PDB Short entry for 2KZ1 HEADER ANTIVIRAL PROTEIN 10-JUN-10 2KZ1 TITLE INTER-MOLECULAR INTERACTIONS IN A 44 KDA INTERFERON-RECEPTOR COMPLEX TITLE 2 DETECTED BY ASYMMETRIC BACK-PROTONATION AND 2D NOESY COMPND MOL_ID: 1; COMPND 2 MOLECULE: INTERFERON ALPHA-2; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: IFN-ALPHA-2, INTERFERON ALPHA-A, LEIF A; COMPND 5 ENGINEERED: YES; COMPND 6 MOL_ID: 2; COMPND 7 MOLECULE: SOLUBLE IFN ALPHA/BETA RECEPTOR; COMPND 8 CHAIN: B; 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: IFNA2; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: ROSETTA; SOURCE 9 EXPRESSION_SYSTEM_VECTOR: PTZT7U18; SOURCE 10 MOL_ID: 2; SOURCE 11 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 12 ORGANISM_COMMON: HUMAN; SOURCE 13 ORGANISM_TAXID: 9606; SOURCE 14 GENE: IFNABR; SOURCE 15 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 16 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 17 EXPRESSION_SYSTEM_STRAIN: ROSETTA; SOURCE 18 EXPRESSION_SYSTEM_VECTOR: PTZT7U18 KEYWDS INTERFERON, RECEPTOR, DOCKING, COMPLEX, ANTIVIRAL DEFENSE, CYTOKINE, KEYWDS 2 DISULFIDE BOND, GLYCOPROTEIN, SECRETED, ANTIVIRAL PROTEIN EXPDTA SOLUTION NMR NUMMDL 10 AUTHOR I.NUDELMAN,S.R.AKABAYOV,E.SCHNUR,Z.BIRON,R.LEVY,Y.XU,D.YANG, AUTHOR 2 J.ANGLISTER REVDAT 3 18-AUG-21 2KZ1 1 REMARK REVDAT 2 07-JUL-10 2KZ1 1 JRNL REVDAT 1 23-JUN-10 2KZ1 0 SPRSDE 23-JUN-10 2KZ1 2KSX JRNL AUTH I.NUDELMAN,S.R.AKABAYOV,E.SCHNUR,Z.BIRON,R.LEVY,Y.XU,D.YANG, JRNL AUTH 2 J.ANGLISTER JRNL TITL INTERMOLECULAR INTERACTIONS IN A 44 KDA INTERFERON-RECEPTOR JRNL TITL 2 COMPLEX DETECTED BY ASYMMETRIC REVERSE-PROTONATION AND JRNL TITL 3 TWO-DIMENSIONAL NOESY JRNL REF BIOCHEMISTRY V. 49 5117 2010 JRNL REFN ISSN 0006-2960 JRNL PMID 20496919 JRNL DOI 10.1021/BI100041F REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : HADDOCK 2.0 REMARK 3 AUTHORS : DOMINGUEZ ET AL. REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: 1000 CONFORMERS WERE OBTAINED IN THE REMARK 3 RIGID BODY DOCKING AND 200 BEST CONFORMERS WERE SELECTED FOR REMARK 3 SEMI-FLEXIBLE SIMULATED ANNEALING FOLLOWED BY REFINEMENT IN WATER REMARK 4 REMARK 4 2KZ1 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 11-JUN-10. REMARK 100 THE DEPOSITION ID IS D_1000101751. