Query 022974
Match_columns 289
No_of_seqs 113 out of 137
Neff 3.0
Searched_HMMs 46136
Date Fri Mar 29 07:31:33 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/022974.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/022974hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF02893 GRAM: GRAM domain; I 99.3 1.2E-12 2.6E-17 95.4 3.3 66 158-233 2-67 (69)
2 smart00568 GRAM domain in gluc 99.1 4.9E-11 1.1E-15 85.1 3.7 58 165-233 2-59 (61)
3 PF14470 bPH_3: Bacterial PH d 95.9 0.041 8.9E-07 41.3 7.1 93 166-274 2-94 (96)
4 PF08498 Sterol_MT_C: Sterol m 90.1 0.17 3.7E-06 39.1 1.5 53 110-162 6-58 (67)
5 KOG4347 GTPase-activating prot 81.3 1.6 3.5E-05 46.2 3.8 96 161-271 14-111 (671)
6 PF00169 PH: PH domain; Inter 73.7 17 0.00037 25.9 6.3 65 195-260 19-87 (104)
7 PF14844 PH_BEACH: PH domain a 71.8 2.8 6.2E-05 32.8 2.0 86 170-257 1-90 (106)
8 KOG3473 RNA polymerase II tran 61.2 4.7 0.0001 34.3 1.4 21 237-257 11-31 (112)
9 KOG4471 Phosphatidylinositol 3 59.8 8.8 0.00019 41.0 3.3 64 159-235 30-93 (717)
10 smart00683 DM16 Repeats in sea 56.2 16 0.00036 27.4 3.4 37 183-232 17-53 (55)
11 PF07719 TPR_2: Tetratricopept 56.0 12 0.00027 22.5 2.4 17 262-278 16-32 (34)
12 PF12068 DUF3548: Domain of un 52.1 14 0.00029 34.1 2.9 57 215-277 108-166 (213)
13 PF00515 TPR_1: Tetratricopept 51.8 14 0.00031 22.6 2.2 16 262-277 16-31 (34)
14 smart00233 PH Pleckstrin homol 49.8 62 0.0013 22.2 5.4 43 217-260 42-85 (102)
15 KOG2415 Electron transfer flav 49.0 7.5 0.00016 40.5 0.8 36 128-163 346-383 (621)
16 PF08567 TFIIH_BTF_p62_N: TFII 47.9 77 0.0017 24.8 6.1 54 186-252 12-67 (79)
17 PF13181 TPR_8: Tetratricopept 45.7 20 0.00044 21.8 2.2 17 262-278 16-32 (34)
18 PF07289 DUF1448: Protein of u 42.4 21 0.00046 35.3 2.8 83 163-261 149-233 (339)
19 TIGR02681 phage_pRha phage reg 40.8 31 0.00067 28.4 3.1 29 248-276 69-106 (108)
20 PF13176 TPR_7: Tetratricopept 40.3 30 0.00065 22.3 2.4 18 262-279 14-31 (36)
21 smart00028 TPR Tetratricopepti 40.1 29 0.00063 18.3 2.0 15 262-276 16-30 (34)
22 PF10096 DUF2334: Uncharacteri 39.9 26 0.00056 32.0 2.8 44 240-283 76-122 (243)
23 PF03931 Skp1_POZ: Skp1 family 38.8 21 0.00045 26.0 1.6 14 243-256 1-14 (62)
24 cd00821 PH Pleckstrin homology 37.6 1E+02 0.0022 20.9 4.9 59 190-258 21-79 (96)
25 cd00900 PH-like Pleckstrin hom 37.1 1E+02 0.0023 21.1 4.9 65 184-260 18-84 (99)
26 PF10882 bPH_5: Bacterial PH d 32.6 37 0.00081 26.1 2.2 24 215-238 13-36 (100)
27 PF13174 TPR_6: Tetratricopept 32.3 51 0.0011 19.5 2.4 18 262-279 15-32 (33)
28 PF01845 CcdB: CcdB protein; 31.2 69 0.0015 26.4 3.7 35 218-258 30-65 (102)
29 COG1098 VacB Predicted RNA bin 30.7 21 0.00047 31.2 0.7 36 116-152 37-78 (129)
30 KOG1032 Uncharacterized conser 30.6 82 0.0018 33.1 4.9 101 165-279 117-217 (590)
31 PF13424 TPR_12: Tetratricopep 30.3 49 0.0011 23.5 2.4 20 262-281 20-39 (78)
32 PF11605 Vps36_ESCRT-II: Vacuo 28.4 52 0.0011 26.3 2.5 46 185-241 35-80 (89)
33 PRK13708 plasmid maintenance p 28.4 72 0.0016 26.6 3.3 35 219-258 30-64 (101)
34 PF14472 DUF4429: Domain of un 27.7 78 0.0017 25.1 3.3 30 221-254 27-59 (94)
35 PF09890 DUF2117: Uncharacteri 27.0 25 0.00053 32.9 0.4 65 112-189 47-114 (215)
36 PF08238 Sel1: Sel1 repeat; I 26.9 63 0.0014 20.1 2.2 15 262-276 23-37 (39)
37 cd00851 MTH1175 This uncharact 25.4 1.4E+02 0.003 22.5 4.2 39 220-262 2-41 (103)
38 smart00252 SH2 Src homology 2 25.2 43 0.00092 24.6 1.4 17 256-272 3-19 (84)
39 cd01244 PH_RasGAP_CG9209 RAS_G 24.9 1.3E+02 0.0029 24.2 4.3 46 202-252 30-76 (98)
40 PF12862 Apc5: Anaphase-promot 23.6 65 0.0014 24.8 2.2 20 262-281 56-75 (94)
41 cd02680 MIT_calpain7_2 MIT: do 23.5 66 0.0014 25.3 2.2 17 262-278 21-37 (75)
42 PF00017 SH2: SH2 domain; Int 23.0 51 0.0011 23.9 1.4 17 256-272 1-17 (77)
43 PF13374 TPR_10: Tetratricopep 22.8 85 0.0018 19.2 2.2 19 262-280 17-35 (42)
44 PF13414 TPR_11: TPR repeat; P 22.8 75 0.0016 21.9 2.2 16 262-277 18-33 (69)
45 PF04326 AAA_4: Divergent AAA 22.0 52 0.0011 25.5 1.4 32 159-194 7-41 (122)
46 PF05553 DUF761: Cotton fibre 21.6 47 0.001 23.4 0.9 17 116-132 7-23 (38)
47 cd08544 Reeler Reeler, the N-t 21.4 1.3E+02 0.0027 24.5 3.5 34 217-261 19-52 (135)
48 cd02681 MIT_calpain7_1 MIT: do 21.4 77 0.0017 24.8 2.2 18 262-279 21-38 (76)
49 cd02683 MIT_1 MIT: domain cont 21.1 79 0.0017 24.5 2.2 17 262-278 21-37 (77)
50 KOG3294 WW domain binding prot 21.0 72 0.0016 30.8 2.3 40 183-232 44-83 (261)
51 PF03681 UPF0150: Uncharacteri 20.8 2.5E+02 0.0055 19.1 4.4 36 243-278 1-46 (48)
52 cd00562 NifX_NifB This CD repr 20.1 1.5E+02 0.0032 22.2 3.4 39 220-262 1-39 (102)
No 1
>PF02893 GRAM: GRAM domain; InterPro: IPR004182 The GRAM domain is found in glucosyltransferases, myotubularins and other putative membrane-associated proteins. It is normally about 70 amino acids in length. It is thought to be an intracellular protein-binding or lipid-binding signalling domain, which has an important function in membrane-associated processes. Mutations in the GRAM domain of myotubularins cause a muscle disease, which suggests that the domain is essential for the full function of the enzyme []. Myotubularin-related proteins are a large subfamily of protein tyrosine phosphatases (PTPs) that dephosphorylate D3-phosphorylated inositol lipids [].; PDB: 1M7R_B 1LW3_A 1ZVR_A 1ZSQ_A.
Probab=99.31 E-value=1.2e-12 Score=95.37 Aligned_cols=66 Identities=32% Similarity=0.509 Sum_probs=45.9
Q ss_pred hhhhhcCCCCcchhhhhcccccccCCCCceeeEEEeeceeeeecCCCeeeeCCCCCeeeeEEEEEEeccccccccc
Q 022974 158 IYKQTFATHQNETLKKTFACYLSTSTGPVAGTLYLSNVHVAFCSDRPLSFTAPSGQKTWSYYKVMLPLAMIGAINP 233 (289)
Q Consensus 158 iFkQ~F~v~pgEkLlKa~aCYLSTtaGPVaG~LfIST~kvAFCSDrpl~~~sp~Gq~~~~yYKVvIPL~kik~Vnp 233 (289)
-|++.|...++|+|...|.|+|..+.+|+.|.||||+.+|+|+|+....-. ++++|||..|..|..
T Consensus 2 ~f~~~F~lp~~E~li~~~~c~l~~~~~~~~G~LyiT~~~lcF~s~~~~~~~----------~~~~ipl~~I~~i~k 67 (69)
T PF02893_consen 2 KFRKLFKLPEEERLIEEYSCALFKSKIPVQGRLYITNNYLCFYSNKFGSKT----------CKFVIPLSDIKSIEK 67 (69)
T ss_dssp ---------TT--EEEEEEETTTEE---EEEEEEEESSEEEEEESSSSS-E-----------EEEEEGGGEEEEEE
T ss_pred cccccccCCCCCeEEEEEEEEEECCccceeeEEEECCCEEEEEECCCCCce----------EEEEEEhHheeEEEE
Confidence 589999999999999999999999999999999999999999998765422 899999999998863
No 2
>smart00568 GRAM domain in glucosyltransferases, myotubularins and other putative membrane-associated proteins.
