Query psy16017
Match_columns 85
No_of_seqs 76 out of 78
Neff 2.9
Searched_HMMs 46136
Date Fri Aug 16 18:48:17 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy16017.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/16017hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG3938|consensus 99.9 6.3E-28 1.4E-32 191.5 7.6 83 1-84 1-93 (334)
2 cd01807 GDX_N ubiquitin-like d 76.0 1.5 3.3E-05 26.6 1.1 26 59-84 16-41 (74)
3 PF11543 UN_NPL4: Nuclear pore 71.8 3.1 6.8E-05 26.8 1.9 24 60-83 20-43 (80)
4 cd01791 Ubl5 UBL5 ubiquitin-li 70.8 2.2 4.8E-05 26.8 1.0 27 59-85 17-43 (73)
5 PF00240 ubiquitin: Ubiquitin 69.9 3.2 6.9E-05 24.3 1.5 26 59-84 11-36 (69)
6 cd01803 Ubiquitin Ubiquitin. U 68.5 3 6.4E-05 24.6 1.1 26 59-84 16-41 (76)
7 cd01804 midnolin_N Ubiquitin-l 67.6 3.3 7.1E-05 25.8 1.2 25 60-84 18-42 (78)
8 cd01794 DC_UbP_C dendritic cel 67.4 2.8 6.1E-05 25.9 0.9 26 59-84 14-39 (70)
9 cd01793 Fubi Fubi ubiquitin-li 67.0 3.2 7E-05 25.2 1.1 26 59-84 14-39 (74)
10 cd01808 hPLIC_N Ubiquitin-like 66.3 3.3 7.3E-05 24.9 1.1 25 60-84 16-40 (71)
11 cd01792 ISG15_repeat1 ISG15 ub 64.4 3.8 8.2E-05 25.4 1.1 25 60-84 19-43 (80)
12 cd01796 DDI1_N DNA damage indu 64.2 3.9 8.4E-05 25.0 1.1 26 59-84 15-40 (71)
13 cd01810 ISG15_repeat2 ISG15 ub 63.1 4.4 9.6E-05 24.6 1.2 26 59-84 14-39 (74)
14 cd01806 Nedd8 Nebb8-like ubiq 61.9 5.9 0.00013 23.3 1.6 25 60-84 17-41 (76)
15 cd00196 UBQ Ubiquitin-like pro 60.4 6.5 0.00014 19.7 1.4 24 61-84 15-38 (69)
16 PF02071 NSF: Aromatic-di-Alan 59.4 5 0.00011 18.5 0.7 10 68-77 3-12 (12)
17 cd01798 parkin_N amino-termina 59.0 5.2 0.00011 23.9 1.0 25 60-84 15-39 (70)
18 cd01802 AN1_N ubiquitin-like d 58.4 5.9 0.00013 26.4 1.3 39 44-84 29-68 (103)
19 cd01812 BAG1_N Ubiquitin-like 55.8 8.5 0.00018 22.5 1.5 25 60-84 16-40 (71)
20 PF14552 Tautomerase_2: Tautom 54.1 7 0.00015 25.4 1.0 19 66-84 45-67 (82)
21 PF14645 Chibby: Chibby family 53.2 34 0.00073 23.7 4.4 32 44-75 51-85 (116)
22 smart00760 Bac_DnaA_C Bacteria 53.1 5.8 0.00013 23.6 0.5 20 65-84 1-20 (60)
23 PF13647 Glyco_hydro_80: Glyco 53.0 7.3 0.00016 31.3 1.2 24 44-68 201-224 (308)
24 cd01805 RAD23_N Ubiquitin-like 52.7 9.5 0.00021 22.8 1.4 25 60-84 17-43 (77)
25 PRK01964 4-oxalocrotonate taut 52.2 8.4 0.00018 22.7 1.1 18 67-84 22-39 (64)
26 PRK10219 DNA-binding transcrip 51.5 6.9 0.00015 24.8 0.7 25 61-85 80-104 (107)
27 smart00213 UBQ Ubiquitin homol 50.9 10 0.00022 21.1 1.3 26 59-84 15-40 (64)
28 cd01797 NIRF_N amino-terminal 50.8 8.6 0.00019 24.2 1.0 25 60-84 19-43 (78)
29 smart00342 HTH_ARAC helix_turn 50.8 14 0.00031 20.9 1.9 26 60-85 59-84 (84)
30 PRK02220 4-oxalocrotonate taut 50.7 9.1 0.0002 22.1 1.1 17 68-84 23-39 (61)
31 PF07027 DUF1318: Protein of u 50.3 5.2 0.00011 27.1 -0.1 18 67-84 50-67 (95)
32 PF01337 Barstar: Barstar (bar 50.2 14 0.0003 23.2 1.9 22 60-81 5-26 (90)
33 cd06398 PB1_Joka2 The PB1 doma 49.9 15 0.00032 24.4 2.1 17 65-81 26-42 (91)
34 KOG3889|consensus 48.6 12 0.00026 31.3 1.8 37 42-79 202-241 (371)
35 PTZ00044 ubiquitin; Provisiona 48.1 11 0.00024 22.5 1.2 26 59-84 16-41 (76)
36 PF14338 Mrr_N: Mrr N-terminal 47.9 9 0.0002 24.4 0.8 20 64-83 20-39 (92)
37 cd01809 Scythe_N Ubiquitin-lik 47.9 12 0.00026 21.7 1.3 25 60-84 17-41 (72)
38 PF12833 HTH_18: Helix-turn-he 47.4 5.5 0.00012 23.8 -0.2 26 60-85 54-79 (81)
39 PF14566 PTPlike_phytase: Inos 46.9 8.1 0.00018 26.8 0.5 10 42-51 124-133 (149)
40 TIGR00013 taut 4-oxalocrotonat 46.6 16 0.00035 21.1 1.7 19 66-84 21-39 (63)
41 cd05875 Ig6_hNeurofascin_like 43.2 15 0.00032 22.2 1.2 20 45-65 1-20 (77)
42 PF05099 TerB: Tellurite resis 41.8 20 0.00043 23.4 1.7 21 65-85 116-136 (140)
43 PF08281 Sigma70_r4_2: Sigma-7 41.2 5.1 0.00011 22.6 -1.0 16 69-84 28-43 (54)
44 cd05140 Barstar_AU1054-like Ba 41.1 24 0.00051 23.1 2.0 22 60-81 5-26 (86)
45 COG2169 Ada Adenosine deaminas 40.5 13 0.00028 28.3 0.7 36 49-84 140-178 (187)
46 PF12085 DUF3562: Protein of u 40.4 10 0.00022 24.8 0.1 22 64-85 4-25 (66)
47 cd05142 Barstar Barstar is an 40.4 25 0.00054 23.0 2.0 21 61-81 7-27 (87)
48 cd05141 Barstar_evA4336-like B 38.7 28 0.00061 21.9 2.0 22 60-81 5-26 (81)
49 cd05749 Ig2_Tyro3_like Second 38.0 21 0.00046 22.2 1.4 18 43-61 14-32 (81)
50 cd06406 PB1_P67 A PB1 domain i 36.7 28 0.00061 23.2 1.9 21 64-84 21-41 (80)
51 COG2411 Uncharacterized conser 36.4 20 0.00044 27.6 1.3 21 58-78 71-91 (188)
52 cd00491 4Oxalocrotonate_Tautom 36.2 30 0.00065 19.4 1.7 18 67-84 21-38 (58)
53 PF08769 Spo0A_C: Sporulation 35.9 7.5 0.00016 26.4 -1.0 19 66-84 39-57 (106)
54 PRK11511 DNA-binding transcrip 35.8 16 0.00034 24.4 0.5 25 61-85 84-108 (127)
55 cd01799 Hoil1_N Ubiquitin-like 35.5 23 0.00051 22.2 1.3 26 59-84 18-43 (75)
56 cd01769 UBL Ubiquitin-like dom 34.0 30 0.00065 19.4 1.5 23 62-84 16-38 (69)
57 cd02984 TRX_PICOT TRX domain, 33.9 38 0.00082 20.2 2.0 30 41-74 68-97 (97)
58 cd00489 Barstar_like Barstar i 33.9 37 0.00079 22.0 2.0 21 61-81 6-26 (85)
59 PF11000 DUF2840: Protein of u 33.8 27 0.00059 26.0 1.5 26 59-84 87-114 (149)
60 PRK09685 DNA-binding transcrip 33.2 19 0.00041 26.2 0.6 25 61-85 274-298 (302)
61 PF12872 OST-HTH: OST-HTH/LOTU 32.9 24 0.00052 20.8 1.0 19 61-79 45-63 (74)
62 PF11784 DUF3320: Protein of u 32.8 34 0.00073 20.4 1.6 20 62-81 25-44 (52)
63 cd01763 Sumo Small ubiquitin-r 32.7 29 0.00062 21.9 1.3 41 43-85 12-53 (87)
64 PF05402 PqqD: Coenzyme PQQ sy 32.4 13 0.00028 21.8 -0.3 25 60-84 26-50 (68)
65 PF13443 HTH_26: Cro/C1-type H 32.0 17 0.00036 20.9 0.2 17 68-84 41-57 (63)
66 cd06409 PB1_MUG70 The MUG70 pr 32.0 32 0.0007 22.9 1.6 28 55-82 7-39 (86)
67 PF13560 HTH_31: Helix-turn-he 30.3 16 0.00035 21.4 -0.1 18 67-84 44-61 (64)
68 smart00530 HTH_XRE Helix-turn- 29.0 48 0.001 16.3 1.6 17 67-83 39-55 (56)
69 PF10668 Phage_terminase: Phag 29.0 18 0.00039 22.9 -0.0 22 64-85 10-40 (60)
70 PRK12534 RNA polymerase sigma 28.9 21 0.00045 24.2 0.2 20 60-84 151-170 (187)
71 PF00432 Prenyltrans: Prenyltr 28.8 25 0.00054 19.5 0.5 31 44-74 8-38 (44)
72 smart00386 HAT HAT (Half-A-TPR 28.7 33 0.00072 16.1 0.9 18 62-79 2-19 (33)
73 PF14109 GldH_lipo: GldH lipop 26.3 17 0.00036 25.1 -0.6 23 44-68 67-91 (131)
74 cd01800 SF3a120_C Ubiquitin-li 25.6 42 0.00091 20.5 1.2 24 60-83 14-37 (76)
75 PF10542 Vitelline_membr: Vite 25.3 51 0.0011 19.7 1.4 13 39-51 5-17 (38)
76 PHA01976 helix-turn-helix prot 25.1 27 0.00058 20.2 0.2 17 68-84 45-61 (67)
77 cd05895 Ig_Pro_neuregulin-1 Im 24.8 33 0.00072 19.9 0.6 24 45-68 1-24 (76)
78 PF12844 HTH_19: Helix-turn-he 24.7 22 0.00049 20.4 -0.2 17 68-84 42-58 (64)
79 PF01381 HTH_3: Helix-turn-hel 24.3 14 0.00031 20.5 -1.0 15 69-83 40-54 (55)
80 PRK15435 bifunctional DNA-bind 24.1 48 0.001 26.4 1.5 25 61-85 157-181 (353)
81 KOG4812|consensus 24.0 28 0.00062 28.0 0.2 65 10-74 20-84 (262)
82 PF11976 Rad60-SLD: Ubiquitin- 23.9 64 0.0014 18.9 1.7 26 59-84 16-42 (72)
83 PRK02289 4-oxalocrotonate taut 23.8 54 0.0012 19.3 1.4 19 66-84 21-39 (60)
84 cd01801 Tsc13_N Ubiquitin-like 23.8 60 0.0013 19.9 1.6 21 63-83 22-43 (77)
85 TIGR02297 HpaA 4-hydroxyphenyl 23.7 39 0.00085 24.2 0.9 22 62-83 262-283 (287)
86 cd05876 Ig3_L1-CAM Third immun 23.5 41 0.00088 19.6 0.8 16 45-61 1-16 (71)
87 cd03409 Chelatase_Class_II Cla 23.1 76 0.0017 19.3 2.0 26 51-77 5-30 (101)
88 PRK15121 right oriC-binding tr 23.1 37 0.0008 25.1 0.7 25 61-85 80-104 (289)
89 PF03517 Voldacs: Regulator of 23.0 50 0.0011 22.7 1.3 19 65-83 91-109 (135)
90 COG4229 Predicted enolase-phos 22.8 46 0.00099 26.4 1.1 43 41-84 131-180 (229)
91 PF14560 Ubiquitin_2: Ubiquiti 22.7 70 0.0015 19.9 1.8 30 55-84 15-44 (87)
92 PF10685 KGG: Stress-induced b 22.5 66 0.0014 17.0 1.4 14 62-75 1-15 (23)
93 PF06971 Put_DNA-bind_N: Putat 22.4 17 0.00036 22.0 -1.1 17 69-85 30-46 (50)
94 smart00482 POLAc DNA polymeras 21.9 14 0.00031 26.8 -1.7 33 52-84 30-64 (206)
95 COG4031 Predicted metal-bindin 21.6 63 0.0014 25.5 1.7 21 47-76 48-68 (227)
96 PRK13503 transcriptional activ 21.0 37 0.0008 24.2 0.3 6 75-80 260-265 (278)
97 PF10545 MADF_DNA_bdg: Alcohol 21.0 33 0.00071 20.1 0.0 19 65-83 24-44 (85)
98 cd05874 Ig6_NrCAM Sixth immuno 20.9 65 0.0014 19.3 1.3 18 45-63 1-18 (77)
99 COG2207 AraC AraC-type DNA-bin 20.8 46 0.001 20.1 0.7 24 61-84 95-118 (127)
100 TIGR02408 ectoine_ThpD ectoine 20.7 54 0.0012 24.6 1.1 17 44-60 220-236 (277)
101 smart00266 CAD Domains present 20.5 84 0.0018 20.7 1.9 21 64-84 19-39 (74)
102 PRK11509 hydrogenase-1 operon 20.5 1.3E+02 0.0028 21.3 3.0 37 42-81 92-128 (132)
No 1
>KOG3938|consensus
Probab=99.95 E-value=6.3e-28 Score=191.46 Aligned_cols=83 Identities=43% Similarity=0.717 Sum_probs=63.0
Q ss_pred CCCccCCCCCCCCCCCCCCcCCCCcc----------cccCCCCCCCCCCCCCCceeeeeecccCCCceeccCccchHHHH
Q psy16017 1 MPLFTRKPKKDDHLLDNNNVGEHKSK----------IYNGTKSPAPVTEDSKPKLIFHCQLAHGSPTGLISGFSNVRELY 70 (85)
Q Consensus 1 m~l~~~k~~k~~~~~~~~~~~~~~~~----------~~~g~~~~~p~~~~~~p~LvFh~QLAHGSptg~I~gFsnvkELY 70 (85)
|||+.++-+|.-.......--+-.|. +.++.+ ..+.++..+|+||||||||||||||+|+||+||+|||
T Consensus 1 M~~~~~~~~k~~~~~~~~~a~~~rs~e~~p~~~~~~~s~~~~-s~s~~~~~~p~LvF~~QLAHGSptg~Ie~fsnv~ELY 79 (334)
T KOG3938|consen 1 MPLQGRPSPKSRPRSEGRGAFNARSGETSPLQPGVPISPNEG-SPSIPPAVRPRLVFHCQLAHGSPTGRIEGFSNVRELY 79 (334)
T ss_pred CCCCCCCCCCCCCccccccccccCCCCCCCCCCCCCCCccCC-CCCCCccCCCceeEeeeeccCCccceecccccHHHHH
Confidence 89998888776665433222111111 112222 2456789999999999999999999999999999999
Q ss_pred HhhhhhhcCCCCcC
Q psy16017 71 QKIAECYEFPAEEN 84 (85)
Q Consensus 71 ~kIae~f~i~p~e~ 84 (85)
++||+||+|+++|+
T Consensus 80 ~kIAe~F~Is~~dI 93 (334)
T KOG3938|consen 80 QKIAEAFDISPDDI 93 (334)
T ss_pred HHHHHHhcCCccce
Confidence 99999999999986
No 2
>cd01807 GDX_N ubiquitin-like domain of GDX. GDX contains an N-terminal ubiquitin-like domain as well as an uncharacterized c-terminal domain. The function of GDX is unknown.
Probab=75.99 E-value=1.5 Score=26.60 Aligned_cols=26 Identities=23% Similarity=0.337 Sum_probs=23.0
Q ss_pred eccCccchHHHHHhhhhhhcCCCCcC
Q psy16017 59 LISGFSNVRELYQKIAECYEFPAEEN 84 (85)
Q Consensus 59 ~I~gFsnvkELY~kIae~f~i~p~e~ 84 (85)
.|+...+|.+|-+.|++.+++++++.
