Query 033749
Match_columns 112
No_of_seqs 120 out of 603
Neff 4.1
Searched_HMMs 46136
Date Fri Mar 29 05:52:14 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/033749.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/033749hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF02519 Auxin_inducible: Auxi 100.0 1.1E-32 2.4E-37 194.1 8.3 67 27-95 33-99 (100)
2 PLN03090 auxin-responsive fami 100.0 1.4E-32 3E-37 196.3 8.5 69 25-95 35-103 (104)
3 PLN03219 uncharacterized prote 100.0 5E-32 1.1E-36 194.7 8.7 72 24-95 33-105 (108)
4 PLN03220 uncharacterized prote 100.0 8.7E-32 1.9E-36 192.6 8.6 72 23-94 28-102 (105)
5 PRK02899 adaptor protein; Prov 87.8 0.5 1.1E-05 36.7 2.8 24 58-81 39-62 (197)
6 PRK02315 adaptor protein; Prov 85.0 0.71 1.5E-05 36.5 2.3 24 58-81 39-62 (233)
7 PF02214 BTB_2: BTB/POZ domain 84.6 1.5 3.2E-05 28.9 3.4 59 36-98 2-63 (94)
8 PF05389 MecA: Negative regula 78.3 0.68 1.5E-05 35.7 0.0 25 57-81 38-62 (220)
9 smart00666 PB1 PB1 domain. Pho 74.4 9.7 0.00021 24.3 4.7 49 43-96 10-69 (81)
10 cd05992 PB1 The PB1 domain is 69.0 16 0.00035 23.0 4.8 50 43-96 9-69 (81)
11 cd06410 PB1_UP2 Uncharacterize 50.1 41 0.00088 23.5 4.5 47 36-88 17-76 (97)
12 PF11834 DUF3354: Domain of un 45.5 18 0.00038 24.1 1.9 24 45-74 19-42 (69)
13 cd06407 PB1_NLP A PB1 domain i 44.1 62 0.0013 21.8 4.5 45 43-91 9-65 (82)
14 cd06398 PB1_Joka2 The PB1 doma 42.6 53 0.0012 22.6 4.1 52 43-94 9-73 (91)
15 PF02209 VHP: Villin headpiece 42.2 11 0.00024 22.3 0.5 18 54-71 1-18 (36)
16 cd01406 SIR2-like Sir2-like: P 41.2 34 0.00074 26.1 3.2 36 33-76 1-36 (242)
17 smart00153 VHP Villin headpiec 40.3 14 0.0003 21.8 0.7 18 54-71 1-18 (36)
18 cd06396 PB1_NBR1 The PB1 domai 37.2 1.4E+02 0.003 20.5 5.4 52 42-96 8-68 (81)
19 PRK02797 4-alpha-L-fucosyltran 35.3 1.2E+02 0.0026 25.9 5.8 45 28-72 140-204 (322)
20 PF00564 PB1: PB1 domain; Int 33.5 1.2E+02 0.0025 19.1 4.4 48 43-95 10-69 (84)
21 PF07429 Glyco_transf_56: 4-al 33.2 1.2E+02 0.0027 26.2 5.6 45 28-72 179-243 (360)
22 PF02100 ODC_AZ: Ornithine dec 32.8 30 0.00065 24.5 1.6 48 44-92 23-74 (108)
23 COG4862 MecA Negative regulato 32.8 31 0.00067 28.1 1.9 27 56-82 37-63 (224)
24 PF07369 DUF1488: Protein of u 30.7 1.2E+02 0.0027 19.5 4.2 20 34-55 18-37 (83)
25 PF00651 BTB: BTB/POZ domain; 30.7 1.5E+02 0.0032 18.9 5.5 56 36-98 14-74 (111)
26 cd06080 MUM1_like Mutated mela 29.7 98 0.0021 21.0 3.7 42 31-72 28-74 (80)
27 PF08948 DUF1859: Domain of un 29.3 19 0.00041 26.7 0.1 28 31-61 86-123 (126)
28 PF12058 DUF3539: Protein of u 26.7 13 0.00027 26.4 -1.2 11 53-63 4-14 (88)
29 COG3338 Cah Carbonic anhydrase 24.6 2E+02 0.0043 23.9 5.1 53 8-69 110-168 (250)
30 cd01615 CIDE_N CIDE_N domain, 23.2 1E+02 0.0022 21.1 2.8 35 43-83 11-45 (78)
31 PRK09057 coproporphyrinogen II 23.1 2.4E+02 0.0052 23.4 5.5 48 33-88 55-102 (380)
32 TIGR03793 TOMM_pelo TOMM prope 22.3 1.5E+02 0.0033 19.9 3.5 27 55-81 14-44 (77)
33 cd06397 PB1_UP1 Uncharacterize 21.5 1.2E+02 0.0026 21.2 2.9 44 43-90 9-63 (82)
34 cd06536 CIDE_N_ICAD CIDE_N dom 20.7 1.3E+02 0.0029 20.7 3.0 36 43-83 11-47 (80)
35 TIGR03687 pupylate_cterm ubiqu 20.7 47 0.001 19.6 0.6 19 60-78 12-32 (33)
36 cd06399 PB1_P40 The PB1 domain 20.6 1.2E+02 0.0026 21.6 2.8 30 43-72 13-42 (92)
37 PF11876 DUF3396: Protein of u 20.1 1.1E+02 0.0024 23.8 2.8 32 44-75 23-56 (208)
No 1
>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=1.1e-32 Score=194.07 Aligned_cols=67 Identities=57% Similarity=0.987 Sum_probs=64.7
Q ss_pred cCCCCCceEEEEEccCCcceEEEEeccccCcHHHHHHHHHHHHhcCCCCCCceEEcCcHHHHHHHHHHH
Q 033749 27 IRDVPKGCLAIKVGQGEEQQRVVVPVIYFNHPLFMQLLKEAEEEYGFDQKGTITIPCHVEEFRYVQGMI 95 (112)
Q Consensus 27 ~~~vpkG~~aVYVG~g~e~~RFvVPv~yLnhP~F~~LL~~AeEEfG~~~~G~L~IPC~~~~Fe~vl~~l 95 (112)
..++|+|||||||| ++++||+||++|||||+|++||++|||||||+++|+|+|||+++.|++++|+.
