Query 024728
Match_columns 263
No_of_seqs 118 out of 141
Neff 3.1
Searched_HMMs 46136
Date Fri Mar 29 06:55:47 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/024728.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/024728hhsearch_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 7.7E-13 1.7E-17 95.5 3.8 66 132-207 2-67 (69)
2 smart00568 GRAM domain in gluc 99.2 2.9E-11 6.4E-16 85.4 4.4 58 139-207 2-59 (61)
3 PF14470 bPH_3: Bacterial PH d 96.2 0.047 1E-06 40.5 8.3 94 140-249 2-95 (96)
4 PF08498 Sterol_MT_C: Sterol m 89.9 0.21 4.6E-06 38.1 1.9 53 84-136 6-58 (67)
5 KOG4347 GTPase-activating prot 80.8 1.9 4.1E-05 45.2 4.0 97 135-246 14-112 (671)
6 PF14844 PH_BEACH: PH domain a 77.4 2.6 5.6E-05 32.6 3.0 86 144-231 1-90 (106)
7 PF00169 PH: PH domain; Inter 74.3 17 0.00036 25.6 6.3 64 169-233 19-86 (104)
8 KOG4471 Phosphatidylinositol 3 66.1 5.5 0.00012 42.0 3.2 64 133-209 30-93 (717)
9 KOG3473 RNA polymerase II tran 63.4 4.1 8.8E-05 34.2 1.4 21 211-231 11-31 (112)
10 PF07719 TPR_2: Tetratricopept 56.8 12 0.00026 22.3 2.4 17 236-252 16-32 (34)
11 smart00683 DM16 Repeats in sea 56.6 17 0.00036 27.0 3.5 37 157-206 17-53 (55)
12 PF08567 TFIIH_BTF_p62_N: TFII 54.1 64 0.0014 24.9 6.5 54 160-226 12-67 (79)
13 PF00515 TPR_1: Tetratricopept 53.3 13 0.00028 22.5 2.1 16 236-251 16-31 (34)
14 smart00233 PH Pleckstrin homol 52.4 57 0.0012 22.1 5.5 61 165-234 24-85 (102)
15 PF13181 TPR_8: Tetratricopept 50.3 18 0.00039 21.7 2.4 17 236-252 16-32 (34)
16 PF12068 DUF3548: Domain of un 50.2 16 0.00034 33.3 3.0 57 189-251 108-166 (213)
17 KOG2415 Electron transfer flav 46.5 9.1 0.0002 39.5 1.0 37 101-137 345-383 (621)
18 PF07289 DUF1448: Protein of u 45.0 18 0.00039 35.4 2.7 84 136-235 148-233 (339)
19 PF13176 TPR_7: Tetratricopept 44.4 26 0.00057 22.2 2.6 18 236-253 14-31 (36)
20 cd00821 PH Pleckstrin homology 41.7 96 0.0021 20.8 5.3 59 164-232 21-79 (96)
21 cd00900 PH-like Pleckstrin hom 41.6 96 0.0021 21.0 5.3 64 159-234 19-84 (99)
22 TIGR02681 phage_pRha phage reg 39.5 32 0.00069 28.0 2.9 29 222-250 69-106 (108)
23 PF03931 Skp1_POZ: Skp1 family 39.4 19 0.00042 25.9 1.5 14 217-230 1-14 (62)
24 smart00028 TPR Tetratricopepti 39.2 28 0.00061 18.2 1.9 15 236-250 16-30 (34)
25 PF11605 Vps36_ESCRT-II: Vacuo 34.8 40 0.00086 26.7 2.7 48 159-217 35-82 (89)
26 PF10882 bPH_5: Bacterial PH d 33.5 33 0.00071 26.1 2.0 24 189-212 13-36 (100)
27 COG1098 VacB Predicted RNA bin 32.0 20 0.00043 30.9 0.7 36 90-126 37-78 (129)
28 PF01845 CcdB: CcdB protein; 30.4 72 0.0016 25.9 3.6 36 192-232 30-65 (102)
29 PF09890 DUF2117: Uncharacteri 29.6 24 0.00052 32.6 0.8 66 85-163 46-114 (215)
30 cd01244 PH_RasGAP_CG9209 RAS_G 28.4 1E+02 0.0022 24.6 4.1 46 176-226 30-76 (98)
31 PF13174 TPR_6: Tetratricopept 28.3 63 0.0014 18.8 2.3 17 236-252 15-31 (33)
32 PF14472 DUF4429: Domain of un 28.0 68 0.0015 25.1 3.0 30 195-228 27-59 (94)
33 PRK13708 plasmid maintenance p 27.9 77 0.0017 26.1 3.4 35 193-232 30-64 (101)
34 PF08238 Sel1: Sel1 repeat; I 26.9 59 0.0013 20.0 2.1 15 236-250 23-37 (39)
35 KOG1032 Uncharacterized conser 26.7 1.2E+02 0.0026 31.5 5.3 98 139-250 117-214 (590)
36 PF13374 TPR_10: Tetratricopep 26.6 68 0.0015 19.4 2.3 19 236-254 17-35 (42)
37 cd00851 MTH1175 This uncharact 25.2 1.4E+02 0.0031 22.1 4.2 39 194-236 2-41 (103)
38 PF13424 TPR_12: Tetratricopep 25.2 66 0.0014 22.5 2.3 16 236-251 61-76 (78)
39 KOG3294 WW domain binding prot 24.2 60 0.0013 31.0 2.4 39 158-206 45-83 (261)
40 PF10096 DUF2334: Uncharacteri 24.0 76 0.0016 28.7 3.0 42 215-256 77-121 (243)
41 PF08348 PAS_6: YheO-like PAS 23.2 1.4E+02 0.003 24.5 4.1 58 104-168 46-104 (118)
42 PF05553 DUF761: Cotton fibre 23.0 39 0.00085 23.4 0.7 17 90-106 7-23 (38)
43 PF13414 TPR_11: TPR repeat; P 23.0 71 0.0015 21.7 2.1 16 236-251 18-33 (69)
44 smart00252 SH2 Src homology 2 22.2 54 0.0012 23.8 1.4 17 230-246 3-19 (84)
45 cd08544 Reeler Reeler, the N-t 21.4 1.3E+02 0.0028 24.2 3.6 35 191-236 19-53 (135)
46 cd02680 MIT_calpain7_2 MIT: do 21.3 81 0.0018 24.5 2.2 17 236-252 21-37 (75)
47 PF12862 Apc5: Anaphase-promot 21.1 86 0.0019 23.9 2.4 21 235-255 55-75 (94)
48 PF03517 Voldacs: Regulator of 20.7 78 0.0017 26.2 2.2 15 162-176 1-15 (135)
49 cd00562 NifX_NifB This CD repr 20.4 1.5E+02 0.0033 21.8 3.6 39 194-236 1-39 (102)
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=99.34 E-value=7.7e-13 Score=95.52 Aligned_cols=66 Identities=30% Similarity=0.565 Sum_probs=45.9
Q ss_pred hhhhhccCCccchhccccceeeecCCCcceeeEEEecceEEEeeCCCeeeeCCCCCeeeeEEEEeeecCccccccc
Q 024728 132 LFKQIFATDPNEKLKKTFACYLSTTTGPVAGTLYLSTARVAFCSDRPLCFTAPSGQEAWSYYKVMIPLANISSVNP 207 (263)
Q Consensus 132 iFkQ~F~v~p~EkLlKa~aCYLSTtaGPVaG~LfiSt~kvAFcSdrpl~~~sp~Gq~~~~yYKVvIPL~kik~Vnp 207 (263)
-|++.|...++|+|...|.|+|..+.+|+.|.||||+.+|+|+|+.+..-. ++++|||..|..|..
T Consensus 2 ~f~~~F~lp~~E~li~~~~c~l~~~~~~~~G~LyiT~~~lcF~s~~~~~~~----------~~~~ipl~~I~~i~k 67 (69)
T PF02893_consen 2 KFRKLFKLPEEERLIEEYSCALFKSKIPVQGRLYITNNYLCFYSNKFGSKT----------CKFVIPLSDIKSIEK 67 (69)
T ss_dssp ---------TT--EEEEEEETTTEE---EEEEEEEESSEEEEEESSSSS-E-----------EEEEEGGGEEEEEE
T ss_pred cccccccCCCCCeEEEEEEEEEECCccceeeEEEECCCEEEEEECCCCCce----------EEEEEEhHheeEEEE
Confidence 589999999999999999999999999999999999999999998765422 899999999998863
No 2
>smart00568 GRAM domain in glucosyltransferases, myotubularins and other putative membrane-associated proteins.
