Query 044254
Match_columns 312
No_of_seqs 25 out of 27
Neff 1.8
Searched_HMMs 46136
Date Fri Mar 29 12:55:49 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/044254.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/044254hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF10961 DUF2763: Protein of u 65.1 2.5 5.5E-05 33.9 0.5 26 99-124 22-47 (91)
2 PF10123 Mu-like_Pro: Mu-like 48.4 9.8 0.00021 35.2 1.4 30 201-230 92-131 (326)
3 cd01244 PH_RasGAP_CG9209 RAS_G 29.3 46 0.00099 26.5 2.3 26 216-241 67-95 (98)
4 PF00169 PH: PH domain; Inter 29.1 57 0.0012 22.4 2.5 31 210-240 64-98 (104)
5 cd01220 PH_CDEP Chondrocyte-de 26.6 55 0.0012 25.9 2.3 25 216-241 65-93 (99)
6 PF07755 DUF1611: Protein of u 21.5 52 0.0011 31.5 1.5 57 190-246 213-286 (301)
7 COG3531 Predicted protein-disu 21.0 37 0.0008 31.8 0.4 25 195-227 108-132 (212)
8 smart00233 PH Pleckstrin homol 20.6 1.1E+02 0.0025 20.1 2.6 29 213-241 65-97 (102)
9 cd01967 Nitrogenase_MoFe_alpha 18.7 89 0.0019 29.0 2.3 52 217-270 162-213 (406)
10 PF06884 DUF1264: Protein of u 18.3 48 0.001 30.0 0.5 53 201-253 26-98 (171)
No 1
>PF10961 DUF2763: Protein of unknown function (DUF2763); InterPro: IPR024491 This entry represents an eukaryotic family of selenoproteins. It includes SelK, which seems to play an important role in protecting cells from endoplasmic reticulum stress-induced apoptosis [] and SelG, which may be involved in regulating the redox state of the cell [].
Probab=65.07 E-value=2.5 Score=33.87 Aligned_cols=26 Identities=23% Similarity=0.553 Sum_probs=21.6
Q ss_pred cCcchhhhhhhhhcccccccccccce
Q 044254 99 LDSVWGACFFFTYYFKPVLNEKSKCK 124 (312)
Q Consensus 99 ~DsiWGAWFFF~~YFkP~l~~k~k~K 124 (312)
.|-+||+|.|+..||+.+++..+...
T Consensus 22 ~d~Fwgi~~fI~lFF~Tl~~p~~~~~ 47 (91)
T PF10961_consen 22 TDFFWGIINFIVLFFQTLFSPDSSRS 47 (91)
T ss_pred HHHHHHHHHHHHHHHHHHhCCCcccc
Confidence 47899999999999999998765533
No 2
>PF10123 Mu-like_Pro: Mu-like prophage I protein; InterPro: IPR012106 This entry is represented by the Bacteriophage Mu, Gp32. The characteristics of the protein distribution suggest prophage matches.
Probab=48.35 E-value=9.8 Score=35.25 Aligned_cols=30 Identities=30% Similarity=0.516 Sum_probs=20.7
Q ss_pred hhhhhccCCC----------CCccccceeEeeCCCCCCCC
Q 044254 201 MQRKHYRGLS----------NPQCVHGIEVVSSPNLKGID 230 (312)
Q Consensus 201 MQRKHYRGLS----------NPQCvHGIEvV~sPnL~~~~ 230 (312)
+..|+||-|| ++.+||++-.+..|||.++.
T Consensus 92 i~~~eYry~SPvf~~d~~~g~v~~l~~aaLTN~P~l~gl~ 131 (326)
T PF10123_consen 92 IANKEYRYLSPVFHYDKDTGRVLRLHSAALTNRPALDGLA 131 (326)
T ss_pred HhCCCCceeCceeeecCCCCcEEEEEEeeecCCCcccccH
Confidence 3455555555 33478888889999997764
No 3
>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=29.26 E-value=46 Score=26.54 Aligned_cols=26 Identities=19% Similarity=0.259 Sum_probs=19.4
Q ss_pred cceeEeeCC---CCCCCCHHHHHhhhhhc
Q 044254 216 HGIEVVSSP---NLKGIDEEEQKRWMELT 241 (312)
Q Consensus 216 HGIEvV~sP---nL~~~~e~d~kRW~ELT 241 (312)
|.++||..- .+..=+|+||+.|++..
