Query 044863
Match_columns 84
No_of_seqs 110 out of 618
Neff 4.8
Searched_HMMs 46136
Date Fri Mar 29 07:28:21 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/044863.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/044863hhsearch_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 5E-36 1.1E-40 201.4 8.8 70 10-80 34-103 (104)
2 PF02519 Auxin_inducible: Auxi 100.0 8.5E-36 1.8E-40 198.0 8.4 68 13-81 33-100 (100)
3 PLN03220 uncharacterized prote 100.0 7.8E-35 1.7E-39 195.9 8.9 70 10-79 29-102 (105)
4 PLN03219 uncharacterized prote 100.0 6.1E-34 1.3E-38 192.3 9.1 70 11-80 34-105 (108)
5 PF02214 BTB_2: BTB/POZ domain 92.3 0.19 4E-06 31.4 3.1 58 22-82 2-62 (94)
6 smart00666 PB1 PB1 domain. Pho 85.9 4 8.7E-05 24.5 5.6 54 24-82 7-70 (81)
7 PRK02899 adaptor protein; Prov 85.8 0.73 1.6E-05 33.6 2.6 24 42-66 39-62 (197)
8 PRK02315 adaptor protein; Prov 81.3 1.3 2.7E-05 33.0 2.3 25 41-66 38-62 (233)
9 cd05992 PB1 The PB1 domain is 78.9 11 0.00024 22.4 6.7 55 23-81 5-69 (81)
10 PF05389 MecA: Negative regula 75.8 0.87 1.9E-05 33.0 0.0 25 41-66 38-62 (220)
11 PF02100 ODC_AZ: Ornithine dec 64.0 20 0.00043 23.8 4.6 51 26-78 21-75 (108)
12 cd06396 PB1_NBR1 The PB1 domai 63.2 29 0.00063 22.3 5.1 55 26-83 8-70 (81)
13 cd06410 PB1_UP2 Uncharacterize 62.3 20 0.00043 23.5 4.3 53 22-79 17-81 (97)
14 PF02209 VHP: Villin headpiece 56.2 6.6 0.00014 21.7 1.0 19 38-56 1-19 (36)
15 cd06398 PB1_Joka2 The PB1 doma 55.8 53 0.0012 21.2 6.0 54 25-78 7-72 (91)
16 smart00153 VHP Villin headpiec 54.7 8.1 0.00018 21.3 1.2 19 38-56 1-19 (36)
17 PF11822 DUF3342: Domain of un 50.2 20 0.00043 28.5 3.2 51 28-82 12-67 (317)
18 PF11834 DUF3354: Domain of un 49.9 14 0.0003 23.0 1.9 24 29-58 19-42 (69)
19 PF08861 DUF1828: Domain of un 48.1 67 0.0014 20.1 5.0 40 41-80 44-83 (90)
20 PRK10308 3-methyl-adenine DNA 46.9 96 0.0021 23.6 6.4 64 18-81 45-122 (283)
21 cd06407 PB1_NLP A PB1 domain i 46.0 50 0.0011 20.8 4.1 47 24-74 6-63 (82)
22 PF12058 DUF3539: Protein of u 43.0 3.6 7.9E-05 27.2 -1.6 12 37-48 4-15 (88)
23 PF00651 BTB: BTB/POZ domain; 40.3 83 0.0018 18.9 5.3 53 22-80 14-71 (111)
24 PF14317 YcxB: YcxB-like prote 38.6 68 0.0015 17.4 3.8 32 17-49 28-59 (62)
25 cd04751 Commd3 COMM_Domain con 36.0 42 0.00092 21.6 2.6 20 62-81 65-84 (95)
26 KOG1290 Serine/threonine prote 34.5 25 0.00055 30.1 1.7 22 14-35 60-83 (590)
27 COG1759 5-formaminoimidazole-4 33.7 20 0.00042 29.1 0.9 36 15-51 89-135 (361)
28 PF00564 PB1: PB1 domain; Int 32.9 1.1E+02 0.0023 18.1 6.1 54 24-82 7-71 (84)
29 PLN02752 [acyl-carrier protein 32.7 47 0.001 25.2 2.7 41 18-58 38-78 (343)
30 PRK02797 4-alpha-L-fucosyltran 31.8 1.5E+02 0.0033 23.7 5.5 63 15-81 141-225 (322)
31 PF11876 DUF3396: Protein of u 31.7 45 0.00097 24.4 2.4 40 28-67 23-64 (208)
32 cd06399 PB1_P40 The PB1 domain 30.6 63 0.0014 21.5 2.7 30 28-57 14-43 (92)
33 TIGR02529 EutJ ethanolamine ut 27.5 77 0.0017 23.1 3.0 42 30-72 33-74 (239)
34 cd01406 SIR2-like Sir2-like: P 27.4 1.3E+02 0.0028 21.6 4.2 36 19-60 1-36 (242)
35 PF05194 UreE_C: UreE urease a 27.0 1.1E+02 0.0025 18.9 3.4 26 20-51 26-51 (87)
36 COG4862 MecA Negative regulato 26.6 46 0.00099 25.4 1.7 27 40-67 37-63 (224)
37 PRK14189 bifunctional 5,10-met 26.1 2.6E+02 0.0057 21.6 5.9 56 16-83 31-88 (285)
38 PF07429 Glyco_transf_56: 4-al 25.5 2.2E+02 0.0047 23.2 5.4 43 15-57 180-244 (360)
39 TIGR03793 TOMM_pelo TOMM prope 24.6 1.4E+02 0.003 18.8 3.4 27 39-66 14-44 (77)
40 cd06080 MUM1_like Mutated mela 23.8 1.4E+02 0.003 19.0 3.4 41 17-57 28-75 (80)
41 PF04341 DUF485: Protein of un 23.6 61 0.0013 20.6 1.7 12 39-50 2-13 (91)
42 PRK14186 bifunctional 5,10-met 23.0 3.1E+02 0.0068 21.4 5.8 55 16-82 31-87 (297)
43 cd06536 CIDE_N_ICAD CIDE_N dom 22.2 1.5E+02 0.0032 19.1 3.3 38 26-68 10-47 (80)
44 cd03397 PAP2_acid_phosphatase 21.9 64 0.0014 23.7 1.7 19 37-55 213-231 (232)
45 PF03460 NIR_SIR_ferr: Nitrite 21.5 1.2E+02 0.0027 17.4 2.7 56 17-81 6-67 (69)
46 PF15387 DUF4611: Domain of un 21.5 63 0.0014 21.7 1.5 20 62-81 13-36 (96)
47 cd01783 DAGK_delta_RA Ubiquiti 21.4 2.1E+02 0.0045 19.0 4.0 43 18-60 2-45 (97)
48 cd04395 RhoGAP_ARHGAP21 RhoGAP 21.3 2.6E+02 0.0056 19.6 4.7 40 42-82 19-58 (196)
49 COG2139 RPL21A Ribosomal prote 21.3 78 0.0017 21.3 1.9 21 21-41 73-93 (98)
50 PRK07735 NADH dehydrogenase su 20.5 2.2E+02 0.0048 23.7 4.7 45 38-82 272-325 (430)
51 PRK14193 bifunctional 5,10-met 20.4 3.4E+02 0.0074 21.0 5.5 55 16-82 31-87 (284)
52 PF13421 Band_7_1: SPFH domain 20.3 1.7E+02 0.0036 21.4 3.6 40 14-58 17-63 (211)
53 PF07369 DUF1488: Protein of u 20.2 1.6E+02 0.0035 17.8 3.1 20 20-39 18-37 (83)
54 PF08948 DUF1859: Domain of un 20.2 39 0.00085 23.4 0.3 28 17-45 86-123 (126)
No 1
>PLN03090 auxin-responsive family protein; Provisional
Probab=100.00 E-value=5e-36 Score=201.40 Aligned_cols=70 Identities=41% Similarity=0.889 Sum_probs=67.2
Q ss_pred ccccCCCCCCeEEEEEcCCCeEEEEeccCCCcHHHHHHHHhHHHhhCCcCCCCcEEecccHHHHHHHHHHH
Q 044863 10 EAIRSRAPKGHFVVYVGTEMKRFVVPTSYLKNPIFQQLLDKAAEEYGFHNKQNKIILPCDESTFQRLSIIL 80 (84)
Q Consensus 10 ~~~~~~vpkG~~aVyVG~e~~RfvVp~~~L~hP~F~~LL~~aeeEfG~~~~~G~L~IPC~~~~Fe~vl~~l 80 (84)
+..+.+|||||||||||++++||+||++|||||.|++||++|||||||+|+ |+|+|||+++.|++++|+|
T Consensus 34 ~~~~~~vpkG~~aVyVG~~~~RfvVp~~~L~hP~F~~LL~~aeeEfGf~~~-G~L~IPC~~~~Fe~ll~~i 103 (104)
T PLN03090 34 DGLPLDVPKGHFPVYVGENRSRYIVPISFLTHPEFQSLLQQAEEEFGFDHD-MGLTIPCEEVVFRSLTSMI 103 (104)
T ss_pred ccCCCCCCCCcEEEEECCCCEEEEEEHHHcCCHHHHHHHHHHHHHhCCCCC-CcEEEeCCHHHHHHHHHHh
Confidence 346789999999999999999999999999999999999999999999998 9999999999999999998
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=8.5e-36 Score=197.96 Aligned_cols=68 Identities=51% Similarity=1.006 Sum_probs=65.7
Q ss_pred cCCCCCCeEEEEEcCCCeEEEEeccCCCcHHHHHHHHhHHHhhCCcCCCCcEEecccHHHHHHHHHHHh
Q 044863 13 RSRAPKGHFVVYVGTEMKRFVVPTSYLKNPIFQQLLDKAAEEYGFHNKQNKIILPCDESTFQRLSIILS 81 (84)
Q Consensus 13 ~~~vpkG~~aVyVG~e~~RfvVp~~~L~hP~F~~LL~~aeeEfG~~~~~G~L~IPC~~~~Fe~vl~~l~ 81 (84)
..++|+||||||||++++||+||++|||||+|++||++|||||||+++ |+|+|||+++.|++++|+|+
T Consensus 33 ~~~vp~G~~~VyVG~~~~Rfvvp~~~L~hp~f~~LL~~aeeEfG~~~~-G~l~iPC~~~~Fe~~l~~le 100 (100)
T PF02519_consen 33 ESDVPKGHFAVYVGEERRRFVVPVSYLNHPLFQELLEQAEEEFGFDQD-GPLTIPCDVVLFEHLLWLLE 100 (100)
T ss_pred cCCCCCCeEEEEeCccceEEEechHHcCchhHHHHHHHHhhhcCcCCC-CcEEeeCCHHHHHHHHHHhC
Confidence 478999999999999999999999999999999999999999999997 99999999999999999985
No 3
>PLN03220 uncharacterized protein; Provisional
Probab=100.00 E-value=7.8e-35 Score=195.87 Aligned_cols=70 Identities=43% Similarity=0.834 Sum_probs=64.7
Q ss_pred ccccCCCCCCeEEEEEcC----CCeEEEEeccCCCcHHHHHHHHhHHHhhCCcCCCCcEEecccHHHHHHHHHH
Q 044863 10 EAIRSRAPKGHFVVYVGT----EMKRFVVPTSYLKNPIFQQLLDKAAEEYGFHNKQNKIILPCDESTFQRLSII 79 (84)
Q Consensus 10 ~~~~~~vpkG~~aVyVG~----e~~RfvVp~~~L~hP~F~~LL~~aeeEfG~~~~~G~L~IPC~~~~Fe~vl~~ 79 (84)
...+.+|||||||||||+ +++||+||++|||||.|++||++|||||||+|++|+|+|||+++.|++++..
