PDB Short entry for 5HKY HEADER LIGASE 14-JAN-16 5HKY TITLE CRYSTAL STRUCTURE OF C-CBL TKBD DOMAIN IN COMPLEX WITH SPRY2 PEPTIDE TITLE 2 (36-60, PY55) REFINED TO 1.8A RESOLUTION (P6 FORM) COMPND MOL_ID: 1; COMPND 2 MOLECULE: E3 UBIQUITIN-PROTEIN LIGASE CBL; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: TYROSINE KINASE BINDING DOMAIN (TKBD), RESIDUES 47-351; COMPND 5 SYNONYM: CASITAS B-LINEAGE LYMPHOMA PROTO-ONCOGENE,PROTO-ONCOGENE C- COMPND 6 CBL,RING FINGER PROTEIN 55,SIGNAL TRANSDUCTION PROTEIN CBL; COMPND 7 EC: 6.3.2.-; COMPND 8 ENGINEERED: YES; COMPND 9 MOL_ID: 2; COMPND 10 MOLECULE: PROTEIN SPROUTY HOMOLOG 2; COMPND 11 CHAIN: B; COMPND 12 FRAGMENT: UNP RESIDUES 36-60; COMPND 13 SYNONYM: SPRY-2; COMPND 14 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: CBL, CBL2, RNF55; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21 (DE3) PLYSES-RARE; SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PTBSG; SOURCE 11 MOL_ID: 2; SOURCE 12 SYNTHETIC: YES; SOURCE 13 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 14 ORGANISM_COMMON: HUMAN; SOURCE 15 ORGANISM_TAXID: 9606; SOURCE 16 OTHER_DETAILS: SYNTHESIZED BY NEW ENGLAND PEPTIDE WITH AN ACETYLATED SOURCE 17 N-TERMINUS KEYWDS SPRY2, CBL, PROTEIN-PROTEIN INTERACTION, ANTICANCER TARGET, LIGASE EXPDTA X-RAY DIFFRACTION AUTHOR S.LOVELL,K.P.BATTAILE,N.MEHZABEEN,N.ZHANG,A.COOPER,P.GAO,R.P.PEREZ REVDAT 5 15-NOV-23 5HKY 1 REMARK REVDAT 4 27-SEP-23 5HKY 1 REMARK REVDAT 3 25-DEC-19 5HKY 1 REMARK REVDAT 2 20-SEP-17 5HKY 1 REMARK REVDAT 1 18-JAN-17 5HKY 0 JRNL AUTH N.ZHANG,D.FERRIS,S.LOVELL,A.SMALTER-HALL,K.P.BATTAILE, JRNL AUTH 2 A.ANBANANDAM,P.GAO,R.HANZLIK,R.P.PEREZ JRNL TITL CRYSTAL STRUCTURE OF C-CBL TKBD DOMAIN IN COMPLEX WITH SPRY2 JRNL TITL 2 PEPTIDE (36-60, PY55) REFINED TO 1.8A RESOLUTION (P6 FORM) JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 1.80 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 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) : 1.80 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 40.20 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.050 REMARK 3 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 3 NUMBER OF REFLECTIONS : 46764 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.158 REMARK 3 R VALUE (WORKING SET) : 0.157 REMARK 3 FREE R VALUE : 0.180 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.830 REMARK 3 FREE R VALUE TEST SET COUNT : 2258 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 40.2090 - 4.5339 1.00 2864 153 0.1561 0.1550 REMARK 3 2 4.5339 - 3.5994 1.00 2824 141 0.1306 0.1526 REMARK 3 3 3.5994 - 3.1446 1.00 2779 145 0.1533 0.1888 REMARK 3 4 3.1446 - 2.8572 1.00 2795 149 0.1657 0.1863 REMARK 3 5 2.8572 - 2.6524 1.00 2782 137 0.1593 0.1731 REMARK 3 6 2.6524 - 2.4961 1.00 2812 120 0.1505 0.1979 REMARK 3 7 2.4961 - 2.3711 1.00 2758 152 0.1455 0.1683 REMARK 3 8 2.3711 - 2.2679 1.00 2749 155 0.1498 0.1741 REMARK 3 9 2.2679 - 2.1806 1.00 2793 130 0.1523 0.1775 REMARK 3 10 2.1806 - 2.1053 1.00 2771 133 0.1559 0.1999 REMARK 3 11 2.1053 - 2.0395 1.00 2735 147 0.1632 0.2120 REMARK 3 12 2.0395 - 1.9812 1.00 2769 159 0.1674 0.1989 REMARK 3 13 1.9812 - 1.9291 1.00 2731 176 0.1792 0.2065 REMARK 3 14 1.9291 - 1.8820 1.00 2758 123 0.1978 0.2096 REMARK 3 15 1.8820 - 1.8392 1.00 2764 125 0.2173 0.2788 REMARK 3 16 1.8392 - 1.8001 1.00 2822 113 0.2439 0.2519 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) : 0.170 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 17.190 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 22.19 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 27.74 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 : 0.010 2734 REMARK 3 ANGLE : 1.030 3715 REMARK 3 CHIRALITY : 0.048 408 REMARK 3 PLANARITY : 0.007 470 REMARK 3 DIHEDRAL : 15.808 1018 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 5HKY COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 15-JAN-16. REMARK 100 THE DEPOSITION ID IS D_1000217222. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 17-APR-14 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : APS REMARK 200 BEAMLINE : 17-ID REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.0000 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS 6M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : AIMLESS 0.2.17 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 46770 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.800 REMARK 200 RESOLUTION RANGE LOW (A) : 42.330 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 200 DATA REDUNDANCY : 10.10 REMARK 200 R MERGE (I) : 0.11100 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 14.8000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.80 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.84 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : 10.00 REMARK 200 R MERGE FOR SHELL (I) : 1.22600 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> FOR SHELL : 2.200 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHASER 2.5.6 REMARK 200 STARTING MODEL: 3BUM REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 62.59 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.29 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 30% (V/V) PEG 400, 0.1M HEPES, 200 MM REMARK 280 MGCL2, PH 7.5, VAPOR DIFFUSION, SITTING DROP, TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 6 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -Y,X-Y,Z REMARK 290 3555 -X+Y,-X,Z REMARK 290 4555 -X,-Y,Z REMARK 290 5555 Y,-X+Y,Z REMARK 290 6555 X-Y,X,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 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 2 0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 3 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 3 -0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 5 0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 5 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 6 0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 6 0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 6 