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 305 REMARK 210 PH : 8.0 REMARK 210 IONIC STRENGTH : 25 REMARK 210 PRESSURE : AMBIENT REMARK 210 SAMPLE CONTENTS : 0.25 MM [U-99% 2H] INTERFERON REMARK 210 ALPHA, 0.25 MM [U-99% 2H] REMARK 210 SOLUBLE IFN ALPHA/BETA RECEPTOR, REMARK 210 25 MM [U-2H] TRIS, 0.02 % SODIUM REMARK 210 AZIDE, 100% D2O; 0.25 MM [U-99% REMARK 210 2H, 1H-K,R,L,A,M] INTERFERON REMARK 210 ALPHA2, 0.25 MM [U-99% 2H, 1H-H, REMARK 210 F,W] SOLUBLE IFN ALPHA/BETA REMARK 210 RECEPTOR, 25 MM [U-2H] TRIS, REMARK 210 0.02 % SODIUM AZIDE, 100% D2O; REMARK 210 0.25 MM [U-99% 2H, 1H-L] REMARK 210 INTERFERON ALPHA2, 0.25 MM [U-99% REMARK 210 2H, 1H-H,W] SOLUBLE IFN ALPHA/ REMARK 210 BETA RECEPTOR, 25 MM [U-2H] TRIS, REMARK 210 0.02 % SODIUM AZIDE, 100% D2O; REMARK 210 0.25 MM [15N] INTERFERON ALPHA2, REMARK 210 0.25 MM [1H] SOLUBLE IFN ALPHA/ REMARK 210 BETA RECEPTOR, 25 MM [U-2H] TRIS, REMARK 210 0.02 % SODIUM AZIDE, 95% H2O/5% REMARK 210 D2O; 0.25 MM [1H] INTERFERON REMARK 210 ALPHA2, 0.25 MM [15N] SOLUBLE REMARK 210 IFN ALPHA/BETA RECEPTOR, 25 MM REMARK 210 [U-2H] TRIS, 0.02 % SODIUM AZIDE, REMARK 210 95% H2O/5% D2O REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 2D 1H-1H NOESY; 3D 15N NOESY REMARK 210 SPECTROMETER FIELD STRENGTH : 800 MHZ REMARK 210 SPECTROMETER MODEL : DRX REMARK 210 SPECTROMETER MANUFACTURER : BRUKER REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : NMRPIPE 2.3, XWINNMR 3, NMRVIEW REMARK 210 5.2.2 REMARK 210 METHOD USED : SIMULATED ANNEALING, MOLECULAR REMARK 210 DYNAMICS REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 200 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 10 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: DIMERIC 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. (RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 465 SSSEQ=SEQUENCE NUMBER; I=INSERTION CODE.) REMARK 465 MODELS 1-10 REMARK 465 RES C SSSEQI REMARK 465 SER B 1 REMARK 465 TYR B 2 REMARK 465 ASP B 3 REMARK 465 SER B 4 REMARK 465 PRO B 5 REMARK 465 ASP B 6 REMARK 465 TYR B 7 REMARK 465 THR B 8 REMARK 465 ASP B 9 REMARK 465 GLU B 10 REMARK 465 GLN B 207 REMARK 465 GLU B 208 REMARK 465 SER B 209 REMARK 465 GLU B 210 REMARK 465 PHE B 211 REMARK 465 SER B 212 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 OE1 GLU A 141 HH21 ARG A 144 1.54 REMARK 500 HH21 ARG A 12 OD1 ASP B 138 1.55 REMARK 500 HZ2 LYS B 153 OE2 GLU B 190 1.59 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 CYS A 29 76.77 -113.19 REMARK 500 1 LYS A 31 -61.17 -121.11 REMARK 500 1 PHE A 43 -59.43 -126.51 REMARK 500 1 GLN A 46 -59.44 72.68 REMARK 500 1 GLN A 48 -89.07 -142.66 REMARK 500 1 ALA A 50 -26.30 70.88 REMARK 500 1 VAL A 105 -67.08 -106.07 REMARK 500 1 THR A 106 