Query 028682
Match_columns 205
No_of_seqs 57 out of 59
Neff 3.1
Searched_HMMs 46136
Date Fri Mar 29 15:20:49 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/028682.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/028682hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 cd00194 UBA Ubiquitin Associat 97.7 7.1E-05 1.5E-09 47.0 4.4 37 156-192 2-38 (38)
2 PF00627 UBA: UBA/TS-N domain; 97.6 0.00015 3.3E-09 46.1 4.8 35 156-190 3-37 (37)
3 smart00165 UBA Ubiquitin assoc 97.3 0.00038 8.1E-09 43.6 4.1 36 156-191 2-37 (37)
4 KOG0011 Nucleotide excision re 94.3 0.11 2.4E-06 48.6 6.1 41 151-191 131-171 (340)
5 TIGR00601 rad23 UV excision re 93.2 0.35 7.5E-06 45.3 7.5 41 151-191 152-192 (378)
6 TIGR00601 rad23 UV excision re 91.6 0.26 5.7E-06 46.1 4.6 39 156-194 338-376 (378)
7 PF09288 UBA_3: Fungal ubiquit 87.4 0.62 1.3E-05 33.6 2.8 24 157-180 11-34 (55)
8 COG5207 UBP14 Isopeptidase T [ 85.7 1.1 2.3E-05 45.2 4.3 38 156-193 559-597 (749)
9 PF05697 Trigger_N: Bacterial 78.9 4.7 0.0001 31.7 4.9 44 46-110 39-82 (145)
10 KOG2605 OTU (ovarian tumor)-li 72.4 1.1 2.3E-05 42.4 -0.3 40 71-110 298-337 (371)
11 KOG0011 Nucleotide excision re 56.8 17 0.00037 34.5 4.4 40 155-194 298-337 (340)
12 KOG0944 Ubiquitin-specific pro 55.1 18 0.00039 37.4 4.5 38 156-193 572-610 (763)
13 TIGR00115 tig trigger factor. 52.2 33 0.00071 31.3 5.4 44 47-111 28-71 (408)
14 KOG2561 Adaptor protein NUB1, 50.0 33 0.00071 34.3 5.3 44 151-194 425-468 (568)
15 smart00546 CUE Domain that may 49.0 50 0.0011 21.2 4.5 36 156-192 3-41 (43)
16 PF05801 DUF840: Lagovirus pro 46.6 29 0.00062 28.1 3.6 34 44-84 5-38 (114)
17 PF09312 SurA_N: SurA N-termin 44.7 29 0.00063 26.7 3.3 49 69-117 47-95 (118)
18 PF07499 RuvA_C: RuvA, C-termi 43.6 48 0.001 22.1 3.8 26 154-179 2-27 (47)
19 PF02845 CUE: CUE domain; Int 42.3 91 0.002 20.0 5.1 36 157-192 3-40 (42)
20 TIGR03142 cytochro_ccmI cytoch 40.3 72 0.0016 24.8 4.9 47 55-101 30-76 (117)
21 KOG1252 Cystathionine beta-syn 39.5 42 0.0009 32.2 4.1 57 17-77 236-298 (362)
22 PRK01490 tig trigger factor; P 38.2 70 0.0015 29.5 5.3 45 46-111 39-83 (435)
23 KOG3990 Uncharacterized conser 36.4 1.9E+02 0.0041 27.2 7.7 13 21-33 168-180 (305)
24 KOG0944 Ubiquitin-specific pro 32.5 33 0.00071 35.6 2.4 39 154-192 634-672 (763)
25 PTZ00250 variable surface prot 32.3 27 0.00059 32.9 1.7 18 176-193 264-281 (350)
26 PF13624 SurA_N_3: SurA N-term 27.5 89 0.0019 24.1 3.6 30 71-100 82-111 (154)
27 PRK10250 hypothetical protein; 27.5 61 0.0013 25.4 2.7 38 18-71 68-106 (122)
28 PF14490 HHH_4: Helix-hairpin- 27.1 1.2E+02 0.0026 22.5 4.1 34 154-187 7-40 (94)
29 PF07271 Cytadhesin_P30: Cytad 25.4 69 0.0015 29.8 3.0 16 19-34 43-58 (279)
30 COG4224 Uncharacterized protei 23.7 91 0.002 24.1 2.9 29 88-117 20-49 (77)
31 PLN03014 carbonic anhydrase 23.1 1E+02 0.0022 29.3 3.7 33 145-178 60-92 (347)
32 COG4260 Membrane protease subu 21.4 2.8E+02 0.0061 26.5 6.2 94 4-109 112-208 (345)
33 PF09145 Ubiq-assoc: Ubiquitin 21.2 76 0.0017 22.4 1.9 22 157-178 8-29 (46)
34 PRK02539 hypothetical protein; 21.0 1.1E+02 0.0024 23.9 2.9 29 88-117 20-49 (85)
35 PF10359 Fmp27_WPPW: RNA pol I 20.6 7.6E+02 0.017 23.7 9.5 20 22-41 123-144 (475)
No 1
>cd00194 UBA Ubiquitin Associated domain. The UBA domain is a commonly occurring sequence motif in some members of the ubiquitination pathway, UV excision repair proteins, and certain protein kinases. Although its specific role is so far unknown, it has been suggested that UBA domains are involved in conferring protein target specificity. The domain, a compact three helix bundle, has a conserved GFP-loop and the proline is thought to be critical for binding. The UBA domain is distinct from the conserved three helical domain seen in the N-terminus of EF-TS and eukaryotic NAC proteins.
