Query psy1847
Match_columns 86
No_of_seqs 131 out of 1018
Neff 7.2
Searched_HMMs 46136
Date Fri Aug 16 17:49:58 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy1847.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/1847hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PHA02790 Kelch-like protein; P 99.7 1.5E-17 3.3E-22 125.4 6.0 71 2-73 46-124 (480)
2 KOG4441|consensus 99.6 2.1E-16 4.6E-21 121.8 5.5 66 2-67 61-128 (571)
3 PHA02713 hypothetical protein; 99.6 1.4E-15 3E-20 116.8 4.9 65 1-67 50-117 (557)
4 PHA03098 kelch-like protein; P 99.5 4.3E-14 9.4E-19 106.8 5.3 70 2-73 36-109 (534)
5 smart00225 BTB Broad-Complex, 99.4 6.4E-13 1.4E-17 77.0 5.5 65 2-66 24-90 (90)
6 PF00651 BTB: BTB/POZ domain; 99.3 2.9E-12 6.3E-17 78.3 6.1 66 2-67 36-105 (111)
7 KOG4682|consensus 98.6 5.5E-08 1.2E-12 73.0 4.2 74 2-75 93-176 (488)
8 KOG4350|consensus 98.4 3.6E-07 7.9E-12 69.2 3.7 64 2-65 69-137 (620)
9 KOG2075|consensus 98.1 1.5E-06 3.2E-11 66.4 2.1 78 3-80 145-228 (521)
10 KOG2716|consensus 97.5 0.00013 2.8E-09 51.4 3.9 70 2-71 29-103 (230)
11 PF02214 BTB_2: BTB/POZ domain 97.2 0.0005 1.1E-08 41.2 3.7 63 2-65 24-94 (94)
12 smart00512 Skp1 Found in Skp1 97.0 0.00099 2.1E-08 41.0 3.5 44 15-58 42-104 (104)
13 KOG1724|consensus 97.0 0.00096 2.1E-08 44.8 3.4 53 15-67 44-121 (162)
14 PF11822 DUF3342: Domain of un 96.9 0.00037 8E-09 51.1 0.9 65 1-65 28-96 (317)
15 KOG4591|consensus 96.8 0.00059 1.3E-08 47.9 1.6 60 14-73 105-170 (280)
16 KOG0783|consensus 96.8 0.00041 8.8E-09 56.7 0.6 68 1-68 735-810 (1267)
17 KOG3473|consensus 96.6 0.0035 7.7E-08 39.1 3.8 56 3-58 42-112 (112)
18 KOG1665|consensus 95.5 0.049 1.1E-06 39.0 5.6 64 4-67 37-105 (302)
19 KOG0511|consensus 94.7 0.024 5.3E-07 43.1 2.4 58 2-59 315-378 (516)
20 PF03931 Skp1_POZ: Skp1 family 93.7 0.13 2.8E-06 28.8 3.5 34 3-36 26-59 (62)
21 KOG2714|consensus 92.6 0.24 5.3E-06 38.1 4.4 62 2-63 37-102 (465)
22 PF01466 Skp1: Skp1 family, di 92.2 0.063 1.4E-06 31.5 0.8 28 41-68 11-38 (78)
23 KOG3840|consensus 86.0 1.4 3.1E-05 33.0 4.1 47 13-59 137-185 (438)
24 COG5201 SKP1 SCF ubiquitin lig 82.8 2.9 6.3E-05 27.6 4.0 52 16-67 40-116 (158)
25 KOG0783|consensus 71.6 7.3 0.00016 33.0 4.2 52 14-65 609-681 (1267)
26 KOG1987|consensus 65.4 1.9 4.1E-05 30.4 -0.2 51 16-66 141-194 (297)
27 KOG2723|consensus 63.9 13 0.00027 26.3 3.7 49 23-71 58-108 (221)
28 KOG2715|consensus 55.8 6.2 0.00013 27.2 1.0 50 17-66 66-115 (210)
29 PF00356 LacI: Bacterial regul 48.3 16 0.00036 19.2 1.7 35 20-58 9-43 (46)
30 KOG3713|consensus 46.5 18 0.00039 28.4 2.3 46 21-66 86-133 (477)
31 KOG3334|consensus 41.9 27 0.00058 23.2 2.3 67 19-86 28-112 (148)
32 cd01392 HTH_LacI Helix-turn-he 40.3 32 0.00069 17.6 2.1 36 20-59 7-42 (52)
33 PF04781 DUF627: Protein of un 37.7 33 0.00072 21.7 2.2 54 20-74 53-110 (111)
34 PF09116 gp45-slide_C: gp45 sl 37.4 20 0.00044 22.7 1.2 24 39-62 4-27 (112)
35 PF06200 tify: tify domain; I 34.0 18 0.0004 18.3 0.5 20 34-53 11-34 (36)
36 PF06404 PSK: Phytosulfokine p 33.0 22 0.00047 21.2 0.8 13 26-38 66-78 (81)
37 PF04699 P16-Arc: ARP2/3 compl 30.2 36 0.00077 22.6 1.5 25 19-43 95-119 (152)
38 KOG4583|consensus 29.6 35 0.00077 25.9 1.6 37 26-62 49-85 (391)
39 KOG3368|consensus 29.5 46 0.001 21.9 1.9 25 12-36 78-102 (140)
40 smart00354 HTH_LACI helix_turn 27.9 60 0.0013 18.0 2.0 35 21-59 11-45 (70)
41 PF00633 HHH: Helix-hairpin-he 26.6 69 0.0015 15.2 1.8 17 17-33 14-30 (30)
42 PF14769 CLAMP: Flagellar C1a 26.2 56 0.0012 19.7 1.8 36 2-37 44-79 (101)
43 KOG2838|consensus 25.6 1.7E+02 0.0037 21.9 4.5 42 17-58 174-218 (401)
44 PF05391 Lsm_interact: Lsm int 25.4 32 0.0007 15.4 0.5 6 3-8 15-20 (21)
45 TIGR01481 ccpA catabolite cont 24.0 60 0.0013 22.6 1.9 37 19-59 10-46 (329)
46 PRK10727 DNA-binding transcrip 22.5 66 0.0014 22.7 1.9 36 20-59 11-46 (343)
47 PHA02277 hypothetical protein 22.4 1E+02 0.0023 20.1 2.6 21 20-40 10-30 (150)
48 KOG4682|consensus 22.2 44 0.00096 26.1 0.9 26 40-65 169-194 (488)
49 PF11834 DUF3354: Domain of un 21.8 1.3E+02 0.0028 17.2 2.7 24 36-59 18-42 (69)
50 PF02291 TFIID-31kDa: Transcri 21.4 63 0.0014 20.8 1.4 17 20-36 28-44 (129)
51 PRK10423 transcriptional repre 21.3 83 0.0018 21.8 2.2 36 19-58 7-42 (327)
52 PF08384 NPP: Pro-opiomelanoco 21.3 54 0.0012 17.5 0.9 20 58-77 17-36 (45)
53 PF07085 DRTGG: DRTGG domain; 21.1 72 0.0016 18.9 1.6 40 25-64 29-68 (105)
54 PF11459 DUF2893: Protein of u 20.7 95 0.0021 17.9 1.9 26 37-62 29-54 (69)
No 1
>PHA02790 Kelch-like protein; Provisional
Probab=99.71 E-value=1.5e-17 Score=125.37 Aligned_cols=71 Identities=17% Similarity=0.219 Sum_probs=62.9
Q ss_pred chhhhcCC--CCCCCCeEEe--cCCCHHHHHHHHHhhhcceEEecCCcHHHHHHHHHhcCcccHHhhh----hcCCCCCC
Q psy1847 2 EDESLFTE--HFDKHPIIIL--KDIKFTELQSMIDYMYEGEVNISQDQLPSFLKAAASIQLKGLTQNV----KAETPLEN 73 (86)
Q Consensus 2 YFr~mF~~--~e~~~~~V~L--~~vs~~~l~~lL~f~YTG~l~i~~~~v~~ll~aA~~Lqi~~l~~~c----~~~~~~~~ 73 (86)
|||+||++ +|+++ .|.+ .|+++++|+.||+|+|||++.|+.+||++++.||++||++.++++| .+.++.+|
T Consensus 46 YFraMF~~~~~Es~~-~v~~~~~~v~~~~l~~lldy~YTg~l~it~~nV~~ll~aA~~Lqi~~v~~~C~~fL~~~l~~~N 124 (480)
T PHA02790 46 YFRTHLRQKYTKNKD-PVTRVCLDLDIHSLTSIVIYSYTGKVYIDSHNVVNLLRASILTSVEFIIYTCINFILRDFRKEY 124 (480)
T ss_pred HHHHHhcCCcccccc-ceEEEecCcCHHHHHHHHHhheeeeEEEecccHHHHHHHHHHhChHHHHHHHHHHHHhhCCcch
Confidence 99999998 56644 4554 4999999999999999999999999999999999999999999999 55666666
No 2
>KOG4441|consensus
Probab=99.64 E-value=2.1e-16 Score=121.84 Aligned_cols=66 Identities=26% Similarity=0.420 Sum_probs=64.0
Q ss_pred chhhhcCC--CCCCCCeEEecCCCHHHHHHHHHhhhcceEEecCCcHHHHHHHHHhcCcccHHhhhhc
Q psy1847 2 EDESLFTE--HFDKHPIIILKDIKFTELQSMIDYMYEGEVNISQDQLPSFLKAAASIQLKGLTQNVKA 67 (86)
Q Consensus 2 YFr~mF~~--~e~~~~~V~L~~vs~~~l~~lL~f~YTG~l~i~~~~v~~ll~aA~~Lqi~~l~~~c~~ 67 (86)
|||+||++ +|+.+.+|.|.++++.+++.+|+|+|||++.|+.+||++|+.+|++|||+.++++|++
T Consensus 61 YFraMFt~~l~e~~~~~i~l~~v~~~~l~~ll~y~Yt~~i~i~~~nVq~ll~aA~~lQi~~v~~~C~~ 128 (571)
T KOG4441|consen 61 YFRAMFTSGLKESKQKEINLEGVDPETLELLLDYAYTGKLEISEDNVQELLEAASLLQIPEVVDACCE 128 (571)
T ss_pred HHHHHhcCCcccccceEEEEecCCHHHHHHHHHHhhcceEEechHhHHHHHHHHHHhhhHHHHHHHHH
Confidence 99999998 7899999999999999999999999999999999999999999999999999999954
No 3
>PHA02713 hypothetical protein; Provisional
Probab=99.58 E-value=1.4e-15 Score=116.79 Aligned_cols=65 Identities=18% Similarity=0.279 Sum_probs=59.4
Q ss_pred CchhhhcCC--CCC-CCCeEEecCCCHHHHHHHHHhhhcceEEecCCcHHHHHHHHHhcCcccHHhhhhc
Q psy1847 1 MEDESLFTE--HFD-KHPIIILKDIKFTELQSMIDYMYEGEVNISQDQLPSFLKAAASIQLKGLTQNVKA 67 (86)
Q Consensus 1 ~YFr~mF~~--~e~-~~~~V~L~~vs~~~l~~lL~f~YTG~l~i~~~~v~~ll~aA~~Lqi~~l~~~c~~ 67 (86)
.|||+||++ +|. .+.+|.|+++++++|+.||+|+|||+ |+.+|++++|.||++||++.++++|++
T Consensus 50 ~YF~amF~~~~~e~~~~~~v~l~~v~~~~~~~ll~y~Yt~~--i~~~nv~~ll~aA~~lqi~~l~~~C~~ 117 (557)
T PHA02713 50 KYFRTLFTTPMIIRDLVTRVNLQMFDKDAVKNIVQYLYNRH--ISSMNVIDVLKCADYLLIDDLVTDCES 117 (557)
T ss_pred HHHHHHhcCCchhhccCceEEeccCCHHHHHHHHHHhcCCC--CCHHHHHHHHHHHHHHCHHHHHHHHHH
Confidence 399999998 554 47889999999999999999999997 789999999999999999999999943
No 4
>PHA03098 kelch-like protein; Provisional
Probab=99.48 E-value=4.3e-14 Score=106.80 Aligned_cols=70 Identities=20% Similarity=0.331 Sum_probs=62.9
Q ss_pred chhhhcCCCCCCCCeEEecCCCHHHHHHHHHhhhcceEEecCCcHHHHHHHHHhcCcccHHhhhhc----CCCCCC
Q psy1847 2 EDESLFTEHFDKHPIIILKDIKFTELQSMIDYMYEGEVNISQDQLPSFLKAAASIQLKGLTQNVKA----ETPLEN 73 (86)
Q Consensus 2 YFr~mF~~~e~~~~~V~L~~vs~~~l~~lL~f~YTG~l~i~~~~v~~ll~aA~~Lqi~~l~~~c~~----~~~~~~ 73 (86)
|||+||++... +..|.|++ ++++|+.+|+|+|||++.++.+++.+++.+|++||++.|++.|.. .++.+|
T Consensus 36 yF~~mf~~~~~-~~~i~l~~-~~~~~~~~l~y~Ytg~~~i~~~~~~~ll~~A~~l~~~~l~~~C~~~l~~~l~~~n 109 (534)
T PHA03098 36 YFKKMFKNNFK-ENEINLNI-DYDSFNEVIKYIYTGKINITSNNVKDILSIANYLIIDFLINLCINYIIKIIDDNN 109 (534)
T ss_pred HHHHHHhCCCC-CceEEecC-CHHHHHHHHHHhcCCceEEcHHHHHHHHHHHHHhCcHHHHHHHHHHHHHhCCHhH
Confidence 99999998544 78899999 999999999999999999999999999999999999999999944 455555
No 5
>smart00225 BTB Broad-Complex, Tramtrack and Bric a brac. Domain in Broad-Complex, Tramtrack and Bric a brac. Also known as POZ (poxvirus and zinc finger) domain. Known to be a protein-protein interaction motif found at the N-termini of several C2H2-type transcription factors as well as Shaw-type potassium channels. Known structure reveals a tightly intertwined dimer formed via interactions between N-terminal strand and helix structures. However in a subset of BTB/POZ domains, these two secondary structures appear to be missing. Be aware SMART predicts BTB/POZ domains without the beta1- and alpha1-secondary structures.
