Query 029900
Match_columns 185
No_of_seqs 128 out of 1140
Neff 3.8
Searched_HMMs 46136
Date Fri Mar 29 05:25:14 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/029900.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/029900hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 CHL00102 rps20 ribosomal prote 100.0 1.3E-32 2.9E-37 208.1 11.0 92 75-168 1-92 (93)
2 TIGR00029 S20 ribosomal protei 100.0 3.1E-32 6.8E-37 203.7 10.9 86 75-169 1-86 (87)
3 PRK00239 rpsT 30S ribosomal pr 100.0 7.7E-32 1.7E-36 201.7 11.2 87 75-170 1-87 (88)
4 COG0268 RpsT Ribosomal protein 100.0 9.4E-32 2E-36 202.2 10.8 87 75-170 1-87 (88)
5 PF01649 Ribosomal_S20p: Ribos 100.0 2.1E-30 4.5E-35 192.3 8.9 84 76-168 1-84 (84)
6 PF07875 Coat_F: Coat F domain 75.3 3 6.4E-05 28.7 2.6 19 161-179 45-63 (64)
7 PRK13452 atpC F0F1 ATP synthas 60.5 21 0.00045 28.9 5.0 52 126-178 91-142 (145)
8 PF10925 DUF2680: Protein of u 50.0 81 0.0018 22.1 6.0 39 136-175 19-57 (59)
9 PF11848 DUF3368: Domain of un 49.1 27 0.00059 23.0 3.3 32 138-179 6-37 (48)
10 PF13447 Multi-haem_cyto: Seve 48.1 25 0.00054 31.2 3.9 49 95-157 218-266 (267)
11 COG5577 Spore coat protein [Ce 47.4 16 0.00035 30.0 2.4 20 162-181 103-122 (145)
12 smart00787 Spc7 Spc7 kinetocho 41.5 2.7E+02 0.006 25.2 10.1 67 96-176 224-290 (312)
13 smart00745 MIT Microtubule Int 40.8 1.2E+02 0.0026 20.9 7.3 42 101-148 4-45 (77)
14 PRK13666 hypothetical protein; 33.3 1.3E+02 0.0029 23.3 5.3 39 132-170 48-86 (92)
15 KOG4403 Cell surface glycoprot 30.3 3.2E+02 0.0069 27.1 8.4 39 94-147 236-274 (575)
16 PF10163 EnY2: Transcription f 28.6 1.2E+02 0.0026 22.3 4.2 64 82-152 16-80 (86)
17 TIGR03042 PS_II_psbQ_bact phot 28.1 72 0.0016 26.3 3.3 46 97-144 92-137 (142)
18 cd03281 ABC_MSH5_euk MutS5 hom 27.8 43 0.00094 27.9 2.0 24 159-182 42-67 (213)
19 PF05620 DUF788: Protein of un 25.9 54 0.0012 26.8 2.2 16 75-91 1-16 (170)
20 COG3937 Uncharacterized conser 25.3 2.4E+02 0.0053 22.4 5.7 39 129-167 18-56 (108)
21 cd02679 MIT_spastin MIT: domai 21.7 3.4E+02 0.0073 20.0 6.6 62 103-170 6-73 (79)
22 PF11553 DUF3231: Protein of u 21.5 74 0.0016 25.3 2.2 27 158-184 136-162 (166)
23 PF04212 MIT: MIT (microtubule 20.8 2.8E+02 0.0061 18.8 7.4 41 102-148 2-42 (69)
24 PTZ00151 translationally contr 20.1 3E+02 0.0064 23.4 5.6 21 95-115 85-105 (172)
No 1
>CHL00102 rps20 ribosomal protein S20
Probab=100.00 E-value=1.3e-32 Score=208.06 Aligned_cols=92 Identities=41% Similarity=0.578 Sum_probs=87.6
Q ss_pred ccCchhHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHhccCCCCCCCCccchHHHHHHHHHHHHHHHHhhhCcchhhh
Q 029900 75 KKKADSAAKRARQAEKRRIYNKSRKSEVKTRMKKVLEALDGLRKKPDAQPEEVLPVEKLIAEAYSVIDKAVKVGTLHRNT 154 (185)
Q Consensus 75 maniKSA~KRiRq~eKrRlrNrs~KS~vRT~iKKv~~AIeagdk~~~a~a~d~~~A~~~l~~a~S~IDKAakKGVIHKNt 154 (185)
|||++||+||+||+|++|+||++++|+|||+||+|+++|++|++.+ +++|.++|+++|..+++.||+|++|||||+|+
T Consensus 1 MaN~kSa~KR~rq~ekrr~rN~~~kS~~rT~iKk~~~ai~~~~~~~--~~~d~~~a~~~l~~a~s~iDkaa~KGviHkN~ 78 (93)
T CHL00102 1 MANNKSAIKRIKISERNRLRNKAYKSSVKTLIKKYLKNLEDYKTSP--NSNNKKKVQETLSSVYSKIDKAVKKGVFHKNT 78 (93)
T ss_pred CCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcccC--CcccHHHHHHHHHHHHHHHHHHHHcCCcchhH
Confidence 8999999999999999999999999999999999999999987654 46889999999999999999999999999999
Q ss_pred HHHHHHHHHHHHHH
Q 029900 155 GARRKSRLARRKKA 168 (185)
Q Consensus 155 AARKKSRLakkin~ 168 (185)
|+|+||||+++|+.
