HEADER LIGASE 27-FEB-12 2LQ7 TITLE E2 BINDING SURFACE ON UBA3 BETA-GRASP DOMAIN UNDERGOES A TITLE 2 CONFORMATIONAL TRANSITION COMPND MOL_ID: 1; COMPND 2 MOLECULE: NEDD8-ACTIVATING ENZYME E1 CATALYTIC SUBUNIT; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: INTERACTION WITH UBE2M CORE DOMAIN RESIDUES 368-463; COMPND 5 SYNONYM: NEDD8-ACTIVATING ENZYME E1C, UBIQUITIN-ACTIVATING ENZYME COMPND 6 E1C, UBIQUITIN-LIKE MODIFIER-ACTIVATING ENZYME 3, UBIQUITIN- COMPND 7 ACTIVATING ENZYME 3; COMPND 8 EC: 6.3.2.-; COMPND 9 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: UBA3, UBE1C; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: SG13009[PREP4]; SOURCE 9 EXPRESSION_SYSTEM_VECTOR: PQE30 KEYWDS E1 ENZYME, BETA GRASP DOMAIN, LIGASE EXPDTA SOLUTION NMR NUMMDL 20 AUTHOR E.S.ELGIN,F.C.PETERSON,B.F.VOLKMAN REVDAT 3 14-JUN-23 2LQ7 1 REMARK SEQADV REVDAT 2 28-AUG-13 2LQ7 1 JRNL REVDAT 1 25-JUL-12 2LQ7 0 JRNL AUTH E.S.ELGIN,N.SOKMEN,F.C.PETERSON,B.F.VOLKMAN,C.DAG,A.L.HAAS JRNL TITL E2-BINDING SURFACE ON UBA3 BETA-GRASP DOMAIN UNDERGOES A JRNL TITL 2 CONFORMATIONAL TRANSITION. JRNL REF PROTEINS V. 80 2482 2012 JRNL REFN ISSN 0887-3585 JRNL PMID 22821745 JRNL DOI 10.1002/PROT.24148 REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : CYANA, CYANA, X-PLOR NIH REMARK 3 AUTHORS : GUNTERT, MUMENTHALER AND WUTHRICH (CYANA), REMARK 3 GUNTERT, MUMENTHALER AND WUTHRICH (CYANA), REMARK 3 SCHWIETERS, KUSZEWSKI, TJANDRA AND CLORE (X-PLOR REMARK 3 NIH) REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 2LQ7 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 28-FEB-12. REMARK 100 THE DEPOSITION ID IS D_1000102695. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 298 REMARK 210 PH : 6.0 REMARK 210 IONIC STRENGTH : 127 REMARK 210 PRESSURE : AMBIENT REMARK 210 SAMPLE CONTENTS : 0.4 MM [U-100% 13C; U-100% 15N] REMARK 210 UBA3, 20 MM SODIUM PHOSPHATE, REMARK 210 100 MM SODIUM CHLORIDE, 0.02 % REMARK 210 SODIUM AZIDE, 90% H2O/10% D2O REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 3D 1H-15N NOESY; 3D 1H-13C NOESY REMARK 210 ALIPHATIC; 3D 1H-13C NOESY REMARK 210 AROMATIC REMARK 210 SPECTROMETER FIELD STRENGTH : 600 MHZ REMARK 210 SPECTROMETER MODEL : AVANCE REMARK 210 SPECTROMETER MANUFACTURER : BRUKER REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : XEASY, TOPSPIN REMARK 210 METHOD USED : TORSION ANGLE DYNAMICS REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 100 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 20 REMARK 210 CONFORMERS, SELECTION CRITERIA : STRUCTURES WITH THE LOWEST REMARK 210 ENERGY REMARK 210 REMARK 210 BEST REPRESENTATIVE CONFORMER IN THIS ENSEMBLE : 1 REMARK 210 REMARK 210 REMARK: NULL REMARK 215 REMARK 215 NMR STUDY REMARK 215 THE COORDINATES IN THIS ENTRY WERE GENERATED FROM SOLUTION REMARK 215 NMR DATA. PROTEIN DATA BANK CONVENTIONS REQUIRE THAT REMARK 215 CRYST1 AND SCALE RECORDS BE INCLUDED, BUT THE VALUES ON REMARK 215 THESE RECORDS ARE MEANINGLESS. 