Probab=99.40 E-value=6.4e-13 Score=76.97 Aligned_cols=65 Identities=22% Similarity=0.540 Sum_probs=60.0
Q ss_pred chhhhcCCCCC--CCCeEEecCCCHHHHHHHHHhhhcceEEecCCcHHHHHHHHHhcCcccHHhhhh
Q psy1847 2 EDESLFTEHFD--KHPIIILKDIKFTELQSMIDYMYEGEVNISQDQLPSFLKAAASIQLKGLTQNVK 66 (86)
Q Consensus 2 YFr~mF~~~e~--~~~~V~L~~vs~~~l~~lL~f~YTG~l~i~~~~v~~ll~aA~~Lqi~~l~~~c~ 66 (86)
||+.||.+... ....+.++++++.+++.+++|+|+|++.++.+++..++.+|.+|+++++.+.|.
T Consensus 24 ~f~~~~~~~~~~~~~~~i~l~~~~~~~f~~~l~~ly~~~~~~~~~~~~~l~~~a~~~~~~~l~~~c~ 90 (90)
T smart00225 24 YFKALFSGDFKESKKSEIYLDDVSPEDFRALLEFLYTGKLDLPEENVEELLELADYLQIPGLVELCE 90 (90)
T ss_pred HHHHHHcCCCccCCCCEEEecCCCHHHHHHHHHeecCceeecCHHHHHHHHHHHHHHCcHHHHhhhC
Confidence 89999998433 578899999999999999999999999999999999999999999999999984
No 6
>PF00651 BTB: BTB/POZ domain; InterPro: IPR013069 The BTB (for BR-C, ttk and bab) [] or POZ (for Pox virus and Zinc finger) [] domain is present near the N terminus of a fraction of zinc finger (IPR007087 from INTERPRO) proteins and in proteins that contain the IPR006652 from INTERPRO motif such as Kelch and a family of pox virus proteins. The BTB/POZ domain mediates homomeric dimerisation and in some instances heteromeric dimerisation []. The structure of the dimerised PLZF BTB/POZ domain has been solved and consists of a tightly intertwined homodimer. The central scaffolding of the protein is made up of a cluster of alpha-helices flanked by short beta-sheets at both the top and bottom of the molecule []. POZ domains from several zinc finger proteins have been shown to mediate transcriptional repression and to interact with components of histone deacetylase co-repressor complexes including N-CoR and SMRT [, , ]. The POZ or BTB domain is also known as BR-C/Ttk or ZiN.; GO: 0005515 protein binding; PDB: 3M5B_A 1R28_B 3LBZ_A 3E4U_F 3BIM_B 1R2B_A 1R29_A 2VPK_A 2YY9_B 3GA1_A ....
Probab=99.35 E-value=2.9e-12 Score=78.27 Aligned_cols=66 Identities=26% Similarity=0.530 Sum_probs=59.9
Q ss_pred chhhhcCCC-CCCC--CeEEecCCCHHHHHHHHHhhhcceEEec-CCcHHHHHHHHHhcCcccHHhhhhc
Q psy1847 2 EDESLFTEH-FDKH--PIIILKDIKFTELQSMIDYMYEGEVNIS-QDQLPSFLKAAASIQLKGLTQNVKA 67 (86)
Q Consensus 2 YFr~mF~~~-e~~~--~~V~L~~vs~~~l~~lL~f~YTG~l~i~-~~~v~~ll~aA~~Lqi~~l~~~c~~ 67 (86)
||+.||... .... ..|.++++++++++.+++|+|+|++.++ .+++.+++.+|+.|+++.|++.|..
T Consensus 36 ~F~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~l~~~Y~~~~~~~~~~~~~~ll~lA~~~~~~~L~~~~~~ 105 (111)
T PF00651_consen 36 YFRNLFEGSKFKESTVPEISLPDVSPEAFEAFLEYMYTGEIEINSDENVEELLELADKLQIPELKKACEK 105 (111)
T ss_dssp HHHHHHTTTTSTTSSEEEEEETTSCHHHHHHHHHHHHHSEEEEE-TTTHHHHHHHHHHTTBHHHHHHHHH
T ss_pred hhhhcccccccccccccccccccccccccccccccccCCcccCCHHHHHHHHHHHHHHhCcHHHHHHHHH
Confidence 899999986 3333 4688999999999999999999999998 9999999999999999999999965
No 7
>KOG4682|consensus
Probab=98.59 E-value=5.5e-08 Score=73.04 Aligned_cols=74 Identities=28% Similarity=0.338 Sum_probs=66.9
Q ss_pred chhhhcCC--CCCCCCeEEe----cCCCHHHHHHHHHhhhcceEEecCCcHHHHHHHHHhcCcccHHhhh----hcCCCC
Q psy1847 2 EDESLFTE--HFDKHPIIIL----KDIKFTELQSMIDYMYEGEVNISQDQLPSFLKAAASIQLKGLTQNV----KAETPL 71 (86)
Q Consensus 2 YFr~mF~~--~e~~~~~V~L----~~vs~~~l~~lL~f~YTG~l~i~~~~v~~ll~aA~~Lqi~~l~~~c----~~~~~~ 71 (86)
||++||.. +|++...|.| +.|+..++...+.=+|..++.|..+.|..++++|.+||++++.+.| .++++.
T Consensus 93 yf~smf~Gtw~es~~~iIqleI~Dp~Id~~al~~a~gsLY~dEveI~l~dv~gvlAaA~~lqldgl~qrC~evMie~lsp 172 (488)
T KOG4682|consen 93 YFKSMFSGTWKESSMNIIQLEIPDPNIDVVALQVAFGSLYRDEVEIKLSDVVGVLAAACLLQLDGLIQRCGEVMIETLSP 172 (488)
T ss_pred HHHHHhccccChhhCceEEEEcCCCcccHHHHHHHHhhhhhhheeccHHHHHHHHHHHHHHHHhhHHHHHHHHHHHhcCh
Confidence 99999999 7888777665 5699999999999999999999999999999999999999999999 567777
Q ss_pred CCCC
Q psy1847 72 ENAA 75 (86)
Q Consensus 72 ~~~~ 75 (86)
+||.
T Consensus 173 kta~ 176 (488)
T KOG4682|consen 173 KTAC 176 (488)
T ss_pred hhhh
Confidence 7764
No 8
>KOG4350|consensus
Probab=98.36 E-value=3.6e-07 Score=69.22 Aligned_cols=64 Identities=17% Similarity=0.360 Sum_probs=54.7
Q ss_pred chhhhcCC--CCCCCCeEEecCCCHHHHHHHHHhhhcceEEecC---CcHHHHHHHHHhcCcccHHhhh
Q psy1847 2 EDESLFTE--HFDKHPIIILKDIKFTELQSMIDYMYEGEVNISQ---DQLPSFLKAAASIQLKGLTQNV 65 (86)
Q Consensus 2 YFr~mF~~--~e~~~~~V~L~~vs~~~l~~lL~f~YTG~l~i~~---~~v~~ll~aA~~Lqi~~l~~~c 65 (86)
|||+|+-. .|+.+..|.|++-..++|+.+|.|||||++.++. +-+.+.|..|..+++..|-.+-
T Consensus 69 yFRAlLYgGm~Es~q~~ipLq~t~~eAF~~lLrYiYtg~~~l~~~~ed~lld~LslAh~Ygf~~Le~ai 137 (620)
T KOG4350|consen 69 YFRALLYGGMQESHQQLIPLQETNSEAFRALLRYIYTGKIDLAGVEEDILLDYLSLAHRYGFIQLETAI 137 (620)
T ss_pred HHHHHHhhhhhhhhhcccccccccHHHHHHHHHHHhhcceecccchHHHHHHHHHHHHhcCcHHHHHHH
Confidence 99999877 7888999999999999999999999999997754 5567788888888887776554
No 9
>KOG2075|consensus
Probab=98.10 E-value=1.5e-06 Score=66.43 Aligned_cols=78 Identities=22% Similarity=0.279 Sum_probs=68.0
Q ss_pred hhhhcCC--CCCCCCeEEecCCCHHHHHHHHHhhhcceEEecCCcHHHHHHHHHhcCcccHHhhh----hcCCCCCCCCC
Q psy1847 3 DESLFTE--HFDKHPIIILKDIKFTELQSMIDYMYEGEVNISQDQLPSFLKAAASIQLKGLTQNV----KAETPLENAAK 76 (86)
Q Consensus 3 Fr~mF~~--~e~~~~~V~L~~vs~~~l~~lL~f~YTG~l~i~~~~v~~ll~aA~~Lqi~~l~~~c----~~~~~~~~~~~ 76 (86)
|.+||.. .+....+|.+++|.+.++..+|.|+|+-++.+..+++-.++.+|+.+-++.|.+.| ..++-..|+=.
