Query psy14127
Match_columns 76
No_of_seqs 110 out of 721
Neff 6.5
Searched_HMMs 46136
Date Fri Aug 16 20:14:10 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy14127.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/14127hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG1891|consensus 99.5 2.5E-15 5.4E-20 104.9 2.4 59 4-66 90-148 (271)
2 PF00397 WW: WW domain; Inter 99.1 9.2E-11 2E-15 58.7 3.8 30 8-37 1-31 (31)
3 smart00456 WW Domain with 2 co 99.1 3E-10 6.4E-15 56.5 4.3 32 8-39 1-32 (32)
4 cd00201 WW Two conserved trypt 98.9 2.3E-09 5E-14 52.6 4.2 31 9-39 1-31 (31)
5 KOG3209|consensus 98.9 4.4E-10 9.6E-15 88.5 1.7 62 4-65 219-287 (984)
6 KOG3259|consensus 98.2 5.9E-07 1.3E-11 59.5 1.8 38 4-41 3-41 (163)
7 KOG1891|consensus 97.4 0.00012 2.5E-09 51.8 2.2 37 6-42 127-163 (271)
8 KOG0940|consensus 94.5 0.02 4.4E-07 42.5 1.6 30 11-40 117-146 (358)
9 KOG0940|consensus 93.5 0.098 2.1E-06 38.9 3.5 58 4-62 57-129 (358)
10 KOG4334|consensus 93.3 0.11 2.5E-06 40.6 3.7 37 3-39 150-186 (650)
11 COG5104 PRP40 Splicing factor 93.3 0.023 5E-07 43.8 -0.1 55 12-66 17-73 (590)
12 KOG4286|consensus 92.4 0.035 7.5E-07 45.1 -0.2 29 11-39 353-381 (966)
13 KOG3209|consensus 91.5 0.096 2.1E-06 42.6 1.3 37 6-42 267-303 (984)
14 COG5104 PRP40 Splicing factor 87.0 0.24 5.1E-06 38.4 0.5 31 10-40 56-86 (590)
15 KOG3552|consensus 86.4 0.14 2.9E-06 42.8 -1.1 34 5-38 17-50 (1298)
16 KOG3427|consensus 80.3 0.59 1.3E-05 32.7 0.2 46 5-50 5-51 (222)
17 smart00391 MBD Methyl-CpG bind 79.4 3.4 7.3E-05 24.2 3.2 24 5-28 5-36 (77)
18 cd01396 MeCP2_MBD MeCP2, MBD1, 77.6 5.2 0.00011 23.5 3.7 27 4-30 3-36 (77)
19 KOG0155|consensus 77.3 3 6.6E-05 33.0 3.3 29 12-40 116-144 (617)
20 cd00122 MBD MeCP2, MBD1, MBD2, 71.5 6.7 0.00015 21.7 3.0 24 5-28 3-33 (62)
21 PF01429 MBD: Methyl-CpG bindi 67.0 4.7 0.0001 23.3 1.8 24 4-27 7-38 (77)
22 KOG0155|consensus 56.0 6.9 0.00015 31.0 1.4 35 8-42 10-44 (617)
23 cd01397 HAT_MBD Methyl-CpG bin 54.7 19 0.00041 21.1 2.8 21 6-26 4-31 (73)
24 COG5021 HUL4 Ubiquitin-protein 48.5 13 0.00027 31.0 1.9 61 4-64 443-505 (872)
25 KOG4161|consensus 44.2 20 0.00044 25.7 2.2 16 1-16 12-27 (272)
26 PF13382 Adenine_deam_C: Adeni 43.5 7.2 0.00016 26.2 -0.2 15 62-76 57-71 (171)
27 PF04827 Plant_tran: Plant tra 42.9 7.7 0.00017 27.0 -0.1 7 69-75 192-198 (205)
28 cd01295 AdeC Adenine deaminase 35.3 12 0.00026 27.7 -0.1 14 63-76 315-328 (422)
29 KOG3552|consensus 33.3 26 0.00055 30.1 1.4 38 29-66 2-39 (1298)
30 TIGR01178 ade adenine deaminas 29.8 18 0.00039 28.3 0.1 14 63-76 436-449 (552)
31 PRK10027 cryptic adenine deami 27.3 21 0.00046 28.3 0.1 13 64-76 469-481 (588)
32 PF05071 NDUFA12: NADH ubiquin 26.9 1.6E+02 0.0034 18.0 4.0 29 11-39 1-32 (105)
33 KOG0150|consensus 23.8 61 0.0013 24.2 1.9 31 12-42 153-183 (336)
34 PRK08183 NADH dehydrogenase; V 22.9 1.8E+02 0.0039 18.9 3.8 43 10-53 25-72 (133)
35 PF01666 DX: DX module; Inter 22.4 1.4E+02 0.003 17.4 2.9 24 4-27 10-35 (76)
No 1
>KOG1891|consensus
Probab=99.54 E-value=2.5e-15 Score=104.87 Aligned_cols=59 Identities=31% Similarity=0.748 Sum_probs=54.7
Q ss_pred CCCCCCcCceEEEcCCCcEEEeeCCCCeeeccCCCCCCCCcCCCchhhHHHHHHhhhhhhccc
Q psy14127 4 GEIPLPEGWDFAQDYDGKVYFIDHNTKKTTWIDPRDRYDTLEDPRLEWRAIQEAMLREYLTTA 66 (76)
Q Consensus 4 ~~~~LP~GWe~~~~~~g~~yyvnh~tk~t~w~dPr~~~~~~~~~~~~w~~~~~~~~~~~~~~~ 66 (76)
.+.+||+||...++..|+.|||||++++|+|.||... |.+++||+++.+.+.++||...
