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(-) Description

Title :  HUMAN ATLASTIN-1 1-446, C-HIS6, GPPNHP
 
Authors :  L. J. Byrnes, A. Singh, K. Szeto, N. M. Benvin, J. P. O'Donnell, W. R. Zipf H. Sondermann
Date :  12 Dec 12  (Deposition) - 09 Jan 13  (Release) - 20 Feb 13  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.25
Chains :  Asym./Biol. Unit :  A,B
Keywords :  Gtpase, Gtp/Gdp Binding, Hydrolase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  L. J. Byrnes, A. Singh, K. Szeto, N. M. Benvin, J. P. O'Donnell, W. R. Zipfel, H. Sondermann
Structural Basis For Conformational Switching And Gtp Loading Of The Large G Protein Atlastin.
Embo J. V. 32 369 2013
PubMed-ID: 23334294  |  Reference-DOI: 10.1038/EMBOJ.2012.353

(-) Compounds

Molecule 1 - ATLASTIN-1
    Chains: A, B
    EC Number: 3.6.5.-
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PET21
    Expression System Strain: BL21
    Expression System Taxid: 511693
    Expression System Vector Type: PLASMID
    Fragment: CYTOPLASMIC DOMAIN (UNP RESIDUES 1-446)
    Gene: ATL1, GBP3, SPG3A
    Organism Common: HUMAN
    Organism Scientific: HOMO SAPIENS
    Organism Taxid: 9606
    Synonym: BRAIN-SPECIFIC GTP-BINDING PROTEIN, GTP-BINDING PROTEIN 3, GBP-3, HGBP3, GUANINE NUCLEOTIDE-BINDING PROTEIN 3, SPASTIC PARAPLEGIA 3 PROTEIN A

 Structural Features

(-) Chains, Units

  12
Asymmetric/Biological Unit : AB

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (2, 4)

Asymmetric/Biological Unit (2, 4)
No.NameCountTypeFull Name
1GNP2Ligand/IonPHOSPHOAMINOPHOSPHONIC ACID-GUANYLATE ESTER
2MG2Ligand/IonMAGNESIUM ION

(-) Sites  (4, 4)

Asymmetric Unit (4, 4)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREPHE A:76 , ARG A:77 , LYS A:78 , GLY A:79 , LYS A:80 , SER A:81 , PHE A:82 , TRP A:112 , ARG A:113 , GLY A:114 , ARG A:118 , GLU A:119 , THR A:120 , GLY A:149 , ARG A:217 , ASP A:218 , HIS A:271 , PRO A:272 , VAL A:276 , PHE A:282 , MG A:502 , HOH A:601 , HOH A:602 , HOH A:603 , HOH A:609 , HOH A:615BINDING SITE FOR RESIDUE GNP A 501
2AC2SOFTWARESER A:81 , THR A:120 , GNP A:501 , HOH A:601 , HOH A:602BINDING SITE FOR RESIDUE MG A 502
3AC3SOFTWAREPHE B:76 , ARG B:77 , LYS B:78 , GLY B:79 , LYS B:80 , SER B:81 , PHE B:82 , TRP B:112 , ARG B:113 , GLY B:114 , ARG B:118 , GLU B:119 , THR B:120 , GLY B:149 , ARG B:217 , ASP B:218 , PRO B:272 , VAL B:276 , PHE B:282 , MG B:502 , HOH B:601 , HOH B:606 , HOH B:607 , HOH B:616 , HOH B:625 , HOH B:670 , HOH B:685 , HOH B:775BINDING SITE FOR RESIDUE GNP B 501
4AC4SOFTWARESER B:81 , THR B:120 , GNP B:501 , HOH B:606 , HOH B:775BINDING SITE FOR RESIDUE MG B 502

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (2, 2)

Asymmetric/Biological Unit
No.Residues
1Met A:408 -Gly A:409
2Met B:408 -Gly B:409

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 4IDN)

