Query 047479
Match_columns 84
No_of_seqs 126 out of 761
Neff 5.7
Searched_HMMs 46136
Date Fri Mar 29 11:26:15 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/047479.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/047479hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PLN03148 Blue copper-like prot 99.9 2.3E-24 5E-29 151.1 6.3 66 11-82 8-73 (167)
2 PF02298 Cu_bind_like: Plastoc 99.6 2.2E-16 4.7E-21 99.6 1.4 45 34-82 1-46 (85)
3 PF10731 Anophelin: Thrombin i 89.1 0.32 6.9E-06 29.4 1.9 33 1-34 1-33 (65)
4 PRK02710 plastocyanin; Provisi 88.8 1.4 3E-05 28.7 5.0 46 17-69 22-70 (119)
5 PF07172 GRP: Glycine rich pro 88.0 0.42 9.1E-06 30.7 2.1 9 1-9 1-9 (95)
6 PF12961 DUF3850: Domain of Un 80.5 1.2 2.5E-05 27.6 1.5 18 48-65 26-44 (72)
7 PLN00115 pollen allergen group 79.9 12 0.00025 25.0 6.3 36 43-83 70-109 (118)
8 PF02839 CBM_5_12: Carbohydrat 78.4 1.4 3E-05 23.4 1.3 19 42-60 1-19 (41)
9 cd06555 ASCH_PF0470_like ASC-1 77.7 2.4 5.3E-05 27.9 2.5 16 48-63 29-44 (109)
10 PF02362 B3: B3 DNA binding do 67.6 6.5 0.00014 23.8 2.6 22 43-64 63-87 (100)
11 PF10377 ATG11: Autophagy-rela 52.4 11 0.00025 25.2 1.9 19 49-67 41-59 (129)
12 PF14326 DUF4384: Domain of un 52.0 13 0.00028 22.5 2.0 17 50-66 2-18 (83)
13 TIGR02375 pseudoazurin pseudoa 51.3 15 0.00032 24.2 2.2 23 48-70 16-38 (116)
14 PRK12407 flgH flagellar basal 50.7 34 0.00074 25.1 4.3 17 46-62 60-76 (221)
15 PF11604 CusF_Ec: Copper bindi 50.5 13 0.00027 22.2 1.7 26 42-67 34-59 (70)
16 PF04225 OapA: Opacity-associa 48.9 20 0.00044 22.2 2.5 27 49-76 41-67 (85)
17 COG4043 Preprotein translocase 45.3 10 0.00022 25.2 0.7 17 46-62 29-45 (111)
18 PRK11528 hypothetical protein; 45.2 30 0.00066 25.7 3.4 18 33-52 27-45 (254)
19 TIGR00370 conserved hypothetic 44.6 22 0.00048 25.5 2.5 39 22-60 160-202 (202)
20 smart00495 ChtBD3 Chitin-bindi 44.6 17 0.00037 19.0 1.5 18 42-59 1-18 (41)
21 PF02933 CDC48_2: Cell divisio 42.3 19 0.00042 20.6 1.6 16 47-62 15-30 (64)
22 PF09451 ATG27: Autophagy-rela 39.5 30 0.00064 25.5 2.5 27 18-46 218-244 (268)
23 PF00686 CBM_20: Starch bindin 39.1 38 0.00083 20.6 2.7 40 24-63 17-68 (96)
24 PF08139 LPAM_1: Prokaryotic m 38.1 40 0.00088 16.7 2.1 18 4-21 7-24 (25)
25 PF06291 Lambda_Bor: Bor prote 37.9 55 0.0012 21.1 3.3 27 4-31 1-27 (97)
26 TIGR02657 amicyanin amicyanin. 37.3 37 0.00081 20.3 2.4 22 49-70 13-35 (83)
27 PRK09838 periplasmic copper-bi 36.5 35 0.00076 22.5 2.3 22 45-66 83-104 (115)
28 cd04720 BAH_Orc1p_Yeast BAH, o 36.5 26 0.00057 24.5 1.8 24 47-70 49-73 (179)
29 COG3794 PetE Plastocyanin [Ene 35.6 36 0.00078 23.0 2.3 26 46-71 53-79 (128)
30 cd05810 CBM20_alpha_MTH Glucan 35.2 37 0.00079 21.2 2.2 39 24-62 17-63 (97)
31 PF11132 SplA: Transcriptional 35.2 39 0.00085 21.1 2.2 23 49-71 4-27 (75)
32 KOG3416 Predicted nucleic acid 35.1 34 0.00074 23.5 2.1 30 26-60 41-71 (134)
33 PF00127 Copper-bind: Copper b 34.7 52 0.0011 20.2 2.8 24 49-72 19-43 (99)
34 PF00924 MS_channel: Mechanose 33.6 17 0.00036 24.8 0.4 15 46-60 56-70 (206)
35 PRK11479 hypothetical protein; 32.9 60 0.0013 24.6 3.3 29 33-61 41-75 (274)
36 cd05808 CBM20_alpha_amylase Al 32.4 61 0.0013 19.4 2.8 39 24-62 16-62 (95)
37 KOG1546 Metacaspase involved i 31.2 30 0.00064 27.4 1.4 12 52-63 136-147 (362)
38 KOG3858 Ephrin, ligand for Eph 31.0 1.3E+02 0.0028 22.4 4.7 29 51-82 47-83 (233)
39 COG1430 Uncharacterized conser 30.0 28 0.00061 23.5 1.0 21 43-63 103-123 (126)
40 cd05820 CBM20_novamyl Novamyl 29.9 49 0.0011 20.7 2.1 40 24-63 20-70 (103)
41 PRK13838 conjugal transfer pil 28.7 26 0.00057 24.5 0.7 17 47-63 47-63 (176)
42 PRK00809 hypothetical protein; 28.2 65 0.0014 21.9 2.6 15 49-63 33-47 (144)
43 PF01345 DUF11: Domain of unkn 27.9 53 0.0012 19.0 1.9 21 41-61 27-47 (76)
44 cd00033 CCP Complement control 27.6 91 0.002 16.1 2.7 19 47-65 15-33 (57)
45 TIGR03102 halo_cynanin halocya 27.5 58 0.0013 21.3 2.2 21 49-69 44-66 (115)
46 TIGR01024 rplS_bact ribosomal 27.0 44 0.00095 22.2 1.5 14 49-62 17-30 (113)
47 PRK10861 signal peptidase I; P 27.0 2.1E+02 0.0045 22.1 5.4 17 48-64 123-139 (324)
48 PF01245 Ribosomal_L19: Riboso 26.4 41 0.00089 22.2 1.3 14 49-62 17-30 (113)
49 CHL00084 rpl19 ribosomal prote 26.3 46 0.00099 22.2 1.5 13 49-61 21-33 (117)
50 PRK03760 hypothetical protein; 26.0 36 0.00077 22.4 1.0 19 43-61 98-116 (117)
51 PF00084 Sushi: Sushi domain ( 25.9 98 0.0021 16.1 2.7 18 49-66 17-34 (56)
52 PRK06763 F0F1 ATP synthase sub 25.7 42 0.00091 24.7 1.3 19 43-61 157-175 (213)
53 PF13538 UvrD_C_2: UvrD-like h 25.6 45 0.00096 20.0 1.3 16 51-66 1-16 (104)
54 PRK10808 outer membrane protei 25.5 55 0.0012 24.7 2.0 13 25-37 27-39 (351)
55 PRK06461 single-stranded DNA-b 25.1 1.1E+02 0.0024 20.0 3.3 30 26-60 44-74 (129)
56 PRK12696 flgH flagellar basal 25.0 1.2E+02 0.0027 22.3 3.7 17 46-62 61-77 (236)
57 PF11663 Toxin_YhaV: Toxin wit 24.7 1.3E+02 0.0027 20.9 3.5 58 19-83 52-111 (140)
58 PRK12698 flgH flagellar basal 24.7 1.1E+02 0.0023 22.5 3.3 17 46-62 59-75 (224)
59 PF02989 DUF228: Lyme disease 24.5 52 0.0011 23.8 1.6 23 40-62 116-140 (184)
60 smart00032 CCP Domain abundant 24.2 79 0.0017 16.2 2.0 18 48-65 17-34 (57)
61 TIGR02228 sigpep_I_arch signal 24.2 2.4E+02 0.0052 19.3 6.1 18 47-64 57-74 (158)
62 PRK10334 mechanosensitive chan 23.3 43 0.00094 25.0 1.1 14 47-60 126-139 (286)
63 PRK11546 zraP zinc resistance 22.9 81 0.0017 21.8 2.3 28 8-36 11-38 (143)
64 PRK12701 flgH flagellar basal 22.6 1.6E+02 0.0035 21.6 4.0 17 46-62 64-80 (230)
65 PRK05338 rplS 50S ribosomal pr 22.5 58 0.0013 21.7 1.5 14 49-62 17-30 (116)
66 PLN00212 glutelin; Provisional 22.4 66 0.0014 26.3 2.0 23 1-23 1-23 (493)
67 COG3655 Predicted transcriptio 22.4 51 0.0011 20.3 1.1 14 51-64 57-70 (73)
68 PF00278 Orn_DAP_Arg_deC: Pyri 22.3 37 0.00081 21.0 0.5 14 49-62 81-94 (116)
69 COG5661 Predicted secreted Zn- 22.1 62 0.0014 23.7 1.7 11 26-36 37-47 (210)
70 PF14478 DUF4430: Domain of un 21.6 55 0.0012 19.0 1.1 15 46-60 54-68 (68)
71 PF15240 Pro-rich: Proline-ric 21.2 49 0.0011 23.7 1.0 6 18-23 13-18 (179)
72 cd05811 CBM20_glucoamylase Glu 21.1 93 0.002 19.2 2.2 38 25-62 23-72 (106)
73 PF14283 DUF4366: Domain of un 20.9 1.3E+02 0.0029 21.9 3.2 24 57-81 88-111 (218)
74 PF12158 DUF3592: Protein of u 20.8 89 0.0019 19.8 2.1 19 50-68 91-109 (148)
75 cd04370 BAH BAH, or Bromo Adja 20.7 85 0.0018 19.1 1.9 16 48-63 1-16 (123)
76 PF05899 Cupin_3: Protein of u 20.6 55 0.0012 19.3 1.0 27 49-77 46-72 (74)
77 cd05467 CBM20 The family 20 ca 20.6 1.3E+02 0.0028 17.9 2.7 40 24-63 15-65 (96)
78 TIGR03511 GldH_lipo gliding mo 20.5 3E+02 0.0065 19.0 4.9 22 15-36 15-40 (156)
79 TIGR02656 cyanin_plasto plasto 20.4 1.2E+02 0.0026 18.7 2.5 23 48-70 18-41 (99)
80 PF11442 DUF2826: Protein of u 20.4 1E+02 0.0022 21.3 2.4 28 9-36 9-36 (161)
81 cd05807 CBM20_CGTase CGTase, C 20.3 87 0.0019 19.3 1.9 40 24-63 19-70 (101)
82 COG3354 FlaG Putative archaeal 20.1 69 0.0015 22.5 1.5 7 1-7 1-7 (154)
83 cd00164 S1_like S1_like: Ribos 20.1 71 0.0015 16.7 1.3 15 48-62 39-53 (65)
No 1
>PLN03148 Blue copper-like protein; Provisional
Probab=99.90 E-value=2.3e-24 Score=151.14 Aligned_cols=66 Identities=23% Similarity=0.432 Sum_probs=57.6
Q ss_pred HHHHHHhchhccceEEEecCCCCCcccCCCCcccccCCCceeeCCEEEEeecCCCcceEEeccccchhhhcc
Q 047479 11 LTIMALFGASVAATTYTVGDNAGWTTQGKVDYYSWVDGKEFKVGDTLGESLKLRKNEKFYLQNEKSKRNYLA 82 (84)
Q Consensus 11 ~~~~~~~~~~~~a~~~~VG~~~gW~~~~~~~Y~~Wa~~~~F~vGD~L~F~Y~~~~~sV~~v~~ev~k~~Y~~ 82 (84)
+++++++...+.|++|+|||+.||++ +.||++|+++|+|++||+|+|+|++++|||+| |+|++|++
T Consensus 8 ~~~~~~~~~~~~a~~~~VGd~~GW~~--~~~Y~~WA~~k~F~VGD~LvF~Y~~~~hnV~~----V~~~~Y~~ 73 (167)
T PLN03148 8 CFFALFSASATTATDHIVGANKGWNP--GINYTLWANNQTFYVGDLISFRYQKTQYNVFE----VNQTGYDN 73 (167)
T ss_pred HHHHHHhhhhccceEEEeCCCCCcCC--CCChhHhhcCCCCccCCEEEEEecCCCceEEE----EChHHcCc
Confidence 33334556678899999999999996 77999999999999999999999999999965 58999986
No 2
>PF02298 Cu_bind_like: Plastocyanin-like domain; InterPro: IPR003245 Blue (type 1) copper proteins are small proteins which bind a single copper atom and which are characterised by an intense electronic absorption band near 600 nm [, ]. The most well known members of this class of proteins are the plant chloroplastic plastocyanins, which exchange electrons with cytochrome c6, and the distantly related bacterial azurins, which exchange electrons with cytochrome c551. This family of proteins also includes amicyanin from bacteria such as Methylobacterium extorquens or Paracoccus versutus (Thiobacillus versutus) that can grow on methylamine; auracyanins A and B from Chloroflexus aurantiacus []; blue copper protein from Alcaligenes faecalis; cupredoxin (CPC) from Cucumis sativus (Cucumber) peelings []; cusacyanin (basic blue protein; plantacyanin, CBP) from cucumber; halocyanin from Natronomonas pharaonis (Natronobacterium pharaonis) [], a membrane associated copper-binding protein; pseudoazurin from Pseudomonas; rusticyanin from Thiobacillus ferrooxidans []; stellacyanin from Rhus vernicifera (Japanese lacquer tree); umecyanin from the roots of Armoracia rusticana (Horseradish); and allergen Ra3 from ragweed. Although there is an appreciable amount of divergence in the sequences of all these proteins, the copper ligand sites are conserved. This domain is found in a variety of plant cyanins and pollern allergen. Some of the proteins in this family are allergens. Allergies are hypersensitivity reactions of the immune system to specific substances called allergens (such as pollen, stings, drugs, or food) that, in most people, result in no symptoms. A nomenclature system has been established for antigens (allergens) that cause IgE-mediated atopic allergies in humans [WHO/IUIS Allergen Nomenclature Subcommittee King T.P., Hoffmann D., Loewenstein H., Marsh D.G., Platts-Mills T.A.E., Thomas W. Bull. World Health Organ. 72:797-806(1994)]. This nomenclature system is defined by a designation that is composed of the first three letters of the genus; a space; the first letter of the species name; a space and an arabic number. In the event that two species names have identical designations, they are discriminated from one another by adding one or more letters (as necessary) to each species designation. The allergens in this family include allergens with the following designations: Amb a 3.; GO: 0005507 copper ion binding, 0009055 electron carrier activity; PDB: 1JER_A 1WS7_A 1WS8_D 1F56_B 1X9R_B 1X9U_A 2CBP_A.
