Query psy14126
Match_columns 81
No_of_seqs 108 out of 1059
Neff 7.7
Searched_HMMs 46136
Date Fri Aug 16 20:12:58 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy14126.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/14126hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG1471|consensus 99.5 6.4E-16 1.4E-20 106.9 -0.3 67 7-73 188-260 (317)
2 PF00650 CRAL_TRIO: CRAL/TRIO 99.4 3.4E-14 7.4E-19 88.8 -1.1 62 8-69 91-159 (159)
3 cd00170 SEC14 Sec14p-like lipi 99.3 3.7E-13 8E-18 82.7 1.2 63 7-69 90-157 (157)
4 smart00516 SEC14 Domain in hom 99.2 1.5E-12 3.2E-17 81.3 0.9 64 8-71 89-158 (158)
5 KOG1470|consensus 98.8 8.6E-10 1.9E-14 77.6 0.2 63 7-70 176-243 (324)
6 PF13716 CRAL_TRIO_2: Divergen 94.9 0.0015 3.3E-08 40.5 -3.0 39 32-71 106-145 (149)
7 KOG1471|consensus 92.9 0.044 9.5E-07 38.0 0.8 23 2-24 238-260 (317)
8 KOG4406|consensus 70.9 2.7 5.9E-05 31.3 1.6 34 25-59 179-212 (467)
9 PRK12557 H(2)-dependent methyl 38.1 26 0.00056 25.1 1.9 27 42-71 2-29 (342)
10 COG5321 Uncharacterized protei 37.9 17 0.00037 23.2 0.9 13 55-67 96-108 (164)
11 TIGR01724 hmd_rel H2-forming N 36.2 30 0.00066 25.1 2.0 28 42-71 2-29 (341)
12 COG1210 GalU UDP-glucose pyrop 31.1 86 0.0019 22.3 3.6 49 6-60 23-71 (291)
13 COG4007 Predicted dehydrogenas 29.1 40 0.00087 24.1 1.7 28 42-71 3-30 (340)
14 PF02771 Acyl-CoA_dh_N: Acyl-C 25.7 30 0.00066 19.6 0.5 15 57-71 45-59 (113)
15 PF02947 Flt3_lig: flt3 ligand 22.4 14 0.00031 23.1 -1.3 55 2-57 20-75 (135)
No 1
>KOG1471|consensus
Probab=99.54 E-value=6.4e-16 Score=106.87 Aligned_cols=67 Identities=31% Similarity=0.481 Sum_probs=61.4
Q ss_pred hcCCCcccccccC----CCCC-ccchHHHHHHHHHhccCceEE-EcCCChHHHhhhCCCCCCCCcCCCCCCCC
Q psy14126 7 YIHPDTLPADYGG----NKPK-INYSSAQWYPVLDEIEDSIMY-FHGNKMSSLHKYIHPDTLPADYGGNKPKI 73 (81)
Q Consensus 7 ~i~~~~lP~r~gg----n~p~-~~~~~~~~k~fL~~k~~~ri~-~~~~~~~~l~~~i~~~~LP~e~GG~~~~~ 73 (81)
.+.++++|.+++. |+|+ +..+++++++||++++++||+ +|+.+.++|+++||+++||++|||+++..