T Consensus 145 FdaMf~g~~a~~~s~ei~lpdvepaaFl~~L~flYsdev~~~~dtvi~tl~~AkKY~VpaLer~CVkflr~~l~~~naf~ 224 (521)
T KOG2075|consen 145 FDAMFYGGLAEDASLEIRLPDVEPAAFLAFLRFLYSDEVKLAADTVITTLYAAKKYLVPALERQCVKFLRKNLMADNAFL 224 (521)
T ss_pred HHHHhccCcccccCceeecCCcChhHhHHHHHHHhcchhhhhHHHHHHHHHHHHHhhhHHHHHHHHHHHHHhcCChHHHH
Confidence 7889988 45557899999999999999999999999999999999999999999999999999 55666666655
Q ss_pred CCCC
Q psy1847 77 PLPQ 80 (86)
Q Consensus 77 ~~~~ 80 (86)
-|+|
T Consensus 225 ~L~q 228 (521)
T KOG2075|consen 225 ELFQ 228 (521)
T ss_pred HHHH
Confidence 5555
No 10
>KOG2716|consensus
Probab=97.51 E-value=0.00013 Score=51.45 Aligned_cols=70 Identities=16% Similarity=0.298 Sum_probs=55.6
Q ss_pred chhhhcCCC---CCCCCeEEecCCCHHHHHHHHHhhhcceEEecC--CcHHHHHHHHHhcCcccHHhhhhcCCCC
Q psy1847 2 EDESLFTEH---FDKHPIIILKDIKFTELQSMIDYMYEGEVNISQ--DQLPSFLKAAASIQLKGLTQNVKAETPL 71 (86)
Q Consensus 2 YFr~mF~~~---e~~~~~V~L~~vs~~~l~~lL~f~YTG~l~i~~--~~v~~ll~aA~~Lqi~~l~~~c~~~~~~ 71 (86)
||++||..+ +.....-.+-|=||..|..||+||=-|.+.+++ .++.++++=|.++.+.+|++.|.++++.
T Consensus 29 ~fk~m~e~~i~~~~d~s~~IFIDRSpKHF~~ILNfmRdGdv~LPe~~kel~El~~EA~fYlL~~Lv~~C~~~i~~ 103 (230)
T KOG2716|consen 29 FFKTMLETDIPVEKDESGCIFIDRSPKHFDTILNFMRDGDVDLPESEKELKELLREAEFYLLDGLVELCQSAIAR 103 (230)
T ss_pred HHHHHhhcCCccccCCcCcEEecCChhHHHHHHHhhhcccccCccchHHHHHHHHHHHHhhHHHHHHHHHHHhhh
Confidence 789999883 233333344566899999999999999888755 5577999999999999999999886443
No 11
>PF02214 BTB_2: BTB/POZ domain; InterPro: IPR003131 Potassium channels are the most diverse group of the ion channel family [, ]. They are important in shaping the action potential, and in neuronal excitability and plasticity []. The potassium channel family is composed of several functionally distinct isoforms, which can be broadly separated into 2 groups []: the practically non-inactivating 'delayed' group and the rapidly inactivating 'transient' group. These are all highly similar proteins, with only small amino acid changes causing the diversity of the voltage-dependent gating mechanism, channel conductance and toxin binding properties. Each type of K+ channel is activated by different signals and conditions depending on their type of regulation: some open in response to depolarisation of the plasma membrane; others in response to hyperpolarisation or an increase in intracellular calcium concentration; some can be regulated by binding of a transmitter, together with intracellular kinases; while others are regulated by GTP-binding proteins or other second messengers []. In eukaryotic cells, K+ channels are involved in neural signalling and generation of the cardiac rhythm, act as effectors in signal transduction pathways involving G protein-coupled receptors (GPCRs) and may have a role in target cell lysis by cytotoxic T-lymphocytes []. In prokaryotic cells, they play a role in the maintenance of ionic homeostasis []. All K+ channels discovered so far possess a core of alpha subunits, each comprising either one or two copies of a highly conserved pore loop domain (P-domain). The P-domain contains the sequence (T/SxxTxGxG), which has been termed the K+ selectivity sequence. In families that contain one P-domain, four subunits assemble to form a selective pathway for K+ across the membrane. However, it remains unclear how the 2 P-domain subunits assemble to form a selective pore. The functional diversity of these families can arise through homo- or hetero-associations of alpha subunits or association with auxiliary cytoplasmic beta subunits. K+ channel subunits containing one pore domain can be assigned into one of two superfamilies: those that possess six transmembrane (TM) domains and those that possess only two TM domains. The six TM domain superfamily can be further subdivided into conserved gene families: the voltage-gated (Kv) channels; the KCNQ channels (originally known as KvLQT channels); the EAG-like K+ channels; and three types of calcium (Ca)-activated K+ channels (BK, IK and SK) []. The 2TM domain family comprises inward-rectifying K+ channels. In addition, there are K+ channel alpha-subunits that possess two P-domains. These are usually highly regulated K+ selective leak channels. The Kv family can be divided into several subfamilies on the basis of sequence similarity and function. Four of these subfamilies, Kv1 (Shaker), Kv2 (Shab), Kv3 (Shaw) and Kv4 (Shal), consist of pore-forming alpha subunits that associate with different types of beta subunit. Each alpha subunit comprises six hydrophobic TM domains with a P-domain between the fifth and sixth, which partially resides in the membrane. The fourth TM domain has positively charged residues at every third residue and acts as a voltage sensor, which triggers the conformational change that opens the channel pore in response to a displacement in membrane potential []. More recently, 4 new electrically-silent alpha subunits have been cloned: Kv5 (KCNF), Kv6 (KCNG), Kv8 and Kv9 (KCNS). These subunits do not themselves possess any functional activity, but appear to form heteromeric channels with Kv2 subunits, and thus modulate Shab channel activity []. When highly expressed, they inhibit channel activity, but at lower levels show more specific modulatory actions. The N-terminal, cytoplasmic tetramerization domain (T1) of voltage-gated potassium channels encodes molecular determinants for subfamily-specific assembly of alpha-subunits into functional tetrameric channels []. This domain is found in a subset of a larger group of proteins that contain the BTB/POZ domain.; GO: 0005249 voltage-gated potassium channel activity, 0006813 potassium ion transport, 0008076 voltage-gated potassium channel complex, 0016020 membrane; PDB: 1NN7_A 3KVT_A 1EXB_E 1QDV_A 1DSX_E 1QDW_F 3LUT_B 3LNM_B 2A79_B 3DRY_C ....
Probab=97.23 E-value=0.0005 Score=41.24 Aligned_cols=63 Identities=19% Similarity=0.253 Sum_probs=45.3
Q ss_pred chhhhcCCC-----CCCCCeEEecCCCHHHHHHHHHhhhc-ceEEec-CCcHHHHHHHHHhcCcccH-Hhhh
Q psy1847 2 EDESLFTEH-----FDKHPIIILKDIKFTELQSMIDYMYE-GEVNIS-QDQLPSFLKAAASIQLKGL-TQNV 65 (86)
Q Consensus 2 YFr~mF~~~-----e~~~~~V~L~~vs~~~l~~lL~f~YT-G~l~i~-~~~v~~ll~aA~~Lqi~~l-~~~c 65 (86)
+|..||... ......+.| |=++..|+.||+|+-+ |++..+ ...+..+++-|.++++..+ ++.|
T Consensus 24 ~l~~~~~~~~~~~~~~~~~~~fi-DRdp~~F~~IL~ylr~~~~l~~~~~~~~~~l~~Ea~fy~l~~l~i~~c 94 (94)
T PF02214_consen 24 LLARLFSGERSDDYDDDDGEYFI-DRDPELFEYILNYLRTGGKLPIPDEICLEELLEEAEFYGLDELFIEDC 94 (94)
T ss_dssp TTTSHHHTGHGGGEETTTTEEEE-SS-HHHHHHHHHHHHHTSSB---TTS-HHHHHHHHHHHT-HHHHBHHC
T ss_pred hhhhHHhhccccccCCccceEEe-ccChhhhhHHHHHHhhcCccCCCCchhHHHHHHHHHHcCCCccccCCC
Confidence 566666642 234456665 6799999999999999 788774 6789999999999999998 8877
No 12
>smart00512 Skp1 Found in Skp1 protein family. Family of Skp1 (kinetochore protein required for cell cycle progression) and elongin C (subunit of RNA polymerase II transcription factor SIII) homologues.
Probab=97.01 E-value=0.00099 Score=40.95 Aligned_cols=44 Identities=23% Similarity=0.279 Sum_probs=36.5
Q ss_pred CeEEecCCCHHHHHHHHHhhhcceEE-------------------ecCCcHHHHHHHHHhcCc
Q psy1847 15 PIIILKDIKFTELQSMIDYMYEGEVN-------------------ISQDQLPSFLKAAASIQL 58 (86)
Q Consensus 15 ~~V~L~~vs~~~l~~lL~f~YTG~l~-------------------i~~~~v~~ll~aA~~Lqi 58 (86)
..|.+++|+..+|+.+++|++-.+-. ++.+.+-+|+.||++|+|
T Consensus 42 ~~Ipl~~v~~~~L~~Vi~yc~~h~~~~~~~~~~~~~~~wD~~F~~~d~~~l~dLl~AAnyL~I 104 (104)
T smart00512 42 NPIPLPNVTSKILSKVIEYCEHHVDDPPSVADKDDIPTWDAEFLKIDQETLFELILAANYLDI 104 (104)
T ss_pred CCccCCCcCHHHHHHHHHHHHHcccCCCCccccccccHHHHHHHcCCHHHHHHHHHHHHhhCC
Confidence 57999999999999999999865421 455578899999999986
No 13
>KOG1724|consensus
Probab=96.96 E-value=0.00096 Score=44.77 Aligned_cols=53 Identities=21% Similarity=0.271 Sum_probs=45.2
Q ss_pred CeEEecCCCHHHHHHHHHhhhcceEE-------------------------ecCCcHHHHHHHHHhcCcccHHhhhhc
Q psy1847 15 PIIILKDIKFTELQSMIDYMYEGEVN-------------------------ISQDQLPSFLKAAASIQLKGLTQNVKA 67 (86)
Q Consensus 15 ~~V~L~~vs~~~l~~lL~f~YTG~l~-------------------------i~~~~v~~ll~aA~~Lqi~~l~~~c~~ 67 (86)
..|.|+.|...+|+.+|+|++..+-. +....+-+++.||++|.|++|.+.|+.
T Consensus 44 ~~IPl~nV~~~iL~kVIewC~~Hk~d~~~~~~~~~~~~~~~i~~WD~~Flk~d~~tLfdli~AAnyLdi~gLl~~~ck 121 (162)
T KOG1724|consen 44 DPIPLPNVTSKILKKVIEWCKKHKDDDPANPEDKELPEETDIPEWDAEFLKVDQGTLFDLILAANYLDIKGLLDLTCK 121 (162)
T ss_pred CccccCccCHHHHHHHHHHHHHcccccccccccccccccCCccHHHHHHHhcCHHHHHHHHHHhhhcccHHHHHHHHH
Confidence 36899999999999999999996532 334578899999999999999999964
No 14
>PF11822 DUF3342: Domain of unknown function (DUF3342); InterPro: IPR021777 This family of proteins are functionally uncharacterised. This family is found in bacteria. This presumed domain is typically between 170 to 303 amino acids in length. The N-terminal half of this family is a BTB-like domain.
