254780266
30S ribosomal protein S12
GeneID in NCBI database: | 8209247 | Locus tag: | CLIBASIA_00755 |
Protein GI in NCBI database: | 254780266 | Protein Accession: | YP_003064679.1 |
Gene range: | -(147423, 147797) | Protein Length: | 124aa |
Gene description: | 30S ribosomal protein S12 | ||
COG prediction: | [J] Ribosomal protein S12 | ||
KEGG prediction: | rpsL; 30S ribosomal protein S12; K02950 small subunit ribosomal protein S12 | ||
SEED prediction: | SSU ribosomal protein S12p (S23e) | ||
Pathway involved in KEGG: | Ribosome [PATH:las03010] | ||
Subsystem involved in SEED: | Ribosome SSU bacterial | ||
sequence | sequence profile |
Prediction of Local Sequence Properties
Source | Summary | Result |
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Close Homologs Detected by BLAST or PSI-BLAST
Homolog within the Genome Detected by BLAST
Original result of BLAST against C. L. asiaticus genome
No hits with e-value below 0.05
Close Homologs Detected BLAST or PSI-BLAST in the First 2 Iterations
Original result of PSI-BLAST first 2 iterations
Identity | Alignment graph | Length | Definition | Round | E-value |
Target | 124 | 30S ribosomal protein S12 [Candidatus Liberibacter asia | |||
315122824 | 124 | 30S ribosomal protein S12 [Candidatus Liberibacter sola | 1 | 1e-54 | |
225627708 | 154 | ribosomal protein S12 [Brucella ceti str. Cudo] Length | 1 | 8e-48 | |
190891350 | 123 | 30S ribosomal protein S12 [Rhizobium etli CIAT 652] Len | 1 | 1e-47 | |
17982691 | 134 | ssu ribosomal protein s12p [Brucella melitensis bv. 1 s | 1 | 2e-47 | |
222148361 | 202 | 30S ribosomal protein S12 [Agrobacterium vitis S4] Leng | 1 | 2e-47 | |
150396202 | 123 | 30S ribosomal protein S12 [Sinorhizobium medicae WSM419 | 1 | 2e-47 | |
23502115 | 123 | 30S ribosomal protein S12 [Brucella suis 1330] Length = | 1 | 2e-47 | |
298291433 | 123 | ribosomal protein S12 [Starkeya novella DSM 506] Length | 1 | 2e-47 | |
256159975 | 123 | 30S ribosomal protein S12 [Brucella ceti M490/95/1] Len | 1 | 3e-47 | |
86357300 | 123 | 30S ribosomal protein S12 [Rhizobium etli CFN 42] Lengt | 1 | 3e-47 |
>gi|315122824|ref|YP_004063313.1| 30S ribosomal protein S12 [Candidatus Liberibacter solanacearum CLso-ZC1] Length = 124 | Back alignment and organism information |
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Score = 215 bits (548), Expect = 1e-54, Method: Compositional matrix adjust. Identities = 105/124 (84%), Positives = 112/124 (90%) Query: 1 MPTVNQLIRKPRKGSFRACAKVTALRGNPQKRGVCLRVYTVTPKKPNSALRKVIKARLTS 60 MPTVNQLIRKPRK + R CAKVTALRG+PQKRGVCLRVYT TPKKPNSALRKV K RLT+ Sbjct: 1 MPTVNQLIRKPRKSAIRTCAKVTALRGSPQKRGVCLRVYTSTPKKPNSALRKVTKVRLTN 60 Query: 61 GVEVIAYVPGEGHNLQEHSVVMLCGGRVKDLPGVKYRVIRGVLDAQGVKNRKQARSRYGA 120 G EVI Y+PG GHNLQEHSVVMLCGGRVKDLPGVKYRV+RGVLD GVK+RKQ+RSRYGA Sbjct: 61 GAEVIGYIPGVGHNLQEHSVVMLCGGRVKDLPGVKYRVVRGVLDTAGVKDRKQSRSRYGA 120 Query: 121 ERPK 124 RPK Sbjct: 121 GRPK 124 |
Species: Candidatus Liberibacter solanacearum Genus: Candidatus Liberibacter Family: Rhizobiaceae Order: Rhizobiales Class: Alphaproteobacteria Phylum: Proteobacteria Superkingdom: Bacteria |
>gi|225627708|ref|ZP_03785745.1| ribosomal protein S12 [Brucella ceti str. Cudo] Length = 154 | Back alignment and organism information |
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>gi|190891350|ref|YP_001977892.1| 30S ribosomal protein S12 [Rhizobium etli CIAT 652] Length = 123 | Back alignment and organism information |
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>gi|17982691|gb|AAL51933.1| ssu ribosomal protein s12p [Brucella melitensis bv. 1 str. 16M] Length = 134 | Back alignment and organism information |
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>gi|222148361|ref|YP_002549318.1| 30S ribosomal protein S12 [Agrobacterium vitis S4] Length = 202 | Back alignment and organism information |
