Query 048483
Match_columns 99
No_of_seqs 105 out of 623
Neff 4.5
Searched_HMMs 46136
Date Fri Mar 29 09:55:08 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/048483.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/048483hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PLN03090 auxin-responsive fami 100.0 3.6E-36 7.8E-41 209.2 8.1 80 7-86 21-103 (104)
2 PF02519 Auxin_inducible: Auxi 100.0 2.1E-35 4.5E-40 202.9 8.7 68 20-87 33-100 (100)
3 PLN03219 uncharacterized prote 100.0 9.3E-34 2E-38 198.2 9.0 74 12-85 28-104 (108)
4 PLN03220 uncharacterized prote 100.0 1E-33 2.2E-38 197.2 8.6 70 16-85 28-102 (105)
5 PF02214 BTB_2: BTB/POZ domain 88.9 0.37 8.1E-06 31.0 2.3 59 29-89 2-63 (94)
6 cd05992 PB1 The PB1 domain is 88.7 4.1 8.8E-05 25.2 7.1 59 29-91 4-73 (81)
7 PRK02899 adaptor protein; Prov 88.3 0.49 1.1E-05 35.8 2.9 25 48-72 38-62 (197)
8 smart00666 PB1 PB1 domain. Pho 86.5 3.4 7.4E-05 25.8 5.6 56 30-90 6-72 (81)
9 PRK02315 adaptor protein; Prov 84.7 0.8 1.7E-05 35.3 2.4 25 48-72 38-62 (233)
10 PF05389 MecA: Negative regula 78.7 0.65 1.4E-05 34.9 0.0 25 48-72 38-62 (220)
11 cd06410 PB1_UP2 Uncharacterize 71.4 11 0.00023 25.7 4.5 54 29-87 17-83 (97)
12 cd06407 PB1_NLP A PB1 domain i 64.4 20 0.00042 23.6 4.6 49 30-82 5-65 (82)
13 cd06398 PB1_Joka2 The PB1 doma 53.0 39 0.00084 22.7 4.6 56 30-85 5-73 (91)
14 PF00651 BTB: BTB/POZ domain; 51.2 59 0.0013 20.4 5.1 55 28-87 13-72 (111)
15 PF00564 PB1: PB1 domain; Int 48.8 39 0.00084 20.8 3.9 53 30-87 6-70 (84)
16 PF02100 ODC_AZ: Ornithine dec 48.4 41 0.00088 23.1 4.2 50 35-85 23-76 (108)
17 PF14317 YcxB: YcxB-like prote 42.4 64 0.0014 18.2 4.0 33 23-56 27-59 (62)
18 PF11834 DUF3354: Domain of un 41.6 21 0.00046 23.0 1.8 24 36-65 19-42 (69)
19 PRK02797 4-alpha-L-fucosyltran 41.4 1.4E+02 0.003 24.8 6.9 62 22-86 141-224 (322)
20 PLN02752 [acyl-carrier protein 39.3 30 0.00066 27.2 2.8 48 18-65 31-78 (343)
21 PF07429 Glyco_transf_56: 4-al 39.3 1.4E+02 0.0031 25.1 6.7 42 22-63 180-243 (360)
22 COG1759 5-formaminoimidazole-4 39.2 14 0.00031 31.0 0.9 24 20-43 87-112 (361)
23 PF11822 DUF3342: Domain of un 38.3 53 0.0011 27.1 4.0 52 35-89 12-68 (317)
24 KOG1359 Glycine C-acetyltransf 36.7 69 0.0015 27.2 4.5 54 45-99 80-137 (417)
25 PF07369 DUF1488: Protein of u 35.9 74 0.0016 20.1 3.7 21 27-47 18-38 (83)
26 PF05194 UreE_C: UreE urease a 35.6 64 0.0014 20.9 3.4 27 26-58 25-51 (87)
27 PF02209 VHP: Villin headpiece 34.5 18 0.00038 20.8 0.5 18 45-62 1-18 (36)
28 smart00153 VHP Villin headpiec 34.0 20 0.00044 20.4 0.7 18 45-62 1-18 (36)
29 PF12058 DUF3539: Protein of u 33.9 6.5 0.00014 27.0 -1.6 11 44-54 4-14 (88)
30 PF11731 Cdd1: Pathogenicity l 33.6 1E+02 0.0023 21.0 4.3 38 52-94 45-83 (93)
31 PRK10308 3-methyl-adenine DNA 32.1 1.3E+02 0.0028 23.7 5.3 66 25-90 45-125 (283)
32 PRK13277 5-formaminoimidazole- 30.9 16 0.00036 30.5 0.0 22 21-42 88-111 (366)
33 COG4862 MecA Negative regulato 30.6 39 0.00085 26.7 2.1 27 47-73 37-63 (224)
34 TIGR03793 TOMM_pelo TOMM prope 28.1 99 0.0022 20.2 3.4 27 46-72 14-44 (77)
35 PF12062 HSNSD: heparan sulfat 26.9 55 0.0012 28.6 2.5 39 25-63 96-140 (487)
36 KOG1290 Serine/threonine prote 26.6 46 0.00099 29.7 2.0 21 22-42 61-83 (590)
37 PRK10499 PTS system N,N'-diace 26.0 30 0.00065 23.5 0.6 19 45-63 54-72 (106)
38 COG4314 NosL Predicted lipopro 25.4 37 0.0008 25.9 1.1 28 6-33 64-91 (176)
39 PF11876 DUF3396: Protein of u 24.8 72 0.0016 24.2 2.6 37 36-72 24-63 (208)
40 COG2139 RPL21A Ribosomal prote 24.3 59 0.0013 22.7 1.8 21 28-48 73-93 (98)
41 cd06399 PB1_P40 The PB1 domain 24.0 84 0.0018 21.7 2.5 29 35-63 14-42 (92)
42 cd06397 PB1_UP1 Uncharacterize 23.5 1.4E+02 0.0031 20.2 3.5 54 30-88 5-69 (82)
43 PF04341 DUF485: Protein of un 23.1 61 0.0013 21.3 1.7 12 46-57 2-13 (91)
44 cd06080 MUM1_like Mutated mela 21.8 1.4E+02 0.0031 19.6 3.2 40 24-63 28-74 (80)
45 TIGR00853 pts-lac PTS system, 21.7 36 0.00077 22.6 0.3 16 1-16 1-17 (95)
46 PF06849 DUF1246: Protein of u 21.1 1.4 3.1E-05 31.8 -6.9 23 21-43 68-92 (124)
47 cd04751 Commd3 COMM_Domain con 20.9 91 0.002 20.7 2.2 23 67-89 64-86 (95)
48 cd06401 PB1_TFG The PB1 domain 20.1 1.8E+02 0.0038 19.6 3.4 40 33-75 8-61 (81)
No 1
>PLN03090 auxin-responsive family protein; Provisional
Probab=100.00 E-value=3.6e-36 Score=209.21 Aligned_cols=80 Identities=44% Similarity=0.823 Sum_probs=72.4
Q ss_pred eeecCCCCCC---CCCCCCCCCCeEEEEEcCCCeEEEEEcCccCcHHHHHHHHHHHHhcCccCCCcEEeccCHHHHHHHH
Q 048483 7 WCCFKGTDEE---YSIPKDVPKGHVVVYVGEECKRFVIKVSLLEHPLFKALLDRAEEAFEFATGSKLRIPCNESIFRSIL 83 (99)
Q Consensus 7 ~c~~~~~~~~---~~~~~~vpkG~~~VYVG~e~kRfvVp~~~L~hP~F~~LL~~aeeEfG~~~~G~L~IPC~~~~Fe~vl 83 (99)
