Query 033365
Match_columns 121
No_of_seqs 184 out of 1040
Neff 4.9
Searched_HMMs 46136
Date Fri Mar 29 13:00:24 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/033365.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/033365hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG0846 Mitochondrial/chloropl 100.0 4.2E-33 9.1E-38 224.5 8.6 107 1-107 118-228 (274)
2 PRK05592 rplO 50S ribosomal pr 99.4 4.6E-13 1E-17 100.3 6.0 53 1-56 93-145 (146)
3 TIGR01071 rplO_bact ribosomal 99.3 4.6E-12 9.9E-17 94.5 5.7 52 1-55 94-145 (145)
4 PF00828 Ribosomal_L18e: Ribos 99.1 4.2E-11 9E-16 86.7 3.5 40 15-56 89-128 (129)
5 PRK06419 rpl15p 50S ribosomal 99.1 3.9E-10 8.5E-15 84.7 7.1 53 3-57 84-145 (148)
6 COG0200 RplO Ribosomal protein 99.1 1.8E-10 4E-15 87.3 5.2 54 2-58 98-152 (152)
7 PRK04005 50S ribosomal protein 98.8 1.2E-08 2.5E-13 74.0 5.4 39 16-56 55-93 (111)
8 PTZ00160 60S ribosomal protein 98.6 1.1E-07 2.3E-12 71.9 5.3 39 17-57 107-146 (147)
9 COG1727 RPL18A Ribosomal prote 97.5 0.00012 2.6E-09 54.0 4.3 37 19-57 69-105 (122)
10 PTZ00469 60S ribosomal subunit 97.2 0.0007 1.5E-08 53.2 5.0 43 19-65 84-128 (187)
11 PTZ00195 60S ribosomal protein 97.0 0.0011 2.4E-08 52.5 5.0 43 19-65 92-136 (198)
12 KOG1742 60s ribosomal protein 93.1 0.095 2.1E-06 39.8 2.9 40 18-57 107-146 (147)
13 PF08734 GYD: GYD domain; Int 80.1 2.5 5.4E-05 29.0 3.3 21 40-60 22-42 (91)
14 KOG1714 60s ribosomal protein 79.1 1.7 3.7E-05 34.3 2.4 34 30-65 96-129 (188)
15 COG4274 Uncharacterized conser 54.6 17 0.00037 26.3 3.2 22 40-61 32-53 (104)
16 PF09604 Potass_KdpF: F subuni 53.1 6.6 0.00014 21.5 0.7 10 64-73 16-25 (25)
17 PF03820 Mtc: Tricarboxylate c 45.4 11 0.00023 31.7 1.1 34 28-61 273-306 (308)
18 PF02680 DUF211: Uncharacteriz 43.3 47 0.001 23.6 3.9 34 24-57 43-77 (95)
19 PF06047 SynMuv_product: Ras-i 42.6 14 0.0003 26.7 1.2 30 72-101 19-50 (104)
20 TIGR02115 potass_kdpF K+-trans 39.0 11 0.00024 20.9 0.2 11 64-74 15-25 (26)
21 PF03537 Glyco_hydro_114: Glyc 39.0 50 0.0011 21.6 3.4 32 32-64 30-61 (74)
22 PF10531 SLBB: SLBB domain; I 32.8 43 0.00094 20.6 2.2 31 27-58 7-37 (59)
23 PF00376 MerR: MerR family reg 31.2 19 0.0004 21.0 0.3 19 87-105 12-30 (38)
24 PRK14759 potassium-transportin 30.3 25 0.00054 20.0 0.7 10 64-73 20-29 (29)
25 PF08889 WbqC: WbqC-like prote 30.1 29 0.00063 27.3 1.3 45 32-79 135-179 (219)
26 KOG2388 UDP-N-acetylglucosamin 28.8 59 0.0013 29.2 3.1 81 30-113 292-375 (477)
27 PRK13491 chemoreceptor glutami 28.1 45 0.00099 26.5 2.1 101 2-106 83-197 (199)
28 COG1888 Uncharacterized protei 27.4 1E+02 0.0022 22.0 3.5 41 17-57 36-79 (97)
29 cd00027 BRCT Breast Cancer Sup 26.8 72 0.0016 18.2 2.4 20 39-58 14-33 (72)
30 PF09558 DUF2375: Protein of u 26.0 48 0.001 22.4 1.6 19 49-67 3-22 (71)
31 cd04903 ACT_LSD C-terminal ACT 25.3 1.4E+02 0.0031 17.3 3.6 28 32-59 43-71 (71)
32 PF00533 BRCT: BRCA1 C Terminu 23.5 74 0.0016 19.3 2.1 14 41-54 22-35 (78)
33 COG3981 Predicted acetyltransf 23.1 1.2E+02 0.0027 23.7 3.6 32 30-61 132-163 (174)
34 PLN02735 carbamoyl-phosphate s 20.6 1.3E+02 0.0029 29.3 4.0 48 16-65 575-622 (1102)
No 1
>KOG0846 consensus Mitochondrial/chloroplast ribosomal protein L15/L10 [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=4.2e-33 Score=224.51 Aligned_cols=107 Identities=46% Similarity=0.622 Sum_probs=100.3
Q ss_pred ChhHHHcCCc-CCCCCCcEEEecCCCccccccEEEEEEccCHHHHHHHHHcCCEEEEEEecHHHHHhhcCCccccccCCC
Q 033365 1 MKTLKDAGAI-GKQIEDGVRLMGRGAEKIKWPIHLEASRVTVRAKAAVEAAGGSVRRVHYNKLGLRALLKPEWFEKKGRL 79 (121)
Q Consensus 1 m~~L~~~gli-~~~~k~gVKLLg~G~~~l~~pi~Iev~~aS~~Ai~aIE~aGG~Vt~~Yy~~l~Lra~l~P~~F~~k~~~ 79 (121)
|++|++.|+| .+.+++||+|+++|.++|+.+|+|||++||..||++||++||+||++|||++||||||||.+||++|.+
T Consensus 118 m~tL~~~g~i~p~~~eyGv~L~~~G~d~~~~~i~iEvs~aS~~AiaaIEkaGG~vtt~yy~p~~Lra~lnP~~wf~~g~~ 197 (274)
T KOG0846|consen 118 MKTLKDSGLINPKGREYGVQLTADGADEFKAKINIEVSRASVQAIAAIEKAGGSVTTAYYDPLSLRAHLNPKKWFEPGSP 197 (274)
T ss_pred HHHHHhccCCCccccccCceeeccCCccccceEEEEehhhhHHHHHHHHhcCCeEEEEEEcchhhhhhcCchhhcccCCc
Confidence 7899999944 466899999999999999999999999999999999999999999999999999999999888888999
Q ss_pred CCCCCCCCcchhhhhhcC---CCCCCCCCCc
Q 033365 80 LPRPARPPPKLQDKVDSI---GRLPAPTKPI 107 (121)
Q Consensus 80 iP~~a~P~~~~~~~~~~~---g~L~~p~~~~ 107 (121)
+|.++|||++.++||.+. |||++|+.-.
