3J45 | pdb_00003j45

Structure of a non-translocating SecY protein channel with the 70S ribosome


Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

ChainsTypeFamily Name Domain Identifier Family IdentifierProvenance Source (Version)
F [auth Y]SCOP2B SuperfamilyRibosomal protein L29 (L29p) 8096370 3000713 SCOP2B (2022-06-29)
E [auth U]SCOP2B SuperfamilyTranslation proteins SH3-like KOW motif containing domain 8096358 3000334 SCOP2B (2022-06-29)
D [auth T]SCOP2B SuperfamilyRibosomal proteins S24e, L23 and L15e 8035415 3000210 SCOP2B (2022-06-29)
C [auth G]SCOP2B SuperfamilyPreprotein translocase subunit SecG-like 8053307 3002175 SCOP2B (2022-06-29)

Domain Annotation: ECOD Classification ECOD Database Homepage

ChainsFamily NameDomain Identifier ArchitecturePossible HomologyHomologyTopologyFamilyProvenance Source (Version)
F [auth Y]Ribosomal_L29e3j45Y1 A: alpha bundlesX: Long alpha-hairpinH: Ribosomal protein L29 (L29p) (From Topology)T: Ribosomal protein L29 (L29p)F: Ribosomal_L29ECOD (1.6)
E [auth U]ribosomal_L24_1e3j45U1 A: beta barrelsX: SH3H: SH3T: SH3F: ribosomal_L24_1ECOD (1.6)
D [auth T]Ribosomal_L23_2e3j45T1 A: a+b two layersX: Alpha-beta plaitsH: Ribosomal proteins S24e, L23 and L15e (From Topology)T: Ribosomal proteins S24e, L23 and L15eF: Ribosomal_L23_2ECOD (1.6)
C [auth G]SecGe3j45G1 A: alpha bundlesX: Protein-export membrane protein secG (From Topology)H: Protein-export membrane protein secG (From Topology)T: Protein-export membrane protein secGF: SecGECOD (1.6)
B [auth E]SecEe3j45E1 A: extended segmentsX: Preprotein translocase SecE subunit (From Topology)H: Preprotein translocase SecE subunit (From Topology)T: Preprotein translocase SecE subunitF: SecEECOD (1.6)
A [auth y]SecYe3j45y1 A: alpha complex topologyX: Preprotein translocase SecY subunit (From Topology)H: Preprotein translocase SecY subunit (From Topology)T: Preprotein translocase SecY subunitF: SecYECOD (1.6)

Protein Family Annotation Pfam Database Homepage

ChainsAccessionNameDescriptionCommentsSource
F [auth Y]PF00831Ribosomal L29 protein (Ribosomal_L29)Ribosomal L29 protein- Family
E [auth U]PF17136Large ribosomal subunit protein uL24, C-terminal domain (ribosomal_L24)Large ribosomal subunit protein uL24, C-terminal domainThis entry describes the C-terminal domain in large ribosomal subunit protein uL24 (also known as RPL26). RPL26 is one of the proteins from the large ribosomal subunit. In their mature form, these proteins have 103 to 150 amino-acid residues. RPL26 m ...This entry describes the C-terminal domain in large ribosomal subunit protein uL24 (also known as RPL26). RPL26 is one of the proteins from the large ribosomal subunit. In their mature form, these proteins have 103 to 150 amino-acid residues. RPL26 makes very minor contributions to the biogenesis structure, and function of 60s ribosomal subunits [1]. However, RPL24 is essential to generate the first intermediate during 50s ribosomal subunits assembly [2]. RPL26 have an extra-ribosomal function to enhances p53 translation after DNA damage [3].
Domain
E [auth U]PF00467KOW motif (KOW)KOW motif- Family
D [auth T]PF00276Ribosomal protein L23 (Ribosomal_L23)Ribosomal protein L23- Family
C [auth G]PF03840Preprotein translocase SecG subunit (SecG)Preprotein translocase SecG subunit- Family
B [auth E]PF00584SecE/Sec61-gamma subunits of protein translocation complex (SecE)SecE/Sec61-gamma subunits of protein translocation complex- Family

