7MQA
Cryo-EM structure of the human SSU processome, state post-A1
This is a non-PDB format compatible entry.
Entity
| Entity ID | Chain ID | Description | Type | Chain length | Formula weight | Number of molecules | DB Name (Accession) | Biological source | Descriptive keywords |
| 1 | A (L0) | 5'ETS rRNA | polymer | 3617 | 1166881.9 | 1 | GenBank (1212788588) | Homo sapiens (Human) | |
| 2 | B (L1) | 18S rRNA | polymer | 1872 | 604234.4 | 1 | GenBank (151415227) | Homo sapiens (Human) | |
| 3 | C (L2) | U3 snoRNA | polymer | 217 | 70017.2 | 1 | GenBank (37551) | Homo sapiens (Human) | |
| 4 | D (L3) | 40S ribosomal protein S18 | polymer | 116 | 12672.0 | 1 | Pfam (PF00416) UniProt (by SIFTS) (P62269) | Homo sapiens (Human) | |
| 5 | E (L4) | 40S ribosomal protein S4, X isoform | polymer | 263 | 29654.9 | 1 | UniProt (P62701) Pfam (PF08071) Pfam (PF00900) Pfam (PF00467) Pfam (PF16121) | Homo sapiens (Human) | SCR10,Single copy abundant mRNA protein,Small ribosomal subunit protein eS4 |
| 6 | F (L5) | 40S ribosomal protein S5 | polymer | 204 | 22913.5 | 1 | UniProt (P46782) Pfam (PF00177) | Homo sapiens (Human) | Small ribosomal subunit protein uS7 |
| 7 | G (L6) | 40S ribosomal protein S6 | polymer | 249 | 28751.9 | 1 | UniProt (P62753) Pfam (PF01092) | Homo sapiens (Human) | Phosphoprotein NP33,Small ribosomal subunit protein eS6 |
| 8 | H (L7) | 40S ribosomal protein S7 | polymer | 194 | 22168.9 | 1 | UniProt (P62081) Pfam (PF01251) | Homo sapiens (Human) | Small ribosomal subunit protein eS7 |
| 9 | I (L8) | 40S ribosomal protein S8 | polymer | 208 | 24263.4 | 1 | UniProt (P62241) Pfam (PF01201) | Homo sapiens (Human) | Small ribosomal subunit protein eS8 |
| 10 | J (L9) | 40S ribosomal protein S9 | polymer | 194 | 22641.6 | 1 | UniProt (P46781) Pfam (PF00163) Pfam (PF01479) | Homo sapiens (Human) | Small ribosomal subunit protein uS4 |
| 11 | K (LA) | 40S ribosomal protein S12 | polymer | 132 | 14539.0 | 1 | UniProt (P25398) Pfam (PF01248) | Homo sapiens (Human) | Small ribosomal subunit protein eS12 |
| 12 | L (LC) | 40S ribosomal protein S16 | polymer | 146 | 16477.4 | 1 | UniProt (P62249) Pfam (PF00380) | Homo sapiens (Human) | Small ribosomal subunit protein uS9 |
| 13 | M (LD) | 40S ribosomal protein S11 | polymer | 158 | 18468.8 | 1 | UniProt (P62280) Pfam (PF16205) Pfam (PF00366) | Homo sapiens (Human) | Small ribosomal subunit protein uS17 |
| 14 | N (LF) | 40S ribosomal protein S24 | polymer | 133 | 15463.3 | 1 | UniProt (P62847) Pfam (PF01282) | Homo sapiens (Human) | Small ribosomal subunit protein eS24 |
| 15 | O (LG) | 40S ribosomal protein S28 | polymer | 69 | 7855.1 | 1 | UniProt (P62857) Pfam (PF01200) | Homo sapiens (Human) | Small ribosomal subunit protein eS28 |
| 16 | P (LH) | WD repeat-containing protein 75 | polymer | 830 | 94609.6 | 1 | UniProt (Q8IWA0) Pfam (PF00400) | Homo sapiens (Human) | U3 small nucleolar RNA-associated protein 17 homolog |
