Query 048052
Match_columns 71
No_of_seqs 113 out of 309
Neff 3.9
Searched_HMMs 46136
Date Fri Mar 29 05:48:11 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/048052.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/048052hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF00612 IQ: IQ calmodulin-bin 96.2 0.0083 1.8E-07 28.8 3.0 18 9-26 2-19 (21)
2 smart00015 IQ Short calmodulin 94.5 0.056 1.2E-06 26.9 2.8 20 8-27 3-22 (26)
3 PTZ00014 myosin-A; Provisional 80.7 5.3 0.00012 34.2 6.0 38 11-51 780-817 (821)
4 KOG0942 E3 ubiquitin protein l 59.8 7.6 0.00016 34.6 2.4 25 6-30 27-51 (1001)
5 COG5022 Myosin heavy chain [Cy 59.8 17 0.00036 33.8 4.5 39 10-48 747-785 (1463)
6 PF08365 IGF2_C: Insulin-like 52.7 12 0.00025 22.8 1.8 29 41-69 21-49 (56)
7 KOG2128 Ras GTPase-activating 44.3 52 0.0011 30.6 5.1 45 7-51 591-639 (1401)
8 KOG0161 Myosin class II heavy 42.7 68 0.0015 30.7 5.7 39 10-48 775-813 (1930)
9 KOG0160 Myosin class V heavy c 42.3 89 0.0019 27.6 6.1 17 9-25 697-713 (862)
10 PF12424 ATP_Ca_trans_C: Plasm 31.3 28 0.00062 21.2 1.1 20 34-53 6-25 (66)
11 KOG4427 E3 ubiquitin protein l 23.9 1.4E+02 0.003 27.1 4.3 24 6-29 28-51 (1096)
12 KOG0163 Myosin class VI heavy 23.4 1.1E+02 0.0023 27.9 3.6 22 7-28 812-833 (1259)
13 PTZ00014 myosin-A; Provisional 21.4 1E+02 0.0022 26.7 3.0 19 8-26 800-818 (821)
14 KOG0160 Myosin class V heavy c 20.0 3.2E+02 0.0069 24.3 5.7 39 10-51 675-713 (862)
No 1
>PF00612 IQ: IQ calmodulin-binding motif; InterPro: IPR000048 The IQ motif is an extremely basic unit of about 23 amino acids, whose conserved core usually fits the consensus A-x(3)-I-Q-x(2)-F-R-x(4)-K-K. The IQ motif, which can be present in one or more copies, serves as a binding site for different EF-hand proteins including the essential and regulatory myosin light chains, calmodulin (CaM), and CaM-like proteins [, ].Many IQ motifs are protein kinase C (PKC) phosphorylation sites [, ]. Resolution of the 3D structure of scallop myosin has shown that the IQ motif forms a basic amphipathic helix []. Some proteins known to contain an IQ motif are listed below: A number of conventional and unconventional myosins. Neuromodulin (GAP-43). This protein is associated with nerve growth. It is a major component of the motile "growth cones" that form the tips of elongating axons. Neurogranin (NG/p17). Acts as a "third messenger" substrate of protein kinase C-mediated molecular cascades during synaptic development and remodeling. Sperm surface protein Sp17. Ras GTPase-activating-like protein IQGAP1. IQGAP1 contains 4 IQ motifs. This entry covers the entire IQ motif.; GO: 0005515 protein binding; PDB: 2DFS_A 2IX7_C 1OE9_A 1W7J_A 1W7I_A 1KQM_A 1KK7_A 1WDC_A 1DFL_A 1B7T_A ....
Probab=96.19 E-value=0.0083 Score=28.81 Aligned_cols=18 Identities=39% Similarity=0.582 Sum_probs=16.3
Q ss_pred HHHHHHHHHHHHHHHHHH
Q 048052 9 KGIIRLQALIRGHLVRRQ 26 (71)
Q Consensus 9 kg~vrLQalvRG~~VRrQ 26 (71)
++++.||+.+||+.+|++
T Consensus 2 ~aai~iQ~~~R~~~~Rk~ 19 (21)
T PF00612_consen 2 KAAIIIQSYWRGYLARKR 19 (21)
T ss_dssp HHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHh
Confidence 578999999999999995
No 2
>smart00015 IQ Short calmodulin-binding motif containing conserved Ile and Gln residues. Calmodulin-binding motif.