Probab=99.12 E-value=4.9e-11 Score=85.06 Aligned_cols=58 Identities=45% Similarity=0.724 Sum_probs=50.5
Q ss_pred CCCcchhhhhcccccccCCCCceeeEEEeeceeeeecCCCeeeeCCCCCeeeeEEEEEEeccccccccc
Q 022974 165 THQNETLKKTFACYLSTSTGPVAGTLYLSNVHVAFCSDRPLSFTAPSGQKTWSYYKVMLPLAMIGAINP 233 (289)
Q Consensus 165 v~pgEkLlKa~aCYLSTtaGPVaG~LfIST~kvAFCSDrpl~~~sp~Gq~~~~yYKVvIPL~kik~Vnp 233 (289)
..++|+|...|.|||+ +.+|+.|.||||+.+++|+|+.+-... .+++|||+.|.+|+.
T Consensus 2 l~~~E~l~~~~~C~l~-~~~~~~G~lyiT~~~l~F~S~~~~~~~----------~~~~ipl~~I~~i~k 59 (61)
T smart00568 2 LPEEEKLIADYSCYLS-RDGPVQGRLYISNYRLCFRSDLPGKLT----------PKVVIPLADITRIEK 59 (61)
T ss_pred cCCCcEEEEEEEeEEC-CCccccEEEEEECCEEEEEccCCCCee----------EEEEEEHHHeeEEEE
Confidence 4689999999999999 679999999999999999997655422 299999999999874
No 3
>PF14470 bPH_3: Bacterial PH domain
Probab=95.91 E-value=0.041 Score=41.26 Aligned_cols=93 Identities=17% Similarity=0.143 Sum_probs=65.8
Q ss_pred CCcchhhhhcccccccCCCCceeeEEEeeceeeeecCCCeeeeCCCCCeeeeEEEEEEecccccccccccccCCCcCceE
Q 022974 166 HQNETLKKTFACYLSTSTGPVAGTLYLSNVHVAFCSDRPLSFTAPSGQKTWSYYKVMLPLAMIGAINPVIMRENSSEKYI 245 (289)
Q Consensus 166 ~pgEkLlKa~aCYLSTtaGPVaG~LfIST~kvAFCSDrpl~~~sp~Gq~~~~yYKVvIPL~kik~Vnps~n~~nPseKYI 245 (289)
.+||+.+-...|.+-...+.-.|+|+++++||-||+-..+. | .....||+++|.+|+-.... -...|
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 57899998889987766788999999999999999874332 1 24589999999999976433 44679
Q ss_pred EEEEecCceeeeeechhHHHHHHHHHHHH
Q 022974 246 QIVTIDGHEFWFMGFVNYDKATRHLSESI 274 (289)
Q Consensus 246 qIVTvD~~EFWFMGFvnYdKA~k~Lq~Al 274 (289)
.|.| ++..+=| +.+.= +-++-+-+.|
T Consensus 69 ~i~~-~~~~~~i-~~i~k-~~~~~~~~~i 94 (96)
T PF14470_consen 69 TIET-NGEKIKI-DNIQK-GDVKEFYEYI 94 (96)
T ss_pred EEEE-CCEEEEE-EEcCH-HHHHHHHHHH
Confidence 8888 5544444 54432 2334444444
No 4
>PF08498 Sterol_MT_C: Sterol methyltransferase C-terminal; InterPro: IPR013705 This domain is found to the C terminus of a methyltransferase domain (IPR013216 from INTERPRO) in fungal and plant sterol methyltransferases []. ; GO: 0008168 methyltransferase activity, 0006694 steroid biosynthetic process
Probab=90.05 E-value=0.17 Score=39.15 Aligned_cols=53 Identities=9% Similarity=0.025 Sum_probs=47.7
Q ss_pred HHhhcccchHhHhhhhhhhhccCcchhHHhhhhhhhhhhhhhcCChhhhhhhh
Q 022974 110 VFNSWSNKAETLANNIWHNLKTNSSVSEAAWGKMNLTAKAIKGGGFETIYKQT 162 (289)
Q Consensus 110 ~~n~~grKae~~a~~i~~Hlk~gpsiseta~GKLslGaKil~eGG~ekiFkQ~ 162 (289)
+|++|||..-...=.+-|-|++.|+-+-.+..-|..+|.-|.+||-++||--.
T Consensus 6 r~t~~Gr~~t~~~v~~LE~lglAPkGt~~v~~~L~~aa~~Lv~GG~~giFTPM 58 (67)
T PF08498_consen 6 RMTWLGRFITHALVRVLEFLGLAPKGTSKVAEMLAKAADGLVEGGKTGIFTPM 58 (67)
T ss_pred eccHHHHHHHHHHHHHHHHHCcCCCcHHHHHHHHHHHHHHHHHhhhcCCcCch
Confidence 46788888877888889999999999999999999999999999999999643
No 5
>KOG4347 consensus GTPase-activating protein VRP [General function prediction only]
Probab=81.29 E-value=1.6 Score=46.18 Aligned_cols=96 Identities=22% Similarity=0.275 Sum_probs=74.5
Q ss_pred hhcCCCCcchhhhhcccccccCCC--CceeeEEEeeceeeeecCCCeeeeCCCCCeeeeEEEEEEecccccccccccccC
Q 022974 161 QTFATHQNETLKKTFACYLSTSTG--PVAGTLYLSNVHVAFCSDRPLSFTAPSGQKTWSYYKVMLPLAMIGAINPVIMRE 238 (289)
Q Consensus 161 Q~F~v~pgEkLlKa~aCYLSTtaG--PVaG~LfIST~kvAFCSDrpl~~~sp~Gq~~~~yYKVvIPL~kik~Vnps~n~~ 238 (289)
-.|... |+|.-.-.|=|-|.-- -..|-||+||..++|.||-+=. -++++||.-|+.|.-.. ..
T Consensus 14 ~~Frlp--e~l~~~~~~~l~~p~s~~~~~G~l~~s~~f~cF~s~~~~~------------c~~~~Pl~~vr~ve~~~-~s 78 (671)
T KOG4347|consen 14 AFFRLP--EKLDGSTMCNLWTPYSRYHEQGRLFLSTNFICFASDTEWL------------CSFITPLLAVRSVERLD-DS 78 (671)
T ss_pred ceeecc--hhcCceeecccCCCcchhhccceeeeccceEEeecCCccc------------ceEeeehhhhhhhhccC-cc
Confidence 456655 9999999999999766 6899999999999999997643 46899999999988443 11
Q ss_pred CCcCceEEEEEecCceeeeeechhHHHHHHHHH
Q 022974 239 NSSEKYIQIVTIDGHEFWFMGFVNYDKATRHLS 271 (289)
Q Consensus 239 nPseKYIqIVTvD~~EFWFMGFvnYdKA~k~Lq 271 (289)
+--..=|-+.|-.+-.|-|-|+..=++.+.-+.
T Consensus 79 s~~~~~i~~~~~~~~~~~f~~~~~r~~~~~k~~ 111 (671)
T KOG4347|consen 79 SLFTQLISLFTSNMVGMRFGGLTERLKLLSKLH 111 (671)
T ss_pred ccchhhhHHhhcCcceEEecchhhHHHHHHHHh
Confidence 112233667888999999999988777776554
No 6
>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=73.65 E-value=17 Score=25.87 Aligned_cols=65 Identities=20% Similarity=0.196 Sum_probs=46.1
Q ss_pred ceeeeecCCCeeeeCCCCCeeeeEEEEEEeccccccccccccc----CCCcCceEEEEEecCceeeeeec
Q 022974 195 VHVAFCSDRPLSFTAPSGQKTWSYYKVMLPLAMIGAINPVIMR----ENSSEKYIQIVTIDGHEFWFMGF 260 (289)
Q Consensus 195 ~kvAFCSDrpl~~~sp~Gq~~~~yYKVvIPL~kik~Vnps~n~----~nPseKYIqIVTvD~~EFWFMGF 260 (289)
+|.++-.+.-|.+...+.......++-+|+|..+ .|.+..+. ..+.+..++|++.++-.|+|..=
T Consensus 19 ~r~~vL~~~~L~~~~~~~~~~~~~~~~~i~l~~~-~v~~~~~~~~~~~~~~~~~f~i~~~~~~~~~~~~~ 87 (104)
T PF00169_consen 19 KRYFVLRDSYLLYYKSSKDKSDSKPKGSIPLDDC-TVRPDPSSDFLSNKKRKNCFEITTPNGKSYLFSAE 87 (104)
T ss_dssp EEEEEEETTEEEEESSTTTTTESSESEEEEGTTE-EEEEETSSTSTSTSSSSSEEEEEETTSEEEEEEES
T ss_pred EEEEEEECCEEEEEecCccccceeeeEEEEecCc-eEEEcCccccccccCCCcEEEEEeCCCcEEEEEcC
Confidence 4455555555666555554445678889999999 77776666 37788889999988878888743
No 7
>PF14844 PH_BEACH: PH domain associated with Beige/BEACH; PDB: 1MI1_B 1T77_C.