T Consensus 198 vP~~~rPp~~~idyYtd~k~rGyl~~~~~~~ 228 (274)
T KOG0846|consen 198 VPKRARPPQKDIDYYTDPKNRGYLAAPEAKT 228 (274)
T ss_pred CccccCCChhhhhhhhchhhcccccCccccc
Confidence 999999999999999988 9999888743
No 2
>PRK05592 rplO 50S ribosomal protein L15; Reviewed
Probab=99.40 E-value=4.6e-13 Score=100.32 Aligned_cols=53 Identities=38% Similarity=0.619 Sum_probs=48.4
Q ss_pred ChhHHHcCCcCCCCCCcEEEecCCCccccccEEEEEEccCHHHHHHHHHcCCEEEE
Q 033365 1 MKTLKDAGAIGKQIEDGVRLMGRGAEKIKWPIHLEASRVTVRAKAAVEAAGGSVRR 56 (121)
Q Consensus 1 m~~L~~~gli~~~~k~gVKLLg~G~~~l~~pi~Iev~~aS~~Ai~aIE~aGG~Vt~ 56 (121)
+++|+++|||+. ..++||||++| +|+++|+|+|++||++|+++||++||+|+.
T Consensus 93 ~~~L~~~gli~~-~~~~vKvLg~G--~l~~~i~I~a~~~S~sA~e~IE~aGG~v~~ 145 (146)
T PRK05592 93 LEALKAAGLIRK-NIKGVKVLGNG--ELTKKLTVKAHKFSKSAKEAIEAAGGKVEE 145 (146)
T ss_pred HHHHHHCCcccC-CCcceEEEecC--ccccCEEEEEEccCHHHHHHHHHcCCEEEe
Confidence 468999999974 45699999999 899999999999999999999999999975
No 3
>TIGR01071 rplO_bact ribosomal protein L15, bacterial/organelle.
Probab=99.29 E-value=4.6e-12 Score=94.47 Aligned_cols=52 Identities=48% Similarity=0.698 Sum_probs=46.1
Q ss_pred ChhHHHcCCcCCCCCCcEEEecCCCccccccEEEEEEccCHHHHHHHHHcCCEEE
Q 033365 1 MKTLKDAGAIGKQIEDGVRLMGRGAEKIKWPIHLEASRVTVRAKAAVEAAGGSVR 55 (121)
Q Consensus 1 m~~L~~~gli~~~~k~gVKLLg~G~~~l~~pi~Iev~~aS~~Ai~aIE~aGG~Vt 55 (121)
+++|.++++|.. ....||||++| +|+.+|+|+|++||++|+++||++||+|+
T Consensus 94 ~~~L~~~gli~~-~~~~vKvLg~G--~l~~~l~I~a~~~S~sA~ekIE~aGG~v~ 145 (145)
T TIGR01071 94 LETLKEKGLITK-KIKFVKVLGNG--KLTKPLTVKAHRVSKSAKAAIEAAGGSVE 145 (145)
T ss_pred HHHHhhCccCcC-CCCceEEeCCC--CcCcCEEEEEEEECHHHHHHHHHcCCEEC
Confidence 357899999973 33569999999 79999999999999999999999999984
No 4
>PF00828 Ribosomal_L18e: Ribosomal protein L18e/L15; InterPro: IPR021131 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 entry represents both L15 and L18e ribosomal proteins, which share a common structure consisting mainly of parallel beta sheets (beta-alpha-beta units) with a core of three turns of irregular (beta-beta-alpha)n superhelix [, ].; PDB: 3O58_Y 1S1I_V 3O5H_Y 3IZS_O 3IZR_R 2OTL_L 1M1K_M 3G6E_L 1VQ9_L 1YIT_L ....
Probab=99.12 E-value=4.2e-11 Score=86.72 Aligned_cols=40 Identities=35% Similarity=0.638 Sum_probs=37.7
Q ss_pred CCcEEEecCCCccccccEEEEEEccCHHHHHHHHHcCCEEEE
Q 033365 15 EDGVRLMGRGAEKIKWPIHLEASRVTVRAKAAVEAAGGSVRR 56 (121)
Q Consensus 15 k~gVKLLg~G~~~l~~pi~Iev~~aS~~Ai~aIE~aGG~Vt~ 56 (121)
.+.+||||+| +|+.||+|++++||++|+++||++||+|++
T Consensus 89 ~~~~KvLg~G--~l~~~l~I~a~~~S~~A~ekIe~aGG~v~~ 128 (129)
T PF00828_consen 89 KGYVKVLGKG--ELTKPLTIKAHRFSKSAKEKIEAAGGEVVT 128 (129)
T ss_dssp SSEEEEESSS--SSSSSEEEEESEETHHHHHHHHHTSEEEEE
T ss_pred ccceeeeccC--CcccceEEEEEecCHHHHHHHHHcCCEEEe
Confidence 3688999999 799999999999999999999999999986
No 5
>PRK06419 rpl15p 50S ribosomal protein L15P; Reviewed
Probab=99.08 E-value=3.9e-10 Score=84.70 Aligned_cols=53 Identities=28% Similarity=0.411 Sum_probs=44.6
Q ss_pred hHHHcCCcCCC---------CCCcEEEecCCCccccccEEEEEEccCHHHHHHHHHcCCEEEEE
Q 033365 3 TLKDAGAIGKQ---------IEDGVRLMGRGAEKIKWPIHLEASRVTVRAKAAVEAAGGSVRRV 57 (121)
Q Consensus 3 ~L~~~gli~~~---------~k~gVKLLg~G~~~l~~pi~Iev~~aS~~Ai~aIE~aGG~Vt~~ 57 (121)
.|.+.|+++.. ....+||||+| +++.||+|++++||++|+++||++||+|+++
T Consensus 84 ~l~~~g~i~~~~~~~vid~~~~g~~KVLG~G--~l~~pl~Vka~~fS~~A~ekIe~aGG~v~l~ 145 (148)
T PRK06419 84 LLKAEGKAEEEDGKIVVDLTELGYDKVLGGG--KVTRPLVIKADAFSEKAIEKIEAAGGEVVLS 145 (148)
T ss_pred HHHHCCcccccCCcceeeeccCCceEEeCCC--ccCcCEEEEEeccCHHHHHHHHHcCCEEEEe
Confidence 56678887531 12369999999 8999999999999999999999999999864
No 6
>COG0200 RplO Ribosomal protein L15 [Translation, ribosomal structure and biogenesis]
Probab=99.07 E-value=1.8e-10 Score=87.27 Aligned_cols=54 Identities=31% Similarity=0.559 Sum_probs=47.6
Q ss_pred hhHHHcCCcCCCCCCcEEEecCCCccccccEEEEEE-ccCHHHHHHHHHcCCEEEEEE
Q 033365 2 KTLKDAGAIGKQIEDGVRLMGRGAEKIKWPIHLEAS-RVTVRAKAAVEAAGGSVRRVH 58 (121)
Q Consensus 2 ~~L~~~gli~~~~k~gVKLLg~G~~~l~~pi~Iev~-~aS~~Ai~aIE~aGG~Vt~~Y 58 (121)
..|.+.++|. +..++|||||+| +|++++.++|+ .||++|+++||++||+|++++
