Query 032132
Match_columns 146
No_of_seqs 146 out of 636
Neff 5.8
Searched_HMMs 46136
Date Fri Mar 29 10:01:46 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/032132.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/032132hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF01871 AMMECR1: AMMECR1; In 100.0 8E-51 1.7E-55 316.9 11.1 128 8-146 1-134 (171)
2 TIGR00296 uncharacterized prot 100.0 7.1E-50 1.5E-54 318.4 12.8 133 5-146 9-153 (200)
3 KOG3274 Uncharacterized conser 100.0 1.4E-50 2.9E-55 317.9 8.2 142 1-146 10-153 (210)
4 PRK00801 hypothetical protein; 100.0 6.4E-49 1.4E-53 313.1 12.8 131 5-146 9-150 (201)
5 COG2078 AMMECR1 Uncharacterize 100.0 6.3E-45 1.4E-49 288.8 12.9 133 6-146 11-153 (203)
6 PRK03881 hypothetical protein; 100.0 7.5E-41 1.6E-45 293.5 13.0 125 5-140 299-431 (467)
7 PF00853 Runt: Runt domain; I 49.0 9.6 0.00021 28.9 1.2 75 32-118 49-125 (135)
8 KOG1612 Exosomal 3'-5' exoribo 48.2 1E+02 0.0022 26.2 7.3 80 6-96 99-179 (288)
9 PF08381 BRX: Transcription fa 46.3 18 0.00039 23.8 2.0 14 34-47 11-24 (59)
10 KOG1546 Metacaspase involved i 36.0 21 0.00045 31.2 1.4 28 32-61 62-89 (362)
11 COG3044 Predicted ATPase of th 33.6 53 0.0012 30.0 3.6 59 61-124 65-126 (554)
12 PF06102 DUF947: Domain of unk 31.5 22 0.00049 27.6 0.9 13 76-88 32-44 (168)
13 KOG3982 Runt and related trans 30.6 83 0.0018 28.1 4.3 76 32-119 146-223 (475)
14 PF03889 DUF331: Domain of unk 27.6 26 0.00055 21.3 0.4 17 68-84 3-19 (39)
15 PF03544 TonB_C: Gram-negative 26.7 1.2E+02 0.0025 19.2 3.6 55 35-97 16-71 (79)
16 PF06155 DUF971: Protein of un 25.4 56 0.0012 22.2 1.9 20 113-136 64-83 (89)
17 PF11235 Med25_SD1: Mediator c 23.5 87 0.0019 24.5 2.8 26 64-89 56-86 (168)
No 1
>PF01871 AMMECR1: AMMECR1; InterPro: IPR002733 The contiguous gene deletion syndrome is characterised by Alport syndrome (A), mental retardation (M), midface hypoplasia (M), and elliptocytosis (E), as well as generalized hypoplasia and cardiac abnormalities. It is caused by a deletion in Xq22.3, comprising several genes including AMME chromosomal region gene 1 (AMMECR1), which encodes a protein with a nuclear location and presently unknown function. The C-terminal region of AMMECR1 (from residue 122 to 333) is well conserved, and homologues appear in species ranging from bacteria and archaea to eukaryotes. The high level of conservation of the AMMECR1 domain points to a basic cellular function, potentially in either the transcription, replication, repair or translation machinery [, ]. The AMMECR1 domain contains a 6-amino-acid motif (LRGCIG) that might be functionally important since it is strikingly conserved throughout evolution []. The AMMECR1 domain consists of two distinct subdomains of different sizes. The large subdomain, which contains both the N- and C-terminal regions, consists of five alpha-helices and five beta-strands. These five beta-strands form an antiparallel beta-sheet. The small subdomain consists of four alpha-helices and three beta-strands, and these beta-strands also form an antiparallel beta-sheet. The conserved 'LRGCIG' motif is located at beta(2) and its N-terminal loop, and most of the side chains of these residues point toward the interface of the two subdomains. The two subdomains are connected by only two loops, and the interaction between the two subdomains is not strong. Thus, these subdomains may move dynamically when the substrate enters the cleft. The size of the cleft suggests that the substrate is large, e.g., the substrate may be a nucleic acid or protein. However, the inner side of the cleft is not filled with positively charged residues, and therefore it is unlikely that negatively charged nucleic acids such as DNA or RNA interact at this site []. ; PDB: 1WSC_B 1VAJ_A 1ZQ7_D.
