Query 027849
Match_columns 218
No_of_seqs 120 out of 138
Neff 3.3
Searched_HMMs 46136
Date Fri Mar 29 16:09:07 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/027849.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/027849hhsearch_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 99.4 7.7E-14 1.7E-18 98.5 2.9 66 89-164 2-67 (69)
2 smart00568 GRAM domain in gluc 99.3 5E-12 1.1E-16 87.3 4.0 59 96-165 2-60 (61)
3 PF14470 bPH_3: Bacterial PH d 96.4 0.027 5.9E-07 40.8 7.9 94 97-206 2-95 (96)
4 KOG1032 Uncharacterized conser 96.0 0.01 2.2E-07 58.9 5.1 106 96-215 117-222 (590)
5 KOG4347 GTPase-activating prot 93.5 0.079 1.7E-06 53.7 4.0 99 92-205 14-114 (671)
6 PF14844 PH_BEACH: PH domain a 90.3 0.43 9.4E-06 36.1 3.9 85 102-188 2-90 (106)
7 PF00169 PH: PH domain; Inter 82.5 6.3 0.00014 27.1 6.1 64 126-190 19-86 (104)
8 smart00683 DM16 Repeats in sea 74.1 5.2 0.00011 28.9 3.6 38 113-163 16-53 (55)
9 smart00233 PH Pleckstrin homol 68.4 24 0.00052 23.4 5.7 43 148-191 42-85 (102)
10 KOG4471 Phosphatidylinositol 3 68.1 10 0.00022 39.1 5.4 95 90-198 30-125 (717)
11 PF08498 Sterol_MT_C: Sterol m 66.7 1.8 3.9E-05 32.3 -0.1 52 35-93 7-58 (67)
12 KOG3473 RNA polymerase II tran 65.6 3.3 7.2E-05 33.8 1.3 22 167-188 10-31 (112)
13 PF07289 DUF1448: Protein of u 65.1 13 0.00029 35.4 5.2 84 94-193 149-234 (339)
14 PF11605 Vps36_ESCRT-II: Vacuo 63.3 8.6 0.00019 29.6 3.1 47 117-174 36-82 (89)
15 PF07719 TPR_2: Tetratricopept 57.9 12 0.00025 21.7 2.4 17 193-209 16-32 (34)
16 PF08567 TFIIH_BTF_p62_N: TFII 54.3 66 0.0014 24.1 6.5 54 117-183 12-67 (79)
17 PF01845 CcdB: CcdB protein; 51.2 24 0.00053 27.9 3.8 35 149-189 30-65 (102)
18 PF00515 TPR_1: Tetratricopept 50.1 18 0.00038 21.3 2.3 17 193-209 16-32 (34)
19 PF13174 TPR_6: Tetratricopept 48.5 20 0.00043 20.5 2.3 19 193-211 15-33 (33)
20 smart00028 TPR Tetratricopepti 47.6 25 0.00053 17.9 2.5 16 193-208 16-31 (34)
21 PF06576 DUF1133: Protein of u 47.3 8.4 0.00018 33.8 0.8 80 27-134 18-99 (176)
22 PF13181 TPR_8: Tetratricopept 46.7 20 0.00042 21.0 2.1 16 193-208 16-31 (34)
23 cd00900 PH-like Pleckstrin hom 46.0 56 0.0012 21.6 4.6 65 115-191 18-84 (99)
24 cd00821 PH Pleckstrin homology 46.0 83 0.0018 20.6 5.5 60 120-189 20-79 (96)
25 PF03931 Skp1_POZ: Skp1 family 45.8 14 0.00029 26.0 1.5 14 174-187 1-14 (62)
26 PRK13708 plasmid maintenance p 45.4 31 0.00067 27.6 3.6 34 150-189 30-64 (101)
27 cd00851 MTH1175 This uncharact 44.0 55 0.0012 23.7 4.6 39 151-193 2-41 (103)
28 PF00017 SH2: SH2 domain; Int 42.7 14 0.00031 25.8 1.2 17 187-203 1-17 (77)
29 TIGR02681 phage_pRha phage reg 41.7 32 0.0007 27.2 3.2 30 179-208 69-107 (108)
30 cd01244 PH_RasGAP_CG9209 RAS_G 41.1 48 0.001 25.7 4.0 47 133-183 30-76 (98)
31 smart00252 SH2 Src homology 2 40.4 17 0.00037 25.7 1.4 17 187-203 3-19 (84)
32 PF12068 DUF3548: Domain of un 39.2 35 0.00076 30.3 3.4 59 145-207 107-165 (213)
33 PF08238 Sel1: Sel1 repeat; I 38.4 32 0.0007 20.6 2.2 16 193-208 23-38 (39)
34 PF10882 bPH_5: Bacterial PH d 37.9 29 0.00064 25.6 2.4 25 145-169 12-36 (100)
35 PF13176 TPR_7: Tetratricopept 37.0 32 0.00069 21.3 2.1 14 193-206 14-27 (36)
36 cd00562 NifX_NifB This CD repr 36.1 66 0.0014 23.2 3.9 40 151-194 1-40 (102)
37 cd01239 PH_PKD Protein kinase 34.9 87 0.0019 25.9 4.8 40 148-190 38-80 (117)
38 cd00852 NifB NifB belongs to a 32.8 85 0.0018 23.6 4.2 41 151-195 1-41 (106)
39 smart00671 SEL1 Sel1-like repe 32.6 49 0.0011 19.3 2.3 17 192-208 19-35 (36)
40 KOG2415 Electron transfer flav 30.5 17 0.00036 36.7 0.0 36 60-95 347-384 (621)
41 PF13374 TPR_10: Tetratricopep 29.8 35 0.00077 20.2 1.4 22 193-214 17-38 (42)
42 cd00173 SH2 Src homology 2 dom 29.4 29 0.00063 24.7 1.1 17 187-203 2-18 (94)
43 PF08512 Rtt106: Histone chape 28.1 2.7E+02 0.0058 21.1 6.3 61 115-191 9-73 (95)
44 cd01201 Neurobeachin Neurobeac 28.0 82 0.0018 25.6 3.5 82 103-188 4-90 (108)
45 PF08909 DUF1854: Domain of un 26.3 46 0.001 27.8 1.9 35 172-206 17-53 (133)
46 KOG3294 WW domain binding prot 24.2 60 0.0013 30.1 2.4 86 115-212 45-142 (261)
47 PF14559 TPR_19: Tetratricopep 24.1 77 0.0017 20.8 2.4 18 193-210 6-23 (68)
48 PF14472 DUF4429: Domain of un 24.0 93 0.002 23.7 3.0 30 152-185 27-59 (94)
49 PF04283 CheF-arch: Chemotaxis 23.4 2.9E+02 0.0062 24.5 6.4 55 114-183 23-80 (221)
50 PF10756 bPH_6: Bacterial PH d 23.0 69 0.0015 22.8 2.1 36 151-191 19-54 (73)
51 smart00512 Skp1 Found in Skp1 21.4 70 0.0015 24.1 1.9 30 174-207 2-33 (104)
52 PF13428 TPR_14: Tetratricopep 21.3 1E+02 0.0022 19.5 2.4 19 193-211 16-34 (44)
53 PF13414 TPR_11: TPR repeat; P 20.9 84 0.0018 20.8 2.1 17 193-209 18-34 (69)
54 PF04326 AAA_4: Divergent AAA 20.7 71 0.0015 23.8 1.8 31 90-124 7-40 (122)
55 PF13424 TPR_12: Tetratricopep 20.4 89 0.0019 21.3 2.1 15 193-207 20-34 (78)
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=99.42 E-value=7.7e-14 Score=98.47 Aligned_cols=66 Identities=29% Similarity=0.506 Sum_probs=46.0
Q ss_pred eeeecccCCccchhhhhhcceeecCCCcceeeEEeecceEEEeeCCCceeeCCCCCeeeEEEEEEEeccccccccC
Q 027849 89 VFQQEFHKLAGEKLLKAYACYISTSNGPVIGTLYISTQRMAFCSDYPLSHYSSSGQQEWVYFKVVVDLDQLRTVNP 164 (218)
Q Consensus 89 iFkQ~F~v~~~EkLlKa~~CYLSTtaGPVaG~LfiSt~kvAFcSdrpl~~~sp~g~~~~~~YKVvIPL~kik~Vnp 164 (218)
-|++.|...++|+|...|.|+|.++.+|+.|.||||+.+++|+|+.+-.-. ++++|||..|..|+.
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 589999999999999999999999999999999999999999998766521 699999999999864
No 2
>smart00568 GRAM domain in glucosyltransferases, myotubularins and other putative membrane-associated proteins.
Probab=99.26 E-value=5e-12 Score=87.31 Aligned_cols=59 Identities=42% Similarity=0.691 Sum_probs=51.1
Q ss_pred CCccchhhhhhcceeecCCCcceeeEEeecceEEEeeCCCceeeCCCCCeeeEEEEEEEeccccccccCC
Q 027849 96 KLAGEKLLKAYACYISTSNGPVIGTLYISTQRMAFCSDYPLSHYSSSGQQEWVYFKVVVDLDQLRTVNPS 165 (218)
Q Consensus 96 v~~~EkLlKa~~CYLSTtaGPVaG~LfiSt~kvAFcSdrpl~~~sp~g~~~~~~YKVvIPL~kik~Vnps 165 (218)
..++|+|+..|.|+|+ +.+|+.|.||||+.+++|+|+.+-... .+++|||+.|.+|+..
