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 90
30S ribosomal protein S20 [Candidatus Liberibacter asia
PRK00239 88
PRK00239, rpsT, 30S ribosomal protein S20; Reviewed
2e-16
pfam01649 84
pfam01649, Ribosomal_S20p, Ribosomal protein S20
1e-08
TIGR00029 87
TIGR00029, S20, ribosomal protein S20
5e-06
CHL00102 93
CHL00102, rps20, ribosomal protein S20
1e-05
COG0268 88
COG0268, RpsT, Ribosomal protein S20 [Translation, ribo
1e-09
>gnl|CDD|178943 PRK00239, rpsT, 30S ribosomal protein S20; Reviewed
Back Show alignment and domain information
Score = 79.4 bits (197), Expect = 2e-16
Identities = 41/88 (46%), Positives = 55/88 (62%)
Query: 1 MANKDSAKKMIRKIARRTLINKSRRSSVRSFMRHANEAITFGKIEEATEACRKAESVIQK 60
MAN SAKK IR+ +R L NKSR+S VR+ ++ AI G E A EA + A+S I K
Sbjct: 1 MANIKSAKKRIRQNEKRRLRNKSRKSRVRTAIKKVEAAIAAGDKEAAEEALKAAQSKIDK 60
Query: 61 AKSKGIFHGNAASRKVSRLSKRLKGILT 88
A SKG+ H N A+RK SRL+ ++ +
Sbjct: 61 AASKGVIHKNKAARKKSRLAAKVNALAA 88
>gnl|CDD|145013 pfam01649, Ribosomal_S20p, Ribosomal protein S20
Back Show alignment and domain information
Score = 53.9 bits (130), Expect = 1e-08
Identities = 37/83 (44%), Positives = 53/83 (63%)
Query: 2 ANKDSAKKMIRKIARRTLINKSRRSSVRSFMRHANEAITFGKIEEATEACRKAESVIQKA 61
AN SAKK IR+ +R L NKS +S +R+ ++ EAI G+ ++A EA ++ +S I KA
Sbjct: 1 ANIKSAKKRIRQNEKRRLRNKSYKSKMRTLIKKVREAIEAGEKDKAKEALKEVQSKIDKA 60
Query: 62 KSKGIFHGNAASRKVSRLSKRLK 84
KG+ H N A+RK SRL+ L
Sbjct: 61 AKKGVIHKNTAARKKSRLAAILN 83
Bacterial ribosomal protein S20 interacts with 16S rRNA. Length = 84
>gnl|CDD|129140 TIGR00029, S20, ribosomal protein S20
Back Show alignment and domain information
Score = 44.8 bits (106), Expect = 5e-06
Identities = 33/87 (37%), Positives = 53/87 (60%)
Query: 1 MANKDSAKKMIRKIARRTLINKSRRSSVRSFMRHANEAITFGKIEEATEACRKAESVIQK 60
MAN SA+K IR+ +R L N S++S +++ ++ AI G ++A EA ++A + +
Sbjct: 1 MANIKSAEKRIRQNEKRRLHNASQKSKMKTIIKKVYAAIAAGDKDKAQEAFKEAAKKLDR 60
Query: 61 AKSKGIFHGNAASRKVSRLSKRLKGIL 87
A KGI H N A+RK SRL+ +L +
Sbjct: 61 AARKGIIHKNKAARKKSRLAAQLNKLA 87
This family consists of bacterial (and chloroplast) examples of the bacteria ribosomal small subunit protein S20. Length = 87
>gnl|CDD|177031 CHL00102, rps20, ribosomal protein S20
Back Show alignment and domain information
Score = 44.0 bits (104), Expect = 1e-05
Identities = 33/91 (36%), Positives = 48/91 (52%), Gaps = 7/91 (7%)
Query: 1 MANKDSAKKMIRKIARRTLINKSRRSSVRSFMRHANEAITFGKI-------EEATEACRK 53
MAN SA K I+ R L NK+ +SSV++ ++ + + K ++ E
Sbjct: 1 MANNKSAIKRIKISERNRLRNKAYKSSVKTLIKKYLKNLEDYKTSPNSNNKKKVQETLSS 60
Query: 54 AESVIQKAKSKGIFHGNAASRKVSRLSKRLK 84
S I KA KG+FH N A+RK S+L+K LK
Sbjct: 61 VYSKIDKAVKKGVFHKNTAARKKSKLAKALK 91
>gnl|CDD|30617 COG0268, RpsT, Ribosomal protein S20 [Translation, ribosomal structure and biogenesis]
Back Show alignment and domain information
Score = 56.8 bits (137), Expect = 1e-09