T Consensus 79 AaRkKSRL~k~v~~ 92 (93)
T CHL00102 79 AARKKSKLAKALKK 92 (93)
T ss_pred HHHHHHHHHHHhcc
Confidence 99999999999874
No 2
>TIGR00029 S20 ribosomal protein S20. This family consists of bacterial (and chloroplast) examples of the bacteria ribosomal small subunit protein S20.
Probab=99.98 E-value=3.1e-32 Score=203.69 Aligned_cols=86 Identities=40% Similarity=0.494 Sum_probs=82.6
Q ss_pred ccCchhHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHhccCCCCCCCCccchHHHHHHHHHHHHHHHHhhhCcchhhh
Q 029900 75 KKKADSAAKRARQAEKRRIYNKSRKSEVKTRMKKVLEALDGLRKKPDAQPEEVLPVEKLIAEAYSVIDKAVKVGTLHRNT 154 (185)
Q Consensus 75 maniKSA~KRiRq~eKrRlrNrs~KS~vRT~iKKv~~AIeagdk~~~a~a~d~~~A~~~l~~a~S~IDKAakKGVIHKNt 154 (185)
|||++||+||+||+|++|++|++++|+|||+||+|+.+|++|| .++|+++|..+++.||+|++|||||+|+
T Consensus 1 MaN~kSa~KR~r~~~krr~~N~~~kS~~kT~iKk~~~ai~~~d---------~~~a~~~l~~a~s~iDkaa~KgviHkN~ 71 (87)
T TIGR00029 1 MANIKSAEKRIRQNEKRRLHNASQKSKMKTIIKKVYAAIAAGD---------KDKAQEAFKEAAKKLDRAARKGIIHKNK 71 (87)
T ss_pred CCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCC---------HHHHHHHHHHHHHHHHHHHHCCCcchhH
Confidence 8999999999999999999999999999999999999999865 4679999999999999999999999999
Q ss_pred HHHHHHHHHHHHHHH
Q 029900 155 GARRKSRLARRKKAV 169 (185)
Q Consensus 155 AARKKSRLakkin~l 169 (185)
|+|+||||++.|+++
T Consensus 72 AaRkKSrL~k~v~~~ 86 (87)
T TIGR00029 72 AARKKSRLAAQLNKL 86 (87)
T ss_pred HHHHHHHHHHHHhhc
Confidence 999999999999975
No 3
>PRK00239 rpsT 30S ribosomal protein S20; Reviewed
Probab=99.97 E-value=7.7e-32 Score=201.71 Aligned_cols=87 Identities=46% Similarity=0.546 Sum_probs=83.1
Q ss_pred ccCchhHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHhccCCCCCCCCccchHHHHHHHHHHHHHHHHhhhCcchhhh
Q 029900 75 KKKADSAAKRARQAEKRRIYNKSRKSEVKTRMKKVLEALDGLRKKPDAQPEEVLPVEKLIAEAYSVIDKAVKVGTLHRNT 154 (185)
Q Consensus 75 maniKSA~KRiRq~eKrRlrNrs~KS~vRT~iKKv~~AIeagdk~~~a~a~d~~~A~~~l~~a~S~IDKAakKGVIHKNt 154 (185)
|+|++||+||+||++++|++|++++|+|||+||+|+.+|++|| .++|+++|..+++.||+|++|||||+|+
T Consensus 1 MaN~kSa~KR~r~~~krr~~N~~~kS~~kT~iKk~~~ai~~~~---------~~~a~~~~~~a~s~iDka~~KgiiHkN~ 71 (88)
T PRK00239 1 MANIKSAKKRIRQNEKRRLRNKSRKSRVRTAIKKVEAAIAAGD---------KEAAEEALKAAQSKIDKAASKGVIHKNK 71 (88)
T ss_pred CCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCC---------HHHHHHHHHHHHHHHHHHHHCCCcchhH
Confidence 8999999999999999999999999999999999999999754 4789999999999999999999999999
Q ss_pred HHHHHHHHHHHHHHHH
Q 029900 155 GARRKSRLARRKKAVE 170 (185)
Q Consensus 155 AARKKSRLakkin~l~ 170 (185)
|+|+||||+++|+++.
