Query 014770
Match_columns 419
No_of_seqs 131 out of 178
Neff 2.8
Searched_HMMs 46136
Date Fri Mar 29 08:21:10 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/014770.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/014770hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG2673 Uncharacterized conser 100.0 6.2E-37 1.3E-41 309.3 5.9 165 241-419 55-219 (485)
2 smart00581 PSP proline-rich do 99.8 4.2E-19 9.1E-24 136.4 4.5 42 377-418 1-42 (54)
3 PF04046 PSP: PSP; InterPro: 99.7 4.5E-18 9.7E-23 128.1 4.1 37 381-417 1-37 (48)
4 COG5182 CUS1 Splicing factor 3 99.2 4.5E-12 9.7E-17 126.8 3.7 56 363-418 260-316 (429)
5 KOG2330 Splicing factor 3b, su 99.2 4.3E-12 9.3E-17 129.6 3.5 56 363-418 253-309 (500)
6 KOG2673 Uncharacterized conser 98.2 4.6E-07 1E-11 93.8 2.2 84 333-418 1-84 (485)
7 PF00098 zf-CCHC: Zinc knuckle 97.3 0.00013 2.9E-09 45.2 1.6 18 321-338 1-18 (18)
8 PF14392 zf-CCHC_4: Zinc knuck 90.9 0.093 2E-06 39.0 0.7 24 315-338 26-49 (49)
9 COG5082 AIR1 Arginine methyltr 90.4 0.13 2.8E-06 49.0 1.4 21 317-337 57-77 (190)
10 smart00343 ZnF_C2HC zinc finge 90.1 0.15 3.1E-06 33.3 1.0 19 322-340 1-19 (26)
11 PTZ00368 universal minicircle 86.5 0.42 9.2E-06 41.8 1.9 22 320-341 27-48 (148)
12 PF13696 zf-CCHC_2: Zinc knuck 85.5 0.39 8.6E-06 34.3 1.0 21 320-340 8-28 (32)
13 PTZ00368 universal minicircle 85.1 0.47 1E-05 41.5 1.5 20 321-340 1-20 (148)
14 PF15288 zf-CCHC_6: Zinc knuck 75.3 1.7 3.7E-05 32.6 1.4 20 321-340 2-23 (40)
15 COG5082 AIR1 Arginine methyltr 74.6 1.5 3.2E-05 42.0 1.2 17 321-337 98-114 (190)
16 PF13917 zf-CCHC_3: Zinc knuck 69.9 2.8 6.1E-05 31.4 1.5 19 320-338 4-22 (42)
17 KOG4400 E3 ubiquitin ligase in 69.1 2.3 5E-05 40.6 1.1 19 321-339 144-162 (261)
18 KOG4400 E3 ubiquitin ligase in 65.5 2.9 6.3E-05 39.9 1.1 25 319-343 91-115 (261)
19 TIGR03290 CoB_CoM_SS_C CoB--Co 57.6 3.8 8.2E-05 35.9 0.3 79 321-408 46-125 (144)
20 PF12353 eIF3g: Eukaryotic tra 40.3 16 0.00034 32.6 1.4 20 319-339 105-124 (128)
21 KOG2044 5'-3' exonuclease HKE1 36.4 15 0.00032 42.2 0.7 20 320-339 260-279 (931)
22 KOG0119 Splicing factor 1/bran 30.6 25 0.00053 38.5 1.2 20 320-339 285-304 (554)
23 COG5222 Uncharacterized conser 27.3 33 0.00071 35.9 1.4 23 320-342 176-198 (427)
24 TIGR02663 nifX nitrogen fixati 26.4 26 0.00056 29.9 0.4 25 382-406 93-117 (119)
25 PF05515 Viral_NABP: Viral nuc 26.3 45 0.00098 30.4 1.9 18 320-337 62-79 (124)
26 KOG0109 RNA-binding protein LA 25.7 35 0.00076 35.4 1.3 25 318-342 158-182 (346)
27 smart00647 IBR In Between Ring 25.4 41 0.0009 24.6 1.3 17 320-336 48-64 (64)
28 KOG2560 RNA splicing factor - 24.4 17 0.00037 39.4 -1.2 19 319-337 111-129 (529)
29 COG1654 BirA Biotin operon rep 22.7 40 0.00086 28.1 0.9 27 387-413 23-49 (79)
No 1
>KOG2673 consensus Uncharacterized conserved protein, contains PSP domain [Function unknown]
Probab=100.00 E-value=6.2e-37 Score=309.32 Aligned_cols=165 Identities=38% Similarity=0.706 Sum_probs=145.3
Q ss_pred CCccccccceeeecceeccCCCCCceeeEEeccCccccCCCcCCCCCCCCCcccccccccccCCCCCCCCCCCcccccCC
Q 014770 241 PNEGIEFGEQTFFPAIRVGKAKGPAVSFWIDNQTRNQQNKNFIPSDSHGTPLYDRGYALGLTSGDGSSNLEGGLEIIDDA 320 (419)
Q Consensus 241 ~~ev~esGeetyfPal~vg~~k~~avsFwvD~q~~~~~n~~~~~~d~~eVPlYdr~~~l~L~s~Dg~s~~eg~lEiv~~~ 320 (419)
..++++.++.+|+| ++++..+...++||++++....-.+++-+.+..+ ||.++.+|.+.+++.+++++..+.. .
