Query 029186
Match_columns 197
No_of_seqs 158 out of 636
Neff 3.9
Searched_HMMs 46136
Date Fri Mar 29 08:53:06 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/029186.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/029186hhsearch_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 3.4E-34 7.4E-39 220.0 10.1 67 70-136 34-100 (100)
2 PLN03090 auxin-responsive fami 100.0 2.8E-32 6E-37 212.1 11.1 68 68-135 36-103 (104)
3 PLN03220 uncharacterized prote 100.0 2.2E-30 4.9E-35 201.7 10.2 66 68-133 31-101 (105)
4 PLN03219 uncharacterized prote 100.0 4.2E-30 9.1E-35 201.0 9.3 70 66-135 33-105 (108)
5 PF02214 BTB_2: BTB/POZ domain 83.1 1.3 2.7E-05 32.2 2.8 59 78-138 2-63 (94)
6 PRK02899 adaptor protein; Prov 82.7 1.1 2.4E-05 38.2 2.8 25 97-121 38-62 (197)
7 PRK02315 adaptor protein; Prov 76.5 2 4.2E-05 37.5 2.3 25 97-121 38-62 (233)
8 PF05389 MecA: Negative regula 69.9 1.5 3.2E-05 37.3 0.0 25 97-121 38-62 (220)
9 smart00666 PB1 PB1 domain. Pho 69.2 9 0.0002 26.9 4.0 54 79-137 6-70 (81)
10 cd05992 PB1 The PB1 domain is 63.6 23 0.00049 24.6 5.1 55 79-137 5-70 (81)
11 KOG4407 Predicted Rho GTPase-a 42.3 75 0.0016 35.5 6.8 61 70-138 1151-1215(1973)
12 cd06407 PB1_NLP A PB1 domain i 39.8 52 0.0011 24.4 3.9 50 79-132 5-66 (82)
13 PF00651 BTB: BTB/POZ domain; 38.9 71 0.0015 22.6 4.5 57 77-138 13-74 (111)
14 PRK10308 3-methyl-adenine DNA 35.6 1.4E+02 0.003 26.8 6.6 65 74-138 45-124 (283)
15 PF14317 YcxB: YcxB-like prote 34.4 88 0.0019 20.0 4.0 33 73-106 28-60 (62)
16 cd06410 PB1_UP2 Uncharacterize 33.4 77 0.0017 24.4 4.1 34 78-115 17-50 (97)
17 PF02209 VHP: Villin headpiece 32.7 20 0.00044 23.3 0.7 18 94-111 1-18 (36)
18 PF02100 ODC_AZ: Ornithine dec 32.1 53 0.0011 25.6 3.0 52 83-135 22-77 (108)
19 cd06398 PB1_Joka2 The PB1 doma 31.9 1.1E+02 0.0023 23.3 4.6 56 79-134 5-73 (91)
20 cd01406 SIR2-like Sir2-like: P 31.6 88 0.0019 26.4 4.5 36 75-116 1-36 (242)
21 smart00153 VHP Villin headpiec 31.1 24 0.00051 22.9 0.8 18 94-111 1-18 (36)
22 COG4862 MecA Negative regulato 28.7 40 0.00086 30.1 2.0 27 96-122 37-63 (224)
23 PF11834 DUF3354: Domain of un 28.3 44 0.00095 24.4 1.9 17 98-114 26-42 (69)
24 PRK02797 4-alpha-L-fucosyltran 27.6 1.7E+02 0.0038 27.4 6.0 65 71-138 141-227 (322)
25 PF07369 DUF1488: Protein of u 26.7 1.1E+02 0.0023 22.0 3.6 20 76-95 18-37 (83)
26 PF00564 PB1: PB1 domain; Int 25.1 2.4E+02 0.0052 19.5 6.7 56 79-138 6-72 (84)
27 PRK02079 pyrroloquinoline quin 24.3 41 0.00089 25.4 1.1 18 179-196 19-36 (88)
28 PF11822 DUF3342: Domain of un 24.3 1.4E+02 0.003 27.9 4.8 53 85-140 13-70 (317)
29 PF07429 Glyco_transf_56: 4-al 24.0 3.1E+02 0.0067 26.2 7.0 65 71-138 180-266 (360)
30 PF08861 DUF1828: Domain of un 22.7 1.7E+02 0.0037 21.4 4.2 61 75-135 9-83 (90)
31 cd04395 RhoGAP_ARHGAP21 RhoGAP 20.4 2.4E+02 0.0052 23.3 5.1 43 98-140 19-61 (196)
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=100.00 E-value=3.4e-34 Score=220.02 Aligned_cols=67 Identities=51% Similarity=0.988 Sum_probs=65.4
Q ss_pred cCCCCCeEEEEecCCCeeEEEEeccCCcHHHHHHHHHHHHhcCcCCCCCeEecCcHHHHHHHHHHHh
Q 029186 70 QVAPEGCFSVYVGPQRQRFVIKTEFANHPLFKILLEDAESEYGYENQGPIMLPCDVDLFFKVLAELE 136 (197)
