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(-) Description

Title :  SH3-II OF DROSOPHILA RIM-BINDING PROTEIN BOUND TO A CACOPHONY DERIVED PEPTIDE
 
Authors :  J. H. Driller, N. Holton, M. Siebert, M. A. Boehme, M. C. Wahl, S. J. Sigri
Date :  08 Apr 15  (Deposition) - 05 Aug 15  (Release) - 26 Aug 15  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.64
Chains :  Asym. Unit :  A,B,C,D,E,F,G,H,I,J,a,b,c,d,e,f,g,h,i,j
Biol. Unit 1:  A,a  (1x)
Biol. Unit 2:  B,b  (1x)
Biol. Unit 3:  C,c  (1x)
Biol. Unit 4:  D,d  (1x)
Biol. Unit 5:  E,e  (1x)
Biol. Unit 6:  F,f  (1x)
Biol. Unit 7:  G,g  (1x)
Biol. Unit 8:  H,h  (1x)
Biol. Unit 9:  I,i  (1x)
Biol. Unit 10:  J,j  (1x)
Keywords :  Synapse, Active Zone, Sh3 Domain, Rim-Binding Protein, Cacophony Peptide (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  M. Siebert, M. A. Bohme, J. H. Driller, H. Babikir, M. M. Mampell, U. Rey N. Ramesh, T. Matkovic, N. Holton, S. Reddy-Alla, F. Gottfert, D. Kamin, C. Quentin, S. Klinedinst, T. F. Andlauer, S. W. Hell, C. A. Collins, M. C. Wahl, B. Loll, S. J. Sigrist
A High Affinity Rim-Binding Protein/Aplip1 Interaction Prevents The Formation Of Ectopic Axonal Active Zones.
Elife V. 4 2015
PubMed-ID: 26274777  |  Reference-DOI: 10.7554/ELIFE.06935

(-) Compounds

Molecule 1 - RIM-BINDING PROTEIN, ISOFORM F
    Chains: A, B, C, D, E, F, G, H, I, J
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Taxid: 562
    Fragment: UNP RESIDUES 1318-1382
    Gene: RBP, DMEL_CG43073
    Organism Common: FRUIT FLY
    Organism Scientific: DROSOPHILA MELANOGASTER
    Organism Taxid: 7227
 
Molecule 2 - VOLTAGE-DEPENDENT CALCIUM CHANNEL TYPE A SUBUNIT ALPHA-1
    Chains: a, b, c, d, e, f, g, h, i, j
    Engineered: YES
    Fragment: UNP RESIDUES 1688-1702
    Organism Common: FRUIT FLY
    Organism Scientific: DROSOPHILA MELANOGASTER
    Organism Taxid: 7227
    Synonym: PROTEIN CACOPHONY,PROTEIN NIGHTBLIND A,PROTEIN NO-ON- TRANSIENT B,DMCA1A
    Synthetic: YES

 Structural Features

(-) Chains, Units

  1234567891011121314151617181920
Asymmetric Unit : ABCDEFGHIJabcdefghij
Biological Unit 1 (1x): A         a         
Biological Unit 2 (1x):  B         b        
Biological Unit 3 (1x):   C         c       
Biological Unit 4 (1x):    D         d      
Biological Unit 5 (1x):     E         e     
Biological Unit 6 (1x):      F         f    
Biological Unit 7 (1x):       G         g   
Biological Unit 8 (1x):        H         h  
Biological Unit 9 (1x):         I         i 
Biological Unit 10 (1x):          J         j

Summary Information (see also Sequences/Alignments below)

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

Asymmetric Unit (2, 3)
No.NameCountTypeFull Name
1ACE2Mod. Amino AcidACETYL GROUP
2CA1Ligand/IonCALCIUM ION
Biological Unit 1 (0, 0)
No.NameCountTypeFull Name
1ACE-1Mod. Amino AcidACETYL GROUP
2CA-1Ligand/IonCALCIUM ION
Biological Unit 2 (0, 0)
No.NameCountTypeFull Name
1ACE-1Mod. Amino AcidACETYL GROUP
2CA-1Ligand/IonCALCIUM ION
Biological Unit 3 (0, 0)
No.NameCountTypeFull Name
1ACE-1Mod. Amino AcidACETYL GROUP
2CA-1Ligand/IonCALCIUM ION
Biological Unit 4 (0, 0)
No.NameCountTypeFull Name
1ACE-1Mod. Amino AcidACETYL GROUP
2CA-1Ligand/IonCALCIUM ION
Biological Unit 5 (1, 1)
No.NameCountTypeFull Name
1ACE1Mod. Amino AcidACETYL GROUP
2CA-1Ligand/IonCALCIUM ION
Biological Unit 6 (1, 1)
No.NameCountTypeFull Name
1ACE1Mod. Amino AcidACETYL GROUP
2CA-1Ligand/IonCALCIUM ION
Biological Unit 7 (0, 0)
No.NameCountTypeFull Name
1ACE-1Mod. Amino AcidACETYL GROUP
2CA-1Ligand/IonCALCIUM ION
Biological Unit 8 (0, 0)
No.NameCountTypeFull Name
1ACE-1Mod. Amino AcidACETYL GROUP
2CA-1Ligand/IonCALCIUM ION
Biological Unit 9 (0, 0)
No.NameCountTypeFull Name
1ACE-1Mod. Amino AcidACETYL GROUP
2CA-1Ligand/IonCALCIUM ION
Biological Unit 10 (0, 0)
No.NameCountTypeFull Name
1ACE-1Mod. Amino AcidACETYL GROUP
2CA-1Ligand/IonCALCIUM ION

