Domain Annotation: ECOD Classification ECOD Database Homepage

ChainsFamily NameDomain Identifier ArchitecturePossible HomologyHomologyTopologyFamilyProvenance Source (Version)
J [auth X]Ribosomal_S28ee5jbhX1 A: beta barrelsX: OB-foldH: Nucleic acid-binding proteins (From Topology)T: Nucleic acid-binding proteinsF: Ribosomal_S28eECOD (1.6)
K [auth Y]Ribosomal_S27e5jbhY1 A: few secondary structure elementsX: Rubredoxin-likeH: Rubredoxin-relatedT: Rubredoxin-relatedF: Ribosomal_S27ECOD (1.6)
L [auth H]Ribosomal_S7e5jbhH1 A: alpha arraysX: Ribosomal protein S7 (From Topology)H: Ribosomal protein S7 (From Topology)T: Ribosomal protein S7F: Ribosomal_S7ECOD (1.6)
M [auth K]Ribosomal_S9e5jbhK1 A: a+b two layersX: Ribosomal protein S5 domain 2-like (From Topology)H: Ribosomal protein S5 domain 2-like (From Topology)T: Ribosomal protein S5 domain 2-likeF: Ribosomal_S9ECOD (1.6)
N [auth M]Ribosomal_S11e5jbhM1 A: mixed a+b and a/bX: Ribonuclease H-likeH: Ribonuclease H-like (From Topology)T: Ribonuclease H-likeF: Ribosomal_S11ECOD (1.6)
O [auth N]Ribosom_S12_S23e5jbhN1 A: beta barrelsX: OB-foldH: Nucleic acid-binding proteins (From Topology)T: Nucleic acid-binding proteinsF: Ribosom_S12_S23ECOD (1.6)
P [auth Q]Ribosomal_S13_N_1e5jbhQ2 A: alpha arraysX: HTHH: 40S ribosomal protein S13 N-terminal domain (From Topology)T: 40S ribosomal protein S13 N-terminal domainF: Ribosomal_S13_N_1ECOD (1.6)
P [auth Q]Ribosomal_S15_2e5jbhQ1 A: alpha arraysX: S15/NS1 RNA-binding domain (From Topology)H: S15/NS1 RNA-binding domain (From Topology)T: S15/NS1 RNA-binding domainF: Ribosomal_S15_2ECOD (1.6)
Q [auth R]Ribosomal_S17_1e5jbhR1 A: beta barrelsX: OB-foldH: Nucleic acid-binding proteins (From Topology)T: Nucleic acid-binding proteinsF: Ribosomal_S17_1ECOD (1.6)
R [auth A]Ribosomal_S3Ae_Ne5jbhA1 A: beta barrelsX: Ribosomal protein L25-likeH: 40S ribosomal protein S3A N-terminal domain (From Topology)T: 40S ribosomal protein S3A N-terminal domainF: Ribosomal_S3Ae_NECOD (1.6)
R [auth A]Ribosomal_S3Ae_Ce5jbhA2 A: a+b two layersX: T-foldH: 40S ribosomal protein S3A C-terminal domain (From Topology)T: 40S ribosomal protein S3A C-terminal domainF: Ribosomal_S3Ae_CECOD (1.6)
S [auth B]Ribosomal_S2_2e5jbhB1 A: a/b three-layered sandwichesX: Flavodoxin-likeH: Ribosomal protein S2/SIS domain (From Topology)T: Ribosomal protein S2/SIS domainF: Ribosomal_S2_2ECOD (1.6)
B [auth Z]Ribosomal_S3_Ce5jbhZ2 A: a+b two layersX: T-foldH: Ribosomal protein S3-C (From Topology)T: Ribosomal protein S3-CF: Ribosomal_S3_CECOD (1.6)
B [auth Z]KH_2_2e5jbhZ1 A: a+b two layersX: Alpha-lytic protease prodomain-likeH: KH-domainsT: Prokaryotic type KH domain (KH-domain type II)F: KH_2_2ECOD (1.6)
T [auth V]Ribosomal_S24ee5jbhV1 A: a+b two layersX: Alpha-beta plaitsH: Ribosomal proteins S24e, L23 and L15e (From Topology)T: Ribosomal proteins S24e, L23 and L15eF: Ribosomal_S24eECOD (1.6)
U [auth W]Ribosomal_S27ee5jbhW1 A: few secondary structure elementsX: Rubredoxin-likeH: Rubredoxin-relatedT: Rubredoxin-relatedF: Ribosomal_S27eECOD (1.6)