T Consensus 72 AaRkKSrL~~~~~~~~ 87 (88)
T PRK00239 72 AARKKSRLAAKVNALA 87 (88)
T ss_pred HHHHHHHHHHHHHhhc
Confidence 9999999999999863
No 4
>COG0268 RpsT Ribosomal protein S20 [Translation, ribosomal structure and biogenesis]
Probab=99.97 E-value=9.4e-32 Score=202.19 Aligned_cols=87 Identities=44% Similarity=0.546 Sum_probs=83.4
Q ss_pred ccCchhHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHhccCCCCCCCCccchHHHHHHHHHHHHHHHHhhhCcchhhh
Q 029900 75 KKKADSAAKRARQAEKRRIYNKSRKSEVKTRMKKVLEALDGLRKKPDAQPEEVLPVEKLIAEAYSVIDKAVKVGTLHRNT 154 (185)
Q Consensus 75 maniKSA~KRiRq~eKrRlrNrs~KS~vRT~iKKv~~AIeagdk~~~a~a~d~~~A~~~l~~a~S~IDKAakKGVIHKNt 154 (185)
|+||+||+||+||+|+||+||+++||+|||+||+|+++|+.|| ++.|+++|..+++.||++++|||||+|+
T Consensus 1 MAN~~SA~KR~r~~~krr~rN~~~kS~~rT~iKk~~~ai~~gd---------~~~A~~~l~~a~~~idkaa~KGvihkN~ 71 (88)
T COG0268 1 MANIKSAKKRARQSEKRRLRNKSRKSALRTAIKKVEAAIEAGD---------KEAAKAALKEAQKKIDKAASKGVIHKNK 71 (88)
T ss_pred CCChHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHcCC---------HHHHHHHHHHHHHHHHHHHHcCcccccH
Confidence 8999999999999999999999999999999999999999864 4789999999999999999999999999
Q ss_pred HHHHHHHHHHHHHHHH
Q 029900 155 GARRKSRLARRKKAVE 170 (185)
Q Consensus 155 AARKKSRLakkin~l~ 170 (185)
|+|+||||+.++|++.
T Consensus 72 AaR~kSRLa~~~~~~~ 87 (88)
T COG0268 72 AARKKSRLAAKLNKLA 87 (88)
T ss_pred HHHHHHHHHHHHhhhc
Confidence 9999999999999874
No 5
>PF01649 Ribosomal_S20p: Ribosomal protein S20; InterPro: IPR002583 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms. 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 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; PDB: 1I94_T 1FJG_T 4DH9_T 3KNJ_T 3TVG_W 3UYF_W 3V28_T 3KIS_t 3HUY_T 1HNX_T ....
Probab=99.97 E-value=2.1e-30 Score=192.26 Aligned_cols=84 Identities=48% Similarity=0.630 Sum_probs=77.0
Q ss_pred cCchhHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHhccCCCCCCCCccchHHHHHHHHHHHHHHHHhhhCcchhhhH
Q 029900 76 KKADSAAKRARQAEKRRIYNKSRKSEVKTRMKKVLEALDGLRKKPDAQPEEVLPVEKLIAEAYSVIDKAVKVGTLHRNTG 155 (185)
Q Consensus 76 aniKSA~KRiRq~eKrRlrNrs~KS~vRT~iKKv~~AIeagdk~~~a~a~d~~~A~~~l~~a~S~IDKAakKGVIHKNtA 155 (185)
||++||+||+||++++|++|++++|+|||+||+|+++|++|| .++|+++|..+++.||+|+++||||+|+|
T Consensus 1 aN~kSa~KR~r~~~krr~~Nr~~kS~~rT~iKk~~~ai~~~~---------~~~a~~~l~~a~s~iDka~~kgiihkN~A 71 (84)
T PF01649_consen 1 ANIKSAKKRIRQNEKRRARNRSRKSRVRTAIKKFREAIEAGD---------KEEAKELLRKAYSAIDKAAKKGIIHKNKA 71 (84)
T ss_dssp ---SSTHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTT----------HHHHHHHHHHHHHHHHHHHHHSSSTTTHH
T ss_pred CCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccC---------hHHHHHHHHHHHHHHHHHHHcCCcchhHH
Confidence 699999999999999999999999999999999999999865 46799999999999999999999999999
Q ss_pred HHHHHHHHHHHHH
Q 029900 156 ARRKSRLARRKKA 168 (185)
Q Consensus 156 ARKKSRLakkin~ 168 (185)
+|+||||++.||+
T Consensus 72 aRkKSRL~~~~nK 84 (84)
T PF01649_consen 72 ARKKSRLAKKLNK 84 (84)
T ss_dssp HHHHHHHHHHCHT
T ss_pred HHHHHHHHHHhcC
Confidence 9999999999874
No 6
>PF07875 Coat_F: Coat F domain; InterPro: IPR012851 The Coat F proteins contribute to the Bacillales spore coat. They occur multiple times in the genomes in which they are found. Bacillus subtilis endospore protein coats protect them and may play a role in their germination []. Spore coat protein F, on the outer surface of the endospore, is one of a suite of proteins that could be used to differentiate between members of the Bacillus genus [].
Probab=75.29 E-value=3 Score=28.72 Aligned_cols=19 Identities=21% Similarity=0.513 Sum_probs=15.3
Q ss_pred HHHHHHHHHHHhhCcCCCC
Q 029900 161 RLARRKKAVEIHHGWYTPT 179 (185)
Q Consensus 161 RLakkin~l~~~~g~~~p~ 179 (185)
.+...|-.+..++|||.|.