T Consensus 2 l~~~E~l~~~~~C~l~-~~~~~~G~lyiT~~~l~F~S~~~~~~~----------~~~~ipl~~I~~i~k~ 60 (61)
T smart00568 2 LPEEEKLIADYSCYLS-RDGPVQGRLYISNYRLCFRSDLPGKLT----------PKVVIPLADITRIEKS 60 (61)
T ss_pred cCCCcEEEEEEEeEEC-CCccccEEEEEECCEEEEEccCCCCee----------EEEEEEHHHeeEEEEC
Confidence 4689999999999999 569999999999999999998765421 2999999999998653
No 3
>PF14470 bPH_3: Bacterial PH domain
Probab=96.38 E-value=0.027 Score=40.81 Aligned_cols=94 Identities=16% Similarity=0.126 Sum_probs=67.4
Q ss_pred CccchhhhhhcceeecCCCcceeeEEeecceEEEeeCCCceeeCCCCCeeeEEEEEEEeccccccccCCCCCCCCCCCeE
Q 027849 97 LAGEKLLKAYACYISTSNGPVIGTLYISTQRMAFCSDYPLSHYSSSGQQEWVYFKVVVDLDQLRTVNPSANRWNPSEKYI 176 (218)
Q Consensus 97 ~~~EkLlKa~~CYLSTtaGPVaG~LfiSt~kvAFcSdrpl~~~sp~g~~~~~~YKVvIPL~kik~Vnps~n~~~p~eKYI 176 (218)
.+||+.+-...|.+-...+.-.|+|+++++|+-||+-.++. + .....||+++|.+|+-.... -...|
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 57899999999988766778899999999999999885442 1 23589999999999877444 34679
Q ss_pred EEEEecCceeeeeeeccHHHHHHHHHHHHh
Q 027849 177 HVVTRDGYEFWFMGFISYDKALKTLTEALR 206 (218)
Q Consensus 177 qIvTvD~~eFWFMGFvnY~kA~k~Lq~al~ 206 (218)
.|.| ++..+=| +-+.-+ -++-+-+.++
T Consensus 69 ~i~~-~~~~~~i-~~i~k~-~~~~~~~~i~ 95 (96)
T PF14470_consen 69 TIET-NGEKIKI-DNIQKG-DVKEFYEYIK 95 (96)
T ss_pred EEEE-CCEEEEE-EEcCHH-HHHHHHHHHh
Confidence 9999 5555444 444333 3344444443
No 4
>KOG1032 consensus Uncharacterized conserved protein, contains GRAM domain [Function unknown]
Probab=95.97 E-value=0.01 Score=58.87 Aligned_cols=106 Identities=24% Similarity=0.340 Sum_probs=84.6
Q ss_pred CCccchhhhhhcceeecCCCcceeeEEeecceEEEeeCCCceeeCCCCCeeeEEEEEEEeccccccccCCCCCCCCCCCe
Q 027849 96 KLAGEKLLKAYACYISTSNGPVIGTLYISTQRMAFCSDYPLSHYSSSGQQEWVYFKVVVDLDQLRTVNPSANRWNPSEKY 175 (218)
Q Consensus 96 v~~~EkLlKa~~CYLSTtaGPVaG~LfiSt~kvAFcSdrpl~~~sp~g~~~~~~YKVvIPL~kik~Vnps~n~~~p~eKY 175 (218)
+.+.|+|+..+.|+|.-+ =..-|-+|||...+||-|.--=. --|||||++.|.-+....... -...-
T Consensus 117 ~~~~~~l~~~~~cal~re-illQGrmyis~~~icF~s~i~gw-----------~~~~vIpf~eI~~ikk~~tag-~fpn~ 183 (590)
T KOG1032|consen 117 VPDPEILLTDYSCALQRE-ILLQGRMYISEEHICFNSNIFGW-----------ETKVVIPFDEITLIKKTKTAG-IFPNA 183 (590)
T ss_pred CCCcceeeeecchhhccc-cccccccccccceeeecccccCc-----------cceeEEeeeeeeeeehhhhcc-CCCcc
Confidence 678999999999999987 45789999999999998874222 358999999999887776555 45667
Q ss_pred EEEEEecCceeeeeeeccHHHHHHHHHHHHhcCCCCCCCc
Q 027849 176 IHVVTRDGYEFWFMGFISYDKALKTLTEALRRFPDTSGGL 215 (218)
Q Consensus 176 IqIvTvD~~eFWFMGFvnY~kA~k~Lq~al~~~~~~~~~~ 215 (218)
|+|- ...--+-|.+|+.-|-+++....-+....+++|.+
T Consensus 184 i~i~-t~~~ky~f~s~~Srda~~~~~~~~~~~~~~~s~s~ 222 (590)
T KOG1032|consen 184 IEIT-TGTTKYIFVSLLSRDATYKLIKLLLHKFLDSSGSP 222 (590)
T ss_pred eEEe-cCCCcceeeecccCccHHHHHHHhhhhcccccCCc
Confidence 7877 44556678999999999998876677777777653
No 5
>KOG4347 consensus GTPase-activating protein VRP [General function prediction only]
Probab=93.53 E-value=0.079 Score=53.68 Aligned_cols=99 Identities=23% Similarity=0.213 Sum_probs=79.6
Q ss_pred ecccCCccchhhhhhcceeecCCCc--ceeeEEeecceEEEeeCCCceeeCCCCCeeeEEEEEEEeccccccccCCCCCC
Q 027849 92 QEFHKLAGEKLLKAYACYISTSNGP--VIGTLYISTQRMAFCSDYPLSHYSSSGQQEWVYFKVVVDLDQLRTVNPSANRW 169 (218)
Q Consensus 92 Q~F~v~~~EkLlKa~~CYLSTtaGP--VaG~LfiSt~kvAFcSdrpl~~~sp~g~~~~~~YKVvIPL~kik~Vnps~n~~ 169 (218)
-.|..+ |+|.-.-.|=|-|..-| ..|.||+||..+||.||-+=. -.+++||.-|+.|.... ..
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 456666 99999999999997774 899999999999999997654 26999999999997665 22
Q ss_pred CCCCCeEEEEEecCceeeeeeeccHHHHHHHHHHHH
Q 027849 170 NPSEKYIHVVTRDGYEFWFMGFISYDKALKTLTEAL 205 (218)
Q Consensus 170 ~p~eKYIqIvTvD~~eFWFMGFvnY~kA~k~Lq~al 205 (218)
+--+.=|.+.|..+-.|-|-|+..-++.+.-+..-.
T Consensus 79 s~~~~~i~~~~~~~~~~~f~~~~~r~~~~~k~~~~~ 114 (671)
T KOG4347|consen 79 SLFTQLISLFTSNMVGMRFGGLTERLKLLSKLHLPP 114 (671)
T ss_pred ccchhhhHHhhcCcceEEecchhhHHHHHHHHhchH
Confidence 233344778899999999999999988887665433
No 6
>PF14844 PH_BEACH: PH domain associated with Beige/BEACH; PDB: 1MI1_B 1T77_C.
Probab=90.28 E-value=0.43 Score=36.06 Aligned_cols=85 Identities=19% Similarity=0.231 Sum_probs=55.0
Q ss_pred hhhhhcceeecCCCcceeeEEeecceEEEeeCCCceeeC-CCC---CeeeEEEEEEEeccccccccCCCCCCCCCCCeEE
Q 027849 102 LLKAYACYISTSNGPVIGTLYISTQRMAFCSDYPLSHYS-SSG---QQEWVYFKVVVDLDQLRTVNPSANRWNPSEKYIH 177 (218)
Q Consensus 102 LlKa~~CYLSTtaGPVaG~LfiSt~kvAFcSdrpl~~~s-p~g---~~~~~~YKVvIPL~kik~Vnps~n~~~p~eKYIq 177 (218)
.+-++.|-+=|..+-+.|+|.|++..+.|..|..-.... ... ......--..+|+.+|+.|-..--.. .+--||
T Consensus 2 i~~s~~c~~I~~~~~~~G~l~i~~~~i~F~~~~~~~~~~~~~~~~~~~~~~~~~~~w~~~~I~~v~~RRyll--r~~AlE 79 (106)
T PF14844_consen 2 ILLSVPCELITPLDSIPGTLIITKSSIYFIPNDNSSENKISSENPSISISKPKSKRWPLSDIKEVHKRRYLL--RDTALE 79 (106)
T ss_dssp -SEEEEEEEEETTEEEEEEEEE-SSEEEEEE--TTSHHHHCS-HHHHCC---TCEEEEGGGEEEEEEEEETT--EEEEEE
T ss_pred EEEEEEEEEEEeeeeEEEEEEEeCCEEEEEECCcccccccccccccccccCCceEEEEHHHhHHHHHHHhcC--cceEEE
Confidence 445688999999999999999999999999981110000 000 01111233568999999997654443 467799
Q ss_pred EEEecCceeee
Q 027849 178 VVTRDGYEFWF 188 (218)
Q Consensus 178 IvTvD~~eFWF 188 (218)
|.+.||.-|.|
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 99999998754
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=82.53 E-value=6.3 Score=27.14 Aligned_cols=64 Identities=23% Similarity=0.258 Sum_probs=46.3
Q ss_pred ceEEEeeCCCceeeCCCCCeeeEEEEEEEeccccccccCCCCC----CCCCCCeEEEEEecCceeeeee
Q 027849 126 QRMAFCSDYPLSHYSSSGQQEWVYFKVVVDLDQLRTVNPSANR----WNPSEKYIHVVTRDGYEFWFMG 190 (218)
Q Consensus 126 ~kvAFcSdrpl~~~sp~g~~~~~~YKVvIPL~kik~Vnps~n~----~~p~eKYIqIvTvD~~eFWFMG 190 (218)
+|.++-.+.-|.++....+.....++-+|||..+ .|.+..+. ..+.+..++|.+.++-.|+|..
