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(-) Description

Title :  N77Y POINT MUTANT OF YNTF2 BOUND TO FXFG NUCLEOPORIN REPEAT
 
Authors :  R. Bayliss, M. Stewart
Date :  22 Apr 02  (Deposition) - 20 Jun 02  (Release) - 21 Dec 16  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.90
Chains :  Asym. Unit :  A,B,C,D,E,F,G,H
Biol. Unit 1:  A,B,E,F  (1x)
Biol. Unit 2:  C,D,G,H  (1x)
Keywords :  Nuclear Transport (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  R. Bayliss, S. Leung, R. Baker, B. Quimby, A. Corbett, M. Stewart
Structural Basis For The Interaction Between Ntf2 And Nucleoporin Fxfg Repeats
Embo J. V. 21 2843 2002
PubMed-ID: 12065398  |  Reference-DOI: 10.1093/EMBOJ/CDF305

(-) Compounds

Molecule 1 - NUCLEAR TRANSPORT FACTOR 2
    Chains: A, B, C, D
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Taxid: 562
    Mutation: YES
    Organism Common: BAKER'S YEAST
    Organism Scientific: SACCHAROMYCES CEREVISIAE
    Organism Taxid: 4932
    Synonym: NTF-2, NUCLEAR TRANSPORT FACTOR P10
 
Molecule 2 - NUCLEOPORIN
    Chains: E, F, G, H
    Organism Scientific: SYNTHETIC CONSTRUCT
    Organism Taxid: 32630
    Synthetic: YES

 Structural Features

(-) Chains, Units

  12345678
Asymmetric Unit : ABCDEFGH
Biological Unit 1 (1x): AB  EF  
Biological Unit 2 (1x):   CD  GH

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (0, 0)

(no "Ligand,Modified Residues,Ions" information available for 1GYB)

(-) Sites  (0, 0)

(no "Site" information available for 1GYB)

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 1GYB)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (1, 4)

Asymmetric Unit (1, 4)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1NTF2_DOMAINPS50177 Nuclear transport factor 2 domain profile.NTF2_YEAST8-121
 
 
 		  4A:8-121
B:8-121
C:8-121
D:8-121
Biological Unit 1 (1, 2)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1NTF2_DOMAINPS50177 Nuclear transport factor 2 domain profile.NTF2_YEAST8-121
 
 
 		  2A:8-121
B:8-121
-
-
Biological Unit 2 (1, 2)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1NTF2_DOMAINPS50177 Nuclear transport factor 2 domain profile.NTF2_YEAST8-121
 
 
 		  2-
-
C:8-121
D:8-121

(-) Exons   (1, 4)

Asymmetric Unit (1, 4)
 ENSEMBLUniProtKBPDB
No.Transcript IDExonExon IDGenome LocationLengthIDLocationLengthCountLocationLength
1.1YER009W1YER009W.1V:172114-172491378NTF2_YEAST1-1251254A:3-124
B:3-124
C:5-124
D:5-124		122
122
120
120

(-) 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:122
 aligned with NTF2_YEAST | P33331 from UniProtKB/Swiss-Prot  Length:125

    Alignment length:122
                                    12        22        32        42        52        62        72        82        92       102       112       122  
           NTF2_YEAST     3 LDFNTLAQNFTQFYYNQFDTDRSQLGNLYRNESMLTFETSQLQGAKDIVEKLVSLPFQKVQHRITTLDAQPASPNGDVLVMITGDLLIDEEQNPQRFSQVFHLIPDGNSYYVFNDIFRLNYS 124
               SCOP domains d1gyba_ A: Nuclear transport factor-2 (NTF2)                                                                               SCOP domains
               CATH domains 1gybA00 A:3-124  [code=3.10.450.50, no name defined]                                                                       CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .hhhhhhhhhhhhhhhhhhhhhhhhhh.eeeeeeeee..eeeehhhhhhhhhhhh....eeeeeeeeeeee......eeeeeeeeeee......eeeeeeeeeeee..eeeeeeeeeeee.. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -----NTF2_DOMAIN  PDB: A:8-121 UniProt: 8-121                                                                          --- PROSITE
               Transcript 1 Exon 1.1  PDB: A:3-124 UniProt: 1-125 [INCOMPLETE]                                                                         Transcript 1
                 1gyb A   3 LDFNTLAQNFTQFYYNQFDTDRSQLGNLYRNESMLTFETSQLQGAKDIVEKLVSLPFQKVQHRITTLDAQPASPYGDVLVMITGDLLIDEEQNPQRFSQVFHLIPDGNSYYVFNDIFRLNYS 124
                                    12        22        32        42        52        62        72        82        92       102       112       122  