V [auth D]S4e5jbhD1 A: a+b two layersX: beta-GraspH: Ubiquitin-relatedT: Alpha-L RNA-binding motifF: S4ECOD (1.6)
W [auth E]UNK_F_TYPEe5jbhE2 A: beta barrelsX: OB-foldH: Nucleic acid-binding proteins (From Topology)T: Nucleic acid-binding proteinsF: UNK_F_TYPEECOD (1.6)
W [auth E]KOW_1e5jbhE3 A: beta barrelsX: SH3H: SH3T: SH3F: KOW_1ECOD (1.6)
W [auth E]RS4NTe5jbhE1 A: a+b two layersX: beta-GraspH: Ubiquitin-relatedT: Alpha-L RNA-binding motifF: RS4NTECOD (1.6)
X [auth F]Ribosomal_S5_Ce5jbhF3 A: a+b two layersX: Ribosomal protein S5 domain 2-like (From Topology)H: Ribosomal protein S5 domain 2-like (From Topology)T: Ribosomal protein S5 domain 2-likeF: Ribosomal_S5_CECOD (1.6)
X [auth F]Ribosomal_S5_2e5jbhF2 A: extended segmentsX: N-terminal region in 40S ribosomal protein rpS2 (S5p) (From Topology)H: N-terminal region in 40S ribosomal protein rpS2 (S5p) (From Topology)T: N-terminal region in 40S ribosomal protein rpS2 (S5p)F: Ribosomal_S5_2ECOD (1.6)
Y [auth G]Ribosomal_S6ee5jbhG1 A: beta barrelsX: Ribosomal protein L25-likeH: Ribosomal protein L25-like (From Topology)T: Ribosomal protein L25-likeF: Ribosomal_S6eECOD (1.6)
Z [auth I]Ribosomal_S8_N_1e5jbhI2 A: a+b two layersX: R3H domain-likeH: Ribosomal protein S8, N-terminal domain (From Topology)T: Ribosomal protein S8, N-terminal domainF: Ribosomal_S8_N_1ECOD (1.6)
Z [auth I]Ribosomal_S8_C_1e5jbhI1 A: a+b two layersX: Ribosomal protein S8, C-terminal domain (From Topology)H: Ribosomal protein S8, C-terminal domain (From Topology)T: Ribosomal protein S8, C-terminal domainF: Ribosomal_S8_C_1ECOD (1.6)
AA [auth J]Ribosomal_S8ee5jbhJ1 A: beta barrelsX: Ribosomal protein L14-likeH: Ribosomal protein L14-related (From Topology)T: Ribosomal protein L14-relatedF: Ribosomal_S8eECOD (1.6)
CA [auth 0]Ribosomal_L41_likee5jbh01 A: extended segmentsX: Ribosomal protein L41-A (From Topology)H: Ribosomal protein L41-A (From Topology)T: Ribosomal protein L41-AF: Ribosomal_L41_likeECOD (1.6)
C [auth 3]Ribosomal_L7Ae_1e5jbh31 A: a+b three layersX: Bacillus chorismate mutase-likeH: L30e-like (From Topology)T: L30e-likeF: Ribosomal_L7Ae_1ECOD (1.6)
EA [auth 1]SUI1e5jbh11 A: a+b two layersX: Glucose permease domain IIB-likeH: eIF1-like (From Topology)T: eIF1-likeF: SUI1ECOD (1.6)
GA [auth 6]eIF-1ae5jbh61 A: beta barrelsX: OB-foldH: Nucleic acid-binding proteins (From Topology)T: Nucleic acid-binding proteinsF: eIF-1aECOD (1.6)
HA [auth 7]GTP_EFTU_D2_2e5jbh73 A: beta barrelsX: cradle loop barrelH: RIFT-relatedT: Alanine racemase-CF: GTP_EFTU_D2_2ECOD (1.6)
HA [auth 7]eIF2_Ce5jbh72 A: beta barrelsX: cradle loop barrelH: RIFT-relatedT: Aminomethyltransferase beta-barrel domainF: eIF2_CECOD (1.6)
HA [auth 7]MnmE_helical_2nde5jbh71 A: a/b three-layered sandwichesX: P-loop domains-likeH: P-loop domains-relatedT: P-loop containing nucleoside triphosphate hydrolasesF: MnmE_helical_2ndECOD (1.6)