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>gi|150396202|ref|YP_001326669.1| 30S ribosomal protein S12 [Sinorhizobium medicae WSM419] Length = 123 | Back alignment and organism information |
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>gi|23502115|ref|NP_698242.1| 30S ribosomal protein S12 [Brucella suis 1330] Length = 123 | Back alignment and organism information |
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>gi|298291433|ref|YP_003693372.1| ribosomal protein S12 [Starkeya novella DSM 506] Length = 123 | Back alignment and organism information |
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>gi|256159975|ref|ZP_05457690.1| 30S ribosomal protein S12 [Brucella ceti M490/95/1] Length = 123 | Back alignment and organism information |
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>gi|86357300|ref|YP_469192.1| 30S ribosomal protein S12 [Rhizobium etli CFN 42] Length = 123 | Back alignment and organism information |
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Conserved Domains in CDD Database
Detected by RPS-BLAST and HHsearch
Conserved Domains in CDD Database Detected by RPS-BLAST
Original result of RPS-BLAST against CDD database part I
Original result of RPS-BLASTagainst CDD database part II
Identity | Alignment graph | Length | Definition | E-value |
Target | 124 | 30S ribosomal protein S12 [Candidatus Liberibacter asia | ||
PRK05163 | 124 | PRK05163, rpsL, 30S ribosomal protein S12; Validated | 9e-56 | |
TIGR00981 | 124 | TIGR00981, rpsL_bact, ribosomal protein S12, bacterial/ | 2e-47 | |
COG0048 | 129 | COG0048, RpsL, Ribosomal protein S12 [Translation, ribo | 2e-40 | |
pfam00164 | 112 | pfam00164, Ribosomal_S12, Ribosomal protein S12 | 3e-40 | |
cd03368 | 108 | cd03368, Ribosomal_S12, S12-like family, 30S ribosomal | 3e-39 | |
KOG1750 | 139 | KOG1750, KOG1750, KOG1750, Mitochondrial/chloroplast ri | 3e-33 | |
PTZ00115 | 290 | PTZ00115, PTZ00115, 40S ribosomal protein S12; Provisio | 6e-30 | |
cd00319 | 95 | cd00319, Ribosomal_S12_like, Ribosomal protein S12-like | 1e-13 | |
cd03367 | 115 | cd03367, Ribosomal_S23, S12-like family, 40S ribosomal | 6e-09 | |
PRK04211 | 145 | PRK04211, rps12P, 30S ribosomal protein S12P; Reviewed | 7e-09 | |
TIGR00982 | 139 | TIGR00982, S23_S12_E_A, ribosomal protein S23 (S12) | 1e-08 | |
PTZ00067 | 143 | PTZ00067, PTZ00067, 40S ribosomal S23; Provisional | 2e-05 | |
KOG1749 | 143 | KOG1749, KOG1749, KOG1749, 40S ribosomal protein S23 [T | 3e-05 | |
CHL00051 | 123 | CHL00051, rps12, ribosomal protein S12 | 1e-48 |
>gnl|CDD|179949 PRK05163, rpsL, 30S ribosomal protein S12; Validated | Back alignment and domain information |
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>gnl|CDD|130054 TIGR00981, rpsL_bact, ribosomal protein S12, bacterial/organelle | Back alignment and domain information |
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>gnl|CDD|30397 COG0048, RpsL, Ribosomal protein S12 [Translation, ribosomal structure and biogenesis] | Back alignment and domain information |
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>gnl|CDD|143932 pfam00164, Ribosomal_S12, Ribosomal protein S12 | Back alignment and domain information |
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>gnl|CDD|48341 cd03368, Ribosomal_S12, S12-like family, 30S ribosomal protein S12 subfamily; S12 is located at the interface of the large and small ribosomal subunits of prokaryotes, chloroplasts and mitochondria, where it plays an important role in both tRNA and ribosomal subunit interactions | Back alignment and domain information |
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>gnl|CDD|36961 KOG1750, KOG1750, KOG1750, Mitochondrial/chloroplast ribosomal protein S12 [Translation, ribosomal structure and biogenesis] | Back alignment and domain information |