T Consensus 33 ~~~vp~G~~~VyVG--~~~~Rfvvp~~~L~hp~f~~LL~~aeeEfG~~~~G~l~iPC~~~~Fe~~l~~l 99 (100)
T PF02519_consen 33 ESDVPKGHFAVYVG--EERRRFVVPVSYLNHPLFQELLEQAEEEFGFDQDGPLTIPCDVVLFEHLLWLL 99 (100)
T ss_pred cCCCCCCeEEEEeC--ccceEEEechHHcCchhHHHHHHHHhhhcCcCCCCcEEeeCCHHHHHHHHHHh
Confidence 48899999999998 78999999999999999999999999999999999999999999999999985
No 2
>PLN03090 auxin-responsive family protein; Provisional
Probab=99.98 E-value=1.4e-32 Score=196.33 Aligned_cols=69 Identities=45% Similarity=0.829 Sum_probs=65.8
Q ss_pred cccCCCCCceEEEEEccCCcceEEEEeccccCcHHHHHHHHHHHHhcCCCCCCceEEcCcHHHHHHHHHHH
Q 033749 25 QVIRDVPKGCLAIKVGQGEEQQRVVVPVIYFNHPLFMQLLKEAEEEYGFDQKGTITIPCHVEEFRYVQGMI 95 (112)
Q Consensus 25 ~~~~~vpkG~~aVYVG~g~e~~RFvVPv~yLnhP~F~~LL~~AeEEfG~~~~G~L~IPC~~~~Fe~vl~~l 95 (112)
..+.+||||||||||| ++++||+||++|||||+|++||++|||||||+++|+|+|||+++.|++++||.
T Consensus 35 ~~~~~vpkG~~aVyVG--~~~~RfvVp~~~L~hP~F~~LL~~aeeEfGf~~~G~L~IPC~~~~Fe~ll~~i 103 (104)
T PLN03090 35 GLPLDVPKGHFPVYVG--ENRSRYIVPISFLTHPEFQSLLQQAEEEFGFDHDMGLTIPCEEVVFRSLTSMI 103 (104)
T ss_pred cCCCCCCCCcEEEEEC--CCCEEEEEEHHHcCCHHHHHHHHHHHHHhCCCCCCcEEEeCCHHHHHHHHHHh
Confidence 4677899999999998 67899999999999999999999999999999999999999999999999986
No 3
>PLN03219 uncharacterized protein; Provisional
Probab=99.97 E-value=5e-32 Score=194.68 Aligned_cols=72 Identities=44% Similarity=0.740 Sum_probs=66.3
Q ss_pred ccccCCCCCceEEEEEccCCcceEEEEeccccCcHHHHHHHHHHHHhcCCCC-CCceEEcCcHHHHHHHHHHH
Q 033749 24 KQVIRDVPKGCLAIKVGQGEEQQRVVVPVIYFNHPLFMQLLKEAEEEYGFDQ-KGTITIPCHVEEFRYVQGMI 95 (112)
Q Consensus 24 ~~~~~~vpkG~~aVYVG~g~e~~RFvVPv~yLnhP~F~~LL~~AeEEfG~~~-~G~L~IPC~~~~Fe~vl~~l 95 (112)
...+.+|||||+|||||+++|++||+||++|||||+|++||++|||||||++ +|+|+|||+++.|++|+...
T Consensus 33 ~~~~~~vpkGh~aVYVG~~~E~kRFvVPi~yL~hP~F~~LL~~AeEEfGf~~~~G~L~IPCd~~~F~~ll~~~ 105 (108)
T PLN03219 33 TTTSGLVPKGHVAVYVGEQMEKKRFVVPISYLNHPLFREFLNRAEEECGFHHSMGGLTIPCREESFLHLITSH 105 (108)
T ss_pred CCCCCCCCCCeEEEEECCCCCceEEEEEHHHcCChHHHHHHHHHHHHhCCCCCCCCEEEeCCHHHHHHHHHhh
Confidence 4556789999999999965679999999999999999999999999999997 69999999999999999764
No 4
>PLN03220 uncharacterized protein; Provisional
Probab=99.97 E-value=8.7e-32 Score=192.64 Aligned_cols=72 Identities=42% Similarity=0.757 Sum_probs=65.0
Q ss_pred CccccCCCCCceEEEEEccC--CcceEEEEeccccCcHHHHHHHHHHHHhcCCCC-CCceEEcCcHHHHHHHHHH
Q 033749 23 KKQVIRDVPKGCLAIKVGQG--EEQQRVVVPVIYFNHPLFMQLLKEAEEEYGFDQ-KGTITIPCHVEEFRYVQGM 94 (112)
Q Consensus 23 ~~~~~~~vpkG~~aVYVG~g--~e~~RFvVPv~yLnhP~F~~LL~~AeEEfG~~~-~G~L~IPC~~~~Fe~vl~~ 94 (112)
+.+.+.+|||||||||||++ .+++||+||++|||||+|++||++|||||||++ +|+|+|||+++.|++++.-
T Consensus 28 ~~~~~~~VPkGh~aVyVGe~~~~e~kRFVVPv~yL~hP~F~~LL~~AeEEfGf~~~~G~L~IPCd~~~F~~ll~s 102 (105)
T PLN03220 28 SSSSSDHVPKGHVAVYVGEQIEMEKKRFVVPISFLNHPSFKEFLSRAEEEFGFNHPMGGLTIPCREEVFLDLIAS 102 (105)
T ss_pred cccccCCCCCCeEEEEECCCCCccceEEEEEHHHcCChHHHHHHHHHHHHhCCCCCCCCEEeeCCHHHHHHHHHh
Confidence 34567789999999999953 258999999999999999999999999999998 6999999999999999864
No 5
>PRK02899 adaptor protein; Provisional
Probab=87.78 E-value=0.5 Score=36.67 Aligned_cols=24 Identities=38% Similarity=0.830 Sum_probs=21.1
Q ss_pred HHHHHHHHHHHHhcCCCCCCceEE
Q 033749 58 PLFMQLLKEAEEEYGFDQKGTITI 81 (112)
Q Consensus 58 P~F~~LL~~AeEEfG~~~~G~L~I 81 (112)
-+|.++|++|..|+||..+|||+|
T Consensus 39 ~lF~~mm~Ea~~e~~F~~~~pl~~ 62 (197)
T PRK02899 39 QLFRDMMQEANKELGFEADGPIAV 62 (197)
T ss_pred HHHHHHHHHhhhccCcccCCeEEE
Confidence 467777999999999999999986
No 6
>PRK02315 adaptor protein; Provisional
Probab=85.03 E-value=0.71 Score=36.54 Aligned_cols=24 Identities=25% Similarity=0.574 Sum_probs=22.3
Q ss_pred HHHHHHHHHHHHhcCCCCCCceEE
Q 033749 58 PLFMQLLKEAEEEYGFDQKGTITI 81 (112)
Q Consensus 58 P~F~~LL~~AeEEfG~~~~G~L~I 81 (112)
-+|.++|++|..|+||..+|||+|
T Consensus 39 ~fF~~mm~Ea~~e~~F~~~~pl~~ 62 (233)
T PRK02315 39 EFFYSMMDEVDEEDDFADEGPLWF 62 (233)
T ss_pred HHHHHHHHHhccccCcccCCeEEE
Confidence 579999999999999999999987
No 7
>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=84.61 E-value=1.5 Score=28.90 Aligned_cols=59 Identities=19% Similarity=0.245 Sum_probs=43.7
Q ss_pred EEEEccCCcceEEEEeccccC-cH--HHHHHHHHHHHhcCCCCCCceEEcCcHHHHHHHHHHHhcc
Q 033749 36 AIKVGQGEEQQRVVVPVIYFN-HP--LFMQLLKEAEEEYGFDQKGTITIPCHVEEFRYVQGMIDRE 98 (112)
Q Consensus 36 aVYVG~g~e~~RFvVPv~yLn-hP--~F~~LL~~AeEEfG~~~~G~L~IPC~~~~Fe~vl~~l~~~ 98 (112)
.+-|| .++|.++.+.|. .| .|..|++.......-..+|.+-|-++...|++||......
