254780475

254780475

50S ribosomal protein L33

GeneID in NCBI database:8209464Locus tag:CLIBASIA_01800
Protein GI in NCBI database:254780475Protein Accession:YP_003064888.1
Gene range:+(398023, 398190)Protein Length:55aa
Gene description:50S ribosomal protein L33
COG prediction:[J] Ribosomal protein L33
KEGG prediction:rpmG; 50S ribosomal protein L33; K02913 large subunit ribosomal protein L33
SEED prediction:LSU ribosomal protein L33p
Pathway involved in KEGG:Ribosome [PATH:las03010]
Subsystem involved in SEED:Ribosome LSU bacterial
sequencesequence profile

Prediction of Local Sequence Properties

SourceSummaryResult
scaler
NCBI Databasesequence
PSIPREDsecondary structure
SSPROsecondary structure
DISEMBLcoil and loop
DISEMBLflexible loop
SEGlow complexity
DISOPREDdisordered
DISEMBLmissing residues
DISPROdisordered
TMHMMnone TM-Helix
TOPPREDnone TM-Helix
HMMTOPnone TM-Helix
MEMSATnone TM-Helix
MEMSAT_SVMnone TM-Helix
PHOBIUSnone TM-Helix
SignalP_HMMno
SignalP_NNno
COILScoiled coil
70% MSAconservation map
90% MSAconservation map
  
--------10--------20--------30--------40--------50-----
MAKAATIKIKLISSAGTGSFYVTKKNSRTMSGKMVKNKYDPVIRKHVEFKEGKIK
ccccccEEEEEEEccccccEEEEEccccccccEEEEEEccHHHHHHHHHHHHccc
cccccEEEEEEEEEccccEEEEEccccccccccEEEcccccHEEEEEEEEccccc
MAKAATIKIKLIssagtgsfyvtkknsrtmsgkmvknkydpviRKHVEFKEGKIK
MAKAATIkiklissagtgsfyvtkknsrtmsgkmvknkydpvirkhvefkegkik
MAKAATIKIKLISSAGTGSFYVTKKNSRTMSGKMVKNKYDPVIRKHVEFKEGKIK
****ATI*IKLISSAGTGSFYVTKKNSRTMSGKMVKNKYDPVIRKHVEFKEGKI*
MAKAATIKIKLISSAGTGSFYVTKKNSRTMSGKMVKNKYDPVIRKHVEFKEGKIK
***AATIKIKLISSAGTGSFYVTKKNSRTMSGKMVKNKYDPVIRKHVEFKEG*I*
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iiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhoooooooooo
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhoooo
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MAKAATIKIKLISSAGTGSFYVTKKNSRTMSGKMVKNKYDPVIRKHVEFKEGKIK
MAKAATIKIKLISSAGTGSFYVTKKNSRTMSGKMVKNKYDPVIRKHVEFKEGKIK
MAKAATIKIKLISSAGTGSFYVTKKNSRTMSGKMVKNKYDPVIRKHVEFKEGKIK

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

IdentityAlignment graphLength Definition Round E-value
Target55 50S ribosomal protein L33 [Candidatus Liberibacter asia
31512206955 50S ribosomal protein L33 [Candidatus Liberibacter sola 1 4e-18
3993619255 50S ribosomal protein L33 [Rhodopseudomonas palustris C 1 9e-17
4947557955 50S ribosomal protein L33 [Bartonella henselae str. Hou 1 9e-17
25526326955 ribosomal protein L33 [Thalassiobium sp. R2A62] Length 1 1e-16
31940852955 50S ribosomal protein L33 [Bartonella schoenbuchensis R 1 1e-16
12160242355 50S ribosomal protein L33 [Bartonella bacilliformis KC5 1 1e-16
25450231755 ribosomal protein L33 [Labrenzia alexandrii DFL-11] Len 1 1e-16
4947424955 50S ribosomal protein L33 [Bartonella quintana str. Tou 1 1e-16
15918470155 50S ribosomal protein L33 [Agrobacterium tumefaciens st 1 2e-16
25447419055 ribosomal protein L33 [Pseudovibrio sp. JE062] Length = 1 2e-16
>gi|315122069|ref|YP_004062558.1| 50S ribosomal protein L33 [Candidatus Liberibacter solanacearum CLso-ZC1] Length = 55 Back     alignment and organism information
 Score = 94.4 bits (233), Expect = 4e-18,   Method: Compositional matrix adjust.
 Identities = 46/55 (83%), Positives = 50/55 (90%)

Query: 1  MAKAATIKIKLISSAGTGSFYVTKKNSRTMSGKMVKNKYDPVIRKHVEFKEGKIK 55
          MAKAATIKIKLISS GTG+FYVTKKNSRTM  +MVK KYDPV+RKHV+F EGKIK
Sbjct: 1  MAKAATIKIKLISSEGTGTFYVTKKNSRTMPKQMVKRKYDPVVRKHVDFTEGKIK 55