Probab=71.79 E-value=2.8 Score=32.79 Aligned_cols=86 Identities=19% Similarity=0.253 Sum_probs=53.5
Q ss_pred hhhhhcccccccCCCCceeeEEEeeceeeeecCCCeeeeC-CCC---CeeeeEEEEEEecccccccccccccCCCcCceE
Q 022974 170 TLKKTFACYLSTSTGPVAGTLYLSNVHVAFCSDRPLSFTA-PSG---QKTWSYYKVMLPLAMIGAINPVIMRENSSEKYI 245 (289)
Q Consensus 170 kLlKa~aCYLSTtaGPVaG~LfIST~kvAFCSDrpl~~~s-p~G---q~~~~yYKVvIPL~kik~Vnps~n~~nPseKYI 245 (289)
|++-++.|-+=|.-+-+.|+|.|.+..+.|..|..-.... ... ......--..+||.+|+.|-..--..+ +-=|
T Consensus 1 ~i~~s~~c~~I~~~~~~~G~l~i~~~~i~F~~~~~~~~~~~~~~~~~~~~~~~~~~~w~~~~I~~v~~RRyllr--~~Al 78 (106)
T PF14844_consen 1 KILLSVPCELITPLDSIPGTLIITKSSIYFIPNDNSSENKISSENPSISISKPKSKRWPLSDIKEVHKRRYLLR--DTAL 78 (106)
T ss_dssp --SEEEEEEEEETTEEEEEEEEE-SSEEEEEE--TTSHHHHCS-HHHHCC---TCEEEEGGGEEEEEEEEETTE--EEEE
T ss_pred CEEEEEEEEEEEeeeeEEEEEEEeCCEEEEEECCcccccccccccccccccCCceEEEEHHHhHHHHHHHhcCc--ceEE
Confidence 3455788999999999999999999999999981110000 000 001112335689999999985543333 3458
Q ss_pred EEEEecCceeee
Q 022974 246 QIVTIDGHEFWF 257 (289)
Q Consensus 246 qIVTvD~~EFWF 257 (289)
||.+.||.-|.|
T Consensus 79 EiF~~dg~s~f~ 90 (106)
T PF14844_consen 79 EIFFSDGRSYFF 90 (106)
T ss_dssp EEEETTS-EEEE
T ss_pred EEEEcCCcEEEE
Confidence 999999998754
No 8
>KOG3473 consensus RNA polymerase II transcription elongation factor Elongin/SIII, subunit elongin C [Transcription]
Probab=61.15 E-value=4.7 Score=34.28 Aligned_cols=21 Identities=33% Similarity=0.642 Sum_probs=18.6
Q ss_pred cCCCcCceEEEEEecCceeee
Q 022974 237 RENSSEKYIQIVTIDGHEFWF 257 (289)
Q Consensus 237 ~~nPseKYIqIVTvD~~EFWF 257 (289)
-+-|+++|+.+|+-|||||-.
T Consensus 11 ~egp~~~yVkLvS~Ddhefii 31 (112)
T KOG3473|consen 11 CEGPDSMYVKLVSSDDHEFII 31 (112)
T ss_pred ccCcchhheEeecCCCcEEEE
Confidence 457899999999999999964
No 9
>KOG4471 consensus Phosphatidylinositol 3-phosphate 3-phosphatase myotubularin MTM1 [Lipid transport and metabolism; Intracellular trafficking, secretion, and vesicular transport]
Probab=59.77 E-value=8.8 Score=40.96 Aligned_cols=64 Identities=25% Similarity=0.318 Sum_probs=47.7
Q ss_pred hhhhcCCCCcchhhhhcccccccCCCCceeeEEEeeceeeeecCCCeeeeCCCCCeeeeEEEEEEeccccccccccc
Q 022974 159 YKQTFATHQNETLKKTFACYLSTSTGPVAGTLYLSNVHVAFCSDRPLSFTAPSGQKTWSYYKVMLPLAMIGAINPVI 235 (289)
Q Consensus 159 FkQ~F~v~pgEkLlKa~aCYLSTtaGPVaG~LfIST~kvAFCSDrpl~~~sp~Gq~~~~yYKVvIPL~kik~Vnps~ 235 (289)
..--|...+||.+..-- |..-=.|++.|+|.||+-|+=|-|.-. +.+|-+-|||.-|.+|+--.
T Consensus 30 ~~~~~~~L~GE~i~~~~--y~c~f~G~~~g~l~lsNyRl~fks~~t-----------~~~~~~~VPLg~Ie~vek~~ 93 (717)
T KOG4471|consen 30 LQVPFPLLPGESIIDEK--YICPFLGAVDGTLALSNYRLYFKSKET-----------DPPFVLDVPLGVIERVEKRG 93 (717)
T ss_pred ccCcccccCCcccccce--ecccccccccceEEeeeeEEEEEeccC-----------CCceeEeechhhhhhhhhcC
Confidence 45567788999884322 555557899999999999999987532 22688889999998887443
No 10
>smart00683 DM16 Repeats in sea squirt COS41.4, worm R01H10.6, fly CG1126 etc.
Probab=56.17 E-value=16 Score=27.44 Aligned_cols=37 Identities=16% Similarity=0.395 Sum_probs=28.6
Q ss_pred CCCceeeEEEeeceeeeecCCCeeeeCCCCCeeeeEEEEEEecccccccc
Q 022974 183 TGPVAGTLYLSNVHVAFCSDRPLSFTAPSGQKTWSYYKVMLPLAMIGAIN 232 (289)
Q Consensus 183 aGPVaG~LfIST~kvAFCSDrpl~~~sp~Gq~~~~yYKVvIPL~kik~Vn 232 (289)
.| --|+|+|++-|+...|+.-- .+.|.||.-+|..++
T Consensus 17 ~G-~~G~l~VTNlRiiW~s~~~~------------~~NlSIgy~~i~~i~ 53 (55)
T smart00683 17 NG-DLGVFFVTNLRLVWHSDTNP------------RFNISVGYLQITNVR 53 (55)
T ss_pred CC-CeeEEEEEeeEEEEEeCCCC------------ceEEEEcceeEEEEE
Confidence 45 45999999999999998643 377888877776654
No 11
>PF07719 TPR_2: Tetratricopeptide repeat; InterPro: IPR013105 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]. It mediates protein-protein interactions and the assembly of multiprotein complexes []. The TPR motif consists of 3-16 tandem-repeats of 34 amino acids residues, although individual TPR motifs can be dispersed in the protein sequence. Sequence alignment of the TPR domains reveals a consensus sequence defined by a pattern of small and large amino acids. TPR motifs have been identified in various different organisms, ranging from bacteria to humans. Proteins containing TPRs are involved in a variety of biological processes, such as cell cycle regulation, transcriptional control, mitochondrial and peroxisomal protein transport, neurogenesis and protein folding. This repeat includes outlying Tetratricopeptide-like repeats (TPR) that are not matched by IPR001440 from INTERPRO.; PDB: 1XNF_B 3Q15_A 4ABN_A 1OUV_A 3U4T_A 3MA5_C 2KCV_A 2KCL_A 2XEV_A 3NF1_A ....
Probab=56.05 E-value=12 Score=22.48 Aligned_cols=17 Identities=18% Similarity=0.270 Sum_probs=13.9
Q ss_pred hHHHHHHHHHHHHhhhh
Q 022974 262 NYDKATRHLSESISNFV 278 (289)
Q Consensus 262 nYdKA~k~Lq~Als~~~ 278 (289)
+|++|++++++|++...
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 68999999999998653
No 12
>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=52.11 E-value=14 Score=34.11 Aligned_cols=57 Identities=18% Similarity=0.300 Sum_probs=42.0
Q ss_pred eeeEEEEEEecccccccccccccCCC--cCceEEEEEecCceeeeeechhHHHHHHHHHHHHhhh
Q 022974 215 TWSYYKVMLPLAMIGAINPVIMRENS--SEKYIQIVTIDGHEFWFMGFVNYDKATRHLSESISNF 277 (289)
Q Consensus 215 ~~~yYKVvIPL~kik~Vnps~n~~nP--seKYIqIVTvD~~EFWFMGFvnYdKA~k~Lq~Als~~ 277 (289)
.+..|.+.|||..|+++. +.+| .-.||.|+|-||.-| --+--++.-.+.|-++|+++
T Consensus 108 ~~~~~aFsv~lsdl~Si~----~~~p~~G~~~lv~~~kdG~~~--p~L~Fh~gg~~~fl~~L~~~ 166 (213)
T PF12068_consen 108 SRSSYAFSVPLSDLKSIR----VSKPSLGWWYLVFILKDGTSL--PPLHFHDGGSKEFLKSLQRY 166 (213)
T ss_pred CCcceEEEEEhhheeeEE----ecCCCCCceEEEEEecCCCcc--CceEEecCCHHHHHHHHHhh
Confidence 456889999999999999 5555 668999999999654 44444565566666666554
No 13
>PF00515 TPR_1: Tetratricopeptide repeat; InterPro: IPR001440 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]. It mediates protein-protein interactions and the assembly of multiprotein complexes []. The TPR motif consists of 3-16 tandem-repeats of 34 amino acids residues, although individual TPR motifs can be dispersed in the protein sequence. Sequence alignment of the TPR domains reveals a consensus sequence defined by a pattern of small and large amino acids. TPR motifs have been identified in various different organisms, ranging from bacteria to humans. Proteins containing TPRs are involved in a variety of biological processes, such as cell cycle regulation, transcriptional control, mitochondrial and peroxisomal protein transport, neurogenesis and protein folding. The X-ray structure of a domain containing three TPRs from protein phosphatase 5 revealed that TPR adopts a helix-turn-helix arrangement, with adjacent TPR motifs packing in a parallel fashion, resulting in a spiral of repeating anti-parallel alpha-helices []. The two helices are denoted helix A and helix B. The packing angle between helix A and helix B is ~24 degrees; within a single TPR and generates a right-handed superhelical shape. Helix A interacts with helix B and with helix A' of the next TPR. Two protein surfaces are generated: the inner concave surface is contributed to mainly by residue on helices A, and the other surface presents residues from both helices A and B. ; GO: 0005515 protein binding; PDB: 3SF4_C 2LNI_A 1ELW_A 2C0M_A 1FCH_B 3R9A_B 2J9Q_A 2C0L_A 1KT1_A 3FWV_A ....