Q Consensus 70 ~~vpkG~~aVYVG~e~rRFvVpv~yLnhPlF~eLLe~AeEEfGf~~~G~L~IPCdv~~Fe~vL~~i~ 136 (197)
..+|+||||||||++++||+||++|||||+|++||++|||||||+++|+|+||||+++|++|||+|+
T Consensus 34 ~~vp~G~~~VyVG~~~~Rfvvp~~~L~hp~f~~LL~~aeeEfG~~~~G~l~iPC~~~~Fe~~l~~le 100 (100)
T PF02519_consen 34 SDVPKGHFAVYVGEERRRFVVPVSYLNHPLFQELLEQAEEEFGFDQDGPLTIPCDVVLFEHLLWLLE 100 (100)
T ss_pred CCCCCCeEEEEeCccceEEEechHHcCchhHHHHHHHHhhhcCcCCCCcEEeeCCHHHHHHHHHHhC
Confidence 6789999999999999999999999999999999999999999999999999999999999999985
No 2
>PLN03090 auxin-responsive family protein; Provisional
Probab=99.98 E-value=2.8e-32 Score=212.08 Aligned_cols=68 Identities=32% Similarity=0.695 Sum_probs=65.7
Q ss_pred CCcCCCCCeEEEEecCCCeeEEEEeccCCcHHHHHHHHHHHHhcCcCCCCCeEecCcHHHHHHHHHHH
Q 029186 68 GCQVAPEGCFSVYVGPQRQRFVIKTEFANHPLFKILLEDAESEYGYENQGPIMLPCDVDLFFKVLAEL 135 (197)
Q Consensus 68 ~~~~vpkG~~aVYVG~e~rRFvVpv~yLnhPlF~eLLe~AeEEfGf~~~G~L~IPCdv~~Fe~vL~~i 135 (197)
.+.+||+||||||||++++||+||++|||||+|++||++|||||||+++|+|+||||+++|++|+|+|
T Consensus 36 ~~~~vpkG~~aVyVG~~~~RfvVp~~~L~hP~F~~LL~~aeeEfGf~~~G~L~IPC~~~~Fe~ll~~i 103 (104)
T PLN03090 36 LPLDVPKGHFPVYVGENRSRYIVPISFLTHPEFQSLLQQAEEEFGFDHDMGLTIPCEEVVFRSLTSMI 103 (104)
T ss_pred CCCCCCCCcEEEEECCCCEEEEEEHHHcCCHHHHHHHHHHHHHhCCCCCCcEEEeCCHHHHHHHHHHh
Confidence 45679999999999999999999999999999999999999999999999999999999999999998
No 3
>PLN03220 uncharacterized protein; Provisional
Probab=99.97 E-value=2.2e-30 Score=201.68 Aligned_cols=66 Identities=38% Similarity=0.852 Sum_probs=62.2
Q ss_pred CCcCCCCCeEEEEecC----CCeeEEEEeccCCcHHHHHHHHHHHHhcCcCC-CCCeEecCcHHHHHHHHH
Q 029186 68 GCQVAPEGCFSVYVGP----QRQRFVIKTEFANHPLFKILLEDAESEYGYEN-QGPIMLPCDVDLFFKVLA 133 (197)
Q Consensus 68 ~~~~vpkG~~aVYVG~----e~rRFvVpv~yLnhPlF~eLLe~AeEEfGf~~-~G~L~IPCdv~~Fe~vL~ 133 (197)
.+.+||+||||||||+ |++|||||++|||||+|++||++|||||||++ +|+|+|||+++.|+++|.
T Consensus 31 ~~~~VPkGh~aVyVGe~~~~e~kRFVVPv~yL~hP~F~~LL~~AeEEfGf~~~~G~L~IPCd~~~F~~ll~ 101 (105)
T PLN03220 31 SSDHVPKGHVAVYVGEQIEMEKKRFVVPISFLNHPSFKEFLSRAEEEFGFNHPMGGLTIPCREEVFLDLIA 101 (105)
T ss_pred ccCCCCCCeEEEEECCCCCccceEEEEEHHHcCChHHHHHHHHHHHHhCCCCCCCCEEeeCCHHHHHHHHH
Confidence 4578999999999997 57999999999999999999999999999998 699999999999999986
No 4
>PLN03219 uncharacterized protein; Provisional
Probab=99.96 E-value=4.2e-30 Score=200.98 Aligned_cols=70 Identities=33% Similarity=0.765 Sum_probs=64.3
Q ss_pred CCCCcCCCCCeEEEEecC--CCeeEEEEeccCCcHHHHHHHHHHHHhcCcCC-CCCeEecCcHHHHHHHHHHH
Q 029186 66 NKGCQVAPEGCFSVYVGP--QRQRFVIKTEFANHPLFKILLEDAESEYGYEN-QGPIMLPCDVDLFFKVLAEL 135 (197)
Q Consensus 66 ~~~~~~vpkG~~aVYVG~--e~rRFvVpv~yLnhPlF~eLLe~AeEEfGf~~-~G~L~IPCdv~~Fe~vL~~i 135 (197)
+..+..||+||||||||+ |++|||||++|||||+|++||++|||||||++ +|+|+|||+++.|++||..-
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 345578999999999997 58999999999999999999999999999996 69999999999999999753
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=83.07 E-value=1.3 Score=32.21 Aligned_cols=59 Identities=20% Similarity=0.247 Sum_probs=44.8
Q ss_pred EEEecCCCeeEEEEeccCC-c--HHHHHHHHHHHHhcCcCCCCCeEecCcHHHHHHHHHHHhcC
Q 029186 78 SVYVGPQRQRFVIKTEFAN-H--PLFKILLEDAESEYGYENQGPIMLPCDVDLFFKVLAELEST 138 (197)
