peg_42

peg_42

GeneID in NCBI database:Locus tag:
Protein GI in NCBI database:not defined in NCBI databaseProtein Accession:
Gene range:+(41389, 41523)Protein Length:44aa
Gene description:
COG prediction:none
KEGG prediction:not defined in KEGG
SEED prediction:hypothetical protein
Pathway involved in KEGG:not defined
Subsystem involved in SEED:- none -
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----
VLIVKVRNSLRVLKLRHRGNKVVRRKNVIRIVNKLNPRFKVRQG
cEEEEEHHHHHHHHHcccccEEEEEcccEEEEEccccHHHHccc
ccEEEEcccHEEEEEEcccccEEEEHHEEEEEHcccccEEEccc
VLIVKVRNSLRVLKLrhrgnkvvrrkNVIRIVNKLnprfkvrqg
vlivkvrnslrvlklrhrgnkvvrrknvirivnklnprfkvrqg
VLIVKVRNSLRVLKLRHRGnkvvrrknvirivnkLNPRFKVRQG
VLI****************NKVVRRKNVIRIVNKLNPR******
VLIVKVRNSLRVLKLRHRGNKVVRRKNVIRIVNKLNPRFKVRQG
VLIVKVRNSLRVLKLRHRGNKVVRRKNVIRIVNKLNPRFKVR**
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VLIVKVRNSLRVLKLRHRGNKVVRRKNVIRIVNKLNPRFKVRQG
VLIVKVRNSLRVLKLRHRGNKVVRRKNVIRIVNKLNPRFKVRQG
VLIVKVRNSLRVLKLRHRGNKVVRRKNVIRIVNKLNPRFKVRQG

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
Target44
20955085241 50S ribosomal protein L36 [Rhizobium leguminosarum bv. 1 2e-06
22208703941 ribosomal protein L36 [Agrobacterium radiobacter K84] L 1 3e-06
8635912441 50S ribosomal protein L36 [Rhizobium etli CFN 42] Lengt 1 3e-06
1596654041 50S ribosomal protein L36 [Sinorhizobium meliloti 1021] 1 4e-06
30439343441 conserved domain protein [Ahrensia sp. R2A130] Length = 1 5e-06
11938281241 ribosomal protein L36 [Paracoccus denitrificans PD1222] 1 6e-06
11470553841 50S ribosomal protein L36 [Fulvimarina pelagi HTCC2506] 1 8e-06
15918636741 50S ribosomal protein L36 [Agrobacterium tumefaciens st 1 9e-06
11063558741 50S ribosomal protein L36P [Mesorhizobium sp. BNC1] Len 1 9e-06
31549855841 ribosomal protein l36 [Asticcacaulis excentricus CB 48] 1 1e-05
>gi|209550852|ref|YP_002282769.1| 50S ribosomal protein L36 [Rhizobium leguminosarum bv. trifolii WSM2304] Length = 41 Back     alignment and organism information
 Score = 55.8 bits (133), Expect = 2e-06,   Method: Compositional matrix adjust.
 Identities = 27/41 (65%), Positives = 34/41 (82%)

Query: 4  VKVRNSLRVLKLRHRGNKVVRRKNVIRIVNKLNPRFKVRQG 44
          +K++NSL+ LK RHR N++VRRK  I I+NKLNPRFK RQG
Sbjct: 1  MKIKNSLKSLKARHRDNRLVRRKGRIYIINKLNPRFKARQG 41


Species: Rhizobium leguminosarum
Genus: Rhizobium
Family: Rhizobiaceae
Order: Rhizobiales
Class: Alphaproteobacteria
Phylum: Proteobacteria
Superkingdom: Bacteria
>gi|222087039|ref|YP_002545574.1| ribosomal protein L36 [Agrobacterium radiobacter K84] Length = 41 Back     alignment and organism information
>gi|86359124|ref|YP_471016.1| 50S ribosomal protein L36 [Rhizobium etli CFN 42] Length = 41 Back     alignment and organism information
>gi|15966540|ref|NP_386893.1| 50S ribosomal protein L36 [Sinorhizobium meliloti 1021] Length = 41 Back     alignment and organism information
>gi|304393434|ref|ZP_07375362.1| conserved domain protein [Ahrensia sp. R2A130] Length = 41 Back     alignment and organism information
>gi|119382812|ref|YP_913868.1| ribosomal protein L36 [Paracoccus denitrificans PD1222] Length = 41 Back     alignment and organism information
>gi|114705538|ref|ZP_01438441.1| 50S ribosomal protein L36 [Fulvimarina pelagi HTCC2506] Length = 41 Back     alignment and organism information
>gi|159186367|ref|YP_001542598.1| 50S ribosomal protein L36 [Agrobacterium tumefaciens str. C58] Length = 41 Back     alignment and organism information
>gi|110635587|ref|YP_675795.1| 50S ribosomal protein L36P [Mesorhizobium sp. BNC1] Length = 41 Back     alignment and organism information
>gi|315498558|ref|YP_004087362.1| ribosomal protein l36 [Asticcacaulis excentricus CB 48] Length = 41 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
Target44
PRK0083141 PRK00831, rpmJ, 50S ribosomal protein L36; Validated 1e-04
>gnl|CDD|179138 PRK00831, rpmJ, 50S ribosomal protein L36; Validated Back     alignment and domain information