Probab=94.52 E-value=0.056 Score=26.89 Aligned_cols=20 Identities=35% Similarity=0.459 Sum_probs=17.1
Q ss_pred HHHHHHHHHHHHHHHHHHHH
Q 048052 8 LKGIIRLQALIRGHLVRRQA 27 (71)
Q Consensus 8 Lkg~vrLQalvRG~~VRrQa 27 (71)
-+.++.||+.+||+.+|+..
T Consensus 3 ~~aa~~IQa~~Rg~~~r~~y 22 (26)
T smart00015 3 TRAAIIIQAAWRGYLARKRY 22 (26)
T ss_pred HHHHHHHHHHHHHHHHHHhh
Confidence 36789999999999999953
No 3
>PTZ00014 myosin-A; Provisional
Probab=80.74 E-value=5.3 Score=34.25 Aligned_cols=38 Identities=29% Similarity=0.305 Sum_probs=31.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 048052 11 IIRLQALIRGHLVRRQATATLGAMLGLVKLQALVRGRKVRH 51 (71)
Q Consensus 11 ~vrLQalvRG~~VRrQa~~tLr~mqalvr~Qa~vR~rrvr~ 51 (71)
+..+|+.+||+..|+.-. +..++++.+|+-+|+...+.
T Consensus 780 ~~~iq~~~r~~~~r~~~~---~~~~~~~~iQ~~~R~~l~~~ 817 (821)
T PTZ00014 780 VSVLEALILKIKKKRKVR---KNIKSLVRIQAHLRRHLVIA 817 (821)
T ss_pred HHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHh
Confidence 568999999999999543 33789999999999987764
No 4
>KOG0942 consensus E3 ubiquitin protein ligase [Posttranslational modification, protein turnover, chaperones]
Probab=59.84 E-value=7.6 Score=34.56 Aligned_cols=25 Identities=24% Similarity=0.400 Sum_probs=21.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Q 048052 6 RALKGIIRLQALIRGHLVRRQATAT 30 (71)
Q Consensus 6 raLkg~vrLQalvRG~~VRrQa~~t 30 (71)
++.||.|++|.+.||+.+|++-...
T Consensus 27 k~e~~av~vQs~~Rg~~~r~~~~~~ 51 (1001)
T KOG0942|consen 27 KQEKNAVKVQSFWRGFRVRHNQKLL 51 (1001)
T ss_pred HHhccchHHHHHHHHHHHHHHHHHH
Confidence 4789999999999999999965433
No 5
>COG5022 Myosin heavy chain [Cytoskeleton]
Probab=59.82 E-value=17 Score=33.75 Aligned_cols=39 Identities=28% Similarity=0.320 Sum_probs=32.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 048052 10 GIIRLQALIRGHLVRRQATATLGAMLGLVKLQALVRGRK 48 (71)
Q Consensus 10 g~vrLQalvRG~~VRrQa~~tLr~mqalvr~Qa~vR~rr 48 (71)
-+++||+.+||..+||+--.+++.++++-.+|.-.+.++
T Consensus 747 ~~~~iq~aiR~~~~rrr~~~~~k~i~~~~~~~~~~~~~~ 785 (1463)
T COG5022 747 IATRIQRAIRGRYLRRRYLQALKRIKKIQVIQHGFRLRR 785 (1463)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccchhh
Confidence 467999999999999999999888888877776555553
No 6
>PF08365 IGF2_C: Insulin-like growth factor II E-peptide; InterPro: IPR013576 The insulin family of proteins groups together several evolutionarily related active peptides []: these include insulin [, ], relaxin [, ], insect prothoracicotropic hormone (bombyxin) [], insulin-like growth factors (IGF1 and IGF2) [, ], mammalian Leydig cell-specific insulin-like peptide (gene INSL3), early placenta insulin-like peptide (ELIP) (gene INSL4), locust insulin-related peptide (LIRP), molluscan insulin-related peptides (MIP), and Caenorhabditis elegans insulin-like peptides. The 3D structures of a number of family members have been determined [, , ]. The fold comprises two polypeptide chains (A and B) linked by two disulphide bonds: all share a conserved arrangement of 4 cysteines in their A chain, the first of which is linked by a disulphide bond to the third, while the second and fourth are linked by interchain disulphide bonds to cysteines in the B chain. Insulin is found in many animals, and is involved in the regulation of normal glucose homeostasis. It also has other specific physiological effects, such as increasing the permeability of cells to monosaccharides, amino acids and fatty acids, and accelerating glycolysis and glycogen synthesis in the liver []. Insulin exerts its effects by interaction with a cell-surface receptor, which may also result in the promotion of cell growth []. Insulin is synthesised as a prepropeptide from which an endoplasmic reticulum-targeting sequence is cleaved to yield proinsulin. The sequence of prosinsulin contains 2 well-conserved regions (designated A and B), separated by an intervening connecting region (C), which is variable between species []. The connecting region is cleaved, liberating the active protein, which contains the A and B chains, held together by 2 disulphide bonds []. Insulin-like Growth Factor Binding Proteins (IGFBP) are a group of vertebrate secreted proteins, which bind to IGF-I and IGF-II with high affinity and modulate the biological actions of IGFs. The IGFBP family has six distinct subgroups, IGFBP-1 through 6, based on conservation of gene (intron-exon) organisation, structural similarity, and binding affinity for IGFs. Across species, IGFBP-5 exhibits the most sequence conservation, while IGFBP-6 exhibits the least sequence conservation. The IGFBPs contain inhibitor domain homologues, which are related to MEROPS protease inhibitor family I31 (equistatin, clan IX). All IGFBPs share a common domain architecture (IPR000867 from INTERPRO:IPR000716 from INTERPRO). While the N-terminal (IPR000867 from INTERPRO, IGF binding protein domain), and the C-terminal (IPR000716 from INTERPRO, thyroglobulin type-1 repeat) domains are conserved across vertebrate species, the mid-region is highly variable with respect to protease cleavage sites and phosphorylation and glycosylation sites. IGFBPs contain 16-18 conserved cysteines located in the N-terminal and the C-terminal regions, which form 8-9 disulphide bonds []. As demonstrated for human IGFBP-5, the N terminus is the primary binding site for IGF. This region, comprised of Val49, Tyr50, Pro62 and Lys68-Leu75, forms a hydrophobic patch on the surface of the protein []. The C terminus is also required for high affinity IGF binding, as well as for binding to the extracellular matrix [] and for nuclear translocation [, ] of IGFBP-3 and -5. IGFBPs are unusually pleiotropic molecules. Like other binding proteins, IGFBP can prolong the half-life of IGFs via high affinity binding of the ligands. In addition to functioning as simple carrier proteins, serum IGFBPs also serve to regulate the endocrine and paracrine/autocrine actions of IGF by modulating the IGF available to bind to signalling IGF-I receptors [, ]. Furthermore, IGFBPs can function as growth modulators independent of IGFs. For example, IGFBP-5 stimulates markers of bone formation in osteoblasts lacking functional IGFs []. The binding of IGFBP to its putative receptor on the cell membrane may stimulate the signalling pathway independent of an IGF receptor, to mediate the effects of IGFBPs in certain target cell types. IGFBP-1 and -2, but not other IGFBPs, contain a C-terminal Arg-Gly-Asp integrin-binding motif. Thus, IGFBP-1 can also stimulate cell migration of CHO and human trophoblast cells through an action mediated by alpha 5 beta 1 integrin []. Finally, IGFBPs transported into the nucleus (via the nuclear localisation signal) may also exert IGF-independent effects by transcriptional activation of genes. This domain is the C-terminal domain of insulin-like growth factor II proteins (IGF-2, also see IPR004825 from INTERPRO) in vertebrates and seems to represent the E-peptide [, ].