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 4555555566666665554455567889999999 77776666 3688889999999887888764
No 8
>smart00683 DM16 Repeats in sea squirt COS41.4, worm R01H10.6, fly CG1126 etc.
Probab=74.10 E-value=5.2 Score=28.90 Aligned_cols=38 Identities=26% Similarity=0.517 Sum_probs=30.8
Q ss_pred CCCcceeeEEeecceEEEeeCCCceeeCCCCCeeeEEEEEEEecccccccc
Q 027849 113 SNGPVIGTLYISTQRMAFCSDYPLSHYSSSGQQEWVYFKVVVDLDQLRTVN 163 (218)
Q Consensus 113 taGPVaG~LfiSt~kvAFcSdrpl~~~sp~g~~~~~~YKVvIPL~kik~Vn 163 (218)
..| --|+|++++-|+..+|+..-. +.|.||.-+|..++
T Consensus 16 n~G-~~G~l~VTNlRiiW~s~~~~~------------~NlSIgy~~i~~i~ 53 (55)
T smart00683 16 NNG-DLGVFFVTNLRLVWHSDTNPR------------FNISVGYLQITNVR 53 (55)
T ss_pred CCC-CeeEEEEEeeEEEEEeCCCCc------------eEEEEcceeEEEEE
Confidence 446 459999999999999987644 67999998887764
No 9
>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=68.38 E-value=24 Score=23.43 Aligned_cols=43 Identities=16% Similarity=0.132 Sum_probs=29.9
Q ss_pred EEEEEEEeccccccccCCCCCC-CCCCCeEEEEEecCceeeeeee
Q 027849 148 VYFKVVVDLDQLRTVNPSANRW-NPSEKYIHVVTRDGYEFWFMGF 191 (218)
Q Consensus 148 ~~YKVvIPL~kik~Vnps~n~~-~p~eKYIqIvTvD~~eFWFMGF 191 (218)
....-.|||..+ .|....+.. .+....+.|.+-++..|.|..-
T Consensus 42 ~~~~~~i~l~~~-~v~~~~~~~~~~~~~~f~l~~~~~~~~~f~~~ 85 (102)
T smart00233 42 YKPKGSIDLSGI-TVREAPDPDSAKKPHCFEIKTADRRSYLLQAE 85 (102)
T ss_pred CCCceEEECCcC-EEEeCCCCccCCCceEEEEEecCCceEEEEcC
Confidence 456778999999 554444432 4566788888888878888763
No 10
>KOG4471 consensus Phosphatidylinositol 3-phosphate 3-phosphatase myotubularin MTM1 [Lipid transport and metabolism; Intracellular trafficking, secretion, and vesicular transport]
Probab=68.07 E-value=10 Score=39.12 Aligned_cols=95 Identities=23% Similarity=0.299 Sum_probs=60.1
Q ss_pred eeecccCCccchhhhhhcceeecCCCcceeeEEeecceEEEeeCCCceeeCCCCCeeeEEEEEEEeccccccccCCCCCC
Q 027849 90 FQQEFHKLAGEKLLKAYACYISTSNGPVIGTLYISTQRMAFCSDYPLSHYSSSGQQEWVYFKVVVDLDQLRTVNPSANRW 169 (218)
Q Consensus 90 FkQ~F~v~~~EkLlKa~~CYLSTtaGPVaG~LfiSt~kvAFcSdrpl~~~sp~g~~~~~~YKVvIPL~kik~Vnps~n~~ 169 (218)
..--|...|||.++.-- |.--=.||+.|+|.||+-|+=|-|.-.=. +|-+-|||.-|.+|+.-.-+.
T Consensus 30 ~~~~~~~L~GE~i~~~~--y~c~f~G~~~g~l~lsNyRl~fks~~t~~-----------~~~~~VPLg~Ie~vek~~~~~ 96 (717)
T KOG4471|consen 30 LQVPFPLLPGESIIDEK--YICPFLGAVDGTLALSNYRLYFKSKETDP-----------PFVLDVPLGVIERVEKRGGAT 96 (717)
T ss_pred ccCcccccCCcccccce--ecccccccccceEEeeeeEEEEEeccCCC-----------ceeEeechhhhhhhhhcCccc
Confidence 45577889999884322 44444689999999999999998753322 677899999999997655333
Q ss_pred CCCCCe-EEEEEecCceeeeeeeccHHHHH
Q 027849 170 NPSEKY-IHVVTRDGYEFWFMGFISYDKAL 198 (218)
Q Consensus 170 ~p~eKY-IqIvTvD~~eFWFMGFvnY~kA~ 198 (218)
.-+--| |+|+--| -.=-=-+|-..+++-
T Consensus 97 ~g~ns~~L~i~CKD-mr~lR~~fk~~~q~r 125 (717)
T KOG4471|consen 97 SGENSFGLEITCKD-MRNLRCAFKQEEQCR 125 (717)
T ss_pred cCCcceeEEEEecc-ccceeeecCcccccH
Confidence 222233 3443333 222233444445544
No 11
>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=66.73 E-value=1.8 Score=32.27 Aligned_cols=52 Identities=19% Similarity=0.289 Sum_probs=43.4
Q ss_pred HhhcCcccchhhhhhhhhhhhhhhhhccCcChhHHHHHHhhhceeeeecCCcceeeeec
Q 027849 35 LNRCGKRFEDATRKAECLADNVWHHLRISPRLSDAAMAKIAQGTKVFTEGGYEKVFQQE 93 (218)
Q Consensus 35 ~n~~gk~~~~atrkae~~a~~i~~hlk~gp~~set~~gklslGakil~~GG~ekiFkQ~ 93 (218)
+++|| |..-...=.+-|-+++.|+=+-.+.--|..+|.-|.+||-++||--.
T Consensus 7 ~t~~G-------r~~t~~~v~~LE~lglAPkGt~~v~~~L~~aa~~Lv~GG~~giFTPM 58 (67)
T PF08498_consen 7 MTWLG-------RFITHALVRVLEFLGLAPKGTSKVAEMLAKAADGLVEGGKTGIFTPM 58 (67)
T ss_pred ccHHH-------HHHHHHHHHHHHHHCcCCCcHHHHHHHHHHHHHHHHHhhhcCCcCch
Confidence 56667 55556666777899999999999999999999999999999999643
No 12
>KOG3473 consensus RNA polymerase II transcription elongation factor Elongin/SIII, subunit elongin C [Transcription]
Probab=65.62 E-value=3.3 Score=33.80 Aligned_cols=22 Identities=27% Similarity=0.480 Sum_probs=18.8
Q ss_pred CCCCCCCCeEEEEEecCceeee
Q 027849 167 NRWNPSEKYIHVVTRDGYEFWF 188 (218)
Q Consensus 167 n~~~p~eKYIqIvTvD~~eFWF 188 (218)
--+-|.++|+.+|+-|||||-.
T Consensus 10 g~egp~~~yVkLvS~Ddhefii 31 (112)
T KOG3473|consen 10 GCEGPDSMYVKLVSSDDHEFII 31 (112)
T ss_pred CccCcchhheEeecCCCcEEEE
Confidence 3456899999999999999964
No 13
>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=65.11 E-value=13 Score=35.40 Aligned_cols=84 Identities=18% Similarity=0.360 Sum_probs=64.5
Q ss_pred ccCCccchhhhhh--cceeecCCCcceeeEEeecceEEEeeCCCceeeCCCCCeeeEEEEEEEeccccccccCCCCCCCC
Q 027849 94 FHKLAGEKLLKAY--ACYISTSNGPVIGTLYISTQRMAFCSDYPLSHYSSSGQQEWVYFKVVVDLDQLRTVNPSANRWNP 171 (218)
Q Consensus 94 F~v~~~EkLlKa~--~CYLSTtaGPVaG~LfiSt~kvAFcSdrpl~~~sp~g~~~~~~YKVvIPL~kik~Vnps~n~~~p 171 (218)
+-+.|+|++.... .+=||..-|=+ |+++|++-|+..|+|---. |.|.||.=+|+++.-.+.+--
T Consensus 149 L~lLp~E~v~~~~~gVwnls~dqGnL-GtfivTNvRiVW~A~~ne~------------fNVSiPylqi~~i~ir~SKfG- 214 (339)
T PF07289_consen 149 LKLLPQEQVYSRVNGVWNLSSDQGNL-GTFIVTNVRIVWFADMNES------------FNVSIPYLQIKSIRIRDSKFG- 214 (339)
T ss_pred EeeCCccEEeeccCCEEEcccCCCce-eEEEEeeeEEEEEccCCcc------------ccccchHhhheeeeeeccccc-
Confidence 3466777766655 47788888877 9999999999999997765 679999999999987777653
Q ss_pred CCCeEEEEEecCceeeeeeecc
Q 027849 172 SEKYIHVVTRDGYEFWFMGFIS 193 (218)
Q Consensus 172 ~eKYIqIvTvD~~eFWFMGFvn 193 (218)
+-+-|-|....-=.-.||-.
