Query 045520
Match_columns 305
No_of_seqs 55 out of 57
Neff 3.0
Searched_HMMs 46136
Date Fri Mar 29 02:56:55 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/045520.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/045520hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF07039 DUF1325: SGF29 tudor- 86.5 1.9 4.1E-05 36.8 5.7 37 63-104 1-37 (130)
2 cd01735 LSm12_N LSm12 belongs 70.1 4.9 0.00011 30.9 2.9 20 85-104 17-36 (61)
3 PF03088 Str_synth: Strictosid 53.2 17 0.00037 29.4 3.3 19 87-105 35-53 (89)
4 PF09465 LBR_tudor: Lamin-B re 50.7 30 0.00065 26.5 4.1 27 79-105 15-41 (55)
5 PF09816 EAF: RNA polymerase I 34.6 39 0.00085 27.6 2.8 18 91-108 81-98 (109)
6 PF07076 DUF1344: Protein of u 30.4 49 0.0011 25.8 2.5 25 87-111 5-29 (61)
7 PF09701 Cas_Cmr5: CRISPR-asso 29.2 20 0.00043 29.7 0.2 18 287-304 39-56 (122)
8 PF05257 CHAP: CHAP domain; I 28.8 1.2E+02 0.0027 24.2 4.8 39 58-104 59-98 (124)
9 PF05652 DcpS: Scavenger mRNA 28.5 86 0.0019 26.2 3.9 23 83-105 3-25 (110)
10 PF14157 YmzC: YmzC-like prote 27.8 67 0.0015 25.3 2.9 21 84-104 36-56 (63)
11 TIGR03847 conserved hypothetic 25.1 1E+02 0.0022 28.5 4.0 26 81-106 83-109 (177)
12 PF10030 DUF2272: Uncharacteri 24.8 58 0.0013 29.7 2.4 20 51-70 83-102 (183)
13 PF03843 Slp: Outer membrane l 24.7 1.3E+02 0.0029 26.4 4.5 61 88-158 40-100 (160)
14 TIGR02594 conserved hypothetic 24.0 1.7E+02 0.0037 24.8 4.9 34 61-104 73-106 (129)
15 PF11290 DUF3090: Protein of u 22.3 95 0.0021 28.5 3.2 23 84-106 84-107 (171)
16 cd05687 S1_RPS1_repeat_ec1_hs1 20.1 1.9E+02 0.0042 20.6 3.9 16 61-76 44-59 (70)
No 1
>PF07039 DUF1325: SGF29 tudor-like domain; InterPro: IPR010750 SAGA-associated factor 29 is involved in transcriptional regulation, probably through association with histone acetyltransferase (HAT) complexes like the TFTC-HAT or STAGA complexes. It also may be involved in MYC-mediated oncogenic transformation. It is a component of the ATAC complex, which is a complex with histone acetyltransferase activity on histones H3 and H4 []. This entry represents a domain found in yeast and human SAGA-associated factor 29 proteins that is related to the tudor domain. ; PDB: 3MP6_A 3MP1_A 3MP8_A 3MET_B 3ME9_A 3MEU_B 3MEA_A 3MEV_B 3LX7_A 3MEW_A.