Probab=100.00 E-value=8e-51 Score=316.86 Aligned_cols=128 Identities=38% Similarity=0.637 Sum_probs=104.3
Q ss_pred HHHHHHHHHHHhhcCCCCC--CCC---CCCCCCceEEEEEEecCCCCccceeeeccccc-ccHHHHHHHHHHHhhhcCCC
Q 032132 8 MAVYCFDTLVAHYNSEDAP--PPA---FDEGQHPLFVTWKKVVNGGEPRLRGCIGTLEA-RCLINGFKDYALTSALKDRR 81 (146)
Q Consensus 8 l~~~ar~~i~~~l~~~~~~--~~~---~~~~~~g~FVTl~~~~~g~~~~LRGCIGt~~p-~pL~~~i~~~A~~AA~~DpR 81 (146)
||.+||++|.++|++++.. .++ ....++|+||||++ +| +||||||+++| +||+++|++||++|||+|||
T Consensus 1 Ll~~Ar~ai~~~l~~~~~~~~~~~~~~~l~~~~g~FVTl~~--~g---~LRGCIGt~~p~~~L~~~v~~~A~~AA~~DpR 75 (171)
T PF01871_consen 1 LLRLAREAIESYLRGGPLPPPPPPLPPELSEPRGVFVTLKK--DG---ELRGCIGTFEPVRPLAEDVIENAIAAAFEDPR 75 (171)
T ss_dssp HHHHHHHHHHHHHHHSSSCCCCCT--GGGGSBEEEEEEEEE--CC---CEEEEEEESSSESBHHHHHHHHHHHHHHT-TT
T ss_pred CHHHHHHHHHHHHcCCCCCCCCCCCChhhcCceeEEEEEEE--CC---EEEEEeccCCcchhHHHHHHHHHHHHhhCCCC
Confidence 7999999999999888742 111 11569999999999 88 99999999999 89999999999999999999
Q ss_pred CCCCCcCCCCCeeEEEEeecCceecCCCcCcccccceeEEEEecCCCCCCeeeeecCccccccCC
Q 032132 82 FPPIQARELPSLECTVSILTDFETANNYLDWEVGTHGLIIEFTDPEYSTRRSATYLPEVAAHEEA 146 (146)
Q Consensus 82 F~Pl~~~El~~l~ieVSvL~~~e~~~~~~~~~~G~hGlii~~~~~~~~~~~~~~~LPqV~~E~~~ 146 (146)
|+||+++||++|+|+||||+++++++++.+|++|+|||+|++ ++++||||||||.||||
T Consensus 76 F~Pl~~~El~~l~ieVSvL~~~~~i~~~~~~~~g~~Glil~~------~~~~~~~LPqVa~E~~w 134 (171)
T PF01871_consen 76 FPPLTPSELPELSIEVSVLSPPEPISDPEDWEPGRHGLILEF------GGYRGTFLPQVAWEQGW 134 (171)
T ss_dssp S----GGGGGGEEEEEEEE---EE--GGGG--TTT-EEEEEE------TTEEEEE-THHHHHTT-
T ss_pred CCCCCHHHHcccEEEEEeccCcEEcCCHHHcccCcceeEEEe------cCcceEECCCchhhcCC
Confidence 999999999999999999999999999999999999999999 79999999999999998
No 2
>TIGR00296 uncharacterized protein, PH0010 family. Members of this functionally uncharacterized protein family have been crystallized from Pyrococcus Horikoshii, Methanosarcina Mazei, and Sulfolobus Tokodaii.
Probab=100.00 E-value=7.1e-50 Score=318.37 Aligned_cols=133 Identities=37% Similarity=0.573 Sum_probs=119.1
Q ss_pred chHHHHHHHHHHHHhhcCCCCC--CCCCC---CCCCceEEEEEEecCCCCccceeeeccccc-ccHHHHHHHHHHHhhhc
Q 032132 5 NREMAVYCFDTLVAHYNSEDAP--PPAFD---EGQHPLFVTWKKVVNGGEPRLRGCIGTLEA-RCLINGFKDYALTSALK 78 (146)
Q Consensus 5 ~~~l~~~ar~~i~~~l~~~~~~--~~~~~---~~~~g~FVTl~~~~~g~~~~LRGCIGt~~p-~pL~~~i~~~A~~AA~~ 78 (146)
.+.||.+||++|.++|++++.+ +++++ ..++||||||++ +| +.+|||||||+.| +||+++|++||++|||+
T Consensus 9 ~~~l~~lAr~ai~~~l~~~~~~~~~~~~p~~l~~~~g~FVTl~~--~~-~~~LRGCIGs~~p~~pL~~~v~~~A~~AA~~ 85 (200)
T TIGR00296 9 GSSAVRYARYAIESHLNGGKSSRLYPDLPIVFNEKRGVFITLKK--KG-NKHLRGCIGTPEPVMPLIEAIEEAAISAATE 85 (200)
T ss_pred HHHHHHHHHHHHHHHHccCCCCCCCccCChhhCCcccEEEEEEE--CC-CcCCCcccccCCCcccHHHHHHHHHHHHHcC
Confidence 4669999999999999876632 23443 679999999998 56 1249999999999 89999999999999999
Q ss_pred CCCCCCCCcCCCCCeeEEEEeecCceecC------CCcCcccccceeEEEEecCCCCCCeeeeecCccccccCC
Q 032132 79 DRRFPPIQARELPSLECTVSILTDFETAN------NYLDWEVGTHGLIIEFTDPEYSTRRSATYLPEVAAHEEA 146 (146)