Probab=99.60 E-value=2.2e-16 Score=99.61 Aligned_cols=45 Identities=33% Similarity=0.573 Sum_probs=35.5
Q ss_pred CcccC-CCCcccccCCCceeeCCEEEEeecCCCcceEEeccccchhhhcc
Q 047479 34 WTTQG-KVDYYSWVDGKEFKVGDTLGESLKLRKNEKFYLQNEKSKRNYLA 82 (84)
Q Consensus 34 W~~~~-~~~Y~~Wa~~~~F~vGD~L~F~Y~~~~~sV~~v~~ev~k~~Y~~ 82 (84)
|++|+ +.+|++||++|+|+|||+|+|+|+++.|+|+| |+|++|++
T Consensus 1 W~~~~~~~~Y~~Wa~~~~F~vGD~LvF~y~~~~h~V~~----V~~~~y~~ 46 (85)
T PF02298_consen 1 WTIPTNASNYTDWASGKTFRVGDTLVFNYDSGQHSVVE----VSKADYDS 46 (85)
T ss_dssp SSSSSSTTHHHHHHCTS-BETTEEEEEE--TTTB-EEE----ESHHHHHH
T ss_pred CccCCCccchhHhhcCCcEeCCCEEEEEecCCCCeEEe----cChhhCcc
Confidence 77753 35899999999999999999999999999965 57999975
No 3
>PF10731 Anophelin: Thrombin inhibitor from mosquito; InterPro: IPR018932 Members of this family are all inhibitors of thrombin, the peptidase that is at the end of the blood coagulation cascade and which creates the clot by cleaving fibrinogen. The interaction between thrombin and fibrinogen involves two different areas of contact - via the thrombin active site and via a second substrate-binding site known as an exosite. The inhibitor acts by blocking the exosite, rather than by interacting with the active site. The inhibitors are from mosquitoes that feed on human blood and which, by inhibiting thrombin, prevent the blood from clotting and keep it flowing.
Probab=89.12 E-value=0.32 Score=29.44 Aligned_cols=33 Identities=33% Similarity=0.493 Sum_probs=22.2
Q ss_pred CcchhHHHHHHHHHHHhchhccceEEEecCCCCC
Q 047479 1 MAAAKSAVISLTIMALFGASVAATTYTVGDNAGW 34 (84)
Q Consensus 1 Ma~~~~~l~~~~~~~~~~~~~~a~~~~VG~~~gW 34 (84)
|| +|.+++.++|+++.+-.-+|-+|.-|+....
T Consensus 1 MA-~Kl~vialLC~aLva~vQ~APQYa~GeeP~Y 33 (65)
T PF10731_consen 1 MA-SKLIVIALLCVALVAIVQSAPQYAPGEEPSY 33 (65)
T ss_pred Cc-chhhHHHHHHHHHHHHHhcCcccCCCCCCCc
Confidence 66 4556666666666555667888998876544
No 4
>PRK02710 plastocyanin; Provisional
Probab=88.78 E-value=1.4 Score=28.69 Aligned_cols=46 Identities=26% Similarity=0.232 Sum_probs=26.5
Q ss_pred hchhccceEEEe--cCCCCCcccCCCCcccccCCCceeeCCEEEEeec-CCCcceE
Q 047479 17 FGASVAATTYTV--GDNAGWTTQGKVDYYSWVDGKEFKVGDTLGESLK-LRKNEKF 69 (84)
Q Consensus 17 ~~~~~~a~~~~V--G~~~gW~~~~~~~Y~~Wa~~~~F~vGD~L~F~Y~-~~~~sV~ 69 (84)
....+.+++++| |.+.|+-. | -.+.-+..+||++.|.-. ...|++.
T Consensus 22 ~~~~a~a~~~~V~~~~~~~~~~-----F--~P~~i~v~~Gd~V~~~N~~~~~H~v~ 70 (119)
T PRK02710 22 GVSSASAETVEVKMGSDAGMLA-----F--EPSTLTIKAGDTVKWVNNKLAPHNAV 70 (119)
T ss_pred cccccccceEEEEEccCCCeeE-----E--eCCEEEEcCCCEEEEEECCCCCceEE
Confidence 334456666664 44434321 1 124457889999999863 3567763
No 5
>PF07172 GRP: Glycine rich protein family; InterPro: IPR010800 This family consists of glycine rich proteins. Some of them may be involved in resistance to environmental stress [].
Probab=88.00 E-value=0.42 Score=30.74 Aligned_cols=9 Identities=22% Similarity=0.283 Sum_probs=4.9
Q ss_pred CcchhHHHH
Q 047479 1 MAAAKSAVI 9 (84)
Q Consensus 1 Ma~~~~~l~ 9 (84)
|||.+..||
T Consensus 1 MaSK~~llL 9 (95)
T PF07172_consen 1 MASKAFLLL 9 (95)
T ss_pred CchhHHHHH
Confidence 895444443
No 6
>PF12961 DUF3850: Domain of Unknown Function with PDB structure (DUF3850)
Probab=80.50 E-value=1.2 Score=27.60 Aligned_cols=18 Identities=28% Similarity=0.423 Sum_probs=13.4
Q ss_pred CCceeeCCEEEEe-ecCCC
Q 047479 48 GKEFKVGDTLGES-LKLRK 65 (84)
Q Consensus 48 ~~~F~vGD~L~F~-Y~~~~ 65 (84)
.+.|+|||.|.++ |+++.
T Consensus 26 DRdf~VGD~L~L~E~~~~~ 44 (72)
T PF12961_consen 26 DRDFQVGDILVLREWDNGE 44 (72)
T ss_pred CCCCCCCCEEEEEEecCCC
Confidence 4789999999985 44443
No 7
>PLN00115 pollen allergen group 3; Provisional
Probab=79.87 E-value=12 Score=25.04 Aligned_cols=36 Identities=14% Similarity=0.333 Sum_probs=20.3
Q ss_pred cccc--CCCceeeCCEEEEeecC--CCcceEEeccccchhhhccC
Q 047479 43 YSWV--DGKEFKVGDTLGESLKL--RKNEKFYLQNEKSKRNYLAG 83 (84)
Q Consensus 43 ~~Wa--~~~~F~vGD~L~F~Y~~--~~~sV~~v~~ev~k~~Y~~~ 83 (84)
..|. +++.++ | -|.|+... +.. .|..+|-.+++..|
T Consensus 70 avW~~~s~~pl~-G-PlS~R~t~~~G~~---~va~nViPa~Wk~G 109 (118)
T PLN00115 70 NTWTLKSKAPLK-G-PFSVRFLVKGGGY---RVVDDVIPESFKAG 109 (118)
T ss_pred ceeEecCCCCCC-C-ceEEEEEEeCCCE---EEECceECCCCCCC
Confidence 4465 333444 6 78888854 333 22356777776655
No 8
>PF02839 CBM_5_12: Carbohydrate binding domain; InterPro: IPR003610 A carbohydrate-binding module (CBM) is defined as a contiguous amino acid sequence within a carbohydrate-active enzyme with a discreet fold having carbohydrate-binding activity. A few exceptions are CBMs in cellulosomal scaffolding proteins and rare instances of independent putative CBMs. The requirement of CBMs existing as modules within larger enzymes sets this class of carbohydrate-binding protein apart from other non-catalytic sugar binding proteins such as lectins and sugar transport proteins. CBMs were previously classified as cellulose-binding domains (CBDs) based on the initial discovery of several modules that bound cellulose [, ]. However, additional modules in carbohydrate-active enzymes are continually being found that bind carbohydrates other than cellulose yet otherwise meet the CBM criteria, hence the need to reclassify these polypeptides using more inclusive terminology. Previous classification of cellulose-binding domains were based on amino acid similarity. Groupings of CBDs were called "Types" and numbered with roman numerals (e.g. Type I or Type II CBDs). In keeping with the glycoside hydrolase classification, these groupings are now called families and numbered with Arabic numerals. Families 1 to 13 are the same as Types I to XIII. For a detailed review on the structure and binding modes of CBMs see []. This entry represents CBM5 from CAZY and CBM12 from CAZY. These modules have a core structure consisting of a 3-stranded meander beta-sheet, which contain six aromatic groups that may be important for binding. CBM5/12 is found in proteins such as chitinase A1, chitinase B [], and endoglucanase Z []. The overall topology of the CBM is structurally similar to the C-terminal chitin-binding domains (ChBD) of chitinase A1 and chitinase B, however the binding mechanism for the ChBD may be different from that of the CBM [].; GO: 0004553 hydrolase activity, hydrolyzing O-glycosyl compounds, 0030246 carbohydrate binding, 0005975 carbohydrate metabolic process, 0005576 extracellular region; PDB: 1ED7_A 1W1V_A 1E15_B 1UR8_A 1E6Z_B 1E6P_A 1W1T_A 1W1P_B 1UR9_A 1E6R_A ....
Probab=78.39 E-value=1.4 Score=23.35 Aligned_cols=19 Identities=26% Similarity=0.711 Sum_probs=11.5
Q ss_pred cccccCCCceeeCCEEEEe
Q 047479 42 YYSWVDGKEFKVGDTLGES 60 (84)
Q Consensus 42 Y~~Wa~~~~F~vGD~L~F~ 60 (84)
|..|..++....||.+.|+
T Consensus 1 ~p~W~~~~~Y~~Gd~V~~~ 19 (41)
T PF02839_consen 1 YPAWDPGTTYNAGDRVSYN 19 (41)
T ss_dssp --B--TTCEE-TT-EEEET
T ss_pred CCCcCCCCEEcCCCEEEEC
Confidence 5689999999999999864
No 9
>cd06555 ASCH_PF0470_like ASC-1 homology domain, subfamily similar to Pyrococcus furiosus Pf0470. The ASCH domain, a small beta-barrel domain found in all three kingdoms of life, resembles the RNA-binding PUA domain and may also interact with RNA. ASCH has been proposed to function as an RNA-binding domain during coactivation, RNA-processing and the regulation of prokaryotic translation.
Probab=77.68 E-value=2.4 Score=27.88 Aligned_cols=16 Identities=25% Similarity=0.137 Sum_probs=12.8
Q ss_pred CCceeeCCEEEEeecC
Q 047479 48 GKEFKVGDTLGESLKL 63 (84)
Q Consensus 48 ~~~F~vGD~L~F~Y~~ 63 (84)
+++|++||.|+|+=-.
T Consensus 29 r~~ikvGD~I~f~~~~ 44 (109)
T cd06555 29 RQQIKVGDKILFNDLD 44 (109)
T ss_pred hhcCCCCCEEEEEEcC
Confidence 3689999999996543
No 10
>PF02362 B3: B3 DNA binding domain; InterPro: IPR003340 Two DNA binding proteins, RAV1 and RAV2 from Arabidopsis thaliana contain two distinct amino acid sequence domains found only in higher plant species. The N-terminal regions of RAV1 and RAV2 are homologous to the AP2 DNA-binding domain (see IPR001471 from INTERPRO) present in a family of transcription factors, while the C-terminal region exhibits homology to the highly conserved C-terminal domain, designated B3, of VP1/ABI3 transcription factors []. The AP2 and B3-like domains of RAV1 bind autonomously to the CAACA and CACCTG motifs, respectively, and together achieve a high affinity and specificity of binding. It has been suggested that the AP2 and B3-like domains of RAV1 are connected by a highly flexible structure enabling the two domains to bind to the CAACA and CACCTG motifs in various spacings and orientations [].; GO: 0003677 DNA binding, 0006355 regulation of transcription, DNA-dependent; PDB: 1WID_A 1YEL_A.
Probab=67.64 E-value=6.5 Score=23.78 Aligned_cols=22 Identities=27% Similarity=0.270 Sum_probs=14.4
Q ss_pred ccc---cCCCceeeCCEEEEeecCC
Q 047479 43 YSW---VDGKEFKVGDTLGESLKLR 64 (84)
Q Consensus 43 ~~W---a~~~~F~vGD~L~F~Y~~~ 64 (84)
..| +..+..++||.++|.+...
T Consensus 63 ~GW~~Fv~~n~L~~GD~~~F~~~~~ 87 (100)
T PF02362_consen 63 GGWKKFVRDNGLKEGDVCVFELIGN 87 (100)
T ss_dssp TTHHHHHHHCT--TT-EEEEEE-SS
T ss_pred CCHHHHHHHcCCCCCCEEEEEEecC
Confidence 356 6679999999999999854
No 11
>PF10377 ATG11: Autophagy-related protein 11; InterPro: IPR019460 This family consists of proteins involved in telomere maintenance. In Schizosaccharomyces pombe (fission yeast) this protein is called Taf1 (taz1 interacting factor) and is part of the telomere cap complex. In Saccharomyces cerevisiae (baker's yeast) this protein is called ATG11 and is known to be involved in vacuolar targeting and peroxisome degradation [, ].
