254780584

 Score =  162 bits (411), Expect = 1e-38,   Method: Compositional matrix adjust.
 Identities = 82/97 (84%), Positives = 90/97 (92%)

Query: 1  MSRVCELTKKTVMSGNKVSHANNKTRRRFLPNLCRITLISDIMEQKYQLRISKCALRSVE 60
          MSRVCELT+KTVMSGNKVS +NNKT+RRFLPNLCRITLISDIM Q+YQLRISK ALRSVE
Sbjct: 1  MSRVCELTRKTVMSGNKVSRSNNKTKRRFLPNLCRITLISDIMGQQYQLRISKHALRSVE 60

Query: 61 RQGGLDRFLSNSKKENLSARMRTLRSQILKKMSEKSS 97
          RQGGLD+FL +SKKENLS R R LRSQI+KK+SEKSS
Sbjct: 61 RQGGLDQFLLHSKKENLSDRTRLLRSQIIKKISEKSS 97

Species: Candidatus Liberibacter solanacearum
Genus: Candidatus Liberibacter
Family: Rhizobiaceae
Order: Rhizobiales
Class: Alphaproteobacteria
Phylum: Proteobacteria
Superkingdom: Bacteria

 Score =  131 bits (330), Expect = 3e-29,   Method: Compositional matrix adjust.
 Identities = 61/97 (62%), Positives = 77/97 (79%)

Query: 1  MSRVCELTKKTVMSGNKVSHANNKTRRRFLPNLCRITLISDIMEQKYQLRISKCALRSVE 60
          MSRVCELT K V++GN VSHANNKT+RRFLPNLC++TLISD + Q+Y+LR+S  ALRSVE
Sbjct: 1  MSRVCELTGKAVLTGNNVSHANNKTKRRFLPNLCQVTLISDALNQRYRLRVSAAALRSVE 60

Query: 61 RQGGLDRFLSNSKKENLSARMRTLRSQILKKMSEKSS 97
           +GGLD FL  + +  LS R R LR QI+KK +E ++
Sbjct: 61 HRGGLDAFLIKASENELSMRARLLRRQIVKKTAEAAA 97

Species: Rhizobium etli
Genus: Rhizobium
Family: Rhizobiaceae
Order: Rhizobiales
Class: Alphaproteobacteria
Phylum: Proteobacteria
Superkingdom: Bacteria

 Score =  131 bits (329), Expect = 3e-29,   Method: Compositional matrix adjust.
 Identities = 64/96 (66%), Positives = 75/96 (78%)

Query: 1  MSRVCELTKKTVMSGNKVSHANNKTRRRFLPNLCRITLISDIMEQKYQLRISKCALRSVE 60
          MSRVCELT K VMSGN VSHANNKTRRRFLPNLC +TLISD + Q+Y+L++S  ALRSVE
Sbjct: 1  MSRVCELTGKGVMSGNNVSHANNKTRRRFLPNLCSVTLISDALGQRYRLKVSAHALRSVE 60

Query: 61 RQGGLDRFLSNSKKENLSARMRTLRSQILKKMSEKS 96
           +GGLD FL  S +  LS R R L+ QI KK++E S
Sbjct: 61 HRGGLDAFLLKSHENELSQRARLLKRQIAKKLAETS 96

Species: Fulvimarina pelagi
Genus: Fulvimarina
Family: Aurantimonadaceae
Order: Rhizobiales
Class: Alphaproteobacteria
Phylum: Proteobacteria
Superkingdom: Bacteria

 Score =  131 bits (329), Expect = 4e-29,   Method: Compositional matrix adjust.
 Identities = 61/96 (63%), Positives = 76/96 (79%)

Query: 1  MSRVCELTKKTVMSGNKVSHANNKTRRRFLPNLCRITLISDIMEQKYQLRISKCALRSVE 60
          MSRVCELT K V++GN VSHANNKT+RRFLPNLC++TLISD + Q+Y+LR+S  ALRSVE
Sbjct: 1  MSRVCELTGKAVLTGNNVSHANNKTKRRFLPNLCQVTLISDALNQRYRLRVSAAALRSVE 60

Query: 61 RQGGLDRFLSNSKKENLSARMRTLRSQILKKMSEKS 96
           +GGLD FL  + +  LS R R LR QI+KK +E +
Sbjct: 61 HRGGLDAFLLKASETELSMRARLLRRQIVKKTAEAA 96

Species: Rhizobium leguminosarum
Genus: Rhizobium
Family: Rhizobiaceae
Order: Rhizobiales
Class: Alphaproteobacteria
Phylum: Proteobacteria
Superkingdom: Bacteria

 Score =  130 bits (328), Expect = 4e-29,   Method: Compositional matrix adjust.
 Identities = 61/96 (63%), Positives = 76/96 (79%)

Query: 1  MSRVCELTKKTVMSGNKVSHANNKTRRRFLPNLCRITLISDIMEQKYQLRISKCALRSVE 60
          MSRVCELT K V++GN VSHANNKT+RRFLPNLC++TLISD + Q+Y+LR+S  ALRSVE
Sbjct: 1  MSRVCELTGKAVLTGNNVSHANNKTKRRFLPNLCQVTLISDALNQRYRLRVSAAALRSVE 60

Query: 61 RQGGLDRFLSNSKKENLSARMRTLRSQILKKMSEKS 96
           +GGLD FL  + +  LS R R LR QI+KK +E +
Sbjct: 61 HRGGLDAFLLKASENELSMRARLLRRQIVKKTAEAA 96

Species: Rhizobium etli
Genus: Rhizobium
Family: Rhizobiaceae
Order: Rhizobiales
Class: Alphaproteobacteria
Phylum: Proteobacteria
Superkingdom: Bacteria

 Score =  130 bits (328), Expect = 5e-29,   Method: Compositional matrix adjust.
 Identities = 61/97 (62%), Positives = 77/97 (79%)

Query: 1  MSRVCELTKKTVMSGNKVSHANNKTRRRFLPNLCRITLISDIMEQKYQLRISKCALRSVE 60
          MSRVCELT K V++GN VSHANNKT+RRFLPNLC++TLISD + Q+Y+LR+S  ALRSVE
Sbjct: 1  MSRVCELTGKAVLTGNNVSHANNKTKRRFLPNLCQVTLISDALNQRYRLRVSAAALRSVE 60

Query: 61 RQGGLDRFLSNSKKENLSARMRTLRSQILKKMSEKSS 97
           +GGLD FL  + +  LS R R LR QI+KK +E ++
Sbjct: 61 HRGGLDAFLIKASENELSMRARLLRRQIVKKNAEAAA 97

Species: Rhizobium etli
Genus: Rhizobium
Family: Rhizobiaceae
Order: Rhizobiales
Class: Alphaproteobacteria
Phylum: Proteobacteria
Superkingdom: Bacteria

 Score =  129 bits (325), Expect = 1e-28,   Method: Compositional matrix adjust.
 Identities = 61/97 (62%), Positives = 75/97 (77%)

Query: 1  MSRVCELTKKTVMSGNKVSHANNKTRRRFLPNLCRITLISDIMEQKYQLRISKCALRSVE 60
          MSR CELT K V SGN VSHANN+TRR+FLPNLC++TLISD M Q+Y+LRIS  ALRSVE
Sbjct: 1  MSRACELTGKAVQSGNNVSHANNRTRRKFLPNLCQVTLISDAMGQRYRLRISAHALRSVE 60

Query: 61 RQGGLDRFLSNSKKENLSARMRTLRSQILKKMSEKSS 97
           +GGLD FL+ +    LS R R L+ QI KK++E ++
Sbjct: 61 HRGGLDAFLAKADAAELSQRARLLKRQIAKKIAETAA 97

Species: Aurantimonas manganoxydans
Genus: Aurantimonas
Family: Aurantimonadaceae
Order: Rhizobiales
Class: Alphaproteobacteria
Phylum: Proteobacteria
Superkingdom: Bacteria

 Score =  129 bits (325), Expect = 1e-28,   Method: Compositional matrix adjust.
 Identities = 61/97 (62%), Positives = 77/97 (79%)

Query: 1  MSRVCELTKKTVMSGNKVSHANNKTRRRFLPNLCRITLISDIMEQKYQLRISKCALRSVE 60
          MSR CELT KTV  GN VSHANNKTRRRFLPNLC +TLIS++M+Q Y+LRIS  A+RSVE
Sbjct: 1  MSRACELTGKTVQYGNNVSHANNKTRRRFLPNLCNVTLISEVMQQSYRLRISANAVRSVE 60

