Query psy1045
Match_columns 113
No_of_seqs 63 out of 65
Neff 3.0
Searched_HMMs 46136
Date Fri Aug 16 18:29:14 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy1045.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/1045hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 cd01231 PH_Lnk LNK-family Plec 100.0 3.1E-42 6.6E-47 249.8 5.3 78 36-113 1-82 (107)
2 PF00169 PH: PH domain; Inter 96.7 0.01 2.2E-07 36.8 6.4 70 34-112 1-76 (104)
3 smart00233 PH Pleckstrin homol 96.5 0.02 4.4E-07 34.4 6.4 70 35-112 2-74 (102)
4 cd00821 PH Pleckstrin homology 95.7 0.033 7.1E-07 33.2 4.8 54 52-112 14-70 (96)
5 cd00900 PH-like Pleckstrin hom 95.1 0.16 3.5E-06 30.4 6.5 68 37-111 2-70 (99)
6 cd01257 PH_IRS Insulin recepto 95.1 0.05 1.1E-06 38.2 4.8 54 34-95 2-62 (101)
7 cd01253 PH_beta_spectrin Beta- 92.1 0.76 1.6E-05 30.7 6.0 59 50-112 19-78 (104)
8 cd01266 PH_Gab Gab (Grb2-assoc 91.0 1.1 2.5E-05 30.6 6.2 45 51-95 16-63 (108)
9 KOG2550|consensus 90.2 0.095 2.1E-06 46.8 0.3 16 1-16 78-93 (503)
10 TIGR01303 IMP_DH_rel_1 IMP deh 87.1 0.21 4.6E-06 43.4 0.3 16 1-16 59-74 (475)
11 cd01235 PH_SETbf Set binding f 83.6 2.2 4.8E-05 27.8 3.8 42 51-94 12-53 (101)
12 cd01233 Unc104 Unc-104 pleckst 83.0 4.5 9.7E-05 27.4 5.3 48 35-90 3-50 (100)
13 cd01246 PH_oxysterol_bp Oxyste 79.0 11 0.00023 23.6 5.7 45 37-89 2-48 (91)
14 cd01219 PH_FGD FGD (faciogenit 63.2 25 0.00055 23.8 5.1 35 33-75 1-35 (101)
15 PTZ00314 inosine-5'-monophosph 57.2 3.9 8.4E-05 35.7 0.3 15 1-15 66-80 (495)
16 cd01250 PH_centaurin Centaurin 55.5 48 0.0011 20.6 5.3 34 51-88 13-48 (94)
17 cd01260 PH_CNK Connector enhan 53.6 60 0.0013 21.1 5.9 36 51-90 17-52 (96)
18 cd01241 PH_Akt Akt pleckstrin 49.7 80 0.0017 21.4 6.2 69 35-111 2-71 (102)
19 COG0516 GuaB IMP dehydrogenase 48.5 7 0.00015 29.0 0.4 14 1-14 63-76 (170)
20 PF00478 IMPDH: IMP dehydrogen 41.7 9.2 0.0002 32.7 0.2 16 1-16 53-68 (352)
21 cd01252 PH_cytohesin Cytohesin 32.1 1.7E+02 0.0037 20.2 5.7 47 36-90 2-48 (125)
22 cd01261 PH_SOS Son of Sevenles 30.6 88 0.0019 22.6 3.7 14 33-46 3-16 (112)
23 cd08344 MhqB_like_N N-terminal 30.2 59 0.0013 21.0 2.6 21 58-78 92-112 (112)
24 PRK07807 inosine 5-monophospha 28.8 21 0.00046 31.3 0.4 16 1-16 60-75 (479)
25 PF07776 zf-AD: Zinc-finger as 28.7 16 0.00034 21.8 -0.3 38 57-103 2-39 (75)
26 cd01236 PH_outspread Outspread 26.6 1.5E+02 0.0032 21.0 4.2 60 50-112 20-87 (104)
27 PF06590 PerB: PerB protein; 26.1 41 0.00089 25.3 1.4 13 67-79 38-50 (129)
28 cd01245 PH_RasGAP_CG5898 RAS G 23.8 1.1E+02 0.0023 21.5 3.1 44 51-95 13-56 (98)
29 PF15360 Apelin: APJ endogenou 22.5 51 0.0011 22.0 1.2 27 36-62 13-41 (55)
30 TIGR00068 glyox_I lactoylgluta 22.1 99 0.0022 21.3 2.7 27 55-81 121-147 (150)
31 PRK10291 glyoxalase I; Provisi 21.9 1.2E+02 0.0027 20.0 3.0 26 53-78 98-123 (129)
32 PRK07107 inosine 5-monophospha 21.6 35 0.00076 30.1 0.3 15 1-15 67-81 (502)
33 PF04283 CheF-arch: Chemotaxis 20.6 1.2E+02 0.0025 24.2 3.1 39 50-96 21-59 (221)
34 cd01264 PH_melted Melted pleck 20.4 1.3E+02 0.0029 21.3 3.0 46 67-112 28-84 (101)
No 1
>cd01231 PH_Lnk LNK-family Pleckstrin homology (PH) domain. LNK-family Pleckstrin homology (PH) domain. The Lnk family of proteins consists of Lnk, APS and SH2B. They are adaptor proteins consisting of a PH domain and an SH2 domain, which mediates signaling through growth factor receptors. PH domains share little sequence conservation, but all have a common fold, which is electrostatically polarized. PH domains also have diverse functions. The lnk family PH domain is likely involved in targeting of the adaptor proteins to the plasma membrane.
Probab=100.00 E-value=3.1e-42 Score=249.77 Aligned_cols=78 Identities=54% Similarity=0.893 Sum_probs=74.6
Q ss_pred EeeeeeeeccCC--CCCcccccceeeeEEEecCCeeeEEecC--CCCCCCcccccccceeehhccCCccCCCCCCeeEEe
Q psy1045 36 KEGIVNYLVGEN--TDGTQKWEKCRLALVKTVGGYMLEFYSP--PKSLKPKKGVFCFLITEARETSALEMPDHENTFVLK 111 (113)
Q Consensus 36 rEG~l~yl~~~~--~~~~~~WqkcRL~Lrk~~~g~~LEfy~P--PKsskPK~~i~Cs~I~EVR~tt~LEMPD~~nTFVLK 111 (113)
|||+|||+.+++ ++++++||||||+|+++.+||.||||.| |||||||++++||+|+|||+||+||||||+||||||
T Consensus 1 kEg~l~y~~~d~~~~~~~~~WqkcRl~L~~~~gg~~le~~~~~pPKssrpk~~v~C~~I~EvR~tt~LEmPD~~nTFvLK 80 (107)
T cd01231 1 KEGVLRYSLADEADMDSGARWQRGRLVLRKAVGGYMLEFYLPLPPKSSKPKLQVACSSISEVRECTRLEMPDNLYTFVLK 80 (107)
T ss_pred CchhhccccccccCCCCccccceeeEEEEecCCCceEEEEccCCCCCCCCccccchhhhhhhhhcccccccCcccEEEEE
Confidence 699999998876 7899999999999999999999999998 999999999999999999999999999999999999
Q ss_pred eC
Q psy1045 112 GR 113 (113)
Q Consensus 112 v~ 113 (113)
+.
