Query psy6854
Match_columns 148
No_of_seqs 85 out of 87
Neff 4.5
Searched_HMMs 46136
Date Fri Aug 16 20:06:43 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy6854.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/6854hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 cd01809 Scythe_N Ubiquitin-lik 60.9 24 0.00053 22.6 4.6 34 3-36 2-35 (72)
2 cd01812 BAG1_N Ubiquitin-like 59.0 23 0.00049 22.8 4.2 35 2-37 1-35 (71)
3 cd01791 Ubl5 UBL5 ubiquitin-li 55.3 36 0.00077 23.2 4.8 36 1-36 1-36 (73)
4 cd01805 RAD23_N Ubiquitin-like 52.3 40 0.00087 22.1 4.6 34 3-36 2-35 (77)
5 PF02787 CPSase_L_D3: Carbamoy 49.4 51 0.0011 24.8 5.2 53 63-147 22-74 (123)
6 PF15601 Imm42: Immunity prote 47.8 26 0.00056 27.4 3.5 74 33-120 44-126 (134)
7 COG1206 Gid NAD(FAD)-utilizing 45.8 14 0.00031 33.7 2.0 20 45-67 227-253 (439)
8 PF07554 FIVAR: Uncharacterise 40.3 62 0.0014 19.8 3.8 35 104-141 17-51 (51)
9 PF04468 PSP1: PSP1 C-terminal 36.9 53 0.0011 23.2 3.4 40 1-40 42-84 (88)
10 cd01796 DDI1_N DNA damage indu 36.6 69 0.0015 21.3 3.8 33 4-36 1-34 (71)
11 smart00213 UBQ Ubiquitin homol 36.3 99 0.0021 18.8 4.3 32 3-35 2-33 (64)
12 PF07939 DUF1685: Protein of u 36.3 23 0.0005 24.6 1.4 25 65-96 1-25 (64)
13 PTZ00044 ubiquitin; Provisiona 35.7 1.1E+02 0.0023 20.0 4.6 35 3-37 2-36 (76)
14 cd01807 GDX_N ubiquitin-like d 35.7 1E+02 0.0022 20.3 4.5 42 3-44 2-43 (74)
15 PF07377 DUF1493: Protein of u 35.3 24 0.00053 25.8 1.5 53 87-145 52-106 (111)
16 PRK13799 unknown domain/N-carb 34.7 64 0.0014 30.1 4.5 51 20-70 150-214 (591)
17 cd01798 parkin_N amino-termina 34.5 80 0.0017 20.5 3.8 34 4-37 1-34 (70)
18 cd01790 Herp_N Homocysteine-re 34.5 96 0.0021 21.9 4.4 32 2-33 2-35 (79)
19 PF07789 DUF1627: Protein of u 33.7 83 0.0018 25.4 4.4 29 26-54 120-148 (155)
20 TIGR02863 spore_sspJ small, ac 31.9 73 0.0016 20.8 3.1 29 87-121 2-30 (47)
21 cd07358 harmonin_N_like_1 Doma 30.5 83 0.0018 22.7 3.5 28 23-51 36-63 (78)
22 TIGR01323 nitrile_alph nitrile 29.7 40 0.00086 27.9 2.0 22 56-77 153-174 (185)
23 cd01803 Ubiquitin Ubiquitin. U 29.7 1.5E+02 0.0033 19.0 4.6 33 3-35 2-34 (76)
24 cd01810 ISG15_repeat2 ISG15 ub 29.4 1.1E+02 0.0023 20.3 3.8 32 5-36 2-33 (74)
25 PRK10061 DNA damage-inducible 27.4 1.1E+02 0.0025 22.8 3.9 31 39-75 29-59 (96)
26 cd08048 TAF11 TATA Binding Pro 27.3 1.7E+02 0.0037 20.9 4.7 45 99-143 30-82 (85)
27 cd07357 HN_L-whirlin_R2_like S 27.2 1.1E+02 0.0023 22.2 3.7 33 20-53 34-66 (81)
28 PF08817 YukD: WXG100 protein 27.0 1.2E+02 0.0025 20.6 3.7 34 3-36 4-37 (79)
29 PF04880 NUDE_C: NUDE protein, 26.3 40 0.00087 27.2 1.5 24 29-52 21-44 (166)
30 PF14142 YrzO: YrzO-like prote 26.1 1.6E+02 0.0034 19.1 3.9 23 26-48 12-35 (46)
31 PF06819 Arc_PepC: Archaeal Pe 26.0 1.1E+02 0.0023 23.4 3.6 17 58-74 80-96 (110)
32 cd01813 UBP_N UBP ubiquitin pr 25.7 1.7E+02 0.0036 19.8 4.3 34 2-36 1-34 (74)
33 PF04036 DUF372: Domain of unk 25.6 41 0.00089 21.2 1.1 20 99-118 19-38 (38)
34 cd01769 UBL Ubiquitin-like dom 25.5 1.4E+02 0.003 18.4 3.7 32 5-36 1-32 (69)
35 PHA02686 hypothetical protein; 25.5 1.3E+02 0.0029 23.7 4.1 29 28-56 100-128 (138)
36 cd01806 Nedd8 Nebb8-like ubiq 25.3 1.9E+02 0.0041 18.5 4.4 33 3-35 2-34 (76)
37 cd01804 midnolin_N Ubiquitin-l 25.3 1.8E+02 0.004 19.6 4.5 34 2-35 2-35 (78)
38 PF14728 PHTB1_C: PTHB1 C-term 25.0 2.1E+02 0.0045 25.7 5.9 45 9-53 184-228 (377)
39 PF02260 FATC: FATC domain; I 24.2 68 0.0015 19.0 1.9 19 19-37 4-22 (33)
40 cd01808 hPLIC_N Ubiquitin-like 24.1 1.9E+02 0.0041 18.8 4.3 34 2-36 1-34 (71)
41 PLN00204 CP12 gene family prot 23.6 65 0.0014 25.1 2.1 45 73-123 28-73 (126)
42 PLN02198 glutathione gamma-glu 23.3 2.5E+02 0.0054 26.5 6.3 103 31-141 137-249 (573)
43 PF14807 AP4E_app_platf: Adapt 22.9 1.8E+02 0.004 21.6 4.4 35 2-36 69-104 (104)
44 cd07981 TAF12 TATA Binding Pro 22.9 1.6E+02 0.0034 20.0 3.8 51 18-79 18-68 (72)
45 KOG4300|consensus 22.5 60 0.0013 27.9 1.9 27 93-119 97-123 (252)
46 PF00794 PI3K_rbd: PI3-kinase 22.4 2.1E+02 0.0045 20.3 4.5 31 4-34 19-50 (106)
47 PF07130 YebG: YebG protein; 22.4 1.1E+02 0.0024 21.8 3.0 31 39-75 29-59 (75)
48 PHA02609 uvsW.1 hypothetical p 22.4 23 0.0005 25.3 -0.5 31 12-42 5-43 (76)
49 cd00196 UBQ Ubiquitin-like pro 21.9 1.5E+02 0.0034 16.2 3.8 27 10-36 6-32 (69)
50 PF04155 Ground-like: Ground-l 21.8 94 0.002 21.1 2.5 20 98-117 1-21 (76)
51 KOG2740|consensus 21.7 1.3E+02 0.0029 27.6 4.0 42 106-147 79-123 (418)
52 PLN02180 gamma-glutamyl transp 21.5 1.7E+02 0.0037 28.1 4.9 103 31-141 187-299 (639)
53 PF10752 DUF2533: Protein of u 21.0 1.2E+02 0.0027 22.1 3.0 25 119-143 58-82 (84)
54 TIGR01000 bacteriocin_acc bact 20.9 3.6E+02 0.0078 24.0 6.6 58 4-61 73-133 (457)
55 cd01794 DC_UbP_C dendritic cel 20.9 1.9E+02 0.004 19.3 3.8 32 4-35 1-32 (70)
56 PF01536 SAM_decarbox: Adenosy 20.7 1.3E+02 0.0028 26.7 3.6 34 3-36 237-275 (331)
57 COG2231 Uncharacterized protei 20.6 96 0.0021 26.2 2.7 52 27-89 33-84 (215)
58 cd01802 AN1_N ubiquitin-like d 20.5 2.5E+02 0.0054 20.3 4.6 34 3-36 29-62 (103)
No 1
>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=60.86 E-value=24 Score=22.61 Aligned_cols=34 Identities=18% Similarity=0.225 Sum_probs=28.7
Q ss_pred EEEeeccCCceeeeeecCcccHHHHHHHHHHHhh
Q psy6854 3 ILHVKHGDASQFLYETSTSTSIQQLLEEILNIYN 36 (148)
Q Consensus 3 llHVK~gde~qFLyEtt~~~~ve~li~~lv~I~N 36 (148)
.|.||.-+...|-++...+.+|.+|...+.+..+
T Consensus 2 ~i~vk~~~g~~~~~~v~~~~tv~~lK~~i~~~~g 35 (72)
T cd01809 2 EIKVKTLDSQTHTFTVEEEITVLDLKEKIAEEVG 35 (72)
T ss_pred EEEEEeCCCCEEEEEECCCCcHHHHHHHHHHHHC
Confidence 5889977778899999999999999988877544
No 2
>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=58.98 E-value=23 Score=22.84 Aligned_cols=35 Identities=17% Similarity=0.246 Sum_probs=28.7
Q ss_pred eEEEeeccCCceeeeeecCcccHHHHHHHHHHHhhh
Q psy6854 2 VILHVKHGDASQFLYETSTSTSIQQLLEEILNIYNG 37 (148)
Q Consensus 2 VllHVK~gde~qFLyEtt~~~~ve~li~~lv~I~N~ 37 (148)
+.|+||.+ ...|-++.+.+..|.+|.+.|....+.
