Query psy15184
Match_columns 160
No_of_seqs 171 out of 404
Neff 5.3
Searched_HMMs 46136
Date Fri Aug 16 22:44:38 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy15184.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/15184hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG1616|consensus 100.0 9.5E-43 2.1E-47 296.9 9.7 151 1-160 120-287 (289)
2 PF04739 AMPKBI: 5'-AMP-activa 100.0 5.2E-37 1.1E-41 226.4 4.6 89 72-160 2-100 (100)
3 cd02859 AMPKbeta_GBD_like AMP- 99.5 3E-14 6.6E-19 100.0 4.7 41 1-50 39-79 (79)
4 cd02861 E_set_proteins_like E 98.9 1.3E-09 2.8E-14 76.4 4.7 41 1-49 40-81 (82)
5 cd02858 Esterase_N_term Estera 96.9 0.0016 3.4E-08 45.9 4.2 23 4-26 48-70 (85)
6 cd02688 E_set E or "early" set 94.3 0.038 8.1E-07 36.7 2.4 24 3-26 45-69 (83)
7 PF02922 CBM_48: Carbohydrate- 70.3 2.6 5.7E-05 28.5 1.4 16 5-20 59-74 (85)
8 cd05814 CBM20_Prei4 Prei4, N-t 67.4 8.6 0.00019 28.4 3.7 16 2-17 51-67 (120)
9 cd00503 Frataxin Frataxin is a 65.9 4.5 9.7E-05 29.9 1.9 20 6-26 65-84 (105)
10 TIGR03422 mito_frataxin fratax 63.8 6 0.00013 29.0 2.2 19 7-26 66-84 (97)
11 PRK00446 cyaY frataxin-like pr 62.2 6 0.00013 29.3 2.0 20 6-26 64-83 (105)
12 PF01491 Frataxin_Cyay: Fratax 61.9 8.1 0.00018 28.6 2.7 20 6-26 67-87 (109)
13 KOG0045|consensus 58.9 8.5 0.00018 36.7 2.9 23 6-29 115-140 (612)
14 cd05809 CBM20_beta_amylase Bet 57.2 13 0.00029 26.4 3.1 15 2-16 53-68 (99)
15 PF01378 IgG_binding_B: B doma 52.8 6.5 0.00014 26.2 0.7 11 16-26 38-48 (55)
16 PF00686 CBM_20: Starch bindin 52.5 10 0.00022 26.6 1.8 15 2-16 53-68 (96)
17 cd02856 Glycogen_debranching_e 51.9 16 0.00035 26.0 2.8 15 5-20 54-68 (103)
18 TIGR03421 FeS_CyaY iron donor 51.8 11 0.00024 27.7 2.0 20 6-26 62-81 (102)
19 smart00230 CysPc Calpain-like 51.4 16 0.00034 31.6 3.1 22 6-28 99-123 (318)
20 PF00648 Peptidase_C2: Calpain 51.2 16 0.00034 30.7 3.0 21 7-28 87-110 (298)
21 cd05820 CBM20_novamyl Novamyl 51.1 26 0.00056 25.2 3.8 15 2-16 55-70 (103)
22 cd00044 CysPc Calpains, domain 48.9 18 0.0004 30.8 3.1 24 5-29 106-132 (315)
23 cd05818 CBM20_water_dikinase P 47.1 33 0.00071 24.2 3.7 24 2-25 46-75 (92)
24 PRK01379 cyaY frataxin-like pr 44.8 13 0.00027 27.7 1.3 18 7-26 66-83 (103)
25 cd05808 CBM20_alpha_amylase Al 43.6 36 0.00078 23.5 3.4 15 2-16 48-63 (95)
26 TIGR00481 Raf kinase inhibitor 42.8 17 0.00038 27.9 1.9 11 6-16 94-104 (141)
27 PF14645 Chibby: Chibby family 42.0 20 0.00043 27.1 2.0 17 4-21 44-60 (116)
28 cd05810 CBM20_alpha_MTH Glucan 39.8 50 0.0011 23.5 3.8 15 2-16 49-64 (97)
29 cd05807 CBM20_CGTase CGTase, C 38.4 29 0.00062 24.7 2.3 15 2-16 55-70 (101)
30 cd02857 CD_pullulan_degrading_ 38.3 48 0.001 23.3 3.5 15 2-16 65-79 (116)
31 PF13954 PapC_N: PapC N-termin 37.4 36 0.00079 25.8 2.9 23 4-26 26-48 (146)
32 PF14121 DUF4289: Domain of un 34.8 59 0.0013 30.7 4.4 39 114-152 494-535 (614)
33 PF14347 DUF4399: Domain of un 33.8 38 0.00083 24.2 2.3 24 2-26 56-79 (87)
34 cd05815 CBM20_DPE2_repeat1 Dis 33.5 53 0.0012 23.2 3.1 15 2-16 50-65 (101)
35 PF03072 DUF237: MG032/MG096/M 31.9 54 0.0012 25.7 3.0 22 7-28 87-111 (137)
36 PF06573 Churchill: Churchill 30.6 33 0.00072 26.0 1.6 13 9-21 70-82 (112)
37 cd05813 CBM20_genethonin_1 Gen 30.5 45 0.00098 23.3 2.2 15 2-16 47-62 (95)
38 cd05817 CBM20_DSP Dual-specifi 30.1 45 0.00098 23.7 2.2 15 2-16 47-62 (100)
39 cd05811 CBM20_glucoamylase Glu 30.0 46 0.001 23.6 2.3 15 2-16 58-73 (106)
40 PF08308 PEGA: PEGA domain; I 29.5 59 0.0013 21.2 2.6 16 4-19 31-46 (71)
41 cd05467 CBM20 The family 20 ca 29.3 50 0.0011 22.6 2.3 15 2-16 48-65 (96)
42 cd02852 Isoamylase_N_term Isoa 28.9 37 0.00079 24.7 1.6 16 5-21 58-73 (119)
43 cd02860 Pullulanase_N_term Pul 26.8 62 0.0013 22.7 2.4 20 6-26 57-81 (100)
44 COG5083 SMP2 Uncharacterized p 26.7 67 0.0014 30.3 3.1 32 3-44 344-385 (580)
45 cd05816 CBM20_DPE2_repeat2 Dis 26.7 58 0.0012 23.0 2.3 15 2-16 48-64 (99)
46 PF09829 DUF2057: Uncharacteri 26.6 62 0.0014 25.6 2.7 24 3-26 30-53 (189)
47 TIGR03769 P_ac_wall_RPT actino 26.4 82 0.0018 19.4 2.6 14 6-19 11-29 (41)
48 smart00107 BTK Bruton's tyrosi 25.3 34 0.00074 20.8 0.7 17 10-26 8-24 (36)
49 PF14321 DUF4382: Domain of un 24.4 57 0.0012 24.5 2.0 21 3-23 63-85 (139)
50 COG5227 SMT3 Ubiquitin-like pr 23.7 85 0.0018 23.3 2.7 18 10-28 63-80 (103)
51 smart00155 PLDc Phospholipase 23.7 98 0.0021 16.9 2.4 15 8-22 3-18 (28)
52 PF07495 Y_Y_Y: Y_Y_Y domain; 23.5 64 0.0014 20.4 1.8 20 7-26 5-27 (66)
53 PF00339 Arrestin_N: Arrestin 22.3 37 0.0008 24.5 0.5 29 3-43 88-116 (149)
54 TIGR01160 SUI1_MOF2 translatio 22.0 1.1E+02 0.0023 23.1 3.0 21 135-155 24-44 (110)
55 cd05806 CBM20_laforin Laforin 20.4 93 0.002 23.2 2.4 15 2-16 56-74 (112)
56 PRK04517 hypothetical protein; 20.1 97 0.0021 25.5 2.7 24 3-26 54-77 (216)
No 1
>KOG1616|consensus
Probab=100.00 E-value=9.5e-43 Score=296.91 Aligned_cols=151 Identities=63% Similarity=1.025 Sum_probs=140.2
Q ss_pred CEEecCCceEEEEEEECCEEEECCCCccccccccCceeeCCCCCcceEEEcccCC--hhhhhhcccC--------CCCCC
Q psy15184 1 MIIDLPEGEHEYKFLVDGEWKVNPQEVKCIAFLVSPVQENKLGSKNNKLAVKKTD--FEVFEALDVD--------SQDTT 70 (160)
Q Consensus 1 ~i~~Lp~G~h~ykFiVDG~w~~~~~~~p~~~~~~~p~~~d~~G~~nN~i~v~~~d--~e~~~al~~d--------s~~~~ 70 (160)
++++||+|.|+|||+|||+|++|++. | +++|+.|+.||+|+|.+.+ +++++++.++ +.+..