Probab=99.17 E-value=2.9e-11 Score=85.40 Aligned_cols=58 Identities=47% Similarity=0.761 Sum_probs=50.6
Q ss_pred CCccchhccccceeeecCCCcceeeEEEecceEEEeeCCCeeeeCCCCCeeeeEEEEeeecCccccccc
Q 024728 139 TDPNEKLKKTFACYLSTTTGPVAGTLYLSTARVAFCSDRPLCFTAPSGQEAWSYYKVMIPLANISSVNP 207 (263)
Q Consensus 139 v~p~EkLlKa~aCYLSTtaGPVaG~LfiSt~kvAFcSdrpl~~~sp~Gq~~~~yYKVvIPL~kik~Vnp 207 (263)
..++|+|...|.|||+ +.+|+.|.||||+.+++|+|+.+-..+ .+++|||+.|.+|+.
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 299999999999874
No 3
>PF14470 bPH_3: Bacterial PH domain
Probab=96.15 E-value=0.047 Score=40.53 Aligned_cols=94 Identities=17% Similarity=0.174 Sum_probs=66.7
Q ss_pred CccchhccccceeeecCCCcceeeEEEecceEEEeeCCCeeeeCCCCCeeeeEEEEeeecCccccccccccccCcCCceE
Q 024728 140 DPNEKLKKTFACYLSTTTGPVAGTLYLSTARVAFCSDRPLCFTAPSGQEAWSYYKVMIPLANISSVNPVTLKENASDKYM 219 (263)
Q Consensus 140 ~p~EkLlKa~aCYLSTtaGPVaG~LfiSt~kvAFcSdrpl~~~sp~Gq~~~~yYKVvIPL~kik~Vnps~n~~nPseKYI 219 (263)
.+||+.+-...|.+-...+.-.|+|+++++||-||+-..+. | .....||+++|.+|+-.... -...|
T Consensus 2 ~~~E~I~~~~~~~~~~~~~~~~g~l~~TnkRlif~~~~~~~-----~-----~~~~~i~y~~I~~v~~~~g~---~~~~i 68 (96)
T PF14470_consen 2 KEDEEIEYVAVGSYNYFFTSFPGVLVLTNKRLIFYSKGMFG-----G-----KKFESIPYDDITSVSFKKGI---LGGKI 68 (96)
T ss_pred cCCCEEEEEEEEEEeecccCceeEEEEeCCEEEEEEcccCC-----C-----ceEEEEEhhheEEEEEEccc---cccEE
Confidence 58999999999988877888999999999999999873332 1 24589999999999976433 44668
Q ss_pred EEEEecCceeeeeecccHHHHHHHHHHHHh
Q 024728 220 KIVTVEGHEFWFMGFVNFEKATNHLLNSLS 249 (263)
Q Consensus 220 qIVTvD~~eFWFMGFvnY~KA~k~Lq~Als 249 (263)
.|.| ++..+=| +.+. .+-++-+-+.|+
T Consensus 69 ~i~~-~~~~~~i-~~i~-k~~~~~~~~~i~ 95 (96)
T PF14470_consen 69 TIET-NGEKIKI-DNIQ-KGDVKEFYEYIK 95 (96)
T ss_pred EEEE-CCEEEEE-EEcC-HHHHHHHHHHHh
Confidence 8888 5544444 4443 233344444443
No 4
>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=89.89 E-value=0.21 Score=38.13 Aligned_cols=53 Identities=13% Similarity=0.148 Sum_probs=47.8
Q ss_pred HhhhcccchhhHHhhhhhhhccCcchhHHhhhhhhhhhHHHhccCcchhhhhh
Q 024728 84 AFNNWSTKAETIARNIWHNLKTGPSVSEAAWGKVNLTAKAITEGGFESLFKQI 136 (263)
Q Consensus 84 ~~n~~grkae~~a~~i~~hlk~gpsiseta~GKlslGaKil~eGG~ekiFkQ~ 136 (263)
+|+++||..-...=++-|-|++.|+-+-.+..-|..+|.-|.+||-++||--.
T Consensus 6 r~t~~Gr~~t~~~v~~LE~lglAPkGt~~v~~~L~~aa~~Lv~GG~~giFTPM 58 (67)
T PF08498_consen 6 RMTWLGRFITHALVRVLEFLGLAPKGTSKVAEMLAKAADGLVEGGKTGIFTPM 58 (67)
T ss_pred eccHHHHHHHHHHHHHHHHHCcCCCcHHHHHHHHHHHHHHHHHhhhcCCcCch
Confidence 46788888877788889999999999999999999999999999999999643
No 5
>KOG4347 consensus GTPase-activating protein VRP [General function prediction only]
Probab=80.78 E-value=1.9 Score=45.23 Aligned_cols=97 Identities=25% Similarity=0.309 Sum_probs=74.9
Q ss_pred hhccCCccchhccccceeeecCCC--cceeeEEEecceEEEeeCCCeeeeCCCCCeeeeEEEEeeecCcccccccccccc
Q 024728 135 QIFATDPNEKLKKTFACYLSTTTG--PVAGTLYLSTARVAFCSDRPLCFTAPSGQEAWSYYKVMIPLANISSVNPVTLKE 212 (263)
Q Consensus 135 Q~F~v~p~EkLlKa~aCYLSTtaG--PVaG~LfiSt~kvAFcSdrpl~~~sp~Gq~~~~yYKVvIPL~kik~Vnps~n~~ 212 (263)
-.|... |+|.-.-.|=|-|..- -..|-||+||..++|.||-+=. -++++||.-|+.|.-.. ..
T Consensus 14 ~~Frlp--e~l~~~~~~~l~~p~s~~~~~G~l~~s~~f~cF~s~~~~~------------c~~~~Pl~~vr~ve~~~-~s 78 (671)
T KOG4347|consen 14 AFFRLP--EKLDGSTMCNLWTPYSRYHEQGRLFLSTNFICFASDTEWL------------CSFITPLLAVRSVERLD-DS 78 (671)
T ss_pred ceeecc--hhcCceeecccCCCcchhhccceeeeccceEEeecCCccc------------ceEeeehhhhhhhhccC-cc
Confidence 456655 9999999999999866 6899999999999999997533 46899999999998444 11
Q ss_pred CcCCceEEEEEecCceeeeeecccHHHHHHHHHH
Q 024728 213 NASDKYMKIVTVEGHEFWFMGFVNFEKATNHLLN 246 (263)
Q Consensus 213 nPseKYIqIVTvD~~eFWFMGFvnY~KA~k~Lq~ 246 (263)
+--..=|-+.|-.+-.|-|-|+..=++.+.-+..
T Consensus 79 s~~~~~i~~~~~~~~~~~f~~~~~r~~~~~k~~~ 112 (671)
T KOG4347|consen 79 SLFTQLISLFTSNMVGMRFGGLTERLKLLSKLHL 112 (671)
T ss_pred ccchhhhHHhhcCcceEEecchhhHHHHHHHHhc
Confidence 2222336678889999999999877777665553
No 6
>PF14844 PH_BEACH: PH domain associated with Beige/BEACH; PDB: 1MI1_B 1T77_C.