T Consensus 29 ~~~~~~VPkGh~aVyVGe~~~~e~kRFVVPv~yL~hP~F~~LL~~AeEEfGf~~~~G~L~IPCd~~~F~~ll~s 102 (105)
T PLN03220 29 SSSSDHVPKGHVAVYVGEQIEMEKKRFVVPISFLNHPSFKEFLSRAEEEFGFNHPMGGLTIPCREEVFLDLIAS 102 (105)
T ss_pred ccccCCCCCCeEEEEECCCCCccceEEEEEHHHcCChHHHHHHHHHHHHhCCCCCCCCEEeeCCHHHHHHHHHh
Confidence 346678999999999997 5899999999999999999999999999999855999999999999999864
No 4
>PLN03219 uncharacterized protein; Provisional
Probab=100.00 E-value=6.1e-34 Score=192.33 Aligned_cols=70 Identities=46% Similarity=0.869 Sum_probs=64.7
Q ss_pred cccCCCCCCeEEEEEcC--CCeEEEEeccCCCcHHHHHHHHhHHHhhCCcCCCCcEEecccHHHHHHHHHHH
Q 044863 11 AIRSRAPKGHFVVYVGT--EMKRFVVPTSYLKNPIFQQLLDKAAEEYGFHNKQNKIILPCDESTFQRLSIIL 80 (84)
Q Consensus 11 ~~~~~vpkG~~aVyVG~--e~~RfvVp~~~L~hP~F~~LL~~aeeEfG~~~~~G~L~IPC~~~~Fe~vl~~l 80 (84)
+.+.+|||||||||||+ +++||+||++|||||+|++||++|||||||++++|+|+|||+++.|+++++.-
T Consensus 34 ~~~~~vpkGh~aVYVG~~~E~kRFvVPi~yL~hP~F~~LL~~AeEEfGf~~~~G~L~IPCd~~~F~~ll~~~ 105 (108)
T PLN03219 34 TTSGLVPKGHVAVYVGEQMEKKRFVVPISYLNHPLFREFLNRAEEECGFHHSMGGLTIPCREESFLHLITSH 105 (108)
T ss_pred CCCCCCCCCeEEEEECCCCCceEEEEEHHHcCChHHHHHHHHHHHHhCCCCCCCCEEEeCCHHHHHHHHHhh
Confidence 44578999999999997 59999999999999999999999999999998569999999999999999864
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=92.27 E-value=0.19 Score=31.39 Aligned_cols=58 Identities=16% Similarity=0.175 Sum_probs=42.9
Q ss_pred EEEEcCCCeEEEEeccCCC-c--HHHHHHHHhHHHhhCCcCCCCcEEecccHHHHHHHHHHHhc
Q 044863 22 VVYVGTEMKRFVVPTSYLK-N--PIFQQLLDKAAEEYGFHNKQNKIILPCDESTFQRLSIILSK 82 (84)
Q Consensus 22 aVyVG~e~~RfvVp~~~L~-h--P~F~~LL~~aeeEfG~~~~~G~L~IPC~~~~Fe~vl~~l~~ 82 (84)
..-|| .++|.++.+-|. + ..|..+++.......-+. .|.+-|-++...|++||..+++
T Consensus 2 ~lNVG--G~~f~~~~~tL~~~~~s~l~~~~~~~~~~~~~~~-~~~~fiDRdp~~F~~IL~ylr~ 62 (94)
T PF02214_consen 2 RLNVG--GTIFETSRSTLTRYPDSLLARLFSGERSDDYDDD-DGEYFIDRDPELFEYILNYLRT 62 (94)
T ss_dssp EEEET--TEEEEEEHHHHHTSTTSTTTSHHHTGHGGGEETT-TTEEEESS-HHHHHHHHHHHHH
T ss_pred EEEEC--CEEEEEcHHHHhhCCCChhhhHHhhccccccCCc-cceEEeccChhhhhHHHHHHhh
Confidence 45688 599999998877 4 478888886522222223 3899999999999999998875
No 6
>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=85.88 E-value=4 Score=24.53 Aligned_cols=54 Identities=22% Similarity=0.391 Sum_probs=40.1
Q ss_pred EEcCCCeEEEEeccCCCcHHHHHHHHhHHHhhCCc----------CCCCcEEecccHHHHHHHHHHHhc
Q 044863 24 YVGTEMKRFVVPTSYLKNPIFQQLLDKAAEEYGFH----------NKQNKIILPCDESTFQRLSIILSK 82 (84)
Q Consensus 24 yVG~e~~RfvVp~~~L~hP~F~~LL~~aeeEfG~~----------~~~G~L~IPC~~~~Fe~vl~~l~~ 82 (84)
+-|++.+||.+|- ...|.+|..+..+-|+.. .++..++|.++ +.++.++.+...
T Consensus 7 ~~~~~~~~~~~~~----~~s~~dL~~~i~~~~~~~~~~~~l~Y~Dedgd~v~l~sd-~Dl~~a~~~~~~ 70 (81)
T smart00666 7 RYGGETRRLSVPR----DISFEDLRSKVAKRFGLDNQSFTLKYQDEDGDLVSLTSD-EDLEEAIEEYDS 70 (81)
T ss_pred EECCEEEEEEECC----CCCHHHHHHHHHHHhCCCCCCeEEEEECCCCCEEEecCH-HHHHHHHHHHHH
Confidence 3377899999985 778999999999999874 23236888887 466777766653
No 7
>PRK02899 adaptor protein; Provisional
Probab=85.84 E-value=0.73 Score=33.61 Aligned_cols=24 Identities=25% Similarity=0.634 Sum_probs=20.7
Q ss_pred HHHHHHHHhHHHhhCCcCCCCcEEe
Q 044863 42 PIFQQLLDKAAEEYGFHNKQNKIIL 66 (84)
Q Consensus 42 P~F~~LL~~aeeEfG~~~~~G~L~I 66 (84)
-+|.++|++|..|+||..+ |+|+|
T Consensus 39 ~lF~~mm~Ea~~e~~F~~~-~pl~~ 62 (197)
T PRK02899 39 QLFRDMMQEANKELGFEAD-GPIAV 62 (197)
T ss_pred HHHHHHHHHhhhccCcccC-CeEEE
Confidence 4677779999999999987 99876
No 8
>PRK02315 adaptor protein; Provisional
Probab=81.31 E-value=1.3 Score=33.00 Aligned_cols=25 Identities=20% Similarity=0.469 Sum_probs=22.1
Q ss_pred cHHHHHHHHhHHHhhCCcCCCCcEEe
Q 044863 41 NPIFQQLLDKAAEEYGFHNKQNKIIL 66 (84)
Q Consensus 41 hP~F~~LL~~aeeEfG~~~~~G~L~I 66 (84)
+-.|.++|++|..|+||..+ |+|+|
T Consensus 38 e~fF~~mm~Ea~~e~~F~~~-~pl~~ 62 (233)
T PRK02315 38 EEFFYSMMDEVDEEDDFADE-GPLWF 62 (233)
T ss_pred HHHHHHHHHHhccccCcccC-CeEEE
Confidence 35799999999999999986 99986
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=78.92 E-value=11 Score=22.36 Aligned_cols=55 Identities=25% Similarity=0.443 Sum_probs=40.1
Q ss_pred EEEcCCCeEEEEeccCCCcHHHHHHHHhHHHhhCCc----------CCCCcEEecccHHHHHHHHHHHh
Q 044863 23 VYVGTEMKRFVVPTSYLKNPIFQQLLDKAAEEYGFH----------NKQNKIILPCDESTFQRLSIILS 81 (84)
Q Consensus 23 VyVG~e~~RfvVp~~~L~hP~F~~LL~~aeeEfG~~----------~~~G~L~IPC~~~~Fe~vl~~l~ 81 (84)
++-+++.+||.+|. .++.|.+|..+..+-|++. .++-.++|.++ ..|+.++....
