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(-) Description

Title :  CRYSTAL STRUCTURE OF CC CHEMOKINE RECEPTOR 5 (CCR5) IN COMPLEX WITH HIGH POTENCY HIV ENTRY INHIBITOR 5P7-CCL5
 
Authors :  Y. Zheng, L. Qin, G. W. Han, M. Gustavsson, T. Kawamura, R. C. Stevens, V. I. Kufareva, T. M. Handel
Date :  15 Jan 17  (Deposition) - 28 Jun 17  (Release) - 28 Jun 17  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.20
Chains :  Asym./Biol. Unit :  A,B
Keywords :  G-Protein Coupled Receptor, Chemokine Receptor, Hiv Entry Inhibitor, Hiv-1 R5 Isolates Co-Receptor, Receptor-Ligand Complex, Signaling Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  Y. Zheng, L. Qin, G. W. Han, M. Gustavsson, T. Kawamura, R. Abagyan, R. C. Stevens, V. Cherezov, I. Kufareva, T. M. Handel
Structural Basis Of High Potency Anti-Hiv Chemokine Activit
Immunity 2017
PubMed: search  |  Reference-DOI: 10.1016/J.IMMUNI.2017.05.002

(-) Compounds

Molecule 1 - C-C CHEMOKINE RECEPTOR TYPE 5,RUBREDOXIN CHIMERA
    Chains: A
    Engineered: YES
    Expression System: SPODOPTERA FRUGIPERDA
    Expression System Atcc Number: CRL-1711
    Expression System Cell Line: SF9
    Expression System Organ: OVARY
    Expression System Plasmid: PFASTBAC-1
    Expression System Taxid: 7108
    Expression System Vector Type: BACMID
    Gene: CCR5, CMKBR5
    Mutation: YES
    Organism Common: HUMAN
    Organism Scientific: HOMO SAPIENS, CLOSTRIDIUM PASTEURIANUM
    Organism Taxid: 9606, 1501
    Other Details: RUBREDOXIN FUSION SEQUENCE P00268;
IN BETWEEN CCR5 RESIDUE 223 AND 227 MKKYTCTVCGYIYNPEDGDPDNGVNPGTDFKDIPDDWVCPLCGVGKDQFEEVEE
    Synonym: CCR5,CHEMR13,HIV-1 FUSION CORECEPTOR,RD,CCR5,CHEMR13,HIV-1 FUSION CORECEPTOR
 
Molecule 2 - C-C MOTIF CHEMOKINE 5
    Chains: B
    Engineered: YES
    Expression System: SPODOPTERA FRUGIPERDA
    Expression System Atcc Number: CRL-1711
    Expression System Cell Line: SF9
    Expression System Plasmid: PFASTBAC-1
    Expression System Taxid: 7108
    Expression System Vector Type: BACMID
    Gene: CCL5, D17S136E, SCYA5
    Organism Common: HUMAN
    Organism Scientific: HOMO SAPIENS
    Organism Taxid: 9606
    Other Details: SEQUENCE BEFORE CC MOTIF "QGPPLMALQS" (WHERE THE FIRST RESIDUE Q IS PCA AS GLUTAMINE IS CYCLIZED INTO PYROGLUTAMIC ACID RESIDUE) IS ARTIFICIAL TO REPLACE NATIVE SEQUENCE "SPYSSDTTP". AS THE REGISTER 0 FOR PCA, ALL THE REST OF RESIDUE NUMBERS ARE CONSISTENT FOR CHEMOKINE RESIDUES.
    Synonym: EOCP,EOSINOPHIL CHEMOTACTIC CYTOKINE,SIS-DELTA,SMALL- INDUCIBLE CYTOKINE A5,T CELL-SPECIFIC PROTEIN P228,TCP228,T-CELL- SPECIFIC PROTEIN RANTES

 Structural Features

(-) Chains, Units

  12
Asymmetric/Biological Unit : AB

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (4, 10)

Asymmetric/Biological Unit (4, 10)
No.NameCountTypeFull Name
1OLA2Ligand/IonOLEIC ACID
2OLC6Ligand/Ion(2R)-2,3-DIHYDROXYPROPYL (9Z)-OCTADEC-9-ENOATE
3PCA1Mod. Amino AcidPYROGLUTAMIC ACID
4ZN1Ligand/IonZINC ION

(-) Sites  (9, 9)

