Query psy8579
Match_columns 168
No_of_seqs 157 out of 311
Neff 5.8
Searched_HMMs 46136
Date Fri Aug 16 22:25:34 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy8579.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/8579hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG4079|consensus 100.0 2.2E-75 4.7E-80 449.6 10.7 165 1-165 1-165 (169)
2 KOG3445|consensus 99.9 6.4E-23 1.4E-27 157.8 8.5 118 11-132 8-126 (145)
3 KOG3446|consensus 99.8 4.4E-19 9.5E-24 127.2 4.8 90 19-108 6-95 (97)
4 PF05047 L51_S25_CI-B8: Mitoch 99.7 3.1E-17 6.8E-22 106.8 6.4 52 45-96 1-52 (52)
5 PF08806 Sep15_SelM: Sep15/Sel 92.5 0.23 5E-06 35.0 4.1 61 41-106 14-75 (78)
6 PF10780 MRP_L53: 39S ribosoma 91.8 0.3 6.5E-06 31.8 3.8 49 35-84 1-51 (51)
7 PF14847 Ras_bdg_2: Ras-bindin 84.3 2.1 4.4E-05 31.9 4.4 35 77-111 3-38 (105)
8 PTZ00062 glutaredoxin; Provisi 78.8 28 0.0006 28.6 9.7 87 35-127 25-114 (204)
9 smart00295 B41 Band 4.1 homolo 60.3 22 0.00047 27.6 5.1 34 76-109 5-39 (207)
10 PF05748 Rubella_E1: Rubella m 59.0 5.1 0.00011 35.3 1.3 16 136-151 62-77 (496)
11 PF03698 UPF0180: Uncharacteri 54.8 16 0.00035 25.9 3.1 23 85-107 57-79 (80)
12 cd01787 GRB7_RA RA (RAS-associ 51.3 47 0.001 23.9 5.0 35 76-110 4-39 (85)
13 PRK04527 argininosuccinate syn 48.4 56 0.0012 29.8 6.2 92 14-111 158-252 (400)
14 cd03063 TRX_Fd_FDH_beta TRX-li 48.2 1E+02 0.0022 22.2 7.6 65 41-108 12-79 (92)
15 TIGR03180 UraD_2 OHCU decarbox 47.1 65 0.0014 25.3 5.8 38 83-120 107-144 (158)
16 PRK03094 hypothetical protein; 46.8 26 0.00057 24.9 3.1 22 86-107 58-79 (80)
17 TIGR03164 UHCUDC OHCU decarbox 46.6 67 0.0015 25.2 5.8 39 83-121 107-145 (157)
18 PRK13798 putative OHCU decarbo 45.9 68 0.0015 25.5 5.8 38 83-120 112-149 (166)
19 PF09508 Lact_bio_phlase: Lact 45.2 83 0.0018 30.7 7.0 68 42-110 181-251 (716)
20 KOG3384|consensus 44.0 92 0.002 24.6 6.0 48 58-107 103-151 (154)
21 COG1453 Predicted oxidoreducta 43.1 23 0.00049 32.2 2.8 68 83-159 241-315 (391)
22 smart00446 LRRcap occurring C- 37.6 12 0.00025 21.2 0.1 17 43-59 2-18 (26)
23 TIGR02336 1,3-beta-galactosyl- 37.2 1.1E+02 0.0023 30.1 6.5 68 42-110 184-254 (719)
24 COG1618 Predicted nucleotide k 29.8 56 0.0012 26.6 2.9 37 71-109 140-177 (179)
25 TIGR00032 argG argininosuccina 29.8 99 0.0022 27.9 4.8 36 76-111 214-249 (394)
26 PF09349 OHCU_decarbox: OHCU d 29.6 1.1E+02 0.0023 23.9 4.4 37 83-119 110-146 (159)
27 PF07473 Toxin_11: Spasmodic p 29.4 30 0.00065 19.9 0.9 13 132-144 10-22 (28)
28 PRK00509 argininosuccinate syn 29.3 90 0.002 28.4 4.4 36 75-110 216-251 (399)
29 KOG3404|consensus 29.2 34 0.00073 26.7 1.5 16 125-144 108-123 (145)
30 PF00085 Thioredoxin: Thioredo 29.2 1.1E+02 0.0025 20.3 4.1 71 29-105 19-102 (103)
31 PF06200 tify: tify domain; I 29.1 72 0.0016 19.3 2.6 27 74-101 5-32 (36)
32 cd00367 PTS-HPr_like Histidine 28.2 76 0.0016 21.4 3.0 31 77-107 47-77 (77)
33 PRK13820 argininosuccinate syn 28.1 1E+02 0.0022 28.0 4.5 36 76-111 214-249 (394)
34 PRK13780 phosphocarrier protei 27.6 93 0.002 22.0 3.5 34 76-109 50-83 (88)
35 PLN00200 argininosuccinate syn 27.4 1.1E+02 0.0023 27.9 4.6 36 76-111 221-256 (404)
36 PRK13782 phosphocarrier protei 27.4 97 0.0021 21.3 3.5 33 76-108 50-82 (82)
37 PRK13797 putative bifunctional 27.3 1.6E+02 0.0036 27.7 5.9 39 83-121 462-500 (516)
38 PF10387 DUF2442: Protein of u 26.7 87 0.0019 21.1 3.1 19 76-94 11-29 (79)
39 cd00196 UBQ Ubiquitin-like pro 26.5 1.3E+02 0.0028 16.9 4.1 30 80-109 3-33 (69)
40 cd01999 Argininosuccinate_Synt 26.1 1.2E+02 0.0026 27.3 4.7 36 76-111 214-249 (385)
41 smart00051 DSL delta serrate l 26.0 44 0.00096 22.3 1.5 24 126-149 22-47 (63)
42 COG1031 Uncharacterized Fe-S o 25.4 38 0.00083 31.8 1.4 19 134-152 179-197 (560)
43 PF13692 Glyco_trans_1_4: Glyc 24.8 1.4E+02 0.0031 21.0 4.1 40 31-70 3-42 (135)
44 PRK11509 hydrogenase-1 operon 24.6 2.2E+02 0.0047 21.9 5.2 60 52-112 57-129 (132)
45 KOG3354|consensus 24.5 1E+02 0.0022 25.2 3.5 24 85-108 164-187 (191)
46 TIGR01003 PTS_HPr_family Phosp 24.4 1.1E+02 0.0023 21.1 3.2 31 77-107 51-81 (82)
47 TIGR01130 ER_PDI_fam protein d 23.9 4.1E+02 0.0089 23.0 7.6 83 31-114 22-116 (462)
48 cd01777 SNX27_RA Ubiquitin dom 23.8 2.6E+02 0.0056 20.2 5.1 38 76-113 3-41 (87)
49 PF14730 DUF4468: Domain of un 22.7 1.1E+02 0.0024 21.4 3.1 24 86-109 2-25 (91)
50 PF04690 YABBY: YABBY protein; 22.6 54 0.0012 26.5 1.6 18 47-64 131-148 (170)
51 PF00280 potato_inhibit: Potat 21.6 1.6E+02 0.0036 19.7 3.6 20 54-73 17-36 (63)
52 COG3195 Uncharacterized protei 21.4 2.3E+02 0.005 23.0 4.9 39 83-121 120-158 (176)
53 PF00381 PTS-HPr: PTS HPr comp 21.3 1.2E+02 0.0027 20.6 3.1 28 81-108 55-82 (84)
54 PF07710 P53_tetramer: P53 tet 21.1 84 0.0018 19.7 1.9 27 82-108 6-32 (42)
55 PRK10850 PTS system phosphohis 21.0 1.3E+02 0.0028 21.2 3.1 30 79-108 53-82 (85)
56 PF12714 TILa: TILa domain 20.9 46 0.00099 21.6 0.7 19 133-151 20-38 (56)
57 PF07660 STN: Secretin and Ton 20.4 32 0.0007 21.2 -0.1 24 85-108 14-37 (52)
No 1
>KOG4079|consensus
Probab=100.00 E-value=2.2e-75 Score=449.59 Aligned_cols=165 Identities=52% Similarity=0.994 Sum_probs=163.3
Q ss_pred CCCCCCChhHHHHHHHHhccCccccCCceEEEEEecCCCCCChhHHHHHHhchHHHHHhCCCCeEEEEeCCCCCCeEEEE
Q psy8579 1 MGFLIGEAPIRRTLKYLNAGRIVFKDKIKIFAINYNFNAENHRGAKEFVFWHFTQIQFKNPNVQLQVFKNMTPTPFITTY 80 (168)
Q Consensus 1 m~f~~g~~pi~rtl~yL~~g~~~l~~~Vk~l~l~y~~~~~~s~GaR~Fv~~~LP~Lky~NP~V~i~~~k~~~~~P~l~~~ 80 (168)
||||+||+||||||+||++|+++|+|+|+.++++|++++..+.||||||+|++|||||+||+||++.+++++++||+++|
T Consensus 1 MPfMkGr~PiRRTl~YL~qGkvvlkD~V~vfsvnynt~g~~~~GARdFVfwNipQiQykNP~VQ~~~~knmtpsPF~R~Y 80 (169)
T KOG4079|consen 1 MPFMKGRMPIRRTLFYLQQGKVVLKDNVNVFSVNYNTNGPEQSGARDFVFWNIPQIQYKNPKVQLVKHKNMTPSPFARAY 80 (169)
T ss_pred CCcccCcchHHHHHHHHhcCcEEEeccceEEEEeccCCCccccCccceEEecchhhcccCCceEEEeeccCCCChHHHhe
Confidence 99999999999999999999999999999999999999988999999999999999999999999999999999999999
Q ss_pred eeCCcEEEEEcCCCCHhHHHHHHHHHhCCChHHHHHHHHHHhhhcCCCCCCCCCCceeeeecCCCCCCCcCccCCCCccC
Q psy8579 81 LENGSEMLIDVDNKSKDEIHDHVLKVLGKSEQVLKAEAIAREKKDNPANFGFKCEKHCICQIPGQITCPGLVRLPDSMRG 160 (168)
Q Consensus 81 ~~~G~~~~Idv~nk~~~eIl~~l~~l~g~s~~~l~~e~~~~~~~~nPa~fG~~~~~~c~ce~~gq~pc~~~~~~p~~~~~ 160 (168)
++||+++.+|+++++.+||+++|.+++|+++++++.|+++++.++||||||.+|+|+|||||+|||||||+||||++|||
T Consensus 81 lddGr~vL~Dld~~~r~eI~~hl~K~lGKtee~lr~Ee~ek~~k~nPAnFG~~c~R~CiCEv~GQvPCpglvplP~~mrG 160 (169)
T KOG4079|consen 81 LDDGREVLFDLDGMKREEIEKHLAKTLGKTEEVLRREELEKIAKLNPANFGSKCERQCICEVQGQVPCPGLVPLPQCMRG 160 (169)
T ss_pred ecCcceEEEEcccccHHHHHHHHHHHhCccHHHHhHHHHHHHhhcChhhhcccccceEEEecCCcCCCCccccCchHhcc
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred cccCC
Q psy8579 161 KKVNP 165 (168)
Q Consensus 161 k~~~~ 165 (168)
||+.+
T Consensus 161 Ky~~a 165 (169)
T KOG4079|consen 161 KYRWA 165 (169)
T ss_pred eeecc
Confidence 99875
No 2
>KOG3445|consensus
Probab=99.88 E-value=6.4e-23 Score=157.76 Aligned_cols=118 Identities=22% Similarity=0.310 Sum_probs=102.9
Q ss_pred HHHHHHHhccCccccCCceEEEEEecCCCCCChhHHHHHHhchHHHHHhCCCCeEEEEeCCCCCCeEEEEeeCCcEEEEE
Q psy8579 11 RRTLKYLNAGRIVFKDKIKIFAINYNFNAENHRGAKEFVFWHFTQIQFKNPNVQLQVFKNMTPTPFITTYLENGSEMLID 90 (168)
Q Consensus 11 ~rtl~yL~~g~~~l~~~Vk~l~l~y~~~~~~s~GaR~Fv~~~LP~Lky~NP~V~i~~~k~~~~~P~l~~~~~~G~~~~Id 90 (168)
+++.-|=..|+++.+ +++|++.||+||+||.|+|+|+...|+.|+..||+|+|.+....+.||.++++|.||+++.|+
T Consensus 8 ~~Si~~NGlgryv~q--l~rit~sfCnwggSSrGmR~Fle~~L~~~a~enP~v~i~v~~rrg~hP~lraeY~NGre~vic 85 (145)
T KOG3445|consen 8 RASILHNGLGRYVWQ--LRRITVSFCNWGGSSRGMREFLESELPDLARENPGVVIYVEPRRGQHPLLRAEYLNGRERVIC 85 (145)
T ss_pred cccccccchhhhhhe--eeEEEEEEecCCCccHHHHHHHHHHHHHHHhhCCCeEEEEeccCCCCceEEEEecCCceEEEe
Confidence 344444455555554 899999999999999999999999999999999999999999999999999999999999999
Q ss_pred cCCCCHhHHHHHHHHHhCCChHHHHHHHHHH-hhhcCCCCCCC
Q psy8579 91 VDNKSKDEIHDHVLKVLGKSEQVLKAEAIAR-EKKDNPANFGF 132 (168)
Q Consensus 91 v~nk~~~eIl~~l~~l~g~s~~~l~~e~~~~-~~~~nPa~fG~ 132 (168)
++|++.|||.+.+..+...++. +...+.+ .+++|||++|.
