Query 048519
Match_columns 195
No_of_seqs 150 out of 298
Neff 6.8
Searched_HMMs 46136
Date Fri Mar 29 10:14:16 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/048519.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/048519hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF14227 UBN2_2: gag-polypepti 99.2 3.2E-11 7E-16 90.8 6.8 67 62-128 44-112 (119)
2 PF14223 UBN2: gag-polypeptide 99.0 5.9E-10 1.3E-14 83.9 6.3 70 58-127 38-113 (119)
3 PF00098 zf-CCHC: Zinc knuckle 98.5 3.4E-08 7.3E-13 51.1 0.8 17 176-192 2-18 (18)
4 PF13696 zf-CCHC_2: Zinc knuck 97.7 1.6E-05 3.5E-10 46.8 1.0 19 175-193 9-27 (32)
5 PF13917 zf-CCHC_3: Zinc knuck 97.0 0.00024 5.3E-09 44.5 1.0 19 174-192 4-22 (42)
6 smart00343 ZnF_C2HC zinc finge 96.7 0.00052 1.1E-08 38.2 0.7 17 176-192 1-17 (26)
7 PF14787 zf-CCHC_5: GAG-polypr 96.2 0.0015 3.3E-08 39.3 0.5 20 175-194 3-22 (36)
8 KOG0109 RNA-binding protein LA 95.8 0.0036 7.9E-08 54.4 1.0 18 175-192 161-178 (346)
9 COG5082 AIR1 Arginine methyltr 95.2 0.0074 1.6E-07 49.4 0.8 18 174-191 60-77 (190)
10 PF14392 zf-CCHC_4: Zinc knuck 95.1 0.0067 1.5E-07 38.9 0.2 18 175-192 32-49 (49)
11 PTZ00368 universal minicircle 94.5 0.015 3.3E-07 45.4 1.1 19 175-193 130-148 (148)
12 COG5082 AIR1 Arginine methyltr 94.5 0.014 3.1E-07 47.8 0.8 16 175-190 98-113 (190)
13 PF15288 zf-CCHC_6: Zinc knuck 94.4 0.021 4.5E-07 35.3 1.2 20 174-193 1-22 (40)
14 COG5222 Uncharacterized conser 93.7 0.028 6.1E-07 49.2 1.1 17 176-192 178-194 (427)
15 PF13961 DUF4219: Domain of un 92.7 0.11 2.3E-06 29.3 2.1 24 48-71 1-24 (27)
16 PF14244 UBN2_3: gag-polypepti 92.6 0.17 3.6E-06 39.5 3.9 54 45-98 10-75 (152)
17 PTZ00368 universal minicircle 91.5 0.083 1.8E-06 41.2 1.0 20 174-193 103-122 (148)
18 KOG4400 E3 ubiquitin ligase in 91.1 0.085 1.8E-06 45.0 0.8 18 175-192 144-161 (261)
19 PF12353 eIF3g: Eukaryotic tra 83.0 0.64 1.4E-05 35.8 1.3 22 171-193 103-124 (128)
20 KOG2044 5'-3' exonuclease HKE1 80.3 0.71 1.5E-05 45.3 0.8 20 174-193 260-279 (931)
21 PF03564 DUF1759: Protein of u 78.4 4.1 8.8E-05 31.0 4.4 50 45-97 84-133 (145)
22 KOG4400 E3 ubiquitin ligase in 78.4 1.1 2.5E-05 38.1 1.4 20 174-193 164-183 (261)
23 COG5179 TAF1 Transcription ini 76.6 0.74 1.6E-05 44.3 -0.3 21 173-193 936-958 (968)
24 KOG2560 RNA splicing factor - 73.7 0.64 1.4E-05 43.0 -1.4 21 173-193 111-131 (529)
25 KOG2673 Uncharacterized conser 73.2 1.6 3.6E-05 40.3 1.1 21 175-195 129-149 (485)
26 PF03732 Retrotrans_gag: Retro 64.4 8.5 0.00018 26.4 3.1 44 52-95 52-96 (96)
27 KOG0119 Splicing factor 1/bran 62.1 3.6 7.9E-05 38.5 1.0 18 176-193 287-304 (554)
28 KOG0107 Alternative splicing f 60.4 4 8.7E-05 33.4 0.8 18 175-192 101-118 (195)
29 PF10367 Vps39_2: Vacuolar sor 53.4 24 0.00053 25.0 4.0 13 86-98 13-25 (109)
30 KOG0030 Myosin essential light 52.7 35 0.00076 27.0 4.9 59 66-125 30-99 (152)
31 KOG0314 Predicted E3 ubiquitin 52.6 6.6 0.00014 36.4 1.0 19 174-192 158-176 (448)
32 PF14420 Clr5: Clr5 domain 47.0 25 0.00054 22.6 2.9 27 94-120 2-30 (54)
33 COG5126 FRQ1 Ca2+-binding prot 45.0 90 0.0019 25.0 6.3 77 47-124 13-102 (160)
34 PF08077 Cm_res_leader: Chlora 38.6 14 0.00031 18.1 0.5 10 1-10 1-10 (17)
35 KOG0341 DEAD-box protein abstr 36.2 15 0.00033 33.9 0.7 17 176-192 572-588 (610)
36 KOG3497 DNA-directed RNA polym 33.5 19 0.00041 24.3 0.6 9 175-183 5-13 (69)
37 PF02671 PAH: Paired amphipath 32.2 47 0.001 20.3 2.3 27 94-120 1-28 (47)
38 PRK13291 metal-dependent hydro 32.1 1.1E+02 0.0024 24.3 5.0 64 38-124 7-70 (173)
39 PF13427 DUF4111: Domain of un 32.1 1.1E+02 0.0023 22.5 4.6 38 67-104 37-76 (106)
40 COG1393 ArsC Arsenate reductas 30.5 58 0.0013 24.5 2.9 67 58-124 15-88 (117)
41 KOG0119 Splicing factor 1/bran 30.0 23 0.00051 33.3 0.8 19 175-193 262-280 (554)
42 KOG3794 CBF1-interacting corep 29.8 26 0.00057 32.1 1.1 19 174-192 124-144 (453)
43 PHA00689 hypothetical protein 29.4 18 0.0004 23.5 0.0 10 175-184 18-27 (62)
44 PF03960 ArsC: ArsC family; I 28.7 39 0.00084 24.6 1.7 67 58-124 10-84 (110)
45 PF05310 Tenui_NS3: Tenuivirus 28.6 19 0.00041 29.4 0.0 17 173-189 97-113 (186)
46 COG1644 RPB10 DNA-directed RNA 28.5 26 0.00056 23.7 0.7 9 175-183 5-13 (63)
47 PLN00032 DNA-directed RNA poly 28.1 24 0.00052 24.5 0.4 9 175-183 5-13 (71)
48 PF02791 DDT: DDT domain; Int 27.3 86 0.0019 20.5 3.1 27 96-122 27-53 (61)
49 PF01194 RNA_pol_N: RNA polyme 26.3 24 0.00051 23.7 0.2 9 175-183 5-13 (60)
50 PRK04016 DNA-directed RNA poly 25.3 29 0.00062 23.5 0.4 9 175-183 5-13 (62)
51 PF09706 Cas_CXXC_CXXC: CRISPR 24.9 36 0.00078 23.2 0.9 12 172-183 3-14 (69)
52 cd03034 ArsC_ArsC Arsenate Red 24.3 98 0.0021 22.7 3.2 65 60-124 15-86 (112)
53 PF13926 DUF4211: Domain of un 24.1 32 0.00069 26.8 0.5 15 174-188 116-130 (153)
54 PF07914 DUF1679: Protein of u 24.0 1.3E+02 0.0028 27.6 4.5 49 69-119 296-358 (414)
55 KOG3491 Predicted membrane pro 24.0 30 0.00066 23.2 0.3 18 15-32 36-53 (65)
56 cd01093 CRIB_PAK_like PAK (p21 23.9 32 0.0007 21.5 0.4 13 91-103 25-37 (46)
57 KOG0122 Translation initiation 23.9 45 0.00098 28.7 1.4 21 172-193 117-137 (270)
58 TIGR02791 VirB5 P-type DNA tra 23.8 1.5E+02 0.0033 24.5 4.6 65 43-107 22-100 (220)
59 KOG0031 Myosin regulatory ligh 23.8 1.5E+02 0.0032 24.0 4.2 58 47-104 25-90 (171)
60 PF06568 DUF1127: Domain of un 23.0 59 0.0013 19.6 1.5 30 52-81 6-36 (40)
61 PRK10026 arsenate reductase; P 22.6 1E+02 0.0022 24.0 3.1 66 59-124 17-89 (141)
62 TIGR02606 antidote_CC2985 puta 22.4 1.4E+02 0.0031 20.1 3.5 32 91-122 4-35 (69)
63 PF08844 DUF1815: Domain of un 22.2 44 0.00095 24.6 0.9 14 175-188 33-48 (105)
64 PF13093 FTA4: Kinetochore com 20.5 35 0.00077 28.4 0.2 44 82-125 111-156 (213)
65 KOG2985 Uncharacterized conser 20.4 26 0.00056 30.3 -0.7 19 175-193 82-100 (306)
No 1
>PF14227 UBN2_2: gag-polypeptide of LTR copia-type
Probab=99.21 E-value=3.2e-11 Score=90.80 Aligned_cols=67 Identities=18% Similarity=0.189 Sum_probs=60.4
Q ss_pred HHHHHHHHHHHHhhcCCCCCchhhHHHHHhhcccchHHHHHhhhcCC--cccCHHHHHHHHHHHHhhhh
Q 048519 62 HVLHVYNLADYLQSSLLEEGTEDYDKKLQTWNAESWGDYIKTSKHKK--KQVSLKDAIIHIRIEEKNKI 128 (195)
Q Consensus 62 ~il~~~~L~~~L~~~~~~~~~~~~~~~IL~sLP~S~~~f~~~i~~~~--~~~sleeli~~L~~eE~~r~ 128 (195)
++.++..++.+|..+|.+++|++++..||.|||++|++|+++|.+.. +++++++|+++|..||..+.