Species: Candidatus Liberibacter solanacearum
Genus: Candidatus Liberibacter
Family: Rhizobiaceae
Order: Rhizobiales
Class: Alphaproteobacteria
Phylum: Proteobacteria
Superkingdom: Bacteria
>gi|39936192|ref|NP_948468.1| 50S ribosomal protein L33 [Rhodopseudomonas palustris CGA009] Length = 55 Back     alignment and organism information
>gi|49475579|ref|YP_033620.1| 50S ribosomal protein L33 [Bartonella henselae str. Houston-1] Length = 55 Back     alignment and organism information
>gi|255263269|ref|ZP_05342611.1| ribosomal protein L33 [Thalassiobium sp. R2A62] Length = 55 Back     alignment and organism information
>gi|319408529|emb|CBI82182.1| 50S ribosomal protein L33 [Bartonella schoenbuchensis R1] Length = 55 Back     alignment and organism information
>gi|121602423|ref|YP_989134.1| 50S ribosomal protein L33 [Bartonella bacilliformis KC583] Length = 55 Back     alignment and organism information
>gi|254502317|ref|ZP_05114468.1| ribosomal protein L33 [Labrenzia alexandrii DFL-11] Length = 55 Back     alignment and organism information
>gi|49474249|ref|YP_032291.1| 50S ribosomal protein L33 [Bartonella quintana str. Toulouse] Length = 55 Back     alignment and organism information
>gi|159184701|ref|NP_529204.1| 50S ribosomal protein L33 [Agrobacterium tumefaciens str. C58] Length = 55 Back     alignment and organism information
>gi|254474190|ref|ZP_05087581.1| ribosomal protein L33 [Pseudovibrio sp. JE062] Length = 55 Back     alignment and organism information

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

IdentityAlignment graphLength Definition E-value
Target55 50S ribosomal protein L33 [Candidatus Liberibacter asia
PRK0059553 PRK00595, rpmG, 50S ribosomal protein L33; Validated 1e-13
TIGR0102354 TIGR01023, rpmG_bact, ribosomal protein L33, bacterial 6e-08
COG026750 COG0267, RpmG, Ribosomal protein L33 [Translation, ribo 7e-07
KOG350555 KOG3505, KOG3505, KOG3505, Mitochondrial/chloroplast ri 0.001
pfam0047148 pfam00471, Ribosomal_L33, Ribosomal protein L33 1e-09
>gnl|CDD|179075 PRK00595, rpmG, 50S ribosomal protein L33; Validated Back     alignment and domain information
>gnl|CDD|162161 TIGR01023, rpmG_bact, ribosomal protein L33, bacterial type Back     alignment and domain information
>gnl|CDD|30616 COG0267, RpmG, Ribosomal protein L33 [Translation, ribosomal structure and biogenesis] Back     alignment and domain information
>gnl|CDD|38715 KOG3505, KOG3505, KOG3505, Mitochondrial/chloroplast ribosomal protein L33-like [Translation, ribosomal structure and biogenesis] Back     alignment and domain information
>gnl|CDD|144167 pfam00471, Ribosomal_L33, Ribosomal protein L33 Back     alignment and domain information

Conserved Domains in CDD Database Detected by HHsearch

Original result of HHsearch against CDD database

IdentityAlignment graphLength Definition Probability
Target 55 50S ribosomal protein L33 [Candidatus Liberibacter asia
TIGR0102367 rpmG_bact ribosomal protein L33; InterPro: IPR001705 Ri 99.93
PRK0059553 rpmG 50S ribosomal protein L33; Validated 99.9
CHL0010466 rpl33 ribosomal protein L33 99.85
pfam0047148 Ribosomal_L33 Ribosomal protein L33. 99.83
COG026750 RpmG Ribosomal protein L33 [Translation, ribosomal stru 99.82
PRK0050450 rpmG 50S ribosomal protein L33; Validated 99.78
KOG350555 consensus 99.51
PRK0576791 rpl44e 50S ribosomal protein L44e; Validated 91.75
COG163194 RPL42A Ribosomal protein L44E [Translation, ribosomal s 90.39
>TIGR01023 rpmG_bact ribosomal protein L33; InterPro: IPR001705 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms Back     alignment and domain information
>PRK00595 rpmG 50S ribosomal protein L33; Validated Back     alignment and domain information
>CHL00104 rpl33 ribosomal protein L33 Back     alignment and domain information
>pfam00471 Ribosomal_L33 Ribosomal protein L33 Back     alignment and domain information
>COG0267 RpmG Ribosomal protein L33 [Translation, ribosomal structure and biogenesis] Back     alignment and domain information
>PRK00504 rpmG 50S ribosomal protein L33; Validated Back     alignment and domain information
>KOG3505 consensus Back     alignment and domain information
>PRK05767 rpl44e 50S ribosomal protein L44e; Validated Back     alignment and domain information
>COG1631 RPL42A Ribosomal protein L44E [Translation, ribosomal structure and biogenesis] Back     alignment and domain information

