Query 041860
Match_columns 124
No_of_seqs 118 out of 615
Neff 4.7
Searched_HMMs 46136
Date Fri Mar 29 11:27:20 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/041860.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/041860hhsearch_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-38 7.7E-43 226.8 10.7 99 10-114 5-103 (104)
2 PF02519 Auxin_inducible: Auxi 100.0 3.1E-35 6.8E-40 209.5 10.5 93 20-114 7-99 (100)
3 PLN03219 uncharacterized prote 100.0 1.1E-32 2.3E-37 199.4 10.6 71 43-113 33-104 (108)
4 PLN03220 uncharacterized prote 100.0 1.2E-32 2.6E-37 198.2 10.5 90 19-114 11-103 (105)
5 PF02214 BTB_2: BTB/POZ domain 86.9 0.7 1.5E-05 31.0 2.8 52 65-116 8-62 (94)
6 PRK02899 adaptor protein; Prov 83.9 0.99 2.1E-05 35.5 2.7 25 76-100 38-62 (197)
7 PRK02315 adaptor protein; Prov 78.6 1.6 3.6E-05 35.0 2.3 25 76-100 38-62 (233)
8 PF05389 MecA: Negative regula 73.5 1.1 2.3E-05 35.1 0.0 25 76-100 38-62 (220)
9 cd05992 PB1 The PB1 domain is 69.6 26 0.00057 22.3 7.3 52 61-116 8-70 (81)
10 smart00666 PB1 PB1 domain. Pho 55.3 53 0.0012 21.0 7.6 51 61-116 9-70 (81)
11 cd06410 PB1_UP2 Uncharacterize 43.4 61 0.0013 22.8 4.6 53 55-114 17-82 (97)
12 cd06398 PB1_Joka2 The PB1 doma 41.4 93 0.002 21.6 5.2 48 61-108 8-68 (91)
13 PF11834 DUF3354: Domain of un 38.5 26 0.00057 23.4 2.0 16 78-93 27-42 (69)
14 PF02209 VHP: Villin headpiece 38.1 13 0.00028 22.1 0.4 18 73-90 1-18 (36)
15 cd06407 PB1_NLP A PB1 domain i 36.8 1.3E+02 0.0027 20.5 5.2 49 61-114 8-68 (82)
16 PF12058 DUF3539: Protein of u 36.6 7 0.00015 27.7 -1.1 9 72-80 4-12 (88)
17 PF00651 BTB: BTB/POZ domain; 35.8 1E+02 0.0022 20.1 4.6 47 65-115 21-72 (111)
18 smart00153 VHP Villin headpiec 33.9 17 0.00037 21.4 0.4 18 73-90 1-18 (36)
19 cd01406 SIR2-like Sir2-like: P 33.0 1E+02 0.0022 23.9 4.8 36 52-95 1-36 (242)
20 PRK13701 psiB plasmid SOS inhi 32.7 82 0.0018 24.2 4.0 51 44-94 78-130 (144)
21 cd06397 PB1_UP1 Uncharacterize 31.2 1.5E+02 0.0032 20.8 4.8 51 61-116 8-69 (82)
22 PRK13347 coproporphyrinogen II 30.6 1.3E+02 0.0029 26.0 5.5 48 52-107 103-150 (453)
23 PF11822 DUF3342: Domain of un 30.2 72 0.0016 27.3 3.7 52 62-116 11-67 (317)
24 cd06399 PB1_P40 The PB1 domain 30.0 92 0.002 22.3 3.7 31 61-91 12-42 (92)
25 cd06408 PB1_NoxR The PB1 domai 29.9 2E+02 0.0042 20.1 5.3 36 78-115 23-68 (86)
26 PF02100 ODC_AZ: Ornithine dec 29.2 39 0.00085 24.1 1.7 40 73-113 37-76 (108)
27 PF08861 DUF1828: Domain of un 28.5 1.5E+02 0.0032 19.9 4.5 39 76-114 44-83 (90)
28 PRK09057 coproporphyrinogen II 27.5 1E+02 0.0022 26.0 4.2 46 54-107 57-102 (380)
29 cd06396 PB1_NBR1 The PB1 domai 27.1 2.2E+02 0.0047 19.7 5.7 54 61-117 8-70 (81)
30 PF15387 DUF4611: Domain of un 27.0 34 0.00074 24.6 1.1 23 96-118 13-39 (96)
31 PRK06582 coproporphyrinogen II 26.9 1.3E+02 0.0028 25.7 4.8 47 53-107 63-109 (390)
32 PF07369 DUF1488: Protein of u 26.5 1.9E+02 0.0041 18.9 4.7 21 53-75 18-38 (83)
33 cd06080 MUM1_like Mutated mela 26.4 1.1E+02 0.0023 21.0 3.4 42 50-91 28-74 (80)
34 PRK10308 3-methyl-adenine DNA 25.2 2.7E+02 0.006 22.8 6.3 62 51-114 45-121 (283)
35 PF07104 DUF1366: Protein of u 25.0 1.4E+02 0.0031 21.9 4.0 42 48-90 15-56 (116)
36 TIGR03793 TOMM_pelo TOMM prope 24.4 1.3E+02 0.0028 20.4 3.5 27 74-100 14-44 (77)
37 PF00564 PB1: PB1 domain; Int 24.4 2E+02 0.0042 18.3 8.0 52 61-117 9-72 (84)
38 PF13421 Band_7_1: SPFH domain 24.1 1.1E+02 0.0024 24.1 3.6 44 46-94 16-64 (211)
39 PRK07379 coproporphyrinogen II 24.1 1.3E+02 0.0029 25.5 4.3 48 52-107 66-113 (400)
40 PRK08599 coproporphyrinogen II 24.0 1.5E+02 0.0032 24.7 4.5 49 52-108 51-99 (377)
41 PRK09058 coproporphyrinogen II 22.1 1.5E+02 0.0032 25.7 4.3 48 53-108 115-162 (449)
42 PF05419 GUN4: GUN4-like ; In 21.5 12 0.00026 27.8 -2.2 25 46-80 108-132 (132)
43 COG0635 HemN Coproporphyrinoge 21.4 1E+02 0.0022 26.8 3.1 49 52-108 87-136 (416)
44 COG4862 MecA Negative regulato 21.2 64 0.0014 26.5 1.7 27 75-101 37-63 (224)
45 TIGR03687 pupylate_cterm ubiqu 21.1 45 0.00098 19.6 0.6 19 79-97 12-32 (33)
46 PRK05628 coproporphyrinogen II 20.7 1.6E+02 0.0036 24.5 4.2 47 53-107 60-106 (375)
No 1
>PLN03090 auxin-responsive family protein; Provisional
Probab=100.00 E-value=3.6e-38 Score=226.81 Aligned_cols=99 Identities=37% Similarity=0.646 Sum_probs=85.8
Q ss_pred ccccccchhHHHHHHHHHHhhhccCCCCCCCCCCCCCCCCCCceEEEEeecCceeeEEEEeecccCcHHHHHHHHHHHHh
Q 041860 10 KIIKKSGIVKLKIAVEKIHKSLLMGRKSNSYCDDYVPQDVKEGHFAVIAVDGHQQKRFVISLSYLTHPMFLRLLEQAAEE 89 (124)
Q Consensus 10 ~~~~~~~i~kLk~~~kk~~~~~~~~~k~~~~~~~~~~~~vpkG~~aVyV~~G~e~~RfvVp~~yL~hP~F~~LL~~aeeE 89 (124)
