Query psy4659
Match_columns 132
No_of_seqs 106 out of 231
Neff 4.1
Searched_HMMs 46136
Date Fri Aug 16 22:29:25 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy4659.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/4659hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 cd08888 SRPBCC_PITPNA-B_like L 100.0 2.5E-45 5.4E-50 302.6 8.5 102 9-126 136-238 (258)
2 cd08889 SRPBCC_PITPNM1-2_like 100.0 3.3E-45 7.2E-50 302.1 8.3 103 9-126 137-240 (260)
3 KOG3668|consensus 100.0 5.1E-45 1.1E-49 300.6 8.7 102 8-126 137-238 (269)
4 cd08890 SRPBCC_PITPNC1_like Li 100.0 8.3E-45 1.8E-49 298.4 7.5 94 11-126 137-230 (250)
5 PF02121 IP_trans: Phosphatidy 100.0 1.2E-44 2.7E-49 297.5 6.9 104 8-126 136-239 (254)
6 cd07815 SRPBCC_PITP Lipid-bind 100.0 2.3E-44 4.9E-49 296.0 7.6 97 9-126 135-231 (251)
7 PF10698 DUF2505: Protein of u 67.5 10 0.00022 28.6 4.1 37 76-119 123-159 (159)
8 cd03495 SQR_TypeC_SdhD_like Su 41.4 23 0.00049 25.2 2.1 31 82-119 60-90 (100)
9 PF08788 NHR2: NHR2 domain lik 22.9 21 0.00046 24.7 -0.6 14 117-130 13-26 (67)
10 PF11745 DUF3304: Protein of u 21.1 1.1E+02 0.0024 22.2 2.8 22 62-83 45-73 (118)
No 1
>cd08888 SRPBCC_PITPNA-B_like Lipid-binding SRPBCC domain of mammalian PITPNA, -B, and related proteins (Class I PITPs). This subgroup includes the SRPBCC (START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC) domain of mammalian Class 1 phosphatidylinositol transfer proteins (PITPs), PITPNA/PITPalpha and PITPNB/PITPbeta, Drosophila vibrator, and related proteins. These are single domain proteins belonging to the PITP family of lipid transfer proteins, and to the SRPBCC domain superfamily of proteins that bind hydrophobic ligands. SRPBCC domains have a deep hydrophobic ligand-binding pocket. In vitro, PITPs bind phosphatidylinositol (PtdIns), as well as phosphatidylcholine (PtdCho) but with a lower affinity. They transfer these lipids from one membrane compartment to another. The cellular roles of PITPs include inositol lipid signaling, PtdIns metabolism, and membrane trafficking. In addition, PITPNB transfers sphingomyelin in vitro, with a low affinity. PITPNA is found chiefly in the nucleus and cy
Probab=100.00 E-value=2.5e-45 Score=302.61 Aligned_cols=102 Identities=35% Similarity=0.588 Sum_probs=89.0
Q ss_pred eee-ccccccCCCCCCCCCCCCCCcceeecccCCCCCCcchHHHhhhcccCCCCcCCCCcceeeeeeeeEEEeeccchHH
Q psy4659 9 EVG-NTLYKTKCLYGGDYVREEDPSIYVSKTTGRGPLSENWISEYWNAVKEDPTVSHDNKSMMCAYKLCKIQLNYWGIQS 87 (132)
Q Consensus 9 ~~~-~~~~~~d~v~~~dYk~eEDP~~f~S~KTGRGPL~~~W~~~~~~~~~~~~~P~~~~~~iMcaYKLV~VeF~~wGlQ~ 87 (132)
||. ++|++++.|+++||+++|||++|+|+|||||||.+||++++.. ..+.| ||||||||+|+|+|||||+
T Consensus 136 eV~~IDIa~d~~~~~~dYk~eeDP~~f~S~kTgRGPL~~~W~~~~~~---~~~~P------iMcaYKLv~v~f~~wG~q~ 206 (258)
T cd08888 136 EVVYIDIADRSQVDPKDYKADEDPAKFQSEKTGRGPLGPNWKKELVN---QKDCP------IMCAYKLVTVEFKWWGLQN 206 (258)
T ss_pred EEEEEecccCCcCCcccCCcccCcccccccccCCCCCCcchhhhccc---CCCCC------EEEEeEEEEEEEeeecccH
Confidence 443 5566644369999999999999999999999999999987531 22346 9999999999999999999
Q ss_pred HHHHHHHHhCCCCCCcccHHHHHHHHHhhhhcccccchh
Q psy4659 88 KVERFIADTGKPSGRALPRHFRRALRFAVTLDKPCRCLE 126 (132)
Q Consensus 88 kVE~fI~k~~~~~~~~lrrvfl~~HRQafcW~Dew~~l~ 126 (132)
+||+|||++ +|++|+++|||||||+|||++|.
