Query psy4190
Match_columns 90
No_of_seqs 14 out of 16
Neff 1.8
Searched_HMMs 46136
Date Fri Aug 16 19:09:19 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy4190.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/4190hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF13909 zf-H2C2_5: C2H2-type 96.9 0.00043 9.4E-09 34.9 0.8 21 21-42 1-21 (24)
2 PF13894 zf-C2H2_4: C2H2-type 95.7 0.0057 1.2E-07 29.0 1.0 22 21-42 1-22 (24)
3 PF00096 zf-C2H2: Zinc finger, 94.4 0.017 3.7E-07 28.3 0.7 23 21-43 1-23 (23)
4 smart00355 ZnF_C2H2 zinc finge 91.4 0.16 3.4E-06 23.7 1.6 21 21-41 1-21 (26)
5 PHA00732 hypothetical protein 88.0 0.28 6E-06 31.9 1.2 28 21-48 2-38 (79)
6 PHA00616 hypothetical protein 85.7 0.32 7E-06 29.6 0.5 24 21-44 2-25 (44)
7 PF05253 zf-U11-48K: U11-48K-l 84.1 0.91 2E-05 24.3 1.8 20 26-45 5-27 (27)
8 cd00608 GalT Galactose-1-phosp 76.6 3.1 6.7E-05 32.0 3.2 20 59-78 82-101 (329)
9 PF15269 zf-C2H2_7: Zinc-finge 76.3 1.8 4E-05 27.9 1.6 26 16-41 16-41 (54)
10 PF13913 zf-C2HC_2: zinc-finge 75.3 2.5 5.3E-05 22.3 1.7 24 20-44 2-25 (25)
11 COG2888 Predicted Zn-ribbon RN 72.6 1.5 3.3E-05 28.8 0.5 13 18-30 48-60 (61)
12 PF08209 Sgf11: Sgf11 (transcr 72.3 2.2 4.8E-05 24.5 1.1 25 19-44 3-27 (33)
13 PRK11720 galactose-1-phosphate 70.4 4 8.8E-05 32.3 2.6 21 57-77 92-112 (346)
14 PHA00733 hypothetical protein 69.0 1.8 4E-05 29.9 0.3 23 19-41 72-94 (128)
15 PF05605 zf-Di19: Drought indu 65.7 5.7 0.00012 23.2 1.9 23 20-43 2-24 (54)
16 PF07754 DUF1610: Domain of un 65.1 2.9 6.2E-05 22.8 0.5 10 19-28 15-24 (24)
17 PRK14890 putative Zn-ribbon RN 57.2 4.6 9.9E-05 26.2 0.5 13 17-29 45-57 (59)
18 smart00734 ZnF_Rad18 Rad18-lik 56.5 9.4 0.0002 20.4 1.6 22 21-43 2-23 (26)
19 PF12756 zf-C2H2_2: C2H2 type 55.5 6.3 0.00014 23.3 0.9 24 20-43 50-73 (100)
20 TIGR00209 galT_1 galactose-1-p 54.2 20 0.00044 28.5 3.8 20 59-78 94-113 (347)
21 PF02176 zf-TRAF: TRAF-type zi 52.0 6.4 0.00014 22.5 0.5 26 21-46 10-37 (60)
22 cd07322 PriL_PriS_Eukaryotic E 48.3 9.2 0.0002 31.1 1.1 37 17-53 314-373 (390)
23 PLN03086 PRLI-interacting fact 46.4 13 0.00028 32.3 1.8 10 35-44 529-538 (567)
24 PF13912 zf-C2H2_6: C2H2-type 43.7 9.1 0.0002 19.0 0.3 20 21-40 2-21 (27)
25 COG1326 Uncharacterized archae 42.5 9.1 0.0002 29.9 0.2 12 20-31 6-17 (201)
26 PRK06266 transcription initiat 42.2 11 0.00024 27.4 0.6 13 15-27 112-124 (178)
27 KOG2462|consensus 38.7 18 0.0004 29.3 1.4 31 18-48 159-198 (279)
28 PF05129 Elf1: Transcription e 37.7 12 0.00026 24.4 0.2 24 13-36 15-38 (81)
29 TIGR00373 conserved hypothetic 37.2 15 0.00032 26.1 0.6 14 15-28 104-117 (158)
30 PRK08351 DNA-directed RNA poly 36.3 18 0.0004 23.2 0.9 9 22-30 17-25 (61)
31 PHA02768 hypothetical protein; 36.2 29 0.00062 21.9 1.7 30 18-47 3-32 (55)
32 KOG3970|consensus 35.4 21 0.00045 29.4 1.3 15 16-30 90-104 (299)
33 KOG1146|consensus 35.1 19 0.0004 34.9 1.0 32 17-48 515-546 (1406)
34 PRK00464 nrdR transcriptional 34.6 15 0.00033 26.6 0.4 13 20-32 28-40 (154)
35 PF04423 Rad50_zn_hook: Rad50 34.3 16 0.00034 21.4 0.3 20 22-41 22-43 (54)
36 PF06093 Spt4: Spt4/RpoE2 zinc 34.1 12 0.00027 24.5 -0.2 7 22-28 20-26 (77)
37 TIGR00244 transcriptional regu 34.1 15 0.00032 27.2 0.2 28 22-49 2-40 (147)
38 PF08149 BING4CT: BING4CT (NUC 33.0 10 0.00022 25.8 -0.7 13 20-32 12-24 (80)
39 PRK15202 type III secretion ch 33.0 19 0.00042 26.3 0.6 13 22-34 43-55 (117)
40 PRK14892 putative transcriptio 32.5 12 0.00027 25.6 -0.4 36 15-51 16-56 (99)
41 COG1997 RPL43A Ribosomal prote 31.0 24 0.00052 24.6 0.8 13 17-29 32-44 (89)
42 COG1085 GalT Galactose-1-phosp 30.6 56 0.0012 26.9 3.0 22 56-77 80-101 (338)
43 PF03470 zf-XS: XS zinc finger 30.4 23 0.0005 21.6 0.6 8 23-30 1-8 (43)
44 COG1327 Predicted transcriptio 29.6 24 0.00052 26.6 0.7 28 22-49 2-40 (156)
45 smart00531 TFIIE Transcription 29.3 22 0.00048 24.5 0.5 14 15-28 94-107 (147)
46 PF09237 GAGA: GAGA factor; I 29.2 28 0.00062 22.5 0.9 25 20-44 24-49 (54)
47 PF14206 Cys_rich_CPCC: Cystei 28.5 34 0.00073 22.7 1.2 20 14-33 12-33 (78)
48 KOG2817|consensus 28.4 26 0.00057 29.6 0.8 13 20-32 374-386 (394)
49 PF07150 DUF1390: Protein of u 27.8 14 0.0003 28.9 -0.9 25 19-44 6-31 (229)
50 TIGR00269 conserved hypothetic 27.3 65 0.0014 21.1 2.4 32 17-49 23-54 (104)
51 PF10650 zf-C3H1: Putative zin 27.1 31 0.00068 18.7 0.7 9 24-32 1-9 (23)
52 TIGR01367 pyrE_Therm orotate p 26.5 24 0.00052 25.3 0.2 9 19-27 168-176 (187)
53 PF07282 OrfB_Zn_ribbon: Putat 26.1 27 0.00059 20.7 0.4 17 17-33 43-59 (69)
54 KOG3715|consensus 26.0 1.2E+02 0.0026 25.6 4.2 37 41-79 123-159 (344)
55 PF02591 DUF164: Putative zinc 24.8 19 0.00042 21.2 -0.4 24 4-27 30-53 (56)
56 PF14846 DUF4485: Domain of un 24.7 56 0.0012 21.2 1.7 43 23-66 39-83 (85)
57 PLN02821 1-hydroxy-2-methyl-2- 23.6 39 0.00085 29.0 1.0 14 62-75 108-121 (460)
58 KOG3940|consensus 23.5 29 0.00063 29.2 0.2 30 18-48 128-157 (351)
59 PLN03086 PRLI-interacting fact 23.2 38 0.00083 29.5 0.9 20 22-42 455-474 (567)
60 PLN03238 probable histone acet 23.0 49 0.0011 26.9 1.4 37 17-53 45-81 (290)
61 PF13465 zf-H2C2_2: Zinc-finge 22.9 24 0.00052 18.1 -0.3 9 19-27 13-21 (26)
62 smart00661 RPOL9 RNA polymeras 22.9 17 0.00037 20.3 -0.9 20 20-39 20-40 (52)
63 PF12705 PDDEXK_1: PD-(D/E)XK 22.7 40 0.00087 21.8 0.7 14 17-30 241-254 (257)
64 PF13719 zinc_ribbon_5: zinc-r 22.3 36 0.00078 19.0 0.4 13 21-33 3-15 (37)
65 PRK01045 ispH 4-hydroxy-3-meth 22.2 44 0.00096 26.5 1.0 14 62-75 3-16 (298)
66 KOG2612|consensus 22.1 61 0.0013 23.2 1.6 30 14-44 68-97 (103)
67 KOG2324|consensus 22.1 30 0.00065 30.0 0.0 26 20-45 227-252 (457)
68 smart00224 GGL G protein gamma 21.9 55 0.0012 20.2 1.2 27 45-74 37-63 (63)
69 KOG3348|consensus 21.6 46 0.00099 23.0 0.8 12 31-42 44-55 (85)
70 PRK14821 putative deoxyribonuc 21.4 50 0.0011 24.0 1.0 31 26-72 40-70 (184)
71 cd00924 Cyt_c_Oxidase_Vb Cytoc 21.4 45 0.00098 22.7 0.8 22 5-27 64-86 (97)
72 COG0675 Transposase and inacti 20.8 39 0.00084 23.5 0.4 16 19-34 321-336 (364)
73 PF10571 UPF0547: Uncharacteri 20.7 52 0.0011 17.7 0.8 14 17-30 11-24 (26)
74 PRK14826 putative deoxyribonuc 20.5 55 0.0012 24.7 1.1 12 61-72 78-89 (222)
75 COG1675 TFA1 Transcription ini 20.5 46 0.00099 24.9 0.7 13 15-27 108-120 (176)
76 PF10855 DUF2648: Protein of u 20.2 24 0.00053 20.9 -0.6 15 44-58 18-32 (33)
77 smart00525 FES FES domain. iro 20.1 61 0.0013 16.4 0.9 15 19-33 5-19 (26)
No 1
>PF13909 zf-H2C2_5: C2H2-type zinc-finger domain; PDB: 1X5W_A.