T Consensus 2 ~lNVG----G~~f~~~~~tL~~~~~s~l~~~~~~~~~~~~~~~~~~~fiDRdp~~F~~IL~ylr~~ 63 (94)
T PF02214_consen 2 RLNVG----GTIFETSRSTLTRYPDSLLARLFSGERSDDYDDDDGEYFIDRDPELFEYILNYLRTG 63 (94)
T ss_dssp EEEET----TEEEEEEHHHHHTSTTSTTTSHHHTGHGGGEETTTTEEEESS-HHHHHHHHHHHHHT
T ss_pred EEEEC----CEEEEEcHHHHhhCCCChhhhHHhhccccccCCccceEEeccChhhhhHHHHHHhhc
Confidence 45677 389999999887 43 7888888652222224479999999999999999888773
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=78.26 E-value=0.68 Score=35.71 Aligned_cols=25 Identities=40% Similarity=0.814 Sum_probs=0.0
Q ss_pred cHHHHHHHHHHHHhcCCCCCCceEE
Q 033749 57 HPLFMQLLKEAEEEYGFDQKGTITI 81 (112)
Q Consensus 57 hP~F~~LL~~AeEEfG~~~~G~L~I 81 (112)
+-.|.++|++|.+|+||..+|||+|
T Consensus 38 e~fF~~ileea~~e~~F~~~~~l~~ 62 (220)
T PF05389_consen 38 EEFFYSILEEADEEHGFENDGPLTF 62 (220)
T ss_dssp -------------------------
T ss_pred HHHHHHHHHHhccccCcccCCeEEE
Confidence 4579999999999999999999886
No 9
>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=74.43 E-value=9.7 Score=24.26 Aligned_cols=49 Identities=20% Similarity=0.403 Sum_probs=37.0
Q ss_pred CcceEEEEeccccCcHHHHHHHHHHHHhcCCC----------CCC-ceEEcCcHHHHHHHHHHHh
Q 033749 43 EEQQRVVVPVIYFNHPLFMQLLKEAEEEYGFD----------QKG-TITIPCHVEEFRYVQGMID 96 (112)
Q Consensus 43 ~e~~RFvVPv~yLnhP~F~~LL~~AeEEfG~~----------~~G-~L~IPC~~~~Fe~vl~~l~ 96 (112)
.+.+||.+|- ...|.+|..+..+.|+.. .+| .++|.++. .++.++.+..
T Consensus 10 ~~~~~~~~~~----~~s~~dL~~~i~~~~~~~~~~~~l~Y~Dedgd~v~l~sd~-Dl~~a~~~~~ 69 (81)
T smart00666 10 GETRRLSVPR----DISFEDLRSKVAKRFGLDNQSFTLKYQDEDGDLVSLTSDE-DLEEAIEEYD 69 (81)
T ss_pred CEEEEEEECC----CCCHHHHHHHHHHHhCCCCCCeEEEEECCCCCEEEecCHH-HHHHHHHHHH
Confidence 6889999986 778999999999988874 244 78888866 4555555554
No 10
>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=69.02 E-value=16 Score=22.98 Aligned_cols=50 Identities=26% Similarity=0.377 Sum_probs=37.1
Q ss_pred CcceEEEEeccccCcHHHHHHHHHHHHhcCCC----------CCC-ceEEcCcHHHHHHHHHHHh
Q 033749 43 EEQQRVVVPVIYFNHPLFMQLLKEAEEEYGFD----------QKG-TITIPCHVEEFRYVQGMID 96 (112)
Q Consensus 43 ~e~~RFvVPv~yLnhP~F~~LL~~AeEEfG~~----------~~G-~L~IPC~~~~Fe~vl~~l~ 96 (112)
.+.+||.+|. ..+.|.+|.++.++.|+.. .+| .++|.++ +.|+.++.+..
T Consensus 9 ~~~~~~~~~~---~~~s~~~L~~~i~~~~~~~~~~~~l~y~D~e~d~v~l~sd-~Dl~~a~~~~~ 69 (81)
T cd05992 9 GEIRRFVVVS---RSISFEDLRSKIAEKFGLDAVSFKLKYPDEDGDLVTISSD-EDLEEAIEEAR 69 (81)
T ss_pred CCCEEEEEec---CCCCHHHHHHHHHHHhCCCCCcEEEEeeCCCCCEEEeCCH-HHHHHHHHHHh
Confidence 5789999998 8889999999999988874 244 4566665 56666666654
No 11
>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=50.09 E-value=41 Score=23.51 Aligned_cols=47 Identities=21% Similarity=0.193 Sum_probs=34.3
Q ss_pred EEEEccCCcceEEEEeccccCcHHHHHHHHHHHHhcCCCC-------------CCceEEcCcHHHH
Q 033749 36 AIKVGQGEEQQRVVVPVIYFNHPLFMQLLKEAEEEYGFDQ-------------KGTITIPCHVEEF 88 (112)
Q Consensus 36 aVYVG~g~e~~RFvVPv~yLnhP~F~~LL~~AeEEfG~~~-------------~G~L~IPC~~~~F 88 (112)
.=||| .+.+-..|+-+ ..|.+|..+..+.++... ++-+.|.||.+.-
T Consensus 17 l~Y~G--G~tr~i~V~r~----~s~~el~~kl~~~~~~~~~~~lky~Lp~edld~Lisv~~DeDl~ 76 (97)
T cd06410 17 LRYVG--GETRIVSVDRS----ISFKELVSKLSELFGAGVVVTLKYQLPDEDLDALISVSNDEDLK 76 (97)
T ss_pred EEEcC--CceEEEEEcCC----CCHHHHHHHHHHHhCCCCceEEEEEcCCCCcceeEEecCcHHHH
Confidence 46998 67788888877 367788888888776554 4567888888543
No 12
>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=45.55 E-value=18 Score=24.11 Aligned_cols=24 Identities=33% Similarity=0.589 Sum_probs=19.2
Q ss_pred ceEEEEeccccCcHHHHHHHHHHHHhcCCC
Q 033749 45 QQRVVVPVIYFNHPLFMQLLKEAEEEYGFD 74 (112)
Q Consensus 45 ~~RFvVPv~yLnhP~F~~LL~~AeEEfG~~ 74 (112)
.+=..+| -.+++||+.|++.||+.
