Query 033267
Match_columns 123
No_of_seqs 239 out of 1165
Neff 5.0
Searched_HMMs 46136
Date Fri Mar 29 11:50:45 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/033267.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/033267hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG3436 60S ribosomal protein 100.0 3E-51 6.6E-56 297.6 11.0 123 1-123 1-123 (123)
2 PRK14549 50S ribosomal protein 99.9 4.9E-24 1.1E-28 142.4 8.8 68 1-68 1-68 (69)
3 CHL00154 rpl29 ribosomal prote 99.9 2.1E-23 4.5E-28 138.9 8.7 65 1-66 1-65 (67)
4 COG0255 RpmC Ribosomal protein 99.9 1.3E-22 2.8E-27 136.0 8.0 62 7-69 6-67 (69)
5 PRK00306 50S ribosomal protein 99.9 1.3E-21 2.8E-26 129.2 8.5 64 4-68 1-64 (66)
6 PF00831 Ribosomal_L29: Riboso 99.8 4.1E-21 9E-26 124.0 7.5 58 6-64 1-58 (58)
7 PRK00461 rpmC 50S ribosomal pr 99.8 7.6E-21 1.6E-25 132.4 8.8 66 5-71 1-66 (87)
8 cd00427 Ribosomal_L29_HIP Ribo 99.8 3.5E-20 7.5E-25 119.2 6.6 57 7-64 1-57 (57)
9 TIGR00012 L29 ribosomal protei 99.8 4E-20 8.7E-25 118.4 6.4 55 8-63 1-55 (55)
10 PF06984 MRP-L47: Mitochondria 96.9 0.0059 1.3E-07 42.6 7.1 60 5-64 24-87 (87)
11 KOG3331 Mitochondrial/chloropl 94.8 0.19 4.2E-06 40.1 7.8 63 5-68 67-134 (213)
12 PF06698 DUF1192: Protein of u 78.3 2.7 6E-05 27.4 2.9 30 7-36 16-45 (59)
13 PF10666 Phage_Gp14: Phage pro 76.7 20 0.00043 27.1 7.4 67 8-76 58-134 (140)
14 PF10044 Ret_tiss: Retinal tis 56.3 18 0.00038 25.7 3.4 30 5-34 51-80 (95)
15 PRK11546 zraP zinc resistance 49.1 87 0.0019 23.7 6.4 47 14-65 63-109 (143)
16 smart00540 LEM in nuclear memb 45.3 16 0.00034 22.4 1.5 17 8-24 2-18 (44)
17 PHA03162 hypothetical protein; 43.7 73 0.0016 24.1 5.2 28 11-38 12-39 (135)
18 PF10655 DUF2482: Hypothetical 42.9 27 0.00059 25.0 2.7 28 7-34 3-30 (100)
19 COG5493 Uncharacterized conser 41.8 46 0.00099 27.0 4.1 52 12-63 46-106 (231)
20 PF04999 FtsL: Cell division p 41.7 56 0.0012 22.0 4.1 33 14-49 44-76 (97)
21 PHA03155 hypothetical protein; 39.9 89 0.0019 23.0 5.0 30 11-40 7-36 (115)
22 PLN00210 40S ribosomal protein 39.2 52 0.0011 24.7 3.9 43 43-85 72-121 (141)
23 PF03962 Mnd1: Mnd1 family; I 38.4 1.2E+02 0.0026 23.5 5.9 61 14-75 105-167 (188)
24 PF11656 DUF3811: YjbD family 38.3 1.4E+02 0.003 21.0 7.8 68 8-82 5-72 (87)
25 PF07106 TBPIP: Tat binding pr 34.9 1.9E+02 0.0041 21.4 7.9 47 14-63 81-127 (169)
26 PF08700 Vps51: Vps51/Vps67; 32.3 1.4E+02 0.0031 19.2 4.8 57 6-64 21-77 (87)
27 PF11593 Med3: Mediator comple 31.3 1.8E+02 0.0038 25.5 6.3 80 3-82 7-114 (379)
28 PF08188 Protamine_3: Spermato 31.0 1.3E+02 0.0029 18.5 4.4 41 45-85 5-48 (48)
29 TIGR01639 P_fal_TIGR01639 Plas 29.4 60 0.0013 20.7 2.5 22 5-26 2-24 (61)
30 PRK10515 hypothetical protein; 28.5 2.2E+02 0.0047 20.1 7.9 70 4-80 3-72 (90)
31 PF08621 RPAP1_N: RPAP1-like, 27.1 68 0.0015 19.9 2.3 20 8-27 11-30 (49)
32 PRK11546 zraP zinc resistance 26.6 1.2E+02 0.0025 23.0 4.0 23 14-36 91-113 (143)
33 PF10200 Ndufs5: NADH:ubiquino 26.5 1.2E+02 0.0026 21.5 3.8 29 48-81 67-95 (96)
34 PF08285 DPM3: Dolichol-phosph 25.9 77 0.0017 22.0 2.7 17 14-30 70-86 (91)
35 PHA03041 virion core protein; 25.6 91 0.002 24.0 3.2 29 6-34 87-115 (153)
36 PF05812 Herpes_BLRF2: Herpesv 25.2 1.6E+02 0.0034 21.7 4.3 29 11-39 2-30 (118)
37 PF08312 cwf21: cwf21 domain; 24.2 1.2E+02 0.0026 18.6 3.0 21 10-30 23-43 (46)
38 PRK09413 IS2 repressor TnpA; R 23.9 1.2E+02 0.0027 21.3 3.5 21 16-36 75-95 (121)
39 COG0103 RpsI Ribosomal protein 23.9 1.2E+02 0.0027 22.7 3.6 38 44-85 73-110 (130)
40 PF11652 DUF3259: Protein of u 23.8 1.6E+02 0.0034 20.6 3.8 26 13-38 4-29 (84)
41 TIGR02209 ftsL_broad cell divi 23.2 1.9E+02 0.0042 18.6 4.2 34 13-49 32-65 (85)
42 PF11629 Mst1_SARAH: C termina 23.1 1.3E+02 0.0028 19.0 3.0 25 9-33 5-33 (49)
43 PF07989 Microtub_assoc: Micro 23.0 1.2E+02 0.0026 20.2 3.1 22 13-34 1-22 (75)
44 PF08627 CRT-like: CRT-like; 22.9 32 0.0007 25.8 0.3 10 112-121 121-130 (130)
45 PF10498 IFT57: Intra-flagella 22.5 4.2E+02 0.0092 22.7 7.0 53 13-65 295-348 (359)
46 PF13292 DXP_synthase_N: 1-deo 22.4 80 0.0017 26.3 2.6 35 5-41 6-40 (270)
47 PF13591 MerR_2: MerR HTH fami 22.0 1E+02 0.0023 20.5 2.7 18 15-32 66-83 (84)
48 PRK15178 Vi polysaccharide exp 21.1 3.6E+02 0.0077 23.9 6.4 44 15-63 289-332 (434)
49 COG1154 Dxs Deoxyxylulose-5-ph 20.6 1.3E+02 0.0028 28.0 3.7 36 5-42 10-45 (627)
No 1
>KOG3436 consensus 60S ribosomal protein L35 [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=3e-51 Score=297.61 Aligned_cols=123 Identities=73% Similarity=0.992 Sum_probs=121.9
Q ss_pred CCCCChHHHhcCCHHHHHHHHHHHHHHHHHHHHHHHHcCCCCcchhhHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCCCC
Q 033267 1 MARIKVHELRQKSKVDLLNQLKELKAELALLRVAKVTGGAPNKLSKIKVVRLSIAQVLTVISQKQKAALREAYKNKKFLP 80 (123)
Q Consensus 1 M~~~Ka~eLR~~s~eEL~~qL~eLk~EL~~LR~qk~tgg~~~k~~kIr~vRK~IARilTVl~ek~~~~lr~~y~~kk~~p 80 (123)
|+++++.|||+.|.+||.+||+||+.||++|||++++||..+++++|+.+|++|||||||+||++.+++++||+|++|+|
T Consensus 1 M~kik~~eLr~~~ke~L~~ql~dLK~ELa~LRv~K~tgg~~~klskik~vrKsiArvLTVine~~k~~lr~~yk~~k~~p 80 (123)
T KOG3436|consen 1 MAKIKARELRGKSKEQLLKQLDDLKVELAQLRVAKVTGGAASKLSKIKVVRKSIARVLTVINEKQKEELREAYKGKKYLP 80 (123)
T ss_pred CcchhHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHhhccchhhhHHHHHHHHHHHHHHHHhhhhhHHHHHHHhhcccccc
Confidence 89999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCCCchhhHHHHhhcChHHhhhhhHHHHHHHhhCCcchhhhcC
Q 033267 81 LDLRPKKTRAIRRRLTKHQASLKTEREKKREMYFPMRKYAIKV 123 (123)
Q Consensus 81 ~dlr~kktra~rr~Lt~~~~~~kt~k~~~k~~~~p~r~~a~ka 123 (123)
+|||||+||||||+||+||.|++|.+|++++++||.|+|||||
T Consensus 81 ~dLr~KktRa~rr~ltk~~~slkt~kq~~k~~~~p~rk~A~ka 123 (123)
T KOG3436|consen 81 KDLRPKKTRAIRRRLTKHQLSLKTEKQQAKERLFPLRKYAVKA 123 (123)
T ss_pred hhhhHHHHHHHHHhccccchhHhHHHHHHHHHhchHHHhhccC
Confidence 9999999999999999999999999999999999999999997
No 2
>PRK14549 50S ribosomal protein L29P; Provisional
Probab=99.91 E-value=4.9e-24 Score=142.37 Aligned_cols=68 Identities=35% Similarity=0.533 Sum_probs=64.8
Q ss_pred CCCCChHHHhcCCHHHHHHHHHHHHHHHHHHHHHHHHcCCCCcchhhHHHHHHHHHHHHHHHHHHHHH
Q 033267 1 MARIKVHELRQKSKVDLLNQLKELKAELALLRVAKVTGGAPNKLSKIKVVRLSIAQVLTVISQKQKAA 68 (123)
Q Consensus 1 M~~~Ka~eLR~~s~eEL~~qL~eLk~EL~~LR~qk~tgg~~~k~~kIr~vRK~IARilTVl~ek~~~~ 68 (123)
|+.|+++||+++|.+||.++|.+++.|||+|||++++|++++|||.|+.+||+||||+||++|+++++
T Consensus 1 M~~mk~~elr~ls~~eL~~~l~elk~eLf~LR~q~~~~~~l~n~~~ir~~Rk~IARi~Tvl~ek~~~~ 68 (69)
T PRK14549 1 MAILRASEIREMSPEEREEKLEELKLELLKERAQAAMGGAPENPGRIREIRRTIARILTIQREKKREA 68 (69)
T ss_pred CCcCcHHHHHhCCHHHHHHHHHHHHHHHHHHHHHHHhCcCccccHHHHHHHHHHHHHHHHHHHHHhcc
Confidence 88999999999999999999999999999999999999559999999999999999999999988653
No 3
>CHL00154 rpl29 ribosomal protein L29; Validated
Probab=99.90 E-value=2.1e-23 Score=138.91 Aligned_cols=65 Identities=26% Similarity=0.299 Sum_probs=62.7
Q ss_pred CCCCChHHHhcCCHHHHHHHHHHHHHHHHHHHHHHHHcCCCCcchhhHHHHHHHHHHHHHHHHHHH
Q 033267 1 MARIKVHELRQKSKVDLLNQLKELKAELALLRVAKVTGGAPNKLSKIKVVRLSIAQVLTVISQKQK 66 (123)
Q Consensus 1 M~~~Ka~eLR~~s~eEL~~qL~eLk~EL~~LR~qk~tgg~~~k~~kIr~vRK~IARilTVl~ek~~ 66 (123)
|+.|+++|||++|.+||.++|.+++.|||+||||+++| +++|||.|+.+|++||||+||++|+..
