Query psy17613
Match_columns 287
No_of_seqs 204 out of 1078
Neff 7.1
Searched_HMMs 46136
Date Fri Aug 16 18:33:52 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy17613.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/17613hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG1944|consensus 100.0 3E-37 6.5E-42 274.0 13.5 166 98-267 46-215 (222)
2 KOG2758|consensus 100.0 2E-29 4.4E-34 228.9 5.2 123 1-123 70-212 (432)
3 PF04117 Mpv17_PMP22: Mpv17 / 99.9 3.1E-22 6.7E-27 146.1 5.1 66 200-265 1-68 (68)
4 PF09440 eIF3_N: eIF3 subunit 99.7 1.9E-17 4E-22 135.8 6.0 62 1-64 66-133 (133)
5 PF03962 Mnd1: Mnd1 family; I 63.6 24 0.00051 30.7 6.3 54 4-57 103-173 (188)
6 smart00742 Hr1 Rho effector or 56.4 28 0.00061 23.9 4.5 38 15-52 15-54 (57)
7 PF07862 Nif11: Nitrogen fixat 48.2 56 0.0012 21.5 4.8 29 27-56 14-42 (49)
8 PF14193 DUF4315: Domain of un 46.9 60 0.0013 24.5 5.2 45 3-51 14-59 (83)
9 COG1762 PtsN Phosphotransferas 46.6 34 0.00074 28.0 4.4 35 18-52 115-149 (152)
10 PRK10372 PTS system L-ascorbat 45.7 38 0.00082 27.9 4.5 32 20-51 118-149 (154)
11 COG4750 LicC CTP:phosphocholin 42.4 24 0.00053 31.1 2.8 37 21-57 23-71 (231)
12 COG3461 Uncharacterized conser 36.0 1.4E+02 0.0031 22.9 5.7 50 2-51 12-72 (103)
13 PRK11352 regulator protein Frm 35.0 84 0.0018 24.0 4.5 38 3-40 5-46 (91)
14 KOG0930|consensus 31.8 66 0.0014 30.0 4.0 28 2-29 22-49 (395)
15 PF00359 PTS_EIIA_2: Phosphoen 30.5 66 0.0014 25.6 3.6 33 19-51 111-143 (144)
16 PF02583 Trns_repr_metal: Meta 29.1 1.9E+02 0.004 21.6 5.5 37 4-40 2-42 (85)
17 PF10458 Val_tRNA-synt_C: Valy 28.7 1.2E+02 0.0026 21.3 4.3 34 2-35 2-35 (66)
18 PF06563 DUF1125: Protein of u 27.8 22 0.00047 24.3 0.2 17 61-77 12-32 (55)
19 PRK09854 cmtB putative PTS sys 27.6 70 0.0015 25.9 3.3 34 18-51 113-146 (147)
20 PRK09913 putative fructose-lik 27.6 83 0.0018 25.4 3.7 34 18-52 112-145 (148)
21 PF10224 DUF2205: Predicted co 25.8 2.4E+02 0.0051 21.1 5.4 45 4-50 16-61 (80)
22 TIGR03798 ocin_TIGR03798 bacte 25.8 1.1E+02 0.0023 21.5 3.5 31 25-56 10-40 (64)
23 KOG1268|consensus 25.6 57 0.0012 33.0 2.7 25 2-26 488-512 (670)
24 TIGR02132 phaR_Bmeg polyhydrox 24.6 1.8E+02 0.004 25.2 5.2 41 7-49 117-166 (189)
25 PF13524 Glyco_trans_1_2: Glyc 24.6 1.3E+02 0.0028 21.8 4.0 35 16-55 49-83 (92)
26 PF11180 DUF2968: Protein of u 24.3 58 0.0013 28.4 2.2 46 43-96 28-92 (192)
27 TIGR02230 ATPase_gene1 F0F1-AT 24.1 1E+02 0.0022 24.1 3.4 34 140-173 39-74 (100)
28 PF11014 DUF2852: Protein of u 23.4 1.2E+02 0.0026 24.3 3.7 43 3-54 73-115 (115)
29 PF07849 DUF1641: Protein of u 23.3 62 0.0013 21.0 1.7 17 22-38 15-31 (42)
30 PRK15039 transcriptional repre 22.6 1.8E+02 0.0039 22.2 4.4 38 4-41 6-47 (90)
31 PF13318 DUF4089: Protein of u 22.4 1.4E+02 0.003 20.2 3.3 24 3-26 15-38 (50)
32 PF02344 Myc-LZ: Myc leucine z 22.2 1.1E+02 0.0024 18.8 2.4 18 3-20 14-31 (32)
33 PF12552 DUF3741: Protein of u 22.0 87 0.0019 20.9 2.2 25 7-31 21-45 (46)
34 TIGR01419 nitro_reg_IIA PTS II 21.8 1.7E+02 0.0036 23.4 4.5 31 19-50 114-144 (145)
35 PF11872 DUF3392: Protein of u 21.5 2.3E+02 0.005 22.3 4.9 49 101-156 15-67 (106)
36 PF09551 Spore_II_R: Stage II 21.4 1E+02 0.0022 25.2 3.0 30 58-87 86-115 (130)
37 TIGR02163 napH_ ferredoxin-typ 21.3 1.5E+02 0.0033 26.7 4.5 67 140-206 4-79 (255)
38 KOG0860|consensus 21.2 1.4E+02 0.0031 23.9 3.7 36 11-51 29-64 (116)
39 PRK09665 PTS system galactitol 20.5 1.8E+02 0.0038 23.8 4.4 32 19-51 112-143 (150)
40 PRK13779 bifunctional PTS syst 20.4 99 0.0022 31.1 3.3 33 21-53 111-143 (503)
41 PF08988 DUF1895: Protein of u 20.3 3.4E+02 0.0074 19.6 6.2 49 5-53 15-67 (68)
No 1
>KOG1944|consensus
Probab=100.00 E-value=3e-37 Score=274.02 Aligned_cols=166 Identities=33% Similarity=0.556 Sum_probs=155.9
Q ss_pred hhcCchhhHhHhhhHHH-hHHHHHHHhhhcccCCCCCC-CCCCchhhHHHHhhhcccCCchhHhHHHHHHHHHccCcchH
Q psy17613 98 FNNYPLLSNCAVYGTMC-VGAEASQQYVTKRYLNPTTP-PEPIDTAALGRYAILGTCINPNILYFWYKWLDKAFTGKSAQ 175 (287)
Q Consensus 98 l~~~P~lt~~i~s~vl~-~~gD~laQ~~~~~~~~~~~~-~~~~D~~R~~r~~~~G~~~~gP~~~~wy~~Ld~~~p~~~~~ 175 (287)
...+|+++++++++.+. .+||+++|.++.+.. . ...+|+.|++||+++|+++.||.+|+||+.|++++|.++..
T Consensus 46 ~~~~~~l~~~i~~~~~~~~~~d~~~q~~~~~~~----~~~~~~d~~rtlr~~~~G~~f~gp~~~~Wy~~L~~~~p~~~~~ 121 (222)
T KOG1944|consen 46 FSLYPLLTKAITTSLLLAAAGDVISQSLEGRSK----KLFQTLDLTRTLRMGIFGFLFVGPTLHYWYRLLSKLFPKKTLI 121 (222)
T ss_pred hhhhhHHHHHHHHHHHHHHhchhhhhhhhhhcc----cccccccHHHHHHHHhhhhheeccchhHHHHHHHHHccCccHH
Confidence 35688888888888877 999999999986531 2 57899999999999998899999999999999999999999
Q ss_pred HHHHHHHHHHhccchhhHHHHHHHHHhhCCc--HHHHHHHHHhhHHHHHhccchhhHHHHhhhhccCCccchhhhhhhhh
Q psy17613 176 IVVKKVLIDQFCMTPPLYAIFYTSMSLMEGK--DDIFAELREKFLPTFQTSCIFWLPAQTINFFFLPPAARVIFVGTCSF 253 (287)
Q Consensus 176 ~~~~Kvl~Dq~v~~P~~~~~f~~~~~~l~G~--~~~~~~lk~~~~~~l~~~~~vWp~~q~inF~~VP~~~Rvlf~n~v~~ 253 (287)
++++|+++||++++|+.+.+||.+|++++|+ +++.++++++++|+++++|++||++|++||+|||+++|++++|++++
T Consensus 122 ~~~~kvl~dql~~~P~~~~~ff~~~~~legk~~~~~~~~~~~~~~p~l~~~~~~WP~~q~inF~~VP~~~rvl~~~~vsl 201 (222)
T KOG1944|consen 122 TVVKKVLLDQLVFAPLFIVVFFLLMGLLEGKTNEEAKAKLKRKFWPTLKANWMVWPLVQFINFRLVPLQYRVLFVNIVSL 201 (222)
T ss_pred HHHHHHHHhhhhhchHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHhhhheecchhheeeeEEccccceehhhhhHHH
Confidence 9999999999999999999999999999999 68999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHhcCCc
Q psy17613 254 VWINILCWLKRSDL 267 (287)
Q Consensus 254 ~W~~~LS~~~~~~~ 267 (287)
+|++|||+++++..
