Query 034194
Match_columns 101
No_of_seqs 108 out of 607
Neff 4.2
Searched_HMMs 46136
Date Fri Mar 29 10:49:56 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/034194.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/034194hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF02519 Auxin_inducible: Auxi 100.0 2.4E-34 5.2E-39 198.8 8.0 69 6-79 32-100 (100)
2 PLN03090 auxin-responsive fami 100.0 1.7E-33 3.8E-38 197.2 8.1 68 6-78 36-103 (104)
3 PLN03220 uncharacterized prote 100.0 9.2E-33 2E-37 194.0 8.2 71 6-77 31-102 (105)
4 PLN03219 uncharacterized prote 100.0 1E-31 2.2E-36 189.5 8.0 70 7-79 36-106 (108)
5 PRK02899 adaptor protein; Prov 88.3 0.44 9.6E-06 36.3 2.7 24 41-64 39-62 (197)
6 PRK02315 adaptor protein; Prov 85.8 0.65 1.4E-05 36.1 2.4 24 41-64 39-62 (233)
7 PF02214 BTB_2: BTB/POZ domain 83.4 1.4 3.1E-05 28.5 2.9 53 29-81 8-63 (94)
8 PF05389 MecA: Negative regula 80.3 0.54 1.2E-05 35.6 0.0 25 40-64 38-62 (220)
9 cd05992 PB1 The PB1 domain is 67.7 14 0.00031 22.8 4.3 50 27-80 10-70 (81)
10 smart00666 PB1 PB1 domain. Pho 61.9 19 0.00042 22.4 4.1 48 27-79 11-69 (81)
11 PF11834 DUF3354: Domain of un 42.9 19 0.00041 23.5 1.8 24 28-57 19-42 (69)
12 PF08861 DUF1828: Domain of un 42.6 65 0.0014 21.0 4.3 39 40-78 44-83 (90)
13 cd06398 PB1_Joka2 The PB1 doma 40.4 67 0.0015 21.7 4.2 54 26-79 9-75 (91)
14 PRK02797 4-alpha-L-fucosyltran 40.0 1.3E+02 0.0028 25.2 6.6 67 9-79 141-225 (322)
15 PF07429 Glyco_transf_56: 4-al 38.1 1.8E+02 0.0039 24.8 7.2 68 9-79 180-264 (360)
16 TIGR03793 TOMM_pelo TOMM prope 37.5 54 0.0012 21.7 3.3 27 38-64 14-44 (77)
17 cd06407 PB1_NLP A PB1 domain i 37.5 71 0.0015 21.0 3.9 42 27-72 10-63 (82)
18 TIGR03687 pupylate_cterm ubiqu 37.1 15 0.00033 21.2 0.6 19 43-61 12-32 (33)
19 cd01406 SIR2-like Sir2-like: P 34.3 51 0.0011 24.6 3.2 36 13-59 1-36 (242)
20 COG4862 MecA Negative regulato 33.8 31 0.00067 27.5 2.0 27 39-65 37-63 (224)
21 PF11822 DUF3342: Domain of un 31.6 75 0.0016 26.4 3.9 61 17-81 3-68 (317)
22 cd06410 PB1_UP2 Uncharacterize 31.3 1.4E+02 0.0029 20.4 4.6 44 16-68 17-73 (97)
23 PF09906 DUF2135: Uncharacteri 31.1 77 0.0017 19.1 3.0 22 14-35 29-50 (50)
24 PF02209 VHP: Villin headpiece 30.9 19 0.0004 20.9 0.2 19 37-55 1-19 (36)
25 PF02100 ODC_AZ: Ornithine dec 28.9 35 0.00075 23.7 1.4 52 28-80 24-79 (108)
26 smart00153 VHP Villin headpiec 28.6 26 0.00056 20.2 0.6 18 37-54 1-18 (36)
27 PF00564 PB1: PB1 domain; Int 27.6 1E+02 0.0022 19.0 3.3 48 28-80 12-71 (84)
28 cd06397 PB1_UP1 Uncharacterize 27.5 78 0.0017 21.7 2.8 43 26-72 9-62 (82)
29 PF08948 DUF1859: Domain of un 27.0 23 0.0005 25.7 0.2 28 11-44 86-123 (126)
30 cd04751 Commd3 COMM_Domain con 26.0 81 0.0018 21.2 2.8 23 59-81 64-86 (95)
31 PF12058 DUF3539: Protein of u 24.8 14 0.0003 25.6 -1.2 11 36-46 4-14 (88)
32 COG1759 5-formaminoimidazole-4 24.7 32 0.0007 29.2 0.7 40 7-51 87-136 (361)
33 PF00651 BTB: BTB/POZ domain; 22.9 1.6E+02 0.0035 18.3 3.6 50 28-81 20-74 (111)
34 PF14317 YcxB: YcxB-like prote 22.6 1.6E+02 0.0034 16.5 3.6 32 11-48 28-59 (62)
35 PF05194 UreE_C: UreE urease a 22.0 1.2E+02 0.0026 19.7 2.9 27 13-50 25-51 (87)
36 cd06279 PBP1_LacI_like_3 Ligan 21.2 1E+02 0.0022 22.7 2.7 27 31-57 4-36 (283)
37 cd04395 RhoGAP_ARHGAP21 RhoGAP 20.9 2.6E+02 0.0056 20.5 4.8 43 40-82 18-60 (196)
38 COG5431 Uncharacterized metal- 20.2 1.3E+02 0.0027 21.9 2.9 65 12-82 32-105 (117)
No 1
>PF02519 Auxin_inducible: Auxin responsive protein; InterPro: IPR003676 This family consists of the protein products of a gene cluster that encodes a group of auxin-regulated RNAs (small auxin up RNAs, SAURs) []. Proteins from this ARG7 auxin responsive genes family have no identified functional role [].
