Query 013410
Match_columns 443
No_of_seqs 116 out of 136
Neff 3.6
Searched_HMMs 46136
Date Fri Mar 29 03:34:33 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/013410.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/013410hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG4675 Uncharacterized conser 100.0 1.2E-53 2.6E-58 413.9 18.3 263 46-342 4-272 (273)
2 PF03735 ENT: ENT domain; Int 99.9 2.1E-26 4.5E-31 187.0 9.4 72 50-122 1-72 (73)
3 PF09465 LBR_tudor: Lamin-B re 98.7 7.2E-09 1.6E-13 81.0 3.5 41 228-268 7-47 (55)
4 smart00743 Agenet Tudor-like d 98.2 2.6E-06 5.5E-11 65.2 4.5 54 228-282 4-59 (61)
5 smart00333 TUDOR Tudor domain. 96.5 0.0051 1.1E-07 45.9 4.8 39 227-267 3-42 (57)
6 PF09038 53-BP1_Tudor: Tumour 95.6 0.0084 1.8E-07 54.0 2.7 41 226-267 2-42 (122)
7 cd04508 TUDOR Tudor domains ar 94.6 0.057 1.2E-06 39.0 4.1 38 230-268 1-39 (48)
8 PF06003 SMN: Survival motor n 87.2 0.7 1.5E-05 46.0 4.1 52 228-282 70-121 (264)
9 KOG3026 Splicing factor SPF30 86.5 0.57 1.2E-05 46.9 3.0 36 228-263 92-127 (262)
10 KOG4675 Uncharacterized conser 83.6 14 0.00029 37.8 11.1 38 217-254 173-210 (273)
11 PLN00104 MYST -like histone ac 76.0 15 0.00032 39.9 9.1 59 227-286 54-118 (450)
12 PF11717 Tudor-knot: RNA bindi 74.6 3.3 7.1E-05 31.8 2.9 49 229-279 3-53 (55)
13 PF02970 TBCA: Tubulin binding 65.2 16 0.00034 31.1 5.3 37 360-396 28-66 (90)
14 PF15315 FRG2: Facioscapulohum 59.8 35 0.00075 33.0 7.0 46 46-91 111-157 (181)
15 PF14717 DUF4465: Domain of un 58.5 5.9 0.00013 38.0 1.7 41 239-280 104-152 (182)
16 PF15057 DUF4537: Domain of un 55.0 16 0.00035 32.6 3.8 31 230-262 1-31 (124)
17 TIGR02612 mob_myst_A mobile my 54.9 20 0.00043 33.3 4.5 47 56-103 3-49 (150)
18 PF05641 Agenet: Agenet domain 49.7 10 0.00022 30.1 1.5 38 241-279 18-60 (68)
19 COG3078 Uncharacterized protei 46.8 51 0.0011 31.5 5.8 53 49-102 96-156 (169)
20 TIGR01588 citE citrate lyase, 43.4 26 0.00057 35.0 3.7 28 356-386 226-253 (288)
21 cd01108 HTH_CueR Helix-Turn-He 42.1 44 0.00094 29.4 4.5 46 351-396 55-100 (127)
22 cd00592 HTH_MerR-like Helix-Tu 41.1 67 0.0015 26.5 5.2 43 353-396 56-98 (100)
23 PF02828 L27: L27 domain; Int 40.4 67 0.0015 24.6 4.7 36 81-117 6-41 (56)
24 PF07104 DUF1366: Protein of u 40.3 69 0.0015 29.0 5.4 45 353-397 46-108 (116)
25 cd04769 HTH_MerR2 Helix-Turn-H 38.2 64 0.0014 27.9 4.8 46 351-396 54-100 (116)
26 cd04782 HTH_BltR Helix-Turn-He 37.7 69 0.0015 27.0 4.8 42 351-397 55-96 (97)
27 KOG2456 Aldehyde dehydrogenase 35.9 68 0.0015 35.1 5.4 40 354-393 6-50 (477)
28 cd04785 HTH_CadR-PbrR-like Hel 35.5 63 0.0014 28.4 4.4 47 351-397 55-101 (126)
29 cd04770 HTH_HMRTR Helix-Turn-H 34.6 76 0.0016 27.4 4.7 47 351-397 55-101 (123)
30 KOG1328 Synaptic vesicle prote 34.5 50 0.0011 38.5 4.4 57 51-109 54-110 (1103)
31 PF07039 DUF1325: SGF29 tudor- 34.3 67 0.0015 29.1 4.5 43 229-271 74-117 (130)
32 PF13801 Metal_resist: Heavy-m 34.0 1.1E+02 0.0023 24.9 5.3 40 353-392 69-108 (125)
33 COG1308 EGD2 Transcription fac 33.9 24 0.00052 32.3 1.5 23 373-395 99-121 (122)
34 cd01106 HTH_TipAL-Mta Helix-Tu 33.8 79 0.0017 26.6 4.6 40 352-397 56-95 (103)
35 cd04787 HTH_HMRTR_unk Helix-Tu 33.5 85 0.0018 27.8 4.9 46 351-396 55-100 (133)
36 cd04772 HTH_TioE_rpt1 First He 32.0 83 0.0018 26.7 4.4 39 356-396 59-97 (99)
37 PRK10343 RNA-binding protein Y 31.9 9.2 0.0002 33.4 -1.4 44 352-401 30-73 (97)
38 cd04784 HTH_CadR-PbrR Helix-Tu 31.7 93 0.002 27.2 4.8 45 351-396 55-100 (127)
39 PF01690 PLRV_ORF5: Potato lea 31.4 64 0.0014 35.4 4.4 12 267-278 67-78 (465)
40 TIGR02047 CadR-PbrR Cd(II)/Pb( 29.9 98 0.0021 27.3 4.7 46 351-396 55-100 (127)
41 KOG4094 Uncharacterized conser 29.9 2.6E+02 0.0056 26.9 7.6 69 49-119 75-153 (178)
42 TIGR00253 RNA_bind_YhbY putati 29.8 11 0.00023 32.7 -1.3 44 352-401 28-71 (95)
43 cd04783 HTH_MerR1 Helix-Turn-H 29.6 1.2E+02 0.0026 26.5 5.2 44 351-396 55-98 (126)
44 TIGR02044 CueR Cu(I)-responsiv 29.5 1E+02 0.0022 27.0 4.8 46 351-396 55-100 (127)
45 cd04768 HTH_BmrR-like Helix-Tu 28.7 1E+02 0.0023 25.8 4.5 40 351-396 55-94 (96)
46 smart00454 SAM Sterile alpha m 28.3 1.7E+02 0.0037 21.4 5.1 51 49-104 8-60 (68)
47 cd01109 HTH_YyaN Helix-Turn-He 28.1 1.2E+02 0.0026 26.0 4.8 45 352-396 56-100 (113)
48 KOG3470 Beta-tubulin folding c 27.7 1.1E+02 0.0024 27.6 4.5 33 365-397 41-73 (107)
49 cd04773 HTH_TioE_rpt2 Second H 26.6 1.1E+02 0.0024 26.2 4.4 45 351-396 55-99 (108)
50 KOG4327 mRNA splicing protein 26.2 1.4E+02 0.003 29.8 5.3 37 132-174 145-181 (218)
51 cd04788 HTH_NolA-AlbR Helix-Tu 26.0 1.3E+02 0.0029 25.2 4.6 40 351-396 55-94 (96)
52 cd01107 HTH_BmrR Helix-Turn-He 25.9 1.2E+02 0.0025 26.0 4.3 41 351-396 56-96 (108)
53 TIGR02043 ZntR Zn(II)-responsi 25.8 1.3E+02 0.0029 26.6 4.9 47 351-397 56-103 (131)
54 PF04967 HTH_10: HTH DNA bindi 25.7 1E+02 0.0022 24.1 3.6 38 66-105 10-47 (53)
55 PF14772 NYD-SP28: Sperm tail 25.3 1.4E+02 0.0031 25.3 4.8 27 79-105 73-99 (104)
56 TIGR02015 BchY chlorophyllide 25.3 87 0.0019 33.2 4.1 41 346-392 240-280 (422)
57 TIGR00264 alpha-NAC-related pr 25.1 39 0.00086 30.6 1.4 24 373-396 93-116 (116)
58 PRK05244 Der GTPase activator; 24.9 1.6E+02 0.0036 28.5 5.5 52 49-100 95-153 (177)
59 PRK10227 DNA-binding transcrip 24.6 1.4E+02 0.003 26.9 4.8 45 351-395 55-99 (135)
60 PRK14478 nitrogenase molybdenu 24.0 1.2E+02 0.0027 32.4 5.0 49 347-395 271-319 (475)
61 cd04777 HTH_MerR-like_sg1 Heli 24.0 1.9E+02 0.004 24.5 5.2 46 351-396 53-102 (107)
62 PRK09514 zntR zinc-responsive 23.4 1.7E+02 0.0036 26.4 5.0 46 351-396 56-102 (140)
63 TIGR02051 MerR Hg(II)-responsi 23.2 1.7E+02 0.0037 25.7 4.9 44 351-396 54-97 (124)
64 PF07374 DUF1492: Protein of u 22.8 2.5E+02 0.0055 23.8 5.8 48 49-104 47-94 (100)
65 PRK09618 flgD flagellar basal 22.0 83 0.0018 29.4 2.9 39 226-265 88-126 (142)
66 PF07647 SAM_2: SAM domain (St 21.8 1.1E+02 0.0024 23.2 3.1 53 48-105 7-62 (66)
67 COG3877 Uncharacterized protei 21.4 83 0.0018 28.7 2.6 16 353-368 57-72 (122)
68 PRK06369 nac nascent polypepti 21.2 53 0.0012 29.7 1.4 24 373-396 91-114 (115)
69 COG0789 SoxR Predicted transcr 21.1 2.3E+02 0.0049 24.0 5.2 45 352-396 56-101 (124)
70 PF13812 PPR_3: Pentatricopept 20.9 2.4E+02 0.0051 17.9 4.2 30 60-93 2-32 (34)
71 CHL00102 rps20 ribosomal prote 20.8 2.2E+02 0.0047 24.9 5.0 38 353-390 29-68 (93)
72 KOG2070 Guanine nucleotide exc 20.4 1E+02 0.0022 34.6 3.5 38 353-390 244-284 (661)
73 PF14338 Mrr_N: Mrr N-terminal 20.4 2.4E+02 0.0051 23.4 5.0 41 60-102 4-44 (92)
74 PF09548 Spore_III_AB: Stage I 20.3 5.3E+02 0.011 23.9 7.8 60 40-100 63-126 (170)
75 COG2944 Predicted transcriptio 20.3 1.5E+02 0.0033 26.4 4.0 34 84-122 49-82 (104)
76 PF14013 MT0933_antitox: MT093 20.0 83 0.0018 24.5 2.1 27 373-399 2-28 (51)
No 1
>KOG4675 consensus Uncharacterized conserved protein, contains ENT domain [General function prediction only]
Probab=100.00 E-value=1.2e-53 Score=413.90 Aligned_cols=263 Identities=43% Similarity=0.705 Sum_probs=217.5
Q ss_pred chhhHHHHHHHHHHHHHHHHHHHHHhccCCCChHHHHHHHHHHHHhCCChHHHHHHHHHhchhHHHHHHHH-HHhhcCCC
Q 013410 46 MQNDMATQIHSVEQDAYSSVLRAFKAQSDAITWEKESLITELRKELRVSDEEHRELLSKVNADDIILRIRE-WRKASGLQ 124 (443)
Q Consensus 46 ~~~~~~~~Ih~LE~eAY~sVLrAF~AQS~~LSWeKE~LLTeLR~eL~ISdeEH~~~l~~v~~De~I~~iRe-~r~~gg~q 124 (443)
.+++|+.+||+||++||++||+||+||+++||||||++||+||++|+||+|||+++++++.+|+.|.+||+ |+..+..|
T Consensus 4 s~~~~~~~~~~le~eaY~~vl~af~aq~d~iS~ek~~~~teLrk~l~Is~eeh~~~~r~~~~d~~~~~i~~n~~~~n~~q 83 (273)
T KOG4675|consen 4 SRDEMEAQLHRLELEAYASVLRAFKAQGDAISWEKEELLTELRKELNISDEEHRMLVRRAINDDLITRIRENSRGSNKSQ 83 (273)
T ss_pred cchhHHHHHHHHHHHHHHHHHHHHHhcCcccchhHHHHHHHHhhhhccCHHHHHHHHHHHhccHHHHHHHHhhcCCCchh
Confidence 56799999999999999999999999999999999999999999999999999999999999999999994 66555433
Q ss_pred CCCCCCCCCCCCCCCCCcchhhhhhcccccccccCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCccc----CCCC
Q 013410 125 PGMPSIPQPVHDPAPSPTVSASRKKTKTSQSVASLSTGAPSPGMHPSVQPSSSALRPGPPPGSKGKKPKSFS----TGLA 200 (443)
Q Consensus 125 ~g~~~~~q~~hd~~PsPt~s~srKkqKts~s~ps~~~g~psp~~~p~~qpsssa~k~g~~p~~k~kK~k~~s----~~~~ 200 (443)
--.+ ......+..|+|+.+.++|+||+.++++++.+.+.+|+++|.+++. +.+.+++++ ..++
T Consensus 84 e~~~-e~~~~~~i~p~~~~sta~kiqkn~~~~~a~~~~~~~ps~~~t~~~~------------~~~~a~pss~s~~~p~~ 150 (273)
T KOG4675|consen 84 EWSG-EGRREWPIAPRPHPSTARKIQKNLLANKAIQHNAVLPSPIPTGPLT------------FNNTATPSSFSVPSPVS 150 (273)
T ss_pred hhhh-hhhhccccCCCcCchhHHHhhccccchhhhhcccCCCCccccCCcc------------cCcccccccccCCCCCC
Confidence 2111 1223456779999999999999999999999999999999877774 222222221 1111
Q ss_pred CCcccccCCCCCCCCCCCCCCcccCCccccceeecccCCCCCceeEEEee-cCCCCCceeeeecCCCccccchhhccccC
Q 013410 201 GRGQVANRGSSGAFPANGPSEAATYNPLIGRKVWTRWPEDNHFYEAVITD-YNPNEGRHALVYDINTADETWEWVNLKEI 279 (443)
Q Consensus 201 g~~q~~~r~~~~~~~~~~~~~~~~~~~LIGrkV~~~WPdDn~wyEavItd-Yn~~tg~H~LvYD~~t~~ETwEWVdL~ei 279 (443)
.|+ +.++ .+||||||+++||+++.|||++||+ |+..++.|+|+||+++.+++|+||||++|
T Consensus 151 ~~~-------------n~pp-----~slvgr~v~~k~pdk~~~te~iit~~~~~~E~~~~l~~~~~~~~~p~~wvdl~~I 212 (273)
T KOG4675|consen 151 SWG-------------NVPP-----ESLVGRKVWIKWPDKRKFTEAIITQYDAEKEGHHLLVPDINDCNDPWEWVDLREI 212 (273)
T ss_pred ccc-------------cCCc-----hhhccccccccCcccccccccccccchhhhhhhhhcccccccccCCccccccccC
Confidence 222 2233 5599999999999999999999999 77888999999999999999999999999
Q ss_pred CccCccccCCCCCccCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
Q 013410 280 SPEDIKWEGDEPGISRKGGRPGPGRGTKKPLTRGGGVSGAGRGRGTMKPKKGFPFSQNGIGKK 342 (443)
Q Consensus 280 sPedI~W~~e~pgi~~r~~~~g~g~g~~~~~~~~g~~~~~grgrg~~k~~k~~~~sqng~~~~ 342 (443)
+||||+|+++++++..+.+++++|.|..+.+.+++. ..+||+|..+ |+.+++.|||.+++
T Consensus 213 ~p~DIrw~g~~~~~~~~~~~~~~g~g~~~~t~~~~~--~~~~~~~~~~-~~~~~~~~ngg~~~ 272 (273)
T KOG4675|consen 213 SPEDIRWEGGDPGNPVAPNHSKPGTGTFNTTRRTQS--PGARGRGPRT-RTGIPKTQNGGGRK 272 (273)
T ss_pred CHHhccccCCCCCcccccCCCCCCcccccccCCccC--ccccCCCCcc-ccccccccCccccC
Confidence 999999999999999999999999999988877662 3345555444 78899999994443
No 2
>PF03735 ENT: ENT domain; InterPro: IPR005491 This entry represents a protein regulator which is able to repress transcription, possibly via its interaction with a multi protein chromatin re-modeling complex that modifies the chromatin. Its interaction with BRCA2 suggests that it may play a central role in the DNA repair function of BRCA2 []. ; PDB: 1UZ3_B 1UTU_B 2FMM_E.