T Consensus 5 ~~~~~~~~~~~~~~---~~~s~~~L~~~i~~~~~~~~~~~~l~y~D~e~d~v~l~sd-~Dl~~a~~~~~ 69 (81)
T cd05992 5 VKYGGEIRRFVVVS---RSISFEDLRSKIAEKFGLDAVSFKLKYPDEDGDLVTISSD-EDLEEAIEEAR 69 (81)
T ss_pred EEecCCCEEEEEec---CCCCHHHHHHHHHHHhCCCCCcEEEEeeCCCCCEEEeCCH-HHHHHHHHHHh
Confidence 44455799999997 7888999999999988874 12124666665 57777777665
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=75.79 E-value=0.87 Score=33.02 Aligned_cols=25 Identities=32% Similarity=0.627 Sum_probs=0.0
Q ss_pred cHHHHHHHHhHHHhhCCcCCCCcEEe
Q 044863 41 NPIFQQLLDKAAEEYGFHNKQNKIIL 66 (84)
Q Consensus 41 hP~F~~LL~~aeeEfG~~~~~G~L~I 66 (84)
+-.|.++|++|.+|+||..+ |+|++
T Consensus 38 e~fF~~ileea~~e~~F~~~-~~l~~ 62 (220)
T PF05389_consen 38 EEFFYSILEEADEEHGFEND-GPLTF 62 (220)
T ss_dssp --------------------------
T ss_pred HHHHHHHHHHhccccCcccC-CeEEE
Confidence 46799999999999999986 99875
No 11
>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=63.96 E-value=20 Score=23.83 Aligned_cols=51 Identities=27% Similarity=0.292 Sum_probs=25.4
Q ss_pred cCCCeEEE-EeccC---CCcHHHHHHHHhHHHhhCCcCCCCcEEecccHHHHHHHHH
Q 044863 26 GTEMKRFV-VPTSY---LKNPIFQQLLDKAAEEYGFHNKQNKIILPCDESTFQRLSI 78 (84)
Q Consensus 26 G~e~~Rfv-Vp~~~---L~hP~F~~LL~~aeeEfG~~~~~G~L~IPC~~~~Fe~vl~ 78 (84)
|+++.=|+ +|-.. .+-..|.+|||.|||.+|.++ -.+.++=+-.....++.
T Consensus 21 ~~~~~L~V~ip~~~~~~~~K~~lvaLLElAee~L~c~~--vvic~~k~~~d~~~Llr 75 (108)
T PF02100_consen 21 GDERTLFVFIPSSALGQGSKESLVALLELAEEKLGCSH--VVICLDKNRPDRASLLR 75 (108)
T ss_dssp --TTEEEEE-SS---SS--SHHHHHHHHHHHHHH------EEEEE---SS-HHHHHH
T ss_pred ccCCEEEEEECCcccccccHHHHHHHHHHhcCcCCCCE--EEEEEECCchhHHHhhh
Confidence 34566666 45443 455789999999999999886 46777654444444443
No 12
>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=63.23 E-value=29 Score=22.33 Aligned_cols=55 Identities=13% Similarity=0.279 Sum_probs=39.2
Q ss_pred cCCCeEEEEeccCCCcHHHHHHHHhHHHhhCC--------cCCCCcEEecccHHHHHHHHHHHhcC
Q 044863 26 GTEMKRFVVPTSYLKNPIFQQLLDKAAEEYGF--------HNKQNKIILPCDESTFQRLSIILSKQ 83 (84)
Q Consensus 26 G~e~~RfvVp~~~L~hP~F~~LL~~aeeEfG~--------~~~~G~L~IPC~~~~Fe~vl~~l~~~ 83 (84)
|++..||.++-+ .++.|.+|..+-+.-|++ +.++-+++|.|+++ ++..+....++
T Consensus 8 ~~d~~rf~~~~~--~~~~~~~L~~ev~~rf~l~~f~lKYlDde~e~v~lssd~e-LeE~~rl~~~~ 70 (81)
T cd06396 8 NGESQSFLVSDS--ENTTWASVEAMVKVSFGLNDIQIKYVDEENEEVSVNSQGE-YEEALKSAVRQ 70 (81)
T ss_pred CCeEEEEEecCC--CCCCHHHHHHHHHHHhCCCcceeEEEcCCCCEEEEEchhh-HHHHHHHHHhC
Confidence 447899999841 245799999999998985 33335789999854 56666666554
No 13
>cd06410 PB1_UP2 Uncharacterized protein 2. The PB1 domain is a modular domain mediating specific protein-protein interaction which play a role in many critical cell processes such as osteoclastogenesis, angiogenesis, early cardiovascular development, and cell polarity. A canonical PB1-PB1 interaction, which involves heterodimerization of two PB1 domains, is required for the formation of macromolecular signaling complexes ensuring specificity and fidelity during cellular signaling. The interaction between two PB1 domain depends on the type of PB1. There are three types of PB1 domains: type I which contains an OPCA motif, acidic aminoacid cluster, type II which contains a basic cluster, and type I/II which contains both an OPCA motif and a basic cluster. Interactions of PB1 domains with other protein domains have been described as noncanonical PB1-interactions.
Probab=62.30 E-value=20 Score=23.49 Aligned_cols=53 Identities=26% Similarity=0.337 Sum_probs=36.4
Q ss_pred EEEEcCCCeEEEEeccCCCcHHHHHHHHhHHHhhCCcCC------------CCcEEecccHHHHHHHHHH
Q 044863 22 VVYVGTEMKRFVVPTSYLKNPIFQQLLDKAAEEYGFHNK------------QNKIILPCDESTFQRLSII 79 (84)
Q Consensus 22 aVyVG~e~~RfvVp~~~L~hP~F~~LL~~aeeEfG~~~~------------~G~L~IPC~~~~Fe~vl~~ 79 (84)
.=|||.+.+-..|+-+ -.|.+|..+..+.++.... ++-+.|.||.+ ..+++..
T Consensus 17 l~Y~GG~tr~i~V~r~----~s~~el~~kl~~~~~~~~~~~lky~Lp~edld~Lisv~~DeD-l~~M~~e 81 (97)
T cd06410 17 LRYVGGETRIVSVDRS----ISFKELVSKLSELFGAGVVVTLKYQLPDEDLDALISVSNDED-LKNMMEE 81 (97)
T ss_pred EEEcCCceEEEEEcCC----CCHHHHHHHHHHHhCCCCceEEEEEcCCCCcceeEEecCcHH-HHHHHHh
Confidence 3599998888889876 3677788888888876651 14567788853 3444433
No 14
>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=56.23 E-value=6.6 Score=21.72 Aligned_cols=19 Identities=26% Similarity=0.550 Sum_probs=15.2
Q ss_pred CCCcHHHHHHHHhHHHhhC
Q 044863 38 YLKNPIFQQLLDKAAEEYG 56 (84)
Q Consensus 38 ~L~hP~F~~LL~~aeeEfG 56 (84)
||+.-.|++++.++.+||.
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 7889999999999999884
No 15
>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=55.82 E-value=53 Score=21.18 Aligned_cols=54 Identities=17% Similarity=0.274 Sum_probs=37.2
Q ss_pred EcCCCeEEEEeccC-CCcHHHHHHHHhHHHhhCCcC-----------CCCcEEecccHHHHHHHHH
Q 044863 25 VGTEMKRFVVPTSY-LKNPIFQQLLDKAAEEYGFHN-----------KQNKIILPCDESTFQRLSI 78 (84)
Q Consensus 25 VG~e~~RfvVp~~~-L~hP~F~~LL~~aeeEfG~~~-----------~~G~L~IPC~~~~Fe~vl~ 78 (84)
-|++.+||-+|.+- -.+.-|..|.++-++-|.... ++.-++|.|+.+.-+.+-.
