Query 040995
Match_columns 122
No_of_seqs 119 out of 634
Neff 4.9
Searched_HMMs 46136
Date Fri Mar 29 02:49:03 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/040995.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/040995hhsearch_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 3.5E-38 7.6E-43 225.4 10.7 97 6-112 7-103 (104)
2 PF02519 Auxin_inducible: Auxi 100.0 4.7E-35 1E-39 207.4 10.0 94 13-113 6-100 (100)
3 PLN03220 uncharacterized prote 100.0 1E-33 2.3E-38 202.4 8.8 69 43-111 31-102 (105)
4 PLN03219 uncharacterized prote 100.0 3.2E-33 6.9E-38 200.8 10.2 71 42-112 34-105 (108)
5 PF02214 BTB_2: BTB/POZ domain 91.8 0.21 4.5E-06 33.5 3.1 53 63-115 8-63 (94)
6 PRK02899 adaptor protein; Prov 84.9 0.86 1.9E-05 35.7 2.7 25 74-98 38-62 (197)
7 PRK02315 adaptor protein; Prov 79.8 1.4 3.1E-05 35.1 2.3 25 74-98 38-62 (233)
8 PF05389 MecA: Negative regula 74.1 1 2.2E-05 35.1 0.0 26 74-99 38-63 (220)
9 cd05992 PB1 The PB1 domain is 73.3 21 0.00045 22.7 7.2 53 59-114 8-70 (81)
10 cd06407 PB1_NLP A PB1 domain i 56.3 31 0.00067 23.3 4.6 49 59-112 8-68 (82)
11 smart00666 PB1 PB1 domain. Pho 53.3 57 0.0012 20.8 7.1 51 59-114 9-70 (81)
12 cd06398 PB1_Joka2 The PB1 doma 47.0 60 0.0013 22.4 4.9 50 59-108 8-70 (91)
13 PF02209 VHP: Villin headpiece 43.7 9.4 0.0002 22.5 0.4 18 71-88 1-18 (36)
14 cd06410 PB1_UP2 Uncharacterize 43.6 57 0.0012 22.8 4.4 52 54-112 18-82 (97)
15 smart00153 VHP Villin headpiec 41.9 12 0.00025 22.0 0.6 18 71-88 1-18 (36)
16 PF11834 DUF3354: Domain of un 41.8 22 0.00048 23.6 2.0 16 76-91 27-42 (69)
17 cd01406 SIR2-like Sir2-like: P 40.8 56 0.0012 25.2 4.4 36 50-93 1-36 (242)
18 cd06080 MUM1_like Mutated mela 37.4 51 0.0011 22.4 3.3 42 48-89 28-74 (80)
19 PF12058 DUF3539: Protein of u 36.2 7.1 0.00015 27.5 -1.1 11 70-80 4-14 (88)
20 PF07104 DUF1366: Protein of u 36.1 64 0.0014 23.6 3.8 42 46-88 15-56 (116)
21 PRK13701 psiB plasmid SOS inhi 36.1 66 0.0014 24.5 4.0 52 42-93 78-131 (144)
22 cd06397 PB1_UP1 Uncharacterize 35.6 1.5E+02 0.0032 20.6 5.4 50 59-113 8-68 (82)
23 cd04395 RhoGAP_ARHGAP21 RhoGAP 33.1 1.1E+02 0.0023 23.2 4.8 43 75-117 19-61 (196)
24 cd04751 Commd3 COMM_Domain con 32.7 52 0.0011 22.6 2.8 24 93-116 64-87 (95)
25 PF00651 BTB: BTB/POZ domain; 32.2 1.4E+02 0.0031 19.3 5.3 51 62-116 20-75 (111)
26 PRK13347 coproporphyrinogen II 32.1 1.3E+02 0.0027 26.0 5.6 57 50-114 103-160 (453)
27 PF08948 DUF1859: Domain of un 31.1 20 0.00043 26.4 0.4 29 47-78 85-123 (126)
28 PF07369 DUF1488: Protein of u 30.8 1.5E+02 0.0032 19.3 4.6 21 51-73 18-38 (83)
29 PF08861 DUF1828: Domain of un 30.5 1.4E+02 0.0031 19.9 4.6 39 74-112 44-83 (90)
30 cd06401 PB1_TFG The PB1 domain 30.3 1.3E+02 0.0029 20.7 4.4 42 59-103 8-63 (81)
31 PF05419 GUN4: GUN4-like ; In 29.8 6.7 0.00015 29.0 -2.2 24 45-78 109-132 (132)
32 PF00564 PB1: PB1 domain; Int 29.2 1.5E+02 0.0033 18.7 7.5 54 59-115 9-72 (84)
33 cd06399 PB1_P40 The PB1 domain 29.2 96 0.0021 22.0 3.6 29 61-89 14-42 (92)
34 KOG4390 Voltage-gated A-type K 27.7 37 0.0008 30.5 1.6 40 79-118 64-104 (632)
35 PRK09057 coproporphyrinogen II 27.4 1E+02 0.0022 25.9 4.1 47 51-105 56-102 (380)
36 PRK06582 coproporphyrinogen II 26.4 1.4E+02 0.003 25.3 4.9 57 51-115 63-120 (390)
37 cd04404 RhoGAP-p50rhoGAP RhoGA 25.4 1.8E+02 0.0039 21.9 4.9 41 75-116 24-65 (195)
38 PRK10308 3-methyl-adenine DNA 24.9 2.6E+02 0.0057 22.8 6.0 62 49-112 45-121 (283)
39 PF02100 ODC_AZ: Ornithine dec 24.7 52 0.0011 23.3 1.7 38 72-110 38-75 (108)
40 cd06396 PB1_NBR1 The PB1 domai 24.2 2.4E+02 0.0053 19.3 6.6 54 59-115 8-70 (81)
41 COG4923 Predicted nuclease (RN 23.8 95 0.0021 25.3 3.2 24 94-117 87-110 (245)
42 cd01540 PBP1_arabinose_binding 23.0 2.1E+02 0.0046 21.5 4.9 22 93-114 56-77 (289)
43 PF12062 HSNSD: heparan sulfat 22.9 72 0.0016 28.8 2.5 39 49-89 96-140 (487)
44 TIGR03793 TOMM_pelo TOMM prope 22.3 1.5E+02 0.0032 20.0 3.5 27 72-98 14-44 (77)
45 cd04373 RhoGAP_p190 RhoGAP_p19 22.1 2.1E+02 0.0046 21.5 4.7 42 75-116 16-57 (185)
46 PF14317 YcxB: YcxB-like prote 21.9 1.8E+02 0.0038 16.8 3.6 32 48-82 28-59 (62)
47 PRK01021 lpxB lipid-A-disaccha 21.8 64 0.0014 29.7 2.0 34 63-96 377-415 (608)
48 PF06290 PsiB: Plasmid SOS inh 21.5 3.7E+02 0.0081 20.5 6.1 51 42-92 78-130 (143)
49 PRK05628 coproporphyrinogen II 21.4 1.7E+02 0.0038 24.2 4.4 57 50-114 59-116 (375)
50 PF11126 Phage_DsbA: Transcrip 20.5 1.4E+02 0.0031 20.1 3.0 34 75-118 17-50 (69)
51 TIGR03687 pupylate_cterm ubiqu 20.4 49 0.0011 19.3 0.7 19 77-95 12-32 (33)
52 PF04367 DUF502: Protein of un 20.3 1.5E+02 0.0032 20.7 3.2 23 2-24 28-50 (108)
53 COG4862 MecA Negative regulato 20.2 68 0.0015 26.1 1.7 27 73-99 37-63 (224)
No 1
>PLN03090 auxin-responsive family protein; Provisional
Probab=100.00 E-value=3.5e-38 Score=225.44 Aligned_cols=97 Identities=30% Similarity=0.554 Sum_probs=85.2
Q ss_pred hhhhchHHHHHHHHHhhccccCCCCCCCCCCCCCCCcCCCCCCCCeEEEEeecCCceeeEEEeecccccHHHHHHHHHHH
Q 040995 6 DSIKGLTKLKMLITKLQRGLFSASREDVDGKSGGATVVPKDVKKGHFAVVAEKGGKPKRFVLELGYLSNPEFLSLLEQAE 85 (122)
Q Consensus 6 ~ki~~~~kLk~~~kKwq~~~~~~~~~~~~~~~~~~~~~~~~v~kG~~~VyV~~G~e~~RfvVpv~yL~~P~F~~LL~~ae 85 (122)
+||+++++||+|+|||.+.+.. ++.. ....|.++|+||||||| |++++||+||++|||||+|++||++||
T Consensus 7 ~ki~~~~~~kq~l~r~~s~~~~---~~~~-----~~~~~~~vpkG~~aVyV--G~~~~RfvVp~~~L~hP~F~~LL~~ae 76 (104)
T PLN03090 7 NKLTQTAMLKQILKRCSSLGKK---QGYD-----EDGLPLDVPKGHFPVYV--GENRSRYIVPISFLTHPEFQSLLQQAE 76 (104)
T ss_pred cchhHHHHHHHHHHHHHHhccc---CCcc-----cccCCCCCCCCcEEEEE--CCCCEEEEEEHHHcCCHHHHHHHHHHH
Confidence 6899999999999999877221 1111 12367789999999999 778999999999999999999999999
Q ss_pred HhcCCCCCCceEecCCHHHHHHHHHHH
Q 040995 86 QEYGFQQKGILAVPCPPEELQNVLKYK 112 (122)
Q Consensus 86 eEfG~~~~G~l~iPC~~~~Fe~vl~~~ 112 (122)
|||||+|+|+|+|||+++.|+++++++
T Consensus 77 eEfGf~~~G~L~IPC~~~~Fe~ll~~i 103 (104)
T PLN03090 77 EEFGFDHDMGLTIPCEEVVFRSLTSMI 103 (104)
T ss_pred HHhCCCCCCcEEEeCCHHHHHHHHHHh
Confidence 999999999999999999999999997
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=4.7e-35 Score=207.44 Aligned_cols=94 Identities=37% Similarity=0.572 Sum_probs=75.9
Q ss_pred HHHHHHHHhhcc-ccCCCCCCCCCCCCCCCcCCCCCCCCeEEEEeecCCceeeEEEeecccccHHHHHHHHHHHHhcCCC
Q 040995 13 KLKMLITKLQRG-LFSASREDVDGKSGGATVVPKDVKKGHFAVVAEKGGKPKRFVLELGYLSNPEFLSLLEQAEQEYGFQ 91 (122)
Q Consensus 13 kLk~~~kKwq~~-~~~~~~~~~~~~~~~~~~~~~~v~kG~~~VyV~~G~e~~RfvVpv~yL~~P~F~~LL~~aeeEfG~~ 91 (122)
+....++||++. ...++..+.+. +....++|+||||||| |++++||+||++|||||+|++||++|||||||+
T Consensus 6 k~~~~~~k~~~~~~~~~~~~~~~~-----~~~~~~vp~G~~~VyV--G~~~~Rfvvp~~~L~hp~f~~LL~~aeeEfG~~ 78 (100)
T PF02519_consen 6 KSLASAKKWQSRARSKSSSSSSSR-----SSSESDVPKGHFAVYV--GEERRRFVVPVSYLNHPLFQELLEQAEEEFGFD 78 (100)
T ss_pred HHHHHHHhhhhhhhhccccccccc-----ccccCCCCCCeEEEEe--CccceEEEechHHcCchhHHHHHHHHhhhcCcC
Confidence 334445677766 33333322211 1223789999999999 779999999999999999999999999999999
Q ss_pred CCCceEecCCHHHHHHHHHHHH
Q 040995 92 QKGILAVPCPPEELQNVLKYKK 113 (122)
Q Consensus 92 ~~G~l~iPC~~~~Fe~vl~~~~ 113 (122)
++|+|+|||+++.|+++|++++
T Consensus 79 ~~G~l~iPC~~~~Fe~~l~~le 100 (100)
T PF02519_consen 79 QDGPLTIPCDVVLFEHLLWLLE 100 (100)
T ss_pred CCCcEEeeCCHHHHHHHHHHhC
Confidence 9999999999999999999874
No 3
>PLN03220 uncharacterized protein; Provisional
Probab=100.00 E-value=1e-33 Score=202.41 Aligned_cols=69 Identities=35% Similarity=0.669 Sum_probs=63.2
Q ss_pred CCCCCCCCeEEEEeecCC--ceeeEEEeecccccHHHHHHHHHHHHhcCCCC-CCceEecCCHHHHHHHHHH
Q 040995 43 VPKDVKKGHFAVVAEKGG--KPKRFVLELGYLSNPEFLSLLEQAEQEYGFQQ-KGILAVPCPPEELQNVLKY 111 (122)
Q Consensus 43 ~~~~v~kG~~~VyV~~G~--e~~RfvVpv~yL~~P~F~~LL~~aeeEfG~~~-~G~l~iPC~~~~Fe~vl~~ 111 (122)
.+.+|||||||||||+++ +++|||||+.|||||+|++||++|||||||+| +|+|+|||+++.|+++|..