Homologous Structures in PDB Database
Detected by PSI-BLAST, RPS-BLAST and HHsearch

Homologous Structures Detected by PSI-BLAST against Nonredundant Database

Original result of PSI-BLAST

IdentityAlignment graphLength Definition E-value
Target55 50S ribosomal protein L33 [Candidatus Liberibacter asia
1nkw_182 Crystal Structure Of The Large Ribosomal Subunit Fr 2e-15
1vs6_155 Crystal Structure Of The Bacterial Ribosome From Es 4e-14
1p85_154 Real Space Refined Coordinates Of The 50s Subunit F 2e-13
2gya_152 Structure Of The 50s Subunit Of A Pre-Translocation 1e-12
1nwx_155 Complex Of The Large Ribosomal Subunit From Deinoco 3e-12
3fik_150 Ternary Complex-Bound E.Coli 70s Ribosome. This Ent 6e-12
2j01_654 Structure Of The Thermus Thermophilus 70s Ribosome 2e-11
1pnu_153 Crystal Structure Of A Streptomycin Dependent Ribos 2e-11
3fin_645 T. Thermophilus 70s Ribosome In Complex With Mrna, 1e-08
3pyo_344 Crystal Structure Of A Complex Containing Domain 3 1e-08
3bbo_366 Homology Model For The Spinach Chloroplast 50s Subu 3e-07
2ftc_P52 Structural Model For The Large Subunit Of The Mamma 2e-06
>gi|28948945|pdb|1NKW|1 Chain 1, Crystal Structure Of The Large Ribosomal Subunit From Deinococcus Radiodurans Length = 82 Back     alignment and structure 
 Score = 85.7 bits (212), Expect = 2e-15,   Method: Composition-based stats.
 Identities = 28/55 (50%), Positives = 35/55 (63%), Gaps = 1/55 (1%)

Query: 1  MAK-AATIKIKLISSAGTGSFYVTKKNSRTMSGKMVKNKYDPVIRKHVEFKEGKI 54
          MAK    I +K+ SSAGTG +Y T KN R    K+   KYDPV +KHV F+E K+
Sbjct: 28 MAKDGPRIIVKMESSAGTGFYYTTTKNRRNTQAKLELKKYDPVAKKHVVFREKKV 82
gi|116666596|pdb|1VS6|1 Chain 1, Crystal Structure Of The Bacterial Ribosome From Escherichia Coli In Complex With The Antibiotic Kasugamyin At 3.5a Resolution. This File Contains The 50s Subunit Of One 70s Ribosome. The Entire Crystal Structure Contains Two 70s Ribosomes And Is Described In Remark 400. Length = 55 Back     alignment and structure
>gi|33357925|pdb|1P85|1 Chain 1, Real Space Refined Coordinates Of The 50s Subunit Fitted Into The Low Resolution Cryo-Em Map Of The Ef-G.Gtp State Of E. Coli 70s Ribosome Length = 54 Back     alignment and structure
>gi|116667458|pdb|2GYA|1 Chain 1, Structure Of The 50s 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 = 52 Back     alignment and structure
gi|29726813|pdb|1NWX|1 Chain 1, Complex Of The Large Ribosomal Subunit From Deinococcus Radiodurans With Abt-773 Length = 55 Back     alignment and structure
>gi|224510758|pdb|3FIK|1 Chain 1, Ternary Complex-Bound E.Coli 70s Ribosome. This Entry Consists Of The 50s Subunit. Length = 50 Back     alignment and structure
gi|116668228|pdb|2J01|6 Chain 6, Structure Of The Thermus Thermophilus 70s Ribosome Complexed With Mrna, Trna And Paromomycin (Part 2 Of 4). This File Contains The 50s Subunit From Molecule I. Length = 54 Back     alignment and structure
>gi|34811580|pdb|1PNU|1 Chain 1, Crystal Structure Of A Streptomycin Dependent Ribosome From Escherichia Coli, 50s Subunit Of 70s Ribosome. This File, 1pnu, Contains Only Molecules Of The 50s Ribosomal Subunit. The 30s Subunit, Mrna, P-Site Trna, And A-Site Trna Are In The Pdb File 1pns. Length = 53 Back     alignment and structure
>gi|224510775|pdb|3FIN|6 Chain 6, 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 50s Subunit Length = 45 Back     alignment and structure
>gi|322812600|pdb|3PYO|3 Chain 3, Crystal Structure Of A Complex Containing Domain 3 From The Psiv Igr Ires Rna Bound To The 70s Ribosome. This File Contains The 50s Subunit Of The First 70s Ribosome. Length = 44 Back     alignment and structure
gi|189096151|pdb|3BBO|3 Chain 3, Homology Model For The Spinach Chloroplast 50s Subunit Fitted To 9.4a Cryo-Em Map Of The 70s Chlororibosome Length = 66 Back     alignment and structure
>gi|99032322|pdb|2FTC|P Chain P, Structural Model For The Large Subunit Of The Mammalian Mitochondrial Ribosome Length = 52 Back     alignment and structure

