Query psy12338
Match_columns 106
No_of_seqs 20 out of 22
Neff 3.0
Searched_HMMs 46136
Date Fri Aug 16 16:29:48 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy12338.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/12338hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF00767 Poty_coat: Potyvirus 6.6 2.1E+02 0.0046 23.2 0.6 11 34-44 93-103 (237)
2 PF10835 DUF2573: Protein of u 5.8 2.2E+02 0.0047 20.2 0.2 8 95-102 50-57 (82)
3 PF15362 Enamelin: Enamelin 4.2 9.4E+02 0.02 23.6 3.2 16 2-17 29-44 (906)
4 PF15362 Enamelin: Enamelin 3.8 1.1E+03 0.024 23.2 3.3 13 32-44 31-43 (906)
5 PF06919 Phage_T4_Gp30_7: Phag 3.4 5.4E+02 0.012 19.3 0.8 9 62-70 76-84 (121)
6 PF05840 Phage_GPA: Bacterioph 3.3 5.2E+02 0.011 22.2 0.7 10 86-96 242-251 (371)
7 PF05001 RNA_pol_Rpb1_R: RNA p 3.0 6.4E+02 0.014 12.3 0.6 14 6-19 1-14 (14)
8 cd04051 C2_SRC2_like C2 domain 2.3 9.9E+02 0.021 15.5 1.0 9 97-105 43-51 (125)
9 cd04016 C2_Tollip C2 domain pr 2.2 9.1E+02 0.02 16.7 0.8 9 97-105 43-51 (121)
10 TIGR03024 arch_pef_cterm PEF-C 2.2 7.7E+02 0.017 13.9 0.3 7 3-10 2-8 (26)
No 1
>PF00767 Poty_coat: Potyvirus coat protein; InterPro: IPR001592 This protease is found in genome polyproteins of potyviruses. The genome polyprotein contains: N-terminal protein (P1), helper component protease (3.4.22 from EC, HC-PRO), protein P3, 6KD protein (6K1), cytoplasmic inclusion protein (CI), 6KD protein 2 (6K2), genome-linked protein (VPG), nuclear inclusion protein A (3.4.22 from EC), nuclear inclusion protein B (2.7.7.48 from EC) and coat protein (CP). The coat protein is at the C terminus of the polyprotein.; GO: 0019028 viral capsid
Probab=6.64 E-value=2.1e+02 Score=23.17 Aligned_cols=11 Identities=55% Similarity=0.773 Sum_probs=5.0
Q ss_pred CCCccCCCCCc
Q psy12338 34 NGTKPHWNGMQ 44 (106)
Q Consensus 34 NgT~p~~Ngt~ 44 (106)
|||||+-||++
T Consensus 93 NGTSp~~~g~w 103 (237)
T PF00767_consen 93 NGTSPNINGNW 103 (237)
T ss_pred cccccCcccch
Confidence 44444444443
No 2
>PF10835 DUF2573: Protein of unknown function (DUF2573); InterPro: IPR020393 This entry contains proteins with no known function.