T Consensus 188 ~~~q~~yPe~l~~~~iIN~P~~f~~~~~~ikpfL~~kt~~ki~~~~~~~~~~L~k~i~~~~LP~~yGG~~~~~ 260 (317)
T KOG1471|consen 188 KILQDNYPERLKRIHIINAPTIFSALWKVVKPFLDEKTRKKIHVLHSKDKESLLKYIPPEVLPEEYGGTCGDL 260 (317)
T ss_pred HHHHHhCHHhhceEEEEcCchhHHHHHHHHhccCCHHHHhhheecCCCchhhhhhhCCHhhCccccCCCcccc
Confidence 3567999999999 9999 588999999999999999999 66667789999999999999999999986
No 2
>PF00650 CRAL_TRIO: CRAL/TRIO domain; InterPro: IPR001251 This entry defines the C-terminal of various retinaldehyde/retinal-binding proteins that may be functional components of the visual cycle. Cellular retinaldehyde-binding protein (CRALBP) carries 11-cis-retinol or 11-cis-retinaldehyde as endogenous ligands and may function as a substrate carrier protein that modulates interaction of these retinoids with visual cycle enzymes []. The multidomain protein Trio binds the LAR transmembrane tyrosine phosphatase, contains a protein kinase domain, and has separate rac-specific and rho-specific guanine nucleotide exchange factor domains []. Trio is a multifunctional protein that integrates and amplifies signals involved in coordinating actin remodeling, which is necessary for cell migration and growth. Other members of the family are transfer proteins that include, guanine nucleotide exchange factor that may function as an effector of RAC1, phosphatidylinositol/phosphatidylcholine transfer protein that is required for the transport of secretory proteins from the golgi complex and alpha-tocopherol transfer protein that enhances the transfer of the ligand between separate membranes.; PDB: 1OIZ_A 1R5L_A 1OIP_A 3HX3_A 3HY5_A 1OLM_E 1O6U_E 3Q8G_A 3B7Q_B 3B7Z_A ....
Probab=99.38 E-value=3.4e-14 Score=88.81 Aligned_cols=62 Identities=29% Similarity=0.544 Sum_probs=53.0
Q ss_pred cCCCcccccccC----CCCCc-cchHHHHHHHHHhccCceEEEcC-CCh-HHHhhhCCCCCCCCcCCCC
Q psy14126 8 IHPDTLPADYGG----NKPKI-NYSSAQWYPVLDEIEDSIMYFHG-NKM-SSLHKYIHPDTLPADYGGN 69 (81)
Q Consensus 8 i~~~~lP~r~gg----n~p~~-~~~~~~~k~fL~~k~~~ri~~~~-~~~-~~l~~~i~~~~LP~e~GG~ 69 (81)
+.++++|.|.+. |+|++ ..+++++++||++++++||++++ .++ ++|.++||++.||.+|||+
T Consensus 91 ~~~~~yP~rl~~i~iin~p~~~~~~~~~~~~~l~~~~~~ki~~~~~~~~~~~l~~~i~~~~lP~~~GG~ 159 (159)
T PF00650_consen 91 LLQDHYPERLGKIYIINAPWFFRVLWKIVKPFLSPKTREKIVFHSGSDWKAKLKEYIDPEQLPVEYGGT 159 (159)
T ss_dssp HHHHHSTTTEEEEEEES--TTHHHHHHHHGGGS-HHHHCTEEEECTTCHCHHHCCCSTGGGSBGGGTSS
T ss_pred hhcccCCccceeEEEEecChhhhhhHhHHHhhcCHhhheeEEEECCcccHHHHHhhCCHhHCchhcCCC
Confidence 457889999999 99995 88999999999999999999996 355 5899999999999999996
No 3
>cd00170 SEC14 Sec14p-like lipid-binding domain. Found in secretory proteins, such as S. cerevisiae phosphatidylinositol transfer protein (Sec14p), and in lipid regulated proteins such as RhoGAPs, RhoGEFs and neurofibromin (NF1). SEC14 domain of Dbl is known to associate with G protein beta/gamma subunits.
Probab=99.33 E-value=3.7e-13 Score=82.74 Aligned_cols=63 Identities=30% Similarity=0.464 Sum_probs=56.9
Q ss_pred hcCCCcccccccC----CCCC-ccchHHHHHHHHHhccCceEEEcCCChHHHhhhCCCCCCCCcCCCC
Q psy14126 7 YIHPDTLPADYGG----NKPK-INYSSAQWYPVLDEIEDSIMYFHGNKMSSLHKYIHPDTLPADYGGN 69 (81)
Q Consensus 7 ~i~~~~lP~r~gg----n~p~-~~~~~~~~k~fL~~k~~~ri~~~~~~~~~l~~~i~~~~LP~e~GG~ 69 (81)
.+.++++|.+++. |+|. +..+++++++|+++++++||++++++.++|.++||++.||.+|||+
T Consensus 90 ~~~~~~yp~~l~~v~ivn~p~~~~~~~~~~~~~l~~~~~~ki~~~~~~~~~L~~~i~~~~Lp~~~GG~ 157 (157)
T cd00170 90 KILQDNYPERLKAVYIINPPWFFKVLWKIVKPFLSEKTRKKIVFLGSDKEELLKYIDKEQLPEEYGGT 157 (157)
T ss_pred HHHHHhChHhhCeEEEECCCHhHHHHHHHHHHhcCHhhhhhEEEecCCHHHHHhhCChhhCcHhhCCC
Confidence 4568899999999 8998 5778999999999999999999963388999999999999999996
No 4
>smart00516 SEC14 Domain in homologues of a S. cerevisiae phosphatidylinositol transfer protein (Sec14p). Domain in homologues of a S. cerevisiae phosphatidylinositol transfer protein (Sec14p) and in RhoGAPs, RhoGEFs and the RasGAP, neurofibromin (NF1). Lipid-binding domain. The SEC14 domain of Dbl is known to associate with G protein beta/gamma subunits.
