Conserved Domains in CDD Database Detected by RPS-BLAST and HHsearch
Conserved Domains in CDD Database Detected by RPS-BLAST
Original result of RPS-BLAST against CDD database part I
Original result of RPS-BLASTagainst CDD database part II
Identity Alignment graph Length
Definition
E-value
Target 97
50S ribosomal protein L28 [Candidatus Liberibacter asia
PRK00359 76
PRK00359, rpmB, 50S ribosomal protein L28; Reviewed
2e-17
pfam00830 61
pfam00830, Ribosomal_L28, Ribosomal L28 family
5e-14
TIGR00009 56
TIGR00009, L28, ribosomal protein L28
6e-11
KOG3278 215
KOG3278, KOG3278, KOG3278, Mitochondrial/chloroplast ri
7e-07
COG0227 77
COG0227, RpmB, Ribosomal protein L28 [Translation, ribo
5e-14
>gnl|CDD|178987 PRK00359, rpmB, 50S ribosomal protein L28; Reviewed
Back Show alignment and domain information
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
>gnl|CDD|144429 pfam00830, Ribosomal_L28, Ribosomal L28 family
Back Show alignment and domain information
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
>gnl|CDD|129121 TIGR00009, L28, ribosomal protein L28
Back Show alignment and domain information
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
>gnl|CDD|38488 KOG3278, KOG3278, KOG3278, Mitochondrial/chloroplast ribosomal protein L28 [Translation, ribosomal structure and biogenesis]
Back Show alignment and domain information
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
>gnl|CDD|30576 COG0227, RpmB, Ribosomal protein L28 [Translation, ribosomal structure and biogenesis]
Back Show alignment and domain information
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
Conserved Domains in CDD Database Detected by HHsearch
Original result of HHsearch against CDD database
Identity Alignment graph Length
Definition
Probability
Target
97
50S ribosomal protein L28 [Candidatus Liberibacter asia
PRK00359 78
rpmB 50S ribosomal protein L28; Reviewed
99.95
CHL00112 70
rpl28 ribosomal protein L28; Provisional
99.94
COG0227 77
RpmB Ribosomal protein L28 [Translation, ribosomal stru
99.94
TIGR00009 70
L28 ribosomal protein L28; InterPro: IPR001383 Ribosome
99.9
pfam00830 61
Ribosomal_L28 Ribosomal L28 family. The ribosomal 28 fa
99.89
KOG3278 215
consensus
99.84
KOG3279
283
consensus
99.25
>PRK00359 rpmB 50S ribosomal protein L28; Reviewed
Back Show alignment and domain information
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
>CHL00112 rpl28 ribosomal protein L28; Provisional
Back Show alignment and domain information
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
>COG0227 RpmB Ribosomal protein L28 [Translation, ribosomal structure and biogenesis]
Back Show alignment and domain information
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
>TIGR00009 L28 ribosomal protein L28; InterPro: IPR001383 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms
Back Show alignment and domain information
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.