T Consensus 81 ~~ 82 (107)
T cd01231 81 VD 82 (107)
T ss_pred ec
Confidence 83
No 2
>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=96.71 E-value=0.01 Score=36.81 Aligned_cols=70 Identities=24% Similarity=0.339 Sum_probs=55.8
Q ss_pred eeEeeeeeeeccCCCCCcccccceeeeEEEecCCeeeEEecCCC---CCCCcccccccceeehhccCCcc---CCCCCCe
Q psy1045 34 CRKEGIVNYLVGENTDGTQKWEKCRLALVKTVGGYMLEFYSPPK---SLKPKKGVFCFLITEARETSALE---MPDHENT 107 (113)
Q Consensus 34 ~~rEG~l~yl~~~~~~~~~~WqkcRL~Lrk~~~g~~LEfy~PPK---sskPK~~i~Cs~I~EVR~tt~LE---MPD~~nT 107 (113)
|++||.|.... .....|++.-.+|+. -.|-+|..++ ..+|+..|+...+ +|+.....+ -.+..|.
T Consensus 1 ~~~~G~L~~~~----~~~~~wk~r~~vL~~----~~L~~~~~~~~~~~~~~~~~i~l~~~-~v~~~~~~~~~~~~~~~~~ 71 (104)
T PF00169_consen 1 CIKEGWLLKKS----SSRKKWKKRYFVLRD----SYLLYYKSSKDKSDSKPKGSIPLDDC-TVRPDPSSDFLSNKKRKNC 71 (104)
T ss_dssp EEEEEEEEEEE----SSSSSEEEEEEEEET----TEEEEESSTTTTTESSESEEEEGTTE-EEEEETSSTSTSTSSSSSE
T ss_pred CEEEEEEEEEC----CCCCCeEEEEEEEEC----CEEEEEecCccccceeeeEEEEecCc-eEEEcCccccccccCCCcE
Confidence 57899998766 356789999888875 4466888888 7899999999999 888877664 6777888
Q ss_pred eEEee
Q psy1045 108 FVLKG 112 (113)
Q Consensus 108 FVLKv 112 (113)
|.|..
T Consensus 72 f~i~~ 76 (104)
T PF00169_consen 72 FEITT 76 (104)
T ss_dssp EEEEE
T ss_pred EEEEe
Confidence 88864
No 3
>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=96.46 E-value=0.02 Score=34.35 Aligned_cols=70 Identities=26% Similarity=0.359 Sum_probs=46.3
Q ss_pred eEeeeeeeeccCCCCCcccccceeeeEEEecCCeeeEEecCCCC---CCCcccccccceeehhccCCccCCCCCCeeEEe
Q psy1045 35 RKEGIVNYLVGENTDGTQKWEKCRLALVKTVGGYMLEFYSPPKS---LKPKKGVFCFLITEARETSALEMPDHENTFVLK 111 (113)
Q Consensus 35 ~rEG~l~yl~~~~~~~~~~WqkcRL~Lrk~~~g~~LEfy~PPKs---skPK~~i~Cs~I~EVR~tt~LEMPD~~nTFVLK 111 (113)
.+||.|...... +...|+++-++|.. ..|.+|.++.. ..|...|+...+ .|......+.....|+|.|+
T Consensus 2 ~~~G~l~~~~~~---~~~~~~~~~~~L~~----~~l~~~~~~~~~~~~~~~~~i~l~~~-~v~~~~~~~~~~~~~~f~l~ 73 (102)
T smart00233 2 IKEGWLYKKSGG---KKKSWKKRYFVLFN----STLLYYKSEKAKKDYKPKGSIDLSGI-TVREAPDPDSAKKPHCFEIK 73 (102)
T ss_pred ceeEEEEEeCCC---ccCCceEEEEEEEC----CEEEEEeCCCccccCCCceEEECCcC-EEEeCCCCccCCCceEEEEE
Confidence 478888876543 45689999999986 57778887766 355555555554 44444433334568889886
Q ss_pred e
Q psy1045 112 G 112 (113)
Q Consensus 112 v 112 (113)
.
T Consensus 74 ~ 74 (102)
T smart00233 74 T 74 (102)
T ss_pred e
Confidence 4
No 4
>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=95.72 E-value=0.033 Score=33.21 Aligned_cols=54 Identities=22% Similarity=0.380 Sum_probs=37.8
Q ss_pred ccccceeeeEEEecCCeeeEEecCCCC---CCCcccccccceeehhccCCccCCCCCCeeEEee
Q psy1045 52 QKWEKCRLALVKTVGGYMLEFYSPPKS---LKPKKGVFCFLITEARETSALEMPDHENTFVLKG 112 (113)
Q Consensus 52 ~~WqkcRL~Lrk~~~g~~LEfy~PPKs---skPK~~i~Cs~I~EVR~tt~LEMPD~~nTFVLKv 112 (113)
..|+++.++|. +..|.+|.++.. ..|+..++... .+|+.....+ +..++|.|+.
T Consensus 14 ~~w~~~~~~L~----~~~l~~~~~~~~~~~~~~~~~i~l~~-~~v~~~~~~~--~~~~~f~i~~ 70 (96)
T cd00821 14 KGWKRRWFVLF----NDLLLYYKKKSSKKSYKPKGSIPLSG-AEVEESPDDS--GRKNCFEIRT 70 (96)
T ss_pred CCccEEEEEEE----CCEEEEEECCCCCcCCCCcceEEcCC-CEEEECCCcC--CCCcEEEEec
Confidence 68999999998 346667777766 67777777777 5555543332 4578888864
No 5
>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=95.14 E-value=0.16 Score=30.42 Aligned_cols=68 Identities=19% Similarity=0.251 Sum_probs=45.7
Q ss_pred eeeeeeeccCCCCCcccccceeeeEEEecCCeeeEEecCCCCCCCc-ccccccceeehhccCCccCCCCCCeeEEe
Q psy1045 37 EGIVNYLVGENTDGTQKWEKCRLALVKTVGGYMLEFYSPPKSLKPK-KGVFCFLITEARETSALEMPDHENTFVLK 111 (113)
Q Consensus 37 EG~l~yl~~~~~~~~~~WqkcRL~Lrk~~~g~~LEfy~PPKsskPK-~~i~Cs~I~EVR~tt~LEMPD~~nTFVLK 111 (113)
+|.|.+.......+...|++..++|. +..|-+|+++...++. ..++...|. |....... +..++|.+.