T Consensus 1 M~~mk~~elr~ls~~eL~~~l~elk~elf~LRfq~atg-ql~n~~~ir~~RrdIARikTil~ek~~ 65 (67)
T CHL00154 1 MSLPKITDIIDLTDSEISEEIIKTKKELFDLRLKKATR-QNFKPHLFKHKKHRLAQLLTLLSSRLK 65 (67)
T ss_pred CCCCCHHHHHhCCHHHHHHHHHHHHHHHHHHHHHHHhC-cccChHHHHHHHHHHHHHHHHHHHHhc
Confidence 78899999999999999999999999999999999999 999999999999999999999999763
No 4
>COG0255 RpmC Ribosomal protein L29 [Translation, ribosomal structure and biogenesis]
Probab=99.88 E-value=1.3e-22 Score=135.97 Aligned_cols=62 Identities=42% Similarity=0.527 Sum_probs=58.9
Q ss_pred HHHhcCCHHHHHHHHHHHHHHHHHHHHHHHHcCCCCcchhhHHHHHHHHHHHHHHHHHHHHHH
Q 033267 7 HELRQKSKVDLLNQLKELKAELALLRVAKVTGGAPNKLSKIKVVRLSIAQVLTVISQKQKAAL 69 (123)
Q Consensus 7 ~eLR~~s~eEL~~qL~eLk~EL~~LR~qk~tgg~~~k~~kIr~vRK~IARilTVl~ek~~~~l 69 (123)
+|||++|.+||.++|.+|+.|||+||||.++| +++|||+|+.|||+||||+||++|++....
T Consensus 6 ~elR~~s~eeL~~~l~eLK~ELf~LR~q~a~g-~l~n~~~ir~vRr~IARi~Tv~~E~~~~~~ 67 (69)
T COG0255 6 KELREKSVEELEEELRELKKELFNLRFQLATG-QLENPHRIREVRRDIARILTVLREKELEAA 67 (69)
T ss_pred HHHHhCCHHHHHHHHHHHHHHHHHHHHHHHhC-CCCCcHHHHHHHHHHHHHHHHHHHHHHhhh
Confidence 59999999999999999999999999999999 788999999999999999999999987653
No 5
>PRK00306 50S ribosomal protein L29; Reviewed
Probab=99.86 E-value=1.3e-21 Score=129.17 Aligned_cols=64 Identities=38% Similarity=0.487 Sum_probs=61.1
Q ss_pred CChHHHhcCCHHHHHHHHHHHHHHHHHHHHHHHHcCCCCcchhhHHHHHHHHHHHHHHHHHHHHH
Q 033267 4 IKVHELRQKSKVDLLNQLKELKAELALLRVAKVTGGAPNKLSKIKVVRLSIAQVLTVISQKQKAA 68 (123)
Q Consensus 4 ~Ka~eLR~~s~eEL~~qL~eLk~EL~~LR~qk~tgg~~~k~~kIr~vRK~IARilTVl~ek~~~~ 68 (123)
|+++||+++|.+||.++|.+++.|||+|||++++| +++|||.|+.+||+||||+||++|++.+.
T Consensus 1 Mk~~elr~ls~~eL~~~l~~lkkeL~~lR~~~~~~-~~~n~~~i~~~rk~IARi~Tvl~er~~~~ 64 (66)
T PRK00306 1 MKAKELRELSVEELNEKLLELKKELFNLRFQKATG-QLENTHRLREVRRDIARIKTVLRERELGA 64 (66)
T ss_pred CCHHHHhhCCHHHHHHHHHHHHHHHHHHHHHHHhC-CCcCcHHHHHHHHHHHHHHHHHHHHHhhc
Confidence 68999999999999999999999999999999999 69999999999999999999999998653
No 6
>PF00831 Ribosomal_L29: Ribosomal L29 protein; InterPro: IPR001854 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 [, ]. Ribosomal protein L29 is one of the proteins from the large ribosomal subunit. L29 belongs to a family of ribosomal proteins of 63 to 138 amino-acid residues which, on the basis of sequence similarities [], groups: Red algal L29. Bacterial L29. Mammalian L35 Caenorhabditis elegans L35 (ZK652.4). Yeast L35. ; GO: 0003735 structural constituent of ribosome, 0006412 translation, 0005622 intracellular, 0005840 ribosome; PDB: 1VSP_W 3MS1_Y 3MRZ_Y 3F1H_2 3PYT_Y 3PYO_Y 3D5D_2 3D5B_2 3PYR_Y 1VSA_W ....
Probab=99.85 E-value=4.1e-21 Score=124.03 Aligned_cols=58 Identities=40% Similarity=0.564 Sum_probs=56.0
Q ss_pred hHHHhcCCHHHHHHHHHHHHHHHHHHHHHHHHcCCCCcchhhHHHHHHHHHHHHHHHHH
Q 033267 6 VHELRQKSKVDLLNQLKELKAELALLRVAKVTGGAPNKLSKIKVVRLSIAQVLTVISQK 64 (123)
Q Consensus 6 a~eLR~~s~eEL~~qL~eLk~EL~~LR~qk~tgg~~~k~~kIr~vRK~IARilTVl~ek 64 (123)
++||+++|.+||.++|.+++.|||+|||++++| +++|||.|+.+||+||||+||++|+
T Consensus 1 ~~elr~ls~~eL~~~l~elk~eL~~Lr~q~~~~-~l~n~~~ir~~Rr~IARi~Tvl~er 58 (58)
T PF00831_consen 1 AKELRELSDEELQEKLEELKKELFNLRFQKATG-QLENPHRIREIRRDIARILTVLRER 58 (58)
T ss_dssp CHHHCHSHHHHHHHHHHHHHHHHHHHHHHHHHS-SSSCCHHHHHHHHHHHHHHHHHHHH
T ss_pred CHHHHhCCHHHHHHHHHHHHHHHHHHHHHHHhc-ccccccHHHHHHHHHHHHHHHHhcC
Confidence 589999999999999999999999999999998 7899999999999999999999985
No 7
>PRK00461 rpmC 50S ribosomal protein L29; Reviewed
Probab=99.84 E-value=7.6e-21 Score=132.38 Aligned_cols=66 Identities=36% Similarity=0.485 Sum_probs=62.1
Q ss_pred ChHHHhcCCHHHHHHHHHHHHHHHHHHHHHHHHcCCCCcchhhHHHHHHHHHHHHHHHHHHHHHHHH
Q 033267 5 KVHELRQKSKVDLLNQLKELKAELALLRVAKVTGGAPNKLSKIKVVRLSIAQVLTVISQKQKAALRE 71 (123)
Q Consensus 5 Ka~eLR~~s~eEL~~qL~eLk~EL~~LR~qk~tgg~~~k~~kIr~vRK~IARilTVl~ek~~~~lr~ 71 (123)
+++|||++|.+||.++|.+++.|||+|||++++| +++|||.|+.+||+||||+||++|++.++..+
T Consensus 1 ~~~elR~lS~eEL~e~L~elkkELf~LR~q~atg-ql~n~~~ir~iRR~IARilTvl~Ek~~~~~~~ 66 (87)
T PRK00461 1 LFKELRKKSVEELEKLVIELKAELFTLRFKNATG-SLDQTHKIKEIRKDIARILTILNERELEEKEN 66 (87)
T ss_pred ChHHHHhCCHHHHHHHHHHHHHHHHHHHHHHHhC-cccccHHHHHHHHHHHHHHHHHHHHHHHhhhc
Confidence 4689999999999999999999999999999999 89999999999999999999999999877643
No 8
>cd00427 Ribosomal_L29_HIP Ribosomal L29 protein/HIP. L29 is a protein of the large ribosomal Subunit. A homolog, called heparin/heparan sulfate interacting protein (HIP), has also been identified in mammals. L29 is located on the surface of the large ribosomal subunit, where it participates in forming a protein ring that surrounds the polypeptide exit channel, providing structural support for the ribosome. L29 is involved in forming the translocon binding site, along with L19, L22, L23, L24, and L31e. In addition, L29 and L23 form the interaction site for trigger factor (TF) on the ribosomal surface, adjacent to the exit tunnel. L29 forms numerous interactions with L23 and with the 23S rRNA. In some eukaryotes, L29 is referred to as L35, which is distinct from L35 found in bacteria and some eukaryotes (primarily plastids and mitochondria). The mammalian homolog, HIP, is found on the surface of many tissues and cell lines. It is believed to play a role in cell adhesion and modulat
Probab=99.82 E-value=3.5e-20 Score=119.24 Aligned_cols=57 Identities=44% Similarity=0.577 Sum_probs=54.7
Q ss_pred HHHhcCCHHHHHHHHHHHHHHHHHHHHHHHHcCCCCcchhhHHHHHHHHHHHHHHHHH
Q 033267 7 HELRQKSKVDLLNQLKELKAELALLRVAKVTGGAPNKLSKIKVVRLSIAQVLTVISQK 64 (123)
Q Consensus 7 ~eLR~~s~eEL~~qL~eLk~EL~~LR~qk~tgg~~~k~~kIr~vRK~IARilTVl~ek 64 (123)
.||+++|.+||.++|.+++.|||+|||++++| +++|||.|+.+|++||||+||++|+
T Consensus 1 ~eir~ls~~eL~~~l~~l~~elf~Lr~q~~~~-~~~~~~~~~~~Rr~IARi~Til~er 57 (57)
T cd00427 1 KELREKSDEELQEKLDELKKELFNLRFQKATG-QLENPHRIRKVRKDIARIKTVLNEK 57 (57)
T ss_pred ChHHHCCHHHHHHHHHHHHHHHHHHHHHHHHC-CCcCcHHHHHHHHHHHHHHHHHHcC
Confidence 48999999999999999999999999999999 6999999999999999999999974
No 9
>TIGR00012 L29 ribosomal protein L29. called L29 in prokaryotic (50S) large subunits and L35 in eukaryotic (60S) large subunits.