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>gnl|CDD|185456 PTZ00115, PTZ00115, 40S ribosomal protein S12; Provisional | Back alignment and domain information |
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>gnl|CDD|48339 cd00319, Ribosomal_S12_like, Ribosomal protein S12-like family; composed of prokaryotic 30S ribosomal protein S12, eukaryotic 40S ribosomal protein S23 and similar proteins | Back alignment and domain information |
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>gnl|CDD|48340 cd03367, Ribosomal_S23, S12-like family, 40S ribosomal protein S23 subfamily; S23 is located at the interface of the large and small ribosomal subunits of eukaryotes, adjacent to the decoding center | Back alignment and domain information |
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>gnl|CDD|179789 PRK04211, rps12P, 30S ribosomal protein S12P; Reviewed | Back alignment and domain information |
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>gnl|CDD|130055 TIGR00982, S23_S12_E_A, ribosomal protein S23 (S12) | Back alignment and domain information |
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>gnl|CDD|185422 PTZ00067, PTZ00067, 40S ribosomal S23; Provisional | Back alignment and domain information |
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>gnl|CDD|36960 KOG1749, KOG1749, KOG1749, 40S ribosomal protein S23 [Translation, ribosomal structure and biogenesis] | Back alignment and domain information |
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>gnl|CDD|176992 CHL00051, rps12, ribosomal protein S12 | Back alignment and domain information |
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Conserved Domains in CDD Database Detected by HHsearch
Original result of HHsearch against CDD database
Identity | Alignment graph | Length | Definition | Probability |
Target | 124 | 30S ribosomal protein S12 [Candidatus Liberibacter asia | ||
CHL00051 | 123 | rps12 ribosomal protein S12 | 100.0 | |
PRK05163 | 124 | rpsL 30S ribosomal protein S12; Validated | 100.0 | |
TIGR00981 | 124 | rpsL_bact ribosomal protein S12; InterPro: IPR005679 Ri | 100.0 | |
COG0048 | 129 | RpsL Ribosomal protein S12 [Translation, ribosomal stru | 100.0 | |
PTZ00115 | 288 | 40S ribosomal protein S12; Provisional | 100.0 | |
pfam00164 | 112 | Ribosomal_S12 Ribosomal protein S12. | 100.0 | |
cd03368 | 108 | Ribosomal_S12 S12-like family, 30S ribosomal protein S1 | 100.0 | |
cd00319 | 95 | Ribosomal_S12_like Ribosomal protein S12-like family; c | 100.0 | |
KOG1750 | 139 | consensus | 100.0 | |
cd03367 | 115 | Ribosomal_S23 S12-like family, 40S ribosomal protein S2 | 100.0 | |
PTZ00067 | 143 | 40S ribosomal S23; Provisional | 100.0 | |
PRK04211 | 146 | rps12P 30S ribosomal protein S12P; Reviewed | 100.0 | |
TIGR00982 | 139 | S23_S12_E_A ribosomal protein S23 (S12); InterPro: IPR0 | 99.91 | |
KOG1749 | 143 | consensus | 99.91 |
>CHL00051 rps12 ribosomal protein S12 | Back alignment and domain information |
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>PRK05163 rpsL 30S ribosomal protein S12; Validated | Back alignment and domain information |
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>TIGR00981 rpsL_bact ribosomal protein S12; InterPro: IPR005679 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms | Back alignment and domain information |
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>COG0048 RpsL Ribosomal protein S12 [Translation, ribosomal structure and biogenesis] | Back alignment and domain information |
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>PTZ00115 40S ribosomal protein S12; Provisional | Back alignment and domain information |
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>pfam00164 Ribosomal_S12 Ribosomal protein S12 | Back alignment and domain information |
