Query psy13700
Match_columns 166
No_of_seqs 80 out of 82
Neff 3.0
Searched_HMMs 46136
Date Fri Aug 16 18:18:16 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy13700.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/13700hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF08694 UFC1: Ubiquitin-fold 100.0 2E-103 4E-108 630.3 11.8 161 3-163 1-161 (161)
2 KOG3357|consensus 100.0 2E-100 4E-105 611.7 10.3 164 1-164 2-165 (167)
3 COG5078 Ubiquitin-protein liga 99.7 2.5E-17 5.3E-22 131.8 8.8 92 28-127 7-105 (153)
4 KOG0417|consensus 99.7 1.4E-16 3E-21 127.9 7.2 92 29-128 4-101 (148)
5 PLN00172 ubiquitin conjugating 99.6 2.7E-15 5.8E-20 116.8 9.5 102 28-137 3-110 (147)
6 PTZ00390 ubiquitin-conjugating 99.6 5.4E-15 1.2E-19 116.0 9.5 90 28-125 4-99 (152)
7 PF00179 UQ_con: Ubiquitin-con 99.5 2E-14 4.3E-19 108.2 7.9 99 30-136 1-107 (140)
8 cd00195 UBCc Ubiquitin-conjuga 99.5 1.3E-13 2.7E-18 104.2 8.7 89 29-125 2-97 (141)
9 KOG0418|consensus 99.3 3.5E-12 7.6E-17 106.7 6.5 94 28-125 5-104 (200)
10 smart00212 UBCc Ubiquitin-conj 99.2 3.1E-11 6.6E-16 91.6 8.2 87 29-123 1-95 (145)
11 KOG0419|consensus 99.0 9.8E-10 2.1E-14 88.7 6.7 90 28-125 6-101 (152)
12 KOG0422|consensus 99.0 9.2E-10 2E-14 89.1 5.8 88 28-123 4-98 (153)
13 KOG0421|consensus 98.9 1.8E-09 3.8E-14 88.5 6.7 98 23-128 26-129 (175)
14 KOG0424|consensus 98.9 3.2E-09 7E-14 86.3 7.9 102 28-137 6-120 (158)
15 KOG0427|consensus 98.9 5.4E-09 1.2E-13 84.7 8.5 94 27-127 16-114 (161)
16 KOG0426|consensus 98.8 1E-08 2.2E-13 83.3 6.8 82 28-117 6-91 (165)
17 KOG0416|consensus 98.3 4.1E-07 8.8E-12 75.9 4.0 69 58-126 26-99 (189)
18 KOG0425|consensus 98.3 1.6E-06 3.4E-11 71.6 6.9 80 30-117 9-92 (171)
19 KOG0894|consensus 98.3 2.4E-06 5.1E-11 73.6 7.3 89 27-127 6-105 (244)
20 KOG0428|consensus 98.0 9.4E-06 2E-10 71.5 6.2 91 26-127 11-110 (314)
21 KOG0420|consensus 97.8 1.2E-05 2.7E-10 67.1 2.8 62 75-137 74-138 (184)
22 KOG0895|consensus 97.1 0.0018 4E-08 65.3 8.1 107 17-130 273-387 (1101)
23 KOG0423|consensus 96.8 0.0012 2.7E-08 56.0 3.9 85 46-138 23-113 (223)
24 PF14461 Prok-E2_B: Prokaryoti 96.8 0.0026 5.7E-08 48.6 5.3 59 75-134 34-94 (133)
25 KOG0429|consensus 96.2 0.03 6.6E-07 49.0 8.2 99 29-128 16-117 (258)
26 KOG0895|consensus 94.7 0.03 6.4E-07 57.0 3.8 84 26-117 851-939 (1101)
27 COG3449 DNA gyrase inhibitor [ 94.1 0.14 3.1E-06 41.8 5.9 71 27-107 21-95 (154)
28 PF05773 RWD: RWD domain; Int 93.6 0.061 1.3E-06 37.7 2.5 64 28-99 3-71 (113)
29 KOG0896|consensus 93.0 0.093 2E-06 42.6 2.9 57 58-114 35-93 (138)
30 smart00591 RWD domain in RING 92.1 0.16 3.4E-06 35.5 2.8 25 76-100 40-64 (107)
31 PF05743 UEV: UEV domain; Int 87.8 1.9 4E-05 33.1 5.8 63 58-122 24-99 (121)
32 PF14462 Prok-E2_E: Prokaryoti 54.9 10 0.00022 30.0 2.2 29 74-102 39-69 (122)
33 PF06113 BRE: Brain and reprod 44.1 23 0.0005 32.4 3.1 29 71-99 300-328 (333)
34 KOG0897|consensus 42.5 15 0.00033 29.5 1.5 63 76-140 9-78 (122)
35 PF00339 Arrestin_N: Arrestin 33.4 30 0.00065 24.8 1.7 16 75-90 93-108 (149)
36 PF08872 KGK: KGK domain; Int 32.2 1.3E+02 0.0027 23.5 5.1 31 50-88 60-96 (114)
37 PF03920 TLE_N: Groucho/TLE N- 31.9 13 0.00029 30.2 -0.4 36 27-70 24-59 (135)
38 KOG4018|consensus 30.3 44 0.00096 29.0 2.5 23 78-100 50-72 (215)
39 PF14135 DUF4302: Domain of un 28.4 1E+02 0.0022 25.6 4.3 43 27-84 10-54 (235)
40 cd04714 BAH_BAHCC1 BAH, or Bro 28.1 43 0.00093 25.3 1.9 27 49-75 19-49 (121)
41 COG2005 ModE N-terminal domain 27.6 96 0.0021 24.8 3.8 49 5-53 54-107 (130)
42 PF10981 DUF2788: Protein of u 27.1 31 0.00068 23.9 0.8 21 122-142 17-38 (52)
43 PRK11727 23S rRNA mA1618 methy 26.4 14 0.00031 32.8 -1.1 58 29-94 29-87 (321)
44 PF09765 WD-3: WD-repeat regio 26.0 52 0.0011 29.0 2.2 22 78-99 138-159 (291)
45 COG4957 Predicted transcriptio 25.6 25 0.00055 29.0 0.2 46 50-98 74-123 (148)
46 PRK10016 DNA gyrase inhibitor; 25.3 1.2E+02 0.0025 22.9 3.8 66 9-91 8-77 (156)
47 PF09606 Med15: ARC105 or Med1 24.7 25 0.00053 35.5 0.0 86 13-98 641-735 (799)
48 cd04717 BAH_polybromo BAH, or 23.4 61 0.0013 24.0 1.9 28 49-76 19-50 (121)
49 COG1723 Uncharacterized conser 21.5 30 0.00066 31.7 -0.0 68 66-139 116-187 (331)
50 PF13122 DUF3977: Protein of u 20.9 35 0.00076 25.4 0.2 25 40-66 2-28 (77)
No 1
>PF08694 UFC1: Ubiquitin-fold modifier-conjugating enzyme 1; InterPro: IPR014806 Ubiquitin-like (UBL) post-translational modifiers are covalently linked to most, if not all, target protein(s) through an enzymatic cascade analogous to ubiquitylation, consisting of E1 (activating), E2 (conjugating), and E3 (ligating) enzymes. Ubiquitin-fold modifier 1 (Ufm1) a ubiquitin-like protein is activated by a novel E1-like enzyme, Uba5, by forming a high-energy thioester bond. Activated Ufm1 is then transferred to its cognate E2-like enzyme, Ufc1, in a similar thioester linkage. This family represents the E2-like enzyme [].; PDB: 2Z6P_A 2K07_A 2Z6O_A 3EVX_D 3KPA_A.
Probab=100.00 E-value=1.9e-103 Score=630.32 Aligned_cols=161 Identities=78% Similarity=1.398 Sum_probs=134.8
Q ss_pred hhhhhhhccccceeccCCCCCCChHHHHHHHHHHHHHHHHHhcccCCCCceEeeeCCCCCeeEEEeeceecccceeEEEE
Q psy13700 3 ESSKKTLSSIPLLKTKAGPRDKDLWPKRLKEEYVALIEYVKNNKAADNDWFRLESNKEGTKWFGSCWFFYNQLKYEFQIE 82 (166)
Q Consensus 3 ~~~~~~~~~ipl~~~~agprd~~~w~~RLkeEY~aLikyv~~nk~~d~dwf~Lepn~dgTrW~gkcw~~~~~~kyeF~le 82 (166)
++|+++|++||||+|||||||+++|++||||||++||+||++||++|||||+|+||++||||+|+|||+|++.+|||+||
T Consensus 1 ~~tk~t~~~IPll~~~AGPrd~~~W~~RLKEEy~aLI~Yv~~nK~~DndWF~lesn~~GT~W~GkCW~~h~l~kYEF~~e 80 (161)
T PF08694_consen 1 EATKSTVEKIPLLKTKAGPRDGDLWVQRLKEEYQALIKYVENNKENDNDWFRLESNKEGTRWFGKCWYIHNLLKYEFDLE 80 (161)
T ss_dssp -HHHHHHHCS---SS---TTSCHHHHHHHHHHHHHHHHHHHHHHHTT---EEEEE-TTSSEEEEEEEEEETTEEEEEEEE
T ss_pred CchHHHHHhCccccccCCCCCHHHHHHHHHHHHHHHHHHHHhcccccCCeEEeccCCCCCccccEEEEEeeeeeEEEeee
Confidence 47999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred EecCCCCCCCCCeeecCCCCCcccccccCceeecCCCCchhhcccCCchhHHHHHhhcccchhhhhhhhHHHhccccccc
Q psy13700 83 FDIPITFPTTAPELALPELDGKTAKMYRGGKICLSDHFKPLWARNVPKFGIAHAMALGLGPWLAVEIPALVDAGIIKYQE 162 (166)
Q Consensus 83 fdIP~tYP~tpPei~fpeldgkt~kmYrgGkICLddHf~PlW~~n~p~fgiaha~algl~pwla~eip~lv~~g~i~~~~ 162 (166)
||||+|||+|||||++|||||||+|||||||||||+||+|||+|||||||||||||||||||||||||+||++|+|+|++
T Consensus 81 FdIP~tYP~t~pEi~lPeLdGKTaKMYRGGkIClt~HFkPLWakN~PkfGIaHalaLGL~PWLA~EiP~Lv~~g~i~~k~ 160 (161)
T PF08694_consen 81 FDIPVTYPTTAPEIALPELDGKTAKMYRGGKICLTDHFKPLWAKNVPKFGIAHALALGLGPWLAVEIPDLVEKGVIKHKE 160 (161)
T ss_dssp EE--TTTTTS----B-GGGTTT-SSBCCCCBB---TTHHHHHHCTTTT--HHHHHHHTHHHHHHHHHHHHHHTTSSS-SE
T ss_pred cCCCccCCCCCcceeccccCCchhhhhcCceEeeecccchhhhhcCCchhHHHHHHhccchhhhhhhHHHHHcCCcccCC
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999997
Q ss_pred c
Q psy13700 163 K 163 (166)
Q Consensus 163 ~ 163 (166)
+
T Consensus 161 ~ 161 (161)
T PF08694_consen 161 D 161 (161)
T ss_dssp C
T ss_pred C
Confidence 5
No 2
>KOG3357|consensus
Probab=100.00 E-value=1.7e-100 Score=611.73 Aligned_cols=164 Identities=78% Similarity=1.374 Sum_probs=162.6
Q ss_pred CChhhhhhhccccceeccCCCCCCChHHHHHHHHHHHHHHHHHhcccCCCCceEeeeCCCCCeeEEEeeceecccceeEE
Q psy13700 1 MDESSKKTLSSIPLLKTKAGPRDKDLWPKRLKEEYVALIEYVKNNKAADNDWFRLESNKEGTKWFGSCWFFYNQLKYEFQ 80 (166)
Q Consensus 1 ~d~~~~~~~~~ipl~~~~agprd~~~w~~RLkeEY~aLikyv~~nk~~d~dwf~Lepn~dgTrW~gkcw~~~~~~kyeF~ 80 (166)
||++||++|+.||||+|+|||||++.|++||||||++||+||+|||++|||||+||||++||||+|||||+||+++||||
T Consensus 2 ~d~~tk~tl~~ipll~tkagprd~~~wvqrlkeey~sli~yvqnnk~~d~dwfrlesn~egtrwfgkcwy~hnllkyefd 81 (167)
T KOG3357|consen 2 WDDATKSTLSRIPLLKTKAGPRDGDLWVQRLKEEYQSLIAYVQNNKSNDNDWFRLESNKEGTRWFGKCWYVHNLLKYEFD 81 (167)
T ss_pred CCchhhhHhhhCcceeccCCCccchHHHHHHHHHHHHHHHHHHhCcccCCcceEeccCccccceehhhhHhhhhhhheee
Confidence 69999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred EEEecCCCCCCCCCeeecCCCCCcccccccCceeecCCCCchhhcccCCchhHHHHHhhcccchhhhhhhhHHHhccccc
Q psy13700 81 IEFDIPITFPTTAPELALPELDGKTAKMYRGGKICLSDHFKPLWARNVPKFGIAHAMALGLGPWLAVEIPALVDAGIIKY 160 (166)
Q Consensus 81 lefdIP~tYP~tpPei~fpeldgkt~kmYrgGkICLddHf~PlW~~n~p~fgiaha~algl~pwla~eip~lv~~g~i~~ 160 (166)
+|||||.|||+|+|||++|||||||+||||||||||++||+|||+|||||||||||||||||||||||||+||++|+|+|
T Consensus 82 vefdipityp~tapeialpeldgktakmyrggkiclt~hfkplwarn~pkfgiaha~algl~pwlaveipdliekg~i~~ 161 (167)
T KOG3357|consen 82 VEFDIPITYPTTAPEIALPELDGKTAKMYRGGKICLTDHFKPLWARNVPKFGIAHAMALGLAPWLAVEIPDLIEKGAIQH 161 (167)
T ss_pred eeeccccccCCCCccccccccCchhhhhhcCceEeeccccchhhhhcCcchhHHHHHHhccchhhhhhhhHHHHhccccc
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred cccc
Q psy13700 161 QEKT 164 (166)
Q Consensus 161 ~~~~ 164 (166)
|++.
