Query psy16648
Match_columns 56
No_of_seqs 103 out of 147
Neff 3.1
Searched_HMMs 46136
Date Fri Aug 16 18:25:14 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy16648.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/16648hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF03200 Glyco_hydro_63: Manno 99.8 6E-22 1.3E-26 155.6 3.5 51 4-55 42-92 (801)
2 KOG2161|consensus 99.7 5.5E-18 1.2E-22 135.9 1.5 52 4-55 83-134 (849)
3 PF04190 DUF410: Protein of un 54.0 3 6.5E-05 29.1 -0.8 18 21-38 237-255 (260)
4 KOG3024|consensus 49.7 3.3 7E-05 31.4 -1.2 13 20-32 278-290 (312)
5 PF06820 Phage_fiber_C: Putati 38.8 27 0.00059 21.2 1.9 31 24-54 17-47 (64)
6 PF11283 DUF3084: Protein of u 37.2 9.1 0.0002 23.9 -0.4 14 22-35 34-47 (79)
7 PF00284 Cytochrom_B559a: Lume 35.9 11 0.00024 21.0 -0.2 21 14-35 6-26 (40)
8 PF13630 SdpI: SdpI/YhfL prote 34.9 24 0.00053 19.5 1.2 13 17-29 3-15 (76)
9 COG5321 Uncharacterized protei 29.6 26 0.00056 24.5 0.8 30 11-40 77-112 (164)
10 PF04334 DUF478: Protein of un 26.1 39 0.00084 20.6 1.1 35 2-42 3-39 (68)
11 smart00047 LYZ2 Lysozyme subfa 22.2 66 0.0014 20.8 1.6 20 14-33 43-67 (147)
12 PRK09855 PTS system N-acetylga 20.7 11 0.00023 27.3 -2.5 11 9-19 106-116 (263)
No 1
>PF03200 Glyco_hydro_63: Mannosyl oligosaccharide glucosidase; InterPro: IPR004888 O-Glycosyl hydrolases 3.2.1. from EC are a widespread group of enzymes that hydrolyse the glycosidic bond between two or more carbohydrates, or between a carbohydrate and a non-carbohydrate moiety. A classification system for glycosyl hydrolases, based on sequence similarity, has led to the definition of 85 different families [, ]. This classification is available on the CAZy (CArbohydrate-Active EnZymes) web site. This is a family of eukaryotic enzymes belonging to glycosyl hydrolase family 63 (GH63 from CAZY). They catalyse the specific cleavage of the non-reducing terminal glucose residue from Glc(3)Man(9)GlcNAc(2). Mannosyl oligosaccharide glucosidase 3.2.1.106 from EC is the first enzyme in the N-linked oligosaccharide processing pathway. ; GO: 0004573 mannosyl-oligosaccharide glucosidase activity, 0009311 oligosaccharide metabolic process
Probab=99.84 E-value=6e-22 Score=155.62 Aligned_cols=51 Identities=43% Similarity=0.851 Sum_probs=46.8
Q ss_pred eccCCCCceeeecCCCCceeeeecCCCCCceEeeeeecCCccCCCccccccc
Q psy16648 4 KSGLAVRDRYWGSYRPGTYFGMKTREPYSPVVGLMWFFPNKLINGEGFIRKN 55 (56)
Q Consensus 4 ~s~~~n~sl~WGtYRp~lYFG~r~R~p~sl~~GLmW~~~~~~~~~~~~~r~~ 55 (56)
.+..+|++|+|||||||+|||||||+|+||++||||+++++ .+++..+||.