T Consensus 44 hi~~~~~l~~~L~~~g~~i~d~~~~~~lL~sLP~sy~~~~~~l~~~~~~~~~tl~~v~~~L~~ee~~~~ 112 (119)
T PF14227_consen 44 HINEFRSLVNQLKSLGVPIDDEDKVIILLSSLPPSYDSFVTALLYSKPEDELTLEEVKSKLLQEEERRK 112 (119)
T ss_pred HHHHHHHHHHhhccccccchHHHHHHHHHHcCCHhHHHHHHHHHccCCCCCcCHHHHHHHHHHHHHHHH
Confidence 55556689999999999999999999999999999999999999875 89999999999999887443
No 2
>PF14223 UBN2: gag-polypeptide of LTR copia-type
Probab=99.02 E-value=5.9e-10 Score=83.89 Aligned_cols=70 Identities=17% Similarity=0.158 Sum_probs=60.3
Q ss_pred HhHHHHHHHH----HHHHHHhhcCCCCCchhhHHHHHhhcccchHHHHHhhhcCCcc--cCHHHHHHHHHHHHhhh
Q 048519 58 EKVFHVLHVY----NLADYLQSSLLEEGTEDYDKKLQTWNAESWGDYIKTSKHKKKQ--VSLKDAIIHIRIEEKNK 127 (195)
Q Consensus 58 k~~~~il~~~----~L~~~L~~~~~~~~~~~~~~~IL~sLP~S~~~f~~~i~~~~~~--~sleeli~~L~~eE~~r 127 (195)
+...++.+|+ .|+++|+..|.+++|++++..||.+||++|+.|+++|....+. +|++||+++|..+|...
T Consensus 38 ~~~~sv~~y~~~~~~i~~~L~~~g~~i~d~~~v~~iL~~Lp~~y~~~~~~i~~~~~~~~~t~~el~~~L~~~E~~~ 113 (119)
T PF14223_consen 38 KDGESVDEYISRLKEIVDELRAIGKPISDEDLVSKILRSLPPSYDTFVTAIRNSKDLPKMTLEELISRLLAEEMRL 113 (119)
T ss_pred cccccHHHHHHHHHHhhhhhhhcCCcccchhHHHHHHhcCCchhHHHHHHHHhcCCCCcCCHHHHHHHHHHHHHHH
Confidence 4445555554 8899999999999999999999999999999999999987644 49999999999999733
No 3
>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=98.50 E-value=3.4e-08 Score=51.09 Aligned_cols=17 Identities=41% Similarity=0.968 Sum_probs=16.1
Q ss_pred ceeecCCcceecccCCC
Q 048519 176 NCFVCGKIIHYANQCRH 192 (195)
Q Consensus 176 ~C~~CgK~GH~ar~C~~ 192 (195)
+||+||+.||++++||+
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 4
>PF13696 zf-CCHC_2: Zinc knuckle
Probab=97.67 E-value=1.6e-05 Score=46.80 Aligned_cols=19 Identities=26% Similarity=0.670 Sum_probs=17.2
Q ss_pred cceeecCCcceecccCCCc
Q 048519 175 GNCFVCGKIIHYANQCRHK 193 (195)
Q Consensus 175 ~~C~~CgK~GH~ar~C~~r 193 (195)
-.|++|+++|||.++||..
T Consensus 9 Y~C~~C~~~GH~i~dCP~~ 27 (32)
T PF13696_consen 9 YVCHRCGQKGHWIQDCPTN 27 (32)
T ss_pred CEeecCCCCCccHhHCCCC
Confidence 4799999999999999873
No 5
>PF13917 zf-CCHC_3: Zinc knuckle
Probab=97.04 E-value=0.00024 Score=44.45 Aligned_cols=19 Identities=26% Similarity=0.749 Sum_probs=17.1
Q ss_pred ccceeecCCcceecccCCC
Q 048519 174 KGNCFVCGKIIHYANQCRH 192 (195)
Q Consensus 174 k~~C~~CgK~GH~ar~C~~ 192 (195)
...|+.|++.|||..+|+.
T Consensus 4 ~~~CqkC~~~GH~tyeC~~ 22 (42)
T PF13917_consen 4 RVRCQKCGQKGHWTYECPN 22 (42)
T ss_pred CCcCcccCCCCcchhhCCC
Confidence 4679999999999999993
No 6
>smart00343 ZnF_C2HC zinc finger.
Probab=96.75 E-value=0.00052 Score=38.25 Aligned_cols=17 Identities=41% Similarity=0.968 Sum_probs=15.5
Q ss_pred ceeecCCcceecccCCC
Q 048519 176 NCFVCGKIIHYANQCRH 192 (195)
Q Consensus 176 ~C~~CgK~GH~ar~C~~ 192 (195)
.|+.||+.||++++|+.
T Consensus 1 ~C~~CG~~GH~~~~C~~ 17 (26)
T smart00343 1 KCYNCGKEGHIARDCPK 17 (26)
T ss_pred CCccCCCCCcchhhCCc
Confidence 49999999999999983
No 7
>PF14787 zf-CCHC_5: GAG-polyprotein viral zinc-finger; PDB: 1CL4_A 1DSV_A.
Probab=96.23 E-value=0.0015 Score=39.31 Aligned_cols=20 Identities=50% Similarity=1.032 Sum_probs=12.5
Q ss_pred cceeecCCcceecccCCCcc
Q 048519 175 GNCFVCGKIIHYANQCRHKA 194 (195)
Q Consensus 175 ~~C~~CgK~GH~ar~C~~rK 194 (195)
.-|+.|||-.||+++|+.+.
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 46999999999999998653
No 8
>KOG0109 consensus RNA-binding protein LARK, contains RRM and retroviral-type Zn-finger domains [RNA processing and modification; General function prediction only]
Probab=95.79 E-value=0.0036 Score=54.42 Aligned_cols=18 Identities=33% Similarity=0.959 Sum_probs=16.5
Q ss_pred cceeecCCcceecccCCC
Q 048519 175 GNCFVCGKIIHYANQCRH 192 (195)
Q Consensus 175 ~~C~~CgK~GH~ar~C~~ 192 (195)
-.||.|||.|||.++||.
T Consensus 161 ~~cyrcGkeghwskEcP~ 178 (346)
T KOG0109|consen 161 SGCYRCGKEGHWSKECPV 178 (346)
T ss_pred HHheeccccccccccCCc
Confidence 369999999999999986
No 9
>COG5082 AIR1 Arginine methyltransferase-interacting protein, contains RING Zn-finger [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]
Probab=95.19 E-value=0.0074 Score=49.44 Aligned_cols=18 Identities=33% Similarity=0.792 Sum_probs=15.5
Q ss_pred ccceeecCCcceecccCC
Q 048519 174 KGNCFVCGKIIHYANQCR 191 (195)
Q Consensus 174 k~~C~~CgK~GH~ar~C~ 191 (195)
...||+||+.||.+++||
T Consensus 60 ~~~C~nCg~~GH~~~DCP 77 (190)
T COG5082 60 NPVCFNCGQNGHLRRDCP 77 (190)
T ss_pred ccccchhcccCcccccCC
Confidence 457999999999999998
No 10
>PF14392 zf-CCHC_4: Zinc knuckle
Probab=95.07 E-value=0.0067 Score=38.92 Aligned_cols=18 Identities=39% Similarity=0.929 Sum_probs=16.1
Q ss_pred cceeecCCcceecccCCC
Q 048519 175 GNCFVCGKIIHYANQCRH 192 (195)
Q Consensus 175 ~~C~~CgK~GH~ar~C~~ 192 (195)
..|++||..||..++|+.
T Consensus 32 ~~C~~C~~~gH~~~~C~k 49 (49)
T PF14392_consen 32 RFCFHCGRIGHSDKECPK 49 (49)
T ss_pred hhhcCCCCcCcCHhHcCC
Confidence 369999999999999974
No 11
>PTZ00368 universal minicircle sequence binding protein (UMSBP); Provisional
Probab=94.53 E-value=0.015 Score=45.35 Aligned_cols=19 Identities=32% Similarity=0.891 Sum_probs=12.7
Q ss_pred cceeecCCcceecccCCCc
Q 048519 175 GNCFVCGKIIHYANQCRHK 193 (195)
Q Consensus 175 ~~C~~CgK~GH~ar~C~~r 193 (195)
..||+||..||++++||++
T Consensus 130 ~~C~~Cg~~gH~~~dCp~~ 148 (148)
T PTZ00368 130 KTCYNCGQTGHLSRDCPDK 148 (148)
T ss_pred CccccCCCcCcccccCCCC
Confidence 4577777777777777653
No 12
>COG5082 AIR1 Arginine methyltransferase-interacting protein, contains RING Zn-finger [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]
Probab=94.50 E-value=0.014 Score=47.78 Aligned_cols=16 Identities=31% Similarity=1.001 Sum_probs=15.3
Q ss_pred cceeecCCcceecccC
Q 048519 175 GNCFVCGKIIHYANQC 190 (195)
Q Consensus 175 ~~C~~CgK~GH~ar~C 190 (195)
.+|++||..||++++|
T Consensus 98 ~~C~~Cg~~GH~~~dC 113 (190)
T COG5082 98 KKCYNCGETGHLSRDC 113 (190)
T ss_pred cccccccccCcccccc
Confidence 5899999999999999
No 13
>PF15288 zf-CCHC_6: Zinc knuckle
Probab=94.39 E-value=0.021 Score=35.33 Aligned_cols=20 Identities=30% Similarity=0.594 Sum_probs=16.3
Q ss_pred ccceeecCCcceec--ccCCCc
Q 048519 174 KGNCFVCGKIIHYA--NQCRHK 193 (195)
Q Consensus 174 k~~C~~CgK~GH~a--r~C~~r 193 (195)
+.+|-.||..||.+ +.||-+
T Consensus 1 k~kC~~CG~~GH~~t~k~CP~~ 22 (40)
T PF15288_consen 1 KVKCKNCGAFGHMRTNKRCPMY 22 (40)
T ss_pred CccccccccccccccCccCCCC
Confidence 35799999999999 558754
No 14
>COG5222 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=93.69 E-value=0.028 Score=49.21 Aligned_cols=17 Identities=29% Similarity=0.909 Sum_probs=15.9
Q ss_pred ceeecCCcceecccCCC
Q 048519 176 NCFVCGKIIHYANQCRH 192 (195)
Q Consensus 176 ~C~~CgK~GH~ar~C~~ 192 (195)
.||.||..|||..+|+.
