 REMARK 500 ARG A 408 42.60 -80.72 REMARK 500 GLN A 414 41.11 -93.69 REMARK 500 THR A 415 -7.83 176.94 REMARK 500 ASP A 444 73.19 -157.52 REMARK 500 ASP A 482 -118.60 51.33 REMARK 500 ILE A 494 -91.29 -98.93 REMARK 500 ASP A 503 -8.49 67.38 REMARK 500 ILE A 550 -14.40 -48.03 REMARK 500 ALA A 552 -77.78 -108.60 REMARK 500 GLN A 553 -3.03 -58.25 REMARK 500 THR B 211 -20.60 50.29 REMARK 500 GLU B 336 34.85 -97.88 REMARK 500 ARG B 343 105.85 -166.39 REMARK 500 MET B 407 64.15 -69.95 REMARK 500 ARG B 408 45.57 -81.67 REMARK 500 ASP B 482 -120.85 57.12 REMARK 500 ILE B 494 -94.99 -102.03 REMARK 500 ASP B 502 43.89 -91.72 REMARK 500 LEU B 505 39.77 -148.53 REMARK 500 SER B 506 -155.88 -101.48 REMARK 500 GLN B 553 31.00 -74.68 REMARK 500 THR C 307 -177.09 -68.04 REMARK 500 LEU C 371 -144.88 -102.63 REMARK 500 LEU D 371 -145.26 -109.82 REMARK 500 TYR E 213 -159.72 43.82 REMARK 500 VAL E 214 148.40 178.26 REMARK 500 LYS E 217 -143.97 -92.13 REMARK 500 ASN E 218 45.36 -149.65 REMARK 500 GLN E 219 92.23 -69.43 REMARK 500 ALA E 221 67.16 -103.15 REMARK 500 CYS E 223 -110.18 58.65 REMARK 500 THR E 235 48.43 -103.58 REMARK 500 ASN E 236 -65.08 -15.50 REMARK 500 MET E 244 20.18 -79.91 REMARK 500 PRO E 246 70.62 -65.50 REMARK 500 ASP E 251 95.91 -65.29 REMARK 500 SER E 252 79.52 -55.69 REMARK 500 SER E 253 -56.45 172.26 REMARK 500 HIS E 269 -56.63 -139.58 REMARK 500 SER E 282 -73.75 -35.81 REMARK 500 TRP E 285 64.33 -67.56 REMARK 500 ASP E 289 40.90 -93.43 REMARK 500 THR E 314 -163.71 -111.83 REMARK 500 THR E 319 27.65 -66.67 REMARK 500 ILE E 320 -58.56 -126.44 REMARK 500 ASP E 338 0.42 -68.23 REMARK 500 REMARK 500 THIS ENTRY HAS 72 RAMACHANDRAN OUTLIERS. REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1NB8 RELATED DB: PDB DBREF 1NBF A 208 560 UNP Q93009 UBP7_HUMAN 208 560 DBREF 1NBF B 208 560 UNP Q93009 UBP7_HUMAN 208 560 DBREF 1NBF E 208 560 UNP Q93009 UBP7_HUMAN 208 560 DBREF 1NBF C 301 376 UNP P62988 UBIQ_HUMAN 1 76 DBREF 1NBF D 301 376 UNP P62988 UBIQ_HUMAN 1 76 SEQADV 1NBF GLZ C 376 UNP P62988 GLY 76 MODIFIED RESIDUE SEQADV 1NBF GLZ D 376 UNP P62988 GLY 76 MODIFIED RESIDUE SEQRES 1 A 353 LYS LYS HIS THR GLY TYR VAL GLY LEU LYS ASN GLN GLY SEQRES 2 A 353 ALA THR CYS TYR MET ASN SER LEU LEU GLN THR LEU PHE SEQRES 3 A 353 PHE THR ASN GLN LEU ARG LYS ALA VAL TYR MET MET PRO SEQRES 4 A 353 THR GLU GLY ASP ASP SER SER LYS SER VAL PRO LEU ALA SEQRES 5 A 353 LEU GLN ARG