Identities = 38/88 (43%), Positives = 54/88 (61%)
Query: 1 MANKDSAKKMIRKIARRTLINKSRRSSVRSFMRHANEAITFGKIEEATEACRKAESVIQK 60
MAN SAKK R+ +R L NKSR+S++R+ ++ AI G E A A ++A+ I K
Sbjct: 1 MANIKSAKKRARQSEKRRLRNKSRKSALRTAIKKVEAAIEAGDKEAAKAALKEAQKKIDK 60
Query: 61 AKSKGIFHGNAASRKVSRLSKRLKGILT 88
A SKG+ H N A+RK SRL+ +L +
Sbjct: 61 AASKGVIHKNKAARKKSRLAAKLNKLAA 88
Conserved Domains in CDD Database Detected by HHsearch
Original result of HHsearch against CDD database
Identity Alignment graph Length
Definition
Probability
Target
90
30S ribosomal protein S20 [Candidatus Liberibacter asia
PRK00239 88
rpsT 30S ribosomal protein S20; Reviewed
99.95
COG0268 88
RpsT Ribosomal protein S20 [Translation, ribosomal stru
99.95
pfam01649 84
Ribosomal_S20p Ribosomal protein S20. Bacterial ribosom
99.94
CHL00102 93
rps20 ribosomal protein S20
99.93
TIGR00029 94
S20 ribosomal protein S20; InterPro: IPR002583 Ribosome
99.93
>PRK00239 rpsT 30S ribosomal protein S20; Reviewed
Back Show alignment and domain information
Probab=99.95 E-value=6.7e-28 Score=187.42 Aligned_cols=88 Identities=44% Similarity=0.583 Sum_probs=86.6
Q ss_pred CCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHH
Q ss_conf 96898999999999999999999999999999999999960898999999999999999998658861669999999999
Q gi|254780626|r 1 MANKDSAKKMIRKIARRTLINKSRRSSVRSFMRHANEAITFGKIEEATEACRKAESVIQKAKSKGIFHGNAASRKVSRLS 80 (90)
Q Consensus 1 Man~kSa~Kr~r~~~krr~~N~~~ks~~kt~iKk~~~ai~~~d~~~a~~~~~~~~s~lDka~kkgiihkn~AsRkKSrL~ 80 (90)
T Consensus 1 Man~kSA~Kr~rq~~krr~~N~~~ks~~kT~iKk~~~ai~~~d~~~a~~~~~~~~s~iDkaa~kgiihkN~AaRkKSrL~ 80 (88)
T PRK00239 1 MANIKSAKKRIRQNEKRRLRNKSRKSRLRTAIKKVRAAIEAGDKEAAEEALKAAQSKLDKAASKGVIHKNKAARKKSRLA 80 (88)
T ss_pred CCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHH
T ss_conf 99808889999999999999999999999999999999984899999999999999999998669876315889999999
Q ss_pred HHHHHHHH
Q ss_conf 99999842
Q gi|254780626|r 81 KRLKGILT 88 (90)
Q Consensus 81 ~~v~~~~~ 88 (90)
T Consensus 81 k~ln~l~~ 88 (88)
T PRK00239 81 AKVNALAA 88 (88)
T ss_pred HHHHHHCC
T ss_conf 99977639
>COG0268 RpsT Ribosomal protein S20 [Translation, ribosomal structure and biogenesis]
Back Show alignment and domain information
Probab=99.95 E-value=3.6e-27 Score=183.05 Aligned_cols=88 Identities=43% Similarity=0.568 Sum_probs=86.4
Q ss_pred CCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHH
Q ss_conf 96898999999999999999999999999999999999960898999999999999999998658861669999999999
Q gi|254780626|r 1 MANKDSAKKMIRKIARRTLINKSRRSSVRSFMRHANEAITFGKIEEATEACRKAESVIQKAKSKGIFHGNAASRKVSRLS 80 (90)
Q Consensus 1 Man~kSa~Kr~r~~~krr~~N~~~ks~~kt~iKk~~~ai~~~d~~~a~~~~~~~~s~lDka~kkgiihkn~AsRkKSrL~ 80 (90)
T Consensus 1 MAN~~SA~KR~r~~~krr~rN~~~kS~~rT~iKk~~~ai~~gd~~~A~~~l~~a~~~idkaa~KGvihkN~AaR~kSRLa 80 (88)