T Consensus 178 ~CyRCGqkgHwIqnCpT 194 (427)
T COG5222 178 VCYRCGQKGHWIQNCPT 194 (427)
T ss_pred eEEecCCCCchhhcCCC
Confidence 69999999999999974
No 15
>PF13961 DUF4219: Domain of unknown function (DUF4219)
Probab=92.66 E-value=0.11 Score=29.31 Aligned_cols=24 Identities=21% Similarity=0.519 Sum_probs=21.3
Q ss_pred ccccchhhhhHhHHHHHHHHHHHH
Q 048519 48 FNGEKFKCWQEKVFHVLHVYNLAD 71 (195)
Q Consensus 48 f~g~~fk~Wqk~~~~il~~~~L~~ 71 (195)
|||+||..|+.++..+|...+|-+
T Consensus 1 l~g~NY~~W~~~M~~~L~~~~lW~ 24 (27)
T PF13961_consen 1 LDGTNYSTWKIRMKAYLESQDLWD 24 (27)
T ss_pred CCccCHHHHHHHHHHHHHHcchhh
Confidence 899999999999999998877654
No 16
>PF14244 UBN2_3: gag-polypeptide of LTR copia-type
Probab=92.61 E-value=0.17 Score=39.51 Aligned_cols=54 Identities=11% Similarity=0.027 Sum_probs=38.8
Q ss_pred cccccccchhhhhHhHHHHHHHHHHHHHHhh-cCCCCC-ch----------hhHHHHHhhcccchH
Q 048519 45 IELFNGEKFKCWQEKVFHVLHVYNLADYLQS-SLLEEG-TE----------DYDKKLQTWNAESWG 98 (195)
Q Consensus 45 ~~~f~g~~fk~Wqk~~~~il~~~~L~~~L~~-~~~~~~-~~----------~~~~~IL~sLP~S~~ 98 (195)
..+|||+||..|+..+..+|...++...+.. ..+|.. +. ....+|++++.++--
T Consensus 10 ~~kL~g~NY~~W~~~~~~~L~~~~l~~~i~g~~~~P~~~~~~~~~W~~~d~~v~swl~~sis~~i~ 75 (152)
T PF14244_consen 10 SIKLNGSNYLSWSQQMEMALRGKGLWGFIDGTIPKPPETDPAYEKWERKDQLVLSWLLNSISPDIL 75 (152)
T ss_pred ccCCCCccHHHHHHHHHHHHHhCCCcccccCccccccccchhhhhHHHhhhHHHHHHHHhhcHHHH
Confidence 4799999999999999999999988777764 222222 21 123577888877743
No 17
>PTZ00368 universal minicircle sequence binding protein (UMSBP); Provisional
Probab=91.48 E-value=0.083 Score=41.20 Aligned_cols=20 Identities=25% Similarity=0.743 Sum_probs=16.2
Q ss_pred ccceeecCCcceecccCCCc
Q 048519 174 KGNCFVCGKIIHYANQCRHK 193 (195)
Q Consensus 174 k~~C~~CgK~GH~ar~C~~r 193 (195)
...||.|+..||++++|++.
T Consensus 103 ~~~C~~Cg~~gH~~~~C~~~ 122 (148)
T PTZ00368 103 RRACYNCGGEGHISRDCPNA 122 (148)
T ss_pred chhhcccCcCCcchhcCCCc
Confidence 34699999999999999763
No 18
>KOG4400 consensus E3 ubiquitin ligase interacting with arginine methyltransferase [Posttranslational modification, protein turnover, chaperones]
Probab=91.13 E-value=0.085 Score=45.01 Aligned_cols=18 Identities=28% Similarity=0.931 Sum_probs=16.6
Q ss_pred cceeecCCcceecccCCC
Q 048519 175 GNCFVCGKIIHYANQCRH 192 (195)
Q Consensus 175 ~~C~~CgK~GH~ar~C~~ 192 (195)
..||.||+.||+.++|+.
T Consensus 144 ~~Cy~Cg~~GH~s~~C~~ 161 (261)
T KOG4400|consen 144 AKCYSCGEQGHISDDCPE 161 (261)
T ss_pred CccCCCCcCCcchhhCCC
Confidence 679999999999999985
No 19
>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=83.04 E-value=0.64 Score=35.82 Aligned_cols=22 Identities=27% Similarity=0.611 Sum_probs=18.3
Q ss_pred CCCccceeecCCcceecccCCCc
Q 048519 171 ANKKGNCFVCGKIIHYANQCRHK 193 (195)
Q Consensus 171 ~k~k~~C~~CgK~GH~ar~C~~r 193 (195)
......|.+|+ -.||...||.+
T Consensus 103 ~~~~v~CR~Ck-GdH~T~~CPyK 124 (128)
T PF12353_consen 103 GKSKVKCRICK-GDHWTSKCPYK 124 (128)
T ss_pred CCceEEeCCCC-CCcccccCCcc
Confidence 34556899996 99999999976
No 20
>KOG2044 consensus 5'-3' exonuclease HKE1/RAT1 [Replication, recombination and repair; RNA processing and modification]
Probab=80.33 E-value=0.71 Score=45.33 Aligned_cols=20 Identities=40% Similarity=0.909 Sum_probs=17.3
Q ss_pred ccceeecCCcceecccCCCc
Q 048519 174 KGNCFVCGKIIHYANQCRHK 193 (195)
Q Consensus 174 k~~C~~CgK~GH~ar~C~~r 193 (195)
...||.||..||.+.+|...
T Consensus 260 ~~~C~~cgq~gh~~~dc~g~ 279 (931)
T KOG2044|consen 260 PRRCFLCGQTGHEAKDCEGK 279 (931)
T ss_pred cccchhhcccCCcHhhcCCc
Confidence 34699999999999999754
No 21
>PF03564 DUF1759: Protein of unknown function (DUF1759); InterPro: IPR005312 This is a small family of proteins of unknown function.
Probab=78.44 E-value=4.1 Score=31.04 Aligned_cols=50 Identities=8% Similarity=-0.073 Sum_probs=34.7
Q ss_pred cccccccchhhhhHhHHHHHHHHHHHHHHhhcCCCCCchhhHHHHHhhcccch
Q 048519 45 IELFNGEKFKCWQEKVFHVLHVYNLADYLQSSLLEEGTEDYDKKLQTWNAESW 97 (195)
Q Consensus 45 ~~~f~g~~fk~Wqk~~~~il~~~~L~~~L~~~~~~~~~~~~~~~IL~sLP~S~ 97 (195)
++++...+...++. .+..+-.+...|..+|..+++...+..|+++||+.-
T Consensus 84 l~~~~~~d~~~L~~---~~~~v~~~i~~L~~lg~~~~~~~l~~~i~~KLp~~~ 133 (145)
T PF03564_consen 84 LPPISNDDPEALRS---LVDKVNNCIRALKALGVNVDDPLLISIILSKLPPEI 133 (145)
T ss_pred cccccchhHHHHHH---HHHHHHHHHHHHHHcCCCCCCHHHHHHHHHHCCHHH
Confidence 33444444444333 444455777889999999988888999999999863
No 22
>KOG4400 consensus E3 ubiquitin ligase interacting with arginine methyltransferase [Posttranslational modification, protein turnover, chaperones]
Probab=78.35 E-value=1.1 Score=38.08 Aligned_cols=20 Identities=45% Similarity=1.004 Sum_probs=17.8
Q ss_pred ccceeecCCcceecccCCCc
Q 048519 174 KGNCFVCGKIIHYANQCRHK 193 (195)
Q Consensus 174 k~~C~~CgK~GH~ar~C~~r 193 (195)
.+.||.|++.||..++|+..
T Consensus 164 ~~~c~~c~~~~h~~~~C~~~ 183 (261)
T KOG4400|consen 164 GGTCFRCGKVGHGSRDCPSK 183 (261)
T ss_pred CCccccCCCcceecccCCcc
Confidence 56899999999999999863
No 23
>COG5179 TAF1 Transcription initiation factor TFIID, subunit TAF1 [Transcription]
Probab=76.57 E-value=0.74 Score=44.26 Aligned_cols=21 Identities=24% Similarity=0.580 Sum_probs=17.1
Q ss_pred CccceeecCCcceeccc--CCCc
Q 048519 173 KKGNCFVCGKIIHYANQ--CRHK 193 (195)
Q Consensus 173 ~k~~C~~CgK~GH~ar~--C~~r 193 (195)
.-.+|-+||+.||++-+ ||.+
T Consensus 936 Ttr~C~nCGQvGHmkTNK~CP~f 958 (968)
T COG5179 936 TTRTCGNCGQVGHMKTNKACPKF 958 (968)
T ss_pred cceecccccccccccccccCccc
Confidence 34579999999999876 8764
No 24
>KOG2560 consensus RNA splicing factor - Slu7p [RNA processing and modification]
Probab=73.73 E-value=0.64 Score=42.95 Aligned_cols=21 Identities=33% Similarity=0.885 Sum_probs=18.1
Q ss_pred CccceeecCCcceecccCCCc
Q 048519 173 KKGNCFVCGKIIHYANQCRHK 193 (195)
Q Consensus 173 ~k~~C~~CgK~GH~ar~C~~r 193 (195)
.++.|.+||-.||..++|-.|
T Consensus 111 RKGACeNCGAmtHk~KDCmER 131 (529)
T KOG2560|consen 111 RKGACENCGAMTHKVKDCMER 131 (529)
T ss_pred hhhhhhhhhhhhcchHHHhhc
Confidence 457899999999999999554
No 25
>KOG2673 consensus Uncharacterized conserved protein, contains PSP domain [Function unknown]
Probab=73.18 E-value=1.6 Score=40.29 Aligned_cols=21 Identities=29% Similarity=0.676 Sum_probs=18.3
Q ss_pred cceeecCCcceecccCCCccC
Q 048519 175 GNCFVCGKIIHYANQCRHKAQ 195 (195)
Q Consensus 175 ~~C~~CgK~GH~ar~C~~rK~ 195 (195)
..||+||-.-|.-++||++++
T Consensus 129 ~~CFNC~g~~hsLrdC~rp~d 149 (485)
T KOG2673|consen 129 DPCFNCGGTPHSLRDCPRPFD 149 (485)
T ss_pred ccccccCCCCCccccCCCccc
Confidence 459999999999999998763
No 26
>PF03732 Retrotrans_gag: Retrotransposon gag protein ; InterPro: IPR005162 Transposable elements (TEs) promote various chromosomal rearrangements more efficiently, and often more specifically, than other cellular processes. Retrotransposons are structurally similar to retroviruses and are bounded by long terminal repeats. This entry represents eukaryotic Gag or capsid-related retrotranspon-related proteins. There is a central motif QGXXEXXXXXFXXLXXH that is common to Retroviridae gag-proteins, but is poorly conserved.