Probab=96.87 E-value=0.00037 Score=51.14 Aligned_cols=65 Identities=9% Similarity=0.138 Sum_probs=55.5
Q ss_pred CchhhhcCC---CCCCCCeEEe-cCCCHHHHHHHHHhhhcceEEecCCcHHHHHHHHHhcCcccHHhhh
Q psy1847 1 MEDESLFTE---HFDKHPIIIL-KDIKFTELQSMIDYMYEGEVNISQDQLPSFLKAAASIQLKGLTQNV 65 (86)
Q Consensus 1 ~YFr~mF~~---~e~~~~~V~L-~~vs~~~l~~lL~f~YTG~l~i~~~~v~~ll~aA~~Lqi~~l~~~c 65 (86)
.||+..+.. .....+.|.| ...+..+|+=|++|+......++.+||-.++-.|++|||++|++.|
T Consensus 28 ~YF~~~l~~~~~~~~~~~~idisVhCDv~iF~WLm~yv~~~~p~l~~~NvvsIliSS~FL~M~~Lve~c 96 (317)
T PF11822_consen 28 RYFAEYLSRYINDSQRWEEIDISVHCDVHIFEWLMRYVKGEPPSLTPSNVVSILISSEFLQMESLVEEC 96 (317)
T ss_pred HHHHHHHhhcccccCcCCCcceEEecChhHHHHHHHHhhcCCCcCCcCcEEEeEehhhhhccHHHHHHH
Confidence 399999964 3334455666 4578889999999999999999999999999999999999999987
No 15
>KOG4591|consensus
Probab=96.83 E-value=0.00059 Score=47.90 Aligned_cols=60 Identities=23% Similarity=0.391 Sum_probs=49.6
Q ss_pred CCeEEecCCCHHHHHHHHHhhhcceEEecCCc--HHHHHHHHHhcCcccHHhhh----hcCCCCCC
Q psy1847 14 HPIIILKDIKFTELQSMIDYMYEGEVNISQDQ--LPSFLKAAASIQLKGLTQNV----KAETPLEN 73 (86)
Q Consensus 14 ~~~V~L~~vs~~~l~~lL~f~YTG~l~i~~~~--v~~ll~aA~~Lqi~~l~~~c----~~~~~~~~ 73 (86)
.....+.|+.+++++..|.++||.++....+. +.++.++|+.+|+.-+++.| .+...++|
T Consensus 105 se~~~~dDad~Ea~~t~iRWIYTDEidfk~dD~~L~el~e~An~FqLe~Lke~C~k~l~a~l~V~N 170 (280)
T KOG4591|consen 105 SEELDLDDADFEAFHTAIRWIYTDEIDFKEDDEFLLELCELANRFQLELLKERCEKGLGALLHVDN 170 (280)
T ss_pred hhhhcccccCHHHHHHhheeeeccccccccchHHHHHHHHHHHHHHHHHHHHHHHHHHhhHhhHhh
Confidence 34566789999999999999999999887755 67799999999999999999 34444444
No 16
>KOG0783|consensus
Probab=96.79 E-value=0.00041 Score=56.70 Aligned_cols=68 Identities=16% Similarity=0.247 Sum_probs=52.6
Q ss_pred CchhhhcCC--CCCCCCeEEecCCCHHHHHHHHHhhh-cceEEe-----cCCcHHHHHHHHHhcCcccHHhhhhcC
Q psy1847 1 MEDESLFTE--HFDKHPIIILKDIKFTELQSMIDYMY-EGEVNI-----SQDQLPSFLKAAASIQLKGLTQNVKAE 68 (86)
Q Consensus 1 ~YFr~mF~~--~e~~~~~V~L~~vs~~~l~~lL~f~Y-TG~l~i-----~~~~v~~ll~aA~~Lqi~~l~~~c~~~ 68 (86)
.||..||.. .|+..-.+.+.-+..+.|+.+|+|+| +-++.+ ..+-+.+++..|+.|-|.+|+..|...
T Consensus 735 EYF~smf~~~w~E~sS~t~~~~p~~~e~m~ivLdylYs~d~~~~~k~~~~~dF~~~il~iaDqlli~~Lk~Ice~~ 810 (1267)
T KOG0783|consen 735 EYFSSMFQFVWMESSSITVNLSPLTVEHMSIVLDYLYSDDKVELFKDLKESDFMFEILSIADQLLILELKSICEQS 810 (1267)
T ss_pred HHHHHHHHHHHhhhccceeecCcchHHHHHHHHHHHHccchHHHHhccchhhhhHHHHHHHHHHHHHHHHHHHHHH
Confidence 399999998 45544444455567999999999999 555543 235578899999999999999999654
No 17
>KOG3473|consensus
Probab=96.63 E-value=0.0035 Score=39.15 Aligned_cols=56 Identities=16% Similarity=0.296 Sum_probs=46.4
Q ss_pred hhhhcCC----CCCCCCeEEecCCCHHHHHHHHHhh-----hcce------EEecCCcHHHHHHHHHhcCc
Q psy1847 3 DESLFTE----HFDKHPIIILKDIKFTELQSMIDYM-----YEGE------VNISQDQLPSFLKAAASIQL 58 (86)
Q Consensus 3 Fr~mF~~----~e~~~~~V~L~~vs~~~l~~lL~f~-----YTG~------l~i~~~~v~~ll~aA~~Lqi 58 (86)
.|+||.+ .+....+|.++++.+..++.+.+|+ ||+. ..|+++-+.+||.||++|.+
T Consensus 42 iraml~gpg~~se~~~n~v~f~di~shiLeKvc~Yl~Yk~rY~~~s~eiPeF~IppemaleLL~aAn~Lec 112 (112)
T KOG3473|consen 42 IRAMLSGPGVFSEAEKNEVYFRDIPSHILEKVCEYLAYKVRYTNSSTEIPEFDIPPEMALELLMAANYLEC 112 (112)
T ss_pred HHHHHcCCccccccccceEEeccchHHHHHHHHHHhhheeeeccccccCCCCCCCHHHHHHHHHHhhhhcC
Confidence 4788886 3566788999999999999999987 7776 36677889999999999863
No 18
>KOG1665|consensus
Probab=95.49 E-value=0.049 Score=38.97 Aligned_cols=64 Identities=16% Similarity=0.280 Sum_probs=51.3
Q ss_pred hhhcCCC--CC--CCCeEEecCCCHHHHHHHHHhhhcceEEe-cCCcHHHHHHHHHhcCcccHHhhhhc
Q psy1847 4 ESLFTEH--FD--KHPIIILKDIKFTELQSMIDYMYEGEVNI-SQDQLPSFLKAAASIQLKGLTQNVKA 67 (86)
Q Consensus 4 r~mF~~~--e~--~~~~V~L~~vs~~~l~~lL~f~YTG~l~i-~~~~v~~ll~aA~~Lqi~~l~~~c~~ 67 (86)
-+||..+ .+ .+.--++-|=++..|+.||+|+-.|++.. +.-++..+|+.|+++||-++++....
T Consensus 37 a~MF~~~g~~~~~d~kGa~lIDRsp~yFepIlNyLr~Gq~~~~s~i~~lgvLeeArff~i~sL~~hle~ 105 (302)
T KOG1665|consen 37 AAMFSGRGAMCQEDKKGAVLIDRSPKYFEPILNYLRDGQIPSLSDIDCLGVLEEARFFQILSLKDHLED 105 (302)
T ss_pred HHHHccCCCccccccCceEEEccCchhhHHHHHHHhcCceeecCCccHHHHHHHhhHHhhHhHHhHHhh
Confidence 3678772 22 23445667789999999999999999855 66889999999999999999988744
No 19
>KOG0511|consensus
Probab=94.73 E-value=0.024 Score=43.12 Aligned_cols=58 Identities=17% Similarity=0.153 Sum_probs=48.9
Q ss_pred chhhhcCC--CC-C---CCCeEEecCCCHHHHHHHHHhhhcceEEecCCcHHHHHHHHHhcCcc
Q psy1847 2 EDESLFTE--HF-D---KHPIIILKDIKFTELQSMIDYMYEGEVNISQDQLPSFLKAAASIQLK 59 (86)
Q Consensus 2 YFr~mF~~--~e-~---~~~~V~L~~vs~~~l~~lL~f~YTG~l~i~~~~v~~ll~aA~~Lqi~ 59 (86)
||+.||.+ .+ + ..+...++.+...+.+.++.|+|+.+..|.++-..+++-.|++|.+.
T Consensus 315 yfk~mf~g~f~e~s~n~~~p~lslp~~~~~vveI~lr~lY~d~tdi~~~~A~dvll~ad~lal~ 378 (516)
T KOG0511|consen 315 YFKSMFVGDFIESSVNDTRPGLSLPSLADVVVEIDLRNLYCDQTDIIFDVASDVLLFADKLALA 378 (516)
T ss_pred HHHHHhccchhhhcCCccccccccchHHHHHHHHHHHHhhcccccchHHHHhhHHHHhhHhhhh
Confidence 99999998 34 2 13445578888999999999999999999999999999999988765
No 20
>PF03931 Skp1_POZ: Skp1 family, tetramerisation domain; InterPro: IPR016073 SKP1 (together with SKP2) was identified as an essential component of the cyclin A-CDK2 S phase kinase complex []. It was found to bind several F-box containing proteins (e.g., Cdc4, Skp2, cyclin F) and to be involved in the ubiquitin protein degradation pathway. A yeast homologue of SKP1 (P52286) was identified in the centromere bound kinetochore complex [] and is also involved in the ubiquitin pathway []. In Dictyostelium discoideum (Slime mold) FP21 was shown to be glycosylated in the cytosol and has homology to SKP1 []. This entry represents a POZ domain with a core structure consisting of beta(2)/alpha(2)/beta(2)/alpha(2) in two layers, alpha/beta. This domain is found at the N-terminal of SKP1 proteins [] as well as in subunit D of the centromere DNA-binding protein complex Cbf3 []. ; GO: 0006511 ubiquitin-dependent protein catabolic process; PDB: 1LM8_C 2XAI_E 1VCB_E 3ZRC_K 3ZRF_E 3DCG_B 2C9W_C 1LQB_B 2IZV_C 1HV2_A ....
Probab=93.72 E-value=0.13 Score=28.78 Aligned_cols=34 Identities=15% Similarity=0.209 Sum_probs=24.6
Q ss_pred hhhhcCCCCCCCCeEEecCCCHHHHHHHHHhhhc
Q psy1847 3 DESLFTEHFDKHPIIILKDIKFTELQSMIDYMYE 36 (86)
Q Consensus 3 Fr~mF~~~e~~~~~V~L~~vs~~~l~~lL~f~YT 36 (86)
++.|+.+.......|.|++|+...|+.+++|++-
T Consensus 26 i~~ml~~~~~~~~~Ipl~~v~~~~L~kViewc~~ 59 (62)
T PF03931_consen 26 IKNMLEDLGDEDEPIPLPNVSSRILKKVIEWCEH 59 (62)
T ss_dssp HHHHHHCTCCCGTEEEETTS-HHHHHHHHHHHHH
T ss_pred HHHHHhhhcccccccccCccCHHHHHHHHHHHHh
Confidence 4666665322222799999999999999999974
No 21
>KOG2714|consensus
Probab=92.55 E-value=0.24 Score=38.06 Aligned_cols=62 Identities=15% Similarity=0.129 Sum_probs=49.2
Q ss_pred chhhhcCCC---CCCCCeEEecCCCHHHHHHHHHhhhcceEEecCCcHHHHHH-HHHhcCcccHHh
Q psy1847 2 EDESLFTEH---FDKHPIIILKDIKFTELQSMIDYMYEGEVNISQDQLPSFLK-AAASIQLKGLTQ 63 (86)
Q Consensus 2 YFr~mF~~~---e~~~~~V~L~~vs~~~l~~lL~f~YTG~l~i~~~~v~~ll~-aA~~Lqi~~l~~ 63 (86)
+|-+||+.+ ...+....+-|=+|+.|..||+|+=||++.++.-....++. =|.++++.+++.
