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(-) Description

Title :  SEC13/SEC31 EDGE ELEMENT, LOOP DELETION MUTANT
 
Authors :  J. R. Whittle, T. U. Schwartz
Date :  12 May 10  (Deposition) - 18 Aug 10  (Release) - 18 Aug 10  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.80
Chains :  Asym. Unit :  A,B,C,D,E,F,G,H
Biol. Unit 1:  A,B,C,D  (1x)
Biol. Unit 2:  E,F,G,H  (1x)
Keywords :  Alpha-Helical-Stack, Beta-Propeller, Protein Transport (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  J. R. Whittle, T. U. Schwartz
Structure Of The Sec13-Sec16 Edge Element, A Template For Assembly Of The Copii Vesicle Coat.
J. Cell Biol. V. 190 347 2010
PubMed-ID: 20696705  |  Reference-DOI: 10.1083/JCB.201003092

(-) Compounds

Molecule 1 - PROTEIN TRANSPORT PROTEIN SEC13
    Chains: A, C, E, G
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PETDUET
    Expression System Strain: BL21(DE3) RIL
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Gene: ANU3, L8167.4, SEC13, YLR208W
    Organism Common: YEAST
    Organism Scientific: SACCHAROMYCES CEREVISIAE
    Organism Taxid: 4932
 
Molecule 2 - PROTEIN TRANSPORT PROTEIN SEC31
    Chains: B, D, F, H
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PETDUET
    Expression System Strain: BL21(DE3) RIL
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Fragment: UNP RESIDUES 370-746, DELETION OF RESIDUES 474-507
    Gene: D1229, SEC31, WEB1, YDL195W
    Organism Common: YEAST
    Organism Scientific: SACCHAROMYCES CEREVISIAE
    Organism Taxid: 4932
    Synonym: PROTEIN WEB1

 Structural Features

(-) Chains, Units

  12345678
Asymmetric Unit : ABCDEFGH
Biological Unit 1 (1x): ABCD    
Biological Unit 2 (1x):     EFGH

Summary Information (see also Sequences/Alignments below)

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

(no "Ligand,Modified Residues,Ions" information available for 3MZL)

(-) Sites  (0, 0)

(no "Site" information available for 3MZL)

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 3MZL)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 3MZL)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 3MZL)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 3MZL)

(-) Exons   (2, 8)

Asymmetric Unit (2, 8)
 ENSEMBLUniProtKBPDB
No.Transcript IDExonExon IDGenome LocationLengthIDLocationLengthCountLocationLength
1.1YDL195W1YDL195W.1IV:107209-1110303822SEC31_YEAST1-127312734B:376-745 (gaps)
D:376-745 (gaps)
F:376-745 (gaps)
H:376-745 (gaps)		370
370
370
370
2.1YLR208W1YLR208W.1XII:559553-560446894SEC13_YEAST1-2972974A:2-292 (gaps)
C:2-292 (gaps)
E:2-292 (gaps)
G:2-292 (gaps)		291
291
291
291

(-) 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:279
 aligned with SEC13_YEAST | Q04491 from UniProtKB/Swiss-Prot  Length:297

    Alignment length:291
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211       221       231       241       251       261       271       281       291 
          SEC13_YEAST     2 VVIANAHNELIHDAVLDYYGKRLATCSSDKTIKIFEVEGETHKLIDTLTGHEGPVWRVDWAHPKFGTILASCSYDGKVLIWKEENGRWSQIAVHAVHSASVNSVQWAPHEYGPLLLVASSDGKVSVVEFKENGTTSPIIIDAHAIGVNSASWAPATIEEDGEHNGTKESRKFVTGGADNLVKIWKYNSDAQTYVLESTLEGHSDWVRDVAWSPTVLLRSYLASVSQDRTCIIWTQDNEQGPWKKTLLKEEKFPDVLWRASWSLSGNVLALSGGDNKVTLWKENLEGKWEPA 292
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .ee.......eeeeee.....eeeeee....eeeeee....eeeeeee......eeeeee.......eeeeee....eeeeeee..eeeeeeee......eeeeee.......eeeeee...eeeeee.........eeee.....eeeeee....------------..eeeeee....eeeeeee....eeeeeeee......eee..........eeeeeee....eeeeee.......eeee.........eeeeee......eeeee....eeeeee.....eee. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
               Transcript 2 Exon 2.1  PDB: A:2-292 (gaps) UniProt: 1-297 [INCOMPLETE]                                                                                                                                                                                                                                           Transcript 2
                 3mzl A   2 VVIANAHNELIHDAVLDYYGKRLATCSSDKTIKIFEVEGETHKLIDTLTGHEGPVWRVDWAHPKFGTILASCSYDGKVLIWKEENGRWSQIAVHAVHSASVNSVQWAPHEYGPLLLVASSDGKVSVVEFKENGTTSPIIIDAHAIGVNSASWAPAT------------SRKFVTGGADNLVKIWKYNSDAQTYVLESTLEGHSDWVRDVAWSPTVLLRSYLASVSQDRTCIIWTQDNEQGPWKKTLLKEEKFPDVLWRASWSLSGNVLALSGGDNKVTLWKENLEGKWEPA 292
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151     |   -       171       181       191       201       211       221       231       241       251       261       271       281       291 
                                                                                                                                                                                     157          170                                                                                                                          