T Consensus 202 ~W~~~Ls~~~~~~~ 215 (222)
T KOG1944|consen 202 VWNTYLSYKNASLV 215 (222)
T ss_pred HHHHHHHHHhhccc
Confidence 99999999999883
No 2
>KOG2758|consensus
Probab=99.95 E-value=2e-29 Score=228.89 Aligned_cols=123 Identities=19% Similarity=0.281 Sum_probs=115.6
Q ss_pred ChhHHHHHHHHHHHHHhHhHHHHHHhcCCHHHHHHhhchhhHHHHHHHHHhhcCCCc------cccccccccccccc--c
Q psy17613 1 TLKQRRVQVVTALQELNTSVTVVLNLLSNDAVMKQMESVRDQKTLCTYLTKEFDTQL------SNCAVYGTMCVGAE--A 72 (287)
Q Consensus 1 e~~~kr~~V~~~l~~l~~~~~~i~~~l~~~~v~~~l~~~rd~~~~~~~L~~~~~~~~------y~~~~f~~~cg~y~--a 72 (287)
++++||.+|+++|++||+|++||+++++|||+.++|+++||+++|+++|+++||||+ |+||||||+||||+ +
T Consensus 70 a~~ekr~~Vla~lkeLe~ev~piv~~le~Pd~~~~~~~~k~~~~~l~~L~e~ynf~~e~i~~lykyakfqyeCGNY~gAs 149 (432)
T KOG2758|consen 70 ALVEKRTEVLAELKELEEEVAPIVKVLENPDLIAALRSDKDRVQNLQHLQEHYNFTPERIETLYKYAKFQYECGNYSGAS 149 (432)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHcCHHHHHHHHhhhhHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHhccCcccHH
Confidence 478999999999999999999999999999999999999999999999999999999 99999999999999 8
Q ss_pred ccccc--------cccccCCCCcc-hhHHH---HHHhhhcCchhhHhHhhhHHHhHHHHHHHh
Q psy17613 73 SQQYV--------TKRYLPSFSCP-VSTIM---IRRFFNNYPLLSNCAVYGTMCVGAEASQQY 123 (287)
Q Consensus 73 ~~l~~--------~~~~l~~~~~~-a~~~~---y~~~l~~~P~lt~~i~s~vl~~~gD~laQ~ 123 (287)
+|||+ ++|+++++||| ||+|+ |+.+++....++..+++.........+.|+
T Consensus 150 ~yLY~~r~l~~~~d~n~lsalwGKlASEIL~qnWd~A~edL~rLre~IDs~~f~~~~~~l~qR 212 (432)
T KOG2758|consen 150 DYLYFYRALVSDPDRNYLSALWGKLASEILTQNWDGALEDLTRLREYIDSKSFSTSAQQLQQR 212 (432)
T ss_pred HHHHHHHHhcCCcchhhHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHcccccccHHHHHHHH
Confidence 89988 78899999999 99998 999999999999999999887666667774
No 3
>PF04117 Mpv17_PMP22: Mpv17 / PMP22 family ; InterPro: IPR007248 The 22 kDa peroxisomal membrane protein (PMP22) is a major component of peroxisomal membranes. PMP22 seems to be involved in pore-forming activity and may contribute to the unspecific permeability of the organelle membrane. PMP22 is synthesised on free cytosolic ribosomes and then directed to the peroxisome membrane by specific targeting information []. Mpv17 is a closely related peroxisomal protein involved in the development of early-onset glomerulosclerosis []. A member of this family found in Saccharomyces cerevisiae (Baker's yeast) is an integral membrane protein of the inner mitochondrial membrane and has been suggested to play a role in mitochondrial function during heat shock [].; GO: 0016021 integral to membrane
Probab=99.86 E-value=3.1e-22 Score=146.10 Aligned_cols=66 Identities=41% Similarity=0.864 Sum_probs=63.6
Q ss_pred HHhhCCc--HHHHHHHHHhhHHHHHhccchhhHHHHhhhhccCCccchhhhhhhhhHHHHHHHHHhcC
Q psy17613 200 MSLMEGK--DDIFAELREKFLPTFQTSCIFWLPAQTINFFFLPPAARVIFVGTCSFVWINILCWLKRS 265 (287)
Q Consensus 200 ~~~l~G~--~~~~~~lk~~~~~~l~~~~~vWp~~q~inF~~VP~~~Rvlf~n~v~~~W~~~LS~~~~~ 265 (287)
|++++|+ +++.++++++++++++++|++|||+|++||+|||+++|++|+|+++++||+|||+++||
T Consensus 1 Mg~l~g~s~~~~~~~l~~~~~~~~~~~~~~Wp~~~~vnF~~vP~~~Rv~~~~~v~~~W~~~LS~~~~r 68 (68)
T PF04117_consen 1 MGLLEGKSWEEIKEKLKRDYWPTLKASWKFWPPAQIVNFRYVPPHYRVLFVNVVSFFWNTYLSYIANR 68 (68)
T ss_pred CCcccCCCHHHHHHHHHHHHHHHHHHHhHhHHHHHHHHhcccChhhhhhhhhhHHHHHHHHHHHHhcC
Confidence 5789999 59999999999999999999999999999999999999999999999999999999985
No 4
>PF09440 eIF3_N: eIF3 subunit 6 N terminal domain; InterPro: IPR019010 This entry represents the N-terminal domain of subunit 6 (or e) (eIF3e) of the translation initiation factor eIF3. EIF3 is required in protein synthesis in mammalian cells and, together with other initiation factors, stimulates binding of initiator methionyl-tRNAi and mRNA to the 40S ribosomal subunit to form the 48 S initiation complex []. The eIF3 complex also prevents premature association of the 40 and 60 S ribosomal subunits and interacts with other initiation factors involved in start codon selection. EIF3 has at least 13 protein components (eIF3a-m or 1-13), where subunits h, i, k, and m are likely to be on the periphery of the complex []. Subunit 6 is produced by the int6 gene, one of the frequent integration sites for mouse mammary tumor viruses [].
Probab=99.70 E-value=1.9e-17 Score=135.76 Aligned_cols=62 Identities=29% Similarity=0.440 Sum_probs=60.8
Q ss_pred ChhHHHHHHHHHHHHHhHhHHHHHHhcCCHHHHHHhhchhhHHHHHHHHHhhcCCCc------ccccccc
Q psy17613 1 TLKQRRVQVVTALQELNTSVTVVLNLLSNDAVMKQMESVRDQKTLCTYLTKEFDTQL------SNCAVYG 64 (287)
Q Consensus 1 e~~~kr~~V~~~l~~l~~~~~~i~~~l~~~~v~~~l~~~rd~~~~~~~L~~~~~~~~------y~~~~f~ 64 (287)
|+++||++|+++|++|+++++||+++|+||||+++||| ||++|++||+++||||+ |+|||||
T Consensus 66 e~~~kr~~Vl~~l~~l~~~~~~v~~~~~~~ev~~~l~~--dk~~nl~~L~~~h~it~e~id~LY~~akfq 133 (133)
T PF09440_consen 66 ELAEKREEVLAELKELEEETEPVLELLEDPEVVKNLRS--DKKQNLEYLEENHGITPEMIDALYKYAKFQ 133 (133)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHcCHHHHHHHHc--cHHHHHHHHHHhcCCCHHHHHHHHHHhCcC
Confidence 58899999999999999999999999999999999999 99999999999999999 9999998
No 5
>PF03962 Mnd1: Mnd1 family; InterPro: IPR005647 This family of proteins includes meiotic nuclear division protein 1 (MND1) from Saccharomyces cerevisiae (Baker's yeast). The mnd1 protein forms a complex with hop2 to promote homologous chromosome pairing and meiotic double-strand break repair [].
