Query psy16623
Match_columns 93
No_of_seqs 118 out of 1016
Neff 6.8
Searched_HMMs 46136
Date Fri Aug 16 17:39:06 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy16623.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/16623hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PTZ00368 universal minicircle 99.0 3.8E-10 8.2E-15 76.1 2.8 43 43-89 105-147 (148)
2 COG5082 AIR1 Arginine methyltr 98.9 7.7E-10 1.7E-14 78.1 2.4 49 40-88 59-114 (190)
3 PTZ00368 universal minicircle 98.8 6.3E-09 1.4E-13 70.2 3.5 44 42-90 53-96 (148)
4 PF00098 zf-CCHC: Zinc knuckle 98.6 1.2E-08 2.5E-13 46.8 1.1 17 73-89 2-18 (18)
5 COG5082 AIR1 Arginine methyltr 98.5 6.3E-08 1.4E-12 68.4 2.4 49 5-60 68-117 (190)
6 KOG4400|consensus 98.5 6.5E-08 1.4E-12 70.6 2.5 42 42-92 144-185 (261)
7 PF00098 zf-CCHC: Zinc knuckle 98.4 7.8E-08 1.7E-12 44.0 1.1 17 43-59 2-18 (18)
8 KOG4400|consensus 98.2 6.7E-07 1.5E-11 65.3 2.7 50 41-90 92-162 (261)
9 PF13696 zf-CCHC_2: Zinc knuck 97.8 8.4E-06 1.8E-10 42.4 1.4 21 72-92 9-29 (32)
10 KOG0119|consensus 97.3 0.00018 3.9E-09 57.3 2.6 49 36-90 256-304 (554)
11 PF13696 zf-CCHC_2: Zinc knuck 97.1 0.00035 7.6E-09 36.3 1.7 21 41-61 8-28 (32)
12 PF13917 zf-CCHC_3: Zinc knuck 96.8 0.00069 1.5E-08 37.2 1.2 17 72-88 5-21 (42)
13 smart00343 ZnF_C2HC zinc finge 96.6 0.0008 1.7E-08 32.8 0.8 17 73-89 1-17 (26)
14 PF13917 zf-CCHC_3: Zinc knuck 96.5 0.0014 3E-08 36.0 1.3 19 41-59 4-22 (42)
15 smart00343 ZnF_C2HC zinc finge 96.1 0.0027 5.9E-08 30.9 0.9 18 43-60 1-18 (26)
16 PF14392 zf-CCHC_4: Zinc knuck 95.5 0.01 2.3E-07 33.1 2.0 31 25-58 18-48 (49)
17 KOG0109|consensus 95.5 0.0052 1.1E-07 46.5 0.9 19 72-90 161-179 (346)
18 PF14392 zf-CCHC_4: Zinc knuck 94.8 0.0096 2.1E-07 33.2 0.4 18 72-89 32-49 (49)
19 PF14787 zf-CCHC_5: GAG-polypr 94.8 0.011 2.3E-07 31.4 0.5 18 72-89 3-20 (36)
20 COG5222 Uncharacterized conser 94.7 0.017 3.7E-07 44.1 1.5 21 71-91 176-196 (427)
21 PF15288 zf-CCHC_6: Zinc knuck 94.4 0.027 5.8E-07 30.6 1.5 12 73-84 3-14 (40)
22 PF15288 zf-CCHC_6: Zinc knuck 93.3 0.045 9.7E-07 29.7 1.1 20 42-61 2-23 (40)
23 KOG0109|consensus 93.1 0.1 2.2E-06 39.8 3.0 22 41-62 160-181 (346)
24 PF14787 zf-CCHC_5: GAG-polypr 91.2 0.13 2.8E-06 27.3 1.2 20 42-61 3-22 (36)
25 COG5222 Uncharacterized conser 90.0 0.17 3.7E-06 38.8 1.4 21 41-61 176-196 (427)
26 KOG3116|consensus 89.3 0.084 1.8E-06 36.5 -0.6 41 17-61 7-47 (177)
27 KOG0107|consensus 89.2 0.59 1.3E-05 33.3 3.6 45 15-59 60-118 (195)
28 KOG0314|consensus 86.0 1 2.2E-05 35.9 3.6 49 43-91 114-178 (448)
29 KOG2044|consensus 85.4 0.65 1.4E-05 39.5 2.3 34 28-61 247-280 (931)
30 KOG2044|consensus 68.8 2.2 4.8E-05 36.5 0.8 19 72-90 261-279 (931)
31 KOG3794|consensus 68.7 2.6 5.7E-05 33.3 1.2 29 29-60 115-145 (453)
32 PF12353 eIF3g: Eukaryotic tra 68.0 2.5 5.5E-05 28.1 0.9 18 72-90 107-124 (128)
33 KOG0119|consensus 64.1 3.5 7.6E-05 33.5 1.1 18 43-60 287-304 (554)
34 PF09779 Ima1_N: Ima1 N-termin 57.4 9.3 0.0002 25.3 2.1 35 43-87 2-36 (131)
35 KOG2673|consensus 56.2 5.9 0.00013 31.9 1.1 21 42-62 129-149 (485)
36 KOG0107|consensus 55.5 6.1 0.00013 28.2 1.0 19 72-90 101-119 (195)
37 KOG3116|consensus 54.6 3.1 6.6E-05 28.9 -0.6 19 72-90 28-46 (177)
38 PF12353 eIF3g: Eukaryotic tra 50.7 7.3 0.00016 25.8 0.7 21 40-61 105-125 (128)
39 KOG3794|consensus 49.5 8.1 0.00017 30.7 0.9 20 72-91 125-146 (453)
40 KOG2673|consensus 49.1 8.8 0.00019 30.9 1.1 18 73-90 130-147 (485)
41 KOG2560|consensus 41.2 6.7 0.00015 31.7 -0.7 18 72-89 113-130 (529)
42 COG5179 TAF1 Transcription ini 38.9 19 0.0004 30.6 1.5 20 72-91 938-959 (968)
43 COG1644 RPB10 DNA-directed RNA 38.0 15 0.00033 21.7 0.6 10 41-50 4-13 (63)
44 COG2336 MazE Growth regulator 33.7 27 0.00058 21.7 1.3 20 3-22 6-25 (82)
45 PHA00689 hypothetical protein 32.3 18 0.00039 20.7 0.3 17 37-53 13-29 (62)
46 PF10890 DUF2741: Protein of u 32.3 20 0.00044 21.7 0.6 26 1-26 18-43 (72)
47 PLN00032 DNA-directed RNA poly 31.2 21 0.00045 21.6 0.5 10 41-50 4-13 (71)
48 KOG0341|consensus 31.1 25 0.00055 28.4 1.1 19 72-90 571-589 (610)
49 PF01194 RNA_pol_N: RNA polyme 30.1 21 0.00045 20.9 0.3 10 41-50 4-13 (60)
50 KOG3497|consensus 27.9 25 0.00055 20.8 0.5 10 41-50 4-13 (69)