|.+|+.++++||+|+++|.+.. +++. +.....|.+||+||||||| |++++||+||++|||||+|++||++||||
T Consensus 5 k~~ki~~~~~~kq~l~r~~s~~---~~~~-~~~~~~~~~vpkG~~aVyV--G~~~~RfvVp~~~L~hP~F~~LL~~aeeE 78 (104)
T PLN03090 5 KSNKLTQTAMLKQILKRCSSLG---KKQG-YDEDGLPLDVPKGHFPVYV--GENRSRYIVPISFLTHPEFQSLLQQAEEE 78 (104)
T ss_pred cccchhHHHHHHHHHHHHHHhc---ccCC-cccccCCCCCCCCcEEEEE--CCCCEEEEEEHHHcCCHHHHHHHHHHHHH
Confidence 3446888999999999998653 3322 1223468889999999999 77889999999999999999999999999
Q ss_pred cCCCCCCceEecCCHHHHHHHHHHH
Q 041860 90 YGFDHEGALTIPCRPSELERILAER 114 (124)
Q Consensus 90 fG~~~~G~L~iPC~~~~Fe~vL~~~ 114 (124)
|||+|+|+|+|||+++.|+++||.+
T Consensus 79 fGf~~~G~L~IPC~~~~Fe~ll~~i 103 (104)
T PLN03090 79 FGFDHDMGLTIPCEEVVFRSLTSMI 103 (104)
T ss_pred hCCCCCCcEEEeCCHHHHHHHHHHh
Confidence 9999999999999999999999987
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=3.1e-35 Score=209.45 Aligned_cols=93 Identities=41% Similarity=0.660 Sum_probs=76.5
Q ss_pred HHHHHHHHHhhhccCCCCCCCCCCCCCCCCCCceEEEEeecCceeeEEEEeecccCcHHHHHHHHHHHHhcCCCCCCceE
Q 041860 20 LKIAVEKIHKSLLMGRKSNSYCDDYVPQDVKEGHFAVIAVDGHQQKRFVISLSYLTHPMFLRLLEQAAEEYGFDHEGALT 99 (124)
Q Consensus 20 Lk~~~kk~~~~~~~~~k~~~~~~~~~~~~vpkG~~aVyV~~G~e~~RfvVp~~yL~hP~F~~LL~~aeeEfG~~~~G~L~ 99 (124)
...++++|++.....+...+..++....++|+||||||| |++++||+||++|||||+|++||++|+|||||+++|+|+
T Consensus 7 ~~~~~~k~~~~~~~~~~~~~~~~~~~~~~vp~G~~~VyV--G~~~~Rfvvp~~~L~hp~f~~LL~~aeeEfG~~~~G~l~ 84 (100)
T PF02519_consen 7 SLASAKKWQSRARSKSSSSSSSRSSSESDVPKGHFAVYV--GEERRRFVVPVSYLNHPLFQELLEQAEEEFGFDQDGPLT 84 (100)
T ss_pred HHHHHHhhhhhhhhcccccccccccccCCCCCCeEEEEe--CccceEEEechHHcCchhHHHHHHHHhhhcCcCCCCcEE
Confidence 344456777655544433332222334789999999999 879999999999999999999999999999999999999
Q ss_pred ecCCHHHHHHHHHHH
Q 041860 100 IPCRPSELERILAER 114 (124)
Q Consensus 100 iPC~~~~Fe~vL~~~ 114 (124)
|||+++.|+++||.+
T Consensus 85 iPC~~~~Fe~~l~~l 99 (100)
T PF02519_consen 85 IPCDVVLFEHLLWLL 99 (100)
T ss_pred eeCCHHHHHHHHHHh
Confidence 999999999999976
No 3
>PLN03219 uncharacterized protein; Provisional
Probab=100.00 E-value=1.1e-32 Score=199.40 Aligned_cols=71 Identities=41% Similarity=0.748 Sum_probs=65.4
Q ss_pred CCCCCCCCCceEEEEeecCceeeEEEEeecccCcHHHHHHHHHHHHhcCCCC-CCceEecCCHHHHHHHHHH
Q 041860 43 DYVPQDVKEGHFAVIAVDGHQQKRFVISLSYLTHPMFLRLLEQAAEEYGFDH-EGALTIPCRPSELERILAE 113 (124)
Q Consensus 43 ~~~~~~vpkG~~aVyV~~G~e~~RfvVp~~yL~hP~F~~LL~~aeeEfG~~~-~G~L~iPC~~~~Fe~vL~~ 113 (124)
.+.+.+||+||||||||+++|++||+||++|||||+|++||++|||||||+| +|+|+|||+++.|+++|..
T Consensus 33 ~~~~~~vpkGh~aVYVG~~~E~kRFvVPi~yL~hP~F~~LL~~AeEEfGf~~~~G~L~IPCd~~~F~~ll~~ 104 (108)
T PLN03219 33 TTTSGLVPKGHVAVYVGEQMEKKRFVVPISYLNHPLFREFLNRAEEECGFHHSMGGLTIPCREESFLHLITS 104 (108)
T ss_pred CCCCCCCCCCeEEEEECCCCCceEEEEEHHHcCChHHHHHHHHHHHHhCCCCCCCCEEEeCCHHHHHHHHHh
Confidence 3456789999999999776689999999999999999999999999999997 5999999999999999975
No 4
>PLN03220 uncharacterized protein; Provisional
Probab=100.00 E-value=1.2e-32 Score=198.24 Aligned_cols=90 Identities=34% Similarity=0.630 Sum_probs=72.5
Q ss_pred HHHHHHHHHHhhhccCCCCCCCCCCCCCCCCCCceEEEEeecC--ceeeEEEEeecccCcHHHHHHHHHHHHhcCCCC-C
Q 041860 19 KLKIAVEKIHKSLLMGRKSNSYCDDYVPQDVKEGHFAVIAVDG--HQQKRFVISLSYLTHPMFLRLLEQAAEEYGFDH-E 95 (124)
Q Consensus 19 kLk~~~kk~~~~~~~~~k~~~~~~~~~~~~vpkG~~aVyV~~G--~e~~RfvVp~~yL~hP~F~~LL~~aeeEfG~~~-~ 95 (124)
++||++++.. . +++... .+..+.+||+||||||||++ .+++||+||++|||||+|++||++|||||||+| +
T Consensus 11 ~~k~~~~~~~-~---~~~~~~--~~~~~~~VPkGh~aVyVGe~~~~e~kRFVVPv~yL~hP~F~~LL~~AeEEfGf~~~~ 84 (105)
T PLN03220 11 ATKQILKLNS-L---ANRNRT--SSSSSDHVPKGHVAVYVGEQIEMEKKRFVVPISFLNHPSFKEFLSRAEEEFGFNHPM 84 (105)
T ss_pred HHHHHHHHHh-h---cccccc--cccccCCCCCCeEEEEECCCCCccceEEEEEHHHcCChHHHHHHHHHHHHhCCCCCC
Confidence 4577777665 2 221111 12356789999999999654 257999999999999999999999999999998 5
Q ss_pred CceEecCCHHHHHHHHHHH
Q 041860 96 GALTIPCRPSELERILAER 114 (124)
Q Consensus 96 G~L~iPC~~~~Fe~vL~~~ 114 (124)
|+|+|||+++.|+++|...
T Consensus 85 G~L~IPCd~~~F~~ll~s~ 103 (105)
T PLN03220 85 GGLTIPCREEVFLDLIASR 103 (105)
T ss_pred CCEEeeCCHHHHHHHHHhh
Confidence 9999999999999999754
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=86.91 E-value=0.7 Score=30.99 Aligned_cols=52 Identities=29% Similarity=0.269 Sum_probs=39.6
Q ss_pred eEEEEeecccC-cH--HHHHHHHHHHHhcCCCCCCceEecCCHHHHHHHHHHHHh
Q 041860 65 KRFVISLSYLT-HP--MFLRLLEQAAEEYGFDHEGALTIPCRPSELERILAERWR 116 (124)
Q Consensus 65 ~RfvVp~~yL~-hP--~F~~LL~~aeeEfG~~~~G~L~iPC~~~~Fe~vL~~~~~ 116 (124)
++|.++.+-|. +| .|..|+........-+.+|.+-|-++...|++||.-++.