HA [auth 7]DUF35_N_likee5jbh74 A: few secondary structure elementsX: Rubredoxin-likeH: Rubredoxin-relatedT: Rubredoxin-relatedF: DUF35_N_likeECOD (1.6)
IA [auth 8]eIF-5_eIF-2B_Ne5jbh82 A: alpha arraysX: HTHH: HTHT: wingedF: eIF-5_eIF-2B_NECOD (1.6)
IA [auth 8]eIF-5_eIF-2B_Ce5jbh81 A: few secondary structure elementsX: Rubredoxin-likeH: Zinc-binding domain of translation initiation factor 2 beta (From Topology)T: Zinc-binding domain of translation initiation factor 2 betaF: eIF-5_eIF-2B_CECOD (1.6)
JA [auth 9]S1_1e5jbh91 A: beta barrelsX: OB-foldH: Nucleic acid-binding proteins (From Topology)T: Nucleic acid-binding proteinsF: S1_1ECOD (1.6)
JA [auth 9]EIF_2_alpha_N_1e5jbh92 A: alpha arraysX: HhH/H2THH: eIF2alpha middle domain (From Topology)T: eIF2alpha middle domainF: EIF_2_alpha_N_1ECOD (1.6)
JA [auth 9]EIF_2_alpha_C_1e5jbh93 A: a+b two layersX: Alpha-beta plaitsH: eIF-2-alpha, C-terminal domain (From Topology)T: eIF-2-alpha, C-terminal domainF: EIF_2_alpha_C_1ECOD (1.6)
D [auth L]Ribosomal_S10_1e5jbhL1 A: a+b two layersX: Alpha-beta plaitsH: Ribosomal protein S10 (From Topology)T: Ribosomal protein S10F: Ribosomal_S10_1ECOD (1.6)
E [auth O]Ribosomal_S13e5jbhO1 A: alpha arraysX: HhH/H2THH: H2TH (From Topology)T: H2THF: Ribosomal_S13ECOD (1.6)
F [auth P]Ribosomal_S14_2e5jbhP1 A: few secondary structure elementsX: Glucocorticoid receptor-likeH: LIM domain-likeT: LIM domain-likeF: Ribosomal_S14_2ECOD (1.6)
G [auth S]Ribosomal_S17ee5jbhS1 A: alpha arraysX: HTHH: HTHT: FF domainF: Ribosomal_S17eECOD (1.6)
H [auth T]Ribosomal_S19e5jbhT1 A: a+b two layersX: Ribosomal protein S19 (From Topology)H: Ribosomal protein S19 (From Topology)T: Ribosomal protein S19F: Ribosomal_S19ECOD (1.6)
I [auth U]Ribosomal_S19ee5jbhU1 A: alpha arraysX: HTHH: HTHT: wingedF: Ribosomal_S19eECOD (1.6)

Protein Family Annotation Pfam Database Homepage

ChainsAccessionIdentifierDescriptionCommentsSource
J [auth X]PF01200Ribosomal protein S28e (Ribosomal_S28e)Ribosomal protein S28e- Family
K [auth Y]PF01599Ribosomal protein S27a (Ribosomal_S27)Ribosomal protein S27aThis family of ribosomal proteins consists mainly of the 40S ribosomal protein S27a which is synthesised as a C-terminal extension of ubiquitin (CEP). The S27a domain compromises the C-terminal half of the protein. The synthesis of ribosomal proteins ...This family of ribosomal proteins consists mainly of the 40S ribosomal protein S27a which is synthesised as a C-terminal extension of ubiquitin (CEP). The S27a domain compromises the C-terminal half of the protein. The synthesis of ribosomal proteins as extensions of ubiquitin promotes their incorporation into nascent ribosomes by a transient metabolic stabilisation and is required for efficient ribosome biogenesis [3]. The ribosomal extension protein S27a contains a basic region that is proposed to form a zinc finger; its fusion gene is proposed as a mechanism to maintain a fixed ratio between ubiquitin necessary for degrading proteins and ribosomes a source of proteins [2].
