Query 045793
Match_columns 101
No_of_seqs 123 out of 628
Neff 4.7
Searched_HMMs 46136
Date Fri Mar 29 05:34:12 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/045793.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/045793hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PLN03090 auxin-responsive fami 100.0 1.9E-33 4.1E-38 195.5 8.9 82 2-84 16-103 (104)
2 PF02519 Auxin_inducible: Auxi 100.0 1.5E-32 3.3E-37 188.8 7.8 66 19-85 33-100 (100)
3 PLN03220 uncharacterized prote 100.0 7.5E-32 1.6E-36 187.7 9.1 82 2-83 13-102 (105)
4 PLN03219 uncharacterized prote 100.0 1.6E-31 3.5E-36 186.8 9.4 81 3-83 13-104 (108)
5 PF02214 BTB_2: BTB/POZ domain 91.3 0.61 1.3E-05 30.1 4.9 56 29-87 3-63 (94)
6 PRK02899 adaptor protein; Prov 86.1 0.69 1.5E-05 35.0 2.6 23 48-70 40-62 (197)
7 PRK02315 adaptor protein; Prov 82.5 1 2.2E-05 34.7 2.3 23 48-70 40-62 (233)
8 PF05389 MecA: Negative regula 76.6 0.8 1.7E-05 34.5 0.0 39 48-87 40-78 (220)
9 PF07369 DUF1488: Protein of u 74.2 14 0.0003 23.6 5.4 23 26-49 18-41 (83)
10 PF02100 ODC_AZ: Ornithine dec 70.8 3.2 6.9E-05 28.7 1.9 49 35-84 23-77 (108)
11 PF11822 DUF3342: Domain of un 69.1 16 0.00034 30.1 5.7 54 35-91 12-72 (317)
12 PF00651 BTB: BTB/POZ domain; 63.5 35 0.00075 21.5 6.9 55 27-87 13-74 (111)
13 smart00666 PB1 PB1 domain. Pho 61.5 17 0.00036 22.6 3.7 50 32-86 9-70 (81)
14 PF14317 YcxB: YcxB-like prote 54.0 20 0.00044 20.4 3.0 23 23-47 28-50 (62)
15 smart00225 BTB Broad-Complex, 51.1 45 0.00097 19.3 4.3 54 29-88 4-62 (90)
16 PF11876 DUF3396: Protein of u 45.0 28 0.00062 26.4 3.3 51 35-85 23-81 (208)
17 PF11834 DUF3354: Domain of un 41.2 21 0.00046 23.0 1.8 16 48-63 27-42 (69)
18 TIGR02529 EutJ ethanolamine ut 37.0 1.2E+02 0.0027 22.9 5.7 41 35-75 31-73 (239)
19 cd06410 PB1_UP2 Uncharacterize 36.0 79 0.0017 21.4 4.0 56 25-84 14-82 (97)
20 cd04380 RhoGAP_OCRL1 RhoGAP_OC 35.7 38 0.00083 25.4 2.7 52 35-91 44-99 (220)
21 PF12062 HSNSD: heparan sulfat 34.4 28 0.0006 30.4 1.9 38 24-62 96-141 (487)
22 PF07104 DUF1366: Protein of u 33.7 59 0.0013 23.1 3.2 42 19-60 13-56 (116)
23 cd06398 PB1_Joka2 The PB1 doma 31.2 83 0.0018 21.0 3.5 51 32-83 8-73 (91)
24 PF03931 Skp1_POZ: Skp1 family 30.0 1.3E+02 0.0028 18.1 6.6 49 31-85 6-58 (62)
25 PF06344 Parecho_VpG: Parechov 29.6 22 0.00047 18.1 0.3 11 19-29 8-18 (20)
26 cd05992 PB1 The PB1 domain is 28.3 1.4E+02 0.0031 18.0 6.0 53 30-86 6-70 (81)
27 cd06407 PB1_NLP A PB1 domain i 28.2 1E+02 0.0022 20.2 3.4 48 30-80 6-65 (82)
28 PF12401 DUF3662: Protein of u 27.8 63 0.0014 22.3 2.5 49 24-72 52-101 (116)
29 PF08861 DUF1828: Domain of un 25.9 1.9E+02 0.0041 18.6 4.5 35 50-84 48-83 (90)
30 KOG1290 Serine/threonine prote 25.2 46 0.00099 29.6 1.7 21 22-42 62-83 (590)
31 COG4862 MecA Negative regulato 24.1 46 0.001 26.3 1.4 37 35-71 26-63 (224)
32 cd04404 RhoGAP-p50rhoGAP RhoGA 22.9 2.3E+02 0.0051 20.5 4.9 37 51-88 29-65 (195)
33 PF07429 Glyco_transf_56: 4-al 22.3 4E+02 0.0087 22.5 6.6 42 21-62 180-244 (360)
34 cd01617 DCX Ubiquitin-like dom 21.4 2.3E+02 0.005 18.0 4.2 28 35-62 14-41 (80)
35 smart00512 Skp1 Found in Skp1 21.2 2.5E+02 0.0054 18.3 5.8 53 31-88 7-65 (104)
36 cd04751 Commd3 COMM_Domain con 21.0 1.3E+02 0.0027 20.1 2.9 21 66-86 65-85 (95)
37 PF02209 VHP: Villin headpiece 21.0 51 0.0011 18.8 0.8 17 45-61 1-19 (36)
No 1
>PLN03090 auxin-responsive family protein; Provisional
Probab=100.00 E-value=1.9e-33 Score=195.48 Aligned_cols=82 Identities=32% Similarity=0.538 Sum_probs=71.0
Q ss_pred hhhhHHHHhhcCCCC----CCCcCCCCceEEEEeecCCceeEEEEcchHH--HHHHHHHhhHHhcCcccCCceEEecCHH
Q 045793 2 RGIVRKQWCCGAKSF----PSDSEAEEGHVRVFVGKDMQFKFEMEANYLN--LFENLLKLSEEEFGFSYDGALRIACEID 75 (101)
Q Consensus 2 ~~~~r~~~~~~~~~~----~~~~~vpkG~~aVyVG~~~~kRfvVp~~~Ln--~F~~LL~~aeeEfG~~~~G~L~IPC~~~ 75 (101)
++++|+....++++. ..+.+|||||||||||+ +++||+||++||| +|++||++|||||||+|+|+|+|||+++
T Consensus 16 kq~l~r~~s~~~~~~~~~~~~~~~vpkG~~aVyVG~-~~~RfvVp~~~L~hP~F~~LL~~aeeEfGf~~~G~L~IPC~~~ 94 (104)
T PLN03090 16 KQILKRCSSLGKKQGYDEDGLPLDVPKGHFPVYVGE-NRSRYIVPISFLTHPEFQSLLQQAEEEFGFDHDMGLTIPCEEV 94 (104)
T ss_pred HHHHHHHHHhcccCCcccccCCCCCCCCcEEEEECC-CCEEEEEEHHHcCCHHHHHHHHHHHHHhCCCCCCcEEEeCCHH
Confidence 455555444444432 24678999999999999 8999999999999 9999999999999999999999999999
Q ss_pred HHHHHHHHH
Q 045793 76 VFQYLLLLL 84 (101)
Q Consensus 76 ~Fe~vl~~l 84 (101)
.|++++|+|
T Consensus 95 ~Fe~ll~~i 103 (104)
T PLN03090 95 VFRSLTSMI 103 (104)
T ss_pred HHHHHHHHh
Confidence 999999998
No 2
>PF02519 Auxin_inducible: Auxin responsive protein; InterPro: IPR003676 This family consists of the protein products of a gene cluster that encodes a group of auxin-regulated RNAs (small auxin up RNAs, SAURs) []. Proteins from this ARG7 auxin responsive genes family have no identified functional role [].