Probab=63.61 E-value=24 Score=30.67 Aligned_cols=54 Identities=20% Similarity=0.370 Sum_probs=38.1
Q ss_pred HHHHHHHHHHHHHhHhHHHHHHhcC-----CHHHHHHhhchh-----------hHH-HHHHHHHhhcCCCc
Q psy17613 4 QRRVQVVTALQELNTSVTVVLNLLS-----NDAVMKQMESVR-----------DQK-TLCTYLTKEFDTQL 57 (287)
Q Consensus 4 ~kr~~V~~~l~~l~~~~~~i~~~l~-----~~~v~~~l~~~r-----------d~~-~~~~~L~~~~~~~~ 57 (287)
+.|.+.+++|++|+++.+.+.+=++ ||+..++++..- |+- .+..|+.+++|+..
T Consensus 103 ~eR~~~l~~l~~l~~~~~~l~~el~~~~~~Dp~~i~~~~~~~~~~~~~anrwTDNI~~l~~~~~~k~~~~~ 173 (188)
T PF03962_consen 103 EEREELLEELEELKKELKELKKELEKYSENDPEKIEKLKEEIKIAKEAANRWTDNIFSLKSYLKKKFGMDE 173 (188)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHhcCCCH
Confidence 4677888888888888877766554 899988887611 111 34568888887765
No 6
>smart00742 Hr1 Rho effector or protein kinase C-related kinase homology region 1 homologues. Alpha-helical domain found in vertebrate PRK1 and yeast PKC1 protein kinases C. The HR1 in rhophilin bind RhoGTP; those in PRK1 bind RhoA and RhoB. Also called RBD - Rho-binding domain
Probab=56.41 E-value=28 Score=23.92 Aligned_cols=38 Identities=21% Similarity=0.304 Sum_probs=30.2
Q ss_pred HHhHhHHHHHHhcCCHH-HHHHhhchh-hHHHHHHHHHhh
Q psy17613 15 ELNTSVTVVLNLLSNDA-VMKQMESVR-DQKTLCTYLTKE 52 (287)
Q Consensus 15 ~l~~~~~~i~~~l~~~~-v~~~l~~~r-d~~~~~~~L~~~ 52 (287)
.+.+-++.++.+.+|++ +....+++. ++.++++||+..
T Consensus 15 ~i~~Gae~m~~~~~~~~k~~~~a~~~l~es~~ki~~L~~~ 54 (57)
T smart00742 15 KVKEGAENMRKLTSNDRKVLSEAQSMLRESNQKLDLLKEE 54 (57)
T ss_pred HHHHHHHHHHHHHcCcHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 45677888999999987 777766653 789999999864
No 7
>PF07862 Nif11: Nitrogen fixation protein of unknown function; InterPro: IPR012903 This domain is found in the cyanobacteria, and the nitrogen-fixing proteobacterium Azotobacter vinelandii and may be involved in nitrogen fixation, but no role has been assigned [].
Probab=48.22 E-value=56 Score=21.48 Aligned_cols=29 Identities=10% Similarity=0.248 Sum_probs=22.9
Q ss_pred cCCHHHHHHhhchhhHHHHHHHHHhhcCCC
Q psy17613 27 LSNDAVMKQMESVRDQKTLCTYLTKEFDTQ 56 (287)
Q Consensus 27 l~~~~v~~~l~~~rd~~~~~~~L~~~~~~~ 56 (287)
-+||+++.+++++++....+.. .+++|+.
T Consensus 14 ~~d~~l~~~l~~~~~~~e~~~l-A~~~Gy~ 42 (49)
T PF07862_consen 14 KSDPELREQLKACQNPEEVVAL-AREAGYD 42 (49)
T ss_pred hcCHHHHHHHHhcCCHHHHHHH-HHHcCCC
Confidence 3799999999999988888775 4556643
No 8
>PF14193 DUF4315: Domain of unknown function (DUF4315)
Probab=46.91 E-value=60 Score=24.48 Aligned_cols=45 Identities=20% Similarity=0.350 Sum_probs=33.7
Q ss_pred hHHHHHHHHHHHHHhHhHHHHHHhcCCHHHHHHhhchh-hHHHHHHHHHh
Q psy17613 3 KQRRVQVVTALQELNTSVTVVLNLLSNDAVMKQMESVR-DQKTLCTYLTK 51 (287)
Q Consensus 3 ~~kr~~V~~~l~~l~~~~~~i~~~l~~~~v~~~l~~~r-d~~~~~~~L~~ 51 (287)
++|+.+.-.+|+.|+.+-. =.+|-|+++..|+|+ +..++..+|+.
T Consensus 14 k~Kiae~Q~rlK~Le~qk~----E~EN~EIv~~VR~~~mtp~eL~~~L~~ 59 (83)
T PF14193_consen 14 KEKIAELQARLKELEAQKT----EAENLEIVQMVRSMKMTPEELAAFLRA 59 (83)
T ss_pred HHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHcCCCHHHHHHHHHH
Confidence 3556666666666665433 368999999999998 88899999975
No 9
>COG1762 PtsN Phosphotransferase system mannitol/fructose-specific IIA domain (Ntr-type) [Carbohydrate transport and metabolism / Signal transduction mechanisms]
Probab=46.61 E-value=34 Score=28.04 Aligned_cols=35 Identities=11% Similarity=0.272 Sum_probs=30.0
Q ss_pred HhHHHHHHhcCCHHHHHHhhchhhHHHHHHHHHhh
Q psy17613 18 TSVTVVLNLLSNDAVMKQMESVRDQKTLCTYLTKE 52 (287)
Q Consensus 18 ~~~~~i~~~l~~~~v~~~l~~~rd~~~~~~~L~~~ 52 (287)
+-...+.++|.|++.+++|.+.++.....+.|++.
T Consensus 115 ~~L~~L~~~l~~~~~~~~L~~~~~~~~i~~il~~~ 149 (152)
T COG1762 115 KALSQLARLLLDEEFREQLLNAKSEEEIIAILENV 149 (152)
T ss_pred HHHHHHHHHHhCHHHHHHHHcCCCHHHHHHHHHhc
Confidence 34566788999999999999999999999998764
No 10
>PRK10372 PTS system L-ascorbate-specific transporter subunit IIA; Provisional
Probab=45.74 E-value=38 Score=27.85 Aligned_cols=32 Identities=13% Similarity=0.444 Sum_probs=29.5
Q ss_pred HHHHHHhcCCHHHHHHhhchhhHHHHHHHHHh
Q psy17613 20 VTVVLNLLSNDAVMKQMESVRDQKTLCTYLTK 51 (287)
Q Consensus 20 ~~~i~~~l~~~~v~~~l~~~rd~~~~~~~L~~ 51 (287)
.+.+.++++|++.+++|.+.+|....+++|.+
T Consensus 118 l~~l~~~l~d~~~~~~L~~~~~~~e~~~~l~~ 149 (154)
T PRK10372 118 IMQIVNLFEDEANFDRLRACRTEQEVLDLIDR 149 (154)
T ss_pred HHHHHHHHcCHHHHHHHHhCCCHHHHHHHHHh
Confidence 68899999999999999999999999998865
No 11
>COG4750 LicC CTP:phosphocholine cytidylyltransferase involved in choline phosphorylation for cell surface LPS epitopes [Cell envelope biogenesis, outer membrane]
Probab=42.38 E-value=24 Score=31.11 Aligned_cols=37 Identities=24% Similarity=0.472 Sum_probs=31.6
Q ss_pred HHHHHhcCCHHHHHHhhchhh------------HHHHHHHHHhhcCCCc
Q psy17613 21 TVVLNLLSNDAVMKQMESVRD------------QKTLCTYLTKEFDTQL 57 (287)
Q Consensus 21 ~~i~~~l~~~~v~~~l~~~rd------------~~~~~~~L~~~~~~~~ 57 (287)
++++++...|-.-+|+++-|. .+.-++||+++|+++.