T COG0268 1 MANIKSAKKRARQSEKRRLRNKSRKSALRTAIKKVEAAIEAGDKEAAKAALKEAQKKIDKAASKGVIHKNKAARKKSRLA 80 (88)
T ss_pred CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHHH
T ss_conf 99707789999999999998599999999999999999984779999999999999999998728634338888999999
Q ss_pred HHHHHHHH
Q ss_conf 99999842
Q gi|254780626|r 81 KRLKGILT 88 (90)
Q Consensus 81 ~~v~~~~~ 88 (90)
T Consensus 81 ~~~~~~~~ 88 (88)
T COG0268 81 AKLNKLAA 88 (88)
T ss_pred HHHHHHCC
T ss_conf 99865349
>pfam01649 Ribosomal_S20p Ribosomal protein S20
Back Show alignment and domain information
Probab=99.94 E-value=1.2e-26 Score=179.79 Aligned_cols=84 Identities=44% Similarity=0.576 Sum_probs=82.6
Q ss_pred CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHH
Q ss_conf 68989999999999999999999999999999999999608989999999999999999986588616699999999999
Q gi|254780626|r 2 ANKDSAKKMIRKIARRTLINKSRRSSVRSFMRHANEAITFGKIEEATEACRKAESVIQKAKSKGIFHGNAASRKVSRLSK 81 (90)
Q Consensus 2 an~kSa~Kr~r~~~krr~~N~~~ks~~kt~iKk~~~ai~~~d~~~a~~~~~~~~s~lDka~kkgiihkn~AsRkKSrL~~ 81 (90)
T Consensus 1 AN~kSA~KR~rq~~krr~~N~~~kS~~rT~iKkv~~ai~~gd~~~A~~~l~~a~~~iDkaa~KGiiHkN~AARkkSRL~~ 80 (84)
T pfam01649 1 ANIKSAKKRIRQNEKRRLRNKSYKSKMRTLIKKVREAIEAGEKDKAKEALKEVQSKIDKAAKKGVIHKNTAARKKSRLAA 80 (84)
T ss_pred CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHH
T ss_conf 97188999999999999999999999999999999999858999999999999999999974586643068889999999
Q ss_pred HHHH
Q ss_conf 9999
Q gi|254780626|r 82 RLKG 85 (90)
Q Consensus 82 ~v~~ 85 (90)
T Consensus 81 ~vnK 84 (84)
T pfam01649 81 ILNK 84 (84)
T ss_pred HHCC
T ss_conf 8629
Bacterial ribosomal protein S20 interacts with 16S rRNA.
>CHL00102 rps20 ribosomal protein S20
Back Show alignment and domain information
Probab=99.93 E-value=1.1e-25 Score=174.10 Aligned_cols=86 Identities=35% Similarity=0.370 Sum_probs=83.2
Q ss_pred CCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHC-----CCHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHH
Q ss_conf 96898999999999999999999999999999999999960-----8989999999999999999986588616699999
Q gi|254780626|r 1 MANKDSAKKMIRKIARRTLINKSRRSSVRSFMRHANEAITF-----GKIEEATEACRKAESVIQKAKSKGIFHGNAASRK 75 (90)
Q Consensus 1 Man~kSa~Kr~r~~~krr~~N~~~ks~~kt~iKk~~~ai~~-----~d~~~a~~~~~~~~s~lDka~kkgiihkn~AsRk 75 (90)
T Consensus 1 MAN~kSa~KRi~~~ErnRlrNkayKS~vrT~~Kk~~~a~e~~~~~~~~~~~~~~~l~~a~s~IDKAVkkGvlHkNtaArk 80 (93)
T CHL00102 1 MANNKSAIKRIQISERNRLRNRAYKSVVKTLTKKYLKDLENYKNSNNNKEKLQLLLSIVYSKIDKAVKKGVFHKNTAARK 80 (93)
T ss_pred CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHCCCCCCCCHHHH
T ss_conf 99708789999999999998799999999999999999998723898199999999999999999987288677608889
Q ss_pred HHHHHHHHHHH
Q ss_conf 99999999998
Q gi|254780626|r 76 VSRLSKRLKGI 86 (90)
Q Consensus 76 KSrL~~~v~~~ 86 (90)
T Consensus 81 KSrLa~~~k~~ 91 (93)
T CHL00102 81 KSKLAKALKIS 91 (93)
T ss_pred HHHHHHHHHHH
T ss_conf 99999998774
