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(-) Description

Title :  STRUCTURE OF THE C DOMAIN OF SYNAPSIN IA FROM BOVINE BRAIN
 
Authors :  L. Esser, C. Wang, J. Deisenhofer
Date :  02 Sep 97  (Deposition) - 18 Mar 98  (Release) - 15 Feb 12  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.15
Chains :  Asym. Unit :  A,B
Biol. Unit 1:  A,B  (2x)
Keywords :  Synapse, Phosphorylation, Synapsin Ia C-Domain, Transferase (Keyword Search: [Gene Ontology, PubMed, Web (Google))
 
Reference :  L. Esser, C. R. Wang, M. Hosaka, C. S. Smagula, T. C. Sudhof, J. Deisenhofer
Synapsin I Is Structurally Similar To Atp-Utilizing Enzymes
Embo J. V. 17 977 1998
PubMed-ID: 9463376  |  Reference-DOI: 10.1093/EMBOJ/17.4.977
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - SYNAPSIN IA
    Cell LineB834
    ChainsA, B
    EngineeredYES
    Expression SystemESCHERICHIA COLI
    Expression System StrainB834 (DE3)
    Expression System Taxid562
    FragmentRESIDUES 110 - 420
    Organism CommonCATTLE
    Organism ScientificBOS TAURUS
    Organism Taxid9913

 Structural Features

(-) Chains, Units

  12
Asymmetric Unit AB
Biological Unit 1 (2x)AB

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (1, 20)

Asymmetric Unit (1, 20)
No.NameCountTypeFull Name
1MSE20Mod. Amino AcidSELENOMETHIONINE
Biological Unit 1 (1, 40)
No.NameCountTypeFull Name
1MSE40Mod. Amino AcidSELENOMETHIONINE

(-) Sites  (0, 0)

(no "Site" information available for 1AUV)

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 1AUV)

(-) Cis Peptide Bonds  (4, 4)

Asymmetric Unit
No.Residues
1Ile A:213 -Asn A:214
2Tyr A:264 -Pro A:265
3Ile B:213 -Asn B:214
4Tyr B:264 -Pro B:265

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 1AUV)

(-) PROSITE Motifs  (1, 2)

Asymmetric Unit (1, 2)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1SYNAPSIN_2PS00416 Synapsins signature 2.SYN1_BOVIN271-281
 
  2A:271-281
B:271-281
Biological Unit 1 (1, 4)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1SYNAPSIN_2PS00416 Synapsins signature 2.SYN1_BOVIN271-281
 
  4A:271-281
B:271-281

(-) Exons   (0, 0)

(no "Exon" information available for 1AUV)

(-) 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:292
 aligned with SYN1_BOVIN | P17599 from UniProtKB/Swiss-Prot  Length:706

    Alignment length:306
                                   121       131       141       151       161       171       181       191       201       211       221       231       241       251       261       271       281       291       301       311       321       331       341       351       361       371       381       391       401       411      
           SYN1_BOVIN   112 AARVLLVIDEPHTDWAKYFKGKKIHGEIDIKVEQAEFSDLNLVAHANGGFSVDMEVLRNGVKVVRSLKPDFVLIRQHAFSMARNGDYRSLVIGLQYAGIPSINSLHSVYNFCDKPWVFAQMVRLHKKLGTEEFPLINQTFYPNHKEMLSSTTYPVVVKMGHAHSGMGKVKVDNQHDFQDIASVVALTKTYATTEPFIDAKYDVRIQKIGQNYKAYMRTSVSGNWKTNTGSAMLEQIAMSDRYKLWVDTCSEIFGGLDICAVEALHGKDGRDHIIQVVGSSMPLIGDHQDEDKQLIVELVVNKMAQA 417
               SCOP domains d1auva1 A:112-213 Synapsin I                                                                          d1auva2 A:214-417 Synapsin                                                                                                                                                                                   SCOP domains
               CATH domains 1auvA02 A:112-214,A:394-417  [code=3.40.50.20, no name defined]                                        1auvA03 A:215-247,A:308-393      1auvA01 A:248-307 ATP-grasp fold, A domain                  1auvA03 A:215-247,A:30              8-393 ATP-grasp fold, B domain                    1auvA02                  CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ..eeeeee......hhhhh....hhh...eeeeee.hhh.eeee.....eeee.................eeee.............hhhhhhhhh........hhhhhhh..hhhhhhhhhhhhhhh..........eee.............eeee..........eee..hhhhhhhhhhhhhh...eeeee...eeeeeeeeee..eeeee...--------------.......hhhhhhhhhhhhhhh...eeeeeeeee....eeeeeee..........hhhhhhhhhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------SYNAPSIN_2 ---------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 1auv A 112 AARVLLVIDEPHTDWAKYFKGKKIHGEIDIKVEQAEFSDLNLVAHANGGFSVDmEVLRNGVKVVRSLKPDFVLIRQHAFSmARNGDYRSLVIGLQYAGIPSINSLHSVYNFCDKPWVFAQmVRLHKKLGTEEFPLINQTFYPNHKEmLSSTTYPVVVKmGHAHSGmGKVKVDNQHDFQDIASVVALTKTYATTEPFIDAKYDVRIQKIGQNYKAYmRT--------------LEQIAmSDRYKLWVDTCSEIFGGLDICAVEALHGKDGRDHIIEVVGSSmPLIGDHQDEDKQLIVELVVNKmAQA 417
                                   121       131       141       151       161   |   171       181       191|      201       211       221       231|      241       251      |261       271     | 281       291       301       311       321     | | -         -  |    351       361       371       381       391|      401       411  |   
                                                                               165-MSE                    192-MSE                                 232-MSE                   258-MSE     270-MSE  |                                               327-MSE          344    |                                        392-MSE               414-MSE
                                                                                                                                                                                               277-MSE                                             329                 349-MSE                                                                