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 45677777777777 9999999999999999998887666766666553 9999999999999988887776644 4
Q ss_pred CceecCCCCCCCCCCCCCccCHHHHHHHHHHHHhhhccCCCCCCCceeeecCccccccCCCCCCCCHHHHHHhCCCCCCC
Q 014770 321 SRCFNCGSYSHSLKECPKPRDKDAVNNARKQHKSKRNQNSASRNPMRYYQNSAGGKYDGLRPGALDAETRQLLGLGELDP 400 (419)
Q Consensus 321 ~rCFNCGs~eHsLrDCP~PRD~a~In~aRkef~~kr~q~~~sr~g~RYy~~e~e~k~~~fkPG~LS~eLReALGi~~~~~ 400 (419)
-+|||||++.|+|+|||+|+|+++|+++|++++..|+ +|||++...+++++||||+||.+||+|||+.+++|
T Consensus 129 ~~CFNC~g~~hsLrdC~rp~d~s~I~r~rkek~~~rn--------qry~~~teq~re~h~KPG~lS~~~R~al~l~~~d~ 200 (485)
T KOG2673|consen 129 DPCFNCGGTPHSLRDCPRPFDFSRIQRARKEKMVFRN--------QRYYQDTEQGREDHFKPGVLSGNTRSALGLSPGDP 200 (485)
T ss_pred ccccccCCCCCccccCCCccccHHHHHHHHhhccccc--------eeeeeecchhhhcccCCcccchhHHHhhcCCCCCc
Confidence 4599999999999999999999999999999988776 49999876679999999999999999999999999
Q ss_pred cHHHHHhhhcCCCCCCCCC
Q 014770 401 PPWLHRMRELGYPPGYLGQ 419 (419)
Q Consensus 401 PPWL~rMr~lGYPPgYl~q 419 (419)
|+|+||||++|||||||++
T Consensus 201 P~~~yRMR~lGYPPg~L~~ 219 (485)
T KOG2673|consen 201 PEWKYRMRRLGYPPGYLRK 219 (485)
T ss_pred hHHHHHHhhccCCchhhhh
Confidence 9999999999999999974
No 2
>smart00581 PSP proline-rich domain in spliceosome associated proteins.
Probab=99.76 E-value=4.2e-19 Score=136.44 Aligned_cols=42 Identities=52% Similarity=1.107 Sum_probs=40.4
Q ss_pred ccCCCCCCCCHHHHHHhCCCCCCCcHHHHHhhhcCCCCCCCC
Q 014770 377 YDGLRPGALDAETRQLLGLGELDPPPWLHRMRELGYPPGYLG 418 (419)
Q Consensus 377 ~~~fkPG~LS~eLReALGi~~~~~PPWL~rMr~lGYPPgYl~ 418 (419)
|++||||+||++||+||||+++++||||++||++||||||+.
T Consensus 1 ~~~~kPG~lS~~LR~ALG~~~~~pPPWl~~Mq~~G~PPsYp~ 42 (54)
T smart00581 1 FKHFKPGRISDELREALGLPPGQPPPWLYRMRRLGYPPGYPR 42 (54)
T ss_pred CCCccCCcCCHHHHHHcCCCCCCCChHHHHHHHHCCCCCCcc
Confidence 578999999999999999999999999999999999999984
No 3
>PF04046 PSP: PSP; InterPro: IPR006568 PSP is a proline-rich domain of unknown function found in spliceosome associated proteins.
