Query 043725
Match_columns 150
No_of_seqs 132 out of 686
Neff 4.5
Searched_HMMs 46136
Date Fri Mar 29 07:45:45 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/043725.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/043725hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PLN03090 auxin-responsive fami 100.0 1.3E-42 2.9E-47 258.2 11.3 100 3-102 1-103 (104)
2 PF02519 Auxin_inducible: Auxi 100.0 5.4E-35 1.2E-39 215.3 9.6 87 17-103 7-100 (100)
3 PLN03220 uncharacterized prote 100.0 6.9E-34 1.5E-38 211.7 8.3 67 34-100 30-101 (105)
4 PLN03219 uncharacterized prote 100.0 1.2E-31 2.7E-36 200.5 8.9 69 34-102 34-105 (108)
5 PF02214 BTB_2: BTB/POZ domain 84.7 0.8 1.7E-05 31.8 2.3 58 46-105 3-63 (94)
6 PRK02899 adaptor protein; Prov 83.3 1 2.2E-05 36.8 2.6 25 64-88 38-62 (197)
7 PRK02315 adaptor protein; Prov 76.8 1.8 4E-05 36.0 2.2 25 64-88 38-62 (233)
8 smart00666 PB1 PB1 domain. Pho 75.3 6.3 0.00014 26.5 4.2 53 47-104 7-70 (81)
9 PF05389 MecA: Negative regula 71.7 1.3 2.7E-05 36.0 0.0 25 64-88 38-62 (220)
10 cd05992 PB1 The PB1 domain is 70.3 11 0.00025 25.0 4.5 55 46-104 5-70 (81)
11 PRK02797 4-alpha-L-fucosyltran 65.6 24 0.00052 31.4 6.7 67 39-108 142-230 (322)
12 PF07429 Glyco_transf_56: 4-al 55.7 41 0.00088 30.4 6.4 68 38-108 180-269 (360)
13 cd06410 PB1_UP2 Uncharacterize 43.8 48 0.001 24.3 4.2 34 45-82 17-50 (97)
14 cd06407 PB1_NLP A PB1 domain i 43.8 50 0.0011 23.3 4.2 54 46-104 5-70 (82)
15 cd01406 SIR2-like Sir2-like: P 43.6 49 0.0011 26.6 4.7 58 42-105 1-58 (242)
16 cd06398 PB1_Joka2 The PB1 doma 39.7 66 0.0014 23.2 4.4 55 46-100 5-72 (91)
17 cd06397 PB1_UP1 Uncharacterize 38.9 1.1E+02 0.0024 22.2 5.4 54 46-104 5-69 (82)
18 PF02209 VHP: Villin headpiece 38.3 13 0.00029 22.9 0.5 19 61-79 1-19 (36)
19 PRK10308 3-methyl-adenine DNA 37.7 1.1E+02 0.0024 26.1 6.1 62 41-102 45-121 (283)
20 smart00153 VHP Villin headpiec 37.2 16 0.00034 22.4 0.6 18 61-78 1-18 (36)
21 PF00651 BTB: BTB/POZ domain; 35.0 77 0.0017 21.4 4.0 57 44-105 13-74 (111)
22 PF11834 DUF3354: Domain of un 34.4 34 0.00074 23.7 2.1 17 65-81 26-42 (69)
23 PF11822 DUF3342: Domain of un 33.7 51 0.0011 29.3 3.5 54 52-108 13-71 (317)
24 cd04404 RhoGAP-p50rhoGAP RhoGA 33.7 1.5E+02 0.0032 23.3 5.9 44 65-109 24-68 (195)
25 PF00564 PB1: PB1 domain; Int 33.6 1.4E+02 0.0031 19.7 6.8 55 46-105 6-72 (84)
26 PF12058 DUF3539: Protein of u 32.2 9.3 0.0002 28.1 -1.1 11 60-70 4-14 (88)
27 cd06396 PB1_NBR1 The PB1 domai 30.1 1.2E+02 0.0027 21.7 4.4 55 49-106 8-71 (81)
28 PF02100 ODC_AZ: Ornithine dec 29.2 67 0.0015 23.8 3.0 52 50-102 22-77 (108)
29 PF08948 DUF1859: Domain of un 28.7 29 0.00063 26.7 1.0 28 40-68 86-123 (126)
30 KOG2844 Dimethylglycine dehydr 28.5 1.2E+02 0.0026 30.3 5.3 61 67-127 103-168 (856)
31 cd04395 RhoGAP_ARHGAP21 RhoGAP 27.4 1.5E+02 0.0032 23.4 4.9 44 64-107 18-61 (196)
32 PF06849 DUF1246: Protein of u 26.5 4.8 0.0001 31.3 -3.6 22 38-59 69-92 (124)
33 PF14062 DUF4253: Domain of un 25.8 1.9E+02 0.0042 21.3 5.0 73 14-104 29-102 (111)
34 PF07369 DUF1488: Protein of u 24.9 1.3E+02 0.0027 20.5 3.6 20 43-62 18-37 (83)
35 COG1759 5-formaminoimidazole-4 23.8 40 0.00086 30.5 1.1 37 38-75 89-136 (361)
36 PF14317 YcxB: YcxB-like prote 22.6 1.4E+02 0.0031 18.0 3.3 31 41-72 29-59 (62)
37 COG4862 MecA Negative regulato 21.9 57 0.0012 27.7 1.7 27 63-89 37-63 (224)
38 TIGR03687 pupylate_cterm ubiqu 21.7 46 0.001 20.4 0.8 19 67-85 12-32 (33)
39 TIGR03464 HpnC squalene syntha 20.8 2.3E+02 0.005 23.4 5.0 51 63-126 67-117 (266)
No 1
>PLN03090 auxin-responsive family protein; Provisional
Probab=100.00 E-value=1.3e-42 Score=258.24 Aligned_cols=100 Identities=36% Similarity=0.677 Sum_probs=93.9
Q ss_pred CCCCcccchhhHHHHHHHHHHHhhhhhccC---CCCCCCCCCCcEEEEecccceeeeeeccccCcHHHHHHHHHHHHhcC
Q 043725 3 VGFGKCSKIRHIVRLRQMLRRWRNKARMSA---ARIPSDVPAGYVAVCVGTSCRRFVVRATYLNHPVFKKLLVQAEEEYG 79 (150)
Q Consensus 3 ~~~~k~~ki~~~~rLkq~~kkW~~~a~~~~---~~~~~~vpkG~~aVYVG~e~~RfvVp~~yLnhP~F~~LL~~aeEEfG 79 (150)
|+++|++||+++++|+||++||+++++.+. ...|.+||+||||||||++++||+||++|||||+|++||++||||||
T Consensus 1 m~~~k~~ki~~~~~~kq~l~r~~s~~~~~~~~~~~~~~~vpkG~~aVyVG~~~~RfvVp~~~L~hP~F~~LL~~aeeEfG 80 (104)
T PLN03090 1 MAIKKSNKLTQTAMLKQILKRCSSLGKKQGYDEDGLPLDVPKGHFPVYVGENRSRYIVPISFLTHPEFQSLLQQAEEEFG 80 (104)
T ss_pred CCcccccchhHHHHHHHHHHHHHHhcccCCcccccCCCCCCCCcEEEEECCCCEEEEEEHHHcCCHHHHHHHHHHHHHhC
Confidence 578999999999999999999999886543 34678999999999999999999999999999999999999999999
Q ss_pred CCCCCCeeecCCHHHHHHHHHHH
Q 043725 80 FTNQGPLAIPCDESLFEEAIRFI 102 (150)
Q Consensus 80 f~~~G~L~IPC~~~~Fe~ll~~i 102 (150)
|+++|+|+||||+++|++++|+|
T Consensus 81 f~~~G~L~IPC~~~~Fe~ll~~i 103 (104)
T PLN03090 81 FDHDMGLTIPCEEVVFRSLTSMI 103 (104)
T ss_pred CCCCCcEEEeCCHHHHHHHHHHh
Confidence 99999999999999999999998
No 2
>PF02519 Auxin_inducible: Auxin responsive protein; InterPro: IPR003676 This family consists of the protein products of a gene cluster that encodes a group of auxin-regulated RNAs (small auxin up RNAs, SAURs) []. Proteins from this ARG7 auxin responsive genes family have no identified functional role [].