T Consensus 162 k~k~ 165 (167)
T KOG3357|consen 162 KEKA 165 (167)
T ss_pred hhhc
Confidence 9875
No 3
>COG5078 Ubiquitin-protein ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.72 E-value=2.5e-17 Score=131.80 Aligned_cols=92 Identities=16% Similarity=0.233 Sum_probs=84.1
Q ss_pred HHHHHHHHHHHHHHHHhcccCCCCceEeee-CC-CCCeeEEEeec--eecccceeEEEEEecCCCCCCCCCeeecCCCCC
Q psy13700 28 PKRLKEEYVALIEYVKNNKAADNDWFRLES-NK-EGTKWFGSCWF--FYNQLKYEFQIEFDIPITFPTTAPELALPELDG 103 (166)
Q Consensus 28 ~~RLkeEY~aLikyv~~nk~~d~dwf~Lep-n~-dgTrW~gkcw~--~~~~~kyeF~lefdIP~tYP~tpPei~fpeldg 103 (166)
.+||++||+.|.+ +...-|+..+ ++ |.+.|.+.+-| .++|++-.|.+.+++|..||..||.|+|..-..
T Consensus 7 ~~RL~kE~~~l~~-------~~~~~~~a~p~~d~~l~~w~~~i~GP~dtpYegg~f~~~l~fP~~YP~~PPkv~F~t~i~ 79 (153)
T COG5078 7 LKRLLKELKKLQK-------DPPPGISAGPVDDDNLFHWEATITGPPDTPYEGGIFKLTLEFPEDYPFKPPKVRFTTKIF 79 (153)
T ss_pred HHHHHHHHHHHhc-------CCCCceEEEECCCCcceeEEEEEECCCCCCcCCCEEEEEEECCCCCCCCCCeeeeccCCc
Confidence 5799999999976 5568887777 33 99999999999 999999999999999999999999999999999
Q ss_pred cccccccCceeecC---CCCchhhccc
Q psy13700 104 KTAKMYRGGKICLS---DHFKPLWARN 127 (166)
Q Consensus 104 kt~kmYrgGkICLd---dHf~PlW~~n 127 (166)
|+|+. .+|+|||| ++|+|+|+-.
T Consensus 80 HPNV~-~~G~vCLdIL~~~WsP~~~l~ 105 (153)
T COG5078 80 HPNVD-PSGNVCLDILKDRWSPVYTLE 105 (153)
T ss_pred CCCcC-CCCCChhHHHhCCCCccccHH
Confidence 99999 99999998 9999999754
No 4
>KOG0417|consensus
Probab=99.66 E-value=1.4e-16 Score=127.88 Aligned_cols=92 Identities=17% Similarity=0.214 Sum_probs=80.8
Q ss_pred HHHHHHHHHHHHHHHhcccCCCCceEeee-CCCCCeeEEEeec--eecccceeEEEEEecCCCCCCCCCeeecCCCCCcc
Q psy13700 29 KRLKEEYVALIEYVKNNKAADNDWFRLES-NKEGTKWFGSCWF--FYNQLKYEFQIEFDIPITFPTTAPELALPELDGKT 105 (166)
Q Consensus 29 ~RLkeEY~aLikyv~~nk~~d~dwf~Lep-n~dgTrW~gkcw~--~~~~~kyeF~lefdIP~tYP~tpPei~fpeldgkt 105 (166)
+||.+||+.|.+ .+-.-.+..+ .+|...|++.+-| +++|++..|.|+|.+|..||+.||.|+|-...-|+
T Consensus 4 ~RI~kE~~~l~~-------dp~~~~~~~~~~dnl~~w~a~I~GP~~SpYEgG~F~l~I~~p~~YP~~PPkV~F~TkIyHP 76 (148)
T KOG0417|consen 4 KRIIKELQDLLR-------DPPPGCSAGPVGDNLFHWQATILGPPGSPYEGGVFFLEIHFPEDYPFKPPKVRFLTKIYHP 76 (148)
T ss_pred HHHHHHHHHHhc-------CCCCCCccCCCCCceeeEEEEEECCCCCCcCCCEEEEEEECCCCCCCCCCceEeecccccC
Confidence 499999997754 2233344556 6888899999999 99999999999999999999999999999999999
Q ss_pred cccccCceeecC---CCCchhhcccC
Q psy13700 106 AKMYRGGKICLS---DHFKPLWARNV 128 (166)
Q Consensus 106 ~kmYrgGkICLd---dHf~PlW~~n~ 128 (166)
|+. +.|+|||| ++|+|+|+-+.
T Consensus 77 NI~-~~G~IclDILk~~WsPAl~i~~ 101 (148)
T KOG0417|consen 77 NID-SNGRICLDILKDQWSPALTISK 101 (148)
T ss_pred CcC-ccccchHHhhhccCChhhHHHH
Confidence 999 99999999 99999998654
No 5
>PLN00172 ubiquitin conjugating enzyme; Provisional
Probab=99.62 E-value=2.7e-15 Score=116.77 Aligned_cols=102 Identities=17% Similarity=0.224 Sum_probs=84.0
Q ss_pred HHHHHHHHHHHHHHHHhcccCCCCceEeee-CCCCCeeEEEeec--eecccceeEEEEEecCCCCCCCCCeeecCCCCCc
Q psy13700 28 PKRLKEEYVALIEYVKNNKAADNDWFRLES-NKEGTKWFGSCWF--FYNQLKYEFQIEFDIPITFPTTAPELALPELDGK 104 (166)
Q Consensus 28 ~~RLkeEY~aLikyv~~nk~~d~dwf~Lep-n~dgTrW~gkcw~--~~~~~kyeF~lefdIP~tYP~tpPei~fpeldgk 104 (166)
.+||.+||+.|.+ +....|++.+ ++|.++|.+.+-| .++|++..|.+.|.+|..||..||.|+|-..--|
T Consensus 3 ~~Rl~kE~~~l~~-------~~~~~~~~~~~~~nl~~w~~~i~GP~~tpyegg~f~~~i~fp~~YP~~pP~v~f~t~i~H 75 (147)
T PLN00172 3 TKRIQKEHKDLLK-------DPPSNCSAGPSDENLFRWTASIIGPSDSPYAGGVFFLSILFPPDYPFKPPKVQFTTKIYH 75 (147)
T ss_pred HHHHHHHHHHHHh-------CCCCCeEEEECCCChheEEEEEECCCCCCCCCCEEEEEEECCcccCCCCCEEEEecCccc
Confidence 4799999999986 2234476777 5899999999998 8999999999999999999999999999877799
Q ss_pred ccccccCceeecC---CCCchhhcccCCchhHHHHH
Q psy13700 105 TAKMYRGGKICLS---DHFKPLWARNVPKFGIAHAM 137 (166)
Q Consensus 105 t~kmYrgGkICLd---dHf~PlW~~n~p~fgiaha~ 137 (166)
+|+. .+|+|||+ +.|+|.|+-..=--+|...|
T Consensus 76 PNv~-~~G~iCl~il~~~W~p~~ti~~il~~i~~ll 110 (147)
T PLN00172 76 PNIN-SNGSICLDILRDQWSPALTVSKVLLSISSLL 110 (147)
T ss_pred ceEC-CCCEEEcccCcCCCCCcCcHHHHHHHHHHHH
Confidence 9975 68999998 77999886444444444444
No 6
>PTZ00390 ubiquitin-conjugating enzyme; Provisional
Probab=99.60 E-value=5.4e-15 Score=115.99 Aligned_cols=90 Identities=17% Similarity=0.162 Sum_probs=78.5
Q ss_pred HHHHHHHHHHHHHHHHhcccCCCCceEeee-CCCCCeeEEEeec--eecccceeEEEEEecCCCCCCCCCeeecCCCCCc
Q psy13700 28 PKRLKEEYVALIEYVKNNKAADNDWFRLES-NKEGTKWFGSCWF--FYNQLKYEFQIEFDIPITFPTTAPELALPELDGK 104 (166)
Q Consensus 28 ~~RLkeEY~aLikyv~~nk~~d~dwf~Lep-n~dgTrW~gkcw~--~~~~~kyeF~lefdIP~tYP~tpPei~fpeldgk 104 (166)
.+||.+||+.|.+ +..+.|++.+ ++|..+|.+.+-| .++|++..|.+.|.+|.+||..||.|.|.....|
T Consensus 4 ~kRl~~E~~~l~~-------~~~~~i~~~~~~~d~~~w~~~i~GP~~tpY~gg~f~~~i~~p~~YP~~pP~v~F~t~i~H 76 (152)
T PTZ00390 4 SKRIEKETQNLAN-------DPPPGIKAEPDPGNYRHFKILMEGPDGTPYEGGYYKLELFLPEQYPMEPPKVRFLTKIYH 76 (152)
T ss_pred HHHHHHHHHHHHh-------CCCCCeEEEECCCCccEEEEEEEcCCCCCCcCcEEEEEEECccccCCCCCEEEEecCCee
Confidence 4799999999875 2345577777 6899999999998 8999999999999999999999999999888899
Q ss_pred ccccccCceeecC---CCCchhhc
Q psy13700 105 TAKMYRGGKICLS---DHFKPLWA 125 (166)
Q Consensus 105 t~kmYrgGkICLd---dHf~PlW~ 125 (166)
+|+- .+|+|||+ +.|+|.|+
T Consensus 77 PNV~-~~G~iCl~iL~~~W~p~~t 99 (152)
T PTZ00390 77 PNID-KLGRICLDILKDKWSPALQ 99 (152)
T ss_pred ceEC-CCCeEECccCcccCCCCCc
Confidence 9984 78999998 67998874
No 7
>PF00179 UQ_con: Ubiquitin-conjugating enzyme; InterPro: IPR000608 The post-translational attachment of ubiquitin (IPR000626 from INTERPRO) to proteins (ubiquitinylation) alters the function, location or trafficking of a protein, or targets it to the 26S proteasome for degradation [, , ]. Ubiquitinylation is an ATP-dependent process that involves the action of at least three enzymes: a ubiquitin-activating enzyme (E1, IPR000011 from INTERPRO), a ubiquitin-conjugating enzyme (E2), and a ubiquitin ligase (E3, IPR000569 from INTERPRO, IPR003613 from INTERPRO), which work sequentially in a cascade []. The E1 enzyme mediates an ATP-dependent transfer of a thioester-linked ubiquitin molecule to a cysteine residue on the E2 enzyme. The E2 enzyme (6.3.2.19 from EC) then either transfers the ubiquitin moiety directly to a substrate, or to an E3 ligase, which can also ubiquitinylate a substrate. There are several different E2 enzymes (over 30 in humans), which are broadly grouped into four classes, all of which have a core catalytic domain (containing the active site cysteine), and some of which have short N- and C-terminal amino acid extensions: class I enzymes consist of just the catalytic core domain (UBC), class II possess a UBC and a C-terminal extension, class III possess a UBC and an N-terminal extension, and class IV possess a UBC and both N- and C-terminal extensions. These extensions appear to be important for some subfamily function, including E2 localisation and protein-protein interactions []. In addition, there are proteins with an E2-like fold that are devoid of catalytic activity, but which appear to assist in poly-ubiquitin chain formation.; GO: 0016881 acid-amino acid ligase activity; PDB: 2AAK_A 3SY2_C 1FBV_C 3SQV_C 1C4Z_D 1JAT_B 2GMI_B 2H2Y_D 2R0J_A 3E95_B ....
Probab=99.54 E-value=2e-14 Score=108.19 Aligned_cols=99 Identities=15% Similarity=0.232 Sum_probs=76.5
Q ss_pred HHHHHHHHHHHHHHhcccCCCCceEeee-C-CCCCeeEEEeec--eecccceeEEEEEecCCCCCCCCCeeecCCCCCcc
Q psy13700 30 RLKEEYVALIEYVKNNKAADNDWFRLES-N-KEGTKWFGSCWF--FYNQLKYEFQIEFDIPITFPTTAPELALPELDGKT 105 (166)
Q Consensus 30 RLkeEY~aLikyv~~nk~~d~dwf~Lep-n-~dgTrW~gkcw~--~~~~~kyeF~lefdIP~tYP~tpPei~fpeldgkt 105 (166)
||.+||+.|.+ +....|.+.+ + ++..+|.+.+-+ .++|++..|.+++.+|..||..||.|.|-....|+
T Consensus 1 Rl~~E~~~l~~-------~~~~~~~~~~~~~~~~~~w~~~i~gp~~t~y~gg~f~~~i~~p~~YP~~pP~v~f~t~i~HP 73 (140)
T PF00179_consen 1 RLQKELKELQK-------NPPPGISVQPSEDDNLFEWHVTIFGPPGTPYEGGIFKFRISFPPDYPFSPPKVRFLTPIFHP 73 (140)
T ss_dssp HHHHHHHHHHH-------SHTTTEEEEEESTTETTEEEEEEEBETTSTTTTSEEEEEEEETTTTTTS--EEEESSS-SBT
T ss_pred CHHHHHHHHhh-------CCCCCEEEEECCCCChheEEEEEeccCccceecccccccccccccccccccccccccccccc
Confidence 99999998765 3457776666 3 489999999998 99999999999999999999999999999888999
Q ss_pred cccccCceeecC----CCCchhhcccCCchhHHHH
Q psy13700 106 AKMYRGGKICLS----DHFKPLWARNVPKFGIAHA 136 (166)
Q Consensus 106 ~kmYrgGkICLd----dHf~PlW~~n~p~fgiaha 136 (166)
|+. .+|+|||+ ++|+|.+.-..=--+|-+.