T Consensus 207 rvE~fI~~~-------~r~~fl~~HRq~fcW~DeW~glt 238 (258)
T cd08888 207 KVENFIQKQ-------ERRLFTNFHRQVFCWLDKWHGLT 238 (258)
T ss_pred HHHHHHHHH-------HHHHHHHHHHHHhhhHHHHcCCC
Confidence 999999996 69999999999999999999984
No 2
>cd08889 SRPBCC_PITPNM1-2_like Lipid-binding SRPBCC domain of mammalian PITPNM1-2 and related proteins (Class IIA PITPs). This subgroup includes an N-terminal SRPBCC (START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC) domain of mammalian Class II phosphatidylinositol transfer protein (PITPs), PITPNM1/PITPalphaI/Nir2 (PYK2 N-terminal domain-interacting receptor2) and PITPNM2/PITPalphaII/Nir3), Drosophila RdgB, and related proteins. These are membrane associated multidomain proteins belonging to the PITP family of lipid transfer proteins, and to the SRPBCC domain superfamily of proteins that bind hydrophobic ligands. SRPBCC domains have a deep hydrophobic ligand-binding pocket. In vitro, PITPs bind phosphatidylinositol (PtdIns), as well as phosphatidylcholine (PtdCho) but with a lower affinity. They transfer these lipids from one membrane compartment to another. The cellular roles of PITPs include inositol lipid signaling, PtdIns metabolism, and membrane trafficking. Ablation of the mouse gene en
Probab=100.00 E-value=3.3e-45 Score=302.11 Aligned_cols=103 Identities=45% Similarity=0.802 Sum_probs=90.3
Q ss_pred eee-ccccccCCCCCCCCCCCCCCcceeecccCCCCCCcchHHHhhhcccCCCCcCCCCcceeeeeeeeEEEeeccchHH
Q psy4659 9 EVG-NTLYKTKCLYGGDYVREEDPSIYVSKTTGRGPLSENWISEYWNAVKEDPTVSHDNKSMMCAYKLCKIQLNYWGIQS 87 (132)
Q Consensus 9 ~~~-~~~~~~d~v~~~dYk~eEDP~~f~S~KTGRGPL~~~W~~~~~~~~~~~~~P~~~~~~iMcaYKLV~VeF~~wGlQ~ 87 (132)
||. ++|++ |+|+++||++||||++|+|+|||||||.+||++++.+ +..+.| ||||||||+|+|+|||||+
T Consensus 137 eV~~IDIa~-d~v~~~dYk~eeDP~~f~S~kTgRGPL~~~W~~~~~~--~~~~~P------iMcaYKLv~v~f~~wG~q~ 207 (260)
T cd08889 137 IIDFIDIVK-DPVPGSDYKAEEDPKLYVSEKTGRGPLSDDWIEEYKD--PPGKGP------IMCAYKLCKVEFRYWGMQT 207 (260)
T ss_pred eEEEEeccC-CCCCccccCcccCcchhcccccCCCCCChhhhhhhcc--cCCCCC------eEEEeEEEEEEEeeecchH
Confidence 444 45554 6699999999999999999999999999999988641 112346 9999999999999999999
Q ss_pred HHHHHHHHhCCCCCCcccHHHHHHHHHhhhhcccccchh
Q psy4659 88 KVERFIADTGKPSGRALPRHFRRALRFAVTLDKPCRCLE 126 (132)
Q Consensus 88 kVE~fI~k~~~~~~~~lrrvfl~~HRQafcW~Dew~~l~ 126 (132)
+||+|||++. ||++|+++|||||||+|||++|.