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>cd03368 Ribosomal_S12 S12-like family, 30S ribosomal protein S12 subfamily; S12 is located at the interface of the large and small ribosomal subunits of prokaryotes, chloroplasts and mitochondria, where it plays an important role in both tRNA and ribosomal subunit interactions | Back alignment and domain information |
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>cd00319 Ribosomal_S12_like Ribosomal protein S12-like family; composed of prokaryotic 30S ribosomal protein S12, eukaryotic 40S ribosomal protein S23 and similar proteins | Back alignment and domain information |
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>KOG1750 consensus | Back alignment and domain information |
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>cd03367 Ribosomal_S23 S12-like family, 40S ribosomal protein S23 subfamily; S23 is located at the interface of the large and small ribosomal subunits of eukaryotes, adjacent to the decoding center | Back alignment and domain information |
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>PTZ00067 40S ribosomal S23; Provisional | Back alignment and domain information |
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>PRK04211 rps12P 30S ribosomal protein S12P; Reviewed | Back alignment and domain information |
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>TIGR00982 S23_S12_E_A ribosomal protein S23 (S12); InterPro: IPR005680 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms | Back alignment and domain information |
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>KOG1749 consensus | Back alignment and domain information |
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Homologous Structures in PDB Database
Detected by PSI-BLAST, RPS-BLAST and HHsearch
Homologous Structures Detected by PSI-BLAST against Nonredundant Database
Identity | Alignment graph | Length | Definition | E-value |
Target | 124 | 30S ribosomal protein S12 [Candidatus Liberibacter asia | ||
1vs5_L | 124 | Crystal Structure Of The Bacterial Ribosome From Es | 3e-47 | |
3bbn_L | 123 | Homology Model For The Spinach Chloroplast 30s Subu | 1e-46 | |
3fic_L | 125 | T. Thermophilus 70s Ribosome In Complex With Mrna, | 1e-46 | |
1pn7_O | 124 | Coordinates Of S12, L11 Proteins And P-Trna, From T | 2e-46 | |
1p6g_L | 123 | Real Space Refined Coordinates Of The 30s Subunit F | 5e-46 | |
2f4v_L | 132 | 30s Ribosome + Designer Antibiotic Length = 132 | 1e-45 | |
3d5a_L | 134 | Structural Basis For Translation Termination On The | 5e-45 | |
1fjg_L | 135 | Structure Of The Thermus Thermophilus 30s Ribosomal | 5e-45 | |
1i94_L | 131 | Crystal Structures Of The Small Ribosomal Subunit W | 2e-44 | |
2gy9_L | 101 | Structure Of The 30s Subunit Of A Pre-Translocation | 2e-40 | |
1zn1_L | 97 | Coordinates Of Rrf Fitted Into Cryo-Em Map Of The 7 | 1e-37 | |
2zkq_l | 143 | Structure Of A Mammalian Ribosomal 40s Subunit With | 5e-16 | |
1s1h_L | 118 | Structure Of The Ribosomal 80s-Eef2-Sordarin Comple | 4e-15 | |
3iz6_L | 142 | Localization Of The Small Subunit Ribosomal Protein | 7e-15 | |
3izb_L | 145 | Localization Of The Small Subunit Ribosomal Protein | 3e-14 | |
2xzm_L | 142 | Crystal Structure Of The Eukaryotic 40s Ribosomal S | 5e-13 |
gi|116666559|pdb|1VS5|L Chain L, Crystal Structure Of The Bacterial Ribosome From Escherichia Coli In Complex With The Antibiotic Kasugamyin At 3.5a Resolution. This File Contains The 30s Subunit Of One 70s Ribosome. The Entire Crystal Structure Contains Two 70s Ribosomes And Is Described In Remark 400. Length = 124 | Back alignment and structure |
Score = 191 bits (486), Expect = 3e-47, Method: Composition-based stats. Identities = 84/124 (67%), Positives = 98/124 (79%), Gaps = 1/124 (0%) Query: 1 MPTVNQLIRKPRKGSFRACAKVTALRGNPQKRGVCLRVYTVTPKKPNSALRKVIKARLTS 60 M TVNQL+RKPR A + V AL PQKRGVC RVYT TPKKPNSALRKV + RLT+ Sbjct: 1 MATVNQLVRKPRARKV-AKSNVPALEACPQKRGVCTRVYTTTPKKPNSALRKVCRVRLTN 59 Query: 61 GVEVIAYVPGEGHNLQEHSVVMLCGGRVKDLPGVKYRVIRGVLDAQGVKNRKQARSRYGA 120 G EV +Y+ GEGHNLQEHSV+++ GGRVKDLPGV+Y +RG LD GVK+RKQARS+YG Sbjct: 60 GFEVTSYIGGEGHNLQEHSVILIRGGRVKDLPGVRYHTVRGALDCSGVKDRKQARSKYGV 119 Query: 121 ERPK 124 +RPK Sbjct: 120 KRPK 123 |
