254780243

254780243

50S ribosomal protein L30

GeneID in NCBI database:8209224Locus tag:CLIBASIA_00640
Protein GI in NCBI database:254780243Protein Accession:YP_003064656.1
Gene range:-(134361, 134555)Protein Length:64aa
Gene description:50S ribosomal protein L30
COG prediction:[J] Ribosomal protein L30/L7E
KEGG prediction:rpmD; 50S ribosomal protein L30; K02907 large subunit ribosomal protein L30
SEED prediction:LSU ribosomal protein L30p (L7e)
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--------60----
MSSSLKMQKITVQQIGSPIRRPSVQRKVLIGLGLNKMNRCRVLDDTPSVRGMISTVHHLVRIVE
ccccccccEEEEEEEEccccccHHHHHHHHHHcccccccEEEEcccHHHHHHHHHHHHHEEEEc
ccccccccEEEEEEccccccccHHHHHHHHHHcccccccEEEEcccHHHHHHHHHccccEEEcc
MSSSLKMQKITVQqigspirrpsvQRKVLIglglnkmnrcrvlddtpsvrgmISTVHHLVRIVE
mssslkmqKITVqqigspirrpsvQRKVLiglglnkmnrcrvlddtpsvrgmistvhhlvrive
MSSSLKMQKITVQQIGSPIRRPSVQRKVLIGLGLNKMNRCRVLDDTPSVRGMISTVHHLVRIVE
************QQIGSPIRRPSVQRKVLIGLGLNKMNRCRVLDDTPSVRGMISTVHHLVRIVE
MSSSLKMQKITVQQIGSPIRRPSVQRKVLIGLGLNKMNRCRVLDDTPSVRGMISTVHHLVRIVE
*****KMQKITVQQIGSPIRRPSVQRKVLIGLGLNKMNRCRVLDDTPSVRGMISTVHHLVRIVE
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iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhoooo
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MSSSLKMQKITVQQIGSPIRRPSVQRKVLIGLGLNKMNRCRVLDDTPSVRGMISTVHHLVRIVE
MSSSLKMQKITVQQIGSPIRRPSVQRKVLIGLGLNKMNRCRVLDDTPSVRGMISTVHHLVRIVE
MSSSLKMQKITVQQIGSPIRRPSVQRKVLIGLGLNKMNRCRVLDDTPSVRGMISTVHHLVRIVE

Close Homologs Detected by BLAST or PSI-BLAST

Homolog within the Genome Detected by BLAST

No hits with e-value below 0.05

Close Homologs Detected BLAST or PSI-BLAST in the First 2 Iterations

IdentityAlignment graphLength Definition Round E-value
Target64 50S ribosomal protein L30 [Candidatus Liberibacter asia
31512280064 50S ribosomal protein L30 [Candidatus Liberibacter sola 1 6e-21
22214838467 50S ribosomal protein L30 [Agrobacterium vitis S4] Leng 1 2e-17
16376081866 ribosomal protein L30 [Hoeflea phototrophica DFL-43] Le 1 7e-17
1596512767 50S ribosomal protein L30 [Sinorhizobium meliloti 1021] 1 3e-16
15918541468 50S ribosomal protein L30 [Agrobacterium tumefaciens st 1 5e-16
8905310061 50S ribosomal protein L30 [Jannaschia sp. CCS1] Length 1 9e-16
8449982761 ribosomal protein L30 [Oceanicola batsensis HTCC2597] L 1 1e-15
1347056965 50S ribosomal protein L30 [Mesorhizobium loti MAFF30309 1 2e-15
8635732369 50S ribosomal protein L30 [Rhizobium etli CFN 42] Lengt 1 3e-15
11063401266 50S ribosomal protein L30 [Mesorhizobium sp. BNC1] Leng 1 3e-15
>gi|315122800|ref|YP_004063289.1| 50S ribosomal protein L30 [Candidatus Liberibacter solanacearum CLso-ZC1] Length = 64 Back     alignment and organism information
 Score =  103 bits (258), Expect = 6e-21,   Method: Compositional matrix adjust.
 Identities = 49/64 (76%), Positives = 59/64 (92%)