Q Consensus 78 aVYVG~e~rRFvVpv~yLn-h--PlF~eLLe~AeEEfGf~~~G~L~IPCdv~~Fe~vL~~i~s~ 138 (197)
.+=||. ++|.++.+.|. + ..|..|+..-.....-..+|.+-|-++...|++||.-++.+
T Consensus 2 ~lNVGG--~~f~~~~~tL~~~~~s~l~~~~~~~~~~~~~~~~~~~fiDRdp~~F~~IL~ylr~~ 63 (94)
T PF02214_consen 2 RLNVGG--TIFETSRSTLTRYPDSLLARLFSGERSDDYDDDDGEYFIDRDPELFEYILNYLRTG 63 (94)
T ss_dssp EEEETT--EEEEEEHHHHHTSTTSTTTSHHHTGHGGGEETTTTEEEESS-HHHHHHHHHHHHHT
T ss_pred EEEECC--EEEEEcHHHHhhCCCChhhhHHhhccccccCCccceEEeccChhhhhHHHHHHhhc
Confidence 345774 89999998887 4 47888888652222234579999999999999999999985
No 6
>PRK02899 adaptor protein; Provisional
Probab=82.70 E-value=1.1 Score=38.21 Aligned_cols=25 Identities=40% Similarity=0.905 Sum_probs=22.0
Q ss_pred cHHHHHHHHHHHHhcCcCCCCCeEe
Q 029186 97 HPLFKILLEDAESEYGYENQGPIML 121 (197)
Q Consensus 97 hPlF~eLLe~AeEEfGf~~~G~L~I 121 (197)
+-+|.++|++|..|+||..+|||+|
T Consensus 38 e~lF~~mm~Ea~~e~~F~~~~pl~~ 62 (197)
T PRK02899 38 HQLFRDMMQEANKELGFEADGPIAV 62 (197)
T ss_pred HHHHHHHHHHhhhccCcccCCeEEE
Confidence 4578888999999999999999974
No 7
>PRK02315 adaptor protein; Provisional
Probab=76.45 E-value=2 Score=37.48 Aligned_cols=25 Identities=16% Similarity=0.626 Sum_probs=22.8
Q ss_pred cHHHHHHHHHHHHhcCcCCCCCeEe
Q 029186 97 HPLFKILLEDAESEYGYENQGPIML 121 (197)
Q Consensus 97 hPlF~eLLe~AeEEfGf~~~G~L~I 121 (197)
+-+|.++|++|..|+||..+|||+|
T Consensus 38 e~fF~~mm~Ea~~e~~F~~~~pl~~ 62 (233)
T PRK02315 38 EEFFYSMMDEVDEEDDFADEGPLWF 62 (233)
T ss_pred HHHHHHHHHHhccccCcccCCeEEE
Confidence 4689999999999999999999975
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=69.87 E-value=1.5 Score=37.29 Aligned_cols=25 Identities=40% Similarity=0.842 Sum_probs=0.0
Q ss_pred cHHHHHHHHHHHHhcCcCCCCCeEe
Q 029186 97 HPLFKILLEDAESEYGYENQGPIML 121 (197)
Q Consensus 97 hPlF~eLLe~AeEEfGf~~~G~L~I 121 (197)
+-+|.++|++|.+|+||..+|||++
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 5689999999999999999999985
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=69.25 E-value=9 Score=26.92 Aligned_cols=54 Identities=19% Similarity=0.335 Sum_probs=38.9
Q ss_pred EEecCCCeeEEEEeccCCcHHHHHHHHHHHHhcCcC----------CCC-CeEecCcHHHHHHHHHHHhc
Q 029186 79 VYVGPQRQRFVIKTEFANHPLFKILLEDAESEYGYE----------NQG-PIMLPCDVDLFFKVLAELES 137 (197)
Q Consensus 79 VYVG~e~rRFvVpv~yLnhPlF~eLLe~AeEEfGf~----------~~G-~L~IPCdv~~Fe~vL~~i~s 137 (197)
|+-|++.+||.||- ..-|.+|..+..+.|+.. .+| .++|.++. .|+..+.+...
T Consensus 6 ~~~~~~~~~~~~~~----~~s~~dL~~~i~~~~~~~~~~~~l~Y~Dedgd~v~l~sd~-Dl~~a~~~~~~ 70 (81)
T smart00666 6 LRYGGETRRLSVPR----DISFEDLRSKVAKRFGLDNQSFTLKYQDEDGDLVSLTSDE-DLEEAIEEYDS 70 (81)
T ss_pred EEECCEEEEEEECC----CCCHHHHHHHHHHHhCCCCCCeEEEEECCCCCEEEecCHH-HHHHHHHHHHH
Confidence 33477788999885 777999999999998874 244 57788865 55666665554
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=63.60 E-value=23 Score=24.63 Aligned_cols=55 Identities=20% Similarity=0.383 Sum_probs=39.4
Q ss_pred EEecCCCeeEEEEeccCCcHHHHHHHHHHHHhcCcC----------CCCC-eEecCcHHHHHHHHHHHhc
Q 029186 79 VYVGPQRQRFVIKTEFANHPLFKILLEDAESEYGYE----------NQGP-IMLPCDVDLFFKVLAELES 137 (197)
Q Consensus 79 VYVG~e~rRFvVpv~yLnhPlF~eLLe~AeEEfGf~----------~~G~-L~IPCdv~~Fe~vL~~i~s 137 (197)
|+-+++.+||.+|. .++-|.+|..+..+.|++. .+|- ++|-++ +.|+..+.....