Probab=99.71 E-value=4.5e-18 Score=128.08 Aligned_cols=37 Identities=65% Similarity=1.300 Sum_probs=36.2
Q ss_pred CCCCCCHHHHHHhCCCCCCCcHHHHHhhhcCCCCCCC
Q 014770 381 RPGALDAETRQLLGLGELDPPPWLHRMRELGYPPGYL 417 (419)
Q Consensus 381 kPG~LS~eLReALGi~~~~~PPWL~rMr~lGYPPgYl 417 (419)
|||+||++||+||||+++++||||+|||++||||||.
T Consensus 1 kPG~lS~~LR~ALg~~~~~~PPwl~~M~~~G~PP~y~ 37 (48)
T PF04046_consen 1 KPGKLSDELREALGMQENDPPPWLYRMRRLGYPPGYP 37 (48)
T ss_pred CCcccCHHHHHHcCCCCCCCChHHHHHHhcCCCCCCc
Confidence 7999999999999999999999999999999999995
No 4
>COG5182 CUS1 Splicing factor 3b, subunit 2 [RNA processing and modification]
Probab=99.23 E-value=4.5e-12 Score=126.79 Aligned_cols=56 Identities=36% Similarity=0.615 Sum_probs=48.5
Q ss_pred CCCceeeecC-ccccccCCCCCCCCHHHHHHhCCCCCCCcHHHHHhhhcCCCCCCCC
Q 014770 363 RNPMRYYQNS-AGGKYDGLRPGALDAETRQLLGLGELDPPPWLHRMRELGYPPGYLG 418 (419)
Q Consensus 363 r~g~RYy~~e-~e~k~~~fkPG~LS~eLReALGi~~~~~PPWL~rMr~lGYPPgYl~ 418 (419)
..|+-||+.. ...-.++.+||.||.+||+||||.+++|||||.+|+++|+||||.+
T Consensus 260 ~fGe~y~e~~n~~~~vk~krPG~IS~eLrealgi~~g~pPPWlf~Mq~~G~PpsYPD 316 (429)
T COG5182 260 KFGEFYEEVDNDYRFVKKKRPGAISAELREALGIDSGTPPPWLFNMQKHGMPPSYPD 316 (429)
T ss_pred cccceeeccchHHHHHhccCCcchHHHHHHHhCCCCCCCChHHHhhhhcCCCCCCcc
Confidence 5667888764 2224589999999999999999999999999999999999999975
No 5
>KOG2330 consensus Splicing factor 3b, subunit 2 [RNA processing and modification]
Probab=99.23 E-value=4.3e-12 Score=129.58 Aligned_cols=56 Identities=32% Similarity=0.616 Sum_probs=51.1
Q ss_pred CCCceeeec-CccccccCCCCCCCCHHHHHHhCCCCCCCcHHHHHhhhcCCCCCCCC
Q 014770 363 RNPMRYYQN-SAGGKYDGLRPGALDAETRQLLGLGELDPPPWLHRMRELGYPPGYLG 418 (419)
Q Consensus 363 r~g~RYy~~-e~e~k~~~fkPG~LS~eLReALGi~~~~~PPWL~rMr~lGYPPgYl~ 418 (419)
.+|+-||++ +.+...++.+||.||+|||.||||+.+.|||||..||++|+||||..