Probab=100.00 E-value=2.4e-34 Score=198.83 Aligned_cols=69 Identities=51% Similarity=0.926 Sum_probs=65.6
Q ss_pred ccCCCCCceEEEEeccccCCCCeeEEEEecCCCCchHHHHHHHHHHHhcCcCCCCCeEecccHHHHHHHHHHHh
Q 034194 6 KTMKVKKGWLAVQVGLEEEDGGSRKFVIPISHLYHPLFGQLLEKAREVYGYNTDGPLRLPCSVDDFLHLQWRIE 79 (101)
Q Consensus 6 k~~~vpkG~~aVyVG~e~~~e~~kRfvVpv~~L~hP~F~~LL~~AeEEfGf~~~G~L~IPC~~~~Fe~vl~~i~ 79 (101)
+..++|+||+|||||+ +++||+||++|||||+|++||++|||||||+++|+|+|||+++.|++++|+|+
T Consensus 32 ~~~~vp~G~~~VyVG~-----~~~Rfvvp~~~L~hp~f~~LL~~aeeEfG~~~~G~l~iPC~~~~Fe~~l~~le 100 (100)
T PF02519_consen 32 SESDVPKGHFAVYVGE-----ERRRFVVPVSYLNHPLFQELLEQAEEEFGFDQDGPLTIPCDVVLFEHLLWLLE 100 (100)
T ss_pred ccCCCCCCeEEEEeCc-----cceEEEechHHcCchhHHHHHHHHhhhcCcCCCCcEEeeCCHHHHHHHHHHhC
Confidence 3578999999999996 47999999999999999999999999999999999999999999999999986
No 2
>PLN03090 auxin-responsive family protein; Provisional
Probab=100.00 E-value=1.7e-33 Score=197.24 Aligned_cols=68 Identities=37% Similarity=0.642 Sum_probs=64.6
Q ss_pred ccCCCCCceEEEEeccccCCCCeeEEEEecCCCCchHHHHHHHHHHHhcCcCCCCCeEecccHHHHHHHHHHH
Q 034194 6 KTMKVKKGWLAVQVGLEEEDGGSRKFVIPISHLYHPLFGQLLEKAREVYGYNTDGPLRLPCSVDDFLHLQWRI 78 (101)
Q Consensus 6 k~~~vpkG~~aVyVG~e~~~e~~kRfvVpv~~L~hP~F~~LL~~AeEEfGf~~~G~L~IPC~~~~Fe~vl~~i 78 (101)
.+.+|||||||||||+ +++||+||++|||||+|++||++|||||||+++|+|+|||+++.|++++|+|
T Consensus 36 ~~~~vpkG~~aVyVG~-----~~~RfvVp~~~L~hP~F~~LL~~aeeEfGf~~~G~L~IPC~~~~Fe~ll~~i 103 (104)
T PLN03090 36 LPLDVPKGHFPVYVGE-----NRSRYIVPISFLTHPEFQSLLQQAEEEFGFDHDMGLTIPCEEVVFRSLTSMI 103 (104)
T ss_pred CCCCCCCCcEEEEECC-----CCEEEEEEHHHcCCHHHHHHHHHHHHHhCCCCCCcEEEeCCHHHHHHHHHHh
Confidence 4568999999999995 3799999999999999999999999999999999999999999999999998
No 3
>PLN03220 uncharacterized protein; Provisional
Probab=99.98 E-value=9.2e-33 Score=193.99 Aligned_cols=71 Identities=39% Similarity=0.680 Sum_probs=63.8
Q ss_pred ccCCCCCceEEEEeccccCCCCeeEEEEecCCCCchHHHHHHHHHHHhcCcCC-CCCeEecccHHHHHHHHHH
Q 034194 6 KTMKVKKGWLAVQVGLEEEDGGSRKFVIPISHLYHPLFGQLLEKAREVYGYNT-DGPLRLPCSVDDFLHLQWR 77 (101)
Q Consensus 6 k~~~vpkG~~aVyVG~e~~~e~~kRfvVpv~~L~hP~F~~LL~~AeEEfGf~~-~G~L~IPC~~~~Fe~vl~~ 77 (101)
.+.+|||||||||||++ ++.+++||+||++|||||+|++||++|||||||++ +|+|+|||+++.|++++..
T Consensus 31 ~~~~VPkGh~aVyVGe~-~~~e~kRFVVPv~yL~hP~F~~LL~~AeEEfGf~~~~G~L~IPCd~~~F~~ll~s 102 (105)
T PLN03220 31 SSDHVPKGHVAVYVGEQ-IEMEKKRFVVPISFLNHPSFKEFLSRAEEEFGFNHPMGGLTIPCREEVFLDLIAS 102 (105)
T ss_pred ccCCCCCCeEEEEECCC-CCccceEEEEEHHHcCChHHHHHHHHHHHHhCCCCCCCCEEeeCCHHHHHHHHHh
Confidence 44689999999999963 33457999999999999999999999999999997 6999999999999999863
No 4
>PLN03219 uncharacterized protein; Provisional
Probab=99.97 E-value=1e-31 Score=189.48 Aligned_cols=70 Identities=41% Similarity=0.698 Sum_probs=63.6
Q ss_pred cCCCCCceEEEEeccccCCCCeeEEEEecCCCCchHHHHHHHHHHHhcCcCC-CCCeEecccHHHHHHHHHHHh
Q 034194 7 TMKVKKGWLAVQVGLEEEDGGSRKFVIPISHLYHPLFGQLLEKAREVYGYNT-DGPLRLPCSVDDFLHLQWRIE 79 (101)
Q Consensus 7 ~~~vpkG~~aVyVG~e~~~e~~kRfvVpv~~L~hP~F~~LL~~AeEEfGf~~-~G~L~IPC~~~~Fe~vl~~i~ 79 (101)
..+|||||+|||||++ ++++||+||++|||||+|++||++|||||||++ +|+|+|||+++.|++++..-+
T Consensus 36 ~~~vpkGh~aVYVG~~---~E~kRFvVPi~yL~hP~F~~LL~~AeEEfGf~~~~G~L~IPCd~~~F~~ll~~~~ 106 (108)
T PLN03219 36 SGLVPKGHVAVYVGEQ---MEKKRFVVPISYLNHPLFREFLNRAEEECGFHHSMGGLTIPCREESFLHLITSHQ 106 (108)
T ss_pred CCCCCCCeEEEEECCC---CCceEEEEEHHHcCChHHHHHHHHHHHHhCCCCCCCCEEEeCCHHHHHHHHHhhh
Confidence 3579999999999963 358999999999999999999999999999996 699999999999999998643
No 5
>PRK02899 adaptor protein; Provisional
Probab=88.35 E-value=0.44 Score=36.26 Aligned_cols=24 Identities=29% Similarity=0.796 Sum_probs=21.2
Q ss_pred hHHHHHHHHHHHhcCcCCCCCeEe
Q 034194 41 PLFGQLLEKAREVYGYNTDGPLRL 64 (101)
Q Consensus 41 P~F~~LL~~AeEEfGf~~~G~L~I 64 (101)
-+|.++|++|..|+||..+|+|+|
T Consensus 39 ~lF~~mm~Ea~~e~~F~~~~pl~~ 62 (197)
T PRK02899 39 QLFRDMMQEANKELGFEADGPIAV 62 (197)
T ss_pred HHHHHHHHHhhhccCcccCCeEEE
Confidence 467778999999999998999986
No 6
>PRK02315 adaptor protein; Provisional
Probab=85.80 E-value=0.65 Score=36.05 Aligned_cols=24 Identities=21% Similarity=0.544 Sum_probs=22.2
Q ss_pred hHHHHHHHHHHHhcCcCCCCCeEe
Q 034194 41 PLFGQLLEKAREVYGYNTDGPLRL 64 (101)
Q Consensus 41 P~F~~LL~~AeEEfGf~~~G~L~I 64 (101)
-+|.++|++|..|+||..+|+|+|
T Consensus 39 ~fF~~mm~Ea~~e~~F~~~~pl~~ 62 (233)
T PRK02315 39 EFFYSMMDEVDEEDDFADEGPLWF 62 (233)
T ss_pred HHHHHHHHHhccccCcccCCeEEE
Confidence 579999999999999999999986
No 7
>PF02214 BTB_2: BTB/POZ domain; InterPro: IPR003131 Potassium channels are the most diverse group of the ion channel family [, ]. They are important in shaping the action potential, and in neuronal excitability and plasticity []. The potassium channel family is composed of several functionally distinct isoforms, which can be broadly separated into 2 groups []: the practically non-inactivating 'delayed' group and the rapidly inactivating 'transient' group. These are all highly similar proteins, with only small amino acid changes causing the diversity of the voltage-dependent gating mechanism, channel conductance and toxin binding properties. Each type of K+ channel is activated by different signals and conditions depending on their type of regulation: some open in response to depolarisation of the plasma membrane; others in response to hyperpolarisation or an increase in intracellular calcium concentration; some can be regulated by binding of a transmitter, together with intracellular kinases; while others are regulated by GTP-binding proteins or other second messengers []. In eukaryotic cells, K+ channels are involved in neural signalling and generation of the cardiac rhythm, act as effectors in signal transduction pathways involving G protein-coupled receptors (GPCRs) and may have a role in target cell lysis by cytotoxic T-lymphocytes []. In prokaryotic cells, they play a role in the maintenance