Chain B from PDB  Type:PROTEIN  Length:329
 aligned with SEC31_YEAST | P38968 from UniProtKB/Swiss-Prot  Length:1273

    Alignment length:370
                                   385       395       405       415       425       435       445       455       465       475       485       495       505       515       525       535       545       555       565       575       585       595       605       615       625       635       645       655       665       675       685       695       705       715       725       735       745
          SEC31_YEAST   376 WYGEPSPAAHWAFGGKLVQITPDGKGVSITNPKISGLESNTTLSEALKTKDFKPLINQRLVKVIDDVNEEDWNLLEKLSMDGTEEFLKEALAFDNDESDAQDDANNEKEDDGEEFFQQIETNFQPEGDFSLSGNIEQTISKNLVSGNIKSAVKNSLENDLLMEAMVIALDSNNERLKESVKNAYFAKYGSKSSLSRILYSISKREVDDLVENLDVSQWKFISKAIQNLYPNDIAQRNEMLIKLGDRLKENGHRQDSLTLYLAAGSLDKVASIWLSEFPDLEDKLKKDNKTIYEAHSECLTEFIERFTVFSNFINGSSTINNEQLIAKFLEFINLTTSTGNFELATEFLNSLPSDNEEVKTEKARVLIASG 745
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .........eee...eeeee......eeee.........hhhhhhhhhh..hhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhhhhh...--------------------------------------hhhhhhhhhhhhh.hhhhhhhhhhh..hhhhhhhhhhh.....hhhhhhhhhhhhhh..hhhhhhhhhhhh..hhhhhhhh...hhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhh.hhhhhhhhhhhhhhhhhh.......hhhhhhhhhhhhhhhhhhhhhhh...---..hhhhhhhhhhhhhhhhh..hhhhhhhhhhh....hhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
               Transcript 1 Exon 1.1  PDB: B:376-745 (gaps) UniProt: 1-1273 [INCOMPLETE]                                                                                                                                                                                                                                                                                                                       Transcript 1
                 3mzl B 376 WYGEPSPAAHWAFGGKLVQITPDGKGVSITNPKISGLESNTTLSEALKTKDFKPLINQRLVKVIDDVNEEDWNLLEKLSMDGTEEFLKEALAFD--------------------------------------GNIEQTISKNLVSGNIKSAVKNSLENDLLMEAMVIALDSNNERLKESVKNAYFAKYGSKSSLSRILYSISKREVDDLVENLDVSQWKFISKAIQNLYPNDIAQRNEMLIKLGDRLKENGHRQDSLTLYLAAGSLDKVASIWLSEFPDLEDKLKKDNKTIYEAHSECLTEFIERFTVFSNFING---INNEQLIAKFLEFINLTTSTGNFELATEFLNSLPSDNEEVKTEKARVLIASG 745
                                   385       395       405       415       425       435       445       455       465   |     -         -         -         -  |    515       525       535       545       555       565       575       585       595       605       615       625       635       645       655       665       675       685    |  695       705       715       725       735       745
                                                                                                                       469                                    508                                                                                                                                                                                   690 694                                                   


Chain C from PDB  Type:PROTEIN  Length:279
 aligned with SEC13_YEAST | Q04491 from UniProtKB/Swiss-Prot  Length:297