Probab=51.79 E-value=14 Score=22.64 Aligned_cols=16 Identities=13% Similarity=0.218 Sum_probs=13.4
Q ss_pred hHHHHHHHHHHHHhhh
Q 022974 262 NYDKATRHLSESISNF 277 (289)
Q Consensus 262 nYdKA~k~Lq~Als~~ 277 (289)
+|++|++++++||+.-
T Consensus 16 ~~~~A~~~~~~al~~~ 31 (34)
T PF00515_consen 16 DYEEALEYYQRALELD 31 (34)
T ss_dssp -HHHHHHHHHHHHHHS
T ss_pred CchHHHHHHHHHHHHC
Confidence 6899999999999854
No 14
>smart00233 PH Pleckstrin homology domain. Domain commonly found in eukaryotic signalling proteins. The domain family possesses multiple functions including the abilities to bind inositol phosphates, and various proteins. PH domains have been found to possess inserted domains (such as in PLC gamma, syntrophins) and to be inserted within other domains. Mutations in Brutons tyrosine kinase (Btk) within its PH domain cause X-linked agammaglobulinaemia (XLA) in patients. Point mutations cluster into the positively charged end of the molecule around the predicted binding site for phosphatidylinositol lipids.
Probab=49.79 E-value=62 Score=22.18 Aligned_cols=43 Identities=14% Similarity=0.092 Sum_probs=29.2
Q ss_pred eEEEEEEecccccccccccccC-CCcCceEEEEEecCceeeeeec
Q 022974 217 SYYKVMLPLAMIGAINPVIMRE-NSSEKYIQIVTIDGHEFWFMGF 260 (289)
Q Consensus 217 ~yYKVvIPL~kik~Vnps~n~~-nPseKYIqIVTvD~~EFWFMGF 260 (289)
....-.|||..+ .|....+.. .+....+.|.+-++..|.|..-
T Consensus 42 ~~~~~~i~l~~~-~v~~~~~~~~~~~~~~f~l~~~~~~~~~f~~~ 85 (102)
T smart00233 42 YKPKGSIDLSGI-TVREAPDPDSAKKPHCFEIKTADRRSYLLQAE 85 (102)
T ss_pred CCCceEEECCcC-EEEeCCCCccCCCceEEEEEecCCceEEEEcC
Confidence 456778999998 554444332 3456778888777778888764
No 15
>KOG2415 consensus Electron transfer flavoprotein ubiquinone oxidoreductase [Energy production and conversion]
Probab=48.96 E-value=7.5 Score=40.50 Aligned_cols=36 Identities=33% Similarity=0.602 Sum_probs=30.5
Q ss_pred hhccCcchhHHhhh--hhhhhhhhhhcCChhhhhhhhc
Q 022974 128 NLKTNSSVSEAAWG--KMNLTAKAIKGGGFETIYKQTF 163 (289)
Q Consensus 128 Hlk~gpsiseta~G--KLslGaKil~eGG~ekiFkQ~F 163 (289)
.+|.-|+|+..+.| +|..|||.|-|||+..|=|-.|
T Consensus 346 k~K~hP~i~~vleGgk~i~YgARaLNEGGfQsiPkl~F 383 (621)
T KOG2415|consen 346 KMKHHPSISKVLEGGKRIAYGARALNEGGFQSIPKLVF 383 (621)
T ss_pred HhhcCcchhhhhcCcceeeehhhhhccCCcccCccccc
Confidence 36667899988887 7999999999999998877655
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=47.90 E-value=77 Score=24.75 Aligned_cols=54 Identities=28% Similarity=0.409 Sum_probs=34.5
Q ss_pred ceeeEEEeece--eeeecCCCeeeeCCCCCeeeeEEEEEEecccccccccccccCCCcCceEEEEEecC
Q 022974 186 VAGTLYLSNVH--VAFCSDRPLSFTAPSGQKTWSYYKVMLPLAMIGAINPVIMRENSSEKYIQIVTIDG 252 (289)
Q Consensus 186 VaG~LfIST~k--vAFCSDrpl~~~sp~Gq~~~~yYKVvIPL~kik~Vnps~n~~nPseKYIqIVTvD~ 252 (289)
+.|+|||+..+ +.+.-+ +.++ .. .|.||+..|+.-..+ .+..+.==++|+-.|+
T Consensus 12 ~~G~L~l~~d~~~~~W~~~------~~~~-~~----~v~i~~~~I~~lq~S--p~~s~Kv~Lki~~~~~ 67 (79)
T PF08567_consen 12 KDGTLTLTEDRKPLEWTPK------ASDG-PS----TVSIPLNDIKNLQQS--PEGSPKVMLKIVLKDD 67 (79)
T ss_dssp EEEEEEEETTCSSEEEEEC------CSSS-SS----EEEEETTTEEEEEE----TTSSTEEEEEEETTS
T ss_pred CCcEEEEecCCceEEEeec------CCCC-Cc----eEEEEHHHhhhhccC--CCCCcceEEEEEEecC
Confidence 35999999866 555433 1122 11 699999999986644 3444555678887776
No 17
>PF13181 TPR_8: Tetratricopeptide repeat; PDB: 3GW4_B 3MA5_C 2KCV_A 2KCL_A 3FP3_A 3LCA_A 3FP4_A 3FP2_A 1W3B_B 1ELW_A ....
Probab=45.71 E-value=20 Score=21.78 Aligned_cols=17 Identities=12% Similarity=0.253 Sum_probs=14.5
Q ss_pred hHHHHHHHHHHHHhhhh
Q 022974 262 NYDKATRHLSESISNFV 278 (289)
Q Consensus 262 nYdKA~k~Lq~Als~~~ 278 (289)
+|++|+++|+++++...
T Consensus 16 ~~~~A~~~~~~a~~~~~ 32 (34)
T PF13181_consen 16 DYEEALEYFEKALELNP 32 (34)
T ss_dssp SHHHHHHHHHHHHHHHT
T ss_pred CHHHHHHHHHHHHhhCC
Confidence 68999999999998643
No 18
>PF07289 DUF1448: Protein of unknown function (DUF1448); InterPro: IPR006606 This entry represents the Bardet-Biedl syndrome 5 protein (BBL5). It consists of eukaryotic proteins of around 375 residues in length.
Probab=42.37 E-value=21 Score=35.31 Aligned_cols=83 Identities=20% Similarity=0.309 Sum_probs=60.3
Q ss_pred cCCCCcchhhhhc--ccccccCCCCceeeEEEeeceeeeecCCCeeeeCCCCCeeeeEEEEEEecccccccccccccCCC
Q 022974 163 FATHQNETLKKTF--ACYLSTSTGPVAGTLYLSNVHVAFCSDRPLSFTAPSGQKTWSYYKVMLPLAMIGAINPVIMRENS 240 (289)
Q Consensus 163 F~v~pgEkLlKa~--aCYLSTtaGPVaG~LfIST~kvAFCSDrpl~~~sp~Gq~~~~yYKVvIPL~kik~Vnps~n~~nP 240 (289)
+-..|+|++.... .+=||+--|=+ |++||++-||..|+|--- .|.|.||.=+|+++.-...+.-+
T Consensus 149 L~lLp~E~v~~~~~gVwnls~dqGnL-GtfivTNvRiVW~A~~ne------------~fNVSiPylqi~~i~ir~SKfG~ 215 (339)
T PF07289_consen 149 LKLLPQEQVYSRVNGVWNLSSDQGNL-GTFIVTNVRIVWFADMNE------------SFNVSIPYLQIKSIRIRDSKFGP 215 (339)
T ss_pred EeeCCccEEeeccCCEEEcccCCCce-eEEEEeeeEEEEEccCCc------------cccccchHhhheeeeeeccccce
Confidence 4467777776655 36788888887 999999999999998643 38899999999999855554333
Q ss_pred cCceEEEEEecCceeeeeech
Q 022974 241 SEKYIQIVTIDGHEFWFMGFV 261 (289)
Q Consensus 241 seKYIqIVTvD~~EFWFMGFv 261 (289)
+ +-|-|....-=.-.||=
T Consensus 216 a---LVieT~~~sGgYVLGFR 233 (339)
T PF07289_consen 216 A---LVIETSESSGGYVLGFR 233 (339)
T ss_pred E---EEEEEeccCCcEEEEEE
Confidence 2 44555555444566773
No 19
>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=40.80 E-value=31 Score=28.43 Aligned_cols=29 Identities=24% Similarity=0.424 Sum_probs=25.2
Q ss_pred EEecCceeeeeec---------hhHHHHHHHHHHHHhh
Q 022974 248 VTIDGHEFWFMGF---------VNYDKATRHLSESISN 276 (289)
Q Consensus 248 VTvD~~EFWFMGF---------vnYdKA~k~Lq~Als~ 276 (289)
+|-||+.+.-||| ..|-++|+-|++.|++
T Consensus 69 ltkdgf~lLvmg~tg~ka~~fK~~yI~~Fn~ME~~l~~ 106 (108)
T TIGR02681 69 LTEDGFTIVAMGYTTPKAMKMKEKFIKEFNEMKEHLQK 106 (108)
T ss_pred EcCCceEEEEecCChHHHHHHHHHHHHHHHHHHHHHhh
Confidence 4999999999999 3688999999998874
No 20
>PF13176 TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_A 3RO2_A.
Probab=40.28 E-value=30 Score=22.27 Aligned_cols=18 Identities=17% Similarity=0.283 Sum_probs=13.7
Q ss_pred hHHHHHHHHHHHHhhhhc
Q 022974 262 NYDKATRHLSESISNFVA 279 (289)
Q Consensus 262 nYdKA~k~Lq~Als~~~~ 279 (289)
+|++|+.++++||.....