of ionic homeostasis []. All K+ channels discovered so far possess a core of alpha subunits, each comprising either one or two copies of a highly conserved pore loop domain (P-domain). The P-domain contains the sequence (T/SxxTxGxG), which has been termed the K+ selectivity sequence. In families that contain one P-domain, four subunits assemble to form a selective pathway for K+ across the membrane. However, it remains unclear how the 2 P-domain subunits assemble to form a selective pore. The functional diversity of these families can arise through homo- or hetero-associations of alpha subunits or association with auxiliary cytoplasmic beta subunits. K+ channel subunits containing one pore domain can be assigned into one of two superfamilies: those that possess six transmembrane (TM) domains and those that possess only two TM domains. The six TM domain superfamily can be further subdivided into conserved gene families: the voltage-gated (Kv) channels; the KCNQ channels (originally known as KvLQT channels); the EAG-like K+ channels; and three types of calcium (Ca)-activated K+ channels (BK, IK and SK) []. The 2TM domain family comprises inward-rectifying K+ channels. In addition, there are K+ channel alpha-subunits that possess two P-domains. These are usually highly regulated K+ selective leak channels. The Kv family can be divided into several subfamilies on the basis of sequence similarity and function. Four of these subfamilies, Kv1 (Shaker), Kv2 (Shab), Kv3 (Shaw) and Kv4 (Shal), consist of pore-forming alpha subunits that associate with different types of beta subunit. Each alpha subunit comprises six hydrophobic TM domains with a P-domain between the fifth and sixth, which partially resides in the membrane. The fourth TM domain has positively charged residues at every third residue and acts as a voltage sensor, which triggers the conformational change that opens the channel pore in response to a displacement in membrane potential []. More recently, 4 new electrically-silent alpha subunits have been cloned: Kv5 (KCNF), Kv6 (KCNG), Kv8 and Kv9 (KCNS). These subunits do not themselves possess any functional activity, but appear to form heteromeric channels with Kv2 subunits, and thus modulate Shab channel activity []. When highly expressed, they inhibit channel activity, but at lower levels show more specific modulatory actions. The N-terminal, cytoplasmic tetramerization domain (T1) of voltage-gated potassium channels encodes molecular determinants for subfamily-specific assembly of alpha-subunits into functional tetrameric channels []. This domain is found in a subset of a larger group of proteins that contain the BTB/POZ domain.; GO: 0005249 voltage-gated potassium channel activity, 0006813 potassium ion transport, 0008076 voltage-gated potassium channel complex, 0016020 membrane; PDB: 1NN7_A 3KVT_A 1EXB_E 1QDV_A 1DSX_E 1QDW_F 3LUT_B 3LNM_B 2A79_B 3DRY_C ....
Probab=83.38 E-value=1.4 Score=28.46 Aligned_cols=53 Identities=19% Similarity=0.142 Sum_probs=41.3
Q ss_pred eEEEEecCCCC-ch--HHHHHHHHHHHhcCcCCCCCeEecccHHHHHHHHHHHhhc
Q 034194 29 RKFVIPISHLY-HP--LFGQLLEKAREVYGYNTDGPLRLPCSVDDFLHLQWRIERE 81 (101)
Q Consensus 29 kRfvVpv~~L~-hP--~F~~LL~~AeEEfGf~~~G~L~IPC~~~~Fe~vl~~i~~~ 81 (101)
++|.++.+.|. +| .|..|++.......-+.+|.+-|-++...|++|+..+...
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 89999999887 44 7888888652222224679999999999999999999984
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=80.28 E-value=0.54 Score=35.56 Aligned_cols=25 Identities=40% Similarity=0.748 Sum_probs=0.0
Q ss_pred chHHHHHHHHHHHhcCcCCCCCeEe
Q 034194 40 HPLFGQLLEKAREVYGYNTDGPLRL 64 (101)
Q Consensus 40 hP~F~~LL~~AeEEfGf~~~G~L~I 64 (101)
+-+|.++|++|.+|+||..+|+|+|
T Consensus 38 e~fF~~ileea~~e~~F~~~~~l~~ 62 (220)
T PF05389_consen 38 EEFFYSILEEADEEHGFENDGPLTF 62 (220)
T ss_dssp -------------------------
T ss_pred HHHHHHHHHHhccccCcccCCeEEE
Confidence 4579999999999999998999986
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=67.65 E-value=14 Score=22.77 Aligned_cols=50 Identities=24% Similarity=0.357 Sum_probs=35.8
Q ss_pred CeeEEEEecCCCCchHHHHHHHHHHHhcCcC----------CCC-CeEecccHHHHHHHHHHHhh
Q 034194 27 GSRKFVIPISHLYHPLFGQLLEKAREVYGYN----------TDG-PLRLPCSVDDFLHLQWRIER 80 (101)
Q Consensus 27 ~~kRfvVpv~~L~hP~F~~LL~~AeEEfGf~----------~~G-~L~IPC~~~~Fe~vl~~i~~ 80 (101)
+.+||.+|. ..+.|.+|..+..+.|+.. .+| .++|.++ ..|+..+.....
T Consensus 10 ~~~~~~~~~---~~~s~~~L~~~i~~~~~~~~~~~~l~y~D~e~d~v~l~sd-~Dl~~a~~~~~~ 70 (81)
T cd05992 10 EIRRFVVVS---RSISFEDLRSKIAEKFGLDAVSFKLKYPDEDGDLVTISSD-EDLEEAIEEARR 70 (81)
T ss_pred CCEEEEEec---CCCCHHHHHHHHHHHhCCCCCcEEEEeeCCCCCEEEeCCH-HHHHHHHHHHhh
Confidence 479999998 7888999999988888874 244 3445554 567776666653
No 10
>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=61.94 E-value=19 Score=22.40 Aligned_cols=48 Identities=21% Similarity=0.353 Sum_probs=35.3
Q ss_pred CeeEEEEecCCCCchHHHHHHHHHHHhcCcC----------CCC-CeEecccHHHHHHHHHHHh
Q 034194 27 GSRKFVIPISHLYHPLFGQLLEKAREVYGYN----------TDG-PLRLPCSVDDFLHLQWRIE 79 (101)
Q Consensus 27 ~~kRfvVpv~~L~hP~F~~LL~~AeEEfGf~----------~~G-~L~IPC~~~~Fe~vl~~i~ 79 (101)
+.+||.+|- ...|.+|..+..+-|+.. .+| .++|.++. .+...+.+..
T Consensus 11 ~~~~~~~~~----~~s~~dL~~~i~~~~~~~~~~~~l~Y~Dedgd~v~l~sd~-Dl~~a~~~~~ 69 (81)
T smart00666 11 ETRRLSVPR----DISFEDLRSKVAKRFGLDNQSFTLKYQDEDGDLVSLTSDE-DLEEAIEEYD 69 (81)
T ss_pred EEEEEEECC----CCCHHHHHHHHHHHhCCCCCCeEEEEECCCCCEEEecCHH-HHHHHHHHHH
Confidence 579999986 778999999999888774 244 77888865 5555555554
No 11
>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=42.92 E-value=19 Score=23.46 Aligned_cols=24 Identities=25% Similarity=0.545 Sum_probs=18.9
Q ss_pred eeEEEEecCCCCchHHHHHHHHHHHhcCcC
Q 034194 28 SRKFVIPISHLYHPLFGQLLEKAREVYGYN 57 (101)
Q Consensus 28 ~kRfvVpv~~L~hP~F~~LL~~AeEEfGf~ 57 (101)
.+=..+| -.+++||+.|++.||+.