Chain B from PDB  Type:PROTEIN  Length:293
 aligned with SYN1_BOVIN | P17599 from UniProtKB/Swiss-Prot  Length:706

    Alignment length:308
                                   119       129       139       149       159       169       179       189       199       209       219       229       239       249       259       269       279       289       299       309       319       329       339       349       359       369       379       389       399       409        
           SYN1_BOVIN   110 GAAARVLLVIDEPHTDWAKYFKGKKIHGEIDIKVEQAEFSDLNLVAHANGGFSVDMEVLRNGVKVVRSLKPDFVLIRQHAFSMARNGDYRSLVIGLQYAGIPSINSLHSVYNFCDKPWVFAQMVRLHKKLGTEEFPLINQTFYPNHKEMLSSTTYPVVVKMGHAHSGMGKVKVDNQHDFQDIASVVALTKTYATTEPFIDAKYDVRIQKIGQNYKAYMRTSVSGNWKTNTGSAMLEQIAMSDRYKLWVDTCSEIFGGLDICAVEALHGKDGRDHIIQVVGSSMPLIGDHQDEDKQLIVELVVNKMAQA 417
               SCOP domains d1auvb1 B:110-213 Synapsin I                                                                            d1auvb2 B:214-417 Synapsin                                                                                                                                                                                   SCOP domains
               CATH domains --1auvB02 B:112-214,B:394-406  [code=3.40.50.20, no name defined]                                        1auvB03 B:215-247,B:308-393      1auvB01 B:248-307 ATP-grasp fold, A domain                  1auvB03 B:215-247,B:3               08-393 ATP-grasp fold, B domain                   1auvB02      ----------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....eeeeee......hhhhh....hhh...eeeeee.....eeee.....eeee.................eeee.............hhhhhhhhh...eee..hhhhhh...hhhhhhhhhhhhhhh..........eee.............eeee..........eee..hhhhhhhhhhhhhh...eeeee...eeeeeeeeee..eeeee..---------------.......hhhhhhhhhhhhhhh...eeeeeeeee....eeeeeee..........hhhhhhhhhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -----------------------------------------------------------------------------------------------------------------------------------------------------------------SYNAPSIN_2 ---------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1auv B 110 GAAARVLLVIDEPHTDWAKYFKGKKIHGEIDIKVEQAEFSDLNLVAHANGGFSVDmEVLRNGVKVVRSLKPDFVLIRQHAFSmARNGDYRSLVIGLQYAGIPSINSLHSVYNFCDKPWVFAQmVRLHKKLGTEEFPLINQTFYPNHKEmLSSTTYPVVVKmGHAHSGmGKVKVDNQHDFQDIASVVALTKTYATTEPFIDAKYDVRIQKIGQNYKAYmR---------------LEQIAmSDRYKLWVDTCSEIFGGLDICAVEALHGKDGRDHIIEVVGSSmPLIGDHQDEDKQLIVELVVNKmAQA 417
                                   119       129       139       149       159     | 169       179       189  |    199       209       219       229  |    239       249       259       269|      279       289       299       309       319       ||-         -    |  349       359       369       379       389  |    399       409    |   
                                                                                 165-MSE                    192-MSE                                 232-MSE                   258-MSE     270-MSE  |                                               327-MSE          344    |                                        392-MSE               414-MSE
                                                                                                                                                                                                 277-MSE                                            328                  349-MSE                                                                

