Query 015943
Match_columns 398
No_of_seqs 116 out of 131
Neff 3.6
Searched_HMMs 46136
Date Fri Mar 29 02:21:19 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/015943.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/015943hhsearch_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 3.3E-54 7.1E-59 413.0 18.2 262 2-297 5-272 (273)
2 PF03735 ENT: ENT domain; Int 99.9 4.6E-27 1E-31 188.5 9.3 72 5-77 1-72 (73)
3 PF09465 LBR_tudor: Lamin-B re 98.8 5.2E-09 1.1E-13 80.8 3.3 41 183-223 7-47 (55)
4 smart00743 Agenet Tudor-like d 98.1 2.6E-06 5.7E-11 64.3 4.2 54 183-237 4-59 (61)
5 smart00333 TUDOR Tudor domain. 96.4 0.0058 1.3E-07 45.0 4.5 39 182-222 3-42 (57)
6 PF09038 53-BP1_Tudor: Tumour 96.0 0.0045 9.8E-08 55.0 2.6 41 181-222 2-42 (122)
7 cd04508 TUDOR Tudor domains ar 95.3 0.025 5.3E-07 40.3 3.7 38 185-223 1-39 (48)
8 KOG4675 Uncharacterized conser 89.6 5.8 0.00013 39.9 12.0 38 172-209 173-210 (273)
9 PF06003 SMN: Survival motor n 88.2 0.51 1.1E-05 46.3 3.7 51 183-236 70-120 (264)
10 KOG3026 Splicing factor SPF30 86.6 0.55 1.2E-05 46.4 2.9 36 183-218 92-127 (262)
11 PLN00104 MYST -like histone ac 80.0 10 0.00022 40.6 9.1 59 182-241 54-118 (450)
12 PF11717 Tudor-knot: RNA bindi 78.0 2.2 4.8E-05 32.3 2.7 49 184-234 3-53 (55)
13 PF02970 TBCA: Tubulin binding 65.1 16 0.00034 30.6 5.2 37 315-351 28-66 (90)
14 TIGR02612 mob_myst_A mobile my 56.3 19 0.00041 32.9 4.6 47 11-58 3-49 (150)
15 PF14717 DUF4465: Domain of un 54.1 7.5 0.00016 36.7 1.6 41 194-235 104-152 (182)
16 PF15057 DUF4537: Domain of un 52.9 18 0.00039 31.8 3.7 31 185-217 1-31 (124)
17 PF05641 Agenet: Agenet domain 46.5 12 0.00025 29.4 1.4 38 196-234 18-60 (68)
18 TIGR01588 citE citrate lyase, 42.5 28 0.00061 34.3 3.7 27 312-341 227-253 (288)
19 KOG1924 RhoA GTPase effector D 42.2 6.5E+02 0.014 29.8 14.7 21 327-349 734-754 (1102)
20 cd01108 HTH_CueR Helix-Turn-He 39.4 52 0.0011 28.5 4.4 46 306-351 55-100 (127)
21 cd00592 HTH_MerR-like Helix-Tu 38.7 79 0.0017 25.7 5.2 43 308-351 56-98 (100)
22 PF07104 DUF1366: Protein of u 37.1 84 0.0018 28.0 5.4 45 308-352 46-108 (116)
23 KOG1328 Synaptic vesicle prote 37.0 43 0.00093 38.5 4.3 57 6-64 54-110 (1103)
24 PF02828 L27: L27 domain; Int 36.6 79 0.0017 23.8 4.5 36 36-72 6-41 (56)
25 PF07039 DUF1325: SGF29 tudor- 35.5 58 0.0013 29.0 4.2 43 184-226 74-117 (130)
26 cd04769 HTH_MerR2 Helix-Turn-H 35.3 83 0.0018 26.8 5.0 46 306-351 54-100 (116)
27 cd04782 HTH_BltR Helix-Turn-He 35.1 82 0.0018 26.1 4.8 42 306-352 55-96 (97)
28 PF13801 Metal_resist: Heavy-m 34.3 1.1E+02 0.0023 24.5 5.3 40 308-347 69-108 (125)
29 COG1308 EGD2 Transcription fac 34.2 24 0.00051 31.9 1.5 23 328-350 99-121 (122)
30 KOG2456 Aldehyde dehydrogenase 32.9 82 0.0018 34.0 5.4 40 309-348 6-50 (477)
31 cd04785 HTH_CadR-PbrR-like Hel 32.7 75 0.0016 27.5 4.4 47 306-352 55-101 (126)
32 KOG4094 Uncharacterized conser 32.3 2.2E+02 0.0048 27.0 7.5 69 5-75 76-154 (178)
33 cd04770 HTH_HMRTR Helix-Turn-H 32.1 89 0.0019 26.5 4.7 47 306-352 55-101 (123)
34 cd01106 HTH_TipAL-Mta Helix-Tu 31.3 92 0.002 25.8 4.5 40 307-352 56-95 (103)
35 PRK10343 RNA-binding protein Y 31.2 9.4 0.0002 32.8 -1.4 44 307-356 30-73 (97)
36 KOG2856 Adaptor protein PACSIN 31.0 5.2E+02 0.011 27.9 10.7 49 38-88 239-292 (472)
37 cd04787 HTH_HMRTR_unk Helix-Tu 31.0 1E+02 0.0022 27.0 4.9 46 306-351 55-100 (133)
38 smart00454 SAM Sterile alpha m 30.7 1.5E+02 0.0032 21.4 5.1 51 4-59 8-60 (68)
39 cd04772 HTH_TioE_rpt1 First He 29.9 96 0.0021 25.9 4.4 39 311-351 59-97 (99)
40 cd04784 HTH_CadR-PbrR Helix-Tu 29.2 1.1E+02 0.0024 26.3 4.8 45 306-351 55-100 (127)
41 TIGR00253 RNA_bind_YhbY putati 29.0 11 0.00024 32.2 -1.3 44 307-356 28-71 (95)
42 PF07374 DUF1492: Protein of u 28.9 1.7E+02 0.0036 24.6 5.7 49 3-59 46-94 (100)
43 TIGR02047 CadR-PbrR Cd(II)/Pb( 27.5 1.2E+02 0.0025 26.5 4.7 45 306-351 55-100 (127)
44 cd04783 HTH_MerR1 Helix-Turn-H 27.0 1.4E+02 0.0031 25.6 5.1 44 306-351 55-98 (126)
45 KOG3470 Beta-tubulin folding c 27.0 1.2E+02 0.0025 27.1 4.5 33 320-352 41-73 (107)
46 TIGR02044 CueR Cu(I)-responsiv 26.9 1.2E+02 0.0027 26.1 4.8 46 306-351 55-100 (127)
47 PF04967 HTH_10: HTH DNA bindi 26.7 94 0.002 24.0 3.5 38 21-60 10-47 (53)
48 cd04768 HTH_BmrR-like Helix-Tu 26.5 1.2E+02 0.0027 25.0 4.4 40 306-351 55-94 (96)
49 cd01109 HTH_YyaN Helix-Turn-He 26.1 1.4E+02 0.003 25.2 4.8 45 307-351 56-100 (113)
50 PF15608 PELOTA_1: PELOTA RNA 25.2 2.5E+02 0.0055 24.6 6.2 60 20-79 6-82 (100)
51 TIGR00264 alpha-NAC-related pr 24.9 40 0.00087 30.2 1.4 24 328-351 93-116 (116)
52 TIGR02015 BchY chlorophyllide 24.5 93 0.002 32.5 4.1 41 301-347 240-280 (422)
53 COG3078 Uncharacterized protei 24.3 2.1E+02 0.0045 27.2 5.8 51 5-56 97-155 (169)
54 COG2944 Predicted transcriptio 24.2 1.2E+02 0.0026 26.7 4.1 34 39-77 49-82 (104)
55 cd04773 HTH_TioE_rpt2 Second H 23.8 1.4E+02 0.0029 25.3 4.3 45 306-351 55-99 (108)
56 cd01107 HTH_BmrR Helix-Turn-He 23.7 1.4E+02 0.0029 25.2 4.3 41 306-351 56-96 (108)
57 cd04788 HTH_NolA-AlbR Helix-Tu 23.6 1.6E+02 0.0035 24.3 4.6 40 306-351 55-94 (96)
58 PF14338 Mrr_N: Mrr N-terminal 23.6 1.9E+02 0.0041 23.6 5.0 41 15-57 4-44 (92)
59 PF07647 SAM_2: SAM domain (St 23.6 92 0.002 23.3 2.9 53 3-60 7-62 (66)
60 TIGR02043 ZntR Zn(II)-responsi 23.5 1.6E+02 0.0035 25.7 4.8 47 306-352 56-103 (131)
61 PRK14478 nitrogenase molybdenu 23.3 1.3E+02 0.0029 31.8 5.0 50 301-350 270-319 (475)
62 PF15315 FRG2: Facioscapulohum 23.1 1.7E+02 0.0037 28.1 5.2 44 4-47 114-158 (181)
63 PRK05244 Der GTPase activator; 22.7 2.3E+02 0.0049 27.2 5.9 50 6-55 97-153 (177)
64 PRK10227 DNA-binding transcrip 22.3 1.7E+02 0.0036 26.0 4.7 45 306-350 55-99 (135)
65 PF14772 NYD-SP28: Sperm tail 22.2 1.7E+02 0.0037 24.5 4.6 27 34-60 73-99 (104)
66 cd04777 HTH_MerR-like_sg1 Heli 21.7 2.3E+02 0.0049 23.7 5.2 46 306-351 53-102 (107)
67 KOG0738 AAA+-type ATPase [Post 21.7 5E+02 0.011 28.4 8.8 36 302-337 185-226 (491)
68 PF03993 DUF349: Domain of Unk 21.3 1.8E+02 0.0038 22.4 4.2 36 34-77 35-71 (77)
69 PF05918 API5: Apoptosis inhib 21.2 32 0.00069 37.8 0.0 8 273-280 544-551 (556)
70 PRK09618 flgD flagellar basal 21.1 87 0.0019 28.8 2.8 40 180-220 87-126 (142)
71 PRK09514 zntR zinc-responsive 21.1 2E+02 0.0043 25.5 5.0 46 306-351 56-102 (140)
72 PRK06369 nac nascent polypepti 20.8 55 0.0012 29.2 1.4 24 328-351 91-114 (115)
73 TIGR02051 MerR Hg(II)-responsi 20.7 2.1E+02 0.0045 24.8 4.9 44 306-351 54-97 (124)
74 KOG2070 Guanine nucleotide exc 20.5 1E+02 0.0022 34.2 3.5 38 308-345 244-284 (661)