(-) Sites  (3, 3)

Asymmetric Unit (3, 3)
No.NameEvidenceResiduesDescription
1AC1SOFTWARESER A:1329 , HOH A:1405 , ASP B:1339 , HOH C:1405binding site for residue CA B 1401
2AC2SOFTWAREASP E:1359 , PRO H:1335 , GLY e:1686 , ARG e:1687 , ACE f:1684 , ILE f:1685binding site for Di-peptide ACE e 1684 and ILE e 1685
3AC3SOFTWAREASP F:1359 , ILE e:1685 , GLY e:1686 , GLY f:1686 , ARG f:1687binding site for Di-peptide ACE f 1684 and ILE f 1685

(-) SS Bonds  (5, 5)

Asymmetric Unit
No.Residues
1A:1338 -B:1338
2C:1338 -F:1338
3D:1338 -E:1338
4G:1338 -J:1338
5H:1338 -I:1338

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 4Z89)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 4Z89)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 4Z89)

(-) Exons   (0, 0)

(no "Exon" information available for 4Z89)

(-) 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 A from PDB  Type:PROTEIN  Length:65
                                                                                                  
               SCOP domains ----------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeee....hhhhhh...hhhhhh.......eeeee.......eeeeee..eeeeee...eee. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------- Transcript
                4z89 A 1317 FRYFVAMFDYDPSTMSPNPDGCDEELPFQEGDTIKVFGDKDADGFYWGELRGRRGYVPHNMVSEV 1381
                                  1326      1336      1346      1356      1366      1376     


Chain B from PDB  Type:PROTEIN  Length:65
                                                                                                  
               SCOP domains ----------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeee....hhhhhh...hhhhhh.......eeeee.......eeeeee..eeeeee...eee. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------- Transcript
                4z89 B 1317 FRYFVAMFDYDPSTMSPNPDGCDEELPFQEGDTIKVFGDKDADGFYWGELRGRRGYVPHNMVSEV 1381
                                  1326      1336      1346      1356      1366      1376     


Chain C from PDB  Type:PROTEIN  Length:66
                                                                                                   
               SCOP domains ------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------ Pfam domains
         Sec.struct. author .eeeee....hhhhhh...hhhhhh.......eeeee.......eeeeee..eeeeee...eeee. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------ Transcript
                4z89 C 1317 FRYFVAMFDYDPSTMSPNPDGCDEELPFQEGDTIKVFGDKDADGFYWGELRGRRGYVPHNMVSEVE 1382
                                  1326      1336      1346      1356      1366      1376      


Chain D from PDB  Type:PROTEIN  Length:65
                                                                                                  
               SCOP domains ----------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeee....hhhhhh...hhhhhh.......eeeee.......eeeeee..eeeeee...eee. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------- Transcript
                4z89 D 1317 FRYFVAMFDYDPSTMSPNPDGCDEELPFQEGDTIKVFGDKDADGFYWGELRGRRGYVPHNMVSEV 1381
                                  1326      1336      1346      1356      1366      1376     


Chain E from PDB  Type:PROTEIN  Length:66
                                                                                                   
               SCOP domains ------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------ Pfam domains
         Sec.struct. author .eeeee....hhhhhh...hhhhhh.......eeeee.......eeeeee..eeeeee...eee.. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------ Transcript
                4z89 E 1317 FRYFVAMFDYDPSTMSPNPDGCDEELPFQEGDTIKVFGDKDADGFYWGELRGRRGYVPHNMVSEVE 1382
                                  1326      1336      1346      1356      1366      1376      


