Query psy15162
Match_columns 70
No_of_seqs 103 out of 112
Neff 3.1
Searched_HMMs 46136
Date Fri Aug 16 22:10:34 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy15162.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/15162hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF00093 VWC: von Willebrand f 98.2 7.7E-07 1.7E-11 51.8 2.5 27 33-67 1-27 (57)
2 smart00214 VWC von Willebrand 97.8 1.4E-05 3E-10 46.6 2.1 28 33-68 1-28 (59)
3 PF12714 TILa: TILa domain 88.8 0.35 7.6E-06 28.3 1.9 18 32-49 1-19 (56)
4 smart00215 VWC_out von Willebr 82.7 0.79 1.7E-05 28.2 1.3 26 33-67 1-26 (67)
5 PF05825 PSP94: Beta-microsemi 79.5 3.2 7E-05 27.1 3.5 33 27-67 12-45 (94)
6 cd00061 FN1 Fibronectin type 1 78.1 2.8 6.1E-05 23.8 2.5 25 37-66 9-33 (43)
7 PF00039 fn1: Fibronectin type 75.6 3.9 8.4E-05 22.8 2.6 25 37-66 7-31 (39)
8 smart00058 FN1 Fibronectin typ 73.3 7 0.00015 22.5 3.4 27 37-67 7-33 (45)
9 PF15430 SVWC: Single domain v 58.7 10 0.00022 21.3 2.1 26 33-65 1-26 (65)
10 PF12191 stn_TNFRSF12A: Tumour 41.3 11 0.00024 26.5 0.5 17 41-63 37-53 (129)
11 KOG3408|consensus 38.9 13 0.00029 26.2 0.6 22 41-63 43-64 (129)
12 PF10893 DUF2724: Protein of u 33.5 15 0.00032 23.4 0.1 12 39-50 27-38 (68)
13 COG5112 UFD2 U1-like Zn-finger 30.5 27 0.00058 24.5 1.0 17 46-63 46-62 (126)
14 KOG0425|consensus 27.6 30 0.00065 25.4 0.9 17 42-60 75-91 (171)
15 KOG2090|consensus 26.5 24 0.00051 30.7 0.2 16 35-50 392-407 (704)
16 PF06473 FGF-BP1: FGF binding 23.7 81 0.0018 23.4 2.6 27 12-38 59-85 (231)
17 smart00132 LIM Zinc-binding do 23.6 35 0.00075 16.6 0.4 19 39-63 16-34 (39)
18 KOG3430|consensus 22.3 43 0.00093 22.3 0.8 15 42-56 51-65 (90)
19 PF06618 DUF1148: Protein of u 22.0 14 0.0003 25.2 -1.6 13 1-13 80-92 (114)
No 1
>PF00093 VWC: von Willebrand factor type C domain; InterPro: IPR001007 The vWF domain is found in various plasma proteins: complement factors B, C2, CR3 and CR4; the integrins (I-domains); collagen types VI, VII, XII and XIV; and other extracellular proteins [, , ]. Although the majority of VWA-containing proteins are extracellular, the most ancient ones present in all eukaryotes are all intracellular proteins involved in functions such as transcription, DNA repair, ribosomal and membrane transport and the proteasome. A common feature appears to be involvement in multiprotein complexes. Proteins that incorporate vWF domains participate in numerous biological events (e.g. cell adhesion, migration, homing, pattern formation, and signal transduction), involving interaction with a large array of ligands []. A number of human diseases arise from mutations in VWA domains. Secondary structure prediction from 75 aligned vWF sequences has revealed a largely alternating sequence of alpha-helices and beta-strands []. The domain is named after the von Willebrand factor (VWF) type C repeat which is found in multidomain protein/multifunctional proteins involved in maintaining homeostasis [, ]. For the von Willebrand factor the duplicated VWFC domain is thought to participate in oligomerization, but not in the initial dimerization step []. The presence of this region in a number of other complex-forming proteins points to the possible involvment of the VWFC domain in complex formation.; GO: 0005515 protein binding; PDB: 1U5M_A.