T Consensus 37 ffsaL~s~~~~s~~~~~~~iFIDRDPdlFaviLn~LRTg~L~~~g~~~~~llhdEA~fYGl~~llr 102 (465)
T KOG2714|consen 37 FFSALLSGRINSLKDESGAIFIDRDPDLFAVILNLLRTGDLDASGVFPERLLHDEAMFYGLTPLLR 102 (465)
T ss_pred HHHHHhcCccccccCCCCceEecCCchHHHHHHHHHhcCCCCCccCchhhhhhhhhhhcCcHHHHH
Confidence 477788752 33344445567789999999999999999998877777776 999999999988
No 22
>PF01466 Skp1: Skp1 family, dimerisation domain; InterPro: IPR016072 SKP1 (together with SKP2) was identified as an essential component of the cyclin A-CDK2 S phase kinase complex []. It was found to bind several F-box containing proteins (e.g., Cdc4, Skp2, cyclin F) and to be involved in the ubiquitin protein degradation pathway. A yeast homologue of SKP1 (P52286) was identified in the centromere bound kinetochore complex [] and is also involved in the ubiquitin pathway []. In Dictyostelium discoideum (Slime mold) FP21 was shown to be glycosylated in the cytosol and has homology to SKP1 []. This entry represents a dimerisation domain found at the C-terminal of SKP1 proteins [], as well as in subunit D of the centromere DNA-binding protein complex Cbf3 []. This domain is multi-helical in structure, and consists of an interlocked herterodimer in F-box proteins.; GO: 0006511 ubiquitin-dependent protein catabolic process; PDB: 2P1O_A 3OGL_G 3OGM_A 3C6O_A 2P1N_A 2P1Q_A 3OGK_I 3C6N_A 3C6P_A 2P1P_A ....
Probab=92.21 E-value=0.063 Score=31.49 Aligned_cols=28 Identities=29% Similarity=0.380 Sum_probs=22.7
Q ss_pred ecCCcHHHHHHHHHhcCcccHHhhhhcC
Q psy1847 41 ISQDQLPSFLKAAASIQLKGLTQNVKAE 68 (86)
Q Consensus 41 i~~~~v~~ll~aA~~Lqi~~l~~~c~~~ 68 (86)
++.+.+.+++.||.+|+|++|.+.|+..
T Consensus 11 ~~~~~L~~l~~AA~yL~I~~L~~~~~~~ 38 (78)
T PF01466_consen 11 VDNDELFDLLNAANYLDIKGLLDLCCKY 38 (78)
T ss_dssp S-HHHHHHHHHHHHHHT-HHHHHHHHHH
T ss_pred cCHHHHHHHHHHHHHHcchHHHHHHHHH
Confidence 4667899999999999999999999643
No 23
>KOG3840|consensus
Probab=86.04 E-value=1.4 Score=32.97 Aligned_cols=47 Identities=11% Similarity=0.226 Sum_probs=38.4
Q ss_pred CCCeEEe-cCCCHHHHHHHHHhhhcceEEe-cCCcHHHHHHHHHhcCcc
Q psy1847 13 KHPIIIL-KDIKFTELQSMIDYMYEGEVNI-SQDQLPSFLKAAASIQLK 59 (86)
Q Consensus 13 ~~~~V~L-~~vs~~~l~~lL~f~YTG~l~i-~~~~v~~ll~aA~~Lqi~ 59 (86)
...+..+ .||+...|+.||+|--||.++- +.-.|.+|-+|+++|-|+
T Consensus 137 ErgEyeVAdGi~s~vFRAILdYYksG~iRCP~~vSvpELrEACDYLlip 185 (438)
T KOG3840|consen 137 ERDEFEVADGMTSSCFRAILDYYQSGTMRCPSSVSVSELREACDYLLVP 185 (438)
T ss_pred cCCceehhcchhHHHHHHHHHHHhcCceeCCCCCchHHHHhhcceEEee
Confidence 3444454 6799999999999999999976 447899999999999775
No 24
>COG5201 SKP1 SCF ubiquitin ligase, SKP1 component [Posttranslational modification, protein turnover, chaperones]
Probab=82.76 E-value=2.9 Score=27.58 Aligned_cols=52 Identities=19% Similarity=0.169 Sum_probs=40.5
Q ss_pred eEEecCCCHHHHHHHHHhhhcceEEec-------------------------CCcHHHHHHHHHhcCcccHHhhhhc
Q psy1847 16 IIILKDIKFTELQSMIDYMYEGEVNIS-------------------------QDQLPSFLKAAASIQLKGLTQNVKA 67 (86)
Q Consensus 16 ~V~L~~vs~~~l~~lL~f~YTG~l~i~-------------------------~~~v~~ll~aA~~Lqi~~l~~~c~~ 67 (86)
.+..+.|...++..+++||=..+-..+ ++.+-++.-+|++|.++.|.+.||-
T Consensus 40 p~p~pnVrSsvl~kv~ew~ehh~~s~sede~d~~~rks~p~D~wdr~Fm~vDqemL~eI~laaNYL~ikpLLd~gCK 116 (158)
T COG5201 40 PIPAPNVRSSVLMKVQEWMEHHTSSLSEDENDLEIRKSKPSDFWDRFFMEVDQEMLLEICLAANYLEIKPLLDLGCK 116 (158)
T ss_pred CCcccchhHHHHHHHHHHHHhccccCCCccChHhhhccCCccHHHHHHHHhhHHHHHHHHHhhccccchHHHHHHHH
Confidence 356789999999999999976543332 2335568889999999999999964
No 25
>KOG0783|consensus
Probab=71.58 E-value=7.3 Score=32.97 Aligned_cols=52 Identities=17% Similarity=0.281 Sum_probs=37.6
Q ss_pred CCeEEecCCCHHHHHHHHHhhhcceEE--------------ecCCcHHH-------HHHHHHhcCcccHHhhh
Q psy1847 14 HPIIILKDIKFTELQSMIDYMYEGEVN--------------ISQDQLPS-------FLKAAASIQLKGLTQNV 65 (86)
Q Consensus 14 ~~~V~L~~vs~~~l~~lL~f~YTG~l~--------------i~~~~v~~-------ll~aA~~Lqi~~l~~~c 65 (86)
+..|.+.+|.+..|+.||.|+||..+- +-++|... +...+..+++..|....
T Consensus 609 ~~~~~ve~i~p~mfe~lL~~iYtdt~~~P~heDdidci~fs~~k~N~~qrtrtCeMl~~~lekf~l~el~~~~ 681 (1267)
T KOG0783|consen 609 HSTIRVEDIPPLMFEILLHYIYTDTLLSPWHEDDIDCIRFSPLKENLSQRTRTCEMLANLLEKFHLAELLPFS 681 (1267)
T ss_pred CceeeeccCCHHHHHHHHHHHhcccccCCccccchhhhhccccccChhhcccHHHHHHHHHhhhhHHhhhhhh
Confidence 456778899999999999999998532 22344444 77777777776665554
No 26
>KOG1987|consensus
Probab=65.36 E-value=1.9 Score=30.43 Aligned_cols=51 Identities=18% Similarity=0.078 Sum_probs=41.9
Q ss_pred eEEecCCCHHHHHHHHHhhhcceEEecCCcHH---HHHHHHHhcCcccHHhhhh
Q psy1847 16 IIILKDIKFTELQSMIDYMYEGEVNISQDQLP---SFLKAAASIQLKGLTQNVK 66 (86)
Q Consensus 16 ~V~L~~vs~~~l~~lL~f~YTG~l~i~~~~v~---~ll~aA~~Lqi~~l~~~c~ 66 (86)
.+.+.+.++..++.+..|.|+..-.-..+.+. .++.+|...+.+.++..|-
T Consensus 141 ~~~~~d~~~~~~~~~~~F~~~~s~~~~~~~~~~~~~~~a~~f~~~~~~lk~~~~ 194 (297)
T KOG1987|consen 141 LITLLEEKPEVLEALNGFQVLPSQVSSVERIFEKHPDLAAAFKYKNRHLKLACM 194 (297)
T ss_pred cccccccchhhHhhhceEEEeccchHHHHHhhcCChhhhhccccccHHHHHHHH
Confidence 34677889999999999999977666666554 7888999999999999993
No 27
>KOG2723|consensus
Probab=63.90 E-value=13 Score=26.29 Aligned_cols=49 Identities=10% Similarity=0.190 Sum_probs=39.4
Q ss_pred CHHHHHHHHHhhhcceEEecC--CcHHHHHHHHHhcCcccHHhhhhcCCCC
Q psy1847 23 KFTELQSMIDYMYEGEVNISQ--DQLPSFLKAAASIQLKGLTQNVKAETPL 71 (86)
Q Consensus 23 s~~~l~~lL~f~YTG~l~i~~--~~v~~ll~aA~~Lqi~~l~~~c~~~~~~ 71 (86)
+...|+-|++|+=|-.+.++. .++..+.+-|+++|+......+.+....
T Consensus 58 DG~lFRyvL~~LRt~~l~lpe~f~e~~~L~rEA~f~~l~~~~~~l~~~~~~ 108 (221)
T KOG2723|consen 58 DGFLFRYVLDYLRTKALLLPEDFAEVERLVREAEFFQLEAPVTYLLNSGQI 108 (221)
T ss_pred CcchHHHHHHHhcccccccchhhhhHHHHHHHHHHHccccHHHHHhccccc
Confidence 445899999999997777777 6789999999999999887766444433
No 28
>KOG2715|consensus
Probab=55.76 E-value=6.2 Score=27.18 Aligned_cols=50 Identities=18% Similarity=0.186 Sum_probs=42.5
Q ss_pred EEecCCCHHHHHHHHHhhhcceEEecCCcHHHHHHHHHhcCcccHHhhhh
Q psy1847 17 IILKDIKFTELQSMIDYMYEGEVNISQDQLPSFLKAAASIQLKGLTQNVK 66 (86)
Q Consensus 17 V~L~~vs~~~l~~lL~f~YTG~l~i~~~~v~~ll~aA~~Lqi~~l~~~c~ 66 (86)
-.+-|=+|..|.-+|+|+=.|++-++.-.=..+|+-|+++.+++|.+...
