Query 028854
Match_columns 202
No_of_seqs 139 out of 213
Neff 5.6
Searched_HMMs 46136
Date Fri Mar 29 03:35:53 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/028854.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/028854hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG3294 WW domain binding prot 100.0 3.3E-51 7.2E-56 349.9 15.5 182 1-190 1-193 (261)
2 PF10349 WWbp: WW-domain ligan 99.5 1E-13 2.2E-18 108.2 8.2 78 105-186 4-98 (116)
3 PF11605 Vps36_ESCRT-II: Vacuo 98.7 6.8E-08 1.5E-12 72.3 6.3 76 7-85 2-77 (89)
4 PF02893 GRAM: GRAM domain; I 97.6 9.3E-05 2E-09 51.7 3.9 43 40-82 27-69 (69)
5 PF14470 bPH_3: Bacterial PH d 96.9 0.0031 6.8E-08 45.8 5.8 63 16-86 2-65 (96)
6 KOG2760 Vacuolar sorting prote 96.6 0.021 4.7E-07 53.2 10.3 89 43-133 65-162 (432)
7 smart00568 GRAM domain in gluc 95.8 0.01 2.2E-07 40.2 3.2 39 40-79 19-58 (61)
8 PF12068 DUF3548: Domain of un 94.6 0.034 7.4E-07 47.9 3.5 59 63-132 109-167 (213)
9 PF07289 DUF1448: Protein of u 93.9 0.11 2.3E-06 47.8 5.3 72 7-87 143-215 (339)
10 smart00683 DM16 Repeats in sea 93.2 0.27 5.7E-06 33.9 5.1 37 42-80 18-54 (55)
11 PF08000 bPH_1: Bacterial PH d 91.9 0.27 5.9E-06 38.9 4.3 75 12-121 24-100 (124)
12 PF08567 TFIIH_BTF_p62_N: TFII 90.9 0.29 6.3E-06 35.7 3.3 58 39-119 8-67 (79)
13 PF04283 CheF-arch: Chemotaxis 87.1 2.5 5.3E-05 36.5 6.9 75 42-132 25-107 (221)
14 KOG1090 Predicted dual-specifi 86.7 0.49 1.1E-05 49.2 2.7 120 10-140 783-918 (1732)
15 PF07289 DUF1448: Protein of u 85.5 3.9 8.4E-05 37.7 7.6 114 14-142 18-138 (339)
16 PF03517 Voldacs: Regulator of 78.5 2.1 4.5E-05 33.9 2.9 30 45-76 1-30 (135)
17 PF13889 Chromosome_seg: Chrom 67.7 5.8 0.00013 27.4 2.6 19 43-61 15-34 (56)
18 KOG2760 Vacuolar sorting prote 52.0 17 0.00037 34.4 3.6 53 7-61 7-59 (432)
19 KOG4471 Phosphatidylinositol 3 43.4 20 0.00044 35.7 2.8 55 15-79 36-90 (717)
20 PF02174 IRS: PTB domain (IRS- 42.5 1.2E+02 0.0027 22.5 6.5 82 38-135 17-98 (100)
21 PF11371 DUF3172: Protein of u 42.4 14 0.00029 30.0 1.2 26 167-193 64-91 (140)
22 cd01201 Neurobeachin Neurobeac 40.0 76 0.0016 24.7 5.0 25 42-66 17-41 (108)
23 TIGR03749 conj_TIGR03749 integ 38.9 28 0.0006 31.0 2.7 37 14-50 27-65 (257)
24 PF11920 DUF3438: Protein of u 37.1 31 0.00067 31.2 2.8 39 13-51 34-74 (288)
25 KOG3238 Chloride ion current i 36.6 37 0.00081 29.3 3.0 22 39-60 30-51 (216)
26 PF08512 Rtt106: Histone chape 29.7 1.2E+02 0.0026 22.4 4.5 63 39-125 7-71 (95)
27 PF13619 KTSC: KTSC domain 29.3 43 0.00094 22.6 1.9 32 109-140 15-46 (60)
28 PF12158 DUF3592: Protein of u 28.8 37 0.0008 25.9 1.7 16 165-180 98-113 (148)
29 KOG4347 GTPase-activating prot 28.5 41 0.00088 33.7 2.2 40 39-80 35-74 (671)
30 PF03703 bPH_2: Bacterial PH d 28.4 83 0.0018 21.2 3.3 47 47-95 6-52 (80)
31 PF08778 HIF-1a_CTAD: HIF-1 al 26.7 8.4 0.00018 24.8 -1.8 26 65-90 1-26 (40)
32 PF14844 PH_BEACH: PH domain a 26.1 57 0.0012 24.0 2.3 21 39-59 13-33 (106)
33 PF04694 Corona_3: Coronavirus 25.8 1.1E+02 0.0024 21.0 3.4 28 108-135 23-53 (60)
34 PF02290 SRP14: Signal recogni 23.1 65 0.0014 24.0 2.0 14 45-58 22-35 (93)
35 PF08616 SPA: Stabilization of 22.8 40 0.00087 25.9 0.9 48 48-97 22-90 (113)
36 PF03992 ABM: Antibiotic biosy 21.9 2.2E+02 0.0049 18.6 4.5 26 110-135 4-29 (78)
37 PF11170 DUF2957: Protein of u 21.9 58 0.0013 30.3 1.8 20 166-185 60-79 (361)
38 PF14202 TnpW: Transposon-enco 20.7 1.5E+02 0.0032 18.5 3.0 24 110-133 12-35 (37)
39 PF09299 Mu-transpos_C: Mu tra 20.0 42 0.00091 22.6 0.4 17 166-182 39-55 (62)
No 1
>KOG3294 consensus WW domain binding protein WBP-2, contains GRAM domain [Signal transduction mechanisms]
Probab=100.00 E-value=3.3e-51 Score=349.85 Aligned_cols=182 Identities=34% Similarity=0.518 Sum_probs=158.0
Q ss_pred CccCCccCCCCc-eeeCCCcEEEEEeCcEEEEEccCCC---CccccccceEEeeccEEEEEeCCCCCceeeecccccccc
Q 028854 1 MALNPQLFPNWM-PVPFTNELFVLARDGVEFHVDKIPG---TNQVKARGTVYLSNIRVVFVASKPVGNFVAFDMPLLYIH 76 (202)
Q Consensus 1 MalN~~l~~~g~-pl~~~~E~ill~r~~v~l~~~~~p~---~~~~~~~G~~yLTn~RlVFv~~~~~~~f~SFs~Pl~~i~ 76 (202)
|||||+|+++|. +|++++|+||+.+|+|+|+|.+++. .+++++||+||||++|||||+++++|+|+||+|||++|+
T Consensus 1 MslN~sht~~G~gvl~~n~E~i~~~~dgVeltf~~~~~~~~~~~g~kkGtlyLTs~RiIFis~~~~D~fksF~MPf~~mk 80 (261)
T KOG3294|consen 1 MSLNTSHTPNGRGVLLYNGESILLVYDGVELTFDKMPNVSEAFKGTKKGTLYLTSHRIIFISSKPKDAFKSFMMPFNLMK 80 (261)
T ss_pred CccccccCCCCceeEecCCcEEEEeeCCeEEEeeccCCCccccccceeeeEEeecceEEEecCCCCcchhhhcchhhhhh
Confidence 999999999996 6999999999999999999998765 599999999999999999999999999999999999999
Q ss_pred cCeeeccccccceeeEEEEecCCCCCCCCCCcceEEEEEEccCCeechHHHHHHHHHHHHhhcccccCCCCCCCCCCCCC
Q 028854 77 DEKFNQPIFHCNNISGFVEPVIPENEHRALYSTHSFKILFKEGGCGTFVPLFLNLISSVRQYNRQSNVGTEPRVDPLQAA 156 (202)
Q Consensus 77 d~~~~QP~FGaNy~~g~V~p~~~gg~~~g~~~~~~~kl~F~~GG~~eF~~~f~~l~~~~~~~~~~~~~~~~~~~~plpay 156 (202)
|+||+||+||||||+|+|+|+++| ||++.++|||+|++|||+||+++|+++.+++++...+..+ ...+..+.++|
T Consensus 81 d~klnQPvF~aNyikGtV~pvpgG----g~~g~as~Kl~F~~GG~ieFgq~~l~~~s~a~r~r~~sg~-~~~~~~p~~~y 155 (261)
T KOG3294|consen 81 DVKLNQPVFGANYIKGTVQPVPGG----GWEGEASFKLTFNEGGCIEFGQLLLQAASRASRGRPLSGA-YGQSAAPGPPY 155 (261)
T ss_pred hceecCcccccceeeeeEeecCCC----CccceeEEEEEecCCCchhHHHHHHHHHHHHHhccccccc-ccccccCCCCc
Confidence 999999999999999999999877 6999999999999999999999999999999988877522 23455565565
Q ss_pred CCCc---hhcc---ceeeeCCCCCCeeeecCC-CCcccccc
Q 028854 157 QTPV---DEMM---RHAYVDPNDPTKIFLQQP-NSESQLRR 190 (202)
Q Consensus 157 ~~p~---~~~~---~~A~vdP~DPt~iy~~QP-~~~~~~~~ 190 (202)
-.|. ..+. ..-.++|+||..+| | .++++++|
T Consensus 156 ~~Ppp~~~~~y~~Pp~y~~ppp~P~~y~---Pgpp~~~~~r 193 (261)
T KOG3294|consen 156 VDPPPVTSGMYPAPPGYPVPPPPPNGYY---PGPPEPDRAR 193 (261)
T ss_pred cCCcccccccccCCCCCCCCCCCccccc---CCCCCccccc
Confidence 5541 1111 12359999999988 8 77888777
No 2
>PF10349 WWbp: WW-domain ligand protein; InterPro: IPR018826 This entry represents a sequence domain found in WW domain-binding protein that is characterised by several short PY and PT-like motifs of the PPPPY form. These appear to bind directly to the WW domains of WWP1 and WWP2 and other such diverse proteins as dystrophin and YAP (Yes-associated protein). The presence of a phosphotyrosine residue in the pWBP-1 peptide abolishes WW domain binding which suggests a potential regulatory role for tyrosine phosphorylation in modulating WW domain-ligand interactions. Given the likelihood that WWP1 and WWP2 function as E3 ubiquitin-protein ligases, it is possible that initial substrate-specific recognition occurs via WW domain-substrate protein interaction followed by ubiquitin transfer and subsequent proteolysis []. This domain lies just downstream of IPR004182 from INTERPRO in many sequences.