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

ChainsPolymerMolecular FunctionBiological ProcessCellular Component
I [auth 3]23S ribosomal RNA---
H [auth 2]23S ribosomal RNA---
G [auth 1]23S ribosomal RNA---
F [auth Y]50S ribosomal protein L29
E [auth U]50S ribosomal protein L24
D [auth T]50S ribosomal protein L23
C [auth G]Protein-export membrane protein SecG
B [auth E]Preprotein translocase subunit SecE
K [auth 5]23S ribosomal RNA---
J [auth 4]23S ribosomal RNA---
A [auth y]Protein translocase subunit SecY

InterPro: Protein Family Classification InterPro Database Homepage

ChainsAccessionNameType
F [auth Y]IPR050063Universal ribosomal protein uL29Family
F [auth Y]IPR001854Large ribosomal subunit protein uL29Family
F [auth Y]IPR036049Large ribosomal subunit protein uL29 superfamilyHomologous Superfamily
F [auth Y]IPR018254Large ribosomal subunit protein uL29, conserved siteConserved Site
E [auth U]IPR014722Large ribosomal subunit protein uL2, domain 2Homologous Superfamily
E [auth U]IPR008991Translation protein SH3-like domain superfamilyHomologous Superfamily
E [auth U]IPR003256Large ribosomal subunit protein uL24Family
E [auth U]IPR041988Large ribosomal subunit protein uL24, KOW domainDomain
E [auth U]IPR005824KOWDomain
E [auth U]IPR005825Large ribosomal subunit protein uL24, conserved siteConserved Site
D [auth T]IPR012678Ribosomal protein uL23/eL15/eS24 core domain superfamilyHomologous Superfamily
D [auth T]IPR012677Nucleotide-binding alpha-beta plait domain superfamilyHomologous Superfamily
D [auth T]IPR001014Large ribosomal subunit protein uL23, conserved siteConserved Site
D [auth T]IPR013025Large ribosomal subunit protein uL23-likeFamily
C [auth G]IPR004692Preprotein translocase SecG subunitFamily
B [auth E]IPR005807SecE subunit of protein translocation complex, bacterial-likeFamily
B [auth E]IPR038379SecE superfamilyHomologous Superfamily
B [auth E]IPR001901Protein translocase complex, SecE/Sec61-gamma subunitFamily
A [auth y]IPR002208SecY/SEC61-alpha familyFamily
A [auth y]IPR030659SecY conserved siteConserved Site
A [auth y]IPR023201SecY domain superfamilyHomologous Superfamily
A [auth y]IPR026593Protein translocase subunit SecYFamily

Protein Modification Annotation

Modified Residue(s)
ChainResidue(s)Description
B [auth E]ACE RESIDAA0041 , AA0042 , AA0043 , AA0044 , AA0045 , AA0046 , AA0049 , AA0050 , AA0051 , AA0052 , AA0053 , AA0054 , AA0354

PSI-MOD :  N-acetyl-L-alanine MOD:00050 , N-acetyl-L-aspartic acid MOD:00051 , N-acetyl-L-cysteine MOD:00052 , N-acetyl-S-archeol-cysteine MOD:00897 , N-acetyl-L-glutamic acid MOD:00053 , N-acetyl-L-glutamine MOD:00054 , N-acetylglycine MOD:00055 , N-acetyl-L-methionine MOD:00058 , N-acetyl-L-proline MOD:00059 , N-acetyl-L-serine MOD:00060 , N,O-diacetylated L-serine MOD:00648 , N-acetyl-L-threonine MOD:00061 , N-acetyl-L-tyrosine MOD:00062 , N-acetyl-L-valine MOD:00063 , N2-acetyl-L-arginine MOD:00359
B [auth E]NH2 RESIDAA0041 , AA0042 , AA0043 , AA0044 , AA0045 , AA0046 , AA0049 , AA0050 , AA0051 , AA0052 , AA0053 , AA0054 , AA0354 , AA0081 , AA0083 , AA0084 , AA0086 , AA0087 , AA0088 , AA0090 , AA0091 , AA0092 , AA0093 , AA0095 , AA0096 , AA0097 , AA0098 , AA0099 , AA0100