Probab=77.44 E-value=2.6 Score=32.64 Aligned_cols=86 Identities=20% Similarity=0.287 Sum_probs=53.7
Q ss_pred hhccccceeeecCCCcceeeEEEecceEEEeeCCCeeeeCCCC----CeeeeEEEEeeecCccccccccccccCcCCceE
Q 024728 144 KLKKTFACYLSTTTGPVAGTLYLSTARVAFCSDRPLCFTAPSG----QEAWSYYKVMIPLANISSVNPVTLKENASDKYM 219 (263)
Q Consensus 144 kLlKa~aCYLSTtaGPVaG~LfiSt~kvAFcSdrpl~~~sp~G----q~~~~yYKVvIPL~kik~Vnps~n~~nPseKYI 219 (263)
|++-++.|-+=|..+-+.|+|.|++..+.|..|..-....... ......--..+|+.+|+.|-..--..+ +-=|
T Consensus 1 ~i~~s~~c~~I~~~~~~~G~l~i~~~~i~F~~~~~~~~~~~~~~~~~~~~~~~~~~~w~~~~I~~v~~RRyllr--~~Al 78 (106)
T PF14844_consen 1 KILLSVPCELITPLDSIPGTLIITKSSIYFIPNDNSSENKISSENPSISISKPKSKRWPLSDIKEVHKRRYLLR--DTAL 78 (106)
T ss_dssp --SEEEEEEEEETTEEEEEEEEE-SSEEEEEE--TTSHHHHCS-HHHHCC---TCEEEEGGGEEEEEEEEETTE--EEEE
T ss_pred CEEEEEEEEEEEeeeeEEEEEEEeCCEEEEEECCcccccccccccccccccCCceEEEEHHHhHHHHHHHhcCc--ceEE
Confidence 3456789999999999999999999999999981110000000 001122334689999999985543332 3448
Q ss_pred EEEEecCceeee
Q 024728 220 KIVTVEGHEFWF 231 (263)
Q Consensus 220 qIVTvD~~eFWF 231 (263)
||.+.||.-|.|
T Consensus 79 EiF~~dg~s~f~ 90 (106)
T PF14844_consen 79 EIFFSDGRSYFF 90 (106)
T ss_dssp EEEETTS-EEEE
T ss_pred EEEEcCCcEEEE
Confidence 999999998754
No 7
>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=74.34 E-value=17 Score=25.62 Aligned_cols=64 Identities=23% Similarity=0.281 Sum_probs=44.8
Q ss_pred ceEEEeeCCCeeeeCCCCCeeeeEEEEeeecCccccccccccc----cCcCCceEEEEEecCceeeeee
Q 024728 169 ARVAFCSDRPLCFTAPSGQEAWSYYKVMIPLANISSVNPVTLK----ENASDKYMKIVTVEGHEFWFMG 233 (263)
Q Consensus 169 ~kvAFcSdrpl~~~sp~Gq~~~~yYKVvIPL~kik~Vnps~n~----~nPseKYIqIVTvD~~eFWFMG 233 (263)
+|.++-.+.-|.+...+.......++-+|+|..+ .|.+..+. ..+.+..++|++.++-.|+|..
T Consensus 19 ~r~~vL~~~~L~~~~~~~~~~~~~~~~~i~l~~~-~v~~~~~~~~~~~~~~~~~f~i~~~~~~~~~~~~ 86 (104)
T PF00169_consen 19 KRYFVLRDSYLLYYKSSKDKSDSKPKGSIPLDDC-TVRPDPSSDFLSNKKRKNCFEITTPNGKSYLFSA 86 (104)
T ss_dssp EEEEEEETTEEEEESSTTTTTESSESEEEEGTTE-EEEEETSSTSTSTSSSSSEEEEEETTSEEEEEEE
T ss_pred EEEEEEECCEEEEEecCccccceeeeEEEEecCc-eEEEcCccccccccCCCcEEEEEeCCCcEEEEEc
Confidence 3445555555555555544445678889999999 77776666 3778888899888887888864
No 8
>KOG4471 consensus Phosphatidylinositol 3-phosphate 3-phosphatase myotubularin MTM1 [Lipid transport and metabolism; Intracellular trafficking, secretion, and vesicular transport]
Probab=66.13 E-value=5.5 Score=41.96 Aligned_cols=64 Identities=28% Similarity=0.354 Sum_probs=48.4
Q ss_pred hhhhccCCccchhccccceeeecCCCcceeeEEEecceEEEeeCCCeeeeCCCCCeeeeEEEEeeecCccccccccc
Q 024728 133 FKQIFATDPNEKLKKTFACYLSTTTGPVAGTLYLSTARVAFCSDRPLCFTAPSGQEAWSYYKVMIPLANISSVNPVT 209 (263)
Q Consensus 133 FkQ~F~v~p~EkLlKa~aCYLSTtaGPVaG~LfiSt~kvAFcSdrpl~~~sp~Gq~~~~yYKVvIPL~kik~Vnps~ 209 (263)
..--|...+||.+..-- |..-=.|++.|+|.||+-|+=|-|.- .+.+|-+-|||.-|.+|+--.
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--YICPFLGAVDGTLALSNYRLYFKSKE-----------TDPPFVLDVPLGVIERVEKRG 93 (717)
T ss_pred ccCcccccCCcccccce--ecccccccccceEEeeeeEEEEEecc-----------CCCceeEeechhhhhhhhhcC
Confidence 45667888999884322 55555789999999999999998753 223688899999999888544
No 9
>KOG3473 consensus RNA polymerase II transcription elongation factor Elongin/SIII, subunit elongin C [Transcription]
Probab=63.36 E-value=4.1 Score=34.20 Aligned_cols=21 Identities=33% Similarity=0.619 Sum_probs=18.6
Q ss_pred ccCcCCceEEEEEecCceeee
Q 024728 211 KENASDKYMKIVTVEGHEFWF 231 (263)
Q Consensus 211 ~~nPseKYIqIVTvD~~eFWF 231 (263)
-+-|+++|+.+|+-|+|||-.
T Consensus 11 ~egp~~~yVkLvS~Ddhefii 31 (112)
T KOG3473|consen 11 CEGPDSMYVKLVSSDDHEFII 31 (112)
T ss_pred ccCcchhheEeecCCCcEEEE
Confidence 467899999999999999964
No 10
>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=56.83 E-value=12 Score=22.30 Aligned_cols=17 Identities=24% Similarity=0.257 Sum_probs=13.9
Q ss_pred cHHHHHHHHHHHHhhhh
Q 024728 236 NFEKATNHLLNSLSEYR 252 (263)
Q Consensus 236 nY~KA~k~Lq~Als~~~ 252 (263)
+|++|++++++|++...
T Consensus 16 ~~~~A~~~~~~al~l~p 32 (34)
T PF07719_consen 16 NYEEAIEYFEKALELDP 32 (34)
T ss_dssp -HHHHHHHHHHHHHHST
T ss_pred CHHHHHHHHHHHHHHCc
Confidence 68999999999998643
No 11
>smart00683 DM16 Repeats in sea squirt COS41.4, worm R01H10.6, fly CG1126 etc.
Probab=56.62 E-value=17 Score=27.04 Aligned_cols=37 Identities=19% Similarity=0.439 Sum_probs=28.7
Q ss_pred CCcceeeEEEecceEEEeeCCCeeeeCCCCCeeeeEEEEeeecCcccccc
Q 024728 157 TGPVAGTLYLSTARVAFCSDRPLCFTAPSGQEAWSYYKVMIPLANISSVN 206 (263)
Q Consensus 157 aGPVaG~LfiSt~kvAFcSdrpl~~~sp~Gq~~~~yYKVvIPL~kik~Vn 206 (263)
.| --|+|+|++-|+-..|+.-- .+.|.||.-.|..++
T Consensus 17 ~G-~~G~l~VTNlRiiW~s~~~~------------~~NlSIgy~~i~~i~ 53 (55)
T smart00683 17 NG-DLGVFFVTNLRLVWHSDTNP------------RFNISVGYLQITNVR 53 (55)
T ss_pred CC-CeeEEEEEeeEEEEEeCCCC------------ceEEEEcceeEEEEE
Confidence 55 45999999999999988642 377888887777664
No 12
>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=54.08 E-value=64 Score=24.88 Aligned_cols=54 Identities=30% Similarity=0.484 Sum_probs=35.5
Q ss_pred ceeeEEEecce--EEEeeCCCeeeeCCCCCeeeeEEEEeeecCccccccccccccCcCCceEEEEEecC
Q 024728 160 VAGTLYLSTAR--VAFCSDRPLCFTAPSGQEAWSYYKVMIPLANISSVNPVTLKENASDKYMKIVTVEG 226 (263)
Q Consensus 160 VaG~LfiSt~k--vAFcSdrpl~~~sp~Gq~~~~yYKVvIPL~kik~Vnps~n~~nPseKYIqIVTvD~ 226 (263)
+.|+|||+..+ +.+.-+ +.++. . .|.||+..|+.-..+ .+..+.==|+|+-.|+
T Consensus 12 ~~G~L~l~~d~~~~~W~~~------~~~~~-~----~v~i~~~~I~~lq~S--p~~s~Kv~Lki~~~~~ 67 (79)
T PF08567_consen 12 KDGTLTLTEDRKPLEWTPK------ASDGP-S----TVSIPLNDIKNLQQS--PEGSPKVMLKIVLKDD 67 (79)
T ss_dssp EEEEEEEETTCSSEEEEEC------CSSSS-S----EEEEETTTEEEEEE----TTSSTEEEEEEETTS
T ss_pred CCcEEEEecCCceEEEeec------CCCCC-c----eEEEEHHHhhhhccC--CCCCcceEEEEEEecC
Confidence 35999999888 766544 11221 1 699999999986644 3344555678887766
No 13
>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=53.27 E-value=13 Score=22.55 Aligned_cols=16 Identities=19% Similarity=0.216 Sum_probs=13.5
Q ss_pred cHHHHHHHHHHHHhhh
Q 024728 236 NFEKATNHLLNSLSEY 251 (263)
Q Consensus 236 nY~KA~k~Lq~Als~~ 251 (263)
+|++|++++++||+..