Q Consensus 79 DpRF~Pl~~~El~~l~ieVSvL~~~e~~~------~~~~~~~G~hGlii~~~~~~~~~~~~~~~LPqV~~E~~~ 146 (146)
||||+||+.+||++|.||||||+++++++ ++.+|+||+|||+|++ +.+|||||||||+||||
T Consensus 86 DpRF~Pl~~~EL~~l~ieVSvL~~~e~i~~~~~~~~~~~~~~G~hGlii~~------g~~~gt~LPqVa~E~~w 153 (200)
T TIGR00296 86 DPRFPPVQLEELDDIKVEVSILTPPETIFVGGPKDYPFDIEIGRHGLIVEF------GPKRGLLLPQVAVEYGW 153 (200)
T ss_pred CCCCCCCChHHhCCcEEEEEeCCCCEEcccCCccccHHHcccccceEEEEE------CCccEEECCccHhhcCC
Confidence 99999999999999999999999999993 5678999999999999 68999999999999999
No 3
>KOG3274 consensus Uncharacterized conserved protein, AMMECR1 [Function unknown]
Probab=100.00 E-value=1.4e-50 Score=317.88 Aligned_cols=142 Identities=65% Similarity=1.097 Sum_probs=132.9
Q ss_pred CcccchHHHHHHHHHHHHhhcCCCCC--CCCCCCCCCceEEEEEEecCCCCccceeeecccccccHHHHHHHHHHHhhhc
Q 032132 1 MVSANREMAVYCFDTLVAHYNSEDAP--PPAFDEGQHPLFVTWKKVVNGGEPRLRGCIGTLEARCLINGFKDYALTSALK 78 (146)
Q Consensus 1 ~~~~~~~l~~~ar~~i~~~l~~~~~~--~~~~~~~~~g~FVTl~~~~~g~~~~LRGCIGt~~p~pL~~~i~~~A~~AA~~ 78 (146)
|.+|+.+||.|||++|.++|++.+.+ ++.+.+...++||||++ |.+.+||||||||.++||+.++.+||+.|||+
T Consensus 10 ~~~~~~~ma~ycF~vl~~~ln~~k~p~~~~~~~~~~~PLFvtwk~---g~dkrLRGCIGTFsam~L~~Gl~eYaltsAl~ 86 (210)
T KOG3274|consen 10 MTSANSEMAVYCFDVLYAHLNNEKSPSLPPDFRNRLYPLFVTWKK---GHDKRLRGCIGTFSAMPLHSGLREYALTSALK 86 (210)
T ss_pred ccccCcceEEEehhhhhhhhccccCCCcchhhhccCcceeEEecc---CCCcccccceeehhhcchhhhHHHHHHHHHhh
Confidence 56799999999999999999988776 45677888999999996 55679999999999999999999999999999
Q ss_pred CCCCCCCCcCCCCCeeEEEEeecCceecCCCcCcccccceeEEEEecCCCCCCeeeeecCccccccCC
Q 032132 79 DRRFPPIQARELPSLECTVSILTDFETANNYLDWEVGTHGLIIEFTDPEYSTRRSATYLPEVAAHEEA 146 (146)
Q Consensus 79 DpRF~Pl~~~El~~l~ieVSvL~~~e~~~~~~~~~~G~hGlii~~~~~~~~~~~~~~~LPqV~~E~~~ 146 (146)
|.||+||+.+||++|.|+||+|++||++.|+.||++|+|||.|+|.+ ++|..++|||||+||.||||
T Consensus 87 DsRF~PIsr~ELp~L~CsvslL~nFE~i~d~lDWevG~HGIrieF~~-e~g~krsATyLPeVa~EQgW 153 (210)
T KOG3274|consen 87 DSRFPPISREELPSLQCSVSLLTNFEDIFDYLDWEVGVHGIRIEFTN-ETGTKRSATYLPEVAAEQGW 153 (210)
T ss_pred cccCCCCChhhcCceEEEEEeeccchhcccccceeeccceEEEEEEc-CCCcEeeeeecccchhhcCC
Confidence 99999999999999999999999999999999999999999999987 45788999999999999999
No 4
>PRK00801 hypothetical protein; Provisional
Probab=100.00 E-value=6.4e-49 Score=313.08 Aligned_cols=131 Identities=28% Similarity=0.382 Sum_probs=119.5
Q ss_pred chHHHHHHHHHHHHhhcCCCCCC--CCCC---CCCCceEEEEEEecCCCCccceeeeccccc-ccHHHHHHHHHHHhhhc
Q 032132 5 NREMAVYCFDTLVAHYNSEDAPP--PAFD---EGQHPLFVTWKKVVNGGEPRLRGCIGTLEA-RCLINGFKDYALTSALK 78 (146)
Q Consensus 5 ~~~l~~~ar~~i~~~l~~~~~~~--~~~~---~~~~g~FVTl~~~~~g~~~~LRGCIGt~~p-~pL~~~i~~~A~~AA~~ 78 (146)
.+.|+.+||++|.++|.+++.+. .+++ ..++||||||++ +| +|||||||+.| +||+++|++||++|||+
T Consensus 9 ~~~Ll~lAR~ai~~~l~~~~~~~~~~~~~~~l~~~~g~FVTl~~--~g---~LRGCIGs~~p~~pL~~~v~~~A~~AA~~ 83 (201)
T PRK00801 9 GEFAVRLARRAIEEYLRTGKVIEPPKDLPPVFWEKRGVFVTLNK--HG---VLRGCIGFPYPDSPLVEAIIDSAISAATR 83 (201)