42.98 -82.14 REMARK 500 1 PRO A 109 -153.15 -68.61 REMARK 500 1 LEU A 161 31.22 -145.86 REMARK 500 1 PHE B 21 10.64 55.76 REMARK 500 1 SER B 33 -56.31 -129.50 REMARK 500 1 PRO B 49 38.39 -76.50 REMARK 500 1 ASP B 51 75.92 -103.23 REMARK 500 1 ASN B 57 -27.11 75.81 REMARK 500 1 THR B 69 -59.52 -127.46 REMARK 500 1 SER B 87 74.87 -102.45 REMARK 500 1 ASN B 89 27.74 -140.00 REMARK 500 1 ASP B 104 -92.43 -96.38 REMARK 500 1 SER B 106 101.77 -58.33 REMARK 500 1 ASN B 119 -10.33 -143.06 REMARK 500 1 ASN B 176 44.08 73.42 REMARK 500 1 HIS B 187 -84.76 -121.92 REMARK 500 1 LYS B 195 95.57 -69.81 REMARK 500 1 PRO B 197 106.00 -43.12 REMARK 500 1 PRO B 204 123.64 -35.01 REMARK 500 2 THR A 6 -72.68 -78.43 REMARK 500 2 CYS A 29 56.94 -106.65 REMARK 500 2 LYS A 31 -50.21 -162.14 REMARK 500 2 PHE A 43 -61.71 -130.47 REMARK 500 2 GLN A 46 -62.02 72.04 REMARK 500 2 ALA A 50 -5.15 64.38 REMARK 500 2 VAL A 105 -58.24 -121.09 REMARK 500 2 PRO A 109 -160.62 -72.68 REMARK 500 2 SER A 160 39.00 -81.29 REMARK 500 2 PHE B 21 13.25 54.11 REMARK 500 2 ASN B 57 -25.99 77.11 REMARK 500 2 THR B 69 -49.08 -138.37 REMARK 500 2 ASN B 89 -50.80 -148.59 REMARK 500 2 ASP B 104 -91.04 -104.55 REMARK 500 2 SER B 106 98.82 -61.03 REMARK 500 2 GLU B 108 -44.55 -173.62 REMARK 500 2 PHE B 137 115.51 -170.25 REMARK 500 2 ASP B 171 -155.37 -130.79 REMARK 500 2 LYS B 172 32.34 70.71 REMARK 500 2 ASN B 176 61.28 65.52 REMARK 500 2 HIS B 187 -92.72 -138.92 REMARK 500 2 VAL B 193 80.72 -67.79 REMARK 500 2 PRO B 204 108.92 -33.80 REMARK 500 3 CYS A 29 47.41 -106.65 REMARK 500 REMARK 500 THIS ENTRY HAS 272 RAMACHANDRAN OUTLIERS. REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 16677 RELATED DB: BMRB DBREF 2KZ1 A 1 165 UNP P01563 IFNA2_HUMAN 24 188 DBREF 2KZ1 B 1 212 UNP Q15467 Q15467_HUMAN 28 239 SEQRES 1 A 165 CYS ASP LEU PRO GLN THR HIS SER LEU GLY SER ARG ARG SEQRES 2 A 165 THR LEU MET LEU LEU ALA GLN MET ARG LYS ILE SER LEU SEQRES 3 A 165 PHE SER CYS LEU LYS ASP ARG HIS ASP PHE GLY PHE PRO SEQRES 4 A 165 GLN GLU GLU PHE GLY ASN GLN PHE GLN LYS ALA GLU THR SEQRES 5 A 165 ILE PRO VAL LEU HIS GLU MET ILE GLN GLN ILE PHE ASN SEQRES 6 A 165 LEU PHE SER THR LYS ASP SER SER ALA ALA TRP ASP GLU SEQRES 7 A 165 THR LEU LEU ASP LYS PHE TYR THR GLU LEU TYR GLN GLN SEQRES 8 A 165 LEU ASN ASP LEU GLU ALA CYS VAL ILE GLN GLY VAL GLY SEQRES 9 A 165 VAL THR GLU THR PRO LEU MET LYS GLU ASP SER ILE LEU SEQRES 10 A 165 ALA VAL ARG LYS TYR PHE GLN ARG ILE THR LEU TYR LEU SEQRES 11 A 165 LYS GLU LYS LYS TYR SER