VAL PHE TYR GLU LEU GLN HIS SER ASP LYS SEQRES 6 A 353 PRO VAL GLY THR LYS LYS LEU THR LYS SER PHE GLY TRP SEQRES 7 A 353 GLU THR LEU ASP SER PHE MET GLN HIS ASP VAL GLN GLU SEQRES 8 A 353 LEU CYS ARG VAL LEU LEU ASP ASN VAL GLU ASN LYS MET SEQRES 9 A 353 LYS GLY THR CYS VAL GLU GLY THR ILE PRO LYS LEU PHE SEQRES 10 A 353 ARG GLY LYS MET VAL SER TYR ILE GLN CYS LYS GLU VAL SEQRES 11 A 353 ASP TYR ARG SER ASP ARG ARG GLU ASP TYR TYR ASP ILE SEQRES 12 A 353 GLN LEU SER ILE LYS GLY LYS LYS ASN ILE PHE GLU SER SEQRES 13 A 353 PHE VAL ASP TYR VAL ALA VAL GLU GLN LEU ASP GLY ASP SEQRES 14 A 353 ASN LYS TYR ASP ALA GLY GLU HIS GLY LEU GLN GLU ALA SEQRES 15 A 353 GLU LYS GLY VAL LYS PHE LEU THR LEU PRO PRO VAL LEU SEQRES 16 A 353 HIS LEU GLN LEU MET ARG PHE MET TYR ASP PRO GLN THR SEQRES 17 A 353 ASP GLN ASN ILE LYS ILE ASN ASP ARG PHE GLU PHE PRO SEQRES 18 A 353 GLU GLN LEU PRO LEU ASP GLU PHE LEU GLN LYS THR ASP SEQRES 19 A 353 PRO LYS ASP PRO ALA ASN TYR ILE LEU HIS ALA VAL LEU SEQRES 20 A 353 VAL HIS SER GLY ASP ASN HIS GLY GLY HIS TYR VAL VAL SEQRES 21 A 353 TYR LEU ASN PRO LYS GLY ASP GLY LYS TRP CYS LYS PHE SEQRES 22 A 353 ASP ASP ASP VAL VAL SER ARG CYS THR LYS GLU GLU ALA SEQRES 23 A 353 ILE GLU HIS ASN TYR GLY GLY HIS ASP ASP ASP LEU SER SEQRES 24 A 353 VAL ARG HIS CYS THR ASN ALA TYR MET LEU VAL TYR ILE SEQRES 25 A 353 ARG GLU SER LYS LEU SER GLU VAL LEU GLN ALA VAL THR SEQRES 26 A 353 ASP HIS ASP ILE PRO GLN GLN LEU VAL GLU ARG LEU GLN SEQRES 27 A 353 GLU GLU LYS ARG ILE GLU ALA GLN LYS ARG LYS GLU ARG SEQRES 28 A 353 GLN GLU SEQRES 1 B 353 LYS LYS HIS THR GLY TYR VAL GLY LEU LYS ASN GLN GLY SEQRES 2 B 353 ALA THR CYS TYR MET ASN SER LEU LEU GLN THR LEU PHE SEQRES 3 B 353 PHE THR ASN GLN LEU ARG LYS ALA VAL TYR MET MET PRO SEQRES 4 B 353 THR GLU GLY ASP ASP SER SER LYS SER VAL PRO LEU ALA SEQRES 5 B 353 LEU GLN ARG VAL PHE TYR GLU LEU GLN HIS SER ASP LYS SEQRES 6 B 353 PRO VAL GLY THR LYS LYS LEU THR LYS SER PHE GLY TRP SEQRES 7 B 353 GLU THR LEU ASP SER PHE MET GLN HIS ASP VAL GLN GLU SEQRES 8 B 353 LEU CYS ARG VAL LEU LEU ASP ASN VAL GLU ASN LYS MET SEQRES 9 B 353 LYS GLY THR CYS VAL GLU GLY THR ILE PRO LYS LEU PHE SEQRES 10 B 353 ARG GLY LYS MET VAL SER TYR ILE GLN CYS LYS GLU VAL SEQRES 11 B 353 ASP TYR ARG SER ASP ARG ARG GLU ASP TYR TYR ASP ILE SEQRES 12 B 353 GLN LEU SER ILE LYS GLY LYS LYS ASN ILE PHE GLU SER SEQRES 13 B 353 PHE VAL ASP TYR VAL