Probab=97.71 E-value=7.1e-05 Score=47.04 Aligned_cols=37 Identities=30% Similarity=0.470 Sum_probs=34.7
Q ss_pred hHHHHHHHHhcchHHHHHHHHHhhcCChhHHHHHHHH
Q 028682 156 SNSMQMVLSMGFSYLQVIEAYSIFGDDVDSMVCYLLE 192 (205)
Q Consensus 156 ~~~~q~~l~mGFs~~qvieAysifGD~~d~~~~yl~E 192 (205)
...|+.|++|||+..++++|....+-|++.-+.||++
T Consensus 2 ~~~v~~L~~mGf~~~~~~~AL~~~~~d~~~A~~~L~~ 38 (38)
T cd00194 2 EEKLEQLLEMGFSREEARKALRATNNNVERAVEWLLE 38 (38)
T ss_pred HHHHHHHHHcCCCHHHHHHHHHHhCCCHHHHHHHHhC
Confidence 4679999999999999999999999999999999974
No 2
>PF00627 UBA: UBA/TS-N domain; InterPro: IPR000449 UBA domains are a commonly occurring sequence motif of approximately 45 amino acid residues that are found in diverse proteins involved in the ubiquitin/proteasome pathway, DNA excision-repair, and cell signalling via protein kinases []. The human homologue of yeast Rad23A is one example of a nucleotide excision-repair protein that contains both an internal and a C-terminal UBA domain. The solution structure of human Rad23A UBA(2) showed that the domain forms a compact three-helix bundle []. Comparison of the structures of UBA(1) and UBA(2) reveals that both form very similar folds and have a conserved large hydrophobic surface patch which may be a common protein-interacting surface present in diverse UBA domains. Evidence that ubiquitin binds to UBA domains leads to the prediction that the hydrophobic surface patch of UBA domains interacts with the hydrophobic surface on the five-stranded beta-sheet of ubiquitin []. This domain is similar in sequence to the N-terminal domain of translation elongation factor EF1B (or EF-Ts) from bacteria, mitochondria and chloroplasts. More information about EF1B (EF-Ts) proteins can be found at Protein of the Month: Elongation Factors [].; GO: 0005515 protein binding; PDB: 2DAI_A 2OO9_C 2JUJ_A 1WHC_A 1YLA_A 2O25_B 3K9O_A 3K9P_A 3F92_A 3E46_A ....
Probab=97.59 E-value=0.00015 Score=46.12 Aligned_cols=35 Identities=31% Similarity=0.435 Sum_probs=31.9
Q ss_pred hHHHHHHHHhcchHHHHHHHHHhhcCChhHHHHHH
Q 028682 156 SNSMQMVLSMGFSYLQVIEAYSIFGDDVDSMVCYL 190 (205)
Q Consensus 156 ~~~~q~~l~mGFs~~qvieAysifGD~~d~~~~yl 190 (205)
.+.|+.|++|||+..++.+|....|-|+|.-+.||
T Consensus 3 ~~~v~~L~~mGf~~~~~~~AL~~~~~nve~A~~~L 37 (37)
T PF00627_consen 3 EEKVQQLMEMGFSREQAREALRACNGNVERAVDWL 37 (37)
T ss_dssp HHHHHHHHHHTS-HHHHHHHHHHTTTSHHHHHHHH
T ss_pred HHHHHHHHHcCCCHHHHHHHHHHcCCCHHHHHHhC
Confidence 45789999999999999999999999999999997
No 3
>smart00165 UBA Ubiquitin associated domain. Present in Rad23, SNF1-like kinases. The newly-found UBA in p62 is known to bind ubiquitin.
Probab=97.33 E-value=0.00038 Score=43.60 Aligned_cols=36 Identities=28% Similarity=0.471 Sum_probs=33.4
Q ss_pred hHHHHHHHHhcchHHHHHHHHHhhcCChhHHHHHHH
Q 028682 156 SNSMQMVLSMGFSYLQVIEAYSIFGDDVDSMVCYLL 191 (205)
Q Consensus 156 ~~~~q~~l~mGFs~~qvieAysifGD~~d~~~~yl~ 191 (205)
...++.|++|||+..++++|...-+-|++.-+.||+
T Consensus 2 ~~~v~~L~~mGf~~~~a~~aL~~~~~d~~~A~~~L~ 37 (37)
T smart00165 2 EEKIDQLLEMGFSREEALKALRAANGNVERAAEYLL 37 (37)
T ss_pred HHHHHHHHHcCCCHHHHHHHHHHhCCCHHHHHHHHC
Confidence 467899999999999999999999999999999985
No 4
>KOG0011 consensus Nucleotide excision repair factor NEF2, RAD23 component [Replication, recombination and repair]
Probab=94.27 E-value=0.11 Score=48.64 Aligned_cols=41 Identities=22% Similarity=0.324 Sum_probs=38.5
Q ss_pred CcccchHHHHHHHHhcchHHHHHHHHHhhcCChhHHHHHHH
Q 028682 151 SDTVLSNSMQMVLSMGFSYLQVIEAYSIFGDDVDSMVCYLL 191 (205)
Q Consensus 151 ~~~~l~~~~q~~l~mGFs~~qvieAysifGD~~d~~~~yl~ 191 (205)
.++.+.++|+.+|.||+.-++|+-|-+-==-|||.-|-|||
T Consensus 131 ~G~~~e~~V~~Im~MGy~re~V~~AlRAafNNPeRAVEYLl 171 (340)
T KOG0011|consen 131 VGSEYEQTVQQIMEMGYDREEVERALRAAFNNPERAVEYLL 171 (340)
T ss_pred ccchhHHHHHHHHHhCccHHHHHHHHHHhhCChhhhHHHHh
Confidence 56789999999999999999999999988899999999998
No 5
>TIGR00601 rad23 UV excision repair protein Rad23. All proteins in this family for which functions are known are components of a multiprotein complex used for targeting nucleotide excision repair to specific parts of the genome. In humans, Rad23 complexes with the XPC protein. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=93.23 E-value=0.35 Score=45.33 Aligned_cols=41 Identities=22% Similarity=0.310 Sum_probs=38.1
Q ss_pred CcccchHHHHHHHHhcchHHHHHHHHHhhcCChhHHHHHHH
Q 028682 151 SDTVLSNSMQMVLSMGFSYLQVIEAYSIFGDDVDSMVCYLL 191 (205)
Q Consensus 151 ~~~~l~~~~q~~l~mGFs~~qvieAysifGD~~d~~~~yl~ 191 (205)
.++.+...|+.+|+|||.=+||..|-+-==-|||--|-||+
T Consensus 152 ~g~~~e~~I~~i~eMGf~R~qV~~ALRAafNNPdRAVEYL~ 192 (378)
T TIGR00601 152 VGSERETTIEEIMEMGYEREEVERALRAAFNNPDRAVEYLL 192 (378)
T ss_pred cchHHHHHHHHHHHhCCCHHHHHHHHHHHhCCHHHHHHHHH
Confidence 46678999999999999999999999988899999999998
No 6
>TIGR00601 rad23 UV excision repair protein Rad23. All proteins in this family for which functions are known are components of a multiprotein complex used for targeting nucleotide excision repair to specific parts of the genome. In humans, Rad23 complexes with the XPC protein. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=91.60 E-value=0.26 Score=46.10 Aligned_cols=39 Identities=23% Similarity=0.390 Sum_probs=36.6
Q ss_pred hHHHHHHHHhcchHHHHHHHHHhhcCChhHHHHHHHHhC
Q 028682 156 SNSMQMVLSMGFSYLQVIEAYSIFGDDVDSMVCYLLETG 194 (205)
Q Consensus 156 ~~~~q~~l~mGFs~~qvieAysifGD~~d~~~~yl~E~~ 194 (205)
-.+|+.|.+|||.-.+|||||---.-|-++-.+||||-.