Query: 61 RQGGLDRFLSNSKKENLSARMRTLRSQILKKMSEKSS 97
           +GGLD FL+ +  + LS R R L+ QI+KK +E+++
Sbjct: 61 HRGGLDNFLTKADDKELSQRARLLKRQIVKKKAEQAA 97

Species: Bartonella bacilliformis
Genus: Bartonella
Family: Bartonellaceae
Order: Rhizobiales
Class: Alphaproteobacteria
Phylum: Proteobacteria
Superkingdom: Bacteria

 Score =  129 bits (324), Expect = 1e-28,   Method: Compositional matrix adjust.
 Identities = 61/95 (64%), Positives = 75/95 (78%)

Query: 1  MSRVCELTKKTVMSGNKVSHANNKTRRRFLPNLCRITLISDIMEQKYQLRISKCALRSVE 60
          MSR CELT KTV+ GN VSHANNKTRRRFLPNLC +TLIS++++Q Y+LRIS  ALRSVE
Sbjct: 1  MSRACELTGKTVLYGNNVSHANNKTRRRFLPNLCNVTLISEVLQQSYRLRISASALRSVE 60

Query: 61 RQGGLDRFLSNSKKENLSARMRTLRSQILKKMSEK 95
           +GGLD FL  +  + LS R R L+ QI+KK +E+
Sbjct: 61 HRGGLDAFLVKADDKELSQRARLLKRQIIKKKAEQ 95

Species: Bartonella grahamii
Genus: Bartonella
Family: Bartonellaceae
Order: Rhizobiales
Class: Alphaproteobacteria
Phylum: Proteobacteria
Superkingdom: Bacteria

 Score =  129 bits (323), Expect = 2e-28,   Method: Compositional matrix adjust.
 Identities = 61/97 (62%), Positives = 76/97 (78%)

Query: 1  MSRVCELTKKTVMSGNKVSHANNKTRRRFLPNLCRITLISDIMEQKYQLRISKCALRSVE 60
          MSR CELT KTV  GN VSHANNKTRRRFLPNLC +TLIS++++Q Y+LR+S  ALRSVE
Sbjct: 1  MSRACELTGKTVQYGNNVSHANNKTRRRFLPNLCNVTLISEVLQQSYRLRVSASALRSVE 60

Query: 61 RQGGLDRFLSNSKKENLSARMRTLRSQILKKMSEKSS 97
           +GGLD FL  +  + LS R R L+ QI+KK +EK++
Sbjct: 61 HRGGLDGFLVKADDKELSQRARLLKRQIVKKKAEKAA 97

Species: Bartonella henselae
Genus: Bartonella
Family: Bartonellaceae
Order: Rhizobiales
Class: Alphaproteobacteria
Phylum: Proteobacteria
Superkingdom: Bacteria

 Score = 83.0 bits (206), Expect = 2e-17
 Identities = 36/77 (46%), Positives = 51/77 (66%), Gaps = 1/77 (1%)

Query: 1  MSRVCELTKKTVMSGNKVSHANNKTRRRFLPNLCRITLISDIMEQKYQLRISKCALRSVE 60
          MSRVCE+T K  M GN VSH+NNKT+RRFLPNL ++    +   +  +LR+S  ALR+++
Sbjct: 1  MSRVCEITGKGPMVGNNVSHSNNKTKRRFLPNLQKVRFWVEEEGRFVRLRVSARALRTID 60

Query: 61 RQGGLDRFLSNSKKENL 77
          +  GLD  L  ++   L
Sbjct: 61 K-KGLDAVLKKARARGL 76

Length = 76

 Score = 71.4 bits (176), Expect = 5e-14
 Identities = 28/61 (45%), Positives = 44/61 (72%)

Query: 3  RVCELTKKTVMSGNKVSHANNKTRRRFLPNLCRITLISDIMEQKYQLRISKCALRSVERQ 62
          R C+LT K  M GN VSH+NNKT+RR+ PNL +  L S+ + +  +L++S  ALR+++++
Sbjct: 1  RRCQLTGKGPMFGNNVSHSNNKTKRRWKPNLQKKRLWSESLGRWVRLKVSTKALRTIDKK 60

Query: 63 G 63
          G
Sbjct: 61 G 61

The ribosomal 28 family includes L28 proteins from bacteria and chloroplasts. The L24 protein from yeast also contains a region of similarity to prokaryotic L28 proteins. L24 from yeast is also found in the large ribosomal subunit. Length = 61

 Score = 61.1 bits (149), Expect = 6e-11
 Identities = 27/58 (46%), Positives = 38/58 (65%), Gaps = 2/58 (3%)

Query: 1  MSRVCELTKKTVMSGNKVSHANNKTRRRFLPNLCRITLISDIMEQKYQLRISKCALRS 58
          MSR C+LT K  +SGN VSH++ KT+RRF PNL +  +  D   +  +LR+S   LR+
Sbjct: 1  MSRKCQLTGKGPLSGNNVSHSHRKTKRRFKPNLQKKRVWVD--GRFKRLRVSAKCLRT 56

This model describes bacterial and chloroplast forms of the 50S ribosomal protein L28, a polypeptide about 60 amino acids in length. Mitochondrial homologs differ substantially in architecture and are not included. Length = 56

 Score = 47.8 bits (113), Expect = 7e-07
 Identities = 22/90 (24%), Positives = 47/90 (52%), Gaps = 3/90 (3%)

Query: 9   KKTVMSGNKVSHANNKTRRRFLPNLCRITLISDIMEQKYQLRISKCALRSVERQGGLDRF 68
                  N +    NKTRR + PN+    L S I++ K +++++   LR+++++GG+D +
Sbjct: 51  SHIQYGNNVIEDGGNKTRRCWKPNVQEKRLFSYILDSKIKVKVTTHVLRTIDKEGGIDEY 110

Query: 69  LSNSKK---ENLSARMRTLRSQILKKMSEK 95
           L  +     + L      LR+++L + + +
Sbjct: 111 LLKTPSARQKMLGEMGLYLRTKVLARYAIE 140

Length = 215

 Score = 71.5 bits (175), Expect = 5e-14
 Identities = 34/74 (45%), Positives = 52/74 (70%)

Query: 1  MSRVCELTKKTVMSGNKVSHANNKTRRRFLPNLCRITLISDIMEQKYQLRISKCALRSVE 60
          MSR C+LT K  MSGN VSH++NKT+RRFLPNL ++   S    +  +LR+S  ALR+++
Sbjct: 1  MSRRCQLTGKGPMSGNNVSHSHNKTKRRFLPNLQKVRFWSLSDGRFKRLRVSAKALRTID 60

Query: 61 RQGGLDRFLSNSKK 74
          ++G +D  L+ ++ 
Sbjct: 61 KKGKIDAVLAKARA 74

Length = 77

Probab=99.95  E-value=2e-28  Score=190.91  Aligned_cols=73  Identities=51%  Similarity=0.774  Sum_probs=70.3

Q ss_pred             CCCCCCCCCCCCCCCCCCCHHHCCCCCEECCCEEEEEEEECCCCCEEEEEEEHHHHHHHHHCCCHHHHHHHCCH
Q ss_conf             98541011785536772233230237425552489999855778689999972453023641887799972984
Q gi|254780584|r    1 MSRVCELTKKTVMSGNKVSHANNKTRRRFLPNLCRITLISDIMEQKYQLRISKCALRSVERQGGLDRFLSNSKK   74 (97)
Q Consensus         1 Msr~C~itGk~~~~Gn~vshs~~kTkR~~~PNlq~~~~~s~~l~~~v~l~vst~~lrtI~K~GGlD~yLl~~~~   74 (97)
T Consensus         1 Msr~C~itGK~~~~Gn~vShs~~kTkR~~~pNlq~kr~~~~~~~~~v~lkvst~~lRtI~K~G-i~~~l~~~~~   73 (78)
T PRK00359          1 MSRVCQLTGKKPMFGNNVSHANNKTKRRFLPNLQKVRFWSEEEGRFVRLRVSARALRTIDKKG-LDAVLAELRA   73 (78)
T ss_pred             CCCCCCCCCCCCCCCCEEECCCCCCCCEECCCEEEEEEEECCCCEEEEEEEEHHHHHHHHHCC-HHHHHHHHHH
T ss_conf             986632479855668646520253365653543899999723691999999948701103618-9999999997

