Query 028224
Match_columns 212
No_of_seqs 120 out of 136
Neff 3.2
Searched_HMMs 46136
Date Fri Mar 29 08:11:54 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/028224.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/028224hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF02893 GRAM: GRAM domain; I 99.3 4.7E-13 1E-17 93.9 3.1 65 89-162 2-66 (69)
2 smart00568 GRAM domain in gluc 99.2 2.3E-11 5E-16 83.5 3.8 58 96-163 2-59 (61)
3 PF14470 bPH_3: Bacterial PH d 96.0 0.052 1.1E-06 39.1 7.5 94 97-205 2-95 (96)
4 KOG4347 GTPase-activating prot 82.4 1.6 3.5E-05 44.4 4.1 97 92-202 14-112 (671)
5 PF14844 PH_BEACH: PH domain a 80.5 1.9 4E-05 32.4 3.0 84 102-187 2-90 (106)
6 KOG3473 RNA polymerase II tran 68.4 2.9 6.2E-05 34.1 1.4 22 166-187 10-31 (112)
7 smart00233 PH Pleckstrin homol 59.2 48 0.001 21.7 5.9 43 147-190 42-85 (102)
8 PF08567 TFIIH_BTF_p62_N: TFII 59.0 34 0.00074 25.5 5.6 53 118-182 13-67 (79)
9 KOG4471 Phosphatidylinositol 3 57.5 9.1 0.0002 39.3 2.9 64 90-165 30-93 (717)
10 PF11605 Vps36_ESCRT-II: Vacuo 54.0 16 0.00034 28.0 3.1 40 118-167 37-76 (89)
11 PF00169 PH: PH domain; Inter 53.6 38 0.00082 23.0 4.7 62 127-189 20-86 (104)
12 PF00515 TPR_1: Tetratricopept 53.4 13 0.00028 21.9 2.0 15 192-206 16-30 (34)
13 smart00683 DM16 Repeats in sea 52.9 20 0.00044 25.8 3.3 37 114-162 17-53 (55)
14 PF07719 TPR_2: Tetratricopept 52.9 13 0.00029 21.4 2.0 15 192-206 16-30 (34)
15 PF08498 Sterol_MT_C: Sterol m 51.5 6 0.00013 29.4 0.4 46 48-93 13-58 (67)
16 PF12068 DUF3548: Domain of un 49.2 19 0.0004 31.9 3.2 57 144-206 107-165 (213)
17 PF13181 TPR_8: Tetratricopept 47.6 18 0.00039 21.0 2.1 15 192-206 16-30 (34)
18 KOG2415 Electron transfer flav 45.3 7.5 0.00016 39.0 0.2 45 60-107 347-393 (621)
19 PF03931 Skp1_POZ: Skp1 family 43.1 16 0.00035 25.5 1.5 14 173-186 1-14 (62)
20 PF07289 DUF1448: Protein of u 42.1 23 0.00051 33.6 2.9 83 93-190 148-232 (339)
21 PF01845 CcdB: CcdB protein; 40.0 44 0.00095 26.3 3.7 35 148-188 30-65 (102)
22 PF10882 bPH_5: Bacterial PH d 39.2 25 0.00055 25.9 2.2 24 145-168 13-36 (100)
23 PRK13708 plasmid maintenance p 38.9 42 0.0009 26.7 3.4 33 150-188 31-64 (101)
24 smart00028 TPR Tetratricopepti 37.7 31 0.00067 17.4 1.9 15 192-206 16-30 (34)
25 PF13176 TPR_7: Tetratricopept 37.3 30 0.00064 21.3 2.0 14 192-205 14-27 (36)
26 cd00900 PH-like Pleckstrin hom 37.3 1.2E+02 0.0026 19.9 5.2 64 115-189 18-83 (99)
27 cd00821 PH Pleckstrin homology 36.1 1.2E+02 0.0026 19.6 5.2 59 121-188 21-79 (96)
28 TIGR02681 phage_pRha phage reg 35.6 40 0.00087 26.6 2.9 31 177-207 68-107 (108)
29 PF08238 Sel1: Sel1 repeat; I 34.5 37 0.00081 20.2 2.1 16 192-207 23-38 (39)
30 KOG1032 Uncharacterized conser 34.1 64 0.0014 32.5 4.7 92 96-200 117-208 (590)
31 KOG3294 WW domain binding prot 33.1 40 0.00086 31.2 2.8 35 118-162 48-83 (261)
32 cd01244 PH_RasGAP_CG9209 RAS_G 30.4 52 0.0011 25.4 2.7 32 150-182 44-76 (98)
33 PF08512 Rtt106: Histone chape 26.2 2.8E+02 0.006 21.0 6.0 65 107-190 5-73 (95)
34 cd01239 PH_PKD Protein kinase 24.5 1.1E+02 0.0025 25.2 3.8 42 145-189 36-80 (117)
35 smart00252 SH2 Src homology 2 24.1 46 0.001 23.4 1.3 18 186-203 3-20 (84)
36 cd00851 MTH1175 This uncharact 23.1 1.9E+02 0.0041 20.7 4.4 39 150-192 2-41 (103)
37 smart00790 AFOR_N Aldehyde fer 22.8 51 0.0011 28.8 1.5 74 52-137 9-82 (199)
38 cd08544 Reeler Reeler, the N-t 22.7 1.2E+02 0.0027 23.5 3.6 34 147-191 19-52 (135)
39 PF13414 TPR_11: TPR repeat; P 22.4 73 0.0016 21.0 2.0 15 192-206 18-32 (69)
40 PF08909 DUF1854: Domain of un 22.2 60 0.0013 27.1 1.8 37 171-207 17-55 (133)
41 PF08348 PAS_6: YheO-like PAS 22.1 1.3E+02 0.0027 24.0 3.6 58 61-125 46-104 (118)
42 COG1098 VacB Predicted RNA bin 22.0 19 0.00041 30.2 -1.2 35 47-83 37-78 (129)
43 smart00671 SEL1 Sel1-like repe 21.8 85 0.0018 18.2 2.0 16 191-206 19-34 (36)
44 PF13424 TPR_12: Tetratricopep 21.2 80 0.0017 21.4 2.0 15 192-206 20-34 (78)
45 smart00512 Skp1 Found in Skp1 20.4 73 0.0016 23.9 1.8 14 173-186 2-15 (104)
No 1
>PF02893 GRAM: GRAM domain; InterPro: IPR004182 The GRAM domain is found in glucosyltransferases, myotubularins and other putative membrane-associated proteins. It is normally about 70 amino acids in length. It is thought to be an intracellular protein-binding or lipid-binding signalling domain, which has an important function in membrane-associated processes. Mutations in the GRAM domain of myotubularins cause a muscle disease, which suggests that the domain is essential for the full function of the enzyme []. Myotubularin-related proteins are a large subfamily of protein tyrosine phosphatases (PTPs) that dephosphorylate D3-phosphorylated inositol lipids [].; PDB: 1M7R_B 1LW3_A 1ZVR_A 1ZSQ_A.
Probab=99.35 E-value=4.7e-13 Score=93.92 Aligned_cols=65 Identities=37% Similarity=0.580 Sum_probs=45.3
Q ss_pred eeeecccCChhhhhhhhcceeeecCCCCceeeEEEeeceeeeecCCCceeecCCCeeeeEEEEEEecccccccc
Q 028224 89 IFRQTFETVPEEQLQNSYACYLSTSAGPVMGILYVSTAKLAFCSDNPLSYKSSGQTEWSYYKVVIPLHQLRAVN 162 (212)
Q Consensus 89 iFkQ~F~~~~~EkLlKa~~CYLSTtaGPVaG~LfiSt~kvAFcSdrpl~~~~~g~~~~~yYKVvIPL~kik~vn 162 (212)
-|++.|...++|+|...+.|+|.++.+|+.|.||||+.+++|+|+.+-.-. ++++|||..|..|.
T Consensus 2 ~f~~~F~lp~~E~li~~~~c~l~~~~~~~~G~LyiT~~~lcF~s~~~~~~~---------~~~~ipl~~I~~i~ 66 (69)
T PF02893_consen 2 KFRKLFKLPEEERLIEEYSCALFKSKIPVQGRLYITNNYLCFYSNKFGSKT---------CKFVIPLSDIKSIE 66 (69)
T ss_dssp ---------TT--EEEEEEETTTEE---EEEEEEEESSEEEEEESSSSS-E----------EEEEEGGGEEEEE
T ss_pred cccccccCCCCCeEEEEEEEEEECCccceeeEEEECCCEEEEEECCCCCce---------EEEEEEhHheeEEE
Confidence 589999999999999999999999999999999999999999998665422 78999999999886
No 2
>smart00568 GRAM domain in glucosyltransferases, myotubularins and other putative membrane-associated proteins.
Probab=99.17 E-value=2.3e-11 Score=83.54 Aligned_cols=58 Identities=45% Similarity=0.717 Sum_probs=50.4
Q ss_pred CChhhhhhhhcceeeecCCCCceeeEEEeeceeeeecCCCceeecCCCeeeeEEEEEEeccccccccC
Q 028224 96 TVPEEQLQNSYACYLSTSAGPVMGILYVSTAKLAFCSDNPLSYKSSGQTEWSYYKVVIPLHQLRAVNP 163 (212)
Q Consensus 96 ~~~~EkLlKa~~CYLSTtaGPVaG~LfiSt~kvAFcSdrpl~~~~~g~~~~~yYKVvIPL~kik~vnp 163 (212)
..++|+|...|.|+|+ +.+|+.|.||||+.+++|+|+.+-... -+++|||+.|.+|+.