T Consensus 5 ~~~~~~~~~~~~~~---~~~s~~~L~~~i~~~~~~~~~~~~l~y~D~e~d~v~l~sd-~Dl~~a~~~~~~ 70 (81)
T cd05992 5 VKYGGEIRRFVVVS---RSISFEDLRSKIAEKFGLDAVSFKLKYPDEDGDLVTISSD-EDLEEAIEEARR 70 (81)
T ss_pred EEecCCCEEEEEec---CCCCHHHHHHHHHHHhCCCCCcEEEEeeCCCCCEEEeCCH-HHHHHHHHHHhh
Confidence 44455689999997 7888999999999988875 2443 445554 567777776654
No 11
>KOG4407 consensus Predicted Rho GTPase-activating protein [General function prediction only]
Probab=42.30 E-value=75 Score=35.54 Aligned_cols=61 Identities=16% Similarity=0.261 Sum_probs=45.4
Q ss_pred cCCCCCeEEEEecC----CCeeEEEEeccCCcHHHHHHHHHHHHhcCcCCCCCeEecCcHHHHHHHHHHHhcC
Q 029186 70 QVAPEGCFSVYVGP----QRQRFVIKTEFANHPLFKILLEDAESEYGYENQGPIMLPCDVDLFFKVLAELEST 138 (197)
Q Consensus 70 ~~vpkG~~aVYVG~----e~rRFvVpv~yLnhPlF~eLLe~AeEEfGf~~~G~L~IPCdv~~Fe~vL~~i~s~ 138 (197)
..+|.|.|=|-..+ ...+|| |++.+.--..-|+||.+--|.-+||=.....-.+-+.+.+.
T Consensus 1151 a~~~~~~~GVrl~dCP~~~~n~yV--------P~iV~~C~~vVEt~Gl~~vGIYRIPGN~AAIs~l~E~ln~~ 1215 (1973)
T KOG4407|consen 1151 AGAPQPVLGVRLADCPTGSCNDYV--------PMIVQACVCVVETYGLDTVGIYRIPGNTAAISALKESLNNR 1215 (1973)
T ss_pred ccCcCcccccccccCCcccccccc--------hHHHHHHHHHHhhcCccceeEEecCCcHHHHHHHHHHHhcc
Confidence 44566666666643 135554 78888888889999999999999999888777777766554
No 12
>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=39.83 E-value=52 Score=24.42 Aligned_cols=50 Identities=20% Similarity=0.316 Sum_probs=35.0
Q ss_pred EEecCCCeeEEEEeccCCcHHHHHHHHHHHHhcCcCC------------CCCeEecCcHHHHHHHH
Q 029186 79 VYVGPQRQRFVIKTEFANHPLFKILLEDAESEYGYEN------------QGPIMLPCDVDLFFKVL 132 (197)
Q Consensus 79 VYVG~e~rRFvVpv~yLnhPlF~eLLe~AeEEfGf~~------------~G~L~IPCdv~~Fe~vL 132 (197)
|..|++..||.+|.. .-|++|.++..+.|++.. ..++.|.|+.++=+.+-
T Consensus 5 ~~~~~d~~r~~l~~~----~~~~~L~~~i~~r~~~~~~~~f~LkY~Ddegd~v~ltsd~DL~eai~ 66 (82)
T cd06407 5 ATYGEEKIRFRLPPS----WGFTELKQEIAKRFKLDDMSAFDLKYLDDDEEWVLLTCDADLEECID 66 (82)
T ss_pred EEeCCeEEEEEcCCC----CCHHHHHHHHHHHhCCCCCCeeEEEEECCCCCeEEeecHHHHHHHHH
Confidence 344667889988863 368999999988887653 23567888877655443
No 13
>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=38.95 E-value=71 Score=22.64 Aligned_cols=57 Identities=21% Similarity=0.435 Sum_probs=41.0
Q ss_pred EEEEecCCCeeEEEEeccC--CcHHHHHHHHHHHHhcCcCCCC--CeEec-CcHHHHHHHHHHHhcC
Q 029186 77 FSVYVGPQRQRFVIKTEFA--NHPLFKILLEDAESEYGYENQG--PIMLP-CDVDLFFKVLAELEST 138 (197)
Q Consensus 77 ~aVYVG~e~rRFvVpv~yL--nhPlF~eLLe~AeEEfGf~~~G--~L~IP-Cdv~~Fe~vL~~i~s~ 138 (197)
+.+.|++ .++|-|.-..| ..|.|+.+++... ....+ .|.++ ++.+.|+.++.-+-.+
T Consensus 13 ~~i~v~d-~~~~~vhk~iL~~~S~~F~~~~~~~~----~~~~~~~~i~~~~~~~~~~~~~l~~~Y~~ 74 (111)
T PF00651_consen 13 VTIRVGD-GKTFYVHKNILAARSPYFRNLFEGSK----FKESTVPEISLPDVSPEAFEAFLEYMYTG 74 (111)
T ss_dssp EEEEETT-TEEEEE-HHHHHHHBHHHHHHHTTTT----STTSSEEEEEETTSCHHHHHHHHHHHHHS
T ss_pred EEEEECC-CEEEeechhhhhccchhhhhcccccc----cccccccccccccccccccccccccccCC
Confidence 4566776 68999988877 4599999998881 12233 46656 7899999999988654
No 14
>PRK10308 3-methyl-adenine DNA glycosylase II; Provisional
Probab=35.61 E-value=1.4e+02 Score=26.79 Aligned_cols=65 Identities=17% Similarity=0.201 Sum_probs=46.2
Q ss_pred CCeEEEEecCCCeeEEEEeccCCcHHHHHHHHHHHHhcCcCCC---------------CCeEecCcHHHHHHHHHHHhcC
Q 029186 74 EGCFSVYVGPQRQRFVIKTEFANHPLFKILLEDAESEYGYENQ---------------GPIMLPCDVDLFFKVLAELEST 138 (197)
Q Consensus 74 kG~~aVYVG~e~rRFvVpv~yLnhPlF~eLLe~AeEEfGf~~~---------------G~L~IPCdv~~Fe~vL~~i~s~ 138 (197)
.|+|.|.-.++...+.|.++.-.-+...+++.....-|+.+.| -+|+||...+.||.+++.|-..