| 17 | Q (LI) | Nucleolar protein 11 | polymer | 678 | 73444.7 | 1 | Pfam (PF08168) Pfam (PF20998) UniProt (by SIFTS) (Q9H8H0) | Homo sapiens (Human) | |
| 18 | R (LJ) | U3 small nucleolar RNA-associated protein 15 homolog | polymer | 518 | 58503.2 | 1 | UniProt (Q8TED0) Pfam (PF00400) Pfam (PF09384) | Homo sapiens (Human) | |
| 19 | S, T (LK, LL) | WD repeat-containing protein 43 | polymer | 677 | 74985.6 | 2 | UniProt (Q15061) Pfam (PF00400) Pfam (PF04003) | Homo sapiens (Human) | U3 small nucleolar RNA-associated protein 5 homolog |
| 20 | U (LM) | HEAT repeat-containing protein 1 | polymer | 2144 | 242649.7 | 1 | UniProt (Q9H583) Pfam (PF12397) Pfam (PF08146) | Homo sapiens (Human) | Protein BAP28,U3 small nucleolar RNA-associated protein 10 homolog |
| 21 | V (LN) | U3 small nucleolar RNA-associated protein 4 homolog | polymer | 686 | 76993.1 | 1 | UniProt (Q969X6) Pfam (PF00400) | Homo sapiens (Human) | Cirhin,UTP4 small subunit processome component |
| 22 | W (LO) | Periodic tryptophan protein 2 homolog | polymer | 919 | 102575.0 | 1 | UniProt (Q15269) Pfam (PF00400) Pfam (PF04003) | Homo sapiens (Human) | |
| 23 | X (LP) | U3 small nucleolar RNA-associated protein 6 homolog | polymer | 597 | 70297.9 | 1 | UniProt (Q9NYH9) Pfam (PF08640) | Homo sapiens (Human) | Hepatocellular carcinoma-associated antigen 66,Multiple hat domains protein |
| 24 | Y (LQ) | WD repeat-containing protein 3 | polymer | 943 | 106248.0 | 1 | UniProt (Q9UNX4) Pfam (PF12894) Pfam (PF00400) Pfam (PF04003) | Homo sapiens (Human) | |
| 25 | Z (LR) | Transducin beta-like protein 3 | polymer | 808 | 89143.6 | 1 | UniProt (Q12788) Pfam (PF00400) Pfam (PF08625) | Homo sapiens (Human) | WD repeat-containing protein SAZD |
| 26 | AA (LS) | U3 small nucleolar RNA-associated protein 18 homolog | polymer | 556 | 62097.5 | 1 | UniProt (Q9Y5J1) Pfam (PF00400) | Homo sapiens (Human) | WD repeat-containing protein 50 |
| 27 | BA (LT) | WD repeat-containing protein 36 | polymer | 951 | 105443.0 | 1 | UniProt (Q8NI36) Pfam (PF00400) Pfam (PF12894) Pfam (PF04192) | Homo sapiens (Human) | T-cell activation WD repeat-containing protein,TA-WDRP |
| 28 | CA (LU) | DDB1- and CUL4-associated factor 13 | polymer | 445 | 51489.3 | 1 | UniProt (Q9NV06) Pfam (PF00400) Pfam (PF04158) | Homo sapiens (Human) | WD repeat and SOF domain-containing protein 1 |
| 29 | DA (LW) | WD repeat-containing protein 46 | polymer | 610 | 68189.2 | 1 | UniProt (O15213) Pfam (PF00400) Pfam (PF08149) | Homo sapiens (Human) | WD repeat-containing protein BING4 |
| 30 | EA (LY) | Active regulator of SIRT1 | polymer | 136 | 15468.9 | 1 | UniProt (Q86WX3) Pfam (PF15684) | Homo sapiens (Human) | 40S ribosomal protein S19-binding protein 1,RPS19-binding protein 1,S19BP |