    Alignment length:291
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211       221       231       241       251       261       271       281       291 
          SEC13_YEAST     2 VVIANAHNELIHDAVLDYYGKRLATCSSDKTIKIFEVEGETHKLIDTLTGHEGPVWRVDWAHPKFGTILASCSYDGKVLIWKEENGRWSQIAVHAVHSASVNSVQWAPHEYGPLLLVASSDGKVSVVEFKENGTTSPIIIDAHAIGVNSASWAPATIEEDGEHNGTKESRKFVTGGADNLVKIWKYNSDAQTYVLESTLEGHSDWVRDVAWSPTVLLRSYLASVSQDRTCIIWTQDNEQGPWKKTLLKEEKFPDVLWRASWSLSGNVLALSGGDNKVTLWKENLEGKWEPA 292
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .ee.......eeeeee.....eeeeee...eeeeeee....eeeeeeee.....eeeeee.hhhhh.eeeeee....eeeeeee..eeeeeeee......eeeeee.......eeeeee...eeeeee.........eeee.....eeeeee....------------..eeeeee....eeeeeee....eeeeeeee......eeeeee.......eeeeeee....eeeeee.......eeee.........eeeeee......eeeee....eeeeee.....eee. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
               Transcript 2 Exon 2.1  PDB: C:2-292 (gaps) UniProt: 1-297 [INCOMPLETE]                                                                                                                                                                                                                                           Transcript 2
                 3mzl C   2 VVIANAHNELIHDAVLDYYGKRLATCSSDKTIKIFEVEGETHKLIDTLTGHEGPVWRVDWAHPKFGTILASCSYDGKVLIWKEENGRWSQIAVHAVHSASVNSVQWAPHEYGPLLLVASSDGKVSVVEFKENGTTSPIIIDAHAIGVNSASWAPAT------------SRKFVTGGADNLVKIWKYNSDAQTYVLESTLEGHSDWVRDVAWSPTVLLRSYLASVSQDRTCIIWTQDNEQGPWKKTLLKEEKFPDVLWRASWSLSGNVLALSGGDNKVTLWKENLEGKWEPA 292
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151     |   -       171       181       191       201       211       221       231       241       251       261       271       281       291 
                                                                                                                                                                                     157          170                                                                                                                          


Chain D from PDB  Type:PROTEIN  Length:329
 aligned with SEC31_YEAST | P38968 from UniProtKB/Swiss-Prot  Length:1273

    Alignment length:370
                                   385       395       405       415       425       435       445       455       465       475       485       495       505       515       525       535       545       555       565       575       585       595       605       615       625       635       645       655       665       675       685       695       705       715       725       735       745
          SEC31_YEAST   376 WYGEPSPAAHWAFGGKLVQITPDGKGVSITNPKISGLESNTTLSEALKTKDFKPLINQRLVKVIDDVNEEDWNLLEKLSMDGTEEFLKEALAFDNDESDAQDDANNEKEDDGEEFFQQIETNFQPEGDFSLSGNIEQTISKNLVSGNIKSAVKNSLENDLLMEAMVIALDSNNERLKESVKNAYFAKYGSKSSLSRILYSISKREVDDLVENLDVSQWKFISKAIQNLYPNDIAQRNEMLIKLGDRLKENGHRQDSLTLYLAAGSLDKVASIWLSEFPDLEDKLKKDNKTIYEAHSECLTEFIERFTVFSNFINGSSTINNEQLIAKFLEFINLTTSTGNFELATEFLNSLPSDNEEVKTEKARVLIASG 745
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .........eee...eeeee......eeee.........hhhhhhhhhh..hhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhhhhh...--------------------------------------hhhhhhhhhhhhh.hhhhhhhhhhh..hhhhhhhhhh.....hhhhhhhhhhhhhh...hhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhhhhh....---..hhhhhhhhhhhhhhhhhh.hhhhhhhhhh.....hhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
               Transcript 1 Exon 1.1  PDB: D:376-745 (gaps) UniProt: 1-1273 [INCOMPLETE]                                                                                                                                                                                                                                                                                                                       Transcript 1
                 3mzl D 376 WYGEPSPAAHWAFGGKLVQITPDGKGVSITNPKISGLESNTTLSEALKTKDFKPLINQRLVKVIDDVNEEDWNLLEKLSMDGTEEFLKEALAFD--------------------------------------GNIEQTISKNLVSGNIKSAVKNSLENDLLMEAMVIALDSNNERLKESVKNAYFAKYGSKSSLSRILYSISKREVDDLVENLDVSQWKFISKAIQNLYPNDIAQRNEMLIKLGDRLKENGHRQDSLTLYLAAGSLDKVASIWLSEFPDLEDKLKKDNKTIYEAHSECLTEFIERFTVFSNFING---INNEQLIAKFLEFINLTTSTGNFELATEFLNSLPSDNEEVKTEKARVLIASG 745
                                   385       395       405       415       425       435       445       455       465   |     -         -         -         -  |    515       525       535       545       555       565       575       585       595       605       615       625       635       645       655       665       675       685    |  695       705       715       725       735       745
                                                                                                                       469                                    508                                                                                                                                                                                   690 694                                                   


