HEADER CYTOKINE 29-FEB-92 1ITA TITLE STRUCTURE AND FUNCTION OF INTERLEUKIN-1, BASED ON TITLE 2 CRYSTALLOGRAPHIC AND MODELING STUDIES COMPND MOL_ID: 1; COMPND 2 MOLECULE: INTERLEUKIN-1 ALPHA; COMPND 3 CHAIN: A; COMPND 4 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS KEYWDS CYTOKINE EXPDTA THEORETICAL MODEL AUTHOR B.VEERAPANDIAN REVDAT 1 31-OCT-93 1ITA 0 JRNL AUTH B.VEERAPANDIAN JRNL TITL STRUCTURE AND FUNCTION OF INTERLEUKIN-1, BASED ON JRNL TITL 2 CRYSTALLOGRAPHIC AND MODELING STUDIES JRNL REF BIOPHYS.J. V. 62 112 1992 JRNL REFN ASTM BIOJAU US ISSN 0006-3495 REMARK 1 REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : NULL REMARK 3 AUTHORS : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 1ITA COMPLIES WITH FORMAT V. 2.3, 09-JULY-1998 REMARK 5 REMARK 5 THE MODEL WAS BUILT ON THE BASIS OF SEQUENCE ALIGNMENT OF REMARK 5 INTERLEUKIN-1, ALPHA AND BETA, FROM VARIOUS SOURCES (SEE REMARK 5 TABLE 1 IN THE ABOVE REFERENCE AND REMARK 7) AND BY USING REMARK 5 THE THREE-DIMENSIONAL X-RAY STRUCTURE OF INTERLEUKIN-1 REMARK 5 BETA AS A TEMPLATE (PDB ENTRY 4I1B). THE SURFACE LOOPS REMARK 5 WERE BUILT BY HAND, BASED ON THE AVAILABLE LOOPS FROM THE REMARK 5 PROTEIN DATA BANK ENTRY. REMARK 6 REMARK 6 THE MODEL WAS FIRST ENERGY-MINIMIZED TO RELEASE SHORT REMARK 6 CONTACTS BY USING QUANTA (POLYGEN CO.), FOLLOWED BY REMARK 6 SIMULATED ANNEALING USING X-PLOR 2.1 (A.T.BRUNGER). A FEW REMARK 6 MORE CORRECTIONS WERE DONE ON THE PRESENT MODEL BASED ON REMARK 6 THE ALPHA CARBONS OF THE CRYSTALLOGRAPHIC STRUCTURE OF REMARK 6 INTERLEUKIN-1A (GRAVES, PERSONAL COMMUNICATIONS). REMARK 7 REMARK 7 ALIGNMENT OF PRIMARY SEQUENCES OF INTERLEUKIN-1B AND REMARK 7 INTERLEUKIN-1A BASED ON STRUCTURAL DETAILS. THE STRANDS REMARK 7 ARE NUMBERED B1 TO B12. REMARK 7 BRAT=IL-1B RAT, BMOU=IL-1B MOUSE, BRAB=IL-1B RABBIT, REMARK 7 BSHE=IL-1B SHEEP, BBOV=IL-1B BOVINE, BHUM=IL-1B HUMAN REMARK 7 ARAT=IL-1A RAT, AMOU=IL-1A MOUSE, ARAB=IL-1A RABBIT, REMARK 7 APOR=IL-1A PORCINE, ABOV=IL-1A BOVINE, AHUM=IL-1A HUMAN REMARK 7 REMARK 7 B1 B2 B3 REMARK 7 IL-1B NO. 3-------12 17--21 25--29 REMARK 7 BRAT VPIRQLHCRLRD EQQK CLVLS DP-C ELKAL REMARK 7 BMOU VPIRQLHYRLRD EQQK SLVLS DP-Y ELKAL REMARK 7 BRAB AVRSLHCRLQD AQQK SLVLS GT-Y ELKAL REMARK 7 BSHE AAVQSVKCKLQD REQK SLVLD SP-C VLKAL REMARK 7 BBOV APVQSIKCKLQD REQK SLVLA SP-C VLKAL REMARK 7 BHUM APVRSLNCTLRD SQQK SLVMS GP-Y ELKAL REMARK 7 AHUM SAPFSFLSNVKYNFMRIIKYEFILND ALNQ SIIRA ND-Q YLTAA REMARK 7 ABOV SAHYSFQSNVKYNFMRVIHQECILMD ALNQ SIIRD MSGP YLTAT REMARK 7 APOR SATYSFQSNMKYNFMRVINHQCILND ARNQ SIIRD PSGQ YLMAA REMARK 7 