>TIGR00029 S20 ribosomal protein S20; InterPro: IPR002583 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms
Back Show alignment and domain information
Probab=99.93 E-value=5.7e-26 Score=175.84 Aligned_cols=87 Identities=39% Similarity=0.538 Sum_probs=85.4
Q ss_pred CCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCH-------HHHHHHHHHHHHHHHHHHHCCCCHHHHHH
Q ss_conf 96898999999999999999999999999999999999960898-------99999999999999999865886166999
Q gi|254780626|r 1 MANKDSAKKMIRKIARRTLINKSRRSSVRSFMRHANEAITFGKI-------EEATEACRKAESVIQKAKSKGIFHGNAAS 73 (90)
Q Consensus 1 Man~kSa~Kr~r~~~krr~~N~~~ks~~kt~iKk~~~ai~~~d~-------~~a~~~~~~~~s~lDka~kkgiihkn~As 73 (90)
T Consensus 1 maNiKSA~KR~~q~~kr~~~N~~~Ks~~kT~iK~~~~~v~~~~~dPnPekl~~A~~~~~~~~k~~D~~a~kgiihkN~Aa 80 (94)
T TIGR00029 1 MANIKSAEKRIRQNIKRRLRNKSYKSKLKTIIKKVYASVAAGEKDPNPEKLDKAQEALKEAAKKIDKAARKGIIHKNKAA 80 (94)
T ss_pred CCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHH
T ss_conf 97410367778887873104730555987899999999851267998423899999999987886189850730233476
Q ss_pred HHHHHHHHHHHHHH
Q ss_conf 99999999999984
Q gi|254780626|r 74 RKVSRLSKRLKGIL 87 (90)
Q Consensus 74 RkKSrL~~~v~~~~ 87 (90)
T Consensus 81 R~KSrL~~~l~k~~ 94 (94)
T TIGR00029 81 RKKSRLAAQLNKLA 94 (94)
T ss_pred HHHHHHHHHHHHCC
T ss_conf 79999999986209
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 , . This family consists of bacterial (and chloroplast) examples of the ribosomal small subunit protein S20. Bacterial ribosomal protein S20 forms part of the 30S ribosomal subunit, and interacts with 16S rRNA.; GO: 0003723 RNA binding, 0003735 structural constituent of ribosome, 0006412 translation, 0005622 intracellular, 0005840 ribosome.
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
90
30S ribosomal protein S20 [Candidatus Liberibacter asia
d2uubt1 99
a.7.6.1 (T:8-106) Ribosomal protein S20 {Thermus thermo
8e-14
d2gy9t1 83
a.7.6.1 (T:4-86) Ribosomal protein S20 {Escherichia col
2e-12
>d2uubt1 a.7.6.1 (T:8-106) Ribosomal protein S20 {Thermus thermophilus [TaxId: 274]} Length = 99
Back Hide information, alignment and structure
class: All alpha proteins
fold: Spectrin repeat-like
superfamily: Ribosomal protein S20
family: Ribosomal protein S20
domain: Ribosomal protein S20
species: Thermus thermophilus [TaxId: 274]
Score = 69.3 bits (170), Expect = 8e-14
Identities = 33/85 (38%), Positives = 54/85 (63%)
Query: 6 SAKKMIRKIARRTLINKSRRSSVRSFMRHANEAITFGKIEEATEACRKAESVIQKAKSKG 65
SA K R+ +R L NK+++S++++ + A + GK EEA + RKAES+I KA
Sbjct: 4 SALKRHRQSLKRRLRNKAKKSAIKTLSKKAIQLAQEGKAEEALKIMRKAESLIDKAAKGS 63
Query: 66 IFHGNAASRKVSRLSKRLKGILTSA 90
H NAA+R+ SRL ++++ +L +A
Sbjct: 64 TLHKNAAARRKSRLMRKVRQLLEAA 88
>d2gy9t1 a.7.6.1 (T:4-86) Ribosomal protein S20 {Escherichia coli [TaxId: 562]} Length = 83
Back Show information, alignment and structure
class: All alpha proteins