(-) 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:417
                                                                                                                                                                                                                                                                                                                                                                                                                                                                 
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....eeeeeee.....eeehhhhhhhhhh........eeeeeeee....hhhhhhhhhhhhhhh.............................eeee...eeee.....eeeeeeeee........hhhhhhhhhhhhhhhh.eeeeeee...hhhhhhhhhhhhhhhhhh........eeeeeeeee..........hhhhhhhhhhhhhh.....hhhhhhhhhhhhhheeeeeeee....hhhhhhh.....hhhhhhhhhhhhhhhhhhhhhh.......ee..ee.hhhhhhhhhhhhhhhhhh.......hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh......hhhhhhhhhhhhhhhhhhhhhhh........hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4idn A  30 KKAGPVQVLIVKDDHSFELDETALNRILLSEAVRDKEVVAVSVAGAFRKGKSFLMDFMLRYMYNQESVDWVGDYNEPLTGFSWRGGSERETTGIQIWSEIFLINKPDGKKVAVLLMDTQGTFDSQSTLRDSATVFALSTMISSIQVYNLSQNVQEDDLQHLQLFTEYGRLAMEETFLKPFQSLIFLVRDWSFPYEFSYGADGGAKFLEKRLKVSGNQHEELQNVRKHIHSCFTNISCFLLPHPGLKVATNPNFDGKLKEIDDEFIKNLKILIPWLLSPESLDIKEINGNKITCRGLVEYFKAYIKIYQGEELPHPKSMLQATAEANNLAAVATAKDTYNKKMEEICGGDKPFLAPNDLQTKHLQLKEESVKLFRGVKKMGGEEFSRRYLQQLESEIDELYIQYIKHNDSKNIFHAAR 446
                                    39        49        59        69        79        89        99       109       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       419       429       439       


Chain B from PDB  Type:PROTEIN  Length:423
                                                                                                                                                                                                                                                                                                                                                                                                                                                                       
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...eeeeeee.....eeehhhhhhhhhh........eeeeeeee....hhhhhhhhhhhhhhh.............................eeee...eeee.....eeeeeeeee........hhhhhhhhhhhhhhhh.eeeeeee...hhhhhhhhhhhhhhhhh.........eeeeeeeee..........hhhhhhhhhhhhhh.....hhhhhhhhhhhhhheeeeeeee....hhhhhhh.....hhhhhhhhhhhhhhhhhhhhhh.......ee..ee.hhhhhhhhhhhhhhhhhhh......hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh......hhhhhhhhhhhhhhhhhhhhhhh....hhhhhhhhhhhhhhhhhhhhhhhhhhhhh...hhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4idn B  31 KAGPVQVLIVKDDHSFELDETALNRILLSEAVRDKEVVAVSVAGAFRKGKSFLMDFMLRYMYNQESVDWVGDYNEPLTGFSWRGGSERETTGIQIWSEIFLINKPDGKKVAVLLMDTQGTFDSQSTLRDSATVFALSTMISSIQVYNLSQNVQEDDLQHLQLFTEYGRLAMEETFLKPFQSLIFLVRDWSFPYEFSYGADGGAKFLEKRLKVSGNQHEELQNVRKHIHSCFTNISCFLLPHPGLKVATNPNFDGKLKEIDDEFIKNLKILIPWLLSPESLDIKEINGNKITCRGLVEYFKAYIKIYQGEELPHPKSMLQATAEANNLAAVATAKDTYNKKMEEICGGDKPFLAPNDLQTKHLQLKEESVKLFRGVKKMGGEEFSRRYLQQLESEIDELYIQYIKHNDSKNIFHAARAAALEHH 453
                                    40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220       230       240       250       260       270       280       290       300       310       320       330       340       350       360       370       380       390       400       410       420       430       440       450
   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 4IDN)

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (19, 19)

Asymmetric/Biological Unit(hide GO term definitions)

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  Cis Peptide Bonds
    Met A:408 - Gly A:409   [ RasMol ]  
    Met B:408 - Gly B:409   [ RasMol ]  
 

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 Related Entries

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

UniProtKB/Swiss-Prot
        ATLA1_HUMAN | Q8WXF7: 3q5d 3q5e 3qnu 3qof 4ido 4idp 4idq

(-) Related Entries Specified in the PDB File

3q5d 3q5e 4ido 4idp 4idq