Probab=99.98 E-value=1.5e-32 Score=188.83 Aligned_cols=66 Identities=45% Similarity=0.875 Sum_probs=63.8
Q ss_pred CcCCCCceEEEEeecCCceeEEEEcchHH--HHHHHHHhhHHhcCcccCCceEEecCHHHHHHHHHHHh
Q 045793 19 DSEAEEGHVRVFVGKDMQFKFEMEANYLN--LFENLLKLSEEEFGFSYDGALRIACEIDVFQYLLLLLK 85 (101)
Q Consensus 19 ~~~vpkG~~aVyVG~~~~kRfvVp~~~Ln--~F~~LL~~aeeEfG~~~~G~L~IPC~~~~Fe~vl~~l~ 85 (101)
..++|+||+|||||+ +++||+||++||| +|++||++|||||||+++|+|+|||+++.|++++|+|+
T Consensus 33 ~~~vp~G~~~VyVG~-~~~Rfvvp~~~L~hp~f~~LL~~aeeEfG~~~~G~l~iPC~~~~Fe~~l~~le 100 (100)
T PF02519_consen 33 ESDVPKGHFAVYVGE-ERRRFVVPVSYLNHPLFQELLEQAEEEFGFDQDGPLTIPCDVVLFEHLLWLLE 100 (100)
T ss_pred cCCCCCCeEEEEeCc-cceEEEechHHcCchhHHHHHHHHhhhcCcCCCCcEEeeCCHHHHHHHHHHhC
Confidence 378999999999998 8999999999999 99999999999999999999999999999999999985
No 3
>PLN03220 uncharacterized protein; Provisional
Probab=99.97 E-value=7.5e-32 Score=187.66 Aligned_cols=82 Identities=33% Similarity=0.566 Sum_probs=68.2
Q ss_pred hhhhHHHHhhcCC--CCCCCcCCCCceEEEEeecC---CceeEEEEcchHH--HHHHHHHhhHHhcCccc-CCceEEecC
Q 045793 2 RGIVRKQWCCGAK--SFPSDSEAEEGHVRVFVGKD---MQFKFEMEANYLN--LFENLLKLSEEEFGFSY-DGALRIACE 73 (101)
Q Consensus 2 ~~~~r~~~~~~~~--~~~~~~~vpkG~~aVyVG~~---~~kRfvVp~~~Ln--~F~~LL~~aeeEfG~~~-~G~L~IPC~ 73 (101)
.+|+|+....... +.+.+.+|||||||||||++ +++||+||++||| +|++||++|||||||+| +|+|+|||+
T Consensus 13 k~~~~~~~~~~~~~~~~~~~~~VPkGh~aVyVGe~~~~e~kRFVVPv~yL~hP~F~~LL~~AeEEfGf~~~~G~L~IPCd 92 (105)
T PLN03220 13 KQILKLNSLANRNRTSSSSSDHVPKGHVAVYVGEQIEMEKKRFVVPISFLNHPSFKEFLSRAEEEFGFNHPMGGLTIPCR 92 (105)
T ss_pred HHHHHHHhhcccccccccccCCCCCCeEEEEECCCCCccceEEEEEHHHcCChHHHHHHHHHHHHhCCCCCCCCEEeeCC
Confidence 3566666522222 23356799999999999973 5899999999999 99999999999999998 599999999
Q ss_pred HHHHHHHHHH
Q 045793 74 IDVFQYLLLL 83 (101)
Q Consensus 74 ~~~Fe~vl~~ 83 (101)
++.|++++..
T Consensus 93 ~~~F~~ll~s 102 (105)
T PLN03220 93 EEVFLDLIAS 102 (105)
T ss_pred HHHHHHHHHh
Confidence 9999999863
No 4
>PLN03219 uncharacterized protein; Provisional
Probab=99.97 E-value=1.6e-31 Score=186.76 Aligned_cols=81 Identities=32% Similarity=0.524 Sum_probs=69.7
Q ss_pred hhhHHHHhhcCCCCC-------CCcCCCCceEEEEeecC-CceeEEEEcchHH--HHHHHHHhhHHhcCccc-CCceEEe
Q 045793 3 GIVRKQWCCGAKSFP-------SDSEAEEGHVRVFVGKD-MQFKFEMEANYLN--LFENLLKLSEEEFGFSY-DGALRIA 71 (101)
Q Consensus 3 ~~~r~~~~~~~~~~~-------~~~~vpkG~~aVyVG~~-~~kRfvVp~~~Ln--~F~~LL~~aeeEfG~~~-~G~L~IP 71 (101)
+||+-.++..+.+.+ .+.+|||||+|||||++ +++||+||++||| +|++||++|||||||+| +|+|+||
T Consensus 13 ~~~~~~~~~~~~~~~~~~~~~~~~~~vpkGh~aVYVG~~~E~kRFvVPi~yL~hP~F~~LL~~AeEEfGf~~~~G~L~IP 92 (108)
T PLN03219 13 QIFKSQSMRNKNGSSSPSSSTTTSGLVPKGHVAVYVGEQMEKKRFVVPISYLNHPLFREFLNRAEEECGFHHSMGGLTIP 92 (108)
T ss_pred HHHHHHHHhcccCCCCCccCCCCCCCCCCCeEEEEECCCCCceEEEEEHHHcCChHHHHHHHHHHHHhCCCCCCCCEEEe
Confidence 566666666655533 24679999999999973 6999999999999 99999999999999998 5999999
Q ss_pred cCHHHHHHHHHH
Q 045793 72 CEIDVFQYLLLL 83 (101)
Q Consensus 72 C~~~~Fe~vl~~ 83 (101)
|+++.|+++++.
T Consensus 93 Cd~~~F~~ll~~ 104 (108)
T PLN03219 93 CREESFLHLITS 104 (108)
T ss_pred CCHHHHHHHHHh
Confidence 999999999975
No 5
>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=91.35 E-value=0.61 Score=30.11 Aligned_cols=56 Identities=29% Similarity=0.376 Sum_probs=43.4
Q ss_pred EEeecCCceeEEEEcchHH-----HHHHHHHhhHHhcCcccCCceEEecCHHHHHHHHHHHhcC
Q 045793 29 VFVGKDMQFKFEMEANYLN-----LFENLLKLSEEEFGFSYDGALRIACEIDVFQYLLLLLKTG 87 (101)
Q Consensus 29 VyVG~~~~kRfvVp~~~Ln-----~F~~LL~~aeeEfG~~~~G~L~IPC~~~~Fe~vl~~l~~~ 87 (101)
+=||. ++|.++.+.|. .|..+++.......-+.+|.+-|-++...|++|+.-++.+
T Consensus 3 lNVGG---~~f~~~~~tL~~~~~s~l~~~~~~~~~~~~~~~~~~~fiDRdp~~F~~IL~ylr~~ 63 (94)
T PF02214_consen 3 LNVGG---TIFETSRSTLTRYPDSLLARLFSGERSDDYDDDDGEYFIDRDPELFEYILNYLRTG 63 (94)
T ss_dssp EEETT---EEEEEEHHHHHTSTTSTTTSHHHTGHGGGEETTTTEEEESS-HHHHHHHHHHHHHT
T ss_pred EEECC---EEEEEcHHHHhhCCCChhhhHHhhccccccCCccceEEeccChhhhhHHHHHHhhc
Confidence 44775 99999999998 7888888652222223469999999999999999999985
No 6
>PRK02899 adaptor protein; Provisional
Probab=86.10 E-value=0.69 Score=35.02 Aligned_cols=23 Identities=30% Similarity=0.800 Sum_probs=21.6
Q ss_pred HHHHHHHhhHHhcCcccCCceEE
Q 045793 48 LFENLLKLSEEEFGFSYDGALRI 70 (101)
Q Consensus 48 ~F~~LL~~aeeEfG~~~~G~L~I 70 (101)
+|.++|++|..|+||..+|||+|
T Consensus 40 lF~~mm~Ea~~e~~F~~~~pl~~ 62 (197)
T PRK02899 40 LFRDMMQEANKELGFEADGPIAV 62 (197)
T ss_pred HHHHHHHHhhhccCcccCCeEEE
Confidence 99999999999999998899876
No 7
>PRK02315 adaptor protein; Provisional
Probab=82.49 E-value=1 Score=34.74 Aligned_cols=23 Identities=26% Similarity=0.484 Sum_probs=21.6
Q ss_pred HHHHHHHhhHHhcCcccCCceEE
Q 045793 48 LFENLLKLSEEEFGFSYDGALRI 70 (101)
Q Consensus 48 ~F~~LL~~aeeEfG~~~~G~L~I 70 (101)
+|.++|++|..|+||..+|||+|
T Consensus 40 fF~~mm~Ea~~e~~F~~~~pl~~ 62 (233)
T PRK02315 40 FFYSMMDEVDEEDDFADEGPLWF 62 (233)
T ss_pred HHHHHHHHhccccCcccCCeEEE
Confidence 99999999999999998999876
No 8
>PF05389 MecA: Negative regulator of genetic competence (MecA); InterPro: IPR008681 Competence is the ability of a cell to take up exogenous DNA from its environment, resulting in transformation. It is widespread among bacteria and is probably an important mechanism for the horizontal transfer of genes. Cells that take up DNA inevitably acquire the nucleotides the DNA consists of, and, because nucleotides are needed for DNA and RNA synthesis and are expensive to synthesise, these may make a significant contribution to the cell's energy budget []. The lateral gene transfer caused by competence also contributes to the genetic diversity that makes evolution possible. DNA usually becomes available by the death and lysis of other cells. Competent bacteria use components of extracellular filaments called type 4 pili to create pores in their membranes and pull DNA through the pores into the cytoplasm. This process, including the development of competence and the expression of the uptake machinery, is regulated in response to cell-cell signalling and/or nutritional conditions []. This family contains several bacterial MecA proteins. In complex media competence development is poor, and there is little or no expression of late competence genes. Overexpression of MecA inhibits comG transcription [, , ]. MecA enables the recognition and targeting of unfolded and aggregated proteins to the ClpC protease or to other proteins involved in proteolysis. Acts negatively in the development of competence by binding ComK and recruiting it to the ClpCP protease. When overexpressed, inhibits sporulation. Also involved in Spx degradation by ClpC. ; PDB: 3JTP_C 2Y1R_O 3PXI_c 3PXG_b 3JTO_D 3JTN_A.