T Consensus 90 edlPLPpgWav~~T~~grkYYIDHn~~tTHW~HPler----EgLppGW~rv~s~e~GtyY~~~ 148 (271)
T KOG1891|consen 90 EDLPLPPGWAVEFTTEGRKYYIDHNNRTTHWVHPLER----EGLPPGWKRVFSPEKGTYYYHE 148 (271)
T ss_pred ccCCCCCCcceeeEecCceeEeecCCCcccccChhhh----ccCCcchhhccccccceeeeec
Confidence 4678999999999999999999999999999999776 7899999999999999999863
No 2
>PF00397 WW: WW domain; InterPro: IPR001202 Synonym(s): Rsp5 or WWP domain The WW domain is a short conserved region in a number of unrelated proteins, which folds as a stable, triple stranded beta-sheet. This short domain of approximately 40 amino acids, may be repeated up to four times in some proteins [, , , ]. The name WW or WWP derives from the presence of two signature tryptophan residues that are spaced 20-23 amino acids apart and are present in most WW domains known to date, as well as that of a conserved Pro. The WW domain binds to proteins with particular proline-motifs, [AP]-P-P-[AP]-Y, and/or phosphoserine- phosphothreonine-containing motifs [, ]. It is frequently associated with other domains typical for proteins in signal transduction processes. A large variety of proteins containing the WW domain are known. These include; dystrophin, a multidomain cytoskeletal protein; utrophin, a dystrophin-like protein of unknown function; vertebrate YAP protein, substrate of an unknown serine kinase; Mus musculus (Mouse) NEDD-4, involved in the embryonic development and differentiation of the central nervous system; Saccharomyces cerevisiae (Baker's yeast) RSP5, similar to NEDD-4 in its molecular organisation; Rattus norvegicus (Rat) FE65, a transcription-factor activator expressed preferentially in liver; Nicotiana tabacum (Common tobacco) DB10 protein, amongst others.; GO: 0005515 protein binding; PDB: 2JXW_A 2DK1_A 2JOC_A 2JO9_A 1YIU_A 1O6W_A 2JMF_A 1TK7_A 2KYK_A 2L5F_A ....
Probab=99.13 E-value=9.2e-11 Score=58.68 Aligned_cols=30 Identities=40% Similarity=0.932 Sum_probs=28.2
Q ss_pred CCcCceEEEcCC-CcEEEeeCCCCeeeccCC
Q psy14127 8 LPEGWDFAQDYD-GKVYFIDHNTKKTTWIDP 37 (76)
Q Consensus 8 LP~GWe~~~~~~-g~~yyvnh~tk~t~w~dP 37 (76)
||+||++.++.+ |+.||+|+.|++++|++|
T Consensus 1 LP~gW~~~~~~~~g~~YY~N~~t~~s~W~~P 31 (31)
T PF00397_consen 1 LPPGWEEYFDPDSGRPYYYNHETGESQWERP 31 (31)
T ss_dssp SSTTEEEEEETTTSEEEEEETTTTEEESSST
T ss_pred CCcCCEEEEcCCCCCEEEEeCCCCCEEeCCC
Confidence 799999999875 999999999999999987
No 3
>smart00456 WW Domain with 2 conserved Trp (W) residues. Also known as the WWP or rsp5 domain. Binds proline-rich polypeptides.
Probab=99.07 E-value=3e-10 Score=56.54 Aligned_cols=32 Identities=47% Similarity=1.073 Sum_probs=30.2
Q ss_pred CCcCceEEEcCCCcEEEeeCCCCeeeccCCCC
Q psy14127 8 LPEGWDFAQDYDGKVYFIDHNTKKTTWIDPRD 39 (76)
Q Consensus 8 LP~GWe~~~~~~g~~yyvnh~tk~t~w~dPr~ 39 (76)
||.||++.++.+|+.||+|+.|+.++|++|+.
T Consensus 1 lp~gW~~~~~~~g~~yy~n~~t~~s~W~~P~~ 32 (32)
T smart00456 1 LPPGWEERKDPDGRPYYYNHETKETQWEKPRE 32 (32)
T ss_pred CCCCCEEEECCCCCEEEEECCCCCEEcCCCCC
Confidence 79999999999999999999999999999963
No 4
>cd00201 WW Two conserved tryptophans domain; also known as the WWP or rsp5 domain; around 40 amino acids; functions as an interaction module in a diverse set of signalling proteins; binds specific proline-rich sequences but at low affinities compared to other peptide recognition proteins such as antibodies and receptors; WW domains have a single groove formed by a conserved Trp and Tyr which recognizes a pair of residues of the sequence X-Pro; variable loops and neighboring domains confer specificity in this domain; there are five distinct groups based on binding: 1) PPXY motifs 2) the PPLP motif; 3) PGM motifs; 4) PSP or PTP motifs; 5) PR motifs.
Probab=98.93 E-value=2.3e-09 Score=52.65 Aligned_cols=31 Identities=55% Similarity=1.151 Sum_probs=29.1
Q ss_pred CcCceEEEcCCCcEEEeeCCCCeeeccCCCC
Q psy14127 9 PEGWDFAQDYDGKVYFIDHNTKKTTWIDPRD 39 (76)
Q Consensus 9 P~GWe~~~~~~g~~yyvnh~tk~t~w~dPr~ 39 (76)
|.||++..+..|++||+|+.++.++|++|+.
T Consensus 1 p~~W~~~~~~~g~~yy~n~~t~~s~W~~P~~ 31 (31)
T cd00201 1 PPGWEERWDPDGRVYYYNHNTKETQWEDPRE 31 (31)
T ss_pred CCCCEEEECCCCCEEEEECCCCCEeCCCCCC
Confidence 7899999999999999999999999999963
No 5
>KOG3209|consensus
Probab=98.91 E-value=4.4e-10 Score=88.54 Aligned_cols=62 Identities=37% Similarity=0.761 Sum_probs=54.5
Q ss_pred CCCCCCcCceEEEcCCCcEEEeeCCCCeeeccCCCCCCC-------CcCCCchhhHHHHHHhhhhhhcc
Q psy14127 4 GEIPLPEGWDFAQDYDGKVYFIDHNTKKTTWIDPRDRYD-------TLEDPRLEWRAIQEAMLREYLTT 65 (76)
Q Consensus 4 ~~~~LP~GWe~~~~~~g~~yyvnh~tk~t~w~dPr~~~~-------~~~~~~~~w~~~~~~~~~~~~~~ 65 (76)
+.++||..||+.++++|.+||++|+|++|+|.|||+... .-+-+|.+|+++.+...+.||+.