T Consensus 16 ~v~~~~tV~~lK~~i~~~~gi~~~~q 41 (74)
T cd01807 16 QVSEKESVSTLKKLVSEHLNVPEEQQ 41 (74)
T ss_pred EECCCCcHHHHHHHHHHHHCCCHHHe
Confidence 46788999999999999999998764
No 3
>PF11543 UN_NPL4: Nuclear pore localisation protein NPL4; InterPro: IPR024682 Npl4, along with Ufd1, forms the heterodimer adaptor complex UN, which is involved in the recruitment of p97, an AAA ATPase, for tasks involving the ubiquitin pathway. Npl4 has a N-terminal ubiquitin-like domain which has within its structure a beta-grasp fold with a helical insert []. This entry represents the ubiquitin-like domain.; PDB: 2PJH_A 1WF9_A.
Probab=71.79 E-value=3.1 Score=26.77 Aligned_cols=24 Identities=29% Similarity=0.416 Sum_probs=16.8
Q ss_pred ccCccchHHHHHhhhhhhcCCCCc
Q psy16017 60 ISGFSNVRELYQKIAECYEFPAEE 83 (85)
Q Consensus 60 I~gFsnvkELY~kIae~f~i~p~e 83 (85)
|+.=+++.+||++|++.++++...
T Consensus 20 ~~~~~t~~~L~~kI~~~l~~~~~~ 43 (80)
T PF11543_consen 20 VSPSSTLSDLKEKISEQLSIPDSS 43 (80)
T ss_dssp E-TTSBHHHHHHHHHHHS---TTT
T ss_pred cCCcccHHHHHHHHHHHcCCCCcc
Confidence 455678999999999999998764
No 4
>cd01791 Ubl5 UBL5 ubiquitin-like modifier. UBL5 (also known as HUB1) is a ubiquitin-like modifier that is both widely expressed and highly phylogenetically conserved. At the C-terminal end of the ubiquitin-like fold of UBL5 is a di-tyrosine motif followed by a single variable residue instead of the characteristic di-glycine found in all other ubiquitin-like modifiers. ULB5 interacts with a cyclin-like kinase called CLK4 but not with other cyclin-like kinase family members.
Probab=70.84 E-value=2.2 Score=26.80 Aligned_cols=27 Identities=15% Similarity=-0.032 Sum_probs=21.8
Q ss_pred eccCccchHHHHHhhhhhhcCCCCcCC
Q psy16017 59 LISGFSNVRELYQKIAECYEFPAEENR 85 (85)
Q Consensus 59 ~I~gFsnvkELY~kIae~f~i~p~e~~ 85 (85)
.|+.=.+|.+|.++|++.++++++..|
T Consensus 17 ~v~~~~TV~~LK~~I~~~~~~~~~~qr 43 (73)
T cd01791 17 KCNPDDTIGDLKKLIAAQTGTRPEKIV 43 (73)
T ss_pred EeCCCCcHHHHHHHHHHHhCCChHHEE
Confidence 445557799999999999999988653
No 5
>PF00240 ubiquitin: Ubiquitin family; InterPro: IPR000626 Ubiquitinylation is an ATP-dependent process that involves the action of at least three enzymes: a ubiquitin-activating enzyme (E1, IPR000011 from INTERPRO), a ubiquitin-conjugating enzyme (E2, IPR000608 from INTERPRO), and a ubiquitin ligase (E3, IPR000569 from INTERPRO, IPR003613 from INTERPRO), which work sequentially in a cascade. There are many different E3 ligases, which are responsible for the type of ubiquitin chain formed, the specificity of the target protein, and the regulation of the ubiquitinylation process []. Ubiquitinylation is an important regulatory tool that controls the concentration of key signalling proteins, such as those involved in cell cycle control, as well as removing misfolded, damaged or mutant proteins that could be harmful to the cell. Several ubiquitin-like molecules have been discovered, such as Ufm1 (IPR005375 from INTERPRO), SUMO1 (IPR003653 from INTERPRO), NEDD8, Rad23 (IPR004806 from INTERPRO), Elongin B and Parkin (IPR003977 from INTERPRO), the latter being involved in Parkinson's disease []. Ubiquitin is a protein of 76 amino acid residues, found in all eukaryotic cells and whose sequence is extremely well conserved from protozoan to vertebrates. Ubiquitin acts through its post-translational attachment (ubiquitinylation) to other proteins, where these modifications alter the function, location or trafficking of the protein, or targets it for destruction by the 26S proteasome []. The terminal glycine in the C-terminal 4-residue tail of ubiquitin can form an isopeptide bond with a lysine residue in the target protein, or with a lysine in another ubiquitin molecule to form a ubiquitin chain that attaches itself to a target protein. Ubiquitin has seven lysine residues, any one of which can be used to link ubiquitin molecules together, resulting in different structures that alter the target protein in different ways. It appears that Lys(11)-, Lys(29) and Lys(48)-linked poly-ubiquitin chains target the protein to the proteasome for degradation, while mono-ubiquitinylated and Lys(6)- or Lys(63)-linked poly-ubiquitin chains signal reversible modifications in protein activity, location or trafficking []. For example, Lys(63)-linked poly-ubiquitinylation is known to be involved in DNA damage tolerance, inflammatory response, protein trafficking and signal transduction through kinase activation []. In addition, the length of the ubiquitin chain alters the fate of the target protein. Regulatory proteins such as transcription factors and histones are frequent targets of ubquitinylation [].; GO: 0005515 protein binding; PDB: 2DZI_A 2XEW_E 3NOB_E 2KWU_B 2Y5B_F 3PHD_G 2KWV_B 2KOX_A 2XK5_B 3NHE_B ....
Probab=69.86 E-value=3.2 Score=24.27 Aligned_cols=26 Identities=35% Similarity=0.363 Sum_probs=22.8
Q ss_pred eccCccchHHHHHhhhhhhcCCCCcC
Q psy16017 59 LISGFSNVRELYQKIAECYEFPAEEN 84 (85)
Q Consensus 59 ~I~gFsnvkELY~kIae~f~i~p~e~ 84 (85)
.|....+|.+|-+.|++.+++|+++.
T Consensus 11 ~v~~~~tV~~lK~~i~~~~~~~~~~~ 36 (69)
T PF00240_consen 11 EVDPDDTVADLKQKIAEETGIPPEQQ 36 (69)
T ss_dssp EEETTSBHHHHHHHHHHHHTSTGGGE
T ss_pred EECCCCCHHHhhhhcccccccccccc
Confidence 46678899999999999999998864
No 6
>cd01803 Ubiquitin Ubiquitin. Ubiquitin (includes Ubq/RPL40e and Ubq/RPS27a fusions as well as homopolymeric multiubiquitin protein chains)
Probab=68.46 E-value=3 Score=24.59 Aligned_cols=26 Identities=12% Similarity=0.238 Sum_probs=21.5
Q ss_pred eccCccchHHHHHhhhhhhcCCCCcC
Q psy16017 59 LISGFSNVRELYQKIAECYEFPAEEN 84 (85)
Q Consensus 59 ~I~gFsnvkELY~kIae~f~i~p~e~ 84 (85)
.++.-.+|.+|.++|++.+++|+++.
T Consensus 16 ~v~~~~tV~~lK~~i~~~~g~~~~~q 41 (76)
T cd01803 16 EVEPSDTIENVKAKIQDKEGIPPDQQ 41 (76)
T ss_pred EECCcCcHHHHHHHHHHHhCCCHHHe
Confidence 35556789999999999999998754
No 7
>cd01804 midnolin_N Ubiquitin-like domain of midnolin. midnolin_N Midnolin (midbrain nucleolar protein) is expressed in the nucleolus and is thought to regulate genes involved in neurogenesis. Midnolin contains an amino-terminal ubiquitin-like domain.
Probab=67.58 E-value=3.3 Score=25.81 Aligned_cols=25 Identities=20% Similarity=0.286 Sum_probs=20.3
Q ss_pred ccCccchHHHHHhhhhhhcCCCCcC
Q psy16017 60 ISGFSNVRELYQKIAECYEFPAEEN 84 (85)
Q Consensus 60 I~gFsnvkELY~kIae~f~i~p~e~ 84 (85)
++.=.+|.||.++|++.+++++++.
T Consensus 18 v~~~~TV~~LK~~I~~~~~~~~~~q 42 (78)
T cd01804 18 VPPDETVEGLKKRISQRLKVPKERL 42 (78)
T ss_pred ECCcCHHHHHHHHHHHHhCCChHHE
Confidence 3444679999999999999998764
No 8
>cd01794 DC_UbP_C dendritic cell derived ubiquitin-like protein. DC_UbP (dendritic cell derived ubiquitin-like protein) is a ubiquitin-like protein from human dendritic cells that is expressed in the mitochondrion. The ubiquitin-like domain of this protein is found at the C-terminus and lacks the canonical gly-gly motif of ubiquitin required for ubiquitinization. DC_UbP is expressed in tumor cells but not in normal human adult tissue suggesting a role for DC_UbP in tumorogenesis.
Probab=67.35 E-value=2.8 Score=25.90 Aligned_cols=26 Identities=12% Similarity=0.057 Sum_probs=22.7
Q ss_pred eccCccchHHHHHhhhhhhcCCCCcC
Q psy16017 59 LISGFSNVRELYQKIAECYEFPAEEN 84 (85)
Q Consensus 59 ~I~gFsnvkELY~kIae~f~i~p~e~ 84 (85)
.|+...+|.+|-++|++.+++++++.
T Consensus 14 ~v~~~~TV~~lK~~I~~~~gi~~~~q 39 (70)
T cd01794 14 SVSSKDTVGQLKKQLQAAEGVDPCCQ 39 (70)
T ss_pred EECCcChHHHHHHHHHHHhCCCHHHe
Confidence 56778899999999999999998764
No 9
>cd01793 Fubi Fubi ubiquitin-like protein. Fubi is a ubiquitin-like protein encoded by the fau gene which has an N-terminal ubiquitin-like domain (also referred to as FUBI) fused to the ribosomal protein S30. Fubi is thought to be a tumor suppressor protein and the FUBI domain may act as a substitute or an inhibitor of ubiquitin or one of ubiquitin's close relatives UCRP, FAT10, and Nedd8.
Probab=67.01 E-value=3.2 Score=25.21 Aligned_cols=26 Identities=15% Similarity=0.266 Sum_probs=22.5
Q ss_pred eccCccchHHHHHhhhhhhcCCCCcC
Q psy16017 59 LISGFSNVRELYQKIAECYEFPAEEN 84 (85)
Q Consensus 59 ~I~gFsnvkELY~kIae~f~i~p~e~ 84 (85)
.|+.-.+|.++-++|++.++||+++.
T Consensus 14 ~v~~~~tV~~lK~~i~~~~gip~~~q 39 (74)
T cd01793 14 EVTGQETVSDIKAHVAGLEGIDVEDQ 39 (74)
T ss_pred EECCcCcHHHHHHHHHhhhCCCHHHE
Confidence 45677899999999999999998864
No 10
>cd01808 hPLIC_N Ubiquitin-like domain of hPLIC-1 and hPLIC2. hPLIC-1 and hPLIC-2 (human homologs of the yeast ubiquitin-like Dsk2 protein) are type2 UBL's (ubiquitin-like) proteins that are thought to serve as adaptors that link the ubiquitination machinery to the proteasome. The hPLIC's have an N-terminal UBL domain that binds the S5a subunit of the proteasome and a C-terminal UBA (ubiquitin-associated) domain that binds a ubiquitylated protein.
Probab=66.34 E-value=3.3 Score=24.88 Aligned_cols=25 Identities=12% Similarity=0.263 Sum_probs=20.4
Q ss_pred ccCccchHHHHHhhhhhhcCCCCcC
Q psy16017 60 ISGFSNVRELYQKIAECYEFPAEEN 84 (85)
Q Consensus 60 I~gFsnvkELY~kIae~f~i~p~e~ 84 (85)
|+.=.+|.+|.++|++.+++++++.
T Consensus 16 v~~~~TV~~lK~~I~~~~~i~~~~~ 40 (71)
T cd01808 16 IAEDASVKDFKEAVSKKFKANQEQL 40 (71)
T ss_pred ECCCChHHHHHHHHHHHhCCCHHHE
Confidence 4455689999999999999987654
No 11
>cd01792 ISG15_repeat1 ISG15 ubiquitin-like protein, first repeat of 2. ISG15 is a ubiquitin-like protein containing two ubiquitin homology domains that becomes conjugated to a variety of proteins when cells are treated with type I interferon or lipopolysaccharide. Although ISG15 has properties similar to those of other ubiquitin-like molecules, it is a unique member of the ubiquitin-like superfamily, whose expression and conjugation to target proteins are tightly regulated by specific signaling pathways, indicating it may have specialized functions in the immune system.
Probab=64.41 E-value=3.8 Score=25.40 Aligned_cols=25 Identities=32% Similarity=0.325 Sum_probs=20.7
Q ss_pred ccCccchHHHHHhhhhhhcCCCCcC
Q psy16017 60 ISGFSNVRELYQKIAECYEFPAEEN 84 (85)
Q Consensus 60 I~gFsnvkELY~kIae~f~i~p~e~ 84 (85)
|+.-.+|.||.++|++.+++++++-
T Consensus 19 v~~~~TV~~lK~~I~~~~~i~~~~q 43 (80)
T cd01792 19 LRDSMTVSELKQQIAQKIGVPAFQQ 43 (80)
T ss_pred cCCCCcHHHHHHHHHHHhCCCHHHE
Confidence 4556789999999999999987653
No 12
>cd01796 DDI1_N DNA damage inducible protein 1 ubiquitin-like domain. DDI1_N DDI1 (DNA damage inducible protein 1) has an amino-terminal ubiquitin-like domain, an retroviral protease-like (RVP-like) domain, and a UBA (ubiquitin-associated) domain. This CD represents the amino-terminal ubiquitin-like domain of DDI1.
Probab=64.16 E-value=3.9 Score=24.98 Aligned_cols=26 Identities=8% Similarity=-0.000 Sum_probs=22.3
Q ss_pred eccCccchHHHHHhhhhhhcCCCCcC
Q psy16017 59 LISGFSNVRELYQKIAECYEFPAEEN 84 (85)
Q Consensus 59 ~I~gFsnvkELY~kIae~f~i~p~e~ 84 (85)
.|+.-.+|.+|-++|++.+++|+++.
T Consensus 15 ~v~~~~TV~~lK~~I~~~~gip~~~q 40 (71)
T cd01796 15 DVDPDLELENFKALCEAESGIPASQQ 40 (71)
T ss_pred EECCcCCHHHHHHHHHHHhCCCHHHe
Confidence 45667899999999999999998764
No 13
>cd01810 ISG15_repeat2 ISG15 ubiquitin-like protein, second repeat of 2. ISG15 is a ubiquitin-like protein containing two ubiquitin homology domains and becomes conjugated to a variety of proteins when cells are treated with type I interferon or lipopolysaccharide. Although ISG15 has properties similar to those of other ubiquitin-like molecules, it is a unique member of the ubiquitin-like superfamily, whose expression and conjugation to target proteins are tightly regulated by specific signaling pathways, indicating it may have specialized functions in the immune system.
Probab=63.12 E-value=4.4 Score=24.60 Aligned_cols=26 Identities=15% Similarity=0.110 Sum_probs=22.0
Q ss_pred eccCccchHHHHHhhhhhhcCCCCcC
Q psy16017 59 LISGFSNVRELYQKIAECYEFPAEEN 84 (85)
Q Consensus 59 ~I~gFsnvkELY~kIae~f~i~p~e~ 84 (85)
.|+.-.+|++|-++|++..+|++++.
T Consensus 14 ~v~~~~tV~~lK~~I~~~~gi~~~~q 39 (74)
T cd01810 14 EVQLTQTVATLKQQVSQRERVQADQF 39 (74)
T ss_pred EECCcChHHHHHHHHHHHhCCCHHHe
Confidence 45667899999999999999988753
No 14
>cd01806 Nedd8 Nebb8-like ubiquitin protein. Nedd8 (also known as Rub1) has a single conserved ubiquitin-like domain that is part of a protein modification pathway similar to that of ubiquitin. Nedd8 modifies a family of molecular scaffold proteins called cullins that are responsible for assembling the ROC1/Rbx1 RING-based E3 ubiquitin ligases, of which several play a direct role in tumorigenesis.
Probab=61.92 E-value=5.9 Score=23.28 Aligned_cols=25 Identities=16% Similarity=0.327 Sum_probs=21.6
Q ss_pred ccCccchHHHHHhhhhhhcCCCCcC
Q psy16017 60 ISGFSNVRELYQKIAECYEFPAEEN 84 (85)
Q Consensus 60 I~gFsnvkELY~kIae~f~i~p~e~ 84 (85)
|+.-.+|.+|-++|++.+++|+++.