Query: 1  MSSSLKMQKITVQQIGSPIRRPSVQRKVLIGLGLNKMNRCRVLDDTPSVRGMISTVHHLV 60
          M+ S +++KITV+Q+GSPIRRPSVQR++L+GLGLNKMNRCRVL+DTPSVRGMI  V HLV
Sbjct: 1  MALSSEVKKITVKQVGSPIRRPSVQRRILVGLGLNKMNRCRVLEDTPSVRGMIHAVRHLV 60

Query: 61 RIVE 64
          RIVE
Sbjct: 61 RIVE 64


Species: Candidatus Liberibacter solanacearum
Genus: Candidatus Liberibacter
Family: Rhizobiaceae
Order: Rhizobiales
Class: Alphaproteobacteria
Phylum: Proteobacteria
Superkingdom: Bacteria
>gi|222148384|ref|YP_002549341.1| 50S ribosomal protein L30 [Agrobacterium vitis S4] Length = 67 Back     alignment and organism information
>gi|163760818|ref|ZP_02167897.1| ribosomal protein L30 [Hoeflea phototrophica DFL-43] Length = 66 Back     alignment and organism information
>gi|15965127|ref|NP_385480.1| 50S ribosomal protein L30 [Sinorhizobium meliloti 1021] Length = 67 Back     alignment and organism information
>gi|159185414|ref|NP_354906.2| 50S ribosomal protein L30 [Agrobacterium tumefaciens str. C58] Length = 68 Back     alignment and organism information
>gi|89053100|ref|YP_508551.1| 50S ribosomal protein L30 [Jannaschia sp. CCS1] Length = 61 Back     alignment and organism information
>gi|84499827|ref|ZP_00998115.1| ribosomal protein L30 [Oceanicola batsensis HTCC2597] Length = 61 Back     alignment and organism information
>gi|13470569|ref|NP_102138.1| 50S ribosomal protein L30 [Mesorhizobium loti MAFF303099] Length = 65 Back     alignment and organism information
>gi|86357323|ref|YP_469215.1| 50S ribosomal protein L30 [Rhizobium etli CFN 42] Length = 69 Back     alignment and organism information
>gi|110634012|ref|YP_674220.1| 50S ribosomal protein L30 [Mesorhizobium sp. BNC1] Length = 66 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

IdentityAlignment graphLength Definition E-value
Target64 50S ribosomal protein L30 [Candidatus Liberibacter asia
PRK0561159 PRK05611, rpmD, 50S ribosomal protein L30; Reviewed 2e-17
TIGR0130855 TIGR01308, rpmD_bact, ribosomal protein L30, bacterial/ 8e-12
COG184155 COG1841, RpmD, Ribosomal protein L30/L7E [Translation, 1e-10
cd0035553 cd00355, Ribosomal_L30_like, Ribosomal protein L30, whi 5e-10
pfam0032752 pfam00327, Ribosomal_L30, Ribosomal protein L30p/L7e 7e-10
PRK06049154 PRK06049, rpl30p, 50S ribosomal protein L30P; Reviewed 0.003
cd0165854 cd01658, Ribosomal_L30, Ribosomal protein L30, which is 2e-12
>gnl|CDD|180163 PRK05611, rpmD, 50S ribosomal protein L30; Reviewed Back     alignment and domain information
>gnl|CDD|130375 TIGR01308, rpmD_bact, ribosomal protein L30, bacterial/organelle Back     alignment and domain information
>gnl|CDD|32026 COG1841, RpmD, Ribosomal protein L30/L7E [Translation, ribosomal structure and biogenesis] Back     alignment and domain information
>gnl|CDD|100098 cd00355, Ribosomal_L30_like, Ribosomal protein L30, which is found in eukaryotes and prokaryotes but not in archaea, is one of the smallest ribosomal proteins with a molecular mass of about 7kDa Back     alignment and domain information
>gnl|CDD|144060 pfam00327, Ribosomal_L30, Ribosomal protein L30p/L7e Back     alignment and domain information
>gnl|CDD|180369 PRK06049, rpl30p, 50S ribosomal protein L30P; Reviewed Back     alignment and domain information
>gnl|CDD|100100 cd01658, Ribosomal_L30, Ribosomal protein L30, which is found in eukaryotes and prokaryotes but not in archaea, is one of the smallest ribosomal proteins with a molecular mass of about 7kDa Back     alignment and domain information