Probab=99.81 E-value=4e-20 Score=118.38 Aligned_cols=55 Identities=49% Similarity=0.625 Sum_probs=53.0
Q ss_pred HHhcCCHHHHHHHHHHHHHHHHHHHHHHHHcCCCCcchhhHHHHHHHHHHHHHHHH
Q 033267 8 ELRQKSKVDLLNQLKELKAELALLRVAKVTGGAPNKLSKIKVVRLSIAQVLTVISQ 63 (123)
Q Consensus 8 eLR~~s~eEL~~qL~eLk~EL~~LR~qk~tgg~~~k~~kIr~vRK~IARilTVl~e 63 (123)
||+++|.+||.++|.+++.|||+|||++++| +++|||.|+.+||+||||+||++|
T Consensus 1 elr~~s~~EL~~~l~~lr~eLf~Lr~~~~~~-~~~~~~~i~~~Rk~IARi~Tvl~e 55 (55)
T TIGR00012 1 ELREKSKEELAKKLDELKKELFELRFQKATG-QLAKPHRIRQVRRDIARLLTVLRE 55 (55)
T ss_pred CHhhCCHHHHHHHHHHHHHHHHHHHHHHHhC-CcccchHHHHHHHHHHHHHHHHhC
Confidence 6899999999999999999999999999999 789999999999999999999985
No 10
>PF06984 MRP-L47: Mitochondrial 39-S ribosomal protein L47 (MRP-L47); InterPro: IPR010729 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 the N-terminal region (approximately 8 residues) of the eukaryotic mitochondrial 39-S ribosomal protein L47 (MRP-L47). Mitochondrial ribosomal proteins (MRPs) are the counterparts of the cytoplasmic ribosomal proteins, in that they fulfil similar functions in protein biosynthesis. However, they are distinct in number, features and primary structure [].; GO: 0003735 structural constituent of ribosome, 0006412 translation, 0005761 mitochondrial ribosome
Probab=96.90 E-value=0.0059 Score=42.64 Aligned_cols=60 Identities=25% Similarity=0.281 Sum_probs=40.3
Q ss_pred ChHHHhcCCHHHHHHHH---HHHHHHHHHHH-HHHHHcCCCCcchhhHHHHHHHHHHHHHHHHH
Q 033267 5 KVHELRQKSKVDLLNQL---KELKAELALLR-VAKVTGGAPNKLSKIKVVRLSIAQVLTVISQK 64 (123)
Q Consensus 5 Ka~eLR~~s~eEL~~qL---~eLk~EL~~LR-~qk~tgg~~~k~~kIr~vRK~IARilTVl~ek 64 (123)
.+.|||.+|-+||.+.= -.-+.-|...+ .....+...+++.++..|+++-+||++|++|+
T Consensus 24 t~~ELR~KS~eDLHkLWyv~lKERN~L~T~~~e~~r~~~~~~~~~r~~kV~~sM~~Ik~Vl~ER 87 (87)
T PF06984_consen 24 TAEELRRKSFEDLHKLWYVCLKERNMLLTEEYEARRQGEGMPSPERLEKVRKSMARIKHVLTER 87 (87)
T ss_pred cHHHHHccCHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccccchHHHHHHHHHHHHHHHHHhcC
Confidence 47899999999999831 11222232111 11122222578899999999999999999974
No 11
>KOG3331 consensus Mitochondrial/chloroplast ribosomal protein L4/L29 [Translation, ribosomal structure and biogenesis]
Probab=94.82 E-value=0.19 Score=40.12 Aligned_cols=63 Identities=25% Similarity=0.249 Sum_probs=47.9
Q ss_pred ChHHHhcCCHHHHHHHHHHHHH---HHHHHHH--HHHHcCCCCcchhhHHHHHHHHHHHHHHHHHHHHH
Q 033267 5 KVHELRQKSKVDLLNQLKELKA---ELALLRV--AKVTGGAPNKLSKIKVVRLSIAQVLTVISQKQKAA 68 (123)
Q Consensus 5 Ka~eLR~~s~eEL~~qL~eLk~---EL~~LR~--qk~tgg~~~k~~kIr~vRK~IARilTVl~ek~~~~ 68 (123)
.+.|||-+|-.||.+.-=.+-+ -|+..|- +...| +..||-+|-.||.+.+||.+|++|++.+-
T Consensus 67 ~aeELR~KS~nDLH~LWYvcLkErNmL~T~~~~~k~~~~-~~PnpERi~kV~~TM~~I~~Vl~ER~~Ay 134 (213)
T KOG3331|consen 67 SAEELRLKSFNDLHKLWYVCLKERNMLATMRHELKNIVG-SFPNPERIDKVRTTMWRIEHVLNERNLAY 134 (213)
T ss_pred chHHHhcchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHh-cCCCHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 5789999999999886444333 3444432 23335 78999999999999999999999998753
No 12
>PF06698 DUF1192: Protein of unknown function (DUF1192); InterPro: IPR009579 This family consists of several short, hypothetical, bacterial proteins of around 60 residues in length. The function of this family is unknown.
Probab=78.25 E-value=2.7 Score=27.37 Aligned_cols=30 Identities=30% Similarity=0.299 Sum_probs=25.4
Q ss_pred HHHhcCCHHHHHHHHHHHHHHHHHHHHHHH
Q 033267 7 HELRQKSKVDLLNQLKELKAELALLRVAKV 36 (123)
Q Consensus 7 ~eLR~~s~eEL~~qL~eLk~EL~~LR~qk~ 36 (123)
.||..+|.+||.+.|.-|+.|...++-.-.
T Consensus 16 ~dLs~lSv~EL~~RIa~L~aEI~R~~~~~~ 45 (59)
T PF06698_consen 16 EDLSLLSVEELEERIALLEAEIARLEAAIA 45 (59)
T ss_pred CCchhcCHHHHHHHHHHHHHHHHHHHHHHH
Confidence 578899999999999999999888776543
No 13
>PF10666 Phage_Gp14: Phage protein Gp14; InterPro: IPR018923 This Listeria phage Gp14 protein family is of unknown function but is expressed from within a cluster of tail- and base plate genes [].