Probab=99.49 E-value=1e-13 Score=108.22 Aligned_cols=78 Identities=23% Similarity=0.311 Sum_probs=58.8
Q ss_pred CCCcceEEEEEEccCCeechHHHHHHHHHHHHhhcccccCC---------CCCCCCCCCCCCC----CchhccceeeeCC
Q 028854 105 ALYSTHSFKILFKEGGCGTFVPLFLNLISSVRQYNRQSNVG---------TEPRVDPLQAAQT----PVDEMMRHAYVDP 171 (202)
Q Consensus 105 g~~~~~~~kl~F~~GG~~eF~~~f~~l~~~~~~~~~~~~~~---------~~~~~~plpay~~----p~~~~~~~A~vdP 171 (202)
||++.++|||+||+||||||+++|++|+++++++.++.+.. +..+.+++|+|+. |. ..+|-.|
T Consensus 4 Gw~g~~~fKltFk~GGAieFgq~~~~~~~~a~r~~~~~~~~~~~~~~~~~~~~~~~p~p~~~~~y~~Pp----~~~y~~p 79 (116)
T PF10349_consen 4 GWEGQAEFKLTFKSGGAIEFGQAMLRLAERASRAVPVQREPGGGYYPVPPGGVHLPPLPPYPGPYGAPP----PPAYGPP 79 (116)
T ss_pred CccCceEEEEEeCCCChHHHHHHHHHHHHHHhhccccccccccccccCCccccCCCCCCCCCCCCCCCC----CcccCCC
Confidence 79999999999999999999999999999999998876554 3457888999876 42 1222222
Q ss_pred ----CCCCeeeecCCCCcc
Q 028854 172 ----NDPTKIFLQQPNSES 186 (202)
Q Consensus 172 ----~DPt~iy~~QP~~~~ 186 (202)
..+...|.++|....
T Consensus 80 p~~~~~~~~~~~~~p~~~~ 98 (116)
T PF10349_consen 80 PPGYPPPPAAYPPPPPPNS 98 (116)
T ss_pred CCCCCCCCCcCCCCCCCcC
Confidence 356666666665443
No 3
>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=98.65 E-value=6.8e-08 Score=72.32 Aligned_cols=76 Identities=22% Similarity=0.312 Sum_probs=51.6
Q ss_pred cCCCCceeeCCCcEEEEEeCcEEEEEccCCCCccccccceEEeeccEEEEEeCCCCCceeeecccccccccCeeecccc
Q 028854 7 LFPNWMPVPFTNELFVLARDGVEFHVDKIPGTNQVKARGTVYLSNIRVVFVASKPVGNFVAFDMPLLYIHDEKFNQPIF 85 (202)
Q Consensus 7 l~~~g~pl~~~~E~ill~r~~v~l~~~~~p~~~~~~~~G~~yLTn~RlVFv~~~~~~~f~SFs~Pl~~i~d~~~~QP~F 85 (202)
++..+.|+..++|.+++..++|-|--.+. ....-.+|++|||+|||||+.+. ...-.|+++||..+...+...-+|
T Consensus 2 ~t~s~~p~L~~~E~~~~~q~~V~LYdG~~--K~~~~q~G~l~LTsHRliw~d~~-~~~~~s~~l~L~~i~~~e~~~gf~ 77 (89)
T PF11605_consen 2 LTSSGRPVLEPNETIVYQQDGVGLYDGDQ--KTPNFQNGRLYLTSHRLIWVDDS-DPSKHSIALPLSLISHIEYSAGFL 77 (89)
T ss_dssp B-TCS-C---TT--EEEEEEEEEEEETTE--CSTT-SCEEEEEESSEEEEEESS-GHCHH-EEEEGGGEEEEEEE-STT
T ss_pred cccccCcccCCCceEEEEecCeeeEcCCc--cCccccCCEEEEEeeEEEEEcCC-CCceeEEEEEchHeEEEEEEcccc
Confidence 45678999999999999999999976421 11245689999999999999887 334459999999999887766655
No 4
>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=97.57 E-value=9.3e-05 Score=51.66 Aligned_cols=43 Identities=21% Similarity=0.342 Sum_probs=32.6
Q ss_pred cccccceEEeeccEEEEEeCCCCCceeeecccccccccCeeec
Q 028854 40 QVKARGTVYLSNIRVVFVASKPVGNFVAFDMPLLYIHDEKFNQ 82 (202)
Q Consensus 40 ~~~~~G~~yLTn~RlVFv~~~~~~~f~SFs~Pl~~i~d~~~~Q 82 (202)
+....|++|||++||+|.+........++.+||..|.+.+-+|
T Consensus 27 ~~~~~G~LyiT~~~lcF~s~~~~~~~~~~~ipl~~I~~i~k~~ 69 (69)
T PF02893_consen 27 KIPVQGRLYITNNYLCFYSNKFGSKTCKFVIPLSDIKSIEKET 69 (69)
T ss_dssp ---EEEEEEEESSEEEEEESSSSS-E-EEEEEGGGEEEEEEE-
T ss_pred ccceeeEEEECCCEEEEEECCCCCceEEEEEEhHheeEEEEeC
Confidence 6678899999999999999875566679999999998876543
No 5
>PF14470 bPH_3: Bacterial PH domain
Probab=96.87 E-value=0.0031 Score=45.80 Aligned_cols=63 Identities=19% Similarity=0.230 Sum_probs=47.8
Q ss_pred CCCcEEEEEeCcE-EEEEccCCCCccccccceEEeeccEEEEEeCCCCCceeeecccccccccCeeeccccc
Q 028854 16 FTNELFVLARDGV-EFHVDKIPGTNQVKARGTVYLSNIRVVFVASKPVGNFVAFDMPLLYIHDEKFNQPIFH 86 (202)
Q Consensus 16 ~~~E~ill~r~~v-~l~~~~~p~~~~~~~~G~~yLTn~RlVFv~~~~~~~f~SFs~Pl~~i~d~~~~QP~FG 86 (202)
.++|.|++...+. +.. .....|.+++||+||+|+....-.....-++|+.+|.+.+++.=|++
T Consensus 2 ~~~E~I~~~~~~~~~~~--------~~~~~g~l~~TnkRlif~~~~~~~~~~~~~i~y~~I~~v~~~~g~~~ 65 (96)
T PF14470_consen 2 KEDEEIEYVAVGSYNYF--------FTSFPGVLVLTNKRLIFYSKGMFGGKKFESIPYDDITSVSFKKGILG 65 (96)
T ss_pred cCCCEEEEEEEEEEeec--------ccCceeEEEEeCCEEEEEEcccCCCceEEEEEhhheEEEEEEccccc
Confidence 4678888765432 111 34667999999999999998744456678999999999999877755
No 6
>KOG2760 consensus Vacuolar sorting protein VPS36 [Intracellular trafficking, secretion, and vesicular transport]
Probab=96.57 E-value=0.021 Score=53.23 Aligned_cols=89 Identities=18% Similarity=0.230 Sum_probs=52.8
Q ss_pred ccceEEeeccEEEEEe--CCCCCceeeecccccccccCeeec-c--ccc-cceeeEEEEecCCCCCCCCCCcc---eEEE
Q 028854 43 ARGTVYLSNIRVVFVA--SKPVGNFVAFDMPLLYIHDEKFNQ-P--IFH-CNNISGFVEPVIPENEHRALYST---HSFK 113 (202)
Q Consensus 43 ~~G~~yLTn~RlVFv~--~~~~~~f~SFs~Pl~~i~d~~~~Q-P--~FG-aNy~~g~V~p~~~gg~~~g~~~~---~~~k 113 (202)
.+|++.||++|+|-.+ +. .+.=.+.++|+..+-.+.-.. + .|| +|.+..+..+..++..+ |.-.. .-++
T Consensus 65 ~dg~~vltt~Rliw~~p~~~-~~~~~~~~~pls~vI~v~~~~~~~~~~g~~~~i~~~~~~~~~~~~~-gp~~a~~~~~iq 142 (432)
T KOG2760|consen 65 DDGTLVLTTHRLIWRSPTSS-ADVEVTWVCPLSMVINVGEPAKSELTFGKINRIVVILHKPNPRFSP-GPCPASTFAFIQ 142 (432)
T ss_pred cchhhhhhhceeeecCcccc-cccceeeeeceeEEEEecCccchhhcccccceEEEEeCCCCCcCCC-CCcccceeeEEE
Confidence 4566677777766664 22 245567788887665443322 1 355 66677766554333222 12122 2479
Q ss_pred EEEccCCeechHHHHHHHHH
Q 028854 114 ILFKEGGCGTFVPLFLNLIS 133 (202)
Q Consensus 114 l~F~~GG~~eF~~~f~~l~~ 133 (202)
|.|+.||-.+|++++..-..