T Consensus 2 ~g~l~~~~~~~~~~~~~w~~~~~~l~----~~~l~~~~~~~~~~~~~~~~~l~~~~-v~~~~~~~--~~~~~F~i~ 70 (99)
T cd00900 2 EGYLLKLGSDDVSKGKRWKRRWFFLF----DDGLLLYKSDDKKEIKPGSIPLSEIS-VEEDPDGS--DDPNCFAIV 70 (99)
T ss_pred ccEEEEeCCCccccccCceeeEEEEE----CCEEEEEEcCCCCcCCCCEEEccceE-EEECCCCC--CCCceEEEE
Confidence 57777776654335678999999997 3678899999888877 456655555 44432211 457888775
No 6
>cd01257 PH_IRS Insulin receptor substrate (IRS) pleckstrin homology (PH) domain. Insulin receptor substrate (IRS) pleckstrin homology (PH) domain. PH domains are only found in eukaryotes, and are often involved in targeting proteins to the plasma membrane via lipid binding. PH domains are found in cellular signaling proteins such as serine/threonine kinase, tyrosine kinsases, regulators of G-proteins, endocytotic GTPases, adaptors, a well as cytoskeletal associated molecules and in lipid associated enzymes. The IRS PH domain targets IRS molecules to the plasma membrane, usually in response to insulin stimulation.
Probab=95.14 E-value=0.05 Score=38.25 Aligned_cols=54 Identities=22% Similarity=0.232 Sum_probs=42.1
Q ss_pred eeEeeeeeeeccCCCCCcccccceeeeEEEecCC--eeeEEecCCCC-----CCCcccccccceeehhc
Q psy1045 34 CRKEGIVNYLVGENTDGTQKWEKCRLALVKTVGG--YMLEFYSPPKS-----LKPKKGVFCFLITEARE 95 (113)
Q Consensus 34 ~~rEG~l~yl~~~~~~~~~~WqkcRL~Lrk~~~g--~~LEfy~PPKs-----skPK~~i~Cs~I~EVR~ 95 (113)
++++|-|.=. ..|.|+=.+|++..++ +.||.|.+-|. ++|+=.|+..++..|..
T Consensus 2 v~k~GyL~K~--------K~~kkRwFVLr~~~~~~p~~Leyyk~ek~~~~~~~~p~~vI~L~~c~~v~~ 62 (101)
T cd01257 2 VRKSGYLRKQ--------KSMHKRFFVLRAESSGGPARLEYYENEKKFLQKGSAPKRVIPLESCFNINK 62 (101)
T ss_pred ccEEEEEeEe--------cCcEeEEEEEecCCCCCCceEEEECChhhccccCCCceEEEEccceEEEee
Confidence 5677776532 6899999999977543 89999999874 78999998888877743
No 7
>cd01253 PH_beta_spectrin Beta-spectrin pleckstrin homology (PH) domain. Beta-spectrin pleckstrin homology (PH) domain. Beta spectrin binds actin and functions as a major component of the cytoskeleton underlying cellular membranes. Beta spectrin consists of multiple spectrin repeats followed by a PH domain, which binds to Inositol-1,4,5-Trisphosphate. PH domains share little sequence conservation, but all have a common fold, which is electrostatically polarized. PH domains also have diverse functions. PH domains are often involved in targeting proteins to the plasma membrane via lipid binding. 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=92.07 E-value=0.76 Score=30.66 Aligned_cols=59 Identities=20% Similarity=0.255 Sum_probs=33.3
Q ss_pred CcccccceeeeEEEecCCeeeEEecCCCCCCCc-ccccccceeehhccCCccCCCCCCeeEEee
Q psy1045 50 GTQKWEKCRLALVKTVGGYMLEFYSPPKSLKPK-KGVFCFLITEARETSALEMPDHENTFVLKG 112 (113)
Q Consensus 50 ~~~~WqkcRL~Lrk~~~g~~LEfy~PPKsskPK-~~i~Cs~I~EVR~tt~LEMPD~~nTFVLKv 112 (113)
+...|+++-.+|+. ..|-||..++....+ .+++..+|..+.-.-..+.+.+.|+|-|+.
T Consensus 19 ~~~~Wk~r~~vL~~----~~L~~ykd~~~~~~~~~~~~~i~l~~~~i~~~~~~~k~~~~F~l~~ 78 (104)
T cd01253 19 SNRSWDNVYGVLCG----QSLSFYKDEKMAAENVHGEPPVDLTGAQCEVASDYTKKKHVFRLRL 78 (104)
T ss_pred CCCCcceEEEEEeC----CEEEEEecCcccccCCCCCCcEeccCCEEEecCCcccCceEEEEEe
Confidence 46789999999974 578999887754222 233322332221111122334468887763
No 8
>cd01266 PH_Gab Gab (Grb2-associated binder) pleckstrin homology (PH) domain. Gab (Grb2-associated binder) pleckstrin homology (PH) domain. The Gab subfamily includes several Gab proteins, Drosophila DOS and C. elegans SOC-1. They are scaffolding adaptor proteins, which possess N-terminal PH domains and a C-terminus with proline-rich regions and multiple phosphorylation sites. Following activation of growth factor receptors, Gab proteins are tyrosine phosphorylated and activate PI3K, which generates 3-phosphoinositide lipids. By binding to these lipids via the PH domain, Gab proteins remain in proximity to the receptor, leading to further signaling. While not all Gab proteins depend on the PH domain for recruitment, it is required for Gab activity. 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 str
Probab=91.02 E-value=1.1 Score=30.60 Aligned_cols=45 Identities=16% Similarity=0.191 Sum_probs=38.2
Q ss_pred cccccceeeeEEEec---CCeeeEEecCCCCCCCcccccccceeehhc
Q psy1045 51 TQKWEKCRLALVKTV---GGYMLEFYSPPKSLKPKKGVFCFLITEARE 95 (113)
Q Consensus 51 ~~~WqkcRL~Lrk~~---~g~~LEfy~PPKsskPK~~i~Cs~I~EVR~ 95 (113)
...|.+.-.+|+... +.+.|+.|.-++.++|+=.|..+.+.+|..
T Consensus 16 ~~~WkrRwFvL~~~~l~~~~~~L~Yyk~~~~~k~~g~I~L~~~~~v~~ 63 (108)
T cd01266 16 RTKWVRRYFVLHCGDRERNLFALEYYKTSRKFKLEFVIDLESCSQVDP 63 (108)
T ss_pred ccCcEEEEEEEeccccCCCcceEEEECCCCCCccceEEECCccEEEcc
Confidence 468999999999652 458999999999999999999999887743
No 9
>KOG2550|consensus
Probab=90.20 E-value=0.095 Score=46.81 Aligned_cols=16 Identities=75% Similarity=1.014 Sum_probs=14.6
Q ss_pred Chhhhhhhcccccccc
Q psy1045 1 MAIAMALCGGIGRIKN 16 (113)
Q Consensus 1 ~~~~~~~~~~~~~~~~ 16 (113)
|||||||+||||-|..
