Query 030415
Match_columns 177
No_of_seqs 144 out of 741
Neff 4.5
Searched_HMMs 46136
Date Fri Mar 29 13:23:39 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/030415.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/030415hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 smart00768 X8 Possibly involve 100.0 3.7E-34 8.1E-39 210.0 9.1 85 40-124 1-85 (85)
2 PF07983 X8: X8 domain; Inter 99.9 9.7E-27 2.1E-31 168.8 6.5 72 40-111 1-78 (78)
3 PF07172 GRP: Glycine rich pro 37.4 30 0.00065 26.0 2.4 12 1-12 1-12 (95)
4 PF05283 MGC-24: Multi-glycosy 24.1 49 0.0011 27.9 1.7 19 147-165 166-184 (186)
5 PHA02513 V1 structural protein 21.7 63 0.0014 25.8 1.8 20 155-174 69-88 (135)
6 cd04366 IlGF_insulin_bombyxin_ 21.3 1.9E+02 0.0042 18.7 3.7 37 51-88 4-41 (42)
7 COG2991 Uncharacterized protei 18.1 1.9E+02 0.004 21.4 3.4 12 23-34 19-30 (77)
8 PF09628 YvfG: YvfG protein; 12.8 1.2E+02 0.0026 21.8 1.2 9 88-96 27-35 (68)
9 KOG3679 Predicted coiled-coil 12.0 1.3E+02 0.0027 29.2 1.5 28 85-112 530-557 (802)
10 PF09125 COX2-transmemb: Cytoc 11.9 2.9E+02 0.0063 17.9 2.7 17 146-162 13-29 (38)
No 1
>smart00768 X8 Possibly involved in carbohydrate binding. The X8 domain, which may be involved in carbohydrate binding, is found in an Olive pollen antigen as well as at the C terminus of family 17 glycosyl hydrolases. It contains 6 conserved cysteine residues which presumably form three disulfide bridges.
Probab=100.00 E-value=3.7e-34 Score=209.96 Aligned_cols=85 Identities=68% Similarity=1.276 Sum_probs=82.7
Q ss_pred cceEeCCCCCHHHHHHHHHhhcCCCCCCCccCCCCCcCCCCChhhhHhHHHhHHHHhcCCCCCCCCCCCceEEEecCCCC
Q 030415 40 TWCVARSDASNQALQTALDYACGTGADCTPIQPNGLCYLPNTIQAHASYAFNSYFQRKGMAPGSCDFSGTATIAKTDPSY 119 (177)
Q Consensus 40 lwCVak~~~~~~~lq~~ldyACg~gvDCs~I~~gGscyspct~~~~aSyAfN~YYq~~~~~~~aCdF~G~A~itt~dPS~ 119 (177)
+|||+|+++++++||++||||||+|+||++|++||+||+||++++|+|||||+|||++++.+++|||+|+|++++.||+.
T Consensus 1 ~wCv~~~~~~~~~l~~~~~yaCg~~~dC~~I~~~g~c~~~~~~~~~aS~a~N~YYq~~~~~~~aC~F~G~a~~~~~~ps~ 80 (85)
T smart00768 1 LWCVAKPDADEAALQAALDYACGQGADCTAIQPGGSCYSPNTVKAHASYAFNSYYQKQGQSSGACDFGGTATITTTDPST 80 (85)
T ss_pred CccccCCCCCHHHHHHHHHHHhcCCCCccccCCCCcccCCCCHHHHHHHHHHHHHHHcCCCCCcCCCCCceEEEecCCCC
Confidence 59999999999999999999999889999999999999999999999999999999999999999999999999999999
Q ss_pred Cceee
Q 030415 120 GSCMY 124 (177)
Q Consensus 120 ~sC~~ 124 (177)
++|+|
T Consensus 81 ~~C~~ 85 (85)
T smart00768 81 GSCKF 85 (85)
T ss_pred CccCC
Confidence 99975
No 2
>PF07983 X8: X8 domain; InterPro: IPR012946 The X8 domain [] contains 6 conserved cysteine residues that presumably form three disulphide bridges. The domain is found in an Olive pollen allergen [] as well as at the C terminus of family 17 glycosyl hydrolases []. This domain may be involved in carbohydrate binding.; PDB: 2JON_A 2W61_A 2W62_A 2W63_A.