ARAB SVPYTFQRNMRYKYLRIIKQEFTLMD ALNQ SLVRD TSDQ YLRAA REMARK 7 AMOU SAPYTYQSDLRYKLMKLVRQKFVMND SLNQ TIYQD VDKH YLSTT REMARK 7 ARAT SAPHSFQNNLRYKLIRIVKQEFIMND SLNQ NIYVD MDRI HLKAA REMARK 7 IL-1B PRO NO. 119------128 133-137 141-145 REMARK 7 REMARK 7 B4 B5 B6 REMARK 7 IL-1B 40----------52 55-----62 66------74 REMARK 7 BRAT HLNGQNISQQ VVFSMSFVQGETS ND KIPVALGL KGK NLYLSCVMK DG REMARK 7 BMOU HLNGQNINQQ VIFSMSFVQGEPS ND KIPVALGL KGK NLYLSCVMK DG REMARK 7 BRAB HLNAENLNQQ VVFSMSFVQGEES ND KIPVALGL RGK NLYLSCVMK DD REMARK 7 BSHE HLLSQEMSRE VVFCMSFVQGEER DN KIPVALGI RDK NLYLSCVKK GD REMARK 7 BBOV HLLSQEMNRQ VVFCMSFVQGEER DN KIPVALGI KDK NLYLSCVKK GD REMARK 7 BHUM HLQGQDMEQQ VVFSMSFVQGEES ND KIPVALGL KEK NLYLSCVLK DD REMARK 7 AHUM ALH--NLDEA VKFDMGAYKSSKD DA KITVILRI SKT QLYVTAQD- -E REMARK 7 ABOV TLN--NLDDA VKFDMVAYVSEED -S QLPVTLRI SKT QLFVSAQN- -E REMARK 7 APOR VLN--NLDEA VKFBMAAYTSNDD -S QLPVTLRI SET RLFVSAQN- -E REMARK 7 ARAB PLQ--NLGDA VKFDMGVYMTSED -S ILPVTLRI SQT PLFVSAQN- -E REMARK 7 AMOU WLN--DLQQE VKFDMYAYSSGGD DS KYPVTLKI SDS QLFVSAQG- -E REMARK 7 ARAT SLN--DLQLE VKFDMYAYSSGGD DS KYPVTLKV SNT QLFVSAQG- -E REMARK 7 IL-1B 156---------168 171----178 182-----190 REMARK 7 REMARK 7 B7 B8 B9 REMARK 7 IL-1B 77----85 100---106 109--114 REMARK 7 BRAT TPTLQLESV D-PKQYPKKKMEKRF VFNKIEV KT KVEFES AQFPN REMARK 7 BMOU TPTLQLESV D-PKQYPKKKMEKRF VFNKIEV KS KVEFES AEFPN REMARK 7 BRAB KPTLQLESV D-PNRYPKKKMEKRF VFNKIEI KD KLEFES AQFPN REMARK 7 BSHE TPTLQLEEV D-PKVYPKRNMEKRF VFYKTEI KN TVEFES VLYPN REMARK 7 BBOV TPTLQLEEV D-PKVYPKRNMEKRF VFYKTEI KN TVEFES VLYPN REMARK 7 BHUM KPTLQLESV D-PKNYPKKKMEKRF VFNKIEI NN KLEFES AQFPN REMARK 7 AHUM DQPVLLKEM P-EIPKTITGSETNL LFFWETH GT KNYFTS VAHPN REMARK 7 ABOV DEPVLLKEM P---TPKIIKDETNL LFFWEKH GS MDYFKS VAHPK REMARK 7 APOR DEPVLLKEL P--ETPKTIKDEDSL LFFWEKH GN MDYFKS AAHPK REMARK 7 ARAB DEPVLLKEM P--TPRIITDSESDI LFFWETQ GN KNYFKS AANPQ REMARK 7 AMOU DQPVLLKEL P--TPKLITGSETDL IFFWKSI NS KNYFTS AAYPE REMARK 7 ARAT DKPVLLKEI P--TPKLITGSETDL IFFWEKI NS KNYFTS AAFPE REMARK 7 IL-1B 193---201 210 216---222 225--230 REMARK 7 REMARK 7 B10 B11 B12 REMARK 7 IL-1B 120-125 130--135 142-------152 REMARK 7 BRAT WYISTS QAEH RPVFLG NSNG--R DIVDFTMEPVSS 152 REMARK 7 BMOU WYISTS QAEH KPVFLG NNSG--Q DIIDFTMESVSS 152 REMARK 7 BRAB WYISTS QTEY MPVFLG NNSG--Q DLIDFSMEFVSS 152 REMARK 7 BSHE WYISTS QIEE KPVFLG RFRG-GQ DITDFRMETLSP 153 REMARK 7 BBOV WYISTS QIEE RPVFLG HFRA-GQ DITDFRMETLSP 153 REMARK 7 BHUM WYISTS QAEN MPVFLG GTKG-GQ DITDFTMQFVSS 153 REMARK 7 AHUM LFIATK Q--D YWVCLA GGP---P SITDFQILENQA 159 REMARK 7 ABOV LFIATK Q--E