T Consensus 120 ~~~dL~~g~~~~kf~vdge~~~s~~~-p--------ta~d~~Gn~~N~i~v~~~~~v~~~~~~l~~~~~~~~~~~s~e~~ 190 (289)
T KOG1616|consen 120 TILDLPPGEHEYKFIVDGEWRHDPDL-P--------TAEDSLGNLNNILEVQDPDEVFEVFQALEEDLPSSNHSESSEVP 190 (289)
T ss_pred eeEecCCceEEEEEecCCceecCCCC-c--------ccccccCCcccceEecCccccchhhhhhhhhccccccccccccC
Confidence 47899999999999999999999999 7 8999999999999999999 9998888776 33433
Q ss_pred CC-------CCCCCcccCCCCCCCCCCCCCCCCCcccccccCCCCCCCCCCCCCCCCCCeEEeeeEEEeecCCCEEEEEE
Q psy15184 71 PK-------KDDEYSQVIPPSKPWEKQPGPPILPPHLLQVILNKDTPLSCEPTLLPQPNHVMLNHLYALSIKDGVMVLST 143 (160)
Q Consensus 71 ~~-------~~~~Y~~eip~~~~~~k~~~PP~LPphL~~~iLN~~~~~~~~~~~Lp~P~Hv~LNHLy~~sik~~~~~l~~ 143 (160)
.. +.++|+|++|..++++++..||.|||||.++|||+++..+|++..+++|+||+|||||+.+||++++++++
T Consensus 191 ~~~~~~~~~~~~~y~~~~~~~~~~~~~~~~p~lpp~l~~v~lnk~~~~~~~~~~~~~p~hv~lnhl~~~sik~~~~~~~~ 270 (289)
T KOG1616|consen 191 NLPEELEAKPLGSYTQEKPAVEDEEKAMAPPVLPPHLLQVILNKDTQVSCDPALLPEPNHVALNHLYALSIKDGVMVLSF 270 (289)
T ss_pred CCccccccccccccccccchhhcchhcccCCCCCcchheeeccccccccccccccCCccchhhhhhhhhccCCCeeEecc
Confidence 33 38899999999999888888999999999999999999999999999999999999999999999999999
Q ss_pred eeEecceeEEEEEeeeC
Q psy15184 144 THRYRKKYVTTLLYKPI 160 (160)
Q Consensus 144 T~Ry~~KyvT~vlYkp~ 160 (160)
||||++||||+++|||+
T Consensus 271 ~~r~~~k~vt~~lyk~~ 287 (289)
T KOG1616|consen 271 THRYKKKYVTTGLYKPL 287 (289)
T ss_pred eecccccceeEEeeeec
Confidence 99999999999999996
No 2
>PF04739 AMPKBI: 5'-AMP-activated protein kinase beta subunit, interation domain; InterPro: IPR006828 Protein phosphorylation, which plays a key role in most cellular activities, is a reversible process mediated by protein kinases and phosphoprotein phosphatases. Protein kinases catalyse the transfer of the gamma phosphate from nucleotide triphosphates (often ATP) to one or more amino acid residues in a protein substrate side chain, resulting in a conformational change affecting protein function. Phosphoprotein phosphatases catalyse the reverse process. Protein kinases fall into three broad classes, characterised with respect to substrate specificity []: Serine/threonine-protein kinases Tyrosine-protein kinases Dual specific protein kinases (e.g. MEK - phosphorylates both Thr and Tyr on target proteins) Protein kinase function has been evolutionarily conserved from Escherichia coli to human []. Protein kinases play a role in a multitude of cellular processes, including division, proliferation, apoptosis, and differentiation []. Phosphorylation usually results in a functional change of the target protein by changing enzyme activity, cellular location, or association with other proteins. The catalytic subunits of protein kinases are highly conserved, and several structures have been solved [], leading to large screens to develop kinase-specific inhibitors for the treatments of a number of diseases []. This interaction domain is found in the beta subunit of the 5-AMP-activated protein kinase complex, and its yeast homologues Sip1, Sip2 and Gal83, which are found in the SNF1 kinase complex []. This region is sufficient for interaction of this subunit with the kinase complex, but is not solely responsible for the interaction, and the interaction partner is not known []. The isoamylase domain (IPR004193 from INTERPRO) is sometimes found associated with proteins that contain this C-terminal domain.; GO: 0005515 protein binding; PDB: 2QRE_D 2OOY_B 2OOX_B 2QRD_D 2QR1_D 2QRC_D 1Z0N_C 4EAK_B 4EAL_B 4EAG_B ....
Probab=100.00 E-value=5.2e-37 Score=226.40 Aligned_cols=89 Identities=56% Similarity=0.918 Sum_probs=66.8
Q ss_pred CCCCCCcccCCCCC----------CCCCCCCCCCCCcccccccCCCCCCCCCCCCCCCCCCeEEeeeEEEeecCCCEEEE
Q psy15184 72 KKDDEYSQVIPPSK----------PWEKQPGPPILPPHLLQVILNKDTPLSCEPTLLPQPNHVMLNHLYALSIKDGVMVL 141 (160)
Q Consensus 72 ~~~~~Y~~eip~~~----------~~~k~~~PP~LPphL~~~iLN~~~~~~~~~~~Lp~P~Hv~LNHLy~~sik~~~~~l 141 (160)
+++++|+++||+.. .++..+.||.|||||+++|||+++...++++.||+|+||+|||||+++||+||+|+
T Consensus 2 ~p~~~ys~~iP~~~~~~~~~~~~~~~~~~~~PP~lPp~L~~~iLN~~~~~~~~~~~Lp~P~HV~LNHL~~~~ik~~v~al 81 (100)
T PF04739_consen 2 SPESSYSSEIPENLQDDDEFEEQPEEEFAKEPPSLPPHLQKTILNKPSSSTDDPSVLPIPNHVVLNHLYTSSIKDGVLAL 81 (100)
T ss_dssp -----EESS--HCCCSCCCCCHHH--TCCCS--BS-GGGCSEECCSCTCHHSHTTB-----GGGTTBEEEEEEBTTEEEE
T ss_pred CCCcCccccCCccccchhhhhhhhcccccCCCCCCChhhCeeccCCCCcccCccccCCCCCEEEecceEEcccCCCeEEE
Confidence 46788999999974 13455679999999999999998878899999999999999999999999999999
Q ss_pred EEeeEecceeEEEEEeeeC
Q psy15184 142 STTHRYRKKYVTTLLYKPI 160 (160)
Q Consensus 142 ~~T~Ry~~KyvT~vlYkp~ 160 (160)
|+|||||+||||+|||||+
T Consensus 82 ~~T~Ryk~KyVT~vlYkP~ 100 (100)
T PF04739_consen 82 GTTHRYKSKYVTTVLYKPI 100 (100)
T ss_dssp EEEEEETTEEEEEEEEEE-
T ss_pred EEEEEecceEEEEEEecCC
Confidence 9999999999999999996
No 3
>cd02859 AMPKbeta_GBD_like AMP-activated protein kinase (AMPK) beta subunit glycogen binding domain (GBD). AMPK is a metabolic stress sensing protein that senses AMP/ATP and has recently been found to act as a glycogen sensor as well. The protein functions as a alpha-beta-gamma heterotrimer. This domain is the glycogen binding domain of the beta subunit.
Probab=99.49 E-value=3e-14 Score=100.03 Aligned_cols=41 Identities=37% Similarity=0.775 Sum_probs=38.2
Q ss_pred CEEecCCceEEEEEEECCEEEECCCCccccccccCceeeCCCCCcceEEE
Q psy15184 1 MIIDLPEGEHEYKFLVDGEWKVNPQEVKCIAFLVSPVQENKLGSKNNKLA 50 (160)
Q Consensus 1 ~i~~Lp~G~h~ykFiVDG~w~~~~~~~p~~~~~~~p~~~d~~G~~nN~i~ 50 (160)
++++||+|.|+|||+|||+|++|+++ + ++.|++|+.||+|+
T Consensus 39 ~~~~L~~g~y~YkF~Vdg~w~~d~~~-~--------~~~d~~G~~NN~i~ 79 (79)
T cd02859 39 ATLRLPPGKYQYKFIVDGEWRHSPDL-P--------TETDDEGNVNNVID 79 (79)
T ss_pred EEEEcCCCCEEEEEEECCEEEeCCCC-C--------ccCCCCCcEeeeEC
Confidence 36899999999999999999999999 7 78999999999985
No 4
>cd02861 E_set_proteins_like E or "early" set-like proteins. These alpha amylase-like sugar utilizing enzymes which may be related to the immunoglobulin and/or fibronectin type III superfamilies are associated with different types of catalytic domains at either the N-terminal or C-terminal end. Members of this family include members of the alpha amylase family, sialidase, galactose oxidase, cellulase, cellulose, hyaluronate lyase, chitobiase, and chitinase.
Probab=98.93 E-value=1.3e-09 Score=76.40 Aligned_cols=41 Identities=39% Similarity=0.810 Sum_probs=36.0
Q ss_pred CEEecCCceEEEEEEECCEEE-ECCCCccccccccCceeeCCCCCcceEE
Q psy15184 1 MIIDLPEGEHEYKFLVDGEWK-VNPQEVKCIAFLVSPVQENKLGSKNNKL 49 (160)
Q Consensus 1 ~i~~Lp~G~h~ykFiVDG~w~-~~~~~~p~~~~~~~p~~~d~~G~~nN~i 49 (160)
+++.|++|.|+|||+|||.|. .||.. ++ ...|++|+.||+|
T Consensus 40 ~~~~l~~G~y~Ykf~vdg~~~~~DP~~-~~-------~~~~~~g~~n~v~ 81 (82)
T cd02861 40 VTVELRPGRYEYKFVVDGEWVIVDPNA-AA-------YVDDGFGGKNAVF 81 (82)
T ss_pred EEEeCCCCcEEEEEEECCEEeeCCCCC-Cc-------eecCCCCccceEc
Confidence 367899999999999999999 89988 43 6899999999987
No 5
>cd02858 Esterase_N_term Esterase N-terminal domain. Esterases catalyze the hydrolysis of organic esters to release an alcohol or thiol and acid. The term can be applied to enzymes that hydrolyze carboxylate, phosphate and sulphate esters, but is more often restricted to the first class of substrate. The N-terminus of esterase may be related to the immunoglobulin and/or fibronectin type III superfamilies. These domains are associated with different types of catalytic domains at either the N-terminal or C-terminal end and may be involved in homodimeric/tetrameric/dodecameric interactions. Members of this family include members of the alpha amylase family, sialidase, galactose oxidase, cellulase, cellulose, hyaluronate lyase, chitobiase, and chitinase.
Probab=96.88 E-value=0.0016 Score=45.94 Aligned_cols=23 Identities=39% Similarity=0.683 Sum_probs=21.3
Q ss_pred ecCCceEEEEEEECCEEEECCCC
Q psy15184 4 DLPEGEHEYKFLVDGEWKVNPQE 26 (160)
Q Consensus 4 ~Lp~G~h~ykFiVDG~w~~~~~~ 26 (160)
.|.+|.|+|+|+|||.|+.||..
T Consensus 48 ~l~~g~Y~Y~~~vdg~~~~DP~s 70 (85)
T cd02858 48 PLAPGIYTYSFLVDGVRVIDPSN 70 (85)
T ss_pred CCCCcEEEEEEEECCeEecCCCC
Confidence 47788999999999999999998
No 6
>cd02688 E_set E or "early" set of sugar utilizing enzymes which may be related to the immunoglobulin and/or fibronectin type III superfamilies. These domains are associated with different types of catalytic domains at either the N-terminal or C-terminal end. Members of this family include members of the alpha amylase family, sialidase, galactose oxidase, cellulase, cellulose, hyaluronate lyase, chitobiase, and chitinase.
Probab=94.26 E-value=0.038 Score=36.70 Aligned_cols=24 Identities=33% Similarity=0.685 Sum_probs=19.9
Q ss_pred EecCC-ceEEEEEEECCEEEECCCC
Q psy15184 3 IDLPE-GEHEYKFLVDGEWKVNPQE 26 (160)
Q Consensus 3 ~~Lp~-G~h~ykFiVDG~w~~~~~~ 26 (160)
+.+.. |.++|||.|||.|..++..