Probab=99.93 E-value=9.7e-27 Score=168.80 Aligned_cols=72 Identities=56% Similarity=1.094 Sum_probs=62.9
Q ss_pred cceEeCCCCCHHHHHHHHHhhcCC-CCCCCccCCCCC-----cCCCCChhhhHhHHHhHHHHhcCCCCCCCCCCCceE
Q 030415 40 TWCVARSDASNQALQTALDYACGT-GADCTPIQPNGL-----CYLPNTIQAHASYAFNSYFQRKGMAPGSCDFSGTAT 111 (177)
Q Consensus 40 lwCVak~~~~~~~lq~~ldyACg~-gvDCs~I~~gGs-----cyspct~~~~aSyAfN~YYq~~~~~~~aCdF~G~A~ 111 (177)
+|||+|+++++++||++|||||++ ++||++|++||+ .||+|++++|+|||||+|||++++.+++|||+|+|+
T Consensus 1 l~Cv~~~~~~~~~l~~~l~~aC~~~~~dC~~I~~~g~~G~YG~~S~C~~~~~lSya~N~YY~~~~~~~~~C~F~G~at 78 (78)
T PF07983_consen 1 LWCVAKPDADDKELQDLLDYACGQGGVDCSPIQPNGTTGVYGAYSMCSPRQHLSYAFNQYYQKQGRNSSACDFSGNAT 78 (78)
T ss_dssp -EEEE-TTS-HHHHHHHHHHHTTT-SSSCCCC-EETTTTEE-TTTTS-CCHHHHHHHHHHHHHHTSSCCG-SS-STEE
T ss_pred CcceeCCCCCHHHHHHHHHHHHcCCCCChhhhCCCCcccccccccCCCHHHHHHHHHHHHHHHcCCCCCcCCCCCCCC
Confidence 699999999999999999999998 489999999999 799999999999999999999999999999999996
No 3
>PF07172 GRP: Glycine rich protein family; InterPro: IPR010800 This family consists of glycine rich proteins. Some of them may be involved in resistance to environmental stress [].
Probab=37.40 E-value=30 Score=26.00 Aligned_cols=12 Identities=42% Similarity=0.235 Sum_probs=6.9
Q ss_pred CCCccchhHHHH
Q 030415 1 MASHQNLTLLSF 12 (177)
Q Consensus 1 ~~~~~~~~l~~~ 12 (177)
|||..+|.|.++
T Consensus 1 MaSK~~llL~l~ 12 (95)
T PF07172_consen 1 MASKAFLLLGLL 12 (95)
T ss_pred CchhHHHHHHHH
Confidence 787765444433
No 4
>PF05283 MGC-24: Multi-glycosylated core protein 24 (MGC-24); InterPro: IPR007947 CD164 is a mucin-like receptor, or sialomucin, with specificity in receptor/ ligand interactions that depends on the structural characteristics of the mucin-like receptor. Its functions include mediating, or regulating, haematopoietic progenitor cell adhesion and the negative regulation of their growth and/or-differentiation. It exists in the native state as a disulphide- linked homodimer of two 80-85kDa subunits. It is usually expressed by CD34+ and CD341o/- haematopoietic stem cells and associated microenvironmental cells. It contains, in its extracellular region, two mucin domains (I and II) linked by a non-mucin domain, which has been predicted to contain intra- disulphide bridges. This receptor may play a key role in haematopoiesis by facilitating the adhesion of human CD34+ cells to bone marrow stroma and by negatively regulating CD34+ CD341o/- haematopoietic progenitor cell proliferation. These effects involve the CD164 class I and/or II epitopes recognised by the monoclonal antibodies (mAbs) 105A5 and 103B2/9E10. These epitopes are carbohydrate-dependent and are located on the N-terminal mucin domain I [, ]. It has been found that murine MGC-24v and rat endolyn share significant sequence similarities with human CD164. However, CD164 lacks the consensus glycosaminoglycan (GAG)-attachment site found in MGC-24; it is possible that GAG-association is responsible for the high molecular weight of the epithelial-derived MGC-24 glycoprotein []. Genomic structure studies have placed CD164 within the mucin-subgroup that comprises multiple exons, and demonstrate the diverse chromosomal distribution of this family of molecules. Molecules with such multiple exons may have sophisticated