Query psy16371
Match_columns 91
No_of_seqs 37 out of 39
Neff 3.9
Searched_HMMs 46136
Date Fri Aug 16 19:35:56 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy16371.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/16371hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG1933|consensus 96.0 9.5E-05 2.1E-09 67.8 -7.9 82 4-87 172-255 (1201)
2 TIGR00917 2A060601 Niemann-Pic 85.1 0.79 1.7E-05 42.4 3.0 76 7-87 434-518 (1204)
3 COG4099 Predicted peptidase [G 55.9 7.3 0.00016 32.6 1.7 14 3-16 220-233 (387)
4 PLN02606 palmitoyl-protein thi 42.4 11 0.00023 30.7 0.6 28 13-40 166-195 (306)
5 KOG3199|consensus 31.3 17 0.00037 28.7 0.2 26 2-31 150-176 (234)
6 PF05879 RHD3: Root hair defec 29.9 24 0.00053 31.2 0.9 29 8-39 81-110 (742)
7 PLN02633 palmitoyl protein thi 28.9 23 0.00051 28.9 0.6 29 13-41 167-197 (314)
8 PF15040 Humanin: Humanin fami 28.2 4.6 0.0001 21.7 -2.4 10 7-16 5-14 (24)
9 PF14636 FNIP_N: Folliculin-in 27.3 42 0.00091 23.6 1.6 27 48-74 96-125 (131)
10 PF02089 Palm_thioest: Palmito 25.9 20 0.00043 28.6 -0.3 28 13-40 153-182 (279)
11 PF11698 V-ATPase_H_C: V-ATPas 25.7 29 0.00063 24.5 0.5 32 9-40 16-52 (119)
12 KOG2541|consensus 22.4 54 0.0012 26.8 1.5 29 13-41 163-193 (296)
13 cd08073 MPN_NLPC_P60 Mpr1p, Pa 22.0 49 0.0011 22.2 1.1 50 3-53 12-81 (108)
14 cd02164 PPAT_CoAS phosphopante 20.2 55 0.0012 23.1 1.0 14 5-18 87-100 (143)
15 KOG1500|consensus 20.1 53 0.0012 28.3 1.1 20 3-22 277-309 (517)
No 1
>KOG1933|consensus
Probab=96.04 E-value=9.5e-05 Score=67.82 Aligned_cols=82 Identities=20% Similarity=0.240 Sum_probs=64.5
Q ss_pred CCCCCCeeeEcCcccchhhhhhhccchh-hhhhhhhccc-cccccchhhhhhhccccccceeeeeeccCceeEEEEEEEE
Q psy16371 4 VLPEYSCLVLSPANLWQQDINMFQKDSQ-LISTIFNHHD-LNKAKVTLSEILFGINIKDTGIRRYSLRNKQRIIQFSVTL 81 (91)
Q Consensus 4 ~lPe~~CLlLSPan~W~~d~~~F~~D~~-ii~TI~~~~~-~~~~~~sl~dlLfGvP~k~TGvk~~~~~~r~R~i~yAVTl 81 (91)
+.+||.|..+||++.|++|.+.|..|++ +..+..+|-+ ++..+..+++... +++-.|++-.++-.+.+++.+|+|+
T Consensus 172 l~i~~~~~~~~~~~~~~~N~~~~~cd~~~v~~c~~~dc~~~c~~~~~~~~~~~--~~~v~~~~~~~~~~~l~~~~~~~~~ 249 (1201)
T KOG1933|consen 172 LRIEFLCSLPSPASIWYMNVEVKPCDDDTVPACSCSDCPETCPASLLLKSPTE--TFVVGGIPGLSVFLILAFIFFAALL 249 (1201)
T ss_pred ceeccccccCCccceeecccccccCCcccccccchhcchhhcCccccCCCCcc--ceeeccccchhHHHHHHHHHHHHHH
Confidence 6789999999999999999999999988 7888888866 4555555555555 6667777776666688888888887
Q ss_pred EeeccC
Q psy16371 82 FMTKYD 87 (91)
Q Consensus 82 ~l~~y~ 87 (91)
+|-.|.