Probab=76.63 E-value=0.8 Score=34.48 Aligned_cols=39 Identities=28% Similarity=0.395 Sum_probs=0.0
Q ss_pred HHHHHHHhhHHhcCcccCCceEEecCHHHHHHHHHHHhcC
Q 045793 48 LFENLLKLSEEEFGFSYDGALRIACEIDVFQYLLLLLKTG 87 (101)
Q Consensus 48 ~F~~LL~~aeeEfG~~~~G~L~IPC~~~~Fe~vl~~l~~~ 87 (101)
+|.++|++|.+|+||..+|||++==-+.- +.+.-.|.+.
T Consensus 40 fF~~ileea~~e~~F~~~~~l~~qv~p~~-~gl~l~ITk~ 78 (220)
T PF05389_consen 40 FFYSILEEADEEHGFENDGPLTFQVMPLP-DGLELIITKV 78 (220)
T ss_dssp ----------------------------------------
T ss_pred HHHHHHHHhccccCcccCCeEEEEEEECC-CCEEEEEEec
Confidence 89999999999999988999886433333 3343334333
No 9
>PF07369 DUF1488: Protein of unknown function (DUF1488); InterPro: IPR009962 This family consists of several hypothetical bacterial proteins of around 85 residues in length. The function of this family is unknown.; PDB: 2GPI_A.
Probab=74.20 E-value=14 Score=23.57 Aligned_cols=23 Identities=30% Similarity=0.426 Sum_probs=20.0
Q ss_pred eEEEEeecCCceeEEEEcchHH-HH
Q 045793 26 HVRVFVGKDMQFKFEMEANYLN-LF 49 (101)
Q Consensus 26 ~~aVyVG~~~~kRfvVp~~~Ln-~F 49 (101)
.|+++|+. ..-++.|+.+-|. +|
T Consensus 18 ~F~a~~~g-~~i~C~Is~~aL~~~~ 41 (83)
T PF07369_consen 18 RFPAQVDG-MQIRCAISAEALEDLF 41 (83)
T ss_dssp EEEEEETT-EEEEEEEEHHHHHHHH
T ss_pred EEEEEECC-EEEEEEEeHHHHHhhh
Confidence 58899987 7999999999997 66
No 10
>PF02100 ODC_AZ: Ornithine decarboxylase antizyme; InterPro: IPR002993 Ornithine decarboxylase antizyme (ODC-AZ) [] binds to, and destabilises, ornithine decarboxylase (ODC), a key enzyme in polyamine synthesis. ODC is then rapidly degraded. The expression of ODC-AZ requires programmed, ribosomal frameshifting which is modulated according to the cellular concentration of polyamines. High levels of polyamines induce a +1 ribosomal frameshift in the translation of mRNA for the antizyme leading to the expression of a full-length protein. At least two forms of ODC-AZ exist in mammals [] and the protein has been found in Drosophila (protein Gutfeeling).; GO: 0004857 enzyme inhibitor activity, 0008073 ornithine decarboxylase inhibitor activity; PDB: 1ZO0_A.
Probab=70.75 E-value=3.2 Score=28.69 Aligned_cols=49 Identities=24% Similarity=0.205 Sum_probs=25.8
Q ss_pred CceeEE-EEcchHH-----HHHHHHHhhHHhcCcccCCceEEecCHHHHHHHHHHH
Q 045793 35 MQFKFE-MEANYLN-----LFENLLKLSEEEFGFSYDGALRIACEIDVFQYLLLLL 84 (101)
Q Consensus 35 ~~kRfv-Vp~~~Ln-----~F~~LL~~aeeEfG~~~~G~L~IPC~~~~Fe~vl~~l 84 (101)
++.=|+ +|-..+. .|.+||+.|||.+|.++ -.+.++=+-.....++..+
T Consensus 23 ~~~L~V~ip~~~~~~~~K~~lvaLLElAee~L~c~~-vvic~~k~~~d~~~Llr~l 77 (108)
T PF02100_consen 23 ERTLFVFIPSSALGQGSKESLVALLELAEEKLGCSH-VVICLDKNRPDRASLLRTL 77 (108)
T ss_dssp TTEEEEE-SS---SS--SHHHHHHHHHHHHHH-----EEEEE---SS-HHHHHHHH
T ss_pred CCEEEEEECCcccccccHHHHHHHHHHhcCcCCCCE-EEEEEECCchhHHHhhhhc
Confidence 455566 5765544 99999999999998754 5566664444455555444
No 11
>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=69.09 E-value=16 Score=30.14 Aligned_cols=54 Identities=19% Similarity=0.439 Sum_probs=43.1
Q ss_pred CceeEEEEcchHH----HHHHHHHh---hHHhcCcccCCceEEecCHHHHHHHHHHHhcCCCCC
Q 045793 35 MQFKFEMEANYLN----LFENLLKL---SEEEFGFSYDGALRIACEIDVFQYLLLLLKTGNPSA 91 (101)
Q Consensus 35 ~~kRfvVp~~~Ln----~F~~LL~~---aeeEfG~~~~G~L~IPC~~~~Fe~vl~~l~~~~~~~ 91 (101)
.++=|..|...|- .|++.|.. ..++. .+=.|.+-||+..|+.++.-+++..+..