T Consensus 143 LsFR~~g~~~F~~~l~ee~~ 162 (432)
T KOG2760|consen 143 LSFRGSGSVDFLEALLEEKN 162 (432)
T ss_pred EEecCCCcHHHHHHHHHHHH
Confidence 99999999999776655443
No 7
>smart00568 GRAM domain in glucosyltransferases, myotubularins and other putative membrane-associated proteins.
Probab=95.81 E-value=0.01 Score=40.22 Aligned_cols=39 Identities=28% Similarity=0.509 Sum_probs=30.5
Q ss_pred cccccceEEeeccEEEEEeCCCCCcee-eecccccccccCe
Q 028854 40 QVKARGTVYLSNIRVVFVASKPVGNFV-AFDMPLLYIHDEK 79 (202)
Q Consensus 40 ~~~~~G~~yLTn~RlVFv~~~~~~~f~-SFs~Pl~~i~d~~ 79 (202)
.....|++|||++||.|-+... +... .+.+|+..|...+
T Consensus 19 ~~~~~G~lyiT~~~l~F~S~~~-~~~~~~~~ipl~~I~~i~ 58 (61)
T smart00568 19 DGPVQGRLYISNYRLCFRSDLP-GKLTPKVVIPLADITRIE 58 (61)
T ss_pred CccccEEEEEECCEEEEEccCC-CCeeEEEEEEHHHeeEEE
Confidence 3567899999999999999763 4444 7999998887543
No 8
>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=94.64 E-value=0.034 Score=47.87 Aligned_cols=59 Identities=15% Similarity=0.276 Sum_probs=47.2
Q ss_pred CceeeecccccccccCeeeccccccceeeEEEEecCCCCCCCCCCcceEEEEEEccCCeechHHHHHHHH
Q 028854 63 GNFVAFDMPLLYIHDEKFNQPIFHCNNISGFVEPVIPENEHRALYSTHSFKILFKEGGCGTFVPLFLNLI 132 (202)
Q Consensus 63 ~~f~SFs~Pl~~i~d~~~~QP~FGaNy~~g~V~p~~~gg~~~g~~~~~~~kl~F~~GG~~eF~~~f~~l~ 132 (202)
..-.+|++||.-|+.-+..-|-+|-+||-...+. |...|. |.|.+||+-+|++.+.+..
T Consensus 109 ~~~~aFsv~lsdl~Si~~~~p~~G~~~lv~~~kd--G~~~p~---------L~Fh~gg~~~fl~~L~~~v 167 (213)
T PF12068_consen 109 RSSYAFSVPLSDLKSIRVSKPSLGWWYLVFILKD--GTSLPP---------LHFHDGGSKEFLKSLQRYV 167 (213)
T ss_pred CcceEEEEEhhheeeEEecCCCCCceEEEEEecC--CCccCc---------eEEecCCHHHHHHHHHhhE
Confidence 3566999999999999999999999998777764 333343 9999999999976665543
No 9
>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=93.91 E-value=0.11 Score=47.76 Aligned_cols=72 Identities=21% Similarity=0.289 Sum_probs=57.0
Q ss_pred cCCCCceeeCCCcEEEEEeCcEE-EEEccCCCCccccccceEEeeccEEEEEeCCCCCceeeecccccccccCeeecccc
Q 028854 7 LFPNWMPVPFTNELFVLARDGVE-FHVDKIPGTNQVKARGTVYLSNIRVVFVASKPVGNFVAFDMPLLYIHDEKFNQPIF 85 (202)
Q Consensus 7 l~~~g~pl~~~~E~ill~r~~v~-l~~~~~p~~~~~~~~G~~yLTn~RlVFv~~~~~~~f~SFs~Pl~~i~d~~~~QP~F 85 (202)
+-.+|....||+|.++-...+|- |+-+ ...=|+.++||.|+|.-++. ++.| -.|+|++.|...++...-|
T Consensus 143 ii~~~~L~lLp~E~v~~~~~gVwnls~d-------qGnLGtfivTNvRiVW~A~~-ne~f-NVSiPylqi~~i~ir~SKf 213 (339)
T PF07289_consen 143 IIRDGQLKLLPQEQVYSRVNGVWNLSSD-------QGNLGTFIVTNVRIVWFADM-NESF-NVSIPYLQIKSIRIRDSKF 213 (339)
T ss_pred eeeCCeEeeCCccEEeeccCCEEEcccC-------CCceeEEEEeeeEEEEEccC-Cccc-cccchHhhheeeeeecccc
Confidence 34578888899999988888775 3221 22339999999999999986 4554 5899999999999999999
Q ss_pred cc
Q 028854 86 HC 87 (202)
Q Consensus 86 Ga 87 (202)
|.
T Consensus 214 G~ 215 (339)
T PF07289_consen 214 GP 215 (339)
T ss_pred ce
Confidence 84
No 10
>smart00683 DM16 Repeats in sea squirt COS41.4, worm R01H10.6, fly CG1126 etc.
Probab=93.23 E-value=0.27 Score=33.87 Aligned_cols=37 Identities=16% Similarity=0.320 Sum_probs=30.3
Q ss_pred cccceEEeeccEEEEEeCCCCCceeeecccccccccCee
Q 028854 42 KARGTVYLSNIRVVFVASKPVGNFVAFDMPLLYIHDEKF 80 (202)
Q Consensus 42 ~~~G~~yLTn~RlVFv~~~~~~~f~SFs~Pl~~i~d~~~ 80 (202)
...|++++||.|+|--+.. . .--.+|+|+..|...++
T Consensus 18 G~~G~l~VTNlRiiW~s~~-~-~~~NlSIgy~~i~~i~~ 54 (55)
T smart00683 18 GDLGVFFVTNLRLVWHSDT-N-PRFNISVGYLQITNVRV 54 (55)
T ss_pred CCeeEEEEEeeEEEEEeCC-C-CceEEEEcceeEEEEEe
Confidence 3569999999999999987 3 55678999999887654
No 11
>PF08000 bPH_1: Bacterial PH domain; InterPro: IPR012544 This family contains many bacterial hypothetical proteins.; PDB: 3DCX_E 3HSA_C 3B77_D.
Probab=91.87 E-value=0.27 Score=38.94 Aligned_cols=75 Identities=19% Similarity=0.289 Sum_probs=49.0
Q ss_pred ceeeCCCcEEEEEeCcEEEEEccCCCCccccccceEEeeccEEEEEeCCC-CCceeee-cccccccccCeeeccccccce
Q 028854 12 MPVPFTNELFVLARDGVEFHVDKIPGTNQVKARGTVYLSNIRVVFVASKP-VGNFVAF-DMPLLYIHDEKFNQPIFHCNN 89 (202)
Q Consensus 12 ~pl~~~~E~ill~r~~v~l~~~~~p~~~~~~~~G~~yLTn~RlVFv~~~~-~~~f~SF-s~Pl~~i~d~~~~QP~FGaNy 89 (202)
.++.++||.|+...+.+ +..+.+||+|||++..+. ++.=..+ |+|+..|....++.