T Consensus 219 ~~gplp~nwemayte~gevyfiDhntkttswLdprl~kkaK~~eeckd~elPygWeki~dpiYg~yyvd 287 (984)
T KOG3209|consen 219 NLGPLPHNWEMAYTEQGEVYFIDHNTKTTSWLDPRLTKKAKPPEECKDQELPYGWEKIEDPIYGTYYVD 287 (984)
T ss_pred ccCCCCccceEeEeecCeeEeeecccccceecChhhhcccCChhhcccccccccccccCCccceeEEec
Confidence 467899999999999999999999999999999997433 12448999999999999999987
No 6
>KOG3259|consensus
Probab=98.22 E-value=5.9e-07 Score=59.54 Aligned_cols=38 Identities=26% Similarity=0.667 Sum_probs=33.6
Q ss_pred CCCCCCcCceEEEc-CCCcEEEeeCCCCeeeccCCCCCC
Q psy14127 4 GEIPLPEGWDFAQD-YDGKVYFIDHNTKKTTWIDPRDRY 41 (76)
Q Consensus 4 ~~~~LP~GWe~~~~-~~g~~yyvnh~tk~t~w~dPr~~~ 41 (76)
+...||+||+++++ ++|++||.|+.|+..+|+.|....
T Consensus 3 ~~~~LP~~Wekr~Srs~gr~YyfN~~T~~SqWe~P~~t~ 41 (163)
T KOG3259|consen 3 DEEKLPPGWEKRMSRSSGRPYYFNTETNESQWERPSGTS 41 (163)
T ss_pred ccccCCchhheeccccCCCcceeccccchhhccCCCccc
Confidence 45679999999998 589999999999999999997643
No 7
>KOG1891|consensus
Probab=97.37 E-value=0.00012 Score=51.79 Aligned_cols=37 Identities=22% Similarity=0.385 Sum_probs=34.0
Q ss_pred CCCCcCceEEEcCCCcEEEeeCCCCeeeccCCCCCCC
Q psy14127 6 IPLPEGWDFAQDYDGKVYFIDHNTKKTTWIDPRDRYD 42 (76)
Q Consensus 6 ~~LP~GWe~~~~~~g~~yyvnh~tk~t~w~dPr~~~~ 42 (76)
+.||+||+..+++.-.+||+++.+++++.+||++.++
T Consensus 127 EgLppGW~rv~s~e~GtyY~~~~~k~tQy~HPc~~s~ 163 (271)
T KOG1891|consen 127 EGLPPGWKRVFSPEKGTYYYHEEMKRTQYEHPCISSP 163 (271)
T ss_pred ccCCcchhhccccccceeeeecccchhhhcCCCCCCC
Confidence 4699999999999888999999999999999999765
No 8
>KOG0940|consensus
Probab=94.53 E-value=0.02 Score=42.50 Aligned_cols=30 Identities=37% Similarity=0.556 Sum_probs=27.9
Q ss_pred CceEEEcCCCcEEEeeCCCCeeeccCCCCC
Q psy14127 11 GWDFAQDYDGKVYFIDHNTKKTTWIDPRDR 40 (76)
Q Consensus 11 GWe~~~~~~g~~yyvnh~tk~t~w~dPr~~ 40 (76)
||+.++++.|.+||.+|..+.++|.||+..
T Consensus 117 ~~h~~~~~~g~r~F~~~i~~ktt~ldd~e~ 146 (358)
T KOG0940|consen 117 GWHMRFTDTGQRPFYKHILKKTTTLDDREA 146 (358)
T ss_pred ceeeEecCCCceehhhhhhcCccccCchhh
Confidence 799999999999999999999999999875
No 9
>KOG0940|consensus
Probab=93.52 E-value=0.098 Score=38.91 Aligned_cols=58 Identities=21% Similarity=0.280 Sum_probs=42.6
Q ss_pred CCCCCCcCceEEEcCCC---cEEEeeCCCC-eeeccCCCCCCCCcC-----------CCchhhHHHHHHhhhhh
Q psy14127 4 GEIPLPEGWDFAQDYDG---KVYFIDHNTK-KTTWIDPRDRYDTLE-----------DPRLEWRAIQEAMLREY 62 (76)
Q Consensus 4 ~~~~LP~GWe~~~~~~g---~~yyvnh~tk-~t~w~dPr~~~~~~~-----------~~~~~w~~~~~~~~~~~ 62 (76)
+...||++|+...+..| ..+|++|++. .|.|++|..+ ..-+ -...+|++.+..-+..|
T Consensus 57 dy~glprewf~~lS~e~~~p~~~~~~~~~~~~tlq~~P~sg-~~p~~l~~~~~vg~~~~l~~~h~~~~~~g~r~ 129 (358)
T KOG0940|consen 57 DYGGLPREWFFLLSHEGFNPWYGLFQHSRKDYTLWLNPRSG-VNPGHLTYFRFVGGVLALAGWHMRFTDTGQRP 129 (358)
T ss_pred ccCCCCcceeeeeccccCCcceeeeeecccccccccCCccC-CCCCcccccccccccccccceeeEecCCCcee
Confidence 45678999999999988 8899999999 5999999987 2111 12236887765555444
No 10
>KOG4334|consensus
Probab=93.31 E-value=0.11 Score=40.56 Aligned_cols=37 Identities=27% Similarity=0.485 Sum_probs=32.9
Q ss_pred CCCCCCCcCceEEEcCCCcEEEeeCCCCeeeccCCCC
Q psy14127 3 NGEIPLPEGWDFAQDYDGKVYFIDHNTKKTTWIDPRD 39 (76)
Q Consensus 3 ~~~~~LP~GWe~~~~~~g~~yyvnh~tk~t~w~dPr~ 39 (76)
+..++||.||...+-.+|-+.|++..|+..+|..|-+
T Consensus 150 ~~~epLPeGW~~i~HnSGmPvylHr~tRVvt~SrPYf 186 (650)
T KOG4334|consen 150 DKSEPLPEGWTVISHNSGMPVYLHRFTRVVTHSRPYF 186 (650)
T ss_pred CCCCcCCCceEEEeecCCCceEEeeeeeeEeccCcee
