Query 011665
Match_columns 480
No_of_seqs 141 out of 390
Neff 5.3
Searched_HMMs 46136
Date Fri Mar 29 03:53:09 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/011665.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/011665hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF03000 NPH3: NPH3 family; I 100.0 8.7E-82 1.9E-86 622.3 21.2 236 208-479 1-237 (258)
2 KOG4441 Proteins containing BT 99.2 1.7E-10 3.6E-15 126.7 16.8 130 14-153 26-159 (571)
3 PF00651 BTB: BTB/POZ domain; 99.2 1E-10 2.2E-15 99.3 7.9 100 20-129 6-109 (111)
4 PHA03098 kelch-like protein; P 99.1 3.9E-10 8.5E-15 121.4 12.7 127 21-168 6-136 (534)
5 PHA02790 Kelch-like protein; P 99.1 3.4E-10 7.3E-15 121.6 8.7 108 15-132 13-121 (480)
6 PHA02713 hypothetical protein; 99.0 4.7E-10 1E-14 122.8 9.0 109 12-132 13-124 (557)
7 smart00225 BTB Broad-Complex, 99.0 1E-09 2.2E-14 87.5 6.8 83 26-112 1-84 (90)
8 KOG4350 Uncharacterized conser 97.6 0.00011 2.4E-09 77.3 5.9 108 17-131 37-145 (620)
9 KOG2075 Topoisomerase TOP1-int 97.1 0.0051 1.1E-07 66.2 12.1 187 12-249 102-294 (521)
10 KOG4682 Uncharacterized conser 96.7 0.0049 1.1E-07 65.2 7.5 91 18-111 63-156 (488)
11 KOG0783 Uncharacterized conser 96.4 0.0042 9.1E-08 70.4 5.1 104 26-159 560-676 (1267)
12 smart00512 Skp1 Found in Skp1 95.8 0.021 4.5E-07 49.3 5.6 81 26-110 3-104 (104)
13 PF11822 DUF3342: Domain of un 94.9 0.04 8.6E-07 57.0 5.3 84 35-129 14-102 (317)
14 PF03931 Skp1_POZ: Skp1 family 92.8 0.2 4.4E-06 39.5 4.6 56 27-87 3-58 (62)
15 KOG3473 RNA polymerase II tran 86.3 2.2 4.7E-05 37.5 6.1 79 27-109 19-111 (112)
16 PF02214 BTB_2: BTB/POZ domain 52.6 13 0.00029 30.8 2.8 82 27-112 1-88 (94)
17 KOG0783 Uncharacterized conser 48.4 12 0.00025 43.9 2.3 61 26-88 712-772 (1267)
18 KOG4591 Uncharacterized conser 39.5 35 0.00076 33.9 3.7 74 22-101 64-140 (280)
19 COG3510 CmcI Cephalosporin hyd 38.0 21 0.00045 35.4 1.9 28 450-477 183-212 (237)
20 PF10929 DUF2811: Protein of u 37.6 20 0.00042 28.5 1.4 15 463-477 9-23 (57)
21 PF01402 RHH_1: Ribbon-helix-h 35.5 52 0.0011 22.9 3.3 34 217-250 5-39 (39)
22 PHA00617 ribbon-helix-helix do 34.7 58 0.0013 27.5 3.9 36 216-251 44-80 (80)
23 KOG2838 Uncharacterized conser 29.1 38 0.00082 35.2 2.2 74 24-101 130-209 (401)
24 PF14363 AAA_assoc: Domain ass 21.9 50 0.0011 28.3 1.4 26 452-477 29-54 (98)
25 KOG2716 Polymerase delta-inter 21.5 6.3E+02 0.014 25.4 9.2 108 29-146 9-126 (230)
No 1
>PF03000 NPH3: NPH3 family; InterPro: IPR004249 The RPT2 protein is a signal transducer of the phototropic response in Arabidopsis thaliana. The RPT2 gene is light inducible; encodes a novel protein with putative phosphorylation sites, a nuclear localization signal, a BTB/POZ domain (IPR000210 from INTERPRO), and a coiled-coil domain. RPT2 belongs to a large gene family that includes the recently isolated NPH3 gene []. The NPH3 protein is a NPH1 photoreceptor-interacting protein that is essential for phototropism. Phototropism of A. thaliana seedlings in response to a blue light source is initiated by nonphototropic hypocotyl 1 (NPH1), a light-activated serine-threonine protein kinase []. NPH3 is a member of a large protein family, apparently specific to higher plants, and may function as an adapter or scaffold protein to bring together the enzymatic components of a NPH1-activated phosphorelay []. Many of the proteins in this group also contain the BTB/POZ domain (IPR000210 from INTERPRO) at the N-terminal.; GO: 0004871 signal transducer activity, 0009416 response to light stimulus
Probab=100.00 E-value=8.7e-82 Score=622.26 Aligned_cols=236 Identities=54% Similarity=0.877 Sum_probs=204.4
Q ss_pred CCcchhhcccCChhhHHHHHHHHHHhCCChhhHHHHHHHHHHHhhhcccccCCCCcccccccccCCCCCCCCCCCCCcce
Q 011665 208 PDWWFEDVSILRIDHFVRVVTAIKVKGMRFELIGAAIMHYAAKWLTGLIRESSGTADEISSYSASNSNGSCSSWKGGLHM 287 (480)
Q Consensus 208 ~dWW~eDl~~L~i~~f~rVi~am~~rg~~~~~I~~~l~~Ya~k~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 287 (480)
+|||||||+.|++++|+|||.+|+++||+|++||++|++||+||||++.+.......
