Query 015904
Match_columns 398
No_of_seqs 79 out of 81
Neff 3.0
Searched_HMMs 46136
Date Fri Mar 29 01:59:48 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/015904.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/015904hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG2673 Uncharacterized conser 99.9 7.3E-27 1.6E-31 235.8 4.5 143 241-397 55-197 (485)
2 smart00581 PSP proline-rich do 97.8 1E-05 2.2E-10 62.7 2.3 21 377-397 1-21 (54)
3 PF00098 zf-CCHC: Zinc knuckle 97.5 6.4E-05 1.4E-09 46.4 1.7 18 321-338 1-18 (18)
4 PF04046 PSP: PSP; InterPro: 97.2 0.00021 4.5E-09 54.3 2.0 18 381-398 1-18 (48)
5 KOG2673 Uncharacterized conser 96.3 0.0017 3.8E-08 67.7 1.9 63 333-397 1-63 (485)
6 PF14392 zf-CCHC_4: Zinc knuck 92.7 0.043 9.3E-07 40.6 0.6 20 319-338 30-49 (49)
7 smart00343 ZnF_C2HC zinc finge 91.7 0.084 1.8E-06 34.2 1.0 19 322-340 1-19 (26)
8 COG5082 AIR1 Arginine methyltr 91.0 0.11 2.3E-06 49.3 1.4 22 316-337 56-77 (190)
9 PTZ00368 universal minicircle 88.9 0.26 5.5E-06 43.0 2.0 22 320-341 27-48 (148)
10 PTZ00368 universal minicircle 88.8 0.23 5E-06 43.3 1.6 20 321-340 1-20 (148)
11 COG5182 CUS1 Splicing factor 3 88.5 0.23 5E-06 51.1 1.6 21 378-398 276-296 (429)
12 PF13696 zf-CCHC_2: Zinc knuck 87.6 0.24 5.2E-06 35.1 0.8 21 320-340 8-28 (32)
13 KOG2330 Splicing factor 3b, su 81.4 0.64 1.4E-05 49.2 0.9 25 374-398 265-289 (500)
14 PF15288 zf-CCHC_6: Zinc knuck 79.0 1.2 2.5E-05 33.2 1.4 21 320-340 1-23 (40)
15 PF13917 zf-CCHC_3: Zinc knuck 77.1 1.6 3.4E-05 32.5 1.6 19 320-338 4-22 (42)
16 COG5082 AIR1 Arginine methyltr 76.7 1.3 2.9E-05 42.1 1.5 26 320-345 154-179 (190)
17 KOG4400 E3 ubiquitin ligase in 72.2 1.8 4E-05 41.1 1.2 19 321-339 144-162 (261)
18 KOG4400 E3 ubiquitin ligase in 70.5 2.1 4.5E-05 40.8 1.1 26 319-344 91-116 (261)
19 PF05515 Viral_NABP: Viral nuc 63.8 6.9 0.00015 35.3 3.0 43 320-372 62-104 (124)
20 PF12353 eIF3g: Eukaryotic tra 45.2 11 0.00024 33.4 1.2 18 320-338 106-123 (128)
21 KOG2044 5'-3' exonuclease HKE1 38.8 13 0.00028 42.3 0.8 21 318-338 258-278 (931)
22 KOG0119 Splicing factor 1/bran 37.3 17 0.00038 39.4 1.4 20 320-339 285-304 (554)
23 KOG0109 RNA-binding protein LA 31.5 26 0.00055 36.2 1.5 26 319-344 159-184 (346)