PSI-MOD :  N-acetyl-L-alanine MOD:00050 , N-acetyl-L-aspartic acid MOD:00051 , N-acetyl-L-cysteine MOD:00052 , N-acetyl-S-archeol-cysteine MOD:00897 , N-acetyl-L-glutamic acid MOD:00053 , N-acetyl-L-glutamine MOD:00054 , N-acetylglycine MOD:00055 , N-acetyl-L-methionine MOD:00058 , N-acetyl-L-proline MOD:00059 , N-acetyl-L-serine MOD:00060 , N,O-diacetylated L-serine MOD:00648 , N-acetyl-L-threonine MOD:00061 , N-acetyl-L-tyrosine MOD:00062 , N-acetyl-L-valine MOD:00063 , N2-acetyl-L-arginine MOD:00359 , L-alanine amide MOD:00090 , L-asparagine amide MOD:00092 , L-aspartic acid 1-amide MOD:00093 , L-glutamine amide MOD:00095 , L-glutamic acid 1-amide MOD:00096 , glycine amide MOD:00097 , L-isoleucine amide MOD:00099 , L-leucine amide MOD:00100 , L-lysine amide MOD:00101 , L-methionine amide MOD:00102 , L-proline amide MOD:00104 , L-serine amide MOD:00105 , L-threonine amide MOD:00106 , L-tryptophan amide MOD:00107 , L-tyrosine amide MOD:00108 , L-valine amide MOD:00109
A [auth y]ACE RESIDAA0041 , AA0042 , AA0043 , AA0044 , AA0045 , AA0046 , AA0049 , AA0050 , AA0051 , AA0052 , AA0053 , AA0054 , AA0354 , AA0081 , AA0083 , AA0084 , AA0086 , AA0087 , AA0088 , AA0090 , AA0091 , AA0092 , AA0093 , AA0095 , AA0096 , AA0097 , AA0098 , AA0099 , AA0100 , AA0041 , AA0042 , AA0043 , AA0044 , AA0045 , AA0046 , AA0049 , AA0050 , AA0051 , AA0052 , AA0053 , AA0054 , AA0354

PSI-MOD :  N-acetyl-L-alanine MOD:00050 , N-acetyl-L-aspartic acid MOD:00051 , N-acetyl-L-cysteine MOD:00052 , N-acetyl-S-archeol-cysteine MOD:00897 , N-acetyl-L-glutamic acid MOD:00053 , N-acetyl-L-glutamine MOD:00054 , N-acetylglycine MOD:00055 , N-acetyl-L-methionine MOD:00058 , N-acetyl-L-proline MOD:00059 , N-acetyl-L-serine MOD:00060 , N,O-diacetylated L-serine MOD:00648 , N-acetyl-L-threonine MOD:00061 , N-acetyl-L-tyrosine MOD:00062 , N-acetyl-L-valine MOD:00063 , N2-acetyl-L-arginine MOD:00359 , L-alanine amide MOD:00090 , L-asparagine amide MOD:00092 , L-aspartic acid 1-amide MOD:00093 , L-glutamine amide MOD:00095 , L-glutamic acid 1-amide MOD:00096 , glycine amide MOD:00097 , L-isoleucine amide MOD:00099 , L-leucine amide MOD:00100 , L-lysine amide MOD:00101 , L-methionine amide MOD:00102 , L-proline amide MOD:00104 , L-serine amide MOD:00105 , L-threonine amide MOD:00106 , L-tryptophan amide MOD:00107 , L-tyrosine amide MOD:00108 , L-valine amide MOD:00109 , N-acetyl-L-alanine MOD:00050 , N-acetyl-L-aspartic acid MOD:00051 , N-acetyl-L-cysteine MOD:00052 , N-acetyl-S-archeol-cysteine MOD:00897 , N-acetyl-L-glutamic acid MOD:00053 , N-acetyl-L-glutamine MOD:00054 , N-acetylglycine MOD:00055 , N-acetyl-L-methionine MOD:00058 , N-acetyl-L-proline MOD:00059 , N-acetyl-L-serine MOD:00060 , N,O-diacetylated L-serine MOD:00648 , N-acetyl-L-threonine MOD:00061 , N-acetyl-L-tyrosine MOD:00062 , N-acetyl-L-valine MOD:00063 , N2-acetyl-L-arginine MOD:00359
A [auth y]NH2 RESIDAA0041 , AA0042 , AA0043 , AA0044 , AA0045 , AA0046 , AA0049 , AA0050 , AA0051 , AA0052 , AA0053 , AA0054 , AA0354 , AA0081 , AA0083 , AA0084 , AA0086 , AA0087 , AA0088 , AA0090 , AA0091 , AA0092 , AA0093 , AA0095 , AA0096 , AA0097 , AA0098 , AA0099 , AA0100 , AA0041 , AA0042 , AA0043 , AA0044 , AA0045 , AA0046 , AA0049 , AA0050 , AA0051 , AA0052 , AA0053 , AA0054 , AA0354 , AA0081 , AA0083 , AA0084 , AA0086 , AA0087 , AA0088 , AA0090 , AA0091 , AA0092 , AA0093 , AA0095 , AA0096 , AA0097 , AA0098 , AA0099 , AA0100