T Consensus 208 rvE~fI~~~~------lr~~~l~~HRq~fcW~DeW~glt 240 (260)
T cd08889 208 KIERFIHDVA------LRKVMLRAHRQAWCWQDEWYGLT 240 (260)
T ss_pred HHHHHHHHhh------hHHHHHHHHHHHheeHHHHcCCC
Confidence 9999999985 69999999999999999999974
No 3
>KOG3668|consensus
Probab=100.00 E-value=5.1e-45 Score=300.56 Aligned_cols=102 Identities=38% Similarity=0.636 Sum_probs=90.1
Q ss_pred eeeeccccccCCCCCCCCCCCCCCcceeecccCCCCCCcchHHHhhhcccCCCCcCCCCcceeeeeeeeEEEeeccchHH
Q psy4659 8 TEVGNTLYKTKCLYGGDYVREEDPSIYVSKTTGRGPLSENWISEYWNAVKEDPTVSHDNKSMMCAYKLCKIQLNYWGIQS 87 (132)
Q Consensus 8 ~~~~~~~~~~d~v~~~dYk~eEDP~~f~S~KTGRGPL~~~W~~~~~~~~~~~~~P~~~~~~iMcaYKLV~VeF~~wGlQ~ 87 (132)
-||..-+..+|+|++.||+++|||++|+|+|||||||.+||.++++ .+..| +|||||||+|+|+|||||+
T Consensus 137 rei~~IDIa~d~v~~~dyk~eeDP~~f~s~kTgRGpL~e~w~~~~~----~~~~P------~McaYKlvtvefk~wGmQ~ 206 (269)
T KOG3668|consen 137 REIVFIDIADDPVPPNDYKAEEDPKLFQSEKTGRGPLDENWWETYK----SQGMP------VMCAYKLVTVEFKWWGMQT 206 (269)
T ss_pred eEEEEEEeecCCCCccccCcccCchhheecccccCCCCcchHHHhh----ccCCC------eEEEeeEEEEEEEeehHHH
Confidence 3444444444779999999999999999999999999999988875 23456 9999999999999999999
Q ss_pred HHHHHHHHhCCCCCCcccHHHHHHHHHhhhhcccccchh
Q psy4659 88 KVERFIADTGKPSGRALPRHFRRALRFAVTLDKPCRCLE 126 (132)
Q Consensus 88 kVE~fI~k~~~~~~~~lrrvfl~~HRQafcW~Dew~~l~ 126 (132)
+||+|||+++ ||+|+++|||||||+|+|++|.
T Consensus 207 ~VE~fIhk~~-------~rv~~~~HRqafcw~D~W~glt 238 (269)
T KOG3668|consen 207 KVENFIHKVE-------RRVFTRAHRQAFCWQDEWYGLT 238 (269)
T ss_pred HHHHHHHHHH-------HHHHHHHHHHHheehhhhhCcc
Confidence 9999999985 8999999999999999999985
No 4
>cd08890 SRPBCC_PITPNC1_like Lipid-binding SRPBCC domain of mammalian PITPNC1,and related proteins (Class IIB PITPs). This subgroup includes the N-terminal SRPBCC (START/RHO_alpha_C /PITP /Bet_v1/CoxG/CalC) domain of mammalian Class IIB phosphatidylinositol transfer protein (PITP), PITPNC1/RdgBbeta, and related proteins. These are metazoan proteins belonging to the PITP family of lipid transfer proteins, and to the SRPBCC domain superfamily of proteins that bind hydrophobic ligands. SRPBCC domains have a deep hydrophobic ligand-binding pocket. In vitro, PITPs bind phosphatidylinositol (PtdIns), as well as phosphatidylcholine (PtdCho) but with a lower affinity. They transfer these lipids from one membrane compartment to another. The cellular roles of PITPs include inositol lipid signaling, PtdIns metabolism, and membrane trafficking. Mammalian PITPNC1 contains an amino-terminal SRPBCC PITP-like domain and a short carboxyl-terminal domain. It is a cytoplasmic protein, and is ubiquitously