T Consensus 42 ~~~~~n~sl~WGtYRP~lYFGmr~R~p~sl~~GLMW~~~~~-~~~~~~iRH~ 92 (801)
T PF03200_consen 42 FSGEHNDSLLWGTYRPNLYFGMRPRSPKSLLTGLMWFDQDS-YDGQSKIRHT 92 (801)
T ss_pred hccccCccccccccCCcceEeeccCCCCCceeeeeeeeccc-cccccceeEe
Confidence 47888999999999999999999999999999999999965 5678999985
No 2
>KOG2161|consensus
Probab=99.69 E-value=5.5e-18 Score=135.85 Aligned_cols=52 Identities=33% Similarity=0.682 Sum_probs=48.4
Q ss_pred eccCCCCceeeecCCCCceeeeecCCCCCceEeeeeecCCccCCCccccccc
Q psy16648 4 KSGLAVRDRYWGSYRPGTYFGMKTREPYSPVVGLMWFFPNKLINGEGFIRKN 55 (56)
Q Consensus 4 ~s~~~n~sl~WGtYRp~lYFG~r~R~p~sl~~GLmW~~~~~~~~~~~~~r~~ 55 (56)
.+++.+++++|||||||+|||||||+|+|+++||||+.+++.....-.+||+
T Consensus 83 ~~~~~~psl~WGtYRp~lYFGlr~r~p~slm~GLMW~~~~~~~p~~~~lRH~ 134 (849)
T KOG2161|consen 83 LQGETNPSLLWGTYRPNLYFGLRPRSPHSLMTGLMWYNQKDTFPYKPKLRHF 134 (849)
T ss_pred hccccCCcccccCCCcceEEeecCCCchhhhhhhheecccccCCcchhhhhh
Confidence 4678999999999999999999999999999999999999988877888886
No 3
>PF04190 DUF410: Protein of unknown function (DUF410) ; InterPro: IPR007317 This is a family of conserved eukaryotic proteins with undetermined function.; PDB: 3LKU_E 2WPV_G.
Probab=54.04 E-value=3 Score=29.13 Aligned_cols=18 Identities=22% Similarity=0.506 Sum_probs=3.4
Q ss_pred ceeeeecCCCCC-ceEeee
Q psy16648 21 TYFGMKTREPYS-PVVGLM 38 (56)
Q Consensus 21 lYFG~r~R~p~s-l~~GLm 38 (56)
+|||+++..+.+ .+.|||
T Consensus 237 ~yFgi~~~~~~~~~l~~mm 255 (260)
T PF04190_consen 237 LYFGIQPPQQQNGMLGDMM 255 (260)
T ss_dssp HHH---S------------
T ss_pred HHCCCCCCCCCCchHHHHH
Confidence 799999765555 777776
No 4
>KOG3024|consensus
Probab=49.73 E-value=3.3 Score=31.44 Aligned_cols=13 Identities=38% Similarity=0.994 Sum_probs=11.8
Q ss_pred CceeeeecCCCCC
Q psy16648 20 GTYFGMKTREPYS 32 (56)
Q Consensus 20 ~lYFG~r~R~p~s 32 (56)
.+|||++|..|.|
T Consensus 278 elyFgi~~~~~~s 290 (312)
T KOG3024|consen 278 ELYFGIRPKQPLS 290 (312)
T ss_pred HHHcCCCCCcccc
Confidence 3799999999999
No 5
>PF06820 Phage_fiber_C: Putative prophage tail fibre C-terminus; InterPro: IPR009640 This entry represents the C terminus of phage 933W tail fibre protein. This domain is found together with conserved RLGP motif. The characteristics of the protein distribution suggest prophage matches.
Probab=38.78 E-value=27 Score=21.19 Aligned_cols=31 Identities=19% Similarity=0.308 Sum_probs=25.6
Q ss_pred eeecCCCCCceEeeeeecCCccCCCcccccc
Q psy16648 24 GMKTREPYSPVVGLMWFFPNKLINGEGFIRK 54 (56)
Q Consensus 24 G~r~R~p~sl~~GLmW~~~~~~~~~~~~~r~ 54 (56)
|.-|-..-.+++||.-..+.+....|.+||+
T Consensus 17 G~~P~tdg~liT~ltfL~pkd~~~vq~~f~~ 47 (64)
T PF06820_consen 17 GWFPETDGRLITGLTFLDPKDATRVQGVFRH 47 (64)
T ss_pred ccccCCCcceEeeeEEecccCchhheeeeee
Confidence 3345555689999999999999999999987
No 6
>PF11283 DUF3084: Protein of unknown function (DUF3084); InterPro: IPR021435 This bacterial family of proteins has no known function.