Probab=99.94  E-value=8.2e-28  Score=187.20  Aligned_cols=69  Identities=30%  Similarity=0.393  Sum_probs=67.0

Q ss_pred             CCCCCCCCCCCCCCCCCCCHHHCCCCCEECCCEEEEEEEECCCCCEEEEEEEHHHHHHHHHCCCHHHHHH
Q ss_conf             9854101178553677223323023742555248999985577868999997245302364188779997
Q gi|254780584|r    1 MSRVCELTKKTVMSGNKVSHANNKTRRRFLPNLCRITLISDIMEQKYQLRISKCALRSVERQGGLDRFLS   70 (97)
Q Consensus         1 Msr~C~itGk~~~~Gn~vshs~~kTkR~~~PNlq~~~~~s~~l~~~v~l~vst~~lrtI~K~GGlD~yLl   70 (97)
T Consensus         1 Msr~C~lTGKk~~~G~~VShs~~rtkRr~~pNLq~kr~~~~~~~r~V~LrvStkaiktI~K~G-i~~~~K   69 (70)
T CHL00112          1 MSRVCQLTGKKANNGYAVSHSHKRTKKLQKVNLQTKRIWSTEQNRWIKLKISTKAIKTLKKKL-LKSKTK   69 (70)
T ss_pred             CCCCCCCCCCCCCCCCEEEECCCCCCCCCCCCCEEEEEEECCCCEEEEEEEEHHHHEEEHHHC-HHHHHC
T ss_conf             975633458755678602504653455404652568899537884999999847712113427-787743

Probab=99.94  E-value=1.2e-27  Score=186.18  Aligned_cols=74  Identities=46%  Similarity=0.705  Sum_probs=72.2

Q ss_pred             CCCCCCCCCCCCCCCCCCCHHHCCCCCEECCCEEEEEEEECCCCCEEEEEEEHHHHHHHHHCCCHHHHHHHCCH
Q ss_conf             98541011785536772233230237425552489999855778689999972453023641887799972984
Q gi|254780584|r    1 MSRVCELTKKTVMSGNKVSHANNKTRRRFLPNLCRITLISDIMEQKYQLRISKCALRSVERQGGLDRFLSNSKK   74 (97)
Q Consensus         1 Msr~C~itGk~~~~Gn~vshs~~kTkR~~~PNlq~~~~~s~~l~~~v~l~vst~~lrtI~K~GGlD~yLl~~~~   74 (97)
T Consensus         1 Msr~C~lTGk~~~~GnnvShs~~kTkRr~~pNlq~~~~~~~~~g~~~~l~Vsa~~Lrtidk~G~~~~~~~~~~~   74 (77)
T COG0227           1 MSRRCQLTGKGPMSGNNVSHSHNKTKRRFLPNLQKVRFWSLSDGRFKRLRVSAKALRTIDKKGKIDAVLAKARA   74 (77)
T ss_pred             CCCEEEECCCCCCCCCCCCCCCCCCCEEECCCEEEEEEEECCCCEEEEEEEEHHHHHCCCCCCCHHHHHHHHCC
T ss_conf             97331332544333653230056540354476079889983599089999995882202103553436454210

Probab=99.90  E-value=1.4e-24  Score=167.94  Aligned_cols=58  Identities=45%  Similarity=0.653  Sum_probs=57.3

Q ss_pred             CCCCCCCCCCCCCCCCCCC------------HHHCCCCCEECCCEEEEEEEECCCCCEEEEEEEHHHHHH
Q ss_conf             9854101178553677223------------323023742555248999985577868999997245302
Q gi|254780584|r    1 MSRVCELTKKTVMSGNKVS------------HANNKTRRRFLPNLCRITLISDIMEQKYQLRISKCALRS   58 (97)
Q Consensus         1 Msr~C~itGk~~~~Gn~vs------------hs~~kTkR~~~PNlq~~~~~s~~l~~~v~l~vst~~lrt   58 (97)
T Consensus         1 Msr~C~lTGK~p~~Gn~vSrrG~AkkgG~G~Hs~~~tkRrf~PNLq~~r~~~~~~~~~~rl~vsa~~Lr~   70 (70)
T TIGR00009         1 MSRKCELTGKGPLFGNNVSRRGLAKKGGVGRHSHRKTKRRFKPNLQKVRVVVPGEGRVKRLRVSAKCLRT   70 (70)
T ss_pred             CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCEEECCCCCEEEEEECCCCEEEEEEEEEEECCC
T ss_conf             9853221047343232101355313487160104663224366622678987799868999886102169

The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites , . About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many of ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome , . The ribosomal L28 protein family include proteins from bacteria and chloroplasts. The L24 protein from yeast, found in the large subunit of the mitochodrial ribosome, contains a region similar to the bacterial L28 protein.; GO: 0003735 structural constituent of ribosome, 0006412 translation, 0005622 intracellular, 0005840 ribosome.

Probab=99.89  E-value=8.8e-24  Score=163.09  Aligned_cols=61  Identities=46%  Similarity=0.719  Sum_probs=60.0

Q ss_pred             CCCCCCCCCCCCCCCCCHHHCCCCCEECCCEEEEEEEECCCCCEEEEEEEHHHHHHHHHCC
Q ss_conf             5410117855367722332302374255524899998557786899999724530236418
Q gi|254780584|r    3 RVCELTKKTVMSGNKVSHANNKTRRRFLPNLCRITLISDIMEQKYQLRISKCALRSVERQG   63 (97)
Q Consensus         3 r~C~itGk~~~~Gn~vshs~~kTkR~~~PNlq~~~~~s~~l~~~v~l~vst~~lrtI~K~G   63 (97)
T Consensus         1 r~C~~~GK~~~~Gn~vShs~~kTkR~~~pNlq~~~~~~~~l~~~v~lkvst~~Lrti~K~G   61 (61)
T pfam00830         1 RRCQLTGKGPMFGNNVSHSNNKTKRRWKPNLQKKRLWSESLGRWVRLKVSTKALRTIDKKG   61 (61)
T ss_pred             CCCCCCCCCCCCCCEECCCCCCCCCEECCCCEEEEEEECCCCCEEEEEEECHHEEEECCCC
T ss_conf             9862468766547512203552476034660899999856893899999854124451369

The ribosomal 28 family includes L28 proteins from bacteria and chloroplasts. The L24 protein from yeast also contains a region of similarity to prokaryotic L28 proteins. L24 from yeast is also found in the large ribosomal subunit

Probab=99.84  E-value=3.3e-22  Score=153.72  Aligned_cols=92  Identities=25%  Similarity=0.459  Sum_probs=84.6

Q ss_pred             CCCCCCCCCCCCCCC-CCHHHCCCCCEECCCEEEEEEEECCCCCEEEEEEEHHHHHHHHHCCCHHHHHHHCCH---HHHH
Q ss_conf             541011785536772-233230237425552489999855778689999972453023641887799972984---4553
Q gi|254780584|r    3 RVCELTKKTVMSGNK-VSHANNKTRRRFLPNLCRITLISDIMEQKYQLRISKCALRSVERQGGLDRFLSNSKK---ENLS   78 (97)
Q Consensus         3 r~C~itGk~~~~Gn~-vshs~~kTkR~~~PNlq~~~~~s~~l~~~v~l~vst~~lrtI~K~GGlD~yLl~~~~---~~Ls   78 (97)
T Consensus        44 ~~gLYgGs~iq~GNn~i~~~g~KTRr~W~PNv~~K~L~S~il~~ki~vkvTt~vLrtIdKeGGiDeYL~K~~sar~K~lg  123 (215)
T KOG3278          44 KRGLYGGSHIQYGNNVIEDGGNKTRRCWKPNVQEKRLFSYILDSKIKVKVTTHVLRTIDKEGGIDEYLLKTPSARQKMLG  123 (215)
T ss_pred             CCCCCCCCCEECCCCCCCCCCCCCCEEECCCCHHHHHHHHHHHHHEEEEEEHHHHHHHCCCCCHHHHHHCCCHHHHHHCC
T ss_conf             13463653000176536555764302105751366889998754135666367776412024755777538578776403