T Consensus 45 ~~~~~l~~~m~~kGwY~~~ 63 (64)
T PF07875_consen 45 QMQYELFNYMNQKGWYQPP 63 (64)
T ss_pred HHHHHHHHHHHHcCCcCCC
Confidence 4566778889999999884
No 7
>PRK13452 atpC F0F1 ATP synthase subunit epsilon; Provisional
Probab=60.54 E-value=21 Score=28.88 Aligned_cols=52 Identities=23% Similarity=0.277 Sum_probs=31.8
Q ss_pred cchHHHHHHHHHHHHHHHHhhhCcchhhhHHHHHHHHHHHHHHHHHhhCcCCC
Q 029900 126 EVLPVEKLIAEAYSVIDKAVKVGTLHRNTGARRKSRLARRKKAVEIHHGWYTP 178 (185)
Q Consensus 126 d~~~A~~~l~~a~S~IDKAakKGVIHKNtAARKKSRLakkin~l~~~~g~~~p 178 (185)
|.+.|++.+..|...|.+. .++..-...|...-.|...+++.+..+.|+|-.
T Consensus 91 D~~~ae~a~~~Ae~~L~~~-~~~~~~~~~a~~~L~rA~~Rl~~~~~~~~~~~~ 142 (145)
T PRK13452 91 NQAEAEKARARAKEVLKNP-DASKLDIEAANKRLKEADARLKALNSSNGLYYS 142 (145)
T ss_pred CHHHHHHHHHHHHHHHHhc-ccchHHHHHHHHHHHHHHHHHHHHhhcCCceec
Confidence 4555666666666666554 233333444555566666677777888888853
No 8
>PF10925 DUF2680: Protein of unknown function (DUF2680); InterPro: IPR024485 Members in this family of proteins are annotated as YckD however currently no function is known.
Probab=50.00 E-value=81 Score=22.12 Aligned_cols=39 Identities=21% Similarity=0.403 Sum_probs=32.7
Q ss_pred HHHHHHHHHhhhCcchhhhHHHHHHHHHHHHHHHHHhhCc
Q 029900 136 EAYSVIDKAVKVGTLHRNTGARRKSRLARRKKAVEIHHGW 175 (185)
Q Consensus 136 ~a~S~IDKAakKGVIHKNtAARKKSRLakkin~l~~~~g~ 175 (185)
.=-..||++|+-|+|-+=.|.--|.++..+++..... |+
T Consensus 19 ~kK~~idk~Ve~G~iTqeqAd~ik~~id~~~~~~~qn-Gf 57 (59)
T PF10925_consen 19 LKKQIIDKYVEAGVITQEQADAIKKHIDQRQEYMQQN-GF 57 (59)
T ss_pred HHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHHHHHc-CC
Confidence 3345799999999999999999999999998886543 54
No 9
>PF11848 DUF3368: Domain of unknown function (DUF3368); InterPro: IPR021799 This domain is functionally uncharacterised. This domain is found in bacteria and archaea. This presumed domain is about 50 amino acids in length.
Probab=49.06 E-value=27 Score=23.03 Aligned_cols=32 Identities=9% Similarity=0.154 Sum_probs=23.6
Q ss_pred HHHHHHHhhhCcchhhhHHHHHHHHHHHHHHHHHhhCcCCCC
Q 029900 138 YSVIDKAVKVGTLHRNTGARRKSRLARRKKAVEIHHGWYTPT 179 (185)
Q Consensus 138 ~S~IDKAakKGVIHKNtAARKKSRLakkin~l~~~~g~~~p~ 179 (185)
.-.|++|.++|+|. .+.-.+..| .++|+|-|.
T Consensus 6 lGiL~~Ak~~GlI~---------~~~~~l~~l-~~~g~~is~ 37 (48)
T PF11848_consen 6 LGILLLAKRRGLIS---------EVKPLLDRL-QQAGFRISP 37 (48)
T ss_pred HHHHHHHHHcCChh---------hHHHHHHHH-HHcCcccCH
Confidence 34688999999997 344557777 888888663
No 10
>PF13447 Multi-haem_cyto: Seven times multi-haem cytochrome CxxCH; PDB: 1FGJ_B.