T Consensus 215 --~aLVieT~~~sGgYVLGFRv 234 (339)
T PF07289_consen 215 --PALVIETSESSGGYVLGFRV 234 (339)
T ss_pred --eEEEEEEeccCCcEEEEEEc
Confidence 33666666665556788864
No 14
>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=63.29 E-value=8.6 Score=29.62 Aligned_cols=47 Identities=23% Similarity=0.350 Sum_probs=32.1
Q ss_pred ceeeEEeecceEEEeeCCCceeeCCCCCeeeEEEEEEEeccccccccCCCCCCCCCCC
Q 027849 117 VIGTLYISTQRMAFCSDYPLSHYSSSGQQEWVYFKVVVDLDQLRTVNPSANRWNPSEK 174 (218)
Q Consensus 117 VaG~LfiSt~kvAFcSdrpl~~~sp~g~~~~~~YKVvIPL~kik~Vnps~n~~~p~eK 174 (218)
-.|+||++|.|+.+--|.... -.-+.|||+.|..+.-.....+.+-|
T Consensus 36 q~G~l~LTsHRliw~d~~~~~-----------~~s~~l~L~~i~~~e~~~gf~~sSpK 82 (89)
T PF11605_consen 36 QNGRLYLTSHRLIWVDDSDPS-----------KHSIALPLSLISHIEYSAGFLKSSPK 82 (89)
T ss_dssp SCEEEEEESSEEEEEESSGHC-----------HH-EEEEGGGEEEEEEE-STTSSS-E
T ss_pred cCCEEEEEeeEEEEEcCCCCc-----------eeEEEEEchHeEEEEEEccccCCCCe
Confidence 479999999999998665432 12388999999888555544444444
No 15
>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=57.94 E-value=12 Score=21.72 Aligned_cols=17 Identities=29% Similarity=0.548 Sum_probs=14.0
Q ss_pred cHHHHHHHHHHHHhcCC
Q 027849 193 SYDKALKTLTEALRRFP 209 (218)
Q Consensus 193 nY~kA~k~Lq~al~~~~ 209 (218)
+|++|.+++++|+....
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 68999999999998654
No 16
>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=54.33 E-value=66 Score=24.11 Aligned_cols=54 Identities=19% Similarity=0.381 Sum_probs=34.8
Q ss_pred ceeeEEeecce--EEEeeCCCceeeCCCCCeeeEEEEEEEeccccccccCCCCCCCCCCCeEEEEEecC
Q 027849 117 VIGTLYISTQR--MAFCSDYPLSHYSSSGQQEWVYFKVVVDLDQLRTVNPSANRWNPSEKYIHVVTRDG 183 (218)
Q Consensus 117 VaG~LfiSt~k--vAFcSdrpl~~~sp~g~~~~~~YKVvIPL~kik~Vnps~n~~~p~eKYIqIvTvD~ 183 (218)
+.|+|+|+..| +.+.-+.. ++. . .|.||+..|+.-..+ ...-+.==|+|+-.|+
T Consensus 12 ~~G~L~l~~d~~~~~W~~~~~------~~~-~----~v~i~~~~I~~lq~S--p~~s~Kv~Lki~~~~~ 67 (79)
T PF08567_consen 12 KDGTLTLTEDRKPLEWTPKAS------DGP-S----TVSIPLNDIKNLQQS--PEGSPKVMLKIVLKDD 67 (79)
T ss_dssp EEEEEEEETTCSSEEEEECCS------SSS-S----EEEEETTTEEEEEE----TTSSTEEEEEEETTS
T ss_pred CCcEEEEecCCceEEEeecCC------CCC-c----eEEEEHHHhhhhccC--CCCCcceEEEEEEecC
Confidence 35999999988 77754411 111 1 599999999986544 3333445678877766
No 17
>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=51.16 E-value=24 Score=27.87 Aligned_cols=35 Identities=31% Similarity=0.463 Sum_probs=24.8
Q ss_pred EEEEEEecccccccc-CCCCCCCCCCCeEEEEEecCceeeee
Q 027849 149 YFKVVVDLDQLRTVN-PSANRWNPSEKYIHVVTRDGYEFWFM 189 (218)
Q Consensus 149 ~YKVvIPL~kik~Vn-ps~n~~~p~eKYIqIvTvD~~eFWFM 189 (218)
...|||||-...... +...+.|| ++++||.+|-.|
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 467999999988875 44444444 799999998754
No 18
>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=50.07 E-value=18 Score=21.34 Aligned_cols=17 Identities=35% Similarity=0.511 Sum_probs=13.8
Q ss_pred cHHHHHHHHHHHHhcCC
Q 027849 193 SYDKALKTLTEALRRFP 209 (218)
Q Consensus 193 nY~kA~k~Lq~al~~~~ 209 (218)
+|++|++++++||....
T Consensus 16 ~~~~A~~~~~~al~~~p 32 (34)
T PF00515_consen 16 DYEEALEYYQRALELDP 32 (34)
T ss_dssp -HHHHHHHHHHHHHHST
T ss_pred CchHHHHHHHHHHHHCc
Confidence 68999999999997543
No 19
>PF13174 TPR_6: Tetratricopeptide repeat; PDB: 3QKY_A 2XEV_A 3URZ_B 2Q7F_A.
Probab=48.54 E-value=20 Score=20.48 Aligned_cols=19 Identities=32% Similarity=0.859 Sum_probs=16.2
Q ss_pred cHHHHHHHHHHHHhcCCCC
Q 027849 193 SYDKALKTLTEALRRFPDT 211 (218)
Q Consensus 193 nY~kA~k~Lq~al~~~~~~ 211 (218)
+|++|.+.|++.+.++.+|
T Consensus 15 ~~~~A~~~~~~~~~~~P~s 33 (33)
T PF13174_consen 15 DYDEAIEYFQRLIKRYPDS 33 (33)
T ss_dssp HHHHHHHHHHHHHHHSTTS
T ss_pred CHHHHHHHHHHHHHHCcCC
Confidence 6899999999999887654
No 20
>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=47.57 E-value=25 Score=17.90 Aligned_cols=16 Identities=38% Similarity=0.441 Sum_probs=13.4
Q ss_pred cHHHHHHHHHHHHhcC
Q 027849 193 SYDKALKTLTEALRRF 208 (218)
Q Consensus 193 nY~kA~k~Lq~al~~~ 208 (218)
+|++|..++++++...
T Consensus 16 ~~~~a~~~~~~~~~~~ 31 (34)
T smart00028 16 DYDEALEYYEKALELD 31 (34)
T ss_pred hHHHHHHHHHHHHccC
Confidence 6899999999998754
No 21
>PF06576 DUF1133: Protein of unknown function (DUF1133); InterPro: IPR010557 This family consists of a number of hypothetical proteins from Escherichia coli O157:H7 and Salmonella typhi. The function of this family is unknown.
Probab=47.28 E-value=8.4 Score=33.78 Aligned_cols=80 Identities=18% Similarity=0.243 Sum_probs=52.4
Q ss_pred Chhh--HHHHHhhcCcccchhhhhhhhhhhhhhhhhccCcChhHHHHHHhhhceeeeecCCcceeeeecccCCccchhhh
Q 027849 27 SWGE--ICEMLNRCGKRFEDATRKAECLADNVWHHLRISPRLSDAAMAKIAQGTKVFTEGGYEKVFQQEFHKLAGEKLLK 104 (218)
Q Consensus 27 ~~~~--v~~~~n~~gk~~~~atrkae~~a~~i~~hlk~gp~~set~~gklslGakil~~GG~ekiFkQ~F~v~~~EkLlK 104 (218)
+.|+ |...|+.||+-- --.-.-++|++..|-.+++++.||. .+--+=|.+-|++ ++.|..
T Consensus 18 tle~vWiqgkLrmWGRws----yiggG~~g~mfnqLl~s~kitKtaI---~~aLr~mkKsGi~-----------k~EL~~ 79 (176)
T PF06576_consen 18 TLESVWIQGKLRMWGRWS----YIGGGKGGNMFNQLLASKKITKTAI---NEALRRMKKSGIS-----------KPELEA 79 (176)
T ss_pred HHHHHHHHHHHHhhheee----cccCCchhhHHHHHHhcccccHHHH---HHHHHHHHHhcCC-----------cHHHHH
Confidence 4454 578899999321 1123456899999999999998764 2222333444443 577888
Q ss_pred hhcceeecCCCcceeeEEeecceEEEeeCC
Q 027849 105 AYACYISTSNGPVIGTLYISTQRMAFCSDY 134 (218)
Q Consensus 105 a~~CYLSTtaGPVaG~LfiSt~kvAFcSdr 134 (218)
-+.|+|.--+= |+ +|||+|-
T Consensus 80 ~~~eil~gK~k--------S~--La~ctD~ 99 (176)
T PF06576_consen 80 FLREILNGKQK--------SW--LAFCTDD 99 (176)
T ss_pred HHHHHhCcccc--------cc--cceecch
Confidence 88999875321 23 8999983
No 22
>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=46.71 E-value=20 Score=20.98 Aligned_cols=16 Identities=31% Similarity=0.470 Sum_probs=13.8
Q ss_pred cHHHHHHHHHHHHhcC
Q 027849 193 SYDKALKTLTEALRRF 208 (218)
Q Consensus 193 nY~kA~k~Lq~al~~~ 208 (218)
+|++|+++++++++-.