T Consensus 1 i~i~vk~~-g~~~~i~v~~~~tv~~lK~~i~~~~gi 35 (71)
T cd01812 1 IRVRVKHG-GESHDLSISSQATFGDLKKMLAPVTGV 35 (71)
T ss_pred CEEEEEEC-CEEEEEEECCCCcHHHHHHHHHHhhCC
Confidence 36889988 677888999999999999988777653
No 3
>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=55.34 E-value=36 Score=23.22 Aligned_cols=36 Identities=11% Similarity=0.063 Sum_probs=29.0
Q ss_pred CeEEEeeccCCceeeeeecCcccHHHHHHHHHHHhh
Q psy6854 1 MVILHVKHGDASQFLYETSTSTSIQQLLEEILNIYN 36 (148)
Q Consensus 1 MVllHVK~gde~qFLyEtt~~~~ve~li~~lv~I~N 36 (148)
|+.|.||.-....|-.+..-+..|.+|...+.+-.+
T Consensus 1 ~~~i~vkt~~Gk~~~~~v~~~~TV~~LK~~I~~~~~ 36 (73)
T cd01791 1 MIEVVCNDRLGKKVRVKCNPDDTIGDLKKLIAAQTG 36 (73)
T ss_pred CEEEEEECCCCCEEEEEeCCCCcHHHHHHHHHHHhC
Confidence 899999954446787899999999999988766553
No 4
>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=52.26 E-value=40 Score=22.12 Aligned_cols=34 Identities=18% Similarity=0.185 Sum_probs=27.9
Q ss_pred EEEeeccCCceeeeeecCcccHHHHHHHHHHHhh
Q psy6854 3 ILHVKHGDASQFLYETSTSTSIQQLLEEILNIYN 36 (148)
Q Consensus 3 llHVK~gde~qFLyEtt~~~~ve~li~~lv~I~N 36 (148)
.|.||.-+...|-++...+..|.+|.+.|.+..+
T Consensus 2 ~i~vk~~~g~~~~l~v~~~~TV~~lK~~i~~~~~ 35 (77)
T cd01805 2 KITFKTLKQQTFPIEVDPDDTVAELKEKIEEEKG 35 (77)
T ss_pred EEEEEeCCCCEEEEEECCCCcHHHHHHHHHHhhC
Confidence 4778876778899999999999999988776543
No 5
>PF02787 CPSase_L_D3: Carbamoyl-phosphate synthetase large chain, oligomerisation domain; InterPro: IPR005480 Carbamoyl phosphate synthase (CPSase) is a heterodimeric enzyme composed of a small and a large subunit (with the exception of CPSase III, see below). CPSase catalyses the synthesis of carbamoyl phosphate from biocarbonate, ATP and glutamine (6.3.5.5 from EC) or ammonia (6.3.4.16 from EC), and represents the first committed step in pyrimidine and arginine biosynthesis in prokaryotes and eukaryotes, and in the urea cycle in most terrestrial vertebrates [, ]. CPSase has three active sites, one in the small subunit and two in the large subunit. The small subunit contains the glutamine binding site and catalyses the hydrolysis of glutamine to glutamate and ammonia. The large subunit has two homologous carboxy phosphate domains, both of which have ATP-binding sites; however, the N-terminal carboxy phosphate domain catalyses the phosphorylation of biocarbonate, while the C-terminal domain catalyses the phosphorylation of the carbamate intermediate []. The carboxy phosphate domain found duplicated in the large subunit of CPSase is also present as a single copy in the biotin-dependent enzymes acetyl-CoA carboxylase (6.4.1.2 from EC) (ACC), propionyl-CoA carboxylase (6.4.1.3 from EC) (PCCase), pyruvate carboxylase (6.4.1.1 from EC) (PC) and urea carboxylase (6.3.4.6 from EC). Most prokaryotes carry one form of CPSase that participates in both arginine and pyrimidine biosynthesis, however certain bacteria can have separate forms. The large subunit in bacterial CPSase has four structural domains: the carboxy phosphate domain 1, the oligomerisation domain, the carbamoyl phosphate domain 2 and the allosteric domain []. CPSase heterodimers from Escherichia coli contain two molecular tunnels: an ammonia tunnel and a carbamate tunnel. These inter-domain tunnels connect the three distinct active sites, and function as conduits for the transport of unstable reaction intermediates (ammonia and carbamate) between successive active sites []. The catalytic mechanism of CPSase involves the diffusion of carbamate through the interior of the enzyme from the site of synthesis within the N-terminal domain of the large subunit to the site of phosphorylation within the C-terminal domain. Eukaryotes have two distinct forms of CPSase: a mitochondrial enzyme (CPSase I) that participates in both arginine biosynthesis and the urea cycle; and a cytosolic enzyme (CPSase II) involved in pyrimidine biosynthesis. CPSase II occurs as part of a multi-enzyme complex along with aspartate transcarbamoylase and dihydroorotase; this complex is referred to as the CAD protein []. The hepatic expression of CPSase is transcriptionally regulated by glucocorticoids and/or cAMP []. There is a third form of the enzyme, CPSase III, found in fish, which uses glutamine as a nitrogen source instead of ammonia []. CPSase III is closely related to CPSase I, and is composed of a single polypeptide that may have arisen from gene fusion of the glutaminase and synthetase domains []. This entry represents the oligomerisation domain found in the large subunit of carbamoyl phosphate synthases as well as in certain other carboxy phsophate domain-containing enzymes.; GO: 0006807 nitrogen compound metabolic process; PDB: 1M6V_C 1CS0_C 1C30_E 1C3O_G 1BXR_A 1T36_E 1A9X_A 1KEE_G 1CE8_A 1JDB_H ....
Probab=49.39 E-value=51 Score=24.85 Aligned_cols=53 Identities=23% Similarity=0.323 Sum_probs=31.0
Q ss_pred CCCCHHHHHHhhcccccCCcCCCCCCccCCCCCCCCCCCCCChHHHHHHHHHHHHHHHhhhHHhhhhccccCHHHHHhhh
Q psy6854 63 LGLTDEQVEELKLRDDQGERCKPSGYIENKDPIGRRNGYQPPIKMQDLIKTTIEEVKNKISKTLVERNQCLTEAVVQEGK 142 (148)
Q Consensus 63 qGLtdeq~~el~l~d~w~~~c~p~G~~~~kD~~grR~G~ap~~~~~~vL~~t~~eAk~~isK~qv~~~~~lT~~~l~E~L 142 (148)
+|.|-+++.++...|.| --..|.+-++--+.+ +.. ...++.+.|.++-
T Consensus 22 rG~sveeI~e~T~ID~w---------------------------FL~~i~~Iv~~e~~L-~~~----~~~~~~~~L~~aK 69 (123)
T PF02787_consen 22 RGYSVEEIHELTKIDPW---------------------------FLEQIKNIVDMEKEL-KEY----LNELDPELLRKAK 69 (123)
T ss_dssp TTB-HHHHHHHH---HH---------------------------HHHHHHHHHHHHHHH-HHH----GGG--HHHHHHHH
T ss_pred cCCCHHHHHHHHCccHH---------------------------HHHHHHHHHHHHHHH-HHh----hccchHHHHHHHH
Confidence 59999999999998887 233444444433333 221 6679999999999
Q ss_pred cCCCC
Q psy6854 143 GFGFD 147 (148)
Q Consensus 143 d~~~~ 147 (148)
.+||.
T Consensus 70 ~~GFs 74 (123)
T PF02787_consen 70 RLGFS 74 (123)
T ss_dssp HTT--
T ss_pred HcCCC
Confidence 99994
No 6
>PF15601 Imm42: Immunity protein 42
Probab=47.78 E-value=26 Score=27.37 Aligned_cols=74 Identities=18% Similarity=0.366 Sum_probs=44.8
Q ss_pred HHhhhHHHHHHHHHHHHHHHhcCCCCCCccCCCCHHH----HHHhhcccccCCcCC---CC--CCccCCCCCCCCCCCCC
Q psy6854 33 NIYNGRLKVYRVMAEMEELAKHGTFLPPDMLGLTDEQ----VEELKLRDDQGERCK---PS--GYIENKDPIGRRNGYQP 103 (148)
Q Consensus 33 ~I~N~RlKi~rL~~e~eeLa~hG~~~Ppe~qGLtdeq----~~el~l~d~w~~~c~---p~--G~~~~kD~~grR~G~ap 103 (148)
++|+|.|+...+-.++++|.+-. ..+..+...+ ++.+...+.|++.-. ++ -++...| |
T Consensus 44 ~LY~g~L~~~~~~~A~~eL~~I~----~~l~~~~p~~ViWD~~dl~~~ppWg~~i~~~i~~L~~yFvt~d--G------- 110 (134)
T PF15601_consen 44 ELYRGYLRYEELEKALKELEEIR----KELKKFPPSEVIWDIEDLSKQPPWGDNISPDITSLSDYFVTSD--G------- 110 (134)
T ss_pred HHHcCCCCHHHHHHHHHHHHHHH----HHHhcCChhhheechhhcccCCCCcccCCCCCCcHHHHhcCcc--h-------
Confidence 45999999988888777764321 1122222233 467778888843332 22 2333333 3
Q ss_pred ChHHHHHHHHHHHHHHH
Q psy6854 104 PIKMQDLIKTTIEEVKN 120 (148)
Q Consensus 104 ~~~~~~vL~~t~~eAk~ 120 (148)
...-++|.++++.|+.
T Consensus 111 -~~~f~~l~~a~~~a~~ 126 (134)
T PF15601_consen 111 -KDLFEVLFRALESAIE 126 (134)
T ss_pred -hhHHHHHHHHHHHHHh
Confidence 3688999999998844
No 7
>COG1206 Gid NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]
Probab=45.79 E-value=14 Score=33.73 Aligned_cols=20 Identities=35% Similarity=0.678 Sum_probs=13.2
Q ss_pred HHHHHHHH-------hcCCCCCCccCCCCH
Q psy6854 45 MAEMEELA-------KHGTFLPPDMLGLTD 67 (148)
Q Consensus 45 ~~e~eeLa-------~hG~~~Ppe~qGLtd 67 (148)
|..||++| .||||+| .||++
T Consensus 227 CmPIE~mA~rG~~Tl~~GPmKP---vGL~~ 253 (439)
T COG1206 227 CMPIEVMAERGRKTLRFGPMKP---VGLED 253 (439)
T ss_pred cCcHHHHHhhCcchhccCCCCC---cCCCC
Confidence 55555555 5889999 46655
No 8
>PF07554 FIVAR: Uncharacterised Sugar-binding Domain; InterPro: IPR011490 This domain is found in a wide variety of contexts, but mostly occurring in cell wall associated proteins. A lack of conserved catalytic residues suggests that it is a binding domain. From context, possible substrates are hyaluronate or fibronectin. This is further evidenced by []. Possibly the exact substrate is N-acetyl glucosamine. Finding it in the same protein as IPR007781 from INTERPRO further supports this proposal. It is found in the C-terminal part of O82833 from SWISSPROT, which is removed during maturation []. The name FIVAR derives from Found In Various Architectures.; PDB: 1XVH_B 2OZN_B 2JNK_A 2DGJ_A.