Probab=86.54 E-value=1.9 Score=36.83 Aligned_cols=37 Identities=22% Similarity=0.355 Sum_probs=28.9
Q ss_pred CCCCEEEEEEeeeCCCCCCCCCceeeeEEeeeeCCCCeEEEE
Q 045520 63 KEGDVIAYRLIELTSSWTPEPSSFRVGKISWYDSDTNKILLA 104 (305)
Q Consensus 63 qvGDvIAfKLLELS~nYTPEVSsYKeGKVv~yDp~tk~I~Le 104 (305)
|+||.+|||+- ..-+=-+|..++|++|+..+++++++
T Consensus 1 q~G~~VAak~~-----~~~~~~~WIla~Vv~~~~~~~rYeV~ 37 (130)
T PF07039_consen 1 QPGDQVAAKVK-----QGNEEEEWILAEVVKYNSDGNRYEVE 37 (130)
T ss_dssp -TT-EEEEEEC-----TTTTTCEEEEEEEEEEETTTTEEEEE
T ss_pred CCCCEEEEEcC-----CCCCCCCEEEEEEEEEeCCCCEEEEe
Confidence 68999999997 22222678999999999999888887
No 2
>cd01735 LSm12_N LSm12 belongs to a family of Sm-like proteins that associate with RNA to form the core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation. Members of this family share a highly conserved Sm fold containing an N-terminal helix followed by a strongly bent five-stranded antiparallel beta-sheet that associates with other Sm proteins to form hexameric and heptameric ring structures. In addition to the N-terminal Sm-like domain, LSm12 has a novel methyltransferase domain.
Probab=70.08 E-value=4.9 Score=30.90 Aligned_cols=20 Identities=15% Similarity=0.283 Sum_probs=17.8
Q ss_pred ceeeeEEeeeeCCCCeEEEE
Q 045520 85 SFRVGKISWYDSDTNKILLA 104 (305)
Q Consensus 85 sYKeGKVv~yDp~tk~I~Le 104 (305)
+--+|+|+.||..|+++.|+
T Consensus 17 ~~ieGEV~afD~~tk~lIlk 36 (61)
T cd01735 17 QRLQGEVVAFDYPSKMLILK 36 (61)
T ss_pred ceEEEEEEEecCCCcEEEEE
Confidence 34689999999999999998
No 3
>PF03088 Str_synth: Strictosidine synthase; InterPro: IPR018119 This entry represents a conserved region found in strictosidine synthase (4.3.3.2 from EC), a key enzyme in alkaloid biosynthesis. It catalyses the Pictet-Spengler stereospecific condensation of tryptamine with secologanin to form strictosidine []. The structure of the native enzyme from the Indian medicinal plant Rauvolfia serpentina (Serpentwood) (Devilpepper) represents the first example of a six-bladed four-stranded beta-propeller fold from the plant kingdom [].; GO: 0016844 strictosidine synthase activity, 0009058 biosynthetic process; PDB: 2FPB_A 2V91_B 2FP8_A 3V1S_B 2FPC_A 2VAQ_A 2FP9_B.
Probab=53.18 E-value=17 Score=29.41 Aligned_cols=19 Identities=21% Similarity=0.384 Sum_probs=15.5
Q ss_pred eeeEEeeeeCCCCeEEEEE
Q 045520 87 RVGKISWYDSDTNKILLAP 105 (305)
Q Consensus 87 KeGKVv~yDp~tk~I~Le~ 105 (305)
.-|+++.|||.|+++++.+
T Consensus 35 ~~GRll~ydp~t~~~~vl~ 53 (89)
T PF03088_consen 35 PTGRLLRYDPSTKETTVLL 53 (89)
T ss_dssp --EEEEEEETTTTEEEEEE
T ss_pred CCcCEEEEECCCCeEEEeh
Confidence 3699999999999988774
No 4
>PF09465 LBR_tudor: Lamin-B receptor of TUDOR domain; InterPro: IPR019023 The Lamin-B receptor is a chromatin and lamin binding protein in the inner nuclear membrane. It is one of the integral inner nuclear envelope membrane proteins responsible for targeting nuclear membranes to chromatin, being a downstream effector of Ran, a small Ras-like nuclear GTPase which regulates NE assembly. Lamin-B receptor interacts with importin beta, a Ran-binding protein, thereby directly contributing to the fusion of membrane vesicles and the formation of the nuclear envelope []. ; PDB: 2L8D_A 2DIG_A.
