Query 043742
Match_columns 98
No_of_seqs 111 out of 644
Neff 4.8
Searched_HMMs 46136
Date Fri Mar 29 07:56:36 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/043742.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/043742hhsearch_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-38 2.7E-43 220.1 9.1 94 1-96 1-104 (104)
2 PLN03220 uncharacterized prote 100.0 3.6E-38 7.9E-43 218.0 9.4 93 1-94 1-102 (105)
3 PF02519 Auxin_inducible: Auxi 100.0 3.5E-35 7.5E-40 200.7 8.8 94 1-96 1-100 (100)
4 PLN03219 uncharacterized prote 100.0 1E-34 2.2E-39 201.7 9.5 95 1-95 1-105 (108)
5 PF02214 BTB_2: BTB/POZ domain 87.2 0.73 1.6E-05 29.5 2.9 56 39-97 3-62 (94)
6 PRK02899 adaptor protein; Prov 54.8 10 0.00022 28.4 2.2 21 60-81 40-62 (197)
7 PRK02315 adaptor protein; Prov 46.0 17 0.00036 27.9 2.1 22 59-81 39-62 (233)
8 cd06410 PB1_UP2 Uncharacterize 41.7 87 0.0019 21.1 4.9 53 38-96 17-83 (97)
9 smart00666 PB1 PB1 domain. Pho 37.8 96 0.0021 18.9 5.5 50 40-95 7-68 (81)
10 PF02100 ODC_AZ: Ornithine dec 36.5 41 0.00088 23.0 2.7 47 47-95 25-77 (108)
11 PF12058 DUF3539: Protein of u 36.4 6.2 0.00014 26.8 -1.3 13 54-66 4-16 (88)
12 PF05389 MecA: Negative regula 34.9 13 0.00028 27.8 0.0 23 58-81 38-62 (220)
13 COG1759 5-formaminoimidazole-4 33.3 19 0.00042 30.0 0.8 33 29-66 87-120 (361)
14 PF08861 DUF1828: Domain of un 30.7 1.2E+02 0.0025 19.5 4.1 37 58-94 44-82 (90)
15 COG5431 Uncharacterized metal- 29.6 67 0.0015 22.8 2.9 28 34-63 32-59 (117)
16 PF00651 BTB: BTB/POZ domain; 28.8 1.5E+02 0.0032 18.4 5.4 54 37-95 13-71 (111)
17 PRK13277 5-formaminoimidazole- 25.7 20 0.00044 29.7 -0.3 33 29-66 87-120 (366)
18 KOG1748 Acyl carrier protein/N 24.8 40 0.00087 24.4 1.1 29 67-95 98-127 (131)
19 cd04751 Commd3 COMM_Domain con 23.4 89 0.0019 20.7 2.5 21 77-97 65-85 (95)
20 PF15387 DUF4611: Domain of un 22.1 62 0.0014 22.3 1.6 19 77-95 13-35 (96)
21 PRK10308 3-methyl-adenine DNA 21.8 3.6E+02 0.0078 21.2 6.0 61 34-95 45-121 (283)
22 PF04722 Ssu72: Ssu72-like pro 21.3 1.1E+02 0.0023 23.6 2.9 19 79-97 105-123 (195)
23 PF14317 YcxB: YcxB-like prote 20.7 1.7E+02 0.0037 16.2 3.6 25 33-59 28-52 (62)
24 PF15209 IL31: Interleukin 31 20.3 69 0.0015 23.4 1.6 25 60-85 25-52 (137)
No 1
>PLN03090 auxin-responsive family protein; Provisional
Probab=100.00 E-value=1.3e-38 Score=220.12 Aligned_cols=94 Identities=43% Similarity=0.779 Sum_probs=83.3
Q ss_pred CCcccch----hHHHHHHhhhCCCCCCCCC----cccccCCCCeEEEEecCCcceEEEEEecCcCchHHHHHHh--hhhc