+|.|.+..++ ...|.+|||||||||||++++||+||++|||||+|++||++|||||||+++|+|+|||+++.|++++
T Consensus 21 r~~s~~~~~~~~~~~~~~~vpkG~~aVyVG~~~~RfvVp~~~L~hP~F~~LL~~aeeEfGf~~~G~L~IPC~~~~Fe~ll 100 (104)
T PLN03090 21 RCSSLGKKQGYDEDGLPLDVPKGHFPVYVGENRSRYIVPISFLTHPEFQSLLQQAEEEFGFDHDMGLTIPCEEVVFRSLT 100 (104)
T ss_pred HHHHhcccCCcccccCCCCCCCCcEEEEECCCCEEEEEEHHHcCCHHHHHHHHHHHHHhCCCCCCcEEEeCCHHHHHHHH
Confidence 4655554443 2478899999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHh
Q 048483 84 YFA 86 (99)
Q Consensus 84 ~~~ 86 (99)
|+|
T Consensus 101 ~~i 103 (104)
T PLN03090 101 SMI 103 (104)
T ss_pred HHh
Confidence 998
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=2.1e-35 Score=202.87 Aligned_cols=68 Identities=51% Similarity=0.965 Sum_probs=66.0
Q ss_pred CCCCCCCeEEEEEcCCCeEEEEEcCccCcHHHHHHHHHHHHhcCccCCCcEEeccCHHHHHHHHHHhC
Q 048483 20 PKDVPKGHVVVYVGEECKRFVIKVSLLEHPLFKALLDRAEEAFEFATGSKLRIPCNESIFRSILYFAS 87 (99)
Q Consensus 20 ~~~vpkG~~~VYVG~e~kRfvVp~~~L~hP~F~~LL~~aeeEfG~~~~G~L~IPC~~~~Fe~vl~~~~ 87 (99)
..++|+||||||||++++||+||++|||||+|++||++|||||||+++|+|+|||+++.|+++||+++
T Consensus 33 ~~~vp~G~~~VyVG~~~~Rfvvp~~~L~hp~f~~LL~~aeeEfG~~~~G~l~iPC~~~~Fe~~l~~le 100 (100)
T PF02519_consen 33 ESDVPKGHFAVYVGEERRRFVVPVSYLNHPLFQELLEQAEEEFGFDQDGPLTIPCDVVLFEHLLWLLE 100 (100)
T ss_pred cCCCCCCeEEEEeCccceEEEechHHcCchhHHHHHHHHhhhcCcCCCCcEEeeCCHHHHHHHHHHhC
Confidence 47899999999999999999999999999999999999999999999999999999999999999985
No 3
>PLN03219 uncharacterized protein; Provisional
Probab=100.00 E-value=9.3e-34 Score=198.21 Aligned_cols=74 Identities=46% Similarity=0.753 Sum_probs=67.2
Q ss_pred CCCCCCCCCCCCCCCeEEEEEcC--CCeEEEEEcCccCcHHHHHHHHHHHHhcCccC-CCcEEeccCHHHHHHHHHH
Q 048483 12 GTDEEYSIPKDVPKGHVVVYVGE--ECKRFVIKVSLLEHPLFKALLDRAEEAFEFAT-GSKLRIPCNESIFRSILYF 85 (99)
Q Consensus 12 ~~~~~~~~~~~vpkG~~~VYVG~--e~kRfvVp~~~L~hP~F~~LL~~aeeEfG~~~-~G~L~IPC~~~~Fe~vl~~ 85 (99)
...++.+.+.+|||||+|||||+ +++||+||++|||||+|++||++|||||||++ +|+|+|||+++.|++||..
T Consensus 28 ~~~~~~~~~~~vpkGh~aVYVG~~~E~kRFvVPi~yL~hP~F~~LL~~AeEEfGf~~~~G~L~IPCd~~~F~~ll~~ 104 (108)
T PLN03219 28 SPSSSTTTSGLVPKGHVAVYVGEQMEKKRFVVPISYLNHPLFREFLNRAEEECGFHHSMGGLTIPCREESFLHLITS 104 (108)
T ss_pred CCccCCCCCCCCCCCeEEEEECCCCCceEEEEEHHHcCChHHHHHHHHHHHHhCCCCCCCCEEEeCCHHHHHHHHHh
Confidence 34445567789999999999997 58999999999999999999999999999998 5999999999999999975
No 4
>PLN03220 uncharacterized protein; Provisional
Probab=100.00 E-value=1e-33 Score=197.24 Aligned_cols=70 Identities=51% Similarity=0.856 Sum_probs=64.6
Q ss_pred CCCCCCCCCCCeEEEEEcC----CCeEEEEEcCccCcHHHHHHHHHHHHhcCccC-CCcEEeccCHHHHHHHHHH
Q 048483 16 EYSIPKDVPKGHVVVYVGE----ECKRFVIKVSLLEHPLFKALLDRAEEAFEFAT-GSKLRIPCNESIFRSILYF 85 (99)
Q Consensus 16 ~~~~~~~vpkG~~~VYVG~----e~kRfvVp~~~L~hP~F~~LL~~aeeEfG~~~-~G~L~IPC~~~~Fe~vl~~ 85 (99)
+.+.+.+|||||||||||+ +++||+||++|||||.|++||++|||||||+| +|+|+|||+++.|++++..
T Consensus 28 ~~~~~~~VPkGh~aVyVGe~~~~e~kRFVVPv~yL~hP~F~~LL~~AeEEfGf~~~~G~L~IPCd~~~F~~ll~s 102 (105)
T PLN03220 28 SSSSSDHVPKGHVAVYVGEQIEMEKKRFVVPISFLNHPSFKEFLSRAEEEFGFNHPMGGLTIPCREEVFLDLIAS 102 (105)
T ss_pred cccccCCCCCCeEEEEECCCCCccceEEEEEHHHcCChHHHHHHHHHHHHhCCCCCCCCEEeeCCHHHHHHHHHh
Confidence 3357789999999999997 58999999999999999999999999999998 5999999999999999864
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=88.94 E-value=0.37 Score=31.05 Aligned_cols=59 Identities=19% Similarity=0.158 Sum_probs=44.3
Q ss_pred EEEEcCCCeEEEEEcCccC-c--HHHHHHHHHHHHhcCccCCCcEEeccCHHHHHHHHHHhCCC
Q 048483 29 VVYVGEECKRFVIKVSLLE-H--PLFKALLDRAEEAFEFATGSKLRIPCNESIFRSILYFASPQ 89 (99)
Q Consensus 29 ~VYVG~e~kRfvVp~~~L~-h--P~F~~LL~~aeeEfG~~~~G~L~IPC~~~~Fe~vl~~~~~~ 89 (99)
.+=|| .++|.++.+-|. + ..|..|++.......-+.+|.+-|-.+...|++||.-++.+
T Consensus 2 ~lNVG--G~~f~~~~~tL~~~~~s~l~~~~~~~~~~~~~~~~~~~fiDRdp~~F~~IL~ylr~~ 63 (94)
T PF02214_consen 2 RLNVG--GTIFETSRSTLTRYPDSLLARLFSGERSDDYDDDDGEYFIDRDPELFEYILNYLRTG 63 (94)
T ss_dssp EEEET--TEEEEEEHHHHHTSTTSTTTSHHHTGHGGGEETTTTEEEESS-HHHHHHHHHHHHHT
T ss_pred EEEEC--CEEEEEcHHHHhhCCCChhhhHHhhccccccCCccceEEeccChhhhhHHHHHHhhc
Confidence 34577 699999999887 4 47888888653222224569999999999999999988874
No 6
>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=88.67 E-value=4.1 Score=25.19 Aligned_cols=59 Identities=20% Similarity=0.260 Sum_probs=42.7
Q ss_pred EEEEcCCCeEEEEEcCccCcHHHHHHHHHHHHhcCcc----------CCC-cEEeccCHHHHHHHHHHhCCCCC
Q 048483 29 VVYVGEECKRFVIKVSLLEHPLFKALLDRAEEAFEFA----------TGS-KLRIPCNESIFRSILYFASPQRD 91 (99)
Q Consensus 29 ~VYVG~e~kRfvVp~~~L~hP~F~~LL~~aeeEfG~~----------~~G-~L~IPC~~~~Fe~vl~~~~~~~~ 91 (99)
-++-+++.+||.+|. .++.|.+|..+..+.|+.. .+| .++|..+ ..++.++......+.