24 COG5222 Uncharacterized conser 31.0 39 0.00084 35.2 2.6 25 317-341 173-197 (427)
25 smart00647 IBR In Between Ring 26.3 40 0.00087 24.6 1.4 17 320-336 48-64 (64)
26 PF15127 DUF4565: Protein of u 26.2 57 0.0012 28.3 2.5 27 208-234 54-80 (91)
27 COG4866 Uncharacterized conser 23.6 59 0.0013 33.1 2.4 31 204-234 149-179 (294)
28 PRK02220 4-oxalocrotonate taut 21.4 1.5E+02 0.0032 21.8 3.6 24 203-226 2-26 (61)
No 1
>KOG2673 consensus Uncharacterized conserved protein, contains PSP domain [Function unknown]
Probab=99.93 E-value=7.3e-27 Score=235.83 Aligned_cols=143 Identities=33% Similarity=0.598 Sum_probs=122.7
Q ss_pred CCcccccccceeccceecCCCCCCccceEEecCCccccCCCCCCCCCCCCCcccccccccccCCCCCCCCCCCcccccCC
Q 015904 241 PNEGIEFGEQTFFPAIRVGKAKGPAVSFWIDNQTRNQQNKNFIPSDSHGTPLYDRGYALGLTSGDGSSNLEGGLEIIDDA 320 (398)
Q Consensus 241 ~~evlesGeetyfPal~vg~~kssa~sF~IDkq~~~~~Ne~~q~~~~~eVPlYdR~y~~~L~s~Dg~sdteg~lEi~~~~ 320 (398)
..+++++++.+|+| +++.+.+...++||++++.....-+.+-+.+... +|.++.+|++.+++-.++++..|.+ .
T Consensus 55 qqd~l~~te~a~~~-fr~~~qe~~t~s~wl~~~~~ek~gedl~~~e~~t----dr~~a~~l~sq~~s~tvek~~~v~~-~ 128 (485)
T KOG2673|consen 55 QQDLLGVTEKAFPP-FRYRMQELGTPSFWLKNAELEKSGEDLYLGEDST----DRETAVGLISQNKSVTVEKSKLVNK-C 128 (485)
T ss_pred HHHHhhcccccccc-hhhhHHhhcCchhhhhhcccccChhhhccccccc----cccceecccccccchhhhhhhhhcc-C
Confidence 45677788888888 9999999999999999998876556555554442 8999999999988877776655544 4
Q ss_pred CccccCCCCCCCCCCCCCCCCHHHHHHHHHHHHhhhccCCCCCCCcceEecCCCCcCCCCCCCCCCHHHHHhhCCCC
Q 015904 321 SRCFNCGSYSHSLKECPKPRDKDAVNNARKQHKSKRNQNSASRNPMRYYQNSAGGKYDGLRPGALDAETRQLLGLGV 397 (398)
Q Consensus 321 ~rCFNCGs~eHsLrDCP~PRD~arIs~~RkeF~~krnq~~g~r~~~RYh~~e~eqrf~~fKPG~LS~eLReALGL~~ 397 (398)
-+||||||+.|+|+|||+|+|+++|+++||+++..|| +|||++...+||+|||||+||++||+||||++
T Consensus 129 ~~CFNC~g~~hsLrdC~rp~d~s~I~r~rkek~~~rn--------qry~~~teq~re~h~KPG~lS~~~R~al~l~~ 197 (485)
T KOG2673|consen 129 DPCFNCGGTPHSLRDCPRPFDFSRIQRARKEKMVFRN--------QRYYQDTEQGREDHFKPGVLSGNTRSALGLSP 197 (485)
T ss_pred ccccccCCCCCccccCCCccccHHHHHHHHhhccccc--------eeeeeecchhhhcccCCcccchhHHHhhcCCC
Confidence 4599999999999999999999999999999998876 49999987779999999999999999999987
No 2
>smart00581 PSP proline-rich domain in spliceosome associated proteins.