Probab=52.38 E-value=11 Score=25.15 Aligned_cols=19 Identities=26% Similarity=0.319 Sum_probs=16.5
Q ss_pred CceeeCCEEEEeecCCCcc
Q 047479 49 KEFKVGDTLGESLKLRKNE 67 (84)
Q Consensus 49 ~~F~vGD~L~F~Y~~~~~s 67 (84)
++|++||...|-.++.+++
T Consensus 41 ~~f~~GDlvLflpt~~~~~ 59 (129)
T PF10377_consen 41 RNFQVGDLVLFLPTRNHNN 59 (129)
T ss_pred ecCCCCCEEEEEecCCCCc
Confidence 6899999999999987664
No 12
>PF14326 DUF4384: Domain of unknown function (DUF4384)
Probab=51.98 E-value=13 Score=22.46 Aligned_cols=17 Identities=12% Similarity=0.395 Sum_probs=14.2
Q ss_pred ceeeCCEEEEeecCCCc
Q 047479 50 EFKVGDTLGESLKLRKN 66 (84)
Q Consensus 50 ~F~vGD~L~F~Y~~~~~ 66 (84)
.|++||.|.|.+...++
T Consensus 2 ~~~~Ge~v~~~~~~~~~ 18 (83)
T PF14326_consen 2 VYRVGERVRFRVTSNRD 18 (83)
T ss_pred cccCCCEEEEEEEeCCC
Confidence 68999999999987653
No 13
>TIGR02375 pseudoazurin pseudoazurin. Pseudoazurin, also called cupredoxin, is a small, blue periplasmic protein with a single bound copper atom. Pseudoazurin is related plastocyanins. Several examples of pseudoazurin are encoded by a neighboring gene for, or have been shown to transfer electrons to, copper-containing nitrite reductases (TIGR02376) of the same species.
Probab=51.26 E-value=15 Score=24.22 Aligned_cols=23 Identities=13% Similarity=-0.151 Sum_probs=17.7
Q ss_pred CCceeeCCEEEEeecCCCcceEE
Q 047479 48 GKEFKVGDTLGESLKLRKNEKFY 70 (84)
Q Consensus 48 ~~~F~vGD~L~F~Y~~~~~sV~~ 70 (84)
.-+.++||++.|.-....|+|..
T Consensus 16 ~v~V~~GdTV~f~n~d~~Hnv~~ 38 (116)
T TIGR02375 16 YIRAAPGDTVTFVPTDKGHNVET 38 (116)
T ss_pred EEEECCCCEEEEEECCCCeeEEE
Confidence 35778999999988666687754
No 14
>PRK12407 flgH flagellar basal body L-ring protein; Reviewed
Probab=50.67 E-value=34 Score=25.06 Aligned_cols=17 Identities=35% Similarity=0.599 Sum_probs=13.3
Q ss_pred cCCCceeeCCEEEEeec
Q 047479 46 VDGKEFKVGDTLGESLK 62 (84)
Q Consensus 46 a~~~~F~vGD~L~F~Y~ 62 (84)
..+|..+|||.|...-.
T Consensus 60 ~D~rA~~VGDiiTV~i~ 76 (221)
T PRK12407 60 QDRRAYRVGDILTVILD 76 (221)
T ss_pred ccccccCCCCEEEEEEE
Confidence 55788999999976653
No 15
>PF11604 CusF_Ec: Copper binding periplasmic protein CusF; InterPro: IPR021647 CusF is a periplasmic protein involved in copper and silver resistance in Escherichia coil. CusF forms a five-stranded beta-barrel OB fold. Cu(I) binds to H36, M47 and M49 which are conserved residues in the protein []. ; PDB: 2L55_A 2VB3_X 1ZEQ_X 2QCP_X 3E6Z_X 2VB2_X.
Probab=50.49 E-value=13 Score=22.19 Aligned_cols=26 Identities=19% Similarity=0.138 Sum_probs=16.5
Q ss_pred cccccCCCceeeCCEEEEeecCCCcc
Q 047479 42 YYSWVDGKEFKVGDTLGESLKLRKNE 67 (84)
Q Consensus 42 Y~~Wa~~~~F~vGD~L~F~Y~~~~~s 67 (84)
..+-+.-..|++||.+.|.+......
T Consensus 34 v~~~~~l~~l~~Gd~V~F~~~~~~~~ 59 (70)
T PF11604_consen 34 VADPVDLAGLKPGDKVRFTFERTDDG 59 (70)
T ss_dssp --TTSEESS-STT-EEEEEEEEETTC
T ss_pred cCChhhhhcCCCCCEEEEEEEECCCC
Confidence 34455567899999999999764433
No 16
>PF04225 OapA: Opacity-associated protein A LysM-like domain; InterPro: IPR007340 This entry includes the Haemophilus influenzae opacity-associated protein. This protein is required for efficient nasopharyngeal mucosal colonization, and its expression is associated with a distinctive transparent colony phenotype. OapA is thought to be a secreted protein, and its expression exhibits high-frequency phase variation [].; PDB: 2GU1_A.
Probab=48.94 E-value=20 Score=22.16 Aligned_cols=27 Identities=30% Similarity=0.286 Sum_probs=14.9
Q ss_pred CceeeCCEEEEeecCCCcceEEeccccc
Q 047479 49 KEFKVGDTLGESLKLRKNEKFYLQNEKS 76 (84)
Q Consensus 49 ~~F~vGD~L~F~Y~~~~~sV~~v~~ev~ 76 (84)
.++++||+|.|..++. ..+.++..+.+
T Consensus 41 ~~L~pGq~l~f~~d~~-g~L~~L~~~~~ 67 (85)
T PF04225_consen 41 TRLKPGQTLEFQLDED-GQLTALRYERS 67 (85)
T ss_dssp GG--TT-EEEEEE-TT-S-EEEEEEEEE
T ss_pred hhCCCCCEEEEEECCC-CCEEEEEEEcC
Confidence 4799999999999864 34555544443
No 17
>COG4043 Preprotein translocase subunit Sec61beta [Intracellular trafficking, secretion, and vesicular transport]
Probab=45.34 E-value=10 Score=25.24 Aligned_cols=17 Identities=18% Similarity=0.145 Sum_probs=14.1
Q ss_pred cCCCceeeCCEEEEeec
Q 047479 46 VDGKEFKVGDTLGESLK 62 (84)
Q Consensus 46 a~~~~F~vGD~L~F~Y~ 62 (84)
+++++..+||+++|+=+
T Consensus 29 ~krr~ik~GD~IiF~~~ 45 (111)
T COG4043 29 PKRRQIKPGDKIIFNGD 45 (111)
T ss_pred HhhcCCCCCCEEEEcCC
Confidence 46788999999999853
No 18
>PRK11528 hypothetical protein; Provisional
Probab=45.19 E-value=30 Score=25.71 Aligned_cols=18 Identities=22% Similarity=0.660 Sum_probs=11.8
Q ss_pred CCc-ccCCCCcccccCCCcee
Q 047479 33 GWT-TQGKVDYYSWVDGKEFK 52 (84)
Q Consensus 33 gW~-~~~~~~Y~~Wa~~~~F~ 52 (84)
+|. + +.+|-.|.+.-..+
T Consensus 27 ~w~di--s~~yl~W~~~~e~~ 45 (254)
T PRK11528 27 GFANI--SLNYLDWTSRTTEK 45 (254)
T ss_pred cccce--eehhhhhhcccccc
Confidence 675 4 56788887774443
No 19
>TIGR00370 conserved hypothetical protein TIGR00370.
Probab=44.62 E-value=22 Score=25.49 Aligned_cols=39 Identities=18% Similarity=0.355 Sum_probs=24.6
Q ss_pred cceEEEecCCCCCcccCCCCcccccCCC----ceeeCCEEEEe
Q 047479 22 AATTYTVGDNAGWTTQGKVDYYSWVDGK----EFKVGDTLGES 60 (84)
Q Consensus 22 ~a~~~~VG~~~gW~~~~~~~Y~~Wa~~~----~F~vGD~L~F~ 60 (84)
....|-.=...||.+-+.....=|..++ -|++||.+.|.
T Consensus 160 qt~IYp~~sPGGW~iIGrTp~~lfd~~~~~p~ll~~GD~VrF~ 202 (202)
T TIGR00370 160 QTGVYPISTPGGWQLIGKTPLALFDPQENPPTLLRAGDIVKFV 202 (202)
T ss_pred ceEEEccCCCCcceEeeecchhhhCCCCCCCcccCCCCEEEeC
Confidence 3445666667789875443333344333 48999999984
No 20
>smart00495 ChtBD3 Chitin-binding domain type 3.
Probab=44.62 E-value=17 Score=19.03 Aligned_cols=18 Identities=22% Similarity=0.540 Sum_probs=14.5
Q ss_pred cccccCCCceeeCCEEEE
Q 047479 42 YYSWVDGKEFKVGDTLGE 59 (84)
Q Consensus 42 Y~~Wa~~~~F~vGD~L~F 59 (84)
|..|..++....||.+.+
T Consensus 1 ~~~W~~~~~Y~~Gd~V~~ 18 (41)
T smart00495 1 APAWQAGTVYTAGDVVSY 18 (41)
T ss_pred CCccCCCCcCcCCCEEEE
Confidence 457888888889998865
No 21
>PF02933 CDC48_2: Cell division protein 48 (CDC48), domain 2; InterPro: IPR004201 This domain has a double psi-beta barrel fold and includes VCP-like ATPase and N-ethylmaleimide sensitive fusion protein N-terminal domains. Both the VAT and NSF N-terminal functional domains consist of two structural domains of which this is at the C terminus. The VAT-N domain found in AAA ATPases (IPR003959 from INTERPRO) is a substrate 185-residue recognition domain [].; GO: 0005524 ATP binding; PDB: 1QDN_B 1QCS_A 1CR5_C 3QQ8_A 3HU2_A 3HU1_E 3HU3_A 3QWZ_A 3TIW_B 3QQ7_A ....
Probab=42.35 E-value=19 Score=20.64 Aligned_cols=16 Identities=25% Similarity=0.387 Sum_probs=13.1
Q ss_pred CCCceeeCCEEEEeec
Q 047479 47 DGKEFKVGDTLGESLK 62 (84)
Q Consensus 47 ~~~~F~vGD~L~F~Y~ 62 (84)
.++.|..||.+.|.+.
T Consensus 15 ~~~pv~~Gd~i~~~~~ 30 (64)
T PF02933_consen 15 EGRPVTKGDTIVFPFF 30 (64)
T ss_dssp TTEEEETT-EEEEEET
T ss_pred cCCCccCCCEEEEEeC
Confidence 3588999999999996
No 22
>PF09451 ATG27: Autophagy-related protein 27; InterPro: IPR018939 Autophagy is a degradative transport pathway that delivers cytosolic proteins to the lysosome (vacuole) [] and is induced by starvation []. Cytosolic proteins appear inside the vacuole enclosed in autophagic vesicles. Autophagy significantly differs from other transport pathways by using double membrane layered transport intermediates, called autophagosomes [, ]. The breakdown of vesicular transport intermediates is a unique feature of autophagy []. Autophagy can also function in the elimination of invading bacteria and antigens []. There are more than 25 AuTophaGy-related (ATG) genes that are essential for autophagy, although it is still not known how the autophagosome is made. Atg9 is a potential membrane carrier to deliver lipids that are used to form the vesicle. Atg27 is another transmembrane protein, and is a cycling protein []. It acts as an effector of VPS34 phosphatidylinositol 3-phosphate kinase signalling and regulates the cytoplasm to vacuole transport (Cvt) vesicle formation. It is also required for autophagy-dependent cycling of ATG9.
Probab=39.52 E-value=30 Score=25.51 Aligned_cols=27 Identities=11% Similarity=0.051 Sum_probs=18.5
Q ss_pred chhccceEEEecCCCCCcccCCCCccccc
Q 047479 18 GASVAATTYTVGDNAGWTTQGKVDYYSWV 46 (84)
Q Consensus 18 ~~~~~a~~~~VG~~~gW~~~~~~~Y~~Wa 46 (84)
+..-+-.+|..++..||..-|+ +.-|.
T Consensus 218 ~i~g~~~n~~~~g~~g~e~iP~--~dfw~ 244 (268)
T PF09451_consen 218 LIFGSWYNYNRYGARGFELIPH--FDFWR 244 (268)
T ss_pred hhhhhheeeccCCCCCceeccc--HhHHH
Confidence 4455678899999999987433 34443
No 23
>PF00686 CBM_20: Starch binding domain; InterPro: IPR002044 O-Glycosyl hydrolases 3.2.1. from EC are a widespread group of enzymes that hydrolyse the glycosidic bond between two or more carbohydrates, or between a carbohydrate and a non-carbohydrate moiety. A classification system for glycosyl hydrolases, based on sequence similarity, has led to the definition of 85 different families [, ]. This classification is available on the CAZy (CArbohydrate-Active EnZymes) web site. This domain binds to starch, and is found often at the C terminus of a variety of glycosyl hydrolases acting on polysaccharides more rapidly than on oligosaccharides. Reations include: the hydrolysis of terminal 1,4-linked alpha-D-glucose residues successively from non-reducing ends of the chains with release of beta-D-glucose, the degradation of starch to cyclodextrins by formation of a 1,4-alpha-D-glucosidic bond, and hydrolysis of 1,4-alpha-glucosidic linkages in polysaccharides to remove successive maltose units from the non-reducing ends of the chains.; GO: 0003824 catalytic activity, 0005975 carbohydrate metabolic process; PDB: 1KUL_A 1ACZ_A 1AC0_A 1KUM_A 2Z0B_C 9CGT_A 3CGT_A 6CGT_A 4CGT_A 1CGT_A ....