75 PF04220 YihI: Der GTPase acti 20.5 1.5E+02 0.0034 28.0 4.3 50 6-55 98-154 (169)
76 COG3877 Uncharacterized protei 20.3 91 0.002 28.1 2.6 16 308-323 57-72 (122)
No 1
>KOG4675 consensus Uncharacterized conserved protein, contains ENT domain [General function prediction only]
Probab=100.00 E-value=3.3e-54 Score=413.02 Aligned_cols=262 Identities=44% Similarity=0.709 Sum_probs=217.1
Q ss_pred cchHHHHHHHHHHHHHHHHHHHHHhccCCCchhHHHHHHHHHHHhCCChHHHHHHHHhhcchHHHHHHHH-HHHhcCCCC
Q 015943 2 QNDMATQIHSVEQDAYSSVLRAFKAQSDAITWEKESLITELRKELRVSDEEHRELLSKVNADDIILRIRE-WRKASGLQP 80 (398)
Q Consensus 2 ~~d~~~~Ih~LE~eAY~svLrAF~AQS~~lSWekE~LLTeLR~eL~IS~eEH~~~l~~v~~De~I~~iRe-~r~~g~~q~ 80 (398)
+.|++.+||+||++||++||+||+||+++||||||.+||+||++|+||+|||+++++++.+|++|.+||+ |+..+..|-
T Consensus 5 ~~~~~~~~~~le~eaY~~vl~af~aq~d~iS~ek~~~~teLrk~l~Is~eeh~~~~r~~~~d~~~~~i~~n~~~~n~~qe 84 (273)
T KOG4675|consen 5 RDEMEAQLHRLELEAYASVLRAFKAQGDAISWEKEELLTELRKELNISDEEHRMLVRRAINDDLITRIRENSRGSNKSQE 84 (273)
T ss_pred chhHHHHHHHHHHHHHHHHHHHHHhcCcccchhHHHHHHHHhhhhccCHHHHHHHHHHHhccHHHHHHHHhhcCCCchhh
Confidence 5799999999999999999999999999999999999999999999999999999999999999999994 665554332
Q ss_pred CCCCCCCCCCCCCCCCcchhhhhhhcccccccCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC----CCCCC
Q 015943 81 GMPSIPQPVHDPAPSPTVSASRKKTKTSQSVASLSTGAPSPGMHPSVQPSSSALRPGPPPGSKGKKPKSFS----TGLAG 156 (398)
Q Consensus 81 g~~~~~q~~hd~~Pspt~s~srKkqKts~s~~s~~~g~pSp~~~p~~qpsssa~K~g~~~~~k~kk~k~~s----s~~~g 156 (398)
-.+ ......+..|.++.+.++|+||+.++++++.+.+.+|+++|.+++. +.+.+.+.+ +++++
T Consensus 85 ~~~-e~~~~~~i~p~~~~sta~kiqkn~~~~~a~~~~~~~ps~~~t~~~~------------~~~~a~pss~s~~~p~~~ 151 (273)
T KOG4675|consen 85 WSG-EGRREWPIAPRPHPSTARKIQKNLLANKAIQHNAVLPSPIPTGPLT------------FNNTATPSSFSVPSPVSS 151 (273)
T ss_pred hhh-hhhhccccCCCcCchhHHHhhccccchhhhhcccCCCCccccCCcc------------cCcccccccccCCCCCCc
Confidence 111 1223456679999999999999999999999999999999866654 222222211 12222
Q ss_pred CcccccCCCCCCCCCCCCCCccccCccccceeecccCCCCCceeeEeee-cCCCCCceeeeecCCCCccchhhhccccCC
Q 015943 157 RGQVANRGSSGAFPANGPSEAATYNPLIGRKVWTRWPEDNHFYEAVITD-YNPNEGRHALVYDINTADETWEWVNLKEIS 235 (398)
Q Consensus 157 ~~q~~~r~~~~~~~~~~p~~~~~~~~LIGrkV~~~WPdDn~~yEa~Itd-Yn~~tg~H~LvYD~~t~~EtwEWVdL~eis 235 (398)
|+ ++|+ .+||||||+++||+++.|||++||+ |+..++.|+|+||+++-+++|+||||++|+
T Consensus 152 ~~-------------n~pp-----~slvgr~v~~k~pdk~~~te~iit~~~~~~E~~~~l~~~~~~~~~p~~wvdl~~I~ 213 (273)
T KOG4675|consen 152 WG-------------NVPP-----ESLVGRKVWIKWPDKRKFTEAIITQYDAEKEGHHLLVPDINDCNDPWEWVDLREIS 213 (273)
T ss_pred cc-------------cCCc-----hhhccccccccCcccccccccccccchhhhhhhhhcccccccccCCccccccccCC
Confidence 22 2333 5599999999999999999999999 777889999999999999999999999999
Q ss_pred CcCccccCCCCCccCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
Q 015943 236 PEDIKWEGDEPGISRKGGRPGPGRGTKKPLTRGGGVSGAGRGRGTMKPKKGFPFSQNGIGKK 297 (398)
Q Consensus 236 PedI~W~~e~pgi~~r~~~~g~g~g~~k~~~~~g~~~~~grgrg~~k~~k~~~~~qng~~~~ 297 (398)
||||+|+++++++..+.+++++|.|..+.+.+++. ..+||+|..+ |..+++.|||.+++
T Consensus 214 p~DIrw~g~~~~~~~~~~~~~~g~g~~~~t~~~~~--~~~~~~~~~~-~~~~~~~~ngg~~~ 272 (273)
T KOG4675|consen 214 PEDIRWEGGDPGNPVAPNHSKPGTGTFNTTRRTQS--PGARGRGPRT-RTGIPKTQNGGGRK 272 (273)
T ss_pred HHhccccCCCCCcccccCCCCCCcccccccCCccC--ccccCCCCcc-ccccccccCccccC
Confidence 99999999999999999999999999988877662 3345555544 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=99.94 E-value=4.6e-27 Score=188.50 Aligned_cols=72 Identities=57% Similarity=0.932 Sum_probs=63.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhccCCCchhHHHHHHHHHHHhCCChHHHHHHHHhhcchHHHHHHHHHHHhcC
Q 015943 5 MATQIHSVEQDAYSSVLRAFKAQSDAITWEKESLITELRKELRVSDEEHRELLSKVNADDIILRIREWRKASG 77 (398)
Q Consensus 5 ~~~~Ih~LE~eAY~svLrAF~AQS~~lSWekE~LLTeLR~eL~IS~eEH~~~l~~v~~De~I~~iRe~r~~g~ 77 (398)
|+++||+||++||++||+||+||++ |||+||.|||+||++|+||||||++++++|.+|+.|++||+|+++++
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 6889999999999999999999965 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=98.76 E-value=5.2e-09 Score=80.83 Aligned_cols=41 Identities=29% Similarity=0.627 Sum_probs=34.8
Q ss_pred cccceeecccCCCCCceeeEeeecCCCCCceeeeecCCCCc
Q 015943 183 LIGRKVWTRWPEDNHFYEAVITDYNPNEGRHALVYDINTAD 223 (398)
Q Consensus 183 LIGrkV~~~WPdDn~~yEa~ItdYn~~tg~H~LvYD~~t~~ 223 (398)
-+|++|+.+||+++-||||.|++||..+.+|.|.|++||..
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=98.14 E-value=2.6e-06 Score=64.29 Aligned_cols=54 Identities=26% Similarity=0.395 Sum_probs=49.0
Q ss_pred cccceeecccCCCCCceeeEeeecCCCCCceeeeecC--CCCccchhhhccccCCCc
Q 015943 183 LIGRKVWTRWPEDNHFYEAVITDYNPNEGRHALVYDI--NTADETWEWVNLKEISPE 237 (398)
Q Consensus 183 LIGrkV~~~WPdDn~~yEa~ItdYn~~tg~H~LvYD~--~t~~EtwEWVdL~eisPe 237 (398)
.+|.+|..+|++++.||+|+|+.++. +++|.|.|+. ...+|++++.+|+-+.|.
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 777899999999988764
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=96.40 E-value=0.0058 Score=44.96 Aligned_cols=39 Identities=26% Similarity=0.399 Sum_probs=34.3
Q ss_pred ccccceeecccCCCCCceeeEeeecCCCCCceeeeecC-CCC
Q 015943 182 PLIGRKVWTRWPEDNHFYEAVITDYNPNEGRHALVYDI-NTA 222 (398)
Q Consensus 182 ~LIGrkV~~~WPdDn~~yEa~ItdYn~~tg~H~LvYD~-~t~ 222 (398)
.-+|..|..+| +|+.||.|+|+++++. +...|.|.+ ++.
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=96.01 E-value=0.0045 Score=54.99 Aligned_cols=41 Identities=20% Similarity=0.549 Sum_probs=34.1
Q ss_pred CccccceeecccCCCCCceeeEeeecCCCCCceeeeecCCCC
Q 015943 181 NPLIGRKVWTRWPEDNHFYEAVITDYNPNEGRHALVYDINTA 222 (398)
Q Consensus 181 ~~LIGrkV~~~WPdDn~~yEa~ItdYn~~tg~H~LvYD~~t~ 222 (398)
.+|||++|-.+|-+++-||-++|+.. ...++..|.+|+++.
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=95.30 E-value=0.025 Score=40.34 Aligned_cols=38 Identities=18% Similarity=0.443 Sum_probs=30.6
Q ss_pred cceeecccCCCCCceeeEeeecCCCCCceeeeecC-CCCc
Q 015943 185 GRKVWTRWPEDNHFYEAVITDYNPNEGRHALVYDI-NTAD 223 (398)
Q Consensus 185 GrkV~~~WPdDn~~yEa~ItdYn~~tg~H~LvYD~-~t~~ 223 (398)
|..+..+|++|+.||.|+|+..++ ++.-.+.|.+ ++.+
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 6654
No 8
>KOG4675 consensus Uncharacterized conserved protein, contains ENT domain [General function prediction only]
Probab=89.56 E-value=5.8 Score=39.87 Aligned_cols=38 Identities=8% Similarity=-0.218 Sum_probs=33.2
Q ss_pred CCCCCccccCccccceeecccCCCCCceeeEeeecCCC
Q 015943 172 NGPSEAATYNPLIGRKVWTRWPEDNHFYEAVITDYNPN 209 (398)
Q Consensus 172 ~~p~~~~~~~~LIGrkV~~~WPdDn~~yEa~ItdYn~~ 209 (398)
....+++...+..++.++..|+-|+++|+..++-||..