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: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 2960 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 15030 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -47.0 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 375 REMARK 375 SPECIAL POSITION REMARK 375 THE FOLLOWING ATOMS ARE FOUND TO BE WITHIN 0.15 ANGSTROMS REMARK 375 OF A SYMMETRY RELATED ATOM AND ARE ASSUMED TO BE ON SPECIAL REMARK 375 POSITIONS. REMARK 375 REMARK 375 ATOM RES CSSEQI REMARK 375 HOH A 728 LIES ON A SPECIAL POSITION. REMARK 375 HOH B 121 LIES ON A SPECIAL POSITION. REMARK 375 HOH B 122 LIES ON A SPECIAL POSITION. REMARK 375 HOH B 124 LIES ON A SPECIAL POSITION. REMARK 375 HOH B 125 LIES ON A SPECIAL POSITION. 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 SER A 44 REMARK 465 ASN A 45 REMARK 465 ALA A 46 REMARK 465 PRO A 47 REMARK 465 GLY A 351 REMARK 465 ACE B 35 REMARK 465 GLN B 36 REMARK 465 GLN B 37 REMARK 465 VAL B 38 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 LYS A 53 CG CD CE NZ REMARK 470 LYS A 54 CG CD CE NZ REMARK 470 LYS A 58 CD CE NZ REMARK 470 LYS A 61 CD CE NZ REMARK 470 LYS A 65 CD CE NZ REMARK 470 LYS A 78 CE NZ REMARK 470 GLU A 103 CD OE1 OE2 REMARK 470 GLU A 107 CG CD OE1 OE2 REMARK 470 GLU A 111 CG CD OE1 OE2 REMARK 470 LYS A 134 CE NZ REMARK 470 GLU A 135 CD OE1 OE2 REMARK 470 GLU A 143 CG CD OE1 OE2 REMARK 470 GLU A 188 CD OE1 OE2 REMARK 470 LYS A 203 CD CE NZ REMARK 470 GLN A 207 CD OE1 NE2 REMARK 470 ARG A 256 CD NE CZ NH1 NH2 REMARK 470 ARG B 50 CG CD NE CZ NH1 NH2 REMARK 470 GLU B 54 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 O HOH A 598 O HOH A 727 2.14 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS REMARK 500 REMARK 500 THE FOLLOWING ATOMS THAT ARE RELATED BY CRYSTALLOGRAPHIC REMARK 500 SYMMETRY ARE IN CLOSE CONTACT. AN ATOM LOCATED WITHIN 0.15 REMARK 500 ANGSTROMS OF A SYMMETRY RELATED ATOM IS ASSUMED TO BE ON A REMARK 500 SPECIAL POSITION AND IS, THEREFORE, LISTED IN REMARK 375 REMARK 500 INSTEAD OF REMARK 500. ATOMS WITH NON-BLANK ALTERNATE REMARK 500 LOCATION INDICATORS ARE NOT INCLUDED IN THE CALCULATIONS. REMARK 500 REMARK 500 DISTANCE CUTOFF: REMARK 500 2.2 ANGSTROMS FOR CONTACTS NOT INVOLVING HYDROGEN ATOMS REMARK 500 1.6 ANGSTROMS FOR CONTACTS INVOLVING HYDROGEN ATOMS REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI SSYMOP DISTANCE REMARK 500 O HOH A 666 O HOH A 666 4765 2.02 REMARK 500 O HOH A 682 O HOH B 116 3665 2.02 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND LENGTHS 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,2(A3,1X,A1,I4,A1,1X,A4,3X),1X,F6.3) 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 RES CSSEQI ATM2 DEVIATION REMARK 500 CYS A 297 CB CYS A 297 SG -0.104 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 LYS A 137 -130.11 41.28 REMARK 500 PHE A 169 59.86 -116.83 REMARK 500 ALA A 262 -51.60 -135.17 REMARK 500 TYR A 337 77.22 -116.55 REMARK 500 REMARK 500 REMARK: NULL REMARK 525 REMARK 525 SOLVENT REMARK 525 REMARK 525 THE SOLVENT MOLECULES HAVE CHAIN