T Consensus 98 ~~l~~~~~i~-~~~~~vKvLg~G--~l~~~~~~~v~a~~S~~A~ekIe~aGG~v~~~~ 152 (152)
T COG0200 98 ASLKAAGVIR-KLKDLVKVLGNG--KLTKAVPVKVKAKASKSAIEKIEAAGGKVELIE 152 (152)
T ss_pred HHHhhCCeEe-ccccccEEeccC--eeccceeEEEEeeeCHHHHHHHHHcCCEEEecC
Confidence 5788999997 467789999999 89977888777 999999999999999999864
No 7
>PRK04005 50S ribosomal protein L18e; Provisional
Probab=98.78 E-value=1.2e-08 Score=73.97 Aligned_cols=39 Identities=26% Similarity=0.404 Sum_probs=36.8
Q ss_pred CcEEEecCCCccccccEEEEEEccCHHHHHHHHHcCCEEEE
Q 033365 16 DGVRLMGRGAEKIKWPIHLEASRVTVRAKAAVEAAGGSVRR 56 (121)
Q Consensus 16 ~gVKLLg~G~~~l~~pi~Iev~~aS~~Ai~aIE~aGG~Vt~ 56 (121)
.++||||+| +++++++|+++++|++|+++||++||++.+
T Consensus 55 ~~~KVLg~G--~l~k~l~V~a~~~Sk~A~ekIe~aGG~v~~ 93 (111)
T PRK04005 55 VPGKVLGSG--KLDHKVTVAALSFSETAKEKIEEAGGKALT 93 (111)
T ss_pred EeeEEEcCc--eEcCCEEEEEeecCHHHHHHHHHcCCEEEE
Confidence 489999999 899999999999999999999999999864
No 8
>PTZ00160 60S ribosomal protein L27a; Provisional
Probab=98.57 E-value=1.1e-07 Score=71.88 Aligned_cols=39 Identities=23% Similarity=0.491 Sum_probs=36.2
Q ss_pred cEEEecCCCccc-cccEEEEEEccCHHHHHHHHHcCCEEEEE
Q 033365 17 GVRLMGRGAEKI-KWPIHLEASRVTVRAKAAVEAAGGSVRRV 57 (121)
Q Consensus 17 gVKLLg~G~~~l-~~pi~Iev~~aS~~Ai~aIE~aGG~Vt~~ 57 (121)
.+||||+| ++ ++|++|++..+|++|+++||++||+|+++
T Consensus 107 ~~KVLG~G--~l~~~~v~Vka~~~Sk~A~ekIe~aGG~v~l~ 146 (147)
T PTZ00160 107 YFKVLGKG--HLPKQPVIVKARYFSKKAEKKIKAVGGACVLT 146 (147)
T ss_pred ceEEecCC--eEcCccEEEEEeecCHHHHHHHHHcCCEEEEc
Confidence 48999999 89 77999999999999999999999999764
No 9
>COG1727 RPL18A Ribosomal protein L18E [Translation, ribosomal structure and biogenesis]
Probab=97.54 E-value=0.00012 Score=54.02 Aligned_cols=37 Identities=27% Similarity=0.528 Sum_probs=34.5
Q ss_pred EEecCCCccccccEEEEEEccCHHHHHHHHHcCCEEEEE
Q 033365 19 RLMGRGAEKIKWPIHLEASRVTVRAKAAVEAAGGSVRRV 57 (121)
Q Consensus 19 KLLg~G~~~l~~pi~Iev~~aS~~Ai~aIE~aGG~Vt~~ 57 (121)
|+||.| .+.++++|-+-+||++|.++|+++||.+-++
T Consensus 69 kVLg~g--~l~~kVtVaAl~FS~~A~~KI~~aGGe~~tl 105 (122)
T COG1727 69 KVLGDG--KLDKKVTVAALRFSKTAREKIEEAGGECLTL 105 (122)
T ss_pred eEecCc--ccccceEEEEEecCHHHHHHHHHcCCeEeeH
Confidence 999999 8999999999999999999999999997553
No 10
>PTZ00469 60S ribosomal subunit protein L18; Provisional
Probab=97.18 E-value=0.0007 Score=53.19 Aligned_cols=43 Identities=21% Similarity=0.365 Sum_probs=37.8
Q ss_pred EEecCCCcccc--ccEEEEEEccCHHHHHHHHHcCCEEEEEEecHHHHH
Q 033365 19 RLMGRGAEKIK--WPIHLEASRVTVRAKAAVEAAGGSVRRVHYNKLGLR 65 (121)
Q Consensus 19 KLLg~G~~~l~--~pi~Iev~~aS~~Ai~aIE~aGG~Vt~~Yy~~l~Lr 65 (121)
|+|++| .+. .+++|-+-++|++|.+.||++||+ ++-||.+.++
T Consensus 84 kVl~dg--rl~~vpkvtVaAL~fS~~Ar~kI~~AGGe--~lT~dqLa~~ 128 (187)
T PTZ00469 84 SITDDK--RLYDCKKLKVCALRFTETARKRILDAGGE--CLTFDQLALK 128 (187)
T ss_pred eEccCc--cccccCceEEEEEecCHHHHHHHHHhCCE--EEeHHHHHHH
Confidence 899999 788 999999999999999999999996 4667777663
No 11
>PTZ00195 60S ribosomal protein L18; Provisional
Probab=97.05 E-value=0.0011 Score=52.52 Aligned_cols=43 Identities=19% Similarity=0.400 Sum_probs=37.8
Q ss_pred EEecCCCccccc--cEEEEEEccCHHHHHHHHHcCCEEEEEEecHHHHH
Q 033365 19 RLMGRGAEKIKW--PIHLEASRVTVRAKAAVEAAGGSVRRVHYNKLGLR 65 (121)
Q Consensus 19 KLLg~G~~~l~~--pi~Iev~~aS~~Ai~aIE~aGG~Vt~~Yy~~l~Lr 65 (121)
++|++| .+.. +++|-+-++|++|.+.|+++||++ +-||.|.++
T Consensus 92 kVtdd~--rl~~vPkvtVaALrfS~tAr~rI~kAGGe~--lT~dQLa~~ 136 (198)
T PTZ00195 92 DVLDDV--RMARIPAMRVCALRFSKSARQSIVAAGGEC--LTFDQLAMI 136 (198)
T ss_pred eEcCCc--cccccCceEEEEEecCHHHHHHHHHhCCEE--EeHHHHHHH
Confidence 889999 7888 999999999999999999999974 557877664
No 12
>KOG1742 consensus 60s ribosomal protein L15/L27 [Translation, ribosomal structure and biogenesis]
Probab=93.05 E-value=0.095 Score=39.83 Aligned_cols=40 Identities=25% Similarity=0.441 Sum_probs=34.3
Q ss_pred EEEecCCCccccccEEEEEEccCHHHHHHHHHcCCEEEEE
Q 033365 18 VRLMGRGAEKIKWPIHLEASRVTVRAKAAVEAAGGSVRRV 57 (121)
Q Consensus 18 VKLLg~G~~~l~~pi~Iev~~aS~~Ai~aIE~aGG~Vt~~ 57 (121)
-|+||+|.-..+.||.+.+-.+|+.|.+.|.++||.+...