Probab=64.42 E-value=8.5 Score=26.35 Aligned_cols=44 Identities=9% Similarity=-0.105 Sum_probs=33.5
Q ss_pred chhhhhHhHHHHHHHHHHHHHHhhcCC-CCCchhhHHHHHhhccc
Q 048519 52 KFKCWQEKVFHVLHVYNLADYLQSSLL-EEGTEDYDKKLQTWNAE 95 (195)
Q Consensus 52 ~fk~Wqk~~~~il~~~~L~~~L~~~~~-~~~~~~~~~~IL~sLP~ 95 (195)
.|...+.+..++.+|+.....|...-. ++++++++..+++||.|
T Consensus 52 ~l~~l~Q~~esv~~y~~rf~~l~~~~~~~~~e~~~v~~f~~GL~~ 96 (96)
T PF03732_consen 52 ELNSLRQGNESVREYVNRFRELARRAPPPMDEEMLVERFIRGLRP 96 (96)
T ss_pred hhhhhhccCCcHHHHHHHHHHHHHHCCCCcCHHHHHHHHHHCCCC
Confidence 344444478889999877777776444 69999999999999964
No 27
>KOG0119 consensus Splicing factor 1/branch point binding protein (RRM superfamily) [RNA processing and modification]
Probab=62.14 E-value=3.6 Score=38.49 Aligned_cols=18 Identities=28% Similarity=0.785 Sum_probs=16.3
Q ss_pred ceeecCCcceecccCCCc
Q 048519 176 NCFVCGKIIHYANQCRHK 193 (195)
Q Consensus 176 ~C~~CgK~GH~ar~C~~r 193 (195)
.|++||-.||++++|...
T Consensus 287 ~c~~cg~~gH~~~dc~~~ 304 (554)
T KOG0119|consen 287 VCKICGPLGHISIDCKVN 304 (554)
T ss_pred cccccCCcccccccCCCc
Confidence 899999999999999654
No 28
>KOG0107 consensus Alternative splicing factor SRp20/9G8 (RRM superfamily) [RNA processing and modification]
Probab=60.40 E-value=4 Score=33.41 Aligned_cols=18 Identities=33% Similarity=0.960 Sum_probs=15.7
Q ss_pred cceeecCCcceecccCCC
Q 048519 175 GNCFVCGKIIHYANQCRH 192 (195)
Q Consensus 175 ~~C~~CgK~GH~ar~C~~ 192 (195)
+.|+.||..||+.++|..
T Consensus 101 ~~~~r~G~rg~~~r~~~~ 118 (195)
T KOG0107|consen 101 GFCYRCGERGHIGRNCKD 118 (195)
T ss_pred cccccCCCcccccccccc
Confidence 459999999999999954
No 29
>PF10367 Vps39_2: Vacuolar sorting protein 39 domain 2; InterPro: IPR019453 This entry represents a domain found in the vacuolar sorting protein Vps39 and transforming growth factor beta receptor-associated protein Trap1. Vps39, a component of the C-Vps complex, is thought to be required for the fusion of endosomes and other types of transport intermediates with the vacuole [, ]. In Saccharomyces cerevisiae (Baker's yeast), Vps39 has been shown to stimulate nucleotide exchange []. Trap1 plays a role in the TGF-beta/activin signaling pathway. It associates with inactive heteromeric TGF-beta and activin receptor complexes, mainly through the type II receptor, and is released upon activation of signaling [, ]. The precise function of this domain has not been characterised In Vps39 this domain is involved in localisation and in mediating the interactions with Vps11 [].
Probab=53.40 E-value=24 Score=24.99 Aligned_cols=13 Identities=8% Similarity=0.268 Sum_probs=9.4
Q ss_pred HHHHHhhcccchH
Q 048519 86 DKKLQTWNAESWG 98 (195)
Q Consensus 86 ~~~IL~sLP~S~~ 98 (195)
...||.-||++|.
T Consensus 13 ~~~vL~~LP~~~~ 25 (109)
T PF10367_consen 13 PIDVLKLLPDDWP 25 (109)
T ss_pred HHHHHHhCcCCCC
Confidence 4667777888774
No 30
>KOG0030 consensus Myosin essential light chain, EF-Hand protein superfamily [Cytoskeleton]
Probab=52.72 E-value=35 Score=26.98 Aligned_cols=59 Identities=14% Similarity=0.169 Sum_probs=40.0
Q ss_pred HHHHHHHHhhcCCCCCchhhHHHHHhhccc--------chHHHHHhhh---cCCcccCHHHHHHHHHHHHh
Q 048519 66 VYNLADYLQSSLLEEGTEDYDKKLQTWNAE--------SWGDYIKTSK---HKKKQVSLKDAIIHIRIEEK 125 (195)
Q Consensus 66 ~~~L~~~L~~~~~~~~~~~~~~~IL~sLP~--------S~~~f~~~i~---~~~~~~sleeli~~L~~eE~ 125 (195)
+..++|.|+.+|..+++.++.. .|...-+ +|+.|..-+. ..++..+++|.++-|+++++
T Consensus 30 ~~q~gdvlRalG~nPT~aeV~k-~l~~~~~~~~~~~rl~FE~fLpm~q~vaknk~q~t~edfvegLrvFDk 99 (152)
T KOG0030|consen 30 GSQVGDVLRALGQNPTNAEVLK-VLGQPKRREMNVKRLDFEEFLPMYQQVAKNKDQGTYEDFVEGLRVFDK 99 (152)
T ss_pred HHHHHHHHHHhcCCCcHHHHHH-HHcCcccchhhhhhhhHHHHHHHHHHHHhccccCcHHHHHHHHHhhcc
Confidence 3478899999998877666543 3333222 3666655443 34688899999999988774
No 31
>KOG0314 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=52.63 E-value=6.6 Score=36.41 Aligned_cols=19 Identities=16% Similarity=0.401 Sum_probs=16.9
Q ss_pred ccceeecCCcceecccCCC
Q 048519 174 KGNCFVCGKIIHYANQCRH 192 (195)
Q Consensus 174 k~~C~~CgK~GH~ar~C~~ 192 (195)
...|+.|+..|||.+.|+.
T Consensus 158 sy~c~rc~~~g~wikacpt 176 (448)
T KOG0314|consen 158 SYKCVKCPTPGPWIKACPT 176 (448)
T ss_pred CcceecCCCCCccceeccc
Confidence 3579999999999999975
No 32
>PF14420 Clr5: Clr5 domain
Probab=46.99 E-value=25 Score=22.65 Aligned_cols=27 Identities=11% Similarity=0.267 Sum_probs=21.8
Q ss_pred ccchHHHHHhhhc--CCcccCHHHHHHHH
Q 048519 94 AESWGDYIKTSKH--KKKQVSLKDAIIHI 120 (195)
Q Consensus 94 P~S~~~f~~~i~~--~~~~~sleeli~~L 120 (195)
+..|+.++..|.. -.+..||+||+..+
T Consensus 2 ~~~We~~K~~I~~LY~~e~~tl~~v~~~M 30 (54)
T PF14420_consen 2 DEDWEPHKEEIERLYIDENKTLEEVMEIM 30 (54)
T ss_pred cchHHHHHHHHHHHHHhCCCcHHHHHHHH
Confidence 4678888888863 56888999999887
No 33
>COG5126 FRQ1 Ca2+-binding protein (EF-Hand superfamily) [Signal transduction mechanisms / Cytoskeleton / Cell division and chromosome partitioning / General function prediction only]
Probab=44.97 E-value=90 Score=24.97 Aligned_cols=77 Identities=10% Similarity=0.033 Sum_probs=54.9
Q ss_pred cccccchhhhhHhHHHHHH-------HHHHHHHHhhcCCCCCchhhHHHHHhhccc-----chHHHHHhhhcCC-cccCH
Q 048519 47 LFNGEKFKCWQEKVFHVLH-------VYNLADYLQSSLLEEGTEDYDKKLQTWNAE-----SWGDYIKTSKHKK-KQVSL 113 (195)
Q Consensus 47 ~f~g~~fk~Wqk~~~~il~-------~~~L~~~L~~~~~~~~~~~~~~~IL~sLP~-----S~~~f~~~i~~~~-~~~sl 113 (195)
.|+..+.++|++....... +-.|...|+.+|-..++ ..+..|++.++. .|..|.+.+.... ..-+-
T Consensus 13 ~~t~~qi~~lkeaF~l~D~d~~G~I~~~el~~ilr~lg~~~s~-~ei~~l~~~~d~~~~~idf~~Fl~~ms~~~~~~~~~ 91 (160)
T COG5126 13 QLTEEQIQELKEAFQLFDRDSDGLIDRNELGKILRSLGFNPSE-AEINKLFEEIDAGNETVDFPEFLTVMSVKLKRGDKE 91 (160)
T ss_pred cCCHHHHHHHHHHHHHhCcCCCCCCcHHHHHHHHHHcCCCCcH-HHHHHHHHhccCCCCccCHHHHHHHHHHHhccCCcH
Confidence 6888999999998766543 34888889988888764 456777888884 6778887775433 33346
Q ss_pred HHHHHHHHHHH
Q 048519 114 KDAIIHIRIEE 124 (195)
Q Consensus 114 eeli~~L~~eE 124 (195)
+||..+...+.