Q 043742 1 MGFRFPG----VIHAKKILRKYPYNRPQSA----TITAEVPKGYLAVYVGENEMKRFMIPVSYLIQSSFQDLLT--EEEF 70 (98)
Q Consensus 1 m~~~~~~----l~~~k~~l~r~~s~~~~~~----~~~~~vpkG~~aVyVG~e~~~RfvVp~~yL~hP~F~~LL~--eeEf 70 (98)
||++... +.++||+|+||.|.+..++ ..+.+||+||||||||+++ +||+||++|||||+|++||+ ||||
T Consensus 1 m~~~k~~ki~~~~~~kq~l~r~~s~~~~~~~~~~~~~~~vpkG~~aVyVG~~~-~RfvVp~~~L~hP~F~~LL~~aeeEf 79 (104)
T PLN03090 1 MAIKKSNKLTQTAMLKQILKRCSSLGKKQGYDEDGLPLDVPKGHFPVYVGENR-SRYIVPISFLTHPEFQSLLQQAEEEF 79 (104)
T ss_pred CCcccccchhHHHHHHHHHHHHHHhcccCCcccccCCCCCCCCcEEEEECCCC-EEEEEEHHHcCCHHHHHHHHHHHHHh
Confidence 6766443 6789999999999875432 3677899999999999997 99999999999999999999 9999
Q ss_pred CCCCCCCceeeeCcHHHHHHHHHHHh
Q 043742 71 GFDHPMGGLTIPCNEDIFIDLISRLK 96 (98)
Q Consensus 71 G~~~~~G~L~IPC~~~~F~~vl~~l~ 96 (98)
||+|+ |+|+|||+++.|++++|+|+
T Consensus 80 Gf~~~-G~L~IPC~~~~Fe~ll~~i~ 104 (104)
T PLN03090 80 GFDHD-MGLTIPCEEVVFRSLTSMIR 104 (104)
T ss_pred CCCCC-CcEEEeCCHHHHHHHHHHhC
Confidence 99997 89999999999999999983
No 2
>PLN03220 uncharacterized protein; Provisional
Probab=100.00 E-value=3.6e-38 Score=218.01 Aligned_cols=93 Identities=51% Similarity=0.951 Sum_probs=81.6
Q ss_pred CCcccchhHHH-HHHhhhCCCCCC--CCCcccccCCCCeEEEEecC----CcceEEEEEecCcCchHHHHHHh--hhhcC
Q 043742 1 MGFRFPGVIHA-KKILRKYPYNRP--QSATITAEVPKGYLAVYVGE----NEMKRFMIPVSYLIQSSFQDLLT--EEEFG 71 (98)
Q Consensus 1 m~~~~~~l~~~-k~~l~r~~s~~~--~~~~~~~~vpkG~~aVyVG~----e~~~RfvVp~~yL~hP~F~~LL~--eeEfG 71 (98)
||++++.|..+ ||+|+|++.... .+++.+.+|||||||||||+ |+ +||+||++|||||+|++||+ |||||
T Consensus 1 ~~~~~~~~~~~~k~~~~~~~~~~~~~~~~~~~~~VPkGh~aVyVGe~~~~e~-kRFVVPv~yL~hP~F~~LL~~AeEEfG 79 (105)
T PLN03220 1 MGLSRFAISNATKQILKLNSLANRNRTSSSSSDHVPKGHVAVYVGEQIEMEK-KRFVVPISFLNHPSFKEFLSRAEEEFG 79 (105)
T ss_pred CCcchhhhHHHHHHHHHHHhhcccccccccccCCCCCCeEEEEECCCCCccc-eEEEEEHHHcCChHHHHHHHHHHHHhC
Confidence 99999999966 999999883332 22456779999999999998 34 99999999999999999999 99999
Q ss_pred CCCCCCceeeeCcHHHHHHHHHH
Q 043742 72 FDHPMGGLTIPCNEDIFIDLISR 94 (98)
Q Consensus 72 ~~~~~G~L~IPC~~~~F~~vl~~ 94 (98)
|+|++|+|+|||+++.|++++..
T Consensus 80 f~~~~G~L~IPCd~~~F~~ll~s 102 (105)
T PLN03220 80 FNHPMGGLTIPCREEVFLDLIAS 102 (105)
T ss_pred CCCCCCCEEeeCCHHHHHHHHHh
Confidence 99955999999999999999863
No 3
>PF02519 Auxin_inducible: Auxin responsive protein; InterPro: IPR003676 This family consists of the protein products of a gene cluster that encodes a group of auxin-regulated RNAs (small auxin up RNAs, SAURs) []. Proteins from this ARG7 auxin responsive genes family have no identified functional role [].