T Consensus 1 ~dWW~eDl~~L~id~f~rvi~a~~~~~~~~~~I~~~l~~Ya~k~l~~~~~~~~~~~~----------------------- 57 (258)
T PF03000_consen 1 KDWWFEDLSELSIDLFKRVISAMKSKGMKPEVIGEALMHYAKKWLPGLSRSSSGSSS----------------------- 57 (258)
T ss_pred CCccHHHHHhCCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHcCCcccccccccc-----------------------
Confidence 489999999999999999999999999999999999999999999998664221100
Q ss_pred eecCCCCCCcchhhhhhHHHHHHHHHhCCCCCCcccHHHHHHHHHHHHhcCCCHHHHHHHHHHHhhhhcccCcccccccc
Q 011665 288 IVAGMKDDPPTVQAKDQRMIIESLISIIPPQKDSVSCSFLLRLLRMANMLKVAPALVTELEKRVGMQFEQATLADLLIPA 367 (480)
Q Consensus 288 ~~~~~~~~~~~~~~~~qr~llEtIV~LLP~ek~svsc~FLf~LLR~A~~l~as~~cr~~LE~RIg~QLd~AtldDLLIPs 367 (480)
..........+||.+||+||+|||.+|+++||+|||+|||+|+++++|+.||.+||+|||+|||||||||||||+
T Consensus 58 -----~~~~~~~~~~~~r~llEtiV~lLP~e~~svsc~FL~~LLr~A~~l~as~~cr~~Le~rIg~qLd~AtldDLLIP~ 132 (258)
T PF03000_consen 58 -----SAESSTSSENEQRELLETIVSLLPPEKGSVSCSFLFRLLRAAIMLGASSACRNELERRIGSQLDQATLDDLLIPS 132 (258)
T ss_pred -----cccccchhHHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHhhhccHHHhcccC
Confidence 011223345699999999999999999999999999999999999999999999999999999999999999999
Q ss_pred C-CCCCcccchHHHHHHHHHHHhcccccCCCCCccccccccccccccCCCCchhHHHHHHhhhhhhhhccCCCCCChhHH
Q 011665 368 Y-SKGETLYDVDLVQRLLEHFLVQEQTESSSPSRQSFSDKHMYDASQRGNGTSAKMRVARLVDGYLTEVARDRNLSLTKF 446 (480)
Q Consensus 368 ~-~~~~tlYDVDlV~Ril~~Fl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~kVakLvD~YLaEVA~D~nL~~sKF 446 (480)
. +..+|+||||+|+|||++||.+++..+....... .....++.+++.+||||||+||+|||+|+||||+||
T Consensus 133 ~~~~~~t~yDVd~V~riv~~Fl~~~~~~~~~~~~~~--------~~~~~~~~~~~~~VakLvD~YLaEiA~D~~L~~~kF 204 (258)
T PF03000_consen 133 SPSGEDTLYDVDLVQRIVEHFLSQEEEAGEEEESES--------ESGSSPSSSSLVKVAKLVDGYLAEIAPDPNLKPSKF 204 (258)
T ss_pred CCCcccchhhHHHHHHHHHHHHhccccccccccccc--------ccccCCChHHHHHHHHHHHHHHHHhcCCCCCCHHHH
Confidence 4 4666999999999999999998664331110000 011246788999999999999999999999999999
Q ss_pred HHHHHhcCCCcccCCCChhHHHHHhhhccCCCC
Q 011665 447 QVLAEALPESARTCDDGLYRAIDSYLKVISNFC 479 (480)
Q Consensus 447 ~~Lae~lPd~AR~~hDgLYRAIDiYLKaHp~L~ 479 (480)
++|||++|++||++|||||||||||||+||+|-
T Consensus 205 ~~Lae~lP~~aR~~hD~LYrAID~YLk~Hp~ls 237 (258)
T PF03000_consen 205 VALAEALPDSARPSHDGLYRAIDIYLKAHPGLS 237 (258)
T ss_pred HHHHHHCCHhhhhccchHHHHHHHHHHHcccCC
Confidence 999999999999999999999999999999973
No 2
>KOG4441 consensus Proteins containing BTB/POZ and Kelch domains, involved in regulatory/signal transduction processes [Signal transduction mechanisms; General function prediction only]
Probab=99.24 E-value=1.7e-10 Score=126.74 Aligned_cols=130 Identities=22% Similarity=0.243 Sum_probs=103.8
Q ss_pred HhhhhhhhccccceEEEEEeeeEEeccchhhhccchHHHHHHhccc-CCCCcceEEecCCCCCHHHHHHHHHHhcCccee
Q 011665 14 RLMGLSLEANLGMLLLIFQVTFLFKLEMLIFTYTRSGKMNRLIYES-RDSELNKIVLDDLPGGPEAFELAAKFCYGIAVD 92 (480)
Q Consensus 14 ~~~~~~~~~~l~~v~li~~~~~~f~~h~~~lL~s~Sg~l~rl~~~~-~~~~~~~i~L~d~PGGaeaFEl~akFCYg~~i~ 92 (480)
.+...-.++.+|||+|. +++..|.+||++| ++.|.|||.||+.. +++++.+|+|.++.+ +++++...|+|.++++
T Consensus 26 ~l~~lr~~~~lcDv~L~-v~~~~~~aHR~VL-Aa~S~YFraMFt~~l~e~~~~~i~l~~v~~--~~l~~ll~y~Yt~~i~ 101 (571)
T KOG4441|consen 26 GLNELREEGLLCDVTLL-VGDREFPAHRVVL-AACSPYFRAMFTSGLKESKQKEINLEGVDP--ETLELLLDYAYTGKLE 101 (571)
T ss_pred HHHHHHHhCCCceEEEE-ECCeeechHHHHH-HhccHHHHHHhcCCcccccceEEEEecCCH--HHHHHHHHHhhcceEE
Confidence 34444557789999999 9999999999975 99999999999976 677888999999665 9999999999999999
Q ss_pred cCcChHHHHHHhHHHhcCcccccCCChHHHHHHHhhhhccCC---hHHHHHHHhhhcccchhhh
Q 011665 93 LTASNISGLRCAAEYLEMTEDLEEGNLIFKTEAFLSYVVLSS---WRDSIIVLKSCEKLSPWAE 153 (480)
Q Consensus 93 it~~NVa~LrCAAe~LeMte~~~~gNLi~ktE~fL~~~vl~s---W~dsi~vL~sCe~Llp~AE 153 (480)
|+..||..|.-||.+|||++ +..-.-.||.+.+..+ +--.++=+.+|..|...|.
T Consensus 102 i~~~nVq~ll~aA~~lQi~~------v~~~C~~fL~~~l~~~Nclgi~~~a~~~~~~~L~~~a~ 159 (571)
T KOG4441|consen 102 ISEDNVQELLEAASLLQIPE------VVDACCEFLESQLDPSNCLGIRRFAELHSCTELLEVAD 159 (571)
T ss_pred echHhHHHHHHHHHHhhhHH------HHHHHHHHHHhcCCHHHHHHHHHHHHhcCcHHHHHHHH
Confidence 99999999999999999996 5567788888765322 1112223345665555444
No 3
>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=99.15 E-value=1e-10 Score=99.25 Aligned_cols=100 Identities=24% Similarity=0.295 Sum_probs=85.5
Q ss_pred hhccccceEEEEEe-eeEEeccchhhhccchHHHHHHhcccC--CCCcceEEecCCCCCHHHHHHHHHHhcCcceecC-c
Q 011665 20 LEANLGMLLLIFQV-TFLFKLEMLIFTYTRSGKMNRLIYESR--DSELNKIVLDDLPGGPEAFELAAKFCYGIAVDLT-A 95 (480)
Q Consensus 20 ~~~~l~~v~li~~~-~~~f~~h~~~lL~s~Sg~l~rl~~~~~--~~~~~~i~L~d~PGGaeaFEl~akFCYg~~i~it-~ 95 (480)
-.+..||++|+ ++ +..|..||.+| +++|.||++++.+.. +....++.+++++ +++|+.+.+|||++++.++ .
T Consensus 6 ~~~~~~D~~i~-v~d~~~~~vhk~iL-~~~S~~F~~~~~~~~~~~~~~~~i~~~~~~--~~~~~~~l~~~Y~~~~~~~~~ 81 (111)
T PF00651_consen 6 NSNEFSDVTIR-VGDGKTFYVHKNIL-AARSPYFRNLFEGSKFKESTVPEISLPDVS--PEAFEAFLEYMYTGEIEINSD 81 (111)
T ss_dssp HHTTS--EEEE-ETTTEEEEE-HHHH-HHHBHHHHHHHTTTTSTTSSEEEEEETTSC--HHHHHHHHHHHHHSEEEEE-T
T ss_pred cCCCCCCEEEE-ECCCEEEeechhhh-hccchhhhhccccccccccccccccccccc--ccccccccccccCCcccCCHH
Confidence 34578999999 88 89999999976 999999999999882 3334578889998 5999999999999999998 9
Q ss_pred ChHHHHHHhHHHhcCcccccCCChHHHHHHHhhh
Q 011665 96 SNISGLRCAAEYLEMTEDLEEGNLIFKTEAFLSY 129 (480)
Q Consensus 96 ~NVa~LrCAAe~LeMte~~~~gNLi~ktE~fL~~ 129 (480)
.|+..+...|.+++|. +|...++.||.+
T Consensus 82 ~~~~~ll~lA~~~~~~------~L~~~~~~~l~~ 109 (111)
T PF00651_consen 82 ENVEELLELADKLQIP------ELKKACEKFLQE 109 (111)
T ss_dssp TTHHHHHHHHHHTTBH------HHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHhCcH------HHHHHHHHHHHh
Confidence 9999999999999998 588999999876
No 4
>PHA03098 kelch-like protein; Provisional
Probab=99.12 E-value=3.9e-10 Score=121.43 Aligned_cols=127 Identities=15% Similarity=0.198 Sum_probs=102.4
Q ss_pred hccccceEEEE-EeeeEEeccchhhhccchHHHHHHhcccCCCCcceEEecCCCCCHHHHHHHHHHhcCcceecCcChHH
Q 011665 21 EANLGMLLLIF-QVTFLFKLEMLIFTYTRSGKMNRLIYESRDSELNKIVLDDLPGGPEAFELAAKFCYGIAVDLTASNIS 99 (480)
Q Consensus 21 ~~~l~~v~li~-~~~~~f~~h~~~lL~s~Sg~l~rl~~~~~~~~~~~i~L~d~PGGaeaFEl~akFCYg~~i~it~~NVa 99 (480)
++.+|||+|+- ++|..|.+||.+| +++|.||++|+...-. +.+|+|++ -+++|+.+.+|-|.++++|+..||.