T Consensus 74 ni~-~~G~icl~~l~~~~W~p~~~i~~il~~i~~l 107 (140)
T PF00179_consen 74 NID-ENGRICLDILNPESWSPSYTIESILLSIQSL 107 (140)
T ss_dssp TB--TTSBBGHGGGTTTTC-TTSHHHHHHHHHHHH
T ss_pred ccc-ccccchhhhhhcccCCcccccccHHHHHHHH
Confidence 999 99999996 4677766543333333333
No 8
>cd00195 UBCc Ubiquitin-conjugating enzyme E2, catalytic (UBCc) domain. This is part of the ubiquitin-mediated protein degradation pathway in which a thiol-ester linkage forms between a conserved cysteine and the C-terminus of ubiquitin and complexes with ubiquitin protein ligase enzymes, E3. This pathway regulates many fundamental cellular processes. There are also other E2s which form thiol-ester linkages without the use of E3s as well as several UBC homologs (TSG101, Mms2, Croc-1 and similar proteins) which lack the active site cysteine essential for ubiquitination and appear to function in DNA repair pathways which were omitted from the scope of this CD.
Probab=99.49 E-value=1.3e-13 Score=104.18 Aligned_cols=89 Identities=22% Similarity=0.345 Sum_probs=75.4
Q ss_pred HHHHHHHHHHHHHHHhcccCCCCceEeee-CCCCCeeEEEeec--eecccceeEEEEEecCCCCCCCCCeeecCCCCCcc
Q psy13700 29 KRLKEEYVALIEYVKNNKAADNDWFRLES-NKEGTKWFGSCWF--FYNQLKYEFQIEFDIPITFPTTAPELALPELDGKT 105 (166)
Q Consensus 29 ~RLkeEY~aLikyv~~nk~~d~dwf~Lep-n~dgTrW~gkcw~--~~~~~kyeF~lefdIP~tYP~tpPei~fpeldgkt 105 (166)
+||.+||+.|.+. -...|++.+ +.+.++|.+.+.+ .++|.+-.|.+++.+|..||.+||.|+|...--|+
T Consensus 2 ~Rl~~E~~~l~~~-------~~~~~~v~~~~~~~~~w~~~i~g~~~t~y~g~~~~~~~~~p~~yP~~pP~v~f~~~i~Hp 74 (141)
T cd00195 2 KRLQKELKDLKKD-------PPSGISAEPVEENLLEWHGTIRGPPDTPYEGGIFKLDIEFPEDYPFKPPKVRFVTKIYHP 74 (141)
T ss_pred chHHHHHHHHHhC-------CCCCeEEEECCCChhEEEEEEecCCCCCccCCEEEEEEECCCccCCCCCeEEEeCCcccC
Confidence 6999999998652 124577767 4699999999998 79999999999999999999999999998667899
Q ss_pred cccccCceeecC---CC-Cchhhc
Q psy13700 106 AKMYRGGKICLS---DH-FKPLWA 125 (166)
Q Consensus 106 ~kmYrgGkICLd---dH-f~PlW~ 125 (166)
++- .+|+|||+ .+ |+|.++
T Consensus 75 nV~-~~G~icl~~l~~~~W~p~~~ 97 (141)
T cd00195 75 NVD-ENGKICLSILKTHGWSPAYT 97 (141)
T ss_pred CCC-CCCCCchhhcCCCCcCCcCc
Confidence 998 99999998 44 776544
No 9
>KOG0418|consensus
Probab=99.31 E-value=3.5e-12 Score=106.68 Aligned_cols=94 Identities=17% Similarity=0.199 Sum_probs=81.4
Q ss_pred HHHHHHHHHHHHHHHHhcccCCCCceEeee-CCCCCeeEEEeec--eecccceeEEEEEecCCCCCCCCCeeecCCCCCc
Q psy13700 28 PKRLKEEYVALIEYVKNNKAADNDWFRLES-NKEGTKWFGSCWF--FYNQLKYEFQIEFDIPITFPTTAPELALPELDGK 104 (166)
Q Consensus 28 ~~RLkeEY~aLikyv~~nk~~d~dwf~Lep-n~dgTrW~gkcw~--~~~~~kyeF~lefdIP~tYP~tpPei~fpeldgk 104 (166)
.+|+++|.+... .+.+--..-+.++. |++.++=.|.+-| ++||++-.|.|.|+||.+||..||.+.|-.-.=|
T Consensus 5 ~~ri~~e~k~v~----~~~eisq~~I~ve~vn~~~~~ikG~I~GP~~TPYEGG~FeldI~iPe~YPF~pPkv~F~TkIwH 80 (200)
T KOG0418|consen 5 FKRINREQKEVL----DDPEISQAGIIVEMVNENLKEIKGHIAGPEDTPYEGGVFELDIKIPENYPFKPPKVKFITKIWH 80 (200)
T ss_pred HHHHHHHHHHhc----cChhhhhcceEEEEccCChhhceeEecCCCCCCCCCceEEEEEecCCCCCCCCCceeeeeeeec
Confidence 589999988753 23222245678887 8999999999999 9999999999999999999999999999888899
Q ss_pred ccccccCceeecC---CCCchhhc
Q psy13700 105 TAKMYRGGKICLS---DHFKPLWA 125 (166)
Q Consensus 105 t~kmYrgGkICLd---dHf~PlW~ 125 (166)
+|+--.+|.|||| +||+|.-.
T Consensus 81 PnVSs~tGaICLDilkd~Wa~slT 104 (200)
T KOG0418|consen 81 PNVSSQTGAICLDILKDQWAASLT 104 (200)
T ss_pred CCCCcccccchhhhhhcccchhhh
Confidence 9999999999997 99999743
No 10
>smart00212 UBCc Ubiquitin-conjugating enzyme E2, catalytic domain homologues. Proteins destined for proteasome-mediated degradation may be ubiquitinated. Ubiquitination follows conjugation of ubiquitin to a conserved cysteine residue of UBC homologues. This pathway functions in regulating many fundamental processes required for cell viability.TSG101 is one of several UBC homologues that lacks this active site cysteine.
Probab=99.25 E-value=3.1e-11 Score=91.61 Aligned_cols=87 Identities=18% Similarity=0.251 Sum_probs=70.7
Q ss_pred HHHHHHHHHHHHHHHhcccCCCCceEeee--CCCCCeeEEEeec--eecccceeEEEEEecCCCCCCCCCeeecCCCCCc
Q psy13700 29 KRLKEEYVALIEYVKNNKAADNDWFRLES--NKEGTKWFGSCWF--FYNQLKYEFQIEFDIPITFPTTAPELALPELDGK 104 (166)
Q Consensus 29 ~RLkeEY~aLikyv~~nk~~d~dwf~Lep--n~dgTrW~gkcw~--~~~~~kyeF~lefdIP~tYP~tpPei~fpeldgk 104 (166)
+||.+||+.|.+-. ..-|++.+ +++...|.+.+-| .++|.+..|.+.+.+|..||.+||.|.|-..--|
T Consensus 1 ~Rl~~E~~~~~~~~-------~~~~~v~~~~~~~~~~w~~~i~gp~~~~y~g~~f~~~l~~p~~yP~~pP~v~f~~~i~H 73 (145)
T smart00212 1 KRLLKELKELLKDP-------PPGISAYPVDEDNLLEWTGTIVGPPGTPYEGGIFKLTIEFPPDYPFKPPKVKFITKIYH 73 (145)
T ss_pred ChHHHHHHHHHhCC-------CCCeEEEECCCCChheEEEEEEcCCCCCcCCcEEEEEEECCcccCCCCCEEEEeCCceE
Confidence 49999999986522 23354444 4599999999987 8999999999999999999999999999766679
Q ss_pred ccccccCceeecC----CCCchh
Q psy13700 105 TAKMYRGGKICLS----DHFKPL 123 (166)
Q Consensus 105 t~kmYrgGkICLd----dHf~Pl 123 (166)
+++. .+|+||++ +.|+|.
T Consensus 74 p~i~-~~G~icl~~l~~~~W~p~ 95 (145)
T smart00212 74 PNVD-SSGEICLDILKQEKWSPA 95 (145)
T ss_pred eeEC-CCCCEehhhcCCCCCCCC
Confidence 9986 59999998 345554
No 11
>KOG0419|consensus
Probab=98.99 E-value=9.8e-10 Score=88.66 Aligned_cols=90 Identities=16% Similarity=0.294 Sum_probs=76.8
Q ss_pred HHHHHHHHHHHHHHHHhcccCCCCceEeee-CCCCCeeEEEeec--eecccceeEEEEEecCCCCCCCCCeeecCCCCCc
Q psy13700 28 PKRLKEEYVALIEYVKNNKAADNDWFRLES-NKEGTKWFGSCWF--FYNQLKYEFQIEFDIPITFPTTAPELALPELDGK 104 (166)
Q Consensus 28 ~~RLkeEY~aLikyv~~nk~~d~dwf~Lep-n~dgTrW~gkcw~--~~~~~kyeF~lefdIP~tYP~tpPei~fpeldgk 104 (166)
..||.+.++.|++ +..--++-+| +++.-.|.+.+-| .+|+++-.|+|.++.+++||..||-++|-...-|
T Consensus 6 rrrLmrDfkrlqe-------dpp~gisa~P~~~niM~W~a~I~Gp~~tp~e~gtFkLtl~FteeYpnkPP~VrFvs~mFH 78 (152)
T KOG0419|consen 6 RRRLMRDFKRLQE-------DPPAGISAAPVENNIMEWNAVIFGPQDTPFEGGTFKLTLEFTEEYPNKPPTVRFVSKMFH 78 (152)
T ss_pred HHHHHHHHHHhhc-------CCCCCccCCCCccceeeeeeeEEcCCCCCcCCceEEEEEEcccccCCCCCeeEeeeeccC
Confidence 4678888877754 4556666667 7899999999999 9999999999999999999999999999999999
Q ss_pred ccccccCceeecC---CCCchhhc
Q psy13700 105 TAKMYRGGKICLS---DHFKPLWA 125 (166)
Q Consensus 105 t~kmYrgGkICLd---dHf~PlW~ 125 (166)
+|+ |-.|+|||| ..|+|.|+
T Consensus 79 PNv-ya~G~iClDiLqNrWsp~Yd 101 (152)
T KOG0419|consen 79 PNV-YADGSICLDILQNRWSPTYD 101 (152)
T ss_pred CCc-CCCCcchHHHHhcCCCCchh
Confidence 987 666999998 66776654
No 12
>KOG0422|consensus
Probab=98.97 E-value=9.2e-10 Score=89.11 Aligned_cols=88 Identities=27% Similarity=0.508 Sum_probs=76.3
Q ss_pred HHHHHHHHHHHHHHHHhcccCCCCce-Eeee-CCCCCeeEEEeec-eecccceeEEEEEecCCCCCCCCCeeecCCCCCc
Q psy13700 28 PKRLKEEYVALIEYVKNNKAADNDWF-RLES-NKEGTKWFGSCWF-FYNQLKYEFQIEFDIPITFPTTAPELALPELDGK 104 (166)
Q Consensus 28 ~~RLkeEY~aLikyv~~nk~~d~dwf-~Lep-n~dgTrW~gkcw~-~~~~~kyeF~lefdIP~tYP~tpPei~fpeldgk 104 (166)
.+||.+|..-|.+ ||. ..| .|++ +...-+|+|.+-. .-||.+--|+|+|+.|+.||.-||.|.|-...=|
T Consensus 4 ~~Rl~kEL~dl~~----~~~---~~~rn~~~~e~nll~wt~llipd~ppY~kgaF~l~I~fp~eYPFKPP~i~f~tkiYH 76 (153)
T KOG0422|consen 4 PRRLRKELADLQK----NKM---KFFRNIEVDEANLLKWTGLLIPDKPPYNKGAFRLEIDFPVEYPFKPPKIKFKTKIYH 76 (153)
T ss_pred hHHHHHHHHHHHh----ccH---HHHhhhhcccccceeEEeEecCCCCCccCcceEEEeeCCCCCCCCCCeeeeeeeecc
Confidence 4799999988765 433 355 5666 6889999999988 7899999999999999999999999999888889
Q ss_pred ccccccCceeecC----CCCchh
Q psy13700 105 TAKMYRGGKICLS----DHFKPL 123 (166)
Q Consensus 105 t~kmYrgGkICLd----dHf~Pl 123 (166)
+|+.=+ |++||- +||+|.
T Consensus 77 pNVDe~-gqvClPiis~EnWkP~ 98 (153)
T KOG0422|consen 77 PNVDEK-GQVCLPIISAENWKPA 98 (153)
T ss_pred CCCCCC-CceeeeeeecccccCc
Confidence 999888 999995 999996
No 13
>KOG0421|consensus
Probab=98.95 E-value=1.8e-09 Score=88.48 Aligned_cols=98 Identities=17% Similarity=0.275 Sum_probs=82.0
Q ss_pred CCChHHHHHHHHHHHHHHHHHhcccCCCCceEeee-CCCCCeeEEEeec--eecccceeEEEEEecCCCCCCCCCeeecC
Q psy13700 23 DKDLWPKRLKEEYVALIEYVKNNKAADNDWFRLES-NKEGTKWFGSCWF--FYNQLKYEFQIEFDIPITFPTTAPELALP 99 (166)
Q Consensus 23 d~~~w~~RLkeEY~aLikyv~~nk~~d~dwf~Lep-n~dgTrW~gkcw~--~~~~~kyeF~lefdIP~tYP~tpPei~fp 99 (166)
|+..=.+||..|.+.|.- ++..-|+-=| .+++++|.|.+=| ++.|++-+|+|.++.|..||-.||.|.|-
T Consensus 26 ~~~~V~KRLq~ELm~Lmm-------s~~~gISAFP~~dnlf~WvGtItGp~dTvyegl~yklSl~Fp~~YPy~pP~vkFl 98 (175)
T KOG0421|consen 26 DGHSVTKRLQSELMGLMM-------SNTPGISAFPESDNLFKWVGTITGPKDTVYEGLKYKLSLSFPNNYPYKPPTVKFL 98 (175)
T ss_pred cCchHHHHHHHHHHHHHh-------cCCCCcccCcCcCceeEEeeEeeCCCCccccCcEEEEEEecCCCCCCCCCeeEee
Confidence 445567899999999864 4445554445 4799999999998 99999999999999999999999999997
Q ss_pred CCCCcccccccCceeecC---CCCchhhcccC
Q psy13700 100 ELDGKTAKMYRGGKICLS---DHFKPLWARNV 128 (166)
Q Consensus 100 eldgkt~kmYrgGkICLd---dHf~PlW~~n~ 128 (166)
.---|+|+.-. |.|||| |.|+-+++-..