Probab=97.83 E-value=1e-05 Score=62.67 Aligned_cols=21 Identities=33% Similarity=0.702 Sum_probs=19.8
Q ss_pred CCCCCCCCCCHHHHHhhCCCC
Q 015904 377 YDGLRPGALDAETRQLLGLGV 397 (398)
Q Consensus 377 f~~fKPG~LS~eLReALGL~~ 397 (398)
|.+||||+||++||+|||+.+
T Consensus 1 ~~~~kPG~lS~~LR~ALG~~~ 21 (54)
T smart00581 1 FKHFKPGRISDELREALGLPP 21 (54)
T ss_pred CCCccCCcCCHHHHHHcCCCC
Confidence 689999999999999999986
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=97.47 E-value=6.4e-05 Score=46.36 Aligned_cols=18 Identities=50% Similarity=1.315 Sum_probs=16.6
Q ss_pred CccccCCCCCCCCCCCCC
Q 015904 321 SRCFNCGSYSHSLKECPK 338 (398)
Q Consensus 321 ~rCFNCGs~eHsLrDCP~ 338 (398)
..|||||..+|..++||+
T Consensus 1 ~~C~~C~~~GH~~~~Cp~ 18 (18)
T PF00098_consen 1 RKCFNCGEPGHIARDCPK 18 (18)
T ss_dssp SBCTTTSCSSSCGCTSSS
T ss_pred CcCcCCCCcCcccccCcc
Confidence 479999999999999995
No 4
>PF04046 PSP: PSP; InterPro: IPR006568 PSP is a proline-rich domain of unknown function found in spliceosome associated proteins.
Probab=97.18 E-value=0.00021 Score=54.29 Aligned_cols=18 Identities=39% Similarity=0.733 Sum_probs=16.6
Q ss_pred CCCCCCHHHHHhhCCCCC
Q 015904 381 RPGALDAETRQLLGLGVS 398 (398)
Q Consensus 381 KPG~LS~eLReALGL~~~ 398 (398)
|||+||++||+||||++.
T Consensus 1 kPG~lS~~LR~ALg~~~~ 18 (48)
T PF04046_consen 1 KPGKLSDELREALGMQEN 18 (48)
T ss_pred CCcccCHHHHHHcCCCCC
Confidence 799999999999999873
No 5
>KOG2673 consensus Uncharacterized conserved protein, contains PSP domain [Function unknown]
Probab=96.33 E-value=0.0017 Score=67.74 Aligned_cols=63 Identities=21% Similarity=0.401 Sum_probs=51.2
Q ss_pred CCCCCCCCCHHHHHHHHHHHHhhhccCCCCCCCcceEecCCCCcCCCCCCCCCCHHHHHhhCCCC
Q 015904 333 LKECPKPRDKDAVNNARKQHKSKRNQNSASRNPMRYYQNSAGGKYDGLRPGALDAETRQLLGLGV 397 (398)
Q Consensus 333 LrDCP~PRD~arIs~~RkeF~~krnq~~g~r~~~RYh~~e~eqrf~~fKPG~LS~eLReALGL~~ 397 (398)
+++||.|+| ++|+..|++++..-..-+....+.|||......+++.+++|.|| +..++|+.++
T Consensus 1 ~~~cp~~~n-~~i~~~~d~~~e~~~eis~q~~~e~~~d~~~d~~~~r~esg~i~-~qqd~l~~te 63 (485)
T KOG2673|consen 1 MKDCPMPRN-ARISEKRDEYMEACGEISNQNFQERLHDELVDERRGRFESGVIS-EQQDLLGVTE 63 (485)
T ss_pred CCcCCCccc-cccCcchhHHHHHhhhcCCcchhhhccchhhhhhhccccccccc-hHHHHhhccc
Confidence 579999999 99999999999864422233466899888888999999999999 6778887665
No 6
>PF14392 zf-CCHC_4: Zinc knuckle
Probab=92.68 E-value=0.043 Score=40.63 Aligned_cols=20 Identities=55% Similarity=1.057 Sum_probs=18.2
Q ss_pred CCCccccCCCCCCCCCCCCC
Q 015904 319 DASRCFNCGSYSHSLKECPK 338 (398)
Q Consensus 319 ~~~rCFNCGs~eHsLrDCP~ 338 (398)
....||+||..+|..++||+
T Consensus 30 lp~~C~~C~~~gH~~~~C~k 49 (49)
T PF14392_consen 30 LPRFCFHCGRIGHSDKECPK 49 (49)
T ss_pred cChhhcCCCCcCcCHhHcCC
Confidence 46889999999999999995
No 7
>smart00343 ZnF_C2HC zinc finger.