T Consensus 31 ~~~~VPkGh~aVyVGe~~~~e~kRFVVPv~yL~hP~F~~LL~~AeEEfGf~~~~G~L~IPCd~~~F~~ll~s 102 (105)
T PLN03220 31 SSDHVPKGHVAVYVGEQIEMEKKRFVVPISFLNHPSFKEFLSRAEEEFGFNHPMGGLTIPCREEVFLDLIAS 102 (105)
T ss_pred ccCCCCCCeEEEEECCCCCccceEEEEEHHHcCChHHHHHHHHHHHHhCCCCCCCCEEeeCCHHHHHHHHHh
Confidence 556899999999997642 57999999999999999999999999999998 6999999999999999864
No 4
>PLN03219 uncharacterized protein; Provisional
Probab=100.00 E-value=3.2e-33 Score=200.78 Aligned_cols=71 Identities=35% Similarity=0.620 Sum_probs=65.7
Q ss_pred cCCCCCCCCeEEEEeecCCceeeEEEeecccccHHHHHHHHHHHHhcCCCC-CCceEecCCHHHHHHHHHHH
Q 040995 42 VVPKDVKKGHFAVVAEKGGKPKRFVLELGYLSNPEFLSLLEQAEQEYGFQQ-KGILAVPCPPEELQNVLKYK 112 (122)
Q Consensus 42 ~~~~~v~kG~~~VyV~~G~e~~RfvVpv~yL~~P~F~~LL~~aeeEfG~~~-~G~l~iPC~~~~Fe~vl~~~ 112 (122)
+.+.++|+||||||||+++|++||+||++|||||+|++||++|||||||++ +|+|+|||+++.|+++|...
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 456789999999999776689999999999999999999999999999997 69999999999999999864
No 5
>PF02214 BTB_2: BTB/POZ domain; InterPro: IPR003131 Potassium channels are the most diverse group of the ion channel family [, ]. They are important in shaping the action potential, and in neuronal excitability and plasticity []. The potassium channel family is composed of several functionally distinct isoforms, which can be broadly separated into 2 groups []: the practically non-inactivating 'delayed' group and the rapidly inactivating 'transient' group. These are all highly similar proteins, with only small amino acid changes causing the diversity of the voltage-dependent gating mechanism, channel conductance and toxin binding properties. Each type of K+ channel is activated by different signals and conditions depending on their type of regulation: some open in response to depolarisation of the plasma membrane; others in response to hyperpolarisation or an increase in intracellular calcium concentration; some can be regulated by binding of a transmitter, together with intracellular kinases; while others are regulated by GTP-binding proteins or other second messengers []. In eukaryotic cells, K+ channels are involved in neural signalling and generation of the cardiac rhythm, act as effectors in signal transduction pathways involving G protein-coupled receptors (GPCRs) and may have a role in target cell lysis by cytotoxic T-lymphocytes []. In prokaryotic cells, they play a role in the maintenance of ionic homeostasis []. All K+ channels discovered so far possess a core of alpha subunits, each comprising either one or two copies of a highly conserved pore loop domain (P-domain). The P-domain contains the sequence (T/SxxTxGxG), which has been termed the K+ selectivity sequence. In families that contain one P-domain, four subunits assemble to form a selective pathway for K+ across the membrane. However, it remains unclear how the 2 P-domain subunits assemble to form a selective pore. The functional diversity of these families can arise through homo- or hetero-associations of alpha subunits or association with auxiliary cytoplasmic beta subunits. K+ channel subunits containing one pore domain can be assigned into one of two superfamilies: those that possess six transmembrane (TM) domains and those that possess only two TM domains. The six TM domain superfamily can be further subdivided into conserved gene families: the voltage-gated (Kv) channels; the KCNQ channels (originally known as KvLQT channels); the EAG-like K+ channels; and three types of calcium (Ca)-activated K+ channels (BK, IK and SK) []. The 2TM domain family comprises inward-rectifying K+ channels. In addition, there are K+ channel alpha-subunits that possess two P-domains. These are usually highly regulated K+ selective leak channels. The Kv family can be divided into several subfamilies on the basis of sequence similarity and function. Four of these subfamilies, Kv1 (Shaker), Kv2 (Shab), Kv3 (Shaw) and Kv4 (Shal), consist of pore-forming alpha subunits that associate with different types of beta subunit. Each alpha subunit comprises six hydrophobic TM domains with a P-domain between the fifth and sixth, which partially resides in the membrane. The fourth TM domain has positively charged residues at every third residue and acts as a voltage sensor, which triggers the conformational change that opens the channel pore in response to a displacement in membrane potential []. More recently, 4 new electrically-silent alpha subunits have been cloned: Kv5 (KCNF), Kv6 (KCNG), Kv8 and Kv9 (KCNS). These subunits do not themselves possess any functional activity, but appear to form heteromeric channels with Kv2 subunits, and thus modulate Shab channel activity []. When highly expressed, they inhibit channel activity, but at lower levels show more specific modulatory actions. The N-terminal, cytoplasmic tetramerization domain (T1) of voltage-gated potassium channels encodes molecular determinants for subfamily-specific assembly of alpha-subunits into functional tetrameric channels []. This domain is found in a subset of a larger group of proteins that contain the BTB/POZ domain.; GO: 0005249 voltage-gated potassium channel activity, 0006813 potassium ion transport, 0008076 voltage-gated potassium channel complex, 0016020 membrane; PDB: 1NN7_A 3KVT_A 1EXB_E 1QDV_A 1DSX_E 1QDW_F 3LUT_B 3LNM_B 2A79_B 3DRY_C ....