T Consensus 78 MAiaMAl~ggIg~IHh 93 (503)
T KOG2550|consen 78 MAIAMALLGGIGFIHH 93 (503)
T ss_pred HHHHHHhcCCceeeec
Confidence 8999999999999864
No 10
>TIGR01303 IMP_DH_rel_1 IMP dehydrogenase family protein. This model represents a family of proteins, often annotated as a putative IMP dehydrogenase, related to IMP dehydrogenase and GMP reductase and restricted to the high GC Gram-positive bacteria. All species in which a member is found so far (Corynebacterium glutamicum, Mycobacterium tuberculosis, Streptomyces coelicolor, etc.) also have IMP dehydrogenase as described by TIGRFAMs entry TIGR01302.
Probab=87.07 E-value=0.21 Score=43.43 Aligned_cols=16 Identities=38% Similarity=0.389 Sum_probs=14.8
Q ss_pred Chhhhhhhcccccccc
Q psy1045 1 MAIAMALCGGIGRIKN 16 (113)
Q Consensus 1 ~~~~~~~~~~~~~~~~ 16 (113)
||||||.|||||-|.+
T Consensus 59 MAi~~A~~GGigvIh~ 74 (475)
T TIGR01303 59 MAETVARRGGIVILPQ 74 (475)
T ss_pred HHHHHHHCCCEEEEeC
Confidence 8999999999999875
No 11
>cd01235 PH_SETbf Set binding factor Pleckstrin Homology (PH) domain. Set binding factor Pleckstrin Homology (PH) domain. Set binding factor is a myotubularin-related pseudo-phosphatase consisting of a Denn domain, a Gram domain, an inactive phosphatase domain, a SID motif and a C-terminal PH domain. Its PH domain is predicted to bind lipids based upon its ability to respond to phosphatidylinositol 3-kinase .
Probab=83.55 E-value=2.2 Score=27.81 Aligned_cols=42 Identities=12% Similarity=0.138 Sum_probs=33.6
Q ss_pred cccccceeeeEEEecCCeeeEEecCCCCCCCcccccccceeehh
Q psy1045 51 TQKWEKCRLALVKTVGGYMLEFYSPPKSLKPKKGVFCFLITEAR 94 (113)
Q Consensus 51 ~~~WqkcRL~Lrk~~~g~~LEfy~PPKsskPK~~i~Cs~I~EVR 94 (113)
...|.+.-.+|... +..|..|..++.++|+=.|....+..|-
T Consensus 12 ~k~WkkRwFvL~~~--~~~L~Yy~~~~~~~~~g~I~L~~~~~v~ 53 (101)
T cd01235 12 LKGWKPRWFVLDPD--KHQLRYYDDFEDTAEKGCIDLAEVKSVN 53 (101)
T ss_pred CCCccceEEEEECC--CCEEEEecCCCCCccceEEEcceeEEEe
Confidence 46899988888753 4589999999999999888888766554
No 12
>cd01233 Unc104 Unc-104 pleckstrin homology (PH) domain. Unc-104 pleckstrin homology (PH) domain. Unc-104 is a kinesin-like protein containing an N-terminal kinesin catalytic domain, followed by a forkhead associated domain with a C-terminal PH domain. These proteins are responsible for the transport of membrane vesicles along microtubules. The mechanism involves the binding of the PH domain to phosphatidiylinositol (4,5) P2-containing liposomes.
Probab=82.98 E-value=4.5 Score=27.36 Aligned_cols=48 Identities=15% Similarity=0.214 Sum_probs=36.2
Q ss_pred eEeeeeeeeccCCCCCcccccceeeeEEEecCCeeeEEecCCCCCCCcccccccce
Q psy1045 35 RKEGIVNYLVGENTDGTQKWEKCRLALVKTVGGYMLEFYSPPKSLKPKKGVFCFLI 90 (113)
Q Consensus 35 ~rEG~l~yl~~~~~~~~~~WqkcRL~Lrk~~~g~~LEfy~PPKsskPK~~i~Cs~I 90 (113)
.|+|.|.--.+ ....|.++-.+|+. -.|..|-..+...|+-.|....+
T Consensus 3 ~k~G~L~Kkg~----~~k~WkkRwfvL~~----~~L~yyk~~~~~~~~~~I~L~~~ 50 (100)
T cd01233 3 SKKGYLNFPEE----TNSGWTRRFVVVRR----PYLHIYRSDKDPVERGVINLSTA 50 (100)
T ss_pred ceeEEEEeeCC----CCCCcEEEEEEEEC----CEEEEEccCCCccEeeEEEeccc
Confidence 47777754333 23679999999986 47888888888899988887755
No 13
>cd01246 PH_oxysterol_bp Oxysterol binding protein (OSBP) Pleckstrin homology (PH) domain. Oxysterol binding protein (OSBP) Pleckstrin homology (PH) domain. Oxysterol binding proteins are a multigene family that is conserved in yeast, flies, worms, mammals and plants. They all contain a C-terminal oxysterol binding domain, and most contain an N-terminal PH domain. OSBP PH domains bind to membrane phosphoinositides and thus likely play an important role in intracellular targeting. PH domains share little sequence conservation, but all have a common fold, which is electrostatically polarized. PH domains also have diverse functions. They are often involved in targeting proteins to the plasma membrane, but few display strong specificity in lipid binding. Any specificity is usually determined by loop regions or insertions in the N-terminus of the domain, which are not conserved across all PH domains.
Probab=79.02 E-value=11 Score=23.57 Aligned_cols=45 Identities=22% Similarity=0.343 Sum_probs=30.3
Q ss_pred eeeeeeeccCCCCCcccccceeeeEEEecCCeeeEEecCCCCC--CCcccccccc
Q psy1045 37 EGIVNYLVGENTDGTQKWEKCRLALVKTVGGYMLEFYSPPKSL--KPKKGVFCFL 89 (113)
Q Consensus 37 EG~l~yl~~~~~~~~~~WqkcRL~Lrk~~~g~~LEfy~PPKss--kPK~~i~Cs~ 89 (113)
||.|....+ ....|+++-.+|+ +-.|-+|..++.+ .|+-.|....