T Consensus 4 K~~~~~~~~~~~~~~---~~~s~~~L~~~i~~~~~~~~~~~~l~y~D~e~d~v~l~sd-~Dl~~a~~~~~~~~~ 73 (81)
T cd05992 4 KVKYGGEIRRFVVVS---RSISFEDLRSKIAEKFGLDAVSFKLKYPDEDGDLVTISSD-EDLEEAIEEARRSGS 73 (81)
T ss_pred EEEecCCCEEEEEec---CCCCHHHHHHHHHHHhCCCCCcEEEEeeCCCCCEEEeCCH-HHHHHHHHHHhhcCC
Confidence 355566899999998 7888999999988888875 134 3555554 678888887765333
No 7
>PRK02899 adaptor protein; Provisional
Probab=88.28 E-value=0.49 Score=35.77 Aligned_cols=25 Identities=20% Similarity=0.595 Sum_probs=21.7
Q ss_pred cHHHHHHHHHHHHhcCccCCCcEEe
Q 048483 48 HPLFKALLDRAEEAFEFATGSKLRI 72 (99)
Q Consensus 48 hP~F~~LL~~aeeEfG~~~~G~L~I 72 (99)
+-+|.++|++|..|+||..+|+|+|
T Consensus 38 e~lF~~mm~Ea~~e~~F~~~~pl~~ 62 (197)
T PRK02899 38 HQLFRDMMQEANKELGFEADGPIAV 62 (197)
T ss_pred HHHHHHHHHHhhhccCcccCCeEEE
Confidence 3567778999999999999999976
No 8
>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=86.51 E-value=3.4 Score=25.76 Aligned_cols=56 Identities=13% Similarity=0.198 Sum_probs=41.1
Q ss_pred EEEcCCCeEEEEEcCccCcHHHHHHHHHHHHhcCcc----------CCC-cEEeccCHHHHHHHHHHhCCCC
Q 048483 30 VYVGEECKRFVIKVSLLEHPLFKALLDRAEEAFEFA----------TGS-KLRIPCNESIFRSILYFASPQR 90 (99)
Q Consensus 30 VYVG~e~kRfvVp~~~L~hP~F~~LL~~aeeEfG~~----------~~G-~L~IPC~~~~Fe~vl~~~~~~~ 90 (99)
|+-|++.+||.||- ...|.+|..+..+.|+.. .+| .++|.++. .+..++.+.....
T Consensus 6 ~~~~~~~~~~~~~~----~~s~~dL~~~i~~~~~~~~~~~~l~Y~Dedgd~v~l~sd~-Dl~~a~~~~~~~~ 72 (81)
T smart00666 6 LRYGGETRRLSVPR----DISFEDLRSKVAKRFGLDNQSFTLKYQDEDGDLVSLTSDE-DLEEAIEEYDSLG 72 (81)
T ss_pred EEECCEEEEEEECC----CCCHHHHHHHHHHHhCCCCCCeEEEEECCCCCEEEecCHH-HHHHHHHHHHHcC
Confidence 34477899999986 677999999999888874 244 67888855 5677777665443
No 9
>PRK02315 adaptor protein; Provisional
Probab=84.68 E-value=0.8 Score=35.31 Aligned_cols=25 Identities=24% Similarity=0.468 Sum_probs=22.7
Q ss_pred cHHHHHHHHHHHHhcCccCCCcEEe
Q 048483 48 HPLFKALLDRAEEAFEFATGSKLRI 72 (99)
Q Consensus 48 hP~F~~LL~~aeeEfG~~~~G~L~I 72 (99)
+-.|.++|++|..|+||..+|+|+|
T Consensus 38 e~fF~~mm~Ea~~e~~F~~~~pl~~ 62 (233)
T PRK02315 38 EEFFYSMMDEVDEEDDFADEGPLWF 62 (233)
T ss_pred HHHHHHHHHHhccccCcccCCeEEE
Confidence 4589999999999999999999986
No 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=78.67 E-value=0.65 Score=34.92 Aligned_cols=25 Identities=24% Similarity=0.505 Sum_probs=0.0
Q ss_pred cHHHHHHHHHHHHhcCccCCCcEEe
Q 048483 48 HPLFKALLDRAEEAFEFATGSKLRI 72 (99)
Q Consensus 48 hP~F~~LL~~aeeEfG~~~~G~L~I 72 (99)
+-.|.++|++|.+|+||..+|+|+|
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 4579999999999999999999886
No 11
>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=71.35 E-value=11 Score=25.70 Aligned_cols=54 Identities=20% Similarity=0.378 Sum_probs=37.6
Q ss_pred EEEEcCCCeEEEEEcCccCcHHHHHHHHHHHHhcCccC-------------CCcEEeccCHHHHHHHHHHhC
Q 048483 29 VVYVGEECKRFVIKVSLLEHPLFKALLDRAEEAFEFAT-------------GSKLRIPCNESIFRSILYFAS 87 (99)
Q Consensus 29 ~VYVG~e~kRfvVp~~~L~hP~F~~LL~~aeeEfG~~~-------------~G~L~IPC~~~~Fe~vl~~~~ 87 (99)
.=|||.+.+-..|+-+ . .|.+|..+..+.++... ++-+.|.+|.+ ..+++....
T Consensus 17 l~Y~GG~tr~i~V~r~-~---s~~el~~kl~~~~~~~~~~~lky~Lp~edld~Lisv~~DeD-l~~M~~e~~ 83 (97)
T cd06410 17 LRYVGGETRIVSVDRS-I---SFKELVSKLSELFGAGVVVTLKYQLPDEDLDALISVSNDED-LKNMMEEYD 83 (97)
T ss_pred EEEcCCceEEEEEcCC-C---CHHHHHHHHHHHhCCCCceEEEEEcCCCCcceeEEecCcHH-HHHHHHhhc
Confidence 4699999999999988 4 56677777777776654 45677888874 344444433
No 12
>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=64.37 E-value=20 Score=23.57 Aligned_cols=49 Identities=22% Similarity=0.336 Sum_probs=35.3
Q ss_pred EEEcCCCeEEEEEcCccCcHHHHHHHHHHHHhcCccC------------CCcEEeccCHHHHHHH
Q 048483 30 VYVGEECKRFVIKVSLLEHPLFKALLDRAEEAFEFAT------------GSKLRIPCNESIFRSI 82 (99)
Q Consensus 30 VYVG~e~kRfvVp~~~L~hP~F~~LL~~aeeEfG~~~------------~G~L~IPC~~~~Fe~v 82 (99)
+..|++..||.+|.+. .|++|.++-.+-|+... +..++|.|+.++=+-+
T Consensus 5 ~~~~~d~~r~~l~~~~----~~~~L~~~i~~r~~~~~~~~f~LkY~Ddegd~v~ltsd~DL~eai 65 (82)
T cd06407 5 ATYGEEKIRFRLPPSW----GFTELKQEIAKRFKLDDMSAFDLKYLDDDEEWVLLTCDADLEECI 65 (82)
T ss_pred EEeCCeEEEEEcCCCC----CHHHHHHHHHHHhCCCCCCeeEEEEECCCCCeEEeecHHHHHHHH
Confidence 4557789999999754 58888888888777642 2357788887765544
No 13
>cd06398 PB1_Joka2 The PB1 domain is present in the Nicotiana plumbaginifolia Joka2 protein which interacts with sulfur stress inducible UP9 protein. The PB1 domain is a modular domain mediating specific protein-protein interactions which play a role in many critical cell processes, such as osteoclastogenesis, angiogenesis, early cardiovascular development and cell polarity. A canonical PB1-PB1 interaction, which involves heterodimerization of two PB1 domain, is required for the formation of macromolecular signaling complexes ensuring specificity and fidelity during cellular signaling. The interaction between two PB1 domain depends on the type of PB1. There are three types of PB1 domains: type I which contains an OPCA motif, acidic aminoacid cluster, type II which contains a basic cluster, and type I/II which contains both an OPCA motif and a basic cluster. Interactions of PB1 domains with other protein domains have been described as noncanonical PB1-interactions. The PB1 domain module
Probab=53.01 E-value=39 Score=22.66 Aligned_cols=56 Identities=21% Similarity=0.348 Sum_probs=37.8
Q ss_pred EEEcCCCeEEEEEcCc-cCcHHHHHHHHHHHHhcCccC-----------CC-cEEeccCHHHHHHHHHH
Q 048483 30 VYVGEECKRFVIKVSL-LEHPLFKALLDRAEEAFEFAT-----------GS-KLRIPCNESIFRSILYF 85 (99)
Q Consensus 30 VYVG~e~kRfvVp~~~-L~hP~F~~LL~~aeeEfG~~~-----------~G-~L~IPC~~~~Fe~vl~~ 85 (99)
|.-|++.+||-+|.+= -.+..|..|.++-++-|.... +| -++|.|+.++-+-+-..