Confidence 4567899999999999999999999999999998854
No 11
>COG5104 PRP40 Splicing factor [RNA processing and modification]
Probab=93.26 E-value=0.023 Score=43.81 Aligned_cols=55 Identities=24% Similarity=0.567 Sum_probs=42.9
Q ss_pred ceEEEcCCCcEEEeeCCCCeeeccCCCCCCC-CcCC-CchhhHHHHHHhhhhhhccc
Q psy14127 12 WDFAQDYDGKVYFIDHNTKKTTWIDPRDRYD-TLED-PRLEWRAIQEAMLREYLTTA 66 (76)
Q Consensus 12 We~~~~~~g~~yyvnh~tk~t~w~dPr~~~~-~~~~-~~~~w~~~~~~~~~~~~~~~ 66 (76)
|+...+++|++||.|..|+.++|+-|..... ..++ --.+|..--.+-+++||-++
T Consensus 17 w~e~k~~dgRiYYYN~~T~kS~weKPkell~~~e~~l~~~~Wke~~TadGkvyyyN~ 73 (590)
T COG5104 17 WEELKAPDGRIYYYNKRTGKSSWEKPKELLKGSEEDLDVDPWKECRTADGKVYYYNS 73 (590)
T ss_pred HHHhhCCCCceEEEecccccccccChHHHhcchHhhhchhhHHHHhhcCCceEEecC
Confidence 9999999999999999999999999943222 1122 24589888888899988654
No 12
>KOG4286|consensus
Probab=92.38 E-value=0.035 Score=45.12 Aligned_cols=29 Identities=31% Similarity=0.665 Sum_probs=26.5
Q ss_pred CceEEEcCCCcEEEeeCCCCeeeccCCCC
Q psy14127 11 GWDFAQDYDGKVYFIDHNTKKTTWIDPRD 39 (76)
Q Consensus 11 GWe~~~~~~g~~yyvnh~tk~t~w~dPr~ 39 (76)
.|+..++++--+|||||.+.+|+|+||..
T Consensus 353 pw~rais~nkvpyyinh~~q~t~wdhp~~ 381 (966)
T KOG4286|consen 353 PWERAISPNKVPYYINHETQTTCWDHPKM 381 (966)
T ss_pred cchhccCccccchhhcccchhhhccchHH
Confidence 49999999888999999999999999964
No 13
>KOG3209|consensus
Probab=91.49 E-value=0.096 Score=42.59 Aligned_cols=37 Identities=27% Similarity=0.505 Sum_probs=32.8
Q ss_pred CCCCcCceEEEcCCCcEEEeeCCCCeeeccCCCCCCC
Q psy14127 6 IPLPEGWDFAQDYDGKVYFIDHNTKKTTWIDPRDRYD 42 (76)
Q Consensus 6 ~~LP~GWe~~~~~~g~~yyvnh~tk~t~w~dPr~~~~ 42 (76)
..||.||+..-++.-..||++|+++.++++.|.+...
T Consensus 267 ~elPygWeki~dpiYg~yyvdHiN~~sq~enpvleak 303 (984)
T KOG3209|consen 267 QELPYGWEKIEDPIYGTYYVDHINRKSQYENPVLEAK 303 (984)
T ss_pred ccccccccccCCccceeEEecccchhhhhccchhhcc
Confidence 4599999999999889999999999999999987644
No 14
>COG5104 PRP40 Splicing factor [RNA processing and modification]
Probab=87.05 E-value=0.24 Score=38.43 Aligned_cols=31 Identities=32% Similarity=0.765 Sum_probs=27.6
Q ss_pred cCceEEEcCCCcEEEeeCCCCeeeccCCCCC
Q psy14127 10 EGWDFAQDYDGKVYFIDHNTKKTTWIDPRDR 40 (76)
Q Consensus 10 ~GWe~~~~~~g~~yyvnh~tk~t~w~dPr~~ 40 (76)
.+|....+.+|++||.|.+|+.+.|.-|...
T Consensus 56 ~~Wke~~TadGkvyyyN~~TREs~W~iP~e~ 86 (590)
T COG5104 56 DPWKECRTADGKVYYYNSITRESRWKIPPER 86 (590)
T ss_pred hhHHHHhhcCCceEEecCccccccccCChhh
Confidence 5798889999999999999999999888654
No 15
>KOG3552|consensus
Probab=86.41 E-value=0.14 Score=42.81 Aligned_cols=34 Identities=38% Similarity=0.699 Sum_probs=28.4
Q ss_pred CCCCCcCceEEEcCCCcEEEeeCCCCeeeccCCC
Q psy14127 5 EIPLPEGWDFAQDYDGKVYFIDHNTKKTTWIDPR 38 (76)
Q Consensus 5 ~~~LP~GWe~~~~~~g~~yyvnh~tk~t~w~dPr 38 (76)
...|++||+..++..|+.||++|..++++.++|.
T Consensus 17 ~~~v~~~~~r~~dsk~r~~y~~~~~~~~~~~~~~ 50 (1298)
T KOG3552|consen 17 HEELSYGWERAIDSKGRSYYINHLNKTTTYEAPE 50 (1298)
T ss_pred ccccchHHHHhhhcccchhHHhhcCCccCcCCCc
Confidence 3458999999999999999999888888876653
No 16
>KOG3427|consensus
Probab=80.31 E-value=0.59 Score=32.66 Aligned_cols=46 Identities=26% Similarity=0.380 Sum_probs=38.2
Q ss_pred CCCCCcCceEEEcC-CCcEEEeeCCCCeeeccCCCCCCCCcCCCchh
Q psy14127 5 EIPLPEGWDFAQDY-DGKVYFIDHNTKKTTWIDPRDRYDTLEDPRLE 50 (76)
Q Consensus 5 ~~~LP~GWe~~~~~-~g~~yyvnh~tk~t~w~dPr~~~~~~~~~~~~ 50 (76)
-..||..|-+.+++ -|..||-|-.|-...|.+|+.+.+.++++++.
