Query 034143
Match_columns 103
No_of_seqs 109 out of 122
Neff 3.8
Searched_HMMs 46136
Date Fri Mar 29 10:15:00 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/034143.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/034143hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF00023 Ank: Ankyrin repeat H 10.8 1.4E+02 0.003 15.5 0.8 10 65-74 3-12 (33)
2 PF15249 GLTSCR1: Glioma tumor 9.2 1E+02 0.0023 21.2 -0.0 10 61-70 27-36 (109)
3 cd02796 tRNA_bind_bactPheRS tR 9.1 1.3E+02 0.0027 19.9 0.3 13 87-99 66-78 (103)
4 PF12897 Aminotran_MocR: Alani 8.1 2.3E+02 0.0051 24.9 1.6 13 90-102 54-66 (425)
5 PF01588 tRNA_bind: Putative t 8.0 1.1E+02 0.0025 20.1 -0.3 15 86-100 60-74 (95)
6 PF13606 Ank_3: Ankyrin repeat 6.9 2.5E+02 0.0054 14.8 0.8 9 66-74 4-12 (30)
7 cd02153 tRNA_bindingDomain The 6.6 1.7E+02 0.0038 19.0 0.1 14 87-100 62-75 (99)
8 PF11421 Synthase_beta: ATP sy 5.9 5.5E+02 0.012 16.2 2.1 13 13-25 7-19 (49)
9 COG0523 Putative GTPases (G3E 5.7 2.2E+02 0.0049 23.4 0.3 15 87-101 54-68 (323)
10 cd02799 tRNA_bind_EMAP-II_like 5.5 2.3E+02 0.0049 19.0 0.2 14 87-100 69-82 (105)
No 1
>PF00023 Ank: Ankyrin repeat Hereditary spherocytosis; InterPro: IPR002110 The ankyrin repeat is one of the most common protein-protein interaction motifs in nature. Ankyrin repeats are tandemly repeated modules of about 33 amino acids. They occur in a large number of functionally diverse proteins mainly from eukaryotes. The few known examples from prokaryotes and viruses may be the result of horizontal gene transfers []. The repeat has been found in proteins of diverse function such as transcriptional initiators, cell-cycle regulators, cytoskeletal, ion transporters and signal transducers. The ankyrin fold appears to be defined by its structure rather than its function since there is no specific sequence or structure which is universally recognised by it. The conserved fold of the ankyrin repeat unit is known from several crystal and solution structures [, , , ]. Each repeat folds into a helix-loop-helix structure with a beta-hairpin/loop region projecting out from the helices at a 90o angle. The repeats stack together to form an L-shaped structure [, ].; GO: 0005515 protein binding; PDB: 1D9S_A 1NFI_F 1IKN_D 1WDY_A 1OT8_C 1QYM_A 1TR4_A 1UOH_A 1N11_A 1K1A_A ....
Probab=10.82 E-value=1.4e+02 Score=15.54 Aligned_cols=10 Identities=30% Similarity=0.361 Sum_probs=7.2
Q ss_pred cchhHHHHHH
Q 034143 65 LLPLHSVVAA 74 (103)
Q Consensus 65 llPLHsAvAs 74 (103)
.-|||.|+-.
T Consensus 3 ~TpLh~A~~~ 12 (33)
T PF00023_consen 3 NTPLHYAAQR 12 (33)
T ss_dssp BBHHHHHHHT
T ss_pred ccHHHHHHHH
Confidence 4589988754
No 2
>PF15249 GLTSCR1: Glioma tumor suppressor candidate region
Probab=9.23 E-value=1e+02 Score=21.19 Aligned_cols=10 Identities=40% Similarity=0.757 Sum_probs=8.4
Q ss_pred cccccchhHH
Q 034143 61 CAQSLLPLHS 70 (103)
Q Consensus 61 ~~~SllPLHs 70 (103)
.++-|||||-
T Consensus 27 A~~RLLPYHv 36 (109)
T PF15249_consen 27 AVERLLPYHV 36 (109)
T ss_pred HHHHhcchhh
Confidence 6788999995
No 3
>cd02796 tRNA_bind_bactPheRS tRNA-binding-domain-containing prokaryotic phenylalanly tRNA synthetase (PheRS) beta chain. PheRS aminoacylate phenylalanine transfer RNAs (tRNAphe). PheRSs belong structurally to class II aminoacyl tRNA synthetases (aaRSs) but, as they aminoacylate the 2'OH of the terminal ribose of tRNA they belong functionally to class 1 aaRSs. This domain has general tRNA binding properties and is believed to direct tRNAphe to the active site of the enzyme.