T Consensus 338 ~~AIeRL~~LGF~r~~viqaY~ACdKNEelAAn~Lf~~~ 376 (378)
T TIGR00601 338 KEAIERLCALGFDRGLVIQAYFACDKNEELAANYLLSQN 376 (378)
T ss_pred HHHHHHHHHcCCCHHHHHHHHHhcCCcHHHHHHHHHhhc
Confidence 478999999999999999999999999999999999863
No 7
>PF09288 UBA_3: Fungal ubiquitin-associated domain ; InterPro: IPR015368 This C-terminal domain is found in ubiquitin binding proteins, it adopts a structure consisting of a three alpha-helix bundle. This domain is predominantly found in fungi []. ; PDB: 1TTE_A.
Probab=87.38 E-value=0.62 Score=33.58 Aligned_cols=24 Identities=25% Similarity=0.415 Sum_probs=19.1
Q ss_pred HHHHHHHHhcchHHHHHHHHHhhc
Q 028682 157 NSMQMVLSMGFSYLQVIEAYSIFG 180 (205)
Q Consensus 157 ~~~q~~l~mGFs~~qvieAysifG 180 (205)
.-|+..++|||+.+.||||..-+|
T Consensus 11 ~lVd~F~~mGF~~dkVvevlrrlg 34 (55)
T PF09288_consen 11 DLVDQFENMGFERDKVVEVLRRLG 34 (55)
T ss_dssp HHHHHHHHHT--HHHHHHHHHHS-
T ss_pred HHHHHHHHcCCcHHHHHHHHHHhC
Confidence 458899999999999999999887
No 8
>COG5207 UBP14 Isopeptidase T [Posttranslational modification, protein turnover, chaperones]
Probab=85.73 E-value=1.1 Score=45.23 Aligned_cols=38 Identities=24% Similarity=0.468 Sum_probs=35.5
Q ss_pred hHHHHHHHHhcchHHHHHHHHHhhcC-ChhHHHHHHHHh
Q 028682 156 SNSMQMVLSMGFSYLQVIEAYSIFGD-DVDSMVCYLLET 193 (205)
Q Consensus 156 ~~~~q~~l~mGFs~~qvieAysifGD-~~d~~~~yl~E~ 193 (205)
-+.|..|++|||+..+..-|.-|+|. |.++-|+||+|-
T Consensus 559 qs~I~qL~~mGfp~~~~~rAL~~tgNqDaEsAMNWLFqH 597 (749)
T COG5207 559 QSLIRQLVDMGFPEEDAARALGITGNQDAESAMNWLFQH 597 (749)
T ss_pred HHHHHHHHHcCCCHHHHHHHHhhccCcchHHHHHHHHhh
Confidence 46899999999999999999999997 999999999986
No 9
>PF05697 Trigger_N: Bacterial trigger factor protein (TF); InterPro: IPR008881 In the Escherichia coli cytosol, a fraction of the newly synthesised proteins requires the activity of molecular chaperones for folding to the native state. The major chaperones implicated in this folding process are the ribosome-associated Trigger Factor (TF), and the DnaK and GroEL chaperones with their respective co-chaperones. Trigger Factor is an ATP-independent chaperone and displays chaperone and peptidyl-prolyl-cis-trans-isomerase (PPIase) activities in vitro. It is composed of at least three domains, an N-terminal domain which mediates association with the large ribosomal subunit, a central substrate binding and PPIase domain with homology to FKBP proteins, and a C-terminal domain of unknown function. The positioning of TF at the peptide exit channel, together with its ability to interact with nascent chains as short as 57 residues renders TF a prime candidate for being the first chaperone that binds to the nascent polypeptide chains []. This group of sequences contain the ribosomal subunit association domain.; GO: 0006457 protein folding, 0015031 protein transport; PDB: 2D3O_1 1W26_A 1P9Y_A 1OMS_C 1T11_A 3GU0_A 2NSB_A 2NSC_A 3GTY_X.
Probab=78.93 E-value=4.7 Score=31.75 Aligned_cols=44 Identities=7% Similarity=0.127 Sum_probs=28.1
Q ss_pred ccCCCCCCCcccHHHHHHHHHHHHHHHHHHHHHhccccCCcHHHHHHHHHHHHHHHHHHHHHhcc
Q 028682 46 LGFSCLRGTNVDKDQVKAAIKAQQDQQIDNALLAEGRFYSDLELTEKEIECMVMEVSRAEYLAGD 110 (205)
Q Consensus 46 LGlp~~~pg~aDk~~~~~Ai~~Se~~~IeqamLedk~~~TD~e~Te~eIeeqV~r~S~~eyl~~~ 110 (205)
.-+||||||.|-+..+++-+-.+ -.++.-+.++++++.+++++.
T Consensus 39 ~~ipGFRkGK~P~~vi~~~~g~~---------------------i~~~~~~~~~~~~~~~~~~~~ 82 (145)
T PF05697_consen 39 VKIPGFRKGKAPRNVIEKRYGKE---------------------IREEAIEELLQEAYEEAIKEE 82 (145)
T ss_dssp TTBTTS-TTSS-HHHHHHHHCHH---------------------HHHHHHHHHHHHHHHHHHHHT
T ss_pred CCCCCCCCCCCCHHHHHHHHHHH---------------------HHHHHHHHHHHHHHHHHHHHc
Confidence 46899999999887665544432 123445566777888888774
No 10
>KOG2605 consensus OTU (ovarian tumor)-like cysteine protease [Signal transduction mechanisms; Posttranslational modification, protein turnover, chaperones]
Probab=72.36 E-value=1.1 Score=42.37 Aligned_cols=40 Identities=15% Similarity=-0.029 Sum_probs=36.7
Q ss_pred HHHHHHHHhccccCCcHHHHHHHHHHHHHHHHHHHHHhcc
Q 028682 71 QQIDNALLAEGRFYSDLELTEKEIECMVMEVSRAEYLAGD 110 (205)
Q Consensus 71 ~~IeqamLedk~~~TD~e~Te~eIeeqV~r~S~~eyl~~~ 110 (205)
.++++.|+.++++.|||.+|...|+++|++++|..|+...