Probab=48.07 E-value=25 Score=31.22 Aligned_cols=49 Identities=16% Similarity=0.179 Sum_probs=36.1
Q ss_pred hhhHHHHHHHHHHHHHHHHhccCCCCCCCCccchHHHHHHHHHHHHHHHHhhhCcchhhhHHH
Q 029900 95 NKSRKSEVKTRMKKVLEALDGLRKKPDAQPEEVLPVEKLIAEAYSVIDKAVKVGTLHRNTGAR 157 (185)
Q Consensus 95 Nrs~KS~vRT~iKKv~~AIeagdk~~~a~a~d~~~A~~~l~~a~S~IDKAakKGVIHKNtAAR 157 (185)
+-=-.+-++.++..+...|..+ .+.+.+|.++|+...++|+|..-+..|
T Consensus 218 ~CHS~~fa~~~l~~~D~~v~~~--------------n~~~~eA~~iv~~L~~~GLL~~~~~~r 266 (267)
T PF13447_consen 218 QCHSPSFADNYLEQMDKGVKEY--------------NKKYKEAKKIVEDLYKDGLLDPQPTNR 266 (267)
T ss_dssp TTS-HHHHHHHHHHHHHHHHHH--------------HHHHHHHHHHHHHHHHCT-STTTTTS-
T ss_pred ccCCHHHHHHHHHHHHHHHHHH--------------HHHHHHHHHHHHHHHHcCCCCCCCCCC
Confidence 3334567777888877777653 457899999999999999999877665
No 11
>COG5577 Spore coat protein [Cell envelope biogenesis, outer membrane]
Probab=47.37 E-value=16 Score=29.95 Aligned_cols=20 Identities=15% Similarity=0.459 Sum_probs=16.9
Q ss_pred HHHHHHHHHHhhCcCCCCCC
Q 029900 162 LARRKKAVEIHHGWYTPTPA 181 (185)
Q Consensus 162 Lakkin~l~~~~g~~~p~~~ 181 (185)
....|..+..+||||.|-..
T Consensus 103 ~~~~v~~ym~~~g~Y~py~~ 122 (145)
T COG5577 103 MHKEVSEYMVQKGYYPPYNL 122 (145)
T ss_pred HHHHHHHHHHHCCCcCCCCH
Confidence 56788999999999999753
No 12
>smart00787 Spc7 Spc7 kinetochore protein. This domain is found in cell division proteins which are required for kinetochore-spindle association.
Probab=41.45 E-value=2.7e+02 Score=25.24 Aligned_cols=67 Identities=16% Similarity=0.224 Sum_probs=40.9
Q ss_pred hhHHHHHHHHHHHHHHHHhccCCCCCCCCccchHHHHHHHHHHHHHHHHhhhCcchhhhHHHHHHHHHHHHHHHHHhhCc
Q 029900 96 KSRKSEVKTRMKKVLEALDGLRKKPDAQPEEVLPVEKLIAEAYSVIDKAVKVGTLHRNTGARRKSRLARRKKAVEIHHGW 175 (185)
Q Consensus 96 rs~KS~vRT~iKKv~~AIeagdk~~~a~a~d~~~A~~~l~~a~S~IDKAakKGVIHKNtAARKKSRLakkin~l~~~~g~ 175 (185)
+..-..++..+..+...|+++. +...+....|..|=+.-=-.+.-...-.++|-..+..+...|||
T Consensus 224 ~~~l~e~~~~l~~l~~~I~~~~--------------~~k~e~~~~I~~ae~~~~~~r~~t~~Ei~~Lk~~~~~Le~l~g~ 289 (312)
T smart00787 224 VKKLEELEEELQELESKIEDLT--------------NKKSELNTEIAEAEKKLEQCRGFTFKEIEKLKEQLKLLQSLTGW 289 (312)
T ss_pred HHHHHHHHHHHHHHHHHHHHHH--------------HHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHhCC
Confidence 3344555666666666665432 22333444444443322234555677889999999999999999
Q ss_pred C
Q 029900 176 Y 176 (185)
Q Consensus 176 ~ 176 (185)
=
T Consensus 290 ~ 290 (312)
T smart00787 290 K 290 (312)
T ss_pred e
Confidence 4
No 13
>smart00745 MIT Microtubule Interacting and Trafficking molecule domain.
Probab=40.85 E-value=1.2e+02 Score=20.92 Aligned_cols=42 Identities=14% Similarity=0.116 Sum_probs=30.7
Q ss_pred HHHHHHHHHHHHHhccCCCCCCCCccchHHHHHHHHHHHHHHHHhhhC
Q 029900 101 EVKTRMKKVLEALDGLRKKPDAQPEEVLPVEKLIAEAYSVIDKAVKVG 148 (185)
Q Consensus 101 ~vRT~iKKv~~AIeagdk~~~a~a~d~~~A~~~l~~a~S~IDKAakKG 148 (185)
.+..++.-+..|++.. +.++.++|..+|..+...|.++++..