Probab=99.93 E-value=2.1e-26 Score=187.00 Aligned_cols=72 Identities=57% Similarity=0.932 Sum_probs=63.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhccCCCChHHHHHHHHHHHHhCCChHHHHHHHHHhchhHHHHHHHHHHhhcC
Q 013410 50 MATQIHSVEQDAYSSVLRAFKAQSDAITWEKESLITELRKELRVSDEEHRELLSKVNADDIILRIREWRKASG 122 (443)
Q Consensus 50 ~~~~Ih~LE~eAY~sVLrAF~AQS~~LSWeKE~LLTeLR~eL~ISdeEH~~~l~~v~~De~I~~iRe~r~~gg 122 (443)
|+++||+||++||++||+||+||++ |||+||+|||+||++|+||||||++++++|.+|+.|++||+|+++++
T Consensus 1 ~~~~l~~LE~eAY~svl~Af~Aqg~-lsweke~lLt~Lr~~L~IS~e~H~~~l~~~~~De~l~~ir~~~~~~~ 72 (73)
T PF03735_consen 1 MERQLHRLELEAYSSVLRAFRAQGP-LSWEKEKLLTELRKELNISDEEHREELRRAVSDEQLKTIREWRQGGN 72 (73)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHSS---HHHHHHHHHHHHHTT--HHHHHHHHHHHHH-HHHHHHHHHHH-SS
T ss_pred ChHHHHHHHHHHHHHHHHHHHHcCC-CCHHHHHHHHHHHHHhCCCcHHHHHHHHHHhccHHHHHHHHHhhcCC
Confidence 6899999999999999999999965 99999999999999999999999999999999999999999999874
No 3
>PF09465 LBR_tudor: Lamin-B receptor of TUDOR domain; InterPro: IPR019023 The Lamin-B receptor is a chromatin and lamin binding protein in the inner nuclear membrane. It is one of the integral inner nuclear envelope membrane proteins responsible for targeting nuclear membranes to chromatin, being a downstream effector of Ran, a small Ras-like nuclear GTPase which regulates NE assembly. Lamin-B receptor interacts with importin beta, a Ran-binding protein, thereby directly contributing to the fusion of membrane vesicles and the formation of the nuclear envelope []. ; PDB: 2L8D_A 2DIG_A.
Probab=98.74 E-value=7.2e-09 Score=81.04 Aligned_cols=41 Identities=29% Similarity=0.627 Sum_probs=34.7
Q ss_pred cccceeecccCCCCCceeEEEeecCCCCCceeeeecCCCcc
Q 013410 228 LIGRKVWTRWPEDNHFYEAVITDYNPNEGRHALVYDINTAD 268 (443)
Q Consensus 228 LIGrkV~~~WPdDn~wyEavItdYn~~tg~H~LvYD~~t~~ 268 (443)
-+|++|+.+||+++-||||.|++||..+.+|.|.|++||..
T Consensus 7 ~~Ge~V~~rWP~s~lYYe~kV~~~d~~~~~y~V~Y~DGtel 47 (55)
T PF09465_consen 7 AIGEVVMVRWPGSSLYYEGKVLSYDSKSDRYTVLYEDGTEL 47 (55)
T ss_dssp -SS-EEEEE-TTTS-EEEEEEEEEETTTTEEEEEETTS-EE
T ss_pred cCCCEEEEECCCCCcEEEEEEEEecccCceEEEEEcCCCEE
Confidence 37899999999999999999999999999999999999984
No 4
>smart00743 Agenet Tudor-like domain present in plant sequences. Domain in plant sequences with possible chromatin-associated functions.
Probab=98.16 E-value=2.6e-06 Score=65.25 Aligned_cols=54 Identities=26% Similarity=0.395 Sum_probs=49.3
Q ss_pred cccceeecccCCCCCceeEEEeecCCCCCceeeeecC--CCccccchhhccccCCcc
Q 013410 228 LIGRKVWTRWPEDNHFYEAVITDYNPNEGRHALVYDI--NTADETWEWVNLKEISPE 282 (443)
Q Consensus 228 LIGrkV~~~WPdDn~wyEavItdYn~~tg~H~LvYD~--~t~~ETwEWVdL~eisPe 282 (443)
.+|.+|..+|++++.||+|+|+.++. ++++.|.|+. ...+|++++.+|+-+.|.
T Consensus 4 ~~G~~Ve~~~~~~~~W~~a~V~~~~~-~~~~~V~~~~~~~~~~e~v~~~~LRp~~~w 59 (61)
T smart00743 4 KKGDRVEVFSKEEDSWWEAVVTKVLG-DGKYLVRYLTESEPLKETVDWSDLRPHPPW 59 (61)
T ss_pred CCCCEEEEEECCCCEEEEEEEEEECC-CCEEEEEECCCCcccEEEEeHHHcccCCCC
Confidence 47899999999999999999999999 7789999999 778899999999988764
No 5
>smart00333 TUDOR Tudor domain. Domain of unknown function present in several RNA-binding proteins. 10 copies in the Drosophila Tudor protein. Initial proposal that the survival motor neuron gene product contain a Tudor domain are corroborated by more recent database search techniques such as PSI-BLAST (unpublished).
Probab=96.50 E-value=0.0051 Score=45.94 Aligned_cols=39 Identities=26% Similarity=0.399 Sum_probs=34.4
Q ss_pred ccccceeecccCCCCCceeEEEeecCCCCCceeeeecC-CCc
Q 013410 227 PLIGRKVWTRWPEDNHFYEAVITDYNPNEGRHALVYDI-NTA 267 (443)
Q Consensus 227 ~LIGrkV~~~WPdDn~wyEavItdYn~~tg~H~LvYD~-~t~ 267 (443)
.-+|..|..+| +|+.||.|+|+++++. +...|.|.+ ++.
T Consensus 3 ~~~G~~~~a~~-~d~~wyra~I~~~~~~-~~~~V~f~D~G~~ 42 (57)
T smart00333 3 FKVGDKVAARW-EDGEWYRARIIKVDGE-QLYEVFFIDYGNE 42 (57)
T ss_pred CCCCCEEEEEe-CCCCEEEEEEEEECCC-CEEEEEEECCCcc
Confidence 45788999999 9999999999999998 888888888 665
No 6
>PF09038 53-BP1_Tudor: Tumour suppressor p53-binding protein-1 Tudor; InterPro: IPR015125 This domain consist of ten beta-strands and a carboxy-terminal alpha-helix. The amino-terminal five beta-strands and the C-terminal five beta-strands adopt folds that are identical to each other. The domain is essential for the recruitment of proteins to double stranded breaks in DNA, which is mediated by interaction with methylated Lys 79 of histone H3 []. ; PDB: 3LGL_A 1XNI_B 3LGF_A 2G3R_A 2IG0_A 3LH0_A 1SSF_A.
Probab=95.62 E-value=0.0084 Score=54.02 Aligned_cols=41 Identities=20% Similarity=0.549 Sum_probs=34.0
Q ss_pred CccccceeecccCCCCCceeEEEeecCCCCCceeeeecCCCc
Q 013410 226 NPLIGRKVWTRWPEDNHFYEAVITDYNPNEGRHALVYDINTA 267 (443)
Q Consensus 226 ~~LIGrkV~~~WPdDn~wyEavItdYn~~tg~H~LvYD~~t~ 267 (443)
.+|||++|-.+|-+++-||-|+|+.. ...++..|.+|+++.
T Consensus 2 ~~~iG~rV~AkWS~n~yyY~G~I~~~-~~~~kykv~FdDG~~ 42 (122)
T PF09038_consen 2 SSFIGLRVFAKWSDNGYYYPGKITSD-KGKNKYKVLFDDGYE 42 (122)
T ss_dssp --STT-EEEEESSTTSEEEEEEEEEE-ETTTEEEEEETTS-E
T ss_pred CcccccEEEEEEccCCcccCceEeec-CCCCeEEEEecCCcc
Confidence 57999999999998888899999994 778999999999986
No 7
>cd04508 TUDOR Tudor domains are found in many eukaryotic organisms and have been implicated in protein-protein interactions in which methylated protein substrates bind to these domains. For example, the Tudor domain of Survival of Motor Neuron (SMN) binds to symmetrically dimethylated arginines of arginine-glycine (RG) rich sequences found in the C-terminal tails of Sm proteins. The SMN protein is linked to spinal muscular atrophy. Another example is the tandem tudor domains of 53BP1, which bind to histone H4 specifically dimethylated at Lys20 (H4-K20me2). 53BP1 is a key transducer of the DNA damage checkpoint signal.
Probab=94.61 E-value=0.057 Score=39.01 Aligned_cols=38 Identities=18% Similarity=0.443 Sum_probs=30.6
Q ss_pred cceeecccCCCCCceeEEEeecCCCCCceeeeecC-CCcc
Q 013410 230 GRKVWTRWPEDNHFYEAVITDYNPNEGRHALVYDI-NTAD 268 (443)
Q Consensus 230 GrkV~~~WPdDn~wyEavItdYn~~tg~H~LvYD~-~t~~ 268 (443)
|..+..+|++|+.||.|+|+..++ ++.-.+.|.+ ++.+
T Consensus 1 G~~c~a~~~~d~~wyra~V~~~~~-~~~~~V~f~DyG~~~ 39 (48)
T cd04508 1 GDLCLAKYSDDGKWYRAKITSILS-DGKVEVFFVDYGNTE 39 (48)
T ss_pred CCEEEEEECCCCeEEEEEEEEECC-CCcEEEEEEcCCCcE
Confidence 456788999999999999999998 5666666666 6653
No 8
>PF06003 SMN: Survival motor neuron protein (SMN); InterPro: IPR010304 This family consists of several eukaryotic survival motor neuron (SMN) proteins. The Survival of Motor Neurons (SMN) protein, the product of the spinal muscular atrophy-determining gene, is part of a large macromolecular complex (SMN complex) that functions in the assembly of spliceosomal small nuclear ribonucleoproteins (snRNPs). The SMN complex functions as a specificity factor essential for the efficient assembly of Sm proteins on U snRNAs and likely protects cells from illicit, and potentially deleterious, non-specific binding of Sm proteins to RNAs.; GO: 0003723 RNA binding, 0006397 mRNA processing, 0005634 nucleus, 0005737 cytoplasm; PDB: 1MHN_A 4A4G_A 3S6N_M 4A4E_A 1G5V_A 4A4H_A 4A4F_A 2D9T_A.
Probab=87.15 E-value=0.7 Score=45.97 Aligned_cols=52 Identities=27% Similarity=0.521 Sum_probs=39.1
Q ss_pred cccceeecccCCCCCceeEEEeecCCCCCceeeeecCCCccccchhhccccCCcc
Q 013410 228 LIGRKVWTRWPEDNHFYEAVITDYNPNEGRHALVYDINTADETWEWVNLKEISPE 282 (443)
Q Consensus 228 LIGrkV~~~WPdDn~wyEavItdYn~~tg~H~LvYD~~t~~ETwEWVdL~eisPe 282 (443)
-||-+++..|-+|..||+|+|+.-+...+.-.|+|+--.-. |.|.|.+|=|.
T Consensus 70 kvGd~C~A~~s~Dg~~Y~A~I~~i~~~~~~~~V~f~gYgn~---e~v~l~dL~~~ 121 (264)
T PF06003_consen 70 KVGDKCMAVYSEDGQYYPATIESIDEEDGTCVVVFTGYGNE---EEVNLSDLKPS 121 (264)
T ss_dssp -TT-EEEEE-TTTSSEEEEEEEEEETTTTEEEEEETTTTEE---EEEEGGGEEET
T ss_pred CCCCEEEEEECCCCCEEEEEEEEEcCCCCEEEEEEcccCCe---Eeeehhhhccc
Confidence 38899999999999999999999999999888888764322 45666666433
No 9
>KOG3026 consensus Splicing factor SPF30 [RNA processing and modification]
Probab=86.48 E-value=0.57 Score=46.87 Aligned_cols=36 Identities=28% Similarity=0.556 Sum_probs=32.2
Q ss_pred cccceeecccCCCCCceeEEEeecCCCCCceeeeec
Q 013410 228 LIGRKVWTRWPEDNHFYEAVITDYNPNEGRHALVYD 263 (443)
Q Consensus 228 LIGrkV~~~WPdDn~wyEavItdYn~~tg~H~LvYD 263 (443)
-||.||...|+||..||+|+|.+-.+.++.-+|.++
T Consensus 92 ~vg~K~~A~~~ddg~~y~AtIe~ita~~~~~ai~f~ 127 (262)
T KOG3026|consen 92 KVGDKVQAVFSDDGQIYDATIEHITAMEGTVAIIFA 127 (262)
T ss_pred ccCCEEEEeecCCCceEEeehhhccCCCCceeEEEe
Confidence 479999999999999999999999998887777654
No 10
>KOG4675 consensus Uncharacterized conserved protein, contains ENT domain [General function prediction only]
Probab=83.64 E-value=14 Score=37.85 Aligned_cols=38 Identities=8% Similarity=-0.218 Sum_probs=32.7
Q ss_pred CCCCCcccCCccccceeecccCCCCCceeEEEeecCCC
Q 013410 217 NGPSEAATYNPLIGRKVWTRWPEDNHFYEAVITDYNPN 254 (443)
Q Consensus 217 ~~~~~~~~~~~LIGrkV~~~WPdDn~wyEavItdYn~~ 254 (443)
....+++...+.+++.++..|+-|+++|+..+.-||..
T Consensus 173 ~~~te~iit~~~~~~E~~~~l~~~~~~~~~p~~wvdl~ 210 (273)
T KOG4675|consen 173 RKFTEAIITQYDAEKEGHHLLVPDINDCNDPWEWVDLR 210 (273)
T ss_pred ccccccccccchhhhhhhhhcccccccccCCccccccc
Confidence 34556777788999999999999999999999999974
No 11
>PLN00104 MYST -like histone acetyltransferase; Provisional
Probab=76.00 E-value=15 Score=39.93 Aligned_cols=59 Identities=17% Similarity=0.297 Sum_probs=42.7
Q ss_pred ccccceeecccCCCCCceeEEEeecCCCC------CceeeeecCCCccccchhhccccCCccCccc
Q 013410 227 PLIGRKVWTRWPEDNHFYEAVITDYNPNE------GRHALVYDINTADETWEWVNLKEISPEDIKW 286 (443)
Q Consensus 227 ~LIGrkV~~~WPdDn~wyEavItdYn~~t------g~H~LvYD~~t~~ETwEWVdL~eisPedI~W 286 (443)
--||-+|..+|..|..||+|.|.+-.... .++-|-|.--+.. --|||+...|....++.