T Consensus 92 Eel~~aF~~fD 102 (160)
T COG5126 92 EELREAFKLFD 102 (160)
T ss_pred HHHHHHHHHhC
Confidence 67776666555
No 34
>PF08077 Cm_res_leader: Chloramphenicol resistance gene leader peptide; InterPro: IPR012537 This family consists of chloramphenicol (Cm) resistance gene leader peptides. Inducible resistance to Cm in both Gram-positive and Gram-negative bacteria is controlled by translation attenuation. In translation attenuation, the ribosome-binding-site (RBS) for the resistance determinant is sequestered in a secondary structure domain within the mRNA. Preceding the secondary structure is a short, translated ORF termed the leader. Ribosome stalling in the leader causes the destabilisation of the downstream secondary structure, allowing initiation of translation of the Cm resistance gene [].
Probab=38.59 E-value=14 Score=18.13 Aligned_cols=10 Identities=50% Similarity=0.730 Sum_probs=7.3
Q ss_pred CCCCCCCccc
Q 048519 1 MSDLPPSLAT 10 (195)
Q Consensus 1 ~~~~~~~~~~ 10 (195)
||.||+.++.
T Consensus 1 msgvpgalav 10 (17)
T PF08077_consen 1 MSGVPGALAV 10 (17)
T ss_pred CCCCCceEEE
Confidence 7888887653
No 35
>KOG0341 consensus DEAD-box protein abstrakt [RNA processing and modification]
Probab=36.19 E-value=15 Score=33.92 Aligned_cols=17 Identities=29% Similarity=0.780 Sum_probs=16.1
Q ss_pred ceeecCCcceecccCCC
Q 048519 176 NCFVCGKIIHYANQCRH 192 (195)
Q Consensus 176 ~C~~CgK~GH~ar~C~~ 192 (195)
.|-|||--||...+||+
T Consensus 572 GCayCgGLGHRItdCPK 588 (610)
T KOG0341|consen 572 GCAYCGGLGHRITDCPK 588 (610)
T ss_pred ccccccCCCcccccCch
Confidence 59999999999999996
No 36
>KOG3497 consensus DNA-directed RNA polymerase, subunit RPB10 [Transcription]
Probab=33.47 E-value=19 Score=24.35 Aligned_cols=9 Identities=56% Similarity=1.431 Sum_probs=7.7
Q ss_pred cceeecCCc
Q 048519 175 GNCFVCGKI 183 (195)
Q Consensus 175 ~~C~~CgK~ 183 (195)
..||.|||.
T Consensus 5 iRCFtCGKv 13 (69)
T KOG3497|consen 5 IRCFTCGKV 13 (69)
T ss_pred eEeeecccc
Confidence 479999996
No 37
>PF02671 PAH: Paired amphipathic helix repeat; InterPro: IPR003822 This family contains the paired amphipathic helix (PAH) repeat. The family contains the eukaryotic Sin3 proteins, which have at least three PAH domains (PAH1, PAH2, and PAH3). Sin3 proteins are components of a co-repressor complex that silences transcription, playing important roles in the transition between proliferation and differentiation. Sin3 proteins are recruited to the DNA by various DNA-binding transcription factors such as the Mad family of repressors, Mnt/Rox, PLZF, MeCP2, p53, REST/NRSF, MNFbeta, Sp1, TGIF and Ume6 []. Sin3 acts as a scaffold protein that in turn recruits histone-binding proteins RbAp46/RbAp48 and histone deacetylases HDAC1/HDAC2, which deacetylate the core histones resulting in a repressed state of the chromatin []. The PAH domains are protein-protein interaction domains through which Sin3 fulfils its role as a scaffold. The PAH2 domain of Sin3 can interact with a wide range of unrelated and structurally diverse transcription factors that bind using different interaction motifs. For example, the Sin3 PAH2 domain can interact with the unrelated Mad and HBP1 factors using alternative interaction motifs that involve binding in opposite helical orientations [].; GO: 0006355 regulation of transcription, DNA-dependent, 0005634 nucleus; PDB: 1S5Q_B 2L9S_B 1G1E_B 1S5R_B 2CR7_A 2CZY_A 2LD7_B 2RMR_A 2RMS_A 1PD7_A ....
Probab=32.24 E-value=47 Score=20.35 Aligned_cols=27 Identities=22% Similarity=0.462 Sum_probs=21.2
Q ss_pred ccchHHHHHhhhc-CCcccCHHHHHHHH
Q 048519 94 AESWGDYIKTSKH-KKKQVSLKDAIIHI 120 (195)
Q Consensus 94 P~S~~~f~~~i~~-~~~~~sleeli~~L 120 (195)
|.-|+.|...+.. +...++.++|+..+
T Consensus 1 p~~Y~~FL~il~~y~~~~~~~~~v~~~v 28 (47)
T PF02671_consen 1 PEVYNEFLKILNDYKKGRISRSEVIEEV 28 (47)
T ss_dssp HHHHHHHHHHHHHHHCTCSCHHHHHHHH
T ss_pred ChHHHHHHHHHHHHHhcCCCHHHHHHHH
Confidence 5678889888863 66788999988765
No 38
>PRK13291 metal-dependent hydrolase; Provisional
Probab=32.11 E-value=1.1e+02 Score=24.25 Aligned_cols=64 Identities=8% Similarity=0.072 Sum_probs=39.2
Q ss_pred CCCcccccccccccchhhhhHhHHHHHHHHHHHHHHhhcCCCCCchhhHHHHHhhcccchHHHHHhhhcCCcccCHHHHH
Q 048519 38 NLPDASKIELFNGEKFKCWQEKVFHVLHVYNLADYLQSSLLEEGTEDYDKKLQTWNAESWGDYIKTSKHKKKQVSLKDAI 117 (195)
Q Consensus 38 ~~~~~~~~~~f~g~~fk~Wqk~~~~il~~~~L~~~L~~~~~~~~~~~~~~~IL~sLP~S~~~f~~~i~~~~~~~sleeli 117 (195)
+.+....+++|+..+...|-+.+... -. ....+|.+|++++-+. ....+.||+.||+
T Consensus 7 ~~~~~~~~~~~~~~~~~~~i~~l~~~------~~-------------~l~~~l~~lsee~l~~----~~~~gkWSi~Evl 63 (173)
T PRK13291 7 PIGQFQYPEEITEEQIQEWIAEIEAL------PN-------------ELRAAVSGLSDEQLDT----PYREGGWTVRQVV 63 (173)
T ss_pred CCCCCCCCCCCCHHHHHHHHHHHHHH------HH-------------HHHHHHhcCCHHHHcC----CCCCCCCcHHHHH
Confidence 45556677778777776543333222 11 2245667776665322 3456899999999
Q ss_pred HHHHHHH
Q 048519 118 IHIRIEE 124 (195)
Q Consensus 118 ~~L~~eE 124 (195)
.+|.-.|
T Consensus 64 ~HL~D~e 70 (173)
T PRK13291 64 HHVADSH 70 (173)
T ss_pred HHHHHHH
Confidence 9997444
No 39
>PF13427 DUF4111: Domain of unknown function (DUF4111)
Probab=32.06 E-value=1.1e+02 Score=22.51 Aligned_cols=38 Identities=16% Similarity=0.156 Sum_probs=28.2
Q ss_pred HHHHHHHhh--cCCCCCchhhHHHHHhhcccchHHHHHhh
Q 048519 67 YNLADYLQS--SLLEEGTEDYDKKLQTWNAESWGDYIKTS 104 (195)
Q Consensus 67 ~~L~~~L~~--~~~~~~~~~~~~~IL~sLP~S~~~f~~~i 104 (195)
++|+..|.. -|.-.+-+.-..+.|..||+.|.+++..-
T Consensus 37 L~LcR~~~tl~tg~i~SK~~aa~Wal~~lp~~~~~~i~~A 76 (106)
T PF13427_consen 37 LNLCRILYTLRTGEIVSKDEAAEWALERLPEEWRPLIQEA 76 (106)
T ss_pred HHHHHHHHHHHhCCcccHHHHHHHHHHHCCHHHHHHHHHH
Confidence 345544443 46677777788999999999999988754
No 40
>COG1393 ArsC Arsenate reductase and related proteins, glutaredoxin family [Inorganic ion transport and metabolism]
Probab=30.51 E-value=58 Score=24.48 Aligned_cols=67 Identities=15% Similarity=0.083 Sum_probs=48.2
Q ss_pred HhHHHHHHHHHHHHHHhhcCCCCCchhhHHHHHhhcccchHHHHHhh-------hcCCcccCHHHHHHHHHHHH
Q 048519 58 EKVFHVLHVYNLADYLQSSLLEEGTEDYDKKLQTWNAESWGDYIKTS-------KHKKKQVSLKDAIIHIRIEE 124 (195)
Q Consensus 58 k~~~~il~~~~L~~~L~~~~~~~~~~~~~~~IL~sLP~S~~~f~~~i-------~~~~~~~sleeli~~L~~eE 124 (195)
++...||+--++.++.++.....++.+....+|+.++..|+.+..+- .-.+..++.++++..|..+-
T Consensus 15 rka~~~L~~~gi~~~~~~y~~~~~s~~eL~~~l~~~g~~~~~li~t~~~~~r~L~~~~~~~~~~~~~~~i~~~~ 88 (117)
T COG1393 15 RKALAWLEEHGIEYTFIDYLKTPPSREELKKILSKLGDGVEELINTRGTTYRELNLDKEDLSDEELIEALLENP 88 (117)
T ss_pred HHHHHHHHHcCCCcEEEEeecCCCCHHHHHHHHHHcCccHHHHHHhccchHHHcCCcccccChHHHHHHHHhCh
Confidence 45667777777888777777666677777888999998899887643 21235778888888775554
No 41
>KOG0119 consensus Splicing factor 1/branch point binding protein (RRM superfamily) [RNA processing and modification]
Probab=29.99 E-value=23 Score=33.32 Aligned_cols=19 Identities=26% Similarity=0.579 Sum_probs=17.1
Q ss_pred cceeecCCcceecccCCCc
Q 048519 175 GNCFVCGKIIHYANQCRHK 193 (195)
Q Consensus 175 ~~C~~CgK~GH~ar~C~~r 193 (195)