T Consensus 23 K~LlkV~g~plIErqI~~L~e~gI~dI~IVvGYlkE~FeYLkdKy~vtL 71 (231)
T COG4750 23 KSLLKVNGEPLIERQIEQLREAGIDDITIVVGYLKEQFEYLKDKYDVTL 71 (231)
T ss_pred hHHHHhcCcccHHHHHHHHHHCCCceEEEEeeehHHHHHHHHHhcCeEE
Confidence 578889999998888888764 4678999999999999
No 12
>COG3461 Uncharacterized conserved protein [Function unknown]
Probab=35.98 E-value=1.4e+02 Score=22.91 Aligned_cols=50 Identities=20% Similarity=0.323 Sum_probs=37.3
Q ss_pred hhHHHHHHHHHHHHHhHhHHHHH------HhcCCHHHHHHhhchhhHH-----HHHHHHHh
Q psy17613 2 LKQRRVQVVTALQELNTSVTVVL------NLLSNDAVMKQMESVRDQK-----TLCTYLTK 51 (287)
Q Consensus 2 ~~~kr~~V~~~l~~l~~~~~~i~------~~l~~~~v~~~l~~~rd~~-----~~~~~L~~ 51 (287)
+.+|=......++.|-+|.+.++ +.-.||++..-|+..||-. .+|++|..
T Consensus 12 Ls~kirdf~Ra~~SLiEEiEA~~wY~qR~~~tKD~~~r~ImehnrdeE~eHa~mlLEwlrR 72 (103)
T COG3461 12 LSEKIRDFSRARQSLIEEIEAMMWYDQRADATKDEDLRAIMEHNRDEEKEHAAMLLEWLRR 72 (103)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccccHhHHHHHHHcccHHHHHHHHHHHHHHH
Confidence 45555566777888889988875 5668999999999988733 56777754
No 13
>PRK11352 regulator protein FrmR; Provisional
Probab=34.99 E-value=84 Score=23.99 Aligned_cols=38 Identities=18% Similarity=0.404 Sum_probs=32.9
Q ss_pred hHHHHHHHHHHHHHhHhHHHHHHhcCC----HHHHHHhhchh
Q psy17613 3 KQRRVQVVTALQELNTSVTVVLNLLSN----DAVMKQMESVR 40 (287)
Q Consensus 3 ~~kr~~V~~~l~~l~~~~~~i~~~l~~----~~v~~~l~~~r 40 (287)
.+.+++++.+|+..+-++..|..++++ .||..|+.+.|
T Consensus 5 ~~~k~~ll~RL~Ri~GQv~gi~~Mie~~~~C~dil~Ql~Avr 46 (91)
T PRK11352 5 PEEKKKVLTRVRRIRGQIDALERSLEGDAECRAILQQIAAVR 46 (91)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHH
Confidence 356789999999999999999999988 57888888766
No 14
>KOG0930|consensus
Probab=31.83 E-value=66 Score=29.99 Aligned_cols=28 Identities=18% Similarity=0.504 Sum_probs=23.8
Q ss_pred hhHHHHHHHHHHHHHhHhHHHHHHhcCC
Q psy17613 2 LKQRRVQVVTALQELNTSVTVVLNLLSN 29 (287)
Q Consensus 2 ~~~kr~~V~~~l~~l~~~~~~i~~~l~~ 29 (287)
.+.||++.+.+++.|++|+..|++=+++
T Consensus 22 ir~rk~qL~deIq~Lk~Ei~ev~~eid~ 49 (395)
T KOG0930|consen 22 IRRRKQELLDEIQRLKDEIAEVMEEIDN 49 (395)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhhh
Confidence 4678999999999999999998876654
No 15
>PF00359 PTS_EIIA_2: Phosphoenolpyruvate-dependent sugar phosphotransferase system, EIIA 2; InterPro: IPR002178 The phosphoenolpyruvate-dependent sugar phosphotransferase system (PTS) [, ] is a major carbohydrate transport system in bacteria. The PTS catalyses the phosphorylation of incoming sugar substrates and coupled with translocation across the cell membrane, makes the PTS a link between the uptake and metabolism of sugars. The general mechanism of the PTS is the following: a phosphoryl group from phosphoenolpyruvate (PEP) is transferred via a signal transduction pathway, to enzyme I (EI) which in turn transfers it to a phosphoryl carrier, the histidine protein (HPr). Phospho-HPr then transfers the phosphoryl group to a sugar-specific permease, a membrane-bound complex known as enzyme 2 (EII), which transports the sugar to the cell. EII consists of at least three structurally distinct domains IIA, IIB and IIC []. These can either be fused together in a single polypeptide chain or exist as two or three interactive chains, formerly called enzymes II (EII) and III (EIII). The first domain (IIA or EIIA) carries the first permease-specific phosphorylation site, a histidine which is phosphorylated by phospho-HPr. The second domain (IIB or EIIB) is phosphorylated by phospho-IIA on a cysteinyl or histidyl residue, depending on the sugar transported. Finally, the phosphoryl group is transferred from the IIB domain to the sugar substrate concomitantly with the sugar uptake processed by the IIC domain. This third domain (IIC or EIIC) forms the translocation channel and the specific substrate-binding site. An additional transmembrane domain IID, homologous to IIC, can be found in some PTSs, e.g. for mannose [, , , ]. ; GO: 0005351 sugar:hydrogen symporter activity, 0006810 transport, 0009401 phosphoenolpyruvate-dependent sugar phosphotransferase system; PDB: 3URR_A 3BJV_A 1A6J_B 2OQ3_A 2FEW_A 1A3A_C 1J6T_A 2OQT_D 3OXP_B 2A0J_A ....
Probab=30.47 E-value=66 Score=25.57 Aligned_cols=33 Identities=12% Similarity=0.319 Sum_probs=29.8
Q ss_pred hHHHHHHhcCCHHHHHHhhchhhHHHHHHHHHh
Q psy17613 19 SVTVVLNLLSNDAVMKQMESVRDQKTLCTYLTK 51 (287)
Q Consensus 19 ~~~~i~~~l~~~~v~~~l~~~rd~~~~~~~L~~ 51 (287)
-...+..++.|++.+++|.+.+|.....++|++
T Consensus 111 ~l~~l~~~l~~~~~~~~L~~~~~~~~~~~~l~~ 143 (144)
T PF00359_consen 111 LLSELSRLLEDEEFIEELLKAKDPEEFIEILKN 143 (144)
T ss_dssp HHHHHHHHHTSHHHHHHHHHTSSHHHHHHHHHT
T ss_pred HHHHHHHHHCCHHHHHHHHhCcCHHHHHHHHhc
Confidence 567788899999999999998999999999976
No 16
>PF02583 Trns_repr_metal: Metal-sensitive transcriptional repressor; InterPro: IPR003735 This entry describes proteins of unknown function.; PDB: 2HH7_A 3AAI_A 4ADZ_B.