Probab=100.00 E-value=5.4e-35 Score=215.28 Aligned_cols=87 Identities=48% Similarity=0.877 Sum_probs=75.2
Q ss_pred HHHHHHHHhhhhhccCC-------CCCCCCCCCcEEEEecccceeeeeeccccCcHHHHHHHHHHHHhcCCCCCCCeeec
Q 043725 17 LRQMLRRWRNKARMSAA-------RIPSDVPAGYVAVCVGTSCRRFVVRATYLNHPVFKKLLVQAEEEYGFTNQGPLAIP 89 (150)
Q Consensus 17 Lkq~~kkW~~~a~~~~~-------~~~~~vpkG~~aVYVG~e~~RfvVp~~yLnhP~F~~LL~~aeEEfGf~~~G~L~IP 89 (150)
..+++++|++.++..+. ....++|+||||||||++++||+||++|||||+|++||++|+|||||+++|+|+||
T Consensus 7 ~~~~~~k~~~~~~~~~~~~~~~~~~~~~~vp~G~~~VyVG~~~~Rfvvp~~~L~hp~f~~LL~~aeeEfG~~~~G~l~iP 86 (100)
T PF02519_consen 7 SLASAKKWQSRARSKSSSSSSSRSSSESDVPKGHFAVYVGEERRRFVVPVSYLNHPLFQELLEQAEEEFGFDQDGPLTIP 86 (100)
T ss_pred HHHHHHhhhhhhhhcccccccccccccCCCCCCeEEEEeCccceEEEechHHcCchhHHHHHHHHhhhcCcCCCCcEEee
Confidence 44556677776543221 11378999999999999999999999999999999999999999999999999999
Q ss_pred CCHHHHHHHHHHHh
Q 043725 90 CDESLFEEAIRFIS 103 (150)
Q Consensus 90 C~~~~Fe~ll~~i~ 103 (150)
||+++|++++|+|+
T Consensus 87 C~~~~Fe~~l~~le 100 (100)
T PF02519_consen 87 CDVVLFEHLLWLLE 100 (100)
T ss_pred CCHHHHHHHHHHhC
Confidence 99999999999985
No 3
>PLN03220 uncharacterized protein; Provisional
Probab=100.00 E-value=6.9e-34 Score=211.72 Aligned_cols=67 Identities=49% Similarity=0.867 Sum_probs=62.6
Q ss_pred CCCCCCCCCcEEEEecc----cceeeeeeccccCcHHHHHHHHHHHHhcCCCC-CCCeeecCCHHHHHHHHH
Q 043725 34 RIPSDVPAGYVAVCVGT----SCRRFVVRATYLNHPVFKKLLVQAEEEYGFTN-QGPLAIPCDESLFEEAIR 100 (150)
Q Consensus 34 ~~~~~vpkG~~aVYVG~----e~~RfvVp~~yLnhP~F~~LL~~aeEEfGf~~-~G~L~IPC~~~~Fe~ll~ 100 (150)
..+.+|||||||||||+ +++||+||++|||||+|++||++|||||||+| +|+|+|||+++.|++++.
T Consensus 30 ~~~~~VPkGh~aVyVGe~~~~e~kRFVVPv~yL~hP~F~~LL~~AeEEfGf~~~~G~L~IPCd~~~F~~ll~ 101 (105)
T PLN03220 30 SSSDHVPKGHVAVYVGEQIEMEKKRFVVPISFLNHPSFKEFLSRAEEEFGFNHPMGGLTIPCREEVFLDLIA 101 (105)
T ss_pred cccCCCCCCeEEEEECCCCCccceEEEEEHHHcCChHHHHHHHHHHHHhCCCCCCCCEEeeCCHHHHHHHHH
Confidence 35679999999999997 47999999999999999999999999999998 699999999999999975
No 4
>PLN03219 uncharacterized protein; Provisional
Probab=99.97 E-value=1.2e-31 Score=200.46 Aligned_cols=69 Identities=48% Similarity=0.762 Sum_probs=63.8
Q ss_pred CCCCCCCCCcEEEEecc--cceeeeeeccccCcHHHHHHHHHHHHhcCCCC-CCCeeecCCHHHHHHHHHHH
Q 043725 34 RIPSDVPAGYVAVCVGT--SCRRFVVRATYLNHPVFKKLLVQAEEEYGFTN-QGPLAIPCDESLFEEAIRFI 102 (150)
Q Consensus 34 ~~~~~vpkG~~aVYVG~--e~~RfvVp~~yLnhP~F~~LL~~aeEEfGf~~-~G~L~IPC~~~~Fe~ll~~i 102 (150)
+.+.+||+||||||||+ +++||+||++|||||+|++||++|||||||++ +|+|+|||+++.|++++..-
T Consensus 34 ~~~~~vpkGh~aVYVG~~~E~kRFvVPi~yL~hP~F~~LL~~AeEEfGf~~~~G~L~IPCd~~~F~~ll~~~ 105 (108)
T PLN03219 34 TTSGLVPKGHVAVYVGEQMEKKRFVVPISYLNHPLFREFLNRAEEECGFHHSMGGLTIPCREESFLHLITSH 105 (108)
T ss_pred CCCCCCCCCeEEEEECCCCCceEEEEEHHHcCChHHHHHHHHHHHHhCCCCCCCCEEEeCCHHHHHHHHHhh
Confidence 34678999999999997 58999999999999999999999999999997 69999999999999998753
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=84.66 E-value=0.8 Score=31.80 Aligned_cols=58 Identities=19% Similarity=0.281 Sum_probs=43.5
Q ss_pred EEecccceeeeeeccccC-c--HHHHHHHHHHHHhcCCCCCCCeeecCCHHHHHHHHHHHhcC
Q 043725 46 VCVGTSCRRFVVRATYLN-H--PVFKKLLVQAEEEYGFTNQGPLAIPCDESLFEEAIRFISRS 105 (150)
Q Consensus 46 VYVG~e~~RfvVp~~yLn-h--P~F~~LL~~aeEEfGf~~~G~L~IPC~~~~Fe~ll~~i~~~ 105 (150)
.=|| .++|.++.+.|. + ..|..++........-+.+|.+-|-++...|++|+..++.+
T Consensus 3 lNVG--G~~f~~~~~tL~~~~~s~l~~~~~~~~~~~~~~~~~~~fiDRdp~~F~~IL~ylr~~ 63 (94)
T PF02214_consen 3 LNVG--GTIFETSRSTLTRYPDSLLARLFSGERSDDYDDDDGEYFIDRDPELFEYILNYLRTG 63 (94)
T ss_dssp EEET--TEEEEEEHHHHHTSTTSTTTSHHHTGHGGGEETTTTEEEESS-HHHHHHHHHHHHHT
T ss_pred EEEC--CEEEEEcHHHHhhCCCChhhhHHhhccccccCCccceEEeccChhhhhHHHHHHhhc
Confidence 3466 589999998877 4 47888887653222234579999999999999999999985
No 6
>PRK02899 adaptor protein; Provisional