T ss_pred HHHHHHHHHHHHHHHHccCCCCCCCccCCHhHcccccEEEEEEE--CC---eeccccCCCCCcccHHHHHHHHHHHHHcC
Confidence 45699999999999998766442 2223 578999999998 78 99999999999 79999999999999999
Q ss_pred CCCCCCCCcCCCCCeeEEEEeecCceecCC-----CcCcccccceeEEEEecCCCCCCeeeeecCccccccCC
Q 032132 79 DRRFPPIQARELPSLECTVSILTDFETANN-----YLDWEVGTHGLIIEFTDPEYSTRRSATYLPEVAAHEEA 146 (146)
Q Consensus 79 DpRF~Pl~~~El~~l~ieVSvL~~~e~~~~-----~~~~~~G~hGlii~~~~~~~~~~~~~~~LPqV~~E~~~ 146 (146)
||||+||+++||++|.||||||++++++++ +.+|+||+|||||++ |.|+||||||||+||||
T Consensus 84 DpRF~Pl~~~EL~~l~ieVSvLs~~e~i~~~~~~l~~~~~~G~~Glii~~------g~~~g~~LPqV~~e~~w 150 (201)
T PRK00801 84 DPRFPPVKLEEMDEITVEVTVLTPPELIEGPPEELPEKIEVGRHGLIVKK------GIYSGLLLPQVAPEWGF 150 (201)
T ss_pred CCCCCCCChHHhCCcEEEEEEcCCCEEccCcchhhHHhccccceEEEEEe------CCccEEECCcchhhcCC
Confidence 999999999999999999999999999975 678999999999999 78999999999999999
No 5
>COG2078 AMMECR1 Uncharacterized conserved protein [Function unknown]
Probab=100.00 E-value=6.3e-45 Score=288.80 Aligned_cols=133 Identities=32% Similarity=0.458 Sum_probs=121.0
Q ss_pred hHHHHHHHHHHHHhhcCCCCCCCC-CC---CCCCceEEEEEEecCCCCccceeeeccccc-ccHHHHHHHHHHHhhhcCC
Q 032132 6 REMAVYCFDTLVAHYNSEDAPPPA-FD---EGQHPLFVTWKKVVNGGEPRLRGCIGTLEA-RCLINGFKDYALTSALKDR 80 (146)
Q Consensus 6 ~~l~~~ar~~i~~~l~~~~~~~~~-~~---~~~~g~FVTl~~~~~g~~~~LRGCIGt~~p-~pL~~~i~~~A~~AA~~Dp 80 (146)
..+|.|||.+|+++|++++.+.+. ++ +++.|+||||++.+ .+++||||||++.| .+|+++++++|+.||++||
T Consensus 11 ~~~V~lAR~ai~~~L~~gk~~~~~~~~~~~~~k~gvFvTl~~~~--~~~~LRGCIG~~~p~~~l~~ai~~~Ai~AA~~DP 88 (203)
T COG2078 11 HPLVRLAREAIENYLEGGKVIEPEPFPKLFQEKRGVFVTLEKYS--PDGELRGCIGTPEPVKPLAEAIIKAAIEAALSDP 88 (203)
T ss_pred hHHHHHHHHHHHHHhccCCcCCCcccchhhhhccceEEEEEEeC--CCCceeeecccCcccCcHHHHHHHHHHHHHhcCC
Confidence 579999999999999988876543 22 78999999999973 12399999999999 6999999999999999999
Q ss_pred CCCCCCcCCCCCeeEEEEeecCceecCCC-----cCcccccceeEEEEecCCCCCCeeeeecCccccccCC
Q 032132 81 RFPPIQARELPSLECTVSILTDFETANNY-----LDWEVGTHGLIIEFTDPEYSTRRSATYLPEVAAHEEA 146 (146)
Q Consensus 81 RF~Pl~~~El~~l~ieVSvL~~~e~~~~~-----~~~~~G~hGlii~~~~~~~~~~~~~~~LPqV~~E~~~ 146 (146)
||+|++.+||+++.||||+|++|+++.+. .+|++|+||||+.+ |.+||++||||++||+|
T Consensus 89 RF~pv~~~EL~~i~veV~iLt~pe~i~~~p~~~p~~ie~G~~Gliv~~------g~~sgllLPqV~vE~~w 153 (203)
T COG2078 89 RFPPVSLEELDDIVVEVTILTPPEEIDVPPEERPEDIEVGRHGLIVEK------GIYSGLLLPQVPVEYRW 153 (203)
T ss_pred CCCCCChhHhcceEEEEEEcCCCeecCCCchhChhheeecceEEEEec------CCcceeecCccccccCC
Confidence 99999999999999999999999998754 78999999999998 78999999999999999
No 6
>PRK03881 hypothetical protein; Provisional
Probab=100.00 E-value=7.5e-41 Score=293.52 Aligned_cols=125 Identities=27% Similarity=0.466 Sum_probs=114.2
Q ss_pred chHHHHHHHHHHHHhhcCCCCCC--CC----CCCCCCceEEEEEEecCCCCccceeeeccccc-c-cHHHHHHHHHHHhh
Q 032132 5 NREMAVYCFDTLVAHYNSEDAPP--PA----FDEGQHPLFVTWKKVVNGGEPRLRGCIGTLEA-R-CLINGFKDYALTSA 76 (146)
Q Consensus 5 ~~~l~~~ar~~i~~~l~~~~~~~--~~----~~~~~~g~FVTl~~~~~g~~~~LRGCIGt~~p-~-pL~~~i~~~A~~AA 76 (146)