T Consensus 66 AYlIDRDP~~FgpvLNylRhgklvl~~l~eeGvL~EAefyn~~~li~lik 115 (210)
T KOG2715|consen 66 AYLIDRDPFYFGPVLNYLRHGKLVLNKLSEEGVLEEAEFYNDPSLIQLIK 115 (210)
T ss_pred ceEeccCcchHHHHHHHHhcchhhhhhhhhhccchhhhccCChHHHHHHH
Confidence 45667788999999999999999998866666999999999998877663
No 29
>PF00356 LacI: Bacterial regulatory proteins, lacI family; InterPro: IPR000843 Numerous bacterial transcription regulatory proteins bind DNA via a helix-turn-helix (HTH) motif. These proteins are very diverse, but for convenience may be grouped into subfamilies on the basis of sequence similarity. One such family groups together a range of proteins, including ascG, ccpA, cytR, ebgR, fruR, galR, galS, lacI, malI, opnR, purF, rafR, rbtR and scrR [, ]. Within this family, the HTH motif is situated towards the N terminus.; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent, 0005622 intracellular; PDB: 3KJX_C 1ZAY_A 1VPW_A 2PUA_A 1QQA_A 1PNR_A 1JFT_A 1QP4_A 2PUD_A 1JH9_A ....
Probab=48.27 E-value=16 Score=19.20 Aligned_cols=35 Identities=14% Similarity=0.323 Sum_probs=28.6
Q ss_pred cCCCHHHHHHHHHhhhcceEEecCCcHHHHHHHHHhcCc
Q psy1847 20 KDIKFTELQSMIDYMYEGEVNISQDQLPSFLKAAASIQL 58 (86)
Q Consensus 20 ~~vs~~~l~~lL~f~YTG~l~i~~~~v~~ll~aA~~Lqi 58 (86)
-|++...++.+|. |.-.|+++..+.++++|..++.
T Consensus 9 agvS~~TVSr~ln----~~~~vs~~tr~rI~~~a~~lgY 43 (46)
T PF00356_consen 9 AGVSKSTVSRVLN----GPPRVSEETRERILEAAEELGY 43 (46)
T ss_dssp HTSSHHHHHHHHT----TCSSSTHHHHHHHHHHHHHHTB
T ss_pred HCcCHHHHHHHHh----CCCCCCHHHHHHHHHHHHHHCC
Confidence 4677777777766 7778999999999999998875
No 30
>KOG3713|consensus
Probab=46.49 E-value=18 Score=28.37 Aligned_cols=46 Identities=11% Similarity=0.152 Sum_probs=34.2
Q ss_pred CCCHHHHHHHHHhhhcceEEecCCc-HHHHHHHHHhcCccc-HHhhhh
Q psy1847 21 DIKFTELQSMIDYMYEGEVNISQDQ-LPSFLKAAASIQLKG-LTQNVK 66 (86)
Q Consensus 21 ~vs~~~l~~lL~f~YTG~l~i~~~~-v~~ll~aA~~Lqi~~-l~~~c~ 66 (86)
|=+|..|..+++|-+||+++...+- ...+.+=..+.+|+. -.+.||
T Consensus 86 DR~P~~F~~Vl~fYrtGkLH~p~~vC~~~F~eEL~yWgI~~~~le~CC 133 (477)
T KOG3713|consen 86 DRHPGAFAYVLNFYRTGKLHVPADVCPLSFEEELDYWGIDEAHLESCC 133 (477)
T ss_pred ccChHHHHHHHHHHhcCeeccccccchHHHHHHHHHhCCChhhhhHHh
Confidence 3478899999999999999987654 445666777777743 345554
No 31
>KOG3334|consensus
Probab=41.87 E-value=27 Score=23.22 Aligned_cols=67 Identities=13% Similarity=0.323 Sum_probs=35.8
Q ss_pred ecCCCHHHHHHHHHhhhc----------------ceEEecCCcHHHHHHHHHhcCcccH--HhhhhcCCCCCCCCCCCCC
Q psy1847 19 LKDIKFTELQSMIDYMYE----------------GEVNISQDQLPSFLKAAASIQLKGL--TQNVKAETPLENAAKPLPQ 80 (86)
Q Consensus 19 L~~vs~~~l~~lL~f~YT----------------G~l~i~~~~v~~ll~aA~~Lqi~~l--~~~c~~~~~~~~~~~~~~~ 80 (86)
|++-.+.+...+|+|.|- ++..|+.+.|.--+++-.-+++... .+..-.--..-| .+||||
T Consensus 28 I~eyEprVi~qlLefa~rYtt~vL~DA~vys~HA~ka~i~~eDVrlA~~~~~~~sf~~pPpRe~lL~lA~~rN-~~pLp~ 106 (148)
T KOG3334|consen 28 IQEYEPRVINQLLEFAYRYTTTVLDDAKVYSSHAKKATIDAEDVRLAIQMRVDHSFTPPPPREFLLELAAERN-SKPLPQ 106 (148)
T ss_pred ccccChHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCCCcHHHHHHHHHHHhccccCCCCchHHHHHHHHhhc-cCCCCc
Confidence 567788899999999863 4445555555544444444444330 000000001112 688888
Q ss_pred ccCCCC
Q psy1847 81 VNSEKG 86 (86)
Q Consensus 81 ~~~~~~ 86 (86)
+...-|
T Consensus 107 i~~~~g 112 (148)
T KOG3334|consen 107 IRAGPG 112 (148)
T ss_pred ccCCCC
Confidence 765543
No 32
>cd01392 HTH_LacI Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators. HTH-DNA binding domain of the LacI (lactose operon repressor) family of bacterial transcriptional regulators and their putative homologs found in plants. The LacI family has more than 500 members distributed among almost all bacterial species. The monomeric proteins of the LacI family contain common structural features that include a small DNA-binding domain with a helix-turn-helix motif in the N-terminus, a regulatory ligand-binding domain which exhibits the type I periplasmic binding protein fold in the C-terminus for oligomerization and for effector binding, and an approximately 18-amino acid linker connecting these two functional domains. In LacI-like transcriptional regulators, the ligands are monosaccharides including lactose, ribose, fructose, xylose, arabinose, galactose/glucose, and other sugars, with a few exceptions. When the C-terminal domain of the LacI family repre
Probab=40.33 E-value=32 Score=17.55 Aligned_cols=36 Identities=14% Similarity=0.355 Sum_probs=28.8
Q ss_pred cCCCHHHHHHHHHhhhcceEEecCCcHHHHHHHHHhcCcc
Q psy1847 20 KDIKFTELQSMIDYMYEGEVNISQDQLPSFLKAAASIQLK 59 (86)
Q Consensus 20 ~~vs~~~l~~lL~f~YTG~l~i~~~~v~~ll~aA~~Lqi~ 59 (86)
-||+...++.++. |+-.++......+++++..|+..
T Consensus 7 ~gvs~~tvs~~l~----g~~~vs~~~~~~i~~~~~~l~~~ 42 (52)
T cd01392 7 AGVSVATVSRVLN----GKPRVSEETRERVLAAAEELGYR 42 (52)
T ss_pred HCcCHHHHHHHHc----CCCCCCHHHHHHHHHHHHHhCCC
Confidence 3677777777665 77788889999999999998863
No 33
>PF04781 DUF627: Protein of unknown function (DUF627); InterPro: IPR006866 This domain represents the N-terminal region of several plant proteins of unknown function.
Probab=37.71 E-value=33 Score=21.67 Aligned_cols=54 Identities=22% Similarity=0.350 Sum_probs=41.7
Q ss_pred cCCCHHHHHHHHHhhhcceEEecCCcHHHHHHHHHhcCc----ccHHhhhhcCCCCCCC
Q psy1847 20 KDIKFTELQSMIDYMYEGEVNISQDQLPSFLKAAASIQL----KGLTQNVKAETPLENA 74 (86)
Q Consensus 20 ~~vs~~~l~~lL~f~YTG~l~i~~~~v~~ll~aA~~Lqi----~~l~~~c~~~~~~~~~ 74 (86)
+++...-+..-++ +|+--+.+++.....|+.+|+.|+. ...+..|.+.+++.|+
T Consensus 53 ~d~k~~yLl~sve-~~s~a~~Lsp~~A~~L~~la~~l~s~~~Ykk~v~kak~~Lsv~~p 110 (111)
T PF04781_consen 53 PDVKFRYLLGSVE-CFSRAVELSPDSAHSLFELASQLGSVKYYKKAVKKAKRGLSVTNP 110 (111)
T ss_pred chHHHHHHHHhHH-HHHHHhccChhHHHHHHHHHHHhhhHHHHHHHHHHHHHHhcccCC
Confidence 4555556666666 6777788889999999999999885 5567777888888776
No 34
>PF09116 gp45-slide_C: gp45 sliding clamp, C terminal; InterPro: IPR015200 This domain is essential for the interaction of the gp45 sliding clamp with the corresponding polymerase. It adopts a DNA clamp fold, consisting of two alpha helices and two beta sheets - the fold is duplicated and has internal pseudo two-fold symmetry []. ; PDB: 1B8H_A 1B77_B 3U61_F 3U60_G 3U5Z_R 1CZD_B.
Probab=37.45 E-value=20 Score=22.66 Aligned_cols=24 Identities=21% Similarity=0.452 Sum_probs=18.0
Q ss_pred EEecCCcHHHHHHHHHhcCcccHH
Q psy1847 39 VNISQDQLPSFLKAAASIQLKGLT 62 (86)
Q Consensus 39 l~i~~~~v~~ll~aA~~Lqi~~l~ 62 (86)
-.++.+.+++|+.+|..|+++.|.
T Consensus 4 F~L~~edl~ql~kas~~l~l~dl~ 27 (112)
T PF09116_consen 4 FELKAEDLQQLMKASRTLGLPDLC 27 (112)
T ss_dssp EEE-HHHHHHHHHHHHHCT--EEE
T ss_pred EEecHHHHHHHHHHHHhcCCCeEE
Confidence 357888999999999999998764
No 35
>PF06200 tify: tify domain; InterPro: IPR010399 The tify domain is a 36-amino acid domain only found among Embryophyta (land plants). It has been named after the most conserved amino acid pattern (TIF[F/Y]XG) it contains, but was previously known as the Zim domain. As the use of uppercase characters (TIFY) might imply that the domain is fully conserved across proteins, a lowercase lettering has been chosen in an attempt to highlight the reality of its natural variability. Based on the domain architecture, tify domain containing proteins can be classified into two groups. Group I is formed by proteins possessing a CCT (CONSTANS, CO-like, and TOC1) domain and a GATA-type zinc finger in addition to the tify domain. Group II contains proteins characterised by the tify domain but lacking a GATA-type zinc finger. Tify domain containing proteins might be involved in developmental processes and some of them have features that are characteristic for transcription factors: a nuclear localisation and the presence of a putative DNA-binding domain []. Some proteins known to contain a tify domain include: Arabidopsis thaliana Zinc-finger protein expressed in Inflorescence Meristem (ZIM), a putative transcription factor involved in inflorescence and flower development [, ]. A. thaliana ZIM-like proteins (ZML) []. A. thaliana PEAPOD1 and PEAPOD2 (PPD1 and PPD2) [].