Probab=39.10 E-value=38 Score=20.64 Aligned_cols=40 Identities=18% Similarity=0.470 Sum_probs=30.6
Q ss_pred eEEEecCCC---CCcccCC---------CCcccccCCCceeeCCEEEEeecC
Q 047479 24 TTYTVGDNA---GWTTQGK---------VDYYSWVDGKEFKVGDTLGESLKL 63 (84)
Q Consensus 24 ~~~~VG~~~---gW~~~~~---------~~Y~~Wa~~~~F~vGD~L~F~Y~~ 63 (84)
..|.+|+.. .|++... .++..|...-.+..|..+.|||--
T Consensus 17 ~v~i~Gs~~~LG~W~~~~a~~l~~~~~~~~~~~W~~~v~lp~~~~~eYKy~i 68 (96)
T PF00686_consen 17 SVYIVGSCPELGNWDPKKAVPLQWNEGTENYPIWSATVDLPAGTPFEYKYVI 68 (96)
T ss_dssp EEEEEESSGGGTTTSGGGSBESEBESSSSTTTSEEEEEEEETTSEEEEEEEE
T ss_pred EEEEEECcHHhCCCChHhccccccccCCCCCCeEEEEEECcCCCEEEEEEEE
Confidence 468899874 5987311 257899998889999999999953
No 24
>PF08139 LPAM_1: Prokaryotic membrane lipoprotein lipid attachment site; InterPro: IPR012640 In prokaryotes, membrane lipoproteins are synthesized with a precursor signal peptide, which is cleaved by a specific lipoprotein signal peptidase (signal peptidase II). The peptidase recognises a conserved sequence and cuts upstream of a cysteine residue to which a glyceride-fatty acid lipid is attached [,]. This lipid attachment site is found in homologues of the VirB proteins of type IV secretion systems (T4SS). Conjugal transfer across the cell envelope of Gram-negative bacteria is mediated by a supramolecular structure termed mating pair formation (Mpf) complex. Collectively, secretion pathways ancestrally related to bacterial conjugation systems are now known as T4SS. T4SS are involved in the delivery of effector molecules to eukaryotic target cells; each of these systems exports distinct DNA or protein substrates to effect a myriad of changes in host cell physiology during infection [].
Probab=38.14 E-value=40 Score=16.72 Aligned_cols=18 Identities=11% Similarity=0.229 Sum_probs=8.4
Q ss_pred hhHHHHHHHHHHHhchhc
Q 047479 4 AKSAVISLTIMALFGASV 21 (84)
Q Consensus 4 ~~~~l~~~~~~~~~~~~~ 21 (84)
+|..++.++++.++..|+
T Consensus 7 mKkil~~l~a~~~LagCs 24 (25)
T PF08139_consen 7 MKKILFPLLALFMLAGCS 24 (25)
T ss_pred HHHHHHHHHHHHHHhhcc
Confidence 455555444443444443
No 25
>PF06291 Lambda_Bor: Bor protein; InterPro: IPR010438 This family consists of several Bacteriophage lambda Bor and Escherichia coli Iss proteins. Expression of bor significantly increases the survival of the E. coli host cell in animal serum. This property is a well known bacterial virulence determinant indeed, bor and its adjacent sequences are highly homologous to the iss serum resistance locus of the plasmid ColV2-K94, which confers virulence in animals. It has been suggested that lysogeny may generally have a role in bacterial survival in animal hosts, and perhaps in pathogenesis [].
Probab=37.92 E-value=55 Score=21.09 Aligned_cols=27 Identities=30% Similarity=0.498 Sum_probs=16.0
Q ss_pred hhHHHHHHHHHHHhchhccceEEEecCC
Q 047479 4 AKSAVISLTIMALFGASVAATTYTVGDN 31 (84)
Q Consensus 4 ~~~~l~~~~~~~~~~~~~~a~~~~VG~~ 31 (84)
||..+++.++ +++.+.|+...+.+|+.
T Consensus 1 mKk~ll~~~l-allLtgCatqt~~~~~~ 27 (97)
T PF06291_consen 1 MKKLLLAAAL-ALLLTGCATQTFTVGNQ 27 (97)
T ss_pred CcHHHHHHHH-HHHHcccceeEEEeCCC
Confidence 3444444433 34556777788889854
No 26
>TIGR02657 amicyanin amicyanin. Members of this family are amicyanin, a type I blue copper protein that accepts electrons from the tryptophan tryptophylquinone (TTQ) cofactor of the methylamine dehydrogenase light chain and then transfers them to the heme group of cytochrome c-551i. Amicyanin, methylamine dehydrogenase, and cytochrome c-551i are periplasmic and form a complex. This system has been studied primarily in Paracoccus denitrificans and Methylobacterium extorquens. Related type I blue copper proteins include plastocyanin, pseudoazurin, halocyanin, etc.
Probab=37.30 E-value=37 Score=20.30 Aligned_cols=22 Identities=23% Similarity=0.222 Sum_probs=16.1
Q ss_pred CceeeCCEEEEeecCC-CcceEE
Q 047479 49 KEFKVGDTLGESLKLR-KNEKFY 70 (84)
Q Consensus 49 ~~F~vGD~L~F~Y~~~-~~sV~~ 70 (84)
-+.++||++.|+-... .|+|..
T Consensus 13 i~v~~GdtVt~~N~d~~~Hnv~~ 35 (83)
T TIGR02657 13 LHVKVGDTVTWINREAMPHNVHF 35 (83)
T ss_pred EEECCCCEEEEEECCCCCccEEe
Confidence 3567899999987643 688753
No 27
>PRK09838 periplasmic copper-binding protein; Provisional
Probab=36.54 E-value=35 Score=22.52 Aligned_cols=22 Identities=23% Similarity=0.241 Sum_probs=16.4
Q ss_pred ccCCCceeeCCEEEEeecCCCc
Q 047479 45 WVDGKEFKVGDTLGESLKLRKN 66 (84)
Q Consensus 45 Wa~~~~F~vGD~L~F~Y~~~~~ 66 (84)
-..-+.+++||.+.|.+.....
T Consensus 83 ~~~l~~lk~G~~V~F~~~~~~~ 104 (115)
T PRK09838 83 QTKMSEIKTGDKVAFNFVQQGN 104 (115)
T ss_pred hhhhccCCCCCEEEEEEEEcCC
Confidence 3444689999999999975433
No 28
>cd04720 BAH_Orc1p_Yeast BAH, or Bromo Adjacent Homology domain, as present in Orc1p, which again is part of the Saccharomyces cerevisiae Sir1-origin recognition complex, and as present in Sir3p. The Orc1p BAH doman functions in epigenetic silencing. BAH domains are found in a variety of proteins playing roles in transcriptional silencing and the remodeling of chromatin. It is assumed that in most or all of these instances the BAH domain mediates protein-protein interactions.
Probab=36.47 E-value=26 Score=24.54 Aligned_cols=24 Identities=29% Similarity=0.419 Sum_probs=17.0
Q ss_pred CCCceeeCCEEEEeecC-CCcceEE
Q 047479 47 DGKEFKVGDTLGESLKL-RKNEKFY 70 (84)
Q Consensus 47 ~~~~F~vGD~L~F~Y~~-~~~sV~~ 70 (84)
.+..|++||+++++=+. +...|..
T Consensus 49 d~~~~~vGD~Vlik~~~~~~~~V~i 73 (179)
T cd04720 49 DGLELSVGDTILVKDDVANSPSVYL 73 (179)
T ss_pred CCeEEeCCCEEEEeCCCCCCCEEEE
Confidence 55679999999999754 3344443
No 29
>COG3794 PetE Plastocyanin [Energy production and conversion]
Probab=35.65 E-value=36 Score=22.99 Aligned_cols=26 Identities=15% Similarity=-0.054 Sum_probs=21.1
Q ss_pred cCCCceeeCCEEEEeecCC-CcceEEe
Q 047479 46 VDGKEFKVGDTLGESLKLR-KNEKFYL 71 (84)
Q Consensus 46 a~~~~F~vGD~L~F~Y~~~-~~sV~~v 71 (84)
.+.-+..+||++.|..... .|||.-.
T Consensus 53 PA~v~v~pGDTVtw~~~d~~~Hnv~~~ 79 (128)
T COG3794 53 PAEVTVKPGDTVTWVNTDSVGHNVTAV 79 (128)
T ss_pred CcEEEECCCCEEEEEECCCCCceEEEe
Confidence 3556889999999999876 8898654
No 30
>cd05810 CBM20_alpha_MTH Glucan 1,4-alpha-maltotetraohydrolase (alpha-MTH), C-terminal CBM20 (carbohydrate-binding module, family 20) domain. Alpha-MTH, also known as maltotetraose-forming exo-amylase or G4-amylase, is an exo-amylase found in bacteria that degrades starch from its non-reducing end. Most alpha-MTHs have, in addition to the C-terminal CBM20 domain, an N-terminal glycosyl hydrolase family 13 catalytic domain. The CBM20 domain is found in a large number of starch degrading enzymes including alpha-amylase, beta-amylase, glucoamylase, and CGTase (cyclodextrin glucanotransferase). CBM20 is also present in proteins that have a regulatory role in starch metabolism in plants (e.g. alpha-amylase) or glycogen metabolism in mammals (e.g. laforin). CBM20 folds as an antiparallel beta-barrel structure with two starch binding sites. These two sites are thought to differ functionally with site 1 acting as the initial starch recognition site and site 2 involved in the specific recognitio
Probab=35.24 E-value=37 Score=21.18 Aligned_cols=39 Identities=15% Similarity=0.417 Sum_probs=29.0
Q ss_pred eEEEecCC---CCCcccC-----CCCcccccCCCceeeCCEEEEeec
Q 047479 24 TTYTVGDN---AGWTTQG-----KVDYYSWVDGKEFKVGDTLGESLK 62 (84)
Q Consensus 24 ~~~~VG~~---~gW~~~~-----~~~Y~~Wa~~~~F~vGD~L~F~Y~ 62 (84)
..|.+|+. ..|.+.. ..+|..|...-.+..|..+.|||-
T Consensus 17 ~l~v~Gs~~~LG~W~~~~a~~l~~~~~~~W~~~v~lp~~~~veyKyv 63 (97)
T cd05810 17 SVYVVGNVPQLGNWSPADAVKLDPTAYPTWSGSISLPASTNVEWKCL 63 (97)
T ss_pred eEEEEEChHHhCCCChhhcccccCCCCCeEEEEEEcCCCCeEEEEEE
Confidence 44788876 3698531 135777988888999999999994
No 31
>PF11132 SplA: Transcriptional regulator protein (SplA); InterPro: IPR022608 The SplA protein functions in trans as a negative regulator of the level of splB-lacZ expression in the developing forespore [].
Probab=35.21 E-value=39 Score=21.06 Aligned_cols=23 Identities=13% Similarity=0.222 Sum_probs=17.2
Q ss_pred CceeeCCEEEEeec-CCCcceEEe
Q 047479 49 KEFKVGDTLGESLK-LRKNEKFYL 71 (84)
Q Consensus 49 ~~F~vGD~L~F~Y~-~~~~sV~~v 71 (84)
++|++||++..-|. |..-+|..+
T Consensus 4 ~~~~~GD~VyViYrNPHt~~VanI 27 (75)
T PF11132_consen 4 KPYHAGDIVYVIYRNPHTQDVANI 27 (75)
T ss_pred cccCCCCEEEEEEcCCCCcccccc
Confidence 78999999977774 555677544
No 32
>KOG3416 consensus Predicted nucleic acid binding protein [General function prediction only]
Probab=35.10 E-value=34 Score=23.50 Aligned_cols=30 Identities=23% Similarity=0.501 Sum_probs=21.2
Q ss_pred EEecCCCCCcccCCCCccccc-CCCceeeCCEEEEe
Q 047479 26 YTVGDNAGWTTQGKVDYYSWV-DGKEFKVGDTLGES 60 (84)
Q Consensus 26 ~~VG~~~gW~~~~~~~Y~~Wa-~~~~F~vGD~L~F~ 60 (84)
..|||+.| ..+.+-|- .+..|++||.|.|.
T Consensus 41 ~kVaD~Tg-----sI~isvW~e~~~~~~PGDIirLt 71 (134)
T KOG3416|consen 41 CKVADETG-----SINISVWDEEGCLIQPGDIIRLT 71 (134)
T ss_pred EEEecccc-----eEEEEEecCcCcccCCccEEEec
Confidence 46777766 34566775 44789999998765
No 33
>PF00127 Copper-bind: Copper binding proteins, plastocyanin/azurin family; InterPro: IPR000923 Blue (type 1) copper proteins are small proteins which bind a single copper atom and which are characterised by an intense electronic absorption band near 600 nm [, ]. The most well known members of this class of proteins are the plant chloroplastic plastocyanins, which exchange electrons with cytochrome c6, and the distantly related bacterial azurins, which exchange electrons with cytochrome c551. This family of proteins also includes amicyanin from bacteria such as Methylobacterium extorquens or Paracoccus versutus (Thiobacillus versutus) that can grow on methylamine; auracyanins A and B from Chloroflexus aurantiacus []; blue copper protein from Alcaligenes faecalis; cupredoxin (CPC) from Cucumis sativus (Cucumber) peelings []; cusacyanin (basic blue protein; plantacyanin, CBP) from cucumber; halocyanin from Natronomonas pharaonis (Natronobacterium pharaonis) [], a membrane associated copper-binding protein; pseudoazurin from Pseudomonas; rusticyanin from Thiobacillus ferrooxidans []; stellacyanin from Rhus vernicifera (Japanese lacquer tree); umecyanin from the roots of Armoracia rusticana (Horseradish); and allergen Ra3 from ragweed. This pollen protein is evolutionary related to the above proteins, but seems to have lost the ability to bind copper. Although there is an appreciable amount of divergence in the sequences of all these proteins, the copper ligand sites are conserved.; GO: 0005507 copper ion binding, 0009055 electron carrier activity; PDB: 1UAT_A 1CUO_A 1PLC_A 4PCY_A 3PCY_A 1PND_A 1PNC_A 1JXG_A 6PCY_A 1TKW_A ....