Probab=96.86 E-value=0.00043 Score=34.95 Aligned_cols=21 Identities=38% Similarity=0.868 Sum_probs=17.0
Q ss_pred CCCCCCccccccchhhhhhHHH
Q psy4190 21 HQCPSCLFEDNQKGKLTRHLLS 42 (90)
Q Consensus 21 HQCP~CPFEDN~KgKLtRH~is 42 (90)
|+|+.|+|..+ +..|.+|+..
T Consensus 1 y~C~~C~y~t~-~~~l~~H~~~ 21 (24)
T PF13909_consen 1 YKCPHCSYSTS-KSNLKRHLKR 21 (24)
T ss_dssp EE-SSSS-EES-HHHHHHHHHH
T ss_pred CCCCCCCCcCC-HHHHHHHHHh
Confidence 68999999999 9999999853
No 2
>PF13894 zf-C2H2_4: C2H2-type zinc finger; PDB: 2ELX_A 2EPP_A 2DLK_A 1X6H_A 2EOU_A 2EMB_A 2GQJ_A 2CSH_A 2WBT_B 2ELM_A ....
Probab=95.65 E-value=0.0057 Score=28.99 Aligned_cols=22 Identities=32% Similarity=0.578 Sum_probs=18.6
Q ss_pred CCCCCCccccccchhhhhhHHH
Q psy4190 21 HQCPSCLFEDNQKGKLTRHLLS 42 (90)
Q Consensus 21 HQCP~CPFEDN~KgKLtRH~is 42 (90)
|+|+.|++.-+.+..|.+|+..
T Consensus 1 ~~C~~C~~~~~~~~~l~~H~~~ 22 (24)
T PF13894_consen 1 FQCPICGKSFRSKSELRQHMRT 22 (24)
T ss_dssp EE-SSTS-EESSHHHHHHHHHH
T ss_pred CCCcCCCCcCCcHHHHHHHHHh
Confidence 6899999999999999999975
No 3
>PF00096 zf-C2H2: Zinc finger, C2H2 type; InterPro: IPR007087 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. The C2H2 zinc finger is the classical zinc finger domain. The two conserved cysteines and histidines co-ordinate a zinc ion. The following pattern describes the zinc finger: #-X-C-X(1-5)-C-X3-#-X5-#-X2-H-X(3-6)-[H/C], where X can be any amino acid, and numbers in brackets indicate the number of residues. The positions marked # are those that are important for the stable fold of the zinc finger. The final position can be either his or cys. The C2H2 zinc finger is composed of two short beta strands followed by an alpha helix. The amino terminal part of the helix binds the major groove in DNA binding zinc fingers. The accepted consensus binding sequence for Sp1 is usually defined by the asymmetric hexanucleotide core GGGCGG but this sequence does not include, among others, the GAG (=CTC) repeat that constitutes a high-affinity site for Sp1 binding to the wt1 promoter []. This entry represents the classical C2H2 zinc finger domain. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding, 0005622 intracellular; PDB: 2D9H_A 2EPC_A 1SP1_A 1VA3_A 2WBT_B 2ELR_A 2YTP_A 2YTT_A 1VA1_A 2ELO_A ....
Probab=94.40 E-value=0.017 Score=28.33 Aligned_cols=23 Identities=30% Similarity=0.515 Sum_probs=20.8
Q ss_pred CCCCCCccccccchhhhhhHHHh
Q psy4190 21 HQCPSCLFEDNQKGKLTRHLLSC 43 (90)
Q Consensus 21 HQCP~CPFEDN~KgKLtRH~isC 43 (90)
|+|+.|...-+.++.|.+|+..|
T Consensus 1 y~C~~C~~~f~~~~~l~~H~~~H 23 (23)
T PF00096_consen 1 YKCPICGKSFSSKSNLKRHMRRH 23 (23)
T ss_dssp EEETTTTEEESSHHHHHHHHHHH
T ss_pred CCCCCCCCccCCHHHHHHHHhHC
Confidence 68999999999999999999763
No 4
>smart00355 ZnF_C2H2 zinc finger.
Probab=91.39 E-value=0.16 Score=23.73 Aligned_cols=21 Identities=29% Similarity=0.498 Sum_probs=19.5
Q ss_pred CCCCCCccccccchhhhhhHH
Q psy4190 21 HQCPSCLFEDNQKGKLTRHLL 41 (90)
Q Consensus 21 HQCP~CPFEDN~KgKLtRH~i 41 (90)
++|+.|...-+.+..|.+|+.
T Consensus 1 ~~C~~C~~~f~~~~~l~~H~~ 21 (26)
T smart00355 1 YRCPECGKVFKSKSALKEHMR 21 (26)
T ss_pred CCCCCCcchhCCHHHHHHHHH
Confidence 689999999999999999986
No 5
>PHA00732 hypothetical protein
Probab=87.96 E-value=0.28 Score=31.90 Aligned_cols=28 Identities=36% Similarity=0.688 Sum_probs=24.3
Q ss_pred CCCCCCccccccchhhhhhHHH---------hhhhcc
Q psy4190 21 HQCPSCLFEDNQKGKLTRHLLS---------CAKKYR 48 (90)
Q Consensus 21 HQCP~CPFEDN~KgKLtRH~is---------CaKKF~ 48 (90)
|+|+.|...-+.++.|.+|+.. |+|.|.
T Consensus 2 y~C~~Cgk~F~s~s~Lk~H~r~~H~~~~C~~CgKsF~ 38 (79)
T PHA00732 2 FKCPICGFTTVTLFALKQHARRNHTLTKCPVCNKSYR 38 (79)
T ss_pred ccCCCCCCccCCHHHHHHHhhcccCCCccCCCCCEeC
Confidence 6899999999999999999864 777776
No 6
>PHA00616 hypothetical protein
Probab=85.71 E-value=0.32 Score=29.63 Aligned_cols=24 Identities=33% Similarity=0.366 Sum_probs=21.7
Q ss_pred CCCCCCccccccchhhhhhHHHhh
Q psy4190 21 HQCPSCLFEDNQKGKLTRHLLSCA 44 (90)
Q Consensus 21 HQCP~CPFEDN~KgKLtRH~isCa 44 (90)
+|||-|.-.-..|+-|++|+.+=.
T Consensus 2 YqC~~CG~~F~~~s~l~~H~r~~h 25 (44)
T PHA00616 2 YQCLRCGGIFRKKKEVIEHLLSVH 25 (44)
T ss_pred CccchhhHHHhhHHHHHHHHHHhc
Confidence 799999999999999999997644
No 7
>PF05253 zf-U11-48K: U11-48K-like CHHC zinc finger; InterPro: IPR022776 This zinc binding domain [] has four conserved zinc chelating residues in a CHHC pattern. This domain is predicted to have an RNA-binding function []. ; PDB: 2VY5_A 2VY4_A.
Probab=84.05 E-value=0.91 Score=24.33 Aligned_cols=20 Identities=20% Similarity=0.703 Sum_probs=14.6
Q ss_pred Cccccc---cchhhhhhHHHhhh
Q psy4190 26 CLFEDN---QKGKLTRHLLSCAK 45 (90)
Q Consensus 26 CPFEDN---~KgKLtRH~isCaK 45 (90)
|||..+ -+.+|.+|+..|.+
T Consensus 5 CPyn~~H~v~~~~l~~Hi~~C~~ 27 (27)
T PF05253_consen 5 CPYNPSHRVPASELQKHIKKCPD 27 (27)
T ss_dssp -TTTSS-EEEGGGHHHHHHHHH-
T ss_pred CCCCCCcCcCHHHHHHHHHHcCC
Confidence 666554 57899999999975
No 8
>cd00608 GalT Galactose-1-phosphate uridyl transferase (GalT): This enzyme plays a key role in galactose metabolism by catalysing the transfer of a uridine 5'-phosphoryl group from UDP-galactose 1-phosphate. The structure of E.coli GalT reveals that the enzyme contains two identical subunits. It also demonstrates that the active site is formed by amino acid residues from both subunits of the dimer.
Probab=76.65 E-value=3.1 Score=32.01 Aligned_cols=20 Identities=40% Similarity=0.524 Sum_probs=17.4
Q ss_pred CCeeEeecCCceeEEEEeee
Q psy4190 59 GPLFTIAEDSGFCWVLQFSL 78 (90)
Q Consensus 59 ~~~~~~~~~~~~~~~~~~~~ 78 (90)
.+||......|.|-|+-||=
T Consensus 82 ~~l~~~~~~~G~~eVii~sp 101 (329)
T cd00608 82 DGLFRTAPARGRCEVICFSP 101 (329)
T ss_pred CcccccCCcceeEEEEEECC
Confidence 57899999999999998873
No 9
>PF15269 zf-C2H2_7: Zinc-finger
Probab=76.28 E-value=1.8 Score=27.92 Aligned_cols=26 Identities=31% Similarity=0.502 Sum_probs=22.6
Q ss_pred cCCCCCCCCCCccccccchhhhhhHH
Q psy4190 16 KAPAFHQCPSCLFEDNQKGKLTRHLL 41 (90)
Q Consensus 16 r~p~~HQCP~CPFEDN~KgKLtRH~i 41 (90)
--|-.|||=.|||.-|.|+.|-.||.
T Consensus 16 gkp~~ykcfqcpftc~~kshl~nhmk 41 (54)
T PF15269_consen 16 GKPFKYKCFQCPFTCNEKSHLFNHMK 41 (54)
T ss_pred CCCccceeecCCcccchHHHHHHHHH
Confidence 34567999999999999999999984
No 10
>PF13913 zf-C2HC_2: zinc-finger of a C2HC-type
Probab=75.34 E-value=2.5 Score=22.26 Aligned_cols=24 Identities=25% Similarity=0.523 Sum_probs=18.1
Q ss_pred CCCCCCCccccccchhhhhhHHHhh
Q psy4190 20 FHQCPSCLFEDNQKGKLTRHLLSCA 44 (90)
Q Consensus 20 ~HQCP~CPFEDN~KgKLtRH~isCa 44 (90)
..+||.|.=.- ....|.+|+..|.