T Consensus 54 ~~VGekVla~~~~Dg~~~~A~VI~~R~~~~~~~~~~~YYVHY~g~nrR-lDEWV~~~rLdls~~e~ 118 (450)
T PLN00104 54 LEVGTRVMCRWRFDGKYHPVKVIERRRGGSGGPNDYEYYVHYTEFNRR-LDEWVKLEQLDLDTVET 118 (450)
T ss_pred eccCCEEEEEECCCCCEEEEEEEEEeccCCCCCCCceEEEEEecCCcc-HhhccCHhhcccccccc
Confidence 35899999999999999999999988733 3466667643322 12699988886555544
No 12
>PF11717 Tudor-knot: RNA binding activity-knot of a chromodomain ; PDB: 2EKO_A 2RO0_A 2RNZ_A 1WGS_A 3E9G_A 3E9F_A 2K3X_A 2K3Y_A 2EFI_A 2F5K_F ....
Probab=74.60 E-value=3.3 Score=31.83 Aligned_cols=49 Identities=31% Similarity=0.530 Sum_probs=35.2
Q ss_pred ccceeecccCCCCCceeEEEeecCCCCC--ceeeeecCCCccccchhhccccC
Q 013410 229 IGRKVWTRWPEDNHFYEAVITDYNPNEG--RHALVYDINTADETWEWVNLKEI 279 (443)
Q Consensus 229 IGrkV~~~WPdDn~wyEavItdYn~~tg--~H~LvYD~~t~~ETwEWVdL~ei 279 (443)
||-+|..+| .++.||+|.|.+-+...+ +..|-|. +-..---|||....|
T Consensus 3 vG~~v~~~~-~~~~~y~A~I~~~r~~~~~~~YyVHY~-g~nkR~DeWV~~~~i 53 (55)
T PF11717_consen 3 VGEKVLCKY-KDGQWYEAKILDIREKNGEPEYYVHYQ-GWNKRLDEWVPESRI 53 (55)
T ss_dssp TTEEEEEEE-TTTEEEEEEEEEEEECTTCEEEEEEET-TSTGCC-EEEETTTE
T ss_pred cCCEEEEEE-CCCcEEEEEEEEEEecCCCEEEEEEcC-CCCCCceeeecHHHc
Confidence 788999999 889999999999888654 3445555 333334568876654
No 13
>PF02970 TBCA: Tubulin binding cofactor A; InterPro: IPR004226 The folding pathway of tubulins includes highly specific interactions with a series of cofactors (A, B, C, D and E) after they are released from the eukaryotic chaperonin CCT. Cofactors A and D capture and stabilise tubulin in a quasi-native conformation. Cofactor E binds to the cofactor D-tubulin complex, and interaction with cofactor C then causes the release of tubulin poypeptides in the native state. This family is the tubulin-specific chaperone A.; GO: 0051082 unfolded protein binding, 0007021 tubulin complex assembly, 0005874 microtubule; PDB: 3MXZ_A 1QSD_A 1H7C_A.
Probab=65.19 E-value=16 Score=31.10 Aligned_cols=37 Identities=24% Similarity=0.460 Sum_probs=29.1
Q ss_pred HHH--hhcCCCChhhHHHHHHHHHHHHHHHHHHHHHhcc
Q 013410 360 EKV--FAANHPDPTDVEKAKRVLKEQELALVNAIAKLED 396 (443)
Q Consensus 360 erv--f~~~~pDp~eiEkAKk~LkehEqaL~dAIArL~e 396 (443)
+|| |-+.+.|+.+|-+.+.+|+|.+.-|-|...||..
T Consensus 28 ~rle~~k~~~~de~~iKkq~~vl~Et~~mipd~~~RL~~ 66 (90)
T PF02970_consen 28 ARLEKMKAEGEDEYDIKKQEEVLEETKMMIPDCQQRLEK 66 (90)
T ss_dssp HHHHHHHHCTTSHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHhcCCcHHHHHHHHHHHHHHHHHhHHHHHHHHH
Confidence 445 4566779999999999999998887777766654
No 14
>PF15315 FRG2: Facioscapulohumeral muscular dystrophy candidate 2
Probab=59.81 E-value=35 Score=33.03 Aligned_cols=46 Identities=22% Similarity=0.490 Sum_probs=38.1
Q ss_pred chhhHHHHHHHHHHHHHHHHHHHHHhcc-CCCChHHHHHHHHHHHHh
Q 013410 46 MQNDMATQIHSVEQDAYSSVLRAFKAQS-DAITWEKESLITELRKEL 91 (443)
Q Consensus 46 ~~~~~~~~Ih~LE~eAY~sVLrAF~AQS-~~LSWeKE~LLTeLR~eL 91 (443)
+...+..-|+.|--.-|..+.+.-+-|- .+||||+-.+|+.||--|
T Consensus 111 lRKsLVtslR~~SEaIYqD~aq~~aQq~~spLt~EQl~~L~qL~gpL 157 (181)
T PF15315_consen 111 LRKSLVTSLRAMSEAIYQDLAQVQAQQHHSPLTWEQLSQLAQLRGPL 157 (181)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCCHHHHHHHHHhccHH
Confidence 5568889999999999998887766553 369999999999999776
No 15
>PF14717 DUF4465: Domain of unknown function (DUF4465); PDB: 4E9K_A.
Probab=58.45 E-value=5.9 Score=37.96 Aligned_cols=41 Identities=27% Similarity=0.685 Sum_probs=24.8
Q ss_pred CCCCceeEEEeecCCC----CCceeeeecCCC----ccccchhhccccCC
Q 013410 239 EDNHFYEAVITDYNPN----EGRHALVYDINT----ADETWEWVNLKEIS 280 (443)
Q Consensus 239 dDn~wyEavItdYn~~----tg~H~LvYD~~t----~~ETwEWVdL~eis 280 (443)
.++.||.-+|+-||.. +-+|-|. |--+ .-.+|.||||+.+.
T Consensus 104 ~~gD~fkl~i~G~d~~g~~~~ve~yLA-dyr~~~~~iv~~W~~vDLssLg 152 (182)
T PF14717_consen 104 EDGDYFKLTITGYDADGSTGTVEFYLA-DYRNDKDYIVDDWQWVDLSSLG 152 (182)
T ss_dssp -TT-EEEEEEEETTSS----EEEEEEE-ETTE----E--S-EEEE-GGG-
T ss_pred CCCCEEEEEEEEecCccccceEEEEEe-ecccccceeecceeEEeccccC
Confidence 4578999999999986 4445554 2222 44799999999873
No 16
>PF15057 DUF4537: Domain of unknown function (DUF4537)
Probab=55.00 E-value=16 Score=32.57 Aligned_cols=31 Identities=29% Similarity=0.462 Sum_probs=25.7
Q ss_pred cceeecccCCCCCceeEEEeecCCCCCceeeee
Q 013410 230 GRKVWTRWPEDNHFYEAVITDYNPNEGRHALVY 262 (443)
Q Consensus 230 GrkV~~~WPdDn~wyEavItdYn~~tg~H~LvY 262 (443)
|.+|-.||..|+-||-|+|..+= +..|.||=
T Consensus 1 g~~VlAR~~~DG~YY~GtV~~~~--~~~~~lV~ 31 (124)
T PF15057_consen 1 GQKVLARREEDGFYYPGTVKKCV--SSGQFLVE 31 (124)
T ss_pred CCeEEEeeCCCCcEEeEEEEEcc--CCCEEEEE
Confidence 67899999999999999999997 45555553
No 17
>TIGR02612 mob_myst_A mobile mystery protein A. Members of this protein family are found in mobization-related contexts more often than not, including within a CRISPR-associated gene region in Geobacter sulfurreducens PCA, and on plasmids in Agrobacterium tumefaciens and Coxiella burnetii, always together with mobile mystery protein B, a member of the Fic protein family (pfam02661). This protein is encoded by the upstream member of the gene pair and belongs to a family of helix-turn-helix DNA binding proteins (pfam01381).
Probab=54.89 E-value=20 Score=33.27 Aligned_cols=47 Identities=23% Similarity=0.249 Sum_probs=39.5
Q ss_pred HHHHHHHHHHHHHHHhccCCCChHHHHHHHHHHHHhCCChHHHHHHHH
Q 013410 56 SVEQDAYSSVLRAFKAQSDAITWEKESLITELRKELRVSDEEHRELLS 103 (443)
Q Consensus 56 ~LE~eAY~sVLrAF~AQS~~LSWeKE~LLTeLR~eL~ISdeEH~~~l~ 103 (443)
.|.++.|...|.+|+.- +.+++.++..|..+|+++++|.++=-+.+.
T Consensus 3 ~~~~~q~~~~l~~~~~~-~~~~~p~~~~Ir~~R~~lGmTq~eLAerlG 49 (150)
T TIGR02612 3 KLALRQLDQRLVALAGA-GAIQTPKEGWVRAIRKALGMSGAQLAGRLG 49 (150)
T ss_pred HHHHHHHHHHHHHHhhc-cccccCcHHHHHHHHHHcCCCHHHHHHHhC
Confidence 56788899999998774 789999999999999999999887655443
No 18
>PF05641 Agenet: Agenet domain; InterPro: IPR008395 This domain is related to the TUDOR domain IPR008191 from INTERPRO []. The function of the agenet domain is unknown. This signature matches one of the two Agenet domains in the FMR proteins [].; GO: 0003723 RNA binding; PDB: 2BKD_N 3O8V_A 3KUF_A 3H8Z_A.
Probab=49.68 E-value=10 Score=30.15 Aligned_cols=38 Identities=21% Similarity=0.422 Sum_probs=26.8
Q ss_pred CCceeEEEeecCCCCCceeeeecCCCcc-c----cchhhccccC
Q 013410 241 NHFYEAVITDYNPNEGRHALVYDINTAD-E----TWEWVNLKEI 279 (443)
Q Consensus 241 n~wyEavItdYn~~tg~H~LvYD~~t~~-E----TwEWVdL~ei 279 (443)
..||.|+|.+.+... +..+.|+.-..+ + .=|||+++.|
T Consensus 18 gaWf~a~V~~~~~~~-~~~V~Y~~~~~~~~~~~~l~e~V~~~~i 60 (68)
T PF05641_consen 18 GAWFPATVLKENGDD-KYLVEYDDLPDEDGESPPLKEWVDARRI 60 (68)
T ss_dssp -EEEEEEEEEEETT--EEEEEETT-SS--------EEEEEGGGE
T ss_pred cEEEEEEEEEeCCCc-EEEEEECCcccccccccccEEEechheE
Confidence 579999999999977 999999655433 2 3578887775
No 19
>COG3078 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=46.80 E-value=51 Score=31.46 Aligned_cols=53 Identities=21% Similarity=0.351 Sum_probs=39.9
Q ss_pred hHHHHHHHHHHHHH-HHHHHHHHhccCCCChHHH-------HHHHHHHHHhCCChHHHHHHH
Q 013410 49 DMATQIHSVEQDAY-SSVLRAFKAQSDAITWEKE-------SLITELRKELRVSDEEHRELL 102 (443)
Q Consensus 49 ~~~~~Ih~LE~eAY-~sVLrAF~AQS~~LSWeKE-------~LLTeLR~eL~ISdeEH~~~l 102 (443)
+-..+|..||.++- .++|-+|-| ...|+-+.. .-|.+|+.+|+||+++...-|
T Consensus 96 ~p~~EL~~LEnde~L~~LLdrLda-getLs~edQ~~VD~~LDRI~~LMe~LGl~~dddEdDl 156 (169)
T COG3078 96 SPQAELELLENDERLDALLDRLDA-GETLSAEDQQWVDAKLDRIDELMEKLGLSYDDDEDDL 156 (169)
T ss_pred CHHHHHHHhhhhHHHHHHHHHhhc-cCcccHHHHHHHHHHHHHHHHHHHHhCCccCCchHHH
Confidence 44578899998876 677888888 467775543 347899999999998875543
No 20
>TIGR01588 citE citrate lyase, beta subunit. This is a model of the beta subunit of the holoenzyme citrate lyase (EC 4.1.3.6) composed of alpha (EC 2.8.3.10), beta (EC 4.1.3.34), and acyl carrier protein subunits in a stoichiometric relationship of 6:6:6. Citrate lyase is an enzyme which converts citrate to oxaloacetate. In bacteria, this reaction is involved in citrate fermentation. The beta subunit catalyzes the reaction (3S)-citryl-CoA = acetyl-CoA + oxaloacetate. The seed contains an experimentally characterized member from Leuconostoc mesenteroides. The model covers a wide range of Gram positive bacteria. For Gram negative bacteria, it appears that only gamma proteobacteria hit this model. The model is quite robust with queries scoring either quite well or quite poorly against the model. There are currently no hits in-between the noise cutoff and trusted cutoff.
Probab=43.41 E-value=26 Score=34.97 Aligned_cols=28 Identities=39% Similarity=0.580 Sum_probs=23.5
Q ss_pred HHHHHHHhhcCCCChhhHHHHHHHHHHHHHH
Q 013410 356 IKEVEKVFAANHPDPTDVEKAKRVLKEQELA 386 (443)
Q Consensus 356 ikeVervf~~~~pDp~eiEkAKk~LkehEqa 386 (443)
|.-|.++|+ |.+.||++|+++|+..|++
T Consensus 226 i~~in~~f~---Ps~~ei~~A~~i~~a~~~~ 253 (288)
T TIGR01588 226 IELVHKVYA---PTEKEIDKAIEVIAAAEEA 253 (288)
T ss_pred HHHHHHhcC---cCHHHHHHHHHHHHHHHHH
Confidence 445777886 9999999999999988875
No 21
>cd01108 HTH_CueR Helix-Turn-Helix DNA binding domain of CueR-like transcription regulators. Helix-turn-helix (HTH) transcription regulators CueR and ActP, copper efflux regulators. In Bacillus subtilis, copper induced CueR regulates the copZA operon, preventing copper toxicity. In Rhizobium leguminosarum, ActP controls copper homeostasis; it detects cytoplasmic copper stress and activates transcription in response to increasing copper concentrations. These proteins are comprised of two distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their conserved N-terminal domains contain winged HTH motifs that mediate DNA binding, while the C-terminal domains have two conserved cysteines that define a monovalent copper ion binding site. These proteins share the N-terminal DNA binding domain with other transcription regulators of the MerR superfamily that promote transcription by reconfiguring the spacer between the -35 and -10 promoter elements
Probab=42.10 E-value=44 Score=29.42 Aligned_cols=46 Identities=17% Similarity=0.172 Sum_probs=33.0
Q ss_pred cchhHHHHHHHHhhcCCCChhhHHHHHHHHHHHHHHHHHHHHHhcc
Q 013410 351 HTETLIKEVEKVFAANHPDPTDVEKAKRVLKEQELALVNAIAKLED 396 (443)
Q Consensus 351 ~T~slikeVervf~~~~pDp~eiEkAKk~LkehEqaL~dAIArL~e 396 (443)
+.+-=++|+.++|.....+....+..+.+|++|.+.|-..|++|..
T Consensus 55 ~~G~sL~eI~~~l~~~~~~~~~~~~~~~~l~~~~~~l~~~i~~L~~ 100 (127)
T cd01108 55 DLGFSLEEIRELLALWRDPSRASADVKALALEHIAELERKIAELQA 100 (127)
T ss_pred HcCCCHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 5566688999988743333334567788999999988888888764
No 22
>cd00592 HTH_MerR-like Helix-Turn-Helix DNA binding domain of MerR-like transcription regulators. Helix-turn-helix (HTH) MerR-like transcription regulator, N-terminal domain. The MerR family transcription regulators have been shown to mediate responses to stress including exposure to heavy metals, drugs, or oxygen radicals in eubacterial and some archaeal species. They regulate transcription of multidrug/metal ion transporter genes and oxidative stress regulons by reconfiguring the spacer between the -35 and -10 promoter elements. A typical MerR regulator is comprised of two distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their N-terminal domains are homologous and contain a DNA-binding winged HTH motif, while the C-terminal domains are often dissimilar and bind specific coactivator molecules such as metal ions, drugs, and organic substrates.