Probab=29.10 E-value=1.9e+02 Score=21.59 Aligned_cols=37 Identities=16% Similarity=0.442 Sum_probs=31.4
Q ss_pred HHHHHHHHHHHHHhHhHHHHHHhcCCH----HHHHHhhchh
Q psy17613 4 QRRVQVVTALQELNTSVTVVLNLLSND----AVMKQMESVR 40 (287)
Q Consensus 4 ~kr~~V~~~l~~l~~~~~~i~~~l~~~----~v~~~l~~~r 40 (287)
+.+++++.+|+.-+-++..|.++++++ ||..|+...|
T Consensus 2 ~~k~~ll~RL~rIeGQv~gI~~Miee~~~C~dIl~Qi~Av~ 42 (85)
T PF02583_consen 2 EDKKDLLNRLKRIEGQVRGIERMIEEDRDCEDILQQIAAVR 42 (85)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHTTE-HHHHHHHHHHHH
T ss_pred chHHHHHHHHHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHH
Confidence 457799999999999999999999876 7777777655
No 17
>PF10458 Val_tRNA-synt_C: Valyl tRNA synthetase tRNA binding arm; InterPro: IPR019499 The aminoacyl-tRNA synthetases (6.1.1. from EC) catalyse the attachment of an amino acid to its cognate transfer RNA molecule in a highly specific two-step reaction. These proteins differ widely in size and oligomeric state, and have limited sequence homology []. The 20 aminoacyl-tRNA synthetases are divided into two classes, I and II. Class I aminoacyl-tRNA synthetases contain a characteristic Rossman fold catalytic domain and are mostly monomeric []. Class II aminoacyl-tRNA synthetases share an anti-parallel beta-sheet fold flanked by alpha-helices [], and are mostly dimeric or multimeric, containing at least three conserved regions [, , ]. However, tRNA binding involves an alpha-helical structure that is conserved between class I and class II synthetases. In reactions catalysed by the class I aminoacyl-tRNA synthetases, the aminoacyl group is coupled to the 2'-hydroxyl of the tRNA, while, in class II reactions, the 3'-hydroxyl site is preferred. The synthetases specific for arginine, cysteine, glutamic acid, glutamine, isoleucine, leucine, methionine, tyrosine, tryptophan and valine belong to class I synthetases. The synthetases specific for alanine, asparagine, aspartic acid, glycine, histidine, lysine, phenylalanine, proline, serine, and threonine belong to class-II synthetases []. Based on their mode of binding to the tRNA acceptor stem, both classes of tRNA synthetases have been subdivided into three subclasses, designated 1a, 1b, 1c and 2a, 2b, 2c. This entry represents the C-terminal domain of Valyl-tRNA synthetase, which consists of two helices in a long alpha-hairpin. Valyl-tRNA synthetase (6.1.1.9 from EC) is an alpha monomer that belongs to class Ia.; GO: 0000166 nucleotide binding, 0004832 valine-tRNA ligase activity, 0005524 ATP binding, 0006438 valyl-tRNA aminoacylation, 0005737 cytoplasm; PDB: 1IVS_B 1GAX_B.
Probab=28.74 E-value=1.2e+02 Score=21.34 Aligned_cols=34 Identities=15% Similarity=0.276 Sum_probs=29.7
Q ss_pred hhHHHHHHHHHHHHHhHhHHHHHHhcCCHHHHHH
Q psy17613 2 LKQRRVQVVTALQELNTSVTVVLNLLSNDAVMKQ 35 (287)
Q Consensus 2 ~~~kr~~V~~~l~~l~~~~~~i~~~l~~~~v~~~ 35 (287)
+.+-++..-.+++.++.+.+.+-..|+||+.+..
T Consensus 2 ~~~E~~rL~Kel~kl~~~i~~~~~kL~n~~F~~k 35 (66)
T PF10458_consen 2 VEAEIERLEKELEKLEKEIERLEKKLSNENFVEK 35 (66)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHCSTTHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHcCcccccc
Confidence 4566778889999999999999999999988876
No 18
>PF06563 DUF1125: Protein of unknown function (DUF1125); InterPro: IPR009503 This entry is represented by Bacteriophage bIL285, Orf25. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. This family consists of several short Lactococcus lactis and bacteriophage proteins. The function of this family is unknown.
Probab=27.81 E-value=22 Score=24.27 Aligned_cols=17 Identities=6% Similarity=-0.222 Sum_probs=13.2
Q ss_pred ccccccccc----cccccccc
Q psy17613 61 AVYGTMCVG----AEASQQYV 77 (287)
Q Consensus 61 ~~f~~~cg~----y~a~~l~~ 77 (287)
--.||+||| .+++|||+
T Consensus 12 ~iirF~~GnDieafS~~fL~r 32 (55)
T PF06563_consen 12 MIIRFSQGNDIEAFSFSFLFR 32 (55)
T ss_pred EEEEEecCCccceEEehheee
Confidence 346899999 34999987
No 19
>PRK09854 cmtB putative PTS system mannitol-specific transporter subunit IIA; Provisional
Probab=27.64 E-value=70 Score=25.88 Aligned_cols=34 Identities=15% Similarity=0.422 Sum_probs=29.4
Q ss_pred HhHHHHHHhcCCHHHHHHhhchhhHHHHHHHHHh
Q psy17613 18 TSVTVVLNLLSNDAVMKQMESVRDQKTLCTYLTK 51 (287)
Q Consensus 18 ~~~~~i~~~l~~~~v~~~l~~~rd~~~~~~~L~~ 51 (287)
+-.+.+.++++|++.++.|.+.+|.....+.|.+
T Consensus 113 ~il~~l~~~~~~~~~~~~l~~~~~~~e~~~~l~~ 146 (147)
T PRK09854 113 GAIQALSELLCEEEILEQLLTASSEKQLADIISR 146 (147)
T ss_pred HHHHHHHHHHcCHHHHHHHHhCCCHHHHHHHHhc
Confidence 4567889999999999999999999888888754
No 20
>PRK09913 putative fructose-like phosphotransferase system subunit EIIA; Provisional
Probab=27.57 E-value=83 Score=25.38 Aligned_cols=34 Identities=9% Similarity=0.224 Sum_probs=28.6
Q ss_pred HhHHHHHHhcCCHHHHHHhhchhhHHHHHHHHHhh
Q psy17613 18 TSVTVVLNLLSNDAVMKQMESVRDQKTLCTYLTKE 52 (287)
Q Consensus 18 ~~~~~i~~~l~~~~v~~~l~~~rd~~~~~~~L~~~ 52 (287)
.-.+.+..+++|++.++.|++ +|..+..++|++.
T Consensus 112 ~~l~~l~~~l~~~~~~~~L~~-~~~~ei~~~l~~~ 145 (148)
T PRK09913 112 KIIGTLCRKIIHQDFIHQLKQ-GDTDQVLALLNQT 145 (148)
T ss_pred HHHHHHHHHHcCHHHHHHHHc-CCHHHHHHHHHHH
Confidence 355678899999999999998 6888999998764
No 21
>PF10224 DUF2205: Predicted coiled-coil protein (DUF2205); InterPro: IPR019357 This entry represents a highly conserved 100 residue region which is likely to have a coiled-coil structure. The exact function is unknown.
Probab=25.79 E-value=2.4e+02 Score=21.12 Aligned_cols=45 Identities=16% Similarity=0.327 Sum_probs=31.1
Q ss_pred HHHHHHHHHHHHHhHhHHHHHHhc-CCHHHHHHhhchhhHHHHHHHHH
Q psy17613 4 QRRVQVVTALQELNTSVTVVLNLL-SNDAVMKQMESVRDQKTLCTYLT 50 (287)
Q Consensus 4 ~kr~~V~~~l~~l~~~~~~i~~~l-~~~~v~~~l~~~rd~~~~~~~L~ 50 (287)
+.|++++.+..+||+.-+.+.+=+ +-.+...+|++ +++.+-+|+.
T Consensus 16 e~k~~Li~ei~~LQ~sL~~L~~Rve~Vk~E~~kL~~--EN~~Lq~YI~ 61 (80)
T PF10224_consen 16 EEKEELIQEILELQDSLEALSDRVEEVKEENEKLES--ENEYLQQYIG 61 (80)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH--HHHHHHHHHH
Confidence 457889999999998877665544 22334456777 7777777764
No 22
>TIGR03798 ocin_TIGR03798 bacteriocin propeptide, TIGR03798 family. This model describes a conserved, fairly long (about 65 residue) propeptide region for a family of putative microcins, that is, bacteriocins of small size. Members of the seed alignment tend to have the Gly-Gly motif as the last two residues of the matched region. This is a cleavage site for a combination processing/export ABC transporter with a peptidase domain.