Probab=91.74 E-value=0.084 Score=34.22 Aligned_cols=19 Identities=42% Similarity=1.235 Sum_probs=16.5
Q ss_pred ccccCCCCCCCCCCCCCCC
Q 015904 322 RCFNCGSYSHSLKECPKPR 340 (398)
Q Consensus 322 rCFNCGs~eHsLrDCP~PR 340 (398)
.||+||..+|..++||+..
T Consensus 1 ~C~~CG~~GH~~~~C~~~~ 19 (26)
T smart00343 1 KCYNCGKEGHIARDCPKXX 19 (26)
T ss_pred CCccCCCCCcchhhCCccc
Confidence 5999999999999999543
No 8
>COG5082 AIR1 Arginine methyltransferase-interacting protein, contains RING Zn-finger [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]
Probab=91.00 E-value=0.11 Score=49.27 Aligned_cols=22 Identities=41% Similarity=1.073 Sum_probs=18.7
Q ss_pred cccCCCccccCCCCCCCCCCCC
Q 015904 316 IIDDASRCFNCGSYSHSLKECP 337 (398)
Q Consensus 316 i~~~~~rCFNCGs~eHsLrDCP 337 (398)
+....+.|||||.-+|..+|||
T Consensus 56 ~~~~~~~C~nCg~~GH~~~DCP 77 (190)
T COG5082 56 IREENPVCFNCGQNGHLRRDCP 77 (190)
T ss_pred ccccccccchhcccCcccccCC
Confidence 3445689999999999999999
No 9
>PTZ00368 universal minicircle sequence binding protein (UMSBP); Provisional
Probab=88.93 E-value=0.26 Score=43.01 Aligned_cols=22 Identities=36% Similarity=0.925 Sum_probs=14.4
Q ss_pred CCccccCCCCCCCCCCCCCCCC
Q 015904 320 ASRCFNCGSYSHSLKECPKPRD 341 (398)
Q Consensus 320 ~~rCFNCGs~eHsLrDCP~PRD 341 (398)
...||||+..+|..++||.+++
T Consensus 27 ~~~C~~Cg~~GH~~~~Cp~~~~ 48 (148)
T PTZ00368 27 ARPCYKCGEPGHLSRECPSAPG 48 (148)
T ss_pred CccCccCCCCCcCcccCcCCCC
Confidence 4567777766677777766653
No 10
>PTZ00368 universal minicircle sequence binding protein (UMSBP); Provisional
Probab=88.75 E-value=0.23 Score=43.28 Aligned_cols=20 Identities=35% Similarity=1.022 Sum_probs=18.2
Q ss_pred CccccCCCCCCCCCCCCCCC
Q 015904 321 SRCFNCGSYSHSLKECPKPR 340 (398)
Q Consensus 321 ~rCFNCGs~eHsLrDCP~PR 340 (398)
+.||||+...|..++||.+.