T Consensus 2 ~G~L~k~~~----~~~~W~~r~~vl~----~~~L~~~~~~~~~~~~~~~~i~l~~ 48 (91)
T cd01246 2 EGWLLKWTN----YLKGWQKRWFVLD----NGLLSYYKNKSSMRGKPRGTILLSG 48 (91)
T ss_pred eEEEEEecc----cCCCceeeEEEEE----CCEEEEEecCccCCCCceEEEEece
Confidence 566655543 2367999888886 4577788888766 7776665554
No 14
>cd01219 PH_FGD FGD (faciogenital dysplasia protein) pleckstrin homology (PH) domain. FGD (faciogenital dysplasia protein) pleckstrin homology (PH) domain. FGD has a RhoGEF (DH) domain, followed by a PH domain, a FYVE domain and a C-terminal PH domain. FGD is a guanine nucleotide exchange factor that activates the Rho GTPase Cdc42. 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=63.17 E-value=25 Score=23.83 Aligned_cols=35 Identities=34% Similarity=0.368 Sum_probs=23.2
Q ss_pred eeeEeeeeeeeccCCCCCcccccceeeeEEEecCCeeeEEecC
Q psy1045 33 ECRKEGIVNYLVGENTDGTQKWEKCRLALVKTVGGYMLEFYSP 75 (113)
Q Consensus 33 e~~rEG~l~yl~~~~~~~~~~WqkcRL~Lrk~~~g~~LEfy~P 75 (113)
|+++||.|.-+... ...|+.-.+.|.. + +|=.+.|
T Consensus 1 e~ikeG~L~K~~~~----~~~~k~RyffLFn---d-~Ll~~~~ 35 (101)
T cd01219 1 ELLKEGSVLKISST----TEKTEERYLFLFN---D-LLLYCVP 35 (101)
T ss_pred CcccceEEEEEecC----CCCceeEEEEEeC---C-EEEEEEc
Confidence 67899999766553 3568887777765 3 4445553
No 15
>PTZ00314 inosine-5'-monophosphate dehydrogenase; Provisional
Probab=57.22 E-value=3.9 Score=35.74 Aligned_cols=15 Identities=80% Similarity=1.094 Sum_probs=13.9
Q ss_pred Chhhhhhhccccccc
Q psy1045 1 MAIAMALCGGIGRIK 15 (113)
Q Consensus 1 ~~~~~~~~~~~~~~~ 15 (113)
||||||..||+|-|-
T Consensus 66 ma~a~a~~GglGvi~ 80 (495)
T PTZ00314 66 MAIAMALMGGIGVIH 80 (495)
T ss_pred HHHHHHHCCCeEEec
Confidence 799999999999984
No 16
>cd01250 PH_centaurin Centaurin Pleckstrin homology (PH) domain. Centaurin Pleckstrin homology (PH) domain. Centaurin beta and gamma consist of a PH domain, an ArfGAP domain and three ankyrin repeats. Centaurain gamma also has an N-terminal Ras homology domain. Centaurin alpha has a different domain architecture and its PH domain is in a different subfamily. Centaurin can bind to phosphatidlyinositol (3,4,5)P3. PH domains share little sequence conservation, but all have a common fold, which is electrostatically polarized. PH domains also have diverse functions. They are often involved in targeting proteins to the plasma membrane, but few display strong specificity in lipid binding. Any specificity is usually determined by loop regions or insertions in the N-terminus of the domain, which are not conserved across all PH domains.
Probab=55.54 E-value=48 Score=20.64 Aligned_cols=34 Identities=21% Similarity=0.246 Sum_probs=19.9
Q ss_pred cccccceeeeEEEecCCeeeEEecCCCC--CCCccccccc
Q psy1045 51 TQKWEKCRLALVKTVGGYMLEFYSPPKS--LKPKKGVFCF 88 (113)
Q Consensus 51 ~~~WqkcRL~Lrk~~~g~~LEfy~PPKs--skPK~~i~Cs 88 (113)
...|+++-.+|+ ++. |-+|..+.. ..|...|...
T Consensus 13 ~~~W~kr~~~L~---~~~-l~~y~~~~~~~~~~~~~i~l~ 48 (94)
T cd01250 13 NKEWKKRWFVLK---NGQ-LTYHHRLKDYDNAHVKEIDLR 48 (94)
T ss_pred CCCceEEEEEEe---CCe-EEEEcCCcccccccceEEecc
Confidence 457988888886 333 445655443 4565555543
No 17
>cd01260 PH_CNK Connector enhancer of KSR (Kinase suppressor of ras) (CNK) pleckstrin homology (PH) domain. Connector enhancer of KSR (Kinase suppressor of ras) (CNK) pleckstrin homology (PH) domain. CNK is believed to regulate the activity and the subcellular localization of RAS activated RAF. CNK is composed of N-terminal SAM and PDZ domains along with a central or C-terminal PH 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, a well as cytoskelet
Probab=53.60 E-value=60 Score=21.11 Aligned_cols=36 Identities=22% Similarity=0.296 Sum_probs=28.7
Q ss_pred cccccceeeeEEEecCCeeeEEecCCCCCCCcccccccce
Q psy1045 51 TQKWEKCRLALVKTVGGYMLEFYSPPKSLKPKKGVFCFLI 90 (113)
Q Consensus 51 ~~~WqkcRL~Lrk~~~g~~LEfy~PPKsskPK~~i~Cs~I 90 (113)
...|++.=.+|+. -.|-+|..++.++|+-.|+....
T Consensus 17 ~k~WkkrwfvL~~----~~L~yyk~~~~~~~~~~I~L~~~ 52 (96)
T cd01260 17 GQKWARRWFVLKG----TTLYWYRSKQDEKAEGLIFLSGF 52 (96)
T ss_pred ccCceeEEEEEEC----CEEEEECCCCCCccceEEEccCC
Confidence 4589998888873 57889999988999988876653
No 18
>cd01241 PH_Akt Akt pleckstrin homology (PH) domain. Akt pleckstrin homology (PH) domain. Akt (Protein Kinase B (PKB)) is a phosphatidylinositol 3'-kinase (PI3K)-dependent Ser/Thr kinase. The PH domain recruits Akt to the plasma membrane by binding to phosphoinositides (PtdIns-3,4-P2) and is required for activation. PH domains share little sequence conservation, but all have a common fold, which is electrostatically polarized. PH domains also have diverse functions. They are often involved in targeting proteins to the plasma membrane, but few display strong specificity in lipid binding. Any specificity is usually determined by loop regions or insertions in the N-terminus of the domain, which are not conserved across all PH domains.
Probab=49.75 E-value=80 Score=21.41 Aligned_cols=69 Identities=16% Similarity=0.144 Sum_probs=39.9
Q ss_pred eEeeeeeeeccCCCCCcccccceeeeEEEecCCeeeEEecCCCCCCCcccccccceeehhccCCccCCCC-CCeeEEe
Q psy1045 35 RKEGIVNYLVGENTDGTQKWEKCRLALVKTVGGYMLEFYSPPKSLKPKKGVFCFLITEARETSALEMPDH-ENTFVLK 111 (113)
Q Consensus 35 ~rEG~l~yl~~~~~~~~~~WqkcRL~Lrk~~~g~~LEfy~PPKsskPK~~i~Cs~I~EVR~tt~LEMPD~-~nTFVLK 111 (113)
++||.|.=-.+ .-..|.++-.+|+. +|.++=+++-|+ +.++..++... ..|+.|+..+..++ .|.|-+.