T Consensus 5 L~rlp~~w~kv~~~s~~~~y~wn~~td~v~w~sp~~P~~~~~d~apr 51 (222)
T KOG3427|consen 5 LQRLPKLWTKVFDASPGSEYIWNIITDNVDWDSPSGPYPYKEDTAPR 51 (222)
T ss_pred hhcCCchhHhhcccccchhhhhhcccccccccCCCCCcccccCCCCc
Confidence 34688999999987 46778888899999999999998888877763
No 17
>smart00391 MBD Methyl-CpG binding domain. Methyl-CpG binding domain, also known as the TAM (TTF-IIP5, ARBP, MeCP1) domain
Probab=79.37 E-value=3.4 Score=24.23 Aligned_cols=24 Identities=33% Similarity=0.652 Sum_probs=16.5
Q ss_pred CCCCCcCceEEEc--------CCCcEEEeeCC
Q psy14127 5 EIPLPEGWDFAQD--------YDGKVYFIDHN 28 (76)
Q Consensus 5 ~~~LP~GWe~~~~--------~~g~~yyvnh~ 28 (76)
..+||.||+.... ..+.+||+...
T Consensus 5 ~~Plp~GW~R~~~~r~~g~~~~~~dV~Y~sP~ 36 (77)
T smart00391 5 RLPLPCGWRRETKQRKSGRSAGKFDVYYISPC 36 (77)
T ss_pred cCCCCCCcEEEEEEecCCCCCCcccEEEECCC
Confidence 4579999977764 24567887543
No 18
>cd01396 MeCP2_MBD MeCP2, MBD1, MBD2, MBD3, and MBD4 are members of a protein family that share the methyl-CpG-binding domain (MBD). The MBD, consists of about 70 residues and is defined as the minimal region required for binding to methylated DNA by a methyl-CpG-binding protein which binds specifically to methylated DNA. The MBD can recognize a single symmetrically methylated CpG either as naked DNA or within chromatin. MeCP2, MBD1 and MBD2 (and likely MBD3) form complexes with histone deacetylase and are involved in histone deacetylase-dependent repression of transcription. MBD4 is an endonuclease that forms a complex with the DNA mismatch-repair protein MLH1.
Probab=77.65 E-value=5.2 Score=23.45 Aligned_cols=27 Identities=30% Similarity=0.471 Sum_probs=16.6
Q ss_pred CCCCCCcCceEEEcC-------CCcEEEeeCCCC
Q psy14127 4 GEIPLPEGWDFAQDY-------DGKVYFIDHNTK 30 (76)
Q Consensus 4 ~~~~LP~GWe~~~~~-------~g~~yyvnh~tk 30 (76)
++-.||+||+..... .+.+||+....+
T Consensus 3 ~~~~lp~GW~r~~~~R~~gs~~k~DvyY~sP~Gk 36 (77)
T cd01396 3 EDPRLPPGWKRELVPRKSGSAGKFDVYYISPTGK 36 (77)
T ss_pred CCCCCCCCCEEEEEEecCCCCCcceEEEECCCCC
Confidence 344599999776531 224788765543
No 19
>KOG0155|consensus
Probab=77.30 E-value=3 Score=32.97 Aligned_cols=29 Identities=31% Similarity=0.612 Sum_probs=26.6
Q ss_pred ceEEEcCCCcEEEeeCCCCeeeccCCCCC
Q psy14127 12 WDFAQDYDGKVYFIDHNTKKTTWIDPRDR 40 (76)
Q Consensus 12 We~~~~~~g~~yyvnh~tk~t~w~dPr~~ 40 (76)
|-..+|-++++||.|..|+...|+.|...
T Consensus 116 WcVVwTgD~RvFFyNpktk~S~We~P~dl 144 (617)
T KOG0155|consen 116 WCVVWTGDNRVFFYNPKTKLSVWERPLDL 144 (617)
T ss_pred eEEEEeCCCceEEeCCccccccccCchhh
Confidence 99999999999999999999999999653
No 20
>cd00122 MBD MeCP2, MBD1, MBD2, MBD3, MBD4, CLLD8-like, and BAZ2A-like proteins constitute a family of proteins that share the methyl-CpG-binding domain (MBD). The MBD consists of about 70 residues and is defined as the minimal region required for binding to methylated DNA by a methyl-CpG-binding protein which binds specifically to methylated DNA. The MBD can recognize a single symmetrically methylated CpG either as naked DNA or within chromatin. MeCP2, MBD1 and MBD2 (and likely MBD3) form complexes with histone deacetylase and are involved in histone deacetylase-dependent repression of transcription. MBD4 is an endonuclease that forms a complex with the DNA mismatch-repair protein MLH1. The MBDs present in putative chromatin remodelling subunit, BAZ2A, and putative histone methyltransferase, CLLD8, represent two phylogenetically distinct groups within the MBD protein family.
Probab=71.54 E-value=6.7 Score=21.72 Aligned_cols=24 Identities=33% Similarity=0.681 Sum_probs=15.7
Q ss_pred CCCCCcCceEEEcC-------CCcEEEeeCC
Q psy14127 5 EIPLPEGWDFAQDY-------DGKVYFIDHN 28 (76)
Q Consensus 5 ~~~LP~GWe~~~~~-------~g~~yyvnh~ 28 (76)
..+||.||...... .+.+||+...