IDENTIFIERS THAT REMARK 525 INDICATE THE POLYMER CHAIN WITH WHICH THEY ARE MOST REMARK 525 CLOSELY ASSOCIATED. THE REMARK LISTS ALL THE SOLVENT REMARK 525 MOLECULES WHICH ARE MORE THAN 5A AWAY FROM THE REMARK 525 NEAREST POLYMER CHAIN (M = MODEL NUMBER; REMARK 525 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE REMARK 525 NUMBER; I=INSERTION CODE): REMARK 525 REMARK 525 M RES CSSEQI REMARK 525 HOH A 755 DISTANCE = 5.97 ANGSTROMS REMARK 525 HOH A 756 DISTANCE = 6.40 ANGSTROMS REMARK 525 HOH A 757 DISTANCE = 6.52 ANGSTROMS REMARK 610 REMARK 610 MISSING HETEROATOM REMARK 610 THE FOLLOWING RESIDUES HAVE MISSING ATOMS (M=MODEL NUMBER; REMARK 610 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 610 I=INSERTION CODE): REMARK 610 M RES C SSEQI REMARK 610 1PE A 404 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 A 403 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 229 OD1 REMARK 620 2 THR A 231 OG1 98.6 REMARK 620 3 ASN A 233 OD1 87.0 80.0 REMARK 620 4 TYR A 235 O 97.4 153.9 80.5 REMARK 620 5 GLU A 240 OE1 133.4 100.8 137.9 82.6 REMARK 620 6 GLU A 240 OE2 99.2 68.8 148.8 128.2 51.3 REMARK 620 7 HOH A 539 O 162.2 65.0 83.3 95.7 60.4 81.9 REMARK 620 N 1 2 3 4 5 6 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue CL A 401 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue CL A 402 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue NA A 403 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue 1PE A 404 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 5HL0 RELATED DB: PDB REMARK 900 RELATED ID: 5HKW RELATED DB: PDB REMARK 900 RELATED ID: 5HKX RELATED DB: PDB REMARK 900 RELATED ID: 5HKZ RELATED DB: PDB DBREF 5HKY A 47 351 UNP P22681 CBL_HUMAN 47 351 DBREF 5HKY B 36 60 UNP O43597 SPY2_HUMAN 36 60 SEQADV 5HKY SER A 44 UNP P22681 EXPRESSION TAG SEQADV 5HKY ASN A 45 UNP P22681 EXPRESSION TAG SEQADV 5HKY ALA A 46 UNP P22681 EXPRESSION TAG SEQADV 5HKY ACE B 35 UNP O43597 ACETYLATION SEQRES 1 A 308 SER ASN ALA PRO PRO GLY THR VAL ASP LYS LYS MET VAL SEQRES 2 A 308 GLU LYS CYS TRP LYS LEU MET ASP LYS VAL VAL ARG LEU SEQRES 3 A 308 CYS GLN ASN PRO LYS LEU ALA LEU LYS ASN SER PRO PRO SEQRES 4 A 308 TYR ILE LEU ASP LEU LEU PRO ASP THR TYR GLN HIS LEU SEQRES 5 A 308 ARG THR ILE LEU SER ARG TYR GLU GLY LYS MET GLU THR SEQRES 6 A 308 LEU GLY GLU ASN GLU TYR PHE ARG VAL PHE MET GLU ASN SEQRES 7 A 308 LEU MET LYS LYS THR LYS GLN THR ILE SER LEU PHE LYS SEQRES 8 A 308 GLU GLY LYS GLU ARG MET TYR GLU GLU ASN SER GLN PRO SEQRES 9 A 308 ARG ARG ASN LEU THR LYS LEU SER LEU ILE PHE SER HIS SEQRES 10 A 308 MET LEU ALA GLU LEU LYS GLY ILE PHE PRO SER GLY LEU SEQRES 11 A 308 PHE GLN GLY ASP THR PHE ARG ILE THR LYS ALA ASP ALA SEQRES 12 A 308 ALA GLU PHE TRP ARG LYS ALA PHE GLY GLU LYS THR ILE SEQRES 13 A 308 VAL PRO TRP LYS SER PHE ARG GLN ALA LEU HIS GLU VAL SEQRES 14 A 308 HIS PRO ILE SER SER GLY LEU GLU ALA MET ALA LEU LYS SEQRES 15 A 308 SER THR ILE ASP LEU THR CYS ASN ASP TYR ILE SER VAL SEQRES 16 A 308 PHE GLU PHE ASP ILE PHE THR ARG LEU PHE GLN PRO TRP SEQRES 