T Consensus 2 l~~~E~l~~~~~C~l~-~~~~~~G~lyiT~~~l~F~S~~~~~~~---------~~~~ipl~~I~~i~k 59 (61)
T smart00568 2 LPEEEKLIADYSCYLS-RDGPVQGRLYISNYRLCFRSDLPGKLT---------PKVVIPLADITRIEK 59 (61)
T ss_pred cCCCcEEEEEEEeEEC-CCccccEEEEEECCEEEEEccCCCCee---------EEEEEEHHHeeEEEE
Confidence 4689999999999999 679999999999999999997655422 189999999999874
No 3
>PF14470 bPH_3: Bacterial PH domain
Probab=95.95 E-value=0.052 Score=39.08 Aligned_cols=94 Identities=12% Similarity=0.141 Sum_probs=65.8
Q ss_pred ChhhhhhhhcceeeecCCCCceeeEEEeeceeeeecCCCceeecCCCeeeeEEEEEEeccccccccCCCCCCCCCCCeEE
Q 028224 97 VPEEQLQNSYACYLSTSAGPVMGILYVSTAKLAFCSDNPLSYKSSGQTEWSYYKVVIPLHQLRAVNPSSSRNNPAEKYVQ 176 (212)
Q Consensus 97 ~~~EkLlKa~~CYLSTtaGPVaG~LfiSt~kvAFcSdrpl~~~~~g~~~~~yYKVvIPL~kik~vnps~n~~nP~eKYIq 176 (212)
.+||+.+-...|.+-...+.-.|+|+++++||-||+-.++. + .....||+++|.+|+-.... -...|.
T Consensus 2 ~~~E~I~~~~~~~~~~~~~~~~g~l~~TnkRlif~~~~~~~-----~----~~~~~i~y~~I~~v~~~~g~---~~~~i~ 69 (96)
T PF14470_consen 2 KEDEEIEYVAVGSYNYFFTSFPGVLVLTNKRLIFYSKGMFG-----G----KKFESIPYDDITSVSFKKGI---LGGKIT 69 (96)
T ss_pred cCCCEEEEEEEEEEeecccCceeEEEEeCCEEEEEEcccCC-----C----ceEEEEEhhheEEEEEEccc---cccEEE
Confidence 57899998999988766778899999999999999874332 1 12489999999999976433 446788
Q ss_pred EEEecCceeeeeeccchHHHHHHHHHHHh
Q 028224 177 VISIDNHEFWFMGFLNYNGAVEWLQGALE 205 (212)
Q Consensus 177 IvTvD~~eFWFMGFvnY~kA~k~Lq~a~~ 205 (212)
|.| ++..+ =++.+ -.+-++-+-+.|+
T Consensus 70 i~~-~~~~~-~i~~i-~k~~~~~~~~~i~ 95 (96)
T PF14470_consen 70 IET-NGEKI-KIDNI-QKGDVKEFYEYIK 95 (96)
T ss_pred EEE-CCEEE-EEEEc-CHHHHHHHHHHHh
Confidence 888 44444 33544 3333344444443
No 4
>KOG4347 consensus GTPase-activating protein VRP [General function prediction only]
Probab=82.35 E-value=1.6 Score=44.41 Aligned_cols=97 Identities=22% Similarity=0.267 Sum_probs=75.0
Q ss_pred ecccCChhhhhhhhcceeeecCCC--CceeeEEEeeceeeeecCCCceeecCCCeeeeEEEEEEeccccccccCCCCCCC
Q 028224 92 QTFETVPEEQLQNSYACYLSTSAG--PVMGILYVSTAKLAFCSDNPLSYKSSGQTEWSYYKVVIPLHQLRAVNPSSSRNN 169 (212)
Q Consensus 92 Q~F~~~~~EkLlKa~~CYLSTtaG--PVaG~LfiSt~kvAFcSdrpl~~~~~g~~~~~yYKVvIPL~kik~vnps~n~~n 169 (212)
-.|... |+|.-.-.|=|-|..- -..|-||+||..++|.||-+=. -.+++||.-|+.|.-.. ..+
T Consensus 14 ~~Frlp--e~l~~~~~~~l~~p~s~~~~~G~l~~s~~f~cF~s~~~~~-----------c~~~~Pl~~vr~ve~~~-~ss 79 (671)
T KOG4347|consen 14 AFFRLP--EKLDGSTMCNLWTPYSRYHEQGRLFLSTNFICFASDTEWL-----------CSFITPLLAVRSVERLD-DSS 79 (671)
T ss_pred ceeecc--hhcCceeecccCCCcchhhccceeeeccceEEeecCCccc-----------ceEeeehhhhhhhhccC-ccc
Confidence 455555 9999999999999866 5899999999999999997643 24899999999988544 222
Q ss_pred CCCCeEEEEEecCceeeeeeccchHHHHHHHHH
Q 028224 170 PAEKYVQVISIDNHEFWFMGFLNYNGAVEWLQG 202 (212)
Q Consensus 170 P~eKYIqIvTvD~~eFWFMGFvnY~kA~k~Lq~ 202 (212)
--+.=|-+.|-.+-.|-|-|...=++.+.-++.
T Consensus 80 ~~~~~i~~~~~~~~~~~f~~~~~r~~~~~k~~~ 112 (671)
T KOG4347|consen 80 LFTQLISLFTSNMVGMRFGGLTERLKLLSKLHL 112 (671)
T ss_pred cchhhhHHhhcCcceEEecchhhHHHHHHHHhc
Confidence 223336678889999999999887777765553
No 5
>PF14844 PH_BEACH: PH domain associated with Beige/BEACH; PDB: 1MI1_B 1T77_C.
Probab=80.45 E-value=1.9 Score=32.43 Aligned_cols=84 Identities=18% Similarity=0.260 Sum_probs=53.9
Q ss_pred hhhhcceeeecCCCCceeeEEEeeceeeeecCCCceee--cC---CCeeeeEEEEEEeccccccccCCCCCCCCCCCeEE
Q 028224 102 LQNSYACYLSTSAGPVMGILYVSTAKLAFCSDNPLSYK--SS---GQTEWSYYKVVIPLHQLRAVNPSSSRNNPAEKYVQ 176 (212)
Q Consensus 102 LlKa~~CYLSTtaGPVaG~LfiSt~kvAFcSdrpl~~~--~~---g~~~~~yYKVvIPL~kik~vnps~n~~nP~eKYIq 176 (212)
++-++.|-+=|..+-+.|+|.|++..+.|..|..-... .. .......--..+|+.+|+.|-..--..+ +-=||
T Consensus 2 i~~s~~c~~I~~~~~~~G~l~i~~~~i~F~~~~~~~~~~~~~~~~~~~~~~~~~~~w~~~~I~~v~~RRyllr--~~AlE 79 (106)
T PF14844_consen 2 ILLSVPCELITPLDSIPGTLIITKSSIYFIPNDNSSENKISSENPSISISKPKSKRWPLSDIKEVHKRRYLLR--DTALE 79 (106)
T ss_dssp -SEEEEEEEEETTEEEEEEEEE-SSEEEEEE--TTSHHHHCS-HHHHCC---TCEEEEGGGEEEEEEEEETTE--EEEEE
T ss_pred EEEEEEEEEEEeeeeEEEEEEEeCCEEEEEECCcccccccccccccccccCCceEEEEHHHhHHHHHHHhcCc--ceEEE
Confidence 44578899999999999999999999999998222111 00 0111122235689999999985543333 33489
Q ss_pred EEEecCceeee
Q 028224 177 VISIDNHEFWF 187 (212)
Q Consensus 177 IvTvD~~eFWF 187 (212)
|.+.||..+-|
T Consensus 80 iF~~dg~s~f~ 90 (106)
T PF14844_consen 80 IFFSDGRSYFF 90 (106)
T ss_dssp EEETTS-EEEE
T ss_pred EEEcCCcEEEE
Confidence 99999988743
No 6
>KOG3473 consensus RNA polymerase II transcription elongation factor Elongin/SIII, subunit elongin C [Transcription]
Probab=68.41 E-value=2.9 Score=34.08 Aligned_cols=22 Identities=36% Similarity=0.702 Sum_probs=19.0
Q ss_pred CCCCCCCCeEEEEEecCceeee
Q 028224 166 SRNNPAEKYVQVISIDNHEFWF 187 (212)
Q Consensus 166 n~~nP~eKYIqIvTvD~~eFWF 187 (212)
--+-|+++|+.+|+-|||||-.
T Consensus 10 g~egp~~~yVkLvS~Ddhefii 31 (112)
T KOG3473|consen 10 GCEGPDSMYVKLVSSDDHEFII 31 (112)
T ss_pred CccCcchhheEeecCCCcEEEE
Confidence 3467899999999999999964
No 7
>smart00233 PH Pleckstrin homology domain. Domain commonly found in eukaryotic signalling proteins. The domain family possesses multiple functions including the abilities to bind inositol phosphates, and various proteins. PH domains have been found to possess inserted domains (such as in PLC gamma, syntrophins) and to be inserted within other domains. Mutations in Brutons tyrosine kinase (Btk) within its PH domain cause X-linked agammaglobulinaemia (XLA) in patients. Point mutations cluster into the positively charged end of the molecule around the predicted binding site for phosphatidylinositol lipids.
Probab=59.19 E-value=48 Score=21.74 Aligned_cols=43 Identities=12% Similarity=0.137 Sum_probs=28.8
Q ss_pred eEEEEEEeccccccccCCCCCC-CCCCCeEEEEEecCceeeeeec
Q 028224 147 SYYKVVIPLHQLRAVNPSSSRN-NPAEKYVQVISIDNHEFWFMGF 190 (212)
Q Consensus 147 ~yYKVvIPL~kik~vnps~n~~-nP~eKYIqIvTvD~~eFWFMGF 190 (212)
....-.|||..+ .+....+.. .+..-.+.|.+-++..+.|..-
T Consensus 42 ~~~~~~i~l~~~-~v~~~~~~~~~~~~~~f~l~~~~~~~~~f~~~ 85 (102)
T smart00233 42 YKPKGSIDLSGI-TVREAPDPDSAKKPHCFEIKTADRRSYLLQAE 85 (102)
T ss_pred CCCceEEECCcC-EEEeCCCCccCCCceEEEEEecCCceEEEEcC
Confidence 455678999998 444444332 4556778888877778888753
No 8
>PF08567 TFIIH_BTF_p62_N: TFIIH p62 subunit, N-terminal domain; InterPro: IPR013876 The N-terminal region of the TFIIH basal transcription factor complex p62 subunit (BTF2-p62) forms an interaction with the 3' endonuclease XPG, which is essential for activity. The 3' endonuclease XPG is a major component of the nucleotide excision repair machinery. The structure of the N-terminal region reveals that it adopts a pleckstrin homology (PH) fold [, ]. ; PDB: 1Y5O_A 2LOX_A 2GS0_A 2L2I_A 2K2U_A 1PFJ_A 2RNR_B.