T Consensus 6 ~~~~~Dv~l~~~~~~~~~~~Hk~vL-aa~S~yF~~mf~~~~~--~~~i~l~~---~~~~~~~~l~y~Ytg~~~i~~~~~~ 79 (534)
T PHA03098 6 LQKFCDESIIIVNGGGIIKVHKIIL-SSSSEYFKKMFKNNFK--ENEINLNI---DYDSFNEVIKYIYTGKINITSNNVK 79 (534)
T ss_pred cCCCCCEEEEEEcCCEEEEeHHHHH-HhhhHHHHHHHhCCCC--CceEEecC---CHHHHHHHHHHhcCCceEEcHHHHH
Confidence 56799999993 3999999999976 9999999999987632 56788877 5699999999999999999999999
Q ss_pred HHHHhHHHhcCcccccCCChHHHHHHHhhhhccCChHHHHHHHhhhcccchhhhhh---chHHHHHHHHHHH
Q 011665 100 GLRCAAEYLEMTEDLEEGNLIFKTEAFLSYVVLSSWRDSIIVLKSCEKLSPWAENL---QIVRRCSESIAWK 168 (480)
Q Consensus 100 ~LrCAAe~LeMte~~~~gNLi~ktE~fL~~~vl~sW~dsi~vL~sCe~Llp~AE~l---~IV~RCidaLa~k 168 (480)
.|.-||.+|+|.+ |....+.||.+.+ +-. .|-.++..|+.. .|.+.|.+-|+..
T Consensus 80 ~ll~~A~~l~~~~------l~~~C~~~l~~~l--~~~-------nc~~~~~~a~~~~~~~L~~~~~~~i~~n 136 (534)
T PHA03098 80 DILSIANYLIIDF------LINLCINYIIKII--DDN-------NCIDIYRFSFFYGCKKLYSAAYNYIRNN 136 (534)
T ss_pred HHHHHHHHhCcHH------HHHHHHHHHHHhC--CHh-------HHHHHHHHHHHcCcHHHHHHHHHHHHHH
Confidence 9999999999985 8899999998754 223 344444555543 4566677666654
No 5
>PHA02790 Kelch-like protein; Provisional
Probab=99.06 E-value=3.4e-10 Score=121.55 Aligned_cols=108 Identities=11% Similarity=0.098 Sum_probs=91.3
Q ss_pred hhhhhhhccccceEEEEEeeeEEeccchhhhccchHHHHHHhccc-CCCCcceEEecCCCCCHHHHHHHHHHhcCcceec
Q 011665 15 LMGLSLEANLGMLLLIFQVTFLFKLEMLIFTYTRSGKMNRLIYES-RDSELNKIVLDDLPGGPEAFELAAKFCYGIAVDL 93 (480)
Q Consensus 15 ~~~~~~~~~l~~v~li~~~~~~f~~h~~~lL~s~Sg~l~rl~~~~-~~~~~~~i~L~d~PGGaeaFEl~akFCYg~~i~i 93 (480)
+-++++++++|||+++ +|..|..||.+| ++.|.|||.||+.. ++++ .++.+....-.+++++.+.+|-|.++++|
T Consensus 13 ~~~~~~~~~~~~~~~~--~~~~~~~HR~VL-Aa~S~YFraMF~~~~~Es~-~~v~~~~~~v~~~~l~~lldy~YTg~l~i 88 (480)
T PHA02790 13 ILALSMTKKFKTIIEA--IGGNIIVNSTIL-KKLSPYFRTHLRQKYTKNK-DPVTRVCLDLDIHSLTSIVIYSYTGKVYI 88 (480)
T ss_pred HHHHHhhhhhceEEEE--cCcEEeeehhhh-hhcCHHHHHHhcCCccccc-cceEEEecCcCHHHHHHHHHhheeeeEEE
Confidence 4578899999999776 778999999986 99999999999976 4443 35665322334699999999999999999
Q ss_pred CcChHHHHHHhHHHhcCcccccCCChHHHHHHHhhhhcc
Q 011665 94 TASNISGLRCAAEYLEMTEDLEEGNLIFKTEAFLSYVVL 132 (480)
Q Consensus 94 t~~NVa~LrCAAe~LeMte~~~~gNLi~ktE~fL~~~vl 132 (480)
|..||..+..||.+|+|++ ++.....||.+.+-
T Consensus 89 t~~nV~~ll~aA~~Lqi~~------v~~~C~~fL~~~l~ 121 (480)
T PHA02790 89 DSHNVVNLLRASILTSVEF------IIYTCINFILRDFR 121 (480)
T ss_pred ecccHHHHHHHHHHhChHH------HHHHHHHHHHhhCC
Confidence 9999999999999999985 77899999998764
No 6
>PHA02713 hypothetical protein; Provisional
Probab=99.04 E-value=4.7e-10 Score=122.77 Aligned_cols=109 Identities=16% Similarity=0.168 Sum_probs=93.4
Q ss_pred HHHhhhhhhhccccceEEEEEe-eeEEeccchhhhccchHHHHHHhccc-CCC-CcceEEecCCCCCHHHHHHHHHHhcC
Q 011665 12 VSRLMGLSLEANLGMLLLIFQV-TFLFKLEMLIFTYTRSGKMNRLIYES-RDS-ELNKIVLDDLPGGPEAFELAAKFCYG 88 (480)
Q Consensus 12 ~~~~~~~~~~~~l~~v~li~~~-~~~f~~h~~~lL~s~Sg~l~rl~~~~-~~~-~~~~i~L~d~PGGaeaFEl~akFCYg 88 (480)
...+..+-.++.+|||+|+ ++ |..|..||.+| ++.|.||+.||+.. +++ ...+|+|+++.. ++|+.+.+|.|.
