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(-) Description

Title :  SELECTIVE ACTIVATION OF EPAC1 AND EPAC2
 
Authors :  H. Rehmann
Date :  29 Aug 13  (Deposition) - 03 Sep 14  (Release) - 03 Sep 14  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  3.00
Chains :  Asym. Unit :  E,R
Biol. Unit 1:  E,R  (1x)
Biol. Unit 2:  E,R  (2x)
Keywords :  Guanine Nucleotide Exchange Factor, Nucleotide Binding, Signaling Protein-Gtp-Binding Protein Complex (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  H. Rehmann
Selective Activation Of Epac1 And Epac2
To Be Published
PubMed: search

(-) Compounds

Molecule 1 - RAP GUANINE NUCLEOTIDE EXCHANGE FACTOR 4
    Chains: E
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PGEX4T1
    Expression System Strain: CK600K
    Expression System Taxid: 562
    Expression System Vector Type: PLAMSID
    Fragment: UNP RESIDUES 324-1011
    Gene: RAPGEF4, CGEF2, EPAC2
    Organism Common: MOUSE
    Organism Scientific: MUS MUSCULUS
    Organism Taxid: 10090
    Synonym: EXCHANGE FACTOR DIRECTLY ACTIVATED BY CAMP 2, EXCHANGE PROTEIN DIRECTLY ACTIVATED BY CAMP 2, EPAC 2, CAMP-DEPENDENT RAP1 GUANINE-NUCLEOTIDE EXCHANGE FACTOR, CAMP-REGULATED GUANINE NUCLEOTIDE EXCHANGE FACTOR II, CAMP-GEFII
 
Molecule 2 - RAS-RELATED PROTEIN RAP-1B
    Chains: R
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PTAC
    Expression System Strain: CK600K
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Fragment: UNP RESIDUES 1-169
    Gene: RAP1B, OK/SW-CL.11
    Organism Common: HUMAN
    Organism Scientific: HOMO SAPIENS
    Organism Taxid: 9606
    Synonym: GTP-BINDING PROTEIN SMG P21B

 Structural Features

(-) Chains, Units

  12
Asymmetric Unit : ER
Biological Unit 1 (1x): ER
Biological Unit 2 (2x): ER

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (2, 3)

Asymmetric Unit (2, 3)
No.NameCountTypeFull Name
1HR62Ligand/Ion(2S,4AR,6R,7R,7AS)-6-[6-AMINO-8-(BENZYLSULFANYL)-9H-PURIN-9-YL]-2-SULFANYLTETRAHYDRO-4H-FURO[3,2-D][1,3,2]DIOXAPHOSPHININ-7-OL 2-OXIDE
2SO41Ligand/IonSULFATE ION
Biological Unit 1 (2, 3)
No.NameCountTypeFull Name
1HR62Ligand/Ion(2S,4AR,6R,7R,7AS)-6-[6-AMINO-8-(BENZYLSULFANYL)-9H-PURIN-9-YL]-2-SULFANYLTETRAHYDRO-4H-FURO[3,2-D][1,3,2]DIOXAPHOSPHININ-7-OL 2-OXIDE
2SO41Ligand/IonSULFATE ION
Biological Unit 2 (2, 6)
No.NameCountTypeFull Name
1HR64Ligand/Ion(2S,4AR,6R,7R,7AS)-6-[6-AMINO-8-(BENZYLSULFANYL)-9H-PURIN-9-YL]-2-SULFANYLTETRAHYDRO-4H-FURO[3,2-D][1,3,2]DIOXAPHOSPHININ-7-OL 2-OXIDE
2SO42Ligand/IonSULFATE ION

(-) Sites  (3, 3)

Asymmetric Unit (3, 3)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREPHE E:367 , VAL E:386 , ILE E:388 , LEU E:397 , PHE E:403 , GLY E:404 , ALA E:407 , ARG E:414 , ALA E:415 , ALA E:416 , ARG E:448 , LEU E:449 , LYS E:450 , GLU E:451 , LYS E:489BINDING SITE FOR RESIDUE HR6 E 1001
2AC2SOFTWAREVAL E:365 , ASN E:368 , VAL E:387 , GLY E:392 , SER E:417 , VAL E:419 , HIS E:537 , GLN E:539 , SER E:541 , GLN E:542 , LYS E:556 , ASP E:594 , MET E:597 , MET E:598BINDING SITE FOR RESIDUE HR6 E 1002
3AC3SOFTWARESER R:11 , GLY R:12 , GLY R:13 , VAL R:14 , GLY R:15 , LYS R:16 , SER R:17 , ALA R:59 , HOH R:301BINDING SITE FOR RESIDUE SO4 R 201

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 4MGZ)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 4MGZ)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 4MGZ)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 4MGZ)

(-) Exons   (0, 0)

(no "Exon" information available for 4MGZ)