Probab=59.00 E-value=34 Score=25.54 Aligned_cols=53 Identities=19% Similarity=0.403 Sum_probs=34.0
Q ss_pred eeeEEEeece--eeeecCCCceeecCCCeeeeEEEEEEeccccccccCCCCCCCCCCCeEEEEEecC
Q 028224 118 MGILYVSTAK--LAFCSDNPLSYKSSGQTEWSYYKVVIPLHQLRAVNPSSSRNNPAEKYVQVISIDN 182 (212)
Q Consensus 118 aG~LfiSt~k--vAFcSdrpl~~~~~g~~~~~yYKVvIPL~kik~vnps~n~~nP~eKYIqIvTvD~ 182 (212)
.|+|+|+..+ +.+.-+ +.++.. .|.||+..|+.-..+ .+..+.==++|+-.|+
T Consensus 13 ~G~L~l~~d~~~~~W~~~------~~~~~~----~v~i~~~~I~~lq~S--p~~s~Kv~Lki~~~~~ 67 (79)
T PF08567_consen 13 DGTLTLTEDRKPLEWTPK------ASDGPS----TVSIPLNDIKNLQQS--PEGSPKVMLKIVLKDD 67 (79)
T ss_dssp EEEEEEETTCSSEEEEEC------CSSSSS----EEEEETTTEEEEEE----TTSSTEEEEEEETTS
T ss_pred CcEEEEecCCceEEEeec------CCCCCc----eEEEEHHHhhhhccC--CCCCcceEEEEEEecC
Confidence 5999999866 554432 112222 599999999986644 3444555678887766
No 9
>KOG4471 consensus Phosphatidylinositol 3-phosphate 3-phosphatase myotubularin MTM1 [Lipid transport and metabolism; Intracellular trafficking, secretion, and vesicular transport]
Probab=57.51 E-value=9.1 Score=39.31 Aligned_cols=64 Identities=23% Similarity=0.367 Sum_probs=47.0
Q ss_pred eeecccCChhhhhhhhcceeeecCCCCceeeEEEeeceeeeecCCCceeecCCCeeeeEEEEEEeccccccccCCC
Q 028224 90 FRQTFETVPEEQLQNSYACYLSTSAGPVMGILYVSTAKLAFCSDNPLSYKSSGQTEWSYYKVVIPLHQLRAVNPSS 165 (212)
Q Consensus 90 FkQ~F~~~~~EkLlKa~~CYLSTtaGPVaG~LfiSt~kvAFcSdrpl~~~~~g~~~~~yYKVvIPL~kik~vnps~ 165 (212)
..--|...|||.+..-- |..-=.||+.|+|.||+-|+=|-|.-. +.+|-+-|||.-|.+|+--.
T Consensus 30 ~~~~~~~L~GE~i~~~~--y~c~f~G~~~g~l~lsNyRl~fks~~t----------~~~~~~~VPLg~Ie~vek~~ 93 (717)
T KOG4471|consen 30 LQVPFPLLPGESIIDEK--YICPFLGAVDGTLALSNYRLYFKSKET----------DPPFVLDVPLGVIERVEKRG 93 (717)
T ss_pred ccCcccccCCcccccce--ecccccccccceEEeeeeEEEEEeccC----------CCceeEeechhhhhhhhhcC
Confidence 45567788999884322 555557899999999999998876421 12677889999888887543
No 10
>PF11605 Vps36_ESCRT-II: Vacuolar protein sorting protein 36 Vps36; InterPro: IPR021648 Vps36 is a subunit of ESCRT-II, a protein involved in driving protein sorting from endosomes to lysosomes. The GLUE domain of Vps36 allows for a tight interaction to occur between the protein and Vps28, a subunit of ESCRT-I. This interaction is critical for ubiquitinated cargo progression from early to late endosomes []. ; PDB: 2HTH_B 2DX5_A 2CAY_B.
Probab=54.04 E-value=16 Score=28.04 Aligned_cols=40 Identities=23% Similarity=0.396 Sum_probs=27.3
Q ss_pred eeeEEEeeceeeeecCCCceeecCCCeeeeEEEEEEeccccccccCCCCC
Q 028224 118 MGILYVSTAKLAFCSDNPLSYKSSGQTEWSYYKVVIPLHQLRAVNPSSSR 167 (212)
Q Consensus 118 aG~LfiSt~kvAFcSdrpl~~~~~g~~~~~yYKVvIPL~kik~vnps~n~ 167 (212)
.|.||++|.||.+--|....- .-+.|||+.|..+.-....
T Consensus 37 ~G~l~LTsHRliw~d~~~~~~----------~s~~l~L~~i~~~e~~~gf 76 (89)
T PF11605_consen 37 NGRLYLTSHRLIWVDDSDPSK----------HSIALPLSLISHIEYSAGF 76 (89)
T ss_dssp CEEEEEESSEEEEEESSGHCH----------H-EEEEGGGEEEEEEE-ST
T ss_pred CCEEEEEeeEEEEEcCCCCce----------eEEEEEchHeEEEEEEccc
Confidence 699999999999975543321 1288899888877444333
No 11
>PF00169 PH: PH domain; InterPro: IPR001849 The pleckstrin homology (PH) domain is a domain of about 100 residues that occurs in a wide range of proteins involved in intracellular signalling or as constituents of the cytoskeleton [, , , , , , ]. The pleckstrin homology domain commonly found in eukaryotic signalling proteins. The domain family possesses multiple functions including the abilities to bind inositol phosphates, and various proteins. PH domains have been found to possess inserted domains (such as in PLC gamma, syntrophins) and to be inserted within other domains. Mutations in Brutons tyrosine kinase (Btk) within its PH domain cause X-linked agammaglobulinaemia (XLA) in patients. Point mutations cluster into the positively charged end of the molecule around the predicted binding site for phosphatidylinositol lipids. The 3D structure of several PH domains has been determined []. All known cases have a common structure consisting of two perpendicular anti-parallel beta sheets, followed by a C-terminal amphipathic helix. The loops connecting the beta-strands differ greatly in length, making the PH domain relatively difficult to detect. There are no totally invariant residues within the PH domain. Proteins reported to contain one more PH domains belong to the following families: Pleckstrin, the protein where this domain was first detected, is the major substrate of protein kinase C in platelets. Pleckstrin is one of the rare proteins to contains two PH domains. Ser/Thr protein kinases such as the Akt/Rac family, the beta-adrenergic receptor kinases, the mu isoform of PKC and the trypanosomal NrkA family. Tyrosine protein kinases belonging to the Btk/Itk/Tec subfamily. Insulin Receptor Substrate 1 (IRS-1). Regulators of small G-proteins like guanine nucleotide releasing factor GNRP (Ras-GRF) (which contains 2 PH domains), guanine nucleotide exchange proteins like vav, dbl, SoS and Saccharomyces cerevisiae CDC24, GTPase activating proteins like rasGAP and BEM2/IPL2, and the human break point cluster protein bcr. Cytoskeletal proteins such as dynamin (see IPR001401 from INTERPRO), Caenorhabditis elegans kinesin-like protein unc-104 (see IPR001752 from INTERPRO), spectrin beta-chain, syntrophin (2 PH domains) and S. cerevisiae nuclear migration protein NUM1. Mammalian phosphatidylinositol-specific phospholipase C (PI-PLC) (see IPR000909 from INTERPRO) isoforms gamma and delta. Isoform gamma contains two PH domains, the second one is split into two parts separated by about 400 residues. Oxysterol binding proteins OSBP, S. cerevisiae OSH1 and YHR073w. Mouse protein citron, a putative rho/rac effector that binds to the GTP-bound forms of rho and rac. Several S. cerevisiae proteins involved in cell cycle regulation and bud formation like BEM2, BEM3, BUD4 and the BEM1-binding proteins BOI2 (BEB1) and BOI1 (BOB1). C. elegans protein MIG-10. C. elegans hypothetical proteins C04D8.1, K06H7.4 and ZK632.12. S. cerevisiae hypothetical proteins YBR129c and YHR155w. ; GO: 0005515 protein binding; PDB: 1DYN_B 2DYN_B 3SNH_A 3ZYS_C 1X05_A 2I5F_A 1ZM0_B 1XX0_A 2I5C_C 3A8P_D ....
Probab=53.65 E-value=38 Score=23.01 Aligned_cols=62 Identities=24% Similarity=0.304 Sum_probs=40.5
Q ss_pred eeeeecCCCceee-cCCCeeeeEEEEEEeccccccccCCCCC----CCCCCCeEEEEEecCceeeeee
Q 028224 127 KLAFCSDNPLSYK-SSGQTEWSYYKVVIPLHQLRAVNPSSSR----NNPAEKYVQVISIDNHEFWFMG 189 (212)
Q Consensus 127 kvAFcSdrpl~~~-~~g~~~~~yYKVvIPL~kik~vnps~n~----~nP~eKYIqIvTvD~~eFWFMG 189 (212)
|.++-.+.-|.+. ++.......++-+|||..+ .|.+..+. ..+.+..++|.+.++-.|+|..