T Consensus 67 ~~fqivt~~r~~yi~a~s~~E~~~Wi~al 95 (98)
T cd01244 67 DIITIVCEDDTMQLQFEAPVEATDWLNAL 95 (98)
T ss_pred ceEEEEeCCCeEEEECCCHHHHHHHHHHH
Confidence 678887632 25677899999999854
No 4
>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=29.06 E-value=57 Score=22.40 Aligned_cols=31 Identities=29% Similarity=0.529 Sum_probs=25.3
Q ss_pred CCCccccceeEeeCCC----CCCCCHHHHHhhhhh
Q 044254 210 SNPQCVHGIEVVSSPN----LKGIDEEEQKRWMEL 240 (312)
Q Consensus 210 SNPQCvHGIEvV~sPn----L~~~~e~d~kRW~EL 240 (312)
.+...-|+++|+...+ |..=+++|+++|++-
T Consensus 64 ~~~~~~~~f~i~~~~~~~~~~~~~s~~~~~~W~~~ 98 (104)
T PF00169_consen 64 SNKKRKNCFEITTPNGKSYLFSAESEEERKRWIQA 98 (104)
T ss_dssp STSSSSSEEEEEETTSEEEEEEESSHHHHHHHHHH
T ss_pred cccCCCcEEEEEeCCCcEEEEEcCCHHHHHHHHHH
Confidence 6777788899988877 556689999999974
No 5
>cd01220 PH_CDEP Chondrocyte-derived ezrin-like domain containing protein (CDEP) Pleckstrin homology (PH) domain. Chondrocyte-derived ezrin-like domain containing protein (CDEP) Pleckstrin homology (PH) domain. CDEP consists of a Ferm domain, a rhoGEF (DH) domain followed by two PH domains. 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 kinases, regulators of G-proteins, endocytotic GTPases, adaptors, as well as cytoskeletal associated molecules and in lipid associated enzymes.
Probab=26.58 E-value=55 Score=25.92 Aligned_cols=25 Identities=12% Similarity=0.385 Sum_probs=17.2
Q ss_pred cceeEeeCCC----CCCCCHHHHHhhhhhc
Q 044254 216 HGIEVVSSPN----LKGIDEEEQKRWMELT 241 (312)
Q Consensus 216 HGIEvV~sPn----L~~~~e~d~kRW~ELT 241 (312)
|+.+|. +|+ |..=+++||.+|++-.
T Consensus 65 ~~F~I~-~~~ks~~l~A~s~~Ek~~Wi~~i 93 (99)
T cd01220 65 HCFTIF-GGQCAITVAASTRAEKEKWLADL 93 (99)
T ss_pred eeEEEE-cCCeEEEEECCCHHHHHHHHHHH
Confidence 555555 333 5666899999999743
No 6
>PF07755 DUF1611: Protein of unknown function (DUF1611); InterPro: IPR011669 This entry contains a number of hypothetical bacterial and archaeal proteins. The region is approximately 350 residues long. A member of this family (Q6M063 from SWISSPROT) is thought to associate with another subunit to form an H+-transporting ATPase, but no evidence has been found to support this.; PDB: 2G0T_A 2OBN_A.
Probab=21.50 E-value=52 Score=31.51 Aligned_cols=57 Identities=32% Similarity=0.400 Sum_probs=34.5
Q ss_pred cccccchhhhhhhhhhccCCCC------Ccccc----------ceeEee-CCCCCCCCHHHHHhhhhhcccccc
Q 044254 190 SVEKGFVRSHRMQRKHYRGLSN------PQCVH----------GIEVVS-SPNLKGIDEEEQKRWMELTGRDLN 246 (312)
Q Consensus 190 S~dkGFvRSHRMQRKHYRGLSN------PQCvH----------GIEvV~-sPnL~~~~e~d~kRW~ELTGRd~n 246 (312)
|...++|--|+.-|||++|+.+ ..||- .+.||. |=|-.++++++.++..+-.-++++
T Consensus 213 s~Pd~lVL~H~p~r~~~~~~p~~~ip~l~~~I~l~e~la~~~~~~~VvgIslNt~~l~~~e~~~~~~~~~~e~g 286 (301)
T PF07755_consen 213 SQPDALVLCHAPGRKHRDGFPHYPIPPLEEEIELIEALAGTKPPAKVVGISLNTSGLSEEEAKAAIERIEEELG 286 (301)
T ss_dssp H--SEEEEEEETT-SC-TTSTTSC---HHHHHHHHHHCCCGC---EEEEEECC-TTS-HHHHHHHHHHHHHHH-
T ss_pred CCCCeEEEEecCCcccccCCCcCCCCCHHHHHHHHHHhhccCCCccEEEEEEECCCCCHHHHHHHHHHHHHHHC
Confidence 4567889999999999999633 12222 222332 458889999999999887776653
No 7
>COG3531 Predicted protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]
Probab=20.96 E-value=37 Score=31.77 Aligned_cols=25 Identities=32% Similarity=0.578 Sum_probs=18.9
Q ss_pred chhhhhhhhhhccCCCCCccccceeEeeCCCCC
Q 044254 195 FVRSHRMQRKHYRGLSNPQCVHGIEVVSSPNLK 227 (312)
Q Consensus 195 FvRSHRMQRKHYRGLSNPQCvHGIEvV~sPnL~ 227 (312)
+---|+.||+|| +-|-.|+.+|=|.