T Consensus 12 ~~rdF~C~~~lL~~~M~YF~~~l~~~~~~~~~~---~~idisVhCDv~iF~WLm~yv~~~~p~l 72 (317)
T PF11822_consen 12 EKRDFTCPRDLLVSEMRYFAEYLSRYINDSQRW---EEIDISVHCDVHIFEWLMRYVKGEPPSL 72 (317)
T ss_pred cceeeeccHHHHHHhhHHHHHHHhhcccccCcC---CCcceEEecChhHHHHHHHHhhcCCCcC
Confidence 5788999999988 99999976 33332 2356888999999999999999866554
No 12
>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=63.52 E-value=35 Score=21.50 Aligned_cols=55 Identities=27% Similarity=0.384 Sum_probs=40.0
Q ss_pred EEEEeecCCceeEEEEcchHH----HHHHHHHhhHHhcCcccCC--ceEEe-cCHHHHHHHHHHHhcC
Q 045793 27 VRVFVGKDMQFKFEMEANYLN----LFENLLKLSEEEFGFSYDG--ALRIA-CEIDVFQYLLLLLKTG 87 (101)
Q Consensus 27 ~aVyVG~~~~kRfvVp~~~Ln----~F~~LL~~aeeEfG~~~~G--~L~IP-C~~~~Fe~vl~~l~~~ 87 (101)
+.+.|| +.++|-++-..|. .|+.++... +....+ .+.++ ++...|+.++..+=.+
T Consensus 13 ~~i~v~--d~~~~~vhk~iL~~~S~~F~~~~~~~----~~~~~~~~~i~~~~~~~~~~~~~l~~~Y~~ 74 (111)
T PF00651_consen 13 VTIRVG--DGKTFYVHKNILAARSPYFRNLFEGS----KFKESTVPEISLPDVSPEAFEAFLEYMYTG 74 (111)
T ss_dssp EEEEET--TTEEEEE-HHHHHHHBHHHHHHHTTT----TSTTSSEEEEEETTSCHHHHHHHHHHHHHS
T ss_pred EEEEEC--CCEEEeechhhhhccchhhhhccccc----ccccccccccccccccccccccccccccCC
Confidence 345666 3699999999998 999999988 222233 35555 8899999999888544
No 13
>smart00666 PB1 PB1 domain. Phox and Bem1p domain, present in many eukaryotic cytoplasmic signalling proteins. The domain adopts a beta-grasp fold, similar to that found in ubiquitin and Ras-binding domains. A motif, variously termed OPR, PC and AID, represents the most conserved region of the majority of PB1 domains, and is necessary for PB1 domain function. This function is the formation of PB1 domain heterodimers, although not all PB1 domain pairs associate.
Probab=61.45 E-value=17 Score=22.57 Aligned_cols=50 Identities=16% Similarity=0.293 Sum_probs=35.0
Q ss_pred ecCCceeEEEEcchHH-HHHHHHHhhHHhcCcc----------cCC-ceEEecCHHHHHHHHHHHhc
Q 045793 32 GKDMQFKFEMEANYLN-LFENLLKLSEEEFGFS----------YDG-ALRIACEIDVFQYLLLLLKT 86 (101)
Q Consensus 32 G~~~~kRfvVp~~~Ln-~F~~LL~~aeeEfG~~----------~~G-~L~IPC~~~~Fe~vl~~l~~ 86 (101)
|+ +.+||.+|- + .|.+|..+..+.|+.. .+| .++|.++. .+..++.+...
T Consensus 9 ~~-~~~~~~~~~---~~s~~dL~~~i~~~~~~~~~~~~l~Y~Dedgd~v~l~sd~-Dl~~a~~~~~~ 70 (81)
T smart00666 9 GG-ETRRLSVPR---DISFEDLRSKVAKRFGLDNQSFTLKYQDEDGDLVSLTSDE-DLEEAIEEYDS 70 (81)
T ss_pred CC-EEEEEEECC---CCCHHHHHHHHHHHhCCCCCCeEEEEECCCCCEEEecCHH-HHHHHHHHHHH
Confidence 65 799999986 4 6777777777776653 244 67888865 56777766654
No 14
>PF14317 YcxB: YcxB-like protein
Probab=54.00 E-value=20 Score=20.37 Aligned_cols=23 Identities=13% Similarity=0.297 Sum_probs=18.9
Q ss_pred CCceEEEEeecCCceeEEEEcchHH
Q 045793 23 EEGHVRVFVGKDMQFKFEMEANYLN 47 (101)
Q Consensus 23 pkG~~aVyVG~~~~kRfvVp~~~Ln 47 (101)
-+.++-+|++. ..-++||-+.++
T Consensus 28 ~~~~~~l~~~~--~~~~~iPk~~f~ 50 (62)
T PF14317_consen 28 TKDYFYLYLGK--NQAFIIPKRAFS 50 (62)
T ss_pred eCCEEEEEECC--CeEEEEEHHHCC
Confidence 46677888884 699999999887
No 15
>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=51.11 E-value=45 Score=19.34 Aligned_cols=54 Identities=26% Similarity=0.333 Sum_probs=40.4
Q ss_pred EEeecCCceeEEEEcchHH----HHHHHHHhhHHhcCcccCCceEEe-cCHHHHHHHHHHHhcCC
Q 045793 29 VFVGKDMQFKFEMEANYLN----LFENLLKLSEEEFGFSYDGALRIA-CEIDVFQYLLLLLKTGN 88 (101)
Q Consensus 29 VyVG~~~~kRfvVp~~~Ln----~F~~LL~~aeeEfG~~~~G~L~IP-C~~~~Fe~vl~~l~~~~ 88 (101)
+-||+ ++|-++-..|. .|+.++.....+- ....+.+| .+...|+.++..+-.+.
T Consensus 4 i~v~~---~~~~~h~~iL~~~s~~f~~~~~~~~~~~---~~~~i~l~~~~~~~f~~~l~~ly~~~ 62 (90)
T smart00225 4 LVVGG---KKFKAHKAVLAACSPYFKALFSGDFKES---KKSEIYLDDVSPEDFRALLEFLYTGK 62 (90)
T ss_pred EEECC---EEEehHHHHHhhcCHHHHHHHcCCCccC---CCCEEEecCCCHHHHHHHHHeecCce
Confidence 44554 89999999998 8999998644332 34567776 69999999999887653
No 16
>PF11876 DUF3396: Protein of unknown function (DUF3396); InterPro: IPR021815 This family of proteins are functionally uncharacterised. This protein is found in bacteria and viruses. Proteins in this family are typically between 302 to 382 amino acids in length.
Probab=45.01 E-value=28 Score=26.43 Aligned_cols=51 Identities=18% Similarity=0.151 Sum_probs=35.0
Q ss_pred CceeEEEEcchHH----HHHHHHHhhHHhcCcccC-CceEE---ecCHHHHHHHHHHHh
Q 045793 35 MQFKFEMEANYLN----LFENLLKLSEEEFGFSYD-GALRI---ACEIDVFQYLLLLLK 85 (101)
Q Consensus 35 ~~kRfvVp~~~Ln----~F~~LL~~aeeEfG~~~~-G~L~I---PC~~~~Fe~vl~~l~ 85 (101)
+-=+|.+|+++|. .|++|+...++.+-+.|- +++.+ |++...-+.....+.
T Consensus 23 s~l~f~~P~~~l~~~~~~~~~l~~~~a~~L~~~~G~aGl~~~~~~~~~~~~~~~ey~la 81 (208)
T PF11876_consen 23 SYLSFSLPLEWLEEGPGHFRALFLELAERLPPSHGYAGLAFNLPPYSRSENEPLEYALA 81 (208)
T ss_pred cEEEEEeCHHHHhcCcHHHHHHHHHHHHHCCCCeEeeEEEEecCCcccccccHHHHHHH
Confidence 3468999999999 899999999998777653 44444 445444444443333
No 17
>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=41.21 E-value=21 Score=22.99 Aligned_cols=16 Identities=56% Similarity=0.985 Sum_probs=15.0
Q ss_pred HHHHHHHhhHHhcCcc
Q 045793 48 LFENLLKLSEEEFGFS 63 (101)
Q Consensus 48 ~F~~LL~~aeeEfG~~ 63 (101)
.+++||+.|++.||+.
T Consensus 27 SleeLl~ia~~kfg~~ 42 (69)
T PF11834_consen 27 SLEELLKIASEKFGFS 42 (69)
T ss_pred cHHHHHHHHHHHhCCC
Confidence 7999999999999985
No 18
>TIGR02529 EutJ ethanolamine utilization protein EutJ family protein.