51 PRK04016 DNA-directed RNA poly 27.0 27 0.00058 20.6 0.5 10 41-50 4-13 (62)
52 smart00647 IBR In Between Ring 24.3 42 0.00091 18.3 0.9 16 72-87 49-64 (64)
53 KOG2560|consensus 21.2 25 0.00054 28.6 -0.6 19 42-60 113-131 (529)
No 1
>PTZ00368 universal minicircle sequence binding protein (UMSBP); Provisional
Probab=98.96 E-value=3.8e-10 Score=76.12 Aligned_cols=43 Identities=35% Similarity=0.914 Sum_probs=20.7
Q ss_pred ceeecCCCCccccccCCCCCCCCCCCcccccceeccccccccccCCC
Q psy16623 43 QCYNCFDFGHYQYSCPQKSSADARGDKVGIVCYKCNNYGHFARECAT 89 (93)
Q Consensus 43 ~C~~Cg~~GH~~~~C~~~~~~~~~~~~~~~~C~~Cg~~GH~ar~C~~ 89 (93)
.||+|++.||++++||........ ...||+|++.|||++|||+
T Consensus 105 ~C~~Cg~~gH~~~~C~~~~~~~~~----~~~C~~Cg~~gH~~~dCp~ 147 (148)
T PTZ00368 105 ACYNCGGEGHISRDCPNAGKRPGG----DKTCYNCGQTGHLSRDCPD 147 (148)
T ss_pred hhcccCcCCcchhcCCCccccCCC----CCccccCCCcCcccccCCC
Confidence 355555555555555543100000 1456666666666666664
No 2
>COG5082 AIR1 Arginine methyltransferase-interacting protein, contains RING Zn-finger [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]
Probab=98.90 E-value=7.7e-10 Score=78.09 Aligned_cols=49 Identities=31% Similarity=0.707 Sum_probs=34.7
Q ss_pred CCcceeecCCCCccccccC-----CCCCC-CCCC-CcccccceeccccccccccCC
Q psy16623 40 STIQCYNCFDFGHYQYSCP-----QKSSA-DARG-DKVGIVCYKCNNYGHFARECA 88 (93)
Q Consensus 40 ~~~~C~~Cg~~GH~~~~C~-----~~~~~-~~~~-~~~~~~C~~Cg~~GH~ar~C~ 88 (93)
....||+|++.||.++||| .-... -++. -...+.||+||+.||++++|+
T Consensus 59 ~~~~C~nCg~~GH~~~DCP~~iC~~C~~~~H~s~~C~~~~~C~~Cg~~GH~~~dC~ 114 (190)
T COG5082 59 ENPVCFNCGQNGHLRRDCPHSICYNCSWDGHRSNHCPKPKKCYNCGETGHLSRDCN 114 (190)
T ss_pred cccccchhcccCcccccCChhHhhhcCCCCcccccCCcccccccccccCccccccC
Confidence 3567999999999999999 11000 0110 011278999999999999994
No 3
>PTZ00368 universal minicircle sequence binding protein (UMSBP); Provisional
Probab=98.77 E-value=6.3e-09 Score=70.17 Aligned_cols=44 Identities=36% Similarity=0.915 Sum_probs=29.2
Q ss_pred cceeecCCCCccccccCCCCCCCCCCCcccccceeccccccccccCCCC
Q psy16623 42 IQCYNCFDFGHYQYSCPQKSSADARGDKVGIVCYKCNNYGHFARECATE 90 (93)
Q Consensus 42 ~~C~~Cg~~GH~~~~C~~~~~~~~~~~~~~~~C~~Cg~~GH~ar~C~~~ 90 (93)
..||+|++.||++++||+...... ...||+|++.||++++||+.
T Consensus 53 ~~C~~Cg~~GH~~~~Cp~~~~~~~-----~~~C~~Cg~~GH~~~~C~~~ 96 (148)
T PTZ00368 53 RSCYNCGKTGHLSRECPEAPPGSG-----PRSCYNCGQTGHISRECPNR 96 (148)
T ss_pred cccCCCCCcCcCcccCCCcccCCC-----CcccCcCCCCCcccccCCCc
Confidence 357777777777777766432111 15688888888888888774
No 4
>PF00098 zf-CCHC: Zinc knuckle; InterPro: IPR001878 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. This entry represents the CysCysHisCys (CCHC) type zinc finger domains, and have the sequence: C-X2-C-X4-H-X4-C where X can be any amino acid, and number indicates the number of residues. These 18 residues CCHC zinc finger domains are mainly found in the nucleocapsid protein of retroviruses. It is required for viral genome packaging and for early infection process [, , ]. It is also found in eukaryotic proteins involved in RNA binding or single-stranded DNA binding []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0003676 nucleic acid binding, 0008270 zinc ion binding; PDB: 2L44_A 1A1T_A 1WWG_A 1U6P_A 1WWD_A 1WWE_A 1A6B_B 1F6U_A 1MFS_A 1NCP_C ....
Probab=98.63 E-value=1.2e-08 Score=46.79 Aligned_cols=17 Identities=41% Similarity=1.189 Sum_probs=11.3
Q ss_pred cceeccccccccccCCC
Q psy16623 73 VCYKCNNYGHFARECAT 89 (93)
Q Consensus 73 ~C~~Cg~~GH~ar~C~~ 89 (93)
.||+|++.||++++||+
T Consensus 2 ~C~~C~~~GH~~~~Cp~ 18 (18)
T PF00098_consen 2 KCFNCGEPGHIARDCPK 18 (18)
T ss_dssp BCTTTSCSSSCGCTSSS
T ss_pred cCcCCCCcCcccccCcc
Confidence 46667777777776664
No 5
>COG5082 AIR1 Arginine methyltransferase-interacting protein, contains RING Zn-finger [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]
Probab=98.50 E-value=6.3e-08 Score=68.45 Aligned_cols=49 Identities=22% Similarity=0.398 Sum_probs=28.7
Q ss_pred CcceeeeechHHHHHHHHhcCceeeEEEeeeecCCCCcceeecCCCCcccccc-CCC
Q psy16623 5 LENSLWNNYVLGILLIIKQRNEGLLFVLRVEMSSTSTIQCYNCFDFGHYQYSC-PQK 60 (93)
Q Consensus 5 ~~~~~~~~~p~~~a~~i~~~g~~~~~~~~~~~~~~~~~~C~~Cg~~GH~~~~C-~~~ 60 (93)
..||+.-++|-.+...-...++.. . -=...+.||+||+.||++++| |..