T Consensus 86 vrnms~eevs~~~~lL~ds~Gl--~v~~lr~~~~t~nPSvqG~ 126 (145)
T KOG3445|consen 86 VRNMSQEEVSKKATLLRDSSGL--KVVKLRKRVETLNPSVQGQ 126 (145)
T ss_pred eccCCHHHHHHHHHHHhccCCC--cceEecccccccCCccccc
Confidence 9999999999999999888874 3333444 78899999996
No 3
>KOG3446|consensus
Probab=99.76 E-value=4.4e-19 Score=127.15 Aligned_cols=90 Identities=20% Similarity=0.254 Sum_probs=84.8
Q ss_pred ccCccccCCceEEEEEecCCCCCChhHHHHHHhchHHHHHhCCCCeEEEEeCCCCCCeEEEEeeCCcEEEEEcCCCCHhH
Q psy8579 19 AGRIVFKDKIKIFAINYNFNAENHRGAKEFVFWHFTQIQFKNPNVQLQVFKNMTPTPFITTYLENGSEMLIDVDNKSKDE 98 (168)
Q Consensus 19 ~g~~~l~~~Vk~l~l~y~~~~~~s~GaR~Fv~~~LP~Lky~NP~V~i~~~k~~~~~P~l~~~~~~G~~~~Idv~nk~~~e 98 (168)
++...+...+++|+|+.|+.|+.|.|+|+|+...|+.||..||+++|+++++.+..|.+++.|++|.|+.+.++|.+.++
T Consensus 6 sr~~s~~~~lkElRI~lcqkspaSagvR~fvEk~Y~~lKkaNP~lPILIREcSgVqPrl~ARY~~G~E~~v~L~~~s~~~ 85 (97)
T KOG3446|consen 6 SRLASFTLKLKELRIHLCQKSPASAGVREFVEKFYVNLKKANPDLPILIRECSGVQPRLWARYGNGVERSVSLANLSAPQ 85 (97)
T ss_pred hcccccchhhhhheeeecCCCCcchhHHHHHHHhhhhhhhcCCCCcEeehhhcCCchHHHHHhcCCceEEeehhhcchHH
Confidence 34567778899999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHhC
Q psy8579 99 IHDHVLKVLG 108 (168)
Q Consensus 99 Il~~l~~l~g 108 (168)
|.+.|.++..
T Consensus 86 i~kale~l~k 95 (97)
T KOG3446|consen 86 IHKALENLGK 95 (97)
T ss_pred HHHHHHHHhc
Confidence 9999998764
No 4
>PF05047 L51_S25_CI-B8: Mitochondrial ribosomal protein L51 / S25 / CI-B8 domain ; InterPro: IPR007741 Proteins containing this domain are located in the mitochondrion and include ribosomal protein L51, and S25. This domain is also found in mitochondrial NADH-ubiquinone oxidoreductase B8 subunit (CI-B8) 1.6.5.3 from EC. It is not known whether all members of this family form part of the NADH-ubiquinone oxidoreductase and whether they are also all ribosomal proteins.; PDB: 1S3A_A.
Probab=99.70 E-value=3.1e-17 Score=106.81 Aligned_cols=52 Identities=37% Similarity=0.591 Sum_probs=39.3
Q ss_pred HHHHHHhchHHHHHhCCCCeEEEEeCCCCCCeEEEEeeCCcEEEEEcCCCCH
Q psy8579 45 AKEFVFWHFTQIQFKNPNVQLQVFKNMTPTPFITTYLENGSEMLIDVDNKSK 96 (168)
Q Consensus 45 aR~Fv~~~LP~Lky~NP~V~i~~~k~~~~~P~l~~~~~~G~~~~Idv~nk~~ 96 (168)
||+||+++||+||++||+|+|++.++.+.+|++.++|.+|++++|||+|+++
T Consensus 1 ~R~F~~~~lp~l~~~NP~v~~~v~~~~~~~P~~~~~y~~G~~~~i~~~n~~~ 52 (52)
T PF05047_consen 1 ARDFLKNNLPTLKYHNPQVQFEVRRRRGRHPFLTAEYLNGREKTIDVKNKSS 52 (52)
T ss_dssp HHHHHHHTHHHHHHHSTT--EEEE---SSS-EEEEEESS--EEEEE-TT---
T ss_pred CHhHHHHhHHHHHHHCCCcEEEEEECCCCCCEEEEEEcCCCEEEEECCCCCC
Confidence 7999999999999999999999999999999999999999999999999975
No 5
>PF08806 Sep15_SelM: Sep15/SelM redox domain; InterPro: IPR014912 Sep15 and SelM are eukaryotic selenoproteins that have a thioredoxin-like domain and a surface accessible active site redox motif []. This suggests that they function as thiol-disulphide isomerases involved in disulphide bond formation in the endoplasmic reticulum []. ; PDB: 2A4H_A 2A2P_A.
Probab=92.45 E-value=0.23 Score=35.03 Aligned_cols=61 Identities=21% Similarity=0.329 Sum_probs=41.1
Q ss_pred CChhHHHHHHhchHHHHHhCCCCeEEEEeCCCCCCeEEEEeeCCcE-EEEEcCCCCHhHHHHHHHHH
Q psy8579 41 NHRGAKEFVFWHFTQIQFKNPNVQLQVFKNMTPTPFITTYLENGSE-MLIDVDNKSKDEIHDHVLKV 106 (168)
Q Consensus 41 ~s~GaR~Fv~~~LP~Lky~NP~V~i~~~k~~~~~P~l~~~~~~G~~-~~Idv~nk~~~eIl~~l~~l 106 (168)
.--.+..|+++..| =+| |+|.|...... .|.|.++=++|++ .+|++++.+.++|.+-|.+.
T Consensus 14 ~~Pevk~Fi~~~~~-~~y--~~v~vk~i~G~--~P~L~l~d~~g~~~E~i~i~~w~~d~i~efL~~k 75 (78)
T PF08806_consen 14 RYPEVKAFIKSDVP-PLY--PNVEVKYIPGA--PPELVLLDEDGEEVERINIEKWKTDEIEEFLNEK 75 (78)
T ss_dssp TTCCHHHHCCCCCG-HHB--TTEEEEEESS-----EEEEE-SSS--SEEEE-SSSSHCHHHHHHHHH
T ss_pred cChHHHHHHhccch-hcc--CceEEEEeCCC--CCEEEEEcCCCCEEEEEEcccCCHHHHHHHHHHh
Confidence 34567899998882 222 67777655443 5899988888886 49999999999999988764
No 6
>PF10780 MRP_L53: 39S ribosomal protein L53/MRP-L53; InterPro: IPR019716 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 [, ]. Mitochondrial ribosomal protein L53 (also known as L44) is part of the 39S ribosome [].
Probab=91.83 E-value=0.3 Score=31.84 Aligned_cols=49 Identities=18% Similarity=0.211 Sum_probs=38.6
Q ss_pred ecCCCCCChhHHHHHHhc--hHHHHHhCCCCeEEEEeCCCCCCeEEEEeeCC
Q psy8579 35 YNFNAENHRGAKEFVFWH--FTQIQFKNPNVQLQVFKNMTPTPFITTYLENG 84 (168)
Q Consensus 35 y~~~~~~s~GaR~Fv~~~--LP~Lky~NP~V~i~~~k~~~~~P~l~~~~~~G 84 (168)
||..+..++-||.|+..- =++.+--||+.+++.... ...|.+.+-|.||
T Consensus 1 FnPF~~~aksaR~FL~~ip~s~k~~~tni~~~vl~~~~-~~~P~v~V~fkdg 51 (51)
T PF10780_consen 1 FNPFSPNAKSARLFLSLIPPSAKARGTNINCEVLPRVS-RSEPSVTVTFKDG 51 (51)
T ss_pred CCCCCcccHHHHHHHHhcCCccccccCCCceEEecCCC-CCCCeEEEEeccC
Confidence 566777899999999754 345667899999977666 5689999999887
No 7
>PF14847 Ras_bdg_2: Ras-binding domain of Byr2; PDB: 1I35_A 1K8R_B.
Probab=84.27 E-value=2.1 Score=31.91 Aligned_cols=35 Identities=37% Similarity=0.499 Sum_probs=27.9
Q ss_pred EEEEeeCCcEEEEEcCC-CCHhHHHHHHHHHhCCCh
Q psy8579 77 ITTYLENGSEMLIDVDN-KSKDEIHDHVLKVLGKSE 111 (168)
Q Consensus 77 l~~~~~~G~~~~Idv~n-k~~~eIl~~l~~l~g~s~ 111 (168)
+++.++||..++|||.+ .+++||+..+.+.+|..+
T Consensus 3 i~~I~~dG~tk~VNV~~c~~a~eI~~rvLKKfg~~~ 38 (105)
T PF14847_consen 3 IRFILEDGSTKTVNVSGCFNAQEIKRRVLKKFGLPE 38 (105)
T ss_dssp EEEEETTTEEEEEE--S--HHHHHHHHHHHHHTSS-
T ss_pred EEEECCCCcEEEEEECCCCCHHHHHHHHHHHcCCcc
Confidence 56778999999999999 678999999999999876
No 8
>PTZ00062 glutaredoxin; Provisional
Probab=78.83 E-value=28 Score=28.61 Aligned_cols=87 Identities=9% Similarity=0.035 Sum_probs=58.2
Q ss_pred ecCCCCCChhHHHHHHhchHHHHHhCCCCeEEEEeCC---CCCCeEEEEeeCCcEEEEEcCCCCHhHHHHHHHHHhCCCh
Q psy8579 35 YNFNAENHRGAKEFVFWHFTQIQFKNPNVQLQVFKNM---TPTPFITTYLENGSEMLIDVDNKSKDEIHDHVLKVLGKSE 111 (168)
Q Consensus 35 y~~~~~~s~GaR~Fv~~~LP~Lky~NP~V~i~~~k~~---~~~P~l~~~~~~G~~~~Idv~nk~~~eIl~~l~~l~g~s~ 111 (168)
.+.|.+.. +++..-++.|...+|++.|..+... ...|++-+ |.+|++.. -+.|-++.++.+.+.+..+.+.
T Consensus 25 ~a~w~~~C----~~m~~vl~~l~~~~~~~~F~~V~~d~~V~~vPtfv~-~~~g~~i~-r~~G~~~~~~~~~~~~~~~~~~ 98 (204)
T PTZ00062 25 KSSKEPEY----EQLMDVCNALVEDFPSLEFYVVNLADANNEYGVFEF-YQNSQLIN-SLEGCNTSTLVSFIRGWAQKGS 98 (204)
T ss_pred eCCCCcch----HHHHHHHHHHHHHCCCcEEEEEccccCcccceEEEE-EECCEEEe-eeeCCCHHHHHHHHHHHcCCCC
Confidence 35665544 3788889999999999999766432 22465544 47888753 4458899999999999988755
Q ss_pred HHHHHHHHHHhhhcCC
Q psy8579 112 QVLKAEAIAREKKDNP 127 (168)
Q Consensus 112 ~~l~~e~~~~~~~~nP 127 (168)
...-..++.+.-..||
T Consensus 99 ~~~~~~~v~~li~~~~ 114 (204)
T PTZ00062 99 SEDTVEKIERLIRNHK 114 (204)
T ss_pred HHHHHHHHHHHHhcCC
Confidence 4323333443333444
No 9
>smart00295 B41 Band 4.1 homologues. Also known as ezrin/radixin/moesin (ERM) protein domains. Present in myosins, ezrin, radixin, moesin, protein tyrosine phosphatases. Plasma membrane-binding domain. These proteins play structural and regulatory roles in the assembly and stabilization of specialized plasmamembrane domains. Some PDZ domain containing proteins bind one or more of this family. Now includes JAKs.