Probab=50.69 E-value=30 Score=26.46 Aligned_cols=27 Identities=26% Similarity=0.349 Sum_probs=22.2
Q ss_pred CCCCCCceeeeEEeeeeCCCCeEEEEE
Q 045520 79 WTPEPSSFRVGKISWYDSDTNKILLAP 105 (305)
Q Consensus 79 YTPEVSsYKeGKVv~yDp~tk~I~Le~ 105 (305)
+=|.=+.|=+|+|++||..++...++-
T Consensus 15 rWP~s~lYYe~kV~~~d~~~~~y~V~Y 41 (55)
T PF09465_consen 15 RWPGSSLYYEGKVLSYDSKSDRYTVLY 41 (55)
T ss_dssp E-TTTS-EEEEEEEEEETTTTEEEEEE
T ss_pred ECCCCCcEEEEEEEEecccCceEEEEE
Confidence 458889999999999999999998873
No 5
>PF09816 EAF: RNA polymerase II transcription elongation factor; InterPro: IPR019194 This entry represents the N-terminal domain of ELL-associated factor (Eaf) proteins, which act as transcriptional transactivators of ELL and ELL2 RNA Polymerase II (Pol II) transcriptional elongation factors [, , , ]. Eaf proteins form a stable heterodimer complex with ELL proteins to facilitate the binding of RNA polymerase II to activate transcription elongation. ELL and EAF1 are components of Cajal bodies, which have a role in leukemogenesis []. EAF1 also has the capacity to interact with ELL1 and ELL2. The N terminus of approx 120 of EAF1 has a region of high serine, aspartic acid, and glutamic acid residues [, ].
Probab=34.60 E-value=39 Score=27.63 Aligned_cols=18 Identities=17% Similarity=0.455 Sum_probs=16.2
Q ss_pred EeeeeCCCCeEEEEEcCC
Q 045520 91 ISWYDSDTNKILLAPVPE 108 (305)
Q Consensus 91 Vv~yDp~tk~I~Le~v~~ 108 (305)
|+.||+.++.++||+|..
T Consensus 81 VLifD~~~~~f~LErl~s 98 (109)
T PF09816_consen 81 VLIFDPETGEFVLERLSS 98 (109)
T ss_pred EEEEECCCCEEEEEEcce
Confidence 677999999999999875
No 6
>PF07076 DUF1344: Protein of unknown function (DUF1344); InterPro: IPR009780 This family consists of several short, hypothetical bacterial proteins of around 80 residues in length. Members of this family are found in Rhizobium, Agrobacterium and Brucella species. The function of this family is unknown.
Probab=30.35 E-value=49 Score=25.77 Aligned_cols=25 Identities=32% Similarity=0.325 Sum_probs=20.0
Q ss_pred eeeEEeeeeCCCCeEEEEEcCCCCC
Q 045520 87 RVGKISWYDSDTNKILLAPVPEYPL 111 (305)
Q Consensus 87 KeGKVv~yDp~tk~I~Le~v~~~P~ 111 (305)
-+|+|.++|+.+..|+|.==..|.+
T Consensus 5 veG~I~~id~~~~titLdDGksy~l 29 (61)
T PF07076_consen 5 VEGTIKSIDPETMTITLDDGKSYKL 29 (61)
T ss_pred ceEEEEEEcCCceEEEecCCCEEEC
Confidence 4899999999999999986444433
No 7
>PF09701 Cas_Cmr5: CRISPR-associated protein (Cas_Cmr5); InterPro: IPR010160 Clustered Regularly Interspaced Short Palindromic Repeats (CRISPR) are a family of DNA direct repeats separated by regularly sized non-repetitive spacer sequences that are found in most bacterial and archaeal genomes []. CRISPRs appear to provide acquired resistance against bacteriophages, possibly acting with an RNA interference-like mechanism to inhibit gene functions of invasive DNA elements [, ]. Differences in the number and type of spacers between CRISPR repeats correlate with phage sensitivity. It is thought that following phage infection, bacteria integrate new spacers derived from phage genomic sequences, and that the removal or addition of particular spacers modifies the phage-resistance phenotype of the cell. Therefore, the specificity of CRISPRs may be determined by spacer-phage sequence similarity. In addition, there are many protein families known as CRISPR-associated sequences (Cas), which are encoded in the vicinity of CRISPR loci []. CRISPR/cas gene regions can be quite large, with up to 20 different, tandem-arranged cas genes next to a CRISPR cluster or filling the region between two repeat clusters. Cas genes and CRISPRs are found on mobile genetic elements such as plasmids, and have undergone extensive horizontal transfer. Cas proteins are thought to be involved in the propagation and functioning of CRISPRs. Some Cas proteins show similarity to helicases and repair proteins, although the functions of most are unknown. Cas families can be divided into subtypes according to operon organisation and phylogeny. This entry represents a family of Cas proteins as represented by TM1791.1 from Thermotoga maritima. This family of Cas proteins are found in both archaeal and bacterial species.; PDB: 2OEB_A 2ZOP_A.