Probab=100.00 E-value=3.5e-35 Score=200.74 Aligned_cols=94 Identities=45% Similarity=0.746 Sum_probs=76.2
Q ss_pred CCcccchhHHHHHHhhhCCCCCCC----CCcccccCCCCeEEEEecCCcceEEEEEecCcCchHHHHHHh--hhhcCCCC
Q 043742 1 MGFRFPGVIHAKKILRKYPYNRPQ----SATITAEVPKGYLAVYVGENEMKRFMIPVSYLIQSSFQDLLT--EEEFGFDH 74 (98)
Q Consensus 1 m~~~~~~l~~~k~~l~r~~s~~~~----~~~~~~~vpkG~~aVyVG~e~~~RfvVp~~yL~hP~F~~LL~--eeEfG~~~ 74 (98)
|--++..+...++..+++.+.... .++...++|+||||||||+++ +||+||++|||||+|++||+ ||||||++
T Consensus 1 M~~~~k~~~~~~k~~~~~~~~~~~~~~~~~~~~~~vp~G~~~VyVG~~~-~Rfvvp~~~L~hp~f~~LL~~aeeEfG~~~ 79 (100)
T PF02519_consen 1 MASRLKSLASAKKWQSRARSKSSSSSSSRSSSESDVPKGHFAVYVGEER-RRFVVPVSYLNHPLFQELLEQAEEEFGFDQ 79 (100)
T ss_pred CccHHHHHHHHHhhhhhhhhcccccccccccccCCCCCCeEEEEeCccc-eEEEechHHcCchhHHHHHHHHhhhcCcCC
Confidence 344555566565555554443321 122347899999999999987 99999999999999999999 99999999
Q ss_pred CCCceeeeCcHHHHHHHHHHHh
Q 043742 75 PMGGLTIPCNEDIFIDLISRLK 96 (98)
Q Consensus 75 ~~G~L~IPC~~~~F~~vl~~l~ 96 (98)
+ |+|+|||+++.|++++|+|+
T Consensus 80 ~-G~l~iPC~~~~Fe~~l~~le 100 (100)
T PF02519_consen 80 D-GPLTIPCDVVLFEHLLWLLE 100 (100)
T ss_pred C-CcEEeeCCHHHHHHHHHHhC
Confidence 7 99999999999999999984
No 4
>PLN03219 uncharacterized protein; Provisional
Probab=100.00 E-value=1e-34 Score=201.72 Aligned_cols=95 Identities=48% Similarity=0.840 Sum_probs=77.9
Q ss_pred CCcccchhHHHHHHhhhCC------CCCC-CCCcccccCCCCeEEEEecCC-cceEEEEEecCcCchHHHHHHh--hhhc
Q 043742 1 MGFRFPGVIHAKKILRKYP------YNRP-QSATITAEVPKGYLAVYVGEN-EMKRFMIPVSYLIQSSFQDLLT--EEEF 70 (98)
Q Consensus 1 m~~~~~~l~~~k~~l~r~~------s~~~-~~~~~~~~vpkG~~aVyVG~e-~~~RfvVp~~yL~hP~F~~LL~--eeEf 70 (98)
||.....+..+||+++..+ +.++ .+.+.+.+|||||+|||||++ ..+||+||++|||||+|++||+ ||||
T Consensus 1 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~vpkGh~aVYVG~~~E~kRFvVPi~yL~hP~F~~LL~~AeEEf 80 (108)
T PLN03219 1 MGLMRSMLPNAKQIFKSQSMRNKNGSSSPSSSTTTSGLVPKGHVAVYVGEQMEKKRFVVPISYLNHPLFREFLNRAEEEC 80 (108)
T ss_pred CchHHHHHhhHHHHHHHHHHhcccCCCCCccCCCCCCCCCCCeEEEEECCCCCceEEEEEHHHcCChHHHHHHHHHHHHh
Confidence 7888888888888876221 1221 223456789999999999983 2399999999999999999999 9999
Q ss_pred CCCCCCCceeeeCcHHHHHHHHHHH
Q 043742 71 GFDHPMGGLTIPCNEDIFIDLISRL 95 (98)
Q Consensus 71 G~~~~~G~L~IPC~~~~F~~vl~~l 95 (98)
||+|++|+|+|||+++.|+++++.-
T Consensus 81 Gf~~~~G~L~IPCd~~~F~~ll~~~ 105 (108)
T PLN03219 81 GFHHSMGGLTIPCREESFLHLITSH 105 (108)
T ss_pred CCCCCCCCEEEeCCHHHHHHHHHhh
Confidence 9998669999999999999999864
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=87.19 E-value=0.73 Score=29.54 Aligned_cols=56 Identities=21% Similarity=0.303 Sum_probs=40.3
Q ss_pred EEecCCcceEEEEEecCcC-ch--HHHHHHh-hhhcCCCCCCCceeeeCcHHHHHHHHHHHhc
Q 043742 39 VYVGENEMKRFMIPVSYLI-QS--SFQDLLT-EEEFGFDHPMGGLTIPCNEDIFIDLISRLKK 97 (98)
Q Consensus 39 VyVG~e~~~RfvVp~~yL~-hP--~F~~LL~-eeEfG~~~~~G~L~IPC~~~~F~~vl~~l~~ 97 (98)
+=||. ++|.++.+-|. +| .|..+++ +..--+..+.|.+-|-++...|++|+..+..