Conserved Domains in CDD Database Detected by HHsearch

IdentityAlignment graphLength Definition Probability
Target 44
PRK0083141 rpmJ 50S ribosomal protein L36; Validated 99.88
pfam0044438 Ribosomal_L36 Ribosomal protein L36. 99.76
COG025738 RpmJ Ribosomal protein L36 [Translation, ribosomal stru 99.74
KOG412238 consensus 99.74
PRK0046537 rpmJ 50S ribosomal protein L36; Reviewed 99.69
TIGR0102237 rpmJ_bact ribosomal protein L36; InterPro: IPR000473 Ri 98.67
CHL0002926 rpl36 ribosomal protein L36 97.47
>PRK00831 rpmJ 50S ribosomal protein L36; Validated Back     alignment and domain information
>pfam00444 Ribosomal_L36 Ribosomal protein L36 Back     alignment and domain information
>COG0257 RpmJ Ribosomal protein L36 [Translation, ribosomal structure and biogenesis] Back     alignment and domain information
>KOG4122 consensus Back     alignment and domain information
>PRK00465 rpmJ 50S ribosomal protein L36; Reviewed Back     alignment and domain information
>TIGR01022 rpmJ_bact ribosomal protein L36; InterPro: IPR000473 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms Back     alignment and domain information
>CHL00029 rpl36 ribosomal protein L36 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
Target44
3bbo_6104 Homology Model For The Spinach Chloroplast 50s Subu 6e-10
>gi|189096154|pdb|3BBO|6 Chain 6, Homology Model For The Spinach Chloroplast 50s Subunit Fitted To 9.4a Cryo-Em Map Of The 70s Chlororibosome Length = 104 Back     alignment and structure
 Score = 67.5 bits (164), Expect = 6e-10,   Method: Composition-based stats.
 Identities = 13/41 (31%), Positives = 24/41 (58%), Gaps = 3/41 (7%)

Query: 4  VKVRNSLRVLKLRHRGNKVVRRKNVIRIVNKLNPRFKVRQG 44
          +KVR+S++ +       K V+R+  + ++   NP+ K RQG
Sbjct: 1  MKVRSSVKKMCEF---CKTVKRRGRVYVICSSNPKHKQRQG 38


Homologous Structures in PDB70 Database Detected by RPS-BLAST

IdentityAlignment graphLength Definition E-value
Target44
3bbo_6104 Ribosomal protein L36; large ribosomal subunit, spinach 2e-06
>3bbo_6 Ribosomal protein L36; large ribosomal subunit, spinach chloroplast ribosome, ribonucleoprotein particle, macromolecular complex; 9.40A {Arabidopsis thaliana} SCOP: i.1.1.1 PDB: 1p85_4 1p86_4 1vs6_4 1vs8_4 2aw4_4 2awb_4 2i2t_4 2i2v_4 2j28_4 2qam_4* 2qao_4* 2qba_4* 2qbc_4* 2qbe_4 2qbg_4 2qbi_4* 2qbk_4* 2qov_4 2qox_4 2qoz_4* ... Length = 104 Back     alignment and structure
 Score = 46.1 bits (109), Expect = 2e-06
 Identities = 14/40 (35%), Positives = 22/40 (55%), Gaps = 3/40 (7%)

Query: 5  KVRNSLRVLKLRHRGNKVVRRKNVIRIVNKLNPRFKVRQG 44
          KVR+S+   K      K V+R+  + ++   NP+ K RQG
Sbjct: 2  KVRSSV---KKMCEFCKTVKRRGRVYVICSSNPKHKQRQG 38