T Consensus 7 y~~~~rRf~l~~~~~~~d~~~~~L~~kI~~~f~l~~~~~~~l~Y~Dedgd~V~l~~D~DL~~a~~~ 72 (91)
T cd06398 7 YGGTLRRFTFPVAENQLDLNMDGLREKVEELFSLSPDADLSLTYTDEDGDVVTLVDDNDLTDAIQY 72 (91)
T ss_pred eCCEEEEEEeccccccCCCCHHHHHHHHHHHhCCCCCCcEEEEEECCCCCEEEEccHHHHHHHHHH
Confidence 37789999999640 114578888888888887753 2235889999766555443
No 16
>smart00153 VHP Villin headpiece domain.
Probab=54.71 E-value=8.1 Score=21.28 Aligned_cols=19 Identities=26% Similarity=0.544 Sum_probs=16.9
Q ss_pred CCCcHHHHHHHHhHHHhhC
Q 044863 38 YLKNPIFQQLLDKAAEEYG 56 (84)
Q Consensus 38 ~L~hP~F~~LL~~aeeEfG 56 (84)
||+.-.|+.++.++.+||-
T Consensus 1 yLsdeeF~~vfgmsr~eF~ 19 (36)
T smart00153 1 YLSDEDFEEVFGMTREEFY 19 (36)
T ss_pred CCCHHHHHHHHCCCHHHHH
Confidence 7889999999999999884
No 17
>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=50.16 E-value=20 Score=28.47 Aligned_cols=51 Identities=22% Similarity=0.429 Sum_probs=38.1
Q ss_pred CCeEEEEeccCC--CcHHHHHHHHh---HHHhhCCcCCCCcEEecccHHHHHHHHHHHhc
Q 044863 28 EMKRFVVPTSYL--KNPIFQQLLDK---AAEEYGFHNKQNKIILPCDESTFQRLSIILSK 82 (84)
Q Consensus 28 e~~RfvVp~~~L--~hP~F~~LL~~---aeeEfG~~~~~G~L~IPC~~~~Fe~vl~~l~~ 82 (84)
..+=|.-|...| +..-|++.|.. ..++.. + =.|.+-||+..|++++..+++
T Consensus 12 ~~rdF~C~~~lL~~~M~YF~~~l~~~~~~~~~~~---~-idisVhCDv~iF~WLm~yv~~ 67 (317)
T PF11822_consen 12 EKRDFTCPRDLLVSEMRYFAEYLSRYINDSQRWE---E-IDISVHCDVHIFEWLMRYVKG 67 (317)
T ss_pred cceeeeccHHHHHHhhHHHHHHHhhcccccCcCC---C-cceEEecChhHHHHHHHHhhc
Confidence 467788888877 45779999966 444432 1 348889999999999988764
No 18
>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=49.92 E-value=14 Score=23.00 Aligned_cols=24 Identities=33% Similarity=0.578 Sum_probs=19.8
Q ss_pred CeEEEEeccCCCcHHHHHHHHhHHHhhCCc
Q 044863 29 MKRFVVPTSYLKNPIFQQLLDKAAEEYGFH 58 (84)
Q Consensus 29 ~~RfvVp~~~L~hP~F~~LL~~aeeEfG~~ 58 (84)
.+=..+| -.+++||+.|++.||+.
T Consensus 19 GKvi~lP------~SleeLl~ia~~kfg~~ 42 (69)
T PF11834_consen 19 GKVIWLP------DSLEELLKIASEKFGFS 42 (69)
T ss_pred CEEEEcC------ccHHHHHHHHHHHhCCC
Confidence 4556666 47999999999999985
No 19
>PF08861 DUF1828: Domain of unknown function DUF1828; InterPro: IPR014960 These proteins are functionally uncharacterised.
Probab=48.11 E-value=67 Score=20.06 Aligned_cols=40 Identities=13% Similarity=0.294 Sum_probs=34.6
Q ss_pred cHHHHHHHHhHHHhhCCcCCCCcEEecccHHHHHHHHHHH
Q 044863 41 NPIFQQLLDKAAEEYGFHNKQNKIILPCDESTFQRLSIIL 80 (84)
Q Consensus 41 hP~F~~LL~~aeeEfG~~~~~G~L~IPC~~~~Fe~vl~~l 80 (84)
.+.=+++|+..-..||+.-++|.|.+.++.+.|-.....+
T Consensus 44 s~~R~~~l~~il~~~gv~~~~~el~~~~~~~~~~~~~~~l 83 (90)
T PF08861_consen 44 SKKRKKILNSILNGFGVELDEGELFIKTSEENFPQAKHRL 83 (90)
T ss_pred chHHHHHHHHHHHHcCccccCCEEEEEeCHHHHHHHHHHH
Confidence 6777899999999999998889999999999987776554
No 20
>PRK10308 3-methyl-adenine DNA glycosylase II; Provisional
Probab=46.93 E-value=96 Score=23.61 Aligned_cols=64 Identities=14% Similarity=0.179 Sum_probs=42.7
Q ss_pred CCeEEEEEcCCCeEEEEeccCCCcHHHHHHHHhHHHhhCCcCC--------------CCcEEecccHHHHHHHHHHHh
Q 044863 18 KGHFVVYVGTEMKRFVVPTSYLKNPIFQQLLDKAAEEYGFHNK--------------QNKIILPCDESTFQRLSIILS 81 (84)
Q Consensus 18 kG~~aVyVG~e~~RfvVp~~~L~hP~F~~LL~~aeeEfG~~~~--------------~G~L~IPC~~~~Fe~vl~~l~ 81 (84)
.|++.|.-.....++.+.++.-.-+....++.....-||.+.+ .-+|++|...+.||.+++.|-
T Consensus 45 ~~~~~v~~~~~~~~l~~~~~~~~~~~~~~~~~~vrr~fdLd~d~~~i~~~L~~~~~~~~GlR~p~~~d~fE~lv~aIi 122 (283)
T PRK10308 45 RGVVTVIPDIARHTLHINLSAGLEPVAAECLAKMSRLFDLQCNPQIVNGALGKLGAARPGLRLPGSVDAFEQGVRAIL 122 (283)
T ss_pred cEEEEEEEcCCCceEEEEEcCCccccHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHhCCCCcCCCCCCHHHHHHHHHH
Confidence 4666666544555566655553334555677777777777654 246899999999999988763
No 21
>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=46.04 E-value=50 Score=20.81 Aligned_cols=47 Identities=26% Similarity=0.446 Sum_probs=33.8
Q ss_pred EEcCCCeEEEEeccCCCcHHHHHHHHhHHHhhCCcC-----------CCCcEEecccHHHHH
Q 044863 24 YVGTEMKRFVVPTSYLKNPIFQQLLDKAAEEYGFHN-----------KQNKIILPCDESTFQ 74 (84)
Q Consensus 24 yVG~e~~RfvVp~~~L~hP~F~~LL~~aeeEfG~~~-----------~~G~L~IPC~~~~Fe 74 (84)
..|++..||.+|.. .-|++|.++-.+-|+++. ++..++|.|+.+.=+
T Consensus 6 ~~~~d~~r~~l~~~----~~~~~L~~~i~~r~~~~~~~~f~LkY~Ddegd~v~ltsd~DL~e 63 (82)
T cd06407 6 TYGEEKIRFRLPPS----WGFTELKQEIAKRFKLDDMSAFDLKYLDDDEEWVLLTCDADLEE 63 (82)
T ss_pred EeCCeEEEEEcCCC----CCHHHHHHHHHHHhCCCCCCeeEEEEECCCCCeEEeecHHHHHH
Confidence 34667999999864 368999999988888753 224578889866544
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=43.04 E-value=3.6 Score=27.19 Aligned_cols=12 Identities=42% Similarity=0.852 Sum_probs=8.5
Q ss_pred cCCCcHHHHHHH
Q 044863 37 SYLKNPIFQQLL 48 (84)
Q Consensus 37 ~~L~hP~F~~LL 48 (84)
.|||||.|.-|-
T Consensus 4 ~YLNHPtFGlLy 15 (88)
T PF12058_consen 4 TYLNHPTFGLLY 15 (88)
T ss_dssp -EEEETTTEEEE
T ss_pred ccccCCccchhe
Confidence 589999886553
No 23
>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=40.29 E-value=83 Score=18.93 Aligned_cols=53 Identities=26% Similarity=0.522 Sum_probs=37.0
Q ss_pred EEEEcCCCeEEEEeccCC--CcHHHHHHHHhHHHhhCCcCCCC--cEEec-ccHHHHHHHHHHH
Q 044863 22 VVYVGTEMKRFVVPTSYL--KNPIFQQLLDKAAEEYGFHNKQN--KIILP-CDESTFQRLSIIL 80 (84)
Q Consensus 22 aVyVG~e~~RfvVp~~~L--~hP~F~~LL~~aeeEfG~~~~~G--~L~IP-C~~~~Fe~vl~~l 80 (84)
.+.||+ .++|-+.-..| ..|.|+.+++.. +.... + .+.++ |+...|+.++..+
T Consensus 14 ~i~v~d-~~~~~vhk~iL~~~S~~F~~~~~~~----~~~~~-~~~~i~~~~~~~~~~~~~l~~~ 71 (111)
T PF00651_consen 14 TIRVGD-GKTFYVHKNILAARSPYFRNLFEGS----KFKES-TVPEISLPDVSPEAFEAFLEYM 71 (111)