Q ss_pred             HHHHHHHHHHHHHHHH
Q ss_conf             9999999999999987
Q gi|254780584|r   79 ARMRTLRSQILKKMSE   94 (97)
Q Consensus        79 ~~~~klk~~i~~~l~~   94 (97)
T Consensus       124 ~~G~~lr~~Vl~r~~i  139 (215)
T KOG3278         124 EMGLYLRTKVLARYAI  139 (215)
T ss_pred             CCHHHHHHHHHHHHHC
T ss_conf             1027899999998621

Probab=99.25  E-value=3.6e-13  Score=99.66  Aligned_cols=91  Identities=16%  Similarity=0.301  Sum_probs=79.2

Q ss_pred             CCCCCCCCCCCCCCH-HHCCCCCEECCCEEEEEEEECCCCCEEEEEEEHHHHHHHHHCCCHHHHHHHCCHHHH-HHHHHH
Q ss_conf             011785536772233-230237425552489999855778689999972453023641887799972984455-399999
Q gi|254780584|r    6 ELTKKTVMSGNKVSH-ANNKTRRRFLPNLCRITLISDIMEQKYQLRISKCALRSVERQGGLDRFLSNSKKENL-SARMRT   83 (97)
Q Consensus         6 ~itGk~~~~Gn~vsh-s~~kTkR~~~PNlq~~~~~s~~l~~~v~l~vst~~lrtI~K~GGlD~yLl~~~~~~L-s~~~~k   83 (97)
T Consensus        86 ~wgge~vikg~~~~~~tk~~~p~~wvp~l~~~v~~s~ild~y~~v~vteRtl~LIDE~~GLD~YILk~~~~DL~SKFa~~  165 (283)
T KOG3279          86 IWGGEAVIKGFQKREQTKRRVPHFWVPNLRRSVVHSHVLDCYMSVVVTERTLELIDECHGLDHYILKNRACDLRSKFALK  165 (283)
T ss_pred             CCCCHHHHHHHHHHHHHHHCCCCCCCCCHHHHHHHHHHHHHHHEEEEEHHHHHHHHHHCCCCEEEECCCCHHHHHHHHHH
T ss_conf             43418999889987776603873225204456679998755632543098999999864852366437302067798888


Q ss_pred             HHHHHHHHHHHHH
Q ss_conf             9999999998740
Q gi|254780584|r   84 LRSQILKKMSEKS   96 (97)
Q Consensus        84 lk~~i~~~l~~k~   96 (97)
T Consensus       166 LKReMLL~L~~~~  178 (283)
T KOG3279         166 LKREMLLALQNGV  178 (283)
T ss_pred             HHHHHHHHHHCCC
T ss_conf             8999999873179

 Score = 80.3 bits (198), Expect = 9e-17
 Identities = 24/80 (30%), Positives = 42/80 (52%), Gaps = 2/80 (2%)

Query: 1   MSRVCELTKKTVMSGNKVSHANNKTRRRFLPNLCRITLISDIMEQKYQLRISKCALRSVE 60
             R+C  T K     NKVSH+N+KT++    NL    +  +  ++  +LR+S  A++++E
Sbjct: 74  ARRICPFTGKKSNRANKVSHSNHKTKKLQFVNLQYKRIWWEAGKRYVKLRLSTKAIKTIE 133

Query: 61  RQGGLDRFLSNSKKENLSAR 80
           +  GLD         +LS +
Sbjct: 134 K-NGLDAVA-KKAGIDLSKK 151

 Score = 77.3 bits (191), Expect = 7e-16
 Identities = 27/72 (37%), Positives = 43/72 (59%), Gaps = 1/72 (1%)

Query: 2  SRVCELTKKTVMSGNKVSHANNKTRRRFLPNLCRITLISDIMEQKYQLRISKCALRSVER 61
          SRVC++T K  ++GN  SHA N T+RRFLPNL       +  ++   LR+S   +R +++
Sbjct: 1  SRVCQVTGKRPVTGNNRSHALNATKRRFLPNLHSHRFWVESEKRFVTLRVSAKGMRVIDK 60

Query: 62 QGGLDRFLSNSK 73
            G+D  L+  +
Sbjct: 61 -KGIDTVLAELR 71

 Score = 77.0 bits (190), Expect = 8e-16
 Identities = 28/76 (36%), Positives = 44/76 (57%), Gaps = 1/76 (1%)

Query: 1  MSRVCELTKKTVMSGNKVSHANNKTRRRFLPNLCRITLISDIMEQKYQLRISKCALRSVE 60
          MSRVC++T K  ++GN  SHA N T+RRFLPNL       +  ++   LR+S   +R ++
Sbjct: 1  MSRVCQVTGKRPVTGNNRSHALNATKRRFLPNLHSHRFWVESEKRFVTLRVSAKGMRVID 60

Query: 61 RQGGLDRFLSNSKKEN 76
          +  G+D  L+  +   
Sbjct: 61 K-KGIDTVLAELRARG 75

 Score = 70.4 bits (173), Expect = 8e-14
 Identities = 20/74 (27%), Positives = 39/74 (52%), Gaps = 5/74 (6%)

Query: 1  MSRVCELTKKTVMSGNKVSHANNKTRRRFLPNLCRITLISDIMEQKYQLRISKCALRSVE 60
          M++ CE+  K   SGN VSH++ K+ R F PNL ++ ++        ++R+    L+S  
Sbjct: 6  MAKRCEVCGKAPRSGNTVSHSDKKSERWFRPNLQKVRVVLPD-GTIKRMRVCTSCLKS-- 62

Query: 61 RQGGLDRFLSNSKK 74
            G + +++    +
Sbjct: 63 --GKVKKYVGQVSE 74

 Score = 57.5 bits (139), Expect = 6e-10
 Identities = 19/104 (18%), Positives = 40/104 (38%), Gaps = 22/104 (21%)

Query: 1  MSRVCELTKKTVMSGNKVSH-------------ANNKTRRRFLPNLCRITLISDIMEQKY 47
          MS+VCE++ K  +  N +                   ++RR  PNL ++ +      Q+ 
Sbjct: 1  MSKVCEISGKRPIVANSIQRRGKAKREGGVGKKTTGISKRRQYPNLQKVRVRVA--GQEI 58

Query: 48 QLRISKCALRSVERQGGLDRFLSNSKKENLSA-RMRTLRSQILK 90
            R++   +  V         +  +K   L     + ++ ++LK
Sbjct: 59 TFRVAASHIPKV------YELVERAKGLKLEGLSPKEIKKELLK 96

 Score = 54.8 bits (132), Expect = 4e-09
 Identities = 18/76 (23%), Positives = 28/76 (36%), Gaps = 15/76 (19%)

Query: 1  MSRVCELTKKTVMSGNKV-------------SHANNKTRRRFLPNLCRITLISDIMEQKY 47
          MSR C LT K  +  N V                   T+R    NL +  +  +   Q  
Sbjct: 1  MSRECYLTGKKNLVVNSVIRRGKARADGGVGRKTTGITKRVQRANLHKKAIREN--GQVK 58

Query: 48 QLRISKCALRSVERQG 63
           + +S  ALR++ +  
Sbjct: 59 TVWLSANALRTLSKGP 74

Probab=99.94  E-value=1.1e-28  Score=191.19  Aligned_cols=73  Identities=37%  Similarity=0.596  Sum_probs=69.9

Q ss_pred             CCCCCCCCCCCCCCCCCCHHHCCCCCEECCCEEEEEEEECCCCCEEEEEEEHHHHHHHHHCCCHHHHHHHCCHH
Q ss_conf             85410117855367722332302374255524899998557786899999724530236418877999729844
Q gi|254780584|r    2 SRVCELTKKTVMSGNKVSHANNKTRRRFLPNLCRITLISDIMEQKYQLRISKCALRSVERQGGLDRFLSNSKKE   75 (97)
Q Consensus         2 sr~C~itGk~~~~Gn~vshs~~kTkR~~~PNlq~~~~~s~~l~~~v~l~vst~~lrtI~K~GGlD~yLl~~~~~   75 (97)
                      ||+||||||+|++||+||||+++|+|+|.||||++++|+|+++++|+|+|||+|||||+| +|||+||++++++
T Consensus         1 Sr~C~itGK~~~~Gn~vShs~~kTkR~~~pNlq~kr~~~~~~~~~v~lkvst~~LRtI~K-~Gld~~l~~~~~~   73 (77)
T 3ofq_X            1 SRVCQVTGKRPVTGNNRSHALNATKRRFLPNLHSHRFWVESEKRFVTLRVSAKGMRVIDK-KGIDTVLAELRAR   73 (77)
T ss_dssp             CCCCSSSCCCCCCCBCCCSTTCCCBCCCCCCCCCEEEECSSSCSEEEECCCTTTTTHHHH-TCHHHHHHHHHTT
T ss_pred             CCCCCCCCCCCCCCCEECCCCCCCCCEECCCEEEEEEEECCCCEEEEEEEEHHHEEEEHH-CCHHHHHHHHHHC
T ss_conf             988700897445586101025644655526538999998679979999999142316203-4999999998870