Probab=37.03 E-value=1.2e+02 Score=22.91 Aligned_cols=41 Identities=12% Similarity=0.039 Sum_probs=33.1
Q ss_pred CceeEEEEcchHH-HHHHHHHhhHHhcCccc-CCceEEecCHH
Q 045793 35 MQFKFEMEANYLN-LFENLLKLSEEEFGFSY-DGALRIACEID 75 (101)
Q Consensus 35 ~~kRfvVp~~~Ln-~F~~LL~~aeeEfG~~~-~G~L~IPC~~~ 75 (101)
-..+-++..+-.. +++.|.+++++..|... +-.+++|+...
T Consensus 31 ~~~g~I~d~~~~~~~l~~l~~~a~~~~g~~~~~vvisVP~~~~ 73 (239)
T TIGR02529 31 VRDGIVVDFLGAVEIVRRLKDTLEQKLGIELTHAATAIPPGTI 73 (239)
T ss_pred ccCCeEEEhHHHHHHHHHHHHHHHHHhCCCcCcEEEEECCCCC
Confidence 4677788888777 99999999998888854 46799998654
No 19
>cd06410 PB1_UP2 Uncharacterized protein 2. The PB1 domain is a modular domain mediating specific protein-protein interaction which play a role in many critical cell processes such as osteoclastogenesis, angiogenesis, early cardiovascular development, and cell polarity. A canonical PB1-PB1 interaction, which involves heterodimerization of two PB1 domains, is required for the formation of macromolecular signaling complexes ensuring specificity and fidelity during cellular signaling. The interaction between two PB1 domain depends on the type of PB1. There are three types of PB1 domains: type I which contains an OPCA motif, acidic aminoacid cluster, type II which contains a basic cluster, and type I/II which contains both an OPCA motif and a basic cluster. Interactions of PB1 domains with other protein domains have been described as noncanonical PB1-interactions.
Probab=36.03 E-value=79 Score=21.41 Aligned_cols=56 Identities=16% Similarity=0.240 Sum_probs=35.7
Q ss_pred ceEEEEeecCCceeEEEEcchHHHHHHHHHhhHHhcCccc-------------CCceEEecCHHHHHHHHHHH
Q 045793 25 GHVRVFVGKDMQFKFEMEANYLNLFENLLKLSEEEFGFSY-------------DGALRIACEIDVFQYLLLLL 84 (101)
Q Consensus 25 G~~aVyVG~~~~kRfvVp~~~Ln~F~~LL~~aeeEfG~~~-------------~G~L~IPC~~~~Fe~vl~~l 84 (101)
+--.=|||. +.+-..|+-+. .|.+|..+..+.++... ++-+.|.||.+ ..+++...
T Consensus 14 dg~l~Y~GG-~tr~i~V~r~~--s~~el~~kl~~~~~~~~~~~lky~Lp~edld~Lisv~~DeD-l~~M~~e~ 82 (97)
T cd06410 14 DGQLRYVGG-ETRIVSVDRSI--SFKELVSKLSELFGAGVVVTLKYQLPDEDLDALISVSNDED-LKNMMEEY 82 (97)
T ss_pred CCCEEEcCC-ceEEEEEcCCC--CHHHHHHHHHHHhCCCCceEEEEEcCCCCcceeEEecCcHH-HHHHHHhh
Confidence 333469997 77777777663 66777777777666544 34677888874 34444433
No 20
>cd04380 RhoGAP_OCRL1 RhoGAP_OCRL1: RhoGAP (GTPase-activator protein [GAP] for Rho-like small GTPases) domain present in OCRL1-like proteins. OCRL1 (oculocerebrorenal syndrome of Lowe 1)-like proteins contain two conserved domains: a central inositol polyphosphate 5-phosphatase domain and a C-terminal Rho GAP domain, this GAP domain lacks the catalytic residue and therefore maybe inactive. OCRL-like proteins are type II inositol polyphosphate 5-phosphatases that can hydrolyze lipid PI(4,5)P2 and PI(3,4,5)P3 and soluble Ins(1,4,5)P3 and Ins(1,3,4,5)P4, but their individual specificities vary. The functionality of the RhoGAP domain is still unclear. Small GTPases cluster into distinct families, and all act as molecular switches, active in their GTP-bound form but inactive when GDP-bound. The Rho family of GTPases activates effectors involved in a wide variety of developmental processes, including regulation of cytoskeleton formation, cell proliferation and the JNK signaling pathway. GTPas
Probab=35.73 E-value=38 Score=25.44 Aligned_cols=52 Identities=15% Similarity=0.197 Sum_probs=40.9
Q ss_pred CceeEEEEcchHHHHHHHHHhhHHhcCcccCCceEEecCHHH----HHHHHHHHhcCCCCC
Q 045793 35 MQFKFEMEANYLNLFENLLKLSEEEFGFSYDGALRIACEIDV----FQYLLLLLKTGNPSA 91 (101)
Q Consensus 35 ~~kRfvVp~~~Ln~F~~LL~~aeeEfG~~~~G~L~IPC~~~~----Fe~vl~~l~~~~~~~ 91 (101)
...|..||.....+...|.+ .|..++|..++|-+... .+.+...++++.+-.
T Consensus 44 ~~~~~~iP~~l~~~i~~L~~-----~gl~~eGiFR~~G~~~~~~~~i~~l~~~ld~~~~~~ 99 (220)
T cd04380 44 SEVPLSIPKEIWRLVDYLYT-----RGLAQEGLFEEPGLPSEPGELLAEIRDALDTGSPFN 99 (220)
T ss_pred CCCccccCHHHHHHHHHHHH-----cCCcccCcccCCCcccchHHHHHHHHHHHhCCCCCC
Confidence 46888899877766666654 67888999999999998 888888888775543
No 21
>PF12062 HSNSD: heparan sulfate-N-deacetylase; InterPro: IPR021930 This family of proteins is are heparan sulphate N-deacetylase enzymes. This protein is found in eukaryotes. This enzyme is often found associated with PF00685 from PFAM. ; GO: 0015016 [heparan sulfate]-glucosamine N-sulfotransferase activity, 0016787 hydrolase activity
Probab=34.39 E-value=28 Score=30.37 Aligned_cols=38 Identities=24% Similarity=0.415 Sum_probs=32.4
Q ss_pred CceEEEEeecCCceeEEEEc-----chHH---HHHHHHHhhHHhcCc
Q 045793 24 EGHVRVFVGKDMQFKFEMEA-----NYLN---LFENLLKLSEEEFGF 62 (101)
Q Consensus 24 kG~~aVyVG~~~~kRfvVp~-----~~Ln---~F~~LL~~aeeEfG~ 62 (101)
||.+|+++-. ++.||.|-+ .|+| .-++||++=..|||-
T Consensus 96 kg~lP~LT~~-~kGRy~lII~ENl~kYlnld~wNR~LLdkYC~ey~V 141 (487)
T PF12062_consen 96 KGDLPVLTDN-DKGRYSLIIFENLLKYLNLDSWNRELLDKYCREYGV 141 (487)
T ss_pred CCCCCccccC-CCCcEEEEEehhHHHHcCChHHHHHHHHHHhHccCc
Confidence 6899999966 788998876 7888 799999999999863
No 22
>PF07104 DUF1366: Protein of unknown function (DUF1366); InterPro: IPR009796 This entry is represented by Streptococcus phage 7201, Orf40. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. This family consists of several hypothetical Streptococcus thermophilus bacteriophage proteins of around 130 residues in length. One of the sequences in this family, from phage Sfi11 (O80186 from SWISSPROT) is known as Gp149. The function of this family is unknown.