T Consensus 45 ~~~~~v~~~~~~~~l~~~~~~~~~~~~~~~~~~vrr~fdLd~d~~~i~~~L~~~~~~~~GlR~p~~~d~fE~lv~aIigQ 124 (283)
T PRK10308 45 RGVVTVIPDIARHTLHINLSAGLEPVAAECLAKMSRLFDLQCNPQIVNGALGKLGAARPGLRLPGSVDAFEQGVRAILGQ 124 (283)
T ss_pred cEEEEEEEcCCCceEEEEEcCCccccHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHhCCCCcCCCCCCHHHHHHHHHHHh
Confidence 4666666555556677776664445566778888777777654 3589999999999999887543
No 15
>PF14317 YcxB: YcxB-like protein
Probab=34.35 E-value=88 Score=19.96 Aligned_cols=33 Identities=21% Similarity=0.277 Sum_probs=25.6
Q ss_pred CCCeEEEEecCCCeeEEEEeccCCcHHHHHHHHH
Q 029186 73 PEGCFSVYVGPQRQRFVIKTEFANHPLFKILLED 106 (197)
Q Consensus 73 pkG~~aVYVG~e~rRFvVpv~yLnhPlF~eLLe~ 106 (197)
-+.++.+|+++ ..-++||.+.++.-...++.+.
T Consensus 28 ~~~~~~l~~~~-~~~~~iPk~~f~~~e~~~f~~~ 60 (62)
T PF14317_consen 28 TKDYFYLYLGK-NQAFIIPKRAFSEEEKEEFREF 60 (62)
T ss_pred eCCEEEEEECC-CeEEEEEHHHCCHhHHHHHHHH
Confidence 46788899987 5999999999986666555543
No 16
>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=33.42 E-value=77 Score=24.36 Aligned_cols=34 Identities=21% Similarity=0.272 Sum_probs=25.0
Q ss_pred EEEecCCCeeEEEEeccCCcHHHHHHHHHHHHhcCcCC
Q 029186 78 SVYVGPQRQRFVIKTEFANHPLFKILLEDAESEYGYEN 115 (197)
Q Consensus 78 aVYVG~e~rRFvVpv~yLnhPlF~eLLe~AeEEfGf~~ 115 (197)
.=|||.+.+-..|+-+ .-|.+|..+..+.++...
T Consensus 17 l~Y~GG~tr~i~V~r~----~s~~el~~kl~~~~~~~~ 50 (97)
T cd06410 17 LRYVGGETRIVSVDRS----ISFKELVSKLSELFGAGV 50 (97)
T ss_pred EEEcCCceEEEEEcCC----CCHHHHHHHHHHHhCCCC
Confidence 4699988787888866 356777777777776654
No 17
>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=32.66 E-value=20 Score=23.27 Aligned_cols=18 Identities=11% Similarity=0.320 Sum_probs=14.9
Q ss_pred cCCcHHHHHHHHHHHHhc
Q 029186 94 FANHPLFKILLEDAESEY 111 (197)
Q Consensus 94 yLnhPlF~eLLe~AeEEf 111 (197)
||+.-.|++++.++.+||
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 899999999999999997
No 18
>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=32.12 E-value=53 Score=25.61 Aligned_cols=52 Identities=27% Similarity=0.223 Sum_probs=27.0
Q ss_pred CCCeeEE-EEe---ccCCcHHHHHHHHHHHHhcCcCCCCCeEecCcHHHHHHHHHHH
Q 029186 83 PQRQRFV-IKT---EFANHPLFKILLEDAESEYGYENQGPIMLPCDVDLFFKVLAEL 135 (197)
Q Consensus 83 ~e~rRFv-Vpv---~yLnhPlF~eLLe~AeEEfGf~~~G~L~IPCdv~~Fe~vL~~i 135 (197)
+++.=|| +|- .-.+-.-|.+|||.|||+++.+ .=.|+|+=+......++.-+
T Consensus 22 ~~~~L~V~ip~~~~~~~~K~~lvaLLElAee~L~c~-~vvic~~k~~~d~~~Llr~l 77 (108)
T PF02100_consen 22 DERTLFVFIPSSALGQGSKESLVALLELAEEKLGCS-HVVICLDKNRPDRASLLRTL 77 (108)
T ss_dssp -TTEEEEE-SS---SS--SHHHHHHHHHHHHHH-----EEEEE---SS-HHHHHHHH
T ss_pred cCCEEEEEECCcccccccHHHHHHHHHHhcCcCCCC-EEEEEEECCchhHHHhhhhc
Confidence 4455555 343 3445678999999999998764 33566666555555555544
No 19
>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=31.94 E-value=1.1e+02 Score=23.26 Aligned_cols=56 Identities=21% Similarity=0.125 Sum_probs=37.9
Q ss_pred EEecCCCeeEEEEecc-CCcHHHHHHHHHHHHhcCcCC-----------CC-CeEecCcHHHHHHHHHH
Q 029186 79 VYVGPQRQRFVIKTEF-ANHPLFKILLEDAESEYGYEN-----------QG-PIMLPCDVDLFFKVLAE 134 (197)
Q Consensus 79 VYVG~e~rRFvVpv~y-LnhPlF~eLLe~AeEEfGf~~-----------~G-~L~IPCdv~~Fe~vL~~ 134 (197)
|.-|++.+||-+|..- -.+.-|..|.++.++-|.... +| -++|-||.++-+.+-..