Homologous Structures in PDB70 Database Detected by HHsearch

IdentityAlignment graphLength Definition Probability
Target44
3bbo_6104 Ribosomal protein L36; large ribosomal subunit, spinach 99.79
3ofq_438 50S ribosomal protein L36; protein biosynthesis, riboso 99.73
2zjr_437 50S ribosomal protein L36; ribosome, large ribosomal su 99.68
>3bbo_6 Ribosomal protein L36; large ribosomal subunit, spinach chloroplast ribosome, ribonucleoprotein particle, macromolecular complex; 9.40A {Arabidopsis thaliana} SCOP: i.1.1.1 Back     alignment and structure
Probab=99.79  E-value=3.5e-21  Score=126.35  Aligned_cols=38  Identities=34%  Similarity=0.507  Sum_probs=36.2

Q ss_pred             EEEHHHHHHHHHCCCCCEEEEECCEEEEEECCCCCHHHCCC
Q ss_conf             97458899885016787099988889999877975232079
Q 537021.9.peg.4    4 VKVRNSLRVLKLRHRGNKVVRRKNVIRIVNKLNPRFKVRQG   44 (44)
Q Consensus         4 MKvr~Slk~lk~r~~~c~~VrRkGrvyVick~nPrhK~RQG   44 (44)
                      |||++|||+   ||++|++|||+||+|||||+|||||||||
T Consensus         1 MKVrsSvKk---rC~~C~vVRR~GrvyViCk~nPRHKQRQG   38 (104)
T 3bbo_6            1 MKVRSSVKK---MCEFCKTVKRRGRVYVICSSNPKHKQRQG   38 (104)
T ss_dssp             CBCCSCCCC---CSTTBCCEEETTEEEBCBSSCGGGCBCCC
T ss_pred             CCCCHHHHH---HCCCCEEEEECCEEEEEECCCCCHHHHCC
T ss_conf             971056675---06687399878989998189974543247



>3ofq_4 50S ribosomal protein L36; protein biosynthesis, ribosomes, RNA, tRNA, transfer, antibi EXIT, peptidyl, ribosomal subunit, large; 3.10A {Escherichia coli} PDB: 1p85_4 1p86_4 1vs8_4 1vs6_4 2aw4_4 2awb_4 1vt2_4 2i2v_4 2j28_4 2i2t_4* 2qao_4* 2qba_4* 2qbc_4* 2qbe_4 2qbg_4 2qbi_4* 2qbk_4* 2qov_4 2qox_4 2qoz_4* ... Back     alignment and structure
>2zjr_4 50S ribosomal protein L36; ribosome, large ribosomal subunit, ribonucleoprotein, RNA-binding, rRNA-binding, tRNA-binding, methylation; 2.91A {Deinococcus radiodurans} SCOP: g.42.1.1 PDB: 1nwx_4* 1sm1_4* 1xbp_4* 2zjp_4* 2zjq_4 1nwy_4 3cf5_4* 3dll_4* 1nkw_4 1yl3_9 2b66_9 2b9n_9 2b9p_9 1pnu_4 1pny_4 1vor_6 1vou_6 1vow_6 1voy_6 1vp0_6 ... 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

No hit with e-value below 0.005

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

IdentityAlignment graphLength Definition Probability
Target44
d2qam4138 Ribosomal protein L36 {Escherichia coli [TaxId: 562]} 99.72
d2zjr4137 Ribosomal protein L36 {Deinococcus radiodurans [TaxId: 99.68
>d2qam41 g.42.1.1 (4:1-38) Ribosomal protein L36 {Escherichia coli [TaxId: 562]} Back     information, alignment and structure
class: Small proteins
fold: Ribosomal protein L36
superfamily: Ribosomal protein L36
family: Ribosomal protein L36
domain: Ribosomal protein L36
species: Escherichia coli [TaxId: 562]
Probab=99.72  E-value=1.8e-20  Score=121.65  Aligned_cols=38  Identities=42%  Similarity=0.681  Sum_probs=35.7

Q ss_pred             EEEHHHHHHHHHCCCCCEEEEECCEEEEEECCCCCHHHCCC
Q ss_conf             97458899885016787099988889999877975232079
Q 537021.9.peg.4    4 VKVRNSLRVLKLRHRGNKVVRRKNVIRIVNKLNPRFKVRQG   44 (44)
Q Consensus         4 MKvr~Slk~lk~r~~~c~~VrRkGrvyVick~nPrhK~RQG   44 (44)
                      |||++|||+   +|+||++|+|+|++||||++|||||||||
T Consensus         1 MKVr~svKk---~C~~C~ivrR~Grv~ViCk~nPrHKQRQG   38 (38)
T d2qam41           1 MKVRASVKK---LCRNCKIVKRDGVIRVICSAEPKHKQRQG   38 (38)
T ss_dssp             CCCCSCCCC---CSTTBCCCCBTTBCCCCBSSCGGGCCCCC
T ss_pred             CCCCHHHHH---HCCCCEEEEECCEEEEEECCCCCCCCCCC
T ss_conf             950212230---07897199856889999189985001278