T Consensus 253 ~~Ge~yyegke~e~~~k~k~PG~iS~eLr~aLgmp~g~pPPWl~aMqryGpPpsYPd 309 (500)
T KOG2330|consen 253 KFGELYYEGKELEAMVKEKKPGDISDELRIALGMPVGTPPPWLIAMQRYGPPPSYPD 309 (500)
T ss_pred ecceeeecchhHHHHHhhcCccchhHHHHHHhCCCCCCCChHHHHhhhcCCCCCCCc
Confidence 567899987 45567899999999999999999999999999999999999999974
No 6
>KOG2673 consensus Uncharacterized conserved protein, contains PSP domain [Function unknown]
Probab=98.23 E-value=4.6e-07 Score=93.82 Aligned_cols=84 Identities=27% Similarity=0.485 Sum_probs=72.7
Q ss_pred CCCCCCccCHHHHHHHHHHHHhhhccCCCCCCCceeeecCccccccCCCCCCCCHHHHHHhCCCCCCCcHHHHHhhhcCC
Q 014770 333 LKECPKPRDKDAVNNARKQHKSKRNQNSASRNPMRYYQNSAGGKYDGLRPGALDAETRQLLGLGELDPPPWLHRMRELGY 412 (419)
Q Consensus 333 LrDCP~PRD~a~In~aRkef~~kr~q~~~sr~g~RYy~~e~e~k~~~fkPG~LS~eLReALGi~~~~~PPWL~rMr~lGY 412 (419)
+++||.|+| ++|+..|.+++.....-+...++.+|+......+++.+.+|.|| ++.++|+-.+...||.+|+|+++|+
T Consensus 1 ~~~cp~~~n-~~i~~~~d~~~e~~~eis~q~~~e~~~d~~~d~~~~r~esg~i~-~qqd~l~~te~a~~~fr~~~qe~~t 78 (485)
T KOG2673|consen 1 MKDCPMPRN-ARISEKRDEYMEACGEISNQNFQERLHDELVDERRGRFESGVIS-EQQDLLGVTEKAFPPFRYRMQELGT 78 (485)
T ss_pred CCcCCCccc-cccCcchhHHHHHhhhcCCcchhhhccchhhhhhhccccccccc-hHHHHhhcccccccchhhhHHhhcC
Confidence 478999999 99999999999875433333456888877777899999999999 7889999999999999999999999
Q ss_pred CCCCCC
Q 014770 413 PPGYLG 418 (419)
Q Consensus 413 PPgYl~ 418 (419)
|+.|++
T Consensus 79 ~s~wl~ 84 (485)
T KOG2673|consen 79 PSFWLK 84 (485)
T ss_pred chhhhh
Confidence 999985
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=97.28 E-value=0.00013 Score=45.24 Aligned_cols=18 Identities=50% Similarity=1.315 Sum_probs=16.6
Q ss_pred CceecCCCCCCCCCCCCC
Q 014770 321 SRCFNCGSYSHSLKECPK 338 (419)
Q Consensus 321 ~rCFNCGs~eHsLrDCP~ 338 (419)
..|||||+.+|..++||+
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 8
>PF14392 zf-CCHC_4: Zinc knuckle
Probab=90.90 E-value=0.093 Score=39.04 Aligned_cols=24 Identities=46% Similarity=0.847 Sum_probs=19.8
Q ss_pred ccccCCCceecCCCCCCCCCCCCC
Q 014770 315 EIIDDASRCFNCGSYSHSLKECPK 338 (419)
Q Consensus 315 Eiv~~~~rCFNCGs~eHsLrDCP~ 338 (419)
+...-...||+||..+|..++||+
T Consensus 26 ~YE~lp~~C~~C~~~gH~~~~C~k 49 (49)
T PF14392_consen 26 KYERLPRFCFHCGRIGHSDKECPK 49 (49)
T ss_pred EECCcChhhcCCCCcCcCHhHcCC
Confidence 333446889999999999999995
No 9
>COG5082 AIR1 Arginine methyltransferase-interacting protein, contains RING Zn-finger [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]
Probab=90.42 E-value=0.13 Score=48.96 Aligned_cols=21 Identities=38% Similarity=1.061 Sum_probs=18.5
Q ss_pred ccCCCceecCCCCCCCCCCCC
Q 014770 317 IDDASRCFNCGSYSHSLKECP 337 (419)
Q Consensus 317 v~~~~rCFNCGs~eHsLrDCP 337 (419)
..+...|||||+.+|..+|||
T Consensus 57 ~~~~~~C~nCg~~GH~~~DCP 77 (190)
T COG5082 57 REENPVCFNCGQNGHLRRDCP 77 (190)
T ss_pred cccccccchhcccCcccccCC
Confidence 345789999999999999999
No 10
>smart00343 ZnF_C2HC zinc finger.
Probab=90.10 E-value=0.15 Score=33.28 Aligned_cols=19 Identities=42% Similarity=1.235 Sum_probs=16.5
Q ss_pred ceecCCCCCCCCCCCCCcc
Q 014770 322 RCFNCGSYSHSLKECPKPR 340 (419)
Q Consensus 322 rCFNCGs~eHsLrDCP~PR 340 (419)
.||+||..+|..++||...