Probab=76.69 E-value=20 Score=27.08 Aligned_cols=67 Identities=19% Similarity=0.166 Sum_probs=51.5
Q ss_pred HHhcCCHHHHHHHHHHHHHHHHHHHHHHHHcCCCCcchhhHHHHHHHHHHHHHHHHH----------HHHHHHHHHhCC
Q 033267 8 ELRQKSKVDLLNQLKELKAELALLRVAKVTGGAPNKLSKIKVVRLSIAQVLTVISQK----------QKAALREAYKNK 76 (123)
Q Consensus 8 eLR~~s~eEL~~qL~eLk~EL~~LR~qk~tgg~~~k~~kIr~vRK~IARilTVl~ek----------~~~~lr~~y~~k 76 (123)
++++||.+|+.. |.+-..|+...-+.--.| .-+-..++-...|||-+++||.++- +.+..++.|+.+
T Consensus 58 ~~~EmS~e~~~a-Le~~~re~L~ea~~~~l~-de~tfee~Ye~~k~~~~M~~v~~~v~e~~~~~m~v~Q~e~qk~Y~~k 134 (140)
T PF10666_consen 58 FDREMSSEEYRA-LEEQQREALKEAIEIFLG-DENTFEECYEKCKDLVNMTKVYMQVSEWLVGKMEVQQNEIQKKYKAK 134 (140)
T ss_pred chhhcCHHHHHH-HHHHHHHHHHHHHHHHhC-cHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 348899999876 455666788888888888 4567789999999999999999864 345567777643
No 14
>PF10044 Ret_tiss: Retinal tissue protein; InterPro: IPR018737 Rtp is a family of proteins of approximately 112 amino acids in length which is conserved from nematodes to humans. The proposed tertiary structure is of almost entirely alpha helix interrupted only by loops located at proline residues. Three sites in the protein sequence reveal two types of possible post-translation modification. A serine residue, at position 41, is a candidate for protein kinase C phosphorylation. Glycine residues at position 69 and 91 are probable sites for acetylation by covalent amide linkage of myristate via N-myristoyl transferase. Rtp is differentially expressed in the trout retina between parr and smolt developmental stages (smoltification). It is likely to be a house-keeping protein [].
Probab=56.29 E-value=18 Score=25.69 Aligned_cols=30 Identities=27% Similarity=0.395 Sum_probs=25.8
Q ss_pred ChHHHhcCCHHHHHHHHHHHHHHHHHHHHH
Q 033267 5 KVHELRQKSKVDLLNQLKELKAELALLRVA 34 (123)
Q Consensus 5 Ka~eLR~~s~eEL~~qL~eLk~EL~~LR~q 34 (123)
+..+|..+|.++|.+.+.+|..+..+|=+.
T Consensus 51 ~~~eLs~Lt~~~L~~~Ik~L~~~aYqLGl~ 80 (95)
T PF10044_consen 51 KMNELSSLTPDQLIEKIKKLQDEAYQLGLE 80 (95)
T ss_pred HHHHHHcCCHHHHHHHHHHHHHHHHHHhHH
Confidence 357899999999999999999999887544
No 15
>PRK11546 zraP zinc resistance protein; Provisional
Probab=49.11 E-value=87 Score=23.68 Aligned_cols=47 Identities=23% Similarity=0.244 Sum_probs=31.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHcCCCCcchhhHHHHHHHHHHHHHHHHHH
Q 033267 14 KVDLLNQLKELKAELALLRVAKVTGGAPNKLSKIKVVRLSIAQVLTVISQKQ 65 (123)
Q Consensus 14 ~eEL~~qL~eLk~EL~~LR~qk~tgg~~~k~~kIr~vRK~IARilTVl~ek~ 65 (123)
.++|..+|-.-+.||-.| . .+ ..+.+.+|+.+.+.|+.+-+-|-+..
T Consensus 63 t~~LRqqL~aKr~ELnAL---l-~~-~~pD~~kI~aL~kEI~~Lr~kL~e~r 109 (143)
T PRK11546 63 TSALRQQLVSKRYEYNAL---L-TA-NPPDSSKINAVAKEMENLRQSLDELR 109 (143)
T ss_pred HHHHHHHHHHHHHHHHHH---H-cC-CCCCHHHHHHHHHHHHHHHHHHHHHH
Confidence 344444444444444444 2 23 45778899999999999999887654
No 16
>smart00540 LEM in nuclear membrane-associated proteins. LEM, domain in nuclear membrane-associated proteins, including lamino-associated polypeptide 2 and emerin.
Probab=45.33 E-value=16 Score=22.43 Aligned_cols=17 Identities=24% Similarity=0.417 Sum_probs=13.9
Q ss_pred HHhcCCHHHHHHHHHHH
Q 033267 8 ELRQKSKVDLLNQLKEL 24 (123)
Q Consensus 8 eLR~~s~eEL~~qL~eL 24 (123)
|+..+|++||..+|.++
T Consensus 2 d~~~LSd~eL~~~L~~~ 18 (44)
T smart00540 2 DVDRLSDAELRAELKQY 18 (44)
T ss_pred chhHcCHHHHHHHHHHc
Confidence 67889999998887654
No 17
>PHA03162 hypothetical protein; Provisional
Probab=43.72 E-value=73 Score=24.07 Aligned_cols=28 Identities=25% Similarity=0.280 Sum_probs=24.5
Q ss_pred cCCHHHHHHHHHHHHHHHHHHHHHHHHc
Q 033267 11 QKSKVDLLNQLKELKAELALLRVAKVTG 38 (123)
Q Consensus 11 ~~s~eEL~~qL~eLk~EL~~LR~qk~tg 38 (123)
++|.|||.++|..|+-|=-.|+-+-..|
T Consensus 12 ~~tmEeLaaeL~kLqmENK~LKkkl~~~ 39 (135)
T PHA03162 12 QPTMEDLAAEIAKLQLENKALKKKIKEG 39 (135)
T ss_pred CCCHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 6899999999999999999998776444
No 18
>PF10655 DUF2482: Hypothetical protein of unknown function (DUF2482); InterPro: IPR018917 This entry is represented by Bacteriophage 80, Orf10. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. All the members of this very small, very short family are derived from bacteriophages, of the SA bacteriophages 11, Mu50B, system, and from the Staphylococcal_phi-Mu50B-like_prophages subsystem. All members are hypothetical proteins.
Probab=42.92 E-value=27 Score=25.00 Aligned_cols=28 Identities=21% Similarity=0.233 Sum_probs=24.7
Q ss_pred HHHhcCCHHHHHHHHHHHHHHHHHHHHH
Q 033267 7 HELRQKSKVDLLNQLKELKAELALLRVA 34 (123)
Q Consensus 7 ~eLR~~s~eEL~~qL~eLk~EL~~LR~q 34 (123)
+...+|+.+||...|.+--.||++|-..
T Consensus 3 knyKdMTqeelr~llseK~~ELydL~~e 30 (100)
T PF10655_consen 3 KNYKDMTQEELRDLLSEKNGELYDLANE 30 (100)
T ss_pred chhhhhhHHHHHHHHHHhhHHHHHHHHH
Confidence 4678899999999999999999999754
No 19
>COG5493 Uncharacterized conserved protein containing a coiled-coil domain [Function unknown]
Probab=41.84 E-value=46 Score=27.04 Aligned_cols=52 Identities=19% Similarity=0.240 Sum_probs=37.7
Q ss_pred CCHHHHHHHHHHHHHHHHH----HHHHHHHcCCCC-----cchhhHHHHHHHHHHHHHHHH
Q 033267 12 KSKVDLLNQLKELKAELAL----LRVAKVTGGAPN-----KLSKIKVVRLSIAQVLTVISQ 63 (123)
Q Consensus 12 ~s~eEL~~qL~eLk~EL~~----LR~qk~tgg~~~-----k~~kIr~vRK~IARilTVl~e 63 (123)
-+.+||.++++..+.+|.+ -|++.+|-..+. -...++.+..+|-|+-|+|+-
T Consensus 46 ~dve~l~~e~E~~~k~l~de~~E~r~~~~tke~lk~l~~~~~~~f~a~~edi~rlE~~i~~ 106 (231)
T COG5493 46 QDVEELRKETEQRQKELADEKLEVRKQKATKEDLKLLQRFQEEEFRATKEDIKRLETIITG 106 (231)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4578888888888888875 777777652211 123478899999999998875
No 20
>PF04999 FtsL: Cell division protein FtsL; InterPro: IPR007082 In Escherichia coli, nine gene products are known to be essential for assembly of the division septum. One of these, FtsL, is a bitopic membrane protein whose precise function is not understood. It has been proposed that FtsL interacts with the DivIC protein IPR007060 from INTERPRO [], however this interaction may be indirect [].; GO: 0007049 cell cycle, 0016021 integral to membrane
Probab=41.74 E-value=56 Score=21.96 Aligned_cols=33 Identities=24% Similarity=0.258 Sum_probs=27.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHcCCCCcchhhHH
Q 033267 14 KVDLLNQLKELKAELALLRVAKVTGGAPNKLSKIKV 49 (123)
Q Consensus 14 ~eEL~~qL~eLk~EL~~LR~qk~tgg~~~k~~kIr~ 49 (123)
.+++..+.+.+..|-.+|++..++ +++|.+|..
T Consensus 44 l~~l~~~~~~l~~e~~~L~lE~~~---l~~~~rIe~ 76 (97)
T PF04999_consen 44 LQQLEKEIDQLQEENERLRLEIAT---LSSPSRIER 76 (97)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHH---hhCHHHHHH
Confidence 678899999999999999999984 567777754
No 21
>PHA03155 hypothetical protein; Provisional
Probab=39.94 E-value=89 Score=23.01 Aligned_cols=30 Identities=23% Similarity=0.244 Sum_probs=26.6
Q ss_pred cCCHHHHHHHHHHHHHHHHHHHHHHHHcCC
Q 033267 11 QKSKVDLLNQLKELKAELALLRVAKVTGGA 40 (123)
Q Consensus 11 ~~s~eEL~~qL~eLk~EL~~LR~qk~tgg~ 40 (123)
++|.|||.++|..|+-|=..|+-+-..||.