Probab=40.33 E-value=62 Score=19.77 Aligned_cols=35 Identities=14% Similarity=0.160 Sum_probs=24.9
Q ss_pred ChHHHHHHHHHHHHHHHhhhHHhhhhccccCHHHHHhh
Q psy6854 104 PIKMQDLIKTTIEEVKNKISKTLVERNQCLTEAVVQEG 141 (148)
Q Consensus 104 ~~~~~~vL~~t~~eAk~~isK~qv~~~~~lT~~~l~E~ 141 (148)
.++.+..+..++..|++++.+.. +-.+|++.|..|
T Consensus 17 ~~~~~~~y~~Al~~A~~vl~~~~---~~~~t~~~V~~A 51 (51)
T PF07554_consen 17 TPESKAAYDNALNAAKAVLNNTN---NPNATQEEVDQA 51 (51)
T ss_dssp -HHHHHHHHHHHHHHHHHHCCTT------TTHHHHHHH
T ss_pred CHHHHHHHHHHHHHHHHHHcCCC---CCCCCHHHHhcC
Confidence 45788899999999999987732 344777777654
No 9
>PF04468 PSP1: PSP1 C-terminal conserved region; InterPro: IPR007557 The yeast polymerase suppressor 1 (PSP1) protein partially suppresses mutations in DNA polymerases alpha and delta []. The C-terminal half of PSP1 contains a domain, which is also found in several hypothetical proteins from both eukaryotic and prokaryotic sources: Crithidia fasciculata RBP45 and RBP33, subunits of the cycling sequence binding protein (CSBP) II. RBP45 and RBP33 proteins bind specifically to the cycling sequences present in several mRNAs that accumulate periodically during the cell cycle. RBP45 and RBP33 are phosphoproteins, which are phosphorylated differentially during progression through the cell cycle. Hypothetical proteins with high sequence similarity have been identified in other kinetoplastid organisms []. Bacillus subtilis yaaT protein, which plays a significant role in phosphorelay during initiation of sporulation. It is possible that the yaaT protein is also related to DNA replication. The sequence of the yaaT protein is widely conserved in prokaryotes (bacteria and archaea), but the functions of the protein are unknown []. The actual biological significance of the PSP1 C-terminal domain has not yet been clearly established.
Probab=36.90 E-value=53 Score=23.21 Aligned_cols=40 Identities=18% Similarity=0.482 Sum_probs=31.6
Q ss_pred CeEEEeec---cCCceeeeeecCcccHHHHHHHHHHHhhhHHH
Q psy6854 1 MVILHVKH---GDASQFLYETSTSTSIQQLLEEILNIYNGRLK 40 (148)
Q Consensus 1 MVllHVK~---gde~qFLyEtt~~~~ve~li~~lv~I~N~RlK 40 (148)
|-++.|-- +..-.|.|-+..-+...+|+++|.+.|+.|+-
T Consensus 42 m~lvd~e~~~D~~k~~fyy~a~~rvDFR~Lvr~L~~~f~~RIe 84 (88)
T PF04468_consen 42 MKLVDVEYQFDGSKLTFYYTAESRVDFRELVRDLAREFKTRIE 84 (88)
T ss_pred eEEEEEEEEcCCCEEEEEEEeCCcCcHHHHHHHHHHHhCceEE
Confidence 44555552 23578999999999999999999999998863
No 10
>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=36.63 E-value=69 Score=21.26 Aligned_cols=33 Identities=6% Similarity=0.078 Sum_probs=26.5
Q ss_pred EEeecc-CCceeeeeecCcccHHHHHHHHHHHhh
Q psy6854 4 LHVKHG-DASQFLYETSTSTSIQQLLEEILNIYN 36 (148)
Q Consensus 4 lHVK~g-de~qFLyEtt~~~~ve~li~~lv~I~N 36 (148)
|+||.. ....|-+|.+-+..|.+|...+.+..+
T Consensus 1 l~v~~~~~g~~~~l~v~~~~TV~~lK~~I~~~~g 34 (71)
T cd01796 1 ITVYTARSETTFSLDVDPDLELENFKALCEAESG 34 (71)
T ss_pred CEEEECCCCCEEEEEECCcCCHHHHHHHHHHHhC
Confidence 578866 667899999999999999987766544
No 11
>smart00213 UBQ Ubiquitin homologues. Ubiquitin-mediated proteolysis is involved in the regulated turnover of proteins required for controlling cell cycle progression
Probab=36.33 E-value=99 Score=18.85 Aligned_cols=32 Identities=28% Similarity=0.330 Sum_probs=25.7
Q ss_pred EEEeeccCCceeeeeecCcccHHHHHHHHHHHh
Q psy6854 3 ILHVKHGDASQFLYETSTSTSIQQLLEEILNIY 35 (148)
Q Consensus 3 llHVK~gde~qFLyEtt~~~~ve~li~~lv~I~ 35 (148)
.|.||..+ ..|-++.+.+..|.+|...|....
T Consensus 2 ~i~vk~~~-~~~~~~v~~~~tv~~lk~~i~~~~ 33 (64)
T smart00213 2 ELTVKTLD-GTITLEVKPSDTVSELKEKIAELT 33 (64)
T ss_pred EEEEEECC-ceEEEEECCCCcHHHHHHHHHHHH
Confidence 47788666 688899999999999998876654
No 12
>PF07939 DUF1685: Protein of unknown function (DUF1685); InterPro: IPR012881 The members of this family are hypothetical eukaryotic proteins of unknown function. The region in question is approximately 100 amino acid residues long.
Probab=36.31 E-value=23 Score=24.63 Aligned_cols=25 Identities=32% Similarity=0.586 Sum_probs=19.2
Q ss_pred CCHHHHHHhhcccccCCcCCCCCCccCCCCCC
Q psy6854 65 LTDEQVEELKLRDDQGERCKPSGYIENKDPIG 96 (148)
Q Consensus 65 Ltdeq~~el~l~d~w~~~c~p~G~~~~kD~~g 96 (148)
|||++.+|||- |+.=||.|.....+
T Consensus 1 lTd~dldELkG-------c~dLGFgF~~~~~~ 25 (64)
T PF07939_consen 1 LTDDDLDELKG-------CIDLGFGFDEEDLD 25 (64)
T ss_pred CcHhHHHHHhh-------hhhhccccCccccC
Confidence 68999999996 87669988555433
No 13
>PTZ00044 ubiquitin; Provisional
Probab=35.71 E-value=1.1e+02 Score=20.03 Aligned_cols=35 Identities=9% Similarity=0.041 Sum_probs=28.9
Q ss_pred EEEeeccCCceeeeeecCcccHHHHHHHHHHHhhh
Q psy6854 3 ILHVKHGDASQFLYETSTSTSIQQLLEEILNIYNG 37 (148)
Q Consensus 3 llHVK~gde~qFLyEtt~~~~ve~li~~lv~I~N~ 37 (148)
.|+||--+...|-++..-+..|.+|...|....|-
T Consensus 2 ~i~vk~~~G~~~~l~v~~~~tv~~lK~~i~~~~gi 36 (76)
T PTZ00044 2 QILIKTLTGKKQSFNFEPDNTVQQVKMALQEKEGI 36 (76)
T ss_pred EEEEEeCCCCEEEEEECCCCcHHHHHHHHHHHHCC
Confidence 47888777788999999999999999988776653
No 14
>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=35.68 E-value=1e+02 Score=20.33 Aligned_cols=42 Identities=19% Similarity=0.126 Sum_probs=31.3
Q ss_pred EEEeeccCCceeeeeecCcccHHHHHHHHHHHhhhHHHHHHH
Q psy6854 3 ILHVKHGDASQFLYETSTSTSIQQLLEEILNIYNGRLKVYRV 44 (148)
Q Consensus 3 llHVK~gde~qFLyEtt~~~~ve~li~~lv~I~N~RlKi~rL 44 (148)
.|.||--+...|-+|..-+..|.+|.+.|.+..|-...=+||
T Consensus 2 ~i~vk~~~G~~~~l~v~~~~tV~~lK~~i~~~~gi~~~~q~L 43 (74)
T cd01807 2 FLTVKLLQGRECSLQVSEKESVSTLKKLVSEHLNVPEEQQRL 43 (74)
T ss_pred EEEEEeCCCCEEEEEECCCCcHHHHHHHHHHHHCCCHHHeEE
Confidence 578887667788999999999999999887765543333333
No 15
>PF07377 DUF1493: Protein of unknown function (DUF1493); InterPro: IPR010862 This family consists of several bacterial proteins of around 115 residues in length. Members of this family are largely found in Salmonella and Yersinia species and several have been described as being putative cytoplasmic proteins. The function of this family is unknown.
Probab=35.27 E-value=24 Score=25.76 Aligned_cols=53 Identities=17% Similarity=-0.051 Sum_probs=32.7
Q ss_pred CCccCCCCCCCCCCC--CCChHHHHHHHHHHHHHHHhhhHHhhhhccccCHHHHHhhhcCC
Q psy6854 87 GYIENKDPIGRRNGY--QPPIKMQDLIKTTIEEVKNKISKTLVERNQCLTEAVVQEGKGFG 145 (148)
Q Consensus 87 G~~~~kD~~grR~G~--ap~~~~~~vL~~t~~eAk~~isK~qv~~~~~lT~~~l~E~Ld~~ 145 (148)
...|+.|..++.-.. .|-.. ..+ ...-...+|+++...++||..||-|+...|
T Consensus 52 ~~~F~Vd~~~f~~~~YF~pe~~--~~~----~~~~~~~~~~~~~~~~PLTv~ML~esakaG 106 (111)
T PF07377_consen 52 FERFNVDLSDFDFDRYFPPEGE--PPF----FSLWFPFKKKKVKKIKPLTVGMLIESAKAG 106 (111)
T ss_pred HHHhCCCcCccCHHHccCcccc--chH----HHHHHhhhhcccCCCCCCcHHHHHHHHHcC
Confidence 456777777765422 22111 111 122235566677777899999999999888
No 16
>PRK13799 unknown domain/N-carbamoyl-L-amino acid hydrolase fusion protein; Provisional
Probab=34.66 E-value=64 Score=30.07 Aligned_cols=51 Identities=22% Similarity=0.230 Sum_probs=37.7
Q ss_pred CcccHHHHHHHHHHHhhhHHH---------HHHHHHHHHHHHhcC-C-CCCC---ccCCCCHHHH
Q psy6854 20 TSTSIQQLLEEILNIYNGRLK---------VYRVMAEMEELAKHG-T-FLPP---DMLGLTDEQV 70 (148)
Q Consensus 20 ~~~~ve~li~~lv~I~N~RlK---------i~rL~~e~eeLa~hG-~-~~Pp---e~qGLtdeq~ 70 (148)
-.+.....+.++.+|-.+||. ..||...+++|+..| | ..|+ ....+|++..
T Consensus 150 ~e~E~~~a~~e~~~I~~~Rl~~l~~~~~~~~~r~~~~l~~l~~~~~~~~~~~~g~~R~~~s~~~~ 214 (591)
T PRK13799 150 PDDELGEALRNIGRIAEIRINDKFGYTPAIGADVMDWAEDIAAHSDPGYADEGALTCTYLSDAHR 214 (591)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhCCChhHHHHHHHHHHHHHhccCCCCCCCCceEeeeCCHHHH
Confidence 345677788999999999998 679999999999997 2 3333 2334666653
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=34.47 E-value=80 Score=20.55 Aligned_cols=34 Identities=24% Similarity=0.246 Sum_probs=28.1
Q ss_pred EEeeccCCceeeeeecCcccHHHHHHHHHHHhhh
Q psy6854 4 LHVKHGDASQFLYETSTSTSIQQLLEEILNIYNG 37 (148)
Q Consensus 4 lHVK~gde~qFLyEtt~~~~ve~li~~lv~I~N~ 37 (148)
|.||.-+..+|-+|..-+..|.+|...|.+..|.