T Consensus 298 ~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~n~~~~~h 337 (371)
T KOG2605|consen 298 EEIEKPLNITSFKDTCYIQTPPAIEESVKMEKYNFWVEVH 337 (371)
T ss_pred hhccccceeecccccceeccCcccccchhhhhhcccchhh
Confidence 5678888999999999999999999999999999999874
No 11
>KOG0011 consensus Nucleotide excision repair factor NEF2, RAD23 component [Replication, recombination and repair]
Probab=56.75 E-value=17 Score=34.47 Aligned_cols=40 Identities=23% Similarity=0.370 Sum_probs=36.2
Q ss_pred chHHHHHHHHhcchHHHHHHHHHhhcCChhHHHHHHHHhC
Q 028682 155 LSNSMQMVLSMGFSYLQVIEAYSIFGDDVDSMVCYLLETG 194 (205)
Q Consensus 155 l~~~~q~~l~mGFs~~qvieAysifGD~~d~~~~yl~E~~ 194 (205)
=..+|..|-+|||.-..|||||=---.|=+.-.|||++-.
T Consensus 298 e~eAIeRL~alGF~ralViqayfACdKNEelAAN~Ll~~~ 337 (340)
T KOG0011|consen 298 EKEAIERLEALGFPRALVIQAYFACDKNEELAANYLLSHS 337 (340)
T ss_pred HHHHHHHHHHhCCcHHHHHHHHHhcCccHHHHHHHHHhhc
Confidence 4578999999999999999999999999999999999854
No 12
>KOG0944 consensus Ubiquitin-specific protease UBP14 [Posttranslational modification, protein turnover, chaperones]
Probab=55.09 E-value=18 Score=37.43 Aligned_cols=38 Identities=18% Similarity=0.310 Sum_probs=34.2
Q ss_pred hHHHHHHHHhcchHHHHHHHHHhhc-CChhHHHHHHHHh
Q 028682 156 SNSMQMVLSMGFSYLQVIEAYSIFG-DDVDSMVCYLLET 193 (205)
Q Consensus 156 ~~~~q~~l~mGFs~~qvieAysifG-D~~d~~~~yl~E~ 193 (205)
-+.|..|+.|||..+..--|.-++| ++.+.-++||+|-
T Consensus 572 ~s~i~qL~~MGFp~eac~rAly~tgN~~aEaA~NWl~~H 610 (763)
T KOG0944|consen 572 RSVISQLVEMGFPEEACRRALYYTGNSGAEAASNWLMEH 610 (763)
T ss_pred HHHHHHHHHcCCCHHHHHHHHhhhcCccHHHHHHHHHHh
Confidence 3578899999999999999999995 7899999999996
No 13
>TIGR00115 tig trigger factor. Trigger factor is a ribosome-associated molecular chaperone and is the first chaperone to interact with nascent polypeptide. Trigger factor can bind at the same time as the signal recognition particle (SRP), but is excluded by the SRP receptor (FtsY). The central domain of trigger factor has peptidyl-prolyl cis/trans isomerase activity. This protein is found in a single copy in virtually every bacterial genome.
Probab=52.25 E-value=33 Score=31.31 Aligned_cols=44 Identities=9% Similarity=0.180 Sum_probs=28.8
Q ss_pred cCCCCCCCcccHHHHHHHHHHHHHHHHHHHHHhccccCCcHHHHHHHHHHHHHHHHHHHHHhcch
Q 028682 47 GFSCLRGTNVDKDQVKAAIKAQQDQQIDNALLAEGRFYSDLELTEKEIECMVMEVSRAEYLAGDN 111 (205)
Q Consensus 47 Glp~~~pg~aDk~~~~~Ai~~Se~~~IeqamLedk~~~TD~e~Te~eIeeqV~r~S~~eyl~~~~ 111 (205)
-+||||||.|-+..+++-+..+ .-.+.| +.++.+++.++++++.
T Consensus 28 ~ipGFRkGKvP~~~i~k~~g~~--------------------i~~e~~-~~li~~~~~~~~~~~~ 71 (408)
T TIGR00115 28 KIPGFRKGKVPRSVVEKRYGKE--------------------VRQEAL-NELLQEAFSEAVKEEK 71 (408)
T ss_pred CCCCccCCCCCHHHHHHHHhHH--------------------HHHHHH-HHHHHHHHHHHHHhCC
Confidence 5899999999998776655431 112223 3355678888887754
No 14
>KOG2561 consensus Adaptor protein NUB1, contains UBA domain [Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]
Probab=49.99 E-value=33 Score=34.35 Aligned_cols=44 Identities=23% Similarity=0.204 Sum_probs=38.8
Q ss_pred CcccchHHHHHHHHhcchHHHHHHHHHhhcCChhHHHHHHHHhC
Q 028682 151 SDTVLSNSMQMVLSMGFSYLQVIEAYSIFGDDVDSMVCYLLETG 194 (205)
Q Consensus 151 ~~~~l~~~~q~~l~mGFs~~qvieAysifGD~~d~~~~yl~E~~ 194 (205)
|+.+-..++..|++|||+-.-+--|...||.++|..+-.|.-.+
T Consensus 425 p~~vd~~~la~Lv~mGF~e~~A~~ALe~~gnn~~~a~~~L~~s~ 468 (568)
T KOG2561|consen 425 PEQVDGISLAELVSMGFEEGKARSALEAGGNNEDTAQRLLSASV 468 (568)
T ss_pred CcccchhhHHHHHHhccccchHHHHHHhcCCcHHHHHHHHHHhC
Confidence 45577788999999999999999999999999999999998653
No 15
>smart00546 CUE Domain that may be involved in binding ubiquitin-conjugating enzymes (UBCs). CUE domains also occur in two protein of the IL-1 signal transduction pathway, tollip and TAB2. Ponting (Biochem. J.) "Proteins of the Endoplasmic reticulum" (in press)
Probab=49.02 E-value=50 Score=21.20 Aligned_cols=36 Identities=17% Similarity=0.249 Sum_probs=28.3
Q ss_pred hHHHHHHHHhcc---hHHHHHHHHHhhcCChhHHHHHHHH
Q 028682 156 SNSMQMVLSMGF---SYLQVIEAYSIFGDDVDSMVCYLLE 192 (205)
Q Consensus 156 ~~~~q~~l~mGF---s~~qvieAysifGD~~d~~~~yl~E 192 (205)
.+.+..|.+| | ....+.......+.|+|..++-|+|
T Consensus 3 ~~~v~~L~~m-FP~l~~~~I~~~L~~~~g~ve~~i~~LL~ 41 (43)
T smart00546 3 DEALHDLKDM-FPNLDEEVIKAVLEANNGNVEATINNLLE 41 (43)
T ss_pred HHHHHHHHHH-CCCCCHHHHHHHHHHcCCCHHHHHHHHHc
Confidence 4567788888 7 5666667777788999999998886
No 16
>PF05801 DUF840: Lagovirus protein of unknown function (DUF840); InterPro: IPR008558 This family consists of several Lagovirus sequences of unknown function, largely from Oryctolagus cuniculus hemorrhagic disease virus.