regulatory mechanisms that involve not only post-translational modifications of the oligosaccharide side chains, but also differential exon usage. Although differences in the intron and exon sizes are seen between the mouse and human genes, the predicted proteins are similar in size and structure, maintaining functionally important motifs that regulate cell proliferation or subcellular distribution []. CD164 is a gene whose expression depends on differential usage of poly- adenylation sites within the 3'-UTR. The conserved distribution of the 3.2- and 1.2-kb CD164 transcripts between mouse and human suggests that (i) a mechanism may exist to regulate tissue-specific polyadenylation, and (ii) differences in polyadenylation are important for the expression and function of CD164 in different tissues. Two other aspects of the structure of CD164 are of particular interest. First, it shares one of several conserved features of a cytokine-binding pocket - in this respect, it is notable that evidence exists for a class of cell-surface sialomucin modulators that directly interact with growth factor receptors to regulate their response to physiological ligands. Second, its cytoplasmic tail contains a C-terminal YHTL motif found in many endocytic membrane proteins or receptors. These Tyr-based motifs bind to adaptor proteins, which mediate the sorting of membrane proteins into transport vesicles from the plasma membrane to the endosomes, and between intracellular compartments.
Probab=24.07 E-value=49 Score=27.93 Aligned_cols=19 Identities=37% Similarity=0.688 Sum_probs=16.0
Q ss_pred hhhhhhhhhHHHHHHHHHH
Q 030415 147 DIFLLFGSVYIGFFIFKLL 165 (177)
Q Consensus 147 ~~~l~~g~~~i~~~~~~~~ 165 (177)
.++|-||+..|++|..|..
T Consensus 166 GIVL~LGv~aI~ff~~KF~ 184 (186)
T PF05283_consen 166 GIVLTLGVLAIIFFLYKFC 184 (186)
T ss_pred HHHHHHHHHHHHHHHhhhc
Confidence 3458899999999999964
No 5
>PHA02513 V1 structural protein V1; Reviewed
Probab=21.72 E-value=63 Score=25.83 Aligned_cols=20 Identities=45% Similarity=0.820 Sum_probs=16.7
Q ss_pred hHHHHHHHHHHhHHhhcccc
Q 030415 155 VYIGFFIFKLLGIFLSHRLI 174 (177)
Q Consensus 155 ~~i~~~~~~~~~~~~~~~~~ 174 (177)
..|++|||-++|+++-.|.+
T Consensus 69 ~ii~L~IFIliGivl~~pI~ 88 (135)
T PHA02513 69 VLLGLFIFILIGIVLLPVIT 88 (135)
T ss_pred HHHHHHHHHHHHHHHhhHHH
Confidence 56889999999999887754
No 6
>cd04366 IlGF_insulin_bombyxin_like IlGF_like family, insulin_bombyxin_like subgroup. Members include a number of peptides including insulin, insulin-like growth factors I and II, insect prothoracicotropic hormone (bombyxin), locust insulin-related peptide (LIRP), molluscan insulin-related peptides 1 to 5 (MIP), and C. elegans insulin-like peptides. With the exception of insulin-like growth factors, the active forms of these peptide hormones are composed of two chains (A and B) linked by two disulfide bonds; the arrangement of four cysteines is conserved in the "A" chain: Cys1 is linked by a disulfide bond to Cys3, Cys2 and Cys4 are linked by interchain disulfide bonds to cysteines in the "B" chain. This alignment contains both chains, plus the intervening linker region, arranged as found in the propeptide form. Propeptides are cleaved to yield two separate chains linked covalently by the two disulfide bonds.