PSI-MOD :  N-acetyl-L-alanine MOD:00050 , N-acetyl-L-aspartic acid MOD:00051 , N-acetyl-L-cysteine MOD:00052 , N-acetyl-S-archeol-cysteine MOD:00897 , N-acetyl-L-glutamic acid MOD:00053 , N-acetyl-L-glutamine MOD:00054 , N-acetylglycine MOD:00055 , N-acetyl-L-methionine MOD:00058 , N-acetyl-L-proline MOD:00059 , N-acetyl-L-serine MOD:00060 , N,O-diacetylated L-serine MOD:00648 , N-acetyl-L-threonine MOD:00061 , N-acetyl-L-tyrosine MOD:00062 , N-acetyl-L-valine MOD:00063 , N2-acetyl-L-arginine MOD:00359 , L-alanine amide MOD:00090 , L-asparagine amide MOD:00092 , L-aspartic acid 1-amide MOD:00093 , L-glutamine amide MOD:00095 , L-glutamic acid 1-amide MOD:00096 , glycine amide MOD:00097 , L-isoleucine amide MOD:00099 , L-leucine amide MOD:00100 , L-lysine amide MOD:00101 , L-methionine amide MOD:00102 , L-proline amide MOD:00104 , L-serine amide MOD:00105 , L-threonine amide MOD:00106 , L-tryptophan amide MOD:00107 , L-tyrosine amide MOD:00108 , L-valine amide MOD:00109 , N-acetyl-L-alanine MOD:00050 , N-acetyl-L-aspartic acid MOD:00051 , N-acetyl-L-cysteine MOD:00052 , N-acetyl-S-archeol-cysteine MOD:00897 , N-acetyl-L-glutamic acid MOD:00053 , N-acetyl-L-glutamine MOD:00054 , N-acetylglycine MOD:00055 , N-acetyl-L-methionine MOD:00058 , N-acetyl-L-proline MOD:00059 , N-acetyl-L-serine MOD:00060 , N,O-diacetylated L-serine MOD:00648 , N-acetyl-L-threonine MOD:00061 , N-acetyl-L-tyrosine MOD:00062 , N-acetyl-L-valine MOD:00063 , N2-acetyl-L-arginine MOD:00359 , L-alanine amide MOD:00090 , L-asparagine amide MOD:00092 , L-aspartic acid 1-amide MOD:00093 , L-glutamine amide MOD:00095 , L-glutamic acid 1-amide MOD:00096 , glycine amide MOD:00097 , L-isoleucine amide MOD:00099 , L-leucine amide MOD:00100 , L-lysine amide MOD:00101 , L-methionine amide MOD:00102 , L-proline amide MOD:00104 , L-serine amide MOD:00105 , L-threonine amide MOD:00106 , L-tryptophan amide MOD:00107 , L-tyrosine amide MOD:00108 , L-valine amide MOD:00109