T Consensus 68 ~~GH~~~DCP~~iC~~C~~~~H~s------~-~C~~~~~C~~Cg~~GH~~~dC~P~~ 117 (190)
T COG5082 68 QNGHLRRDCPHSICYNCSWDGHRS------N-HCPKPKKCYNCGETGHLSRDCNPSK 117 (190)
T ss_pred ccCcccccCChhHhhhcCCCCccc------c-cCCcccccccccccCccccccCccc
Confidence 346677777743333332233321 1 001126899999999999999 554
No 6
>KOG4400|consensus
Probab=98.50 E-value=6.5e-08 Score=70.59 Aligned_cols=42 Identities=31% Similarity=0.906 Sum_probs=36.4
Q ss_pred cceeecCCCCccccccCCCCCCCCCCCcccccceeccccccccccCCCCCC
Q psy16623 42 IQCYNCFDFGHYQYSCPQKSSADARGDKVGIVCYKCNNYGHFARECATESP 92 (93)
Q Consensus 42 ~~C~~Cg~~GH~~~~C~~~~~~~~~~~~~~~~C~~Cg~~GH~ar~C~~~~~ 92 (93)
+.||+|++.||++.+||.+. . ..||.|++.+|++++||...+
T Consensus 144 ~~Cy~Cg~~GH~s~~C~~~~----~-----~~c~~c~~~~h~~~~C~~~~~ 185 (261)
T KOG4400|consen 144 AKCYSCGEQGHISDDCPENK----G-----GTCFRCGKVGHGSRDCPSKQK 185 (261)
T ss_pred CccCCCCcCCcchhhCCCCC----C-----CccccCCCcceecccCCcccc
Confidence 56999999999999999761 1 689999999999999998754
No 7
>PF00098 zf-CCHC: Zinc knuckle; InterPro: IPR001878 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. This entry represents the CysCysHisCys (CCHC) type zinc finger domains, and have the sequence: C-X2-C-X4-H-X4-C where X can be any amino acid, and number indicates the number of residues. These 18 residues CCHC zinc finger domains are mainly found in the nucleocapsid protein of retroviruses. It is required for viral genome packaging and for early infection process [, , ]. It is also found in eukaryotic proteins involved in RNA binding or single-stranded DNA binding []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0003676 nucleic acid binding, 0008270 zinc ion binding; PDB: 2L44_A 1A1T_A 1WWG_A 1U6P_A 1WWD_A 1WWE_A 1A6B_B 1F6U_A 1MFS_A 1NCP_C ....
Probab=98.44 E-value=7.8e-08 Score=44.01 Aligned_cols=17 Identities=41% Similarity=1.138 Sum_probs=16.0
Q ss_pred ceeecCCCCccccccCC
Q psy16623 43 QCYNCFDFGHYQYSCPQ 59 (93)
Q Consensus 43 ~C~~Cg~~GH~~~~C~~ 59 (93)
.||+|++.||++++||+
T Consensus 2 ~C~~C~~~GH~~~~Cp~ 18 (18)
T PF00098_consen 2 KCFNCGEPGHIARDCPK 18 (18)
T ss_dssp BCTTTSCSSSCGCTSSS
T ss_pred cCcCCCCcCcccccCcc
Confidence 69999999999999985
No 8
>KOG4400|consensus
Probab=98.24 E-value=6.7e-07 Score=65.28 Aligned_cols=50 Identities=28% Similarity=0.773 Sum_probs=37.5
Q ss_pred CcceeecCCCCccccccCCCCCCCC-------CC-----C--------cc-cccceeccccccccccCCCC
Q psy16623 41 TIQCYNCFDFGHYQYSCPQKSSADA-------RG-----D--------KV-GIVCYKCNNYGHFARECATE 90 (93)
Q Consensus 41 ~~~C~~Cg~~GH~~~~C~~~~~~~~-------~~-----~--------~~-~~~C~~Cg~~GH~ar~C~~~ 90 (93)
...||+|++.||+.++||....... .+ . .+ ...||+||+.||+.++||..
T Consensus 92 ~~~c~~C~~~gH~~~~c~~~~~~~~~~~~~~~c~~~gh~~~~~~~~~~~~~~~~Cy~Cg~~GH~s~~C~~~ 162 (261)
T KOG4400|consen 92 AAACFNCGEGGHIERDCPEAGKEGSSETSCYSCGKTGHRGCPDADPVDGPKPAKCYSCGEQGHISDDCPEN 162 (261)
T ss_pred chhhhhCCCCccchhhCCcccCcccccceeeccCCCccccCcccccccCCCCCccCCCCcCCcchhhCCCC
Confidence 5679999999999999997765430 00 0 00 14599999999999999964
No 9
>PF13696 zf-CCHC_2: Zinc knuckle
Probab=97.84 E-value=8.4e-06 Score=42.36 Aligned_cols=21 Identities=38% Similarity=1.073 Sum_probs=16.0
Q ss_pred ccceeccccccccccCCCCCC
Q psy16623 72 IVCYKCNNYGHFARECATESP 92 (93)
Q Consensus 72 ~~C~~Cg~~GH~ar~C~~~~~ 92 (93)
..|+.|++.||+.+|||...|
T Consensus 9 Y~C~~C~~~GH~i~dCP~~~P 29 (32)
T PF13696_consen 9 YVCHRCGQKGHWIQDCPTNKP 29 (32)
T ss_pred CEeecCCCCCccHhHCCCCCC
Confidence 668888888888888887654
No 10
>KOG0119|consensus
Probab=97.28 E-value=0.00018 Score=57.32 Aligned_cols=49 Identities=31% Similarity=0.741 Sum_probs=39.3
Q ss_pred ecCCCCcceeecCCCCccccccCCCCCCCCCCCcccccceeccccccccccCCCC
Q psy16623 36 MSSTSTIQCYNCFDFGHYQYSCPQKSSADARGDKVGIVCYKCNNYGHFARECATE 90 (93)
Q Consensus 36 ~~~~~~~~C~~Cg~~GH~~~~C~~~~~~~~~~~~~~~~C~~Cg~~GH~ar~C~~~ 90 (93)
+.......|..|+..||...+||.... ... ..|+.|+..||+++||+..
T Consensus 256 ~r~~d~~~c~~cg~~~H~q~~cp~r~~-~~~-----n~c~~cg~~gH~~~dc~~~ 304 (554)
T KOG0119|consen 256 LRDDDNRACRNCGSTGHKQYDCPGRIP-NTT-----NVCKICGPLGHISIDCKVN 304 (554)
T ss_pred CCccccccccccCCCccccccCCcccc-ccc-----ccccccCCcccccccCCCc
Confidence 444445689999999999999998731 122 4799999999999999875
No 11
>PF13696 zf-CCHC_2: Zinc knuckle
Probab=97.09 E-value=0.00035 Score=36.27 Aligned_cols=21 Identities=29% Similarity=0.695 Sum_probs=18.7
Q ss_pred CcceeecCCCCccccccCCCC
Q psy16623 41 TIQCYNCFDFGHYQYSCPQKS 61 (93)
Q Consensus 41 ~~~C~~Cg~~GH~~~~C~~~~ 61 (93)
...|+.|++.||+..|||...
T Consensus 8 ~Y~C~~C~~~GH~i~dCP~~~ 28 (32)
T PF13696_consen 8 GYVCHRCGQKGHWIQDCPTNK 28 (32)
T ss_pred CCEeecCCCCCccHhHCCCCC
Confidence 467999999999999999854
No 12
>PF13917 zf-CCHC_3: Zinc knuckle
Probab=96.76 E-value=0.00069 Score=37.20 Aligned_cols=17 Identities=41% Similarity=1.077 Sum_probs=9.0
Q ss_pred ccceeccccccccccCC
Q psy16623 72 IVCYKCNNYGHFARECA 88 (93)
Q Consensus 72 ~~C~~Cg~~GH~ar~C~ 88 (93)
..|.+|++.||++.+|+
T Consensus 5 ~~CqkC~~~GH~tyeC~ 21 (42)
T PF13917_consen 5 VRCQKCGQKGHWTYECP 21 (42)
T ss_pred CcCcccCCCCcchhhCC
Confidence 34555555555555555
No 13
>smart00343 ZnF_C2HC zinc finger.
