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(-) Description

Title :  STRUCTURE OF THE SACCHAROMYCES CEREVISIAE TREX-2 COMPLEX
 
Authors :  S. Aibara, X. C. Bai, M. Stewart
Date :  26 May 16  (Deposition) - 23 Nov 16  (Release) - 14 Dec 16  (Revision)
Method :  ELECTRON MICROSCOPY
Resolution :  5.30
Chains :  Asym./Biol. Unit :  A,B,C,D,E,F
Keywords :  Transport Protein, Mrna, Mrna Export (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  S. Aibara, X. C. Bai, M. Stewart
The Sac3 Tpr-Like Region In The Saccharomyces Cerevisiae Trex-2 Complex Is More Extensive But Independent Of The Cid Region
J. Struct. Biol. V. 195 316 2016
PubMed-ID: 27422657  |  Reference-DOI: 10.1016/J.JSB.2016.07.007

(-) Compounds

Molecule 1 - NUCLEAR MRNA EXPORT PROTEIN SAC3
    Chains: A
    Engineered: YES
    Expression System: SPODOPTERA FRUGIPERDA
    Expression System Cell Line: SF9
    Expression System Common: FALL ARMYWORM
    Expression System Plasmid: PACEBACRZ
    Expression System Taxid: 7108
    Expression System Vector Type: BACULOVIRUS
    Organism Common: BAKER'S YEAST
    Organism Scientific: SACCHAROMYCES CEREVISIAE
    Organism Taxid: 4932
    Synonym: LEUCINE PERMEASE TRANSCRIPTIONAL REGULATOR, SAC3
 
Molecule 2 - NUCLEAR MRNA EXPORT PROTEIN THP1
    Chains: B
    Engineered: YES
    Expression System: SPODOPTERA FRUGIPERDA
    Expression System Cell Line: SF9
    Expression System Common: FALL ARMYWORM
    Expression System Plasmid: PACEBACRZ
    Expression System Taxid: 7108
    Expression System Vector Type: BACULOVIRUS
    Organism Common: BAKER'S YEAST
    Organism Scientific: SACCHAROMYCES CEREVISIAE
    Organism Taxid: 4932
    Synonym: BUD SITE SELECTION PROTEIN 29, THP1
 
Molecule 3 - 26S PROTEASOME COMPLEX SUBUNIT SEM1
    Chains: C
    Engineered: YES
    Expression System: SPODOPTERA FRUGIPERDA
    Expression System Cell Line: SF9
    Expression System Common: FALL ARMYWORM
    Expression System Plasmid: PACEBACRZ
    Expression System Taxid: 7108
    Expression System Vector Type: BACULOVIRUS
    Organism Common: BAKER'S YEAST
    Organism Scientific: SACCHAROMYCES CEREVISIAE
    Organism Taxid: 4932
    Synonym: SEM1
 
Molecule 4 - NUCLEAR MRNA EXPORT PROTEIN SAC3
    Chains: D, E, F
    Engineered: YES
    Expression System: SPODOPTERA FRUGIPERDA
    Expression System Cell Line: SF9
    Expression System Common: FALL ARMYWORM
    Expression System Plasmid: PACEBACRZ
    Expression System Taxid: 7108
    Expression System Vector Type: BACULOVIRUS
    Organism Common: BAKER'S YEAST
    Organism Scientific: SACCHAROMYCES CEREVISIAE
    Organism Taxid: 4932
    Other Details: CHAINS D, F AND E ARE MODELLED AS POLYALA
    Synonym: LEUCINE PERMEASE TRANSCRIPTIONAL REGULATOR, SAC3

 Structural Features

(-) Chains, Units

  123456
Asymmetric/Biological Unit : ABCDEF

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (1, 52)

Asymmetric/Biological Unit (1, 52)
No.NameCountTypeFull Name
1UNK52Mod. Amino Acid

(-) Sites  (0, 0)

(no "Site" information available for 5G5P)

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 5G5P)

(-) Cis Peptide Bonds  (1, 1)

Asymmetric/Biological Unit
No.Residues
1Leu A:276 -Pro A:277

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 5G5P)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 5G5P)

(-) Exons   (0, 0)

(no "Exon" information available for 5G5P)

(-) 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:294
                                                                                                                                                                                                                                                                                                                                      
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ...hhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhhhhhhhh.....hhhhhhhhhhhhhhhhhhhhhhhhh.....hhhhhhhhhhhhh..hhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhh.................hhhhhhhhhh....hhhhhhhhh.hhhhhhhhhhhhhhh........eehhhhhhhhh..hhhhhhhhhhhh...ee...ee.hhhh.................hhhhhhhhh..hhhhhhh. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 5g5p A 254 DVRPPHILVKTLDYIVDNLLTTLPESEGFLWDRMRSIRQDFTYQNYSGPEAVDCNERIVRIHLLILHIMVKSNVEFSLQQELEQLHKSLITLSEIYDDVRSSGGTCPNEAEFRAYALLSKIRDPQYDENIQRLPKHIFQDKLVQMALCFRRVISNSAYTERGFVKTENCLNFYARFFQLMQSPSLPLLMGFFLQMHLTDIRFYALRALSHTLNKKHKPIPFIYLENMLLFNNRQEIIEFCNYYSIEIINGDAADLKTLQHYSHKLSETQPLKKTYLTCLERRLQKTTYKGLING 547
                                   263       273       283       293       303       313       323       333       343       353       363       373       383       393       403       413       423       433       443       453       463       473       483       493       503       513       523       533       543    