T Consensus 5 v~y~~~~rRf~l~~~~~~~d~~~~~L~~kI~~~f~l~~~~~~~l~Y~Dedgd~V~l~~D~DL~~a~~~~ 73 (91)
T cd06398 5 VKYGGTLRRFTFPVAENQLDLNMDGLREKVEELFSLSPDADLSLTYTDEDGDVVTLVDDNDLTDAIQYF 73 (91)
T ss_pred EEeCCEEEEEEeccccccCCCCHHHHHHHHHHHhCCCCCCcEEEEEECCCCCEEEEccHHHHHHHHHHH
Confidence 4447789999999740 113468888888887766543 33 57888988776655443
No 14
>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=51.15 E-value=59 Score=20.35 Aligned_cols=55 Identities=24% Similarity=0.588 Sum_probs=39.2
Q ss_pred EEEEEcCCCeEEEEEcCcc--CcHHHHHHHHHHHHhcCccCCC--cEEec-cCHHHHHHHHHHhC
Q 048483 28 VVVYVGEECKRFVIKVSLL--EHPLFKALLDRAEEAFEFATGS--KLRIP-CNESIFRSILYFAS 87 (99)
Q Consensus 28 ~~VYVG~e~kRfvVp~~~L--~hP~F~~LL~~aeeEfG~~~~G--~L~IP-C~~~~Fe~vl~~~~ 87 (99)
+.+.||. .++|-+.-..| ..|.|+.+++.. +....+ .+.++ ++...|+.++..+-
T Consensus 13 ~~i~v~d-~~~~~vhk~iL~~~S~~F~~~~~~~----~~~~~~~~~i~~~~~~~~~~~~~l~~~Y 72 (111)
T PF00651_consen 13 VTIRVGD-GKTFYVHKNILAARSPYFRNLFEGS----KFKESTVPEISLPDVSPEAFEAFLEYMY 72 (111)
T ss_dssp EEEEETT-TEEEEE-HHHHHHHBHHHHHHHTTT----TSTTSSEEEEEETTSCHHHHHHHHHHHH
T ss_pred EEEEECC-CEEEeechhhhhccchhhhhccccc----cccccccccccccccccccccccccccc
Confidence 4566664 78999988887 459999999988 222333 46656 78999999997654
No 15
>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=48.84 E-value=39 Score=20.79 Aligned_cols=53 Identities=19% Similarity=0.288 Sum_probs=34.3
Q ss_pred EEEcCCCeE-EEEEcCccCcHHHHHHHHHHHHhcCcc----------CCC-cEEeccCHHHHHHHHHHhC
Q 048483 30 VYVGEECKR-FVIKVSLLEHPLFKALLDRAEEAFEFA----------TGS-KLRIPCNESIFRSILYFAS 87 (99)
Q Consensus 30 VYVG~e~kR-fvVp~~~L~hP~F~~LL~~aeeEfG~~----------~~G-~L~IPC~~~~Fe~vl~~~~ 87 (99)
++-+++.+| +.+| +.+.|.+|.++.++.||.. .+| .++|.++. .++..+..+.
T Consensus 6 ~~~~~~~~~~~~~~----~~~s~~~L~~~i~~~~~~~~~~~~l~Y~D~dgD~V~i~sd~-Dl~~a~~~~~ 70 (84)
T PF00564_consen 6 VRYGGDIRRIISLP----SDVSFDDLRSKIREKFGLLDEDFQLKYKDEDGDLVTISSDE-DLQEAIEQAK 70 (84)
T ss_dssp EEETTEEEEEEEEC----STSHHHHHHHHHHHHHTTSTSSEEEEEEETTSSEEEESSHH-HHHHHHHHHH
T ss_pred EEECCeeEEEEEcC----CCCCHHHHHHHHHHHhCCCCccEEEEeeCCCCCEEEeCCHH-HHHHHHHHHH
Confidence 455656666 4444 4569999999999999883 345 46666655 4555555543
No 16
>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=48.36 E-value=41 Score=23.14 Aligned_cols=50 Identities=28% Similarity=0.187 Sum_probs=25.3
Q ss_pred CCeEEE-EEcCc---cCcHHHHHHHHHHHHhcCccCCCcEEeccCHHHHHHHHHH
Q 048483 35 ECKRFV-IKVSL---LEHPLFKALLDRAEEAFEFATGSKLRIPCNESIFRSILYF 85 (99)
Q Consensus 35 e~kRfv-Vp~~~---L~hP~F~~LL~~aeeEfG~~~~G~L~IPC~~~~Fe~vl~~ 85 (99)
++.=|+ +|-.. ..-..|.+||+.|||.+|.++ -.|.|+=+-.....++..
T Consensus 23 ~~~L~V~ip~~~~~~~~K~~lvaLLElAee~L~c~~-vvic~~k~~~d~~~Llr~ 76 (108)
T PF02100_consen 23 ERTLFVFIPSSALGQGSKESLVALLELAEEKLGCSH-VVICLDKNRPDRASLLRT 76 (108)
T ss_dssp TTEEEEE-SS---SS--SHHHHHHHHHHHHHH-----EEEEE---SS-HHHHHHH
T ss_pred CCEEEEEECCcccccccHHHHHHHHHHhcCcCCCCE-EEEEEECCchhHHHhhhh
Confidence 455555 45433 355789999999999988766 456666444445555543
No 17
>PF14317 YcxB: YcxB-like protein
Probab=42.35 E-value=64 Score=18.17 Aligned_cols=33 Identities=15% Similarity=0.271 Sum_probs=24.9
Q ss_pred CCCCeEEEEEcCCCeEEEEEcCccCcHHHHHHHH
Q 048483 23 VPKGHVVVYVGEECKRFVIKVSLLEHPLFKALLD 56 (99)
Q Consensus 23 vpkG~~~VYVG~e~kRfvVp~~~L~hP~F~~LL~ 56 (99)
.-+.++.+|++. ..-++||-+.++.-...++.+
T Consensus 27 e~~~~~~l~~~~-~~~~~iPk~~f~~~e~~~f~~ 59 (62)
T PF14317_consen 27 ETKDYFYLYLGK-NQAFIIPKRAFSEEEKEEFRE 59 (62)
T ss_pred EeCCEEEEEECC-CeEEEEEHHHCCHhHHHHHHH
Confidence 357788899984 599999999999555555544
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=41.64 E-value=21 Score=23.01 Aligned_cols=24 Identities=29% Similarity=0.368 Sum_probs=19.0
Q ss_pred CeEEEEEcCccCcHHHHHHHHHHHHhcCcc
Q 048483 36 CKRFVIKVSLLEHPLFKALLDRAEEAFEFA 65 (99)
Q Consensus 36 ~kRfvVp~~~L~hP~F~~LL~~aeeEfG~~ 65 (99)
.+=..+| -.+++||+.|++.||+.