T Consensus 3 lNVGG---~~f~~~~~tL~~~~~s~l~~~~~~~~~~~~~~~~~~~fiDRdp~~F~~IL~ylr~ 62 (94)
T PF02214_consen 3 LNVGG---TIFETSRSTLTRYPDSLLARLFSGERSDDYDDDDGEYFIDRDPELFEYILNYLRT 62 (94)
T ss_dssp EEETT---EEEEEEHHHHHTSTTSTTTSHHHTGHGGGEETTTTEEEESS-HHHHHHHHHHHHH
T ss_pred EEECC---EEEEEcHHHHhhCCCChhhhHHhhccccccCCccceEEeccChhhhhHHHHHHhh
Confidence 45775 77999998887 54 6888888 4111122234899999999999999998753
No 6
>PRK02899 adaptor protein; Provisional
Probab=54.76 E-value=10 Score=28.45 Aligned_cols=21 Identities=29% Similarity=0.805 Sum_probs=17.0
Q ss_pred HHHHHHh--hhhcCCCCCCCceee
Q 043742 60 SFQDLLT--EEEFGFDHPMGGLTI 81 (98)
Q Consensus 60 ~F~~LL~--eeEfG~~~~~G~L~I 81 (98)
+|.++|+ ..|+||..+ |+|+|
T Consensus 40 lF~~mm~Ea~~e~~F~~~-~pl~~ 62 (197)
T PRK02899 40 LFRDMMQEANKELGFEAD-GPIAV 62 (197)
T ss_pred HHHHHHHHhhhccCcccC-CeEEE
Confidence 4666677 899999986 99986
No 7
>PRK02315 adaptor protein; Provisional
Probab=45.99 E-value=17 Score=27.91 Aligned_cols=22 Identities=27% Similarity=0.416 Sum_probs=18.5
Q ss_pred hHHHHHHh--hhhcCCCCCCCceee
Q 043742 59 SSFQDLLT--EEEFGFDHPMGGLTI 81 (98)
Q Consensus 59 P~F~~LL~--eeEfG~~~~~G~L~I 81 (98)
-+|.++|+ ..|+||..+ |+|+|
T Consensus 39 ~fF~~mm~Ea~~e~~F~~~-~pl~~ 62 (233)
T PRK02315 39 EFFYSMMDEVDEEDDFADE-GPLWF 62 (233)
T ss_pred HHHHHHHHHhccccCcccC-CeEEE
Confidence 46888888 889999985 99987
No 8
>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=41.67 E-value=87 Score=21.07 Aligned_cols=53 Identities=19% Similarity=0.347 Sum_probs=32.4
Q ss_pred EEEecCCcceEEEEEecCcCchHHHHHHh--hhhcCCCC-----------C-CCceeeeCcHHHHHHHHHHHh
Q 043742 38 AVYVGENEMKRFMIPVSYLIQSSFQDLLT--EEEFGFDH-----------P-MGGLTIPCNEDIFIDLISRLK 96 (98)
Q Consensus 38 aVyVG~e~~~RfvVp~~yL~hP~F~~LL~--eeEfG~~~-----------~-~G~L~IPC~~~~F~~vl~~l~ 96 (98)
.=|||.+. +-..|+-+ .+ |.+|.. .+.++..+ + .+-+.|.||. ...++++..+
T Consensus 17 l~Y~GG~t-r~i~V~r~-~s---~~el~~kl~~~~~~~~~~~lky~Lp~edld~Lisv~~De-Dl~~M~~e~~ 83 (97)
T cd06410 17 LRYVGGET-RIVSVDRS-IS---FKELVSKLSELFGAGVVVTLKYQLPDEDLDALISVSNDE-DLKNMMEEYD 83 (97)
T ss_pred EEEcCCce-EEEEEcCC-CC---HHHHHHHHHHHhCCCCceEEEEEcCCCCcceeEEecCcH-HHHHHHHhhc
Confidence 46999886 77777766 44 444444 45555443 1 2577888988 4555555443
No 9
>smart00666 PB1 PB1 domain. Phox and Bem1p domain, present in many eukaryotic cytoplasmic signalling proteins. The domain adopts a beta-grasp fold, similar to that found in ubiquitin and Ras-binding domains. A motif, variously termed OPR, PC and AID, represents the most conserved region of the majority of PB1 domains, and is necessary for PB1 domain function. This function is the formation of PB1 domain heterodimers, although not all PB1 domain pairs associate.