Probab=5.78 E-value=2.2e+02 Score=20.16 Aligned_cols=8 Identities=63% Similarity=1.469 Sum_probs=4.1
Q ss_pred CCCCCCCC
Q psy12338 95 HWNGIEPH 102 (106)
Q Consensus 95 ~~ngt~p~ 102 (106)
|||+++|+
T Consensus 50 HWN~~~Pe 57 (82)
T PF10835_consen 50 HWNGTYPE 57 (82)
T ss_pred hhcccCch
Confidence 45555553
No 3
>PF15362 Enamelin: Enamelin
Probab=4.19 E-value=9.4e+02 Score=23.60 Aligned_cols=16 Identities=44% Similarity=0.574 Sum_probs=10.1
Q ss_pred CCCCCCCccCCCCCcc
Q psy12338 2 EPHWNGMEPHWNGMQP 17 (106)
Q Consensus 2 ~p~~ngT~P~~NGT~p 17 (106)
||.=|-|+|+-|-|.|
T Consensus 29 eP~~NsTv~EtNSTQp 44 (906)
T PF15362_consen 29 EPSANSTVPETNSTQP 44 (906)
T ss_pred CCCCCcccccccccCC
Confidence 4555666666666666
No 4
>PF15362 Enamelin: Enamelin
Probab=3.81 E-value=1.1e+03 Score=23.18 Aligned_cols=13 Identities=38% Similarity=0.386 Sum_probs=5.0
Q ss_pred CCCCCccCCCCCc
Q psy12338 32 HRNGTKPHWNGMQ 44 (106)
Q Consensus 32 ~~NgT~p~~Ngt~ 44 (106)
.-|-|+++-|-|+
T Consensus 31 ~~NsTv~EtNSTQ 43 (906)
T PF15362_consen 31 SANSTVPETNSTQ 43 (906)
T ss_pred CCCcccccccccC
Confidence 3333333333333
No 5
>PF06919 Phage_T4_Gp30_7: Phage Gp30.7 protein; InterPro: IPR009690 This family consists of several phage Gp30.7 proteins of 121 residues in length. Family members seem to be exclusively from the T4-like viruses. The function of this family is unknown.
Probab=3.36 E-value=5.4e+02 Score=19.32 Aligned_cols=9 Identities=56% Similarity=1.269 Sum_probs=4.8
Q ss_pred CCCCcCCCC
Q psy12338 62 NGMEPHWNG 70 (106)
Q Consensus 62 Ngt~P~~NG 70 (106)
=||.|.|||
T Consensus 76 LgTHPcwnG 84 (121)
T PF06919_consen 76 LGTHPCWNG 84 (121)
T ss_pred cCCCcCccC
Confidence 355555555
No 6
>PF05840 Phage_GPA: Bacteriophage replication gene A protein (GPA); InterPro: IPR008766 Replication gene A proteins (also known as GpA) are found in bacteriophages and in bacteria as part of a suspected prophage. These proteins function as endonucleases during DNA replication [,,].; GO: 0006260 DNA replication
Probab=3.27 E-value=5.2e+02 Score=22.18 Aligned_cols=10 Identities=70% Similarity=1.743 Sum_probs=0.0
Q ss_pred ccCCCCCccCC
Q psy12338 86 EPHWNGMKPHW 96 (106)
Q Consensus 86 ~P~~NGt~P~~ 96 (106)
|||-+|| |||
T Consensus 242 EPHhDGT-PHW 251 (371)
T PF05840_consen 242 EPHHDGT-PHW 251 (371)
T ss_pred cccCCCC-cee
No 7
>PF05001 RNA_pol_Rpb1_R: RNA polymerase Rpb1 C-terminal repeat ; InterPro: IPR000684 RNA polymerase II (2.7.7.6 from EC) [, ] is one of the three forms of RNA polymerase that exist in eukaryotic nuclei. The C-terminal region of the largest subunit of this oligomeric enzyme consists of the tandem repeat of a conserved heptapeptide []. The number of repeats varies according to the species (for example there are 17 in Plasmodium, 26 in yeast, 44 in Drosophila, and 52 in mammals). The region containing these repeats is essential for the function of polymerase II. This repeated heptapeptide (called CT7n or CTD) is rich in hydroxyl groups. It probably projects out of the globular catalytic domain and may interact with the acidic activator domains of transcriptional regulatory proteins. It is also known to bind by intercalation to DNA. RNA polymerase II is activated by phosphorylation. The serine and threonine residues in the CT7n repeats are the target of such phosphorylation.; GO: 0003677 DNA binding, 0006366 transcription from RNA polymerase II promoter, 0005665 DNA-directed RNA polymerase II, core complex; PDB: 2L0I_B 2GHQ_C 2GHT_C.