Chain B from PDB  Type:PROTEIN  Length:455
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                       
               SCOP domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .hhhhhhhhhhhh........hhhhhhhhhhhhhhhhh..hhhhhhhhhhh......hhhhhhhhhhhhhhhhhh.......hhhhhhhhhhhhhhh.......hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhhh............hhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhhhhh........hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhhhhh.....eeehhhhhhhhhhhhh.....................hhhhhhhhhhhh....eeee....eeee....hhhhhh.hhhhhhhhhh........ Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5g5p B   1 MDMANQLLDELAHGNFSHLTLNLSQNGREIAILQKQLTGFDDKQLETFVEQHPAMPNDTRFKIMCTSFLNYARDVDPWSAWSSSDLIFEFYQCLINCLINDNAPHIEMLIPVATRETEFIINLAGKLDSFHLQLHTRSHQFLSHISSILSRLFNSIKPPRGNASSTNIPGKQRILLYLVNKLNNIYFRIESPQLCSNIFKNFQPKSMLAHFNEYQLDQQIEYRYLLGRYYLLNSQVHNAFVQFNEAFQSLLNLPLTNQAITRNGTRILNYMIPTGLILGKMVKWGPLRPFLSQETIDNWSVLYKHVRYGNIQGVSLWLRQNERHLCARQLLIVLLEKLPMVTYRNLIKTVIKSWTTEWGQNKLPYSLIERVLQLSIGPTFEDPGAQEITIYNGIHSPKNVENVLVTLINLGLLRANCFPQLQLCVVKKTTMIQEIVPPVNERITKMFPAHSHVLW 455
                                    10        20        30        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     


Chain C from PDB  Type:PROTEIN  Length:48
                                                                                
               SCOP domains ------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------ Pfam domains
         Sec.struct. author hhhhhh.......................hhhhhhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------ Transcript
                 5g5p C  27 KSLEEDDEFEDFPIDTNIWEENWDDVEVDDDFTNELKAELDRYKRENQ  89
                                    36    ||  61        71        81        
                                         41|                                
                                          57                                


Chain D from PDB  Type:PROTEIN  Length:17
                                                 
               SCOP domains ----------------- SCOP domains
               CATH domains ----------------- CATH domains
               Pfam domains ----------------- Pfam domains
         Sec.struct. author hhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ----------------- SAPs(SNPs)
                    PROSITE ----------------- PROSITE
                 Transcript ----------------- Transcript
                 5g5p D   1 xxxxxxxxxxxxxxxxx  17
                            ||||||||10|||||||
                            1-UNK|||10-UNK|||
                             2-UNK|||11-UNK||
                              3-UNK|| 12-UNK|
                               4-UNK|  13-UNK
                                5-UNK   14-UNK
                                 6-UNK   15-UNK
                                  7-UNK   16-UNK
                                   8-UNK   17-UNK
                                    9-UNK    


Chain E from PDB  Type:PROTEIN  Length:24
                                                        
               SCOP domains ------------------------ SCOP domains
               CATH domains ------------------------ CATH domains
               Pfam domains ------------------------ Pfam domains
         Sec.struct. author .hhhhhhhhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ------------------------ SAPs(SNPs)
                    PROSITE ------------------------ PROSITE
                 Transcript ------------------------ Transcript
                 5g5p E   1 xxxxxxxxxxxxxxxxxxxxxxxx  24
                            ||||||||10||||||||20||||
                            ||||||||9-UNK|||18-UNK||
                            1-UNK|||10-UNK|||19-UNK|
                             2-UNK|| 11-UNK|| 20-UNK
                              3-UNK|  12-UNK|  21-UNK
                               4-UNK   13-UNK   22-UNK
                                5-UNK   14-UNK   23-UNK
                                 6-UNK   15-UNK   24-UNK
                                  7-UNK   16-UNK    
                                   8-UNK   17-UNK   


Chain F from PDB  Type:PROTEIN  Length:11
                                           
               SCOP domains ----------- SCOP domains
               CATH domains ----------- CATH domains
               Pfam domains ----------- Pfam domains
         Sec.struct. author hhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ----------- SAPs(SNPs)
                    PROSITE ----------- PROSITE
                 Transcript ----------- Transcript
                 5g5p F   1 xxxxxxxxxxx  11
                            ||||||||10|
                            ||||||||9-UNK
                            1-UNK|||10-UNK
                             2-UNK|| 11-UNK
                              3-UNK|   
                               4-UNK   
                                5-UNK  
                                 6-UNK 
                                  7-UNK
                                   8-UNK
   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 5G5P)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 5G5P)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 5G5P)

(-) Gene Ontology  (35, 51)

Asymmetric/Biological Unit(hide GO term definitions)

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  Cis Peptide Bonds
    Leu A:276 - Pro A:277   [ RasMol ]  
 

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 Related Entries

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

UniProtKB/Swiss-Prot
        SAC3_YEAST | P46674: 3fwb 3fwc 3t5v 4c31 4mbe 4trq 5l3t
        SEM1_YEAST | O94742: 3jck 3jco 3jcp 3t5v 4cr2 4cr3 4cr4 4trq 5a5b 5l3t 5mpb 5mpc 5mpd 5mpe 5ubp 5wvi 5wvk
        THP1_YEAST | Q08231: 3t5v 4trq 5l3t 5ubp

(-) Related Entries Specified in the PDB File

(no "Related Entries Specified in the PDB File" available for 5G5P)