T Consensus 107 ~kvlGkgklp~~~PvIVKak~~s~~AeekIk~~gg~~~~~ 146 (147)
T KOG1742|consen 107 YKVLGKGKLPEETPVIVKAKYFSRRAEEKIKKAGGAVVLT 146 (147)
T ss_pred eEeeccccCCCCCcEEEeccccCccchHHHHhcCceeeec
Confidence 3889999544469999999999999999999999987653
No 13
>PF08734 GYD: GYD domain; InterPro: IPR014845 These proteins of unknown function are usually less than 100 amino acids in length. They may belong to the dimeric alpha/beta barrel superfamily.
Probab=80.15 E-value=2.5 Score=29.01 Aligned_cols=21 Identities=24% Similarity=0.479 Sum_probs=18.7
Q ss_pred CHHHHHHHHHcCCEEEEEEec
Q 033365 40 TVRAKAAVEAAGGSVRRVHYN 60 (121)
Q Consensus 40 S~~Ai~aIE~aGG~Vt~~Yy~ 60 (121)
-+.+.+.+|+.||++...|++
T Consensus 22 ~~a~~~~~e~~Gg~l~~~y~t 42 (91)
T PF08734_consen 22 AEAVRALIEALGGKLKSFYWT 42 (91)
T ss_pred HHHHHHHHHHcCCEEEEEEEe
Confidence 456889999999999999997
No 14
>KOG1714 consensus 60s ribosomal protein L18 [Translation, ribosomal structure and biogenesis]
Probab=79.11 E-value=1.7 Score=34.33 Aligned_cols=34 Identities=29% Similarity=0.390 Sum_probs=29.0
Q ss_pred ccEEEEEEccCHHHHHHHHHcCCEEEEEEecHHHHH
Q 033365 30 WPIHLEASRVTVRAKAAVEAAGGSVRRVHYNKLGLR 65 (121)
Q Consensus 30 ~pi~Iev~~aS~~Ai~aIE~aGG~Vt~~Yy~~l~Lr 65 (121)
-++.|-+-++|++|.+.|+++||+|-+ ||.|.|+
T Consensus 96 Pkl~v~al~~t~~ar~rI~kagg~i~T--lDQLal~ 129 (188)
T KOG1714|consen 96 PKLKVAALRFTKGARARILKAGGEILT--LDQLALD 129 (188)
T ss_pred ccceeeeeecccchhhhhhccCceEEe--eHHhccc
Confidence 458888899999999999999999755 6888776
No 15
>COG4274 Uncharacterized conserved protein [Function unknown]
Probab=54.55 E-value=17 Score=26.31 Aligned_cols=22 Identities=23% Similarity=0.433 Sum_probs=19.0
Q ss_pred CHHHHHHHHHcCCEEEEEEecH
Q 033365 40 TVRAKAAVEAAGGSVRRVHYNK 61 (121)
Q Consensus 40 S~~Ai~aIE~aGG~Vt~~Yy~~ 61 (121)
-+.+.+..|+.||+++..|++.
T Consensus 32 ~~av~~~les~G~k~~~~y~T~ 53 (104)
T COG4274 32 AAAVRALLESMGGKVKEQYWTL 53 (104)
T ss_pred HHHHHHHHHHcCcEEEEEEEee
Confidence 3567889999999999999874
No 16
>PF09604 Potass_KdpF: F subunit of K+-transporting ATPase (Potass_KdpF); InterPro: IPR011726 ATPases (or ATP synthases) are membrane-bound enzyme complexes/ion transporters that combine ATP synthesis and/or hydrolysis with the transport of protons across a membrane. ATPases can harness the energy from a proton gradient, using the flux of ions across the membrane via the ATPase proton channel to drive the synthesis of ATP. Some ATPases work in reverse, using the energy from the hydrolysis of ATP to create a proton gradient. There are different types of ATPases, which can differ in function (ATP synthesis and/or hydrolysis), structure (e.g., F-, V- and A-ATPases, which contain rotary motors) and in the type of ions they transport [, ]. The different types include: F-ATPases (F1F0-ATPases), which are found in mitochondria, chloroplasts and bacterial plasma membranes where they are the prime producers of ATP, using the proton gradient generated by oxidative phosphorylation (mitochondria) or photosynthesis (chloroplasts). V-ATPases (V1V0-ATPases), which are primarily found in eukaryotic vacuoles and catalyse ATP hydrolysis to transport solutes and lower pH in organelles. A-ATPases (A1A0-ATPases), which are found in Archaea and function like F-ATPases (though with respect to their structure and some inhibitor responses, A-ATPases are more closely related to the V-ATPases). P-ATPases (E1E2-ATPases), which are found in bacteria and in eukaryotic plasma membranes and organelles, and function to transport a variety of different ions across membranes. E-ATPases, which are cell-surface enzymes that hydrolyse a range of NTPs, including extracellular ATP. P-ATPases (sometime known as E1-E2 ATPases) (3.6.3.- from EC) are found in bacteria and in a number of eukaryotic plasma membranes and organelles []. P-ATPases function to transport a variety of different compounds, including ions and phospholipids, across a membrane using ATP hydrolysis for energy. There are many different classes of P-ATPases, each of which transports a specific type of ion: H+, Na+, K+, Mg2+, Ca2+, Ag+ and Ag2+, Zn2+, Co2+, Pb2+, Ni2+, Cd2+, Cu+ and Cu2+. P-ATPases can be composed of one or two polypeptides, and can usually assume two main conformations called E1 and E2. This entry represents the F subunit (KdpF) of a P-type K+-translocating ATPase (Kdp). KdpF is a very small integral membrane peptide. The kdpABC operon of Escherichia coli codes for the high affinity K+-translocating Kdp complex []. KdpF is found upstream of the KdpA subunit (IPR004623 from INTERPRO). Because of its very small size and highly hydrophobic character, it is sometimes missed in genome annotation. More information about this protein can be found at Protein of the Month: ATP Synthases [].