T Consensus 16 ~~~~A~~~~~~al~~~ 31 (34)
T PF00515_consen 16 DYEEALEYYQRALELD 31 (34)
T ss_dssp -HHHHHHHHHHHHHHS
T ss_pred CchHHHHHHHHHHHHC
Confidence 6899999999999854
No 14
>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=52.37 E-value=57 Score=22.11 Aligned_cols=61 Identities=13% Similarity=0.072 Sum_probs=37.8
Q ss_pred EEecceEEEeeCCCeeeeCCCCCeeeeEEEEeeecCcccccccccccc-CcCCceEEEEEecCceeeeeec
Q 024728 165 YLSTARVAFCSDRPLCFTAPSGQEAWSYYKVMIPLANISSVNPVTLKE-NASDKYMKIVTVEGHEFWFMGF 234 (263)
Q Consensus 165 fiSt~kvAFcSdrpl~~~sp~Gq~~~~yYKVvIPL~kik~Vnps~n~~-nPseKYIqIVTvD~~eFWFMGF 234 (263)
++....+.||++.+-.. .....-.|||..+ .|....+.. .+..-.+.|.+-++..|.|..-
T Consensus 24 ~L~~~~l~~~~~~~~~~--------~~~~~~~i~l~~~-~v~~~~~~~~~~~~~~f~l~~~~~~~~~f~~~ 85 (102)
T smart00233 24 VLFNSTLLYYKSEKAKK--------DYKPKGSIDLSGI-TVREAPDPDSAKKPHCFEIKTADRRSYLLQAE 85 (102)
T ss_pred EEECCEEEEEeCCCccc--------cCCCceEEECCcC-EEEeCCCCccCCCceEEEEEecCCceEEEEcC
Confidence 44455666666554321 1456778999998 555444432 3456677888777768888763
No 15
>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=50.32 E-value=18 Score=21.75 Aligned_cols=17 Identities=18% Similarity=0.239 Sum_probs=14.8
Q ss_pred cHHHHHHHHHHHHhhhh
Q 024728 236 NFEKATNHLLNSLSEYR 252 (263)
Q Consensus 236 nY~KA~k~Lq~Als~~~ 252 (263)
+|++|+++|+++++...
T Consensus 16 ~~~~A~~~~~~a~~~~~ 32 (34)
T PF13181_consen 16 DYEEALEYFEKALELNP 32 (34)
T ss_dssp SHHHHHHHHHHHHHHHT
T ss_pred CHHHHHHHHHHHHhhCC
Confidence 68999999999998654
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=50.18 E-value=16 Score=33.31 Aligned_cols=57 Identities=19% Similarity=0.375 Sum_probs=41.6
Q ss_pred eeeEEEEeeecCccccccccccccCc--CCceEEEEEecCceeeeeecccHHHHHHHHHHHHhhh
Q 024728 189 AWSYYKVMIPLANISSVNPVTLKENA--SDKYMKIVTVEGHEFWFMGFVNFEKATNHLLNSLSEY 251 (263)
Q Consensus 189 ~~~yYKVvIPL~kik~Vnps~n~~nP--seKYIqIVTvD~~eFWFMGFvnY~KA~k~Lq~Als~~ 251 (263)
.+..|.+.|||..|+++. +.+| .-.||.|+|-||.-| --+--++.-.+.|-++|+++
T Consensus 108 ~~~~~aFsv~lsdl~Si~----~~~p~~G~~~lv~~~kdG~~~--p~L~Fh~gg~~~fl~~L~~~ 166 (213)
T PF12068_consen 108 SRSSYAFSVPLSDLKSIR----VSKPSLGWWYLVFILKDGTSL--PPLHFHDGGSKEFLKSLQRY 166 (213)
T ss_pred CCcceEEEEEhhheeeEE----ecCCCCCceEEEEEecCCCcc--CceEEecCCHHHHHHHHHhh
Confidence 456889999999999999 5555 668999999999654 44444555555566666543
No 17
>KOG2415 consensus Electron transfer flavoprotein ubiquinone oxidoreductase [Energy production and conversion]
Probab=46.48 E-value=9.1 Score=39.47 Aligned_cols=37 Identities=38% Similarity=0.697 Sum_probs=31.1
Q ss_pred hhhccCcchhHHhhh--hhhhhhHHHhccCcchhhhhhc
Q 024728 101 HNLKTGPSVSEAAWG--KVNLTAKAITEGGFESLFKQIF 137 (263)
Q Consensus 101 ~hlk~gpsiseta~G--KlslGaKil~eGG~ekiFkQ~F 137 (263)
+.+|.-|+++..+.| +|..|||.|-|||+..|=|-.|
T Consensus 345 Qk~K~hP~i~~vleGgk~i~YgARaLNEGGfQsiPkl~F 383 (621)
T KOG2415|consen 345 QKMKHHPSISKVLEGGKRIAYGARALNEGGFQSIPKLVF 383 (621)
T ss_pred HHhhcCcchhhhhcCcceeeehhhhhccCCcccCccccc
Confidence 456777888888877 7999999999999999877655
No 18
>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=45.01 E-value=18 Score=35.39 Aligned_cols=84 Identities=24% Similarity=0.351 Sum_probs=60.7
Q ss_pred hccCCccchhcccc--ceeeecCCCcceeeEEEecceEEEeeCCCeeeeCCCCCeeeeEEEEeeecCccccccccccccC
Q 024728 136 IFATDPNEKLKKTF--ACYLSTTTGPVAGTLYLSTARVAFCSDRPLCFTAPSGQEAWSYYKVMIPLANISSVNPVTLKEN 213 (263)
Q Consensus 136 ~F~v~p~EkLlKa~--aCYLSTtaGPVaG~LfiSt~kvAFcSdrpl~~~sp~Gq~~~~yYKVvIPL~kik~Vnps~n~~n 213 (263)
.+-..|+|++.... .+=||+--|=+ |++||++-||..|+|--- .|.|.||.=+|+++.-...+.-
T Consensus 148 ~L~lLp~E~v~~~~~gVwnls~dqGnL-GtfivTNvRiVW~A~~ne------------~fNVSiPylqi~~i~ir~SKfG 214 (339)
T PF07289_consen 148 QLKLLPQEQVYSRVNGVWNLSSDQGNL-GTFIVTNVRIVWFADMNE------------SFNVSIPYLQIKSIRIRDSKFG 214 (339)
T ss_pred eEeeCCccEEeeccCCEEEcccCCCce-eEEEEeeeEEEEEccCCc------------cccccchHhhheeeeeeccccc
Confidence 34466777776665 47788888887 999999999999998643 3889999999999985555433
Q ss_pred cCCceEEEEEecCceeeeeecc
Q 024728 214 ASDKYMKIVTVEGHEFWFMGFV 235 (263)
Q Consensus 214 PseKYIqIVTvD~~eFWFMGFv 235 (263)
++ +-|-|....-=.-.||=
T Consensus 215 ~a---LVieT~~~sGgYVLGFR 233 (339)
T PF07289_consen 215 PA---LVIETSESSGGYVLGFR 233 (339)
T ss_pred eE---EEEEEeccCCcEEEEEE
Confidence 32 45555555544566773
No 19
>PF13176 TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_A 3RO2_A.