Probab=29.18 E-value=20 Score=29.72 Aligned_cols=18 Identities=39% Similarity=0.589 Sum_probs=14.7
Q ss_pred hhccccchhHHhhhccCC
Q 045520 287 LRSSALGPTMAFLRSENG 304 (305)
Q Consensus 287 lR~sAlGPtma~LR~qn~ 304 (305)
++.+.||+|+|||.++.+
T Consensus 39 I~~nGL~qtlAF~~sK~~ 56 (122)
T PF09701_consen 39 ILQNGLGQTLAFLLSKGK 56 (122)
T ss_dssp HHHH-HHHHHHHHHCTSS
T ss_pred HHHcCHHHHHHHHHhccc
Confidence 578999999999998764
No 8
>PF05257 CHAP: CHAP domain; InterPro: IPR007921 The CHAP (cysteine, histidine-dependent amidohydrolases/peptidases) domain is a region between 110 and 140 amino acids that is found in proteins from bacteria, bacteriophages, archaea and eukaryotes of the Trypanosomidae family. Many of these proteins are uncharacterised, but it has been proposed that they may function mainly in peptidoglycan hydrolysis. The CHAP domain is found in a wide range of protein architectures; it is commonly associated with bacterial type SH3 domains and with several families of amidase domains. It has been suggested that CHAP domain containing proteins utilise a catalytic cysteine residue in a nucleophilic-attack mechanism [, ]. The CHAP domain contains two invariant residues, a cysteine and a histidine. These residues form part of the putative active site of CHAP domain containing proteins. Secondary structure predictions show that the CHAP domain belongs to the alpha + beta structural class, with the N-terminal half largely containing predicted alpha helices and the C-terminal half principally composed of predicted beta strands [, ]. Some proteins known to contain a CHAP domain are listed below: Bacterial and trypanosomal glutathionylspermidine amidases. A variety of bacterial autolysins. A Nocardia aerocolonigenes putative esterase. Streptococcus pneumoniae choline-binding protein D. Methanosarcina mazei protein MM2478, a putative chloride channel. Several phage-encoded peptidoglycan hydrolases. Cysteine peptidases belonging to MEROPS peptidase family C51 (D-alanyl-glycyl endopeptidase, clan CA). ; PDB: 2LRJ_A 2VPM_B 2VOB_B 2VPS_A 2K3A_A 2IO9_A 2IO8_A 2IOB_A 2IOA_B 2IO7_B ....