Probab=53.05 E-value=6.6 Score=21.49 Aligned_cols=10 Identities=60% Similarity=0.996 Sum_probs=8.3
Q ss_pred HHhhcCCccc
Q 033365 64 LRALLKPEWF 73 (121)
Q Consensus 64 Lra~l~P~~F 73 (121)
+-++++||+|
T Consensus 16 ~~aLl~PErF 25 (25)
T PF09604_consen 16 FYALLRPERF 25 (25)
T ss_pred HHHHhCcccC
Confidence 4588999998
No 17
>PF03820 Mtc: Tricarboxylate carrier; InterPro: IPR004686 The MTC family consists of a limited number of homologues, all from eukaryotes. One member of the family has been functionally characterised as a tricarboxylate carrier from rat liver mitochondria. The rat liver mitochondrial tricarboxylate carrier has been reported to transport citrate, cis-aconitate, threo-D-isocitrate, D- and L-tartrate, malate, succinate and phosphoenolpyruvate. It presumably functions by a proton symport mechanism. The rest of the characterised proteins appear to be sideroflexins involved in iron transport.; GO: 0008324 cation transmembrane transporter activity, 0006812 cation transport, 0055085 transmembrane transport, 0016020 membrane
Probab=45.40 E-value=11 Score=31.73 Aligned_cols=34 Identities=21% Similarity=0.239 Sum_probs=29.9
Q ss_pred ccccEEEEEEccCHHHHHHHHHcCCEEEEEEecH
Q 033365 28 IKWPIHLEASRVTVRAKAAVEAAGGSVRRVHYNK 61 (121)
Q Consensus 28 l~~pi~Iev~~aS~~Ai~aIE~aGG~Vt~~Yy~~ 61 (121)
|...-.|.+++.-..-.+.+++.|..++.+|||+
T Consensus 273 FPQ~~si~~~~LEpe~~~~~~~~g~~~~~vyyNK 306 (308)
T PF03820_consen 273 FPQRSSISVSKLEPELQELTEKKGPPPTTVYYNK 306 (308)
T ss_pred cccccccchHhcCHHHHHHHhhcCCCCCEEEeCC
Confidence 4555578888999999999999999999999996
No 18
>PF02680 DUF211: Uncharacterized ArCR, COG1888; InterPro: IPR003831 This entry describes proteins of unknown function.; PDB: 3BPD_I 2RAQ_F 2X3D_E.
Probab=43.34 E-value=47 Score=23.63 Aligned_cols=34 Identities=24% Similarity=0.428 Sum_probs=24.5
Q ss_pred CCccccccEEEEEEccCHH-HHHHHHHcCCEEEEE
Q 033365 24 GAEKIKWPIHLEASRVTVR-AKAAVEAAGGSVRRV 57 (121)
Q Consensus 24 G~~~l~~pi~Iev~~aS~~-Ai~aIE~aGG~Vt~~ 57 (121)
-.+..+.+|+||.....-. ..++||..||+|-.+
T Consensus 43 D~ete~lkitiEG~~id~d~i~~~Ie~~Gg~IHSI 77 (95)
T PF02680_consen 43 DVETENLKITIEGDDIDFDEIKEAIEELGGVIHSI 77 (95)
T ss_dssp -SSEEEEEEEEEESSE-HHHHHHHHHHTT-EEEEE
T ss_pred eccccEEEEEEEeCCCCHHHHHHHHHHcCCeEEee
Confidence 3447788999999988754 567999999998654
No 19
>PF06047 SynMuv_product: Ras-induced vulval development antagonist; InterPro: IPR009269 This is a family of eukaryotic proteins with undetermined function.
Probab=42.60 E-value=14 Score=26.75 Aligned_cols=30 Identities=13% Similarity=0.304 Sum_probs=24.3
Q ss_pred cccccCCCCCCC--CCCCcchhhhhhcCCCCC
Q 033365 72 WFEKKGRLLPRP--ARPPPKLQDKVDSIGRLP 101 (121)
Q Consensus 72 ~F~~k~~~iP~~--a~P~~~~~~~~~~~g~L~ 101 (121)
.|.+.|+.|||| ---+.+-++.|++.||.=
T Consensus 19 ~yv~~gkRIPRRGEIGltseeI~~~E~~GYVM 50 (104)
T PF06047_consen 19 AYVQQGKRIPRRGEIGLTSEEIASFEDVGYVM 50 (104)
T ss_pred HHHHcCCCCCCCcccCCCHHHHHHHHhcCeee
Confidence 477889999999 445677799999999864
No 20
>TIGR02115 potass_kdpF K+-transporting ATPase, KdpF subunit. This model describes a very small integral membrane peptide KdpF, a subunit of the K(+)-translocating Kdp complex. It is found upstream of the KdpA subunit (TIGR00680). Because of its very small size and highly hydrophobic character, it is sometimes missed in genome annotation.
Probab=39.01 E-value=11 Score=20.87 Aligned_cols=11 Identities=55% Similarity=0.921 Sum_probs=9.1
Q ss_pred HHhhcCCcccc
Q 033365 64 LRALLKPEWFE 74 (121)
Q Consensus 64 Lra~l~P~~F~ 74 (121)
+-++++||+|.
T Consensus 15 ~~aLl~PErF~ 25 (26)
T TIGR02115 15 FYALLRPERFX 25 (26)
T ss_pred HHHHhCHHhcC
Confidence 45899999995
No 21
>PF03537 Glyco_hydro_114: Glycoside-hydrolase family GH114; InterPro: IPR004352 Eighty-one archaeal-like genes, ranging in size from 4-20kb, are clustered in 15 regions of the Thermotoga maritima genome []. Conservation of gene order between T. maritima and Archaea in many of these regions suggests that lateral gene transfer may have occurred between thermophilic Eubacteria and Archaea []. One of the T. maritima sequences (hypothetical protein TM1410) shares similarity with Methanocaldococcus jannaschii (Methanococcus jannaschii) hypothetical protein MJ1477 and with hypothetical protein DR0705 from Deinococcus radiodurans. The sequences are characterised by relatively variable N- and C-terminal domains, and a more conserved central domain. They share no similarity with any other known, functionally or structurally characterised proteins. ; PDB: 2AAM_F.