T Consensus 2 l~~C~~CgR~F-~~~~l~~H~~~C~ 25 (25)
T PF13913_consen 2 LVPCPICGRKF-NPDRLEKHEKICK 25 (25)
T ss_pred CCcCCCCCCEE-CHHHHHHHHHhcC
Confidence 46899997554 4567999999884
No 11
>COG2888 Predicted Zn-ribbon RNA-binding protein with a function in translation [Translation, ribosomal structure and biogenesis]
Probab=72.55 E-value=1.5 Score=28.82 Aligned_cols=13 Identities=38% Similarity=0.784 Sum_probs=10.1
Q ss_pred CCCCCCCCCcccc
Q psy4190 18 PAFHQCPSCLFED 30 (90)
Q Consensus 18 p~~HQCP~CPFED 30 (90)
-.-|+||+|.||-
T Consensus 48 g~~Y~Cp~CGF~G 60 (61)
T COG2888 48 GNPYRCPKCGFEG 60 (61)
T ss_pred CCceECCCcCccC
Confidence 3568999999973
No 12
>PF08209 Sgf11: Sgf11 (transcriptional regulation protein); InterPro: IPR013246 The Sgf11 family is a SAGA complex subunit in Saccharomyces cerevisiae (Baker's yeast). The SAGA complex is a multisubunit protein complex involved in transcriptional regulation. SAGA combines proteins involved in interactions with DNA-bound activators and TATA-binding protein (TBP), as well as enzymes for histone acetylation and deubiquitylation [].; PDB: 3M99_B 2LO2_A 3MHH_C 3MHS_C.
Probab=72.27 E-value=2.2 Score=24.48 Aligned_cols=25 Identities=24% Similarity=0.646 Sum_probs=18.8
Q ss_pred CCCCCCCCccccccchhhhhhHHHhh
Q psy4190 19 AFHQCPSCLFEDNQKGKLTRHLLSCA 44 (90)
Q Consensus 19 ~~HQCP~CPFEDN~KgKLtRH~isCa 44 (90)
.+.+||||.= .=..+..+-|+-.|.
T Consensus 3 ~~~~C~nC~R-~v~a~RfA~HLekCm 27 (33)
T PF08209_consen 3 PYVECPNCGR-PVAASRFAPHLEKCM 27 (33)
T ss_dssp -EEE-TTTSS-EEEGGGHHHHHHHHT
T ss_pred CeEECCCCcC-CcchhhhHHHHHHHH
Confidence 5689999986 345688999999996
No 13
>PRK11720 galactose-1-phosphate uridylyltransferase; Provisional
Probab=70.44 E-value=4 Score=32.32 Aligned_cols=21 Identities=33% Similarity=0.571 Sum_probs=17.4
Q ss_pred CCCCeeEeecCCceeEEEEee
Q psy4190 57 GEGPLFTIAEDSGFCWVLQFS 77 (90)
Q Consensus 57 ~~~~~~~~~~~~~~~~~~~~~ 77 (90)
.+.++|......|.|-|+-||
T Consensus 92 ~~~~l~~~~~~~G~~eViv~s 112 (346)
T PRK11720 92 SDDPLFRCQSARGTSRVICFS 112 (346)
T ss_pred ccCcccccCccceEEEEEEEC
Confidence 335688888899999999887
No 14
>PHA00733 hypothetical protein
Probab=68.98 E-value=1.8 Score=29.86 Aligned_cols=23 Identities=26% Similarity=0.478 Sum_probs=19.9
Q ss_pred CCCCCCCCccccccchhhhhhHH
Q psy4190 19 AFHQCPSCLFEDNQKGKLTRHLL 41 (90)
Q Consensus 19 ~~HQCP~CPFEDN~KgKLtRH~i 41 (90)
..++|+.|+-.-..++.|.+|+.
T Consensus 72 kPy~C~~Cgk~Fss~s~L~~H~r 94 (128)
T PHA00733 72 SPYVCPLCLMPFSSSVSLKQHIR 94 (128)
T ss_pred CCccCCCCCCcCCCHHHHHHHHh
Confidence 34799999999999999999986
No 15
>PF05605 zf-Di19: Drought induced 19 protein (Di19), zinc-binding; InterPro: IPR008598 This entry consists of several drought induced 19 (Di19) like and RING finger 114 proteins. Di19 has been found to be strongly expressed in both the roots and leaves of Arabidopsis thaliana during progressive drought [], whilst RING finger proteins are thought to play a role in spermatogenesis. The precise function is unknown.
Probab=65.69 E-value=5.7 Score=23.23 Aligned_cols=23 Identities=22% Similarity=0.300 Sum_probs=17.3
Q ss_pred CCCCCCCccccccchhhhhhHHHh
Q psy4190 20 FHQCPSCLFEDNQKGKLTRHLLSC 43 (90)
Q Consensus 20 ~HQCP~CPFEDN~KgKLtRH~isC 43 (90)
.+.||.|.- +=....|.+|+..-
T Consensus 2 ~f~CP~C~~-~~~~~~L~~H~~~~ 24 (54)
T PF05605_consen 2 SFTCPYCGK-GFSESSLVEHCEDE 24 (54)
T ss_pred CcCCCCCCC-ccCHHHHHHHHHhH
Confidence 478999998 44556799997653
No 16
>PF07754 DUF1610: Domain of unknown function (DUF1610); InterPro: IPR011668 This domain is found in archaeal species. It is likely to bind zinc via its four well-conserved cysteine residues.
Probab=65.14 E-value=2.9 Score=22.84 Aligned_cols=10 Identities=40% Similarity=1.002 Sum_probs=8.1
Q ss_pred CCCCCCCCcc
Q psy4190 19 AFHQCPSCLF 28 (90)
Q Consensus 19 ~~HQCP~CPF 28 (90)
.-|.||+|.|
T Consensus 15 v~f~CPnCG~ 24 (24)
T PF07754_consen 15 VPFPCPNCGF 24 (24)
T ss_pred ceEeCCCCCC
Confidence 4588999976
No 17
>PRK14890 putative Zn-ribbon RNA-binding protein; Provisional
Probab=57.20 E-value=4.6 Score=26.16 Aligned_cols=13 Identities=38% Similarity=0.789 Sum_probs=9.8
Q ss_pred CCCCCCCCCCccc
Q psy4190 17 APAFHQCPSCLFE 29 (90)
Q Consensus 17 ~p~~HQCP~CPFE 29 (90)
--..|.||+|.|+
T Consensus 45 ~~~~Y~CP~CGF~ 57 (59)
T PRK14890 45 QSNPYTCPKCGFE 57 (59)
T ss_pred cCCceECCCCCCc
Confidence 3456889999887
No 18
>smart00734 ZnF_Rad18 Rad18-like CCHC zinc finger. Yeast Rad18p functions with Rad5p in error-free post-replicative DNA repair. This zinc finger is likely to bind nucleic-acids.
Probab=56.46 E-value=9.4 Score=20.36 Aligned_cols=22 Identities=41% Similarity=0.786 Sum_probs=16.8
Q ss_pred CCCCCCccccccchhhhhhHHHh
Q psy4190 21 HQCPSCLFEDNQKGKLTRHLLSC 43 (90)
Q Consensus 21 HQCP~CPFEDN~KgKLtRH~isC 43 (90)
-+||-|-=.- ....+.+|+-+|
T Consensus 2 v~CPiC~~~v-~~~~in~HLD~C 23 (26)
T smart00734 2 VQCPVCFREV-PENLINSHLDSC 23 (26)
T ss_pred CcCCCCcCcc-cHHHHHHHHHHh
Confidence 3799995554 457899999988
No 19
>PF12756 zf-C2H2_2: C2H2 type zinc-finger (2 copies); PDB: 2DMI_A.
Probab=55.54 E-value=6.3 Score=23.29 Aligned_cols=24 Identities=25% Similarity=0.401 Sum_probs=20.8
Q ss_pred CCCCCCCccccccchhhhhhHHHh
Q psy4190 20 FHQCPSCLFEDNQKGKLTRHLLSC 43 (90)
Q Consensus 20 ~HQCP~CPFEDN~KgKLtRH~isC 43 (90)
.+.|+.|...-.....|.+||.+=
T Consensus 50 ~~~C~~C~~~f~s~~~l~~Hm~~~ 73 (100)
T PF12756_consen 50 SFRCPYCNKTFRSREALQEHMRSK 73 (100)
T ss_dssp SEEBSSSS-EESSHHHHHHHHHHT
T ss_pred CCCCCccCCCCcCHHHHHHHHcCc
Confidence 489999999999999999999863
No 20
>TIGR00209 galT_1 galactose-1-phosphate uridylyltransferase, family 1. This enzyme is involved in glucose and galactose interconversion. This model describes one of two extremely distantly related branches of the model pfam01087 from PFAM.
Probab=54.17 E-value=20 Score=28.46 Aligned_cols=20 Identities=30% Similarity=0.420 Sum_probs=17.0
Q ss_pred CCeeEeecCCceeEEEEeee
Q psy4190 59 GPLFTIAEDSGFCWVLQFSL 78 (90)
Q Consensus 59 ~~~~~~~~~~~~~~~~~~~~ 78 (90)
.+||......|.|-|+-||=
T Consensus 94 ~~l~~~~~~~G~~eVii~sp 113 (347)
T TIGR00209 94 DPLMRCQSARGTSRVICFSP 113 (347)
T ss_pred CcccccCCCCeeEEEEEeCC
Confidence 56888888999999998863
No 21
>PF02176 zf-TRAF: TRAF-type zinc finger; PDB: 2EOD_A 2YUC_A 3HCU_A 3HCS_B 3HCT_A.