Probab=60.29 E-value=22 Score=27.55 Aligned_cols=34 Identities=26% Similarity=0.560 Sum_probs=30.2
Q ss_pred eEEEEeeCCcEEEEEcC-CCCHhHHHHHHHHHhCC
Q psy8579 76 FITTYLENGSEMLIDVD-NKSKDEIHDHVLKVLGK 109 (168)
Q Consensus 76 ~l~~~~~~G~~~~Idv~-nk~~~eIl~~l~~l~g~ 109 (168)
.+++++-||..+.|.++ ..+.+||++.+-+.+|-
T Consensus 5 ~~~V~l~dg~~~~~~~~~~~t~~ev~~~v~~~~~l 39 (207)
T smart00295 5 VLKVYLLDGTTLEFEVDSSTTAEELLETVCRKLGI 39 (207)
T ss_pred EEEEEecCCCEEEEEECCCCCHHHHHHHHHHHhCC
Confidence 68899999999999988 67999999999888776
No 10
>PF05748 Rubella_E1: Rubella membrane glycoprotein E1; InterPro: IPR008820 Rubella virus (RV), the sole member of the genus Rubivirus within the family Togaviridae, is a small enveloped, positive strand RNA virus. The nucleocapsid consists of 40S genomic RNA and a single species of capsid protein which is enveloped within a host-derived lipid bilayer containing two viral glycoproteins, E1 (58 kDa) and E2 (42-46 kDa). In virus infected cells, RV matures by budding either at the plasma membrane, or at the internal membranes depending on the cell type and enters adjacent uninfected cells by a membrane fusion process in the endosome, directed by E1-E2 heterodimers. The heterodimer formation is crucial for E1 transport out of the endoplasmic reticulum to the Golgi and plasma membrane. In RV E1, a cysteine at position 82 is crucial for the E1-E2 heterodimer formation and cell surface expression of the two proteins. E1 has been shown to be a type 1 membrane protein, rich in cysteine residues with extensive intramolecular disulphide bonds []. This family is found together with IPR008819 from INTERPRO and IPR008821 from INTERPRO.; GO: 0016021 integral to membrane, 0019013 viral nucleocapsid
Probab=58.98 E-value=5.1 Score=35.30 Aligned_cols=16 Identities=50% Similarity=1.340 Sum_probs=14.5
Q ss_pred ceeeeecCCCCCCCcC
Q psy8579 136 KHCICQIPGQITCPGL 151 (168)
Q Consensus 136 ~~c~ce~~gq~pc~~~ 151 (168)
--||||||..|.|-|+
T Consensus 62 gaciceiptdvscegl 77 (496)
T PF05748_consen 62 GACICEIPTDVSCEGL 77 (496)
T ss_pred ceEEEecCCCcccccc
Confidence 4799999999999886
No 11
>PF03698 UPF0180: Uncharacterised protein family (UPF0180); InterPro: IPR005370 The members of this family are small uncharacterised proteins.
Probab=54.81 E-value=16 Score=25.92 Aligned_cols=23 Identities=22% Similarity=0.251 Sum_probs=19.8
Q ss_pred cEEEEEcCCCCHhHHHHHHHHHh
Q psy8579 85 SEMLIDVDNKSKDEIHDHVLKVL 107 (168)
Q Consensus 85 ~~~~Idv~nk~~~eIl~~l~~l~ 107 (168)
..-.||-+|++++||.+.|.+.+
T Consensus 57 ~~pVInA~G~T~eEI~~~v~~rl 79 (80)
T PF03698_consen 57 KVPVINASGLTAEEIVQEVEERL 79 (80)
T ss_pred CceEEecCCCCHHHHHHHHHHhh
Confidence 44599999999999999998754
No 12
>cd01787 GRB7_RA RA (RAS-associated like) domain of Grb7. Grb7_RA The RA (RAS-associated like) domain of Grb7. Grb7 is an adaptor molecule that mediates signal transduction from multiple cell surface receptors to various downstream signaling pathways. Grb7 and its related family members Grb10 and Grb14 share a conserved domain architecture that includes an amino-terminal proline-rich region, a central segment termed the GM region (for Grb and Mig) which includes the RA, PIR, and PH domains, and a carboxyl-terminal SH2 domain. Grb7/10/14 family proteins are phosphorylated on serine/threonine as well as tyrosine residues and are mainly localized to the cytoplasm.
Probab=51.34 E-value=47 Score=23.89 Aligned_cols=35 Identities=14% Similarity=0.301 Sum_probs=29.2
Q ss_pred eEEEEeeCCcEEEEEcC-CCCHhHHHHHHHHHhCCC
Q psy8579 76 FITTYLENGSEMLIDVD-NKSKDEIHDHVLKVLGKS 110 (168)
Q Consensus 76 ~l~~~~~~G~~~~Idv~-nk~~~eIl~~l~~l~g~s 110 (168)
++++|.+||..++|.+. ..++.|+++.|.......
T Consensus 4 vvkv~~~Dg~sK~l~V~~~~Ta~dV~~~L~~K~h~~ 39 (85)
T cd01787 4 VVKVYSEDGASKSLEVDERMTARDVCQLLVDKNHCQ 39 (85)
T ss_pred EEEEEecCCCeeEEEEcCCCcHHHHHHHHHHHhCCC
Confidence 67899999999998886 578999999998776653
No 13
>PRK04527 argininosuccinate synthase; Provisional
Probab=48.40 E-value=56 Score=29.76 Aligned_cols=92 Identities=16% Similarity=0.069 Sum_probs=58.6
Q ss_pred HHHHhccCccccCCceEEEEEecCCCCCChhH-HHHHHhchHHHHHhCCCCeEEEE--eCCCCCCeEEEEeeCCcEEEEE
Q psy8579 14 LKYLNAGRIVFKDKIKIFAINYNFNAENHRGA-KEFVFWHFTQIQFKNPNVQLQVF--KNMTPTPFITTYLENGSEMLID 90 (168)
Q Consensus 14 l~yL~~g~~~l~~~Vk~l~l~y~~~~~~s~Ga-R~Fv~~~LP~Lky~NP~V~i~~~--k~~~~~P~l~~~~~~G~~~~Id 90 (168)
++|+.+--+..+..-+.-++.=|-|+-++.|- -+=|. ..|.-.| .+.+. +..+..-++.+.|+.|.-+.||
T Consensus 158 i~ya~~~gipv~~~~~~yS~D~Nlw~~s~E~g~Ldp~~-~~~~~~~-----~~t~~p~~ap~~p~~v~i~Fe~G~pv~ln 231 (400)
T PRK04527 158 QKYLEERGFGVRAKQKAYTINENLLGVTMSGGEIDRWE-APGEGAR-----GWCAPRSAWPTEALTVTIKFVEGEAVALD 231 (400)
T ss_pred HHHHHHcCCCCCCCCCCcccccchhheecccCCCCcCc-CCCHHHH-----HhcCCHhHCCCCCeEEEEEEEccEEEEEC
Confidence 78998888888765455666666666665442 11110 1111111 01111 1222223899999999999999
Q ss_pred cCCCCHhHHHHHHHHHhCCCh
Q psy8579 91 VDNKSKDEIHDHVLKVLGKSE 111 (168)
Q Consensus 91 v~nk~~~eIl~~l~~l~g~s~ 111 (168)
=+.++.-||++.|.++.|+-+
T Consensus 232 G~~~~~~~li~~lN~i~g~~G 252 (400)
T PRK04527 232 GKPLPGAQILAKLNKLFAQYG 252 (400)
T ss_pred CEeCCHHHHHHHHHHHHhhcc
Confidence 999999999999999988743
No 14
>cd03063 TRX_Fd_FDH_beta TRX-like [2Fe-2S] Ferredoxin (Fd) family, NAD-dependent formate dehydrogenase (FDH) beta subunit; composed of proteins similar to the beta subunit of NAD-linked FDH of Ralstonia eutropha, a soluble enzyme that catalyzes the irreversible oxidation of formate to carbon dioxide accompanied by the reduction of NAD to NADH. FDH is a heteromeric enzyme composed of four nonidentical subunits (alpha, beta, gamma and delta). The FDH beta subunit contains a NADH:ubiquinone oxidoreductase (Nuo) F domain C-terminal to a Fd-like domain without the active site cysteines. The absence of conserved metal-binding residues in the putative active site suggests that members of this subfamily have lost the ability to bind iron-sulfur clusters in the N-terminal Fd-like domain. The C-terminal NuoF domain is a component of Nuo, a multisubunit complex catalyzing the electron transfer of NADH to quinone coupled with the transfer of protons across the membrane. NuoF contains one [4Fe-4S] c
Probab=48.18 E-value=1e+02 Score=22.20 Aligned_cols=65 Identities=8% Similarity=-0.066 Sum_probs=42.2
Q ss_pred CChhHHHHHHhchHHHHHhCCCCeEEEEeCCCC---CCeEEEEeeCCcEEEEEcCCCCHhHHHHHHHHHhC
Q psy8579 41 NHRGAKEFVFWHFTQIQFKNPNVQLQVFKNMTP---TPFITTYLENGSEMLIDVDNKSKDEIHDHVLKVLG 108 (168)
Q Consensus 41 ~s~GaR~Fv~~~LP~Lky~NP~V~i~~~k~~~~---~P~l~~~~~~G~~~~Idv~nk~~~eIl~~l~~l~g 108 (168)
-+.||++....---.++.+|=+|.+...-+.+- .|.+.++..+|+..- .+.+++++-+.+.+.+.
T Consensus 12 iAaGA~~V~~al~~ei~~~gl~v~v~~tGC~G~C~~ePlV~V~~p~g~v~Y---~~V~~edv~~Iv~~~~~ 79 (92)
T cd03063 12 LALGADEVAEAIEAEAAARGLAATIVRNGSRGMYWLEPLVEVETPGGRVAY---GPVTPADVASLLDAGAL 79 (92)
T ss_pred hhhCHHHHHHHHHHHHHHcCCeEEEEEecCceecCCCCEEEEEeCCCcEEE---EeCCHHHHHHHHHHHhh
Confidence 399999998877777888776555554444443 689988766665333 44556665555555444
No 15
>TIGR03180 UraD_2 OHCU decarboxylase. Previously thought to only proceed spontaneously, the decarboxylation of 2-oxo-4-hydroxy-4-carboxy--5-ureidoimidazoline (OHCU) has been recently been shown to be catalyzed by this enzyme in Mus musculus. Homologs of this enzyme are found adjacent to and fused with uricase in a number of prokaryotes and are represented by this model. This model is a separate (but related) clade from that represented by TIGR3164. This model places a second homolog in streptomyces species which (are not in the vicinity of other urate catabolism associated genes) below the trusted cutoff.
Probab=47.07 E-value=65 Score=25.35 Aligned_cols=38 Identities=21% Similarity=0.188 Sum_probs=32.1
Q ss_pred CCcEEEEEcCCCCHhHHHHHHHHHhCCChHHHHHHHHH
Q psy8579 83 NGSEMLIDVDNKSKDEIHDHVLKVLGKSEQVLKAEAIA 120 (168)
Q Consensus 83 ~G~~~~Idv~nk~~~eIl~~l~~l~g~s~~~l~~e~~~ 120 (168)
.|-.-.|.+++++.++|+..+..-++-+.++-..+++.
T Consensus 107 FGfpFii~v~g~s~~~IL~~l~~Rl~n~~e~E~~~al~ 144 (158)
T TIGR03180 107 FGRIFLIRAAGRSAEEMLDALQARLPNDPEQELTIAAE 144 (158)
T ss_pred CCCeEEEeeCCCCHHHHHHHHHHHhCCCHHHHHHHHHH
Confidence 58888999999999999999999999887765555443
No 16
>PRK03094 hypothetical protein; Provisional
Probab=46.82 E-value=26 Score=24.94 Aligned_cols=22 Identities=27% Similarity=0.296 Sum_probs=18.9
Q ss_pred EEEEEcCCCCHhHHHHHHHHHh
Q psy8579 86 EMLIDVDNKSKDEIHDHVLKVL 107 (168)
Q Consensus 86 ~~~Idv~nk~~~eIl~~l~~l~ 107 (168)
.-.||-.|++++||.+.|.+.+
T Consensus 58 ~pVI~A~G~TaeEI~~~ve~r~ 79 (80)
T PRK03094 58 GSVITASGLTADEICQQVESRL 79 (80)
T ss_pred CcEEEcCCCCHHHHHHHHHHhh
Confidence 4499999999999999997644
No 17
>TIGR03164 UHCUDC OHCU decarboxylase. Previously thought to only proceed spontaneously, the decarboxylation of 2-oxo-4-hydroxy-4-carboxy--5-ureidoimidazoline (OHCU) has been recently been shown to be catalyzed by this enzyme in Mus musculus. Homologs of this enzyme are found adjacent to and fused with uricase in a number of prokaryotes and are represented by this model.