>d2zjr41 g.42.1.1 (4:1-37) Ribosomal protein L36 {Deinococcus radiodurans [TaxId: 1299]} Back     information, alignment and structure

Homologous Domains in MMDB70 Database Detected by RPS-BLAST

IdentityAlignment graphLength Definition E-value
Target 44
3bbo_6_104 (6:) Ribosomal protein L36; large ribosomal subuni 2e-05
>3bbo_6 (6:) Ribosomal protein L36; large ribosomal subunit, spinach chloroplast ribosome, ribonucleoprotein particle, macromolecular complex; 9.40A {Arabidopsis thaliana}Length = 104 Back     alignment and structure
 Score = 42.5 bits (100), Expect = 2e-05
 Identities = 14/40 (35%), Positives = 22/40 (55%), Gaps = 3/40 (7%)

Query: 5  KVRNSLRVLKLRHRGNKVVRRKNVIRIVNKLNPRFKVRQG 44
          KVR+S+   K      K V+R+  + ++   NP+ K RQG
Sbjct: 2  KVRSSV---KKMCEFCKTVKRRGRVYVICSSNPKHKQRQG 38


Homologous Domains in MMDB70 Database Detected by HHsearch

IdentityAlignment graphLength Definition Probability
Target44
3bbo_6_104 Ribosomal protein L36; large ribosomal subunit, sp 99.77
3i1n_4_38 50S ribosomal protein L36; ribosome structure, pro 99.75
2zjr_4_37 50S ribosomal protein L36; ribosome, large ribosom 99.63
>3bbo_6 (6:) Ribosomal protein L36; large ribosomal subunit, spinach chloroplast ribosome, ribonucleoprotein particle, macromolecular complex; 9.40A {Arabidopsis thaliana} Back     alignment and structure
Probab=99.77  E-value=1.2e-20  Score=124.41  Aligned_cols=38  Identities=34%  Similarity=0.507  Sum_probs=36.0

Q ss_pred             EEEHHHHHHHHHCCCCCEEEEECCEEEEEECCCCCHHHCCC
Q ss_conf             97458899885016787099988889999877975232079
Q 537021.9.peg.4    4 VKVRNSLRVLKLRHRGNKVVRRKNVIRIVNKLNPRFKVRQG   44 (44)
Q Consensus         4 MKvr~Slk~lk~r~~~c~~VrRkGrvyVick~nPrhK~RQG   44 (44)
                      |||++|||+   ||+||++|||+||+|||||+|||||||||
T Consensus         1 MKVr~slKk---rc~~C~vVrR~Gr~yViCk~nPrhKqrQG   38 (104)
T 3bbo_6            1 MKVRSSVKK---MCEFCKTVKRRGRVYVICSSNPKHKQRQG   38 (104)
T ss_dssp             CBCCSCCCC---CSTTBCCEEETTEEEBCBSSCGGGCBCCC
T ss_pred             CCCHHHHHH---HCCCCEEEEECCEEEEEECCCCCHHHHCC
T ss_conf             971057775---26686399978999998089963543336



>3i1n_4 (4:) 50S ribosomal protein L36; ribosome structure, protein-RNA complex, acetylation, ribonucleoprotein, ribosomal protein, RNA-binding, rRNA- binding, methylation; 3.19A {Escherichia coli k-12} PDB: 1p85_4 1p86_4 1vs8_4 2aw4_4 2awb_4 1vs6_4 2i2v_4 2j28_4 2i2t_4* 2qao_4* 2qba_4* 2qbc_4* 2qbe_4 2qbg_4 2qbi_4* 2qbk_4* 2qov_4 2qox_4 2qoz_4* 2qp1_4* ... Back     alignment and structure
>2zjr_4 (4:) 50S ribosomal protein L36; ribosome, large ribosomal subunit, ribonucleoprotein, RNA-binding, rRNA-binding, tRNA-binding, methylation; 2.91A {Deinococcus radiodurans} Back     alignment and structure