Probab=98.25 E-value=7.7e-07 Score=51.77 Aligned_cols=27 Identities=44% Similarity=1.158 Sum_probs=20.3
Q ss_pred cEECCEEecCCCEEeeccCCCcceEEeEEEEEecC
Q psy15162 33 CVFGKEFYEIGAKWHPDLGEPFGVYHCVTCECVQV 67 (70)
Q Consensus 33 C~Fgg~~Y~~Ge~WHP~Lg~PFG~M~CI~C~C~~~ 67 (70)
|.|+|+.|++|++|+|+. |..|+|.+.
T Consensus 1 C~~~g~~y~~g~~w~~~~--------C~~C~C~~G 27 (57)
T PF00093_consen 1 CSFNGRVYQNGESWHPDP--------CTTCTCQDG 27 (57)
T ss_dssp EESSS-EE-SS-EE-S-S--------SEEEEEETT
T ss_pred CeeCCEEeCCCCEECCCC--------CcEeEecCC
Confidence 789999999999999997 999999874
No 2
>smart00214 VWC von Willebrand factor (vWF) type C domain.
Probab=97.80 E-value=1.4e-05 Score=46.64 Aligned_cols=28 Identities=39% Similarity=1.024 Sum_probs=24.9
Q ss_pred cEECCEEecCCCEEeeccCCCcceEEeEEEEEecCc
Q psy15162 33 CVFGKEFYEIGAKWHPDLGEPFGVYHCVTCECVQVS 68 (70)
Q Consensus 33 C~Fgg~~Y~~Ge~WHP~Lg~PFG~M~CI~C~C~~~~ 68 (70)
|.|+|+.|.+|++|+|+- |..|+|.+.+
T Consensus 1 C~~~g~~y~~G~~W~~~~--------C~~C~C~~g~ 28 (59)
T smart00214 1 CVHNGEVYNDGETWKPDP--------CQICTCLDGE 28 (59)
T ss_pred CccCCEEeCCCCEECCCC--------CeECCcCCCC
Confidence 789999999999999964 9999998764
No 3
>PF12714 TILa: TILa domain
Probab=88.76 E-value=0.35 Score=28.34 Aligned_cols=18 Identities=28% Similarity=0.924 Sum_probs=16.4
Q ss_pred CcE-ECCEEecCCCEEeec
Q psy15162 32 KCV-FGKEFYEIGAKWHPD 49 (70)
Q Consensus 32 gC~-Fgg~~Y~~Ge~WHP~ 49 (70)
||. ++|+.|++||+|-.+
T Consensus 1 GC~d~~G~yy~~Ge~~~~~ 19 (56)
T PF12714_consen 1 GCTDYNGRYYPPGESWWTD 19 (56)
T ss_pred CCcCcCCEEECCCCEEeCC
Confidence 688 999999999999876
No 4
>smart00215 VWC_out von Willebrand factor (vWF) type C domain.
Probab=82.66 E-value=0.79 Score=28.20 Aligned_cols=26 Identities=35% Similarity=0.925 Sum_probs=21.3
Q ss_pred cEECCEEecCCCEEeeccCCCcceEEeEEEEEecC
Q psy15162 33 CVFGKEFYEIGAKWHPDLGEPFGVYHCVTCECVQV 67 (70)
Q Consensus 33 C~Fgg~~Y~~Ge~WHP~Lg~PFG~M~CI~C~C~~~ 67 (70)
|..+|+.|+.|++|- -.|-+|+|.+.
T Consensus 1 C~~~G~~y~~g~~w~---------d~Cn~CtC~~G 26 (67)
T smart00215 1 CYNNGSYYPPGAKWD---------DDCNRCTCLNG 26 (67)
T ss_pred CeECCEEcCCCCccc---------cCCCCCEecCC
Confidence 788999999999995 33888998653
No 5
>PF05825 PSP94: Beta-microseminoprotein (PSP-94); InterPro: IPR008735 This family consists of the mammalian specific protein beta-microseminoprotein. Prostatic secretory protein of 94 amino acids (PSP94), also called beta-microseminoprotein, is a small, nonglycosylated protein, rich in cysteine residues. It was first isolated as a major protein from Homo sapiens seminal plasma []. The exact function of this protein is unknown.; PDB: 2IZ4_A 1XHH_A 3IX0_C 2IZ3_A.