T Consensus 1 i~vk~~~g~~~~~~v~~~~tV~~lK~~i~~~~gi 34 (70)
T cd01798 1 VYVRTNTGHTFPVEVDPDTDIKQLKEVVAKRQGV 34 (70)
T ss_pred CEEEcCCCCEEEEEECCCChHHHHHHHHHHHHCC
Confidence 4578777889999999999999999988776553
No 18
>cd01790 Herp_N Homocysteine-responsive endoplasmic reticulum-resident ubiquitin-like domain protein. Herp (Homocysteine-responsive endoplasmic reticulum-resident ubiquitin-like domain protein) , is an integral membrane protein that is induced by the endoplasmic reticulum (ER) stress response pathway and is involved in improving the balance of folding capacity and protein loads in the ER. Herp has an N-terminal ubiquitin-like domain that is involved in Herp degradation, but is not necessary for its enhancement of amyloid beta-protein generation.
Probab=34.46 E-value=96 Score=21.88 Aligned_cols=32 Identities=13% Similarity=0.095 Sum_probs=22.9
Q ss_pred eEEEeeccCCc--eeeeeecCcccHHHHHHHHHH
Q psy6854 2 VILHVKHGDAS--QFLYETSTSTSIQQLLEEILN 33 (148)
Q Consensus 2 VllHVK~gde~--qFLyEtt~~~~ve~li~~lv~ 33 (148)
+-||||..+.. .|-.|...+..|.+|.+.|.+
T Consensus 2 i~l~IK~~~~~~~~~~ve~~~~~TV~~lK~~i~~ 35 (79)
T cd01790 2 VTLLIKSPNQKYEDQTVSCFLNWTVGELKTHLSR 35 (79)
T ss_pred eEEEEECCCCCeEEEEEecCCcChHHHHHHHHHH
Confidence 56999976544 477776788888888765544
No 19
>PF07789 DUF1627: Protein of unknown function (DUF1627); InterPro: IPR012432 This is a group of sequences found in hypothetical proteins predicted to be expressed in a number of bacterial species. The region in question is approximately 150 amino acid residues long.
Probab=33.65 E-value=83 Score=25.36 Aligned_cols=29 Identities=31% Similarity=0.263 Sum_probs=23.3
Q ss_pred HHHHHHHHHhhhHHHHHHHHHHHHHHHhc
Q psy6854 26 QLLEEILNIYNGRLKVYRVMAEMEELAKH 54 (148)
Q Consensus 26 ~li~~lv~I~N~RlKi~rL~~e~eeLa~h 54 (148)
..-++|-+--+-.-|..|+|.++.+|-+|
T Consensus 120 ~a~rElRRak~kvqkwErvcaAlRELnKh 148 (155)
T PF07789_consen 120 KANRELRRAKSKVQKWERVCAALRELNKH 148 (155)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34456666667778899999999999998
No 20
>TIGR02863 spore_sspJ small, acid-soluble spore protein, SspJ family. RL J Bacteriol. 1998 Dec;180(24):6704-12.
Probab=31.91 E-value=73 Score=20.76 Aligned_cols=29 Identities=24% Similarity=0.251 Sum_probs=22.0
Q ss_pred CCccCCCCCCCCCCCCCChHHHHHHHHHHHHHHHh
Q psy6854 87 GYIENKDPIGRRNGYQPPIKMQDLIKTTIEEVKNK 121 (148)
Q Consensus 87 G~~~~kD~~grR~G~ap~~~~~~vL~~t~~eAk~~ 121 (148)
|-+|++|.-+ -+++-+.++..++++|-+.
T Consensus 2 ~ifF~kdk~~------~seKd~n~v~gaLEdAg~a 30 (47)
T TIGR02863 2 GIFFNKDKGK------KSEKDKNAIQGALEDAGQA 30 (47)
T ss_pred cchhhccccc------chhhhHHHHHHHHHHHHHH
Confidence 4467777544 3578889999999999877
No 21
>cd07358 harmonin_N_like_1 Domains similar to the N-terminal protein-binding module of harmonin. This domain is a putative protein-binding module based on its sequence similarity to the N-terminal domain of harmonin. Harmonin (not belonging to this group) is a postsynaptic density-95/discs-large/ZO-1 (PDZ) domain-containing scaffold protein, which organizes the Usher protein network of the inner ear and the retina. This domain is also related to domains found in several other PDZ domain-containing scaffold proteins which organize supramolecular complexes. This subgroup is comprised of uncharacterized PDZ-containing proteins including a protein designated Bos taurus PDZ containing 7 which has an N-terminal PDZ domain and a C-terminal harmonin_N_like domain; however the characterized human PDZ containing 7 containing two PDZ domains does not appear to contain a harmonin_N_like domain.
Probab=30.55 E-value=83 Score=22.69 Aligned_cols=28 Identities=14% Similarity=0.434 Sum_probs=24.8
Q ss_pred cHHHHHHHHHHHhhhHHHHHHHHHHHHHH
Q psy6854 23 SIQQLLEEILNIYNGRLKVYRVMAEMEEL 51 (148)
Q Consensus 23 ~ve~li~~lv~I~N~RlKi~rL~~e~eeL 51 (148)
+||+|++.|.+|.|.--|+. |.+|++-+
T Consensus 36 ~VE~LV~~Ll~iLd~p~Kll-LL~eIR~~ 63 (78)
T cd07358 36 GVEDLVRPLLAILDRPEKLL-LLRDIRSV 63 (78)
T ss_pred CHHHHHHHHHHHHccHHHHH-HHHHHHhc
Confidence 89999999999999999998 77777654
No 22
>TIGR01323 nitrile_alph nitrile hydratase, alpha subunit. This model describes both iron- and cobalt-containing nitrile hydratase alpha chains. It excludes the thiocyanate hydrolase gamma subunit of Thiobacillus thioparus, a sequence that appears to have evolved from within the family of nitrile hydratase alpha subunits but which differs by several indels and a more rapid accumulation of point mutations.
Probab=29.70 E-value=40 Score=27.86 Aligned_cols=22 Identities=27% Similarity=0.416 Sum_probs=17.4
Q ss_pred CCCCCccCCCCHHHHHHhhccc
Q psy6854 56 TFLPPDMLGLTDEQVEELKLRD 77 (148)
Q Consensus 56 ~~~Ppe~qGLtdeq~~el~l~d 77 (148)
|++|....|||+||.+.|=..|
T Consensus 153 P~RP~gte~lsEeqLa~lVtrd 174 (185)
T TIGR01323 153 PQRPAGTEHMSEEQLQQLVTRD 174 (185)
T ss_pred ecCCCCCCCCCHHHHHHhhccc
Confidence 5666777899999998877655
No 23
>cd01803 Ubiquitin Ubiquitin. Ubiquitin (includes Ubq/RPL40e and Ubq/RPS27a fusions as well as homopolymeric multiubiquitin protein chains)
Probab=29.69 E-value=1.5e+02 Score=18.95 Aligned_cols=33 Identities=18% Similarity=0.181 Sum_probs=26.6
Q ss_pred EEEeeccCCceeeeeecCcccHHHHHHHHHHHh
Q psy6854 3 ILHVKHGDASQFLYETSTSTSIQQLLEEILNIY 35 (148)
Q Consensus 3 llHVK~gde~qFLyEtt~~~~ve~li~~lv~I~ 35 (148)
.|.||.-+...|-++...+.+|.+|...|....
T Consensus 2 ~i~v~~~~g~~~~~~v~~~~tV~~lK~~i~~~~ 34 (76)
T cd01803 2 QIFVKTLTGKTITLEVEPSDTIENVKAKIQDKE 34 (76)
T ss_pred EEEEEcCCCCEEEEEECCcCcHHHHHHHHHHHh
Confidence 377886666778899999999999999887654
No 24
>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=29.38 E-value=1.1e+02 Score=20.29 Aligned_cols=32 Identities=13% Similarity=0.261 Sum_probs=25.9
Q ss_pred EeeccCCceeeeeecCcccHHHHHHHHHHHhh
Q psy6854 5 HVKHGDASQFLYETSTSTSIQQLLEEILNIYN 36 (148)
Q Consensus 5 HVK~gde~qFLyEtt~~~~ve~li~~lv~I~N 36 (148)
-||.-....|-+|...+..|.+|...+.+..+
T Consensus 2 ~vk~~~g~~~~l~v~~~~tV~~lK~~I~~~~g 33 (74)
T cd01810 2 LVRNDKGRSSIYEVQLTQTVATLKQQVSQRER 33 (74)
T ss_pred EEECCCCCEEEEEECCcChHHHHHHHHHHHhC
Confidence 46766778999999999999999987766544
No 25
>PRK10061 DNA damage-inducible protein YebG; Provisional
Probab=27.44 E-value=1.1e+02 Score=22.76 Aligned_cols=31 Identities=23% Similarity=0.265 Sum_probs=25.4
Q ss_pred HHHHHHHHHHHHHHhcCCCCCCccCCCCHHHHHHhhc
Q psy6854 39 LKVYRVMAEMEELAKHGTFLPPDMLGLTDEQVEELKL 75 (148)
Q Consensus 39 lKi~rL~~e~eeLa~hG~~~Ppe~qGLtdeq~~el~l 75 (148)
=|+.-+.+.+.++..-.+. ||+|+|.|+|.+
T Consensus 29 DKMLD~Ad~L~~~L~~s~~------~ldE~q~E~L~l 59 (96)
T PRK10061 29 DKMLDTADLLDTWLTNSPV------QMEDEQREALSL 59 (96)
T ss_pred HHHHHHHHHHHHHHHhCCC------CCCHHHHHHHHH
Confidence 3678888888888776665 999999998885
No 26
>cd08048 TAF11 TATA Binding Protein (TBP) Associated Factor 11 (TAF11) is one of several TAFs that bind TBP and is involved in forming Transcription Factor IID (TFIID) complex. The TATA Binding Protein (TBP) Associated Factor 11 (TAF11) is one of several TAFs that bind TBP and are involved in forming the Transcription Factor IID (TFIID) complex. TFIID is one of seven General Transcription Factors (GTF) (TFIIA, TFIIB, TFIID, TFIIE, TFIIF, and TFIID) that are involved in accurate initiation of transcription by RNA polymerase II in eukaryotes. TFIID plays an important role in the recognition of promoter DNA and assembly of the pre-initiation complex. TFIID complex is composed of the TBP and at least 13 TAFs. TAFs from various species were originally named by their predicted molecular weight or their electrophoretic mobility in polyacrylamide gels. A new, unified nomenclature for the pol II TAFs has been suggested to show the relationship between TAF orthologs and paralogs. Several hypothes
Probab=27.28 E-value=1.7e+02 Score=20.87 Aligned_cols=45 Identities=11% Similarity=0.042 Sum_probs=30.9
Q ss_pred CCCCCChHHHHHHH--------HHHHHHHHhhhHHhhhhccccCHHHHHhhhc
Q psy6854 99 NGYQPPIKMQDLIK--------TTIEEVKNKISKTLVERNQCLTEAVVQEGKG 143 (148)
Q Consensus 99 ~G~ap~~~~~~vL~--------~t~~eAk~~isK~qv~~~~~lT~~~l~E~Ld 143 (148)
+|..|++++..+|. .-+++|..+-.+..-....+|..++|+||..