T Consensus 13 l~~l~~lr~~~~l~DV~L~-v~~~~~f~~Hr~vL-aa~S~YF~amF~~~~~e~~~~~~v~l~~v~~--~~~~~ll~y~Yt 88 (557)
T PHA02713 13 VSNISNLLDDDILCDVIIT-IGDGEEIKAHKTIL-AAGSKYFRTLFTTPMIIRDLVTRVNLQMFDK--DAVKNIVQYLYN 88 (557)
T ss_pred HHHHHHHHhCCCCCCEEEE-eCCCCEEeehHHHH-hhcCHHHHHHhcCCchhhccCceEEeccCCH--HHHHHHHHHhcC
Confidence 3455566667889999999 87 89999999976 99999999999976 433 357899999865 999999999999
Q ss_pred cceecCcChHHHHHHhHHHhcCcccccCCChHHHHHHHhhhhcc
Q 011665 89 IAVDLTASNISGLRCAAEYLEMTEDLEEGNLIFKTEAFLSYVVL 132 (480)
Q Consensus 89 ~~i~it~~NVa~LrCAAe~LeMte~~~~gNLi~ktE~fL~~~vl 132 (480)
++ |++.||..|..||.+|+|++ |....+.||.+.+-
T Consensus 89 ~~--i~~~nv~~ll~aA~~lqi~~------l~~~C~~~l~~~l~ 124 (557)
T PHA02713 89 RH--ISSMNVIDVLKCADYLLIDD------LVTDCESYIKDYTN 124 (557)
T ss_pred CC--CCHHHHHHHHHHHHHHCHHH------HHHHHHHHHHhhCC
Confidence 87 79999999999999999985 78899999987663
No 7
>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=98.99 E-value=1e-09 Score=87.50 Aligned_cols=83 Identities=27% Similarity=0.339 Sum_probs=71.6
Q ss_pred ceEEEEEeeeEEeccchhhhccchHHHHHHhcccC-CCCcceEEecCCCCCHHHHHHHHHHhcCcceecCcChHHHHHHh
Q 011665 26 MLLLIFQVTFLFKLEMLIFTYTRSGKMNRLIYESR-DSELNKIVLDDLPGGPEAFELAAKFCYGIAVDLTASNISGLRCA 104 (480)
Q Consensus 26 ~v~li~~~~~~f~~h~~~lL~s~Sg~l~rl~~~~~-~~~~~~i~L~d~PGGaeaFEl~akFCYg~~i~it~~NVa~LrCA 104 (480)
|++|+ +++..|..||.++ .++|.+|++++.+.. +.....+.+.+. .+++|+.+.+|+|+.++.+++.|+..+..+
T Consensus 1 dv~i~-v~~~~~~~h~~iL-~~~s~~f~~~~~~~~~~~~~~~i~l~~~--~~~~f~~~l~~ly~~~~~~~~~~~~~l~~~ 76 (90)
T smart00225 1 DVTLV-VGGKKFKAHKAVL-AACSPYFKALFSGDFKESKKSEIYLDDV--SPEDFRALLEFLYTGKLDLPEENVEELLEL 76 (90)
T ss_pred CeEEE-ECCEEEehHHHHH-hhcCHHHHHHHcCCCccCCCCEEEecCC--CHHHHHHHHHeecCceeecCHHHHHHHHHH
Confidence 46655 9999999999975 899999999998763 224567888774 469999999999999999999999999999
Q ss_pred HHHhcCcc
Q 011665 105 AEYLEMTE 112 (480)
Q Consensus 105 Ae~LeMte 112 (480)
|++++|.+
T Consensus 77 a~~~~~~~ 84 (90)
T smart00225 77 ADYLQIPG 84 (90)
T ss_pred HHHHCcHH
Confidence 99999975
No 8
>KOG4350 consensus Uncharacterized conserved protein, contains BTB/POZ domain [General function prediction only]
Probab=97.55 E-value=0.00011 Score=77.30 Aligned_cols=108 Identities=19% Similarity=0.271 Sum_probs=88.4
Q ss_pred hhhhhccccceEEEEEeeeEEeccchhhhccchHHHHHHhccc-CCCCcceEEecCCCCCHHHHHHHHHHhcCcceecCc
Q 011665 17 GLSLEANLGMLLLIFQVTFLFKLEMLIFTYTRSGKMNRLIYES-RDSELNKIVLDDLPGGPEAFELAAKFCYGIAVDLTA 95 (480)
Q Consensus 17 ~~~~~~~l~~v~li~~~~~~f~~h~~~lL~s~Sg~l~rl~~~~-~~~~~~~i~L~d~PGGaeaFEl~akFCYg~~i~it~ 95 (480)
+.-..+.-.||++| |...+|.+|++|| ++||.|||.|+-+. .++.+..|-|.+- .+|||....||-|.+++.++-
T Consensus 37 ~l~~~e~y~DVtfv-ve~~rfpAHRvIL-AaRs~yFRAlLYgGm~Es~q~~ipLq~t--~~eAF~~lLrYiYtg~~~l~~ 112 (620)
T KOG4350|consen 37 ELFTSEDYSDVTFV-VEDTRFPAHRVIL-AARSSYFRALLYGGMQESHQQLIPLQET--NSEAFRALLRYIYTGKIDLAG 112 (620)
T ss_pred HHhhcCcccceEEE-EeccccchhhhhH-HHHHHHHHHHHhhhhhhhhhcccccccc--cHHHHHHHHHHHhhcceeccc
Confidence 34456778999999 9999999999986 99999999998876 5666666766554 359999999999999999886
Q ss_pred ChHHHHHHhHHHhcCcccccCCChHHHHHHHhhhhc
Q 011665 96 SNISGLRCAAEYLEMTEDLEEGNLIFKTEAFLSYVV 131 (480)
Q Consensus 96 ~NVa~LrCAAe~LeMte~~~~gNLi~ktE~fL~~~v 131 (480)
----.+ -+||.|.-.|+--.|-..+-.||.++.
T Consensus 113 ~~ed~l---ld~LslAh~Ygf~~Le~aiSeYl~~iL 145 (620)
T KOG4350|consen 113 VEEDIL---LDYLSLAHRYGFIQLETAISEYLKEIL 145 (620)
T ss_pred chHHHH---HHHHHHHHhcCcHHHHHHHHHHHHHHH
Confidence 554443 589999999988888888888888743
No 9
>KOG2075 consensus Topoisomerase TOP1-interacting protein BTBD1 [Function unknown]
Probab=97.09 E-value=0.0051 Score=66.21 Aligned_cols=187 Identities=19% Similarity=0.152 Sum_probs=131.8
Q ss_pred HHHhhhhhhhccccceEEEEEee-----eEEeccchhhhccchHHHHHHhcccC-CCCcceEEecCCCCCHHHHHHHHHH
Q 011665 12 VSRLMGLSLEANLGMLLLIFQVT-----FLFKLEMLIFTYTRSGKMNRLIYESR-DSELNKIVLDDLPGGPEAFELAAKF 85 (480)
Q Consensus 12 ~~~~~~~~~~~~l~~v~li~~~~-----~~f~~h~~~lL~s~Sg~l~rl~~~~~-~~~~~~i~L~d~PGGaeaFEl~akF 85 (480)
..|-+..--++.++||-+| |++ -.|..||+++ +--|.-|-+|+.+.- +....+|+++|+-. .+|+.--||
T Consensus 102 ~er~~~l~~n~~~adv~fi-vg~~~~~~q~~paHk~vl-a~gS~VFdaMf~g~~a~~~s~ei~lpdvep--aaFl~~L~f 177 (521)
T KOG2075|consen 102 RERQAALFNNELLADVHFI-VGEEDGGSQRIPAHKLVL-ADGSDVFDAMFYGGLAEDASLEIRLPDVEP--AAFLAFLRF 177 (521)
T ss_pred HHhhHhhccCcccceeEEE-eccCCCcccccchhhhhh-hcchHHHHHHhccCcccccCceeecCCcCh--hHhHHHHHH
Confidence 3455555556668999888 652 5899999975 777999999999873 33467999999976 999999999
Q ss_pred hcCcceecCcChHHHHHHhHHHhcCcccccCCChHHHHHHHhhhhccCChHHHHHHHhhhcccchhhhhhchHHHHHHHH
Q 011665 86 CYGIAVDLTASNISGLRCAAEYLEMTEDLEEGNLIFKTEAFLSYVVLSSWRDSIIVLKSCEKLSPWAENLQIVRRCSESI 165 (480)
Q Consensus 86 CYg~~i~it~~NVa~LrCAAe~LeMte~~~~gNLi~ktE~fL~~~vl~sW~dsi~vL~sCe~Llp~AE~l~IV~RCidaL 165 (480)
-|+..+.+.+.||-.+.-||.= |-.+-|...+-+||+...+. +....-|-+|-.++ ++=.+.++|++.|
T Consensus 178 lYsdev~~~~dtvi~tl~~AkK------Y~VpaLer~CVkflr~~l~~--~naf~~L~q~A~lf---~ep~Li~~c~e~i 246 (521)
T KOG2075|consen 178 LYSDEVKLAADTVITTLYAAKK------YLVPALERQCVKFLRKNLMA--DNAFLELFQRAKLF---DEPSLISICLEVI 246 (521)
T ss_pred HhcchhhhhHHHHHHHHHHHHH------hhhHHHHHHHHHHHHHhcCC--hHHHHHHHHHHHhh---cCHHHHHHHHHHh
Confidence 9999999999999998887753 22346788888898886543 44555555664443 4456899999998
Q ss_pred HHHHccCCCCccCcccCCCCCCCCCCcCcCCCCCCCCCCCCCCCcchhhcccCChhhHHHHHHHHHHhCCChhhHHHHHH
Q 011665 166 AWKACANPKGIRWAYTGRPPKISSPKWNDMKDSSPSRSQPVPPDWWFEDVSILRIDHFVRVVTAIKVKGMRFELIGAAIM 245 (480)
Q Consensus 166 a~ka~~d~~~~~~s~~~~~~~~~s~~~~~~~~~~~~~~~~~~~dWW~eDl~~L~i~~f~rVi~am~~rg~~~~~I~~~l~ 245 (480)
.-.. .+.. ..=||-|.-.+ .++|..|++. .-..++.-.+.+++.