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: MONOMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: A REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS 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 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 1 THR A 369 -70.51 -117.77 REMARK 500 1 GLU A 401 -86.45 63.30 REMARK 500 1 GLU A 402 -85.56 -143.33 REMARK 500 1 ARG A 403 99.80 64.96 REMARK 500 1 PRO A 431 32.99 -83.93 REMARK 500 2 THR A 369 -71.13 -119.22 REMARK 500 2 LEU A 394 93.32 67.70 REMARK 500 2 VAL A 397 119.87 70.60 REMARK 500 2 THR A 398 106.38 -55.45 REMARK 500 2 SER A 399 -35.38 -141.78 REMARK 500 2 ILE A 400 -51.26 -176.87 REMARK 500 3 THR A 369 -71.33 -117.63 REMARK 500 3 PRO A 379 151.09 -49.80 REMARK 500 3 ILE A 400 140.23 -174.38 REMARK 500 3 GLU A 402 -50.32 -172.08 REMARK 500 3 ARG A 405 65.10 -173.95 REMARK 500 4 THR A 369 -70.88 -118.76 REMARK 500 4 GLU A 402 162.95 69.85 REMARK 500 5 THR A 369 -70.76 -117.75 REMARK 500 5 LEU A 394 96.30 -41.18 REMARK 500 5 GLU A 402 -73.45 61.08 REMARK 500 5 THR A 404 -88.70 49.27 REMARK 500 6 THR A 369 -73.80 -119.30 REMARK 500 6 LEU A 394 81.87 69.53 REMARK 500 6 SER A 396 -166.99 -106.31 REMARK 500 6 SER A 399 -52.38 75.40 REMARK 500 6 ARG A 405 78.56 54.49 REMARK 500 7 THR A 369 -71.57 -118.15 REMARK 500 7 SER A 399 -63.21 -149.18 REMARK 500 7 ILE A 400 131.64 -179.09 REMARK 500 7 ARG A 403 -76.15 -137.27 REMARK 500 8 LEU A 368 -71.55 -57.00 REMARK 500 8 THR A 369 -75.52 -125.74 REMARK 500 8 SER A 396 12.50 -140.97 REMARK 500 8 VAL A 397 77.25 58.01 REMARK 500 8 ILE A 400 89.37 74.23 REMARK 500 9 THR A 369 -71.21 -118.91 REMARK 500 9 THR A 398 91.22 69.55 REMARK 500 9 THR A 404 -64.40 -109.57 REMARK 500 10 THR A 369 -71.95 -118.05 REMARK 500 10 PRO A 379 157.21 -48.48 REMARK 500 10 LEU A 394 -84.43 68.56 REMARK 500 10 GLN A 395 133.14 175.43 REMARK 500 10 THR A 398 97.07 60.53 REMARK 500 11 THR A 369 -72.04 -118.80 REMARK 500 11 TYR A 393 -54.45 -140.47 REMARK 500 11 GLN A 395 -36.52 -169.04 REMARK 500 11 SER A 399 -67.73 70.99 REMARK 500 11 THR A 404 -85.64 70.75 REMARK 500 11 PRO A 431 32.25 -85.50 REMARK 500 REMARK 500 THIS ENTRY HAS 89 RAMACHANDRAN OUTLIERS. REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 18297 RELATED DB: BMRB DBREF 2LQ7 A 348 442 UNP Q8TBC4 UBA3_HUMAN 369 463 SEQADV 2LQ7 GLY A 346 UNP Q8TBC4 EXPRESSION TAG SEQADV 2LQ7 SER A 347 UNP Q8TBC4 EXPRESSION TAG SEQRES 1 A 97 GLY SER GLN LEU PRO GLN ASN ILE GLN PHE SER PRO SER SEQRES 2 A 97 ALA LYS LEU GLN GLU VAL LEU ASP TYR LEU THR ASN SER SEQRES 3 A 97 ALA SER LEU GLN MET LYS SER PRO ALA ILE THR ALA THR SEQRES 4 A 97 LEU GLU GLY LYS ASN ARG THR LEU TYR LEU GLN SER VAL SEQRES 5 A 97 THR SER ILE GLU GLU ARG THR ARG PRO ASN LEU SER LYS SEQRES 6 A 97 THR LEU LYS GLU LEU GLY LEU VAL ASP GLY GLN GLU LEU SEQRES 7 A 97 ALA VAL ALA ASP VAL THR THR PRO GLN THR VAL LEU PHE SEQRES 8 A 97 LYS LEU HIS PHE THR SER HELIX 1 1 LYS A 360 THR A 369 1 10 HELIX 2 2 ARG A 405 LYS A 410 1 6 SHEET 1 A 5 GLN A 351 PHE A 355 0 SHEET 2 A 5 THR A 433 PHE A 440 1 O LEU A 435 N GLN A 351 SHEET 3 A 5 GLN A 421 ALA A 426 -1 N LEU A 423 O PHE A 436 SHEET 4 A 5 ALA A 380 LEU A 385 -1 N THR A 382 O ALA A 424 SHEET 5 A 5 LYS A 388 THR A 391 -1 O ARG A 390 N ALA A 383 CRYST1 1.000 1.000 1.000 90.00 90.00 90.00 P 1 1 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 1.000000 0.000000 0.000000 0.00000 SCALE2 0.000000 1.000000 0.000000 0.00000 SCALE3 0.000000 0.000000 1.000000 0.00000 MODEL 1