T Consensus 4 ~~~~A~~li~~Av~~d------~~g~~~eAl~~Y~~a~e~l~~~~~~~ 45 (77)
T smart00745 4 YLSKAKELISKALKAD------EAGDYEEALELYKKAIEYLLEGIKVE 45 (77)
T ss_pred HHHHHHHHHHHHHHHH------HcCCHHHHHHHHHHHHHHHHHHhccC
Confidence 3444555555666652 24678899999999999999998765
No 14
>PRK13666 hypothetical protein; Provisional
Probab=33.34 E-value=1.3e+02 Score=23.31 Aligned_cols=39 Identities=26% Similarity=0.336 Sum_probs=34.0
Q ss_pred HHHHHHHHHHHHHhhhCcchhhhHHHHHHHHHHHHHHHH
Q 029900 132 KLIAEAYSVIDKAVKVGTLHRNTGARRKSRLARRKKAVE 170 (185)
Q Consensus 132 ~~l~~a~S~IDKAakKGVIHKNtAARKKSRLakkin~l~ 170 (185)
+.+--....||=||.-|+|+.+.+-.--++|-+.++.+-
T Consensus 48 TQmfGlSreVdFAvrlgli~~~~Gk~ll~~LE~~Ls~L~ 86 (92)
T PRK13666 48 TQMFGLSREVDFAVRLGLIDEEEGKQLLSRLERELSALH 86 (92)
T ss_pred HHHhhhHHHHHHHHHhccccHHHHHHHHHHHHHHHHHHH
Confidence 344457789999999999999999999999999999873
No 15
>KOG4403 consensus Cell surface glycoprotein STIM, contains SAM domain [General function prediction only]
Probab=30.29 E-value=3.2e+02 Score=27.10 Aligned_cols=39 Identities=23% Similarity=0.223 Sum_probs=24.8
Q ss_pred hhhhHHHHHHHHHHHHHHHHhccCCCCCCCCccchHHHHHHHHHHHHHHHHhhh
Q 029900 94 YNKSRKSEVKTRMKKVLEALDGLRKKPDAQPEEVLPVEKLIAEAYSVIDKAVKV 147 (185)
Q Consensus 94 rNrs~KS~vRT~iKKv~~AIeagdk~~~a~a~d~~~A~~~l~~a~S~IDKAakK 147 (185)
.|+.-|-.|+..+|.+... ..|+.-|...++.|.+|-.+
T Consensus 236 Qnk~akehv~km~kdle~L---------------q~aEqsl~dlQk~Lekar~e 274 (575)
T KOG4403|consen 236 QNKKAKEHVNKMMKDLEGL---------------QRAEQSLEDLQKRLEKAREE 274 (575)
T ss_pred hhhHHHHHHHHHHHHHHHH---------------HHHHHHHHHHHHHHHHHHHh
Confidence 3555666677777765543 23556677777777777654
No 16
>PF10163 EnY2: Transcription factor e(y)2; InterPro: IPR018783 Enhancer of yellow 2 (EnY2) is a small transcription factor which is combined in a complex with the TAFII40 protein []. This protein is conserved from protozoa to humans.; PDB: 4DHX_C 3FWC_P 3M99_C 3KIK_A 3KJL_C 3FWB_C 3MHS_B 3MHH_B.
Probab=28.61 E-value=1.2e+02 Score=22.26 Aligned_cols=64 Identities=16% Similarity=0.242 Sum_probs=45.1
Q ss_pred HHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHhccCCCCCCCCccc-hHHHHHHHHHHHHHHHHhhhCcchh
Q 029900 82 AKRARQAEKRRIYNKSRKSEVKTRMKKVLEALDGLRKKPDAQPEEV-LPVEKLIAEAYSVIDKAVKVGTLHR 152 (185)
Q Consensus 82 ~KRiRq~eKrRlrNrs~KS~vRT~iKKv~~AIeagdk~~~a~a~d~-~~A~~~l~~a~S~IDKAakKGVIHK 152 (185)
..|+++--+.|+....++..||...+.+...-.. + . -+. +-..+....|...+-..|+++++++
T Consensus 16 ~~~L~~~L~~rL~e~GW~d~vr~~~re~i~~~g~-~---~---~~~~~l~~~i~P~Ar~~VP~~vk~ell~~ 80 (86)
T PF10163_consen 16 YERLKELLRQRLIECGWRDEVRQLCREIIRERGI-D---N---LTFEDLLEEITPKARAMVPDEVKKELLQR 80 (86)
T ss_dssp HHHHHHHHHHHHHHTTHHHHHHHHHHHHHHHH-T-T---T---SBHHHHHHHHHHHHHHCS-HHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHCChHHHHHHHHHHHHHhhCC-C---C---CCHHHHHHHHHHHHHHHCCHHHHHHHHHH
Confidence 5688899999999999999999999988777111 1 0 112 2344566777777777788777764
No 17
>TIGR03042 PS_II_psbQ_bact photosystem II protein PsbQ. This protein through the member sll1638 from Synechocystis sp. PCC 6803, was shown to be part of the cyanobacteria photosystem II. It is homologous to (but quite diverged from) the chloroplast PsbQ protein, called oxygen-evolving enhancer protein 3 (OEE3). We designate this cyanobacteria protein PsbQ by homology.