Probab=34.72 E-value=52 Score=20.22 Aligned_cols=24 Identities=17% Similarity=0.156 Sum_probs=19.1
Q ss_pred CceeeCCEEEEee-cCCCcceEEec
Q 047479 49 KEFKVGDTLGESL-KLRKNEKFYLQ 72 (84)
Q Consensus 49 ~~F~vGD~L~F~Y-~~~~~sV~~v~ 72 (84)
-+.++||++.|.- +...|++....
T Consensus 19 i~V~~G~tV~~~n~~~~~Hnv~~~~ 43 (99)
T PF00127_consen 19 ITVKAGDTVTFVNNDSMPHNVVFVA 43 (99)
T ss_dssp EEEETTEEEEEEEESSSSBEEEEET
T ss_pred EEECCCCEEEEEECCCCCceEEEec
Confidence 4678999999999 56788887654
No 34
>PF00924 MS_channel: Mechanosensitive ion channel; InterPro: IPR006685 Mechanosensitive (MS) channels provide protection against hypo-osmotic shock, responding both to stretching of the cell membrane and to membrane depolarisation. They are present in the membranes of organisms from the three domains of life: bacteria, archaea, and eukarya []. There are two families of MS channels: large-conductance MS channels (MscL) and small-conductance MS channels (MscS or YGGB). The pressure threshold for MscS opening is 50% that of MscL []. The MscS family is much larger and more variable in size and sequence than the MscL family. Much of the diversity in MscS proteins occurs in the size of the transmembrane regions, which ranges from three to eleven transmembrane helices, although the three C-terminal helices are conserved. This family contains sequences form the MscS family of proteins. MscS folds as a homo-heptamer with a cylindrical shape, and can be divided into transmembrane and extramembrane regions: an N-terminal periplasmic region, a transmembrane region, and a C-terminal cytoplasmic region (middle and C-terminal domains). The transmembrane region forms a channel through the membrane that opens into a chamber enclosed by the extramembrane portion, the latter connecting to the cytoplasm through distinct portals [].; GO: 0055085 transmembrane transport, 0016020 membrane; PDB: 2OAU_E 2VV5_F.
Probab=33.64 E-value=17 Score=24.78 Aligned_cols=15 Identities=33% Similarity=0.514 Sum_probs=9.7
Q ss_pred cCCCceeeCCEEEEe
Q 047479 46 VDGKEFKVGDTLGES 60 (84)
Q Consensus 46 a~~~~F~vGD~L~F~ 60 (84)
.-.++|++||.+.+.
T Consensus 56 ~~~~pf~vGD~I~i~ 70 (206)
T PF00924_consen 56 LFERPFKVGDRIEIG 70 (206)
T ss_dssp HCC-SS-TT-EEESS
T ss_pred hccCCccCCCEEEEE
Confidence 346799999999887
No 35
>PRK11479 hypothetical protein; Provisional
Probab=32.90 E-value=60 Score=24.63 Aligned_cols=29 Identities=21% Similarity=0.265 Sum_probs=18.2
Q ss_pred CCccc-CCCCcccccCC-----CceeeCCEEEEee
Q 047479 33 GWTTQ-GKVDYYSWVDG-----KEFKVGDTLGESL 61 (84)
Q Consensus 33 gW~~~-~~~~Y~~Wa~~-----~~F~vGD~L~F~Y 61 (84)
.|... |.....+|..+ ...+.||.|.|.-
T Consensus 41 ~~~~~~pr~s~~q~~~g~~Vs~~~LqpGDLVFfst 75 (274)
T PRK11479 41 TWAVKFQHQSSFTEQGIKEITAPDLKPGDLLFSSS 75 (274)
T ss_pred hcceecCcccHHHHhCCcccChhhCCCCCEEEEec
Confidence 35442 33455666555 4678999999863
No 36
>cd05808 CBM20_alpha_amylase Alpha-amylase, C-terminal CBM20 (carbohydrate-binding module, family 20) domain. This domain is found in several bacterial and fungal alpha-amylases including the maltopentaose-forming amylases (G5-amylases). Most alpha-amylases have, in addition to the C-terminal CBM20 domain, an N-terminal catalytic domain belonging to glycosyl hydrolase family 13, which hydrolyzes internal alpha-1,4-glucosidic bonds in starch and related saccharides, yielding maltotriose and maltose. Two types of soluble substrates are used by alpha-amylases including long substrates (e.g. amylose) and short substrates (e.g. maltodextrins or maltooligosaccharides). The CBM20 domain is found in a large number of starch degrading enzymes including alpha-amylase, beta-amylase, glucoamylase, and CGTase (cyclodextrin glucanotransferase). CBM20 is also present in proteins that have a regulatory role in starch metabolism in plants (e.g. alpha-amylase) or glycogen metabolism in mammals (e.g. lafo
Probab=32.39 E-value=61 Score=19.43 Aligned_cols=39 Identities=18% Similarity=0.495 Sum_probs=28.1
Q ss_pred eEEEecCC---CCCcccC-----CCCcccccCCCceeeCCEEEEeec
Q 047479 24 TTYTVGDN---AGWTTQG-----KVDYYSWVDGKEFKVGDTLGESLK 62 (84)
Q Consensus 24 ~~~~VG~~---~gW~~~~-----~~~Y~~Wa~~~~F~vGD~L~F~Y~ 62 (84)
..+.+|+. .+|.+.. ..++..|...-.+..|+.+.|||-
T Consensus 16 ~l~v~G~~~~lG~W~~~~a~~l~~~~~~~W~~~v~l~~~~~~eYKy~ 62 (95)
T cd05808 16 NVYVVGNVPELGNWSPANAVALSAATYPVWSGTVDLPAGTAIEYKYI 62 (95)
T ss_pred EEEEEeCcHHhCCCChhhCccCCCCCCCCEEEEEEeCCCCeEEEEEE
Confidence 45778874 4697521 134677988888888999999995
No 37
>KOG1546 consensus Metacaspase involved in regulation of apoptosis [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]
Probab=31.22 E-value=30 Score=27.37 Aligned_cols=12 Identities=25% Similarity=0.135 Sum_probs=10.4
Q ss_pred eeCCEEEEeecC
Q 047479 52 KVGDTLGESLKL 63 (84)
Q Consensus 52 ~vGD~L~F~Y~~ 63 (84)
+.||+|+|.|.-
T Consensus 136 q~gD~LvfHYSG 147 (362)
T KOG1546|consen 136 QPGDSLVFHYSG 147 (362)
T ss_pred CCCCEEEEEecC
Confidence 589999999963
No 38
>KOG3858 consensus Ephrin, ligand for Eph receptor tyrosine kinase [Signal transduction mechanisms]
Probab=31.04 E-value=1.3e+02 Score=22.43 Aligned_cols=29 Identities=21% Similarity=0.189 Sum_probs=17.5
Q ss_pred eeeCCEEEEeecCCC--------cceEEeccccchhhhcc
Q 047479 51 FKVGDTLGESLKLRK--------NEKFYLQNEKSKRNYLA 82 (84)
Q Consensus 51 F~vGD~L~F~Y~~~~--------~sV~~v~~ev~k~~Y~~ 82 (84)
.++||.|.+-.+... ..++. .|+++.|+.
T Consensus 47 v~igD~ldIiCP~~e~~~~~~~E~yilY---mV~~~~y~~ 83 (233)
T KOG3858|consen 47 VQIGDYLDIICPHYEEGGPEGYEYYILY---MVSEEEYDL 83 (233)
T ss_pred eccCCEEEEECCCCCCCCCCcceEEEEE---EeChHHhhh
Confidence 456999998765321 12332 368888864
No 39
>COG1430 Uncharacterized conserved protein [Function unknown]
Probab=29.97 E-value=28 Score=23.46 Aligned_cols=21 Identities=24% Similarity=0.241 Sum_probs=17.8
Q ss_pred ccccCCCceeeCCEEEEeecC
Q 047479 43 YSWVDGKEFKVGDTLGESLKL 63 (84)
Q Consensus 43 ~~Wa~~~~F~vGD~L~F~Y~~ 63 (84)
..|+++..+.|||.|.|....
T Consensus 103 ~G~~~~~~i~vGd~v~~~~~~ 123 (126)
T COG1430 103 AGWAARLGIKVGDRVEFRPLG 123 (126)
T ss_pred CCchhhcCCccCCEEEecccC
Confidence 359999999999999997654
No 40
>cd05820 CBM20_novamyl Novamyl (also known as acarviose transferase, ATase, maltogenic alpha-amylase, glucan 1,4-alpha-maltohydrolase, and AcbD), C-terminal CBM20 (carbohydrate-binding module, family 20) domain. Novamyl has a five-domain structure similar to that of cyclodextrin glucanotransferase (CGTase). Novamyl has a substrate-binding surface with an open groove which can accommodate both cyclodextrins and linear substrates. The CBM20 domain is found in a large number of starch degrading enzymes including alpha-amylase, beta-amylase, glucoamylase, and CGTase (cyclodextrin glucanotransferase). CBM20 is also present in proteins that have a regulatory role in starch metabolism in plants (e.g. alpha-amylase) or glycogen metabolism in mammals (e.g. laforin). CBM20 folds as an antiparallel beta-barrel structure with two starch binding sites. These two sites are thought to differ functionally with site 1 acting as the initial starch recognition site and site 2 involved in the specific reco
Probab=29.89 E-value=49 Score=20.73 Aligned_cols=40 Identities=15% Similarity=0.280 Sum_probs=29.2
Q ss_pred eEEEecCC---CCCcccC--------CCCcccccCCCceeeCCEEEEeecC
Q 047479 24 TTYTVGDN---AGWTTQG--------KVDYYSWVDGKEFKVGDTLGESLKL 63 (84)
Q Consensus 24 ~~~~VG~~---~gW~~~~--------~~~Y~~Wa~~~~F~vGD~L~F~Y~~ 63 (84)
..|.+|+. ..|++.. ...|..|...-.+-.|..+.|||-.
T Consensus 20 ~l~vvGs~~~LG~W~~~~~~a~~~l~~~~~~~W~~~~~lp~~~~veyK~v~ 70 (103)
T cd05820 20 FLYLTGSVPELGNWSTSTDQAVGPLLCPNWPDWFVVASVPAGTYIEFKFLK 70 (103)
T ss_pred EEEEEECcHHhCCCChhccccccccccCCCCCEEEEEEcCCCCcEEEEEEE
Confidence 44788876 3598621 1357889888888899999999943
No 41
>PRK13838 conjugal transfer pilin processing protease TraF; Provisional
Probab=28.68 E-value=26 Score=24.49 Aligned_cols=17 Identities=18% Similarity=-0.003 Sum_probs=13.6
Q ss_pred CCCceeeCCEEEEeecC
Q 047479 47 DGKEFKVGDTLGESLKL 63 (84)
Q Consensus 47 ~~~~F~vGD~L~F~Y~~ 63 (84)
..+..+.||.++|+-+.
T Consensus 47 ~~~~~~rGDiVvf~~P~ 63 (176)
T PRK13838 47 LDRPVAVGDLVFICPPE 63 (176)
T ss_pred cCCCCCCCcEEEEECCc
Confidence 35789999999998643
No 42
>PRK00809 hypothetical protein; Provisional
Probab=28.16 E-value=65 Score=21.85 Aligned_cols=15 Identities=27% Similarity=0.235 Sum_probs=12.0
Q ss_pred CceeeCCEEEEeecC
Q 047479 49 KEFKVGDTLGESLKL 63 (84)
Q Consensus 49 ~~F~vGD~L~F~Y~~ 63 (84)
++.++||.++|--++
T Consensus 33 r~Mk~GD~v~fYhs~ 47 (144)
T PRK00809 33 EKVKPGDKLIIYVSQ 47 (144)
T ss_pred hhCCCCCEEEEEECC
Confidence 368999999996654
No 43
>PF01345 DUF11: Domain of unknown function DUF11; InterPro: IPR001434 This group of sequences is represented by a conserved region of about 53 amino acids shared between regions, usually repeated, of proteins from a small number of phylogenetically distant prokaryotes. Examples include a 132-residue region found repeated in three of the five longest proteins of Bacillus anthracis, a 131-residue repeat in a cell wall-anchored protein of Enterococcus faecalis (Streptococcus faecalis), and a 120-residue repeat in Methanobacterium thermoautotrophicum. A similar region is found in some Chlamydia trachomatis outer membrane proteins. In C. trachomatis, three cysteine-rich proteins (also believed to be lipoproteins), MOMP, OMP6 and OMP3, make up the extracellular matrix of the outer membrane []. They are involved in the essential structural integrity of both the elementary body (EB) and recticulate body (RB) phase. They are thought to be involved in porin formation and, as these bacteria lack the peptidoglycan layer common to most Gram-negative microbes, such proteins are highly important in the pathogenicity of the organism.; GO: 0005727 extrachromosomal circular DNA
Probab=27.91 E-value=53 Score=19.03 Aligned_cols=21 Identities=19% Similarity=0.181 Sum_probs=18.8
Q ss_pred CcccccCCCceeeCCEEEEee
Q 047479 41 DYYSWVDGKEFKVGDTLGESL 61 (84)
Q Consensus 41 ~Y~~Wa~~~~F~vGD~L~F~Y 61 (84)
...+++.....++||.|.+..
T Consensus 27 ~~~k~~~~~~~~~Gd~v~yti 47 (76)
T PF01345_consen 27 SITKTVNPSTANPGDTVTYTI 47 (76)
T ss_pred EEEEecCCCcccCCCEEEEEE
Confidence 468899999999999999877
No 44
>cd00033 CCP Complement control protein (CCP) modules (aka short consensus repeats SCRs or SUSHI repeats) have been identified in several proteins of the complement system. SUSHI repeats (short complement-like repeat, SCR) are abundant in complement control proteins. The complement control protein (CCP) modules (also known as short consensus repeats SCRs or SUSHI repeats) contain approximately 60 amino acid residues and have been identified in several proteins of the complement system. Typically, 2 to 4 modules contribute to a binding site, implying that the orientation of the modules to each other is critical for function.