T Consensus 45 v~~~~~~~~~Y~~~v~~~~~~~~~~ 69 (83)
T cd02688 45 LPLPSPGKYQYKYVLDGGKGPDEGE 69 (83)
T ss_pred EcCCCCCCeEEEEEEeCCCCCCCCC
Confidence 45555 8999999999999888776
No 7
>PF02922 CBM_48: Carbohydrate-binding module 48 (Isoamylase N-terminal domain); InterPro: IPR004193 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. Enzymes containing this domain belong to family 13 (GH13 from CAZY) of the glycosyl hydrolases. This domain is found in a range of enzymes that act on branched substrates ie. isoamylase, pullulanase and branching enzyme. Isoamylase hydrolyses 1,6-alpha-D-glucosidic branch linkages in glycogen, amylopectin and dextrin; 1,4-alpha-glucan branching enzyme functions in the formation of 1,6-glucosidic linkages of glycogen; and pullulanase is a starch-debranching enzyme.; GO: 0004553 hydrolase activity, hydrolyzing O-glycosyl compounds, 0005975 carbohydrate metabolic process; PDB: 2BHZ_A 2BY2_A 2BY3_A 2BXY_A 2BY1_A 2BHY_A 2BHU_A 2BXZ_A 2BY0_A 2FHB_A ....
Probab=70.32 E-value=2.6 Score=28.52 Aligned_cols=16 Identities=44% Similarity=0.787 Sum_probs=12.5
Q ss_pred cCCceEEEEEEECCEE
Q psy15184 5 LPEGEHEYKFLVDGEW 20 (160)
Q Consensus 5 Lp~G~h~ykFiVDG~w 20 (160)
+++|.++|+|.|||.+
T Consensus 59 ~~~g~~~Y~y~i~~~~ 74 (85)
T PF02922_consen 59 LPPGGYYYKYRIDGDD 74 (85)
T ss_dssp GTTTT-EEEEEEEETT
T ss_pred cCCCCEEEEEEEEeCC
Confidence 7888899999998764
No 8
>cd05814 CBM20_Prei4 Prei4, N-terminal CBM20 (carbohydrate-binding module, family 20) domain. Preimplantation protein 4 (Prei4) is a protein of unknown function that is expressed during mouse preimplantation embryogenesis. In addition to the N-terminal CBM20 domain, Prei4 contains a C-terminal glycerophosphoryl diester phosphodiesterase (GDPD) 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 recognition of appropriate regions of starch.
Probab=67.36 E-value=8.6 Score=28.42 Aligned_cols=16 Identities=38% Similarity=1.009 Sum_probs=13.7
Q ss_pred EEecCCc-eEEEEEEEC
Q psy15184 2 IIDLPEG-EHEYKFLVD 17 (160)
Q Consensus 2 i~~Lp~G-~h~ykFiVD 17 (160)
.+.||.| .++|||++.
T Consensus 51 ~v~lp~~~~veYkY~~~ 67 (120)
T cd05814 51 SIELPRGVDFQYRYFVA 67 (120)
T ss_pred EEEECCCCeEEEEEEEE
Confidence 5789988 799999993
No 9
>cd00503 Frataxin Frataxin is a nuclear-encoded mitochondrial protein implicated in Friedreich's ataxia (FRDA), an human autosomal recessive neurodegenerative disease; Frataxin is found in eukaryotes and in purple bacteria; lack of frataxin causes iron to accumulate in the mitochondrial matrix suggesting that frataxin is involved in mitochondrial iron homeostasis and possibly in iron transport; the domain has an alpha-beta fold consisting of two helices flanking an antiparallel beta sheet.
Probab=65.94 E-value=4.5 Score=29.92 Aligned_cols=20 Identities=15% Similarity=0.521 Sum_probs=16.3
Q ss_pred CCceEEEEEEECCEEEECCCC
Q psy15184 6 PEGEHEYKFLVDGEWKVNPQE 26 (160)
Q Consensus 6 p~G~h~ykFiVDG~w~~~~~~ 26 (160)
|-|-|+|.|. ||+|++..+.
T Consensus 65 p~G~~hf~~~-~~~W~~~r~g 84 (105)
T cd00503 65 KVGGYHFDYK-NGKWICTRSG 84 (105)
T ss_pred CCCCccceec-CCEEEECCCC
Confidence 5688999995 9999987554
No 10
>TIGR03422 mito_frataxin frataxin. Frataxin is a mitochondrial protein, mutation of which leads to the disease Friedreich's ataxia. Its orthologs are widely distributed in the bacteria, associated with the ISC system for iron-sulfur cluster assembly, and designated CyaY. This exception-type model allows those examples of frataxin per se that score above the trusted cutoff to the CyaY equivalog-type model (TIGR03421) to be named appropriately.
Probab=63.81 E-value=6 Score=28.99 Aligned_cols=19 Identities=32% Similarity=0.767 Sum_probs=15.6
Q ss_pred CceEEEEEEECCEEEECCCC
Q psy15184 7 EGEHEYKFLVDGEWKVNPQE 26 (160)
Q Consensus 7 ~G~h~ykFiVDG~w~~~~~~ 26 (160)
.|-|+|+| +||+|++..+.
T Consensus 66 sGp~hfd~-~~~~Wi~~r~g 84 (97)
T TIGR03422 66 SGPKRYDY-VNGEWIYLRDG 84 (97)
T ss_pred CCCcceee-cCCEEEECCCC
Confidence 58899999 59999987654
No 11
>PRK00446 cyaY frataxin-like protein; Provisional
Probab=62.17 E-value=6 Score=29.33 Aligned_cols=20 Identities=25% Similarity=0.700 Sum_probs=16.4
Q ss_pred CCceEEEEEEECCEEEECCCC
Q psy15184 6 PEGEHEYKFLVDGEWKVNPQE 26 (160)
Q Consensus 6 p~G~h~ykFiVDG~w~~~~~~ 26 (160)
|.|-|+|+|. ||.|+...+-
T Consensus 64 ~sG~~hf~~~-~~~W~~~r~g 83 (105)
T PRK00446 64 KSGGFHFDYK-DGEWICDRSG 83 (105)
T ss_pred CCCCccceec-CCeEEECCCC
Confidence 5788999996 9999987554
No 12
>PF01491 Frataxin_Cyay: Frataxin-like domain; InterPro: IPR002908 The eukaryotic proteins in this entry include frataxin, the protein that is mutated in Friedreich's ataxia [], and related sequences. Friedreich's ataxia is a progressive neurodegenerative disorder caused by loss of function mutations in the gene encoding frataxin (FRDA). Frataxin mRNA is predominantly expressed in tissues with a high metabolic rate (including liver, kidney, brown fat and heart). Mouse and yeast frataxin homologues contain a potential N-terminal mitochondrial targeting sequence, and human frataxin has been observed to co-localise with a mitochondrial protein. Furthermore, disruption of the yeast gene has been shown to result in mitochondrial dysfunction. Friedreich's ataxia is thus believed to be a mitochondrial disease caused by a mutation in the nuclear genome (specifically, expansion of an intronic GAA triplet repeat) [, , ]. The bacterial proteins in this entry are iron-sulphur cluster (FeS) metabolism CyaY proteins hmologous to eukaryotic frataxin. Partial Phylogenetic Profiling [] suggests that CyaY most likely functions as part of the ISC system for FeS cluster biosynthesis, and is supported by expermimental data in some species [, ]. ; PDB: 1EW4_A 2P1X_A 1SOY_A 2EFF_A 3T3T_B 3S4M_A 3T3K_A 3S5D_A 1LY7_A 3T3X_B ....
Probab=61.94 E-value=8.1 Score=28.56 Aligned_cols=20 Identities=25% Similarity=0.705 Sum_probs=17.4
Q ss_pred C-CceEEEEEEECCEEEECCCC
Q psy15184 6 P-EGEHEYKFLVDGEWKVNPQE 26 (160)
Q Consensus 6 p-~G~h~ykFiVDG~w~~~~~~ 26 (160)
| .|-|+|.|. +|+|++..+.
T Consensus 67 pisG~~hf~~~-~~~W~~~r~g 87 (109)
T PF01491_consen 67 PISGPFHFDYD-DGKWIDTRDG 87 (109)
T ss_dssp TTTEEEEEEEE-SSSEEETTTT
T ss_pred ccCCceEEEEc-CCEEEECCCC
Confidence 5 799999999 9999988765
No 13
>KOG0045|consensus
Probab=58.94 E-value=8.5 Score=36.71 Aligned_cols=23 Identities=22% Similarity=0.592 Sum_probs=18.0
Q ss_pred CCceEEEEEEECCEEE---ECCCCccc
Q psy15184 6 PEGEHEYKFLVDGEWK---VNPQEVKC 29 (160)
Q Consensus 6 p~G~h~ykFiVDG~w~---~~~~~~p~ 29 (160)
..|.|+|||.++|+|+ .|+-+ ||
T Consensus 115 yaGif~f~~w~~G~W~~VvIDD~L-P~ 140 (612)
T KOG0045|consen 115 YAGIFHFRFWQNGEWVEVVIDDRL-PT 140 (612)
T ss_pred cceEEEEEEEeCCeEEEEEeeeec-ce
Confidence 4799999999999995 34455 63
No 14
>cd05809 CBM20_beta_amylase Beta-amylase, C-terminal CBM20 (carbohydrate-binding module, family 20) domain. Beta-amylase has, in addition to its C-terminal CBM20 domain, an N-terminal catalytic domain belonging to glycosyl hydrolase family 14, which hydrolyzes the alpha-1,4-glucosidic bonds of starch, yielding beta-maltose from the nonreducing end of the substrate. Beta-amylase is found in both plants and microorganisms, however the plant members lack a C-terminal CBM20 domain and are not included in this group. 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
Probab=57.24 E-value=13 Score=26.43 Aligned_cols=15 Identities=33% Similarity=0.678 Sum_probs=13.2
Q ss_pred EEecCCc-eEEEEEEE
Q psy15184 2 IIDLPEG-EHEYKFLV 16 (160)
Q Consensus 2 i~~Lp~G-~h~ykFiV 16 (160)
.++||.| ..+|||++
T Consensus 53 ~~~lp~~~~veyKyv~ 68 (99)
T cd05809 53 TVHLPAGRNIEFKAIK 68 (99)
T ss_pred EEEecCCCcEEEEEEE
Confidence 5789999 59999999
No 15
>PF01378 IgG_binding_B: B domain; InterPro: IPR000724 This domain is found as a tandem repeat in Streptococcal cell surface proteins, such as the IgG binding proteins G and MIG. These proteins are type I membrane proteins that bind to the constant Fc region of IgG with high affinity. The N terminus of MIG mediates binding to plasma proteinase inhibitor alpha 2-macroglobulin after complex formation with proteases.; GO: 0005618 cell wall; PDB: 1IGC_A 2IGH_A 2NMQ_A 1IGD_A 1PGX_A 2IGD_A 1QKZ_A 1GB4_A 1FCC_D 1FCL_A ....