Probab=100.00 E-value=8.3e-45 Score=298.43 Aligned_cols=94 Identities=29% Similarity=0.522 Sum_probs=86.7
Q ss_pred eccccccCCCCCCCCCCCCCCcceeecccCCCCCCcchHHHhhhcccCCCCcCCCCcceeeeeeeeEEEeeccchHHHHH
Q psy4659 11 GNTLYKTKCLYGGDYVREEDPSIYVSKTTGRGPLSENWISEYWNAVKEDPTVSHDNKSMMCAYKLCKIQLNYWGIQSKVE 90 (132)
Q Consensus 11 ~~~~~~~d~v~~~dYk~eEDP~~f~S~KTGRGPL~~~W~~~~~~~~~~~~~P~~~~~~iMcaYKLV~VeF~~wGlQ~kVE 90 (132)
-++|+ +|+|+++||++||||++|+|+|||||||.+||+++ +.| ||||||||+|+|+|||||++||
T Consensus 137 ~IDIa-~d~v~~~dYk~eeDp~~f~S~kTgRGPL~~~W~~~--------~~P------iMcaYKLv~v~f~~wG~q~rvE 201 (250)
T cd08890 137 HLDIA-YDEIPEKYYKEEEDPKYFKSEKTGRGPLKEGWRET--------HKP------IMCSYKLVTVKFEVWGLQTRVE 201 (250)
T ss_pred EEecc-cCCCCcccCCcccCCccccccccCCCCCCcccccC--------CCc------eEEEEEEEEEEEeeecccHHHH
Confidence 35566 46799999999999999999999999999999864 457 9999999999999999999999
Q ss_pred HHHHHhCCCCCCcccHHHHHHHHHhhhhcccccchh
Q psy4659 91 RFIADTGKPSGRALPRHFRRALRFAVTLDKPCRCLE 126 (132)
Q Consensus 91 ~fI~k~~~~~~~~lrrvfl~~HRQafcW~Dew~~l~ 126 (132)
+|||++ +|++|+++|||||||+|||++|.
T Consensus 202 ~~I~~~-------~r~~~l~~HRq~fcW~DeW~glt 230 (250)
T cd08890 202 QFVHKV-------VRDILLLGHRQAFAWVDEWYDMT 230 (250)
T ss_pred HHHHHH-------HHHHHHHHHHHHheeHHHHcCCC
Confidence 999996 79999999999999999999984
No 5
>PF02121 IP_trans: Phosphatidylinositol transfer protein; InterPro: IPR001666 Phosphatidylinositol transfer protein (PITP) is a ubiquitous cytosolic protein, thought to be involved in transport of phospholipids from their site of synthesis in the endoplasmic reticulum and Golgi to other cell membranes []. More recently, PITP has been shown to be an essential component of the polyphosphoinositide synthesis machinery and is hence required for proper signalling by epidermal growth factor and f-Met-Leu-Phe, as well as for exocytosis. The role of PITP in polyphosphoinositide synthesis may also explain its involvement in intracellular vesicular traffic [].; GO: 0006810 transport, 0005622 intracellular; PDB: 1T27_A 1KCM_A 2A1L_A 1UW5_C.