T Consensus 7 ~~tvEeLaaeL~kL~~ENK~LKkkl~~~~~ 36 (115)
T PHA03155 7 CADVEELEKELQKLKIENKALKKKLLQHGN 36 (115)
T ss_pred CCCHHHHHHHHHHHHHHHHHHHHHHHccCC
Confidence 789999999999999999999988766654
No 22
>PLN00210 40S ribosomal protein S16; Provisional
Probab=39.16 E-value=52 Score=24.71 Aligned_cols=43 Identities=26% Similarity=0.363 Sum_probs=34.3
Q ss_pred cchhhHHHHHHHHHHHHHHH-----HHHHHHHHHHHhC--CCCCCCCCCc
Q 033267 43 KLSKIKVVRLSIAQVLTVIS-----QKQKAALREAYKN--KKFLPLDLRP 85 (123)
Q Consensus 43 k~~kIr~vRK~IARilTVl~-----ek~~~~lr~~y~~--kk~~p~dlr~ 85 (123)
-.++...+|-.|||.|..++ +..++.++..|.. ..++--|-|-
T Consensus 72 ~sgQa~Air~aiaraL~~~~~~~~~~~~r~~Lk~~l~~yd~glLtrD~R~ 121 (141)
T PLN00210 72 HTSQIYAIRQSIAKALVAYYQKYVDEQSKKEIKDILLRYDRTLLVADPRR 121 (141)
T ss_pred HhHHHHHHHHHHHHHHHHhcccccChhHHHHHHHHHHhccCCCccCCchh
Confidence 35888999999999999995 4667888888777 7777777664
No 23
>PF03962 Mnd1: Mnd1 family; InterPro: IPR005647 This family of proteins includes meiotic nuclear division protein 1 (MND1) from Saccharomyces cerevisiae (Baker's yeast). The mnd1 protein forms a complex with hop2 to promote homologous chromosome pairing and meiotic double-strand break repair [].
Probab=38.39 E-value=1.2e+02 Score=23.46 Aligned_cols=61 Identities=25% Similarity=0.256 Sum_probs=40.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHcCCCCcchhhHHHHHHHHHHHHHHHHH--HHHHHHHHHhC
Q 033267 14 KVDLLNQLKELKAELALLRVAKVTGGAPNKLSKIKVVRLSIAQVLTVISQK--QKAALREAYKN 75 (123)
Q Consensus 14 ~eEL~~qL~eLk~EL~~LR~qk~tgg~~~k~~kIr~vRK~IARilTVl~ek--~~~~lr~~y~~ 75 (123)
..++.+++.+|+.++..|.-+...- ...+|..|..++.++....--+|.= ....+..+..+
T Consensus 105 R~~~l~~l~~l~~~~~~l~~el~~~-~~~Dp~~i~~~~~~~~~~~~~anrwTDNI~~l~~~~~~ 167 (188)
T PF03962_consen 105 REELLEELEELKKELKELKKELEKY-SENDPEKIEKLKEEIKIAKEAANRWTDNIFSLKSYLKK 167 (188)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH-HhcCHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHH
Confidence 3456677777777777777666543 3467899999999988888777652 34444444433
No 24
>PF11656 DUF3811: YjbD family (DUF3811); InterPro: IPR020317 This entry contains proteins with no known function.
Probab=38.34 E-value=1.4e+02 Score=20.97 Aligned_cols=68 Identities=18% Similarity=0.227 Sum_probs=43.4
Q ss_pred HHhcCCHHHHHHHHHHHHHHHHHHHHHHHHcCCCCcchhhHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCCCCCC
Q 033267 8 ELRQKSKVDLLNQLKELKAELALLRVAKVTGGAPNKLSKIKVVRLSIAQVLTVISQKQKAALREAYKNKKFLPLD 82 (123)
Q Consensus 8 eLR~~s~eEL~~qL~eLk~EL~~LR~qk~tgg~~~k~~kIr~vRK~IARilTVl~ek~~~~lr~~y~~kk~~p~d 82 (123)
.+.+|+..|- .+++..|-+-|.. .|..+.| +.-..|+.+|--=+..-.+.....+|.--+..+|.|.|
T Consensus 5 T~keMTeseq----~evkt~L~~aRk~--~gR~LTN-aE~NkiKde~i~ki~~ere~~aKkar~ekkk~k~~ps~ 72 (87)
T PF11656_consen 5 TLKEMTESEQ----REVKTLLDQARKN--LGRELTN-AEQNKIKDEIIDKIMAEREKAAKKARAEKKKNKVKPSS 72 (87)
T ss_pred hHHHhhHHHH----HHHHHHHHHHHHH--cCCccch-hhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCCc
Confidence 4455565543 5667777666654 4667776 77788888875444445555555667666777777743
No 25
>PF07106 TBPIP: Tat binding protein 1(TBP-1)-interacting protein (TBPIP); InterPro: IPR010776 This family consists of several eukaryotic TBP-1 interacting protein (TBPIP) sequences. TBP-1 has been demonstrated to interact with the human immunodeficiency virus type 1 (HIV-1) viral protein Tat, then modulate the essential replication process of HIV. In addition, TBP-1 has been shown to be a component of the 26S proteasome, a basic multiprotein complex that degrades ubiquitinated proteins in an ATP-dependent fashion. Human TBPIP interacts with human TBP-1 then modulates the inhibitory action of human TBP-1 on HIV-Tat-mediated transactivation [].
Probab=34.86 E-value=1.9e+02 Score=21.40 Aligned_cols=47 Identities=21% Similarity=0.212 Sum_probs=25.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHcCCCCcchhhHHHHHHHHHHHHHHHH
Q 033267 14 KVDLLNQLKELKAELALLRVAKVTGGAPNKLSKIKVVRLSIAQVLTVISQ 63 (123)
Q Consensus 14 ~eEL~~qL~eLk~EL~~LR~qk~tgg~~~k~~kIr~vRK~IARilTVl~e 63 (123)
..+|.+++.+++.+...|+-.... +.+..-.-.++..|+.+..-+.+
T Consensus 81 i~~L~~el~~l~~~~k~l~~eL~~---L~~~~t~~el~~~i~~l~~e~~~ 127 (169)
T PF07106_consen 81 IKELREELAELKKEVKSLEAELAS---LSSEPTNEELREEIEELEEEIEE 127 (169)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHH---HhcCCCHHHHHHHHHHHHHHHHH
Confidence 556666777777777766655442 22233334455555555554444
No 26
>PF08700 Vps51: Vps51/Vps67; InterPro: IPR014812 The VFT tethering complex (also known as GARP complex, Golgi associated retrograde protein complex, Vps53 tethering complex) is a conserved eukaryotic docking complex which is involved in recycling of proteins from endosomes to the late Golgi. Vps51 (also known as Vps67) is a subunit of VFT and interacts with the SNARE Tlg1 [].
Probab=32.31 E-value=1.4e+02 Score=19.23 Aligned_cols=57 Identities=18% Similarity=0.238 Sum_probs=33.2
Q ss_pred hHHHhcCCHHHHHHHHHHHHHHHHHHHHHHHHcCCCCcchhhHHHHHHHHHHHHHHHHH
Q 033267 6 VHELRQKSKVDLLNQLKELKAELALLRVAKVTGGAPNKLSKIKVVRLSIAQVLTVISQK 64 (123)
Q Consensus 6 a~eLR~~s~eEL~~qL~eLk~EL~~LR~qk~tgg~~~k~~kIr~vRK~IARilTVl~ek 64 (123)
..+|+.. ...|..++.+...||-.+-+.+-.. -+.-...|..++.++-.+.+.+.+-
T Consensus 21 ~~~i~~~-~~~L~~~i~~~~~eLr~~V~~nY~~-fI~as~~I~~m~~~~~~l~~~l~~l 77 (87)
T PF08700_consen 21 IKEIRQL-ENKLRQEIEEKDEELRKLVYENYRD-FIEASDEISSMENDLSELRNLLSEL 77 (87)
T ss_pred HHHHHHH-HHHHHHHHHHHHHHHHHHHHhhHHH-HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3444443 3555566666666666666555433 3334456777777777777766654
No 27
>PF11593 Med3: Mediator complex subunit 3 fungal; InterPro: IPR020998 The Mediator complex is a coactivator involved in the regulated transcription of nearly all RNA polymerase II-dependent genes. Mediator functions as a bridge to convey information from gene-specific regulatory proteins to the basal RNA polymerase II transcription machinery. The Mediator complex, having a compact conformation in its free form, is recruited to promoters by direct interactions with regulatory proteins and serves for the assembly of a functional preinitiation complex with RNA polymerase II and the general transcription factors. On recruitment the Mediator complex unfolds to an extended conformation and partially surrounds RNA polymerase II, specifically interacting with the unphosphorylated form of the C-terminal domain (CTD) of RNA polymerase II. The Mediator complex dissociates from the RNA polymerase II holoenzyme and stays at the promoter when transcriptional elongation begins. The Mediator complex is composed of at least 31 subunits: MED1, MED4, MED6, MED7, MED8, MED9, MED10, MED11, MED12, MED13, MED13L, MED14, MED15, MED16, MED17, MED18, MED19, MED20, MED21, MED22, MED23, MED24, MED25, MED26, MED27, MED29, MED30, MED31, CCNC, CDK8 and CDC2L6/CDK11. The subunits form at least three structurally distinct submodules. The head and the middle modules interact directly with RNA polymerase II, whereas the elongated tail module interacts with gene-specific regulatory proteins. Mediator containing the CDK8 module is less active than Mediator lacking this module in supporting transcriptional activation. The head module contains: MED6, MED8, MED11, SRB4/MED17, SRB5/MED18, ROX3/MED19, SRB2/MED20 and SRB6/MED22. The middle module contains: MED1, MED4, NUT1/MED5, MED7, CSE2/MED9, NUT2/MED10, SRB7/MED21 and SOH1/MED31. CSE2/MED9 interacts directly with MED4. The tail module contains: MED2, PGD1/MED3, RGR1/MED14, GAL11/MED15 and SIN4/MED16. The CDK8 module contains: MED12, MED13, CCNC and CDK8. Individual preparations of the Mediator complex lacking one or more distinct subunits have been variously termed ARC, CRSP, DRIP, PC2, SMCC and TRAP. This entry represents the subunit Med3, which is a physical target for Cyc8-Tup1, a yeast transcriptional co-repressor []. ; GO: 0001104 RNA polymerase II transcription cofactor activity, 0006357 regulation of transcription from RNA polymerase II promoter, 0016592 mediator complex
Probab=31.31 E-value=1.8e+02 Score=25.54 Aligned_cols=80 Identities=23% Similarity=0.401 Sum_probs=55.4
Q ss_pred CCChHHHhcC------CHHHHHHHHHHHHHHHHHHHHHHH--------Hc--CCCCcchhhHHHHHHHHHHHHHHHHHHH
Q 033267 3 RIKVHELRQK------SKVDLLNQLKELKAELALLRVAKV--------TG--GAPNKLSKIKVVRLSIAQVLTVISQKQK 66 (123)
Q Consensus 3 ~~Ka~eLR~~------s~eEL~~qL~eLk~EL~~LR~qk~--------tg--g~~~k~~kIr~vRK~IARilTVl~ek~~ 66 (123)
.|+..||.++ +++.+.++|.|.+.++.=||++-- +. +..+.-.+|-.||-.|-.+-.-|.+-..