T Consensus 24 ~~~L~~gE~I~~ayk~i---------------RD~~vFTnkRlI~vD~QG~TGkK~~~~siPY~~I~~~siET------- 81 (124)
T PF08000_consen 24 EPLLLDGEEIEAAYKLI---------------RDEIVFTNKRLILVDKQGITGKKVEYKSIPYSSITHFSIET------- 81 (124)
T ss_dssp GGGSSTT--EEEEEEES---------------SEEEEEESSEEEEEEEESSSSSEEEEEEEEGGGEEEEEEEE-------
T ss_pred HHhcCCCCeeeeeehhh---------------ceeEEEecChheEEecccCccceEEEEEEehhhccEEEEEe-------
Confidence 56678899888754422 356677999999999642 3333333 67999988666643
Q ss_pred eeEEEEecCCCCCCCCCCcceEEEEEEccCCe
Q 028854 90 ISGFVEPVIPENEHRALYSTHSFKILFKEGGC 121 (202)
Q Consensus 90 ~~g~V~p~~~gg~~~g~~~~~~~kl~F~~GG~ 121 (202)
+ | -+--.+++|||+..++.
T Consensus 82 -------A--G----~~DlD~Elki~i~~~~~ 100 (124)
T PF08000_consen 82 -------A--G----TFDLDSELKIWISGQGF 100 (124)
T ss_dssp -------C--S----STTSEEEEEEEETTESS
T ss_pred -------C--C----cccCcccEEEEECCCcE
Confidence 2 2 24456889998887774
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=90.89 E-value=0.29 Score=35.69 Aligned_cols=58 Identities=21% Similarity=0.267 Sum_probs=43.5
Q ss_pred ccccccceEEeeccE--EEEEeCCCCCceeeecccccccccCeeeccccccceeeEEEEecCCCCCCCCCCcceEEEEEE
Q 028854 39 NQVKARGTVYLSNIR--VVFVASKPVGNFVAFDMPLLYIHDEKFNQPIFHCNNISGFVEPVIPENEHRALYSTHSFKILF 116 (202)
Q Consensus 39 ~~~~~~G~~yLTn~R--lVFv~~~~~~~f~SFs~Pl~~i~d~~~~QP~FGaNy~~g~V~p~~~gg~~~g~~~~~~~kl~F 116 (202)
...+..|+||||+-| ++..++. .+...++++|+..|...+. -|. + ...+.+||..
T Consensus 8 ~yKK~~G~L~l~~d~~~~~W~~~~-~~~~~~v~i~~~~I~~lq~--------------Sp~--~------s~Kv~Lki~~ 64 (79)
T PF08567_consen 8 SYKKKDGTLTLTEDRKPLEWTPKA-SDGPSTVSIPLNDIKNLQQ--------------SPE--G------SPKVMLKIVL 64 (79)
T ss_dssp EETTEEEEEEEETTCSSEEEEECC-SSSSSEEEEETTTEEEEEE----------------T--T------SSTEEEEEEE
T ss_pred EEEcCCcEEEEecCCceEEEeecC-CCCCceEEEEHHHhhhhcc--------------CCC--C------CcceEEEEEE
Confidence 445778999999999 9999987 5566699999999985333 232 2 2457888888
Q ss_pred ccC
Q 028854 117 KEG 119 (202)
Q Consensus 117 ~~G 119 (202)
+++
T Consensus 65 ~~~ 67 (79)
T PF08567_consen 65 KDD 67 (79)
T ss_dssp TTS
T ss_pred ecC
Confidence 888
No 13
>PF04283 CheF-arch: Chemotaxis signal transduction system protein F from archaea; InterPro: IPR007381 This is an archaeal protein of unknown function.
Probab=87.08 E-value=2.5 Score=36.55 Aligned_cols=75 Identities=23% Similarity=0.270 Sum_probs=51.2
Q ss_pred cccceEEeeccEEEEEeCCCCCceeeecccccccccCeeecc-----ccccceeeEEEEecCCCCCCCCCCcceEEEEEE
Q 028854 42 KARGTVYLSNIRVVFVASKPVGNFVAFDMPLLYIHDEKFNQP-----IFHCNNISGFVEPVIPENEHRALYSTHSFKILF 116 (202)
Q Consensus 42 ~~~G~~yLTn~RlVFv~~~~~~~f~SFs~Pl~~i~d~~~~QP-----~FGaNy~~g~V~p~~~gg~~~g~~~~~~~kl~F 116 (202)
=.+|++.||+.||||.... ....+||..|.|...+.| -|-.+|.+-.+... + .+..+.|
T Consensus 25 W~~~rIiLs~~rlvl~~~~-----~k~~Ipls~I~Di~~~~~~~~~~~~~~~~~si~~~~~--~---------~~~v~~i 88 (221)
T PF04283_consen 25 WVKGRIILSNDRLVLAFND-----GKITIPLSSIEDIGVRLPPNQLLAFFSDYVSIKYKSD--E---------GERVILI 88 (221)
T ss_pred cEEEEEEEecCEEEEEcCC-----CeEEEecceeEecccccCccccccccCceEEEEEecC--C---------CcEEEEE
Confidence 3579999999999999844 123899999999888655 34455555555443 1 2455666
Q ss_pred ccCCe---echHHHHHHHH
Q 028854 117 KEGGC---GTFVPLFLNLI 132 (202)
Q Consensus 117 ~~GG~---~eF~~~f~~l~ 132 (202)
.-+.. .+|...+++++
T Consensus 89 ~~~~~~~~e~F~~~lf~~l 107 (221)
T PF04283_consen 89 SPEDSKTIEKFETKLFRAL 107 (221)
T ss_pred EcCCcccHHHHHHHHHHHh
Confidence 66666 77776555554
No 14
>KOG1090 consensus Predicted dual-specificity phosphatase [General function prediction only]
Probab=86.73 E-value=0.49 Score=49.22 Aligned_cols=120 Identities=23% Similarity=0.250 Sum_probs=62.9
Q ss_pred CCceeeCCCcEEEEEeCcEEEEEcc----CC---CCccccccceEEeeccEEEEEeCCCC----CceeeecccccccccC
Q 028854 10 NWMPVPFTNELFVLARDGVEFHVDK----IP---GTNQVKARGTVYLSNIRVVFVASKPV----GNFVAFDMPLLYIHDE 78 (202)
Q Consensus 10 ~g~pl~~~~E~ill~r~~v~l~~~~----~p---~~~~~~~~G~~yLTn~RlVFv~~~~~----~~f~SFs~Pl~~i~d~ 78 (202)
+-.|+.++||..+..--.|=|--++ +. .....-++|.+||||+||||--+... +..-==++|+..+...
T Consensus 783 ~~~P~LlpGE~lv~D~lrcyLlpdgrE~e~~~~~~~~LlPAeGalFLTnYRVIFkG~p~Dpl~~eqviVrtfPlasl~ke 862 (1732)
T KOG1090|consen 783 NFDPVLLPGEFLVSDPLRCYLLPDGRESEMSLNRLENLLPAEGALFLTNYRVIFKGKPVDPLATEQVIVRTFPLASLEKE 862 (1732)
T ss_pred CCCccccCchhhccCCceEEEecCcccccccccccccccccCcceEEeeeEEEecCCCCCcccccceEEEEeehhhhhhh
Confidence 4478999999877633333232221 10 11567799999999999999766522 2222234577666544
Q ss_pred eeeccccccceeeEEEEecCCC-CCCCCCCcc----eEEEEEEccCCeechHHHHHHHHHHHHhhcc
Q 028854 79 KFNQPIFHCNNISGFVEPVIPE-NEHRALYST----HSFKILFKEGGCGTFVPLFLNLISSVRQYNR 140 (202)
Q Consensus 79 ~~~QP~FGaNy~~g~V~p~~~g-g~~~g~~~~----~~~kl~F~~GG~~eF~~~f~~l~~~~~~~~~ 140 (202)
|= | .|+-..+. -+-.|+.-+ --.|..|..-=++|=.+.|.+.++.+|+..+
T Consensus 863 Kk---------i--sv~~~~~dQll~~Glqlrs~~fql~k~Afd~ev~~d~~E~frk~l~K~r~p~d 918 (1732)
T KOG1090|consen 863 KK---------I--SVKKLIPDQLLEKGLQLRSIIFQLSKCAFDIEVAFDEDEIFRKALEKFREPID 918 (1732)
T ss_pred hh---------h--hhhccChHHHHHhcchhhhHHHHHHHhhcCccccccHHHHHHHHHHHhcCCcc
Confidence 31 1 11101000 000011111 1225556555566666667777776666544
No 15
>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=85.48 E-value=3.9 Score=37.72 Aligned_cols=114 Identities=17% Similarity=0.193 Sum_probs=75.9
Q ss_pred eeCCCcEEEEEeCcEEEEEccCCCCccccccceEEeeccEEEEEeCCCCCceeeecccccccccCeeeccccccceeeEE
Q 028854 14 VPFTNELFVLARDGVEFHVDKIPGTNQVKARGTVYLSNIRVVFVASKPVGNFVAFDMPLLYIHDEKFNQPIFHCNNISGF 93 (202)
Q Consensus 14 l~~~~E~ill~r~~v~l~~~~~p~~~~~~~~G~~yLTn~RlVFv~~~~~~~f~SFs~Pl~~i~d~~~~QP~FGaNy~~g~ 93 (202)
...+||.++-.-++||=+= +--..+|++++||-|+|..+.+ ... -++|+=+.+|.+.+.+.= .+.+.|.