.+.|+.+||++|+++|+++++.+ ++ +.+.++||||||++ +| +|||||||++| + ||+++|++||++||
T Consensus 299 ~~~l~~lAr~~i~~~l~~~~~~~~~~~~~~~~~~~~~g~FVTl~~--~g---~LRGCIG~~~p~~~~L~~~v~~~a~~AA 373 (467)
T PRK03881 299 EDPYVRLARESLESYVKTGKPLPVPDYLPEEMLNRRAGVFVSLKK--DG---ELRGCIGTIFPTRENIAEEIIRNAISAG 373 (467)
T ss_pred hhHHHHHHHHHHHHHhCcCCCCCCCccCChHHhCCcccEEEEEEE--CC---eeeeeeeecCCCcchHHHHHHHHHHHHh
Confidence 46699999999999998765432 11 23678999999998 78 99999999999 4 89999999999999
Q ss_pred hcCCCCCCCCcCCCCCeeEEEEeecCceecCCCcCcccccceeEEEEecCCCCCCeeeeecCcc
Q 032132 77 LKDRRFPPIQARELPSLECTVSILTDFETANNYLDWEVGTHGLIIEFTDPEYSTRRSATYLPEV 140 (146)
Q Consensus 77 ~~DpRF~Pl~~~El~~l~ieVSvL~~~e~~~~~~~~~~G~hGlii~~~~~~~~~~~~~~~LPqV 140 (146)
|+||||+||+++||++|.||||||+++|+++++.+|+||+|||+|++ +.++|||||||
T Consensus 374 ~~DpRF~pl~~~El~~l~i~VsvL~~~~~~~~~~~~~~g~~Gli~~~------~~~~g~~LP~v 431 (467)
T PRK03881 374 TEDPRFPPVEEDELDDLVYSVDVLTEPEPVSSLDELDPKRYGVIVRS------GRRRGLLLPDL 431 (467)
T ss_pred cCCCCCCCCChHHhCCeEEEEEEcCCCeECCCHHHcCCccceEEEEE------CCccEEECCCC
Confidence 99999999999999999999999999999999999999999999999 78999999999
No 7
>PF00853 Runt: Runt domain; InterPro: IPR013524 The AML1 gene is rearranged by the t(8;21) translocation in acute myeloid leukemia []. The gene is highly similar to the Drosophila melanogaster segmentation gene runt and to the mouse transcription factor PEBP2 alpha subunit gene []. The region of shared similarity, known as the Runt domain, is responsible for DNA-binding and protein-protein interaction. In addition to the highly-conserved Runt domain, the AML-1 gene product carries a putative ATP-binding site (GRSGRGKS), and has a C-terminal region rich in proline and serine residues. The protein (known as acute myeloid leukemia 1 protein, oncogene AML-1, core-binding factor (CBF), alpha-B subunit, etc.) binds to the core site, 5'-pygpyggt-3', of a number of enhancers and promoters. The protein is a heterodimer of alpha- and beta-subunits. The alpha-subunit binds DNA as a monomer, and appears to have a role in the development of normal hematopoiesis. CBF is a nuclear protein expressed in numerous tissue types, except brain and heart; highest levels have been found to occur in thymus, bone marrow and peripheral blood. This domain occurs towards the N terminus of the proteins in this entry.; GO: 0003677 DNA binding, 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent; PDB: 1E50_E 1LJM_A 1CO1_A 1H9D_C 1CMO_A 1EAO_B 1HJC_D 1HJB_F 2J6W_B 1EAN_A ....
Probab=48.99 E-value=9.6 Score=28.86 Aligned_cols=75 Identities=19% Similarity=0.208 Sum_probs=47.8
Q ss_pred CCCCceEEEEEEecCC-CCccceeeecccccccHHHHHHHHHHHhhhcCCCCCCCCcCCCCCeeEEEEeecCceecCCCc
Q 032132 32 EGQHPLFVTWKKVVNG-GEPRLRGCIGTLEARCLINGFKDYALTSALKDRRFPPIQARELPSLECTVSILTDFETANNYL 110 (146)
Q Consensus 32 ~~~~g~FVTl~~~~~g-~~~~LRGCIGt~~p~pL~~~i~~~A~~AA~~DpRF~Pl~~~El~~l~ieVSvL~~~e~~~~~~ 110 (146)
+-+-|.-||+.-..+- ...+||.|.-....+ .|-|+|=||-.-+-. =++.++.|++.+.+-.+..+.