T ss_dssp EEEETT-TEEEEE-HHHHHHHBHHHHHHHTTT----TSTTS-SEEEEEETTSCHHHHHHHHHHH
T ss_pred EEEECC-CEEEeechhhhhccchhhhhccccc----ccccc-cccccccccccccccccccccc
Confidence 455664 78888887776 569999999988 21222 3 35555 8899999998865
No 24
>PF14317 YcxB: YcxB-like protein
Probab=38.63 E-value=68 Score=17.40 Aligned_cols=32 Identities=19% Similarity=0.467 Sum_probs=23.6
Q ss_pred CCCeEEEEEcCCCeEEEEeccCCCcHHHHHHHH
Q 044863 17 PKGHFVVYVGTEMKRFVVPTSYLKNPIFQQLLD 49 (84)
Q Consensus 17 pkG~~aVyVG~e~~RfvVp~~~L~hP~F~~LL~ 49 (84)
-+.++-+|+++ ..-++||.+.++.-...++.+
T Consensus 28 ~~~~~~l~~~~-~~~~~iPk~~f~~~e~~~f~~ 59 (62)
T PF14317_consen 28 TKDYFYLYLGK-NQAFIIPKRAFSEEEKEEFRE 59 (62)
T ss_pred eCCEEEEEECC-CeEEEEEHHHCCHhHHHHHHH
Confidence 45678888985 699999999998555555443
No 25
>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=35.95 E-value=42 Score=21.56 Aligned_cols=20 Identities=25% Similarity=0.308 Sum_probs=18.2
Q ss_pred CcEEecccHHHHHHHHHHHh
Q 044863 62 NKIILPCDESTFQRLSIILS 81 (84)
Q Consensus 62 G~L~IPC~~~~Fe~vl~~l~ 81 (84)
..+.+-|+++.|++++..|+
T Consensus 65 ~~i~f~c~~e~L~~Li~~Lk 84 (95)
T cd04751 65 PDINFTCTLEQLQDLVNKLK 84 (95)
T ss_pred ceEEEEeCHHHHHHHHHHHH
Confidence 47999999999999999886
No 26
>KOG1290 consensus Serine/threonine protein kinase [Signal transduction mechanisms]
Probab=34.47 E-value=25 Score=30.08 Aligned_cols=22 Identities=23% Similarity=0.267 Sum_probs=17.1
Q ss_pred CCCCCCeEEEEEcC--CCeEEEEe
Q 044863 14 SRAPKGHFVVYVGT--EMKRFVVP 35 (84)
Q Consensus 14 ~~vpkG~~aVyVG~--e~~RfvVp 35 (84)
.=.+-||.||++|+ ...||+|-
T Consensus 60 dY~kGGYHpV~IGD~F~~gRY~v~ 83 (590)
T KOG1290|consen 60 DYRKGGYHPVRIGDVFNGGRYHVQ 83 (590)
T ss_pred hhhcCCCceeeccccccCceEEEE
Confidence 34688999999998 34688774
No 27
>COG1759 5-formaminoimidazole-4-carboxamide-1-beta-D-ribofuranosyl 5'-monophosphate synthetase (purine biosynthesis) [Nucleotide transport and metabolism]
Probab=33.70 E-value=20 Score=29.07 Aligned_cols=36 Identities=39% Similarity=0.622 Sum_probs=23.3
Q ss_pred CCCCCeEEEEEcCC--CeEEEEec---------cCCCcHHHHHHHHhH
Q 044863 15 RAPKGHFVVYVGTE--MKRFVVPT---------SYLKNPIFQQLLDKA 51 (84)
Q Consensus 15 ~vpkG~~aVyVG~e--~~RfvVp~---------~~L~hP~F~~LL~~a 51 (84)
-+|.|.|++|||-+ -+.|.||+ +- ..-.-..||++|
T Consensus 89 ~IP~gSfv~Y~G~d~ie~~~~vP~fGnR~lLrwE~-~~~~~~~lLekA 135 (361)
T COG1759 89 FIPHGSFVAYVGYDGIENEFEVPMFGNRELLRWEE-DRKLEYKLLEKA 135 (361)
T ss_pred EecCCceEEEecchhhhhcccCcccccHhHhhhhc-chhhHHHHHHHc
Confidence 47999999999954 34566663 21 222345677777
No 28
>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=32.90 E-value=1.1e+02 Score=18.06 Aligned_cols=54 Identities=19% Similarity=0.382 Sum_probs=35.7
Q ss_pred EEcCCCeE-EEEeccCCCcHHHHHHHHhHHHhhCCc----------CCCCcEEecccHHHHHHHHHHHhc
Q 044863 24 YVGTEMKR-FVVPTSYLKNPIFQQLLDKAAEEYGFH----------NKQNKIILPCDESTFQRLSIILSK 82 (84)
Q Consensus 24 yVG~e~~R-fvVp~~~L~hP~F~~LL~~aeeEfG~~----------~~~G~L~IPC~~~~Fe~vl~~l~~ 82 (84)
+-+++.+| +.++ +.+.|.+|.++.++.||.. .++-.++|.++ ..|+.++...++
T Consensus 7 ~~~~~~~~~~~~~----~~~s~~~L~~~i~~~~~~~~~~~~l~Y~D~dgD~V~i~sd-~Dl~~a~~~~~~ 71 (84)
T PF00564_consen 7 RYGGDIRRIISLP----SDVSFDDLRSKIREKFGLLDEDFQLKYKDEDGDLVTISSD-EDLQEAIEQAKE 71 (84)
T ss_dssp EETTEEEEEEEEC----STSHHHHHHHHHHHHHTTSTSSEEEEEEETTSSEEEESSH-HHHHHHHHHHHH
T ss_pred EECCeeEEEEEcC----CCCCHHHHHHHHHHHhCCCCccEEEEeeCCCCCEEEeCCH-HHHHHHHHHHHh
Confidence 34445555 4444 5679999999999999983 23124777776 556666666543
No 29
>PLN02752 [acyl-carrier protein] S-malonyltransferase
Probab=32.66 E-value=47 Score=25.24 Aligned_cols=41 Identities=20% Similarity=0.293 Sum_probs=26.5
Q ss_pred CCeEEEEEcCCCeEEEEeccCCCcHHHHHHHHhHHHhhCCc
Q 044863 18 KGHFVVYVGTEMKRFVVPTSYLKNPIFQQLLDKAAEEYGFH 58 (84)
Q Consensus 18 kG~~aVyVG~e~~RfvVp~~~L~hP~F~~LL~~aeeEfG~~ 58 (84)
.-.+.++-|....+.-.-..|.++|.|+++++++++-.|++
T Consensus 38 ~~~a~lFpGQGsq~~gm~~~~~~~p~~~~~~~~~~~~lg~~ 78 (343)
T PLN02752 38 PTTAFLFPGQGAQAVGMGKEAAEVPAAKALFDKASEILGYD 78 (343)
T ss_pred CCEEEEECCCCcchhhHHHHHHhCHHHHHHHHHHHHHhCCC
Confidence 33444555653332222223778999999999999888865
No 30
>PRK02797 4-alpha-L-fucosyltransferase; Provisional
Probab=31.80 E-value=1.5e+02 Score=23.69 Aligned_cols=63 Identities=16% Similarity=0.381 Sum_probs=41.1
Q ss_pred CCCCCeEEEEEcC--------------------CCeEEEEeccC--CCcHHHHHHHHhHHHhhCCcCCCCcEEecccHHH
Q 044863 15 RAPKGHFVVYVGT--------------------EMKRFVVPTSY--LKNPIFQQLLDKAAEEYGFHNKQNKIILPCDEST 72 (84)
Q Consensus 15 ~vpkG~~aVyVG~--------------------e~~RfvVp~~~--L~hP~F~~LL~~aeeEfG~~~~~G~L~IPC~~~~ 72 (84)
..+++.+.+.||. +.-|+.+|++| =|.--.++..+.+.+-||-+ -+++==+---
T Consensus 141 ~~~~~~~tIlvGNSgd~SN~Hie~L~~l~~~~~~~v~ii~PlsYp~gn~~Yi~~V~~~~~~lF~~~----~~~~L~e~l~ 216 (322)
T PRK02797 141 RQRAGKMTILVGNSGDRSNRHIEALRALHQQFGDNVKIIVPMGYPANNQAYIEEVRQAGLALFGAE----NFQILTEKLP 216 (322)
T ss_pred ccCCCceEEEEeCCCCCcccHHHHHHHHHHHhCCCeEEEEECCcCCCCHHHHHHHHHHHHHhcCcc----cEEehhhhCC
Confidence 4577789999984 35599999999 56666677777777778733 2444334444
Q ss_pred HHHHHHHHh
Q 044863 73 FQRLSIILS 81 (84)
Q Consensus 73 Fe~vl~~l~ 81 (84)
|+.-+..|+
T Consensus 217 f~eYl~lL~ 225 (322)
T PRK02797 217 FDDYLALLR 225 (322)
T ss_pred HHHHHHHHH
Confidence 555444443
No 31
>PF11876 DUF3396: Protein of unknown function (DUF3396); InterPro: IPR021815 This family of proteins are functionally uncharacterised. This protein is found in bacteria and viruses. Proteins in this family are typically between 302 to 382 amino acids in length.