| 31 | FA (LZ) | U3 small nucleolar ribonucleoprotein protein IMP3 | polymer | 184 | 21889.2 | 1 | UniProt (Q9NV31) Pfam (PF00163) Pfam (PF01479) | Homo sapiens (Human) | U3 snoRNP protein IMP3,BRMS2 |
| 32 | GA (NA) | U3 small nucleolar ribonucleoprotein protein MPP10 | polymer | 681 | 78988.8 | 1 | UniProt (O00566) Pfam (PF04006) | Homo sapiens (Human) | M phase phosphoprotein 10 |
| 33 | HA (NB) | Something about silencing protein 10 | polymer | 479 | 54652.0 | 1 | UniProt (Q9NQZ2) Pfam (PF04000) Pfam (PF09368) | Homo sapiens (Human) | Charged amino acid-rich leucine zipper 1,CRL1,Disrupter of silencing SAS10,UTP3 homolog |
| 34 | IA (ND) | Nucleolar protein 7 | polymer | 257 | 29483.5 | 1 | UniProt (Q9UMY1) Pfam (PF08157) | Homo sapiens (Human) | Nucleolar protein of 27 kDa |
| 35 | JA (NF) | 40S ribosomal protein S13 | polymer | 151 | 17259.4 | 1 | UniProt (P62277) Pfam (PF08069) Pfam (PF00312) | Homo sapiens (Human) | Small ribosomal subunit protein uS15 |
| 36 | KA (NG) | 40S ribosomal protein S14 | polymer | 151 | 16302.8 | 1 | UniProt (P62263) Pfam (PF00411) | Homo sapiens (Human) | Small ribosomal subunit protein uS11 |
| 37 | LA (NH) | Nucleolar protein 6 | polymer | 1146 | 127748.6 | 1 | UniProt (Q9H6R4) Pfam (PF03813) Pfam (PF17403) Pfam (PF17404) Pfam (PF17405) Pfam (PF17406) Pfam (PF17407) | Homo sapiens (Human) | Nucleolar RNA-associated protein,Nrap |
| 38 | MA (NI) | Ribosomal RNA-processing protein 7 homolog A | polymer | 280 | 32393.2 | 1 | UniProt (Q9Y3A4) Pfam (PF17799) Pfam (PF12923) | Homo sapiens (Human) | Gastric cancer antigen Zg14 |
| 39 | NA (NL) | Probable dimethyladenosine transferase | polymer | 313 | 35292.4 | 1 | UniProt (Q9UNQ2) Pfam (PF00398) | Homo sapiens (Human) | DIM1 dimethyladenosine transferase 1 homolog,DIM1 dimethyladenosine transferase 1-like,Probable 18S rRNA (adenine(1779)-N(6)/adenine(1780)-N(6))-dimethyltransferase,Probable 18S rRNA dimethylase,Probable S-adenosylmethionine-6-N',N'-adenosyl(rRNA) dimethyltransferase |
| 40 | OA (NM) | 40S ribosomal protein S3a | polymer | 264 | 30002.1 | 1 | UniProt (P61247) Pfam (PF01015) | Homo sapiens (Human) | Small ribosomal subunit protein eS1,v-fos transformation effector protein,Fte-1 |
| 41 | PA (NO) | 40S ribosomal protein S15a | polymer | 130 | 14865.6 | 1 | UniProt (P62244) Pfam (PF00410) | Homo sapiens (Human) | Small ribosomal subunit protein uS8 |
| 42 | QA (NP) | 40S ribosomal protein S19 | polymer | 145 | 16091.6 | 1 | UniProt (P39019) Pfam (PF01090) | Homo sapiens (Human) | Small ribosomal subunit protein eS19 |
| 43 | RA (NQ) | 40S ribosomal protein S27 | polymer | 84 | 9480.2 | 1 | UniProt (P42677) Pfam (PF01667) | Homo sapiens (Human) | Metallopan-stimulin 1,MPS-1,Small ribosomal subunit protein eS27 |
| 44 | SA (NR) | RRP12-like protein | polymer | 861 | 73292.8 | 1 | Homo sapiens (Human) | ||
| 45 | TA (NS) | Probable ATP-dependent RNA helicase DHX37 | polymer | 1157 | 129727.3 | 1 | UniProt (Q8IY37) Pfam (PF07717) Pfam (PF00270) Pfam (PF00271) Pfam (PF04408) Pfam (PF21010) | Homo sapiens (Human) | DEAH box protein 37 |