T Consensus 5 v~y~~~~rRf~l~~~~~~~d~~~~~L~~kI~~~f~l~~~~~~~l~Y~Dedgd~V~l~~D~DL~~a~~~~ 73 (91)
T cd06398 5 VKYGGTLRRFTFPVAENQLDLNMDGLREKVEELFSLSPDADLSLTYTDEDGDVVTLVDDNDLTDAIQYF 73 (91)
T ss_pred EEeCCEEEEEEeccccccCCCCHHHHHHHHHHHhCCCCCCcEEEEEECCCCCEEEEccHHHHHHHHHHH
Confidence 3447779999999740 114578999999998876653 34 46688887766555443
No 20
>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=31.58 E-value=88 Score=26.36 Aligned_cols=36 Identities=31% Similarity=0.495 Sum_probs=28.4
Q ss_pred CeEEEEecCCCeeEEEEeccCCcHHHHHHHHHHHHhcCcCCC
Q 029186 75 GCFSVYVGPQRQRFVIKTEFANHPLFKILLEDAESEYGYENQ 116 (197)
Q Consensus 75 G~~aVYVG~e~rRFvVpv~yLnhPlF~eLLe~AeEEfGf~~~ 116 (197)
|.++++||..-.+ + .+-|.+.+|++...+|++.+.+
T Consensus 1 g~lvlFiGAG~S~---~---~glP~W~~Ll~~l~~~~~~~~~ 36 (242)
T cd01406 1 GRVVIFVGAGVSV---S---SGLPDWKTLLDEIASELGLEID 36 (242)
T ss_pred CCEEEEecCcccc---c---cCCCChHHHHHHHHHHcCCccc
Confidence 7899999975221 1 5789999999999999987654
No 21
>smart00153 VHP Villin headpiece domain.
Probab=31.13 E-value=24 Score=22.86 Aligned_cols=18 Identities=11% Similarity=0.300 Sum_probs=16.6
Q ss_pred cCCcHHHHHHHHHHHHhc
Q 029186 94 FANHPLFKILLEDAESEY 111 (197)
Q Consensus 94 yLnhPlF~eLLe~AeEEf 111 (197)
||+.-.|+.++.++.+||
T Consensus 1 yLsdeeF~~vfgmsr~eF 18 (36)
T smart00153 1 YLSDEDFEEVFGMTREEF 18 (36)
T ss_pred CCCHHHHHHHHCCCHHHH
Confidence 789999999999999997
No 22
>COG4862 MecA Negative regulator of genetic competence, sporulation and motility [Posttranslational modification, protein turnover, chaperones / Signal transduction mechanisms / Cell motility and secretion]
Probab=28.68 E-value=40 Score=30.14 Aligned_cols=27 Identities=19% Similarity=0.556 Sum_probs=24.3
Q ss_pred CcHHHHHHHHHHHHhcCcCCCCCeEec
Q 029186 96 NHPLFKILLEDAESEYGYENQGPIMLP 122 (197)
Q Consensus 96 nhPlF~eLLe~AeEEfGf~~~G~L~IP 122 (197)
.|-+|-++++++.+|-+|..+|||.|-
T Consensus 37 ~EE~F~~mMdEl~~ee~F~~~GpL~iq 63 (224)
T COG4862 37 TEELFYEMMDELNLEEDFKDEGPLWIQ 63 (224)
T ss_pred HHHHHHHHHHhcCCccccccCCceEEE
Confidence 478999999999999999999999873
No 23
>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=28.35 E-value=44 Score=24.45 Aligned_cols=17 Identities=24% Similarity=0.474 Sum_probs=15.3
Q ss_pred HHHHHHHHHHHHhcCcC
Q 029186 98 PLFKILLEDAESEYGYE 114 (197)
Q Consensus 98 PlF~eLLe~AeEEfGf~ 114 (197)
--++|||+.|++.||+.