Probab=37.75 E-value=96 Score=18.91 Aligned_cols=50 Identities=24% Similarity=0.440 Sum_probs=34.3
Q ss_pred EecCCcceEEEEEecCcCchHHHHHHh--hhhcCCC----------CCCCceeeeCcHHHHHHHHHHH
Q 043742 40 YVGENEMKRFMIPVSYLIQSSFQDLLT--EEEFGFD----------HPMGGLTIPCNEDIFIDLISRL 95 (98)
Q Consensus 40 yVG~e~~~RfvVp~~yL~hP~F~~LL~--eeEfG~~----------~~~G~L~IPC~~~~F~~vl~~l 95 (98)
+-|++. +||.+|- ...|.+|.. .+-|+.. .++..++|.++. .+..++.+.
T Consensus 7 ~~~~~~-~~~~~~~----~~s~~dL~~~i~~~~~~~~~~~~l~Y~Dedgd~v~l~sd~-Dl~~a~~~~ 68 (81)
T smart00666 7 RYGGET-RRLSVPR----DISFEDLRSKVAKRFGLDNQSFTLKYQDEDGDLVSLTSDE-DLEEAIEEY 68 (81)
T ss_pred EECCEE-EEEEECC----CCCHHHHHHHHHHHhCCCCCCeEEEEECCCCCEEEecCHH-HHHHHHHHH
Confidence 336665 8898885 677888888 7777764 133478899877 555555544
No 10
>PF02100 ODC_AZ: Ornithine decarboxylase antizyme; InterPro: IPR002993 Ornithine decarboxylase antizyme (ODC-AZ) [] binds to, and destabilises, ornithine decarboxylase (ODC), a key enzyme in polyamine synthesis. ODC is then rapidly degraded. The expression of ODC-AZ requires programmed, ribosomal frameshifting which is modulated according to the cellular concentration of polyamines. High levels of polyamines induce a +1 ribosomal frameshift in the translation of mRNA for the antizyme leading to the expression of a full-length protein. At least two forms of ODC-AZ exist in mammals [] and the protein has been found in Drosophila (protein Gutfeeling).; GO: 0004857 enzyme inhibitor activity, 0008073 ornithine decarboxylase inhibitor activity; PDB: 1ZO0_A.
Probab=36.50 E-value=41 Score=23.01 Aligned_cols=47 Identities=34% Similarity=0.385 Sum_probs=21.8
Q ss_pred eEEE-EEecCcCc---hHHHHHHh--hhhcCCCCCCCceeeeCcHHHHHHHHHHH
Q 043742 47 KRFM-IPVSYLIQ---SSFQDLLT--EEEFGFDHPMGGLTIPCNEDIFIDLISRL 95 (98)
Q Consensus 47 ~Rfv-Vp~~yL~h---P~F~~LL~--eeEfG~~~~~G~L~IPC~~~~F~~vl~~l 95 (98)
.=|+ +|-..+.+ ..|.+||+ ||.++.++ -.+.++=+-.....++..+
T Consensus 25 ~L~V~ip~~~~~~~~K~~lvaLLElAee~L~c~~--vvic~~k~~~d~~~Llr~l 77 (108)
T PF02100_consen 25 TLFVFIPSSALGQGSKESLVALLELAEEKLGCSH--VVICLDKNRPDRASLLRTL 77 (108)
T ss_dssp EEEEE-SS---SS--SHHHHHHHHHHHHHH------EEEEE---SS-HHHHHHHH
T ss_pred EEEEEECCcccccccHHHHHHHHHHhcCcCCCCE--EEEEEECCchhHHHhhhhc
Confidence 4455 45544444 45999999 56688775 4666666555555555443
No 11
>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=36.36 E-value=6.2 Score=26.85 Aligned_cols=13 Identities=31% Similarity=0.498 Sum_probs=9.9
Q ss_pred cCcCchHHHHHHh
Q 043742 54 SYLIQSSFQDLLT 66 (98)
Q Consensus 54 ~yL~hP~F~~LL~ 66 (98)
.|||||-|.-|-.