Chain E from PDB  Type:PROTEIN  Length:279
 aligned with SEC13_YEAST | Q04491 from UniProtKB/Swiss-Prot  Length:297

    Alignment length:291
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211       221       231       241       251       261       271       281       291 
          SEC13_YEAST     2 VVIANAHNELIHDAVLDYYGKRLATCSSDKTIKIFEVEGETHKLIDTLTGHEGPVWRVDWAHPKFGTILASCSYDGKVLIWKEENGRWSQIAVHAVHSASVNSVQWAPHEYGPLLLVASSDGKVSVVEFKENGTTSPIIIDAHAIGVNSASWAPATIEEDGEHNGTKESRKFVTGGADNLVKIWKYNSDAQTYVLESTLEGHSDWVRDVAWSPTVLLRSYLASVSQDRTCIIWTQDNEQGPWKKTLLKEEKFPDVLWRASWSLSGNVLALSGGDNKVTLWKENLEGKWEPA 292
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .ee.......eeeeee......eeeee...eeeeeee....eeeeeeee.....eeeeee.hhhhh.eeeeee....eeeeeee..eeeeeeee......eeeeee.hhhhh.eeeeee...eeeeee.........eeee.....eeeeee....------------..eeeeee....eeeeeee....eeeeeeee......eeeeee.......eeeeeee....eeeeee.......eeee.........eeeeee......eeeee....eeeeee.....eee. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
               Transcript 2 Exon 2.1  PDB: E:2-292 (gaps) UniProt: 1-297 [INCOMPLETE]                                                                                                                                                                                                                                           Transcript 2
                 3mzl E   2 VVIANAHNELIHDAVLDYYGKRLATCSSDKTIKIFEVEGETHKLIDTLTGHEGPVWRVDWAHPKFGTILASCSYDGKVLIWKEENGRWSQIAVHAVHSASVNSVQWAPHEYGPLLLVASSDGKVSVVEFKENGTTSPIIIDAHAIGVNSASWAPAT------------SRKFVTGGADNLVKIWKYNSDAQTYVLESTLEGHSDWVRDVAWSPTVLLRSYLASVSQDRTCIIWTQDNEQGPWKKTLLKEEKFPDVLWRASWSLSGNVLALSGGDNKVTLWKENLEGKWEPA 292
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151     |   -       171       181       191       201       211       221       231       241       251       261       271       281       291 
                                                                                                                                                                                     157          170                                                                                                                          


Chain F from PDB  Type:PROTEIN  Length:329
 aligned with SEC31_YEAST | P38968 from UniProtKB/Swiss-Prot  Length:1273

    Alignment length:370
                                   385       395       405       415       425       435       445       455       465       475       485       495       505       515       525       535       545       555       565       575       585       595       605       615       625       635       645       655       665       675       685       695       705       715       725       735       745
          SEC31_YEAST   376 WYGEPSPAAHWAFGGKLVQITPDGKGVSITNPKISGLESNTTLSEALKTKDFKPLINQRLVKVIDDVNEEDWNLLEKLSMDGTEEFLKEALAFDNDESDAQDDANNEKEDDGEEFFQQIETNFQPEGDFSLSGNIEQTISKNLVSGNIKSAVKNSLENDLLMEAMVIALDSNNERLKESVKNAYFAKYGSKSSLSRILYSISKREVDDLVENLDVSQWKFISKAIQNLYPNDIAQRNEMLIKLGDRLKENGHRQDSLTLYLAAGSLDKVASIWLSEFPDLEDKLKKDNKTIYEAHSECLTEFIERFTVFSNFINGSSTINNEQLIAKFLEFINLTTSTGNFELATEFLNSLPSDNEEVKTEKARVLIASG 745
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .........eee...eeeee......eeee.........hhhhhhhhhh..hhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhhhhh...--------------------------------------hhhhhhhhhhhhh.hhhhhhhhhhh..hhhhhhhhhh.....hhhhhhhhhhhhhh...hhhhhhhhhhhh..hhhhhhhh...hhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhh.......hhhhhhhhhhhhhhhhhhhhhh....---..hhhhhhhhhhhhhhhhh..hhhhhhhhhh.....hhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
               Transcript 1 Exon 1.1  PDB: F:376-745 (gaps) UniProt: 1-1273 [INCOMPLETE]                                                                                                                                                                                                                                                                                                                       Transcript 1
                 3mzl F 376 WYGEPSPAAHWAFGGKLVQITPDGKGVSITNPKISGLESNTTLSEALKTKDFKPLINQRLVKVIDDVNEEDWNLLEKLSMDGTEEFLKEALAFD--------------------------------------GNIEQTISKNLVSGNIKSAVKNSLENDLLMEAMVIALDSNNERLKESVKNAYFAKYGSKSSLSRILYSISKREVDDLVENLDVSQWKFISKAIQNLYPNDIAQRNEMLIKLGDRLKENGHRQDSLTLYLAAGSLDKVASIWLSEFPDLEDKLKKDNKTIYEAHSECLTEFIERFTVFSNFING---INNEQLIAKFLEFINLTTSTGNFELATEFLNSLPSDNEEVKTEKARVLIASG 745
                                   385       395       405       415       425       435       445       455       465   |     -         -         -         -  |    515       525       535       545       555       565       575       585       595       605       615       625       635       645       655       665       675       685    |  695       705       715       725       735       745
                                                                                                                       469                                    508                                                                                                                                                                                   690 694                                                   