T Consensus 19 GKvi~lP------~SleeLl~ia~~kfg~~ 42 (69)
T PF11834_consen 19 GKVIWLP------DSLEELLKIASEKFGFS 42 (69)
T ss_pred CEEEEcC------ccHHHHHHHHHHHhCCC
Confidence 4555666 36999999999999985
No 13
>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=44.09 E-value=62 Score=21.79 Aligned_cols=45 Identities=20% Similarity=0.410 Sum_probs=33.4
Q ss_pred CcceEEEEeccccCcHHHHHHHHHHHHhcCCCC------------CCceEEcCcHHHHHHH
Q 033749 43 EEQQRVVVPVIYFNHPLFMQLLKEAEEEYGFDQ------------KGTITIPCHVEEFRYV 91 (112)
Q Consensus 43 ~e~~RFvVPv~yLnhP~F~~LL~~AeEEfG~~~------------~G~L~IPC~~~~Fe~v 91 (112)
++..||.+|.+- .|++|.++-.+-|+... .-.++|.|+.+.=|-+
T Consensus 9 ~d~~r~~l~~~~----~~~~L~~~i~~r~~~~~~~~f~LkY~Ddegd~v~ltsd~DL~eai 65 (82)
T cd06407 9 EEKIRFRLPPSW----GFTELKQEIAKRFKLDDMSAFDLKYLDDDEEWVLLTCDADLEECI 65 (82)
T ss_pred CeEEEEEcCCCC----CHHHHHHHHHHHhCCCCCCeeEEEEECCCCCeEEeecHHHHHHHH
Confidence 688999988754 68888888888776542 2368889998765544
No 14
>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=42.60 E-value=53 Score=22.61 Aligned_cols=52 Identities=17% Similarity=0.145 Sum_probs=37.5
Q ss_pred CcceEEEEeccc-cCcHHHHHHHHHHHHhcCCCC-----------CC-ceEEcCcHHHHHHHHHH
Q 033749 43 EEQQRVVVPVIY-FNHPLFMQLLKEAEEEYGFDQ-----------KG-TITIPCHVEEFRYVQGM 94 (112)
Q Consensus 43 ~e~~RFvVPv~y-LnhP~F~~LL~~AeEEfG~~~-----------~G-~L~IPC~~~~Fe~vl~~ 94 (112)
++.+||-+|.+- -....|..|.++-++-|.... +| .++|.|+.+.-+-+-.+
T Consensus 9 ~~~rRf~l~~~~~~~d~~~~~L~~kI~~~f~l~~~~~~~l~Y~Dedgd~V~l~~D~DL~~a~~~~ 73 (91)
T cd06398 9 GTLRRFTFPVAENQLDLNMDGLREKVEELFSLSPDADLSLTYTDEDGDVVTLVDDNDLTDAIQYF 73 (91)
T ss_pred CEEEEEEeccccccCCCCHHHHHHHHHHHhCCCCCCcEEEEEECCCCCEEEEccHHHHHHHHHHH
Confidence 789999999741 114478889888888776542 34 58899998877766554
No 15
>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=42.18 E-value=11 Score=22.28 Aligned_cols=18 Identities=22% Similarity=0.512 Sum_probs=14.4
Q ss_pred ccCcHHHHHHHHHHHHhc
Q 033749 54 YFNHPLFMQLLKEAEEEY 71 (112)
Q Consensus 54 yLnhP~F~~LL~~AeEEf 71 (112)
||+.-.|++++.++.+||
T Consensus 1 YLsd~dF~~vFgm~~~eF 18 (36)
T PF02209_consen 1 YLSDEDFEKVFGMSREEF 18 (36)
T ss_dssp GS-HHHHHHHHSS-HHHH
T ss_pred CcCHHHHHHHHCCCHHHH
Confidence 788899999999999987
No 16
>cd01406 SIR2-like Sir2-like: Prokaryotic group of uncharacterized Sir2-like proteins which lack certain key catalytic residues and conserved zinc binding cysteines; and are members of the SIR2 superfamily of proteins, silent information regulator 2 (Sir2) enzymes which catalyze NAD+-dependent protein/histone deacetylation.
Probab=41.18 E-value=34 Score=26.13 Aligned_cols=36 Identities=31% Similarity=0.435 Sum_probs=28.9
Q ss_pred ceEEEEEccCCcceEEEEeccccCcHHHHHHHHHHHHhcCCCCC
Q 033749 33 GCLAIKVGQGEEQQRVVVPVIYFNHPLFMQLLKEAEEEYGFDQK 76 (112)
Q Consensus 33 G~~aVYVG~g~e~~RFvVPv~yLnhP~F~~LL~~AeEEfG~~~~ 76 (112)
|.+++++|.|-++. .+-|...+|++...++++.+.+
T Consensus 1 g~lvlFiGAG~S~~--------~glP~W~~Ll~~l~~~~~~~~~ 36 (242)
T cd01406 1 GRVVIFVGAGVSVS--------SGLPDWKTLLDEIASELGLEID 36 (242)
T ss_pred CCEEEEecCccccc--------cCCCChHHHHHHHHHHcCCccc
Confidence 67899999774443 5789999999999999987654
No 17
>smart00153 VHP Villin headpiece domain.
Probab=40.29 E-value=14 Score=21.76 Aligned_cols=18 Identities=22% Similarity=0.506 Sum_probs=15.9
Q ss_pred ccCcHHHHHHHHHHHHhc
Q 033749 54 YFNHPLFMQLLKEAEEEY 71 (112)
Q Consensus 54 yLnhP~F~~LL~~AeEEf 71 (112)
||+.-.|++++.++.+||
T Consensus 1 yLsdeeF~~vfgmsr~eF 18 (36)
T smart00153 1 YLSDEDFEEVFGMTREEF 18 (36)
T ss_pred CCCHHHHHHHHCCCHHHH
Confidence 788889999999999887
No 18
>cd06396 PB1_NBR1 The PB1 domain is an essential part of NBR1 protein, next to BRCA1, a scaffold protein mediating specific protein-protein interaction with both titin protein kinase and with another scaffold protein p62. 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. The NBR1 protein contains a type I PB1 domain.