T Consensus 247 d~~~-~~al---------------------------------~~EGf~did~~-~dt~~evl~r-~~l~~~e~~lfeA~l 290 (521)
T KOG2075|consen 247 DKSF-EDAL---------------------------------TPEGFCDIDST-RDTYEEVLRR-DTLEAREFRLFEAAL 290 (521)
T ss_pred hhHH-Hhhh---------------------------------CccceeehhhH-HHHHHHHHhh-cccchhHHHHHHHHH
Confidence 7532 1100 11355665555 7777776643 122346667778877
Q ss_pred HHHH
Q 011665 246 HYAA 249 (480)
Q Consensus 246 ~Ya~ 249 (480)
.|++
T Consensus 291 kw~~ 294 (521)
T KOG2075|consen 291 KWAE 294 (521)
T ss_pred hhcc
Confidence 7776
No 10
>KOG4682 consensus Uncharacterized conserved protein, contains BTB/POZ domain [General function prediction only]
Probab=96.66 E-value=0.0049 Score=65.21 Aligned_cols=91 Identities=20% Similarity=0.266 Sum_probs=78.2
Q ss_pred hhhhccccceEEEEEeeeEEeccchhhhccchHHHHHHhccc-CCCCcc--eEEecCCCCCHHHHHHHHHHhcCcceecC
Q 011665 18 LSLEANLGMLLLIFQVTFLFKLEMLIFTYTRSGKMNRLIYES-RDSELN--KIVLDDLPGGPEAFELAAKFCYGIAVDLT 94 (480)
Q Consensus 18 ~~~~~~l~~v~li~~~~~~f~~h~~~lL~s~Sg~l~rl~~~~-~~~~~~--~i~L~d~PGGaeaFEl~akFCYg~~i~it 94 (480)
+-++++--||+|- .-|+..++||.- +..|+||+.|+.+. ++++.. .++|.|=.....+|..|-+==|-..|+|.
T Consensus 63 lf~q~enSDv~l~-alg~eWrlHk~y--L~QS~yf~smf~Gtw~es~~~iIqleI~Dp~Id~~al~~a~gsLY~dEveI~ 139 (488)
T KOG4682|consen 63 LFLQGENSDVILE-ALGFEWRLHKPY--LFQSEYFKSMFSGTWKESSMNIIQLEIPDPNIDVVALQVAFGSLYRDEVEIK 139 (488)
T ss_pred HHhcCCCcceehh-hccceeeeeeee--eeccHHHHHHhccccChhhCceEEEEcCCCcccHHHHHHHHhhhhhhheecc
Confidence 4457777788777 889999999974 69999999999988 444444 55678888889999999999999999999
Q ss_pred cChHHHHHHhHHHhcCc
Q 011665 95 ASNISGLRCAAEYLEMT 111 (480)
Q Consensus 95 ~~NVa~LrCAAe~LeMt 111 (480)
++-|+.+..||.+|+..
T Consensus 140 l~dv~gvlAaA~~lqld 156 (488)
T KOG4682|consen 140 LSDVVGVLAAACLLQLD 156 (488)
T ss_pred HHHHHHHHHHHHHHHHh
Confidence 99999999999999976
No 11
>KOG0783 consensus Uncharacterized conserved protein, contains ankyrin and BTB/POZ domains [Function unknown]
Probab=96.35 E-value=0.0042 Score=70.44 Aligned_cols=104 Identities=21% Similarity=0.374 Sum_probs=73.1
Q ss_pred ceEEEEEeeeEEeccchhhhccchHHHHHHhcccCCC-------------CcceEEecCCCCCHHHHHHHHHHhcCccee
Q 011665 26 MLLLIFQVTFLFKLEMLIFTYTRSGKMNRLIYESRDS-------------ELNKIVLDDLPGGPEAFELAAKFCYGIAVD 92 (480)
Q Consensus 26 ~v~li~~~~~~f~~h~~~lL~s~Sg~l~rl~~~~~~~-------------~~~~i~L~d~PGGaeaFEl~akFCYg~~i~ 92 (480)
||++ +|++..|.+||+|+ +++|..||+|+-...++ ..+.|...++|| .+||+.-.|-|..+ -
T Consensus 560 DVtf-~vg~~~F~aHKfIl-~~rs~flrkL~l~~~~~s~~~dIY~~~~~~~~~~~~ve~i~p--~mfe~lL~~iYtdt-~ 634 (1267)
T KOG0783|consen 560 DVTF-YVGTSMFHAHKFIL-CARSSFLRKLLLQKKKSSVSNDIYIEEITQSHSTIRVEDIPP--LMFEILLHYIYTDT-L 634 (1267)
T ss_pred eEEE-EecCeecccceEEE-EeccHHHHHHHHhhccccccceeeeecccccCceeeeccCCH--HHHHHHHHHHhccc-c
Confidence 4555 49999999999986 99999999998865322 235666899999 99999999999875 3
Q ss_pred cCcChHHHHHHhHHHhcCcccccCCChHHHHHHHhhhhccCChHHHHHHHhhhcccchhhhhhchHH
Q 011665 93 LTASNISGLRCAAEYLEMTEDLEEGNLIFKTEAFLSYVVLSSWRDSIIVLKSCEKLSPWAENLQIVR 159 (480)
Q Consensus 93 it~~NVa~LrCAAe~LeMte~~~~gNLi~ktE~fL~~~vl~sW~dsi~vL~sCe~Llp~AE~l~IV~ 159 (480)
+.|.--=-.-|.+- ...+.|+.+|| |+|+-|.|.+|..+++.
T Consensus 635 ~~P~heDdidci~f------s~~k~N~~qrt-------------------rtCeMl~~~lekf~l~e 676 (1267)
T KOG0783|consen 635 LSPWHEDDIDCIRF------SPLKENLSQRT-------------------RTCEMLANLLEKFHLAE 676 (1267)
T ss_pred cCCccccchhhhhc------cccccChhhcc-------------------cHHHHHHHHHhhhhHHh
Confidence 55522111222221 12456777644 57888888888766543
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=95.76 E-value=0.021 Score=49.29 Aligned_cols=81 Identities=19% Similarity=0.260 Sum_probs=60.7
Q ss_pred ceEEEEEeeeEEeccchhhhccchHHHHHHhcccCCC--CcceEEecCCCCCHHHHHHHHHHhcCcc---e---------
Q 011665 26 MLLLIFQVTFLFKLEMLIFTYTRSGKMNRLIYESRDS--ELNKIVLDDLPGGPEAFELAAKFCYGIA---V--------- 91 (480)
Q Consensus 26 ~v~li~~~~~~f~~h~~~lL~s~Sg~l~rl~~~~~~~--~~~~i~L~d~PGGaeaFEl~akFCYg~~---i--------- 91 (480)
.+.|+--+|..|...+-. +..|+.++.++.+.... ....|.|++++| .+++.+.+||+--+ .
