PDB Short entry for 3L81 HEADER TRANSPORT PROTEIN 29-DEC-09 3L81 TITLE CRYSTAL STRUCTURE OF ADAPTOR PROTEIN COMPLEX 4 (AP-4) MU4 SUBUNIT C- TITLE 2 TERMINAL DOMAIN, IN COMPLEX WITH A SORTING PEPTIDE FROM THE AMYLOID TITLE 3 PRECURSOR PROTEIN (APP) COMPND MOL_ID: 1; COMPND 2 MOLECULE: AP-4 COMPLEX SUBUNIT MU-1; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: C-TERMINUS, RESIDUES 160-453; COMPND 5 SYNONYM: ADAPTER-RELATED PROTEIN COMPLEX 4 MU-1 SUBUNIT, AP-4 ADAPTER COMPND 6 COMPLEX MU SUBUNIT, MU SUBUNIT OF AP-4, MU4-ADAPTIN, MU4, MU-ADAPTIN- COMPND 7 RELATED PROTEIN 2, MU-ARP2; COMPND 8 ENGINEERED: YES; COMPND 9 MUTATION: YES; COMPND 10 MOL_ID: 2; COMPND 11 MOLECULE: AMYLOID BETA A4 PROTEIN; COMPND 12 CHAIN: B; COMPND 13 FRAGMENT: C-TERMINUS, RESIDUES 761-767; COMPND 14 SYNONYM: ALZHEIMER DISEASE AMYLOID PROTEIN, ABPP, APPI, APP, PREA4, COMPND 15 CEREBRAL VASCULAR AMYLOID PEPTIDE, CVAP, PROTEASE NEXIN-II, PN-II, N- COMPND 16 APP, SOLUBLE APP-ALPHA, S-APP-ALPHA, SOLUBLE APP-BETA, S-APP-BETA, COMPND 17 C99, BETA-AMYLOID PROTEIN 42, BETA-APP42, BETA-AMYLOID PROTEIN 40, COMPND 18 BETA-APP40, C83, P3(42), P3(40), C80, GAMMA-SECRETASE C-TERMINAL COMPND 19 FRAGMENT 59, GAMMA-CTF(59), AMYLOID INTRACELLULAR DOMAIN 59, AICD-59, COMPND 20 AID(59), GAMMA-SECRETASE C-TERMINAL FRAGMENT 57, GAMMA-CTF(57), COMPND 21 AMYLOID INTRACELLULAR DOMAIN 57, AICD-57, AID(57), GAMMA-SECRETASE C- COMPND 22 TERMINAL FRAGMENT 50, GAMMA-CTF(50), AMYLOID INTRACELLULAR DOMAIN 50, COMPND 23 AICD-50, AID(50), C31; COMPND 24 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: AP4M1, MUARP2; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: B834(DE3)PLYSS; SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PGST-PARALLEL-1; SOURCE 11 MOL_ID: 2; SOURCE 12 SYNTHETIC: YES KEYWDS IMMUNOGLOBULIN-LIKE BETA-SANDWICH, COATED PIT, GOLGI APPARATUS, KEYWDS 2 MEMBRANE, PHOSPHOPROTEIN, PROTEIN TRANSPORT, TRANSPORT, ALZHEIMER KEYWDS 3 DISEASE, AMYLOID, AMYLOIDOSIS, TRANSPORT PROTEIN EXPDTA X-RAY DIFFRACTION AUTHOR G.A.MARDONES,A.L.ROJAS,P.V.BURGOS,L.L.P.DASILVA,Y.PRABHU, AUTHOR 2 J.S.BONIFACINO,J.H.HURLEY REVDAT 4 21-FEB-24 3L81 1 REMARK REVDAT 3 13-OCT-21 3L81 1 REMARK SEQADV REVDAT 2 01-NOV-17 3L81 1 REMARK REVDAT 1 02-JUN-10 3L81 0 JRNL AUTH P.V.BURGOS,G.A.MARDONES,A.L.ROJAS,L.L.DASILVA,Y.PRABHU, JRNL AUTH 2 J.H.HURLEY,J.S.BONIFACINO JRNL TITL SORTING OF THE ALZHEIMER'S DISEASE AMYLOID PRECURSOR PROTEIN JRNL TITL 2 MEDIATED BY THE AP-4 COMPLEX. JRNL REF DEV.CELL V. 18 425 2010 JRNL REFN ISSN 1534-5807 JRNL PMID 20230749 JRNL DOI 10.1016/J.DEVCEL.2010.01.015 REMARK 2 REMARK 2 RESOLUTION. 1.60 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 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) : 1.60 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 41.67 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 97.5 REMARK 3 NUMBER OF REFLECTIONS : 39268 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) : 0.209 REMARK 3 R VALUE (WORKING SET) : 0.207 REMARK 3 FREE R VALUE : 0.252 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 1972 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) : 1.60 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.64 REMARK 3 REFLECTION IN BIN (WORKING SET) : 2302 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 83.20 REMARK 3 BIN R VALUE (WORKING SET) : 0.3330 REMARK 3 BIN FREE R VALUE SET COUNT : 120 REMARK 3 BIN FREE R VALUE : 