Probab=83.27 E-value=1 Score=36.77 Aligned_cols=25 Identities=36% Similarity=0.910 Sum_probs=21.8
Q ss_pred cHHHHHHHHHHHHhcCCCCCCCeee
Q 043725 64 HPVFKKLLVQAEEEYGFTNQGPLAI 88 (150)
Q Consensus 64 hP~F~~LL~~aeEEfGf~~~G~L~I 88 (150)
+-+|.++|++|..|+||..+|||+|
T Consensus 38 e~lF~~mm~Ea~~e~~F~~~~pl~~ 62 (197)
T PRK02899 38 HQLFRDMMQEANKELGFEADGPIAV 62 (197)
T ss_pred HHHHHHHHHHhhhccCcccCCeEEE
Confidence 3578888999999999999999984
No 7
>PRK02315 adaptor protein; Provisional
Probab=76.79 E-value=1.8 Score=35.97 Aligned_cols=25 Identities=28% Similarity=0.585 Sum_probs=22.6
Q ss_pred cHHHHHHHHHHHHhcCCCCCCCeee
Q 043725 64 HPVFKKLLVQAEEEYGFTNQGPLAI 88 (150)
Q Consensus 64 hP~F~~LL~~aeEEfGf~~~G~L~I 88 (150)
+-+|.++|++|..|+||..+|||++
T Consensus 38 e~fF~~mm~Ea~~e~~F~~~~pl~~ 62 (233)
T PRK02315 38 EEFFYSMMDEVDEEDDFADEGPLWF 62 (233)
T ss_pred HHHHHHHHHHhccccCcccCCeEEE
Confidence 4589999999999999999999975
No 8
>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=75.30 E-value=6.3 Score=26.48 Aligned_cols=53 Identities=26% Similarity=0.412 Sum_probs=38.2
Q ss_pred EecccceeeeeeccccCcHHHHHHHHHHHHhcCCC----------CCC-CeeecCCHHHHHHHHHHHhc
Q 043725 47 CVGTSCRRFVVRATYLNHPVFKKLLVQAEEEYGFT----------NQG-PLAIPCDESLFEEAIRFISR 104 (150)
Q Consensus 47 YVG~e~~RfvVp~~yLnhP~F~~LL~~aeEEfGf~----------~~G-~L~IPC~~~~Fe~ll~~i~~ 104 (150)
+-|++.+||.+|- .+.|.+|..+..+.|+.. .+| .++|.++. .++.++.+...
T Consensus 7 ~~~~~~~~~~~~~----~~s~~dL~~~i~~~~~~~~~~~~l~Y~Dedgd~v~l~sd~-Dl~~a~~~~~~ 70 (81)
T smart00666 7 RYGGETRRLSVPR----DISFEDLRSKVAKRFGLDNQSFTLKYQDEDGDLVSLTSDE-DLEEAIEEYDS 70 (81)
T ss_pred EECCEEEEEEECC----CCCHHHHHHHHHHHhCCCCCCeEEEEECCCCCEEEecCHH-HHHHHHHHHHH
Confidence 3477889999985 778999999999999874 134 66677754 45555655543
No 9
>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=71.72 E-value=1.3 Score=36.04 Aligned_cols=25 Identities=44% Similarity=0.796 Sum_probs=0.0
Q ss_pred cHHHHHHHHHHHHhcCCCCCCCeee
Q 043725 64 HPVFKKLLVQAEEEYGFTNQGPLAI 88 (150)
Q Consensus 64 hP~F~~LL~~aeEEfGf~~~G~L~I 88 (150)
+-.|.++|++|.+|+||..+|||++
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 5689999999999999999998875
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=70.32 E-value=11 Score=24.99 Aligned_cols=55 Identities=35% Similarity=0.494 Sum_probs=39.6
Q ss_pred EEecccceeeeeeccccCcHHHHHHHHHHHHhcCCC----------CCC-CeeecCCHHHHHHHHHHHhc
Q 043725 46 VCVGTSCRRFVVRATYLNHPVFKKLLVQAEEEYGFT----------NQG-PLAIPCDESLFEEAIRFISR 104 (150)
Q Consensus 46 VYVG~e~~RfvVp~~yLnhP~F~~LL~~aeEEfGf~----------~~G-~L~IPC~~~~Fe~ll~~i~~ 104 (150)
|+-+++.+||.+|. .++.|.+|..+..+.|++. .+| .++|-++ +.|+.++....+
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 44455789999997 7899999999999999885 134 3444444 567777776654
No 11
>PRK02797 4-alpha-L-fucosyltransferase; Provisional
Probab=65.61 E-value=24 Score=31.38 Aligned_cols=67 Identities=16% Similarity=0.321 Sum_probs=50.6
Q ss_pred CCCCcEEEEecc--------------------cceeeeeeccc--cCcHHHHHHHHHHHHhcCCCCCCCeeecCCHHHHH
Q 043725 39 VPAGYVAVCVGT--------------------SCRRFVVRATY--LNHPVFKKLLVQAEEEYGFTNQGPLAIPCDESLFE 96 (150)
Q Consensus 39 vpkG~~aVYVG~--------------------e~~RfvVp~~y--LnhP~F~~LL~~aeEEfGf~~~G~L~IPC~~~~Fe 96 (150)
.+++.+.+.||. +.-|++||++| =|.-..++..+.+.+-||- +-+++-=+---|+
T Consensus 142 ~~~~~~tIlvGNSgd~SN~Hie~L~~l~~~~~~~v~ii~PlsYp~gn~~Yi~~V~~~~~~lF~~---~~~~~L~e~l~f~ 218 (322)
T PRK02797 142 QRAGKMTILVGNSGDRSNRHIEALRALHQQFGDNVKIIVPMGYPANNQAYIEEVRQAGLALFGA---ENFQILTEKLPFD 218 (322)
T ss_pred cCCCceEEEEeCCCCCcccHHHHHHHHHHHhCCCeEEEEECCcCCCCHHHHHHHHHHHHHhcCc---ccEEehhhhCCHH
Confidence 467889999993 24599999999 6666777777777788873 3466667777788
Q ss_pred HHHHHHhcCCCc
Q 043725 97 EAIRFISRSESG 108 (150)
Q Consensus 97 ~ll~~i~~~~~~ 108 (150)
..+.+|.+-|-+
T Consensus 219 eYl~lL~~~Dl~ 230 (322)
T PRK02797 219 DYLALLRQCDLG 230 (322)