T Consensus 49 ~V~DGT~Vtv~AGNDEn~~aElRN~tavmknq-----------vA~FnDLRFvGRSGR-GKsFtltItv~t~PpqvAty~ 116 (135)
T PF00853_consen 49 DVPDGTLVTVMAGNDENYCAELRNATAVMKNQ-----------VARFNDLRFVGRSGR-GKSFTLTITVFTNPPQVATYH 116 (135)
T ss_dssp S-STTEEEEEEEEESSCSSBBEES-EEEEETT-----------EEEESS-EECST-TT-TSEEEEEEEE-SSS-EEEEEC
T ss_pred EcCCCcEEEEEecCCchhhhhhhchhhhhhcc-----------cccccccccccccCC-ccceEEEEEEeCCCchHHhhe
Confidence 5678999999874321 235899998766543 357999999775443 357888999999888776553
Q ss_pred -Ccccccce
Q 032132 111 -DWEVGTHG 118 (146)
Q Consensus 111 -~~~~G~hG 118 (146)
.+.+-.||
T Consensus 117 ~AIKVTVDG 125 (135)
T PF00853_consen 117 RAIKVTVDG 125 (135)
T ss_dssp CEEEEESS-
T ss_pred eeEEEEecC
Confidence 46665555
No 8
>KOG1612 consensus Exosomal 3'-5' exoribonuclease complex, subunit Rrp42 [Translation, ribosomal structure and biogenesis]
Probab=48.24 E-value=1e+02 Score=26.20 Aligned_cols=80 Identities=19% Similarity=0.068 Sum_probs=45.9
Q ss_pred hHHHHHHHHHHHHhhcCC-CCCCCCCCCCCCceEEEEEEecCCCCccceeeecccccccHHHHHHHHHHHhhhcCCCCCC
Q 032132 6 REMAVYCFDTLVAHYNSE-DAPPPAFDEGQHPLFVTWKKVVNGGEPRLRGCIGTLEARCLINGFKDYALTSALKDRRFPP 84 (146)
Q Consensus 6 ~~l~~~ar~~i~~~l~~~-~~~~~~~~~~~~g~FVTl~~~~~g~~~~LRGCIGt~~p~pL~~~i~~~A~~AA~~DpRF~P 84 (146)
+++..---.++++.|++. ..++-......-| +.|....+. -+=-|-| ++ -+.+..|+.+|+++.|||-
T Consensus 99 de~~~eltsaLq~~l~~~~sgv~ls~L~lt~~--~~W~i~VDv---lVi~s~g-----n~-~dAiS~Ai~~AL~~T~lPk 167 (288)
T KOG1612|consen 99 DELVEELTSALQRVLNSLGSGVDLSKLQLTPG--YCWKIYVDV---LVISSDG-----NL-LDAISIAIYAALNNTRLPK 167 (288)
T ss_pred hhHHHHHHHHHHHHHhCcCcccchhheeccCC--eeEEEEEeE---EEEecCC-----CH-HHHHHHHHHHHHhcccCCc
Confidence 455555555666666552 2122111122223 677776554 4444545 45 3466789999999999998
Q ss_pred CCcCCCCCeeEE
Q 032132 85 IQARELPSLECT 96 (146)
Q Consensus 85 l~~~El~~l~ie 96 (146)
+.-.+-+....+
T Consensus 168 v~v~~dd~~~~~ 179 (288)
T KOG1612|consen 168 VIVAFDDDGEVE 179 (288)
T ss_pred cccccccCCcee
Confidence 766654444443
No 9
>PF08381 BRX: Transcription factor regulating root and shoot growth via Pin3; InterPro: IPR013591 This is a short domain, approximately 35 residues in length that is found near the C terminus in a number of plant proteins, being repeated in some members. It is found in Brevis radix-like proteins. These may act as a regulator of cell proliferation and elongation in the root []. It is also found in proteins annotated as involved in disease resistance and in the regulation of chromosome condensation, which also contain other domains with varied functions, such as TIR (IPR000157 from INTERPRO) and FYVE (IPR000306 from INTERPRO) respectively.
Probab=46.28 E-value=18 Score=23.81 Aligned_cols=14 Identities=14% Similarity=0.430 Sum_probs=11.6
Q ss_pred CCceEEEEEEecCC
Q 032132 34 QHPLFVTWKKVVNG 47 (146)
Q Consensus 34 ~~g~FVTl~~~~~g 47 (146)
.-|||+|+....+|
T Consensus 11 EpGVyiTl~~~p~G 24 (59)
T PF08381_consen 11 EPGVYITLVSLPDG 24 (59)
T ss_pred CCeeEEEEEECCCC
Confidence 46999999987666
No 10
>KOG1546 consensus Metacaspase involved in regulation of apoptosis [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]
Probab=35.98 E-value=21 Score=31.23 Aligned_cols=28 Identities=21% Similarity=0.493 Sum_probs=20.3
Q ss_pred CCCCceEEEEEEecCCCCccceeeeccccc
Q 032132 32 EGQHPLFVTWKKVVNGGEPRLRGCIGTLEA 61 (146)
Q Consensus 32 ~~~~g~FVTl~~~~~g~~~~LRGCIGt~~p 61 (146)
.++.++-|-++- -|...+|||||--...
T Consensus 62 gkrrAvLiGINY--~gTk~ELrGCINDv~~ 89 (362)
T KOG1546|consen 62 GKRRAVLIGINY--PGTKNELRGCINDVHR 89 (362)
T ss_pred ccceEEEEeecC--CCcHHHHhhhHHHHHH
Confidence 566799999886 3545599999974443
No 11
>COG3044 Predicted ATPase of the ABC class [General function prediction only]
Probab=33.56 E-value=53 Score=30.02 Aligned_cols=59 Identities=24% Similarity=0.351 Sum_probs=37.8
Q ss_pred cccHHHHHHHHHHHhhhcCCCCCCCCcCCCCCeeEEEEeecC---ceecCCCcCcccccceeEEEEe
Q 032132 61 ARCLINGFKDYALTSALKDRRFPPIQARELPSLECTVSILTD---FETANNYLDWEVGTHGLIIEFT 124 (146)
Q Consensus 61 p~pL~~~i~~~A~~AA~~DpRF~Pl~~~El~~l~ieVSvL~~---~e~~~~~~~~~~G~hGlii~~~ 124 (146)
|.|+.+.|..+-.+ -++|-|+.=.++ +..-++.-.+. ....-+..-|.+|+|++++++.