PRO CYS ALA TRP GLU VAL VAL SEQRES 12 A 165 ARG ALA GLU ILE MET ARG SER PHE SER LEU SER THR ASN SEQRES 13 A 165 LEU GLN GLU SER LEU ARG SER LYS GLU SEQRES 1 B 212 SER TYR ASP SER PRO ASP TYR THR ASP GLU SER CYS THR SEQRES 2 B 212 PHE LYS ILE SER LEU ARG ASN PHE ARG SER ILE LEU SER SEQRES 3 B 212 TRP GLU LEU LYS ASN HIS SER ILE VAL PRO THR HIS TYR SEQRES 4 B 212 THR LEU LEU TYR THR ILE MET SER LYS PRO GLU ASP LEU SEQRES 5 B 212 LYS VAL VAL LYS ASN CYS ALA ASN THR THR ARG SER PHE SEQRES 6 B 212 CYS ASP LEU THR ASP GLU TRP ARG SER THR HIS GLU ALA SEQRES 7 B 212 TYR VAL THR VAL LEU GLU GLY PHE SER GLY ASN THR THR SEQRES 8 B 212 LEU PHE SER CYS SER HIS ASN PHE TRP LEU ALA ILE ASP SEQRES 9 B 212 MET SER PHE GLU PRO PRO GLU PHE GLU ILE VAL GLY PHE SEQRES 10 B 212 THR ASN HIS ILE ASN VAL MET VAL LYS PHE PRO SER ILE SEQRES 11 B 212 VAL GLU GLU GLU LEU GLN PHE ASP LEU SER LEU VAL ILE SEQRES 12 B 212 GLU GLU GLN SER GLU GLY ILE VAL LYS LYS HIS LYS PRO SEQRES 13 B 212 GLU ILE LYS GLY ASN MET SER GLY ASN PHE THR TYR ILE SEQRES 14 B 212 ILE ASP LYS LEU ILE PRO ASN THR ASN TYR CYS VAL SER SEQRES 15 B 212 VAL TYR LEU GLU HIS SER ASP GLU GLN ALA VAL ILE LYS SEQRES 16 B 212 SER PRO LEU LYS CYS THR LEU LEU PRO PRO GLY GLN GLU SEQRES 17 B 212 SER GLU PHE SER HELIX 1 1 LEU A 9 MET A 21 1 13 HELIX 2 2 SER A 25 CYS A 29 5 5 HELIX 3 3 THR A 52 SER A 68 1 17 HELIX 4 4 ASP A 71 ALA A 75 5 5 HELIX 5 5 ASP A 77 GLN A 101 1 25 HELIX 6 6 LEU A 110 LYS A 133 1 24 HELIX 7 7 SER A 136 SER A 160 1 25 HELIX 8 8 VAL B 131 LEU B 135 5 5 SHEET 1 A 3 THR B 13 ARG B 19 0 SHEET 2 A 3 ARG B 22 GLU B 28 -1 O GLU B 28 N THR B 13 SHEET 3 A 3 PHE B 65 ASP B 67 -1 O CYS B 66 N LEU B 25 SHEET 1 B 4 LYS B 53 VAL B 54 0 SHEET 2 B 4 HIS B 38 THR B 44 -1 N TYR B 43 O LYS B 53 SHEET 3 B 4 ALA B 78 PHE B 86 -1 O VAL B 82 N LEU B 42 SHEET 4 B 4 THR B 91 TRP B 100 -1 O LEU B 92 N GLY B 85 SHEET 1 C 3 GLU B 111 GLY B 116 0 SHEET 2 C 3 ILE B 121 LYS B 126 -1 O MET B 124 N GLU B 113 SHEET 3 C 3 ASN B 165 ILE B 170 -1 O TYR B 168 N VAL B 123 SHEET 1 D 4 ILE B 150 HIS B 154 0 SHEET 2 D 4 SER B 140 SER B 147 -1 N ILE B 143 O HIS B 154 SHEET 3 D 4 ASN B 178 GLU B 186 -1 O TYR B 184 N VAL B 142 SHEET 4 D 4 LYS B 199 LEU B 202 -1 O THR B 201 N TYR B 179 SSBOND 1 CYS A 1 CYS A 98 1555 1555 2.03 SSBOND 2 CYS A 29 CYS A 138 1555 1555 2.03 SSBOND 3 CYS B 12 CYS B 95 1555 1555 2.03 SSBOND 4 CYS B 58 CYS B 66 1555 1555 2.03 SSBOND 5 CYS B 180 CYS B 200 1555 1555 2.03 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