>pfam00830 Ribosomal_L28 Ribosomal L28 family
Back Show alignment and domain information
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
>KOG3278 consensus
Back Show alignment and domain information
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
>KOG3279 consensus
Back Show alignment and domain information
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
Homologous Domains in SCOP and MMDB Database Detected by RPS-BLAST and HHsearch
Homologous Domains in SCOP70 (Version1.75) Database Detected by RPS-BLAST
Original result of RPS-BLAST against SCOP70(version1.75) database
Identity Alignment graph Length
Definition
E-value
Target
97
50S ribosomal protein L28 [Candidatus Liberibacter asia
d2qamz1 77
d.325.1.1 (Z:2-78) Ribosomal protein L28 (L28p) {Escher
5e-16
d2jz6a1 70
d.325.1.1 (A:6-75) Ribosomal protein L28 (L28p) {Thermo
7e-14
d2zjru1 72
d.325.1.1 (U:8-79) Ribosomal protein L28 (L28p) {Deinoc
1e-10
d2j0111 89
d.325.1.1 (1:8-96) Ribosomal protein L28 (L28p) {Thermu
3e-09
>d2qamz1 d.325.1.1 (Z:2-78) Ribosomal protein L28 (L28p) {Escherichia coli [TaxId: 562]} Length = 77
Back Hide information, alignment and structure
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
>d2jz6a1 d.325.1.1 (A:6-75) Ribosomal protein L28 (L28p) {Thermotoga maritima [TaxId: 2336]} Length = 70
Back Show information, alignment and structure
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
>d2zjru1 d.325.1.1 (U:8-79) Ribosomal protein L28 (L28p) {Deinococcus radiodurans [TaxId: 1299]} Length = 72
Back Show information, alignment and structure
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
>d2j0111 d.325.1.1 (1:8-96) Ribosomal protein L28 (L28p) {Thermus thermophilus [TaxId: 274]} Length = 89
Back Show information, alignment and structure
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
Homologous Domains in SCOP70 (Version 1.75) Database Detected by HHsearch
Original result of HHsearch against SCOP70(version1.75) database
Identity Alignment graph Length
Definition
Probability
Target 97
50S ribosomal protein L28 [Candidatus Liberibacter asia
d2qamz1 77
Ribosomal protein L28 (L28p) {Escherichia coli [TaxId:
99.95
d2jz6a1 70
Ribosomal protein L28 (L28p) {Thermotoga maritima [TaxI
99.91
d2j0111 89
Ribosomal protein L28 (L28p) {Thermus thermophilus [Tax
99.78
d2zjru1 72
Ribosomal protein L28 (L28p) {Deinococcus radiodurans [
99.76
>d2qamz1 d.325.1.1 (Z:2-78) Ribosomal protein L28 (L28p) {Escherichia coli [TaxId: 562]}
Back Hide information, alignment and structure
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
>d2jz6a1 d.325.1.1 (A:6-75) Ribosomal protein L28 (L28p) {Thermotoga maritima [TaxId: 2336]}
Back Show information, alignment and structure
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
>d2j0111 d.325.1.1 (1:8-96) Ribosomal protein L28 (L28p) {Thermus thermophilus [TaxId: 274]}
Back Show information, alignment and structure
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
>d2zjru1 d.325.1.1 (U:8-79) Ribosomal protein L28 (L28p) {Deinococcus radiodurans [TaxId: 1299]}
Back Show information, alignment and structure
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
Homologous Domains in MMDB70 Database Detected by RPS-BLAST
Original result of RPS-BLAST against MMDB70 database
Identity Alignment graph Length
Definition
E-value
Target
97
50S ribosomal protein L28 [Candidatus Liberibacter
3bbo_Y_ 151
(Y:) Ribosomal protein L28; large ribosomal subuni
9e-15
2jz6_A_ 77
(A:) 50S ribosomal protein L28; structure, NESG, r
1e-14
2jl6_1_ 89
(1:) 50S ribosomal protein L28, 50S ribosomal prot
5e-14
3i1n_X_1-33 33
(X:1-33) 50S ribosomal protein L28; ribosome struc
5e-10
2zjr_U_1-47 47
(U:1-47) 50S ribosomal protein L28; ribosome, larg
5e-06