T ss_pred HHHHHHHhCCEE
Confidence 888888876643
No 12
>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=55.67 E-value=41 Score=30.43 Aligned_cols=68 Identities=19% Similarity=0.356 Sum_probs=50.6
Q ss_pred CCCCCcEEEEecc--------------------cceeeeeeccccC--cHHHHHHHHHHHHhcCCCCCCCeeecCCHHHH
Q 043725 38 DVPAGYVAVCVGT--------------------SCRRFVVRATYLN--HPVFKKLLVQAEEEYGFTNQGPLAIPCDESLF 95 (150)
Q Consensus 38 ~vpkG~~aVYVG~--------------------e~~RfvVp~~yLn--hP~F~~LL~~aeEEfGf~~~G~L~IPC~~~~F 95 (150)
..+++-..+.||. +..|++||++|=. .-...++.+.+++-||- +-+.+-=+---|
T Consensus 180 ~~~~~~ltILvGNSgd~sNnHieaL~~L~~~~~~~~kIivPLsYg~~n~~Yi~~V~~~~~~lF~~---~~~~iL~e~mpf 256 (360)
T PF07429_consen 180 KKNKGKLTILVGNSGDPSNNHIEALEALKQQFGDDVKIIVPLSYGANNQAYIQQVIQAGKELFGA---ENFQILTEFMPF 256 (360)
T ss_pred cCCCCceEEEEcCCCCCCccHHHHHHHHHHhcCCCeEEEEECCCCCchHHHHHHHHHHHHHhcCc---cceeEhhhhCCH
Confidence 3457889999982 3579999999974 56788888888888883 345555566678
Q ss_pred HHHHHHHhcCCCc
Q 043725 96 EEAIRFISRSESG 108 (150)
Q Consensus 96 e~ll~~i~~~~~~ 108 (150)
+..+.++++-+-+
T Consensus 257 ~eYl~lL~~cDl~ 269 (360)
T PF07429_consen 257 DEYLALLSRCDLG 269 (360)
T ss_pred HHHHHHHHhCCEE
Confidence 8888888876643
No 13
>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=43.84 E-value=48 Score=24.26 Aligned_cols=34 Identities=26% Similarity=0.299 Sum_probs=25.8
Q ss_pred EEEecccceeeeeeccccCcHHHHHHHHHHHHhcCCCC
Q 043725 45 AVCVGTSCRRFVVRATYLNHPVFKKLLVQAEEEYGFTN 82 (150)
Q Consensus 45 aVYVG~e~~RfvVp~~yLnhP~F~~LL~~aeEEfGf~~ 82 (150)
.=|||.+.+-..|+-+ -.|.+|..+..+.++...
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 4699988887778866 467778888888877654
No 14
>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=43.82 E-value=50 Score=23.29 Aligned_cols=54 Identities=19% Similarity=0.284 Sum_probs=36.5
Q ss_pred EEecccceeeeeeccccCcHHHHHHHHHHHHhcCCCC-----------C-CCeeecCCHHHHHHHHHHHhc
Q 043725 46 VCVGTSCRRFVVRATYLNHPVFKKLLVQAEEEYGFTN-----------Q-GPLAIPCDESLFEEAIRFISR 104 (150)
Q Consensus 46 VYVG~e~~RfvVp~~yLnhP~F~~LL~~aeEEfGf~~-----------~-G~L~IPC~~~~Fe~ll~~i~~ 104 (150)
+..|++..||.+|.. .-|++|.++-.+-|++.. + ..++|.|+.++=| .+...+.
T Consensus 5 ~~~~~d~~r~~l~~~----~~~~~L~~~i~~r~~~~~~~~f~LkY~Ddegd~v~ltsd~DL~e-ai~i~~~ 70 (82)
T cd06407 5 ATYGEEKIRFRLPPS----WGFTELKQEIAKRFKLDDMSAFDLKYLDDDEEWVLLTCDADLEE-CIDVYRS 70 (82)
T ss_pred EEeCCeEEEEEcCCC----CCHHHHHHHHHHHhCCCCCCeeEEEEECCCCCeEEeecHHHHHH-HHHHHHH
Confidence 344678899998863 368999999888887642 2 3667788876544 3444443
No 15
>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=43.59 E-value=49 Score=26.64 Aligned_cols=58 Identities=24% Similarity=0.352 Sum_probs=36.6
Q ss_pred CcEEEEecccceeeeeeccccCcHHHHHHHHHHHHhcCCCCCCCeeecCCHHHHHHHHHHHhcC
Q 043725 42 GYVAVCVGTSCRRFVVRATYLNHPVFKKLLVQAEEEYGFTNQGPLAIPCDESLFEEAIRFISRS 105 (150)
Q Consensus 42 G~~aVYVG~e~~RfvVp~~yLnhP~F~~LL~~aeEEfGf~~~G~L~IPC~~~~Fe~ll~~i~~~ 105 (150)
|++++++|..-. .. .+-|.+.+|++...+++|.+.+....-.=+...+..+..++.+.
T Consensus 1 g~lvlFiGAG~S-----~~-~glP~W~~Ll~~l~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~ 58 (242)
T cd01406 1 GRVVIFVGAGVS-----VS-SGLPDWKTLLDEIASELGLEIDGYSVEAKDENDYLELAELLEKE 58 (242)
T ss_pred CCEEEEecCccc-----cc-cCCCChHHHHHHHHHHcCCccchhhccccchhhHHHHHHHHHHH
Confidence 789999997622 22 57899999999999999876432111001334455555555443
No 16
>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=39.74 E-value=66 Score=23.19 Aligned_cols=55 Identities=20% Similarity=0.225 Sum_probs=36.9
Q ss_pred EEecccceeeeeeccc-cCcHHHHHHHHHHHHhcCCCC-----------CC-CeeecCCHHHHHHHHH
Q 043725 46 VCVGTSCRRFVVRATY-LNHPVFKKLLVQAEEEYGFTN-----------QG-PLAIPCDESLFEEAIR 100 (150)
Q Consensus 46 VYVG~e~~RfvVp~~y-LnhP~F~~LL~~aeEEfGf~~-----------~G-~L~IPC~~~~Fe~ll~ 100 (150)
|.-|++.+||-+|.+- -.+.-|..|.++-++-|.... +| -++|-||.++-+-+-.