Probab=46.57 E-value=29 Score=28.09 Aligned_cols=34 Identities=24% Similarity=0.400 Sum_probs=26.5
Q ss_pred ccccCCCCCCCcccHHHHHHHHHHHHHHHHHHHHHhccccC
Q 028682 44 AGLGFSCLRGTNVDKDQVKAAIKAQQDQQIDNALLAEGRFY 84 (205)
Q Consensus 44 vGLGlp~~~pg~aDk~~~~~Ai~~Se~~~IeqamLedk~~~ 84 (205)
+||||.| -.-+..|+.++++.+++++-||.++-.
T Consensus 5 igl~lag-------a~vlsnallrrqelqlqkqalenglvl 38 (114)
T PF05801_consen 5 IGLGLAG-------ASVLSNALLRRQELQLQKQALENGLVL 38 (114)
T ss_pred hccccch-------HHHHHHHHHHHHHHHHHHHHHhcCeee
Confidence 4677643 456888999999999999999988654
No 17
>PF09312 SurA_N: SurA N-terminal domain; InterPro: IPR015391 The correct folding of outer membrane proteins in Gram negative bacteria is facilitated by the survival protein SurA []. This entry represents the domain found at the N terminus of the chaperone SurA. It is a helical domain of unknown function. The C terminus of the SurA protein folds back and forms part of this domain also but is not included in the current alignment. ; PDB: 3RGC_B 2PV3_B 1M5Y_A.
Probab=44.72 E-value=29 Score=26.68 Aligned_cols=49 Identities=22% Similarity=0.373 Sum_probs=27.4
Q ss_pred HHHHHHHHHHhccccCCcHHHHHHHHHHHHHHHHHHHHHhcchhhhhhc
Q 028682 69 QDQQIDNALLAEGRFYSDLELTEKEIECMVMEVSRAEYLAGDNLKQQLG 117 (205)
Q Consensus 69 e~~~IeqamLedk~~~TD~e~Te~eIeeqV~r~S~~eyl~~~~~k~~~~ 117 (205)
-+..|++.++....+-.-...|++||++.|.+-....-+-...|++.+.
T Consensus 47 Ld~LI~e~L~~q~ak~~gI~vsd~evd~~i~~ia~~n~ls~~ql~~~L~ 95 (118)
T PF09312_consen 47 LDQLIDEKLQLQEAKRLGIKVSDEEVDEAIANIAKQNNLSVEQLRQQLE 95 (118)
T ss_dssp HHHHHHHHHHHHHHHHCT----HHHHHHHHHHHHHHTT--HHHHHHHCH
T ss_pred HHHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHHcCCCHHHHHHHHH
Confidence 4567777777777777778888999988886544333333334455443
No 18
>PF07499 RuvA_C: RuvA, C-terminal domain; InterPro: IPR011114 In prokaryotes, RuvA, RuvB, and RuvC process the universal DNA intermediate of homologous recombination, termed Holliday junction. The tetrameric DNA helicase RuvA specifically binds to the Holliday junction and facilitates the isomerization of the junction from the stacked folded configuration to the square-planar structure []. In the RuvA tetramer, each subunit consists of three domains, I, II and III, where I and II form the major core that is responsible for Holliday junction binding and base pair rearrangements of Holliday junction executed at the crossover point, whereas domain III regulates branch migration through direct contact with RuvB. The domain represents the C-terminal domain III of RuvA. This domain plays a significant role in the ATP-dependent branch migration of the hetero-duplex through direct contact with RuvB []. Within the Holliday junction, this domain makes no interaction with the DNA.; GO: 0005524 ATP binding, 0009378 four-way junction helicase activity, 0006281 DNA repair, 0006310 DNA recombination, 0009379 Holliday junction helicase complex; PDB: 1HJP_A 1CUK_A 1C7Y_A 1IXS_A 1IXR_B 1BVS_E 2ZTC_A 2ZTD_B 2H5X_A.
Probab=43.60 E-value=48 Score=22.05 Aligned_cols=26 Identities=23% Similarity=0.464 Sum_probs=19.8
Q ss_pred cchHHHHHHHHhcchHHHHHHHHHhh
Q 028682 154 VLSNSMQMVLSMGFSYLQVIEAYSIF 179 (205)
Q Consensus 154 ~l~~~~q~~l~mGFs~~qvieAysif 179 (205)
.++..+.-|++.||+-.++-.|.+-+
T Consensus 2 ~~~d~~~AL~~LGy~~~e~~~av~~~ 27 (47)
T PF07499_consen 2 ALEDALEALISLGYSKAEAQKAVSKL 27 (47)
T ss_dssp HHHHHHHHHHHTTS-HHHHHHHHHHH
T ss_pred HHHHHHHHHHHcCCCHHHHHHHHHHh
Confidence 45678899999999887777776655
No 19
>PF02845 CUE: CUE domain; InterPro: IPR003892 This domain may be involved in binding ubiquitin-conjugating enzymes (UBCs). CUE domains also occur in two proteins of the IL-1 signal transduction pathway, tollip and TAB2.; GO: 0005515 protein binding; PDB: 2EKF_A 1OTR_A 1P3Q_Q 1MN3_A 1WGL_A 2EJS_A 2DAE_A 2DHY_A 2DI0_A.