Probab=31.66 E-value=45 Score=24.42 Aligned_cols=40 Identities=18% Similarity=0.248 Sum_probs=30.5
Q ss_pred CCeEEEEeccCCCc--HHHHHHHHhHHHhhCCcCCCCcEEec
Q 044863 28 EMKRFVVPTSYLKN--PIFQQLLDKAAEEYGFHNKQNKIILP 67 (84)
Q Consensus 28 e~~RfvVp~~~L~h--P~F~~LL~~aeeEfG~~~~~G~L~IP 67 (84)
+.-+|.+|++||.. -.|++|+....+.+...|..+++.+-
T Consensus 23 s~l~f~~P~~~l~~~~~~~~~l~~~~a~~L~~~~G~aGl~~~ 64 (208)
T PF11876_consen 23 SYLSFSLPLEWLEEGPGHFRALFLELAERLPPSHGYAGLAFN 64 (208)
T ss_pred cEEEEEeCHHHHhcCcHHHHHHHHHHHHHCCCCeEeeEEEEe
Confidence 45689999999976 35999999999987776654555554
No 32
>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=30.57 E-value=63 Score=21.51 Aligned_cols=30 Identities=17% Similarity=0.401 Sum_probs=25.4
Q ss_pred CCeEEEEeccCCCcHHHHHHHHhHHHhhCC
Q 044863 28 EMKRFVVPTSYLKNPIFQQLLDKAAEEYGF 57 (84)
Q Consensus 28 e~~RfvVp~~~L~hP~F~~LL~~aeeEfG~ 57 (84)
..+-..|.-+.-..|.|++||.....+|+-
T Consensus 14 ~~rdi~vee~l~~~P~~kdLl~lmr~~f~~ 43 (92)
T cd06399 14 TIRDIAVEEDLSSTPLLKDLLELTRREFQR 43 (92)
T ss_pred cccceEeecccccCccHHHHHHHHHHHhch
Confidence 456677778888999999999999999974
No 33
>TIGR02529 EutJ ethanolamine utilization protein EutJ family protein.
Probab=27.52 E-value=77 Score=23.15 Aligned_cols=42 Identities=17% Similarity=0.161 Sum_probs=28.0
Q ss_pred eEEEEeccCCCcHHHHHHHHhHHHhhCCcCCCCcEEecccHHH
Q 044863 30 KRFVVPTSYLKNPIFQQLLDKAAEEYGFHNKQNKIILPCDEST 72 (84)
Q Consensus 30 ~RfvVp~~~L~hP~F~~LL~~aeeEfG~~~~~G~L~IPC~~~~ 72 (84)
.+.++-.+-.. -.++.|++++++-.|....+-.+++|++...
T Consensus 33 ~g~I~d~~~~~-~~l~~l~~~a~~~~g~~~~~vvisVP~~~~~ 74 (239)
T TIGR02529 33 DGIVVDFLGAV-EIVRRLKDTLEQKLGIELTHAATAIPPGTIE 74 (239)
T ss_pred CCeEEEhHHHH-HHHHHHHHHHHHHhCCCcCcEEEEECCCCCc
Confidence 34444433332 4788888888888888665567999986543
No 34
>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=27.42 E-value=1.3e+02 Score=21.57 Aligned_cols=36 Identities=31% Similarity=0.504 Sum_probs=27.2
Q ss_pred CeEEEEEcCCCeEEEEeccCCCcHHHHHHHHhHHHhhCCcCC
Q 044863 19 GHFVVYVGTEMKRFVVPTSYLKNPIFQQLLDKAAEEYGFHNK 60 (84)
Q Consensus 19 G~~aVyVG~e~~RfvVp~~~L~hP~F~~LL~~aeeEfG~~~~ 60 (84)
|.+++++|..-.+= .+-|...+|++...+++|.+.+
T Consensus 1 g~lvlFiGAG~S~~------~glP~W~~Ll~~l~~~~~~~~~ 36 (242)
T cd01406 1 GRVVIFVGAGVSVS------SGLPDWKTLLDEIASELGLEID 36 (242)
T ss_pred CCEEEEecCccccc------cCCCChHHHHHHHHHHcCCccc
Confidence 67889998622111 4789999999999999987653
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=26.96 E-value=1.1e+02 Score=18.94 Aligned_cols=26 Identities=23% Similarity=0.630 Sum_probs=16.7
Q ss_pred eEEEEEcCCCeEEEEeccCCCcHHHHHHHHhH
Q 044863 20 HFVVYVGTEMKRFVVPTSYLKNPIFQQLLDKA 51 (84)
Q Consensus 20 ~~aVyVG~e~~RfvVp~~~L~hP~F~~LL~~a 51 (84)
|+|++++++ +..|| ..+.+.+||++-
T Consensus 26 H~p~~i~~~--~l~v~----~d~~l~~~L~~l 51 (87)
T PF05194_consen 26 HWPLFIEED--ELYVP----YDHVLEELLRKL 51 (87)
T ss_dssp T--EEEETT--EEEEE------HHHHHHHHHT
T ss_pred ccceEEcCC--EEEec----CcHHHHHHHHHC
Confidence 678999864 78888 567777788763
No 36
>COG4862 MecA Negative regulator of genetic competence, sporulation and motility [Posttranslational modification, protein turnover, chaperones / Signal transduction mechanisms / Cell motility and secretion]
Probab=26.65 E-value=46 Score=25.39 Aligned_cols=27 Identities=15% Similarity=0.407 Sum_probs=23.5
Q ss_pred CcHHHHHHHHhHHHhhCCcCCCCcEEec
Q 044863 40 KNPIFQQLLDKAAEEYGFHNKQNKIILP 67 (84)
Q Consensus 40 ~hP~F~~LL~~aeeEfG~~~~~G~L~IP 67 (84)
.|-.|.++++.+..|-+|... |+|.|-
T Consensus 37 ~EE~F~~mMdEl~~ee~F~~~-GpL~iq 63 (224)
T COG4862 37 TEELFYEMMDELNLEEDFKDE-GPLWIQ 63 (224)
T ss_pred HHHHHHHHHHhcCCccccccC-CceEEE
Confidence 367899999999999999887 999874
No 37
>PRK14189 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional
Probab=26.10 E-value=2.6e+02 Score=21.61 Aligned_cols=56 Identities=25% Similarity=0.309 Sum_probs=42.4
Q ss_pred CCCCeEEEEEcCCCeEEEEeccCCCcHHHHHHHHhHHHhhCCcCCCCcEEec--ccHHHHHHHHHHHhcC
Q 044863 16 APKGHFVVYVGTEMKRFVVPTSYLKNPIFQQLLDKAAEEYGFHNKQNKIILP--CDESTFQRLSIILSKQ 83 (84)
Q Consensus 16 vpkG~~aVyVG~e~~RfvVp~~~L~hP~F~~LL~~aeeEfG~~~~~G~L~IP--C~~~~Fe~vl~~l~~~ 83 (84)
.+.+...+.||++. ..-....--.++.++.|+... .+.+| ++.+.|...+..+++.
