7NAD
State E2 nucleolar 60S ribosomal biogenesis intermediate - Spb4 local refinement model
Entity
| Entity ID | Chain ID | Description | Type | Chain length | Formula weight | Number of molecules | DB Name (Accession) | Biological source | Descriptive keywords |
| 1 | 1 | 25S rRNA | polymer | 697 | 225356.5 | 1 | Saccharomyces cerevisiae BY4741 | ||
| 2 | 2 | 5.8S rRNA | polymer | 72 | 23067.6 | 1 | Saccharomyces cerevisiae BY4741 | ||
| 3 | 5 | RRP17 isoform 1 | polymer | 235 | 28032.6 | 1 | UniProt (A0A6A5Q2X9) Pfam (PF09805) UniProt (by SIFTS) (Q04031) In PDB | Saccharomyces cerevisiae BY4741 | |
| 4 | 8 | NOC2 isoform 1 | polymer | 710 | 81719.3 | 1 | UniProt (A0A8H4BX61) Pfam (PF03715) UniProt (by SIFTS) (P39744) In PDB | Saccharomyces cerevisiae BY4741 | |
| 5 | B | 60S ribosomal protein L3 | polymer | 387 | 43850.8 | 1 | UniProt (P14126) Pfam (PF00297) In PDB | Saccharomyces cerevisiae BY4741 | Large ribosomal subunit protein uL3,Maintenance of killer protein 8,RP1,Trichodermin resistance protein,YL1 |
| 6 | G | RPL8A isoform 1 | polymer | 256 | 28175.8 | 1 | UniProt (A0A8H4C0K3) Pfam (PF01248) UniProt (by SIFTS) (P17076) In PDB | Saccharomyces cerevisiae BY4741 | |
| 7 | I | NOC3 isoform 1 | polymer | 663 | 75689.0 | 1 | UniProt (A0A8H4BYD1) Pfam (PF07540) Pfam (PF03914) UniProt (by SIFTS) (Q07896) In PDB | Saccharomyces cerevisiae BY4741 | |
| 8 | P | 60S ribosomal protein L17-A | polymer | 184 | 20589.5 | 1 | UniProt (P05740) Pfam (PF00237) In PDB | Saccharomyces cerevisiae BY4741 | L20A,Large ribosomal subunit protein uL22-A,YL17 |
| 9 | R | 60S ribosomal protein L19-A | polymer | 189 | 21762.3 | 1 | UniProt (P0CX82) Pfam (PF01280) In PDB | Saccharomyces cerevisiae BY4741 | L23,Large ribosomal subunit protein eL19-A,RP15L,RP33,YL14 |
| 10 | U | 60S ribosomal protein L22-A | polymer | 121 | 13711.4 | 1 | UniProt (P05749) Pfam (PF01776) In PDB | Saccharomyces cerevisiae BY4741 | L1c,Large ribosomal subunit protein eL22-A,RP4,YL31 |
| 11 | V | 60S ribosomal protein L23-A | polymer | 36 | 4023.9 | 1 | Pfam (PF00238) UniProt (by SIFTS) (P0CX41) In PDB | Saccharomyces cerevisiae BY4741 | |
| 12 | X | 60S ribosomal protein L25 | polymer | 142 | 15787.6 | 1 | UniProt (P04456) Pfam (PF03939) Pfam (PF00276) In PDB | Saccharomyces cerevisiae BY4741 | Large ribosomal subunit protein uL23,RP16L,YL25,YP42' |
| 13 | Z | 60S ribosomal protein L27-A | polymer | 136 | 15568.4 | 1 | UniProt (P0C2H6) Pfam (PF01777) In PDB | Saccharomyces cerevisiae BY4741 | Large ribosomal subunit protein eL27-A |
| 14 | b | Nucleolar GTP-binding protein 1 | polymer | 647 | 74531.2 | 1 | UniProt (Q02892) Pfam (PF17835) Pfam (PF06858) Pfam (PF08155) In PDB | Saccharomyces cerevisiae BY4741 | |