Probab=52.82 E-value=6.5 Score=26.16 Aligned_cols=11 Identities=45% Similarity=0.990 Sum_probs=9.6
Q ss_pred ECCEEEECCCC
Q psy15184 16 VDGEWKVNPQE 26 (160)
Q Consensus 16 VDG~w~~~~~~ 26 (160)
|||+|.+|+.-
T Consensus 38 v~gew~yd~at 48 (55)
T PF01378_consen 38 VDGEWSYDDAT 48 (55)
T ss_dssp TTSEEEEETTT
T ss_pred CCCccccccch
Confidence 79999999876
No 16
>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=52.54 E-value=10 Score=26.62 Aligned_cols=15 Identities=47% Similarity=1.096 Sum_probs=12.9
Q ss_pred EEecCCc-eEEEEEEE
Q psy15184 2 IIDLPEG-EHEYKFLV 16 (160)
Q Consensus 2 i~~Lp~G-~h~ykFiV 16 (160)
.+.||.| .++|||++
T Consensus 53 ~v~lp~~~~~eYKy~i 68 (96)
T PF00686_consen 53 TVDLPAGTPFEYKYVI 68 (96)
T ss_dssp EEEEETTSEEEEEEEE
T ss_pred EEECcCCCEEEEEEEE
Confidence 5788888 59999998
No 17
>cd02856 Glycogen_debranching_enzyme_N_term Glycogen_debranching_enzyme N-terminal domain. Glycogen debranching enzymes have both 4-alpha-glucanotransferase and amylo-1,6-glucosidase activities. As a transferase it transfers a segment of a 1,4-alpha-D-glucan to a new 4-position in an acceptor, which may be glucose or another 1,4-alpha-D-glucan. As a glucosidase it catalyzes the endohydrolysis of 1,6-alpha-D-glucoside linkages at points of branching in chains of 1,4-linked alpha-D-glucose residues. The N-terminus of the glycogen debranching enzyme may be related to the immunoglobulin and/or fibronectin type III superfamilies. These domains are associated with different types of catalytic domains at either the N-terminal or C-terminal end and may be involved in homodimeric/tetrameric/dodecameric interactions. Members of this family include members of the alpha amylase family, sialidase, galactose oxidase, cellulase, cellulose, hyaluronate lyase, chitobiase, and chitinase.
Probab=51.90 E-value=16 Score=25.96 Aligned_cols=15 Identities=33% Similarity=0.809 Sum_probs=11.1
Q ss_pred cCCceEEEEEEECCEE
Q psy15184 5 LPEGEHEYKFLVDGEW 20 (160)
Q Consensus 5 Lp~G~h~ykFiVDG~w 20 (160)
+.+|. .|+|.|||.|
T Consensus 54 ~~~g~-~Y~y~i~g~~ 68 (103)
T cd02856 54 IKAGQ-RYGFRVHGPY 68 (103)
T ss_pred CCCCC-EEEEEECCcc
Confidence 45565 7999999953
No 18
>TIGR03421 FeS_CyaY iron donor protein CyaY. Members of this protein family are the iron-sulfur cluster (FeS) metabolism protein CyaY, a homolog of eukaryotic frataxin. ISC is one of several bacterial systems for FeS assembly; we find by Partial Phylogenetic Profiling vs. the ISC system that CyaY most like work with the ISC system for FeS cluster biosynthesis. A study of of cyaY mutants in Salmonella enterica bears this out. Although the trusted cutoff is set low enough to include eukaryotic frataxin sequences, a narrower, exception-type model (TIGR03421) identifies identifies members of that specific set.
Probab=51.79 E-value=11 Score=27.70 Aligned_cols=20 Identities=15% Similarity=0.468 Sum_probs=16.2
Q ss_pred CCceEEEEEEECCEEEECCCC
Q psy15184 6 PEGEHEYKFLVDGEWKVNPQE 26 (160)
Q Consensus 6 p~G~h~ykFiVDG~w~~~~~~ 26 (160)
|.|-|+|.|. ||+|++..+.
T Consensus 62 psG~~hF~~~-~~~Wi~~r~g 81 (102)
T TIGR03421 62 KSGGFHFDYD-GGAWIDTRDG 81 (102)
T ss_pred CCCCccceec-CCEEEECCCC
Confidence 5788999994 8999977665
No 19
>smart00230 CysPc Calpain-like thiol protease family. Calpain-like thiol protease family (peptidase family C2). Calcium activated neutral protease (large subunit).
Probab=51.41 E-value=16 Score=31.60 Aligned_cols=22 Identities=18% Similarity=0.481 Sum_probs=18.4
Q ss_pred CCceEEEEEEECCEEE---ECCCCcc
Q psy15184 6 PEGEHEYKFLVDGEWK---VNPQEVK 28 (160)
Q Consensus 6 p~G~h~ykFiVDG~w~---~~~~~~p 28 (160)
+.|.|++||..+|+|+ +|+.. |
T Consensus 99 ~~G~y~vrl~~~G~w~~V~VDd~l-P 123 (318)
T smart00230 99 YAGIFHFRFWRFGKWVDVVIDDRL-P 123 (318)
T ss_pred cCCEEEEEEEECCEEEEEEecCCC-e
Confidence 6799999999999995 46666 6
No 20
>PF00648 Peptidase_C2: Calpain family cysteine protease This is family C2 in the peptidase classification. ; InterPro: IPR001300 In the MEROPS database peptidases and peptidase homologues are grouped into clans and families. Clans are groups of families for which there is evidence of common ancestry based on a common structural fold: Each clan is identified with two letters, the first representing the catalytic type of the families included in the clan (with the letter 'P' being used for a clan containing families of more than one of the catalytic types serine, threonine and cysteine). Some families cannot yet be assigned to clans, and when a formal assignment is required, such a family is described as belonging to clan A-, C-, M-, N-, S-, T- or U-, according to the catalytic type. Some clans are divided into subclans because there is evidence of a very ancient divergence within the clan, for example MA(E), the gluzincins, and MA(M), the metzincins. Peptidase families are grouped by their catalytic type, the first character representing the catalytic type: A, aspartic; C, cysteine; G, glutamic acid; M, metallo; N, asparagine; S, serine; T, threonine; and U, unknown. The serine, threonine and cysteine peptidases utilise the amino acid as a nucleophile and form an acyl intermediate - these peptidases can also readily act as transferases. In the case of aspartic, glutamic and metallopeptidases, the nucleophile is an activated water molecule. In the case of the asparagine endopeptidases, the nucleophile is asparagine and all are self-processing endopeptidases. In many instances the structural protein fold that characterises the clan or family may have lost its catalytic activity, yet retain its function in protein recognition and binding. Cysteine peptidases have characteristic molecular topologies, which can be seen not only in their three-dimensional structures, but commonly also in the two-dimensional structures. These are peptidases in which the nucleophile is the sulphydryl group of a cysteine residue. Cysteine proteases are divided into clans (proteins which are evolutionary related), and further sub-divided into families, on the basis of the architecture of their catalytic dyad or triad []. This group of cysteine peptidases belong to the MEROPS peptidase family C2 (calpain family, clan CA). A type example is calpain, which is an intracellular protease involved in many important cellular functions that are regulated by calcium []. The protein is a complex of 2 polypeptide chains (light and heavy), with three known forms in mammals [, ]: a highly calcium-sensitive (i.e., micro-molar range) form known as mu-calpain, mu-CANP or calpain I; a form sensitive to calcium in the milli-molar range, known as m-calpain, m-CANP or calpain II; and a third form, known as p94, which is found in skeletal muscle only []. All forms have identical light but different heavy chains. Both mu- and m-calpain are heterodimers containing an identical 28kDa subunit and an 80kDa subunit that shares 55-65% sequence homology between the two proteases [, ]. The crystallographic structure of m-calpain reveals six "domains" in the 80kDa subunit: A 19-amino acid NH2-terminal sequence; Active site domain IIa; Active site domain IIb. Domain 2 shows low levels of sequence similarity to papain; although the catalytic His has not been located by biochemical means, it is likely that calpain and papain are related []. Domain III; An 18-amino acid extended sequence linking domain III to domain IV; Domain IV, which resembles the penta EF-hand family of polypeptides, binds calcium and regulates activity []. />]. Ca2+-binding causes a rearrangement of the protein backbone, the net effect of which is that a Trp side chain, which acts as a wedge between catalytic domains IIa and IIb in the apo state, moves away from the active site cleft allowing for the proper formation of the catalytic triad []. Calpain-like mRNAs have been identified in other organisms including bacteria, but the molecules encoded by these mRNAs have not been isolated, so little is known about their properties. How calpain activity is regulated in these organisms cells is still unclear In metazoans, the activity of calpain is controlled by a single proteinase inhibitor, calpastatin (IPR001259 from INTERPRO). The calpastatin gene can produce eight or more calpastatin polypeptides ranging from 17 to 85 kDa by use of different promoters and alternative splicing events. The physiological significance of these different calpastatins is unclear, although all bind to three different places on the calpain molecule; binding to at least two of the sites is Ca2+ dependent. The calpains ostensibly participate in a variety of cellular processes including remodelling of cytoskeletal/membrane attachments, different signal transduction pathways, and apoptosis. Deregulated calpain activity following loss of Ca2+ homeostasis results in tissue damage in response to events such as myocardial infarcts, stroke, and brain trauma []. Calpains are a family of cytosolic cysteine proteinases (see PDOC00126 from PROSITEDOC). Members of the calpain family are believed to function in various biological processes, including integrin-mediated cell migration, cytoskeletal remodeling, cell differentiation and apoptosis [, ]. The calpain family includes numerous members from C. elegans to mammals and with homologues in yeast and bacteria. The best characterised members are the m- and mu-calpains, both proteins are heterodimer composed of a large catalytic subunit and a small regulatory subunit. The large subunit comprises four domains (dI-dIV) while the small subunit has two domains (dV-dVI). Domain dI is a short region cleaved by autolysis, dII is the catalytic core, dIII is a C2-like domain, dIV consists of five calcium binding EF-hand motifs []. The crystal structure of calpain has been solved [, ]. The catalytic region consists of two distinct structural domains (dIIa and dIIb). dIIa contains a central helix flanked on three faces by a cluster of alpha-helices and is entirely unrelated to the corresponding domain in the typical thiol proteinases. The fold of dIIb is similar to the corresponding domain in other cysteine proteinases and contains two three-stranded anti-parallel beta-sheets. The catalytic triad residues (C,H,N) are located in dIIa and dIIb. The activation of the domain is dependent on the binding of two calcium atoms in two non EF-hand calcium binding sites located in the catalytic core, one close to the Cys active site in dIIa and one at the end of dIIb. Calcium-binding induced conformational changes in the catalytic domain which align the active site [][]. The profile covers the whole catalytic domain.; GO: 0004198 calcium-dependent cysteine-type endopeptidase activity, 0006508 proteolysis, 0005622 intracellular; PDB: 2NQA_A 1KFU_L 1KFX_L 1QXP_B 2R9C_A 1TL9_A 2G8E_A 1KXR_B 2G8J_A 2NQG_A ....