T Consensus 173 ~~~te~iit~~~~~~E~~~~l~~~~~~~~~p~~wvdl~ 210 (273)
T KOG4675|consen 173 RKFTEAIITQYDAEKEGHHLLVPDINDCNDPWEWVDLR 210 (273)
T ss_pred ccccccccccchhhhhhhhhcccccccccCCccccccc
Confidence 44666777788999999999999999999999999984
No 9
>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=88.22 E-value=0.51 Score=46.32 Aligned_cols=51 Identities=27% Similarity=0.530 Sum_probs=38.0
Q ss_pred cccceeecccCCCCCceeeEeeecCCCCCceeeeecCCCCccchhhhccccCCC
Q 015943 183 LIGRKVWTRWPEDNHFYEAVITDYNPNEGRHALVYDINTADETWEWVNLKEISP 236 (398)
Q Consensus 183 LIGrkV~~~WPdDn~~yEa~ItdYn~~tg~H~LvYD~~t~~EtwEWVdL~eisP 236 (398)
-||-+++..|-+|..||+|+|+.-+...+.-.|+|+--.-. |.|.|.++=|
T Consensus 70 kvGd~C~A~~s~Dg~~Y~A~I~~i~~~~~~~~V~f~gYgn~---e~v~l~dL~~ 120 (264)
T PF06003_consen 70 KVGDKCMAVYSEDGQYYPATIESIDEEDGTCVVVFTGYGNE---EEVNLSDLKP 120 (264)
T ss_dssp -TT-EEEEE-TTTSSEEEEEEEEEETTTTEEEEEETTTTEE---EEEEGGGEEE
T ss_pred CCCCEEEEEECCCCCEEEEEEEEEcCCCCEEEEEEcccCCe---Eeeehhhhcc
Confidence 38889999999999999999999999999888888764322 3455555533
No 10
>KOG3026 consensus Splicing factor SPF30 [RNA processing and modification]
Probab=86.59 E-value=0.55 Score=46.39 Aligned_cols=36 Identities=28% Similarity=0.556 Sum_probs=31.9
Q ss_pred cccceeecccCCCCCceeeEeeecCCCCCceeeeec
Q 015943 183 LIGRKVWTRWPEDNHFYEAVITDYNPNEGRHALVYD 218 (398)
Q Consensus 183 LIGrkV~~~WPdDn~~yEa~ItdYn~~tg~H~LvYD 218 (398)
-||.||...|+||..||+|+|.+-.+.++.-+|.++
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 11
>PLN00104 MYST -like histone acetyltransferase; Provisional
Probab=79.98 E-value=10 Score=40.57 Aligned_cols=59 Identities=17% Similarity=0.297 Sum_probs=43.3
Q ss_pred ccccceeecccCCCCCceeeEeeecCCCC------CceeeeecCCCCccchhhhccccCCCcCccc
Q 015943 182 PLIGRKVWTRWPEDNHFYEAVITDYNPNE------GRHALVYDINTADETWEWVNLKEISPEDIKW 241 (398)
Q Consensus 182 ~LIGrkV~~~WPdDn~~yEa~ItdYn~~t------g~H~LvYD~~t~~EtwEWVdL~eisPedI~W 241 (398)
--||-+|..+|..|..||+|.|.+-.... .++-|-|.--+.. -.|||+...|....++.
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 35899999999999999999999888633 3566777644432 23699988886555544
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=78.04 E-value=2.2 Score=32.27 Aligned_cols=49 Identities=31% Similarity=0.530 Sum_probs=35.6
Q ss_pred ccceeecccCCCCCceeeEeeecCCCCC--ceeeeecCCCCccchhhhccccC
Q 015943 184 IGRKVWTRWPEDNHFYEAVITDYNPNEG--RHALVYDINTADETWEWVNLKEI 234 (398)
Q Consensus 184 IGrkV~~~WPdDn~~yEa~ItdYn~~tg--~H~LvYD~~t~~EtwEWVdL~ei 234 (398)
||-+|..+| .++.||+|.|.+-+...+ ++.|-|. +-..--.|||+.+.|
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 889999999999887654 4555565 444445578876654
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=65.10 E-value=16 Score=30.63 Aligned_cols=37 Identities=24% Similarity=0.460 Sum_probs=29.0
Q ss_pred HHH--hhcCCCChhhHHHHHHHHHHHHHHHHHHHHHhcc
Q 015943 315 EKV--FAANHPDPTDVEKAKRVLKEQELALVNAIAKLED 351 (398)
Q Consensus 315 erv--f~~~~pDp~eiEkAKk~LkehEqaL~dAIArL~e 351 (398)
+|| |-+.+.|+.+|-+.+.+|.|.+.-|-|...||..
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 4566779999999999999998887777776654
No 14
>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=56.32 E-value=19 Score=32.93 Aligned_cols=47 Identities=23% Similarity=0.258 Sum_probs=40.1
Q ss_pred HHHHHHHHHHHHHHHhccCCCchhHHHHHHHHHHHhCCChHHHHHHHH
Q 015943 11 SVEQDAYSSVLRAFKAQSDAITWEKESLITELRKELRVSDEEHRELLS 58 (398)
Q Consensus 11 ~LE~eAY~svLrAF~AQS~~lSWekE~LLTeLR~eL~IS~eEH~~~l~ 58 (398)
.|.++.|...|.+|+. .+.+++.++..|..+|+++++|.++=-+.+.
T Consensus 3 ~~~~~q~~~~l~~~~~-~~~~~~p~~~~Ir~~R~~lGmTq~eLAerlG 49 (150)
T TIGR02612 3 KLALRQLDQRLVALAG-AGAIQTPKEGWVRAIRKALGMSGAQLAGRLG 49 (150)
T ss_pred HHHHHHHHHHHHHHhh-ccccccCcHHHHHHHHHHcCCCHHHHHHHhC
Confidence 5778889999999876 3789999999999999999999887666554
No 15
>PF14717 DUF4465: Domain of unknown function (DUF4465); PDB: 4E9K_A.
Probab=54.08 E-value=7.5 Score=36.75 Aligned_cols=41 Identities=27% Similarity=0.685 Sum_probs=24.7
Q ss_pred CCCCceeeEeeecCCC----CCceeeeecCCC----CccchhhhccccCC
Q 015943 194 EDNHFYEAVITDYNPN----EGRHALVYDINT----ADETWEWVNLKEIS 235 (398)
Q Consensus 194 dDn~~yEa~ItdYn~~----tg~H~LvYD~~t----~~EtwEWVdL~eis 235 (398)
.++.||.-+|+-||.. +-+|-|. |--+ .-.+|.||||+.+.
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 4455554 2222 34799999999873
No 16
>PF15057 DUF4537: Domain of unknown function (DUF4537)
Probab=52.88 E-value=18 Score=31.84 Aligned_cols=31 Identities=29% Similarity=0.462 Sum_probs=25.5
Q ss_pred cceeecccCCCCCceeeEeeecCCCCCceeeee
Q 015943 185 GRKVWTRWPEDNHFYEAVITDYNPNEGRHALVY 217 (398)
Q Consensus 185 GrkV~~~WPdDn~~yEa~ItdYn~~tg~H~LvY 217 (398)
|.+|-.||..|.-||-|+|..+= +..|.||=
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 44555553
No 17
>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=46.48 E-value=12 Score=29.36 Aligned_cols=38 Identities=21% Similarity=0.422 Sum_probs=26.5
Q ss_pred CCceeeEeeecCCCCCceeeeecCCCCc-c----chhhhccccC
Q 015943 196 NHFYEAVITDYNPNEGRHALVYDINTAD-E----TWEWVNLKEI 234 (398)
Q Consensus 196 n~~yEa~ItdYn~~tg~H~LvYD~~t~~-E----twEWVdL~ei 234 (398)
..||.|+|.+.+... +..+.|+.-..+ + .=|||+++.|
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 999999654443 2 3568887765
No 18
>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=42.52 E-value=28 Score=34.28 Aligned_cols=27 Identities=37% Similarity=0.553 Sum_probs=22.1
Q ss_pred HHHHHHhhcCCCChhhHHHHHHHHHHHHHH
Q 015943 312 KEVEKVFAANHPDPTDVEKAKRVLKEQELA 341 (398)
Q Consensus 312 keVervf~~~~pDp~eiEkAKk~LkehEqa 341 (398)
.-|.++|+ |.+.||++|+++|+..|++
T Consensus 227 ~~in~~f~---Ps~~ei~~A~~i~~a~~~~ 253 (288)
T TIGR01588 227 ELVHKVYA---PTEKEIDKAIEVIAAAEEA 253 (288)
T ss_pred HHHHHhcC---cCHHHHHHHHHHHHHHHHH
Confidence 44666776 9999999999999888875
No 19
>KOG1924 consensus RhoA GTPase effector DIA/Diaphanous [Signal transduction mechanisms; Cytoskeleton]
Probab=42.19 E-value=6.5e+02 Score=29.80 Aligned_cols=21 Identities=19% Similarity=0.289 Sum_probs=11.3
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHh
Q 015943 327 DVEKAKRVLKEQELALVNAIAKL 349 (398)
Q Consensus 327 eiEkAKk~LkehEqaL~dAIArL 349 (398)
-|+.--|-|- ||.+|+-|+.|
T Consensus 734 ~iqnLik~lP--e~E~l~~L~e~ 754 (1102)
T KOG1924|consen 734 MIQNLIKHLP--EQEQLNKLSEL 754 (1102)
T ss_pred HHHHHHHhCC--CHHHHHHHHHH
Confidence 3455555555 44456666666
No 20
>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=39.40 E-value=52 Score=28.53 Aligned_cols=46 Identities=17% Similarity=0.172 Sum_probs=32.8
Q ss_pred cchhHHHHHHHHhhcCCCChhhHHHHHHHHHHHHHHHHHHHHHhcc
Q 015943 306 HTETLIKEVEKVFAANHPDPTDVEKAKRVLKEQELALVNAIAKLED 351 (398)
Q Consensus 306 ~T~slikeVervf~~~~pDp~eiEkAKk~LkehEqaL~dAIArL~e 351 (398)
+.+-=++|+.++|.....+....+..+.+|++|.+.|-..|++|..