T Consensus 1 ~~C~~C~~~GH~~~~c~~~~ 20 (148)
T PTZ00368 1 MVCYRCGGVGHQSRECPNSA 20 (148)
T ss_pred CcCCCCCCCCcCcccCcCCC
Confidence 47999999999999999965
No 11
>COG5182 CUS1 Splicing factor 3b, subunit 2 [RNA processing and modification]
Probab=88.48 E-value=0.23 Score=51.12 Aligned_cols=21 Identities=43% Similarity=0.710 Sum_probs=19.2
Q ss_pred CCCCCCCCCHHHHHhhCCCCC
Q 015904 378 DGLRPGALDAETRQLLGLGVS 398 (398)
Q Consensus 378 ~~fKPG~LS~eLReALGL~~~ 398 (398)
.+=+||.||++||+||||.++
T Consensus 276 k~krPG~IS~eLrealgi~~g 296 (429)
T COG5182 276 KKKRPGAISAELREALGIDSG 296 (429)
T ss_pred hccCCcchHHHHHHHhCCCCC
Confidence 778999999999999999874
No 12
>PF13696 zf-CCHC_2: Zinc knuckle
Probab=87.55 E-value=0.24 Score=35.13 Aligned_cols=21 Identities=29% Similarity=0.882 Sum_probs=18.5
Q ss_pred CCccccCCCCCCCCCCCCCCC
Q 015904 320 ASRCFNCGSYSHSLKECPKPR 340 (398)
Q Consensus 320 ~~rCFNCGs~eHsLrDCP~PR 340 (398)
.-.|+-|+..+|.++|||.-+
T Consensus 8 ~Y~C~~C~~~GH~i~dCP~~~ 28 (32)
T PF13696_consen 8 GYVCHRCGQKGHWIQDCPTNK 28 (32)
T ss_pred CCEeecCCCCCccHhHCCCCC
Confidence 468999999999999999843
No 13
>KOG2330 consensus Splicing factor 3b, subunit 2 [RNA processing and modification]
Probab=81.38 E-value=0.64 Score=49.16 Aligned_cols=25 Identities=28% Similarity=0.453 Sum_probs=21.0
Q ss_pred CCcCCCCCCCCCCHHHHHhhCCCCC
Q 015904 374 GGKYDGLRPGALDAETRQLLGLGVS 398 (398)
Q Consensus 374 eqrf~~fKPG~LS~eLReALGL~~~ 398 (398)
+-+..+=+||.||++||.||||.+.
T Consensus 265 e~~~k~k~PG~iS~eLr~aLgmp~g 289 (500)
T KOG2330|consen 265 EAMVKEKKPGDISDELRIALGMPVG 289 (500)
T ss_pred HHHHhhcCccchhHHHHHHhCCCCC
Confidence 3446888999999999999999753
No 14
>PF15288 zf-CCHC_6: Zinc knuckle
Probab=78.95 E-value=1.2 Score=33.19 Aligned_cols=21 Identities=38% Similarity=0.895 Sum_probs=17.3
Q ss_pred CCccccCCCCCCCC--CCCCCCC
Q 015904 320 ASRCFNCGSYSHSL--KECPKPR 340 (398)
Q Consensus 320 ~~rCFNCGs~eHsL--rDCP~PR 340 (398)
+.+|-|||..+|.- +.||.-.
T Consensus 1 k~kC~~CG~~GH~~t~k~CP~~~ 23 (40)
T PF15288_consen 1 KVKCKNCGAFGHMRTNKRCPMYC 23 (40)
T ss_pred CccccccccccccccCccCCCCC
Confidence 36899999999988 7899643
No 15
>PF13917 zf-CCHC_3: Zinc knuckle
Probab=77.05 E-value=1.6 Score=32.55 Aligned_cols=19 Identities=42% Similarity=0.915 Sum_probs=17.7
Q ss_pred CCccccCCCCCCCCCCCCC
Q 015904 320 ASRCFNCGSYSHSLKECPK 338 (398)
Q Consensus 320 ~~rCFNCGs~eHsLrDCP~ 338 (398)
..+|.||+..+|--.+||.