T Consensus 31 ~~p~Laii~vg~d~----------as~~Yv~~k~k~~~~~Gi~~~--~~~l~~~~~~~~l~~~I~~lN~d 88 (285)
T PRK14189 31 HQPGLAVILVGDNP----------ASQVYVRNKVKACEDNGFHSL--KDRYPADLSEAELLARIDELNRD 88 (285)
T ss_pred CCCeEEEEEeCCCc----------hHHHHHHHHHHHHHHcCCEEE--EEECCCCCCHHHHHHHHHHHcCC
Confidence 34477888899733 234566777888999999875 68888 8899999999888653
No 38
>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=25.47 E-value=2.2e+02 Score=23.18 Aligned_cols=43 Identities=28% Similarity=0.546 Sum_probs=33.7
Q ss_pred CCCCCeEEEEEcC--------------------CCeEEEEeccCC--CcHHHHHHHHhHHHhhCC
Q 044863 15 RAPKGHFVVYVGT--------------------EMKRFVVPTSYL--KNPIFQQLLDKAAEEYGF 57 (84)
Q Consensus 15 ~vpkG~~aVyVG~--------------------e~~RfvVp~~~L--~hP~F~~LL~~aeeEfG~ 57 (84)
..+++-..+.||. +..|++||++|= |.--.+++.+.+.+-||-
T Consensus 180 ~~~~~~ltILvGNSgd~sNnHieaL~~L~~~~~~~~kIivPLsYg~~n~~Yi~~V~~~~~~lF~~ 244 (360)
T PF07429_consen 180 KKNKGKLTILVGNSGDPSNNHIEALEALKQQFGDDVKIIVPLSYGANNQAYIQQVIQAGKELFGA 244 (360)
T ss_pred cCCCCceEEEEcCCCCCCccHHHHHHHHHHhcCCCeEEEEECCCCCchHHHHHHHHHHHHHhcCc
Confidence 3467888999984 468999999996 456788888888888884
No 39
>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=24.61 E-value=1.4e+02 Score=18.83 Aligned_cols=27 Identities=22% Similarity=0.338 Sum_probs=17.5
Q ss_pred CCcHHHHHHH-H---hHHHhhCCcCCCCcEEe
Q 044863 39 LKNPIFQQLL-D---KAAEEYGFHNKQNKIIL 66 (84)
Q Consensus 39 L~hP~F~~LL-~---~aeeEfG~~~~~G~L~I 66 (84)
-..|.|+..| + .+=+||||... ..+.|
T Consensus 14 w~Dp~Fr~~Ll~DPraaL~e~G~~~P-~~~~i 44 (77)
T TIGR03793 14 WEDEAFKQALLTNPKEALEREGVQVP-AEVEV 44 (77)
T ss_pred HcCHHHHHHHHHCHHHHHHHhCCCCC-CceEE
Confidence 3568999855 4 44468899876 44443
No 40
>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=23.78 E-value=1.4e+02 Score=18.97 Aligned_cols=41 Identities=29% Similarity=0.331 Sum_probs=32.4
Q ss_pred CCCeEEEEEcCC----CeEEEEeccCCCcHHH---HHHHHhHHHhhCC
Q 044863 17 PKGHFVVYVGTE----MKRFVVPTSYLKNPIF---QQLLDKAAEEYGF 57 (84)
Q Consensus 17 pkG~~aVyVG~e----~~RfvVp~~~L~hP~F---~~LL~~aeeEfG~ 57 (84)
++-+.+.+.|+. ..++-+..-|+.|+.+ +.|+++|.|.|.-
T Consensus 28 ~~k~~V~FfG~~~~~a~~~~~~l~p~~~~~~~~ek~~~~~k~ke~~~~ 75 (80)
T cd06080 28 KQKARVNFIGDNMQSEKKGIRVVKRWLKHFDCTEKQKLTNKAKESYEQ 75 (80)
T ss_pred CCEEEEEEeCCCCceeccchhhcccccccHHHHHHHHHHHHHHHHHHH
Confidence 555667778873 4677778889999999 5899999998864
No 41
>PF04341 DUF485: Protein of unknown function, DUF485; InterPro: IPR007436 This family includes several putative integral membrane proteins.
Probab=23.62 E-value=61 Score=20.56 Aligned_cols=12 Identities=42% Similarity=0.891 Sum_probs=10.2
Q ss_pred CCcHHHHHHHHh
Q 044863 39 LKNPIFQQLLDK 50 (84)
Q Consensus 39 L~hP~F~~LL~~ 50 (84)
++||.|++|.++
T Consensus 2 ~~~p~f~~L~r~ 13 (91)
T PF04341_consen 2 LRSPEFQELVRR 13 (91)
T ss_pred CCCHHHHHHHHH
Confidence 589999999875
No 42
>PRK14186 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional
Probab=22.97 E-value=3.1e+02 Score=21.36 Aligned_cols=55 Identities=22% Similarity=0.334 Sum_probs=40.7
Q ss_pred CCCCeEEEEEcCCCeEEEEeccCCCcHHHHHHHHhHHHhhCCcCCCCcEEec--ccHHHHHHHHHHHhc
Q 044863 16 APKGHFVVYVGTEMKRFVVPTSYLKNPIFQQLLDKAAEEYGFHNKQNKIILP--CDESTFQRLSIILSK 82 (84)
Q Consensus 16 vpkG~~aVyVG~e~~RfvVp~~~L~hP~F~~LL~~aeeEfG~~~~~G~L~IP--C~~~~Fe~vl~~l~~ 82 (84)
.+.+...+.||++. ..-....--.++.+++|+... .+.+| ++.+.|...+..++.
T Consensus 31 ~~p~LaiI~vgdd~----------as~~Yv~~k~k~a~~~Gi~~~--~~~l~~~~~~~el~~~I~~lN~ 87 (297)
T PRK14186 31 RPPGLAVLRVGDDP----------ASAVYVRNKEKACARVGIASF--GKHLPADTSQAEVEALIAQLNQ 87 (297)
T ss_pred CCceEEEEEeCCCh----------HHHHHHHHHHHHHHHcCCEEE--EEECCCCCCHHHHHHHHHHHhC
Confidence 34477888899632 234556677788999999875 57776 888889999988864
No 43
>cd06536 CIDE_N_ICAD CIDE_N domain of ICAD. The CIDE_N (cell death-inducing DFF45-like effector, N-terminal) domain is found at the N-terminus of the CAD nuclease (caspase-activated DNase/DNA fragmentation factor, DFF40) and its inhibitor, ICAD (DFF45). These proteins are associated with the chromatin condensation and DNA fragmentation events of apoptosis; the CIDE_N domain is thought to regulate the activity of the CAD/DFF40 and ICAD/DFF45 during apoptosis. In normal cells, DFF exists in the nucleus as a heterodimer composed of CAD/DFF40 as a latent nuclease and its chaperone and inhibitor subunit ICAD/DFF45. Apoptotic activation of caspase-3 results in the cleavage of DFF45/ICAD and release of active DFF40/CAD nuclease.
Probab=22.21 E-value=1.5e+02 Score=19.07 Aligned_cols=38 Identities=29% Similarity=0.311 Sum_probs=25.8
Q ss_pred cCCCeEEEEeccCCCcHHHHHHHHhHHHhhCCcCCCCcEEecc
Q 044863 26 GTEMKRFVVPTSYLKNPIFQQLLDKAAEEYGFHNKQNKIILPC 68 (84)
Q Consensus 26 G~e~~RfvVp~~~L~hP~F~~LL~~aeeEfG~~~~~G~L~IPC 68 (84)
.+..+||=|-++ .+++|+.++.+-|......++++|=+
T Consensus 10 ~~r~~k~GV~A~-----sL~eL~~K~~~~l~l~~~~~~~~lvL 47 (80)
T cd06536 10 VSRQKQHGVAAS-----SLEELRIKACESLGFDSSSAPITLVL 47 (80)
T ss_pred CCCCeeEeEEcC-----CHHHHHHHHHHHhCCCCCCCceEEEE
Confidence 345566666654 46899999999999974423555544
No 44
>cd03397 PAP2_acid_phosphatase PAP2, bacterial acid phosphatase or class A non-specific acid phosphatases. These enzymes catalyze phosphomonoester hydrolysis, with optimal activity in low pH conditions. They are secreted into the periplasmic space, and their physiological role remains to be determined.
Probab=21.90 E-value=64 Score=23.70 Aligned_cols=19 Identities=32% Similarity=0.440 Sum_probs=16.3
Q ss_pred cCCCcHHHHHHHHhHHHhh
Q 044863 37 SYLKNPIFQQLLDKAAEEY 55 (84)
Q Consensus 37 ~~L~hP~F~~LL~~aeeEf 55 (84)
..++.|.|++.|++|..|+
T Consensus 213 ~l~~~~~f~~~~~~A~~El 231 (232)
T cd03397 213 ALLADPAFAADLAAARAEL 231 (232)
T ss_pred HHhcCHHHHHHHHHHHHHh
Confidence 4578899999999999885
No 45
>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=21.54 E-value=1.2e+02 Score=17.42 Aligned_cols=56 Identities=20% Similarity=0.390 Sum_probs=32.0
Q ss_pred CCCeEEEEEcCCCeEEEEeccCCCcHHHHHHHHhHHHhhC-----CcCCCCcEEec-ccHHHHHHHHHHHh
Q 044863 17 PKGHFVVYVGTEMKRFVVPTSYLKNPIFQQLLDKAAEEYG-----FHNKQNKIILP-CDESTFQRLSIILS 81 (84)
Q Consensus 17 pkG~~aVyVG~e~~RfvVp~~~L~hP~F~~LL~~aeeEfG-----~~~~~G~L~IP-C~~~~Fe~vl~~l~ 81 (84)
+.|++.|.+ .+|.-.++-..++.|.+.| ++|| +... ..|.|+ .+.+....+...|+
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-EKYGDGEIRLTTR-QNLQLRGVPEENLPAIFEELK 67 (69)
T ss_dssp STTEEEEEE-------B-GGGEEEHHHHHHHHHHH-HHHSTSEEEEETT-SCEEEEEEEGGGHHHHHHHHH
T ss_pred CCeEEEEEE-------eCCCEEECHHHHHHHHHHH-HHhCCCeEEECCC-CeEEEeCCCHHHHHHHHHHHH
Confidence 345555554 3555566666777776666 6776 2333 335555 66666666666554
No 46
>PF15387 DUF4611: Domain of unknown function (DUF4611)
Probab=21.53 E-value=63 Score=21.69 Aligned_cols=20 Identities=25% Similarity=0.587 Sum_probs=15.0
Q ss_pred CcEEeccc----HHHHHHHHHHHh
Q 044863 62 NKIILPCD----ESTFQRLSIILS 81 (84)
Q Consensus 62 G~L~IPC~----~~~Fe~vl~~l~ 81 (84)
-.|++||+ ++-|+.+|+-+.