T Consensus 2 ~k~G~L~K~g~----~~~~Wk~R~f~L~~--~~~l~~yk~~~~-~~~~~~i~l~~-~~v~~~~~~~~~~~~~~~F~i~ 71 (102)
T cd01241 2 VKEGWLHKRGE----YIKTWRPRYFLLKS--DGSFIGYKEKPE-DGDPFLPPLNN-FSVAECQLMKTERPRPNTFIIR 71 (102)
T ss_pred cEEEEEEeecC----CCCCCeeEEEEEeC--CCeEEEEecCCC-ccCccccccCC-eEEeeeeeeeccCCCcceEEEE
Confidence 47777753322 35689888888874 244555667664 34444555444 35666665444333 4777664
No 19
>COG0516 GuaB IMP dehydrogenase/GMP reductase [Nucleotide transport and metabolism]
Probab=48.46 E-value=7 Score=29.04 Aligned_cols=14 Identities=71% Similarity=0.921 Sum_probs=12.4
Q ss_pred Chhhhhhhcccccc
Q psy1045 1 MAIAMALCGGIGRI 14 (113)
Q Consensus 1 ~~~~~~~~~~~~~~ 14 (113)
||||||-=||||-|
T Consensus 63 mAi~ma~~GGIGVi 76 (170)
T COG0516 63 MAIAMARDGGIGVM 76 (170)
T ss_pred HhHHHHHcCCeEEE
Confidence 78999999999944
No 20
>PF00478 IMPDH: IMP dehydrogenase / GMP reductase domain; InterPro: IPR001093 Synonym(s): Inosine-5'-monophosphate dehydrogenase, Inosinic acid dehydrogenase; Synonym(s): Guanosine 5'-monophosphate oxidoreductase This entry contains two related enzymes IMP dehydrogenase and GMP reducatase. These enzymes adopt a TIM barrel structure. IMP dehydrogenase (1.1.1.205 from EC) (IMPDH) catalyzes the rate-limiting reaction of de novo GTP biosynthesis, the NAD-dependent reduction of IMP into XMP []. Inosine 5-phosphate + NAD+ + H2O = xanthosine 5-phosphate + NADH IMP dehydrogenase is associated with cell proliferation and is a possible target for cancer chemotherapy. Mammalian and bacterial IMPDHs are tetramers of identical chains. There are two IMP dehydrogenase isozymes in humans []. IMP dehydrogenase nearly always contains a long insertion that has two CBS domains within it. GMP reductase (1.7.1.7 from EC) catalyzes the irreversible and NADPH-dependent reductive deamination of GMP into IMP []. NADPH + guanosine 5-phosphate = NADP+ + inosine 5-phosphate + NH3 It converts nucleobase, nucleoside and nucleotide derivatives of G to A nucleotides, and maintains intracellular balance of A and G nucleotides.; GO: 0003824 catalytic activity, 0055114 oxidation-reduction process; PDB: 3FFS_D 1VRD_A 1JCN_B 1EEP_B 3TSB_B 3USB_B 3TSD_A 4FF0_A 4FEZ_A 3KHJ_D ....
Probab=41.70 E-value=9.2 Score=32.67 Aligned_cols=16 Identities=63% Similarity=0.866 Sum_probs=14.3
Q ss_pred Chhhhhhhcccccccc
Q psy1045 1 MAIAMALCGGIGRIKN 16 (113)
Q Consensus 1 ~~~~~~~~~~~~~~~~ 16 (113)
||||||..||+|-|-.
T Consensus 53 mAiama~~Gglgvih~ 68 (352)
T PF00478_consen 53 MAIAMARLGGLGVIHR 68 (352)
T ss_dssp HHHHHHHTTSEEEEES
T ss_pred HHHHHHHhcCCceecC
Confidence 7999999999998754
No 21
>cd01252 PH_cytohesin Cytohesin Pleckstrin homology (PH) domain. Cytohesin Pleckstrin homology (PH) domain. Cytohesin is an ARF-Guanine nucleotide Exchange Factor (GEF), which has a Sec7-type Arf-GEFdomain and a pleckstrin homology domain. It specifically binds phosphatidylinositol-3,4,5-trisphosphate (PtdIns(3,4, 5)P3) via its PH domain and it acts as a PI 3-kinase effector mediating biological responses such as cell adhesion and membrane trafficking. 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.
Probab=32.14 E-value=1.7e+02 Score=20.16 Aligned_cols=47 Identities=15% Similarity=0.249 Sum_probs=34.2
Q ss_pred EeeeeeeeccCCCCCcccccceeeeEEEecCCeeeEEecCCCCCCCcccccccce
Q psy1045 36 KEGIVNYLVGENTDGTQKWEKCRLALVKTVGGYMLEFYSPPKSLKPKKGVFCFLI 90 (113)
Q Consensus 36 rEG~l~yl~~~~~~~~~~WqkcRL~Lrk~~~g~~LEfy~PPKsskPK~~i~Cs~I 90 (113)
|||.|.--.+ .-..|++.-.+|.. ..|-+|.-++..+|+-.|+...+
T Consensus 2 k~G~L~K~~~----~~~~WkkRwfvL~~----~~L~yyk~~~~~~~~g~I~L~~~ 48 (125)
T cd01252 2 REGWLLKQGG----RVKTWKRRWFILTD----NCLYYFEYTTDKEPRGIIPLENV 48 (125)
T ss_pred cEEEEEEeCC----CCCCeEeEEEEEEC----CEEEEEcCCCCCCceEEEECCCc
Confidence 5676653322 23679998888863 46899998888999998888753
No 22
>cd01261 PH_SOS Son of Sevenless (SOS) Pleckstrin homology (PH) domain. Son of Sevenless (SOS) Pleckstrin homology (PH) domain. SOS is a Ras guanine nucleotide exchange factor. It has a RhoGEF (DbH) domain, a PH domain, and a RasGEF domain. The SOS PH domain can bind to inositol 1,4,5-triphosphate. PH domains share little sequence conservation, but all have a common fold, which is electrostatically polarized. PH domains also have diverse functions. They are often involved in targeting proteins to the plasma membrane, but few display strong specificity in lipid binding. Any specificity is usually determined by loop regions or insertions in the N-terminus of the domain, which are not conserved across all PH domains.
Probab=30.64 E-value=88 Score=22.56 Aligned_cols=14 Identities=21% Similarity=0.150 Sum_probs=10.9
Q ss_pred eeeEeeeeeeeccC
Q psy1045 33 ECRKEGIVNYLVGE 46 (113)
Q Consensus 33 e~~rEG~l~yl~~~ 46 (113)
|+++||.|.-+...