Chain F from PDB  Type:PROTEIN  Length:66
                                                                                                   
               SCOP domains ------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------ Pfam domains
         Sec.struct. author .eeeee....hhhhhh...hhhhhh.......eeeee.......eeeeee..eeeeee...eee.. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------ Transcript
                4z89 F 1317 FRYFVAMFDYDPSTMSPNPDGCDEELPFQEGDTIKVFGDKDADGFYWGELRGRRGYVPHNMVSEVE 1382
                                  1326      1336      1346      1356      1366      1376      


Chain G from PDB  Type:PROTEIN  Length:66
                                                                                                   
               SCOP domains ------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------ Pfam domains
         Sec.struct. author .eeeee....hhhhhh...hhhhhh.......eeeee.......eeeeee..eeeeee...eee.. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------ Transcript
                4z89 G 1317 FRYFVAMFDYDPSTMSPNPDGCDEELPFQEGDTIKVFGDKDADGFYWGELRGRRGYVPHNMVSEVE 1382
                                  1326      1336      1346      1356      1366      1376      


Chain H from PDB  Type:PROTEIN  Length:64
                                                                                                 
               SCOP domains ---------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eee....hhhhhh...hhhhhh.......eeeee.......eeeeee..eeeeee...eee. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------- Transcript
                4z89 H 1318 RYFVAMFDYDPSTMSPNPDGCDEELPFQEGDTIKVFGDKDADGFYWGELRGRRGYVPHNMVSEV 1381
                                  1327      1337      1347      1357      1367      1377    


Chain I from PDB  Type:PROTEIN  Length:65
                                                                                                  
               SCOP domains ----------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeee....hhhhhh...hhhhhh.......eeeee.......eeeeee..eeeeee...eee. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------- Transcript
                4z89 I 1317 FRYFVAMFDYDPSTMSPNPDGCDEELPFQEGDTIKVFGDKDADGFYWGELRGRRGYVPHNMVSEV 1381
                                  1326      1336      1346      1356      1366      1376     


Chain J from PDB  Type:PROTEIN  Length:66
                                                                                                   
               SCOP domains ------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------ Pfam domains
         Sec.struct. author .eeeee....hhhhhh...hhhhhh.......eeeee.......eeeeee..eeeeee...eee.. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------ Transcript
                4z89 J 1317 FRYFVAMFDYDPSTMSPNPDGCDEELPFQEGDTIKVFGDKDADGFYWGELRGRRGYVPHNMVSEVE 1382
                                  1326      1336      1346      1356      1366      1376      


Chain a from PDB  Type:PROTEIN  Length:12
                                             
               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
                4z89 a 1686 GRRLPPTPSKPS 1697
                                  1695  


Chain b from PDB  Type:PROTEIN  Length:10
                                           
               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
                4z89 b 1686 GRRLPPTPSK 1695
                                  1695


Chain c from PDB  Type:PROTEIN  Length:12
                                             
               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
                4z89 c 1686 GRRLPPTPSKPS 1697
                                  1695  


Chain d from PDB  Type:PROTEIN  Length:12
                                             
               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
                4z89 d 1686 GRRLPPTPSKPS 1697
                                  1695  


Chain e from PDB  Type:PROTEIN  Length:11
                                            
               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
                4z89 e 1684 xIGRRLPPTPS 1694
                            |     1693 
                         1684-ACE      


Chain f from PDB  Type:PROTEIN  Length:10
                                           
               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
                4z89 f 1684 xIGRRLPPTP 1693
                            |     1693
                         1684-ACE     


Chain g from PDB  Type:PROTEIN  Length:8
                                         
               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
                4z89 g 1686 GRRLPPTP 1693


Chain h from PDB  Type:PROTEIN  Length:8
                                         
               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
                4z89 h 1686 GRRLPPTP 1693


Chain i from PDB  Type:PROTEIN  Length:8
                                         
               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
                4z89 i 1686 GRRLPPTP 1693


Chain j from PDB  Type:PROTEIN  Length:12
                                             
               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
                4z89 j 1686 GRRLPPTPSKPS 1697
                                  1695
   Legend:   → Mismatch (orange background)
  - → Gap (green background, '-', border residues have a numbering label)
    → 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 4Z89)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 4Z89)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 4Z89)

(-) Gene Ontology  (40, 40)

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  4z89
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  A0A0B4JDC9_D | A0A0B4JDC9
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  CAC1A_DROME | P91645
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 Related Entries

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

UniProtKB/Swiss-Prot
        CAC1A_DROME | P91645: 4z8a
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        A0A0B4JDC9_D | A0A0B4JDC9: 4z88 4z8a

(-) Related Entries Specified in the PDB File

2csq HUMAN NMR SH3-II STRUCTURE