T Consensus 8 ~~f~~~~~tL~~~~~s~l~~~~~~~~~~~~~~~~~~~fiDRdp~~F~~IL~ylr~ 62 (94)
T PF02214_consen 8 TIFETSRSTLTRYPDSLLARLFSGERSDDYDDDDGEYFIDRDPELFEYILNYLRT 62 (94)
T ss_dssp EEEEEEHHHHHTSTTSTTTSHHHTGHGGGEETTTTEEEESS-HHHHHHHHHHHHH
T ss_pred EEEEEcHHHHhhCCCChhhhHHhhccccccCCccceEEeccChhhhhHHHHHHhh
Confidence 89999999888 44 788888864222222346999999999999999998776
No 6
>PRK02899 adaptor protein; Provisional
Probab=83.87 E-value=0.99 Score=35.50 Aligned_cols=25 Identities=28% Similarity=0.808 Sum_probs=21.9
Q ss_pred cHHHHHHHHHHHHhcCCCCCCceEe
Q 041860 76 HPMFLRLLEQAAEEYGFDHEGALTI 100 (124)
Q Consensus 76 hP~F~~LL~~aeeEfG~~~~G~L~i 100 (124)
+-+|.++|++|..|+||..+|||+|
T Consensus 38 e~lF~~mm~Ea~~e~~F~~~~pl~~ 62 (197)
T PRK02899 38 HQLFRDMMQEANKELGFEADGPIAV 62 (197)
T ss_pred HHHHHHHHHHhhhccCcccCCeEEE
Confidence 4578888999999999999999985
No 7
>PRK02315 adaptor protein; Provisional
Probab=78.64 E-value=1.6 Score=34.95 Aligned_cols=25 Identities=28% Similarity=0.557 Sum_probs=22.8
Q ss_pred cHHHHHHHHHHHHhcCCCCCCceEe
Q 041860 76 HPMFLRLLEQAAEEYGFDHEGALTI 100 (124)
Q Consensus 76 hP~F~~LL~~aeeEfG~~~~G~L~i 100 (124)
+-+|.++|++|..|+||..+|||+|
T Consensus 38 e~fF~~mm~Ea~~e~~F~~~~pl~~ 62 (233)
T PRK02315 38 EEFFYSMMDEVDEEDDFADEGPLWF 62 (233)
T ss_pred HHHHHHHHHHhccccCcccCCeEEE
Confidence 4689999999999999999999986
No 8
>PF05389 MecA: Negative regulator of genetic competence (MecA); InterPro: IPR008681 Competence is the ability of a cell to take up exogenous DNA from its environment, resulting in transformation. It is widespread among bacteria and is probably an important mechanism for the horizontal transfer of genes. Cells that take up DNA inevitably acquire the nucleotides the DNA consists of, and, because nucleotides are needed for DNA and RNA synthesis and are expensive to synthesise, these may make a significant contribution to the cell's energy budget []. The lateral gene transfer caused by competence also contributes to the genetic diversity that makes evolution possible. DNA usually becomes available by the death and lysis of other cells. Competent bacteria use components of extracellular filaments called type 4 pili to create pores in their membranes and pull DNA through the pores into the cytoplasm. This process, including the development of competence and the expression of the uptake machinery, is regulated in response to cell-cell signalling and/or nutritional conditions []. This family contains several bacterial MecA proteins. In complex media competence development is poor, and there is little or no expression of late competence genes. Overexpression of MecA inhibits comG transcription [, , ]. MecA enables the recognition and targeting of unfolded and aggregated proteins to the ClpC protease or to other proteins involved in proteolysis. Acts negatively in the development of competence by binding ComK and recruiting it to the ClpCP protease. When overexpressed, inhibits sporulation. Also involved in Spx degradation by ClpC. ; PDB: 3JTP_C 2Y1R_O 3PXI_c 3PXG_b 3JTO_D 3JTN_A.
Probab=73.48 E-value=1.1 Score=35.14 Aligned_cols=25 Identities=44% Similarity=0.828 Sum_probs=0.0
Q ss_pred cHHHHHHHHHHHHhcCCCCCCceEe
Q 041860 76 HPMFLRLLEQAAEEYGFDHEGALTI 100 (124)
Q Consensus 76 hP~F~~LL~~aeeEfG~~~~G~L~i 100 (124)
+-+|.++|++|.+|+||..+|+|++
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 5689999999999999999999886
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=69.59 E-value=26 Score=22.34 Aligned_cols=52 Identities=33% Similarity=0.562 Sum_probs=38.8
Q ss_pred CceeeEEEEeecccCcHHHHHHHHHHHHhcCCC----------CCCc-eEecCCHHHHHHHHHHHHh
Q 041860 61 GHQQKRFVISLSYLTHPMFLRLLEQAAEEYGFD----------HEGA-LTIPCRPSELERILAERWR 116 (124)
Q Consensus 61 G~e~~RfvVp~~yL~hP~F~~LL~~aeeEfG~~----------~~G~-L~iPC~~~~Fe~vL~~~~~ 116 (124)
+++.+||.+|. .++.|.+|..+..+.|++. .+|- ++|.++ +.|+.++....+
T Consensus 8 ~~~~~~~~~~~---~~~s~~~L~~~i~~~~~~~~~~~~l~y~D~e~d~v~l~sd-~Dl~~a~~~~~~ 70 (81)
T cd05992 8 GGEIRRFVVVS---RSISFEDLRSKIAEKFGLDAVSFKLKYPDEDGDLVTISSD-EDLEEAIEEARR 70 (81)
T ss_pred cCCCEEEEEec---CCCCHHHHHHHHHHHhCCCCCcEEEEeeCCCCCEEEeCCH-HHHHHHHHHHhh
Confidence 45689999997 7899999999999999875 2343 445554 577778777654
No 10
>smart00666 PB1 PB1 domain. Phox and Bem1p domain, present in many eukaryotic cytoplasmic signalling proteins. The domain adopts a beta-grasp fold, similar to that found in ubiquitin and Ras-binding domains. A motif, variously termed OPR, PC and AID, represents the most conserved region of the majority of PB1 domains, and is necessary for PB1 domain function. This function is the formation of PB1 domain heterodimers, although not all PB1 domain pairs associate.
Probab=55.30 E-value=53 Score=21.04 Aligned_cols=51 Identities=22% Similarity=0.432 Sum_probs=38.7
Q ss_pred CceeeEEEEeecccCcHHHHHHHHHHHHhcCCC----------CCC-ceEecCCHHHHHHHHHHHHh
Q 041860 61 GHQQKRFVISLSYLTHPMFLRLLEQAAEEYGFD----------HEG-ALTIPCRPSELERILAERWR 116 (124)
Q Consensus 61 G~e~~RfvVp~~yL~hP~F~~LL~~aeeEfG~~----------~~G-~L~iPC~~~~Fe~vL~~~~~ 116 (124)
|++.+||.||- ...|.+|..+..+.|+.. .+| .++|.++. .++.++....+
T Consensus 9 ~~~~~~~~~~~----~~s~~dL~~~i~~~~~~~~~~~~l~Y~Dedgd~v~l~sd~-Dl~~a~~~~~~ 70 (81)
T smart00666 9 GGETRRLSVPR----DISFEDLRSKVAKRFGLDNQSFTLKYQDEDGDLVSLTSDE-DLEEAIEEYDS 70 (81)
T ss_pred CCEEEEEEECC----CCCHHHHHHHHHHHhCCCCCCeEEEEECCCCCEEEecCHH-HHHHHHHHHHH
Confidence 66889999985 778999999999999874 245 67788855 56667766554
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=43.38 E-value=61 Score=22.81 Aligned_cols=53 Identities=13% Similarity=0.266 Sum_probs=36.1
Q ss_pred EEEeecCceeeEEEEeecccCcHHHHHHHHHHHHhcCCCC-------------CCceEecCCHHHHHHHHHHH
Q 041860 55 AVIAVDGHQQKRFVISLSYLTHPMFLRLLEQAAEEYGFDH-------------EGALTIPCRPSELERILAER 114 (124)
Q Consensus 55 aVyV~~G~e~~RfvVp~~yL~hP~F~~LL~~aeeEfG~~~-------------~G~L~iPC~~~~Fe~vL~~~ 114 (124)
.=|| |++.+-..|+-+ . .|.+|..+..+.++... ++-+.|.||.++ .+++...