Probab=91.81 E-value=0.21 Score=33.45 Aligned_cols=53 Identities=17% Similarity=0.212 Sum_probs=41.2
Q ss_pred eeEEEeecccc-cH--HHHHHHHHHHHhcCCCCCCceEecCCHHHHHHHHHHHHhC
Q 040995 63 KRFVLELGYLS-NP--EFLSLLEQAEQEYGFQQKGILAVPCPPEELQNVLKYKKRH 115 (122)
Q Consensus 63 ~RfvVpv~yL~-~P--~F~~LL~~aeeEfG~~~~G~l~iPC~~~~Fe~vl~~~~~~ 115 (122)
++|.++.+-|. +| .|..|++.......-+.+|.+-|-+++..|++||..++.+
T Consensus 8 ~~f~~~~~tL~~~~~s~l~~~~~~~~~~~~~~~~~~~fiDRdp~~F~~IL~ylr~~ 63 (94)
T PF02214_consen 8 TIFETSRSTLTRYPDSLLARLFSGERSDDYDDDDGEYFIDRDPELFEYILNYLRTG 63 (94)
T ss_dssp EEEEEEHHHHHTSTTSTTTSHHHTGHGGGEETTTTEEEESS-HHHHHHHHHHHHHT
T ss_pred EEEEEcHHHHhhCCCChhhhHHhhccccccCCccceEEeccChhhhhHHHHHHhhc
Confidence 89999999888 44 7888888652222224579999999999999999999983
No 6
>PRK02899 adaptor protein; Provisional
Probab=84.90 E-value=0.86 Score=35.65 Aligned_cols=25 Identities=32% Similarity=0.655 Sum_probs=21.8
Q ss_pred cHHHHHHHHHHHHhcCCCCCCceEe
Q 040995 74 NPEFLSLLEQAEQEYGFQQKGILAV 98 (122)
Q Consensus 74 ~P~F~~LL~~aeeEfG~~~~G~l~i 98 (122)
+-+|.++|++|..|+||..+|||+|
T Consensus 38 e~lF~~mm~Ea~~e~~F~~~~pl~~ 62 (197)
T PRK02899 38 HQLFRDMMQEANKELGFEADGPIAV 62 (197)
T ss_pred HHHHHHHHHHhhhccCcccCCeEEE
Confidence 3578888999999999999999975
No 7
>PRK02315 adaptor protein; Provisional
Probab=79.81 E-value=1.4 Score=35.11 Aligned_cols=25 Identities=24% Similarity=0.461 Sum_probs=22.7
Q ss_pred cHHHHHHHHHHHHhcCCCCCCceEe
Q 040995 74 NPEFLSLLEQAEQEYGFQQKGILAV 98 (122)
Q Consensus 74 ~P~F~~LL~~aeeEfG~~~~G~l~i 98 (122)
+-+|.++|++|..|+||..+|||+|
T Consensus 38 e~fF~~mm~Ea~~e~~F~~~~pl~~ 62 (233)
T PRK02315 38 EEFFYSMMDEVDEEDDFADEGPLWF 62 (233)
T ss_pred HHHHHHHHHHhccccCcccCCeEEE
Confidence 4589999999999999999999986
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=74.08 E-value=1 Score=35.11 Aligned_cols=26 Identities=38% Similarity=0.654 Sum_probs=0.0
Q ss_pred cHHHHHHHHHHHHhcCCCCCCceEec
Q 040995 74 NPEFLSLLEQAEQEYGFQQKGILAVP 99 (122)
Q Consensus 74 ~P~F~~LL~~aeeEfG~~~~G~l~iP 99 (122)
+-.|.++|++|.+|+||..+|+|++-
T Consensus 38 e~fF~~ileea~~e~~F~~~~~l~~q 63 (220)
T PF05389_consen 38 EEFFYSILEEADEEHGFENDGPLTFQ 63 (220)
T ss_dssp --------------------------
T ss_pred HHHHHHHHHHhccccCcccCCeEEEE
Confidence 45799999999999999999999863
No 9
>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=73.32 E-value=21 Score=22.71 Aligned_cols=53 Identities=25% Similarity=0.493 Sum_probs=39.8
Q ss_pred CCceeeEEEeecccccHHHHHHHHHHHHhcCCC----------CCCceEecCCHHHHHHHHHHHHh
Q 040995 59 GGKPKRFVLELGYLSNPEFLSLLEQAEQEYGFQ----------QKGILAVPCPPEELQNVLKYKKR 114 (122)
Q Consensus 59 G~e~~RfvVpv~yL~~P~F~~LL~~aeeEfG~~----------~~G~l~iPC~~~~Fe~vl~~~~~ 114 (122)
+++.+||.+|. .++.|.+|..+..+.|++. .+|-+..=.+-+.|+.++.....
T Consensus 8 ~~~~~~~~~~~---~~~s~~~L~~~i~~~~~~~~~~~~l~y~D~e~d~v~l~sd~Dl~~a~~~~~~ 70 (81)
T cd05992 8 GGEIRRFVVVS---RSISFEDLRSKIAEKFGLDAVSFKLKYPDEDGDLVTISSDEDLEEAIEEARR 70 (81)
T ss_pred cCCCEEEEEec---CCCCHHHHHHHHHHHhCCCCCcEEEEeeCCCCCEEEeCCHHHHHHHHHHHhh
Confidence 55789999998 8889999999999999885 24544333444678888888764
No 10
>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=56.28 E-value=31 Score=23.33 Aligned_cols=49 Identities=14% Similarity=0.337 Sum_probs=34.1
Q ss_pred CCceeeEEEeecccccHHHHHHHHHHHHhcCCCC-----------C-CceEecCCHHHHHHHHHHH
Q 040995 59 GGKPKRFVLELGYLSNPEFLSLLEQAEQEYGFQQ-----------K-GILAVPCPPEELQNVLKYK 112 (122)
Q Consensus 59 G~e~~RfvVpv~yL~~P~F~~LL~~aeeEfG~~~-----------~-G~l~iPC~~~~Fe~vl~~~ 112 (122)
|++..||.+|..- -|++|.++-++-|+++. + ..++|.|+.++=+ .+...
T Consensus 8 ~~d~~r~~l~~~~----~~~~L~~~i~~r~~~~~~~~f~LkY~Ddegd~v~ltsd~DL~e-ai~i~ 68 (82)
T cd06407 8 GEEKIRFRLPPSW----GFTELKQEIAKRFKLDDMSAFDLKYLDDDEEWVLLTCDADLEE-CIDVY 68 (82)
T ss_pred CCeEEEEEcCCCC----CHHHHHHHHHHHhCCCCCCeeEEEEECCCCCeEEeecHHHHHH-HHHHH
Confidence 7789999988743 68999999888887642 2 3466788876544 44433
No 11
>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=53.29 E-value=57 Score=20.78 Aligned_cols=51 Identities=16% Similarity=0.464 Sum_probs=39.4
Q ss_pred CCceeeEEEeecccccHHHHHHHHHHHHhcCCC----------CCC-ceEecCCHHHHHHHHHHHHh
Q 040995 59 GGKPKRFVLELGYLSNPEFLSLLEQAEQEYGFQ----------QKG-ILAVPCPPEELQNVLKYKKR 114 (122)
Q Consensus 59 G~e~~RfvVpv~yL~~P~F~~LL~~aeeEfG~~----------~~G-~l~iPC~~~~Fe~vl~~~~~ 114 (122)
|++.+||.+|- .+.|.+|..+..+.|+.. .+| .++|.++. .++.++.+...
T Consensus 9 ~~~~~~~~~~~----~~s~~dL~~~i~~~~~~~~~~~~l~Y~Dedgd~v~l~sd~-Dl~~a~~~~~~ 70 (81)
T smart00666 9 GGETRRLSVPR----DISFEDLRSKVAKRFGLDNQSFTLKYQDEDGDLVSLTSDE-DLEEAIEEYDS 70 (81)
T ss_pred CCEEEEEEECC----CCCHHHHHHHHHHHhCCCCCCeEEEEECCCCCEEEecCHH-HHHHHHHHHHH
Confidence 67889999986 778999999999999874 245 56777754 67777777664
No 12
>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=47.02 E-value=60 Score=22.38 Aligned_cols=50 Identities=16% Similarity=0.271 Sum_probs=34.9
Q ss_pred CCceeeEEEeeccc-ccHHHHHHHHHHHHhcCCCC-----------CCc-eEecCCHHHHHHH
Q 040995 59 GGKPKRFVLELGYL-SNPEFLSLLEQAEQEYGFQQ-----------KGI-LAVPCPPEELQNV 108 (122)
Q Consensus 59 G~e~~RfvVpv~yL-~~P~F~~LL~~aeeEfG~~~-----------~G~-l~iPC~~~~Fe~v 108 (122)
|++.+||-+|..-. .+..|..|.++-++-|.... +|- ++|.|+.+.-+-+
T Consensus 8 ~~~~rRf~l~~~~~~~d~~~~~L~~kI~~~f~l~~~~~~~l~Y~Dedgd~V~l~~D~DL~~a~ 70 (91)
T cd06398 8 GGTLRRFTFPVAENQLDLNMDGLREKVEELFSLSPDADLSLTYTDEDGDVVTLVDDNDLTDAI 70 (91)
T ss_pred CCEEEEEEeccccccCCCCHHHHHHHHHHHhCCCCCCcEEEEEECCCCCEEEEccHHHHHHHH
Confidence 78899999997411 14478888888888876653 344 6678887765443
No 13
>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=43.72 E-value=9.4 Score=22.48 Aligned_cols=18 Identities=28% Similarity=0.678 Sum_probs=14.8
Q ss_pred ccccHHHHHHHHHHHHhc
Q 040995 71 YLSNPEFLSLLEQAEQEY 88 (122)
Q Consensus 71 yL~~P~F~~LL~~aeeEf 88 (122)
||+.-.|++++.++.+||
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 789999999999999998
No 14
>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=43.56 E-value=57 Score=22.80 Aligned_cols=52 Identities=15% Similarity=0.356 Sum_probs=35.6
Q ss_pred EEeecCCceeeEEEeecccccHHHHHHHHHHHHhcCCCC-------------CCceEecCCHHHHHHHHHHH
Q 040995 54 VVAEKGGKPKRFVLELGYLSNPEFLSLLEQAEQEYGFQQ-------------KGILAVPCPPEELQNVLKYK 112 (122)
Q Consensus 54 VyV~~G~e~~RfvVpv~yL~~P~F~~LL~~aeeEfG~~~-------------~G~l~iPC~~~~Fe~vl~~~ 112 (122)
=|| |.+.+-..|+-+ . .|.+|..+..+.++... ++-+.|.||.+ +.+++...
T Consensus 18 ~Y~--GG~tr~i~V~r~-~---s~~el~~kl~~~~~~~~~~~lky~Lp~edld~Lisv~~DeD-l~~M~~e~ 82 (97)
T cd06410 18 RYV--GGETRIVSVDRS-I---SFKELVSKLSELFGAGVVVTLKYQLPDEDLDALISVSNDED-LKNMMEEY 82 (97)
T ss_pred EEc--CCceEEEEEcCC-C---CHHHHHHHHHHHhCCCCceEEEEEcCCCCcceeEEecCcHH-HHHHHHhh
Confidence 598 778888888877 3 56777778777776654 44566778874 34444443
No 15
>smart00153 VHP Villin headpiece domain.