T Consensus 250 ~f~~~~ 255 (1201)
T KOG1933|consen 250 VFLGYS 255 (1201)
T ss_pred HHHHHH
Confidence 765543
No 2
>TIGR00917 2A060601 Niemann-Pick C type protein family. The model describes Niemann-Pick C type protein in eukaryotes. The defective protein has been associated with Niemann-Pick disease which is described in humans as autosomal recessive lipidosis. It is characterized by the lysosomal accumulation of unestrified cholesterol. It is an integral membrane protein, which indicates that this protein is most likely involved in cholesterol transport or acts as some component of cholesterol homeostasis.
Probab=85.13 E-value=0.79 Score=42.40 Aligned_cols=76 Identities=18% Similarity=0.291 Sum_probs=41.8
Q ss_pred CCCeeeEcCcccchhhhhhhccc--hhhh-hhhhhc--cccccccchhhhhhhccccccc----eeeeeeccCceeEEEE
Q psy16371 7 EYSCLVLSPANLWQQDINMFQKD--SQLI-STIFNH--HDLNKAKVTLSEILFGINIKDT----GIRRYSLRNKQRIIQF 77 (91)
Q Consensus 7 e~~CLlLSPan~W~~d~~~F~~D--~~ii-~TI~~~--~~~~~~~~sl~dlLfGvP~k~T----Gvk~~~~~~r~R~i~y 77 (91)
+++|.+-||+++||+|.+.++.+ ++.+ .+-.+| ++.....-|+. .||.|++-. |++ -.+-.+.-.+
T Consensus 434 ~~~C~v~S~~~yfq~~~~~l~~~~~~~~~~~~~~~~~~~c~~~p~~c~~--~fg~pl~p~~~lgG~~---~~~~~~A~Al 508 (1204)
T TIGR00917 434 PYNCFIYSTCGYFQNMYSKLDPENYDDGFGVDYVKYCFECFTSPESCLS--AFGGPVDPTTALGGFS---GNNFSEASAF 508 (1204)
T ss_pred CCCCccCCHHHHhccChhhcCcccccccccccHHHhhhccccCcchhcc--cCCCcCCcceeeCCcC---CCCcccceEE
Confidence 58899999999999999999642 2222 122221 11111111221 345554432 332 1233456677
Q ss_pred EEEEEeeccC
Q psy16371 78 SVTLFMTKYD 87 (91)
Q Consensus 78 AVTl~l~~y~ 87 (91)
.||..++.++
T Consensus 509 ~lT~~l~n~~ 518 (1204)
T TIGR00917 509 VVTFPVNNFV 518 (1204)
T ss_pred EEEEEEecCC
Confidence 8888888654
No 3
>COG4099 Predicted peptidase [General function prediction only]
Probab=55.95 E-value=7.3 Score=32.63 Aligned_cols=14 Identities=43% Similarity=0.707 Sum_probs=12.6
Q ss_pred cCCCCCCeeeEcCc
Q psy16371 3 GVLPEYSCLVLSPA 16 (91)
Q Consensus 3 ~~lPe~~CLlLSPa 16 (91)
...||++|+||||-
T Consensus 220 wa~pedqcfVlAPQ 233 (387)
T COG4099 220 WAGPEDQCFVLAPQ 233 (387)
T ss_pred eecccCceEEEccc
Confidence 46899999999997
No 4
>PLN02606 palmitoyl-protein thioesterase
Probab=42.38 E-value=11 Score=30.66 Aligned_cols=28 Identities=14% Similarity=0.343 Sum_probs=25.0
Q ss_pred EcCcccch--hhhhhhccchhhhhhhhhcc
Q psy16371 13 LSPANLWQ--QDINMFQKDSQLISTIFNHH 40 (91)
Q Consensus 13 LSPan~W~--~d~~~F~~D~~ii~TI~~~~ 40 (91)
+|||++|+ .+.+++.+.+..|..|.++-
T Consensus 166 lv~AqYwrDP~~~~~Yl~~s~FLadINNEr 195 (306)