T Consensus 55 ~~G~sL~eI~~~l~~~~~~~~~~~~~~~~l~~~~~~l~~~i~~L~~ 100 (127)
T cd01108 55 DLGFSLEEIRELLALWRDPSRASADVKALALEHIAELERKIAELQA 100 (127)
T ss_pred HcCCCHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 5566688899988733323334566788999999888888888764
No 21
>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=38.74 E-value=79 Score=25.68 Aligned_cols=43 Identities=23% Similarity=0.327 Sum_probs=34.1
Q ss_pred hhHHHHHHHHhhcCCCChhhHHHHHHHHHHHHHHHHHHHHHhcc
Q 015943 308 ETLIKEVEKVFAANHPDPTDVEKAKRVLKEQELALVNAIAKLED 351 (398)
Q Consensus 308 ~slikeVervf~~~~pDp~eiEkAKk~LkehEqaL~dAIArL~e 351 (398)
+.=++||.+++.....+.. ++..+.+|+.|-+.|...|..|.-
T Consensus 56 g~~~~~i~~~l~~~~~~~~-~~~~~~~~~~~~~~l~~~~~~l~~ 98 (100)
T cd00592 56 GLSLKEIRELLDARDEELS-LAALLALLDEKLAELEEKIARLEA 98 (100)
T ss_pred CCCHHHHHHHHhcccccch-HHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3347889999875554444 999999999999999999988853
No 22
>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=37.10 E-value=84 Score=28.04 Aligned_cols=45 Identities=24% Similarity=0.327 Sum_probs=32.3
Q ss_pred hhHHHHHHHHhh-cCCCChhhHHH-----------------HHHHHHHHHHHHHHHHHHhccc
Q 015943 308 ETLIKEVEKVFA-ANHPDPTDVEK-----------------AKRVLKEQELALVNAIAKLEDA 352 (398)
Q Consensus 308 ~slikeVervf~-~~~pDp~eiEk-----------------AKk~LkehEqaL~dAIArL~ea 352 (398)
..||+.++.+|- .+.|+-++-|| ++++++.-...|+++|+.|-+.
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 457888887754 88888765544 4456667777889999988764
No 23
>KOG1328 consensus Synaptic vesicle protein BAIAP3, involved in vesicle priming/regulation [Intracellular trafficking, secretion, and vesicular transport; Signal transduction mechanisms]
Probab=36.99 E-value=43 Score=38.50 Aligned_cols=57 Identities=21% Similarity=0.303 Sum_probs=50.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHhccCCCchhHHHHHHHHHHHhCCChHHHHHHHHhhcchH
Q 015943 6 ATQIHSVEQDAYSSVLRAFKAQSDAITWEKESLITELRKELRVSDEEHRELLSKVNADD 64 (398)
Q Consensus 6 ~~~Ih~LE~eAY~svLrAF~AQS~~lSWekE~LLTeLR~eL~IS~eEH~~~l~~v~~De 64 (398)
..+|..|+-+|-+-|+.++-+ +.+-=++|.|+..+|+.|+++-+||-+...+|...+
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 467889999999999999984 788889999999999999999999998887775544
No 24
>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=36.56 E-value=79 Score=23.81 Aligned_cols=36 Identities=19% Similarity=0.158 Sum_probs=31.4
Q ss_pred HHHHHHHHHHhCCChHHHHHHHHhhcchHHHHHHHHH
Q 015943 36 ESLITELRKELRVSDEEHRELLSKVNADDIILRIREW 72 (398)
Q Consensus 36 E~LLTeLR~eL~IS~eEH~~~l~~v~~De~I~~iRe~ 72 (398)
..+|++|...+..+ .+...+|.+|-+++.++.|++.
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 35788999999998 7788899999999999999984
No 25
>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=35.51 E-value=58 Score=29.02 Aligned_cols=43 Identities=21% Similarity=0.441 Sum_probs=32.9
Q ss_pred ccceeecccCCCCCceeeEeeecC-CCCCceeeeecCCCCccch
Q 015943 184 IGRKVWTRWPEDNHFYEAVITDYN-PNEGRHALVYDINTADETW 226 (398)
Q Consensus 184 IGrkV~~~WPdDn~~yEa~ItdYn-~~tg~H~LvYD~~t~~Etw 226 (398)
.|.+|...||+--.||.|+|..=. ..++...|.+|..+.....
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 3678889999888876543
No 26
>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=35.26 E-value=83 Score=26.76 Aligned_cols=46 Identities=13% Similarity=0.239 Sum_probs=35.4
Q ss_pred cchhHHHHHHHHhhc-CCCChhhHHHHHHHHHHHHHHHHHHHHHhcc
Q 015943 306 HTETLIKEVEKVFAA-NHPDPTDVEKAKRVLKEQELALVNAIAKLED 351 (398)
Q Consensus 306 ~T~slikeVervf~~-~~pDp~eiEkAKk~LkehEqaL~dAIArL~e 351 (398)
..+--|+|+..+|.. ...++.-.+..+.+|.++.+.|-+.|++|.+
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 27
>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=35.05 E-value=82 Score=26.09 Aligned_cols=42 Identities=19% Similarity=0.302 Sum_probs=33.0
Q ss_pred cchhHHHHHHHHhhcCCCChhhHHHHHHHHHHHHHHHHHHHHHhccc
Q 015943 306 HTETLIKEVEKVFAANHPDPTDVEKAKRVLKEQELALVNAIAKLEDA 352 (398)
Q Consensus 306 ~T~slikeVervf~~~~pDp~eiEkAKk~LkehEqaL~dAIArL~ea 352 (398)
..+-=|+|+..++.. .+ ++..+++|++|.+.|-..|++|..+
T Consensus 55 ~~G~~l~eI~~~l~~--~~---~~~~~~~l~~~~~~l~~~i~~l~~~ 96 (97)
T cd04782 55 ELGISLKEIKDYLDN--RN---PDELIELLKKQEKEIKEEIEELQKI 96 (97)
T ss_pred HcCCCHHHHHHHHhc--CC---HHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 445557889998873 23 4678899999999999999999754
No 28
>PF13801 Metal_resist: Heavy-metal resistance; PDB: 3EPV_C 2Y3D_A 2Y3H_D 2Y3G_B 2Y3B_A 2Y39_A 3LAY_H.
Probab=34.27 E-value=1.1e+02 Score=24.50 Aligned_cols=40 Identities=20% Similarity=0.277 Sum_probs=29.5
Q ss_pred hhHHHHHHHHhhcCCCChhhHHHHHHHHHHHHHHHHHHHH
Q 015943 308 ETLIKEVEKVFAANHPDPTDVEKAKRVLKEQELALVNAIA 347 (398)
Q Consensus 308 ~slikeVervf~~~~pDp~eiEkAKk~LkehEqaL~dAIA 347 (398)
..+-.|+..++.+.+||+.+|+.+-+-+.+.+..|...+.
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 3455677778889999999999988877777777665544
No 29
>COG1308 EGD2 Transcription factor homologous to NACalpha-BTF3 [Transcription]
Probab=34.21 E-value=24 Score=31.87 Aligned_cols=23 Identities=39% Similarity=0.390 Sum_probs=21.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhc
Q 015943 328 VEKAKRVLKEQELALVNAIAKLE 350 (398)
Q Consensus 328 iEkAKk~LkehEqaL~dAIArL~ 350 (398)
-|+|.|.|+|+.-.|.+||=+|.
T Consensus 99 reeA~kAL~e~~GDlaeAIm~L~ 121 (122)
T COG1308 99 REEAIKALEEAGGDLAEAIMKLT 121 (122)
T ss_pred HHHHHHHHHHcCCcHHHHHHHhc
Confidence 48999999999999999999985
No 30
>KOG2456 consensus Aldehyde dehydrogenase [Energy production and conversion]
Probab=32.91 E-value=82 Score=34.00 Aligned_cols=40 Identities=20% Similarity=0.468 Sum_probs=32.3
Q ss_pred hHHHHHHHHhhcCCCChhh-----HHHHHHHHHHHHHHHHHHHHH
Q 015943 309 TLIKEVEKVFAANHPDPTD-----VEKAKRVLKEQELALVNAIAK 348 (398)
Q Consensus 309 slikeVervf~~~~pDp~e-----iEkAKk~LkehEqaL~dAIAr 348 (398)
..++++..-|.+..--|+| +++-+++++|||+.|++|+++
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 3477777778877666665 677789999999999999985
No 31
>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=32.71 E-value=75 Score=27.48 Aligned_cols=47 Identities=13% Similarity=0.163 Sum_probs=32.9
Q ss_pred cchhHHHHHHHHhhcCCCChhhHHHHHHHHHHHHHHHHHHHHHhccc
Q 015943 306 HTETLIKEVEKVFAANHPDPTDVEKAKRVLKEQELALVNAIAKLEDA 352 (398)
Q Consensus 306 ~T~slikeVervf~~~~pDp~eiEkAKk~LkehEqaL~dAIArL~ea 352 (398)
.++-=++|+..+|...........+++.+|++|-+.|-..|++|..+
T Consensus 55 ~~G~sL~eI~~~l~~~~~~~~~~~~~~~~l~~~~~~l~~~i~~L~~~ 101 (126)
T cd04785 55 DLGFSLEEIRALLALSDRPDRSCAEADAIARAHLADVRARIADLRRL 101 (126)
T ss_pred HCCCCHHHHHHHHhhhhcCCCCHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 45566888898887432222346777888988888888888887643
No 32
>KOG4094 consensus Uncharacterized conserved protein [Function unknown]
Probab=32.30 E-value=2.2e+02 Score=27.01 Aligned_cols=69 Identities=25% Similarity=0.373 Sum_probs=46.9
Q ss_pred HHHHH--HHHHHHHHHHHHHHHHhccCCCchhHHHHHH-HHHHHhC----CChHHHHHHHHhhcchHHHHHH---HHHHH
Q 015943 5 MATQI--HSVEQDAYSSVLRAFKAQSDAITWEKESLIT-ELRKELR----VSDEEHRELLSKVNADDIILRI---REWRK 74 (398)
Q Consensus 5 ~~~~I--h~LE~eAY~svLrAF~AQS~~lSWekE~LLT-eLR~eL~----IS~eEH~~~l~~v~~De~I~~i---Re~r~ 74 (398)
++.++ .+.|++++-+-.=|=+- ..++-|||..|. +|++|++ ||-+|-.++-...-++-.+..| |+|-.
T Consensus 76 Ler~lRl~R~E~~~WN~dFWa~hN--~~F~~eKedFi~~kL~~EsG~~~~vsA~ems~FYk~FL~kn~~~hm~YNr~WY~ 153 (178)
T KOG4094|consen 76 LERQLRLAREELNQWNSDFWAEHN--QLFDREKEDFIERKLQQESGRLEHVSANEMSEFYKDFLNKNHVAHMAYNREWYR 153 (178)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHh--HHHHHHHHHHHHHHHHHhhccccccCHHHHHHHHHHHHhhhHHHHHHHhHHHHH
Confidence 45544 45677777765544433 467889999994 7899998 8888877766666566655555 77754
Q ss_pred h
Q 015943 75 A 75 (398)
Q Consensus 75 ~ 75 (398)
.