T Consensus 65 ~~p~iEeikr~~~~----~~dfyplag~~~-~~~k~l~epstvI~~~~~l~~~lw~~gk~n~~lR~~ 126 (554)
T COG3044 65 PVPLIEEIKRYQMA----ARDFYPLAGAEF-SGAKQLNEPSTVISGQTVLDSTLWLFGKHNIELRFR 126 (554)
T ss_pred cccHHHHHHHHHhh----cccccccccchh-hcccccCCCceeEecccccCCcccccCccceEEeec
Confidence 46899999888554 488999988887 21111111111 1112245579999999999883
No 12
>PF06102 DUF947: Domain of unknown function (DUF947); InterPro: IPR009292 This is a family of eukaryotic proteins with unknown function.
Probab=31.49 E-value=22 Score=27.59 Aligned_cols=13 Identities=23% Similarity=0.493 Sum_probs=10.2
Q ss_pred hhcCCCCCCCCcC
Q 032132 76 ALKDRRFPPIQAR 88 (146)
Q Consensus 76 A~~DpRF~Pl~~~ 88 (146)
-..||||.|++-.
T Consensus 32 ~~rDPRFd~~~G~ 44 (168)
T PF06102_consen 32 KRRDPRFDSLSGE 44 (168)
T ss_pred CCCCCCcCccccc
Confidence 5789999998543
No 13
>KOG3982 consensus Runt and related transcription factors [Transcription]
Probab=30.65 E-value=83 Score=28.13 Aligned_cols=76 Identities=20% Similarity=0.194 Sum_probs=49.8
Q ss_pred CCCCceEEEEEEecCC-CCccceeeecccccccHHHHHHHHHHHhhhcCCCCCCCCcCCCCCeeEEEEeecCceecCCCc
Q 032132 32 EGQHPLFVTWKKVVNG-GEPRLRGCIGTLEARCLINGFKDYALTSALKDRRFPPIQARELPSLECTVSILTDFETANNYL 110 (146)
Q Consensus 32 ~~~~g~FVTl~~~~~g-~~~~LRGCIGt~~p~pL~~~i~~~A~~AA~~DpRF~Pl~~~El~~l~ieVSvL~~~e~~~~~~ 110 (146)
+-+-|.-||+.-..|- .-.|||-|- ++.++ --|-|+|=||---+- -=++.++.|.|.+.+..+..+.
T Consensus 146 dVpDgT~Vti~aGNDEnyc~ElRN~t----------A~mkn-QVAkFNDLRFVGRSG-RGKsFtLTIti~TnP~qvATy~ 213 (475)
T KOG3982|consen 146 DVPDGTLVTIMAGNDENYCAELRNCT----------AVMKN-QVAKFNDLRFVGRSG-RGKSFTLTITIFTNPPQVATYH 213 (475)
T ss_pred ccCCCcEEEEEecCCcchhHHhhhhH----------HHHHh-hhhhhccceeecccC-CCcceEEEEEEecCCcceeeee
Confidence 4567888888763211 123788884 34444 335799999954332 2356888889999988887664
Q ss_pred -Cccccccee
Q 032132 111 -DWEVGTHGL 119 (146)
Q Consensus 111 -~~~~G~hGl 119 (146)
.++|-+||=
T Consensus 214 kaIKVTVDGP 223 (475)
T KOG3982|consen 214 KAIKVTVDGP 223 (475)
T ss_pred ceEEEeccCC
Confidence 466766764
No 14
>PF03889 DUF331: Domain of unknown function; InterPro: IPR005589 The members of this family are uncharacterised proteins from a number of bacterial species. They range in size from 50-100 residues.
Probab=27.60 E-value=26 Score=21.26 Aligned_cols=17 Identities=29% Similarity=0.376 Sum_probs=15.1
Q ss_pred HHHHHHHhhhcCCCCCC
Q 032132 68 FKDYALTSALKDRRFPP 84 (146)
Q Consensus 68 i~~~A~~AA~~DpRF~P 84 (146)
|.+||+.|-..||-|..