fold: Spectrin repeat-like
superfamily: Ribosomal protein S20
family: Ribosomal protein S20
domain: Ribosomal protein S20
species: Escherichia coli [TaxId: 562]
Score = 64.3 bits (157), Expect = 2e-12
Identities = 23/81 (28%), Positives = 43/81 (53%)
Query: 6 SAKKMIRKIARRTLINKSRRSSVRSFMRHANEAITFGKIEEATEACRKAESVIQKAKSKG 65
SAKK + + N SRRS +R+F++ AI G A +A + + ++ + +KG
Sbjct: 2 SAKKRAIQSEKARKHNASRRSMMRTFIKKVYAAIEAGDKAAAQKAFNEMQPIVDRQAAKG 61
Query: 66 IFHGNAASRKVSRLSKRLKGI 86
+ H N A+R + L+ ++ +
Sbjct: 62 LIHKNKAARHKANLTAQINKL 82
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 90
30S ribosomal protein S20 [Candidatus Liberibacter asia
d2uubt1 99
Ribosomal protein S20 {Thermus thermophilus [TaxId: 274
99.93
d2gy9t1 83
Ribosomal protein S20 {Escherichia coli [TaxId: 562]}
99.92
>d2uubt1 a.7.6.1 (T:8-106) Ribosomal protein S20 {Thermus thermophilus [TaxId: 274]}
Back Hide information, alignment and structure
class: All alpha proteins
fold: Spectrin repeat-like
superfamily: Ribosomal protein S20
family: Ribosomal protein S20
domain: Ribosomal protein S20
species: Thermus thermophilus [TaxId: 274]
Probab=99.93 E-value=4e-26 Score=174.00 Aligned_cols=87 Identities=38% Similarity=0.493 Sum_probs=85.3
Q ss_pred CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHH
Q ss_conf 98999999999999999999999999999999999960898999999999999999998658861669999999999999
Q gi|254780626|r 4 KDSAKKMIRKIARRTLINKSRRSSVRSFMRHANEAITFGKIEEATEACRKAESVIQKAKSKGIFHGNAASRKVSRLSKRL 83 (90)
Q Consensus 4 ~kSa~Kr~r~~~krr~~N~~~ks~~kt~iKk~~~ai~~~d~~~a~~~~~~~~s~lDka~kkgiihkn~AsRkKSrL~~~v 83 (90)
|+||+||+||+++++++|++++|.|||++|+|+.+|++||.+++.++|+.+++.||+++++||||+|+|+|++|||+++|
T Consensus 2 ~~SA~KRiRq~~krr~rN~~~kS~~kT~iKk~~~ai~~~d~e~A~~~l~~a~s~iDKAakKgiiHkN~AaRkKSRL~k~v 81 (99)
T d2uubt1 2 NLSALKRHRQSLKRRLRNKAKKSAIKTLSKKAIQLAQEGKAEEALKIMRKAESLIDKAAKGSTLHKNAAARRKSRLMRKV 81 (99)
T ss_dssp CCSTTHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHTTSSTTCSHHHHHHHHHHHHHH
T ss_pred CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHHHHHH
T ss_conf 76279999999999999999999999999999999872688999999999999999998679877114889999999999
Q ss_pred HHHHHCC
Q ss_conf 9984269
Q gi|254780626|r 84 KGILTSA 90 (90)
Q Consensus 84 ~~~~~~A 90 (90)
+++.++|
T Consensus 82 ~~l~~~a 88 (99)
T d2uubt1 82 RQLLEAA 88 (99)
T ss_dssp HHHHHTS
T ss_pred HHHHHHH
T ss_conf 9987521
>d2gy9t1 a.7.6.1 (T:4-86) Ribosomal protein S20 {Escherichia coli [TaxId: 562]}
Back Show information, alignment and structure
class: All alpha proteins
fold: Spectrin repeat-like
superfamily: Ribosomal protein S20
family: Ribosomal protein S20
domain: Ribosomal protein S20
species: Escherichia coli [TaxId: 562]
Probab=99.92 E-value=4.1e-25 Score=167.98 Aligned_cols=83 Identities=28% Similarity=0.433 Sum_probs=81.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHH
Q ss_conf 89999999999999999999999999999999999608989999999999999999986588616699999999999999
Q gi|254780626|r 5 DSAKKMIRKIARRTLINKSRRSSVRSFMRHANEAITFGKIEEATEACRKAESVIQKAKSKGIFHGNAASRKVSRLSKRLK 84 (90)
Q Consensus 5 kSa~Kr~r~~~krr~~N~~~ks~~kt~iKk~~~ai~~~d~~~a~~~~~~~~s~lDka~kkgiihkn~AsRkKSrL~~~v~ 84 (90)
+||+||+||+++++.+|++++|.|||++|+|+.+|++||.+++.++|+.++|.||+++++||||+|+|+|++|||+++|+
T Consensus 1 KSA~Kr~rq~~kr~~~N~~~kS~~rT~iKk~~~ai~~~d~~~a~~~~~~a~s~iDkaa~KgiiHkN~AaRkkSRL~k~v~ 80 (83)
T d2gy9t1 1 KSAKKRAIQSEKARKHNASRRSMMRTFIKKVYAAIEAGDKAAAQKAFNEMQPIVDRQAAKGLIHKNKAARHKANLTAQIN 80 (83)
T ss_dssp CCTTHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHTTHHHHHHHHHTTTTCHHHHHHHHHHHHHHHH
T ss_pred CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHH
T ss_conf 96478999999999999999999999999999998759999999999999999999987797656588899999999987
Q ss_pred HHH
Q ss_conf 984
Q gi|254780626|r 85 GIL 87 (90)
Q Consensus 85 ~~~ 87 (90)
+++
T Consensus 81 ~~s 83 (83)
T d2gy9t1 81 KLA 83 (83)
T ss_dssp HHC
T ss_pred HCC
T ss_conf 609
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
90
30S ribosomal protein S20 [Candidatus Liberibacter
2vqe_T_ 106
(T:) 30S ribosomal protein S20; tRNA-binding, rRNA
8e-16
3i1m_T_ 87
(T:) 30S ribosomal protein S20; ribosome structure
2e-14
3bbn_T_ 202
(T:) Ribosomal protein S20; small ribosomal subuni
2e-12
>2vqe_T (T:) 30S ribosomal protein S20; tRNA-binding, rRNA-binding, metal-binding, zinc-finger, translation; HET: TM2 PAR; 2.5A {Thermus thermophilus}Length = 106
Back Hide alignment and structure
Score = 77.0 bits (190), Expect = 8e-16
Identities = 33/90 (36%), Positives = 54/90 (60%)
Query: 1 MANKDSAKKMIRKIARRTLINKSRRSSVRSFMRHANEAITFGKIEEATEACRKAESVIQK 60
SA K R+ +R L NK+++S++++ + A + GK EEA + RKAES+I K
Sbjct: 6 PKRNLSALKRHRQSLKRRLRNKAKKSAIKTLSKKAVQLAQEGKAEEALKIMRKAESLIDK 65
Query: 61 AKSKGIFHGNAASRKVSRLSKRLKGILTSA 90
A H NAA+R+ SRL ++++ +L +A
Sbjct: 66 AAKGSTLHKNAAARRKSRLMRKVRQLLEAA 95
>3i1m_T (T:) 30S ribosomal protein S20; ribosome structure, protein-RNA complex, ribonucleoprotein, ribosomal protein, RNA-binding, rRNA-binding, antibiotic resistance; 3.19A {Escherichia coli k-12} PDB: 1vs7_T* 3e1a_N 3e1c_N 1vs5_T 3i1o_T 3i1q_T 3i1s_T 3i1z_T 3i21_T 2qal_T* 1p6g_T 1p87_T 2aw7_T 2avy_T 2i2u_T 2i2p_T* 2qan_T* 2qb9_T* 2qbb_T* 2qbd_T ...Length = 87
Back Show alignment and structure
Score = 72.7 bits (179), Expect = 2e-14
Identities = 26/86 (30%), Positives = 46/86 (53%)
Query: 1 MANKDSAKKMIRKIARRTLINKSRRSSVRSFMRHANEAITFGKIEEATEACRKAESVIQK 60
MAN SAKK + + N SRRS +R+F++ AI G A +A + + ++ +
Sbjct: 1 MANIKSAKKRAIQSEKARKHNASRRSMMRTFIKKVYAAIEAGDKAAAQKAFNEMQPIVDR 60
Query: 61 AKSKGIFHGNAASRKVSRLSKRLKGI 86
+KG+ H N A+R + L+ ++ +
Sbjct: 61 QAAKGLIHKNKAARHKANLTAQINKL 86