T Consensus 3 ~v~L~S~Dg~~f~v~~~~--a~~S~~i~~~l~~~~~~~~~~~~Ipl~~v~~--~~L~~Vi~yc~~h~~~~~~~~~~~~~~ 78 (104)
T smart00512 3 YIKLISSDGEVFEVEREV--ARQSKTIKAMIEDLGVDDENNNPIPLPNVTS--KILSKVIEYCEHHVDDPPSVADKDDIP 78 (104)
T ss_pred eEEEEeCCCCEEEecHHH--HHHHHHHHHHHHccCcccCCCCCccCCCcCH--HHHHHHHHHHHHcccCCCCcccccccc
Confidence 466777888999999875 68999999999875322 124788899998 99999999997311 0
Q ss_pred -------ecCcChHHHHHHhHHHhcC
Q 011665 92 -------DLTASNISGLRCAAEYLEM 110 (480)
Q Consensus 92 -------~it~~NVa~LrCAAe~LeM 110 (480)
.+...++--|-.||.||++
T Consensus 79 ~wD~~F~~~d~~~l~dLl~AAnyL~I 104 (104)
T smart00512 79 TWDAEFLKIDQETLFELILAANYLDI 104 (104)
T ss_pred HHHHHHHcCCHHHHHHHHHHHHhhCC
Confidence 1555567778888888875
No 13
>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=94.87 E-value=0.04 Score=57.04 Aligned_cols=84 Identities=17% Similarity=0.213 Sum_probs=65.0
Q ss_pred eEEeccchhhhccchHHHHHHhccc--CCCCcceEEe---cCCCCCHHHHHHHHHHhcCcceecCcChHHHHHHhHHHhc
Q 011665 35 FLFKLEMLIFTYTRSGKMNRLIYES--RDSELNKIVL---DDLPGGPEAFELAAKFCYGIAVDLTASNISGLRCAAEYLE 109 (480)
Q Consensus 35 ~~f~~h~~~lL~s~Sg~l~rl~~~~--~~~~~~~i~L---~d~PGGaeaFEl~akFCYg~~i~it~~NVa~LrCAAe~Le 109 (480)
.-|...+. +|+++=+||+..+... ......+|.| =|+ ..||...+++.|....|||.||+++.--++||+
T Consensus 14 rdF~C~~~-lL~~~M~YF~~~l~~~~~~~~~~~~idisVhCDv----~iF~WLm~yv~~~~p~l~~~NvvsIliSS~FL~ 88 (317)
T PF11822_consen 14 RDFTCPRD-LLVSEMRYFAEYLSRYINDSQRWEEIDISVHCDV----HIFEWLMRYVKGEPPSLTPSNVVSILISSEFLQ 88 (317)
T ss_pred eeeeccHH-HHHHhhHHHHHHHhhcccccCcCCCcceEEecCh----hHHHHHHHHhhcCCCcCCcCcEEEeEehhhhhc
Confidence 35777776 4599999999999651 1112223444 344 899999999999999999999999999999999
Q ss_pred CcccccCCChHHHHHHHhhh
Q 011665 110 MTEDLEEGNLIFKTEAFLSY 129 (480)
Q Consensus 110 Mte~~~~gNLi~ktE~fL~~ 129 (480)
|++ |++.+=.|...
T Consensus 89 M~~------Lve~cl~y~~~ 102 (317)
T PF11822_consen 89 MES------LVEECLQYCHD 102 (317)
T ss_pred cHH------HHHHHHHHHHH
Confidence 984 77777777643
No 14
>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=92.75 E-value=0.2 Score=39.46 Aligned_cols=56 Identities=13% Similarity=0.207 Sum_probs=44.9
Q ss_pred eEEEEEeeeEEeccchhhhccchHHHHHHhcccCCCCcceEEecCCCCCHHHHHHHHHHhc
Q 011665 27 LLLIFQVTFLFKLEMLIFTYTRSGKMNRLIYESRDSELNKIVLDDLPGGPEAFELAAKFCY 87 (480)
Q Consensus 27 v~li~~~~~~f~~h~~~lL~s~Sg~l~rl~~~~~~~~~~~i~L~d~PGGaeaFEl~akFCY 87 (480)
+.|+--+|..|...+-+ +..|+.|+.++.+...... .|.|++++| ++++.+.+||+
T Consensus 3 v~L~SsDg~~f~V~~~~--a~~S~~i~~ml~~~~~~~~-~Ipl~~v~~--~~L~kViewc~ 58 (62)
T PF03931_consen 3 VKLVSSDGQEFEVSREA--AKQSKTIKNMLEDLGDEDE-PIPLPNVSS--RILKKVIEWCE 58 (62)
T ss_dssp EEEEETTSEEEEEEHHH--HTTSHHHHHHHHCTCCCGT-EEEETTS-H--HHHHHHHHHHH
T ss_pred EEEEcCCCCEEEeeHHH--HHHhHHHHHHHhhhccccc-ccccCccCH--HHHHHHHHHHH
Confidence 55666778888888874 6899999999987644433 788999998 99999999997
No 15
>KOG3473 consensus RNA polymerase II transcription elongation factor Elongin/SIII, subunit elongin C [Transcription]
Probab=86.35 E-value=2.2 Score=37.47 Aligned_cols=79 Identities=22% Similarity=0.335 Sum_probs=58.9
Q ss_pred eEEEEEeeeEEeccchhhhccchHHHHHHhccc---CCCCcceEEecCCCCCHHHHHHHHHHh-cC-----c-----cee
Q 011665 27 LLLIFQVTFLFKLEMLIFTYTRSGKMNRLIYES---RDSELNKIVLDDLPGGPEAFELAAKFC-YG-----I-----AVD 92 (480)
Q Consensus 27 v~li~~~~~~f~~h~~~lL~s~Sg~l~rl~~~~---~~~~~~~i~L~d~PGGaeaFEl~akFC-Yg-----~-----~i~ 92 (480)
|.||--+++.|-..|-+ +--||.||.|+++. .+....++.+.|||. -..|.|..+- |. . +++
T Consensus 19 VkLvS~Ddhefiikre~--AmtSgTiraml~gpg~~se~~~n~v~f~di~s--hiLeKvc~Yl~Yk~rY~~~s~eiPeF~ 94 (112)
T KOG3473|consen 19 VKLVSSDDHEFIIKREH--AMTSGTIRAMLSGPGVFSEAEKNEVYFRDIPS--HILEKVCEYLAYKVRYTNSSTEIPEFD 94 (112)
T ss_pred eEeecCCCcEEEEeehh--hhhhhHHHHHHcCCccccccccceEEeccchH--HHHHHHHHHhhheeeeccccccCCCCC
Confidence 66776677887777653 56799999999965 334567899999998 7777665432 32 2 467
Q ss_pred cCcChHHHHHHhHHHhc
Q 011665 93 LTASNISGLRCAAEYLE 109 (480)
Q Consensus 93 it~~NVa~LrCAAe~Le 109 (480)
|-|.=+--|.-||+||+
T Consensus 95 IppemaleLL~aAn~Le 111 (112)
T KOG3473|consen 95 IPPEMALELLMAANYLE 111 (112)
T ss_pred CCHHHHHHHHHHhhhhc
Confidence 88888888999999997
No 16
>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=52.62 E-value=13 Score=30.85 Aligned_cols=82 Identities=18% Similarity=0.203 Sum_probs=55.1
Q ss_pred eEEEEEeeeEEeccchhhhccchHHHHHHhccc----CCCCcceEEecCCCCCHHHHHHHHHHhcC-cceecC-cChHHH
Q 011665 27 LLLIFQVTFLFKLEMLIFTYTRSGKMNRLIYES----RDSELNKIVLDDLPGGPEAFELAAKFCYG-IAVDLT-ASNISG 100 (480)
Q Consensus 27 v~li~~~~~~f~~h~~~lL~s~Sg~l~rl~~~~----~~~~~~~i~L~d~PGGaeaFEl~akFCYg-~~i~it-~~NVa~ 100 (480)
|.|. |+|..|..-+-.+.--..++|.+++... ...+..++-| | --|+.|+.+-.|..+ .++... ...+-.
