Query 044419
Match_columns 160
No_of_seqs 173 out of 659
Neff 4.5
Searched_HMMs 46136
Date Fri Mar 29 03:07:38 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/044419.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/044419hhsearch_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 8.5E-42 1.8E-46 256.4 11.8 101 6-139 3-103 (104)
2 PF02519 Auxin_inducible: Auxi 100.0 4.9E-36 1.1E-40 223.1 7.8 67 74-140 34-100 (100)
3 PLN03220 uncharacterized prote 100.0 1.6E-34 3.4E-39 217.3 8.5 65 73-137 32-101 (105)
4 PLN03219 uncharacterized prote 100.0 9.2E-32 2E-36 203.1 10.1 68 72-139 35-105 (108)
5 PF02214 BTB_2: BTB/POZ domain 87.3 0.59 1.3E-05 32.9 2.7 54 89-142 7-63 (94)
6 PRK02899 adaptor protein; Prov 81.9 1.3 2.7E-05 36.6 2.7 25 101-125 38-62 (197)
7 smart00666 PB1 PB1 domain. Pho 76.3 5.9 0.00013 26.9 4.3 53 84-141 7-70 (81)
8 PRK02315 adaptor protein; Prov 74.9 2.2 4.9E-05 35.8 2.2 25 101-125 38-62 (233)
9 cd05992 PB1 The PB1 domain is 74.3 8.4 0.00018 25.9 4.6 55 83-141 5-70 (81)
10 PF05389 MecA: Negative regula 70.8 1.4 3E-05 36.3 0.0 25 101-125 38-62 (220)
11 cd06407 PB1_NLP A PB1 domain i 48.9 38 0.00082 24.2 4.3 54 83-141 5-70 (82)
12 cd06398 PB1_Joka2 The PB1 doma 48.5 40 0.00086 24.6 4.4 53 84-136 6-71 (91)
13 PF00651 BTB: BTB/POZ domain; 46.3 51 0.0011 22.6 4.6 57 81-142 13-74 (111)
14 cd01406 SIR2-like Sir2-like: P 40.5 58 0.0013 26.5 4.7 57 79-141 1-57 (242)
15 cd06397 PB1_UP1 Uncharacterize 39.5 1.2E+02 0.0026 22.3 5.6 49 83-135 5-64 (82)
16 cd06410 PB1_UP2 Uncharacterize 39.0 67 0.0014 23.7 4.4 45 82-130 17-74 (97)
17 PRK02797 4-alpha-L-fucosyltran 37.4 1.4E+02 0.0029 27.0 6.8 64 75-141 141-226 (322)
18 PF08948 DUF1859: Domain of un 36.2 16 0.00035 28.3 0.7 29 76-105 85-123 (126)
19 PF11822 DUF3342: Domain of un 36.0 50 0.0011 29.6 3.9 51 88-141 12-67 (317)
20 COG4923 Predicted nuclease (RN 35.4 28 0.00061 29.9 2.1 18 119-136 85-102 (245)
21 PF14317 YcxB: YcxB-like prote 34.8 75 0.0016 19.6 3.6 31 78-109 29-59 (62)
22 PF12058 DUF3539: Protein of u 34.5 8.1 0.00018 28.7 -1.1 11 97-107 4-14 (88)
23 PF02209 VHP: Villin headpiece 33.8 17 0.00038 22.6 0.5 19 98-116 1-19 (36)
24 PF11834 DUF3354: Domain of un 33.4 35 0.00076 23.9 2.0 16 103-118 27-42 (69)
25 PF02100 ODC_AZ: Ornithine dec 31.6 64 0.0014 24.2 3.3 52 87-139 22-77 (108)
26 PF03460 NIR_SIR_ferr: Nitrite 31.1 1.1E+02 0.0024 20.1 4.1 56 77-140 6-67 (69)
27 PF00564 PB1: PB1 domain; Int 31.1 1.6E+02 0.0036 19.6 6.5 54 83-141 6-71 (84)
28 PF07429 Glyco_transf_56: 4-al 31.1 1.8E+02 0.004 26.6 6.7 64 75-141 180-265 (360)
29 smart00153 VHP Villin headpiec 30.9 21 0.00046 22.1 0.5 19 98-116 1-19 (36)
30 COG1759 5-formaminoimidazole-4 28.3 27 0.00059 31.8 0.9 73 74-147 88-191 (361)
31 PF10495 PACT_coil_coil: Peric 28.1 40 0.00087 24.0 1.6 16 11-26 63-78 (78)
32 cd04395 RhoGAP_ARHGAP21 RhoGAP 27.8 1.6E+02 0.0035 23.5 5.3 43 102-144 19-61 (196)
33 PF09277 Erythro-docking: Eryt 27.8 47 0.001 22.9 1.8 13 16-28 33-45 (58)
34 PRK10308 3-methyl-adenine DNA 27.7 2.2E+02 0.0048 24.5 6.4 62 78-139 45-121 (283)
35 PF03931 Skp1_POZ: Skp1 family 27.0 1.9E+02 0.0041 19.0 5.3 55 83-142 4-60 (62)
36 PF06849 DUF1246: Protein of u 24.5 2.8 6.2E-05 32.8 -5.2 23 74-96 68-92 (124)
37 PF07369 DUF1488: Protein of u 24.4 1.6E+02 0.0034 20.3 4.1 20 80-99 18-37 (83)
38 cd06401 PB1_TFG The PB1 domain 23.3 1.3E+02 0.0029 21.9 3.6 30 86-118 8-37 (81)
39 cd06399 PB1_P40 The PB1 domain 22.6 95 0.0021 23.3 2.8 31 87-117 13-43 (92)
40 PRK13277 5-formaminoimidazole- 21.6 33 0.00072 31.3 0.2 22 74-95 88-111 (366)
41 cd06396 PB1_NBR1 The PB1 domai 21.5 2.5E+02 0.0054 20.3 4.7 54 86-142 8-70 (81)
42 COG4862 MecA Negative regulato 21.5 59 0.0013 27.9 1.7 27 100-126 37-63 (224)
43 smart00512 Skp1 Found in Skp1 21.0 3.2E+02 0.0069 19.4 6.3 59 84-146 6-68 (104)
44 cd04403 RhoGAP_ARHGAP27_15_12_ 20.3 2.8E+02 0.006 22.0 5.3 39 105-144 21-59 (187)
45 cd06080 MUM1_like Mutated mela 20.2 1.7E+02 0.0037 21.0 3.6 40 77-116 28-74 (80)
46 COG4496 Uncharacterized protei 20.1 49 0.0011 25.1 0.8 43 12-55 34-76 (100)
No 1
>PLN03090 auxin-responsive family protein; Provisional
Probab=100.00 E-value=8.5e-42 Score=256.45 Aligned_cols=101 Identities=47% Similarity=0.722 Sum_probs=89.2
Q ss_pred CCCccchhhHHHHHHHHHHHHhcccCCCCCCCCCCCCCCCCCCccccccccCCCCCCCCCCCCCCCCCCCCCCceEEEEe
Q 044419 6 GSKLNGIRQIVKLKEILQKWQSVTLSSPKPSSSQSSPNHGGISPVINKRLANVPCDSDEESCYSPEPPHDVPKGYLAVYV 85 (160)
Q Consensus 6 ~~k~~kI~~ivrLkq~lkKWq~~a~~~k~~~~~~~~~~~~~is~~~~KR~~~~~~~~d~~~c~s~~~~~~vpkG~~aVYV 85 (160)
-+|++||+||++||||||||++++... + .+++ ..|.+||+|||||||
T Consensus 3 ~~k~~ki~~~~~~kq~l~r~~s~~~~~--~--------------------------~~~~-----~~~~~vpkG~~aVyV 49 (104)
T PLN03090 3 IKKSNKLTQTAMLKQILKRCSSLGKKQ--G--------------------------YDED-----GLPLDVPKGHFPVYV 49 (104)
T ss_pred cccccchhHHHHHHHHHHHHHHhcccC--C--------------------------cccc-----cCCCCCCCCcEEEEE
Confidence 368899999999999999999874321 0 0111 146789999999999