Probab=100.00 E-value=1.2e-44 Score=297.45 Aligned_cols=104 Identities=37% Similarity=0.573 Sum_probs=73.8
Q ss_pred eeeeccccccCCCCCCCCCCCCCCcceeecccCCCCCCcchHHHhhhcccCCCCcCCCCcceeeeeeeeEEEeeccchHH
Q psy4659 8 TEVGNTLYKTKCLYGGDYVREEDPSIYVSKTTGRGPLSENWISEYWNAVKEDPTVSHDNKSMMCAYKLCKIQLNYWGIQS 87 (132)
Q Consensus 8 ~~~~~~~~~~d~v~~~dYk~eEDP~~f~S~KTGRGPL~~~W~~~~~~~~~~~~~P~~~~~~iMcaYKLV~VeF~~wGlQ~ 87 (132)
.||...+..+|+++++||+++|||++|+|+|||||||.+||+++... +...| ||||||||+|+|+|||||+
T Consensus 136 reV~~IDI~~d~i~~~dyk~~eDp~~f~S~ktgRGPL~~~W~~~~~~---~~~~P------iMc~YKlv~v~f~~~GlQ~ 206 (254)
T PF02121_consen 136 REVVFIDIANDPISPKDYKEEEDPTKFKSKKTGRGPLKEDWRKEWKK---NGKKP------IMCCYKLVTVEFKWWGLQT 206 (254)
T ss_dssp SEEEEE-TTGGGS-CCC--GGG-CCC---TTT------TTHHHHHCT---SSSS--------EEEEEEEEEEE--TTTHH
T ss_pred ceEEEEEecCCcccccccCcccCchheEecCCCCCCCCcchhhhhhh---cCCCC------EEEEEEEEEEEeeeechHH
Confidence 45655555578899999999999999999999999999999998641 33467 9999999999999999999
Q ss_pred HHHHHHHHhCCCCCCcccHHHHHHHHHhhhhcccccchh
Q psy4659 88 KVERFIADTGKPSGRALPRHFRRALRFAVTLDKPCRCLE 126 (132)
Q Consensus 88 kVE~fI~k~~~~~~~~lrrvfl~~HRQafcW~Dew~~l~ 126 (132)
+||+|||+++ ||++|+++|||||||+|||++|.
T Consensus 207 ~vE~~I~~~~------~r~i~~~~HRq~fcw~DeW~glT 239 (254)
T PF02121_consen 207 KVENFIHKQI------LRRIFLNFHRQAFCWIDEWYGLT 239 (254)
T ss_dssp HHHHHHHHHH-------HHHHHHHHHHHHHTHHHHTT--
T ss_pred HHHHHHHHhh------hhHHHHHHHHHHheehhhhcCCC
Confidence 9999999985 69999999999999999999984
No 6
>cd07815 SRPBCC_PITP Lipid-binding SRPBCC domain of Class I and Class II Phosphatidylinositol Transfer Proteins. This family includes the SRPBCC (START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC) domain of the phosphatidylinositol transfer protein (PITP) family of lipid transfer proteins. This family of proteins includes Class 1 PITPs (PITPNA/PITPalpha and PITPNB/PITPbeta, Drosophila vibrator and related proteins), Class IIA PITPs (PITPNM1/PITPalphaI/Nir2, PITPNM2/PITPalphaII/Nir3, Drosophila RdgB, and related proteins), and Class IIB PITPs (PITPNC1/RdgBbeta and related proteins). The PITP family belongs to the SRPBCC domain superfamily of proteins that bind hydrophobic ligands. SRPBCC domains have a deep hydrophobic ligand-binding pocket. In vitro, PITPs bind phosphatidylinositol (PtdIns), as well as phosphatidylcholine (PtdCho) but with a lower affinity. They transfer these lipids from one membrane compartment to another. The cellular roles of PITPs include inositol lipid signaling, PtdIns
Probab=100.00 E-value=2.3e-44 Score=295.96 Aligned_cols=97 Identities=36% Similarity=0.575 Sum_probs=88.0
Q ss_pred eeeccccccCCCCCCCCCCCCCCcceeecccCCCCCCcchHHHhhhcccCCCCcCCCCcceeeeeeeeEEEeeccchHHH
Q psy4659 9 EVGNTLYKTKCLYGGDYVREEDPSIYVSKTTGRGPLSENWISEYWNAVKEDPTVSHDNKSMMCAYKLCKIQLNYWGIQSK 88 (132)
Q Consensus 9 ~~~~~~~~~d~v~~~dYk~eEDP~~f~S~KTGRGPL~~~W~~~~~~~~~~~~~P~~~~~~iMcaYKLV~VeF~~wGlQ~k 88 (132)
||...+..+|+++++||+++|||++|+|+|||||||.+||+++ ..| ||||||||+|+|+|||||++
T Consensus 135 eV~~IDIa~d~~~~~dYk~eeDp~~f~S~kTgRGPL~~~W~~~--------~~P------iMcaYKLv~v~f~~wG~q~r 200 (251)
T cd07815 135 KVVVIDIANDSVASKDYKPEEDPKLFKSKKTGRGPLRKGWRKS--------TKP------IMCAYKLVTVDFPYWGLQNK 200 (251)
T ss_pred EEEEEeccCCCCCcccCCcccCCchhcccccCCCCCCcccccc--------CCC------eEEEEEEEEEEeeeecccHH
Confidence 5544444457799999999999999999999999999999864 458 99999999999999999999
Q ss_pred HHHHHHHhCCCCCCcccHHHHHHHHHhhhhcccccchh
Q psy4659 89 VERFIADTGKPSGRALPRHFRRALRFAVTLDKPCRCLE 126 (132)
Q Consensus 89 VE~fI~k~~~~~~~~lrrvfl~~HRQafcW~Dew~~l~ 126 (132)
||+|||++ +|++|+++|||||||+|||++|.
