Query 034424
Match_columns 95
No_of_seqs 103 out of 119
Neff 3.8
Searched_HMMs 46136
Date Fri Mar 29 02:43:10 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/034424.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/034424hhsearch_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 12.1 1.2E+02 0.0025 15.6 0.8 10 65-74 3-12 (33)
2 PF15249 GLTSCR1: Glioma tumor 11.3 80 0.0017 21.5 -0.0 10 61-70 27-36 (109)
3 PF11421 Synthase_beta: ATP sy 9.7 3.6E+02 0.0078 16.8 2.5 14 13-26 7-20 (49)
4 PF13606 Ank_3: Ankyrin repeat 7.9 2.1E+02 0.0045 14.9 0.8 9 66-74 4-12 (30)
5 PF08168 NUC205: NUC205 domain 7.7 1.3E+02 0.0028 18.4 -0.1 10 60-69 26-36 (44)
6 cd03521 Link_domain_KIAA0527_l 7.0 2.2E+02 0.0048 19.9 0.8 14 82-95 44-57 (95)
7 KOG0171 Mitochondrial inner me 6.5 2E+02 0.0043 22.2 0.4 14 82-95 133-146 (176)
8 cd01102 Link_Domain The link d 6.5 2.1E+02 0.0044 19.6 0.4 15 81-95 42-56 (92)
9 PF13857 Ank_5: Ankyrin repeat 6.1 2.8E+02 0.0061 15.9 0.8 13 64-76 16-28 (56)
10 cd03518 Link_domain_HAPLN_modu 5.2 3.2E+02 0.007 18.8 0.8 15 81-95 42-56 (95)
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=12.10 E-value=1.2e+02 Score=15.58 Aligned_cols=10 Identities=30% Similarity=0.361 Sum_probs=7.4
Q ss_pred cchhHHHHHH
Q 034424 65 LLPLHSVVAA 74 (95)
Q Consensus 65 llPLHsAvAs 74 (95)
.-|||.|+-.
T Consensus 3 ~TpLh~A~~~ 12 (33)
T PF00023_consen 3 NTPLHYAAQR 12 (33)
T ss_dssp BBHHHHHHHT
T ss_pred ccHHHHHHHH
Confidence 4589998764
No 2
>PF15249 GLTSCR1: Glioma tumor suppressor candidate region
Probab=11.31 E-value=80 Score=21.47 Aligned_cols=10 Identities=40% Similarity=0.757 Sum_probs=8.5
Q ss_pred cccccchhHH
Q 034424 61 CAQSLLPLHS 70 (95)
Q Consensus 61 ~~~SllPLHs 70 (95)
.++-|||||-
T Consensus 27 A~~RLLPYHv 36 (109)
T PF15249_consen 27 AVERLLPYHV 36 (109)
T ss_pred HHHHhcchhh
Confidence 6788999995
No 3
>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=9.69 E-value=3.6e+02 Score=16.82 Aligned_cols=14 Identities=29% Similarity=0.242 Sum_probs=8.9
Q ss_pred hhHhhHHHhhcCCC
Q 034424 13 SLSSIKSAFRSNAP 26 (95)
Q Consensus 13 a~Ss~rSa~r~~~~ 26 (95)
..|..|++.+....
T Consensus 7 lSSlLRSssrr~~s 20 (49)
T PF11421_consen 7 LSSLLRSSSRRSAS 20 (49)
T ss_dssp HHHHHHHHHTTSSS
T ss_pred HHHHHHHHhccccc
Confidence 35677777776544
No 4
>PF13606 Ank_3: Ankyrin repeat
Probab=7.88 E-value=2.1e+02 Score=14.88 Aligned_cols=9 Identities=33% Similarity=0.564 Sum_probs=7.0
Q ss_pred chhHHHHHH
Q 034424 66 LPLHSVVAA 74 (95)
Q Consensus 66 lPLHsAvAs 74 (95)
-|||.|+..
T Consensus 4 T~Lh~A~~~ 12 (30)
T PF13606_consen 4 TPLHLAASN 12 (30)
T ss_pred CHHHHHHHh
Confidence 589998765
No 5
>PF08168 NUC205: NUC205 domain; InterPro: IPR012584 This domain is found in a novel family of nucleolar proteins [].; GO: 0005634 nucleus
Probab=7.68 E-value=1.3e+02 Score=18.39 Aligned_cols=10 Identities=40% Similarity=1.202 Sum_probs=7.7
Q ss_pred cc-ccccchhH
Q 034424 60 GC-AQSLLPLH 69 (95)
Q Consensus 60 ~~-~~SllPLH 69 (95)
|| .++++|.|
T Consensus 26 GCiyetlip~~ 36 (44)
T PF08168_consen 26 GCIYETLIPIS 36 (44)
T ss_pred Cceeeeecccc
Confidence 46 67899987
No 6
>cd03521 Link_domain_KIAA0527_like Link_domain_KIAA0527_like; this domain is found in the human protein KIAA0527. Sequence-wise, it is highly similar to the link domain. The link domain is a hyaluronan-binding (HA) domain. KIAA0527 contains a single link module. The KIAA0527 gene was originally cloned from human brain tissue.