Probab=96.62 E-value=0.0008 Score=32.78 Aligned_cols=17 Identities=47% Similarity=1.247 Sum_probs=14.4
Q ss_pred cceeccccccccccCCC
Q psy16623 73 VCYKCNNYGHFARECAT 89 (93)
Q Consensus 73 ~C~~Cg~~GH~ar~C~~ 89 (93)
.|++|++.||++++||+
T Consensus 1 ~C~~CG~~GH~~~~C~~ 17 (26)
T smart00343 1 KCYNCGKEGHIARDCPK 17 (26)
T ss_pred CCccCCCCCcchhhCCc
Confidence 38899999999999984
No 14
>PF13917 zf-CCHC_3: Zinc knuckle
Probab=96.51 E-value=0.0014 Score=36.00 Aligned_cols=19 Identities=37% Similarity=1.111 Sum_probs=17.2
Q ss_pred CcceeecCCCCccccccCC
Q psy16623 41 TIQCYNCFDFGHYQYSCPQ 59 (93)
Q Consensus 41 ~~~C~~Cg~~GH~~~~C~~ 59 (93)
...|.+|++.||+..+|++
T Consensus 4 ~~~CqkC~~~GH~tyeC~~ 22 (42)
T PF13917_consen 4 RVRCQKCGQKGHWTYECPN 22 (42)
T ss_pred CCcCcccCCCCcchhhCCC
Confidence 4579999999999999995
No 15
>smart00343 ZnF_C2HC zinc finger.
Probab=96.08 E-value=0.0027 Score=30.85 Aligned_cols=18 Identities=44% Similarity=1.069 Sum_probs=16.0
Q ss_pred ceeecCCCCccccccCCC
Q psy16623 43 QCYNCFDFGHYQYSCPQK 60 (93)
Q Consensus 43 ~C~~Cg~~GH~~~~C~~~ 60 (93)
.||+|++.||++++||..
T Consensus 1 ~C~~CG~~GH~~~~C~~~ 18 (26)
T smart00343 1 KCYNCGKEGHIARDCPKX 18 (26)
T ss_pred CCccCCCCCcchhhCCcc
Confidence 499999999999999844
No 16
>PF14392 zf-CCHC_4: Zinc knuckle
Probab=95.55 E-value=0.01 Score=33.07 Aligned_cols=31 Identities=26% Similarity=0.603 Sum_probs=20.7
Q ss_pred CceeeEEEeeeecCCCCcceeecCCCCccccccC
Q psy16623 25 NEGLLFVLRVEMSSTSTIQCYNCFDFGHYQYSCP 58 (93)
Q Consensus 25 g~~~~~~~~~~~~~~~~~~C~~Cg~~GH~~~~C~ 58 (93)
|+..+.....+-. +..|++|+..||...+||
T Consensus 18 g~~~~~~v~YE~l---p~~C~~C~~~gH~~~~C~ 48 (49)
T PF14392_consen 18 GESFWVKVKYERL---PRFCFHCGRIGHSDKECP 48 (49)
T ss_pred CcEEEEEEEECCc---ChhhcCCCCcCcCHhHcC
Confidence 4443444444433 347999999999999987
No 17
>KOG0109|consensus
Probab=95.54 E-value=0.0052 Score=46.53 Aligned_cols=19 Identities=37% Similarity=1.139 Sum_probs=17.5
Q ss_pred ccceeccccccccccCCCC
Q psy16623 72 IVCYKCNNYGHFARECATE 90 (93)
Q Consensus 72 ~~C~~Cg~~GH~ar~C~~~ 90 (93)
..||+||++|||+++||..
T Consensus 161 ~~cyrcGkeghwskEcP~~ 179 (346)
T KOG0109|consen 161 SGCYRCGKEGHWSKECPVD 179 (346)
T ss_pred HHheeccccccccccCCcc
Confidence 6799999999999999975
No 18
>PF14392 zf-CCHC_4: Zinc knuckle
Probab=94.82 E-value=0.0096 Score=33.22 Aligned_cols=18 Identities=33% Similarity=1.001 Sum_probs=16.5
Q ss_pred ccceeccccccccccCCC
Q psy16623 72 IVCYKCNNYGHFARECAT 89 (93)
Q Consensus 72 ~~C~~Cg~~GH~ar~C~~ 89 (93)
..|+.||..||..++||.
T Consensus 32 ~~C~~C~~~gH~~~~C~k 49 (49)
T PF14392_consen 32 RFCFHCGRIGHSDKECPK 49 (49)
T ss_pred hhhcCCCCcCcCHhHcCC
Confidence 679999999999999984
No 19
>PF14787 zf-CCHC_5: GAG-polyprotein viral zinc-finger; PDB: 1CL4_A 1DSV_A.
Probab=94.81 E-value=0.011 Score=31.43 Aligned_cols=18 Identities=33% Similarity=0.735 Sum_probs=11.4
Q ss_pred ccceeccccccccccCCC
Q psy16623 72 IVCYKCNNYGHFARECAT 89 (93)
Q Consensus 72 ~~C~~Cg~~GH~ar~C~~ 89 (93)
..|++|++..|+|++|..
T Consensus 3 ~~CprC~kg~Hwa~~C~s 20 (36)
T PF14787_consen 3 GLCPRCGKGFHWASECRS 20 (36)
T ss_dssp -C-TTTSSSCS-TTT---
T ss_pred ccCcccCCCcchhhhhhh
Confidence 479999999999999954
No 20
>COG5222 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=94.66 E-value=0.017 Score=44.13 Aligned_cols=21 Identities=43% Similarity=1.189 Sum_probs=18.5
Q ss_pred cccceeccccccccccCCCCC
Q psy16623 71 GIVCYKCNNYGHFARECATES 91 (93)
Q Consensus 71 ~~~C~~Cg~~GH~ar~C~~~~ 91 (93)
+..||+||+.|||..+||.+.
T Consensus 176 gY~CyRCGqkgHwIqnCpTN~ 196 (427)
T COG5222 176 GYVCYRCGQKGHWIQNCPTNQ 196 (427)
T ss_pred ceeEEecCCCCchhhcCCCCC
Confidence 478999999999999998764
No 21
>PF15288 zf-CCHC_6: Zinc knuckle
Probab=94.42 E-value=0.027 Score=30.60 Aligned_cols=12 Identities=33% Similarity=1.077 Sum_probs=6.0
Q ss_pred cceecccccccc
Q psy16623 73 VCYKCNNYGHFA 84 (93)
Q Consensus 73 ~C~~Cg~~GH~a 84 (93)
.|.+||..||.+
T Consensus 3 kC~~CG~~GH~~ 14 (40)
T PF15288_consen 3 KCKNCGAFGHMR 14 (40)
T ss_pred cccccccccccc
Confidence 355555555554
No 22
>PF15288 zf-CCHC_6: Zinc knuckle
Probab=93.31 E-value=0.045 Score=29.72 Aligned_cols=20 Identities=40% Similarity=0.974 Sum_probs=16.8
Q ss_pred cceeecCCCCccc--cccCCCC
Q psy16623 42 IQCYNCFDFGHYQ--YSCPQKS 61 (93)
Q Consensus 42 ~~C~~Cg~~GH~~--~~C~~~~ 61 (93)
+.|.+||.+||++ +.||-..