Probab=33.70 E-value=59 Score=23.06 Aligned_cols=42 Identities=10% Similarity=0.118 Sum_probs=31.6
Q ss_pred CcCCCCceEEEEeecC-CceeEEEEcchHH-HHHHHHHhhHHhc
Q 045793 19 DSEAEEGHVRVFVGKD-MQFKFEMEANYLN-LFENLLKLSEEEF 60 (101)
Q Consensus 19 ~~~vpkG~~aVyVG~~-~~kRfvVp~~~Ln-~F~~LL~~aeeEf 60 (101)
+...+.|.-++.+|.+ .-=-+.+|.++++ -+.+|++.|+|.|
T Consensus 13 ~dGsv~~T~ViL~~~dGa~ip~~L~~D~~~ks~~ELi~~ale~i 56 (116)
T PF07104_consen 13 PDGSVSKTKVILTNDDGAYIPVFLPGDKIDKSNTELIELALEMI 56 (116)
T ss_pred CCCCeeeeEEEEEcCCCcEEEeeCChhhhcCCHHHHHHHHHHHH
Confidence 4566777777888762 3445667788888 9999999999876
No 23
>cd06398 PB1_Joka2 The PB1 domain is present in the Nicotiana plumbaginifolia Joka2 protein which interacts with sulfur stress inducible UP9 protein. The PB1 domain is a modular domain mediating specific protein-protein interactions which play a role in many critical cell processes, such as osteoclastogenesis, angiogenesis, early cardiovascular development and cell polarity. A canonical PB1-PB1 interaction, which involves heterodimerization of two PB1 domain, is required for the formation of macromolecular signaling complexes ensuring specificity and fidelity during cellular signaling. The interaction between two PB1 domain depends on the type of PB1. There are three types of PB1 domains: type I which contains an OPCA motif, acidic aminoacid cluster, type II which contains a basic cluster, and type I/II which contains both an OPCA motif and a basic cluster. Interactions of PB1 domains with other protein domains have been described as noncanonical PB1-interactions. The PB1 domain module
Probab=31.23 E-value=83 Score=21.03 Aligned_cols=51 Identities=20% Similarity=0.356 Sum_probs=29.3
Q ss_pred ecCCceeEEEEcc-------h--HH-HHHHHHHhhH-Hhc--Cc-ccCC-ceEEecCHHHHHHHHHH
Q 045793 32 GKDMQFKFEMEAN-------Y--LN-LFENLLKLSE-EEF--GF-SYDG-ALRIACEIDVFQYLLLL 83 (101)
Q Consensus 32 G~~~~kRfvVp~~-------~--Ln-~F~~LL~~ae-eEf--G~-~~~G-~L~IPC~~~~Fe~vl~~ 83 (101)
|+ +.+||-+|.. | |. -++++++... .+| -| +.+| .++|.|+.+.-+-+-..
T Consensus 8 ~~-~~rRf~l~~~~~~~d~~~~~L~~kI~~~f~l~~~~~~~l~Y~Dedgd~V~l~~D~DL~~a~~~~ 73 (91)
T cd06398 8 GG-TLRRFTFPVAENQLDLNMDGLREKVEELFSLSPDADLSLTYTDEDGDVVTLVDDNDLTDAIQYF 73 (91)
T ss_pred CC-EEEEEEeccccccCCCCHHHHHHHHHHHhCCCCCCcEEEEEECCCCCEEEEccHHHHHHHHHHH
Confidence 55 8999999974 1 11 4444444432 222 22 2234 58889998876655543
No 24
>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=30.00 E-value=1.3e+02 Score=18.09 Aligned_cols=49 Identities=12% Similarity=0.207 Sum_probs=34.6
Q ss_pred eecCCceeEEEEcchHH---HHHHHHHhhHHhcCcccCCceEEe-cCHHHHHHHHHHHh
Q 045793 31 VGKDMQFKFEMEANYLN---LFENLLKLSEEEFGFSYDGALRIA-CEIDVFQYLLLLLK 85 (101)
Q Consensus 31 VG~~~~kRfvVp~~~Ln---~F~~LL~~aeeEfG~~~~G~L~IP-C~~~~Fe~vl~~l~ 85 (101)
+.. |.+.|.|+.+..+ .++.+|+. .|...+ ++-+| =+...++.++.-++
T Consensus 6 ~Ss-Dg~~f~V~~~~a~~S~~i~~ml~~----~~~~~~-~Ipl~~v~~~~L~kViewc~ 58 (62)
T PF03931_consen 6 VSS-DGQEFEVSREAAKQSKTIKNMLED----LGDEDE-PIPLPNVSSRILKKVIEWCE 58 (62)
T ss_dssp EET-TSEEEEEEHHHHTTSHHHHHHHHC----TCCCGT-EEEETTS-HHHHHHHHHHHH
T ss_pred EcC-CCCEEEeeHHHHHHhHHHHHHHhh----hccccc-ccccCccCHHHHHHHHHHHH
Confidence 444 7899999999999 88988863 443333 67776 56778888776543
No 25
>PF06344 Parecho_VpG: Parechovirus Genome-linked protein; InterPro: IPR009407 The viral polyprotein of parechoviruses contains: coat protein VP0 (P1AB); coat protein VP3 (P1C); coat protein VP1 (P1D); picornain 2A (3.4.22.29 from EC, core protein P2A); core protein P2B; core protein P2C; core protein P3A; genome-linked protein VPg (P3B); picornain 3C (3.4.22.28 from EC, MEROPS peptidase subfamily 3CF: parechovirus picornain 3C (P3C)) []. This entry consists of the genome-linked protein Vpg type P3B.; GO: 0019015 viral genome
Probab=29.63 E-value=22 Score=18.07 Aligned_cols=11 Identities=18% Similarity=0.229 Sum_probs=9.2
Q ss_pred CcCCCCceEEE
Q 045793 19 DSEAEEGHVRV 29 (101)
Q Consensus 19 ~~~vpkG~~aV 29 (101)
+..-|||-|||
T Consensus 8 p~~kpkgtfpv 18 (20)
T PF06344_consen 8 PVAKPKGTFPV 18 (20)
T ss_pred cccccCCcccc
Confidence 56779999997
No 26
>cd05992 PB1 The PB1 domain is a modular domain mediating specific protein-protein interactions which play a role in many critical cell processes, such as osteoclastogenesis, angiogenesis, early cardiovascular development, and cell polarity. A canonical PB1-PB1 interaction, which involves heterodimerization of two PB1 domain, is required for the formation of macromolecular signaling complexes ensuring specificity and fidelity during cellular signaling. The interaction between two PB1 domain depends on the type of PB1. There are three types of PB1 domains: type I which contains an OPCA motif, acidic aminoacid cluster, type II which contains a basic cluster, and type I/II which contains both an OPCA motif and a basic cluster. Interactions of PB1 domains with other protein domains have been described as a noncanonical PB1-interactions. The PB1 domain module is conserved in amoebas, fungi, animals, and plants.
