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(-) Description

Title :  CRYSTAL STRUCTURE OF RPC62 - RPC32 BETA
 
Authors :  S. Fribourg
Date :  23 Jan 15  (Deposition) - 07 Oct 15  (Release) - 02 Dec 15  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  7.00
Chains :  Asym. Unit :  A,B,D,E
Biol. Unit 1:  A,D  (1x)
Biol. Unit 2:  B,E  (1x)
Keywords :  Replication, Human Rna Polymerase Iii (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  F. Boissier, H. Dumay-Odelot, M. Teichmann, S. Fribourg
Structural Analysis Of Human Rpc32Beta - Rpc62 Complex.
J. Struct. Biol. V. 192 313 2015
PubMed-ID: 26394183  |  Reference-DOI: 10.1016/J.JSB.2015.09.004

(-) Compounds

Molecule 1 - DNA-DIRECTED RNA POLYMERASE III SUBUNIT RPC3
    Chains: A, B
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Strain: BL21(DE3)
    Expression System Taxid: 469008
    Expression System Variant: ROSETTA
    Organism Common: HUMAN
    Organism Scientific: HOMO SAPIENS
    Organism Taxid: 9606
    Synonym: RNA POLYMERASE III SUBUNIT C3, DNA-DIRECTED RNA POLYMERASE III SUBUNIT C, RNA POLYMERASE III 62 KDA SUBUNIT, RPC62, RPC62
 
Molecule 2 - RPC32 BETA (RPC7L)
    Chains: D, E
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Strain: BL21(DE3)
    Expression System Taxid: 469008
    Expression System Variant: ROSETTA
    Organism Common: HUMAN
    Organism Scientific: HOMO SAPIENS
    Organism Taxid: 9606

 Structural Features

(-) Chains, Units

  1234
Asymmetric Unit : ABDE
Biological Unit 1 (1x): A D 
Biological Unit 2 (1x):  B E

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (1, 72)

Asymmetric Unit (1, 72)
No.NameCountTypeFull Name
1UNK72Mod. Amino Acid
Biological Unit 1 (0, 0)
No.NameCountTypeFull Name
1UNK-1Mod. Amino Acid
Biological Unit 2 (0, 0)
No.NameCountTypeFull Name
1UNK-1Mod. Amino Acid

(-) Sites  (0, 0)

(no "Site" information available for 5AFQ)

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (16, 16)

Asymmetric Unit
No.Residues
1Met A:1 -Thr A:2
2Gly A:232 -Ile A:233
3Asp A:328 -Ser A:329
4Gly A:330 -Gly A:331
5Lys A:373 -His A:374
6Ile A:375 -Glu A:376
7Met B:1 -Thr B:2
8Asp B:328 -Ser B:329
9Gly B:330 -Gly B:331
10His B:374 -Ile B:375
11Ile B:375 -Glu B:376
12Ala B:472 -Ser B:473
13Unk D:-14 -Unk D:-13
14Unk D:-12 -Unk D:-11
15Unk D:-1 -Unk D:0
16Unk D:1 -Unk D:2

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 5AFQ)

(-) 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:443
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                           
               SCOP domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .hhhhhhhhhhhhhhhhhhhhhhhhhhhhhh..eehhhhhhhh..hhhhhhhhhhhhhhh...eeeee...eeeee.hhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhhhhh...hhhhhhhhhhhhh..........hhhhhhhhhhhhhhh..eee........eeehhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh..............eehhhhhhh.......hhhhhhhhhhhhhh.....eee.......eeeehhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.......hhhhhhhhh.hhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhh..........hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5afq A   1 MTQAEIKLCSLLLQEHFGEIVEKIGVHLIRTGSQPLRVIAHDTGTSLDQVKKALCVLVQHNLVSYQVHKRGVVEYEAQCSRVLRMLRYPRYIYTTKTLYSDTGELIVEELLLNGKLTMSAVVKKVADRLTETMEDGKTMDYAEVSNTFVRLADTHFVQRCPSVDGIYWQANLDRFHQHFRDQAIVSAVANRMDQTSSEIVRTMLRMSEITTSSSAPFTQPLSSNEIFRSLPVGYNISKQVLDQYLTLLADDPLEFVGKSGDSGGGMYVINLHKALASLATATLESVVQERFGSRCARIFRLVLQKKHIEQKQVEDFAMIPAKEAKDMLYKMLSENFVNILSAARMLLHRCYKSIANLIERRQFETKENKRLLEKSQRVEAIIASMQATGAEEAQLQEIEEMITAPERQQLETLKRNVNKLDASEIQVDETIFLLESYIECTMK 532
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160  ||   237       247       257       267       277       287       297       307       317       327       337       347       357       367       377       387       397     ||429       439       449       459       469       479       489       499       509       519       529   
                                                                                                                                                                                            163|                                                                                                                                                                         403|                                                                                                          
                                                                                                                                                                                             231                                                                                                                                                                          426                                                                                                          