T Consensus 2 ~kC~~CG~~GH~~t~k~CP~~~ 23 (40)
T PF15288_consen 2 VKCKNCGAFGHMRTNKRCPMYC 23 (40)
T ss_pred ccccccccccccccCccCCCCC
Confidence 4799999999998 5788664
No 23
>KOG0109|consensus
Probab=93.08 E-value=0.1 Score=39.76 Aligned_cols=22 Identities=32% Similarity=0.819 Sum_probs=19.2
Q ss_pred CcceeecCCCCccccccCCCCC
Q psy16623 41 TIQCYNCFDFGHYQYSCPQKSS 62 (93)
Q Consensus 41 ~~~C~~Cg~~GH~~~~C~~~~~ 62 (93)
...||+||+.||++.+||....
T Consensus 160 q~~cyrcGkeghwskEcP~~~~ 181 (346)
T KOG0109|consen 160 QSGCYRCGKEGHWSKECPVDRT 181 (346)
T ss_pred HHHheeccccccccccCCccCC
Confidence 4569999999999999998753
No 24
>PF14787 zf-CCHC_5: GAG-polyprotein viral zinc-finger; PDB: 1CL4_A 1DSV_A.
Probab=91.23 E-value=0.13 Score=27.29 Aligned_cols=20 Identities=25% Similarity=0.379 Sum_probs=13.0
Q ss_pred cceeecCCCCccccccCCCC
Q psy16623 42 IQCYNCFDFGHYQYSCPQKS 61 (93)
Q Consensus 42 ~~C~~Cg~~GH~~~~C~~~~ 61 (93)
..|++|++-.|++++|....
T Consensus 3 ~~CprC~kg~Hwa~~C~sk~ 22 (36)
T PF14787_consen 3 GLCPRCGKGFHWASECRSKT 22 (36)
T ss_dssp -C-TTTSSSCS-TTT---TC
T ss_pred ccCcccCCCcchhhhhhhhh
Confidence 46999999999999999876
No 25
>COG5222 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=89.96 E-value=0.17 Score=38.84 Aligned_cols=21 Identities=33% Similarity=0.861 Sum_probs=18.6
Q ss_pred CcceeecCCCCccccccCCCC
Q psy16623 41 TIQCYNCFDFGHYQYSCPQKS 61 (93)
Q Consensus 41 ~~~C~~Cg~~GH~~~~C~~~~ 61 (93)
+..||+||+.||+..+||.+.
T Consensus 176 gY~CyRCGqkgHwIqnCpTN~ 196 (427)
T COG5222 176 GYVCYRCGQKGHWIQNCPTNQ 196 (427)
T ss_pred ceeEEecCCCCchhhcCCCCC
Confidence 456999999999999999875
No 26
>KOG3116|consensus
Probab=89.34 E-value=0.084 Score=36.54 Aligned_cols=41 Identities=24% Similarity=0.578 Sum_probs=27.3
Q ss_pred HHHHHHhcCceeeEEEeeeecCCCCcceeecCCCCccccccCCCC
Q psy16623 17 ILLIIKQRNEGLLFVLRVEMSSTSTIQCYNCFDFGHYQYSCPQKS 61 (93)
Q Consensus 17 ~a~~i~~~g~~~~~~~~~~~~~~~~~~C~~Cg~~GH~~~~C~~~~ 61 (93)
+|.+|.++..-......+ ...++|.+|.++||+.++|.+..
T Consensus 7 ~a~rL~~rk~~~~qA~a~----~~~~rCQKClq~GHWtYECk~kR 47 (177)
T KOG3116|consen 7 EAVRLGERKDKTMQASAV----GSSARCQKCLQAGHWTYECKNKR 47 (177)
T ss_pred HHHHHHHhhhhhhhhhhc----ccchhHHHHHhhccceeeecCce
Confidence 367777766532111111 12358999999999999998764
No 27
>KOG0107|consensus
Probab=89.24 E-value=0.59 Score=33.26 Aligned_cols=45 Identities=22% Similarity=0.296 Sum_probs=32.0
Q ss_pred HHHHHHHHhcCceeeEEEeeeecCCCCc--------------ceeecCCCCccccccCC
Q psy16623 15 LGILLIIKQRNEGLLFVLRVEMSSTSTI--------------QCYNCFDFGHYQYSCPQ 59 (93)
Q Consensus 15 ~~~a~~i~~~g~~~~~~~~~~~~~~~~~--------------~C~~Cg~~GH~~~~C~~ 59 (93)
.++|...++-..|.-+.++||++...+. -|+.|++.||+.++|.+
T Consensus 60 A~DAvr~LDG~~~cG~r~rVE~S~G~~r~~r~gg~~~~~g~~~~~r~G~rg~~~r~~~~ 118 (195)
T KOG0107|consen 60 AEDAVRYLDGKDICGSRIRVELSTGRPRGSRRGGSRPPRGRGFCYRCGERGHIGRNCKD 118 (195)
T ss_pred HHHHHhhcCCccccCceEEEEeecCCccccccCCCCCcccccccccCCCcccccccccc
Confidence 3567777877777777788888764322 27778888888877766
No 28
>KOG0314|consensus
Probab=85.98 E-value=1 Score=35.95 Aligned_cols=49 Identities=18% Similarity=0.170 Sum_probs=32.5
Q ss_pred ceeecCCCCccccccCCCCCCCC-----C----------C-CcccccceeccccccccccCCCCC
Q psy16623 43 QCYNCFDFGHYQYSCPQKSSADA-----R----------G-DKVGIVCYKCNNYGHFARECATES 91 (93)
Q Consensus 43 ~C~~Cg~~GH~~~~C~~~~~~~~-----~----------~-~~~~~~C~~Cg~~GH~ar~C~~~~ 91 (93)
.++.++..||..+.+........ . + -..+..|++|+..||+.+.||...
T Consensus 114 ~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~iq~~~~~g~Pppsy~c~rc~~~g~wikacptv~ 178 (448)
T KOG0314|consen 114 MNGRMGGRGFGMRRQTPPPGYVCHRCNSPGHFIQHCSTNGSPPPSYKCVKCPTPGPWIKACPTVS 178 (448)
T ss_pred hccccccCCcccccCCCcccceeeecccCccccccccccCCCCCCcceecCCCCCccceeccccC
Confidence 47777777777777643321100 0 0 012478999999999999999765
No 29
>KOG2044|consensus
Probab=85.39 E-value=0.65 Score=39.54 Aligned_cols=34 Identities=26% Similarity=0.492 Sum_probs=28.2
Q ss_pred eeEEEeeeecCCCCcceeecCCCCccccccCCCC
Q psy16623 28 LLFVLRVEMSSTSTIQCYNCFDFGHYQYSCPQKS 61 (93)
Q Consensus 28 ~~~~~~~~~~~~~~~~C~~Cg~~GH~~~~C~~~~ 61 (93)
.++..|-++.+..+..||.|+++||.+.+|....