T Consensus 4 ~~~CqkC~~~GH~tyeC~~ 22 (42)
T PF13917_consen 4 RVRCQKCGQKGHWTYECPN 22 (42)
T ss_pred CCcCcccCCCCcchhhCCC
Confidence 5789999999999999995
No 16
>COG5082 AIR1 Arginine methyltransferase-interacting protein, contains RING Zn-finger [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]
Probab=76.74 E-value=1.3 Score=42.10 Aligned_cols=26 Identities=31% Similarity=0.737 Sum_probs=23.3
Q ss_pred CCccccCCCCCCCCCCCCCCCCHHHH
Q 015904 320 ASRCFNCGSYSHSLKECPKPRDKDAV 345 (398)
Q Consensus 320 ~~rCFNCGs~eHsLrDCP~PRD~arI 345 (398)
+..|||||+.+|...||++|+-.+.+
T Consensus 154 ~~~cy~c~~~~H~~~dc~~~~~s~~~ 179 (190)
T COG5082 154 KKFCYSCGSAGHFGDDCKEPRSSRVP 179 (190)
T ss_pred eeeccccCCccccCCCCCCCcccccc
Confidence 58899999999999999999876665
No 17
>KOG4400 consensus E3 ubiquitin ligase interacting with arginine methyltransferase [Posttranslational modification, protein turnover, chaperones]
Probab=72.25 E-value=1.8 Score=41.14 Aligned_cols=19 Identities=32% Similarity=1.104 Sum_probs=17.6
Q ss_pred CccccCCCCCCCCCCCCCC
Q 015904 321 SRCFNCGSYSHSLKECPKP 339 (398)
Q Consensus 321 ~rCFNCGs~eHsLrDCP~P 339 (398)
..|||||.-+|.-++||+|
T Consensus 144 ~~Cy~Cg~~GH~s~~C~~~ 162 (261)
T KOG4400|consen 144 AKCYSCGEQGHISDDCPEN 162 (261)
T ss_pred CccCCCCcCCcchhhCCCC
Confidence 5699999999999999987
No 18
>KOG4400 consensus E3 ubiquitin ligase interacting with arginine methyltransferase [Posttranslational modification, protein turnover, chaperones]
Probab=70.51 E-value=2.1 Score=40.80 Aligned_cols=26 Identities=35% Similarity=0.838 Sum_probs=23.2
Q ss_pred CCCccccCCCCCCCCCCCCCCCCHHH
Q 015904 319 DASRCFNCGSYSHSLKECPKPRDKDA 344 (398)
Q Consensus 319 ~~~rCFNCGs~eHsLrDCP~PRD~ar 344 (398)
...+||||+...|..++||.++....
T Consensus 91 ~~~~c~~C~~~gH~~~~c~~~~~~~~ 116 (261)
T KOG4400|consen 91 IAAACFNCGEGGHIERDCPEAGKEGS 116 (261)
T ss_pred cchhhhhCCCCccchhhCCcccCccc
Confidence 36899999999999999999988764
No 19
>PF05515 Viral_NABP: Viral nucleic acid binding ; InterPro: IPR008891 This family is common to ssRNA positive-strand viruses and are commonly described as nucleic acid binding proteins (NABP).
Probab=63.81 E-value=6.9 Score=35.27 Aligned_cols=43 Identities=26% Similarity=0.611 Sum_probs=28.8
Q ss_pred CCccccCCCCCCCCCCCCCCCCHHHHHHHHHHHHhhhccCCCCCCCcceEecC
Q 015904 320 ASRCFNCGSYSHSLKECPKPRDKDAVNNARKQHKSKRNQNSASRNPMRYYQNS 372 (398)
Q Consensus 320 ~~rCFNCGs~eHsLrDCP~PRD~arIs~~RkeF~~krnq~~g~r~~~RYh~~e 372 (398)
-.+||+||.+.|.-..|. ++...-+..++++-.. ++.||+.+.