Probab=41.90 E-value=12 Score=22.01 Aligned_cols=18 Identities=28% Similarity=0.671 Sum_probs=16.5
Q ss_pred ccccHHHHHHHHHHHHhc
Q 040995 71 YLSNPEFLSLLEQAEQEY 88 (122)
Q Consensus 71 yL~~P~F~~LL~~aeeEf 88 (122)
||+.-.|+.++.++.+||
T Consensus 1 yLsdeeF~~vfgmsr~eF 18 (36)
T smart00153 1 YLSDEDFEEVFGMTREEF 18 (36)
T ss_pred CCCHHHHHHHHCCCHHHH
Confidence 788999999999999998
No 16
>PF11834 DUF3354: Domain of unknown function (DUF3354); InterPro: IPR021789 Potassium channels take part in important processes of higher plants, including opening and closing of stomatal pores and leaf movement. Inward rectifying potassium (K(+)in) channels play an important role in turgor regulation and ion uptake in higher plants. All of them comprise, from their N-terminal to their C-terminal ends: a short hydrophilic region, a hydrophobic region structurally analogous and partially homologous to the transmembrane domain of voltage-gated animal channels from the Shaker superfamily, a putative cyclic nucleotide-binding domain, and a conserved C-terminal KHA domain. Between these last two regions, some of them (AKT1, AKT2 and SKT1) contain an ankyrin-repeat domain with six repeats homologous to those of human erythrocyte ankyrin. This entry represents the KHA domain which is unique to plant K(+)in channels. The KHA domain contains two high-homology blocks enriched for hydrophobic and acidic residues, respectively. The KHA domain is essential for interaction of plant K(+)in channels. The KHA domain mediates tetramerization and/or stabilisation of the heteromers [, , ].
Probab=41.84 E-value=22 Score=23.62 Aligned_cols=16 Identities=31% Similarity=0.652 Sum_probs=15.0
Q ss_pred HHHHHHHHHHHhcCCC
Q 040995 76 EFLSLLEQAEQEYGFQ 91 (122)
Q Consensus 76 ~F~~LL~~aeeEfG~~ 91 (122)
.+++||+.|++.||+.
T Consensus 27 SleeLl~ia~~kfg~~ 42 (69)
T PF11834_consen 27 SLEELLKIASEKFGFS 42 (69)
T ss_pred cHHHHHHHHHHHhCCC
Confidence 6999999999999985
No 17
>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=40.77 E-value=56 Score=25.25 Aligned_cols=36 Identities=19% Similarity=0.410 Sum_probs=28.5
Q ss_pred CeEEEEeecCCceeeEEEeecccccHHHHHHHHHHHHhcCCCCC
Q 040995 50 GHFAVVAEKGGKPKRFVLELGYLSNPEFLSLLEQAEQEYGFQQK 93 (122)
Q Consensus 50 G~~~VyV~~G~e~~RfvVpv~yL~~P~F~~LL~~aeeEfG~~~~ 93 (122)
|.+++++|-|=... .+-|.+.+|++...+++|.+.+
T Consensus 1 g~lvlFiGAG~S~~--------~glP~W~~Ll~~l~~~~~~~~~ 36 (242)
T cd01406 1 GRVVIFVGAGVSVS--------SGLPDWKTLLDEIASELGLEID 36 (242)
T ss_pred CCEEEEecCccccc--------cCCCChHHHHHHHHHHcCCccc
Confidence 67899997763332 5789999999999999987654
No 18
>cd06080 MUM1_like Mutated melanoma-associated antigen 1 (MUM-1) is a melanoma-associated antigen (MAA). MUM-1 belongs to the mutated or aberrantly expressed type of MAAs, along with antigens such as CDK4, beta-catenin, gp100-in4, p15, and N-acetylglucosaminyltransferase V. It is highly expressed in several types of human cancers. The PWWP domain, named for a conserved Pro-Trp-Trp-Pro motif, is a small domain consisting of 100-150 amino acids. The PWWP domain is found in numerous proteins that are involved in cell division, growth and differentiation. Most PWWP-domain proteins seem to be nuclear, often DNA-binding, proteins that function as transcription factors regulating a variety of developmental processes.
Probab=37.44 E-value=51 Score=22.42 Aligned_cols=42 Identities=14% Similarity=0.126 Sum_probs=33.9
Q ss_pred CCCeEEEEeecCC--ceeeEEEeecccccHHH---HHHHHHHHHhcC
Q 040995 48 KKGHFAVVAEKGG--KPKRFVLELGYLSNPEF---LSLLEQAEQEYG 89 (122)
Q Consensus 48 ~kG~~~VyV~~G~--e~~RfvVpv~yL~~P~F---~~LL~~aeeEfG 89 (122)
++-+.+.+.|++. ...++-+..-|+.|+.+ |.|+++|.|.|.
T Consensus 28 ~~k~~V~FfG~~~~~a~~~~~~l~p~~~~~~~~ek~~~~~k~ke~~~ 74 (80)
T cd06080 28 KQKARVNFIGDNMQSEKKGIRVVKRWLKHFDCTEKQKLTNKAKESYE 74 (80)
T ss_pred CCEEEEEEeCCCCceeccchhhcccccccHHHHHHHHHHHHHHHHHH
Confidence 4567777887762 35788889999999999 589999999975
No 19
>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=36.22 E-value=7.1 Score=27.49 Aligned_cols=11 Identities=45% Similarity=0.751 Sum_probs=7.8
Q ss_pred cccccHHHHHH
Q 040995 70 GYLSNPEFLSL 80 (122)
Q Consensus 70 ~yL~~P~F~~L 80 (122)
.|||||.|.-|
T Consensus 4 ~YLNHPtFGlL 14 (88)
T PF12058_consen 4 TYLNHPTFGLL 14 (88)
T ss_dssp -EEEETTTEEE
T ss_pred ccccCCccchh
Confidence 58999988544
No 20
>PF07104 DUF1366: Protein of unknown function (DUF1366); InterPro: IPR009796 This entry is represented by Streptococcus phage 7201, Orf40. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. This family consists of several hypothetical Streptococcus thermophilus bacteriophage proteins of around 130 residues in length. One of the sequences in this family, from phage Sfi11 (O80186 from SWISSPROT) is known as Gp149. The function of this family is unknown.
Probab=36.09 E-value=64 Score=23.58 Aligned_cols=42 Identities=12% Similarity=0.042 Sum_probs=31.2
Q ss_pred CCCCCeEEEEeecCCceeeEEEeecccccHHHHHHHHHHHHhc
Q 040995 46 DVKKGHFAVVAEKGGKPKRFVLELGYLSNPEFLSLLEQAEQEY 88 (122)
Q Consensus 46 ~v~kG~~~VyV~~G~e~~RfvVpv~yL~~P~F~~LL~~aeeEf 88 (122)
....|.-++.+++++..--+.+|.++.+.+ +.+||++|+|.|
T Consensus 15 Gsv~~T~ViL~~~dGa~ip~~L~~D~~~ks-~~ELi~~ale~i 56 (116)
T PF07104_consen 15 GSVSKTKVILTNDDGAYIPVFLPGDKIDKS-NTELIELALEMI 56 (116)
T ss_pred CCeeeeEEEEEcCCCcEEEeeCChhhhcCC-HHHHHHHHHHHH
Confidence 344566677776666666777888888775 789999999887
No 21
>PRK13701 psiB plasmid SOS inhibition protein B; Provisional
Probab=36.06 E-value=66 Score=24.51 Aligned_cols=52 Identities=21% Similarity=0.266 Sum_probs=42.8
Q ss_pred cCCCCCCCCeEEEEeecCCceeeEEEeecccccHHHHHHHHHHHH--hcCCCCC
Q 040995 42 VVPKDVKKGHFAVVAEKGGKPKRFVLELGYLSNPEFLSLLEQAEQ--EYGFQQK 93 (122)
Q Consensus 42 ~~~~~v~kG~~~VyV~~G~e~~RfvVpv~yL~~P~F~~LL~~aee--EfG~~~~ 93 (122)
|+|.++-++++.|++-.|.+.=..+.-.+-++--....+|.+.++ .+||.+.
T Consensus 78 CSpG~~sP~W~~Vl~~~gG~~~a~v~~~~~~~Pe~i~~~L~~~a~l~~~gys~~ 131 (144)
T PRK13701 78 CSPGDVSPVWVLVLVNAGGEPFAVVQVQDRFAPEAISHSLALAASLDAQGYSVN 131 (144)
T ss_pred eCCCCCCcceEEEEEcCCCcEEEEEEecCccCHHHHHHHHHHHHHhhhcCCcHH
Confidence 789999999999999888777777777777887888899999886 6677654
No 22
>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=35.60 E-value=1.5e+02 Score=20.61 Aligned_cols=50 Identities=20% Similarity=0.350 Sum_probs=35.6
Q ss_pred CCceeeEEEeecccccHHHHHHHHHHHHhcCCC----------CC-CceEecCCHHHHHHHHHHHH
Q 040995 59 GGKPKRFVLELGYLSNPEFLSLLEQAEQEYGFQ----------QK-GILAVPCPPEELQNVLKYKK 113 (122)
Q Consensus 59 G~e~~RfvVpv~yL~~P~F~~LL~~aeeEfG~~----------~~-G~l~iPC~~~~Fe~vl~~~~ 113 (122)
+...+||+.|. .|.+.+|-++.+.=|-+. .+ ..|+|.-+.+ ++.+.....
T Consensus 8 ~g~~RRf~~~~----~pt~~~L~~kl~~Lf~lp~~~~~vtYiDeD~D~ITlssd~e-L~d~~~~~~ 68 (82)
T cd06397 8 LGDTRRIVFPD----IPTWEALASKLENLYNLPEIKVGVTYIDNDNDEITLSSNKE-LQDFYRLSH 68 (82)
T ss_pred CCceEEEecCC----CccHHHHHHHHHHHhCCChhHeEEEEEcCCCCEEEecchHH-HHHHHHhcc
Confidence 66789999998 899999999999887766 23 3566665554 444444433
No 23
>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=33.06 E-value=1.1e+02 Score=23.23 Aligned_cols=43 Identities=16% Similarity=0.219 Sum_probs=35.0
Q ss_pred HHHHHHHHHHHHhcCCCCCCceEecCCHHHHHHHHHHHHhCcc
Q 040995 75 PEFLSLLEQAEQEYGFQQKGILAVPCPPEELQNVLKYKKRHRR 117 (122)
Q Consensus 75 P~F~~LL~~aeeEfG~~~~G~l~iPC~~~~Fe~vl~~~~~~~~ 117 (122)
|.|.+..-..-++.|.+.+|.-++|.+...-+++...+.++..
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 5565555556678899999999999999999999998887753
No 24
>cd04751 Commd3 COMM_Domain containing protein 3. The COMM Domain is found at the C-terminus of a variety of proteins; presumably all COMM_Domain containing proteins are located in the nucleus and the COMM domain plays a role in protein-protein interactions. Several family members have been shown to bind and inhibit NF-kappaB.