T Consensus 19 GKvi~lP------~SleeLl~ia~~kfg~~ 42 (69)
T PF11834_consen 19 GKVIWLP------DSLEELLKIASEKFGFS 42 (69)
T ss_pred CEEEEcC------ccHHHHHHHHHHHhCCC
Confidence 3455556 36899999999999985
No 19
>PRK02797 4-alpha-L-fucosyltransferase; Provisional
Probab=41.36 E-value=1.4e+02 Score=24.77 Aligned_cols=62 Identities=11% Similarity=0.240 Sum_probs=39.4
Q ss_pred CCCCCeEEEEEcC--------------------CCeEEEEEcCc--cCcHHHHHHHHHHHHhcCccCCCcEEeccCHHHH
Q 048483 22 DVPKGHVVVYVGE--------------------ECKRFVIKVSL--LEHPLFKALLDRAEEAFEFATGSKLRIPCNESIF 79 (99)
Q Consensus 22 ~vpkG~~~VYVG~--------------------e~kRfvVp~~~--L~hP~F~~LL~~aeeEfG~~~~G~L~IPC~~~~F 79 (99)
..+++-+.|.||. +.-|+.||++| =|.--.++..+.+.+-||- +-+++-=+--.|
T Consensus 141 ~~~~~~~tIlvGNSgd~SN~Hie~L~~l~~~~~~~v~ii~PlsYp~gn~~Yi~~V~~~~~~lF~~---~~~~~L~e~l~f 217 (322)
T PRK02797 141 RQRAGKMTILVGNSGDRSNRHIEALRALHQQFGDNVKIIVPMGYPANNQAYIEEVRQAGLALFGA---ENFQILTEKLPF 217 (322)
T ss_pred ccCCCceEEEEeCCCCCcccHHHHHHHHHHHhCCCeEEEEECCcCCCCHHHHHHHHHHHHHhcCc---ccEEehhhhCCH
Confidence 4477789999993 24599999999 5666666776677777762 234443333334
Q ss_pred HHHHHHh
Q 048483 80 RSILYFA 86 (99)
Q Consensus 80 e~vl~~~ 86 (99)
+.=+..+
T Consensus 218 ~eYl~lL 224 (322)
T PRK02797 218 DDYLALL 224 (322)
T ss_pred HHHHHHH
Confidence 4444443
No 20
>PLN02752 [acyl-carrier protein] S-malonyltransferase
Probab=39.32 E-value=30 Score=27.23 Aligned_cols=48 Identities=21% Similarity=0.316 Sum_probs=31.7
Q ss_pred CCCCCCCCCeEEEEEcCCCeEEEEEcCccCcHHHHHHHHHHHHhcCcc
Q 048483 18 SIPKDVPKGHVVVYVGEECKRFVIKVSLLEHPLFKALLDRAEEAFEFA 65 (99)
Q Consensus 18 ~~~~~vpkG~~~VYVG~e~kRfvVp~~~L~hP~F~~LL~~aeeEfG~~ 65 (99)
..+.+.+...+.++-|....+--.=.+|.++|.|+++++++++-.|++
T Consensus 31 ~~~~~~~~~~a~lFpGQGsq~~gm~~~~~~~p~~~~~~~~~~~~lg~~ 78 (343)
T PLN02752 31 ALFADYKPTTAFLFPGQGAQAVGMGKEAAEVPAAKALFDKASEILGYD 78 (343)
T ss_pred ccccCCCCCEEEEECCCCcchhhHHHHHHhCHHHHHHHHHHHHHhCCC
Confidence 345555555666777754332222223778999999999999888765
No 21
>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=39.32 E-value=1.4e+02 Score=25.12 Aligned_cols=42 Identities=17% Similarity=0.404 Sum_probs=33.2
Q ss_pred CCCCCeEEEEEcC--------------------CCeEEEEEcCcc--CcHHHHHHHHHHHHhcC
Q 048483 22 DVPKGHVVVYVGE--------------------ECKRFVIKVSLL--EHPLFKALLDRAEEAFE 63 (99)
Q Consensus 22 ~vpkG~~~VYVG~--------------------e~kRfvVp~~~L--~hP~F~~LL~~aeeEfG 63 (99)
..++|-+.|.||. +..|++||++|= |.--.+++.+.+++-||
T Consensus 180 ~~~~~~ltILvGNSgd~sNnHieaL~~L~~~~~~~~kIivPLsYg~~n~~Yi~~V~~~~~~lF~ 243 (360)
T PF07429_consen 180 KKNKGKLTILVGNSGDPSNNHIEALEALKQQFGDDVKIIVPLSYGANNQAYIQQVIQAGKELFG 243 (360)
T ss_pred cCCCCceEEEEcCCCCCCccHHHHHHHHHHhcCCCeEEEEECCCCCchHHHHHHHHHHHHHhcC
Confidence 4567899999982 368999999996 45677787777777787
No 22
>COG1759 5-formaminoimidazole-4-carboxamide-1-beta-D-ribofuranosyl 5'-monophosphate synthetase (purine biosynthesis) [Nucleotide transport and metabolism]
Probab=39.16 E-value=14 Score=30.98 Aligned_cols=24 Identities=29% Similarity=0.559 Sum_probs=18.0
Q ss_pred CCCCCCCeEEEEEcCC--CeEEEEEc
Q 048483 20 PKDVPKGHVVVYVGEE--CKRFVIKV 43 (99)
Q Consensus 20 ~~~vpkG~~~VYVG~e--~kRfvVp~ 43 (99)
.--+|.|.|++|||-+ -..|.||+
T Consensus 87 ~I~IP~gSfv~Y~G~d~ie~~~~vP~ 112 (361)
T COG1759 87 AIFIPHGSFVAYVGYDGIENEFEVPM 112 (361)
T ss_pred eEEecCCceEEEecchhhhhcccCcc
Confidence 3458999999999965 35577764
No 23
>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=38.29 E-value=53 Score=27.11 Aligned_cols=52 Identities=19% Similarity=0.402 Sum_probs=40.2
Q ss_pred CCeEEEEEcCccC--cHHHHHHHHH---HHHhcCccCCCcEEeccCHHHHHHHHHHhCCC
Q 048483 35 ECKRFVIKVSLLE--HPLFKALLDR---AEEAFEFATGSKLRIPCNESIFRSILYFASPQ 89 (99)
Q Consensus 35 e~kRfvVp~~~L~--hP~F~~LL~~---aeeEfG~~~~G~L~IPC~~~~Fe~vl~~~~~~ 89 (99)
..+-|..|.+.|- ...|+++|.. ..++. .+=.|.+-||+..|+.++.-++++
T Consensus 12 ~~rdF~C~~~lL~~~M~YF~~~l~~~~~~~~~~---~~idisVhCDv~iF~WLm~yv~~~ 68 (317)
T PF11822_consen 12 EKRDFTCPRDLLVSEMRYFAEYLSRYINDSQRW---EEIDISVHCDVHIFEWLMRYVKGE 68 (317)
T ss_pred cceeeeccHHHHHHhhHHHHHHHhhcccccCcC---CCcceEEecChhHHHHHHHHhhcC
Confidence 3678999999885 5779999976 44432 235688889999999999988774
No 24
>KOG1359 consensus Glycine C-acetyltransferase/2-amino-3-ketobutyrate-CoA ligase [Amino acid transport and metabolism]
Probab=36.75 E-value=69 Score=27.18 Aligned_cols=54 Identities=24% Similarity=0.376 Sum_probs=41.7
Q ss_pred ccCcHHHHHHHHHHHHhcCccCCCcEEeccCHHHHHHHHH----HhCCCCCCCcccccC
Q 048483 45 LLEHPLFKALLDRAEEAFEFATGSKLRIPCNESIFRSILY----FASPQRDRSWFPFCF 99 (99)
Q Consensus 45 ~L~hP~F~~LL~~aeeEfG~~~~G~L~IPC~~~~Fe~vl~----~~~~~~~~~~~~~~~ 99 (99)
.-+||..-+--.+|-||||-.- ...++=|-.....+.|+ .+...+|.-+-|.||
T Consensus 80 LsshPeii~a~~~aleeyGaGl-ssvrfIcGtq~iHk~LE~kiAqfh~rED~ilypscf 137 (417)
T KOG1359|consen 80 LSSHPEIINAGQKALEEYGAGL-SSVRFICGTQDIHKLLESKIAQFHGREDTILYPSCF 137 (417)
T ss_pred ccCChHHHHHHHHHHHHhCCCc-cceeEEecchHHHHHHHHHHHHHhCCCceEEecccc
Confidence 3479999999999999999433 35778899888877764 455667777788887
No 25
>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=35.86 E-value=74 Score=20.07 Aligned_cols=21 Identities=24% Similarity=0.134 Sum_probs=18.2
Q ss_pred eEEEEEcCCCeEEEEEcCccC
Q 048483 27 HVVVYVGEECKRFVIKVSLLE 47 (99)
Q Consensus 27 ~~~VYVG~e~kRfvVp~~~L~ 47 (99)
.|+++|+...-++.|..+-|.