T Consensus 16 ~~~~A~~~~~~a~~~~ 31 (34)
T PF13181_consen 16 DYEEALEYFEKALELN 31 (34)
T ss_dssp SHHHHHHHHHHHHHHH
T ss_pred CHHHHHHHHHHHHhhC
Confidence 6899999999998753
No 23
>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=46.03 E-value=56 Score=21.63 Aligned_cols=65 Identities=11% Similarity=0.095 Sum_probs=40.8
Q ss_pred CcceeeEEeecceEEEeeCCCceeeCCCCCeeeEEEEEEEeccccccccCCCCCCCCCCCeEEEEEec--Cceeeeeee
Q 027849 115 GPVIGTLYISTQRMAFCSDYPLSHYSSSGQQEWVYFKVVVDLDQLRTVNPSANRWNPSEKYIHVVTRD--GYEFWFMGF 191 (218)
Q Consensus 115 GPVaG~LfiSt~kvAFcSdrpl~~~sp~g~~~~~~YKVvIPL~kik~Vnps~n~~~p~eKYIqIvTvD--~~eFWFMGF 191 (218)
..-...++|+...+-++++..-+.... -++||..+. |....... -...-++|++.+ +..++|..-
T Consensus 18 ~w~~~~~~l~~~~l~~~~~~~~~~~~~----------~~~~l~~~~-v~~~~~~~-~~~~~F~i~~~~~~~~~~~~~~~ 84 (99)
T cd00900 18 RWKRRWFFLFDDGLLLYKSDDKKEIKP----------GSIPLSEIS-VEEDPDGS-DDPNCFAIVTKDRGRRVFVFQAD 84 (99)
T ss_pred CceeeEEEEECCEEEEEEcCCCCcCCC----------CEEEccceE-EEECCCCC-CCCceEEEECCCCCcEEEEEEcC
Confidence 344455666677777776665442111 578999888 76654432 245678888887 777777654
No 24
>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=45.96 E-value=83 Score=20.56 Aligned_cols=60 Identities=12% Similarity=0.102 Sum_probs=36.1
Q ss_pred eEEeecceEEEeeCCCceeeCCCCCeeeEEEEEEEeccccccccCCCCCCCCCCCeEEEEEecCceeeee
Q 027849 120 TLYISTQRMAFCSDYPLSHYSSSGQQEWVYFKVVVDLDQLRTVNPSANRWNPSEKYIHVVTRDGYEFWFM 189 (218)
Q Consensus 120 ~LfiSt~kvAFcSdrpl~~~sp~g~~~~~~YKVvIPL~kik~Vnps~n~~~p~eKYIqIvTvD~~eFWFM 189 (218)
-+++....+.+|++.+-.. ....+-+|||.. -.|....+.. ..+..++|++.++..|.|.
T Consensus 20 ~~~L~~~~l~~~~~~~~~~--------~~~~~~~i~l~~-~~v~~~~~~~-~~~~~f~i~~~~~~~~~~~ 79 (96)
T cd00821 20 WFVLFNDLLLYYKKKSSKK--------SYKPKGSIPLSG-AEVEESPDDS-GRKNCFEIRTPDGRSYLLQ 79 (96)
T ss_pred EEEEECCEEEEEECCCCCc--------CCCCcceEEcCC-CEEEECCCcC-CCCcEEEEecCCCcEEEEE
Confidence 3444556666665554321 224456788887 4443333332 4578999998888888886
No 25
>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=45.80 E-value=14 Score=25.96 Aligned_cols=14 Identities=43% Similarity=0.774 Sum_probs=11.9
Q ss_pred CeEEEEEecCceee
Q 027849 174 KYIHVVTRDGYEFW 187 (218)
Q Consensus 174 KYIqIvTvD~~eFW 187 (218)
+||.++|-||++|=
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 58999999999984
No 26
>PRK13708 plasmid maintenance protein CcdB; Provisional
Probab=45.37 E-value=31 Score=27.57 Aligned_cols=34 Identities=21% Similarity=0.325 Sum_probs=26.1
Q ss_pred EEEEEeccccccccCCC-CCCCCCCCeEEEEEecCceeeee
Q 027849 150 FKVVVDLDQLRTVNPSA-NRWNPSEKYIHVVTRDGYEFWFM 189 (218)
Q Consensus 150 YKVvIPL~kik~Vnps~-n~~~p~eKYIqIvTvD~~eFWFM 189 (218)
.+|||||-......+.. .+.|| ++++||.+|-.|
T Consensus 30 tRvViPL~~~~~~~~~~~~rL~P------~~~I~g~~~vl~ 64 (101)
T PRK13708 30 RRMVIPLASARLLSDKVSRELYP------VVHIGDESYRLM 64 (101)
T ss_pred ceEEEeCccHHHCCCCcCCCcCc------eEEECCeEEEEE
Confidence 47999999988886544 44555 788999999765
No 27
>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=44.05 E-value=55 Score=23.70 Aligned_cols=39 Identities=15% Similarity=0.187 Sum_probs=29.0
Q ss_pred EEEEeccccc-cccCCCCCCCCCCCeEEEEEecCceeeeeeecc
Q 027849 151 KVVVDLDQLR-TVNPSANRWNPSEKYIHVVTRDGYEFWFMGFIS 193 (218)
Q Consensus 151 KVvIPL~kik-~Vnps~n~~~p~eKYIqIvTvD~~eFWFMGFvn 193 (218)
||.||.+.-+ .|+++-..- +|+.|+.+|+..+.+...+.
T Consensus 2 ~IAv~~~~~~~~v~~hFg~a----~~f~i~d~~~~~~~~~~~~~ 41 (103)
T cd00851 2 KIAIPVSGNGGKVSPHFGRA----PYFLIYDVETGKIKNVEVIE 41 (103)
T ss_pred EEEEEecCCCccccCccccC----CEEEEEEccCCcEeEEEEec
Confidence 6888887777 676666544 78888888888777776664
No 28
>PF00017 SH2: SH2 domain; InterPro: IPR000980 The Src homology 2 (SH2) domain is a protein domain of about 100 amino-acid residues first identified as a conserved sequence region between the oncoproteins Src and Fps []. Similar sequences were later found in many other intracellular signal-transducing proteins []. SH2 domains function as regulatory modules of intracellular signalling cascades by interacting with high affinity to phosphotyrosine-containing target peptides in a sequence-specific, SH2 domains recognise between 3-6 residues C-terminal to the phosphorylated tyrosine in a fashion that differs from one SH2 domain to another, and strictly phosphorylation-dependent manner [, , , ]. They are found in a wide variety of protein contexts e.g., in association with catalytic domains of phospholipase Cy (PLCy) and the non-receptor protein tyrosine kinases; within structural proteins such as fodrin and tensin; and in a group of small adaptor molecules, i.e Crk and Nck. The domains are frequently found as repeats in a single protein sequence and will then often bind both mono- and di-phosphorylated substrates. The structure of the SH2 domain belongs to the alpha+beta class, its overall shape forming a compact flattened hemisphere. The core structural elements comprise a central hydrophobic anti-parallel beta-sheet, flanked by 2 short alpha-helices. The loop between strands 2 and 3 provides many of the binding interactions with the phosphate group of its phosphopeptide ligand, and is hence designated the phosphate binding loop, the phosphorylated ligand binds perpendicular to the beta-sheet and typically interacts with the phosphate binding loop and a hydrophobic binding pocket that interacts with a pY+3 side chain. The N- and C-termini of the domain are close together in space and on the opposite face from the phosphopeptide binding surface and it has been speculated that this has facilitated their integration into surface-exposed regions of host proteins [].; GO: 0005515 protein binding; PDB: 1M27_A 1KA6_A 1D4W_B 1D4T_A 1D1Z_B 1KA7_A 1UUR_A 1UUS_A 1BLJ_A 1BLK_A ....
Probab=42.75 E-value=14 Score=25.82 Aligned_cols=17 Identities=47% Similarity=0.903 Sum_probs=16.3
Q ss_pred eeeeeccHHHHHHHHHH
Q 027849 187 WFMGFISYDKALKTLTE 203 (218)
Q Consensus 187 WFMGFvnY~kA~k~Lq~ 203 (218)
||.|+++-+.|-+.|++
T Consensus 1 W~~g~isr~~Ae~~L~~ 17 (77)
T PF00017_consen 1 WFHGFISRQEAERLLMQ 17 (77)
T ss_dssp TBEESSHHHHHHHHHHT
T ss_pred CcCCCCCHHHHHHHHHh
Confidence 99999999999999987
No 29
>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=41.68 E-value=32 Score=27.23 Aligned_cols=30 Identities=27% Similarity=0.575 Sum_probs=26.0
Q ss_pred EEecCceeeeeee---------ccHHHHHHHHHHHHhcC
Q 027849 179 VTRDGYEFWFMGF---------ISYDKALKTLTEALRRF 208 (218)
Q Consensus 179 vTvD~~eFWFMGF---------vnY~kA~k~Lq~al~~~ 208 (218)
+|-||+.+.-||| ..|-++|+-+++.|++.
T Consensus 69 ltkdgf~lLvmg~tg~ka~~fK~~yI~~Fn~ME~~l~~~ 107 (108)
T TIGR02681 69 LTEDGFTIVAMGYTTPKAMKMKEKFIKEFNEMKEHLQKV 107 (108)
T ss_pred EcCCceEEEEecCChHHHHHHHHHHHHHHHHHHHHHhhC
Confidence 4999999999999 46888999999998753
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=41.05 E-value=48 Score=25.70 Aligned_cols=47 Identities=15% Similarity=0.161 Sum_probs=29.3
Q ss_pred CCCceeeCCCCCeeeEEEEEEEeccccccccCCCCCCCCCCCeEEEEEecC
Q 027849 133 DYPLSHYSSSGQQEWVYFKVVVDLDQLRTVNPSANRWNPSEKYIHVVTRDG 183 (218)
Q Consensus 133 drpl~~~sp~g~~~~~~YKVvIPL~kik~Vnps~n~~~p~eKYIqIvTvD~ 183 (218)
++-|.|+...+. .-+=.|||..|++|....+....-+-=+||||-|.