Probab=99.25 E-value=1.5e-12 Score=81.29 Aligned_cols=64 Identities=33% Similarity=0.505 Sum_probs=56.7
Q ss_pred cCCCcccccccC----CCCC-ccchHHHHHHHHHhccCceEEEcCC-ChHHHhhhCCCCCCCCcCCCCCC
Q psy14126 8 IHPDTLPADYGG----NKPK-INYSSAQWYPVLDEIEDSIMYFHGN-KMSSLHKYIHPDTLPADYGGNKP 71 (81)
Q Consensus 8 i~~~~lP~r~gg----n~p~-~~~~~~~~k~fL~~k~~~ri~~~~~-~~~~l~~~i~~~~LP~e~GG~~~ 71 (81)
+.++.+|.+++. |+|. +..+++++++||+++++.||+++++ +.++|.++||++.||++|||+..
T Consensus 89 ~~~~~yp~~l~~i~ivn~p~~~~~~~~~~~~~l~~~~~~ki~~~~~~~~~~L~~~i~~~~lP~~~GG~~~ 158 (158)
T smart00516 89 ILQDHYPERLGKVLIINPPWFFRVLWKIIKPFLDEKTREKIRFVGNDSKEELLEYIDPEQLPEELGGTLD 158 (158)
T ss_pred HHHHHhHHHhCeEEEECCCHHHHHHHHHHHhhcChhhhccEEEeCCCCHHHHHhhCCHhhCcHhhCCCCC
Confidence 446889999998 8998 4778999999999999999999974 26789999999999999999863
No 5
>KOG1470|consensus
Probab=98.80 E-value=8.6e-10 Score=77.62 Aligned_cols=63 Identities=27% Similarity=0.364 Sum_probs=57.2
Q ss_pred hcCCCcccccccC----CCCC-ccchHHHHHHHHHhccCceEEEcCCChHHHhhhCCCCCCCCcCCCCC
Q psy14126 7 YIHPDTLPADYGG----NKPK-INYSSAQWYPVLDEIEDSIMYFHGNKMSSLHKYIHPDTLPADYGGNK 70 (81)
Q Consensus 7 ~i~~~~lP~r~gg----n~p~-~~~~~~~~k~fL~~k~~~ri~~~~~~~~~l~~~i~~~~LP~e~GG~~ 70 (81)
++.|+++|.|+|. |+|+ |+.+++++++||+++++++|.|. .+.+.+.++||++.||.+|||+.
T Consensus 176 ~~lq~hYPErLg~a~l~~~P~iF~~~wkiikpflDp~t~~Kv~F~-~~~~~l~~~~d~~~l~s~~GG~~ 243 (324)
T KOG1470|consen 176 HILQDHYPERLGKALLVNAPWIFQPFWKIIKPFLDPKTASKVKFV-EPKDDLSEYFDESQLPSLFGGKL 243 (324)
T ss_pred HHHHHhChHHhhhhhhcCChHHHHHHHHHhhhccChhhhceeEEe-cChhHHHhhCCccccchhhCCCc
Confidence 5779999999998 8999 58899999999999999999998 46777999999999999999954
No 6
>PF13716 CRAL_TRIO_2: Divergent CRAL/TRIO domain; PDB: 2D4Q_B 3PG7_B 2E2X_B 3P7Z_B 3PEG_A.