T Consensus 3 ~~P~p~GW~R~~~~r~~g~~~k~dv~Y~sP~ 33 (62)
T cd00122 3 RDPLPPGWKRELVIRKSGSAGKGDVYYYSPC 33 (62)
T ss_pred CCCCCCCeEEEEEEcCCCCCCcceEEEECCC
Confidence 45789999777642 3457777544
No 21
>PF01429 MBD: Methyl-CpG binding domain; InterPro: IPR001739 Methylation at CpG dinucleotide, the most common DNA modification in eukaryotes, has been correlated with gene silencing associated with various phenomena such as genomic imprinting, transposon and chromosome X inactivation, differentiation, and cancer. Effects of DNA methylation are mediated through proteins which bind to symmetrically methylated CpGs. Such proteins contain a specific domain of ~70 residues, the methyl-CpG-binding domain (MBD), which is linked to additional domains associated with chromatin, such as the bromodomain, the AT hook motif,the SET domain, or the PHD finger. MBD-containing proteins appear to act as structural proteins, which recruit a variety of histone deacetylase (HDAC) complexes and chromatin remodelling factors, leading to chromatin compaction and, consequently, to transcriptional repression. The MBD of MeCP2, MBD1, MBD2, MBD4 and BAZ2 mediates binding to DNA, in case of MeCP2, MBD1 and MBD2 preferentially to methylated CpG. In case of human MBD3 and SETDB1 the MBD has been shown to mediate protein-protein interactions [, ]. The MBD folds into an alpha/beta sandwich structure comprising a layer of twisted beta sheet, backed by another layer formed by the alpha1 helix and a hairpin loop at the C terminus. These layers are both amphipathic, with the alpha1 helix and the beta sheet lying parallel and the hydrophobic faces tightly packed against each other. The beta sheet is composed of two long inner strands (beta2 and beta3) sandwiched by two shorter outer strands (beta1 and beta4) [].; GO: 0003677 DNA binding, 0005634 nucleus; PDB: 2KY8_A 1UB1_A 1D9N_A 1IG4_A 1QK9_A 3C2I_A.
Probab=66.97 E-value=4.7 Score=23.33 Aligned_cols=24 Identities=33% Similarity=0.720 Sum_probs=15.0
Q ss_pred CCCCCCcCceEEEc--CCC------cEEEeeC
Q psy14127 4 GEIPLPEGWDFAQD--YDG------KVYFIDH 27 (76)
Q Consensus 4 ~~~~LP~GWe~~~~--~~g------~~yyvnh 27 (76)
...+||.||....- .+| .+||+..
T Consensus 7 ~~~~Lp~GW~re~~~R~~g~~~~~~dv~Y~sP 38 (77)
T PF01429_consen 7 LDPPLPDGWKREVVVRKSGSSAGKKDVYYYSP 38 (77)
T ss_dssp EBTTSTTT-EEEEEESSSSTTTTSEEEEEEET
T ss_pred ccCCCCCCCEEEEEEecCCCcCCceEEEEECC
Confidence 35689999976653 332 4678764
No 22
>KOG0155|consensus
Probab=55.96 E-value=6.9 Score=31.05 Aligned_cols=35 Identities=29% Similarity=0.542 Sum_probs=30.4
Q ss_pred CCcCceEEEcCCCcEEEeeCCCCeeeccCCCCCCC
Q psy14127 8 LPEGWDFAQDYDGKVYFIDHNTKKTTWIDPRDRYD 42 (76)
Q Consensus 8 LP~GWe~~~~~~g~~yyvnh~tk~t~w~dPr~~~~ 42 (76)
-|.+|...-.+.|..||.|..+...+|++|.....
T Consensus 10 aps~wtef~ap~G~pyy~ns~t~~st~ekP~~l~~ 44 (617)
T KOG0155|consen 10 APSGWTEFKAPDGIPYYWNSETLESTWEKPSFLEK 44 (617)
T ss_pred CCCCCccCCCCCCcceecccccccchhhCchhhhh
Confidence 35899888889999999999999999999987543
No 23
>cd01397 HAT_MBD Methyl-CpG binding domains (MBD) present in putative chromatin remodelling factor such as BAZ2A; BAZ2A contains a MBD, DDT, PHD-type zinc finger and Bromo domain suggesting that BAZ2A might be associated with histone acetyltransferase (HAT) activity. The Drosophila melanogaster toutatis protein, a putative subunit of the chromatin-remodeling complex, and other such proteins in this group share a similar domain architecture with BAZ2A, as does the Caenorhabditis elegans flectin homolog.
Probab=54.69 E-value=19 Score=21.11 Aligned_cols=21 Identities=29% Similarity=0.662 Sum_probs=14.2
Q ss_pred CCCCcCceEEEc-------CCCcEEEee
Q psy14127 6 IPLPEGWDFAQD-------YDGKVYFID 26 (76)
Q Consensus 6 ~~LP~GWe~~~~-------~~g~~yyvn 26 (76)
.||+.||+...- ..|.+||..
T Consensus 4 ~Pl~~GW~Re~vir~~~~~~~~dV~Y~a 31 (73)
T cd01397 4 VPLELGWRRETRIRGLGGRIQGEVAYYA 31 (73)
T ss_pred CCCCCCceeEEEeccCCCCccceEEEEC
Confidence 589999977652 245677764
No 24
>COG5021 HUL4 Ubiquitin-protein ligase [Posttranslational modification, protein turnover, chaperones]
Probab=48.52 E-value=13 Score=31.03 Aligned_cols=61 Identities=23% Similarity=0.160 Sum_probs=44.9
Q ss_pred CCCCCCcCceEEEcCCCcEEEeeCCCCeeeccCCCCCCC--CcCCCchhhHHHHHHhhhhhhc
Q psy14127 4 GEIPLPEGWDFAQDYDGKVYFIDHNTKKTTWIDPRDRYD--TLEDPRLEWRAIQEAMLREYLT 64 (76)
Q Consensus 4 ~~~~LP~GWe~~~~~~g~~yyvnh~tk~t~w~dPr~~~~--~~~~~~~~w~~~~~~~~~~~~~ 64 (76)
...+++.+|+.++...-+.++..|.++..+|.+++.+.. +.+.+-........+.+.-.+.