Probab=42.28 E-value=91 Score=19.97 Aligned_cols=36 Identities=19% Similarity=0.204 Sum_probs=24.7
Q ss_pred HHHHHHHHh--cchHHHHHHHHHhhcCChhHHHHHHHH
Q 028682 157 NSMQMVLSM--GFSYLQVIEAYSIFGDDVDSMVCYLLE 192 (205)
Q Consensus 157 ~~~q~~l~m--GFs~~qvieAysifGD~~d~~~~yl~E 192 (205)
+.++.|.+| .++...+..+..-.+.|+|..+..|+|
T Consensus 3 ~~v~~L~~mFP~~~~~~I~~~L~~~~~~ve~ai~~LL~ 40 (42)
T PF02845_consen 3 EMVQQLQEMFPDLDREVIEAVLQANNGDVEAAIDALLE 40 (42)
T ss_dssp HHHHHHHHHSSSS-HHHHHHHHHHTTTTHHHHHHHHHH
T ss_pred HHHHHHHHHCCCCCHHHHHHHHHHcCCCHHHHHHHHHc
Confidence 455666666 446666667777778888888888877
No 20
>TIGR03142 cytochro_ccmI cytochrome c-type biogenesis protein CcmI. This TPR repeat-containing protein is the CcmI protein (also called CycH) of c-type cytochrome biogenesis. CcmI is thought to act as an apo-cytochrome c chaperone. This model describes the N-terminal region of the protein, Members of this protein family
Probab=40.26 E-value=72 Score=24.78 Aligned_cols=47 Identities=15% Similarity=0.193 Sum_probs=39.0
Q ss_pred cccHHHHHHHHHHHHHHHHHHHHHhccccCCcHHHHHHHHHHHHHHH
Q 028682 55 NVDKDQVKAAIKAQQDQQIDNALLAEGRFYSDLELTEKEIECMVMEV 101 (205)
Q Consensus 55 ~aDk~~~~~Ai~~Se~~~IeqamLedk~~~TD~e~Te~eIeeqV~r~ 101 (205)
.++++....++-+.+..++|+-.=+.-+...+++...+||++..+.+
T Consensus 30 ~~~~~~~n~~iyr~qL~ELe~d~~~G~l~~~e~~~~~~El~rrLL~d 76 (117)
T TIGR03142 30 TVDRDELNLAVYRDRLAELERDLAEGLLDEAEAEAARAELQRRLLAD 76 (117)
T ss_pred cccHHHHHHHHHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHHC
Confidence 36788889999999999999987777777888899999998887655
No 21
>KOG1252 consensus Cystathionine beta-synthase and related enzymes [Amino acid transport and metabolism]
Probab=39.51 E-value=42 Score=32.20 Aligned_cols=57 Identities=23% Similarity=0.341 Sum_probs=38.7
Q ss_pred CCCCeeeeecCCCccccccCCCCCcc------cccccCCCCCCCcccHHHHHHHHHHHHHHHHHHHH
Q 028682 17 DNPPIRLSYHHGNHYNSLVDPRRMTV------GAGLGFSCLRGTNVDKDQVKAAIKAQQDQQIDNAL 77 (205)
Q Consensus 17 ~n~PIRLSYH~g~HYNSIvdP~~~tV------GvGLGlp~~~pg~aDk~~~~~Ai~~Se~~~Ieqam 77 (205)
.||++++= =--.+|-++.||-++-- |+|-| |.|+..|.+.|...++.+-++-|+-||
T Consensus 236 ~~~~~kVv-~vdp~~S~~~~~~~~g~~~~~I~GIGyg---~~p~~ld~~~vd~~~~~~~d~A~~~Ar 298 (362)
T KOG1252|consen 236 QNPNIKVV-GVDPQESIVLSGGKPGPTFHKIQGIGYG---FIPTTLDTKLVDEVLKVSSDEAIEMAR 298 (362)
T ss_pred hCCCCEEE-EeCCCcceeccCCCCCCCccceeccccC---cCccccchHHHHHHHHhCCHHHHHHHH
Confidence 45666652 23345556666655442 45555 799999999999999998777776665
No 22
>PRK01490 tig trigger factor; Provisional
Probab=38.22 E-value=70 Score=29.53 Aligned_cols=45 Identities=11% Similarity=0.134 Sum_probs=29.1
Q ss_pred ccCCCCCCCcccHHHHHHHHHHHHHHHHHHHHHhccccCCcHHHHHHHHHHHHHHHHHHHHHhcch
Q 028682 46 LGFSCLRGTNVDKDQVKAAIKAQQDQQIDNALLAEGRFYSDLELTEKEIECMVMEVSRAEYLAGDN 111 (205)
Q Consensus 46 LGlp~~~pg~aDk~~~~~Ai~~Se~~~IeqamLedk~~~TD~e~Te~eIeeqV~r~S~~eyl~~~~ 111 (205)
.-+||||||.|-+..+++=+..+ .-+ +.-+.++.+++.+++++..
T Consensus 39 ~~ipGFRkGkvP~~ii~k~~g~~--------------------i~~-e~~~~li~~~~~~~i~~~~ 83 (435)
T PRK01490 39 VRIPGFRKGKVPRKIVEQRYGES--------------------VRQ-EALNDLLPEAYEEAIKEEG 83 (435)
T ss_pred CcCCCccCCCCCHHHHHHHHhHH--------------------HHH-HHHHHHHHHHHHHHHHHcC
Confidence 56899999999987665544321 112 2233445678888888764
No 23
>KOG3990 consensus Uncharacterized conserved protein [Function unknown]
Probab=36.42 E-value=1.9e+02 Score=27.17 Aligned_cols=13 Identities=46% Similarity=0.386 Sum_probs=10.7
Q ss_pred eeeeecCCCcccc
Q 028682 21 IRLSYHHGNHYNS 33 (205)
Q Consensus 21 IRLSYH~g~HYNS 33 (205)
-|=|-|++-||||
T Consensus 168 ~~~s~~~~gh~~s 180 (305)
T KOG3990|consen 168 HRDSNHRHGHSNS 180 (305)
T ss_pred ccccccccccccc
Confidence 4567899999998
No 24
>KOG0944 consensus Ubiquitin-specific protease UBP14 [Posttranslational modification, protein turnover, chaperones]
Probab=32.47 E-value=33 Score=35.61 Aligned_cols=39 Identities=31% Similarity=0.445 Sum_probs=35.2
Q ss_pred cchHHHHHHHHhcchHHHHHHHHHhhcCChhHHHHHHHH
Q 028682 154 VLSNSMQMVLSMGFSYLQVIEAYSIFGDDVDSMVCYLLE 192 (205)
Q Consensus 154 ~l~~~~q~~l~mGFs~~qvieAysifGD~~d~~~~yl~E 192 (205)
+...+++++++|||+-.|++.|-...--|++-.+-|++=
T Consensus 634 ~~e~~v~si~smGf~~~qa~~aL~~~n~nveravDWif~ 672 (763)
T KOG0944|consen 634 VDEESVASIVSMGFSRNQAIKALKATNNNVERAVDWIFS 672 (763)
T ss_pred CChhHheeeeeecCcHHHHHHHHHhcCccHHHHHHHHHh
Confidence 566788999999999999999999999999999998873
No 25
>PTZ00250 variable surface protein Vir23; Provisional
Probab=32.27 E-value=27 Score=32.89 Aligned_cols=18 Identities=39% Similarity=0.787 Sum_probs=15.2
Q ss_pred HHhhcCChhHHHHHHHHh
Q 028682 176 YSIFGDDVDSMVCYLLET 193 (205)
Q Consensus 176 ysifGD~~d~~~~yl~E~ 193 (205)
+-|||+|||.+++.|+-+
T Consensus 264 ~~~~~~~~~~~~~~~~~~ 281 (350)
T PTZ00250 264 LPIFGNDADDIINILLKV 281 (350)
T ss_pred eeecCCCHHHHHHHHHhh
Confidence 358999999999988655
No 26
>PF13624 SurA_N_3: SurA N-terminal domain; PDB: 3NRK_A.