..|.+||-.||..-+|+.+
T Consensus 262 ~~c~~cg~~~H~q~~cp~r 280 (554)
T KOG0119|consen 262 RACRNCGSTGHKQYDCPGR 280 (554)
T ss_pred ccccccCCCccccccCCcc
Confidence 4699999999999999875
No 42
>KOG3794 consensus CBF1-interacting corepressor CIR and related proteins [Transcription]
Probab=29.81 E-value=26 Score=32.06 Aligned_cols=19 Identities=26% Similarity=0.567 Sum_probs=15.4
Q ss_pred ccceeecCCcceec--ccCCC
Q 048519 174 KGNCFVCGKIIHYA--NQCRH 192 (195)
Q Consensus 174 k~~C~~CgK~GH~a--r~C~~ 192 (195)
.+.|..|++-||.. ++||-
T Consensus 124 NVrC~kChkwGH~n~DreCpl 144 (453)
T KOG3794|consen 124 NVRCLKCHKWGHINTDRECPL 144 (453)
T ss_pred eeeEEeecccccccCCccCcc
Confidence 45799999999986 55874
No 43
>PHA00689 hypothetical protein
Probab=29.42 E-value=18 Score=23.45 Aligned_cols=10 Identities=40% Similarity=0.654 Sum_probs=8.7
Q ss_pred cceeecCCcc
Q 048519 175 GNCFVCGKII 184 (195)
Q Consensus 175 ~~C~~CgK~G 184 (195)
.+|-.|||.|
T Consensus 18 vtckrcgktg 27 (62)
T PHA00689 18 VTCKRCGKTG 27 (62)
T ss_pred eehhhccccC
Confidence 5799999986
No 44
>PF03960 ArsC: ArsC family; InterPro: IPR006660 Several bacterial taxon have a chromosomal resistance system, encoded by the ars operon, for the detoxification of arsenate, arsenite, and antimonite []. This system transports arsenite and antimonite out of the cell. The pump is composed of two polypeptides, the products of the arsA and arsB genes. This two-subunit enzyme produces resistance to arsenite and antimonite. Arsenate, however, must first be reduced to arsenite before it is extruded. A third gene, arsC, expands the substrate specificity to allow for arsenate pumping and resistance. ArsC is an approximately 150-residue arsenate reductase that uses reduced glutathione (GSH) to convert arsenate to arsenite with a redox active cysteine residue in the active site. ArsC forms an active quaternary complex with GSH, arsenate, and glutaredoxin 1 (Grx1). The three ligands must be present simultaneously for reduction to occur []. The arsC family also comprises the Spx proteins which are GRAM-positive bacterial transcription factors that regulate the transcription of multiple genes in response to disulphide stress []. The arsC protein structure has been solved []. It belongs to the thioredoxin superfamily fold which is defined by a beta-sheet core surrounded by alpha-helices. The active cysteine residue of ArsC is located in the loop between the first beta-strand and the first helix, which is also conserved in the Spx protein and its homologues.; PDB: 2KOK_A 1SK1_A 1SK2_A 1JZW_A 1J9B_A 1S3C_A 1SD8_A 1SD9_A 1I9D_A 1SK0_A ....
Probab=28.67 E-value=39 Score=24.55 Aligned_cols=67 Identities=18% Similarity=0.059 Sum_probs=41.0
Q ss_pred HhHHHHHHHHHHHHHHhhcCCCCCchhhHHHHHhhcccchHHHHHh----hh----cCCcccCHHHHHHHHHHHH
Q 048519 58 EKVFHVLHVYNLADYLQSSLLEEGTEDYDKKLQTWNAESWGDYIKT----SK----HKKKQVSLKDAIIHIRIEE 124 (195)
Q Consensus 58 k~~~~il~~~~L~~~L~~~~~~~~~~~~~~~IL~sLP~S~~~f~~~----i~----~~~~~~sleeli~~L~~eE 124 (195)
++..-+|+--++.++..++.....+......+|..++.+++.++.+ +. .....++.+|++..|..+=
T Consensus 10 rka~~~L~~~gi~~~~~d~~k~p~s~~el~~~l~~~~~~~~~lin~~~~~~k~l~~~~~~~~s~~e~i~~l~~~p 84 (110)
T PF03960_consen 10 RKALKWLEENGIEYEFIDYKKEPLSREELRELLSKLGNGPDDLINTRSKTYKELGKLKKDDLSDEELIELLLENP 84 (110)
T ss_dssp HHHHHHHHHTT--EEEEETTTS---HHHHHHHHHHHTSSGGGGB-TTSHHHHHTTHHHCTTSBHHHHHHHHHHSG
T ss_pred HHHHHHHHHcCCCeEeehhhhCCCCHHHHHHHHHHhcccHHHHhcCccchHhhhhhhhhhhhhhHHHHHHHHhCh
Confidence 3445556666777777777777777777888888888666655532 11 2237889999998774443
No 45
>PF05310 Tenui_NS3: Tenuivirus movement protein; InterPro: IPR007974 This family of ssRNA negative-strand crop plant tenuivirus proteins appears to combine PV2 [], NS2 [], NS3, and PV3 proteins. Plant viruses encode specific proteins known as movement proteins (MPs) to control their spread through plasmodesmata (PD) in walls between cells as well as from leaf to leaf via vascular-dependent transport. During this movement process, the virally encoded MPs interact with viral genomes for transport from the viral replication sites to the PDs in the walls of infected cells along the cytoskeleton and/or endoplasmic reticulum (ER) network. The virus is then thought to move through the PDs in the form of MP-associated ribonucleoprotein complexes or as virions []. The NS3 protein appears to function as an RNA silencing suppressor [].; PDB: 3AJF_A.
Probab=28.65 E-value=19 Score=29.44 Aligned_cols=17 Identities=24% Similarity=0.532 Sum_probs=0.0
Q ss_pred CccceeecCCcceeccc
Q 048519 173 KKGNCFVCGKIIHYANQ 189 (195)
Q Consensus 173 ~k~~C~~CgK~GH~ar~ 189 (195)
.+.+||.|.|+.|+..+
T Consensus 97 ~~tKCWlCdk~~~~~t~ 113 (186)
T PF05310_consen 97 PKTKCWLCDKPSYQETD 113 (186)
T ss_dssp -----------------
T ss_pred CccceEEecchhhhccC
Confidence 35689999999998765
No 46
>COG1644 RPB10 DNA-directed RNA polymerase, subunit N (RpoN/RPB10) [Transcription]
Probab=28.50 E-value=26 Score=23.69 Aligned_cols=9 Identities=56% Similarity=1.438 Sum_probs=7.7
Q ss_pred cceeecCCc
Q 048519 175 GNCFVCGKI 183 (195)
Q Consensus 175 ~~C~~CgK~ 183 (195)
..||-||+.
T Consensus 5 iRCFsCGkv 13 (63)
T COG1644 5 VRCFSCGKV 13 (63)
T ss_pred eEeecCCCC
Confidence 579999986
No 47
>PLN00032 DNA-directed RNA polymerase; Provisional
Probab=28.06 E-value=24 Score=24.51 Aligned_cols=9 Identities=56% Similarity=1.475 Sum_probs=7.7
Q ss_pred cceeecCCc
Q 048519 175 GNCFVCGKI 183 (195)
Q Consensus 175 ~~C~~CgK~ 183 (195)
..||-|||.
T Consensus 5 VRCFTCGkv 13 (71)
T PLN00032 5 VRCFTCGKV 13 (71)
T ss_pred eeecCCCCC
Confidence 579999996
No 48
>PF02791 DDT: DDT domain; InterPro: IPR004022 This domain is predicted to be a DNA binding domain. The DDT domain is named after (DNA binding homeobox and Different Transcription factors). It is found in foetal Alzheimer antigen and several hypothetical and uncharacterised proteins.
Probab=27.33 E-value=86 Score=20.49 Aligned_cols=27 Identities=7% Similarity=0.003 Sum_probs=22.1
Q ss_pred chHHHHHhhhcCCcccCHHHHHHHHHH
Q 048519 96 SWGDYIKTSKHKKKQVSLKDAIIHIRI 122 (195)
Q Consensus 96 S~~~f~~~i~~~~~~~sleeli~~L~~ 122 (195)
++++|..++.+.....-+.|++..|..
T Consensus 27 tlddf~~AL~~~~~~~ll~ei~~~LL~ 53 (61)
T PF02791_consen 27 TLDDFEQALLCNDPSGLLAEIHCALLK 53 (61)
T ss_pred CHHHHHHHHcCCCcchhHHHHHHHHHH
Confidence 889999999988766688888887753
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=26.32 E-value=24 Score=23.73 Aligned_cols=9 Identities=56% Similarity=1.475 Sum_probs=6.7
Q ss_pred cceeecCCc
Q 048519 175 GNCFVCGKI 183 (195)
Q Consensus 175 ~~C~~CgK~ 183 (195)
..||-|||.
T Consensus 5 VRCFTCGkv 13 (60)
T PF01194_consen 5 VRCFTCGKV 13 (60)
T ss_dssp SS-STTTSB
T ss_pred eecCCCCCC
Confidence 579999996
No 50
>PRK04016 DNA-directed RNA polymerase subunit N; Provisional
Probab=25.34 E-value=29 Score=23.49 Aligned_cols=9 Identities=56% Similarity=1.475 Sum_probs=7.7
Q ss_pred cceeecCCc
Q 048519 175 GNCFVCGKI 183 (195)
Q Consensus 175 ~~C~~CgK~ 183 (195)
..||-|||.