T Consensus 17 v~~~~tv~~lK~~i~~~~g~~~~~q 41 (76)
T cd01806 17 IEPTDKVERIKERVEEKEGIPPQQQ 41 (76)
T ss_pred ECCCCCHHHHHHHHhHhhCCChhhE
Confidence 5666789999999999999999864
No 15
>cd00196 UBQ Ubiquitin-like proteins. Ubiquitin homologs; Includes ubiquitin and ubiquitin-like proteins. Ubiquitin-mediated proteolysis is part of the regulated turnover of proteins required for controlling cell cycle progression. Other family members are protein modifiers that perform a wide range of functions. Ubiquitination usually results in a covalent bond between the C-terminus of ubiquitin and the epsilon-amino group of a substrate lysine. The three-step mechanism requires an activating enzyme (E1) that forms a thiol ester with the C-terminal carboxy group, a conjugating enzyme (E2) that transiently carries the activated ubiquitin molecule as a thiol ester, and a ligase (E3) that transfers the activated ubiquitin from the E2 to the substrate lysine residue. In poly-ubiquitination, ubiquitin itself is the substrate.
Probab=60.43 E-value=6.5 Score=19.66 Aligned_cols=24 Identities=25% Similarity=0.398 Sum_probs=19.2
Q ss_pred cCccchHHHHHhhhhhhcCCCCcC
Q psy16017 61 SGFSNVRELYQKIAECYEFPAEEN 84 (85)
Q Consensus 61 ~gFsnvkELY~kIae~f~i~p~e~ 84 (85)
..-.+++++.++|.+.+++++++.
T Consensus 15 ~~~~tv~~l~~~i~~~~~~~~~~~ 38 (69)
T cd00196 15 PSGTTVADLKEKLAKKLGLPPEQQ 38 (69)
T ss_pred CCCCcHHHHHHHHHHHHCcChHHe
Confidence 346789999999999998776643
No 16
>PF02071 NSF: Aromatic-di-Alanine (AdAR) repeat ; InterPro: IPR000744 Regulated exocytosis of neurotransmitters and hormones, as well as intracellular traffic, requires fusion of two lipid bilayers. SNARE proteins are thought to form a protein bridge, the SNARE complex, between an incoming vesicle and the acceptor compartment. SNARE proteins contribute to the specificity of membrane fusion, implying that the mechanisms by which SNAREs are targeted to subcellular compartments are important for specific docking and fusion of vesicles. This mechanism involves a family of conserved proteins, members of which appear to function at all sites of constitutive and regulated secretion in eukaryotes []. Among them are 2 types of cytosolic protein, NSF (N-ethyl-maleimide-sensitive protein) and the SNAPs (alpha-, beta- and gamma-soluble NSF attachment proteins). The yeast vesicular fusion protein, sec17, a cytoplasmic peripheral membrane protein involved in vesicular transport between the endoplasmic reticulum and the golgi apparatus, shows a high degree of sequence similarity to the alpha-SNAP family. SNAP-25 and its non-neuronal homologue Syndet/SNAP-23 are synthesized as soluble proteins in the cytosol. Both SNAP-25 and Syndet/SNAP-23 are palmitoylated at cysteine residues clustered in a loop between two N- and C-terminal coils and palmitoylation is essential for membrane binding and plasma membrane targeting. The C-terminal and the N-terminal helices of SNAP-25, are each targeted to the plasma membrane by two distinct cysteine-rich domains and appear to regulate the availability of SNAP to form complexes with SNARE [].; GO: 0006886 intracellular protein transport
Probab=59.41 E-value=5 Score=18.45 Aligned_cols=10 Identities=60% Similarity=1.228 Sum_probs=8.1
Q ss_pred HHHHhhhhhh
Q psy16017 68 ELYQKIAECY 77 (85)
Q Consensus 68 ELY~kIae~f 77 (85)
+-|+++|+||
T Consensus 3 ~~y~~Aa~~y 12 (12)
T PF02071_consen 3 KCYEKAAECY 12 (12)
T ss_pred HHHHHHHhhC
Confidence 3589999987
No 17
>cd01798 parkin_N amino-terminal ubiquitin-like of parkin protein. parkin_N parkin protein is a RING-type E3 ubiquitin ligase with an amino-terminal ubiquitin-like (Ubl) domain and an RBR signature consisting of two RING finger domains separated by an IBR/DRIL domain. Naturally occurring mutations in parkin are thought to cause the disease AR_JP (autosomal-recessive juvenile parkinsonism). Parkin binds the Rpn10 subunit of 26S proteasomes through its Ubl domain.
Probab=58.95 E-value=5.2 Score=23.89 Aligned_cols=25 Identities=12% Similarity=0.295 Sum_probs=21.6
Q ss_pred ccCccchHHHHHhhhhhhcCCCCcC
Q psy16017 60 ISGFSNVRELYQKIAECYEFPAEEN 84 (85)
Q Consensus 60 I~gFsnvkELY~kIae~f~i~p~e~ 84 (85)
|+.-.+|+++-+.|++.+++++++.
T Consensus 15 v~~~~tV~~lK~~i~~~~gi~~~~q 39 (70)
T cd01798 15 VDPDTDIKQLKEVVAKRQGVPPDQL 39 (70)
T ss_pred ECCCChHHHHHHHHHHHHCCCHHHe
Confidence 5567899999999999999998764
No 18
>cd01802 AN1_N ubiquitin-like domain of AN1. AN1 (also known as ANUBL1 and RSD-7) is ubiquitin-like protein with a testis-specific expression in rats that has an N-terminal ubiquitin-like domain and a C-terminal zinc-binding domain. Unlike ubiquitin polyproteins and most ubiquitin fusion proteins, the N-terminal ubiquitin-like domain of An1 does not undergo proteolytic processing. The function of AN1 is unknown.
Probab=58.44 E-value=5.9 Score=26.40 Aligned_cols=39 Identities=21% Similarity=0.232 Sum_probs=29.0
Q ss_pred ceeeeeecccCCCc-eeccCccchHHHHHhhhhhhcCCCCcC
Q psy16017 44 KLIFHCQLAHGSPT-GLISGFSNVRELYQKIAECYEFPAEEN 84 (85)
Q Consensus 44 ~LvFh~QLAHGSpt-g~I~gFsnvkELY~kIae~f~i~p~e~ 84 (85)
.+.+-+. .|... =.|+...+|.+|-++|++.++|++++-
T Consensus 29 ~I~Vk~l--~G~~~~leV~~~~TV~~lK~kI~~~~gip~~~Q 68 (103)
T cd01802 29 ELFIETL--TGTCFELRVSPFETVISVKAKIQRLEGIPVAQQ 68 (103)
T ss_pred EEEEEcC--CCCEEEEEeCCCCcHHHHHHHHHHHhCCChHHE
Confidence 4444444 35433 358899999999999999999998753
No 19
>cd01812 BAG1_N Ubiquitin-like domain of BAG1. BAG1_N N-terminal ubiquitin-like (Ubl) domain of the BAG1 protein. This domain occurs together with the BAG domain and is closely related to the Ubl domain of a family of deubiquitinases that includes Rpn11, UBP6 (USP14), USP7 (HAUSP).
Probab=55.75 E-value=8.5 Score=22.46 Aligned_cols=25 Identities=16% Similarity=0.203 Sum_probs=20.8
Q ss_pred ccCccchHHHHHhhhhhhcCCCCcC
Q psy16017 60 ISGFSNVRELYQKIAECYEFPAEEN 84 (85)
Q Consensus 60 I~gFsnvkELY~kIae~f~i~p~e~ 84 (85)
++.=.+|.+|-++|++.+++++++.
T Consensus 16 v~~~~tv~~lK~~i~~~~gi~~~~q 40 (71)
T cd01812 16 ISSQATFGDLKKMLAPVTGVEPRDQ 40 (71)
T ss_pred ECCCCcHHHHHHHHHHhhCCChHHe
Confidence 4455789999999999999998754
No 20
>PF14552 Tautomerase_2: Tautomerase enzyme; PDB: 2AAG_C 2AAL_A 2AAJ_A 1MWW_C.
Probab=54.07 E-value=7 Score=25.37 Aligned_cols=19 Identities=26% Similarity=0.415 Sum_probs=12.1
Q ss_pred hHHHHHhhh----hhhcCCCCcC
Q psy16017 66 VRELYQKIA----ECYEFPAEEN 84 (85)
Q Consensus 66 vkELY~kIa----e~f~i~p~e~ 84 (85)
-++||+.|+ +..+|+|+||
T Consensus 45 K~~ly~~l~~~L~~~~gi~p~Dv 67 (82)
T PF14552_consen 45 KKALYRALAERLAEKLGIRPEDV 67 (82)
T ss_dssp HHHHHHHHHHHHHHHH---GGGE
T ss_pred HHHHHHHHHHHHHHHcCCCHHHE
Confidence 467888887 5678999886
No 21
>PF14645 Chibby: Chibby family
Probab=53.17 E-value=34 Score=23.73 Aligned_cols=32 Identities=28% Similarity=0.268 Sum_probs=20.7
Q ss_pred ceeee-ee--cccCCCceeccCccchHHHHHhhhh
Q psy16017 44 KLIFH-CQ--LAHGSPTGLISGFSNVRELYQKIAE 75 (85)
Q Consensus 44 ~LvFh-~Q--LAHGSptg~I~gFsnvkELY~kIae 75 (85)
.|||. -| ..+|+.++...+....++-.+.+-|
T Consensus 51 ~l~F~dG~W~~e~~~~~~~~~~~~~l~~~n~~L~E 85 (116)
T PF14645_consen 51 TLVFEDGQWTSESGSGTADGEENQRLRKENQQLEE 85 (116)
T ss_pred EEEEECCEEeccCCCcccchhHHHHHHHHHHHHHH
Confidence 67882 01 3457777888888777776666553
No 22
>smart00760 Bac_DnaA_C Bacterial dnaA protein helix-turn-helix domain. Could be involved in DNA-binding.
Probab=53.09 E-value=5.8 Score=23.59 Aligned_cols=20 Identities=20% Similarity=0.451 Sum_probs=17.0
Q ss_pred chHHHHHhhhhhhcCCCCcC
Q psy16017 65 NVRELYQKIAECYEFPAEEN 84 (85)
Q Consensus 65 nvkELY~kIae~f~i~p~e~ 84 (85)
++.++-+.+|+.|+|+++|+
T Consensus 1 ~~~~I~~~Va~~~~i~~~~i 20 (60)
T smart00760 1 TIEEIIEAVAEYFGVKPEDL 20 (60)
T ss_pred CHHHHHHHHHHHhCCCHHHH
Confidence 46788889999999998876
No 23
>PF13647 Glyco_hydro_80: Glycosyl hydrolase family 80 of chitosanase A
Probab=52.98 E-value=7.3 Score=31.32 Aligned_cols=24 Identities=46% Similarity=0.695 Sum_probs=20.8
Q ss_pred ceeeeeecccCCCceeccCccchHH
Q psy16017 44 KLIFHCQLAHGSPTGLISGFSNVRE 68 (85)
Q Consensus 44 ~LvFh~QLAHGSptg~I~gFsnvkE 68 (85)
-|-|+.|..-|| .|.|+.|++||.
T Consensus 201 glafqvqvntgs-igsisafssvks 224 (308)
T PF13647_consen 201 GLAFQVQVNTGS-IGSISAFSSVKS 224 (308)
T ss_pred eEEEEEEecccc-ccceehhhhccc
Confidence 478999999887 689999999974
No 24
>cd01805 RAD23_N Ubiquitin-like domain of RAD23. RAD23 belongs to a family of adaptor molecules having affinity for both the proteasome and ubiquitinylated proteins and thought to shuttle these ubiquitinylated proteins to the proteasome for destruction. RAD23 interacts with ubiquitin through its C-terminal ubiquitin-associated domains (UBA) and with the proteasome through its N-terminal ubiquitin-like domain (UBL).
Probab=52.70 E-value=9.5 Score=22.75 Aligned_cols=25 Identities=32% Similarity=0.355 Sum_probs=20.3
Q ss_pred ccCccchHHHHHhhhhhhcC--CCCcC
Q psy16017 60 ISGFSNVRELYQKIAECYEF--PAEEN 84 (85)
Q Consensus 60 I~gFsnvkELY~kIae~f~i--~p~e~ 84 (85)
|+.-.+|.+|-+.|++.+++ ++++.
T Consensus 17 v~~~~TV~~lK~~i~~~~~i~~~~~~q 43 (77)
T cd01805 17 VDPDDTVAELKEKIEEEKGCDYPPEQQ 43 (77)
T ss_pred ECCCCcHHHHHHHHHHhhCCCCChhHe
Confidence 45567899999999999998 77653
No 25
>PRK01964 4-oxalocrotonate tautomerase; Provisional
Probab=52.23 E-value=8.4 Score=22.74 Aligned_cols=18 Identities=28% Similarity=0.481 Sum_probs=12.4
Q ss_pred HHHHHhhhhhhcCCCCcC
Q psy16017 67 RELYQKIAECYEFPAEEN 84 (85)
Q Consensus 67 kELY~kIae~f~i~p~e~ 84 (85)
+++++.+++++++|++++
T Consensus 22 ~~it~~l~~~lg~p~~~v 39 (64)
T PRK01964 22 REVTEAISATLDVPKERV 39 (64)
T ss_pred HHHHHHHHHHhCcChhhE
Confidence 344445558899999876
No 26
>PRK10219 DNA-binding transcriptional regulator SoxS; Provisional
Probab=51.47 E-value=6.9 Score=24.78 Aligned_cols=25 Identities=8% Similarity=0.254 Sum_probs=22.2
Q ss_pred cCccchHHHHHhhhhhhcCCCCcCC
Q psy16017 61 SGFSNVRELYQKIAECYEFPAEENR 85 (85)
Q Consensus 61 ~gFsnvkELY~kIae~f~i~p~e~~ 85 (85)
-||+|..-++...-+.||++|.|.|
T Consensus 80 ~Gf~~~s~f~~~Fk~~~G~tP~~~r 104 (107)
T PRK10219 80 LGYVSQQTFSRVFRRQFDRTPSDYR 104 (107)
T ss_pred HCCCCHHHHHHHHHHHHCcCHHHHH
Confidence 4899999999999999999998764
No 27
>smart00213 UBQ Ubiquitin homologues. Ubiquitin-mediated proteolysis is involved in the regulated turnover of proteins required for controlling cell cycle progression
Probab=50.90 E-value=10 Score=21.11 Aligned_cols=26 Identities=35% Similarity=0.400 Sum_probs=21.1
Q ss_pred eccCccchHHHHHhhhhhhcCCCCcC
Q psy16017 59 LISGFSNVRELYQKIAECYEFPAEEN 84 (85)
Q Consensus 59 ~I~gFsnvkELY~kIae~f~i~p~e~ 84 (85)
.|+.=.+|.+|-+.|++.+++++++.
T Consensus 15 ~v~~~~tv~~lk~~i~~~~~~~~~~~ 40 (64)
T smart00213 15 EVKPSDTVSELKEKIAELTGIPVEQQ 40 (64)
T ss_pred EECCCCcHHHHHHHHHHHHCCCHHHE
Confidence 45555789999999999999988653
No 28
>cd01797 NIRF_N amino-terminal ubiquitin-like domain of Np95 and NIRF. NIRF_N This CD represents the amino-terminal ubiquitin-like domain of a family of nuclear proteins that includes Np95 and NIRF (Np95/ICBP90-like RING finger) protein. Both Np95 and NIRF have a domain architecture consisting of a ubiquitin-like domain, a PHD finger, a YDG/SRA domain, Rb-binding motifs and a RING finger domain. Both Np95 and NIRF are ubiquitin ligases that ubiquitinate PCNP (PEST-containing nuclear proteins). While Np95 is capable of binding histones, NIRF is involved in cell cycle regulation.
Probab=50.83 E-value=8.6 Score=24.17 Aligned_cols=25 Identities=32% Similarity=0.480 Sum_probs=20.9
Q ss_pred ccCccchHHHHHhhhhhhcCCCCcC
Q psy16017 60 ISGFSNVRELYQKIAECYEFPAEEN 84 (85)
Q Consensus 60 I~gFsnvkELY~kIae~f~i~p~e~ 84 (85)
++.-.+|.++-++|++.++|++++-
T Consensus 19 v~~~~TV~~lK~~i~~~~gi~~~~Q 43 (78)
T cd01797 19 LSRLTKVEELREKIQELFNVEPECQ 43 (78)
T ss_pred cCCcCcHHHHHHHHHHHhCCCHHHe
Confidence 3455789999999999999998764
No 29
>smart00342 HTH_ARAC helix_turn_helix, arabinose operon control protein.