Q ss_pred cCCceeEEEeccccccHHHHHHHHHHHHhcCCCCCCceeecCCHHHHHHHHHHH
Q 044419 86 GPELRRFIIPTSYLSHSLFKVLLEKAEEEFGFDHCGALTIPCEIETFKYLLKCI 139 (160)
Q Consensus 86 G~e~rRFvVp~~yLnhP~F~~LL~~aeEEfGf~~~G~L~IPCd~~~Fe~vl~~l 139 (160)
|++++||+||++|||||+|++||++|||||||.++|+|+|||++++|++++|+|
T Consensus 50 G~~~~RfvVp~~~L~hP~F~~LL~~aeeEfGf~~~G~L~IPC~~~~Fe~ll~~i 103 (104)
T PLN03090 50 GENRSRYIVPISFLTHPEFQSLLQQAEEEFGFDHDMGLTIPCEEVVFRSLTSMI 103 (104)
T ss_pred CCCCEEEEEEHHHcCCHHHHHHHHHHHHHhCCCCCCcEEEeCCHHHHHHHHHHh
Confidence 999999999999999999999999999999999999999999999999999998
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=4.9e-36 Score=223.06 Aligned_cols=67 Identities=63% Similarity=1.072 Sum_probs=65.6
Q ss_pred CCCCCceEEEEecCCceeEEEeccccccHHHHHHHHHHHHhcCCCCCCceeecCCHHHHHHHHHHHh
Q 044419 74 HDVPKGYLAVYVGPELRRFIIPTSYLSHSLFKVLLEKAEEEFGFDHCGALTIPCEIETFKYLLKCIE 140 (160)
Q Consensus 74 ~~vpkG~~aVYVG~e~rRFvVp~~yLnhP~F~~LL~~aeEEfGf~~~G~L~IPCd~~~Fe~vl~~l~ 140 (160)
.+||+||||||||++++||+||++|||||+|++||++|||||||.++|+|+|||++++|+++||+|+
T Consensus 34 ~~vp~G~~~VyVG~~~~Rfvvp~~~L~hp~f~~LL~~aeeEfG~~~~G~l~iPC~~~~Fe~~l~~le 100 (100)
T PF02519_consen 34 SDVPKGHFAVYVGEERRRFVVPVSYLNHPLFQELLEQAEEEFGFDQDGPLTIPCDVVLFEHLLWLLE 100 (100)
T ss_pred CCCCCCeEEEEeCccceEEEechHHcCchhHHHHHHHHhhhcCcCCCCcEEeeCCHHHHHHHHHHhC
Confidence 6889999999999999999999999999999999999999999999999999999999999999985
No 3
>PLN03220 uncharacterized protein; Provisional
Probab=100.00 E-value=1.6e-34 Score=217.26 Aligned_cols=65 Identities=55% Similarity=1.000 Sum_probs=61.5
Q ss_pred CCCCCCceEEEEecC----CceeEEEeccccccHHHHHHHHHHHHhcCCCC-CCceeecCCHHHHHHHHH
Q 044419 73 PHDVPKGYLAVYVGP----ELRRFIIPTSYLSHSLFKVLLEKAEEEFGFDH-CGALTIPCEIETFKYLLK 137 (160)
Q Consensus 73 ~~~vpkG~~aVYVG~----e~rRFvVp~~yLnhP~F~~LL~~aeEEfGf~~-~G~L~IPCd~~~Fe~vl~ 137 (160)
+.+|||||||||||+ +++||+||+.|||||+|++||++|||||||.| +|+|+|||+++.|++++.
T Consensus 32 ~~~VPkGh~aVyVGe~~~~e~kRFVVPv~yL~hP~F~~LL~~AeEEfGf~~~~G~L~IPCd~~~F~~ll~ 101 (105)
T PLN03220 32 SDHVPKGHVAVYVGEQIEMEKKRFVVPISFLNHPSFKEFLSRAEEEFGFNHPMGGLTIPCREEVFLDLIA 101 (105)
T ss_pred cCCCCCCeEEEEECCCCCccceEEEEEHHHcCChHHHHHHHHHHHHhCCCCCCCCEEeeCCHHHHHHHHH
Confidence 468999999999997 58999999999999999999999999999998 699999999999999985
No 4
>PLN03219 uncharacterized protein; Provisional
Probab=99.97 E-value=9.2e-32 Score=203.13 Aligned_cols=68 Identities=53% Similarity=0.925 Sum_probs=63.4
Q ss_pred CCCCCCCceEEEEecC--CceeEEEeccccccHHHHHHHHHHHHhcCCCC-CCceeecCCHHHHHHHHHHH
Q 044419 72 PPHDVPKGYLAVYVGP--ELRRFIIPTSYLSHSLFKVLLEKAEEEFGFDH-CGALTIPCEIETFKYLLKCI 139 (160)
Q Consensus 72 ~~~~vpkG~~aVYVG~--e~rRFvVp~~yLnhP~F~~LL~~aeEEfGf~~-~G~L~IPCd~~~Fe~vl~~l 139 (160)
.+.+|||||||||||+ +++||+||+.|||||+|++||++|||||||.+ +|+|+|||+++.|++||..-
T Consensus 35 ~~~~vpkGh~aVYVG~~~E~kRFvVPi~yL~hP~F~~LL~~AeEEfGf~~~~G~L~IPCd~~~F~~ll~~~ 105 (108)
T PLN03219 35 TSGLVPKGHVAVYVGEQMEKKRFVVPISYLNHPLFREFLNRAEEECGFHHSMGGLTIPCREESFLHLITSH 105 (108)
T ss_pred CCCCCCCCeEEEEECCCCCceEEEEEHHHcCChHHHHHHHHHHHHhCCCCCCCCEEEeCCHHHHHHHHHhh
Confidence 3578999999999997 59999999999999999999999999999997 69999999999999998754
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=87.35 E-value=0.59 Score=32.87 Aligned_cols=54 Identities=24% Similarity=0.236 Sum_probs=41.0
Q ss_pred ceeEEEeccccc-c--HHHHHHHHHHHHhcCCCCCCceeecCCHHHHHHHHHHHhhC
Q 044419 89 LRRFIIPTSYLS-H--SLFKVLLEKAEEEFGFDHCGALTIPCEIETFKYLLKCIESH 142 (160)
Q Consensus 89 ~rRFvVp~~yLn-h--P~F~~LL~~aeEEfGf~~~G~L~IPCd~~~Fe~vl~~l~~~ 142 (160)
+++|.++.+.|. + ..|..|+..-.....-..+|.+-|-++...|++||..++..
T Consensus 7 G~~f~~~~~tL~~~~~s~l~~~~~~~~~~~~~~~~~~~fiDRdp~~F~~IL~ylr~~ 63 (94)
T PF02214_consen 7 GTIFETSRSTLTRYPDSLLARLFSGERSDDYDDDDGEYFIDRDPELFEYILNYLRTG 63 (94)
T ss_dssp TEEEEEEHHHHHTSTTSTTTSHHHTGHGGGEETTTTEEEESS-HHHHHHHHHHHHHT
T ss_pred CEEEEEcHHHHhhCCCChhhhHHhhccccccCCccceEEeccChhhhhHHHHHHhhc
Confidence 688999988877 4 37888887542222233478999999999999999999985
No 6
>PRK02899 adaptor protein; Provisional
Probab=81.92 E-value=1.3 Score=36.60 Aligned_cols=25 Identities=32% Similarity=0.817 Sum_probs=21.7
Q ss_pred cHHHHHHHHHHHHhcCCCCCCceee
Q 044419 101 HSLFKVLLEKAEEEFGFDHCGALTI 125 (160)
Q Consensus 101 hP~F~~LL~~aeEEfGf~~~G~L~I 125 (160)
+-+|.++|++|..|+||..+|||+|
T Consensus 38 e~lF~~mm~Ea~~e~~F~~~~pl~~ 62 (197)
T PRK02899 38 HQLFRDMMQEANKELGFEADGPIAV 62 (197)
T ss_pred HHHHHHHHHHhhhccCcccCCeEEE
Confidence 3467888999999999999999875
No 7
>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=76.34 E-value=5.9 Score=26.92 Aligned_cols=53 Identities=25% Similarity=0.422 Sum_probs=39.9
Q ss_pred EecCCceeEEEeccccccHHHHHHHHHHHHhcCCC----------CCC-ceeecCCHHHHHHHHHHHhh
Q 044419 84 YVGPELRRFIIPTSYLSHSLFKVLLEKAEEEFGFD----------HCG-ALTIPCEIETFKYLLKCIES 141 (160)
Q Consensus 84 YVG~e~rRFvVp~~yLnhP~F~~LL~~aeEEfGf~----------~~G-~L~IPCd~~~Fe~vl~~l~~ 141 (160)
+-|.+.+||.||- ..-|.+|..+..+.|++. .+| .++|.++. .|..++.+...