T Consensus 99 tpc~HPNVD~~-GnIcLDILkdKWSa~YdVrT 129 (175)
T KOG0421|consen 99 TPCFHPNVDLS-GNICLDILKDKWSAVYDVRT 129 (175)
T ss_pred ccccCCCcccc-ccchHHHHHHHHHHHHhHHH
Confidence 77788888765 789999 99999987543
No 14
>KOG0424|consensus
Probab=98.94 E-value=3.2e-09 Score=86.34 Aligned_cols=102 Identities=18% Similarity=0.212 Sum_probs=80.3
Q ss_pred HHHHHHHHHHHHHHHHhcccCCCCceEeee--CC----CCCeeEEEeec--eecccceeEEEEEecCCCCCCCCCeeecC
Q psy13700 28 PKRLKEEYVALIEYVKNNKAADNDWFRLES--NK----EGTKWFGSCWF--FYNQLKYEFQIEFDIPITFPTTAPELALP 99 (166)
Q Consensus 28 ~~RLkeEY~aLikyv~~nk~~d~dwf~Lep--n~----dgTrW~gkcw~--~~~~~kyeF~lefdIP~tYP~tpPei~fp 99 (166)
.+||+||=++++| +-.--|.-.| +. ++++|++-+=| ++++++-.|.|..+.|..||.+||.++|+
T Consensus 6 ~~rl~eErk~wrk-------~hp~gf~AkP~~~~dg~~nl~~Wec~IPG~~~t~wEGg~y~l~v~F~~dyP~~PPkckF~ 78 (158)
T KOG0424|consen 6 LNRLAEERKKWRK-------DHPFGFYAKPVKNADGTLNLMNWECGIPGKKGTPWEGGLYKLTVNFPDDYPSSPPKCKFK 78 (158)
T ss_pred HHHHHHHHHHHhh-------cCCCceeeeccCCCCCcceeEEEEeecCCCCCCcCcCceEEEEEeCCccCCCCCCccccC
Confidence 6899999999887 3333443334 44 46789988888 99999999999999999999999999998
Q ss_pred CCCCcccccccCceeecC----CC-CchhhcccCCchhHHHHH
Q psy13700 100 ELDGKTAKMYRGGKICLS----DH-FKPLWARNVPKFGIAHAM 137 (166)
Q Consensus 100 eldgkt~kmYrgGkICLd----dH-f~PlW~~n~p~fgiaha~ 137 (166)
.---|+|| |-.|.|||+ +| |+|.-+--.=--||..+|
T Consensus 79 ~pl~HPNV-ypsgtVcLsiL~e~~~W~paitikqiL~gIqdLL 120 (158)
T KOG0424|consen 79 PPLFHPNV-YPSGTVCLSILNEEKDWRPAITIKQILLGIQDLL 120 (158)
T ss_pred CCCcCCCc-CCCCcEehhhhccccCCCchhhHHHHHHHHHHHh
Confidence 77778886 778999997 55 999876554445555444
No 15
>KOG0427|consensus
Probab=98.92 E-value=5.4e-09 Score=84.71 Aligned_cols=94 Identities=17% Similarity=0.307 Sum_probs=77.1
Q ss_pred HHHHHHHHHHHHHHHHHhcccCCCCceEeeeCCCCCeeEEEeec--eecccceeEEEEEecCCCCCCCCCeeecCCCCCc
Q psy13700 27 WPKRLKEEYVALIEYVKNNKAADNDWFRLESNKEGTKWFGSCWF--FYNQLKYEFQIEFDIPITFPTTAPELALPELDGK 104 (166)
Q Consensus 27 w~~RLkeEY~aLikyv~~nk~~d~dwf~Lepn~dgTrW~gkcw~--~~~~~kyeF~lefdIP~tYP~tpPei~fpeldgk 104 (166)
=..||.+|+..++. +-..-|+..-.+++++|.-.-=| ++=|.+=.|.|+|+.|..||+..|++-|---.+-
T Consensus 16 at~RLqKEl~e~q~-------~pP~G~~~~v~dnlqqWii~v~Ga~GTLYa~e~~qLq~~F~~~YP~esPqVmF~~~~P~ 88 (161)
T KOG0427|consen 16 ATNRLQKELSEWQN-------NPPTGFKHRVTDNLQQWIIEVTGAPGTLYANETYQLQVEFPEHYPMESPQVMFVGPAPL 88 (161)
T ss_pred HHHHHHHHHHHHhc-------CCCCcceeecccchheeEEEEecCCceeecCcEEEEEEecCCCCCCCCCeEEEecCCCC
Confidence 57899999998753 44677777778899999866656 8889999999999999999999999999544533
Q ss_pred ccccccCceeecC---CCCchhhccc
Q psy13700 105 TAKMYRGGKICLS---DHFKPLWARN 127 (166)
Q Consensus 105 t~kmYrgGkICLd---dHf~PlW~~n 127 (166)
-.-.|.+|-|||| |.|+|+-.-+
T Consensus 89 HPHiYSNGHICL~iL~d~WsPAmsv~ 114 (161)
T KOG0427|consen 89 HPHIYSNGHICLDILYDSWSPAMSVQ 114 (161)
T ss_pred CCceecCCeEEEEeecccCCcchhhH
Confidence 3456999999998 9999986644
No 16
>KOG0426|consensus
Probab=98.82 E-value=1e-08 Score=83.32 Aligned_cols=82 Identities=18% Similarity=0.213 Sum_probs=71.8
Q ss_pred HHHHHHHHHHHHHHHHhcccCCCCceEeee--CCCCCeeEEEeec--eecccceeEEEEEecCCCCCCCCCeeecCCCCC
Q psy13700 28 PKRLKEEYVALIEYVKNNKAADNDWFRLES--NKEGTKWFGSCWF--FYNQLKYEFQIEFDIPITFPTTAPELALPELDG 103 (166)
Q Consensus 28 ~~RLkeEY~aLikyv~~nk~~d~dwf~Lep--n~dgTrW~gkcw~--~~~~~kyeF~lefdIP~tYP~tpPei~fpeldg 103 (166)
..||.+||+.|++ +..+-+.-.| +++-..|.+-+.| +++|++--|--.+..|..||.+||.++|.--.-
T Consensus 6 lkRLm~EykqLt~-------~~P~GIvAgP~~EdnfF~W~cLI~GP~~T~f~~GvfpA~l~FP~DYPLsPPkm~Ftc~~f 78 (165)
T KOG0426|consen 6 LKRLMAEYKQLTL-------NPPEGIVAGPINEDNFFEWECLIQGPEDTCFEGGVFPARLSFPLDYPLSPPKMRFTCEMF 78 (165)
T ss_pred HHHHHHHHHHHcc-------CCCCcceeCCCCccceeeeeeeeeCCCCCcccCCccceeeecCCCCCCCCCceeeecccc
Confidence 5799999999986 5567776666 5788899999999 999999999999999999999999999976667
Q ss_pred cccccccCceeecC
Q psy13700 104 KTAKMYRGGKICLS 117 (166)
Q Consensus 104 kt~kmYrgGkICLd 117 (166)
|+|+ |.+|++|..
T Consensus 79 HPNi-y~dG~VCIS 91 (165)
T KOG0426|consen 79 HPNI-YPDGRVCIS 91 (165)
T ss_pred cCcc-cCCCeEEEE
Confidence 8874 999999985
No 17
>KOG0416|consensus
Probab=98.35 E-value=4.1e-07 Score=75.93 Aligned_cols=69 Identities=13% Similarity=0.234 Sum_probs=62.9
Q ss_pred CCCCCeeEEEeec--eecccceeEEEEEecCCCCCCCCCeeecCCCCCcccccccCceeecC---CCCchhhcc
Q psy13700 58 NKEGTKWFGSCWF--FYNQLKYEFQIEFDIPITFPTTAPELALPELDGKTAKMYRGGKICLS---DHFKPLWAR 126 (166)
Q Consensus 58 n~dgTrW~gkcw~--~~~~~kyeF~lefdIP~tYP~tpPei~fpeldgkt~kmYrgGkICLd---dHf~PlW~~ 126 (166)
|+..+...-++-| +++|++--|+|++++|..||-..|.|.|-.-.-|+|+..-.|.|||| ..|+|+++-
T Consensus 26 nd~m~ef~V~f~GP~ds~YegGvWkv~V~lPd~YP~KSPSIGFvnKIfHPNIDe~SGsVCLDViNQtWSp~yDL 99 (189)
T KOG0416|consen 26 NDGMQEFYVKFHGPKDSPYEGGVWKVRVELPDNYPFKSPSIGFVNKIFHPNIDEASGSVCLDVINQTWSPLYDL 99 (189)
T ss_pred cCcccEEEEEeeCCCCCcccCceEEEEEECCCCCCCCCCcccceeeccCCCchhccCccHHHHHhhhhhHHHHH
Confidence 5667777777777 89999999999999999999999999999999999999999999998 899999863
No 18
>KOG0425|consensus
Probab=98.32 E-value=1.6e-06 Score=71.57 Aligned_cols=80 Identities=16% Similarity=0.213 Sum_probs=66.4
Q ss_pred HHHHHHHHHHHHHHhcccCCCCceEeee--CCCCCeeEEEeec--eecccceeEEEEEecCCCCCCCCCeeecCCCCCcc
Q psy13700 30 RLKEEYVALIEYVKNNKAADNDWFRLES--NKEGTKWFGSCWF--FYNQLKYEFQIEFDIPITFPTTAPELALPELDGKT 105 (166)
Q Consensus 30 RLkeEY~aLikyv~~nk~~d~dwf~Lep--n~dgTrW~gkcw~--~~~~~kyeF~lefdIP~tYP~tpPei~fpeldgkt 105 (166)
-|.++|+.|.+ .-.+-|+... +.|..+|+=-+-+ ++-|++-=|.-....|..||.+||.++|-.=.=|+
T Consensus 9 ll~~qlk~L~~-------~pv~gf~~glvd~~dif~WeV~i~gppdTlYeGG~FkA~m~FP~dYP~sPP~~rF~s~mwHP 81 (171)
T KOG0425|consen 9 LLLKQLKELQE-------EPVEGFSVGLVDDSDIFEWEVAIIGPPDTLYEGGFFKAHMKFPQDYPLSPPTFRFTSKMWHP 81 (171)
T ss_pred HHHHHHHHHhc-------CCCCccccccccCCceeEEEEEEEcCCCccccCceeEEEEeCcccCCCCCCceeeehhhcCC
Confidence 35666666544 3477885555 7899999977777 99999999999999999999999999998777888
Q ss_pred cccccCceeecC
Q psy13700 106 AKMYRGGKICLS 117 (166)
Q Consensus 106 ~kmYrgGkICLd 117 (166)
|+ |++|++|..
T Consensus 82 Nv-y~~G~vCIS 92 (171)
T KOG0425|consen 82 NV-YEDGDVCIS 92 (171)
T ss_pred Cc-CCCCCEEEE
Confidence 75 899999985
No 19
>KOG0894|consensus
Probab=98.28 E-value=2.4e-06 Score=73.62 Aligned_cols=89 Identities=22% Similarity=0.325 Sum_probs=73.7
Q ss_pred HHHHHHHHHHHHHHHHHhcccCCCCceEeeeC-CCCCeeEEEeec--eecccceeEEEEEecCCCCCCCCCeeecCCCC-
Q psy13700 27 WPKRLKEEYVALIEYVKNNKAADNDWFRLESN-KEGTKWFGSCWF--FYNQLKYEFQIEFDIPITFPTTAPELALPELD- 102 (166)
Q Consensus 27 w~~RLkeEY~aLikyv~~nk~~d~dwf~Lepn-~dgTrW~gkcw~--~~~~~kyeF~lefdIP~tYP~tpPei~fpeld- 102 (166)
=++||.+||++|.| +--+.+.-.|+ +|--.|.=..-| ++||.+--+-=.+-.|..||-.||-|..-.-.
T Consensus 6 a~kRl~keY~~l~k-------~Pv~~i~A~P~p~nILEWHYvl~GpedTPy~GG~YhGkl~FP~eyP~KPPaI~MiTPNG 78 (244)
T KOG0894|consen 6 AVKRLQKEYRALCK-------DPVPYIVARPNPNNILEWHYVLRGPEDTPYYGGYYHGKLIFPPEYPFKPPAITMITPNG 78 (244)
T ss_pred HHHHHHHHHHHHHh-------CCchhhccCCCccceeeeEEEeeCCCCCCccCceeeeEEeCCCCCCCCCCeeEEECCCC
Confidence 47999999999987 44566666674 777899998888 99999999988999999999999999874444
Q ss_pred -CcccccccCceeecC------CCCchhhccc
Q psy13700 103 -GKTAKMYRGGKICLS------DHFKPLWARN 127 (166)
Q Consensus 103 -gkt~kmYrgGkICLd------dHf~PlW~~n 127 (166)
-+|| -+|||. |.|.|.|+-.