Probab=9.07 E-value=1.3e+02 Score=19.95 Aligned_cols=13 Identities=31% Similarity=0.465 Sum_probs=10.6
Q ss_pred ccccccCCccccc
Q 034143 87 SCRALSQGTLCCT 99 (103)
Q Consensus 87 ~~~~Lsqg~~~~~ 99 (103)
-.+..|||++|+.
T Consensus 66 ~~G~~S~GMl~s~ 78 (103)
T cd02796 66 LRGVESEGMLCSA 78 (103)
T ss_pred eCCcccchhCcch
Confidence 4578999999975
No 4
>PF12897 Aminotran_MocR: Alanine-glyoxylate amino-transferase; InterPro: IPR024551 This entry represents a family of putative aminotransferases.; PDB: 3D6K_C 3EZ1_A 3PPL_B.
Probab=8.11 E-value=2.3e+02 Score=24.90 Aligned_cols=13 Identities=46% Similarity=0.795 Sum_probs=9.8
Q ss_pred cccCCcccccCCC
Q 034143 90 ALSQGTLCCTSPG 102 (103)
Q Consensus 90 ~Lsqg~~~~~~pg 102 (103)
.+..|++|+||||
T Consensus 54 ~~~dG~D~RNY~G 66 (425)
T PF12897_consen 54 YLADGTDCRNYPG 66 (425)
T ss_dssp BECTTEBTTSS-S
T ss_pred ccCCCccccCCCC
Confidence 3449999999987
No 5
>PF01588 tRNA_bind: Putative tRNA binding domain; InterPro: IPR002547 This domain is found in prokaryotic methionyl-tRNA synthetases, prokaryotic phenylalanyl tRNA synthetases the yeast GU4 nucleic-binding protein (G4p1 or p42, ARC1) [], human tyrosyl-tRNA synthetase [], and endothelial-monocyte activating polypeptide II. G4p1 binds specifically to tRNA form a complex with methionyl-tRNA synthetases []. In human tyrosyl-tRNA synthetase this domain may direct tRNA to the active site of the enzyme []. This domain may perform a common function in tRNA aminoacylation [].; GO: 0000049 tRNA binding; PDB: 3BU2_C 1PYB_A 2Q2I_A 2Q2H_A 1JJC_B 1EIY_B 1PYS_B 3HFZ_B 3TEH_B 2CWP_A ....
Probab=8.03 E-value=1.1e+02 Score=20.13 Aligned_cols=15 Identities=33% Similarity=0.242 Sum_probs=10.3
Q ss_pred cccccccCCcccccC
Q 034143 86 KSCRALSQGTLCCTS 100 (103)
Q Consensus 86 r~~~~Lsqg~~~~~~ 100 (103)
.-.+..|||++|+..
T Consensus 60 ~i~Gv~SeGMlls~~ 74 (95)
T PF01588_consen 60 KIRGVESEGMLLSAS 74 (95)
T ss_dssp EETTEEEESEE-EEE
T ss_pred EEEeccCCEEEEEee
Confidence 345788999998754
No 6
>PF13606 Ank_3: Ankyrin repeat
Probab=6.89 E-value=2.5e+02 Score=14.79 Aligned_cols=9 Identities=33% Similarity=0.564 Sum_probs=6.8
Q ss_pred chhHHHHHH
Q 034143 66 LPLHSVVAA 74 (103)
Q Consensus 66 lPLHsAvAs 74 (103)
-|||.|+..
T Consensus 4 T~Lh~A~~~ 12 (30)
T PF13606_consen 4 TPLHLAASN 12 (30)
T ss_pred CHHHHHHHh
Confidence 589988754
No 7
>cd02153 tRNA_bindingDomain The tRNA binding domain is also known as the Myf domain in literature. This domain is found in a diverse collection of tRNA binding proteins, including prokaryotic phenylalanyl tRNA synthetases (PheRS), methionyl-tRNA synthetases (MetRS), human tyrosyl-tRNA synthetase(hTyrRS), Saccharomyces cerevisiae Arc1p, Thermus thermophilus CsaA, Aquifex aeolicus Trbp111, human p43 and human EMAP-II. PheRS, MetRS and hTyrRS aminoacylate their cognate tRNAs. Arc1p is a transactivator of yeast methionyl-tRNA and glutamyl-tRNA synthetases. The molecular chaperones Trbp111 and CsaA also contain this domain. CsaA has export related activities; Trbp111 is structure-specific recognizing the L-shape of the tRNA fold. This domain has general tRNA binding properties. In a subset of this family this domain has the added capability of a cytokine. For example the p43 component of the Human aminoacyl-tRNA synthetase complex is cleaved to release EMAP-II cytokine. EMAP-II has multi
Probab=6.63 E-value=1.7e+02 Score=19.05 Aligned_cols=14 Identities=21% Similarity=0.128 Sum_probs=10.7
Q ss_pred ccccccCCcccccC
Q 034143 87 SCRALSQGTLCCTS 100 (103)
Q Consensus 87 ~~~~Lsqg~~~~~~ 100 (103)
-.+..|||++|+..