T Consensus 5 v~y~~~~rRf~l~~~~~~~d~~~~~L~~kI~~~f~l~~~~~~~l~Y~Dedgd~V~l~~D~DL~~a~~~ 72 (91)
T cd06398 5 VKYGGTLRRFTFPVAENQLDLNMDGLREKVEELFSLSPDADLSLTYTDEDGDVVTLVDDNDLTDAIQY 72 (91)
T ss_pred EEeCCEEEEEEeccccccCCCCHHHHHHHHHHHhCCCCCCcEEEEEECCCCCEEEEccHHHHHHHHHH
Confidence 3347789999999641 114578999999998887753 23 5567777766544433
No 17
>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=38.92 E-value=1.1e+02 Score=22.24 Aligned_cols=54 Identities=19% Similarity=0.326 Sum_probs=38.3
Q ss_pred EEecccceeeeeeccccCcHHHHHHHHHHHHhcCCCC----------C-CCeeecCCHHHHHHHHHHHhc
Q 043725 46 VCVGTSCRRFVVRATYLNHPVFKKLLVQAEEEYGFTN----------Q-GPLAIPCDESLFEEAIRFISR 104 (150)
Q Consensus 46 VYVG~e~~RfvVp~~yLnhP~F~~LL~~aeEEfGf~~----------~-G~L~IPC~~~~Fe~ll~~i~~ 104 (150)
|--|.+.|||..|. -|.+.+|-++.+.-|-+.. + ..|||.=+.++.+ +.....+
T Consensus 5 v~~~g~~RRf~~~~----~pt~~~L~~kl~~Lf~lp~~~~~vtYiDeD~D~ITlssd~eL~d-~~~~~~~ 69 (82)
T cd06397 5 SSFLGDTRRIVFPD----IPTWEALASKLENLYNLPEIKVGVTYIDNDNDEITLSSNKELQD-FYRLSHR 69 (82)
T ss_pred EEeCCceEEEecCC----CccHHHHHHHHHHHhCCChhHeEEEEEcCCCCEEEecchHHHHH-HHHhccc
Confidence 33455789999998 8999999999998887762 3 3677776665554 4444443
No 18
>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=38.32 E-value=13 Score=22.86 Aligned_cols=19 Identities=32% Similarity=0.534 Sum_probs=15.3
Q ss_pred ccCcHHHHHHHHHHHHhcC
Q 043725 61 YLNHPVFKKLLVQAEEEYG 79 (150)
Q Consensus 61 yLnhP~F~~LL~~aeEEfG 79 (150)
||+.-.|++++.|+.+||.
T Consensus 1 YLsd~dF~~vFgm~~~eF~ 19 (36)
T PF02209_consen 1 YLSDEDFEKVFGMSREEFY 19 (36)
T ss_dssp GS-HHHHHHHHSS-HHHHH
T ss_pred CcCHHHHHHHHCCCHHHHH
Confidence 7899999999999999983
No 19
>PRK10308 3-methyl-adenine DNA glycosylase II; Provisional
Probab=37.69 E-value=1.1e+02 Score=26.10 Aligned_cols=62 Identities=19% Similarity=0.261 Sum_probs=43.2
Q ss_pred CCcEEEEecccceeeeeeccccCcHHHHHHHHHHHHhcCCCCC---------------CCeeecCCHHHHHHHHHHH
Q 043725 41 AGYVAVCVGTSCRRFVVRATYLNHPVFKKLLVQAEEEYGFTNQ---------------GPLAIPCDESLFEEAIRFI 102 (150)
Q Consensus 41 kG~~aVYVG~e~~RfvVp~~yLnhP~F~~LL~~aeEEfGf~~~---------------G~L~IPC~~~~Fe~ll~~i 102 (150)
.|.+.|.-.++..++.|.++.-.-|....++.....-|+++.| -+|++|...+.||.+++.|
T Consensus 45 ~~~~~v~~~~~~~~l~~~~~~~~~~~~~~~~~~vrr~fdLd~d~~~i~~~L~~~~~~~~GlR~p~~~d~fE~lv~aI 121 (283)
T PRK10308 45 RGVVTVIPDIARHTLHINLSAGLEPVAAECLAKMSRLFDLQCNPQIVNGALGKLGAARPGLRLPGSVDAFEQGVRAI 121 (283)
T ss_pred cEEEEEEEcCCCceEEEEEcCCccccHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHhCCCCcCCCCCCHHHHHHHHH
Confidence 4666666544455566666554345566778888877777654 3689999999999888776
No 20
>smart00153 VHP Villin headpiece domain.
Probab=37.18 E-value=16 Score=22.45 Aligned_cols=18 Identities=28% Similarity=0.591 Sum_probs=16.6
Q ss_pred ccCcHHHHHHHHHHHHhc
Q 043725 61 YLNHPVFKKLLVQAEEEY 78 (150)
Q Consensus 61 yLnhP~F~~LL~~aeEEf 78 (150)
||+.-.|++++.|+.+||
T Consensus 1 yLsdeeF~~vfgmsr~eF 18 (36)
T smart00153 1 YLSDEDFEEVFGMTREEF 18 (36)
T ss_pred CCCHHHHHHHHCCCHHHH
Confidence 789999999999999998
No 21
>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=35.04 E-value=77 Score=21.45 Aligned_cols=57 Identities=23% Similarity=0.505 Sum_probs=40.1
Q ss_pred EEEEecccceeeeeecccc--CcHHHHHHHHHHHHhcCCCCCC--Ceeec-CCHHHHHHHHHHHhcC
Q 043725 44 VAVCVGTSCRRFVVRATYL--NHPVFKKLLVQAEEEYGFTNQG--PLAIP-CDESLFEEAIRFISRS 105 (150)
Q Consensus 44 ~aVYVG~e~~RfvVp~~yL--nhP~F~~LL~~aeEEfGf~~~G--~L~IP-C~~~~Fe~ll~~i~~~ 105 (150)
+.+.||. .++|-+.-..| ..|.|+.+++.. +....+ .+.++ ++.+.|+.++..+-.+
T Consensus 13 ~~i~v~d-~~~~~vhk~iL~~~S~~F~~~~~~~----~~~~~~~~~i~~~~~~~~~~~~~l~~~Y~~ 74 (111)
T PF00651_consen 13 VTIRVGD-GKTFYVHKNILAARSPYFRNLFEGS----KFKESTVPEISLPDVSPEAFEAFLEYMYTG 74 (111)
T ss_dssp EEEEETT-TEEEEE-HHHHHHHBHHHHHHHTTT----TSTTSSEEEEEETTSCHHHHHHHHHHHHHS
T ss_pred EEEEECC-CEEEeechhhhhccchhhhhccccc----ccccccccccccccccccccccccccccCC
Confidence 4555653 68888888777 459999999887 222233 35555 7899999999999755
No 22
>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=34.44 E-value=34 Score=23.73 Aligned_cols=17 Identities=35% Similarity=0.681 Sum_probs=15.4
Q ss_pred HHHHHHHHHHHHhcCCC
Q 043725 65 PVFKKLLVQAEEEYGFT 81 (150)
Q Consensus 65 P~F~~LL~~aeEEfGf~ 81 (150)
-.+++||+.|++.||+.
T Consensus 26 ~SleeLl~ia~~kfg~~ 42 (69)
T PF11834_consen 26 DSLEELLKIASEKFGFS 42 (69)
T ss_pred ccHHHHHHHHHHHhCCC
Confidence 37999999999999985
No 23
>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=33.74 E-value=51 Score=29.28 Aligned_cols=54 Identities=19% Similarity=0.398 Sum_probs=41.6
Q ss_pred ceeeeeeccccC--cHHHHHHHHH---HHHhcCCCCCCCeeecCCHHHHHHHHHHHhcCCCc
Q 043725 52 CRRFVVRATYLN--HPVFKKLLVQ---AEEEYGFTNQGPLAIPCDESLFEEAIRFISRSESG 108 (150)
Q Consensus 52 ~~RfvVp~~yLn--hP~F~~LL~~---aeEEfGf~~~G~L~IPC~~~~Fe~ll~~i~~~~~~ 108 (150)
.+=|..|.+.|- ...|++.|.. ..++. .+=.|.+-||+..|+-++..+++..+.