T Consensus 108 l~ml~aIQrA~Y--------vEGrdi~~t~vl~ 132 (212)
T COG3531 108 LTMLHAIQRAHY--------VEGRDITQTEVLA 132 (212)
T ss_pred hHHHHHHHHHHH--------hccccchhhHHHH
Confidence 445699999999 5677777777663
No 8
>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=20.65 E-value=1.1e+02 Score=20.13 Aligned_cols=29 Identities=24% Similarity=0.493 Sum_probs=21.1
Q ss_pred ccccceeEeeCCC----CCCCCHHHHHhhhhhc
Q 044254 213 QCVHGIEVVSSPN----LKGIDEEEQKRWMELT 241 (312)
Q Consensus 213 QCvHGIEvV~sPn----L~~~~e~d~kRW~ELT 241 (312)
.+-++++|+...+ +..=+++|+..|++-.
T Consensus 65 ~~~~~f~l~~~~~~~~~f~~~s~~~~~~W~~~i 97 (102)
T smart00233 65 KKPHCFEIKTADRRSYLLQAESEEEREEWVDAL 97 (102)
T ss_pred CCceEEEEEecCCceEEEEcCCHHHHHHHHHHH
Confidence 3456777777666 5566899999999743
No 9
>cd01967 Nitrogenase_MoFe_alpha_like Nitrogenase_MoFe_alpha_like: Nitrogenase MoFe protein, alpha subunit_like. The nitrogenase enzyme catalyzes the ATP-dependent reduction of dinitrogen to ammonia. Three genetically distinct types of nitrogenase systems are known to exist: a molybdenum-dependent nitrogenase (Mo-nitrogenase), a vanadium dependent nitrogenase (V-nitrogenase), and an iron-only nitrogenase (Fe-nitrogenase). These nitrogenase systems consist of component 1 (MoFe protein, VFe protein or, FeFe protein respectively) and, component 2 (Fe protein). This group contains the alpha subunit of component 1 of all three different forms. The most widespread and best characterized of these systems is the Mo-nitrogenase. MoFe is an alpha2beta2 tetramer, the alternative nitrogenases are alpha2beta2delta2 hexamers having alpha and beta subunits similar to the alpha and beta subunits of MoFe. The role of the delta subunit is unknown. For MoFe, each alphabeta pair of subunits contains one
Probab=18.72 E-value=89 Score=28.96 Aligned_cols=52 Identities=17% Similarity=0.242 Sum_probs=41.1
Q ss_pred ceeEeeCCCCCCCCHHHHHhhhhhccccccccCCCCCcccccccCCCCCccccc
Q 044254 217 GIEVVSSPNLKGIDEEEQKRWMELTGRDLNFSVPPEASEFSSWRNLPNTEFELD 270 (312)
Q Consensus 217 GIEvV~sPnL~~~~e~d~kRW~ELTGRd~nFsiP~eAsdf~sWRnlPntefELe 270 (312)
-|-|+..-|+.+ +-+|.||..|..|-++|-.+| ...+++.++++|+.++-+-
T Consensus 162 ~VNiig~~~~~~-d~~el~~lL~~~Gi~~~~~~~-~~~~~~~i~~~~~A~~niv 213 (406)
T cd01967 162 DVNIIGEYNIGG-DAWVIKPLLEELGIRVNATFT-GDGTVDELRRAHRAKLNLV 213 (406)
T ss_pred eEEEEeccccch-hHHHHHHHHHHcCCEEEEEeC-CCCCHHHHhhCccCCEEEE
Confidence 366666555533 778999999999999997776 5778999999999987663
No 10
>PF06884 DUF1264: Protein of unknown function (DUF1264); InterPro: IPR010686 This family contains a number of bacterial and eukaryotic proteins of unknown function that are approximately 200 residues long. Some family members are annotated as putative lipoproteins.
Probab=18.32 E-value=48 Score=30.04 Aligned_cols=53 Identities=36% Similarity=0.544 Sum_probs=36.9
Q ss_pred hhhhhccCCCCC---ccc-----------cceeEeeCCCCC-CCCHHHHHhhh----h-hccccccccCCCCC
Q 044254 201 MQRKHYRGLSNP---QCV-----------HGIEVVSSPNLK-GIDEEEQKRWM----E-LTGRDLNFSVPPEA 253 (312)
Q Consensus 201 MQRKHYRGLSNP---QCv-----------HGIEvV~sPnL~-~~~e~d~kRW~----E-LTGRd~nFsiP~eA 253 (312)
|.--||-.-=|. ||+ =|||-+-|+.|. .|++||||-|- | ..|.=+.=.||..|
T Consensus 26 veahHyC~~vned~~QC~iyDs~~~~ArLIGvEYiISe~lf~tLP~eEkklWHsH~~EVkSG~L~~p~vP~~a 98 (171)
T PF06884_consen 26 VEAHHYCSHVNEDFRQCLIYDSNEPNARLIGVEYIISEKLFETLPEEEKKLWHSHVYEVKSGMLVMPGVPEAA 98 (171)
T ss_pred eeeeeeeeecCCcceEEEEecCCCCCcceeeeeEEEcHHHHhhCCHHHHhccCCcceeeeeeeEecCCCCHHH
Confidence 334577665554 785 599999999984 69999999994 3 34555555566554
Done!