Query psy18025
Match_columns 99
No_of_seqs 76 out of 78
Neff 3.4
Searched_HMMs 46136
Date Fri Aug 16 20:34:21 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy18025.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/18025hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF02187 GAS2: Growth-Arrest-S 90.7 0.12 2.5E-06 34.9 1.0 20 72-91 1-20 (73)
2 smart00243 GAS2 Growth-Arrest- 89.3 0.21 4.6E-06 33.9 1.4 19 73-91 2-20 (73)
3 PTZ00423 glideosome-associated 62.9 3.1 6.8E-05 32.4 0.6 25 66-90 146-170 (193)
4 PF11629 Mst1_SARAH: C termina 27.3 48 0.001 21.0 1.7 11 18-29 22-32 (49)
5 PHA00743 helix-turn-helix prot 24.4 29 0.00063 22.2 0.3 13 71-83 1-13 (51)
6 TIGR03272 methan_mark_6 putati 23.0 72 0.0016 23.8 2.2 21 6-26 74-94 (132)
7 TIGR01589 A_thal_3526 uncharac 22.2 19 0.0004 23.3 -0.9 11 76-86 2-12 (57)
8 PHA02538 N capsid protein; Pro 20.5 48 0.001 28.0 0.9 17 69-85 201-217 (348)
9 TIGR01551 major_capsid_P2 phag 20.3 49 0.0011 27.7 0.9 17 69-85 190-206 (327)
10 PF07723 LRR_2: Leucine Rich R 20.2 62 0.0013 17.2 1.0 11 76-86 16-26 (26)
No 1
>PF02187 GAS2: Growth-Arrest-Specific Protein 2 Domain; InterPro: IPR003108 The growth-arrest-specific protein 2 domain is found associated with the spectrin repeat, calponin homology domain and EF hand in many proteins. It is found among others in the growth arrest-specific protein 2 [].; GO: 0007050 cell cycle arrest; PDB: 1V5R_A.
Probab=90.73 E-value=0.12 Score=34.90 Aligned_cols=20 Identities=10% Similarity=-0.004 Sum_probs=14.2
Q ss_pred CchHHHHhhhCCCCCCCCcc
Q psy18025 72 KSLDEMDSNHQPPDPKSTAL 91 (99)
Q Consensus 72 rnLDELVq~LVs~ct~~~~~ 91 (99)
.+||+.|+.|++.|+|.+.+
T Consensus 1 ~~ld~~V~~iv~~C~C~~~f 20 (73)
T PF02187_consen 1 NKLDDEVRRIVNQCSCPNKF 20 (73)
T ss_dssp -HHHHHHHHHHTS--SSS--
T ss_pred CcHHHHHHHHHhcCCCCCce
Confidence 36999999999999998854
No 2
>smart00243 GAS2 Growth-Arrest-Specific Protein 2 Domain. GROWTH-ARREST-SPECIFIC PROTEIN 2 Domain
Probab=89.33 E-value=0.21 Score=33.85 Aligned_cols=19 Identities=11% Similarity=-0.018 Sum_probs=17.0
Q ss_pred chHHHHhhhCCCCCCCCcc
Q psy18025 73 SLDEMDSNHQPPDPKSTAL 91 (99)
Q Consensus 73 nLDELVq~LVs~ct~~~~~ 91 (99)
+||+.|+.++++|+|.+..
T Consensus 2 ~id~~v~~~~~~C~C~~~f 20 (73)
T smart00243 2 KIDDEVKRIVEDCKCPTKF 20 (73)
T ss_pred cHHHHHHHHHhcCCCCCCc
Confidence 6899999999999998654
No 3
>PTZ00423 glideosome-associated protein 45; Provisional
Probab=62.90 E-value=3.1 Score=32.37 Aligned_cols=25 Identities=16% Similarity=0.129 Sum_probs=22.8
Q ss_pred ccCCccCchHHHHhhhCCCCCCCCc
Q psy18025 66 IVTNDLKSLDEMDSNHQPPDPKSTA 90 (99)
Q Consensus 66 ~~~~dlrnLDELVq~LVs~ct~~~~ 90 (99)
.+||||..+||.-+.++++|-|+-.