T Consensus 7 ~~~~~~~~~~~~~----~~s~~dL~~~i~~~~~~~~~~~~l~Y~Dedgd~v~l~sd~-Dl~~a~~~~~~ 70 (81)
T smart00666 7 RYGGETRRLSVPR----DISFEDLRSKVAKRFGLDNQSFTLKYQDEDGDLVSLTSDE-DLEEAIEEYDS 70 (81)
T ss_pred EECCEEEEEEECC----CCCHHHHHHHHHHHhCCCCCCeEEEEECCCCCEEEecCHH-HHHHHHHHHHH
Confidence 3388999999986 777999999999999885 145 67788866 45556666553
No 8
>PRK02315 adaptor protein; Provisional
Probab=74.93 E-value=2.2 Score=35.83 Aligned_cols=25 Identities=24% Similarity=0.456 Sum_probs=22.6
Q ss_pred cHHHHHHHHHHHHhcCCCCCCceee
Q 044419 101 HSLFKVLLEKAEEEFGFDHCGALTI 125 (160)
Q Consensus 101 hP~F~~LL~~aeEEfGf~~~G~L~I 125 (160)
+-+|.++|++|..|+||..+|||+|
T Consensus 38 e~fF~~mm~Ea~~e~~F~~~~pl~~ 62 (233)
T PRK02315 38 EEFFYSMMDEVDEEDDFADEGPLWF 62 (233)
T ss_pred HHHHHHHHHHhccccCcccCCeEEE
Confidence 3589999999999999999999985
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=74.34 E-value=8.4 Score=25.93 Aligned_cols=55 Identities=31% Similarity=0.497 Sum_probs=40.8
Q ss_pred EEecCCceeEEEeccccccHHHHHHHHHHHHhcCCC----------CCC-ceeecCCHHHHHHHHHHHhh
Q 044419 83 VYVGPELRRFIIPTSYLSHSLFKVLLEKAEEEFGFD----------HCG-ALTIPCEIETFKYLLKCIES 141 (160)
Q Consensus 83 VYVG~e~rRFvVp~~yLnhP~F~~LL~~aeEEfGf~----------~~G-~L~IPCd~~~Fe~vl~~l~~ 141 (160)
|+-+.+.+||.+|. .++-|.+|..+..+.|++. .+| .++|-++ ..|+.++....+
T Consensus 5 ~~~~~~~~~~~~~~---~~~s~~~L~~~i~~~~~~~~~~~~l~y~D~e~d~v~l~sd-~Dl~~a~~~~~~ 70 (81)
T cd05992 5 VKYGGEIRRFVVVS---RSISFEDLRSKIAEKFGLDAVSFKLKYPDEDGDLVTISSD-EDLEEAIEEARR 70 (81)
T ss_pred EEecCCCEEEEEec---CCCCHHHHHHHHHHHhCCCCCcEEEEeeCCCCCEEEeCCH-HHHHHHHHHHhh
Confidence 45567899999998 8888999999999999986 144 3556665 466667766654
No 10
>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=70.79 E-value=1.4 Score=36.25 Aligned_cols=25 Identities=44% Similarity=0.786 Sum_probs=0.0
Q ss_pred cHHHHHHHHHHHHhcCCCCCCceee
Q 044419 101 HSLFKVLLEKAEEEFGFDHCGALTI 125 (160)
Q Consensus 101 hP~F~~LL~~aeEEfGf~~~G~L~I 125 (160)
+-.|.++|++|..|+||..+|||++
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 4579999999999999999999986
No 11
>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=48.92 E-value=38 Score=24.21 Aligned_cols=54 Identities=22% Similarity=0.368 Sum_probs=38.0
Q ss_pred EEecCCceeEEEeccccccHHHHHHHHHHHHhcCCCC-----------CC-ceeecCCHHHHHHHHHHHhh
Q 044419 83 VYVGPELRRFIIPTSYLSHSLFKVLLEKAEEEFGFDH-----------CG-ALTIPCEIETFKYLLKCIES 141 (160)
Q Consensus 83 VYVG~e~rRFvVp~~yLnhP~F~~LL~~aeEEfGf~~-----------~G-~L~IPCd~~~Fe~vl~~l~~ 141 (160)
+..|.+..||.+|..- -|++|.++-.+-|++.. +| .++|.|+.++=| .+.+...
T Consensus 5 ~~~~~d~~r~~l~~~~----~~~~L~~~i~~r~~~~~~~~f~LkY~Ddegd~v~ltsd~DL~e-ai~i~~~ 70 (82)
T cd06407 5 ATYGEEKIRFRLPPSW----GFTELKQEIAKRFKLDDMSAFDLKYLDDDEEWVLLTCDADLEE-CIDVYRS 70 (82)
T ss_pred EEeCCeEEEEEcCCCC----CHHHHHHHHHHHhCCCCCCeeEEEEECCCCCeEEeecHHHHHH-HHHHHHH
Confidence 3447899999998744 58899998888888753 23 577889887554 4444444
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=48.49 E-value=40 Score=24.63 Aligned_cols=53 Identities=26% Similarity=0.285 Sum_probs=38.0
Q ss_pred EecCCceeEEEeccc-cccHHHHHHHHHHHHhcCCCC-----------CC-ceeecCCHHHHHHHH
Q 044419 84 YVGPELRRFIIPTSY-LSHSLFKVLLEKAEEEFGFDH-----------CG-ALTIPCEIETFKYLL 136 (160)
Q Consensus 84 YVG~e~rRFvVp~~y-LnhP~F~~LL~~aeEEfGf~~-----------~G-~L~IPCd~~~Fe~vl 136 (160)
.-|.+.+||-+|..= -.+.-|..|.++-++-|.... +| -++|-|+.++-+-+-
T Consensus 6 ~y~~~~rRf~l~~~~~~~d~~~~~L~~kI~~~f~l~~~~~~~l~Y~Dedgd~V~l~~D~DL~~a~~ 71 (91)
T cd06398 6 KYGGTLRRFTFPVAENQLDLNMDGLREKVEELFSLSPDADLSLTYTDEDGDVVTLVDDNDLTDAIQ 71 (91)
T ss_pred EeCCEEEEEEeccccccCCCCHHHHHHHHHHHhCCCCCCcEEEEEECCCCCEEEEccHHHHHHHHH
Confidence 348899999999741 114478889999888887763 34 477889988766443
No 13
>PF00651 BTB: BTB/POZ domain; InterPro: IPR013069 The BTB (for BR-C, ttk and bab) [] or POZ (for Pox virus and Zinc finger) [] domain is present near the N terminus of a fraction of zinc finger (IPR007087 from INTERPRO) proteins and in proteins that contain the IPR006652 from INTERPRO motif such as Kelch and a family of pox virus proteins. The BTB/POZ domain mediates homomeric dimerisation and in some instances heteromeric dimerisation []. The structure of the dimerised PLZF BTB/POZ domain has been solved and consists of a tightly intertwined homodimer. The central scaffolding of the protein is made up of a cluster of alpha-helices flanked by short beta-sheets at both the top and bottom of the molecule []. POZ domains from several zinc finger proteins have been shown to mediate transcriptional repression and to interact with components of histone deacetylase co-repressor complexes including N-CoR and SMRT [, , ]. The POZ or BTB domain is also known as BR-C/Ttk or ZiN.; GO: 0005515 protein binding; PDB: 3M5B_A 1R28_B 3LBZ_A 3E4U_F 3BIM_B 1R2B_A 1R29_A 2VPK_A 2YY9_B 3GA1_A ....
Probab=46.33 E-value=51 Score=22.61 Aligned_cols=57 Identities=21% Similarity=0.444 Sum_probs=40.1
Q ss_pred EEEEecCCceeEEEecccc--ccHHHHHHHHHHHHhcCCCCCC--ceeec-CCHHHHHHHHHHHhhC
Q 044419 81 LAVYVGPELRRFIIPTSYL--SHSLFKVLLEKAEEEFGFDHCG--ALTIP-CEIETFKYLLKCIESH 142 (160)
Q Consensus 81 ~aVYVG~e~rRFvVp~~yL--nhP~F~~LL~~aeEEfGf~~~G--~L~IP-Cd~~~Fe~vl~~l~~~ 142 (160)
+.+.||. .++|-|.-.+| .-|.|+.|++.. +....+ .|.++ |+...|+.++..+=..