T Consensus 30 ~~~~v~~~v~i~v~glaKvFVGeivE~A~~V~~~~~~~~~~Pl~P~HireA~r 82 (85)
T cd08048 30 TGQSVSQNVVIAVAGIAKVFVGEIVEEARDVQEEWGEANTGPLQPRHLREAYR 82 (85)
T ss_pred cCCCCCchHHHHHHHHHHHHHHHHHHHHHHHHHHhccccCCCCCcHHHHHHHH
Confidence 45677777665553 4567777775444443478999999999864
No 27
>cd07357 HN_L-whirlin_R2_like Second harmonin_N_like domain (repeat 2) of the long isoform of whirlin, and related domains. This subgroup contains the second of two harmonin_N_like domains found in the long isoform of whirlin, and related domains. Whirlin is a postsynaptic density-95/discs-large/ZO-1 (PDZ) domain-containing scaffold protein which binds various components of the Usher protein network of the inner ear and the retina: erythrocyte protein p55, usherin, VlGR1, and myosin XVa. The long isoform of whirlin contains two harmonin_N_like domains, and three PDZ protein-binding domains, PDZ1-3. The short whirlin isoform, derived from an alternative start ATG, lacks the first harmonin_N_like domain but has in common with the long isoform, this second harmonin_N_like domain (designated repeat 2, included in this subgroup) and PDZ3. This second harmonin_N_like domain is a putative protein-binding module based on its sequence similarity to the harmonin N-domain.
Probab=27.22 E-value=1.1e+02 Score=22.23 Aligned_cols=33 Identities=21% Similarity=0.396 Sum_probs=28.1
Q ss_pred CcccHHHHHHHHHHHhhhHHHHHHHHHHHHHHHh
Q psy6854 20 TSTSIQQLLEEILNIYNGRLKVYRVMAEMEELAK 53 (148)
Q Consensus 20 ~~~~ve~li~~lv~I~N~RlKi~rL~~e~eeLa~ 53 (148)
...+||.++..|.++.|.--|+ .|.+|+++|..
T Consensus 34 ~~~tVealV~aL~elLnt~~K~-sLLsEiR~lI~ 66 (81)
T cd07357 34 GHISVDALVMALFELLNTHEKF-SLLSEIRELIS 66 (81)
T ss_pred CCCCHHHHHHHHHHHhccHHHH-HHHHHHHHhcC
Confidence 3568999999999999999996 57889998754
No 28
>PF08817 YukD: WXG100 protein secretion system (Wss), protein YukD; InterPro: IPR014921 YukD is a bacterial protein that adopts a ubiquitin-like fold []. Ubiquitin covalently binds to protein and flags them for protein degradation, however conjugation assays have indicated that YukD lacks the capacity for covalent bond formation with other proteins []. ; PDB: 2BPS_B.
Probab=27.05 E-value=1.2e+02 Score=20.58 Aligned_cols=34 Identities=15% Similarity=0.334 Sum_probs=25.1
Q ss_pred EEEeeccCCceeeeeecCcccHHHHHHHHHHHhh
Q psy6854 3 ILHVKHGDASQFLYETSTSTSIQQLLEEILNIYN 36 (148)
Q Consensus 3 llHVK~gde~qFLyEtt~~~~ve~li~~lv~I~N 36 (148)
.++|--++..++=..-+.+.++.+|+.+|++..|
T Consensus 4 rVtv~~~~~~~~Dl~lP~~vpv~~li~~l~~~~~ 37 (79)
T PF08817_consen 4 RVTVDAGNGRQVDLALPADVPVAELIPELVELLG 37 (79)
T ss_dssp EEEEE-TT--EEEEEEETTSBTTHHHHHHHHHS-
T ss_pred EEEEEcCCCcEEEEEcCCCCcHHHHHHHHHHHhC
Confidence 3444444458888999999999999999999999
No 29
>PF04880 NUDE_C: NUDE protein, C-terminal conserved region; InterPro: IPR006964 This domain represents the C-terminal conserved region of NUDE proteins. Emericella nidulans (Aspergillus nidulans) NUDE, acts in the cytoplasmic dynein/dynactin pathway and is required for distribution of nuclei []. It is a homologue of the nuclear distribution protein RO11 of Neurospora crassa. NUDE interacts with the NUDF via an N-terminal coiled coil domain; this is the only domain which is absolutely required for NUDE function.; PDB: 2V66_B 2V71_B.
Probab=26.33 E-value=40 Score=27.16 Aligned_cols=24 Identities=29% Similarity=0.290 Sum_probs=10.8
Q ss_pred HHHHHHhhhHHHHHHHHHHHHHHH
Q psy6854 29 EEILNIYNGRLKVYRVMAEMEELA 52 (148)
Q Consensus 29 ~~lv~I~N~RlKi~rL~~e~eeLa 52 (148)
.+|-+--|+|+.++||-+|+.||-
T Consensus 21 ~ELdEKE~L~~~~QRLkDE~RDLK 44 (166)
T PF04880_consen 21 SELDEKENLREEVQRLKDELRDLK 44 (166)
T ss_dssp HHHHHHHHHHHCH-----------
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Confidence 466778899999999999999984
No 30
>PF14142 YrzO: YrzO-like protein
Probab=26.07 E-value=1.6e+02 Score=19.06 Aligned_cols=23 Identities=26% Similarity=0.296 Sum_probs=16.8
Q ss_pred HHHHHHHHHh-hhHHHHHHHHHHH
Q psy6854 26 QLLEEILNIY-NGRLKVYRVMAEM 48 (148)
Q Consensus 26 ~li~~lv~I~-N~RlKi~rL~~e~ 48 (148)
-+..+|++|+ |||-+|..-..-+
T Consensus 12 gvacelaainrngrk~ikqqaeli 35 (46)
T PF14142_consen 12 GVACELAAINRNGRKKIKQQAELI 35 (46)
T ss_pred HHHHHHHHHhhhhHHHHHHHHHHH
Confidence 3567888886 9999998754433
No 31
>PF06819 Arc_PepC: Archaeal Peptidase A24 C-terminal Domain; InterPro: IPR009639 This region is of unknown function found at the C terminus of some archael proteins that have multiple transmembrane domains and are predicted to be aspartic peptidases belonging to the MEROPS peptidase subfamily A24A (type 4 prepilin peptidase 1.
Probab=26.05 E-value=1.1e+02 Score=23.35 Aligned_cols=17 Identities=41% Similarity=0.720 Sum_probs=14.2
Q ss_pred CCCccCCCCHHHHHHhh
Q psy6854 58 LPPDMLGLTDEQVEELK 74 (148)
Q Consensus 58 ~Ppe~qGLtdeq~~el~ 74 (148)
--|.=-|||+|||+.|+
T Consensus 80 ~~~~~EGLs~E~IE~Lk 96 (110)
T PF06819_consen 80 ISTDAEGLSKEDIEKLK 96 (110)
T ss_pred EeccccCCCHHHHHHHH
Confidence 34677899999999887
No 32
>cd01813 UBP_N UBP ubiquitin processing protease. The UBP (ubiquitin processing protease) domain (also referred to as USP which stands for "ubiquitin-specific protease") is present at in a large family of cysteine proteases that specifically cleave ubiquitin conjugates. This family includes Rpn11, UBP6 (USP14), USP7 (HAUSP). This domain is closely related to the amino-terminal ubiquitin-like domain of BAG1 (Bcl2-associated anthanogene1) protein and is found only in eukaryotes.
Probab=25.68 E-value=1.7e+02 Score=19.78 Aligned_cols=34 Identities=21% Similarity=0.257 Sum_probs=25.9
Q ss_pred eEEEeeccCCceeeeeecCcccHHHHHHHHHHHhh
Q psy6854 2 VILHVKHGDASQFLYETSTSTSIQQLLEEILNIYN 36 (148)
Q Consensus 2 VllHVK~gde~qFLyEtt~~~~ve~li~~lv~I~N 36 (148)
+.|+||.+- ..|-+|..-+..|.+|.+.|.+.-+
T Consensus 1 ~~i~vk~~g-~~~~v~v~~~~Tv~~lK~~i~~~tg 34 (74)
T cd01813 1 VPVIVKWGG-QEYSVTTLSEDTVLDLKQFIKTLTG 34 (74)
T ss_pred CEEEEEECC-EEEEEEECCCCCHHHHHHHHHHHHC
Confidence 468899765 3477899899999999887766544
No 33
>PF04036 DUF372: Domain of unknown function (DUF372); InterPro: IPR007179 This is a group of proteins of unknown function. It is found N-terminal to another domain of unknown function (IPR007181 from INTERPRO).; PDB: 2I52_B 2IEC_D 2OGF_C.