Probab=28.83 E-value=1.2e+02 Score=24.23 Aligned_cols=39 Identities=15% Similarity=0.288 Sum_probs=21.3
Q ss_pred CCCCCCCCCEEEEEEeeeCCCCCCCCCce-eeeEEeeeeCCCCeEEEE
Q 045520 58 YISLPKEGDVIAYRLIELTSSWTPEPSSF-RVGKISWYDSDTNKILLA 104 (305)
Q Consensus 58 La~~PqvGDvIAfKLLELS~nYTPEVSsY-KeGKVv~yDp~tk~I~Le 104 (305)
....||+||+|.|+ ... -..| -+|-|...........+|
T Consensus 59 ~~~~P~~Gdivv~~-----~~~---~~~~GHVaIV~~v~~~~~i~v~e 98 (124)
T PF05257_consen 59 TGSTPQPGDIVVWD-----SGS---GGGYGHVAIVESVNDGGTITVIE 98 (124)
T ss_dssp ECS---TTEEEEEE-----ECT---TTTT-EEEEEEEE-TTSEEEEEE
T ss_pred cCcccccceEEEec-----cCC---CCCCCeEEEEEEECCCCEEEEEE
Confidence 45679999999998 111 1112 678888774444555554
No 9
>PF05652 DcpS: Scavenger mRNA decapping enzyme (DcpS) N-terminal; InterPro: IPR008594 This entry represents scavenger mRNA decapping enzymes, such as Dcp2 and DcpS. DcpS is a scavenger pyrophosphatase that hydrolyses the residual cap structure following 3' to 5' mRNA degradation. DcpS uses cap dinucleotides or capped oligonucleotides as substrate to release m(7)GMP (N7-methyl GMP), while Dcp2 uses capped mRNA as substrate in order to hydrolyse the cap to release m(7)GDP (N7-methyl GDP) []. The association of DcpS with 3' to 5' exonuclease exosome components suggests that these two activities are linked and there is a coupled exonucleolytic decay-dependent decapping pathway. The family contains a histidine triad (HIT) sequence with three histidines separated by hydrophobic residues []. The central histidine within the DcpS HIT motif is critical for decapping activity and defines the HIT motif as a new mRNA decapping domain, making DcpS the first member of the HIT family of proteins with a defined biological function. This family is related to IPR001310 from INTERPRO More information about these proteins can be found at Protein of the Month: RNA Exosomes [].; GO: 0016787 hydrolase activity, 0000290 deadenylation-dependent decapping of nuclear-transcribed mRNA; PDB: 1VLR_B 1XMM_D 1XML_B 1ST0_A 3BLA_B 3BL9_B 3BL7_B 1ST4_B.
Probab=28.48 E-value=86 Score=26.18 Aligned_cols=23 Identities=26% Similarity=0.281 Sum_probs=20.3
Q ss_pred CCceeeeEEeeeeCCCCeEEEEE
Q 045520 83 PSSFRVGKISWYDSDTNKILLAP 105 (305)
Q Consensus 83 VSsYKeGKVv~yDp~tk~I~Le~ 105 (305)
|+.|+.-||+.-|+.++.|.|.=
T Consensus 3 l~~F~~~rvL~~d~~~K~i~llG 25 (110)
T PF05652_consen 3 LSDFKFERVLNEDPQTKSISLLG 25 (110)
T ss_dssp SS-EEEEEEEEEETTTTEEEEEE
T ss_pred ccccEEEEecCCCCCCCeEEEEe
Confidence 78999999999999999999873
No 10
>PF14157 YmzC: YmzC-like protein; PDB: 3KVP_E.
Probab=27.84 E-value=67 Score=25.31 Aligned_cols=21 Identities=43% Similarity=0.340 Sum_probs=17.1
Q ss_pred CceeeeEEeeeeCCCCeEEEE
Q 045520 84 SSFRVGKISWYDSDTNKILLA 104 (305)
Q Consensus 84 SsYKeGKVv~yDp~tk~I~Le 104 (305)
.+...=||..||+.++.|+|.