Chain G from PDB  Type:PROTEIN  Length:279
 aligned with SEC13_YEAST | Q04491 from UniProtKB/Swiss-Prot  Length:297

    Alignment length:291
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211       221       231       241       251       261       271       281       291 
          SEC13_YEAST     2 VVIANAHNELIHDAVLDYYGKRLATCSSDKTIKIFEVEGETHKLIDTLTGHEGPVWRVDWAHPKFGTILASCSYDGKVLIWKEENGRWSQIAVHAVHSASVNSVQWAPHEYGPLLLVASSDGKVSVVEFKENGTTSPIIIDAHAIGVNSASWAPATIEEDGEHNGTKESRKFVTGGADNLVKIWKYNSDAQTYVLESTLEGHSDWVRDVAWSPTVLLRSYLASVSQDRTCIIWTQDNEQGPWKKTLLKEEKFPDVLWRASWSLSGNVLALSGGDNKVTLWKENLEGKWEPA 292
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
           Pfam domains (1) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------WD40-3mzlG01 G:195-235                   --------------------------------------------------------- Pfam domains (1)
           Pfam domains (2) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------WD40-3mzlG02 G:195-235                   --------------------------------------------------------- Pfam domains (2)
           Pfam domains (3) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------WD40-3mzlG03 G:195-235                   --------------------------------------------------------- Pfam domains (3)
           Pfam domains (4) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------WD40-3mzlG04 G:195-235                   --------------------------------------------------------- Pfam domains (4)
           Pfam domains (5) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------WD40-3mzlG05 G:195-235                   --------------------------------------------------------- Pfam domains (5)
           Pfam domains (6) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------WD40-3mzlG06 G:195-235                   --------------------------------------------------------- Pfam domains (6)
           Pfam domains (7) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------WD40-3mzlG07 G:195-235                   --------------------------------------------------------- Pfam domains (7)
           Pfam domains (8) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------WD40-3mzlG08 G:195-235                   --------------------------------------------------------- Pfam domains (8)
           Pfam domains (9) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------WD40-3mzlG09 G:195-235                   --------------------------------------------------------- Pfam domains (9)
          Pfam domains (10) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------WD40-3mzlG10 G:195-235                   --------------------------------------------------------- Pfam domains (10)
          Pfam domains (11) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------WD40-3mzlG11 G:195-235                   --------------------------------------------------------- Pfam domains (11)
          Pfam domains (12) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------WD40-3mzlG12 G:195-235                   --------------------------------------------------------- Pfam domains (12)
          Pfam domains (13) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------WD40-3mzlG13 G:195-235                   --------------------------------------------------------- Pfam domains (13)
          Pfam domains (14) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------WD40-3mzlG14 G:195-235                   --------------------------------------------------------- Pfam domains (14)
          Pfam domains (15) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------WD40-3mzlG15 G:195-235                   --------------------------------------------------------- Pfam domains (15)
          Pfam domains (16) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------WD40-3mzlG16 G:195-235                   --------------------------------------------------------- Pfam domains (16)
          Pfam domains (17) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------WD40-3mzlG17 G:195-235                   --------------------------------------------------------- Pfam domains (17)
          Pfam domains (18) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------WD40-3mzlG18 G:195-235                   --------------------------------------------------------- Pfam domains (18)
          Pfam domains (19) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------WD40-3mzlG19 G:195-235                   --------------------------------------------------------- Pfam domains (19)
          Pfam domains (20) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------WD40-3mzlG20 G:195-235                   --------------------------------------------------------- Pfam domains (20)
         Sec.struct. author .ee.......eeeeee.....eeeeee....eeeeee....eeeeeee......eeeeee.......eeeeee....eeeeeee..eeeeeeee......eeeeee.......eeeeee...eeeeee.........eeee.....eeeeee....------------..eeeeee....eeeeeee....eeeeeeee......eeeeee.......eeeeeee....eeeeee.......eeee.........eeeeee......eeeee....eeeeee.....eee. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
               Transcript 2 Exon 2.1  PDB: G:2-292 (gaps) UniProt: 1-297 [INCOMPLETE]                                                                                                                                                                                                                                           Transcript 2
                 3mzl G   2 VVIANAHNELIHDAVLDYYGKRLATCSSDKTIKIFEVEGETHKLIDTLTGHEGPVWRVDWAHPKFGTILASCSYDGKVLIWKEENGRWSQIAVHAVHSASVNSVQWAPHEYGPLLLVASSDGKVSVVEFKENGTTSPIIIDAHAIGVNSASWAPAT------------SRKFVTGGADNLVKIWKYNSDAQTYVLESTLEGHSDWVRDVAWSPTVLLRSYLASVSQDRTCIIWTQDNEQGPWKKTLLKEEKFPDVLWRASWSLSGNVLALSGGDNKVTLWKENLEGKWEPA 292
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151     |   -       171       181       191       201       211       221       231       241       251       261       271       281       291 
                                                                                                                                                                                     157          170                                                                                                                          