Probab=32.66 E-value=52 Score=22.64 Aligned_cols=24 Identities=25% Similarity=0.358 Sum_probs=20.5
Q ss_pred CCceEecCCHHHHHHHHHHHHhCc
Q 040995 93 KGILAVPCPPEELQNVLKYKKRHR 116 (122)
Q Consensus 93 ~G~l~iPC~~~~Fe~vl~~~~~~~ 116 (122)
...+.+-|+++.|++++..++...
T Consensus 64 ~~~i~f~c~~e~L~~Li~~Lk~A~ 87 (95)
T cd04751 64 KPDINFTCTLEQLQDLVNKLKDAA 87 (95)
T ss_pred cceEEEEeCHHHHHHHHHHHHHHH
Confidence 357999999999999999988643
No 25
>PF00651 BTB: BTB/POZ domain; InterPro: IPR013069 The BTB (for BR-C, ttk and bab) [] or POZ (for Pox virus and Zinc finger) [] domain is present near the N terminus of a fraction of zinc finger (IPR007087 from INTERPRO) proteins and in proteins that contain the IPR006652 from INTERPRO motif such as Kelch and a family of pox virus proteins. The BTB/POZ domain mediates homomeric dimerisation and in some instances heteromeric dimerisation []. The structure of the dimerised PLZF BTB/POZ domain has been solved and consists of a tightly intertwined homodimer. The central scaffolding of the protein is made up of a cluster of alpha-helices flanked by short beta-sheets at both the top and bottom of the molecule []. POZ domains from several zinc finger proteins have been shown to mediate transcriptional repression and to interact with components of histone deacetylase co-repressor complexes including N-CoR and SMRT [, , ]. The POZ or BTB domain is also known as BR-C/Ttk or ZiN.; GO: 0005515 protein binding; PDB: 3M5B_A 1R28_B 3LBZ_A 3E4U_F 3BIM_B 1R2B_A 1R29_A 2VPK_A 2YY9_B 3GA1_A ....
Probab=32.24 E-value=1.4e+02 Score=19.25 Aligned_cols=51 Identities=25% Similarity=0.486 Sum_probs=36.6
Q ss_pred eeeEEEeeccc--ccHHHHHHHHHHHHhcCCCCCC--ceEec-CCHHHHHHHHHHHHhCc
Q 040995 62 PKRFVLELGYL--SNPEFLSLLEQAEQEYGFQQKG--ILAVP-CPPEELQNVLKYKKRHR 116 (122)
Q Consensus 62 ~~RfvVpv~yL--~~P~F~~LL~~aeeEfG~~~~G--~l~iP-C~~~~Fe~vl~~~~~~~ 116 (122)
.++|-+.-..| ..|.|+.+++.. +....+ .+.++ |+...|+.+|..+-.+.
T Consensus 20 ~~~~~vhk~iL~~~S~~F~~~~~~~----~~~~~~~~~i~~~~~~~~~~~~~l~~~Y~~~ 75 (111)
T PF00651_consen 20 GKTFYVHKNILAARSPYFRNLFEGS----KFKESTVPEISLPDVSPEAFEAFLEYMYTGE 75 (111)
T ss_dssp TEEEEE-HHHHHHHBHHHHHHHTTT----TSTTSSEEEEEETTSCHHHHHHHHHHHHHSE
T ss_pred CEEEeechhhhhccchhhhhccccc----ccccccccccccccccccccccccccccCCc
Confidence 47788877776 569999999887 222333 46555 88999999999886654
No 26
>PRK13347 coproporphyrinogen III oxidase; Provisional
Probab=32.11 E-value=1.3e+02 Score=25.95 Aligned_cols=57 Identities=16% Similarity=0.205 Sum_probs=42.7
Q ss_pred CeEEEEeecCCceeeEEEeecccccHHHHHHHHHHHHhcCCCCCCceEecCCHHHH-HHHHHHHHh
Q 040995 50 GHFAVVAEKGGKPKRFVLELGYLSNPEFLSLLEQAEQEYGFQQKGILAVPCPPEEL-QNVLKYKKR 114 (122)
Q Consensus 50 G~~~VyV~~G~e~~RfvVpv~yL~~P~F~~LL~~aeeEfG~~~~G~l~iPC~~~~F-e~vl~~~~~ 114 (122)
+...||.|+|. -..|+.+.+.+|++...+.|++..+..+++-|++..+ +..+..+++
T Consensus 103 ~v~~i~fgGGT--------Ps~l~~~~l~~ll~~i~~~~~~~~~~e~tie~~p~~lt~e~l~~L~~ 160 (453)
T PRK13347 103 RVSQLHWGGGT--------PTILNPDQFERLMAALRDAFDFAPEAEIAVEIDPRTVTAEMLQALAA 160 (453)
T ss_pred eEEEEEEcCcc--------cccCCHHHHHHHHHHHHHhCCCCCCceEEEEeccccCCHHHHHHHHH
Confidence 56677887662 2568899999999999999988766678888888766 445555554
No 27
>PF08948 DUF1859: Domain of unknown function (DUF1859); InterPro: IPR015043 This entry is represented by Bacteriophage PRD1, P5. This protein has no known function though it is sometimes found in the N terminus of bacteriophage spike proteins []. ; PDB: 1W8X_N.
Probab=31.10 E-value=20 Score=26.38 Aligned_cols=29 Identities=21% Similarity=0.304 Sum_probs=7.8
Q ss_pred CCCCeEEEEeecCCceeeEE----------EeecccccHHHH
Q 040995 47 VKKGHFAVVAEKGGKPKRFV----------LELGYLSNPEFL 78 (122)
Q Consensus 47 v~kG~~~VyV~~G~e~~Rfv----------Vpv~yL~~P~F~ 78 (122)
=..|||||+|.. +-.|+ +|+-|||.|+-|
T Consensus 85 G~QGYfPlL~~~---~~KFv~~~~~~GKks~P~~FlNF~IA~ 123 (126)
T PF08948_consen 85 GKQGYFPLLVPG---RAKFVVRHTGSGKKSVPMFFLNFTIAQ 123 (126)
T ss_dssp ---SS--EEE-----SSSSEEEEEEEESS----S--------
T ss_pred CCcccceeeccc---hhhhhhhhccCCCcceeeEEEeceeee
Confidence 357999999832 34444 788999988754
No 28
>PF07369 DUF1488: Protein of unknown function (DUF1488); InterPro: IPR009962 This family consists of several hypothetical bacterial proteins of around 85 residues in length. The function of this family is unknown.; PDB: 2GPI_A.
Probab=30.77 E-value=1.5e+02 Score=19.32 Aligned_cols=21 Identities=19% Similarity=0.265 Sum_probs=17.3
Q ss_pred eEEEEeecCCceeeEEEeecccc
Q 040995 51 HFAVVAEKGGKPKRFVLELGYLS 73 (122)
Q Consensus 51 ~~~VyV~~G~e~~RfvVpv~yL~ 73 (122)
.|+++| +...-++.|..+-|.
T Consensus 18 ~F~a~~--~g~~i~C~Is~~aL~ 38 (83)
T PF07369_consen 18 RFPAQV--DGMQIRCAISAEALE 38 (83)
T ss_dssp EEEEEE--TTEEEEEEEEHHHHH
T ss_pred EEEEEE--CCEEEEEEEeHHHHH
Confidence 577777 778899999998874
No 29
>PF08861 DUF1828: Domain of unknown function DUF1828; InterPro: IPR014960 These proteins are functionally uncharacterised.
Probab=30.48 E-value=1.4e+02 Score=19.90 Aligned_cols=39 Identities=13% Similarity=0.197 Sum_probs=32.7
Q ss_pred cHHHHHHHHHHHHhcCCCC-CCceEecCCHHHHHHHHHHH
Q 040995 74 NPEFLSLLEQAEQEYGFQQ-KGILAVPCPPEELQNVLKYK 112 (122)
Q Consensus 74 ~P~F~~LL~~aeeEfG~~~-~G~l~iPC~~~~Fe~vl~~~ 112 (122)
.|.=+++|+.....||..- +|.|.+.++.+.|-..+..+
T Consensus 44 s~~R~~~l~~il~~~gv~~~~~el~~~~~~~~~~~~~~~l 83 (90)
T PF08861_consen 44 SKKRKKILNSILNGFGVELDEGELFIKTSEENFPQAKHRL 83 (90)
T ss_pred chHHHHHHHHHHHHcCccccCCEEEEEeCHHHHHHHHHHH
Confidence 6778899999999999974 69999999999987665543
No 30
>cd06401 PB1_TFG The PB1 domain found in TFG protein, an oncogenic gene product and fusion partner to nerve growth factor tyrosine kinase receptor TrkA and to the tyrosine kinase ALK. The PB1 domain is a modular domain mediating specific protein-protein interaction 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. The PB1 domains of TFG represent a type I/II PB1 domain. The physiological function of TFG remains unknown.
Probab=30.26 E-value=1.3e+02 Score=20.72 Aligned_cols=42 Identities=12% Similarity=0.197 Sum_probs=27.6
Q ss_pred CCceeeEEEeecccccHHHHHHHHHHHHhcCCC-------------CCCc-eEecCCHH
Q 040995 59 GGKPKRFVLELGYLSNPEFLSLLEQAEQEYGFQ-------------QKGI-LAVPCPPE 103 (122)
Q Consensus 59 G~e~~RfvVpv~yL~~P~F~~LL~~aeeEfG~~-------------~~G~-l~iPC~~~ 103 (122)
|++-+|+.+|.. .=.|.+|.++....|... .+|- ++|.++.+
T Consensus 8 g~DiR~~~~~~~---~~t~~~L~~~v~~~F~~~~~~~~~flIKYkD~dGDlVTIts~~d 63 (81)
T cd06401 8 GDDIRRIPIHNE---DITYDELLLMMQRVFRGKLGSSDDVLIKYKDEDGDLITIFDSSD 63 (81)
T ss_pred CCeEEEEeccCc---cccHHHHHHHHHHHhccccCCcccEEEEEECCCCCEEEeccHHH
Confidence 778888776652 226788888888777622 3555 56777643
No 31
>PF05419 GUN4: GUN4-like ; InterPro: IPR008629 In Arabidopsis, GUN4 is required for the functioning of the plastid mediated repression of nuclear transcription that is involved in controlling the levels of magnesium- protoporphyrin IX. GUN4 binds the product and substrate of Mg-chelatase, an enzyme that produces Mg-Proto, and activates Mg-chelatase. GUN4 is thought to participate in plastid-to-nucleus signalling by regulating magnesium-protoporphyrin IX synthesis or trafficking.; PDB: 1Y6I_A 1Z3X_A 1Z3Y_A.