Probab=27.62 E-value=91 Score=16.14 Aligned_cols=19 Identities=16% Similarity=0.104 Sum_probs=16.1
Q ss_pred CCCceeeCCEEEEeecCCC
Q 047479 47 DGKEFKVGDTLGESLKLRK 65 (84)
Q Consensus 47 ~~~~F~vGD~L~F~Y~~~~ 65 (84)
....|.+||++.|.-+++.
T Consensus 15 ~~~~~~~g~~~~~~C~~Gy 33 (57)
T cd00033 15 SKGSYSYGSTVTYSCNEGY 33 (57)
T ss_pred CCCcccCCCEEEEECCCCC
Confidence 3678999999999988764
No 45
>TIGR03102 halo_cynanin halocyanin domain. Halocyanins are blue (type I) copper redox proteins found in halophilic archaea such as Natronobacterium pharaonis. This model represents a domain duplicated in some halocyanins, while appearing once in others. This domain includes the characteristic copper ligand residues. This family does not include plastocyanins, and does not include certain divergent paralogs of halocyanin.
Probab=27.47 E-value=58 Score=21.34 Aligned_cols=21 Identities=10% Similarity=-0.092 Sum_probs=16.8
Q ss_pred CceeeCCEEEEeecC--CCcceE
Q 047479 49 KEFKVGDTLGESLKL--RKNEKF 69 (84)
Q Consensus 49 ~~F~vGD~L~F~Y~~--~~~sV~ 69 (84)
-+.++||++.|+-+. ..|+|.
T Consensus 44 ltV~~GdTVtw~~~~d~~~HnV~ 66 (115)
T TIGR03102 44 IRVDPGTTVVWEWTGEGGGHNVV 66 (115)
T ss_pred EEECCCCEEEEEECCCCCCEEEE
Confidence 578999999999643 578875
No 46
>TIGR01024 rplS_bact ribosomal protein L19, bacterial type. This model describes bacterial ribosomoal protein L19 and its chloroplast equivalent. Putative mitochondrial L19 are found in several species (but not Saccharomyces cerevisiae) and score between trusted and noise cutoffs.
Probab=26.99 E-value=44 Score=22.17 Aligned_cols=14 Identities=43% Similarity=0.778 Sum_probs=12.1
Q ss_pred CceeeCCEEEEeec
Q 047479 49 KEFKVGDTLGESLK 62 (84)
Q Consensus 49 ~~F~vGD~L~F~Y~ 62 (84)
-.|++||+|...|.
T Consensus 17 p~f~~GD~v~V~~~ 30 (113)
T TIGR01024 17 PDFRVGDTVRVHVK 30 (113)
T ss_pred CccCCCCEEEEEEE
Confidence 47999999999884
No 47
>PRK10861 signal peptidase I; Provisional
Probab=26.98 E-value=2.1e+02 Score=22.13 Aligned_cols=17 Identities=18% Similarity=-0.050 Sum_probs=13.5
Q ss_pred CCceeeCCEEEEeecCC
Q 047479 48 GKEFKVGDTLGESLKLR 64 (84)
Q Consensus 48 ~~~F~vGD~L~F~Y~~~ 64 (84)
....+-||.++|+++..
T Consensus 123 ~~~p~RGDIVVF~~P~~ 139 (324)
T PRK10861 123 TGHPKRGDIVVFKYPED 139 (324)
T ss_pred cCCCCCCCEEEEecCCC
Confidence 35678899999999753
No 48
>PF01245 Ribosomal_L19: Ribosomal protein L19; InterPro: IPR001857 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms. The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. Ribosomal protein L19 is one of the proteins from the large ribosomal subunit [, ]. In Escherichia coli, L19 is known to be located at the 30S-50S ribosomal subunit interface [] and may play a role in the structure and function of the aminoacyl-tRNA binding site. It belongs to a family of ribosomal proteins, including L19 from bacteria and the chloroplasts of red algae. L19 is a protein of 120 to 130 amino-acid residues.; GO: 0003735 structural constituent of ribosome, 0006412 translation, 0005622 intracellular, 0005840 ribosome; PDB: 3HUZ_T 3V2D_T 3I8I_R 2XG2_T 2V49_T 2XUX_T 3HUX_T 3I9C_R 3V25_T 3UZ2_R ....
Probab=26.36 E-value=41 Score=22.16 Aligned_cols=14 Identities=50% Similarity=0.797 Sum_probs=12.4
Q ss_pred CceeeCCEEEEeec
Q 047479 49 KEFKVGDTLGESLK 62 (84)
Q Consensus 49 ~~F~vGD~L~F~Y~ 62 (84)
..|++||+|...|.
T Consensus 17 p~f~~GD~v~V~~~ 30 (113)
T PF01245_consen 17 PEFRVGDTVRVTYK 30 (113)
T ss_dssp SSSSSSSEEEEEEE
T ss_pred CCcCCCCEEEEEEE
Confidence 57999999999985
No 49
>CHL00084 rpl19 ribosomal protein L19
Probab=26.26 E-value=46 Score=22.24 Aligned_cols=13 Identities=31% Similarity=0.578 Sum_probs=11.7
Q ss_pred CceeeCCEEEEee
Q 047479 49 KEFKVGDTLGESL 61 (84)
Q Consensus 49 ~~F~vGD~L~F~Y 61 (84)
..|++||+|...|
T Consensus 21 p~f~~GDtV~V~~ 33 (117)
T CHL00084 21 PKIRVGDTVKVGV 33 (117)
T ss_pred CccCCCCEEEEEE
Confidence 4799999999988
No 50
>PRK03760 hypothetical protein; Provisional
Probab=25.96 E-value=36 Score=22.35 Aligned_cols=19 Identities=16% Similarity=0.041 Sum_probs=16.2
Q ss_pred ccccCCCceeeCCEEEEee
Q 047479 43 YSWVDGKEFKVGDTLGESL 61 (84)
Q Consensus 43 ~~Wa~~~~F~vGD~L~F~Y 61 (84)
..|+++..+++||.|.|+.
T Consensus 98 aG~~~~~gi~~Gd~v~~~~ 116 (117)
T PRK03760 98 VGKIRVLKVEVGDEIEWID 116 (117)
T ss_pred CChHHHcCCCCCCEEEEee
Confidence 4588889999999998874
No 51
>PF00084 Sushi: Sushi domain (SCR repeat); InterPro: IPR000436 Sushi domains are also known as Complement control protein (CCP) modules, or short consensus repeats (SCR), exist in a wide variety of complement and adhesion proteins. The structure is known for this domain, it is based on a beta-sandwich arrangement; one face made up of three beta-strands hydrogen-bonded to form a triple-stranded region at its centre and the other face formed from two separate beta-strands []. CD21 (also called C3d receptor, CR2, Epstein Barr virus receptor or EBV-R) is the receptor for EBV and for C3d, C3dg and iC3b. Complement components may activate B cells through CD21. CD21 is part of a large signal-transduction complex that also involves CD19, CD81, and Leu13. Some of the proteins in this group are responsible for the molecular basis of the blood group antigens, surface markers on the outside of the red blood cell membrane. Most of these markers are proteins, but some are carbohydrates attached to lipids or proteins [Reid M.E., Lomas-Francis C. The Blood Group Antigen FactsBook Academic Press, London / San Diego, (1997)]. Complement decay-accelerating factor (Antigen CD55) belongs to the Cromer blood group system and is associated with Cr(a), Dr(a), Es(a), Tc(a/b/c), Wd(a), WES(a/b), IFC and UMC antigens. Complement receptor type 1 (C3b/C4b receptor) (Antigen CD35) belongs to the Knops blood group system and is associated with Kn(a/b), McC(a), Sl(a) and Yk(a) antigens. CD molecules are leucocyte antigens on cell surfaces. CD antigens nomenclature is updated at Protein Reviews On The Web (http://prow.nci.nih.gov/). ; PDB: 1HFH_A 1HFI_A 1E5G_A 2UWN_A 2V8E_A 2XWB_H 3HS0_I 2OK5_A 2XWJ_J 3HRZ_D ....
Probab=25.94 E-value=98 Score=16.09 Aligned_cols=18 Identities=17% Similarity=0.146 Sum_probs=15.7
Q ss_pred CceeeCCEEEEeecCCCc
Q 047479 49 KEFKVGDTLGESLKLRKN 66 (84)
Q Consensus 49 ~~F~vGD~L~F~Y~~~~~ 66 (84)
..|..||.+.|.-+++..
T Consensus 17 ~~~~~g~~~~~~C~~Gy~ 34 (56)
T PF00084_consen 17 NPYSYGSTVTFSCNPGYE 34 (56)
T ss_dssp SSEETTEEEEEEESTTEE
T ss_pred CCccCCCEEEEcCCCCCE
Confidence 899999999999987743
No 52
>PRK06763 F0F1 ATP synthase subunit alpha; Validated
Probab=25.72 E-value=42 Score=24.75 Aligned_cols=19 Identities=26% Similarity=0.468 Sum_probs=15.5
Q ss_pred ccccCCCceeeCCEEEEee
Q 047479 43 YSWVDGKEFKVGDTLGESL 61 (84)
Q Consensus 43 ~~Wa~~~~F~vGD~L~F~Y 61 (84)
-.-+++++|+|||.+--+.
T Consensus 157 V~LT~GQkFnVGDkVKV~~ 175 (213)
T PRK06763 157 VFLTKGQVFHVGDKVKVDM 175 (213)
T ss_pred EEeccCCEEecCCEEEEEe
Confidence 3456899999999998774
No 53
>PF13538 UvrD_C_2: UvrD-like helicase C-terminal domain; PDB: 1W36_G 3K70_G 3DMN_A 3UPU_B 3GPL_A 3E1S_A 3GP8_A.
Probab=25.57 E-value=45 Score=19.96 Aligned_cols=16 Identities=19% Similarity=0.270 Sum_probs=9.3
Q ss_pred eeeCCEEEEeecCCCc
Q 047479 51 FKVGDTLGESLKLRKN 66 (84)
Q Consensus 51 F~vGD~L~F~Y~~~~~ 66 (84)
|++||.+++.=+....
T Consensus 1 ~~~gD~vv~~~n~~~~ 16 (104)
T PF13538_consen 1 FRPGDKVVITRNDSEQ 16 (104)
T ss_dssp --TT-EEEE-CTBTTT
T ss_pred CcCcCEEEEEeeCCcC
Confidence 7899999998776554
No 54
>PRK10808 outer membrane protein A; Reviewed
Probab=25.50 E-value=55 Score=24.66 Aligned_cols=13 Identities=31% Similarity=0.810 Sum_probs=10.2
Q ss_pred EEEecCCCCCccc
Q 047479 25 TYTVGDNAGWTTQ 37 (84)
Q Consensus 25 ~~~VG~~~gW~~~ 37 (84)
.+.||+..||...
T Consensus 27 g~YvG~~~G~~~~ 39 (351)
T PRK10808 27 TWYTGGKLGWSQY 39 (351)
T ss_pred cEEEeccccceee
Confidence 3889999998753
No 55
>PRK06461 single-stranded DNA-binding protein; Reviewed
Probab=25.13 E-value=1.1e+02 Score=20.02 Aligned_cols=30 Identities=23% Similarity=0.442 Sum_probs=20.9
Q ss_pred EEecCCCCCcccCCCCcccccCC-CceeeCCEEEEe
Q 047479 26 YTVGDNAGWTTQGKVDYYSWVDG-KEFKVGDTLGES 60 (84)
Q Consensus 26 ~~VG~~~gW~~~~~~~Y~~Wa~~-~~F~vGD~L~F~ 60 (84)
.++||..| .+ ..+-|-.. ..|..||.+.++
T Consensus 44 ~~l~D~TG-~I----~~tlW~~~a~~l~~GdvV~I~ 74 (129)
T PRK06461 44 AVVGDETG-RV----KLTLWGEQAGSLKEGEVVEIE 74 (129)
T ss_pred EEEECCCC-EE----EEEEeCCccccCCCCCEEEEE
Confidence 46788777 22 35566533 478999999988
No 56
>PRK12696 flgH flagellar basal body L-ring protein; Reviewed
Probab=24.99 E-value=1.2e+02 Score=22.32 Aligned_cols=17 Identities=24% Similarity=0.358 Sum_probs=12.8
Q ss_pred cCCCceeeCCEEEEeec
Q 047479 46 VDGKEFKVGDTLGESLK 62 (84)
Q Consensus 46 a~~~~F~vGD~L~F~Y~ 62 (84)
+.+|.++|||.|...-.
T Consensus 61 ~D~RA~~VGDivTV~i~ 77 (236)
T PRK12696 61 ADSRARRVGDIVLVKIV 77 (236)
T ss_pred cccccccCCCEEEEEEE
Confidence 35788999999976543
No 57
>PF11663 Toxin_YhaV: Toxin with endonuclease activity YhaV; InterPro: IPR021679 YhaV causes reversible bacteriostasis and is part of a toxin-antitoxin system in Escherichia coli along with PrlF. The toxicity of YhaV is counteracted by PrlF by the formation of a tight complex which binds to the promoter of the prlF-yhaV operon. In vitro, YhaV also has endonuclease activity [].
Probab=24.71 E-value=1.3e+02 Score=20.89 Aligned_cols=58 Identities=22% Similarity=0.346 Sum_probs=39.0
Q ss_pred hhccceEEEecCCCCCcccCCCCcccccCCCceeeCCEEEEeecCCCcceEE--eccccchhhhccC
Q 047479 19 ASVAATTYTVGDNAGWTTQGKVDYYSWVDGKEFKVGDTLGESLKLRKNEKFY--LQNEKSKRNYLAG 83 (84)
Q Consensus 19 ~~~~a~~~~VG~~~gW~~~~~~~Y~~Wa~~~~F~vGD~L~F~Y~~~~~sV~~--v~~ev~k~~Y~~~ 83 (84)
.--...+|.-|+..| ..|.+|-.-|-|+ -=-|.|+|++..-.++. |+.|.|+..|.+.