Probab=44.38 E-value=26 Score=22.24 Aligned_cols=18 Identities=28% Similarity=0.337 Sum_probs=13.8
Q ss_pred cHHHHHHHHHHHHhhhhh
Q 024728 236 NFEKATNHLLNSLSEYRA 253 (263)
Q Consensus 236 nY~KA~k~Lq~Als~~~~ 253 (263)
+|++|+.++++|+.....
T Consensus 14 ~~~~Ai~~y~~aL~l~~~ 31 (36)
T PF13176_consen 14 DYEKAIEYYEQALALARD 31 (36)
T ss_dssp -HHHHHHHHHHHHHHHHH
T ss_pred CHHHHHHHHHHHHHhccc
Confidence 699999999998765443
No 20
>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=41.69 E-value=96 Score=20.80 Aligned_cols=59 Identities=15% Similarity=0.166 Sum_probs=34.8
Q ss_pred EEEecceEEEeeCCCeeeeCCCCCeeeeEEEEeeecCccccccccccccCcCCceEEEEEecCceeeee
Q 024728 164 LYLSTARVAFCSDRPLCFTAPSGQEAWSYYKVMIPLANISSVNPVTLKENASDKYMKIVTVEGHEFWFM 232 (263)
Q Consensus 164 LfiSt~kvAFcSdrpl~~~sp~Gq~~~~yYKVvIPL~kik~Vnps~n~~nPseKYIqIVTvD~~eFWFM 232 (263)
+++....+.+|++.+-.. ....+-+|+|.. ..|....+.. ..+..++|++.++..|.|.
T Consensus 21 ~~L~~~~l~~~~~~~~~~--------~~~~~~~i~l~~-~~v~~~~~~~-~~~~~f~i~~~~~~~~~~~ 79 (96)
T cd00821 21 FVLFNDLLLYYKKKSSKK--------SYKPKGSIPLSG-AEVEESPDDS-GRKNCFEIRTPDGRSYLLQ 79 (96)
T ss_pred EEEECCEEEEEECCCCCc--------CCCCcceEEcCC-CEEEECCCcC-CCCcEEEEecCCCcEEEEE
Confidence 345566666666554321 234556778877 3333332221 3568888888887888886
No 21
>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=41.62 E-value=96 Score=21.02 Aligned_cols=64 Identities=20% Similarity=0.137 Sum_probs=38.8
Q ss_pred cceeeEEEecceEEEeeCCCeeeeCCCCCeeeeEEEEeeecCccccccccccccCcCCceEEEEEec--Cceeeeeec
Q 024728 159 PVAGTLYLSTARVAFCSDRPLCFTAPSGQEAWSYYKVMIPLANISSVNPVTLKENASDKYMKIVTVE--GHEFWFMGF 234 (263)
Q Consensus 159 PVaG~LfiSt~kvAFcSdrpl~~~sp~Gq~~~~yYKVvIPL~kik~Vnps~n~~nPseKYIqIVTvD--~~eFWFMGF 234 (263)
.--..++|+...+-++++..-..... -++||..+. |....... -...-++|++.+ +..++|.--
T Consensus 19 w~~~~~~l~~~~l~~~~~~~~~~~~~----------~~~~l~~~~-v~~~~~~~-~~~~~F~i~~~~~~~~~~~~~~~ 84 (99)
T cd00900 19 WKRRWFFLFDDGLLLYKSDDKKEIKP----------GSIPLSEIS-VEEDPDGS-DDPNCFAIVTKDRGRRVFVFQAD 84 (99)
T ss_pred ceeeEEEEECCEEEEEEcCCCCcCCC----------CEEEccceE-EEECCCCC-CCCceEEEECCCCCcEEEEEEcC
Confidence 34445666666676666665432211 568888888 66554322 234677888886 777777643
No 22
>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=39.51 E-value=32 Score=28.02 Aligned_cols=29 Identities=28% Similarity=0.447 Sum_probs=25.2
Q ss_pred EEecCceeeeeec---------ccHHHHHHHHHHHHhh
Q 024728 222 VTVEGHEFWFMGF---------VNFEKATNHLLNSLSE 250 (263)
Q Consensus 222 VTvD~~eFWFMGF---------vnY~KA~k~Lq~Als~ 250 (263)
+|-||+.+--||| ..|-++|+-+++.|+.
T Consensus 69 ltkdgf~lLvmg~tg~ka~~fK~~yI~~Fn~ME~~l~~ 106 (108)
T TIGR02681 69 LTEDGFTIVAMGYTTPKAMKMKEKFIKEFNEMKEHLQK 106 (108)
T ss_pred EcCCceEEEEecCChHHHHHHHHHHHHHHHHHHHHHhh
Confidence 4999999999999 3688999999998874
No 23
>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=39.37 E-value=19 Score=25.86 Aligned_cols=14 Identities=43% Similarity=0.826 Sum_probs=11.9
Q ss_pred ceEEEEEecCceee
Q 024728 217 KYMKIVTVEGHEFW 230 (263)
Q Consensus 217 KYIqIVTvD~~eFW 230 (263)
+||.++|-||++|=
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 68999999999984
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=39.16 E-value=28 Score=18.16 Aligned_cols=15 Identities=13% Similarity=0.257 Sum_probs=12.4
Q ss_pred cHHHHHHHHHHHHhh
Q 024728 236 NFEKATNHLLNSLSE 250 (263)
Q Consensus 236 nY~KA~k~Lq~Als~ 250 (263)
+|++|..++++++..
T Consensus 16 ~~~~a~~~~~~~~~~ 30 (34)
T smart00028 16 DYDEALEYYEKALEL 30 (34)
T ss_pred hHHHHHHHHHHHHcc
Confidence 678899999988864
No 25
>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=34.85 E-value=40 Score=26.69 Aligned_cols=48 Identities=25% Similarity=0.304 Sum_probs=30.4
Q ss_pred cceeeEEEecceEEEeeCCCeeeeCCCCCeeeeEEEEeeecCccccccccccccCcCCc
Q 024728 159 PVAGTLYLSTARVAFCSDRPLCFTAPSGQEAWSYYKVMIPLANISSVNPVTLKENASDK 217 (263)
Q Consensus 159 PVaG~LfiSt~kvAFcSdrpl~~~sp~Gq~~~~yYKVvIPL~kik~Vnps~n~~nPseK 217 (263)
=--|+||++|.||.+--|.-.. -.-+.|||..|..+.-....-+.+-|
T Consensus 35 ~q~G~l~LTsHRliw~d~~~~~-----------~~s~~l~L~~i~~~e~~~gf~~sSpK 82 (89)
T PF11605_consen 35 FQNGRLYLTSHRLIWVDDSDPS-----------KHSIALPLSLISHIEYSAGFLKSSPK 82 (89)
T ss_dssp -SCEEEEEESSEEEEEESSGHC-----------HH-EEEEGGGEEEEEEE-STTSSS-E
T ss_pred ccCCEEEEEeeEEEEEcCCCCc-----------eeEEEEEchHeEEEEEEccccCCCCe
Confidence 3479999999999997554321 12488999988888544444333333
No 26
>PF10882 bPH_5: Bacterial PH domain; InterPro: IPR020482 This entry contains membrane proteins with no known function.
Probab=33.47 E-value=33 Score=26.09 Aligned_cols=24 Identities=42% Similarity=0.624 Sum_probs=20.2
Q ss_pred eeeEEEEeeecCcccccccccccc
Q 024728 189 AWSYYKVMIPLANISSVNPVTLKE 212 (263)
Q Consensus 189 ~~~yYKVvIPL~kik~Vnps~n~~ 212 (263)
.|..+++.||+++|..|....+..