Probab=51.97 E-value=6.4 Score=22.47 Aligned_cols=26 Identities=35% Similarity=0.691 Sum_probs=18.2
Q ss_pred CCCCC-CccccccchhhhhhHH-Hhhhh
Q psy4190 21 HQCPS-CLFEDNQKGKLTRHLL-SCAKK 46 (90)
Q Consensus 21 HQCP~-CPFEDN~KgKLtRH~i-sCaKK 46 (90)
-+||+ |--+.-.+..|..|+. .|.++
T Consensus 10 v~C~~~cc~~~i~r~~l~~H~~~~C~~~ 37 (60)
T PF02176_consen 10 VPCPNGCCNEMIPRKELDDHLENECPKR 37 (60)
T ss_dssp EE-TT--S-BEEECCCHHHHHHTTSTTS
T ss_pred eeCCCCCcccceeHHHHHHHHHccCCCC
Confidence 46777 5556667889999999 89876
No 22
>cd07322 PriL_PriS_Eukaryotic Eukaryotic core primase: Large subunit, PriL. Primases synthesize the RNA primers required for DNA replication. Primases are grouped into two classes, bacteria/bacteriophage and archaeal/eukaryotic. The proteins in the two classes differ in structure and the replication apparatus components. Archaeal/eukaryotic core primase is a heterodimeric enzyme consisting of a small catalytic subunit (PriS) and a large subunit (PriL). In eukaryotic organisms, a heterotetrameric enzyme formed by DNA polymerase alpha, the B subunit and two primase subunits has primase activity. Although the catalytic activity resides within PriS, the PriL subunit is essential for primase function as disruption of the PriL gene in yeast is lethal. PriL is composed of two structural domains. Several functions have been proposed for PriL such as stabilization of the PriS, involvement in synthesis initiation, improvement of primase processivity, determination of product size and transfer of
Probab=48.27 E-value=9.2 Score=31.09 Aligned_cols=37 Identities=24% Similarity=0.464 Sum_probs=25.8
Q ss_pred CCCCCCCCCCcccc----ccchhhhhh-------------------HHHhhhhccCCccC
Q psy4190 17 APAFHQCPSCLFED----NQKGKLTRH-------------------LLSCAKKYRPERNQ 53 (90)
Q Consensus 17 ~p~~HQCP~CPFED----N~KgKLtRH-------------------~isCaKKF~pe~Nl 53 (90)
+|..-+|--|||-+ +.+.+|... +++|.|.|.---+-
T Consensus 314 ~p~~g~~HGCPfr~~~~~~L~~~L~~~~~~~~~i~~I~~~~~~~~yq~AC~~~Fe~~h~~ 373 (390)
T cd07322 314 PPGPGDCHGCPFRHFDSDSLKQLLQSYGLSDSDIEEIIDLVKSGHYQLACTKYFELTHPG 373 (390)
T ss_pred CCCCCCcCCCCCCCCCHHHHHHHHHhcCCCHHHHHHHHHHHhcCCccHHHHHHHHHHcCC
Confidence 47777888888865 455555554 67999999755443
No 23
>PLN03086 PRLI-interacting factor K; Provisional
Probab=46.41 E-value=13 Score=32.26 Aligned_cols=10 Identities=20% Similarity=0.498 Sum_probs=5.5
Q ss_pred hhhhhHHHhh
Q psy4190 35 KLTRHLLSCA 44 (90)
Q Consensus 35 KLtRH~isCa 44 (90)
.|+.|...|.
T Consensus 529 ~Lt~HE~~CG 538 (567)
T PLN03086 529 GMSEHESICG 538 (567)
T ss_pred hHHHHHHhcC
Confidence 5555655553
No 24
>PF13912 zf-C2H2_6: C2H2-type zinc finger; PDB: 1JN7_A 1FU9_A 2L1O_A 1NJQ_A 2EN8_A 2EMM_A 1FV5_A 1Y0J_B 2L6Z_B.
Probab=43.74 E-value=9.1 Score=18.96 Aligned_cols=20 Identities=20% Similarity=0.316 Sum_probs=17.5
Q ss_pred CCCCCCccccccchhhhhhH
Q psy4190 21 HQCPSCLFEDNQKGKLTRHL 40 (90)
Q Consensus 21 HQCP~CPFEDN~KgKLtRH~ 40 (90)
|+|..|.-.-+....|.+|+
T Consensus 2 ~~C~~C~~~F~~~~~l~~H~ 21 (27)
T PF13912_consen 2 FECDECGKTFSSLSALREHK 21 (27)
T ss_dssp EEETTTTEEESSHHHHHHHH
T ss_pred CCCCccCCccCChhHHHHHh
Confidence 78999988888888899997
No 25
>COG1326 Uncharacterized archaeal Zn-finger protein [General function prediction only]
Probab=42.46 E-value=9.1 Score=29.87 Aligned_cols=12 Identities=42% Similarity=0.952 Sum_probs=10.2
Q ss_pred CCCCCCCccccc
Q psy4190 20 FHQCPSCLFEDN 31 (90)
Q Consensus 20 ~HQCP~CPFEDN 31 (90)
|.+||+|.+|+-
T Consensus 6 y~~Cp~Cg~eev 17 (201)
T COG1326 6 YIECPSCGSEEV 17 (201)
T ss_pred EEECCCCCcchh
Confidence 679999998876
No 26
>PRK06266 transcription initiation factor E subunit alpha; Validated
Probab=42.16 E-value=11 Score=27.42 Aligned_cols=13 Identities=38% Similarity=0.943 Sum_probs=10.6
Q ss_pred ccCCCCCCCCCCc
Q psy4190 15 EKAPAFHQCPSCL 27 (90)
Q Consensus 15 Er~p~~HQCP~CP 27 (90)
|..+.||.||+|.
T Consensus 112 e~~~~~Y~Cp~C~ 124 (178)
T PRK06266 112 EENNMFFFCPNCH 124 (178)
T ss_pred ccCCCEEECCCCC
Confidence 4568899999995
No 27
>KOG2462|consensus
Probab=38.72 E-value=18 Score=29.29 Aligned_cols=31 Identities=19% Similarity=0.321 Sum_probs=25.8
Q ss_pred CCCCCCCCCccccccchhhhhhHHH---------hhhhcc
Q psy4190 18 PAFHQCPSCLFEDNQKGKLTRHLLS---------CAKKYR 48 (90)
Q Consensus 18 p~~HQCP~CPFEDN~KgKLtRH~is---------CaKKF~ 48 (90)
+.-++|+.|+=+--..+-|++|+.. |+|.|.
T Consensus 159 ~ka~~C~~C~K~YvSmpALkMHirTH~l~c~C~iCGKaFS 198 (279)
T KOG2462|consen 159 KKAFSCKYCGKVYVSMPALKMHIRTHTLPCECGICGKAFS 198 (279)
T ss_pred cccccCCCCCceeeehHHHhhHhhccCCCccccccccccc
Confidence 5667899999999999999999863 788884
No 28
>PF05129 Elf1: Transcription elongation factor Elf1 like; InterPro: IPR007808 This family of uncharacterised, mostly short, proteins contain a putative zinc binding domain with four conserved cysteines.; PDB: 1WII_A.
Probab=37.65 E-value=12 Score=24.43 Aligned_cols=24 Identities=29% Similarity=0.573 Sum_probs=8.3
Q ss_pred ccccCCCCCCCCCCccccccchhh
Q psy4190 13 RLEKAPAFHQCPSCLFEDNQKGKL 36 (90)
Q Consensus 13 RlEr~p~~HQCP~CPFEDN~KgKL 36 (90)
+..+.|..++||+|--++..--++
T Consensus 15 ~~~~l~~~F~CPfC~~~~sV~v~i 38 (81)
T PF05129_consen 15 KKPKLPKVFDCPFCNHEKSVSVKI 38 (81)
T ss_dssp -----SS----TTT--SS-EEEEE
T ss_pred cCCCCCceEcCCcCCCCCeEEEEE
Confidence 355778999999999776554444
No 29
>TIGR00373 conserved hypothetical protein TIGR00373. This family of proteins is, so far, restricted to archaeal genomes. The family appears to be distantly related to the N-terminal region of the eukaryotic transcription initiation factor IIE alpha chain.
Probab=37.20 E-value=15 Score=26.06 Aligned_cols=14 Identities=29% Similarity=0.584 Sum_probs=11.2
Q ss_pred ccCCCCCCCCCCcc
Q psy4190 15 EKAPAFHQCPSCLF 28 (90)
Q Consensus 15 Er~p~~HQCP~CPF 28 (90)
+..+.+|.||+|.-
T Consensus 104 e~~~~~Y~Cp~c~~ 117 (158)
T TIGR00373 104 ETNNMFFICPNMCV 117 (158)
T ss_pred ccCCCeEECCCCCc
Confidence 44689999999973
No 30
>PRK08351 DNA-directed RNA polymerase subunit E''; Validated
Probab=36.28 E-value=18 Score=23.21 Aligned_cols=9 Identities=44% Similarity=1.073 Sum_probs=8.0
Q ss_pred CCCCCcccc
Q psy4190 22 QCPSCLFED 30 (90)
Q Consensus 22 QCP~CPFED 30 (90)
+||+|..+|
T Consensus 17 ~CP~Cgs~~ 25 (61)
T PRK08351 17 RCPVCGSRD 25 (61)
T ss_pred cCCCCcCCc
Confidence 799999877
No 31
>PHA02768 hypothetical protein; Provisional
Probab=36.17 E-value=29 Score=21.92 Aligned_cols=30 Identities=17% Similarity=0.173 Sum_probs=24.2
Q ss_pred CCCCCCCCCccccccchhhhhhHHHhhhhc
Q psy4190 18 PAFHQCPSCLFEDNQKGKLTRHLLSCAKKY 47 (90)
Q Consensus 18 p~~HQCP~CPFEDN~KgKLtRH~isCaKKF 47 (90)
.--|+|+-|.=.-..+.-|++|+..=.|.|
T Consensus 3 ~~~y~C~~CGK~Fs~~~~L~~H~r~H~k~~ 32 (55)
T PHA02768 3 LLGYECPICGEIYIKRKSMITHLRKHNTNL 32 (55)
T ss_pred ccccCcchhCCeeccHHHHHHHHHhcCCcc
Confidence 345799999999999999999998755433
No 32
>KOG3970|consensus
Probab=35.43 E-value=21 Score=29.38 Aligned_cols=15 Identities=53% Similarity=0.747 Sum_probs=12.7
Q ss_pred cCCCCCCCCCCcccc
Q psy4190 16 KAPAFHQCPSCLFED 30 (90)
Q Consensus 16 r~p~~HQCP~CPFED 30 (90)
-||+-||||.|--|-
T Consensus 90 TAPaGyqCP~Cs~ei 104 (299)
T KOG3970|consen 90 TAPAGYQCPCCSQEI 104 (299)
T ss_pred CCCCcccCCCCCCcc
Confidence 489999999997764
No 33
>KOG1146|consensus
Probab=35.09 E-value=19 Score=34.90 Aligned_cols=32 Identities=22% Similarity=0.396 Sum_probs=27.1
Q ss_pred CCCCCCCCCCccccccchhhhhhHHHhhhhcc
Q psy4190 17 APAFHQCPSCLFEDNQKGKLTRHLLSCAKKYR 48 (90)
Q Consensus 17 ~p~~HQCP~CPFEDN~KgKLtRH~isCaKKF~ 48 (90)
+=.-++|-.|-.+.-.|++|.+||.+|--+=.