T Consensus 13 ~~i~v~d-~~~~~vhk~iL~~~S~~F~~~~~~~----~~~~~~~~~i~~~~~~~~~~~~~l~~~Y~~ 74 (111)
T PF00651_consen 13 VTIRVGD-GKTFYVHKNILAARSPYFRNLFEGS----KFKESTVPEISLPDVSPEAFEAFLEYMYTG 74 (111)
T ss_dssp EEEEETT-TEEEEE-HHHHHHHBHHHHHHHTTT----TSTTSSEEEEEETTSCHHHHHHHHHHHHHS
T ss_pred EEEEECC-CEEEeechhhhhccchhhhhccccc----ccccccccccccccccccccccccccccCC
Confidence 3455544 88898888887 459999999887 222333 46655 8899999999988543
No 14
>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=40.48 E-value=58 Score=26.50 Aligned_cols=57 Identities=19% Similarity=0.299 Sum_probs=36.3
Q ss_pred ceEEEEecCCceeEEEeccccccHHHHHHHHHHHHhcCCCCCCceeecCCHHHHHHHHHHHhh
Q 044419 79 GYLAVYVGPELRRFIIPTSYLSHSLFKVLLEKAEEEFGFDHCGALTIPCEIETFKYLLKCIES 141 (160)
Q Consensus 79 G~~aVYVG~e~rRFvVp~~yLnhP~F~~LL~~aeEEfGf~~~G~L~IPCd~~~Fe~vl~~l~~ 141 (160)
|++++++|..-.+= .+-|.+.+|++...+++|........-.=+...+..+..++.+
T Consensus 1 g~lvlFiGAG~S~~------~glP~W~~Ll~~l~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~ 57 (242)
T cd01406 1 GRVVIFVGAGVSVS------SGLPDWKTLLDEIASELGLEIDGYSVEAKDENDYLELAELLEK 57 (242)
T ss_pred CCEEEEecCccccc------cCCCChHHHHHHHHHHcCCccchhhccccchhhHHHHHHHHHH
Confidence 78899998764331 5789999999999999987654311100123444455555544
No 15
>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=39.51 E-value=1.2e+02 Score=22.33 Aligned_cols=49 Identities=16% Similarity=0.274 Sum_probs=38.1
Q ss_pred EEecCCceeEEEeccccccHHHHHHHHHHHHhcCCCC----------C-CceeecCCHHHHHHH
Q 044419 83 VYVGPELRRFIIPTSYLSHSLFKVLLEKAEEEFGFDH----------C-GALTIPCEIETFKYL 135 (160)
Q Consensus 83 VYVG~e~rRFvVp~~yLnhP~F~~LL~~aeEEfGf~~----------~-G~L~IPCd~~~Fe~v 135 (160)
|--|.+.|||..|. .|.+.+|-++.+.=|-+.. + ..|||.=+.++.+..
T Consensus 5 v~~~g~~RRf~~~~----~pt~~~L~~kl~~Lf~lp~~~~~vtYiDeD~D~ITlssd~eL~d~~ 64 (82)
T cd06397 5 SSFLGDTRRIVFPD----IPTWEALASKLENLYNLPEIKVGVTYIDNDNDEITLSSNKELQDFY 64 (82)
T ss_pred EEeCCceEEEecCC----CccHHHHHHHHHHHhCCChhHeEEEEEcCCCCEEEecchHHHHHHH
Confidence 34468899999998 8999999999998877763 3 368888777766643
No 16
>cd06410 PB1_UP2 Uncharacterized protein 2. The PB1 domain is a modular domain mediating specific protein-protein interaction which play a role in many critical cell processes such as osteoclastogenesis, angiogenesis, early cardiovascular development, and cell polarity. A canonical PB1-PB1 interaction, which involves heterodimerization of two PB1 domains, is required for the formation of macromolecular signaling complexes ensuring specificity and fidelity during cellular signaling. The interaction between two PB1 domain depends on the type of PB1. There are three types of PB1 domains: type I which contains an OPCA motif, acidic aminoacid cluster, type II which contains a basic cluster, and type I/II which contains both an OPCA motif and a basic cluster. Interactions of PB1 domains with other protein domains have been described as noncanonical PB1-interactions.
Probab=39.00 E-value=67 Score=23.75 Aligned_cols=45 Identities=29% Similarity=0.390 Sum_probs=33.3
Q ss_pred EEEecCCceeEEEeccccccHHHHHHHHHHHHhcCCCC-------------CCceeecCCHH
Q 044419 82 AVYVGPELRRFIIPTSYLSHSLFKVLLEKAEEEFGFDH-------------CGALTIPCEIE 130 (160)
Q Consensus 82 aVYVG~e~rRFvVp~~yLnhP~F~~LL~~aeEEfGf~~-------------~G~L~IPCd~~ 130 (160)
.=|||.+.+--.|+-. . -|.+|..+..+.|+... ++-+.|-||.+
T Consensus 17 l~Y~GG~tr~i~V~r~-~---s~~el~~kl~~~~~~~~~~~lky~Lp~edld~Lisv~~DeD 74 (97)
T cd06410 17 LRYVGGETRIVSVDRS-I---SFKELVSKLSELFGAGVVVTLKYQLPDEDLDALISVSNDED 74 (97)
T ss_pred EEEcCCceEEEEEcCC-C---CHHHHHHHHHHHhCCCCceEEEEEcCCCCcceeEEecCcHH
Confidence 4699999999999988 4 56667777777776655 34566778874
No 17
>PRK02797 4-alpha-L-fucosyltransferase; Provisional
Probab=37.42 E-value=1.4e+02 Score=27.04 Aligned_cols=64 Identities=19% Similarity=0.329 Sum_probs=43.7
Q ss_pred CCCCceEEEEecC--------------------CceeEEEeccc--cccHHHHHHHHHHHHhcCCCCCCceeecCCHHHH
Q 044419 75 DVPKGYLAVYVGP--------------------ELRRFIIPTSY--LSHSLFKVLLEKAEEEFGFDHCGALTIPCEIETF 132 (160)
Q Consensus 75 ~vpkG~~aVYVG~--------------------e~rRFvVp~~y--LnhP~F~~LL~~aeEEfGf~~~G~L~IPCd~~~F 132 (160)
..+.+.+.+.||. +.-|+.||+.| =|.--.++..+.+.+-||-+ -+.+-=+---|
T Consensus 141 ~~~~~~~tIlvGNSgd~SN~Hie~L~~l~~~~~~~v~ii~PlsYp~gn~~Yi~~V~~~~~~lF~~~---~~~~L~e~l~f 217 (322)
T PRK02797 141 RQRAGKMTILVGNSGDRSNRHIEALRALHQQFGDNVKIIVPMGYPANNQAYIEEVRQAGLALFGAE---NFQILTEKLPF 217 (322)
T ss_pred ccCCCceEEEEeCCCCCcccHHHHHHHHHHHhCCCeEEEEECCcCCCCHHHHHHHHHHHHHhcCcc---cEEehhhhCCH
Confidence 3466789999982 34699999999 56666666666777777733 35555555556
Q ss_pred HHHHHHHhh
Q 044419 133 KYLLKCIES 141 (160)
Q Consensus 133 e~vl~~l~~ 141 (160)
+..+.+|.+
T Consensus 218 ~eYl~lL~~ 226 (322)
T PRK02797 218 DDYLALLRQ 226 (322)
T ss_pred HHHHHHHHh
Confidence 666666654
No 18
>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=36.17 E-value=16 Score=28.35 Aligned_cols=29 Identities=24% Similarity=0.655 Sum_probs=8.8
Q ss_pred CCCceEEEEecCCceeEE----------EeccccccHHHH
Q 044419 76 VPKGYLAVYVGPELRRFI----------IPTSYLSHSLFK 105 (160)
Q Consensus 76 vpkG~~aVYVG~e~rRFv----------Vp~~yLnhP~F~ 105 (160)
-..|||+|.| ..+-.|+ ||+-|||.|+-+
T Consensus 85 G~QGYfPlL~-~~~~KFv~~~~~~GKks~P~~FlNF~IA~ 123 (126)
T PF08948_consen 85 GKQGYFPLLV-PGRAKFVVRHTGSGKKSVPMFFLNFTIAQ 123 (126)
T ss_dssp ---SS--EEE---SSSSEEEEEEEESS----S--------
T ss_pred CCcccceeec-cchhhhhhhhccCCCcceeeEEEeceeee
Confidence 3579999999 6666665 688899888754
No 19
>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=35.97 E-value=50 Score=29.62 Aligned_cols=51 Identities=20% Similarity=0.522 Sum_probs=39.3
Q ss_pred CceeEEEeccccc--cHHHHHHHHH---HHHhcCCCCCCceeecCCHHHHHHHHHHHhh
Q 044419 88 ELRRFIIPTSYLS--HSLFKVLLEK---AEEEFGFDHCGALTIPCEIETFKYLLKCIES 141 (160)
Q Consensus 88 e~rRFvVp~~yLn--hP~F~~LL~~---aeEEfGf~~~G~L~IPCd~~~Fe~vl~~l~~ 141 (160)
..+=|..|...|- ...|+++|.. ..++. .+=.|.+-||+..|+.++.-+++
T Consensus 12 ~~rdF~C~~~lL~~~M~YF~~~l~~~~~~~~~~---~~idisVhCDv~iF~WLm~yv~~ 67 (317)
T PF11822_consen 12 EKRDFTCPRDLLVSEMRYFAEYLSRYINDSQRW---EEIDISVHCDVHIFEWLMRYVKG 67 (317)
T ss_pred cceeeeccHHHHHHhhHHHHHHHhhcccccCcC---CCcceEEecChhHHHHHHHHhhc
Confidence 4577999998884 5679999976 33321 23468888999999999999998
No 20
>COG4923 Predicted nuclease (RNAse H fold) [General function prediction only]
Probab=35.35 E-value=28 Score=29.88 Aligned_cols=18 Identities=11% Similarity=0.575 Sum_probs=13.3
Q ss_pred CCCceeecCCHHHHHHHH
Q 044419 119 HCGALTIPCEIETFKYLL 136 (160)
Q Consensus 119 ~~G~L~IPCd~~~Fe~vl 136 (160)
+....++||.+.++..+-
T Consensus 85 ~sSvF~vPcR~A~Y~~~y 102 (245)
T COG4923 85 QSSVFSVPCRAALYSDIY 102 (245)
T ss_pred hcceeccchHHHHHHHHH
Confidence 344678999999887653
No 21
>PF14317 YcxB: YcxB-like protein
Probab=34.78 E-value=75 Score=19.57 Aligned_cols=31 Identities=29% Similarity=0.447 Sum_probs=23.6
Q ss_pred CceEEEEecCCceeEEEeccccccHHHHHHHH
Q 044419 78 KGYLAVYVGPELRRFIIPTSYLSHSLFKVLLE 109 (160)
Q Consensus 78 kG~~aVYVG~e~rRFvVp~~yLnhP~F~~LL~ 109 (160)
+.++.+|+ ....-|.||-+.++.-...+|.+
T Consensus 29 ~~~~~l~~-~~~~~~~iPk~~f~~~e~~~f~~ 59 (62)
T PF14317_consen 29 KDYFYLYL-GKNQAFIIPKRAFSEEEKEEFRE 59 (62)
T ss_pred CCEEEEEE-CCCeEEEEEHHHCCHhHHHHHHH
Confidence 57888999 45599999999999655555554
No 22
>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=34.46 E-value=8.1 Score=28.74 Aligned_cols=11 Identities=45% Similarity=0.939 Sum_probs=8.3
Q ss_pred cccccHHHHHH
Q 044419 97 SYLSHSLFKVL 107 (160)
Q Consensus 97 ~yLnhP~F~~L 107 (160)
.|||||.|.-|
T Consensus 4 ~YLNHPtFGlL 14 (88)
T PF12058_consen 4 TYLNHPTFGLL 14 (88)
T ss_dssp -EEEETTTEEE
T ss_pred ccccCCccchh
Confidence 59999998654
No 23
>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=33.84 E-value=17 Score=22.59 Aligned_cols=19 Identities=37% Similarity=0.534 Sum_probs=15.1
Q ss_pred ccccHHHHHHHHHHHHhcC
Q 044419 98 YLSHSLFKVLLEKAEEEFG 116 (160)
Q Consensus 98 yLnhP~F~~LL~~aeEEfG 116 (160)
||+.-.|++++.|+.+||.