T Consensus 30 ~~~L~Y~k~~~~----~~~g~I~L~~i~~ve~v~~~~~~~~~~fqivt~~r 76 (98)
T cd01244 30 TTHLSWAKDVQC----KKSALIKLAAIKGTEPLSDKSFVNVDIITIVCEDD 76 (98)
T ss_pred CCEEEEECCCCC----ceeeeEEccceEEEEEcCCcccCCCceEEEEeCCC
Confidence 344555443322 34568999999999776654322222389999775
No 31
>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=40.41 E-value=17 Score=25.73 Aligned_cols=17 Identities=47% Similarity=0.909 Sum_probs=16.2
Q ss_pred eeeeeccHHHHHHHHHH
Q 027849 187 WFMGFISYDKALKTLTE 203 (218)
Q Consensus 187 WFMGFvnY~kA~k~Lq~ 203 (218)
||.|+++-+.|-+.|++
T Consensus 3 w~~g~i~r~~Ae~lL~~ 19 (84)
T smart00252 3 WYHGFISREEAEKLLKN 19 (84)
T ss_pred eecccCCHHHHHHHHhc
Confidence 99999999999999987
No 32
>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=39.18 E-value=35 Score=30.28 Aligned_cols=59 Identities=19% Similarity=0.251 Sum_probs=40.1
Q ss_pred eeeEEEEEEEeccccccccCCCCCCCCCCCeEEEEEecCceeeeeeeccHHHHHHHHHHHHhc
Q 027849 145 QEWVYFKVVVDLDQLRTVNPSANRWNPSEKYIHVVTRDGYEFWFMGFISYDKALKTLTEALRR 207 (218)
Q Consensus 145 ~~~~~YKVvIPL~kik~Vnps~n~~~p~eKYIqIvTvD~~eFWFMGFvnY~kA~k~Lq~al~~ 207 (218)
..+..|.+.|||..|+++..+.... .-.||.++|-||.-| --+--++.-.+.|-++|++
T Consensus 107 ~~~~~~aFsv~lsdl~Si~~~~p~~--G~~~lv~~~kdG~~~--p~L~Fh~gg~~~fl~~L~~ 165 (213)
T PF12068_consen 107 SSRSSYAFSVPLSDLKSIRVSKPSL--GWWYLVFILKDGTSL--PPLHFHDGGSKEFLKSLQR 165 (213)
T ss_pred CCCcceEEEEEhhheeeEEecCCCC--CceEEEEEecCCCcc--CceEEecCCHHHHHHHHHh
Confidence 3566889999999999996554433 668999999999754 3333344444444444443
No 33
>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=38.41 E-value=32 Score=20.57 Aligned_cols=16 Identities=31% Similarity=0.362 Sum_probs=13.9
Q ss_pred cHHHHHHHHHHHHhcC
Q 027849 193 SYDKALKTLTEALRRF 208 (218)
Q Consensus 193 nY~kA~k~Lq~al~~~ 208 (218)
++++|+++|++|..+.
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 7999999999998764
No 34
>PF10882 bPH_5: Bacterial PH domain; InterPro: IPR020482 This entry contains membrane proteins with no known function.
Probab=37.88 E-value=29 Score=25.65 Aligned_cols=25 Identities=16% Similarity=0.339 Sum_probs=20.5
Q ss_pred eeeEEEEEEEeccccccccCCCCCC
Q 027849 145 QEWVYFKVVVDLDQLRTVNPSANRW 169 (218)
Q Consensus 145 ~~~~~YKVvIPL~kik~Vnps~n~~ 169 (218)
..|..+++.||+++|..|....+..
T Consensus 12 I~~~~~~~~Ip~~~I~~v~~~~~~~ 36 (100)
T PF10882_consen 12 IRWPFGKITIPLAEIESVELVDDLP 36 (100)
T ss_pred EEEccccEEEEHHHcEEEEeccccC
Confidence 3566789999999999998776665
No 35
>PF13176 TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_A 3RO2_A.
Probab=36.97 E-value=32 Score=21.25 Aligned_cols=14 Identities=36% Similarity=0.622 Sum_probs=11.5
Q ss_pred cHHHHHHHHHHHHh
Q 027849 193 SYDKALKTLTEALR 206 (218)
Q Consensus 193 nY~kA~k~Lq~al~ 206 (218)
+|++|..++++|+.
T Consensus 14 ~~~~Ai~~y~~aL~ 27 (36)
T PF13176_consen 14 DYEKAIEYYEQALA 27 (36)
T ss_dssp -HHHHHHHHHHHHH
T ss_pred CHHHHHHHHHHHHH
Confidence 69999999999763
No 36
>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=36.14 E-value=66 Score=23.19 Aligned_cols=40 Identities=10% Similarity=-0.027 Sum_probs=29.2
Q ss_pred EEEEeccccccccCCCCCCCCCCCeEEEEEecCceeeeeeeccH
Q 027849 151 KVVVDLDQLRTVNPSANRWNPSEKYIHVVTRDGYEFWFMGFISY 194 (218)
Q Consensus 151 KVvIPL~kik~Vnps~n~~~p~eKYIqIvTvD~~eFWFMGFvnY 194 (218)
||.||...-+.|+++--.- +|+.|+.+++.++++...+.-
T Consensus 1 kIAi~~~~~~~v~~hFg~A----~~f~I~d~~~~~~~~~e~~~n 40 (102)
T cd00562 1 KIAVASSDGGRVDQHFGRA----PEFLIYEVEPGGIKLVEVREN 40 (102)
T ss_pred CEEEEcCCCCEehhhcCCC----CeEEEEEEcCCcEEEEEEEec
Confidence 5778887777676666554 788888888888887776643
No 37
>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=34.93 E-value=87 Score=25.95 Aligned_cols=40 Identities=18% Similarity=0.375 Sum_probs=28.1
Q ss_pred EEEEEEEeccccccccCCCCCC---CCCCCeEEEEEecCceeeeee
Q 027849 148 VYFKVVVDLDQLRTVNPSANRW---NPSEKYIHVVTRDGYEFWFMG 190 (218)
Q Consensus 148 ~~YKVvIPL~kik~Vnps~n~~---~p~eKYIqIvTvD~~eFWFMG 190 (218)
-||| .|||..|-.|.++.+.. ....-..+|+| .+--| |+|
T Consensus 38 kyyK-eIPLsEIl~V~~~~~~~~~~~~~~hcFEi~T-~~~vY-~VG 80 (117)
T cd01239 38 RYYK-EIPLAEILSVSSNNGDSVLAKHPPHCFEIRT-TTNVY-FVG 80 (117)
T ss_pred eeeE-EeehHHheEEeccCCCcCCCCCCCcEEEEEe-cCEEE-Eec
Confidence 3777 58999999998654432 34678899999 55444 444
No 38
>cd00852 NifB NifB belongs to a family of iron-molybdenum cluster-binding proteins that includes 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 as part of nitrogen fixation in bacteria. This domain is sometimes found fused to a N-terminal domain (the Radical SAM domain) in nifB-like proteins.
Probab=32.84 E-value=85 Score=23.56 Aligned_cols=41 Identities=17% Similarity=0.065 Sum_probs=29.5
Q ss_pred EEEEeccccccccCCCCCCCCCCCeEEEEEecCceeeeeeeccHH
Q 027849 151 KVVVDLDQLRTVNPSANRWNPSEKYIHVVTRDGYEFWFMGFISYD 195 (218)
Q Consensus 151 KVvIPL~kik~Vnps~n~~~p~eKYIqIvTvD~~eFWFMGFvnY~ 195 (218)
||.||...-..|+++--+- +|.-|+.+|+.+++|+......
T Consensus 1 kIAv~s~~~~~V~~HFG~a----~~F~Iydv~~~~~~~ve~~~~~ 41 (106)
T cd00852 1 LVAVASKGGGRVNQHFGHA----TEFQIYEVSGSGVKFVEHRKVD 41 (106)
T ss_pred CEEEECCCCCEehhhccCC----CEEEEEEEcCCcEEEEEEeecC
Confidence 4666665555676666555 6888999999999988877543
No 39
>smart00671 SEL1 Sel1-like repeats. These represent a subfamily of TPR (tetratricopeptide repeat) sequences.
Probab=32.61 E-value=49 Score=19.30 Aligned_cols=17 Identities=24% Similarity=0.110 Sum_probs=14.5
Q ss_pred ccHHHHHHHHHHHHhcC
Q 027849 192 ISYDKALKTLTEALRRF 208 (218)
Q Consensus 192 vnY~kA~k~Lq~al~~~ 208 (218)
.++++|++++++|..+.
T Consensus 19 ~d~~~A~~~~~~Aa~~g 35 (36)
T smart00671 19 KDLEKALEYYKKAAELG 35 (36)
T ss_pred cCHHHHHHHHHHHHHcc
Confidence 48999999999998764
No 40
>KOG2415 consensus Electron transfer flavoprotein ubiquinone oxidoreductase [Energy production and conversion]
Probab=30.48 E-value=17 Score=36.73 Aligned_cols=36 Identities=25% Similarity=0.558 Sum_probs=29.9
Q ss_pred hccCcChhHHHHH--HhhhceeeeecCCcceeeeeccc
Q 027849 60 LRISPRLSDAAMA--KIAQGTKVFTEGGYEKVFQQEFH 95 (218)
Q Consensus 60 lk~gp~~set~~g--klslGakil~~GG~ekiFkQ~F~ 95 (218)
+|.-|++++...| +|.-|||.|-|||+..|=|-.|.
T Consensus 347 ~K~hP~i~~vleGgk~i~YgARaLNEGGfQsiPkl~FP 384 (621)
T KOG2415|consen 347 MKHHPSISKVLEGGKRIAYGARALNEGGFQSIPKLVFP 384 (621)
T ss_pred hhcCcchhhhhcCcceeeehhhhhccCCcccCcccccC
Confidence 3444999999887 78999999999999998877664
No 41
>PF13374 TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT_H 3NF1_A.
Probab=29.76 E-value=35 Score=20.19 Aligned_cols=22 Identities=36% Similarity=0.415 Sum_probs=13.5
Q ss_pred cHHHHHHHHHHHHhcCCCCCCC
Q 027849 193 SYDKALKTLTEALRRFPDTSGG 214 (218)
Q Consensus 193 nY~kA~k~Lq~al~~~~~~~~~ 214 (218)
.|++|.+++++++.-.+..-|.