T Consensus 18 ~lr~GE~~i~~~~~VEDtK------GN~G~~G~l~vTNLR~iW~s~~-~~r-~NlSIG~~~i~~i~~~~~---~sklrg~ 86 (339)
T PF07289_consen 18 KLRPGEFIIDRLDPVEDTK------GNNGDRGRLVVTNLRLIWHSLK-RPR-INLSIGYNCITNISTKTV---NSKLRGN 86 (339)
T ss_pred ccccceEEEEeeeceeecc------CCCCCeeEEEEEeeeeEEeccC-CCc-eeEEeeceeEEEEEEEEe---eccccCc
Confidence 3458899988888777432 2223789999999999999986 333 788999888887666521 4446665
Q ss_pred EEecCCCCCCCCCCcceEEEEEEcc--C-----CeechHHHHHHHHHHHHhhcccc
Q 028854 94 VEPVIPENEHRALYSTHSFKILFKE--G-----GCGTFVPLFLNLISSVRQYNRQS 142 (202)
Q Consensus 94 V~p~~~gg~~~g~~~~~~~kl~F~~--G-----G~~eF~~~f~~l~~~~~~~~~~~ 142 (202)
.++.--- .-.+...|++.|.. . -.++.+....++++.-+-++++.
T Consensus 87 teaL~i~----~k~~~~rfEFiFt~~~~~~~~~~lf~~v~~v~raY~ts~lYRelk 138 (339)
T PF07289_consen 87 TEALYIL----AKFNNTRFEFIFTNLSPNSPRQRLFTSVQAVYRAYETSRLYRELK 138 (339)
T ss_pred eeEEEEe----eecCCceEEEEeccCCCCCccchHHHHHHHHHHHHHHHhHhhhhh
Confidence 4443100 11234677777762 2 23667777788888877777765
No 16
>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=78.51 E-value=2.1 Score=33.95 Aligned_cols=30 Identities=23% Similarity=0.576 Sum_probs=20.2
Q ss_pred ceEEeeccEEEEEeCCCCCceeeecccccccc
Q 028854 45 GTVYLSNIRVVFVASKPVGNFVAFDMPLLYIH 76 (202)
Q Consensus 45 G~~yLTn~RlVFv~~~~~~~f~SFs~Pl~~i~ 76 (202)
|.||||+.||++++.. ..=+.|++|+..|.
T Consensus 1 g~L~Vt~~~l~w~~~~--~~~~G~~ipY~sI~ 30 (135)
T PF03517_consen 1 GTLYVTESRLIWFSNE--DSSKGFSIPYPSIS 30 (135)
T ss_dssp EEEEEETTEEEEEET----TTEEEEESS---S
T ss_pred CEEEEecCEEEEECCC--cCCcceeecCCeEE
Confidence 7899999999999931 13356777775554
No 17
>PF13889 Chromosome_seg: Chromosome segregation during meiosis
Probab=67.66 E-value=5.8 Score=27.43 Aligned_cols=19 Identities=47% Similarity=0.889 Sum_probs=16.0
Q ss_pred ccceEEe-eccEEEEEeCCC
Q 028854 43 ARGTVYL-SNIRVVFVASKP 61 (202)
Q Consensus 43 ~~G~~yL-Tn~RlVFv~~~~ 61 (202)
++|++|| ++.||||-.+.+
T Consensus 15 ~~gr~YLh~dIRvvF~~r~~ 34 (56)
T PF13889_consen 15 RSGRFYLHTDIRVVFARRSP 34 (56)
T ss_pred CCCcEEEECCeEEEEeccCC
Confidence 4899988 789999988764
No 18
>KOG2760 consensus Vacuolar sorting protein VPS36 [Intracellular trafficking, secretion, and vesicular transport]
Probab=52.00 E-value=17 Score=34.38 Aligned_cols=53 Identities=11% Similarity=0.070 Sum_probs=42.6
Q ss_pred cCCCCceeeCCCcEEEEEeCcEEEEEccCCCCccccccceEEeeccEEEEEeCCC
Q 028854 7 LFPNWMPVPFTNELFVLARDGVEFHVDKIPGTNQVKARGTVYLSNIRVVFVASKP 61 (202)
Q Consensus 7 l~~~g~pl~~~~E~ill~r~~v~l~~~~~p~~~~~~~~G~~yLTn~RlVFv~~~~ 61 (202)
++.+|.|+.-++|..++-.+.|-+.+-.. ....+..|++|||.+||+++.+..
T Consensus 7 tt~s~~~~~~~~e~~~~~~q~~~~~fg~~--~~~~~~ne~l~lt~~~I~~~D~~~ 59 (432)
T KOG2760|consen 7 TTSSGQPLLSPGEEDIFIDQSVMLRFGWS--KILRSQNETLLLTSQRIIIYDGDK 59 (432)
T ss_pred ecCCCCCCCCCcccceeeecccchhcccc--hhhhccCceEEEeecceEEecCCC
Confidence 57889999999999999888877777421 145566899999999999998753
No 19
>KOG4471 consensus Phosphatidylinositol 3-phosphate 3-phosphatase myotubularin MTM1 [Lipid transport and metabolism; Intracellular trafficking, secretion, and vesicular transport]
Probab=43.39 E-value=20 Score=35.70 Aligned_cols=55 Identities=22% Similarity=0.203 Sum_probs=36.7
Q ss_pred eCCCcEEEEEeCcEEEEEccCCCCccccccceEEeeccEEEEEeCCCCCceeeecccccccccCe
Q 028854 15 PFTNELFVLARDGVEFHVDKIPGTNQVKARGTVYLSNIRVVFVASKPVGNFVAFDMPLLYIHDEK 79 (202)
Q Consensus 15 ~~~~E~ill~r~~v~l~~~~~p~~~~~~~~G~~yLTn~RlVFv~~~~~~~f~SFs~Pl~~i~d~~ 79 (202)
.|+||.|+.-.=.+ ...+..+|+|+|||+||-|-... ++.--=..+||-.|...+
T Consensus 36 ~L~GE~i~~~~y~c---------~f~G~~~g~l~lsNyRl~fks~~-t~~~~~~~VPLg~Ie~ve 90 (717)
T KOG4471|consen 36 LLPGESIIDEKYIC---------PFLGAVDGTLALSNYRLYFKSKE-TDPPFVLDVPLGVIERVE 90 (717)
T ss_pred ccCCcccccceecc---------cccccccceEEeeeeEEEEEecc-CCCceeEeechhhhhhhh
Confidence 37777776533111 14557899999999999888876 444344678887776543
No 20
>PF02174 IRS: PTB domain (IRS-1 type); InterPro: IPR002404 Insulin receptor substrate-1 proteins contain both a pleckstrin homology domain IPR001849 from INTERPRO and a phosphotyrosine binding (PTB) domain. These domains facilitate interaction with the activated tyrosine-phosphorylated insulin receptor. The PTB domain is situated towards the N terminus. Two arginines in this domain are responsible for hydrogen bonding phosphotyrosine residues on a Ac-LYASSNPApY-NH2 peptide in the juxtamembrane region of the insulin receptor. Further interactions via `bridged' water molecules are coordinated by residues an Asn and a Ser residue []. The PTB domain has a compact, 7-stranded beta-sandwich structure, capped by a C-terminal helix. The substrate peptide fits into an L-shaped surface cleft formed from the C-terminal helix and strands 5 and 6 [].; GO: 0005158 insulin receptor binding; PDB: 1XR0_B 1QQG_B 1IRS_A 2V76_D 1MK7_B 2K00_A 1MIZ_B 1MK9_B 1MIX_A 2H7E_A ....