T Consensus 18 ~F~a~~~g~~i~C~Is~~aL~ 38 (83)
T PF07369_consen 18 RFPAQVDGMQIRCAISAEALE 38 (83)
T ss_dssp EEEEEETTEEEEEEEEHHHHH
T ss_pred EEEEEECCEEEEEEEeHHHHH
Confidence 588999988999999998873
No 26
>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=35.65 E-value=64 Score=20.87 Aligned_cols=27 Identities=15% Similarity=0.380 Sum_probs=17.3
Q ss_pred CeEEEEEcCCCeEEEEEcCccCcHHHHHHHHHH
Q 048483 26 GHVVVYVGEECKRFVIKVSLLEHPLFKALLDRA 58 (99)
Q Consensus 26 G~~~VYVG~e~kRfvVp~~~L~hP~F~~LL~~a 58 (99)
-|++++++++ +..|| ..+.+++||++-
T Consensus 25 rH~p~~i~~~--~l~v~----~d~~l~~~L~~l 51 (87)
T PF05194_consen 25 RHWPLFIEED--ELYVP----YDHVLEELLRKL 51 (87)
T ss_dssp TT--EEEETT--EEEEE------HHHHHHHHHT
T ss_pred CccceEEcCC--EEEec----CcHHHHHHHHHC
Confidence 3788999975 88888 556667777764
No 27
>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=34.52 E-value=18 Score=20.77 Aligned_cols=18 Identities=22% Similarity=0.412 Sum_probs=14.4
Q ss_pred ccCcHHHHHHHHHHHHhc
Q 048483 45 LLEHPLFKALLDRAEEAF 62 (99)
Q Consensus 45 ~L~hP~F~~LL~~aeeEf 62 (99)
||+.-.|+++..++.+||
T Consensus 1 YLsd~dF~~vFgm~~~eF 18 (36)
T PF02209_consen 1 YLSDEDFEKVFGMSREEF 18 (36)
T ss_dssp GS-HHHHHHHHSS-HHHH
T ss_pred CcCHHHHHHHHCCCHHHH
Confidence 788999999999999887
No 28
>smart00153 VHP Villin headpiece domain.
Probab=34.04 E-value=20 Score=20.41 Aligned_cols=18 Identities=22% Similarity=0.410 Sum_probs=16.0
Q ss_pred ccCcHHHHHHHHHHHHhc
Q 048483 45 LLEHPLFKALLDRAEEAF 62 (99)
Q Consensus 45 ~L~hP~F~~LL~~aeeEf 62 (99)
||+.-.|+.++.++.+||
T Consensus 1 yLsdeeF~~vfgmsr~eF 18 (36)
T smart00153 1 YLSDEDFEEVFGMTREEF 18 (36)
T ss_pred CCCHHHHHHHHCCCHHHH
Confidence 788889999999998887
No 29
>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=33.93 E-value=6.5 Score=26.99 Aligned_cols=11 Identities=45% Similarity=0.830 Sum_probs=7.9
Q ss_pred CccCcHHHHHH
Q 048483 44 SLLEHPLFKAL 54 (99)
Q Consensus 44 ~~L~hP~F~~L 54 (99)
.|||||.|.-|
T Consensus 4 ~YLNHPtFGlL 14 (88)
T PF12058_consen 4 TYLNHPTFGLL 14 (88)
T ss_dssp -EEEETTTEEE
T ss_pred ccccCCccchh
Confidence 58999988654
No 30
>PF11731 Cdd1: Pathogenicity locus; InterPro: IPR021725 Cdd1 is expressed as part of the pathogenicity locus operon in several different orders of bacteria []. Many members of the family are annotated as being putative mitomycin resistance proteins but this could not be confirmed.
Probab=33.55 E-value=1e+02 Score=21.02 Aligned_cols=38 Identities=26% Similarity=0.532 Sum_probs=29.4
Q ss_pred HHHHHHHHHhcCccCCCcEEeccCHHHHHHHHHHhCCCC-CCCc
Q 048483 52 KALLDRAEEAFEFATGSKLRIPCNESIFRSILYFASPQR-DRSW 94 (99)
Q Consensus 52 ~~LL~~aeeEfG~~~~G~L~IPC~~~~Fe~vl~~~~~~~-~~~~ 94 (99)
.+|-++.++-.|..+| ||-...|..++..++.++ ...|
T Consensus 45 ~~Ly~~lc~~~G~~~D-----pCvldvfr~av~~a~~~~~~~~W 83 (93)
T PF11731_consen 45 EELYERLCALTGQRHD-----PCVLDVFRCAVYFANGPEEKLKW 83 (93)
T ss_pred HHHHHHHHHHcCCcCC-----cHHHHHHHHHHHHHcCCCCCCCC
Confidence 3566666676777777 999999999999998887 4444
No 31
>PRK10308 3-methyl-adenine DNA glycosylase II; Provisional
Probab=32.09 E-value=1.3e+02 Score=23.74 Aligned_cols=66 Identities=20% Similarity=0.212 Sum_probs=44.6
Q ss_pred CCeEEEEEcCCCeEEEEEcCccCcHHHHHHHHHHHHhcCccCC---------------CcEEeccCHHHHHHHHHHhCCC
Q 048483 25 KGHVVVYVGEECKRFVIKVSLLEHPLFKALLDRAEEAFEFATG---------------SKLRIPCNESIFRSILYFASPQ 89 (99)
Q Consensus 25 kG~~~VYVG~e~kRfvVp~~~L~hP~F~~LL~~aeeEfG~~~~---------------G~L~IPC~~~~Fe~vl~~~~~~ 89 (99)
.|.+.|.-.++..++.|-++.-.-+....++.+...-|+.+.| -+|+||...+.||-+++.+-.+
T Consensus 45 ~~~~~v~~~~~~~~l~~~~~~~~~~~~~~~~~~vrr~fdLd~d~~~i~~~L~~~~~~~~GlR~p~~~d~fE~lv~aIigQ 124 (283)
T PRK10308 45 RGVVTVIPDIARHTLHINLSAGLEPVAAECLAKMSRLFDLQCNPQIVNGALGKLGAARPGLRLPGSVDAFEQGVRAILGQ 124 (283)
T ss_pred cEEEEEEEcCCCceEEEEEcCCccccHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHhCCCCcCCCCCCHHHHHHHHHHHh
Confidence 4566666555555666666654345556677777777777655 3689999999999988876544
Q ss_pred C
Q 048483 90 R 90 (99)
Q Consensus 90 ~ 90 (99)
+
T Consensus 125 q 125 (283)
T PRK10308 125 L 125 (283)
T ss_pred H
Confidence 3
No 32
>PRK13277 5-formaminoimidazole-4-carboxamide-1-(beta)-D-ribofuranosyl 5'-monophosphate synthetase-like protein; Provisional
Probab=30.94 E-value=16 Score=30.48 Aligned_cols=22 Identities=32% Similarity=0.529 Sum_probs=17.2
Q ss_pred CCCCCCeEEEEEcCCC--eEEEEE
Q 048483 21 KDVPKGHVVVYVGEEC--KRFVIK 42 (99)
Q Consensus 21 ~~vpkG~~~VYVG~e~--kRfvVp 42 (99)
--||.|.|++|||-+. ..|.||
T Consensus 88 i~iPh~sf~~y~g~~~ie~~~~vp 111 (366)
T PRK13277 88 IFVPNRSFAVYVGYDAIENEFKVP 111 (366)
T ss_pred EEecCCCeEEEecHHHHhhcCCCC
Confidence 3589999999999652 358787
No 33
>COG4862 MecA Negative regulator of genetic competence, sporulation and motility [Posttranslational modification, protein turnover, chaperones / Signal transduction mechanisms / Cell motility and secretion]