T Consensus 17 ~~~~A~~~~~~al~~~~~~~G~ 38 (42)
T PF13374_consen 17 RYEEALELLEEALEIRERLLGP 38 (42)
T ss_dssp -HHHHHHHHHHHHHHH------
T ss_pred hcchhhHHHHHHHHHHHHHhcc
Confidence 6899999999999765554443
No 42
>cd00173 SH2 Src homology 2 domains; Signal transduction, involved in recognition of phosphorylated tyrosine (pTyr). SH2 domains typically bind pTyr-containing ligands via two surface pockets, a pTyr and hydrophobic binding pocket, allowing proteins with SH2 domains to localize to tyrosine phosphorylated sites.
Probab=29.43 E-value=29 Score=24.67 Aligned_cols=17 Identities=35% Similarity=0.665 Sum_probs=16.3
Q ss_pred eeeeeccHHHHHHHHHH
Q 027849 187 WFMGFISYDKALKTLTE 203 (218)
Q Consensus 187 WFMGFvnY~kA~k~Lq~ 203 (218)
||.|.+.-+.|-+.|++
T Consensus 2 w~~g~i~r~~Ae~~L~~ 18 (94)
T cd00173 2 WYHGPISREEAEELLKK 18 (94)
T ss_pred ccccCCCHHHHHHHHhc
Confidence 99999999999999996
No 43
>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=28.09 E-value=2.7e+02 Score=21.13 Aligned_cols=61 Identities=25% Similarity=0.265 Sum_probs=41.9
Q ss_pred CcceeeEEeecceEEEeeCCCceeeCCCCCeeeEEEEEEEeccccccccCCCCCCCCCCCeE--EEEEec--Cceeeeee
Q 027849 115 GPVIGTLYISTQRMAFCSDYPLSHYSSSGQQEWVYFKVVVDLDQLRTVNPSANRWNPSEKYI--HVVTRD--GYEFWFMG 190 (218)
Q Consensus 115 GPVaG~LfiSt~kvAFcSdrpl~~~sp~g~~~~~~YKVvIPL~kik~Vnps~n~~~p~eKYI--qIvTvD--~~eFWFMG 190 (218)
|.-.|.||....-+.|-.+.|. .+||++.|..|+=+.. ...+.|.- .|++-| +-+..|.+
T Consensus 9 ka~~g~L~pl~~~l~f~~~kP~---------------~~i~~~dI~~v~feRv-~~~~~ktFDl~v~~k~~~~~~~~fs~ 72 (95)
T PF08512_consen 9 KANEGFLYPLEKCLLFGLEKPP---------------FVIPLDDIESVEFERV-SSFSSKTFDLVVILKDYEGPPHEFSS 72 (95)
T ss_dssp TTEEEEEEEESSEEEEECSSS----------------EEEEGGGEEEEEEE---ESSSSSEEEEEEEETT-TS-EEEEEE
T ss_pred cccCEEEEEccceEEEecCCCe---------------EEEEhhHeeEEEEEec-ccCcceEEEEEEEEecCCCCcEEEee
Confidence 4446899999999988778886 5799999999865433 34566764 455656 67777766
Q ss_pred e
Q 027849 191 F 191 (218)
Q Consensus 191 F 191 (218)
-
T Consensus 73 I 73 (95)
T PF08512_consen 73 I 73 (95)
T ss_dssp E
T ss_pred E
Confidence 4
No 44
>cd01201 Neurobeachin Neurobeachin Pleckstrin homology-like domain. Neurobeachin Pleckstrin homology-like domain. This domain is found in the large multi-domain eukaryotic protein Nerubeachin, N-terminal to the BEACH domain. This PH-like domain interacts with the BEACH domain in the same manner used by other PH-like domains to bind peptides.
Probab=27.95 E-value=82 Score=25.62 Aligned_cols=82 Identities=17% Similarity=0.140 Sum_probs=55.9
Q ss_pred hhhhcceeecCCCcceeeEEeecceEEEeeCCCce-eeCCCCCe----eeEEEEEEEeccccccccCCCCCCCCCCCeEE
Q 027849 103 LKAYACYISTSNGPVIGTLYISTQRMAFCSDYPLS-HYSSSGQQ----EWVYFKVVVDLDQLRTVNPSANRWNPSEKYIH 177 (218)
Q Consensus 103 lKa~~CYLSTtaGPVaG~LfiSt~kvAFcSdrpl~-~~sp~g~~----~~~~YKVvIPL~kik~Vnps~n~~~p~eKYIq 177 (218)
.=+..|=|=|...-+.|.|=|||.++-|-=|..-. +...+.+. ..-+. -+||++|++|-.. +......-||
T Consensus 4 vls~~~~mVtPl~vvpG~l~ITt~~lyF~~d~~~~~~~~~~~~vl~~~~~~~~--~w~ls~Ir~v~~R--RylLr~~alE 79 (108)
T cd01201 4 LLSTPASLIAPGVVVKGTLSITTTEIFFEVDERDSQFKKIDDEVLSYCEELHG--KWPFSEIRAIFSR--RYLLQNTALE 79 (108)
T ss_pred EEEeeeeEEEEEEEeccEEEEecCEEEEEECCccccccccCccceeccccccc--eeeHHHHHHHHHH--hhhcccceEE
Confidence 33467888888899999999999999998654221 22211111 11122 4899999999553 4444556799
Q ss_pred EEEecCceeee
Q 027849 178 VVTRDGYEFWF 188 (218)
Q Consensus 178 IvTvD~~eFWF 188 (218)
|.-.|+..+.|
T Consensus 80 iF~~d~~~~f~ 90 (108)
T cd01201 80 LFLASRTSIFF 90 (108)
T ss_pred EEEeCCceEEE
Confidence 99999877755
No 45
>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=26.31 E-value=46 Score=27.82 Aligned_cols=35 Identities=26% Similarity=0.379 Sum_probs=23.8
Q ss_pred CCCeEEEEEecCce-eeeeeeccHHH-HHHHHHHHHh
Q 027849 172 SEKYIHVVTRDGYE-FWFMGFISYDK-ALKTLTEALR 206 (218)
Q Consensus 172 ~eKYIqIvTvD~~e-FWFMGFvnY~k-A~k~Lq~al~ 206 (218)
.+.||.|++.||+| +|.=-+=--+. +.+.++++|.
T Consensus 17 P~~~isl~~~~G~El~~I~~l~~L~~~~r~lle~eLa 53 (133)
T PF08909_consen 17 PDEGISLVDEDGHELAWIDDLDDLPEESRALLEEELA 53 (133)
T ss_pred CCccEEEEcCCCcEEEEEcChhHCCHHHHHHHHHHHH
Confidence 35799999999999 88755433332 3455666664
No 46
>KOG3294 consensus WW domain binding protein WBP-2, contains GRAM domain [Signal transduction mechanisms]
Probab=24.17 E-value=60 Score=30.15 Aligned_cols=86 Identities=22% Similarity=0.364 Sum_probs=48.1
Q ss_pred CcceeeEEeecceEEEeeCCCceeeCCCCCeeeEEEEEEEeccccccccCCCCCCCCCCCeE--EEEEecCc-----eee
Q 027849 115 GPVIGTLYISTQRMAFCSDYPLSHYSSSGQQEWVYFKVVVDLDQLRTVNPSANRWNPSEKYI--HVVTRDGY-----EFW 187 (218)
Q Consensus 115 GPVaG~LfiSt~kvAFcSdrpl~~~sp~g~~~~~~YKVvIPL~kik~Vnps~n~~~p~eKYI--qIvTvD~~-----eFW 187 (218)
|=--|+||+|+.||-|-|+.+-.- ---.++|+.-|+.++--+-.- .-.|| +|-.+-|- -=|
T Consensus 45 g~kkGtlyLTs~RiIFis~~~~D~----------fksF~MPf~~mkd~klnQPvF--~aNyikGtV~pvpgGg~~g~as~ 112 (261)
T KOG3294|consen 45 GTKKGTLYLTSHRIIFISSKPKDA----------FKSFMMPFNLMKDVKLNQPVF--GANYIKGTVQPVPGGGWEGEASF 112 (261)
T ss_pred cceeeeEEeecceEEEecCCCCcc----------hhhhcchhhhhhhceecCccc--ccceeeeeEeecCCCCccceeEE
Confidence 345699999999999999875320 012577888887774322222 22344 23333222 122
Q ss_pred ee-----eeccHHHHHHHHHHHHhcCCCCC
Q 027849 188 FM-----GFISYDKALKTLTEALRRFPDTS 212 (218)
Q Consensus 188 FM-----GFvnY~kA~k~Lq~al~~~~~~~ 212 (218)
=+ |=++|-.++-.+-+..++.+.-|
T Consensus 113 Kl~F~~GG~ieFgq~~l~~~s~a~r~r~~s 142 (261)
T KOG3294|consen 113 KLTFNEGGCIEFGQLLLQAASRASRGRPLS 142 (261)
T ss_pred EEEecCCCchhHHHHHHHHHHHHHhccccc
Confidence 22 55777766666655555544433
No 47
>PF14559 TPR_19: Tetratricopeptide repeat; PDB: 2R5S_A 3QDN_B 3QOU_A 3ASG_A 3ASD_A 3AS5_A 3AS4_A 3ASH_B 3FP3_A 3LCA_A ....