T Consensus 1 ~C~~CG~~GH~~~~C~~~~ 19 (26)
T smart00343 1 KCYNCGKEGHIARDCPKXX 19 (26)
T ss_pred CCccCCCCCcchhhCCccc
Confidence 4999999999999999443
No 11
>PTZ00368 universal minicircle sequence binding protein (UMSBP); Provisional
Probab=86.53 E-value=0.42 Score=41.80 Aligned_cols=22 Identities=36% Similarity=0.925 Sum_probs=16.3
Q ss_pred CCceecCCCCCCCCCCCCCccC
Q 014770 320 ASRCFNCGSYSHSLKECPKPRD 341 (419)
Q Consensus 320 ~~rCFNCGs~eHsLrDCP~PRD 341 (419)
...||||+..+|..++||.+++
T Consensus 27 ~~~C~~Cg~~GH~~~~Cp~~~~ 48 (148)
T PTZ00368 27 ARPCYKCGEPGHLSRECPSAPG 48 (148)
T ss_pred CccCccCCCCCcCcccCcCCCC
Confidence 4677888777787777877664
No 12
>PF13696 zf-CCHC_2: Zinc knuckle
Probab=85.46 E-value=0.39 Score=34.30 Aligned_cols=21 Identities=29% Similarity=0.882 Sum_probs=18.5
Q ss_pred CCceecCCCCCCCCCCCCCcc
Q 014770 320 ASRCFNCGSYSHSLKECPKPR 340 (419)
Q Consensus 320 ~~rCFNCGs~eHsLrDCP~PR 340 (419)
.-.|+-|+..+|-++|||..+
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
>PTZ00368 universal minicircle sequence binding protein (UMSBP); Provisional
Probab=85.11 E-value=0.47 Score=41.49 Aligned_cols=20 Identities=35% Similarity=1.022 Sum_probs=18.1
Q ss_pred CceecCCCCCCCCCCCCCcc
Q 014770 321 SRCFNCGSYSHSLKECPKPR 340 (419)
Q Consensus 321 ~rCFNCGs~eHsLrDCP~PR 340 (419)
+.||||+..+|..++||.+.
T Consensus 1 ~~C~~C~~~GH~~~~c~~~~ 20 (148)
T PTZ00368 1 MVCYRCGGVGHQSRECPNSA 20 (148)
T ss_pred CcCCCCCCCCcCcccCcCCC
Confidence 47999999999999999964
No 14
>PF15288 zf-CCHC_6: Zinc knuckle
Probab=75.29 E-value=1.7 Score=32.56 Aligned_cols=20 Identities=40% Similarity=0.946 Sum_probs=16.9
Q ss_pred CceecCCCCCCCC--CCCCCcc
Q 014770 321 SRCFNCGSYSHSL--KECPKPR 340 (419)
Q Consensus 321 ~rCFNCGs~eHsL--rDCP~PR 340 (419)
.+|-|||+.+|.- +.||.-.
T Consensus 2 ~kC~~CG~~GH~~t~k~CP~~~ 23 (40)
T PF15288_consen 2 VKCKNCGAFGHMRTNKRCPMYC 23 (40)
T ss_pred ccccccccccccccCccCCCCC
Confidence 5899999999987 7898644
No 15
>COG5082 AIR1 Arginine methyltransferase-interacting protein, contains RING Zn-finger [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]
Probab=74.55 E-value=1.5 Score=41.97 Aligned_cols=17 Identities=35% Similarity=1.132 Sum_probs=16.1
Q ss_pred CceecCCCCCCCCCCCC
Q 014770 321 SRCFNCGSYSHSLKECP 337 (419)
Q Consensus 321 ~rCFNCGs~eHsLrDCP 337 (419)
..|+|||..+|.-+||+
T Consensus 98 ~~C~~Cg~~GH~~~dC~ 114 (190)
T COG5082 98 KKCYNCGETGHLSRDCN 114 (190)
T ss_pred cccccccccCccccccC
Confidence 68999999999999995
No 16
>PF13917 zf-CCHC_3: Zinc knuckle
Probab=69.90 E-value=2.8 Score=31.39 Aligned_cols=19 Identities=42% Similarity=0.915 Sum_probs=17.6
Q ss_pred CCceecCCCCCCCCCCCCC
Q 014770 320 ASRCFNCGSYSHSLKECPK 338 (419)
Q Consensus 320 ~~rCFNCGs~eHsLrDCP~ 338 (419)
..+|-||++.+|--.+||.