Probab=50.75 E-value=14 Score=20.85 Aligned_cols=26 Identities=19% Similarity=0.287 Sum_probs=22.2
Q ss_pred ccCccchHHHHHhhhhhhcCCCCcCC
Q psy16017 60 ISGFSNVRELYQKIAECYEFPAEENR 85 (85)
Q Consensus 60 I~gFsnvkELY~kIae~f~i~p~e~~ 85 (85)
.-||.|...++...-+.+|++|.+.|
T Consensus 59 ~~g~~s~~~f~r~Fk~~~g~sp~~~r 84 (84)
T smart00342 59 RVGFSSQSYFSRAFKKLFGVTPSEYR 84 (84)
T ss_pred HhCCCChHHHHHHHHHHHCcChhhcC
Confidence 45888999999999999999998865
No 30
>PRK02220 4-oxalocrotonate tautomerase; Provisional
Probab=50.69 E-value=9.1 Score=22.08 Aligned_cols=17 Identities=18% Similarity=0.233 Sum_probs=11.7
Q ss_pred HHHHhhhhhhcCCCCcC
Q psy16017 68 ELYQKIAECYEFPAEEN 84 (85)
Q Consensus 68 ELY~kIae~f~i~p~e~ 84 (85)
++++.++++|++|++++
T Consensus 23 ~it~~l~~~~~~p~~~v 39 (61)
T PRK02220 23 DVTAAVSKNTGAPAEHI 39 (61)
T ss_pred HHHHHHHHHhCcChhhE
Confidence 34444558899998875
No 31
>PF07027 DUF1318: Protein of unknown function (DUF1318); InterPro: IPR008309 There are currently no experimental data for members of this group or their homologues, nor do they exhibit features indicative of any function.
Probab=50.28 E-value=5.2 Score=27.05 Aligned_cols=18 Identities=39% Similarity=0.506 Sum_probs=16.0
Q ss_pred HHHHHhhhhhhcCCCCcC
Q psy16017 67 RELYQKIAECYEFPAEEN 84 (85)
Q Consensus 67 kELY~kIae~f~i~p~e~ 84 (85)
+.+|+.||+.-++++++|
T Consensus 50 ~~~Y~~iA~~ng~t~~~V 67 (95)
T PF07027_consen 50 RALYQEIAKKNGITVEQV 67 (95)
T ss_pred HHHHHHHHHHcCCCHHHH
Confidence 579999999999998876
No 32
>PF01337 Barstar: Barstar (barnase inhibitor); InterPro: IPR000468 Barstar is a small single chain protein. Barnase is the extracellular ribonuclease IPR001887 from INTERPRO of Bacillus amyloliquefaciens, and barstar its specific intracellular inhibitor [, ]. Expression of barstar is necessary to counter the lethal effect of expressed active barnase. The structure of the barnase-barstar complex is known [].; PDB: 2CX6_A 1B2U_F 1A19_A 1X1U_F 1B27_E 1X1W_F 1BGS_E 1X1Y_D 1B3S_D 1B2S_D ....
Probab=50.24 E-value=14 Score=23.15 Aligned_cols=22 Identities=23% Similarity=0.534 Sum_probs=16.5
Q ss_pred ccCccchHHHHHhhhhhhcCCC
Q psy16017 60 ISGFSNVRELYQKIAECYEFPA 81 (85)
Q Consensus 60 I~gFsnvkELY~kIae~f~i~p 81 (85)
..++++..++|+.|++++++|.
T Consensus 5 g~~i~~~~~~~~~l~~~l~fP~ 26 (90)
T PF01337_consen 5 GRKIRDKEDFYDALAEALDFPD 26 (90)
T ss_dssp CCC-SSHHHHHHHHHHHTT--T
T ss_pred CCCCCCHHHHHHHHHHHcCCCc
Confidence 3578899999999999999884
No 33
>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=49.94 E-value=15 Score=24.40 Aligned_cols=17 Identities=24% Similarity=0.483 Sum_probs=15.6
Q ss_pred chHHHHHhhhhhhcCCC
Q psy16017 65 NVRELYQKIAECYEFPA 81 (85)
Q Consensus 65 nvkELY~kIae~f~i~p 81 (85)
+..+|+++|+++|.|++
T Consensus 26 ~~~~L~~kI~~~f~l~~ 42 (91)
T cd06398 26 NMDGLREKVEELFSLSP 42 (91)
T ss_pred CHHHHHHHHHHHhCCCC
Confidence 67899999999999987
No 34
>KOG3889|consensus
Probab=48.58 E-value=12 Score=31.26 Aligned_cols=37 Identities=35% Similarity=0.628 Sum_probs=28.9
Q ss_pred CCceeeeeeccc---CCCceeccCccchHHHHHhhhhhhcC
Q psy16017 42 KPKLIFHCQLAH---GSPTGLISGFSNVRELYQKIAECYEF 79 (85)
Q Consensus 42 ~p~LvFh~QLAH---GSptg~I~gFsnvkELY~kIae~f~i 79 (85)
..--|||| |.| |+-|=.|.||.-+.+|-++--|.|+|
T Consensus 202 ~GiQvfHC-l~h~gtGG~t~lVDgfy~ae~l~~~~Pe~fei 241 (371)
T KOG3889|consen 202 PGIQVFHC-LTHAGTGGDTVLVDGFYCAEKLRNESPEDFEI 241 (371)
T ss_pred CCceEEEe-ecccCCCCceEEEehHHHHHHHHhhChHhhhH
Confidence 34569999 456 44455799999999999998888875
No 35
>PTZ00044 ubiquitin; Provisional
Probab=48.07 E-value=11 Score=22.50 Aligned_cols=26 Identities=8% Similarity=-0.013 Sum_probs=21.9
Q ss_pred eccCccchHHHHHhhhhhhcCCCCcC
Q psy16017 59 LISGFSNVRELYQKIAECYEFPAEEN 84 (85)
Q Consensus 59 ~I~gFsnvkELY~kIae~f~i~p~e~ 84 (85)
.++.-.+|.+|=++|++..++|+++.
T Consensus 16 ~v~~~~tv~~lK~~i~~~~gi~~~~q 41 (76)
T PTZ00044 16 NFEPDNTVQQVKMALQEKEGIDVKQI 41 (76)
T ss_pred EECCCCcHHHHHHHHHHHHCCCHHHe
Confidence 45567789999999999999998764
No 36
>PF14338 Mrr_N: Mrr N-terminal domain
Probab=47.94 E-value=9 Score=24.36 Aligned_cols=20 Identities=30% Similarity=0.697 Sum_probs=17.5
Q ss_pred cchHHHHHhhhhhhcCCCCc
Q psy16017 64 SNVRELYQKIAECYEFPAEE 83 (85)
Q Consensus 64 snvkELY~kIae~f~i~p~e 83 (85)
.+.+|+|+.|++.|+++.+|
T Consensus 20 ~~~~ei~~~v~~~~~ls~e~ 39 (92)
T PF14338_consen 20 ASRKEIYERVAERFGLSDEE 39 (92)
T ss_pred cCHHHHHHHHHHHhCCCHHH
Confidence 57899999999999998765
No 37
>cd01809 Scythe_N Ubiquitin-like domain of Scythe protein. Scythe protein (also known as Bat3) is an apoptotic regulator that is highly conserved in eukaryotes and contains a ubiquitin-like domain near its N-terminus. Scythe binds reaper, a potent apoptotic inducer, and Scythe/Reaper are thought to signal apoptosis, in part through regulating the folding and activity of apoptotic signaling molecules.
Probab=47.88 E-value=12 Score=21.71 Aligned_cols=25 Identities=32% Similarity=0.372 Sum_probs=20.2
Q ss_pred ccCccchHHHHHhhhhhhcCCCCcC
Q psy16017 60 ISGFSNVRELYQKIAECYEFPAEEN 84 (85)
Q Consensus 60 I~gFsnvkELY~kIae~f~i~p~e~ 84 (85)
++.-.+|.+|-++|++..++++++.
T Consensus 17 v~~~~tv~~lK~~i~~~~gi~~~~q 41 (72)
T cd01809 17 VEEEITVLDLKEKIAEEVGIPVEQQ 41 (72)
T ss_pred ECCCCcHHHHHHHHHHHHCcCHHHe
Confidence 3344789999999999999988754
No 38
>PF12833 HTH_18: Helix-turn-helix domain; PDB: 2K9S_A 3LSG_C 3OIO_A 1D5Y_B 3GBG_A 3OOU_A 1BL0_A 1XS9_A 3MN2_B 3MKL_B ....
Probab=47.45 E-value=5.5 Score=23.77 Aligned_cols=26 Identities=19% Similarity=0.359 Sum_probs=20.4
Q ss_pred ccCccchHHHHHhhhhhhcCCCCcCC
Q psy16017 60 ISGFSNVRELYQKIAECYEFPAEENR 85 (85)
Q Consensus 60 I~gFsnvkELY~kIae~f~i~p~e~~ 85 (85)
.-||+|...++...-+.||++|.|.|
T Consensus 54 ~~Gf~~~~~f~~~fk~~~g~tP~~~r 79 (81)
T PF12833_consen 54 ECGFSSQSHFSRAFKRYFGMTPSEYR 79 (81)
T ss_dssp HTT-SSHHHHHHHHHHHHSS-HHHHH
T ss_pred HcCCCCHHHHHHHHHHHHCcCHHHHH
Confidence 45899999999999999999998753
No 39
>PF14566 PTPlike_phytase: Inositol hexakisphosphate; PDB: 1U24_A 2PSZ_B 3MOZ_A 3D1H_B 2B4P_B 3D1Q_A 2B4O_A 3MMJ_B 1U25_A 1U26_B ....
Probab=46.87 E-value=8.1 Score=26.78 Aligned_cols=10 Identities=50% Similarity=0.830 Sum_probs=7.1
Q ss_pred CCceeeeeec
Q psy16017 42 KPKLIFHCQL 51 (85)
Q Consensus 42 ~p~LvFh~QL 51 (85)
..-|+||||.
T Consensus 124 ~~~l~fhC~~ 133 (149)
T PF14566_consen 124 DTWLHFHCQA 133 (149)
T ss_dssp T-EEEEE-SS
T ss_pred CCeEEEECCC
Confidence 5689999997
No 40
>TIGR00013 taut 4-oxalocrotonate tautomerase family enzyme. 4-oxalocrotonate tautomerase is a homohexamer in which each monomer is very small, at about 62 amino acids. Pro-1 of the mature protein serves as a general base. The enzyme functions in meta-cleavage pathways of aromatic hydrocarbon catabolism. Because several Arg residues located near the active site in the crystal structure of Pseudomonas putida are not conserved among all members of this family, because the literature describes a general role in the isomerization of beta,gamma-unsaturated enones to their alpha,beta-isomers, and because of the presence of fairly distantly related paralogs in Campylobacter jejuni, the family is regarded as not necessarily uniform in function.
Probab=46.58 E-value=16 Score=21.05 Aligned_cols=19 Identities=16% Similarity=0.137 Sum_probs=15.2
Q ss_pred hHHHHHhhhhhhcCCCCcC
Q psy16017 66 VRELYQKIAECYEFPAEEN 84 (85)
Q Consensus 66 vkELY~kIae~f~i~p~e~ 84 (85)
++++++.++++++++++++
T Consensus 21 ~~~it~~l~~~lg~~~~~v 39 (63)
T TIGR00013 21 IEGVTEAMAETLGANLESI 39 (63)
T ss_pred HHHHHHHHHHHhCCCcccE
Confidence 4667777889999998875
No 41
>cd05875 Ig6_hNeurofascin_like Sixth immunoglobulin (Ig)-like domain of human neurofascin (NF). Ig6_hNeurofascin_like: the sixth immunoglobulin (Ig)-like domain of human neurofascin (NF). NF belongs to the L1 subfamily of cell adhesion molecules (CAMs) and is comprised of an extracellular region having six Ig-like domains and five fibronectin type III domains, a transmembrane region, and a cytoplasmic domain. NF has many alternatively spliced isoforms having different temporal expression patterns during development. NF participates in axon subcellular targeting and synapse formation, however little is known of the functions of the different isoforms.
Probab=43.20 E-value=15 Score=22.21 Aligned_cols=20 Identities=30% Similarity=0.587 Sum_probs=13.4
Q ss_pred eeeeeecccCCCceeccCccc
Q psy16017 45 LIFHCQLAHGSPTGLISGFSN 65 (85)
Q Consensus 45 LvFh~QLAHGSptg~I~gFsn 65 (85)
++|+|+ |.|+|+-.|.=+.|
T Consensus 1 ~~l~C~-~~G~P~P~v~W~k~ 20 (77)
T cd05875 1 IIIECE-AKGNPVPTFQWTRN 20 (77)
T ss_pred CEEEEe-ccccCCCEEEEEEC
Confidence 467887 56888777765443
No 42
>PF05099 TerB: Tellurite resistance protein TerB; InterPro: IPR007791 The prokaryotic heat shock protein DnaJ interacts with the chaperone hsp70-like DnaK protein []. Structurally, the DnaJ protein consists of an N-terminal conserved domain (called 'J' domain) of about 70 amino acids, a glycine-rich region ('G' domain') of about 30 residues, a central domain containing four repeats of a CXXCXGXG motif ('CRR' domain) and a C-terminal region of 120 to 170 residues. Direct interaction between DnaK and djlA is needed for the induction of the wcaABCDE operon which is involved in the synthesis of a colanic acid polysaccharide capsule. The colanic acid capsule may help the bacterium survive conditions outside the host [, ]; PDB: 2H5N_D 2JXU_A.
Probab=41.82 E-value=20 Score=23.35 Aligned_cols=21 Identities=24% Similarity=0.415 Sum_probs=14.8
Q ss_pred chHHHHHhhhhhhcCCCCcCC
Q psy16017 65 NVRELYQKIAECYEFPAEENR 85 (85)
Q Consensus 65 nvkELY~kIae~f~i~p~e~~ 85 (85)
.-+++..+||+.++|+.++++
T Consensus 116 ~E~~~l~~ia~~L~i~~~~~~ 136 (140)
T PF05099_consen 116 EEQEFLRRIAEALGISEEDFQ 136 (140)
T ss_dssp CHHHHHHHHHHHCTS-SS---
T ss_pred HHHHHHHHHHHHcCCCHHHHh
Confidence 346789999999999999864
No 43
>PF08281 Sigma70_r4_2: Sigma-70, region 4; InterPro: IPR013249 The bacterial core RNA polymerase complex, which consists of five subunits, is sufficient for transcription elongation and termination but is unable to initiate transcription. Transcription initiation from promoter elements requires a sixth, dissociable subunit called a sigma factor, which reversibly associates with the core RNA polymerase complex to form a holoenzyme []. RNA polymerase recruits alternative sigma factors as a means of switching on specific regulons. Most bacteria express a multiplicity of sigma factors. Two of these factors, sigma-70 (gene rpoD), generally known as the major or primary sigma factor, and sigma-54 (gene rpoN or ntrA) direct the transcription of a wide variety of genes. The other sigma factors, known as alternative sigma factors, are required for the transcription of specific subsets of genes. With regard to sequence similarity, sigma factors can be grouped into two classes, the sigma-54 and sigma-70 families. Sequence alignments of the sigma70 family members reveal four conserved regions that can be further divided into subregions eg. sub-region 2.2, which may be involved in the binding of the sigma factor to the core RNA polymerase; and sub-region 4.2, which seems to harbor a DNA-binding 'helix-turn-helix' motif involved in binding the conserved -35 region of promoters recognised by the major sigma factors [, ]. Region 4 of sigma-70 like sigma-factors are involved in binding to the -35 promoter element via a helix-turn-helix motif [].; GO: 0003677 DNA binding, 0003700 sequence-specific DNA binding transcription factor activity, 0016987 sigma factor activity, 0006352 transcription initiation, DNA-dependent, 0006355 regulation of transcription, DNA-dependent; PDB: 2LFW_A 1OR7_B 2H27_D 2O8X_B.
Probab=41.20 E-value=5.1 Score=22.60 Aligned_cols=16 Identities=25% Similarity=0.295 Sum_probs=11.8
Q ss_pred HHHhhhhhhcCCCCcC
Q psy16017 69 LYQKIAECYEFPAEEN 84 (85)
Q Consensus 69 LY~kIae~f~i~p~e~ 84 (85)
-|+.||+.++++++-|
T Consensus 28 s~~eIa~~l~~s~~~v 43 (54)
T PF08281_consen 28 SYAEIAEILGISESTV 43 (54)
T ss_dssp -HHHHHHHCTS-HHHH
T ss_pred CHHHHHHHHCcCHHHH
Confidence 6899999999987654
No 44
>cd05140 Barstar_AU1054-like Barstar_AU1054-like contains uncharacterized sequences similar to the uncharacterized, predicted RNAase inhibitor AU1054 found in Burkholderia cenocepacia. This is a subfamily of the Barstar family of RNAase inhibitors. Barstar is an intracellular inhibitor of barnase, an extracellular ribonuclease of Bacillus amyloliquefaciens. Barstar binds tightly to the barnase active site and sterically blocks it thus inhibiting its potentially lethal RNase activity inside the cell. Barstar also binds and inhibits a ribonuclease called RNase Sa (produced by Streptomyces aureofaciens) which belongs to the same enzyme family as does barnase.