Probab=27.46 E-value=89 Score=24.07 Aligned_cols=30 Identities=20% Similarity=0.305 Sum_probs=15.8
Q ss_pred HHHHHHHHhccccCCcHHHHHHHHHHHHHH
Q 028682 71 QQIDNALLAEGRFYSDLELTEKEIECMVME 100 (205)
Q Consensus 71 ~~IeqamLedk~~~TD~e~Te~eIeeqV~r 100 (205)
+.|++.+|....+.--...|++||.+++.+
T Consensus 82 ~lI~~~ll~q~A~~~gi~vsd~ev~~~i~~ 111 (154)
T PF13624_consen 82 QLIDQKLLLQEAKKLGISVSDAEVDDAIKQ 111 (154)
T ss_dssp HHHHHHHHHHHHHHTT----HHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHcCCCCCHHHHHHHHHH
Confidence 355566655555555566777787777754
No 27
>PRK10250 hypothetical protein; Provisional
Probab=27.46 E-value=61 Score=25.37 Aligned_cols=38 Identities=18% Similarity=0.392 Sum_probs=29.0
Q ss_pred CCCeeeeec-CCCccccccCCCCCcccccccCCCCCCCcccHHHHHHHHHHHHHH
Q 028682 18 NPPIRLSYH-HGNHYNSLVDPRRMTVGAGLGFSCLRGTNVDKDQVKAAIKAQQDQ 71 (205)
Q Consensus 18 n~PIRLSYH-~g~HYNSIvdP~~~tVGvGLGlp~~~pg~aDk~~~~~Ai~~Se~~ 71 (205)
++.|+=.|| ++-|+|+|... +.++.+++.+.|+.|=+.
T Consensus 68 ~~~i~PayhmnK~hWisi~l~----------------~~v~~~~l~~lI~~Sy~l 106 (122)
T PRK10250 68 YPSIKPGYHMNKKHWISVYPG----------------EDISEALLRDLINDSWNL 106 (122)
T ss_pred cCCcccCcccCcCceEEEecC----------------CCCCHHHHHHHHHHHHHH
Confidence 456777999 88899999743 456788888888887444
No 28
>PF14490 HHH_4: Helix-hairpin-helix containing domain; PDB: 3GPL_A 3E1S_A 3GP8_A.
Probab=27.12 E-value=1.2e+02 Score=22.50 Aligned_cols=34 Identities=24% Similarity=0.388 Sum_probs=24.3
Q ss_pred cchHHHHHHHHhcchHHHHHHHHHhhcCChhHHH
Q 028682 154 VLSNSMQMVLSMGFSYLQVIEAYSIFGDDVDSMV 187 (205)
Q Consensus 154 ~l~~~~q~~l~mGFs~~qvieAysifGD~~d~~~ 187 (205)
.+...|..|...||+...++-.|..||++.=.+|
T Consensus 7 ~~~~~~~~L~~~gl~~~~a~kl~~~yg~~ai~~l 40 (94)
T PF14490_consen 7 GLRELMAFLQEYGLSPKLAMKLYKKYGDDAIEIL 40 (94)
T ss_dssp --HHHHHHHHHTT--HHHHHHHHHHH-TTHHHHH
T ss_pred HHHHHHHHHHHcCCCHHHHHHHHHHHhHHHHHHH
Confidence 4567788999999999999999999999654443
No 29
>PF07271 Cytadhesin_P30: Cytadhesin P30/P32; InterPro: IPR009896 This family consists of several Mycoplasma species specific Cytadhesin P32 and P30 proteins. P30 has been found to be membrane associated and localised on the tip organelle. It is thought that it is important in cytadherence and virulence [].; GO: 0007157 heterophilic cell-cell adhesion, 0009405 pathogenesis, 0016021 integral to membrane
Probab=25.41 E-value=69 Score=29.81 Aligned_cols=16 Identities=19% Similarity=0.495 Sum_probs=12.5
Q ss_pred CCeeeeecCCCccccc
Q 028682 19 PPIRLSYHHGNHYNSL 34 (205)
Q Consensus 19 ~PIRLSYH~g~HYNSI 34 (205)
-|+-|-.|-+-.-|+|
T Consensus 43 ~~~~~v~h~~e~t~~~ 58 (279)
T PF07271_consen 43 SPLNVVLHEEEDTNQI 58 (279)
T ss_pred CCceEEEeccccccee
Confidence 5788888888877775
No 30
>COG4224 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=23.69 E-value=91 Score=24.09 Aligned_cols=29 Identities=31% Similarity=0.345 Sum_probs=20.9
Q ss_pred HHHHHHHHHHH-HHHHHHHHHhcchhhhhhc
Q 028682 88 ELTEKEIECMV-MEVSRAEYLAGDNLKQQLG 117 (205)
Q Consensus 88 e~Te~eIeeqV-~r~S~~eyl~~~~~k~~~~ 117 (205)
-+|++|+++|- +|.-|++-++.+ +|.++-
T Consensus 20 gLTeeEk~eQ~~LR~eYl~~fr~~-vk~~l~ 49 (77)
T COG4224 20 GLTEEEKKEQAKLRREYLESFRGQ-VKNQLE 49 (77)
T ss_pred CCCHHHHHHHHHHHHHHHHHHHHH-HHHhhc
Confidence 36888887665 888888888874 565553
No 31
>PLN03014 carbonic anhydrase
Probab=23.14 E-value=1e+02 Score=29.34 Aligned_cols=33 Identities=12% Similarity=0.098 Sum_probs=26.0
Q ss_pred CcccccCcccchHHHHHHHHhcchHHHHHHHHHh
Q 028682 145 GKGCELSDTVLSNSMQMVLSMGFSYLQVIEAYSI 178 (205)
Q Consensus 145 ~~~~~~~~~~l~~~~q~~l~mGFs~~qvieAysi 178 (205)
.++|-.+.--+++..+.=|++. +|+++|++..-
T Consensus 60 ~~~~~~~~~~~~~~~~~~m~~~-~~~~~~~~~~~ 92 (347)
T PLN03014 60 EPVFAAPAPIIAPYWSEEMGTE-AYDEAIEALKK 92 (347)
T ss_pred CccccCCCcccCchhHhhhchh-hHHHHHHHHHh
Confidence 3788777777999988876554 89999999764
No 32
>COG4260 Membrane protease subunit, stomatin/prohibitin family [Amino acid transport and metabolism]
Probab=21.43 E-value=2.8e+02 Score=26.53 Aligned_cols=94 Identities=21% Similarity=0.239 Sum_probs=59.4
Q ss_pred CcccccccCCCCCCCCCeeeeecCCCccccccCCCCCcccccccCCCCCCCccc---HHHHHHHHHHHHHHHHHHHHHhc
Q 028682 4 AEPINIFHGSYNTDNPPIRLSYHHGNHYNSLVDPRRMTVGAGLGFSCLRGTNVD---KDQVKAAIKAQQDQQIDNALLAE 80 (205)
Q Consensus 4 ~EPINiFh~~~~~~n~PIRLSYH~g~HYNSIvdP~~~tVGvGLGlp~~~pg~aD---k~~~~~Ai~~Se~~~IeqamLed 80 (205)
..|||+|..-|+..- ||| -|+---| -|+||-. .+- -.|++.| .+.|++-+-.-=...+..++=+.