T Consensus 3 I~dNalkAlv~~~LFr~ 19 (39)
T PF03889_consen 3 IKDNALKALVTSPLFRQ 19 (39)
T ss_pred cchhHHHHHHhCcchhh
Confidence 67899999999999964
No 15
>PF03544 TonB_C: Gram-negative bacterial TonB protein C-terminal; InterPro: IPR006260 The sequences in this set all contain a conserved C-terminal domain which is characteristic of TonB and is homologs. TonB is an energy-transducer for TonB-dependent receptors of Gram-negative bacteria []. Most members are designated as TonB or TonB-related proteins, but a few represent the paralogous TolA protein. Several bacteria have up to four TonB paralogs. In nearly every case, a proline-rich repetitive region is found N-terminal to this domain; these low-complexity regions are highly divergent and cannot readily be aligned. The region is suggested to span the periplasm. Iron is essential for growth in both bacteria and mammals. Controlling the amount of free iron in solution is often used as a tactic by hosts to limit invasion of pathogenic microbes; binding iron tightly within protein molecules can accomplish this. Some bacteria express surface receptors to capture eukaryotic iron-binding compounds, while others have evolved siderophores to scavenge iron from iron-binding host proteins []. The absence of free iron molecules in the surrounding environment triggers transcription of gene clusters that encode both siderophore-synthesis ezymes, and receptors that recognise iron-bound siderophores []. An example of the latter is Escherichia coli fepA, which resides in the outer envelope and captures iron-bound enterobactin []. To complete transport of bound iron across the inner membrane, a second receptor complex is needed. The major component of this is tonB, a 27kDa protein that facilitates energy transfer from the proton motive force to outer receptors. B-12 and colicin receptors also make use of the tonB system to drive active transport at the outer membrane.; GO: 0008565 protein transporter activity, 0015031 protein transport, 0016020 membrane, 0030288 outer membrane-bounded periplasmic space; PDB: 1U07_B 1IHR_A 2GRX_C 2GSK_B 1QXX_A 1XX3_A 2K9K_A.
Probab=26.67 E-value=1.2e+02 Score=19.24 Aligned_cols=55 Identities=20% Similarity=0.251 Sum_probs=26.3
Q ss_pred CceEEEEEEecCCCCccceeeeccccc-ccHHHHHHHHHHHhhhcCCCCCCCCcCCCCCeeEEE
Q 032132 35 HPLFVTWKKVVNGGEPRLRGCIGTLEA-RCLINGFKDYALTSALKDRRFPPIQARELPSLECTV 97 (146)
Q Consensus 35 ~g~FVTl~~~~~g~~~~LRGCIGt~~p-~pL~~~i~~~A~~AA~~DpRF~Pl~~~El~~l~ieV 97 (146)
+=+-|.+....+| ++..|-=.-.. .+. +-+.|+. |++.+||.|.... -....+.+
T Consensus 16 G~v~v~~~I~~~G---~v~~~~v~~s~~~~~---l~~~a~~-~v~~~~~~p~~~~-g~~~~~~~ 71 (79)
T PF03544_consen 16 GTVVVEFTIDPDG---RVSDVRVIQSSGPPI---LDEAALR-AVKKWRFKPAPKN-GKPVKVTY 71 (79)
T ss_dssp EEEEEEEEEETTT---EEEEEEEEEESSSSC---SHHHHHH-HHCC-EE-TT--C-CEECEEEE
T ss_pred EEEEEEEEEeCCC---CEEEEEEEEccCHHH---HHHHHHH-HHHhCCCCCCCcC-CEEEEEEE
Confidence 3345666665578 77776321111 221 3445554 4555999998776 33344433
No 16
>PF06155 DUF971: Protein of unknown function (DUF971); InterPro: IPR010376 This domain is found in gamma-butyrobetaine dioxygenase and trimethyllysine dioxygenase proteins.; PDB: 2L6N_A 3LUU_A 2L6P_A 3MS5_A 3O2G_A 3N6W_A.
Probab=25.39 E-value=56 Score=22.16 Aligned_cols=20 Identities=35% Similarity=0.546 Sum_probs=13.4
Q ss_pred ccccceeEEEEecCCCCCCeeeee
Q 032132 113 EVGTHGLIIEFTDPEYSTRRSATY 136 (146)
Q Consensus 113 ~~G~hGlii~~~~~~~~~~~~~~~ 136 (146)
.+|.+||-|.+.| |+.+|.|
T Consensus 64 ~~G~y~l~i~WsD----GH~sgiY 83 (89)
T PF06155_consen 64 PVGNYALRITWSD----GHDSGIY 83 (89)
T ss_dssp EETTTEEEEEETT----SB---EE
T ss_pred ECCCCEEEEEECC----CCceeEe
Confidence 4689999999975 5666665
No 17
>PF11235 Med25_SD1: Mediator complex subunit 25 synapsin 1; InterPro: IPR021397 The overall function of the full-length Med25 is efficiently to coordinate the transcriptional activation of RAR/RXR (retinoic acid receptor/retinoic X receptor) in higher eukaryotic cells. Human Med25 consists of several domains with different binding properties, the N-terminal, VWA, domain, this SD1 - synapsin 1 - domain from residues 229-381, a PTOV(B) or ACID domain from 395-545, an SD2 domain from residues 564-645 and a C-terminal NR box-containing domain (646-650) from 646-747. This The function of the SD domains is unclear [].
Probab=23.46 E-value=87 Score=24.53 Aligned_cols=26 Identities=23% Similarity=0.282 Sum_probs=19.2
Q ss_pred HHHHHHHHHHHhhhc-----CCCCCCCCcCC
Q 032132 64 LINGFKDYALTSALK-----DRRFPPIQARE 89 (146)
Q Consensus 64 L~~~i~~~A~~AA~~-----DpRF~Pl~~~E 89 (146)
-++.-..+|+.||-+ -+||+||+.-.
T Consensus 56 aAq~AAq~AVEAAknQKaglg~RF~pi~p~~ 86 (168)
T PF11235_consen 56 AAQVAAQNAVEAAKNQKAGLGPRFSPINPLQ 86 (168)
T ss_pred HHHHHHHHHHHHHHhccccCCCCCCCCCccc
Confidence 346677888888876 68999987543
Done!