| 46 | UA (NT) | Ubiquitin-40S ribosomal protein S27a | polymer | 156 | 18004.0 | 1 | UniProt (P62979) Pfam (PF00240) Pfam (PF01599) | Homo sapiens (Human) | Ubiquitin carboxyl extension protein 80 |
| 47 | VA (NU) | 40S ribosomal protein S17 | polymer | 135 | 15578.2 | 1 | UniProt (P08708) Pfam (PF00833) | Homo sapiens (Human) | Small ribosomal subunit protein eS17 |
| 48 | WA (NV) | Exosome component 10 | polymer | 885 | 100974.2 | 1 | UniProt (Q01780) Pfam (PF08066) Pfam (PF01612) Pfam (PF00570) | Homo sapiens (Human) | Autoantigen PM/Scl 2,P100 polymyositis-scleroderma overlap syndrome-associated autoantigen,Polymyositis/scleroderma autoantigen 100 kDa,PM/Scl-100,Polymyositis/scleroderma autoantigen 2 |
| 49 | XA (SA) | Nucleolar protein 56 | polymer | 594 | 66160.1 | 1 | UniProt (O00567) Pfam (PF08156) Pfam (PF01798) | Homo sapiens (Human) | Nucleolar protein 5A |
| 50 | YA (SB) | Nucleolar protein 58 | polymer | 529 | 59686.3 | 1 | UniProt (Q9Y2X3) Pfam (PF08156) Pfam (PF01798) | Homo sapiens (Human) | Nucleolar protein 5 |
| 51 | AB, ZA (SC, SD) | rRNA 2'-O-methyltransferase fibrillarin | polymer | 321 | 33843.3 | 2 | UniProt (P22087) Pfam (PF01269) | Homo sapiens (Human) | 34 kDa nucleolar scleroderma antigen,Histone-glutamine methyltransferase,U6 snRNA 2'-O-methyltransferase fibrillarin |
| 52 | BB, CB (SE, SF) | NHP2-like protein 1 | polymer | 128 | 14191.5 | 2 | UniProt (P55769) Pfam (PF01248) | Homo sapiens (Human) | High mobility group-like nuclear protein 2 homolog 1,OTK27,SNU13 homolog,hSNU13,U4/U6.U5 small nuclear ribonucleoprotein SNU13,U4/U6.U5 tri-snRNP 15.5 kDa protein |
| 53 | DB (SG) | U3 small nucleolar RNA-interacting protein 2 | polymer | 475 | 51920.7 | 1 | UniProt (O43818) Pfam (PF00400) | Homo sapiens (Human) | RRP9 homolog,U3 small nucleolar ribonucleoprotein-associated 55 kDa protein,U3 snoRNP-associated 55 kDa protein,U3-55K |
| 54 | EB (SH) | RNA 3'-terminal phosphate cyclase-like protein | polymer | 373 | 40893.6 | 1 | UniProt (Q9Y2P8) Pfam (PF01137) Pfam (PF05189) | Homo sapiens (Human) | |
| 55 | FB (SI) | Ribosome biogenesis protein BMS1 homolog | polymer | 1282 | 146045.0 | 1 | UniProt (Q14692) Pfam (PF08142) Pfam (PF04950) | Homo sapiens (Human) | Ribosome assembly protein BMS1 homolog |
| 56 | GB, HB (SJ, SK) | Ribosomal RNA small subunit methyltransferase NEP1 | polymer | 244 | 26757.1 | 2 | UniProt (Q92979) Pfam (PF03587) | Homo sapiens (Human) | 18S rRNA (pseudouridine(1248)-N1)-methyltransferase,18S rRNA Psi1248 methyltransferase,Nucleolar protein EMG1 homolog,Protein C2f,Ribosome biogenesis protein NEP1 |
| 57 | IB (SL) | rRNA-processing protein FCF1 homolog | polymer | 198 | 23416.7 | 1 | UniProt (Q9Y324) Pfam (PF04900) | Homo sapiens (Human) | |