T Consensus 443 ~~~~l~~~~~~r~~~~~~~~~~~h~k~~~~~~~~~~g~~~~~~~~~~~r~~~~~r~~l~~~~~ 505 (872)
T COG5021 443 REGPLLSGWKTRLNNLYRFYFVEHRKKTLTKNDSRLGSFISLNKLDIRRIKEDKRRKLFYSLK 505 (872)
T ss_pred ccccccchHHHHhhhhheeeehhcccceeeecCCCCchhhhhchhHHHHHHHHHHHHHHHHHh
Confidence 356789999999999999999999999999999985433 2233455555555555555444
No 25
>KOG4161|consensus
Probab=44.24 E-value=20 Score=25.68 Aligned_cols=16 Identities=38% Similarity=0.709 Sum_probs=12.1
Q ss_pred CCCCCCCCCcCceEEE
Q psy14127 1 KRNGEIPLPEGWDFAQ 16 (76)
Q Consensus 1 ~~~~~~~LP~GWe~~~ 16 (76)
|+-++..||+||+...
T Consensus 12 ~~~~c~~lp~GW~~~~ 27 (272)
T KOG4161|consen 12 KRSDCPALPPGWTREE 27 (272)
T ss_pred CcccCCCCCCCcchhh
Confidence 3456788999997664
No 26
>PF13382 Adenine_deam_C: Adenine deaminase C-terminal domain; PDB: 3T8L_B 3T81_A 3NQB_A.
Probab=43.52 E-value=7.2 Score=26.18 Aligned_cols=15 Identities=47% Similarity=0.789 Sum_probs=7.8
Q ss_pred hhccccccccccccC
Q psy14127 62 YLTTAHHDSHNMIVM 76 (76)
Q Consensus 62 ~~~~~~~~~~~~~~~ 76 (76)
.=.|-.||+||+||+
T Consensus 57 iAsS~ahDshniivi 71 (171)
T PF13382_consen 57 IASSVAHDSHNIIVI 71 (171)
T ss_dssp EEES--TTT--EEEE
T ss_pred EEEEcccCCCCEEEE
Confidence 335567999999974
No 27
>PF04827 Plant_tran: Plant transposon protein; InterPro: IPR006912 This entry represents a putative Harbinger transposase-derived nuclease, which is thought to have nuclease activity. However it does not have transposase activity [, ]. ; GO: 0016788 hydrolase activity, acting on ester bonds
Probab=42.94 E-value=7.7 Score=27.05 Aligned_cols=7 Identities=71% Similarity=0.743 Sum_probs=5.1
Q ss_pred ccccccc
Q psy14127 69 DSHNMIV 75 (76)
Q Consensus 69 ~~~~~~~ 75 (76)
=||||||
T Consensus 192 ILHNMIv 198 (205)
T PF04827_consen 192 ILHNMIV 198 (205)
T ss_pred HhhheeE
Confidence 3688886
No 28
>cd01295 AdeC Adenine deaminase (AdeC) directly deaminates adenine to form hypoxanthine. This reaction is part of one of the adenine salvage pathways, as well as the degradation pathway. It is important for adenine utilization as a purine, as well as a nitrogen source in bacteria and archea.
Probab=35.28 E-value=12 Score=27.68 Aligned_cols=14 Identities=50% Similarity=0.861 Sum_probs=9.2
Q ss_pred hccccccccccccC
Q psy14127 63 LTTAHHDSHNMIVM 76 (76)
Q Consensus 63 ~~~~~~~~~~~~~~ 76 (76)
=.|=.||+||+||+
T Consensus 315 a~s~~hd~hn~~~~ 328 (422)
T cd01295 315 ASSVAHDSHNIIVI 328 (422)
T ss_pred EEEcccCcCcEEEE
Confidence 34456788887764
No 29
>KOG3552|consensus
Probab=33.27 E-value=26 Score=30.07 Aligned_cols=38 Identities=16% Similarity=0.416 Sum_probs=31.1
Q ss_pred CCeeeccCCCCCCCCcCCCchhhHHHHHHhhhhhhccc
Q psy14127 29 TKKTTWIDPRDRYDTLEDPRLEWRAIQEAMLREYLTTA 66 (76)
Q Consensus 29 tk~t~w~dPr~~~~~~~~~~~~w~~~~~~~~~~~~~~~ 66 (76)
+..+.|..++...-..+..+++|++..+...|.||+..
T Consensus 2 ~~~a~~~p~~~~~~~~~~v~~~~~r~~dsk~r~~y~~~ 39 (1298)
T KOG3552|consen 2 TQSAGWLPACEDWSKHEELSYGWERAIDSKGRSYYINH 39 (1298)
T ss_pred cccccCCCCccccccccccchHHHHhhhcccchhHHhh
Confidence 34577877777766678899999999999999999865
No 30
>TIGR01178 ade adenine deaminase. The family described by this model includes an experimentally characterized adenine deaminase of Bacillus subtilis. It also include a member from Methanobacterium thermoautotrophicum, in which adenine deaminase activity has been detected.