Chain H from PDB  Type:PROTEIN  Length:329
 aligned with SEC31_YEAST | P38968 from UniProtKB/Swiss-Prot  Length:1273

    Alignment length:370
                                   385       395       405       415       425       435       445       455       465       475       485       495       505       515       525       535       545       555       565       575       585       595       605       615       625       635       645       655       665       675       685       695       705       715       725       735       745
          SEC31_YEAST   376 WYGEPSPAAHWAFGGKLVQITPDGKGVSITNPKISGLESNTTLSEALKTKDFKPLINQRLVKVIDDVNEEDWNLLEKLSMDGTEEFLKEALAFDNDESDAQDDANNEKEDDGEEFFQQIETNFQPEGDFSLSGNIEQTISKNLVSGNIKSAVKNSLENDLLMEAMVIALDSNNERLKESVKNAYFAKYGSKSSLSRILYSISKREVDDLVENLDVSQWKFISKAIQNLYPNDIAQRNEMLIKLGDRLKENGHRQDSLTLYLAAGSLDKVASIWLSEFPDLEDKLKKDNKTIYEAHSECLTEFIERFTVFSNFINGSSTINNEQLIAKFLEFINLTTSTGNFELATEFLNSLPSDNEEVKTEKARVLIASG 745
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .........eee...eeeee......eeee.........hhhhhhhhhhh.hhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhhhhh...--------------------------------------hhhhhhhhhhhhh.hhhhhhhhhhhh..hhhhhhhhhhhh..hhhhhhhhhhhh.....hhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhhhhhh...---..hhhhhhhhhhhhhhhhhh.hhhhhhhhhh.....hhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
               Transcript 1 Exon 1.1  PDB: H:376-745 (gaps) UniProt: 1-1273 [INCOMPLETE]                                                                                                                                                                                                                                                                                                                       Transcript 1
                 3mzl H 376 WYGEPSPAAHWAFGGKLVQITPDGKGVSITNPKISGLESNTTLSEALKTKDFKPLINQRLVKVIDDVNEEDWNLLEKLSMDGTEEFLKEALAFD--------------------------------------GNIEQTISKNLVSGNIKSAVKNSLENDLLMEAMVIALDSNNERLKESVKNAYFAKYGSKSSLSRILYSISKREVDDLVENLDVSQWKFISKAIQNLYPNDIAQRNEMLIKLGDRLKENGHRQDSLTLYLAAGSLDKVASIWLSEFPDLEDKLKKDNKTIYEAHSECLTEFIERFTVFSNFING---INNEQLIAKFLEFINLTTSTGNFELATEFLNSLPSDNEEVKTEKARVLIASG 745
                                   385       395       405       415       425       435       445       455       465   |     -         -         -         -  |    515       525       535       545       555       565       575       585       595       605       615       625       635       645       655       665       675       685    |  695       705       715       725       735       745
                                                                                                                       469                                    508                                                                                                                                                                                   690 694
   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 3MZL)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 3MZL)

(-) Pfam Domains  (1, 20)