>3bbn_T (T:) Ribosomal protein S20; small ribosomal subunit, spinach chloroplast ribosome, ribonucleoprotein particle, macromolecular complex; 9.40A {Arabidopsis thaliana}Length = 202
Back Show alignment and structure
Score = 65.8 bits (160), Expect = 2e-12
Identities = 29/99 (29%), Positives = 44/99 (44%), Gaps = 9/99 (9%)
Query: 1 MANKDSAKKMIRKIARRTLINKSRRSSVRSFMRHANEAITFGK---------IEEATEAC 51
DSA K R+ +R + NKS++S R+ M+ EA+ K I +
Sbjct: 84 TKKADSAAKRARQAEKRRVYNKSKKSEARTRMKKVLEALEGLKKKTDAQADEIVTVEKLI 143
Query: 52 RKAESVIQKAKSKGIFHGNAASRKVSRLSKRLKGILTSA 90
+A S I KA H N +R+ SRL++R K +
Sbjct: 144 GEAYSAIDKAVKVKALHKNTGARRKSRLARRKKAVEIHH 182
Homologous Domains in MMDB70 Database Detected by HHsearch
Original result of HHsearch against MMDB70 database
Identity Alignment graph Length
Definition
Probability
Target 90
30S ribosomal protein S20 [Candidatus Liberibacter asia
2vqe_T_ 106
30S ribosomal protein S20; tRNA-binding, rRNA-bind
99.96
3i1m_T_ 87
30S ribosomal protein S20; ribosome structure, pro
99.95
3bbn_T_ 202
Ribosomal protein S20; small ribosomal subunit, sp
99.94
>2vqe_T (T:) 30S ribosomal protein S20; tRNA-binding, rRNA-binding, metal-binding, zinc-finger, translation; HET: TM2 PAR; 2.5A {Thermus thermophilus}
Back Hide alignment and structure
Probab=99.96 E-value=1.8e-28 Score=190.48 Aligned_cols=90 Identities=37% Similarity=0.470 Sum_probs=88.6
Q ss_pred CCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHH
Q ss_conf 96898999999999999999999999999999999999960898999999999999999998658861669999999999
Q gi|254780626|r 1 MANKDSAKKMIRKIARRTLINKSRRSSVRSFMRHANEAITFGKIEEATEACRKAESVIQKAKSKGIFHGNAASRKVSRLS 80 (90)
Q Consensus 1 Man~kSa~Kr~r~~~krr~~N~~~ks~~kt~iKk~~~ai~~~d~~~a~~~~~~~~s~lDka~kkgiihkn~AsRkKSrL~ 80 (90)
||||+|++||+||++++|++|++++|++||++|+|+.+|++||.+++.++|+.+++.||+++++||||+|+|+|+||||+
T Consensus 6 MaN~kSA~KRir~~~krr~rNr~~kS~ikT~iKk~~~Ai~~~d~~~a~~~l~~a~s~iDkaa~KGiiHkN~AaRkKSRL~ 85 (106)
T 2vqe_T 6 PKRNLSALKRHRQSLKRRLRNKAKKSAIKTLSKKAVQLAQEGKAEEALKIMRKAESLIDKAAKGSTLHKNAAARRKSRLM 85 (106)
T ss_dssp --CCCTTHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTTTTSSCTTHHHHHHHHHH
T ss_pred CCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHHH
T ss_conf 78986189999999999999999999999999999999872789999999999999999998679876013889999999
Q ss_pred HHHHHHHHCC
Q ss_conf 9999984269
Q gi|254780626|r 81 KRLKGILTSA 90 (90)
Q Consensus 81 ~~v~~~~~~A 90 (90)
..|+++..+|
T Consensus 86 ~~in~~~~~a 95 (106)
T 2vqe_T 86 RKVRQLLEAA 95 (106)
T ss_dssp HHHHHHHTTT
T ss_pred HHHHHHHHHH
T ss_conf 9999998631
>3i1m_T (T:) 30S ribosomal protein S20; ribosome structure, protein-RNA complex, ribonucleoprotein, ribosomal protein, RNA-binding, rRNA-binding, antibiotic resistance; 3.19A {Escherichia coli k-12} PDB: 1vs7_T* 3e1a_N 3e1c_N 1vs5_T 3i1o_T 3i1q_T 3i1s_T 3i1z_T 3i21_T 2qal_T* 1p6g_T 1p87_T 2aw7_T 2avy_T 2i2u_T 2i2p_T* 2qan_T* 2qb9_T* 2qbb_T* 2qbd_T ...