T Consensus 5 vRCFTCGkv 13 (62)
T PRK04016 5 VRCFTCGKV 13 (62)
T ss_pred eEecCCCCC
Confidence 579999996
No 51
>PF09706 Cas_CXXC_CXXC: CRISPR-associated protein (Cas_CXXC_CXXC); InterPro: IPR019121 Clustered Regularly Interspaced Short Palindromic Repeats (CRISPR) are a family of DNA direct repeats separated by regularly sized non-repetitive spacer sequences that are found in most bacterial and archaeal genomes []. CRISPRs appear to provide acquired resistance against bacteriophages, possibly acting with an RNA interference-like mechanism to inhibit gene functions of invasive DNA elements [, ]. Differences in the number and type of spacers between CRISPR repeats correlate with phage sensitivity. It is thought that following phage infection, bacteria integrate new spacers derived from phage genomic sequences, and that the removal or addition of particular spacers modifies the phage-resistance phenotype of the cell. Therefore, the specificity of CRISPRs may be determined by spacer-phage sequence similarity. In addition, there are many protein families known as CRISPR-associated sequences (Cas), which are encoded in the vicinity of CRISPR loci []. CRISPR/cas gene regions can be quite large, with up to 20 different, tandem-arranged cas genes next to a CRISPR cluster or filling the region between two repeat clusters. Cas genes and CRISPRs are found on mobile genetic elements such as plasmids, and have undergone extensive horizontal transfer. Cas proteins are thought to be involved in the propagation and functioning of CRISPRs. Some Cas proteins show similarity to helicases and repair proteins, although the functions of most are unknown. Cas families can be divided into subtypes according to operon organisation and phylogeny. This entry represents a conserved domain of about 65 amino acids found in otherwise highly divergent proteins encoded in CRISPR-associated regions. This domain features two CXXC motifs.
Probab=24.88 E-value=36 Score=23.18 Aligned_cols=12 Identities=50% Similarity=1.013 Sum_probs=9.1
Q ss_pred CCccceeecCCc
Q 048519 172 NKKGNCFVCGKI 183 (195)
Q Consensus 172 k~k~~C~~CgK~ 183 (195)
+++..|+.||.+
T Consensus 3 k~~~~C~~Cg~r 14 (69)
T PF09706_consen 3 KKKYNCIFCGER 14 (69)
T ss_pred CCCCcCcCCCCc
Confidence 456789999943
No 52
>cd03034 ArsC_ArsC Arsenate Reductase (ArsC) family, ArsC subfamily; arsenic reductases similar to that encoded by arsC on the R733 plasmid of Escherichia coli. E. coli ArsC catalyzes the reduction of arsenate [As(V)] to arsenite [As(III)], the first step in the detoxification of arsenic, using reducing equivalents derived from glutathione (GSH) via glutaredoxin (GRX). ArsC contains a single catalytic cysteine, within a thioredoxin fold, that forms a covalent thiolate-As(V) intermediate, which is reduced by GRX through a mixed GSH-arsenate intermediate. This family of predominantly bacterial enzymes is unrelated to two other families of arsenate reductases which show similarity to low-molecular-weight acid phosphatases and phosphotyrosyl phosphatases.
Probab=24.31 E-value=98 Score=22.65 Aligned_cols=65 Identities=15% Similarity=0.048 Sum_probs=43.1
Q ss_pred HHHHHHHHHHHHHHhhcCCCCCchhhHHHHHhhcccchHHHHHh----hh---cCCcccCHHHHHHHHHHHH
Q 048519 60 VFHVLHVYNLADYLQSSLLEEGTEDYDKKLQTWNAESWGDYIKT----SK---HKKKQVSLKDAIIHIRIEE 124 (195)
Q Consensus 60 ~~~il~~~~L~~~L~~~~~~~~~~~~~~~IL~sLP~S~~~f~~~----i~---~~~~~~sleeli~~L~~eE 124 (195)
..-+|+--++.++..++.....+......+|+.++..++.++.+ +. ...+.++.+|++..|..+=
T Consensus 15 A~~~L~~~~i~~~~~di~~~~~t~~el~~~l~~~~~~~~~lin~~~~~y~~l~~~~~~ls~~e~i~ll~~~P 86 (112)
T cd03034 15 ALALLEEAGIEPEIVEYLKTPPTAAELRELLAKLGISPRDLLRTKEAPYKELGLADPELSDEELIDAMAAHP 86 (112)
T ss_pred HHHHHHHCCCCeEEEecccCCcCHHHHHHHHHHcCCCHHHHHhcCCchHHHcCCCccCCCHHHHHHHHHhCc
Confidence 34455555666667777777777888888888888778877754 21 1225678888887764443
No 53
>PF13926 DUF4211: Domain of unknown function (DUF4211)
Probab=24.10 E-value=32 Score=26.80 Aligned_cols=15 Identities=27% Similarity=0.432 Sum_probs=12.5
Q ss_pred ccceeecCCcceecc
Q 048519 174 KGNCFVCGKIIHYAN 188 (195)
Q Consensus 174 k~~C~~CgK~GH~ar 188 (195)
...|.-||+.||.+.
T Consensus 116 ~~~C~AC~~~~~~a~ 130 (153)
T PF13926_consen 116 GPSCDACNRSGHPAT 130 (153)
T ss_pred CCcCcccCCCCCCce
Confidence 457999999999754
No 54
>PF07914 DUF1679: Protein of unknown function (DUF1679); InterPro: IPR012877 This region is found in a number of Caenorhabditis elegans and Caenorhabditis briggsae proteins, in one case (Q19034 from SWISSPROT) as a repeat. In many of the family members, this region is associated with the CHK region described by SMART as being found in zinc finger-C4 and HLH domain-containing kinases. In fact, one member of this family (Q9GUC1 from SWISSPROT) is annotated as being a member of the nuclear hormone receptor family, and contains regions typical of such proteins (IPR000536 from INTERPRO, IPR008946 from INTERPRO, and IPR001628 from INTERPRO).
Probab=24.03 E-value=1.3e+02 Score=27.58 Aligned_cols=49 Identities=10% Similarity=0.036 Sum_probs=31.7
Q ss_pred HHHHHhhcCCCCCchhhHHHHHhhcccc-------------hHHHHHhhh-cCCcccCHHHHHHH
Q 048519 69 LADYLQSSLLEEGTEDYDKKLQTWNAES-------------WGDYIKTSK-HKKKQVSLKDAIIH 119 (195)
Q Consensus 69 L~~~L~~~~~~~~~~~~~~~IL~sLP~S-------------~~~f~~~i~-~~~~~~sleeli~~ 119 (195)
++|++...|.+ -+|++..++.+|..+ |+.|...+. ..+..+|+++|...
T Consensus 296 IDwQ~vh~G~~--~eDl~Rll~~~lS~edRR~~~~~lL~~Yy~~f~~~l~~~~~~PfT~eqL~~s 358 (414)
T PF07914_consen 296 IDWQCVHRGSP--AEDLARLLVSCLSGEDRREHTEELLEYYYDTFTEALEDGGKAPFTLEQLKDS 358 (414)
T ss_pred HHHHHhhcCch--HHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHHHHHHhccCCCCccHHHHHHH
Confidence 35566666666 345555555555533 888888883 34688899988654
No 55
>KOG3491 consensus Predicted membrane protein [Function unknown]
Probab=23.99 E-value=30 Score=23.17 Aligned_cols=18 Identities=39% Similarity=0.604 Sum_probs=14.8
Q ss_pred cccccchhHHHhhhhccC
Q 048519 15 LAAPRLLDLFVYDLLAST 32 (195)
Q Consensus 15 ~~~~~~~~~~~~~~~~~~ 32 (195)
..+|-+|-||++++.-|.
T Consensus 36 pvgPwLlglFvFVVcGSa 53 (65)
T KOG3491|consen 36 PVGPWLLGLFVFVVCGSA 53 (65)
T ss_pred CcchHHHHHHHHHhhcHH
Confidence 467999999999987663
No 56
>cd01093 CRIB_PAK_like PAK (p21 activated kinase) Binding Domain (PBD), binds Cdc42p- and/or Rho-like small GTPases; also known as the Cdc42/Rac interactive binding (CRIB) motif; has been shown to inhibit transcriptional activation and cell transformation mediated by the Ras-Rac pathway. This subgroup of CRIB/PBD-domains is found N-terminal of Serine/Threonine kinase domains in PAK and PAK-like proteins.
Probab=23.90 E-value=32 Score=21.48 Aligned_cols=13 Identities=31% Similarity=0.514 Sum_probs=11.6
Q ss_pred hhcccchHHHHHh
Q 048519 91 TWNAESWGDYIKT 103 (195)
Q Consensus 91 ~sLP~S~~~f~~~ 103 (195)
.+||++|+.+..+
T Consensus 25 ~glP~eW~~ll~~ 37 (46)
T cd01093 25 TGLPEEWQRLLKS 37 (46)
T ss_pred cCCCHHHHHHHHH
Confidence 7999999998776
No 57
>KOG0122 consensus Translation initiation factor 3, subunit g (eIF-3g) [Translation, ribosomal structure and biogenesis]
Probab=23.89 E-value=45 Score=28.73 Aligned_cols=21 Identities=29% Similarity=0.580 Sum_probs=17.5
Q ss_pred CCccceeecCCcceecccCCCc
Q 048519 172 NKKGNCFVCGKIIHYANQCRHK 193 (195)
Q Consensus 172 k~k~~C~~CgK~GH~ar~C~~r 193 (195)
+.-..|-+| +-.||.-+||.+
T Consensus 117 ~~~~~CR~C-~gdHwt~~CPyK 137 (270)
T KOG0122|consen 117 KSIVACRIC-KGDHWTTNCPYK 137 (270)
T ss_pred cceeeeeec-CCCeeeecCCch
Confidence 444579999 899999999865
No 58
>TIGR02791 VirB5 P-type DNA transfer protein VirB5. The VirB5 protein is involved in the type IV DNA secretion systems typified by the Agrobacterium Ti plasmid vir system where it interacts with several other proteins essential for proper pilus formation. VirB5 is homologous to the IncN (N-type) conjugation system protein TraC as well as the P-type protein TrbJ and the F-type protein TraE.