17 A 308 SER SER LEU LEU ARG ASN TRP ASN SER LEU ALA VAL THR SEQRES 18 A 308 HIS PRO GLY TYR MET ALA PHE LEU THR TYR ASP GLU VAL SEQRES 19 A 308 LYS ALA ARG LEU GLN LYS PHE ILE HIS LYS PRO GLY SER SEQRES 20 A 308 TYR ILE PHE ARG LEU SER CYS THR ARG LEU GLY GLN TRP SEQRES 21 A 308 ALA ILE GLY TYR VAL THR ALA ASP GLY ASN ILE LEU GLN SEQRES 22 A 308 THR ILE PRO HIS ASN LYS PRO LEU PHE GLN ALA LEU ILE SEQRES 23 A 308 ASP GLY PHE ARG GLU GLY PHE TYR LEU PHE PRO ASP GLY SEQRES 24 A 308 ARG ASN GLN ASN PRO ASP LEU THR GLY SEQRES 1 B 26 ACE GLN GLN VAL HIS VAL LEU SER LEU ASP GLN ILE ARG SEQRES 2 B 26 ALA ILE ARG ASN THR ASN GLU PTR THR GLU GLY PRO THR MODRES 5HKY PTR B 55 TYR MODIFIED RESIDUE HET PTR B 55 16 HET CL A 401 1 HET CL A 402 1 HET NA A 403 1 HET 1PE A 404 14 HETNAM PTR O-PHOSPHOTYROSINE HETNAM CL CHLORIDE ION HETNAM NA SODIUM ION HETNAM 1PE PENTAETHYLENE GLYCOL HETSYN PTR PHOSPHONOTYROSINE HETSYN 1PE PEG400 FORMUL 2 PTR C9 H12 N O6 P FORMUL 3 CL 2(CL 1-) FORMUL 5 NA NA 1+ FORMUL 6 1PE C10 H22 O6 FORMUL 7 HOH *282(H2 O) HELIX 1 AA1 ASP A 52 CYS A 70 1 19 HELIX 2 AA2 GLN A 71 ALA A 76 5 6 HELIX 3 AA3 TYR A 83 TYR A 102 1 20 HELIX 4 AA4 LYS A 105 ASN A 112 1 8 HELIX 5 AA5 ASN A 112 LYS A 137 1 26 HELIX 6 AA6 GLU A 138 GLU A 142 5 5 HELIX 7 AA7 SER A 145 PHE A 169 1 25 HELIX 8 AA8 PRO A 170 LEU A 173 5 4 HELIX 9 AA9 GLN A 175 PHE A 179 5 5 HELIX 10 AB1 LYS A 183 GLY A 195 1 13 HELIX 11 AB2 TRP A 202 HIS A 213 1 12 HELIX 12 AB3 SER A 217 ASP A 229 1 13 HELIX 13 AB4 VAL A 238 PHE A 248 1 11 HELIX 14 AB5 PRO A 250 SER A 252 5 3 HELIX 15 AB6 SER A 253 ALA A 262 1 10 HELIX 16 AB7 THR A 273 GLN A 282 1 10 HELIX 17 AB8 LYS A 283 ILE A 285 5 3 HELIX 18 AB9 PRO A 323 GLU A 334 1 12 SHEET 1 AA1 2 ILE A 199 PRO A 201 0 SHEET 2 AA1 2 TYR A 235 SER A 237 -1 O ILE A 236 N VAL A 200 SHEET 1 AA2 4 ILE A 314 THR A 317 0 SHEET 2 AA2 4 TRP A 303 VAL A 308 -1 N ILE A 305 O THR A 317 SHEET 3 AA2 4 SER A 290 LEU A 295 -1 N ARG A 294 O ALA A 304 SHEET 4 AA2 4 PHE A 339 PRO A 340 1 O PHE A 339 N TYR A 291 LINK C GLU B 54 N PTR B 55 1555 1555 1.33 LINK C PTR B 55 N THR B 56 1555 1555 1.32 LINK OD1 ASP A 229 NA NA A 403 1555 1555 2.22 LINK OG1 THR A 231 NA NA A 403 1555 1555 2.83 LINK OD1 ASN A 233 NA NA A 403 1555 1555 2.35 LINK O TYR A 235 NA NA A 403 1555 1555 2.32 LINK OE1 GLU A 240 NA NA A 403 1555 1555 2.61 LINK OE2 GLU A 240 NA NA A 403 1555 1555 2.41 LINK NA NA A 403 O HOH A 539 1555 1555 3.06 CISPEP 1 PRO A 81 PRO A 82 0 1.39 CISPEP 2 GLN A 249 PRO A 250 0 2.65 SITE 1 AC1 4 LYS A 183 PRO A 250 TRP A 251 HOH A 651 SITE 1 AC2 3 PHE A 179 ILE A 181 ARG A 191 SITE 1 AC3 6 ASP A 229 THR A 231 ASN A 233 TYR A 235 SITE 2 AC3 6 GLU A 240 HOH A 539 SITE 1 AC4 9 ARG A 206 HIS A 210 ILE A 215 SER A 217 SITE 2 AC4 9 GLY A 218 ARG A 280 ARG A 343 HOH A 679 SITE 3 AC4 9 HOH A 705 CRYST1 122.810 122.810 58.440 90.00 90.00 120.00 P 6 6 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 0.008143 0.004701 0.000000 0.00000 SCALE2 0.000000 0.009402 0.000000 0.00000 SCALE3 0.000000 0.000000 0.017112 0.00000