T Consensus 20 r~~vL~~~~L~~~~~~~~~~~~~~~~~i~l~~~-~v~~~~~~~~~~~~~~~~~f~i~~~~~~~~~~~~ 86 (104)
T PF00169_consen 20 RYFVLRDSYLLYYKSSKDKSDSKPKGSIPLDDC-TVRPDPSSDFLSNKKRKNCFEITTPNGKSYLFSA 86 (104)
T ss_dssp EEEEEETTEEEEESSTTTTTESSESEEEEGTTE-EEEEETSSTSTSTSSSSSEEEEEETTSEEEEEEE
T ss_pred EEEEEECCEEEEEecCccccceeeeEEEEecCc-eEEEcCccccccccCCCcEEEEEeCCCcEEEEEc
Confidence 3333344444432 2332444566789999999 77666665 3778888899888887888764
No 12
>PF00515 TPR_1: Tetratricopeptide repeat; InterPro: IPR001440 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]. It mediates protein-protein interactions and the assembly of multiprotein complexes []. The TPR motif consists of 3-16 tandem-repeats of 34 amino acids residues, although individual TPR motifs can be dispersed in the protein sequence. Sequence alignment of the TPR domains reveals a consensus sequence defined by a pattern of small and large amino acids. TPR motifs have been identified in various different organisms, ranging from bacteria to humans. Proteins containing TPRs are involved in a variety of biological processes, such as cell cycle regulation, transcriptional control, mitochondrial and peroxisomal protein transport, neurogenesis and protein folding. The X-ray structure of a domain containing three TPRs from protein phosphatase 5 revealed that TPR adopts a helix-turn-helix arrangement, with adjacent TPR motifs packing in a parallel fashion, resulting in a spiral of repeating anti-parallel alpha-helices []. The two helices are denoted helix A and helix B. The packing angle between helix A and helix B is ~24 degrees; within a single TPR and generates a right-handed superhelical shape. Helix A interacts with helix B and with helix A' of the next TPR. Two protein surfaces are generated: the inner concave surface is contributed to mainly by residue on helices A, and the other surface presents residues from both helices A and B. ; GO: 0005515 protein binding; PDB: 3SF4_C 2LNI_A 1ELW_A 2C0M_A 1FCH_B 3R9A_B 2J9Q_A 2C0L_A 1KT1_A 3FWV_A ....
Probab=53.37 E-value=13 Score=21.86 Aligned_cols=15 Identities=47% Similarity=0.722 Sum_probs=12.8
Q ss_pred chHHHHHHHHHHHhh
Q 028224 192 NYNGAVEWLQGALEA 206 (212)
Q Consensus 192 nY~kA~k~Lq~a~~~ 206 (212)
+|++|++++++||+.
T Consensus 16 ~~~~A~~~~~~al~~ 30 (34)
T PF00515_consen 16 DYEEALEYYQRALEL 30 (34)
T ss_dssp -HHHHHHHHHHHHHH
T ss_pred CchHHHHHHHHHHHH
Confidence 689999999999974
No 13
>smart00683 DM16 Repeats in sea squirt COS41.4, worm R01H10.6, fly CG1126 etc.
Probab=52.94 E-value=20 Score=25.77 Aligned_cols=37 Identities=22% Similarity=0.511 Sum_probs=27.4
Q ss_pred CCCceeeEEEeeceeeeecCCCceeecCCCeeeeEEEEEEecccccccc
Q 028224 114 AGPVMGILYVSTAKLAFCSDNPLSYKSSGQTEWSYYKVVIPLHQLRAVN 162 (212)
Q Consensus 114 aGPVaG~LfiSt~kvAFcSdrpl~~~~~g~~~~~yYKVvIPL~kik~vn 162 (212)
.| --|+|++++-|+...|+.--. +-|.||.-+|..++
T Consensus 17 ~G-~~G~l~VTNlRiiW~s~~~~~-----------~NlSIgy~~i~~i~ 53 (55)
T smart00683 17 NG-DLGVFFVTNLRLVWHSDTNPR-----------FNISVGYLQITNVR 53 (55)
T ss_pred CC-CeeEEEEEeeEEEEEeCCCCc-----------eEEEEcceeEEEEE
Confidence 45 359999999999999987544 44677776666553
No 14
>PF07719 TPR_2: Tetratricopeptide repeat; InterPro: IPR013105 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]. It mediates protein-protein interactions and the assembly of multiprotein complexes []. The TPR motif consists of 3-16 tandem-repeats of 34 amino acids residues, although individual TPR motifs can be dispersed in the protein sequence. Sequence alignment of the TPR domains reveals a consensus sequence defined by a pattern of small and large amino acids. TPR motifs have been identified in various different organisms, ranging from bacteria to humans. Proteins containing TPRs are involved in a variety of biological processes, such as cell cycle regulation, transcriptional control, mitochondrial and peroxisomal protein transport, neurogenesis and protein folding. This repeat includes outlying Tetratricopeptide-like repeats (TPR) that are not matched by IPR001440 from INTERPRO.; PDB: 1XNF_B 3Q15_A 4ABN_A 1OUV_A 3U4T_A 3MA5_C 2KCV_A 2KCL_A 2XEV_A 3NF1_A ....
Probab=52.93 E-value=13 Score=21.38 Aligned_cols=15 Identities=47% Similarity=0.806 Sum_probs=12.8
Q ss_pred chHHHHHHHHHHHhh
Q 028224 192 NYNGAVEWLQGALEA 206 (212)
Q Consensus 192 nY~kA~k~Lq~a~~~ 206 (212)
+|++|.+++++|++.
T Consensus 16 ~~~~A~~~~~~al~l 30 (34)
T PF07719_consen 16 NYEEAIEYFEKALEL 30 (34)
T ss_dssp -HHHHHHHHHHHHHH
T ss_pred CHHHHHHHHHHHHHH
Confidence 689999999999975
No 15
>PF08498 Sterol_MT_C: Sterol methyltransferase C-terminal; InterPro: IPR013705 This domain is found to the C terminus of a methyltransferase domain (IPR013216 from INTERPRO) in fungal and plant sterol methyltransferases []. ; GO: 0008168 methyltransferase activity, 0006694 steroid biosynthetic process
Probab=51.45 E-value=6 Score=29.40 Aligned_cols=46 Identities=20% Similarity=0.198 Sum_probs=38.3
Q ss_pred hccccccccceecccCcchHHHHHhhhhhhhhhhhcCCcceeeeec
Q 028224 48 KAEDLAGNTWQHLKTSPSFADAAMGRIAQGTKVLAEGGYEKIFRQT 93 (212)
Q Consensus 48 kae~~a~~i~~hlk~gps~seta~GKlslGakil~~GG~ekiFkQ~ 93 (212)
..-...=++-|-|++.|+=+-.+.--|..+|.-|.+||-++||--.
T Consensus 13 ~~t~~~v~~LE~lglAPkGt~~v~~~L~~aa~~Lv~GG~~giFTPM 58 (67)
T PF08498_consen 13 FITHALVRVLEFLGLAPKGTSKVAEMLAKAADGLVEGGKTGIFTPM 58 (67)
T ss_pred HHHHHHHHHHHHHCcCCCcHHHHHHHHHHHHHHHHHhhhcCCcCch
Confidence 3334444566889999999999999999999999999999999643
No 16
>PF12068 DUF3548: Domain of unknown function (DUF3548); InterPro: IPR021935 This presumed domain is functionally uncharacterised. This domain is found in eukaryotes and is typically between 184 to 216 amino acids in length. The domain is found associated with PF00566 from PFAM and at the N terminus of GYP7 proteins.
Probab=49.19 E-value=19 Score=31.85 Aligned_cols=57 Identities=19% Similarity=0.294 Sum_probs=41.3
Q ss_pred eeeeEEEEEEeccccccccCCCCCCCC--CCCeEEEEEecCceeeeeeccchHHHHHHHHHHHhh
Q 028224 144 TEWSYYKVVIPLHQLRAVNPSSSRNNP--AEKYVQVISIDNHEFWFMGFLNYNGAVEWLQGALEA 206 (212)
Q Consensus 144 ~~~~yYKVvIPL~kik~vnps~n~~nP--~eKYIqIvTvD~~eFWFMGFvnY~kA~k~Lq~a~~~ 206 (212)
..++.|.+.|||..|+++. +.+| .-.||.++|-||.-| --+--++.-.+.|-++|++
T Consensus 107 ~~~~~~aFsv~lsdl~Si~----~~~p~~G~~~lv~~~kdG~~~--p~L~Fh~gg~~~fl~~L~~ 165 (213)
T PF12068_consen 107 SSRSSYAFSVPLSDLKSIR----VSKPSLGWWYLVFILKDGTSL--PPLHFHDGGSKEFLKSLQR 165 (213)
T ss_pred CCCcceEEEEEhhheeeEE----ecCCCCCceEEEEEecCCCcc--CceEEecCCHHHHHHHHHh
Confidence 4567889999999999999 5556 668999999999654 3333355555555555554
No 17
>PF13181 TPR_8: Tetratricopeptide repeat; PDB: 3GW4_B 3MA5_C 2KCV_A 2KCL_A 3FP3_A 3LCA_A 3FP4_A 3FP2_A 1W3B_B 1ELW_A ....
Probab=47.58 E-value=18 Score=21.03 Aligned_cols=15 Identities=40% Similarity=0.742 Sum_probs=13.4
Q ss_pred chHHHHHHHHHHHhh
Q 028224 192 NYNGAVEWLQGALEA 206 (212)
Q Consensus 192 nY~kA~k~Lq~a~~~ 206 (212)
+|++|+++++++++-
T Consensus 16 ~~~~A~~~~~~a~~~ 30 (34)
T PF13181_consen 16 DYEEALEYFEKALEL 30 (34)
T ss_dssp SHHHHHHHHHHHHHH
T ss_pred CHHHHHHHHHHHHhh
Confidence 689999999999875
No 18
>KOG2415 consensus Electron transfer flavoprotein ubiquinone oxidoreductase [Energy production and conversion]
Probab=45.33 E-value=7.5 Score=39.00 Aligned_cols=45 Identities=38% Similarity=0.633 Sum_probs=34.7
Q ss_pred cccCcchHHHHHh--hhhhhhhhhhcCCcceeeeecccCChhhhhhhhcc
Q 028224 60 LKTSPSFADAAMG--RIAQGTKVLAEGGYEKIFRQTFETVPEEQLQNSYA 107 (212)
Q Consensus 60 lk~gps~seta~G--KlslGakil~~GG~ekiFkQ~F~~~~~EkLlKa~~ 107 (212)
+|.-|+++....| +|..|||.|-|||+..|=|-.| ||--|.-.++
T Consensus 347 ~K~hP~i~~vleGgk~i~YgARaLNEGGfQsiPkl~F---PGG~liGcSa 393 (621)
T KOG2415|consen 347 MKHHPSISKVLEGGKRIAYGARALNEGGFQSIPKLVF---PGGALIGCSA 393 (621)
T ss_pred hhcCcchhhhhcCcceeeehhhhhccCCcccCccccc---CCceEeeccc
Confidence 4566999999988 7999999999999999887665 4444443333
No 19
>PF03931 Skp1_POZ: Skp1 family, tetramerisation domain; InterPro: IPR016073 SKP1 (together with SKP2) was identified as an essential component of the cyclin A-CDK2 S phase kinase complex []. It was found to bind several F-box containing proteins (e.g., Cdc4, Skp2, cyclin F) and to be involved in the ubiquitin protein degradation pathway. A yeast homologue of SKP1 (P52286) was identified in the centromere bound kinetochore complex [] and is also involved in the ubiquitin pathway []. In Dictyostelium discoideum (Slime mold) FP21 was shown to be glycosylated in the cytosol and has homology to SKP1 []. This entry represents a POZ domain with a core structure consisting of beta(2)/alpha(2)/beta(2)/alpha(2) in two layers, alpha/beta. This domain is found at the N-terminal of SKP1 proteins [] as well as in subunit D of the centromere DNA-binding protein complex Cbf3 []. ; GO: 0006511 ubiquitin-dependent protein catabolic process; PDB: 1LM8_C 2XAI_E 1VCB_E 3ZRC_K 3ZRF_E 3DCG_B 2C9W_C 1LQB_B 2IZV_C 1HV2_A ....