Probab=41.10 E-value=67 Score=26.49 Aligned_cols=43 Identities=23% Similarity=0.327 Sum_probs=34.2
Q ss_pred hhHHHHHHHHhhcCCCChhhHHHHHHHHHHHHHHHHHHHHHhcc
Q 013410 353 ETLIKEVEKVFAANHPDPTDVEKAKRVLKEQELALVNAIAKLED 396 (443)
Q Consensus 353 ~slikeVervf~~~~pDp~eiEkAKk~LkehEqaL~dAIArL~e 396 (443)
+.=++||.+++.....+.. ++..+.+|+.|-+.|...|..|.-
T Consensus 56 g~~~~~i~~~l~~~~~~~~-~~~~~~~~~~~~~~l~~~~~~l~~ 98 (100)
T cd00592 56 GLSLKEIRELLDARDEELS-LAALLALLDEKLAELEEKIARLEA 98 (100)
T ss_pred CCCHHHHHHHHhcccccch-HHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3347889999875554444 999999999999999999988863
No 23
>PF02828 L27: L27 domain; InterPro: IPR014775 The L27 domain is found in receptor targeting proteins Lin-2 and Lin-7, as well as some protein kinases and human MPP2 protein.; PDB: 1ZL8_B 1VA8_A 3LRA_A 3UIT_A 1Y74_D 1RSO_B.
Probab=40.37 E-value=67 Score=24.57 Aligned_cols=36 Identities=19% Similarity=0.158 Sum_probs=31.7
Q ss_pred HHHHHHHHHHhCCChHHHHHHHHHhchhHHHHHHHHH
Q 013410 81 ESLITELRKELRVSDEEHRELLSKVNADDIILRIREW 117 (443)
Q Consensus 81 E~LLTeLR~eL~ISdeEH~~~l~~v~~De~I~~iRe~ 117 (443)
.++|++|...+..+ .+...+|.+|-++++++.|++.
T Consensus 6 ~e~L~~L~~~~~~~-~~~~~eL~~lL~~p~~~aLl~~ 41 (56)
T PF02828_consen 6 LELLEELQSLSSAS-QEDAQELQQLLQSPHFQALLEV 41 (56)
T ss_dssp HHHHHHHHHHTSST-HHHHHHHHHHHHSHHHHHHHHH
T ss_pred HHHHHHHHhccCCC-hHHHHHHHHHHcCHHHHHHHHH
Confidence 36788999999998 7888899999999999999985
No 24
>PF07104 DUF1366: Protein of unknown function (DUF1366); InterPro: IPR009796 This entry is represented by Streptococcus phage 7201, Orf40. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. This family consists of several hypothetical Streptococcus thermophilus bacteriophage proteins of around 130 residues in length. One of the sequences in this family, from phage Sfi11 (O80186 from SWISSPROT) is known as Gp149. The function of this family is unknown.
Probab=40.26 E-value=69 Score=29.00 Aligned_cols=45 Identities=24% Similarity=0.327 Sum_probs=32.4
Q ss_pred hhHHHHHHHHhh-cCCCChhhHHH-----------------HHHHHHHHHHHHHHHHHHhccc
Q 013410 353 ETLIKEVEKVFA-ANHPDPTDVEK-----------------AKRVLKEQELALVNAIAKLEDA 397 (443)
Q Consensus 353 ~slikeVervf~-~~~pDp~eiEk-----------------AKk~LkehEqaL~dAIArL~ea 397 (443)
..||+.++.+|- .+.|+-++-|| ++++++.-...|+++|+.|-+.
T Consensus 46 ~ELi~~ale~iy~e~~p~rA~~Ekf~kvd~~l~k~~~~~~K~e~~~k~~~~tl~~lI~~~~~~ 108 (116)
T PF07104_consen 46 TELIELALEMIYQENFPQRAENEKFQKVDEKLEKMKAQIDKVEKATKTAQATLNDLIATLYEK 108 (116)
T ss_pred HHHHHHHHHHHHHHhchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhc
Confidence 457888888754 88888765554 4456667777889999988764
No 25
>cd04769 HTH_MerR2 Helix-Turn-Helix DNA binding domain of MerR2-like transcription regulators. Helix-turn-helix (HTH) transcription regulator MerR2 and related proteins. MerR2 in Bacillus cereus RC607 regulates resistance to organomercurials. The MerR family transcription regulators have been shown to mediate responses to stress including exposure to heavy metals, drugs, or oxygen radicals in eubacterial and some archaeal species. They regulate transcription by reconfiguring the spacer between the -35 and -10 promoter elements. A typical MerR regulator is comprised of two distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their N-terminal domains are homologous and contain a DNA-binding winged HTH motif, while the C-terminal domains are often dissimilar and bind specific coactivator molecules such as metal ions, drugs, and organic substrates.
Probab=38.16 E-value=64 Score=27.89 Aligned_cols=46 Identities=13% Similarity=0.239 Sum_probs=35.6
Q ss_pred cchhHHHHHHHHhhc-CCCChhhHHHHHHHHHHHHHHHHHHHHHhcc
Q 013410 351 HTETLIKEVEKVFAA-NHPDPTDVEKAKRVLKEQELALVNAIAKLED 396 (443)
Q Consensus 351 ~T~slikeVervf~~-~~pDp~eiEkAKk~LkehEqaL~dAIArL~e 396 (443)
..+--|+|+..+|.. ...++.-.++.+.+|.++.+.|-+.|++|.+
T Consensus 54 ~~G~sl~eI~~~l~~~~~~~~~~~~~~~~~l~~~~~~l~~~i~~l~~ 100 (116)
T cd04769 54 QLGFTLAELKAIFAGHEGRAVLPWPHLQQALEDKKQEIRAQITELQQ 100 (116)
T ss_pred HcCCCHHHHHHHHhccccCCcCcHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 456668999999873 2333455678899999999999999998874
No 26
>cd04782 HTH_BltR Helix-Turn-Helix DNA binding domain of the BltR transcription regulator. Helix-turn-helix (HTH) multidrug-efflux transporter transcription regulator, BltR (BmrR-like transporter) of Bacillus subtilis, and related proteins; N-terminal domain. Blt, like Bmr, is a membrane protein which causes the efflux of a variety of toxic substances and antibiotics. These regulators are comprised of two distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their conserved N-terminal domains contain predicted winged HTH motifs that mediate DNA binding, while the C-terminal domains are often unrelated and bind specific coactivator molecules. They share the N-terminal DNA binding domain with other transcription regulators of the MerR superfamily that promote transcription by reconfiguring the spacer between the -35 and -10 promoter elements.
Probab=37.66 E-value=69 Score=26.96 Aligned_cols=42 Identities=19% Similarity=0.311 Sum_probs=33.1
Q ss_pred cchhHHHHHHHHhhcCCCChhhHHHHHHHHHHHHHHHHHHHHHhccc
Q 013410 351 HTETLIKEVEKVFAANHPDPTDVEKAKRVLKEQELALVNAIAKLEDA 397 (443)
Q Consensus 351 ~T~slikeVervf~~~~pDp~eiEkAKk~LkehEqaL~dAIArL~ea 397 (443)
..+-=|+|+..++... + ++..+++|++|.+.|-..|++|..+
T Consensus 55 ~~G~~l~eI~~~l~~~--~---~~~~~~~l~~~~~~l~~~i~~l~~~ 96 (97)
T cd04782 55 ELGISLKEIKDYLDNR--N---PDELIELLKKQEKEIKEEIEELQKI 96 (97)
T ss_pred HcCCCHHHHHHHHhcC--C---HHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 4455578999988732 3 4678999999999999999999754
No 27
>KOG2456 consensus Aldehyde dehydrogenase [Energy production and conversion]
Probab=35.94 E-value=68 Score=35.06 Aligned_cols=40 Identities=20% Similarity=0.468 Sum_probs=32.5
Q ss_pred hHHHHHHHHhhcCCCChhh-----HHHHHHHHHHHHHHHHHHHHH
Q 013410 354 TLIKEVEKVFAANHPDPTD-----VEKAKRVLKEQELALVNAIAK 393 (443)
Q Consensus 354 slikeVervf~~~~pDp~e-----iEkAKk~LkehEqaL~dAIAr 393 (443)
..++++..-|.+..--|+| +++-+++++|||+.|++|+++
T Consensus 6 ~~v~~~R~~F~sGrtr~~efR~~QL~~L~r~i~e~e~~i~~Al~~ 50 (477)
T KOG2456|consen 6 ETVRRLRLAFSSGRTRPLEFRKQQLEALYRMIQENEKEIIEALAA 50 (477)
T ss_pred HHHHHHHHHHhcCCcCChHHHHHHHHHHHHHHHhhHHHHHHHHHH
Confidence 3477888888877666665 677789999999999999985
No 28
>cd04785 HTH_CadR-PbrR-like Helix-Turn-Helix DNA binding domain of the CadR- and PbrR-like transcription regulators. Helix-turn-helix (HTH) CadR- and PbrR-like transcription regulators. CadR and PbrR regulate expression of the cadmium and lead resistance operons, respectively. These proteins are comprised of distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their conserved N-terminal domains contain predicted winged HTH motifs that mediate DNA binding, while the C-terminal domains have three conserved cysteines which comprise a putative metal binding site. Some members in this group have a histidine-rich C-terminal extension. These proteins share the N-terminal DNA binding domain with other transcription regulators of the MerR superfamily that promote transcription by reconfiguring the spacer between the -35 and -10 promoter elements.
Probab=35.54 E-value=63 Score=28.36 Aligned_cols=47 Identities=13% Similarity=0.163 Sum_probs=33.1
Q ss_pred cchhHHHHHHHHhhcCCCChhhHHHHHHHHHHHHHHHHHHHHHhccc
Q 013410 351 HTETLIKEVEKVFAANHPDPTDVEKAKRVLKEQELALVNAIAKLEDA 397 (443)
Q Consensus 351 ~T~slikeVervf~~~~pDp~eiEkAKk~LkehEqaL~dAIArL~ea 397 (443)
.++--++|+..+|...........+++.+|++|-+.|-..|++|..+
T Consensus 55 ~~G~sL~eI~~~l~~~~~~~~~~~~~~~~l~~~~~~l~~~i~~L~~~ 101 (126)
T cd04785 55 DLGFSLEEIRALLALSDRPDRSCAEADAIARAHLADVRARIADLRRL 101 (126)
T ss_pred HCCCCHHHHHHHHhhhhcCCCCHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 45566888999887432222346777888998888888888887653
No 29
>cd04770 HTH_HMRTR Helix-Turn-Helix DNA binding domain of Heavy Metal Resistance transcription regulators. Helix-turn-helix (HTH) heavy metal resistance transcription regulators (HMRTR): MerR1 (mercury), CueR (copper), CadR (cadmium), PbrR (lead), ZntR (zinc), and other related proteins. These transcription regulators mediate responses to heavy metal stress in eubacteria. They belong to the MerR superfamily of transcription regulators that promote transcription of various stress regulons by reconfiguring the operator sequence located between the -35 and -10 promoter elements. A typical MerR regulator is comprised of two distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their N-terminal domains are homologous and contain a DNA-binding winged HTH motif, while the C-terminal domains are often dissimilar and bind specific coactivator molecules such as metal ions, drugs, and organic substrates.
Probab=34.64 E-value=76 Score=27.39 Aligned_cols=47 Identities=13% Similarity=0.215 Sum_probs=31.9
Q ss_pred cchhHHHHHHHHhhcCCCChhhHHHHHHHHHHHHHHHHHHHHHhccc
Q 013410 351 HTETLIKEVEKVFAANHPDPTDVEKAKRVLKEQELALVNAIAKLEDA 397 (443)
Q Consensus 351 ~T~slikeVervf~~~~pDp~eiEkAKk~LkehEqaL~dAIArL~ea 397 (443)
..+-=++|+..+|......-...+..+.+|+++.+.|-..|++|..+
T Consensus 55 ~~G~sl~eI~~~l~~~~~~~~~~~~~~~~l~~~~~~l~~~i~~l~~~ 101 (123)
T cd04770 55 ALGFSLAEIRELLSLRDDGAAPCAEVRALLEEKLAEVEAKIAELQAL 101 (123)
T ss_pred HCCCCHHHHHHHHHhhhcCCCCHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34444788888887433222335677888888888888888877643
No 30
>KOG1328 consensus Synaptic vesicle protein BAIAP3, involved in vesicle priming/regulation [Intracellular trafficking, secretion, and vesicular transport; Signal transduction mechanisms]
Probab=34.47 E-value=50 Score=38.47 Aligned_cols=57 Identities=21% Similarity=0.303 Sum_probs=50.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHhccCCCChHHHHHHHHHHHHhCCChHHHHHHHHHhchhH
Q 013410 51 ATQIHSVEQDAYSSVLRAFKAQSDAITWEKESLITELRKELRVSDEEHRELLSKVNADD 109 (443)
Q Consensus 51 ~~~Ih~LE~eAY~sVLrAF~AQS~~LSWeKE~LLTeLR~eL~ISdeEH~~~l~~v~~De 109 (443)
..+|..|+-+|-+-|+.++-+ +.+-=.+|.|+..+|+.|+++-+||-+...++...+
T Consensus 54 ~~~~e~ly~ealytvl~~~g~--~d~e~~~e~l~sy~~~~fg~~~~eh~~~~e~v~~~k 110 (1103)
T KOG1328|consen 54 KKQIEALYVEALYTITHKLGQ--GDVEESQESLYKYVRNAFGGDAAEHNALMEKVKQNK 110 (1103)
T ss_pred HHHHHHHhhhhHHhhhHhhcC--CcchhhhhHHHHHHHHHhCCCHhHhhhccccccCCC
Confidence 478899999999999999984 788889999999999999999999998888776554
No 31
>PF07039 DUF1325: SGF29 tudor-like domain; InterPro: IPR010750 SAGA-associated factor 29 is involved in transcriptional regulation, probably through association with histone acetyltransferase (HAT) complexes like the TFTC-HAT or STAGA complexes. It also may be involved in MYC-mediated oncogenic transformation. It is a component of the ATAC complex, which is a complex with histone acetyltransferase activity on histones H3 and H4 []. This entry represents a domain found in yeast and human SAGA-associated factor 29 proteins that is related to the tudor domain. ; PDB: 3MP6_A 3MP1_A 3MP8_A 3MET_B 3ME9_A 3MEU_B 3MEA_A 3MEV_B 3LX7_A 3MEW_A.
Probab=34.27 E-value=67 Score=29.06 Aligned_cols=43 Identities=21% Similarity=0.441 Sum_probs=32.8
Q ss_pred ccceeecccCCCCCceeEEEeecC-CCCCceeeeecCCCccccc
Q 013410 229 IGRKVWTRWPEDNHFYEAVITDYN-PNEGRHALVYDINTADETW 271 (443)
Q Consensus 229 IGrkV~~~WPdDn~wyEavItdYn-~~tg~H~LvYD~~t~~ETw 271 (443)
.|.+|...||+--.||.|+|..=. ..++...|.+|..+.....
T Consensus 74 ~g~~VLAlYP~TT~FY~A~V~~~p~~~~~~y~l~Fedd~~~~~~ 117 (130)
T PF07039_consen 74 KGTKVLALYPDTTCFYPATVVSPPKKKSGEYKLKFEDDEDADGY 117 (130)
T ss_dssp TT-EEEEE-TTSSEEEEEEEEEE-SSTTS-EEEEECTTTSTTSB
T ss_pred CCCEEEEECCCCceEEEEEEEeCCCCCCCcEEEEEeCCCCcCCc
Confidence 577999999999999999999883 3578888999888876543
No 32
>PF13801 Metal_resist: Heavy-metal resistance; PDB: 3EPV_C 2Y3D_A 2Y3H_D 2Y3G_B 2Y3B_A 2Y39_A 3LAY_H.