Probab=25.55 E-value=41 Score=21.19 Aligned_cols=20 Identities=20% Similarity=0.238 Sum_probs=15.9
Q ss_pred CCCCCChHHHHHHHHHHHHH
Q psy6854 99 NGYQPPIKMQDLIKTTIEEV 118 (148)
Q Consensus 99 ~G~ap~~~~~~vL~~t~~eA 118 (148)
.|.+.+++-++.|+++|++|
T Consensus 19 ~GtPvs~~~~~~le~aie~s 38 (38)
T PF04036_consen 19 VGTPVSPETAESLEKAIEES 38 (38)
T ss_dssp TT-EESTTTHHHHHHHHHHH
T ss_pred cCCcCCcchHHHHHHHHhcC
Confidence 46677888999999999876
No 34
>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=25.51 E-value=1.4e+02 Score=18.40 Aligned_cols=32 Identities=22% Similarity=0.211 Sum_probs=24.2
Q ss_pred EeeccCCceeeeeecCcccHHHHHHHHHHHhh
Q psy6854 5 HVKHGDASQFLYETSTSTSIQQLLEEILNIYN 36 (148)
Q Consensus 5 HVK~gde~qFLyEtt~~~~ve~li~~lv~I~N 36 (148)
|||..+..-|-++...+.++.+|...+....+
T Consensus 1 ~v~~~~~~~~~~~~~~~~ti~~lK~~i~~~~~ 32 (69)
T cd01769 1 TVKTLTGKTFELEVSPDDTVAELKAKIAAKEG 32 (69)
T ss_pred CeEccCCCEEEEEECCCChHHHHHHHHHHHHC
Confidence 56765666777888889999999888766543
No 35
>PHA02686 hypothetical protein; Provisional
Probab=25.49 E-value=1.3e+02 Score=23.71 Aligned_cols=29 Identities=21% Similarity=0.315 Sum_probs=26.0
Q ss_pred HHHHHHHhhhHHHHHHHHHHHHHHHhcCC
Q psy6854 28 LEEILNIYNGRLKVYRVMAEMEELAKHGT 56 (148)
Q Consensus 28 i~~lv~I~N~RlKi~rL~~e~eeLa~hG~ 56 (148)
++.++++||-+=|..+|.+-..++...|+
T Consensus 100 ~R~~~Rv~~N~KK~~~l~r~~k~~~drgi 128 (138)
T PHA02686 100 ARAALRVCRNREKVHRLARLLRDAESRGA 128 (138)
T ss_pred HHHHHHHHhhHHHHHHHHHHHHHHHHcCC
Confidence 67788999999999999999999988775
No 36
>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=25.33 E-value=1.9e+02 Score=18.48 Aligned_cols=33 Identities=9% Similarity=0.197 Sum_probs=25.7
Q ss_pred EEEeeccCCceeeeeecCcccHHHHHHHHHHHh
Q psy6854 3 ILHVKHGDASQFLYETSTSTSIQQLLEEILNIY 35 (148)
Q Consensus 3 llHVK~gde~qFLyEtt~~~~ve~li~~lv~I~ 35 (148)
.|.||.-+...|-++...+..|.+|...|....
T Consensus 2 ~i~v~~~~g~~~~~~v~~~~tv~~lK~~i~~~~ 34 (76)
T cd01806 2 LIKVKTLTGKEIEIDIEPTDKVERIKERVEEKE 34 (76)
T ss_pred EEEEEeCCCCEEEEEECCCCCHHHHHHHHhHhh
Confidence 467886555678889999999999998776643
No 37
>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=25.33 E-value=1.8e+02 Score=19.55 Aligned_cols=34 Identities=12% Similarity=0.227 Sum_probs=27.1
Q ss_pred eEEEeeccCCceeeeeecCcccHHHHHHHHHHHh
Q psy6854 2 VILHVKHGDASQFLYETSTSTSIQQLLEEILNIY 35 (148)
Q Consensus 2 VllHVK~gde~qFLyEtt~~~~ve~li~~lv~I~ 35 (148)
..|.||.-....|-+|.+-+..|.+|...+.+-.
T Consensus 2 m~I~Vk~~~G~~~~l~v~~~~TV~~LK~~I~~~~ 35 (78)
T cd01804 2 MNLNIHSTTGTRFDLSVPPDETVEGLKKRISQRL 35 (78)
T ss_pred eEEEEEECCCCEEEEEECCcCHHHHHHHHHHHHh
Confidence 3688896555679999999999999998876554
No 38
>PF14728 PHTB1_C: PTHB1 C-terminus
Probab=25.05 E-value=2.1e+02 Score=25.69 Aligned_cols=45 Identities=22% Similarity=0.275 Sum_probs=39.7
Q ss_pred cCCceeeeeecCcccHHHHHHHHHHHhhhHHHHHHHHHHHHHHHh
Q psy6854 9 GDASQFLYETSTSTSIQQLLEEILNIYNGRLKVYRVMAEMEELAK 53 (148)
Q Consensus 9 gde~qFLyEtt~~~~ve~li~~lv~I~N~RlKi~rL~~e~eeLa~ 53 (148)
|..+.|=+.-+-..|+++..+.|=..|+.|.++..+-.++.++|.
T Consensus 184 ~~~~~~~~~~~~~lPl~~~~~~id~H~~lr~~~~~~~~~L~~~a~ 228 (377)
T PF14728_consen 184 GVKDRFKISFSGPLPLQEYFEIIDQHFELRQELKELEEELDERAQ 228 (377)
T ss_pred CcccceEEecCCCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344568888888899999999999999999999999999999875
No 39
>PF02260 FATC: FATC domain; InterPro: IPR003152 The FATC domain is found at the C-terminal end of the PIK-related kinases. Members of the family of PIK-related kinases may act as intracellular sensors that govern radial and horizontal pathways [].; GO: 0005515 protein binding; PDB: 2KIT_A 1W1N_A 2KIO_A.
Probab=24.16 E-value=68 Score=19.05 Aligned_cols=19 Identities=21% Similarity=0.232 Sum_probs=15.6
Q ss_pred cCcccHHHHHHHHHHHhhh
Q psy6854 19 STSTSIQQLLEEILNIYNG 37 (148)
Q Consensus 19 t~~~~ve~li~~lv~I~N~ 37 (148)
+++..|++||++-+..+|+
T Consensus 4 sv~~qV~~LI~~At~~~nL 22 (33)
T PF02260_consen 4 SVEQQVDELISEATDPENL 22 (33)
T ss_dssp -STHHHHHHHHHHHHHHHH
T ss_pred CHHHHHHHHHHHHcCHHHH
Confidence 6778899999999888886
No 40
>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=24.08 E-value=1.9e+02 Score=18.80 Aligned_cols=34 Identities=15% Similarity=0.231 Sum_probs=26.4
Q ss_pred eEEEeeccCCceeeeeecCcccHHHHHHHHHHHhh
Q psy6854 2 VILHVKHGDASQFLYETSTSTSIQQLLEEILNIYN 36 (148)
Q Consensus 2 VllHVK~gde~qFLyEtt~~~~ve~li~~lv~I~N 36 (148)
|.|.||.... .|.+|..-+..|.+|...+.+..+
T Consensus 1 ~~i~vk~~~g-~~~l~v~~~~TV~~lK~~I~~~~~ 34 (71)
T cd01808 1 IKVTVKTPKD-KEEIEIAEDASVKDFKEAVSKKFK 34 (71)
T ss_pred CEEEEEcCCC-CEEEEECCCChHHHHHHHHHHHhC
Confidence 4588885544 478999999999999998877653
No 41
>PLN00204 CP12 gene family protein; Provisional
Probab=23.56 E-value=65 Score=25.14 Aligned_cols=45 Identities=18% Similarity=0.227 Sum_probs=31.0
Q ss_pred hhcccccC-CcCCCCCCccCCCCCCCCCCCCCChHHHHHHHHHHHHHHHhhh
Q psy6854 73 LKLRDDQG-ERCKPSGYIENKDPIGRRNGYQPPIKMQDLIKTTIEEVKNKIS 123 (148)
Q Consensus 73 l~l~d~w~-~~c~p~G~~~~kD~~grR~G~ap~~~~~~vL~~t~~eAk~~is 123 (148)
++|...|. +.|.-+| -+..|--.|-++...+.+.+++.+|+++-+
T Consensus 28 ~~l~~~~~~~~~~~~~------~~~~~~v~a~~~~L~e~Ie~aI~eArevCa 73 (126)
T PLN00204 28 VKLNNPWKRGSRLGSG------RMQVRPVRAAPEGISEKVEKSIKEAEETCA 73 (126)
T ss_pred eeccCcccccccccCC------ceEEEeeecCCccHHHHHHHHHHHHHHHHh
Confidence 67877775 2233222 333444557778899999999999999855
No 42
>PLN02198 glutathione gamma-glutamylcysteinyltransferase
Probab=23.27 E-value=2.5e+02 Score=26.48 Aligned_cols=103 Identities=12% Similarity=0.041 Sum_probs=61.1
Q ss_pred HHHHhhhHHHHHHHHHHHHHHHhcCCCCCCccCCCCHHHHHHhhcccccCCcCCCCCCccCCCCCCCCCCCCC-ChHHHH
Q psy6854 31 ILNIYNGRLKVYRVMAEMEELAKHGTFLPPDMLGLTDEQVEELKLRDDQGERCKPSGYIENKDPIGRRNGYQP-PIKMQD 109 (148)
Q Consensus 31 lv~I~N~RlKi~rL~~e~eeLa~hG~~~Ppe~qGLtdeq~~el~l~d~w~~~c~p~G~~~~kD~~grR~G~ap-~~~~~~ 109 (148)
+-+-| |+|....|+....+||+.|....+.+..--......+.-...| ..+|.+|-.-.+.|.-- +++.++
T Consensus 137 ~~~~~-G~L~w~~ll~PAI~lAr~Gf~v~~~la~~l~~~~~~l~~~p~~-------~~~f~~~G~~~~~Gd~l~~p~LA~ 208 (573)
T PLN02198 137 AWKQH-GKLPWKRLVRPAEKLAAEGFKISKYLYMQMNATRSDILADKGL-------SDLFVSNGELKKPGTICHNPKLAL 208 (573)
T ss_pred HHHHH-CCCCHHHHHHHHHHHHHcCCccCHHHHHHHHHHHHHHhcChhH-------HHHcCcCCCcCCCCCeecCHHHHH
Confidence 44455 7999999999999999999777665322111111122211111 34566554444555533 679999
Q ss_pred HHHHHHHHHHH---------hhhHHhhhhccccCHHHHHhh
Q psy6854 110 LIKTTIEEVKN---------KISKTLVERNQCLTEAVVQEG 141 (148)
Q Consensus 110 vL~~t~~eAk~---------~isK~qv~~~~~lT~~~l~E~ 141 (148)
+|++-+++... .|.+..-...-.||.+.+.+.