T Consensus 19 GKvi~lP------~SleeLl~ia~~kfg~~ 42 (69)
T PF11834_consen 19 GKVIWLP------DSLEELLKIASEKFGFS 42 (69)
T ss_pred CEEEEcC------ccHHHHHHHHHHHhCCC
Confidence 3445555 37999999999999985
No 12
>PF08861 DUF1828: Domain of unknown function DUF1828; InterPro: IPR014960 These proteins are functionally uncharacterised.
Probab=42.61 E-value=65 Score=21.03 Aligned_cols=39 Identities=18% Similarity=0.323 Sum_probs=32.9
Q ss_pred chHHHHHHHHHHHhcCcC-CCCCeEecccHHHHHHHHHHH
Q 034194 40 HPLFGQLLEKAREVYGYN-TDGPLRLPCSVDDFLHLQWRI 78 (101)
Q Consensus 40 hP~F~~LL~~AeEEfGf~-~~G~L~IPC~~~~Fe~vl~~i 78 (101)
.|.=+++|+.....||.. .+|.|.+.++.+.|-..+..+
T Consensus 44 s~~R~~~l~~il~~~gv~~~~~el~~~~~~~~~~~~~~~l 83 (90)
T PF08861_consen 44 SKKRKKILNSILNGFGVELDEGELFIKTSEENFPQAKHRL 83 (90)
T ss_pred chHHHHHHHHHHHHcCccccCCEEEEEeCHHHHHHHHHHH
Confidence 577789999999999997 579999999999887766654
No 13
>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=40.40 E-value=67 Score=21.66 Aligned_cols=54 Identities=20% Similarity=0.265 Sum_probs=36.8
Q ss_pred CCeeEEEEecCC-CCchHHHHHHHHHHHhcCcCC------------CCCeEecccHHHHHHHHHHHh
Q 034194 26 GGSRKFVIPISH-LYHPLFGQLLEKAREVYGYNT------------DGPLRLPCSVDDFLHLQWRIE 79 (101)
Q Consensus 26 e~~kRfvVpv~~-L~hP~F~~LL~~AeEEfGf~~------------~G~L~IPC~~~~Fe~vl~~i~ 79 (101)
++.+||-+|.+- -....|..|.++-++-|.... ...++|.|+.+.-+.+.....
T Consensus 9 ~~~rRf~l~~~~~~~d~~~~~L~~kI~~~f~l~~~~~~~l~Y~Dedgd~V~l~~D~DL~~a~~~~~~ 75 (91)
T cd06398 9 GTLRRFTFPVAENQLDLNMDGLREKVEELFSLSPDADLSLTYTDEDGDVVTLVDDNDLTDAIQYFCS 75 (91)
T ss_pred CEEEEEEeccccccCCCCHHHHHHHHHHHhCCCCCCcEEEEEECCCCCEEEEccHHHHHHHHHHHhc
Confidence 368999999741 114478888888888776542 345788898887766655433
No 14
>PRK02797 4-alpha-L-fucosyltransferase; Provisional
Probab=40.00 E-value=1.3e+02 Score=25.17 Aligned_cols=67 Identities=13% Similarity=0.265 Sum_probs=41.7
Q ss_pred CCCCceEEEEeccccCC----------------CCeeEEEEecCC--CCchHHHHHHHHHHHhcCcCCCCCeEecccHHH
Q 034194 9 KVKKGWLAVQVGLEEED----------------GGSRKFVIPISH--LYHPLFGQLLEKAREVYGYNTDGPLRLPCSVDD 70 (101)
Q Consensus 9 ~vpkG~~aVyVG~e~~~----------------e~~kRfvVpv~~--L~hP~F~~LL~~AeEEfGf~~~G~L~IPC~~~~ 70 (101)
..+++-+.|.||-. ++ ++.-|+.||++| =|.-..++..+.+.+-||-+ -+++-=+.-.
T Consensus 141 ~~~~~~~tIlvGNS-gd~SN~Hie~L~~l~~~~~~~v~ii~PlsYp~gn~~Yi~~V~~~~~~lF~~~---~~~~L~e~l~ 216 (322)
T PRK02797 141 RQRAGKMTILVGNS-GDRSNRHIEALRALHQQFGDNVKIIVPMGYPANNQAYIEEVRQAGLALFGAE---NFQILTEKLP 216 (322)
T ss_pred ccCCCceEEEEeCC-CCCcccHHHHHHHHHHHhCCCeEEEEECCcCCCCHHHHHHHHHHHHHhcCcc---cEEehhhhCC
Confidence 45677899999943 22 345699999999 56556666666777777633 3444333333
Q ss_pred HHHHHHHHh
Q 034194 71 FLHLQWRIE 79 (101)
Q Consensus 71 Fe~vl~~i~ 79 (101)
|+.=+..|.