Probab=21.26 E-value=1.9e+02 Score=18.70 Aligned_cols=37 Identities=22% Similarity=0.299 Sum_probs=23.2
Q ss_pred HHHHHHHHhhcCCCCC-CCccCCCCCcCCCCChhhhHhH
Q 030415 51 QALQTALDYACGTGAD-CTPIQPNGLCYLPNTIQAHASY 88 (177)
Q Consensus 51 ~~lq~~ldyACg~gvD-Cs~I~~gGscyspct~~~~aSy 88 (177)
+.|-+.+.++|+.... =.+| .+-=|+.+||..+=.+|
T Consensus 4 ~~L~~~L~~vC~~~~~~~~gI-vdeCC~~~Ct~~~L~~Y 41 (42)
T cd04366 4 RHLADTLALLCSEYNSPRRGI-VDECCRKSCTLDELLSY 41 (42)
T ss_pred HHHHHHHHHHhCCCCCCCCCh-hhccCCCcCCHHHHHhh
Confidence 5788999999986311 0111 01118999998776555
No 7
>COG2991 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=18.06 E-value=1.9e+02 Score=21.39 Aligned_cols=12 Identities=0% Similarity=0.108 Sum_probs=8.0
Q ss_pred HHhhhhcccccc
Q 030415 23 MLNVMAANVPVE 34 (177)
Q Consensus 23 ~~~~~~~~~p~~ 34 (177)
.++++...-|+.
T Consensus 19 siG~I~krk~I~ 30 (77)
T COG2991 19 SIGYIFKRKSIK 30 (77)
T ss_pred hHhhheeccccc
Confidence 567777766666
No 8
>PF09628 YvfG: YvfG protein; InterPro: IPR018590 Yvfg is a hypothetical protein of 71 residues expressed in some bacteria. The monomer consists of two parallel alpha helices, and the protein crystallises as a homo-dimer. ; PDB: 2GSV_A 2JS1_B.
Probab=12.80 E-value=1.2e+02 Score=21.77 Aligned_cols=9 Identities=33% Similarity=0.774 Sum_probs=7.4
Q ss_pred HHHhHHHHh
Q 030415 88 YAFNSYFQR 96 (177)
Q Consensus 88 yAfN~YYq~ 96 (177)
-|||+||..
T Consensus 27 ~AmNaYYr~ 35 (68)
T PF09628_consen 27 HAMNAYYRS 35 (68)
T ss_dssp HHHHHHHHH
T ss_pred HHHHHHHHH
Confidence 489999975
No 9
>KOG3679 consensus Predicted coiled-coil protein [General function prediction only]
Probab=11.99 E-value=1.3e+02 Score=29.19 Aligned_cols=28 Identities=25% Similarity=0.653 Sum_probs=22.5
Q ss_pred hHhHHHhHHHHhcCCCCCCCCCCCceEE
Q 030415 85 HASYAFNSYFQRKGMAPGSCDFSGTATI 112 (177)
Q Consensus 85 ~aSyAfN~YYq~~~~~~~aCdF~G~A~i 112 (177)
.+-.-+..||++|+-..-+|.|+|.--+
T Consensus 530 elilrlqeyfekqgvkdfacsfsgsipl 557 (802)
T KOG3679|consen 530 ELILRLQEYFEKQGVKDFACSFSGSIPL 557 (802)
T ss_pred HHHHHHHHHHHHcCcceeeeeccCCccH
Confidence 3445567899999999999999997643
No 10
>PF09125 COX2-transmemb: Cytochrome C oxidase subunit II, transmembrane; InterPro: IPR015209 This N-terminal domain forms the transmembrane region in subunit II of cytochrome c oxidase from Thermus thermophilus. This domain adopts a tertiary structure consisting of two antiparallel transmembrane helices, in a transmembrane helix hairpin fold []. ; PDB: 1EHK_B 2QPE_B 3S8F_B 4EV3_B 3BVD_B 3S8G_B 3EH3_B 3S3C_B 3S39_B 3QJQ_B ....
Probab=11.85 E-value=2.9e+02 Score=17.85 Aligned_cols=17 Identities=24% Similarity=0.202 Sum_probs=14.0
Q ss_pred chhhhhhhhhHHHHHHH
Q 030415 146 FDIFLLFGSVYIGFFIF 162 (177)
Q Consensus 146 ~~~~l~~g~~~i~~~~~ 162 (177)
+++.+.||++-|.+||.
T Consensus 13 Er~Wi~F~l~mi~vFi~ 29 (38)
T PF09125_consen 13 ERGWIAFALAMILVFIA 29 (38)
T ss_dssp HHHHHHHHHHHHHHHHH
T ss_pred HHhHHHHHHHHHHHHHH
Confidence 57789999999988875
Done!