Probab=34.03 E-value=1.1e+02 Score=24.93 Aligned_cols=40 Identities=20% Similarity=0.277 Sum_probs=29.3
Q ss_pred hhHHHHHHHHhhcCCCChhhHHHHHHHHHHHHHHHHHHHH
Q 013410 353 ETLIKEVEKVFAANHPDPTDVEKAKRVLKEQELALVNAIA 392 (443)
Q Consensus 353 ~slikeVervf~~~~pDp~eiEkAKk~LkehEqaL~dAIA 392 (443)
..+-.|+..++.+.+||+.+|+.+-+-+.+.+..|...+.
T Consensus 69 ~~~r~~l~~ll~~~~~D~~~i~a~~~~~~~~~~~l~~~~~ 108 (125)
T PF13801_consen 69 RAARQELRALLAAPPPDEAAIEALLEEIREAQAELRQERL 108 (125)
T ss_dssp HHHHHHHHHHHCCSSS-HHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHcCCCCCHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3455677778889999999999988877777776665544
No 33
>COG1308 EGD2 Transcription factor homologous to NACalpha-BTF3 [Transcription]
Probab=33.89 E-value=24 Score=32.28 Aligned_cols=23 Identities=39% Similarity=0.390 Sum_probs=21.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhc
Q 013410 373 VEKAKRVLKEQELALVNAIAKLE 395 (443)
Q Consensus 373 iEkAKk~LkehEqaL~dAIArL~ 395 (443)
-|+|.|.|+|+.-.|.+||=+|.
T Consensus 99 reeA~kAL~e~~GDlaeAIm~L~ 121 (122)
T COG1308 99 REEAIKALEEAGGDLAEAIMKLT 121 (122)
T ss_pred HHHHHHHHHHcCCcHHHHHHHhc
Confidence 58999999999999999999985
No 34
>cd01106 HTH_TipAL-Mta Helix-Turn-Helix DNA binding domain of the transcription regulators TipAL, Mta, and SkgA. Helix-turn-helix (HTH) TipAL, Mta, and SkgA transcription regulators, and related proteins, N-terminal domain. TipAL regulates resistance to and activation by numerous cyclic thiopeptide antibiotics, such as thiostrepton. Mta is a global transcriptional regulator; the N-terminal DNA-binding domain of Mta interacts directly with the promoters of mta, bmr, blt, and ydfK, and induces transcription of these multidrug-efflux transport genes. SkgA has been shown to control stationary-phase expression of catalase-peroxidase in Caulobacter crescentus. These proteins are comprised of distinct domains that harbor an N-terminal active (DNA-binding) site and a regulatory (effector-binding) site. The conserved N-terminal domain of these transcription regulators contains winged HTH motifs that mediate DNA binding. These proteins share the N-terminal DNA binding domain with other transcrip
Probab=33.75 E-value=79 Score=26.63 Aligned_cols=40 Identities=20% Similarity=0.263 Sum_probs=31.4
Q ss_pred chhHHHHHHHHhhcCCCChhhHHHHHHHHHHHHHHHHHHHHHhccc
Q 013410 352 TETLIKEVEKVFAANHPDPTDVEKAKRVLKEQELALVNAIAKLEDA 397 (443)
Q Consensus 352 T~slikeVervf~~~~pDp~eiEkAKk~LkehEqaL~dAIArL~ea 397 (443)
.+-=|+|+.+++...+ +.++.+|++|-+.|.+.|++|..+
T Consensus 56 ~g~~l~~i~~~~~~~~------~~~~~~l~~~~~~l~~~i~~l~~~ 95 (103)
T cd01106 56 LGFSLKEIKELLKDPS------EDLLEALREQKELLEEKKERLDKL 95 (103)
T ss_pred cCCCHHHHHHHHHcCc------HHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3444788888887433 788999999999999999998653
No 35
>cd04787 HTH_HMRTR_unk Helix-Turn-Helix DNA binding domain of putative Heavy Metal Resistance transcription regulators. Putative helix-turn-helix (HTH) heavy metal resistance transcription regulators (HMRTR), unknown subgroup. Based on sequence similarity, these proteins are predicted to function as transcription regulators that mediate responses to heavy metal stress in eubacteria. They belong to the MerR superfamily of transcription regulators that promote transcription of various stress regulons by reconfiguring the operator sequence located between the -35 and -10 promoter elements. A typical MerR regulator is comprised of two distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their N-terminal domains are homologous and contain a DNA-binding winged HTH motif, while the C-terminal domains are often dissimilar and bind specific coactivator molecules, such as, metal ions, drugs, and organic substrates. This subgroup lacks one of the c
Probab=33.49 E-value=85 Score=27.84 Aligned_cols=46 Identities=9% Similarity=0.207 Sum_probs=31.9
Q ss_pred cchhHHHHHHHHhhcCCCChhhHHHHHHHHHHHHHHHHHHHHHhcc
Q 013410 351 HTETLIKEVEKVFAANHPDPTDVEKAKRVLKEQELALVNAIAKLED 396 (443)
Q Consensus 351 ~T~slikeVervf~~~~pDp~eiEkAKk~LkehEqaL~dAIArL~e 396 (443)
.++-=++|+..+|.....+..-....+.+|+++.+.|-..|++|..
T Consensus 55 ~~G~sL~eI~~~l~~~~~~~~~~~~~~~~l~~~~~~l~~~i~~l~~ 100 (133)
T cd04787 55 QLGFSLKDIKEILSHADQGESPCPMVRRLIEQRLAETERRIKELLK 100 (133)
T ss_pred HcCCCHHHHHHHHhhhccCCCcHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4555688999998744333333456678888888888888887764
No 36
>cd04772 HTH_TioE_rpt1 First Helix-Turn-Helix DNA binding domain of the regulatory protein TioE. Putative helix-turn-helix (HTH) regulatory protein, TioE, and related proteins. TioE is part of the thiocoraline gene cluster, which is involved in the biosynthesis of the antitumor thiocoraline from the marine actinomycete, Micromonospora. These proteins share the N-terminal DNA binding domain with other transcription regulators of the MerR superfamily that promote transcription by reconfiguring the spacer between the -35 and -10 promoter elements. Proteins in this family are unique within the MerR superfamily in that they are composed of just two adjacent MerR-like N-terminal domains; this CD contains the N-terminal or first repeat (rpt1) of these tandem MerR-like domain proteins.
Probab=31.98 E-value=83 Score=26.68 Aligned_cols=39 Identities=15% Similarity=0.215 Sum_probs=27.9
Q ss_pred HHHHHHHhhcCCCChhhHHHHHHHHHHHHHHHHHHHHHhcc
Q 013410 356 IKEVEKVFAANHPDPTDVEKAKRVLKEQELALVNAIAKLED 396 (443)
Q Consensus 356 ikeVervf~~~~pDp~eiEkAKk~LkehEqaL~dAIArL~e 396 (443)
++++.+++...+... +++++.+|.+|.+.|...|++|..
T Consensus 59 l~~i~~~~~~~~~~~--~~~~~~ll~~~~~~l~~~i~~L~~ 97 (99)
T cd04772 59 YRVAQRIMRAVHAGI--VASALALVDAAHALLQRYRQQLDQ 97 (99)
T ss_pred HHHHHHHHHHHhcCC--HHHHHHHHHHHHHHHHHHHHHHHh
Confidence 455555555322222 358999999999999999999974
No 37
>PRK10343 RNA-binding protein YhbY; Provisional
Probab=31.89 E-value=9.2 Score=33.37 Aligned_cols=44 Identities=16% Similarity=0.238 Sum_probs=32.6
Q ss_pred chhHHHHHHHHhhcCCCChhhHHHHHHHHHHHHHHHHHHHHHhcccCCCC
Q 013410 352 TETLIKEVEKVFAANHPDPTDVEKAKRVLKEQELALVNAIAKLEDASDGE 401 (443)
Q Consensus 352 T~slikeVervf~~~~pDp~eiEkAKk~LkehEqaL~dAIArL~eaSD~E 401 (443)
||++|.|+++.+. -.|+=|.| +|+.-.....+++..|+++++.|
T Consensus 30 t~~vi~ei~~aL~-----~hELIKvk-v~~~~~~~~~e~~~~i~~~~~ae 73 (97)
T PRK10343 30 TEGVLAEIEQALE-----HHELIKVK-IATEDRETKTLIVEAIVRETGAC 73 (97)
T ss_pred CHHHHHHHHHHHH-----HCCcEEEE-ecCCChhHHHHHHHHHHHHHCCE
Confidence 8999999999987 34677776 67666666667777777766543
No 38
>cd04784 HTH_CadR-PbrR Helix-Turn-Helix DNA binding domain of the CadR and PbrR transcription regulators. Helix-turn-helix (HTH) CadR and PbrR transcription regulators including Pseudomonas aeruginosa CadR and Ralstonia metallidurans PbrR that regulate expression of the cadmium and lead resistance operons, respectively. These proteins are comprised of distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their conserved N-terminal domains contain predicted winged HTH motifs that mediate DNA binding, while the C-terminal domains have three conserved cysteines which form a putative metal binding site. Some members in this group have a histidine-rich C-terminal extension. These proteins share the N-terminal DNA binding domain with other transcription regulators of the MerR superfamily that promote transcription by reconfiguring the spacer between the -35 and -10 promoter elements.
Probab=31.72 E-value=93 Score=27.18 Aligned_cols=45 Identities=13% Similarity=0.316 Sum_probs=31.9
Q ss_pred cchhHHHHHHHHhhcC-CCChhhHHHHHHHHHHHHHHHHHHHHHhcc
Q 013410 351 HTETLIKEVEKVFAAN-HPDPTDVEKAKRVLKEQELALVNAIAKLED 396 (443)
Q Consensus 351 ~T~slikeVervf~~~-~pDp~eiEkAKk~LkehEqaL~dAIArL~e 396 (443)
..+-=++|+..+|... .++ ...+.+..+|.++.+.|-..|++|..
T Consensus 55 ~~G~sL~eI~~~l~~~~~~~-~~~~~~~~~l~~~~~~l~~~i~~L~~ 100 (127)
T cd04784 55 SLDMSLDEIRTLLQLQDDPE-ASCAEVNALIDEHLAHVRARIAELQA 100 (127)
T ss_pred HcCCCHHHHHHHHHhhhcCC-CcHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4465688999988742 233 23567788888888888888887763
No 39
>PF01690 PLRV_ORF5: Potato leaf roll virus readthrough protein; InterPro: IPR002929 This family consists mainly of the Potato leafroll virus (PLrV) read through protein otherwise known as the minor capsid protein. This is generated via a readthrough of open reading frame 3, the coat protein, allowing transcription of open reading frame 5 to give an extended coat protein with a large C-terminal addition or read through domain []. The read through protein is essential for the circulative aphid transmission of PLrV [] and Beet western yellows virus []. The N-terminal region of the luteovirus readthrough domain determines virus binding to Buchnera GroEL and is essential for virus persistence in the aphid [].; GO: 0019028 viral capsid
Probab=31.44 E-value=64 Score=35.37 Aligned_cols=12 Identities=50% Similarity=1.348 Sum_probs=6.4
Q ss_pred ccccchhhcccc
Q 013410 267 ADETWEWVNLKE 278 (443)
Q Consensus 267 ~~ETwEWVdL~e 278 (443)
++|.|+|++|.-
T Consensus 67 EdE~~~~~~i~a 78 (465)
T PF01690_consen 67 EDENWNWVNIDA 78 (465)
T ss_pred ecccceeEEecc
Confidence 345566665543
No 40
>TIGR02047 CadR-PbrR Cd(II)/Pb(II)-responsive transcriptional regulator. This model represents the cadmium(II) and/or lead(II) responsive transcriptional activator of the proteobacterial metal efflux system. This protein is a member of the MerR family of transcriptional activators (pfam00376) and contains a distinctive pattern of cysteine residues in its metal binding loop, Cys-X(6-9)-Cys, as well as a conserved and critical cysteine at the N-terminal end of the dimerization helix.
Probab=29.95 E-value=98 Score=27.33 Aligned_cols=46 Identities=13% Similarity=0.201 Sum_probs=31.4
Q ss_pred cchhHHHHHHHHhhcCCCChhhHHHHHHHHHHHHHHHHHHHHHhcc
Q 013410 351 HTETLIKEVEKVFAANHPDPTDVEKAKRVLKEQELALVNAIAKLED 396 (443)
Q Consensus 351 ~T~slikeVervf~~~~pDp~eiEkAKk~LkehEqaL~dAIArL~e 396 (443)
..+.=++|+..+|......-.-.+..+.+|++|-+.|-..|++|..
T Consensus 55 ~lG~sL~eI~~~l~~~~~~~~~~~~~~~~l~~~~~~l~~~i~~L~~ 100 (127)
T TIGR02047 55 TLDMSLAEIRQLLRYQDKPEKSCSDVNALLDEHISHVRARIIKLQA 100 (127)
T ss_pred HcCCCHHHHHHHHHhhhCCCCCHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4466688899988743222223567788888888888887777654
No 41
>KOG4094 consensus Uncharacterized conserved protein [Function unknown]
Probab=29.88 E-value=2.6e+02 Score=26.95 Aligned_cols=69 Identities=25% Similarity=0.389 Sum_probs=46.1
Q ss_pred hHHHHH--HHHHHHHHHHHHHHHHhccCCCChHHHHHHH-HHHHHhC----CChHHHHHHHHHhchhHHHHHH---HHHH
Q 013410 49 DMATQI--HSVEQDAYSSVLRAFKAQSDAITWEKESLIT-ELRKELR----VSDEEHRELLSKVNADDIILRI---REWR 118 (443)
Q Consensus 49 ~~~~~I--h~LE~eAY~sVLrAF~AQS~~LSWeKE~LLT-eLR~eL~----ISdeEH~~~l~~v~~De~I~~i---Re~r 118 (443)
.++.++ .+.|++++.+-.=|=+- ..++-|||..|. +|++|++ ||-+|-.++-...-++-.+.-| |+|-
T Consensus 75 ~Ler~lRl~R~E~~~WN~dFWa~hN--~~F~~eKedFi~~kL~~EsG~~~~vsA~ems~FYk~FL~kn~~~hm~YNr~WY 152 (178)
T KOG4094|consen 75 ELERQLRLAREELNQWNSDFWAEHN--QLFDREKEDFIERKLQQESGRLEHVSANEMSEFYKDFLNKNHVAHMAYNREWY 152 (178)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHh--HHHHHHHHHHHHHHHHHhhccccccCHHHHHHHHHHHHhhhHHHHHHHhHHHH
Confidence 445544 45677888776555444 367889999994 7899998 7888877766555555444443 6664
Q ss_pred h
Q 013410 119 K 119 (443)
Q Consensus 119 ~ 119 (443)
.
T Consensus 153 ~ 153 (178)
T KOG4094|consen 153 R 153 (178)
T ss_pred H
Confidence 3
No 42
>TIGR00253 RNA_bind_YhbY putative RNA-binding protein, YhbY family. A combination of crystal structure, molecular modeling, and bioinformatic data together suggest that members of this family, including YhbY of E. coli, are RNA binding proteins.