T Consensus 247 hF~IlRE~~~P~~~~~C~~cgq~gh~~~dc~g~~ 280 (931)
T KOG2044|consen 247 HFSILREEFFPNKPRRCFLCGQTGHEAKDCEGKP 280 (931)
T ss_pred ceEEeeeeecCCCcccchhhcccCCcHhhcCCcC
Confidence 3677777777777788999999999999998763
No 30
>KOG2044|consensus
Probab=68.77 E-value=2.2 Score=36.51 Aligned_cols=19 Identities=32% Similarity=0.857 Sum_probs=17.1
Q ss_pred ccceeccccccccccCCCC
Q psy16623 72 IVCYKCNNYGHFARECATE 90 (93)
Q Consensus 72 ~~C~~Cg~~GH~ar~C~~~ 90 (93)
..|+.||+.||.++||...
T Consensus 261 ~~C~~cgq~gh~~~dc~g~ 279 (931)
T KOG2044|consen 261 RRCFLCGQTGHEAKDCEGK 279 (931)
T ss_pred ccchhhcccCCcHhhcCCc
Confidence 6799999999999999764
No 31
>KOG3794|consensus
Probab=68.69 E-value=2.6 Score=33.33 Aligned_cols=29 Identities=21% Similarity=0.654 Sum_probs=19.6
Q ss_pred eEEEeeeecCCCCcceeecCCCCccc--cccCCC
Q psy16623 29 LFVLRVEMSSTSTIQCYNCFDFGHYQ--YSCPQK 60 (93)
Q Consensus 29 ~~~~~~~~~~~~~~~C~~Cg~~GH~~--~~C~~~ 60 (93)
|.-..+++ +++.|++|...||+. ++||-.
T Consensus 115 dqPFGiqV---RNVrC~kChkwGH~n~DreCplf 145 (453)
T KOG3794|consen 115 DQPFGIQV---RNVRCLKCHKWGHINTDRECPLF 145 (453)
T ss_pred ccccceEe---eeeeEEeecccccccCCccCcch
Confidence 44444444 456899999999988 578744
No 32
>PF12353 eIF3g: Eukaryotic translation initiation factor 3 subunit G ; InterPro: IPR024675 At least eleven different protein factors are involved in initiation of protein synthesis in eukaryotes. Binding of initiator tRNA and mRNA to the 40S subunit requires the presence of the translation initiation factors eIF-2 and eIF-3, with eIF-3 being particularly important for 80S ribosome dissociation and mRNA binding []. eIF-3 is the most complex translation inititation factor, consisting of about 13 putative subunits and having a molecular weight of between 550 - 700 kDa in mammalian cells. Subunits are designated eIF-3a - eIF-3m; the large number of subunits means that the interactions between the individual subunits that make up the eIF-3 complex are complex and varied. Subunit G is required for eIF3 integrity. This entry represents a domain of approximately 130 amino acids in length found at the N terminus of eukaryotic translation initiation factor 3 subunit G. This domain is commonly found in association with the RNA recognition domain PF00076 from PFAM.
Probab=68.02 E-value=2.5 Score=28.05 Aligned_cols=18 Identities=22% Similarity=0.735 Sum_probs=15.5
Q ss_pred ccceeccccccccccCCCC
Q psy16623 72 IVCYKCNNYGHFARECATE 90 (93)
Q Consensus 72 ~~C~~Cg~~GH~ar~C~~~ 90 (93)
..|+.|+ ..||...||-.
T Consensus 107 v~CR~Ck-GdH~T~~CPyK 124 (128)
T PF12353_consen 107 VKCRICK-GDHWTSKCPYK 124 (128)
T ss_pred EEeCCCC-CCcccccCCcc
Confidence 6799997 78999999964
No 33
>KOG0119|consensus
Probab=64.10 E-value=3.5 Score=33.52 Aligned_cols=18 Identities=28% Similarity=0.645 Sum_probs=17.1
Q ss_pred ceeecCCCCccccccCCC
Q psy16623 43 QCYNCFDFGHYQYSCPQK 60 (93)
Q Consensus 43 ~C~~Cg~~GH~~~~C~~~ 60 (93)
.|+.|+..||+++||+..
T Consensus 287 ~c~~cg~~gH~~~dc~~~ 304 (554)
T KOG0119|consen 287 VCKICGPLGHISIDCKVN 304 (554)
T ss_pred cccccCCcccccccCCCc
Confidence 799999999999999877
No 34
>PF09779 Ima1_N: Ima1 N-terminal domain; InterPro: IPR018617 Members of this family of uncharacterised novel proteins have no known function.
Probab=57.43 E-value=9.3 Score=25.30 Aligned_cols=35 Identities=20% Similarity=0.564 Sum_probs=25.6
Q ss_pred ceeecCCCCccccccCCCCCCCCCCCcccccceeccccccccccC
Q psy16623 43 QCYNCFDFGHYQYSCPQKSSADARGDKVGIVCYKCNNYGHFAREC 87 (93)
Q Consensus 43 ~C~~Cg~~GH~~~~C~~~~~~~~~~~~~~~~C~~Cg~~GH~ar~C 87 (93)
.||-|++...+..+..... -.|-.|....+|..+=
T Consensus 2 ~C~fC~~~s~~~~~~~~~~----------w~C~~C~q~N~f~e~G 36 (131)
T PF09779_consen 2 NCWFCGQNSKVPYDNRNSN----------WTCPHCEQYNGFDEDG 36 (131)
T ss_pred eeccCCCCCCCCCCCCCCe----------eECCCCCCccCccccC
Confidence 6999999887776644432 5788888888877653
No 35
>KOG2673|consensus
Probab=56.19 E-value=5.9 Score=31.88 Aligned_cols=21 Identities=29% Similarity=0.602 Sum_probs=18.3
Q ss_pred cceeecCCCCccccccCCCCC
Q psy16623 42 IQCYNCFDFGHYQYSCPQKSS 62 (93)
Q Consensus 42 ~~C~~Cg~~GH~~~~C~~~~~ 62 (93)
..||+|+..-|-.+|||.+..
T Consensus 129 ~~CFNC~g~~hsLrdC~rp~d 149 (485)
T KOG2673|consen 129 DPCFNCGGTPHSLRDCPRPFD 149 (485)
T ss_pred ccccccCCCCCccccCCCccc
Confidence 348999999999999998863
No 36
>KOG0107|consensus
Probab=55.51 E-value=6.1 Score=28.19 Aligned_cols=19 Identities=37% Similarity=1.045 Sum_probs=16.5
Q ss_pred ccceeccccccccccCCCC
Q psy16623 72 IVCYKCNNYGHFARECATE 90 (93)
Q Consensus 72 ~~C~~Cg~~GH~ar~C~~~ 90 (93)
..|++||+.||+.+.|.+.
T Consensus 101 ~~~~r~G~rg~~~r~~~~s 119 (195)
T KOG0107|consen 101 GFCYRCGERGHIGRNCKDS 119 (195)
T ss_pred cccccCCCccccccccccc
Confidence 3499999999999999873
No 37
>KOG3116|consensus
Probab=54.58 E-value=3.1 Score=28.94 Aligned_cols=19 Identities=37% Similarity=0.852 Sum_probs=17.4
Q ss_pred ccceeccccccccccCCCC
Q psy16623 72 IVCYKCNNYGHFARECATE 90 (93)
Q Consensus 72 ~~C~~Cg~~GH~ar~C~~~ 90 (93)
..|-+|-+.|||.-+|.+.