T Consensus 26 ~SleeLl~ia~~kfg~~ 42 (69)
T PF11834_consen 26 DSLEELLKIASEKFGFS 42 (69)
T ss_pred ccHHHHHHHHHHHhCCC
Confidence 36999999999999995
No 24
>PRK02797 4-alpha-L-fucosyltransferase; Provisional
Probab=27.60 E-value=1.7e+02 Score=27.43 Aligned_cols=65 Identities=15% Similarity=0.241 Sum_probs=45.8
Q ss_pred CCCCCeEEEEecC--------------------CCeeEEEEecc--CCcHHHHHHHHHHHHhcCcCCCCCeEecCcHHHH
Q 029186 71 VAPEGCFSVYVGP--------------------QRQRFVIKTEF--ANHPLFKILLEDAESEYGYENQGPIMLPCDVDLF 128 (197)
Q Consensus 71 ~vpkG~~aVYVG~--------------------e~rRFvVpv~y--LnhPlF~eLLe~AeEEfGf~~~G~L~IPCdv~~F 128 (197)
..+.+.++|.||. +.-|++||+.| =|.--.+++.+.+++-||-+ -+++==+--.|
T Consensus 141 ~~~~~~~tIlvGNSgd~SN~Hie~L~~l~~~~~~~v~ii~PlsYp~gn~~Yi~~V~~~~~~lF~~~---~~~~L~e~l~f 217 (322)
T PRK02797 141 RQRAGKMTILVGNSGDRSNRHIEALRALHQQFGDNVKIIVPMGYPANNQAYIEEVRQAGLALFGAE---NFQILTEKLPF 217 (322)
T ss_pred ccCCCceEEEEeCCCCCcccHHHHHHHHHHHhCCCeEEEEECCcCCCCHHHHHHHHHHHHHhcCcc---cEEehhhhCCH
Confidence 3467789999983 24699999999 56666666666677777633 35555566667
Q ss_pred HHHHHHHhcC
Q 029186 129 FKVLAELEST 138 (197)
Q Consensus 129 e~vL~~i~s~ 138 (197)
+..+..+.+-
T Consensus 218 ~eYl~lL~~~ 227 (322)
T PRK02797 218 DDYLALLRQC 227 (322)
T ss_pred HHHHHHHHhC
Confidence 7777777665
No 25
>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=26.66 E-value=1.1e+02 Score=21.99 Aligned_cols=20 Identities=25% Similarity=0.217 Sum_probs=17.4
Q ss_pred eEEEEecCCCeeEEEEeccC
Q 029186 76 CFSVYVGPQRQRFVIKTEFA 95 (197)
Q Consensus 76 ~~aVYVG~e~rRFvVpv~yL 95 (197)
.|+++|+...-++.|..+-|
T Consensus 18 ~F~a~~~g~~i~C~Is~~aL 37 (83)
T PF07369_consen 18 RFPAQVDGMQIRCAISAEAL 37 (83)
T ss_dssp EEEEEETTEEEEEEEEHHHH
T ss_pred EEEEEECCEEEEEEEeHHHH
Confidence 68999998889999998766
No 26
>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=25.09 E-value=2.4e+02 Score=19.51 Aligned_cols=56 Identities=14% Similarity=0.256 Sum_probs=35.7
Q ss_pred EEecCCCeeEEEEeccCCcHHHHHHHHHHHHhcCcC----------CCCC-eEecCcHHHHHHHHHHHhcC
Q 029186 79 VYVGPQRQRFVIKTEFANHPLFKILLEDAESEYGYE----------NQGP-IMLPCDVDLFFKVLAELEST 138 (197)
Q Consensus 79 VYVG~e~rRFvVpv~yLnhPlF~eLLe~AeEEfGf~----------~~G~-L~IPCdv~~Fe~vL~~i~s~ 138 (197)
++-+++.+| .+..-..+-|.+|+++.++.|+.. .+|- ++|.++. .|+..+......
T Consensus 6 ~~~~~~~~~---~~~~~~~~s~~~L~~~i~~~~~~~~~~~~l~Y~D~dgD~V~i~sd~-Dl~~a~~~~~~~ 72 (84)
T PF00564_consen 6 VRYGGDIRR---IISLPSDVSFDDLRSKIREKFGLLDEDFQLKYKDEDGDLVTISSDE-DLQEAIEQAKES 72 (84)
T ss_dssp EEETTEEEE---EEEECSTSHHHHHHHHHHHHHTTSTSSEEEEEEETTSSEEEESSHH-HHHHHHHHHHHC
T ss_pred EEECCeeEE---EEEcCCCCCHHHHHHHHHHHhCCCCccEEEEeeCCCCCEEEeCCHH-HHHHHHHHHHhc
Confidence 444555555 333345679999999999999983 3563 5566655 455566655543
No 27
>PRK02079 pyrroloquinoline quinone biosynthesis protein PqqD; Provisional
Probab=24.32 E-value=41 Score=25.39 Aligned_cols=18 Identities=33% Similarity=0.475 Sum_probs=16.1
Q ss_pred CCcceeecCCcccccccC
Q 029186 179 AGGAYRLLSPSRLLKMNG 196 (197)
Q Consensus 179 ~~~~y~ll~~~~~~~~~~ 196 (197)
..+.|-||.|-+|++||.