Probab=94.94 E-value=0.0015 Score=40.53 Aligned_cols=39 Identities=23% Similarity=0.348 Sum_probs=23.8
Q ss_pred HHHHHhcc-CceEEEcCCChHHHhhhCCCCCCCCcCCCCCC
Q psy14126 32 YPVLDEIE-DSIMYFHGNKMSSLHKYIHPDTLPADYGGNKP 71 (81)
Q Consensus 32 k~fL~~k~-~~ri~~~~~~~~~l~~~i~~~~LP~e~GG~~~ 71 (81)
+.+.+.+. ..+|++. ++.++|.++||++.||++.||...
T Consensus 106 ~~~~~~~~~~~kv~~~-~sl~~L~~~i~~~qL~~~lp~~~~ 145 (149)
T PF13716_consen 106 RPFVSSKFWKKKVVYV-SSLSELSKHIDPSQLPESLPGVLQ 145 (149)
T ss_dssp TTGGGGTT--TTEEEE-SSTCGGGGTSGGGG------HHH-
T ss_pred cccccccccceEEEEE-CCHHHHHhhCCHHHhcccCCCEEe
Confidence 34446676 6777766 489999999999999999997654
No 7
>KOG1471|consensus
Probab=92.87 E-value=0.044 Score=37.95 Aligned_cols=23 Identities=48% Similarity=0.918 Sum_probs=20.5
Q ss_pred hhhhhhcCCCcccccccCCCCCc
Q psy14126 2 SSLHKYIHPDTLPADYGGNKPKI 24 (81)
Q Consensus 2 ~~l~~~i~~~~lP~r~ggn~p~~ 24 (81)
++|+++|++++||.+|||+++..
T Consensus 238 ~~L~k~i~~~~LP~~yGG~~~~~ 260 (317)
T KOG1471|consen 238 ESLLKYIPPEVLPEEYGGTCGDL 260 (317)
T ss_pred hhhhhhCCHhhCccccCCCcccc
Confidence 68999999999999999977664
No 8
>KOG4406|consensus
Probab=70.94 E-value=2.7 Score=31.34 Aligned_cols=34 Identities=12% Similarity=0.156 Sum_probs=28.7
Q ss_pred cchHHHHHHHHHhccCceEEEcCCChHHHhhhCCC
Q psy14126 25 NYSSAQWYPVLDEIEDSIMYFHGNKMSSLHKYIHP 59 (81)
Q Consensus 25 ~~~~~~~k~fL~~k~~~ri~~~~~~~~~l~~~i~~ 59 (81)
..++++++++++.|-..+|+-. +..++|+++|.-
T Consensus 179 kvi~n~~kplIS~KF~rKi~Y~-n~lseL~~~l~l 212 (467)
T KOG4406|consen 179 KVIWNLFKPLISLKFTRKIIYF-NSLSELFEALKL 212 (467)
T ss_pred HHHHHHHhhhcchhhhceeEEe-ehHHHHHHhhhh
Confidence 6789999999999988888877 478999988753
No 9
>PRK12557 H(2)-dependent methylenetetrahydromethanopterin dehydrogenase-related protein; Provisional
Probab=38.09 E-value=26 Score=25.12 Aligned_cols=27 Identities=26% Similarity=0.516 Sum_probs=20.7
Q ss_pred eEEEcCCChHHHh-hhCCCCCCCCcCCCCCC
Q psy14126 42 IMYFHGNKMSSLH-KYIHPDTLPADYGGNKP 71 (81)
Q Consensus 42 ri~~~~~~~~~l~-~~i~~~~LP~e~GG~~~ 71 (81)
+|.|+|..-+.|+ +.+ .+|+.|||+.+
T Consensus 2 ~~~~~~~~~~~~~~~~~---~~~~~~~~~~~ 29 (342)
T PRK12557 2 KVSVYGAGNQKLYLEQL---NLPEKFGGEPP 29 (342)
T ss_pred eeEEEcCcchhHHHHHh---CCHHhcCCCCC
Confidence 4778887677776 554 68999999976
No 10
>COG5321 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=37.88 E-value=17 Score=23.22 Aligned_cols=13 Identities=15% Similarity=0.496 Sum_probs=11.4
Q ss_pred hhCCCCCCCCcCC
Q psy14126 55 KYIHPDTLPADYG 67 (81)
Q Consensus 55 ~~i~~~~LP~e~G 67 (81)
-.+|.+++|+|+|
T Consensus 96 p~vP~~IfPeecG 108 (164)
T COG5321 96 PSVPDEIFPEECG 108 (164)
T ss_pred CCCccccCcccCC
Confidence 4589999999988
No 11
>TIGR01724 hmd_rel H2-forming N(5),N(10)-methenyltetrahydromethanopterin dehydrogenase-related protein. This model represents a sister clade to the authenticated coenzyme F420-dependent N(5),N(10)-methenyltetrahydromethanopterin reductase (HMD) of TIGR01723. Two members, designated HmdII and HmdIII, are found. Members are restricted to methanogens, but the function is unknown.