0.3670 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2038 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 18 REMARK 3 SOLVENT ATOMS : 153 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 27.82 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.00000 REMARK 3 B22 (A**2) : 0.01000 REMARK 3 B33 (A**2) : -0.01000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 0.01000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.094 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.101 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.077 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 2.211 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.961 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.938 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 2098 ; 0.015 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 2830 ; 1.731 ; 1.994 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 253 ; 7.632 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 95 ;36.233 ;22.632 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 361 ;14.962 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 21 ;22.493 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 309 ; 0.125 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 1580 ; 0.007 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 794 ; 0.212 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 1377 ; 0.312 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 136 ; 0.169 ; 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): 54 ; 0.249 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 15 ; 0.220 ; 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): 1316 ; 1.474 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 2062 ; 2.360 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 869 ; 3.087 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 768 ; 4.817 ; 4.500 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 : 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 ADDED IN THE RIDING REMARK 3 POSITIONS REMARK 4 REMARK 4 3L81 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 16-FEB-10. REMARK 100 THE DEPOSITION ID IS D_1000056949. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 20-MAR-09; 20-MAR-09 REMARK 200 TEMPERATURE (KELVIN) : 100; 100 REMARK 200 PH : 7.0 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y; Y REMARK 200 RADIATION SOURCE : APS; APS REMARK 200 BEAMLINE : 23-ID-D; 22-ID REMARK 200 X-RAY GENERATOR MODEL : NULL; NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M; M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9794, 0.9796, 0.9719; 1.0000 REMARK 200 MONOCHROMATOR : SI(111); SI(220) REMARK 200 OPTICS : NULL; NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD; CCD REMARK 200 DETECTOR MANUFACTURER : MARMOSAIC 300 MM CCD; MARMOSAIC REMARK 200 300 MM CCD REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 39268 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.600 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 1.480 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 97.3 REMARK 200 DATA REDUNDANCY : 4.400 REMARK 200 R MERGE (I) : 0.09700 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 13.8000 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: MAD; SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MAD REMARK 200 SOFTWARE USED: SOLVE 2.13, RESOLVE 2.13 REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 45.73 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.27 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 10% PEG 3350, 10MM MAGNESIUM CHLORIDE, REMARK 280 0.1M HEPES, PH 7.0, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE REMARK 280 295K. 15% PEG 6000, 3% TRIMETHYLAMINE N-OXIDE DIHYDRATE, 0.1M REMARK 280 HEPES, PH 7.0, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 295K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 1 21 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,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 28.45500 REMARK 290 SMTRY3 2 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 300 REMARK: AUTHORS STATE THAT THE BIOLOGICAL UNIT OF THE PROTEIN- REMARK 300 PEPTIDE COMPLEX IS BETTER CALLED MONOMER. 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: 1370 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 14100 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -4.0 KCAL/MOL 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 GLY A 153 REMARK 465 ALA A 154 REMARK 465 MET A 155 REMARK 465 ASP A 156 REMARK 465 PRO A 157 REMARK 465 GLU A 158 REMARK 465 PHE A 159 REMARK 465 GLN A 160 REMARK 465 GLN A 161 REMARK 465 SER A 162 REMARK 465 LYS A 163 REMARK 465 VAL A 164 REMARK 465 ALA A 165 REMARK 465 PRO A 166 REMARK 465 SER A 167 REMARK 465 SER A 168 REMARK 465 ALA A 169 REMARK 465 ALA A 170 REMARK 465 SER A 171 REMARK 465 ARG A 172 REMARK 465 PRO A 173 REMARK 465 VAL A 174 REMARK 465 LEU A 175 REMARK 465 SER A 176 REMARK 465 SER A 177 REMARK 465 ARG A 178 REMARK 465 SER A 179 REMARK 465 ASP A 180 REMARK 465 GLN A 181 REMARK 465 SER A 182 REMARK 465 GLN A 183 REMARK 465 LYS A 184 REMARK 465 PRO A 388 REMARK 465 PRO A 389 REMARK 465 SER A 390 REMARK 465 HIS A 391 REMARK 465 GLY A 392 REMARK 465 LEU A 393 REMARK 465 SER A 394 REMARK 465 THR A 395 REMARK 465 SER A 396 REMARK 465 ALA A 397 REMARK 465 SER A 398 REMARK 465 PRO A 399 REMARK 465 ARG A 429 REMARK 465 PRO A 430 REMARK 465 SER A 431 REMARK 465 GLY A 432 REMARK 465 ASN A 433 REMARK 465 ALA A 434 REMARK 465 ASN A 435 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 231 123.26 -35.54 REMARK 500 ALA A 448 57.55 -145.77 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 GLU A 233 PHE A 234 -131.67 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 GOL A 1 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL A 2 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL A 3 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1BW8 RELATED DB: PDB REMARK 900 RELATED ID: 1BXX RELATED DB: PDB REMARK 900 RELATED ID: 3G9H RELATED DB: PDB DBREF 3L81 A 160 453 UNP O00189 AP4M1_HUMAN 160 453 DBREF 3L81 B 686 692 UNP P05067 A4_HUMAN 761 767 SEQADV 3L81 GLY A 153 UNP O00189 EXPRESSION TAG SEQADV 3L81 ALA A 154 UNP O00189 EXPRESSION TAG SEQADV 3L81 MET A 155 UNP O00189 EXPRESSION TAG SEQADV 3L81 ASP A 156 UNP O00189 EXPRESSION TAG SEQADV 3L81 PRO A 157 UNP O00189 EXPRESSION TAG SEQADV 3L81 GLU A 158 UNP O00189 EXPRESSION TAG SEQADV 3L81 PHE A 159 UNP O00189 EXPRESSION TAG SEQADV 3L81 SER A 235 UNP O00189 CYS 235 ENGINEERED MUTATION SEQADV 3L81 SER A 431 UNP O00189 CYS 431 ENGINEERED MUTATION SEQRES 1 A 301 GLY ALA MET ASP PRO GLU PHE GLN GLN SER LYS VAL ALA SEQRES 2 A 301 PRO SER SER ALA ALA SER ARG PRO VAL LEU SER SER ARG SEQRES 3 A 301 SER ASP GLN SER GLN LYS ASN GLU VAL PHE LEU ASP VAL SEQRES 4 A 301 VAL GLU