Probab=79.49 E-value=3.2 Score=27.13 Aligned_cols=33 Identities=21% Similarity=0.578 Sum_probs=27.5
Q ss_pred cCCCCCcE-ECCEEecCCCEEeeccCCCcceEEeEEEEEecC
Q psy15162 27 LDHCSKCV-FGKEFYEIGAKWHPDLGEPFGVYHCVTCECVQV 67 (70)
Q Consensus 27 ~~~~~gC~-Fgg~~Y~~Ge~WHP~Lg~PFG~M~CI~C~C~~~ 67 (70)
.++..+|. ..|+.|+.|++|-=.= |..|+|.+.
T Consensus 12 ~~~~~~C~D~dG~~h~l~S~W~T~~--------C~~C~C~~~ 45 (94)
T PF05825_consen 12 GDSPNECKDWDGKKHPLNSTWKTDD--------CEECSCSED 45 (94)
T ss_dssp TSSTTCEEETTTEEEETTEEEEETT--------SEEEEEESS
T ss_pred CCCCCccEeCCCcEEeCCCeECCCC--------CcEEEecCC
Confidence 45678898 6799999999998664 999999863
No 6
>cd00061 FN1 Fibronectin type 1 domain, approximately 40 residue long with two conserved disulfide bridges. FN1 is one of three types of internal repeats which combine to form larger domains within fibronectin. Fibronectin, a plasma protein that binds cell surfaces and various compounds including collagen, fibrin, heparin, DNA, and actin, usually exists as a dimer in plasma and as an insoluble multimer in extracellular matrices. Dimers of nearly identical subunits are linked by a disulfide bond close to their C-terminus. FN1 domains also found in coagulation factor XII, HGF activator, and tissue-type plasminogen activator. In tissue plasminogen activator, FN1 domains may form functional fibrin-binding units with EGF-like domains C-terminal to FN1.
Probab=78.14 E-value=2.8 Score=23.82 Aligned_cols=25 Identities=32% Similarity=0.824 Sum_probs=19.1
Q ss_pred CEEecCCCEEeeccCCCcceEEeEEEEEec
Q psy15162 37 KEFYEIGAKWHPDLGEPFGVYHCVTCECVQ 66 (70)
Q Consensus 37 g~~Y~~Ge~WHP~Lg~PFG~M~CI~C~C~~ 66 (70)
+++|..||+|+=.. +. .+|. |+|.-
T Consensus 9 ~~~Y~ige~W~r~~-~~-~~~~---C~C~G 33 (43)
T cd00061 9 GVFYRVGETWERPS-EG-HVLQ---CTCLG 33 (43)
T ss_pred ccEEeCCCEEEeec-CC-eEEE---EEEeC
Confidence 78999999999776 55 5554 67754
No 7
>PF00039 fn1: Fibronectin type I domain; InterPro: IPR000083 Fibronectin type I repeats are one of the three repeats found in the fibronectin protein. Fibronectin is a plasma protein that binds cell surfaces and various compounds including collagen, fibrin, heparin, DNA, and actin. Type I domain (FN1) is approximately 40 residues in length. Four conserved cysteines are involved in disulphide bonds. The 3D structure of the FN1 domain has been determined [, , ]. It consists of two antiparallel beta-sheets, first a double-stranded one, that is linked by a disulphide bond to a triple-stranded beta-sheet. The second conserved disulphide bridge links the C-terminal adjacent strands of the domain. In human tissue plasminogen activator chain A the FN1 domain together with the following epidermal growth factor (EGF)-like domain are involved in fibrin-binding []. It has been suggested that these two modules form a single structural and functional unit []. The two domains keep their specific tertiary structure, but interact intimately to bury a hydrophobic core; the inter-module linker makes up the third strand of the EGF-module's major beta-sheet.; GO: 0005576 extracellular region; PDB: 2RKY_A 1FBR_A 2RL0_D 3M7P_A 3MQL_A 3ZRZ_A 2RKZ_F 2CKU_A 2CG6_A 3CAL_C ....