T Consensus 146 ~TPcDM~k~DEtAk~~s~RCGcdLg 170 (193)
T PTZ00423 146 VTPCDMNKLDETAKVFSRRCGCDLG 170 (193)
T ss_pred cCccchhhHHHHHHHHHHhhCCCCC
Confidence 6789999999999999999999854
No 4
>PF11629 Mst1_SARAH: C terminal SARAH domain of Mst1; InterPro: IPR024205 The SARAH (Sav/Rassf/Hpo) domain is found at the C terminus in three classes of eukaryotic tumour suppressors that give the domain its name. In the Sav (Salvador) and Hpo (Hippo) families, the SARAH domain mediates signal transduction from Hpo via the Sav scaffolding protein to the downstream component Wts (Warts); the phosphorylation of Wts by Hpo triggers cell cycle arrest and apoptosis by down-regulating cyclin E, Diap 1 and other targets []. The SARAH domain is also involved in dimerisation, as in the human Hpo orthologue, Mst1, which homodimerises via its C-terminal SARAH domain. The SARAH domain is found associated with other domains, such as protein kinase domains, WW/rsp5/WWP domain (IPR001202 from INTERPRO), C1 domain (IPR002219 from INTERPRO), LIM domain (IPR001781 from INTERPRO), or the Ras-associating (RA) domain (IPR000159 from INTERPRO).; GO: 0004674 protein serine/threonine kinase activity; PDB: 2JO8_A.
Probab=27.30 E-value=48 Score=20.97 Aligned_cols=11 Identities=36% Similarity=0.700 Sum_probs=7.2
Q ss_pred HHhHHHHHHhhh
Q psy18025 18 IQLEREIDREIA 29 (99)
Q Consensus 18 v~le~ei~~e~r 29 (99)
..||+||+ |+|
T Consensus 22 ~~ME~Eie-elr 32 (49)
T PF11629_consen 22 PEMEQEIE-ELR 32 (49)
T ss_dssp HHHHHHHH-HHH
T ss_pred HHHHHHHH-HHH
Confidence 35777777 564
No 5
>PHA00743 helix-turn-helix protein
Probab=24.44 E-value=29 Score=22.19 Aligned_cols=13 Identities=23% Similarity=0.107 Sum_probs=10.6
Q ss_pred cCchHHHHhhhCC
Q psy18025 71 LKSLDEMDSNHQP 83 (99)
Q Consensus 71 lrnLDELVq~LVs 83 (99)
|.-||+.||+|+|
T Consensus 1 f~eLD~~iReLLs 13 (51)
T PHA00743 1 FLELDEDVRELLS 13 (51)
T ss_pred CchhHHHHHHHHH
Confidence 4568999999987
No 6
>TIGR03272 methan_mark_6 putative methanogenesis marker protein 6. Members of this protein family, to date, are found in a completed prokaryotic genome if and only if the species is one of the archaeal methanogens. The exact function is unknown, but likely is linked to methanogenesis or a process closely connected to it.
Probab=23.02 E-value=72 Score=23.81 Aligned_cols=21 Identities=38% Similarity=0.542 Sum_probs=17.9
Q ss_pred hhcccCCCCCchHHhHHHHHH
Q psy18025 6 RGAKLGMPAPMLIQLEREIDR 26 (99)
Q Consensus 6 ~~arfG~~~P~Lv~le~ei~~ 26 (99)
||.|.|=+-|++-|||.|...
T Consensus 74 Ra~RGGgPRpGFhqle~E~~~ 94 (132)
T TIGR03272 74 RANRGGGPRPGFHQLEAEVEL 94 (132)
T ss_pred hhccCCCCCCChHHHHHHHHH
Confidence 677888899999999998763
No 7
>TIGR01589 A_thal_3526 uncharacterized plant-specific domain TIGR01589. This model represents an uncharacterized plant-specific domain 57 residues in length. It is found toward the N-terminus of most proteins that contain it. Examples include at least 10 proteins from Arabidopsis thaliana and at least one from Oryza sativa.