T Consensus 19 ~~~~~vlL~PEgmi~Lne 36 (88)
T PRK02079 19 AQNCHVLLYPEGMIKLNE 36 (88)
T ss_pred ccCceEEEcCCeeeeech
Confidence 478899999999999985
No 28
>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=24.29 E-value=1.4e+02 Score=27.92 Aligned_cols=53 Identities=15% Similarity=0.290 Sum_probs=40.2
Q ss_pred CeeEEEEeccCC--cHHHHHHHHH---HHHhcCcCCCCCeEecCcHHHHHHHHHHHhcCCC
Q 029186 85 RQRFVIKTEFAN--HPLFKILLED---AESEYGYENQGPIMLPCDVDLFFKVLAELESTGD 140 (197)
Q Consensus 85 ~rRFvVpv~yLn--hPlF~eLLe~---AeEEfGf~~~G~L~IPCdv~~Fe~vL~~i~s~~~ 140 (197)
.+=|..|.+.|- -..|+++|.. ..++. .+=.|.+-||+..|+-++.-+....+
T Consensus 13 ~rdF~C~~~lL~~~M~YF~~~l~~~~~~~~~~---~~idisVhCDv~iF~WLm~yv~~~~p 70 (317)
T PF11822_consen 13 KRDFTCPRDLLVSEMRYFAEYLSRYINDSQRW---EEIDISVHCDVHIFEWLMRYVKGEPP 70 (317)
T ss_pred ceeeeccHHHHHHhhHHHHHHHhhcccccCcC---CCcceEEecChhHHHHHHHHhhcCCC
Confidence 577999998885 4679999965 33331 23458899999999999999988543
No 29
>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=24.03 E-value=3.1e+02 Score=26.21 Aligned_cols=65 Identities=15% Similarity=0.317 Sum_probs=45.1
Q ss_pred CCCCCeEEEEecC--------------------CCeeEEEEeccCC--cHHHHHHHHHHHHhcCcCCCCCeEecCcHHHH
Q 029186 71 VAPEGCFSVYVGP--------------------QRQRFVIKTEFAN--HPLFKILLEDAESEYGYENQGPIMLPCDVDLF 128 (197)
Q Consensus 71 ~vpkG~~aVYVG~--------------------e~rRFvVpv~yLn--hPlF~eLLe~AeEEfGf~~~G~L~IPCdv~~F 128 (197)
..+++-+.|.||. +..|++||+.|=. .-..+++.+.+++-||-+. +.+==+---|
T Consensus 180 ~~~~~~ltILvGNSgd~sNnHieaL~~L~~~~~~~~kIivPLsYg~~n~~Yi~~V~~~~~~lF~~~~---~~iL~e~mpf 256 (360)
T PF07429_consen 180 KKNKGKLTILVGNSGDPSNNHIEALEALKQQFGDDVKIIVPLSYGANNQAYIQQVIQAGKELFGAEN---FQILTEFMPF 256 (360)
T ss_pred cCCCCceEEEEcCCCCCCccHHHHHHHHHHhcCCCeEEEEECCCCCchHHHHHHHHHHHHHhcCccc---eeEhhhhCCH
Confidence 3457888999982 3589999999974 5677777777777787432 3333344557
Q ss_pred HHHHHHHhcC
Q 029186 129 FKVLAELEST 138 (197)
Q Consensus 129 e~vL~~i~s~ 138 (197)
+..+..+++-
T Consensus 257 ~eYl~lL~~c 266 (360)
T PF07429_consen 257 DEYLALLSRC 266 (360)
T ss_pred HHHHHHHHhC
Confidence 7777777765
No 30
>PF08861 DUF1828: Domain of unknown function DUF1828; InterPro: IPR014960 These proteins are functionally uncharacterised.
Probab=22.74 E-value=1.7e+02 Score=21.43 Aligned_cols=61 Identities=15% Similarity=0.243 Sum_probs=43.6
Q ss_pred CeEEEEecCCCeeEEEEe------------ccCC-cHHHHHHHHHHHHhcCcC-CCCCeEecCcHHHHHHHHHHH
Q 029186 75 GCFSVYVGPQRQRFVIKT------------EFAN-HPLFKILLEDAESEYGYE-NQGPIMLPCDVDLFFKVLAEL 135 (197)
Q Consensus 75 G~~aVYVG~e~rRFvVpv------------~yLn-hPlF~eLLe~AeEEfGf~-~~G~L~IPCdv~~Fe~vL~~i 135 (197)
-++.+||=.....|.|-= -.++ .|-=+++|+..-..||+. .+|.|.+.++.+.|-..+..+
T Consensus 9 D~i~~yv~~~~~~~~ltDdG~Tl~~L~~~G~~~~~s~~R~~~l~~il~~~gv~~~~~el~~~~~~~~~~~~~~~l 83 (90)
T PF08861_consen 9 DNIQIYVKKDDDSIRLTDDGYTLMNLSSSGIDIDRSKKRKKILNSILNGFGVELDEGELFIKTSEENFPQAKHRL 83 (90)
T ss_pred CEEEEEEEECCCeEEEecCHHHHHhHhHcCCccccchHHHHHHHHHHHHcCccccCCEEEEEeCHHHHHHHHHHH
Confidence 456677754445555531 1232 677789999999999999 579999999999887766544
No 31
>cd04395 RhoGAP_ARHGAP21 RhoGAP_ARHGAP21: RhoGAP (GTPase-activator protein [GAP] for Rho-like small GTPases) domain of ArhGAP21-like proteins. ArhGAP21 is a multi-domain protein, containing RhoGAP, PH and PDZ domains, and is believed to play a role in the organization of the cell-cell junction complex. It has been shown to function as a GAP of Cdc42 and RhoA, and to interact with alpha-catenin and Arf6. 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=20.45 E-value=2.4e+02 Score=23.34 Aligned_cols=43 Identities=21% Similarity=0.214 Sum_probs=35.3
Q ss_pred HHHHHHHHHHHHhcCcCCCCCeEecCcHHHHHHHHHHHhcCCC
Q 029186 98 PLFKILLEDAESEYGYENQGPIMLPCDVDLFFKVLAELESTGD 140 (197)
Q Consensus 98 PlF~eLLe~AeEEfGf~~~G~L~IPCdv~~Fe~vL~~i~s~~~ 140 (197)
|.|-+..-..-++.|...+|--++|.+...-+.+...++++..
T Consensus 19 P~iv~~~~~~l~~~g~~~eGIFR~~g~~~~i~~l~~~l~~~~~ 61 (196)
T cd04395 19 PLIVEVCCNIVEARGLETVGIYRVPGNNAAISALQEELNRGGF 61 (196)
T ss_pred ChHHHHHHHHHHHcCCCCccceeCCCcHHHHHHHHHHHhcCCC
Confidence 5565555556678899999999999999999999999997753
Done!