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 8999999999999999873
No 24
>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=33.36 E-value=35 Score=23.95 Aligned_cols=16 Identities=44% Similarity=0.725 Sum_probs=14.8
Q ss_pred HHHHHHHHHHHhcCCC
Q 044419 103 LFKVLLEKAEEEFGFD 118 (160)
Q Consensus 103 ~F~~LL~~aeEEfGf~ 118 (160)
.+++||+.|++.||+.
T Consensus 27 SleeLl~ia~~kfg~~ 42 (69)
T PF11834_consen 27 SLEELLKIASEKFGFS 42 (69)
T ss_pred cHHHHHHHHHHHhCCC
Confidence 5799999999999995
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=31.58 E-value=64 Score=24.18 Aligned_cols=52 Identities=31% Similarity=0.369 Sum_probs=25.5
Q ss_pred CCceeEE-Eecc---ccccHHHHHHHHHHHHhcCCCCCCceeecCCHHHHHHHHHHH
Q 044419 87 PELRRFI-IPTS---YLSHSLFKVLLEKAEEEFGFDHCGALTIPCEIETFKYLLKCI 139 (160)
Q Consensus 87 ~e~rRFv-Vp~~---yLnhP~F~~LL~~aeEEfGf~~~G~L~IPCd~~~Fe~vl~~l 139 (160)
.++.=|+ +|-. -..-.-|..||+.|||.+|.++ -.|+++=+-.....+++-+
T Consensus 22 ~~~~L~V~ip~~~~~~~~K~~lvaLLElAee~L~c~~-vvic~~k~~~d~~~Llr~l 77 (108)
T PF02100_consen 22 DERTLFVFIPSSALGQGSKESLVALLELAEEKLGCSH-VVICLDKNRPDRASLLRTL 77 (108)
T ss_dssp -TTEEEEE-SS---SS--SHHHHHHHHHHHHHH-----EEEEE---SS-HHHHHHHH
T ss_pred cCCEEEEEECCcccccccHHHHHHHHHHhcCcCCCCE-EEEEEECCchhHHHhhhhc
Confidence 3455555 4543 3345789999999999988764 3455664444455555444
No 26
>PF03460 NIR_SIR_ferr: Nitrite/Sulfite reductase ferredoxin-like half domain; InterPro: IPR005117 Sulphite reductases (SiRs) and related nitrite reductases (NiRs) catalyse the six-electron reduction reactions of sulphite to sulphide, and nitrite to ammonia, respectively. The Escherichia coli SiR enzyme is a complex composed of two proteins, a flavoprotein alpha-component (SiR-FP) and a hemoprotein beta-component (SiR-HP), and has an alpha(8)beta(4) quaternary structure []. SiR-FP contains both FAD and FMN, while SiR-HP contains a Fe(4)S(4) cluster coupled to a sirohaem through a cysteine bridge. Electrons are transferred from NADPH to FAD, and on to FMN in SiR-FP, from which they are transferred to the metal centre of SiR-HP, where they reduce the siroheme-bound sulphite. SiR-HP has a two-fold symmetry, which generates a distinctive three-domain alpha/beta fold that controls assembly and reactivity []. This entry describes the ferrodoxin-like (alpha/beta sandwich) domain, which consists of a duplication containing two subdomains of this fold.; GO: 0016491 oxidoreductase activity, 0055114 oxidation-reduction process; PDB: 3B0H_A 4GEP_A 2GEP_A 2AOP_A 5AOP_A 6GEP_A 4AOP_A 1AOP_A 3AOP_A 8GEP_A ....
Probab=31.11 E-value=1.1e+02 Score=20.05 Aligned_cols=56 Identities=21% Similarity=0.378 Sum_probs=34.4
Q ss_pred CCceEEEEecCCceeEEEeccccccHHHHHHHHHHHHhcC-----CCCCCceeec-CCHHHHHHHHHHHh
Q 044419 77 PKGYLAVYVGPELRRFIIPTSYLSHSLFKVLLEKAEEEFG-----FDHCGALTIP-CEIETFKYLLKCIE 140 (160)
Q Consensus 77 pkG~~aVYVG~e~rRFvVp~~yLnhP~F~~LL~~aeEEfG-----f~~~G~L~IP-Cd~~~Fe~vl~~l~ 140 (160)
+.|++.|.+ .+|.-.++-..++.|.+.| ++|| ++....|.|+ ......+.|...|+
T Consensus 6 ~~g~~~v~~-------~~~~G~i~~~~l~~la~ia-~~yg~~~irlT~~Q~l~l~~v~~~~~~~i~~~L~ 67 (69)
T PF03460_consen 6 GDGFYMVRI-------RIPGGRISAEQLRALAEIA-EKYGDGEIRLTTRQNLQLRGVPEENLPAIFEELK 67 (69)
T ss_dssp STTEEEEEE-------B-GGGEEEHHHHHHHHHHH-HHHSTSEEEEETTSCEEEEEEEGGGHHHHHHHHH
T ss_pred CCeEEEEEE-------eCCCEEECHHHHHHHHHHH-HHhCCCeEEECCCCeEEEeCCCHHHHHHHHHHHH
Confidence 356777766 5666677777777777777 5666 2334456665 66666666665554
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=31.11 E-value=1.6e+02 Score=19.60 Aligned_cols=54 Identities=28% Similarity=0.441 Sum_probs=35.7
Q ss_pred EEecCCcee-EEEeccccccHHHHHHHHHHHHhcCCC----------CCC-ceeecCCHHHHHHHHHHHhh
Q 044419 83 VYVGPELRR-FIIPTSYLSHSLFKVLLEKAEEEFGFD----------HCG-ALTIPCEIETFKYLLKCIES 141 (160)
Q Consensus 83 VYVG~e~rR-FvVp~~yLnhP~F~~LL~~aeEEfGf~----------~~G-~L~IPCd~~~Fe~vl~~l~~ 141 (160)
++-+.+.+| +.+| ..+.|.+|+.+.++.||.. .+| .++|.++.+ |+..+....+
T Consensus 6 ~~~~~~~~~~~~~~----~~~s~~~L~~~i~~~~~~~~~~~~l~Y~D~dgD~V~i~sd~D-l~~a~~~~~~ 71 (84)
T PF00564_consen 6 VRYGGDIRRIISLP----SDVSFDDLRSKIREKFGLLDEDFQLKYKDEDGDLVTISSDED-LQEAIEQAKE 71 (84)
T ss_dssp EEETTEEEEEEEEC----STSHHHHHHHHHHHHHTTSTSSEEEEEEETTSSEEEESSHHH-HHHHHHHHHH
T ss_pred EEECCeeEEEEEcC----CCCCHHHHHHHHHHHhCCCCccEEEEeeCCCCCEEEeCCHHH-HHHHHHHHHh
Confidence 344566666 4444 4569999999999999994 255 466776665 4445555544
No 28
>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=31.06 E-value=1.8e+02 Score=26.62 Aligned_cols=64 Identities=25% Similarity=0.442 Sum_probs=43.1
Q ss_pred CCCCceEEEEec--------------------CCceeEEEeccccc--cHHHHHHHHHHHHhcCCCCCCceeecCCHHHH
Q 044419 75 DVPKGYLAVYVG--------------------PELRRFIIPTSYLS--HSLFKVLLEKAEEEFGFDHCGALTIPCEIETF 132 (160)
Q Consensus 75 ~vpkG~~aVYVG--------------------~e~rRFvVp~~yLn--hP~F~~LL~~aeEEfGf~~~G~L~IPCd~~~F 132 (160)
..+++-..+.|| .+..|++||+.|=. .-...++.+.+++-||-.. +.+-=+---|
T Consensus 180 ~~~~~~ltILvGNSgd~sNnHieaL~~L~~~~~~~~kIivPLsYg~~n~~Yi~~V~~~~~~lF~~~~---~~iL~e~mpf 256 (360)
T PF07429_consen 180 KKNKGKLTILVGNSGDPSNNHIEALEALKQQFGDDVKIIVPLSYGANNQAYIQQVIQAGKELFGAEN---FQILTEFMPF 256 (360)
T ss_pred cCCCCceEEEEcCCCCCCccHHHHHHHHHHhcCCCeEEEEECCCCCchHHHHHHHHHHHHHhcCccc---eeEhhhhCCH
Confidence 345678888888 24689999999974 5677788788888887432 3333344445
Q ss_pred HHHHHHHhh
Q 044419 133 KYLLKCIES 141 (160)
Q Consensus 133 e~vl~~l~~ 141 (160)
+..+.+|.+
T Consensus 257 ~eYl~lL~~ 265 (360)
T PF07429_consen 257 DEYLALLSR 265 (360)
T ss_pred HHHHHHHHh
Confidence 666666654
No 29
>smart00153 VHP Villin headpiece domain.