T Consensus 515 ~~~p~~C~~C~~stttng~LsihlqS~~h~~~ 546 (1406)
T KOG1146|consen 515 PGKPYPCRACNYSTTTNGNLSIHLQSDLHRNE 546 (1406)
T ss_pred CCCcccceeeeeeeecchHHHHHHHHHhhHHH
Confidence 44568999999999999999999999965543
No 34
>PRK00464 nrdR transcriptional regulator NrdR; Validated
Probab=34.55 E-value=15 Score=26.61 Aligned_cols=13 Identities=15% Similarity=0.248 Sum_probs=9.8
Q ss_pred CCCCCCCcccccc
Q psy4190 20 FHQCPSCLFEDNQ 32 (90)
Q Consensus 20 ~HQCP~CPFEDN~ 32 (90)
++|||+|.+--+.
T Consensus 28 ~~~c~~c~~~f~~ 40 (154)
T PRK00464 28 RRECLACGKRFTT 40 (154)
T ss_pred eeeccccCCcceE
Confidence 5999999875443
No 35
>PF04423 Rad50_zn_hook: Rad50 zinc hook motif; InterPro: IPR007517 The Mre11 complex (Mre11 Rad50 Nbs1) is central to chromosomal maintenance and functions in homologous recombination, telomere maintenance and sister chromatid association. The Rad50 coiled-coil region contains a dimer interface at the apex of the coiled coils in which pairs of conserved Cys-X-X-Cys motifs form interlocking hooks that bind one Zn ion. This alignment includes the zinc hook motif and a short stretch of coiled-coil on either side.; GO: 0004518 nuclease activity, 0005524 ATP binding, 0008270 zinc ion binding, 0006281 DNA repair; PDB: 1L8D_B.
Probab=34.33 E-value=16 Score=21.39 Aligned_cols=20 Identities=20% Similarity=0.680 Sum_probs=13.9
Q ss_pred CCCCC--ccccccchhhhhhHH
Q psy4190 22 QCPSC--LFEDNQKGKLTRHLL 41 (90)
Q Consensus 22 QCP~C--PFEDN~KgKLtRH~i 41 (90)
-||.| ||.+.-+.+|.++..
T Consensus 22 ~CPlC~r~l~~e~~~~li~~~~ 43 (54)
T PF04423_consen 22 CCPLCGRPLDEEHRQELIKKYK 43 (54)
T ss_dssp E-TTT--EE-HHHHHHHHHHHH
T ss_pred cCCCCCCCCCHHHHHHHHHHHH
Confidence 79999 688887777777654
No 36
>PF06093 Spt4: Spt4/RpoE2 zinc finger; InterPro: IPR022800 This entry consists of several eukaryotic transcription elongation Spt4 proteins as well as archaebacterial RpoE2 []. Three transcription-elongation factors Spt4, Spt5, and Spt6 are conserved among eukaryotes and are essential for transcription via the modulation of chromatin structure. Spt4 and Spt5 are tightly associated in a complex, while the physical association of the Spt4-Spt5 complex with Spt6 is considerably weaker. It has been demonstrated that Spt4, Spt5, and Spt6 play roles in transcription elongation in both yeast and humans including a role in activation by Tat. It is known that Spt4, Spt5, and Spt6 are general transcription-elongation factors, controlling transcription both positively and negatively in important regulatory and developmental roles []. RpoE2 is one of 13 subunits in the archaeal RNA polymerase. These proteins contain a C4-type zinc finger, and the structure has been solved in []. The structure reveals that Spt4-Spt5 binding is governed by an acid-dipole interaction between Spt5 and Spt4, and the complex binds to and travels along the elongating RNA polymerase. The Spt4-Spt5 complex is likely to be an ancient, core component of the transcription elongation machinery. ; PDB: 2EXU_A 3H7H_A 3LPE_F 3P8B_A 1RYQ_A 3QQC_E.
Probab=34.14 E-value=12 Score=24.47 Aligned_cols=7 Identities=57% Similarity=1.673 Sum_probs=4.0
Q ss_pred CCCCCcc
Q psy4190 22 QCPSCLF 28 (90)
Q Consensus 22 QCP~CPF 28 (90)
.||||+|
T Consensus 20 gCpnC~~ 26 (77)
T PF06093_consen 20 GCPNCPF 26 (77)
T ss_dssp --TTTHH
T ss_pred CCCCCcc
Confidence 5999954
No 37
>TIGR00244 transcriptional regulator NrdR. Members of this almost entirely bacterial family contain an ATP cone domain (PFAM:PF03477). There is never more than one member per genome. Common gene symbols given include nrdR, ybaD, ribX and ytcG. The member from Streptomyces coelicolor is found upstream in the operon of the class II oxygen-independent ribonucleotide reductase gene nrdJ and was shown to repress nrdJ expression. Many members of this family are found near genes for riboflavin biosynthesis in Gram-negative bacteria, suggesting a role in that pathway. However, a phylogenetic profiling study associates members of this family with the presence of a palindromic signal with consensus acaCwAtATaTwGtgt, termed the NrdR-box, an upstream element for most operons for ribonucleotide reductase of all three classes in bacterial genomes.
Probab=34.08 E-value=15 Score=27.24 Aligned_cols=28 Identities=21% Similarity=0.657 Sum_probs=19.2
Q ss_pred CCCCCcccccc-----------chhhhhhHHHhhhhccC
Q psy4190 22 QCPSCLFEDNQ-----------KGKLTRHLLSCAKKYRP 49 (90)
Q Consensus 22 QCP~CPFEDN~-----------KgKLtRH~isCaKKF~p 49 (90)
+||+|..+|.. .-+=.|.=.+|.++|.-
T Consensus 2 ~CP~C~~~dtkViDSR~~~dg~~IRRRReC~~C~~RFTT 40 (147)
T TIGR00244 2 HCPFCQHHNTRVLDSRLVEDGQSIRRRRECLECHERFTT 40 (147)
T ss_pred CCCCCCCCCCEeeeccccCCCCeeeecccCCccCCccce
Confidence 69999986542 12234677899999964
No 38
>PF08149 BING4CT: BING4CT (NUC141) domain; InterPro: IPR012952 WD-40 repeats (also known as WD or beta-transducin repeats) are short ~40 amino acid motifs, often terminating in a Trp-Asp (W-D) dipeptide. WD40 repeats usually assume a 7-8 bladed beta-propeller fold, but proteins have been found with 4 to 16 repeated units, which also form a circularised beta-propeller structure. WD-repeat proteins are a large family found in all eukaryotes and are implicated in a variety of functions ranging from signal transduction and transcription regulation to cell cycle control and apoptosis. Repeated WD40 motifs act as a site for protein-protein interaction, and proteins containing WD40 repeats are known to serve as platforms for the assembly of protein complexes or mediators of transient interplay among other proteins. The specificity of the proteins is determined by the sequences outside the repeats themselves. Examples of such complexes are G proteins (beta subunit is a beta-propeller), TAFII transcription factor, and E3 ubiquitin ligase [, ]. In Arabidopsis spp., several WD40-containing proteins act as key regulators of plant-specific developmental events. This C-terminal domain is found in the BING4 family of nucleolar WD40 repeat proteins [].
Probab=33.05 E-value=10 Score=25.80 Aligned_cols=13 Identities=31% Similarity=0.416 Sum_probs=9.6
Q ss_pred CCCCCCCcccccc
Q psy4190 20 FHQCPSCLFEDNQ 32 (90)
Q Consensus 20 ~HQCP~CPFEDN~ 32 (90)
-..+-+|||||=.
T Consensus 12 v~~~~F~PfEDvL 24 (80)
T PF08149_consen 12 VESLRFCPFEDVL 24 (80)
T ss_pred eeeeEEechHHee
Confidence 3567789999953
No 39
>PRK15202 type III secretion chaperone protein SigE; Provisional
Probab=33.03 E-value=19 Score=26.26 Aligned_cols=13 Identities=31% Similarity=0.401 Sum_probs=10.9
Q ss_pred CCCCCccccccch
Q psy4190 22 QCPSCLFEDNQKG 34 (90)
Q Consensus 22 QCP~CPFEDN~Kg 34 (90)
-||+||+-||.-.
T Consensus 43 ~CPf~~LPdn~~~ 55 (117)
T PRK15202 43 CCPFMPLPDNILT 55 (117)
T ss_pred cCCcccCCccHHH
Confidence 5999999999653
No 40
>PRK14892 putative transcription elongation factor Elf1; Provisional
Probab=32.48 E-value=12 Score=25.63 Aligned_cols=36 Identities=22% Similarity=0.286 Sum_probs=22.1
Q ss_pred ccCCCCCCCCCCcccccc-----chhhhhhHHHhhhhccCCc
Q psy4190 15 EKAPAFHQCPSCLFEDNQ-----KGKLTRHLLSCAKKYRPER 51 (90)
Q Consensus 15 Er~p~~HQCP~CPFEDN~-----KgKLtRH~isCaKKF~pe~ 51 (90)
.+.|.++.||+|. +.-. |++..+.=..|.-+|.-.+
T Consensus 16 ~klpt~f~CP~Cg-e~~v~v~~~k~~~h~~C~~CG~y~~~~V 56 (99)
T PRK14892 16 PKLPKIFECPRCG-KVSISVKIKKNIAIITCGNCGLYTEFEV 56 (99)
T ss_pred cCCCcEeECCCCC-CeEeeeecCCCcceEECCCCCCccCEEC
Confidence 4568899999998 4322 2233444456777765543
No 41
>COG1997 RPL43A Ribosomal protein L37AE/L43A [Translation, ribosomal structure and biogenesis]
Probab=30.95 E-value=24 Score=24.58 Aligned_cols=13 Identities=38% Similarity=0.580 Sum_probs=10.3
Q ss_pred CCCCCCCCCCccc
Q psy4190 17 APAFHQCPSCLFE 29 (90)
Q Consensus 17 ~p~~HQCP~CPFE 29 (90)
.-+-|+||+|...