Probab=46.62 E-value=67 Score=25.23 Aligned_cols=39 Identities=21% Similarity=0.220 Sum_probs=32.3
Q ss_pred CCcEEEEEcCCCCHhHHHHHHHHHhCCChHHHHHHHHHH
Q psy8579 83 NGSEMLIDVDNKSKDEIHDHVLKVLGKSEQVLKAEAIAR 121 (168)
Q Consensus 83 ~G~~~~Idv~nk~~~eIl~~l~~l~g~s~~~l~~e~~~~ 121 (168)
.|-...|.+++++.++|+..+..-++.+.++-..+++.+
T Consensus 107 FGfpFvi~v~g~~~~~Il~~l~~Rl~n~~~~E~~~a~~E 145 (157)
T TIGR03164 107 FGFPFIMAVKGKTKQSILAAFEARLNNDRETEFARALRE 145 (157)
T ss_pred CCCeeEEeeCCCCHHHHHHHHHHHHCCCHHHHHHHHHHH
Confidence 588889999999999999999999998877655555443
No 18
>PRK13798 putative OHCU decarboxylase; Provisional
Probab=45.88 E-value=68 Score=25.48 Aligned_cols=38 Identities=18% Similarity=0.161 Sum_probs=31.6
Q ss_pred CCcEEEEEcCCCCHhHHHHHHHHHhCCChHHHHHHHHH
Q psy8579 83 NGSEMLIDVDNKSKDEIHDHVLKVLGKSEQVLKAEAIA 120 (168)
Q Consensus 83 ~G~~~~Idv~nk~~~eIl~~l~~l~g~s~~~l~~e~~~ 120 (168)
.|-...|.+++++.++|++.+..-++.+.++-...++.
T Consensus 112 FGfpFii~v~g~s~~~IL~~l~~Rl~n~~e~E~~~al~ 149 (166)
T PRK13798 112 FGFVFLICATGRSADEMLAALQQRLHNDPETERKVVRE 149 (166)
T ss_pred CCCeEEEeeCCCCHHHHHHHHHHHhcCCHHHHHHHHHH
Confidence 58888999999999999999999999887765555433
No 19
>PF09508 Lact_bio_phlase: Lacto-N-biose phosphorylase; InterPro: IPR012711 The gene which codes for this protein in gut-bacteria is located in a novel putative operon for galactose metabolism. The protein appears to be a carbohydrate-processing phosphorolytic enzyme (2.4.1.211 from EC), unlike either glycoside hydrolases or glycoside lyase. Intestinal colonisation by Bifidobacteria is important for human health, especially in paediatrics, because colonisation seems to prevent infection by some pathogenic bacteria that cause diarrhoea or other illnesses. The operon seems to be involved in intestinal colonisation by Bifidobacteria mediated by metabolism of mucin sugars. In addition, it may also resolve the question of the nature of the bifidus factor in human milk as the lacto-N-biose structure found in milk oligosaccharides. ; GO: 0016758 transferase activity, transferring hexosyl groups; PDB: 2ZUW_A 2ZUU_C 2ZUT_D 2ZUV_A 2ZUS_B.
Probab=45.19 E-value=83 Score=30.74 Aligned_cols=68 Identities=16% Similarity=0.210 Sum_probs=49.1
Q ss_pred ChhHHHHHHhchHHHHHhCCCCeEEEEeCCCCCCeEEEEeeCCcEEEEEcCCCCH---hHHHHHHHHHhCCC
Q psy8579 42 HRGAKEFVFWHFTQIQFKNPNVQLQVFKNMTPTPFITTYLENGSEMLIDVDNKSK---DEIHDHVLKVLGKS 110 (168)
Q Consensus 42 s~GaR~Fv~~~LP~Lky~NP~V~i~~~k~~~~~P~l~~~~~~G~~~~Idv~nk~~---~eIl~~l~~l~g~s 110 (168)
+--+|+|+..+|-++-..||+|.++++..-- .-|..++=++.+++-+|=-+-++ ..||+++.+-.|-.
T Consensus 181 ~p~t~~~~~~~L~~wl~~hP~~dVVRFTTFF-y~Ftl~f~~~~kekfvDWfGY~asVSp~aLe~FEke~GY~ 251 (716)
T PF09508_consen 181 QPKTREYVLEWLRKWLEEHPDTDVVRFTTFF-YQFTLIFNEDAKEKFVDWFGYSASVSPYALEQFEKEYGYR 251 (716)
T ss_dssp SHHHHHHHHHHHHHHHHT-TT--EEEES--S-B--EEEEBTTSSEEEEETT--GGGB-HHHHHHHHHHHSS-
T ss_pred CHHHHHHHHHHHHHHHHHCCCCcEEEeeeee-eeeEEEeccccccccccccCcCcccCHHHHHHHHHHhCCC
Confidence 5678999999999999999999999987664 45566666788999999888775 58999998888864
No 20
>KOG3384|consensus
Probab=43.95 E-value=92 Score=24.64 Aligned_cols=48 Identities=17% Similarity=0.317 Sum_probs=37.5
Q ss_pred HhCCCCeEEEEeCCCCCCeEEEEeeCCcEE-EEEcCCCCHhHHHHHHHHHh
Q psy8579 58 FKNPNVQLQVFKNMTPTPFITTYLENGSEM-LIDVDNKSKDEIHDHVLKVL 107 (168)
Q Consensus 58 y~NP~V~i~~~k~~~~~P~l~~~~~~G~~~-~Idv~nk~~~eIl~~l~~l~ 107 (168)
.+-|+|+|..+.+. .|.+..--+||+.+ ++.+++.+.+.+.+-+.+-+
T Consensus 103 ~kFp~vkvkyVrg~--~P~l~llDadgk~kE~lsI~kWntdtl~eff~ekl 151 (154)
T KOG3384|consen 103 EKFPGVKVKYVRGS--DPVLKLLDADGKHKESLSIDKWNTDTLEEFFREKL 151 (154)
T ss_pred hhCCCceEEEecCC--CCeeEeecCCCCccceeeecccChHHHHHHHHHHh
Confidence 35788999877666 47787777889887 99999998888888877544
No 21
>COG1453 Predicted oxidoreductases of the aldo/keto reductase family [General function prediction only]
Probab=43.13 E-value=23 Score=32.21 Aligned_cols=68 Identities=15% Similarity=0.288 Sum_probs=33.6
Q ss_pred CCcEEEEEcCCCC-HhHHHHHHHHHhCCC----hHHHHHHHHHHhhhcCCCCCCC--CCCceeeeecCCCCCCCcCccCC
Q psy8579 83 NGSEMLIDVDNKS-KDEIHDHVLKVLGKS----EQVLKAEAIAREKKDNPANFGF--KCEKHCICQIPGQITCPGLVRLP 155 (168)
Q Consensus 83 ~G~~~~Idv~nk~-~~eIl~~l~~l~g~s----~~~l~~e~~~~~~~~nPa~fG~--~~~~~c~ce~~gq~pc~~~~~~p 155 (168)
+-.++++-+.|++ .+++.+.|+-..... ++.+..-+.. +..-+-+...+ .| ++|+ |||+.|+.|
T Consensus 241 shp~V~~vlsGm~~~~~l~enLk~~~~~~p~lte~e~~il~~v-~~~~~~~~~v~Ct~C-~yC~-------PCP~gInIP 311 (391)
T COG1453 241 SHPEVTTVLSGMNTPEQLEENLKIASELEPSLTEEELQILEKV-EEIYRESLKVPCTGC-RYCL-------PCPSGINIP 311 (391)
T ss_pred cCCCeEEEecCCCCHHHHHHHHHHHhhcCCccCHHHHHHHHHH-HHHHHHHhcCCCccc-cccC-------cCCCCCChH
Confidence 3445555556655 455555554443333 2221111111 22223333333 25 4664 799999999
Q ss_pred CCcc
Q psy8579 156 DSMR 159 (168)
Q Consensus 156 ~~~~ 159 (168)
+.++
T Consensus 312 ~~f~ 315 (391)
T COG1453 312 EIFR 315 (391)
T ss_pred HHHH
Confidence 8754
No 22
>smart00446 LRRcap occurring C-terminal to leucine-rich repeats. A motif occurring C-terminal to leucine-rich repeats in "sds22-like" and "typical" LRR-containing proteins.
Probab=37.64 E-value=12 Score=21.20 Aligned_cols=17 Identities=18% Similarity=0.069 Sum_probs=14.1
Q ss_pred hhHHHHHHhchHHHHHh
Q psy8579 43 RGAKEFVFWHFTQIQFK 59 (168)
Q Consensus 43 ~GaR~Fv~~~LP~Lky~ 59 (168)
.|=|+|+...||+|++-
T Consensus 2 ~~YR~~Vi~~LPqL~~L 18 (26)
T smart00446 2 AHYREKVIRLLPQLRKL 18 (26)
T ss_pred ccHHHHHHHHCCcccee
Confidence 35699999999999864
No 23
>TIGR02336 1,3-beta-galactosyl-N-acetylhexosamine phosphorylase. Members of this family are found in phylogenetically diverse bacteria, including Clostridium perfringens (in the Firmicutes), Bifidobacterium longum and Propionibacterium acnes (in the Actinobacteria), and Vibrio vulnificus (in the Proteobacteria), most of which occur as mammalian pathogens or commensals. The nominal activity, 1,3-beta-galactosyl-N-acetylhexosamine phosphorylase (EC 2.4.1.211), varies somewhat from instance to instance in relative rates for closely related substrates.
Probab=37.19 E-value=1.1e+02 Score=30.11 Aligned_cols=68 Identities=18% Similarity=0.202 Sum_probs=52.0
Q ss_pred ChhHHHHHHhchHHHHHhCCCCeEEEEeCCCCCCeEEEEeeCCcEEEEEcCCCCH---hHHHHHHHHHhCCC
Q psy8579 42 HRGAKEFVFWHFTQIQFKNPNVQLQVFKNMTPTPFITTYLENGSEMLIDVDNKSK---DEIHDHVLKVLGKS 110 (168)
Q Consensus 42 s~GaR~Fv~~~LP~Lky~NP~V~i~~~k~~~~~P~l~~~~~~G~~~~Idv~nk~~---~eIl~~l~~l~g~s 110 (168)
+--.|+|+..+|-++-..||++.++++..-- .-|..++=+..+++-+|==+-++ -.+|+++++-.|-.
T Consensus 184 ~p~t~~~~~~~l~~wl~~~p~~dVvRfTTfF-y~Ftl~f~~~~kek~vDWfgY~~sVSp~ale~Fe~e~GY~ 254 (719)
T TIGR02336 184 HPATRKHVFDTFEQWLKDSPQTDVVRFTTFF-YQFTLLFDEKRREKVVDWFGYACTVSPRALEDFEAKYGYK 254 (719)
T ss_pred ChHHHHHHHHHHHHHHHhCCCCcEEEEeeee-eeEeEEeccccccceeeccCcccccCHHHHHHHHHHhCCC
Confidence 5567999999999999999999999986553 22333333567788898877764 47888888887765
No 24
>COG1618 Predicted nucleotide kinase [Nucleotide transport and metabolism]
Probab=29.76 E-value=56 Score=26.65 Aligned_cols=37 Identities=19% Similarity=0.378 Sum_probs=25.4
Q ss_pred CCCCCeEEEEeeCCcEEE-EEcCCCCHhHHHHHHHHHhCC
Q psy8579 71 MTPTPFITTYLENGSEML-IDVDNKSKDEIHDHVLKVLGK 109 (168)
Q Consensus 71 ~~~~P~l~~~~~~G~~~~-Idv~nk~~~eIl~~l~~l~g~ 109 (168)
...||++.-+-.-|.... +|-+|++ +|+.++..+++.