Conserved Domains in CDD Database Detected by HHsearch

IdentityAlignment graphLength Definition Probability
Target 64 50S ribosomal protein L30 [Candidatus Liberibacter asia
PRK0561158 rpmD 50S ribosomal protein L30; Reviewed 99.92
TIGR0130855 rpmD_bact ribosomal protein L30; InterPro: IPR005996 Ri 99.91
cd0165854 Ribosomal_L30 Ribosomal protein L30, which is found in 99.88
COG184155 RpmD Ribosomal protein L30/L7E [Translation, ribosomal 99.8
cd0035553 Ribosomal_L30_like Ribosomal protein L30, which is foun 99.76
pfam0032752 Ribosomal_L30 Ribosomal protein L30p/L7e. This family i 99.71
PRK06049155 rpl30p 50S ribosomal protein L30P; Reviewed 98.95
TIGR01309 160 L30P_arch ribosomal protein L30P; InterPro: IPR005997 R 98.93
KOG4799182 consensus 98.72
cd01657 159 Ribosomal_L7_archeal_euk Ribosomal protein L7, which is 98.68
TIGR01310 248 L7 60S ribosomal protein L7; InterPro: IPR005998 Riboso 95.51
>PRK05611 rpmD 50S ribosomal protein L30; Reviewed Back     alignment and domain information
>TIGR01308 rpmD_bact ribosomal protein L30; InterPro: IPR005996 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms Back     alignment and domain information
>cd01658 Ribosomal_L30 Ribosomal protein L30, which is found in eukaryotes and prokaryotes but not in archaea, is one of the smallest ribosomal proteins with a molecular mass of about 7kDa Back     alignment and domain information
>COG1841 RpmD Ribosomal protein L30/L7E [Translation, ribosomal structure and biogenesis] Back     alignment and domain information
>cd00355 Ribosomal_L30_like Ribosomal protein L30, which is found in eukaryotes and prokaryotes but not in archaea, is one of the smallest ribosomal proteins with a molecular mass of about 7kDa Back     alignment and domain information
>pfam00327 Ribosomal_L30 Ribosomal protein L30p/L7e Back     alignment and domain information
>PRK06049 rpl30p 50S ribosomal protein L30P; Reviewed Back     alignment and domain information
>TIGR01309 L30P_arch ribosomal protein L30P; InterPro: IPR005997 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms Back     alignment and domain information
>KOG4799 consensus Back     alignment and domain information
>cd01657 Ribosomal_L7_archeal_euk Ribosomal protein L7, which is found in archaea and eukaryotes but not in prokaryotes, binds domain II of the 23S rRNA as well as the 5S rRNA and is one of five ribosomal proteins that mediate the interactions 5S rRNA makes with the ribosome Back     alignment and domain information
>TIGR01310 L7 60S ribosomal protein L7; InterPro: IPR005998 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms 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

IdentityAlignment graphLength Definition E-value
Target64 50S ribosomal protein L30 [Candidatus Liberibacter asia
1vs6_Y59 Crystal Structure Of The Bacterial Ribosome From Es 3e-15
1p85_X58 Real Space Refined Coordinates Of The 50s Subunit F 4e-15
2gya_X56 Structure Of The 50s Subunit Of A Pre-Translocation 6e-15
1bxy_A60 Crystal Structure Of Ribosomal Protein L30 From The 8e-13
3mrz_Z59 Recognition Of The Amber Stop Codon By Release Fact 1e-12
1nkw_X55 Crystal Structure Of The Large Ribosomal Subunit Fr 1e-10
gi|116666593|pdb|1VS6|Y Chain Y, 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 = 59 Back     alignment and structure
 Score = 85.4 bits (211), Expect = 3e-15,   Method: Composition-based stats.
 Identities = 20/59 (33%), Positives = 33/59 (55%)

Query: 6  KMQKITVQQIGSPIRRPSVQRKVLIGLGLNKMNRCRVLDDTPSVRGMISTVHHLVRIVE 64
            + I + Q  S I R    +  L+GLGL ++      +DTP++RGMI+ V  +V++ E
Sbjct: 1  MAKTIKITQTRSAIGRLPKHKATLLGLGLRRIGHTVEREDTPAIRGMINAVSFMVKVEE 59