Probab=22.19 E-value=19 Score=23.31 Aligned_cols=11 Identities=9% Similarity=-0.025 Sum_probs=9.2
Q ss_pred HHHhhhCCCCC
Q psy18025 76 EMDSNHQPPDP 86 (99)
Q Consensus 76 ELVq~LVs~ct 86 (99)
.|||+|+++|=
T Consensus 2 ~~Vq~lIE~Cl 12 (57)
T TIGR01589 2 DLVQNRIETCI 12 (57)
T ss_pred HHHHHHHHHHH
Confidence 48999999984
No 8
>PHA02538 N capsid protein; Provisional
Probab=20.48 E-value=48 Score=27.98 Aligned_cols=17 Identities=18% Similarity=0.145 Sum_probs=14.5
Q ss_pred CccCchHHHHhhhCCCC
Q psy18025 69 NDLKSLDEMDSNHQPPD 85 (99)
Q Consensus 69 ~dlrnLDELVq~LVs~c 85 (99)
-|++|||.||.+++..|
T Consensus 201 gdy~NLDalv~d~~~~l 217 (348)
T PHA02538 201 GDYANLDALVMDLTNNL 217 (348)
T ss_pred CCccCHHHHHHHHHHcc
Confidence 69999999999988754
No 9
>TIGR01551 major_capsid_P2 phage major capsid protein, P2 family. This model family represents the major capsid protein component of the heads (capsids) of bacteriophage P2 and related phage. This model represents one of several analogous families lacking detectable sequence similarity. The gene encoding this component is typically located in an operon encoding the small and large terminase subunits, the portal protein and the prohead or maturation protease.
Probab=20.34 E-value=49 Score=27.71 Aligned_cols=17 Identities=18% Similarity=0.294 Sum_probs=14.6
Q ss_pred CccCchHHHHhhhCCCC
Q psy18025 69 NDLKSLDEMDSNHQPPD 85 (99)
Q Consensus 69 ~dlrnLDELVq~LVs~c 85 (99)
-|++|||.||.+++..|
T Consensus 190 gdy~NLDalv~d~~~~~ 206 (327)
T TIGR01551 190 ADYANLDALAFDLKQNQ 206 (327)
T ss_pred CCccCHHHHHHHHHHcc
Confidence 69999999999988754
No 10
>PF07723 LRR_2: Leucine Rich Repeat; InterPro: IPR013101 Leucine-rich repeats (LRR) consist of 2-45 motifs of 20-30 amino acids in length that generally folds into an arc or horseshoe shape []. LRRs occur in proteins ranging from viruses to eukaryotes, and appear to provide a structural framework for the formation of protein-protein interactions [, ].Proteins containing LRRs include tyrosine kinase receptors, cell-adhesion molecules, virulence factors, and extracellular matrix-binding glycoproteins, and are involved in a variety of biological processes, including signal transduction, cell adhesion, DNA repair, recombination, transcription, RNA processing, disease resistance, apoptosis, and the immune response []. Sequence analyses of LRR proteins suggested the existence of several different subfamilies of LRRs. The significance of this classification is that repeats from different subfamilies never occur simultaneously and have most probably evolved independently. It is, however, now clear that all major classes of LRR have curved horseshoe structures with a parallel beta sheet on the concave side and mostly helical elements on the convex side. At least six families of LRR proteins, characterised by different lengths and consensus sequences of the repeats, have been identified. Eleven-residue segments of the LRRs (LxxLxLxxN/CxL), corresponding to the beta-strand and adjacent loop regions, are conserved in LRR proteins, whereas the remaining parts of the repeats (herein termed variable) may be very different. Despite the differences, each of the variable parts contains two half-turns at both ends and a "linear" segment (as the chain follows a linear path overall), usually formed by a helix, in the middle. The concave face and the adjacent loops are the most common protein interaction surfaces on LRR proteins. 3D structure of some LRR proteins-ligand complexes show that the concave surface of LRR domain is ideal for interaction with alpha-helix, thus supporting earlier conclusions that the elongated and curved LRR structure provides an outstanding framework for achieving diverse protein-protein interactions []. Molecular modeling suggests that the conserved pattern LxxLxL, which is shorter than the previously proposed LxxLxLxxN/CxL is sufficient to impart the characteristic horseshoe curvature to proteins with 20- to 30-residue repeats []. This entry includes some LRRs that fail to be detected by IPR001611 from INTERPRO [, ].
Probab=20.20 E-value=62 Score=17.16 Aligned_cols=11 Identities=9% Similarity=-0.073 Sum_probs=8.9
Q ss_pred HHHhhhCCCCC
Q psy18025 76 EMDSNHQPPDP 86 (99)
Q Consensus 76 ELVq~LVs~ct 86 (99)
+.++.|+|-||
T Consensus 16 ~~l~~LlS~CP 26 (26)
T PF07723_consen 16 DSLERLLSGCP 26 (26)
T ss_pred hHHHHhhccCc
Confidence 46888999996
Done!