Probab=41.15 E-value=24 Score=23.08 Aligned_cols=22 Identities=36% Similarity=0.729 Sum_probs=18.7
Q ss_pred ccCccchHHHHHhhhhhhcCCC
Q psy16017 60 ISGFSNVRELYQKIAECYEFPA 81 (85)
Q Consensus 60 I~gFsnvkELY~kIae~f~i~p 81 (85)
.++.++-.++|+.+|++|++|.
T Consensus 5 ~~~i~~~~~l~~~l~~~l~fP~ 26 (86)
T cd05140 5 LSDITSERELHELLKECLGFPG 26 (86)
T ss_pred cccCCCHHHHHHHHHHHcCCch
Confidence 4567888999999999999874
No 45
>COG2169 Ada Adenosine deaminase [Nucleotide transport and metabolism]
Probab=40.52 E-value=13 Score=28.28 Aligned_cols=36 Identities=17% Similarity=0.288 Sum_probs=30.2
Q ss_pred eecccCCCceec---cCccchHHHHHhhhhhhcCCCCcC
Q psy16017 49 CQLAHGSPTGLI---SGFSNVRELYQKIAECYEFPAEEN 84 (85)
Q Consensus 49 ~QLAHGSptg~I---~gFsnvkELY~kIae~f~i~p~e~ 84 (85)
.||.||.+...+ .||.|.+-.|....+.++++|.+.
T Consensus 140 ~~L~~g~sv~~a~~daGf~s~s~F~~af~~~~G~~P~~~ 178 (187)
T COG2169 140 KQLRMGASVTDAQIDAGFESSSRFYDAFSKILGMTPTKF 178 (187)
T ss_pred HHHhCCCchhHHHHHhCCCChHHHHHHHHHHcCCChHHH
Confidence 478888865544 699999999999999999998764
No 46
>PF12085 DUF3562: Protein of unknown function (DUF3562); InterPro: IPR021945 This family of proteins is functionally uncharacterised. This protein is found in bacteria. Proteins in this family are typically between 62 to 84 amino acids in length. This protein has two completely conserved residues (A and Y) that may be functionally important.
Probab=40.39 E-value=10 Score=24.76 Aligned_cols=22 Identities=45% Similarity=0.483 Sum_probs=19.4
Q ss_pred cchHHHHHhhhhhhcCCCCcCC
Q psy16017 64 SNVRELYQKIAECYEFPAEENR 85 (85)
Q Consensus 64 snvkELY~kIae~f~i~p~e~~ 85 (85)
.|+.|+-++||+.-++|.++|+
T Consensus 4 ~~~~e~i~~iA~~t~~P~e~V~ 25 (66)
T PF12085_consen 4 DNVDEVIRSIAEETGTPAETVR 25 (66)
T ss_pred ccHHHHHHHHHHHHCCCHHHHH
Confidence 5889999999999999988764
No 47
>cd05142 Barstar Barstar is an intracellular inhibitor of barnase, an extracellular ribonuclease of Bacillus amyloliquefaciens. Barstar binds tightly to the barnase active site and sterically blocks it thus inhibiting its potentially lethal RNase activity inside the cell. Barstar also binds and inhibits a ribonuclease called RNase Sa (produced by Streptomyces aureofaciens) which belongs to the same enzyme family as does barnase.
Probab=40.36 E-value=25 Score=22.96 Aligned_cols=21 Identities=14% Similarity=0.317 Sum_probs=18.2
Q ss_pred cCccchHHHHHhhhhhhcCCC
Q psy16017 61 SGFSNVRELYQKIAECYEFPA 81 (85)
Q Consensus 61 ~gFsnvkELY~kIae~f~i~p 81 (85)
..+++..++|+.++++|++|.
T Consensus 7 ~~i~~~~~f~~~l~~~~~~p~ 27 (87)
T cd05142 7 EEIRSIEDLHQILKKELALPE 27 (87)
T ss_pred ccCCCHHHHHHHHHHHhCCch
Confidence 467889999999999999874
No 48
>cd05141 Barstar_evA4336-like Barstar_evA4336-like contains uncharacterized sequences similar to the uncharacterized, predicted RNAase inhibitor evA4336 found in Azoarcus sp. EvN1. This is a subfamily of the Barstar family of RNAase inhibitors. Barstar is an intracellular inhibitor of barnase, an extracellular ribonuclease of Bacillus amyloliquefaciens. Barstar binds tightly to the barnase active site and sterically blocks it thus inhibiting its potentially lethal RNase activity inside the cell. Barstar also binds and inhibits a ribonuclease called RNase Sa (produced by Streptomyces aureofaciens) which belongs to the same enzyme family as does barnase.
Probab=38.71 E-value=28 Score=21.94 Aligned_cols=22 Identities=27% Similarity=0.640 Sum_probs=18.4
Q ss_pred ccCccchHHHHHhhhhhhcCCC
Q psy16017 60 ISGFSNVRELYQKIAECYEFPA 81 (85)
Q Consensus 60 I~gFsnvkELY~kIae~f~i~p 81 (85)
.++.++..++|+.+|++|++|.
T Consensus 5 g~~i~~~~~~~~~l~~~l~fP~ 26 (81)
T cd05141 5 LSGIADKAALLDALAAALDFPS 26 (81)
T ss_pred cccCCCHHHHHHHHHHHcCCCc
Confidence 3567888999999999999873
No 49
>cd05749 Ig2_Tyro3_like Second immunoglobulin (Ig)-like domain of Axl/Tyro3 receptor tyrosine kinases (RTKs). Ig2_Tyro3_like: the second immunoglobulin (Ig)-like domain in the Axl/Tyro3 family of receptor tyrosine kinases (RTKs). This family includes Axl (also known as Ark, Ufo, and Tyro7), Tyro3 (also known as Sky, Rse, Brt, Dtk, and Tif), and Mer (also known as Nyk, c-Eyk, and Tyro12). Axl/Tyro3 family receptors have an extracellular portion with two Ig-like domains followed by two fibronectin-types III (FNIII) domains, a membrane-spanning single helix, and a cytoplasmic tyrosine kinase domain. Axl, Tyro3 and Mer are widely expressed in adult tissues, though they show higher expression in the brain, in the lymphatic and vascular systems, and in the testis. Axl, Tyro3, and Mer bind the vitamin K dependent protein Gas6 with high affinity, and in doing so activate their tyrosine kinase activity. Axl/Gas6 signaling may play a part in cell adhesion processes, prevention of apoptosis, and c
Probab=37.99 E-value=21 Score=22.18 Aligned_cols=18 Identities=33% Similarity=0.501 Sum_probs=14.3
Q ss_pred CceeeeeecccCCCce-ecc
Q psy16017 43 PKLIFHCQLAHGSPTG-LIS 61 (85)
Q Consensus 43 p~LvFh~QLAHGSptg-~I~ 61 (85)
-...|+|+ |+|.|.- .|.
T Consensus 14 ~~v~l~C~-a~G~P~P~~I~ 32 (81)
T cd05749 14 TPFNLTCQ-AVGPPEPVEIL 32 (81)
T ss_pred CCEEEEEE-eeeecCCeEEE
Confidence 36899999 9999976 454
No 50
>cd06406 PB1_P67 A PB1 domain is present in p67 proteins which forms a signaling complex with p40, a crucial step for activation of NADPH oxidase during phagocytosis. PB1 domain is a modular domain mediating specific protein-protein interactions which play a role in many critical cell processes . 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. The PB1 domain module is conserved in amoebas, fungi, animals, and plants. The p67 proteins contain
Probab=36.72 E-value=28 Score=23.21 Aligned_cols=21 Identities=38% Similarity=0.417 Sum_probs=17.9
Q ss_pred cchHHHHHhhhhhhcCCCCcC
Q psy16017 64 SNVRELYQKIAECYEFPAEEN 84 (85)
Q Consensus 64 snvkELY~kIae~f~i~p~e~ 84 (85)
-+..+|+++|++-+.++++++
T Consensus 21 ~~y~~L~~ki~~kLkl~~e~i 41 (80)
T cd06406 21 LSYATLLQKISSKLELPAEHI 41 (80)
T ss_pred CCHHHHHHHHHHHhCCCchhc
Confidence 367899999999999987764
No 51
>COG2411 Uncharacterized conserved protein [Function unknown]
Probab=36.40 E-value=20 Score=27.58 Aligned_cols=21 Identities=24% Similarity=0.521 Sum_probs=18.7
Q ss_pred eeccCccchHHHHHhhhhhhc
Q psy16017 58 GLISGFSNVRELYQKIAECYE 78 (85)
Q Consensus 58 g~I~gFsnvkELY~kIae~f~ 78 (85)
.+.+||.|++||-..+.+.|+
T Consensus 71 Ar~DGF~sreELi~~LkriYg 91 (188)
T COG2411 71 ARLDGFRSREELIEELKRIYG 91 (188)
T ss_pred HHhcccccHHHHHHHHHHHcC
Confidence 467899999999999999886
No 52
>cd00491 4Oxalocrotonate_Tautomerase 4-Oxalocrotonate Tautomerase: Catalyzes the isomerization of unsaturated ketones. The structure is a homohexamer that is arranged as a trimer of dimers. The hexamer contains six active sites, each formed by residues from three monomers, two from one dimer and the third from a neighboring monomer. Each monomer is a beta-alpha-beta fold with two small beta strands at the C-terminus that fold back on themselves. A pair of monomers form a dimer with two-fold symmetry, consisting of a 4-stranded beta sheet with two helices on one side and two additional small beta strands at each end. The dimers are assembled around a 3-fold axis of rotation to form a hexamer, with the short beta strands from each dimer contacting the neighboring dimers.
Probab=36.16 E-value=30 Score=19.43 Aligned_cols=18 Identities=11% Similarity=0.193 Sum_probs=12.2
Q ss_pred HHHHHhhhhhhcCCCCcC
Q psy16017 67 RELYQKIAECYEFPAEEN 84 (85)
Q Consensus 67 kELY~kIae~f~i~p~e~ 84 (85)
+++++.+++.+++++.++
T Consensus 21 ~~i~~~l~~~~g~~~~~v 38 (58)
T cd00491 21 ERVTEAVSEILGAPEATI 38 (58)
T ss_pred HHHHHHHHHHhCcCcccE
Confidence 445555558888988765
No 53
>PF08769 Spo0A_C: Sporulation initiation factor Spo0A C terminal; InterPro: IPR014879 The response regulator Spo0A is comprised of a phophoacceptor domain and a transcription activation domain. This domain corresponds to the transcription activation domain and forms an alpha helical structure comprising of 6 alpha helices. The structure contains a helix-turn-helix and binds DNA [, ]. ; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0005509 calcium ion binding, 0006355 regulation of transcription, DNA-dependent, 0042173 regulation of sporulation resulting in formation of a cellular spore, 0005737 cytoplasm; PDB: 1FC3_C 1LQ1_D.
Probab=35.94 E-value=7.5 Score=26.35 Aligned_cols=19 Identities=32% Similarity=0.471 Sum_probs=14.8
Q ss_pred hHHHHHhhhhhhcCCCCcC
Q psy16017 66 VRELYQKIAECYEFPAEEN 84 (85)
Q Consensus 66 vkELY~kIae~f~i~p~e~ 84 (85)
.|+||-.||+.|+.+++-|
T Consensus 39 tK~LYp~IA~k~~TT~s~V 57 (106)
T PF08769_consen 39 TKELYPDIAKKYGTTPSRV 57 (106)
T ss_dssp TTTHHHHHHHHTTS-HHHH
T ss_pred hhhHHHHHHHHHCCCHHHH
Confidence 3679999999999887654
No 54
>PRK11511 DNA-binding transcriptional activator MarA; Provisional
Probab=35.78 E-value=16 Score=24.41 Aligned_cols=25 Identities=20% Similarity=0.509 Sum_probs=22.1
Q ss_pred cCccchHHHHHhhhhhhcCCCCcCC
Q psy16017 61 SGFSNVRELYQKIAECYEFPAEENR 85 (85)
Q Consensus 61 ~gFsnvkELY~kIae~f~i~p~e~~ 85 (85)
-||++..-++...-+.|+++|.+.|
T Consensus 84 ~Gf~s~s~F~r~Fkk~~G~tP~~yR 108 (127)
T PRK11511 84 YGFESQQTLTRTFKNYFDVPPHKYR 108 (127)
T ss_pred hCCCCHHHHHHHHHHHHCcCHHHHH
Confidence 5899999999999999999998753
No 55
>cd01799 Hoil1_N Ubiquitin-like domain of HOIL1. HOIL1_N HOIL-1 (heme-oxidized IRP2 ubiquitin ligase-1) is an E3 ubiquitin-protein ligase that recognizes heme-oxidized IRP2 (iron regulatory protein2) and is thought to affect the turnover of oxidatively damaged proteins. Hoil-1 has an amino-terminal ubiquitin-like domain as well as an RBR signature consisting of two RING finger domains separated by an IBR/DRIL domain.
Probab=35.47 E-value=23 Score=22.19 Aligned_cols=26 Identities=23% Similarity=0.266 Sum_probs=21.5
Q ss_pred eccCccchHHHHHhhhhhhcCCCCcC
Q psy16017 59 LISGFSNVRELYQKIAECYEFPAEEN 84 (85)
Q Consensus 59 ~I~gFsnvkELY~kIae~f~i~p~e~ 84 (85)
.|+.-.+|.+|-++|.+.++||+++-
T Consensus 18 ~v~~~~TV~~lK~kI~~~~gip~~~Q 43 (75)
T cd01799 18 TVRPDMTVAQLKDKVFLDYGFPPAVQ 43 (75)
T ss_pred EECCCCcHHHHHHHHHHHHCcCHHHE
Confidence 34556789999999999999999754
No 56
>cd01769 UBL Ubiquitin-like domain of UBL. UBLs function by remodeling the surface of their target proteins, changing their target's half-life, enzymatic activity, protein-protein interactions, subcellular localization or other properties. At least 10 different ubiquitin-like modifications exist in mammals, and attachment of different ubls to a target leads to different biological consequences. Ubl-conjugation cascades are initiated by activating enzymes, which also coordinate the ubls with their downstream pathways.
Probab=33.97 E-value=30 Score=19.36 Aligned_cols=23 Identities=35% Similarity=0.296 Sum_probs=18.5
Q ss_pred CccchHHHHHhhhhhhcCCCCcC
Q psy16017 62 GFSNVRELYQKIAECYEFPAEEN 84 (85)
Q Consensus 62 gFsnvkELY~kIae~f~i~p~e~ 84 (85)
.-.++.+|-+.|++.+++++++.
T Consensus 16 ~~~ti~~lK~~i~~~~~~~~~~~ 38 (69)
T cd01769 16 PDDTVAELKAKIAAKEGVPPEQQ 38 (69)
T ss_pred CCChHHHHHHHHHHHHCcChHHE
Confidence 34579999999999999988653
No 57
>cd02984 TRX_PICOT TRX domain, PICOT (for PKC-interacting cousin of TRX) subfamily; PICOT is a protein that interacts with protein kinase C (PKC) theta, a calcium independent PKC isoform selectively expressed in skeletal muscle and T lymphocytes. PICOT contains an N-terminal TRX-like domain, which does not contain the catalytic CXXC motif, followed by one to three glutaredoxin domains. The TRX-like domain is required for interaction with PKC theta. PICOT inhibits the activation of c-Jun N-terminal kinase and the transcription factors, AP-1 and NF-kB, induced by PKC theta or T-cell activating stimuli.
Probab=33.94 E-value=38 Score=20.16 Aligned_cols=30 Identities=27% Similarity=0.522 Sum_probs=22.8
Q ss_pred CCCceeeeeecccCCCceeccCccchHHHHHhhh
Q psy16017 41 SKPKLIFHCQLAHGSPTGLISGFSNVRELYQKIA 74 (85)
Q Consensus 41 ~~p~LvFh~QLAHGSptg~I~gFsnvkELY~kIa 74 (85)
.-|.++|--+ |...+++.|+ +.++|.++|+
T Consensus 68 ~~Pt~~~~~~---g~~~~~~~g~-~~~~l~~~~~ 97 (97)
T cd02984 68 AVPTFVFFRN---GTIVDRVSGA-DPKELAKKVE 97 (97)
T ss_pred cccEEEEEEC---CEEEEEEeCC-CHHHHHHhhC
Confidence 3556777754 9999999997 6788888774
No 58
>cd00489 Barstar_like Barstar is an intracellular inhibitor of barnase, an extracellular ribonuclease of Bacillus amyloliquefaciens. Barstar binds tightly to the barnase active site and sterically blocks it, thus inhibiting its potentially lethal RNase activity inside the cell. Barstar also binds and inhibits a ribonuclease called RNase Sa (produced by Streptomyces aureofaciens) which belongs to the same enzyme family as does barnase.