Probab=3.01 E-value=6.4e+02 Score=12.32 Aligned_cols=14 Identities=14% Similarity=0.439 Sum_probs=0.0
Q ss_pred CCCccCCCCCccCC
Q psy12338 6 NGMEPHWNGMQPHW 19 (106)
Q Consensus 6 ngT~P~~NGT~p~~ 19 (106)
+-+.|.+.-++|.+
T Consensus 1 SP~SP~ysPtSP~y 14 (14)
T PF05001_consen 1 SPTSPGYSPTSPGY 14 (14)
T ss_dssp BTTB---BTTB---
T ss_pred CCCCCCCCccCCCC
No 8
>cd04051 C2_SRC2_like C2 domain present in Soybean genes Regulated by Cold 2 (SRC2)-like proteins. SRC2 production is a response to pathogen infiltration. The initial response of increased Ca2+ concentrations are coupled to downstream signal transduction pathways via calcium binding proteins. SRC2 contains a single C2 domain which localizes to the plasma membrane and is involved in Ca2+ dependent protein binding. C2 domains fold into an 8-standed beta-sandwich that can adopt 2 structural arrangements: Type I and Type II, distinguished by a circular permutation involving their N- and C-terminal beta strands. Many C2 domains are Ca2+-dependent membrane-targeting modules that bind a wide variety of substances including bind phospholipids, inositol polyphosphates, and intracellular proteins. Most C2 domain proteins are either signal transduction enzymes that contain a single C2 domain, such as protein kinase C, or membrane trafficking proteins which contain at least two C2 domains, such
Probab=2.27 E-value=9.9e+02 Score=15.55 Aligned_cols=9 Identities=56% Similarity=1.339 Sum_probs=0.0
Q ss_pred CCCCCCCcC
Q psy12338 97 NGIEPHWNE 105 (106)
Q Consensus 97 ngt~p~~~~ 105 (106)
++..|.|||
T Consensus 43 ~~~~P~Wne 51 (125)
T cd04051 43 GGTNPTWNE 51 (125)
T ss_pred CCCCCCCCC
No 9
>cd04016 C2_Tollip C2 domain present in Toll-interacting protein (Tollip). Tollip is a part of the Interleukin-1 receptor (IL-1R) signaling pathway. Tollip is proposed to link serine/threonine kinase IRAK to IL-1Rs as well as inhibiting phosphorylation of IRAK. There is a single C2 domain present in Tollip. C2 domains fold into an 8-standed beta-sandwich that can adopt 2 structural arrangements: Type I and Type II, distinguished by a circular permutation involving their N- and C-terminal beta strands. Many C2 domains are Ca2+-dependent membrane-targeting modules that bind a wide variety of substances including bind phospholipids, inositol polyphosphates, and intracellular proteins. Most C2 domain proteins are either signal transduction enzymes that contain a single C2 domain, such as protein kinase C, or membrane trafficking proteins which contain at least two C2 domains, such as synaptotagmin 1. However, there are a few exceptions to this including RIM isoforms and some splice varian
Probab=2.24 E-value=9.1e+02 Score=16.71 Aligned_cols=9 Identities=33% Similarity=1.003 Sum_probs=0.0
Q ss_pred CCCCCCCcC
Q psy12338 97 NGIEPHWNE 105 (106)
Q Consensus 97 ngt~p~~~~ 105 (106)
++..|-|||
T Consensus 43 ~~~nP~WNe 51 (121)
T cd04016 43 GAKNPRWNK 51 (121)
T ss_pred CCCCCccCe
No 10
>TIGR03024 arch_pef_cterm PEF-C-terminal archaeal protein sorting domain. This domain, distantly related to the PEP-Cterm domain described in model TIGR02595, is found in Methanosarcina mazei in four different proteins, as well as in other archaea such as Methanococcoides burtonii. Several proteins with this domain have their genes only a short distance from a distant homology of EpsH, a proposed integral membrane transpeptidase.
Probab=2.18 E-value=7.7e+02 Score=13.87 Aligned_cols=7 Identities=14% Similarity=0.453 Sum_probs=0.0
Q ss_pred CCCCCCcc
Q psy12338 3 PHWNGMEP 10 (106)
Q Consensus 3 p~~ngT~P 10 (106)
|||+ |.+
T Consensus 2 PEF~-~i~ 8 (26)
T TIGR03024 2 PEFS-TIA 8 (26)
T ss_pred CCCc-chH
Done!