Probab=52.66 E-value=12 Score=22.82 Aligned_cols=29 Identities=24% Similarity=0.326 Sum_probs=24.8
Q ss_pred HHHHHHHHHHHhhhhhhhhhhcccccccc
Q 048052 41 QALVRGRKVRHSNIGLEVGKTCTPLMLLV 69 (71)
Q Consensus 41 Qa~vR~rrvr~~~e~~~~~k~l~~~~~~~ 69 (71)
=|..|+++.|+..++...+++-..++||+
T Consensus 21 PaiLRarr~R~la~~l~a~~ea~~HRPLi 49 (56)
T PF08365_consen 21 PAILRARRFRRLAKELEAQEEAKRHRPLI 49 (56)
T ss_pred hHHHHhhhhHHHHHHHHHHHHHHhcCCcc
Confidence 46789999999999999888888888875
No 7
>KOG2128 consensus Ras GTPase-activating protein family - IQGAP [Signal transduction mechanisms]
Probab=44.30 E-value=52 Score=30.58 Aligned_cols=45 Identities=29% Similarity=0.454 Sum_probs=36.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHHHHHHH
Q 048052 7 ALKGIIRLQALIRGHLVRRQATAT----LGAMLGLVKLQALVRGRKVRH 51 (71)
Q Consensus 7 aLkg~vrLQalvRG~~VRrQa~~t----Lr~mqalvr~Qa~vR~rrvr~ 51 (71)
+.+-+|++|++.||+++|+-..-- ..||-+...+|+-+|+..-|.
T Consensus 591 ~~~evv~~qs~~R~~lsrk~~~~~~q~~~~~~~~~i~iqs~~r~f~~r~ 639 (1401)
T KOG2128|consen 591 AKKEVVKFQSLTRGALSRKKYSRKLQYFKDNMTKIIKIQSKIRKFPNRK 639 (1401)
T ss_pred hhHHHHHHHHHHHHHHHHhhHHHHHHHHHHhhhhHHHHHHHHHhcccch
Confidence 567889999999999999866544 467889999999998876543
No 8
>KOG0161 consensus Myosin class II heavy chain [Cytoskeleton]
Probab=42.69 E-value=68 Score=30.68 Aligned_cols=39 Identities=28% Similarity=0.291 Sum_probs=34.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 048052 10 GIIRLQALIRGHLVRRQATATLGAMLGLVKLQALVRGRK 48 (71)
Q Consensus 10 g~vrLQalvRG~~VRrQa~~tLr~mqalvr~Qa~vR~rr 48 (71)
=++.+||.+||++.|+-..--..-+.++.=+|.-+++..
T Consensus 775 ii~~fQA~~Rg~l~r~~~~kr~~~~~ai~~iQ~N~r~~~ 813 (1930)
T KOG0161|consen 775 IITLFQAAIRGYLARKEFKKRLQQLDAIKVIQRNIRAYL 813 (1930)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 367899999999999988888889999999999888873
No 9
>KOG0160 consensus Myosin class V heavy chain [Cytoskeleton]
Probab=42.34 E-value=89 Score=27.62 Aligned_cols=17 Identities=47% Similarity=0.671 Sum_probs=11.8
Q ss_pred HHHHHHHHHHHHHHHHH
Q 048052 9 KGIIRLQALIRGHLVRR 25 (71)
Q Consensus 9 kg~vrLQalvRG~~VRr 25 (71)
++++.+|+..||.+.|+
T Consensus 697 ~~~~~~Q~~~rG~~~r~ 713 (862)
T KOG0160|consen 697 SAVIIIQAYSRGVLARR 713 (862)
T ss_pred HHHHHHhhhhhHHHHHH
Confidence 45567777777777776
No 10
>PF12424 ATP_Ca_trans_C: Plasma membrane calcium transporter ATPase C terminal; InterPro: IPR022141 This domain family is found in eukaryotes, and is approximately 60 amino acids in length. The family is found in association with PF00689 from PFAM, PF00122 from PFAM, PF00702 from PFAM, PF00690 from PFAM. There is a conserved QTQ sequence motif. This family is the C-terminal of a calcium transporting ATPase located in the plasma membrane. ; GO: 0005388 calcium-transporting ATPase activity; PDB: 2KNE_B 1CFF_B.