Homologous Structures in PDB70 Database Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

IdentityAlignment graphLength Definition E-value
Target55 50S ribosomal protein L33 [Candidatus Liberibacter asia
1nkw_182 50S ribosomal protein L33; ribosome, large subunit, X- 8e-14
3i1n_155 50S ribosomal protein L33; ribosome structure, protein- 1e-13
2zjr_155 50S ribosomal protein L33; ribosome, large ribosomal su 3e-12
3ofq_150 50S ribosomal protein L33; protein biosynthesis, riboso 8e-12
2ftc_P52 Mitochondrial ribosomal protein L33 isoform A, mitochon 2e-09
2j01_654 50S ribosomal protein L33; ribosome, tRNA, paromomycin, 5e-09
3bbo_366 Ribosomal protein L33; large ribosomal subunit, spinach 7e-04
>1nkw_1 50S ribosomal protein L33; ribosome, large subunit, X- RAY structure, peptidyl-transferase, peptide bond formation; 3.10A {Deinococcus radiodurans} SCOP: i.1.1.2 PDB: 1sm1_1* 1yl3_6 2b66_6 2b9n_6 2b9p_6 Length = 82 Back     alignment and structure
 Score = 70.6 bits (173), Expect = 8e-14
 Identities = 28/55 (50%), Positives = 35/55 (63%), Gaps = 1/55 (1%)

Query: 1  MAK-AATIKIKLISSAGTGSFYVTKKNSRTMSGKMVKNKYDPVIRKHVEFKEGKI 54
          MAK    I +K+ SSAGTG +Y T KN R    K+   KYDPV +KHV F+E K+
Sbjct: 28 MAKDGPRIIVKMESSAGTGFYYTTTKNRRNTQAKLELKKYDPVAKKHVVFREKKV 82
>3i1n_1 50S ribosomal protein L33; ribosome structure, protein-RNA complex, acetylation, ribonucleoprotein, ribosomal protein, RNA-binding, rRNA- binding, methylation; 3.19A {Escherichia coli k-12} PDB: 1vs8_1 1vs6_1 3i1p_1 3i1r_1 3i1t_1 3i20_1 3i22_1 2qam_1* 1p85_1 1p86_1 2awb_1 2aw4_1 2i2v_1 2j28_1 2i2t_1* 2qao_1* 2qba_1* 2qbc_1* 2qbe_1 2qbg_1 ... Length = 55 Back     alignment and structure
>2zjr_1 50S ribosomal protein L33; ribosome, large ribosomal subunit, ribonucleoprotein, RNA-binding, rRNA-binding, tRNA-binding, methylation; 2.91A {Deinococcus radiodurans} SCOP: g.41.8.6 PDB: 1nwx_1* 1xbp_1* 2zjp_1* 2zjq_1 1nwy_1 3cf5_1* 3dll_1* 1pnu_1 1pny_1 1vor_3 1vou_3 1vow_3 1voy_3 1vp0_3 Length = 55 Back     alignment and structure
>3ofq_1 50S ribosomal protein L33; protein biosynthesis, ribosomes, RNA, tRNA, transfer, antibi EXIT, peptidyl, ribosomal subunit, large; 3.10A {Escherichia coli} PDB: 3fik_1 2wwq_4 3ofr_1* 3i1n_1 1vs8_1 1vs6_1 1vt2_1 3i1p_1 3i1r_1 3i1t_1 3i20_1 3i22_1 3kcr_1 3orb_1* 2gya_1 2gyc_1 2qam_1* 1p85_1 1p86_1 2awb_1 ... Length = 50 Back     alignment and structure
>2ftc_P Mitochondrial ribosomal protein L33 isoform A, mitochondrial 39S ribosomal protein L27; mitochondrial ribosome, large ribosomal subunit, ribosomal RNA; 12.10A {Bos taurus} PDB: 3iy9_P Length = 52 Back     alignment and structure
>2j01_6 50S ribosomal protein L33; ribosome, tRNA, paromomycin, mRNA, translation; 2.8A {Thermus thermophilus} SCOP: g.41.8.6 PDB: 2hgq_5 2hgj_5 2hgu_5 2j03_6 2jl6_6 2jl8_6 2v47_6 2v49_6 2wdi_6 2wdj_6 2wdl_6 2wdn_6 2wh2_6 2wh4_6 3d5b_6 3d5d_6 3f1f_6 3f1h_6 3hux_6 3huz_6 ... Length = 54 Back     alignment and structure
>3bbo_3 Ribosomal protein L33; large ribosomal subunit, spinach chloroplast ribosome, ribonucleoprotein particle, macromolecular complex; 9.40A {Spinacea oleracea} Length = 66 Back     alignment and structure