T Consensus 209 TL~~iA~~G~~~FY~G~iA~~iv~~~~~~GG~lt~~DL~~y 249 (573)
T PLN02198 209 TLRLIGEYGPKAFYNGTVGVNLVRDIQKSGGIITLKDLQSY 249 (573)
T ss_pred HHHHHHHhCcccccCCHHHHHHHHHHHHcCCCCCHHHHhhC
Confidence 99998875321 223333345667888777653
No 43
>PF14807 AP4E_app_platf: Adaptin AP4 complex epsilon appendage platform
Probab=22.87 E-value=1.8e+02 Score=21.56 Aligned_cols=35 Identities=20% Similarity=0.277 Sum_probs=29.1
Q ss_pred eEEEee-ccCCceeeeeecCcccHHHHHHHHHHHhh
Q psy6854 2 VILHVK-HGDASQFLYETSTSTSIQQLLEEILNIYN 36 (148)
Q Consensus 2 VllHVK-~gde~qFLyEtt~~~~ve~li~~lv~I~N 36 (148)
+++|+| .+.---+-+=++...--|-|.+.+.+++|
T Consensus 69 ~L~H~~~~~~~l~l~vrs~~~~l~d~ll~~~~~~~~ 104 (104)
T PF14807_consen 69 CLLHCRVNAGTLDLWVRSSDSPLTDCLLYQCQKILQ 104 (104)
T ss_pred EEEEEEecCCeEEEEEEcCCCCcHHHHHHHHHHHhC
Confidence 799999 44567777888888889999999888876
No 44
>cd07981 TAF12 TATA Binding Protein (TBP) Associated Factor 12 (TAF12) is one of several TAFs that bind TBP and is involved in forming Transcription Factor IID (TFIID) complex. The TATA Binding Protein (TBP) Associated Factor 12 (TAF12) is one of several TAFs that bind TBP and are involved in forming the TFIID complex. TFIID is one of the seven General Transcription Factors (GTFs) (TFIIA, TFIIB, TFIID, TFIIE, TFIIF, and TFIID) that are involved in accurate initiation of transcription by RNA polymerase II in eukaryotes. TFIID plays an important role in the recognition of promoter DNA and assembly of the pre-initiation complex. TFIID complex is composed of the TBP and at least 13 TAFs. TAFs are named after their electrophoretic mobility in polyacrylamide gels in different species. A new, unified nomenclature has been suggested for the pol II TAFs to show the relationship between TAF orthologs and paralogs. Several hypotheses are proposed for TAFs function such as serving as activator-bind
Probab=22.86 E-value=1.6e+02 Score=19.97 Aligned_cols=51 Identities=27% Similarity=0.332 Sum_probs=35.8
Q ss_pred ecCcccHHHHHHHHHHHhhhHHHHHHHHHHHHHHHhcCCCCCCccCCCCHHHHHHhhccccc
Q psy6854 18 TSTSTSIQQLLEEILNIYNGRLKVYRVMAEMEELAKHGTFLPPDMLGLTDEQVEELKLRDDQ 79 (148)
Q Consensus 18 tt~~~~ve~li~~lv~I~N~RlKi~rL~~e~eeLa~hG~~~Ppe~qGLtdeq~~el~l~d~w 79 (148)
..++..+.+++.+++.-| +..++...-.||+|-=... ++.+.+ ++.+.-.|
T Consensus 18 ~~~~~da~~~l~~~~e~f-----v~~v~~~a~~lAkHr~~~t-----v~~~Di-~l~l~r~~ 68 (72)
T cd07981 18 EQLDPDVEELLLEIADDF-----VDDVVEDACRLAKHRKSDT-----LEVKDV-QLHLERNW 68 (72)
T ss_pred CCcCHHHHHHHHHHHHHH-----HHHHHHHHHHHHHHcCCCC-----CCHHHH-HHHHHHhc
Confidence 456777888888888776 8899999999999975554 333333 45555544
No 45
>KOG4300|consensus
Probab=22.45 E-value=60 Score=27.94 Aligned_cols=27 Identities=26% Similarity=0.421 Sum_probs=24.6
Q ss_pred CCCCCCCCCCCChHHHHHHHHHHHHHH
Q psy6854 93 DPIGRRNGYQPPIKMQDLIKTTIEEVK 119 (148)
Q Consensus 93 D~~grR~G~ap~~~~~~vL~~t~~eAk 119 (148)
-|+++=|+.-|+|+|.+.+.+.+.++|
T Consensus 97 ~p~~svt~lDpn~~mee~~~ks~~E~k 123 (252)
T KOG4300|consen 97 KPINSVTCLDPNEKMEEIADKSAAEKK 123 (252)
T ss_pred CCCceEEEeCCcHHHHHHHHHHHhhcc
Confidence 489999999999999999999998884
No 46
>PF00794 PI3K_rbd: PI3-kinase family, ras-binding domain; InterPro: IPR000341 Phosphatidylinositol 3-kinase (PI3K) (2.7.1.137 from EC) is an enzyme that phosphorylates phosphoinositides on the 3-hydroxyl group of the inositol ring. A subset of PI3Ks has the capacity to bind and be activated by the GTP-bound small GTPase p21Ras (Ras). PI3Ks are recognised as one of the principal effectors of Ras signalling to the cell-cycle control machinery. In the structure of the Ras-PI3K gamma complex, contacts between the two molecules are made primarily via the so-called switch I region of Ras and the PI3K RBD. The RBD fold comprises a five-stranded mixed beta-sheet, flanked by two alpha-helices. Interaction between Ras and the PI3K RBD is primarily polar in character and, as characterised by kinetic measurements, is reversible and transient [].; GO: 0016303 1-phosphatidylinositol-3-kinase activity, 0005942 phosphatidylinositol 3-kinase complex; PDB: 2RD0_A 3HIZ_A 3HHM_A 1E8W_A 1E8X_A 1E7V_A 1E90_A 1E7U_A 2Y3A_A 3L54_A ....
Probab=22.43 E-value=2.1e+02 Score=20.31 Aligned_cols=31 Identities=13% Similarity=0.381 Sum_probs=24.1
Q ss_pred EEee-ccCCceeeeeecCcccHHHHHHHHHHH
Q psy6854 4 LHVK-HGDASQFLYETSTSTSIQQLLEEILNI 34 (148)
Q Consensus 4 lHVK-~gde~qFLyEtt~~~~ve~li~~lv~I 34 (148)
+.|. .++...|-|.+.++..+++|+.++++-
T Consensus 19 v~v~~~~~~~~~t~~~~~~~t~~~li~~~l~k 50 (106)
T PF00794_consen 19 VSVHFENSQQSFTFQVDPNSTPEELIAQALKK 50 (106)
T ss_dssp EEEEETTCSEEEEEEEETTS-HHHHHHHHHHH
T ss_pred EEEEEcCCCcEEEEEECCCCCHHHHHHHHHHH
Confidence 3444 357899999999999999999987665
No 47
>PF07130 YebG: YebG protein; InterPro: IPR009813 This family consists of several bacterial YebG proteins of around 75 residues in length. The exact function of this protein is unknown but it is thought to be involved in the SOS response. The induction of the yebG gene occurs as cell enter into the stationary growth phase and is dependent on is dependent on cyclic AMP and H-NS [].; PDB: 3ERM_E.
Probab=22.40 E-value=1.1e+02 Score=21.78 Aligned_cols=31 Identities=26% Similarity=0.475 Sum_probs=22.9
Q ss_pred HHHHHHHHHHHHHHhcCCCCCCccCCCCHHHHHHhhc
Q psy6854 39 LKVYRVMAEMEELAKHGTFLPPDMLGLTDEQVEELKL 75 (148)
Q Consensus 39 lKi~rL~~e~eeLa~hG~~~Ppe~qGLtdeq~~el~l 75 (148)
=|+.-+++.+.++....+. ||++.|.|+|.+
T Consensus 29 DKmLd~Ad~L~~~L~~~~~------~lde~~~E~l~l 59 (75)
T PF07130_consen 29 DKMLDLADNLTDFLEQSVL------GLDEAQAEELAL 59 (75)
T ss_dssp HHHHHHHHHHHHHHHHHST------T--HHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHhCCC------CCCHHHHHHHHH
Confidence 3677888888888776554 999999999886
No 48
>PHA02609 uvsW.1 hypothetical protein; Provisional
Probab=22.39 E-value=23 Score=25.31 Aligned_cols=31 Identities=32% Similarity=0.538 Sum_probs=20.2
Q ss_pred ceeeeeecCcccHH--------HHHHHHHHHhhhHHHHH
Q psy6854 12 SQFLYETSTSTSIQ--------QLLEEILNIYNGRLKVY 42 (148)
Q Consensus 12 ~qFLyEtt~~~~ve--------~li~~lv~I~N~RlKi~ 42 (148)
.|||||++++.=.. +=+.+|=..||.|.|=.
T Consensus 5 ~~fl~EA~Id~Fm~KiasC~T~eGl~ELEkyY~kR~KE~ 43 (76)
T PHA02609 5 KEFLYEAAIDSFMSKIASCQTLEGLEELEKYYKKRVKEV 43 (76)
T ss_pred HHHHHHHHHHHHHHHHhccchhhhHHHHHHHHHHHHHhh
Confidence 58999987654333 33567777788777643
No 49
>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=21.95 E-value=1.5e+02 Score=16.20 Aligned_cols=27 Identities=15% Similarity=0.215 Sum_probs=21.5
Q ss_pred CCceeeeeecCcccHHHHHHHHHHHhh
Q psy6854 10 DASQFLYETSTSTSIQQLLEEILNIYN 36 (148)
Q Consensus 10 de~qFLyEtt~~~~ve~li~~lv~I~N 36 (148)
+...+-+..+.+.++.+|+..+.+.++
T Consensus 6 ~~~~~~~~~~~~~tv~~l~~~i~~~~~ 32 (69)
T cd00196 6 DGKTVELLVPSGTTVADLKEKLAKKLG 32 (69)
T ss_pred CCCEEEEEcCCCCcHHHHHHHHHHHHC
Confidence 455666777778999999999988875
No 50
>PF04155 Ground-like: Ground-like domain; InterPro: IPR007284 This group of proteins contain one or more copies of the ground-like domain, which are specific to Caenorhabditis elegans and Caenorhabditis briggsae. It has been proposed that the ground-like domain containing proteins may bind and modulate the activity of Patched-like membrane molecules, reminiscent of the modulating activities of neuropeptides [].