Probab=43.05 E-value=16 Score=25.46 Aligned_cols=14 Identities=43% Similarity=0.695 Sum_probs=11.8
Q ss_pred CeEEEEEecCceee
Q 028224 173 KYVQVISIDNHEFW 186 (212)
Q Consensus 173 KYIqIvTvD~~eFW 186 (212)
+||.++|-||++|=
T Consensus 1 ~~v~L~SsDg~~f~ 14 (62)
T PF03931_consen 1 MYVKLVSSDGQEFE 14 (62)
T ss_dssp -EEEEEETTSEEEE
T ss_pred CEEEEEcCCCCEEE
Confidence 58999999999983
No 20
>PF07289 DUF1448: Protein of unknown function (DUF1448); InterPro: IPR006606 This entry represents the Bardet-Biedl syndrome 5 protein (BBL5). It consists of eukaryotic proteins of around 375 residues in length.
Probab=42.08 E-value=23 Score=33.62 Aligned_cols=83 Identities=23% Similarity=0.461 Sum_probs=59.3
Q ss_pred cccCChhhhhhhhc--ceeeecCCCCceeeEEEeeceeeeecCCCceeecCCCeeeeEEEEEEeccccccccCCCCCCCC
Q 028224 93 TFETVPEEQLQNSY--ACYLSTSAGPVMGILYVSTAKLAFCSDNPLSYKSSGQTEWSYYKVVIPLHQLRAVNPSSSRNNP 170 (212)
Q Consensus 93 ~F~~~~~EkLlKa~--~CYLSTtaGPVaG~LfiSt~kvAFcSdrpl~~~~~g~~~~~yYKVvIPL~kik~vnps~n~~nP 170 (212)
.+-..|+|++-... .+=||+--|=+ |+++|++-||..|+|---. |.|.||.=+|+++.-..++.-+
T Consensus 148 ~L~lLp~E~v~~~~~gVwnls~dqGnL-GtfivTNvRiVW~A~~ne~-----------fNVSiPylqi~~i~ir~SKfG~ 215 (339)
T PF07289_consen 148 QLKLLPQEQVYSRVNGVWNLSSDQGNL-GTFIVTNVRIVWFADMNES-----------FNVSIPYLQIKSIRIRDSKFGP 215 (339)
T ss_pred eEeeCCccEEeeccCCEEEcccCCCce-eEEEEeeeEEEEEccCCcc-----------ccccchHhhheeeeeeccccce
Confidence 44567777776654 37788888887 9999999999999997655 4488999999999866654444
Q ss_pred CCCeEEEEEecCceeeeeec
Q 028224 171 AEKYVQVISIDNHEFWFMGF 190 (212)
Q Consensus 171 ~eKYIqIvTvD~~eFWFMGF 190 (212)
+ +-|-|....-=.-.||
T Consensus 216 a---LVieT~~~sGgYVLGF 232 (339)
T PF07289_consen 216 A---LVIETSESSGGYVLGF 232 (339)
T ss_pred E---EEEEEeccCCcEEEEE
Confidence 3 4444444444445566
No 21
>PF01845 CcdB: CcdB protein; InterPro: IPR002712 CcdB protein is a topoisomerase poison from Escherichia coli []. It is responsible for killing plasmid-free segregants, and interferes with the activity of DNA gyrase. It acts to inhibit partitioning of the chromosomal DNA.; GO: 0008657 DNA topoisomerase (ATP-hydrolyzing) inhibitor activity, 0006276 plasmid maintenance; PDB: 2VUB_G 1VUB_D 3VUB_A 1X75_C 3HPW_B 4VUB_A 4ELZ_D 2KMT_B 4ELY_C 3JRZ_A ....
Probab=40.03 E-value=44 Score=26.32 Aligned_cols=35 Identities=31% Similarity=0.571 Sum_probs=24.4
Q ss_pred EEEEEEecccccccc-CCCCCCCCCCCeEEEEEecCceeeee
Q 028224 148 YYKVVIPLHQLRAVN-PSSSRNNPAEKYVQVISIDNHEFWFM 188 (212)
Q Consensus 148 yYKVvIPL~kik~vn-ps~n~~nP~eKYIqIvTvD~~eFWFM 188 (212)
...|||||-...... +...+-|| ++++||.+|-.|
T Consensus 30 ~tRvVvPL~~~~~~~~~~~~~L~P------~~~i~g~~~vl~ 65 (102)
T PF01845_consen 30 NTRVVVPLLPLSNLPGKPPRRLNP------VFEIEGEDYVLM 65 (102)
T ss_dssp SEEEEEEEEEGGGTSSTS-TTTS-------EEEETTEEEEE-
T ss_pred CcEEEEecCchhhcCcccCCceee------EEEECCEEEEEE
Confidence 356999999988776 44445555 789999998654
No 22
>PF10882 bPH_5: Bacterial PH domain; InterPro: IPR020482 This entry contains membrane proteins with no known function.
Probab=39.23 E-value=25 Score=25.85 Aligned_cols=24 Identities=25% Similarity=0.585 Sum_probs=20.3
Q ss_pred eeeEEEEEEeccccccccCCCCCC
Q 028224 145 EWSYYKVVIPLHQLRAVNPSSSRN 168 (212)
Q Consensus 145 ~~~yYKVvIPL~kik~vnps~n~~ 168 (212)
.|..+++.||+++|..|....+..
T Consensus 13 ~~~~~~~~Ip~~~I~~v~~~~~~~ 36 (100)
T PF10882_consen 13 RWPFGKITIPLAEIESVELVDDLP 36 (100)
T ss_pred EEccccEEEEHHHcEEEEeccccC
Confidence 677889999999999998776555
No 23
>PRK13708 plasmid maintenance protein CcdB; Provisional
Probab=38.93 E-value=42 Score=26.74 Aligned_cols=33 Identities=27% Similarity=0.531 Sum_probs=25.3
Q ss_pred EEEEeccccccccCCC-CCCCCCCCeEEEEEecCceeeee
Q 028224 150 KVVIPLHQLRAVNPSS-SRNNPAEKYVQVISIDNHEFWFM 188 (212)
Q Consensus 150 KVvIPL~kik~vnps~-n~~nP~eKYIqIvTvD~~eFWFM 188 (212)
+|||||.......+.. .+-|| ++++||.+|--|
T Consensus 31 RvViPL~~~~~~~~~~~~rL~P------~~~I~g~~~vl~ 64 (101)
T PRK13708 31 RMVIPLASARLLSDKVSRELYP------VVHIGDESYRLM 64 (101)
T ss_pred eEEEeCccHHHCCCCcCCCcCc------eEEECCeEEEEE
Confidence 5999999888877544 44555 788999998754
No 24
>smart00028 TPR Tetratricopeptide repeats. Repeats present in 4 or more copies in proteins. Contain a minimum of 34 amino acids each and self-associate via a "knobs and holes" mechanism.
Probab=37.73 E-value=31 Score=17.37 Aligned_cols=15 Identities=40% Similarity=0.727 Sum_probs=12.4
Q ss_pred chHHHHHHHHHHHhh
Q 028224 192 NYNGAVEWLQGALEA 206 (212)
Q Consensus 192 nY~kA~k~Lq~a~~~ 206 (212)
+|++|..++++++..
T Consensus 16 ~~~~a~~~~~~~~~~ 30 (34)
T smart00028 16 DYDEALEYYEKALEL 30 (34)
T ss_pred hHHHHHHHHHHHHcc
Confidence 578999999988864
No 25
>PF13176 TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_A 3RO2_A.
Probab=37.32 E-value=30 Score=21.29 Aligned_cols=14 Identities=36% Similarity=0.717 Sum_probs=11.6
Q ss_pred chHHHHHHHHHHHh
Q 028224 192 NYNGAVEWLQGALE 205 (212)
Q Consensus 192 nY~kA~k~Lq~a~~ 205 (212)
+|++|..++++|+.
T Consensus 14 ~~~~Ai~~y~~aL~ 27 (36)
T PF13176_consen 14 DYEKAIEYYEQALA 27 (36)
T ss_dssp -HHHHHHHHHHHHH
T ss_pred CHHHHHHHHHHHHH
Confidence 69999999999764
No 26
>cd00900 PH-like Pleckstrin homology-like domain. Pleckstrin homology-like domain. This family includes the PH domain, both the Shc-like and IRS-like PTB domains, the ran-binding domain, the EVH1 domain, a domain in neurobeachin and the third domain of FERM. All of these domains have a PH fold, but lack significant sequence similarity. They are generally involved in targeting to protein to the appropriate cellular location or interacting with a binding partner. The PH domain is commonly found in eukaryotic signaling proteins. This domain family possesses multiple functions including the ability to bind inositol phosphates and to other proteins.