T Consensus 17 l~Y~--GG~tr~i~V~r~-~---s~~el~~kl~~~~~~~~~~~lky~Lp~edld~Lisv~~DeDl-~~M~~e~ 82 (97)
T cd06410 17 LRYV--GGETRIVSVDRS-I---SFKELVSKLSELFGAGVVVTLKYQLPDEDLDALISVSNDEDL-KNMMEEY 82 (97)
T ss_pred EEEc--CCceEEEEEcCC-C---CHHHHHHHHHHHhCCCCceEEEEEcCCCCcceeEEecCcHHH-HHHHHhh
Confidence 4689 778888888866 3 56777888888776655 345667788743 4455443
No 12
>cd06398 PB1_Joka2 The PB1 domain is present in the Nicotiana plumbaginifolia Joka2 protein which interacts with sulfur stress inducible UP9 protein. The PB1 domain is a modular domain mediating specific protein-protein interactions which play a role in many critical cell processes, such as osteoclastogenesis, angiogenesis, early cardiovascular development and cell polarity. A canonical PB1-PB1 interaction, which involves heterodimerization of two PB1 domain, is required for the formation of macromolecular signaling complexes ensuring specificity and fidelity during cellular signaling. The interaction between two PB1 domain depends on the type of PB1. There are three types of PB1 domains: type I which contains an OPCA motif, acidic aminoacid cluster, type II which contains a basic cluster, and type I/II which contains both an OPCA motif and a basic cluster. Interactions of PB1 domains with other protein domains have been described as noncanonical PB1-interactions. The PB1 domain module
Probab=41.45 E-value=93 Score=21.59 Aligned_cols=48 Identities=17% Similarity=0.233 Sum_probs=34.8
Q ss_pred CceeeEEEEeecc-cCcHHHHHHHHHHHHhcCCCC-----------CC-ceEecCCHHHHH
Q 041860 61 GHQQKRFVISLSY-LTHPMFLRLLEQAAEEYGFDH-----------EG-ALTIPCRPSELE 108 (124)
Q Consensus 61 G~e~~RfvVp~~y-L~hP~F~~LL~~aeeEfG~~~-----------~G-~L~iPC~~~~Fe 108 (124)
|++.+||-+|.+- -.+.-|..|.++-++-|.... +| -++|.|+.+.-+
T Consensus 8 ~~~~rRf~l~~~~~~~d~~~~~L~~kI~~~f~l~~~~~~~l~Y~Dedgd~V~l~~D~DL~~ 68 (91)
T cd06398 8 GGTLRRFTFPVAENQLDLNMDGLREKVEELFSLSPDADLSLTYTDEDGDVVTLVDDNDLTD 68 (91)
T ss_pred CCEEEEEEeccccccCCCCHHHHHHHHHHHhCCCCCCcEEEEEECCCCCEEEEccHHHHHH
Confidence 7789999999740 114578999999998887653 34 477888877654
No 13
>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=38.52 E-value=26 Score=23.40 Aligned_cols=16 Identities=38% Similarity=0.688 Sum_probs=15.0
Q ss_pred HHHHHHHHHHHhcCCC
Q 041860 78 MFLRLLEQAAEEYGFD 93 (124)
Q Consensus 78 ~F~~LL~~aeeEfG~~ 93 (124)
.+++||+.|++.||+.
T Consensus 27 SleeLl~ia~~kfg~~ 42 (69)
T PF11834_consen 27 SLEELLKIASEKFGFS 42 (69)
T ss_pred cHHHHHHHHHHHhCCC
Confidence 7999999999999985
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=38.14 E-value=13 Score=22.06 Aligned_cols=18 Identities=28% Similarity=0.591 Sum_probs=14.6
Q ss_pred ccCcHHHHHHHHHHHHhc
Q 041860 73 YLTHPMFLRLLEQAAEEY 90 (124)
Q Consensus 73 yL~hP~F~~LL~~aeeEf 90 (124)
||+.-.|++++.++.+||
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 789999999999999987
No 15
>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=36.75 E-value=1.3e+02 Score=20.45 Aligned_cols=49 Identities=20% Similarity=0.346 Sum_probs=34.3
Q ss_pred CceeeEEEEeecccCcHHHHHHHHHHHHhcCCCC-----------CC-ceEecCCHHHHHHHHHHH
Q 041860 61 GHQQKRFVISLSYLTHPMFLRLLEQAAEEYGFDH-----------EG-ALTIPCRPSELERILAER 114 (124)
Q Consensus 61 G~e~~RfvVp~~yL~hP~F~~LL~~aeeEfG~~~-----------~G-~L~iPC~~~~Fe~vL~~~ 114 (124)
|++..||.+|.. .-|++|.++-.+.|+++. +| .++|.|+.++ +..+...
T Consensus 8 ~~d~~r~~l~~~----~~~~~L~~~i~~r~~~~~~~~f~LkY~Ddegd~v~ltsd~DL-~eai~i~ 68 (82)
T cd06407 8 GEEKIRFRLPPS----WGFTELKQEIAKRFKLDDMSAFDLKYLDDDEEWVLLTCDADL-EECIDVY 68 (82)
T ss_pred CCeEEEEEcCCC----CCHHHHHHHHHHHhCCCCCCeeEEEEECCCCCeEEeecHHHH-HHHHHHH
Confidence 667899998863 369999999998887653 23 5678888765 3344433
No 16
>PF12058 DUF3539: Protein of unknown function (DUF3539); InterPro: IPR021926 This family of proteins is functionally uncharacterised. This protein is found in bacteria. Proteins in this family are about 90 amino acids in length. This protein has a conserved NHP sequence motif. ; PDB: 3N5B_B 2XKO_C 2XG8_F.
Probab=36.65 E-value=7 Score=27.72 Aligned_cols=9 Identities=56% Similarity=1.087 Sum_probs=6.7
Q ss_pred cccCcHHHH
Q 041860 72 SYLTHPMFL 80 (124)
Q Consensus 72 ~yL~hP~F~ 80 (124)
.|||||.|-
T Consensus 4 ~YLNHPtFG 12 (88)
T PF12058_consen 4 TYLNHPTFG 12 (88)
T ss_dssp -EEEETTTE
T ss_pred ccccCCccc
Confidence 589999874
No 17
>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=35.80 E-value=1e+02 Score=20.05 Aligned_cols=47 Identities=26% Similarity=0.523 Sum_probs=33.2
Q ss_pred eEEEEeeccc--CcHHHHHHHHHHHHhcCCCCCC--ceEec-CCHHHHHHHHHHHH
Q 041860 65 KRFVISLSYL--THPMFLRLLEQAAEEYGFDHEG--ALTIP-CRPSELERILAERW 115 (124)
Q Consensus 65 ~RfvVp~~yL--~hP~F~~LL~~aeeEfG~~~~G--~L~iP-C~~~~Fe~vL~~~~ 115 (124)
.+|-+.-..| ..|.|+.+++.. +....+ .+.++ |+...|+.+|.-+-
T Consensus 21 ~~~~vhk~iL~~~S~~F~~~~~~~----~~~~~~~~~i~~~~~~~~~~~~~l~~~Y 72 (111)
T PF00651_consen 21 KTFYVHKNILAARSPYFRNLFEGS----KFKESTVPEISLPDVSPEAFEAFLEYMY 72 (111)
T ss_dssp EEEEE-HHHHHHHBHHHHHHHTTT----TSTTSSEEEEEETTSCHHHHHHHHHHHH
T ss_pred EEEeechhhhhccchhhhhccccc----cccccccccccccccccccccccccccc
Confidence 7888887777 459999999887 222333 45555 78999999988764
No 18
>smart00153 VHP Villin headpiece domain.
Probab=33.86 E-value=17 Score=21.42 Aligned_cols=18 Identities=28% Similarity=0.539 Sum_probs=16.3
Q ss_pred ccCcHHHHHHHHHHHHhc
Q 041860 73 YLTHPMFLRLLEQAAEEY 90 (124)
Q Consensus 73 yL~hP~F~~LL~~aeeEf 90 (124)
||+.-.|+.++.++.+||
T Consensus 1 yLsdeeF~~vfgmsr~eF 18 (36)
T smart00153 1 YLSDEDFEEVFGMTREEF 18 (36)
T ss_pred CCCHHHHHHHHCCCHHHH
Confidence 788999999999999987
No 19
>cd01406 SIR2-like Sir2-like: Prokaryotic group of uncharacterized Sir2-like proteins which lack certain key catalytic residues and conserved zinc binding cysteines; and are members of the SIR2 superfamily of proteins, silent information regulator 2 (Sir2) enzymes which catalyze NAD+-dependent protein/histone deacetylation.