T PLN02606 166 TAPSGYVKKPMEIKNYLEHSKYLPKLNNER 195 (306)
T ss_pred EeccccccCcchHHHHHHhCcchhhhcCcC
Confidence 79999999 57899999999999998875
No 5
>KOG3199|consensus
Probab=31.33 E-value=17 Score=28.73 Aligned_cols=26 Identities=19% Similarity=0.403 Sum_probs=20.2
Q ss_pred CcCCCCCCeeeEcCcccch-hhhhhhccchh
Q psy16371 2 VGVLPEYSCLVLSPANLWQ-QDINMFQKDSQ 31 (91)
Q Consensus 2 ~~~lPe~~CLlLSPan~W~-~d~~~F~~D~~ 31 (91)
.+.+-||||++++ |- +|.+.|-.+.|
T Consensus 150 ~~i~~~yGl~cv~----r~gsD~~~~i~~~d 176 (234)
T KOG3199|consen 150 RTILGEYGLVCVT----REGSDVENFLSSHD 176 (234)
T ss_pred HHHHhhCcEEEEe----ccCCCHHHHHhccH
Confidence 4567799999999 65 78888887744
No 6
>PF05879 RHD3: Root hair defective 3 GTP-binding protein (RHD3); InterPro: IPR008803 This family consists of several eukaryotic root hair defective 3 like GTP-binding proteins. It has been speculated that the RHD3 protein is a member of a novel class of GTP-binding proteins that is widespread in eukaryotes and required for regulated cell enlargement []. The family also contains the homologous Saccharomyces cerevisiae synthetic construct enhancement of YOP1 (SEY1) protein which is involved in membrane trafficking [].; GO: 0016817 hydrolase activity, acting on acid anhydrides
Probab=29.89 E-value=24 Score=31.23 Aligned_cols=29 Identities=31% Similarity=0.749 Sum_probs=24.0
Q ss_pred CCeeeEcCcccchhhhhhhc-cchhhhhhhhhc
Q psy16371 8 YSCLVLSPANLWQQDINMFQ-KDSQLISTIFNH 39 (91)
Q Consensus 8 ~~CLlLSPan~W~~d~~~F~-~D~~ii~TI~~~ 39 (91)
..|||+ |+|.+|+-+++ +.-.+|+|||+-
T Consensus 81 s~~~ii---N~w~~~iG~~~~an~~lLktvfev 110 (742)
T PF05879_consen 81 SDVLII---NMWEHDIGRYQGANMGLLKTVFEV 110 (742)
T ss_pred hhheee---ehhhhhhhhhcccchHHHHHHHHH
Confidence 356666 99999999998 668899999943
No 7
>PLN02633 palmitoyl protein thioesterase family protein
Probab=28.92 E-value=23 Score=28.86 Aligned_cols=29 Identities=21% Similarity=0.488 Sum_probs=25.0
Q ss_pred EcCcccch--hhhhhhccchhhhhhhhhccc
Q psy16371 13 LSPANLWQ--QDINMFQKDSQLISTIFNHHD 41 (91)
Q Consensus 13 LSPan~W~--~d~~~F~~D~~ii~TI~~~~~ 41 (91)
++||++|+ .+.+.+.+.+..|..|.++-+
T Consensus 167 lv~A~Yw~DP~~~d~Yl~~s~FLadINNEr~ 197 (314)
T PLN02633 167 LAPSGYYKIPKDVTEYLKGSKYLPKLNNEIP 197 (314)
T ss_pred cccccccCCchhHHHHHhcCcchhhhhCcCc
Confidence 68999999 478999999999999988754
No 8
>PF15040 Humanin: Humanin family; PDB: 2GD3_A 1Y32_A.
Probab=28.15 E-value=4.6 Score=21.67 Aligned_cols=10 Identities=40% Similarity=0.896 Sum_probs=6.6
Q ss_pred CCCeeeEcCc
Q psy16371 7 EYSCLVLSPA 16 (91)
Q Consensus 7 e~~CLlLSPa 16 (91)
.|+||+||-.