Probab=38.96 E-value=50 Score=21.63 Aligned_cols=32 Identities=9% Similarity=0.050 Sum_probs=22.2
Q ss_pred EEEEEEccCHHHHHHHHHcCCEEEEEEecHHHH
Q 033365 32 IHLEASRVTVRAKAAVEAAGGSVRRVHYNKLGL 64 (121)
Q Consensus 32 i~Iev~~aS~~Ai~aIE~aGG~Vt~~Yy~~l~L 64 (121)
+.|....+|++-|+.+.+.| +..+-|+|--+.
T Consensus 30 ~~iD~~~~~~~~I~~L~~~G-~~vicY~s~Gs~ 61 (74)
T PF03537_consen 30 VVIDLFDFSKEEIARLKAQG-KKVICYFSIGSA 61 (74)
T ss_dssp EEE-SBS--HHHHHHHHHTT--EEEEEEESSEE
T ss_pred EEECCccCCHHHHHHHHHCC-CEEEEEEeCcee
Confidence 56667779999999999997 888889885443
No 22
>PF10531 SLBB: SLBB domain; InterPro: IPR019554 The soluble ligand-binding beta-grasp domain (SLBB) contains a beta-grasp fold. They are found in a diverse set of proteins that include the animal vitamin B12 uptake proteins; transcobalamin, intrinsic factor and the bacterial polysaccharide export proteins []. Some proteins may be part of a membrane complex involved in electron transport, others are probably involved in the export of the extracellular polysaccharide colanic acid from the cell to medium.; PDB: 3IAS_S 2FUG_A 3I9V_A 3M9S_1 3IAM_A 2YBB_1 2W8I_E 2W8H_E 2J58_D.
Probab=32.78 E-value=43 Score=20.60 Aligned_cols=31 Identities=23% Similarity=0.309 Sum_probs=23.6
Q ss_pred cccccEEEEEEccCHHHHHHHHHcCCEEEEEE
Q 033365 27 KIKWPIHLEASRVTVRAKAAVEAAGGSVRRVH 58 (121)
Q Consensus 27 ~l~~pi~Iev~~aS~~Ai~aIE~aGG~Vt~~Y 58 (121)
+++.|=.+++.. ..+..++|+.+||--...+
T Consensus 7 ~V~~PG~~~~~~-g~tl~~~i~~AGG~~~~a~ 37 (59)
T PF10531_consen 7 EVNRPGTYELPP-GTTLSDAIAQAGGLTPRAD 37 (59)
T ss_dssp SBSS-EEEEEET-T-BHHHHHHCTTSBBTTBE
T ss_pred EeCCCEEEEECC-CCcHHHHHHHhCCCCCCcc
Confidence 588888999988 8899999999999644333
No 23
>PF00376 MerR: MerR family regulatory protein; InterPro: IPR000551 The many bacterial transcription regulation proteins which bind DNA through a 'helix-turn-helix' motif can be classified into subfamilies on the basis of sequence similarities. One of these is the MerR subfamily. MerR, which is found in many bacterial species mediates the mercuric-dependent induction of the mercury resistance operon. In the absence of mercury merR represses transcription by binding tightly, as a dimer, to the 'mer' operator region; when mercury is present the dimeric complex binds a single ion and becomes a potent transcriptional activator, while remaining bound to the mer site. Members of the family include the mercuric resistance operon regulatory protein merR; Bacillus subtilis bltR and bmrR; Bacillus glnR; Streptomyces coelicolor hspR; Bradyrhizobium japonicum nolA; Escherichia coli superoxide response regulator soxR; and Streptomyces lividans transcriptional activator tipA [, , , , , ]. Other members include hypothetical proteins from E. coli, B. subtilis and Haemophilus influenzae. Within this family, the HTH motif is situated towards the N terminus.; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent; PDB: 3HH0_A 2DG6_A 1R8D_B 1JBG_A 2VZ4_A 2ZHH_A 2ZHG_A 1Q07_A 1Q06_A 1Q05_B ....
Probab=31.17 E-value=19 Score=20.95 Aligned_cols=19 Identities=26% Similarity=0.538 Sum_probs=13.3
Q ss_pred CcchhhhhhcCCCCCCCCC
Q 033365 87 PPKLQDKVDSIGRLPAPTK 105 (121)
Q Consensus 87 ~~~~~~~~~~~g~L~~p~~ 105 (121)
+.+.+.||++.|.||.|..
T Consensus 12 s~~tlR~ye~~Gll~~~~r 30 (38)
T PF00376_consen 12 SPRTLRYYEREGLLPPPER 30 (38)
T ss_dssp -HHHHHHHHHTTSS-SSEE
T ss_pred CHHHHHHHHHCCCCCCCcc
Confidence 3567889999999976654
No 24
>PRK14759 potassium-transporting ATPase subunit F; Provisional
Probab=30.26 E-value=25 Score=19.99 Aligned_cols=10 Identities=60% Similarity=0.886 Sum_probs=8.0
Q ss_pred HHhhcCCccc
Q 033365 64 LRALLKPEWF 73 (121)
Q Consensus 64 Lra~l~P~~F 73 (121)
+-|++.||+|
T Consensus 20 ~~ALlrPErF 29 (29)
T PRK14759 20 TYALLRPERF 29 (29)
T ss_pred HHHHhCcccC
Confidence 3588999988
No 25
>PF08889 WbqC: WbqC-like protein family; InterPro: IPR014985 This family of proteins are functionally uncharacterised. However, it is found in an O-antigen gene cluster in Escherichia coli [] and other bacteria [] suggesting a role in O-antigen production. It has been suggested that wbnG may code for a glycine transferase [].
Probab=30.14 E-value=29 Score=27.29 Aligned_cols=45 Identities=27% Similarity=0.339 Sum_probs=38.7
Q ss_pred EEEEEEccCHHHHHHHHHcCCEEEEEEecHHHHHhhcCCccccccCCC
Q 033365 32 IHLEASRVTVRAKAAVEAAGGSVRRVHYNKLGLRALLKPEWFEKKGRL 79 (121)
Q Consensus 32 i~Iev~~aS~~Ai~aIE~aGG~Vt~~Yy~~l~Lra~l~P~~F~~k~~~ 79 (121)
++++..+.++.+++...+.|++ .|.|..|=+.+++|+.|.+.|..