Probab=33.00 E-value=1e+02 Score=23.92 Aligned_cols=36 Identities=22% Similarity=0.388 Sum_probs=28.4
Q ss_pred ceEEEEeecCceeeEEEEeecccCcHHHHHHHHHHHHhcCCCCC
Q 041860 52 GHFAVIAVDGHQQKRFVISLSYLTHPMFLRLLEQAAEEYGFDHE 95 (124)
Q Consensus 52 G~~aVyV~~G~e~~RfvVp~~yL~hP~F~~LL~~aeeEfG~~~~ 95 (124)
|++++++|-|-... .+-|.+.+|++...++++.+.+
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 67899997763332 5789999999999999987644
No 20
>PRK13701 psiB plasmid SOS inhibition protein B; Provisional
Probab=32.73 E-value=82 Score=24.21 Aligned_cols=51 Identities=20% Similarity=0.169 Sum_probs=41.5
Q ss_pred CCCCCCCCceEEEEeecCceeeEEEEeecccCcHHHHHHHHHHHH--hcCCCC
Q 041860 44 YVPQDVKEGHFAVIAVDGHQQKRFVISLSYLTHPMFLRLLEQAAE--EYGFDH 94 (124)
Q Consensus 44 ~~~~~vpkG~~aVyV~~G~e~~RfvVp~~yL~hP~F~~LL~~aee--EfG~~~ 94 (124)
|+|-++-.+++.|++-.|.+.=..+.-.+-++--....+|...++ .+||.+
T Consensus 78 CSpG~~sP~W~~Vl~~~gG~~~a~v~~~~~~~Pe~i~~~L~~~a~l~~~gys~ 130 (144)
T PRK13701 78 CSPGDVSPVWVLVLVNAGGEPFAVVQVQDRFAPEAISHSLALAASLDAQGYSV 130 (144)
T ss_pred eCCCCCCcceEEEEEcCCCcEEEEEEecCccCHHHHHHHHHHHHHhhhcCCcH
Confidence 788889999999999888777777777777777788899999886 457654
No 21
>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=31.25 E-value=1.5e+02 Score=20.82 Aligned_cols=51 Identities=14% Similarity=0.217 Sum_probs=36.4
Q ss_pred CceeeEEEEeecccCcHHHHHHHHHHHHhcCCC----------CCC-ceEecCCHHHHHHHHHHHHh
Q 041860 61 GHQQKRFVISLSYLTHPMFLRLLEQAAEEYGFD----------HEG-ALTIPCRPSELERILAERWR 116 (124)
Q Consensus 61 G~e~~RfvVp~~yL~hP~F~~LL~~aeeEfG~~----------~~G-~L~iPC~~~~Fe~vL~~~~~ 116 (124)
+...|||..|. .|.+.+|-++.+.=|-+. .+| .|||.=+.+. +.++.+..+
T Consensus 8 ~g~~RRf~~~~----~pt~~~L~~kl~~Lf~lp~~~~~vtYiDeD~D~ITlssd~eL-~d~~~~~~~ 69 (82)
T cd06397 8 LGDTRRIVFPD----IPTWEALASKLENLYNLPEIKVGVTYIDNDNDEITLSSNKEL-QDFYRLSHR 69 (82)
T ss_pred CCceEEEecCC----CccHHHHHHHHHHHhCCChhHeEEEEEcCCCCEEEecchHHH-HHHHHhccc
Confidence 55789999998 899999999999887765 343 5777655554 445554443
No 22
>PRK13347 coproporphyrinogen III oxidase; Provisional
Probab=30.64 E-value=1.3e+02 Score=25.97 Aligned_cols=48 Identities=17% Similarity=0.268 Sum_probs=37.5
Q ss_pred ceEEEEeecCceeeEEEEeecccCcHHHHHHHHHHHHhcCCCCCCceEecCCHHHH
Q 041860 52 GHFAVIAVDGHQQKRFVISLSYLTHPMFLRLLEQAAEEYGFDHEGALTIPCRPSEL 107 (124)
Q Consensus 52 G~~aVyV~~G~e~~RfvVp~~yL~hP~F~~LL~~aeeEfG~~~~G~L~iPC~~~~F 107 (124)
+...||.|+|. -..|+.+.+.+|++...+.|++..+..+++-|++..+
T Consensus 103 ~v~~i~fgGGT--------Ps~l~~~~l~~ll~~i~~~~~~~~~~e~tie~~p~~l 150 (453)
T PRK13347 103 RVSQLHWGGGT--------PTILNPDQFERLMAALRDAFDFAPEAEIAVEIDPRTV 150 (453)
T ss_pred eEEEEEEcCcc--------cccCCHHHHHHHHHHHHHhCCCCCCceEEEEeccccC
Confidence 56678886662 2568899999999999999988766678888887665
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=30.17 E-value=72 Score=27.33 Aligned_cols=52 Identities=13% Similarity=0.282 Sum_probs=39.2
Q ss_pred ceeeEEEEeecccC--cHHHHHHHHH---HHHhcCCCCCCceEecCCHHHHHHHHHHHHh
Q 041860 62 HQQKRFVISLSYLT--HPMFLRLLEQ---AAEEYGFDHEGALTIPCRPSELERILAERWR 116 (124)
Q Consensus 62 ~e~~RfvVp~~yL~--hP~F~~LL~~---aeeEfG~~~~G~L~iPC~~~~Fe~vL~~~~~ 116 (124)
...+=|..|.+.|- ...|++.|.. ..++. .+=.|.+-||+..|+.++.-+.+
T Consensus 11 ~~~rdF~C~~~lL~~~M~YF~~~l~~~~~~~~~~---~~idisVhCDv~iF~WLm~yv~~ 67 (317)
T PF11822_consen 11 NEKRDFTCPRDLLVSEMRYFAEYLSRYINDSQRW---EEIDISVHCDVHIFEWLMRYVKG 67 (317)
T ss_pred CcceeeeccHHHHHHhhHHHHHHHhhcccccCcC---CCcceEEecChhHHHHHHHHhhc
Confidence 45688999998884 5789999976 33332 13458899999999999887655
No 24
>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=29.97 E-value=92 Score=22.28 Aligned_cols=31 Identities=16% Similarity=0.271 Sum_probs=24.9
Q ss_pred CceeeEEEEeecccCcHHHHHHHHHHHHhcC
Q 041860 61 GHQQKRFVISLSYLTHPMFLRLLEQAAEEYG 91 (124)
Q Consensus 61 G~e~~RfvVp~~yL~hP~F~~LL~~aeeEfG 91 (124)
|-..+=..|.-+.-..|.|.+||.....+|+
T Consensus 12 ~~~~rdi~vee~l~~~P~~kdLl~lmr~~f~ 42 (92)
T cd06399 12 ISTIRDIAVEEDLSSTPLLKDLLELTRREFQ 42 (92)
T ss_pred CccccceEeecccccCccHHHHHHHHHHHhc
Confidence 3344556677788889999999999999985
No 25
>cd06408 PB1_NoxR The PB1 domain is present in the Epichloe festucae NoxR protein (NADPH oxidase regulator), a key regulator of NADPH oxidase isoform, NoxA. NoxA is essential for growth control of the fungal endophyte in plant tissue in the process of symbiotic interaction between a fungi and its plant host. The Epichloe festucae p67(phox)-like regulator, NoxR, dispensable in culture but essential in plants for the symbiotic interaction. Plants infected with a noxR deletion mutant show severe stunting and premature senescence, whereas hyphae in the meristematic tissues show increased branching leading to increased fungal colonization of pseudostem and leaf blade tissue. The PB1 domain is a modular domain mediating specific protein-protein interactions which a play 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
Probab=29.85 E-value=2e+02 Score=20.10 Aligned_cols=36 Identities=17% Similarity=0.361 Sum_probs=28.5
Q ss_pred HHHHHHHHHHHhcCCCCCCceEe-------cC---CHHHHHHHHHHHH
Q 041860 78 MFLRLLEQAAEEYGFDHEGALTI-------PC---RPSELERILAERW 115 (124)
Q Consensus 78 ~F~~LL~~aeeEfG~~~~G~L~i-------PC---~~~~Fe~vL~~~~ 115 (124)
.|++|.++-.+.|||.+ +++| || +-..++.+|...+
T Consensus 23 ~f~dL~~kIrdkf~~~~--~~~iKykDEGD~iti~sq~DLd~Ai~~a~ 68 (86)
T cd06408 23 GFADFEDKIRDKFGFKR--RLKIKMKDDGDMITMGDQDDLDMAIDTAR 68 (86)
T ss_pred CHHHHHHHHHHHhCCCC--ceEEEEEcCCCCccccCHHHHHHHHHHHH
Confidence 49999999999999963 5666 77 4467888887765
No 26
>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=29.17 E-value=39 Score=24.13 Aligned_cols=40 Identities=20% Similarity=0.263 Sum_probs=22.0
Q ss_pred ccCcHHHHHHHHHHHHhcCCCCCCceEecCCHHHHHHHHHH
Q 041860 73 YLTHPMFLRLLEQAAEEYGFDHEGALTIPCRPSELERILAE 113 (124)
Q Consensus 73 yL~hP~F~~LL~~aeeEfG~~~~G~L~iPC~~~~Fe~vL~~ 113 (124)
-.+-..|.+||+.|||.++.++ =.+.++=+-.....++..