T Consensus 4 ~~~CqkC~~~GH~tyeC~~ 22 (42)
T PF13917_consen 4 RVRCQKCGQKGHWTYECPN 22 (42)
T ss_pred CCcCcccCCCCcchhhCCC
Confidence 5789999999999999995
No 17
>KOG4400 consensus E3 ubiquitin ligase interacting with arginine methyltransferase [Posttranslational modification, protein turnover, chaperones]
Probab=69.15 E-value=2.3 Score=40.61 Aligned_cols=19 Identities=32% Similarity=1.104 Sum_probs=17.4
Q ss_pred CceecCCCCCCCCCCCCCc
Q 014770 321 SRCFNCGSYSHSLKECPKP 339 (419)
Q Consensus 321 ~rCFNCGs~eHsLrDCP~P 339 (419)
..|||||..+|.-++||+|
T Consensus 144 ~~Cy~Cg~~GH~s~~C~~~ 162 (261)
T KOG4400|consen 144 AKCYSCGEQGHISDDCPEN 162 (261)
T ss_pred CccCCCCcCCcchhhCCCC
Confidence 5699999999999999976
No 18
>KOG4400 consensus E3 ubiquitin ligase interacting with arginine methyltransferase [Posttranslational modification, protein turnover, chaperones]
Probab=65.55 E-value=2.9 Score=39.93 Aligned_cols=25 Identities=36% Similarity=0.857 Sum_probs=22.7
Q ss_pred CCCceecCCCCCCCCCCCCCccCHH
Q 014770 319 DASRCFNCGSYSHSLKECPKPRDKD 343 (419)
Q Consensus 319 ~~~rCFNCGs~eHsLrDCP~PRD~a 343 (419)
...+||||+..+|..++||.++..-
T Consensus 91 ~~~~c~~C~~~gH~~~~c~~~~~~~ 115 (261)
T KOG4400|consen 91 IAAACFNCGEGGHIERDCPEAGKEG 115 (261)
T ss_pred cchhhhhCCCCccchhhCCcccCcc
Confidence 3689999999999999999999874
No 19
>TIGR03290 CoB_CoM_SS_C CoB--CoM heterodisulfide reductase, subunit C. The last step in methanogenesis leaves two coenzymes of methanogenesis, CoM and CoB, linked by a disulfide bond. Members of this protein family are the C subunit of the enzyme that reduces the heterodisulfide to CoB-SH and CoM-SH. Similar enzyme complex subunits are found in various other species, but likely act on a different substrate.
Probab=57.60 E-value=3.8 Score=35.91 Aligned_cols=79 Identities=18% Similarity=0.236 Sum_probs=43.3
Q ss_pred CceecCCCCCCCCCCCCCccCHHHHH-HHHHHHHhhhccCCCCCCCceeeecCccccccCCCCCCCCHHHHHHhCCCCCC
Q 014770 321 SRCFNCGSYSHSLKECPKPRDKDAVN-NARKQHKSKRNQNSASRNPMRYYQNSAGGKYDGLRPGALDAETRQLLGLGELD 399 (419)
Q Consensus 321 ~rCFNCGs~eHsLrDCP~PRD~a~In-~aRkef~~kr~q~~~sr~g~RYy~~e~e~k~~~fkPG~LS~eLReALGi~~~~ 399 (419)
-+|+.||. =..-||.-.|...+- ..|+.. ..++..+ .+..++++... ..-..+.-..+..+||+++|++ .
T Consensus 46 ~~C~~Cg~---C~~~CP~~i~~~~~i~~~R~~~-~~~g~~~--~~~~~~~~~~~-~~g~~~~~~~~~~~lr~~~g~~--~ 116 (144)
T TIGR03290 46 WMCTTCYT---CQERCPRDVKITDIIKALRNLA-AKKGFMA--KAHRKTASFVL-KTGHAVPINDEIKELRKELGLD--E 116 (144)
T ss_pred CcCcCcCc---hhhhcCCCCCHHHHHHHHHHHH-HHcCCCC--HHHHHHHHHHH-HHCCCCCccHHHHHHHHHcCCC--C
Confidence 47888886 667899999976444 444343 2222111 00011111100 0012345556778899999976 5
Q ss_pred CcHHHHHhh
Q 014770 400 PPPWLHRMR 408 (419)
Q Consensus 400 ~PPWL~rMr 408 (419)
.|+|...|.