T Consensus 13 q~lrv~ce~p~~~d~~q~LlsGva 36 (96)
T PF15387_consen 13 QRLRVPCEAPGDADPFQGLLSGVA 36 (96)
T ss_pred ceEEEeeecCCCcccHHHHHHHHH
Confidence 45999998 578888876553
No 47
>cd01783 DAGK_delta_RA Ubiquitin-like domain of Diacylgylcerol kinase (DAGK). DAGK_delta_RA Diacylgylcerol kinase (DAGK) phosphorylates the second messenger diacylglycerol to phosphatidic acid as part of a protein kinase C pathway. Nine mammalian DAGK isotypes have been identified, which are classified into five subgroups according to their domain architecture and the DAGK-delta and -theta isozymes, which fall into one such group, contain an RA (Ras-associated) domain. DAGKs also contain a conserved catalytic domain (DAGKc), an assesory domain (DAGKa), and an array of conserved motifs that are likely to play a role in lipid-protein and protein-protein interactions in various DAG/PA-dependent signalling pathways.
Probab=21.38 E-value=2.1e+02 Score=19.01 Aligned_cols=43 Identities=19% Similarity=0.190 Sum_probs=31.0
Q ss_pred CCeEEEEEcCC-CeEEEEeccCCCcHHHHHHHHhHHHhhCCcCC
Q 044863 18 KGHFVVYVGTE-MKRFVVPTSYLKNPIFQQLLDKAAEEYGFHNK 60 (84)
Q Consensus 18 kG~~aVyVG~e-~~RfvVp~~~L~hP~F~~LL~~aeeEfG~~~~ 60 (84)
+|++=||-|.= ...--+.+..-+.-.-++++.+|-+-||.++.
T Consensus 2 ~g~iKVY~G~L~~~~~y~sv~V~~~tt~~dvv~eaL~kfGl~~~ 45 (97)
T cd01783 2 KEVVKVYPGWLRVGVAYVSIRVNKDTTVQDVILEVLPLFGLQAE 45 (97)
T ss_pred CceEEEecCccccCcceEEEEecccchHHHHHHHHHHHhCcccC
Confidence 68899999961 11112244445677889999999999999885
No 48
>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=21.32 E-value=2.6e+02 Score=19.60 Aligned_cols=40 Identities=15% Similarity=0.275 Sum_probs=31.2
Q ss_pred HHHHHHHHhHHHhhCCcCCCCcEEecccHHHHHHHHHHHhc
Q 044863 42 PIFQQLLDKAAEEYGFHNKQNKIILPCDESTFQRLSIILSK 82 (84)
Q Consensus 42 P~F~~LL~~aeeEfG~~~~~G~L~IPC~~~~Fe~vl~~l~~ 82 (84)
|.|-+..-..-++.|.+.+ |.-++|.+...-+++...+++
T Consensus 19 P~iv~~~~~~l~~~g~~~e-GIFR~~g~~~~i~~l~~~l~~ 58 (196)
T cd04395 19 PLIVEVCCNIVEARGLETV-GIYRVPGNNAAISALQEELNR 58 (196)
T ss_pred ChHHHHHHHHHHHcCCCCc-cceeCCCcHHHHHHHHHHHhc
Confidence 5555445556678899988 999999999888888887764
No 49
>COG2139 RPL21A Ribosomal protein L21E [Translation, ribosomal structure and biogenesis]
Probab=21.26 E-value=78 Score=21.29 Aligned_cols=21 Identities=33% Similarity=0.442 Sum_probs=16.6
Q ss_pred EEEEEcCCCeEEEEeccCCCc
Q 044863 21 FVVYVGTEMKRFVVPTSYLKN 41 (84)
Q Consensus 21 ~aVyVG~e~~RfvVp~~~L~h 41 (84)
+.||+|...++..+..++|.+
T Consensus 73 V~v~~G~k~K~liv~peHLk~ 93 (98)
T COG2139 73 VEVYDGNKEKTLIVRPEHLKP 93 (98)
T ss_pred EEEecCCceEEEEeCHHHccc
Confidence 567788888888888888765
No 50
>PRK07735 NADH dehydrogenase subunit C; Validated
Probab=20.46 E-value=2.2e+02 Score=23.72 Aligned_cols=45 Identities=11% Similarity=0.229 Sum_probs=33.8
Q ss_pred CCCcHHHHHHHHhHHHhhCCcC---------CCCcEEecccHHHHHHHHHHHhc
Q 044863 38 YLKNPIFQQLLDKAAEEYGFHN---------KQNKIILPCDESTFQRLSIILSK 82 (84)
Q Consensus 38 ~L~hP~F~~LL~~aeeEfG~~~---------~~G~L~IPC~~~~Fe~vl~~l~~ 82 (84)
--|+|++..|++...+.||-.. ..|.++|-++.+.+..++..|..
T Consensus 272 ~pn~p~l~~l~~~L~e~fg~~i~~~~~i~~~~~d~lti~V~~e~L~eV~~~Lrd 325 (430)
T PRK07735 272 SVNQPYLNKYVEVIKEKLGEDVLEDSYINKLSKDVPTLVVEPEKYYEVAELLRF 325 (430)
T ss_pred CCCchHHHHHHHHHHHHhhhhhhhhhhhccccCCceEEEEcHHHHHHHHHHHHh
Confidence 3579999999999888887321 12568888888888888877654
No 51
>PRK14193 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional
Probab=20.44 E-value=3.4e+02 Score=21.01 Aligned_cols=55 Identities=16% Similarity=0.194 Sum_probs=41.2
Q ss_pred CCCCeEEEEEcCCCeEEEEeccCCCcHHHHHHHHhHHHhhCCcCCCCcEEec--ccHHHHHHHHHHHhc
Q 044863 16 APKGHFVVYVGTEMKRFVVPTSYLKNPIFQQLLDKAAEEYGFHNKQNKIILP--CDESTFQRLSIILSK 82 (84)
Q Consensus 16 vpkG~~aVyVG~e~~RfvVp~~~L~hP~F~~LL~~aeeEfG~~~~~G~L~IP--C~~~~Fe~vl~~l~~ 82 (84)
.+.+...+.||++. ..-.....-.++.+++|+... .+.+| ++.+.|...+..++.
T Consensus 31 ~~P~LaiI~vg~d~----------as~~Yv~~k~k~a~~~Gi~~~--~~~l~~~~t~~el~~~I~~lN~ 87 (284)
T PRK14193 31 ITPGLGTVLVGDDP----------GSQAYVRGKHRDCAEVGITSI--RRDLPADATQEELNAVIDELNA 87 (284)
T ss_pred CCceEEEEEeCCCH----------HHHHHHHHHHHHHHHcCCEEE--EEECCCCCCHHHHHHHHHHHhC
Confidence 34477788899732 123566777888999999875 67888 888999998888864
No 52
>PF13421 Band_7_1: SPFH domain-Band 7 family
Probab=20.29 E-value=1.7e+02 Score=21.37 Aligned_cols=40 Identities=25% Similarity=0.432 Sum_probs=30.3
Q ss_pred CCCCCCeEEEEE--cC-----CCeEEEEeccCCCcHHHHHHHHhHHHhhCCc
Q 044863 14 SRAPKGHFVVYV--GT-----EMKRFVVPTSYLKNPIFQQLLDKAAEEYGFH 58 (84)
Q Consensus 14 ~~vpkG~~aVyV--G~-----e~~RfvVp~~~L~hP~F~~LL~~aeeEfG~~ 58 (84)
-.|++|..||.| |+ +.-||.+-+. |.|.+..|... -||++
T Consensus 17 LiV~egQ~Avfv~~G~i~d~~~pG~y~l~T~--n~P~l~~l~~~---~~Gg~ 63 (211)
T PF13421_consen 17 LIVREGQCAVFVNDGKIADVFGPGRYTLDTD--NIPILSTLKNW---KFGGE 63 (211)
T ss_pred EEECCCCEEEEEECCEEEEEecCceEEEecC--CchHHHHHhhh---ccCCC
Confidence 468999999998 43 5778888875 88999998654 36654
No 53
>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=20.21 E-value=1.6e+02 Score=17.79 Aligned_cols=20 Identities=20% Similarity=0.195 Sum_probs=17.4
Q ss_pred eEEEEEcCCCeEEEEeccCC
Q 044863 20 HFVVYVGTEMKRFVVPTSYL 39 (84)
Q Consensus 20 ~~aVyVG~e~~RfvVp~~~L 39 (84)
.|+++|+...-++.|..+-|
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 58899988899999998776
No 54
>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=20.18 E-value=39 Score=23.38 Aligned_cols=28 Identities=36% Similarity=0.511 Sum_probs=8.0
Q ss_pred CCCeEEEEEcCCCeEEE----------EeccCCCcHHHH
Q 044863 17 PKGHFVVYVGTEMKRFV----------VPTSYLKNPIFQ 45 (84)
Q Consensus 17 pkG~~aVyVG~e~~Rfv----------Vp~~~L~hP~F~ 45 (84)
..||+|+.|-. +-+|+ +|+-+||.|+-+
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 67999999843 44454 678888887644
Done!