T Consensus 52 ~DP~~~~yrqG~TLG------~~~khW~RaKf~~-ryRLFFRy~s~skiIv~aWvNDe~tlR~ygsk 111 (140)
T PF11663_consen 52 ADPTRPEYRQGNTLG------DEYKHWFRAKFFQ-RYRLFFRYDSESKIIVYAWVNDEQTLRAYGSK 111 (140)
T ss_pred CCCCchHhhCCCCCc------ccccchhhhcccc-eeeEEEEecCccCEEEEEEeCCCcchhhhccC
Confidence 334666788887654 5789997665444 34689999987655544 4556677777654
No 58
>PRK12698 flgH flagellar basal body L-ring protein; Reviewed
Probab=24.68 E-value=1.1e+02 Score=22.47 Aligned_cols=17 Identities=47% Similarity=0.503 Sum_probs=13.2
Q ss_pred cCCCceeeCCEEEEeec
Q 047479 46 VDGKEFKVGDTLGESLK 62 (84)
Q Consensus 46 a~~~~F~vGD~L~F~Y~ 62 (84)
+.+|-++|||.|...-.
T Consensus 59 ~D~rA~~VGDivTV~i~ 75 (224)
T PRK12698 59 SDIKAHKVGDIITVVLK 75 (224)
T ss_pred cccccccCCCeEEEEEE
Confidence 55789999999976553
No 59
>PF02989 DUF228: Lyme disease proteins of unknown function; InterPro: IPR004239 This group comprises proteins of unknown function from Borrelia burgdorferi, the causitive organism of Lyme disease.
Probab=24.48 E-value=52 Score=23.76 Aligned_cols=23 Identities=17% Similarity=0.265 Sum_probs=19.1
Q ss_pred CCcccc--cCCCceeeCCEEEEeec
Q 047479 40 VDYYSW--VDGKEFKVGDTLGESLK 62 (84)
Q Consensus 40 ~~Y~~W--a~~~~F~vGD~L~F~Y~ 62 (84)
.|++.| +...+.+.||.|.|+=.
T Consensus 116 nnFegyLvak~~~ik~gdkL~fN~~ 140 (184)
T PF02989_consen 116 NNFEGYLVAKDSTIKAGDKLIFNKD 140 (184)
T ss_pred CCeEEEEEECCCCCCcCcEEEecCC
Confidence 478888 67789999999999753
No 60
>smart00032 CCP Domain abundant in complement control proteins; SUSHI repeat; short complement-like repeat (SCR). The complement control protein (CCP) modules (also known as short consensus repeats SCRs or SUSHI repeats) contain approximately 60 amino acid residues and have been identified in several proteins of the complement system. A missense mutation in seventh CCP domain causes deficiency of the b subunit of factor XIII.
Probab=24.23 E-value=79 Score=16.22 Aligned_cols=18 Identities=28% Similarity=0.265 Sum_probs=15.4
Q ss_pred CCceeeCCEEEEeecCCC
Q 047479 48 GKEFKVGDTLGESLKLRK 65 (84)
Q Consensus 48 ~~~F~vGD~L~F~Y~~~~ 65 (84)
...|..|+++.|.-+++.
T Consensus 17 ~~~~~~g~~~~~~C~~Gy 34 (57)
T smart00032 17 KGTYSVGDTVTYSCNPGY 34 (57)
T ss_pred CCeecCCCEEEEEcCCCC
Confidence 468999999999998873
No 61
>TIGR02228 sigpep_I_arch signal peptidase I, archaeal type. This model represents signal peptidase I from most archaea, a subunit of the eukaryotic endoplasmic reticulum signal peptidase I complex, and an apparent signal peptidase I from a small number of bacteria. It is related to but does not overlap in hits with TIGR02227, the bacterial and mitochondrial signal peptidase I.
Probab=24.18 E-value=2.4e+02 Score=19.25 Aligned_cols=18 Identities=22% Similarity=0.235 Sum_probs=14.6
Q ss_pred CCCceeeCCEEEEeecCC
Q 047479 47 DGKEFKVGDTLGESLKLR 64 (84)
Q Consensus 47 ~~~~F~vGD~L~F~Y~~~ 64 (84)
..+.++.||.++|+.+.+
T Consensus 57 ~~~~~~~GDIVvf~~~~~ 74 (158)
T TIGR02228 57 DPNDIQVGDVITYKSPGF 74 (158)
T ss_pred ccCCCCCCCEEEEEECCC
Confidence 346889999999998764
No 62
>PRK10334 mechanosensitive channel MscS; Provisional
Probab=23.28 E-value=43 Score=25.03 Aligned_cols=14 Identities=14% Similarity=0.256 Sum_probs=11.8
Q ss_pred CCCceeeCCEEEEe
Q 047479 47 DGKEFKVGDTLGES 60 (84)
Q Consensus 47 ~~~~F~vGD~L~F~ 60 (84)
-.|+|++||.+.+.
T Consensus 126 ~~rpf~vGD~I~i~ 139 (286)
T PRK10334 126 MFRPFRAGEYVDLG 139 (286)
T ss_pred hcCCCCCCCEEEEC
Confidence 34899999999875
No 63
>PRK11546 zraP zinc resistance protein; Provisional
Probab=22.87 E-value=81 Score=21.76 Aligned_cols=28 Identities=21% Similarity=0.220 Sum_probs=14.8
Q ss_pred HHHHHHHHHhchhccceEEEecCCCCCcc
Q 047479 8 VISLTIMALFGASVAATTYTVGDNAGWTT 36 (84)
Q Consensus 8 l~~~~~~~~~~~~~~a~~~~VG~~~gW~~ 36 (84)
++.|+.++++...+.|..+- |+..||--
T Consensus 11 ~~ala~~~~~s~~a~A~~~~-G~~~G~~~ 38 (143)
T PRK11546 11 LMALSALAMGSGSAFAHHHW-GGGHGMWQ 38 (143)
T ss_pred HHHHHHHHHhhhHHHHhhcc-CCCCCCCc
Confidence 33344444445555555555 77777653
No 64
>PRK12701 flgH flagellar basal body L-ring protein; Reviewed
Probab=22.55 E-value=1.6e+02 Score=21.64 Aligned_cols=17 Identities=24% Similarity=0.130 Sum_probs=13.1
Q ss_pred cCCCceeeCCEEEEeec
Q 047479 46 VDGKEFKVGDTLGESLK 62 (84)
Q Consensus 46 a~~~~F~vGD~L~F~Y~ 62 (84)
+.+|-++|||.|...-.
T Consensus 64 ~D~rA~~VGDiiTV~i~ 80 (230)
T PRK12701 64 ETPRARHPGDILTVYLI 80 (230)
T ss_pred cccccccCCCEEEEEEE
Confidence 45788999999976653
No 65
>PRK05338 rplS 50S ribosomal protein L19; Provisional
Probab=22.46 E-value=58 Score=21.68 Aligned_cols=14 Identities=43% Similarity=0.676 Sum_probs=12.2
Q ss_pred CceeeCCEEEEeec
Q 047479 49 KEFKVGDTLGESLK 62 (84)
Q Consensus 49 ~~F~vGD~L~F~Y~ 62 (84)
-.|++||++...|.
T Consensus 17 p~f~~GD~V~V~~~ 30 (116)
T PRK05338 17 PEFRPGDTVRVHVK 30 (116)
T ss_pred CCcCCCCEEEEEEE
Confidence 47999999999884
No 66
>PLN00212 glutelin; Provisional
Probab=22.41 E-value=66 Score=26.32 Aligned_cols=23 Identities=17% Similarity=0.007 Sum_probs=12.3
Q ss_pred CcchhHHHHHHHHHHHhchhccc
Q 047479 1 MAAAKSAVISLTIMALFGASVAA 23 (84)
Q Consensus 1 Ma~~~~~l~~~~~~~~~~~~~~a 23 (84)
||++...|.+.+|++++..+|.|
T Consensus 1 ~~~~~~~l~~~~~~l~l~~~~~a 23 (493)
T PLN00212 1 ASSAFSRLSICFCVLLLCHGSMA 23 (493)
T ss_pred CcchHHHHHHHHHHHHHHhhHhh
Confidence 67655555444555455555444
No 67
>COG3655 Predicted transcriptional regulator [Transcription]
Probab=22.36 E-value=51 Score=20.32 Aligned_cols=14 Identities=21% Similarity=0.119 Sum_probs=11.0
Q ss_pred eeeCCEEEEeecCC
Q 047479 51 FKVGDTLGESLKLR 64 (84)
Q Consensus 51 F~vGD~L~F~Y~~~ 64 (84)
-++||.|+|..+..
T Consensus 57 CqpgDiley~~d~~ 70 (73)
T COG3655 57 CQPGDILEYVPDSD 70 (73)
T ss_pred CChhheeEEecCCc
Confidence 46899999988754
No 68
>PF00278 Orn_DAP_Arg_deC: Pyridoxal-dependent decarboxylase, C-terminal sheet domain; InterPro: IPR022643 These enzymes are collectively known as group IV decarboxylases []. Pyridoxal-dependent decarboxylases acting on ornithine, lysine, arginine and related substrates can be classified into two different families on the basis of sequence similarities [, ]. Members of this family while most probably evolutionary related, do not share extensive regions of sequence similarities. The proteins contain a conserved lysine residue which is known, in mouse ODC [], to be the site of attachment of the pyridoxal-phosphate group. The proteins also contain a stretch of three consecutive glycine residues and has been proposed to be part of a substrate- binding region []. This entry represents the C-terminal region of the Orn/DAP/Arg decarboxylases.; GO: 0003824 catalytic activity; PDB: 1TWI_B 1TUF_A 3MT1_A 3N2B_C 2O0T_A 1HKW_A 1HKV_A 3VAB_A 3N2O_A 7ODC_A ....
Probab=22.31 E-value=37 Score=20.97 Aligned_cols=14 Identities=43% Similarity=0.330 Sum_probs=10.0
Q ss_pred CceeeCCEEEEeec
Q 047479 49 KEFKVGDTLGESLK 62 (84)
Q Consensus 49 ~~F~vGD~L~F~Y~ 62 (84)
+..++||+|+|.-.
T Consensus 81 ~~l~~GD~l~f~~~ 94 (116)
T PF00278_consen 81 KELEVGDWLVFENM 94 (116)
T ss_dssp STTTTT-EEEESS-
T ss_pred CCCCCCCEEEEecC
Confidence 37889999999764
No 69
>COG5661 Predicted secreted Zn-dependent protease [Posttranslational modification, protein turnover, chaperones]
Probab=22.07 E-value=62 Score=23.72 Aligned_cols=11 Identities=9% Similarity=0.407 Sum_probs=9.2
Q ss_pred EEecCCCCCcc
Q 047479 26 YTVGDNAGWTT 36 (84)
Q Consensus 26 ~~VG~~~gW~~ 36 (84)
|.+||+..|+.
T Consensus 37 fSI~gkTaaDL 47 (210)
T COG5661 37 FSIGGKTAADL 47 (210)
T ss_pred EEEcCccHHHH
Confidence 67999998975
No 70
>PF14478 DUF4430: Domain of unknown function (DUF4430); PDB: 3U7Z_B 2BB5_A.
Probab=21.63 E-value=55 Score=18.96 Aligned_cols=15 Identities=20% Similarity=0.200 Sum_probs=9.2
Q ss_pred cCCCceeeCCEEEEe
Q 047479 46 VDGKEFKVGDTLGES 60 (84)
Q Consensus 46 a~~~~F~vGD~L~F~ 60 (84)
+.....+-||.|.|+
T Consensus 54 a~~~~l~~GD~i~~~ 68 (68)
T PF14478_consen 54 AGSYKLKDGDKITWY 68 (68)
T ss_dssp CCC-B--TTEEEEE-
T ss_pred cceeEeCCCCEEEeC
Confidence 555789999999985
No 71
>PF15240 Pro-rich: Proline-rich
Probab=21.22 E-value=49 Score=23.73 Aligned_cols=6 Identities=17% Similarity=-0.003 Sum_probs=2.3
Q ss_pred chhccc
Q 047479 18 GASVAA 23 (84)
Q Consensus 18 ~~~~~a 23 (84)
+++|..
T Consensus 13 LSSAQ~ 18 (179)
T PF15240_consen 13 LSSAQS 18 (179)
T ss_pred hhhccc
Confidence 334433
No 72
>cd05811 CBM20_glucoamylase Glucoamylase (glucan1,4-alpha-glucosidase), C-terminal CBM20 (carbohydrate-binding module, family 20) domain. Glucoamylases are inverting, exo-acting starch hydrolases that hydrolyze starch and related polysaccharides by releasing the nonreducing end glucose. They are mainly active on alpha-1,4-glycosidic bonds but also have some activity towards 1,6-glycosidic bonds occurring in natural oligosaccharides. The ability of glucoamylases to cleave 1-6-glycosidic binds is called "debranching activity" and is of importance in industrial applications, where complete degradation of starch to glucose is needed. Most glucoamylases are multidomain proteins containing an N-terminal catalytic domain, a C-terminal CBM20 domain, and a highly O-glycosylated linker region that connects the two. The CBM20 domain is found in a large number of starch degrading enzymes including alpha-amylase, beta-amylase, glucoamylase, and CGTase (cyclodextrin glucanotransferase). CBM20 is also
Probab=21.08 E-value=93 Score=19.17 Aligned_cols=38 Identities=16% Similarity=0.263 Sum_probs=26.8
Q ss_pred EEEecCC---CCCcccCC---------CCcccccCCCceeeCCEEEEeec
Q 047479 25 TYTVGDN---AGWTTQGK---------VDYYSWVDGKEFKVGDTLGESLK 62 (84)
Q Consensus 25 ~~~VG~~---~gW~~~~~---------~~Y~~Wa~~~~F~vGD~L~F~Y~ 62 (84)
.+.+|+. .+|.+... .++..|...-.+..|+.+.+||-
T Consensus 23 l~v~G~~~~LG~W~~~~a~~m~~~~~t~~~~~W~~~v~lp~~~~veYKy~ 72 (106)
T cd05811 23 IKIVGSIPQLGNWDTSSAVALSASQYTSSNPLWSVTIPLPAGTSFEYKFI 72 (106)
T ss_pred EEEEeCcHHHCCCChhhCcccccccCccCCCcEEEEEEeCCCCcEEEEEE
Confidence 4778875 35986311 12466988888888999999995
No 73
>PF14283 DUF4366: Domain of unknown function (DUF4366)
Probab=20.91 E-value=1.3e+02 Score=21.90 Aligned_cols=24 Identities=17% Similarity=0.245 Sum_probs=18.4
Q ss_pred EEEeecCCCcceEEeccccchhhhc
Q 047479 57 LGESLKLRKNEKFYLQNEKSKRNYL 81 (84)
Q Consensus 57 L~F~Y~~~~~sV~~v~~ev~k~~Y~ 81 (84)
|+..++....+|+.+ .||+..|-.