Probab=29.81 E-value=6.7 Score=29.00 Aligned_cols=24 Identities=29% Similarity=0.404 Sum_probs=12.4
Q ss_pred CCCCCCeEEEEeecCCceeeEEEeecccccHHHH
Q 040995 45 KDVKKGHFAVVAEKGGKPKRFVLELGYLSNPEFL 78 (122)
Q Consensus 45 ~~v~kG~~~VyV~~G~e~~RfvVpv~yL~~P~F~ 78 (122)
..+|+||+|.+-.-+ .+++||.|+
T Consensus 109 l~AP~GHLP~~~~~~----------~~~~~~~~~ 132 (132)
T PF05419_consen 109 LNAPKGHLPAVWWLS----------SLLSHPAWQ 132 (132)
T ss_dssp TTS-TT--S-THHHH----------HHHTSCHHH
T ss_pred CCCCCCCCccHHHHH----------HHHcCCCcC
Confidence 458999999543212 677777764
No 32
>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=29.24 E-value=1.5e+02 Score=18.68 Aligned_cols=54 Identities=24% Similarity=0.413 Sum_probs=35.9
Q ss_pred CCceeeEEEeecccccHHHHHHHHHHHHhcCCC----------CCCceEecCCHHHHHHHHHHHHhC
Q 040995 59 GGKPKRFVLELGYLSNPEFLSLLEQAEQEYGFQ----------QKGILAVPCPPEELQNVLKYKKRH 115 (122)
Q Consensus 59 G~e~~RfvVpv~yL~~P~F~~LL~~aeeEfG~~----------~~G~l~iPC~~~~Fe~vl~~~~~~ 115 (122)
+++.+| .+..-..+.|.+|..+.++.||.. .+|-++.=.+-+.|+..+..+...
T Consensus 9 ~~~~~~---~~~~~~~~s~~~L~~~i~~~~~~~~~~~~l~Y~D~dgD~V~i~sd~Dl~~a~~~~~~~ 72 (84)
T PF00564_consen 9 GGDIRR---IISLPSDVSFDDLRSKIREKFGLLDEDFQLKYKDEDGDLVTISSDEDLQEAIEQAKES 72 (84)
T ss_dssp TTEEEE---EEEECSTSHHHHHHHHHHHHHTTSTSSEEEEEEETTSSEEEESSHHHHHHHHHHHHHC
T ss_pred CCeeEE---EEEcCCCCCHHHHHHHHHHHhCCCCccEEEEeeCCCCCEEEeCCHHHHHHHHHHHHhc
Confidence 455556 334445679999999999999983 356443334455677777777653
No 33
>cd06399 PB1_P40 The PB1 domain is essential part of the p40 adaptor protein which plays an important role in activating phagocyte NADPH oxidase during phagocytosis. The PB1 domain is a modular domain mediating specific protein-protein interaction which play a role in many critical cell processes , such as osteoclastogenesis, angiogenesis, early cardiovascular development and cell polarity. A canonical PB1-PB1 interaction, which involves heterodimerization of two PB1 domain, is required for the formation of macromolecular signaling complexes ensuring specificity and fidelity during cellular signaling. The interaction between two PB1 domain depends on the type of PB1. There are three types of PB1 domains: type I which contains an OPCA motif, acidic aminoacid cluster, type II which contains a basic cluster, and type I/II which contains both an OPCA motif and a basic cluster. The PB1 domain of p40 represents a type I PB1 domain which interacts with the PB1 domain of oxidase activator p67 w
Probab=29.16 E-value=96 Score=22.00 Aligned_cols=29 Identities=24% Similarity=0.343 Sum_probs=23.9
Q ss_pred ceeeEEEeecccccHHHHHHHHHHHHhcC
Q 040995 61 KPKRFVLELGYLSNPEFLSLLEQAEQEYG 89 (122)
Q Consensus 61 e~~RfvVpv~yL~~P~F~~LL~~aeeEfG 89 (122)
..+=..|.-+.-..|.|.+||.....+|+
T Consensus 14 ~~rdi~vee~l~~~P~~kdLl~lmr~~f~ 42 (92)
T cd06399 14 TIRDIAVEEDLSSTPLLKDLLELTRREFQ 42 (92)
T ss_pred cccceEeecccccCccHHHHHHHHHHHhc
Confidence 34555666688899999999999999996
No 34
>KOG4390 consensus Voltage-gated A-type K+ channel KCND [Inorganic ion transport and metabolism]
Probab=27.74 E-value=37 Score=30.52 Aligned_cols=40 Identities=20% Similarity=0.399 Sum_probs=34.8
Q ss_pred HHHHHHHHhcCCCCC-CceEecCCHHHHHHHHHHHHhCccc
Q 040995 79 SLLEQAEQEYGFQQK-GILAVPCPPEELQNVLKYKKRHRRI 118 (122)
Q Consensus 79 ~LL~~aeeEfG~~~~-G~l~iPC~~~~Fe~vl~~~~~~~~~ 118 (122)
-||..+|.||=|+.| |.--..-|++.|.++|..-+.|+-|
T Consensus 64 TLLGSsEkeFFy~~dt~eYFFDRDPdiFRhvLnFYRTGkLH 104 (632)
T KOG4390|consen 64 TLLGSSEKEFFYDEDTGEYFFDRDPDIFRHVLNFYRTGKLH 104 (632)
T ss_pred hhhCCcchheeecCCcccccccCChHHHHHHHHHhhcCccc
Confidence 578889999999875 8888999999999999998888754
No 35
>PRK09057 coproporphyrinogen III oxidase; Provisional
Probab=27.38 E-value=1e+02 Score=25.86 Aligned_cols=47 Identities=9% Similarity=0.143 Sum_probs=37.4
Q ss_pred eEEEEeecCCceeeEEEeecccccHHHHHHHHHHHHhcCCCCCCceEecCCHHHH
Q 040995 51 HFAVVAEKGGKPKRFVLELGYLSNPEFLSLLEQAEQEYGFQQKGILAVPCPPEEL 105 (122)
Q Consensus 51 ~~~VyV~~G~e~~RfvVpv~yL~~P~F~~LL~~aeeEfG~~~~G~l~iPC~~~~F 105 (122)
.=.||+|+|. ..+|+...+.+||+...+.|.+..+..+++-|+++.+
T Consensus 56 i~tiy~GGGT--------Ps~l~~~~L~~ll~~i~~~f~~~~~~eit~E~~P~~i 102 (380)
T PRK09057 56 LTSIFFGGGT--------PSLMQPETVAALLDAIARLWPVADDIEITLEANPTSV 102 (380)
T ss_pred cCeEEeCCCc--------cccCCHHHHHHHHHHHHHhCCCCCCccEEEEECcCcC
Confidence 4489997662 2578888999999999999988776679998887554
No 36
>PRK06582 coproporphyrinogen III oxidase; Provisional
Probab=26.41 E-value=1.4e+02 Score=25.31 Aligned_cols=57 Identities=7% Similarity=0.033 Sum_probs=43.1
Q ss_pred eEEEEeecCCceeeEEEeecccccHHHHHHHHHHHHhcCCCCCCceEecCCHHHH-HHHHHHHHhC
Q 040995 51 HFAVVAEKGGKPKRFVLELGYLSNPEFLSLLEQAEQEYGFQQKGILAVPCPPEEL-QNVLKYKKRH 115 (122)
Q Consensus 51 ~~~VyV~~G~e~~RfvVpv~yL~~P~F~~LL~~aeeEfG~~~~G~l~iPC~~~~F-e~vl~~~~~~ 115 (122)
.-.||.|.|. -.+|+...+.+||+...+.|++.....+++-|.++.+ ...|..++..
T Consensus 63 i~tiy~GGGT--------Ps~l~~~~l~~ll~~i~~~~~~~~~~eitiE~nP~~~~~e~l~~l~~~ 120 (390)
T PRK06582 63 IKSIFFGGGT--------PSLMNPVIVEGIINKISNLAIIDNQTEITLETNPTSFETEKFKAFKLA 120 (390)
T ss_pred eeEEEECCCc--------cccCCHHHHHHHHHHHHHhCCCCCCCEEEEEeCCCcCCHHHHHHHHHC
Confidence 4478997662 2688889999999999999888766779998888766 4555555543
No 37
>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=25.39 E-value=1.8e+02 Score=21.85 Aligned_cols=41 Identities=15% Similarity=0.212 Sum_probs=32.2
Q ss_pred HHHH-HHHHHHHHhcCCCCCCceEecCCHHHHHHHHHHHHhCc
Q 040995 75 PEFL-SLLEQAEQEYGFQQKGILAVPCPPEELQNVLKYKKRHR 116 (122)
Q Consensus 75 P~F~-~LL~~aeeEfG~~~~G~l~iPC~~~~Fe~vl~~~~~~~ 116 (122)
|.+- .+++-- ++.|.+.+|.-++|.+...-+.+...+.++.