T Consensus 154 r 154 (178)
T KOG4094|consen 154 R 154 (178)
T ss_pred h
Confidence 3
No 33
>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=32.14 E-value=89 Score=26.53 Aligned_cols=47 Identities=13% Similarity=0.215 Sum_probs=31.8
Q ss_pred cchhHHHHHHHHhhcCCCChhhHHHHHHHHHHHHHHHHHHHHHhccc
Q 015943 306 HTETLIKEVEKVFAANHPDPTDVEKAKRVLKEQELALVNAIAKLEDA 352 (398)
Q Consensus 306 ~T~slikeVervf~~~~pDp~eiEkAKk~LkehEqaL~dAIArL~ea 352 (398)
..+-=++|+..+|......-...+..+.+|+++.+.|-..|++|..+
T Consensus 55 ~~G~sl~eI~~~l~~~~~~~~~~~~~~~~l~~~~~~l~~~i~~l~~~ 101 (123)
T cd04770 55 ALGFSLAEIRELLSLRDDGAAPCAEVRALLEEKLAEVEAKIAELQAL 101 (123)
T ss_pred HCCCCHHHHHHHHHhhhcCCCCHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34444788888887433222235677888888888888888877643
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=31.27 E-value=92 Score=25.82 Aligned_cols=40 Identities=20% Similarity=0.263 Sum_probs=31.3
Q ss_pred chhHHHHHHHHhhcCCCChhhHHHHHHHHHHHHHHHHHHHHHhccc
Q 015943 307 TETLIKEVEKVFAANHPDPTDVEKAKRVLKEQELALVNAIAKLEDA 352 (398)
Q Consensus 307 T~slikeVervf~~~~pDp~eiEkAKk~LkehEqaL~dAIArL~ea 352 (398)
.+-=|+|+.+++...+ +.++.+|++|-+.|.+.|++|..+
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 778999999999999999998653
No 35
>PRK10343 RNA-binding protein YhbY; Provisional
Probab=31.17 E-value=9.4 Score=32.82 Aligned_cols=44 Identities=16% Similarity=0.238 Sum_probs=32.3
Q ss_pred chhHHHHHHHHhhcCCCChhhHHHHHHHHHHHHHHHHHHHHHhcccCCCc
Q 015943 307 TETLIKEVEKVFAANHPDPTDVEKAKRVLKEQELALVNAIAKLEDASDGE 356 (398)
Q Consensus 307 T~slikeVervf~~~~pDp~eiEkAKk~LkehEqaL~dAIArL~eaSD~E 356 (398)
||++|.|+++.+. -.|+=|.| +|+.-.....+++..|+++++.|
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 34666776 66666666667777777766543
No 36
>KOG2856 consensus Adaptor protein PACSIN [Signal transduction mechanisms; Intracellular trafficking, secretion, and vesicular transport; Cytoskeleton]
Probab=30.98 E-value=5.2e+02 Score=27.93 Aligned_cols=49 Identities=29% Similarity=0.451 Sum_probs=35.4
Q ss_pred HHHHHHHHhCCChH-----HHHHHHHhhcchHHHHHHHHHHHhcCCCCCCCCCCCC
Q 015943 38 LITELRKELRVSDE-----EHRELLSKVNADDIILRIREWRKASGLQPGMPSIPQP 88 (398)
Q Consensus 38 LLTeLR~eL~IS~e-----EH~~~l~~v~~De~I~~iRe~r~~g~~q~g~~~~~q~ 88 (398)
+|-++-..|+|+.. -|+++-.-|++-+..+-||-||...| |||..+...
T Consensus 239 il~~v~~hldl~~~~~~~~ly~eleqsIr~Ad~eeDLrww~s~hG--~~mamnWPq 292 (472)
T KOG2856|consen 239 ILLKVQRHLDLSRNSSYSGLYRELEQSIRAADAEEDLRWWRSNHG--PGMAMNWPQ 292 (472)
T ss_pred HHHHHHHHhhhhhhcchHHHHHHHHHHHhccchHHHHHHHHhcCC--CccccCCch
Confidence 34455555998875 48888888999888999999998766 455444433
No 37
>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=30.96 E-value=1e+02 Score=26.95 Aligned_cols=46 Identities=9% Similarity=0.207 Sum_probs=31.6
Q ss_pred cchhHHHHHHHHhhcCCCChhhHHHHHHHHHHHHHHHHHHHHHhcc
Q 015943 306 HTETLIKEVEKVFAANHPDPTDVEKAKRVLKEQELALVNAIAKLED 351 (398)
Q Consensus 306 ~T~slikeVervf~~~~pDp~eiEkAKk~LkehEqaL~dAIArL~e 351 (398)
.++-=++|+..+|.....+..-....+.+|+++-+.|-..|++|..
T Consensus 55 ~~G~sL~eI~~~l~~~~~~~~~~~~~~~~l~~~~~~l~~~i~~l~~ 100 (133)
T cd04787 55 QLGFSLKDIKEILSHADQGESPCPMVRRLIEQRLAETERRIKELLK 100 (133)
T ss_pred HcCCCHHHHHHHHhhhccCCCcHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4555688899998744333333456678888888888888887764
No 38
>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=30.72 E-value=1.5e+02 Score=21.41 Aligned_cols=51 Identities=25% Similarity=0.300 Sum_probs=29.5
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHhccCCCchh-HHHHH-HHHHHHhCCChHHHHHHHHh
Q 015943 4 DMATQIHSVEQDAYSSVLRAFKAQSDAITWE-KESLI-TELRKELRVSDEEHRELLSK 59 (398)
Q Consensus 4 d~~~~Ih~LE~eAY~svLrAF~AQS~~lSWe-kE~LL-TeLR~eL~IS~eEH~~~l~~ 59 (398)
++..=|..+...-| +.+|..+ .++-. .-.+. .+..++++|.+..||..+.+
T Consensus 8 ~v~~wL~~~g~~~y---~~~f~~~--~i~g~~ll~~~~~~~l~~lgi~~~~~r~~ll~ 60 (68)
T smart00454 8 SVADWLESIGLEQY---ADNFRKN--GIDGALLLLLTSEEDLKELGITKLGHRKKILK 60 (68)
T ss_pred HHHHHHHHCChHHH---HHHHHHC--CCCHHHHHhcChHHHHHHcCCCcHHHHHHHHH
Confidence 34444555544444 4555553 34333 23333 56678999999999986543
No 39
>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=29.88 E-value=96 Score=25.90 Aligned_cols=39 Identities=15% Similarity=0.215 Sum_probs=27.8
Q ss_pred HHHHHHHhhcCCCChhhHHHHHHHHHHHHHHHHHHHHHhcc
Q 015943 311 IKEVEKVFAANHPDPTDVEKAKRVLKEQELALVNAIAKLED 351 (398)
Q Consensus 311 ikeVervf~~~~pDp~eiEkAKk~LkehEqaL~dAIArL~e 351 (398)
++++.+++...+... ++.++.+|.+|.+.|...|++|..
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 348999999999999999999974
No 40
>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=29.19 E-value=1.1e+02 Score=26.30 Aligned_cols=45 Identities=13% Similarity=0.316 Sum_probs=31.7
Q ss_pred cchhHHHHHHHHhhcC-CCChhhHHHHHHHHHHHHHHHHHHHHHhcc
Q 015943 306 HTETLIKEVEKVFAAN-HPDPTDVEKAKRVLKEQELALVNAIAKLED 351 (398)
Q Consensus 306 ~T~slikeVervf~~~-~pDp~eiEkAKk~LkehEqaL~dAIArL~e 351 (398)
..+-=++|+..+|... .++ ...+.+..+|.++.+.|-..|++|..
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 4455688899988742 233 23567788888888888888887753
No 41
>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=29.02 E-value=11 Score=32.15 Aligned_cols=44 Identities=25% Similarity=0.256 Sum_probs=31.9
Q ss_pred chhHHHHHHHHhhcCCCChhhHHHHHHHHHHHHHHHHHHHHHhcccCCCc
Q 015943 307 TETLIKEVEKVFAANHPDPTDVEKAKRVLKEQELALVNAIAKLEDASDGE 356 (398)
Q Consensus 307 T~slikeVervf~~~~pDp~eiEkAKk~LkehEqaL~dAIArL~eaSD~E 356 (398)
||++|.|++..|. -.|+=|.| +|+.-.....+++..|++.+++|
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 66666666667777777766644
No 42
>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=28.86 E-value=1.7e+02 Score=24.56 Aligned_cols=49 Identities=22% Similarity=0.379 Sum_probs=37.6
Q ss_pred chHHHHHHHHHHHHHHHHHHHHHhccCCCchhHHHHHHHHHHHhCCChHHHHHHHHh
Q 015943 3 NDMATQIHSVEQDAYSSVLRAFKAQSDAITWEKESLITELRKELRVSDEEHRELLSK 59 (398)
Q Consensus 3 ~d~~~~Ih~LE~eAY~svLrAF~AQS~~lSWekE~LLTeLR~eL~IS~eEH~~~l~~ 59 (398)
.++...|.+|+-.-|+.||+-+|- +.++|+ +...+|+||...=-.+.++
T Consensus 46 ~ei~~~I~~l~d~~~r~iL~~~Yi--~~~~~~------~I~~~l~~S~~t~yr~~~~ 94 (100)
T PF07374_consen 46 LEIRRAINKLEDPDERLILRMRYI--NKLTWE------QIAEELNISRRTYYRIHKK 94 (100)
T ss_pred HHHHHHHHHccChhHHHHHHHHHH--cCCCHH------HHHHHHCCCHHHHHHHHHH
Confidence 356677888998999999999999 579997 4678899996554444443
No 43
>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=27.53 E-value=1.2e+02 Score=26.45 Aligned_cols=45 Identities=16% Similarity=0.296 Sum_probs=31.2
Q ss_pred cchhHHHHHHHHhhcC-CCChhhHHHHHHHHHHHHHHHHHHHHHhcc
Q 015943 306 HTETLIKEVEKVFAAN-HPDPTDVEKAKRVLKEQELALVNAIAKLED 351 (398)
Q Consensus 306 ~T~slikeVervf~~~-~pDp~eiEkAKk~LkehEqaL~dAIArL~e 351 (398)
..+.=++|+..+|... .++ .-.+..+.+|++|-+.|-..|++|..
T Consensus 55 ~lG~sL~eI~~~l~~~~~~~-~~~~~~~~~l~~~~~~l~~~i~~L~~ 100 (127)
T TIGR02047 55 TLDMSLAEIRQLLRYQDKPE-KSCSDVNALLDEHISHVRARIIKLQA 100 (127)
T ss_pred HcCCCHHHHHHHHHhhhCCC-CCHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4466688899888733 233 23567788888888888877777653
No 44
>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=26.97 E-value=1.4e+02 Score=25.62 Aligned_cols=44 Identities=16% Similarity=0.277 Sum_probs=30.2
Q ss_pred cchhHHHHHHHHhhcCCCChhhHHHHHHHHHHHHHHHHHHHHHhcc
Q 015943 306 HTETLIKEVEKVFAANHPDPTDVEKAKRVLKEQELALVNAIAKLED 351 (398)
Q Consensus 306 ~T~slikeVervf~~~~pDp~eiEkAKk~LkehEqaL~dAIArL~e 351 (398)
..+-=++|+..+|..... ...++.+.+|++|.+.|-..|++|..