>3bbo_Y (Y:) Ribosomal protein L28; large ribosomal subunit, spinach chloroplast ribosome, ribonucleoprotein particle, macromolecular complex; 9.40A {Nicotiana tabacum}Length = 151
Back Hide alignment and structure
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
>2jz6_A (A:) 50S ribosomal protein L28; structure, NESG, ribonucleoprotein, structural genomics, PSI-2, protein structure initiative; NMR {Thermotoga maritima MSB8}Length = 77
Back Show alignment and structure
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
>3i1n_X (X:1-33) 50S ribosomal protein L28; ribosome structure, protein-RNA complex, acetylation, ribonucleoprotein, ribosomal protein, RNA-binding, rRNA- binding, methylation; 3.19A {Escherichia coli k-12} PDB: 2qao_Z* 2qba_Z* 2qbc_Z* 2qbe_Z 2qbg_Z 2qbi_Z* 2qbk_Z* 2qov_Z 2qox_Z 2qoz_Z* 2qp1_Z* 2z4l_Z* 2z4n_Z* 3df2_Z 3df4_Z 2qam_Z 3i1p_X 3i1r_X 3i1t_X 3i20_X ...Length = 33
Back Show alignment and structure
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
>2zjr_U (U:1-47) 50S ribosomal protein L28; ribosome, large ribosomal subunit, ribonucleoprotein, RNA-binding, rRNA-binding, tRNA-binding, methylation; 2.91A {Deinococcus radiodurans}Length = 47
Back Show alignment and structure
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
Homologous Domains in MMDB70 Database Detected by HHsearch
Original result of HHsearch against MMDB70 database
Identity Alignment graph Length
Definition
Probability
Target 97
50S ribosomal protein L28 [Candidatus Liberibacter asia
2jl6_1_ 89
50S ribosomal protein L28, 50S ribosomal protein L
99.92
3bbo_Y_ 151
Ribosomal protein L28; large ribosomal subunit, sp
99.91
2jz6_A_ 77
50S ribosomal protein L28; structure, NESG, ribonu
99.91
3i1n_X_1-33 33
50S ribosomal protein L28; ribosome structure, pro
99.43
2zjr_U_1-47 47
50S ribosomal protein L28; ribosome, large ribosom
99.2
2j01_1_1-46 46
50S ribosomal protein L28; ribosome, tRNA, paromom
98.34
3i1n_X_34-78 45
50S ribosomal protein L28; ribosome structure, pro
98.57
>3bbo_Y (Y:) Ribosomal protein L28; large ribosomal subunit, spinach chloroplast ribosome, ribonucleoprotein particle, macromolecular complex; 9.40A {Nicotiana tabacum}
Back Show alignment and structure
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
>2jz6_A (A:) 50S ribosomal protein L28; structure, NESG, ribonucleoprotein, structural genomics, PSI-2, protein structure initiative; NMR {Thermotoga maritima MSB8}
Back Show alignment and structure
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
>3i1n_X (X:1-33) 50S ribosomal protein L28; ribosome structure, protein-RNA complex, acetylation, ribonucleoprotein, ribosomal protein, RNA-binding, rRNA- binding, methylation; 3.19A {Escherichia coli k-12} PDB: 2qao_Z* 2qba_Z* 2qbc_Z* 2qbe_Z 2qbg_Z 2qbi_Z* 2qbk_Z* 2qov_Z 2qox_Z 2qoz_Z* 2qp1_Z* 2z4l_Z* 2z4n_Z* 3df2_Z 3df4_Z 2qam_Z 3i1p_X 3i1r_X 3i1t_X 3i20_X ...
Back Show alignment and structure
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
>2zjr_U (U:1-47) 50S ribosomal protein L28; ribosome, large ribosomal subunit, ribonucleoprotein, RNA-binding, rRNA-binding, tRNA-binding, methylation; 2.91A {Deinococcus radiodurans}
Back Show alignment and structure
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
>2j01_1 (1:1-46) 50S ribosomal protein L28; ribosome, tRNA, paromomycin, mRNA, translation; 2.8A {Thermus thermophilus}
Back Show alignment and structure
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
>3i1n_X (X:34-78) 50S ribosomal protein L28; ribosome structure, protein-RNA complex, acetylation, ribonucleoprotein, ribosomal protein, RNA-binding, rRNA- binding, methylation; 3.19A {Escherichia coli k-12} PDB: 2qao_Z* 2qba_Z* 2qbc_Z* 2qbe_Z 2qbg_Z 2qbi_Z* 2qbk_Z* 2qov_Z 2qox_Z 2qoz_Z* 2qp1_Z* 2z4l_Z* 2z4n_Z* 3df2_Z 3df4_Z 2qam_Z 3i1p_X 3i1r_X 3i1t_X 3i20_X ...
Back Show alignment and structure
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