T Consensus 62 ~~g~~S~GMl~s~~ 75 (99)
T cd02153 62 LRGVESEGMLLSAE 75 (99)
T ss_pred CCCeecccEEeecc
Confidence 45789999999753
No 8
>PF11421 Synthase_beta: ATP synthase F1 beta subunit; InterPro: IPR020971 F-type ATPases have 2 components, CF1 - the catalytic core - and CF0 - the membrane proton channel. CF1 has five subunits: alpha3, beta3, gamma1, delta1, epsilon1. CF0 has three main subunits: a, b and c. This entry represents the beta subunit of the F1 component. The NMR solution structure of the protein in SDS micelles was found to contain two helices, an N-terminal amphipathic alpha-helix and a C-terminal alpha-helix separated by a large unstructured internal domain. The N-terminal alpha-helix is the Tom20 receptor binding site whereas the C-terminal alpha-helix is located upstream of the mitochondrial processing peptidase cleavage site [].; GO: 0005524 ATP binding, 0016887 ATPase activity, 0006200 ATP catabolic process, 0006754 ATP biosynthetic process, 0000275 mitochondrial proton-transporting ATP synthase complex, catalytic core F(1); PDB: 1PYV_A.
Probab=5.92 E-value=5.5e+02 Score=16.22 Aligned_cols=13 Identities=31% Similarity=0.250 Sum_probs=8.7
Q ss_pred hHHHHHHHhhhCC
Q 034143 13 SLSSIKSAFRSNA 25 (103)
Q Consensus 13 s~Ss~rSA~r~~~ 25 (103)
..|.+||+.|...
T Consensus 7 lSSlLRSssrr~~ 19 (49)
T PF11421_consen 7 LSSLLRSSSRRSA 19 (49)
T ss_dssp HHHHHHHHHTTSS
T ss_pred HHHHHHHHhcccc
Confidence 3577888876654
No 9
>COG0523 Putative GTPases (G3E family) [General function prediction only]
Probab=5.70 E-value=2.2e+02 Score=23.35 Aligned_cols=15 Identities=33% Similarity=0.820 Sum_probs=12.6
Q ss_pred ccccccCCcccccCC
Q 034143 87 SCRALSQGTLCCTSP 101 (103)
Q Consensus 87 ~~~~Lsqg~~~~~~p 101 (103)
-+-+|+.|+.||+-.
T Consensus 54 ~~~El~nGCICCT~r 68 (323)
T COG0523 54 EVVELTNGCICCTVR 68 (323)
T ss_pred cEEEeCCceEEEecc
Confidence 488999999999843
No 10
>cd02799 tRNA_bind_EMAP-II_like tRNA-binding-domain-containing EMAP2-like proteins. This family contains a diverse fraction of tRNA binding proteins, including Caenorhabditis elegans methionyl-tRNA synthetase (CeMetRS), human tyrosyl- tRNA synthetase (hTyrRS), Saccharomyces cerevisiae Arc1p, human p43 and EMAP2. CeMetRS and hTyrRS aminoacylate their cognate tRNAs. Arc1p is a transactivator of yeast methionyl-tRNA and glutamyl-tRNA synthetases. This domain has general tRNA binding properties. In a subset of this family this domain has the added capability of a cytokine. For example the p43 component of the Human aminoacyl-tRNA synthetase complex is cleaved to release EMAP-II cytokine. EMAP-II has multiple activities during apoptosis, angiogenesis and inflammation and participates in malignant transformation. A EMAP-II-like cytokine also is released from hTyrRS upon cleavage. The active cytokine heptapeptide locates to this domain.
Probab=5.55 E-value=2.3e+02 Score=18.98 Aligned_cols=14 Identities=36% Similarity=0.451 Sum_probs=10.5
Q ss_pred ccccccCCcccccC
Q 034143 87 SCRALSQGTLCCTS 100 (103)
Q Consensus 87 ~~~~Lsqg~~~~~~ 100 (103)
-.+..|||++|+..
T Consensus 69 ~~G~~S~GMll~~~ 82 (105)
T cd02799 69 MRGVKSQGMVLCAS 82 (105)
T ss_pred ECCeeeceEEEEec
Confidence 45789999986654
Done!