Asymmetric Unit (9, 9)
No.NameEvidenceResiduesDescription
1AC1SOFTWARECYS A:1006 , CYS A:1009 , CYS A:1039 , CYS A:1042binding site for residue ZN A 1101
2AC2SOFTWAREPHE A:189 , ASN A:192 , PHE A:193 , LEU A:196 , OLC A:1107 , HOH A:1230binding site for residue OLC A 1102
3AC3SOFTWAREPHE A:85binding site for residue OLC A 1103
4AC4SOFTWAREALA A:249 , LEU A:266 , ARG A:274binding site for residue OLC A 1104
5AC5SOFTWAREGLN A:277 , ALA A:278binding site for residue OLC A 1105
6AC6SOFTWARESER A:38 , HIS A:88binding site for residue OLC A 1106
7AC7SOFTWAREASN A:24 , ILE A:28 , LEU A:32 , PHE A:189 , GLN A:277 , OLC A:1102binding site for residue OLC A 1107
8AC8SOFTWAREARG A:235 , OLA A:1109binding site for residue OLA A 1108
9AC9SOFTWAREILE A:242 , OLA A:1108binding site for residue OLA A 1109

(-) SS Bonds  (4, 4)

Asymmetric/Biological Unit
No.Residues
1A:20 -A:269
2A:101 -A:178
3B:10 -B:34
4B:11 -B:50

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 5UIW)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 5UIW)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 5UIW)

(-) Exons   (0, 0)

(no "Exon" information available for 5UIW)

(-) Sequences/Alignments

Asymmetric/Biological Unit
   Reformat: Number of residues per line =  ('0' or empty: single-line sequence representation)
  Number of residues per labelling interval =   
  UniProt sequence: complete  aligned part    
   Show mapping: SCOP domains CATH domains Pfam domains Secondary structure (by author)
SAPs(SNPs) PROSITE motifs Exons
(details for a mapped element are shown in a popup box when the mouse pointer rests over it) 
Chain A from PDB  Type:PROTEIN  Length:352
                                                                                                                                                                                                                                                                                                                                                                                                 
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ......hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh....hhhhhhhhhhhhhhhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhheeeeee..eeeeee..hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh....eee.....ee.....hhhhh.....hhhhh...........hhh.eeehhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.......hhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                5uiw A   16 TSEPCQKINVKQIAARLLPPLYSLVFIFGFVGNMLVILILINYKRLKSMTDIYLLNLAISDLFFLLTVPFWAHYAAAQWDFGNTMCQLLTGLYFIGFFSGIFFIILLTIDRYLAVVHAVFALKARTVTFGVVTSVITWVVAVFASLPNIIFTRSQKEGLHYTCSSHFPYSQYQFWKNFQTLKIVILGLVLPLLVMVICYSGILKTLLRMKKYTCTVCGYIYNPEDGDPDNGVNPGTDFKDIPDDWVCPLCGVGKDQFEEVEEEKKRHRDVRLIFTIMIVYFLFWAPYNIVLLLNTFQEFFGLNNCSSSNRLDQAMQVTETLGMTHCCINPIIYAFVGEEFRNYLLVFFQKHI  316
                                    25        35        45        55        65        75        85        95       105       115       125       135       145       155       165       175       185       195       205       215      1002      1012      1022      1032      1042      1052 ||    234       244       254       264       274       284       294       304       314  
                                                                                                                                                                                                                                         223|                                                 1054|                                                                                         
                                                                                                                                                                                                                                         1001                                                   227                                                                                         


Chain B from PDB  Type:PROTEIN  Length:68
                                                                                                     
               SCOP domains -------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....hhhhh...........hhh.eeeeee.........eeeee....eeee...hhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------- Transcript
                5uiw B    0 xGPPLMALQSCCFAYIARPLPRAHIKEYFYTSGKCSNPAVVFVTRKNRQVCANPEKKWVREYINSLEM   67
                            |        9        19        29        39        49        59        
                            0-PCA
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  x → Chemical Group (purple background, 'x', labelled with number + name, e.g. ACE or NH2)
  extra numbering lines below/above indicate numbering irregularities and modified residue names etc., number ends below/above '|'

 Classification and Annotation

(-) SCOP Domains  (0, 0)

(no "SCOP Domain" information available for 5UIW)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 5UIW)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 5UIW)

(-) Gene Ontology  (151, 165)

Asymmetric/Biological Unit(hide GO term definitions)

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 Related Entries

(-) Entries Sharing at Least One Protein Chain (UniProt ID)

UniProtKB/Swiss-Prot
        CCL5_HUMAN | P13501: 1b3a 1eqt 1hrj 1rtn 1rto 1u4l 1u4m 1u4p 1u4r 2l9h 2vxw 5cmd 5coy 5dnf
        CCR5_HUMAN | P51681: 1nd8 1ne0 1opn 1opt 1opw 2l87 2mzx 2rll 2rrs 4mbs
        RUBR_CLOPA | P00268: 1b13 1b2j 1b2o 1be7 1bfy 1c09 1fhh 1fhm 1irn 1iro 1r0f 1r0g 1r0h 1r0i 1r0j 1smm 1smu 1smw 1t9o 1t9p 1t9q 2pve 4mbs 4rxn 4xnv 4xnw 5rxn 5vbl

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