T Consensus 4 ~YLNHPtFGlLy~ 16 (88)
T PF12058_consen 4 TYLNHPTFGLLYR 16 (88)
T ss_dssp -EEEETTTEEEEE
T ss_pred ccccCCccchhee
Confidence 5999999977655
No 12
>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=34.88 E-value=13 Score=27.77 Aligned_cols=23 Identities=39% Similarity=0.735 Sum_probs=0.0
Q ss_pred chHHHHHHh--hhhcCCCCCCCceee
Q 043742 58 QSSFQDLLT--EEEFGFDHPMGGLTI 81 (98)
Q Consensus 58 hP~F~~LL~--eeEfG~~~~~G~L~I 81 (98)
+-+|.++|+ .+|+||..+ |+|++
T Consensus 38 e~fF~~ileea~~e~~F~~~-~~l~~ 62 (220)
T PF05389_consen 38 EEFFYSILEEADEEHGFEND-GPLTF 62 (220)
T ss_dssp --------------------------
T ss_pred HHHHHHHHHHhccccCcccC-CeEEE
Confidence 456888888 899999985 88875
No 13
>COG1759 5-formaminoimidazole-4-carboxamide-1-beta-D-ribofuranosyl 5'-monophosphate synthetase (purine biosynthesis) [Nucleotide transport and metabolism]
Probab=33.29 E-value=19 Score=29.99 Aligned_cols=33 Identities=27% Similarity=0.560 Sum_probs=22.3
Q ss_pred cccCCCCeEEEEecCC-cceEEEEEecCcCchHHHHHHh
Q 043742 29 TAEVPKGYLAVYVGEN-EMKRFMIPVSYLIQSSFQDLLT 66 (98)
Q Consensus 29 ~~~vpkG~~aVyVG~e-~~~RfvVp~~yL~hP~F~~LL~ 66 (98)
+--+|.|-|++|||-+ ....|.||+ +.+ +.||+
T Consensus 87 ~I~IP~gSfv~Y~G~d~ie~~~~vP~--fGn---R~lLr 120 (361)
T COG1759 87 AIFIPHGSFVAYVGYDGIENEFEVPM--FGN---RELLR 120 (361)
T ss_pred eEEecCCceEEEecchhhhhcccCcc--ccc---HhHhh
Confidence 4459999999999965 225677763 121 66777
No 14
>PF08861 DUF1828: Domain of unknown function DUF1828; InterPro: IPR014960 These proteins are functionally uncharacterised.
Probab=30.70 E-value=1.2e+02 Score=19.53 Aligned_cols=37 Identities=24% Similarity=0.335 Sum_probs=29.8
Q ss_pred chHHHHHHh--hhhcCCCCCCCceeeeCcHHHHHHHHHH
Q 043742 58 QSSFQDLLT--EEEFGFDHPMGGLTIPCNEDIFIDLISR 94 (98)
Q Consensus 58 hP~F~~LL~--eeEfG~~~~~G~L~IPC~~~~F~~vl~~ 94 (98)
.+.=+++|+ -..||..-++|.|.+.++.+.|-.....
T Consensus 44 s~~R~~~l~~il~~~gv~~~~~el~~~~~~~~~~~~~~~ 82 (90)
T PF08861_consen 44 SKKRKKILNSILNGFGVELDEGELFIKTSEENFPQAKHR 82 (90)
T ss_pred chHHHHHHHHHHHHcCccccCCEEEEEeCHHHHHHHHHH
Confidence 455667777 7889999888999999999988766554
No 15
>COG5431 Uncharacterized metal-binding protein [Function unknown]
Probab=29.56 E-value=67 Score=22.84 Aligned_cols=28 Identities=21% Similarity=0.430 Sum_probs=23.2
Q ss_pred CCeEEEEecCCcceEEEEEecCcCchHHHH
Q 043742 34 KGYLAVYVGENEMKRFMIPVSYLIQSSFQD 63 (98)
Q Consensus 34 kG~~aVyVG~e~~~RfvVp~~yL~hP~F~~ 63 (98)
++-|.||||++ +=|++-..|-+.|.|..
T Consensus 32 ~~~~fVyvG~~--rdYIl~~gfCSCp~~~~ 59 (117)
T COG5431 32 KVKFFVYVGKE--RDYILEGGFCSCPDFLG 59 (117)
T ss_pred eEEEEEEEccc--cceEEEcCcccCHHHHh
Confidence 44589999997 56999999999999873
No 16
>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=28.82 E-value=1.5e+02 Score=18.37 Aligned_cols=54 Identities=19% Similarity=0.461 Sum_probs=35.7
Q ss_pred EEEEecCCcceEEEEEecCc--CchHHHHHHhhhhcCCCCCCC--ceeee-CcHHHHHHHHHHH
Q 043742 37 LAVYVGENEMKRFMIPVSYL--IQSSFQDLLTEEEFGFDHPMG--GLTIP-CNEDIFIDLISRL 95 (98)
Q Consensus 37 ~aVyVG~e~~~RfvVp~~yL--~hP~F~~LL~eeEfG~~~~~G--~L~IP-C~~~~F~~vl~~l 95 (98)