T Consensus 79 RFktn-----tRLCLSiSDfHPdsWNP~WsVS 105 (244)
T KOG0894|consen 79 RFKTN-----TRLCLSISDFHPDSWNPGWSVS 105 (244)
T ss_pred ceecC-----ceEEEeccccCcCcCCCcccHH
Confidence 5675 489997 8999999854
No 20
>KOG0428|consensus
Probab=98.04 E-value=9.4e-06 Score=71.54 Aligned_cols=91 Identities=21% Similarity=0.327 Sum_probs=71.4
Q ss_pred hHHHHHHHHHHHHHHHHHhcccCCCCceEeee-CCCCCeeEEEeec--eecccceeEEEEEecCCCCCCCCCeeecCCCC
Q psy13700 26 LWPKRLKEEYVALIEYVKNNKAADNDWFRLES-NKEGTKWFGSCWF--FYNQLKYEFQIEFDIPITFPTTAPELALPELD 102 (166)
Q Consensus 26 ~w~~RLkeEY~aLikyv~~nk~~d~dwf~Lep-n~dgTrW~gkcw~--~~~~~kyeF~lefdIP~tYP~tpPei~fpeld 102 (166)
.=++||.+|-+.|. +-+|-|.-.| ++++..|.=.+.| ++.|++--|-=+|.+|+.||+-||.|-+=.-.
T Consensus 11 paVkRlmkEa~El~--------~Ptd~yha~plEdNlFEWhFtiRGp~dtdFeGGiYHGRI~lPadYPmKPPs~iLLTpN 82 (314)
T KOG0428|consen 11 PAVKRLMKEAAELK--------DPTDHYHAQPLEDNLFEWHFTIRGPPDTDFEGGIYHGRIVLPADYPMKPPSIILLTPN 82 (314)
T ss_pred HHHHHHHHHHHHhc--------CchhhhhhccchhceeeEEEEeeCCCCCCccCceeeeeEecCCCCCCCCCeEEEEcCC
Confidence 35889999988764 2345553335 8999999999999 99999999999999999999999999875444
Q ss_pred CcccccccCceeecC------CCCchhhccc
Q psy13700 103 GKTAKMYRGGKICLS------DHFKPLWARN 127 (166)
Q Consensus 103 gkt~kmYrgGkICLd------dHf~PlW~~n 127 (166)
|.-.+ +-||||. +||-|-|+-.
T Consensus 83 GRFE~---nkKiCLSISgyHPEtWqPSWSiR 110 (314)
T KOG0428|consen 83 GRFEV---NKKICLSISGYHPETWQPSWSIR 110 (314)
T ss_pred Cceee---CceEEEEecCCCccccCcchhHH
Confidence 43221 3489997 8999999854
No 21
>KOG0420|consensus
Probab=97.82 E-value=1.2e-05 Score=67.07 Aligned_cols=62 Identities=18% Similarity=0.440 Sum_probs=50.5
Q ss_pred cceeEEEEEecCCCCCCCCCeeecCCCCCcccccccCceeecC---CCCchhhcccCCchhHHHHH
Q psy13700 75 LKYEFQIEFDIPITFPTTAPELALPELDGKTAKMYRGGKICLS---DHFKPLWARNVPKFGIAHAM 137 (166)
Q Consensus 75 ~kyeF~lefdIP~tYP~tpPei~fpeldgkt~kmYrgGkICLd---dHf~PlW~~n~p~fgiaha~ 137 (166)
.+-.|.++|+||..||..||.+.--.---|+|+.- .|.|||+ ++|+|.-+-|.=.+|+-|.+
T Consensus 74 ~gGkf~F~~~v~~~Yp~~PPKVkCltkV~HPNId~-~GnVCLnILRedW~P~lnL~sIi~GL~~LF 138 (184)
T KOG0420|consen 74 QGGKFRFKFKVPNAYPHEPPKVKCLTKVYHPNIDL-DGNVCLNILREDWRPVLNLNSIIYGLQFLF 138 (184)
T ss_pred cCceEEEEEECCCCCCCCCCeeeeeeccccCCcCC-cchHHHHHHHhcCccccchHHHHHHHHHHh
Confidence 33457888999999999999997643345666654 4899998 99999999999999998876
No 22
>KOG0895|consensus
Probab=97.09 E-value=0.0018 Score=65.33 Aligned_cols=107 Identities=16% Similarity=0.203 Sum_probs=80.0
Q ss_pred ccCCCCCCChHHHHHHHHHHHHHHHHHhcccCCCCceEeee-CCCCCeeEEEeec--eecccceeEEEEEecCCCCCCCC
Q psy13700 17 TKAGPRDKDLWPKRLKEEYVALIEYVKNNKAADNDWFRLES-NKEGTKWFGSCWF--FYNQLKYEFQIEFDIPITFPTTA 93 (166)
Q Consensus 17 ~~agprd~~~w~~RLkeEY~aLikyv~~nk~~d~dwf~Lep-n~dgTrW~gkcw~--~~~~~kyeF~lefdIP~tYP~tp 93 (166)
.++++.-...|.+|+++|.+.|=+- . -+.+...+ ....+.=+..+=+ ++||..--|.++|.-|.+||..|
T Consensus 273 ~~~~k~hs~~~skrv~ke~~llskd------l-pEgifvrp~e~RMd~I~alIig~~gtPy~~glf~Fdiq~P~~yPa~p 345 (1101)
T KOG0895|consen 273 GKSSKPHSKNWSKKVAKELKLLSKD------L-PEGIFVRPDEGRMDLIKALIIGPDGTPYADGLFLFDIQFPDTYPAVP 345 (1101)
T ss_pred CCCCCccchhhHHHHHHHhhhhccc------C-CCCccccccccccceeeeEEecCCCCCCcCCceeeEeecCCCCCCCC
Confidence 3455566678999999999987431 2 22244445 6788888888877 99999999999999999999999
Q ss_pred CeeecCCC-CCccc-ccccCceeecC--CCCch-hhcccCCc
Q psy13700 94 PELALPEL-DGKTA-KMYRGGKICLS--DHFKP-LWARNVPK 130 (166)
Q Consensus 94 Pei~fpel-dgkt~-kmYrgGkICLd--dHf~P-lW~~n~p~ 130 (166)
|.+.+-.. ..+.| --||.|||||+ ..|+= .|.+-.|+
T Consensus 346 p~v~~lt~~~~R~nPNlYn~GKVcLslLgTwtg~~~e~wtp~ 387 (1101)
T KOG0895|consen 346 PHVKYLTGGGVRLNPNLYNDGKVCLSLLGTWTGSRREKWTPN 387 (1101)
T ss_pred ceeEEeeccceeecCCcccCceEEeeeeeecccccccCCCcc
Confidence 99999776 44444 46999999998 44444 55555554
No 23
>KOG0423|consensus
Probab=96.84 E-value=0.0012 Score=56.03 Aligned_cols=85 Identities=16% Similarity=0.222 Sum_probs=70.5
Q ss_pred ccCCCCceEeeeC-CCCCeeEEEeec--eecccceeEEEEEecCCCCCCCCCeeecCCCCCcccccccCceeecC---CC
Q psy13700 46 KAADNDWFRLESN-KEGTKWFGSCWF--FYNQLKYEFQIEFDIPITFPTTAPELALPELDGKTAKMYRGGKICLS---DH 119 (166)
Q Consensus 46 k~~d~dwf~Lepn-~dgTrW~gkcw~--~~~~~kyeF~lefdIP~tYP~tpPei~fpeldgkt~kmYrgGkICLd---dH 119 (166)
.++-.|-|.+-.| .|.|.=.+.+=+ ++||..--|++.+-+--.||.+||.=-|-.-..|+|+. .+|+||.+ -.
T Consensus 23 ~~~PPdGIKV~~NeeD~tdiqa~IeGP~GTPYa~GlFRmKL~L~kDFP~sPPKgYFlTKIFHPNVa-aNGEICVNtLKkD 101 (223)
T KOG0423|consen 23 DESPPDGIKVVVNEEDFTDIQADIEGPVGTPYANGLFRMKLALSKDFPHSPPKGYFLTKIFHPNVA-ANGEICVNTLKKD 101 (223)
T ss_pred ccCCCCceEEecChHHhHHHHhhccCCCCCccccceeeehhhhcCCCCCCCCcceeeeeeccCCcc-cCceehhhhhhcc
Confidence 3456888866674 778877777777 99999999999999999999999999887777888886 46999987 66
Q ss_pred CchhhcccCCchhHHHHHh
Q psy13700 120 FKPLWARNVPKFGIAHAMA 138 (166)
Q Consensus 120 f~PlW~~n~p~fgiaha~a 138 (166)
|+ |-.||-|.|.
T Consensus 102 W~-------p~LGirHvLl 113 (223)
T KOG0423|consen 102 WN-------PSLGIRHVLL 113 (223)
T ss_pred cC-------cccchhhHhh
Confidence 76 4689999873
No 24
>PF14461 Prok-E2_B: Prokaryotic E2 family B
Probab=96.83 E-value=0.0026 Score=48.56 Aligned_cols=59 Identities=24% Similarity=0.294 Sum_probs=46.4
Q ss_pred cceeEEEEEecCCCCCCCCCeeecCCCCC--cccccccCceeecCCCCchhhcccCCchhHH
Q psy13700 75 LKYEFQIEFDIPITFPTTAPELALPELDG--KTAKMYRGGKICLSDHFKPLWARNVPKFGIA 134 (166)
Q Consensus 75 ~kyeF~lefdIP~tYP~tpPei~fpeldg--kt~kmYrgGkICLddHf~PlW~~n~p~fgia 134 (166)
.+.+|.|.+.+|..||..||.|.+....+ .-.-.+.+|+||+-+. .=.|+.+-|.==++
T Consensus 34 ~~~~~~l~l~~p~~FP~~pp~v~l~d~~~~~~~pHv~~~G~LCl~~~-~~~~D~~~P~~~~~ 94 (133)
T PF14461_consen 34 GGGPFPLRLVFPDDFPYLPPRVYLEDPKQFPLLPHVESDGKLCLLDE-ELVLDPWDPEGIIA 94 (133)
T ss_pred CCeEEEEEEEECCcccCcCCEEEecCccccCccCeEcCCCeEEEecC-CcccCccCHHHHHH
Confidence 78899999999999999999998875442 3344455999999877 77888888853333
No 25
>KOG0429|consensus
Probab=96.15 E-value=0.03 Score=48.98 Aligned_cols=99 Identities=18% Similarity=0.281 Sum_probs=73.8
Q ss_pred HHHHHHHHHHHHHHHhcccCCCCceEeeeCCCCCeeEEEeecee-cccceeEEEEEecCCCCCCCC--CeeecCCCCCcc
Q psy13700 29 KRLKEEYVALIEYVKNNKAADNDWFRLESNKEGTKWFGSCWFFY-NQLKYEFQIEFDIPITFPTTA--PELALPELDGKT 105 (166)
Q Consensus 29 ~RLkeEY~aLikyv~~nk~~d~dwf~Lepn~dgTrW~gkcw~~~-~~~kyeF~lefdIP~tYP~tp--Pei~fpeldgkt 105 (166)
.-++.||.-|-.|+.--++.=...+-+-|-..+--|||.+..-+ =|.+--|++.|-||..||..- |.+-|-+---|+
T Consensus 16 g~i~qey~llAEf~lV~~ekL~gIyviPSyan~l~WFGViFvr~GiyaggVFRFtIliPdnfPdd~dlPrvvF~q~vfHP 95 (258)
T KOG0429|consen 16 GNILQEYALLAEFVLVCREKLDGIYVIPSYANKLLWFGVIFVRKGIYAGGVFRFTILIPDNFPDDSDLPRVVFEQSVFHP 95 (258)
T ss_pred hHHHHHHHHHHHHHHHHhccCCceEEcccccccceEEEEEEEecccccCceEEEEEEcCccCCCcCCCCeEEeecccccc
Confidence 34788999888887665444344445545688899999998844 467788999999999999443 888886444677
Q ss_pred cccccCceeecCCCCchhhcccC
Q psy13700 106 AKMYRGGKICLSDHFKPLWARNV 128 (166)
Q Consensus 106 ~kmYrgGkICLddHf~PlW~~n~ 128 (166)
.+-=.+++.||+ |+-|-|.|+-
T Consensus 96 ~icp~skeLdl~-raf~eWRk~e 117 (258)
T KOG0429|consen 96 LICPKSKELDLN-RAFPEWRKEE 117 (258)
T ss_pred ccCCCccceeHh-hhhhhhhccc
Confidence 777777999986 5567798874
No 26
>KOG0895|consensus
Probab=94.72 E-value=0.03 Score=56.97 Aligned_cols=84 Identities=20% Similarity=0.339 Sum_probs=52.8
Q ss_pred hHHHHHHHHHHHHHHHHHhcccCCCCce-EeeeC-CCCCeeEEEeec--eecccceeEEEEEecCCCCCCCCCeeecCCC
Q psy13700 26 LWPKRLKEEYVALIEYVKNNKAADNDWF-RLESN-KEGTKWFGSCWF--FYNQLKYEFQIEFDIPITFPTTAPELALPEL 101 (166)
Q Consensus 26 ~w~~RLkeEY~aLikyv~~nk~~d~dwf-~Lepn-~dgTrW~gkcw~--~~~~~kyeF~lefdIP~tYP~tpPei~fpel 101 (166)
+|.+....||+.|-. + .-+..| |-.-+ =|+-| ..+=| ++||..-=|-+.|..|.+||.+||-+-.-.-
T Consensus 851 ~~~~~~~~~~~~~~~----~--~~~~~~vr~~e~r~d~~~--~~~~g~~~tpy~~~~f~fd~~~~~~yp~~pp~~~~~s~ 922 (1101)
T KOG0895|consen 851 QWAKKVQTEWKILPL----S--LPSGIFVRAYEDRMDLLR--AVIVGAAGTPYQDGLFFFDFQFPQDYPSSPPLVHYHSG 922 (1101)
T ss_pred HHHHHHHHHHHhhhc----c--CCCceEEEechHHHHHHH--HHhhCCCCCccccceEEEEeecCCCCCCCCCceEeecC
Confidence 677777777776532 2 122333 33211 12211 22333 7899998888888999999999998866332
Q ss_pred C-CcccccccCceeecC
Q psy13700 102 D-GKTAKMYRGGKICLS 117 (166)
Q Consensus 102 d-gkt~kmYrgGkICLd 117 (166)
- --..-.|.+||+||.