T Consensus 3 elI~EG~L~ki~~~ 16 (112)
T cd01261 3 EFIMEGTLTRVGPS 16 (112)
T ss_pred cccccCcEEEEecc
Confidence 78899999877643
No 23
>cd08344 MhqB_like_N N-terminal domain of MhqB, a type I extradiol dioxygenase, and similar proteins. This subfamily contains the N-terminal, non-catalytic, domain of Burkholderia sp. NF100 MhqB and similar proteins. MhqB is a type I extradiol dioxygenase involved in the catabolism of methylhydroquinone, an intermediate in the degradation of fenitrothion. The purified enzyme has shown extradiol ring cleavage activity toward 3-methylcatechol. Fe2+ was suggested as a cofactor, the same as most other enzymes in the family. Burkholderia sp. NF100 MhqB is encoded on the plasmid pNF1. The type I family of extradiol dioxygenases contains two structurally homologous barrel-shaped domains at the N- and C-terminal. The active-site metal is located in the C-terminal barrel and plays an essential role in the catalytic mechanism.
Probab=30.23 E-value=59 Score=21.01 Aligned_cols=21 Identities=19% Similarity=0.188 Sum_probs=16.6
Q ss_pred eeeEEEecCCeeeEEecCCCC
Q psy1045 58 RLALVKTVGGYMLEFYSPPKS 78 (113)
Q Consensus 58 RL~Lrk~~~g~~LEfy~PPKs 78 (113)
+.+-.....|..+||+.++||
T Consensus 92 ~~~~~~DP~Gn~iel~~~~~~ 112 (112)
T cd08344 92 DGVWFRDPDGNLLQVKVAEKS 112 (112)
T ss_pred CEEEEECCCCCEEEEecCCCC
Confidence 345566678999999999986
No 24
>PRK07807 inosine 5-monophosphate dehydrogenase; Validated
Probab=28.81 E-value=21 Score=31.26 Aligned_cols=16 Identities=31% Similarity=0.372 Sum_probs=14.6
Q ss_pred Chhhhhhhcccccccc
Q psy1045 1 MAIAMALCGGIGRIKN 16 (113)
Q Consensus 1 ~~~~~~~~~~~~~~~~ 16 (113)
|||+||..||||-|..
T Consensus 60 MAiaLAr~GGiGvih~ 75 (479)
T PRK07807 60 MAETVARRGGLVVLPQ 75 (479)
T ss_pred HHHHHHHCCCceEeeC
Confidence 7999999999999874
No 25
>PF07776 zf-AD: Zinc-finger associated domain (zf-AD) ; InterPro: IPR012934 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. The zf-AD domain, also known as ZAD, forms an atypical treble-cleft-like zinc co-ordinating fold. The zf-AD domain is thought to be involved in mediating dimer formation, but does not bind to DNA []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding, 0005634 nucleus; PDB: 1PZW_A.
Probab=28.69 E-value=16 Score=21.76 Aligned_cols=38 Identities=16% Similarity=0.379 Sum_probs=16.4
Q ss_pred eeeeEEEecCCeeeEEecCCCCCCCcccccccceeehhccCCccCCC
Q psy1045 57 CRLALVKTVGGYMLEFYSPPKSLKPKKGVFCFLITEARETSALEMPD 103 (113)
Q Consensus 57 cRL~Lrk~~~g~~LEfy~PPKsskPK~~i~Cs~I~EVR~tt~LEMPD 103 (113)
||+++ ....+-...+|....+. .....+..++.+++.+
T Consensus 2 CRlCl-~~~~~~~~~i~~~~~~~--------~l~~~i~~~~~~~i~~ 39 (75)
T PF07776_consen 2 CRLCL-SESNENLVSIFDSSEES--------SLAEMIEECTGIQISP 39 (75)
T ss_dssp -TTT----SSTTEEESS-SS-S---------SHHHHHHHH-SS---S
T ss_pred cccCC-CCCCCCcccCcCCcchh--------HHHHHHHHHhCCcCcC
Confidence 88888 44455666777766443 4445555556665543
No 26
>cd01236 PH_outspread Outspread Pleckstrin homology (PH) domain. Outspread Pleckstrin homology (PH) domain. Outspread contains two PH domains and a C-terminal coiled-coil region. 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, a well as cytoskeletal associated molecules and in lipid associated enzymes.
Probab=26.62 E-value=1.5e+02 Score=20.96 Aligned_cols=60 Identities=10% Similarity=0.218 Sum_probs=37.0
Q ss_pred CcccccceeeeEEEecCCeeeEEe-cCCCCCCCcccccccceeehhccC-------CccCCCCCCeeEEee
Q psy1045 50 GTQKWEKCRLALVKTVGGYMLEFY-SPPKSLKPKKGVFCFLITEARETS-------ALEMPDHENTFVLKG 112 (113)
Q Consensus 50 ~~~~WqkcRL~Lrk~~~g~~LEfy-~PPKsskPK~~i~Cs~I~EVR~tt-------~LEMPD~~nTFVLKv 112 (113)
.-..|+|==.+|+. +..|.+| +.|..++|+=.|+.+...+|.... .+++--++.||.|+.
T Consensus 20 ~~K~WkrRWFvL~~---~~~L~y~~d~~~~~~p~G~IdL~~~~~V~~~~~~~~~~~~f~I~tp~R~f~l~A 87 (104)
T cd01236 20 RSKRWQRRWFILYD---HGLLTYALDEMPTTLPQGTIDMNQCTDVVDAEARTGQKFSICILTPDKEHFIKA 87 (104)
T ss_pred eeccccceEEEEeC---CCEEEEeeCCCCCcccceEEEccceEEEeecccccCCccEEEEECCCceEEEEe
Confidence 35678664466663 3467777 444568999888888888877432 244444445555543
No 27
>PF06590 PerB: PerB protein; InterPro: IPR009513 This family consists of several PerB or BfpV proteins found specifically in Escherichia coli. PerB is thought to play a role in regulating the expression of BfpA [].
Probab=26.12 E-value=41 Score=25.25 Aligned_cols=13 Identities=31% Similarity=0.738 Sum_probs=11.1
Q ss_pred CeeeEEecCCCCC
Q psy1045 67 GYMLEFYSPPKSL 79 (113)
Q Consensus 67 g~~LEfy~PPKss 79 (113)
.-++-||.|||+|
T Consensus 38 seiiv~fippkas 50 (129)
T PF06590_consen 38 SEIIVFFIPPKAS 50 (129)
T ss_pred ceEEEEEeCCCCc
Confidence 4677899999998
No 28
>cd01245 PH_RasGAP_CG5898 RAS GTPase-activating protein (GAP) CG5898 Pleckstrin homology (PH) domain. RAS GTPase-activating protein (GAP) CG5898 Pleckstrin homology (PH) domain. This protein has a domain architecture of SH2-SH3-SH2-PH-C2-Ras_GAP. 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, a well as cytoskeletal associated molecules and in lipid associated enzymes.
Probab=23.81 E-value=1.1e+02 Score=21.53 Aligned_cols=44 Identities=20% Similarity=0.112 Sum_probs=31.8
Q ss_pred cccccceeeeEEEecCCeeeEEecCCCCCCCcccccccceeehhc
Q psy1045 51 TQKWEKCRLALVKTVGGYMLEFYSPPKSLKPKKGVFCFLITEARE 95 (113)
Q Consensus 51 ~~~WqkcRL~Lrk~~~g~~LEfy~PPKsskPK~~i~Cs~I~EVR~ 95 (113)
...|.+-...|...+..-.|-+|.++++.+|+--|+...+ .||.