Probab=33.93 E-value=37 Score=21.97 Aligned_cols=21 Identities=10% Similarity=0.346 Sum_probs=17.8
Q ss_pred cCccchHHHHHhhhhhhcCCC
Q psy16017 61 SGFSNVRELYQKIAECYEFPA 81 (85)
Q Consensus 61 ~gFsnvkELY~kIae~f~i~p 81 (85)
+..++..++|+.+|++|++|.
T Consensus 6 ~~i~~~~~f~~~~~~~l~fp~ 26 (85)
T cd00489 6 EDIADWEDFHARLKKKLGFPD 26 (85)
T ss_pred ccCCCHHHHHHHHHHHhCCcc
Confidence 456788999999999999874
No 59
>PF11000 DUF2840: Protein of unknown function (DUF2840); InterPro: IPR021263 This bacterial family of proteins have no known function.
Probab=33.77 E-value=27 Score=26.01 Aligned_cols=26 Identities=23% Similarity=0.383 Sum_probs=23.6
Q ss_pred eccCccchHHHHHhhh--hhhcCCCCcC
Q psy16017 59 LISGFSNVRELYQKIA--ECYEFPAEEN 84 (85)
Q Consensus 59 ~I~gFsnvkELY~kIa--e~f~i~p~e~ 84 (85)
+++|+.+|+...+.|- |+.||+|.||
T Consensus 87 r~~Gw~kV~~VL~~IDaiEalGidp~dv 114 (149)
T PF11000_consen 87 RIEGWPKVERVLQAIDAIEALGIDPADV 114 (149)
T ss_pred cccCcHHHHHHHHHHhHHHHcCCChhhc
Confidence 5799999999999997 9999999886
No 60
>PRK09685 DNA-binding transcriptional activator FeaR; Provisional
Probab=33.22 E-value=19 Score=26.16 Aligned_cols=25 Identities=20% Similarity=0.333 Sum_probs=19.0
Q ss_pred cCccchHHHHHhhhhhhcCCCCcCC
Q psy16017 61 SGFSNVRELYQKIAECYEFPAEENR 85 (85)
Q Consensus 61 ~gFsnvkELY~kIae~f~i~p~e~~ 85 (85)
-||+|..-.+...-+.||++|+|.|
T Consensus 274 ~GF~d~s~Fsr~Fkk~~G~sP~~yR 298 (302)
T PRK09685 274 WGFSDSSHFSTAFKQRFGVSPGEYR 298 (302)
T ss_pred hCCCCHHHHHHHHHHHHCcCHHHHH
Confidence 5788887777777788888887654
No 61
>PF12872 OST-HTH: OST-HTH/LOTUS domain; PDB: 2KPM_A 3S93_B 3RCO_A 2KZV_A.
Probab=32.94 E-value=24 Score=20.81 Aligned_cols=19 Identities=32% Similarity=0.616 Sum_probs=15.3
Q ss_pred cCccchHHHHHhhhhhhcC
Q psy16017 61 SGFSNVRELYQKIAECYEF 79 (85)
Q Consensus 61 ~gFsnvkELY~kIae~f~i 79 (85)
=||++.++|-+++.+.|.|
T Consensus 45 yG~~~l~~ll~~~~~~~~i 63 (74)
T PF12872_consen 45 YGFSSLSELLESLPDVVEI 63 (74)
T ss_dssp TTSSSHHHHHHT-TTTEEE
T ss_pred cCCCcHHHHHHhCCCeEEE
Confidence 3899999999988888776
No 62
>PF11784 DUF3320: Protein of unknown function (DUF3320); InterPro: IPR021754 This family is conserved in Proteobacteria and Chlorobi families. Many members are annotated as being putative DNA helicase-related proteins.
Probab=32.82 E-value=34 Score=20.38 Aligned_cols=20 Identities=25% Similarity=0.368 Sum_probs=15.8
Q ss_pred CccchHHHHHhhhhhhcCCC
Q psy16017 62 GFSNVRELYQKIAECYEFPA 81 (85)
Q Consensus 62 gFsnvkELY~kIae~f~i~p 81 (85)
|==...+|.++|++++|++-
T Consensus 25 gPI~~~~L~~Ri~~a~G~~R 44 (52)
T PF11784_consen 25 GPIHEDELARRIARAWGLSR 44 (52)
T ss_pred CCccHHHHHHHHHHHcCccc
Confidence 33356789999999999874
No 63
>cd01763 Sumo Small ubiquitin-related modifier (SUMO). Small ubiquitin-related modifier (SUMO) proteins are conjugated to numerous intracellular targets and serve to modulate protein interaction, localization, activity or stability. SUMO (also known as "Smt3" and "sentrin" in other organisms) is linked to several different pathways, including nucleocytoplasmic transport. Attachment of SUMO to targets proteins is stimulated by PIAS (Protein inhibitor of activated STATs) proteins which serve as E3-like ligases.
Probab=32.70 E-value=29 Score=21.95 Aligned_cols=41 Identities=15% Similarity=0.109 Sum_probs=28.6
Q ss_pred CceeeeeecccCCC-ceeccCccchHHHHHhhhhhhcCCCCcCC
Q psy16017 43 PKLIFHCQLAHGSP-TGLISGFSNVRELYQKIAECYEFPAEENR 85 (85)
Q Consensus 43 p~LvFh~QLAHGSp-tg~I~gFsnvkELY~kIae~f~i~p~e~~ 85 (85)
-.+..++| .|.. +=.|+-=+.++.|.+++++..+|+++++|
T Consensus 12 i~I~v~~~--~g~~~~~~v~~~~~l~~l~~~y~~~~gi~~~~~r 53 (87)
T cd01763 12 INLKVKGQ--DGNEVFFKIKRSTPLKKLMEAYCQRQGLSMNSVR 53 (87)
T ss_pred EEEEEECC--CCCEEEEEEcCCCHHHHHHHHHHHHhCCCccceE
Confidence 34555555 3544 33456667788999999999999998764
No 64
>PF05402 PqqD: Coenzyme PQQ synthesis protein D (PqqD); InterPro: IPR008792 This family contains several bacterial coenzyme PQQ synthesis protein D (PqqD) sequences. This protein is required for coenzyme pyrrolo-quinoline-quinone (PQQ) biosynthesis.; PDB: 3G2B_A.
Probab=32.38 E-value=13 Score=21.82 Aligned_cols=25 Identities=32% Similarity=0.519 Sum_probs=17.0
Q ss_pred ccCccchHHHHHhhhhhhcCCCCcC
Q psy16017 60 ISGFSNVRELYQKIAECYEFPAEEN 84 (85)
Q Consensus 60 I~gFsnvkELY~kIae~f~i~p~e~ 84 (85)
++|=.++.|+-+.+++.|+++++++
T Consensus 26 ~~g~~t~~ei~~~l~~~y~~~~~~~ 50 (68)
T PF05402_consen 26 LDGPRTVEEIVDALAEEYDVDPEEA 50 (68)
T ss_dssp --SSS-HHHHHHHHHHHTT--HHHH
T ss_pred ccCCCCHHHHHHHHHHHcCCCHHHH
Confidence 4555789999999999999988754
No 65
>PF13443 HTH_26: Cro/C1-type HTH DNA-binding domain; PDB: 3TYR_A 3TYS_A 3B7H_A.
Probab=32.04 E-value=17 Score=20.85 Aligned_cols=17 Identities=29% Similarity=0.382 Sum_probs=11.5
Q ss_pred HHHHhhhhhhcCCCCcC
Q psy16017 68 ELYQKIAECYEFPAEEN 84 (85)
Q Consensus 68 ELY~kIae~f~i~p~e~ 84 (85)
+.-.+||++|+++++|+
T Consensus 41 ~~l~~ia~~l~~~~~el 57 (63)
T PF13443_consen 41 DTLEKIAKALNCSPEEL 57 (63)
T ss_dssp HHHHHHHHHHT--HHHC
T ss_pred HHHHHHHHHcCCCHHHH
Confidence 34568999999998875
No 66
>cd06409 PB1_MUG70 The MUG70 protein is a product of the meiotically up-regulated gene 70 which has a role in meiosis and harbors a PB1 domain. 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 domains, is required for the formation of macromolecular signaling complexes ensuring specificity and fidelity during cellular signaling. The interaction between two PB1 domains depends on the type of PB1. There are three types of PB1 domains: type I which contains an OPCA motif, acidic amino acid 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 is
Probab=32.02 E-value=32 Score=22.93 Aligned_cols=28 Identities=21% Similarity=0.269 Sum_probs=20.6
Q ss_pred CCceeccCcc-----chHHHHHhhhhhhcCCCC
Q psy16017 55 SPTGLISGFS-----NVRELYQKIAECYEFPAE 82 (85)
Q Consensus 55 Sptg~I~gFs-----nvkELY~kIae~f~i~p~ 82 (85)
+|-|++.-|+ ++.||.+.||.-|+++..
T Consensus 7 ~~~GrvhRf~~~~s~~~~~L~~~I~~Rl~~d~~ 39 (86)
T cd06409 7 DPKGRVHRFRLRPSESLEELRTLISQRLGDDDF 39 (86)
T ss_pred CCCCCEEEEEecCCCCHHHHHHHHHHHhCCccc
Confidence 4455555544 679999999999998753
No 67
>PF13560 HTH_31: Helix-turn-helix domain; PDB: 3F51_C 3F52_A 3PXP_A 2OFY_A.
Probab=30.35 E-value=16 Score=21.36 Aligned_cols=18 Identities=22% Similarity=0.479 Sum_probs=13.0
Q ss_pred HHHHHhhhhhhcCCCCcC
Q psy16017 67 RELYQKIAECYEFPAEEN 84 (85)
Q Consensus 67 kELY~kIae~f~i~p~e~ 84 (85)
.+.+.+|+++|+++++++
T Consensus 44 ~~~l~~l~~~l~~~~~~~ 61 (64)
T PF13560_consen 44 PDTLQRLARALGVPPDER 61 (64)
T ss_dssp HHHHHHHHHHTT--HHHH
T ss_pred HHHHHHHHHHHCcCHHHH
Confidence 457899999999988764
No 68
>smart00530 HTH_XRE Helix-turn-helix XRE-family like proteins.
Probab=29.03 E-value=48 Score=16.34 Aligned_cols=17 Identities=24% Similarity=0.325 Sum_probs=12.8
Q ss_pred HHHHHhhhhhhcCCCCc
Q psy16017 67 RELYQKIAECYEFPAEE 83 (85)
Q Consensus 67 kELY~kIae~f~i~p~e 83 (85)
.+...+|++.|++++.+
T Consensus 39 ~~~~~~i~~~~~~~~~~ 55 (56)
T smart00530 39 LETLKKLAKALGVSLDE 55 (56)
T ss_pred HHHHHHHHHHhCCChhh
Confidence 34457889999998865
No 69
>PF10668 Phage_terminase: Phage terminase small subunit; InterPro: IPR018925 This entry describes the terminase small subunit from Enterococcus phage phiFL1A, related proteins in other bacteriophage, and prophage regions of bacterial genomes. Packaging of double-stranded viral DNA concatemers requires interaction of the prohead with virus DNA. This process is mediated by a phage-encoded DNA recognition and terminase protein. The terminase enzymes described so far, which are hetero-oligomers composed of a small and a large subunit, do not have a significant level of sequence homology. The small terminase subunit is thought to form a nucleoprotein structure that helps to position the terminase large subunit at the packaging initiation site [].
Probab=29.02 E-value=18 Score=22.85 Aligned_cols=22 Identities=27% Similarity=0.354 Sum_probs=16.1
Q ss_pred cchHHHHH---------hhhhhhcCCCCcCC
Q psy16017 64 SNVRELYQ---------KIAECYEFPAEENR 85 (85)
Q Consensus 64 snvkELY~---------kIae~f~i~p~e~~ 85 (85)
...+|||. .||+.++++++.||
T Consensus 10 dkA~e~y~~~~g~i~lkdIA~~Lgvs~~tIr 40 (60)
T PF10668_consen 10 DKAFEIYKESNGKIKLKDIAEKLGVSESTIR 40 (60)
T ss_pred HHHHHHHHHhCCCccHHHHHHHHCCCHHHHH
Confidence 34456665 59999999988764
No 70
>PRK12534 RNA polymerase sigma factor; Provisional
Probab=28.91 E-value=21 Score=24.22 Aligned_cols=20 Identities=20% Similarity=0.393 Sum_probs=16.6
Q ss_pred ccCccchHHHHHhhhhhhcCCCCcC
Q psy16017 60 ISGFSNVRELYQKIAECYEFPAEEN 84 (85)
Q Consensus 60 I~gFsnvkELY~kIae~f~i~p~e~ 84 (85)
++|| -|+.||+.+|++++-|
T Consensus 151 ~~g~-----s~~eIA~~lgis~~~v 170 (187)
T PRK12534 151 FEGI-----TYEELAARTDTPIGTV 170 (187)
T ss_pred HcCC-----CHHHHHHHhCCChhHH
Confidence 5777 7899999999998755
No 71
>PF00432 Prenyltrans: Prenyltransferase and squalene oxidase repeat This Prosite family is a subset of the Pfam family.; InterPro: IPR001330 The beta subunit of the farnesyltransferases is responsible for peptide binding. Squalene-hopene cyclase is a bacterial enzyme that catalyzes the cyclization of squalene into hopene, a key step in hopanoid (triterpenoid) metabolism []. Lanosterol synthase (5.4.99.7 from EC) (oxidosqualene-lanosterol cyclase) catalyzes the cyclization of (S)-2,3-epoxysqualene to lanosterol, the initial precursor of cholesterol, steroid hormones and vitamin D in vertebrates and of ergosterol in fungi []. Cycloartenol synthase () (2,3-epoxysqualene-cycloartenol cyclase) is a plant enzyme that catalyzes the cyclization of (S)-2,3-epoxysqualene to cycloartenol.; GO: 0003824 catalytic activity; PDB: 2IEJ_B 1LD7_B 1LD8_B 2H6G_B 1TN6_B 1S63_B 1MZC_B 2H6I_B 2H6F_B 1JCQ_B ....
Probab=28.81 E-value=25 Score=19.54 Aligned_cols=31 Identities=26% Similarity=0.395 Sum_probs=24.5
Q ss_pred ceeeeeecccCCCceeccCccchHHHHHhhh
Q psy16017 44 KLIFHCQLAHGSPTGLISGFSNVRELYQKIA 74 (85)
Q Consensus 44 ~LvFh~QLAHGSptg~I~gFsnvkELY~kIa 74 (85)
+.+..||..-|+.-++.++...+.--|-.++
T Consensus 8 ~~l~~~Q~~dGGf~~~~~~~~d~~~t~~~~~ 38 (44)
T PF00432_consen 8 RFLLSCQNPDGGFGGRPGGESDTCYTYCALA 38 (44)
T ss_dssp HHHHHTBBTTSSBBSSTTSSBBHHHHHHHHH
T ss_pred HHHHHHCCCCCCCCCCCCCCCChHHHHHHHH
Confidence 4567899999999999999887776665554
No 72
>smart00386 HAT HAT (Half-A-TPR) repeats. Present in several RNA-binding proteins. Structurally and sequentially thought to be similar to TPRs.
Probab=28.74 E-value=33 Score=16.14 Aligned_cols=18 Identities=17% Similarity=0.421 Sum_probs=13.5
Q ss_pred CccchHHHHHhhhhhhcC
Q psy16017 62 GFSNVRELYQKIAECYEF 79 (85)
Q Consensus 62 gFsnvkELY~kIae~f~i 79 (85)
.+..++++|++.-+.+..