T Consensus 7 ~~~LeeLe~kLa~~d~~Kd~V~~~I~ea~~sILPlRL~FNeFi~tma~Ie~~~~~s~qeKFl~IR~KlleL~~~lQ~lS~ 86 (379)
T PF11593_consen 7 NLKLEELEEKLASNDNSKDSVMDKISEAQDSILPLRLQFNEFIQTMANIEEMNNKSPQEKFLLIRSKLLELYNKLQELSS 86 (379)
T ss_pred CCcHHHHHHHHhcCCchHHHHHHHHHHHHhccccHHHHHHHHHHHHHHhhcccccCHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4666776633 788999999999999988887621 11 1334556788888888877766665322
Q ss_pred ------------HHHHHHHhCCCCCCCC
Q 033267 67 ------------AALREAYKNKKFLPLD 82 (123)
Q Consensus 67 ------------~~lr~~y~~kk~~p~d 82 (123)
.+-.+.|..++|.||+
T Consensus 87 df~~LqPLF~Ti~eyse~~~~kkF~pLE 114 (379)
T PF11593_consen 87 DFQKLQPLFDTIPEYSEKYNSKKFQPLE 114 (379)
T ss_pred HHHHhchHHhhhHHHhcccCCccceech
Confidence 2335668889999975
No 28
>PF08188 Protamine_3: Spermatozal protamine family; InterPro: IPR012601 This entry consists of the spermatozal protamines. Spermatozal protamines play an important role in remodelling of the sperm chromatin during mammalian spermiogenesis. Nuclear elongation and chromatin condensation are concomitant with modifications in the basic protein complement associated with DNA. Somatic histones are initially replaced by testis-specific histone variants, then by transitional proteins, and ultimately by protamines [].; GO: 0003677 DNA binding, 0035092 sperm chromatin condensation, 0000228 nuclear chromosome
Probab=30.99 E-value=1.3e+02 Score=18.47 Aligned_cols=41 Identities=27% Similarity=0.434 Sum_probs=30.1
Q ss_pred hhhHHHHHHHHHHHHHHHHHHH-HHHHHHHhCCCC--CCCCCCc
Q 033267 45 SKIKVVRLSIAQVLTVISQKQK-AALREAYKNKKF--LPLDLRP 85 (123)
Q Consensus 45 ~kIr~vRK~IARilTVl~ek~~-~~lr~~y~~kk~--~p~dlr~ 85 (123)
|.++.-|+++-|-.|--||+.+ ..+-..|+...| .|-..||
T Consensus 5 hsmkkkrksvrrrktrknqrkrknslgrsfkahgflkqpprfrp 48 (48)
T PF08188_consen 5 HSMKKKRKSVRRRKTRKNQRKRKNSLGRSFKAHGFLKQPPRFRP 48 (48)
T ss_pred hHHHHHHHHHHHHHHHhhHHHhhhhhhhHHHhcccccCCCCCCC
Confidence 5677889999999999999765 445666666666 4555554
No 29
>TIGR01639 P_fal_TIGR01639 Plasmodium falciparum uncharacterized domain TIGR01639. This model represents a conserved sequence region of about 60 amino acids found in over 40 predicted proteins of Plasmodium falciparum. It is not found elsewhere, including closely related species such as Plasmodium yoelii. No member of this family is characterized.
Probab=29.41 E-value=60 Score=20.67 Aligned_cols=22 Identities=27% Similarity=0.409 Sum_probs=17.6
Q ss_pred ChHHH-hcCCHHHHHHHHHHHHH
Q 033267 5 KVHEL-RQKSKVDLLNQLKELKA 26 (123)
Q Consensus 5 Ka~eL-R~~s~eEL~~qL~eLk~ 26 (123)
+..|| +.+|.|||.+.|..|..
T Consensus 2 ~~~Dls~~lTeEEl~~~i~~L~~ 24 (61)
T TIGR01639 2 KYNDLSKKLSKEELNELINSLDE 24 (61)
T ss_pred ChhHHhHHccHHHHHHHHHhhcC
Confidence 45676 68999999999998863
No 30
>PRK10515 hypothetical protein; Provisional
Probab=28.51 E-value=2.2e+02 Score=20.15 Aligned_cols=70 Identities=17% Similarity=0.252 Sum_probs=44.7
Q ss_pred CChHHHhcCCHHHHHHHHHHHHHHHHHHHHHHHHcCCCCcchhhHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCCCC
Q 033267 4 IKVHELRQKSKVDLLNQLKELKAELALLRVAKVTGGAPNKLSKIKVVRLSIAQVLTVISQKQKAALREAYKNKKFLP 80 (123)
Q Consensus 4 ~Ka~eLR~~s~eEL~~qL~eLk~EL~~LR~qk~tgg~~~k~~kIr~vRK~IARilTVl~ek~~~~lr~~y~~kk~~p 80 (123)
|+.=.+.+|+..|- .+++..|-+-|... |..+.| +.-..|++.|--=++.-++.....+|..-+..+|+|
T Consensus 3 m~~Lt~keMTEseq----revkt~L~~aR~~~--gR~LTN-aE~NkvK~e~i~ki~aere~~aK~~R~~kK~~~~kp 72 (90)
T PRK10515 3 LPRITQKEMTEREQ----RELKTLLDRARIAH--GRPLTN-SETNSIKKEYIDKLMAEREAEAKKARQLKKKQAYKP 72 (90)
T ss_pred chhHHHHHhhHHHH----HHHHHHHHHHHHHc--CCccch-hhHhHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCC
Confidence 34445666666553 56777777776554 657777 777788887755555555555556666666666666
No 31
>PF08621 RPAP1_N: RPAP1-like, N-terminal; InterPro: IPR013930 Inhibition of RNA polymerase II-associated protein 1 (RPAP1) synthesis in Saccharomyces cerevisiae (Baker's yeast) results in changes in global gene expression that are similar to those caused by the loss of the RNAPII subunit Rpb11 []. This entry represents the N-terminal region of RPAP-1 that is conserved from yeast to humans.
Probab=27.07 E-value=68 Score=19.93 Aligned_cols=20 Identities=20% Similarity=0.207 Sum_probs=15.3
Q ss_pred HHhcCCHHHHHHHHHHHHHH
Q 033267 8 ELRQKSKVDLLNQLKELKAE 27 (123)
Q Consensus 8 eLR~~s~eEL~~qL~eLk~E 27 (123)
-|.+||.+|+.+.-.+|...
T Consensus 11 rL~~MS~eEI~~er~eL~~~ 30 (49)
T PF08621_consen 11 RLASMSPEEIEEEREELLES 30 (49)
T ss_pred HHHhCCHHHHHHHHHHHHHh
Confidence 37899999998877776643
No 32
>PRK11546 zraP zinc resistance protein; Provisional
Probab=26.61 E-value=1.2e+02 Score=22.98 Aligned_cols=23 Identities=22% Similarity=0.328 Sum_probs=18.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Q 033267 14 KVDLLNQLKELKAELALLRVAKV 36 (123)
Q Consensus 14 ~eEL~~qL~eLk~EL~~LR~qk~ 36 (123)
...|.+++.+|+.+|+++||+.-
T Consensus 91 I~aL~kEI~~Lr~kL~e~r~~~~ 113 (143)
T PRK11546 91 INAVAKEMENLRQSLDELRVKRD 113 (143)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Confidence 45688899999999998888543
No 33
>PF10200 Ndufs5: NADH:ubiquinone oxidoreductase, NDUFS5-15kDa; InterPro: IPR019342 Proteins in this entry form part of the NADH:ubiquinone oxidoreductase complex I. Complex I is the first multisubunit inner membrane protein complex of the mitochondrial electron transport chain and it transfers two electrons from NADH to ubiquinone. The mammalian complex I is composed of 45 different subunits. The proteins in this entry represent a component of the iron-sulphur (IP) fragment of the enzyme, that is not involved in catalysis. These proteins carry four highly conserved cysteine residues, but these do not appear to be in a configuration which would favour metal binding, so the exact function of the protein is uncertain [].