Probab=37.29 E-value=1.2e+02 Score=19.86 Aligned_cols=64 Identities=13% Similarity=0.169 Sum_probs=39.5
Q ss_pred CCceeeEEEeeceeeeecCCCceeecCCCeeeeEEEEEEeccccccccCCCCCCCCCCCeEEEEEec--Cceeeeee
Q 028224 115 GPVMGILYVSTAKLAFCSDNPLSYKSSGQTEWSYYKVVIPLHQLRAVNPSSSRNNPAEKYVQVISID--NHEFWFMG 189 (212)
Q Consensus 115 GPVaG~LfiSt~kvAFcSdrpl~~~~~g~~~~~yYKVvIPL~kik~vnps~n~~nP~eKYIqIvTvD--~~eFWFMG 189 (212)
..--..++|+...+-++++.+-..... -++||..+. +....... -...-++|++.+ +..++|.-
T Consensus 18 ~w~~~~~~l~~~~l~~~~~~~~~~~~~---------~~~~l~~~~-v~~~~~~~-~~~~~F~i~~~~~~~~~~~~~~ 83 (99)
T cd00900 18 RWKRRWFFLFDDGLLLYKSDDKKEIKP---------GSIPLSEIS-VEEDPDGS-DDPNCFAIVTKDRGRRVFVFQA 83 (99)
T ss_pred CceeeEEEEECCEEEEEEcCCCCcCCC---------CEEEccceE-EEECCCCC-CCCceEEEECCCCCcEEEEEEc
Confidence 344455677777777777665432111 568888888 66554322 234678888886 77777754
No 27
>cd00821 PH Pleckstrin homology (PH) domain. Pleckstrin homology (PH) domain. PH domains are only found in eukaryotes. They share little sequence conservation, but all have a common fold, which is electrostatically polarized. PH domains also have diverse functions. They are often involved in targeting proteins to the plasma membrane, but few display strong specificity in lipid binding. Any specificity is usually determined by loop regions or insertions in the N-terminus of the domain, which are not conserved across all PH domains. PH domains are found in cellular signaling proteins such as serine/threonine kinase, tyrosine kinases, regulators of G-proteins, endocytotic GTPases, adaptors, as well as cytoskeletal associated molecules and in lipid associated enzymes.
Probab=36.12 E-value=1.2e+02 Score=19.61 Aligned_cols=59 Identities=14% Similarity=0.139 Sum_probs=33.6
Q ss_pred EEEeeceeeeecCCCceeecCCCeeeeEEEEEEeccccccccCCCCCCCCCCCeEEEEEecCceeeee
Q 028224 121 LYVSTAKLAFCSDNPLSYKSSGQTEWSYYKVVIPLHQLRAVNPSSSRNNPAEKYVQVISIDNHEFWFM 188 (212)
Q Consensus 121 LfiSt~kvAFcSdrpl~~~~~g~~~~~yYKVvIPL~kik~vnps~n~~nP~eKYIqIvTvD~~eFWFM 188 (212)
+++....+.+|++.+-.. ....+-+|||... .+....+.. ..+..++|++.++..+.|.
T Consensus 21 ~~L~~~~l~~~~~~~~~~-------~~~~~~~i~l~~~-~v~~~~~~~-~~~~~f~i~~~~~~~~~~~ 79 (96)
T cd00821 21 FVLFNDLLLYYKKKSSKK-------SYKPKGSIPLSGA-EVEESPDDS-GRKNCFEIRTPDGRSYLLQ 79 (96)
T ss_pred EEEECCEEEEEECCCCCc-------CCCCcceEEcCCC-EEEECCCcC-CCCcEEEEecCCCcEEEEE
Confidence 444455666665544321 2233467788873 333322221 3568889888887888876
No 28
>TIGR02681 phage_pRha phage regulatory protein, rha family. Members of this protein family are found in temperate phage and bacterial prophage regions. Members include the product of the rha gene of the lambdoid phage phi-80, a late operon gene. The presence of this gene interferes with infection of bacterial strains that lack integration host factor (IHF), which regulates the rha gene. It is suggested that pRha is a phage regulatory protein.
Probab=35.58 E-value=40 Score=26.59 Aligned_cols=31 Identities=13% Similarity=0.199 Sum_probs=26.0
Q ss_pred EEEecCceeeeeec---------cchHHHHHHHHHHHhhh
Q 028224 177 VISIDNHEFWFMGF---------LNYNGAVEWLQGALEAR 207 (212)
Q Consensus 177 IvTvD~~eFWFMGF---------vnY~kA~k~Lq~a~~~~ 207 (212)
.+|-||+.+--||| ..|-++|+.+++.|++.
T Consensus 68 ~ltkdgf~lLvmg~tg~ka~~fK~~yI~~Fn~ME~~l~~~ 107 (108)
T TIGR02681 68 NLTEDGFTIVAMGYTTPKAMKMKEKFIKEFNEMKEHLQKV 107 (108)
T ss_pred EEcCCceEEEEecCChHHHHHHHHHHHHHHHHHHHHHhhC
Confidence 35999999999999 45888899999888753
No 29
>PF08238 Sel1: Sel1 repeat; InterPro: IPR006597 Sel1-like repeats are tetratricopeptide repeat sequences originally identified in a Caenorhabditis elegans receptor molecule which is a key negative regulator of the Notch pathway []. Mammalian homologues have since been identified although these mainly pancreatic proteins have yet to have a function assigned.; PDB: 2XM6_A 3RJV_A 1OUV_A 1KLX_A.
Probab=34.54 E-value=37 Score=20.18 Aligned_cols=16 Identities=31% Similarity=0.665 Sum_probs=13.7
Q ss_pred chHHHHHHHHHHHhhh
Q 028224 192 NYNGAVEWLQGALEAR 207 (212)
Q Consensus 192 nY~kA~k~Lq~a~~~~ 207 (212)
++++|+++|++|..+.
T Consensus 23 d~~~A~~~~~~Aa~~g 38 (39)
T PF08238_consen 23 DYEKAFKWYEKAAEQG 38 (39)
T ss_dssp HHHHHHHHHHHHHHTT
T ss_pred cccchHHHHHHHHHcc
Confidence 6899999999998763
No 30
>KOG1032 consensus Uncharacterized conserved protein, contains GRAM domain [Function unknown]
Probab=34.08 E-value=64 Score=32.49 Aligned_cols=92 Identities=20% Similarity=0.357 Sum_probs=62.6
Q ss_pred CChhhhhhhhcceeeecCCCCceeeEEEeeceeeeecCCCceeecCCCeeeeEEEEEEeccccccccCCCCCCCCCCCeE
Q 028224 96 TVPEEQLQNSYACYLSTSAGPVMGILYVSTAKLAFCSDNPLSYKSSGQTEWSYYKVVIPLHQLRAVNPSSSRNNPAEKYV 175 (212)
Q Consensus 96 ~~~~EkLlKa~~CYLSTtaGPVaG~LfiSt~kvAFcSdrpl~~~~~g~~~~~yYKVvIPL~kik~vnps~n~~nP~eKYI 175 (212)
+.++|+|+..+.|+|.-.-.+ =|=+|||...|+|-|.- -|- --|||||++.|.-+..... .--..-=|
T Consensus 117 ~~~~~~l~~~~~cal~reill-QGrmyis~~~icF~s~i------~gw----~~~~vIpf~eI~~ikk~~t-ag~fpn~i 184 (590)
T KOG1032|consen 117 VPDPEILLTDYSCALQREILL-QGRMYISEEHICFNSNI------FGW----ETKVVIPFDEITLIKKTKT-AGIFPNAI 184 (590)
T ss_pred CCCcceeeeecchhhcccccc-ccccccccceeeecccc------cCc----cceeEEeeeeeeeeehhhh-ccCCCcce
Confidence 778999999999999987654 58999999888886541 011 1368899888877664331 11111225
Q ss_pred EEEEecCceeeeeeccchHHHHHHH
Q 028224 176 QVISIDNHEFWFMGFLNYNGAVEWL 200 (212)
Q Consensus 176 qIvTvD~~eFWFMGFvnY~kA~k~L 200 (212)
+|-|+..- +=|.+|+.=|-+++..
T Consensus 185 ~i~t~~~k-y~f~s~~Srda~~~~~ 208 (590)
T KOG1032|consen 185 EITTGTTK-YIFVSLLSRDATYKLI 208 (590)
T ss_pred EEecCCCc-ceeeecccCccHHHHH
Confidence 55544444 4578999999998844
No 31
>KOG3294 consensus WW domain binding protein WBP-2, contains GRAM domain [Signal transduction mechanisms]
Probab=33.11 E-value=40 Score=31.19 Aligned_cols=35 Identities=29% Similarity=0.703 Sum_probs=26.0
Q ss_pred eeeEEEeeceeeeecCCCce-eecCCCeeeeEEEEEEecccccccc
Q 028224 118 MGILYVSTAKLAFCSDNPLS-YKSSGQTEWSYYKVVIPLHQLRAVN 162 (212)
Q Consensus 118 aG~LfiSt~kvAFcSdrpl~-~~~~g~~~~~yYKVvIPL~kik~vn 162 (212)
-|+|||++.||-|-|+.+-. |.+ .++|+.-|+.++
T Consensus 48 kGtlyLTs~RiIFis~~~~D~fks----------F~MPf~~mkd~k 83 (261)
T KOG3294|consen 48 KGTLYLTSHRIIFISSKPKDAFKS----------FMMPFNLMKDVK 83 (261)
T ss_pred eeeEEeecceEEEecCCCCcchhh----------hcchhhhhhhce
Confidence 49999999999999988643 233 566666666654
No 32
>cd01244 PH_RasGAP_CG9209 RAS_GTPase activating protein (GAP)_CG9209 pleckstrin homology (PH) domain. RAS_GTPase activating protein (GAP)_CG9209 pleckstrin homology (PH) domain. This protein consists of two C2 domains, followed by a RasGAP domain, a PH domain and a BTK domain. PH domains share little sequence conservation, but all have a common fold, which is electrostatically polarized. PH domains also have diverse functions. They are often involved in targeting proteins to the plasma membrane, but few display strong specificity in lipid binding. Any specificity is usually determined by loop regions or insertions in the N-terminus of the domain, which are not conserved across all PH domains. PH domains are found in cellular signaling proteins such as serine/threonine kinase, tyrosine kinsases, regulators of G-proteins, endocytotic GTPAses, adaptors, as well as cytoskeletal associated molecules and in lipid associated enzymes.
Probab=30.40 E-value=52 Score=25.35 Aligned_cols=32 Identities=16% Similarity=0.337 Sum_probs=23.0
Q ss_pred EEEEeccccccccCCCCCCCCCCCe-EEEEEecC
Q 028224 150 KVVIPLHQLRAVNPSSSRNNPAEKY-VQVISIDN 182 (212)
Q Consensus 150 KVvIPL~kik~vnps~n~~nP~eKY-IqIvTvD~ 182 (212)
+=.|||..++.|....+.... .+| +||||-|.