T Consensus 13 ~~~~~~~~Ip~~~I~~v~~~~~~~ 36 (100)
T PF10882_consen 13 RWPFGKITIPLAEIESVELVDDLP 36 (100)
T ss_pred EEccccEEEEHHHcEEEEeccccC
Confidence 477889999999999998776664
No 27
>COG1098 VacB Predicted RNA binding protein (contains ribosomal protein S1 domain) [Translation, ribosomal structure and biogenesis]
Probab=31.96 E-value=20 Score=30.95 Aligned_cols=36 Identities=28% Similarity=0.520 Sum_probs=30.4
Q ss_pred cchhhHHhhhhhhhccCcchh------HHhhhhhhhhhHHHhc
Q 024728 90 TKAETIARNIWHNLKTGPSVS------EAAWGKVNLTAKAITE 126 (263)
Q Consensus 90 rkae~~a~~i~~hlk~gpsis------eta~GKlslGaKil~e 126 (263)
.-|++++.+|.+||+.|-.+. |. .|||+|--|-+.+
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 468899999999999998653 33 8999999999887
No 28
>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=30.45 E-value=72 Score=25.94 Aligned_cols=36 Identities=19% Similarity=0.479 Sum_probs=24.7
Q ss_pred EEEEeeecCccccccccccccCcCCceEEEEEecCceeeee
Q 024728 192 YYKVMIPLANISSVNPVTLKENASDKYMKIVTVEGHEFWFM 232 (263)
Q Consensus 192 yYKVvIPL~kik~Vnps~n~~nPseKYIqIVTvD~~eFWFM 232 (263)
...|||||........ ++..+--=++++||.+|-.|
T Consensus 30 ~tRvVvPL~~~~~~~~-----~~~~~L~P~~~i~g~~~vl~ 65 (102)
T PF01845_consen 30 NTRVVVPLLPLSNLPG-----KPPRRLNPVFEIEGEDYVLM 65 (102)
T ss_dssp SEEEEEEEEEGGGTSS-----TS-TTTS-EEEETTEEEEE-
T ss_pred CcEEEEecCchhhcCc-----ccCCceeeEEEECCEEEEEE
Confidence 4679999998887751 34444445899999998754
No 29
>PF09890 DUF2117: Uncharacterized protein conserved in archaea (DUF2117); InterPro: IPR012032 There are currently no experimental data for members of this group or their homologues, nor do they exhibit features indicative of any function.
Probab=29.55 E-value=24 Score=32.62 Aligned_cols=66 Identities=24% Similarity=0.327 Sum_probs=43.7
Q ss_pred hhhcccch---hhHHhhhhhhhccCcchhHHhhhhhhhhhHHHhccCcchhhhhhccCCccchhccccceeeecCCCcce
Q 024728 85 FNNWSTKA---ETIARNIWHNLKTGPSVSEAAWGKVNLTAKAITEGGFESLFKQIFATDPNEKLKKTFACYLSTTTGPVA 161 (263)
Q Consensus 85 ~n~~grka---e~~a~~i~~hlk~gpsiseta~GKlslGaKil~eGG~ekiFkQ~F~v~p~EkLlKa~aCYLSTtaGPVa 161 (263)
+--|.+++ +.+|..+-+||.+--+- -+.--++.+...- +|+ .++||.+.+|.|||.++= .|-|.
T Consensus 46 ii~Wn~~~~~~~~~a~~Ls~~l~l~i~~--p~~~~i~~~~~~~-~~~-~~v~R~i~Gv~pGE~I~V---------NGiVI 112 (215)
T PF09890_consen 46 IIPWNKKAEEVEPIAEKLSELLGLKIVR--PVENPISSGENCW-EGK-GRVFRKISGVSPGENIFV---------NGIVI 112 (215)
T ss_pred EEeccccccchHHHHHHHHHHhCCCccC--cccccccCccccc-cCC-ceEEEEEeccCCCCCEEE---------eeEEE
Confidence 34466777 99999999998775221 1233334443322 333 789999999999998752 57777
Q ss_pred ee
Q 024728 162 GT 163 (263)
Q Consensus 162 G~ 163 (263)
|.
T Consensus 113 G~ 114 (215)
T PF09890_consen 113 GR 114 (215)
T ss_pred EE
Confidence 75
No 30
>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=28.39 E-value=1e+02 Score=24.57 Aligned_cols=46 Identities=20% Similarity=0.242 Sum_probs=29.9
Q ss_pred CCCeeeeCCCCCeeeeEEEEeeecCccccccccccccCcCCce-EEEEEecC
Q 024728 176 DRPLCFTAPSGQEAWSYYKVMIPLANISSVNPVTLKENASDKY-MKIVTVEG 226 (263)
Q Consensus 176 drpl~~~sp~Gq~~~~yYKVvIPL~kik~Vnps~n~~nPseKY-IqIVTvD~ 226 (263)
++-|+|....+ ..-+=.|||..|++|....+.... .+| +||||-|.
T Consensus 30 ~~~L~Y~k~~~----~~~~g~I~L~~i~~ve~v~~~~~~-~~~~fqivt~~r 76 (98)
T cd01244 30 TTHLSWAKDVQ----CKKSALIKLAAIKGTEPLSDKSFV-NVDIITIVCEDD 76 (98)
T ss_pred CCEEEEECCCC----CceeeeEEccceEEEEEcCCcccC-CCceEEEEeCCC
Confidence 44566554333 245668999999999866654222 246 89999775
No 31
>PF13174 TPR_6: Tetratricopeptide repeat; PDB: 3QKY_A 2XEV_A 3URZ_B 2Q7F_A.
Probab=28.25 E-value=63 Score=18.84 Aligned_cols=17 Identities=12% Similarity=0.403 Sum_probs=14.2
Q ss_pred cHHHHHHHHHHHHhhhh
Q 024728 236 NFEKATNHLLNSLSEYR 252 (263)
Q Consensus 236 nY~KA~k~Lq~Als~~~ 252 (263)
+|++|.+.|++.+.++-
T Consensus 15 ~~~~A~~~~~~~~~~~P 31 (33)
T PF13174_consen 15 DYDEAIEYFQRLIKRYP 31 (33)
T ss_dssp HHHHHHHHHHHHHHHST
T ss_pred CHHHHHHHHHHHHHHCc
Confidence 68899999999988764
No 32
>PF14472 DUF4429: Domain of unknown function (DUF4429)
Probab=27.96 E-value=68 Score=25.10 Aligned_cols=30 Identities=30% Similarity=0.474 Sum_probs=23.1
Q ss_pred EeeecCccccccccccccCcCCc---eEEEEEecCce
Q 024728 195 VMIPLANISSVNPVTLKENASDK---YMKIVTVEGHE 228 (263)
Q Consensus 195 VvIPL~kik~Vnps~n~~nPseK---YIqIVTvD~~e 228 (263)
..|||..|..|. -+.|.-+ ||+++..++-+
T Consensus 27 ~~ipl~~i~gV~----~~~pg~~~~G~Lrf~~~~g~~ 59 (94)
T PF14472_consen 27 KTIPLSAISGVE----WKPPGGLTNGYLRFVLRGGAD 59 (94)
T ss_pred EEEEHHHcceEE----EEcCCceeEEEEEEEECCcCc
Confidence 679999999998 5556544 89999887443
No 33
>PRK13708 plasmid maintenance protein CcdB; Provisional
Probab=27.89 E-value=77 Score=26.06 Aligned_cols=35 Identities=20% Similarity=0.396 Sum_probs=25.5
Q ss_pred EEEeeecCccccccccccccCcCCceEEEEEecCceeeee
Q 024728 193 YKVMIPLANISSVNPVTLKENASDKYMKIVTVEGHEFWFM 232 (263)
Q Consensus 193 YKVvIPL~kik~Vnps~n~~nPseKYIqIVTvD~~eFWFM 232 (263)
-+|||||-......+.. ..+--=++++||.+|-.|
T Consensus 30 tRvViPL~~~~~~~~~~-----~~rL~P~~~I~g~~~vl~ 64 (101)
T PRK13708 30 RRMVIPLASARLLSDKV-----SRELYPVVHIGDESYRLM 64 (101)
T ss_pred ceEEEeCccHHHCCCCc-----CCCcCceEEECCeEEEEE
Confidence 47999999888877533 133444789999999754
No 34
>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=26.90 E-value=59 Score=19.97 Aligned_cols=15 Identities=20% Similarity=0.315 Sum_probs=13.0