Probab=51.16 E-value=16 Score=30.73 Aligned_cols=21 Identities=24% Similarity=0.615 Sum_probs=16.8
Q ss_pred CceEEEEEEECCEEE---ECCCCcc
Q psy15184 7 EGEHEYKFLVDGEWK---VNPQEVK 28 (160)
Q Consensus 7 ~G~h~ykFiVDG~w~---~~~~~~p 28 (160)
-|.|++||..||+|+ +|+-. |
T Consensus 87 ~G~y~v~l~~~G~w~~V~VDd~l-P 110 (298)
T PF00648_consen 87 NGIYTVRLFKNGEWREVTVDDRL-P 110 (298)
T ss_dssp SSEEEEEEEETTEEEEEEEES-E-E
T ss_pred CceeeEeeccCCeeeeeccchhh-h
Confidence 399999999999996 45655 6
No 21
>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=51.13 E-value=26 Score=25.21 Aligned_cols=15 Identities=40% Similarity=0.780 Sum_probs=13.2
Q ss_pred EEecCCc-eEEEEEEE
Q psy15184 2 IIDLPEG-EHEYKFLV 16 (160)
Q Consensus 2 i~~Lp~G-~h~ykFiV 16 (160)
.++||.| ..+|||++
T Consensus 55 ~~~lp~~~~veyK~v~ 70 (103)
T cd05820 55 VASVPAGTYIEFKFLK 70 (103)
T ss_pred EEEcCCCCcEEEEEEE
Confidence 5789999 59999998
No 22
>cd00044 CysPc Calpains, domains IIa, IIb; calcium-dependent cytoplasmic cysteine proteinases, papain-like. Functions in cytoskeletal remodeling processes, cell differentiation, apoptosis and signal transduction.
Probab=48.87 E-value=18 Score=30.85 Aligned_cols=24 Identities=21% Similarity=0.425 Sum_probs=19.1
Q ss_pred cCCceEEEEEEECCEEEE---CCCCccc
Q psy15184 5 LPEGEHEYKFLVDGEWKV---NPQEVKC 29 (160)
Q Consensus 5 Lp~G~h~ykFiVDG~w~~---~~~~~p~ 29 (160)
-+-|.|++||..+|+|+. |+.. ||
T Consensus 106 ~~~G~y~v~l~~~G~w~~V~VDD~l-P~ 132 (315)
T cd00044 106 NYAGIYHFRFWKNGEWVEVVIDDRL-PT 132 (315)
T ss_pred CcCcEEEEEEEECCEEEEEEecCCC-ee
Confidence 467999999999999964 6566 63
No 23
>cd05818 CBM20_water_dikinase Phosphoglucan water dikinase (also known as alpha-glucan water dikinase), N-terminal CBM20 (carbohydrate-binding module, family 20) domain. This domain is found in the chloroplast-encoded phosphoglucan water dikinase, one of two enzymes involved in the phosphorylation of plant starches. In addition to the CBM20 domain, phosphoglucan water dikinase contains a C-terminal pyruvate binding 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=47.09 E-value=33 Score=24.16 Aligned_cols=24 Identities=38% Similarity=0.742 Sum_probs=16.7
Q ss_pred EEecCCc-eEEEEEEE---CC--EEEECCC
Q psy15184 2 IIDLPEG-EHEYKFLV---DG--EWKVNPQ 25 (160)
Q Consensus 2 i~~Lp~G-~h~ykFiV---DG--~w~~~~~ 25 (160)
.++||.| ..+|||++ || .|...++
T Consensus 46 ~~~l~~~~~ieyKy~~~~~~~~v~WE~g~N 75 (92)
T cd05818 46 DLELDGGELVEYKFVIVKRDGSVIWEGGNN 75 (92)
T ss_pred EEEeCCCCcEEEEEEEEcCCCCEEEEeCCC
Confidence 4678887 69999998 33 4654443
No 24
>PRK01379 cyaY frataxin-like protein; Provisional
Probab=44.78 E-value=13 Score=27.68 Aligned_cols=18 Identities=28% Similarity=0.678 Sum_probs=13.8
Q ss_pred CceEEEEEEECCEEEECCCC
Q psy15184 7 EGEHEYKFLVDGEWKVNPQE 26 (160)
Q Consensus 7 ~G~h~ykFiVDG~w~~~~~~ 26 (160)
.|-|+|.|. ||.|+ +.+.
T Consensus 66 sG~~hF~y~-~g~W~-~r~g 83 (103)
T PRK01379 66 SGPYHFFYE-QGKWK-NRAG 83 (103)
T ss_pred CCCcceecC-CCeeE-ECCC
Confidence 588999995 89999 5443
No 25
>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=43.63 E-value=36 Score=23.46 Aligned_cols=15 Identities=47% Similarity=0.977 Sum_probs=12.6
Q ss_pred EEecCCc-eEEEEEEE
Q psy15184 2 IIDLPEG-EHEYKFLV 16 (160)
Q Consensus 2 i~~Lp~G-~h~ykFiV 16 (160)
.++||.| .++|||++
T Consensus 48 ~v~l~~~~~~eYKy~~ 63 (95)
T cd05808 48 TVDLPAGTAIEYKYIK 63 (95)
T ss_pred EEEeCCCCeEEEEEEE
Confidence 5788887 69999996
No 26
>TIGR00481 Raf kinase inhibitor-like protein, YbhB/YbcL family.
Probab=42.77 E-value=17 Score=27.92 Aligned_cols=11 Identities=55% Similarity=1.189 Sum_probs=9.1
Q ss_pred CCceEEEEEEE
Q psy15184 6 PEGEHEYKFLV 16 (160)
Q Consensus 6 p~G~h~ykFiV 16 (160)
|.|.|+|.|.|
T Consensus 94 P~g~HrY~f~v 104 (141)
T TIGR00481 94 PKGDHRYLFTV 104 (141)
T ss_pred cCCCEEEEEEE
Confidence 46789999986
No 27
>PF14645 Chibby: Chibby family
Probab=41.98 E-value=20 Score=27.08 Aligned_cols=17 Identities=35% Similarity=0.806 Sum_probs=13.8
Q ss_pred ecCCceEEEEEEECCEEE
Q psy15184 4 DLPEGEHEYKFLVDGEWK 21 (160)
Q Consensus 4 ~Lp~G~h~ykFiVDG~w~ 21 (160)
.|--|..+|+| .||+|.
T Consensus 44 ~l~Lg~~~l~F-~dG~W~ 60 (116)
T PF14645_consen 44 RLNLGDQTLVF-EDGQWT 60 (116)
T ss_pred eEeECCeEEEE-ECCEEe
Confidence 34457889999 999999
No 28
>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=39.78 E-value=50 Score=23.50 Aligned_cols=15 Identities=40% Similarity=0.578 Sum_probs=12.7
Q ss_pred EEecCCc-eEEEEEEE
Q psy15184 2 IIDLPEG-EHEYKFLV 16 (160)
Q Consensus 2 i~~Lp~G-~h~ykFiV 16 (160)
.++||.| ..+|||++
T Consensus 49 ~v~lp~~~~veyKyv~ 64 (97)
T cd05810 49 SISLPASTNVEWKCLK 64 (97)
T ss_pred EEEcCCCCeEEEEEEE
Confidence 5788988 59999988
No 29
>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=38.43 E-value=29 Score=24.69 Aligned_cols=15 Identities=33% Similarity=0.744 Sum_probs=13.1
Q ss_pred EEecCCc-eEEEEEEE
Q psy15184 2 IIDLPEG-EHEYKFLV 16 (160)
Q Consensus 2 i~~Lp~G-~h~ykFiV 16 (160)
.++||.| ..+|||++
T Consensus 55 ~~~lp~~~~~eyK~~~ 70 (101)
T cd05807 55 DVSVPAGTTIEFKFIK 70 (101)
T ss_pred EEEcCCCCcEEEEEEE
Confidence 5789999 59999998
No 30
>cd02857 CD_pullulan_degrading_enzymes_N_term CD and pullulan-degrading enzymes N-terminus domain. Members of this subgroup include: Cyclomaltodextrinase (CDase), maltogenic amylase, and neopullulanase all of which are capable of hydrolyzing all or two of the following three types of substrates: cyclomaltodextrins (CDs), pullulan, and starch. These enzymes hydrolyze CDs and starch to maltose and pullulan to panose by cleavage of alpha-1,4 glycosidic bonds whereas alpha-amylases essentially lack activity on CDs and pullulan. They also catalyze transglycosylation of oligosaccharides to the C3-, C4- or C6-hydroxyl groups of various acceptor sugar molecules. The N-terminus of the CD and pullulan-degrading enzymes may be related to the immunoglobulin and/or fibronectin type III superfamilies. These domains are associated with different types of catalytic domains at either the N-terminal or C-terminal end and may be involved in homodimeric/tetrameric/dodecameric interactions. Members of
Probab=38.30 E-value=48 Score=23.25 Aligned_cols=15 Identities=27% Similarity=0.532 Sum_probs=12.3
Q ss_pred EEecCCceEEEEEEE
Q psy15184 2 IIDLPEGEHEYKFLV 16 (160)
Q Consensus 2 i~~Lp~G~h~ykFiV 16 (160)
.+.++.|.+.|+|.|
T Consensus 65 ~i~~~~~~~~Y~F~l 79 (116)
T cd02857 65 TLPPPTGRLRYYFEL 79 (116)
T ss_pred EEecCCcEEEEEEEE
Confidence 456667899999998
No 31
>PF13954 PapC_N: PapC N-terminal domain; PDB: 2VQI_B 3FIP_A 3RFZ_E 3OHN_A 1ZDV_A 1ZE3_D 3BWU_D 1ZDX_A.