gi|188036213|pdb|3BBN|L Chain L, Homology Model For The Spinach Chloroplast 30s Subunit Fitted To 9.4a Cryo-Em Map Of The 70s Chlororibosome. Length = 123 | Back alignment and structure |
>gi|224510691|pdb|3FIC|L Chain L, T. Thermophilus 70s Ribosome In Complex With Mrna, Trnas And Ef-Tu.Gdp.Kirromycin Ternary Complex, Fitted To A 6.4 A Cryo-Em Map. This File Contains The 30s Subunit And The Ligands Length = 125 | Back alignment and structure |
>gi|34811523|pdb|1PN7|O Chain O, Coordinates Of S12, L11 Proteins And P-Trna, From The 70s X- Ray Structure Aligned To The 70s Cryo-Em Map Of E.Coli Ribosome Length = 124 | Back alignment and structure |
>gi|33357889|pdb|1P6G|L Chain L, Real Space Refined Coordinates Of The 30s Subunit Fitted Into The Low Resolution Cryo-Em Map Of The Ef-G.Gtp State Of E. Coli 70s Ribosome Length = 123 | Back alignment and structure |
gi|110591334|pdb|2F4V|L Chain L, 30s Ribosome + Designer Antibiotic Length = 132 | Back alignment and structure |
gi|209156507|pdb|3D5A|L Chain L, Structural Basis For Translation Termination On The 70s Ribosome. This File Contains The 30s Subunit, Release Factor 1 (Rf1), Two Trna, And Mrna Molecules Of One 70s Ribosome. The Entire Crystal Structure Contains Two 70s Ribosomes As Described In Remark 400. Length = 134 | Back alignment and structure |
gi|10835596|pdb|1FJG|L Chain L, Structure Of The Thermus Thermophilus 30s Ribosomal Subunit In Complex With The Antibiotics Streptomycin, Spectinomycin, And Paromomycin Length = 135 | Back alignment and structure |
>gi|14278541|pdb|1I94|L Chain L, Crystal Structures Of The Small Ribosomal Subunit With Tetracycline, Edeine And If3 Length = 131 | Back alignment and structure |
>gi|116667421|pdb|2GY9|L Chain L, Structure Of The 30s Subunit Of A Pre-Translocational E. Coli Ribosome Obtained By Fitting Atomic Models For Rna And Protein Components Into Cryo-Em Map Emd-1056 Length = 101 | Back alignment and structure |
>gi|71042417|pdb|1ZN1|L Chain L, Coordinates Of Rrf Fitted Into Cryo-Em Map Of The 70s Post- Termination Complex Length = 97 | Back alignment and structure |
gi|187609265|pdb|2ZKQ|LL Chain l, Structure Of A Mammalian Ribosomal 40s Subunit Within An 80s Complex Obtained By Docking Homology Models Of The Rna And Proteins Into An 8.7 A Cryo-Em Map Length = 143 | Back alignment and structure |
>gi|49258831|pdb|1S1H|L Chain L, Structure Of The Ribosomal 80s-Eef2-Sordarin Complex From Yeast Obtained By Docking Atomic Models For Rna And Protein Components Into A 11.7 A Cryo-Em Map. This File, 1s1h, Contains 40s Subunit. The 60s Ribosomal Subunit Is In File 1s1i. Length = 118 | Back alignment and structure |
gi|313103637|pdb|3IZ6|L Chain L, Localization Of The Small Subunit Ribosomal Proteins Into A 5.5 A Cryo-Em Map Of Triticum Aestivum Translating 80s Ribosome Length = 142 | Back alignment and structure |
gi|313103675|pdb|3IZB|L Chain L, Localization Of The Small Subunit Ribosomal Proteins Into A 6.1 A Cryo-Em Map Of Saccharomyces Cerevisiae Translating 80s Ribosome Length = 145 | Back alignment and structure |
gi|319443367|pdb|2XZM|L Chain L, Crystal Structure Of The Eukaryotic 40s Ribosomal Subunit In Complex With Initiation Factor 1. This File Contains The 40s Subunit And Initiation Factor For Molecule 1 Length = 142 | Back alignment and structure |
Homologous Structures in PDB70 Database Detected by RPS-BLAST
Original result of RPS-BLAST against PDB70 database
Identity | Alignment graph | Length | Definition | E-value |
Target | 124 | 30S ribosomal protein S12 [Candidatus Liberibacter asia | ||
2vqe_L | 135 | 30S ribosomal protein S12, 30S ribosomal protein S6; tR | 1e-42 | |