Probab=99.94  E-value=9.7e-30  Score=197.41  Aligned_cols=76  Identities=32%  Similarity=0.450  Sum_probs=72.3

Q ss_pred             CCCCCCCCCCCCCCCCCCCHHHCCCCCEECCCEEEEEEEECCCCCEEEEEEEHHHHHHHHHCCCHHHHHHHCCHHHHH
Q ss_conf             985410117855367722332302374255524899998557786899999724530236418877999729844553
Q gi|254780584|r    1 MSRVCELTKKTVMSGNKVSHANNKTRRRFLPNLCRITLISDIMEQKYQLRISKCALRSVERQGGLDRFLSNSKKENLS   78 (97)
Q Consensus         1 Msr~C~itGk~~~~Gn~vshs~~kTkR~~~PNlq~~~~~s~~l~~~v~l~vst~~lrtI~K~GGlD~yLl~~~~~~Ls   78 (97)
                      |||+|+||||++++||+||||+++|+|+|+||||++++|+|++++||+++|||+||||||| ||||+||.++.. +|+
T Consensus        74 MSr~C~itGK~~~~Gn~VShS~~kTKR~f~pNlq~kri~~~~l~r~VklkVstkaLRTI~K-~Gld~~lkk~~~-~l~  149 (151)
T 3bbo_Y           74 ARRICPFTGKKSNRANKVSHSNHKTKKLQFVNLQYKRIWWEAGKRYVKLRLSTKAIKTIEK-NGLDAVAKKAGI-DLS  149 (151)
T ss_dssp             --CCCCCSCCTTCCCCCCEECCSSSCCEECCCCCCCCBCCCTTSSCCCBCCCSSSTTTTTT-STTTCSCCSSSS-CSS
T ss_pred             HCCEEECCCCCCCCCCEEECCCCCCCCCCCCCEEEEEEEECCCCEEEEEEEECHHEEEEEC-CCHHHHHHHCCC-CCC
T ss_conf             4325003687345686232015533450315407999997568958999998430026304-079999997374-436

Probab=99.91  E-value=9.1e-26  Score=173.67  Aligned_cols=70  Identities=29%  Similarity=0.542  Sum_probs=67.0

Q ss_pred             CCCCCCCCCCCCCCCCCCCHHHCCCCCEECCCEEEEEEEECCCCCEEEEEEEHHHHHHHHHCCCHHHHHHHCCHH
Q ss_conf             985410117855367722332302374255524899998557786899999724530236418877999729844
Q gi|254780584|r    1 MSRVCELTKKTVMSGNKVSHANNKTRRRFLPNLCRITLISDIMEQKYQLRISKCALRSVERQGGLDRFLSNSKKE   75 (97)
Q Consensus         1 Msr~C~itGk~~~~Gn~vshs~~kTkR~~~PNlq~~~~~s~~l~~~v~l~vst~~lrtI~K~GGlD~yLl~~~~~   75 (97)
                      |||+||||||++++||+||||+++|+|+|+||||++++|+|+ |++++|+|||+||||    ||||+|++++++.
T Consensus         6 Mar~C~i~GK~~~~Gn~vShs~~kTkR~~~pNlq~~r~~~~~-g~~vrlkv~t~~lrt----g~i~k~~~~~~~~   75 (77)
T 2jz6_A            6 MAKRCEVCGKAPRSGNTVSHSDKKSERWFRPNLQKVRVVLPD-GTIKRMRVCTSCLKS----GKVKKYVGQVSEV   75 (77)
T ss_dssp             CCCCCTTTCCCCCCCCCCCCSCCCCSSSCBTTEEEEEEEETT-TEEEEEEEEHHHHHH----CCSCCCCCCCCSC
T ss_pred             EEEECCCCCCCCCCCCEEEECCCCCCCEECCCEEEEEEEECC-CCEEEEEEEHHHHHH----CCHHHHHHHHHHC
T ss_conf             763344157847669707665862476053752899999439-979999999799543----4788999977664

Probab=99.87  E-value=2.9e-24  Score=164.66  Aligned_cols=84  Identities=23%  Similarity=0.444  Sum_probs=74.8

Q ss_pred             CCCCCCCCCCCCCCCCCCCHHHC-------------CCCCEECCCEEEEEEEECCCCCEEEEEEEHHHHHHHHHCCCHHH
Q ss_conf             98541011785536772233230-------------23742555248999985577868999997245302364188779
Q gi|254780584|r    1 MSRVCELTKKTVMSGNKVSHANN-------------KTRRRFLPNLCRITLISDIMEQKYQLRISKCALRSVERQGGLDR   67 (97)
Q Consensus         1 Msr~C~itGk~~~~Gn~vshs~~-------------kTkR~~~PNlq~~~~~s~~l~~~v~l~vst~~lrtI~K~GGlD~   67 (97)
                      |||+|+||||+|++||+||||++             +|+|+|.||||++++|++  +++++++|||+|||||||      
T Consensus         1 Msr~C~itGK~~~~Gn~vshsg~akk~GG~g~k~~~kTkR~f~PNlq~~r~~~~--g~~v~~~vst~~LRti~K------   72 (98)
T 2j01_1            1 MSKVCEISGKRPIVANSIQRRGKAKREGGVGKKTTGISKRRQYPNLQKVRVRVA--GQEITFRVAASHIPKVYE------   72 (98)
T ss_dssp             -------CCCSSSCCCCCCCCCEECSCCSSSSCCCEEECCCCCCCCCCCCEEET--TTTEEECCCSSSHHHHHH------
T ss_pred             CCCCCCCCCCCCCCCCEEEECCCCCCCCCCCCCCCCCCCEEECCCCEEEEEEEC--CEEEEEEEEHHHHHHHHH------
T ss_conf             977622259833358758715631113775322467543166255078999989--998999999799999999------


Q ss_pred             HHHHCCHHHHHH-HHHHHHHHHHHHH
Q ss_conf             997298445539-9999999999999
Q gi|254780584|r   68 FLSNSKKENLSA-RMRTLRSQILKKM   92 (97)
Q Consensus        68 yLl~~~~~~Ls~-~~~klk~~i~~~l   92 (97)
                      |++.+....|+. .+.+++++|+..|
T Consensus        73 ~~~~~~~~kl~~~~~~~~kk~i~k~l   98 (98)
T 2j01_1           73 LVERAKGLKLEGLSPKEIKKELLKLL   98 (98)
T ss_dssp             HHSCCCCCCCCSCCHHHHHHHCC---
T ss_pred             HHHHHHHHHCCCCHHHHHHHHHHHHC
T ss_conf             87875554203223899999998629

Probab=99.83  E-value=9.2e-23  Score=155.70  Aligned_cols=65  Identities=29%  Similarity=0.358  Sum_probs=60.5