T Consensus 135 l~~~~~~~~~~vi~i~~~~ga~---~Yi~~~gg~~y~d~~~F~~~gi~ 179 (219)
T PF08889_consen 135 LNLPEGKKSERVIDICKALGAD---TYINGPGGRDYYDPEEFEENGIE 179 (219)
T ss_pred cccCCCCchHHHHHHHHHcCCC---eeecCccchhccCHHHHHhcCCc
Confidence 3335677899999999999999 99999999999999999876653
No 26
>KOG2388 consensus UDP-N-acetylglucosamine pyrophosphorylase [Cell wall/membrane/envelope biogenesis]
Probab=28.79 E-value=59 Score=29.18 Aligned_cols=81 Identities=28% Similarity=0.259 Sum_probs=59.2
Q ss_pred ccEEEEEEccCHHHHHHHHHcCCEEEEEEecHHHHHhhcCCccccccCCCCCCCCCCCcc---hhhhhhcCCCCCCCCCC
Q 033365 30 WPIHLEASRVTVRAKAAVEAAGGSVRRVHYNKLGLRALLKPEWFEKKGRLLPRPARPPPK---LQDKVDSIGRLPAPTKP 106 (121)
Q Consensus 30 ~pi~Iev~~aS~~Ai~aIE~aGG~Vt~~Yy~~l~Lra~l~P~~F~~k~~~iP~~a~P~~~---~~~~~~~~g~L~~p~~~ 106 (121)
.+..+|-+-.|.+.-++....||. .-|+.-++-.|+.--.|.++-...-.+-+|.+. .++||++.|.+-.|++|
T Consensus 292 ~~~vvEYsEi~~~~a~~~~~d~g~---l~~~agnI~nh~ft~dFLkk~~~~~~~~lp~H~a~kKip~~~~~g~~~kP~kp 368 (477)
T KOG2388|consen 292 TPLVVEYSELDAELAKAKAPDGGR---LLFNAGNICNHFFTLDFLKKVTRASVPLLPYHKAEKKIPYVDSTGKLVKPTKP 368 (477)
T ss_pred ceeEEEecccCHHHHhhcccccCc---cccCCccHHHHHHhhHHHHHhhhcccccchhhhhhccccccccCCcccCCCCC
Confidence 778999999998888888888654 556666666666666776654444444446554 47888888999999999
Q ss_pred cccccch
Q 033365 107 IPFFSEE 113 (121)
Q Consensus 107 ~~~~~~~ 113 (121)
.++-.|+
T Consensus 369 nGik~E~ 375 (477)
T KOG2388|consen 369 NGIKLEQ 375 (477)
T ss_pred CceeEEe
Confidence 8887764
No 27
>PRK13491 chemoreceptor glutamine deamidase CheD; Provisional
Probab=28.10 E-value=45 Score=26.48 Aligned_cols=101 Identities=15% Similarity=0.034 Sum_probs=61.7
Q ss_pred hhHHHcCCcCCCCCCcEEEecCCCccccccEEEEEEccCHHHHHHHHHcCCEE----------EEEEecHHHHHhhcCCc
Q 033365 2 KTLKDAGAIGKQIEDGVRLMGRGAEKIKWPIHLEASRVTVRAKAAVEAAGGSV----------RRVHYNKLGLRALLKPE 71 (121)
Q Consensus 2 ~~L~~~gli~~~~k~gVKLLg~G~~~l~~pi~Iev~~aS~~Ai~aIE~aGG~V----------t~~Yy~~l~Lra~l~P~ 71 (121)
+.|.+.|+-. .+.-+||.|.+. -|..-.+| ..+=.+.|++.+++.|=.| ++++|+..+=+.+++-.
T Consensus 83 ~~m~~~Ga~~--~~L~AKifGGA~-M~~~~~~I-G~rNie~a~~~L~~~GI~ivaeDvGG~~gRkI~f~~~tG~v~vk~~ 158 (199)
T PRK13491 83 NALLKLGAAR--QRIEAKIFGGAM-MTPQLGAI-GQANAAFARRYLRDEGIRCTAHSLGGNRARRIRFWPKTGRVQQMFL 158 (199)
T ss_pred HHHHHcCCCH--HHeEEEEEeCcc-cccccccH-HHHHHHHHHHHHHHcCCcEEEEeCCCCCCcEEEEECCCCEEEEEEc
Confidence 5677888853 245789999873 34421111 2333466777777765433 46778777777777655
Q ss_pred ccccc-CCCCCCCCCCCcchhh-hhhcC--CCCCCCCCC
Q 033365 72 WFEKK-GRLLPRPARPPPKLQD-KVDSI--GRLPAPTKP 106 (121)
Q Consensus 72 ~F~~k-~~~iP~~a~P~~~~~~-~~~~~--g~L~~p~~~ 106 (121)
..... ....++++.|....++ +|++. -..|||.+.
T Consensus 159 ~~~~~~~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~ 197 (199)
T PRK13491 159 GSEDVVPNEQPQFRLQGGAGDVTFFDRHNNAEMPDPIKE 197 (199)
T ss_pred CCCccccccccccCcccccccceeecccCCCCCCccccc
Confidence 55431 1233444566666777 88877 788999863
No 28
>COG1888 Uncharacterized protein conserved in archaea [Function unknown]
Probab=27.41 E-value=1e+02 Score=22.03 Aligned_cols=41 Identities=20% Similarity=0.394 Sum_probs=29.6
Q ss_pred cEEEecC--CCccccccEEEEEEccC-HHHHHHHHHcCCEEEEE
Q 033365 17 GVRLMGR--GAEKIKWPIHLEASRVT-VRAKAAVEAAGGSVRRV 57 (121)
Q Consensus 17 gVKLLg~--G~~~l~~pi~Iev~~aS-~~Ai~aIE~aGG~Vt~~ 57 (121)
||.|.-. -.+..+.+++||.+... ..-++.||..||.|-.+
T Consensus 36 gVNItv~eiD~et~~~~itIeG~~ldydei~~~iE~~Gg~IHSi 79 (97)
T COG1888 36 GVNITVTEIDVETENLKITIEGTNLDYDEIEEVIEELGGAIHSI 79 (97)
T ss_pred eEEEEEEEeeehhcceEEEEEcCCCCHHHHHHHHHHcCCeeeeh
Confidence 6666543 23467788888888765 56778999999997653
No 29
>cd00027 BRCT Breast Cancer Suppressor Protein (BRCA1), carboxy-terminal domain. The BRCT domain is found within many DNA damage repair and cell cycle checkpoint proteins. The unique diversity of this domain superfamily allows BRCT modules to interact forming homo/hetero BRCT multimers, BRCT-non-BRCT interactions, and interactions within DNA strand breaks.