T Consensus 923 ~~r~npnly~~g~vc~s 939 (1101)
T KOG0895|consen 923 GVRLNPNLYEDGKVCLS 939 (1101)
T ss_pred ceeeCcccccccceehh
Confidence 2 122346999999996
No 27
>COG3449 DNA gyrase inhibitor [DNA replication, recombination, and repair]
Probab=94.13 E-value=0.14 Score=41.83 Aligned_cols=71 Identities=21% Similarity=0.257 Sum_probs=60.4
Q ss_pred HHHHHHHHHHHHHHHHHhcccCCCCceEeeeCCCCCeeEEEeec---eecccceeEEEEEecCCCCCCCCCeeecCCCC-
Q psy13700 27 WPKRLKEEYVALIEYVKNNKAADNDWFRLESNKEGTKWFGSCWF---FYNQLKYEFQIEFDIPITFPTTAPELALPELD- 102 (166)
Q Consensus 27 w~~RLkeEY~aLikyv~~nk~~d~dwf~Lepn~dgTrW~gkcw~---~~~~~kyeF~lefdIP~tYP~tpPei~fpeld- 102 (166)
|...+++=..+|++++..| .|-|+ -+-|.|+||. +++=++|.||+...+|..-+...+.|.+-++.
T Consensus 21 ~~~~~~~~~~~l~~W~~~~--------~l~p~--~S~~~gI~~ddP~~Tp~e~~R~D~cv~v~~~~~~n~~~v~~~~i~G 90 (154)
T COG3449 21 DPATLKQTFEQLIAWRREN--------GLLPE--QSETLGIYQDDPDTTPAEKCRYDACVVVPEPIPENSEGVQLGEIPG 90 (154)
T ss_pred cHHHHHHHHHHHHHHHHHc--------CCCCC--CceEEEEecCCCCCCCHHHceeeEEEEcCCccCCCCCceeEeeecC
Confidence 8899999999999999999 66444 7889999998 88999999999999998877777888887777
Q ss_pred Ccccc
Q psy13700 103 GKTAK 107 (166)
Q Consensus 103 gkt~k 107 (166)
|+.++
T Consensus 91 G~YAV 95 (154)
T COG3449 91 GLYAV 95 (154)
T ss_pred CceEE
Confidence 55544
No 28
>PF05773 RWD: RWD domain; InterPro: IPR006575 The RWD eukaryotic domain is found in RING finger (IPR001841 from INTERPRO) and WD repeat (IPR001680 from INTERPRO) containing proteins and DEXDc-like helicase (IPR001410 from INTERPRO) subfamily related to the ubiquitin-conjugating enzymes domain (IPR000608 from INTERPRO). ; GO: 0005515 protein binding; PDB: 2EBM_A 2EBK_A 2DAX_A 2DAW_A 2DAY_A 2DMF_A 1UKX_A 2YZ0_A.
Probab=93.62 E-value=0.061 Score=37.66 Aligned_cols=64 Identities=19% Similarity=0.235 Sum_probs=35.6
Q ss_pred HHHHHHHHHHHHHHHHhcccCCCCceEeeeC-CCCCeeEEEee----ceecccceeEEEEEecCCCCCCCCCeeecC
Q psy13700 28 PKRLKEEYVALIEYVKNNKAADNDWFRLESN-KEGTKWFGSCW----FFYNQLKYEFQIEFDIPITFPTTAPELALP 99 (166)
Q Consensus 28 ~~RLkeEY~aLikyv~~nk~~d~dwf~Lepn-~dgTrW~gkcw----~~~~~~kyeF~lefdIP~tYP~tpPei~fp 99 (166)
.++..+|..+|..--.+.. ++.+ .......-++- ....-....+.|.|.+|.+||.++|.|.+-
T Consensus 3 ~e~~~~EieaL~sIy~~~~--------~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~l~~~~p~~YP~~~P~i~l~ 71 (113)
T PF05773_consen 3 EEQQEEEIEALQSIYPDDF--------IEIESKSPPSLEVKLDESSSSFESSSFPSVTLHFTLPPGYPESPPKISLE 71 (113)
T ss_dssp HHHHHHHHHHHHHHSSSSE--------SSSTSSSSEEEEEEE--CEECCTTTTSEEEEEEEEE-SSTTSS--EEEEE
T ss_pred HHHHHHHHHHHHHHcCCCc--------cccccCCCCceeeeecccccccccccceeEEEEEeCCCcCCCcCCEEEEE
Confidence 3678889988866443221 1111 11112222220 123344558999999999999999999874
No 29
>KOG0896|consensus
Probab=92.97 E-value=0.093 Score=42.55 Aligned_cols=57 Identities=11% Similarity=0.136 Sum_probs=45.0
Q ss_pred CCCCCeeEEEeec--eecccceeEEEEEecCCCCCCCCCeeecCCCCCcccccccCcee
Q psy13700 58 NKEGTKWFGSCWF--FYNQLKYEFQIEFDIPITFPTTAPELALPELDGKTAKMYRGGKI 114 (166)
Q Consensus 58 n~dgTrW~gkcw~--~~~~~kyeF~lefdIP~tYP~tpPei~fpeldgkt~kmYrgGkI 114 (166)
+-.+++|.|.+-+ -+.|++-=|.|.|+--..||.+||.++|-.-+-..-+.-.+|.+
T Consensus 35 dmtl~rWtg~IiGPprT~yEnRiysLKI~Cgp~YPe~PP~vrf~tkinm~gvn~~~g~V 93 (138)
T KOG0896|consen 35 DMTLTRWTGTIIGPPRTMYENRIYSLKIECGPKYPELPPTVRFGTKINMNGVNSSNGVV 93 (138)
T ss_pred cceEeeeccceeCCCCcccccceeeEEEecCCCCCCCCceeEEEEEeeecccccCCCcc
Confidence 4568999999999 78888888999999999999999999996655444444445544
No 30
>smart00591 RWD domain in RING finger and WD repeat containing proteins and DEXDc-like helicases subfamily related to the UBCc domain.
Probab=92.07 E-value=0.16 Score=35.48 Aligned_cols=25 Identities=20% Similarity=0.546 Sum_probs=21.5
Q ss_pred ceeEEEEEecCCCCCCCCCeeecCC
Q psy13700 76 KYEFQIEFDIPITFPTTAPELALPE 100 (166)
Q Consensus 76 kyeF~lefdIP~tYP~tpPei~fpe 100 (166)
.-.+.|.|..|.+||.++|.|.+-.
T Consensus 40 ~~~~~l~~~~p~~YP~~~P~i~~~~ 64 (107)
T smart00591 40 YVSLTLQVKLPENYPDEAPPISLLN 64 (107)
T ss_pred ceEEEEEEECCCCCCCCCCCeEEEC
Confidence 4568999999999999999998743
No 31
>PF05743 UEV: UEV domain; InterPro: IPR008883 The N-terminal ubiquitin E2 variant (UEV) domain is ~145 amino acid residues in length and shows significant sequence similarity to E2 ubiquitin ligases but is unable to catalyze ubiquitin transfer as it lacks the active site cysteine that forms the transient thioester bond with the C terminus of ubiquitin (Ub). Nevertheless, at least some UEVs have retained the ability to bind Ub, and appear to act either as cofactors in ubiquitylation reactions, or as ubiquitin sensors. UEV domains also frequently contain other protein recognition motifs, and may generally serve to couple protein and Ub binding functions to facilitate the formation of multiprotein complexes [, , , ]. The UEV domain consists of a twisted four-stranded antiparallel beta-sheet having a meander topology, with four alpha-helices packed against one face of the sheet. The UEV fold is generally similar to canonical E2 ligases in the hydrophobic core and 'active site' regions, but differs significantly at both its N- and C-termini [, ]. The UEV domain is found in the eukaryotic tumour susceptibility gene 101 protein (TSG101). Altered transcripts of this gene have been detected in sporadic breast cancers and many other Homo sapiens malignancies. However, the involvement of this gene in neoplastic transformation and tumourigenesis is still elusive. TSG101 is required for normal cell function of embryonic and adult tissues but this gene is not a tumour suppressor for sporadic forms of breast cancer [].; GO: 0006464 protein modification process, 0015031 protein transport; PDB: 3R3Q_A 3R42_A 1UZX_A 3OBX_A 3OBS_A 3P9H_A 2F0R_A 3P9G_A 3OBQ_A 3OBU_A ....
Probab=87.80 E-value=1.9 Score=33.06 Aligned_cols=63 Identities=19% Similarity=0.442 Sum_probs=39.3
Q ss_pred CCCCCeeEEEeec-----eecccceeEEEEEecCCCCCCCCCeeec-CCCC-----CcccccccCceeecC--CCCch
Q psy13700 58 NKEGTKWFGSCWF-----FYNQLKYEFQIEFDIPITFPTTAPELAL-PELD-----GKTAKMYRGGKICLS--DHFKP 122 (166)
Q Consensus 58 n~dgTrW~gkcw~-----~~~~~kyeF~lefdIP~tYP~tpPei~f-peld-----gkt~kmYrgGkICLd--dHf~P 122 (166)
..||+.=.=.|-+ .+.-..|..-+.|-||.+||.+||-|-+ |+.+ +| .++- .|+|.+. +.|.+
T Consensus 24 ~~~G~~~~LL~L~Gtipi~y~g~~y~iPi~Iwlp~~yP~~pP~v~v~pt~~m~I~~~~-~Vd~-~G~v~~pyL~~W~~ 99 (121)
T PF05743_consen 24 FNDGSSKLLLCLYGTIPITYKGSTYNIPICIWLPENYPYSPPIVYVRPTPSMVIKPSH-HVDS-NGRVYLPYLQNWNP 99 (121)
T ss_dssp STTSTEEEEEEEEEEEEECCTTCCEEEEEEEEE-TTTTTSSSEEEE-GCCTECCGGCC-CB-T-TSBB-SHHHHT--T
T ss_pred cCCCChheEEEEecCcccccCCcccceeEEEEEcccCCCCCCEEEEeCCCCCCcCCCC-eECC-CCCEeCchhccCCC
Confidence 3566644444443 3444568999999999999999999876 3333 44 5554 4788876 77776
No 32
>PF14462 Prok-E2_E: Prokaryotic E2 family E
Probab=54.87 E-value=10 Score=30.00 Aligned_cols=29 Identities=24% Similarity=0.361 Sum_probs=22.6
Q ss_pred ccceeEEEEEecCCCCCCCCCeeec--CCCC
Q psy13700 74 QLKYEFQIEFDIPITFPTTAPELAL--PELD 102 (166)
Q Consensus 74 ~~kyeF~lefdIP~tYP~tpPei~f--peld 102 (166)
|..-+=+|-|.||..||.++|.+-. |.|.
T Consensus 39 y~~~~~dili~iP~gYP~~~~DmfY~~P~L~ 69 (122)
T PF14462_consen 39 YNHNEVDILILIPPGYPDAPLDMFYVYPPLK 69 (122)
T ss_pred cCccceEEEEECCCCCCCCCCCcEEECCceE
Confidence 4445678999999999999998854 5553
No 33
>PF06113 BRE: Brain and reproductive organ-expressed protein (BRE); InterPro: IPR010358 This family consists of several eukaryotic brain and reproductive organ-expressed (BRE) proteins. BRE is a putative stress-modulating gene, found able to down-regulate TNF-alpha-induced-NF-kappaB activation upon over expression. A total of six isoforms are produced by alternative splicing predominantly at either end of the gene. Compared to normal cells, immortalised human cell lines uniformly express higher levels of BRE. Peripheral blood monocytes respond to LPS by down-regulating the expression of all the BRE isoforms. It is thought that the function of BRE and its isoforms is to regulate peroxisomal activities [].