Back Show alignment and structure
Probab=99.95 E-value=5.8e-28 Score=187.41 Aligned_cols=87 Identities=30% Similarity=0.445 Sum_probs=85.4
Q ss_pred CCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHH
Q ss_conf 96898999999999999999999999999999999999960898999999999999999998658861669999999999
Q gi|254780626|r 1 MANKDSAKKMIRKIARRTLINKSRRSSVRSFMRHANEAITFGKIEEATEACRKAESVIQKAKSKGIFHGNAASRKVSRLS 80 (90)
Q Consensus 1 Man~kSa~Kr~r~~~krr~~N~~~ks~~kt~iKk~~~ai~~~d~~~a~~~~~~~~s~lDka~kkgiihkn~AsRkKSrL~ 80 (90)
||||+|++||+||+++++++|++++|.+||++|+|+.+|++||.+++.++|+.++|.||+++++||||+|+|+|++|||+
T Consensus 1 MaN~kSa~KR~r~~~krr~~N~~~kS~~kT~iKk~~~ai~~~d~~~a~~~l~~a~s~iDkaa~KgviHkN~AaRkKSRL~ 80 (87)
T 3i1m_T 1 MANIKSAKKRAIQSEKARKHNASRRSMMRTFIKKVYAAIEAGDKAAAQKAFNEMQPIVDRQAAKGLIHKNKAARHKANLT 80 (87)
T ss_dssp --CCSSTTHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHHHHHTSSTTHHHHHHHHHHH
T ss_pred CCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHH
T ss_conf 99818899999999999999999999999999999999983888999999999999999999769766668889999999
Q ss_pred HHHHHHH
Q ss_conf 9999984
Q gi|254780626|r 81 KRLKGIL 87 (90)
Q Consensus 81 ~~v~~~~ 87 (90)
+.++++.
T Consensus 81 ~~~n~~a 87 (87)
T 3i1m_T 81 AQINKLA 87 (87)
T ss_dssp HHHTTCC
T ss_pred HHHHHCC
T ss_conf 9987609
>3bbn_T (T:) Ribosomal protein S20; small ribosomal subunit, spinach chloroplast ribosome, ribonucleoprotein particle, macromolecular complex; 9.40A {Arabidopsis thaliana}
Back Show alignment and structure
Probab=99.94 E-value=3.9e-28 Score=188.41 Aligned_cols=90 Identities=31% Similarity=0.351 Sum_probs=86.6
Q ss_pred CCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCC---------CHHHHHHHHHHHHHHHHHHHHCCCCHHHH
Q ss_conf 968989999999999999999999999999999999999608---------98999999999999999998658861669
Q gi|254780626|r 1 MANKDSAKKMIRKIARRTLINKSRRSSVRSFMRHANEAITFG---------KIEEATEACRKAESVIQKAKSKGIFHGNA 71 (90)
Q Consensus 1 Man~kSa~Kr~r~~~krr~~N~~~ks~~kt~iKk~~~ai~~~---------d~~~a~~~~~~~~s~lDka~kkgiihkn~ 71 (90)
||||+|++||+||++++|++|++++|++||++|+|+++|++| |.++++++|.++|+.||++++|||||+|+
T Consensus 84 MaN~KSA~KRiRqseKRRlrNka~KS~iKT~iKKv~~AIeag~k~~~~~~~d~e~A~~ll~~a~s~IDKAakKGvIHKNt 163 (202)
T 3bbn_T 84 TKKADSAAKRARQAEKRRVYNKSKKSEARTRMKKVLEALEGLKKKTDAQADEIVTVEKLIGEAYSAIDKAVKVKALHKNT 163 (202)
T ss_dssp SCCCCCSSHHHHHHHHHHHHHHHHHTHHHHHHHHHHHHHHTTCCCCCCSSSCCCHHHHHHHHHHHHHTTSSSSSSSCTTH
T ss_pred CCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCH
T ss_conf 76876389999999999999999999999999999999972564434331029999999999999999998569766105
Q ss_pred HHHHHHHHHHHHHHHHHCC
Q ss_conf 9999999999999984269
Q gi|254780626|r 72 ASRKVSRLSKRLKGILTSA 90 (90)
Q Consensus 72 AsRkKSrL~~~v~~~~~~A 90 (90)
|+|+||||++++|++..++
T Consensus 164 AARkKSRLak~vk~l~~~a 182 (202)
T 3bbn_T 164 GARRKSRLARRKKAVEIHH 182 (202)
T ss_dssp HHHHHHHHTTHHHHSSCC-
T ss_pred HHHHHHHHHHHHHHHHHHC
T ss_conf 8899999999999999974