Probab=25.78 E-value=1.1e+02 Score=21.47 Aligned_cols=31 Identities=10% Similarity=0.194 Sum_probs=23.8
Q ss_pred HhcCCHHHHHHhhchhhHHHHHHHHHhhcCCC
Q psy17613 25 NLLSNDAVMKQMESVRDQKTLCTYLTKEFDTQ 56 (287)
Q Consensus 25 ~~l~~~~v~~~l~~~rd~~~~~~~L~~~~~~~ 56 (287)
.+-+||+..++|+++.+....++.- +++||.
T Consensus 10 ~~~~d~~L~~~l~~~~~~e~~~~lA-~~~Gf~ 40 (64)
T TIGR03798 10 KVKTDPDLREKLKAAEDPEDRVAIA-KEAGFE 40 (64)
T ss_pred HHHcCHHHHHHHHHcCCHHHHHHHH-HHcCCC
Confidence 4568999999999988877777744 556544
No 23
>KOG1268|consensus
Probab=25.62 E-value=57 Score=33.00 Aligned_cols=25 Identities=28% Similarity=0.585 Sum_probs=22.0
Q ss_pred hhHHHHHHHHHHHHHhHhHHHHHHh
Q psy17613 2 LKQRRVQVVTALQELNTSVTVVLNL 26 (287)
Q Consensus 2 ~~~kr~~V~~~l~~l~~~~~~i~~~ 26 (287)
+.+||+||++-|+.+-++.+.|+++
T Consensus 488 ~~~RR~eIi~gL~~l~~~ikevL~l 512 (670)
T KOG1268|consen 488 KQERRKEIIDGLKDLPSQIKEVLEL 512 (670)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 5799999999999999988888765
No 24
>TIGR02132 phaR_Bmeg polyhydroxyalkanoic acid synthase, PhaR subunit. This model describes a protein, PhaR, localized to polyhydroxyalkanoic acid (PHA) inclusion granules in Bacillus cereus and related species. PhaR is required for PHA biosynthesis along with PhaC and may be a regulatory subunit.
Probab=24.63 E-value=1.8e+02 Score=25.16 Aligned_cols=41 Identities=20% Similarity=0.419 Sum_probs=29.6
Q ss_pred HHHHHHHHHHhHhHHHHHHhcC---------CHHHHHHhhchhhHHHHHHHH
Q psy17613 7 VQVVTALQELNTSVTVVLNLLS---------NDAVMKQMESVRDQKTLCTYL 49 (287)
Q Consensus 7 ~~V~~~l~~l~~~~~~i~~~l~---------~~~v~~~l~~~rd~~~~~~~L 49 (287)
..+-+.+..|+.+++.|+.+|| .+.+.+++++ .+.++-.-|
T Consensus 117 ~~~~q~~~~l~~K~D~~L~llE~~~~~~~~~~~~~~~~~~~--~~~~~~~~~ 166 (189)
T TIGR02132 117 TKLKQDIKSLDKKLDKILELLEGQQKTQDELKETIQKQIKT--QGEQLQAQL 166 (189)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhcCccchhHHHHHHHHHHhh--hHHHHHHHH
Confidence 4566789999999999999999 3445566666 555555433
No 25
>PF13524 Glyco_trans_1_2: Glycosyl transferases group 1
Probab=24.61 E-value=1.3e+02 Score=21.79 Aligned_cols=35 Identities=11% Similarity=0.039 Sum_probs=25.4
Q ss_pred HhHhHHHHHHhcCCHHHHHHhhchhhHHHHHHHHHhhcCC
Q psy17613 16 LNTSVTVVLNLLSNDAVMKQMESVRDQKTLCTYLTKEFDT 55 (287)
Q Consensus 16 l~~~~~~i~~~l~~~~v~~~l~~~rd~~~~~~~L~~~~~~ 55 (287)
.++-.+.|..+++||+.++.+.. +..++.+++|..
T Consensus 49 ~~el~~~i~~ll~~~~~~~~ia~-----~a~~~v~~~~t~ 83 (92)
T PF13524_consen 49 PEELAEKIEYLLENPEERRRIAK-----NARERVLKRHTW 83 (92)
T ss_pred HHHHHHHHHHHHCCHHHHHHHHH-----HHHHHHHHhCCH
Confidence 34455667777899999998877 566677777754
No 26
>PF11180 DUF2968: Protein of unknown function (DUF2968); InterPro: IPR021350 This family of proteins has no known function.
Probab=24.33 E-value=58 Score=28.43 Aligned_cols=46 Identities=13% Similarity=0.064 Sum_probs=28.8
Q ss_pred HHHHHHHHhhcCCCc----cccccccccccccccccccc------------cccccCCCCcc---hhHHHHHH
Q psy17613 43 KTLCTYLTKEFDTQL----SNCAVYGTMCVGAEASQQYV------------TKRYLPSFSCP---VSTIMIRR 96 (287)
Q Consensus 43 ~~~~~~L~~~~~~~~----y~~~~f~~~cg~y~a~~l~~------------~~~~l~~~~~~---a~~~~y~~ 96 (287)
..-|+-|-++|.++. |+ |+|+||.|++ ++++|+.+.-. -.+..|..
T Consensus 28 vaEL~qli~~~~ltElRTtyN--------GsYGASLlF~~~eltYYVALfq~k~fWRViKt~d~~~AE~~Y~~ 92 (192)
T PF11180_consen 28 VAELQQLIQDHQLTELRTTYN--------GSYGASLLFYPKELTYYVALFQQKAFWRVIKTQDEARAEAIYRD 92 (192)
T ss_pred HHHHHHHHHcCchhhhhhhcc--------CCccceeeecCCcceeeeeeeecCceeEeeecCChhhHHHHHHH
Confidence 345566677777777 65 7888888755 66666665543 33334655
No 27
>TIGR02230 ATPase_gene1 F0F1-ATPase subunit, putative. This model represents a protein found encoded in F1F0-ATPase operons in several genomes, including Methanosarcina barkeri (archaeal) and Chlorobium tepidum (bacterial). It is a small protein (about 100 amino acids) with long hydrophic stretches and is presumed to be a subunit of the enzyme.
Probab=24.11 E-value=1e+02 Score=24.06 Aligned_cols=34 Identities=21% Similarity=0.373 Sum_probs=27.6
Q ss_pred hhhHHHHhhhcccCCchhHhHHH--HHHHHHccCcc
Q psy17613 140 TAALGRYAILGTCINPNILYFWY--KWLDKAFTGKS 173 (287)
Q Consensus 140 ~~R~~r~~~~G~~~~gP~~~~wy--~~Ld~~~p~~~ 173 (287)
++..+.++++|..+.+|+.---| .|||+.||...
T Consensus 39 ~~~l~~~g~IG~~~v~pil~G~~lG~WLD~~~~t~~ 74 (100)
T TIGR02230 39 WEGLGMFGLIGWSVAIPTLLGVAVGIWLDRHYPSPF 74 (100)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCc
Confidence 56677789999998899887766 88999998643
No 28
>PF11014 DUF2852: Protein of unknown function (DUF2852); InterPro: IPR021273 This bacterial family of proteins has no known function.
Probab=23.41 E-value=1.2e+02 Score=24.30 Aligned_cols=43 Identities=9% Similarity=0.307 Sum_probs=26.9
Q ss_pred hHHHHHHHHHHHHHhHhHHHHHHhcCCHHHHHHhhchhhHHHHHHHHHhhcC
Q psy17613 3 KQRRVQVVTALQELNTSVTVVLNLLSNDAVMKQMESVRDQKTLCTYLTKEFD 54 (287)
Q Consensus 3 ~~kr~~V~~~l~~l~~~~~~i~~~l~~~~v~~~l~~~rd~~~~~~~L~~~~~ 54 (287)
.+=|++= |+.|++|-. +=++..+.||.-||+..-=+|..+..|
T Consensus 73 D~YR~~t---L~RLEeEq~------eF~~Fl~rLR~AKDk~EFD~FM~~R~n 115 (115)
T PF11014_consen 73 DEYREDT---LRRLEEEQR------EFEDFLERLRRAKDKEEFDQFMAERRN 115 (115)
T ss_pred HHHHHHH---HHHHHHHHH------HHHHHHHHHHHhhhHHHHHHHHHhccC
Confidence 3445544 455555554 334567889999998877667766543
No 29
>PF07849 DUF1641: Protein of unknown function (DUF1641); InterPro: IPR012440 Archaeal and bacterial hypothetical proteins are found in this family, with the region in question being approximately 40 residues long.