ALA VAL GLU GLN LEU ASP GLY ASP SEQRES 14 B 353 ASN LYS TYR ASP ALA GLY GLU HIS GLY LEU GLN GLU ALA SEQRES 15 B 353 GLU LYS GLY VAL LYS PHE LEU THR LEU PRO PRO VAL LEU SEQRES 16 B 353 HIS LEU GLN LEU MET ARG PHE MET TYR ASP PRO GLN THR SEQRES 17 B 353 ASP GLN ASN ILE LYS ILE ASN ASP ARG PHE GLU PHE PRO SEQRES 18 B 353 GLU GLN LEU PRO LEU ASP GLU PHE LEU GLN LYS THR ASP SEQRES 19 B 353 PRO LYS ASP PRO ALA ASN TYR ILE LEU HIS ALA VAL LEU SEQRES 20 B 353 VAL HIS SER GLY ASP ASN HIS GLY GLY HIS TYR VAL VAL SEQRES 21 B 353 TYR LEU ASN PRO LYS GLY ASP GLY LYS TRP CYS LYS PHE SEQRES 22 B 353 ASP ASP ASP VAL VAL SER ARG CYS THR LYS GLU GLU ALA SEQRES 23 B 353 ILE GLU HIS ASN TYR GLY GLY HIS ASP ASP ASP LEU SER SEQRES 24 B 353 VAL ARG HIS CYS THR ASN ALA TYR MET LEU VAL TYR ILE SEQRES 25 B 353 ARG GLU SER LYS LEU SER GLU VAL LEU GLN ALA VAL THR SEQRES 26 B 353 ASP HIS ASP ILE PRO GLN GLN LEU VAL GLU ARG LEU GLN SEQRES 27 B 353 GLU GLU LYS ARG ILE GLU ALA GLN LYS ARG LYS GLU ARG SEQRES 28 B 353 GLN GLU SEQRES 1 C 76 MET GLN ILE PHE VAL LYS THR LEU THR GLY LYS THR ILE SEQRES 2 C 76 THR LEU GLU VAL GLU PRO SER ASP THR ILE GLU ASN VAL SEQRES 3 C 76 LYS ALA LYS ILE GLN ASP LYS GLU GLY ILE PRO PRO ASP SEQRES 4 C 76 GLN GLN ARG LEU ILE PHE ALA GLY LYS GLN LEU GLU ASP SEQRES 5 C 76 GLY ARG THR LEU SER ASP TYR ASN ILE GLN LYS GLU SER SEQRES 6 C 76 THR LEU HIS LEU VAL LEU ARG LEU ARG GLY GLZ SEQRES 1 D 76 MET GLN ILE PHE VAL LYS THR LEU THR GLY LYS THR ILE SEQRES 2 D 76 THR LEU GLU VAL GLU PRO SER ASP THR ILE GLU ASN VAL SEQRES 3 D 76 LYS ALA LYS ILE GLN ASP LYS GLU GLY ILE PRO PRO ASP SEQRES 4 D 76 GLN GLN ARG LEU ILE PHE ALA GLY LYS GLN LEU GLU ASP SEQRES 5 D 76 GLY ARG THR LEU SER ASP TYR ASN ILE GLN LYS GLU SER SEQRES 6 D 76 THR LEU HIS LEU VAL LEU ARG LEU ARG GLY GLZ SEQRES 1 E 353 LYS LYS HIS THR GLY TYR VAL GLY LEU LYS ASN GLN GLY SEQRES 2 E 353 ALA THR CYS TYR MET ASN SER LEU LEU GLN THR LEU PHE SEQRES 3 E 353 PHE THR ASN GLN LEU ARG LYS ALA VAL TYR MET MET PRO SEQRES 4 E 353 THR GLU GLY ASP ASP SER SER LYS SER VAL PRO LEU ALA SEQRES 5 E 353 LEU GLN ARG VAL PHE TYR GLU LEU GLN HIS SER ASP LYS SEQRES 6 E 353 PRO VAL GLY THR LYS LYS LEU THR LYS SER PHE GLY TRP SEQRES 7 E 353 GLU THR LEU ASP SER PHE MET GLN HIS ASP VAL GLN GLU SEQRES 8 E 353 LEU CYS ARG VAL LEU LEU ASP ASN VAL GLU ASN LYS MET SEQRES 9 E 353 LYS GLY THR CYS VAL GLU GLY THR ILE PRO LYS LEU PHE SEQRES 10 E 