T Consensus 1 V~lN-VGG~~f~~~~~tL~~~~~s~l~~~~~~~~~~~~~~~~~~~fi-D--Rdp~~F~~IL~ylr~~~~l~~~~~~~~~~ 76 (94)
T PF02214_consen 1 VRLN-VGGTIFETSRSTLTRYPDSLLARLFSGERSDDYDDDDGEYFI-D--RDPELFEYILNYLRTGGKLPIPDEICLEE 76 (94)
T ss_dssp EEEE-ETTEEEEEEHHHHHTSTTSTTTSHHHTGHGGGEETTTTEEEE-S--S-HHHHHHHHHHHHHTSSB---TTS-HHH
T ss_pred CEEE-ECCEEEEEcHHHHhhCCCChhhhHHhhccccccCCccceEEe-c--cChhhhhHHHHHHhhcCccCCCCchhHHH
Confidence 4555 9999998887754224467899998854 1123345544 3 356999999999988 677753 667888
Q ss_pred HHHhHHHhcCcc
Q 011665 101 LRCAAEYLEMTE 112 (480)
Q Consensus 101 LrCAAe~LeMte 112 (480)
+.-.|+|-++.+
T Consensus 77 l~~Ea~fy~l~~ 88 (94)
T PF02214_consen 77 LLEEAEFYGLDE 88 (94)
T ss_dssp HHHHHHHHT-HH
T ss_pred HHHHHHHcCCCc
Confidence 899999988875
No 17
>KOG0783 consensus Uncharacterized conserved protein, contains ankyrin and BTB/POZ domains [Function unknown]
Probab=48.44 E-value=12 Score=43.85 Aligned_cols=61 Identities=13% Similarity=0.100 Sum_probs=46.7
Q ss_pred ceEEEEEeeeEEeccchhhhccchHHHHHHhcccCCCCcceEEecCCCCCHHHHHHHHHHhcC
Q 011665 26 MLLLIFQVTFLFKLEMLIFTYTRSGKMNRLIYESRDSELNKIVLDDLPGGPEAFELAAKFCYG 88 (480)
Q Consensus 26 ~v~li~~~~~~f~~h~~~lL~s~Sg~l~rl~~~~~~~~~~~i~L~d~PGGaeaFEl~akFCYg 88 (480)
|++++--+|+.|.+||. +|++|..||.-|+... ..+...+.....|-.+|-++.+-++-|.
T Consensus 712 d~~i~~KDGkvl~aHkc-~L~aRlEYF~smf~~~-w~E~sS~t~~~~p~~~e~m~ivLdylYs 772 (1267)
T KOG0783|consen 712 DTVIKLKDGKVLKAHKC-FLSARLEYFSSMFQFV-WMESSSITVNLSPLTVEHMSIVLDYLYS 772 (1267)
T ss_pred eEEEEecCCcCccccee-EeeeHHHHHHHHHHHH-HhhhccceeecCcchHHHHHHHHHHHHc
Confidence 33333348999999998 5699999999999865 1122336667789889999999999993
No 18
>KOG4591 consensus Uncharacterized conserved protein, contains BTB/POZ domain [General function prediction only]
Probab=39.53 E-value=35 Score=33.93 Aligned_cols=74 Identities=19% Similarity=0.170 Sum_probs=52.7
Q ss_pred ccccceEEEEEee---eEEeccchhhhccchHHHHHHhcccCCCCcceEEecCCCCCHHHHHHHHHHhcCcceecCcChH
Q 011665 22 ANLGMLLLIFQVT---FLFKLEMLIFTYTRSGKMNRLIYESRDSELNKIVLDDLPGGPEAFELAAKFCYGIAVDLTASNI 98 (480)
Q Consensus 22 ~~l~~v~li~~~~---~~f~~h~~~lL~s~Sg~l~rl~~~~~~~~~~~i~L~d~PGGaeaFEl~akFCYg~~i~it~~NV 98 (480)
++--|+.+. +.| ..+.+||+++ ++||...+= ....+.+..+..+.|.. +|+|..+.|.-|...|++.-..+
T Consensus 64 ~qfSDlk~K-~~gns~k~i~AHKfVL-AARsD~Wkf--aN~~dekse~~~~dDad--~Ea~~t~iRWIYTDEidfk~dD~ 137 (280)
T KOG4591|consen 64 EQFSDLKFK-FAGNSDKHIPAHKFVL-AARSDFWKF--ANGGDEKSEELDLDDAD--FEAFHTAIRWIYTDEIDFKEDDE 137 (280)
T ss_pred ccccceeEE-ecCCccccCchhhhhh-hhhcchhhh--ccCCCcchhhhcccccC--HHHHHHhheeeeccccccccchH
Confidence 447788887 774 7899999976 888876542 22222233345566654 49999999999999999888776
Q ss_pred HHH
Q 011665 99 SGL 101 (480)
Q Consensus 99 a~L 101 (480)
-.+
T Consensus 138 ~L~ 140 (280)
T KOG4591|consen 138 FLL 140 (280)
T ss_pred HHH
Confidence 554
No 19
>COG3510 CmcI Cephalosporin hydroxylase [Defense mechanisms]
Probab=37.95 E-value=21 Score=35.38 Aligned_cols=28 Identities=25% Similarity=0.509 Sum_probs=22.9
Q ss_pred HHhcC--CCcccCCCChhHHHHHhhhccCC
Q 011665 450 AEALP--ESARTCDDGLYRAIDSYLKVISN 477 (480)
Q Consensus 450 ae~lP--d~AR~~hDgLYRAIDiYLKaHp~ 477 (480)
.+-+| +..+..-+|=|+||.-|||.||+
T Consensus 183 v~dlp~~~~p~~~g~gP~~AVe~ylr~~p~ 212 (237)
T COG3510 183 VNDLPGPVLPWRFGGGPYEAVEAYLREFPQ 212 (237)
T ss_pred ccCCCCcccchhcCCChHHHHHHHHHhCCc
Confidence 34566 66667799999999999999994
No 20
>PF10929 DUF2811: Protein of unknown function (DUF2811); InterPro: IPR021231 This is a bacterial family of uncharacterised proteins.
Probab=37.61 E-value=20 Score=28.55 Aligned_cols=15 Identities=20% Similarity=0.454 Sum_probs=14.0
Q ss_pred ChhHHHHHhhhccCC
Q 011665 463 GLYRAIDSYLKVISN 477 (480)
Q Consensus 463 gLYRAIDiYLKaHp~ 477 (480)
-||+|+.-|++.||+
T Consensus 9 ~L~~~m~~fie~hP~ 23 (57)
T PF10929_consen 9 DLHQAMKDFIETHPN 23 (57)
T ss_pred HHHHHHHHHHHcCCC
Confidence 589999999999997
No 21
>PF01402 RHH_1: Ribbon-helix-helix protein, copG family; InterPro: IPR002145 CopG, also known as RepA, is responsible for the regulation of plasmid copy number. It binds to the repAB promoter and controls synthesis of the plasmid replication initiator protein RepB. Many bacterial transcription regulation proteins bind DNA through a 'helix-turn-helix' motif, nevertheless CopG displays a fully defined HTH-motif structure that is involved not in DNA-binding, but in the maintenance of the intrinsic dimeric functional structure and cooperativity [, ].; GO: 0003677 DNA binding, 0006355 regulation of transcription, DNA-dependent; PDB: 2BJ3_B 2BJ8_A 2BJ1_A 2BJ9_A 2BJ7_B 1EA4_L 2CPG_C 1B01_B 2BA3_A 2K9I_B ....