Probab=28.27 E-value=1.4e+02 Score=18.04 Aligned_cols=53 Identities=21% Similarity=0.255 Sum_probs=33.8
Q ss_pred EeecCCceeEEEEcchHH-HHHHHHHhhHHhcCcc----------cCCc-eEEecCHHHHHHHHHHHhc
Q 045793 30 FVGKDMQFKFEMEANYLN-LFENLLKLSEEEFGFS----------YDGA-LRIACEIDVFQYLLLLLKT 86 (101)
Q Consensus 30 yVG~~~~kRfvVp~~~Ln-~F~~LL~~aeeEfG~~----------~~G~-L~IPC~~~~Fe~vl~~l~~ 86 (101)
+-+. +.+||.+|. -+ .|.+|..+-.+.|+.. .+|- ++|.+ -+.|+.++....+
T Consensus 6 ~~~~-~~~~~~~~~--~~~s~~~L~~~i~~~~~~~~~~~~l~y~D~e~d~v~l~s-d~Dl~~a~~~~~~ 70 (81)
T cd05992 6 KYGG-EIRRFVVVS--RSISFEDLRSKIAEKFGLDAVSFKLKYPDEDGDLVTISS-DEDLEEAIEEARR 70 (81)
T ss_pred EecC-CCEEEEEec--CCCCHHHHHHHHHHHhCCCCCcEEEEeeCCCCCEEEeCC-HHHHHHHHHHHhh
Confidence 3344 789999995 22 6666666666666653 2344 44545 4678888877764
No 27
>cd06407 PB1_NLP A PB1 domain is present in NIN like proteins (NLP), a key enzyme in a process of establishment of symbiosis betweeen legumes and nitrogen fixing bacteria (Rhizobium). The PB1 domain is a modular domain mediating specific protein-protein interaction which play a role in many critical cell processes like osteoclastogenesis, angiogenesis, early cardiovascular development, and cell polarity. A canonical PB1-PB1 interaction, which involves heterodimerization of two PB1 domains, is required for the formation of macromolecular signaling complexes ensuring specificity and fidelity during cellular signaling. The interaction between two PB1 domain depends on the type of PB1. There are three types of PB1 domains: type I which contains an OPCA motif, acidic aminoacid cluster, type II which contains a basic cluster, and type I/II which contains both an OPCA motif and a basic cluster. Interactions of PB1 domains with other protein domains have been described as noncanonical PB1-inte
Probab=28.17 E-value=1e+02 Score=20.16 Aligned_cols=48 Identities=17% Similarity=0.386 Sum_probs=29.4
Q ss_pred EeecCCceeEEEEcchHHHHHHHHHhhHHhcCcc-----------cC-CceEEecCHHHHHHH
Q 045793 30 FVGKDMQFKFEMEANYLNLFENLLKLSEEEFGFS-----------YD-GALRIACEIDVFQYL 80 (101)
Q Consensus 30 yVG~~~~kRfvVp~~~Ln~F~~LL~~aeeEfG~~-----------~~-G~L~IPC~~~~Fe~v 80 (101)
..|+ +..||-+|... -|++|.++-.+-|+.+ .+ ...+|.|+.+.=+-+
T Consensus 6 ~~~~-d~~r~~l~~~~--~~~~L~~~i~~r~~~~~~~~f~LkY~Ddegd~v~ltsd~DL~eai 65 (82)
T cd06407 6 TYGE-EKIRFRLPPSW--GFTELKQEIAKRFKLDDMSAFDLKYLDDDEEWVLLTCDADLEECI 65 (82)
T ss_pred EeCC-eEEEEEcCCCC--CHHHHHHHHHHHhCCCCCCeeEEEEECCCCCeEEeecHHHHHHHH
Confidence 3355 89999998753 4555555555544432 22 468888998765433
No 28
>PF12401 DUF3662: Protein of unknown function (DUF2662) ; InterPro: IPR022128 This domain family is found in bacteria, and is approximately 120 amino acids in length. The family is found in association with PF00498 from PFAM. ; PDB: 2LC0_A.
Probab=27.80 E-value=63 Score=22.32 Aligned_cols=49 Identities=12% Similarity=0.167 Sum_probs=26.6
Q ss_pred CceEEEEeecCCceeEEEEcchHH-HHHHHHHhhHHhcCcccCCceEEec
Q 045793 24 EGHVRVFVGKDMQFKFEMEANYLN-LFENLLKLSEEEFGFSYDGALRIAC 72 (101)
Q Consensus 24 kG~~aVyVG~~~~kRfvVp~~~Ln-~F~~LL~~aeeEfG~~~~G~L~IPC 72 (101)
.-.+.|+++..+-.|+.=-..-|. -+...|.+-..+=||.-.|+++|-.
T Consensus 52 PN~y~V~Ls~~D~~~l~~~~~~l~~el~~~l~~~a~~qgy~~~G~v~V~~ 101 (116)
T PF12401_consen 52 PNVYTVELSPEDYERLSPWGDRLARELADYLAEHAREQGYTFVGPVTVEF 101 (116)
T ss_dssp --EEEEEEEHHHHHHH-S-SHHHHHHHHHHHHHHHHHHT-B-SS--EEEE
T ss_pred CeeEEEEECHHHHHHHhhhHHHHHHHHHHHHHHHHHHCCCeecCCEEEEE
Confidence 346678887644444433345555 6666676666666887779988764
No 29
>PF08861 DUF1828: Domain of unknown function DUF1828; InterPro: IPR014960 These proteins are functionally uncharacterised.
Probab=25.88 E-value=1.9e+02 Score=18.64 Aligned_cols=35 Identities=23% Similarity=0.285 Sum_probs=27.9
Q ss_pred HHHHHhhHHhcCccc-CCceEEecCHHHHHHHHHHH
Q 045793 50 ENLLKLSEEEFGFSY-DGALRIACEIDVFQYLLLLL 84 (101)
Q Consensus 50 ~~LL~~aeeEfG~~~-~G~L~IPC~~~~Fe~vl~~l 84 (101)
+++|+..-..||..- +|.|.+.++.+.|-.....+
T Consensus 48 ~~~l~~il~~~gv~~~~~el~~~~~~~~~~~~~~~l 83 (90)
T PF08861_consen 48 KKILNSILNGFGVELDEGELFIKTSEENFPQAKHRL 83 (90)
T ss_pred HHHHHHHHHHcCccccCCEEEEEeCHHHHHHHHHHH
Confidence 477888888899965 49999999999887766544
No 30
>KOG1290 consensus Serine/threonine protein kinase [Signal transduction mechanisms]
Probab=25.21 E-value=46 Score=29.64 Aligned_cols=21 Identities=14% Similarity=0.191 Sum_probs=15.9
Q ss_pred CCCceEEEEeecC-CceeEEEE
Q 045793 22 AEEGHVRVFVGKD-MQFKFEME 42 (101)
Q Consensus 22 vpkG~~aVyVG~~-~~kRfvVp 42 (101)
.+-||.||++|+. ...||+|-
T Consensus 62 ~kGGYHpV~IGD~F~~gRY~v~ 83 (590)
T KOG1290|consen 62 RKGGYHPVRIGDVFNGGRYHVQ 83 (590)
T ss_pred hcCCCceeeccccccCceEEEE
Confidence 5789999999974 34677764
No 31
>COG4862 MecA Negative regulator of genetic competence, sporulation and motility [Posttranslational modification, protein turnover, chaperones / Signal transduction mechanisms / Cell motility and secretion]
Probab=24.10 E-value=46 Score=26.28 Aligned_cols=37 Identities=22% Similarity=0.233 Sum_probs=31.1
Q ss_pred CceeEEEEcchHH-HHHHHHHhhHHhcCcccCCceEEe
Q 045793 35 MQFKFEMEANYLN-LFENLLKLSEEEFGFSYDGALRIA 71 (101)
Q Consensus 35 ~~kRfvVp~~~Ln-~F~~LL~~aeeEfG~~~~G~L~IP 71 (101)
+++=|+.|..--. +|-++++.+..|-+|...|||.|-
T Consensus 26 ~~eD~w~n~ek~EE~F~~mMdEl~~ee~F~~~GpL~iq 63 (224)
T COG4862 26 EREDFWYNREKTEELFYEMMDELNLEEDFKDEGPLWIQ 63 (224)
T ss_pred CHHHhccchHHHHHHHHHHHHhcCCccccccCCceEEE
Confidence 4566777777667 999999999999999989999884
No 32
>cd04404 RhoGAP-p50rhoGAP RhoGAP-p50rhoGAP: RhoGAP (GTPase-activator protein [GAP] for Rho-like small GTPases) domain of p50RhoGAP-like proteins; p50RhoGAP, also known as RhoGAP-1, contains a C-terminal RhoGAP domain and an N-terminal Sec14 domain which binds phosphatidylinositol 3,4,5-trisphosphate (PtdIns(3,4,5)P3). It is ubiquitously expressed and preferentially active on Cdc42. This subgroup also contains closely related ARHGAP8. Small GTPases cluster into distinct families, and all act as molecular switches, active in their GTP-bound form but inactive when GDP-bound. The Rho family of GTPases activates effectors involved in a wide variety of developmental processes, including regulation of cytoskeleton formation, cell proliferation and the JNK signaling pathway. GTPases generally have a low intrinsic GTPase hydrolytic activity but there are family-specific groups of GAPs that enhance the rate of GTP hydrolysis by several orders of magnitude.
Probab=22.94 E-value=2.3e+02 Score=20.49 Aligned_cols=37 Identities=11% Similarity=0.239 Sum_probs=29.8
Q ss_pred HHHHhhHHhcCcccCCceEEecCHHHHHHHHHHHhcCC
Q 045793 51 NLLKLSEEEFGFSYDGALRIACEIDVFQYLLLLLKTGN 88 (101)
Q Consensus 51 ~LL~~aeeEfG~~~~G~L~IPC~~~~Fe~vl~~l~~~~ 88 (101)
.+++.-++ .|.+.+|.-++|.+...-+.+...++++.