Domain
L [auth H]PF00177Ribosomal protein S7p/S5e (Ribosomal_S7)Ribosomal protein S7p/S5eThis family contains ribosomal protein S7 from prokaryotes and S5 from eukaryotes.Domain
M [auth K]PF00380Ribosomal protein S9/S16 (Ribosomal_S9)Ribosomal protein S9/S16- Family
N [auth M]PF00411Ribosomal protein S11 (Ribosomal_S11)Ribosomal protein S11- Family
O [auth N]PF00164Ribosomal protein S12/S23 (Ribosom_S12_S23)Ribosomal protein S12/S23- Family
P [auth Q]PF08069Ribosomal S13/S15 N-terminal domain (Ribosomal_S13_N)Ribosomal S13/S15 N-terminal domainThis domain is found at the N-terminus of ribosomal S13 and S15 proteins. This domain is also identified as NUC021 [1].Domain
P [auth Q]PF00312Ribosomal protein S15 (Ribosomal_S15)Ribosomal protein S15- Domain
Q [auth R]PF00366Ribosomal protein S17 (Ribosomal_S17)Ribosomal protein S17- Domain
R [auth A]PF01015Ribosomal S3Ae family (Ribosomal_S3Ae)Ribosomal S3Ae family- Family
S [auth B]PF00318Ribosomal protein S2 (Ribosomal_S2)Ribosomal protein S2- Family
B [auth Z]PF07650KH domain (KH_2)KH domain- Domain
B [auth Z]PF00189Ribosomal protein S3, C-terminal domain (Ribosomal_S3_C)Ribosomal protein S3, C-terminal domainThis family contains a central domain Pfam:PF00013, hence the amino and carboxyl terminal domains are stored separately. This is a minimal carboxyl-terminal domain. Some are much longer.Domain
T [auth V]PF01282Ribosomal protein S24e (Ribosomal_S24e)Ribosomal protein S24e- Family
U [auth W]PF01667Ribosomal protein S27 (Ribosomal_S27e)Ribosomal protein S27- Family
V [auth D]PF01479S4 domain (S4)S4 domainThe S4 domain is a small domain consisting of 60-65 amino acid residues that was detected in the bacterial ribosomal protein S4, eukaryotic ribosomal S9, two families of pseudouridine synthases, a novel family of predicted RNA methylases, a yeast pro ...The S4 domain is a small domain consisting of 60-65 amino acid residues that was detected in the bacterial ribosomal protein S4, eukaryotic ribosomal S9, two families of pseudouridine synthases, a novel family of predicted RNA methylases, a yeast protein containing a pseudouridine synthetase and a deaminase domain, bacterial tyrosyl-tRNA synthetases, and a number of uncharacterized, small proteins that may be involved in translation regulation [1]. The S4 domain probably mediates binding to RNA.