KLVHMA SGP---P SITDFQILEK-- 155 REMARK 7 APOR LFIATR Q--E KLVHMA PGL---P SVTDFQILENQS 158 REMARK 7 ARAB LFIATK P--E HLVHMA RGL---P SMTDFQIS---- 150 REMARK 7 AMOU LFIATK E--Q SRVHLA RGL---P SMTDFQIS---- 155 REMARK 7 ARAT LLIATK E--Q SQVHLA RGL---P SMIDFQIS---- 156 REMARK 7 IL-1B 236-241 246--251 258-------268 269 REMARK 220 REMARK 220 EXPERIMENTAL DETAILS REMARK 220 EXPERIMENT TYPE : THEORETICAL MODELLING REMARK 220 REMARK 220 REMARK: NULL REMARK 225 REMARK 225 THEORETICAL MODEL REMARK 225 THE COORDINATES IN THIS ENTRY REPRESENT A MODEL STRUCTURE. REMARK 225 PROTEIN DATA BANK CONVENTIONS REQUIRE THAT CRYST1 AND REMARK 225 SCALE RECORDS BE INCLUDED, BUT THE VALUES ON THESE REMARK 225 RECORDS ARE MEANINGLESS. 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),F6.3) REMARK 500 REMARK 500 EXPECTED VALUES: ENGH AND HUBER, 1991 REMARK 500 REMARK 500 M RES CSSEQI ATM1 RES CSSEQI ATM2 DEVIATION REMARK 500 HIS A 46 NE2 HIS A 46 CD2 -0.072 REMARK 500 TRP A 113 CD1 TRP A 113 NE1 -0.067 REMARK 500 HIS A 116 NE2 HIS A 116 CD2 -0.071 REMARK 500 HIS A 127 NE2 HIS A 127 CD2 -0.070 REMARK 500 TRP A 139 CD1 TRP A 139 NE1 -0.069 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 M RES CSSEQI PSI PHI REMARK 500 LEU A 48 -68.53 64.20 REMARK 500 GLU A 97 140.17 65.39 DBREF 1ITA A 9 159 UNP P01583 IL1A_HUMAN 121 271 SEQRES 1 A 151 ASN VAL LYS TYR ASN PHE MET ARG ILE ILE LYS TYR GLU SEQRES 2 A 151 PHE ILE LEU ASN ASP ALA LEU ASN GLN SER ILE ILE ARG SEQRES 3 A 151 ALA ASN ASP GLN TYR LEU THR ALA ALA ALA LEU HIS ASN SEQRES 4 A 151 LEU ASP GLU ALA VAL LYS PHE ASP MET GLY ALA TYR LYS SEQRES 5 A 151 SER SER LYS ASP ASP ALA LYS ILE THR VAL ILE LEU ARG SEQRES 6 A 151 ILE SER LYS THR GLN LEU TYR VAL THR ALA GLN ASP GLU SEQRES 7 A 151 ASP GLN PRO VAL LEU LEU LYS GLU MET PRO GLU ILE PRO SEQRES 8 A 151 LYS THR ILE THR GLY SER GLU THR ASN LEU LEU PHE PHE SEQRES 9 A 151 TRP GLU THR HIS GLY THR LYS ASN TYR PHE THR SER VAL SEQRES 10 A 151 ALA HIS PRO ASN LEU PHE ILE ALA THR LYS GLN ASP TYR SEQRES 11 A 151 TRP VAL CYS LEU ALA GLY GLY PRO PRO SER ILE THR ASP SEQRES 12 A 151 PHE GLN ILE LEU GLU ASN GLN ALA FTNOTE 1 RESIDUE 147 IS A CIS PROLINE. HELIX 1 1 THR A 103 ASN A 108 5 6 SHEET 1 A 2 SER A 31 ARG A 34 0 SHEET 2 A 2 LEU A 40 ALA A 43 -1 N THR A 41 O ILE A 33 SHEET 1 B 2 LEU A 79 THR A 82 0 SHEET 2 B 2 LEU A 91 GLU A 94 -1 O LEU A 91 N THR A 82 SHEET 1 C 2 PHE A 131 ILE A 132 0 SHEET 2 C 2 LEU A 142 ALA A 143 -1 N ALA A 143 O PHE A 131 CISPEP 1 PRO A 146 PRO A 147 0 -2.93 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 MASTER 142 1 0 1 6 0 0 6 0 0 0 12 END