Probab=75.59 E-value=3.9 Score=22.75 Aligned_cols=25 Identities=28% Similarity=0.950 Sum_probs=18.6
Q ss_pred CEEecCCCEEeeccCCCcceEEeEEEEEec
Q psy15162 37 KEFYEIGAKWHPDLGEPFGVYHCVTCECVQ 66 (70)
Q Consensus 37 g~~Y~~Ge~WHP~Lg~PFG~M~CI~C~C~~ 66 (70)
+.+|..||+|.=.. . |.+ +.|+|.-
T Consensus 7 ~~~Y~vge~W~R~~-~--g~~--~~CtC~G 31 (39)
T PF00039_consen 7 GQFYQVGETWERPY-Q--GHM--MQCTCLG 31 (39)
T ss_dssp TEEEETTEEEEEEE-T--SSE--EEEEEEE
T ss_pred ccEEeCCCEEEeec-C--CeE--EEeEECC
Confidence 78999999999665 4 554 3488853
No 8
>smart00058 FN1 Fibronectin type 1 domain. One of three types of internal repeat within the plasma protein, fibronectin. Found also in coagulation factor XII, HGF activator and tissue-type plasminogen activator. In t-PA and fibronectin, this domain type contributes to fibrin-binding.
Probab=73.27 E-value=7 Score=22.50 Aligned_cols=27 Identities=30% Similarity=0.704 Sum_probs=19.6
Q ss_pred CEEecCCCEEeeccCCCcceEEeEEEEEecC
Q psy15162 37 KEFYEIGAKWHPDLGEPFGVYHCVTCECVQV 67 (70)
Q Consensus 37 g~~Y~~Ge~WHP~Lg~PFG~M~CI~C~C~~~ 67 (70)
++.|..||+|+=.. +. |.| ..|+|.-.
T Consensus 7 ~~~Y~ige~W~r~~-~~-g~~--~~C~C~G~ 33 (45)
T smart00058 7 GTTYRIGDTWERPY-EG-GHV--LQCTCLGN 33 (45)
T ss_pred ccEEecCCEEEeec-CC-CcE--EEeEEcCC
Confidence 68999999999775 54 444 45777654
No 9
>PF15430 SVWC: Single domain von Willebrand factor type C
Probab=58.67 E-value=10 Score=21.31 Aligned_cols=26 Identities=23% Similarity=0.692 Sum_probs=20.1
Q ss_pred cEECCEEecCCCEEeeccCCCcceEEeEEEEEe
Q psy15162 33 CVFGKEFYEIGAKWHPDLGEPFGVYHCVTCECV 65 (70)
Q Consensus 33 C~Fgg~~Y~~Ge~WHP~Lg~PFG~M~CI~C~C~ 65 (70)
|.|+++...+|+++.+.- | |.+=+|.
T Consensus 1 C~y~~~~~~~g~~~~~~~--p-----C~~~~C~ 26 (65)
T PF15430_consen 1 CYYNGRTIPSGESYNPEE--P-----CERWTCD 26 (65)
T ss_pred CEECCEEcCCCcEecCCC--C-----CceEEEE
Confidence 889999999999999753 3 5555554
No 10
>PF12191 stn_TNFRSF12A: Tumour necrosis factor receptor stn_TNFRSF12A_TNFR domain; InterPro: IPR022316 The tumour necrosis factor (TNF) receptor (TNFR) superfamily comprises more than 20 type-I transmembrane proteins. Family members are defined based on similarity in their extracellular domain - a region that contains many cysteine residues arranged in a specific repetitive pattern []. The cysteines allow formation of an extended rod-like structure, responsible for ligand binding []. Upon receptor activation, different intracellular signalling complexes are assembled for different members of the TNFR superfamily, depending on their intracellular domains and sequences []. Activation of TNFRs can therefore induce a range of disparate effects, including cell proliferation, differentiation, survival, or apoptotic cell death, depending upon the receptor involved []. TNFRs are widely distributed and play important roles in many crucial biological processes, such as lymphoid and neuronal development, innate and adaptive immunity, and maintenance of cellular homeostasis []. Drugs that manipulate their signalling have potential roles in the prevention and treatment of many diseases, such as viral infections, coronary heart disease, transplant rejection, and immune disease []. TNF receptor 12 (also known as TWEAK receptor, and fibroblast growth factor-inducible-14 (Fn14)) has been implicated in endothelial cell growth and migration []. The receptor may also play a role in cell-matrix interactions [].; PDB: 2KN0_A 2RPJ_A 2KMZ_A 2EQP_A.