T Consensus 217 f~eYl~lL~ 225 (322)
T PRK02797 217 FDDYLALLR 225 (322)
T ss_pred HHHHHHHHH
Confidence 444444433
No 15
>PF07429 Glyco_transf_56: 4-alpha-L-fucosyltransferase glycosyl transferase group 56; InterPro: IPR009993 This family contains the bacterial enzyme 4-alpha-L-fucosyltransferase (Fuc4NAc transferase) (approximately 360 residues long). This catalyses the synthesis of Fuc4NAc-ManNAcA-GlcNAc-PP-Und (lipid III) as part of the biosynthetic pathway of enterobacterial common antigen (ECA), a polysaccharide comprised of the trisaccharide repeat unit Fuc4NAc-ManNAcA-GlcNAc [].; GO: 0008417 fucosyltransferase activity, 0009246 enterobacterial common antigen biosynthetic process, 0009276 Gram-negative-bacterium-type cell wall
Probab=38.08 E-value=1.8e+02 Score=24.75 Aligned_cols=68 Identities=21% Similarity=0.335 Sum_probs=43.1
Q ss_pred CCCCceEEEEeccccCC---------------CCeeEEEEecCCCC--chHHHHHHHHHHHhcCcCCCCCeEecccHHHH
Q 034194 9 KVKKGWLAVQVGLEEED---------------GGSRKFVIPISHLY--HPLFGQLLEKAREVYGYNTDGPLRLPCSVDDF 71 (101)
Q Consensus 9 ~vpkG~~aVyVG~e~~~---------------e~~kRfvVpv~~L~--hP~F~~LL~~AeEEfGf~~~G~L~IPC~~~~F 71 (101)
..+++-+.|.||-.+.. ++..|++||++|=. .-..+++.+.+.+-||- +-+.+-=+.--|
T Consensus 180 ~~~~~~ltILvGNSgd~sNnHieaL~~L~~~~~~~~kIivPLsYg~~n~~Yi~~V~~~~~~lF~~---~~~~iL~e~mpf 256 (360)
T PF07429_consen 180 KKNKGKLTILVGNSGDPSNNHIEALEALKQQFGDDVKIIVPLSYGANNQAYIQQVIQAGKELFGA---ENFQILTEFMPF 256 (360)
T ss_pred cCCCCceEEEEcCCCCCCccHHHHHHHHHHhcCCCeEEEEECCCCCchHHHHHHHHHHHHHhcCc---cceeEhhhhCCH
Confidence 45678899999943221 34789999999963 56777888888888873 334333333334
Q ss_pred HHHHHHHh
Q 034194 72 LHLQWRIE 79 (101)
Q Consensus 72 e~vl~~i~ 79 (101)
++=+..++
T Consensus 257 ~eYl~lL~ 264 (360)
T PF07429_consen 257 DEYLALLS 264 (360)
T ss_pred HHHHHHHH
Confidence 44444444
No 16
>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=37.52 E-value=54 Score=21.66 Aligned_cols=27 Identities=22% Similarity=0.220 Sum_probs=19.1
Q ss_pred CCchHHHHHH----HHHHHhcCcCCCCCeEe
Q 034194 38 LYHPLFGQLL----EKAREVYGYNTDGPLRL 64 (101)
Q Consensus 38 L~hP~F~~LL----~~AeEEfGf~~~G~L~I 64 (101)
...|.|++.| +.+-+||||.-...+.|
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 44557889986655554
No 17
>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=37.46 E-value=71 Score=21.05 Aligned_cols=42 Identities=19% Similarity=0.260 Sum_probs=30.2
Q ss_pred CeeEEEEecCCCCchHHHHHHHHHHHhcCcCC------------CCCeEecccHHHHH
Q 034194 27 GSRKFVIPISHLYHPLFGQLLEKAREVYGYNT------------DGPLRLPCSVDDFL 72 (101)
Q Consensus 27 ~~kRfvVpv~~L~hP~F~~LL~~AeEEfGf~~------------~G~L~IPC~~~~Fe 72 (101)
+..||-+|.+. .|++|.++-++-|+.+. ...++|.|+.+.=+
T Consensus 10 d~~r~~l~~~~----~~~~L~~~i~~r~~~~~~~~f~LkY~Ddegd~v~ltsd~DL~e 63 (82)
T cd06407 10 EKIRFRLPPSW----GFTELKQEIAKRFKLDDMSAFDLKYLDDDEEWVLLTCDADLEE 63 (82)
T ss_pred eEEEEEcCCCC----CHHHHHHHHHHHhCCCCCCeeEEEEECCCCCeEEeecHHHHHH
Confidence 57888888644 69999999888887643 34567778776544
No 18
>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=37.05 E-value=15 Score=21.23 Aligned_cols=19 Identities=26% Similarity=0.536 Sum_probs=14.6
Q ss_pred HHHHHHHHHHhc--CcCCCCC
Q 034194 43 FGQLLEKAREVY--GYNTDGP 61 (101)
Q Consensus 43 F~~LL~~AeEEf--Gf~~~G~ 61 (101)
+.++|+..+|+| ||-|.|+
T Consensus 12 Id~vLe~NAe~FV~~fVQKGG 32 (33)
T TIGR03687 12 IDGVLESNAEEFVRGFVQKGG 32 (33)
T ss_pred HHHHHHHhHHHHHHHHHHccC
Confidence 456888888888 8877764
No 19
>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=34.33 E-value=51 Score=24.63 Aligned_cols=36 Identities=22% Similarity=0.293 Sum_probs=27.9
Q ss_pred ceEEEEeccccCCCCeeEEEEecCCCCchHHHHHHHHHHHhcCcCCC
Q 034194 13 GWLAVQVGLEEEDGGSRKFVIPISHLYHPLFGQLLEKAREVYGYNTD 59 (101)
Q Consensus 13 G~~aVyVG~e~~~e~~kRfvVpv~~L~hP~F~~LL~~AeEEfGf~~~ 59 (101)
|.++++||.+- +. + .+-|...+|++...+++|.+.+
T Consensus 1 g~lvlFiGAG~---S~-~-------~glP~W~~Ll~~l~~~~~~~~~ 36 (242)
T cd01406 1 GRVVIFVGAGV---SV-S-------SGLPDWKTLLDEIASELGLEID 36 (242)
T ss_pred CCEEEEecCcc---cc-c-------cCCCChHHHHHHHHHHcCCccc
Confidence 67899999642 11 1 5789999999999999987643
No 20
>COG4862 MecA Negative regulator of genetic competence, sporulation and motility [Posttranslational modification, protein turnover, chaperones / Signal transduction mechanisms / Cell motility and secretion]
Probab=33.81 E-value=31 Score=27.53 Aligned_cols=27 Identities=19% Similarity=0.443 Sum_probs=24.4
Q ss_pred CchHHHHHHHHHHHhcCcCCCCCeEec
Q 034194 39 YHPLFGQLLEKAREVYGYNTDGPLRLP 65 (101)
Q Consensus 39 ~hP~F~~LL~~AeEEfGf~~~G~L~IP 65 (101)
.+-+|.++++.+..|-+|...|+|+|-
T Consensus 37 ~EE~F~~mMdEl~~ee~F~~~GpL~iq 63 (224)
T COG4862 37 TEELFYEMMDELNLEEDFKDEGPLWIQ 63 (224)
T ss_pred HHHHHHHHHHhcCCccccccCCceEEE
Confidence 467899999999999999999999984
No 21
>PF11822 DUF3342: Domain of unknown function (DUF3342); InterPro: IPR021777 This family of proteins are functionally uncharacterised. This family is found in bacteria. This presumed domain is typically between 170 to 303 amino acids in length. The N-terminal half of this family is a BTB-like domain.
Probab=31.63 E-value=75 Score=26.44 Aligned_cols=61 Identities=21% Similarity=0.337 Sum_probs=43.8
Q ss_pred EEeccccCCCCeeEEEEecCCC--CchHHHHHHHH---HHHhcCcCCCCCeEecccHHHHHHHHHHHhhc
Q 034194 17 VQVGLEEEDGGSRKFVIPISHL--YHPLFGQLLEK---AREVYGYNTDGPLRLPCSVDDFLHLQWRIERE 81 (101)
Q Consensus 17 VyVG~e~~~e~~kRfvVpv~~L--~hP~F~~LL~~---AeEEfGf~~~G~L~IPC~~~~Fe~vl~~i~~~ 81 (101)
|-|=+|.. ...+=|..|.+.| +...|+++|.. +.++. .+=.|.+-||+..|+.++..+...
T Consensus 3 ihV~De~~-~~~rdF~C~~~lL~~~M~YF~~~l~~~~~~~~~~---~~idisVhCDv~iF~WLm~yv~~~ 68 (317)
T PF11822_consen 3 IHVCDEAR-NEKRDFTCPRDLLVSEMRYFAEYLSRYINDSQRW---EEIDISVHCDVHIFEWLMRYVKGE 68 (317)
T ss_pred EEEEcCCC-CcceeeeccHHHHHHhhHHHHHHHhhcccccCcC---CCcceEEecChhHHHHHHHHhhcC
Confidence 44444322 3567799998888 45789999976 44443 245588889999999999988873
No 22
>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=31.27 E-value=1.4e+02 Score=20.43 Aligned_cols=44 Identities=23% Similarity=0.273 Sum_probs=30.9
Q ss_pred EEEeccccCCCCeeEEEEecCCCCchHHHHHHHHHHHhcCcCC-------------CCCeEecccH
Q 034194 16 AVQVGLEEEDGGSRKFVIPISHLYHPLFGQLLEKAREVYGYNT-------------DGPLRLPCSV 68 (101)
Q Consensus 16 aVyVG~e~~~e~~kRfvVpv~~L~hP~F~~LL~~AeEEfGf~~-------------~G~L~IPC~~ 68 (101)
.=|||. +.+-..|+-+ -.|.+|..+..+.++... ++-+.|.||.