Probab=30.88 E-value=21 Score=22.08 Aligned_cols=19 Identities=37% Similarity=0.522 Sum_probs=16.8
Q ss_pred ccccHHHHHHHHHHHHhcC
Q 044419 98 YLSHSLFKVLLEKAEEEFG 116 (160)
Q Consensus 98 yLnhP~F~~LL~~aeEEfG 116 (160)
||+.-.|+.++.|+.+||-
T Consensus 1 yLsdeeF~~vfgmsr~eF~ 19 (36)
T smart00153 1 YLSDEDFEEVFGMTREEFY 19 (36)
T ss_pred CCCHHHHHHHHCCCHHHHH
Confidence 7899999999999999863
No 30
>COG1759 5-formaminoimidazole-4-carboxamide-1-beta-D-ribofuranosyl 5'-monophosphate synthetase (purine biosynthesis) [Nucleotide transport and metabolism]
Probab=28.26 E-value=27 Score=31.81 Aligned_cols=73 Identities=22% Similarity=0.256 Sum_probs=42.9
Q ss_pred CCCCCceEEEEecCC--ceeEEEecccccc---------HHHHHHHHHHH----HhcCCC--CCCc-------------e
Q 044419 74 HDVPKGYLAVYVGPE--LRRFIIPTSYLSH---------SLFKVLLEKAE----EEFGFD--HCGA-------------L 123 (160)
Q Consensus 74 ~~vpkG~~aVYVG~e--~rRFvVp~~yLnh---------P~F~~LL~~ae----EEfGf~--~~G~-------------L 123 (160)
--||.|-|++|||-+ -..|.||+ |-|- -.-..||++|. +.|--. .|++ -
T Consensus 88 I~IP~gSfv~Y~G~d~ie~~~~vP~-fGnR~lLrwE~~~~~~~~lLekAgi~~P~~~~~PeeIdr~VIVK~pgAkggRGy 166 (361)
T COG1759 88 IFIPHGSFVAYVGYDGIENEFEVPM-FGNRELLRWEEDRKLEYKLLEKAGLRIPKKYKSPEEIDRPVIVKLPGAKGGRGY 166 (361)
T ss_pred EEecCCceEEEecchhhhhcccCcc-cccHhHhhhhcchhhHHHHHHHcCCCCCcccCChHHcCCceEEecCCccCCceE
Confidence 568999999999976 35677775 2222 22347787774 222100 1232 3
Q ss_pred eecCCHHHHH-HHHHHHhhCCCCCC
Q 044419 124 TIPCEIETFK-YLLKCIESHQKDHS 147 (160)
Q Consensus 124 ~IPCd~~~Fe-~vl~~l~~~~~~~~ 147 (160)
-+.-+...|. .+-.+++++.-++.
T Consensus 167 FiA~s~eef~ek~e~l~~~gvi~~e 191 (361)
T COG1759 167 FIASSPEEFYEKAERLLKRGVITEE 191 (361)
T ss_pred EEEcCHHHHHHHHHHHHHcCCcchh
Confidence 3444555554 56667777776665
No 31
>PF10495 PACT_coil_coil: Pericentrin-AKAP-450 domain of centrosomal targeting protein; InterPro: IPR019528 This entry represents a coiled-coil region close to the C terminus of centrosomal proteins that is directly responsible for recruiting AKAP-450 and pericentrin to the centrosome. Hence the suggested name for this region is a PACT domain (pericentrin-AKAP-450 centrosomal targeting). This domain is also present at the C terminus of coiled-coil proteins from Drosophila and Schizosaccharomyces pombe (Fission yeast), and in the Drosophila protein it is sufficient for targeting to the centrosome in mammalian cells. The function of these proteins is unknown but they seem good candidates for having a centrosomal or spindle pole body location. The final 22 residues of this domain in AKAP-450 appear specifically to be a calmodulin-binding domain, indicating that this protein at least is likely to contribute to centrosome assembly [].
Probab=28.13 E-value=40 Score=23.96 Aligned_cols=16 Identities=25% Similarity=0.723 Sum_probs=13.6
Q ss_pred chhhHHHHHHHHHHHH
Q 044419 11 GIRQIVKLKEILQKWQ 26 (160)
Q Consensus 11 kI~~ivrLkq~lkKWq 26 (160)
-+.-|.|++.+.++||
T Consensus 63 ~viai~Rmr~l~~~W~ 78 (78)
T PF10495_consen 63 AVIAIVRMRFLARKWR 78 (78)
T ss_pred HHHHHHHHHHHHHhcC
Confidence 4667899999999996
No 32
>cd04395 RhoGAP_ARHGAP21 RhoGAP_ARHGAP21: RhoGAP (GTPase-activator protein [GAP] for Rho-like small GTPases) domain of ArhGAP21-like proteins. ArhGAP21 is a multi-domain protein, containing RhoGAP, PH and PDZ domains, and is believed to play a role in the organization of the cell-cell junction complex. It has been shown to function as a GAP of Cdc42 and RhoA, and to interact with alpha-catenin and Arf6. Small GTPases cluster into distinct families, and all act as molecular switches, active in their GTP-bound form but inactive when GDP-bound. The Rho family of GTPases activates effectors involved in a wide variety of developmental processes, including regulation of cytoskeleton formation, cell proliferation and the JNK signaling pathway. GTPases generally have a low intrinsic GTPase hydrolytic activity but there are family-specific groups of GAPs that enhance the rate of GTP hydrolysis by several orders of magnitude.
Probab=27.81 E-value=1.6e+02 Score=23.48 Aligned_cols=43 Identities=14% Similarity=0.149 Sum_probs=34.5
Q ss_pred HHHHHHHHHHHHhcCCCCCCceeecCCHHHHHHHHHHHhhCCC
Q 044419 102 SLFKVLLEKAEEEFGFDHCGALTIPCEIETFKYLLKCIESHQK 144 (160)
Q Consensus 102 P~F~~LL~~aeEEfGf~~~G~L~IPCd~~~Fe~vl~~l~~~~~ 144 (160)
|.|.+..-..-++.|...+|--++|.+...-+.+...++++..
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 4555444445578899999999999999999999999988653
No 33
>PF09277 Erythro-docking: Erythronolide synthase, docking; InterPro: IPR015357 Docking domains are found in prokaryotic erythronolide synthase. They adopt a structure consisting of a bundle of four alpha-helices, and mediate homodimerisation of the protein, stabilising the resulting complex []. ; PDB: 1PZQ_A.