Probab=37.19 E-value=9.1 Score=23.92 Aligned_cols=14 Identities=29% Similarity=0.439 Sum_probs=10.6
Q ss_pred eeeeecCCCCCceE
Q psy16648 22 YFGMKTREPYSPVV 35 (56)
Q Consensus 22 YFG~r~R~p~sl~~ 35 (56)
.||+|||....+++
T Consensus 34 lFgLRPr~Ta~lVt 47 (79)
T PF11283_consen 34 LFGLRPRYTAILVT 47 (79)
T ss_pred hhcCCCccceeehH
Confidence 59999998765543
No 7
>PF00284 Cytochrom_B559a: Lumenal portion of Cytochrome b559, alpha (gene psbE) subunit family.; InterPro: IPR013082 Oxygenic photosynthesis uses two multi-subunit photosystems (I and II) located in the cell membranes of cyanobacteria and in the thylakoid membranes of chloroplasts in plants and algae. Photosystem II (PSII) has a P680 reaction centre containing chlorophyll 'a' that uses light energy to carry out the oxidation (splitting) of water molecules, and to produce ATP via a proton pump. Photosystem I (PSI) has a P700 reaction centre containing chlorophyll that takes the electron and associated hydrogen donated from PSII to reduce NADP+ to NADPH. Both ATP and NADPH are subsequently used in the light-independent reactions to convert carbon dioxide to glucose using the hydrogen atom extracted from water by PSII, releasing oxygen as a by-product. PSII is a multisubunit protein-pigment complex containing polypeptides both intrinsic and extrinsic to the photosynthetic membrane [, ]. Within the core of the complex, the chlorophyll and beta-carotene pigments are mainly bound to the antenna proteins CP43 (PsbC) and CP47 (PsbB), which pass the excitation energy on to the reaction centre proteins D1 (Qb, PsbA) and D2 (Qa, PsbD) that bind all the redox-active cofactors involved in the energy conversion process. The PSII oxygen-evolving complex (OEC) oxidises water to provide protons for use by PSI, and consists of OEE1 (PsbO), OEE2 (PsbP) and OEE3 (PsbQ). The remaining subunits in PSII are of low molecular weight (less than 10 kDa), and are involved in PSII assembly, stabilisation, dimerisation, and photo-protection []. The alpha subunit (PsbE) of cytochrome b559, forms a haem-binding heterodimer with the beta subunit (PsbF) (IPR006241 from INTERPRO) within the reaction centre core of PSII. Both PsbE and PsbF are essential components for PSII assembly, and are probably involved in secondary electron transport mechanisms that help to protect PSII from photo-damage []. This domain occurs in the lumenal region of the alpha subunit. It is usually found in conjuction with an N-terminal domain (IPR013081 from INTERPRO).; GO: 0046872 metal ion binding, 0015979 photosynthesis, 0009523 photosystem II, 0016021 integral to membrane; PDB: 1W5C_K 1S5L_e 3BZ2_E 3PRQ_E 2AXT_E 4FBY_R 3PRR_E 3BZ1_E 3KZI_E 3A0H_E ....
Probab=35.92 E-value=11 Score=21.03 Aligned_cols=21 Identities=29% Similarity=0.699 Sum_probs=7.4
Q ss_pred eecCCCCceeeeecCCCCCceE
Q psy16648 14 WGSYRPGTYFGMKTREPYSPVV 35 (56)
Q Consensus 14 WGtYRp~lYFG~r~R~p~sl~~ 35 (56)
.||=|||-||- -.|..-||++
T Consensus 6 FGtPRPneYft-~~rq~iPli~ 26 (40)
T PF00284_consen 6 FGTPRPNEYFT-ESRQEIPLIT 26 (40)
T ss_dssp CT---TTCSS--SS--S-----
T ss_pred cCCCCcccccc-cccccCcccc
Confidence 58889999994 3444555543
No 8
>PF13630 SdpI: SdpI/YhfL protein family
Probab=34.91 E-value=24 Score=19.46 Aligned_cols=13 Identities=23% Similarity=0.555 Sum_probs=10.5
Q ss_pred CCCCceeeeecCC
Q psy16648 17 YRPGTYFGMKTRE 29 (56)
Q Consensus 17 YRp~lYFG~r~R~ 29 (56)
=+||-.+|+|++.