Probab=36.25 E-value=30 Score=25.12 Aligned_cols=28 Identities=25% Similarity=0.414 Sum_probs=20.7
Q ss_pred eEEEcCCChHHHhhhCCCCCCCCcCCCCCC
Q psy14126 42 IMYFHGNKMSSLHKYIHPDTLPADYGGNKP 71 (81)
Q Consensus 42 ri~~~~~~~~~l~~~i~~~~LP~e~GG~~~ 71 (81)
+|.|+|..-+.|+ +++=.+|+.|||+.+
T Consensus 2 ~~~~~g~gnq~ly--~~~~~~~~~~gg~~p 29 (341)
T TIGR01724 2 KVSVYGAGNQKLY--TDELNLPEKFGGEPP 29 (341)
T ss_pred eeEEecCcchhHH--HHHhCChhhcCCCCC
Confidence 4778887777775 233468999999976
No 12
>COG1210 GalU UDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]
Probab=31.13 E-value=86 Score=22.34 Aligned_cols=49 Identities=16% Similarity=0.181 Sum_probs=35.1
Q ss_pred hhcCCCcccccccCCCCCccchHHHHHHHHHhccCceEEEcCCChHHHhhhCCCC
Q psy14126 6 KYIHPDTLPADYGGNKPKINYSSAQWYPVLDEIEDSIMYFHGNKMSSLHKYIHPD 60 (81)
Q Consensus 6 ~~i~~~~lP~r~ggn~p~~~~~~~~~k~fL~~k~~~ri~~~~~~~~~l~~~i~~~ 60 (81)
|.++.|+||. -+-| .+-.++...+..-+.+.+.|.|++-..+-+|+|.+
T Consensus 23 KaiPKEMLPI---vdKP---~IqYiVeEa~~aGIe~i~iVTgr~K~~IeDhFD~s 71 (291)
T COG1210 23 KAIPKEMLPI---VDKP---LIQYIVEEAVAAGIEEILIVTGRGKRAIEDHFDTS 71 (291)
T ss_pred ccCchhhccc---cCch---hHHHHHHHHHHcCCCEEEEEecCCcchHHHhCcCc
Confidence 3455566665 2233 35577788889999999999887777888888765
No 13
>COG4007 Predicted dehydrogenase related to H2-forming N5,N10-methylenetetrahydromethanopterin dehydrogenase [General function prediction only]
Probab=29.13 E-value=40 Score=24.10 Aligned_cols=28 Identities=29% Similarity=0.483 Sum_probs=19.7
Q ss_pred eEEEcCCChHHHhhhCCCCCCCCcCCCCCC
Q psy14126 42 IMYFHGNKMSSLHKYIHPDTLPADYGGNKP 71 (81)
Q Consensus 42 ri~~~~~~~~~l~~~i~~~~LP~e~GG~~~ 71 (81)
+|.++|..-+.|+ +++=.+|+.|||+.+
T Consensus 3 kv~vygagnq~ly--~~~l~~pek~ggE~P 30 (340)
T COG4007 3 KVAVYGAGNQRLY--LEQLNLPEKYGGEPP 30 (340)
T ss_pred eEEEEcCCccchh--HHhcCChhhhCCCCC
Confidence 4667776666665 334479999999876
No 14
>PF02771 Acyl-CoA_dh_N: Acyl-CoA dehydrogenase, N-terminal domain; InterPro: IPR006092 Mammalian Co-A dehydrogenases (1.3.99.3 from EC) are enzymes that catalyse the first step in each cycle of beta-oxidation in mitochondion. Acyl-CoA dehydrogenases [, , ] catalyze the alpha,beta-dehydrogenation of acyl-CoA thioesters to the corresponding trans 2,3-enoyl CoA-products with concommitant reduction of enzyme-bound FAD. Reoxidation of the flavin involves transfer of electrons to ETF (electron transfering flavoprotein). These enzymes are homodimers containing one molecule