Probab=33.99 E-value=18 Score=18.28 Aligned_cols=20 Identities=25% Similarity=0.496 Sum_probs=11.1
Q ss_pred hhcceEE----ecCCcHHHHHHHH
Q psy1847 34 MYEGEVN----ISQDQLPSFLKAA 53 (86)
Q Consensus 34 ~YTG~l~----i~~~~v~~ll~aA 53 (86)
.|.|++. ++.+.+++++..|
T Consensus 11 fY~G~V~Vfd~v~~~Ka~~im~lA 34 (36)
T PF06200_consen 11 FYGGQVCVFDDVPPDKAQEIMLLA 34 (36)
T ss_pred EECCEEEEeCCCCHHHHHHHHHHh
Confidence 4666663 3445566665555
No 36
>PF06404 PSK: Phytosulfokine precursor protein (PSK); InterPro: IPR009438 This family consists of several plant specific phytosulfokine precursor proteins. Phytosulfokines, are active as either a pentapeptide or a C-terminally truncated tetrapeptide. These compounds were first isolated because of their ability to stimulate cell division in somatic embryo cultures of Asparagus officinalis [].; GO: 0008083 growth factor activity, 0008283 cell proliferation, 0005576 extracellular region
Probab=33.01 E-value=22 Score=21.16 Aligned_cols=13 Identities=31% Similarity=0.728 Sum_probs=9.5
Q ss_pred HHHHHHHhhhcce
Q psy1847 26 ELQSMIDYMYEGE 38 (86)
Q Consensus 26 ~l~~lL~f~YTG~ 38 (86)
.+..-+|||||-+
T Consensus 66 tL~AHlDYIYTQ~ 78 (81)
T PF06404_consen 66 TLAAHLDYIYTQH 78 (81)
T ss_pred HHHHHhhheeccC
Confidence 4557789999953
No 37
>PF04699 P16-Arc: ARP2/3 complex 16 kDa subunit (p16-Arc); InterPro: IPR006789 The Arp2/3 protein complex has been implicated in the control of actin polymerisation. The human complex consists of seven subunits which include the actin related proteins Arp2 and Arp3, and five others referred to as p41-Arc, p34-Arc, p21-Arc, p20-Arc, and p16-Arc. The precise function of p16-Arc is currently unknown. Its structure consists of a single domain containing a bundle of seven alpha helices [, ].; GO: 0030833 regulation of actin filament polymerization, 0005856 cytoskeleton; PDB: 3DWL_G 1TYQ_G 1U2V_G 2P9U_G 2P9L_G 1K8K_G 3DXM_G 2P9N_G 3DXK_G 2P9I_G ....
Probab=30.17 E-value=36 Score=22.60 Aligned_cols=25 Identities=20% Similarity=0.470 Sum_probs=18.4
Q ss_pred ecCCCHHHHHHHHHhhhcceEEecC
Q psy1847 19 LKDIKFTELQSMIDYMYEGEVNISQ 43 (86)
Q Consensus 19 L~~vs~~~l~~lL~f~YTG~l~i~~ 43 (86)
++.++.+....|+.|+|.|=-.-+.
T Consensus 95 v~~L~~~~~D~LMKYiYkg~~~~~~ 119 (152)
T PF04699_consen 95 VKSLDSDQQDILMKYIYKGMESPSE 119 (152)
T ss_dssp HCCS-HHHHHHHHHHHHHHTTS--T
T ss_pred HHhCCHHHHhHHHHHHHHhccCccC
Confidence 5778999999999999998554443
No 38
>KOG4583|consensus
Probab=29.64 E-value=35 Score=25.87 Aligned_cols=37 Identities=19% Similarity=0.349 Sum_probs=28.3
Q ss_pred HHHHHHHhhhcceEEecCCcHHHHHHHHHhcCcccHH
Q psy1847 26 ELQSMIDYMYEGEVNISQDQLPSFLKAAASIQLKGLT 62 (86)
Q Consensus 26 ~l~~lL~f~YTG~l~i~~~~v~~ll~aA~~Lqi~~l~ 62 (86)
.+..-..-+|+|++..+...+.+++.-=....|..++
T Consensus 49 pl~~dqrliYsgkllld~qcl~d~lrkq~k~Hv~hlv 85 (391)
T KOG4583|consen 49 PLELDQRLIYSGKLLLDHQCLTDWLRKQVKEHVKHLV 85 (391)
T ss_pred CchhhHHHHhhccccccchhHHHHHHHHHHHHHHHHh
Confidence 3444556789999999999999998877766666654
No 39
>KOG3368|consensus
Probab=29.50 E-value=46 Score=21.86 Aligned_cols=25 Identities=16% Similarity=0.413 Sum_probs=20.6
Q ss_pred CCCCeEEecCCCHHHHHHHHHhhhc
Q psy1847 12 DKHPIIILKDIKFTELQSMIDYMYE 36 (86)
Q Consensus 12 ~~~~~V~L~~vs~~~l~~lL~f~YT 36 (86)
+.-..|.+.|-....++.+|+++|+
T Consensus 78 tglk~vl~Tdpk~~~ir~vLq~IYs 102 (140)
T KOG3368|consen 78 TGLKFVLNTDPKAGSIRDVLQYIYS 102 (140)
T ss_pred CCcEEEEecCCCcccHHHHHHHHHH
Confidence 3445566788999999999999998
No 40
>smart00354 HTH_LACI helix_turn _helix lactose operon repressor.
Probab=27.86 E-value=60 Score=18.04 Aligned_cols=35 Identities=11% Similarity=0.235 Sum_probs=29.4
Q ss_pred CCCHHHHHHHHHhhhcceEEecCCcHHHHHHHHHhcCcc
Q psy1847 21 DIKFTELQSMIDYMYEGEVNISQDQLPSFLKAAASIQLK 59 (86)
Q Consensus 21 ~vs~~~l~~lL~f~YTG~l~i~~~~v~~ll~aA~~Lqi~ 59 (86)
||+...++.++ .|+-.|+++....++++|..++..
T Consensus 11 gvS~~TVSr~l----n~~~~v~~~t~~~i~~~~~~~gy~ 45 (70)
T smart00354 11 GVSKATVSRVL----NGNGRVSEETREKVLAAMEELGYI 45 (70)
T ss_pred CCCHHHHHHHH----CCCCCCCHHHHHHHHHHHHHhCCC
Confidence 67777777766 488888999999999999999974
No 41
>PF00633 HHH: Helix-hairpin-helix motif; InterPro: IPR000445 The HhH motif is an around 20 amino acids domain present in prokaryotic and eukaryotic non-sequence-specific DNA binding proteins [, , ]. The HhH motif is similar to, but distinct from, the HtH motif. Both of these motifs have two helices connected by a short turn. In the HtH motif the second helix binds to DNA with the helix in the major groove. This allows the contact between specific base and residues throughout the protein. In the HhH motif the second helix does not protrude from the surface of the protein and therefore cannot lie in the major groove of the DNA. Crystallographic studies suggest that the interaction of the HhH domain with DNA is mediated by amino acids located in the strongly conserved loop (L-P-G-V) and at the N-terminal end of the second helix []. This interaction could involve the formation of hydrogen bonds between protein backbone nitrogens and DNA phosphate groups []. The structural difference between the HtH and HhH domains is reflected at the functional level: whereas the HtH domain, found primarily in gene regulatory proteins, binds DNA in a sequence specific manner, the HhH domain is rather found in proteins involved in enzymatic activities and binds DNA with no sequence specificity []. The HhH domain of DisA, a bacterial checkpoint control protein, is a DNA-binding domain [].; GO: 0003677 DNA binding; PDB: 3C1Z_A 3C23_A 3C1Y_A 3C21_A 1Z00_A 2A1J_B 1KEA_A 1VRL_A 1RRQ_A 3G0Q_A ....
Probab=26.59 E-value=69 Score=15.24 Aligned_cols=17 Identities=12% Similarity=0.286 Sum_probs=12.9
Q ss_pred EEecCCCHHHHHHHHHh
Q psy1847 17 IILKDIKFTELQSMIDY 33 (86)
Q Consensus 17 V~L~~vs~~~l~~lL~f 33 (86)
..|+||.+..-+.+++|
T Consensus 14 ~~lpGIG~~tA~~I~~~ 30 (30)
T PF00633_consen 14 MKLPGIGPKTANAILSF 30 (30)
T ss_dssp HTSTT-SHHHHHHHHHH
T ss_pred HhCCCcCHHHHHHHHhC
Confidence 34789999988888876
No 42
>PF14769 CLAMP: Flagellar C1a complex subunit C1a-32
Probab=26.18 E-value=56 Score=19.68 Aligned_cols=36 Identities=17% Similarity=0.273 Sum_probs=22.8
Q ss_pred chhhhcCCCCCCCCeEEecCCCHHHHHHHHHhhhcc
Q psy1847 2 EDESLFTEHFDKHPIIILKDIKFTELQSMIDYMYEG 37 (86)
Q Consensus 2 YFr~mF~~~e~~~~~V~L~~vs~~~l~~lL~f~YTG 37 (86)
||+.++.......+.-.+.-.+.+.++.+++|+.+.
T Consensus 44 ~fk~~l~~~sv~rpp~~~~iFs~~~~~~i~~y~~~t 79 (101)
T PF14769_consen 44 YFKELLLRHSVQRPPFSIGIFSVDQVKAIIDYFHNT 79 (101)
T ss_pred HHHHHHHHhccCCCCcccCcCCHHHHHHHHHHHHHH
Confidence 566666541111222236667899999999998764
No 43
>KOG2838|consensus
Probab=25.55 E-value=1.7e+02 Score=21.91 Aligned_cols=42 Identities=7% Similarity=0.188 Sum_probs=32.4
Q ss_pred EEecCCCHHHHHHHHHhhhcceEEe---cCCcHHHHHHHHHhcCc
Q psy1847 17 IILKDIKFTELQSMIDYMYEGEVNI---SQDQLPSFLKAAASIQL 58 (86)
Q Consensus 17 V~L~~vs~~~l~~lL~f~YTG~l~i---~~~~v~~ll~aA~~Lqi 58 (86)
+..-++.-+.++.+|.+.|||+-.. .-.|+.-+.+.+.-++.
T Consensus 174 ik~ag~dm~~feafLh~l~tgEfgmEd~~fqn~diL~QL~edFG~ 218 (401)
T KOG2838|consen 174 IKFAGFDMDAFEAFLHSLITGEFGMEDLGFQNSDILEQLCEDFGC 218 (401)
T ss_pred hhhhccChHHHHHHHHHHHhcccchhhcCCchHHHHHHHHHhhCC
Confidence 4457889999999999999999855 33557667777776664
No 44
>PF05391 Lsm_interact: Lsm interaction motif; InterPro: IPR008669 This short motif is found at the C terminus of Prp24 proteins and probably interacts with the Lsm proteins to promote U4/U6 formation [].
Probab=25.43 E-value=32 Score=15.44 Aligned_cols=6 Identities=17% Similarity=0.251 Sum_probs=4.9
Q ss_pred hhhhcC
Q psy1847 3 DESLFT 8 (86)
Q Consensus 3 Fr~mF~ 8 (86)
||.||.
T Consensus 15 Frkmfl 20 (21)
T PF05391_consen 15 FRKMFL 20 (21)
T ss_pred HHHHHc
Confidence 888885
No 45
>TIGR01481 ccpA catabolite control protein A. Catabolite control protein A is a LacI family global transcriptional regulator found in Gram-positive bacteria. CcpA is involved in repressing carbohydrate utilization genes [ex: alpha-amylase (amyE), acetyl-coenzyme A synthase (acsA)] and in activating genes involved in transporting excess carbon from the cell [ex: acetate kinase (ackA), alpha-acetolactate synthase (alsS)]. Additionally, disruption of CcpA in Bacillus megaterium, Staphylococcus xylosus, Lactobacillus casei and Lactocacillus pentosus also decreases growth rate, which suggests CcpA is involved in the regulation of other metabolic pathways.