Probab=31.25 E-value=28 Score=21.21 Aligned_cols=20 Identities=25% Similarity=0.316 Sum_probs=9.4
Q ss_pred HHHHHHHHHHHHHHHHHHhh
Q 048052 34 MLGLVKLQALVRGRKVRHSN 53 (71)
Q Consensus 34 mqalvr~Qa~vR~rrvr~~~ 53 (71)
+.++.|+|++||-=++..+.
T Consensus 6 ~rgl~r~QtQIrVV~AFrs~ 25 (66)
T PF12424_consen 6 FRGLNRIQTQIRVVNAFRSS 25 (66)
T ss_dssp HHHHHHHHHCH---------
T ss_pred EeCCCccHhHHHHHHHHcCC
Confidence 56889999998766655543
No 11
>KOG4427 consensus E3 ubiquitin protein ligase [Posttranslational modification, protein turnover, chaperones]
Probab=23.86 E-value=1.4e+02 Score=27.06 Aligned_cols=24 Identities=29% Similarity=0.425 Sum_probs=19.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Q 048052 6 RALKGIIRLQALIRGHLVRRQATA 29 (71)
Q Consensus 6 raLkg~vrLQalvRG~~VRrQa~~ 29 (71)
|+-.+.+.||+.++|+++|+.+..
T Consensus 28 rr~~aa~~iq~~lrsyl~Rkk~~~ 51 (1096)
T KOG4427|consen 28 RREAAALFIQRVLRSYLVRKKAQI 51 (1096)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Confidence 456788999999999999996544
No 12
>KOG0163 consensus Myosin class VI heavy chain [Cytoskeleton]
Probab=23.37 E-value=1.1e+02 Score=27.90 Aligned_cols=22 Identities=23% Similarity=0.456 Sum_probs=18.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHH
Q 048052 7 ALKGIIRLQALIRGHLVRRQAT 28 (71)
Q Consensus 7 aLkg~vrLQalvRG~~VRrQa~ 28 (71)
.-+.+.++|.++||+++|++-.
T Consensus 812 Rae~v~k~Q~~~Rg~L~rkr~~ 833 (1259)
T KOG0163|consen 812 RAECVLKAQRIARGYLARKRHR 833 (1259)
T ss_pred HHHHHHHHHHHHHHHHHHhhhc
Confidence 3457889999999999999653
No 13
>PTZ00014 myosin-A; Provisional
Probab=21.38 E-value=1e+02 Score=26.70 Aligned_cols=19 Identities=42% Similarity=0.730 Sum_probs=16.6
Q ss_pred HHHHHHHHHHHHHHHHHHH
Q 048052 8 LKGIIRLQALIRGHLVRRQ 26 (71)
Q Consensus 8 Lkg~vrLQalvRG~~VRrQ 26 (71)
..+++.+|+.+||+++++.
T Consensus 800 ~~~~~~iQ~~~R~~l~~~~ 818 (821)
T PTZ00014 800 IKSLVRIQAHLRRHLVIAE 818 (821)
T ss_pred HHHHHHHHHHHHHHHHHhc
Confidence 6689999999999999874
No 14
>KOG0160 consensus Myosin class V heavy chain [Cytoskeleton]
Probab=20.03 E-value=3.2e+02 Score=24.33 Aligned_cols=39 Identities=31% Similarity=0.405 Sum_probs=31.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 048052 10 GIIRLQALIRGHLVRRQATATLGAMLGLVKLQALVRGRKVRH 51 (71)
Q Consensus 10 g~vrLQalvRG~~VRrQa~~tLr~mqalvr~Qa~vR~rrvr~ 51 (71)
..+.+|--+||++.|++ -++--.+...+|+.+||.-.|.
T Consensus 675 ~~~~iq~~~r~~~~r~~---f~~~r~~~~~~Q~~~rG~~~r~ 713 (862)
T KOG0160|consen 675 AKVLIQRQIRGYLARKK---FLQLRSAVIIIQAYSRGVLARR 713 (862)
T ss_pred HHHHHHHHHHHHHHHHH---HHHHHHHHHHHhhhhhHHHHHH
Confidence 34569999999999995 3455567788999999998887
Done!