Probab=27.78 E-value=47 Score=22.87 Aligned_cols=13 Identities=31% Similarity=0.882 Sum_probs=11.4
Q ss_pred HHHHHHHHHHHhc
Q 044419 16 VKLKEILQKWQSV 28 (160)
Q Consensus 16 vrLkq~lkKWq~~ 28 (160)
-||-.+|++||.-
T Consensus 33 aRLeaLLR~Wq~~ 45 (58)
T PF09277_consen 33 ARLEALLRRWQDR 45 (58)
T ss_dssp HHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHhc
Confidence 4999999999974
No 34
>PRK10308 3-methyl-adenine DNA glycosylase II; Provisional
Probab=27.68 E-value=2.2e+02 Score=24.52 Aligned_cols=62 Identities=18% Similarity=0.210 Sum_probs=43.7
Q ss_pred CceEEEEecCCceeEEEeccccccHHHHHHHHHHHHhcCCCCC---------------CceeecCCHHHHHHHHHHH
Q 044419 78 KGYLAVYVGPELRRFIIPTSYLSHSLFKVLLEKAEEEFGFDHC---------------GALTIPCEIETFKYLLKCI 139 (160)
Q Consensus 78 kG~~aVYVG~e~rRFvVp~~yLnhP~F~~LL~~aeEEfGf~~~---------------G~L~IPCd~~~Fe~vl~~l 139 (160)
.|+|.|.-.....++.|.+..-.-|....++.....-||+..+ -+|+||...+.||-+++.|
T Consensus 45 ~~~~~v~~~~~~~~l~~~~~~~~~~~~~~~~~~vrr~fdLd~d~~~i~~~L~~~~~~~~GlR~p~~~d~fE~lv~aI 121 (283)
T PRK10308 45 RGVVTVIPDIARHTLHINLSAGLEPVAAECLAKMSRLFDLQCNPQIVNGALGKLGAARPGLRLPGSVDAFEQGVRAI 121 (283)
T ss_pred cEEEEEEEcCCCceEEEEEcCCccccHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHhCCCCcCCCCCCHHHHHHHHH
Confidence 4777777655666666666654345556677777777776654 3589999999999888876
No 35
>PF03931 Skp1_POZ: Skp1 family, tetramerisation domain; InterPro: IPR016073 SKP1 (together with SKP2) was identified as an essential component of the cyclin A-CDK2 S phase kinase complex []. It was found to bind several F-box containing proteins (e.g., Cdc4, Skp2, cyclin F) and to be involved in the ubiquitin protein degradation pathway. A yeast homologue of SKP1 (P52286) was identified in the centromere bound kinetochore complex [] and is also involved in the ubiquitin pathway []. In Dictyostelium discoideum (Slime mold) FP21 was shown to be glycosylated in the cytosol and has homology to SKP1 []. This entry represents a POZ domain with a core structure consisting of beta(2)/alpha(2)/beta(2)/alpha(2) in two layers, alpha/beta. This domain is found at the N-terminal of SKP1 proteins [] as well as in subunit D of the centromere DNA-binding protein complex Cbf3 []. ; GO: 0006511 ubiquitin-dependent protein catabolic process; PDB: 1LM8_C 2XAI_E 1VCB_E 3ZRC_K 3ZRF_E 3DCG_B 2C9W_C 1LQB_B 2IZV_C 1HV2_A ....
Probab=26.97 E-value=1.9e+02 Score=18.97 Aligned_cols=55 Identities=18% Similarity=0.332 Sum_probs=37.6
Q ss_pred EEecCCceeEEEecccccc-HHHHHHHHHHHHhcCCCCCCceeec-CCHHHHHHHHHHHhhC
Q 044419 83 VYVGPELRRFIIPTSYLSH-SLFKVLLEKAEEEFGFDHCGALTIP-CEIETFKYLLKCIESH 142 (160)
Q Consensus 83 VYVG~e~rRFvVp~~yLnh-P~F~~LL~~aeEEfGf~~~G~L~IP-Cd~~~Fe~vl~~l~~~ 142 (160)
..+..|++.|.|+.+.+.+ +.++.+|+ ..|...+ +|.|| =+...++.++.-++.|
T Consensus 4 ~L~SsDg~~f~V~~~~a~~S~~i~~ml~----~~~~~~~-~Ipl~~v~~~~L~kViewc~~H 60 (62)
T PF03931_consen 4 KLVSSDGQEFEVSREAAKQSKTIKNMLE----DLGDEDE-PIPLPNVSSRILKKVIEWCEHH 60 (62)
T ss_dssp EEEETTSEEEEEEHHHHTTSHHHHHHHH----CTCCCGT-EEEETTS-HHHHHHHHHHHHHH
T ss_pred EEEcCCCCEEEeeHHHHHHhHHHHHHHh----hhccccc-ccccCccCHHHHHHHHHHHHhc
Confidence 3455899999999988876 44555554 4454444 68887 6778888888776654
No 36
>PF06849 DUF1246: Protein of unknown function (DUF1246); InterPro: IPR010672 The last two steps of de novo purine biosynthesis are: i) conversion of 5-aminoimidazole-4-carboxamide-1-beta-D-ribofuranosyl 5'-monophosphate (AICAR) to 5-formaminoimidazole-4-carboxamide-1-beta-D-ribofuranosyl 5'-monophosphate (FAICAR) ii) conversion of FAICAR to inosine5'-monophopsphate (IMP) In bacteria and eukaryotes, these steps are catalysed by the well-characterised bifunctional enzyme PurH []. Archaea do not appear to posses PurH, however, and perform these reactions by a different mecahnism []. In archaea, step i) is catalysed by the well-conserved PurP protein, while step ii) is catalysed by the PurO enzyme in some (though not all) species [, ]. This entry represents the N-terminal domain of PurP. Its function is not known, though it is almost always found in association with IPR009720 from INTERPRO.; GO: 0000287 magnesium ion binding, 0005524 ATP binding, 0016879 ligase activity, forming carbon-nitrogen bonds, 0006188 IMP biosynthetic process; PDB: 2PBZ_C 2R85_B 2R87_E 2R84_A 2R86_A 2R7L_A 2R7N_A 2R7K_A 2R7M_A.
Probab=24.50 E-value=2.8 Score=32.85 Aligned_cols=23 Identities=35% Similarity=0.619 Sum_probs=14.0
Q ss_pred CCCCCceEEEEecCCc--eeEEEec
Q 044419 74 HDVPKGYLAVYVGPEL--RRFIIPT 96 (160)
Q Consensus 74 ~~vpkG~~aVYVG~e~--rRFvVp~ 96 (160)
.-||.|-|++|||-+. .+|.||+
T Consensus 68 I~VPhgSfv~Y~G~d~ie~~~~vP~ 92 (124)
T PF06849_consen 68 IFVPHGSFVAYVGYDRIENEFKVPI 92 (124)
T ss_dssp EE--BTTHHHHH-HHHHHHT-SS-E
T ss_pred EEecCCCeeEeecHHHHhhcCCCCe
Confidence 5689999999999653 4488876
No 37
>PF07369 DUF1488: Protein of unknown function (DUF1488); InterPro: IPR009962 This family consists of several hypothetical bacterial proteins of around 85 residues in length. The function of this family is unknown.; PDB: 2GPI_A.
Probab=24.39 E-value=1.6e+02 Score=20.29 Aligned_cols=20 Identities=20% Similarity=0.084 Sum_probs=17.9
Q ss_pred eEEEEecCCceeEEEecccc
Q 044419 80 YLAVYVGPELRRFIIPTSYL 99 (160)
Q Consensus 80 ~~aVYVG~e~rRFvVp~~yL 99 (160)
.|+++|+...-++.|...-|
T Consensus 18 ~F~a~~~g~~i~C~Is~~aL 37 (83)
T PF07369_consen 18 RFPAQVDGMQIRCAISAEAL 37 (83)
T ss_dssp EEEEEETTEEEEEEEEHHHH
T ss_pred EEEEEECCEEEEEEEeHHHH
Confidence 68999999999999999776
No 38
>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=23.27 E-value=1.3e+02 Score=21.90 Aligned_cols=30 Identities=23% Similarity=0.282 Sum_probs=22.0
Q ss_pred cCCceeEEEeccccccHHHHHHHHHHHHhcCCC
Q 044419 86 GPELRRFIIPTSYLSHSLFKVLLEKAEEEFGFD 118 (160)
Q Consensus 86 G~e~rRFvVp~~yLnhP~F~~LL~~aeEEfGf~ 118 (160)
|.+-|||.+|..- =.|.+|..+....|...