Probab=23.84 E-value=1.5e+02 Score=24.50 Aligned_cols=65 Identities=12% Similarity=0.058 Sum_probs=34.6
Q ss_pred ccccccccc----chhhhhHhHHHHHHHH-HH-------HHHHhhc-CCCCCchhh-HHHHHhhcccchHHHHHhhhcC
Q 048519 43 SKIELFNGE----KFKCWQEKVFHVLHVY-NL-------ADYLQSS-LLEEGTEDY-DKKLQTWNAESWGDYIKTSKHK 107 (195)
Q Consensus 43 ~~~~~f~g~----~fk~Wqk~~~~il~~~-~L-------~~~L~~~-~~~~~~~~~-~~~IL~sLP~S~~~f~~~i~~~ 107 (195)
.-|++||.. ++..|.+.+--+.+.+ .+ -..+.++ |-..--+++ ...+-..||.+|.++...+..+
T Consensus 22 agipV~D~a~~aq~i~q~~~q~~q~~~q~~ql~~Q~~q~k~~y~sltG~r~~g~ll~~~~l~~~lp~d~~~i~~~~~~g 100 (220)
T TIGR02791 22 AGIPVTDPASIANALAQAIEQMAALKTQYEQLSEQIEQYKQQYGSLTGNRGMGDLLNDPALRRYLPFDWAAIYEGVLSG 100 (220)
T ss_pred CCCceeechHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCcHHHHhCCHHhhhhCcHHHHHHHHHHhcC
Confidence 458999999 5666777765554433 22 1222221 111000011 1133467999999998776554
No 59
>KOG0031 consensus Myosin regulatory light chain, EF-Hand protein superfamily [Cytoskeleton]
Probab=23.81 E-value=1.5e+02 Score=23.99 Aligned_cols=58 Identities=14% Similarity=0.166 Sum_probs=38.3
Q ss_pred cccccchhhhhHhHHHHHH----H---HHHHHHHhhcCCCCCchhhHHHHHhhc-ccchHHHHHhh
Q 048519 47 LFNGEKFKCWQEKVFHVLH----V---YNLADYLQSSLLEEGTEDYDKKLQTWN-AESWGDYIKTS 104 (195)
Q Consensus 47 ~f~g~~fk~Wqk~~~~il~----~---~~L~~~L~~~~~~~~~~~~~~~IL~sL-P~S~~~f~~~i 104 (195)
.|++.+++..+|-...+.- + -+|-+-|+++|..++++++..++=+.= |=.|--|-+.+
T Consensus 25 mf~q~QIqEfKEAF~~mDqnrDG~IdkeDL~d~~aSlGk~~~d~elDaM~~Ea~gPINft~FLTmf 90 (171)
T KOG0031|consen 25 MFDQSQIQEFKEAFNLMDQNRDGFIDKEDLRDMLASLGKIASDEELDAMMKEAPGPINFTVFLTMF 90 (171)
T ss_pred HhhHHHHHHHHHHHHHHhccCCCcccHHHHHHHHHHcCCCCCHHHHHHHHHhCCCCeeHHHHHHHH
Confidence 7888888887775444322 1 288889999999988887766553332 23455555544
No 60
>PF06568 DUF1127: Domain of unknown function (DUF1127); InterPro: IPR009506 This family is found in several hypothetical bacterial proteins. In some cases it represents it represents the C-terminal region whereas in others it represents the whole sequence.
Probab=22.99 E-value=59 Score=19.56 Aligned_cols=30 Identities=17% Similarity=0.257 Sum_probs=23.3
Q ss_pred chhhhhHhHHHHHHHHHHHH-HHhhcCCCCC
Q 048519 52 KFKCWQEKVFHVLHVYNLAD-YLQSSLLEEG 81 (195)
Q Consensus 52 ~fk~Wqk~~~~il~~~~L~~-~L~~~~~~~~ 81 (195)
.+.+|.+.-...-++..|.+ +|+++|..-+
T Consensus 6 ~~~~~~~~rrtr~~L~~Lsd~~L~DIGl~R~ 36 (40)
T PF06568_consen 6 ALRRWRRRRRTRRELAELSDRQLADIGLTRS 36 (40)
T ss_pred HHHHHHHHHHHHHHHccCCHHHHHHcCCCHH
Confidence 57888888888888887755 7888887643
No 61
>PRK10026 arsenate reductase; Provisional
Probab=22.58 E-value=1e+02 Score=24.01 Aligned_cols=66 Identities=11% Similarity=-0.024 Sum_probs=43.6
Q ss_pred hHHHHHHHHHHHHHHhhcCCCCCchhhHHHHHhhcccchHHHHHhh-------hcCCcccCHHHHHHHHHHHH
Q 048519 59 KVFHVLHVYNLADYLQSSLLEEGTEDYDKKLQTWNAESWGDYIKTS-------KHKKKQVSLKDAIIHIRIEE 124 (195)
Q Consensus 59 ~~~~il~~~~L~~~L~~~~~~~~~~~~~~~IL~sLP~S~~~f~~~i-------~~~~~~~sleeli~~L~~eE 124 (195)
+.+-||+--++.++.+++....++...+..+|..++-.++.++.+- ....+.++.++++..|..+=
T Consensus 17 KA~~wL~~~gi~~~~~d~~~~ppt~~eL~~~l~~~g~~~~~lint~~~~yr~L~~~~~~ls~~e~l~ll~~~P 89 (141)
T PRK10026 17 NTLEMIRNSGTEPTIIHYLETPPTRDELVKLIADMGISVRALLRKNVEPYEELGLAEDKFTDDQLIDFMLQHP 89 (141)
T ss_pred HHHHHHHHCCCCcEEEeeeCCCcCHHHHHHHHHhCCCCHHHHHHcCCchHHHcCCCccCCCHHHHHHHHHhCc
Confidence 4445555556777777776666777777888888887667666432 11225678899888775444
No 62
>TIGR02606 antidote_CC2985 putative addiction module antidote protein, CC2985 family. This bacterial protein family has a very similar seed alignment to that of Pfam model pfam03693 but is a more stringent model with higher cutoff scores. Proteins that score above the trusted cutoff to this model almost invariably are found adjacent to a ParE family protein (pfam05016), where ParE is the killing partner of an addiction module for plasmid stabilization. Members of this family, therefore, are putative addiction module antidote proteins. Some are encoded on plasmids or in prophage regions, but others appear chromosomal. A genome may contain several identical copies, such as the four in Magnetococcus sp. MC-1. This family is named for one member, CC2985 of Caulobacter crescentus CB15.
Probab=22.39 E-value=1.4e+02 Score=20.14 Aligned_cols=32 Identities=9% Similarity=0.051 Sum_probs=23.7
Q ss_pred hhcccchHHHHHhhhcCCcccCHHHHHHHHHH
Q 048519 91 TWNAESWGDYIKTSKHKKKQVSLKDAIIHIRI 122 (195)
Q Consensus 91 ~sLP~S~~~f~~~i~~~~~~~sleeli~~L~~ 122 (195)
.+||+.++.|+.....+..--+.+||+...+-
T Consensus 4 isL~~~~~~~i~~~V~sG~Y~s~SEVir~aLR 35 (69)
T TIGR02606 4 VSLGEHLESFIRSQVQSGRYGSASEVVRAALR 35 (69)
T ss_pred eecCHHHHHHHHHHHHCCCCCCHHHHHHHHHH
Confidence 47999999999988765555577887766543
No 63
>PF08844 DUF1815: Domain of unknown function (DUF1815); InterPro: IPR014943 This entry is about 100 amino acids in length and is functionally uncharacterised.
Probab=22.20 E-value=44 Score=24.59 Aligned_cols=14 Identities=29% Similarity=0.954 Sum_probs=10.3
Q ss_pred cceeec--CCcceecc
Q 048519 175 GNCFVC--GKIIHYAN 188 (195)
Q Consensus 175 ~~C~~C--gK~GH~ar 188 (195)
..||.| |..+|-|.
T Consensus 33 AsCYtC~dG~~~~~AS 48 (105)
T PF08844_consen 33 ASCYTCGDGRDMNSAS 48 (105)
T ss_pred eEEEecCCCCCCCcee
Confidence 369999 77777653
No 64
>PF13093 FTA4: Kinetochore complex Fta4 of Sim4 subunit, or CENP-50
Probab=20.52 E-value=35 Score=28.43 Aligned_cols=44 Identities=7% Similarity=0.012 Sum_probs=24.5
Q ss_pred chhhHHHHHhhcccchHHHHHhhhc-CCccc-CHHHHHHHHHHHHh
Q 048519 82 TEDYDKKLQTWNAESWGDYIKTSKH-KKKQV-SLKDAIIHIRIEEK 125 (195)
Q Consensus 82 ~~~~~~~IL~sLP~S~~~f~~~i~~-~~~~~-sleeli~~L~~eE~ 125 (195)
++.-...++.+||++|..-...-.. ..++. .+++|..+|..-.+
T Consensus 111 ~dls~~~~I~~LP~~w~~~~~~~~~~~~e~~~rY~~l~~~L~~l~~ 156 (213)
T PF13093_consen 111 ADLSNPENIEELPESWPRQQEQDEDASPEEAERYAELRERLIELSE 156 (213)
T ss_pred cccccHhHHHHCCchhhhcccccccCCHHHHHHHHHHHHHHHHHHH
Confidence 3344578999999999874111000 11111 36777777765443
No 65
>KOG2985 consensus Uncharacterized conserved protein [Function unknown]
Probab=20.40 E-value=26 Score=30.32 Aligned_cols=19 Identities=42% Similarity=0.936 Sum_probs=17.0
Q ss_pred cceeecCCcceecccCCCc
Q 048519 175 GNCFVCGKIIHYANQCRHK 193 (195)
Q Consensus 175 ~~C~~CgK~GH~ar~C~~r 193 (195)
+.|-.||-+||.-.+|+++
T Consensus 82 g~ckRcg~~ghl~fqcRn~ 100 (306)
T KOG2985|consen 82 GSCKRCGRVGHLTFQCRNF 100 (306)
T ss_pred cchhhccccchhhHHHhhh
Confidence 5799999999999999864
Done!