Probab=42.51 E-value=1.2e+02 Score=22.47 Aligned_cols=82 Identities=9% Similarity=0.022 Sum_probs=51.4
Q ss_pred CccccccceEEeeccEEEEEeCCCCCceeeecccccccccCeeeccccccceeeEEEEecCCCCCCCCCCcceEEEEEEc
Q 028854 38 TNQVKARGTVYLSNIRVVFVASKPVGNFVAFDMPLLYIHDEKFNQPIFHCNNISGFVEPVIPENEHRALYSTHSFKILFK 117 (202)
Q Consensus 38 ~~~~~~~G~~yLTn~RlVFv~~~~~~~f~SFs~Pl~~i~d~~~~QP~FGaNy~~g~V~p~~~gg~~~g~~~~~~~kl~F~ 117 (202)
.......+.+-||...|++.... ..-..++.||.+|+-. |.+-=.+.+.+ |... -.| +..++|.
T Consensus 17 ~~~l~g~~~L~l~~~~l~L~~~~--~~~~~~~Wpl~~lRry-------G~~~~~F~fEa--GRrc---~tG--~G~f~f~ 80 (100)
T PF02174_consen 17 RCGLSGPYLLCLTPDELILIDPQ--SGEPILEWPLRYLRRY-------GRDDGIFSFEA--GRRC---PTG--EGLFWFQ 80 (100)
T ss_dssp CSSSEEEEEEEEESSEEEEEETT--TTEEEEEEEGGGEEEE-------EEETTEEEEEE--STTS---TTC--SEEEEEE
T ss_pred CCCceEEEEEEECCCEEEEecCC--CCceEEEEEhHHhhhh-------ccCCCEEEEEE--CCcC---CCC--CcEEEEE
Confidence 35668889999999999996665 4567788899999953 54433444444 2211 223 3445666
Q ss_pred cCCeechHHHHHHHHHHH
Q 028854 118 EGGCGTFVPLFLNLISSV 135 (202)
Q Consensus 118 ~GG~~eF~~~f~~l~~~~ 135 (202)
--.+.+..+++.....++
T Consensus 81 t~~a~~I~~~v~~~i~~~ 98 (100)
T PF02174_consen 81 TPDAEEIFETVERAIKAQ 98 (100)
T ss_dssp ESTHHHHHHHHHHHHHHH
T ss_pred eCCHHHHHHHHHHHHHHh
Confidence 555666655555555444
No 21
>PF11371 DUF3172: Protein of unknown function (DUF3172); InterPro: IPR021511 This family of proteins has no known function.
Probab=42.44 E-value=14 Score=30.00 Aligned_cols=26 Identities=27% Similarity=0.672 Sum_probs=19.8
Q ss_pred eeeCCCCCCeeeecCC--CCccccccccC
Q 028854 167 AYVDPNDPTKIFLQQP--NSESQLRRRTY 193 (202)
Q Consensus 167 A~vdP~DPt~iy~~QP--~~~~~~~~~~~ 193 (202)
.||-= .|..+|++|| +|.=-|||-++
T Consensus 64 vfvTl-NPfnvyVsQP~~qPGCVlRr~Nw 91 (140)
T PF11371_consen 64 VFVTL-NPFNVYVSQPEMQPGCVLRRNNW 91 (140)
T ss_pred EEEEe-cCceeeeccCCCCCceEEEeccH
Confidence 44444 4799999999 67777898776
No 22
>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=39.96 E-value=76 Score=24.69 Aligned_cols=25 Identities=16% Similarity=0.367 Sum_probs=19.3
Q ss_pred cccceEEeeccEEEEEeCCCCCcee
Q 028854 42 KARGTVYLSNIRVVFVASKPVGNFV 66 (202)
Q Consensus 42 ~~~G~~yLTn~RlVFv~~~~~~~f~ 66 (202)
...|++-||+.+|.|..+...+.+.
T Consensus 17 vvpG~l~ITt~~lyF~~d~~~~~~~ 41 (108)
T cd01201 17 VVKGTLSITTTEIFFEVDERDSQFK 41 (108)
T ss_pred EeccEEEEecCEEEEEECCcccccc
Confidence 4569999999999999876444443
No 23
>TIGR03749 conj_TIGR03749 integrating conjugative element protein, PFL_4704 family. Members of this protein family are found occasionally on plasmids such as the Pseudomonas putida TOL plasmid pWWO_p085. Usually, however, they are found on the bacterial main chromosome in a region flanked by markers of conjugative transfer and/or transposition.
Probab=38.87 E-value=28 Score=31.04 Aligned_cols=37 Identities=24% Similarity=0.397 Sum_probs=28.1
Q ss_pred eeCCCcEEEEEeCcEEEEEcc-CCCC-ccccccceEEee
Q 028854 14 VPFTNELFVLARDGVEFHVDK-IPGT-NQVKARGTVYLS 50 (202)
Q Consensus 14 l~~~~E~ill~r~~v~l~~~~-~p~~-~~~~~~G~~yLT 50 (202)
|....|+|+.--++|.+-++. +.+. ...|..|.+||+
T Consensus 27 L~VgqERiVf~~~nVrvg~P~~l~~klRVqS~gGavYL~ 65 (257)
T TIGR03749 27 LVVGQERIVFVDKNVRVGVPQQLAGKLRVQSTGGAVYLR 65 (257)
T ss_pred ccCCceEEEEcCCCeEECCChhhccceEEEEeCCEEEEe
Confidence 447789999999999886652 2233 667899999996
No 24
>PF11920 DUF3438: Protein of unknown function (DUF3438); InterPro: IPR021844 Members of this protein family are found occasionally on plasmids such as the Pseudomonas putida TOL plasmid pWWO_p085. Usually, however, they are found on the bacterial main chromosome in a region flanked by markers of conjugative transfer and/or transposition.
Probab=37.14 E-value=31 Score=31.22 Aligned_cols=39 Identities=31% Similarity=0.490 Sum_probs=28.8
Q ss_pred eeeCCCcEEEEEeCcEEEEEcc-CCCC-ccccccceEEeec
Q 028854 13 PVPFTNELFVLARDGVEFHVDK-IPGT-NQVKARGTVYLSN 51 (202)
Q Consensus 13 pl~~~~E~ill~r~~v~l~~~~-~p~~-~~~~~~G~~yLTn 51 (202)
+|....|+|+..-++|.+-++. +.+. ...|..|.+||+-
T Consensus 34 ~L~VgqERiV~~~~nVrVg~P~~l~~kLrvqS~gGavYL~A 74 (288)
T PF11920_consen 34 PLPVGQERIVFFDKNVRVGVPASLNGKLRVQSAGGAVYLKA 74 (288)
T ss_pred ecCCCcEEEEEcCcCeEEcCChhhhhcEEEeeeCCEEEEec
Confidence 3557789999999999886652 2232 6788899999963
No 25
>KOG3238 consensus Chloride ion current inducer protein [Inorganic ion transport and metabolism]
Probab=36.61 E-value=37 Score=29.31 Aligned_cols=22 Identities=18% Similarity=0.513 Sum_probs=19.0
Q ss_pred ccccccceEEeeccEEEEEeCC
Q 028854 39 NQVKARGTVYLSNIRVVFVASK 60 (202)
Q Consensus 39 ~~~~~~G~~yLTn~RlVFv~~~ 60 (202)
.|.-..|+||||..+|+.++..
T Consensus 30 ~kvlg~GTlYIa~s~LsWl~~~ 51 (216)
T KOG3238|consen 30 RKVLGTGTLYIAESTLSWLSTS 51 (216)
T ss_pred CcccccceEEEecceEEeeecc
Confidence 5667889999999999999943
No 26
>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=29.75 E-value=1.2e+02 Score=22.41 Aligned_cols=63 Identities=24% Similarity=0.349 Sum_probs=39.8
Q ss_pred ccccccceEEeeccEEEEEeCCCCCceeeecccccccccCeeeccccccceeeEEEEecCCCCCCCCCCcceEEEEEEcc
Q 028854 39 NQVKARGTVYLSNIRVVFVASKPVGNFVAFDMPLLYIHDEKFNQPIFHCNNISGFVEPVIPENEHRALYSTHSFKILFKE 118 (202)
Q Consensus 39 ~~~~~~G~~yLTn~RlVFv~~~~~~~f~SFs~Pl~~i~d~~~~QP~FGaNy~~g~V~p~~~gg~~~g~~~~~~~kl~F~~ 118 (202)
..+.+.|.||.++.-++|+-.+| -+-+++..|....|+. | .. .-...+.+.+.+|+
T Consensus 7 ~~ka~~g~L~pl~~~l~f~~~kP-----~~~i~~~dI~~v~feR-----------v-~~-------~~~ktFDl~v~~k~ 62 (95)
T PF08512_consen 7 SYKANEGFLYPLEKCLLFGLEKP-----PFVIPLDDIESVEFER-----------V-SS-------FSSKTFDLVVILKD 62 (95)
T ss_dssp EETTEEEEEEEESSEEEEECSSS------EEEEGGGEEEEEEE--------------ES-------SSSSEEEEEEEETT
T ss_pred eccccCEEEEEccceEEEecCCC-----eEEEEhhHeeEEEEEe-----------c-cc-------CcceEEEEEEEEec
Confidence 35678899999999999955552 3455666665555422 1 11 12356788888888
Q ss_pred --CCeechH
Q 028854 119 --GGCGTFV 125 (202)
Q Consensus 119 --GG~~eF~ 125 (202)
|.-.+|.