Homologous Structures in PDB70 Database Detected by HHsearch

Original result of HHsearch against PDB70 database

IdentityAlignment graphLength Definition Probability
Target55 50S ribosomal protein L33 [Candidatus Liberibacter asia
2zjr_155 50S ribosomal protein L33; ribosome, large ribosomal su 99.91
1nkw_182 50S ribosomal protein L33; ribosome, large subunit, X- 99.91
2j01_654 50S ribosomal protein L33; ribosome, tRNA, paromomycin, 99.85
3ofq_150 50S ribosomal protein L33; protein biosynthesis, riboso 99.84
3bbo_366 Ribosomal protein L33; large ribosomal subunit, spinach 99.83
2ftc_P52 Mitochondrial ribosomal protein L33 isoform A, mitochon 99.8
1vq8_392 50S ribosomal protein L44E; ribosome 50S, protein-prote 93.28
2zkr_4106 60S ribosomal protein L44E; protein-RNA complex, 60S ri 90.95
>2zjr_1 50S ribosomal protein L33; ribosome, large ribosomal subunit, ribonucleoprotein, RNA-binding, rRNA-binding, tRNA-binding, methylation; 2.91A {Deinococcus radiodurans} SCOP: g.41.8.6 PDB: 1nwx_1* 1xbp_1* 2zjp_1* 2zjq_1 1nwy_1 3cf5_1* 3dll_1* 1pnu_1 1pny_1 1vor_3 1vou_3 1vow_3 1voy_3 1vp0_3 Back     alignment and structure
Probab=99.91  E-value=3.3e-25  Score=151.20  Aligned_cols=54  Identities=52%  Similarity=0.782  Sum_probs=52.7

Q ss_pred             CCC-CCEEEEEEEECCCCCCEEEEECCCCCCCCEEEEEECCCCCCCEEEEEEEEE
Q ss_conf             987-762699999517788759835488998333699413174463446688650
Q gi|254780475|r    1 MAK-AATIKIKLISSAGTGSFYVTKKNSRTMSGKMVKNKYDPVIRKHVEFKEGKI   54 (55)
Q Consensus         1 MaK-~~r~~I~L~st~~tg~~Y~T~knk~~~~~klel~Ky~p~~~kHvl~~E~Ki   54 (55)
                      ||| ++|++|+|+|+||+|++|+|+||++|+||||||+||||+||+||+|+|+||
T Consensus         1 MAKk~~rv~I~L~st~~t~~~Y~t~Kn~~~~~~kLel~Ky~p~~rkh~lhkE~Ki   55 (55)
T 2zjr_1            1 MAKDGPRIIVKMESSAGTGFYYTTTKNRRNTQAKLELKKYDPVAKKHVVFREKKV   55 (55)
T ss_pred             CCCCCCEEEEEEEEECCCCCEEEEECCCCCCCHHEEEECCCCCCCCEEEEEEEEC
T ss_conf             9887780799999958989789771688999403179733878872561886309
>1nkw_1 50S ribosomal protein L33; ribosome, large subunit, X- RAY structure, peptidyl-transferase, peptide bond formation; 3.10A {Deinococcus radiodurans} SCOP: i.1.1.2 PDB: 1sm1_1* 1yl3_6 2b66_6 2b9n_6 2b9p_6 Back     alignment and structure
>2j01_6 50S ribosomal protein L33; ribosome, tRNA, paromomycin, mRNA, translation; 2.8A {Thermus thermophilus} SCOP: g.41.8.6 PDB: 2hgq_5 2hgj_5 2hgu_5 2j03_6 2jl6_6 2jl8_6 2v47_6 2v49_6 2wdi_6 2wdj_6 2wdl_6 2wdn_6 2wh2_6 2wh4_6 2wrj_6 2wrl_6 2wro_6 2wrr_6 2x9s_6 2x9u_6 ... Back     alignment and structure
>3ofq_1 50S ribosomal protein L33; protein biosynthesis, ribosomes, RNA, tRNA, transfer, antibi EXIT, peptidyl, ribosomal subunit, large; 3.10A {Escherichia coli} PDB: 3fik_1 2wwq_4 3ofr_1* 3i1n_1 1vs8_1 1vs6_1 1vt2_1 3i1p_1 3i1r_1 3i1t_1 3i20_1 3i22_1 3kcr_1 3orb_1* 2gya_1 2gyc_1 2qam_1* 1p85_1 1p86_1 2awb_1 ... Back     alignment and structure
>3bbo_3 Ribosomal protein L33; large ribosomal subunit, spinach chloroplast ribosome, ribonucleoprotein particle, macromolecular complex; 9.40A {Spinacea oleracea} Back     alignment and structure
>2ftc_P Mitochondrial ribosomal protein L33 isoform A, mitochondrial 39S ribosomal protein L27; mitochondrial ribosome, large ribosomal subunit, ribosomal RNA; 12.10A {Bos taurus} PDB: 3iy9_P Back     alignment and structure
>1vq8_3 50S ribosomal protein L44E; ribosome 50S, protein-protein complex, RNA-RNA complex, protein-RNA complex, peptidyl transferase reaction; HET: 1MA OMU OMG UR3 PSU SPS; 2.20A {Haloarcula marismortui} SCOP: g.41.8.3 PDB: 1jj2_2 1k73_4* 1k8a_4* 1k9m_4* 1kc8_4* 1kd1_4* 1kqs_2* 1m1k_4* 1m90_4* 1n8r_4* 1nji_4* 1q7y_4* 1q81_4* 1q82_4* 1q86_4* 1qvf_2 1qvg_2 1s72_3* 1vq4_3* 1vq5_3* ... Back     alignment and structure
>2zkr_4 60S ribosomal protein L44E; protein-RNA complex, 60S ribosomal subunit, ribosomal protein/RNA complex; 8.70A {Canis familiaris} SCOP: i.1.1.1 PDB: 1s1i_Z 3jyw_Z Back     alignment and structure