Asymmetric Unit
(-)
Clan: Beta_propeller (192)
(-)
Family: WD40 (64)
(-)
Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Bakers yeast) (18)
1aWD40-3mzlG01G:195-235
1bWD40-3mzlG02G:195-235
1cWD40-3mzlG03G:195-235
1dWD40-3mzlG04G:195-235
1eWD40-3mzlG05G:195-235
1fWD40-3mzlG06G:195-235
1gWD40-3mzlG07G:195-235
1hWD40-3mzlG08G:195-235
1iWD40-3mzlG09G:195-235
1jWD40-3mzlG10G:195-235
1kWD40-3mzlG11G:195-235
1lWD40-3mzlG12G:195-235
1mWD40-3mzlG13G:195-235
1nWD40-3mzlG14G:195-235
1oWD40-3mzlG15G:195-235
1pWD40-3mzlG16G:195-235
1qWD40-3mzlG17G:195-235
1rWD40-3mzlG18G:195-235
1sWD40-3mzlG19G:195-235
1tWD40-3mzlG20G:195-235

(-) Gene Ontology  (26, 39)

Asymmetric Unit(hide GO term definitions)
Chain A,C,E,G   (SEC13_YEAST | Q04491)
molecular function
    GO:0042802    identical protein binding    Interacting selectively and non-covalently with an identical protein or proteins.
    GO:0005515    protein binding    Interacting selectively and non-covalently with any protein or protein complex (a complex of two or more proteins that may include other nonprotein molecules).
    GO:0005198    structural molecule activity    The action of a molecule that contributes to the structural integrity of a complex or its assembly within or outside a cell.
biological process
    GO:0090114    COPII-coated vesicle budding    The evagination of an endoplasmic reticulum membrane, resulting in formation of a COPII-coated vesicle.
    GO:0051028    mRNA transport    The directed movement of mRNA, messenger ribonucleic acid, into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore.
    GO:0031081    nuclear pore distribution    Any process that establishes the spatial arrangement of nuclear pores within the nuclear envelope.
    GO:0043547    positive regulation of GTPase activity    Any process that activates or increases the activity of a GTPase.
    GO:1904263    positive regulation of TORC1 signaling    Any process that activates or increases the frequency, rate or extent of TORC1 signaling.
    GO:0045893    positive regulation of transcription, DNA-templated    Any process that activates or increases the frequency, rate or extent of cellular DNA-templated transcription.
    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.
    GO:0030433    ubiquitin-dependent ERAD pathway    The series of steps necessary to target endoplasmic reticulum (ER)-resident proteins for degradation by the cytoplasmic proteasome. Begins with recognition of the ER-resident protein, includes retrotranslocation (dislocation) of the protein from the ER to the cytosol, protein ubiquitination necessary for correct substrate transfer, transport of the protein to the proteasome, and ends with degradation of the protein by the cytoplasmic proteasome.
    GO:0016192    vesicle-mediated transport    A cellular transport process in which transported substances are moved in membrane-bounded vesicles; transported substances are enclosed in the vesicle lumen or located in the vesicle membrane. The process begins with a step that directs a substance to the forming vesicle, and includes vesicle budding and coating. Vesicles are then targeted to, and fuse with, an acceptor membrane.
cellular component
    GO:0030127    COPII vesicle coat    One of two multimeric complexes that forms a membrane vesicle coat. COPII is best characterized in S. cerevisiae, where the subunits are called Sar1p, Sec13p, Sec31p, Sec23p, and Sec24p. Vesicles with COPII coats are found associated with endoplasmic reticulum (ER) membranes at steady state.
    GO:0012507    ER to Golgi transport vesicle membrane    The lipid bilayer surrounding a vesicle transporting substances from the endoplasmic reticulum to the Golgi.
    GO:0000139    Golgi membrane    The lipid bilayer surrounding any of the compartments of the Golgi apparatus.
    GO:0035859    Seh1-associated complex    A protein complex that associates dynamically with the vacuolar membrane, and is proposed to have a role in membrane-associated trafficking or regulatory processes. In S. cerevisiae the complex contains Seh1p, Sec13p, Npr2p, Npr3p, Iml1p, Mtc5p, Rtc1p, and Sea4p.
    GO:0031410    cytoplasmic vesicle    A vesicle found in the cytoplasm of a cell.
    GO:0005783    endoplasmic reticulum    The irregular network of unit membranes, visible only by electron microscopy, that occurs in the cytoplasm of many eukaryotic cells. The membranes form a complex meshwork of tubular channels, which are often expanded into slitlike cavities called cisternae. The ER takes two forms, rough (or granular), with ribosomes adhering to the outer surface, and smooth (with no ribosomes attached).
    GO:0005789    endoplasmic reticulum membrane    The lipid bilayer surrounding the endoplasmic reticulum.
    GO:0016020    membrane    A lipid bilayer along with all the proteins and protein complexes embedded in it an attached to it.
    GO:0005643    nuclear pore    Any of the numerous similar discrete openings in the nuclear envelope of a eukaryotic cell, where the inner and outer nuclear membranes are joined.
    GO:0031080    nuclear pore outer ring    A subcomplex of the nuclear pore complex (NPC) that forms the outer rings of the core scaffold, a lattice-like structure that gives the NPC its shape and strength. In S. cerevisiae, the two outer rings each contain multiple copies of the following proteins: Nup133p, Nup120p, Nup145Cp, Nup85p, Nup84p, Seh1p, and Sec13p. In vertebrates, the two outer rings each contain multiple copies of the following proteins: Nup133, Nup160, Nup96, Nup75, Nup107, Seh1, Sec13, Nup43, Nup37, and ALADIN. Components are arranged in 8-fold symmetrical 'spokes' around the central transport channel. A single 'spoke', can be isolated and is sometimes referred to as the Nup84 complex (S. cerevisiae) or the Nup107-160 complex (vertebrates).
    GO:0005634    nucleus    A membrane-bounded organelle of eukaryotic cells in which chromosomes are housed and replicated. In most cells, the nucleus contains all of the cell's chromosomes except the organellar chromosomes, and is the site of RNA synthesis and processing. In some species, or in specialized cell types, RNA metabolism or DNA replication may be absent.
    GO:0005774    vacuolar membrane    The lipid bilayer surrounding the vacuole and separating its contents from the cytoplasm of the cell.
    GO:0005773    vacuole    A closed structure, found only in eukaryotic cells, that is completely surrounded by unit membrane and contains liquid material. Cells contain one or several vacuoles, that may have different functions from each other. Vacuoles have a diverse array of functions. They can act as a storage organelle for nutrients or waste products, as a degradative compartment, as a cost-effective way of increasing cell size, and as a homeostatic regulator controlling both turgor pressure and pH of the cytosol.