Probab=21.84 E-value=94 Score=21.08 Aligned_cols=20 Identities=15% Similarity=0.340 Sum_probs=14.7
Q ss_pred CCCCCC-ChHHHHHHHHHHHH
Q psy6854 98 RNGYQP-PIKMQDLIKTTIEE 117 (148)
Q Consensus 98 R~G~ap-~~~~~~vL~~t~~e 117 (148)
|.|..+ ++.++++|.+++.+
T Consensus 1 ~~~~~Cn~~~L~~ii~~~~~~ 21 (76)
T PF04155_consen 1 RDDNKCNSEELRKIILKNMKE 21 (76)
T ss_pred CCCCccCCHHHHHHHHHHhcc
Confidence 334444 77999999999984
No 51
>KOG2740|consensus
Probab=21.69 E-value=1.3e+02 Score=27.63 Aligned_cols=42 Identities=12% Similarity=0.241 Sum_probs=34.8
Q ss_pred HHHHHHHHHHHHHHHhh---hHHhhhhccccCHHHHHhhhcCCCC
Q psy6854 106 KMQDLIKTTIEEVKNKI---SKTLVERNQCLTEAVVQEGKGFGFD 147 (148)
Q Consensus 106 ~~~~vL~~t~~eAk~~i---sK~qv~~~~~lT~~~l~E~Ld~~~~ 147 (148)
-.-+.|.|.+.--+.+. |-+.+..|+++-.+-+.|.|||||-
T Consensus 79 ~~iefL~rv~dv~~eyFg~~s~~~Ik~N~~vv~ell~emiDnGfp 123 (418)
T KOG2740|consen 79 MVIEFLHRVVDVLLEYFGGLSESKIKDNVVVVYELLDEMIDNGFP 123 (418)
T ss_pred hHHHHHHHHHHHHHHHhcccCHhHhhcceeeHHHHHHHHHHcCCC
Confidence 45567777776666665 8889999999999999999999993
No 52
>PLN02180 gamma-glutamyl transpeptidase 4
Probab=21.46 E-value=1.7e+02 Score=28.13 Aligned_cols=103 Identities=15% Similarity=0.117 Sum_probs=61.6
Q ss_pred HHHHhhhHHHHHHHHHHHHHHHhcCCCCCCccCCCCHHHHHHhhcccccCCcCCCCCCccCCCCCCCCCCCCC-ChHHHH
Q psy6854 31 ILNIYNGRLKVYRVMAEMEELAKHGTFLPPDMLGLTDEQVEELKLRDDQGERCKPSGYIENKDPIGRRNGYQP-PIKMQD 109 (148)
Q Consensus 31 lv~I~N~RlKi~rL~~e~eeLa~hG~~~Ppe~qGLtdeq~~el~l~d~w~~~c~p~G~~~~kD~~grR~G~ap-~~~~~~ 109 (148)
+-+=| |+|....|.....+||+.|....+.+.-.-......+...++| ..+|.+|-.-.|-|.-. +++.++
T Consensus 187 ah~ry-GkLpwa~Ll~PAI~lAr~GfpVs~~la~~l~~~~~~l~~~p~~-------~~~f~~~G~~~~~Gd~l~qp~LA~ 258 (639)
T PLN02180 187 AWKRY-GRLPWKPLFEPAIELARDGFVVHPYLGKAISSHAAMILKDPGL-------RSVFSRNGQVLKPGETCYNPELAQ 258 (639)
T ss_pred HHHHH-CCCCHHHHHHHHHHHHhcCcccCHHHHHHHHHHHHHHhcChhH-------HHHhCcCCccCCCCCeeccHHHHH
Confidence 33444 6999999999999999999777665322111111122211111 34455553334555533 579999
Q ss_pred HHHHHHHHH---------HHhhhHHhhhhccccCHHHHHhh
Q psy6854 110 LIKTTIEEV---------KNKISKTLVERNQCLTEAVVQEG 141 (148)
Q Consensus 110 vL~~t~~eA---------k~~isK~qv~~~~~lT~~~l~E~ 141 (148)
+|+.-+++. -+.|.+.....+-.||.+.+...
T Consensus 259 TLe~IA~~G~d~FY~G~iA~~iv~~~~~~GG~lT~eDLa~Y 299 (639)
T PLN02180 259 SLETISEQGPGAFYNGTIGEKLVKDVKKAGGIITMDDLRSY 299 (639)
T ss_pred HHHHHHHhCcccccCCHHHHHHHHHHHHcCCCCCHHHHHhC
Confidence 999988652 22334444456777888877653
No 53
>PF10752 DUF2533: Protein of unknown function (DUF2533) ; InterPro: IPR019688 This entry represents proteins with unknown function, and appear to be restricted to Bacillus spp.
Probab=21.02 E-value=1.2e+02 Score=22.10 Aligned_cols=25 Identities=16% Similarity=0.179 Sum_probs=19.1
Q ss_pred HHhhhHHhhhhccccCHHHHHhhhc
Q psy6854 119 KNKISKTLVERNQCLTEAVVQEGKG 143 (148)
Q Consensus 119 k~~isK~qv~~~~~lT~~~l~E~Ld 143 (148)
.++.-+-.|-.++++|.+||+|...
T Consensus 58 N~LAk~givP~Rk~VT~eMV~EYv~ 82 (84)
T PF10752_consen 58 NELAKQGIVPTRKYVTVEMVKEYVS 82 (84)
T ss_pred HHHHHcCCCCcchhccHHHHHHHHh
Confidence 3444445788899999999999764
No 54
>TIGR01000 bacteriocin_acc bacteriocin secretion accessory protein. This family represents an accessory protein that works with the bacteriocin maturation and ABC transport secretion protein described by TIGR01193.
Probab=20.95 E-value=3.6e+02 Score=24.02 Aligned_cols=58 Identities=10% Similarity=-0.002 Sum_probs=45.6
Q ss_pred EEeeccC---CceeeeeecCcccHHHHHHHHHHHhhhHHHHHHHHHHHHHHHhcCCCCCCc
Q psy6854 4 LHVKHGD---ASQFLYETSTSTSIQQLLEEILNIYNGRLKVYRVMAEMEELAKHGTFLPPD 61 (148)
Q Consensus 4 lHVK~gd---e~qFLyEtt~~~~ve~li~~lv~I~N~RlKi~rL~~e~eeLa~hG~~~Ppe 61 (148)
||||-|| ..|-|+.-.-...-.++..--.++...+.++.||-.+...+....+..|++
T Consensus 73 i~V~eG~~V~~G~~L~~ld~~~~~~~~~~~~~~~~~~~~~~~rL~a~~~~~~~~~~~f~~~ 133 (457)
T TIGR01000 73 NYLKENKFVKKGDLLVVYDNGNEENQKQLLEQQLDNLKDQKKSLDTLKQSIENGRNQFPTD 133 (457)
T ss_pred EEcCCCCEecCCCEEEEECchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcCCCC
Confidence 7888886 688888887777777777766788888899999988887776666667765
No 55
>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=20.92 E-value=1.9e+02 Score=19.31 Aligned_cols=32 Identities=16% Similarity=0.223 Sum_probs=24.4
Q ss_pred EEeeccCCceeeeeecCcccHHHHHHHHHHHh
Q psy6854 4 LHVKHGDASQFLYETSTSTSIQQLLEEILNIY 35 (148)
Q Consensus 4 lHVK~gde~qFLyEtt~~~~ve~li~~lv~I~ 35 (148)
|.||-.....|-+|..-+..|.+|.+.+.+-.
T Consensus 1 ~~vk~~~G~~~~l~v~~~~TV~~lK~~I~~~~ 32 (70)
T cd01794 1 LKVRLSTGKDVKLSVSSKDTVGQLKKQLQAAE 32 (70)
T ss_pred CeEEcCCCCEEEEEECCcChHHHHHHHHHHHh
Confidence 35665566889999999999999887665543
No 56
>PF01536 SAM_decarbox: Adenosylmethionine decarboxylase; InterPro: IPR001985 S-adenosylmethionine decarboxylase (AdoMetDC) [] catalyzes the removal of the carboxylate group of S-adenosylmethionine to form S-adenosyl-5'-3-methylpropylamine which then acts as the n-propylamine group donor in the synthesis of the polyamines spermidine and spermine from putrescine. The catalytic mechanism of AdoMetDC involves a covalently-bound pyruvoyl group. This group is post-translationally generated by a self-catalyzed intramolecular proteolytic cleavage reaction between a glutamate and a serine. This cleavage generates two chains, beta (N-terminal) and alpha (C-terminal). The N-terminal serine residue of the alpha chain is then converted by nonhydrolytic serinolysis into a pyruvyol group.; GO: 0004014 adenosylmethionine decarboxylase activity, 0006597 spermine biosynthetic process, 0008295 spermidine biosynthetic process; PDB: 3EP7_A 3EPA_B 3DZ5_A 3DZ2_B 3EPB_B 3DZ7_A 3EP6_A 3EP4_A 1JEN_A 3H0V_B ....
Probab=20.69 E-value=1.3e+02 Score=26.65 Aligned_cols=34 Identities=29% Similarity=0.577 Sum_probs=23.2
Q ss_pred EEEeeccCCceee-eeec---Cc-ccHHHHHHHHHHHhh
Q psy6854 3 ILHVKHGDASQFL-YETS---TS-TSIQQLLEEILNIYN 36 (148)
Q Consensus 3 llHVK~gde~qFL-yEtt---~~-~~ve~li~~lv~I~N 36 (148)
-|||-..+..-|. |||+ .. ....+|++.+++|++
T Consensus 237 TIHVTPE~~~SYaSFEtn~~~~~~~~~~~li~~vl~~F~ 275 (331)
T PF01536_consen 237 TIHVTPEEGFSYASFETNVYDFSQESYDDLIRKVLNIFK 275 (331)
T ss_dssp EEEEE--TTS-EEEEEEES--TTTS-CHHHHHHHHHHH-
T ss_pred EEEECCCCCceEEEEEeccCCcCcCCHHHHHHHHHheeC
Confidence 4899988876554 9999 43 467899999999876
No 57
>COG2231 Uncharacterized protein related to Endonuclease III [DNA replication, recombination, and repair]
Probab=20.58 E-value=96 Score=26.21 Aligned_cols=52 Identities=27% Similarity=0.406 Sum_probs=38.0
Q ss_pred HHHHHHHHhhhHHHHHHHHHHHHHHHhcCCCCCCccCCCCHHHHHHhhcccccCCcCCCCCCc
Q psy6854 27 LLEEILNIYNGRLKVYRVMAEMEELAKHGTFLPPDMLGLTDEQVEELKLRDDQGERCKPSGYI 89 (148)
Q Consensus 27 li~~lv~I~N~RlKi~rL~~e~eeLa~hG~~~Ppe~qGLtdeq~~el~l~d~w~~~c~p~G~~ 89 (148)
++---|=+-|.+-| ..-.+++.|+.||.+.|..+--++.++.+++=- |+||.
T Consensus 33 iiigAILtQNT~Wk--nvekAlenLk~~~~~~l~~I~~~~~~~L~elIr---------psGFY 84 (215)
T COG2231 33 IIIGAILTQNTSWK--NVEKALENLKNEGILNLKKILKLDEEELAELIR---------PSGFY 84 (215)
T ss_pred HHHHHHHhccccHH--HHHHHHHHHHHcccCCHHHHhcCCHHHHHHHHh---------ccchH
Confidence 33334444555544 466899999999999999999999988876443 67874
No 58
>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=20.45 E-value=2.5e+02 Score=20.32 Aligned_cols=34 Identities=12% Similarity=0.114 Sum_probs=27.1
Q ss_pred EEEeeccCCceeeeeecCcccHHHHHHHHHHHhh
Q psy6854 3 ILHVKHGDASQFLYETSTSTSIQQLLEEILNIYN 36 (148)
Q Consensus 3 llHVK~gde~qFLyEtt~~~~ve~li~~lv~I~N 36 (148)
.|.||--...+|-+|..-+..|.+|...|....+
T Consensus 29 ~I~Vk~l~G~~~~leV~~~~TV~~lK~kI~~~~g 62 (103)
T cd01802 29 ELFIETLTGTCFELRVSPFETVISVKAKIQRLEG 62 (103)
T ss_pred EEEEEcCCCCEEEEEeCCCCcHHHHHHHHHHHhC
Confidence 4667766677899999999999999988766543
Done!