Probab=7.02 E-value=2.2e+02 Score=19.93 Aligned_cols=14 Identities=21% Similarity=0.090 Sum_probs=11.6
Q ss_pred ccccccceeccCCC
Q 034424 82 SAASKSCRALSQGT 95 (95)
Q Consensus 82 s~~~~s~~~Lsqg~ 95 (95)
+.|.-.+|||++|+
T Consensus 44 Gld~C~aGWLaDGT 57 (95)
T cd03521 44 FFSACARGWLADGT 57 (95)
T ss_pred CccccccccccCCc
Confidence 67778889999985
No 7
>KOG0171 consensus Mitochondrial inner membrane protease, subunit IMP1 [Posttranslational modification, protein turnover, chaperones]
Probab=6.51 E-value=2e+02 Score=22.21 Aligned_cols=14 Identities=29% Similarity=0.335 Sum_probs=9.6
Q ss_pred ccccccceeccCCC
Q 034424 82 SAASKSCRALSQGT 95 (95)
Q Consensus 82 s~~~~s~~~Lsqg~ 95 (95)
+.|+|+||-||.|+
T Consensus 133 S~DSr~yGplP~gl 146 (176)
T KOG0171|consen 133 SLDSRNYGPLPMGL 146 (176)
T ss_pred cccccccCCCchhh
Confidence 56777777777663
No 8
>cd01102 Link_Domain The link domain is a hyaluronan (HA)-binding domain. It functions to mediate adhesive interactions during inflammatory leukocyte homing and tumor metastasis. It is found in the CD44 receptor and in human TSG-6. TSG-6 is the protein product of the tumor necrosis factor-stimulated gene-6. TSG-6 has a strong anti-inflammatory effect in models of acute inflammation and autoimmune arthritis and plays an essential role in female fertility. This group also contains the link domains of the chondroitin sulfate proteoglycan core proteins (CSPG) including aggrecan, versican, neurocan, and brevican and the link domains of the vertebrate HAPLN (HA and proteoglycan binding link) protein family. In cartilage, aggrecan forms cartilage link protein stabilized aggregates with HA. These aggregates contribute to the tissue's load bearing properties. Aggregates in which other CSPGs substitute for aggregan might contribute to the structural integrity of many different tissues. Members of
Probab=6.46 E-value=2.1e+02 Score=19.56 Aligned_cols=15 Identities=13% Similarity=0.036 Sum_probs=12.0
Q ss_pred cccccccceeccCCC
Q 034424 81 LSAASKSCRALSQGT 95 (95)
Q Consensus 81 Ls~~~~s~~~Lsqg~ 95 (95)
.+.+.-.+|||++|+
T Consensus 42 ~G~~~C~~GWL~Dgs 56 (92)
T cd01102 42 DGFDVCTAGWLADGS 56 (92)
T ss_pred cchhhcCCccccCCe
Confidence 467778899999884
No 9
>PF13857 Ank_5: Ankyrin repeats (many copies); PDB: 1SW6_A 3EHR_B 3EHQ_A.
Probab=6.08 E-value=2.8e+02 Score=15.87 Aligned_cols=13 Identities=23% Similarity=0.230 Sum_probs=8.0
Q ss_pred ccchhHHHHHHHH
Q 034424 64 SLLPLHSVVAAAR 76 (95)
Q Consensus 64 SllPLHsAvAsAr 76 (95)
-..|||-|+....
T Consensus 16 G~T~LH~A~~~g~ 28 (56)
T PF13857_consen 16 GNTPLHWAARYGH 28 (56)
T ss_dssp S--HHHHHHHHT-
T ss_pred CCcHHHHHHHcCc
Confidence 4579999987643
No 10
>cd03518 Link_domain_HAPLN_module_1 Link_domain_HAPLN_module_1; this link domain is found in the first link module of proteins similar to the vertebrate HAPLN (hyaluronan/HA and proteoglycan binding link) protein family which includes cartilage link protein. The link domain is a HA-binding domain. HAPLNs contain two contiguous link modules. Both link modules of cartilage link protein are involved in interaction with HA. In cartilage, a chondroitin sulfate proteoglycan core protein (CSPG) aggrecan forms cartilage link protein stabilized aggregates with HA. These aggregates contribute to the tissue's load bearing properties. Aggregates with other CSPGs substituting for aggregan may contribute to the structural integrity of many different tissues. Members of the vertebrate HAPLN gene family are physically linked adjacent to CSPG genes.
Probab=5.21 E-value=3.2e+02 Score=18.81 Aligned_cols=15 Identities=27% Similarity=0.069 Sum_probs=12.3
Q ss_pred cccccccceeccCCC
Q 034424 81 LSAASKSCRALSQGT 95 (95)
Q Consensus 81 Ls~~~~s~~~Lsqg~ 95 (95)
.+.|.-.+|||++|.
T Consensus 42 ~Gld~C~~GWL~Dgs 56 (95)
T cd03518 42 EGLDWCNAGWLSDGT 56 (95)
T ss_pred cCccccCcccccCCC
Confidence 677888899999884
Done!