Chain B from PDB  Type:PROTEIN  Length:444
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author .hhhhhhhhhhhhhhhhhhhhhhhhhhhhhh..eehhhhhhhh..hhhhhhhhhhhhhhh...eeeee...eeeee.hhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhhhhh..eehhhhhhhhhhhh..........hhhhhhhhhhhhhhh..eee.......eeeehhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh..............eehhhhhhh.......hhhhhhhhhhhhhh.....eee.......eeeehhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.......hhhhhhhhh.hhhhhhhhhhhhhhh....hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhh.........hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 5afq B   1 MTQAEIKLCSLLLQEHFGEIVEKIGVHLIRTGSQPLRVIAHDTGTSLDQVKKALCVLVQHNLVSYQVHKRGVVEYEAQCSRVLRMLRYPRYIYTTKTLYSDTGELIVEELLLNGKLTMSAVVKKVADRLTETMEDGKTMDYAEVSNTFVRLADTHFVQRCPSVDGIYWQANLDRFHQHFRDQAIVSAVANRMDQTSSEIVRTMLRMSEITTSSSAPFTQPLSSNEIFRSLPVGYNISKQVLDQYLTLLADDPLEFVGKSGDSGGGMYVINLHKALASLATATLESVVQERFGSRCARIFRLVLQKKHIEQKQVEDFAMIPAKEAKDMLYKMLSENFMVNILSAARMLLHRCYKSIANLIERRQFETKENKRLLEKSQRVEAIIASMQATGAEEAQLQEIEEMITAPERQQLETLKRNVNKLDASEIQVDETIFLLESYIECTMK 532
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160  ||   237       247       257       267       277       287       297       307       317       327       337       347       357       367       377       387       397      |428       438       448       458       468       478       488       498       508       518       528    
                                                                                                                                                                                            163|                                                                                                                                                                          404|                                                                                                          
                                                                                                                                                                                             231                                                                                                                                                                           426                                                                                                          


Chain D from PDB  Type:PROTEIN  Length:53
                                                                                     
               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
                 5afq D -15 xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx 156
                            ||||||||-6|||||||||4||||||||14|||||||143|||||||153|||
                          -15-UNK|||-6-UNK||||3-UNK|||12-UNK||140-UNK||149-UNK|||
                           -14-UNK|||-5-UNK||| 4-UNK|||13-UNK||141-UNK||150-UNK||
                            -13-UNK|| -4-UNK||  5-UNK|| 14-UNK||142-UNK||151-UNK|
                             -12-UNK|  -3-UNK|   6-UNK|  15-UNK| 143-UNK| 152-UNK
                              -11-UNK   -2-UNK    7-UNK   16-UNK  144-UNK  153-UNK
                               -10-UNK   -1-UNK    8-UNK   17-UNK  145-UNK  154-UNK
                                 -9-UNK    0-UNK    9-UNK   18-UNK  146-UNK  155-UNK
                                  -8-UNK    1-UNK   10-UNK   19-UNK  147-UNK  156-UNK
                                   -7-UNK    2-UNK   11-UNK   20-UNK  148-UNK    


Chain E from PDB  Type:PROTEIN  Length:19
                                                   
               SCOP domains ------------------- SCOP domains
               CATH domains ------------------- CATH domains
               Pfam domains ------------------- Pfam domains
         Sec.struct. author .hhhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ------------------- SAPs(SNPs)
                    PROSITE ------------------- PROSITE
                 Transcript ------------------- Transcript
                 5afq E   2 xxxxxxxxxxxxxxxxxxx  20
                            ||||||||11|||||||||
                            |||||||10-UNK|||19-UNK
                            2-UNK|||11-UNK|||20-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   18-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 5AFQ)

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (17, 17)

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  Cis Peptide Bonds
    Ala B:472 - Ser B:473   [ RasMol ]  
    Asp A:328 - Ser A:329   [ RasMol ]  
    Asp B:328 - Ser B:329   [ RasMol ]  
    Gly A:232 - Ile A:233   [ RasMol ]  
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    Gly B:330 - Gly B:331   [ RasMol ]  
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 Related Entries

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        RPC3_HUMAN | Q9BUI4: 2xub 2xv4

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