T Consensus 13 ~rdF~C~~~lL~~~M~YF~~~l~~~~~~~~~~---~~idisVhCDv~iF~WLm~yv~~~~p~ 71 (317)
T PF11822_consen 13 KRDFTCPRDLLVSEMRYFAEYLSRYINDSQRW---EEIDISVHCDVHIFEWLMRYVKGEPPS 71 (317)
T ss_pred ceeeeccHHHHHHhhHHHHHHHhhcccccCcC---CCcceEEecChhHHHHHHHHhhcCCCc
Confidence 577889988874 5789999976 33333 245689999999999999999986544
No 24
>cd04404 RhoGAP-p50rhoGAP RhoGAP-p50rhoGAP: RhoGAP (GTPase-activator protein [GAP] for Rho-like small GTPases) domain of p50RhoGAP-like proteins; p50RhoGAP, also known as RhoGAP-1, contains a C-terminal RhoGAP domain and an N-terminal Sec14 domain which binds phosphatidylinositol 3,4,5-trisphosphate (PtdIns(3,4,5)P3). It is ubiquitously expressed and preferentially active on Cdc42. This subgroup also contains closely related ARHGAP8. Small GTPases cluster into distinct families, and all act as molecular switches, active in their GTP-bound form but inactive when GDP-bound. The Rho family of GTPases activates effectors involved in a wide variety of developmental processes, including regulation of cytoskeleton formation, cell proliferation and the JNK signaling pathway. GTPases generally have a low intrinsic GTPase hydrolytic activity but there are family-specific groups of GAPs that enhance the rate of GTP hydrolysis by several orders of magnitude.
Probab=33.67 E-value=1.5e+02 Score=23.30 Aligned_cols=44 Identities=11% Similarity=0.132 Sum_probs=33.7
Q ss_pred HHHH-HHHHHHHHhcCCCCCCCeeecCCHHHHHHHHHHHhcCCCcc
Q 043725 65 PVFK-KLLVQAEEEYGFTNQGPLAIPCDESLFEEAIRFISRSESGH 109 (150)
Q Consensus 65 P~F~-~LL~~aeEEfGf~~~G~L~IPC~~~~Fe~ll~~i~~~~~~~ 109 (150)
|.+- .+++-- ++.|.+.+|.-++|.+....+.+...++++++..
T Consensus 24 P~il~~~i~~l-~~~g~~~eGIFR~~g~~~~i~~l~~~~~~~~~~~ 68 (195)
T cd04404 24 PPVVRETVEYL-QAHALTTEGIFRRSANTQVVKEVQQKYNMGEPVD 68 (195)
T ss_pred ChHHHHHHHHH-HHcCCCCCCeeeCCCcHHHHHHHHHHHhCCCCCC
Confidence 4444 444444 4489999999999999999999999998765443
No 25
>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=33.64 E-value=1.4e+02 Score=19.67 Aligned_cols=55 Identities=27% Similarity=0.415 Sum_probs=35.2
Q ss_pred EEeccccee-eeeeccccCcHHHHHHHHHHHHhcCCC----------CCC-CeeecCCHHHHHHHHHHHhcC
Q 043725 46 VCVGTSCRR-FVVRATYLNHPVFKKLLVQAEEEYGFT----------NQG-PLAIPCDESLFEEAIRFISRS 105 (150)
Q Consensus 46 VYVG~e~~R-fvVp~~yLnhP~F~~LL~~aeEEfGf~----------~~G-~L~IPC~~~~Fe~ll~~i~~~ 105 (150)
++-+++.+| +.+| ..+.|.+|.++.++.||.. .+| .++|.++ +.|+.++....+.
T Consensus 6 ~~~~~~~~~~~~~~----~~~s~~~L~~~i~~~~~~~~~~~~l~Y~D~dgD~V~i~sd-~Dl~~a~~~~~~~ 72 (84)
T PF00564_consen 6 VRYGGDIRRIISLP----SDVSFDDLRSKIREKFGLLDEDFQLKYKDEDGDLVTISSD-EDLQEAIEQAKES 72 (84)
T ss_dssp EEETTEEEEEEEEC----STSHHHHHHHHHHHHHTTSTSSEEEEEEETTSSEEEESSH-HHHHHHHHHHHHC
T ss_pred EEECCeeEEEEEcC----CCCCHHHHHHHHHHHhCCCCccEEEEeeCCCCCEEEeCCH-HHHHHHHHHHHhc
Confidence 344555555 4444 5679999999999999984 255 4445554 4456666666543
No 26
>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=32.21 E-value=9.3 Score=28.13 Aligned_cols=11 Identities=73% Similarity=1.195 Sum_probs=7.4
Q ss_pred cccCcHHHHHH
Q 043725 60 TYLNHPVFKKL 70 (150)
Q Consensus 60 ~yLnhP~F~~L 70 (150)
.|||||.|.-|
T Consensus 4 ~YLNHPtFGlL 14 (88)
T PF12058_consen 4 TYLNHPTFGLL 14 (88)
T ss_dssp -EEEETTTEEE
T ss_pred ccccCCccchh
Confidence 58888887544
No 27
>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=30.14 E-value=1.2e+02 Score=21.70 Aligned_cols=55 Identities=13% Similarity=0.300 Sum_probs=39.2
Q ss_pred cccceeeeeeccccCcHHHHHHHHHHHHhcCCC--------CC-CCeeecCCHHHHHHHHHHHhcCC
Q 043725 49 GTSCRRFVVRATYLNHPVFKKLLVQAEEEYGFT--------NQ-GPLAIPCDESLFEEAIRFISRSE 106 (150)
Q Consensus 49 G~e~~RfvVp~~yLnhP~F~~LL~~aeEEfGf~--------~~-G~L~IPC~~~~Fe~ll~~i~~~~ 106 (150)
|++..||.++- -.++.|.+|.++-+.-|+++ .+ -+++|.|++++ +..+.+.++..