Probab=37.22 E-value=1.4e+02 Score=20.54 Aligned_cols=52 Identities=10% Similarity=0.127 Sum_probs=36.4
Q ss_pred CCcceEEEEeccccCcHHHHHHHHHHHHhcCCC--------CC-CceEEcCcHHHHHHHHHHHh
Q 033749 42 GEEQQRVVVPVIYFNHPLFMQLLKEAEEEYGFD--------QK-GTITIPCHVEEFRYVQGMID 96 (112)
Q Consensus 42 g~e~~RFvVPv~yLnhP~F~~LL~~AeEEfG~~--------~~-G~L~IPC~~~~Fe~vl~~l~ 96 (112)
+.+..||.+|-+ ..+.|.+|.++-+.-|++. .+ -+++|.|+++.=| .+.+..
T Consensus 8 ~~d~~rf~~~~~--~~~~~~~L~~ev~~rf~l~~f~lKYlDde~e~v~lssd~eLeE-~~rl~~ 68 (81)
T cd06396 8 NGESQSFLVSDS--ENTTWASVEAMVKVSFGLNDIQIKYVDEENEEVSVNSQGEYEE-ALKSAV 68 (81)
T ss_pred CCeEEEEEecCC--CCCCHHHHHHHHHHHhCCCcceeEEEcCCCCEEEEEchhhHHH-HHHHHH
Confidence 368899998752 2456899999988888854 23 4799999877544 444443
No 19
>PRK02797 4-alpha-L-fucosyltransferase; Provisional
Probab=35.33 E-value=1.2e+02 Score=25.89 Aligned_cols=45 Identities=20% Similarity=0.396 Sum_probs=32.7
Q ss_pred CCCCCceEEEEEccC------------------CcceEEEEeccc--cCcHHHHHHHHHHHHhcC
Q 033749 28 RDVPKGCLAIKVGQG------------------EEQQRVVVPVIY--FNHPLFMQLLKEAEEEYG 72 (112)
Q Consensus 28 ~~vpkG~~aVYVG~g------------------~e~~RFvVPv~y--LnhP~F~~LL~~AeEEfG 72 (112)
...+++-+.+.||.+ .+.-|++||++| =|.--.++..+.+.+-||
T Consensus 140 ~~~~~~~~tIlvGNSgd~SN~Hie~L~~l~~~~~~~v~ii~PlsYp~gn~~Yi~~V~~~~~~lF~ 204 (322)
T PRK02797 140 DRQRAGKMTILVGNSGDRSNRHIEALRALHQQFGDNVKIIVPMGYPANNQAYIEEVRQAGLALFG 204 (322)
T ss_pred cccCCCceEEEEeCCCCCcccHHHHHHHHHHHhCCCeEEEEECCcCCCCHHHHHHHHHHHHHhcC
Confidence 345678899999932 233599999999 565566667777777776
No 20
>PF00564 PB1: PB1 domain; InterPro: IPR000270 The Phox and Bem1p domain, is 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.; GO: 0005515 protein binding; PDB: 1IPG_A 1IP9_A 2KFK_A 1WMH_A 1VD2_A 1WI0_A 1OEY_C 1PQS_A 1Q1O_A 1TZ1_A ....
Probab=33.52 E-value=1.2e+02 Score=19.11 Aligned_cols=48 Identities=19% Similarity=0.332 Sum_probs=31.6
Q ss_pred CcceE-EEEeccccCcHHHHHHHHHHHHhcCCC----------CCC-ceEEcCcHHHHHHHHHHH
Q 033749 43 EEQQR-VVVPVIYFNHPLFMQLLKEAEEEYGFD----------QKG-TITIPCHVEEFRYVQGMI 95 (112)
Q Consensus 43 ~e~~R-FvVPv~yLnhP~F~~LL~~AeEEfG~~----------~~G-~L~IPC~~~~Fe~vl~~l 95 (112)
++.+| +.+| +.+.|.+|.++.++.|+.. .+| .++|.++.++ +.++.+.
T Consensus 10 ~~~~~~~~~~----~~~s~~~L~~~i~~~~~~~~~~~~l~Y~D~dgD~V~i~sd~Dl-~~a~~~~ 69 (84)
T PF00564_consen 10 GDIRRIISLP----SDVSFDDLRSKIREKFGLLDEDFQLKYKDEDGDLVTISSDEDL-QEAIEQA 69 (84)
T ss_dssp TEEEEEEEEC----STSHHHHHHHHHHHHHTTSTSSEEEEEEETTSSEEEESSHHHH-HHHHHHH
T ss_pred CeeEEEEEcC----CCCCHHHHHHHHHHHhCCCCccEEEEeeCCCCCEEEeCCHHHH-HHHHHHH
Confidence 45555 4444 5579999999999999883 355 5777777654 4444443
No 21
>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=33.21 E-value=1.2e+02 Score=26.18 Aligned_cols=45 Identities=29% Similarity=0.555 Sum_probs=34.6
Q ss_pred CCCCCceEEEEEccC------------------CcceEEEEecccc--CcHHHHHHHHHHHHhcC
Q 033749 28 RDVPKGCLAIKVGQG------------------EEQQRVVVPVIYF--NHPLFMQLLKEAEEEYG 72 (112)
Q Consensus 28 ~~vpkG~~aVYVG~g------------------~e~~RFvVPv~yL--nhP~F~~LL~~AeEEfG 72 (112)
...+++-..+.||.+ .+..|++||++|= |.--.+++.+.+++-||
T Consensus 179 ~~~~~~~ltILvGNSgd~sNnHieaL~~L~~~~~~~~kIivPLsYg~~n~~Yi~~V~~~~~~lF~ 243 (360)
T PF07429_consen 179 NKKNKGKLTILVGNSGDPSNNHIEALEALKQQFGDDVKIIVPLSYGANNQAYIQQVIQAGKELFG 243 (360)
T ss_pred ccCCCCceEEEEcCCCCCCccHHHHHHHHHHhcCCCeEEEEECCCCCchHHHHHHHHHHHHHhcC
Confidence 345678999999932 3458999999996 45677888888888887
No 22
>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=32.83 E-value=30 Score=24.48 Aligned_cols=48 Identities=21% Similarity=0.205 Sum_probs=24.1
Q ss_pred cceEEE-Eeccc---cCcHHHHHHHHHHHHhcCCCCCCceEEcCcHHHHHHHH
Q 033749 44 EQQRVV-VPVIY---FNHPLFMQLLKEAEEEYGFDQKGTITIPCHVEEFRYVQ 92 (112)
Q Consensus 44 e~~RFv-VPv~y---LnhP~F~~LL~~AeEEfG~~~~G~L~IPC~~~~Fe~vl 92 (112)
++.=|| +|-.. .+-..|.+||+.|||.++.++ -.|.|+=+-.....++
T Consensus 23 ~~~L~V~ip~~~~~~~~K~~lvaLLElAee~L~c~~-vvic~~k~~~d~~~Ll 74 (108)
T PF02100_consen 23 ERTLFVFIPSSALGQGSKESLVALLELAEEKLGCSH-VVICLDKNRPDRASLL 74 (108)
T ss_dssp TTEEEEE-SS---SS--SHHHHHHHHHHHHHH-----EEEEE---SS-HHHHH
T ss_pred CCEEEEEECCcccccccHHHHHHHHHHhcCcCCCCE-EEEEEECCchhHHHhh
Confidence 455565 45433 455789999999999998665 4566665544444433
No 23
>COG4862 MecA Negative regulator of genetic competence, sporulation and motility [Posttranslational modification, protein turnover, chaperones / Signal transduction mechanisms / Cell motility and secretion]