T Consensus 14 ~~~~Ai~~y~~aL~l~~~ 31 (36)
T PF13176_consen 14 DYEKAIEYYEQALALARD 31 (36)
T ss_dssp -HHHHHHHHHHHHHHHHH
T ss_pred CHHHHHHHHHHHHHhccc
Confidence 699999999998754443
No 21
>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=40.05 E-value=29 Score=18.32 Aligned_cols=15 Identities=20% Similarity=0.395 Sum_probs=12.3
Q ss_pred hHHHHHHHHHHHHhh
Q 022974 262 NYDKATRHLSESISN 276 (289)
Q Consensus 262 nYdKA~k~Lq~Als~ 276 (289)
+|++|..++++++..
T Consensus 16 ~~~~a~~~~~~~~~~ 30 (34)
T smart00028 16 DYDEALEYYEKALEL 30 (34)
T ss_pred hHHHHHHHHHHHHcc
Confidence 678899999888864
No 22
>PF10096 DUF2334: Uncharacterized protein conserved in bacteria (DUF2334); InterPro: IPR018763 This group of proteins has no known function.
Probab=39.89 E-value=26 Score=31.99 Aligned_cols=44 Identities=25% Similarity=0.434 Sum_probs=36.7
Q ss_pred CcCceEEEEEecCceeeeeec---hhHHHHHHHHHHHHhhhhccCcc
Q 022974 240 SSEKYIQIVTIDGHEFWFMGF---VNYDKATRHLSESISNFVATGIA 283 (289)
Q Consensus 240 PseKYIqIVTvD~~EFWFMGF---vnYdKA~k~Lq~Als~~~~~~~~ 283 (289)
+.-.|..=++-+++|||---+ .+.+.|.+.|+++++.+...|+.
T Consensus 76 YtHq~~~~~sg~~~ef~~~~~~~~~~~~~a~~ri~~gl~~l~~~gi~ 122 (243)
T PF10096_consen 76 YTHQYGNSVSGDGFEFWDSEFDAGDSEEEAKERIEKGLEILAELGIY 122 (243)
T ss_pred cceecCCCcccccceeccccccccCCHHHHHHHHHHHHHHHHHCCCc
Confidence 334445557789999999988 89999999999999999999873
No 23
>PF03931 Skp1_POZ: Skp1 family, tetramerisation domain; InterPro: IPR016073 SKP1 (together with SKP2) was identified as an essential component of the cyclin A-CDK2 S phase kinase complex []. It was found to bind several F-box containing proteins (e.g., Cdc4, Skp2, cyclin F) and to be involved in the ubiquitin protein degradation pathway. A yeast homologue of SKP1 (P52286) was identified in the centromere bound kinetochore complex [] and is also involved in the ubiquitin pathway []. In Dictyostelium discoideum (Slime mold) FP21 was shown to be glycosylated in the cytosol and has homology to SKP1 []. This entry represents a POZ domain with a core structure consisting of beta(2)/alpha(2)/beta(2)/alpha(2) in two layers, alpha/beta. This domain is found at the N-terminal of SKP1 proteins [] as well as in subunit D of the centromere DNA-binding protein complex Cbf3 []. ; GO: 0006511 ubiquitin-dependent protein catabolic process; PDB: 1LM8_C 2XAI_E 1VCB_E 3ZRC_K 3ZRF_E 3DCG_B 2C9W_C 1LQB_B 2IZV_C 1HV2_A ....
Probab=38.81 E-value=21 Score=26.04 Aligned_cols=14 Identities=43% Similarity=0.850 Sum_probs=12.0
Q ss_pred ceEEEEEecCceee
Q 022974 243 KYIQIVTIDGHEFW 256 (289)
Q Consensus 243 KYIqIVTvD~~EFW 256 (289)
+||.++|-||++|=
T Consensus 1 ~~v~L~SsDg~~f~ 14 (62)
T PF03931_consen 1 MYVKLVSSDGQEFE 14 (62)
T ss_dssp -EEEEEETTSEEEE
T ss_pred CEEEEEcCCCCEEE
Confidence 68999999999984
No 24
>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=37.61 E-value=1e+02 Score=20.91 Aligned_cols=59 Identities=15% Similarity=0.148 Sum_probs=34.0
Q ss_pred EEEeeceeeeecCCCeeeeCCCCCeeeeEEEEEEecccccccccccccCCCcCceEEEEEecCceeeee
Q 022974 190 LYLSNVHVAFCSDRPLSFTAPSGQKTWSYYKVMLPLAMIGAINPVIMRENSSEKYIQIVTIDGHEFWFM 258 (289)
Q Consensus 190 LfIST~kvAFCSDrpl~~~sp~Gq~~~~yYKVvIPL~kik~Vnps~n~~nPseKYIqIVTvD~~EFWFM 258 (289)
+++....+.+|.+.+-.. ....+-+|+|.. ..|....+.. ..+..++|++.++..|.|.
T Consensus 21 ~~L~~~~l~~~~~~~~~~--------~~~~~~~i~l~~-~~v~~~~~~~-~~~~~f~i~~~~~~~~~~~ 79 (96)
T cd00821 21 FVLFNDLLLYYKKKSSKK--------SYKPKGSIPLSG-AEVEESPDDS-GRKNCFEIRTPDGRSYLLQ 79 (96)
T ss_pred EEEECCEEEEEECCCCCc--------CCCCcceEEcCC-CEEEECCCcC-CCCcEEEEecCCCcEEEEE
Confidence 444455556655543221 234556778877 3333332221 3568889888888888886
No 25
>cd00900 PH-like Pleckstrin homology-like domain. Pleckstrin homology-like domain. This family includes the PH domain, both the Shc-like and IRS-like PTB domains, the ran-binding domain, the EVH1 domain, a domain in neurobeachin and the third domain of FERM. All of these domains have a PH fold, but lack significant sequence similarity. They are generally involved in targeting to protein to the appropriate cellular location or interacting with a binding partner. The PH domain is commonly found in eukaryotic signaling proteins. This domain family possesses multiple functions including the ability to bind inositol phosphates and to other proteins.
Probab=37.15 E-value=1e+02 Score=21.08 Aligned_cols=65 Identities=17% Similarity=0.112 Sum_probs=38.7
Q ss_pred CCceeeEEEeeceeeeecCCCeeeeCCCCCeeeeEEEEEEecccccccccccccCCCcCceEEEEEec--Cceeeeeec
Q 022974 184 GPVAGTLYLSNVHVAFCSDRPLSFTAPSGQKTWSYYKVMLPLAMIGAINPVIMRENSSEKYIQIVTID--GHEFWFMGF 260 (289)
Q Consensus 184 GPVaG~LfIST~kvAFCSDrpl~~~sp~Gq~~~~yYKVvIPL~kik~Vnps~n~~nPseKYIqIVTvD--~~EFWFMGF 260 (289)
..--..++|+...+-++++..-..... -++||..+. |....... -...-++|++.+ +..++|.--
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 334445666666666666665332111 568888888 66554322 234678888886 777777654
No 26
>PF10882 bPH_5: Bacterial PH domain; InterPro: IPR020482 This entry contains membrane proteins with no known function.
Probab=32.64 E-value=37 Score=26.08 Aligned_cols=24 Identities=29% Similarity=0.499 Sum_probs=20.2
Q ss_pred eeeEEEEEEecccccccccccccC
Q 022974 215 TWSYYKVMLPLAMIGAINPVIMRE 238 (289)
Q Consensus 215 ~~~yYKVvIPL~kik~Vnps~n~~ 238 (289)
.|..+++.||+++|..|....+..
T Consensus 13 ~~~~~~~~Ip~~~I~~v~~~~~~~ 36 (100)
T PF10882_consen 13 RWPFGKITIPLAEIESVELVDDLP 36 (100)
T ss_pred EEccccEEEEHHHcEEEEeccccC
Confidence 477889999999999998776664
No 27
>PF13174 TPR_6: Tetratricopeptide repeat; PDB: 3QKY_A 2XEV_A 3URZ_B 2Q7F_A.
Probab=32.33 E-value=51 Score=19.50 Aligned_cols=18 Identities=22% Similarity=0.442 Sum_probs=14.9
Q ss_pred hHHHHHHHHHHHHhhhhc
Q 022974 262 NYDKATRHLSESISNFVA 279 (289)
Q Consensus 262 nYdKA~k~Lq~Als~~~~ 279 (289)
+|++|.+.|++.+.++-+
T Consensus 15 ~~~~A~~~~~~~~~~~P~ 32 (33)
T PF13174_consen 15 DYDEAIEYFQRLIKRYPD 32 (33)
T ss_dssp HHHHHHHHHHHHHHHSTT
T ss_pred CHHHHHHHHHHHHHHCcC
Confidence 688999999999987643
No 28
>PF01845 CcdB: CcdB protein; InterPro: IPR002712 CcdB protein is a topoisomerase poison from Escherichia coli []. It is responsible for killing plasmid-free segregants, and interferes with the activity of DNA gyrase. It acts to inhibit partitioning of the chromosomal DNA.; GO: 0008657 DNA topoisomerase (ATP-hydrolyzing) inhibitor activity, 0006276 plasmid maintenance; PDB: 2VUB_G 1VUB_D 3VUB_A 1X75_C 3HPW_B 4VUB_A 4ELZ_D 2KMT_B 4ELY_C 3JRZ_A ....