+.+.||+ . ++|-+.-..| ..|.|+.++... +...+ + .+.++ ++.+.|+.+++.+
T Consensus 13 ~~i~v~d-~-~~~~vhk~iL~~~S~~F~~~~~~~--~~~~~-~~~~i~~~~~~~~~~~~~l~~~ 71 (111)
T PF00651_consen 13 VTIRVGD-G-KTFYVHKNILAARSPYFRNLFEGS--KFKES-TVPEISLPDVSPEAFEAFLEYM 71 (111)
T ss_dssp EEEEETT-T-EEEEE-HHHHHHHBHHHHHHHTTT--TSTTS-SEEEEEETTSCHHHHHHHHHHH
T ss_pred EEEEECC-C-EEEeechhhhhccchhhhhccccc--ccccc-cccccccccccccccccccccc
Confidence 4566775 2 7788888777 468999999933 11122 3 35544 7899999998765
No 17
>PRK13277 5-formaminoimidazole-4-carboxamide-1-(beta)-D-ribofuranosyl 5'-monophosphate synthetase-like protein; Provisional
Probab=25.70 E-value=20 Score=29.75 Aligned_cols=33 Identities=33% Similarity=0.545 Sum_probs=22.7
Q ss_pred cccCCCCeEEEEecCCcc-eEEEEEecCcCchHHHHHHh
Q 043742 29 TAEVPKGYLAVYVGENEM-KRFMIPVSYLIQSSFQDLLT 66 (98)
Q Consensus 29 ~~~vpkG~~aVyVG~e~~-~RfvVp~~yL~hP~F~~LL~ 66 (98)
+--||.|-|++|||-+.- ..|-|| ++.+ +.||+
T Consensus 87 ~i~iPh~sf~~y~g~~~ie~~~~vp--~fGn---r~~lr 120 (366)
T PRK13277 87 AIFVPNRSFAVYVGYDAIENEFKVP--IFGN---RYLLR 120 (366)
T ss_pred eEEecCCCeEEEecHHHHhhcCCCC--cccC---HHHhh
Confidence 445899999999997642 257777 3333 56666
No 18
>KOG1748 consensus Acyl carrier protein/NADH-ubiquinone oxidoreductase, NDUFAB1/SDAP subunit [Energy production and conversion; Lipid transport and metabolism; Secondary metabolites biosynthesis, transport and catabolism]
Probab=24.78 E-value=40 Score=24.38 Aligned_cols=29 Identities=28% Similarity=0.314 Sum_probs=20.4
Q ss_pred hhhcCCCCC-CCceeeeCcHHHHHHHHHHH
Q 043742 67 EEEFGFDHP-MGGLTIPCNEDIFIDLISRL 95 (98)
Q Consensus 67 eeEfG~~~~-~G~L~IPC~~~~F~~vl~~l 95 (98)
||||||+-+ +-+=.|-|-.+.+++|-+..
T Consensus 98 EEEFgiEIpd~dAdki~t~~da~~yI~~~~ 127 (131)
T KOG1748|consen 98 EEEFGIEIPDEDADKIKTVRDAADYIADKP 127 (131)
T ss_pred HHHhCCccCcchhhhhCCHHHHHHHHHhcc
Confidence 999999875 24556777777777776543
No 19
>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=23.35 E-value=89 Score=20.67 Aligned_cols=21 Identities=24% Similarity=0.574 Sum_probs=18.6
Q ss_pred CceeeeCcHHHHHHHHHHHhc
Q 043742 77 GGLTIPCNEDIFIDLISRLKK 97 (98)
Q Consensus 77 G~L~IPC~~~~F~~vl~~l~~ 97 (98)
..+.+-|+++.|.+++..|..
T Consensus 65 ~~i~f~c~~e~L~~Li~~Lk~ 85 (95)
T cd04751 65 PDINFTCTLEQLQDLVNKLKD 85 (95)
T ss_pred ceEEEEeCHHHHHHHHHHHHH
Confidence 589999999999999998753
No 20
>PF15387 DUF4611: Domain of unknown function (DUF4611)
Probab=22.12 E-value=62 Score=22.34 Aligned_cols=19 Identities=37% Similarity=0.737 Sum_probs=13.4
Q ss_pred CceeeeCc----HHHHHHHHHHH
Q 043742 77 GGLTIPCN----EDIFIDLISRL 95 (98)
Q Consensus 77 G~L~IPC~----~~~F~~vl~~l 95 (98)
..|++||+ .+-|+.+|+-+
T Consensus 13 q~lrv~ce~p~~~d~~q~LlsGv 35 (96)
T PF15387_consen 13 QRLRVPCEAPGDADPFQGLLSGV 35 (96)
T ss_pred ceEEEeeecCCCcccHHHHHHHH
Confidence 56888887 46777776644
No 21
>PRK10308 3-methyl-adenine DNA glycosylase II; Provisional
Probab=21.76 E-value=3.6e+02 Score=21.16 Aligned_cols=61 Identities=18% Similarity=0.262 Sum_probs=34.5