Probab=26.46 E-value=1.2e+02 Score=21.52 Aligned_cols=29 Identities=14% Similarity=0.210 Sum_probs=22.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhCCCCCCC
Q 033267 48 KVVRLSIAQVLTVISQKQKAALREAYKNKKFLPL 81 (123)
Q Consensus 48 r~vRK~IARilTVl~ek~~~~lr~~y~~kk~~p~ 81 (123)
-.-.|.++|+.+|..|++ +.|+.-+|.|-
T Consensus 67 lh~~Ke~~R~~aI~kqR~-----K~~keGk~tpp 95 (96)
T PF10200_consen 67 LHHTKEMKRMRAIRKQRD-----KQIKEGKYTPP 95 (96)
T ss_pred HhhHHHHHHHHHHHHHHH-----HHHHccCCCCC
Confidence 345799999999998776 46777777773
No 34
>PF08285 DPM3: Dolichol-phosphate mannosyltransferase subunit 3 (DPM3); InterPro: IPR013174 This family corresponds to subunit 3 of dolichol-phosphate mannosyltransferase, an enzyme which generates mannosyl donors for glycosylphosphatidylinositols, N-glycan and protein O- and C-mannosylation. DPM3 is an integral membrane protein and plays a role in stabilising the dolichol-phosphate mannosyl transferase complex [].
Probab=25.86 E-value=77 Score=22.05 Aligned_cols=17 Identities=35% Similarity=0.462 Sum_probs=14.5
Q ss_pred HHHHHHHHHHHHHHHHH
Q 033267 14 KVDLLNQLKELKAELAL 30 (123)
Q Consensus 14 ~eEL~~qL~eLk~EL~~ 30 (123)
-+||+++++|.|.+|..
T Consensus 70 ~~eL~~eI~eAK~dLr~ 86 (91)
T PF08285_consen 70 AKELQKEIKEAKADLRK 86 (91)
T ss_pred HHHHHHHHHHHHHHHHH
Confidence 47999999999998864
No 35
>PHA03041 virion core protein; Provisional
Probab=25.61 E-value=91 Score=23.98 Aligned_cols=29 Identities=21% Similarity=0.350 Sum_probs=24.9
Q ss_pred hHHHhcCCHHHHHHHHHHHHHHHHHHHHH
Q 033267 6 VHELRQKSKVDLLNQLKELKAELALLRVA 34 (123)
Q Consensus 6 a~eLR~~s~eEL~~qL~eLk~EL~~LR~q 34 (123)
+.++++.|.+|+.+++++.+.|-..|.-+
T Consensus 87 ~~~~~~~s~~ei~kE~esIKdeT~sLQ~e 115 (153)
T PHA03041 87 PKKIRSISIEEIIKELESIKDETSSLQNE 115 (153)
T ss_pred hhhhhhccHHHHHHHHHHHhHHHHHHHHH
Confidence 35788999999999999999998888544
No 36
>PF05812 Herpes_BLRF2: Herpesvirus BLRF2 protein; InterPro: IPR008642 This family consists of several herpes virus BLRF2 tegument proteins.; PDB: 2OA5_B 2H3R_D.
Probab=25.24 E-value=1.6e+02 Score=21.72 Aligned_cols=29 Identities=17% Similarity=0.148 Sum_probs=24.4
Q ss_pred cCCHHHHHHHHHHHHHHHHHHHHHHHHcC
Q 033267 11 QKSKVDLLNQLKELKAELALLRVAKVTGG 39 (123)
Q Consensus 11 ~~s~eEL~~qL~eLk~EL~~LR~qk~tgg 39 (123)
++|.|||.++|..|+-|=-.|+=+-..|+
T Consensus 2 ~~t~EeLaaeL~kLqmENk~LKkkl~~~~ 30 (118)
T PF05812_consen 2 DMTMEELAAELQKLQMENKALKKKLRQSV 30 (118)
T ss_dssp -HHHHHHHHHHHHHHHHHHHHHHHHHHTT
T ss_pred CCCHHHHHHHHHHHHHHHHHHHHHHHccC
Confidence 56889999999999999999987766653
No 37
>PF08312 cwf21: cwf21 domain; InterPro: IPR013170 The cwf21 domain is found in proteins involved in mRNA splicing. Proteins containing this domain have been isolated as a subcomplex of the splicosome in Schizosaccharomyces pombe (Fission yeast) []. In yeast, this domain binds the protein Prp8p [], a large and highly conserved U5 snRNP protein which has been proposed as a protein cofactor at the spliceosomal catalytic centre []. The cwf21 domain is found in, amongst others, the small Cwc21p protein in yeast as well as in the much larger human ortholog SRm300 (serine/arginine repetitive matrix protein). ; PDB: 2E62_A.
Probab=24.24 E-value=1.2e+02 Score=18.57 Aligned_cols=21 Identities=19% Similarity=0.294 Sum_probs=16.1
Q ss_pred hcCCHHHHHHHHHHHHHHHHH
Q 033267 10 RQKSKVDLLNQLKELKAELAL 30 (123)
Q Consensus 10 R~~s~eEL~~qL~eLk~EL~~ 30 (123)
.+.+.+++..+++.++..|.+
T Consensus 23 ~g~~~eeIe~kv~~~R~~L~~ 43 (46)
T PF08312_consen 23 QGYSEEEIEEKVDELRKKLLE 43 (46)
T ss_dssp HT--HHHHHHHHHHHHHHHHH
T ss_pred CCCCHHHHHHHHHHHHHHHHh
Confidence 466899999999999998864
No 38
>PRK09413 IS2 repressor TnpA; Reviewed
Probab=23.87 E-value=1.2e+02 Score=21.26 Aligned_cols=21 Identities=24% Similarity=0.273 Sum_probs=12.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHH
Q 033267 16 DLLNQLKELKAELALLRVAKV 36 (123)
Q Consensus 16 EL~~qL~eLk~EL~~LR~qk~ 36 (123)
++.+++.+|+.++.+|++...
T Consensus 75 ~~~~ei~~L~~el~~L~~E~d 95 (121)
T PRK09413 75 AAMKQIKELQRLLGKKTMENE 95 (121)
T ss_pred HHHHHHHHHHHHHHHHHHHHH
Confidence 455556666666666665544
No 39
>COG0103 RpsI Ribosomal protein S9 [Translation, ribosomal structure and biogenesis]
Probab=23.87 E-value=1.2e+02 Score=22.67 Aligned_cols=38 Identities=29% Similarity=0.332 Sum_probs=30.4
Q ss_pred chhhHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCCCCCCCCc
Q 033267 44 LSKIKVVRLSIAQVLTVISQKQKAALREAYKNKKFLPLDLRP 85 (123)
Q Consensus 44 ~~kIr~vRK~IARilTVl~ek~~~~lr~~y~~kk~~p~dlr~ 85 (123)
.++...+|--|||.|...+ .+++..++...++-=|-|-
T Consensus 73 ~GQA~AiR~gIaRAL~~~~----~~lr~~lk~~g~LtrD~R~ 110 (130)
T COG0103 73 SGQAGAIRHGIARALVEYD----PELRPALKKAGLLTRDPRR 110 (130)
T ss_pred hHHHHHHHHHHHHHHHHHC----HHHHHHHHHCCCcccCccc
Confidence 4788999999999999999 5667777666777777663
No 40
>PF11652 DUF3259: Protein of unknown function (DUF3259); InterPro: IPR024280 This entry describes a eukaryotic protein family of unknown function designated FAM167.
Probab=23.75 E-value=1.6e+02 Score=20.61 Aligned_cols=26 Identities=27% Similarity=0.383 Sum_probs=22.4
Q ss_pred CHHHHHHHHHHHHHHHHHHHHHHHHc
Q 033267 13 SKVDLLNQLKELKAELALLRVAKVTG 38 (123)
Q Consensus 13 s~eEL~~qL~eLk~EL~~LR~qk~tg 38 (123)
-+.+|..||-.++.++-.|+++++-.
T Consensus 4 qD~qLArqLmrlR~~i~~lkveq~C~ 29 (84)
T PF11652_consen 4 QDQQLARQLMRLRSEIHRLKVEQTCH 29 (84)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 36789999999999999999998754
No 41
>TIGR02209 ftsL_broad cell division protein FtsL. This model represents FtsL, both forms similar to that in E. coli and similar to that in B. subtilis. FtsL is one of the later proteins active in cell division septum formation. FtsL is small, low in complexity, and highly divergent. The scope of this model is broader than that of the Pfam model pfam04999.3 for FtsL, as this one includes FtsL from Bacillus subtilis and related species.
Probab=23.16 E-value=1.9e+02 Score=18.57 Aligned_cols=34 Identities=15% Similarity=0.174 Sum_probs=25.4
Q ss_pred CHHHHHHHHHHHHHHHHHHHHHHHHcCCCCcchhhHH
Q 033267 13 SKVDLLNQLKELKAELALLRVAKVTGGAPNKLSKIKV 49 (123)
Q Consensus 13 s~eEL~~qL~eLk~EL~~LR~qk~tgg~~~k~~kIr~ 49 (123)
..+++..++++++.|-.+|+..... +++|..|..