>gi|33357923|pdb|1P85|X Chain X, 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 = 58 Back     alignment and structure
>gi|116667456|pdb|2GYA|X Chain X, 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 = 56 Back     alignment and structure
gi|3891916|pdb|1BXY|A Chain A, Crystal Structure Of Ribosomal Protein L30 From Thermus Thermophilus At 1.9 A Resolution: Conformational Flexibility Of The Molecule. Length = 60 Back     alignment and structure
>gi|300508654|pdb|3MRZ|Z Chain Z, Recognition Of The Amber Stop Codon By Release Factor Rf1. This Entry 3mrz Contains 50s Ribosomal Subunit. The 30s Ribosomal Subunit Can Be Found In Pdb Entry 3ms0. Molecule A In The Same Asymmetric Unit Is Deposited As 3mr8 (50s) And 3ms1 (30s). Length = 59 Back     alignment and structure
gi|28948942|pdb|1NKW|X Chain X, Crystal Structure Of The Large Ribosomal Subunit From Deinococcus Radiodurans Length = 55 Back     alignment and structure

Homologous Structures in PDB70 Database Detected by RPS-BLAST

IdentityAlignment graphLength Definition E-value
Target64 50S ribosomal protein L30 [Candidatus Liberibacter asia
3ofq_Z58 50S ribosomal protein L30; protein biosynthesis, riboso 3e-14
1bxy_A60 Protein (ribosomal protein L30); X-RAY crystallography, 4e-14
3i1n_Z59 50S ribosomal protein L30; ribosome structure, protein- 2e-13
2zjr_W55 50S ribosomal protein L30; ribosome, large ribosomal su 5e-13
1vq8_W154 50S ribosomal protein L30P; ribosome 50S, protein-prote 4e-06
>3ofq_Z 50S ribosomal protein L30; protein biosynthesis, ribosomes, RNA, tRNA, transfer, antibi EXIT, peptidyl, ribosomal subunit, large; 3.10A {Escherichia coli} PDB: 1p85_X 1p86_X 2awb_Y 2aw4_Y 2i2v_Z 2j28_Y 2i2t_Z* 2qao_Y* 2qba_Y* 2qbc_Y* 2qbe_Y 2qbg_Y 2qbi_Y* 2qbk_Y* 2qov_Y 2qox_Y 2qoz_Y* 2qp1_Y* 2rdo_Y 2vhm_Y ... Length = 58 Back     alignment and structure
 Score = 72.2 bits (178), Expect = 3e-14
 Identities = 20/57 (35%), Positives = 33/57 (57%)

Query: 8  QKITVQQIGSPIRRPSVQRKVLIGLGLNKMNRCRVLDDTPSVRGMISTVHHLVRIVE 64
          + I + Q  S I R    +  L+GLGL ++      +DTP++RGMI+ V  +V++ E
Sbjct: 2  KTIKITQTRSAIGRLPKHKATLLGLGLRRIGHTVEREDTPAIRGMINAVSFMVKVEE 58


>1bxy_A Protein (ribosomal protein L30); X-RAY crystallography, conformational changes; 1.90A {Thermus thermophilus} SCOP: d.59.1.1 PDB: 1giy_X 1ml5_x* 1vsa_X 1vsp_X 1yl3_X 2b66_3 2b9n_3 2b9p_3 2hgj_2 2hgq_2 2hgu_2 2j01_3 2j03_3 2jl6_3 2jl8_3 2v47_3 2v49_3 2wdi_3 2wdj_3 2wdl_3 ... Length = 60 Back     alignment and structure
>3i1n_Z 50S ribosomal protein L30; ribosome structure, protein-RNA complex, acetylation, ribonucleoprotein, ribosomal protein, RNA-binding, rRNA- binding, methylation; 3.19A {Escherichia coli k-12} PDB: 1vs8_Y 3e1b_R 3e1d_R 1vs6_Y 3i1p_Z 3i1r_Z 3i1t_Z 3i20_Z 3i22_Z 2qam_Y* 1p85_X 1p86_X 2awb_Y 2aw4_Y 2i2v_Z 2j28_Y 2i2t_Z* 2qao_Y* 2qba_Y* 2qbc_Y* ... Length = 59 Back     alignment and structure
>2zjr_W 50S ribosomal protein L30; ribosome, large ribosomal subunit, ribonucleoprotein, RNA-binding, rRNA-binding, tRNA-binding, methylation; 2.91A {Deinococcus radiodurans} SCOP: d.59.1.1 PDB: 1nwx_X* 1nwy_X* 1pnu_X 1pny_X 1sm1_X* 1vor_Z 1vou_Z 1vow_Z 1voy_Z 1vp0_Z 1xbp_X* 2zjp_W* 2zjq_W 1nkw_X 3cf5_W* 3dll_W* Length = 55 Back     alignment and structure
>1vq8_W 50S ribosomal protein L30P; 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: d.59.1.1 PDB: 1jj2_V 1k73_X* 1k8a_X* 1k9m_X* 1kc8_X* 1kd1_X* 1kqs_V* 1m1k_X* 1m90_X* 1n8r_X* 1nji_X* 1q7y_X* 1q81_X* 1q82_X* 1q86_X* 1qvf_V 1qvg_V 1s72_W* 1vq4_W* 1vq5_W* ... Length = 154 Back     alignment and structure