Probab=24.06 E-value=77 Score=20.82 Aligned_cols=18 Identities=50% Similarity=0.855 Sum_probs=14.7
Q ss_pred cHHHHHHHHHHHHhcCCC
Q 027849 193 SYDKALKTLTEALRRFPD 210 (218)
Q Consensus 193 nY~kA~k~Lq~al~~~~~ 210 (218)
+|+.|+++|++++....+
T Consensus 6 ~~~~A~~~~~~~l~~~p~ 23 (68)
T PF14559_consen 6 DYDEAIELLEKALQRNPD 23 (68)
T ss_dssp HHHHHHHHHHHHHHHTTT
T ss_pred CHHHHHHHHHHHHHHCCC
Confidence 588999999999887654
No 48
>PF14472 DUF4429: Domain of unknown function (DUF4429)
Probab=23.95 E-value=93 Score=23.70 Aligned_cols=30 Identities=23% Similarity=0.392 Sum_probs=21.7
Q ss_pred EEEeccccccccCCCCCCCCCCC---eEEEEEecCce
Q 027849 152 VVVDLDQLRTVNPSANRWNPSEK---YIHVVTRDGYE 185 (218)
Q Consensus 152 VvIPL~kik~Vnps~n~~~p~eK---YIqIvTvD~~e 185 (218)
..|||..|..| .-+.|.-+ ||+++..+|-+
T Consensus 27 ~~ipl~~i~gV----~~~~pg~~~~G~Lrf~~~~g~~ 59 (94)
T PF14472_consen 27 KTIPLSAISGV----EWKPPGGLTNGYLRFVLRGGAD 59 (94)
T ss_pred EEEEHHHcceE----EEEcCCceeEEEEEEEECCcCc
Confidence 67999999999 34435434 89999887443
No 49
>PF04283 CheF-arch: Chemotaxis signal transduction system protein F from archaea; InterPro: IPR007381 This is an archaeal protein of unknown function.
Probab=23.45 E-value=2.9e+02 Score=24.50 Aligned_cols=55 Identities=13% Similarity=0.226 Sum_probs=37.4
Q ss_pred CCcceeeEEeecceEEEeeCCCceeeCCCCCeeeEEEEEEEeccccccccCC---CCCCCCCCCeEEEEEecC
Q 027849 114 NGPVIGTLYISTQRMAFCSDYPLSHYSSSGQQEWVYFKVVVDLDQLRTVNPS---ANRWNPSEKYIHVVTRDG 183 (218)
Q Consensus 114 aGPVaG~LfiSt~kvAFcSdrpl~~~sp~g~~~~~~YKVvIPL~kik~Vnps---~n~~~p~eKYIqIvTvD~ 183 (218)
+.|+.|.+.||+.|+-|-++ . -|+.|||.+|..|.-. .....+-.-|+.|..-.+
T Consensus 23 ~~W~~~rIiLs~~rlvl~~~-~--------------~k~~Ipls~I~Di~~~~~~~~~~~~~~~~~si~~~~~ 80 (221)
T PF04283_consen 23 GKWVKGRIILSNDRLVLAFN-D--------------GKITIPLSSIEDIGVRLPPNQLLAFFSDYVSIKYKSD 80 (221)
T ss_pred CCcEEEEEEEecCEEEEEcC-C--------------CeEEEecceeEecccccCccccccccCceEEEEEecC
Confidence 67999999999999998772 1 2679999999877542 222234445555554444
No 50
>PF10756 bPH_6: Bacterial PH domain; InterPro: IPR019692 Proteins in this entry are conserved in the Actinomycetales. Although several members are annotated as RbiX homologues, RbiX being a putative regulator of riboflavin biosynthesis, the function could not be confirmed. This entry also includes low molecular weight protein antigen 6.
Probab=23.02 E-value=69 Score=22.81 Aligned_cols=36 Identities=14% Similarity=0.221 Sum_probs=30.3
Q ss_pred EEEEeccccccccCCCCCCCCCCCeEEEEEecCceeeeeee
Q 027849 151 KVVVDLDQLRTVNPSANRWNPSEKYIHVVTRDGYEFWFMGF 191 (218)
Q Consensus 151 KVvIPL~kik~Vnps~n~~~p~eKYIqIvTvD~~eFWFMGF 191 (218)
-..||.++|..|. .....+++.+.+.|+..++||+.
T Consensus 19 t~~vpW~~I~~v~-----~~~~~~~v~~~~~dg~~~~l~~~ 54 (73)
T PF10756_consen 19 TRRVPWSEIAGVR-----FRRGRRWVRLDLRDGRLVPLPAV 54 (73)
T ss_pred eEEEChHHeEEEE-----ccCCceEEEEECCCCCEEEEeeE
Confidence 4679999999986 44566779999999999999985
No 51
>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=21.40 E-value=70 Score=24.11 Aligned_cols=30 Identities=23% Similarity=0.468 Sum_probs=20.0
Q ss_pred CeEEEEEecCceeeeeeeccHHHHHHH--HHHHHhc
Q 027849 174 KYIHVVTRDGYEFWFMGFISYDKALKT--LTEALRR 207 (218)
Q Consensus 174 KYIqIvTvD~~eFWFMGFvnY~kA~k~--Lq~al~~ 207 (218)
+||.++|-||++|= |..+-|.+. +...+..
T Consensus 2 ~~v~L~S~Dg~~f~----v~~~~a~~S~~i~~~l~~ 33 (104)
T smart00512 2 KYIKLISSDGEVFE----VEREVARQSKTIKAMIED 33 (104)
T ss_pred CeEEEEeCCCCEEE----ecHHHHHHHHHHHHHHHc
Confidence 69999999999994 555555332 3444443
No 52
>PF13428 TPR_14: Tetratricopeptide repeat
Probab=21.30 E-value=1e+02 Score=19.51 Aligned_cols=19 Identities=37% Similarity=0.345 Sum_probs=15.8
Q ss_pred cHHHHHHHHHHHHhcCCCC
Q 027849 193 SYDKALKTLTEALRRFPDT 211 (218)
Q Consensus 193 nY~kA~k~Lq~al~~~~~~ 211 (218)
++++|.+.|+++++...+.
T Consensus 16 ~~~~A~~~~~~~l~~~P~~ 34 (44)
T PF13428_consen 16 QPDEAERLLRRALALDPDD 34 (44)
T ss_pred CHHHHHHHHHHHHHHCcCC
Confidence 6899999999999876543
No 53
>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=20.92 E-value=84 Score=20.79 Aligned_cols=17 Identities=24% Similarity=0.516 Sum_probs=13.1
Q ss_pred cHHHHHHHHHHHHhcCC
Q 027849 193 SYDKALKTLTEALRRFP 209 (218)
Q Consensus 193 nY~kA~k~Lq~al~~~~ 209 (218)
+|++|++++++||....
T Consensus 18 ~~~~A~~~~~~ai~~~p 34 (69)
T PF13414_consen 18 DYEEAIEYFEKAIELDP 34 (69)
T ss_dssp HHHHHHHHHHHHHHHST
T ss_pred CHHHHHHHHHHHHHcCC
Confidence 58888888888887543
No 54
>PF04326 AAA_4: Divergent AAA domain; InterPro: IPR007421 AAA ATPases form a large, functionally diverse protein family belonging to the AAA+ superfamily of ring-shaped P-loop NTPases, which exert their activity through the energy-dependent unfolding of macromolecules. AAA ATPases contain a P-loop NTPase domain, which is the most abundant class of NTP-binding protein fold, and is found throughout all kingdoms of life []. P-loop NTPase domains act to hydrolyse the beta-gamma phosphate bond of bound nucleoside triphosphate. There are two classes of P-loop domains: the KG (kinase-GTPase) division, and the ASCE division, the latter including the AAA+ group as well as several other ATPases. There are at least six major clades of AAA domains (metalloproteases, meiotic proteins, D1 and D2 domains of ATPases with two AAA domains, proteasome subunits, and BSC1), as well as several minor clades, some of which consist of hypothetical proteins []. The domain organisation of AAA ATPases consists of a non-ATPase N-terminal domain that acts in substrate recognition, followed by one or two AAA domains (D1 and D2), one of which may be degenerate. This entry is related to IPR003959 from INTERPRO, and presumably has the same function (ATP-binding). A number of the archaeal members of this group are annotated as ATP-dependent DNA helicases 3.6.1 from EC.; GO: 0005524 ATP binding; PDB: 2KYY_A 3LMM_D.
Probab=20.74 E-value=71 Score=23.77 Aligned_cols=31 Identities=23% Similarity=0.505 Sum_probs=21.5
Q ss_pred eeecccCCccch---hhhhhcceeecCCCcceeeEEee
Q 027849 90 FQQEFHKLAGEK---LLKAYACYISTSNGPVIGTLYIS 124 (218)
Q Consensus 90 FkQ~F~v~~~Ek---LlKa~~CYLSTtaGPVaG~LfiS 124 (218)
||+.+...+..+ |.|+..|++-| .| |+|+|-
T Consensus 7 fK~~~~~~~~~~~~~i~k~i~AfaN~-~G---G~iiiG 40 (122)
T PF04326_consen 7 FKESLNKSSKKGKKEIAKTICAFANT-EG---GYIIIG 40 (122)
T ss_dssp EE-GCCTCCCTEE--HHHHHHHHHCS-TT---EEEEET
T ss_pred EEecCCCCccchHHHHHHHHHHHhCC-CC---CEEEEE
Confidence 666666555443 99998888887 45 888874
No 55
>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=20.39 E-value=89 Score=21.28 Aligned_cols=15 Identities=40% Similarity=0.519 Sum_probs=12.7
Q ss_pred cHHHHHHHHHHHHhc
Q 027849 193 SYDKALKTLTEALRR 207 (218)
Q Consensus 193 nY~kA~k~Lq~al~~ 207 (218)
.|++|+.++++|+.-
T Consensus 20 ~~~~A~~~~~~al~~ 34 (78)
T PF13424_consen 20 RYDEALDYYEKALDI 34 (78)
T ss_dssp -HHHHHHHHHHHHHH
T ss_pred CHHHHHHHHHHHHHH
Confidence 689999999999965
Done!