T Consensus 32 ~~~~~~Cp~C~~~ 44 (89)
T COG1997 32 QRAKHVCPFCGRT 44 (89)
T ss_pred HhcCCcCCCCCCc
Confidence 3467999999876
No 42
>COG1085 GalT Galactose-1-phosphate uridylyltransferase [Energy production and conversion]
Probab=30.64 E-value=56 Score=26.85 Aligned_cols=22 Identities=41% Similarity=0.507 Sum_probs=19.3
Q ss_pred CCCCCeeEeecCCceeEEEEee
Q psy4190 56 KGEGPLFTIAEDSGFCWVLQFS 77 (90)
Q Consensus 56 p~~~~~~~~~~~~~~~~~~~~~ 77 (90)
.+++|+|.+.+--|.|-|+-+|
T Consensus 80 ~~~~~~~~~~~~~g~~~VIves 101 (338)
T COG1085 80 GSEDPLFKIQEARGKSRVIVES 101 (338)
T ss_pred ccccchhcccccCcceEEEEEC
Confidence 3488999999999999999876
No 43
>PF03470 zf-XS: XS zinc finger domain; InterPro: IPR005381 This domain is a putative nucleic acid binding zinc finger and is found at the N terminus of proteins that also contain an adjacent XS domain IPR005380 from INTERPRO and in some proteins a C-terminal XH domain IPR005379 from INTERPRO.
Probab=30.40 E-value=23 Score=21.65 Aligned_cols=8 Identities=38% Similarity=0.916 Sum_probs=5.7
Q ss_pred CCCCcccc
Q psy4190 23 CPSCLFED 30 (90)
Q Consensus 23 CP~CPFED 30 (90)
||+||=..
T Consensus 1 CP~C~~kk 8 (43)
T PF03470_consen 1 CPFCPGKK 8 (43)
T ss_pred CCCCCCCC
Confidence 88888554
No 44
>COG1327 Predicted transcriptional regulator, consists of a Zn-ribbon and ATP-cone domains [Transcription]
Probab=29.62 E-value=24 Score=26.63 Aligned_cols=28 Identities=29% Similarity=0.694 Sum_probs=19.5
Q ss_pred CCCCCcccc-----------ccchhhhhhHHHhhhhccC
Q psy4190 22 QCPSCLFED-----------NQKGKLTRHLLSCAKKYRP 49 (90)
Q Consensus 22 QCP~CPFED-----------N~KgKLtRH~isCaKKF~p 49 (90)
.||+|.-+| +.--+=.|+-..|.++|.-
T Consensus 2 ~CPfC~~~~tkViDSR~~edg~aIRRRReC~~C~~RFTT 40 (156)
T COG1327 2 KCPFCGHEDTKVIDSRPAEEGNAIRRRRECLECGERFTT 40 (156)
T ss_pred CCCCCCCCCCeeeecccccccchhhhhhcccccccccch
Confidence 599996654 3344556778889999863
No 45
>smart00531 TFIIE Transcription initiation factor IIE.
Probab=29.32 E-value=22 Score=24.51 Aligned_cols=14 Identities=36% Similarity=0.866 Sum_probs=11.0
Q ss_pred ccCCCCCCCCCCcc
Q psy4190 15 EKAPAFHQCPSCLF 28 (90)
Q Consensus 15 Er~p~~HQCP~CPF 28 (90)
|....+|.||+|.-
T Consensus 94 e~~~~~Y~Cp~C~~ 107 (147)
T smart00531 94 ETNNAYYKCPNCQS 107 (147)
T ss_pred ccCCcEEECcCCCC
Confidence 45678999999973
No 46
>PF09237 GAGA: GAGA factor; InterPro: IPR015318 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. Members of this entry bind to a 5'-GAGAG-3' DNA consensus binding site, and contain a Cys2-His2 zinc finger core as well as an N-terminal extension containing two highly basic regions. The zinc finger core binds in the DNA major groove and recognises the first three GAG bases of the consensus in a manner similar to that seen in other classical zinc finger-DNA complexes. The second basic region forms a helix that interacts in the major groove recognising the last G of the consensus, while the first basic region wraps around the DNA in the minor groove and recognises the A in the fourth position of the consensus sequence []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; PDB: 1YUI_A 1YUJ_A.
Probab=29.16 E-value=28 Score=22.45 Aligned_cols=25 Identities=32% Similarity=0.430 Sum_probs=17.2
Q ss_pred CCCCCCCccccccchhhhhhH-HHhh
Q psy4190 20 FHQCPSCLFEDNQKGKLTRHL-LSCA 44 (90)
Q Consensus 20 ~HQCP~CPFEDN~KgKLtRH~-isCa 44 (90)
.+.||.|.-.-.+--.|.||+ +.=+
T Consensus 24 PatCP~C~a~~~~srnLrRHle~~H~ 49 (54)
T PF09237_consen 24 PATCPICGAVIRQSRNLRRHLEIRHF 49 (54)
T ss_dssp -EE-TTT--EESSHHHHHHHHHHHTT
T ss_pred CCCCCcchhhccchhhHHHHHHHHhc
Confidence 467999999999999999998 4433
No 47
>PF14206 Cys_rich_CPCC: Cysteine-rich CPCC
Probab=28.49 E-value=34 Score=22.73 Aligned_cols=20 Identities=35% Similarity=0.886 Sum_probs=15.3
Q ss_pred cccCCC--CCCCCCCccccccc
Q psy4190 14 LEKAPA--FHQCPSCLFEDNQK 33 (90)
Q Consensus 14 lEr~p~--~HQCP~CPFEDN~K 33 (90)
|+..+. |.-||-|-.||++-
T Consensus 12 l~~~~~~~ydIC~VC~WEdD~~ 33 (78)
T PF14206_consen 12 LEERGEGTYDICPVCFWEDDGV 33 (78)
T ss_pred eccCCCcCceECCCCCcccCCc
Confidence 444444 88999999999874
No 48
>KOG2817|consensus
Probab=28.42 E-value=26 Score=29.63 Aligned_cols=13 Identities=31% Similarity=0.677 Sum_probs=11.1
Q ss_pred CCCCCCCcccccc
Q psy4190 20 FHQCPSCLFEDNQ 32 (90)
Q Consensus 20 ~HQCP~CPFEDN~ 32 (90)
.+.||.||-|.+-
T Consensus 374 sfKCPYCP~e~~~ 386 (394)
T KOG2817|consen 374 SFKCPYCPVEQLA 386 (394)
T ss_pred eeeCCCCCcccCH
Confidence 6899999999764
No 49
>PF07150 DUF1390: Protein of unknown function (DUF1390); InterPro: IPR009820 This entry is represented by Paramecium bursaria Chlorella virus 1, A79R; it is a family of uncharacterised viral proteins.
Probab=27.76 E-value=14 Score=28.94 Aligned_cols=25 Identities=28% Similarity=0.753 Sum_probs=22.2
Q ss_pred CCCCCCCCccccccchhhhhhHH-Hhh
Q psy4190 19 AFHQCPSCLFEDNQKGKLTRHLL-SCA 44 (90)
Q Consensus 19 ~~HQCP~CPFEDN~KgKLtRH~i-sCa 44 (90)
.+|-| .|.+++..+|-++||-- +|.
T Consensus 6 ~lY~C-~CGYkT~~~gnAsKHkKtsC~ 31 (229)
T PF07150_consen 6 TLYTC-GCGYKTTNKGNASKHKKTSCG 31 (229)
T ss_pred EEEEe-cCCceecCCccccccCCCcCC
Confidence 47899 79999999999999987 665
No 50
>TIGR00269 conserved hypothetical protein TIGR00269.
Probab=27.29 E-value=65 Score=21.09 Aligned_cols=32 Identities=16% Similarity=0.204 Sum_probs=21.2
Q ss_pred CCCCCCCCCCccccccchhhhhhHHHhhhhccC
Q psy4190 17 APAFHQCPSCLFEDNQKGKLTRHLLSCAKKYRP 49 (90)
Q Consensus 17 ~p~~HQCP~CPFEDN~KgKLtRH~isCaKKF~p 49 (90)
..+++.|+ ||+.++.+-.-.|.++.=-.+=.|
T Consensus 23 ~lp~~~~~-CP~~~~a~R~~~k~~L~~LE~~~P 54 (104)
T TIGR00269 23 ELKVHLDE-CPYSSLSVRARIRDFLYDLENKKP 54 (104)
T ss_pred CCCcCCCC-CCCCCCCchHHHHHHHHHHHHHCc
Confidence 34567777 999998888777766644333333
No 51
>PF10650 zf-C3H1: Putative zinc-finger domain; InterPro: IPR019607 This domain is conserved in fungi and might be a zinc-finger domain as it contains three conserved Cs and an H in the C-x8-C-x5-C-x3-H conformation typical of a zinc-finger.
Probab=27.08 E-value=31 Score=18.68 Aligned_cols=9 Identities=33% Similarity=0.700 Sum_probs=7.4
Q ss_pred CCCcccccc
Q psy4190 24 PSCLFEDNQ 32 (90)
Q Consensus 24 P~CPFEDN~ 32 (90)
|.||||-++
T Consensus 1 ~lC~yEl~G 9 (23)
T PF10650_consen 1 PLCPYELTG 9 (23)
T ss_pred CCCccccCC
Confidence 679999876
No 52
>TIGR01367 pyrE_Therm orotate phosphoribosyltransferase, Thermus family. This model represents a distinct clade of orotate phosphoribosyltransferases. Members include the experimentally determined example from Thermus aquaticus and additional examples from Caulobacter crescentus, Helicobacter pylori, Mesorhizobium loti, and related species.
Probab=26.51 E-value=24 Score=25.34 Aligned_cols=9 Identities=56% Similarity=1.372 Sum_probs=7.5
Q ss_pred CCCCCCCCc
Q psy4190 19 AFHQCPSCL 27 (90)
Q Consensus 19 ~~HQCP~CP 27 (90)
..||||.|+
T Consensus 168 ~~~~c~~~~ 176 (187)
T TIGR01367 168 DSHECPLCL 176 (187)
T ss_pred CcccCChhh
Confidence 468999996
No 53
>PF07282 OrfB_Zn_ribbon: Putative transposase DNA-binding domain; InterPro: IPR010095 This entry represents a region of a sequence similarity between a family of putative transposases of Thermoanaerobacter tengcongensis, smaller related proteins from Bacillus anthracis, putative transposes described by IPR001959 from INTERPRO, and other proteins. More information about these proteins can be found at Protein of the Month: Transposase [].