Homologous Structures in PDB70 Database Detected by HHsearch

IdentityAlignment graphLength Definition Probability
Target64 50S ribosomal protein L30 [Candidatus Liberibacter asia
1bxy_A60 Protein (ribosomal protein L30); X-RAY crystallography, 99.9
2zjr_W55 50S ribosomal protein L30; ribosome, large ribosomal su 99.88
3ofq_Z58 50S ribosomal protein L30; protein biosynthesis, riboso 99.86
1vq8_W154 50S ribosomal protein L30P; ribosome 50S, protein-prote 99.62
2zkr_w 270 60S ribosomal protein L7; protein-RNA complex, 60S ribo 98.16
>1bxy_A Protein (ribosomal protein L30); X-RAY crystallography, conformational changes, ribosome; 1.90A {Thermus thermophilus} SCOP: d.59.1.1 PDB: 1giy_X 1ml5_x* 1vsa_X 1vsp_X 1yl3_X 2b66_3 2b9n_3 2b9p_3 2hgj_2 2hgq_2 2hgu_2 2j01_3 2j03_3 2jl6_3 2jl8_3 2v47_3 2v49_3 2wdi_3 2wdj_3 2wdl_3 ... Back     alignment and structure
Probab=99.90  E-value=4.7e-24  Score=148.30  Aligned_cols=58  Identities=41%  Similarity=0.714  Sum_probs=56.8

Q ss_pred             CCEEEEEEEECCCCCCHHHHHHHHHHCCCCCCCEEEECCCHHHHHHHHHHHHHEEEEC
Q ss_conf             2625999973368989899999998383467982898299789707986211147839
Q gi|254780243|r    7 MQKITVQQIGSPIRRPSVQRKVLIGLGLNKMNRCRVLDDTPSVRGMISTVHHLVRIVE   64 (64)
Q Consensus         7 ~~~ikItlvkS~iG~~~~~r~tl~~LGL~k~~~~v~~~dtP~irGmi~kV~hLV~VeE   64 (64)
                      |++++|||+||.||+|++|++|+++|||+|+|++++++|||+++|||++|+|||+|||
T Consensus         1 MaklkIt~vrS~ig~~~~~k~tl~~LGL~k~~~~v~~~dtp~irGmi~kVkhLV~vee   58 (60)
T 1bxy_A            1 MPRLKVKLVKSPIGYPKDQKAALKALGLRRLQQERVLEDTPAIRGNVEKVAHLVRVEV   58 (60)
T ss_dssp             CCEEEEEECSCCTTCCHHHHHHHHHHTCCSTTCEEEEECCHHHHHHHHHTTTTEEEEE
T ss_pred             CCCEEEEEECCCCCCCHHHHHHHHHCCCCCCCCEEEECCCHHHHHHHHHHHHEEEEEE
T ss_conf             9967999945889989899999998199979998996699889889985343379997