T Consensus 17 l~Y~GG-----~tr~i~V~r~----~s~~el~~kl~~~~~~~~~~~lky~Lp~edld~Lisv~~De 73 (97)
T cd06410 17 LRYVGG-----ETRIVSVDRS----ISFKELVSKLSELFGAGVVVTLKYQLPDEDLDALISVSNDE 73 (97)
T ss_pred EEEcCC-----ceEEEEEcCC----CCHHHHHHHHHHHhCCCCceEEEEEcCCCCcceeEEecCcH
Confidence 359994 4677777776 367777777777776544 5677888887
No 23
>PF09906 DUF2135: Uncharacterized protein conserved in bacteria (DUF2135); InterPro: IPR019220 This entry, found in various hypothetical prokaryotic proteins, has no known function.
Probab=31.14 E-value=77 Score=19.15 Aligned_cols=22 Identities=18% Similarity=0.348 Sum_probs=14.6
Q ss_pred eEEEEeccccCCCCeeEEEEec
Q 034194 14 WLAVQVGLEEEDGGSRKFVIPI 35 (101)
Q Consensus 14 ~~aVyVG~e~~~e~~kRfvVpv 35 (101)
-+.+..+++..+|++++|+||+
T Consensus 29 ~l~l~t~eGtp~ek~~~f~v~l 50 (50)
T PF09906_consen 29 QLTLITNEGTPNEKQETFVVPL 50 (50)
T ss_pred EEEEEECCCCcccceEEEEEeC
Confidence 3455555444467889999985
No 24
>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=30.93 E-value=19 Score=20.88 Aligned_cols=19 Identities=21% Similarity=0.242 Sum_probs=14.6
Q ss_pred CCCchHHHHHHHHHHHhcC
Q 034194 37 HLYHPLFGQLLEKAREVYG 55 (101)
Q Consensus 37 ~L~hP~F~~LL~~AeEEfG 55 (101)
||+.-.|++++.++.+||.
T Consensus 1 YLsd~dF~~vFgm~~~eF~ 19 (36)
T PF02209_consen 1 YLSDEDFEKVFGMSREEFY 19 (36)
T ss_dssp GS-HHHHHHHHSS-HHHHH
T ss_pred CcCHHHHHHHHCCCHHHHH
Confidence 7888899999999998883
No 25
>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=28.93 E-value=35 Score=23.67 Aligned_cols=52 Identities=29% Similarity=0.211 Sum_probs=26.1
Q ss_pred eeEEE-EecCCC---CchHHHHHHHHHHHhcCcCCCCCeEecccHHHHHHHHHHHhh
Q 034194 28 SRKFV-IPISHL---YHPLFGQLLEKAREVYGYNTDGPLRLPCSVDDFLHLQWRIER 80 (101)
Q Consensus 28 ~kRfv-Vpv~~L---~hP~F~~LL~~AeEEfGf~~~G~L~IPC~~~~Fe~vl~~i~~ 80 (101)
+.=|+ +|-..+ +-..|.+||+.|||.+|.++ =.+.|+=+-.....++.-+..
T Consensus 24 ~~L~V~ip~~~~~~~~K~~lvaLLElAee~L~c~~-vvic~~k~~~d~~~Llr~l~~ 79 (108)
T PF02100_consen 24 RTLFVFIPSSALGQGSKESLVALLELAEEKLGCSH-VVICLDKNRPDRASLLRTLMW 79 (108)
T ss_dssp TEEEEE-SS---SS--SHHHHHHHHHHHHHH-----EEEEE---SS-HHHHHHHHTT
T ss_pred CEEEEEECCcccccccHHHHHHHHHHhcCcCCCCE-EEEEEECCchhHHHhhhhcEe
Confidence 45555 454433 44679999999999998754 445555444445555555543
No 26
>smart00153 VHP Villin headpiece domain.
Probab=28.63 E-value=26 Score=20.17 Aligned_cols=18 Identities=22% Similarity=0.323 Sum_probs=15.7
Q ss_pred CCCchHHHHHHHHHHHhc
Q 034194 37 HLYHPLFGQLLEKAREVY 54 (101)
Q Consensus 37 ~L~hP~F~~LL~~AeEEf 54 (101)
||+.-.|+.++.++.+||
T Consensus 1 yLsdeeF~~vfgmsr~eF 18 (36)
T smart00153 1 YLSDEDFEEVFGMTREEF 18 (36)
T ss_pred CCCHHHHHHHHCCCHHHH
Confidence 688888999999988887
No 27
>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=27.65 E-value=1e+02 Score=19.00 Aligned_cols=48 Identities=23% Similarity=0.356 Sum_probs=31.0
Q ss_pred eeE-EEEecCCCCchHHHHHHHHHHHhcCcC----------CCC-CeEecccHHHHHHHHHHHhh
Q 034194 28 SRK-FVIPISHLYHPLFGQLLEKAREVYGYN----------TDG-PLRLPCSVDDFLHLQWRIER 80 (101)
Q Consensus 28 ~kR-fvVpv~~L~hP~F~~LL~~AeEEfGf~----------~~G-~L~IPC~~~~Fe~vl~~i~~ 80 (101)
.+| +.+| +.+.|.+|..+.++.||.. .+| .++|.++. .|+..+.....
T Consensus 12 ~~~~~~~~----~~~s~~~L~~~i~~~~~~~~~~~~l~Y~D~dgD~V~i~sd~-Dl~~a~~~~~~ 71 (84)
T PF00564_consen 12 IRRIISLP----SDVSFDDLRSKIREKFGLLDEDFQLKYKDEDGDLVTISSDE-DLQEAIEQAKE 71 (84)
T ss_dssp EEEEEEEC----STSHHHHHHHHHHHHHTTSTSSEEEEEEETTSSEEEESSHH-HHHHHHHHHHH
T ss_pred eEEEEEcC----CCCCHHHHHHHHHHHhCCCCccEEEEeeCCCCCEEEeCCHH-HHHHHHHHHHh
Confidence 455 4444 4569999999999999883 355 45666654 45555555543
No 28
>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=27.52 E-value=78 Score=21.67 Aligned_cols=43 Identities=23% Similarity=0.390 Sum_probs=31.4
Q ss_pred CCeeEEEEecCCCCchHHHHHHHHHHHhcCcC----------CC-CCeEecccHHHHH
Q 034194 26 GGSRKFVIPISHLYHPLFGQLLEKAREVYGYN----------TD-GPLRLPCSVDDFL 72 (101)
Q Consensus 26 e~~kRfvVpv~~L~hP~F~~LL~~AeEEfGf~----------~~-G~L~IPC~~~~Fe 72 (101)
++.|||..|. -|.+.+|-++-+.=|-+. .| -.|||.=+.+..+
T Consensus 9 g~~RRf~~~~----~pt~~~L~~kl~~Lf~lp~~~~~vtYiDeD~D~ITlssd~eL~d 62 (82)
T cd06397 9 GDTRRIVFPD----IPTWEALASKLENLYNLPEIKVGVTYIDNDNDEITLSSNKELQD 62 (82)
T ss_pred CceEEEecCC----CccHHHHHHHHHHHhCCChhHeEEEEEcCCCCEEEecchHHHHH
Confidence 3689999998 899999999988766554 34 4677776555433
No 29
>PF08948 DUF1859: Domain of unknown function (DUF1859); InterPro: IPR015043 This entry is represented by Bacteriophage PRD1, P5. This protein has no known function though it is sometimes found in the N terminus of bacteriophage spike proteins []. ; PDB: 1W8X_N.