Probab=29.82 E-value=11 Score=32.71 Aligned_cols=44 Identities=25% Similarity=0.256 Sum_probs=32.1
Q ss_pred chhHHHHHHHHhhcCCCChhhHHHHHHHHHHHHHHHHHHHHHhcccCCCC
Q 013410 352 TETLIKEVEKVFAANHPDPTDVEKAKRVLKEQELALVNAIAKLEDASDGE 401 (443)
Q Consensus 352 T~slikeVervf~~~~pDp~eiEkAKk~LkehEqaL~dAIArL~eaSD~E 401 (443)
||++|.|++..|. -.|+=|.| +|+.-.....+++..|++.+++|
T Consensus 28 t~~vi~ei~~aL~-----~hELIKVk-vl~~~~~~~~e~a~~i~~~~~a~ 71 (95)
T TIGR00253 28 TEGVIKEIEQALE-----HRELIKVK-VATEDREDKTLIAEALVKETGAC 71 (95)
T ss_pred CHHHHHHHHHHHH-----hCCcEEEE-ecCCChhHHHHHHHHHHHHHCCE
Confidence 8999999999987 34666666 66666666667777777766543
No 43
>cd04783 HTH_MerR1 Helix-Turn-Helix DNA binding domain of the MerR1 transcription regulator. Helix-turn-helix (HTH) transcription regulator MerR1. MerR1 transcription regulators, such as Tn21 MerR and Tn501 MerR, mediate response to mercury exposure in eubacteria. These proteins are comprised of distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their conserved N-terminal domains contain winged HTH motifs that mediate DNA binding, while the C-terminal domains have three conserved cysteines that define a mercury binding site. These proteins share the N-terminal DNA binding domain with other transcription regulators of the MerR superfamily that promote transcription by reconfiguring the spacer between the -35 and -10 promoter elements.
Probab=29.62 E-value=1.2e+02 Score=26.53 Aligned_cols=44 Identities=16% Similarity=0.277 Sum_probs=30.5
Q ss_pred cchhHHHHHHHHhhcCCCChhhHHHHHHHHHHHHHHHHHHHHHhcc
Q 013410 351 HTETLIKEVEKVFAANHPDPTDVEKAKRVLKEQELALVNAIAKLED 396 (443)
Q Consensus 351 ~T~slikeVervf~~~~pDp~eiEkAKk~LkehEqaL~dAIArL~e 396 (443)
..+-=++|+..+|..... ...++.+.+|++|.+.|-..|++|..
T Consensus 55 ~~G~sL~eI~~~l~~~~~--~~~~~~~~~l~~~~~~l~~~i~~L~~ 98 (126)
T cd04783 55 ELGFTLDEIAELLELDDG--TDCSEARELAEQKLAEVDEKIADLQR 98 (126)
T ss_pred HcCCCHHHHHHHHhcccC--CCHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344457888888873322 24677888888888888777777764
No 44
>TIGR02044 CueR Cu(I)-responsive transcriptional regulator. This model represents the copper-, silver- and gold- (I) responsive transcriptional activator of the gamma proteobacterial copper efflux system. This protein is a member of the MerR family of transcriptional activators (pfam00376) and contains a distinctive pattern of cysteine residues in its metal binding loop, Cys-X7-Cys. This family also lacks a conserved cysteine at the N-terminal end of the dimerization helix which is required for the binding of divalent metals such as zinc; here it is replaced by a serine residue.
Probab=29.55 E-value=1e+02 Score=27.01 Aligned_cols=46 Identities=11% Similarity=0.115 Sum_probs=28.2
Q ss_pred cchhHHHHHHHHhhcCCCChhhHHHHHHHHHHHHHHHHHHHHHhcc
Q 013410 351 HTETLIKEVEKVFAANHPDPTDVEKAKRVLKEQELALVNAIAKLED 396 (443)
Q Consensus 351 ~T~slikeVervf~~~~pDp~eiEkAKk~LkehEqaL~dAIArL~e 396 (443)
.++-=++|+..+|...+......+..+.+|.+|.+.|-..|++|..
T Consensus 55 ~~G~sL~eI~~~l~~~~~~~~~~~~~~~~l~~~~~~l~~~i~~L~~ 100 (127)
T TIGR02044 55 QVGFSLEECKELLNLWNDPNRTSADVKARTLEKVAEIERKISELQS 100 (127)
T ss_pred HCCCCHHHHHHHHHhhccCCCCHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4455578999988632222222455667777777777666666653
No 45
>cd04768 HTH_BmrR-like Helix-Turn-Helix DNA binding domain of BmrR-like transcription regulators. Helix-turn-helix (HTH) BmrR-like transcription regulators (TipAL, Mta, SkgA, BmrR, and BltR), N-terminal domain. These proteins have been shown to regulate expression of specific regulons in response to various toxic substances, antibiotics, or oxygen radicals in Bacillus subtilis, Streptomyces, and Caulobacter crescentus. They are comprised of two distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their conserved N-terminal domains contain HTH motifs that mediate DNA binding, while the C-terminal domains are often unrelated and bind specific coactivator molecules. These proteins share the N-terminal DNA binding domain with other transcription regulators of the MerR superfamily that promote transcription by reconfiguring the spacer between the -35 and -10 promoter elements.
Probab=28.74 E-value=1e+02 Score=25.82 Aligned_cols=40 Identities=18% Similarity=0.314 Sum_probs=32.7
Q ss_pred cchhHHHHHHHHhhcCCCChhhHHHHHHHHHHHHHHHHHHHHHhcc
Q 013410 351 HTETLIKEVEKVFAANHPDPTDVEKAKRVLKEQELALVNAIAKLED 396 (443)
Q Consensus 351 ~T~slikeVervf~~~~pDp~eiEkAKk~LkehEqaL~dAIArL~e 396 (443)
..+--|+|+.+++.... +..+.+|.+|.+.|.+.|++|..
T Consensus 55 ~~G~~l~~I~~~l~~~~------~~~~~~l~~~~~~l~~~i~~l~~ 94 (96)
T cd04768 55 ELGFSLAEIKELLDTEM------EELTAMLLEKKQAIQQKIDRLQQ 94 (96)
T ss_pred HcCCCHHHHHHHHhcCc------HHHHHHHHHHHHHHHHHHHHHHh
Confidence 45666899999988432 27899999999999999999874
No 46
>smart00454 SAM Sterile alpha motif. Widespread domain in signalling and nuclear proteins. In EPH-related tyrosine kinases, appears to mediate cell-cell initiated signal transduction via the binding of SH2-containing proteins to a conserved tyrosine that is phosphorylated. In many cases mediates homodimerisation.
Probab=28.29 E-value=1.7e+02 Score=21.42 Aligned_cols=51 Identities=25% Similarity=0.315 Sum_probs=29.8
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHhccCCCChH-HHHHH-HHHHHHhCCChHHHHHHHHH
Q 013410 49 DMATQIHSVEQDAYSSVLRAFKAQSDAITWE-KESLI-TELRKELRVSDEEHRELLSK 104 (443)
Q Consensus 49 ~~~~~Ih~LE~eAY~sVLrAF~AQS~~LSWe-KE~LL-TeLR~eL~ISdeEH~~~l~~ 104 (443)
++..=|..+...-|. .+|..+ .++-. .-.+. .+..++++|.+..|+..+-+
T Consensus 8 ~v~~wL~~~g~~~y~---~~f~~~--~i~g~~ll~~~~~~~l~~lgi~~~~~r~~ll~ 60 (68)
T smart00454 8 SVADWLESIGLEQYA---DNFRKN--GIDGALLLLLTSEEDLKELGITKLGHRKKILK 60 (68)
T ss_pred HHHHHHHHCChHHHH---HHHHHC--CCCHHHHHhcChHHHHHHcCCCcHHHHHHHHH
Confidence 444555555555554 455552 23322 33333 56678999999999986543
No 47
>cd01109 HTH_YyaN Helix-Turn-Helix DNA binding domain of the MerR-like transcription regulators YyaN and YraB. Putative helix-turn-helix (HTH) MerR-like transcription regulators of Bacillus subtilis, YyaN and YraB, and related proteins; N-terminal domain. Based on sequence similarity, these proteins are predicted to function as transcription regulators that mediate responses to stress in eubacteria. They belong to the MerR superfamily of transcription regulators that promote transcription of various stress regulons by reconfiguring the operator sequence located between the -35 and -10 promoter elements. A typical MerR regulator is comprised of distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their N-terminal domains are homologous and contain a DNA-binding winged HTH motif, while the C-terminal domains are often dissimilar and bind specific coactivator molecules such as metal ions, drugs, and organic substrates.
Probab=28.07 E-value=1.2e+02 Score=26.00 Aligned_cols=45 Identities=20% Similarity=0.304 Sum_probs=31.9
Q ss_pred chhHHHHHHHHhhcCCCChhhHHHHHHHHHHHHHHHHHHHHHhcc
Q 013410 352 TETLIKEVEKVFAANHPDPTDVEKAKRVLKEQELALVNAIAKLED 396 (443)
Q Consensus 352 T~slikeVervf~~~~pDp~eiEkAKk~LkehEqaL~dAIArL~e 396 (443)
.+-=++|+..+|.........++....+|.++-+.|-..|+.|..
T Consensus 56 ~G~sL~eI~~~l~~~~~~~~~~~~~~~~l~~~~~~l~~~i~~l~~ 100 (113)
T cd01109 56 TGMSIKDIKEYAELRREGDSTIPERLELLEEHREELEEQIAELQE 100 (113)
T ss_pred cCCCHHHHHHHHHHHccCCccHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 455578888888743222233677788999999999888888764
No 48
>KOG3470 consensus Beta-tubulin folding cofactor A [Posttranslational modification, protein turnover, chaperones]
Probab=27.67 E-value=1.1e+02 Score=27.59 Aligned_cols=33 Identities=33% Similarity=0.538 Sum_probs=28.8
Q ss_pred cCCCChhhHHHHHHHHHHHHHHHHHHHHHhccc
Q 013410 365 ANHPDPTDVEKAKRVLKEQELALVNAIAKLEDA 397 (443)
Q Consensus 365 ~~~pDp~eiEkAKk~LkehEqaL~dAIArL~ea 397 (443)
.+-.||++|+|-+-+|+|+=..|-|+.-||..+
T Consensus 41 ~dg~d~ydlkkQeeVl~et~~mlPD~~~RL~~a 73 (107)
T KOG3470|consen 41 DDGADPYDLKKQEEVLKETRMMLPDSQRRLRKA 73 (107)
T ss_pred hcCCChHHHHHHHHHHHHHHHHChHHHHHHHHH
Confidence 566799999999999999999998888888654
No 49
>cd04773 HTH_TioE_rpt2 Second Helix-Turn-Helix DNA binding domain of the regulatory protein TioE. Putative helix-turn-helix (HTH) regulatory protein, TioE, and related proteins. TioE is part of the thiocoraline gene cluster, which is involved in the biosynthesis of the antitumor thiocoraline from the marine actinomycete, Micromonospora. These proteins share the N-terminal DNA binding domain with other transcription regulators of the MerR superfamily that promote transcription by reconfiguring the spacer between the -35 and -10 promoter elements. Proteins in this family are unique within the MerR superfamily in that they are composed of just two adjacent MerR-like N-terminal domains; this CD mainly contains the C-terminal or second repeat (rpt2) of these tandem MerR-like domain proteins.
Probab=26.58 E-value=1.1e+02 Score=26.24 Aligned_cols=45 Identities=16% Similarity=0.188 Sum_probs=31.0
Q ss_pred cchhHHHHHHHHhhcCCCChhhHHHHHHHHHHHHHHHHHHHHHhcc
Q 013410 351 HTETLIKEVEKVFAANHPDPTDVEKAKRVLKEQELALVNAIAKLED 396 (443)
Q Consensus 351 ~T~slikeVervf~~~~pDp~eiEkAKk~LkehEqaL~dAIArL~e 396 (443)
..+-=++|+..++....-.. ..+..+++|.+|.+.|...|+.|.+
T Consensus 55 ~~G~~l~~I~~~l~~~~~~~-~~~~~~~~l~~~~~~l~~~~~~~~~ 99 (108)
T cd04773 55 RGGYLLEQIATVVEQLRHAG-GTEALAAALEQRRVALTQRGRAMLD 99 (108)
T ss_pred HCCCCHHHHHHHHHHhhcCC-CHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 33455788888887421111 1367888999999999888888774
No 50
>KOG4327 consensus mRNA splicing protein SMN (survival motor neuron) [RNA processing and modification]
Probab=26.23 E-value=1.4e+02 Score=29.80 Aligned_cols=37 Identities=35% Similarity=0.423 Sum_probs=21.5
Q ss_pred CCCCCCCCCCcchhhhhhcccccccccCCCCCCCCCCCCCCCC
Q 013410 132 QPVHDPAPSPTVSASRKKTKTSQSVASLSTGAPSPGMHPSVQP 174 (443)
Q Consensus 132 q~~hd~~PsPt~s~srKkqKts~s~ps~~~g~psp~~~p~~qp 174 (443)
...|+..|+ |-++++|+ ++|=.+|-+|.|+++|+.-|
T Consensus 145 k~~~s~sp~-T~sa~~~~-----s~p~~sfmpppPP~pp~i~p 181 (218)
T KOG4327|consen 145 KSENSRSPG-TKSANIKK-----SAPWNSFMPPPPPMPPPICP 181 (218)
T ss_pred cccccCCCC-Cccccccc-----cCCccccCCCCCCCCcccCC
Confidence 345666655 33455543 45556777777777666544
No 51
>cd04788 HTH_NolA-AlbR Helix-Turn-Helix DNA binding domain of the transcription regulators NolA and AlbR. Helix-turn-helix (HTH) transcription regulators NolA and AlbR, N-terminal domain. In Bradyrhizobium (Arachis) sp. NC92, NolA is required for efficient nodulation of host plants. In Xanthomonas albilineans, AlbR regulates the expression of the pathotoxin, albicidin. These proteins are putatively comprised of distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their conserved N-terminal domains contain predicted winged HTH motifs that mediate DNA binding, while the C-terminal domains are often unrelated and bind specific coactivator molecules. They share the N-terminal DNA binding domain with other transcription regulators of the MerR superfamily that promote transcription by reconfiguring the spacer between the -35 and -10 promoter elements.
Probab=26.05 E-value=1.3e+02 Score=25.19 Aligned_cols=40 Identities=13% Similarity=0.157 Sum_probs=31.5
Q ss_pred cchhHHHHHHHHhhcCCCChhhHHHHHHHHHHHHHHHHHHHHHhcc
Q 013410 351 HTETLIKEVEKVFAANHPDPTDVEKAKRVLKEQELALVNAIAKLED 396 (443)
Q Consensus 351 ~T~slikeVervf~~~~pDp~eiEkAKk~LkehEqaL~dAIArL~e 396 (443)
.++-=++|+.+++... +. ..+.+|++|.+.|-..|++|..
T Consensus 55 ~~G~~l~eI~~~l~~~--~~----~~~~~l~~~~~~l~~~i~~l~~ 94 (96)
T cd04788 55 RLGFSLREIGRALDGP--DF----DPLELLRRQLARLEEQLELATR 94 (96)
T ss_pred HcCCCHHHHHHHHhCC--Ch----hHHHHHHHHHHHHHHHHHHHHh
Confidence 4455589999998743 21 5688999999999999999874
No 52
>cd01107 HTH_BmrR Helix-Turn-Helix DNA binding domain of the BmrR transcription regulator. Helix-turn-helix (HTH) multidrug-efflux transporter transcription regulator, BmrR and YdfL of Bacillus subtilis, and related proteins; N-terminal domain. Bmr is a membrane protein which causes the efflux of a variety of toxic substances and antibiotics. BmrR is comprised of two distinct domains that harbor a regulatory (effector-binding) site and an active (DNA-binding) site. The conserved N-terminal domain contains a winged HTH motif that mediates DNA binding, while the C-terminal domain binds coactivating, toxic compounds. BmrR shares the N-terminal DNA binding domain with other transcription regulators of the MerR superfamily that promote transcription by reconfiguring the spacer between the -35 and -10 promoter elements.