Probab=44.10 E-value=23 Score=32.37 Aligned_cols=29 Identities=28% Similarity=0.686 Sum_probs=25.8
Q ss_pred eecccceeEEEEEecCCCCCCCCCeeecC
Q psy13700 71 FYNQLKYEFQIEFDIPITFPTTAPELALP 99 (166)
Q Consensus 71 ~~~~~kyeF~lefdIP~tYP~tpPei~fp 99 (166)
......|.|-+.|+||.++|...|.+.|-
T Consensus 300 L~~~~~F~flvHi~Lp~~FP~~qP~ltlq 328 (333)
T PF06113_consen 300 LLESGDFTFLVHISLPIQFPKDQPSLTLQ 328 (333)
T ss_pred HhhcCCeEEEEEEeccCCCCCcCCeEEEE
Confidence 45677899999999999999999999875
No 34
>KOG0897|consensus
Probab=42.47 E-value=15 Score=29.46 Aligned_cols=63 Identities=21% Similarity=0.260 Sum_probs=40.9
Q ss_pred ceeEEE-EEecCCCCCCCCCeeec--CCCCCcccccccCceeecC----CCCchhhcccCCchhHHHHHhhc
Q psy13700 76 KYEFQI-EFDIPITFPTTAPELAL--PELDGKTAKMYRGGKICLS----DHFKPLWARNVPKFGIAHAMALG 140 (166)
Q Consensus 76 kyeF~l-efdIP~tYP~tpPei~f--peldgkt~kmYrgGkICLd----dHf~PlW~~n~p~fgiaha~alg 140 (166)
+-+|.| .+.-|.+||-.||+++. |-+|+-+ --.||-||.. .-|+-.+.-..=.-|||-.+-=|
T Consensus 9 ~te~ill~~~f~~~fp~~ppf~rvv~p~~~~Gy--vl~ggAIcmellt~qgwssay~Ve~vi~qiaatlVkG 78 (122)
T KOG0897|consen 9 GTENILLLDIFDDNFPFMPPFPRVVKPLEDEGY--VLEGGAICMELLTKQGWSSAYEVERVIMQIAATLVKG 78 (122)
T ss_pred CCceeEeeeecccCCCCCCCcceeeeecccCCE--EecchhhHHHHHccccccchhhHHHHHHHHHHHhhcc
Confidence 334544 44557999999999887 4445333 3479999985 77776666555556666544433
No 35
>PF00339 Arrestin_N: Arrestin (or S-antigen), N-terminal domain; InterPro: IPR011021 G protein-coupled receptors are a large family of signalling molecules that respond to a wide variety of extracellular stimuli. The receptors relay the information encoded by the ligand through the activation of heterotrimeric G proteins and intracellular effector molecules. To ensure the appropriate regulation of the signalling cascade, it is vital to properly inactivate the receptor. This inactivation is achieved, in part, by the binding of a soluble protein, arrestin, which uncouples the receptor from the downstream G protein after the receptors are phosphorylated by G protein-coupled receptor kinases. In addition to the inactivation of G protein-coupled receptors, arrestins have also been implicated in the endocytosis of receptors and cross talk with other signalling pathways. Arrestin (retinal S-antigen) is a major protein of the retinal rod outer segments. It interacts with photo-activated phosphorylated rhodopsin, inhibiting or 'arresting' its ability to interact with transducin []. The protein binds calcium, and shows similarity in its C terminus to alpha-transducin and other purine nucleotide-binding proteins. In mammals, arrestin is associated with autoimmune uveitis. Arrestins comprise a family of closely-related proteins that includes beta-arrestin-1 and -2, which regulate the function of beta-adrenergic receptors by binding to their phosphorylated forms, impairing their capacity to activate G(S) proteins; Cone photoreceptors C-arrestin (arrestin-X) [], which could bind to phosphorylated red/green opsins; and Drosophila phosrestins I and II, which undergo light-induced phosphorylation, and probably play a role in photoreceptor transduction [, , ]. The crystal structure of bovine retinal arrestin comprises two domains of antiparallel beta-sheets connected through a hinge region and one short alpha-helix on the back of the amino-terminal fold []. The binding region for phosphorylated light-activated rhodopsin is located at the N-terminal domain, as indicated by the docking of the photoreceptor to the three-dimensional structure of arrestin. The N-terminal domain consists of an immunoglobulin-like beta-sandwich structure. This entry represents proteins with immunoglobulin-like domains that are similar to those found in arrestin.; PDB: 1SUJ_A 3UGX_A 1CF1_B 1AYR_A 3UGU_A 3P2D_B 1ZSH_A 2WTR_B 3GC3_A 1G4R_A ....
Probab=33.43 E-value=30 Score=24.84 Aligned_cols=16 Identities=44% Similarity=0.962 Sum_probs=9.0
Q ss_pred cceeEEEEEecCCCCC
Q psy13700 75 LKYEFQIEFDIPITFP 90 (166)
Q Consensus 75 ~kyeF~lefdIP~tYP 90 (166)
-.|+|.++|.||..-|
T Consensus 93 G~~~fpF~f~LP~~lP 108 (149)
T PF00339_consen 93 GEYEFPFEFQLPSNLP 108 (149)
T ss_dssp -TTEEEEEE---TTS-
T ss_pred CCEEEEEEEECCCCCC
Confidence 4699999999995553
No 36
>PF08872 KGK: KGK domain; InterPro: IPR014971 This protein is found in one or two copies in cyanobacterial proteins. It is named after a short sequence motif.
Probab=32.22 E-value=1.3e+02 Score=23.47 Aligned_cols=31 Identities=26% Similarity=0.557 Sum_probs=20.2
Q ss_pred CCce--Eeee---CCCCCeeE-EEeeceecccceeEEEEEecCCC
Q psy13700 50 NDWF--RLES---NKEGTKWF-GSCWFFYNQLKYEFQIEFDIPIT 88 (166)
Q Consensus 50 ~dwf--~Lep---n~dgTrW~-gkcw~~~~~~kyeF~lefdIP~t 88 (166)
..|| .+++ .-....|. ||. +.++.||| +|.+
T Consensus 60 ~~~~~~Gi~CeiL~~g~~~W~kGK~-------ri~~~leF-~pde 96 (114)
T PF08872_consen 60 EIFFSEGIECEILRFGSKGWQKGKV-------RIKVSLEF-IPDE 96 (114)
T ss_pred hhhccCCeeEEEeccCCCCCccceE-------EEEEEEEE-ecCC
Confidence 4666 6666 24445887 887 34678888 6664
No 37
>PF03920 TLE_N: Groucho/TLE N-terminal Q-rich domain; InterPro: IPR005617 The N-terminal domain of the Grouch/TLE co-repressor proteins are involved in oligomerisation.; GO: 0005515 protein binding
Probab=31.89 E-value=13 Score=30.18 Aligned_cols=36 Identities=22% Similarity=0.132 Sum_probs=25.3
Q ss_pred HHHHHHHHHHHHHHHHHhcccCCCCceEeeeCCCCCeeEEEeec
Q psy13700 27 WPKRLKEEYVALIEYVKNNKAADNDWFRLESNKEGTKWFGSCWF 70 (166)
Q Consensus 27 w~~RLkeEY~aLikyv~~nk~~d~dwf~Lepn~dgTrW~gkcw~ 70 (166)
=.+|||+||.-|.+...+. ++|.++-.++++-.=+.
T Consensus 24 s~drIKeEf~~lqaq~hsl--------k~E~eKla~EK~emqrh 59 (135)
T PF03920_consen 24 SCDRIKEEFQFLQAQYHSL--------KLECEKLASEKTEMQRH 59 (135)
T ss_pred HHHHHHHHHHHHHHHHHhh--------hhhcchhhcccchHHHH
Confidence 3589999999999988666 66666655555543333
No 38
>KOG4018|consensus
Probab=30.31 E-value=44 Score=29.02 Aligned_cols=23 Identities=26% Similarity=0.517 Sum_probs=20.1
Q ss_pred eEEEEEecCCCCCCCCCeeecCC
Q psy13700 78 EFQIEFDIPITFPTTAPELALPE 100 (166)
Q Consensus 78 eF~lefdIP~tYP~tpPei~fpe 100 (166)
.|.|.|..+.+||..||-|.+-+
T Consensus 50 ~~~l~~s~tEnYPDe~Pli~~~~ 72 (215)
T KOG4018|consen 50 SFILVFSLTENYPDEAPLIEAFE 72 (215)
T ss_pred cEEEEEEccCCCCCCCcceeccc
Confidence 79999999999999999995533
No 39
>PF14135 DUF4302: Domain of unknown function (DUF4302)
Probab=28.39 E-value=1e+02 Score=25.65 Aligned_cols=43 Identities=21% Similarity=0.330 Sum_probs=26.3
Q ss_pred HHHHHHHHHHHHHHHHHhcccCCCCceEeeeCCCCCeeEEEeeceec--ccceeEEEEEe
Q psy13700 27 WPKRLKEEYVALIEYVKNNKAADNDWFRLESNKEGTKWFGSCWFFYN--QLKYEFQIEFD 84 (166)
Q Consensus 27 w~~RLkeEY~aLikyv~~nk~~d~dwf~Lepn~dgTrW~gkcw~~~~--~~kyeF~lefd 84 (166)
=.+||.|.-+.+.+-|. +..+| |.....-..+ |-+|.|-+.|+
T Consensus 10 ~~eR~~e~~~~~k~~L~-------------~a~~G--W~~~yyp~~~~~~GGy~f~~kF~ 54 (235)
T PF14135_consen 10 PAERINEALAEYKKILT-------------SAPNG--WKLEYYPKTDQSYGGYTFLMKFD 54 (235)
T ss_pred HHHHHHHHHHHHHHHHh-------------cCCCc--eEEEEECCCCccCCcEEEEEEEC
Confidence 35788887777766552 23344 5544443222 78888888775
No 40
>cd04714 BAH_BAHCC1 BAH, or Bromo Adjacent Homology domain, as present in mammalian BAHCC1 and similar proteins. BAHCC1 stands for BAH domain and coiled-coil containing 1. BAH domains are found in a variety of proteins playing roles in transcriptional silencing and the remodeling of chromatin. It is assumed that in most or all of these instances the BAH domain mediates protein-protein interactions.
Probab=28.10 E-value=43 Score=25.31 Aligned_cols=27 Identities=22% Similarity=0.476 Sum_probs=21.4
Q ss_pred CCCce-Eeee---CCCCCeeEEEeeceeccc
Q psy13700 49 DNDWF-RLES---NKEGTKWFGSCWFFYNQL 75 (166)
Q Consensus 49 d~dwf-~Lep---n~dgTrW~gkcw~~~~~~ 75 (166)
+..|+ +|+. +.+|..|.-.+|+..|-+
T Consensus 19 ~~pyIgrI~~i~e~~~g~~~~~v~WfyrPeE 49 (121)
T cd04714 19 SLPYVARIESLWEDPEGNMVVRVKWYYRPEE 49 (121)
T ss_pred CCCEEEEEEEEEEcCCCCEEEEEEEEEcHHH
Confidence 45788 7777 577999999999977654
No 41
>COG2005 ModE N-terminal domain of molybdenum-binding protein [General function prediction only]
Probab=27.61 E-value=96 Score=24.83 Aligned_cols=49 Identities=22% Similarity=0.249 Sum_probs=38.2
Q ss_pred hhhhhccccceeccCCCCCCC-----hHHHHHHHHHHHHHHHHHhcccCCCCce
Q psy13700 5 SKKTLSSIPLLKTKAGPRDKD-----LWPKRLKEEYVALIEYVKNNKAADNDWF 53 (166)
Q Consensus 5 ~~~~~~~ipl~~~~agprd~~-----~w~~RLkeEY~aLikyv~~nk~~d~dwf 53 (166)
....+...||+.+.-|=+.+- .--+||.+||..+-+.++.--..+.||+
T Consensus 54 ~~n~~~~~plVe~~rGGk~gGga~LT~~g~~ll~~y~~l~~~~~~~~~~~~~~~ 107 (130)
T COG2005 54 ALNRLLGEPLVERRRGGKGGGGAVLTDFGERLLEEYRLLEKEIEEALRKLEDEQ 107 (130)
T ss_pred HHHHHhCCCeeeeccCCCCCCcchhHHHHHHHHHHHHHHHHHHHHHHHHHhhcc
Confidence 345677889999998887764 5779999999999888876655666773
No 42
>PF10981 DUF2788: Protein of unknown function (DUF2788); InterPro: IPR021249 This bacterial family of proteins have no known function.
Probab=27.06 E-value=31 Score=23.95 Aligned_cols=21 Identities=33% Similarity=0.401 Sum_probs=13.9
Q ss_pred hhhcccCCchhHHH-HHhhccc
Q psy13700 122 PLWARNVPKFGIAH-AMALGLG 142 (166)
Q Consensus 122 PlW~~n~p~fgiah-a~algl~ 142 (166)
=++..|+||||-.= -++||||
T Consensus 17 l~kks~agkfG~~ilf~vLglG 38 (52)
T PF10981_consen 17 LAKKSKAGKFGTFILFLVLGLG 38 (52)
T ss_pred HHHhcCCCCcchhHHHHHHHHH
Confidence 35778999999653 2445554
No 43
>PRK11727 23S rRNA mA1618 methyltransferase; Provisional
Probab=26.43 E-value=14 Score=32.78 Aligned_cols=58 Identities=16% Similarity=0.128 Sum_probs=40.6
Q ss_pred HHHHHHHHHHHHHHHhcccCCCCceEeeeCCCCCeeEEEeeceecccceeEEEEE-ecCCCCCCCCC
Q psy13700 29 KRLKEEYVALIEYVKNNKAADNDWFRLESNKEGTKWFGSCWFFYNQLKYEFQIEF-DIPITFPTTAP 94 (166)
Q Consensus 29 ~RLkeEY~aLikyv~~nk~~d~dwf~Lepn~dgTrW~gkcw~~~~~~kyeF~lef-dIP~tYP~tpP 94 (166)
..|.+.|-.|-+||..|+... .+| |=+...+..-...-+++..|.|++ |||..| .-||
T Consensus 29 ~~L~~~~p~l~~~v~~~~~g~---~~i----dF~~~~Av~~LnkalL~~~ygl~~wdip~~~-LcPp 87 (321)
T PRK11727 29 AALIQSHPELKPFVILNPYGE---QSI----DFANPLAVKALNKALLAHFYGVAHWDIPAGY-LCPP 87 (321)
T ss_pred HHHHHhChhHHHHhccCCCCC---eee----eCCCHHHHHHHHHHHHHHhcCCCcccCCCCC-cCCC
Confidence 579999999999998874322 122 223334444446678899999996 999999 5554
No 44
>PF09765 WD-3: WD-repeat region; InterPro: IPR019162 This entry represents a region of approximately 100 residues containing three WD repeats and six cysteine residues- possibly as three cysteine-bridges associated with FancL. FancL is the ubiquitin ligase protein that mediates ubiquitination of FancD2, a key step in the DNA damage pathway [, ]. FancL belongs to the multisubunit Fanconi anemia (FA) complex, which is composed of subunits: FancA, FancB, FancC, FancE, FancF, FancG, FancL/PHF9 and FancM. The WD repeats are required for interaction of FancL with other subunits of the FA complex []. In humans defects in FancL are a cause of Fanconi anemia (FA) [MIM:227650], and the FA complex is not found in FA patients. FA is a genetically heterogeneous, autosomal recessive disorder characterised by progressive pancytopenia, a diverse assortment of congenital malformations, and a predisposition to the development of malignancies. At the cellular level it is associated with hypersensitivity to DNA-damaging agents, chromosomal instability (increased chromosome breakage), and defective DNA repair.; PDB: 3ZQS_B 3K1L_A.