353 ARG GLY LYS MET VAL SER TYR ILE GLN CYS LYS GLU VAL SEQRES 11 E 353 ASP TYR ARG SER ASP ARG ARG GLU ASP TYR TYR ASP ILE SEQRES 12 E 353 GLN LEU SER ILE LYS GLY LYS LYS ASN ILE PHE GLU SER SEQRES 13 E 353 PHE VAL ASP TYR VAL ALA VAL GLU GLN LEU ASP GLY ASP SEQRES 14 E 353 ASN LYS TYR ASP ALA GLY GLU HIS GLY LEU GLN GLU ALA SEQRES 15 E 353 GLU LYS GLY VAL LYS PHE LEU THR LEU PRO PRO VAL LEU SEQRES 16 E 353 HIS LEU GLN LEU MET ARG PHE MET TYR ASP PRO GLN THR SEQRES 17 E 353 ASP GLN ASN ILE LYS ILE ASN ASP ARG PHE GLU PHE PRO SEQRES 18 E 353 GLU GLN LEU PRO LEU ASP GLU PHE LEU GLN LYS THR ASP SEQRES 19 E 353 PRO LYS ASP PRO ALA ASN TYR ILE LEU HIS ALA VAL LEU SEQRES 20 E 353 VAL HIS SER GLY ASP ASN HIS GLY GLY HIS TYR VAL VAL SEQRES 21 E 353 TYR LEU ASN PRO LYS GLY ASP GLY LYS TRP CYS LYS PHE SEQRES 22 E 353 ASP ASP ASP VAL VAL SER ARG CYS THR LYS GLU GLU ALA SEQRES 23 E 353 ILE GLU HIS ASN TYR GLY GLY HIS ASP ASP ASP LEU SER SEQRES 24 E 353 VAL ARG HIS CYS THR ASN ALA TYR MET LEU VAL TYR ILE SEQRES 25 E 353 ARG GLU SER LYS LEU SER GLU VAL LEU GLN ALA VAL THR SEQRES 26 E 353 ASP HIS ASP ILE PRO GLN GLN LEU VAL GLU ARG LEU GLN SEQRES 27 E 353 GLU GLU LYS ARG ILE GLU ALA GLN LYS ARG LYS GLU ARG SEQRES 28 E 353 GLN GLU MODRES 1NBF GLZ C 376 GLY AMINO-ACETALDEHYDE MODRES 1NBF GLZ D 376 GLY AMINO-ACETALDEHYDE HET GLZ C 376 4 HET GLZ D 376 4 HETNAM GLZ AMINO-ACETALDEHYDE FORMUL 3 GLZ 2(C2 H5 N O) FORMUL 6 HOH *374(H2 O) HELIX 1 1 THR A 222 PHE A 234 1 13 HELIX 2 2 THR A 235 MET A 244 1 10 HELIX 3 3 SER A 255 SER A 270 1 16 HELIX 4 4 THR A 276 PHE A 283 1 8 HELIX 5 5 GLU A 286 MET A 292 5 7 HELIX 6 6 ASP A 295 LYS A 312 1 18 HELIX 7 7 GLY A 318 ARG A 325 1 8 HELIX 8 8 ASN A 359 VAL A 368 1 10 HELIX 9 9 ASP A 374 LYS A 378 5 5 HELIX 10 10 ASP A 434 LEU A 437 5 4 HELIX 11 11 THR A 489 ILE A 494 1 6 HELIX 12 12 GLU A 495 TYR A 498 5 4 HELIX 13 13 LYS A 523 LEU A 528 1 6 HELIX 14 14 THR A 532 ILE A 536 5 5 HELIX 15 15 PRO A 537 GLU A 546 1 10 HELIX 16 16 GLU A 546 GLU A 551 1 6 HELIX 17 17 THR B 222 PHE B 234 1 13 HELIX 18 18 THR B 235 MET B 244 1 10 HELIX 19 19 ASP B 251 LYS B 254 5 4 HELIX 20 20 SER B 255 SER B 270 1 16 HELIX 21 21 THR B 276 PHE B 283 1 8 HELIX 22 22 LEU B 288 MET B 292 5 5 HELIX 23 23 ASP B 295 LYS B 312 1 18 HELIX 24 24 GLY B 318 ARG B 325 1 8 HELIX 25 25 ASN B 359 ALA B 369 1 11 HELIX 26 26 ASP B 374 LYS B 378 5 5 HELIX 27 27 ASP B 434 LEU B 437 5 