T Consensus 5 GFsCLlL~~~ 14 (24)
T PF15040_consen 5 GFSCLLLLTS 14 (24)
T ss_dssp HHHHHHHHHC
T ss_pred ccEEEEEEec
Confidence 3678887643
No 9
>PF14636 FNIP_N: Folliculin-interacting protein N-terminus
Probab=27.29 E-value=42 Score=23.61 Aligned_cols=27 Identities=19% Similarity=0.410 Sum_probs=16.7
Q ss_pred hhhhhhhc-cccccce--eeeeeccCceeE
Q psy16371 48 TLSEILFG-INIKDTG--IRRYSLRNKQRI 74 (91)
Q Consensus 48 sl~dlLfG-vP~k~TG--vk~~~~~~r~R~ 74 (91)
.|.|++|| +++.+-| .|=-.++.-+|+
T Consensus 96 ~L~emmFGS~amsYkGsStKvH~ipsp~~~ 125 (131)
T PF14636_consen 96 MLGEMMFGSSAMSYKGSSTKVHIIPSPPQL 125 (131)
T ss_pred HHHHhhhcceeeeeccCceEEEEccCCCcc
Confidence 44599999 7777666 444444454443
No 10
>PF02089 Palm_thioest: Palmitoyl protein thioesterase; InterPro: IPR002472 Neuronal ceroid lipofuscinoses (NCL) represent a group of encephalopathies that occur in 1 in 12,500 children. Mutations in the palmitoyl protein thioesterase gene causing infantile neuronal ceroid lipofuscinosis []. The most common mutation results in intracellular accumulation of the polypeptide and undetectable enzyme activity in the brain. Direct sequencing of cDNAs derived from brain RNA of INCL patients has shown a mis-sense transversion of A to T at nucleotide position 364, which results in substitution of Trp for Arg at position 122 in the protein - Arg 122 is immediately adjacent to a lipase consensus sequence that contains the putative active site Ser of PPT. The occurrence of this and two other independent mutations in the PPT gene strongly suggests that defects in this gene cause INCL.; GO: 0008474 palmitoyl-(protein) hydrolase activity, 0006464 protein modification process; PDB: 3GRO_B 1PJA_A 1EXW_A 1EH5_A 1EI9_A.
Probab=25.89 E-value=20 Score=28.63 Aligned_cols=28 Identities=21% Similarity=0.419 Sum_probs=22.4
Q ss_pred EcCcccch--hhhhhhccchhhhhhhhhcc
Q psy16371 13 LSPANLWQ--QDINMFQKDSQLISTIFNHH 40 (91)
Q Consensus 13 LSPan~W~--~d~~~F~~D~~ii~TI~~~~ 40 (91)
++||++|+ .+.+++.+.+..|..|.++.
T Consensus 153 ~v~AqYwrDP~~~~~Yl~~s~FLadiNNE~ 182 (279)
T PF02089_consen 153 LVQAQYWRDPHHEDKYLEYSIFLADINNER 182 (279)
T ss_dssp TCHGGGB--STTHHHHHHH-SSHHHHTTSS
T ss_pred EeehhhccCCCcHHHHHHccchhhhhcCCc
Confidence 68999999 67788999999999998775
No 11
>PF11698 V-ATPase_H_C: V-ATPase subunit H; InterPro: IPR011987 ATPases (or ATP synthases) are membrane-bound enzyme complexes/ion transporters that combine ATP synthesis and/or hydrolysis with the transport of protons across a membrane. ATPases can harness the energy from a proton gradient, using the flux of ions across the membrane via the ATPase proton channel to drive the synthesis of ATP. Some ATPases work in reverse, using the energy from the hydrolysis of ATP to create a proton gradient. There are different types of ATPases, which can differ in function (ATP synthesis and/or hydrolysis), structure (e.g., F-, V- and A-ATPases, which contain rotary motors) and in the type of ions they transport [, ]. The different types include: F-ATPases (F1F0-ATPases), which are found in mitochondria, chloroplasts and bacterial plasma membranes where they are the prime producers of ATP, using the proton gradient generated by oxidative phosphorylation (mitochondria) or photosynthesis (chloroplasts). V-ATPases (V1V0-ATPases), which are primarily found in eukaryotic vacuoles and catalyse ATP hydrolysis to transport solutes and lower pH in organelles. A-ATPases (A1A0-ATPases), which are found in Archaea and function like F-ATPases (though with respect to their structure and some inhibitor responses, A-ATPases are more closely related to the V-ATPases). P-ATPases (E1E2-ATPases), which are found in bacteria and in eukaryotic plasma membranes and organelles, and function to transport a variety of different ions across