T Consensus 8 ~~d~~rf~~~~--~~~~~~~~L~~ev~~rf~l~~f~lKYlDde~e~v~lssd~eL-eE~~rl~~~~~ 71 (81)
T cd06396 8 NGESQSFLVSD--SENTTWASVEAMVKVSFGLNDIQIKYVDEENEEVSVNSQGEY-EEALKSAVRQG 71 (81)
T ss_pred CCeEEEEEecC--CCCCCHHHHHHHHHHHhCCCcceeEEEcCCCCEEEEEchhhH-HHHHHHHHhCC
Confidence 45778998874 12557999999999999864 23 38899998765 55566665543
No 28
>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=29.18 E-value=67 Score=23.79 Aligned_cols=52 Identities=17% Similarity=0.186 Sum_probs=24.9
Q ss_pred ccceeee-eecc---ccCcHHHHHHHHHHHHhcCCCCCCCeeecCCHHHHHHHHHHH
Q 043725 50 TSCRRFV-VRAT---YLNHPVFKKLLVQAEEEYGFTNQGPLAIPCDESLFEEAIRFI 102 (150)
Q Consensus 50 ~e~~Rfv-Vp~~---yLnhP~F~~LL~~aeEEfGf~~~G~L~IPC~~~~Fe~ll~~i 102 (150)
.++.=|+ +|-. -..-.-|.+|||.|||.+|.++ -.+.++=+......++.-+
T Consensus 22 ~~~~L~V~ip~~~~~~~~K~~lvaLLElAee~L~c~~-vvic~~k~~~d~~~Llr~l 77 (108)
T PF02100_consen 22 DERTLFVFIPSSALGQGSKESLVALLELAEEKLGCSH-VVICLDKNRPDRASLLRTL 77 (108)
T ss_dssp -TTEEEEE-SS---SS--SHHHHHHHHHHHHHH-----EEEEE---SS-HHHHHHHH
T ss_pred cCCEEEEEECCcccccccHHHHHHHHHHhcCcCCCCE-EEEEEECCchhHHHhhhhc
Confidence 3455555 4543 3345789999999999998654 3455554444444444433
No 29
>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=28.69 E-value=29 Score=26.70 Aligned_cols=28 Identities=29% Similarity=0.516 Sum_probs=8.4
Q ss_pred CCCcEEEEecccceeee----------eeccccCcHHHH
Q 043725 40 PAGYVAVCVGTSCRRFV----------VRATYLNHPVFK 68 (150)
Q Consensus 40 pkG~~aVYVG~e~~Rfv----------Vp~~yLnhP~F~ 68 (150)
..||||+.| ..+-+|+ +|+-|||.|+-+
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 479999999 3455555 688888888644
No 30
>KOG2844 consensus Dimethylglycine dehydrogenase precursor [Amino acid transport and metabolism]
Probab=28.53 E-value=1.2e+02 Score=30.29 Aligned_cols=61 Identities=20% Similarity=0.263 Sum_probs=47.1
Q ss_pred HHHHHHHHHHhcCCC----CCCCeeecCCHHHHHHHHHHHhcCCCccccc-ccchhhhhhhhccCc
Q 043725 67 FKKLLVQAEEEYGFT----NQGPLAIPCDESLFEEAIRFISRSESGHSAR-FVNFEDFQRYCHVGF 127 (150)
Q Consensus 67 F~~LL~~aeEEfGf~----~~G~L~IPC~~~~Fe~ll~~i~~~~~~~~~r-~~~~~~~~~~c~~~~ 127 (150)
-+.|.++.|||-|+. |.|.|.|.-.-+.....-.++.+......+- .+|+|+.+..|....
T Consensus 103 ~~~l~~~leeEtgl~tGwiq~G~~~lAs~~~R~de~kR~~S~g~a~g~e~~lLsPee~~~~~pLLn 168 (856)
T KOG2844|consen 103 SRVLYRELEEETGLHTGWIQNGGIFLASNRQRLDEYKRLMSRGKAHGVESELLSPEETQELFPLLN 168 (856)
T ss_pred HHHHHHHHHHhcCCCcceecCCceEEecCHHHHHHHHHHHHhhhhccceeeecCHHHHHHhCcccc
Confidence 355666777777654 7999999998888888888888877666655 778999998887653
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=27.41 E-value=1.5e+02 Score=23.43 Aligned_cols=44 Identities=14% Similarity=0.232 Sum_probs=35.7
Q ss_pred cHHHHHHHHHHHHhcCCCCCCCeeecCCHHHHHHHHHHHhcCCC
Q 043725 64 HPVFKKLLVQAEEEYGFTNQGPLAIPCDESLFEEAIRFISRSES 107 (150)
Q Consensus 64 hP~F~~LL~~aeEEfGf~~~G~L~IPC~~~~Fe~ll~~i~~~~~ 107 (150)
=|.|.+..-..-++.|...+|.-++|.+...-+.+...++++..
T Consensus 18 vP~iv~~~~~~l~~~g~~~eGIFR~~g~~~~i~~l~~~l~~~~~ 61 (196)
T cd04395 18 VPLIVEVCCNIVEARGLETVGIYRVPGNNAAISALQEELNRGGF 61 (196)
T ss_pred CChHHHHHHHHHHHcCCCCccceeCCCcHHHHHHHHHHHhcCCC
Confidence 35565555556688899999999999999999999999987753
No 32
>PF06849 DUF1246: Protein of unknown function (DUF1246); InterPro: IPR010672 The last two steps of de novo purine biosynthesis are: i) conversion of 5-aminoimidazole-4-carboxamide-1-beta-D-ribofuranosyl 5'-monophosphate (AICAR) to 5-formaminoimidazole-4-carboxamide-1-beta-D-ribofuranosyl 5'-monophosphate (FAICAR) ii) conversion of FAICAR to inosine5'-monophopsphate (IMP) In bacteria and eukaryotes, these steps are catalysed by the well-characterised bifunctional enzyme PurH []. Archaea do not appear to posses PurH, however, and perform these reactions by a different mecahnism []. In archaea, step i) is catalysed by the well-conserved PurP protein, while step ii) is catalysed by the PurO enzyme in some (though not all) species [, ]. This entry represents the N-terminal domain of PurP. Its function is not known, though it is almost always found in association with IPR009720 from INTERPRO.; GO: 0000287 magnesium ion binding, 0005524 ATP binding, 0016879 ligase activity, forming carbon-nitrogen bonds, 0006188 IMP biosynthetic process; PDB: 2PBZ_C 2R85_B 2R87_E 2R84_A 2R86_A 2R7L_A 2R7N_A 2R7K_A 2R7M_A.
Probab=26.46 E-value=4.8 Score=31.28 Aligned_cols=22 Identities=32% Similarity=0.369 Sum_probs=13.2
Q ss_pred CCCCCcEEEEecccc--eeeeeec
Q 043725 38 DVPAGYVAVCVGTSC--RRFVVRA 59 (150)
Q Consensus 38 ~vpkG~~aVYVG~e~--~RfvVp~ 59 (150)
-||.|-|++|||-++ .+|.||+
T Consensus 69 ~VPhgSfv~Y~G~d~ie~~~~vP~ 92 (124)
T PF06849_consen 69 FVPHGSFVAYVGYDRIENEFKVPI 92 (124)
T ss_dssp E--BTTHHHHH-HHHHHHT-SS-E
T ss_pred EecCCCeeEeecHHHHhhcCCCCe
Confidence 589999999999763 4477776
No 33
>PF14062 DUF4253: Domain of unknown function (DUF4253)
Probab=25.80 E-value=1.9e+02 Score=21.29 Aligned_cols=73 Identities=18% Similarity=0.260 Sum_probs=46.3
Q ss_pred HHHHHHHHHHHhhhhhccCCCCCCCCCCCcEEEEecccceeeeeeccccCcH-HHHHHHHHHHHhcCCCCCCCeeecCCH
Q 043725 14 IVRLRQMLRRWRNKARMSAARIPSDVPAGYVAVCVGTSCRRFVVRATYLNHP-VFKKLLVQAEEEYGFTNQGPLAIPCDE 92 (150)
Q Consensus 14 ~~rLkq~~kkW~~~a~~~~~~~~~~vpkG~~aVYVG~e~~RfvVp~~yLnhP-~F~~LL~~aeEEfGf~~~G~L~IPC~~ 92 (150)
...+..++|.|+.+- |..+|.+|.+. |....-+-| ...+.+..|.|.|.|..| .+.--++.