   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  (2, 4)

Asymmetric Unit

(-) CATH Domains  (3, 6)

Asymmetric Unit
(-)
Class: Alpha Beta (26913)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 1AUV)

(-) Gene Ontology  (8, 8)

Asymmetric Unit(hide GO term definitions)
Chain A,B   (SYN1_BOVIN | P17599)
molecular function
    GO:0005524    ATP binding    Interacting selectively and non-covalently with ATP, adenosine 5'-triphosphate, a universally important coenzyme and enzyme regulator.
    GO:0003779    actin binding    Interacting selectively and non-covalently with monomeric or multimeric forms of actin, including actin filaments.
    GO:0003824    catalytic activity    Catalysis of a biochemical reaction at physiological temperatures. In biologically catalyzed reactions, the reactants are known as substrates, and the catalysts are naturally occurring macromolecular substances known as enzymes. Enzymes possess specific binding sites for substrates, and are usually composed wholly or largely of protein, but RNA that has catalytic activity (ribozyme) is often also regarded as enzymatic.
biological process
    GO:0007269    neurotransmitter secretion    The regulated release of neurotransmitter from the presynapse into the synaptic cleft via calcium regualated exocytosis during synaptic transmission.
cellular component
    GO:0005794    Golgi apparatus    A compound membranous cytoplasmic organelle of eukaryotic cells, consisting of flattened, ribosome-free vesicles arranged in a more or less regular stack. The Golgi apparatus differs from the endoplasmic reticulum in often having slightly thicker membranes, appearing in sections as a characteristic shallow semicircle so that the convex side (cis or entry face) abuts the endoplasmic reticulum, secretory vesicles emerging from the concave side (trans or exit face). In vertebrate cells there is usually one such organelle, while in invertebrates and plants, where they are known usually as dictyosomes, there may be several scattered in the cytoplasm. The Golgi apparatus processes proteins produced on the ribosomes of the rough endoplasmic reticulum; such processing includes modification of the core oligosaccharides of glycoproteins, and the sorting and packaging of proteins for transport to a variety of cellular locations. Three different regions of the Golgi are now recognized both in terms of structure and function: cis, in the vicinity of the cis face, trans, in the vicinity of the trans face, and medial, lying between the cis and trans regions.
    GO:0030054    cell junction    A cellular component that forms a specialized region of connection between two or more cells or between a cell and the extracellular matrix. At a cell junction, anchoring proteins extend through the plasma membrane to link cytoskeletal proteins in one cell to cytoskeletal proteins in neighboring cells or to proteins in the extracellular matrix.
    GO:0045202    synapse    The junction between a nerve fiber of one neuron and another neuron, muscle fiber or glial cell. As the nerve fiber approaches the synapse it enlarges into a specialized structure, the presynaptic nerve ending, which contains mitochondria and synaptic vesicles. At the tip of the nerve ending is the presynaptic membrane; facing it, and separated from it by a minute cleft (the synaptic cleft) is a specialized area of membrane on the receiving cell, known as the postsynaptic membrane. In response to the arrival of nerve impulses, the presynaptic nerve ending secretes molecules of neurotransmitters into the synaptic cleft. These diffuse across the cleft and transmit the signal to the postsynaptic membrane.
    GO:0008021    synaptic vesicle    A secretory organelle, typically 50 nm in diameter, of presynaptic nerve terminals; accumulates in high concentrations of neurotransmitters and secretes these into the synaptic cleft by fusion with the 'active zone' of the presynaptic plasma membrane.

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 Related Entries

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

UniProtKB/Swiss-Prot
        SYN1_BOVIN | P175991aux

(-) Related Entries Specified in the PDB File

(no "Related Entries Specified in the PDB File" available for 1AUV)