>2zjr_W 50S ribosomal protein L30; ribosome, large ribosomal subunit, ribonucleoprotein, RNA-binding, rRNA-binding, tRNA-binding, methylation; 2.91A {Deinococcus radiodurans} SCOP: d.59.1.1 PDB: 1nwx_X* 1nwy_X* 1pnu_X 1pny_X 1sm1_X* 1vor_Z 1vou_Z 1vow_Z 1voy_Z 1vp0_Z 1xbp_X* 2zjp_W* 2zjq_W 1nkw_X 3cf5_W* 3dll_W* Back     alignment and structure
>3ofq_Z 50S ribosomal protein L30; protein biosynthesis, ribosomes, RNA, tRNA, transfer, antibi EXIT, peptidyl, ribosomal subunit, large; 3.10A {Escherichia coli} PDB: 1p85_X 1p86_X 2awb_Y 2aw4_Y 2i2v_Z 2j28_Y 2i2t_Z* 2qao_Y* 2qba_Y* 2qbc_Y* 2qbe_Y 2qbg_Y 2qbi_Y* 2qbk_Y* 2qov_Y 2qox_Y 2qoz_Y* 2qp1_Y* 2rdo_Y 2vhm_Y ... Back     alignment and structure
>1vq8_W 50S ribosomal protein L30P; 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: d.59.1.1 PDB: 1jj2_V 1k73_X* 1k8a_X* 1k9m_X* 1kc8_X* 1kd1_X* 1kqs_V* 1m1k_X* 1m90_X* 1n8r_X* 1nji_X* 1q7y_X* 1q81_X* 1q82_X* 1q86_X* 1qvf_V 1qvg_V 1s72_W* 1vq4_W* 1vq5_W* ... Back     alignment and structure
>2zkr_w 60S ribosomal protein L7; protein-RNA complex, 60S ribosomal subunit, ribosomal protein/RNA complex; 8.70A {Canis familiaris} 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

IdentityAlignment graphLength Definition E-value
Target 64 50S ribosomal protein L30 [Candidatus Liberibacter asia
d1bxya_60 d.59.1.1 (A:) Prokaryotic ribosomal protein L30 {Thermu 2e-14
d2gycx156 d.59.1.1 (X:3-58) Prokaryotic ribosomal protein L30 {Es 2e-13
d2zjrw155 d.59.1.1 (W:1-55) Prokaryotic ribosomal protein L30 {De 3e-13
d1vqow1154 d.59.1.1 (W:1-154) Archaeal L30 (L30a) {Archaeon Haloar 3e-10
>d1bxya_ d.59.1.1 (A:) Prokaryotic ribosomal protein L30 {Thermus thermophilus [TaxId: 274]} Length = 60 Back     information, alignment and structure

class: Alpha and beta proteins (a+b)
fold: Ribosomal protein L30p/L7e
superfamily: Ribosomal protein L30p/L7e
family: Ribosomal protein L30p/L7e
domain: Prokaryotic ribosomal protein L30
species: Thermus thermophilus [TaxId: 274]
 Score = 71.5 bits (176), Expect = 2e-14
 Identities = 24/58 (41%), Positives = 37/58 (63%)

Query: 7  MQKITVQQIGSPIRRPSVQRKVLIGLGLNKMNRCRVLDDTPSVRGMISTVHHLVRIVE 64
          M ++ V+ + SPI  P  Q+  L  LGL ++ + RVL+DTP++RG +  V HLVR+  
Sbjct: 1  MPRLKVKLVKSPIGYPKDQKAALKALGLRRLQQERVLEDTPAIRGNVEKVAHLVRVEV 58


>d2gycx1 d.59.1.1 (X:3-58) Prokaryotic ribosomal protein L30 {Escherichia coli [TaxId: 562]} Length = 56 Back     information, alignment and structure
>d2zjrw1 d.59.1.1 (W:1-55) Prokaryotic ribosomal protein L30 {Deinococcus radiodurans [TaxId: 1299]} Length = 55 Back     information, alignment and structure
>d1vqow1 d.59.1.1 (W:1-154) Archaeal L30 (L30a) {Archaeon Haloarcula marismortui [TaxId: 2238]} Length = 154 Back     information, alignment and structure

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

IdentityAlignment graphLength Definition Probability
Target64 50S ribosomal protein L30 [Candidatus Liberibacter asia
d1bxya_60 Prokaryotic ribosomal protein L30 {Thermus thermophilus 99.9
d2zjrw155 Prokaryotic ribosomal protein L30 {Deinococcus radiodur 99.89
d2gycx156 Prokaryotic ribosomal protein L30 {Escherichia coli [Ta 99.88
d1vqow1154 Archaeal L30 (L30a) {Archaeon Haloarcula marismortui [T 99.5
>d1bxya_ d.59.1.1 (A:) Prokaryotic ribosomal protein L30 {Thermus thermophilus [TaxId: 274]} Back     information, alignment and structure
class: Alpha and beta proteins (a+b)
fold: Ribosomal protein L30p/L7e
superfamily: Ribosomal protein L30p/L7e
family: Ribosomal protein L30p/L7e
domain: Prokaryotic ribosomal protein L30
species: Thermus thermophilus [TaxId: 274]
Probab=99.90  E-value=2.5e-24  Score=148.49  Aligned_cols=58  Identities=41%  Similarity=0.714  Sum_probs=56.9