Probab=26.10 E-value=27 Score=20.66 Aligned_cols=17 Identities=29% Similarity=0.741 Sum_probs=12.9
Q ss_pred CCCCCCCCCCccccccc
Q psy4190 17 APAFHQCPSCLFEDNQK 33 (90)
Q Consensus 17 ~p~~HQCP~CPFEDN~K 33 (90)
....+.||+|.++.|--
T Consensus 43 ~~r~~~C~~Cg~~~~rD 59 (69)
T PF07282_consen 43 SGRVFTCPNCGFEMDRD 59 (69)
T ss_pred ccceEEcCCCCCEECcH
Confidence 45578899999987643
No 54
>KOG3715|consensus
Probab=26.00 E-value=1.2e+02 Score=25.60 Aligned_cols=37 Identities=27% Similarity=0.532 Sum_probs=30.3
Q ss_pred HHhhhhccCCccCCCCCCCCeeEeecCCceeEEEEeeee
Q psy4190 41 LSCAKKYRPERNQVRKGEGPLFTIAEDSGFCWVLQFSLS 79 (90)
Q Consensus 41 isCaKKF~pe~Nl~Pp~~~~~~~~~~~~~~~~~~~~~~~ 79 (90)
.+|-+.+.-|. .|--+||+|--.+|.|||.+--|.|.
T Consensus 123 ~a~vRsLScE~--~~~~~~pvfFGD~dnGfv~s~tF~l~ 159 (344)
T KOG3715|consen 123 QACVRSLSCET--MPSDNGPVFFGDDDNGFVLSHTFRLY 159 (344)
T ss_pred HHHHHHhcccc--CCCCCCceEEeeCCCCeEEEEEEEec
Confidence 46777777777 45566999999999999999999885
No 55
>PF02591 DUF164: Putative zinc ribbon domain; InterPro: IPR003743 This entry describes proteins of unknown function.
Probab=24.79 E-value=19 Score=21.15 Aligned_cols=24 Identities=25% Similarity=0.448 Sum_probs=14.3
Q ss_pred eccccccccccccCCCCCCCCCCc
Q psy4190 4 MEAEHNVRGRLEKAPAFHQCPSCL 27 (90)
Q Consensus 4 MEA~HNirgRlEr~p~~HQCP~CP 27 (90)
|+-.....-++.+......||+|.
T Consensus 30 ~~l~~~~~~~i~~~~~i~~Cp~Cg 53 (56)
T PF02591_consen 30 MELPPQELNEIRKGDEIVFCPNCG 53 (56)
T ss_pred EEcCHHHHHHHHcCCCeEECcCCC
Confidence 333334444555556778899884
No 56
>PF14846 DUF4485: Domain of unknown function (DUF4485)
Probab=24.67 E-value=56 Score=21.20 Aligned_cols=43 Identities=21% Similarity=0.352 Sum_probs=28.2
Q ss_pred CCCCccccccchhhhhhHHHhh--hhccCCccCCCCCCCCeeEeec
Q psy4190 23 CPSCLFEDNQKGKLTRHLLSCA--KKYRPERNQVRKGEGPLFTIAE 66 (90)
Q Consensus 23 CP~CPFEDN~KgKLtRH~isCa--KKF~pe~Nl~Pp~~~~~~~~~~ 66 (90)
|+.+..+...+-.-++++..|- ..+.+-+|..|| +|||-+|.+
T Consensus 39 ~~~~~~~~~~RN~Y~~~Ll~~l~~~~L~~PF~~~Pp-~g~L~~l~~ 83 (85)
T PF14846_consen 39 PPHNVEEKKNRNEYASLLLHCLQQGRLEGPFTKPPP-DGPLPTLPS 83 (85)
T ss_pred CCCCHHHHHHHHHHHHHHHHHHhcCccCCCCCCCCC-CCCCccccc
Confidence 3445555555566677788885 457777887766 568877653
No 57
>PLN02821 1-hydroxy-2-methyl-2-(E)-butenyl 4-diphosphate reductase
Probab=23.61 E-value=39 Score=28.98 Aligned_cols=14 Identities=36% Similarity=1.044 Sum_probs=11.6
Q ss_pred eEeecCCceeEEEE
Q psy4190 62 FTIAEDSGFCWVLQ 75 (90)
Q Consensus 62 ~~~~~~~~~~~~~~ 75 (90)
+.+|+..||||-..
T Consensus 108 I~LA~~~GFC~GVe 121 (460)
T PLN02821 108 VKLAKAYGFCWGVE 121 (460)
T ss_pred EEEeCCCCCCccHH
Confidence 67899999999643
No 58
>KOG3940|consensus
Probab=23.50 E-value=29 Score=29.19 Aligned_cols=30 Identities=27% Similarity=0.515 Sum_probs=24.4
Q ss_pred CCCCCCCCCccccccchhhhhhHHHhhhhcc
Q psy4190 18 PAFHQCPSCLFEDNQKGKLTRHLLSCAKKYR 48 (90)
Q Consensus 18 p~~HQCP~CPFEDN~KgKLtRH~isCaKKF~ 48 (90)
+.|-|||.|-=--| -.-..||+..|.--=.
T Consensus 128 ~DYiQcpYC~RrFN-a~AAeRHinFCkeQas 157 (351)
T KOG3940|consen 128 LDYNQCPYCTRRFN-AQAAERHINFCKEQAS 157 (351)
T ss_pred hhhhccchhhhccc-hhhhhhccccchhhhc
Confidence 45889999988888 7788999999975433
No 59
>PLN03086 PRLI-interacting factor K; Provisional
Probab=23.16 E-value=38 Score=29.50 Aligned_cols=20 Identities=25% Similarity=0.591 Sum_probs=8.7
Q ss_pred CCCCCccccccchhhhhhHHH
Q psy4190 22 QCPSCLFEDNQKGKLTRHLLS 42 (90)
Q Consensus 22 QCP~CPFEDN~KgKLtRH~is 42 (90)
.|+.|...- .++.|.+|+..
T Consensus 455 ~C~~Cgk~f-~~s~LekH~~~ 474 (567)
T PLN03086 455 HCEKCGQAF-QQGEMEKHMKV 474 (567)
T ss_pred cCCCCCCcc-chHHHHHHHHh
Confidence 455553322 23444555444
No 60
>PLN03238 probable histone acetyltransferase MYST; Provisional
Probab=23.02 E-value=49 Score=26.91 Aligned_cols=37 Identities=27% Similarity=0.429 Sum_probs=29.5
Q ss_pred CCCCCCCCCCccccccchhhhhhHHHhhhhccCCccC
Q psy4190 17 APAFHQCPSCLFEDNQKGKLTRHLLSCAKKYRPERNQ 53 (90)
Q Consensus 17 ~p~~HQCP~CPFEDN~KgKLtRH~isCaKKF~pe~Nl 53 (90)
....|-|..|--=-..+..|.||+..|..+.-|+.-.
T Consensus 45 ~~~lyiCe~Clky~~~~~~l~~H~~~C~~r~PPG~eI 81 (290)
T PLN03238 45 CTKLYICEYCLKYMRKKKSLLRHLAKCDIRQPPGGGI 81 (290)
T ss_pred CCeEEEcCCCcchhCCHHHHHHHHHhCCCCCCCcCEe
Confidence 3556789999999999999999999998875554433
No 61
>PF13465 zf-H2C2_2: Zinc-finger double domain; PDB: 2EN7_A 1TF6_A 1TF3_A 2ELT_A 2EOS_A 2EN2_A 2DMD_A 2WBS_A 2WBU_A 2EM5_A ....
Probab=22.91 E-value=24 Score=18.12 Aligned_cols=9 Identities=33% Similarity=0.718 Sum_probs=7.2
Q ss_pred CCCCCCCCc
Q psy4190 19 AFHQCPSCL 27 (90)
Q Consensus 19 ~~HQCP~CP 27 (90)
..|+|+.|.
T Consensus 13 k~~~C~~C~ 21 (26)
T PF13465_consen 13 KPYKCPYCG 21 (26)
T ss_dssp SSEEESSSS
T ss_pred CCCCCCCCc
Confidence 349999996
No 62
>smart00661 RPOL9 RNA polymerase subunit 9.
Probab=22.88 E-value=17 Score=20.33 Aligned_cols=20 Identities=20% Similarity=0.468 Sum_probs=15.0
Q ss_pred CCCCCCCccccccchh-hhhh
Q psy4190 20 FHQCPSCLFEDNQKGK-LTRH 39 (90)
Q Consensus 20 ~HQCP~CPFEDN~KgK-LtRH 39 (90)
.+.||.|++......+ +.++
T Consensus 20 ~~vC~~Cg~~~~~~~~~~~~~ 40 (52)
T smart00661 20 RFVCRKCGYEEPIEQKYVYKE 40 (52)
T ss_pred EEECCcCCCeEECCCcEEEEE
Confidence 7889999998877666 4443
No 63
>PF12705 PDDEXK_1: PD-(D/E)XK nuclease superfamily; PDB: 1W36_B 3K70_B 3U4Q_A 3U44_A.
Probab=22.70 E-value=40 Score=21.77 Aligned_cols=14 Identities=36% Similarity=0.897 Sum_probs=8.6
Q ss_pred CCCCCCCCCCcccc
Q psy4190 17 APAFHQCPSCLFED 30 (90)
Q Consensus 17 ~p~~HQCP~CPFED 30 (90)
++....|..|||-+
T Consensus 241 ~~~~~~C~~C~~~~ 254 (257)
T PF12705_consen 241 PPNSEHCSYCPFRD 254 (257)
T ss_dssp -SS--TTSS-TTHH
T ss_pred CCCCCCCCCCCCcc
Confidence 48889999999965
No 64
>PF13719 zinc_ribbon_5: zinc-ribbon domain
Probab=22.27 E-value=36 Score=19.00 Aligned_cols=13 Identities=23% Similarity=0.503 Sum_probs=8.9
Q ss_pred CCCCCCccccccc
Q psy4190 21 HQCPSCLFEDNQK 33 (90)
Q Consensus 21 HQCP~CPFEDN~K 33 (90)
-+||+|-..-+..
T Consensus 3 i~CP~C~~~f~v~ 15 (37)
T PF13719_consen 3 ITCPNCQTRFRVP 15 (37)
T ss_pred EECCCCCceEEcC
Confidence 3799998765543
No 65
>PRK01045 ispH 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed
Probab=22.17 E-value=44 Score=26.50 Aligned_cols=14 Identities=29% Similarity=0.615 Sum_probs=11.1
Q ss_pred eEeecCCceeEEEE
Q psy4190 62 FTIAEDSGFCWVLQ 75 (90)
Q Consensus 62 ~~~~~~~~~~~~~~ 75 (90)
..+|+..||||-.+
T Consensus 3 I~lA~~~GFC~GV~ 16 (298)
T PRK01045 3 ILLANPRGFCAGVD 16 (298)
T ss_pred EEEeCCCCCCccHH
Confidence 46899999999643
No 66
>KOG2612|consensus
Probab=22.11 E-value=61 Score=23.21 Aligned_cols=30 Identities=23% Similarity=0.472 Sum_probs=22.7
Q ss_pred cccCCCCCCCCCCccccccchhhhhhHHHhh
Q psy4190 14 LEKAPAFHQCPSCLFEDNQKGKLTRHLLSCA 44 (90)
Q Consensus 14 lEr~p~~HQCP~CPFEDN~KgKLtRH~isCa 44 (90)
..+.|++-.||||.= |-.-..++-|+-.|.