Probab=32.81 E-value=31 Score=28.08 Aligned_cols=27 Identities=26% Similarity=0.494 Sum_probs=24.1
Q ss_pred CcHHHHHHHHHHHHhcCCCCCCceEEc
Q 033749 56 NHPLFMQLLKEAEEEYGFDQKGTITIP 82 (112)
Q Consensus 56 nhP~F~~LL~~AeEEfG~~~~G~L~IP 82 (112)
.+-+|.++++.+..|-+|.-+|||+|-
T Consensus 37 ~EE~F~~mMdEl~~ee~F~~~GpL~iq 63 (224)
T COG4862 37 TEELFYEMMDELNLEEDFKDEGPLWIQ 63 (224)
T ss_pred HHHHHHHHHHhcCCccccccCCceEEE
Confidence 467899999999999999999999984
No 24
>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=30.69 E-value=1.2e+02 Score=19.55 Aligned_cols=20 Identities=15% Similarity=0.132 Sum_probs=17.0
Q ss_pred eEEEEEccCCcceEEEEecccc
Q 033749 34 CLAIKVGQGEEQQRVVVPVIYF 55 (112)
Q Consensus 34 ~~aVYVG~g~e~~RFvVPv~yL 55 (112)
.|+++|+ ...-++.|+.+-|
T Consensus 18 ~F~a~~~--g~~i~C~Is~~aL 37 (83)
T PF07369_consen 18 RFPAQVD--GMQIRCAISAEAL 37 (83)
T ss_dssp EEEEEET--TEEEEEEEEHHHH
T ss_pred EEEEEEC--CEEEEEEEeHHHH
Confidence 5888887 6789999999887
No 25
>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=30.67 E-value=1.5e+02 Score=18.93 Aligned_cols=56 Identities=21% Similarity=0.391 Sum_probs=38.8
Q ss_pred EEEEccCCcceEEEEecccc--CcHHHHHHHHHHHHhcCCCCCC--ceEEc-CcHHHHHHHHHHHhcc
Q 033749 36 AIKVGQGEEQQRVVVPVIYF--NHPLFMQLLKEAEEEYGFDQKG--TITIP-CHVEEFRYVQGMIDRE 98 (112)
Q Consensus 36 aVYVG~g~e~~RFvVPv~yL--nhP~F~~LL~~AeEEfG~~~~G--~L~IP-C~~~~Fe~vl~~l~~~ 98 (112)
.+.|+ +.++|-+.-..| ..|.|+.+++.. +....+ .|.++ ++...|+.++......
T Consensus 14 ~i~v~---d~~~~~vhk~iL~~~S~~F~~~~~~~----~~~~~~~~~i~~~~~~~~~~~~~l~~~Y~~ 74 (111)
T PF00651_consen 14 TIRVG---DGKTFYVHKNILAARSPYFRNLFEGS----KFKESTVPEISLPDVSPEAFEAFLEYMYTG 74 (111)
T ss_dssp EEEET---TTEEEEE-HHHHHHHBHHHHHHHTTT----TSTTSSEEEEEETTSCHHHHHHHHHHHHHS
T ss_pred EEEEC---CCEEEeechhhhhccchhhhhccccc----ccccccccccccccccccccccccccccCC
Confidence 45554 268888888876 579999999987 122334 35545 8899999988877544
No 26
>cd06080 MUM1_like Mutated melanoma-associated antigen 1 (MUM-1) is a melanoma-associated antigen (MAA). MUM-1 belongs to the mutated or aberrantly expressed type of MAAs, along with antigens such as CDK4, beta-catenin, gp100-in4, p15, and N-acetylglucosaminyltransferase V. It is highly expressed in several types of human cancers. The PWWP domain, named for a conserved Pro-Trp-Trp-Pro motif, is a small domain consisting of 100-150 amino acids. The PWWP domain is found in numerous proteins that are involved in cell division, growth and differentiation. Most PWWP-domain proteins seem to be nuclear, often DNA-binding, proteins that function as transcription factors regulating a variety of developmental processes.
Probab=29.73 E-value=98 Score=21.03 Aligned_cols=42 Identities=19% Similarity=0.251 Sum_probs=34.4
Q ss_pred CCceEEEEEccC--CcceEEEEeccccCcHHH---HHHHHHHHHhcC
Q 033749 31 PKGCLAIKVGQG--EEQQRVVVPVIYFNHPLF---MQLLKEAEEEYG 72 (112)
Q Consensus 31 pkG~~aVYVG~g--~e~~RFvVPv~yLnhP~F---~~LL~~AeEEfG 72 (112)
++-+...+.|++ ....++-+...|+.++.+ |.|+++|.|.|.
T Consensus 28 ~~k~~V~FfG~~~~~a~~~~~~l~p~~~~~~~~ek~~~~~k~ke~~~ 74 (80)
T cd06080 28 KQKARVNFIGDNMQSEKKGIRVVKRWLKHFDCTEKQKLTNKAKESYE 74 (80)
T ss_pred CCEEEEEEeCCCCceeccchhhcccccccHHHHHHHHHHHHHHHHHH
Confidence 566778888855 345788888999999999 589999999875
No 27
>PF08948 DUF1859: Domain of unknown function (DUF1859); InterPro: IPR015043 This entry is represented by Bacteriophage PRD1, P5. This protein has no known function though it is sometimes found in the N terminus of bacteriophage spike proteins []. ; PDB: 1W8X_N.
Probab=29.34 E-value=19 Score=26.71 Aligned_cols=28 Identities=21% Similarity=0.520 Sum_probs=8.4
Q ss_pred CCceEEEEEccCCcceEEE----------EeccccCcHHHH
Q 033749 31 PKGCLAIKVGQGEEQQRVV----------VPVIYFNHPLFM 61 (112)
Q Consensus 31 pkG~~aVYVG~g~e~~RFv----------VPv~yLnhP~F~ 61 (112)
.+||+|+.| ..+.+|+ +|+-|||.|+-|
T Consensus 86 ~QGYfPlL~---~~~~KFv~~~~~~GKks~P~~FlNF~IA~ 123 (126)
T PF08948_consen 86 KQGYFPLLV---PGRAKFVVRHTGSGKKSVPMFFLNFTIAQ 123 (126)
T ss_dssp --SS--EEE-----SSSSEEEEEEEESS----S--------
T ss_pred Ccccceeec---cchhhhhhhhccCCCcceeeEEEeceeee
Confidence 579999999 3455555 678888887644
No 28
>PF12058 DUF3539: Protein of unknown function (DUF3539); InterPro: IPR021926 This family of proteins is functionally uncharacterised. This protein is found in bacteria. Proteins in this family are about 90 amino acids in length. This protein has a conserved NHP sequence motif. ; PDB: 3N5B_B 2XKO_C 2XG8_F.