Chain B from PDB  Type:PROTEIN  Length:122
 aligned with NTF2_YEAST | P33331 from UniProtKB/Swiss-Prot  Length:125

    Alignment length:122
                                    12        22        32        42        52        62        72        82        92       102       112       122  
           NTF2_YEAST     3 LDFNTLAQNFTQFYYNQFDTDRSQLGNLYRNESMLTFETSQLQGAKDIVEKLVSLPFQKVQHRITTLDAQPASPNGDVLVMITGDLLIDEEQNPQRFSQVFHLIPDGNSYYVFNDIFRLNYS 124
               SCOP domains d1gybb_ B: Nuclear transport factor-2 (NTF2)                                                                               SCOP domains
               CATH domains 1gybB00 B:3-124  [code=3.10.450.50, no name defined]                                                                       CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .hhhhhhhhhhhhhhhhhhhhhhhhhh.eeeeeeeee..eeeehhhhhhhhhhhh....eeeeeeeeeeee......eeeeeeeeeee......eeeeeeeeeeee..eeeeeeeeeee... Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -----NTF2_DOMAIN  PDB: B:8-121 UniProt: 8-121                                                                          --- PROSITE
               Transcript 1 Exon 1.1  PDB: B:3-124 UniProt: 1-125 [INCOMPLETE]                                                                         Transcript 1
                 1gyb B   3 LDFNTLAQNFTQFYYNQFDTDRSQLGNLYRNESMLTFETSQLQGAKDIVEKLVSLPFQKVQHRITTLDAQPASPYGDVLVMITGDLLIDEEQNPQRFSQVFHLIPDGNSYYVFNDIFRLNYS 124
                                    12        22        32        42        52        62        72        82        92       102       112       122  


Chain C from PDB  Type:PROTEIN  Length:120
 aligned with NTF2_YEAST | P33331 from UniProtKB/Swiss-Prot  Length:125

    Alignment length:120
                                    14        24        34        44        54        64        74        84        94       104       114       124
           NTF2_YEAST     5 FNTLAQNFTQFYYNQFDTDRSQLGNLYRNESMLTFETSQLQGAKDIVEKLVSLPFQKVQHRITTLDAQPASPNGDVLVMITGDLLIDEEQNPQRFSQVFHLIPDGNSYYVFNDIFRLNYS 124
               SCOP domains d1gybc_ C: Nuclear transport factor-2 (NTF2)                                                                             SCOP domains
               CATH domains 1gybC00 C:5-124  [code=3.10.450.50, no name defined]                                                                     CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author hhhhhhhhhhhhhhhhhhhhhhhhh.eeeeeeeee..eeeehhhhhhhhhhhh....eeeeeeeeeeee......eeeeeeeeeee......eeeeeeeeeeee..eeeeeeeeeeee.. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ---NTF2_DOMAIN  PDB: C:8-121 UniProt: 8-121                                                                          --- PROSITE
               Transcript 1 Exon 1.1  PDB: C:5-124 UniProt: 1-125 [INCOMPLETE]                                                                       Transcript 1
                 1gyb C   5 FNTLAQNFTQFYYNQFDTDRSQLGNLYRNESMLTFETSQLQGAKDIVEKLVSLPFQKVQHRITTLDAQPASPYGDVLVMITGDLLIDEEQNPQRFSQVFHLIPDGNSYYVFNDIFRLNYS 124
                                    14        24        34        44        54        64        74        84        94       104       114       124


Chain D from PDB  Type:PROTEIN  Length:120
 aligned with NTF2_YEAST | P33331 from UniProtKB/Swiss-Prot  Length:125