T Consensus 36 ~e~~~iKIfkyd~~tNei~L~ 56 (63)
T PF14157_consen 36 DEDGQIKIFKYDEDTNEITLK 56 (63)
T ss_dssp -ETTEEEEEEEETTTTEEEEE
T ss_pred ecCCeEEEEEeCCCCCeEEEE
Confidence 445567999999999999985
No 11
>TIGR03847 conserved hypothetical protein. The conserved hypothetical protein described here occurs as part of the trio of uncharacterized proteins common in the Actinobacteria.
Probab=25.09 E-value=1e+02 Score=28.50 Aligned_cols=26 Identities=27% Similarity=0.626 Sum_probs=21.1
Q ss_pred CCCCceeeeEE-eeeeCCCCeEEEEEc
Q 045520 81 PEPSSFRVGKI-SWYDSDTNKILLAPV 106 (305)
Q Consensus 81 PEVSsYKeGKV-v~yDp~tk~I~Le~v 106 (305)
|=--+||+|.+ ++||+.+.+|.||..
T Consensus 83 PveeeFrvGtm~LgwD~e~~~vviEa~ 109 (177)
T TIGR03847 83 PIEEEFRVGTMGLGWDPETDRVVIEAQ 109 (177)
T ss_pred CcchhheeeeeEEeEcCCCCEEEEEEe
Confidence 33457899998 689999999999854
No 12
>PF10030 DUF2272: Uncharacterized protein conserved in bacteria (DUF2272); InterPro: IPR019262 This is a domain of unknown function found in proteins of unknown function.
Probab=24.80 E-value=58 Score=29.68 Aligned_cols=20 Identities=35% Similarity=0.625 Sum_probs=14.8
Q ss_pred cccCCCCCCCCCCCCCEEEE
Q 045520 51 EFEKLPPYISLPKEGDVIAY 70 (305)
Q Consensus 51 Dye~LP~La~~PqvGDvIAf 70 (305)
.|-...+-...|++||+|+|
T Consensus 83 ~~~~~~~~~y~P~~GDlIc~ 102 (183)
T PF10030_consen 83 PFRARDPAEYKPRPGDLICY 102 (183)
T ss_pred cccccCcCCCCCCCCCEEEe
Confidence 44444555668999999998
No 13
>PF03843 Slp: Outer membrane lipoprotein Slp family; InterPro: IPR004658 Slp superfamily members are present in the Gram-negative gamma proteobacteria Escherichia coli (which also contains a close paralog), Haemophilus influenzae and Pasteurella multocida and Vibrio cholerae. The known members of the family to date share a motif LX[GA]C near the N terminus, which is compatible with the possibility that the protein is modified into a lipoprotein with Cys as the new N terminus. Slp from E. coli is known to be a lipoprotein of the outer membrane and to be expressed in response to carbon starvation.; GO: 0019867 outer membrane
Probab=24.67 E-value=1.3e+02 Score=26.44 Aligned_cols=61 Identities=21% Similarity=0.174 Sum_probs=43.8
Q ss_pred eeEEeeeeCCCCeEEEEEcCCCCCccccCCchhhhccCCCcccCCCCcEEEEeccccceeeeecCCCcccc
Q 045520 88 VGKISWYDSDTNKILLAPVPEYPLAFEKKTDENVSALQSETLYGEDGSLRIDFSLLLDVRIIKHGEKANEV 158 (305)
Q Consensus 88 eGKVv~yDp~tk~I~Le~v~~~P~~~e~pg~ed~s~~kfDlvYqeDGsl~VeyssLiDpRLI~~~~s~~~~ 158 (305)
=|+|+......++-+||+ -.+|+... + +++.--+..|-+.+.+.-++||=+...+...+..