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 344447888888873322 24677788888888888777777754
No 45
>KOG3470 consensus Beta-tubulin folding cofactor A [Posttranslational modification, protein turnover, chaperones]
Probab=26.96 E-value=1.2e+02 Score=27.09 Aligned_cols=33 Identities=33% Similarity=0.538 Sum_probs=28.8
Q ss_pred cCCCChhhHHHHHHHHHHHHHHHHHHHHHhccc
Q 015943 320 ANHPDPTDVEKAKRVLKEQELALVNAIAKLEDA 352 (398)
Q Consensus 320 ~~~pDp~eiEkAKk~LkehEqaL~dAIArL~ea 352 (398)
..-.||++|+|-+-+|+|+=..|-|+.-||..+
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 46
>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=26.92 E-value=1.2e+02 Score=26.09 Aligned_cols=46 Identities=11% Similarity=0.115 Sum_probs=27.9
Q ss_pred cchhHHHHHHHHhhcCCCChhhHHHHHHHHHHHHHHHHHHHHHhcc
Q 015943 306 HTETLIKEVEKVFAANHPDPTDVEKAKRVLKEQELALVNAIAKLED 351 (398)
Q Consensus 306 ~T~slikeVervf~~~~pDp~eiEkAKk~LkehEqaL~dAIArL~e 351 (398)
.++-=++|+.++|...+......+..+.+|.+|.+.|-..|++|..
T Consensus 55 ~~G~sL~eI~~~l~~~~~~~~~~~~~~~~l~~~~~~l~~~i~~L~~ 100 (127)
T TIGR02044 55 QVGFSLEECKELLNLWNDPNRTSADVKARTLEKVAEIERKISELQS 100 (127)
T ss_pred HCCCCHHHHHHHHHhhccCCCCHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4455578899888632221222455667777777777666666653
No 47
>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=26.70 E-value=94 Score=24.00 Aligned_cols=38 Identities=21% Similarity=0.266 Sum_probs=31.7
Q ss_pred HHHHHhccCCCchhHHHHHHHHHHHhCCChHHHHHHHHhh
Q 015943 21 LRAFKAQSDAITWEKESLITELRKELRVSDEEHRELLSKV 60 (398)
Q Consensus 21 LrAF~AQS~~lSWekE~LLTeLR~eL~IS~eEH~~~l~~v 60 (398)
..|+.. |=+.|-++.-+++|=++|+||...=.+.|++.
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 89999999999999999999998877777766
No 48
>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=26.49 E-value=1.2e+02 Score=25.00 Aligned_cols=40 Identities=18% Similarity=0.300 Sum_probs=32.6
Q ss_pred cchhHHHHHHHHhhcCCCChhhHHHHHHHHHHHHHHHHHHHHHhcc
Q 015943 306 HTETLIKEVEKVFAANHPDPTDVEKAKRVLKEQELALVNAIAKLED 351 (398)
Q Consensus 306 ~T~slikeVervf~~~~pDp~eiEkAKk~LkehEqaL~dAIArL~e 351 (398)
..+--++|+.+++... + +..+.+|.+|.+.|.+.|++|..
T Consensus 55 ~~G~~l~~I~~~l~~~--~----~~~~~~l~~~~~~l~~~i~~l~~ 94 (96)
T cd04768 55 ELGFSLAEIKELLDTE--M----EELTAMLLEKKQAIQQKIDRLQQ 94 (96)
T ss_pred HcCCCHHHHHHHHhcC--c----HHHHHHHHHHHHHHHHHHHHHHh
Confidence 4566689999998843 2 27899999999999999999874
No 49
>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=26.13 E-value=1.4e+02 Score=25.22 Aligned_cols=45 Identities=20% Similarity=0.304 Sum_probs=31.7
Q ss_pred chhHHHHHHHHhhcCCCChhhHHHHHHHHHHHHHHHHHHHHHhcc
Q 015943 307 TETLIKEVEKVFAANHPDPTDVEKAKRVLKEQELALVNAIAKLED 351 (398)
Q Consensus 307 T~slikeVervf~~~~pDp~eiEkAKk~LkehEqaL~dAIArL~e 351 (398)
.+-=++|+..+|.....+...++....+|.++-+.|-..|+.|..
T Consensus 56 ~G~sL~eI~~~l~~~~~~~~~~~~~~~~l~~~~~~l~~~i~~l~~ 100 (113)
T cd01109 56 TGMSIKDIKEYAELRREGDSTIPERLELLEEHREELEEQIAELQE 100 (113)
T ss_pred cCCCHHHHHHHHHHHccCCccHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 444578888888733222233577788999999998888888764
No 50
>PF15608 PELOTA_1: PELOTA RNA binding domain
Probab=25.16 E-value=2.5e+02 Score=24.55 Aligned_cols=60 Identities=22% Similarity=0.291 Sum_probs=48.6
Q ss_pred HHHHHHhccCCCchhHHHHHHHHHHHhCCCh---------HHHHHHHHhh--------cchHHHHHHHHHHHhcCCC
Q 015943 20 VLRAFKAQSDAITWEKESLITELRKELRVSD---------EEHRELLSKV--------NADDIILRIREWRKASGLQ 79 (398)
Q Consensus 20 vLrAF~AQS~~lSWekE~LLTeLR~eL~IS~---------eEH~~~l~~v--------~~De~I~~iRe~r~~g~~q 79 (398)
.+.....+....+|.-...+++|..+++|+| |.=|-+|+++ ..|+.++.|+.+-+..+.+
T Consensus 6 ~~~~~~~~~~~~~~~g~~~v~~i~~~~gI~diN~IKPGIgEaTRvLLRRvP~~vLVr~~~~pd~~Hl~~LA~ekgVp 82 (100)
T PF15608_consen 6 DAEWLSQQDRAPTWQGWAEVERIAERYGISDINLIKPGIGEATRVLLRRVPWKVLVRDPDDPDLAHLLLLAEEKGVP 82 (100)
T ss_pred HHHhhhccccchhHHHHHHHHHHHHHhCCCCcccccCChhHHHHHHHhcCCCEEEECCCCCccHHHHHHHHHHcCCc
Confidence 3455666677899999999999999999998 6778899886 5678899999887766543
No 51
>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=24.85 E-value=40 Score=30.16 Aligned_cols=24 Identities=46% Similarity=0.530 Sum_probs=21.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhcc
Q 015943 328 VEKAKRVLKEQELALVNAIAKLED 351 (398)
Q Consensus 328 iEkAKk~LkehEqaL~dAIArL~e 351 (398)
-|+|++.|++.--.|++||-.|.+
T Consensus 93 ~e~A~~AL~~~~gDl~~AI~~L~~ 116 (116)
T TIGR00264 93 KEEARRALEECGGDLAEAIMKLEE 116 (116)
T ss_pred HHHHHHHHHHcCCCHHHHHHHhhC
Confidence 489999999999999999999864
No 52
>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=24.51 E-value=93 Score=32.49 Aligned_cols=41 Identities=22% Similarity=0.322 Sum_probs=33.3
Q ss_pred CeeeecchhHHHHHHHHhhcCCCChhhHHHHHHHHHHHHHHHHHHHH
Q 015943 301 DIEILHTETLIKEVEKVFAANHPDPTDVEKAKRVLKEQELALVNAIA 347 (398)
Q Consensus 301 ~i~i~~T~slikeVervf~~~~pDp~eiEkAKk~LkehEqaL~dAIA 347 (398)
-|-|-+|+..+.+|-++|+.. |..+ .+++++++..|+|||+
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 567779999999999999832 4334 4489999999999998
No 53
>COG3078 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=24.25 E-value=2.1e+02 Score=27.15 Aligned_cols=51 Identities=20% Similarity=0.333 Sum_probs=36.7
Q ss_pred HHHHHHHHHHHHH-HHHHHHHHhccCCCchhHHH-------HHHHHHHHhCCChHHHHHH
Q 015943 5 MATQIHSVEQDAY-SSVLRAFKAQSDAITWEKES-------LITELRKELRVSDEEHREL 56 (398)
Q Consensus 5 ~~~~Ih~LE~eAY-~svLrAF~AQS~~lSWekE~-------LLTeLR~eL~IS~eEH~~~ 56 (398)
-..+|..||.++- -++|-+|-| ...||-+... -|.+|+.+|+|++++...-
T Consensus 97 p~~EL~~LEnde~L~~LLdrLda-getLs~edQ~~VD~~LDRI~~LMe~LGl~~dddEdD 155 (169)
T COG3078 97 PQAELELLENDERLDALLDRLDA-GETLSAEDQQWVDAKLDRIDELMEKLGLSYDDDEDD 155 (169)
T ss_pred HHHHHHHhhhhHHHHHHHHHhhc-cCcccHHHHHHHHHHHHHHHHHHHHhCCccCCchHH
Confidence 3567888887764 456777877 5677755433 3789999999999887543
No 54
>COG2944 Predicted transcriptional regulator [Transcription]
Probab=24.22 E-value=1.2e+02 Score=26.74 Aligned_cols=34 Identities=21% Similarity=0.452 Sum_probs=28.4
Q ss_pred HHHHHHHhCCChHHHHHHHHhhcchHHHHHHHHHHHhcC
Q 015943 39 ITELRKELRVSDEEHRELLSKVNADDIILRIREWRKASG 77 (398)
Q Consensus 39 LTeLR~eL~IS~eEH~~~l~~v~~De~I~~iRe~r~~g~ 77 (398)
|..||+.|++|..+--.+|.-- +.++|+|-++.-
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 5689999999999988888654 788999988764
No 55
>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=23.80 E-value=1.4e+02 Score=25.32 Aligned_cols=45 Identities=16% Similarity=0.188 Sum_probs=30.8
Q ss_pred cchhHHHHHHHHhhcCCCChhhHHHHHHHHHHHHHHHHHHHHHhcc
Q 015943 306 HTETLIKEVEKVFAANHPDPTDVEKAKRVLKEQELALVNAIAKLED 351 (398)
Q Consensus 306 ~T~slikeVervf~~~~pDp~eiEkAKk~LkehEqaL~dAIArL~e 351 (398)
..+-=++|+..++....-.. ..+..+++|.++.+.|...|+.|.+
T Consensus 55 ~~G~~l~~I~~~l~~~~~~~-~~~~~~~~l~~~~~~l~~~~~~~~~ 99 (108)
T cd04773 55 RGGYLLEQIATVVEQLRHAG-GTEALAAALEQRRVALTQRGRAMLD 99 (108)
T ss_pred HCCCCHHHHHHHHHHhhcCC-CHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 33455788888877321111 1367888999999999888888764
No 56
>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=23.68 E-value=1.4e+02 Score=25.21 Aligned_cols=41 Identities=17% Similarity=0.383 Sum_probs=32.3
Q ss_pred cchhHHHHHHHHhhcCCCChhhHHHHHHHHHHHHHHHHHHHHHhcc
Q 015943 306 HTETLIKEVEKVFAANHPDPTDVEKAKRVLKEQELALVNAIAKLED 351 (398)
Q Consensus 306 ~T~slikeVervf~~~~pDp~eiEkAKk~LkehEqaL~dAIArL~e 351 (398)
+++-=|+|+.+++..... +.+..+|+.+.+.|-..|.+|..