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

IdentityAlignment graphLength Definition E-value
Target 55 50S ribosomal protein L33 [Candidatus Liberibacter asia
d2gyc1152 g.41.8.6 (1:1-52) Ribosomal protein L33p {Escherichia c 3e-12
d2j016145 g.41.8.6 (6:9-53) Ribosomal protein L33p {Thermus therm 3e-04
>d2gyc11 g.41.8.6 (1:1-52) Ribosomal protein L33p {Escherichia coli [TaxId: 562]} Length = 52 Back     information, alignment and structure

class: Small proteins
fold: Rubredoxin-like
superfamily: Zn-binding ribosomal proteins
family: Ribosomal protein L33p
domain: Ribosomal protein L33p
species: Escherichia coli [TaxId: 562]

 Score = 64.2 bits (157), Expect = 3e-12
 Identities = 30/52 (57%), Positives = 36/52 (69%)

Query: 2  AKAATIKIKLISSAGTGSFYVTKKNSRTMSGKMVKNKYDPVIRKHVEFKEGK 53
          AK    KIKL+SSAGTG FY T KN RT   K+   K+DPV+R+HV +KE K
Sbjct: 1  AKGIREKIKLVSSAGTGHFYTTTKNKRTKPEKLELKKFDPVVRQHVIYKEAK 52
>d2j0161 g.41.8.6 (6:9-53) Ribosomal protein L33p {Thermus thermophilus [TaxId: 274]} Length = 45 Back     information, alignment and structure

Homologous Domains in SCOP70 (Version 1.75) Database Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

IdentityAlignment graphLength Definition Probability
Target55 50S ribosomal protein L33 [Candidatus Liberibacter asia
d2zjr1153 Ribosomal protein L33p {Deinococcus radiodurans [TaxId: 99.88
d2gyc1152 Ribosomal protein L33p {Escherichia coli [TaxId: 562]} 99.86
d2j016145 Ribosomal protein L33p {Thermus thermophilus [TaxId: 27 99.7
d1vqo3192 Ribosomal protein L44e {Archaeon Haloarcula marismortui 93.2
>d2zjr11 g.41.8.6 (1:2-54) Ribosomal protein L33p {Deinococcus radiodurans [TaxId: 1299]} Back     information, alignment and structure
class: Small proteins
fold: Rubredoxin-like
superfamily: Zn-binding ribosomal proteins
family: Ribosomal protein L33p
domain: Ribosomal protein L33p
species: Deinococcus radiodurans [TaxId: 1299]

Probab=99.88  E-value=1.3e-23  Score=141.66  Aligned_cols=51  Identities=49%  Similarity=0.746  Sum_probs=49.6