Probab=29.82 E-value=18 Score=28.27 Aligned_cols=14 Identities=50% Similarity=0.786 Sum_probs=9.5
Q ss_pred hccccccccccccC
Q psy14127 63 LTTAHHDSHNMIVM 76 (76)
Q Consensus 63 ~~~~~~~~~~~~~~ 76 (76)
=.|-.||+||+||+
T Consensus 436 ast~ahdshniivv 449 (552)
T TIGR01178 436 ASTVAHDSHNIIAV 449 (552)
T ss_pred EEEcccCcCcEEEE
Confidence 34556788888763
No 31
>PRK10027 cryptic adenine deaminase; Provisional
Probab=27.34 E-value=21 Score=28.25 Aligned_cols=13 Identities=54% Similarity=0.953 Sum_probs=8.3
Q ss_pred ccccccccccccC
Q psy14127 64 TTAHHDSHNMIVM 76 (76)
Q Consensus 64 ~~~~~~~~~~~~~ 76 (76)
.|-.||+||+||+
T Consensus 469 stvaHDsHNiivv 481 (588)
T PRK10027 469 ATVSHDSHNIVVI 481 (588)
T ss_pred EEcccCcCcEEEE
Confidence 4556777777763
No 32
>PF05071 NDUFA12: NADH ubiquinone oxidoreductase subunit NDUFA12; InterPro: IPR007763 NADH:ubiquinone oxidoreductase (complex I) (1.6.5.3 from EC) is a respiratory-chain enzyme that catalyses the transfer of two electrons from NADH to ubiquinone in a reaction that is associated with proton translocation across the membrane (NADH + ubiquinone = NAD+ + ubiquinol) []. Complex I is a major source of reactive oxygen species (ROS) that are predominantly formed by electron transfer from FMNH(2). Complex I is found in bacteria, cyanobacteria (as a NADH-plastoquinone oxidoreductase), archaea [], mitochondira, and in the hydrogenosome, a mitochondria-derived organelle. In general, the bacterial complex consists of 14 different subunits, while the mitochondrial complex contains homologues to these subunits in addition to approximately 31 additional proteins []. Mitochondrial complex I, which is located in the inner mitochondrial membrane, is the largest multimeric respiratory enzyme in the mitochondria, consisting of more than 40 subunits, one FMN co-factor and eight FeS clusters []. The assembly of mitochondrial complex I is an intricate process that requires the cooperation of the nuclear and mitochondrial genomes [, ]. Mitochondrial complex I can cycle between active and deactive forms that can be distinguished by the reactivity towards divalent cations and thiol-reactive agents. All redox prosthetic groups reside in the peripheral arm of the L-shaped structure. The NADH oxidation domain harbouring the FMN cofactor is connected via a chain of iron-sulphur clusters to the ubiquinone reduction site that is located in a large pocket formed by the PSST and 49kDa subunits of complex I []. this entry represents the 17.2kDa subunit from NADH:ubiquinone oxidoreductase and its homologues []. This subunit is believed to be one of the 36 structural complex I proteins.; GO: 0008137 NADH dehydrogenase (ubiquinone) activity, 0009055 electron carrier activity, 0016020 membrane
Probab=26.86 E-value=1.6e+02 Score=17.97 Aligned_cols=29 Identities=17% Similarity=0.406 Sum_probs=18.5
Q ss_pred CceEEEcCCCcEEEeeC---CCCeeeccCCCC
Q psy14127 11 GWDFAQDYDGKVYFIDH---NTKKTTWIDPRD 39 (76)
Q Consensus 11 GWe~~~~~~g~~yyvnh---~tk~t~w~dPr~ 39 (76)
|.-...|..|..||-+. ..+...|..+..
T Consensus 1 G~lVG~D~~GN~YyE~~~~~~~~~rRwV~y~~ 32 (105)
T PF05071_consen 1 GTLVGTDEFGNKYYENPRDEQGRRRRWVEYAG 32 (105)
T ss_pred CCEeeEeCCCCEEEeecCCCcCCCcEEEEcCC
Confidence 45567788999999665 234556654433
No 33
>KOG0150|consensus
Probab=23.84 E-value=61 Score=24.20 Aligned_cols=31 Identities=23% Similarity=0.650 Sum_probs=26.3
Q ss_pred ceEEEcCCCcEEEeeCCCCeeeccCCCCCCC
Q psy14127 12 WDFAQDYDGKVYFIDHNTKKTTWIDPRDRYD 42 (76)
Q Consensus 12 We~~~~~~g~~yyvnh~tk~t~w~dPr~~~~ 42 (76)
|.....++|..||.|..++.+.|..|+..+.
T Consensus 153 wv~~Knes~~~yy~n~~t~esvwk~P~~~~t 183 (336)
T KOG0150|consen 153 WVEGKNESGPTYYSNKRTNESVWKPPRISFT 183 (336)
T ss_pred cccccCCCCCCcceecCCCccccCCCCcccc
Confidence 5556677899999999999999999998765
No 34
>PRK08183 NADH dehydrogenase; Validated
Probab=22.89 E-value=1.8e+02 Score=18.87 Aligned_cols=43 Identities=19% Similarity=0.374 Sum_probs=25.2
Q ss_pred cCceEEEcCCCcEEEeeCC-----CCeeeccCCCCCCCCcCCCchhhHH
Q psy14127 10 EGWDFAQDYDGKVYFIDHN-----TKKTTWIDPRDRYDTLEDPRLEWRA 53 (76)
Q Consensus 10 ~GWe~~~~~~g~~yyvnh~-----tk~t~w~dPr~~~~~~~~~~~~w~~ 53 (76)
.|.-...|..|..||-+.. .+...|....-. ......|++|+.
T Consensus 25 ~g~lVG~D~~GNkYYE~~~~~~~~~~~rRWV~Y~~~-~d~s~IPpeWh~ 72 (133)
T PRK08183 25 KGERVGEDEFGNVYYRTKGGKPSDGRERRWVIYNGY-AEASRIPPEWHG 72 (133)
T ss_pred cCeEeEecCCCCeeeecCCccccCCCceEEEEeCCC-CCccccCchHHh
Confidence 4566778999999997655 235677554332 111224555644
No 35
>PF01666 DX: DX module; InterPro: IPR002593 This domain has no known function. It is found in several Caenorhabditis elegans proteins. The domain contains 6 conserved cysteines that probably form three disulphide bridges.
Probab=22.44 E-value=1.4e+02 Score=17.37 Aligned_cols=24 Identities=25% Similarity=0.472 Sum_probs=18.1
Q ss_pred CCCCCCcCceEEEc-C-CCcEEEeeC
Q psy14127 4 GEIPLPEGWDFAQD-Y-DGKVYFIDH 27 (76)
Q Consensus 4 ~~~~LP~GWe~~~~-~-~g~~yyvnh 27 (76)
...++|.+|...+- + .|++.++..
T Consensus 10 ~~~~ip~~~~~~fCdp~t~ki~imG~ 35 (76)
T PF01666_consen 10 PTEPIPPNFSFAFCDPETGKIVIMGE 35 (76)
T ss_pred CCCcCCCCcceEEECCcCCeEEEEee
Confidence 45679999988883 3 788888753
Done!