T Consensus 117 ~p~~~~~~p 125 (144)
T TIGR03290 117 IPPTTHKYP 125 (144)
T ss_pred CCCccccCH
Confidence 678876554
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=40.32 E-value=16 Score=32.58 Aligned_cols=20 Identities=25% Similarity=0.629 Sum_probs=17.2
Q ss_pred CCCceecCCCCCCCCCCCCCc
Q 014770 319 DASRCFNCGSYSHSLKECPKP 339 (419)
Q Consensus 319 ~~~rCFNCGs~eHsLrDCP~P 339 (419)
....|.+|++ +|--..||+-
T Consensus 105 ~~v~CR~CkG-dH~T~~CPyK 124 (128)
T PF12353_consen 105 SKVKCRICKG-DHWTSKCPYK 124 (128)
T ss_pred ceEEeCCCCC-CcccccCCcc
Confidence 3578999997 9999999973
No 21
>KOG2044 consensus 5'-3' exonuclease HKE1/RAT1 [Replication, recombination and repair; RNA processing and modification]
Probab=36.40 E-value=15 Score=42.17 Aligned_cols=20 Identities=40% Similarity=0.954 Sum_probs=17.7
Q ss_pred CCceecCCCCCCCCCCCCCc
Q 014770 320 ASRCFNCGSYSHSLKECPKP 339 (419)
Q Consensus 320 ~~rCFNCGs~eHsLrDCP~P 339 (419)
..+||-||+.+|.++||.--
T Consensus 260 ~~~C~~cgq~gh~~~dc~g~ 279 (931)
T KOG2044|consen 260 PRRCFLCGQTGHEAKDCEGK 279 (931)
T ss_pred cccchhhcccCCcHhhcCCc
Confidence 58899999999999999743
No 22
>KOG0119 consensus Splicing factor 1/branch point binding protein (RRM superfamily) [RNA processing and modification]
Probab=30.61 E-value=25 Score=38.50 Aligned_cols=20 Identities=25% Similarity=0.580 Sum_probs=18.2
Q ss_pred CCceecCCCCCCCCCCCCCc
Q 014770 320 ASRCFNCGSYSHSLKECPKP 339 (419)
Q Consensus 320 ~~rCFNCGs~eHsLrDCP~P 339 (419)
.+.||+||..+|..+||+..
T Consensus 285 ~n~c~~cg~~gH~~~dc~~~ 304 (554)
T KOG0119|consen 285 TNVCKICGPLGHISIDCKVN 304 (554)
T ss_pred cccccccCCcccccccCCCc
Confidence 34899999999999999988
No 23
>COG5222 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=27.32 E-value=33 Score=35.88 Aligned_cols=23 Identities=30% Similarity=0.896 Sum_probs=19.7
Q ss_pred CCceecCCCCCCCCCCCCCccCH
Q 014770 320 ASRCFNCGSYSHSLKECPKPRDK 342 (419)
Q Consensus 320 ~~rCFNCGs~eHsLrDCP~PRD~ 342 (419)
.-.||-||+.+|-++.||---|-
T Consensus 176 gY~CyRCGqkgHwIqnCpTN~Dp 198 (427)
T COG5222 176 GYVCYRCGQKGHWIQNCPTNQDP 198 (427)
T ss_pred ceeEEecCCCCchhhcCCCCCCC
Confidence 35799999999999999976654
No 24
>TIGR02663 nifX nitrogen fixation protein NifX. Members of this family are NifX proteins encoded within operons for nitrogen fixation in a number of bacteria. NifX, NafY, and the C-terminal region of NifB all belong to the Pfam family pfam02579 and are involved in MoFe cofactor biosynthesis. NifX is a nitrogenase accessory protein with a role in expression of the MoFe cofactor.