| 15 | c | 60S ribosomal protein L30 | polymer | 105 | 11430.4 | 1 | UniProt (P14120) Pfam (PF01248) In PDB | Saccharomyces cerevisiae BY4741 | L32,Large ribosomal subunit protein eL30,RP73,YL38 |
| 16 | d | 60S ribosomal protein L31-A | polymer | 113 | 12980.2 | 1 | UniProt (P0C2H8) Pfam (PF01198) In PDB | Saccharomyces cerevisiae BY4741 | L34,Large ribosomal subunit protein eL31-A,YL28 |
| 17 | g | 60S ribosomal protein L34-A | polymer | 121 | 13673.2 | 1 | UniProt (P87262) Pfam (PF01199) In PDB | Saccharomyces cerevisiae BY4741 | Large ribosomal subunit protein eL34-A |
| 18 | k | RPL38 isoform 1 | polymer | 78 | 8845.6 | 1 | UniProt (A0A6A5PUL8) Pfam (PF01781) UniProt (by SIFTS) (P49167) In PDB | Saccharomyces cerevisiae BY4741 | |
| 19 | m | Ribosome biogenesis protein ERB1 | polymer | 429 | 48685.1 | 1 | Pfam (PF00400) UniProt (by SIFTS) (Q04660) In PDB | Saccharomyces cerevisiae BY4741 | |
| 20 | n | Pescadillo homolog | polymer | 104 | 12445.7 | 1 | Pfam (PF06732) UniProt (by SIFTS) (P53261) In PDB | Saccharomyces cerevisiae BY4741 | |
| 21 | p | YTM1 isoform 1 | polymer | 460 | 51426.6 | 1 | UniProt (A0A8H4BV53) Pfam (PF08154) Pfam (PF00400) UniProt (by SIFTS) (Q12024) In PDB | Saccharomyces cerevisiae BY4741 | |
| 22 | t | RLP7 isoform 1 | polymer | 322 | 36621.1 | 1 | UniProt (A0A8H4BY26) Pfam (PF00327) UniProt (by SIFTS) (P40693) In PDB | Saccharomyces cerevisiae BY4741 | |
| 23 | u | Ribosome biogenesis protein RLP24 | polymer | 199 | 24027.7 | 1 | UniProt (A0A6A5PUP3) Pfam (PF01246) UniProt (by SIFTS) (Q07915) In PDB | Saccharomyces cerevisiae BY4741 | |
| 24 | w | SPB1 isoform 1 | polymer | 841 | 96656.2 | 1 | UniProt (A0A8H4BSI2) Pfam (PF01728) Pfam (PF11861) Pfam (PF07780) UniProt (by SIFTS) (P25582) In PDB | Saccharomyces cerevisiae BY4741 | |
| 25 | j | 60S ribosomal protein L37-A | polymer | 88 | 9877.4 | 1 | UniProt (P49166) Pfam (PF01907) In PDB | Saccharomyces cerevisiae BY4741 | L43,Large ribosomal subunit protein eL37-A,YL35,YP55 |
| 26 | x | SPB4 isoform 1 | polymer | 606 | 69492.2 | 1 | UniProt (A0A8H8UL81) Pfam (PF00270) Pfam (PF00271) Pfam (PF13959) UniProt (by SIFTS) (P25808) In PDB | Saccharomyces cerevisiae BY4741 | |
| 27 | g | ZINC ION | non-polymer | 65.4 | 1 | Chemie (ZN) |
Sequence modifications
x: 1 - 606 (UniProt: A0A8H8UL81)
| PDB | External Database | Details |
|---|---|---|
| Ala 405 | Thr 405 | conflict |
Sequence viewer
Contents of the asymmetric unit
| Polymers | Number of chains | 26 |
| Total formula weight | 1068027.1 | |
| Non-Polymers* | Number of molecules | 1 |
| Total formula weight | 65.4 | |
| All* | Total formula weight | 1068092.5 |