membranes. E-ATPases, which are cell-surface enzymes that hydrolyse a range of NTPs, including extracellular ATP. V-ATPases (also known as V1V0-ATPase or vacuolar ATPase) (3.6.3.14 from EC) are found in the eukaryotic endomembrane system, and in the plasma membrane of prokaryotes and certain specialised eukaryotic cells. V-ATPases hydrolyse ATP to drive a proton pump, and are involved in a variety of vital intra- and inter-cellular processes such as receptor mediated endocytosis, protein trafficking, active transport of metabolites, homeostasis and neurotransmitter release []. V-ATPases are composed of two linked complexes: the V1 complex (subunits A-H) contains the catalytic core that hydrolyses ATP, while the V0 complex (subunits a, c, c', c'', d) forms the membrane-spanning pore. V-ATPases may have an additional role in membrane fusion through binding to t-SNARE proteins []. This entry represents the C-terminal domain of subunit H (also known as Vma13p) found in the V1 complex of V-ATPases. This subunit has a regulatory function, being responsible for activating ATPase activity and coupling ATPase activity to proton flow []. The yeast enzyme contains five motifs similar to the HEAT or Armadillo repeats seen in the importins, and can be divided into two distinct domains: a large N-terminal domain consisting of stacked alpha helices, and a smaller C-terminal alpha-helical domain with a similar superhelical topology to an armadillo repeat []. More information about this protein can be found at Protein of the Month: ATP Synthases [].; GO: 0016820 hydrolase activity, acting on acid anhydrides, catalyzing transmembrane movement of substances, 0015991 ATP hydrolysis coupled proton transport, 0000221 vacuolar proton-transporting V-type ATPase, V1 domain; PDB: 1HO8_A.
Probab=25.66 E-value=29 Score=24.49 Aligned_cols=32 Identities=19% Similarity=0.537 Sum_probs=19.4
Q ss_pred CeeeEcC----cccchhhhhhhcc-chhhhhhhhhcc
Q psy16371 9 SCLVLSP----ANLWQQDINMFQK-DSQLISTIFNHH 40 (91)
Q Consensus 9 ~CLlLSP----an~W~~d~~~F~~-D~~ii~TI~~~~ 40 (91)
|.|-=|| ..||..|..+|.+ |-.+++.+.+--
T Consensus 16 g~L~WSP~H~se~FW~ENa~kf~~~~~~llk~L~~lL 52 (119)
T PF11698_consen 16 GHLEWSPVHKSEKFWRENADKFEENNFELLKKLIKLL 52 (119)
T ss_dssp T-----GGGG-HHHHHHHSGGGSSGGGHHHHHHHHHH
T ss_pred CCccccCCCCCccHHHHHHHHHHHcccHHHHHHHHHH
Confidence 4555566 4689999999974 445777766543
No 12
>KOG2541|consensus
Probab=22.37 E-value=54 Score=26.82 Aligned_cols=29 Identities=24% Similarity=0.688 Sum_probs=26.1
Q ss_pred EcCcccch--hhhhhhccchhhhhhhhhccc
Q psy16371 13 LSPANLWQ--QDINMFQKDSQLISTIFNHHD 41 (91)
Q Consensus 13 LSPan~W~--~d~~~F~~D~~ii~TI~~~~~ 41 (91)
+||+++|+ ++.+.+.+.+..+.-|.++-+
T Consensus 163 ~a~sgY~~~P~~~d~Yl~~s~fLp~iNnEr~ 193 (296)
T KOG2541|consen 163 LAPSGYWHDPHQIDLYLEHSKFLPKINNERP 193 (296)
T ss_pred ccccccccCchHHHHHHhhchhhhhhcCCCC
Confidence 79999999 889999999999999988864
No 13
>cd08073 MPN_NLPC_P60 Mpr1p, Pad1p N-terminal (MPN) domains with catalytic isopeptidase activity (metal-binding) found in proteins also containing NlpC/P60 domains. This family contains bacterial MPN (also known as Mov34, PAD-1, JAMM, JAB, MPN+)-like domains at the N-terminus of NlpC/P60 phage tail protein domains. These domains contain the signature JAB1/MPN/Mov34 metalloenzyme (JAMM) motif, EXnHS/THX7SXXD, which is involved in zinc ion coordination and provides the active site for isopeptidase activity for the release of ubiquitin from ubiquitinated proteins (thus having deubiquitinating (DUB) activity) that are tagged for degradation. The JAMM proteins likely hydrolyze ubiquitin conjugates in a manner similar to thermolysin, in which the zinc-polarized aqua ligand serves as the nucleophile, compared with the classical DUBs that do so with a cysteine residue in the active site.