Q ss_pred             CCCEEEEEEEECCCCCCEEEEECCCCCCCCEEEEEECCCCCCCEEEEEEEE
Q ss_conf             776269999951778875983548899833369941317446344668865
Q gi|254780475|r    3 KAATIKIKLISSAGTGSFYVTKKNSRTMSGKMVKNKYDPVIRKHVEFKEGK   53 (55)
Q Consensus         3 K~~r~~I~L~st~~tg~~Y~T~knk~~~~~klel~Ky~p~~~kHvl~~E~K   53 (55)
                      |++|++|+|+|+||+|++|+|+||++|+||||||+||||+|++||+|+|+|
T Consensus         3 k~~rv~I~L~st~~tg~~Y~t~Kn~~~~~~klel~KydP~~rkhvl~kE~K   53 (53)
T d2zjr11           3 DGPRIIVKMESSAGTGFYYTTTKNRRNTQAKLELKKYDPVAKKHVVFREKK   53 (53)
T ss_pred             CCCCEEEEEEEECCCCCEEEEECCCCCCCCEEEEECCCCCCCCEEEEEECC
T ss_conf             776289999985898988977067899962057974387875055187449
>d2gyc11 g.41.8.6 (1:1-52) Ribosomal protein L33p {Escherichia coli [TaxId: 562]} Back     information, alignment and structure
>d2j0161 g.41.8.6 (6:9-53) Ribosomal protein L33p {Thermus thermophilus [TaxId: 274]} Back     information, alignment and structure
>d1vqo31 g.41.8.3 (3:1-92) Ribosomal protein L44e {Archaeon Haloarcula marismortui [TaxId: 2238]} Back     information, alignment and structure

Homologous Domains in MMDB70 Database Detected by RPS-BLAST

Original result of RPS-BLAST against MMDB70 database

IdentityAlignment graphLength Definition E-value
Target 55 50S ribosomal protein L33 [Candidatus Liberibacter
1nkw_1_82 (1:) 50S ribosomal protein L33; ribosome, large su 8e-12
3i1n_1_55 (1:) 50S ribosomal protein L33; ribosome structure 8e-12
2j01_6_54 (6:) 50S ribosomal protein L33; ribosome, tRNA, pa 2e-11
2zjr_1_55 (1:) 50S ribosomal protein L33; ribosome, large ri 2e-10
2ftc_P_52 (P:) Mitochondrial ribosomal protein L33 isoform A 3e-09
3bbo_3_66 (3:) Ribosomal protein L33; large ribosomal subuni 8e-06
>1nkw_1 (1:) 50S ribosomal protein L33; ribosome, large subunit, X- RAY structure, peptidyl-transferase, peptide bond formation; 3.10A {Deinococcus radiodurans}Length = 82 Back     alignment and structure
 Score = 64.0 bits (156), Expect = 8e-12
 Identities = 25/53 (47%), Positives = 32/53 (60%)

Query: 2  AKAATIKIKLISSAGTGSFYVTKKNSRTMSGKMVKNKYDPVIRKHVEFKEGKI 54
               I +K+ SSAGTG +Y T KN R    K+   KYDPV +KHV F+E K+
Sbjct: 30 KDGPRIIVKMESSAGTGFYYTTTKNRRNTQAKLELKKYDPVAKKHVVFREKKV 82
>3i1n_1 (1:) 50S ribosomal protein L33; ribosome structure, protein-RNA complex, acetylation, ribonucleoprotein, ribosomal protein, RNA-binding, rRNA- binding, methylation; 3.19A {Escherichia coli k-12} PDB: 1vs8_1 1vs6_1 3i1p_1 3i1r_1 3i1t_1 3i20_1 3i22_1 2qam_1* 1p85_1 1p86_1 2awb_1 2aw4_1 2i2v_1 2j28_1 2i2t_1* 2qao_1* 2qba_1* 2qbc_1* 2qbe_1 2qbg_1 ...Length = 55 Back     alignment and structure
>2j01_6 (6:) 50S ribosomal protein L33; ribosome, tRNA, paromomycin, mRNA, translation; 2.8A {Thermus thermophilus}Length = 54 Back     alignment and structure
>2zjr_1 (1:) 50S ribosomal protein L33; ribosome, large ribosomal subunit, ribonucleoprotein, RNA-binding, rRNA-binding, tRNA-binding, methylation; 2.91A {Deinococcus radiodurans}Length = 55 Back     alignment and structure
>2ftc_P (P:) Mitochondrial ribosomal protein L33 isoform A, mitochondrial 39S ribosomal protein L27; mitochondrial ribosome, large ribosomal subunit, ribosomal RNA; 12.10A {Bos taurus} PDB: 3iy9_PLength = 52 Back     alignment and structure
>3bbo_3 (3:) Ribosomal protein L33; large ribosomal subunit, spinach chloroplast ribosome, ribonucleoprotein particle, macromolecular complex; 9.40A {Spinacea oleracea}Length = 66 Back     alignment and structure