Probab=25.90 E-value=1.2e+02 Score=26.01 Aligned_cols=41 Identities=17% Similarity=0.383 Sum_probs=32.4
Q ss_pred cchhHHHHHHHHhhcCCCChhhHHHHHHHHHHHHHHHHHHHHHhcc
Q 013410 351 HTETLIKEVEKVFAANHPDPTDVEKAKRVLKEQELALVNAIAKLED 396 (443)
Q Consensus 351 ~T~slikeVervf~~~~pDp~eiEkAKk~LkehEqaL~dAIArL~e 396 (443)
+++-=|+|+.+++..... +.+..+|+.+.+.|-..|++|..
T Consensus 56 ~~G~sl~~i~~l~~~~~~-----~~~~~~l~~~~~~l~~~i~~l~~ 96 (108)
T cd01107 56 DLGFPLEEIKEILDADND-----DELRKLLREKLAELEAEIEELQR 96 (108)
T ss_pred HcCCCHHHHHHHHhcCCH-----HHHHHHHHHHHHHHHHHHHHHHH
Confidence 445557899999885432 88899999999999999988864
No 53
>TIGR02043 ZntR Zn(II)-responsive transcriptional regulator. This model represents the zinc and cadmium (II) responsive transcriptional activator of the gamma proteobacterial zinc efflux system. This protein is a member of the MerR family of transcriptional activators (pfam00376) and contains a distinctive pattern of cysteine residues in its metal binding loop, Cys-Cys-X(8-9)-Cys, as well as a conserved and critical cysteine at the N-terminal end of the dimerization helix.
Probab=25.81 E-value=1.3e+02 Score=26.61 Aligned_cols=47 Identities=9% Similarity=0.175 Sum_probs=33.1
Q ss_pred cchhHHHHHHHHhhcC-CCChhhHHHHHHHHHHHHHHHHHHHHHhccc
Q 013410 351 HTETLIKEVEKVFAAN-HPDPTDVEKAKRVLKEQELALVNAIAKLEDA 397 (443)
Q Consensus 351 ~T~slikeVervf~~~-~pDp~eiEkAKk~LkehEqaL~dAIArL~ea 397 (443)
..+-=++|+..+|... .++....+..+.+|+++.+.|-..|++|...
T Consensus 56 ~~G~sl~eI~~~l~~~~~~~~~~~~~~~~~l~~~~~~l~~~i~~L~~~ 103 (131)
T TIGR02043 56 ELGFTLDEIKELLSIKLDATEHSCAEVKAIVDAKLELVDEKINELTKI 103 (131)
T ss_pred HcCCCHHHHHHHHHhhccCCCCCHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4455688888888732 2233345778889999998888888887643
No 54
>PF04967 HTH_10: HTH DNA binding domain; InterPro: IPR007050 Numerous bacterial transcription regulatory proteins bind DNA via a helix-turn-helix (HTH) motif. This entry represents the HTH DNA binding domain found in Halobacterium salinarium (Halobacterium halobium) and described as a putative bacterio-opsin activator.
Probab=25.72 E-value=1e+02 Score=24.14 Aligned_cols=38 Identities=21% Similarity=0.266 Sum_probs=31.5
Q ss_pred HHHHHhccCCCChHHHHHHHHHHHHhCCChHHHHHHHHHh
Q 013410 66 LRAFKAQSDAITWEKESLITELRKELRVSDEEHRELLSKV 105 (443)
Q Consensus 66 LrAF~AQS~~LSWeKE~LLTeLR~eL~ISdeEH~~~l~~v 105 (443)
..|+.. |=++|-++.-+++|-++|+||...=.+.|++.
T Consensus 10 ~~A~~~--GYfd~PR~~tl~elA~~lgis~st~~~~LRra 47 (53)
T PF04967_consen 10 KAAYEL--GYFDVPRRITLEELAEELGISKSTVSEHLRRA 47 (53)
T ss_pred HHHHHc--CCCCCCCcCCHHHHHHHhCCCHHHHHHHHHHH
Confidence 344444 88999999999999999999998877777766
No 55
>PF14772 NYD-SP28: Sperm tail
Probab=25.33 E-value=1.4e+02 Score=25.32 Aligned_cols=27 Identities=41% Similarity=0.580 Sum_probs=22.6
Q ss_pred HHHHHHHHHHHHhCCChHHHHHHHHHh
Q 013410 79 EKESLITELRKELRVSDEEHRELLSKV 105 (443)
Q Consensus 79 eKE~LLTeLR~eL~ISdeEH~~~l~~v 105 (443)
.|..||.+|..+|.-.+++|...|.+=
T Consensus 73 ~Kd~lI~~L~~eL~~~deqy~~~lr~q 99 (104)
T PF14772_consen 73 RKDALIKELQQELKEADEQYVKALRKQ 99 (104)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 489999999999999999998877653
No 56
>TIGR02015 BchY chlorophyllide reductase subunit Y. This model represents the Y subunit of the three-subunit enzyme, (bacterio)chlorophyllide reductase. This enzyme is responsible for the reduction of the chlorin B-ring and is closely related to the protochlorophyllide reductase complex which reduces the D-ring. Both of these complexes in turn are homologous to nitrogenase.
Probab=25.27 E-value=87 Score=33.17 Aligned_cols=41 Identities=22% Similarity=0.322 Sum_probs=33.3
Q ss_pred CeeeecchhHHHHHHHHhhcCCCChhhHHHHHHHHHHHHHHHHHHHH
Q 013410 346 DIEILHTETLIKEVEKVFAANHPDPTDVEKAKRVLKEQELALVNAIA 392 (443)
Q Consensus 346 ~i~i~~T~slikeVervf~~~~pDp~eiEkAKk~LkehEqaL~dAIA 392 (443)
-|-|-+|+..+.+|-++|+.. |..+ .+++++++..|+|||+
T Consensus 240 PiG~~~Td~fL~~la~~~G~~---~~~~---~~~i~~er~rl~dal~ 280 (422)
T TIGR02015 240 PVGANGTGEWLERIGEALDLD---PDTV---KTVAEEERQKIKGAIA 280 (422)
T ss_pred CCChHHHHHHHHHHHHHhCcC---HHHH---HHHHHHHHHHHHHHHH
Confidence 567789999999999999832 4334 4489999999999998
No 57
>TIGR00264 alpha-NAC-related protein. This hypothetical protein is found so far only in the Archaea. Its C-terminal domain of about 40 amino acids is homologous to the C-termini of the nascent polypeptide-associated complex alpha chain (alpha-NAC) and its yeast ortholog Egd2p and to the huntingtin-interacting protein HYPK. It shows weaker similarity, possibly through shared structural constraints rather than through homology, with the amino-terminal domain of elongation factor Ts. Alpha-NAC plays a role in preventing nascent polypeptides from binding inappropriately to membrane-targeting apparatus during translation, but is also active as a transcription regulator.
Probab=25.08 E-value=39 Score=30.64 Aligned_cols=24 Identities=46% Similarity=0.530 Sum_probs=21.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhcc
Q 013410 373 VEKAKRVLKEQELALVNAIAKLED 396 (443)
Q Consensus 373 iEkAKk~LkehEqaL~dAIArL~e 396 (443)
-|+|++.|++.--.|++||-.|.+
T Consensus 93 ~e~A~~AL~~~~gDl~~AI~~L~~ 116 (116)
T TIGR00264 93 KEEARRALEECGGDLAEAIMKLEE 116 (116)
T ss_pred HHHHHHHHHHcCCCHHHHHHHhhC
Confidence 489999999999999999999874
No 58
>PRK05244 Der GTPase activator; Provisional
Probab=24.93 E-value=1.6e+02 Score=28.49 Aligned_cols=52 Identities=21% Similarity=0.323 Sum_probs=38.3
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHhccCCCChHHHH-------HHHHHHHHhCCChHHHHH
Q 013410 49 DMATQIHSVEQDAYSSVLRAFKAQSDAITWEKES-------LITELRKELRVSDEEHRE 100 (443)
Q Consensus 49 ~~~~~Ih~LE~eAY~sVLrAF~AQS~~LSWeKE~-------LLTeLR~eL~ISdeEH~~ 100 (443)
.-+.+|-.||-++.-.+|-.-.-....||=+-.. -|..|+.+|+|++++-..
T Consensus 95 spEqEL~~LEnD~rL~~LLdrLE~Ge~Ls~~dQ~yvD~~LdRie~LM~~LGI~~edd~~ 153 (177)
T PRK05244 95 SPEQELEKLENDERLNALLDRLEAGETLSAEDQKWVDEKLDRIDELMEKLGISDDDDEE 153 (177)
T ss_pred CHHHHHHHHhccHHHHHHHHHHHCCCcCCHHHHHHHHHHHHHHHHHHHHhCCCcccccc
Confidence 3478999999999966666555546777754433 368899999999987544
No 59
>PRK10227 DNA-binding transcriptional regulator CueR; Provisional
Probab=24.64 E-value=1.4e+02 Score=26.93 Aligned_cols=45 Identities=13% Similarity=0.111 Sum_probs=25.9
Q ss_pred cchhHHHHHHHHhhcCCCChhhHHHHHHHHHHHHHHHHHHHHHhc
Q 013410 351 HTETLIKEVEKVFAANHPDPTDVEKAKRVLKEQELALVNAIAKLE 395 (443)
Q Consensus 351 ~T~slikeVervf~~~~pDp~eiEkAKk~LkehEqaL~dAIArL~ 395 (443)
.++-=++|+..+|.....+....+..+.+|.++.+.|-..|++|.
T Consensus 55 ~~G~sl~eI~~~l~~~~~~~~~~~~~~~~l~~~~~~l~~~i~~L~ 99 (135)
T PRK10227 55 QVGFNLEESGELVNLFNDPQRHSADVKRRTLEKVAEIERHIEELQ 99 (135)
T ss_pred HCCCCHHHHHHHHHhhccCCCCHHHHHHHHHHHHHHHHHHHHHHH
Confidence 445557888888763222222245556666666666666665554
No 60
>PRK14478 nitrogenase molybdenum-cofactor biosynthesis protein NifE; Provisional
Probab=24.00 E-value=1.2e+02 Score=32.44 Aligned_cols=49 Identities=16% Similarity=0.281 Sum_probs=38.0
Q ss_pred eeeecchhHHHHHHHHhhcCCCChhhHHHHHHHHHHHHHHHHHHHHHhc
Q 013410 347 IEILHTETLIKEVEKVFAANHPDPTDVEKAKRVLKEQELALVNAIAKLE 395 (443)
Q Consensus 347 i~i~~T~slikeVervf~~~~pDp~eiEkAKk~LkehEqaL~dAIArL~ 395 (443)
|.|-.|+..+++|.++|+...-+..-.|+|.++++++++.+.++|.+.-
T Consensus 271 ~G~~~T~~~l~~la~~~~~~~~~~~~~~~~e~~i~~e~~~~~~~l~~~~ 319 (475)
T PRK14478 271 YGIEDTSDSLRQIARLLVERGADAELVERTEALIAEEEAKAWAALEPYR 319 (475)
T ss_pred CcHHHHHHHHHHHHHHHhhcCCChHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 6778999999999999942221222357889999999999999998854
No 61
>cd04777 HTH_MerR-like_sg1 Helix-Turn-Helix DNA binding domain of putative transcription regulators from the MerR superfamily. Putative helix-turn-helix (HTH) MerR-like transcription regulators (subgroup 1), N-terminal domain. Based on sequence similarity, these proteins are predicted to function as transcription regulators that mediate responses to stress in eubacteria. They belong to the MerR superfamily of transcription regulators that promote transcription of various stress regulons by reconfiguring the operator sequence located between the -35 and -10 promoter elements. A typical MerR regulator is comprised of two distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their N-terminal domains are homologous and contain a DNA-binding winged HTH motif, while the C-terminal domains are often dissimilar and bind specific coactivator molecules such as metal ions, drugs, and organic substrates.
Probab=23.98 E-value=1.9e+02 Score=24.54 Aligned_cols=46 Identities=22% Similarity=0.263 Sum_probs=33.9
Q ss_pred cchhHHHHHHHHhhcCCCC----hhhHHHHHHHHHHHHHHHHHHHHHhcc
Q 013410 351 HTETLIKEVEKVFAANHPD----PTDVEKAKRVLKEQELALVNAIAKLED 396 (443)
Q Consensus 351 ~T~slikeVervf~~~~pD----p~eiEkAKk~LkehEqaL~dAIArL~e 396 (443)
.++-=++|+..+|.....+ .......+.+|++|.+.|-..|++|..
T Consensus 53 ~~G~sL~eI~~~l~~~~~~~~~~~~~~~~~~~~l~~~~~~l~~~i~~l~~ 102 (107)
T cd04777 53 GLGFSLIEIQKIFSYKRLTKSRTHEDQDYYKSFLKNKKDELEKEIEDLKK 102 (107)
T ss_pred HCCCCHHHHHHHHHhcccccccchhhHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4566688899888743221 223466899999999999999999875
No 62
>PRK09514 zntR zinc-responsive transcriptional regulator; Provisional
Probab=23.36 E-value=1.7e+02 Score=26.44 Aligned_cols=46 Identities=15% Similarity=0.336 Sum_probs=33.4
Q ss_pred cchhHHHHHHHHhhcC-CCChhhHHHHHHHHHHHHHHHHHHHHHhcc
Q 013410 351 HTETLIKEVEKVFAAN-HPDPTDVEKAKRVLKEQELALVNAIAKLED 396 (443)
Q Consensus 351 ~T~slikeVervf~~~-~pDp~eiEkAKk~LkehEqaL~dAIArL~e 396 (443)
.+.--++|+..++... .++-..++..+.+|.++.+.|-..|++|..
T Consensus 56 ~~G~sL~eI~~~l~~~~~~~~~~~~~~~~~l~~~~~~l~~~i~~L~~ 102 (140)
T PRK09514 56 QLGFTLEEIRELLSIRLDPEHHTCQEVKGIVDEKLAEVEAKIAELQH 102 (140)
T ss_pred HcCCCHHHHHHHHHhcccCCcCCHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4555688899888632 333345788889999999888888877764
No 63
>TIGR02051 MerR Hg(II)-responsive transcriptional regulator. This model represents the mercury (II) responsive transcriptional activator of the mer organomercurial resistance operon. This protein is a member of the MerR family of transcriptional activators (pfam00376) and contains a distinctive pattern of cysteine residues in its metal binding loop, Cys-X(8)-Cys-Pro, as well as a conserved and critical cysteine at the N-terminal end of the dimerization helix.
Probab=23.17 E-value=1.7e+02 Score=25.69 Aligned_cols=44 Identities=9% Similarity=0.073 Sum_probs=30.5
Q ss_pred cchhHHHHHHHHhhcCCCChhhHHHHHHHHHHHHHHHHHHHHHhcc
Q 013410 351 HTETLIKEVEKVFAANHPDPTDVEKAKRVLKEQELALVNAIAKLED 396 (443)
Q Consensus 351 ~T~slikeVervf~~~~pDp~eiEkAKk~LkehEqaL~dAIArL~e 396 (443)
..+-=++|+..+|...+. ..++..+.+|++|-+.|-..|++|..
T Consensus 54 ~~G~sl~eI~~~l~~~~~--~~~~~~~~~l~~~~~~l~~~i~~L~~ 97 (124)
T TIGR02051 54 ELGFSLEEIGGLLGLVDG--THCREMYELASRKLKSVQAKMADLLR 97 (124)
T ss_pred HCCCCHHHHHHHHhcccC--CCHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 445557889998874332 44677788888888777777777654
No 64
>PF07374 DUF1492: Protein of unknown function (DUF1492); InterPro: IPR010861 This entry is represented by Streptococcus phage 7201, Orf19. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. This entry consists of several hypothetical, highly conserved Streptococcal and related phage proteins. The function of this family is unknown.