2zkq_l | 143 | 40S ribosomal protein S23E; protein-RNA complex, 40S ri | 2e-21 |
>2vqe_L 30S ribosomal protein S12, 30S ribosomal protein S6; tRNA-binding, rRNA-binding, metal-binding, zinc-finger, translation; HET: TM2 PAR; 2.5A {Thermus thermophilus} SCOP: i.1.1.1 PDB: 1gix_O* 1hnw_L* 1hnx_L* 1hnz_L* 1hr0_L 1ibk_L* 1ibl_L* 1ibm_L 1j5e_L 1jgo_O* 1jgp_O* 1jgq_O* 1mj1_O* 1ml5_O* 1mvr_O 1n32_L* 1n33_L* 1n34_L 1n36_L 1xmo_L* ... Length = 135 | Back alignment and structure |
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Score = 166 bits (421), Expect = 1e-42 Identities = 84/124 (67%), Positives = 103/124 (83%), Gaps = 1/124 (0%) Query: 1 MPTVNQLIRKPRKGSFRACAKVTALRGNPQKRGVCLRVYTVTPKKPNSALRKVIKARLTS 60 +PT+NQL+RK R+ R +KV AL+G P +RGVC V TVTPKKPNSALRKV K RLTS Sbjct: 4 LPTINQLVRKGRE-KVRKKSKVPALKGAPFRRGVCTVVRTVTPKKPNSALRKVAKVRLTS 62 Query: 61 GVEVIAYVPGEGHNLQEHSVVMLCGGRVKDLPGVKYRVIRGVLDAQGVKNRKQARSRYGA 120 G EV AY+PGEGHNLQEHSVV++ GGRVKDLPGV+Y ++RGV DA GVK+RK++RS+YG Sbjct: 63 GYEVTAYIPGEGHNLQEHSVVLIRGGRVKDLPGVRYHIVRGVYDAAGVKDRKKSRSKYGT 122 Query: 121 ERPK 124 ++PK Sbjct: 123 KKPK 126 |
>2zkq_l 40S ribosomal protein S23E; protein-RNA complex, 40S ribosomal subunit, ribosomal protein/RNA complex; 8.70A {Canis familiaris} PDB: 1s1h_L Length = 143 | Back alignment and structure |
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Homologous Structures in PDB70 Database Detected by HHsearch
Original result of HHsearch against PDB70 database
Identity | Alignment graph | Length | Definition | Probability |
Target | 124 | 30S ribosomal protein S12 [Candidatus Liberibacter asia | ||
2vqe_L | 135 | 30S ribosomal protein S12, 30S ribosomal protein S6; tR | 100.0 | |
2zkq_l | 143 | 40S ribosomal protein S23E; protein-RNA complex, 40S ri | 100.0 |
>2vqe_L 30S ribosomal protein S12, 30S ribosomal protein S6; tRNA-binding, rRNA-binding, metal-binding, zinc-finger, translation; HET: TM2 PAR; 2.5A {Thermus thermophilus} SCOP: i.1.1.1 PDB: 1gix_O* 1hnw_L* 1hnx_L* 1hnz_L* 1hr0_L 1ibk_L* 1ibl_L* 1ibm_L 1j5e_L 1jgo_O* 1jgp_O* 1jgq_O* 1mj1_O* 1ml5_O* 1mvr_O 1n32_L* 1n33_L* 1n34_L 1n36_L 1xmo_L* ... | Back alignment and structure |
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Probab=100.00 E-value=0 Score=414.85 Aligned_cols=123 Identities=67% Similarity=1.086 Sum_probs=119.5 Q ss_pred CCCCHHHHHCCCCCCCCCCCCCCCCCCCCCCCEEEEEEEECCCCCCCCCCCEEEEEEECCCCEEEEEECCCCCCCCCCCE Q ss_conf 95502354268737864666677000686212478756751845674424328899966996999980788875464678 Q gi|254780266|r 1 MPTVNQLIRKPRKGSFRACAKVTALRGNPQKRGVCLRVYTVTPKKPNSALRKVIKARLTSGVEVIAYVPGEGHNLQEHSV 80 (124) Q Consensus 1 MpTinQlir~~Rkk~~~~~~K~~~L~~~PqkkGVclkv~~~~PKKPNSA~RKvarV~Lsng~~v~ayIPGeGhnlqehs~ 80 (124) |||||||++++|++.. .+.++++|++|||++|||++|++++|||||||+||||+|+||||++||||||||||||||||+ T Consensus 4 M~T~nQl~r~~R~~~~-~k~k~~aL~~~PqkkGvc~kv~~~tPKKPNSA~RKvarVrLsng~~vtayIPGeGhnlqEHs~ 82 (135) T 2vqe_L 4 LPTINQLVRKGREKVR-KKSKVPALKGAPFRRGVCTVVRTVTPKKPNSALRKVAKVRLTSGYEVTAYIPGEGHNLQEHSV 82 (135) T ss_dssp -CCHHHHHHTCCCCCC-CCCSCCCSSSCSEEEEEESCCCEECCCTTCCCCEECCEEEETTSCEEEEECCSSCCCCCTTCE T ss_pred CCCHHHHHCCCCCCCC-CCCCCCCCCCCCCCCEEEEEEEEECCCCCCCCEEEEEEEEECCCCEEEEECCCCCCCCCCCCE T ss_conf 4768897514888776-567785023797415588997774689965300137899936997999981899867554788 Q ss_pred EEEECCCCCCCCCCEEEEEECCCCCCCCCCCCCCCCCCCCCCCC Q ss_conf 99953783888875478980400144334200121125610789 Q gi|254780266|r 81 VMLCGGRVKDLPGVKYRVIRGVLDAQGVKNRKQARSRYGAERPK 124 (124) Q Consensus 81 VLvrGGrv~DlPGVry~ivRG~~D~~gv~~Rk~~RSkYG~kkpk 124 (124) |||||||++|||||+||+|||+|||+||.+|+++|||||+|+|| T Consensus 83 VLvrGGrv~DLPGVry~vvRG~~D~~gV~~Rk~~RSkYG~Kkpk 126 (135) T 2vqe_L 83 VLIRGGRVKDLPGVRYHIVRGVYDAAGVKDRKKSRSKYGTKKPK 126 (135) T ss_dssp EEEEECCCTTSTTCCEEECTTSTTSCCCTTCCSSGGGGTCCCCC T ss_pred EEEECCCCCCCCCCCEEEECCCCCCCCCCCCCCCCCCCCCCCCC T ss_conf 99928877889984079964112243346642145546646852 |