Domain
W [auth E]PF00900Ribosomal family S4e (Ribosomal_S4e)Ribosomal family S4e- Family
W [auth E]PF08071RS4NT (NUC023) domain (RS4NT)RS4NT (NUC023) domainThis is the N-terminal domain of Ribosomal S4 / S4e proteins. This domain is associated with S4 and KOW domains [1].Domain
W [auth E]PF01479S4 domain (S4)S4 domainThe S4 domain is a small domain consisting of 60-65 amino acid residues that was detected in the bacterial ribosomal protein S4, eukaryotic ribosomal S9, two families of pseudouridine synthases, a novel family of predicted RNA methylases, a yeast pro ...The S4 domain is a small domain consisting of 60-65 amino acid residues that was detected in the bacterial ribosomal protein S4, eukaryotic ribosomal S9, two families of pseudouridine synthases, a novel family of predicted RNA methylases, a yeast protein containing a pseudouridine synthetase and a deaminase domain, bacterial tyrosyl-tRNA synthetases, and a number of uncharacterized, small proteins that may be involved in translation regulation [1]. The S4 domain probably mediates binding to RNA.
Domain
X [auth F]PF03719Ribosomal protein S5, C-terminal domain (Ribosomal_S5_C)Ribosomal protein S5, C-terminal domain- Domain
X [auth F]PF00333Ribosomal protein S5, N-terminal domain (Ribosomal_S5)Ribosomal protein S5, N-terminal domain- Domain
Y [auth G]PF01092Ribosomal protein S6e (Ribosomal_S6e)Ribosomal protein S6e- Family
Z [auth I]PF00410Ribosomal protein S8 (Ribosomal_S8)Ribosomal protein S8- Domain
AA [auth J]PF01201Ribosomal protein S8e (Ribosomal_S8e)Ribosomal protein S8e- Family
C [auth 3]PF01248Ribosomal protein L7Ae/L30e/S12e/Gadd45 family (Ribosomal_L7Ae)Ribosomal protein L7Ae/L30e/S12e/Gadd45 familyThis family includes: Ribosomal L7A from metazoa, Ribosomal L8-A and L8-B from fungi, 30S ribosomal protein HS6 from archaebacteria, 40S ribosomal protein S12 from eukaryotes, Ribosomal protein L30 from eukaryotes and archaebacteria. Gadd45 and MyD11 ...This family includes: Ribosomal L7A from metazoa, Ribosomal L8-A and L8-B from fungi, 30S ribosomal protein HS6 from archaebacteria, 40S ribosomal protein S12 from eukaryotes, Ribosomal protein L30 from eukaryotes and archaebacteria. Gadd45 and MyD118 [1].
Domain
EA [auth 1]PF01253Translation initiation factor SUI1 (SUI1)Translation initiation factor SUI1- Domain
GA [auth 6]PF01176Translation initiation factor 1A / IF-1 (eIF-1a)Translation initiation factor 1A / IF-1This family includes both the eukaryotic translation factor eIF-1A and the bacterial translation initiation factor IF-1.Domain
HA [auth 7]PF00009Elongation factor Tu GTP binding domain (GTP_EFTU)Elongation factor Tu GTP binding domainThis domain contains a P-loop motif, also found in several other families such as Pfam:PF00071, Pfam:PF00025 and Pfam:PF00063. Elongation factor Tu consists of three structural domains, this plus two C-terminal beta barrel domains.Domain
HA [auth 7]PF09173Initiation factor eIF2 gamma, C terminal (eIF2_C)Initiation factor eIF2 gamma, C terminalMembers of this family, which are found in the initiation factors eIF2 and EF-Tu, adopt a structure consisting of a beta barrel with Greek key topology. They are required for formation of the ternary complex with GTP and initiator tRNA [1].Domain
HA [auth 7]PF03144Elongation factor Tu domain 2 (GTP_EFTU_D2)Elongation factor Tu domain 2Elongation factor Tu consists of three structural domains, this is the second domain. This domain adopts a beta barrel structure. This the second domain is involved in binding to charged tRNA [1]. This domain is also found in other proteins such as e ...Elongation factor Tu consists of three structural domains, this is the second domain. This domain adopts a beta barrel structure. This the second domain is involved in binding to charged tRNA [1]. This domain is also found in other proteins such as elongation factor G and translation initiation factor IF-2. This domain is structurally related to Pfam:PF03143, and in fact has weak sequence matches to this domain.
