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Asym./Biol. Unit  (Jmol Viewer)

(-) Description

Title :  Y-COMPLEX HUB (NUP85-NUP120-NUP145C-SEC13 COMPLEX) FROM M. THERMOPHILA (A.K.A. T. HETEROTHALLICA)
 
Authors :  K. Kelley, K. E. Knockenhauer, T. U. Schwartz
Date :  20 Feb 15  (Deposition) - 01 Apr 15  (Release) - 27 May 15  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  4.10
Chains :  Asym./Biol. Unit :  A,B,C
Keywords :  Structural Protein Complex, Nuclear Pore Complex, Macromolecular Assemblies, Structural Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  K. Kelley, K. E. Knockenhauer, G. Kabachinski, T. U. Schwartz
Atomic Structure Of The Y Complex Of The Nuclear Pore.
Nat. Struct. Mol. Biol. V. 22 425 2015
PubMed-ID: 25822992  |  Reference-DOI: 10.1038/NSMB.2998

(-) Compounds

Molecule 1 - FUSION PROTEIN OF SEC13 AND NUP145C
    Chains: A
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Strain: BL21-LOBSTR
    Expression System Taxid: 511693
    Gene: MYCTH_2306744, MYCTH_2306912
    Organism Scientific: THIELAVIA HETEROTHALLICA
    Organism Taxid: 573729
    Strain: ATCC 42464 / BCRC 31852 / DSM 1799
 
Molecule 2 - NUP85
    Chains: B
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Strain: BL21-LOBSTR
    Expression System Taxid: 511693
    Gene: MYCTH_2059413
    Organism Scientific: THIELAVIA HETEROTHALLICA
    Organism Taxid: 573729
    Strain: ATCC 42464 / BCRC 31852 / DSM 1799
 
Molecule 3 - NUP120
    Chains: C
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Strain: BL21-LOBSTR
    Expression System Taxid: 511693
    Gene: MYCTH_2296711
    Organism Scientific: THIELAVIA HETEROTHALLICA
    Organism Taxid: 573729
    Strain: ATCC 42464 / BCRC 31852 / DSM 1799

 Structural Features

(-) Chains, Units

  123
Asymmetric/Biological Unit : ABC

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (1, 12)

Asymmetric/Biological Unit (1, 12)
No.NameCountTypeFull Name
1MSE12Mod. Amino AcidSELENOMETHIONINE

(-) Sites  (0, 0)

(no "Site" information available for 4YCZ)

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 4YCZ)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 4YCZ)

(-) 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:713
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                          
               SCOP domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .....eee......eee.....eeeeeeee..eeeeeeeee.....eee....hhhhh.eeeeee...eeeeeee....eeeeeeee.....eeeeee.hhhhh..eeeee......eee......eee...........eeee..........eeee.......eeeeee....eeee.............eeee.......eeeeee.....eeeee...............eeeeeee....eeeeee....eeeeee.....eeee..............................hhhhhhhhhhhhhh................hhhhhhhhh.......hhhhhhhhhhhh...........hhhhhhhh...hhhhhhhhhhhhhhhhhhhhhhh...hhhhhhhhhhhh.......hhhhhhhhh.......hhhhhhhhhhhhhh.......hhhhhhhhh...........hhhhhhhhhh.....hhhhhhhhhhhhhhhhhh...hhhhhhhhh...hhhhhhhhhhhhhhhhhhh...hhhhhhhhhh.....hhhhhhhhhhhhhh..hhhhhhhh....hhhhhhhhhhhhhhh..hhhhhhhhhhhhhh.....hhhhhhhhhhhhhhhhhh......hhhhhhhhhhhhhhhh..hhhhhhhhhhhhhh............hhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                4ycz A   19 DMIHDAVLDYYGRRLATCSSDRTIKIFEIEGETQRLTETLKGHDGAVWCVSWAHPKYGNILASAGYDGKVLIWRELNGAWQRIFDFALHKASVNVVSWSPHEAGCLLACASSDGNVSVLEFRDNSWEHSIFHAHGLGVNSVSWAPATSPGSIVRRFVTGGSDNALKIWAYDPATNTYKLEREPLTGHTDWVRDVAWSPTVLQKSYIASASDRTVRIWTSDPANPLQWNCKVLAAVWRVSWSLSGNVLAASGGDNKVTLWKENLKGEWECVTNWGPNGLLVTTHHGEPADGTLAASEESVGSPENLARLQRYIDSVSFKEASPEFRELAQGDPSWELASLLFDDNGYGLPAFWRQLVSEATDRALAQEPEEKAIICLAGNRVADACGYLLAAGNFRLATLVSGIGMFSQPVRAIYELLARFGLDWMRSFGLRLFYTTGATANVAEAVRSFQADIEQDKEPEPDSALWSLLKAFANQEFDWSDGWLLTKAIYATGKGQDAAEKLDKASLAYASALTAQSQWVPATFVLLQLSDAASREAAVRDHLGRHARRPRNPNSAFSSLRKFGVPETWIWEAKALDFRARSQQEFLALVWAQNYSEANQAFVHRVGPDLVDFRRLFRFAQLLFKVKGKQDWDRGAAVYLLYPMARLQGQHGLDKFDHQLFDGLVALRGQTHGDIRQEAAIADMAEDLIRCRGGDPRLFGLLPEDVRSKYMRA 1784
                                    28        38        48        58        68        78        88        98       108       118       128       138       148       158       168  ||   189       199       209       219       229       239|      250       260 ||    273       283       293       303|     1280      1294      1304      1314      1328      1338      1348      1358      1368      1380      1390      1400      1410    ||1440      1475      1485      1495      1505      1515      1525      1535||    1548   || 1561      1571      1581      1591      1601      1614      1624      1634      1644||    1656      1666      1676||    1689      1700      1710      1721      1731      1741      1751      1761      1771      1781   
                                                                                                                                                                                  171|                                                     239|                  262|                                  303|            1287|                           1323|                                            1376|                                1415|        1448|                                                          1536|        1552|                                                  1610|                           1645|                         1677|             1698|               1719|                                                               
                                                                                                                                                                                   183                                                      241                   266                                  1271             1292                            1328                                             1379                                 1436         1474                                                           1540         1556                                                   1614                            1648                          1681              1700                1721                                                               