4 HELIX 28 28 THR B 489 ILE B 494 1 6 HELIX 29 29 GLU B 495 TYR B 498 5 4 HELIX 30 30 SER B 506 HIS B 509 5 4 HELIX 31 31 LYS B 523 LEU B 528 1 6 HELIX 32 32 THR B 532 ILE B 536 5 5 HELIX 33 33 PRO B 537 GLU B 551 1 15 HELIX 34 34 THR C 322 GLY C 335 1 14 HELIX 35 35 PRO C 337 GLN C 341 5 5 HELIX 36 36 THR D 322 GLY D 335 1 14 HELIX 37 37 PRO D 337 GLN D 341 5 5 HELIX 38 38 LEU D 356 ASN D 360 5 5 HELIX 39 39 TYR E 224 PHE E 234 1 11 HELIX 40 40 THR E 235 MET E 244 1 10 HELIX 41 41 SER E 255 GLN E 268 1 14 HELIX 42 42 THR E 276 GLY E 284 1 9 HELIX 43 43 THR E 287 HIS E 294 5 8 HELIX 44 44 ASP E 295 LYS E 312 1 18 HELIX 45 45 ILE E 320 ARG E 325 1 6 HELIX 46 46 ASN E 359 VAL E 368 1 10 HELIX 47 47 ASP E 434 LEU E 437 5 4 HELIX 48 48 THR E 489 ILE E 494 1 6 HELIX 49 49 GLU E 495 TYR E 498 5 4 HELIX 50 50 LYS E 523 LEU E 528 1 6 HELIX 51 51 PRO E 537 GLU E 551 1 15 SHEET 1 A 4 ARG A 340 TYR A 347 0 SHEET 2 A 4 GLY A 326 CYS A 334 -1 N MET A 328 O GLU A 345 SHEET 3 A 4 ALA A 389 THR A 397 -1 O GLY A 392 N TYR A 331 SHEET 4 A 4 GLU A 371 LEU A 373 -1 N LEU A 373 O ALA A 389 SHEET 1 B 5 ILE A 350 SER A 353 0 SHEET 2 B 5 VAL A 401 MET A 407 1 O GLN A 405 N LEU A 352 SHEET 3 B 5 THR A 511 ARG A 520 -1 O TYR A 518 N LEU A 402 SHEET 4 B 5 ASN A 447 ASP A 459 -1 N LEU A 454 O MET A 515 SHEET 5 B 5 GLN A 430 PRO A 432 -1 N LEU A 431 O TYR A 448 SHEET 1 C 7 ILE A 350 SER A 353 0 SHEET 2 C 7 VAL A 401 MET A 407 1 O GLN A 405 N LEU A 352 SHEET 3 C 7 THR A 511 ARG A 520 -1 O TYR A 518 N LEU A 402 SHEET 4 C 7 ASN A 447 ASP A 459 -1 N LEU A 454 O MET A 515 SHEET 5 C 7 GLY A 462 LEU A 469 -1 O TYR A 468 N VAL A 453 SHEET 6 C 7 CYS A 478 ASP A 481 -1 O PHE A 480 N VAL A 467 SHEET 7 C 7 VAL A 484 ARG A 487 -1 O SER A 486 N LYS A 479 SHEET 1 D 2 TYR A 379 ASP A 380 0 SHEET 2 D 2 LEU A 386 GLN A 387 -1 O GLN A 387 N TYR A 379 SHEET 1 E 2 PHE A 409 ASP A 412 0 SHEET 2 E 2 GLN A 417 LYS A 420 -1 O ILE A 419 N MET A 410 SHEET 1 F 4 ARG B 340 TYR B 347 0 SHEET 2 F 4 GLY B 326 CYS B 334 -1 N MET B 328 O GLU B 345 SHEET 3 F 4 ALA B 389 PHE B 395 -1 O LYS B 394 N VAL B 329 SHEET 4 F 4 GLU B 371 LEU B 373 -1 N GLU B 371 O LYS B 391 SHEET 1 G 5 ILE B 350 SER B 353 0 SHEET 2 G 5 VAL B 401 MET B 407 1 O GLN B 405 N ILE B 350 SHEET 3 G 5 THR B 511 ARG B 520 -1 O TYR B 518 N LEU B 402 SHEET 4 G 5 ASN B 447 ASP B 459 -1 N ILE B 449 O ILE B 519 SHEET 5 G 5 GLN B 430 PRO B 432 -1 N LEU B 431 O