Q ss_pred             CCEEEEEEEECCCCCCHHHHHHHHHHCCCCCCCEEEECCCHHHHHHHHHHHHHEEEEC
Q ss_conf             2625999973368989899999998383467982898299789707986211147839
Q gi|254780243|r    7 MQKITVQQIGSPIRRPSVQRKVLIGLGLNKMNRCRVLDDTPSVRGMISTVHHLVRIVE   64 (64)
Q Consensus         7 ~~~ikItlvkS~iG~~~~~r~tl~~LGL~k~~~~v~~~dtP~irGmi~kV~hLV~VeE   64 (64)
                      |++++|||+||.||+|++||+|+++|||+|+|++++++|||+++|||++|+|||+|||
T Consensus         1 MaklkIt~vrS~iG~~~~~k~tl~~LGL~k~~~~v~~~~tp~i~Gmi~kVkhLV~Vee   58 (60)
T d1bxya_           1 MPRLKVKLVKSPIGYPKDQKAALKALGLRRLQQERVLEDTPAIRGNVEKVAHLVRVEV   58 (60)
T ss_dssp             CCEEEEEECSCCTTCCHHHHHHHHHHTCCSTTCEEEEECCHHHHHHHHHTTTTEEEEE
T ss_pred             CCCEEEEEECCCCCCCHHHHHHHHHCCCCCCCCEEEECCCHHHHHHHHHHHHEEEEEE
T ss_conf             9967999935889999899999998199979998995799889889984112469997



>d2zjrw1 d.59.1.1 (W:1-55) Prokaryotic ribosomal protein L30 {Deinococcus radiodurans [TaxId: 1299]} Back     information, alignment and structure
>d2gycx1 d.59.1.1 (X:3-58) Prokaryotic ribosomal protein L30 {Escherichia coli [TaxId: 562]} Back     information, alignment and structure
>d1vqow1 d.59.1.1 (W:1-154) Archaeal L30 (L30a) {Archaeon Haloarcula marismortui [TaxId: 2238]} Back     information, alignment and structure

Homologous Domains in MMDB70 Database Detected by RPS-BLAST

IdentityAlignment graphLength Definition E-value
Target 64 50S ribosomal protein L30 [Candidatus Liberibacter
1bxy_A_60 (A:) Protein (ribosomal protein L30); X-RAY crysta 1e-13
2zjr_W_55 (W:) 50S ribosomal protein L30; ribosome, large ri 8e-13
3i1n_Z_59 (Z:) 50S ribosomal protein L30; ribosome structure 1e-12
1vq8_W_154 (W:) 50S ribosomal protein L30P; ribosome 50S, pro 6e-08
>1bxy_A (A:) Protein (ribosomal protein L30); X-RAY crystallography, conformational changes; 1.90A {Thermus thermophilus}Length = 60 Back     alignment and structure
 Score = 70.0 bits (172), Expect = 1e-13
 Identities = 24/58 (41%), Positives = 37/58 (63%)

Query: 7  MQKITVQQIGSPIRRPSVQRKVLIGLGLNKMNRCRVLDDTPSVRGMISTVHHLVRIVE 64
          M ++ V+ + SPI  P  Q+  L  LGL ++ + RVL+DTP++RG +  V HLVR+  
Sbjct: 1  MPRLKVKLVKSPIGYPKDQKAALKALGLRRLQQERVLEDTPAIRGNVEKVAHLVRVEV 58


>2zjr_W (W:) 50S ribosomal protein L30; ribosome, large ribosomal subunit, ribonucleoprotein, RNA-binding, rRNA-binding, tRNA-binding, methylation; 2.91A {Deinococcus radiodurans}Length = 55 Back     alignment and structure
>3i1n_Z (Z:) 50S ribosomal protein L30; ribosome structure, protein-RNA complex, acetylation, ribonucleoprotein, ribosomal protein, RNA-binding, rRNA- binding, methylation; 3.19A {Escherichia coli k-12} PDB: 1vs8_Y 3e1b_R 3e1d_R 1vs6_Y 3i1p_Z 3i1r_Z 3i1t_Z 3i20_Z 3i22_Z 2qam_Y* 1p85_X 1p86_X 2awb_Y 2aw4_Y 2i2v_Z 2j28_Y 2i2t_Z* 2qao_Y* 2qba_Y* 2qbc_Y* ...Length = 59 Back     alignment and structure
>1vq8_W (W:) 50S ribosomal protein L30P; 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}Length = 154 Back     alignment and structure