T Consensus 140 rsr~P~v~~ik~~~~v~v~lt~~NR~--~i~~~Il~~L~~ 177 (179)
T COG1618 140 RSRHPLVQRIKKLGGVYVFLTPENRN--RILNEILSVLKG 177 (179)
T ss_pred ccCChHHHHhhhcCCEEEEEccchhh--HHHHHHHHHhcc
Confidence 334665554444566666 8888877 999999888764
No 25
>TIGR00032 argG argininosuccinate synthase. argG in bacteria, ARG1 in Saccharomyces cerevisiae. There is a very unusual clustering in the alignment, with a deep split between one cohort of E. coli, H. influenzae, and Streptomyces, and the other cohort of eukaryotes, archaea, and the rest of the eubacteria.
Probab=29.76 E-value=99 Score=27.94 Aligned_cols=36 Identities=17% Similarity=0.171 Sum_probs=33.5
Q ss_pred eEEEEeeCCcEEEEEcCCCCHhHHHHHHHHHhCCCh
Q psy8579 76 FITTYLENGSEMLIDVDNKSKDEIHDHVLKVLGKSE 111 (168)
Q Consensus 76 ~l~~~~~~G~~~~Idv~nk~~~eIl~~l~~l~g~s~ 111 (168)
++.+.|+.|.-+.||=+.++.-|+++.|.++.|+-+
T Consensus 214 ~v~i~F~~G~pv~ing~~~~~~~li~~lN~i~g~~G 249 (394)
T TIGR00032 214 VVTIDFEQGVPVALNGVSLDPVELILEANEIAGKHG 249 (394)
T ss_pred EEEEEEEcceEEEECCccCCHHHHHHHHHHHHHhcc
Confidence 899999999999999999999999999999988754
No 26
>PF09349 OHCU_decarbox: OHCU decarboxylase; InterPro: IPR018020 The proteins in this entry are OHCU decarboxylase, an enzyme of the purine catabolism that catalyses the conversion of OHCU into S(+)-allantoin []; it is the third step of the conversion of uric acid (a purine derivative) to allantoin. Step one is catalysed by urate oxidase (IPR002042 from INTERPRO) and step two is catalysed by hydroxyisourate hydrolase (IPR000895 from INTERPRO). ; PDB: 3O7I_B 3O7H_B 3O7J_A 3O7K_A 2Q37_A 2O70_B 2O73_C 2O74_C 2O8I_A.
Probab=29.63 E-value=1.1e+02 Score=23.93 Aligned_cols=37 Identities=19% Similarity=0.138 Sum_probs=22.9
Q ss_pred CCcEEEEEcCCCCHhHHHHHHHHHhCCChHHHHHHHH
Q psy8579 83 NGSEMLIDVDNKSKDEIHDHVLKVLGKSEQVLKAEAI 119 (168)
Q Consensus 83 ~G~~~~Idv~nk~~~eIl~~l~~l~g~s~~~l~~e~~ 119 (168)
.|-...|.+++++.++|+..|..-+.-+.+.-...++
T Consensus 110 FGf~Fvi~~~g~s~~~Il~~l~~Rl~n~~~~E~~~A~ 146 (159)
T PF09349_consen 110 FGFPFVICARGRSAAEILAALERRLNNDPEEELRIAL 146 (159)
T ss_dssp HSS-----GTT--HHHHHHHHHHHTTS-HHHHHHHHH
T ss_pred cCCceEeecCCCCHHHHHHHHHHHhcCCHHHHHHHHH
Confidence 3777899999999999999999999887765444443
No 27
>PF07473 Toxin_11: Spasmodic peptide gm9a; InterPro: IPR010012 This family consists of several spasmodic peptide gm9a sequences. Conotoxin gm9a is a putative 27-residue polypeptide encoded by Conus gloriamaris and is known to be a homologue of the 'spasmodic peptide', tx9a, isolated from the venom of the mollusk-hunting cone shell Conus textile []. Upon injection of this venom component, normal mice are converted into behavioural phenocopies of a well-known mutant, the spasmodic mouse [].; GO: 0009405 pathogenesis, 0005576 extracellular region; PDB: 1IXT_A.
Probab=29.37 E-value=30 Score=19.86 Aligned_cols=13 Identities=38% Similarity=1.007 Sum_probs=10.1
Q ss_pred CCCCceeeeecCC
Q psy8579 132 FKCEKHCICQIPG 144 (168)
Q Consensus 132 ~~~~~~c~ce~~g 144 (168)
.+|..+|+|...+
T Consensus 10 s~CashC~C~~~~ 22 (28)
T PF07473_consen 10 SKCASHCFCHPEE 22 (28)
T ss_dssp S-SSSSEEEETTE
T ss_pred ccCccceEEcccc
Confidence 5799999998765
No 28
>PRK00509 argininosuccinate synthase; Provisional
Probab=29.28 E-value=90 Score=28.36 Aligned_cols=36 Identities=19% Similarity=0.355 Sum_probs=33.0
Q ss_pred CeEEEEeeCCcEEEEEcCCCCHhHHHHHHHHHhCCC
Q psy8579 75 PFITTYLENGSEMLIDVDNKSKDEIHDHVLKVLGKS 110 (168)
Q Consensus 75 P~l~~~~~~G~~~~Idv~nk~~~eIl~~l~~l~g~s 110 (168)
-++++.|+.|.-+.||=+.++..||++.|.++.|+-
T Consensus 216 ~~v~i~F~~G~pvalnG~~~~~~~li~~lN~i~g~~ 251 (399)
T PRK00509 216 EYVEIEFEKGVPVAINGEALSPAELIEELNELAGKH 251 (399)
T ss_pred eEEEEEEEccEEEEEcCeeCCHHHHHHHHHHHHhhc
Confidence 389999999999999999999999999999998864
No 29
>KOG3404|consensus
Probab=29.21 E-value=34 Score=26.66 Aligned_cols=16 Identities=44% Similarity=1.117 Sum_probs=12.8
Q ss_pred cCCCCCCCCCCceeeeecCC
Q psy8579 125 DNPANFGFKCEKHCICQIPG 144 (168)
Q Consensus 125 ~nPa~fG~~~~~~c~ce~~g 144 (168)
.+-+|||. -|||.||-
T Consensus 108 ~~dsn~Gt----~CICRVPk 123 (145)
T KOG3404|consen 108 TRDSNFGT----TCICRVPK 123 (145)
T ss_pred ccccCCCc----eEEEeCCh
Confidence 56788985 78999985
No 30
>PF00085 Thioredoxin: Thioredoxin; InterPro: IPR013766 Thioredoxins [, , , ] are small disulphide-containing redox proteins that have been found in all the kingdoms of living organisms. Thioredoxin serves as a general protein disulphide oxidoreductase. It interacts with a broad range of proteins by a redox mechanism based on reversible oxidation of two cysteine thiol groups to a disulphide, accompanied by the transfer of two electrons and two protons. The net result is the covalent interconversion of a disulphide and a dithiol. In the NADPH-dependent protein disulphide reduction, thioredoxin reductase (TR) catalyses the reduction of oxidised thioredoxin (trx) by NADPH using FAD and its redox-active disulphide; reduced thioredoxin then directly reduces the disulphide in the substrate protein []. Thioredoxin is present in prokaryotes and eukaryotes and the sequence around the redox-active disulphide bond is well conserved. All thioredoxins contain a cis-proline located in a loop preceding beta-strand 4, which makes contact with the active site cysteines, and is important for stability and function []. Thioredoxin belongs to a structural family that includes glutaredoxin, glutathione peroxidase, bacterial protein disulphide isomerase DsbA, and the N-terminal domain of glutathione transferase []. Thioredoxins have a beta-alpha unit preceding the motif common to all these proteins. A number of eukaryotic proteins contain domains evolutionary related to thioredoxin, most of them are protein disulphide isomerases (PDI). PDI (5.3.4.1 from EC) [, , ] is an endoplasmic reticulum multi-functional enzyme that catalyses the formation and rearrangement of disulphide bonds during protein folding []. All PDI contains two or three (ERp72) copies of the thioredoxin domain, each of which contributes to disulphide isomerase activity, but which are functionally non-equivalent []. Moreover, PDI exhibits chaperone-like activity towards proteins that contain no disulphide bonds, i.e. behaving independently of its disulphide isomerase activity []. The various forms of PDI which are currently known are: PDI major isozyme; a multifunctional protein that also function as the beta subunit of prolyl 4-hydroxylase (1.14.11.2 from EC), as a component of oligosaccharyl transferase (2.4.1.119 from EC), as thyroxine deiodinase (3.8.1.4 from EC), as glutathione-insulin transhydrogenase (1.8.4.2 from EC) and as a thyroid hormone-binding protein ERp60 (ER-60; 58 Kd microsomal protein). ERp60 was originally thought to be a phosphoinositide-specific phospholipase C isozyme and later to be a protease. ERp72. ERp5. Bacterial proteins that act as thiol:disulphide interchange proteins that allows disulphide bond formation in some periplasmic proteins also contain a thioredoxin domain. These proteins include: Escherichia coli DsbA (or PrfA) and its orthologs in Vibrio cholerae (TtcpG) and Haemophilus influenzae (Por). E. coli DsbC (or XpRA) and its orthologues in Erwinia chrysanthemi and H. influenzae. E. coli DsbD (or DipZ) and its H. influenzae orthologue. E. coli DsbE (or CcmG) and orthologues in H. influenzae. Rhodobacter capsulatus (Rhodopseudomonas capsulata) (HelX), Rhiziobiacae (CycY and TlpA). This entry represents the thioredoxin domain.; GO: 0045454 cell redox homeostasis; PDB: 3ED3_B 1EP7_A 1EP8_B 1TOF_A 2OE3_B 2OE1_B 2OE0_B 1V98_A 3H79_A 3CXG_A ....
Probab=29.21 E-value=1.1e+02 Score=20.27 Aligned_cols=71 Identities=14% Similarity=0.235 Sum_probs=41.3
Q ss_pred eEEEEEecCCCCCChhHHHHHHhchHHHHHhCC-CCeEEEEeCCC-----------CCCeEEEEeeCCcEEEEEcCC-CC
Q psy8579 29 KIFAINYNFNAENHRGAKEFVFWHFTQIQFKNP-NVQLQVFKNMT-----------PTPFITTYLENGSEMLIDVDN-KS 95 (168)
Q Consensus 29 k~l~l~y~~~~~~s~GaR~Fv~~~LP~Lky~NP-~V~i~~~k~~~-----------~~P~l~~~~~~G~~~~Idv~n-k~ 95 (168)
..|-..|..|.+.....+. .|-+++...+ +|.|....... .-|.+. +|.+|+... ...+ .+
T Consensus 19 ~vvv~f~~~~C~~C~~~~~----~~~~~~~~~~~~v~~~~vd~~~~~~l~~~~~v~~~Pt~~-~~~~g~~~~-~~~g~~~ 92 (103)
T PF00085_consen 19 PVVVYFYAPWCPPCKAFKP----ILEKLAKEYKDNVKFAKVDCDENKELCKKYGVKSVPTII-FFKNGKEVK-RYNGPRN 92 (103)
T ss_dssp EEEEEEESTTSHHHHHHHH----HHHHHHHHTTTTSEEEEEETTTSHHHHHHTTCSSSSEEE-EEETTEEEE-EEESSSS
T ss_pred CEEEEEeCCCCCccccccc----eecccccccccccccchhhhhccchhhhccCCCCCCEEE-EEECCcEEE-EEECCCC
Confidence 3455556665544444443 3444454444 88886664332 245555 456888775 4444 58
Q ss_pred HhHHHHHHHH
Q psy8579 96 KDEIHDHVLK 105 (168)
Q Consensus 96 ~~eIl~~l~~ 105 (168)
.++|.+.|.+
T Consensus 93 ~~~l~~~i~~ 102 (103)
T PF00085_consen 93 AESLIEFIEK 102 (103)
T ss_dssp HHHHHHHHHH
T ss_pred HHHHHHHHHc
Confidence 9999888764
No 31
>PF06200 tify: tify domain; InterPro: IPR010399 The tify domain is a 36-amino acid domain only found among Embryophyta (land plants). It has been named after the most conserved amino acid pattern (TIF[F/Y]XG) it contains, but was previously known as the Zim domain. As the use of uppercase characters (TIFY) might imply that the domain is fully conserved across proteins, a lowercase lettering has been chosen in an attempt to highlight the reality of its natural variability. Based on the domain architecture, tify domain containing proteins can be classified into two groups. Group I is formed by proteins possessing a CCT (CONSTANS, CO-like, and TOC1) domain and a GATA-type zinc finger in addition to the tify domain. Group II contains proteins characterised by the tify domain but lacking a GATA-type zinc finger. Tify domain containing proteins might be involved in developmental processes and some of them have features that are characteristic for transcription factors: a nuclear localisation and the presence of a putative DNA-binding domain []. Some proteins known to contain a tify domain include: Arabidopsis thaliana Zinc-finger protein expressed in Inflorescence Meristem (ZIM), a putative transcription factor involved in inflorescence and flower development [, ]. A. thaliana ZIM-like proteins (ZML) []. A. thaliana PEAPOD1 and PEAPOD2 (PPD1 and PPD2) [].