TYR B 448 SHEET 1 H 7 ILE B 350 SER B 353 0 SHEET 2 H 7 VAL B 401 MET B 407 1 O GLN B 405 N ILE B 350 SHEET 3 H 7 THR B 511 ARG B 520 -1 O TYR B 518 N LEU B 402 SHEET 4 H 7 ASN B 447 ASP B 459 -1 N ILE B 449 O ILE B 519 SHEET 5 H 7 GLY B 462 LEU B 469 -1 O TYR B 468 N VAL B 453 SHEET 6 H 7 CYS B 478 ASP B 481 -1 O PHE B 480 N VAL B 467 SHEET 7 H 7 VAL B 484 ARG B 487 -1 O SER B 486 N LYS B 479 SHEET 1 I 2 TYR B 379 ASP B 380 0 SHEET 2 I 2 LEU B 386 GLN B 387 -1 O GLN B 387 N TYR B 379 SHEET 1 J 2 PHE B 409 ASP B 412 0 SHEET 2 J 2 GLN B 417 LYS B 420 -1 O ILE B 419 N MET B 410 SHEET 1 K 5 THR C 312 GLU C 316 0 SHEET 2 K 5 GLN C 302 LYS C 306 -1 N ILE C 303 O LEU C 315 SHEET 3 K 5 THR C 366 VAL C 370 1 O LEU C 367 N PHE C 304 SHEET 4 K 5 ARG C 342 PHE C 345 -1 N ARG C 342 O VAL C 370 SHEET 5 K 5 LYS C 348 GLN C 349 -1 O LYS C 348 N PHE C 345 SHEET 1 L 5 THR D 312 GLU D 316 0 SHEET 2 L 5 GLN D 302 LYS D 306 -1 N VAL D 305 O ILE D 313 SHEET 3 L 5 THR D 366 VAL D 370 1 O LEU D 367 N PHE D 304 SHEET 4 L 5 ARG D 342 PHE D 345 -1 N ILE D 344 O HIS D 368 SHEET 5 L 5 LYS D 348 GLN D 349 -1 O LYS D 348 N PHE D 345 SHEET 1 M 3 ARG E 344 TYR E 347 0 SHEET 2 M 3 GLY E 326 VAL E 329 -1 N GLY E 326 O TYR E 347 SHEET 3 M 3 LYS E 394 THR E 397 -1 O LEU E 396 N LYS E 327 SHEET 1 N 5 ILE E 350 LEU E 352 0 SHEET 2 N 5 VAL E 401 LEU E 406 1 O GLN E 405 N ILE E 350 SHEET 3 N 5 THR E 511 ARG E 520 -1 O LEU E 516 N LEU E 404 SHEET 4 N 5 ASN E 447 GLY E 458 -1 N HIS E 456 O ASN E 512 SHEET 5 N 5 GLN E 430 PRO E 432 -1 N LEU E 431 O TYR E 448 SHEET 1 O 7 ILE E 350 LEU E 352 0 SHEET 2 O 7 VAL E 401 LEU E 406 1 O GLN E 405 N ILE E 350 SHEET 3 O 7 THR E 511 ARG E 520 -1 O LEU E 516 N LEU E 404 SHEET 4 O 7 ASN E 447 GLY E 458 -1 N HIS E 456 O ASN E 512 SHEET 5 O 7 GLY E 463 LEU E 469 -1 O HIS E 464 N SER E 457 SHEET 6 O 7 CYS E 478 ASP E 481 -1 O PHE E 480 N VAL E 467 SHEET 7 O 7 VAL E 484 ARG E 487 -1 O SER E 486 N LYS E 479 SHEET 1 P 2 GLU E 371 GLN E 372 0 SHEET 2 P 2 GLU E 390 LYS E 391 -1 O LYS E 391 N GLU E 371 LINK C GLZ C 376 SG CYS B 223 1555 1555 1.86 LINK C GLZ D 376 SG CYS A 223 1555 1555 1.92 LINK C GLY C 375 N GLZ C 376 1555 1555 1.33 LINK C GLY D 375 N GLZ D 376 1555 1555 1.33 CRYST1 99.728 101.166 141.134 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 0.010027 0.000000 0.000000 0.00000 SCALE2 0.000000 0.009885 0.000000 0.00000 SCALE3 0.000000 0.000000 0.007085 0.00000