Probab=26.68 E-value=13 Score=26.37 Aligned_cols=11 Identities=55% Similarity=0.945 Sum_probs=8.0
Q ss_pred cccCcHHHHHH
Q 033749 53 IYFNHPLFMQL 63 (112)
Q Consensus 53 ~yLnhP~F~~L 63 (112)
.|||||.|.-|
T Consensus 4 ~YLNHPtFGlL 14 (88)
T PF12058_consen 4 TYLNHPTFGLL 14 (88)
T ss_dssp -EEEETTTEEE
T ss_pred ccccCCccchh
Confidence 58999988655
No 29
>COG3338 Cah Carbonic anhydrase [Inorganic ion transport and metabolism]
Probab=24.56 E-value=2e+02 Score=23.91 Aligned_cols=53 Identities=25% Similarity=0.272 Sum_probs=30.9
Q ss_pred ceeeeeecCCcccCCCccccCC------CCCceEEEEEccCCcceEEEEeccccCcHHHHHHHHHHHH
Q 033749 8 LRHFHLHLPHLHHHGKKQVIRD------VPKGCLAIKVGQGEEQQRVVVPVIYFNHPLFMQLLKEAEE 69 (112)
Q Consensus 8 ~~~~~~h~~~~h~~~~~~~~~~------vpkG~~aVYVG~g~e~~RFvVPv~yLnhP~F~~LL~~AeE 69 (112)
+-.||||.|--|.=.+|+-+.. =++|-++|.-- .=..=-++|.|+.|.+..-+
T Consensus 110 L~qfHFH~PsEhlv~Gk~~pmEaHFVHkd~~g~L~Vl~v---------~~~~g~eN~~l~~l~~~fP~ 168 (250)
T COG3338 110 LVQFHFHAPSEHLVDGKSFPMEAHFVHKDAKGTLAVLAV---------LLQAGAENPELAPLWEGFPQ 168 (250)
T ss_pred EEEEEecCchHHhhccccccceeeeeecCCCCCEEEEEE---------eeecCCCCcchhHHHHhccc
Confidence 5679999999877666655443 24577777641 00111245666666665433
No 30
>cd01615 CIDE_N CIDE_N domain, found at the N-terminus of the CIDE (cell death-inducing DFF45-like effector) proteins, as well as CAD nuclease (caspase-activated DNase/DNA fragmentation factor, DFF40) and its inhibitor, ICAD(DFF45). These proteins are associated with the chromatin condensation and DNA fragmentation events of apoptosis; the CIDE_N domain is thought to regulate the activity of ICAD/DFF45, and the CAD/DFF40 and CIDE nucleases during apoptosis. The CIDE-N domain is also found in the FSP27/CIDE-C protein.
Probab=23.25 E-value=1e+02 Score=21.11 Aligned_cols=35 Identities=17% Similarity=0.227 Sum_probs=25.2
Q ss_pred CcceEEEEeccccCcHHHHHHHHHHHHhcCCCCCCceEEcC
Q 033749 43 EEQQRVVVPVIYFNHPLFMQLLKEAEEEYGFDQKGTITIPC 83 (112)
Q Consensus 43 ~e~~RFvVPv~yLnhP~F~~LL~~AeEEfG~~~~G~L~IPC 83 (112)
...+||=|=++ .+++|+.++.+-|... +.+++|=+
T Consensus 11 ~r~~k~GV~A~-----sL~eL~~K~~~~l~l~-~~~~~lvL 45 (78)
T cd01615 11 DRSRKKGVAAS-----SLEELLSKACEKLKLP-SAPVTLVL 45 (78)
T ss_pred CCCeeEEEEcC-----CHHHHHHHHHHHcCCC-CCCeEEEE
Confidence 44567766665 4689999999999987 35555554
No 31
>PRK09057 coproporphyrinogen III oxidase; Provisional
Probab=23.06 E-value=2.4e+02 Score=23.39 Aligned_cols=48 Identities=15% Similarity=0.130 Sum_probs=36.4
Q ss_pred ceEEEEEccCCcceEEEEeccccCcHHHHHHHHHHHHhcCCCCCCceEEcCcHHHH
Q 033749 33 GCLAIKVGQGEEQQRVVVPVIYFNHPLFMQLLKEAEEEYGFDQKGTITIPCHVEEF 88 (112)
Q Consensus 33 G~~aVYVG~g~e~~RFvVPv~yLnhP~F~~LL~~AeEEfG~~~~G~L~IPC~~~~F 88 (112)
..=.||+|+|. -++|+-..+++||+...+.|....+.-++|-|..+.+
T Consensus 55 ~i~tiy~GGGT--------Ps~l~~~~L~~ll~~i~~~f~~~~~~eit~E~~P~~i 102 (380)
T PRK09057 55 TLTSIFFGGGT--------PSLMQPETVAALLDAIARLWPVADDIEITLEANPTSV 102 (380)
T ss_pred CcCeEEeCCCc--------cccCCHHHHHHHHHHHHHhCCCCCCccEEEEECcCcC
Confidence 34488888552 2478888999999999999988776678887777443
No 32
>TIGR03793 TOMM_pelo TOMM propeptide domain. This model represents a domain that is conserved among a large number of putative thiazole/oxazole-modified microcins (TOMM). Oddly, most of this seqence region appears homologous to nitrile hydratase subunits. This family is expanded especially in Pelotomaculum thermopropionicum SI.
Probab=22.31 E-value=1.5e+02 Score=19.93 Aligned_cols=27 Identities=30% Similarity=0.421 Sum_probs=18.1
Q ss_pred cCcHHHHHHH----HHHHHhcCCCCCCceEE
Q 033749 55 FNHPLFMQLL----KEAEEEYGFDQKGTITI 81 (112)
Q Consensus 55 LnhP~F~~LL----~~AeEEfG~~~~G~L~I 81 (112)
-..|.|++.| +.+-+||||.-...+.|
T Consensus 14 w~Dp~Fr~~Ll~DPraaL~e~G~~~P~~~~i 44 (77)
T TIGR03793 14 WEDEAFKQALLTNPKEALEREGVQVPAEVEV 44 (77)
T ss_pred HcCHHHHHHHHHCHHHHHHHhCCCCCCceEE
Confidence 4578999966 44456889986555443
No 33
>cd06397 PB1_UP1 Uncharacterized protein 1. 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 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.