Q ss_pred             CCCCCCCCCCCCCCCCCC-------------CHHHCCCCCEECCCEEEEEEEECCCCCEEEEEEEHHHHHHHHH--CCCH
Q ss_conf             985410117855367722-------------3323023742555248999985577868999997245302364--1887
Q gi|254780584|r    1 MSRVCELTKKTVMSGNKV-------------SHANNKTRRRFLPNLCRITLISDIMEQKYQLRISKCALRSVER--QGGL   65 (97)
Q Consensus         1 Msr~C~itGk~~~~Gn~v-------------shs~~kTkR~~~PNlq~~~~~s~~l~~~v~l~vst~~lrtI~K--~GGl   65 (97)
                      |||+||+|||+|++||+|             |||+++|+|+|+||||++++|+|  +++++++|||+|||||+|  +.|+
T Consensus         1 Msr~C~i~GK~~~~Gn~v~~~Gkakk~Gg~~shs~~kTkR~f~PNlQ~~~~~~~--g~~v~~kvstk~Lrti~K~~~~~~   78 (81)
T 2zjr_U            1 MSRECYLTGKKNLVVNSVIRRGKARADGGVGRKTTGITKRVQRANLHKKAIREN--GQVKTVWLSANALRTLSKGPYKGI   78 (81)
T ss_dssp             -------CCSSSCCCCCCCCCCEESCCCTTTCSCCEECCCCCCCCCCCCCCCCS--SSCCCCCCCHHHHHHHHSSCCSSC
T ss_pred             CCCCCCCCCCCCCCCCEEEECCCCCCCCCCCCCCCCCCCCEECCCCEEEEEEEC--CEEEEEEEEHHHHHEECCCCCCCC
T ss_conf             975724368734338565103411114664130477025366467489999889--998999999578020500345671


Q ss_pred             HH
Q ss_conf             79
Q gi|254780584|r   66 DR   67 (97)
Q Consensus        66 D~   67 (97)
                      |.
T Consensus        79 ~~   80 (81)
T 2zjr_U           79 EL   80 (81)
T ss_dssp             C-
T ss_pred             CC
T ss_conf             13

class: Alpha and beta proteins (a+b)
fold: L28p-like
superfamily: L28p-like
family: Ribosomal protein L28
domain: Ribosomal protein L28 (L28p)
species: Escherichia coli [TaxId: 562]

 Score = 76.6 bits (189), Expect = 5e-16
 Identities = 27/75 (36%), Positives = 43/75 (57%), Gaps = 1/75 (1%)

Query: 2  SRVCELTKKTVMSGNKVSHANNKTRRRFLPNLCRITLISDIMEQKYQLRISKCALRSVER 61
          SRVC++T K  ++GN  SHA N T+RRFLPNL       +  ++   LR+S   +R +++
Sbjct: 1  SRVCQVTGKRPVTGNNRSHALNATKRRFLPNLHSHRFWVESEKRFVTLRVSAKGMRVIDK 60

Query: 62 QGGLDRFLSNSKKEN 76
            G+D  L+  +   
Sbjct: 61 -KGIDTVLAELRARG 74

class: Alpha and beta proteins (a+b)
fold: L28p-like
superfamily: L28p-like
family: Ribosomal protein L28
domain: Ribosomal protein L28 (L28p)
species: Thermotoga maritima [TaxId: 2336]

 Score = 69.7 bits (171), Expect = 7e-14
 Identities = 20/74 (27%), Positives = 39/74 (52%), Gaps = 5/74 (6%)

Query: 1  MSRVCELTKKTVMSGNKVSHANNKTRRRFLPNLCRITLISDIMEQKYQLRISKCALRSVE 60
          M++ CE+  K   SGN VSH++ K+ R F PNL ++ ++        ++R+    L+S  
Sbjct: 1  MAKRCEVCGKAPRSGNTVSHSDKKSERWFRPNLQKVRVVLPD-GTIKRMRVCTSCLKS-- 57

Query: 61 RQGGLDRFLSNSKK 74
            G + +++    +
Sbjct: 58 --GKVKKYVGQVSE 69

class: Alpha and beta proteins (a+b)
fold: L28p-like
superfamily: L28p-like
family: Ribosomal protein L28
domain: Ribosomal protein L28 (L28p)
species: Deinococcus radiodurans [TaxId: 1299]

 Score = 58.9 bits (143), Expect = 1e-10
 Identities = 11/63 (17%), Positives = 21/63 (33%), Gaps = 2/63 (3%)

Query: 1  MSRVCELTKKTVMSGNKVSHANNKTRRRFLPNLCRITLISDIMEQKYQLRISKCALRSVE 60
          +        K    G         T+R    NL +  +  +   Q   + +S  ALR++ 
Sbjct: 7  VVNSVIRRGKARADGGVGRKTTGITKRVQRANLHKKAIREN--GQVKTVWLSANALRTLS 64

Query: 61 RQG 63
          +  
Sbjct: 65 KGP 67

class: Alpha and beta proteins (a+b)
fold: L28p-like
superfamily: L28p-like
family: Ribosomal protein L28
domain: Ribosomal protein L28 (L28p)
species: Thermus thermophilus [TaxId: 274]

 Score = 54.0 bits (130), Expect = 3e-09
 Identities = 15/80 (18%), Positives = 29/80 (36%), Gaps = 5/80 (6%)

Query: 1  MSRVCELTKKTVMSGNKVSHANNKTRRRFLPNLCRITLISDIMEQKYQLRISKCALRSVE 60
          ++   +   K    G         ++RR  PNL ++ +      Q+   R++   +  V 
Sbjct: 7  VANSIQRRGKAKREGGVGKKTTGISKRRQYPNLQKVRVRVA--GQEITFRVAASHIPKVY 64

Query: 61 RQGGLDRFLSNSKKENLSAR 80
                + L   K E LS +
Sbjct: 65 ELVERAKGL---KLEGLSPK 81

class: Alpha and beta proteins (a+b)
fold: L28p-like
superfamily: L28p-like
family: Ribosomal protein L28
domain: Ribosomal protein L28 (L28p)
species: Escherichia coli [TaxId: 562]

Probab=99.95  E-value=2.7e-29  Score=193.33  Aligned_cols=74  Identities=36%  Similarity=0.590  Sum_probs=71.4

Q ss_pred             CCCCCCCCCCCCCCCCCCHHHCCCCCEECCCEEEEEEEECCCCCEEEEEEEHHHHHHHHHCCCHHHHHHHCCHHH
Q ss_conf             854101178553677223323023742555248999985577868999997245302364188779997298445
Q gi|254780584|r    2 SRVCELTKKTVMSGNKVSHANNKTRRRFLPNLCRITLISDIMEQKYQLRISKCALRSVERQGGLDRFLSNSKKEN   76 (97)
Q Consensus         2 sr~C~itGk~~~~Gn~vshs~~kTkR~~~PNlq~~~~~s~~l~~~v~l~vst~~lrtI~K~GGlD~yLl~~~~~~   76 (97)
                      ||+||||||+|++||+||||+++|+|+|.||||++++|||+++++|+|+|||+|||||+| ||||+||++++++.
T Consensus         1 Sr~C~itGK~~~~Gn~vShs~~kTkR~~~pNlq~kr~~~~~~~~~v~lkvstk~LRtI~K-~Gld~~l~k~~~~g   74 (77)
T d2qamz1           1 SRVCQVTGKRPVTGNNRSHALNATKRRFLPNLHSHRFWVESEKRFVTLRVSAKGMRVIDK-KGIDTVLAELRARG   74 (77)
T ss_dssp             CCCCSSSCCCCCCCBCCBGGGBCCBCCCCCCCCCEECCCSTTCCCCEECCCTTHHHHHTT-SCHHHHHHTTTTTT
T ss_pred             CCCCCCCCCCCCCCCEEEECCCCCCCEECCCEEEEEEEECCCCEEEEEEEEHHHEEEEHH-CCHHHHHHHHHHCC
T ss_conf             988601898545686220036644756646438999998578979999998053324113-79999999999735

class: Alpha and beta proteins (a+b)
fold: L28p-like
superfamily: L28p-like
family: Ribosomal protein L28
domain: Ribosomal protein L28 (L28p)
species: Thermotoga maritima [TaxId: 2336]

Probab=99.91  E-value=3.2e-26  Score=174.98  Aligned_cols=69  Identities=29%  Similarity=0.559  Sum_probs=66.6