Probab=26.84 E-value=72 Score=18.17 Aligned_cols=20 Identities=25% Similarity=0.245 Sum_probs=15.5
Q ss_pred cCHHHHHHHHHcCCEEEEEE
Q 033365 39 VTVRAKAAVEAAGGSVRRVH 58 (121)
Q Consensus 39 aS~~Ai~aIE~aGG~Vt~~Y 58 (121)
--...++.|+.+||++...+
T Consensus 14 ~~~~l~~~i~~~Gg~v~~~~ 33 (72)
T cd00027 14 ERDELKELIEKLGGKVTSSV 33 (72)
T ss_pred CHHHHHHHHHHcCCEEeccc
Confidence 34667889999999987644
No 30
>PF09558 DUF2375: Protein of unknown function (DUF2375); InterPro: IPR014271 Two members of this family are found in Colwellia psychrerythraea (strain 34H / ATCC BAA-681) and one each in various other species of Colwellia and Shewanella. One member from C. psychrerythraea is of special interest because it is preceded by the same cis-regulatory site as a number of genes that have the PEP-CTERM domain described by IPR013424 from INTERPRO.
Probab=26.03 E-value=48 Score=22.42 Aligned_cols=19 Identities=26% Similarity=0.329 Sum_probs=13.5
Q ss_pred HcCCEEEEEEec-HHHHHhh
Q 033365 49 AAGGSVRRVHYN-KLGLRAL 67 (121)
Q Consensus 49 ~aGG~Vt~~Yy~-~l~Lra~ 67 (121)
.+.-+||++||| +.+|-.|
T Consensus 3 ~~~~~VTVlyyd~~~~l~mh 22 (71)
T PF09558_consen 3 ASLATVTVLYYDAPVGLIMH 22 (71)
T ss_pred ccccEEEEEEEcChHHHHHH
Confidence 345689999998 5666444
No 31
>cd04903 ACT_LSD C-terminal ACT domain of the L-serine dehydratase (LSD), iron-sulfur-dependent, beta subunit. The C-terminal ACT domain of the L-serine dehydratase (LSD), iron-sulfur-dependent, beta subunit, found in various bacterial anaerobes such as Clostridium, Bacillis, and Treponema species. These enzymes catalyze the deamination of L-serine, producing pyruvate and ammonia. Unlike the eukaryotic L-serine dehydratase, which requires the pyridoxal-5'-phosphate (PLP) cofactor, the prokaryotic L-serine dehydratase contains an [4Fe-4S] cluster instead of a PLP active site. The LSD alpha and beta subunits of the 'clostridial' enzyme are encoded by the sdhA and sdhB genes. The single subunit bacterial homologs of L-serine dehydratase (LSD1, LSD2, TdcG) present in Escherichia coli, and other enterobacterials, lack the ACT domain described here. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=25.32 E-value=1.4e+02 Score=17.29 Aligned_cols=28 Identities=4% Similarity=0.082 Sum_probs=22.2
Q ss_pred EEEEEEc-cCHHHHHHHHHcCCEEEEEEe
Q 033365 32 IHLEASR-VTVRAKAAVEAAGGSVRRVHY 59 (121)
Q Consensus 32 i~Iev~~-aS~~Ai~aIE~aGG~Vt~~Yy 59 (121)
+.|++.. ....+++.|++..|...+.||
T Consensus 43 i~i~v~~~~~~~~i~~l~~~~~v~~v~~~ 71 (71)
T cd04903 43 MVIEVDQPIDEEVIEEIKKIPNIHQVILI 71 (71)
T ss_pred EEEEeCCCCCHHHHHHHHcCCCceEEEEC
Confidence 4455544 678899999999999888876
No 32
>PF00533 BRCT: BRCA1 C Terminus (BRCT) domain; InterPro: IPR001357 The BRCT domain (after the C_terminal domain of a breast cancer susceptibility protein) is found predominantly in proteins involved in cell cycle checkpoint functions responsive to DNA damage [], for example as found in the breast cancer DNA-repair protein BRCA1. The domain is an approximately 100 amino acid tandem repeat, which appears to act as a phospho-protein binding domain []. A chitin biosynthesis protein from yeast also seems to belong to this group. ; GO: 0005622 intracellular; PDB: 3L46_A 3AL3_A 3AL2_A 1WF6_A 3II6_X 2NTE_B 3FA2_A 2R1Z_A 2COK_A 2K7F_A ....
Probab=23.54 E-value=74 Score=19.26 Aligned_cols=14 Identities=21% Similarity=0.437 Sum_probs=12.1
Q ss_pred HHHHHHHHHcCCEE
Q 033365 41 VRAKAAVEAAGGSV 54 (121)
Q Consensus 41 ~~Ai~aIE~aGG~V 54 (121)
+.....|++.||++
T Consensus 22 ~~l~~~i~~~GG~v 35 (78)
T PF00533_consen 22 EELEQLIKKHGGTV 35 (78)
T ss_dssp HHHHHHHHHTTEEE
T ss_pred HHHHHHHHHcCCEE
Confidence 45688999999998
No 33
>COG3981 Predicted acetyltransferase [General function prediction only]
Probab=23.14 E-value=1.2e+02 Score=23.70 Aligned_cols=32 Identities=13% Similarity=0.350 Sum_probs=23.7
Q ss_pred ccEEEEEEccCHHHHHHHHHcCCEEEEEEecH
Q 033365 30 WPIHLEASRVTVRAKAAVEAAGGSVRRVHYNK 61 (121)
Q Consensus 30 ~pi~Iev~~aS~~Ai~aIE~aGG~Vt~~Yy~~ 61 (121)
+++-|..+.=.....+.||++||..+..+++.
T Consensus 132 ~~Vlvtcd~dN~ASrkvI~~NGGile~~~~~~ 163 (174)
T COG3981 132 KKVLVTCDKDNIASRKVIEANGGILENEFFGE 163 (174)
T ss_pred CeEEEEeCCCCchhhHHHHhcCCEEeEEEccC
Confidence 34556666656666788999999998887764
No 34
>PLN02735 carbamoyl-phosphate synthase
Probab=20.64 E-value=1.3e+02 Score=29.26 Aligned_cols=48 Identities=19% Similarity=0.159 Sum_probs=42.5
Q ss_pred CcEEEecCCCccccccEEEEEEccCHHHHHHHHHcCCEEEEEEecHHHHH
Q 033365 16 DGVRLMGRGAEKIKWPIHLEASRVTVRAKAAVEAAGGSVRRVHYNKLGLR 65 (121)
Q Consensus 16 ~gVKLLg~G~~~l~~pi~Iev~~aS~~Ai~aIE~aGG~Vt~~Yy~~l~Lr 65 (121)
..|=|||.| ...-.-.||.++++-.++.++.+.|=.+.++++|+...-
T Consensus 575 kkvlilG~G--~~~igq~iefd~~~v~~~~alr~~G~~tI~v~~npetvs 622 (1102)
T PLN02735 575 KKVLILGGG--PNRIGQGIEFDYCCCHASFALQDAGYETIMMNSNPETVS 622 (1102)
T ss_pred ceEEEeCcc--ccccCcccccceeHHHHHHHHHHcCCeEEEEeCCCcccc
Confidence 478899999 677777899999999999999999999999999988754
Done!