(-) Sequences/Alignments

Asymmetric 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 E from PDB  Type:PROTEIN  Length:632
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        
               SCOP domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author hhhhhhhhhhhhhhhhhhhhhhhhhh.hhhhh..hhhhhhhhhh..eeeee.....eee.......eeeeeee.eeeeee...eeeeeee...eehhhhhhh......eeee....eeeeeeehhhhhhhh.......eeee....eeeeeee...eeeeeehhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh......hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh...hhhhhhhhhhhh..........eeeeeee.....eeeeeee...hhhhhhhhhhhhh......eeeee.....eee................eeeeehhhhhhhh..hhhhhh....hhhhhh..hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhh...hhhhhhhhhhhhhhh......hhhhhhhhhhhhhhh...ee..eeehhhhhhhhhhhhhhhhhh......hhhhhhhhh.....hhhhhhhhhhh... Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4mgz E 309 HMRMILRKPPGQRTVDDLEIIYDELLHIKALSHLSTTVKRELAGVLIFESHAKGGTVLFNQGEEGTSWYIILKGSVNVVIYGKGVVCTLHEGDDFGKLALVNDAPRAASIVLREDNCHFLRVDKEDFNRILRDVEANTVRLKEHDQDVLVLEKVQKYTVMSGTPEKILEHFLETIRLEPSLNEATDSVLNDFVMMHCVFMPNTQLCPALVAHYHAQPSQGTEQERMDYALNNKRRVIRLVLQWAAMYGDLLQEDDVAMAFLEEFYVSVSDDARMMAAFKEQLPELEKIVKQISRQPIRGSDEVLFKVYCIDHTYTTIRVPVAASVKEVISAVADKLGSGEGLIIVKMNSGGEKVVLKSNDVSVFTTLTINGRLFACPREQFDSLTPLPEQEGPTTGTVGTFELMSSKDLAYQMTTYDWELFNCVHELELIYHTFGRHNFKKTTANLDLFLRRFNEIQFWVVTEVCLCSQLSKRVQLLKKFIKIAAHCKEYKNLNSFFAIVMGLSNVAVSRLALTWEKLPSKFKKFYAEFESLMDPSRNHRAYRLTAAKLEPPLIPFMPLLIKDMTFTHEGNKTFIDNLVNFEKMRMIANTARTVRYYRSQPFNHQDVRSYVRQLNVIDNQRTLSQMSHRLEP 990
                                   318       328       338       348       358       368       378       388       398       408       418       428       438       448       458   ||  483       493       503       513       523       533       543       553       563       573       583       593       603       613  ||   649       659       669       679       689       699       709       719       729       739       749       759       769       779       789       799       809       819       829       839       849       859       869       879       889       899       909       919       929       939       949  ||   968       978       988  
                                                                                                                                                                                   462|                                                                                                                                       616|                                                                                                                                                                                                                                                                                                                  952|                            
                                                                                                                                                                                    478                                                                                                                                        643                                                                                                                                                                                                                                                                                                                   962                            


Chain R from PDB  Type:PROTEIN  Length:150
                                                                                                                                                                                      
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author .eeeeee.....hhhhhhhhhhh..........hhhh.eee...eeeeee......hhhhhhhhhhhh.eeeeeee...hhhhhhhhhhhhhhhhhhh.....eeeeee............hhhhhh.ee........hhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 4mgz R   3 EYKLVVLGSGGVGKSALTVQFVQGIFVEKYDPTIEDSYRKQVQCMLEILDTAGTEQFTAMRDLYMKNGQGFALVYSITAQSTFNDLQDLREQILRVKDTDDVPMILVGNKCDLEDERVVGKEQGQNLAFLESSAKSKINVNEIFYDLVRQ 164
                                    12        22        32        42 ||     57        67        77        87        97       107       117       127      |144       154       164
                                                                    44|                                                                                 134|                      
                                                                     50                                                                                  142
   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 4MGZ)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 4MGZ)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 4MGZ)

(-) Gene Ontology  (35, 41)

Asymmetric Unit(hide GO term definitions)

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  RAP1B_HUMAN | P61224
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  RPGF4_MOUSE | Q9EQZ6
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 Related Entries

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

UniProtKB/Swiss-Prot
        RAP1B_HUMAN | P61224: 3brw 3cf6 4dxa 4hdo 4hdq 4m8n 4mgi 4mgk 4mgy 4mh0 5kho
        RPGF4_MOUSE | Q9EQZ6: 1o7f 2byv 3cf6 4f7z 4mgi 4mgk 4mgy 4mh0

(-) Related Entries Specified in the PDB File

2byv INACTIVE EPAC2
3cf6 COMPLEX WITH SP1 / SP-CAMPS / 6-(6-AMINO-PURIN-9-YL)-2- THIOXO-TETRAHYDRO-2-FURO[3,2- D][1,3,2]DIOXAPHOSPHININE-2, 7-DIOL / SP-ADENOSINE-3',5'-CYCLIC-MONOPHOSPHOROTHIOATE
4mgi COMPLEX WITH CMP / CAMP / CYCLIC AMP / ADENOSINE-3',5'- CYCLIC-MONOPHOSPHATE
4mgk COMPLEX OF MUTANT K405Q WITH CMP / CAMP / CYCLIC AMP / ADENOSINE-3',5'-CYCLIC-MONOPHOSPHATE
4mgy COMPLEX OF MUTANT K405Q WITH 8-PPCT-2'-O-ME-CAMP / 8-(4- CHLOROPHENYLTHIO)-2'-O-METHYLADENOSINE-3',5'-CYCLIC MONOPHOSPHATE
4mh0