T Consensus 2 ~~~~~r~i~e~~l~~~~~ 19 (33)
T smart00386 2 DIERARKIYERALEKFPK 19 (33)
T ss_pred cHHHHHHHHHHHHHHCCC
Confidence 466789999998776653
No 73
>PF14109 GldH_lipo: GldH lipoprotein
Probab=26.32 E-value=17 Score=25.13 Aligned_cols=23 Identities=30% Similarity=0.563 Sum_probs=17.0
Q ss_pred ceeeeeeccc--CCCceeccCccchHH
Q psy16017 44 KLIFHCQLAH--GSPTGLISGFSNVRE 68 (85)
Q Consensus 44 ~LvFh~QLAH--GSptg~I~gFsnvkE 68 (85)
+=...|+||. |.+.| +||++++|
T Consensus 67 ~dtl~~~Lad~~G~w~G--~G~~~~~e 91 (131)
T PF14109_consen 67 TDTLECELADPDGKWLG--KGIGDLYE 91 (131)
T ss_pred eeeEEEEEECCCCcEee--eeEeEeEE
Confidence 4568999998 66666 78887654
No 74
>cd01800 SF3a120_C Ubiquitin-like domain of Mammalian splicing factor SF3a_120. SF3a120_C Mammalian splicing factor SF3a consists of three subunits of 60, 66, and 120 kDa and functions early during pre-mRNA splicing by converting the U2 snRNP to its active form. The 120kDa subunit (SF3a120) has a carboxy-terminal ubiquitin-like domain and two SWAP (suppressor-of-white-apricot) domains, referred to collectively as the SURP module, at its amino-terminus.
Probab=25.56 E-value=42 Score=20.47 Aligned_cols=24 Identities=29% Similarity=0.188 Sum_probs=20.3
Q ss_pred ccCccchHHHHHhhhhhhcCCCCc
Q psy16017 60 ISGFSNVRELYQKIAECYEFPAEE 83 (85)
Q Consensus 60 I~gFsnvkELY~kIae~f~i~p~e 83 (85)
|+...+|.+|-++|.+..+||+++
T Consensus 14 v~~~~TV~~lK~~i~~~~gip~~~ 37 (76)
T cd01800 14 LQLSDPVSVLKVKIHEETGMPAGK 37 (76)
T ss_pred ECCCCcHHHHHHHHHHHHCCCHHH
Confidence 456678999999999999998864
No 75
>PF10542 Vitelline_membr: Vitelline membrane cysteine-rich region; InterPro: IPR013135 In Drosophila melanogaster (Fruit fly) the vitelline membrane (VM) is the first layer of the eggshell produced by the follicular epithelium. It is composed of at least four different proteins. VM proteins are similarly organised with a central highly conserved 38-amino acid domain which is flanked by unrelated regions. Since the surrounding regions have diverged significantly, it is possible that the VM domain is of key importance in VM protein structure [, ]. The VM domain contains three highly conserved cysteines.
Probab=25.26 E-value=51 Score=19.68 Aligned_cols=13 Identities=23% Similarity=0.521 Sum_probs=10.0
Q ss_pred CCCCCceeeeeec
Q psy16017 39 EDSKPKLIFHCQL 51 (85)
Q Consensus 39 ~~~~p~LvFh~QL 51 (85)
+.+.-..||.||-
T Consensus 5 PpCpknY~FSCqp 17 (38)
T PF10542_consen 5 PPCPKNYVFSCQP 17 (38)
T ss_pred CCCCcceeEeccc
Confidence 4566689999993
No 76
>PHA01976 helix-turn-helix protein
Probab=25.12 E-value=27 Score=20.22 Aligned_cols=17 Identities=6% Similarity=0.061 Sum_probs=13.2
Q ss_pred HHHHhhhhhhcCCCCcC
Q psy16017 68 ELYQKIAECYEFPAEEN 84 (85)
Q Consensus 68 ELY~kIae~f~i~p~e~ 84 (85)
+...+||++|+++++++
T Consensus 45 ~~l~~ia~~l~v~~~~l 61 (67)
T PHA01976 45 KTLLRLADALGVTLDWL 61 (67)
T ss_pred HHHHHHHHHHCcCHHHH
Confidence 34579999999998754
No 77
>cd05895 Ig_Pro_neuregulin-1 Immunoglobulin (Ig)-like domain found in neuregulin (NRG)-1. Ig_Pro_neuregulin-1: immunoglobulin (Ig)-like domain found in neuregulin (NRG)-1. There are many NRG-1 isoforms which arise from the alternative splicing of mRNA. NRG-1 belongs to the neuregulin gene family, which is comprised of four genes. This group represents NRG-1. NRGs are signaling molecules, which participate in cell-cell interactions in the nervous system, breast, and heart, and other organ systems, and are implicated in the pathology of diseases including schizophrenia, multiple sclerosis, and breast cancer. The NRG-1 protein binds to and activates the tyrosine kinases receptors ErbB3 and ErbB4, initiating signaling cascades. NRG-1 has multiple functions; for example, in the brain it regulates various processes such as radial glia formation and neuronal migration, dendritic development, and expression of neurotransmitters receptors; in the peripheral nervous system NRG-1 regulates process
Probab=24.83 E-value=33 Score=19.93 Aligned_cols=24 Identities=25% Similarity=0.450 Sum_probs=12.9
Q ss_pred eeeeeecccCCCceeccCccchHH
Q psy16017 45 LIFHCQLAHGSPTGLISGFSNVRE 68 (85)
Q Consensus 45 LvFh~QLAHGSptg~I~gFsnvkE 68 (85)
|+|.|+...+.|.-.|.=|-|-++
T Consensus 1 ~~L~C~a~~~~p~~~~~W~~~g~~ 24 (76)
T cd05895 1 LVLRCETVSEYPSLRFKWFKNGKE 24 (76)
T ss_pred CEEEEecccCCCCCceEEEECCcc
Confidence 567777555556555544444333
No 78
>PF12844 HTH_19: Helix-turn-helix domain; PDB: 3LIS_B 3LFP_A 2XIU_B 2GZU_B 2XJ3_A 1UTX_A 2XI8_B 3F6W_C 3EUS_B.
Probab=24.72 E-value=22 Score=20.35 Aligned_cols=17 Identities=29% Similarity=0.313 Sum_probs=12.4
Q ss_pred HHHHhhhhhhcCCCCcC
Q psy16017 68 ELYQKIAECYEFPAEEN 84 (85)
Q Consensus 68 ELY~kIae~f~i~p~e~ 84 (85)
+.-.+||++|+++++++
T Consensus 42 ~~l~~i~~~~~v~~~~l 58 (64)
T PF12844_consen 42 STLKKIAEALGVSLDEL 58 (64)
T ss_dssp HHHHHHHHHHTS-HHHH
T ss_pred HHHHHHHHHhCCCHHHH
Confidence 45588999999998753
No 79
>PF01381 HTH_3: Helix-turn-helix; InterPro: IPR001387 This is large family of DNA binding helix-turn helix proteins that include a bacterial plasmid copy control protein, bacterial methylases, various bacteriophage transcription control proteins and a vegetative specific protein from Dictyostelium discoideum (Slime mould).; GO: 0043565 sequence-specific DNA binding; PDB: 2AXU_A 2AWI_D 2AXV_D 2AXZ_C 2AW6_A 3KXA_C 3BS3_A 2CRO_A 1ZUG_A 3CRO_R ....
Probab=24.31 E-value=14 Score=20.49 Aligned_cols=15 Identities=27% Similarity=0.277 Sum_probs=10.8
Q ss_pred HHHhhhhhhcCCCCc
Q psy16017 69 LYQKIAECYEFPAEE 83 (85)
Q Consensus 69 LY~kIae~f~i~p~e 83 (85)
.-.+||++|++++++
T Consensus 40 ~~~~ia~~l~~~~~~ 54 (55)
T PF01381_consen 40 TLKKIAKALGVSPEY 54 (55)
T ss_dssp HHHHHHHHHTSEHHH
T ss_pred HHHHHHHHHCCCHHH
Confidence 345788888887754
No 80
>PRK15435 bifunctional DNA-binding transcriptional dual regulator/O6-methylguanine-DNA methyltransferase; Provisional
Probab=24.14 E-value=48 Score=26.37 Aligned_cols=25 Identities=28% Similarity=0.516 Sum_probs=22.8
Q ss_pred cCccchHHHHHhhhhhhcCCCCcCC
Q psy16017 61 SGFSNVRELYQKIAECYEFPAEENR 85 (85)
Q Consensus 61 ~gFsnvkELY~kIae~f~i~p~e~~ 85 (85)
-||+|..-+|....+.|+++|++.|
T Consensus 157 ~Gf~s~s~F~~~Fkk~~G~TPs~yR 181 (353)
T PRK15435 157 AGFPDSSSYYRKADETLGMTAKQFR 181 (353)
T ss_pred hCCCChHHHHHHHHHHHCcCchhHH
Confidence 5999999999999999999999864
No 81
>KOG4812|consensus
Probab=23.99 E-value=28 Score=28.01 Aligned_cols=65 Identities=9% Similarity=0.046 Sum_probs=41.3
Q ss_pred CCCCCCCCCCcCCCCcccccCCCCCCCCCCCCCCceeeeeecccCCCceeccCccchHHHHHhhh
Q psy16017 10 KDDHLLDNNNVGEHKSKIYNGTKSPAPVTEDSKPKLIFHCQLAHGSPTGLISGFSNVRELYQKIA 74 (85)
Q Consensus 10 k~~~~~~~~~~~~~~~~~~~g~~~~~p~~~~~~p~LvFh~QLAHGSptg~I~gFsnvkELY~kIa 74 (85)
..++.+..+--.+|++-+++-...++.....+.|+.+.|.+.-|-+-...-..+..++++|.||-
T Consensus 20 r~t~~~e~ea~~g~~q~d~~~~e~s~l~~~~~~~~~~p~q~~~q~as~~p~~~a~~~p~~~~ki~ 84 (262)
T KOG4812|consen 20 RDTQTVEGEAEIGSDQEDSIEDEGSPLAANEPAPRSVPHQLQVQLASGAPGRHAGILPPPYSKIP 84 (262)
T ss_pred cccCCCccccccCCchhhhhhhccCcccccCCCCccchHHHHHhhccCCchhhcCCCCCcccccc
Confidence 34555555555677776666666655445556667776655555554444567888889998885
No 82
>PF11976 Rad60-SLD: Ubiquitin-2 like Rad60 SUMO-like; InterPro: IPR022617 This entry includes small ubiquitin-related modifier (SUMO) proteins. SUMOs are small proteins that are covalently attached to lysines as post-translational modifications and are used to control multiple cellular process including signal transduction, nuclear transport and DNA replication and repair []. Unlike ubiquitin, they are not involved in protein degradation. This entry also contains the C-terminal Rad60 DNA repair protein SUMO-like domain.; PDB: 3RD2_A 2JXX_A 3RCZ_A 3GOE_A 3A4S_D 3A4R_B 2IO1_D 1U4A_A 2K1F_A 1WZ0_A ....
Probab=23.93 E-value=64 Score=18.90 Aligned_cols=26 Identities=23% Similarity=0.252 Sum_probs=21.4
Q ss_pred eccCccchHHHHHhhhhhhcCCC-CcC
Q psy16017 59 LISGFSNVRELYQKIAECYEFPA-EEN 84 (85)
Q Consensus 59 ~I~gFsnvkELY~kIae~f~i~p-~e~ 84 (85)
.|.--+.++.|.+++++..++++ .++
T Consensus 16 ~v~~~~~~~~l~~~~~~~~~i~~~~~~ 42 (72)
T PF11976_consen 16 KVKPTTTVSKLIEKYCEKKGIPPEESI 42 (72)
T ss_dssp EEETTSCCHHHHHHHHHHHTTTT-TTE
T ss_pred EECCCCcHHHHHHHHHHhhCCCccceE
Confidence 35667889999999999999998 554
No 83
>PRK02289 4-oxalocrotonate tautomerase; Provisional
Probab=23.80 E-value=54 Score=19.28 Aligned_cols=19 Identities=21% Similarity=0.291 Sum_probs=14.4
Q ss_pred hHHHHHhhhhhhcCCCCcC
Q psy16017 66 VRELYQKIAECYEFPAEEN 84 (85)
Q Consensus 66 vkELY~kIae~f~i~p~e~ 84 (85)
++++++.++++|++|++.|
T Consensus 21 ~~~it~a~~~~~~~p~~~v 39 (60)
T PRK02289 21 AREVTEVVSRIAKAPKEAI 39 (60)
T ss_pred HHHHHHHHHHHhCcCcceE
Confidence 3567777889999987754
No 84
>cd01801 Tsc13_N Ubiquitin-like domain of Tsc13. Tsc13_N N-terminal domain of Tsc13. Tsc13 is an enoyl reductase involved in elongation of long chain fatty acids that localizes to the endoplasmic reticulum and is highly enriched in a novel structure marking nuclear-vacuolar junctions.
Probab=23.79 E-value=60 Score=19.88 Aligned_cols=21 Identities=14% Similarity=0.126 Sum_probs=15.9
Q ss_pred ccchHHHHHhhhhhhcC-CCCc
Q psy16017 63 FSNVRELYQKIAECYEF-PAEE 83 (85)
Q Consensus 63 FsnvkELY~kIae~f~i-~p~e 83 (85)
-..|.||++.|++.++. ++..
T Consensus 22 ~aTV~dlk~~i~~~~~~~~~~R 43 (77)
T cd01801 22 DATIADLKKLIAKSSPQLTVNR 43 (77)
T ss_pred CccHHHHHHHHHHHcCCCCcce
Confidence 35799999999988764 4544
No 85
>TIGR02297 HpaA 4-hydroxyphenylacetate catabolism regulatory protein HpaA. This putative transcriptional regulator, which contains both the substrate-binding, dimerization domain (pfam02311) and the helix-turn-helix DNA-binding domain (pfam00165) of the AraC famil, is located proximal to genes of the 4-hydroxyphenylacetate catabolism pathway.
Probab=23.74 E-value=39 Score=24.23 Aligned_cols=22 Identities=5% Similarity=0.095 Sum_probs=11.2
Q ss_pred CccchHHHHHhhhhhhcCCCCc
Q psy16017 62 GFSNVRELYQKIAECYEFPAEE 83 (85)
Q Consensus 62 gFsnvkELY~kIae~f~i~p~e 83 (85)
||+|..-.+.---+.+|++|.+
T Consensus 262 GF~s~s~Fsr~FKk~~G~tP~~ 283 (287)
T TIGR02297 262 GYKDPAYFARFFQKETGLSPSA 283 (287)
T ss_pred CCCCHHHHHHHHHHHHCcCHHH
Confidence 4555555555555555555544
No 86
>cd05876 Ig3_L1-CAM Third immunoglobulin (Ig)-like domain of the L1 cell adhesion molecule (CAM). Ig3_L1-CAM: third immunoglobulin (Ig)-like domain of the L1 cell adhesion molecule (CAM). L1 belongs to the L1 subfamily of cell adhesion molecules (CAMs) and is comprised of an extracellular region having six Ig-like domains, five fibronectin type III domains, a transmembrane region and an intracellular domain. L1 is primarily expressed in the nervous system and is involved in its development and function. L1 is associated with an X-linked recessive disorder, X-linked hydrocephalus, MASA syndrome, or spastic paraplegia type 1, that involves abnormalities of axonal growth. This group also contains the chicken neuron-glia cell adhesion molecule, Ng-CAM.
Probab=23.47 E-value=41 Score=19.58 Aligned_cols=16 Identities=38% Similarity=0.729 Sum_probs=9.3
Q ss_pred eeeeeecccCCCceecc
Q psy16017 45 LIFHCQLAHGSPTGLIS 61 (85)
Q Consensus 45 LvFh~QLAHGSptg~I~ 61 (85)
|++.|+ |+|.|.-.|.
T Consensus 1 ~~L~C~-~~G~P~P~v~ 16 (71)
T cd05876 1 LVLECI-AEGLPTPEVH 16 (71)
T ss_pred CEEEEE-eeEecCCeEE
Confidence 456665 5666665554
No 87
>cd03409 Chelatase_Class_II Class II Chelatase: a family of ATP-independent monomeric or homodimeric enzymes that catalyze the insertion of metal into protoporphyrin rings. This family includes protoporphyrin IX ferrochelatase (HemH), sirohydrochlorin ferrochelatase (SirB) and the cobaltochelatases, CbiK and CbiX. HemH and SirB are involved in heme and siroheme biosynthesis, respectively, while the cobaltochelatases are associated with cobalamin biosynthesis. Excluded from this family are the ATP-dependent heterotrimeric chelatases (class I) and the multifunctional homodimeric enzymes with dehydrogenase and chelatase activities (class III).