Probab=21.49 E-value=1.2e+02 Score=21.23 Aligned_cols=44 Identities=23% Similarity=0.401 Sum_probs=33.2
Q ss_pred CcceEEEEeccccCcHHHHHHHHHHHHhcCCC----------CCC-ceEEcCcHHHHHH
Q 033749 43 EEQQRVVVPVIYFNHPLFMQLLKEAEEEYGFD----------QKG-TITIPCHVEEFRY 90 (112)
Q Consensus 43 ~e~~RFvVPv~yLnhP~F~~LL~~AeEEfG~~----------~~G-~L~IPC~~~~Fe~ 90 (112)
.+.|||..|. -|.+.+|-++-+.-|-+. .|| .|||.=+.+..+.
T Consensus 9 g~~RRf~~~~----~pt~~~L~~kl~~Lf~lp~~~~~vtYiDeD~D~ITlssd~eL~d~ 63 (82)
T cd06397 9 GDTRRIVFPD----IPTWEALASKLENLYNLPEIKVGVTYIDNDNDEITLSSNKELQDF 63 (82)
T ss_pred CceEEEecCC----CccHHHHHHHHHHHhCCChhHeEEEEEcCCCCEEEecchHHHHHH
Confidence 5789999998 899999999998877654 343 5777766655443
No 34
>cd06536 CIDE_N_ICAD CIDE_N domain of ICAD. The CIDE_N (cell death-inducing DFF45-like effector, N-terminal) domain is found at the N-terminus of the CAD nuclease (caspase-activated DNase/DNA fragmentation factor, DFF40) and its inhibitor, ICAD (DFF45). These proteins are associated with the chromatin condensation and DNA fragmentation events of apoptosis; the CIDE_N domain is thought to regulate the activity of the CAD/DFF40 and ICAD/DFF45 during apoptosis. In normal cells, DFF exists in the nucleus as a heterodimer composed of CAD/DFF40 as a latent nuclease and its chaperone and inhibitor subunit ICAD/DFF45. Apoptotic activation of caspase-3 results in the cleavage of DFF45/ICAD and release of active DFF40/CAD nuclease.
Probab=20.71 E-value=1.3e+02 Score=20.70 Aligned_cols=36 Identities=28% Similarity=0.296 Sum_probs=25.8
Q ss_pred CcceEEEEeccccCcHHHHHHHHHHHHhcCCCCCC-ceEEcC
Q 033749 43 EEQQRVVVPVIYFNHPLFMQLLKEAEEEYGFDQKG-TITIPC 83 (112)
Q Consensus 43 ~e~~RFvVPv~yLnhP~F~~LL~~AeEEfG~~~~G-~L~IPC 83 (112)
...+||=|=++ .+++|+.++.+-|.....+ +++|=+
T Consensus 11 ~r~~k~GV~A~-----sL~eL~~K~~~~l~l~~~~~~~~lvL 47 (80)
T cd06536 11 SRQKQHGVAAS-----SLEELRIKACESLGFDSSSAPITLVL 47 (80)
T ss_pred CCCeeEeEEcC-----CHHHHHHHHHHHhCCCCCCCceEEEE
Confidence 44566666665 4689999999999987543 566655
No 35
>TIGR03687 pupylate_cterm ubiquitin-like protein Pup. Members of this protein family are Pup, a small protein whose ligation to target proteins steers them toward degradation. This protein family occurs in a number of bacteria, especially Actinobacteria such as Mycobacterium tuberculosis, that possess an archeal-type proteasome. All members of this protein family known during model construction end with the C-terminal motif [FY][VI]QKGG[QE]. Ligation is thought to occur between the C-terminal COOH of Pup and an epsilon-amino group of a Lys on the target protein. The N-terminal half of this protein is poorly conserved and not represented in the seed alignment.
Probab=20.65 E-value=47 Score=19.64 Aligned_cols=19 Identities=42% Similarity=0.672 Sum_probs=13.7
Q ss_pred HHHHHHHHHHhc--CCCCCCc
Q 033749 60 FMQLLKEAEEEY--GFDQKGT 78 (112)
Q Consensus 60 F~~LL~~AeEEf--G~~~~G~ 78 (112)
+..+|+..+|+| +|-|.|+
T Consensus 12 Id~vLe~NAe~FV~~fVQKGG 32 (33)
T TIGR03687 12 IDGVLESNAEEFVRGFVQKGG 32 (33)
T ss_pred HHHHHHHhHHHHHHHHHHccC
Confidence 557788888888 7766654
No 36
>cd06399 PB1_P40 The PB1 domain is essential part of the p40 adaptor protein which plays an important role in activating phagocyte NADPH oxidase during phagocytosis. 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 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. The PB1 domain of p40 represents a type I PB1 domain which interacts with the PB1 domain of oxidase activator p67 w
Probab=20.56 E-value=1.2e+02 Score=21.61 Aligned_cols=30 Identities=20% Similarity=0.293 Sum_probs=25.0
Q ss_pred CcceEEEEeccccCcHHHHHHHHHHHHhcC
Q 033749 43 EEQQRVVVPVIYFNHPLFMQLLKEAEEEYG 72 (112)
Q Consensus 43 ~e~~RFvVPv~yLnhP~F~~LL~~AeEEfG 72 (112)
...+-..|--+.-..|.|++||....++|.
T Consensus 13 ~~~rdi~vee~l~~~P~~kdLl~lmr~~f~ 42 (92)
T cd06399 13 STIRDIAVEEDLSSTPLLKDLLELTRREFQ 42 (92)
T ss_pred ccccceEeecccccCccHHHHHHHHHHHhc
Confidence 344666777788899999999999999986
No 37
>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=20.10 E-value=1.1e+02 Score=23.84 Aligned_cols=32 Identities=16% Similarity=0.209 Sum_probs=26.1
Q ss_pred cceEEEEeccccCc--HHHHHHHHHHHHhcCCCC
Q 033749 44 EQQRVVVPVIYFNH--PLFMQLLKEAEEEYGFDQ 75 (112)
Q Consensus 44 e~~RFvVPv~yLnh--P~F~~LL~~AeEEfG~~~ 75 (112)
+.-+|.+|++||.. -.|++|+...++.+-..+
T Consensus 23 s~l~f~~P~~~l~~~~~~~~~l~~~~a~~L~~~~ 56 (208)
T PF11876_consen 23 SYLSFSLPLEWLEEGPGHFRALFLELAERLPPSH 56 (208)
T ss_pred cEEEEEeCHHHHhcCcHHHHHHHHHHHHHCCCCe
Confidence 45789999999987 259999999999876654
Done!