Probab=29.07 E-value=72 Score=19.27 Aligned_cols=27 Identities=26% Similarity=0.336 Sum_probs=18.7
Q ss_pred CCeEEEEeeCCcEEEEE-cCCCCHhHHHH
Q psy8579 74 TPFITTYLENGSEMLID-VDNKSKDEIHD 101 (168)
Q Consensus 74 ~P~l~~~~~~G~~~~Id-v~nk~~~eIl~ 101 (168)
...|+++| +|+....| +---..++|+.
T Consensus 5 ~~qLTIfY-~G~V~Vfd~v~~~Ka~~im~ 32 (36)
T PF06200_consen 5 TAQLTIFY-GGQVCVFDDVPPDKAQEIML 32 (36)
T ss_pred CCcEEEEE-CCEEEEeCCCCHHHHHHHHH
Confidence 45789999 88888876 55555555553
No 32
>cd00367 PTS-HPr_like Histidine-containing phosphocarrier protein (HPr)-like proteins. HPr is a central component of the bacterial phosphoenolpyruvate sugar phosphotransferase system (PTS). The PTS catalyses the phosphorylation of sugar substrates during their translocation across the cell membrane. The phosphoryl group from phosphoenolpyruvate is transferred to HPr by enzyme I (EI). Phospho-HPr then transfers the phosphoryl group to one of several sugar-specific phosphoprotein intermediates. The conserved histidine in the N-terminus of HPr serves as an acceptor for the phosphoryl group of EI. In addition to the phosphotransferase proteins HPr and E1, this family also includes the closely related Carbon Catabolite Repressor (CCR) proteins which use the same phosphorylation mechanism and interact with transcriptional regulators to control expression of genes coding for utilization of less favored carbon sources.
Probab=28.15 E-value=76 Score=21.35 Aligned_cols=31 Identities=13% Similarity=0.348 Sum_probs=25.5
Q ss_pred EEEEeeCCcEEEEEcCCCCHhHHHHHHHHHh
Q psy8579 77 ITTYLENGSEMLIDVDNKSKDEIHDHVLKVL 107 (168)
Q Consensus 77 l~~~~~~G~~~~Idv~nk~~~eIl~~l~~l~ 107 (168)
+..-...|.+.+|.+++-+.++.++.|.+++
T Consensus 47 ~~L~~~~G~~i~i~~~G~de~~al~~l~~~~ 77 (77)
T cd00367 47 MSLGAKQGDEITLSAEGEDAEEALEALAELL 77 (77)
T ss_pred HHcCCCCCCEEEEEEECcCHHHHHHHHHHhC
Confidence 3344567999999999999999999998753
No 33
>PRK13820 argininosuccinate synthase; Provisional
Probab=28.10 E-value=1e+02 Score=27.99 Aligned_cols=36 Identities=17% Similarity=0.274 Sum_probs=33.0
Q ss_pred eEEEEeeCCcEEEEEcCCCCHhHHHHHHHHHhCCCh
Q psy8579 76 FITTYLENGSEMLIDVDNKSKDEIHDHVLKVLGKSE 111 (168)
Q Consensus 76 ~l~~~~~~G~~~~Idv~nk~~~eIl~~l~~l~g~s~ 111 (168)
++++.|+.|.-+.||=+.++.-|+++.|.++.|+-+
T Consensus 214 ~v~i~F~~G~pv~lng~~~~~~~li~~lN~i~g~~G 249 (394)
T PRK13820 214 IVEIEFEEGVPVAINGEKMDGVELIRKLNEIAGKHG 249 (394)
T ss_pred EEEEEEEccEEEEECCeeCCHHHHHHHHHHHHhhcc
Confidence 899999999999999999999999999999988643
No 34
>PRK13780 phosphocarrier protein HPr; Provisional
Probab=27.64 E-value=93 Score=21.97 Aligned_cols=34 Identities=9% Similarity=0.239 Sum_probs=28.3
Q ss_pred eEEEEeeCCcEEEEEcCCCCHhHHHHHHHHHhCC
Q psy8579 76 FITTYLENGSEMLIDVDNKSKDEIHDHVLKVLGK 109 (168)
Q Consensus 76 ~l~~~~~~G~~~~Idv~nk~~~eIl~~l~~l~g~ 109 (168)
.+..-...|.+.+|.++|-+.++.++.|.+++..
T Consensus 50 lm~Lg~~~G~~v~i~a~G~De~~Al~~l~~~l~~ 83 (88)
T PRK13780 50 VMSLGVGQGADITISAEGADAADAIAAIEETMKK 83 (88)
T ss_pred HHhcCCCCCCEEEEEEeCcCHHHHHHHHHHHHHh
Confidence 3344456899999999999999999999998854
No 35
>PLN00200 argininosuccinate synthase; Provisional
Probab=27.41 E-value=1.1e+02 Score=27.94 Aligned_cols=36 Identities=19% Similarity=0.266 Sum_probs=33.1
Q ss_pred eEEEEeeCCcEEEEEcCCCCHhHHHHHHHHHhCCCh
Q psy8579 76 FITTYLENGSEMLIDVDNKSKDEIHDHVLKVLGKSE 111 (168)
Q Consensus 76 ~l~~~~~~G~~~~Idv~nk~~~eIl~~l~~l~g~s~ 111 (168)
++++.|+.|.-+.||=+.++.-|+++.|.++.|+-+
T Consensus 221 ~v~i~Fe~G~pv~lnG~~~~~~~li~~lN~i~g~~G 256 (404)
T PLN00200 221 YIEIEFEKGLPVAINGKTLSPATLLTKLNEIGGKHG 256 (404)
T ss_pred EEEEEEEccEEEEECCeeCCHHHHHHHHHHHHhhcc
Confidence 899999999999999999999999999999988643
No 36
>PRK13782 phosphocarrier protein Chr; Provisional
Probab=27.37 E-value=97 Score=21.34 Aligned_cols=33 Identities=12% Similarity=0.239 Sum_probs=26.8
Q ss_pred eEEEEeeCCcEEEEEcCCCCHhHHHHHHHHHhC
Q psy8579 76 FITTYLENGSEMLIDVDNKSKDEIHDHVLKVLG 108 (168)
Q Consensus 76 ~l~~~~~~G~~~~Idv~nk~~~eIl~~l~~l~g 108 (168)
.+..-...|.+.+|.++|-+.++.++.|.++++
T Consensus 50 llsLg~~~g~~v~v~~~G~de~~a~~~l~~~~~ 82 (82)
T PRK13782 50 LMSLAIGTGSMITIITEGSDEEEALEALAAYVQ 82 (82)
T ss_pred HHhcCCCCCCEEEEEEeCcCHHHHHHHHHHHhC
Confidence 334445679999999999999999999988753
No 37
>PRK13797 putative bifunctional allantoicase/OHCU decarboxylase; Provisional
Probab=27.27 E-value=1.6e+02 Score=27.73 Aligned_cols=39 Identities=13% Similarity=0.130 Sum_probs=32.8
Q ss_pred CCcEEEEEcCCCCHhHHHHHHHHHhCCChHHHHHHHHHH
Q psy8579 83 NGSEMLIDVDNKSKDEIHDHVLKVLGKSEQVLKAEAIAR 121 (168)
Q Consensus 83 ~G~~~~Idv~nk~~~eIl~~l~~l~g~s~~~l~~e~~~~ 121 (168)
.|-.-.|++++++.++|++.|..-+..+.++-..+++.+
T Consensus 462 FGFpFIIca~G~s~~eILa~l~~RL~N~~e~E~~~Al~E 500 (516)
T PRK13797 462 FGFIFLVRAAGRGAEEMLELLRARLAHDPEQELRIAAGQ 500 (516)
T ss_pred CCCeEEEEECCCCHHHHHHHHHHHhcCCHHHHHHHHHHH
Confidence 588889999999999999999999999887766655443
No 38
>PF10387 DUF2442: Protein of unknown function (DUF2442); InterPro: IPR018841 Several proteins in this entry are annotated as being putative molybdopterin-guanine dinucleotide biosynthesis proteins, but this has not been confirmed. The function of these proteins is therefore not known. ; PDB: 2AUW_B 2X8N_A 3K8R_B.
Probab=26.70 E-value=87 Score=21.13 Aligned_cols=19 Identities=11% Similarity=0.260 Sum_probs=16.5
Q ss_pred eEEEEeeCCcEEEEEcCCC
Q psy8579 76 FITTYLENGSEMLIDVDNK 94 (168)
Q Consensus 76 ~l~~~~~~G~~~~Idv~nk 94 (168)
.+.+.|+||++..+|++..
T Consensus 11 ~L~v~f~dG~~~~~dl~~~ 29 (79)
T PF10387_consen 11 RLRVTFSDGETRIFDLSPL 29 (79)
T ss_dssp EEEEEETTS-EEEEECCCS
T ss_pred EEEEEEcCCCEEEEEhHHh
Confidence 7888999999999999976
No 39
>cd00196 UBQ Ubiquitin-like proteins. Ubiquitin homologs; Includes ubiquitin and ubiquitin-like proteins. Ubiquitin-mediated proteolysis is part of the regulated turnover of proteins required for controlling cell cycle progression. Other family members are protein modifiers that perform a wide range of functions. Ubiquitination usually results in a covalent bond between the C-terminus of ubiquitin and the epsilon-amino group of a substrate lysine. The three-step mechanism requires an activating enzyme (E1) that forms a thiol ester with the C-terminal carboxy group, a conjugating enzyme (E2) that transiently carries the activated ubiquitin molecule as a thiol ester, and a ligase (E3) that transfers the activated ubiquitin from the E2 to the substrate lysine residue. In poly-ubiquitination, ubiquitin itself is the substrate.
Probab=26.46 E-value=1.3e+02 Score=16.91 Aligned_cols=30 Identities=20% Similarity=0.356 Sum_probs=23.4
Q ss_pred EeeCCcEEEEEcC-CCCHhHHHHHHHHHhCC
Q psy8579 80 YLENGSEMLIDVD-NKSKDEIHDHVLKVLGK 109 (168)
Q Consensus 80 ~~~~G~~~~Idv~-nk~~~eIl~~l~~l~g~ 109 (168)
++.+|....+.+. +.+..++++.+.+..|.
T Consensus 3 ~~~~~~~~~~~~~~~~tv~~l~~~i~~~~~~ 33 (69)
T cd00196 3 KLNDGKTVELLVPSGTTVADLKEKLAKKLGL 33 (69)
T ss_pred EecCCCEEEEEcCCCCcHHHHHHHHHHHHCc
Confidence 4447888877776 78899999999888773
No 40
>cd01999 Argininosuccinate_Synthase Argininosuccinate synthase. The Argininosuccinate synthase is a urea cycle enzyme that catalyzes the penultimate step in arginine biosynthesis: the ATP-dependent ligation of citrulline to aspartate to form argininosuccinate, AMP and pyrophosphate . In humans, a defect in the AS gene causes citrullinemia, a genetic disease characterized by severe vomiting spells and mental retardation. AS is a homotetrameric enzyme of chains of about 400 amino-acid residues. An arginine seems to be important for the enzyme's catalytic mechanism. The sequences of AS from various prokaryotes, archaebacteria and eukaryotes show significant similarity
Probab=26.14 E-value=1.2e+02 Score=27.33 Aligned_cols=36 Identities=14% Similarity=0.262 Sum_probs=33.4
Q ss_pred eEEEEeeCCcEEEEEcCCCCHhHHHHHHHHHhCCCh
Q psy8579 76 FITTYLENGSEMLIDVDNKSKDEIHDHVLKVLGKSE 111 (168)
Q Consensus 76 ~l~~~~~~G~~~~Idv~nk~~~eIl~~l~~l~g~s~ 111 (168)
++.+.|+.|.-+.||=+.++.-|+++.|.++.|+-+
T Consensus 214 ~v~i~F~~G~pv~lng~~~~~~~li~~lN~i~g~~G 249 (385)
T cd01999 214 YVEIEFEKGVPVALNGEKLDPVELILELNEIAGKHG 249 (385)
T ss_pred EEEEEEEccEEEEEcCeeCCHHHHHHHHHHHHHhcC
Confidence 899999999999999999999999999999988754
No 41
>smart00051 DSL delta serrate ligand.