T Consensus 201 vE~~I~~~-------~r~~~l~~HRq~fcW~DeW~glt 231 (251)
T cd07815 201 VENFIQKV-------ERDVFLNYHRQAFCWIDEWFDLT 231 (251)
T ss_pred HHHHHHHH-------HHHHHHHHHHHHHhhHHHHcCCC
Confidence 99999997 59999999999999999999974
No 7
>PF10698 DUF2505: Protein of unknown function (DUF2505); InterPro: IPR019639 This entry represents proteins found Actinobacteria and Proteobacteria. The function is not known.
Probab=67.50 E-value=10 Score=28.57 Aligned_cols=37 Identities=14% Similarity=0.225 Sum_probs=32.0
Q ss_pred eEEEeeccchHHHHHHHHHHhCCCCCCcccHHHHHHHHHhhhhc
Q psy4659 76 CKIQLNYWGIQSKVERFIADTGKPSGRALPRHFRRALRFAVTLD 119 (132)
Q Consensus 76 V~VeF~~wGlQ~kVE~fI~k~~~~~~~~lrrvfl~~HRQafcW~ 119 (132)
.+|+.+...++.|+|++|... +++.|..-++.+=.|+
T Consensus 123 g~v~v~VPlvGgkiE~~v~~~-------~~~~~~~e~~~~~~wl 159 (159)
T PF10698_consen 123 GEVKVKVPLVGGKIEKAVAEN-------LRKLLEAEQEFTAEWL 159 (159)
T ss_pred EEEEEEEccccHHHHHHHHHH-------HHHHHHHHHHHHHhhC
Confidence 567788889999999999996 7999999888887775
No 8
>cd03495 SQR_TypeC_SdhD_like Succinate:quinone oxidoreductase (SQR) Type C subfamily, Succinate dehydrogenase D (SdhD) subunit-like; composed of predominantly uncharacterized bacterial proteins with similarity to the E. coli SdhD subunit. One characterized protein is the respiratory Complex II SdhD subunit of the only eukaryotic member, Reclinomonas americana. SQR catalyzes the oxidation of succinate to fumarate coupled to the reduction of quinone to quinol. It is also called succinate dehydrogenase or Complex II, and is part of the citric acid cycle and the aerobic respiratory chain. SQR is composed of a flavoprotein catalytic subunit, an iron-sulfur protein and one or two hydrophobic transmembrane subunits. E. coli SQR is classified as Type C SQRs because it contains two transmembrane subunits and one heme group. The SdhD and SdhC subunits are membrane anchor subunits containing heme and quinone binding sites. The two-electron oxidation of succinate in the flavoprotein active site is
Probab=41.41 E-value=23 Score=25.23 Aligned_cols=31 Identities=16% Similarity=0.171 Sum_probs=22.8
Q ss_pred ccchHHHHHHHHHHhCCCCCCcccHHHHHHHHHhhhhc
Q psy4659 82 YWGIQSKVERFIADTGKPSGRALPRHFRRALRFAVTLD 119 (132)
Q Consensus 82 ~wGlQ~kVE~fI~k~~~~~~~~lrrvfl~~HRQafcW~ 119 (132)
+=|+|..+|++||... -|..+..-=..||+.