Probab=28.10 E-value=72 Score=26.26 Aligned_cols=46 Identities=17% Similarity=0.170 Sum_probs=26.0
Q ss_pred hHHHHHHHHHHHHHHHHhccCCCCCCCCccchHHHHHHHHHHHHHHHH
Q 029900 97 SRKSEVKTRMKKVLEALDGLRKKPDAQPEEVLPVEKLIAEAYSVIDKA 144 (185)
Q Consensus 97 s~KS~vRT~iKKv~~AIeagdk~~~a~a~d~~~A~~~l~~a~S~IDKA 144 (185)
.-+..+|...++++..++..|. +|...|...|++.|.++.+-+|.-
T Consensus 92 ~dqk~a~~L~~~Lf~~L~~LD~--AA~~kd~~~a~k~Y~~av~~~daf 137 (142)
T TIGR03042 92 KDQKEALALAKELKDDLEKLDE--AARLQDGPQAQKAYQKAAADFDAY 137 (142)
T ss_pred HhHHHHHHHHHHHHHHHHHHHH--HHHhcCHHHHHHHHHHHHHHHHHH
Confidence 3455555556666666655442 233344556666777777766654
No 18
>cd03281 ABC_MSH5_euk MutS5 homolog in eukaryotes. The MutS protein initiates DNA mismatch repair by recognizing mispaired and unpaired bases embedded in duplex DNA and activating endo- and exonucleases to remove the mismatch. Members of the MutS family possess C-terminal domain with a conserved ATPase activity that belongs to the ATP binding cassette (ABC) superfamily. MutS homologs (MSH) have been identified in most prokaryotic and all eukaryotic organisms examined. Prokaryotes have two homologs (MutS1 and MutS2), whereas seven MSH proteins (MSH1 to MSH7) have been identified in eukaryotes. The homodimer MutS1 and heterodimers MSH2-MSH3 and MSH2-MSH6 are primarily involved in mitotic mismatch repair, whereas MSH4-MSH5 is involved in resolution of Holliday junctions during meiosis. All members of the MutS family contain the highly conserved Walker A/B ATPase domain, and many share a common mechanism of action. MutS1, MSH2-MSH3, MSH2-MSH6, and MSH4-MSH5 dimerize to form sliding c
Probab=27.77 E-value=43 Score=27.87 Aligned_cols=24 Identities=21% Similarity=0.303 Sum_probs=18.1
Q ss_pred HHHHHHHHH--HHHHhhCcCCCCCCC
Q 029900 159 KSRLARRKK--AVEIHHGWYTPTPAE 182 (185)
Q Consensus 159 KSRLakkin--~l~~~~g~~~p~~~~ 182 (185)
||.|.+.+. .+..+.|||.|++.+
T Consensus 42 KStlLk~i~~~~~la~~G~~v~a~~~ 67 (213)
T cd03281 42 KSVYLKQVALIVFLAHIGSFVPADSA 67 (213)
T ss_pred hHHHHHHHHHHHHHHhCCCeeEcCCc
Confidence 677777766 455789999999754
No 19
>PF05620 DUF788: Protein of unknown function (DUF788); InterPro: IPR008506 This family consists of several eukaryotic proteins of unknown function.
Probab=25.90 E-value=54 Score=26.78 Aligned_cols=16 Identities=25% Similarity=0.196 Sum_probs=12.6
Q ss_pred ccCchhHHHHHHHHHHH
Q 029900 75 KKKADSAAKRARQAEKR 91 (185)
Q Consensus 75 maniKSA~KRiRq~eKr 91 (185)
||| ++++|++++|++.
T Consensus 1 MA~-ks~Kk~a~~N~~~ 16 (170)
T PF05620_consen 1 MAN-KSAKKIAEENKAT 16 (170)
T ss_pred CCc-hHHHHHHHHHHHH
Confidence 777 8899988887653
No 20
>COG3937 Uncharacterized conserved protein [Function unknown]
Probab=25.33 E-value=2.4e+02 Score=22.45 Aligned_cols=39 Identities=23% Similarity=0.300 Sum_probs=34.0
Q ss_pred HHHHHHHHHHHHHHHHhhhCcchhhhHHHHHHHHHHHHH
Q 029900 129 PVEKLIAEAYSVIDKAVKVGTLHRNTGARRKSRLARRKK 167 (185)
Q Consensus 129 ~A~~~l~~a~S~IDKAakKGVIHKNtAARKKSRLakkin 167 (185)
.+......+.+++|..|+||=|..-.|-|-..-|.+.++
T Consensus 18 ~~a~~~ek~~klvDelVkkGeln~eEak~~vddl~~q~k 56 (108)
T COG3937 18 LAAETAEKVQKLVDELVKKGELNAEEAKRFVDDLLRQAK 56 (108)
T ss_pred HHHHHHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHH
Confidence 355678899999999999999999999999888877766
No 21
>cd02679 MIT_spastin MIT: domain contained within Microtubule Interacting and Trafficking molecules. This MIT domain sub-family is found in the AAA protein spastin, a probable ATPase involved in the assembly or function of nuclear protein complexes; spastins might also be involved in microtubule dynamics. The molecular function of the MIT domain is unclear.