Probab=31.24 E-value=69 Score=26.35 Aligned_cols=35 Identities=23% Similarity=0.446 Sum_probs=24.4
Q ss_pred EEEEEEecccccccc-cccccCCCcCceEEEEEecCceeeee
Q 022974 218 YYKVMLPLAMIGAIN-PVIMRENSSEKYIQIVTIDGHEFWFM 258 (289)
Q Consensus 218 yYKVvIPL~kik~Vn-ps~n~~nPseKYIqIVTvD~~EFWFM 258 (289)
...|||||....... +...+-|| ++++||.+|-.|
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 467999999888775 33334444 789999998754
No 29
>COG1098 VacB Predicted RNA binding protein (contains ribosomal protein S1 domain) [Translation, ribosomal structure and biogenesis]
Probab=30.72 E-value=21 Score=31.15 Aligned_cols=36 Identities=22% Similarity=0.434 Sum_probs=30.4
Q ss_pred cchHhHhhhhhhhhccCcchh------HHhhhhhhhhhhhhhc
Q 022974 116 NKAETLANNIWHNLKTNSSVS------EAAWGKMNLTAKAIKG 152 (289)
Q Consensus 116 rKae~~a~~i~~Hlk~gpsis------eta~GKLslGaKil~e 152 (289)
.-|++++.+|.+||+.|-.+. |. .|||+|--|-+.+
T Consensus 37 EIa~~fVkdI~d~L~vG~eV~vKVl~ide-~GKisLSIr~~~e 78 (129)
T COG1098 37 EIADGFVKDIHDHLKVGQEVKVKVLDIDE-NGKISLSIRKLEE 78 (129)
T ss_pred HhhhhhHHhHHHHhcCCCEEEEEEEeecc-CCCcceehHHhhh
Confidence 468999999999999997643 33 8999999998877
No 30
>KOG1032 consensus Uncharacterized conserved protein, contains GRAM domain [Function unknown]
Probab=30.63 E-value=82 Score=33.13 Aligned_cols=101 Identities=23% Similarity=0.399 Sum_probs=67.8
Q ss_pred CCCcchhhhhcccccccCCCCceeeEEEeeceeeeecCCCeeeeCCCCCeeeeEEEEEEecccccccccccccCCCcCce
Q 022974 165 THQNETLKKTFACYLSTSTGPVAGTLYLSNVHVAFCSDRPLSFTAPSGQKTWSYYKVMLPLAMIGAINPVIMRENSSEKY 244 (289)
Q Consensus 165 v~pgEkLlKa~aCYLSTtaGPVaG~LfIST~kvAFCSDrpl~~~sp~Gq~~~~yYKVvIPL~kik~Vnps~n~~nPseKY 244 (289)
+.++|+|+..+.|+|.-.-. .=|=+|||...|+|-|.- -| | --|||||++.|..+.......- ..-=
T Consensus 117 ~~~~~~l~~~~~cal~reil-lQGrmyis~~~icF~s~i-------~g---w-~~~~vIpf~eI~~ikk~~tag~-fpn~ 183 (590)
T KOG1032|consen 117 VPDPEILLTDYSCALQREIL-LQGRMYISEEHICFNSNI-------FG---W-ETKVVIPFDEITLIKKTKTAGI-FPNA 183 (590)
T ss_pred CCCcceeeeecchhhccccc-cccccccccceeeecccc-------cC---c-cceeEEeeeeeeeeehhhhccC-CCcc
Confidence 77899999999999987654 468899999998887653 12 1 2578888887776664331111 1112
Q ss_pred EEEEEecCceeeeeechhHHHHHHHHHHHHhhhhc
Q 022974 245 IQIVTIDGHEFWFMGFVNYDKATRHLSESISNFVA 279 (289)
Q Consensus 245 IqIVTvD~~EFWFMGFvnYdKA~k~Lq~Als~~~~ 279 (289)
|+|-|+.. -+=|.+|+.=|-+++....-+..+.+
T Consensus 184 i~i~t~~~-ky~f~s~~Srda~~~~~~~~~~~~~~ 217 (590)
T KOG1032|consen 184 IEITTGTT-KYIFVSLLSRDATYKLIKLLLHKFLD 217 (590)
T ss_pred eEEecCCC-cceeeecccCccHHHHHHHhhhhccc
Confidence 55554444 45578999999999966544444443
No 31
>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=30.30 E-value=49 Score=23.49 Aligned_cols=20 Identities=20% Similarity=0.250 Sum_probs=15.8
Q ss_pred hHHHHHHHHHHHHhhhhccC
Q 022974 262 NYDKATRHLSESISNFVATG 281 (289)
Q Consensus 262 nYdKA~k~Lq~Als~~~~~~ 281 (289)
.|++|+.++++|+...+..|
T Consensus 20 ~~~~A~~~~~~al~~~~~~~ 39 (78)
T PF13424_consen 20 RYDEALDYYEKALDIEEQLG 39 (78)
T ss_dssp -HHHHHHHHHHHHHHHHHTT
T ss_pred CHHHHHHHHHHHHHHHHHHC
Confidence 69999999999998755444
No 32
>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=28.41 E-value=52 Score=26.34 Aligned_cols=46 Identities=28% Similarity=0.316 Sum_probs=29.3
Q ss_pred CceeeEEEeeceeeeecCCCeeeeCCCCCeeeeEEEEEEecccccccccccccCCCc
Q 022974 185 PVAGTLYLSNVHVAFCSDRPLSFTAPSGQKTWSYYKVMLPLAMIGAINPVIMRENSS 241 (289)
Q Consensus 185 PVaG~LfIST~kvAFCSDrpl~~~sp~Gq~~~~yYKVvIPL~kik~Vnps~n~~nPs 241 (289)
=-.|+||++|.||.+--|.-.. -.-+.|||..|..+.-....-+.+
T Consensus 35 ~q~G~l~LTsHRliw~d~~~~~-----------~~s~~l~L~~i~~~e~~~gf~~sS 80 (89)
T PF11605_consen 35 FQNGRLYLTSHRLIWVDDSDPS-----------KHSIALPLSLISHIEYSAGFLKSS 80 (89)
T ss_dssp -SCEEEEEESSEEEEEESSGHC-----------HH-EEEEGGGEEEEEEE-STTSSS
T ss_pred ccCCEEEEEeeEEEEEcCCCCc-----------eeEEEEEchHeEEEEEEccccCCC
Confidence 3479999999999997554321 124788998888874444333333
No 33
>PRK13708 plasmid maintenance protein CcdB; Provisional
Probab=28.40 E-value=72 Score=26.57 Aligned_cols=35 Identities=20% Similarity=0.426 Sum_probs=25.3
Q ss_pred EEEEEecccccccccccccCCCcCceEEEEEecCceeeee
Q 022974 219 YKVMLPLAMIGAINPVIMRENSSEKYIQIVTIDGHEFWFM 258 (289)
Q Consensus 219 YKVvIPL~kik~Vnps~n~~nPseKYIqIVTvD~~EFWFM 258 (289)
-+|||||.......+.. ..+--=++++||.+|-.|
T Consensus 30 tRvViPL~~~~~~~~~~-----~~rL~P~~~I~g~~~vl~ 64 (101)
T PRK13708 30 RRMVIPLASARLLSDKV-----SRELYPVVHIGDESYRLM 64 (101)
T ss_pred ceEEEeCccHHHCCCCc-----CCCcCceEEECCeEEEEE
Confidence 47999999888877543 133344788999999754
No 34
>PF14472 DUF4429: Domain of unknown function (DUF4429)
Probab=27.70 E-value=78 Score=25.11 Aligned_cols=30 Identities=20% Similarity=0.439 Sum_probs=23.2
Q ss_pred EEEecccccccccccccCCCcCc---eEEEEEecCce
Q 022974 221 VMLPLAMIGAINPVIMRENSSEK---YIQIVTIDGHE 254 (289)
Q Consensus 221 VvIPL~kik~Vnps~n~~nPseK---YIqIVTvD~~E 254 (289)
..|||..|..|. -+.|.-+ ||+++..++-+
T Consensus 27 ~~ipl~~i~gV~----~~~pg~~~~G~Lrf~~~~g~~ 59 (94)
T PF14472_consen 27 KTIPLSAISGVE----WKPPGGLTNGYLRFVLRGGAD 59 (94)
T ss_pred EEEEHHHcceEE----EEcCCceeEEEEEEEECCcCc
Confidence 679999999998 5556644 89999887543
No 35
>PF09890 DUF2117: Uncharacterized protein conserved in archaea (DUF2117); InterPro: IPR012032 There are currently no experimental data for members of this group or their homologues, nor do they exhibit features indicative of any function.
Probab=26.96 E-value=25 Score=32.92 Aligned_cols=65 Identities=17% Similarity=0.254 Sum_probs=43.8
Q ss_pred hhcccch---HhHhhhhhhhhccCcchhHHhhhhhhhhhhhhhcCChhhhhhhhcCCCCcchhhhhcccccccCCCCcee
Q 022974 112 NSWSNKA---ETLANNIWHNLKTNSSVSEAAWGKMNLTAKAIKGGGFETIYKQTFATHQNETLKKTFACYLSTSTGPVAG 188 (289)
Q Consensus 112 n~~grKa---e~~a~~i~~Hlk~gpsiseta~GKLslGaKil~eGG~ekiFkQ~F~v~pgEkLlKa~aCYLSTtaGPVaG 188 (289)
--|.+++ +.+|..+-++|.+--+-. +.--++.+...- +|+ .++||...++.|||.+. =.|-|.|
T Consensus 47 i~Wn~~~~~~~~~a~~Ls~~l~l~i~~p--~~~~i~~~~~~~-~~~-~~v~R~i~Gv~pGE~I~---------VNGiVIG 113 (215)
T PF09890_consen 47 IPWNKKAEEVEPIAEKLSELLGLKIVRP--VENPISSGENCW-EGK-GRVFRKISGVSPGENIF---------VNGIVIG 113 (215)
T ss_pred EeccccccchHHHHHHHHHHhCCCccCc--ccccccCccccc-cCC-ceEEEEEeccCCCCCEE---------EeeEEEE
Confidence 3466777 999999999987762221 233334433322 333 78999999999999985 2677777
Q ss_pred e
Q 022974 189 T 189 (289)
Q Consensus 189 ~ 189 (289)
.