T Consensus 62 ~~~C~~CG~~l~~~~~C~--~~~T~sq~d~~~~I~~--------G~~r~~tE~ 104 (124)
T PF05515_consen 62 YNRCFKCGRYLHNNGNCR--RNTTRSQSDVLEVIRE--------GPIRLLTEN 104 (124)
T ss_pred hCccccccceeecCCcCC--CccchhHHHHHHHHhc--------ccceeeccC
Confidence 389999999999999999 3333333344454332 346888653
No 20
>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=45.17 E-value=11 Score=33.38 Aligned_cols=18 Identities=28% Similarity=0.700 Sum_probs=16.4
Q ss_pred CCccccCCCCCCCCCCCCC
Q 015904 320 ASRCFNCGSYSHSLKECPK 338 (398)
Q Consensus 320 ~~rCFNCGs~eHsLrDCP~ 338 (398)
...|.+|+| +|--..||-
T Consensus 106 ~v~CR~CkG-dH~T~~CPy 123 (128)
T PF12353_consen 106 KVKCRICKG-DHWTSKCPY 123 (128)
T ss_pred eEEeCCCCC-CcccccCCc
Confidence 578999997 999999995
No 21
>KOG2044 consensus 5'-3' exonuclease HKE1/RAT1 [Replication, recombination and repair; RNA processing and modification]
Probab=38.83 E-value=13 Score=42.33 Aligned_cols=21 Identities=38% Similarity=0.961 Sum_probs=18.3
Q ss_pred cCCCccccCCCCCCCCCCCCC
Q 015904 318 DDASRCFNCGSYSHSLKECPK 338 (398)
Q Consensus 318 ~~~~rCFNCGs~eHsLrDCP~ 338 (398)
....+||-||++.|.++||.-
T Consensus 258 ~~~~~C~~cgq~gh~~~dc~g 278 (931)
T KOG2044|consen 258 NKPRRCFLCGQTGHEAKDCEG 278 (931)
T ss_pred CCcccchhhcccCCcHhhcCC
Confidence 346889999999999999973
No 22
>KOG0119 consensus Splicing factor 1/branch point binding protein (RRM superfamily) [RNA processing and modification]
Probab=37.25 E-value=17 Score=39.43 Aligned_cols=20 Identities=25% Similarity=0.580 Sum_probs=18.3
Q ss_pred CCccccCCCCCCCCCCCCCC
Q 015904 320 ASRCFNCGSYSHSLKECPKP 339 (398)
Q Consensus 320 ~~rCFNCGs~eHsLrDCP~P 339 (398)
...||+||.++|..+||+-.
T Consensus 285 ~n~c~~cg~~gH~~~dc~~~ 304 (554)
T KOG0119|consen 285 TNVCKICGPLGHISIDCKVN 304 (554)
T ss_pred cccccccCCcccccccCCCc
Confidence 45899999999999999987
No 23
>KOG0109 consensus RNA-binding protein LARK, contains RRM and retroviral-type Zn-finger domains [RNA processing and modification; General function prediction only]
Probab=31.52 E-value=26 Score=36.18 Aligned_cols=26 Identities=42% Similarity=0.846 Sum_probs=22.9
Q ss_pred CCCccccCCCCCCCCCCCCCCCCHHH
Q 015904 319 DASRCFNCGSYSHSLKECPKPRDKDA 344 (398)
Q Consensus 319 ~~~rCFNCGs~eHsLrDCP~PRD~ar 344 (398)
+..-|.-||-.+|--++||.+|+-+.