T Consensus 28 ~rCQKClq~GHWtYECk~k 46 (177)
T KOG3116|consen 28 ARCQKCLQAGHWTYECKNK 46 (177)
T ss_pred hhHHHHHhhccceeeecCc
Confidence 7899999999999999764
No 38
>PF12353 eIF3g: Eukaryotic translation initiation factor 3 subunit G ; InterPro: IPR024675 At least eleven different protein factors are involved in initiation of protein synthesis in eukaryotes. Binding of initiator tRNA and mRNA to the 40S subunit requires the presence of the translation initiation factors eIF-2 and eIF-3, with eIF-3 being particularly important for 80S ribosome dissociation and mRNA binding []. eIF-3 is the most complex translation inititation factor, consisting of about 13 putative subunits and having a molecular weight of between 550 - 700 kDa in mammalian cells. Subunits are designated eIF-3a - eIF-3m; the large number of subunits means that the interactions between the individual subunits that make up the eIF-3 complex are complex and varied. Subunit G is required for eIF3 integrity. This entry represents a domain of approximately 130 amino acids in length found at the N terminus of eukaryotic translation initiation factor 3 subunit G. This domain is commonly found in association with the RNA recognition domain PF00076 from PFAM.
Probab=50.67 E-value=7.3 Score=25.84 Aligned_cols=21 Identities=33% Similarity=0.735 Sum_probs=17.7
Q ss_pred CCcceeecCCCCccccccCCCC
Q psy16623 40 STIQCYNCFDFGHYQYSCPQKS 61 (93)
Q Consensus 40 ~~~~C~~Cg~~GH~~~~C~~~~ 61 (93)
..+.|..|+ -.|+...||-..
T Consensus 105 ~~v~CR~Ck-GdH~T~~CPyKd 125 (128)
T PF12353_consen 105 SKVKCRICK-GDHWTSKCPYKD 125 (128)
T ss_pred ceEEeCCCC-CCcccccCCccc
Confidence 356799996 999999999764
No 39
>KOG3794|consensus
Probab=49.50 E-value=8.1 Score=30.68 Aligned_cols=20 Identities=40% Similarity=1.032 Sum_probs=16.6
Q ss_pred ccceecccccccc--ccCCCCC
Q psy16623 72 IVCYKCNNYGHFA--RECATES 91 (93)
Q Consensus 72 ~~C~~Cg~~GH~a--r~C~~~~ 91 (93)
..|.+|+..||+. ++||-.+
T Consensus 125 VrC~kChkwGH~n~DreCplf~ 146 (453)
T KOG3794|consen 125 VRCLKCHKWGHINTDRECPLFG 146 (453)
T ss_pred eeEEeecccccccCCccCcchh
Confidence 7899999999998 4688543
No 40
>KOG2673|consensus
Probab=49.08 E-value=8.8 Score=30.92 Aligned_cols=18 Identities=28% Similarity=0.831 Sum_probs=16.1
Q ss_pred cceeccccccccccCCCC
Q psy16623 73 VCYKCNNYGHFARECATE 90 (93)
Q Consensus 73 ~C~~Cg~~GH~ar~C~~~ 90 (93)
.||+|+..-|-.+|||..
T Consensus 130 ~CFNC~g~~hsLrdC~rp 147 (485)
T KOG2673|consen 130 PCFNCGGTPHSLRDCPRP 147 (485)
T ss_pred cccccCCCCCccccCCCc
Confidence 399999999999999875
No 41
>KOG2560|consensus
Probab=41.18 E-value=6.7 Score=31.72 Aligned_cols=18 Identities=22% Similarity=0.637 Sum_probs=15.6
Q ss_pred ccceeccccccccccCCC
Q psy16623 72 IVCYKCNNYGHFARECAT 89 (93)
Q Consensus 72 ~~C~~Cg~~GH~ar~C~~ 89 (93)
..|-+||..+|-.++|-.
T Consensus 113 GACeNCGAmtHk~KDCmE 130 (529)
T KOG2560|consen 113 GACENCGAMTHKVKDCME 130 (529)
T ss_pred hhhhhhhhhhcchHHHhh
Confidence 459999999999999943
No 42
>COG5179 TAF1 Transcription initiation factor TFIID, subunit TAF1 [Transcription]
Probab=38.86 E-value=19 Score=30.64 Aligned_cols=20 Identities=30% Similarity=0.735 Sum_probs=15.7
Q ss_pred ccceecccccccc--ccCCCCC
Q psy16623 72 IVCYKCNNYGHFA--RECATES 91 (93)
Q Consensus 72 ~~C~~Cg~~GH~a--r~C~~~~ 91 (93)
.+|-+||+.||+. +.||..+
T Consensus 938 r~C~nCGQvGHmkTNK~CP~f~ 959 (968)
T COG5179 938 RTCGNCGQVGHMKTNKACPKFS 959 (968)
T ss_pred eecccccccccccccccCcccc
Confidence 6799999999986 4588755
No 43
>COG1644 RPB10 DNA-directed RNA polymerase, subunit N (RpoN/RPB10) [Transcription]
Probab=37.98 E-value=15 Score=21.70 Aligned_cols=10 Identities=20% Similarity=0.969 Sum_probs=7.0
Q ss_pred CcceeecCCC
Q psy16623 41 TIQCYNCFDF 50 (93)
Q Consensus 41 ~~~C~~Cg~~ 50 (93)
++.||.||+.
T Consensus 4 PiRCFsCGkv 13 (63)
T COG1644 4 PVRCFSCGKV 13 (63)
T ss_pred ceEeecCCCC
Confidence 4578888764
No 44
>COG2336 MazE Growth regulator [Signal transduction mechanisms]
Probab=33.75 E-value=27 Score=21.71 Aligned_cols=20 Identities=15% Similarity=0.089 Sum_probs=17.8
Q ss_pred CcCcceeeeechHHHHHHHH
Q psy16623 3 QRLENSLWNNYVLGILLIIK 22 (93)
Q Consensus 3 ~~~~~~~~~~~p~~~a~~i~ 22 (93)
||.+||+-+.+|.+++..|-
T Consensus 6 ~KWGNS~avrIP~~l~kql~ 25 (82)
T COG2336 6 KKWGNSAAVRIPAALLKQLN 25 (82)
T ss_pred hhhCCcceeeccHHHHHHhC
Confidence 68899999999999988775
No 45
>PHA00689 hypothetical protein
Probab=32.34 E-value=18 Score=20.66 Aligned_cols=17 Identities=18% Similarity=0.417 Sum_probs=12.4
Q ss_pred cCCCCcceeecCCCCcc
Q psy16623 37 SSTSTIQCYNCFDFGHY 53 (93)
Q Consensus 37 ~~~~~~~C~~Cg~~GH~ 53 (93)
++++...|.+|++.|-.