T Consensus 114 ~ 114 (215)
T PF09890_consen 114 R 114 (215)
T ss_pred E
Confidence 6
No 36
>PF08238 Sel1: Sel1 repeat; InterPro: IPR006597 Sel1-like repeats are tetratricopeptide repeat sequences originally identified in a Caenorhabditis elegans receptor molecule which is a key negative regulator of the Notch pathway []. Mammalian homologues have since been identified although these mainly pancreatic proteins have yet to have a function assigned.; PDB: 2XM6_A 3RJV_A 1OUV_A 1KLX_A.
Probab=26.92 E-value=63 Score=20.07 Aligned_cols=15 Identities=20% Similarity=0.459 Sum_probs=12.9
Q ss_pred hHHHHHHHHHHHHhh
Q 022974 262 NYDKATRHLSESISN 276 (289)
Q Consensus 262 nYdKA~k~Lq~Als~ 276 (289)
++++|+++|++|..+
T Consensus 23 d~~~A~~~~~~Aa~~ 37 (39)
T PF08238_consen 23 DYEKAFKWYEKAAEQ 37 (39)
T ss_dssp HHHHHHHHHHHHHHT
T ss_pred cccchHHHHHHHHHc
Confidence 789999999998764
No 37
>cd00851 MTH1175 This uncharacterized conserved protein belongs to a family of iron-molybdenum cluster-binding proteins that includes NifX, NifB, and NifY, all of which are involved in the synthesis of an iron-molybdenum cofactor (FeMo-co) that binds the active site of the dinitrogenase enzyme. This domain is a predicted small-molecule-binding domain (SMBD) with an alpha/beta fold that is present either as a stand-alone domain (e.g. NifX and NifY) or fused to another conserved domain (e.g. NifB) however, its function is still undetermined.The SCOP database suggests that this domain is most similar to structures within the ribonuclease H superfamily. This conserved domain is represented in two of the three major divisions of life (bacteria and archaea).
Probab=25.41 E-value=1.4e+02 Score=22.48 Aligned_cols=39 Identities=18% Similarity=0.376 Sum_probs=25.4
Q ss_pred EEEEeccccc-ccccccccCCCcCceEEEEEecCceeeeeechh
Q 022974 220 KVMLPLAMIG-AINPVIMRENSSEKYIQIVTIDGHEFWFMGFVN 262 (289)
Q Consensus 220 KVvIPL~kik-~Vnps~n~~nPseKYIqIVTvD~~EFWFMGFvn 262 (289)
||.||++.-+ .|+++-.. -+|+.|+.+|+..+.+..++.
T Consensus 2 ~IAv~~~~~~~~v~~hFg~----a~~f~i~d~~~~~~~~~~~~~ 41 (103)
T cd00851 2 KIAIPVSGNGGKVSPHFGR----APYFLIYDVETGKIKNVEVIE 41 (103)
T ss_pred EEEEEecCCCccccCcccc----CCEEEEEEccCCcEeEEEEec
Confidence 6777776666 56655443 467777777777666666553
No 38
>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=25.16 E-value=43 Score=24.63 Aligned_cols=17 Identities=29% Similarity=0.897 Sum_probs=15.9
Q ss_pred eeeechhHHHHHHHHHH
Q 022974 256 WFMGFVNYDKATRHLSE 272 (289)
Q Consensus 256 WFMGFvnYdKA~k~Lq~ 272 (289)
||.|+++-+.|-+.|++
T Consensus 3 w~~g~i~r~~Ae~lL~~ 19 (84)
T smart00252 3 WYHGFISREEAEKLLKN 19 (84)
T ss_pred eecccCCHHHHHHHHhc
Confidence 99999999999999876
No 39
>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=24.94 E-value=1.3e+02 Score=24.17 Aligned_cols=46 Identities=22% Similarity=0.214 Sum_probs=29.5
Q ss_pred CCCeeeeCCCCCeeeeEEEEEEecccccccccccccCCCcCce-EEEEEecC
Q 022974 202 DRPLSFTAPSGQKTWSYYKVMLPLAMIGAINPVIMRENSSEKY-IQIVTIDG 252 (289)
Q Consensus 202 Drpl~~~sp~Gq~~~~yYKVvIPL~kik~Vnps~n~~nPseKY-IqIVTvD~ 252 (289)
++-|.|....+ ..-+=.|||..|++|....+.... .+| +||||-|.
T Consensus 30 ~~~L~Y~k~~~----~~~~g~I~L~~i~~ve~v~~~~~~-~~~~fqivt~~r 76 (98)
T cd01244 30 TTHLSWAKDVQ----CKKSALIKLAAIKGTEPLSDKSFV-NVDIITIVCEDD 76 (98)
T ss_pred CCEEEEECCCC----CceeeeEEccceEEEEEcCCcccC-CCceEEEEeCCC
Confidence 44555554322 245568999999999766553222 245 89999775
No 40
>PF12862 Apc5: Anaphase-promoting complex subunit 5
Probab=23.65 E-value=65 Score=24.83 Aligned_cols=20 Identities=30% Similarity=0.454 Sum_probs=17.6
Q ss_pred hHHHHHHHHHHHHhhhhccC
Q 022974 262 NYDKATRHLSESISNFVATG 281 (289)
Q Consensus 262 nYdKA~k~Lq~Als~~~~~~ 281 (289)
++++|++.|+|||..+|..+
T Consensus 56 ~~~~A~~~l~eAi~~Are~~ 75 (94)
T PF12862_consen 56 HYEEALQALEEAIRLARENG 75 (94)
T ss_pred CHHHHHHHHHHHHHHHHHHC
Confidence 68999999999999888765
No 41
>cd02680 MIT_calpain7_2 MIT: domain contained within Microtubule Interacting and Trafficking molecules. This sub-family of MIT domains is found in the nuclear thiol protease PalBH. The molecular function of the MIT domain is unclear.
Probab=23.55 E-value=66 Score=25.28 Aligned_cols=17 Identities=18% Similarity=0.288 Sum_probs=15.2
Q ss_pred hHHHHHHHHHHHHhhhh
Q 022974 262 NYDKATRHLSESISNFV 278 (289)
Q Consensus 262 nYdKA~k~Lq~Als~~~ 278 (289)
||++|++.+.+||..+.
T Consensus 21 ny~eA~~lY~~ale~~~ 37 (75)
T cd02680 21 NAEEAIELYTEAVELCI 37 (75)
T ss_pred hHHHHHHHHHHHHHHHH
Confidence 79999999999998765
No 42
>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=22.98 E-value=51 Score=23.89 Aligned_cols=17 Identities=41% Similarity=0.925 Sum_probs=15.6
Q ss_pred eeeechhHHHHHHHHHH
Q 022974 256 WFMGFVNYDKATRHLSE 272 (289)
Q Consensus 256 WFMGFvnYdKA~k~Lq~ 272 (289)
||.|+++=+.|-+.|++
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 99999999999888886
No 43
>PF13374 TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT_H 3NF1_A.
Probab=22.82 E-value=85 Score=19.25 Aligned_cols=19 Identities=21% Similarity=0.242 Sum_probs=13.8
Q ss_pred hHHHHHHHHHHHHhhhhcc
Q 022974 262 NYDKATRHLSESISNFVAT 280 (289)
Q Consensus 262 nYdKA~k~Lq~Als~~~~~ 280 (289)
.|++|.+++++++.-.+..
T Consensus 17 ~~~~A~~~~~~al~~~~~~ 35 (42)
T PF13374_consen 17 RYEEALELLEEALEIRERL 35 (42)
T ss_dssp -HHHHHHHHHHHHHHH---
T ss_pred hcchhhHHHHHHHHHHHHH
Confidence 6899999999999876643
No 44
>PF13414 TPR_11: TPR repeat; PDB: 2HO1_B 2FI7_B 2DBA_A 3Q4A_B 2C2L_D 3Q47_B 3Q49_B 2PL2_B 3IEG_B 2FBN_A ....
Probab=22.80 E-value=75 Score=21.87 Aligned_cols=16 Identities=19% Similarity=0.316 Sum_probs=13.2
Q ss_pred hHHHHHHHHHHHHhhh
Q 022974 262 NYDKATRHLSESISNF 277 (289)
Q Consensus 262 nYdKA~k~Lq~Als~~ 277 (289)
+|++|++++++||..-
T Consensus 18 ~~~~A~~~~~~ai~~~ 33 (69)
T PF13414_consen 18 DYEEAIEYFEKAIELD 33 (69)
T ss_dssp HHHHHHHHHHHHHHHS
T ss_pred CHHHHHHHHHHHHHcC
Confidence 6889999999998753
No 45
>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=22.03 E-value=52 Score=25.46 Aligned_cols=32 Identities=19% Similarity=0.479 Sum_probs=22.6
Q ss_pred hhhhcCCCCcch---hhhhcccccccCCCCceeeEEEee
Q 022974 159 YKQTFATHQNET---LKKTFACYLSTSTGPVAGTLYLSN 194 (289)
Q Consensus 159 FkQ~F~v~pgEk---LlKa~aCYLSTtaGPVaG~LfIST 194 (289)
||+.+...+..+ |.|+..|++-| .| |+|+|-=
T Consensus 7 fK~~~~~~~~~~~~~i~k~i~AfaN~-~G---G~iiiGV 41 (122)
T PF04326_consen 7 FKESLNKSSKKGKKEIAKTICAFANT-EG---GYIIIGV 41 (122)
T ss_dssp EE-GCCTCCCTEE--HHHHHHHHHCS-TT---EEEEETE
T ss_pred EEecCCCCccchHHHHHHHHHHHhCC-CC---CEEEEEE
Confidence 566666555543 99999999998 45 8998753
No 46
>PF05553 DUF761: Cotton fibre expressed protein; InterPro: IPR008480 This family consists of several plant proteins of unknown function. Three of the sequences from Gossypium hirsutum (Upland cotton) in this family are described as G. hirsutum fibre expressed proteins []. The remaining sequences, found in Arabidopsis thaliana, are uncharacterised.