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 445557899999884432 88899999999999999888864
No 57
>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=23.62 E-value=1.6e+02 Score=24.32 Aligned_cols=40 Identities=13% Similarity=0.157 Sum_probs=31.4
Q ss_pred cchhHHHHHHHHhhcCCCChhhHHHHHHHHHHHHHHHHHHHHHhcc
Q 015943 306 HTETLIKEVEKVFAANHPDPTDVEKAKRVLKEQELALVNAIAKLED 351 (398)
Q Consensus 306 ~T~slikeVervf~~~~pDp~eiEkAKk~LkehEqaL~dAIArL~e 351 (398)
.++-=++|+.+++... +. ..+.+|++|.+.|-..|++|..
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 58
>PF14338 Mrr_N: Mrr N-terminal domain
Probab=23.60 E-value=1.9e+02 Score=23.60 Aligned_cols=41 Identities=22% Similarity=0.409 Sum_probs=32.5
Q ss_pred HHHHHHHHHHHhccCCCchhHHHHHHHHHHHhCCChHHHHHHH
Q 015943 15 DAYSSVLRAFKAQSDAITWEKESLITELRKELRVSDEEHRELL 57 (398)
Q Consensus 15 eAY~svLrAF~AQS~~lSWekE~LLTeLR~eL~IS~eEH~~~l 57 (398)
+-+..+|++|+..++.++ ..+|+..+...+++++|+=.+.+
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 456789999999767766 55899999999999999655444
No 59
>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=23.55 E-value=92 Score=23.27 Aligned_cols=53 Identities=25% Similarity=0.461 Sum_probs=33.5
Q ss_pred chHHHHHHHHHHHHHHHHHHHHHhcc-CC-CchhHHHHHHHHHHHhCCChHHHHH-HHHhh
Q 015943 3 NDMATQIHSVEQDAYSSVLRAFKAQS-DA-ITWEKESLITELRKELRVSDEEHRE-LLSKV 60 (398)
Q Consensus 3 ~d~~~~Ih~LE~eAY~svLrAF~AQS-~~-lSWekE~LLTeLR~eL~IS~eEH~~-~l~~v 60 (398)
.++..=|..+.+..|...++.....+ .. +.... .+|+ +++|++..||. +++.|
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 45666777777777877777665532 11 22222 3555 99999999987 44443
No 60
>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=23.48 E-value=1.6e+02 Score=25.72 Aligned_cols=47 Identities=9% Similarity=0.175 Sum_probs=32.9
Q ss_pred cchhHHHHHHHHhhcC-CCChhhHHHHHHHHHHHHHHHHHHHHHhccc
Q 015943 306 HTETLIKEVEKVFAAN-HPDPTDVEKAKRVLKEQELALVNAIAKLEDA 352 (398)
Q Consensus 306 ~T~slikeVervf~~~-~pDp~eiEkAKk~LkehEqaL~dAIArL~ea 352 (398)
..+-=++|+..+|... .++....+..+.+|+++.+.|-..|++|...
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 2232345777889999998888888887643
No 61
>PRK14478 nitrogenase molybdenum-cofactor biosynthesis protein NifE; Provisional
Probab=23.32 E-value=1.3e+02 Score=31.76 Aligned_cols=50 Identities=16% Similarity=0.245 Sum_probs=38.4
Q ss_pred CeeeecchhHHHHHHHHhhcCCCChhhHHHHHHHHHHHHHHHHHHHHHhc
Q 015943 301 DIEILHTETLIKEVEKVFAANHPDPTDVEKAKRVLKEQELALVNAIAKLE 350 (398)
Q Consensus 301 ~i~i~~T~slikeVervf~~~~pDp~eiEkAKk~LkehEqaL~dAIArL~ 350 (398)
.+.|-.|+..+++|.++|+...-+..-.++|.++++++++.+.++|.+.-
T Consensus 270 p~G~~~T~~~l~~la~~~~~~~~~~~~~~~~e~~i~~e~~~~~~~l~~~~ 319 (475)
T PRK14478 270 FYGIEDTSDSLRQIARLLVERGADAELVERTEALIAEEEAKAWAALEPYR 319 (475)
T ss_pred CCcHHHHHHHHHHHHHHHhhcCCChHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 36788999999999999942222222357888999999999999998854
No 62
>PF15315 FRG2: Facioscapulohumeral muscular dystrophy candidate 2
Probab=23.10 E-value=1.7e+02 Score=28.08 Aligned_cols=44 Identities=23% Similarity=0.457 Sum_probs=34.5
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHhcc-CCCchhHHHHHHHHHHHhC
Q 015943 4 DMATQIHSVEQDAYSSVLRAFKAQS-DAITWEKESLITELRKELR 47 (398)
Q Consensus 4 d~~~~Ih~LE~eAY~svLrAF~AQS-~~lSWekE~LLTeLR~eL~ 47 (398)
.+..-|+.|--.-|..+.+.-+-|- .+||||+-.+|++||--|-
T Consensus 114 sLVtslR~~SEaIYqD~aq~~aQq~~spLt~EQl~~L~qL~gpL~ 158 (181)
T PF15315_consen 114 SLVTSLRAMSEAIYQDLAQVQAQQHHSPLTWEQLSQLAQLRGPLC 158 (181)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhhcCCCCHHHHHHHHHhccHHH
Confidence 3556778888888998887766553 3699999999999998763
No 63
>PRK05244 Der GTPase activator; Provisional
Probab=22.66 E-value=2.3e+02 Score=27.19 Aligned_cols=50 Identities=22% Similarity=0.349 Sum_probs=38.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHhccCCCchhHHH-------HHHHHHHHhCCChHHHHH
Q 015943 6 ATQIHSVEQDAYSSVLRAFKAQSDAITWEKES-------LITELRKELRVSDEEHRE 55 (398)
Q Consensus 6 ~~~Ih~LE~eAY~svLrAF~AQS~~lSWekE~-------LLTeLR~eL~IS~eEH~~ 55 (398)
+.+|-.||-++.-.+|-.-.-.+..||=+... -|..|+.+|+|++++-.+
T Consensus 97 EqEL~~LEnD~rL~~LLdrLE~Ge~Ls~~dQ~yvD~~LdRie~LM~~LGI~~edd~~ 153 (177)
T PRK05244 97 EQELEKLENDERLNALLDRLEAGETLSAEDQKWVDEKLDRIDELMEKLGISDDDDEE 153 (177)
T ss_pred HHHHHHHhccHHHHHHHHHHHCCCcCCHHHHHHHHHHHHHHHHHHHHhCCCcccccc
Confidence 67889999999888877777667777754433 368899999999987543
No 64
>PRK10227 DNA-binding transcriptional regulator CueR; Provisional
Probab=22.29 E-value=1.7e+02 Score=26.02 Aligned_cols=45 Identities=13% Similarity=0.111 Sum_probs=25.6
Q ss_pred cchhHHHHHHHHhhcCCCChhhHHHHHHHHHHHHHHHHHHHHHhc
Q 015943 306 HTETLIKEVEKVFAANHPDPTDVEKAKRVLKEQELALVNAIAKLE 350 (398)
Q Consensus 306 ~T~slikeVervf~~~~pDp~eiEkAKk~LkehEqaL~dAIArL~ 350 (398)
.++-=++|+..+|.....+....+..+.+|.++.+.|-..|++|.
T Consensus 55 ~~G~sl~eI~~~l~~~~~~~~~~~~~~~~l~~~~~~l~~~i~~L~ 99 (135)
T PRK10227 55 QVGFNLEESGELVNLFNDPQRHSADVKRRTLEKVAEIERHIEELQ 99 (135)
T ss_pred HCCCCHHHHHHHHHhhccCCCCHHHHHHHHHHHHHHHHHHHHHHH
Confidence 445557888888763221222245556666666666666665554
No 65
>PF14772 NYD-SP28: Sperm tail
Probab=22.15 E-value=1.7e+02 Score=24.48 Aligned_cols=27 Identities=41% Similarity=0.580 Sum_probs=21.7
Q ss_pred hHHHHHHHHHHHhCCChHHHHHHHHhh
Q 015943 34 EKESLITELRKELRVSDEEHRELLSKV 60 (398)
Q Consensus 34 ekE~LLTeLR~eL~IS~eEH~~~l~~v 60 (398)
.|..||..|..+|.-.+++|...|+.=
T Consensus 73 ~Kd~lI~~L~~eL~~~deqy~~~lr~q 99 (104)
T PF14772_consen 73 RKDALIKELQQELKEADEQYVKALRKQ 99 (104)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 488888888888888888888876543
No 66
>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=21.68 E-value=2.3e+02 Score=23.67 Aligned_cols=46 Identities=22% Similarity=0.263 Sum_probs=33.8
Q ss_pred cchhHHHHHHHHhhcCCCC----hhhHHHHHHHHHHHHHHHHHHHHHhcc
Q 015943 306 HTETLIKEVEKVFAANHPD----PTDVEKAKRVLKEQELALVNAIAKLED 351 (398)
Q Consensus 306 ~T~slikeVervf~~~~pD----p~eiEkAKk~LkehEqaL~dAIArL~e 351 (398)
.++-=++|+..+|.....+ .......+.+|++|.+.|-..|++|..