T Consensus 13 ~K~wK~rwF~l~~~~s~~~l~yf~~~~~~~p~gli~l~~~-~V~~ 56 (98)
T cd01245 13 TKLWKTLYFALILDGSRSHESLLSSPKKTKPIGLIDLSDA-YLYP 56 (98)
T ss_pred ccccceeEEEEecCCCCceEEEEcCCCCCCccceeecccc-EEEE
Confidence 5678887788864445688889999999999866555544 4444
No 29
>PF15360 Apelin: APJ endogenous ligand
Probab=22.50 E-value=51 Score=21.98 Aligned_cols=27 Identities=30% Similarity=0.463 Sum_probs=19.3
Q ss_pred EeeeeeeeccCCC--CCcccccceeeeEE
Q psy1045 36 KEGIVNYLVGENT--DGTQKWEKCRLALV 62 (113)
Q Consensus 36 rEG~l~yl~~~~~--~~~~~WqkcRL~Lr 62 (113)
.||.++||+.... .+...||..|--.|
T Consensus 13 EEg~vr~lvqp~~~R~g~g~~qgg~rkfR 41 (55)
T PF15360_consen 13 EEGNVRHLVQPRGSRNGPGPWQGGRRKFR 41 (55)
T ss_pred ccccceeeccccCCCCCCCCCccchhhhh
Confidence 6899999977544 46678887764433
No 30
>TIGR00068 glyox_I lactoylglutathione lyase. Glyoxylase I is a homodimer in many species. In some eukaryotes, including yeasts and plants, the orthologous protein carries a tandem duplication, is twice as long, and hits this model twice.
Probab=22.13 E-value=99 Score=21.29 Aligned_cols=27 Identities=19% Similarity=0.306 Sum_probs=20.7
Q ss_pred cceeeeEEEecCCeeeEEecCCCCCCC
Q psy1045 55 EKCRLALVKTVGGYMLEFYSPPKSLKP 81 (113)
Q Consensus 55 qkcRL~Lrk~~~g~~LEfy~PPKsskP 81 (113)
...+....+...|+.+||+.+++..+|
T Consensus 121 ~~~~~~~~~DPdG~~iel~~~~~~~~~ 147 (150)
T TIGR00068 121 GTTVIAFVEDPDGYKIELIQRKSTKDG 147 (150)
T ss_pred CceEEEEEECCCCCEEEEEECCchhhh
Confidence 345677777788999999998876554
No 31
>PRK10291 glyoxalase I; Provisional
Probab=21.91 E-value=1.2e+02 Score=19.97 Aligned_cols=26 Identities=23% Similarity=0.354 Sum_probs=20.1
Q ss_pred cccceeeeEEEecCCeeeEEecCCCC
Q psy1045 53 KWEKCRLALVKTVGGYMLEFYSPPKS 78 (113)
Q Consensus 53 ~WqkcRL~Lrk~~~g~~LEfy~PPKs 78 (113)
.|...+.+..+...|+.+||+.+.++
T Consensus 98 ~~~~~~~~~i~DPdG~~iel~~~~~~ 123 (129)
T PRK10291 98 KGGTTVIAFVEDPDGYKIELIEEKDA 123 (129)
T ss_pred CCCceEEEEEECCCCCEEEEEEcccc
Confidence 36666777777788999999998753
No 32
>PRK07107 inosine 5-monophosphate dehydrogenase; Validated
Probab=21.60 E-value=35 Score=30.13 Aligned_cols=15 Identities=53% Similarity=0.600 Sum_probs=13.1
Q ss_pred Chhhhhhhccccccc
Q psy1045 1 MAIAMALCGGIGRIK 15 (113)
Q Consensus 1 ~~~~~~~~~~~~~~~ 15 (113)
||||||..||+|-|.
T Consensus 67 lAiala~~gG~g~Ih 81 (502)
T PRK07107 67 MAIALAREGGLSFIF 81 (502)
T ss_pred HHHHHHHcCCCeEee
Confidence 799999999999643
No 33
>PF04283 CheF-arch: Chemotaxis signal transduction system protein F from archaea; InterPro: IPR007381 This is an archaeal protein of unknown function.
Probab=20.58 E-value=1.2e+02 Score=24.18 Aligned_cols=39 Identities=21% Similarity=0.125 Sum_probs=27.0
Q ss_pred CcccccceeeeEEEecCCeeeEEecCCCCCCCcccccccceeehhcc
Q psy1045 50 GTQKWEKCRLALVKTVGGYMLEFYSPPKSLKPKKGVFCFLITEARET 96 (113)
Q Consensus 50 ~~~~WqkcRL~Lrk~~~g~~LEfy~PPKsskPK~~i~Cs~I~EVR~t 96 (113)
....|.+||.+|-.. .|.|-..+ -|..|+.+.|.+|.--
T Consensus 21 ~d~~W~~~rIiLs~~----rlvl~~~~----~k~~Ipls~I~Di~~~ 59 (221)
T PF04283_consen 21 PDGKWVKGRIILSND----RLVLAFND----GKITIPLSSIEDIGVR 59 (221)
T ss_pred ccCCcEEEEEEEecC----EEEEEcCC----CeEEEecceeEecccc
Confidence 458999999999752 23333322 3569999999988653
No 34
>cd01264 PH_melted Melted pleckstrin homology (PH) domain. Melted pleckstrin homology (PH) domain. The melted protein has a C-terminal PH 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=20.41 E-value=1.3e+02 Score=21.27 Aligned_cols=46 Identities=22% Similarity=0.278 Sum_probs=31.5
Q ss_pred CeeeEEecCCCCCCCc-ccccccceeehhccC----------CccCCCCCCeeEEee
Q psy1045 67 GYMLEFYSPPKSLKPK-KGVFCFLITEARETS----------ALEMPDHENTFVLKG 112 (113)
Q Consensus 67 g~~LEfy~PPKsskPK-~~i~Cs~I~EVR~tt----------~LEMPD~~nTFVLKv 112 (113)
|..|.+|.-....+|. -.|..+.+..|+.+. .+|+-.++-||.|++
T Consensus 28 ~~~L~y~K~~~~~~~~~g~IdL~~~~sVk~~~~~~~~~~~~~~Fei~tp~rt~~l~A 84 (101)
T cd01264 28 GAQLLFQKGKSKDDPDDCSIDLSKIRSVKAVAKKRRDRSLPKAFEIFTADKTYILKA 84 (101)
T ss_pred CCEEEEEeccCccCCCCceEEcccceEEeeccccccccccCcEEEEEcCCceEEEEe
Confidence 4446677554333444 689988888887753 567777778888875
Done!