Probab=37.39 E-value=36 Score=25.84 Aligned_cols=23 Identities=22% Similarity=0.353 Sum_probs=19.0
Q ss_pred ecCCceEEEEEEECCEEEECCCC
Q psy15184 4 DLPEGEHEYKFLVDGEWKVNPQE 26 (160)
Q Consensus 4 ~Lp~G~h~ykFiVDG~w~~~~~~ 26 (160)
.++||+|...-.|+|+|.-..+.
T Consensus 26 ~~~pG~Y~vdv~vN~~~~~~~~i 48 (146)
T PF13954_consen 26 AIPPGEYSVDVYVNGKFIGRYDI 48 (146)
T ss_dssp SS-SEEEEEEEEETTEEEEEEEE
T ss_pred CCCCeEEEEEEEECCeeeeeEEE
Confidence 37899999999999999985555
No 32
>PF14121 DUF4289: Domain of unknown function (DUF4289)
Probab=34.83 E-value=59 Score=30.70 Aligned_cols=39 Identities=31% Similarity=0.366 Sum_probs=32.8
Q ss_pred CCCCCCCCCeEEeeeEEEeec---CCCEEEEEEeeEecceeE
Q psy15184 114 EPTLLPQPNHVMLNHLYALSI---KDGVMVLSTTHRYRKKYV 152 (160)
Q Consensus 114 ~~~~Lp~P~Hv~LNHLy~~si---k~~~~~l~~T~Ry~~Kyv 152 (160)
+...|+.|.-++-|.||.... |.-.+-+|++-||.+||-
T Consensus 494 ~~~il~lP~~~~~~~lYy~~~lfkk~L~lq~G~~~~YfT~Y~ 535 (614)
T PF14121_consen 494 GEDILPLPEFVTRNNLYYQFKLFKKALFLQTGFDVRYFTKYY 535 (614)
T ss_pred CCCcCccCeEEEEeEEEEEchhhhhhheeeeeeEEEEeeccc
Confidence 477899999999999999973 334566899999999984
No 33
>PF14347 DUF4399: Domain of unknown function (DUF4399)
Probab=33.81 E-value=38 Score=24.22 Aligned_cols=24 Identities=29% Similarity=0.613 Sum_probs=18.9
Q ss_pred EEecCCceEEEEEEECCEEEECCCC
Q psy15184 2 IIDLPEGEHEYKFLVDGEWKVNPQE 26 (160)
Q Consensus 2 i~~Lp~G~h~ykFiVDG~w~~~~~~ 26 (160)
.++|+||+|...-+. |.+.+-+..
T Consensus 56 ~I~L~PG~htLtl~~-~d~~h~~~~ 79 (87)
T PF14347_consen 56 NIELPPGKHTLTLQL-GDGDHVPHD 79 (87)
T ss_pred EEEeCCCCEEEEEEe-CCCCcccCC
Confidence 578999999999877 566666666
No 34
>cd05815 CBM20_DPE2_repeat1 Disproportionating enzyme 2 (DPE2), N-terminal CBM20 (carbohydrate-binding module, family 20) domain, repeat 1. DPE2 is a transglucosidase that is essential for the cytosolic metabolism of maltose in plant leaves at night. Maltose is an intermediate on the pathway from starch to sucrose and DPE2 is thought to metabolize the maltose that is exported from the chloroplast. DPE2 has two N-terminal CBM20 starch binding domains as well as a C-terminal amylomaltase (4-alpha-glucanotransferase) catalytic domain. DPE1, the plastid version of this enzyme, has a transglucosidase domain that is similar to that of DPE2 but lacks the N-terminal carbohydrate-binding domains. 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 metabol
Probab=33.55 E-value=53 Score=23.15 Aligned_cols=15 Identities=40% Similarity=0.864 Sum_probs=12.3
Q ss_pred EEecCCc-eEEEEEEE
Q psy15184 2 IIDLPEG-EHEYKFLV 16 (160)
Q Consensus 2 i~~Lp~G-~h~ykFiV 16 (160)
.+++|.| ..+|||+|
T Consensus 50 ~v~~~~~~~veYky~v 65 (101)
T cd05815 50 SISVPPGFSSEYNYYV 65 (101)
T ss_pred EEEeCCCCcEEEEEEE
Confidence 4678877 59999999
No 35
>PF03072 DUF237: MG032/MG096/MG288 family 1; InterPro: IPR004306 This domain is found entirely in Mycoplasma pneumoniae proteins of unknown function. Another related domain (IPR004319 from INTERPRO) is found entirely in mycoplasmal proteins of the MG032/MG096/MG288 family and both domains often occur together.
Probab=31.87 E-value=54 Score=25.75 Aligned_cols=22 Identities=32% Similarity=0.768 Sum_probs=17.4
Q ss_pred CceEEEEEEECCE---EEECCCCcc
Q psy15184 7 EGEHEYKFLVDGE---WKVNPQEVK 28 (160)
Q Consensus 7 ~G~h~ykFiVDG~---w~~~~~~~p 28 (160)
.|..+-+|+|||+ |.++..+-|
T Consensus 87 kGkm~vk~~~DG~vp~w~~~k~dyp 111 (137)
T PF03072_consen 87 KGKMNVKFIFDGDVPSWIVGKPDYP 111 (137)
T ss_pred cceEEEEEEEcccccceeecCCCCC
Confidence 4789999999995 888766634
No 36
>PF06573 Churchill: Churchill protein; InterPro: IPR009508 This family consists of several eukaryotic Churchill proteins. This protein contains a novel zinc binding region that mediates FGF signalling during neural development. The slow induction by FGF of a transcription factor (Churchill) in the neural plate in turn induces expression of Sip1 (Smad interacting protein-1), which inhibits mesodermal genes and sensitizes cells to later neural inducing factors [].; GO: 0008270 zinc ion binding, 0007275 multicellular organismal development, 0045893 positive regulation of transcription, DNA-dependent; PDB: 2JOX_A.
Probab=30.56 E-value=33 Score=25.99 Aligned_cols=13 Identities=38% Similarity=0.813 Sum_probs=11.2
Q ss_pred eEEEEEEECCEEE
Q psy15184 9 EHEYKFLVDGEWK 21 (160)
Q Consensus 9 ~h~ykFiVDG~w~ 21 (160)
.|+|+|-|+|+++
T Consensus 70 ~HEYtF~V~~~yQ 82 (112)
T PF06573_consen 70 RHEYTFSVVDDYQ 82 (112)
T ss_dssp EEEEEEEEETTEE
T ss_pred eeeEEEEEeccch
Confidence 6999999988765
No 37
>cd05813 CBM20_genethonin_1 Genethonin-1, C-terminal CBM20 (carbohydrate-binding module, family 20) domain. Genethonin-1 is a human skeletal muscle protein with no known function. It contains a C-terminal CBM20 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 recognition of appropriate regions of starch.
Probab=30.46 E-value=45 Score=23.25 Aligned_cols=15 Identities=33% Similarity=0.689 Sum_probs=12.9
Q ss_pred EEecCCce-EEEEEEE
Q psy15184 2 IIDLPEGE-HEYKFLV 16 (160)
Q Consensus 2 i~~Lp~G~-h~ykFiV 16 (160)
.++||.|. .+|||++
T Consensus 47 ~v~lp~~~~ieYky~~ 62 (95)
T cd05813 47 SVSLPVDTHVEWKFVL 62 (95)
T ss_pred EEEecCCCcEEEEEEE
Confidence 57889985 9999998
No 38
>cd05817 CBM20_DSP Dual-specificity phosphatase (DSP), N-terminal CBM20 (carbohydrate-binding module, family 20) domain. This CBM20 domain is located at the N-terminus of a protein tyrosine phosphatase of unknown function found in slime molds and ciliated protozoans. 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 recognition of appropriate regions of starch.
Probab=30.10 E-value=45 Score=23.69 Aligned_cols=15 Identities=40% Similarity=0.756 Sum_probs=12.8
Q ss_pred EEecCCc-eEEEEEEE
Q psy15184 2 IIDLPEG-EHEYKFLV 16 (160)
Q Consensus 2 i~~Lp~G-~h~ykFiV 16 (160)
.++||.| ..+|||+|
T Consensus 47 ~v~lp~~~~veYKY~i 62 (100)
T cd05817 47 DVGIPESVYIEYKYFV 62 (100)
T ss_pred EEEECCCCcEEEEEEE
Confidence 5788888 59999998
No 39
>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=30.05 E-value=46 Score=23.59 Aligned_cols=15 Identities=53% Similarity=0.957 Sum_probs=12.4
Q ss_pred EEecCCce-EEEEEEE
Q psy15184 2 IIDLPEGE-HEYKFLV 16 (160)
Q Consensus 2 i~~Lp~G~-h~ykFiV 16 (160)
.++||.|. .+|||+|
T Consensus 58 ~v~lp~~~~veYKy~~ 73 (106)
T cd05811 58 TIPLPAGTSFEYKFIR 73 (106)
T ss_pred EEEeCCCCcEEEEEEE
Confidence 47788884 9999996
No 40
>PF08308 PEGA: PEGA domain; InterPro: IPR013229 This domain is found in both archaea and bacteria and has similarity to S-layer (surface layer) proteins. It is named after the characteristic PEGA sequence motif found in this domain. The secondary structure of this domain is predicted to be beta-strands.