ARG LEU SER VAL LEU ILE ALA SER ASN GLY SER SEQRES 5 A 301 LEU LEU LYS VAL ASP VAL GLN GLY GLU ILE ARG LEU LYS SEQRES 6 A 301 SER PHE LEU PRO SER GLY SER GLU MET ARG ILE GLY LEU SEQRES 7 A 301 THR GLU GLU PHE SER VAL GLY LYS SER GLU LEU ARG GLY SEQRES 8 A 301 TYR GLY PRO GLY ILE ARG VAL ASP GLU VAL SER PHE HIS SEQRES 9 A 301 SER SER VAL ASN LEU ASP GLU PHE GLU SER HIS ARG ILE SEQRES 10 A 301 LEU ARG LEU GLN PRO PRO GLN GLY GLU LEU THR VAL MET SEQRES 11 A 301 ARG TYR GLN LEU SER ASP ASP LEU PRO SER PRO LEU PRO SEQRES 12 A 301 PHE ARG LEU PHE PRO SER VAL GLN TRP ASP ARG GLY SER SEQRES 13 A 301 GLY ARG LEU GLN VAL TYR LEU LYS LEU ARG CYS ASP LEU SEQRES 14 A 301 LEU SER LYS SER GLN ALA LEU ASN VAL ARG LEU HIS LEU SEQRES 15 A 301 PRO LEU PRO ARG GLY VAL VAL SER LEU SER GLN GLU LEU SEQRES 16 A 301 SER SER PRO GLU GLN LYS ALA GLU LEU ALA GLU GLY ALA SEQRES 17 A 301 LEU ARG TRP ASP LEU PRO ARG VAL GLN GLY GLY SER GLN SEQRES 18 A 301 LEU SER GLY LEU PHE GLN MET ASP VAL PRO GLY PRO PRO SEQRES 19 A 301 GLY PRO PRO SER HIS GLY LEU SER THR SER ALA SER PRO SEQRES 20 A 301 LEU GLY LEU GLY PRO ALA SER LEU SER PHE GLU LEU PRO SEQRES 21 A 301 ARG HIS THR CYS SER GLY LEU GLN VAL ARG PHE LEU ARG SEQRES 22 A 301 LEU ALA PHE ARG PRO SER GLY ASN ALA ASN PRO HIS LYS SEQRES 23 A 301 TRP VAL ARG HIS LEU SER HIS SER ASP ALA TYR VAL ILE SEQRES 24 A 301 ARG ILE SEQRES 1 B 7 THR TYR LYS PHE PHE GLU GLN HET GOL A 1 6 HET GOL A 2 6 HET GOL A 3 6 HETNAM GOL GLYCEROL HETSYN GOL GLYCERIN; PROPANE-1,2,3-TRIOL FORMUL 3 GOL 3(C3 H8 O3) FORMUL 6 HOH *153(H2 O) HELIX 1 1 GLU A 263 ARG A 268 1 6 SHEET 1 A 4 LYS A 353 ALA A 357 0 SHEET 2 A 4 ALA A 360 LEU A 365 -1 O ASP A 364 N LYS A 353 SHEET 3 A 4 GLN A 326 PRO A 335 -1 N VAL A 330 O LEU A 365 SHEET 4 A 4 VAL A 368 GLN A 369 -1 O VAL A 368 N ALA A 327 SHEET 1 B10 LYS A 353 ALA A 357 0 SHEET 2 B10 ALA A 360 LEU A 365 -1 O ASP A 364 N LYS A 353 SHEET 3 B10 GLN A 326 PRO A 335 -1 N VAL A 330 O LEU A 365 SHEET 4 B10 ALA A 405 PRO A 412 -1 O GLU A 410 N LEU A 328 SHEET 5 B10 HIS A 437 ILE A 451 -1 O SER A 444 N LEU A 411 SHEET 6 B10 GLU A 186 ILE A 199 1 N LEU A 189 O TRP A 439 SHEET 7 B10 LEU A 205 SER A 218 -1 O GLU A 213 N VAL A 192 SHEET 8 B10 GLY A 277 LEU A 286 -1 O LEU A 279 N LEU A 216 SHEET 9 B10 GLU A 252 HIS A 256 -1 N SER A 254 O ARG A 283 SHEET 10 B10 LYS B 688 PHE B 690 1 O LYS B 688 N PHE A 255 SHEET 1 C 3 ILE A 269 LEU A 272 0 SHEET 2 C 3 GLU A 225 LEU A 230 -1 N ILE A 228 O LEU A 270 SHEET 3 C 3 VAL A 421 ALA A 427 -1 O ARG A 425 N ARG A 227 SHEET 1 D 2 SER A 235 VAL A 236 0 SHEET 2 D 2 ARG A 249 VAL A 250 1 O VAL A 250 N SER A 235 SHEET 1 E 4 PHE A 296 TRP A 304 0 SHEET 2 E 4 ARG A 310 CYS A 319 -1 O GLN A 312 N GLN A 303 SHEET 3 E 4 GLN A 373 ASP A 381 -1 O LEU A 374 N LEU A 317 SHEET 4 E 4 VAL A 341 LEU A 347 -1 N LEU A 343 O GLN A 379 CISPEP 1 ARG A 306 GLY A 307 0 11.29 CISPEP 2 PRO A 386 GLY A 387 0 -1.78 CISPEP 3 LEU A 400 GLY A 401 0 7.76 CISPEP 4 GLY A 403 PRO A 404 0 -3.78 SITE 1 AC1 4 HOH A 146 PRO A 383 GLY A 384 PRO A 385 SITE 1 AC2 7 HOH A 44 SER A 408 PHE A 409 GLU A 410 SITE 2 AC2 7 HIS A 445 SER A 446 ASP A 447 SITE 1 AC3 5 HOH A 146 GLU A 240 LEU A 241 GLY A 339 SITE 2 AC3 5 VAL A 341 CRYST1 46.672 56.910 60.664 90.00 106.53 90.00 P 1 21 1 2 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 0.021426 0.000000 0.006359 0.00000 SCALE2 0.000000 0.017572 0.000000 0.00000 SCALE3 0.000000 0.000000 0.017195 0.00000