T Consensus 24 P~il~~~i~~l-~~~g~~~eGIFR~~g~~~~i~~l~~~~~~~~ 65 (195)
T cd04404 24 PPVVRETVEYL-QAHALTTEGIFRRSANTQVVKEVQQKYNMGE 65 (195)
T ss_pred ChHHHHHHHHH-HHcCCCCCCeeeCCCcHHHHHHHHHHHhCCC
Confidence 4444 444444 4489999999999999999999999988775
No 38
>PRK10308 3-methyl-adenine DNA glycosylase II; Provisional
Probab=24.93 E-value=2.6e+02 Score=22.82 Aligned_cols=62 Identities=13% Similarity=0.163 Sum_probs=41.7
Q ss_pred CCeEEEEeecCCceeeEEEeecccccHHHHHHHHHHHHhcCCCCC---------------CceEecCCHHHHHHHHHHH
Q 040995 49 KGHFAVVAEKGGKPKRFVLELGYLSNPEFLSLLEQAEQEYGFQQK---------------GILAVPCPPEELQNVLKYK 112 (122)
Q Consensus 49 kG~~~VyV~~G~e~~RfvVpv~yL~~P~F~~LL~~aeeEfG~~~~---------------G~l~iPC~~~~Fe~vl~~~ 112 (122)
.|+|.|.- .+....+.+.++.-.-|....++.+...-||++.| -+|++|...+.||-+++.+
T Consensus 45 ~~~~~v~~--~~~~~~l~~~~~~~~~~~~~~~~~~vrr~fdLd~d~~~i~~~L~~~~~~~~GlR~p~~~d~fE~lv~aI 121 (283)
T PRK10308 45 RGVVTVIP--DIARHTLHINLSAGLEPVAAECLAKMSRLFDLQCNPQIVNGALGKLGAARPGLRLPGSVDAFEQGVRAI 121 (283)
T ss_pred cEEEEEEE--cCCCceEEEEEcCCccccHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHhCCCCcCCCCCCHHHHHHHHH
Confidence 46665554 33344555555553345566788888888888765 3588999899999888765
No 39
>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=24.69 E-value=52 Score=23.34 Aligned_cols=38 Identities=21% Similarity=0.336 Sum_probs=19.4
Q ss_pred cccHHHHHHHHHHHHhcCCCCCCceEecCCHHHHHHHHH
Q 040995 72 LSNPEFLSLLEQAEQEYGFQQKGILAVPCPPEELQNVLK 110 (122)
Q Consensus 72 L~~P~F~~LL~~aeeEfG~~~~G~l~iPC~~~~Fe~vl~ 110 (122)
..-..|..||+.|||.+|.++ =.+.++=+-.....++.
T Consensus 38 ~~K~~lvaLLElAee~L~c~~-vvic~~k~~~d~~~Llr 75 (108)
T PF02100_consen 38 GSKESLVALLELAEEKLGCSH-VVICLDKNRPDRASLLR 75 (108)
T ss_dssp --SHHHHHHHHHHHHHH-----EEEEE---SS-HHHHHH
T ss_pred ccHHHHHHHHHHhcCcCCCCE-EEEEEECCchhHHHhhh
Confidence 345789999999999988665 34555533333444443
No 40
>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=24.18 E-value=2.4e+02 Score=19.27 Aligned_cols=54 Identities=19% Similarity=0.316 Sum_probs=38.4
Q ss_pred CCceeeEEEeecccccHHHHHHHHHHHHhcCCC--------C-CCceEecCCHHHHHHHHHHHHhC
Q 040995 59 GGKPKRFVLELGYLSNPEFLSLLEQAEQEYGFQ--------Q-KGILAVPCPPEELQNVLKYKKRH 115 (122)
Q Consensus 59 G~e~~RfvVpv~yL~~P~F~~LL~~aeeEfG~~--------~-~G~l~iPC~~~~Fe~vl~~~~~~ 115 (122)
|++..||.++- -.++.|.+|..+-+.-|+++ . .-+++|.|+++. +..+....+.
T Consensus 8 ~~d~~rf~~~~--~~~~~~~~L~~ev~~rf~l~~f~lKYlDde~e~v~lssd~eL-eE~~rl~~~~ 70 (81)
T cd06396 8 NGESQSFLVSD--SENTTWASVEAMVKVSFGLNDIQIKYVDEENEEVSVNSQGEY-EEALKSAVRQ 70 (81)
T ss_pred CCeEEEEEecC--CCCCCHHHHHHHHHHHhCCCcceeEEEcCCCCEEEEEchhhH-HHHHHHHHhC
Confidence 77889999876 22557999999999988864 2 356789998765 5555554443
No 41
>COG4923 Predicted nuclease (RNAse H fold) [General function prediction only]
Probab=23.76 E-value=95 Score=25.33 Aligned_cols=24 Identities=17% Similarity=0.437 Sum_probs=15.5
Q ss_pred CceEecCCHHHHHHHHHHHHhCcc
Q 040995 94 GILAVPCPPEELQNVLKYKKRHRR 117 (122)
Q Consensus 94 G~l~iPC~~~~Fe~vl~~~~~~~~ 117 (122)
-...|||.+..+..+-.....-|+
T Consensus 87 SvF~vPcR~A~Y~~~y~~A~eVnr 110 (245)
T COG4923 87 SVFSVPCRAALYSDIYGRASEVNR 110 (245)
T ss_pred ceeccchHHHHHHHHHHHHHHHHH
Confidence 456789998888776554444333
No 42
>cd01540 PBP1_arabinose_binding Periplasmic L-arabinose-binding protein (ABP), a member of a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily. Periplasmic L-arabinose-binding protein (ABP), a member of a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily. ABP is only involved in transport contrary to other related sugar-binding proteins such as the glucose/galactose-binding protein (GGBP) and the ribose-binding protein (RBP), both of which are involved in chemotaxis as well as transport. The periplasmic ABP consists of two alpha/beta globular domains connected by a three-stranded hinge, a Venus flytrap-like domain, which undergoes a transition from an open to a closed conformational state upon ligand binding. Moreover, ABP is homologous to the ligand-binding domain of eukaryotic receptors such as metabotropic glutamate receptor (mGluR) and DNA-binding transcriptional repressors such a
Probab=22.99 E-value=2.1e+02 Score=21.53 Aligned_cols=22 Identities=14% Similarity=0.040 Sum_probs=12.2
Q ss_pred CCceEecCCHHHHHHHHHHHHh
Q 040995 93 KGILAVPCPPEELQNVLKYKKR 114 (122)
Q Consensus 93 ~G~l~iPC~~~~Fe~vl~~~~~ 114 (122)
+|.|..|++......++..+.+
T Consensus 56 dgiii~~~~~~~~~~~~~~~~~ 77 (289)
T cd01540 56 KGFVICVPDVKLGPAIVAKAKA 77 (289)
T ss_pred CEEEEccCchhhhHHHHHHHHh
Confidence 5666666665444555555544
No 43
>PF12062 HSNSD: heparan sulfate-N-deacetylase; InterPro: IPR021930 This family of proteins is are heparan sulphate N-deacetylase enzymes. This protein is found in eukaryotes. This enzyme is often found associated with PF00685 from PFAM. ; GO: 0015016 [heparan sulfate]-glucosamine N-sulfotransferase activity, 0016787 hydrolase activity
Probab=22.90 E-value=72 Score=28.76 Aligned_cols=39 Identities=31% Similarity=0.536 Sum_probs=30.7
Q ss_pred CCeEEEEeecCCceeeEEEee-----cccccHH-HHHHHHHHHHhcC
Q 040995 49 KGHFAVVAEKGGKPKRFVLEL-----GYLSNPE-FLSLLEQAEQEYG 89 (122)
Q Consensus 49 kG~~~VyV~~G~e~~RfvVpv-----~yL~~P~-F~~LL~~aeeEfG 89 (122)
||.+|+++. ..+-||.|=+ .|+|-|. -++||++=..|||
T Consensus 96 kg~lP~LT~--~~kGRy~lII~ENl~kYlnld~wNR~LLdkYC~ey~ 140 (487)
T PF12062_consen 96 KGDLPVLTD--NDKGRYSLIIFENLLKYLNLDSWNRELLDKYCREYG 140 (487)
T ss_pred CCCCCcccc--CCCCcEEEEEehhHHHHcCChHHHHHHHHHHhHccC
Confidence 577888873 3355776665 8999999 8999999999986
No 44
>TIGR03793 TOMM_pelo TOMM propeptide domain. This model represents a domain that is conserved among a large number of putative thiazole/oxazole-modified microcins (TOMM). Oddly, most of this seqence region appears homologous to nitrile hydratase subunits. This family is expanded especially in Pelotomaculum thermopropionicum SI.
Probab=22.31 E-value=1.5e+02 Score=19.96 Aligned_cols=27 Identities=22% Similarity=0.265 Sum_probs=18.6
Q ss_pred cccHHHHHHH----HHHHHhcCCCCCCceEe
Q 040995 72 LSNPEFLSLL----EQAEQEYGFQQKGILAV 98 (122)
Q Consensus 72 L~~P~F~~LL----~~aeeEfG~~~~G~l~i 98 (122)
-..|.|++.| ..+-+||||.-...+.|
T Consensus 14 w~Dp~Fr~~Ll~DPraaL~e~G~~~P~~~~i 44 (77)
T TIGR03793 14 WEDEAFKQALLTNPKEALEREGVQVPAEVEV 44 (77)
T ss_pred HcCHHHHHHHHHCHHHHHHHhCCCCCCceEE
Confidence 4679999966 45567889986544433
No 45
>cd04373 RhoGAP_p190 RhoGAP_p190: RhoGAP (GTPase-activator protein [GAP] for Rho-like small GTPases) domain of p190-like proteins. p190, also named RhoGAP5, plays a role in neuritogenesis and axon branch stability. p190 shows a preference for Rho, over Rac and Cdc42, and consists of an N-terminal GTPase domain and a C-terminal GAP domain. The central portion of p190 contains important regulatory phosphorylation sites. Small GTPases cluster into distinct families, and all act as molecular switches, active in their GTP-bound form but inactive when GDP-bound. The Rho family of GTPases activates effectors involved in a wide variety of developmental processes, including regulation of cytoskeleton formation, cell proliferation and the JNK signaling pathway. GTPases generally have a low intrinsic GTPase hydrolytic activity but there are family-specific groups of GAPs that enhance the rate of GTP hydrolysis by several orders of magnitude.
Probab=22.09 E-value=2.1e+02 Score=21.51 Aligned_cols=42 Identities=21% Similarity=0.290 Sum_probs=30.8
Q ss_pred HHHHHHHHHHHHhcCCCCCCceEecCCHHHHHHHHHHHHhCc
Q 040995 75 PEFLSLLEQAEQEYGFQQKGILAVPCPPEELQNVLKYKKRHR 116 (122)
Q Consensus 75 P~F~~LL~~aeeEfG~~~~G~l~iPC~~~~Fe~vl~~~~~~~ 116 (122)
|.|-.-+=..=++.|.+.+|.-++|.+....+++.....++.