Probab=26.98 E-value=23 Score=25.72 Aligned_cols=28 Identities=29% Similarity=0.483 Sum_probs=8.0
Q ss_pred CCceEEEEeccccCCCCeeEEE----------EecCCCCchHHH
Q 034194 11 KKGWLAVQVGLEEEDGGSRKFV----------IPISHLYHPLFG 44 (101)
Q Consensus 11 pkG~~aVyVG~e~~~e~~kRfv----------Vpv~~L~hP~F~ 44 (101)
.+||+|+.|-. +.+|+ +|+-+||.|+-+
T Consensus 86 ~QGYfPlL~~~------~~KFv~~~~~~GKks~P~~FlNF~IA~ 123 (126)
T PF08948_consen 86 KQGYFPLLVPG------RAKFVVRHTGSGKKSVPMFFLNFTIAQ 123 (126)
T ss_dssp --SS--EEE--------SSSSEEEEEEEESS----S--------
T ss_pred Ccccceeeccc------hhhhhhhhccCCCcceeeEEEeceeee
Confidence 67999999952 34554 688888887644
No 30
>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=26.04 E-value=81 Score=21.15 Aligned_cols=23 Identities=9% Similarity=0.406 Sum_probs=20.3
Q ss_pred CCCeEecccHHHHHHHHHHHhhc
Q 034194 59 DGPLRLPCSVDDFLHLQWRIERE 81 (101)
Q Consensus 59 ~G~L~IPC~~~~Fe~vl~~i~~~ 81 (101)
...+.+-|+++.|+++++.|+..
T Consensus 64 ~~~i~f~c~~e~L~~Li~~Lk~A 86 (95)
T cd04751 64 KPDINFTCTLEQLQDLVNKLKDA 86 (95)
T ss_pred cceEEEEeCHHHHHHHHHHHHHH
Confidence 45899999999999999998864
No 31
>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=24.78 E-value=14 Score=25.64 Aligned_cols=11 Identities=55% Similarity=0.914 Sum_probs=7.4
Q ss_pred CCCCchHHHHH
Q 034194 36 SHLYHPLFGQL 46 (101)
Q Consensus 36 ~~L~hP~F~~L 46 (101)
.|||||.|.-|
T Consensus 4 ~YLNHPtFGlL 14 (88)
T PF12058_consen 4 TYLNHPTFGLL 14 (88)
T ss_dssp -EEEETTTEEE
T ss_pred ccccCCccchh
Confidence 58899987543
No 32
>COG1759 5-formaminoimidazole-4-carboxamide-1-beta-D-ribofuranosyl 5'-monophosphate synthetase (purine biosynthesis) [Nucleotide transport and metabolism]
Probab=24.73 E-value=32 Score=29.15 Aligned_cols=40 Identities=28% Similarity=0.389 Sum_probs=24.8
Q ss_pred cCCCCCceEEEEeccccCCCCeeEEEEecCCCCc----------hHHHHHHHHHH
Q 034194 7 TMKVKKGWLAVQVGLEEEDGGSRKFVIPISHLYH----------PLFGQLLEKAR 51 (101)
Q Consensus 7 ~~~vpkG~~aVyVG~e~~~e~~kRfvVpv~~L~h----------P~F~~LL~~Ae 51 (101)
.--+|.|-|++|||-++ --+.|.||+ +++ -.-..||++|.
T Consensus 87 ~I~IP~gSfv~Y~G~d~---ie~~~~vP~--fGnR~lLrwE~~~~~~~~lLekAg 136 (361)
T COG1759 87 AIFIPHGSFVAYVGYDG---IENEFEVPM--FGNRELLRWEEDRKLEYKLLEKAG 136 (361)
T ss_pred eEEecCCceEEEecchh---hhhcccCcc--cccHhHhhhhcchhhHHHHHHHcC
Confidence 34579999999999531 234566654 222 22345888775
No 33
>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=22.91 E-value=1.6e+02 Score=18.34 Aligned_cols=50 Identities=20% Similarity=0.339 Sum_probs=35.7
Q ss_pred eeEEEEecCCC--CchHHHHHHHHHHHhcCcCCCC--CeEec-ccHHHHHHHHHHHhhc
Q 034194 28 SRKFVIPISHL--YHPLFGQLLEKAREVYGYNTDG--PLRLP-CSVDDFLHLQWRIERE 81 (101)
Q Consensus 28 ~kRfvVpv~~L--~hP~F~~LL~~AeEEfGf~~~G--~L~IP-C~~~~Fe~vl~~i~~~ 81 (101)
.++|-+.-..| ..|.|+.+++.. +....+ .+.++ ++...|+.++..+-..
T Consensus 20 ~~~~~vhk~iL~~~S~~F~~~~~~~----~~~~~~~~~i~~~~~~~~~~~~~l~~~Y~~ 74 (111)
T PF00651_consen 20 GKTFYVHKNILAARSPYFRNLFEGS----KFKESTVPEISLPDVSPEAFEAFLEYMYTG 74 (111)
T ss_dssp TEEEEE-HHHHHHHBHHHHHHHTTT----TSTTSSEEEEEETTSCHHHHHHHHHHHHHS
T ss_pred CEEEeechhhhhccchhhhhccccc----ccccccccccccccccccccccccccccCC
Confidence 37888888877 569999999888 222333 45555 7899999999988544
No 34
>PF14317 YcxB: YcxB-like protein
Probab=22.59 E-value=1.6e+02 Score=16.54 Aligned_cols=32 Identities=19% Similarity=0.340 Sum_probs=23.1
Q ss_pred CCceEEEEeccccCCCCeeEEEEecCCCCchHHHHHHH
Q 034194 11 KKGWLAVQVGLEEEDGGSRKFVIPISHLYHPLFGQLLE 48 (101)
Q Consensus 11 pkG~~aVyVG~e~~~e~~kRfvVpv~~L~hP~F~~LL~ 48 (101)
-+.++-+|++. ..-++||.+.++.-...++.+
T Consensus 28 ~~~~~~l~~~~------~~~~~iPk~~f~~~e~~~f~~ 59 (62)
T PF14317_consen 28 TKDYFYLYLGK------NQAFIIPKRAFSEEEKEEFRE 59 (62)
T ss_pred eCCEEEEEECC------CeEEEEEHHHCCHhHHHHHHH
Confidence 46678888884 589999999998544444443
No 35
>PF05194 UreE_C: UreE urease accessory protein, C-terminal domain; InterPro: IPR007864 Urease and other nickel metalloenzymes are synthesised as precursors devoid of the metalloenzyme active site. These precursors then undergo a complex post-translational maturation process that requires a number of accessory proteins. Members of this group are nickel-binding proteins required for urease metallocentre assembly []. They are believed to function as metallochaperones to deliver nickel to urease apoprotein [, ]. It has been shown by yeast two-hybrid analysis that UreE forms a dimeric complex with UreG in Helicobacter pylori []. The UreDFG-apoenzyme complex has also been shown to exist [, ] and is believed to be, with the addition of UreE, the assembly system for active urease []. The complexes, rather than the individual proteins, presumably bind to UreB via UreE/H recognition sites. The structure of Klebsiella aerogenes UreE reveals a unique two-domain architecture.The N-terminal domain is structurally related to a heat shock protein, while the C-terminal domain shows homology to the Atx1 copper metallochaperone [, ]. Significantly, the metal-binding sites in UreE and Atx1 are distinct in location and types of residues despite the relationship between these proteins and the mechanism for UreE activation of urease is proposed to be different from the thiol ligand exchange mechanism used by the copper metallochaperones. The C-terminal domain of this protein is the metal-binding region, which can bind up to six Ni molecules per dimer. Most members of this group contain a histidine-rich C-terminal motif that is involved in, but not solely responsible for, binding nickel ions in K. aerogenes UreE []. However, internal ligands, not the histidine residues at the C terminus, are necessary for UreE to assist in urease activation in K. aerogenes [], even though the truncated protein lacking the His-rich region binds two nickel ions instead of six. In H. pylori and some other organisms, the terminal histidine-rich binding sites are absent, but the internal histidine sites are present, and the latter probably function as nickel donors. Deletion analysis shows that this domain alone is sufficient for metal-binding and activation of urease [].; GO: 0016151 nickel ion binding, 0006461 protein complex assembly, 0019627 urea metabolic process; PDB: 3NXZ_B 3TJA_B 3LA0_B 3TJ9_B 3NY0_A 3L9Z_A 3TJ8_A 1EAR_A 1EB0_A 1GMU_B ....