T Consensus 37 ~~~K~~lvaLLElAee~L~c~~-vvic~~k~~~d~~~Llr~ 76 (108)
T PF02100_consen 37 QGSKESLVALLELAEEKLGCSH-VVICLDKNRPDRASLLRT 76 (108)
T ss_dssp S--SHHHHHHHHHHHHHH-----EEEEE---SS-HHHHHHH
T ss_pred cccHHHHHHHHHHhcCcCCCCE-EEEEEECCchhHHHhhhh
Confidence 3456789999999999998764 356666555555555554
No 27
>PF08861 DUF1828: Domain of unknown function DUF1828; InterPro: IPR014960 These proteins are functionally uncharacterised.
Probab=28.46 E-value=1.5e+02 Score=19.92 Aligned_cols=39 Identities=15% Similarity=0.229 Sum_probs=32.8
Q ss_pred cHHHHHHHHHHHHhcCCCC-CCceEecCCHHHHHHHHHHH
Q 041860 76 HPMFLRLLEQAAEEYGFDH-EGALTIPCRPSELERILAER 114 (124)
Q Consensus 76 hP~F~~LL~~aeeEfG~~~-~G~L~iPC~~~~Fe~vL~~~ 114 (124)
.|-=+++|+.....||+.- +|.|.+.++.+.|-..+...
T Consensus 44 s~~R~~~l~~il~~~gv~~~~~el~~~~~~~~~~~~~~~l 83 (90)
T PF08861_consen 44 SKKRKKILNSILNGFGVELDEGELFIKTSEENFPQAKHRL 83 (90)
T ss_pred chHHHHHHHHHHHHcCccccCCEEEEEeCHHHHHHHHHHH
Confidence 6777899999999999974 49999999999998776653
No 28
>PRK09057 coproporphyrinogen III oxidase; Provisional
Probab=27.52 E-value=1e+02 Score=25.96 Aligned_cols=46 Identities=15% Similarity=0.239 Sum_probs=36.5
Q ss_pred EEEEeecCceeeEEEEeecccCcHHHHHHHHHHHHhcCCCCCCceEecCCHHHH
Q 041860 54 FAVIAVDGHQQKRFVISLSYLTHPMFLRLLEQAAEEYGFDHEGALTIPCRPSEL 107 (124)
Q Consensus 54 ~aVyV~~G~e~~RfvVp~~yL~hP~F~~LL~~aeeEfG~~~~G~L~iPC~~~~F 107 (124)
-.||+|+|- ..+|+...+..||+...+.|.+..+..+++-|+++.+
T Consensus 57 ~tiy~GGGT--------Ps~l~~~~L~~ll~~i~~~f~~~~~~eit~E~~P~~i 102 (380)
T PRK09057 57 TSIFFGGGT--------PSLMQPETVAALLDAIARLWPVADDIEITLEANPTSV 102 (380)
T ss_pred CeEEeCCCc--------cccCCHHHHHHHHHHHHHhCCCCCCccEEEEECcCcC
Confidence 389997762 2578888999999999999988766679998877544
No 29
>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=27.08 E-value=2.2e+02 Score=19.67 Aligned_cols=54 Identities=13% Similarity=0.257 Sum_probs=38.8
Q ss_pred CceeeEEEEeecccCcHHHHHHHHHHHHhcCCC--------CC-CceEecCCHHHHHHHHHHHHhc
Q 041860 61 GHQQKRFVISLSYLTHPMFLRLLEQAAEEYGFD--------HE-GALTIPCRPSELERILAERWRE 117 (124)
Q Consensus 61 G~e~~RfvVp~~yL~hP~F~~LL~~aeeEfG~~--------~~-G~L~iPC~~~~Fe~vL~~~~~~ 117 (124)
|++..||.++- -.++.|.+|..+-+.-|+++ .+ -+++|.|+.+. +..+....+.
T Consensus 8 ~~d~~rf~~~~--~~~~~~~~L~~ev~~rf~l~~f~lKYlDde~e~v~lssd~eL-eE~~rl~~~~ 70 (81)
T cd06396 8 NGESQSFLVSD--SENTTWASVEAMVKVSFGLNDIQIKYVDEENEEVSVNSQGEY-EEALKSAVRQ 70 (81)
T ss_pred CCeEEEEEecC--CCCCCHHHHHHHHHHHhCCCcceeEEEcCCCCEEEEEchhhH-HHHHHHHHhC
Confidence 67889999874 22557999999999999854 23 36899997764 5566655543
No 30
>PF15387 DUF4611: Domain of unknown function (DUF4611)
Probab=27.01 E-value=34 Score=24.64 Aligned_cols=23 Identities=17% Similarity=0.404 Sum_probs=17.3
Q ss_pred CceEecCC----HHHHHHHHHHHHhcc
Q 041860 96 GALTIPCR----PSELERILAERWREG 118 (124)
Q Consensus 96 G~L~iPC~----~~~Fe~vL~~~~~~e 118 (124)
-.|++||+ ..-|+.+|.-+.++.
T Consensus 13 q~lrv~ce~p~~~d~~q~LlsGvaqm~ 39 (96)
T PF15387_consen 13 QRLRVPCEAPGDADPFQGLLSGVAQMR 39 (96)
T ss_pred ceEEEeeecCCCcccHHHHHHHHHHHH
Confidence 45899997 578888887776654
No 31
>PRK06582 coproporphyrinogen III oxidase; Provisional
Probab=26.85 E-value=1.3e+02 Score=25.65 Aligned_cols=47 Identities=11% Similarity=0.200 Sum_probs=37.3
Q ss_pred eEEEEeecCceeeEEEEeecccCcHHHHHHHHHHHHhcCCCCCCceEecCCHHHH
Q 041860 53 HFAVIAVDGHQQKRFVISLSYLTHPMFLRLLEQAAEEYGFDHEGALTIPCRPSEL 107 (124)
Q Consensus 53 ~~aVyV~~G~e~~RfvVp~~yL~hP~F~~LL~~aeeEfG~~~~G~L~iPC~~~~F 107 (124)
.-.||.|+| +. .+|+...+..||+...+.|++..+-.+++-|+++.+
T Consensus 63 i~tiy~GGG-TP-------s~l~~~~l~~ll~~i~~~~~~~~~~eitiE~nP~~~ 109 (390)
T PRK06582 63 IKSIFFGGG-TP-------SLMNPVIVEGIINKISNLAIIDNQTEITLETNPTSF 109 (390)
T ss_pred eeEEEECCC-cc-------ccCCHHHHHHHHHHHHHhCCCCCCCEEEEEeCCCcC
Confidence 348999776 22 688888999999999998888766679998888765
No 32
>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=26.46 E-value=1.9e+02 Score=18.87 Aligned_cols=21 Identities=29% Similarity=0.246 Sum_probs=16.8
Q ss_pred eEEEEeecCceeeEEEEeecccC
Q 041860 53 HFAVIAVDGHQQKRFVISLSYLT 75 (124)
Q Consensus 53 ~~aVyV~~G~e~~RfvVp~~yL~ 75 (124)
.|+++| +...-++.|..+-|.
T Consensus 18 ~F~a~~--~g~~i~C~Is~~aL~ 38 (83)
T PF07369_consen 18 RFPAQV--DGMQIRCAISAEALE 38 (83)
T ss_dssp EEEEEE--TTEEEEEEEEHHHHH
T ss_pred EEEEEE--CCEEEEEEEeHHHHH
Confidence 467888 778899999988773
No 33
>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=26.41 E-value=1.1e+02 Score=21.00 Aligned_cols=42 Identities=21% Similarity=0.234 Sum_probs=33.4
Q ss_pred CCceEEEEeecC--ceeeEEEEeecccCcHHH---HHHHHHHHHhcC
Q 041860 50 KEGHFAVIAVDG--HQQKRFVISLSYLTHPMF---LRLLEQAAEEYG 91 (124)
Q Consensus 50 pkG~~aVyV~~G--~e~~RfvVp~~yL~hP~F---~~LL~~aeeEfG 91 (124)
++-+.+.+.|++ -...++.+...|+.|+.+ |.|++++.|.|.