T Consensus 112 ~qpin~~dn~~~g~l-~lR--a~Gtys~-kvtDpi~-fi~-------~I~g~~dvy~v~di~~q~ls~~m~al~tai~q~ 179 (345)
T COG4260 112 PQPINYFDNFYNGEL-FLR--AHGTYSI-KVTDPIL-FIQ-------QIPGNRDVYTVDDINQQYLSEFMGALATAINQS 179 (345)
T ss_pred CCCeeccccccccee-EEe--ecceEEE-EecCHHH-HHH-------hccCCCceEEHHHHHHHHHHHHHHHHHHHHHhc
Confidence 369999998886542 555 4443222 3788865 332 2445443 34444433322223334445667
Q ss_pred cccCCcHHHHHHHHHHHHHHHHHHHHHhc
Q 028682 81 GRFYSDLELTEKEIECMVMEVSRAEYLAG 109 (205)
Q Consensus 81 k~~~TD~e~Te~eIeeqV~r~S~~eyl~~ 109 (205)
+...+|+.+-.-||..-|++.=.++|-+.
T Consensus 180 G~~~~~ltan~~elsk~m~e~Ld~q~~q~ 208 (345)
T COG4260 180 GVRFSFLTANQMELSKYMAEVLDEQWTQY 208 (345)
T ss_pred CceehhhhhhHHHHHHHHHHHHhHHHHhh
Confidence 99999999999999998888877888664
No 33
>PF09145 Ubiq-assoc: Ubiquitin-associated; InterPro: IPR015228 Ubiquitin-associated domains contain approximately 40 residues and bind ubiquitin noncovalently. They adopt a secondary structure consisting of three alpha-helices, and have been identified in various modular proteins involved in protein trafficking, clathrin assembly/disassembly, DNA repair, proteasomal degradation, and cell cycle regulation []. ; PDB: 1PGY_A.
Probab=21.17 E-value=76 Score=22.39 Aligned_cols=22 Identities=18% Similarity=0.297 Sum_probs=15.9
Q ss_pred HHHHHHHHhcchHHHHHHHHHh
Q 028682 157 NSMQMVLSMGFSYLQVIEAYSI 178 (205)
Q Consensus 157 ~~~q~~l~mGFs~~qvieAysi 178 (205)
=.|+.||+.|.+++++.+-|.-
T Consensus 8 MEiAkLMSLGLsid~A~~yYe~ 29 (46)
T PF09145_consen 8 MEIAKLMSLGLSIDKANDYYER 29 (46)
T ss_dssp HHHHHHHHH---SHHHHHHHHH
T ss_pred HHHHHHHHccCCHHHHHHHHHc
Confidence 3578899999999999998864
No 34
>PRK02539 hypothetical protein; Provisional
Probab=20.99 E-value=1.1e+02 Score=23.90 Aligned_cols=29 Identities=14% Similarity=0.085 Sum_probs=21.3
Q ss_pred HHHHHHHH-HHHHHHHHHHHHhcchhhhhhc
Q 028682 88 ELTEKEIE-CMVMEVSRAEYLAGDNLKQQLG 117 (205)
Q Consensus 88 e~Te~eIe-eqV~r~S~~eyl~~~~~k~~~~ 117 (205)
.+|++|.+ ++.+|.-|++.++.+ |++++.
T Consensus 20 gLT~eEk~Eq~~LR~eYl~~fR~~-~~~~L~ 49 (85)
T PRK02539 20 GLTGEEKVEQAKLREEYIEGYRRS-VRHHIE 49 (85)
T ss_pred CCCHHHHHHHHHHHHHHHHHHHHH-HHHHhc
Confidence 56777755 455899999999884 677765
No 35
>PF10359 Fmp27_WPPW: RNA pol II promoter Fmp27 protein domain; InterPro: IPR019449 The function of the FMP27 protein is not known. FMP27 is the product of a nuclear encoded gene but it is detected in highly purified mitochondria in high-throughput studies []. This entry represents a domain within FMP27 that contains characteristic HQR and WPPW sequence motifs.
Probab=20.64 E-value=7.6e+02 Score=23.73 Aligned_cols=20 Identities=30% Similarity=0.659 Sum_probs=15.2
Q ss_pred eeeecCCCccccc--cCCCCCc
Q 028682 22 RLSYHHGNHYNSL--VDPRRMT 41 (205)
Q Consensus 22 RLSYH~g~HYNSI--vdP~~~t 41 (205)
|++|.|...|... .||..-+
T Consensus 123 rFtYfR~~~~~~~~~~~p~~~~ 144 (475)
T PF10359_consen 123 RFTYFRQTDYGDKYQGDPKRSS 144 (475)
T ss_pred ceEEEeecCCCCcCCCCCCcCc
Confidence 8999999999876 5664444
Done!