Probab=25.97 E-value=44 Score=22.34 Aligned_cols=24 Identities=29% Similarity=0.657 Sum_probs=17.8
Q ss_pred CCCCCCCCCCceeeee--cCCCCCCC
Q psy8579 126 NPANFGFKCEKHCICQ--IPGQITCP 149 (168)
Q Consensus 126 nPa~fG~~~~~~c~ce--~~gq~pc~ 149 (168)
.+--||..|.+.|.|+ ..|..-|.
T Consensus 22 ~~~~yG~~C~~~C~~~~d~~~~~~Cd 47 (63)
T smart00051 22 DENYYGEGCNKFCRPRDDFFGHYTCD 47 (63)
T ss_pred CCCCcCCccCCEeCcCccccCCccCC
Confidence 3556899999999975 45666664
No 42
>COG1031 Uncharacterized Fe-S oxidoreductase [Energy production and conversion]
Probab=25.37 E-value=38 Score=31.85 Aligned_cols=19 Identities=32% Similarity=0.557 Sum_probs=16.0
Q ss_pred CCceeeeecCCCCCCCcCc
Q psy8579 134 CEKHCICQIPGQITCPGLV 152 (168)
Q Consensus 134 ~~~~c~ce~~gq~pc~~~~ 152 (168)
..++|||||+.+-.||--+
T Consensus 179 yp~~vi~EiETyRGC~r~~ 197 (560)
T COG1031 179 YPEYVICEIETYRGCPRRV 197 (560)
T ss_pred CcceEEEEEeeccCCcccc
Confidence 3479999999999998654
No 43
>PF13692 Glyco_trans_1_4: Glycosyl transferases group 1; PDB: 3OY2_A 3OY7_B 2Q6V_A 2HY7_A 3CV3_A 3CUY_A.
Probab=24.76 E-value=1.4e+02 Score=20.95 Aligned_cols=40 Identities=20% Similarity=0.373 Sum_probs=27.7
Q ss_pred EEEEecCCCCCChhHHHHHHhchHHHHHhCCCCeEEEEeC
Q psy8579 31 FAINYNFNAENHRGAKEFVFWHFTQIQFKNPNVQLQVFKN 70 (168)
Q Consensus 31 l~l~y~~~~~~s~GaR~Fv~~~LP~Lky~NP~V~i~~~k~ 70 (168)
+.+.|.......+|...|+..-+.+++.+.|++.+.+.-.
T Consensus 3 ~~i~~~g~~~~~k~~~~li~~~~~~l~~~~p~~~l~i~G~ 42 (135)
T PF13692_consen 3 LYIGYLGRIRPDKGLEELIEAALERLKEKHPDIELIIIGN 42 (135)
T ss_dssp EEEE--S-SSGGGTHHHHHH-HHHHHHHHSTTEEEEEECE
T ss_pred ccccccccccccccccchhhhHHHHHHHHCcCEEEEEEeC
Confidence 3444543334468999999989999999999999977644
No 44
>PRK11509 hydrogenase-1 operon protein HyaE; Provisional
Probab=24.61 E-value=2.2e+02 Score=21.92 Aligned_cols=60 Identities=8% Similarity=0.027 Sum_probs=40.9
Q ss_pred chHHHHHhCCC--CeEEEEeCCC-----------CCCeEEEEeeCCcEEEEEcCCCCHhHHHHHHHHHhCCChH
Q psy8579 52 HFTQIQFKNPN--VQLQVFKNMT-----------PTPFITTYLENGSEMLIDVDNKSKDEIHDHVLKVLGKSEQ 112 (168)
Q Consensus 52 ~LP~Lky~NP~--V~i~~~k~~~-----------~~P~l~~~~~~G~~~~Idv~nk~~~eIl~~l~~l~g~s~~ 112 (168)
-|++|....++ +.|....... .-|.+ +.|.||+....=..-.+.+++.+.|.++++....
T Consensus 57 vleELa~e~~~~~v~~akVDiD~~~~LA~~fgV~siPTL-l~FkdGk~v~~i~G~~~k~~l~~~I~~~L~~~~~ 129 (132)
T PRK11509 57 MIGELLREFPDYTWQVAIADLEQSEAIGDRFGVFRFPAT-LVFTGGNYRGVLNGIHPWAELINLMRGLVEPQQE 129 (132)
T ss_pred HHHHHHHHhcCCceEEEEEECCCCHHHHHHcCCccCCEE-EEEECCEEEEEEeCcCCHHHHHHHHHHHhcCcCc
Confidence 58899988884 5564432211 12433 3467999986666667889999999999887643
No 45
>KOG3354|consensus
Probab=24.50 E-value=1e+02 Score=25.24 Aligned_cols=24 Identities=29% Similarity=0.419 Sum_probs=20.7
Q ss_pred cEEEEEcCCCCHhHHHHHHHHHhC
Q psy8579 85 SEMLIDVDNKSKDEIHDHVLKVLG 108 (168)
Q Consensus 85 ~~~~Idv~nk~~~eIl~~l~~l~g 108 (168)
..++||+++.+.++|++.+.+.+.
T Consensus 164 div~isv~~~~~e~iv~tI~k~~~ 187 (191)
T KOG3354|consen 164 DIVTISVKTYSVEEIVDTIVKMVA 187 (191)
T ss_pred ceEEEeeccCCHHHHHHHHHHHHH
Confidence 356999999999999999988753
No 46
>TIGR01003 PTS_HPr_family Phosphotransferase System HPr (HPr) Family. The HPr family are bacterial proteins (or domains of proteins) which function in phosphoryl transfer system (PTS) systems. They include energy-coupling components which catalyze sugar uptake via a group translocation mechanism. The functions of most of these proteins are not known, but they presumably function in PTS-related regulatory capacities. All seed members are stand-alone HPr proteins, although the model also recognizes HPr domains of PTS fusion proteins. This family includes the related NPr protein.
Probab=24.41 E-value=1.1e+02 Score=21.12 Aligned_cols=31 Identities=16% Similarity=0.314 Sum_probs=26.1
Q ss_pred EEEEeeCCcEEEEEcCCCCHhHHHHHHHHHh
Q psy8579 77 ITTYLENGSEMLIDVDNKSKDEIHDHVLKVL 107 (168)
Q Consensus 77 l~~~~~~G~~~~Idv~nk~~~eIl~~l~~l~ 107 (168)
+..-...|.+.+|.++|-+.++.++.|.+++
T Consensus 51 l~Lg~~~G~~i~i~~~G~de~~a~~~l~~~~ 81 (82)
T TIGR01003 51 MMLGAGQGTEVTVSADGEDEAEALEALAKLF 81 (82)
T ss_pred HhcCCCCCCEEEEEEeCcCHHHHHHHHHHHh
Confidence 3344568999999999999999999998875
No 47
>TIGR01130 ER_PDI_fam protein disulfide isomerases, eukaryotic. Members of this family have at least two protein-disulfide domains, each similar to thioredoxin but with the redox-active disulfide in the motif PWCGHCK, and an ER retention signal at the extreme C-terminus (KDEL, HDEL, and similar motifs).
Probab=23.93 E-value=4.1e+02 Score=23.02 Aligned_cols=83 Identities=13% Similarity=0.112 Sum_probs=52.6
Q ss_pred EEEEecCCCCCChhHHHHHHhchHHHHHhCCCCeEEEEeCCC-----------CCCeEEEEeeCCcE-EEEEcCCCCHhH
Q psy8579 31 FAINYNFNAENHRGAKEFVFWHFTQIQFKNPNVQLQVFKNMT-----------PTPFITTYLENGSE-MLIDVDNKSKDE 98 (168)
Q Consensus 31 l~l~y~~~~~~s~GaR~Fv~~~LP~Lky~NP~V~i~~~k~~~-----------~~P~l~~~~~~G~~-~~Idv~nk~~~e 98 (168)
+-..|+.|.+.+.....-|..-...++..++.|.|....+.. .-|.+.++ .+|.. ...=....+.++
T Consensus 22 ~v~f~a~wC~~c~~~~~~~~~~a~~~~~~~~~v~~~~vd~~~~~~l~~~~~i~~~Pt~~~~-~~g~~~~~~~~g~~~~~~ 100 (462)
T TIGR01130 22 LVEFYAPWCGHCKSLAPEYEKAADELKKKGPPIKLAKVDATEEKDLAQKYGVSGYPTLKIF-RNGEDSVSDYNGPRDADG 100 (462)
T ss_pred EEEEECCCCHHHHhhhHHHHHHHHHHhhcCCceEEEEEECCCcHHHHHhCCCccccEEEEE-eCCccceeEecCCCCHHH
Confidence 555677777766666555555555677788999996654322 13555544 57765 322234578889
Q ss_pred HHHHHHHHhCCChHHH
Q psy8579 99 IHDHVLKVLGKSEQVL 114 (168)
Q Consensus 99 Il~~l~~l~g~s~~~l 114 (168)
|.+.+.+.++.....+
T Consensus 101 l~~~i~~~~~~~~~~i 116 (462)
T TIGR01130 101 IVKYMKKQSGPAVKEI 116 (462)
T ss_pred HHHHHHHhcCCCceee
Confidence 9999998887654433
No 48
>cd01777 SNX27_RA Ubiquitin domain of SNX27 (sorting nexin protein 27). SNX27_RA SNX27 (sorting nexin protein 27) belongs to a large family of endosome-localized proteins related to sorting nexin1 which is implicated in regulating membrane traffic. The domain architecture of SNX27 includes an amino-terminal PDZ domain, a PX (PhoX homologous) domain, and a carboxy-terminal RA (RAS-associated) domain.
Probab=23.77 E-value=2.6e+02 Score=20.22 Aligned_cols=38 Identities=13% Similarity=0.218 Sum_probs=31.4
Q ss_pred eEEEEeeCCcEEEEEcC-CCCHhHHHHHHHHHhCCChHH
Q psy8579 76 FITTYLENGSEMLIDVD-NKSKDEIHDHVLKVLGKSEQV 113 (168)
Q Consensus 76 ~l~~~~~~G~~~~Idv~-nk~~~eIl~~l~~l~g~s~~~ 113 (168)
.+++++-||...+|+++ +-+.+++++.+...+|-+.+.
T Consensus 3 ~L~V~Lpdg~~i~V~v~~s~~a~~Vleav~~kl~L~~e~ 41 (87)
T cd01777 3 ELRIALPDKATVTVRVRKNATTDQVYQALVAKAGMDSYT 41 (87)
T ss_pred EEEEEccCCCEEEEEEEEcccHHHHHHHHHHHhCCCHHH
Confidence 46788889999988885 567788999999999988764
No 49
>PF14730 DUF4468: Domain of unknown function (DUF4468) with TBP-like fold
Probab=22.74 E-value=1.1e+02 Score=21.43 Aligned_cols=24 Identities=38% Similarity=0.455 Sum_probs=19.5
Q ss_pred EEEEEcCCCCHhHHHHHHHHHhCC
Q psy8579 86 EMLIDVDNKSKDEIHDHVLKVLGK 109 (168)
Q Consensus 86 ~~~Idv~nk~~~eIl~~l~~l~g~ 109 (168)
+..|++.|++.+||.+.+.+-+..
T Consensus 2 ~~~i~vpg~sk~~ly~~~~~W~~~ 25 (91)
T PF14730_consen 2 TKVIEVPGMSKDQLYDRAKKWLAK 25 (91)
T ss_pred cEEEEcCCCCHHHHHHHHHHHHHH
Confidence 358999999999999998765543
No 50
>PF04690 YABBY: YABBY protein; InterPro: IPR006780 YABBY proteins are a group of plant-specific transcription factors involved in the specification of abaxial polarity in lateral organs such as leaves and floral organs [, ].
Probab=22.57 E-value=54 Score=26.49 Aligned_cols=18 Identities=22% Similarity=0.475 Sum_probs=16.4
Q ss_pred HHHHhchHHHHHhCCCCe
Q psy8579 47 EFVFWHFTQIQFKNPNVQ 64 (168)
Q Consensus 47 ~Fv~~~LP~Lky~NP~V~ 64 (168)
.|+++.+++||..||++.