T Consensus 68 qaek~~~~hCeNC~R-dVaAaR~AaHLekCl 97 (103)
T KOG2612|consen 68 QAEKPMDCHCENCDR-DVAAARFAAHLEKCL 97 (103)
T ss_pred hccCCccccCCCCcc-HHHHHHHHHHHHHHH
Confidence 345688999999963 445667888998885
No 67
>KOG2324|consensus
Probab=22.10 E-value=30 Score=30.00 Aligned_cols=26 Identities=31% Similarity=0.669 Sum_probs=15.9
Q ss_pred CCCCCCCccccccchhhhhhHHHhhh
Q psy4190 20 FHQCPSCLFEDNQKGKLTRHLLSCAK 45 (90)
Q Consensus 20 ~HQCP~CPFEDN~KgKLtRH~isCaK 45 (90)
..+||+|.|+.|...--.--.++|.|
T Consensus 227 l~~C~~C~~s~n~e~~~~sk~~~Cp~ 252 (457)
T KOG2324|consen 227 LMSCPSCGYSKNSEDLDLSKIASCPK 252 (457)
T ss_pred eeecCcCCccCchhhhcCCccccCCc
Confidence 46899999998864322222255654
No 68
>smart00224 GGL G protein gamma subunit-like motifs.
Probab=21.91 E-value=55 Score=20.21 Aligned_cols=27 Identities=26% Similarity=0.575 Sum_probs=18.8
Q ss_pred hhccCCccCCCCCCCCeeEeecCCceeEEE
Q psy4190 45 KKYRPERNQVRKGEGPLFTIAEDSGFCWVL 74 (90)
Q Consensus 45 KKF~pe~Nl~Pp~~~~~~~~~~~~~~~~~~ 74 (90)
..+-|-+.-.||.+.|.- ||.+.||+|
T Consensus 37 ~~~DP~l~g~~~~~NP~~---~dk~~c~~l 63 (63)
T smart00224 37 AEEDPLLTGPPPSKNPFI---EDKTSCWIL 63 (63)
T ss_pred CCCCCCcCCCCCCCCCCC---CCCCCcCcC
Confidence 345666666666667764 688899985
No 69
>KOG3348|consensus
Probab=21.61 E-value=46 Score=23.04 Aligned_cols=12 Identities=42% Similarity=0.487 Sum_probs=10.1
Q ss_pred ccchhhhhhHHH
Q psy4190 31 NQKGKLTRHLLS 42 (90)
Q Consensus 31 N~KgKLtRH~is 42 (90)
+||++|+||.+.
T Consensus 44 eGKs~L~rHRlV 55 (85)
T KOG3348|consen 44 EGKSLLARHRLV 55 (85)
T ss_pred CChHHHHHHHHH
Confidence 689999999754
No 70
>PRK14821 putative deoxyribonucleotide triphosphate pyrophosphatase; Provisional
Probab=21.41 E-value=50 Score=24.00 Aligned_cols=31 Identities=26% Similarity=0.161 Sum_probs=19.1
Q ss_pred CccccccchhhhhhHHHhhhhccCCccCCCCCCCCeeEeecCCceeE
Q psy4190 26 CLFEDNQKGKLTRHLLSCAKKYRPERNQVRKGEGPLFTIAEDSGFCW 72 (90)
Q Consensus 26 CPFEDN~KgKLtRH~isCaKKF~pe~Nl~Pp~~~~~~~~~~~~~~~~ 72 (90)
.-||+|-.-|.. .. ++.. | ...||||||.|-
T Consensus 40 ~t~~enA~~KA~-~~---~~~~----~--------~pvlaDDSGL~v 70 (184)
T PRK14821 40 DTLEEVAAFGAK-WV---YNKL----N--------RPVIVEDSGLFI 70 (184)
T ss_pred CCHHHHHHHHHH-HH---HHHH----C--------CCEEEEcCEEee
Confidence 568888777753 11 2221 1 247999999983
No 71
>cd00924 Cyt_c_Oxidase_Vb Cytochrome c oxidase subunit Vb. Cytochrome c oxidase (CcO), the terminal oxidase in the respiratory chains of eukaryotes and most bacteria, is a multi-chain transmembrane protein located in the inner membrane of mitochondria and the cell membrane of prokaryotes. It catalyzes the reduction of O2 and simultaneously pumps protons across the membrane. The number of subunits varies from three to five in bacteria and up to 13 in mammalian mitochondria. Subunits I, II, and III of mammalian CcO are encoded within the mitochondrial genome and the remaining 10 subunits are encoded within the nuclear genome. Found only in eukaryotes, subunit Vb is one of three mammalian subunits that lacks a transmembrane region. Subunit Vb is located on the matrix side of the membrane and binds the regulatory subunit of protein kinase A. The abnormally extended conformation is stable only in the CcO assembly.
Probab=21.36 E-value=45 Score=22.71 Aligned_cols=22 Identities=36% Similarity=0.593 Sum_probs=17.2
Q ss_pred ccccccc-cccccCCCCCCCCCCc
Q psy4190 5 EAEHNVR-GRLEKAPAFHQCPSCL 27 (90)
Q Consensus 5 EA~HNir-gRlEr~p~~HQCP~CP 27 (90)
+++|++. -+|++. ..++||.|.
T Consensus 64 ~~~h~v~W~~l~~g-~~~rC~eCG 86 (97)
T cd00924 64 PDSHDVIWMWLEKG-KPKRCPECG 86 (97)
T ss_pred CCCceEEEEEEeCC-CceeCCCCC
Confidence 3467776 788998 589999995
No 72
>COG0675 Transposase and inactivated derivatives [DNA replication, recombination, and repair]
Probab=20.78 E-value=39 Score=23.48 Aligned_cols=16 Identities=25% Similarity=0.733 Sum_probs=11.2
Q ss_pred CCCCCCCCccccccch
Q psy4190 19 AFHQCPSCLFEDNQKG 34 (90)
Q Consensus 19 ~~HQCP~CPFEDN~Kg 34 (90)
..+.||.|.++.|---
T Consensus 321 r~~~C~~cg~~~~rD~ 336 (364)
T COG0675 321 RLFKCPRCGFVHDRDV 336 (364)
T ss_pred eeEECCCCCCeehhhH
Confidence 4578999988866433
No 73
>PF10571 UPF0547: Uncharacterised protein family UPF0547; InterPro: IPR018886 This domain may well be a type of zinc-finger as it carries two pairs of highly conserved cysteine residues though with no accompanying histidines. Several members are annotated as putative helicases.
Probab=20.71 E-value=52 Score=17.71 Aligned_cols=14 Identities=21% Similarity=0.617 Sum_probs=9.9
Q ss_pred CCCCCCCCCCcccc
Q psy4190 17 APAFHQCPSCLFED 30 (90)
Q Consensus 17 ~p~~HQCP~CPFED 30 (90)
+-+.-.||+|.++-
T Consensus 11 ~~~~~~Cp~CG~~F 24 (26)
T PF10571_consen 11 PESAKFCPHCGYDF 24 (26)
T ss_pred hhhcCcCCCCCCCC
Confidence 34556799998874
No 74
>PRK14826 putative deoxyribonucleotide triphosphate pyrophosphatase; Provisional
Probab=20.47 E-value=55 Score=24.70 Aligned_cols=12 Identities=33% Similarity=0.631 Sum_probs=10.1
Q ss_pred eeEeecCCceeE
Q psy4190 61 LFTIAEDSGFCW 72 (90)
Q Consensus 61 ~~~~~~~~~~~~ 72 (90)
+..||||||.|-
T Consensus 78 ~~vlaDDSGL~v 89 (222)
T PRK14826 78 LIALADDTGLEV 89 (222)
T ss_pred CcEEEecCcEEE
Confidence 467999999985
No 75
>COG1675 TFA1 Transcription initiation factor IIE, alpha subunit [Transcription]
Probab=20.45 E-value=46 Score=24.92 Aligned_cols=13 Identities=31% Similarity=0.858 Sum_probs=10.7
Q ss_pred ccCCCCCCCCCCc
Q psy4190 15 EKAPAFHQCPSCL 27 (90)
Q Consensus 15 Er~p~~HQCP~CP 27 (90)
+....||+||+|-
T Consensus 108 ~~~~~~y~C~~~~ 120 (176)
T COG1675 108 ETENNYYVCPNCH 120 (176)
T ss_pred hccCCceeCCCCC
Confidence 4678899999985
No 76
>PF10855 DUF2648: Protein of unknown function (DUF2648); InterPro: IPR022561 This family of proteins with unknown function appears to be restricted to eubacteia.
Probab=20.23 E-value=24 Score=20.89 Aligned_cols=15 Identities=40% Similarity=0.368 Sum_probs=12.9
Q ss_pred hhhccCCccCCCCCC
Q psy4190 44 AKKYRPERNQVRKGE 58 (90)
Q Consensus 44 aKKF~pe~Nl~Pp~~ 58 (90)
=|||+.-.|+.|-||
T Consensus 18 fKKyQ~~vnqapnie 32 (33)
T PF10855_consen 18 FKKYQNHVNQAPNIE 32 (33)
T ss_pred HHHHHHHHhcCCCCC
Confidence 388999999999886
No 77
>smart00525 FES FES domain. iron-sulpphur binding domain in DNA-(apurinic or apyrimidinic site) lyase (subfamily of ENDO3)
Probab=20.14 E-value=61 Score=16.44 Aligned_cols=15 Identities=20% Similarity=0.414 Sum_probs=10.9
Q ss_pred CCCCCCCCccccccc
Q psy4190 19 AFHQCPSCLFEDNQK 33 (90)
Q Consensus 19 ~~HQCP~CPFEDN~K 33 (90)
...+|..||+.+-.+
T Consensus 5 r~P~C~~Cpl~~~C~ 19 (26)
T smart00525 5 RKPRCDECPLKDLCP 19 (26)
T ss_pred CCCCCCCCcCHHHhh
Confidence 356899999886544
Done!