T Consensus 60 ~~Gm~~IieDYV~~~~-------~R~~l~~~~~~~~~~ 90 (100)
T cd03495 60 RLGMQVVIEDYVHSEG-------LRLALIIAVKLFAIA 90 (100)
T ss_pred HHHHHHHHHHHhCchH-------HHHHHHHHHHHHHHH
Confidence 3499999999999865 466666666666653
No 9
>PF08788 NHR2: NHR2 domain like; InterPro: IPR014896 Transcriptional activation and repression are required for control of cell proliferation and differentiation during embryonic development and homeostasis in the adult organism. Perturbations of these processes can lead to the development of cancer []. The Eight-Twenty-One (ETO) gene product is able to form complexes with corepressors and deacetylases, such as nuclear receptor corepressor (N-CoR), which repress transcription when recruited by transcription factors []. The ETO gene derives its name from its association with many cases of acute myelogenous leukaemia (AML), in which a reciprocal translocation, t(8;21), brings together a large portion of the ETO gene from chromosome eight and part of the AML1 gene from chromosome 21. The human ETO gene family currently comprises three major subfamilies: ETO/myeloid transforming gene on chromosome 8 (MTG8); myeloid transforming gene related protein-1 (MTGR1) and myeloid transforming gene on chromosome 16 (MTG16). ETO proteins are composed of four evolutionarily conserved domains termed nervy homology regions (NHR) 1-4. NHR1 is thought to stabilise the formation of high molecular weight complexes, but is not directly responsible for repressor activity. NHR2 and its flanking sequence comprise the core repressor domain, which mediates 50% of the wild type repressor activity. Furthermore, there is evidence that the amphipathic helical structure of NHR2 promotes the formation of ETO/AML1 homodimers []. NHR3 and NHR4 have been shown to act in concert to bind N-CoR. NHR4 contains two zinc finger motifs, which are thought to play a role in protein interactions rather than DNA binding []. This entry represents the NHR2 (Nervy homology 2) domain found in ETO proteins. It mediates oligomerisation and protein-protein interactions, forming an alpha-helical tetramer []. ; PDB: 1WQ6_A.
Probab=22.94 E-value=21 Score=24.73 Aligned_cols=14 Identities=21% Similarity=0.330 Sum_probs=12.4
Q ss_pred hhcccccchhhhhh
Q psy4659 117 TLDKPCRCLESMLA 130 (132)
Q Consensus 117 cW~Dew~~l~~~~~ 130 (132)
.|.|||+-|+.||.
T Consensus 13 ~~~deWkh~~~mLn 26 (67)
T PF08788_consen 13 EWADEWKHLDHMLN 26 (67)
T ss_dssp HHHHHHHHHHHHHH
T ss_pred cHHHHhcCHHHHHH
Confidence 59999999999984
No 10
>PF11745 DUF3304: Protein of unknown function (DUF3304); InterPro: IPR021733 This is a family of bacterial proteins of unknown function.
Probab=21.07 E-value=1.1e+02 Score=22.24 Aligned_cols=22 Identities=9% Similarity=0.226 Sum_probs=16.6
Q ss_pred cCCCCcceeeeeeee-------EEEeecc
Q psy4659 62 VSHDNKSMMCAYKLC-------KIQLNYW 83 (132)
Q Consensus 62 P~~~~~~iMcaYKLV-------~VeF~~w 83 (132)
|...+...+|||.|- +|+++|=
T Consensus 45 p~~GGGg~~CC~~~p~~W~pg~tv~V~W~ 73 (118)
T PF11745_consen 45 PYGGGGGFTCCVSLPRKWRPGLTVKVEWE 73 (118)
T ss_pred cCCCCCceEEEEEcCCCCCCCCEEEEEEe
Confidence 334567799999998 7777765
Done!