T Consensus 53 ~~G~sL~eI~~~l~~~~~~~~~~~~~~~~~~~~l~~~~~~l~~~i~~l~~ 102 (107)
T cd04777 53 GLGFSLIEIQKIFSYKRLTKSRTHEDQDYYKSFLKNKKDELEKEIEDLKK 102 (107)
T ss_pred HCCCCHHHHHHHHHhcccccccchhhHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4555688888888743221 223466899999999999999999874
No 67
>KOG0738 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]
Probab=21.66 E-value=5e+02 Score=28.39 Aligned_cols=36 Identities=28% Similarity=0.506 Sum_probs=29.3
Q ss_pred eeeecch-hHHHHHHHHhhcCCC-----ChhhHHHHHHHHHH
Q 015943 302 IEILHTE-TLIKEVEKVFAANHP-----DPTDVEKAKRVLKE 337 (398)
Q Consensus 302 i~i~~T~-slikeVervf~~~~p-----Dp~eiEkAKk~Lke 337 (398)
..-+.+| +||.=|||-+-..|| |..-++.||++|||
T Consensus 185 f~~~~~d~~Lve~lerdIl~~np~ikW~DIagl~~AK~lL~E 226 (491)
T KOG0738|consen 185 FDSLGYDADLVEALERDILQRNPNIKWDDIAGLHEAKKLLKE 226 (491)
T ss_pred CCcccchHHHHHHHHHHHhccCCCcChHhhcchHHHHHHHHH
Confidence 3445677 899999998777888 56789999999987
No 68
>PF03993 DUF349: Domain of Unknown Function (DUF349); InterPro: IPR007139 This motif is found singly or as up to five tandem repeats in a small set of bacterial proteins. There are two or three alpha-helices, and possibly a beta-strand.
Probab=21.30 E-value=1.8e+02 Score=22.40 Aligned_cols=36 Identities=28% Similarity=0.456 Sum_probs=22.4
Q ss_pred hHHHHHHHHHHHhCCChHHHHHHHHhhcchHHHHHHH-HHHHhcC
Q 015943 34 EKESLITELRKELRVSDEEHRELLSKVNADDIILRIR-EWRKASG 77 (398)
Q Consensus 34 ekE~LLTeLR~eL~IS~eEH~~~l~~v~~De~I~~iR-e~r~~g~ 77 (398)
.|+.||.+|.......+ ..... ..++.|+ +|+..|.
T Consensus 35 ~K~~Li~~~~~l~~~~d--~~~~~------~~~k~l~~~Wk~iG~ 71 (77)
T PF03993_consen 35 KKEALIEEAEALAESED--WKEAA------EEIKELQQEWKEIGP 71 (77)
T ss_pred HHHHHHHHHHHhccccc--HHHHH------HHHHHHHHHHHHcCC
Confidence 47889999987777666 22222 2244444 4888884
No 69
>PF05918 API5: Apoptosis inhibitory protein 5 (API5); InterPro: IPR008383 This family consists of apoptosis inhibitory protein 5 (API5) sequences from several organisms. Apoptosis or programmed cell death is a physiological form of cell death that occurs in embryonic development and organ formation. It is characterised by biochemical and morphological changes such as DNA fragmentation and cell volume shrinkage. API5 is an anti apoptosis gene located in Homo sapiens chromosome 11, whose expression prevents the programmed cell death that occurs upon the deprivation of growth factors [,].; PDB: 3U0R_A 3V6A_A.
Probab=21.22 E-value=32 Score=37.79 Aligned_cols=8 Identities=75% Similarity=1.502 Sum_probs=0.0
Q ss_pred CCCCCCCC
Q 015943 273 GAGRGRGT 280 (398)
Q Consensus 273 ~~grgrg~ 280 (398)
|+|||||.
T Consensus 544 ggg~grg~ 551 (556)
T PF05918_consen 544 GGGRGRGR 551 (556)
T ss_dssp --------
T ss_pred CCCCCCcc
Confidence 34555544
No 70
>PRK09618 flgD flagellar basal body rod modification protein; Provisional
Probab=21.09 E-value=87 Score=28.82 Aligned_cols=40 Identities=30% Similarity=0.451 Sum_probs=31.0
Q ss_pred cCccccceeecccCCCCCceeeEeeecCCCCCceeeeecCC
Q 015943 180 YNPLIGRKVWTRWPEDNHFYEAVITDYNPNEGRHALVYDIN 220 (398)
Q Consensus 180 ~~~LIGrkV~~~WPdDn~~yEa~ItdYn~~tg~H~LvYD~~ 220 (398)
...||||.|..- =+|...+.|+|+.-.-.+|...++|+.+
T Consensus 87 a~slVGk~V~~~-~~~g~~~tG~V~~V~~~~g~~~~~~v~G 126 (142)
T PRK09618 87 YSELIGKEVEWE-GEDGEIVSGTVTSVKQKDGDYPLVLDNG 126 (142)
T ss_pred HHHHhCCEEEEE-eCCCCEEEEEEEEEEEcCCcEEEEEECC
Confidence 357999999854 2346789999999888888877777665
No 71
>PRK09514 zntR zinc-responsive transcriptional regulator; Provisional
Probab=21.05 E-value=2e+02 Score=25.52 Aligned_cols=46 Identities=15% Similarity=0.336 Sum_probs=33.2
Q ss_pred cchhHHHHHHHHhhcC-CCChhhHHHHHHHHHHHHHHHHHHHHHhcc
Q 015943 306 HTETLIKEVEKVFAAN-HPDPTDVEKAKRVLKEQELALVNAIAKLED 351 (398)
Q Consensus 306 ~T~slikeVervf~~~-~pDp~eiEkAKk~LkehEqaL~dAIArL~e 351 (398)
.+.--++|+..++... .++-..++..+.+|.++.+.|-..|++|..
T Consensus 56 ~~G~sL~eI~~~l~~~~~~~~~~~~~~~~~l~~~~~~l~~~i~~L~~ 102 (140)
T PRK09514 56 QLGFTLEEIRELLSIRLDPEHHTCQEVKGIVDEKLAEVEAKIAELQH 102 (140)
T ss_pred HcCCCHHHHHHHHHhcccCCcCCHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4455688888888632 333345778888999998888888877764
No 72
>PRK06369 nac nascent polypeptide-associated complex protein; Reviewed
Probab=20.81 E-value=55 Score=29.18 Aligned_cols=24 Identities=38% Similarity=0.469 Sum_probs=21.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhcc
Q 015943 328 VEKAKRVLKEQELALVNAIAKLED 351 (398)
Q Consensus 328 iEkAKk~LkehEqaL~dAIArL~e 351 (398)
-++|++.|++.--.|++||-.|.+
T Consensus 91 ~~~A~~AL~~~~gDl~~AI~~L~~ 114 (115)
T PRK06369 91 EEEARKALEEANGDLAEAILKLSS 114 (115)
T ss_pred HHHHHHHHHHcCCcHHHHHHHHhc
Confidence 489999999999999999999863
No 73
>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=20.73 E-value=2.1e+02 Score=24.76 Aligned_cols=44 Identities=9% Similarity=0.073 Sum_probs=30.2
Q ss_pred cchhHHHHHHHHhhcCCCChhhHHHHHHHHHHHHHHHHHHHHHhcc
Q 015943 306 HTETLIKEVEKVFAANHPDPTDVEKAKRVLKEQELALVNAIAKLED 351 (398)
Q Consensus 306 ~T~slikeVervf~~~~pDp~eiEkAKk~LkehEqaL~dAIArL~e 351 (398)
..+-=++|+..+|...+. ..++..+.+|.+|-+.|-..|++|..
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 445557888888874332 44677788888888777777777654
No 74
>KOG2070 consensus Guanine nucleotide exchange factor [Nucleotide transport and metabolism]
Probab=20.52 E-value=1e+02 Score=34.19 Aligned_cols=38 Identities=29% Similarity=0.441 Sum_probs=30.5
Q ss_pred hhHHHHHHHHhhcCCCChhhHHHHHH---HHHHHHHHHHHH
Q 015943 308 ETLIKEVEKVFAANHPDPTDVEKAKR---VLKEQELALVNA 345 (398)
Q Consensus 308 ~slikeVervf~~~~pDp~eiEkAKk---~LkehEqaL~dA 345 (398)
-+|++|.||..-++|||-.+|-++-- -|+++=|+|+.+
T Consensus 244 ~~lLQELERhme~~HpDrgD~qrs~avfk~~~~~Cq~lRkq 284 (661)
T KOG2070|consen 244 PTLLQELERHMEDYHPDRGDIQRSMAVFKNLSAQCQELRKQ 284 (661)
T ss_pred HHHHHHHHHhccccCCchHHHHHHHHHHHHHHHHHHHHHhh
Confidence 37999999999999999999998754 455666666654
No 75
>PF04220 YihI: Der GTPase activator (YihI); InterPro: IPR007336 This entry contains Escherichia coli (strain K12) YihI. YihI activates the GTPase activity of Der, a 50S ribosomal subunit stability factor and can therefore be considered a GAP (GTPase activating)-like protein. The stimulation is specific to Der as YihI does not stimulate the GTPase activity of Era or ObgE. The interaction of YihI with Der requires only the C-terminal 78 amino acids of YihI []. A yihI deletion mutant is viable and shows a shorter lag period, but the same post-lag growth rate as a wild-type strain. yihI is expressed during the lag period. Overexpression of yihI inhibits cell growth and biogenesis of the 50S ribosomal subunit []. YihI is an unusual, highly hydrophilic protein with an uneven distribution of charged residues, resulting in an N-terminal region with high pI and a C-terminal region with low pI [].
Probab=20.51 E-value=1.5e+02 Score=28.03 Aligned_cols=50 Identities=22% Similarity=0.341 Sum_probs=37.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHhccCCCchhHH-------HHHHHHHHHhCCChHHHHH
Q 015943 6 ATQIHSVEQDAYSSVLRAFKAQSDAITWEKE-------SLITELRKELRVSDEEHRE 55 (398)
Q Consensus 6 ~~~Ih~LE~eAY~svLrAF~AQS~~lSWekE-------~LLTeLR~eL~IS~eEH~~ 55 (398)
+.+|-.||-++.-..|-.-.-.+..||-+.. .-|..|+.+|+|++++--+
T Consensus 98 EqEL~~LEnD~rL~~LLdrle~Ge~Ls~~dQ~yvD~~LdRi~~Lm~~LGi~~ddd~e 154 (169)
T PF04220_consen 98 EQELEMLENDERLNQLLDRLEEGETLSAEDQKYVDEKLDRIEELMEELGIEDDDDDE 154 (169)
T ss_pred HHHHHHhhccHHHHHHHHHHHCCCcCCHHHHHHHHHHHHHHHHHHHHhCCCcccccc
Confidence 5678889988888777766665677775433 3368899999999988763
No 76
>COG3877 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=20.28 E-value=91 Score=28.05 Aligned_cols=16 Identities=31% Similarity=0.453 Sum_probs=11.7
Q ss_pred hhHHHHHHHHhhcCCC
Q 015943 308 ETLIKEVEKVFAANHP 323 (398)
Q Consensus 308 ~slikeVervf~~~~p 323 (398)
.-=+|||||+++-+.|
T Consensus 57 RGnlKEvEr~lg~sYp 72 (122)
T COG3877 57 RGNLKEVERELGISYP 72 (122)
T ss_pred ccCHHHHHHHHCCccH
Confidence 3447999999876655
Done!