Probab=23.26 E-value=62 Score=20.96 Aligned_cols=17 Identities=18% Similarity=0.196 Sum_probs=13.6
Q ss_pred HHHHhcCCHHHHHHhhc
Q psy17613 22 VVLNLLSNDAVMKQMES 38 (287)
Q Consensus 22 ~i~~~l~~~~v~~~l~~ 38 (287)
.++..+.||||.+.|.=
T Consensus 15 gl~~~l~DpdvqrgL~~ 31 (42)
T PF07849_consen 15 GLLRALRDPDVQRGLGF 31 (42)
T ss_pred HHHHHHcCHHHHHHHHH
Confidence 46788999999887754
No 30
>PRK15039 transcriptional repressor RcnR to maintain nickel and cobalt homeostasis; Provisional
Probab=22.59 E-value=1.8e+02 Score=22.19 Aligned_cols=38 Identities=16% Similarity=0.378 Sum_probs=32.3
Q ss_pred HHHHHHHHHHHHHhHhHHHHHHhcCC----HHHHHHhhchhh
Q psy17613 4 QRRVQVVTALQELNTSVTVVLNLLSN----DAVMKQMESVRD 41 (287)
Q Consensus 4 ~kr~~V~~~l~~l~~~~~~i~~~l~~----~~v~~~l~~~rd 41 (287)
+-+++++.+|+..+-++..|.+++++ +|+..|+...|-
T Consensus 6 ~~k~~ll~RL~RIeGQv~gI~~Miee~~~C~dIl~Ql~Avr~ 47 (90)
T PRK15039 6 RDKQKLKARASKIQGQVVALKKMLDEPHECAAVLQQIAAIRG 47 (90)
T ss_pred HhHHHHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHH
Confidence 45778999999999999999999987 578888887663
No 31
>PF13318 DUF4089: Protein of unknown function (DUF4089)
Probab=22.40 E-value=1.4e+02 Score=20.18 Aligned_cols=24 Identities=17% Similarity=0.378 Sum_probs=21.2
Q ss_pred hHHHHHHHHHHHHHhHhHHHHHHh
Q psy17613 3 KQRRVQVVTALQELNTSVTVVLNL 26 (287)
Q Consensus 3 ~~kr~~V~~~l~~l~~~~~~i~~~ 26 (287)
.++|..|+.+++.+..-++++.+.
T Consensus 15 ~~~r~~V~~n~~ri~~mA~~v~~f 38 (50)
T PF13318_consen 15 EEWRPGVVANFERIAAMAQLVMEF 38 (50)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHcC
Confidence 468999999999999999998775
No 32
>PF02344 Myc-LZ: Myc leucine zipper domain; InterPro: IPR003327 This family consists of the leucine zipper dimerisation domain found in both cellular c-Myc proto-oncogenes and viral v-Myc oncogenes. Dimerisation via the leucine zipper motif with other basic helix-loop-helix-leucine zipper (b/HLH/lz) proteins is required for efficient DNA binding []. The Myc-Max dimer is a transactivating complex activating expression of growth related genes promoting cell proliferation. The dimerisation is facilitated via interdigitating leucine residues every 7th position of the alpha helix. Like charge repulsion of adjacent residues in this region preturbs the formation of homodimers with heterodimers being promoted by opposing charge attractions. It has been demonstrated that in transgenic mice the balance between oncogene-induced proliferation and apoptosis in a given tissue can be a critical determinant in the initiation and maintenance of the tumor [].; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent, 0005634 nucleus; PDB: 1NKP_D 1A93_A 2A93_A.
Probab=22.20 E-value=1.1e+02 Score=18.78 Aligned_cols=18 Identities=33% Similarity=0.523 Sum_probs=7.9
Q ss_pred hHHHHHHHHHHHHHhHhH
Q psy17613 3 KQRRVQVVTALQELNTSV 20 (287)
Q Consensus 3 ~~kr~~V~~~l~~l~~~~ 20 (287)
+.||++.-.+|++|+..|
T Consensus 14 rrr~eqLK~kLeqlrnS~ 31 (32)
T PF02344_consen 14 RRRREQLKHKLEQLRNSC 31 (32)
T ss_dssp HHHHHHHHHHHHHH----
T ss_pred HHHHHHHHHHHHHHhccc
Confidence 445555555566655543
No 33
>PF12552 DUF3741: Protein of unknown function (DUF3741); InterPro: IPR022212 This domain family is found in eukaryotes, and is approximately 50 amino acids in length.
Probab=21.96 E-value=87 Score=20.90 Aligned_cols=25 Identities=20% Similarity=0.361 Sum_probs=16.6
Q ss_pred HHHHHHHHHHhHhHHHHHHhcCCHH
Q psy17613 7 VQVVTALQELNTSVTVVLNLLSNDA 31 (287)
Q Consensus 7 ~~V~~~l~~l~~~~~~i~~~l~~~~ 31 (287)
+|-++.|+-|...-+-.+++|+||+
T Consensus 21 KEf~DaLeiL~sNkdlflk~LqdP~ 45 (46)
T PF12552_consen 21 KEFLDALEILSSNKDLFLKFLQDPN 45 (46)
T ss_pred HHHHHHHHHHHhCHHHHHHHHhCCC
Confidence 4566666666666666677776664
No 34
>TIGR01419 nitro_reg_IIA PTS IIA-like nitrogen-regulatory protein PtsN. Members of this family are found in Proteobacteria, Chlamydia, and the spirochete Treponema pallidum.
Probab=21.75 E-value=1.7e+02 Score=23.41 Aligned_cols=31 Identities=13% Similarity=0.349 Sum_probs=25.9
Q ss_pred hHHHHHHhcCCHHHHHHhhchhhHHHHHHHHH
Q psy17613 19 SVTVVLNLLSNDAVMKQMESVRDQKTLCTYLT 50 (287)
Q Consensus 19 ~~~~i~~~l~~~~v~~~l~~~rd~~~~~~~L~ 50 (287)
-.+.+.++++|+++++.|... |.....++|+
T Consensus 114 ~l~~l~~~l~~~~~~~~L~~~-~~~~i~~~l~ 144 (145)
T TIGR01419 114 ALSRIARKLSDKTICRRLRAA-SAEEIYQILT 144 (145)
T ss_pred HHHHHHHHHcCHHHHHHHHhC-CHHHHHHHHh
Confidence 346677899999999999998 8888888774
No 35
>PF11872 DUF3392: Protein of unknown function (DUF3392); InterPro: IPR021813 This family of proteins are functionally uncharacterised. This protein is found in bacteria. Proteins in this family are about 110 amino acids in length.
Probab=21.47 E-value=2.3e+02 Score=22.35 Aligned_cols=49 Identities=10% Similarity=0.041 Sum_probs=33.1
Q ss_pred CchhhH---hHhhhHHHhHHHHHHHhhhcccCCCCCCCCCCch-hhHHHHhhhcccCCch
Q psy17613 101 YPLLSN---CAVYGTMCVGAEASQQYVTKRYLNPTTPPEPIDT-AALGRYAILGTCINPN 156 (287)
Q Consensus 101 ~P~lt~---~i~s~vl~~~gD~laQ~~~~~~~~~~~~~~~~D~-~R~~r~~~~G~~~~gP 156 (287)
||++.+ ++.++.+...||-+-..+.+. -.++++ -|+..|.+..++=.|-
T Consensus 15 rp~l~eIs~AlvA~lLVv~G~~IN~~lrr~-------l~~~~Fi~Rt~~FIlicAFGYGl 67 (106)
T PF11872_consen 15 RPYLSEISLALVACLLVVYGDDINRFLRRL-------LSGYHFILRTLAFILICAFGYGL 67 (106)
T ss_pred HHhHHHHHHHHHHHHHHHHhHHHHHHHHHH-------hcCCccHHHHHHHHHHHHHHHHH
Confidence 466655 455778888999998888763 234554 6888888777653343
No 36
>PF09551 Spore_II_R: Stage II sporulation protein R (spore_II_R); InterPro: IPR014202 This entry is designated stage II sporulation protein R. A comparative genome analysis of all sequenced genomes of Firmicutes shows that the proteins are strictly conserved among the sub-set of endospore-forming species. SpoIIR is a signalling protein that links the activation of sigma E to the transcriptional activity of sigma F during sporulation [, ].