Probab=26.38 E-value=26 Score=29.86 Aligned_cols=25 Identities=28% Similarity=0.694 Sum_probs=17.0
Q ss_pred CCCCCHHHHHHhCCCCCCCcHHHHH
Q 014770 382 PGALDAETRQLLGLGELDPPPWLHR 406 (419)
Q Consensus 382 PG~LS~eLReALGi~~~~~PPWL~r 406 (419)
+|.|.+-|.+-..+-.+.|||||.|
T Consensus 93 ~~~v~eal~~l~~~~~~~~~~w~~~ 117 (119)
T TIGR02663 93 PESISELLERLQKMLKGNPPPWLRK 117 (119)
T ss_pred CccHHHHHHHHHHHHcCCCCHHHHh
Confidence 4566666544444445899999987
No 25
>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=26.33 E-value=45 Score=30.37 Aligned_cols=18 Identities=44% Similarity=1.121 Sum_probs=16.6
Q ss_pred CCceecCCCCCCCCCCCC
Q 014770 320 ASRCFNCGSYSHSLKECP 337 (419)
Q Consensus 320 ~~rCFNCGs~eHsLrDCP 337 (419)
-.+||+||.+.|.-..|.
T Consensus 62 ~~~C~~CG~~l~~~~~C~ 79 (124)
T PF05515_consen 62 YNRCFKCGRYLHNNGNCR 79 (124)
T ss_pred hCccccccceeecCCcCC
Confidence 489999999999999999
No 26
>KOG0109 consensus RNA-binding protein LARK, contains RRM and retroviral-type Zn-finger domains [RNA processing and modification; General function prediction only]
Probab=25.73 E-value=35 Score=35.43 Aligned_cols=25 Identities=44% Similarity=0.884 Sum_probs=22.6
Q ss_pred cCCCceecCCCCCCCCCCCCCccCH
Q 014770 318 DDASRCFNCGSYSHSLKECPKPRDK 342 (419)
Q Consensus 318 ~~~~rCFNCGs~eHsLrDCP~PRD~ 342 (419)
-+..-|.-||-++|--++||.+|+-
T Consensus 158 gDq~~cyrcGkeghwskEcP~~~~~ 182 (346)
T KOG0109|consen 158 GDQSGCYRCGKEGHWSKECPVDRTG 182 (346)
T ss_pred CCHHHheeccccccccccCCccCCC
Confidence 4468899999999999999999986
No 27
>smart00647 IBR In Between Ring fingers. the domains occurs between pairs og RING fingers
Probab=25.43 E-value=41 Score=24.60 Aligned_cols=17 Identities=41% Similarity=0.674 Sum_probs=14.3
Q ss_pred CCceecCCCCCCCCCCC
Q 014770 320 ASRCFNCGSYSHSLKEC 336 (419)
Q Consensus 320 ~~rCFNCGs~eHsLrDC 336 (419)
..-||+|+..-|.-..|
T Consensus 48 ~~fC~~C~~~~H~~~~C 64 (64)
T smart00647 48 FSFCFRCKVPWHSPVSC 64 (64)
T ss_pred CeECCCCCCcCCCCCCC
Confidence 57799999999987666
No 28
>KOG2560 consensus RNA splicing factor - Slu7p [RNA processing and modification]
Probab=24.44 E-value=17 Score=39.38 Aligned_cols=19 Identities=37% Similarity=0.945 Sum_probs=17.3
Q ss_pred CCCceecCCCCCCCCCCCC
Q 014770 319 DASRCFNCGSYSHSLKECP 337 (419)
Q Consensus 319 ~~~rCFNCGs~eHsLrDCP 337 (419)
++..|-|||.-.|..+||=
T Consensus 111 RKGACeNCGAmtHk~KDCm 129 (529)
T KOG2560|consen 111 RKGACENCGAMTHKVKDCM 129 (529)
T ss_pred hhhhhhhhhhhhcchHHHh
Confidence 4689999999999999994
No 29
>COG1654 BirA Biotin operon repressor [Transcription]
Probab=22.73 E-value=40 Score=28.13 Aligned_cols=27 Identities=19% Similarity=0.263 Sum_probs=24.4
Q ss_pred HHHHHHhCCCCCCCcHHHHHhhhcCCC
Q 014770 387 AETRQLLGLGELDPPPWLHRMRELGYP 413 (419)
Q Consensus 387 ~eLReALGi~~~~~PPWL~rMr~lGYP 413 (419)
++|.++|||..-..=-.|...|++||+
T Consensus 23 e~La~~LgiSRtaVwK~Iq~Lr~~G~~ 49 (79)
T COG1654 23 EKLAEELGISRTAVWKHIQQLREEGVD 49 (79)
T ss_pred HHHHHHHCccHHHHHHHHHHHHHhCCc
Confidence 359999999999998999999999986
Done!