>2zkq_l 40S ribosomal protein S23E; protein-RNA complex, 40S ribosomal subunit, ribosomal protein/RNA complex; 8.70A {Canis familiaris} PDB: 3jyv_L* 1s1h_L* | Back alignment and structure |
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Homologous Domains in SCOP and MMDB Database
Detected by RPS-BLAST and HHsearch
Homologous Domains in SCOP70 (Version1.75) Database Detected by RPS-BLAST
Original result of RPS-BLAST against SCOP70(version1.75) database
Identity | Alignment graph | Length | Definition | E-value |
124 | 30S ribosomal protein S12 [Candidatus Liberibacter asia | |||
d2uubl1 | 118 | b.40.4.5 (L:5-122) Ribosomal protein S12 {Thermus therm | 2e-42 |
>d2uubl1 b.40.4.5 (L:5-122) Ribosomal protein S12 {Thermus thermophilus [TaxId: 274]} Length = 118 | Back information, alignment and structure |
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class: All beta proteins fold: OB-fold superfamily: Nucleic acid-binding proteins family: Cold shock DNA-binding domain-like domain: Ribosomal protein S12 species: Thermus thermophilus [TaxId: 274] Score = 164 bits (417), Expect = 2e-42 Identities = 82/118 (69%), Positives = 98/118 (83%), Gaps = 1/118 (0%) Query: 2 PTVNQLIRKPRKGSFRACAKVTALRGNPQKRGVCLRVYTVTPKKPNSALRKVIKARLTSG 61 PT+NQL+RK R+ R +KV AL+G P +RGVC V TVTPKKPNSALRKV K RLTSG Sbjct: 1 PTINQLVRKGRE-KVRKKSKVPALKGAPFRRGVCTVVRTVTPKKPNSALRKVAKVRLTSG 59 Query: 62 VEVIAYVPGEGHNLQEHSVVMLCGGRVKDLPGVKYRVIRGVLDAQGVKNRKQARSRYG 119 EV AY+PGEGHNLQEHSVV++ GGRVKDLPGV+Y ++RGV DA GVK+RK++RS+YG Sbjct: 60 YEVTAYIPGEGHNLQEHSVVLIRGGRVKDLPGVRYHIVRGVYDAAGVKDRKKSRSKYG 117 |
Homologous Domains in SCOP70 (Version 1.75) Database Detected by HHsearch
Original result of HHsearch against SCOP70(version1.75) database
Identity | Alignment graph | Length | Definition | Probability |
Target | 124 | 30S ribosomal protein S12 [Candidatus Liberibacter asia | ||
d2uubl1 | 118 | Ribosomal protein S12 {Thermus thermophilus [TaxId: 274 | 100.0 |
>d2uubl1 b.40.4.5 (L:5-122) Ribosomal protein S12 {Thermus thermophilus [TaxId: 274]} | Back information, alignment and structure |
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class: All beta proteins fold: OB-fold superfamily: Nucleic acid-binding proteins family: Cold shock DNA-binding domain-like domain: Ribosomal protein S12 species: Thermus thermophilus [TaxId: 274] Probab=100.00 E-value=0 Score=395.87 Aligned_cols=118 Identities=69% Similarity=1.083 Sum_probs=114.6 Q ss_pred CCCHHHHHCCCCCCCCCCCCCCCCCCCCCCCEEEEEEEECCCCCCCCCCCEEEEEEECCCCEEEEEECCCCCCCCCCCEE Q ss_conf 55023542687378646666770006862124787567518456744243288999669969999807888754646789 Q gi|254780266|r 2 PTVNQLIRKPRKGSFRACAKVTALRGNPQKRGVCLRVYTVTPKKPNSALRKVIKARLTSGVEVIAYVPGEGHNLQEHSVV 81 (124) Q Consensus 2 pTinQlir~~Rkk~~~~~~K~~~L~~~PqkkGVclkv~~~~PKKPNSA~RKvarV~Lsng~~v~ayIPGeGhnlqehs~V 81 (124) ||||||+|++|+++. .+.++++|++|||++|||++++|++|||||||+||||+|+||||++||||||||||||||||+| T Consensus 1 PTinQL~rk~R~kk~-~k~k~~aL~~~PqkkGvc~kv~~~~PKKPNSA~RKvarVrLsng~~v~AyIPG~GhnlqEHs~V 79 (118) T d2uubl1 1 PTINQLVRKGREKVR-KKSKVPALKGAPFRRGVCTVVRTVTPKKPNSALRKVAKVRLTSGYEVTAYIPGEGHNLQEHSVV 79 (118) T ss_dssp CCHHHHHHHCCCCCC-CCCSCCCTTTCSCEEEEEEEEEEECCCTTCCSCEEEEEEEETTSCEEEEECCSSCCCCCTTCEE T ss_pred CCHHHHCCCCCCCCC-CCCCCCCCCCCCCCCEEEEEEEEECCCCCCCEEEEEEEEEECCCEEEEEECCCCCCCCCCCCEE T ss_conf 987671036888776-6788852236976043888988822688861021389999629909999818997674557889 Q ss_pred EEECCCCCCCCCCEEEEEECCCCCCCCCCCCCCCCCCCC Q ss_conf 995378388887547898040014433420012112561 Q gi|254780266|r 82 MLCGGRVKDLPGVKYRVIRGVLDAQGVKNRKQARSRYGA 120 (124) Q Consensus 82 LvrGGrv~DlPGVry~ivRG~~D~~gv~~Rk~~RSkYG~ 120 (124) ||||||++|||||+||+|||+|||++|.+|+++|||||| T Consensus 80 LvrGGrv~DlPGVry~vvrG~~D~~~v~~Rk~~RSkYGt 118 (118) T d2uubl1 80 LIRGGRVKDLPGVRYHIVRGVYDAAGVKDRKKSRSKYGT 118 (118) T ss_dssp EECCCCCTTSTTCCEEBCTTSTTCCCCTTCCSSTTTTTC T ss_pred EEECCCCCCCCCCEEEEEEEEECCCCCCCCCCCCCCCCC T ss_conf 994886666777478997231014333665326676789 |