T Consensus 13 qepravtckrcgktglr 29 (62)
T PHA00689 13 QEPRAVTCKRCGKTGLR 29 (62)
T ss_pred cCcceeehhhccccCce
Confidence 34566789999988754
No 46
>PF10890 DUF2741: Protein of unknown function (DUF2741); InterPro: IPR020101 This entry represents subunit 8 of the Cytochrome b-c1 complex. The ubiquinol-cytochrome c reductase complex (complex III or cytochrome b-c1 complex) is part of the mitochondrial respiratory chain. This subunit, together with cytochrome b, binds to ubiquinone. In plants, the b-c1 complex contains 10 subunits: 3 respiratory subunits, 2 core proteins and 5 low-molecular weight proteins.
Probab=32.31 E-value=20 Score=21.71 Aligned_cols=26 Identities=15% Similarity=0.251 Sum_probs=22.5
Q ss_pred CCCcCcceeeeechHHHHHHHHhcCc
Q psy16623 1 MHQRLENSLWNNYVLGILLIIKQRNE 26 (93)
Q Consensus 1 ~~~~~~~~~~~~~p~~~a~~i~~~g~ 26 (93)
+||-.+.-+|-++|-.++.++.+...
T Consensus 18 ~qq~Vm~GLwKDlp~ki~hk~~enwv 43 (72)
T PF10890_consen 18 FQQKVMPGLWKDLPKKIHHKFSENWV 43 (72)
T ss_pred hhhhhhhhhhhhcHHHHHHHHhhcce
Confidence 57888889999999999999987655
No 47
>PLN00032 DNA-directed RNA polymerase; Provisional
Probab=31.17 E-value=21 Score=21.64 Aligned_cols=10 Identities=20% Similarity=0.956 Sum_probs=7.1
Q ss_pred CcceeecCCC
Q psy16623 41 TIQCYNCFDF 50 (93)
Q Consensus 41 ~~~C~~Cg~~ 50 (93)
++.||.||+.
T Consensus 4 PVRCFTCGkv 13 (71)
T PLN00032 4 PVRCFTCGKV 13 (71)
T ss_pred ceeecCCCCC
Confidence 4578888864
No 48
>KOG0341|consensus
Probab=31.13 E-value=25 Score=28.43 Aligned_cols=19 Identities=26% Similarity=0.602 Sum_probs=16.6
Q ss_pred ccceeccccccccccCCCC
Q psy16623 72 IVCYKCNNYGHFARECATE 90 (93)
Q Consensus 72 ~~C~~Cg~~GH~ar~C~~~ 90 (93)
..|-.||.-||-..|||+-
T Consensus 571 kGCayCgGLGHRItdCPKl 589 (610)
T KOG0341|consen 571 KGCAYCGGLGHRITDCPKL 589 (610)
T ss_pred cccccccCCCcccccCchh
Confidence 6799999999999999874
No 49
>PF01194 RNA_pol_N: RNA polymerases N / 8 kDa subunit; InterPro: IPR000268 In eukaryotes, there are three different forms of DNA-dependent RNA polymerases (2.7.7.6 from EC) transcribing different sets of genes. Each class of RNA polymerase is an assemblage of ten to twelve different polypeptides. In archaebacteria, there is generally a single form of RNA polymerase which also consists of an oligomeric assemblage of 10 to 13 polypeptides. Archaebacterial subunit N (gene rpoN) [] is a small protein of about 8 kDa, it is evolutionary related [] to a 8.3 kDa component shared by all three forms of eukaryotic RNA polymerases (gene RPB10 in yeast and POLR2J in mammals) as well as to African swine fever virus (ASFV) protein CP80R []. There is a conserved region which is located at the N-terminal extremity of these polymerase subunits; this region contains two cysteines that binds a zinc ion [].; GO: 0003677 DNA binding, 0003899 DNA-directed RNA polymerase activity, 0006351 transcription, DNA-dependent; PDB: 2PMZ_N 3HKZ_N 1EF4_A 3H0G_V 2Y0S_N 2R92_J 3M4O_J 3S2D_J 1R9S_J 1Y1W_J ....
Probab=30.07 E-value=21 Score=20.90 Aligned_cols=10 Identities=20% Similarity=0.956 Sum_probs=5.8
Q ss_pred CcceeecCCC
Q psy16623 41 TIQCYNCFDF 50 (93)
Q Consensus 41 ~~~C~~Cg~~ 50 (93)
++.||.||+.
T Consensus 4 PVRCFTCGkv 13 (60)
T PF01194_consen 4 PVRCFTCGKV 13 (60)
T ss_dssp SSS-STTTSB
T ss_pred ceecCCCCCC
Confidence 4567777764
No 50
>KOG3497|consensus
Probab=27.88 E-value=25 Score=20.82 Aligned_cols=10 Identities=30% Similarity=0.986 Sum_probs=6.7
Q ss_pred CcceeecCCC
Q psy16623 41 TIQCYNCFDF 50 (93)
Q Consensus 41 ~~~C~~Cg~~ 50 (93)
++.||.||+.
T Consensus 4 PiRCFtCGKv 13 (69)
T KOG3497|consen 4 PIRCFTCGKV 13 (69)
T ss_pred eeEeeecccc
Confidence 4568888764
No 51
>PRK04016 DNA-directed RNA polymerase subunit N; Provisional
Probab=26.99 E-value=27 Score=20.58 Aligned_cols=10 Identities=20% Similarity=0.956 Sum_probs=6.8
Q ss_pred CcceeecCCC
Q psy16623 41 TIQCYNCFDF 50 (93)
Q Consensus 41 ~~~C~~Cg~~ 50 (93)
++.||.||+.
T Consensus 4 PvRCFTCGkv 13 (62)
T PRK04016 4 PVRCFTCGKV 13 (62)
T ss_pred CeEecCCCCC
Confidence 4568888764
No 52
>smart00647 IBR In Between Ring fingers. the domains occurs between pairs og RING fingers
Probab=24.27 E-value=42 Score=18.33 Aligned_cols=16 Identities=25% Similarity=0.704 Sum_probs=12.4
Q ss_pred ccceeccccccccccC
Q psy16623 72 IVCYKCNNYGHFAREC 87 (93)
Q Consensus 72 ~~C~~Cg~~GH~ar~C 87 (93)
..|++|++..|.-..|
T Consensus 49 ~fC~~C~~~~H~~~~C 64 (64)
T smart00647 49 SFCFRCKVPWHSPVSC 64 (64)
T ss_pred eECCCCCCcCCCCCCC
Confidence 5799999998876544
No 53
>KOG2560|consensus
Probab=21.20 E-value=25 Score=28.59 Aligned_cols=19 Identities=26% Similarity=0.504 Sum_probs=16.5
Q ss_pred cceeecCCCCccccccCCC
Q psy16623 42 IQCYNCFDFGHYQYSCPQK 60 (93)
Q Consensus 42 ~~C~~Cg~~GH~~~~C~~~ 60 (93)
.-|.+||..+|...+|-..
T Consensus 113 GACeNCGAmtHk~KDCmER 131 (529)
T KOG2560|consen 113 GACENCGAMTHKVKDCMER 131 (529)
T ss_pred hhhhhhhhhhcchHHHhhc
Confidence 4699999999999999544
Done!