Probab=23.14 E-value=76 Score=19.30 Aligned_cols=26 Identities=23% Similarity=0.305 Sum_probs=13.2
Q ss_pred cccCCCceeccCccchHHHHHhhhhhh
Q psy16017 51 LAHGSPTGLISGFSNVRELYQKIAECY 77 (85)
Q Consensus 51 LAHGSptg~I~gFsnvkELY~kIae~f 77 (85)
++|||+... ..-.-+.++.+.+++.+
T Consensus 5 v~HGs~~~s-~~~~~~~~~~~~l~~~~ 30 (101)
T cd03409 5 VGHGSPYKD-PYKKDIEAQAHNLAESL 30 (101)
T ss_pred EECCCCCCc-cHHHHHHHHHHHHHHHC
Confidence 589998651 11123444455555443
No 88
>PRK15121 right oriC-binding transcriptional activator; Provisional
Probab=23.08 E-value=37 Score=25.14 Aligned_cols=25 Identities=8% Similarity=0.127 Sum_probs=22.2
Q ss_pred cCccchHHHHHhhhhhhcCCCCcCC
Q psy16017 61 SGFSNVRELYQKIAECYEFPAEENR 85 (85)
Q Consensus 61 ~gFsnvkELY~kIae~f~i~p~e~~ 85 (85)
-||++..-++..--+.|+++|++.|
T Consensus 80 ~Gf~s~~~f~r~Fk~~~g~sP~~~r 104 (289)
T PRK15121 80 YRFDSQQTFTRAFKKQFAQTPALYR 104 (289)
T ss_pred HCCCCHHHHHHHHHHHHCcCHHHHH
Confidence 4899999999999999999998764
No 89
>PF03517 Voldacs: Regulator of volume decrease after cellular swelling; InterPro: IPR003521 The nucleotide-sensitive chloride conductance regulatory protein (ICln) is found ubiquitously in mammalian (and other) cell types and is postulated to play a critical role in cell volume regulation. Initial studies proposed that ICln was itself a swelling-activated anion channel; however, further studies demonstrated that it is localised primarily to the cell cytoplasm. It has therefore been postulated that activation of cell volume regulation may involve reversible translocation of ICln from the cytoplasm, and its insertion into the plasma membrane. It is not resolved whether the anionic channel involved in cell volume regulation after cell-swelling comprises one or more subunits, and if it does, whether ICln is in fact one of them [].; GO: 0006821 chloride transport, 0006884 cell volume homeostasis; PDB: 1ZYI_A.
Probab=22.97 E-value=50 Score=22.69 Aligned_cols=19 Identities=21% Similarity=0.639 Sum_probs=12.7
Q ss_pred chHHHHHhhhhhhcCCCCc
Q psy16017 65 NVRELYQKIAECYEFPAEE 83 (85)
Q Consensus 65 nvkELY~kIae~f~i~p~e 83 (85)
.+.++|+.|++|..+.|+.
T Consensus 91 ~l~~if~Als~C~~LhPD~ 109 (135)
T PF03517_consen 91 MLDEIFEALSECQELHPDP 109 (135)
T ss_dssp -HHHHHHHHHHHHH-----
T ss_pred HHHHHHHHHHHHHHhCCCC
Confidence 3999999999999988865
No 90
>COG4229 Predicted enolase-phosphatase [Energy production and conversion]
Probab=22.77 E-value=46 Score=26.37 Aligned_cols=43 Identities=33% Similarity=0.438 Sum_probs=30.9
Q ss_pred CCCceeeeeecccCCCceeccCccch-------HHHHHhhhhhhcCCCCcC
Q psy16017 41 SKPKLIFHCQLAHGSPTGLISGFSNV-------RELYQKIAECYEFPAEEN 84 (85)
Q Consensus 41 ~~p~LvFh~QLAHGSptg~I~gFsnv-------kELY~kIae~f~i~p~e~ 84 (85)
+..+|.|-|--| |-=.+.++||-+. ...|++||+..+++|.|+
T Consensus 131 ~AQkL~Fghs~a-gdL~~lfsGyfDttiG~KrE~~SY~kIa~~iGl~p~ei 180 (229)
T COG4229 131 KAQKLFFGHSDA-GDLNSLFSGYFDTTIGKKRESQSYAKIAGDIGLPPAEI 180 (229)
T ss_pred hhHHHhhccccc-ccHHhhhcceeeccccccccchhHHHHHHhcCCCchhe
Confidence 445788877532 4445566776543 568999999999999885
No 91
>PF14560 Ubiquitin_2: Ubiquitin-like domain; PDB: 1WJN_A 2KJ6_A 2KJR_A 1V6E_A 1T0Y_A.
Probab=22.72 E-value=70 Score=19.88 Aligned_cols=30 Identities=23% Similarity=0.193 Sum_probs=24.2
Q ss_pred CCceeccCccchHHHHHhhhhhhcCCCCcC
Q psy16017 55 SPTGLISGFSNVRELYQKIAECYEFPAEEN 84 (85)
Q Consensus 55 Sptg~I~gFsnvkELY~kIae~f~i~p~e~ 84 (85)
+..-++.--.+|.||=++|...+|++++..
T Consensus 15 ~~ekr~~~~~Tv~eLK~kl~~~~Gi~~~~m 44 (87)
T PF14560_consen 15 SVEKRFPKSITVSELKQKLEKLTGIPPSDM 44 (87)
T ss_dssp EEEEEEETTSBHHHHHHHHHHHHTS-TTTE
T ss_pred eEEEEcCCCCCHHHHHHHHHHHhCCCcccE
Confidence 344677777899999999999999999864
No 92
>PF10685 KGG: Stress-induced bacterial acidophilic repeat motif; InterPro: IPR019626 This repeat contains a highly conserved, characteristic sequence motif, KGG, that is recognised by plants and lower eukaryotes. Further downstream from this motif is a Walker A, nucleotide binding motif. YciG is expressed as part of a three-gene operon, yciGFE and this operon is induced by stress and is regulated by RpoS, which controls the general stress-response in E coli. YciG was shown to be important for stationary-phase resistance to thermal stress and in particular to acid stress [].
Probab=22.53 E-value=66 Score=16.99 Aligned_cols=14 Identities=21% Similarity=0.299 Sum_probs=11.9
Q ss_pred Cccc-hHHHHHhhhh
Q psy16017 62 GFSN-VRELYQKIAE 75 (85)
Q Consensus 62 gFsn-vkELY~kIae 75 (85)
||.| .+|.+..||+
T Consensus 1 ~Fa~~d~e~~~eig~ 15 (23)
T PF10685_consen 1 NFASMDPEKAREIGR 15 (23)
T ss_pred CccccCHHHHHHHHH
Confidence 6888 8999999885
No 93
>PF06971 Put_DNA-bind_N: Putative DNA-binding protein N-terminus; InterPro: IPR009718 This entry represents the C terminus (approximately 30 residues) of a number of Rex proteins. These are redox-sensing repressors that appear to be widespread among Gram-positive bacteria []. They modulate transcription in response to changes in cellular NADH/NAD(+) redox state. Rex is predicted to include a pyridine nucleotide-binding domain (Rossmann fold), and residues that might play key structural and nucleotide binding roles are highly conserved.; GO: 0045892 negative regulation of transcription, DNA-dependent, 0051775 response to redox state, 0005737 cytoplasm; PDB: 3IL2_B 3IKT_A 3IKV_B 1XCB_F 2DT5_A 2VT3_A 2VT2_A 3KEO_B 3KET_A 3KEQ_A ....
Probab=22.36 E-value=17 Score=22.04 Aligned_cols=17 Identities=24% Similarity=0.276 Sum_probs=12.7
Q ss_pred HHHhhhhhhcCCCCcCC
Q psy16017 69 LYQKIAECYEFPAEENR 85 (85)
Q Consensus 69 LY~kIae~f~i~p~e~~ 85 (85)
..+.||+..+|++.+||
T Consensus 30 SS~~La~~~gi~~~qVR 46 (50)
T PF06971_consen 30 SSQELAEALGITPAQVR 46 (50)
T ss_dssp -HHHHHHHHTS-HHHHH
T ss_pred CHHHHHHHHCCCHHHhc
Confidence 35678999999998876
No 94
>smart00482 POLAc DNA polymerase A domain.
Probab=21.90 E-value=14 Score=26.81 Aligned_cols=33 Identities=33% Similarity=0.468 Sum_probs=25.7
Q ss_pred ccCC-CceeccCccchHHHHHhhhh-hhcCCCCcC
Q psy16017 52 AHGS-PTGLISGFSNVRELYQKIAE-CYEFPAEEN 84 (85)
Q Consensus 52 AHGS-ptg~I~gFsnvkELY~kIae-~f~i~p~e~ 84 (85)
||=| ....++.|.+-.++|..+|. .|+++.+||
T Consensus 30 A~ls~D~~l~~~~~~g~D~h~~~A~~~~g~~~~~v 64 (206)
T smart00482 30 AHLSGDENLLEAFNNGGDIHSKTAAQVFGVPEEEV 64 (206)
T ss_pred HHHcCCHHHHHHHhcCCCHHHHHHHHHhCCChhhC
Confidence 4443 56778888887899999996 789988775
No 95
>COG4031 Predicted metal-binding protein [General function prediction only]
Probab=21.63 E-value=63 Score=25.54 Aligned_cols=21 Identities=38% Similarity=0.817 Sum_probs=16.3
Q ss_pred eeeecccCCCceeccCccchHHHHHhhhhh
Q psy16017 47 FHCQLAHGSPTGLISGFSNVRELYQKIAEC 76 (85)
Q Consensus 47 Fh~QLAHGSptg~I~gFsnvkELY~kIae~ 76 (85)
||.| |-++| ++|+||..|||-
T Consensus 48 ~~~~---gDedg------~lRNl~erlae~ 68 (227)
T COG4031 48 FSIR---GDEDG------SLRNLYERLAER 68 (227)
T ss_pred eccc---CCCcc------hHHHHHHHHHHH
Confidence 5554 89988 678899999953
No 96
>PRK13503 transcriptional activator RhaS; Provisional
Probab=21.04 E-value=37 Score=24.16 Aligned_cols=6 Identities=0% Similarity=0.373 Sum_probs=2.1
Q ss_pred hhhcCC
Q psy16017 75 ECYEFP 80 (85)
Q Consensus 75 e~f~i~ 80 (85)
+.+|++
T Consensus 260 k~~G~T 265 (278)
T PRK13503 260 REFSWS 265 (278)
T ss_pred HHHCcC
Confidence 333333
No 97
>PF10545 MADF_DNA_bdg: Alcohol dehydrogenase transcription factor Myb/SANT-like; InterPro: IPR006578 The MADF (myb/SANT-like domain in Adf-1) domain is an approximately 80-amino-acid module that directs sequence specific DNA binding to a site consisting of multiple tri-nucleotide repeats. The MADF domain is found in one or more copies in eukaryotic and viral proteins and is often associated with the BESS domain []. MADF is related to the Myb DNA-binding domain (IPR001005 from INTERPRO). The retroviral oncogene v-myb, and its cellular counterpart c-myb, are nuclear DNA-binding proteins that specifically recognise the sequence YAAC(G/T)G. It is likely that the MADF domain is more closely related to the myb/SANT domain than it is to other HTH domains. Some proteins known to contain a MADF domain are listed below: Drosophila Adf-1, a transcription factor first identified on the basis of its interaction with the alcohol dehydrogenase promoter but that binds the promoters of a diverse group of genes []. Drosophila Dorsal-interacting protein 3 (Dip3), which functions both as an activator to bind DNA in a sequence specific manner and a coactivator to stimulate synergistic activation by Dorsal and Twist []. Drosophila Stonewall (Stwl), a putative transcription factor required for maintenance of female germline stem cells as well as oocyte differentiation.
Probab=20.99 E-value=33 Score=20.08 Aligned_cols=19 Identities=26% Similarity=0.382 Sum_probs=14.5
Q ss_pred chHHHHHhhhhhhc--CCCCc
Q psy16017 65 NVRELYQKIAECYE--FPAEE 83 (85)
Q Consensus 65 nvkELY~kIae~f~--i~p~e 83 (85)
...++|+.||+.++ ++.++
T Consensus 24 ~r~~aw~~Ia~~l~~~~~~~~ 44 (85)
T PF10545_consen 24 LREEAWQEIARELGKEFSVDD 44 (85)
T ss_pred HHHHHHHHHHHHHccchhHHH
Confidence 46789999999888 66544
No 98
>cd05874 Ig6_NrCAM Sixth immunoglobulin (Ig)-like domain of NrCAM (Ng (neuronglia) CAM-related cell adhesion molecule). Ig6_NrCAM: sixth immunoglobulin (Ig)-like domain of NrCAM (Ng (neuronglia) CAM-related cell adhesion molecule). NrCAM belongs to the L1 subfamily of cell adhesion molecules (CAMs) and is comprised of an extracellular region having six Ig-like domains and five fibronectin type III domains, a transmembrane region, and an intracellular domain. NrCAM is primarily expressed in the nervous system.
Probab=20.90 E-value=65 Score=19.33 Aligned_cols=18 Identities=28% Similarity=0.593 Sum_probs=10.3
Q ss_pred eeeeeecccCCCceeccCc
Q psy16017 45 LIFHCQLAHGSPTGLISGF 63 (85)
Q Consensus 45 LvFh~QLAHGSptg~I~gF 63 (85)
++|.|+ |.|+|+-.|.=+
T Consensus 1 ~~l~C~-a~G~P~P~i~W~ 18 (77)
T cd05874 1 IVIQCE-AKGKPPPSFSWT 18 (77)
T ss_pred CEEEee-CcccCCCeEEEE
Confidence 356666 566666665433
No 99
>COG2207 AraC AraC-type DNA-binding domain-containing proteins [Transcription]
Probab=20.82 E-value=46 Score=20.15 Aligned_cols=24 Identities=13% Similarity=0.265 Sum_probs=18.6
Q ss_pred cCccchHHHHHhhhhhhcCCCCcC
Q psy16017 61 SGFSNVRELYQKIAECYEFPAEEN 84 (85)
Q Consensus 61 ~gFsnvkELY~kIae~f~i~p~e~ 84 (85)
-||++..-.+...-..++++|.+.
T Consensus 95 ~Gf~~~s~F~~~Fk~~~g~tP~~~ 118 (127)
T COG2207 95 LGYSSPSHFSRAFKRLFGVTPSEY 118 (127)
T ss_pred hCcCCHHHHHHHHHHHhCCChHHH
Confidence 478888777777778888888764
No 100
>TIGR02408 ectoine_ThpD ectoine hydroxylase. Both ectoine and hydroxyectoine are compatible solvents that serve as protectants against osmotic and thermal stresses. A number of genomes synthesize ectoine. This enzyme allows conversion of ectoine to hydroxyectoine, which may be more effective for some purposes, and is found in a subset of ectoine-producing organisms.
Probab=20.65 E-value=54 Score=24.59 Aligned_cols=17 Identities=29% Similarity=0.677 Sum_probs=14.1
Q ss_pred ceeeeeecccCCCceec
Q psy16017 44 KLIFHCQLAHGSPTGLI 60 (85)
Q Consensus 44 ~LvFh~QLAHGSptg~I 60 (85)
-|+|||.+-|||..-+-
T Consensus 220 vl~f~~~~~H~S~~N~s 236 (277)
T TIGR02408 220 AVWFDCNTMHGSGSNIT 236 (277)
T ss_pred EEEEccccccCCCCCCC
Confidence 68999999999976543
No 101
>smart00266 CAD Domains present in proteins implicated in post-mortem DNA fragmentation.
Probab=20.49 E-value=84 Score=20.69 Aligned_cols=21 Identities=24% Similarity=0.423 Sum_probs=17.7
Q ss_pred cchHHHHHhhhhhhcCCCCcC
Q psy16017 64 SNVRELYQKIAECYEFPAEEN 84 (85)
Q Consensus 64 snvkELY~kIae~f~i~p~e~ 84 (85)
+|.+||-.|.++.|.++...+
T Consensus 19 ~sL~eL~~K~~~~l~l~~~~~ 39 (74)
T smart00266 19 SSLEELLSKVCDKLALPDSPV 39 (74)
T ss_pred CCHHHHHHHHHHHhCCCCCCc
Confidence 588999999999999986543
No 102
>PRK11509 hydrogenase-1 operon protein HyaE; Provisional
Probab=20.48 E-value=1.3e+02 Score=21.32 Aligned_cols=37 Identities=19% Similarity=0.244 Sum_probs=31.8
Q ss_pred CCceeeeeecccCCCceeccCccchHHHHHhhhhhhcCCC
Q psy16017 42 KPKLIFHCQLAHGSPTGLISGFSNVRELYQKIAECYEFPA 81 (85)
Q Consensus 42 ~p~LvFh~QLAHGSptg~I~gFsnvkELY~kIae~f~i~p 81 (85)
-|.|+|--. |-..|+|.|+.+-.++.+.|.+..+=+.
T Consensus 92 iPTLl~Fkd---Gk~v~~i~G~~~k~~l~~~I~~~L~~~~ 128 (132)
T PRK11509 92 FPATLVFTG---GNYRGVLNGIHPWAELINLMRGLVEPQQ 128 (132)
T ss_pred CCEEEEEEC---CEEEEEEeCcCCHHHHHHHHHHHhcCcC
Confidence 568999888 9999999999999999999988776543
Done!