T Consensus 44 ~g~I~L~~i~~ve~v~~~~~~-~~~~fqivt~~r 76 (98)
T cd01244 44 SALIKLAAIKGTEPLSDKSFV-NVDIITIVCEDD 76 (98)
T ss_pred eeeEEccceEEEEEcCCcccC-CCceEEEEeCCC
Confidence 458999999999766543322 245 89999775
No 33
>PF08512 Rtt106: Histone chaperone Rttp106-like; InterPro: IPR013719 This is a domain of unknown function that is associated with a number of different protein families. It is found in Rtt106p, which is a histone chaperone involved in heterochromatin-mediated silencing []. It is also found in genes annotated as transcription factors/regulators. This domain is the C-terminal domain of yeast Spt16p P32558 from SWISSPROT, which is a subunit of the heterodimeric yeast FACT complex (Spt16p-Pob3p, IPR000969 from INTERPRO) []. In addition Spt16p and its relatives, in this entry, are described as non-peptidase homologues belonging to the MEROPS peptidase family M24. The FACT complex facilitates RNA Polymerase II transcription elongation through nucleosomes by destabilising and then reassembling nucleosome structure [, ]. ; PDB: 3TW1_A 3GYO_A 3TO1_A 3FSS_A 3TVV_B 3GYP_A 2GCJ_D 2GCL_A.
Probab=26.17 E-value=2.8e+02 Score=20.96 Aligned_cols=65 Identities=26% Similarity=0.363 Sum_probs=42.7
Q ss_pred ceeeecCCCCceeeEEEeeceeeeecCCCceeecCCCeeeeEEEEEEeccccccccCCCCCCCCCCCeEE--EEEec--C
Q 028224 107 ACYLSTSAGPVMGILYVSTAKLAFCSDNPLSYKSSGQTEWSYYKVVIPLHQLRAVNPSSSRNNPAEKYVQ--VISID--N 182 (212)
Q Consensus 107 ~CYLSTtaGPVaG~LfiSt~kvAFcSdrpl~~~~~g~~~~~yYKVvIPL~kik~vnps~n~~nP~eKYIq--IvTvD--~ 182 (212)
.|++-.. .|.||....-+.|-.++|. ++||++.|..|+=+-- ...+.|.-. |++-| +
T Consensus 5 ~c~~ka~----~g~L~pl~~~l~f~~~kP~--------------~~i~~~dI~~v~feRv-~~~~~ktFDl~v~~k~~~~ 65 (95)
T PF08512_consen 5 KCSYKAN----EGFLYPLEKCLLFGLEKPP--------------FVIPLDDIESVEFERV-SSFSSKTFDLVVILKDYEG 65 (95)
T ss_dssp EEEETTE----EEEEEEESSEEEEECSSS---------------EEEEGGGEEEEEEE---ESSSSSEEEEEEEETT-TS
T ss_pred eEecccc----CEEEEEccceEEEecCCCe--------------EEEEhhHeeEEEEEec-ccCcceEEEEEEEEecCCC
Confidence 4555444 5899999998888778876 6788888888874332 466777754 44555 5
Q ss_pred ceeeeeec
Q 028224 183 HEFWFMGF 190 (212)
Q Consensus 183 ~eFWFMGF 190 (212)
-+..|.+-
T Consensus 66 ~~~~fs~I 73 (95)
T PF08512_consen 66 PPHEFSSI 73 (95)
T ss_dssp -EEEEEEE
T ss_pred CcEEEeeE
Confidence 67776653
No 34
>cd01239 PH_PKD Protein kinase D (PKD/PKCmu) pleckstrin homology (PH) domain. Protein kinase D (PKD/PKCmu) pleckstrin homology (PH) domain. PKD consists of 2 C1 domains, followed by a PH domain and a kinase domain. While the PKD PH domain has not been shown to bind phosphorylated inositol lipids and is not required for membrane translocation, it is required for nuclear export. PH domains share little sequence conservation, but all have a common fold, which is electrostatically polarized. PH domains also have diverse functions. They are often involved in targeting proteins to the plasma membrane, but few display strong specificity in lipid binding. Any specificity is usually determined by loop regions or insertions in the N-terminus of the domain, which are not conserved across all PH domains.
Probab=24.52 E-value=1.1e+02 Score=25.15 Aligned_cols=42 Identities=21% Similarity=0.493 Sum_probs=28.6
Q ss_pred eeeEEEEEEeccccccccCCCCCC---CCCCCeEEEEEecCceeeeee
Q 028224 145 EWSYYKVVIPLHQLRAVNPSSSRN---NPAEKYVQVISIDNHEFWFMG 189 (212)
Q Consensus 145 ~~~yYKVvIPL~kik~vnps~n~~---nP~eKYIqIvTvD~~eFWFMG 189 (212)
..-||| .|||..|-.|.++.+.. ....-..+|+| .+--| |+|
T Consensus 36 ~skyyK-eIPLsEIl~V~~~~~~~~~~~~~~hcFEi~T-~~~vY-~VG 80 (117)
T cd01239 36 GSRYYK-EIPLAEILSVSSNNGDSVLAKHPPHCFEIRT-TTNVY-FVG 80 (117)
T ss_pred CCeeeE-EeehHHheEEeccCCCcCCCCCCCcEEEEEe-cCEEE-Eec
Confidence 345787 58999999997654331 34667899999 55544 444
No 35
>smart00252 SH2 Src homology 2 domains. Src homology 2 domains bind phosphotyrosine-containing polypeptides via 2 surface pockets. Specificity is provided via interaction with residues that are distinct from the phosphotyrosine. Only a single occurrence of a SH2 domain has been found in S. cerevisiae.
Probab=24.10 E-value=46 Score=23.37 Aligned_cols=18 Identities=28% Similarity=0.750 Sum_probs=16.3
Q ss_pred eeeeccchHHHHHHHHHH
Q 028224 186 WFMGFLNYNGAVEWLQGA 203 (212)
Q Consensus 186 WFMGFvnY~kA~k~Lq~a 203 (212)
||.|+++=+.|-+.|++.
T Consensus 3 w~~g~i~r~~Ae~lL~~~ 20 (84)
T smart00252 3 WYHGFISREEAEKLLKNE 20 (84)
T ss_pred eecccCCHHHHHHHHhcC
Confidence 999999999999999763
No 36
>cd00851 MTH1175 This uncharacterized conserved protein belongs to a family of iron-molybdenum cluster-binding proteins that includes NifX, NifB, and NifY, all of which are involved in the synthesis of an iron-molybdenum cofactor (FeMo-co) that binds the active site of the dinitrogenase enzyme. This domain is a predicted small-molecule-binding domain (SMBD) with an alpha/beta fold that is present either as a stand-alone domain (e.g. NifX and NifY) or fused to another conserved domain (e.g. NifB) however, its function is still undetermined.The SCOP database suggests that this domain is most similar to structures within the ribonuclease H superfamily. This conserved domain is represented in two of the three major divisions of life (bacteria and archaea).
Probab=23.10 E-value=1.9e+02 Score=20.74 Aligned_cols=39 Identities=15% Similarity=0.314 Sum_probs=23.9
Q ss_pred EEEEeccccc-cccCCCCCCCCCCCeEEEEEecCceeeeeeccc
Q 028224 150 KVVIPLHQLR-AVNPSSSRNNPAEKYVQVISIDNHEFWFMGFLN 192 (212)
Q Consensus 150 KVvIPL~kik-~vnps~n~~nP~eKYIqIvTvD~~eFWFMGFvn 192 (212)
||.||.+.-+ .++++-- .-+|+.|+.+|+....+...+.
T Consensus 2 ~IAv~~~~~~~~v~~hFg----~a~~f~i~d~~~~~~~~~~~~~ 41 (103)
T cd00851 2 KIAIPVSGNGGKVSPHFG----RAPYFLIYDVETGKIKNVEVIE 41 (103)
T ss_pred EEEEEecCCCccccCccc----cCCEEEEEEccCCcEeEEEEec
Confidence 5667776666 5555442 2357777777777666555553
No 37
>smart00790 AFOR_N Aldehyde ferredoxin oxidoreductase, N-terminal domain. Enzymes of the aldehyde ferredoxin oxidoreductase (AOR) family PUBMED:9242907 contain a tungsten cofactor and an 4Fe4S cluster and catalyse the interconversion of aldehydes to carboxylates PUBMED:8672295. This family includes AOR, formaldehyde ferredoxin oxidoreductase (FOR), glyceraldehyde-3-phosphate ferredoxin oxidoreductase (GAPOR), all isolated from hyperthermophilic archea PUBMED:9242907; carboxylic acid reductase found in clostridia PUBMED:2550230; and hydroxycarboxylate viologen oxidoreductase from Proteus vulgaris, the sole member of the AOR family containing molybdenum PUBMED:8026480. GAPOR may be involved in glycolysis PUBMED:7721730, but the functions of the other proteins are not yet clear. AOR has been proposed to be the primary enzyme responsible for oxidising the aldehydes that are produced by the 2-keto acid oxidoreductases PUBMED:9275170.
Probab=22.78 E-value=51 Score=28.80 Aligned_cols=74 Identities=22% Similarity=0.308 Sum_probs=51.9
Q ss_pred cccccceecccCcchHHHHHhhhhhhhhhhhcCCcceeeeecccCChhhhhhhhcceeeecCCCCceeeEEEeeceeeee
Q 028224 52 LAGNTWQHLKTSPSFADAAMGRIAQGTKVLAEGGYEKIFRQTFETVPEEQLQNSYACYLSTSAGPVMGILYVSTAKLAFC 131 (212)
Q Consensus 52 ~a~~i~~hlk~gps~seta~GKlslGakil~~GG~ekiFkQ~F~~~~~EkLlKa~~CYLSTtaGPVaG~LfiSt~kvAFc 131 (212)
+..+-++...+-+.+.+...|=..+++++|.+= +-..+=-..|+-+|- =.+||..|+-+-.+-|+.+.