Chain B,D,F,H   (SEC31_YEAST | P38968)
molecular function
    GO:0005515    protein binding    Interacting selectively and non-covalently with any protein or protein complex (a complex of two or more proteins that may include other nonprotein molecules).
    GO:0005198    structural molecule activity    The action of a molecule that contributes to the structural integrity of a complex or its assembly within or outside a cell.
biological process
    GO:0090114    COPII-coated vesicle budding    The evagination of an endoplasmic reticulum membrane, resulting in formation of a COPII-coated vesicle.
    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.
    GO:0016192    vesicle-mediated transport    A cellular transport process in which transported substances are moved in membrane-bounded vesicles; transported substances are enclosed in the vesicle lumen or located in the vesicle membrane. The process begins with a step that directs a substance to the forming vesicle, and includes vesicle budding and coating. Vesicles are then targeted to, and fuse with, an acceptor membrane.
cellular component
    GO:0030127    COPII vesicle coat    One of two multimeric complexes that forms a membrane vesicle coat. COPII is best characterized in S. cerevisiae, where the subunits are called Sar1p, Sec13p, Sec31p, Sec23p, and Sec24p. Vesicles with COPII coats are found associated with endoplasmic reticulum (ER) membranes at steady state.
    GO:0012507    ER to Golgi transport vesicle membrane    The lipid bilayer surrounding a vesicle transporting substances from the endoplasmic reticulum to the Golgi.
    GO:0000139    Golgi membrane    The lipid bilayer surrounding any of the compartments of the Golgi apparatus.
    GO:0031410    cytoplasmic vesicle    A vesicle found in the cytoplasm of a cell.
    GO:0005783    endoplasmic reticulum    The irregular network of unit membranes, visible only by electron microscopy, that occurs in the cytoplasm of many eukaryotic cells. The membranes form a complex meshwork of tubular channels, which are often expanded into slitlike cavities called cisternae. The ER takes two forms, rough (or granular), with ribosomes adhering to the outer surface, and smooth (with no ribosomes attached).
    GO:0005789    endoplasmic reticulum membrane    The lipid bilayer surrounding the endoplasmic reticulum.
    GO:0016020    membrane    A lipid bilayer along with all the proteins and protein complexes embedded in it an attached to it.

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  3mzl
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  SEC31_YEAST | P38968
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 Related Entries

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

UniProtKB/Swiss-Prot
        SEC13_YEAST | Q04491: 2pm6 2pm7 2pm9 3iko 3jro 3jrp 3mzk 4bzj 4bzk 4xmm 4xmn
        SEC31_YEAST | P38968: 2pm6 2pm7 2pm9 2qtv 4bzj 4bzk

(-) Related Entries Specified in the PDB File

3mzk