Q ss_pred             CCCCCCCCCCCCCCCCCCCHHHCCCCCEECCCEEEEEEEECCCCCEEEEEEEHHHHHHHHHCCCHHHHHHHCCH
Q ss_conf             98541011785536772233230237425552489999855778689999972453023641887799972984
Q gi|254780584|r    1 MSRVCELTKKTVMSGNKVSHANNKTRRRFLPNLCRITLISDIMEQKYQLRISKCALRSVERQGGLDRFLSNSKK   74 (97)
Q Consensus         1 Msr~C~itGk~~~~Gn~vshs~~kTkR~~~PNlq~~~~~s~~l~~~v~l~vst~~lrtI~K~GGlD~yLl~~~~   74 (97)
                      |||+||||||+|++||+||||+++|+|+|+||||++++|+|+ |++++++|||+||||    ||||.|++++++
T Consensus         1 Mar~C~itGK~~~~Gn~vShs~~kTkR~f~PNlq~~r~~~~~-g~~v~~kvst~~lrt----g~v~k~~~~~~~   69 (70)
T d2jz6a1           1 MAKRCEVCGKAPRSGNTVSHSDKKSERWFRPNLQKVRVVLPD-GTIKRMRVCTSCLKS----GKVKKYVGQVSE   69 (70)
T ss_dssp             CCCCCTTTCCCCCCCCCCCCSCCCCSSSCBTTEEEEEEEETT-TEEEEEEEEHHHHHH----CCSCCCCCCCCS
T ss_pred             CCCEEEECCCCCCCCCEEEECCCCCCCEECCCEEEEEEEECC-CCEEEEEEEHHHHHH----CCHHHHHHHHCC
T ss_conf             986700068856658717765862475264770899999239-988999999799544----478787675545

class: Alpha and beta proteins (a+b)
fold: L28p-like
superfamily: L28p-like
family: Ribosomal protein L28
domain: Ribosomal protein L28 (L28p)
species: Thermus thermophilus [TaxId: 274]

Probab=99.78  E-value=1.8e-21  Score=146.50  Aligned_cols=81  Identities=19%  Similarity=0.259  Sum_probs=70.6

Q ss_pred             CCCCCCCCCCCCCCCCCCCHHHCCCCCEECCCEEEEEEEECCCCCEEEEEEEHHHHHHHHHCCCHHHHHHHCCHHHHHHH
Q ss_conf             98541011785536772233230237425552489999855778689999972453023641887799972984455399
Q gi|254780584|r    1 MSRVCELTKKTVMSGNKVSHANNKTRRRFLPNLCRITLISDIMEQKYQLRISKCALRSVERQGGLDRFLSNSKKENLSAR   80 (97)
Q Consensus         1 Msr~C~itGk~~~~Gn~vshs~~kTkR~~~PNlq~~~~~s~~l~~~v~l~vst~~lrtI~K~GGlD~yLl~~~~~~Ls~~   80 (97)
                      |...|...|+.+++||++|||+++|+|+|.||||.+++|++  +++++++|||+|||||+|.||+|+||   +...|++.
T Consensus         7 ~Gn~v~~~Gk~~~~G~~vshs~~kTkRrf~PNLq~vr~~v~--g~~~~lrVst~alRti~k~~g~~~~l---k~~~l~~~   81 (89)
T d2j0111           7 VANSIQRRGKAKREGGVGKKTTGISKRRQYPNLQKVRVRVA--GQEITFRVAASHIPKVYELVERAKGL---KLEGLSPK   81 (89)
T ss_dssp             CCCCCCCCCEECSCCSSSSCCCEEECCCCCCCCCCCCEEET--TTTEEECCCSSSHHHHHHHHSCCCCC---CCCSCCHH
T ss_pred             CCCEEEECCCCCCCCCCEEECCCCCCCEECCCCEEEEEEEC--CEEEEEEEEHHHHHHHHHHHHHHHHH---HHCCCCHH
T ss_conf             27648734853203873420266225056477368999989--99999999979977688640077899---87379988


Q ss_pred             HHHHHHHH
Q ss_conf             99999999
Q gi|254780584|r   81 MRTLRSQI   88 (97)
Q Consensus        81 ~~klk~~i   88 (97)
                        .+++.+
T Consensus        82 --~~k~~~   87 (89)
T d2j0111          82 --EIKKEL   87 (89)
T ss_dssp             --HHHHHC
T ss_pred             --HHHHHH
T ss_conf             --998886

class: Alpha and beta proteins (a+b)
fold: L28p-like
superfamily: L28p-like
family: Ribosomal protein L28
domain: Ribosomal protein L28 (L28p)
species: Deinococcus radiodurans [TaxId: 1299]

Probab=99.76  E-value=5.9e-21  Score=143.48  Aligned_cols=64  Identities=19%  Similarity=0.204  Sum_probs=60.4

Q ss_pred             CCCCCCCCCCCCCCCCCCCHHHCCCCCEECCCEEEEEEEECCCCCEEEEEEEHHHHHHHHH--CCCHH
Q ss_conf             9854101178553677223323023742555248999985577868999997245302364--18877
Q gi|254780584|r    1 MSRVCELTKKTVMSGNKVSHANNKTRRRFLPNLCRITLISDIMEQKYQLRISKCALRSVER--QGGLD   66 (97)
Q Consensus         1 Msr~C~itGk~~~~Gn~vshs~~kTkR~~~PNlq~~~~~s~~l~~~v~l~vst~~lrtI~K--~GGlD   66 (97)
                      |+..|+++||.+++||+||||+++|+|+|.||||.+++|+|  +++++++|||+|||||||  .+|+|
T Consensus         7 ~~~~~~~~GK~~~~Gn~vsh~~~~TkR~f~PNLq~~ri~~~--g~~~klkVst~~lRtI~K~~~~~~~   72 (72)
T d2zjru1           7 VVNSVIRRGKARADGGVGRKTTGITKRVQRANLHKKAIREN--GQVKTVWLSANALRTLSKGPYKGIE   72 (72)
T ss_dssp             CCCCCCCCCEESCCCTTTCSCCEECCCCCCCCCCCCCCCCS--SSCCCCCCCHHHHHHHHSSCCSSCC
T ss_pred             ECCEEEEECCCCCCCCCEEECCCCCCCEECCCCEEEEEEEC--CEEEEEEEEHHHEEEECCCCCCCCC
T ss_conf             33789972554023886602288557466353089999978--8759999993753245103344579

 Score = 73.4 bits (180), Expect = 9e-15
 Identities = 22/78 (28%), Positives = 40/78 (51%), Gaps = 1/78 (1%)

Query: 1   MSRVCELTKKTVMSGNKVSHANNKTRRRFLPNLCRITLISDIMEQKYQLRISKCALRSVE 60
             R+C  T K     NKVSH+N+KT++    NL    +  +  ++  +LR+S  A++++E
Sbjct: 74  ARRICPFTGKKSNRANKVSHSNHKTKKLQFVNLQYKRIWWEAGKRYVKLRLSTKAIKTIE 133

Query: 61  RQGGLDRFLSNSKKENLS 78
           +  GLD     +  +   
Sbjct: 134 K-NGLDAVAKKAGIDLSK 150

 Score = 73.1 bits (180), Expect = 1e-14
 Identities = 19/66 (28%), Positives = 36/66 (54%), Gaps = 1/66 (1%)

Query: 1  MSRVCELTKKTVMSGNKVSHANNKTRRRFLPNLCRITLISDIMEQKYQLRISKCALRSVE 60
          M++ CE+  K   SGN VSH++ K+ R F PNL ++ ++        ++R+    L+S +
Sbjct: 6  MAKRCEVCGKAPRSGNTVSHSDKKSERWFRPNLQKVRVVLPD-GTIKRMRVCTSCLKSGK 64

Query: 61 RQGGLD 66
           +  + 
Sbjct: 65 VKKYVG 70

 Score = 57.7 bits (140), Expect = 5e-10
 Identities = 21/33 (63%), Positives = 26/33 (78%)

Query: 1  MSRVCELTKKTVMSGNKVSHANNKTRRRFLPNL 33
          MSRVC++T K  ++GN  SHA N T+RRFLPNL
Sbjct: 1  MSRVCQVTGKRPVTGNNRSHALNATKRRFLPNL 33

 Score = 44.5 bits (105), Expect = 5e-06
 Identities = 13/46 (28%), Positives = 15/46 (32%), Gaps = 13/46 (28%)

Query: 1  MSRVCELTKKTVMSGNKVS-------------HANNKTRRRFLPNL 33
          MSR C LT K  +  N V                   T+R    NL
Sbjct: 1  MSRECYLTGKKNLVVNSVIRRGKARADGGVGRKTTGITKRVQRANL 46

Probab=99.91  E-value=7.1e-27  Score=181.20  Aligned_cols=76  Identities=29%  Similarity=0.404  Sum_probs=73.4