T Consensus 40 GG~I~~v~n~~~~T~leV-~~~PLd~~--g-------rP~~~~~s~GRFla~~~gFLDP~~y~~Gr~vTV~ 100 (160)
T PF03843_consen 40 GGVIVNVRNLPDQTELEV-VQYPLDSS--G-------RPQTDDPSQGRFLARVPGFLDPAIYAPGRLVTVV 100 (160)
T ss_pred CCEEEEEEECCCceEEEE-EEccCCCC--C-------CcCCCCCCCCEEEEEeCCCcCHHHcCCCCEEEEE
Confidence 378888888888888884 45666432 3 5555544669999999999999888766655444
No 14
>TIGR02594 conserved hypothetical protein TIGR02594. Members of this protein family known so far are restricted to the bacteria, and for the most to the proteobacteria. The function is unknown.
Probab=24.00 E-value=1.7e+02 Score=24.81 Aligned_cols=34 Identities=24% Similarity=0.222 Sum_probs=24.8
Q ss_pred CCCCCCEEEEEEeeeCCCCCCCCCceeeeEEeeeeCCCCeEEEE
Q 045520 61 LPKEGDVIAYRLIELTSSWTPEPSSFRVGKISWYDSDTNKILLA 104 (305)
Q Consensus 61 ~PqvGDvIAfKLLELS~nYTPEVSsYKeGKVv~yDp~tk~I~Le 104 (305)
.||+||+|-|+. + +..-+|=++..|.+.++|.+.
T Consensus 73 ~p~~GDiv~f~~---~-------~~~HVGi~~g~~~~~g~i~~l 106 (129)
T TIGR02594 73 KPAYGCIAVKRR---G-------GGGHVGFVVGKDKQTGTIIVL 106 (129)
T ss_pred CCCccEEEEEEC---C-------CCCEEEEEEeEcCCCCEEEEe
Confidence 689999999962 1 134789999888765666554
No 15
>PF11290 DUF3090: Protein of unknown function (DUF3090); InterPro: IPR021441 This family of proteins with unknown function appears to be restricted to Actinobacteria.
Probab=22.32 E-value=95 Score=28.48 Aligned_cols=23 Identities=26% Similarity=0.608 Sum_probs=20.0
Q ss_pred CceeeeEE-eeeeCCCCeEEEEEc
Q 045520 84 SSFRVGKI-SWYDSDTNKILLAPV 106 (305)
Q Consensus 84 SsYKeGKV-v~yDp~tk~I~Le~v 106 (305)
-+||+|.+ ++||+.+.+|.|+..
T Consensus 84 ~eFRVGtM~LgwD~~~~~vviea~ 107 (171)
T PF11290_consen 84 EEFRVGTMGLGWDPETARVVIEAQ 107 (171)
T ss_pred hheeeeeEEeeEcCCCCEEEEEee
Confidence 46899997 799999999999973
No 16
>cd05687 S1_RPS1_repeat_ec1_hs1 S1_RPS1_repeat_ec1_hs1: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists of 4-6 tandem S1 domains. In some bacteria, the tandem S1 array is located C-terminal to a 4-hydroxy-3-methylbut-2-enyl diphosphate reductase (HMBPP reductase) domain. While RPS1 is found primarily in bacteria, proteins with tandem RPS1-like domains have been identified in plants and humans, however these lack the N-terminal HMBPP reductase domain. This CD includes S1 repeat 1 of the Escherichia coli and Homo sapiens RPS1 (ec1 and hs1, respectively). Autoantibodies to double-stranded DNA from patients with systemic lupus erythematosus cross-react with the human RPS1 homolog.
Probab=20.15 E-value=1.9e+02 Score=20.64 Aligned_cols=16 Identities=19% Similarity=0.272 Sum_probs=11.8
Q ss_pred CCCCCCEEEEEEeeeC
Q 045520 61 LPKEGDVIAYRLIELT 76 (305)
Q Consensus 61 ~PqvGDvIAfKLLELS 76 (305)
..++||+|-++++++.
T Consensus 44 ~~~~Gd~i~~~i~~~~ 59 (70)
T cd05687 44 EVKVGDEVEVYVLRVE 59 (70)
T ss_pred cCCCCCEEEEEEEEEE
Confidence 3688999888766654
Done!