T Consensus 8 g~DiR~~~~~~~~---~t~~~L~~~v~~~F~~~ 37 (81)
T cd06401 8 GDDIRRIPIHNED---ITYDELLLMMQRVFRGK 37 (81)
T ss_pred CCeEEEEeccCcc---ccHHHHHHHHHHHhccc
Confidence 7899997777522 25788999998887733
No 39
>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=22.63 E-value=95 Score=23.30 Aligned_cols=31 Identities=29% Similarity=0.372 Sum_probs=24.9
Q ss_pred CCceeEEEeccccccHHHHHHHHHHHHhcCC
Q 044419 87 PELRRFIIPTSYLSHSLFKVLLEKAEEEFGF 117 (160)
Q Consensus 87 ~e~rRFvVp~~yLnhP~F~~LL~~aeEEfGf 117 (160)
.+.+=..|.-+.-..|.|++||.....+|+-
T Consensus 13 ~~~rdi~vee~l~~~P~~kdLl~lmr~~f~~ 43 (92)
T cd06399 13 STIRDIAVEEDLSSTPLLKDLLELTRREFQR 43 (92)
T ss_pred ccccceEeecccccCccHHHHHHHHHHHhch
Confidence 3445556677888999999999999999864
No 40
>PRK13277 5-formaminoimidazole-4-carboxamide-1-(beta)-D-ribofuranosyl 5'-monophosphate synthetase-like protein; Provisional
Probab=21.58 E-value=33 Score=31.26 Aligned_cols=22 Identities=41% Similarity=0.646 Sum_probs=18.4
Q ss_pred CCCCCceEEEEecCCc-e-eEEEe
Q 044419 74 HDVPKGYLAVYVGPEL-R-RFIIP 95 (160)
Q Consensus 74 ~~vpkG~~aVYVG~e~-r-RFvVp 95 (160)
--||.|-|++|||-+. . .|.||
T Consensus 88 i~iPh~sf~~y~g~~~ie~~~~vp 111 (366)
T PRK13277 88 IFVPNRSFAVYVGYDAIENEFKVP 111 (366)
T ss_pred EEecCCCeEEEecHHHHhhcCCCC
Confidence 5689999999999764 3 69998
No 41
>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=21.54 E-value=2.5e+02 Score=20.33 Aligned_cols=54 Identities=13% Similarity=0.222 Sum_probs=39.3
Q ss_pred cCCceeEEEeccccccHHHHHHHHHHHHhcCCCC--------C-CceeecCCHHHHHHHHHHHhhC
Q 044419 86 GPELRRFIIPTSYLSHSLFKVLLEKAEEEFGFDH--------C-GALTIPCEIETFKYLLKCIESH 142 (160)
Q Consensus 86 G~e~rRFvVp~~yLnhP~F~~LL~~aeEEfGf~~--------~-G~L~IPCd~~~Fe~vl~~l~~~ 142 (160)
|.+..||.++- -.++-|.+|..+-+.-|++.. + -+++|.|++++ +..+.+.++.
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 67889998875 225568999999999988752 3 37899998764 4566666553
No 42
>COG4862 MecA Negative regulator of genetic competence, sporulation and motility [Posttranslational modification, protein turnover, chaperones / Signal transduction mechanisms / Cell motility and secretion]
Probab=21.46 E-value=59 Score=27.95 Aligned_cols=27 Identities=26% Similarity=0.389 Sum_probs=24.4
Q ss_pred ccHHHHHHHHHHHHhcCCCCCCceeec
Q 044419 100 SHSLFKVLLEKAEEEFGFDHCGALTIP 126 (160)
Q Consensus 100 nhP~F~~LL~~aeEEfGf~~~G~L~IP 126 (160)
.|-.|.+++..+..|-+|..+|||.|-
T Consensus 37 ~EE~F~~mMdEl~~ee~F~~~GpL~iq 63 (224)
T COG4862 37 TEELFYEMMDELNLEEDFKDEGPLWIQ 63 (224)
T ss_pred HHHHHHHHHHhcCCccccccCCceEEE
Confidence 578999999999999999999999874
No 43
>smart00512 Skp1 Found in Skp1 protein family. Family of Skp1 (kinetochore protein required for cell cycle progression) and elongin C (subunit of RNA polymerase II transcription factor SIII) homologues.
Probab=21.02 E-value=3.2e+02 Score=19.44 Aligned_cols=59 Identities=17% Similarity=0.340 Sum_probs=42.8
Q ss_pred EecCCceeEEEeccccccHH-HHHHHHHHHHhcCCCCC--Cceeec-CCHHHHHHHHHHHhhCCCCC
Q 044419 84 YVGPELRRFIIPTSYLSHSL-FKVLLEKAEEEFGFDHC--GALTIP-CEIETFKYLLKCIESHQKDH 146 (160)
Q Consensus 84 YVG~e~rRFvVp~~yLnhP~-F~~LL~~aeEEfGf~~~--G~L~IP-Cd~~~Fe~vl~~l~~~~~~~ 146 (160)
.+..++.+|.|+.....+.. ++.+|+. -|+..+ .+|.+| =....++.|+.-++.|....
T Consensus 6 L~S~Dg~~f~v~~~~a~~S~~i~~~l~~----~~~~~~~~~~Ipl~~v~~~~L~~Vi~yc~~h~~~~ 68 (104)
T smart00512 6 LISSDGEVFEVEREVARQSKTIKAMIED----LGVDDENNNPIPLPNVTSKILSKVIEYCEHHVDDP 68 (104)
T ss_pred EEeCCCCEEEecHHHHHHHHHHHHHHHc----cCcccCCCCCccCCCcCHHHHHHHHHHHHHcccCC
Confidence 34589999999999887654 4555543 344333 478888 78899999999998876543
No 44
>cd04403 RhoGAP_ARHGAP27_15_12_9 RhoGAP_ARHGAP27_15_12_9: GTPase-activator protein (GAP) domain for Rho-like GTPases found in ARHGAP27 (also called CAMGAP1), ARHGAP15, 12 and 9-like proteins; This subgroup of ARHGAPs are multidomain proteins that contain RhoGAP, PH, SH3 and WW domains. Most members that are studied show GAP activity towards Rac1, some additionally show activity towards Cdc42. 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=20.32 E-value=2.8e+02 Score=21.97 Aligned_cols=39 Identities=18% Similarity=0.325 Sum_probs=30.2
Q ss_pred HHHHHHHHHhcCCCCCCceeecCCHHHHHHHHHHHhhCCC
Q 044419 105 KVLLEKAEEEFGFDHCGALTIPCEIETFKYLLKCIESHQK 144 (160)
Q Consensus 105 ~~LL~~aeEEfGf~~~G~L~IPCd~~~Fe~vl~~l~~~~~ 144 (160)
..+++. =+++|...+|--++|-.....+.+...++++..
T Consensus 21 ~~~i~~-l~~~gl~~eGIFR~sg~~~~v~~l~~~~d~~~~ 59 (187)
T cd04403 21 RLCIEA-VEKRGLDVDGIYRVSGNLAVIQKLRFAVDHDEK 59 (187)
T ss_pred HHHHHH-HHHhCCCcCceeeecCcHHHHHHHHHHhcCCCC
Confidence 344443 456899999999999999999988888877543
No 45
>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=20.19 E-value=1.7e+02 Score=21.01 Aligned_cols=40 Identities=18% Similarity=0.273 Sum_probs=32.6
Q ss_pred CCceEEEEecCC----ceeEEEeccccccHHH---HHHHHHHHHhcC
Q 044419 77 PKGYLAVYVGPE----LRRFIIPTSYLSHSLF---KVLLEKAEEEFG 116 (160)
Q Consensus 77 pkG~~aVYVG~e----~rRFvVp~~yLnhP~F---~~LL~~aeEEfG 116 (160)
++-+.+.|.|.. ..++.+...|+.|+.+ +.|+++|.|.|.
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 556778888865 4778888999999999 489999999864
No 46
>COG4496 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=20.08 E-value=49 Score=25.06 Aligned_cols=43 Identities=14% Similarity=0.219 Sum_probs=25.2
Q ss_pred hhhHHHHHHHHHHHHhcccCCCCCCCCCCCCCCCCCCccccccc
Q 044419 12 IRQIVKLKEILQKWQSVTLSSPKPSSSQSSPNHGGISPVINKRL 55 (160)
Q Consensus 12 I~~ivrLkq~lkKWq~~a~~~k~~~~~~~~~~~~~is~~~~KR~ 55 (160)
+.-|--|+.++++||-.-+ -+....++.++...++|-.+-.|.
T Consensus 34 lcTinEiqslaqRlqVa~m-L~eg~tY~~I~~eTGaStaTIsRV 76 (100)
T COG4496 34 LCTINEIQSLAQRLQVAKM-LKEGRTYRDIEDETGASTATISRV 76 (100)
T ss_pred hcCHHHHHHHHHHHHHHHH-HHcCCCcchhhhccCcchhhHHHH
Confidence 3446678899999993221 133335666666555665555443
Done!