Probab=35.54 E-value=52 Score=22.90 Aligned_cols=34 Identities=32% Similarity=0.329 Sum_probs=29.4
Q ss_pred cCChhhHHHHHHHHHHhCC-ChhhHHHHHHHHHHH
Q 011665 217 ILRIDHFVRVVTAIKVKGM-RFELIGAAIMHYAAK 250 (480)
Q Consensus 217 ~L~i~~f~rVi~am~~rg~-~~~~I~~~l~~Ya~k 250 (480)
.||.+.++++=...+..|+ ..++|-.+|..|+.+
T Consensus 5 ~l~~~~~~~l~~~a~~~g~s~s~~ir~ai~~~l~~ 39 (39)
T PF01402_consen 5 RLPDELYERLDELAKELGRSRSELIREAIREYLER 39 (39)
T ss_dssp EEEHHHHHHHHHHHHHHTSSHHHHHHHHHHHHHHH
T ss_pred EeCHHHHHHHHHHHHHHCcCHHHHHHHHHHHHHhC
Confidence 4678889999888899998 788999999999864
No 22
>PHA00617 ribbon-helix-helix domain containing protein
Probab=34.75 E-value=58 Score=27.55 Aligned_cols=36 Identities=14% Similarity=0.057 Sum_probs=33.1
Q ss_pred ccCChhhHHHHHHHHHHhCC-ChhhHHHHHHHHHHHh
Q 011665 216 SILRIDHFVRVVTAIKVKGM-RFELIGAAIMHYAAKW 251 (480)
Q Consensus 216 ~~L~i~~f~rVi~am~~rg~-~~~~I~~~l~~Ya~k~ 251 (480)
..||.++.+++-.-.+..|. ++++|-++|..|...|
T Consensus 44 VrLp~eL~erLD~LA~~~GrsRSelIreAI~~YLee~ 80 (80)
T PHA00617 44 FKLPPELNAKLEQVAIKMKKSKSEIIREALEKYLEEV 80 (80)
T ss_pred EECCHHHHHHHHHHHHHhCcCHHHHHHHHHHHHHHhC
Confidence 57999999999999999998 8999999999999876
No 23
>KOG2838 consensus Uncharacterized conserved protein, contains BTB/POZ domain [General function prediction only]
Probab=29.15 E-value=38 Score=35.15 Aligned_cols=74 Identities=18% Similarity=0.096 Sum_probs=51.9
Q ss_pred ccceEEEEEeeeEEeccchhhhccchHHHHHHhcccCCC---CcceEEecCCCCCHHHHHHHHHHhcCccee---cCcCh
Q 011665 24 LGMLLLIFQVTFLFKLEMLIFTYTRSGKMNRLIYESRDS---ELNKIVLDDLPGGPEAFELAAKFCYGIAVD---LTASN 97 (480)
Q Consensus 24 l~~v~li~~~~~~f~~h~~~lL~s~Sg~l~rl~~~~~~~---~~~~i~L~d~PGGaeaFEl~akFCYg~~i~---it~~N 97 (480)
+.|+-|| .+.++|+.|+-++ ..||..|+-+.....+. .-+.+...+|.- ++||.-.+.-|.+.+- +.-.|
T Consensus 130 c~dldii-FkeTcfpahRA~l-aaRCpffK~l~nsd~e~~ae~i~dik~ag~dm--~~feafLh~l~tgEfgmEd~~fqn 205 (401)
T KOG2838|consen 130 CGDLDII-FKETCFPAHRAFL-AARCPFFKILANSDEEPEAEDICDIKFAGFDM--DAFEAFLHSLITGEFGMEDLGFQN 205 (401)
T ss_pred eccceee-eeeccchHHHHHH-HhhCcchhhhccCCCCcchhhhhhhhhhccCh--HHHHHHHHHHHhcccchhhcCCch
Confidence 5566666 8889999999864 99999999988766432 234555666654 8999998888765432 44445
Q ss_pred HHHH
Q 011665 98 ISGL 101 (480)
Q Consensus 98 Va~L 101 (480)
+-.|
T Consensus 206 ~diL 209 (401)
T KOG2838|consen 206 SDIL 209 (401)
T ss_pred HHHH
Confidence 5444
No 24
>PF14363 AAA_assoc: Domain associated at C-terminal with AAA
Probab=21.93 E-value=50 Score=28.34 Aligned_cols=26 Identities=27% Similarity=0.423 Sum_probs=21.0
Q ss_pred hcCCCcccCCCChhHHHHHhhhccCC
Q 011665 452 ALPESARTCDDGLYRAIDSYLKVISN 477 (480)
Q Consensus 452 ~lPd~AR~~hDgLYRAIDiYLKaHp~ 477 (480)
.+|++.......+|+|+.+||.+...
T Consensus 29 ~I~E~~g~~~N~ly~a~~~YL~s~~s 54 (98)
T PF14363_consen 29 VIPEFDGLSRNELYDAAQAYLSSKIS 54 (98)
T ss_pred EEEeCCCccccHHHHHHHHHHhhccC
Confidence 45666667788999999999988754
No 25
>KOG2716 consensus Polymerase delta-interacting protein PDIP1 and related proteins, contain BTB/POZ domain [Inorganic ion transport and metabolism]
Probab=21.52 E-value=6.3e+02 Score=25.45 Aligned_cols=108 Identities=15% Similarity=0.200 Sum_probs=74.8
Q ss_pred EEEEeeeEEeccchhhhccchHHHHHHhcccCC--CCcceEEecCCCCCHHHHHHHHHHhcCcceec--CcChHHHHHHh
Q 011665 29 LIFQVTFLFKLEMLIFTYTRSGKMNRLIYESRD--SELNKIVLDDLPGGPEAFELAAKFCYGIAVDL--TASNISGLRCA 104 (480)
Q Consensus 29 li~~~~~~f~~h~~~lL~s~Sg~l~rl~~~~~~--~~~~~i~L~d~PGGaeaFEl~akFCYg~~i~i--t~~NVa~LrCA 104 (480)
|. |||+.|.-.+--| .-..|+|+.|+...-+ .+.....+-|=. |+=|+++-.|=-.+.+.| +--++.-|+-=
T Consensus 9 Ln-vGG~~F~Tsk~TL-tk~dg~fk~m~e~~i~~~~d~s~~IFIDRS--pKHF~~ILNfmRdGdv~LPe~~kel~El~~E 84 (230)
T KOG2716|consen 9 LN-VGGTIFKTSKSTL-TKFDGFFKTMLETDIPVEKDESGCIFIDRS--PKHFDTILNFMRDGDVDLPESEKELKELLRE 84 (230)
T ss_pred Ee-cCCeEEEeehhhh-hhhhhHHHHHhhcCCccccCCcCcEEecCC--hhHHHHHHHhhhcccccCccchHHHHHHHHH
Confidence 55 9999999999875 7789999999997621 222223343443 499999999999666554 44456789999
Q ss_pred HHHhcCcccccCCChHHHHHHHhhhhc--c----CChHHHHHHHhhhc
Q 011665 105 AEYLEMTEDLEEGNLIFKTEAFLSYVV--L----SSWRDSIIVLKSCE 146 (480)
Q Consensus 105 Ae~LeMte~~~~gNLi~ktE~fL~~~v--l----~sW~dsi~vL~sCe 146 (480)
|+|-.|++ |+...+.=+.... . .+|.+-+.++..++
T Consensus 85 A~fYlL~~------Lv~~C~~~i~~~~~~~~~~~~~~~e~~~ii~~~~ 126 (230)
T KOG2716|consen 85 AEFYLLDG------LVELCQSAIARLIRGYITPIESSEELLQIIANSS 126 (230)
T ss_pred HHHhhHHH------HHHHHHHHhhhcccCccccccchHHHHHHhhccC
Confidence 99999874 7777777655542 1 22665555555554
Done!