Probab=41.30 E-value=11 Score=26.52 Aligned_cols=17 Identities=35% Similarity=1.019 Sum_probs=13.4
Q ss_pred cCCCEEeeccCCCcceEEeEEEE
Q psy15162 41 EIGAKWHPDLGEPFGVYHCVTCE 63 (70)
Q Consensus 41 ~~Ge~WHP~Lg~PFG~M~CI~C~ 63 (70)
..|++|.|+| -+|+.|.
T Consensus 37 p~G~sWs~dL------dkCm~Cs 53 (129)
T PF12191_consen 37 PRGSSWSADL------DKCMSCS 53 (129)
T ss_dssp -SSEEEETTT------TEEEECC
T ss_pred CCCCcCcccc------cccccCc
Confidence 5789999999 4788874
No 11
>KOG3408|consensus
Probab=38.92 E-value=13 Score=26.19 Aligned_cols=22 Identities=27% Similarity=0.652 Sum_probs=18.5
Q ss_pred cCCCEEeeccCCCcceEEeEEEE
Q psy15162 41 EIGAKWHPDLGEPFGVYHCVTCE 63 (70)
Q Consensus 41 ~~Ge~WHP~Lg~PFG~M~CI~C~ 63 (70)
....+--|+| |-+|.-+||.|.
T Consensus 43 ll~~~~D~dl-PG~GqfyCi~Ca 64 (129)
T KOG3408|consen 43 LLNQEIDPDL-PGGGQFYCIECA 64 (129)
T ss_pred hhcCcCCCCC-CCCceeehhhhh
Confidence 4566778999 999999999984
No 12
>PF10893 DUF2724: Protein of unknown function (DUF2724); InterPro: IPR021221 This entry is represented by Bacteriophage 186, Fil. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches.
Probab=33.46 E-value=15 Score=23.40 Aligned_cols=12 Identities=33% Similarity=0.642 Sum_probs=9.6
Q ss_pred EecCCCEEeecc
Q psy15162 39 FYEIGAKWHPDL 50 (70)
Q Consensus 39 ~Y~~Ge~WHP~L 50 (70)
.-.+|..|||-.
T Consensus 27 ~l~~GkRWhP~~ 38 (68)
T PF10893_consen 27 ELPDGKRWHPCR 38 (68)
T ss_pred ECCCCCcCCCCc
Confidence 457899999964
No 13
>COG5112 UFD2 U1-like Zn-finger-containing protein [General function prediction only]
Probab=30.53 E-value=27 Score=24.50 Aligned_cols=17 Identities=29% Similarity=0.890 Sum_probs=14.0
Q ss_pred EeeccCCCcceEEeEEEE
Q psy15162 46 WHPDLGEPFGVYHCVTCE 63 (70)
Q Consensus 46 WHP~Lg~PFG~M~CI~C~ 63 (70)
.-|+| |..|.-+||.|.
T Consensus 46 ~Dp~l-PGlGqhYCieCa 62 (126)
T COG5112 46 YDPEL-PGLGQHYCIECA 62 (126)
T ss_pred CCCCC-CCCceeeeehhH
Confidence 45888 889999999873
No 14
>KOG0425|consensus
Probab=27.55 E-value=30 Score=25.41 Aligned_cols=17 Identities=29% Similarity=0.770 Sum_probs=13.6
Q ss_pred CCCEEeeccCCCcceEEeE
Q psy15162 42 IGAKWHPDLGEPFGVYHCV 60 (70)
Q Consensus 42 ~Ge~WHP~Lg~PFG~M~CI 60 (70)
..+-|||++ .+-|.+ ||
T Consensus 75 ~s~mwHPNv-y~~G~v-CI 91 (171)
T KOG0425|consen 75 TSKMWHPNV-YEDGDV-CI 91 (171)
T ss_pred ehhhcCCCc-CCCCCE-EE
Confidence 457899999 888876 66
No 15
>KOG2090|consensus
Probab=26.50 E-value=24 Score=30.75 Aligned_cols=16 Identities=38% Similarity=0.694 Sum_probs=12.0
Q ss_pred ECCEEecCCCEEeecc
Q psy15162 35 FGKEFYEIGAKWHPDL 50 (70)
Q Consensus 35 Fgg~~Y~~Ge~WHP~L 50 (70)
|-...-+.||.|||++
T Consensus 392 l~~~~l~pGE~WhpdV 407 (704)
T KOG2090|consen 392 LIPEPLAPGEVWHPDV 407 (704)
T ss_pred eeccCCCCccccCchh
Confidence 3344567899999997
No 16
>PF06473 FGF-BP1: FGF binding protein 1 (FGF-BP1); InterPro: IPR010510 This family consists of several mammalian FGF binding protein 1. Fibroblast growth factors (FGFs) play important roles during foetal and embryonic development []. Fibroblast growth factor-binding protein (FGF-BP) 1 is a secreted protein that can bind fibroblast growth factors (FGFs) 1 and 2 [].