T Consensus 3 ~~~N~~~G~Rt~~ 15 (76)
T PF13630_consen 3 KKPNSWIGYRTPW 15 (76)
T ss_pred CCCCCeeeEeChH
Confidence 3689999999864
No 9
>COG5321 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=29.61 E-value=26 Score=24.52 Aligned_cols=30 Identities=30% Similarity=0.563 Sum_probs=23.4
Q ss_pred ceeeecCCCC---ceeeeecCCCCCce---Eeeeee
Q psy16648 11 DRYWGSYRPG---TYFGMKTREPYSPV---VGLMWF 40 (56)
Q Consensus 11 sl~WGtYRp~---lYFG~r~R~p~sl~---~GLmW~ 40 (56)
..-|+-||++ +||..-|-.|.-+. -|||-.
T Consensus 77 DrKWpdYr~~cDr~fFAthp~vP~~IfPeecGlils 112 (164)
T COG5321 77 DRKWPDYRLHCDRLFFATHPSVPDEIFPEECGLILS 112 (164)
T ss_pred cccCcchhhhchheeeeccCCCccccCcccCCeEee
Confidence 6789999999 89999998876553 455543
No 10
>PF04334 DUF478: Protein of unknown function (DUF478); InterPro: IPR007429 This family contains uncharacterised protein encoded on Trypanosomal kinetoplast minicircles.
Probab=26.07 E-value=39 Score=20.60 Aligned_cols=35 Identities=20% Similarity=0.423 Sum_probs=22.1
Q ss_pred ceeccCCCCceeeecCCCCceeeeecCC--CCCceEeeeeecC
Q psy16648 2 VIKSGLAVRDRYWGSYRPGTYFGMKTRE--PYSPVVGLMWFFP 42 (56)
Q Consensus 2 ~~~s~~~n~sl~WGtYRp~lYFG~r~R~--p~sl~~GLmW~~~ 42 (56)
|+.+...|+-++||- |-+|--+ ---+++-..|...
T Consensus 3 vq~~~ytnpvlfwgi------fevrgtskgvgviltrffwvfs 39 (68)
T PF04334_consen 3 VQKYTYTNPVLFWGI------FEVRGTSKGVGVILTRFFWVFS 39 (68)
T ss_pred ceeecCcCceEEEEE------EEEeecccceEEEEEEeeeecc
Confidence 467888999999997 4455433 2234555566543
No 11
>smart00047 LYZ2 Lysozyme subfamily 2. Eubacterial enzymes distantly related to eukaryotic lysozymes.
Probab=22.17 E-value=66 Score=20.82 Aligned_cols=20 Identities=25% Similarity=0.615 Sum_probs=13.3
Q ss_pred eecCC----CCceeeee-cCCCCCc
Q psy16648 14 WGSYR----PGTYFGMK-TREPYSP 33 (56)
Q Consensus 14 WGtYR----p~lYFG~r-~R~p~sl 33 (56)
||+-+ -|-+|||| +-..+++
T Consensus 43 wG~S~La~~~nNlFGIK~~~~g~~~ 67 (147)
T smart00047 43 WGTSKLAKKYNNLFGIKGAYDGRPV 67 (147)
T ss_pred CCCCCccCCCCCeeccccCCCCCce
Confidence 78765 47899998 4344443
No 12
>PRK09855 PTS system N-acetylgalactosamine-specific transporter subunit IID; Provisional
Probab=20.72 E-value=11 Score=27.31 Aligned_cols=11 Identities=18% Similarity=0.446 Sum_probs=8.7
Q ss_pred CCceeeecCCC
Q psy16648 9 VRDRYWGSYRP 19 (56)
Q Consensus 9 n~sl~WGtYRp 19 (56)
-||++|||+||
T Consensus 106 GDSlf~gt~~p 116 (263)
T PRK09855 106 GDAIFWFTLLP 116 (263)
T ss_pred hhHHHHHHHHH
Confidence 47888888887
Done!