Homologous Domains in MMDB70 Database Detected by RPS-BLAST
Original result of RPS-BLAST against MMDB70 database
Identity | Alignment graph | Length | Definition | E-value |
Target | 124 | 30S ribosomal protein S12 [Candidatus Liberibacter | ||
2vqe_L_23-135 | 113 | (L:23-135) 30S ribosomal protein S12, 30S ribosoma | 2e-35 | |
2zkq_l_ | 143 | (l:) 40S ribosomal protein S23E; protein-RNA compl | 1e-24 |
>2vqe_L (L:23-135) 30S ribosomal protein S12, 30S ribosomal protein S6; tRNA-binding, rRNA-binding, metal-binding, zinc-finger, translation; HET: TM2 PAR; 2.5A {Thermus thermophilus}Length = 113 | Back alignment and structure |
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Score = 141 bits (358), Expect = 2e-35 Identities = 75/104 (72%), Positives = 89/104 (85%) Query: 21 KVTALRGNPQKRGVCLRVYTVTPKKPNSALRKVIKARLTSGVEVIAYVPGEGHNLQEHSV 80 KV AL+G P +RGVC V TVTPKKPNSALRKV K RLTSG EV AY+PGEGHNLQEHSV Sbjct: 1 KVPALKGAPFRRGVCTVVRTVTPKKPNSALRKVAKVRLTSGYEVTAYIPGEGHNLQEHSV 60 Query: 81 VMLCGGRVKDLPGVKYRVIRGVLDAQGVKNRKQARSRYGAERPK 124 V++ GGRVKDLPGV+Y ++RGV DA GVK+RK++RS+YG ++PK Sbjct: 61 VLIRGGRVKDLPGVRYHIVRGVYDAAGVKDRKKSRSKYGTKKPK 104 |
>2zkq_l (l:) 40S ribosomal protein S23E; protein-RNA complex, 40S ribosomal subunit, ribosomal protein/RNA complex; 8.70A {Canis familiaris} PDB: 1s1h_LLength = 143 | Back alignment and structure |
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Homologous Domains in MMDB70 Database Detected by HHsearch
Original result of HHsearch against MMDB70 database
Identity | Alignment graph | Length | Definition | Probability |
Target | 124 | 30S ribosomal protein S12 [Candidatus Liberibacter asia | ||
2vqe_L_23-135 | 113 | 30S ribosomal protein S12, 30S ribosomal protein S | 100.0 | |
2zkq_l_ | 143 | 40S ribosomal protein S23E; protein-RNA complex, 4 | 100.0 |
>2vqe_L (L:23-135) 30S ribosomal protein S12, 30S ribosomal protein S6; tRNA-binding, rRNA-binding, metal-binding, zinc-finger, translation; HET: TM2 PAR; 2.5A {Thermus thermophilus} | Back alignment and structure |
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Probab=100.00 E-value=0 Score=356.93 Aligned_cols=104 Identities=72% Similarity=1.174 Sum_probs=102.6 Q ss_pred CCCCCCCCCCCCEEEEEEEECCCCCCCCCCCEEEEEEECCCCEEEEEECCCCCCCCCCCEEEEECCCCCCCCCCEEEEEE Q ss_conf 67700068621247875675184567442432889996699699998078887546467899953783888875478980 Q gi|254780266|r 21 KVTALRGNPQKRGVCLRVYTVTPKKPNSALRKVIKARLTSGVEVIAYVPGEGHNLQEHSVVMLCGGRVKDLPGVKYRVIR 100 (124) Q Consensus 21 K~~~L~~~PqkkGVclkv~~~~PKKPNSA~RKvarV~Lsng~~v~ayIPGeGhnlqehs~VLvrGGrv~DlPGVry~ivR 100 (124) |+++|++|||++|||+++++++|||||||+||||+|+|+||++||||||||||||||||+|||||||++|||||+||+|| T Consensus 1 K~~~L~g~Pq~kGi~l~v~~~~pKKPNSA~RKvarVrL~ngk~v~AyIPG~ghnlqehs~VLVrGgrv~DlPGVrykiVr 80 (113) T 2vqe_L 1 KVPALKGAPFRRGVCTVVRTVTPKKPNSALRKVAKVRLTSGYEVTAYIPGEGHNLQEHSVVLIRGGRVKDLPGVRYHIVR 80 (113) T ss_dssp SCCCSSSCSEEEEEESCCCEECCCTTCCCCEECCEEEETTSCEEEEECCSSCCCCCTTCEEEEEECCCTTSTTCCEEECT T ss_pred CCCCCCCCCCCCEEEEEEEEECCCCCCCEEEEEEEEEECCCCEEEEEECCCCCCCCCCCEEEEECCCCCCCCCCEEEEEE T ss_conf 88534799751079988878336776501312789996699599999578886555378899958756778875789984 Q ss_pred CCCCCCCCCCCCCCCCCCCCCCCC Q ss_conf 400144334200121125610789 Q gi|254780266|r 101 GVLDAQGVKNRKQARSRYGAERPK 124 (124) Q Consensus 101 G~~D~~gv~~Rk~~RSkYG~kkpk 124 (124) |+|||++|.+|+++||+||+|+|| T Consensus 81 G~~d~~~v~~Rk~~rSkyG~k~~k 104 (113) T 2vqe_L 81 GVYDAAGVKDRKKSRSKYGTKKPK 104 (113) T ss_dssp TSTTSCCCTTCCSSGGGGTCCCCC T ss_pred EECCCCCCCCCCCCCCCCCCCCCH T ss_conf 501364446653245546645730 |
>2zkq_l (l:) 40S ribosomal protein S23E; protein-RNA complex, 40S ribosomal subunit, ribosomal protein/RNA complex; 8.70A {Canis familiaris} PDB: 1s1h_L | Back alignment and structure |
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