Probab=23.72 E-value=81 Score=23.40 Aligned_cols=27 Identities=15% Similarity=0.254 Sum_probs=23.7
Q ss_pred cceeeeEEEEEEeeecCCCCCcEECCE
Q psy15162 12 STHIDFIHMTLLCTALDHCSKCVFGKE 38 (70)
Q Consensus 12 ~~~~~~~~~~~~~~~~~~~~gC~Fgg~ 38 (70)
++.-|-+.+.+-|+..++.-.|.|.|+
T Consensus 59 ~~~~~~~~L~V~C~~~~~~~~C~y~G~ 85 (231)
T PF06473_consen 59 TTGEDGVELRVECKNQGGSFWCEYTGK 85 (231)
T ss_pred ccCCCceEEEEEEcCCCceEEeEecCC
Confidence 455688999999999999999999997
No 17
>smart00132 LIM Zinc-binding domain present in Lin-11, Isl-1, Mec-3. Zinc-binding domain family. Some LIM domains bind protein partners via tyrosine-containing motifs. LIM domains are found in many key regulators of developmental pathways.
Probab=23.57 E-value=35 Score=16.59 Aligned_cols=19 Identities=32% Similarity=1.113 Sum_probs=12.9
Q ss_pred EecCCCEEeeccCCCcceEEeEEEE
Q psy15162 39 FYEIGAKWHPDLGEPFGVYHCVTCE 63 (70)
Q Consensus 39 ~Y~~Ge~WHP~Lg~PFG~M~CI~C~ 63 (70)
....|..|||.- -+|..|.
T Consensus 16 ~~~~~~~~H~~C------f~C~~C~ 34 (39)
T smart00132 16 LRALGKVWHPEC------FKCSKCG 34 (39)
T ss_pred EEeCCccccccC------CCCcccC
Confidence 445788999986 4565553
No 18
>KOG3430|consensus
Probab=22.28 E-value=43 Score=22.28 Aligned_cols=15 Identities=40% Similarity=0.891 Sum_probs=13.3
Q ss_pred CCCEEeeccCCCcce
Q psy15162 42 IGAKWHPDLGEPFGV 56 (70)
Q Consensus 42 ~Ge~WHP~Lg~PFG~ 56 (70)
-|..||=.+|..||-
T Consensus 51 yG~~WhcivG~~FGs 65 (90)
T KOG3430|consen 51 YGPTWHCIVGRNFGS 65 (90)
T ss_pred cCCccEEEEcCCcce
Confidence 488999999999995
No 19
>PF06618 DUF1148: Protein of unknown function (DUF1148); InterPro: IPR009529 This family consists of several Maize streak virus proteins of unknown function.
Probab=22.05 E-value=14 Score=25.22 Aligned_cols=13 Identities=46% Similarity=1.288 Sum_probs=9.8
Q ss_pred CeEEEEEEEeecc
Q psy15162 1 MTWYIWYIRLQST 13 (70)
Q Consensus 1 ~~~~~~~~~~~~~ 13 (70)
+||+-||||-.-.
T Consensus 80 ltwwcwyirdrva 92 (114)
T PF06618_consen 80 LTWWCWYIRDRVA 92 (114)
T ss_pred hhhhhhhhhcccc
Confidence 4899999986543
Done!