T Consensus 159 Dq~~cyrcGkeghwskEcP~~~~~rv 184 (346)
T KOG0109|consen 159 DQSGCYRCGKEGHWSKECPVDRTGRV 184 (346)
T ss_pred CHHHheeccccccccccCCccCCCcc
Confidence 35789999999999999999998654
No 24
>COG5222 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=31.03 E-value=39 Score=35.17 Aligned_cols=25 Identities=28% Similarity=0.780 Sum_probs=20.6
Q ss_pred ccCCCccccCCCCCCCCCCCCCCCC
Q 015904 317 IDDASRCFNCGSYSHSLKECPKPRD 341 (398)
Q Consensus 317 ~~~~~rCFNCGs~eHsLrDCP~PRD 341 (398)
+-..-.||-||+-+|-++.||---|
T Consensus 173 pPpgY~CyRCGqkgHwIqnCpTN~D 197 (427)
T COG5222 173 PPPGYVCYRCGQKGHWIQNCPTNQD 197 (427)
T ss_pred CCCceeEEecCCCCchhhcCCCCCC
Confidence 3345789999999999999997654
No 25
>smart00647 IBR In Between Ring fingers. the domains occurs between pairs og RING fingers
Probab=26.27 E-value=40 Score=24.58 Aligned_cols=17 Identities=41% Similarity=0.674 Sum_probs=14.4
Q ss_pred CCccccCCCCCCCCCCC
Q 015904 320 ASRCFNCGSYSHSLKEC 336 (398)
Q Consensus 320 ~~rCFNCGs~eHsLrDC 336 (398)
..-||+|+..-|.-..|
T Consensus 48 ~~fC~~C~~~~H~~~~C 64 (64)
T smart00647 48 FSFCFRCKVPWHSPVSC 64 (64)
T ss_pred CeECCCCCCcCCCCCCC
Confidence 57899999999987666
No 26
>PF15127 DUF4565: Protein of unknown function (DUF4565)
Probab=26.25 E-value=57 Score=28.26 Aligned_cols=27 Identities=30% Similarity=0.548 Sum_probs=21.4
Q ss_pred EecccChHHHHHHHHHHHHHHHHHHhh
Q 015904 208 IYNSLTRASKQKLEELLQQWSEWQAQF 234 (398)
Q Consensus 208 ~Y~~Ltr~Sk~KL~elLqqWsEWhA~~ 234 (398)
..+.--|=|+--|..+||||.+=..+.
T Consensus 54 vlEyA~rLSqEIl~dAlqQWA~~n~kY 80 (91)
T PF15127_consen 54 VLEYAHRLSQEILSDALQQWAENNIKY 80 (91)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHhCccc
Confidence 345566889999999999998866654
No 27
>COG4866 Uncharacterized conserved protein [Function unknown]
Probab=23.55 E-value=59 Score=33.07 Aligned_cols=31 Identities=19% Similarity=0.474 Sum_probs=27.4
Q ss_pred eEEEEecccChHHHHHHHHHHHHHHHHHHhh
Q 015904 204 SVHVIYNSLTRASKQKLEELLQQWSEWQAQF 234 (398)
Q Consensus 204 SV~v~Y~~Ltr~Sk~KL~elLqqWsEWhA~~ 234 (398)
+-..+|+..++.-...+-+.|+.|+|||-..
T Consensus 149 n~~~~yE~Is~~nl~EV~~FlKkW~e~~~~~ 179 (294)
T COG4866 149 NHAFVYEKISPQNLKEVLEFLKKWFELESQT 179 (294)
T ss_pred hccceeeecCcccHHHHHHHHHHHHHHhccc
Confidence 3447899999999999999999999999775
No 28
>PRK02220 4-oxalocrotonate tautomerase; Provisional
Probab=21.39 E-value=1.5e+02 Score=21.77 Aligned_cols=24 Identities=21% Similarity=0.245 Sum_probs=19.7
Q ss_pred CeEEEE-ecccChHHHHHHHHHHHH
Q 015904 203 PSVHVI-YNSLTRASKQKLEELLQQ 226 (398)
Q Consensus 203 pSV~v~-Y~~Ltr~Sk~KL~elLqq 226 (398)
|-|||. ++..|.+.|++|-+.|.+
T Consensus 2 P~i~i~~~~Grs~eqk~~l~~~it~ 26 (61)
T PRK02220 2 PYVHIKLIEGRTEEQLKALVKDVTA 26 (61)
T ss_pred CEEEEEEcCCCCHHHHHHHHHHHHH
Confidence 567887 578999999999888865
Done!