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 556777778666 234788888999999999 589999999875
No 34
>PRK10308 3-methyl-adenine DNA glycosylase II; Provisional
Probab=25.25 E-value=2.7e+02 Score=22.83 Aligned_cols=62 Identities=18% Similarity=0.235 Sum_probs=41.1
Q ss_pred CceEEEEeecCceeeEEEEeecccCcHHHHHHHHHHHHhcCCCCC---------------CceEecCCHHHHHHHHHHH
Q 041860 51 EGHFAVIAVDGHQQKRFVISLSYLTHPMFLRLLEQAAEEYGFDHE---------------GALTIPCRPSELERILAER 114 (124)
Q Consensus 51 kG~~aVyV~~G~e~~RfvVp~~yL~hP~F~~LL~~aeeEfG~~~~---------------G~L~iPC~~~~Fe~vL~~~ 114 (124)
.|++.|.- ......+.|.++.-.-|....++.....-|+.+.| -+|+||...+.||-+++.+
T Consensus 45 ~~~~~v~~--~~~~~~l~~~~~~~~~~~~~~~~~~vrr~fdLd~d~~~i~~~L~~~~~~~~GlR~p~~~d~fE~lv~aI 121 (283)
T PRK10308 45 RGVVTVIP--DIARHTLHINLSAGLEPVAAECLAKMSRLFDLQCNPQIVNGALGKLGAARPGLRLPGSVDAFEQGVRAI 121 (283)
T ss_pred cEEEEEEE--cCCCceEEEEEcCCccccHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHhCCCCcCCCCCCHHHHHHHHH
Confidence 45555554 33344555555553345566788888888877765 2588999999999888765
No 35
>PF07104 DUF1366: Protein of unknown function (DUF1366); InterPro: IPR009796 This entry is represented by Streptococcus phage 7201, Orf40. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. This family consists of several hypothetical Streptococcus thermophilus bacteriophage proteins of around 130 residues in length. One of the sequences in this family, from phage Sfi11 (O80186 from SWISSPROT) is known as Gp149. The function of this family is unknown.
Probab=25.00 E-value=1.4e+02 Score=21.93 Aligned_cols=42 Identities=12% Similarity=0.033 Sum_probs=31.0
Q ss_pred CCCCceEEEEeecCceeeEEEEeecccCcHHHHHHHHHHHHhc
Q 041860 48 DVKEGHFAVIAVDGHQQKRFVISLSYLTHPMFLRLLEQAAEEY 90 (124)
Q Consensus 48 ~vpkG~~aVyV~~G~e~~RfvVp~~yL~hP~F~~LL~~aeeEf 90 (124)
....+.-++++++++.-=-+.+|.++.+.+ +.+||++++|.|
T Consensus 15 Gsv~~T~ViL~~~dGa~ip~~L~~D~~~ks-~~ELi~~ale~i 56 (116)
T PF07104_consen 15 GSVSKTKVILTNDDGAYIPVFLPGDKIDKS-NTELIELALEMI 56 (116)
T ss_pred CCeeeeEEEEEcCCCcEEEeeCChhhhcCC-HHHHHHHHHHHH
Confidence 345566666666555566777888888876 789999999887
No 36
>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=24.45 E-value=1.3e+02 Score=20.43 Aligned_cols=27 Identities=19% Similarity=0.291 Sum_probs=18.5
Q ss_pred cCcHHHHHHH----HHHHHhcCCCCCCceEe
Q 041860 74 LTHPMFLRLL----EQAAEEYGFDHEGALTI 100 (124)
Q Consensus 74 L~hP~F~~LL----~~aeeEfG~~~~G~L~i 100 (124)
-..|.|++.| ..+-+||||.-...+.|
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 3579999966 45567889986554443
No 37
>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=24.38 E-value=2e+02 Score=18.27 Aligned_cols=52 Identities=19% Similarity=0.385 Sum_probs=34.6
Q ss_pred CceeeE-EEEeecccCcHHHHHHHHHHHHhcCCC----------CCCc-eEecCCHHHHHHHHHHHHhc
Q 041860 61 GHQQKR-FVISLSYLTHPMFLRLLEQAAEEYGFD----------HEGA-LTIPCRPSELERILAERWRE 117 (124)
Q Consensus 61 G~e~~R-fvVp~~yL~hP~F~~LL~~aeeEfG~~----------~~G~-L~iPC~~~~Fe~vL~~~~~~ 117 (124)
+++.+| +.++ ..+.|.+|..+.++.||.. .+|- ++|.++ +.|+.++..+...
T Consensus 9 ~~~~~~~~~~~----~~~s~~~L~~~i~~~~~~~~~~~~l~Y~D~dgD~V~i~sd-~Dl~~a~~~~~~~ 72 (84)
T PF00564_consen 9 GGDIRRIISLP----SDVSFDDLRSKIREKFGLLDEDFQLKYKDEDGDLVTISSD-EDLQEAIEQAKES 72 (84)
T ss_dssp TTEEEEEEEEC----STSHHHHHHHHHHHHHTTSTSSEEEEEEETTSSEEEESSH-HHHHHHHHHHHHC
T ss_pred CCeeEEEEEcC----CCCCHHHHHHHHHHHhCCCCccEEEEeeCCCCCEEEeCCH-HHHHHHHHHHHhc
Confidence 445555 4444 5679999999999999984 3563 555555 4566677666543
No 38
>PF13421 Band_7_1: SPFH domain-Band 7 family
Probab=24.12 E-value=1.1e+02 Score=24.07 Aligned_cols=44 Identities=25% Similarity=0.426 Sum_probs=32.9
Q ss_pred CCCCCCceEEEEeecCc-----eeeEEEEeecccCcHHHHHHHHHHHHhcCCCC
Q 041860 46 PQDVKEGHFAVIAVDGH-----QQKRFVISLSYLTHPMFLRLLEQAAEEYGFDH 94 (124)
Q Consensus 46 ~~~vpkG~~aVyV~~G~-----e~~RfvVp~~yL~hP~F~~LL~~aeeEfG~~~ 94 (124)
...|++|..||+|-+|. +.-||.+-+. |.|++..|..- -||++.
T Consensus 16 ~LiV~egQ~Avfv~~G~i~d~~~pG~y~l~T~--n~P~l~~l~~~---~~Gg~s 64 (211)
T PF13421_consen 16 QLIVREGQCAVFVNDGKIADVFGPGRYTLDTD--NIPILSTLKNW---KFGGES 64 (211)
T ss_pred EEEECCCCEEEEEECCEEEEEecCceEEEecC--CchHHHHHhhh---ccCCCC
Confidence 44599999999998874 3578887765 88999888653 466653
No 39
>PRK07379 coproporphyrinogen III oxidase; Provisional
Probab=24.09 E-value=1.3e+02 Score=25.52 Aligned_cols=48 Identities=17% Similarity=0.298 Sum_probs=36.6
Q ss_pred ceEEEEeecCceeeEEEEeecccCcHHHHHHHHHHHHhcCCCCCCceEecCCHHHH
Q 041860 52 GHFAVIAVDGHQQKRFVISLSYLTHPMFLRLLEQAAEEYGFDHEGALTIPCRPSEL 107 (124)
Q Consensus 52 G~~aVyV~~G~e~~RfvVp~~yL~hP~F~~LL~~aeeEfG~~~~G~L~iPC~~~~F 107 (124)
+.-.||.|+| . -.+|+...+.+|++...+.|+...+..+++-|++..+
T Consensus 66 ~i~~iy~GGG-T-------ps~l~~~~l~~ll~~i~~~~~~~~~~eit~E~~P~~l 113 (400)
T PRK07379 66 PLQTVFFGGG-T-------PSLLSVEQLERILTTLDQRFGIAPDAEISLEIDPGTF 113 (400)
T ss_pred ceeEEEECCC-c-------cccCCHHHHHHHHHHHHHhCCCCCCCEEEEEeCCCcC
Confidence 4558899766 2 2567899999999999999887766678887765554
No 40
>PRK08599 coproporphyrinogen III oxidase; Provisional
Probab=23.98 E-value=1.5e+02 Score=24.70 Aligned_cols=49 Identities=16% Similarity=0.198 Sum_probs=35.5
Q ss_pred ceEEEEeecCceeeEEEEeecccCcHHHHHHHHHHHHhcCCCCCCceEecCCHHHHH
Q 041860 52 GHFAVIAVDGHQQKRFVISLSYLTHPMFLRLLEQAAEEYGFDHEGALTIPCRPSELE 108 (124)
Q Consensus 52 G~~aVyV~~G~e~~RfvVp~~yL~hP~F~~LL~~aeeEfG~~~~G~L~iPC~~~~Fe 108 (124)
+.-.||+|+|. . ..|+.+.+.+|++...+.|+...+..+++-|++..+.