T Consensus 88 liIDr~~~~enV~fL-n~VdE~DLl 111 (218)
T PF14283_consen 88 LIIDRDEEGENVYFL-NQVDEADLL 111 (218)
T ss_pred EEEecCCCcceEEEe-ccCCHHHHH
Confidence 678888877788887 588887743
No 74
>PF12158 DUF3592: Protein of unknown function (DUF3592); InterPro: IPR021994 This family of proteins is functionally uncharacterised.This family of proteins is found in bacteria, archaea, eukaryotes and viruses. Proteins in this family are typically between 150 and 242 amino acids in length.
Probab=20.77 E-value=89 Score=19.82 Aligned_cols=19 Identities=21% Similarity=0.405 Sum_probs=15.5
Q ss_pred ceeeCCEEEEeecCCCcce
Q 047479 50 EFKVGDTLGESLKLRKNEK 68 (84)
Q Consensus 50 ~F~vGD~L~F~Y~~~~~sV 68 (84)
.+++||.+.-.|+|++-+-
T Consensus 91 ~~~~G~~V~V~Y~P~~P~~ 109 (148)
T PF12158_consen 91 KYPIGDTVTVYYNPNNPEE 109 (148)
T ss_pred cCCCcCEEEEEECCcCCCe
Confidence 5889999999999975443
No 75
>cd04370 BAH BAH, or Bromo Adjacent Homology domain (also called ELM1 and BAM for Bromo Adjacent Motif). BAH domains have first been described as domains found in the polybromo protein and Yeast Rsc1/Rsc2 (Remodeling of the Structure of Chromatin). They also occur in mammalian DNA methyltransferases and the MTA1 subunits of histone deacetylase complexes. A BAH domain is also found in Yeast Sir3p and in the origin receptor complex protein 1 (Orc1p), where it was found to interact with the N-terminal lobe of the silence information regulator 1 protein (Sir1p), confirming the initial hypothesis that BAH plays a role in protein-protein interactions.
Probab=20.67 E-value=85 Score=19.07 Aligned_cols=16 Identities=25% Similarity=0.360 Sum_probs=13.1
Q ss_pred CCceeeCCEEEEeecC
Q 047479 48 GKEFKVGDTLGESLKL 63 (84)
Q Consensus 48 ~~~F~vGD~L~F~Y~~ 63 (84)
+..+++||.+.++-+.
T Consensus 1 g~~y~vgd~V~v~~~~ 16 (123)
T cd04370 1 GITYEVGDSVYVEPDD 16 (123)
T ss_pred CCEEecCCEEEEecCC
Confidence 4679999999988765
No 76
>PF05899 Cupin_3: Protein of unknown function (DUF861); InterPro: IPR008579 The function of the proteins in this entry are unknown. They contain the conserved barrel domain of the 'cupin' superfamily and members are specific to plants and bacteria.; PDB: 1RC6_A 3MYX_A 1O5U_A 2K9Z_A 1LKN_A 3ES4_A 1SFN_B 3BCW_A.
Probab=20.61 E-value=55 Score=19.34 Aligned_cols=27 Identities=19% Similarity=0.161 Sum_probs=17.1
Q ss_pred CceeeCCEEEEeecCCCcceEEeccccch
Q 047479 49 KEFKVGDTLGESLKLRKNEKFYLQNEKSK 77 (84)
Q Consensus 49 ~~F~vGD~L~F~Y~~~~~sV~~v~~ev~k 77 (84)
.+|..||.+.| +++..-..++.+-+.|
T Consensus 46 ~~~~aGD~~~~--p~G~~~~w~v~~~vrK 72 (74)
T PF05899_consen 46 VTFKAGDAFFL--PKGWTGTWEVREPVRK 72 (74)
T ss_dssp EEEETTEEEEE---TTEEEEEEEEEEEEE
T ss_pred EEEcCCcEEEE--CCCCEEEEEECeEEEE
Confidence 68999998554 5666666665544443
No 77
>cd05467 CBM20 The family 20 carbohydrate-binding module (CBM20), also known as the starch-binding domain, is found in a large number of starch degrading enzymes including alpha-amylase, beta-amylase, glucoamylase, and CGTase (cyclodextrin glucanotransferase). CBM20 is also present in proteins that have a regulatory role in starch metabolism in plants (e.g. alpha-amylase) or glycogen metabolism in mammals (e.g. laforin). CBM20 folds as an antiparallel beta-barrel structure with two starch binding sites. These two sites are thought to differ functionally with site 1 acting as the initial starch recognition site and site 2 involved in the specific recognition of appropriate regions of starch.
Probab=20.58 E-value=1.3e+02 Score=17.85 Aligned_cols=40 Identities=18% Similarity=0.490 Sum_probs=27.8
Q ss_pred eEEEecCC---CCCcccCC-----CC-cccccCCCceee--CCEEEEeecC
Q 047479 24 TTYTVGDN---AGWTTQGK-----VD-YYSWVDGKEFKV--GDTLGESLKL 63 (84)
Q Consensus 24 ~~~~VG~~---~gW~~~~~-----~~-Y~~Wa~~~~F~v--GD~L~F~Y~~ 63 (84)
..+.+|+. ..|++..+ .+ ...|...-.+.. |..+.|||-.
T Consensus 15 ~l~v~G~~~~LG~W~~~~a~~m~~~~~~~~W~~~v~~~~~~~~~~~yKy~~ 65 (96)
T cd05467 15 SVYVVGSHPELGNWDPAKALRLNTSNSYPLWTGEIPLPAPEGQVIEYKYVI 65 (96)
T ss_pred EEEEEeCcHHhCCcChhcCccccCCCCCCcEEEEEEecCCCCCeEEEEEEE
Confidence 34778875 36986321 23 567988888888 8899999943
No 78
>TIGR03511 GldH_lipo gliding motility-associated lipoprotein GldH. Members of this protein family are predicted lipoproteins, exclusive to the Bacteroidetes phylum (previously Cytophaga-Flavobacteria-Bacteroides). Members include GldH, a protein linked to a type of rapid surface gliding motility found in certain Bacteroidetes, such as Flavobacterium johnsoniae and Cytophaga hutchinsonii. Gliding motility appears closely linked to chitin utilization in the model species Flavobacterium johnsoniae. Not all Bacteroidetes with members of this protein family may have gliding motility.
Probab=20.47 E-value=3e+02 Score=18.96 Aligned_cols=22 Identities=18% Similarity=0.481 Sum_probs=10.5
Q ss_pred HHhchhccce-EEEe---cCCCCCcc
Q 047479 15 ALFGASVAAT-TYTV---GDNAGWTT 36 (84)
Q Consensus 15 ~~~~~~~~a~-~~~V---G~~~gW~~ 36 (84)
+++.+|-..+ .|.. =...||.-
T Consensus 15 ~ll~sC~~~~~vy~~y~~~p~~~W~k 40 (156)
T TIGR03511 15 CVLVSCTENTDVYHSYQSTPHGGWQK 40 (156)
T ss_pred HHhcccCCCCeEEEEeeECCccCcCC
Confidence 3455555555 4442 23346754
No 79
>TIGR02656 cyanin_plasto plastocyanin. Members of this family are plastocyanin, a blue copper protein related to pseudoazurin, halocyanin, amicyanin, etc. This protein, located in the thylakoid luman, performs electron transport to photosystem I in Cyanobacteria and chloroplasts.
Probab=20.42 E-value=1.2e+02 Score=18.68 Aligned_cols=23 Identities=13% Similarity=0.102 Sum_probs=16.6
Q ss_pred CCceeeCCEEEEeecC-CCcceEE
Q 047479 48 GKEFKVGDTLGESLKL-RKNEKFY 70 (84)
Q Consensus 48 ~~~F~vGD~L~F~Y~~-~~~sV~~ 70 (84)
.-++++||++.|+-+. ..|++..
T Consensus 18 ~i~v~~G~~V~~~N~~~~~H~~~~ 41 (99)
T TIGR02656 18 KISIAAGDTVEWVNNKGGPHNVVF 41 (99)
T ss_pred EEEECCCCEEEEEECCCCCceEEE
Confidence 3478899999999643 5677754
No 80
>PF11442 DUF2826: Protein of unknown function (DUF2826); InterPro: IPR021547 This is a family of uncharacterised proteins that is highly conserved in Trypanosoma cruzi.
Probab=20.38 E-value=1e+02 Score=21.34 Aligned_cols=28 Identities=18% Similarity=0.482 Sum_probs=19.9
Q ss_pred HHHHHHHHhchhccceEEEecCCCCCcc
Q 047479 9 ISLTIMALFGASVAATTYTVGDNAGWTT 36 (84)
Q Consensus 9 ~~~~~~~~~~~~~~a~~~~VG~~~gW~~ 36 (84)
+++++..++.-.++-.+|-...+.||-.
T Consensus 9 lllllasllp~vashadyclsadhgw~a 36 (161)
T PF11442_consen 9 LLLLLASLLPFVASHADYCLSADHGWHA 36 (161)
T ss_pred HHHHHHHHHHHHhhccceeeccCccccc
Confidence 3344444556667788999999999976
No 81
>cd05807 CBM20_CGTase CGTase, C-terminal CBM20 (carbohydrate-binding module, family 20) domain. CGTase, also known as cyclodextrin glycosyltransferase and cyclodextrin glucanotransferase, catalyzes the formation of various cyclodextrins (alpha-1,4-glucans) from starch. CGTase has, in addition to its C-terminal CBM20 domain, an N-terminal catalytic domain belonging to glycosyl hydrolase family 13 and an IPT domain of unknown function. The CBM20 domain is found in a large number of starch degrading enzymes including alpha-amylase, beta-amylase, glucoamylase, and CGTase (cyclodextrin glucanotransferase). CBM20 is also present in proteins that have a regulatory role in starch metabolism in plants (e.g. alpha-amylase) or glycogen metabolism in mammals (e.g. laforin). CBM20 folds as an antiparallel beta-barrel structure with two starch binding sites. These two sites are thought to differ functionally with site 1 acting as the initial starch recognition site and site 2 involved in the specific
Probab=20.30 E-value=87 Score=19.33 Aligned_cols=40 Identities=20% Similarity=0.417 Sum_probs=28.6
Q ss_pred eEEEecCC---CCCcccCC---------CCcccccCCCceeeCCEEEEeecC
Q 047479 24 TTYTVGDN---AGWTTQGK---------VDYYSWVDGKEFKVGDTLGESLKL 63 (84)
Q Consensus 24 ~~~~VG~~---~gW~~~~~---------~~Y~~Wa~~~~F~vGD~L~F~Y~~ 63 (84)
..|.+|+. ..|++... ..|..|...-.+..|..+.|||-.
T Consensus 19 ~l~v~Gs~~~LG~W~~~~a~~~~~~~~~~~~~~W~~~~~lp~~~~~eyK~~~ 70 (101)
T cd05807 19 NVYLVGNVHELGNWDPSKAIGPFFNQVVYQYPNWYYDVSVPAGTTIEFKFIK 70 (101)
T ss_pred EEEEEECHHHHCCCChHHccccccccCCCcCCcEEEEEEcCCCCcEEEEEEE
Confidence 45788875 35985211 245679888889999999999943
No 82
>COG3354 FlaG Putative archaeal flagellar protein G [Cell motility and secretion]
Probab=20.15 E-value=69 Score=22.50 Aligned_cols=7 Identities=43% Similarity=0.515 Sum_probs=3.9
Q ss_pred CcchhHH
Q 047479 1 MAAAKSA 7 (84)
Q Consensus 1 Ma~~~~~ 7 (84)
||+..+.
T Consensus 1 mAs~a~S 7 (154)
T COG3354 1 MASVASS 7 (154)
T ss_pred CCccchh
Confidence 7764443
No 83
>cd00164 S1_like S1_like: Ribosomal protein S1-like RNA-binding domain. Found in a wide variety of RNA-associated proteins. Originally identified in S1 ribosomal protein. This superfamily also contains the Cold Shock Domain (CSD), which is a homolog of the S1 domain. Both domains are members of the Oligonucleotide/oligosaccharide Binding (OB) fold.
Probab=20.13 E-value=71 Score=16.72 Aligned_cols=15 Identities=33% Similarity=0.521 Sum_probs=12.1
Q ss_pred CCceeeCCEEEEeec
Q 047479 48 GKEFKVGDTLGESLK 62 (84)
Q Consensus 48 ~~~F~vGD~L~F~Y~ 62 (84)
.+.|++||.+..+--
T Consensus 39 ~~~~~~G~~v~~~v~ 53 (65)
T cd00164 39 SEVFKVGDEVEVKVL 53 (65)
T ss_pred hhEeCCCCEEEEEEE
Confidence 467999999988764
Done!