Probab=29.50 E-value=59 Score=21.22 Aligned_cols=16 Identities=44% Similarity=0.619 Sum_probs=14.5
Q ss_pred ecCCceEEEEEEECCE
Q psy15184 4 DLPEGEHEYKFLVDGE 19 (160)
Q Consensus 4 ~Lp~G~h~ykFiVDG~ 19 (160)
+|++|.|++++.=+|-
T Consensus 31 ~l~~G~~~v~v~~~Gy 46 (71)
T PF08308_consen 31 DLPPGEHTVTVEKPGY 46 (71)
T ss_pred ecCCccEEEEEEECCC
Confidence 4999999999999994
No 41
>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=29.30 E-value=50 Score=22.57 Aligned_cols=15 Identities=47% Similarity=0.873 Sum_probs=12.4
Q ss_pred EEecCC--c-eEEEEEEE
Q psy15184 2 IIDLPE--G-EHEYKFLV 16 (160)
Q Consensus 2 i~~Lp~--G-~h~ykFiV 16 (160)
.+.||. | .++|||++
T Consensus 48 ~v~~~~~~~~~~~yKy~~ 65 (96)
T cd05467 48 EIPLPAPEGQVIEYKYVI 65 (96)
T ss_pred EEEecCCCCCeEEEEEEE
Confidence 467888 7 69999998
No 42
>cd02852 Isoamylase_N_term Isoamylase N-terminus domain. Isoamylase (aka glycogen 6-glucanohydrolase) is one of the starch-debranching enzymes that catalyzes the hydrolysis of alpha-1,6-glucosidic linkages specific in alpha-glucans such as amylopectin or glycogen. Isoamylase contains a bound calcium ion, but this is not in the same position as the conserved calcium ion that has been reported in other alpha-amylase family enzymes. The N-terminus of isoamylase may be related to the immunoglobulin and/or fibronectin type III superfamilies. These domains are associated with different types of catalytic domains at either the N-terminal or C-terminal end and may be involved in homodimeric/tetrameric/dodecameric interactions. Members of this family include members of the alpha amylase family, sialidase, galactose oxidase, cellulase, cellulose, hyaluronate lyase, chitobiase, and chitinase.
Probab=28.95 E-value=37 Score=24.65 Aligned_cols=16 Identities=38% Similarity=0.771 Sum_probs=11.3
Q ss_pred cCCceEEEEEEECCEEE
Q psy15184 5 LPEGEHEYKFLVDGEWK 21 (160)
Q Consensus 5 Lp~G~h~ykFiVDG~w~ 21 (160)
+.+|. .|+|.|||.|.
T Consensus 58 ~~~g~-~Y~y~v~g~~~ 73 (119)
T cd02852 58 LKPGQ-LYGYRVDGPFE 73 (119)
T ss_pred CCCCC-EEEEEECCCCC
Confidence 44565 68899988754
No 43
>cd02860 Pullulanase_N_term Pullulanase domain N-terminus. Pullulanase (AKA dextrinase; alpha-dextrin endo-1,6-alpha glucosidase) is an enzyme with action similar to that of isoamylase; it cleaves 1,6-alpha-glucosidic linkages in pullulan, amylopectin, and glycogen, and in alpha-and beta-amylase limit-dextrins of amylopectin and glycogen. The N-terminus of pullulanase may be related to the immunoglobulin and/or fibronectin type III superfamilies. These domains are associated with different types of catalytic domains at either the N-terminal or C-terminal end and may be involved in homodimeric/tetrameric/dodecameric interactions. Members of this family include members of the alpha amylase family, sialidase, galactose oxidase, cellulase, cellulose, hyaluronate lyase, chitobiase, and chitinase.
Probab=26.77 E-value=62 Score=22.68 Aligned_cols=20 Identities=30% Similarity=0.234 Sum_probs=12.9
Q ss_pred CCceEEEEEEECCE-----EEECCCC
Q psy15184 6 PEGEHEYKFLVDGE-----WKVNPQE 26 (160)
Q Consensus 6 p~G~h~ykFiVDG~-----w~~~~~~ 26 (160)
.+|. .|+|.|||. .+.||-.
T Consensus 57 ~~g~-~Y~y~i~~~~~~~~~~~DPyA 81 (100)
T cd02860 57 LEGY-YYLYEVKVYKGETNEVVDPYA 81 (100)
T ss_pred cCCc-EEEEEEEEeceEEEEEcCccc
Confidence 3454 488888876 5666655
No 44
>COG5083 SMP2 Uncharacterized protein involved in plasmid maintenance [General function prediction only]
Probab=26.73 E-value=67 Score=30.28 Aligned_cols=32 Identities=31% Similarity=0.583 Sum_probs=25.3
Q ss_pred EecCCceEEEEEEECC----------EEEECCCCccccccccCceeeCCCCC
Q psy15184 3 IDLPEGEHEYKFLVDG----------EWKVNPQEVKCIAFLVSPVQENKLGS 44 (160)
Q Consensus 3 ~~Lp~G~h~ykFiVDG----------~w~~~~~~~p~~~~~~~p~~~d~~G~ 44 (160)
+.|.+|.++.||-|+| .||.+... .+.|-+|+
T Consensus 344 LnLkyGkn~lkf~V~g~~a~~t~~ifvwr~n~ki----------VVsDiDGT 385 (580)
T COG5083 344 LNLKYGKNLLKFYVEGGKAIATMYIFVWRNNKKI----------VVSDIDGT 385 (580)
T ss_pred ccCccCcceEEEEEcCCccEEEEEEEEEeCCCcE----------EEEecCCc
Confidence 6799999999999998 37766555 56777775
No 45
>cd05816 CBM20_DPE2_repeat2 Disproportionating enzyme 2 (DPE2), N-terminal CBM20 (carbohydrate-binding module, family 20) domain, repeat 2. DPE2 is a transglucosidase that is essential for the cytosolic metabolism of maltose in plant leaves at night. Maltose is an intermediate on the pathway from starch to sucrose and DPE2 is thought to metabolize the maltose that is exported from the chloroplast. DPE2 has two N-terminal CBM20 domains as well as a C-terminal amylomaltase (4-alpha-glucanotransferase) catalytic domain. DPE1, the plastid version of this enzyme, has a transglucosidase domain that is similar to that of DPE2 but lacks the N-terminal CBM20 domains. Included in this group are PDE2-like proteins from Dictyostelium, Entamoeba, and Bacteroides. 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 star
Probab=26.72 E-value=58 Score=23.05 Aligned_cols=15 Identities=33% Similarity=0.764 Sum_probs=12.1
Q ss_pred EEecCCc--eEEEEEEE
Q psy15184 2 IIDLPEG--EHEYKFLV 16 (160)
Q Consensus 2 i~~Lp~G--~h~ykFiV 16 (160)
.+++|++ ..+|||++
T Consensus 48 ~v~~p~~~~~ieYKyvi 64 (99)
T cd05816 48 DIDISKDSFPFEYKYII 64 (99)
T ss_pred EEEeCCCCccEEEEEEE
Confidence 4678876 58999998
No 46
>PF09829 DUF2057: Uncharacterized protein conserved in bacteria (DUF2057); InterPro: IPR018635 The proteins in this entry are functionally uncharacterised.
Probab=26.60 E-value=62 Score=25.59 Aligned_cols=24 Identities=21% Similarity=0.425 Sum_probs=20.0
Q ss_pred EecCCceEEEEEEECCEEEECCCC
Q psy15184 3 IDLPEGEHEYKFLVDGEWKVNPQE 26 (160)
Q Consensus 3 ~~Lp~G~h~ykFiVDG~w~~~~~~ 26 (160)
++|++|.||.-|.+++.|....+.
T Consensus 30 l~L~~G~~Qiv~ry~~~~~~~~~~ 53 (189)
T PF09829_consen 30 LELPPGENQIVFRYSKIFSSGGDH 53 (189)
T ss_pred EEeCCCcEEEEEEEeEeeccCCCe
Confidence 789999999999999999444444
No 47
>TIGR03769 P_ac_wall_RPT actinobacterial surface-anchored protein domain. This model describes a repeat domain that one to three times in Actinobacterial proteins, some of which have LPXTG-type sortase recognition motifs for covalent attachment to the Gram-positive cell wall. Where it occurs with duplication in an LPXTG-anchored protein, it tends to be adjacent to the substrate-binding protein of the gene trio of an ABC transporter system, where that substrate-binding protein has a single copy of this same domain. This arrangement suggests a substrate-binding relay system, with the LPXTG protein acting as a substrate receptor.
Probab=26.35 E-value=82 Score=19.41 Aligned_cols=14 Identities=21% Similarity=0.342 Sum_probs=11.4
Q ss_pred CCceEEEEEEE-----CCE
Q psy15184 6 PEGEHEYKFLV-----DGE 19 (160)
Q Consensus 6 p~G~h~ykFiV-----DG~ 19 (160)
.||.|+..|-. ||+
T Consensus 11 ~PG~Y~l~~~a~~~~~~G~ 29 (41)
T TIGR03769 11 KPGTYTLTVQATATLTDGK 29 (41)
T ss_pred CCeEEEEEEEEEEEeCCCc
Confidence 48999999977 666
No 48
>smart00107 BTK Bruton's tyrosine kinase Cys-rich motif. Zinc-binding motif containing conserved cysteines and a histidine. Always found C-terminal to PH domains (but not all PH domains are followed by BTK motifs). The crystal structure shows this motif packs against the PH domain. The PH+Btk module pair has been called the Tec homology (TH) region.
Probab=25.32 E-value=34 Score=20.76 Aligned_cols=17 Identities=35% Similarity=0.597 Sum_probs=12.8
Q ss_pred EEEEEEECCEEEECCCC
Q psy15184 10 HEYKFLVDGEWKVNPQE 26 (160)
Q Consensus 10 h~ykFiVDG~w~~~~~~ 26 (160)
|+=.|.+||.|.+--..