Q ss_pred cHHHHHHHHHHHHhh
Q 024728 236 NFEKATNHLLNSLSE 250 (263)
Q Consensus 236 nY~KA~k~Lq~Als~ 250 (263)
++++|+++|++|.++
T Consensus 23 d~~~A~~~~~~Aa~~ 37 (39)
T PF08238_consen 23 DYEKAFKWYEKAAEQ 37 (39)
T ss_dssp HHHHHHHHHHHHHHT
T ss_pred cccchHHHHHHHHHc
Confidence 789999999998764
No 35
>KOG1032 consensus Uncharacterized conserved protein, contains GRAM domain [Function unknown]
Probab=26.65 E-value=1.2e+02 Score=31.53 Aligned_cols=98 Identities=20% Similarity=0.355 Sum_probs=65.8
Q ss_pred CCccchhccccceeeecCCCcceeeEEEecceEEEeeCCCeeeeCCCCCeeeeEEEEeeecCccccccccccccCcCCce
Q 024728 139 TDPNEKLKKTFACYLSTTTGPVAGTLYLSTARVAFCSDRPLCFTAPSGQEAWSYYKVMIPLANISSVNPVTLKENASDKY 218 (263)
Q Consensus 139 v~p~EkLlKa~aCYLSTtaGPVaG~LfiSt~kvAFcSdrpl~~~sp~Gq~~~~yYKVvIPL~kik~Vnps~n~~nPseKY 218 (263)
+.++|+|+..+.|+|.-.-. .=|=+|||...|+|-|.- -| | --|||||+..|..+.......- ..-=
T Consensus 117 ~~~~~~l~~~~~cal~reil-lQGrmyis~~~icF~s~i-------~g---w-~~~~vIpf~eI~~ikk~~tag~-fpn~ 183 (590)
T KOG1032|consen 117 VPDPEILLTDYSCALQREIL-LQGRMYISEEHICFNSNI-------FG---W-ETKVVIPFDEITLIKKTKTAGI-FPNA 183 (590)
T ss_pred CCCcceeeeecchhhccccc-cccccccccceeeecccc-------cC---c-cceeEEeeeeeeeeehhhhccC-CCcc
Confidence 77999999999999988754 458899999999887653 11 1 2578888888777664331111 1112
Q ss_pred EEEEEecCceeeeeecccHHHHHHHHHHHHhh
Q 024728 219 MKIVTVEGHEFWFMGFVNFEKATNHLLNSLSE 250 (263)
Q Consensus 219 IqIVTvD~~eFWFMGFvnY~KA~k~Lq~Als~ 250 (263)
|+|-|+.. -+=|.+|+.=|-+++....-+..
T Consensus 184 i~i~t~~~-ky~f~s~~Srda~~~~~~~~~~~ 214 (590)
T KOG1032|consen 184 IEITTGTT-KYIFVSLLSRDATYKLIKLLLHK 214 (590)
T ss_pred eEEecCCC-cceeeecccCccHHHHHHHhhhh
Confidence 55554444 45578999999999855444433
No 36
>PF13374 TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT_H 3NF1_A.
Probab=26.59 E-value=68 Score=19.45 Aligned_cols=19 Identities=21% Similarity=0.207 Sum_probs=13.8
Q ss_pred cHHHHHHHHHHHHhhhhhc
Q 024728 236 NFEKATNHLLNSLSEYRAT 254 (263)
Q Consensus 236 nY~KA~k~Lq~Als~~~~~ 254 (263)
.|++|.+++++|+.-.+.-
T Consensus 17 ~~~~A~~~~~~al~~~~~~ 35 (42)
T PF13374_consen 17 RYEEALELLEEALEIRERL 35 (42)
T ss_dssp -HHHHHHHHHHHHHHH---
T ss_pred hcchhhHHHHHHHHHHHHH
Confidence 6899999999999876543
No 37
>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=25.21 E-value=1.4e+02 Score=22.12 Aligned_cols=39 Identities=23% Similarity=0.331 Sum_probs=24.5
Q ss_pred EEeeecCccc-cccccccccCcCCceEEEEEecCceeeeeeccc
Q 024728 194 KVMIPLANIS-SVNPVTLKENASDKYMKIVTVEGHEFWFMGFVN 236 (263)
Q Consensus 194 KVvIPL~kik-~Vnps~n~~nPseKYIqIVTvD~~eFWFMGFvn 236 (263)
||.||++.-+ .|+++-.. -+|+.|+.+|+..+.+..++.
T Consensus 2 ~IAv~~~~~~~~v~~hFg~----a~~f~i~d~~~~~~~~~~~~~ 41 (103)
T cd00851 2 KIAIPVSGNGGKVSPHFGR----APYFLIYDVETGKIKNVEVIE 41 (103)
T ss_pred EEEEEecCCCccccCcccc----CCEEEEEEccCCcEeEEEEec
Confidence 5677776666 56544433 467777777777666665553
No 38
>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=25.16 E-value=66 Score=22.53 Aligned_cols=16 Identities=19% Similarity=0.399 Sum_probs=11.5
Q ss_pred cHHHHHHHHHHHHhhh
Q 024728 236 NFEKATNHLLNSLSEY 251 (263)
Q Consensus 236 nY~KA~k~Lq~Als~~ 251 (263)
+|++|++++++|+..+
T Consensus 61 ~~~~A~~~~~~al~i~ 76 (78)
T PF13424_consen 61 DYEEALEYYQKALDIF 76 (78)
T ss_dssp HHHHHHHHHHHHHHHH
T ss_pred CHHHHHHHHHHHHhhh
Confidence 5677778887777654
No 39
>KOG3294 consensus WW domain binding protein WBP-2, contains GRAM domain [Signal transduction mechanisms]
Probab=24.17 E-value=60 Score=30.97 Aligned_cols=39 Identities=33% Similarity=0.629 Sum_probs=26.8
Q ss_pred CcceeeEEEecceEEEeeCCCeeeeCCCCCeeeeEEEEeeecCcccccc
Q 024728 158 GPVAGTLYLSTARVAFCSDRPLCFTAPSGQEAWSYYKVMIPLANISSVN 206 (263)
Q Consensus 158 GPVaG~LfiSt~kvAFcSdrpl~~~sp~Gq~~~~yYKVvIPL~kik~Vn 206 (263)
|=--|+|||++.||-|-|+.+-.- ---.++|+.-|+.++
T Consensus 45 g~kkGtlyLTs~RiIFis~~~~D~----------fksF~MPf~~mkd~k 83 (261)
T KOG3294|consen 45 GTKKGTLYLTSHRIIFISSKPKDA----------FKSFMMPFNLMKDVK 83 (261)
T ss_pred cceeeeEEeecceEEEecCCCCcc----------hhhhcchhhhhhhce
Confidence 344699999999999999886220 112456777666655
No 40
>PF10096 DUF2334: Uncharacterized protein conserved in bacteria (DUF2334); InterPro: IPR018763 This group of proteins has no known function.
Probab=23.97 E-value=76 Score=28.66 Aligned_cols=42 Identities=26% Similarity=0.407 Sum_probs=34.3
Q ss_pred CCceEEEEEecCceeeeeec---ccHHHHHHHHHHHHhhhhhcCC
Q 024728 215 SDKYMKIVTVEGHEFWFMGF---VNFEKATNHLLNSLSEYRATGS 256 (263)
Q Consensus 215 seKYIqIVTvD~~eFWFMGF---vnY~KA~k~Lq~Als~~~~~~~ 256 (263)
.-.|..=++-+++|||---+ .+.+.|...|+++++.....+.
T Consensus 77 tHq~~~~~sg~~~ef~~~~~~~~~~~~~a~~ri~~gl~~l~~~gi 121 (243)
T PF10096_consen 77 THQYGNSVSGDGFEFWDSEFDAGDSEEEAKERIEKGLEILAELGI 121 (243)
T ss_pred ceecCCCcccccceeccccccccCCHHHHHHHHHHHHHHHHHCCC
Confidence 33445556789999999988 8999999999999998877765
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=23.15 E-value=1.4e+02 Score=24.51 Aligned_cols=58 Identities=14% Similarity=0.284 Sum_probs=44.8
Q ss_pred ccCcchhHHhhhhhhhhhHHHhccC-cchhhhhhccCCccchhccccceeeecCCCcceeeEEEec
Q 024728 104 KTGPSVSEAAWGKVNLTAKAITEGG-FESLFKQIFATDPNEKLKKTFACYLSTTTGPVAGTLYLST 168 (263)
Q Consensus 104 k~gpsiseta~GKlslGaKil~eGG-~ekiFkQ~F~v~p~EkLlKa~aCYLSTtaGPVaG~LfiSt 168 (263)
++|-.+++. +-++|++.. -+..+...+...++-|++|++-.++--..|=+.|+|=|-.