T Consensus 9 Ls~~~~~~~~~~~~~~~~~lGG~Gl~~~ll~~~----~~~~~dpl~peN~li--------~~~GpL~Gt~~p~s~R~~v~ 76 (199)
T smart00790 9 LTTRKVEVEELPEELARKYLGGRGLGVKLLYEE----VDPEVDPLSPENKLI--------FATGPLTGTPAPGSGRLVVV 76 (199)
T ss_pred CCCCeEEEEeCCHHHHHhccCHHHHHHHHHHhc----cCCCCCCCCCCCEEE--------EEccCccCCCcCCCCEEEEE
Confidence 344445666667777778889999999999761 111111224444443 35999999988899999999
Q ss_pred cCCCce
Q 028224 132 SDNPLS 137 (212)
Q Consensus 132 Sdrpl~ 137 (212)
+=.||+
T Consensus 77 ~kSPlT 82 (199)
T smart00790 77 AKSPLT 82 (199)
T ss_pred EECCCC
Confidence 999997
No 38
>cd08544 Reeler Reeler, the N-terminal domain of reelin, F-spondin, and a variety of other proteins. This domain is found at the N-terminus of F-spondin, a protein attached to the extracellular matrix, which plays roles in neuronal development and vascular remodelling. The F-spondin reeler domain has been reported to bind heparin. The reeler domain is also found at the N-terminus of reelin, an extracellular glycoprotein involved in the development of the brain cortex, and in a variety of other eukaryotic proteins with different domain architectures, including the animal ferric-chelate reductase 1 or stromal cell-derived receptor 2, a member of the cytochrome B561 family, which reduces ferric iron before its transport from the endosome to the cytoplasm. Also included is the insect putative defense protein 1, which is expressed upon bacterial infection and appears to contain a single reeler domain.
Probab=22.69 E-value=1.2e+02 Score=23.51 Aligned_cols=34 Identities=32% Similarity=0.408 Sum_probs=24.6
Q ss_pred eEEEEEEeccccccccCCCCCCCCCCCeEEEEEecCceeeeeecc
Q 028224 147 SYYKVVIPLHQLRAVNPSSSRNNPAEKYVQVISIDNHEFWFMGFL 191 (212)
Q Consensus 147 ~yYKVvIPL~kik~vnps~n~~nP~eKYIqIvTvD~~eFWFMGFv 191 (212)
.+|.|.++-. ...|.|.|---++..+- -.|.||+
T Consensus 19 ~py~i~~~~~----------~y~pG~~~~Vtl~~~~~-~~F~GF~ 52 (135)
T cd08544 19 SPYSITISGN----------SYVPGETYTVTLSGSSP-SPFRGFL 52 (135)
T ss_pred CCEEEEeCCC----------EECCCCEEEEEEECCCC-CceeEEE
Confidence 7899988655 56788888655554443 6899997
No 39
>PF13414 TPR_11: TPR repeat; PDB: 2HO1_B 2FI7_B 2DBA_A 3Q4A_B 2C2L_D 3Q47_B 3Q49_B 2PL2_B 3IEG_B 2FBN_A ....
Probab=22.43 E-value=73 Score=20.97 Aligned_cols=15 Identities=33% Similarity=0.744 Sum_probs=12.0
Q ss_pred chHHHHHHHHHHHhh
Q 028224 192 NYNGAVEWLQGALEA 206 (212)
Q Consensus 192 nY~kA~k~Lq~a~~~ 206 (212)
+|++|++++++||..
T Consensus 18 ~~~~A~~~~~~ai~~ 32 (69)
T PF13414_consen 18 DYEEAIEYFEKAIEL 32 (69)
T ss_dssp HHHHHHHHHHHHHHH
T ss_pred CHHHHHHHHHHHHHc
Confidence 578888888888874
No 40
>PF08909 DUF1854: Domain of unknown function (DUF1854); InterPro: IPR015005 These protein is functionally uncharacterised. It is found at the C terminus of a number of ATP transporter proteins suggesting it may be involved in ligand binding.
Probab=22.22 E-value=60 Score=27.05 Aligned_cols=37 Identities=19% Similarity=0.369 Sum_probs=25.7
Q ss_pred CCCeEEEEEecCce-eeeeeccchHH-HHHHHHHHHhhh
Q 028224 171 AEKYVQVISIDNHE-FWFMGFLNYNG-AVEWLQGALEAR 207 (212)
Q Consensus 171 ~eKYIqIvTvD~~e-FWFMGFvnY~k-A~k~Lq~a~~~~ 207 (212)
.+.||-|++.||+| +|.=-.=--+. +.+.++++|..+
T Consensus 17 P~~~isl~~~~G~El~~I~~l~~L~~~~r~lle~eLa~R 55 (133)
T PF08909_consen 17 PDEGISLVDEDGHELAWIDDLDDLPEESRALLEEELARR 55 (133)
T ss_pred CCccEEEEcCCCcEEEEEcChhHCCHHHHHHHHHHHHhC
Confidence 35799999999999 88765544333 345566666654
No 41
>PF08348 PAS_6: YheO-like PAS domain; InterPro: IPR013559 This domain is found in various hypothetical bacterial proteins that are similar to the Escherichia coli protein YheO (P64624 from SWISSPROT). Their function is unknown, but a few members are annotated as being HTH-containing proteins and putative DNA-binding proteins.
Probab=22.09 E-value=1.3e+02 Score=23.98 Aligned_cols=58 Identities=16% Similarity=0.254 Sum_probs=46.2
Q ss_pred ccCcchHHHHHhhhhhhhhhhhcCC-cceeeeecccCChhhhhhhhcceeeecCCCCceeeEEEee
Q 028224 61 KTSPSFADAAMGRIAQGTKVLAEGG-YEKIFRQTFETVPEEQLQNSYACYLSTSAGPVMGILYVST 125 (212)
Q Consensus 61 k~gps~seta~GKlslGakil~~GG-~ekiFkQ~F~~~~~EkLlKa~~CYLSTtaGPVaG~LfiSt 125 (212)
+.|-.+++. +-++|+++. -+..+..++...++-|++|++-.++--..|=+.|+|=|-.
T Consensus 46 ~vGdp~t~~-------~l~~l~~~~~~~~~~~nY~~~~~~Gk~lrSsT~~Ird~~g~~iG~LCIN~ 104 (118)
T PF08348_consen 46 KVGDPITDL-------ALELLKEKQYEEDYIINYKTKTKDGKILRSSTFFIRDENGKLIGALCINF 104 (118)
T ss_pred ccCCchhHH-------HHHHHhccccCCCccccccccCCCCCEEEEEEEEEECCCCCEEEEEEEEe
Confidence 667777766 457777776 4667777888888889999999999999999999987753
No 42
>COG1098 VacB Predicted RNA binding protein (contains ribosomal protein S1 domain) [Translation, ribosomal structure and biogenesis]
Probab=22.01 E-value=19 Score=30.18 Aligned_cols=35 Identities=23% Similarity=0.402 Sum_probs=30.0
Q ss_pred hhccccccccceecccCcch-------HHHHHhhhhhhhhhhhc
Q 028224 47 KKAEDLAGNTWQHLKTSPSF-------ADAAMGRIAQGTKVLAE 83 (212)
Q Consensus 47 rkae~~a~~i~~hlk~gps~-------seta~GKlslGakil~~ 83 (212)
.=|++++.+|.+||+.|..+ .| .||++|--|-+.+
T Consensus 37 EIa~~fVkdI~d~L~vG~eV~vKVl~ide--~GKisLSIr~~~e 78 (129)
T COG1098 37 EIADGFVKDIHDHLKVGQEVKVKVLDIDE--NGKISLSIRKLEE 78 (129)
T ss_pred HhhhhhHHhHHHHhcCCCEEEEEEEeecc--CCCcceehHHhhh
Confidence 35789999999999999864 34 8999999999887
No 43
>smart00671 SEL1 Sel1-like repeats. These represent a subfamily of TPR (tetratricopeptide repeat) sequences.
Probab=21.80 E-value=85 Score=18.15 Aligned_cols=16 Identities=25% Similarity=0.331 Sum_probs=13.7
Q ss_pred cchHHHHHHHHHHHhh
Q 028224 191 LNYNGAVEWLQGALEA 206 (212)
Q Consensus 191 vnY~kA~k~Lq~a~~~ 206 (212)
.++++|++++++|..+
T Consensus 19 ~d~~~A~~~~~~Aa~~ 34 (36)
T smart00671 19 KDLEKALEYYKKAAEL 34 (36)
T ss_pred cCHHHHHHHHHHHHHc
Confidence 4889999999998765
No 44
>PF13424 TPR_12: Tetratricopeptide repeat; PDB: 3RO2_A 3Q15_A 3ASG_A 3ASD_A 3AS5_A 3AS4_A 3ASH_B 4A1S_B 3CEQ_B 3EDT_H ....
Probab=21.25 E-value=80 Score=21.36 Aligned_cols=15 Identities=27% Similarity=0.654 Sum_probs=12.5
Q ss_pred chHHHHHHHHHHHhh
Q 028224 192 NYNGAVEWLQGALEA 206 (212)
Q Consensus 192 nY~kA~k~Lq~a~~~ 206 (212)
.|++|+.++++|+.-
T Consensus 20 ~~~~A~~~~~~al~~ 34 (78)
T PF13424_consen 20 RYDEALDYYEKALDI 34 (78)
T ss_dssp -HHHHHHHHHHHHHH
T ss_pred CHHHHHHHHHHHHHH
Confidence 689999999999864
No 45
>smart00512 Skp1 Found in Skp1 protein family. Family of Skp1 (kinetochore protein required for cell cycle progression) and elongin C (subunit of RNA polymerase II transcription factor SIII) homologues.
Probab=20.36 E-value=73 Score=23.91 Aligned_cols=14 Identities=43% Similarity=0.669 Sum_probs=12.6
Q ss_pred CeEEEEEecCceee
Q 028224 173 KYVQVISIDNHEFW 186 (212)
Q Consensus 173 KYIqIvTvD~~eFW 186 (212)
+||.++|-||++|=
T Consensus 2 ~~v~L~S~Dg~~f~ 15 (104)
T smart00512 2 KYIKLISSDGEVFE 15 (104)
T ss_pred CeEEEEeCCCCEEE
Confidence 69999999999983
Done!