T Consensus 16 P~~l~~~i~~l~~~gl~~eGIFR~~G~~~~i~~l~~~~~~~~ 57 (185)
T cd04373 16 PIFLEKCVEFIEATGLETEGIYRVSGNKTHLDSLQKQFDQDH 57 (185)
T ss_pred CcHHHHHHHHHHHcCCCCCCeeecCCcHHHHHHHHHHHhcCC
Confidence 444433333334489999999999999999999988887654
No 46
>PF14317 YcxB: YcxB-like protein
Probab=21.87 E-value=1.8e+02 Score=16.83 Aligned_cols=32 Identities=22% Similarity=0.217 Sum_probs=23.5
Q ss_pred CCCeEEEEeecCCceeeEEEeecccccHHHHHHHH
Q 040995 48 KKGHFAVVAEKGGKPKRFVLELGYLSNPEFLSLLE 82 (122)
Q Consensus 48 ~kG~~~VyV~~G~e~~RfvVpv~yL~~P~F~~LL~ 82 (122)
-+.++.+|++. ..-++||-+.++.-...++.+
T Consensus 28 ~~~~~~l~~~~---~~~~~iPk~~f~~~e~~~f~~ 59 (62)
T PF14317_consen 28 TKDYFYLYLGK---NQAFIIPKRAFSEEEKEEFRE 59 (62)
T ss_pred eCCEEEEEECC---CeEEEEEHHHCCHhHHHHHHH
Confidence 46788888833 389999999999655555544
No 47
>PRK01021 lpxB lipid-A-disaccharide synthase; Reviewed
Probab=21.80 E-value=64 Score=29.74 Aligned_cols=34 Identities=15% Similarity=0.143 Sum_probs=24.5
Q ss_pred eeEEEeecccccHHHHHHH-----HHHHHhcCCCCCCce
Q 040995 63 KRFVLELGYLSNPEFLSLL-----EQAEQEYGFQQKGIL 96 (122)
Q Consensus 63 ~RfvVpv~yL~~P~F~~LL-----~~aeeEfG~~~~G~l 96 (122)
+++=+|+.|.+||++.++= +.+.+++|.+.++++
T Consensus 377 ~~~gv~v~yVGHPL~d~i~~~~~~~~~r~~lgl~~~~~i 415 (608)
T PRK01021 377 KDSPLRTVYLGHPLVETISSFSPNLSWKEQLHLPSDKPI 415 (608)
T ss_pred HhcCCCeEEECCcHHhhcccCCCHHHHHHHcCCCCCCCE
Confidence 3456999999999999853 235678888655443
No 48
>PF06290 PsiB: Plasmid SOS inhibition protein (PsiB); InterPro: IPR009385 This family consists of several plasmid SOS inhibition protein (PsiB) sequences [].; PDB: 3NCT_B.
Probab=21.47 E-value=3.7e+02 Score=20.47 Aligned_cols=51 Identities=20% Similarity=0.281 Sum_probs=32.7
Q ss_pred cCCCCCCCCeEEEEeecCCceeeEEEeecccccHHHHHHHHHHHH--hcCCCC
Q 040995 42 VVPKDVKKGHFAVVAEKGGKPKRFVLELGYLSNPEFLSLLEQAEQ--EYGFQQ 92 (122)
Q Consensus 42 ~~~~~v~kG~~~VyV~~G~e~~RfvVpv~yL~~P~F~~LL~~aee--EfG~~~ 92 (122)
|+|.++-.+++.|++..|.+.=..+=-.+-++=-....+|.+++. .+||..
T Consensus 78 CSpG~~sp~W~~vl~~~~G~~~~vv~t~~~f~PE~I~h~L~lva~ld~~Gys~ 130 (143)
T PF06290_consen 78 CSPGEVSPYWMLVLVNRGGQPFAVVRTQDRFEPETINHTLALVAGLDRDGYSQ 130 (143)
T ss_dssp E-SSSS-SSEEEEEEECCC-SEEEEEEESS--HHHHHHHHHHHHHHHHTT--H
T ss_pred cCCCCcCcceEEEEECCCCcEEEEEEecCccCHHHHHHHHHHHHhHhhcCCCH
Confidence 788889999999999766554444333477777788899999886 667654
No 49
>PRK05628 coproporphyrinogen III oxidase; Validated
Probab=21.38 E-value=1.7e+02 Score=24.21 Aligned_cols=57 Identities=12% Similarity=0.205 Sum_probs=39.7
Q ss_pred CeEEEEeecCCceeeEEEeecccccHHHHHHHHHHHHhcCCCCCCceEecCCHHHHH-HHHHHHHh
Q 040995 50 GHFAVVAEKGGKPKRFVLELGYLSNPEFLSLLEQAEQEYGFQQKGILAVPCPPEELQ-NVLKYKKR 114 (122)
Q Consensus 50 G~~~VyV~~G~e~~RfvVpv~yL~~P~F~~LL~~aeeEfG~~~~G~l~iPC~~~~Fe-~vl~~~~~ 114 (122)
..-.||.|+|. -.+|+.+.+.+|++...+.|+...+-.+++-|.++.+. ..|..+++
T Consensus 59 ~i~~i~~GGGT--------Ps~l~~~~l~~ll~~i~~~~~~~~~~e~t~e~~p~~i~~e~l~~l~~ 116 (375)
T PRK05628 59 PVSTVFVGGGT--------PSLLGAEGLARVLDAVRDTFGLAPGAEVTTEANPESTSPEFFAALRA 116 (375)
T ss_pred ceeEEEeCCCc--------cccCCHHHHHHHHHHHHHhCCCCCCCEEEEEeCCCCCCHHHHHHHHH
Confidence 34578887661 25688899999999999999887655677766666542 34444443
No 50
>PF11126 Phage_DsbA: Transcriptional regulator DsbA; InterPro: IPR020313 DsbA is a double stranded binding protein found in bacteriophage T4 which is involved in transcriptional regulation. DsbA, along with other viral proteins, interacts with the host RNA polymerase core enzyme enabling initiation of transcription. DsbA acts as an enhancer protein of late genes in vitro. The protein consists of mainly alpha helices [].
Probab=20.47 E-value=1.4e+02 Score=20.07 Aligned_cols=34 Identities=18% Similarity=0.325 Sum_probs=26.3
Q ss_pred HHHHHHHHHHHHhcCCCCCCceEecCCHHHHHHHHHHHHhCccc
Q 040995 75 PEFLSLLEQAEQEYGFQQKGILAVPCPPEELQNVLKYKKRHRRI 118 (122)
Q Consensus 75 P~F~~LL~~aeeEfG~~~~G~l~iPC~~~~Fe~vl~~~~~~~~~ 118 (122)
-.+.++=..|.+|+|.+. ..|-.++.+-.+.+|.
T Consensus 17 e~IKdik~~AK~ElGv~g----------k~Fnkl~~lyHk~~Re 50 (69)
T PF11126_consen 17 EMIKDIKDRAKDELGVDG----------KMFNKLLKLYHKQERE 50 (69)
T ss_pred HHHHHHHHHHHHHcCCCH----------HHHHHHHHHHHHhhHH
Confidence 345666778999999864 5899999988887764
No 51
>TIGR03687 pupylate_cterm ubiquitin-like protein Pup. Members of this protein family are Pup, a small protein whose ligation to target proteins steers them toward degradation. This protein family occurs in a number of bacteria, especially Actinobacteria such as Mycobacterium tuberculosis, that possess an archeal-type proteasome. All members of this protein family known during model construction end with the C-terminal motif [FY][VI]QKGG[QE]. Ligation is thought to occur between the C-terminal COOH of Pup and an epsilon-amino group of a Lys on the target protein. The N-terminal half of this protein is poorly conserved and not represented in the seed alignment.
Probab=20.38 E-value=49 Score=19.33 Aligned_cols=19 Identities=42% Similarity=0.653 Sum_probs=13.7
Q ss_pred HHHHHHHHHHhc--CCCCCCc
Q 040995 77 FLSLLEQAEQEY--GFQQKGI 95 (122)
Q Consensus 77 F~~LL~~aeeEf--G~~~~G~ 95 (122)
.-.+|+.-+|+| ||-|.|+
T Consensus 12 Id~vLe~NAe~FV~~fVQKGG 32 (33)
T TIGR03687 12 IDGVLESNAEEFVRGFVQKGG 32 (33)
T ss_pred HHHHHHHhHHHHHHHHHHccC
Confidence 456788888888 7777664
No 52
>PF04367 DUF502: Protein of unknown function (DUF502); InterPro: IPR007462 This entry contains proteins that are predicted to be integral membrane proteins.
Probab=20.32 E-value=1.5e+02 Score=20.66 Aligned_cols=23 Identities=22% Similarity=0.164 Sum_probs=13.1
Q ss_pred ccchhhhhchHHHHHHHHHhhcc
Q 040995 2 ERSEDSIKGLTKLKMLITKLQRG 24 (122)
Q Consensus 2 ~~~~~ki~~~~kLk~~~kKwq~~ 24 (122)
|+..++|=.+..+-+.+|..-..
T Consensus 28 e~ll~riP~v~~iY~~~k~~~~~ 50 (108)
T PF04367_consen 28 ERLLQRIPLVKSIYSSIKQLVES 50 (108)
T ss_pred HHHHHHCCchHHHHHHHHHHHHH
Confidence 45556666666665555555544
No 53
>COG4862 MecA Negative regulator of genetic competence, sporulation and motility [Posttranslational modification, protein turnover, chaperones / Signal transduction mechanisms / Cell motility and secretion]
Probab=20.23 E-value=68 Score=26.13 Aligned_cols=27 Identities=19% Similarity=0.412 Sum_probs=24.4
Q ss_pred ccHHHHHHHHHHHHhcCCCCCCceEec
Q 040995 73 SNPEFLSLLEQAEQEYGFQQKGILAVP 99 (122)
Q Consensus 73 ~~P~F~~LL~~aeeEfG~~~~G~l~iP 99 (122)
.+-+|-++++.+..|-+|..+|+|.|-
T Consensus 37 ~EE~F~~mMdEl~~ee~F~~~GpL~iq 63 (224)
T COG4862 37 TEELFYEMMDELNLEEDFKDEGPLWIQ 63 (224)
T ss_pred HHHHHHHHHHhcCCccccccCCceEEE
Confidence 577999999999999999999999874
Done!