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 455555544 566777766 4666777788888889999999999999999999997753
No 42
>PF05553 DUF761: Cotton fibre expressed protein; InterPro: IPR008480 This family consists of several plant proteins of unknown function. Three of the sequences from Gossypium hirsutum (Upland cotton) in this family are described as G. hirsutum fibre expressed proteins []. The remaining sequences, found in Arabidopsis thaliana, are uncharacterised.
Probab=22.98 E-value=39 Score=23.42 Aligned_cols=17 Identities=18% Similarity=0.270 Sum_probs=15.5
Q ss_pred cchhhHHhhhhhhhccC
Q 024728 90 TKAETIARNIWHNLKTG 106 (263)
Q Consensus 90 rkae~~a~~i~~hlk~g 106 (263)
++||.|..+++++||+=
T Consensus 7 ~rAe~FI~~f~~qlrlq 23 (38)
T PF05553_consen 7 RRAEEFIAKFREQLRLQ 23 (38)
T ss_pred HHHHHHHHHHHHHHHHH
Confidence 68999999999999984
No 43
>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=22.97 E-value=71 Score=21.75 Aligned_cols=16 Identities=13% Similarity=0.233 Sum_probs=13.2
Q ss_pred cHHHHHHHHHHHHhhh
Q 024728 236 NFEKATNHLLNSLSEY 251 (263)
Q Consensus 236 nY~KA~k~Lq~Als~~ 251 (263)
+|++|++++++||+..
T Consensus 18 ~~~~A~~~~~~ai~~~ 33 (69)
T PF13414_consen 18 DYEEAIEYFEKAIELD 33 (69)
T ss_dssp HHHHHHHHHHHHHHHS
T ss_pred CHHHHHHHHHHHHHcC
Confidence 6889999999998753
No 44
>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=22.24 E-value=54 Score=23.81 Aligned_cols=17 Identities=41% Similarity=0.864 Sum_probs=15.8
Q ss_pred eeeecccHHHHHHHHHH
Q 024728 230 WFMGFVNFEKATNHLLN 246 (263)
Q Consensus 230 WFMGFvnY~KA~k~Lq~ 246 (263)
||.|+++=+.|-+.|++
T Consensus 3 w~~g~i~r~~Ae~lL~~ 19 (84)
T smart00252 3 WYHGFISREEAEKLLKN 19 (84)
T ss_pred eecccCCHHHHHHHHhc
Confidence 99999999999998876
No 45
>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=21.42 E-value=1.3e+02 Score=24.21 Aligned_cols=35 Identities=20% Similarity=0.213 Sum_probs=25.1
Q ss_pred eEEEEeeecCccccccccccccCcCCceEEEEEecCceeeeeeccc
Q 024728 191 SYYKVMIPLANISSVNPVTLKENASDKYMKIVTVEGHEFWFMGFVN 236 (263)
Q Consensus 191 ~yYKVvIPL~kik~Vnps~n~~nPseKYIqIVTvD~~eFWFMGFvn 236 (263)
..|.|.|.-. ...|.|+|---|+..+- -.|.||+-
T Consensus 19 ~py~i~~~~~----------~y~pG~~~~Vtl~~~~~-~~F~GF~l 53 (135)
T cd08544 19 SPYSITISGN----------SYVPGETYTVTLSGSSP-SPFRGFLL 53 (135)
T ss_pred CCEEEEeCCC----------EECCCCEEEEEEECCCC-CceeEEEE
Confidence 7799888655 55788888655555444 68999973
No 46
>cd02680 MIT_calpain7_2 MIT: domain contained within Microtubule Interacting and Trafficking molecules. This sub-family of MIT domains is found in the nuclear thiol protease PalBH. The molecular function of the MIT domain is unclear.
Probab=21.26 E-value=81 Score=24.49 Aligned_cols=17 Identities=18% Similarity=0.083 Sum_probs=14.9
Q ss_pred cHHHHHHHHHHHHhhhh
Q 024728 236 NFEKATNHLLNSLSEYR 252 (263)
Q Consensus 236 nY~KA~k~Lq~Als~~~ 252 (263)
||++|++.+.+||..+.
T Consensus 21 ny~eA~~lY~~ale~~~ 37 (75)
T cd02680 21 NAEEAIELYTEAVELCI 37 (75)
T ss_pred hHHHHHHHHHHHHHHHH
Confidence 79999999999998754
No 47
>PF12862 Apc5: Anaphase-promoting complex subunit 5
Probab=21.12 E-value=86 Score=23.86 Aligned_cols=21 Identities=24% Similarity=0.341 Sum_probs=17.6
Q ss_pred ccHHHHHHHHHHHHhhhhhcC
Q 024728 235 VNFEKATNHLLNSLSEYRATG 255 (263)
Q Consensus 235 vnY~KA~k~Lq~Als~~~~~~ 255 (263)
=++++|++.|++||+.++..+
T Consensus 55 G~~~~A~~~l~eAi~~Are~~ 75 (94)
T PF12862_consen 55 GHYEEALQALEEAIRLARENG 75 (94)
T ss_pred CCHHHHHHHHHHHHHHHHHHC
Confidence 378999999999999887654
No 48
>PF03517 Voldacs: Regulator of volume decrease after cellular swelling; InterPro: IPR003521 The nucleotide-sensitive chloride conductance regulatory protein (ICln) is found ubiquitously in mammalian (and other) cell types and is postulated to play a critical role in cell volume regulation. Initial studies proposed that ICln was itself a swelling-activated anion channel; however, further studies demonstrated that it is localised primarily to the cell cytoplasm. It has therefore been postulated that activation of cell volume regulation may involve reversible translocation of ICln from the cytoplasm, and its insertion into the plasma membrane. It is not resolved whether the anionic channel involved in cell volume regulation after cell-swelling comprises one or more subunits, and if it does, whether ICln is in fact one of them [].; GO: 0006821 chloride transport, 0006884 cell volume homeostasis; PDB: 1ZYI_A.
Probab=20.68 E-value=78 Score=26.23 Aligned_cols=15 Identities=40% Similarity=0.846 Sum_probs=13.6
Q ss_pred eeEEEecceEEEeeC
Q 024728 162 GTLYLSTARVAFCSD 176 (263)
Q Consensus 162 G~LfiSt~kvAFcSd 176 (263)
|.|||.+.+|.|-|+
T Consensus 1 g~L~Vt~~~l~w~~~ 15 (135)
T PF03517_consen 1 GTLYVTESRLIWFSN 15 (135)
T ss_dssp EEEEEETTEEEEEET
T ss_pred CEEEEecCEEEEECC
Confidence 899999999999883
No 49
>cd00562 NifX_NifB This CD represents a family of iron-molybdenum cluster-binding proteins that includes NifB, NifX, 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=20.42 E-value=1.5e+02 Score=21.81 Aligned_cols=39 Identities=13% Similarity=0.059 Sum_probs=24.5
Q ss_pred EEeeecCccccccccccccCcCCceEEEEEecCceeeeeeccc
Q 024728 194 KVMIPLANISSVNPVTLKENASDKYMKIVTVEGHEFWFMGFVN 236 (263)
Q Consensus 194 KVvIPL~kik~Vnps~n~~nPseKYIqIVTvD~~eFWFMGFvn 236 (263)
||.||+..-+.|+++--+ -+|+.|+.+++.++.+...+.
T Consensus 1 kIAi~~~~~~~v~~hFg~----A~~f~I~d~~~~~~~~~e~~~ 39 (102)
T cd00562 1 KIAVASSDGGRVDQHFGR----APEFLIYEVEPGGIKLVEVRE 39 (102)
T ss_pred CEEEEcCCCCEehhhcCC----CCeEEEEEEcCCcEEEEEEEe
Confidence 466666665555554443 467777777777766666553
Done!