Q ss_pred             CCCCCCCCCCCCCCCCCCCHHHCCCCCEECCCEEEEEEEECCCCCEEEEEEEHHHHHHHHHCCCHHHHHHHCCHHHH
Q ss_conf             98541011785536772233230237425552489999855778689999972453023641887799972984455
Q gi|254780584|r    1 MSRVCELTKKTVMSGNKVSHANNKTRRRFLPNLCRITLISDIMEQKYQLRISKCALRSVERQGGLDRFLSNSKKENL   77 (97)
Q Consensus         1 Msr~C~itGk~~~~Gn~vshs~~kTkR~~~PNlq~~~~~s~~l~~~v~l~vst~~lrtI~K~GGlD~yLl~~~~~~L   77 (97)
                      ||++|++||+++++||+||||+++|+|.|+||||++++|||+||++|+++||++|||+|||.| ||+||+++++..+
T Consensus        74 ~s~~~~~~Gk~~~~G~~vs~s~~kt~R~w~PNl~~~~l~se~l~~~v~v~vt~r~LrtI~k~G-ld~yllk~~~~~~  149 (151)
T 3bbo_Y           74 ARRICPFTGKKSNRANKVSHSNHKTKKLQFVNLQYKRIWWEAGKRYVKLRLSTKAIKTIEKNG-LDAVAKKAGIDLS  149 (151)
T ss_dssp             --CCCCCSCCTTCCCCCCEECCSSSCCEECCCCCCCCBCCCTTSSCCCBCCCSSSTTTTTTST-TTCSCCSSSSCSS
T ss_pred             HCEEEECCCCCCCCCCEEECCCCCCCCEECCCCEEEEEEECCCCEEEEEEEECHHEEEEECCC-HHHHHHHCCCCCC
T ss_conf             210621368744568604204653342244675889999756897999999843103640318-9999997374436

Probab=99.91  E-value=6.6e-25  Score=169.44  Aligned_cols=66  Identities=29%  Similarity=0.468  Sum_probs=64.3

Q ss_pred             CCCCCCCCCCCCCCCCCCCHHHCCCCCEECCCEEEEEEEECCCCCEEEEEEEHHHHHHHHHCCCHHH
Q ss_conf             9854101178553677223323023742555248999985577868999997245302364188779
Q gi|254780584|r    1 MSRVCELTKKTVMSGNKVSHANNKTRRRFLPNLCRITLISDIMEQKYQLRISKCALRSVERQGGLDR   67 (97)
Q Consensus         1 Msr~C~itGk~~~~Gn~vshs~~kTkR~~~PNlq~~~~~s~~l~~~v~l~vst~~lrtI~K~GGlD~   67 (97)
                      ||++|++|||+|++||+||||+++|+|+|+||||++++|||+ |++++++|||+|||||++.||+|.
T Consensus         6 Mar~C~i~GK~~~~Gn~vShs~~kTkR~~~pNlq~~r~~~~~-g~~~ki~vstr~Lrti~k~g~~~~   71 (77)
T 2jz6_A            6 MAKRCEVCGKAPRSGNTVSHSDKKSERWFRPNLQKVRVVLPD-GTIKRMRVCTSCLKSGKVKKYVGQ   71 (77)
T ss_dssp             CCCCCTTTCCCCCCCCCCCCSCCCCSSSCBTTEEEEEEEETT-TEEEEEEEEHHHHHHCCSCCCCCC
T ss_pred             EEEECCCCCCCCCCCCCEEECCCCCCCEECCCEEEEEEEECC-CCEEEEEEEHHHHHHCCHHHHHHH
T ss_conf             763333057856558706675863576243762899999139-979999999799654378899997

Probab=99.43  E-value=2.6e-14  Score=106.06  Aligned_cols=33  Identities=64%  Similarity=0.974  Sum_probs=32.6

Q ss_pred             CCCCCCCCCCCCCCCCCCCHHHCCCCCEECCCE
Q ss_conf             985410117855367722332302374255524
Q gi|254780584|r    1 MSRVCELTKKTVMSGNKVSHANNKTRRRFLPNL   33 (97)
Q Consensus         1 Msr~C~itGk~~~~Gn~vshs~~kTkR~~~PNl   33 (97)
                      |||+||||||+|++||+||||+++|+|+|.|||
T Consensus         1 Mar~C~i~GK~~~~Gn~vSHS~~~tkR~~~pNL   33 (33)
T 3i1n_X            1 MSRVCQVTGKRPVTGNNRSHALNATKRRFLPNL   33 (33)
T ss_dssp             -CCCCTTTCCCCEEECCCCTTCCCCCEEECCCB
T ss_pred             CCCCCCCCCCCCCCCCEEEECCCCCCCEECCCE
T ss_conf             986642469855668623102554474674751

Probab=99.20  E-value=2.9e-12  Score=93.88  Aligned_cols=34  Identities=38%  Similarity=0.379  Sum_probs=33.6

Q ss_pred             CCCCCCCCCCCCCCCCCCC-------------HHHCCCCCEECCCEE
Q ss_conf             9854101178553677223-------------323023742555248
Q gi|254780584|r    1 MSRVCELTKKTVMSGNKVS-------------HANNKTRRRFLPNLC   34 (97)
Q Consensus         1 Msr~C~itGk~~~~Gn~vs-------------hs~~kTkR~~~PNlq   34 (97)
                      |||+|+||||+|++||+||             |++++|+|+|.||||
T Consensus         1 Msr~C~itGK~p~~Gn~v~rrG~aKk~GGiG~h~~~~tkR~f~PNLq   47 (47)
T 2zjr_U            1 MSRECYLTGKKNLVVNSVIRRGKARADGGVGRKTTGITKRVQRANLH   47 (47)
T ss_dssp             -------CCSSSCCCCCCCCCCEESCCCTTTCSCCEECCCCCCCCCC
T ss_pred             CCCEEECCCCCCCCCCEEEECCCCCCCCCCCCCCCCCCCCEECCCCE
T ss_conf             97571016871354867721231112466400106623406536628

Probab=98.34  E-value=1.1e-07  Score=66.49  Aligned_cols=33  Identities=36%  Similarity=0.684  Sum_probs=29.6

Q ss_pred             CCCCCCCCCCCCCCCCCCC-------------HHHCCCCCEECCCE
Q ss_conf             9854101178553677223-------------32302374255524
Q gi|254780584|r    1 MSRVCELTKKTVMSGNKVS-------------HANNKTRRRFLPNL   33 (97)
Q Consensus         1 Msr~C~itGk~~~~Gn~vs-------------hs~~kTkR~~~PNl   33 (97)
                      |||+|+||||+|.+||.|.             |-...|+|+|+|||
T Consensus         1 Msr~C~itGK~~~~gn~i~rrG~AKk~GGiG~kvtg~tkR~f~pNL   46 (46)
T 2j01_1            1 MSKVCEISGKRPIVANSIQRRGKAKREGGVGKKTTGISKRRQYPNL   46 (46)
T ss_dssp             -------CCCSSSCCCCCCCCCEECSCCSSSSCCCEEECCCCCCCC
T ss_pred             CCCCCCCCCCCCCCCCEEEECCCCCCCCCCCCCCCCCCCEEECCCC
T ss_conf             9776334698555378787446332246641002575442663673

Probab=98.57  E-value=8.1e-09  Score=73.24  Aligned_cols=38  Identities=18%  Similarity=0.337  Sum_probs=34.8

Q ss_pred             EEEEEEECCCCCEEEEEEEHHHHHHHHHCCCHHHHHHHC
Q ss_conf             899998557786899999724530236418877999729
Q gi|254780584|r   34 CRITLISDIMEQKYQLRISKCALRSVERQGGLDRFLSNS   72 (97)
Q Consensus        34 q~~~~~s~~l~~~v~l~vst~~lrtI~K~GGlD~yLl~~   72 (97)
                      |+++||+|++++||+|+|||++||||||.| ||.++...
T Consensus         1 q~kR~w~~ee~r~V~LrvStk~lrtIdK~G-i~av~~~~   38 (45)
T 3i1n_X            1 HSHRFWVESEKRFVTLRVSAKGMRVIDKKG-IDTVLAEL   38 (45)
T ss_dssp             CCCCEECSSSSSEECCCCBTTHHHHHHHHC-HHHHTHHH
T ss_pred             EEEEEEECCCCEEEEEEEEHHHEEEHHHCC-HHHHHHHH
T ss_conf             899999856897999999815420125459-99999999