| 58 | JB (SM) | U3 small nucleolar ribonucleoprotein protein IMP4 | polymer | 291 | 33818.7 | 1 | UniProt (Q96G21) Pfam (PF04427) | Homo sapiens (Human) | U3 snoRNP protein IMP4,Brix domain-containing protein 4 |
| 59 | KB (SP) | Small subunit processome component 20 homolog | polymer | 2785 | 318813.3 | 1 | UniProt (O75691) Pfam (PF07539) Pfam (PF20416) | Homo sapiens (Human) | Down-regulated in metastasis protein,Novel nucleolar protein 73,NNP73,Protein Key-1A6 |
| 60 | LB (SQ) | Deoxynucleotidyltransferase terminal-interacting protein 2 | polymer | 756 | 84598.1 | 1 | UniProt (Q5QJE6) Pfam (PF08698) | Homo sapiens (Human) | Estrogen receptor-binding protein,LPTS-interacting protein 2,LPTS-RP2,Terminal deoxynucleotidyltransferase-interacting factor 2,TdIF2,TdT-interacting factor 2 |
| 61 | MB (SR) | 40S ribosomal protein S23 | polymer | 143 | 15844.7 | 1 | UniProt (P62266) Pfam (PF00164) | Homo sapiens (Human) | Small ribosomal subunit protein uS12 |
| 62 | NB (SS) | U3 small nucleolar RNA-associated protein 14 homolog A | polymer | 771 | 88129.1 | 1 | UniProt (Q9BVJ6) Pfam (PF04615) | Homo sapiens (Human) | Antigen NY-CO-16,Serologically defined colon cancer antigen 16 |
| 63 | OB (ST) | Nucleolar protein 14 | polymer | 632 | 68259.5 | 1 | Pfam (PF04147) UniProt (by SIFTS) (P78316) | Homo sapiens (Human) | |
| 64 | PB (SU) | Nucleolar complex protein 4 homolog | polymer | 472 | 50184.1 | 1 | Pfam (PF03914) UniProt (by SIFTS) (Q9BVI4) | Homo sapiens (Human) | |
| 65 | QB (SW) | RNA-binding protein PNO1 | polymer | 252 | 27970.4 | 1 | UniProt (Q9NRX1) Pfam (PF22891) | Homo sapiens (Human) | Partner of NOB1 |
| 66 | RB (SX) | Unassigned peptides | polymer | 228 | 19421.9 | 1 | Homo sapiens (Human) | ||
| 67 | SB (SY) | Probable U3 small nucleolar RNA-associated protein 11 | polymer | 253 | 30520.8 | 1 | UniProt (Q9Y3A2) Pfam (PF03998) | Homo sapiens (Human) | U3 snoRNA-associated protein 11,UTP11-like protein |
| 68 | TB (SZ) | Bystin | polymer | 304 | 33712.9 | 1 | Pfam (PF05291) UniProt (by SIFTS) (Q13895) | Homo sapiens (Human) | |
| 69 | AC, AD, AE, BC, BD... (L1, NH, SI, SL) | MAGNESIUM ION | non-polymer | 24.3 | 64 | Chemie (MG) | |||
| 70 | DE (NH) | ADENOSINE-5'-TRIPHOSPHATE | non-polymer | 507.2 | 1 | Chemie (ATP) | |||
| 71 | FE, GE, LE (NQ, NT, SL) | ZINC ION | non-polymer | 65.4 | 3 | Chemie (ZN) | |||
| 72 | HE (SI) | GUANOSINE-5'-TRIPHOSPHATE | non-polymer | 523.2 | 1 | Chemie (GTP) | |||
| 73 | JE, KE (SJ, SK) | S-ADENOSYL-L-HOMOCYSTEINE | non-polymer | 384.4 | 2 | Chemie (SAH) |
Sequence modifications
L1: 1 - 1872 (GenBank: 151415227)
| PDB | External Database | Details |
|---|---|---|
| 4ac 1842 | C 127772 | conflict |
Sequence viewer
Contents of the asymmetric unit
| Polymers | Number of chains | 72 |
| Total formula weight | 5575132.3 | |
| Non-Polymers* | Number of molecules | 71 |
| Total formula weight | 3550.9 | |
| All* | Total formula weight | 5578683.3 |