Probab=22.82 E-value=2.5e+02 Score=23.83 Aligned_cols=48 Identities=23% Similarity=0.408 Sum_probs=35.6
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHhccCCCChHHHHHHHHHHHHhCCChHHHHHHHHH
Q 013410 49 DMATQIHSVEQDAYSSVLRAFKAQSDAITWEKESLITELRKELRVSDEEHRELLSK 104 (443)
Q Consensus 49 ~~~~~Ih~LE~eAY~sVLrAF~AQS~~LSWeKE~LLTeLR~eL~ISdeEH~~~l~~ 104 (443)
++...|.+|+-.-|+.||+-+|- ..++|+ +...+|+||...=-.++++
T Consensus 47 ei~~~I~~l~d~~~r~iL~~~Yi--~~~~~~------~I~~~l~~S~~t~yr~~~~ 94 (100)
T PF07374_consen 47 EIRRAINKLEDPDERLILRMRYI--NKLTWE------QIAEELNISRRTYYRIHKK 94 (100)
T ss_pred HHHHHHHHccChhHHHHHHHHHH--cCCCHH------HHHHHHCCCHHHHHHHHHH
Confidence 45566777888889999999999 568997 4678899996554444443
No 65
>PRK09618 flgD flagellar basal body rod modification protein; Provisional
Probab=21.97 E-value=83 Score=29.36 Aligned_cols=39 Identities=28% Similarity=0.396 Sum_probs=30.7
Q ss_pred CccccceeecccCCCCCceeEEEeecCCCCCceeeeecCC
Q 013410 226 NPLIGRKVWTRWPEDNHFYEAVITDYNPNEGRHALVYDIN 265 (443)
Q Consensus 226 ~~LIGrkV~~~WPdDn~wyEavItdYn~~tg~H~LvYD~~ 265 (443)
..||||.|..- =+|...+.|+|+.-.-.+|...++++.+
T Consensus 88 ~slVGk~V~~~-~~~g~~~tG~V~~V~~~~g~~~~~~v~G 126 (142)
T PRK09618 88 SELIGKEVEWE-GEDGEIVSGTVTSVKQKDGDYPLVLDNG 126 (142)
T ss_pred HHHhCCEEEEE-eCCCCEEEEEEEEEEEcCCcEEEEEECC
Confidence 57999999854 2446789999999888888887777665
No 66
>PF07647 SAM_2: SAM domain (Sterile alpha motif); InterPro: IPR011510 The sterile alpha motif (SAM) domain is a putative protein interaction module present in a wide variety of proteins [] involved in many biological processes. The SAM domain that spreads over around 70 residues is found in diverse eukaryotic organisms []. SAM domains have been shown to homo- and hetero-oligomerise, forming multiple self-association architectures and also binding to various non-SAM domain-containing proteins [], nevertheless with a low affinity constant []. SAM domains also appear to possess the ability to bind RNA []. Smaug, a protein that helps to establish a morphogen gradient in Drosophila embryos by repressing the translation of nanos (nos) mRNA, binds to the 3' untranslated region (UTR) of nos mRNA via two similar hairpin structures. The 3D crystal structure of the Smaug RNA-binding region shows a cluster of positively charged residues on the Smaug-SAM domain, which could be the RNA-binding surface. This electropositive potential is unique among all previously determined SAM-domain structures and is conserved among Smaug-SAM homologs. These results suggest that the SAM domain might have a primary role in RNA binding. Structural analyses show that the SAM domain is arranged in a small five-helix bundle with two large interfaces []. In the case of the SAM domain of EphB2, each of these interfaces is able to form dimers. The presence of these two distinct intermonomers binding surface suggest that SAM could form extended polymeric structures []. This entry represents a second domain related to the SAM domain. ; GO: 0005515 protein binding; PDB: 1B0X_A 1X9X_B 1OW5_A 1V38_A 3BS7_A 3BS5_A 3TAD_A 3TAC_B 2K60_A 2DL0_A ....
Probab=21.79 E-value=1.1e+02 Score=23.21 Aligned_cols=53 Identities=25% Similarity=0.456 Sum_probs=34.2
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHHhcc-C-CCChHHHHHHHHHHHHhCCChHHHHH-HHHHh
Q 013410 48 NDMATQIHSVEQDAYSSVLRAFKAQS-D-AITWEKESLITELRKELRVSDEEHRE-LLSKV 105 (443)
Q Consensus 48 ~~~~~~Ih~LE~eAY~sVLrAF~AQS-~-~LSWeKE~LLTeLR~eL~ISdeEH~~-~l~~v 105 (443)
.++..=|..+.++.|...++...-.+ . -+.... .+|+ +++|++..||. +++.|
T Consensus 7 ~~v~~WL~~~gl~~y~~~f~~~~i~g~~~L~~l~~----~~L~-~lGI~~~~~r~kll~~i 62 (66)
T PF07647_consen 7 EDVAEWLKSLGLEQYADNFRENGIDGLEDLLQLTE----EDLK-ELGITNLGHRRKLLSAI 62 (66)
T ss_dssp HHHHHHHHHTTCGGGHHHHHHTTCSHHHHHTTSCH----HHHH-HTTTTHHHHHHHHHHHH
T ss_pred HHHHHHHHHCCcHHHHHHHHHcCCcHHHHHhhCCH----HHHH-HcCCCCHHHHHHHHHHH
Confidence 46677778888888887777665531 1 122222 3454 99999999977 44444
No 67
>COG3877 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=21.40 E-value=83 Score=28.68 Aligned_cols=16 Identities=31% Similarity=0.453 Sum_probs=11.7
Q ss_pred hhHHHHHHHHhhcCCC
Q 013410 353 ETLIKEVEKVFAANHP 368 (443)
Q Consensus 353 ~slikeVervf~~~~p 368 (443)
.-=+|||||+++-+.|
T Consensus 57 RGnlKEvEr~lg~sYp 72 (122)
T COG3877 57 RGNLKEVERELGISYP 72 (122)
T ss_pred ccCHHHHHHHHCCccH
Confidence 4447999999876554
No 68
>PRK06369 nac nascent polypeptide-associated complex protein; Reviewed
Probab=21.15 E-value=53 Score=29.69 Aligned_cols=24 Identities=38% Similarity=0.469 Sum_probs=21.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhcc
Q 013410 373 VEKAKRVLKEQELALVNAIAKLED 396 (443)
Q Consensus 373 iEkAKk~LkehEqaL~dAIArL~e 396 (443)
-|+|++.|++.--.|++||-.|.+
T Consensus 91 ~~~A~~AL~~~~gDl~~AI~~L~~ 114 (115)
T PRK06369 91 EEEARKALEEANGDLAEAILKLSS 114 (115)
T ss_pred HHHHHHHHHHcCCcHHHHHHHHhc
Confidence 489999999999999999999863
No 69
>COG0789 SoxR Predicted transcriptional regulators [Transcription]
Probab=21.07 E-value=2.3e+02 Score=23.97 Aligned_cols=45 Identities=20% Similarity=0.232 Sum_probs=38.1
Q ss_pred chhHHHHHHHHhhcCCCCh-hhHHHHHHHHHHHHHHHHHHHHHhcc
Q 013410 352 TETLIKEVEKVFAANHPDP-TDVEKAKRVLKEQELALVNAIAKLED 396 (443)
Q Consensus 352 T~slikeVervf~~~~pDp-~eiEkAKk~LkehEqaL~dAIArL~e 396 (443)
++-=|+||..++...+.++ ..++..+++|.++-..|...|+.|.+
T Consensus 56 ~G~~L~~I~~~l~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~l~~ 101 (124)
T COG0789 56 LGFSLAEIKELLDLLSAGESIALELRERLLAERLEELEAKIAELQR 101 (124)
T ss_pred cCCCHHHHHHHHhcccccchhhHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 5666899999998767666 48899999999999999999999885
No 70
>PF13812 PPR_3: Pentatricopeptide repeat domain
Probab=20.93 E-value=2.4e+02 Score=17.95 Aligned_cols=30 Identities=23% Similarity=0.339 Sum_probs=18.7
Q ss_pred HHHHHHHHHHHhccCCCChHHHHH-HHHHHHHhCC
Q 013410 60 DAYSSVLRAFKAQSDAITWEKESL-ITELRKELRV 93 (443)
Q Consensus 60 eAY~sVLrAF~AQS~~LSWeKE~L-LTeLR~eL~I 93 (443)
..|..+|+||.... .|+.-.. +.+++ +.+|
T Consensus 2 ~ty~~ll~a~~~~g---~~~~a~~~~~~M~-~~gv 32 (34)
T PF13812_consen 2 HTYNALLRACAKAG---DPDAALQLFDEMK-EQGV 32 (34)
T ss_pred cHHHHHHHHHHHCC---CHHHHHHHHHHHH-HhCC
Confidence 47999999999953 4554433 34433 3555
No 71
>CHL00102 rps20 ribosomal protein S20
Probab=20.82 E-value=2.2e+02 Score=24.86 Aligned_cols=38 Identities=24% Similarity=0.295 Sum_probs=29.9
Q ss_pred hhHHHHHHHHhhc--CCCChhhHHHHHHHHHHHHHHHHHH
Q 013410 353 ETLIKEVEKVFAA--NHPDPTDVEKAKRVLKEQELALVNA 390 (443)
Q Consensus 353 ~slikeVervf~~--~~pDp~eiEkAKk~LkehEqaL~dA 390 (443)
-|+||.|+..+.+ ..|++.+.|.|..+|.+-...|=.|
T Consensus 29 rT~iKk~~~ai~~~~~~~~~~d~~~a~~~l~~a~s~iDka 68 (93)
T CHL00102 29 KTLIKKYLKNLEDYKTSPNSNNKKKVQETLSSVYSKIDKA 68 (93)
T ss_pred HHHHHHHHHHHHhhcccCCcccHHHHHHHHHHHHHHHHHH
Confidence 5789999988764 5699999999999998876555433
No 72
>KOG2070 consensus Guanine nucleotide exchange factor [Nucleotide transport and metabolism]
Probab=20.39 E-value=1e+02 Score=34.61 Aligned_cols=38 Identities=29% Similarity=0.441 Sum_probs=30.6
Q ss_pred hhHHHHHHHHhhcCCCChhhHHHHHH---HHHHHHHHHHHH
Q 013410 353 ETLIKEVEKVFAANHPDPTDVEKAKR---VLKEQELALVNA 390 (443)
Q Consensus 353 ~slikeVervf~~~~pDp~eiEkAKk---~LkehEqaL~dA 390 (443)
-+|++|+||..-++|||-.+|-++-- -|+++=|+|+.+
T Consensus 244 ~~lLQELERhme~~HpDrgD~qrs~avfk~~~~~Cq~lRkq 284 (661)
T KOG2070|consen 244 PTLLQELERHMEDYHPDRGDIQRSMAVFKNLSAQCQELRKQ 284 (661)
T ss_pred HHHHHHHHHhccccCCchHHHHHHHHHHHHHHHHHHHHHhh
Confidence 48999999999999999999998654 455666666654
No 73
>PF14338 Mrr_N: Mrr N-terminal domain
Probab=20.35 E-value=2.4e+02 Score=23.38 Aligned_cols=41 Identities=22% Similarity=0.409 Sum_probs=32.1
Q ss_pred HHHHHHHHHHHhccCCCChHHHHHHHHHHHHhCCChHHHHHHH
Q 013410 60 DAYSSVLRAFKAQSDAITWEKESLITELRKELRVSDEEHRELL 102 (443)
Q Consensus 60 eAY~sVLrAF~AQS~~LSWeKE~LLTeLR~eL~ISdeEH~~~l 102 (443)
+-+.-+|++++...+.++ ..+|+..+...+++++|+=.+.+
T Consensus 4 ~~~~piL~~L~~~g~~~~--~~ei~~~v~~~~~ls~e~~~~~~ 44 (92)
T PF14338_consen 4 ELMPPILEALKDLGGSAS--RKEIYERVAERFGLSDEERNERL 44 (92)
T ss_pred HHHHHHHHHHHHcCCCcC--HHHHHHHHHHHhCCCHHHHHHHc
Confidence 446789999999666555 66899999999999999655443
No 74
>PF09548 Spore_III_AB: Stage III sporulation protein AB (spore_III_AB); InterPro: IPR014198 This entry represents the stage III sporulation protein AB, which is encoded in a spore formation operon: spoIIIAABCDEFGH that is under sigma G regulation []. A comparative genome analysis of all sequenced genomes of Firmicutes shows that the proteins are strictly conserved among the sub-set of endospore-forming species.
Probab=20.34 E-value=5.3e+02 Score=23.89 Aligned_cols=60 Identities=22% Similarity=0.355 Sum_probs=47.5
Q ss_pred CCCcccchhhHHHHHHHHH----HHHHHHHHHHHHhccCCCChHHHHHHHHHHHHhCCChHHHHH
Q 013410 40 SASLPRMQNDMATQIHSVE----QDAYSSVLRAFKAQSDAITWEKESLITELRKELRVSDEEHRE 100 (443)
Q Consensus 40 ~~py~r~~~~~~~~Ih~LE----~eAY~sVLrAF~AQS~~LSWeKE~LLTeLR~eL~ISdeEH~~ 100 (443)
..||...-.++..++.+-+ .+|+...+..+... ..|+-+..++|.+|=+.|+.||.+...
T Consensus 63 ~~~~~~~f~~~a~~L~~~~~~~~~~~w~~~~~~~~~~-~~L~~~d~e~L~~lg~~LG~~D~~~Q~ 126 (170)
T PF09548_consen 63 EGPIGEFFERVAERLEKNEGESFAEAWEEAVEKLLKE-SALKKEDKEILLELGKSLGYSDREMQE 126 (170)
T ss_pred cchHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhhhhc-CCCCHHHHHHHHHHHHHHccCCHHHHH
Confidence 3455555567778887777 67777777777764 689999999999999999999988765
No 75
>COG2944 Predicted transcriptional regulator [Transcription]
Probab=20.32 E-value=1.5e+02 Score=26.44 Aligned_cols=34 Identities=21% Similarity=0.452 Sum_probs=28.3
Q ss_pred HHHHHHHhCCChHHHHHHHHHhchhHHHHHHHHHHhhcC
Q 013410 84 ITELRKELRVSDEEHRELLSKVNADDIILRIREWRKASG 122 (443)
Q Consensus 84 LTeLR~eL~ISdeEH~~~l~~v~~De~I~~iRe~r~~gg 122 (443)
|..||+.|++|..+--.+|.-- +.++|+|.++.-
T Consensus 49 Ik~iRe~~~lSQ~vFA~~L~vs-----~~Tv~~WEqGr~ 82 (104)
T COG2944 49 IKAIREKLGLSQPVFARYLGVS-----VSTVRKWEQGRK 82 (104)
T ss_pred HHHHHHHhCCCHHHHHHHHCCC-----HHHHHHHHcCCc
Confidence 6689999999999988877544 788999998764
No 76
>PF14013 MT0933_antitox: MT0933-like antitoxin protein
Probab=20.01 E-value=83 Score=24.47 Aligned_cols=27 Identities=26% Similarity=0.262 Sum_probs=23.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhcccCC
Q 013410 373 VEKAKRVLKEQELALVNAIAKLEDASD 399 (443)
Q Consensus 373 iEkAKk~LkehEqaL~dAIArL~eaSD 399 (443)
+.|||.+|..|+.-+-.+|.+.+++=|
T Consensus 2 ~DKak~~~~~~~dk~~~~iDKA~d~vd 28 (51)
T PF14013_consen 2 FDKAKDLASKNPDKIDQGIDKAGDFVD 28 (51)
T ss_pred chHHHHHHHHChHHHHHHHHHHHHHHH
Confidence 459999999999999999998887655
Done!