    Alignment length:120
                                    14        24        34        44        54        64        74        84        94       104       114       124
           NTF2_YEAST     5 FNTLAQNFTQFYYNQFDTDRSQLGNLYRNESMLTFETSQLQGAKDIVEKLVSLPFQKVQHRITTLDAQPASPNGDVLVMITGDLLIDEEQNPQRFSQVFHLIPDGNSYYVFNDIFRLNYS 124
               SCOP domains d1gybd_ D: Nuclear transport factor-2 (NTF2)                                                                             SCOP domains
               CATH domains 1gybD00 D:5-124  [code=3.10.450.50, no name defined]                                                                     CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author .hhhhhhhhhhhhhhhhhhhhhhhh.eeeeeeeee..eeeehhhhhhhhhhhh....eeeeeeeeeeee......eeeeeeeeeee......eeeeeeeeeeee..eeeeeeeeeee... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ---NTF2_DOMAIN  PDB: D:8-121 UniProt: 8-121                                                                          --- PROSITE
               Transcript 1 Exon 1.1  PDB: D:5-124 UniProt: 1-125 [INCOMPLETE]                                                                       Transcript 1
                 1gyb D   5 FNTLAQNFTQFYYNQFDTDRSQLGNLYRNESMLTFETSQLQGAKDIVEKLVSLPFQKVQHRITTLDAQPASPYGDVLVMITGDLLIDEEQNPQRFSQVFHLIPDGNSYYVFNDIFRLNYS 124
                                    14        24        34        44        54        64        74        84        94       104       114       124


Chain E from PDB  Type:PROTEIN  Length:5
                                     
               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
                 1gyb E  42 GFSFG  46


Chain F from PDB  Type:PROTEIN  Length:3
                                   
               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
                 1gyb F  43 FSF  45


Chain G from PDB  Type:PROTEIN  Length:4
                                    
               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
                 1gyb G  42 GFSF  45


Chain H from PDB  Type:PROTEIN  Length:3
                                   
               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
                 1gyb H  43 FSF  45
   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  (1, 4)

Asymmetric Unit
(-)
Class: Alpha and beta proteins (a+b) (23004)

(-) CATH Domains  (1, 4)

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

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (8, 8)

Asymmetric Unit(hide GO term definitions)
Chain A,B,C,D   (NTF2_YEAST | P33331)
molecular function
    GO:0008536    Ran GTPase binding    Interacting selectively and non-covalently with Ran, a conserved Ras-like GTP-binding protein, implicated in nucleocytoplasmic transport, cell cycle progression, spindle assembly, nuclear organization and nuclear envelope (NE) assembly.
biological process
    GO:0006913    nucleocytoplasmic transport    The directed movement of molecules between the nucleus and the cytoplasm.
    GO:0006606    protein import into nucleus    The directed movement of a protein from the cytoplasm to the nucleus.
    GO:0015031    protein transport    The directed movement of proteins into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore.
    GO:0006810    transport    The directed movement of substances (such as macromolecules, small molecules, ions) or cellular components (such as complexes and organelles) into, out of or within a cell, or between cells, or within a multicellular organism by means of some agent such as a transporter, pore or motor protein.
cellular component
    GO:0005737    cytoplasm    All of the contents of a cell excluding the plasma membrane and nucleus, but including other subcellular structures.
    GO:0005622    intracellular    The living contents of a cell; the matter contained within (but not including) the plasma membrane, usually taken to exclude large vacuoles and masses of secretory or ingested material. In eukaryotes it includes the nucleus and cytoplasm.
    GO:0005635    nuclear envelope    The double lipid bilayer enclosing the nucleus and separating its contents from the rest of the cytoplasm; includes the intermembrane space, a gap of width 20-40 nm (also called the perinuclear space).

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  1gyb
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  NTF2_YEAST | P33331
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 Related Entries

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

UniProtKB/Swiss-Prot
        NTF2_YEAST | P33331: 1gy7

(-) Related Entries Specified in the PDB File

1gy5 D92N,D94N DOUBLE POINT MUTANT OF HUMAN NUCLEAR TRANSPORT FACTOR 2 (NTF2)
1gy6 NTF2 FROM RAT, AMMONIUM SULPHATE CONDITIONS
1gy7 N77Y POINT MUTANT OF S.CEREVISIAE NTF2