Probab=26.04 E-value=52 Score=29.03 Aligned_cols=22 Identities=23% Similarity=0.596 Sum_probs=18.2
Q ss_pred eEEEEEecCCCCCCCCCeeecC
Q psy13700 78 EFQIEFDIPITFPTTAPELALP 99 (166)
Q Consensus 78 eF~lefdIP~tYP~tpPei~fp 99 (166)
+..|++.+|..||..+|++..|
T Consensus 138 ~H~l~l~l~~~yp~~~p~~~~~ 159 (291)
T PF09765_consen 138 QHYLELKLPSNYPFEPPSCSLD 159 (291)
T ss_dssp EEEEEEETTTTTTTSEEEECS-
T ss_pred eEEEEEEECCCCCCCCceeeCC
Confidence 4567888999999999999877
No 45
>COG4957 Predicted transcriptional regulator [Transcription]
Probab=25.61 E-value=25 Score=29.02 Aligned_cols=46 Identities=24% Similarity=0.484 Sum_probs=29.1
Q ss_pred CCce-EeeeCCCCCeeEEEeec---eecccceeEEEEEecCCCCCCCCCeeec
Q psy13700 50 NDWF-RLESNKEGTKWFGSCWF---FYNQLKYEFQIEFDIPITFPTTAPELAL 98 (166)
Q Consensus 50 ~dwf-~Lepn~dgTrW~gkcw~---~~~~~kyeF~lefdIP~tYP~tpPei~f 98 (166)
.|+| .| .||-+...-=.+ .|.|--=+|+=--++|..|||++|..+-
T Consensus 74 pD~IicL---EDGkkfKSLKRHL~t~~gmTPd~YR~KW~LP~dYPMvAPnYAa 123 (148)
T COG4957 74 PDYIICL---EDGKKFKSLKRHLTTHYGLTPDEYRAKWGLPPDYPMVAPNYAA 123 (148)
T ss_pred CCeEEEe---ccCcchHHHHHHHhcccCCCHHHHHHhcCCCCCCCccchHHHH
Confidence 4555 55 355555443333 3555555666667899999999998653
No 46
>PRK10016 DNA gyrase inhibitor; Provisional
Probab=25.26 E-value=1.2e+02 Score=22.89 Aligned_cols=66 Identities=14% Similarity=0.257 Sum_probs=38.8
Q ss_pred hccccceec-cCCCCCCChHHHHHHHHHHHHHHHHHhcccCCCCceEeeeCCCCCeeEEEeec---eecccceeEEEEEe
Q psy13700 9 LSSIPLLKT-KAGPRDKDLWPKRLKEEYVALIEYVKNNKAADNDWFRLESNKEGTKWFGSCWF---FYNQLKYEFQIEFD 84 (166)
Q Consensus 9 ~~~ipl~~~-~agprd~~~w~~RLkeEY~aLikyv~~nk~~d~dwf~Lepn~dgTrW~gkcw~---~~~~~kyeF~lefd 84 (166)
+..+.++.. ..||... -+.+=+..|.++++.| .|.+ +.++|.++- +++-.++.|++++.
T Consensus 8 ~~~~~va~ir~~g~~~~-----~~~~~~~~L~~~~~~~--------~l~~----~~~~~i~~D~p~~~~~~~~R~d~~i~ 70 (156)
T PRK10016 8 EQKRTIAGFHLVGPWEQ-----TVKQGFEQLMMWVDSH--------NIVP----KEWVAVYYDNPDEVPAEKLRCDTVVT 70 (156)
T ss_pred ccCceEEEEEeecCchh-----HHHHHHHHHHHHHHHc--------CCCC----CcEEEEECCCCCCCChHHceeeEEEE
Confidence 444444444 3577641 1333445666677666 2322 136776644 34556788999999
Q ss_pred cCCCCCC
Q psy13700 85 IPITFPT 91 (166)
Q Consensus 85 IP~tYP~ 91 (166)
||+.-+.
T Consensus 71 v~~~~~~ 77 (156)
T PRK10016 71 VPDDFVL 77 (156)
T ss_pred eCCCccc
Confidence 9998754
No 47
>PF09606 Med15: ARC105 or Med15 subunit of Mediator complex non-fungal; InterPro: IPR019087 The Mediator complex is a coactivator involved in the regulated transcription of nearly all RNA polymerase II-dependent genes. Mediator functions as a bridge to convey information from gene-specific regulatory proteins to the basal RNA polymerase II transcription machinery. The Mediator complex, having a compact conformation in its free form, is recruited to promoters by direct interactions with regulatory proteins and serves for the assembly of a functional preinitiation complex with RNA polymerase II and the general transcription factors. On recruitment the Mediator complex unfolds to an extended conformation and partially surrounds RNA polymerase II, specifically interacting with the unphosphorylated form of the C-terminal domain (CTD) of RNA polymerase II. The Mediator complex dissociates from the RNA polymerase II holoenzyme and stays at the promoter when transcriptional elongation begins. The Mediator complex is composed of at least 31 subunits: MED1, MED4, MED6, MED7, MED8, MED9, MED10, MED11, MED12, MED13, MED13L, MED14, MED15, MED16, MED17, MED18, MED19, MED20, MED21, MED22, MED23, MED24, MED25, MED26, MED27, MED29, MED30, MED31, CCNC, CDK8 and CDC2L6/CDK11. The subunits form at least three structurally distinct submodules. The head and the middle modules interact directly with RNA polymerase II, whereas the elongated tail module interacts with gene-specific regulatory proteins. Mediator containing the CDK8 module is less active than Mediator lacking this module in supporting transcriptional activation. The head module contains: MED6, MED8, MED11, SRB4/MED17, SRB5/MED18, ROX3/MED19, SRB2/MED20 and SRB6/MED22. The middle module contains: MED1, MED4, NUT1/MED5, MED7, CSE2/MED9, NUT2/MED10, SRB7/MED21 and SOH1/MED31. CSE2/MED9 interacts directly with MED4. The tail module contains: MED2, PGD1/MED3, RGR1/MED14, GAL11/MED15 and SIN4/MED16. The CDK8 module contains: MED12, MED13, CCNC and CDK8. Individual preparations of the Mediator complex lacking one or more distinct subunits have been variously termed ARC, CRSP, DRIP, PC2, SMCC and TRAP. The proteins in this entry represent subunit Med15 of the Mediator complex. They contain a single copy of the approximately 70 residue ARC105 domain. The ARC105 domain of the ARC-Mediator co-activator is a three-helix bundle with marked similarity to the KIX domain. The sterol regulatory element binding protein (SREBP) family of transcription activators use the ARC105 subunit to activate target genes in the regulation of cholesterol and fatty acid homeostasis. In addition, ARC105 is a critical transducer of gene activation signals that control early metazoan development []. ; GO: 0001104 RNA polymerase II transcription cofactor activity, 0006357 regulation of transcription from RNA polymerase II promoter, 0016592 mediator complex; PDB: 2GUT_A.
Probab=24.67 E-value=25 Score=35.48 Aligned_cols=86 Identities=15% Similarity=0.235 Sum_probs=0.0
Q ss_pred cceeccCCCCC--CChHHHHHHHHHHH---HHHHHHhcc-cCCCCce-EeeeC--CCCCeeEEEeeceecccceeEEEEE
Q psy13700 13 PLLKTKAGPRD--KDLWPKRLKEEYVA---LIEYVKNNK-AADNDWF-RLESN--KEGTKWFGSCWFFYNQLKYEFQIEF 83 (166)
Q Consensus 13 pl~~~~agprd--~~~w~~RLkeEY~a---Likyv~~nk-~~d~dwf-~Lepn--~dgTrW~gkcw~~~~~~kyeF~lef 83 (166)
|.|++--||-- .....+|.|=|+.. |..-|+-.- .-|..|. .|+++ .....=.=+||-+..++---=-|++
T Consensus 641 p~~~~~~g~~~~~~~~~~k~~~~~~~~~~~ip~~lqgEva~Ld~kF~v~ldp~~~~~~~~v~Lic~Ldd~~LP~VPPl~l 720 (799)
T PF09606_consen 641 PAMTALHGPPIKAPPPPPKKRRLEEDERQSIPNVLQGEVARLDPKFKVNLDPSHCSGNGSVHLICKLDDKNLPSVPPLRL 720 (799)
T ss_dssp --------------------------------------------------------------------------------
T ss_pred HHHhhccCCCCCCCCCcchhcccchhhhhhhHHHHHHHHHHhcccceeecChhccCCCCeEEEEEEeCCCCCCCCCCeeE
Confidence 66777777632 34466666655533 222222221 1233333 77773 2223334577776665556667889
Q ss_pred ecCCCCCCCCCeeec
Q psy13700 84 DIPITFPTTAPELAL 98 (166)
Q Consensus 84 dIP~tYP~tpPei~f 98 (166)
.||.+||.++|.+.+
T Consensus 721 ~vP~~YP~~sp~~~~ 735 (799)
T PF09606_consen 721 TVPADYPRQSPQCSV 735 (799)
T ss_dssp ---------------
T ss_pred eCCCCCCccCCcCcc
Confidence 999999999999877
No 48
>cd04717 BAH_polybromo BAH, or Bromo Adjacent Homology domain, as present in polybromo and yeast RSC1/2. The human polybromo protein (BAF180) is a component of the SWI/SNF chromatin-remodeling complex PBAF. It is thought that polybromo participates in transcriptional regulation. Saccharomyces cerevisiae RSC1 and RSC2 are part of the 15-subunit nucleosome remodeling RSC complex. BAH domains are found in a variety of proteins playing roles in transcriptional silencing and the remodeling of chromatin. It is assumed that in most or all of these instances the BAH domain mediates protein-protein interactions.
Probab=23.37 E-value=61 Score=24.00 Aligned_cols=28 Identities=29% Similarity=0.790 Sum_probs=21.4
Q ss_pred CCCce-Eeee---CCCCCeeEEEeeceecccc
Q psy13700 49 DNDWF-RLES---NKEGTKWFGSCWFFYNQLK 76 (166)
Q Consensus 49 d~dwf-~Lep---n~dgTrW~gkcw~~~~~~k 76 (166)
+..++ +|+. +.+|..|.-.+|+.+|-+-
T Consensus 19 ~~~~i~~I~~i~~~~~g~~~~~~~Wf~rP~et 50 (121)
T cd04717 19 SKPIIFRIERLWKDEDGEKFFFGCWFYRPEET 50 (121)
T ss_pred CCCEEEEEeEEEECCCCCEEEEEEEEeChHHc
Confidence 34566 7777 6779999999999777654
No 49
>COG1723 Uncharacterized conserved protein [Function unknown]
Probab=21.53 E-value=30 Score=31.75 Aligned_cols=68 Identities=21% Similarity=0.245 Sum_probs=46.6
Q ss_pred EEeeceecccceeEEEEEecCCCCCCCCCeeecCCCCCc----ccccccCceeecCCCCchhhcccCCchhHHHHHhh
Q psy13700 66 GSCWFFYNQLKYEFQIEFDIPITFPTTAPELALPELDGK----TAKMYRGGKICLSDHFKPLWARNVPKFGIAHAMAL 139 (166)
Q Consensus 66 gkcw~~~~~~kyeF~lefdIP~tYP~tpPei~fpeldgk----t~kmYrgGkICLddHf~PlW~~n~p~fgiaha~al 139 (166)
-+|||.++-..-.|--.++--+.=|.+.||+...+.+-. -.--=++++|=|.+ +.+-=|--|+||||=
T Consensus 116 VV~Wg~se~eE~~iL~~i~~~~~~~L~e~e~E~e~fhy~~~~~~~prI~nD~I~L~s------~~~~~klaiS~aLAQ 187 (331)
T COG1723 116 VVFWGFSESEEKNILRDITKAESNPLKEPEIETEEFHYNVTETEKPRIFNDKIILRS------SNVFTKLAISHALAQ 187 (331)
T ss_pred EEEeCCcHHHHhhHHHhhhhcccCCCCCccceEEEEEeeeecccCceeECCEEEEcC------CchhHHHHHHHHHHH
Confidence 468997777766666665555555999999988776621 11112388999986 455567889999984
No 50
>PF13122 DUF3977: Protein of unknown function (DUF3977)
Probab=20.90 E-value=35 Score=25.44 Aligned_cols=25 Identities=36% Similarity=0.801 Sum_probs=18.1
Q ss_pred HHHHhcccCCCCce-Eeee-CCCCCeeEE
Q psy13700 40 EYVKNNKAADNDWF-RLES-NKEGTKWFG 66 (166)
Q Consensus 40 kyv~~nk~~d~dwf-~Lep-n~dgTrW~g 66 (166)
||++.. -.|.|| |-|- |+|||..+-
T Consensus 2 KYIEiG--iGN~W~vRTEtE~~DGTEfE~ 28 (77)
T PF13122_consen 2 KYIEIG--IGNRWFVRTETENEDGTEFEQ 28 (77)
T ss_pred ceEEEc--cCcEEEEEEEEecCCCcEeee
Confidence 344444 568999 8887 899998764
Done!