Probab=22.03 E-value=1.2e+02 Score=19.72 Aligned_cols=27 Identities=19% Similarity=0.386 Sum_probs=17.1
Q ss_pred ceEEEEeccccCCCCeeEEEEecCCCCchHHHHHHHHH
Q 034194 13 GWLAVQVGLEEEDGGSRKFVIPISHLYHPLFGQLLEKA 50 (101)
Q Consensus 13 G~~aVyVG~e~~~e~~kRfvVpv~~L~hP~F~~LL~~A 50 (101)
-|+|+++++ .+..|| ..+.+.+||++-
T Consensus 25 rH~p~~i~~-------~~l~v~----~d~~l~~~L~~l 51 (87)
T PF05194_consen 25 RHWPLFIEE-------DELYVP----YDHVLEELLRKL 51 (87)
T ss_dssp TT--EEEET-------TEEEEE------HHHHHHHHHT
T ss_pred CccceEEcC-------CEEEec----CcHHHHHHHHHC
Confidence 478899984 488888 666777888774
No 36
>cd06279 PBP1_LacI_like_3 Ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. This group includes the ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the repressor.
Probab=21.22 E-value=1e+02 Score=22.68 Aligned_cols=27 Identities=26% Similarity=0.368 Sum_probs=18.3
Q ss_pred EEEecC---CCCchHHHHHHH---HHHHhcCcC
Q 034194 31 FVIPIS---HLYHPLFGQLLE---KAREVYGYN 57 (101)
Q Consensus 31 fvVpv~---~L~hP~F~~LL~---~AeEEfGf~ 57 (101)
.+||.. ++.+|.|.++++ ++.+++||.
T Consensus 4 vi~p~~~~~~~~~~~~~~~~~gi~~~a~~~g~~ 36 (283)
T cd06279 4 VVLTDSLSYAFSDPVASQFLAGVAEVLDAAGVN 36 (283)
T ss_pred EEeCCcccccccCccHHHHHHHHHHHHHHCCCE
Confidence 356643 378999999876 555677764
No 37
>cd04395 RhoGAP_ARHGAP21 RhoGAP_ARHGAP21: RhoGAP (GTPase-activator protein [GAP] for Rho-like small GTPases) domain of ArhGAP21-like proteins. ArhGAP21 is a multi-domain protein, containing RhoGAP, PH and PDZ domains, and is believed to play a role in the organization of the cell-cell junction complex. It has been shown to function as a GAP of Cdc42 and RhoA, and to interact with alpha-catenin and Arf6. Small GTPases cluster into distinct families, and all act as molecular switches, active in their GTP-bound form but inactive when GDP-bound. The Rho family of GTPases activates effectors involved in a wide variety of developmental processes, including regulation of cytoskeleton formation, cell proliferation and the JNK signaling pathway. GTPases generally have a low intrinsic GTPase hydrolytic activity but there are family-specific groups of GAPs that enhance the rate of GTP hydrolysis by several orders of magnitude.
Probab=20.86 E-value=2.6e+02 Score=20.46 Aligned_cols=43 Identities=26% Similarity=0.284 Sum_probs=35.1
Q ss_pred chHHHHHHHHHHHhcCcCCCCCeEecccHHHHHHHHHHHhhcC
Q 034194 40 HPLFGQLLEKAREVYGYNTDGPLRLPCSVDDFLHLQWRIERES 82 (101)
Q Consensus 40 hP~F~~LL~~AeEEfGf~~~G~L~IPC~~~~Fe~vl~~i~~~~ 82 (101)
=|.|.+..-..-++.|.+.+|.-++|.+...-+.+...++...
T Consensus 18 vP~iv~~~~~~l~~~g~~~eGIFR~~g~~~~i~~l~~~l~~~~ 60 (196)
T cd04395 18 VPLIVEVCCNIVEARGLETVGIYRVPGNNAAISALQEELNRGG 60 (196)
T ss_pred CChHHHHHHHHHHHcCCCCccceeCCCcHHHHHHHHHHHhcCC
Confidence 4666655555667889999999999999999999999888664
No 38
>COG5431 Uncharacterized metal-binding protein [Function unknown]
Probab=20.17 E-value=1.3e+02 Score=21.88 Aligned_cols=65 Identities=17% Similarity=0.134 Sum_probs=40.8
Q ss_pred CceEEEEeccccCCCCeeEEEEecCCCCchHHHHHHHHH-----HHhcCcC---CCCC-eEecccHHHHHHHHHHHhhcC
Q 034194 12 KGWLAVQVGLEEEDGGSRKFVIPISHLYHPLFGQLLEKA-----REVYGYN---TDGP-LRLPCSVDDFLHLQWRIERES 82 (101)
Q Consensus 12 kG~~aVyVG~e~~~e~~kRfvVpv~~L~hP~F~~LL~~A-----eEEfGf~---~~G~-L~IPC~~~~Fe~vl~~i~~~~ 82 (101)
++-+.||||++ +-|++-..|-+=|.|.-=+..- +---|.. ..|- -.|.=..++|.+|+..+-...
T Consensus 32 ~~~~fVyvG~~------rdYIl~~gfCSCp~~~~svvl~Gk~~C~Hi~glk~A~~~gk~~~I~~y~~d~~~Il~e~ys~G 105 (117)
T COG5431 32 KVKFFVYVGKE------RDYILEGGFCSCPDFLGSVVLKGKSPCAHIIGLKVAKITGKYDYIDAYYVDYPDILREKYSTG 105 (117)
T ss_pred eEEEEEEEccc------cceEEEcCcccCHHHHhHhhhcCcccchhhhheeeeeecCcEEEEEEecccHHHHHHHHHhcC
Confidence 44589999964 6799999999999997322211 1111221 1222 346667778888887766543
Done!