Probab=21.55 E-value=47 Score=23.37 Aligned_cols=17 Identities=18% Similarity=0.339 Sum_probs=15.7
Q ss_pred cchHhHhhhhhhhhccC
Q 022974 116 NKAETLANNIWHNLKTN 132 (289)
Q Consensus 116 rKae~~a~~i~~Hlk~g 132 (289)
++||.|..+++++||+-
T Consensus 7 ~rAe~FI~~f~~qlrlq 23 (38)
T PF05553_consen 7 RRAEEFIAKFREQLRLQ 23 (38)
T ss_pred HHHHHHHHHHHHHHHHH
Confidence 69999999999999986
No 47
>cd08544 Reeler Reeler, the N-terminal domain of reelin, F-spondin, and a variety of other proteins. This domain is found at the N-terminus of F-spondin, a protein attached to the extracellular matrix, which plays roles in neuronal development and vascular remodelling. The F-spondin reeler domain has been reported to bind heparin. The reeler domain is also found at the N-terminus of reelin, an extracellular glycoprotein involved in the development of the brain cortex, and in a variety of other eukaryotic proteins with different domain architectures, including the animal ferric-chelate reductase 1 or stromal cell-derived receptor 2, a member of the cytochrome B561 family, which reduces ferric iron before its transport from the endosome to the cytoplasm. Also included is the insect putative defense protein 1, which is expressed upon bacterial infection and appears to contain a single reeler domain.
Probab=21.44 E-value=1.3e+02 Score=24.54 Aligned_cols=34 Identities=21% Similarity=0.237 Sum_probs=24.8
Q ss_pred eEEEEEEecccccccccccccCCCcCceEEEEEecCceeeeeech
Q 022974 217 SYYKVMLPLAMIGAINPVIMRENSSEKYIQIVTIDGHEFWFMGFV 261 (289)
Q Consensus 217 ~yYKVvIPL~kik~Vnps~n~~nPseKYIqIVTvD~~EFWFMGFv 261 (289)
..|.|.|.-. ...|.|+|---|+..+- -.|.||+
T Consensus 19 ~py~i~~~~~----------~y~pG~~~~Vtl~~~~~-~~F~GF~ 52 (135)
T cd08544 19 SPYSITISGN----------SYVPGETYTVTLSGSSP-SPFRGFL 52 (135)
T ss_pred CCEEEEeCCC----------EECCCCEEEEEEECCCC-CceeEEE
Confidence 7799888655 45788888655555444 6899997
No 48
>cd02681 MIT_calpain7_1 MIT: domain contained within Microtubule Interacting and Trafficking molecules. This sub-family of MIT domains is found in the nuclear thiol protease PalBH. The molecular function of the MIT domain is unclear.
Probab=21.44 E-value=77 Score=24.79 Aligned_cols=18 Identities=17% Similarity=0.204 Sum_probs=14.3
Q ss_pred hHHHHHHHHHHHHhhhhc
Q 022974 262 NYDKATRHLSESISNFVA 279 (289)
Q Consensus 262 nYdKA~k~Lq~Als~~~~ 279 (289)
+|+.|+.++++||..+..
T Consensus 21 ~y~eA~~~Y~~aie~l~~ 38 (76)
T cd02681 21 RYSEAVFYYKEAAQLLIY 38 (76)
T ss_pred CHHHHHHHHHHHHHHHHH
Confidence 688888888888887654
No 49
>cd02683 MIT_1 MIT: domain contained within Microtubule Interacting and Trafficking molecules. This sub-family of MIT domains is found in proteins with unknown function, co-occuring with an as yet undescribed domain. The molecular function of the MIT domain is unclear.
Probab=21.12 E-value=79 Score=24.46 Aligned_cols=17 Identities=18% Similarity=0.288 Sum_probs=10.3
Q ss_pred hHHHHHHHHHHHHhhhh
Q 022974 262 NYDKATRHLSESISNFV 278 (289)
Q Consensus 262 nYdKA~k~Lq~Als~~~ 278 (289)
+|+.|+.++++||..+.
T Consensus 21 ~y~eAl~~Y~~aie~l~ 37 (77)
T cd02683 21 RFQEALVCYQEGIDLLM 37 (77)
T ss_pred cHHHHHHHHHHHHHHHH
Confidence 46666666666665543
No 50
>KOG3294 consensus WW domain binding protein WBP-2, contains GRAM domain [Signal transduction mechanisms]
Probab=21.03 E-value=72 Score=30.82 Aligned_cols=40 Identities=28% Similarity=0.628 Sum_probs=27.6
Q ss_pred CCCceeeEEEeeceeeeecCCCeeeeCCCCCeeeeEEEEEEecccccccc
Q 022974 183 TGPVAGTLYLSNVHVAFCSDRPLSFTAPSGQKTWSYYKVMLPLAMIGAIN 232 (289)
Q Consensus 183 aGPVaG~LfIST~kvAFCSDrpl~~~sp~Gq~~~~yYKVvIPL~kik~Vn 232 (289)
.|=--|+|||++.||-|-|+.+-.- ---.++|+.-|+.++
T Consensus 44 ~g~kkGtlyLTs~RiIFis~~~~D~----------fksF~MPf~~mkd~k 83 (261)
T KOG3294|consen 44 KGTKKGTLYLTSHRIIFISSKPKDA----------FKSFMMPFNLMKDVK 83 (261)
T ss_pred ccceeeeEEeecceEEEecCCCCcc----------hhhhcchhhhhhhce
Confidence 3455799999999999999875321 112456777666655
No 51
>PF03681 UPF0150: Uncharacterised protein family (UPF0150); InterPro: IPR005357 This family of small proteins is uncharacterised. In Q9A3L8 from SWISSPROT this domain is found next to a DNA binding helix-turn-helix domain IPR002145 from INTERPRO, which suggests that this is some kind of ligand binding domain.; PDB: 2DSY_C 2YZT_A 3KWR_A.
Probab=20.77 E-value=2.5e+02 Score=19.10 Aligned_cols=36 Identities=19% Similarity=0.300 Sum_probs=23.4
Q ss_pred ceEEEEEecCceeeeeech----------hHHHHHHHHHHHHhhhh
Q 022974 243 KYIQIVTIDGHEFWFMGFV----------NYDKATRHLSESISNFV 278 (289)
Q Consensus 243 KYIqIVTvD~~EFWFMGFv----------nYdKA~k~Lq~Als~~~ 278 (289)
||--||+.|.-+.|..=|- +.+.|++++++||...-
T Consensus 1 ~Y~~~i~~~~~~~y~~~~pdlpg~~t~G~t~eea~~~~~eal~~~l 46 (48)
T PF03681_consen 1 KYPAIIEKDEDGGYVAYFPDLPGCFTQGDTLEEALENAKEALELWL 46 (48)
T ss_dssp EEEEEEEE-TSSSEEEEETTCCTCEEEESSHHHHHHHHHHHHHHHC
T ss_pred CEEEEEEECCCCeEEEEeCCccChhhcCCCHHHHHHHHHHHHHHHh
Confidence 4556677644444443333 67999999999998653
No 52
>cd00562 NifX_NifB This CD represents a family of iron-molybdenum cluster-binding proteins that includes NifB, NifX, and NifY, all of which are involved in the synthesis of an iron-molybdenum cofactor (FeMo-co) that binds the active site of the dinitrogenase enzyme. This domain is a predicted small-molecule-binding domain (SMBD) with an alpha/beta fold that is present either as a stand-alone domain (e.g. NifX and NifY) or fused to another conserved domain (e.g. NifB) however, its function is still undetermined.The SCOP database suggests that this domain is most similar to structures within the ribonuclease H superfamily. This conserved domain is represented in two of the three major divisions of life (bacteria and archaea).
Probab=20.11 E-value=1.5e+02 Score=22.17 Aligned_cols=39 Identities=10% Similarity=0.094 Sum_probs=24.8
Q ss_pred EEEEecccccccccccccCCCcCceEEEEEecCceeeeeechh
Q 022974 220 KVMLPLAMIGAINPVIMRENSSEKYIQIVTIDGHEFWFMGFVN 262 (289)
Q Consensus 220 KVvIPL~kik~Vnps~n~~nPseKYIqIVTvD~~EFWFMGFvn 262 (289)
||.||...-+.|+++--+ -+|+.|+.+|+.++.+...+.
T Consensus 1 kIAi~~~~~~~v~~hFg~----A~~f~I~d~~~~~~~~~e~~~ 39 (102)
T cd00562 1 KIAVASSDGGRVDQHFGR----APEFLIYEVEPGGIKLVEVRE 39 (102)
T ss_pred CEEEEcCCCCEehhhcCC----CCeEEEEEEcCCcEEEEEEEe
Confidence 466666666556554444 467777777777776666653
Done!