Homologous Domains in MMDB70 Database Detected by HHsearch

IdentityAlignment graphLength Definition Probability
Target64 50S ribosomal protein L30 [Candidatus Liberibacter asia
2zjr_W_55 50S ribosomal protein L30; ribosome, large ribosom 99.88
1bxy_A_60 Protein (ribosomal protein L30); X-RAY crystallogr 99.88
3i1n_Z_59 50S ribosomal protein L30; ribosome structure, pro 99.87
1vq8_W_154 50S ribosomal protein L30P; ribosome 50S, protein- 99.61
3jyw_F_20-213 194 60S ribosomal protein L7(A); eukaryotic ribosome, 98.27
2zkr_w_ 270 60S ribosomal protein L7; protein-RNA complex, 60S 98.05
>2zjr_W (W:) 50S ribosomal protein L30; ribosome, large ribosomal subunit, ribonucleoprotein, RNA-binding, rRNA-binding, tRNA-binding, methylation; 2.91A {Deinococcus radiodurans} Back     alignment and structure
Probab=99.88  E-value=2.5e-23  Score=145.21  Aligned_cols=55  Identities=42%  Similarity=0.690  Sum_probs=54.3

Q ss_pred             EEEEEEECCCCCCHHHHHHHHHHCCCCCCCEEEECCCHHHHHHHHHHHHHEEEEC
Q ss_conf             5999973368989899999998383467982898299789707986211147839
Q gi|254780243|r   10 ITVQQIGSPIRRPSVQRKVLIGLGLNKMNRCRVLDDTPSVRGMISTVHHLVRIVE   64 (64)
Q Consensus        10 ikItlvkS~iG~~~~~r~tl~~LGL~k~~~~v~~~dtP~irGmi~kV~hLV~VeE   64 (64)
                      ++|||+||+||+|++|++|+++|||+|+|++|+++|||++||||++|+|||+|||
T Consensus         1 lkItlvrs~ig~~~~~~~tl~~LGL~k~~~~v~~~dtP~irGmi~kVkhLV~VeE   55 (55)
T 2zjr_W            1 MKIKLVRSVIGRPGNQVKTVQALGLRKIGDSREVSDTPAVRGMVKTVKHLLEVQE   55 (55)
T ss_dssp             CEEEBCSCSTTSCHHHHHHHHHTTCCSTTCEEECCCSHHHHHHHHHTGGGBCCCC
T ss_pred             CEEEEECCCCCCCHHHHHHHHHHCCCCCCCEEEECCCHHHHHHHHHHHHEEEEEC
T ss_conf             9499974889999899999999299979998895799789889985143169859



>1bxy_A (A:) Protein (ribosomal protein L30); X-RAY crystallography, conformational changes; 1.90A {Thermus thermophilus} Back     alignment and structure
>3i1n_Z (Z:) 50S ribosomal protein L30; ribosome structure, protein-RNA complex, acetylation, ribonucleoprotein, ribosomal protein, RNA-binding, rRNA- binding, methylation; 3.19A {Escherichia coli k-12} PDB: 1vs8_Y 3e1b_R 3e1d_R 1vs6_Y 3i1p_Z 3i1r_Z 3i1t_Z 3i20_Z 3i22_Z 2qam_Y* 1p85_X 1p86_X 2awb_Y 2aw4_Y 2i2v_Z 2j28_Y 2i2t_Z* 2qao_Y* 2qba_Y* 2qbc_Y* ... Back     alignment and structure
>1vq8_W (W:) 50S ribosomal protein L30P; 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
>3jyw_F (F:20-213) 60S ribosomal protein L7(A); eukaryotic ribosome, RACK1 protein, flexible fitting; 8.90A {Thermomyces lanuginosus} PDB: 1s1i_F Back     alignment and structure
>2zkr_w (w:) 60S ribosomal protein L7; protein-RNA complex, 60S ribosomal subunit, ribosomal protein/RNA complex; 8.70A {Canis familiaris} Back     alignment and structure