T Consensus 51 ~i~~i~~gGGt-p-------t~l~~~~l~~ll~~i~~~~~~~~~~eit~e~~p~~l~ 99 (377)
T PRK08599 51 KLKTIYIGGGT-P-------TALSAEQLERLLTAIHRNLPLSGLEEFTFEANPGDLT 99 (377)
T ss_pred ceeEEEeCCCC-c-------ccCCHHHHHHHHHHHHHhCCCCCCCEEEEEeCCCCCC
Confidence 34468987662 1 2578899999999999998875444688878776553
No 41
>PRK09058 coproporphyrinogen III oxidase; Provisional
Probab=22.14 E-value=1.5e+02 Score=25.71 Aligned_cols=48 Identities=19% Similarity=0.178 Sum_probs=36.8
Q ss_pred eEEEEeecCceeeEEEEeecccCcHHHHHHHHHHHHhcCCCCCCceEecCCHHHHH
Q 041860 53 HFAVIAVDGHQQKRFVISLSYLTHPMFLRLLEQAAEEYGFDHEGALTIPCRPSELE 108 (124)
Q Consensus 53 ~~aVyV~~G~e~~RfvVp~~yL~hP~F~~LL~~aeeEfG~~~~G~L~iPC~~~~Fe 108 (124)
.-+||+|+| . -.+|+-..+..|++...+.|....+-.+++-|++..|.
T Consensus 115 i~~iy~GGG-T-------Ps~L~~~~l~~ll~~i~~~~~l~~~~eitiE~~p~~~t 162 (449)
T PRK09058 115 IHAVYFGGG-T-------PTALSAEDLARLITALREYLPLAPDCEITLEGRINGFD 162 (449)
T ss_pred eeEEEECCC-c-------cccCCHHHHHHHHHHHHHhCCCCCCCEEEEEeCcCcCC
Confidence 457898766 1 25678888999999999999877667788888776553
No 42
>PF05419 GUN4: GUN4-like ; InterPro: IPR008629 In Arabidopsis, GUN4 is required for the functioning of the plastid mediated repression of nuclear transcription that is involved in controlling the levels of magnesium- protoporphyrin IX. GUN4 binds the product and substrate of Mg-chelatase, an enzyme that produces Mg-Proto, and activates Mg-chelatase. GUN4 is thought to participate in plastid-to-nucleus signalling by regulating magnesium-protoporphyrin IX synthesis or trafficking.; PDB: 1Y6I_A 1Z3X_A 1Z3Y_A.
Probab=21.51 E-value=12 Score=27.83 Aligned_cols=25 Identities=24% Similarity=0.436 Sum_probs=12.1
Q ss_pred CCCCCCceEEEEeecCceeeEEEEeecccCcHHHH
Q 041860 46 PQDVKEGHFAVIAVDGHQQKRFVISLSYLTHPMFL 80 (124)
Q Consensus 46 ~~~vpkG~~aVyV~~G~e~~RfvVp~~yL~hP~F~ 80 (124)
....|+||+|.+-.-+ .+++||.|+
T Consensus 108 ~l~AP~GHLP~~~~~~----------~~~~~~~~~ 132 (132)
T PF05419_consen 108 SLNAPKGHLPAVWWLS----------SLLSHPAWQ 132 (132)
T ss_dssp STTS-TT--S-THHHH----------HHHTSCHHH
T ss_pred cCCCCCCCCccHHHHH----------HHHcCCCcC
Confidence 3448999999542111 567777664
No 43
>COG0635 HemN Coproporphyrinogen III oxidase and related Fe-S oxidoreductases [Coenzyme metabolism]
Probab=21.43 E-value=1e+02 Score=26.77 Aligned_cols=49 Identities=24% Similarity=0.353 Sum_probs=39.2
Q ss_pred ceEEEEeecCceeeEEEEeecccCcHHHHHHHHHHHHhc-CCCCCCceEecCCHHHHH
Q 041860 52 GHFAVIAVDGHQQKRFVISLSYLTHPMFLRLLEQAAEEY-GFDHEGALTIPCRPSELE 108 (124)
Q Consensus 52 G~~aVyV~~G~e~~RfvVp~~yL~hP~F~~LL~~aeeEf-G~~~~G~L~iPC~~~~Fe 108 (124)
-.-.||.|+| +. ++|+--.+..||+...+-| +.+.+--|+|.+++..|+
T Consensus 87 ~v~ti~~GGG-TP-------slL~~~~l~~ll~~l~~~~~~~~~~~EitiE~nP~~~~ 136 (416)
T COG0635 87 EVKTIYFGGG-TP-------SLLSPEQLERLLKALRELFNDLDPDAEITIEANPGTVE 136 (416)
T ss_pred eEEEEEECCC-cc-------ccCCHHHHHHHHHHHHHhcccCCCCceEEEEeCCCCCC
Confidence 4568999766 22 7899999999999999999 466668899998776443
No 44
>COG4862 MecA Negative regulator of genetic competence, sporulation and motility [Posttranslational modification, protein turnover, chaperones / Signal transduction mechanisms / Cell motility and secretion]
Probab=21.16 E-value=64 Score=26.46 Aligned_cols=27 Identities=30% Similarity=0.519 Sum_probs=24.3
Q ss_pred CcHHHHHHHHHHHHhcCCCCCCceEec
Q 041860 75 THPMFLRLLEQAAEEYGFDHEGALTIP 101 (124)
Q Consensus 75 ~hP~F~~LL~~aeeEfG~~~~G~L~iP 101 (124)
.|-+|-++++.+..|-+|...|||.|-
T Consensus 37 ~EE~F~~mMdEl~~ee~F~~~GpL~iq 63 (224)
T COG4862 37 TEELFYEMMDELNLEEDFKDEGPLWIQ 63 (224)
T ss_pred HHHHHHHHHHhcCCccccccCCceEEE
Confidence 478999999999999999999999874
No 45
>TIGR03687 pupylate_cterm ubiquitin-like protein Pup. Members of this protein family are Pup, a small protein whose ligation to target proteins steers them toward degradation. This protein family occurs in a number of bacteria, especially Actinobacteria such as Mycobacterium tuberculosis, that possess an archeal-type proteasome. All members of this protein family known during model construction end with the C-terminal motif [FY][VI]QKGG[QE]. Ligation is thought to occur between the C-terminal COOH of Pup and an epsilon-amino group of a Lys on the target protein. The N-terminal half of this protein is poorly conserved and not represented in the seed alignment.
Probab=21.08 E-value=45 Score=19.64 Aligned_cols=19 Identities=42% Similarity=0.705 Sum_probs=13.9
Q ss_pred HHHHHHHHHHhc--CCCCCCc
Q 041860 79 FLRLLEQAAEEY--GFDHEGA 97 (124)
Q Consensus 79 F~~LL~~aeeEf--G~~~~G~ 97 (124)
+-.+|+.-+|+| ||-|.|+
T Consensus 12 Id~vLe~NAe~FV~~fVQKGG 32 (33)
T TIGR03687 12 IDGVLESNAEEFVRGFVQKGG 32 (33)
T ss_pred HHHHHHHhHHHHHHHHHHccC
Confidence 456788888888 7777664
No 46
>PRK05628 coproporphyrinogen III oxidase; Validated
Probab=20.75 E-value=1.6e+02 Score=24.47 Aligned_cols=47 Identities=19% Similarity=0.287 Sum_probs=35.2
Q ss_pred eEEEEeecCceeeEEEEeecccCcHHHHHHHHHHHHhcCCCCCCceEecCCHHHH
Q 041860 53 HFAVIAVDGHQQKRFVISLSYLTHPMFLRLLEQAAEEYGFDHEGALTIPCRPSEL 107 (124)
Q Consensus 53 ~~aVyV~~G~e~~RfvVp~~yL~hP~F~~LL~~aeeEfG~~~~G~L~iPC~~~~F 107 (124)
.-.||.|+| + -.+|+.+.+..|++...+.|+...+-.+++-|++..+
T Consensus 60 i~~i~~GGG-T-------Ps~l~~~~l~~ll~~i~~~~~~~~~~e~t~e~~p~~i 106 (375)
T PRK05628 60 VSTVFVGGG-T-------PSLLGAEGLARVLDAVRDTFGLAPGAEVTTEANPEST 106 (375)
T ss_pred eeEEEeCCC-c-------cccCCHHHHHHHHHHHHHhCCCCCCCEEEEEeCCCCC
Confidence 448898766 1 2567889999999999999988655567776666554
Done!