Probab=21.40 E-value=1e+02 Score=25.21 Aligned_cols=30 Identities=10% Similarity=-0.074 Sum_probs=21.7
Q ss_pred cccccccccccccccccccccccccCCCCc
Q psy17613 58 SNCAVYGTMCVGAEASQQYVTKRYLPSFSC 87 (287)
Q Consensus 58 y~~~~f~~~cg~y~a~~l~~~~~~l~~~~~ 87 (287)
-.||.+-|-+|+|+|=-+.+-..-..++||
T Consensus 86 K~YG~~~~PaG~YeAlrI~IG~g~G~NWWC 115 (130)
T PF09551_consen 86 KTYGDIVLPAGEYEALRITIGEGKGHNWWC 115 (130)
T ss_pred ceECCEeccCCceEEEEEEecCccCcceEE
Confidence 789999999999997766663333445665
No 37
>TIGR02163 napH_ ferredoxin-type protein, NapH/MauN family. Most members of this family are the NapH protein, found next to NapG,in operons that encode the periplasmic nitrate reductase. Some species with this reductase lack NapC but accomplish electron transfer to NapAB in some other manner, likely to involve NapH, NapG, and/or some other protein. A few members of this protein are designated MauN and are found in methylamine utilization operons in species that appear to lack a periplasmic nitrate reductase.
Probab=21.30 E-value=1.5e+02 Score=26.73 Aligned_cols=67 Identities=18% Similarity=0.190 Sum_probs=45.6
Q ss_pred hhhHHHHhhhcccCCchhHhHHH--HHHH--HH---ccCcchHHHHHHHHHHHhccchhhHHHHH--HHHHhhCCc
Q psy17613 140 TAALGRYAILGTCINPNILYFWY--KWLD--KA---FTGKSAQIVVKKVLIDQFCMTPPLYAIFY--TSMSLMEGK 206 (287)
Q Consensus 140 ~~R~~r~~~~G~~~~gP~~~~wy--~~Ld--~~---~p~~~~~~~~~Kvl~Dq~v~~P~~~~~f~--~~~~~l~G~ 206 (287)
++|+...++...++.||....|. +.|- ++ +|..+....+.-++.-..+..++++...+ ...+++-|+
T Consensus 4 ~r~~~~~~~~~lf~~~~~~~~~~~~G~l~~s~~~~~~~l~dP~~~lq~~~a~~~~~~~~~~~~~iv~~~~~l~~GR 79 (255)
T TIGR02163 4 LRRLVQLSILGLFLLGPYAGVWILKGNLSSSRLLGTIPLSDPLITLQILLAGHSPPTNALIGALIIVAFYALFGGR 79 (255)
T ss_pred HHHHHHHHHHHHHHcchhhcceEEEecchHHHhcCCccCcCHHHHHHHHHhcChhhHHHHHHHHHHHHHHHHHhcc
Confidence 67888889999888889877775 3333 22 45566777777777777666666665543 444677776
No 38
>KOG0860|consensus
Probab=21.17 E-value=1.4e+02 Score=23.94 Aligned_cols=36 Identities=22% Similarity=0.306 Sum_probs=25.3
Q ss_pred HHHHHHhHhHHHHHHhcCCHHHHHHhhchhhHHHHHHHHHh
Q psy17613 11 TALQELNTSVTVVLNLLSNDAVMKQMESVRDQKTLCTYLTK 51 (287)
Q Consensus 11 ~~l~~l~~~~~~i~~~l~~~~v~~~l~~~rd~~~~~~~L~~ 51 (287)
.+++++|++++.|++++ .++|-+=|+- | ..|+-|.+
T Consensus 29 ~k~~~tq~QvdeVv~IM-r~NV~KVlER--~--ekL~~L~d 64 (116)
T KOG0860|consen 29 DKLQQTQAQVDEVVDIM-RENVEKVLER--G--EKLDELDD 64 (116)
T ss_pred HHHHHHHHHHHHHHHHH-HHhHHHHHHh--c--chHHHHHH
Confidence 47889999999999988 4466666655 4 44555544
No 39
>PRK09665 PTS system galactitol-specific transporter subunit IIA; Provisional
Probab=20.46 E-value=1.8e+02 Score=23.81 Aligned_cols=32 Identities=16% Similarity=0.347 Sum_probs=26.3
Q ss_pred hHHHHHHhcCCHHHHHHhhchhhHHHHHHHHHh
Q psy17613 19 SVTVVLNLLSNDAVMKQMESVRDQKTLCTYLTK 51 (287)
Q Consensus 19 ~~~~i~~~l~~~~v~~~l~~~rd~~~~~~~L~~ 51 (287)
-.+.+.++++|++.+++|.+..+ ....++|++
T Consensus 112 ~l~~l~~~l~d~~~~~~L~~~~~-~~i~~~~~~ 143 (150)
T PRK09665 112 LLRCLFGKLQQPDIVETLLTLPE-TQLKEYFTK 143 (150)
T ss_pred HHHHHHHHHcCHHHHHHHHhCCC-HHHHHHHHH
Confidence 45567888999999999999887 488888865
No 40
>PRK13779 bifunctional PTS system fructose-specific transporter subunit IIA/HPr protein; Provisional
Probab=20.43 E-value=99 Score=31.10 Aligned_cols=33 Identities=18% Similarity=0.290 Sum_probs=29.3
Q ss_pred HHHHHhcCCHHHHHHhhchhhHHHHHHHHHhhc
Q psy17613 21 TVVLNLLSNDAVMKQMESVRDQKTLCTYLTKEF 53 (287)
Q Consensus 21 ~~i~~~l~~~~v~~~l~~~rd~~~~~~~L~~~~ 53 (287)
+.+.++++|++++++|++.+|....++.|.++-
T Consensus 111 ~~Lt~ll~dee~i~~L~~a~s~eei~~lL~~~~ 143 (503)
T PRK13779 111 RQLTHVLSDEDTAAKLATLTDVKEFRAILMGET 143 (503)
T ss_pred HHHHHHHcCHHHHHHHHhCCCHHHHHHHHhcCC
Confidence 367789999999999999999999999997653
No 41
>PF08988 DUF1895: Protein of unknown function (DUF1895); InterPro: IPR015081 The YscE protein, produced by the pathogen Yersinia, assumes a secondary structure composed of two anti-parallel alpha-helices separated by a flexible loop. The function of this protein is, as yet, unknown. ; PDB: 1ZW0_B 2P58_A 2UWJ_E 2Q1K_D 3PH0_B.
Probab=20.33 E-value=3.4e+02 Score=19.56 Aligned_cols=49 Identities=12% Similarity=0.089 Sum_probs=39.1
Q ss_pred HHHHHHHHHHHHhHhHHHHHHhcCCHHHHHHhhchhh----HHHHHHHHHhhc
Q psy17613 5 RRVQVVTALQELNTSVTVVLNLLSNDAVMKQMESVRD----QKTLCTYLTKEF 53 (287)
Q Consensus 5 kr~~V~~~l~~l~~~~~~i~~~l~~~~v~~~l~~~rd----~~~~~~~L~~~~ 53 (287)
.+.++..+|.+.+..++..++.--+|+--++++..+| ....++.++.++
T Consensus 15 ~~~~i~~~L~~a~~~vkr~L~~G~~P~eyQq~q~~~~AieAA~~Vie~~~~~~ 67 (68)
T PF08988_consen 15 EARAIEQQLRQAQSQVKRKLDRGGTPQEYQQLQQQYDAIEAAIAVIETLEGNQ 67 (68)
T ss_dssp HHHHHHHHHHHHHHHHHHHHTCTSSHHHHHHHHHHHHHHHHHHHHHHHHHHTT
T ss_pred HHHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHHHHHHHHhccc
Confidence 4668999999999999999999999998888887665 335566666554
Done!