Probab=30.57 E-value=39 Score=26.71 Aligned_cols=27 Identities=22% Similarity=0.334 Sum_probs=24.3
Q ss_pred CcHHHHHHHHHHHHhcCccCCCcEEec
Q 048483 47 EHPLFKALLDRAEEAFEFATGSKLRIP 73 (99)
Q Consensus 47 ~hP~F~~LL~~aeeEfG~~~~G~L~IP 73 (99)
.|-.|-++++.+..|-+|...|+|+|-
T Consensus 37 ~EE~F~~mMdEl~~ee~F~~~GpL~iq 63 (224)
T COG4862 37 TEELFYEMMDELNLEEDFKDEGPLWIQ 63 (224)
T ss_pred HHHHHHHHHHhcCCccccccCCceEEE
Confidence 477899999999999999999999884
No 34
>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=28.11 E-value=99 Score=20.21 Aligned_cols=27 Identities=22% Similarity=0.238 Sum_probs=18.6
Q ss_pred cCcHHHHHHH----HHHHHhcCccCCCcEEe
Q 048483 46 LEHPLFKALL----DRAEEAFEFATGSKLRI 72 (99)
Q Consensus 46 L~hP~F~~LL----~~aeeEfG~~~~G~L~I 72 (99)
-..|.|++.| +.+-+||||.-...+.|
T Consensus 14 w~Dp~Fr~~Ll~DPraaL~e~G~~~P~~~~i 44 (77)
T TIGR03793 14 WEDEAFKQALLTNPKEALEREGVQVPAEVEV 44 (77)
T ss_pred HcCHHHHHHHHHCHHHHHHHhCCCCCCceEE
Confidence 3578999866 44456889987665554
No 35
>PF12062 HSNSD: heparan sulfate-N-deacetylase; InterPro: IPR021930 This family of proteins is are heparan sulphate N-deacetylase enzymes. This protein is found in eukaryotes. This enzyme is often found associated with PF00685 from PFAM. ; GO: 0015016 [heparan sulfate]-glucosamine N-sulfotransferase activity, 0016787 hydrolase activity
Probab=26.94 E-value=55 Score=28.59 Aligned_cols=39 Identities=21% Similarity=0.350 Sum_probs=34.0
Q ss_pred CCeEEEEEcCCCeEEEEEc-----CccCcHH-HHHHHHHHHHhcC
Q 048483 25 KGHVVVYVGEECKRFVIKV-----SLLEHPL-FKALLDRAEEAFE 63 (99)
Q Consensus 25 kG~~~VYVG~e~kRfvVp~-----~~L~hP~-F~~LL~~aeeEfG 63 (99)
||.+|+++-.++.||.|=+ .|+|-+. -++||++=..|||
T Consensus 96 kg~lP~LT~~~kGRy~lII~ENl~kYlnld~wNR~LLdkYC~ey~ 140 (487)
T PF12062_consen 96 KGDLPVLTDNDKGRYSLIIFENLLKYLNLDSWNRELLDKYCREYG 140 (487)
T ss_pred CCCCCccccCCCCcEEEEEehhHHHHcCChHHHHHHHHHHhHccC
Confidence 5888899877788998876 8999998 8999999999986
No 36
>KOG1290 consensus Serine/threonine protein kinase [Signal transduction mechanisms]
Probab=26.57 E-value=46 Score=29.66 Aligned_cols=21 Identities=19% Similarity=0.248 Sum_probs=16.4
Q ss_pred CCCCCeEEEEEcCC--CeEEEEE
Q 048483 22 DVPKGHVVVYVGEE--CKRFVIK 42 (99)
Q Consensus 22 ~vpkG~~~VYVG~e--~kRfvVp 42 (99)
=.+-||.||++|+. ..||+|-
T Consensus 61 Y~kGGYHpV~IGD~F~~gRY~v~ 83 (590)
T KOG1290|consen 61 YRKGGYHPVRIGDVFNGGRYHVQ 83 (590)
T ss_pred hhcCCCceeeccccccCceEEEE
Confidence 36889999999974 4688774
No 37
>PRK10499 PTS system N,N'-diacetylchitobiose-specific transporter subunit IIB; Provisional
Probab=25.95 E-value=30 Score=23.48 Aligned_cols=19 Identities=16% Similarity=0.249 Sum_probs=13.1
Q ss_pred ccCcHHHHHHHHHHHHhcC
Q 048483 45 LLEHPLFKALLDRAEEAFE 63 (99)
Q Consensus 45 ~L~hP~F~~LL~~aeeEfG 63 (99)
+|--|.++..+++.++..+
T Consensus 54 iLl~Pqi~~~~~~i~~~~~ 72 (106)
T PRK10499 54 VLLGPQIAYMLPEIQRLLP 72 (106)
T ss_pred EEECHHHHHHHHHHHhhcC
Confidence 3456888888887776543
No 38
>COG4314 NosL Predicted lipoprotein involved in nitrous oxide reduction [Energy production and conversion]
Probab=25.41 E-value=37 Score=25.89 Aligned_cols=28 Identities=25% Similarity=0.517 Sum_probs=22.9
Q ss_pred eeeecCCCCCCCCCCCCCCCCeEEEEEc
Q 048483 6 IWCCFKGTDEEYSIPKDVPKGHVVVYVG 33 (99)
Q Consensus 6 ~~c~~~~~~~~~~~~~~vpkG~~~VYVG 33 (99)
+||||..+.=+...-..-|||.-+|||-
T Consensus 64 ~wfsst~e~f~~tllPEepk~iaaiyV~ 91 (176)
T COG4314 64 IWFSSTREMFGFTLLPEEPKGIAAIYVS 91 (176)
T ss_pred eeeecHHHHhhHhcCCcCcCceeEEEEe
Confidence 6888887666777777789999999993
No 39
>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=24.83 E-value=72 Score=24.19 Aligned_cols=37 Identities=24% Similarity=0.335 Sum_probs=28.5
Q ss_pred CeEEEEEcCccCc--HHHHHHHHHHHHhcCccCC-CcEEe
Q 048483 36 CKRFVIKVSLLEH--PLFKALLDRAEEAFEFATG-SKLRI 72 (99)
Q Consensus 36 ~kRfvVp~~~L~h--P~F~~LL~~aeeEfG~~~~-G~L~I 72 (99)
-=+|.+|++||.. -.|++|+....+.+-..|. +++.+
T Consensus 24 ~l~f~~P~~~l~~~~~~~~~l~~~~a~~L~~~~G~aGl~~ 63 (208)
T PF11876_consen 24 YLSFSLPLEWLEEGPGHFRALFLELAERLPPSHGYAGLAF 63 (208)
T ss_pred EEEEEeCHHHHhcCcHHHHHHHHHHHHHCCCCeEeeEEEE
Confidence 4589999999986 3599999999998777663 44444
No 40
>COG2139 RPL21A Ribosomal protein L21E [Translation, ribosomal structure and biogenesis]
Probab=24.27 E-value=59 Score=22.70 Aligned_cols=21 Identities=29% Similarity=0.477 Sum_probs=17.6
Q ss_pred EEEEEcCCCeEEEEEcCccCc
Q 048483 28 VVVYVGEECKRFVIKVSLLEH 48 (99)
Q Consensus 28 ~~VYVG~e~kRfvVp~~~L~h 48 (99)
+.||+|...|+..|...+|.+
T Consensus 73 V~v~~G~k~K~liv~peHLk~ 93 (98)
T COG2139 73 VEVYDGNKEKTLIVRPEHLKP 93 (98)
T ss_pred EEEecCCceEEEEeCHHHccc
Confidence 678889888999998888875
No 41
>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=24.04 E-value=84 Score=21.72 Aligned_cols=29 Identities=24% Similarity=0.485 Sum_probs=24.4
