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(-) Description

Title :  STRUCTURE OF APELIN RECEPTOR IN COMPLEX WITH AGONIST PEPTIDE
 
Authors :  Y. Ma, Y. Yue, Y. Ma, Q. Zhang, Q. Zhou, Y. Song, Y. Shen, X. Li, X. Ma, C. Li, M. A. Hanson, G. W. Han, E. A. Sickmier, G. Swaminath, S. Zhao, R. C. Stev L. A. Hu, W. Zhong, M. Zhang, F. Xu
Date :  29 Mar 17  (Deposition) - 31 May 17  (Release) - 31 May 17  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.60
Chains :  Asym./Biol. Unit :  A,B
Keywords :  Human Apelin Receptor Complex, Agonist Peptide, Amg3054, Gpcr, Rubredoxin, Membrane Protein, Lcp, Synchrotron Radiation, Peptide- Gcpr Recognition, Cardiovascular Drug Target, Specific Recognition, Binding Specificity, Designed Agonist Peptide Mimic (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  Y. Ma, Y. Yue, Y. Ma, Q. Zhang, Q. Zhou, Y. Song, Y. Shen, X. Li, X. Ma, C. Li M. A. Hanson, G. W. Han, E. A. Sickmier, G. Swaminath, S. Zhao, R. C. Stevems, L. A. Hu, W. Zhong, M. Zhang, F. Xu
Structural Basis For Apelin Control Of The Human Apelin Receptor
Structure 2017
PubMed: search  |  Reference-DOI: 10.1016/J.STR.2017.04.008

(-) Compounds

Molecule 1 - AGONIST PEPTIDE
    Chains: A
    Engineered: YES
    Organism Scientific: HOMO SAPIENS
    Organism Taxid: 9606
    Synthetic: YES
 
Molecule 2 - APELIN RECEPTOR,RUBREDOXIN,APELIN RECEPTOR CHIMERA
    Chains: B
    Engineered: YES
    Expression System: SPODOPTERA FRUGIPERDA
    Expression System Taxid: 7108
    Fragment: UNP RESIDUES 7-229, UNP RESIDUES 1-54, UNP RESIDUES 243- 330
    Gene: APLNR, AGTRL1, APJ
    Mutation: YES
    Organism Common: HUMAN
    Organism Scientific: HOMO SAPIENS, CLOSTRIDIUM PASTEURIANUM
    Organism Taxid: 9606, 1501
    Synonym: ANGIOTENSIN RECEPTOR-LIKE 1,G-PROTEIN COUPLED RECEPTOR APJ, G-PROTEIN COUPLED RECEPTOR HG11,RD

 Structural Features

(-) Chains, Units

  12
Asymmetric/Biological Unit : AB

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (7, 7)

Asymmetric/Biological Unit (7, 7)
No.NameCountTypeFull Name
12001Mod. Amino Acid4-CHLORO-L-PHENYLALANINE
2ALC1Mod. Amino Acid2-AMINO-3-CYCLOHEXYL-PROPIONIC ACID
3HRG1Mod. Amino AcidL-HOMOARGININE
4NLE1Mod. Amino AcidNORLEUCINE
5OIC1Mod. Amino AcidOCTAHYDROINDOLE-2-CARBOXYLIC ACID
6OLC1Ligand/Ion(2R)-2,3-DIHYDROXYPROPYL (9Z)-OCTADEC-9-ENOATE
7ZN1Ligand/IonZINC ION

(-) Sites  (4, 4)

Asymmetric Unit (4, 4)
No.NameEvidenceResiduesDescription
1AC1SOFTWARECYS B:1006 , CYS B:1009 , CYS B:1039 , CYS B:1042binding site for residue ZN B 1101
2AC2SOFTWAREPHE B:110 , TYR B:114 , LEU B:160 , PRO B:163 , VAL B:164 , LEU B:201 , GLY B:202 , LYS B:268binding site for residue OLC B 1102
3AC3SOFTWAREARG A:6 , PRO A:7 , GLU A:10 , GLU B:20 , TYR B:21 , THR B:22 , ASP B:23 , ASN B:175binding site for residues HRG A 8 and ALC A 9
4AC4SOFTWARELYS A:13 , PRO A:16 , 200 A:17 , MET B:183 , GLU B:198 , TYR B:271 , PHE B:291binding site for residues OIC A 14 and NLE A 15

(-) SS Bonds  (2, 2)

Asymmetric/Biological Unit
No.Residues
1B:19 -B:281
2B:102 -B:181

(-) Cis Peptide Bonds  (0, 0)

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

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 5VBL)

(-) 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:17
                                                  
               SCOP domains ----------------- SCOP domains
               CATH domains ----------------- CATH domains
               Pfam domains ----------------- Pfam domains
         Sec.struct. author ................. Sec.struct. author
                 SAPs(SNPs) ----------------- SAPs(SNPs)
                    PROSITE ----------------- PROSITE
                 Transcript ----------------- Transcript
                5vbl A    1 KFRRQRPxxEHKKxxPx   17
                                   |10   || |
                                   8-HRG || |
                                    9-ALC|| |
                                        14-OIC
                                         15-NLE
                                           17-200


Chain B from PDB  Type:PROTEIN  Length:353
                                                                                                                                                                                                                                                                                                                                                                                                  
               SCOP domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..........hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhhhhhh.....hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhheeee........eeee.........hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh...eee.....ee.....hhhhh.....hhhhh...........hhh.eee....hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.... Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                5vbl B   19 CEYTDWKSSGALIPAIYMLVFLLGTTGNGLVLWTVFRSSREKRRSADIFIASLAVADLTFVVTLPLWATYTYRDYDWPFGTFFCKLSSYLIFVNMYASAFCLTGLSFDRYLAIVRPVANARLRLRVSGAVATAVLWVLAALLAMPVMVLRTTGDLENTNKVQCYMDYSMVATVSSEWAWEVGLGVSSTTVGFVVPFTIMLTCYFFIAQTIAMKKYTCTVCGYIYNPEDGDPDNGVNPGTDFKDIPDDWVCPLCGVGKDQFEEVEERRRLLSIIVVLVVTFALCKMPYHLVKTLYMLGSLLHWPCDFDLFLMNIFPYCTCISYVNSCLNPFLYAFFDPRFRQACTSMLLMGQSR  330
                                    28        38        48        58        68        78        88        98       108       118       128       138       148       158       168       178       188       198       208       218       228||    1009      1019      1029      1039      1049    || 247       257       267       277       287       297       307       317       327   
                                                                                                                                                                                                                                            229|                                                 1054|                                                                                       
                                                                                                                                                                                                                                            1001                                                   243
   Legend:   → Mismatch (orange background)
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    → Modified Residue (blue background, lower-case, 'x' indicates undefined single-letter code, labelled with number + name)
  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 5VBL)

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (17, 17)

Asymmetric/Biological Unit(hide GO term definitions)

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  5vbl
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  APJ_HUMAN | P35414
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  RUBR_CLOPA | P00268
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 Related Entries

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

UniProtKB/Swiss-Prot
        APJ_HUMAN | P35414: 2lot 2lou 2lov 2low
        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 5uiw

(-) Related Entries Specified in the PDB File

(no "Related Entries Specified in the PDB File" available for 5VBL)