T Consensus 8 yHP~~~~~G~W~CC~q~ 24 (36)
T smart00107 8 YHPSFWVDGKWLCCQQS 24 (36)
T ss_pred cCCCceeCCeEccCCCc
Confidence 34478999999886655
No 49
>PF14321 DUF4382: Domain of unknown function (DUF4382)
Probab=24.44 E-value=57 Score=24.54 Aligned_cols=21 Identities=24% Similarity=0.563 Sum_probs=16.5
Q ss_pred EecCCceE-EEEEEECC-EEEEC
Q psy15184 3 IDLPEGEH-EYKFLVDG-EWKVN 23 (160)
Q Consensus 3 ~~Lp~G~h-~ykFiVDG-~w~~~ 23 (160)
.+||+|.| +.||.|++ ....+
T Consensus 63 ~~lpaG~Y~~irl~l~~~~v~~~ 85 (139)
T PF14321_consen 63 AELPAGTYNQIRLVLDDANVVIN 85 (139)
T ss_pred cccCCCcEEEEEEEEeCCeEEEC
Confidence 57999998 99999986 44444
No 50
>COG5227 SMT3 Ubiquitin-like protein (sentrin) [Posttranslational modification, protein turnover, chaperones]
Probab=23.71 E-value=85 Score=23.31 Aligned_cols=18 Identities=22% Similarity=0.630 Sum_probs=13.6
Q ss_pred EEEEEEECCEEEECCCCcc
Q psy15184 10 HEYKFLVDGEWKVNPQEVK 28 (160)
Q Consensus 10 h~ykFiVDG~w~~~~~~~p 28 (160)
-.+||++||+ +.+.++.|
T Consensus 63 ~slRfL~dG~-rI~~dqTP 80 (103)
T COG5227 63 SSLRFLFDGK-RIDLDQTP 80 (103)
T ss_pred ceeEEEEcce-ecCCCCCh
Confidence 5799999998 46666634
No 51
>smart00155 PLDc Phospholipase D. Active site motifs. Phosphatidylcholine-hydrolyzing phospholipase D (PLD) isoforms are activated by ADP-ribosylation factors (ARFs). PLD produces phosphatidic acid from phosphatidylcholine, which may be essential for the formation of certain types of transport vesicles or may be constitutive vesicular transport to signal transduction pathways. PC-hydrolysing PLD is a homologue of cardiolipin synthase, phosphatidylserine synthase, bacterial PLDs, and viral proteins. Each of these appears to possess a domain duplication which is apparent by the presence of two motifs containing well-conserved histidine, lysine, aspartic acid, and/or asparagine residues which may contribute to the active site. An E. coli endonuclease (nuc) and similar proteins appear to be PLD homologues but possess only one of these motifs. The profile contained here represents only the putative active site regions, since an accurate multiple alignment of the repeat units has not be
Probab=23.70 E-value=98 Score=16.89 Aligned_cols=15 Identities=33% Similarity=0.388 Sum_probs=10.1
Q ss_pred ceEEEE-EEECCEEEE
Q psy15184 8 GEHEYK-FLVDGEWKV 22 (160)
Q Consensus 8 G~h~yk-FiVDG~w~~ 22 (160)
|..+=| ++|||+|.+
T Consensus 3 ~~~H~K~~v~D~~~~~ 18 (28)
T smart00155 3 GVLHTKLMIVDDEIAY 18 (28)
T ss_pred CcEEeEEEEEcCCEEE
Confidence 555667 557998754
No 52
>PF07495 Y_Y_Y: Y_Y_Y domain; InterPro: IPR011123 This region is mostly found at the end of the beta propellers (IPR011110 from INTERPRO) in a family of two component regulators. However they are also found tandemly repeated in Q891H4 from SWISSPROT without other signal conduction domains being present. It is named after the conserved tyrosines found in the alignment. The exact function is not known.; PDB: 3V9F_D 3VA6_B 3OTT_B 4A2M_D 4A2L_B.
Probab=23.49 E-value=64 Score=20.44 Aligned_cols=20 Identities=20% Similarity=0.441 Sum_probs=14.2
Q ss_pred CceEEEEEEE---CCEEEECCCC
Q psy15184 7 EGEHEYKFLV---DGEWKVNPQE 26 (160)
Q Consensus 7 ~G~h~ykFiV---DG~w~~~~~~ 26 (160)
++..+|+|.+ |++|....+.
T Consensus 5 ~~~~~Y~Y~l~g~d~~W~~~~~~ 27 (66)
T PF07495_consen 5 PENIRYRYRLEGFDDEWITLGSY 27 (66)
T ss_dssp CTTEEEEEEEETTESSEEEESST
T ss_pred CCceEEEEEEECCCCeEEECCCC
Confidence 4567888855 6789876665
No 53
>PF00339 Arrestin_N: Arrestin (or S-antigen), N-terminal domain; InterPro: IPR011021 G protein-coupled receptors are a large family of signalling molecules that respond to a wide variety of extracellular stimuli. The receptors relay the information encoded by the ligand through the activation of heterotrimeric G proteins and intracellular effector molecules. To ensure the appropriate regulation of the signalling cascade, it is vital to properly inactivate the receptor. This inactivation is achieved, in part, by the binding of a soluble protein, arrestin, which uncouples the receptor from the downstream G protein after the receptors are phosphorylated by G protein-coupled receptor kinases. In addition to the inactivation of G protein-coupled receptors, arrestins have also been implicated in the endocytosis of receptors and cross talk with other signalling pathways. Arrestin (retinal S-antigen) is a major protein of the retinal rod outer segments. It interacts with photo-activated phosphorylated rhodopsin, inhibiting or 'arresting' its ability to interact with transducin []. The protein binds calcium, and shows similarity in its C terminus to alpha-transducin and other purine nucleotide-binding proteins. In mammals, arrestin is associated with autoimmune uveitis. Arrestins comprise a family of closely-related proteins that includes beta-arrestin-1 and -2, which regulate the function of beta-adrenergic receptors by binding to their phosphorylated forms, impairing their capacity to activate G(S) proteins; Cone photoreceptors C-arrestin (arrestin-X) [], which could bind to phosphorylated red/green opsins; and Drosophila phosrestins I and II, which undergo light-induced phosphorylation, and probably play a role in photoreceptor transduction [, , ]. The crystal structure of bovine retinal arrestin comprises two domains of antiparallel beta-sheets connected through a hinge region and one short alpha-helix on the back of the amino-terminal fold []. The binding region for phosphorylated light-activated rhodopsin is located at the N-terminal domain, as indicated by the docking of the photoreceptor to the three-dimensional structure of arrestin. The N-terminal domain consists of an immunoglobulin-like beta-sandwich structure. This entry represents proteins with immunoglobulin-like domains that are similar to those found in arrestin.; PDB: 1SUJ_A 3UGX_A 1CF1_B 1AYR_A 3UGU_A 3P2D_B 1ZSH_A 2WTR_B 3GC3_A 1G4R_A ....
Probab=22.26 E-value=37 Score=24.54 Aligned_cols=29 Identities=31% Similarity=0.449 Sum_probs=13.1
Q ss_pred EecCCceEEEEEEECCEEEECCCCccccccccCceeeCCCC
Q psy15184 3 IDLPEGEHEYKFLVDGEWKVNPQEVKCIAFLVSPVQENKLG 43 (160)
Q Consensus 3 ~~Lp~G~h~ykFiVDG~w~~~~~~~p~~~~~~~p~~~d~~G 43 (160)
-.|++|+|+|-| +.+...++|+ +.....|
T Consensus 88 ~~l~~G~~~fpF----~f~LP~~lP~--------S~~~~~g 116 (149)
T PF00339_consen 88 NILPPGEYEFPF----EFQLPSNLPS--------SFEGSHG 116 (149)
T ss_dssp ----C-TTEEEE----EE---TTS----------SEEEE-S
T ss_pred ecccCCCEEEEE----EEECCCCCCc--------eEeccCc
Confidence 358999999988 4555677743 5555666
No 54
>TIGR01160 SUI1_MOF2 translation initiation factor SUI1, eukaryotic. Alternate name: MOF2. A similar protein family (see TIGRFAMs model TIGR01158) is found in prokaryotes. The human proteins complements a yeast SUI1 mutatation.
Probab=21.96 E-value=1.1e+02 Score=23.06 Aligned_cols=21 Identities=19% Similarity=0.295 Sum_probs=17.1
Q ss_pred CCCEEEEEEeeEecceeEEEE
Q psy15184 135 KDGVMVLSTTHRYRKKYVTTL 155 (160)
Q Consensus 135 k~~~~~l~~T~Ry~~KyvT~v 155 (160)
+.+++.+....|=.+|+||+|
T Consensus 24 ~~~~I~Iri~qR~grK~VTiI 44 (110)
T TIGR01160 24 TSNYIHIRIQQRNGRKTLTTV 44 (110)
T ss_pred ccceEEEEEEEccCCccEEEE
Confidence 356788888888888999987
No 55
>cd05806 CBM20_laforin Laforin protein tyrosine phosphatase, N-terminal CBM20 (carbohydrate-binding module, family 20) domain. Laforin, encoded by the EPM2A gene, is a dual-specificity phosphatase that dephosphorylates complex carbohydrates. Mutations in the gene encoding laforin result in Lafora disease, a fatal autosomal recessive neurodegenerative disorder characterized by the presence of intracellular deposits of insoluble, abnormally branched, glycogen-like polymers, known as Lafora bodies, in neurons, muscle, liver, and other tissues. The molecular basis for the formation of these Lafora bodies is unknown. Laforin is one of the only phosphatases that contains a carbohydrate-binding module. 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
Probab=20.37 E-value=93 Score=23.22 Aligned_cols=15 Identities=40% Similarity=0.563 Sum_probs=12.6
Q ss_pred EEecCCc----eEEEEEEE
Q psy15184 2 IIDLPEG----EHEYKFLV 16 (160)
Q Consensus 2 i~~Lp~G----~h~ykFiV 16 (160)
.++||.| ..+|||+.
T Consensus 56 ~v~lp~~~~~~~~eYKfv~ 74 (112)
T cd05806 56 EVELSEPGSEDTFWYKFLK 74 (112)
T ss_pred EEEcCCCCcCceEEEEEEE
Confidence 5788886 69999997
No 56
>PRK04517 hypothetical protein; Provisional
Probab=20.13 E-value=97 Score=25.47 Aligned_cols=24 Identities=21% Similarity=0.465 Sum_probs=20.6
Q ss_pred EecCCceEEEEEEECCEEEECCCC
Q psy15184 3 IDLPEGEHEYKFLVDGEWKVNPQE 26 (160)
Q Consensus 3 ~~Lp~G~h~ykFiVDG~w~~~~~~ 26 (160)
++|+.|.||.-|-+++.|+...+.
T Consensus 54 l~L~~G~nQIvfry~~~~~~~~~~ 77 (216)
T PRK04517 54 LELPDGENQIVFRYSPYFSQGNDR 77 (216)
T ss_pred eEeCCCceEEEEEEeEeeccCCCc
Confidence 789999999999999998866543
Done!