Q ss_pred CCeEEEEecCCcceEEEEEecCcCchHHHHHHh--hhhcCCCCC--------------CCceeeeCcHHHHHHHHHHH
Q 043742 34 KGYLAVYVGENEMKRFMIPVSYLIQSSFQDLLT--EEEFGFDHP--------------MGGLTIPCNEDIFIDLISRL 95 (98)
Q Consensus 34 kG~~aVyVG~e~~~RfvVp~~yL~hP~F~~LL~--eeEfG~~~~--------------~G~L~IPC~~~~F~~vl~~l 95 (98)
.|.+.|.-.++. .++.+.++.-.-+....++. ..-|+.+.| .-+|++|...+.||.+++.|
T Consensus 45 ~~~~~v~~~~~~-~~l~~~~~~~~~~~~~~~~~~vrr~fdLd~d~~~i~~~L~~~~~~~~GlR~p~~~d~fE~lv~aI 121 (283)
T PRK10308 45 RGVVTVIPDIAR-HTLHINLSAGLEPVAAECLAKMSRLFDLQCNPQIVNGALGKLGAARPGLRLPGSVDAFEQGVRAI 121 (283)
T ss_pred cEEEEEEEcCCC-ceEEEEEcCCccccHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHhCCCCcCCCCCCHHHHHHHHH
Confidence 455555544443 45555555422233333333 344444332 24799999999999998876
No 22
>PF04722 Ssu72: Ssu72-like protein; InterPro: IPR006811 The highly conserved and essential protein Ssu72 has intrinsic phosphatase activity and plays an essential role in the transcription cycle. Ssu72 was originally identified in a yeast genetic screen as enhancer of a defect caused by a mutation in the transcription initiation factor TFIIB []. It binds to TFIIB and is also involved in mRNA elongation. Ssu72 is further involved in both poly(A) dependent and independent termination. It is a subunit of the yeast cleavage and polyadenylation factor (CPF), which is part of the machinery for mRNA 3'-end formation. Ssu72 is also essential for transcription termination of snRNAs [].; GO: 0004721 phosphoprotein phosphatase activity, 0006397 mRNA processing, 0005634 nucleus; PDB: 3O2S_B 3O2Q_E 3FMV_H 3OMW_D 3P9Y_B 3FDF_A 3OMX_A.
Probab=21.26 E-value=1.1e+02 Score=23.57 Aligned_cols=19 Identities=26% Similarity=0.665 Sum_probs=16.9
Q ss_pred eeeeCcHHHHHHHHHHHhc
Q 043742 79 LTIPCNEDIFIDLISRLKK 97 (98)
Q Consensus 79 L~IPC~~~~F~~vl~~l~~ 97 (98)
+.|.|++..|+.|+.-|+.
T Consensus 105 vIiTcEERvfD~Vvedl~~ 123 (195)
T PF04722_consen 105 VIITCEERVFDQVVEDLNS 123 (195)
T ss_dssp EEEESSHHHHHHHHHHHHC
T ss_pred EEEEechHHHHHHHHHHHh
Confidence 8899999999999998753
No 23
>PF14317 YcxB: YcxB-like protein
Probab=20.68 E-value=1.7e+02 Score=16.21 Aligned_cols=25 Identities=32% Similarity=0.720 Sum_probs=19.7
Q ss_pred CCCeEEEEecCCcceEEEEEecCcCch
Q 043742 33 PKGYLAVYVGENEMKRFMIPVSYLIQS 59 (98)
Q Consensus 33 pkG~~aVyVG~e~~~RfvVp~~yL~hP 59 (98)
-+.++-+|+++. .-+.||-+.++.-
T Consensus 28 ~~~~~~l~~~~~--~~~~iPk~~f~~~ 52 (62)
T PF14317_consen 28 TKDYFYLYLGKN--QAFIIPKRAFSEE 52 (62)
T ss_pred eCCEEEEEECCC--eEEEEEHHHCCHh
Confidence 467888899874 6799999998843
No 24
>PF15209 IL31: Interleukin 31
Probab=20.32 E-value=69 Score=23.42 Aligned_cols=25 Identities=28% Similarity=0.470 Sum_probs=20.1
Q ss_pred HHHHHHh---hhhcCCCCCCCceeeeCcH
Q 043742 60 SFQDLLT---EEEFGFDHPMGGLTIPCNE 85 (98)
Q Consensus 60 ~F~~LL~---eeEfG~~~~~G~L~IPC~~ 85 (98)
+=++||+ ++|-|-..+ -..++||-.
T Consensus 25 ~Sk~Lledy~~kE~Gvp~~-~~~~LPCft 52 (137)
T PF15209_consen 25 LSKKLLEDYKEKEKGVPES-ESYQLPCFT 52 (137)
T ss_pred HHHHHHHHHHHhhcCCCcc-cCccCCCCC
Confidence 3467888 788999987 689999954
Done!