T Consensus 32 ~~~~~~~~~~~l~~en~~L~~ei~~---l~~~~rIe~ 65 (85)
T TIGR02209 32 ELQKLQLEIDKLQKEWRDLQLEVAE---LSRHERIEK 65 (85)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH---HcCHHHHHH
Confidence 3577888888889999999888873 455666653
No 42
>PF11629 Mst1_SARAH: C terminal SARAH domain of Mst1; InterPro: IPR024205 The SARAH (Sav/Rassf/Hpo) domain is found at the C terminus in three classes of eukaryotic tumour suppressors that give the domain its name. In the Sav (Salvador) and Hpo (Hippo) families, the SARAH domain mediates signal transduction from Hpo via the Sav scaffolding protein to the downstream component Wts (Warts); the phosphorylation of Wts by Hpo triggers cell cycle arrest and apoptosis by down-regulating cyclin E, Diap 1 and other targets []. The SARAH domain is also involved in dimerisation, as in the human Hpo orthologue, Mst1, which homodimerises via its C-terminal SARAH domain. The SARAH domain is found associated with other domains, such as protein kinase domains, WW/rsp5/WWP domain (IPR001202 from INTERPRO), C1 domain (IPR002219 from INTERPRO), LIM domain (IPR001781 from INTERPRO), or the Ras-associating (RA) domain (IPR000159 from INTERPRO).; GO: 0004674 protein serine/threonine kinase activity; PDB: 2JO8_A.
Probab=23.12 E-value=1.3e+02 Score=19.03 Aligned_cols=25 Identities=32% Similarity=0.353 Sum_probs=15.9
Q ss_pred HhcCCHHHHHHHHHHHH----HHHHHHHH
Q 033267 9 LRQKSKVDLLNQLKELK----AELALLRV 33 (123)
Q Consensus 9 LR~~s~eEL~~qL~eLk----~EL~~LR~ 33 (123)
|..+|.+||...|..|- +|+-+||-
T Consensus 5 Lk~ls~~eL~~rl~~LD~~ME~Eieelr~ 33 (49)
T PF11629_consen 5 LKFLSYEELQQRLASLDPEMEQEIEELRQ 33 (49)
T ss_dssp GGGS-HHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HhhCCHHHHHHHHHhCCHHHHHHHHHHHH
Confidence 67788888888877654 34445543
No 43
>PF07989 Microtub_assoc: Microtubule associated; InterPro: IPR012943 Proteins with this domain associate with the spindle body during cell division [].
Probab=22.95 E-value=1.2e+02 Score=20.23 Aligned_cols=22 Identities=23% Similarity=0.211 Sum_probs=18.2
Q ss_pred CHHHHHHHHHHHHHHHHHHHHH
Q 033267 13 SKVDLLNQLKELKAELALLRVA 34 (123)
Q Consensus 13 s~eEL~~qL~eLk~EL~~LR~q 34 (123)
|.-|..++|++|++|=|+|++.
T Consensus 1 tlrEqe~~i~~L~KENF~LKLr 22 (75)
T PF07989_consen 1 TLREQEEQIDKLKKENFNLKLR 22 (75)
T ss_pred CHHHHHHHHHHHHHhhhhHHHH
Confidence 3457888999999999998765
No 44
>PF08627 CRT-like: CRT-like; InterPro: IPR013936 This region is found in proteins related to Plasmodium falciparum chloroquine resistance transporter (CRT).
Probab=22.91 E-value=32 Score=25.78 Aligned_cols=10 Identities=50% Similarity=0.740 Sum_probs=8.0
Q ss_pred hhCCcchhhh
Q 033267 112 MYFPMRKYAI 121 (123)
Q Consensus 112 ~~~p~r~~a~ 121 (123)
+.||.+||||
T Consensus 121 r~FPkyKFaI 130 (130)
T PF08627_consen 121 RAFPKYKFAI 130 (130)
T ss_pred HhCccccccC
Confidence 4688888886
No 45
>PF10498 IFT57: Intra-flagellar transport protein 57 ; InterPro: IPR019530 Eukaryotic cilia and flagella are specialised organelles found at the periphery of cells of diverse organisms. Intra-flagellar transport (IFT) is required for the assembly and maintenance of eukaryotic cilia and flagella, and consists of the bi-directional movement of large protein particles between the base and the distal tip of the organelle. IFT particles contain multiple copies of two distinct protein complexes, A and B, which contain at least 6 and 11 protein subunits. IFT57 is part of complex B but is not, however, required for the core subunits to stay associated []. This protein is known as Huntington-interacting protein-1 in humans.
Probab=22.52 E-value=4.2e+02 Score=22.65 Aligned_cols=53 Identities=15% Similarity=0.204 Sum_probs=40.5
Q ss_pred CHHHHHHHHHHHHHHHHHHHHHHHH-cCCCCcchhhHHHHHHHHHHHHHHHHHH
Q 033267 13 SKVDLLNQLKELKAELALLRVAKVT-GGAPNKLSKIKVVRLSIAQVLTVISQKQ 65 (123)
Q Consensus 13 s~eEL~~qL~eLk~EL~~LR~qk~t-gg~~~k~~kIr~vRK~IARilTVl~ek~ 65 (123)
+..++..+|.++-.||-+...+-.- |...+..+-+-.+|..|.++.+.|.+..
T Consensus 295 ~V~~~t~~L~~IseeLe~vK~emeerg~~mtD~sPlv~IKqAl~kLk~EI~qMd 348 (359)
T PF10498_consen 295 GVSERTRELAEISEELEQVKQEMEERGSSMTDGSPLVKIKQALTKLKQEIKQMD 348 (359)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCCCHHHHHHHHHHHHHHHHHHhh
Confidence 5677777777777777776665433 4456778888999999999999998865
No 46
>PF13292 DXP_synthase_N: 1-deoxy-D-xylulose-5-phosphate synthase; PDB: 2O1X_C 2O1S_B.
Probab=22.36 E-value=80 Score=26.32 Aligned_cols=35 Identities=20% Similarity=0.203 Sum_probs=26.1
Q ss_pred ChHHHhcCCHHHHHHHHHHHHHHHHHHHHHHHHcCCC
Q 033267 5 KVHELRQKSKVDLLNQLKELKAELALLRVAKVTGGAP 41 (123)
Q Consensus 5 Ka~eLR~~s~eEL~~qL~eLk~EL~~LR~qk~tgg~~ 41 (123)
...||+.+|.+||.+.-.|++..+.+.- ..+||.+
T Consensus 6 ~p~dlk~ls~~eL~~La~eiR~~ii~~v--s~~GGHl 40 (270)
T PF13292_consen 6 SPEDLKKLSIEELEQLAQEIREFIIETV--SKTGGHL 40 (270)
T ss_dssp SHHHHTTS-GGGHHHHHHHHHHHHHHHC--TCCCSTH
T ss_pred CHHHHHcCCHHHHHHHHHHHHHHHHHHH--hhcCCCC
Confidence 4689999999999999999999887653 2345443
No 47
>PF13591 MerR_2: MerR HTH family regulatory protein
Probab=22.00 E-value=1e+02 Score=20.48 Aligned_cols=18 Identities=44% Similarity=0.794 Sum_probs=15.5
Q ss_pred HHHHHHHHHHHHHHHHHH
Q 033267 15 VDLLNQLKELKAELALLR 32 (123)
Q Consensus 15 eEL~~qL~eLk~EL~~LR 32 (123)
-+|.++++.|+.|+-.|+
T Consensus 66 l~LLd~i~~L~~el~~L~ 83 (84)
T PF13591_consen 66 LDLLDRIEQLRRELRELR 83 (84)
T ss_pred HHHHHHHHHHHHHHHHhh
Confidence 478999999999998875
No 48
>PRK15178 Vi polysaccharide export inner membrane protein VexD; Provisional
Probab=21.06 E-value=3.6e+02 Score=23.91 Aligned_cols=44 Identities=27% Similarity=0.221 Sum_probs=28.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHcCCCCcchhhHHHHHHHHHHHHHHHH
Q 033267 15 VDLLNQLKELKAELALLRVAKVTGGAPNKLSKIKVVRLSIAQVLTVISQ 63 (123)
Q Consensus 15 eEL~~qL~eLk~EL~~LR~qk~tgg~~~k~~kIr~vRK~IARilTVl~e 63 (123)
..|+.+|.+++.+|..|+.. ..++...|..++..|+-|-.-|.+
T Consensus 289 ~~Le~qLa~~~aeL~~L~~~-----~~p~sPqV~~l~~rI~aLe~QIa~ 332 (434)
T PRK15178 289 AGFETQLAEAKAEYAQLMVN-----GLDQNPLIPRLSAKIKVLEKQIGE 332 (434)
T ss_pred HHHHHHHHHHHHHHHHHHhh-----cCCCCCchhHHHHHHHHHHHHHHH
Confidence 44555555555555555332 235568899999999988776664
No 49
>COG1154 Dxs Deoxyxylulose-5-phosphate synthase [Coenzyme metabolism / Lipid metabolism]
Probab=20.59 E-value=1.3e+02 Score=27.98 Aligned_cols=36 Identities=25% Similarity=0.249 Sum_probs=29.4
Q ss_pred ChHHHhcCCHHHHHHHHHHHHHHHHHHHHHHHHcCCCC
Q 033267 5 KVHELRQKSKVDLLNQLKELKAELALLRVAKVTGGAPN 42 (123)
Q Consensus 5 Ka~eLR~~s~eEL~~qL~eLk~EL~~LR~qk~tgg~~~ 42 (123)
...||+.+|.+||.+.-+|++.+|.+---+ +||.+.
T Consensus 10 ~P~dLk~ls~~eL~~La~EiR~~li~~vS~--~GGHlg 45 (627)
T COG1154 10 SPADLKKLSIEELPQLADEIREFLLEVVSA--TGGHLG 45 (627)
T ss_pred CHHHHhhCCHHHHHHHHHHHHHHHHHHhcc--CCCccC
Confidence 568999999999999999999999875433 666664
Done!