T Consensus 63 ~~~~~~~fs 71 (95)
T PF08512_consen 63 YEGPPHEFS 71 (95)
T ss_dssp -TS-EEEEE
T ss_pred CCCCcEEEe
Confidence 7777773
No 27
>PF13619 KTSC: KTSC domain
Probab=29.35 E-value=43 Score=22.60 Aligned_cols=32 Identities=13% Similarity=0.219 Sum_probs=24.3
Q ss_pred ceEEEEEEccCCeechHHHHHHHHHHHHhhcc
Q 028854 109 THSFKILFKEGGCGTFVPLFLNLISSVRQYNR 140 (202)
Q Consensus 109 ~~~~kl~F~~GG~~eF~~~f~~l~~~~~~~~~ 140 (202)
...++|.|++|+..++...=..+.+.+.++..
T Consensus 15 ~~~L~V~F~~G~~Y~Y~~Vp~~~~~~l~~A~S 46 (60)
T PF13619_consen 15 TRTLEVEFKSGSVYRYFGVPPEVYEALLNAPS 46 (60)
T ss_pred CCEEEEEEcCCCEEEECCCCHHHHHHHHcCCC
Confidence 46899999999999887666666666655543
No 28
>PF12158 DUF3592: Protein of unknown function (DUF3592); InterPro: IPR021994 This family of proteins is functionally uncharacterised.This family of proteins is found in bacteria, archaea, eukaryotes and viruses. Proteins in this family are typically between 150 and 242 amino acids in length.
Probab=28.82 E-value=37 Score=25.90 Aligned_cols=16 Identities=31% Similarity=0.640 Sum_probs=13.9
Q ss_pred ceeeeCCCCCCeeeec
Q 028854 165 RHAYVDPNDPTKIFLQ 180 (202)
Q Consensus 165 ~~A~vdP~DPt~iy~~ 180 (202)
=..||||+||...++.
T Consensus 98 V~V~Y~P~~P~~~~l~ 113 (148)
T PF12158_consen 98 VTVYYNPNNPEEARLE 113 (148)
T ss_pred EEEEECCcCCCeEEEe
Confidence 3589999999998887
No 29
>KOG4347 consensus GTPase-activating protein VRP [General function prediction only]
Probab=28.54 E-value=41 Score=33.74 Aligned_cols=40 Identities=20% Similarity=0.370 Sum_probs=33.5
Q ss_pred ccccccceEEeeccEEEEEeCCCCCceeeecccccccccCee
Q 028854 39 NQVKARGTVYLSNIRVVFVASKPVGNFVAFDMPLLYIHDEKF 80 (202)
Q Consensus 39 ~~~~~~G~~yLTn~RlVFv~~~~~~~f~SFs~Pl~~i~d~~~ 80 (202)
.+....|++|+++.+++|-++. +...||.+||..++..+-
T Consensus 35 s~~~~~G~l~~s~~f~cF~s~~--~~~c~~~~Pl~~vr~ve~ 74 (671)
T KOG4347|consen 35 SRYHEQGRLFLSTNFICFASDT--EWLCSFITPLLAVRSVER 74 (671)
T ss_pred chhhccceeeeccceEEeecCC--cccceEeeehhhhhhhhc
Confidence 6677889999999999998886 455899999988876554
No 30
>PF03703 bPH_2: Bacterial PH domain; InterPro: IPR005182 A domain that is found in uncharacterised family of membrane proteins. 1-3 copies found in each protein, with each copy flanked by transmembrane helices.
Probab=28.36 E-value=83 Score=21.22 Aligned_cols=47 Identities=13% Similarity=0.023 Sum_probs=33.6
Q ss_pred EEeeccEEEEEeCCCCCceeeecccccccccCeeeccccccceeeEEEE
Q 028854 47 VYLSNIRVVFVASKPVGNFVAFDMPLLYIHDEKFNQPIFHCNNISGFVE 95 (202)
Q Consensus 47 ~yLTn~RlVFv~~~~~~~f~SFs~Pl~~i~d~~~~QP~FGaNy~~g~V~ 95 (202)
..+|+.+|+.-..- =.-.-..+|+..|.+.+++|++|..-.=-|.++
T Consensus 6 y~i~~~~l~i~~G~--~~~~~~~i~~~~Iq~v~~~q~~~~r~~g~~~i~ 52 (80)
T PF03703_consen 6 YTITDDRLIIRSGL--FSKRTTIIPLDRIQSVSIKQNPLQRLFGLGTIK 52 (80)
T ss_pred EEEECCEEEEEECe--EEEEEEEEEhhHeEEEEEEcCHHHHhCccEEEE
Confidence 56788888776632 244578999999999999998776544444443
No 31
>PF08778 HIF-1a_CTAD: HIF-1 alpha C terminal transactivation domain; InterPro: IPR014887 Hypoxia inducible factor-1 alpha (HIF-1 alpha) is the regulatory subunit of the heterodimeric transcription factor HIF-1. It plays a key role in cellular response to low oxygen tension. This region corresponds to the C-terminal transactivation domain. ; PDB: 1H2M_S 1L3E_A 1H2L_S 1L8C_B 1H2K_S.
Probab=26.74 E-value=8.4 Score=24.85 Aligned_cols=26 Identities=23% Similarity=0.324 Sum_probs=15.2
Q ss_pred eeeecccccccccCeeecccccccee
Q 028854 65 FVAFDMPLLYIHDEKFNQPIFHCNNI 90 (202)
Q Consensus 65 f~SFs~Pl~~i~d~~~~QP~FGaNy~ 90 (202)
|.|+.+|-+.-.||+++.|+=|..++
T Consensus 1 ~~~~~LP~LT~~DcEVNaPl~g~~~L 26 (40)
T PF08778_consen 1 FESSTLPQLTRYDCEVNAPLQGRQHL 26 (40)
T ss_dssp HTSSSS----HHHHHHSS--SSS--S
T ss_pred CCcccCcccccccccccCcccccccc
Confidence 56889999999999999998886654
No 32
>PF14844 PH_BEACH: PH domain associated with Beige/BEACH; PDB: 1MI1_B 1T77_C.
Probab=26.11 E-value=57 Score=24.02 Aligned_cols=21 Identities=14% Similarity=0.313 Sum_probs=16.5
Q ss_pred ccccccceEEeeccEEEEEeC
Q 028854 39 NQVKARGTVYLSNIRVVFVAS 59 (202)
Q Consensus 39 ~~~~~~G~~yLTn~RlVFv~~ 59 (202)
......|.+.||+..|.|+..
T Consensus 13 ~~~~~~G~l~i~~~~i~F~~~ 33 (106)
T PF14844_consen 13 PLDSIPGTLIITKSSIYFIPN 33 (106)
T ss_dssp TTEEEEEEEEE-SSEEEEEE-
T ss_pred eeeeEEEEEEEeCCEEEEEEC
Confidence 345688999999999999987
No 33
>PF04694 Corona_3: Coronavirus ORF3 protein; InterPro: IPR006784 This family represents the Coronavirus ORF3 protein, also known as the X2A protein.