T Consensus 29 ~~~~~a~lr~W~er~-------------ga~i~~i~~d~----le~~v~~pP~~~~ea~~lA~E~y~fCpD-~v~qg~~~ 90 (111)
T PF14062_consen 29 TADIIAVLRYWEERY-------------GAEIVGIGFDT----LELSVARPPQTPEEAEALAAEHYAFCPD-IVDQGYGN 90 (111)
T ss_pred HHHHHHHHHHHHHHh-------------CEEEEEEECCE----EEEEECCCCCCHHHHHHHHHHHHHhCcc-HHhcCCCC
Confidence 445667788898774 66777777653 344444456 678999999999999865 11112333
Q ss_pred HHHHHHHHHHhc
Q 043725 93 SLFEEAIRFISR 104 (150)
Q Consensus 93 ~~Fe~ll~~i~~ 104 (150)
..++.+-..|.+
T Consensus 91 ~~l~~la~~L~~ 102 (111)
T PF14062_consen 91 FTLEELAEELRK 102 (111)
T ss_pred CCHHHHHHHHhC
Confidence 345555555543
No 34
>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=24.86 E-value=1.3e+02 Score=20.54 Aligned_cols=20 Identities=20% Similarity=0.061 Sum_probs=16.9
Q ss_pred cEEEEecccceeeeeecccc
Q 043725 43 YVAVCVGTSCRRFVVRATYL 62 (150)
Q Consensus 43 ~~aVYVG~e~~RfvVp~~yL 62 (150)
.|+++|+...-++.|..+-|
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 58899988889999998776
No 35
>COG1759 5-formaminoimidazole-4-carboxamide-1-beta-D-ribofuranosyl 5'-monophosphate synthetase (purine biosynthesis) [Nucleotide transport and metabolism]
Probab=23.77 E-value=40 Score=30.47 Aligned_cols=37 Identities=27% Similarity=0.309 Sum_probs=25.0
Q ss_pred CCCCCcEEEEeccc--ceeeeeecccc---------CcHHHHHHHHHHH
Q 043725 38 DVPAGYVAVCVGTS--CRRFVVRATYL---------NHPVFKKLLVQAE 75 (150)
Q Consensus 38 ~vpkG~~aVYVG~e--~~RfvVp~~yL---------nhP~F~~LL~~ae 75 (150)
-+|.|-|++|||-+ -..|.||+ |= ..-.-..||++|.
T Consensus 89 ~IP~gSfv~Y~G~d~ie~~~~vP~-fGnR~lLrwE~~~~~~~~lLekAg 136 (361)
T COG1759 89 FIPHGSFVAYVGYDGIENEFEVPM-FGNRELLRWEEDRKLEYKLLEKAG 136 (361)
T ss_pred EecCCceEEEecchhhhhcccCcc-cccHhHhhhhcchhhHHHHHHHcC
Confidence 58999999999965 35577775 11 2233457888774
No 36
>PF14317 YcxB: YcxB-like protein
Probab=22.58 E-value=1.4e+02 Score=18.01 Aligned_cols=31 Identities=10% Similarity=0.235 Sum_probs=23.5
Q ss_pred CCcEEEEecccceeeeeeccccCcHHHHHHHH
Q 043725 41 AGYVAVCVGTSCRRFVVRATYLNHPVFKKLLV 72 (150)
Q Consensus 41 kG~~aVYVG~e~~RfvVp~~yLnhP~F~~LL~ 72 (150)
+.++.+|++. ..-++||.+.++.-...++.+
T Consensus 29 ~~~~~l~~~~-~~~~~iPk~~f~~~e~~~f~~ 59 (62)
T PF14317_consen 29 KDYFYLYLGK-NQAFIIPKRAFSEEEKEEFRE 59 (62)
T ss_pred CCEEEEEECC-CeEEEEEHHHCCHhHHHHHHH
Confidence 5778889964 589999999998655555554
No 37
>COG4862 MecA Negative regulator of genetic competence, sporulation and motility [Posttranslational modification, protein turnover, chaperones / Signal transduction mechanisms / Cell motility and secretion]
Probab=21.95 E-value=57 Score=27.74 Aligned_cols=27 Identities=26% Similarity=0.495 Sum_probs=24.0
Q ss_pred CcHHHHHHHHHHHHhcCCCCCCCeeec
Q 043725 63 NHPVFKKLLVQAEEEYGFTNQGPLAIP 89 (150)
Q Consensus 63 nhP~F~~LL~~aeEEfGf~~~G~L~IP 89 (150)
.|-.|-++++.+.+|-+|..+|||+|-
T Consensus 37 ~EE~F~~mMdEl~~ee~F~~~GpL~iq 63 (224)
T COG4862 37 TEELFYEMMDELNLEEDFKDEGPLWIQ 63 (224)
T ss_pred HHHHHHHHHHhcCCccccccCCceEEE
Confidence 377899999999999999999999873
No 38
>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=21.68 E-value=46 Score=20.39 Aligned_cols=19 Identities=32% Similarity=0.655 Sum_probs=14.6
Q ss_pred HHHHHHHHHHhc--CCCCCCC
Q 043725 67 FKKLLVQAEEEY--GFTNQGP 85 (150)
Q Consensus 67 F~~LL~~aeEEf--Gf~~~G~ 85 (150)
+-.+|+.-+|+| ||-|.|+
T Consensus 12 Id~vLe~NAe~FV~~fVQKGG 32 (33)
T TIGR03687 12 IDGVLESNAEEFVRGFVQKGG 32 (33)
T ss_pred HHHHHHHhHHHHHHHHHHccC
Confidence 456788888998 8877764
No 39
>TIGR03464 HpnC squalene synthase HpnC. This family of genes are members of a superfamily (pfam00494) of phytoene and squalene synthases which catalyze the head-t0-head condensation of polyisoprene pyrophosphates. The genes of this family are often found in the same genetic locus with squalene-hopene cyclase genes, and are never associated with genes for the metabolism of phytoene. In the organisms Zymomonas mobilis and Bradyrhizobium japonicum these genes have been characterized as squalene synthases (farnesyl-pyrophosphate ligases). Often, these genes appear in tandem with the HpnD gene which appears to have resulted from an ancient gene duplication event. Presumably these proteins form a heteromeric complex, but this has not yet been experimentally demonstrated.
Probab=20.76 E-value=2.3e+02 Score=23.39 Aligned_cols=51 Identities=18% Similarity=0.399 Sum_probs=34.5
Q ss_pred CcHHHHHHHHHHHHhcCCCCCCCeeecCCHHHHHHHHHHHhcCCCcccccccchhhhhhhhccC
Q 043725 63 NHPVFKKLLVQAEEEYGFTNQGPLAIPCDESLFEEAIRFISRSESGHSARFVNFEDFQRYCHVG 126 (150)
Q Consensus 63 nhP~F~~LL~~aeEEfGf~~~G~L~IPC~~~~Fe~ll~~i~~~~~~~~~r~~~~~~~~~~c~~~ 126 (150)
+||++++|.+... .++.+ ...|+.++.-.+.+-. ..++.+.+|+..||...
T Consensus 67 ~~pv~~aL~~~~~-~~~l~----------~~~~~~li~~~~~Dl~--~~~~~t~~eL~~Y~~~v 117 (266)
T TIGR03464 67 AAPVFVALARTVQ-RHGLP----------IEPFLDLLDAFRQDVV--VTRYATWAELLDYCRYS 117 (266)
T ss_pred CChHHHHHHHHHH-HcCCC----------hHHHHHHHHHHHHhcc--CCCCCCHHHHHHHHHHh
Confidence 6999999977664 45443 4578887777765432 22477888888887644
Done!