Probab=22.05 E-value=49 Score=22.17 Aligned_cols=50 Identities=12% Similarity=0.270 Sum_probs=33.5
Q ss_pred cCCCCCCeeeEcC----------cccchhhhhhhccch----------hhhhhhhhccccccccchhhhhh
Q psy16371 3 GVLPEYSCLVLSP----------ANLWQQDINMFQKDS----------QLISTIFNHHDLNKAKVTLSEIL 53 (91)
Q Consensus 3 ~~lPe~~CLlLSP----------an~W~~d~~~F~~D~----------~ii~TI~~~~~~~~~~~sl~dlL 53 (91)
.-.|+..|=+|.- .|.|..-...|.-|| +|+...++|-+ ....-|-.|+.
T Consensus 12 ~~~P~E~CGll~g~~~~~~~~p~~N~~~~p~~~F~idp~e~~~a~~~~~ivgi~HSHP~-~~a~PS~~D~~ 81 (108)
T cd08073 12 AEYPREACGLVVRKGRKLRYIPCRNIAADPEEHFEISPEDYAAAEDEGEIVAVVHSHPD-GSPAPSEADRA 81 (108)
T ss_pred HCCCCcceEEEEecCCceEEEECccCCCCccceEEeCHHHHHHHhcCCCEEEEEEcCCC-CCCCCCHHHHH
Confidence 4578888877765 567776668899888 46666666643 23445666764
No 14
>cd02164 PPAT_CoAS phosphopantetheine adenylyltransferase domain of eukaryotic and archaeal bifunctional enzymes. The PPAT domain of the bifunctional enzyme with PPAT and DPCK functions. The final two steps of the CoA biosynthesis pathway are catalyzed by phosphopantetheine adenylyltransferase (PPAT) and dephospho-CoA (dPCoA) kinase (DPCK). The PPAT reaction involves the reversible adenylation of 4'-phosphopantetheine to form 3'-dPCoA and PPi, and DPCK catalyses phosphorylation of the 3'-hydroxy group of the ribose moiety of dPCoA. In eukaryotes the two enzymes are part of a large multienzyme complex . Studies in Corynebacterium ammoniagenes suggested that separate enzymes were present, and this was confirmed through identification of the bacterial PPAT/CoAD.
Probab=20.19 E-value=55 Score=23.11 Aligned_cols=14 Identities=29% Similarity=0.603 Sum_probs=11.6
Q ss_pred CCCCCeeeEcCccc
Q psy16371 5 LPEYSCLVLSPANL 18 (91)
Q Consensus 5 lPe~~CLlLSPan~ 18 (91)
-|++.||++||-.+
T Consensus 87 ~~~~d~lVVS~ET~ 100 (143)
T cd02164 87 DPDLEAIVVSPETY 100 (143)
T ss_pred CCCCCEEEEcHHHh
Confidence 38999999999654
No 15
>KOG1500|consensus
Probab=20.15 E-value=53 Score=28.32 Aligned_cols=20 Identities=35% Similarity=0.732 Sum_probs=17.1
Q ss_pred cCCCCCCeeeEcC-------------cccchhh
Q psy16371 3 GVLPEYSCLVLSP-------------ANLWQQD 22 (91)
Q Consensus 3 ~~lPe~~CLlLSP-------------an~W~~d 22 (91)
.++|.+|=+=++| ||||+|.
T Consensus 277 kMfPT~gdiHlAPFsDE~Ly~E~~nkAnFWyQq 309 (517)
T KOG1500|consen 277 KMFPTVGDIHLAPFSDEQLYVEQFNKANFWYQQ 309 (517)
T ss_pred cccCcccceeecccchHHHHHHHHhhhhhhhhh
Confidence 4789999999998 8999863
Done!