T Consensus 131 ~f~k~ei~rik~~~p~is 148 (170)
T PF04690_consen 131 RFMKEEIQRIKAENPDIS 148 (170)
T ss_pred HHHHHHHHHHHhcCCCCC
Confidence 599999999999999874
No 51
>PF00280 potato_inhibit: Potato inhibitor I family; InterPro: IPR000864 Peptide proteinase inhibitors can be found as single domain proteins or as single or multiple domains within proteins; these are referred to as either simple or compound inhibitors, respectively. In many cases they are synthesised as part of a larger precursor protein, either as a prepropeptide or as an N-terminal domain associated with an inactive peptidase or zymogen. This domain prevents access of the substrate to the active site. Removal of the N-terminal inhibitor domain either by interaction with a second peptidase or by autocatalytic cleavage activates the zymogen. Other inhibitors interact direct with proteinases using a simple noncovalent lock and key mechanism; while yet others use a conformational change-based trapping mechanism that depends on their structural and thermodynamic properties. This family of proteinase inhibitors belong to MEROPS inhibitor family I13, clan IG. They inhibit peptidases of the S1 (IPR001254 from INTERPRO) and S8 (IPR000209 from INTERPRO) families []. Potato inhibitor type I sequences are not solely restricted to potatoes but are found in other plant species for example: barley endosperm chymotrypsin inhibitor [], and pumpkin trypsin inhibitor. Exceptions are found in leech's, e.g.Hirudo medicinalis (Medicinal leech), but not other metazoa []. In general, the proteins have retained a specificity towards chymotrypsin-like and elastase-like proteases []. Structurally these inhibitors are small (60 to 90 residues) and in contrast with other families of protease inhibitors, they lack disulphide bonds. The inhibitor is a wedge-shaped molecule, its pointed edge formed by the protease-binding loop, which contains the scissile bond. The loop binds tightly to the protease active site, subsequent cleavage of the scissile bond causing inhibition of the enzyme []. The inhibitors (designated type I and II) are synthesised in potato tubers, increasing in concentration as the tuber develops. Synthesis of the inhibitors throughout the plant is also induced by leaf damage; this systemic response being triggered by the release of a putative plant hormone []. Examples found in the bacteria and archaea are probable false positives.; GO: 0004867 serine-type endopeptidase inhibitor activity, 0009611 response to wounding; PDB: 1TEC_I 1SBN_I 1ACB_I 1EGP_A 3TEC_I 2SEC_I 1EGL_A 2TEC_I 1SIB_I 1MEE_I ....
Probab=21.64 E-value=1.6e+02 Score=19.71 Aligned_cols=20 Identities=30% Similarity=0.517 Sum_probs=16.0
Q ss_pred HHHHHhCCCCeEEEEeCCCC
Q psy8579 54 TQIQFKNPNVQLQVFKNMTP 73 (168)
Q Consensus 54 P~Lky~NP~V~i~~~k~~~~ 73 (168)
..|+..||+|.+.+....+.
T Consensus 17 ~~I~~e~P~v~v~vlp~gs~ 36 (63)
T PF00280_consen 17 AIIERENPDVTVVVLPEGSP 36 (63)
T ss_dssp HHHHHHSTTSEEEEEETTSE
T ss_pred HHHHHHCCCCeEEEEeCCCC
Confidence 46889999999998766553
No 52
>COG3195 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=21.40 E-value=2.3e+02 Score=23.05 Aligned_cols=39 Identities=26% Similarity=0.274 Sum_probs=31.8
Q ss_pred CCcEEEEEcCCCCHhHHHHHHHHHhCCChHHHHHHHHHH
Q psy8579 83 NGSEMLIDVDNKSKDEIHDHVLKVLGKSEQVLKAEAIAR 121 (168)
Q Consensus 83 ~G~~~~Idv~nk~~~eIl~~l~~l~g~s~~~l~~e~~~~ 121 (168)
.|=-..|.|++++.++|++.+..-++-+.++-...++.+
T Consensus 120 FgfPfI~aVkg~~k~~Il~a~~~Rl~n~~e~E~~tAl~e 158 (176)
T COG3195 120 FGFPFIIAVKGNTKDTILAAFERRLDNDREQEFATALAE 158 (176)
T ss_pred cCCceEEeecCCCHHHHHHHHHHHhcccHHHHHHHHHHH
Confidence 466678999999999999999999999888766555443
No 53
>PF00381 PTS-HPr: PTS HPr component phosphorylation site; InterPro: IPR005698 The histidine-containing phosphocarrier protein (HPr) is a central component of the phosphoenolpyruvate-dependent sugar phosphotransferase system (PTS), which transfers metabolic carbohydrates across the cell membrane in many bacterial species [, ]. PTS catalyses the phosphorylation of incoming sugar substrates concomitant with their translocation across the cell membrane. The general mechanism of the PTS is as follows: a phosphoryl group from phosphoenolpyruvate (PEP) is transferred to Enzyme I (EI) of the PTS, which in turn transfers it to the phosphoryl carrier protein (HPr) [, ]. Phospho-HPr then transfers the phosphoryl group to a sugar-specific permease complex (enzymes EII/EIII). HPr [, ] is a small cytoplasmic protein of 70 to 90 amino acid residues. In some bacteria, HPr is a domain in a larger protein that includes a EIII(Fru) (IIA) domain and in some cases also the EI domain. A conserved histidine in the N-terminal section of HPr serves as an acceptor for the phosphoryl group of EI. In the central part of HPr, there is a conserved serine which (in Gram-positive bacteria only) is phosphorylated by an ATP-dependent protein kinase; a process which probably play a regulatory role in sugar transport. The overall architecture of the HPr domain has been described as an open faced beta-sandwich in which a beta-sheet is packed against three alpha-helices. Regulatory phosphorylation at the conserved Ser residue does not appear to induce large structural changes to the HPr domain, in particular in the region of the active site [, ].; GO: 0005351 sugar:hydrogen symporter activity, 0009401 phosphoenolpyruvate-dependent sugar phosphotransferase system; PDB: 1TXE_A 1QR5_A 1RZR_S 2NZU_L 2OEN_L 2NZV_L 1Y51_B 1Y4Y_A 1Y50_A 2HPR_A ....
Probab=21.26 E-value=1.2e+02 Score=20.62 Aligned_cols=28 Identities=18% Similarity=0.429 Sum_probs=24.6
Q ss_pred eeCCcEEEEEcCCCCHhHHHHHHHHHhC
Q psy8579 81 LENGSEMLIDVDNKSKDEIHDHVLKVLG 108 (168)
Q Consensus 81 ~~~G~~~~Idv~nk~~~eIl~~l~~l~g 108 (168)
...|.+.+|.+++-+.++.++.|.+++.
T Consensus 55 ~~~G~~i~i~~~G~de~~a~~~i~~~~~ 82 (84)
T PF00381_consen 55 AKKGDEIEIEAEGEDEEEALEAIAEFLE 82 (84)
T ss_dssp BSTTEEEEEEEESTTHHHHHHHHHHHHH
T ss_pred cCCCCEEEEEEECcCHHHHHHHHHHHHh
Confidence 3479999999999999999999988763
No 54
>PF07710 P53_tetramer: P53 tetramerisation motif; InterPro: IPR010991 The p53 protein is a tetrameric transcription factor that plays a central role in the prevention of neoplastic transformation []. Oligomerization appears to be essential for the tumour suppressing activity of p53. p53 can be divided into different functional domains: an N-terminal transactivation domain, a proline-rich domain, a DNA-binding domain (IPR008967 from INTERPRO), a tetramerisation domain and a C-terminal regulatory region. The tetramerisation domain of human p53 extends from residues 325 to 356, and has a 4-helical bundle fold. The tetramerisation domain is essential for DNA binding, protein-protein interactions, post-translational modifications, and p53 degradation [].; GO: 0051262 protein tetramerization; PDB: 3Q06_B 1SAL_B 1OLH_B 1AIE_A 1PES_D 1SAK_D 1SAE_B 2J11_D 1PET_A 1OLG_A ....
Probab=21.11 E-value=84 Score=19.72 Aligned_cols=27 Identities=11% Similarity=0.281 Sum_probs=23.3
Q ss_pred eCCcEEEEEcCCCCHhHHHHHHHHHhC
Q psy8579 82 ENGSEMLIDVDNKSKDEIHDHVLKVLG 108 (168)
Q Consensus 82 ~~G~~~~Idv~nk~~~eIl~~l~~l~g 108 (168)
+|++..++-|+|...-||+..|.+.+.
T Consensus 6 ~D~E~ftL~VrGRe~yE~l~kine~LE 32 (42)
T PF07710_consen 6 DDEEVFTLQVRGRERYEMLKKINEALE 32 (42)
T ss_dssp SCCCEEEEEEESHHHHHHHHHHHHHHH
T ss_pred CCCCEEEEEEecHHHHHHHHHHHHHHH
Confidence 577888999999999999999977653
No 55
>PRK10850 PTS system phosphohistidinoprotein-hexose phosphotransferase subunit Hpr; Provisional
Probab=20.98 E-value=1.3e+02 Score=21.15 Aligned_cols=30 Identities=17% Similarity=0.405 Sum_probs=25.9
Q ss_pred EEeeCCcEEEEEcCCCCHhHHHHHHHHHhC
Q psy8579 79 TYLENGSEMLIDVDNKSKDEIHDHVLKVLG 108 (168)
Q Consensus 79 ~~~~~G~~~~Idv~nk~~~eIl~~l~~l~g 108 (168)
.-...|.+.+|.++|-+.++.++.|.+++.
T Consensus 53 Lg~~~G~~v~i~~~G~De~~A~~~l~~ll~ 82 (85)
T PRK10850 53 LGLTQGTVVTISAEGEDEQKAVEHLVKLMA 82 (85)
T ss_pred cCCCCCCEEEEEEeCcCHHHHHHHHHHHHH
Confidence 334579999999999999999999998864
No 56
>PF12714 TILa: TILa domain
Probab=20.94 E-value=46 Score=21.61 Aligned_cols=19 Identities=37% Similarity=0.975 Sum_probs=16.2
Q ss_pred CCCceeeeecCCCCCCCcC
Q psy8579 133 KCEKHCICQIPGQITCPGL 151 (168)
Q Consensus 133 ~~~~~c~ce~~gq~pc~~~ 151 (168)
.|.+.|.|..-|+|-|-..
T Consensus 20 ~C~~~C~C~~~g~v~C~~~ 38 (56)
T PF12714_consen 20 DCTQRCTCQPNGQVQCQPS 38 (56)
T ss_pred CCCEeEEEcCCCeEEEeCC
Confidence 5999999998999988654
No 57
>PF07660 STN: Secretin and TonB N terminus short domain; InterPro: IPR011662 This is a conserved region found at the N-terminal region of bacterial proteins involved in either protein secretion or the uptake of selective substrates, including: Bundle-forming pilus protein B, an outer-membrane protein absolutely required for pilus biogenesis, and for enteropathogenic Escherichia coli localized adherence and autoaggregation []. PilQ, which is required for type IV pilus biogenesis and competence and is thought to function both as a pore for exit of the pilus and as a channel for entry of haem and antimicrobial agents and uptake of transforming DNA []. PupB, a specific receptor for the siderophores ferric pseudobactin BN8 and ferric pseudobactin BN7, iron chelating molecules that allow the organism to extract iron from the environment, especially under iron-restricted conditions []. TonB, which couples the electrochemical potential of the cytoplasmic membrane to the active transport of iron-siderophores and vitamin B12 across the outer membrane []. ; GO: 0019867 outer membrane; PDB: 2D1U_A 1ZZV_A 2W75_B 2O5P_A 2W77_A 2W16_A 2W6U_B 2W6T_A 2W76_B 2W78_B ....
Probab=20.44 E-value=32 Score=21.18 Aligned_cols=24 Identities=38% Similarity=0.490 Sum_probs=16.0
Q ss_pred cEEEEEcCCCCHhHHHHHHHHHhC
Q psy8579 85 SEMLIDVDNKSKDEIHDHVLKVLG 108 (168)
Q Consensus 85 ~~~~Idv~nk~~~eIl~~l~~l~g 108 (168)
...++++++.+.+|+|+.+.+-+|
T Consensus 14 ~~vsl~~~~~~~~~~L~~ll~~t~ 37 (52)
T PF07660_consen 14 KKVSLDVKNMSLEEALDQLLKGTG 37 (52)
T ss_dssp BE--EE-EEE-HHHHHHHHTTTST
T ss_pred cceeEEcCCcCHHHHHHHHHccCC
Confidence 566999999999999998866444
Done!