Probab=25.78 E-value=1.1e+02 Score=21.00 Aligned_cols=28 Identities=21% Similarity=0.328 Sum_probs=23.0
Q ss_pred cceEEEEEEccCC---eechHHHHHHHHHHH
Q 028854 108 STHSFKILFKEGG---CGTFVPLFLNLISSV 135 (202)
Q Consensus 108 ~~~~~kl~F~~GG---~~eF~~~f~~l~~~~ 135 (202)
-.+.+|+.|+.|- |+-|+..|+...+.+
T Consensus 23 favtlkvef~tgkllVcigFGDTl~~A~~ka 53 (60)
T PF04694_consen 23 FAVTLKVEFKTGKLLVCIGFGDTLFEAEQKA 53 (60)
T ss_pred EEEEEEEEEecCcEEEEEecchHHHHHHHhh
Confidence 3478999999998 789999888887655
No 34
>PF02290 SRP14: Signal recognition particle 14kD protein; InterPro: IPR003210 The signal recognition particle (SRP) is a multimeric protein, which along with its conjugate receptor (SR), is involved in targeting secretory proteins to the rough endoplasmic reticulum (RER) membrane in eukaryotes, or to the plasma membrane in prokaryotes [, ]. SRP recognises the signal sequence of the nascent polypeptide on the ribosome, retards its elongation, and docks the SRP-ribosome-polypeptide complex to the RER membrane via the SR receptor. Eukaryotic SRP consists of six polypeptides (SRP9, SRP14, SRP19, SRP54, SRP68 and SRP72) and a single 300 nucleotide 7S RNA molecule. The RNA component catalyses the interaction of SRP with its SR receptor []. In higher eukaryotes, the SRP complex consists of the Alu domain and the S domain linked by the SRP RNA. The Alu domain consists of a heterodimer of SRP9 and SRP14 bound to the 5' and 3' terminal sequences of SRP RNA. This domain is necessary for retarding the elongation of the nascent polypeptide chain, which gives SRP time to dock the ribosome-polypeptide complex to the RER membrane. In archaea, the SRP complex contains 7S RNA like its eukaryotic counterpart, yet only includes two of the six protein subunits found in the eukarytic complex: SRP19 and SRP54 []. This entry represents the 14 kDa SRP14 component. Both SRP9 and SRP14 have the same (beta)-alpha-beta(3)-alpha fold. The heterodimer has pseudo two-fold symmetry and is saddle-like, consisting of a curved six-stranded beta-sheet that has four helices packed on the convex side and an exposed concave surface lined with positively charged residues. The SRP9/SRP14 heterodimer is essential for SRP RNA binding, mediating the pausing of synthesis of ribosome associated nascent polypeptides that have been engaged by the targeting domain of SRP [].; GO: 0008312 7S RNA binding, 0030942 endoplasmic reticulum signal peptide binding, 0006614 SRP-dependent cotranslational protein targeting to membrane, 0005786 signal recognition particle, endoplasmic reticulum targeting; PDB: 1914_A 1RY1_D 1E8O_B 2W9J_B.
Probab=23.07 E-value=65 Score=24.01 Aligned_cols=14 Identities=36% Similarity=0.494 Sum_probs=10.1
Q ss_pred ceEEeeccEEEEEe
Q 028854 45 GTVYLSNIRVVFVA 58 (202)
Q Consensus 45 G~~yLTn~RlVFv~ 58 (202)
|.||||-+|+-+-.
T Consensus 22 gSV~lT~KR~~~~~ 35 (93)
T PF02290_consen 22 GSVYLTQKRLDGKT 35 (93)
T ss_dssp S-EEEEEEEEEE--
T ss_pred ceEEEEEeecCCCC
Confidence 79999999997654
No 35
>PF08616 SPA: Stabilization of polarity axis
Probab=22.82 E-value=40 Score=25.93 Aligned_cols=48 Identities=23% Similarity=0.345 Sum_probs=31.2
Q ss_pred EeeccEEEEEeCCCCC------------------ceeee---cccccccccCeeeccccccceeeEEEEec
Q 028854 48 YLSNIRVVFVASKPVG------------------NFVAF---DMPLLYIHDEKFNQPIFHCNNISGFVEPV 97 (202)
Q Consensus 48 yLTn~RlVFv~~~~~~------------------~f~SF---s~Pl~~i~d~~~~QP~FGaNy~~g~V~p~ 97 (202)
-||.+|||+++.++.. .++.| ..|+.+|+|.+--+...| |+-|+..|.
T Consensus 22 lL~~krivv~s~~~~~~~~s~~Vlal~~Li~p~~~~~~~~~~~~PY~~i~~~~~l~~~~~--~I~GvtNP~ 90 (113)
T PF08616_consen 22 LLLGKRIVVYSPSPSAGEVSEFVLALCSLISPGQDLRYFSNRYFPYFTISDLDELKSCPG--YIAGVTNPI 90 (113)
T ss_pred HHhCCCEEEECCCCCHHHHHHHHHHHHHHHCcccchhcccccccceeechhhhhhccCCC--EEEEeCCHH
Confidence 3689999999876531 12222 488888888532233333 999988875
No 36
>PF03992 ABM: Antibiotic biosynthesis monooxygenase; InterPro: IPR007138 This domain is found in monooxygenases involved in the biosynthesis of several antibiotics by Streptomyces species, which can carry out oxygenation without the assistance of any of the prosthetic groups, metal ions or cofactors normally associated with activation of molecular oxygen. The structure of ActVA-Orf6 monooxygenase from Streptomyces coelicolor (Q53908 from SWISSPROT), which is involved in actinorhodin biosynthesis, reveals a dimeric alpha+beta barrel topology []. There is also a conserved histidine that is likely to be an active site residue. In S. coelicolor SCO1909 (Q9X9W3 from SWISSPROT) this domain occurs as a repeat. This domain is also found in protein LsrG, involved in the degradation of quorum-sensing molecule autoinducer-2 [], and in several uncharacterised proteins.; PDB: 1X7V_A 3F44_A 4DN9_B 1N5T_B 1LQ9_A 1N5Q_B 1N5V_A 1N5S_A 2GFF_B 3BM7_A ....
Probab=21.91 E-value=2.2e+02 Score=18.56 Aligned_cols=26 Identities=23% Similarity=0.277 Sum_probs=21.7
Q ss_pred eEEEEEEccCCeechHHHHHHHHHHH
Q 028854 110 HSFKILFKEGGCGTFVPLFLNLISSV 135 (202)
Q Consensus 110 ~~~kl~F~~GG~~eF~~~f~~l~~~~ 135 (202)
.-.+++.+.|..-+|...+..+.+.+
T Consensus 4 v~~~~~v~~~~~~~f~~~~~~~~~~~ 29 (78)
T PF03992_consen 4 VIVKFKVKPGKEEEFLAAFQELAEAT 29 (78)
T ss_dssp EEEEEEEETTGHHHHHHHHHHHHHHH
T ss_pred EEEEEEeCcchHHHHHHHHHHHHHHH
Confidence 35678899999999999988888766
No 37
>PF11170 DUF2957: Protein of unknown function (DUF2957); InterPro: IPR021340 Some members annotate the proteins to be putative lipoproteins however this cannot be confirmed. Currently no function is known for this family of proteins.
Probab=21.86 E-value=58 Score=30.25 Aligned_cols=20 Identities=25% Similarity=0.489 Sum_probs=15.3
Q ss_pred eeeeCCCCCCeeeecCCCCc
Q 028854 166 HAYVDPNDPTKIFLQQPNSE 185 (202)
Q Consensus 166 ~A~vdP~DPt~iy~~QP~~~ 185 (202)
+|-+||+||..||+-+=+..
T Consensus 60 ~~~~dp~~Pp~lFvG~GV~G 79 (361)
T PF11170_consen 60 QATLDPARPPMLFVGNGVAG 79 (361)
T ss_pred eeecCCCCCCEEEEeccccc
Confidence 44589999999999765443
No 38
>PF14202 TnpW: Transposon-encoded protein TnpW
Probab=20.66 E-value=1.5e+02 Score=18.49 Aligned_cols=24 Identities=21% Similarity=0.176 Sum_probs=21.0
Q ss_pred eEEEEEEccCCeechHHHHHHHHH
Q 028854 110 HSFKILFKEGGCGTFVPLFLNLIS 133 (202)
Q Consensus 110 ~~~kl~F~~GG~~eF~~~f~~l~~ 133 (202)
..+++.|+++.-.++...+.+++.
T Consensus 12 y~V~~~F~~~s~et~~DKi~rli~ 35 (37)
T PF14202_consen 12 YVVEVHFSETSKETMQDKIKRLIR 35 (37)
T ss_pred EEEEEEECCCccccHHHHHHHHHh
Confidence 567899999999999999988864
No 39
>PF09299 Mu-transpos_C: Mu transposase, C-terminal; InterPro: IPR015378 This domain is found in various prokaryotic integrases and transposases. It adopts a beta-barrel structure with Greek-key topology []. ; PDB: 1BCO_A 1BCM_B.
Probab=20.03 E-value=42 Score=22.57 Aligned_cols=17 Identities=24% Similarity=0.559 Sum_probs=12.5
Q ss_pred eeeeCCCCCCeeeecCC
Q 028854 166 HAYVDPNDPTKIFLQQP 182 (202)
Q Consensus 166 ~A~vdP~DPt~iy~~QP 182 (202)
..-+||.|.+.||+-.+
T Consensus 39 ~vryDp~dl~~i~V~~~ 55 (62)
T PF09299_consen 39 RVRYDPDDLSRIYVYDE 55 (62)
T ss_dssp EEEE-GGGTTEEEEEET
T ss_pred EEEECcccCCEEEEEEC
Confidence 36789999999998644
Done!