Probab=21.69 E-value=3.4e+02 Score=20.03 Aligned_cols=62 Identities=10% Similarity=0.120 Sum_probs=40.8
Q ss_pred HHHHHHHHHHHhccCCCCCCCCccchHHHHHHHHHHHHHHHHhhhCc--ch----hhhHHHHHHHHHHHHHHHH
Q 029900 103 KTRMKKVLEALDGLRKKPDAQPEEVLPVEKLIAEAYSVIDKAVKVGT--LH----RNTGARRKSRLARRKKAVE 170 (185)
Q Consensus 103 RT~iKKv~~AIeagdk~~~a~a~d~~~A~~~l~~a~S~IDKAakKGV--IH----KNtAARKKSRLakkin~l~ 170 (185)
+.++.-+..||.. + +.++.+.|..+|+.+...|+.+..--+ .. .+.|-+...+|...+..+.
T Consensus 6 ~~A~~~I~kaL~~----d--E~g~~e~Al~~Y~~gi~~l~eg~ai~~~~~~~~~~w~~ar~~~~Km~~~~~~v~ 73 (79)
T cd02679 6 KQAFEEISKALRA----D--EWGDKEQALAHYRKGLRELEEGIAVPVPSAGVGSQWERARRLQQKMKTNLNMVK 73 (79)
T ss_pred HHHHHHHHHHhhh----h--hcCCHHHHHHHHHHHHHHHHHHcCCCCCcccccHHHHHHHHHHHHHHHHHHHHH
Confidence 3344444455543 1 237889999999999999999877665 33 4556666666666655543
No 22
>PF11553 DUF3231: Protein of unknown function (DUF3231); InterPro: IPR021617 This bacterial family of proteins has no known function. ; PDB: 2RBD_B.
Probab=21.52 E-value=74 Score=25.31 Aligned_cols=27 Identities=15% Similarity=0.209 Sum_probs=13.9
Q ss_pred HHHHHHHHHHHHHHhhCcCCCCCCCCC
Q 029900 158 RKSRLARRKKAVEIHHGWYTPTPAETV 184 (185)
Q Consensus 158 KKSRLakkin~l~~~~g~~~p~~~~~~ 184 (185)
....+....-++.+.+|||.+.|...+
T Consensus 136 ~~~~~~~~~~~l~~~KGwl~~pP~~~~ 162 (166)
T PF11553_consen 136 EALELYDKIVKLMKEKGWLERPPYIPD 162 (166)
T ss_dssp HHHHHHHHHHHHHHHTT------B---
T ss_pred HHHHHHHHHHHHHHHCCCcCCCCCCCC
Confidence 345567778889999999999886543
No 23
>PF04212 MIT: MIT (microtubule interacting and transport) domain; InterPro: IPR007330 The MIT domain is found in vacuolar sorting proteins, spastin (probable ATPase involved in the assembly or function of nuclear protein complexes), and a sorting nexin, which may play a role in intracellular trafficking.; PDB: 2DL1_A 2JQK_A 1WR0_A 2CPT_A 2JQH_A 2V6Y_A 2JQ9_A 2K3W_A 1YXR_A 3EAB_E ....
Probab=20.83 E-value=2.8e+02 Score=18.78 Aligned_cols=41 Identities=15% Similarity=0.160 Sum_probs=32.3
Q ss_pred HHHHHHHHHHHHhccCCCCCCCCccchHHHHHHHHHHHHHHHHhhhC
Q 029900 102 VKTRMKKVLEALDGLRKKPDAQPEEVLPVEKLIAEAYSVIDKAVKVG 148 (185)
Q Consensus 102 vRT~iKKv~~AIeagdk~~~a~a~d~~~A~~~l~~a~S~IDKAakKG 148 (185)
+..++.-+..|++.. +.++.++|...|..+...|.++.+--
T Consensus 2 ~~~A~~~~~~Av~~D------~~g~~~~A~~~Y~~ai~~l~~~~~~~ 42 (69)
T PF04212_consen 2 LDKAIELIKKAVEAD------EAGNYEEALELYKEAIEYLMQALKSE 42 (69)
T ss_dssp HHHHHHHHHHHHHHH------HTTSHHHHHHHHHHHHHHHHHHHHHS
T ss_pred HHHHHHHHHHHHHHH------HCCCHHHHHHHHHHHHHHHHHHhccC
Confidence 345666677788763 24788999999999999999998866
No 24
>PTZ00151 translationally controlled tumor-like protein; Provisional
Probab=20.06 E-value=3e+02 Score=23.40 Aligned_cols=21 Identities=19% Similarity=0.305 Sum_probs=18.7
Q ss_pred hhhHHHHHHHHHHHHHHHHhc
Q 029900 95 NKSRKSEVKTRMKKVLEALDG 115 (185)
Q Consensus 95 Nrs~KS~vRT~iKKv~~AIea 115 (185)
-+.+++-||.++|++.+-+++
T Consensus 85 Kk~Y~~yiK~YmK~vk~~L~e 105 (172)
T PTZ00151 85 KKEYSTYIKKYMQRIKAYLEE 105 (172)
T ss_pred HHHHHHHHHHHHHHHHHHHhh
Confidence 478999999999999999986
Done!