Probab=23.98 E-value=60 Score=22.61 Aligned_cols=37 Identities=8% Similarity=0.279 Sum_probs=31.8
Q ss_pred ecCCCHHHHHHHHHhhhcceEEecCCcHHHHHHHHHhcCcc
Q psy1847 19 LKDIKFTELQSMIDYMYEGEVNISQDQLPSFLKAAASIQLK 59 (86)
Q Consensus 19 L~~vs~~~l~~lL~f~YTG~l~i~~~~v~~ll~aA~~Lqi~ 59 (86)
.-|||..+++.+|+ |.-.|+++..+.++++|..|+..
T Consensus 10 ~agvS~~TVSrvLn----~~~~vs~~tr~rV~~~a~~lgY~ 46 (329)
T TIGR01481 10 EAGVSMATVSRVVN----GNPNVKPATRKKVLEVIKRLDYR 46 (329)
T ss_pred HhCCCHHHHHHHhC----CCCCCCHHHHHHHHHHHHHHCCC
Confidence 35789989988886 77789999999999999999964
No 46
>PRK10727 DNA-binding transcriptional regulator GalR; Provisional
Probab=22.53 E-value=66 Score=22.69 Aligned_cols=36 Identities=11% Similarity=0.170 Sum_probs=31.4
Q ss_pred cCCCHHHHHHHHHhhhcceEEecCCcHHHHHHHHHhcCcc
Q psy1847 20 KDIKFTELQSMIDYMYEGEVNISQDQLPSFLKAAASIQLK 59 (86)
Q Consensus 20 ~~vs~~~l~~lL~f~YTG~l~i~~~~v~~ll~aA~~Lqi~ 59 (86)
-|||..+++.+|+ |+-.|+++.-+.++++|..|+..
T Consensus 11 aGVS~~TVSrvLn----~~~~Vs~~tr~rV~~~a~elgY~ 46 (343)
T PRK10727 11 AGVSVATVSRVIN----NSPKASEASRLAVHSAMESLSYH 46 (343)
T ss_pred hCCCHHHHHHHhC----CCCCCCHHHHHHHHHHHHHHCCC
Confidence 5789989988885 77789999999999999999863
No 47
>PHA02277 hypothetical protein
Probab=22.43 E-value=1e+02 Score=20.15 Aligned_cols=21 Identities=24% Similarity=0.485 Sum_probs=19.3
Q ss_pred cCCCHHHHHHHHHhhhcceEE
Q psy1847 20 KDIKFTELQSMIDYMYEGEVN 40 (86)
Q Consensus 20 ~~vs~~~l~~lL~f~YTG~l~ 40 (86)
.++|-..|..+++|+-||++.
T Consensus 10 K~iS~~Dm~~W~e~V~tg~v~ 30 (150)
T PHA02277 10 KGISQADMEKWIEAVVQGTVD 30 (150)
T ss_pred hhccHHHHHHHHHHHHhCccc
Confidence 578999999999999999986
No 48
>KOG4682|consensus
Probab=22.17 E-value=44 Score=26.07 Aligned_cols=26 Identities=15% Similarity=0.280 Sum_probs=24.8
Q ss_pred EecCCcHHHHHHHHHhcCcccHHhhh
Q psy1847 40 NISQDQLPSFLKAAASIQLKGLTQNV 65 (86)
Q Consensus 40 ~i~~~~v~~ll~aA~~Lqi~~l~~~c 65 (86)
+++++++...+++|+.+++.++++.|
T Consensus 169 ~lspkta~~yYea~ckYgle~vk~kc 194 (488)
T KOG4682|consen 169 TLSPKTACGYYEAACKYGLESVKKKC 194 (488)
T ss_pred hcChhhhhHhhhhhhhhhhHHHHHHH
Confidence 67899999999999999999999999
No 49
>PF11834 DUF3354: Domain of unknown function (DUF3354); InterPro: IPR021789 Potassium channels take part in important processes of higher plants, including opening and closing of stomatal pores and leaf movement. Inward rectifying potassium (K(+)in) channels play an important role in turgor regulation and ion uptake in higher plants. All of them comprise, from their N-terminal to their C-terminal ends: a short hydrophilic region, a hydrophobic region structurally analogous and partially homologous to the transmembrane domain of voltage-gated animal channels from the Shaker superfamily, a putative cyclic nucleotide-binding domain, and a conserved C-terminal KHA domain. Between these last two regions, some of them (AKT1, AKT2 and SKT1) contain an ankyrin-repeat domain with six repeats homologous to those of human erythrocyte ankyrin. This entry represents the KHA domain which is unique to plant K(+)in channels. The KHA domain contains two high-homology blocks enriched for hydrophobic and acidic residues, respectively. The KHA domain is essential for interaction of plant K(+)in channels. The KHA domain mediates tetramerization and/or stabilisation of the heteromers [, , ].
Probab=21.75 E-value=1.3e+02 Score=17.25 Aligned_cols=24 Identities=29% Similarity=0.361 Sum_probs=18.0
Q ss_pred cceEEecCCcHHHHHHHH-HhcCcc
Q psy1847 36 EGEVNISQDQLPSFLKAA-ASIQLK 59 (86)
Q Consensus 36 TG~l~i~~~~v~~ll~aA-~~Lqi~ 59 (86)
.|++-.-++++++|+.+| ..|++.
T Consensus 18 ~GKvi~lP~SleeLl~ia~~kfg~~ 42 (69)
T PF11834_consen 18 AGKVIWLPDSLEELLKIASEKFGFS 42 (69)
T ss_pred CCEEEEcCccHHHHHHHHHHHhCCC
Confidence 388888889999988765 456663
No 50
>PF02291 TFIID-31kDa: Transcription initiation factor IID, 31kD subunit; InterPro: IPR003162 Human transcription initiation factor TFIID is composed of the TATA-binding polypeptide (TBP) and at least 13 TBP-associated factors (TAFs) that collectively or individually are involved in activator-dependent transcription []. TAFII-31 protein is a transcriptional coactivator of the p53 protein [].; GO: 0006352 transcription initiation, DNA-dependent; PDB: 1TAF_A.
Probab=21.40 E-value=63 Score=20.84 Aligned_cols=17 Identities=6% Similarity=0.413 Sum_probs=12.0
Q ss_pred cCCCHHHHHHHHHhhhc
Q psy1847 20 KDIKFTELQSMIDYMYE 36 (86)
Q Consensus 20 ~~vs~~~l~~lL~f~YT 36 (86)
.+..+.+...+|+|+|-
T Consensus 28 ~~yeprVv~qLLEfayR 44 (129)
T PF02291_consen 28 TEYEPRVVNQLLEFAYR 44 (129)
T ss_dssp --B-THHHHHHHHHHHH
T ss_pred cccCHHHHHHHHHHHHH
Confidence 44577899999999875
No 51
>PRK10423 transcriptional repressor RbsR; Provisional
Probab=21.33 E-value=83 Score=21.81 Aligned_cols=36 Identities=11% Similarity=0.168 Sum_probs=31.5
Q ss_pred ecCCCHHHHHHHHHhhhcceEEecCCcHHHHHHHHHhcCc
Q psy1847 19 LKDIKFTELQSMIDYMYEGEVNISQDQLPSFLKAAASIQL 58 (86)
Q Consensus 19 L~~vs~~~l~~lL~f~YTG~l~i~~~~v~~ll~aA~~Lqi 58 (86)
+-|||..+++.+|+ |+-.|+++..+.++++|..|+-
T Consensus 7 ~agVS~~TVSrvLn----~~~~vs~~tr~rV~~~a~~lgY 42 (327)
T PRK10423 7 LAGVSTSTVSHVIN----KDRFVSEAITAKVEAAIKELNY 42 (327)
T ss_pred HhCCcHHHHHHHhC----CCCCCCHHHHHHHHHHHHHHCC
Confidence 35889999999885 7778999999999999999985
No 52
>PF08384 NPP: Pro-opiomelanocortin, N-terminal region; InterPro: IPR013593 This domain represents the N-terminal peptide of pro-opiomelanocortin (NPP). It is thought to represent an important pituitary peptide, given its high yield from pituitary glands, and exhibits a potent in vitro aldosterone-stimulating activity [].
Probab=21.29 E-value=54 Score=17.50 Aligned_cols=20 Identities=25% Similarity=0.260 Sum_probs=15.8
Q ss_pred cccHHhhhhcCCCCCCCCCC
Q psy1847 58 LKGLTQNVKAETPLENAAKP 77 (86)
Q Consensus 58 i~~l~~~c~~~~~~~~~~~~ 77 (86)
|..-+++|+...+.|.+.+|
T Consensus 17 lleCi~~Ck~dlsaEsPv~P 36 (45)
T PF08384_consen 17 LLECIQACKSDLSAESPVFP 36 (45)
T ss_pred HHHHHHHccccccCCCCccC
Confidence 34567889999999998876
No 53
>PF07085 DRTGG: DRTGG domain; InterPro: IPR010766 This presumed domain is about 120 amino acids in length. It is found associated with CBS domains IPR000644 from INTERPRO, as well as the CbiA domain IPR002586 from INTERPRO. The function of this domain is unknown. It is named the DRTGG domain after some of the most conserved residues. This domain may be very distantly related to a pair of CBS domains. There are no significant sequence similarities, but its length and association with CBS domains supports this idea. ; PDB: 3L31_B 3L2B_A 2IOJ_A.
Probab=21.11 E-value=72 Score=18.95 Aligned_cols=40 Identities=15% Similarity=0.282 Sum_probs=29.9
Q ss_pred HHHHHHHHhhhcceEEecCCcHHHHHHHHHhcCcccHHhh
Q psy1847 25 TELQSMIDYMYEGEVNISQDQLPSFLKAAASIQLKGLTQN 64 (86)
Q Consensus 25 ~~l~~lL~f~YTG~l~i~~~~v~~ll~aA~~Lqi~~l~~~ 64 (86)
..++.+++++.-|.+-|+..+-.+++.+|...++..++=.
T Consensus 29 ~~~~~~~~~~~~~~lvIt~gdR~di~~~a~~~~i~~iIlt 68 (105)
T PF07085_consen 29 MSLSDFLEYLKPGDLVITPGDREDIQLAAIEAGIACIILT 68 (105)
T ss_dssp S-HHHHHHCHHTTEEEEEETT-HHHHHHHCCTTECEEEEE
T ss_pred CCHHHHHhhcCCCeEEEEeCCcHHHHHHHHHhCCCEEEEe
Confidence 3457888899999999997777888888888876665433
No 54
>PF11459 DUF2893: Protein of unknwon function (DUF2893); InterPro: IPR021561 This is a bacterial family of uncharacterised proteins.
Probab=20.74 E-value=95 Score=17.95 Aligned_cols=26 Identities=27% Similarity=0.390 Sum_probs=15.1
Q ss_pred ceEEecCCcHHHHHHHHHhcCcccHH
Q psy1847 37 GEVNISQDQLPSFLKAAASIQLKGLT 62 (86)
Q Consensus 37 G~l~i~~~~v~~ll~aA~~Lqi~~l~ 62 (86)
|-.++++..++.+|+.+...++..+.
T Consensus 29 gL~nLrp~~lq~LL~~C~svKvkRLf 54 (69)
T PF11459_consen 29 GLRNLRPRVLQELLEHCTSVKVKRLF 54 (69)
T ss_pred HHhhcCHHHHHHHHHHCccHHHHHHH
Confidence 44556666666666666655555443
Done!