of FAD. The monomeric enzyme is folded into three domains of approximately equal size. The N-terminal and the C-terminal are mainly alpha-helices packed together, and the middle domain consists of two orthogonal beta-sheets. The flavin ring is buried in the crevise between two alpha-helical domains and the beta-sheet of one subunit, and the adenosine pyrophosphate moiety is stretched into the subunit junction with one formed by two C-terminal domains []. The N-terminal domain of Acyl-CoA dehydrogenase is an all-alpha domain, on dimerisation, the N-terminal of one molecule extends into the other dimer and lies on the surface of the molecule.; GO: 0003995 acyl-CoA dehydrogenase activity, 0055114 oxidation-reduction process; PDB: 2WBI_B 1SIQ_A 1SIR_A 2R0N_A 2R0M_A 2DVL_A 1UKW_B 3MDD_B 1UDY_C 3MDE_B ....
Probab=25.67 E-value=30 Score=19.62 Aligned_cols=15 Identities=27% Similarity=0.503 Sum_probs=10.9
Q ss_pred CCCCCCCCcCCCCCC
Q psy14126 57 IHPDTLPADYGGNKP 71 (81)
Q Consensus 57 i~~~~LP~e~GG~~~ 71 (81)
+-.-.+|++|||...
T Consensus 45 ~~~~~~p~~~GG~~~ 59 (113)
T PF02771_consen 45 LLGLAVPEEYGGLGL 59 (113)
T ss_dssp TTSTTSCGGGTSEB-
T ss_pred HhhhhccccccCcch
Confidence 445678999999764
No 15
>PF02947 Flt3_lig: flt3 ligand ; InterPro: IPR004213 The flt3 (fms-related tyrosine kinase 3) ligand is a short chain cytokine with a 4 helical bundle fold. It is a type I membrane protein which stimulates the proliferation of of early hematopoeitic cells, and synergises well with other colony stimulating factors and interleukins.; GO: 0005125 cytokine activity, 0016020 membrane; PDB: 3QS7_A 1ETE_C 3QS9_A.
Probab=22.37 E-value=14 Score=23.12 Aligned_cols=55 Identities=24% Similarity=0.305 Sum_probs=35.4
Q ss_pred hhhhhhcCCCcccccccCCCCCccchHHHHHHHHHhccCceEEE-cCCChHHHhhhC
Q psy14126 2 SSLHKYIHPDTLPADYGGNKPKINYSSAQWYPVLDEIEDSIMYF-HGNKMSSLHKYI 57 (81)
Q Consensus 2 ~~l~~~i~~~~lP~r~ggn~p~~~~~~~~~k~fL~~k~~~ri~~-~~~~~~~l~~~i 57 (81)
.+|.+++.++ +|+..-.|.-.-+.-.++|.-+|.++..+|+.- -|..+++|.+.+
T Consensus 20 ~~LsdyLL~D-YPV~V~~NLqdde~C~alWhL~Laqr~m~rLk~VaGs~m~~lle~V 75 (135)
T PF02947_consen 20 RNLSDYLLQD-YPVTVASNLQDDELCGALWHLVLAQRWMERLKTVAGSKMQKLLEKV 75 (135)
T ss_dssp HHHHTTSBTT--EEEEESSB---TTTHHHHHHHHHHHHHHHHHCTB-HHHHHHHHHH
T ss_pred HHHHHHhccC-CCcccccccccHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHH
Confidence 3566777777 888888887665556889999999887777654 455566665544
Done!