Chain B from PDB  Type:PROTEIN  Length:590
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                               
               SCOP domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .hhhhhhhhhh...........hhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhh.hhhhhhhhhh.......hhhhhhh..........hhhhhhhhh.hhhhhhhhhh...........hhhhhhhhhhhhh....hhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhh....hhhhhhhh..hhhhhhhhhhh...........hhhhhhhhh..hhhhhhhhhhh..hhhhhhhhhhh...........hhhhhhhhhhhh.............hhhhhhhhh.....hhhhhhhhhhhhhh.....hhhhhhhhhhhhh...hhhhhhhhhhhhhhhh......hhhhhhhhhh..hhhhhhhhhhhhhhhhhhh......hhhhhhh....hhhhhhhh..hhhhhhhhhh.hhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhh.......hhhhhhhhhhhhhh...hhhhhhhhhhhhh.....hhhhhhhhhhhhh........hhhhhhhhhh.......hhhhhhhhhhhhhhhhhh..... Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                4ycz B  314 SEYRYAALAKDAYQQmGTAPVTEPPQVILGTEDLLSRLYDEKmDDTLATAAAQLAALWREHVDETPFEKANYLANLALQIHHPLPQTLFRWLNEYHmYGSQVDDILRHRPSPACHSLFWQAVFIALKVGDAARLLDQAGWGHVYAYVNVQRAVDETIAVLESCPTLFRVRARGLLEHLRRFAEGWEIYENLNIVFDIVLGQQGAILEAAQDWLEATVGLANSESYLDRLARAFHTAVESDFVEIGmACVFEDNIKGVIGLLRGWSLPIAAAVAEIASLGKWLEVDGIKDSTLVQYAQALADYEGLSSVQDRDGWELSISVLGRmPERSEEmVRDLVEHLVQQLHVDSNATVDRLWFLLNELGmIEFAEDTTETYGDILARDSHRYGEAmWYYALAHRPNKVREVmNLLTSYSLIQPPANDLDDYLYKLLNDRKNTLEQCASQDmEAAELLGKmLSGYASLRQFYDIRPHATPLSRRKQAATALISVIASSDDEDFLLALLGEALVFVSDPTLDQIDVLLKAIEDLQAVGSRVYNACDEFLQLVLASAPGGSSLVASQLQRSLSGTGGEDImRRLRLGLAKDLAGLWLAEA 1176
                                   323     | 333       343       353|||    372       382   ||  410       420 ||    442     ||453       463       473     ||486       496  ||  |518       528   ||  551       561   ||  606       616       626       669       679       689||   | 706       716       726       736 ||    776       786       796||     811   ||  823|      833       843       853  |    863       873       883       893    |  903    || 917       927       937   |   947  |    957      |973       983       993 ||   1019      1029|     1054      1064      1074      1112      1122     |1156|     1166      1176
                                         329-MSE                  354||                  386|              422|          448|                          479|             499|  ||             532|                565|                               635|                  690|   |                                 738|                         797|         815-MSE  |                             856-MSE                   882-MSE         898-MSE   908|                         941-MSE  950-MSE       964|                     995|             1029|                                  1083|            1128|   |                   
                                                                   364|                   405               435           450-MSE                       483              507  ||              546                 601                                669                   698   |                                  769                          803          818     |                                                                                  913                                                 971                     1012              1045                                   1112             1153   |                   
                                                                    365-MSE                                                                                                 510|                                                                                               702-MSE                                                                              824-MSE                                                                                                                                                                                                                                        1157-MSE               
                                                                                                                                                                             516                                                                                                                                                                                                                                                                                                                                                                                                                                                          


Chain C from PDB  Type:PROTEIN  Length:195
                                                                                                                                                                                                                                    
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .hhhhhhhhhh.....hhhhhhhhh....hhhhhhhhhhhh..hhhhhh..hhhhhhhhhhhhhhh........hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhh............hhhhhhhhhhhhh....hhhhhhhhhhhhhhh......hhhhhhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                4ycz C  968 MLSRLFTAATSISHFEEAHSALLSMMQKSYLRRLVEKMCETGQSSELITLPFSGLQTKVDDILVEKCRATRVPYHQILYAWRINHNDYRGGAAILLDRLQKLRRAGALDTQVTRQYLLLINALSCVPPQEAYILEDDDLEADIDELEKKLDVEGEDAALIEKMKRFSTRNGARRLLMLADLRKQYQQELDRIVAI 1224
                                   977       987    ||1001      1011      1021      1031      1041||    1056      1066      1076     |1100      1110      1120     |1152      1162   || 1185      1195||    1209      1219     
                                                  992|                                         1042|                              1082|                         1126|             1166|            1196|                       
                                                   997                                          1048                               1097                          1149              1180             1201
   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 4YCZ)

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (15, 16)

Asymmetric/Biological Unit(hide GO term definitions)

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 Related Entries

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