Q ss_pred CCeEEEEEcCccCcHHHHHHHHHHHHhcC
Q 048483 35 ECKRFVIKVSLLEHPLFKALLDRAEEAFE 63 (99)
Q Consensus 35 e~kRfvVp~~~L~hP~F~~LL~~aeeEfG 63 (99)
..+-..|.-+.-..|.|++||....++|+
T Consensus 14 ~~rdi~vee~l~~~P~~kdLl~lmr~~f~ 42 (92)
T cd06399 14 TIRDIAVEEDLSSTPLLKDLLELTRREFQ 42 (92)
T ss_pred cccceEeecccccCccHHHHHHHHHHHhc
Confidence 34566777788899999999999999886
No 42
>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=23.51 E-value=1.4e+02 Score=20.20 Aligned_cols=54 Identities=13% Similarity=0.311 Sum_probs=36.8
Q ss_pred EEEcCCCeEEEEEcCccCcHHHHHHHHHHHHhcCcc----------CCC-cEEeccCHHHHHHHHHHhCC
Q 048483 30 VYVGEECKRFVIKVSLLEHPLFKALLDRAEEAFEFA----------TGS-KLRIPCNESIFRSILYFASP 88 (99)
Q Consensus 30 VYVG~e~kRfvVp~~~L~hP~F~~LL~~aeeEfG~~----------~~G-~L~IPC~~~~Fe~vl~~~~~ 88 (99)
|--|.+.|||..|. -|.+.+|-++-+.=|-+. .|| .|||.=+.+ ++.++....+
T Consensus 5 v~~~g~~RRf~~~~----~pt~~~L~~kl~~Lf~lp~~~~~vtYiDeD~D~ITlssd~e-L~d~~~~~~~ 69 (82)
T cd06397 5 SSFLGDTRRIVFPD----IPTWEALASKLENLYNLPEIKVGVTYIDNDNDEITLSSNKE-LQDFYRLSHR 69 (82)
T ss_pred EEeCCceEEEecCC----CccHHHHHHHHHHHhCCChhHeEEEEEcCCCCEEEecchHH-HHHHHHhccc
Confidence 33456899999998 899999999988766655 343 577775544 4455544433
No 43
>PF04341 DUF485: Protein of unknown function, DUF485; InterPro: IPR007436 This family includes several putative integral membrane proteins.
Probab=23.09 E-value=61 Score=21.32 Aligned_cols=12 Identities=42% Similarity=0.769 Sum_probs=10.3
Q ss_pred cCcHHHHHHHHH
Q 048483 46 LEHPLFKALLDR 57 (99)
Q Consensus 46 L~hP~F~~LL~~ 57 (99)
++||.|++|.++
T Consensus 2 ~~~p~f~~L~r~ 13 (91)
T PF04341_consen 2 LRSPEFQELVRR 13 (91)
T ss_pred CCCHHHHHHHHH
Confidence 589999999875
No 44
>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=21.85 E-value=1.4e+02 Score=19.65 Aligned_cols=40 Identities=23% Similarity=0.352 Sum_probs=32.7
Q ss_pred CCCeEEEEEcCC----CeEEEEEcCccCcHHH---HHHHHHHHHhcC
Q 048483 24 PKGHVVVYVGEE----CKRFVIKVSLLEHPLF---KALLDRAEEAFE 63 (99)
Q Consensus 24 pkG~~~VYVG~e----~kRfvVp~~~L~hP~F---~~LL~~aeeEfG 63 (99)
++-+.+.+.|.. ..++-+...|+.|+.+ |.|++++.|.|.
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 666778888964 4677788899999999 589999999875
No 45
>TIGR00853 pts-lac PTS system, lactose/cellobiose family IIB component. Bacterial PTS transporters transport and concomitantly phosphorylate their sugar substrates, and typically consist of multiple subunits or protein domains.The Lac family includes several sequenced lactose (b-galactoside) permeases of Gram-positive bacteria as well as those in E. coli. While the Lac family usually consists of two polypeptide components IIA and IICB, the Chb permease of E. coli consists of three IIA, IIB and IIC. This family is specific for the IIB subunit of the Lac PTS family.
Probab=21.69 E-value=36 Score=22.61 Aligned_cols=16 Identities=31% Similarity=0.590 Sum_probs=11.2
Q ss_pred CCCCce-eeecCCCCCC
Q 048483 1 MEESKI-WCCFKGTDEE 16 (99)
Q Consensus 1 ~~~~~~-~c~~~~~~~~ 16 (99)
|+++|+ .||++|..++
T Consensus 1 ~~~~~ILl~C~~G~sSS 17 (95)
T TIGR00853 1 MNETNILLLCAAGMSTS 17 (95)
T ss_pred CCccEEEEECCCchhHH
Confidence 456665 9999987654
No 46
>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=21.14 E-value=1.4 Score=31.79 Aligned_cols=23 Identities=35% Similarity=0.608 Sum_probs=12.2
Q ss_pred CCCCCCeEEEEEcCC--CeEEEEEc
Q 048483 21 KDVPKGHVVVYVGEE--CKRFVIKV 43 (99)
Q Consensus 21 ~~vpkG~~~VYVG~e--~kRfvVp~ 43 (99)
--||-|.|++|||-+ .++|.||+
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 348999999999954 23355554
No 47
>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=20.88 E-value=91 Score=20.75 Aligned_cols=23 Identities=4% Similarity=0.196 Sum_probs=19.5
Q ss_pred CCcEEeccCHHHHHHHHHHhCCC
Q 048483 67 GSKLRIPCNESIFRSILYFASPQ 89 (99)
Q Consensus 67 ~G~L~IPC~~~~Fe~vl~~~~~~ 89 (99)
...+.+-|+++.|++++..|+.+
T Consensus 64 ~~~i~f~c~~e~L~~Li~~Lk~A 86 (95)
T cd04751 64 KPDINFTCTLEQLQDLVNKLKDA 86 (95)
T ss_pred cceEEEEeCHHHHHHHHHHHHHH
Confidence 35899999999999999887643
No 48
>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=20.06 E-value=1.8e+02 Score=19.55 Aligned_cols=40 Identities=18% Similarity=0.232 Sum_probs=25.9
Q ss_pred cCCCeEEEEEcCccCcHHHHHHHHHHHHhcCcc-------------CCC-cEEeccC
Q 048483 33 GEECKRFVIKVSLLEHPLFKALLDRAEEAFEFA-------------TGS-KLRIPCN 75 (99)
Q Consensus 33 G~e~kRfvVp~~~L~hP~F~~LL~~aeeEfG~~-------------~~G-~L~IPC~ 75 (99)
|++-||+.+|..-+ .|.+|.++....|... .+| -+||.++
T Consensus 8 g~DiR~~~~~~~~~---t~~~L~~~v~~~F~~~~~~~~~flIKYkD~dGDlVTIts~ 61 (81)
T cd06401 8 GDDIRRIPIHNEDI---TYDELLLMMQRVFRGKLGSSDDVLIKYKDEDGDLITIFDS 61 (81)
T ss_pred CCeEEEEeccCccc---cHHHHHHHHHHHhccccCCcccEEEEEECCCCCEEEeccH
Confidence 77889966665223 5777888877666522 345 4778776
Done!