Domain
IA [auth 8]PF01873Domain found in IF2B/IF5 (eIF-5_eIF-2B)Domain found in IF2B/IF5- Family
JA [auth 9]PF07541Eukaryotic translation initiation factor 2 alpha subunit (EIF_2_alpha)Eukaryotic translation initiation factor 2 alpha subunit- Family
JA [auth 9]PF00575S1 RNA binding domain (S1)S1 RNA binding domainThe S1 domain occurs in a wide range of RNA associated proteins. It is structurally similar to cold shock protein which binds nucleic acids. The S1 domain has an OB-fold structure.Domain
D [auth L]PF00338Ribosomal protein S10p/S20e (Ribosomal_S10)Ribosomal protein S10p/S20eThis family includes small ribosomal subunit S10 from prokaryotes and S20 from eukaryotes.Domain
E [auth O]PF00416Ribosomal protein S13/S18 (Ribosomal_S13)Ribosomal protein S13/S18- Family
F [auth P]PF00253Ribosomal protein S14p/S29e (Ribosomal_S14)Ribosomal protein S14p/S29e- Family
G [auth S]PF00833Ribosomal S17 (Ribosomal_S17e)Ribosomal S17- Family
H [auth T]PF00203Ribosomal protein S19 (Ribosomal_S19)Ribosomal protein S19- Domain
I [auth U]PF01090Ribosomal protein S19e (Ribosomal_S19e)Ribosomal protein S19e- Family

Gene Product Annotation Gene Product Annotation

ChainsPolymerMolecular FunctionBiological ProcessCellular Component
A [auth 2]16S ribosomal RNAnonenonenone
J [auth X]30S ribosomal protein eS28
    K [auth Y]30S ribosomal protein eS27
      L [auth H]30S ribosomal protein uS7
        M [auth K]30S ribosomal protein uS9
          N [auth M]30S ribosomal protein uS11
            O [auth N]30S ribosomal protein uS12
              P [auth Q]30S ribosomal protein uS15
                Q [auth R]30S ribosomal protein uS17
                  R [auth A]30S ribosomal protein uS3
                    S [auth B]30S ribosomal protein uS2
                      B [auth Z]30S ribosomal protein uS3
                        T [auth V]30S ribosomal protein eS24
                          U [auth W]30S ribosomal protein eS27
                            V [auth D]30S ribosomal protein uS4
                              W [auth E]30S ribosomal protein eS4
                                X [auth F]30S ribosomal protein uS5
                                  Y [auth G]30S ribosomal protein eS6
                                    Z [auth I]30S ribosomal protein uS8
                                      AA [auth J]30S ribosomal protein eS8
                                        BA [auth C]30S ribosomal protein SXnonenonenone
                                        CA [auth 0]30S ribosomal protein eL41
                                            C [auth 3]50S ribosomal protein uL30
                                            DA [auth 5]mRNAnonenonenone
                                            EA [auth 1]aIF1
                                                FA [auth 4]initiator Met-tRNA fMet from E. coli (A1U72 variant)nonenonenone
                                                GA [auth 6]aIF1A
                                                    HA [auth 7]aIF2-gamma
                                                      IA [auth 8]aIF2-beta
                                                          JA [auth 9]aIF2-alpha
                                                              D [auth L]30S ribosomal protein uS10
                                                                E [auth O]30S ribosomal protein uS13
                                                                  F [auth P]30S ribosomal protein uS14
                                                                    G [auth S]30S ribosomal protein eS17
                                                                      H [auth T]30S ribosomal protein uS19
                                                                        I [auth U]30S ribosomal protein eS19