T Consensus 29 ~~i~~l~~-~g~~~eGIFR~~g~~~~i~~l~~~~~~~~ 65 (195)
T cd04404 29 ETVEYLQA-HALTTEGIFRRSANTQVVKEVQQKYNMGE 65 (195)
T ss_pred HHHHHHHH-cCCCCCCeeeCCCcHHHHHHHHHHHhCCC
Confidence 34444333 78888999999999999999999998765
No 33
>PF07429 Glyco_transf_56: 4-alpha-L-fucosyltransferase glycosyl transferase group 56; InterPro: IPR009993 This family contains the bacterial enzyme 4-alpha-L-fucosyltransferase (Fuc4NAc transferase) (approximately 360 residues long). This catalyses the synthesis of Fuc4NAc-ManNAcA-GlcNAc-PP-Und (lipid III) as part of the biosynthetic pathway of enterobacterial common antigen (ECA), a polysaccharide comprised of the trisaccharide repeat unit Fuc4NAc-ManNAcA-GlcNAc [].; GO: 0008417 fucosyltransferase activity, 0009246 enterobacterial common antigen biosynthetic process, 0009276 Gram-negative-bacterium-type cell wall
Probab=22.34 E-value=4e+02 Score=22.47 Aligned_cols=42 Identities=21% Similarity=0.458 Sum_probs=32.7
Q ss_pred CCCCceEEEEeecC-------------------CceeEEEEcchH--H--HHHHHHHhhHHhcCc
Q 045793 21 EAEEGHVRVFVGKD-------------------MQFKFEMEANYL--N--LFENLLKLSEEEFGF 62 (101)
Q Consensus 21 ~vpkG~~aVyVG~~-------------------~~kRfvVp~~~L--n--~F~~LL~~aeeEfG~ 62 (101)
..++|-+.|.||.+ +..|++||.+|= | ..+++.+.+++-||-
T Consensus 180 ~~~~~~ltILvGNSgd~sNnHieaL~~L~~~~~~~~kIivPLsYg~~n~~Yi~~V~~~~~~lF~~ 244 (360)
T PF07429_consen 180 KKNKGKLTILVGNSGDPSNNHIEALEALKQQFGDDVKIIVPLSYGANNQAYIQQVIQAGKELFGA 244 (360)
T ss_pred cCCCCceEEEEcCCCCCCccHHHHHHHHHHhcCCCeEEEEECCCCCchHHHHHHHHHHHHHhcCc
Confidence 45678899999863 358999999994 4 777777778888874
No 34
>cd01617 DCX Ubiquitin-like domain of DCX. DCX The ubiquitin-like DCX domain is present in tandem within the N-terminal half of the doublecortin protein. Doublecortin is expressed in migrating neurons. Mutations in the gene encoding doublecortin cause lissencephaly in males and 'double-cortex syndrome' in females.
Probab=21.37 E-value=2.3e+02 Score=17.99 Aligned_cols=28 Identities=14% Similarity=0.220 Sum_probs=22.3
Q ss_pred CceeEEEEcchHHHHHHHHHhhHHhcCc
Q 045793 35 MQFKFEMEANYLNLFENLLKLSEEEFGF 62 (101)
Q Consensus 35 ~~kRfvVp~~~Ln~F~~LL~~aeeEfG~ 62 (101)
...+++|+-...+.|..||+..-+..+-
T Consensus 14 ~g~~~~i~~~~~~sfd~lL~~lt~~l~l 41 (80)
T cd01617 14 KGVRLLVNRRRFKSFDALLDDLTEKVQL 41 (80)
T ss_pred CCEEEEEChhhhCCHHHHHHHHHHHhCC
Confidence 4678888888778889999888887663
No 35
>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=21.25 E-value=2.5e+02 Score=18.29 Aligned_cols=53 Identities=8% Similarity=0.138 Sum_probs=40.0
Q ss_pred eecCCceeEEEEcchHH---HHHHHHHhhHHhcCcccC--CceEEe-cCHHHHHHHHHHHhcCC
Q 045793 31 VGKDMQFKFEMEANYLN---LFENLLKLSEEEFGFSYD--GALRIA-CEIDVFQYLLLLLKTGN 88 (101)
Q Consensus 31 VG~~~~kRfvVp~~~Ln---~F~~LL~~aeeEfG~~~~--G~L~IP-C~~~~Fe~vl~~l~~~~ 88 (101)
+.. +..+|.|+....+ +++.+|+.. |+..+ .+|.+| =+...++.|+.-+....
T Consensus 7 ~S~-Dg~~f~v~~~~a~~S~~i~~~l~~~----~~~~~~~~~Ipl~~v~~~~L~~Vi~yc~~h~ 65 (104)
T smart00512 7 ISS-DGEVFEVEREVARQSKTIKAMIEDL----GVDDENNNPIPLPNVTSKILSKVIEYCEHHV 65 (104)
T ss_pred EeC-CCCEEEecHHHHHHHHHHHHHHHcc----CcccCCCCCccCCCcCHHHHHHHHHHHHHcc
Confidence 344 7899999999998 888888643 33222 588888 78899999998887554
No 36
>cd04751 Commd3 COMM_Domain containing protein 3. The COMM Domain is found at the C-terminus of a variety of proteins; presumably all COMM_Domain containing proteins are located in the nucleus and the COMM domain plays a role in protein-protein interactions. Several family members have been shown to bind and inhibit NF-kappaB.
Probab=21.00 E-value=1.3e+02 Score=20.05 Aligned_cols=21 Identities=24% Similarity=0.445 Sum_probs=18.9
Q ss_pred CceEEecCHHHHHHHHHHHhc
Q 045793 66 GALRIACEIDVFQYLLLLLKT 86 (101)
Q Consensus 66 G~L~IPC~~~~Fe~vl~~l~~ 86 (101)
..+.+-|+++.|.+++..|+.
T Consensus 65 ~~i~f~c~~e~L~~Li~~Lk~ 85 (95)
T cd04751 65 PDINFTCTLEQLQDLVNKLKD 85 (95)
T ss_pred ceEEEEeCHHHHHHHHHHHHH
Confidence 589999999999999998874
No 37
>PF02209 VHP: Villin headpiece domain; InterPro: IPR003128 Villin is an F-actin bundling protein involved in the maintenance of the microvilli of the absorptive epithelia. The villin-type "headpiece" domain is a modular motif found at the extreme C terminus of larger "core" domains in over 25 cytoskeletal proteins in plants and animals, often in assocation with the Gelsolin repeat. Although the headpiece is classified as an F-actin-binding domain, it has been shown that not all headpiece domains are intrinsically F-actin-binding motifs, surface charge distribution may be an important element for F-actin recognition []. An autonomously folding, 35 residue, thermostable subdomain (HP36) of the full-length 76 amino acid residue villin headpiece, is the smallest known example of a cooperatively folded domain of a naturally occurring protein. The structure of HP36, as determined by NMR spectroscopy, consists of three short helices surrounding a tightly packed hydrophobic core []. ; GO: 0003779 actin binding, 0007010 cytoskeleton organization; PDB: 1ZV6_A 1QZP_A 1UND_A 2PPZ_A 3TJW_B 1YU8_X 2JM0_A 1WY4_A 3MYC_A 1YU5_X ....
Probab=20.99 E-value=51 Score=18.79 Aligned_cols=17 Identities=47% Similarity=0.753 Sum_probs=11.9
Q ss_pred hHH--HHHHHHHhhHHhcC
Q 045793 45 YLN--LFENLLKLSEEEFG 61 (101)
Q Consensus 45 ~Ln--~F~~LL~~aeeEfG 61 (101)
||+ -|++++.++.+||-
T Consensus 1 YLsd~dF~~vFgm~~~eF~ 19 (36)
T PF02209_consen 1 YLSDEDFEKVFGMSREEFY 19 (36)
T ss_dssp GS-HHHHHHHHSS-HHHHH
T ss_pred CcCHHHHHHHHCCCHHHHH
Confidence 566 78888888888873
Done!