Homologous Domains in MMDB70 Database Detected by HHsearch

Original result of HHsearch against MMDB70 database

IdentityAlignment graphLength Definition Probability
Target55 50S ribosomal protein L33 [Candidatus Liberibacter asia
3i1n_1_55 50S ribosomal protein L33; ribosome structure, pro 99.91
2zjr_1_55 50S ribosomal protein L33; ribosome, large ribosom 99.9
1nkw_1_82 50S ribosomal protein L33; ribosome, large subunit 99.89
2j01_6_54 50S ribosomal protein L33; ribosome, tRNA, paromom 99.88
2ftc_P_52 Mitochondrial ribosomal protein L33 isoform A, mit 99.84
3bbo_3_66 Ribosomal protein L33; large ribosomal subunit, sp 99.83
2zkr_4_106 60S ribosomal protein L44E; protein-RNA complex, 6 91.95
1vq8_3_92 50S ribosomal protein L44E; ribosome 50S, protein- 91.4
>3i1n_1 (1:) 50S ribosomal protein L33; ribosome structure, protein-RNA complex, acetylation, ribonucleoprotein, ribosomal protein, RNA-binding, rRNA- binding, methylation; 3.19A {Escherichia coli k-12} PDB: 1vs8_1 1vs6_1 3i1p_1 3i1r_1 3i1t_1 3i20_1 3i22_1 2qam_1* 1p85_1 1p86_1 2awb_1 2aw4_1 2i2v_1 2j28_1 2i2t_1* 2qao_1* 2qba_1* 2qbc_1* 2qbe_1 2qbg_1 ... Back     alignment and structure
Probab=99.91  E-value=1.7e-25  Score=153.54  Aligned_cols=55  Identities=60%  Similarity=0.860  Sum_probs=54.4

Q ss_pred             CCCCCEEEEEEEECCCCCCEEEEECCCCCCCCEEEEEECCCCCCCEEEEEEEEEC
Q ss_conf             9877626999995177887598354889983336994131744634466886509
Q gi|254780475|r    1 MAKAATIKIKLISSAGTGSFYVTKKNSRTMSGKMVKNKYDPVIRKHVEFKEGKIK   55 (55)
Q Consensus         1 MaK~~r~~I~L~st~~tg~~Y~T~knk~~~~~klel~Ky~p~~~kHvl~~E~KiK   55 (55)
                      |||+.|++|+|+|++|+++||+|+||++++||||||+||||+|++||+|+|+|||
T Consensus         1 Mak~~r~~i~L~ct~c~~~nY~T~KN~~~~~~rLel~Kycp~~~khtlhkE~Kik   55 (55)
T 3i1n_1            1 MAKGIREKIKLVSSAGTGHFYTTTKNKRTKPEKLELKKFDPVVRQHVIYKEAKIK   55 (55)
T ss_dssp             ---CCCBCCCEEESSSSCCEECCCBCSSSCCSCCCEEEEETTTTEEEEEECCC--
T ss_pred             CCCCCCCEEEEEEECCCCEEEEECCCCCCCCHHEEEECCCCCCCCEEEEEEEECC
T ss_conf             9976551699998288881797647888994144897418787856608876529
>2zjr_1 (1:) 50S ribosomal protein L33; ribosome, large ribosomal subunit, ribonucleoprotein, RNA-binding, rRNA-binding, tRNA-binding, methylation; 2.91A {Deinococcus radiodurans} Back     alignment and structure
>1nkw_1 (1:) 50S ribosomal protein L33; ribosome, large subunit, X- RAY structure, peptidyl-transferase, peptide bond formation; 3.10A {Deinococcus radiodurans} Back     alignment and structure
>2j01_6 (6:) 50S ribosomal protein L33; ribosome, tRNA, paromomycin, mRNA, translation; 2.8A {Thermus thermophilus} Back     alignment and structure
>2ftc_P (P:) Mitochondrial ribosomal protein L33 isoform A, mitochondrial 39S ribosomal protein L27; mitochondrial ribosome, large ribosomal subunit, ribosomal RNA; 12.10A {Bos taurus} PDB: 3iy9_P Back     alignment and structure
>3bbo_3 (3:) Ribosomal protein L33; large ribosomal subunit, spinach chloroplast ribosome, ribonucleoprotein particle, macromolecular complex; 9.40A {Spinacea oleracea} Back     alignment and structure
>2zkr_4 (4:) 60S ribosomal protein L44E; protein-RNA complex, 60S ribosomal subunit, ribosomal protein/RNA complex; 8.70A {Canis familiaris} Back     alignment and structure
>1vq8_3 (3:) 50S ribosomal protein L44E; ribosome 50S, protein-protein complex, RNA-RNA complex, protein-RNA complex, peptidyl transferase reaction; HET: 1MA OMU OMG UR3 PSU SPS; 2.20A {Haloarcula marismortui} Back     alignment and structure