Query psy11988
Match_columns 156
No_of_seqs 119 out of 870
Neff 6.3
Searched_HMMs 46136
Date Fri Aug 16 15:43:49 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy11988.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/11988hhsearch_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 99.5 6.5E-14 1.4E-18 90.8 4.6 55 36-92 1-57 (57)
2 smart00214 VWC von Willebrand 99.4 5E-13 1.1E-17 87.1 5.7 55 36-92 1-59 (59)
3 PF00093 VWC: von Willebrand f 97.9 8.4E-06 1.8E-10 52.5 2.0 32 1-33 26-57 (57)
4 smart00215 VWC_out von Willebr 97.8 1.1E-05 2.4E-10 54.1 2.5 40 36-78 1-41 (67)
5 PF12714 TILa: TILa domain 97.5 0.00019 4.2E-09 46.3 4.1 38 35-74 1-41 (56)
6 smart00214 VWC von Willebrand 97.2 0.00029 6.3E-09 45.5 3.0 33 1-33 26-59 (59)
7 PF05375 Pacifastin_I: Pacifas 91.9 0.24 5.2E-06 29.7 3.1 28 44-74 3-31 (39)
8 cd00061 FN1 Fibronectin type 1 89.5 0.8 1.7E-05 27.9 3.9 35 36-70 3-42 (43)
9 PF05825 PSP94: Beta-microsemi 88.7 0.53 1.1E-05 33.5 3.2 34 35-70 17-51 (94)
10 KOG1544|consensus 86.7 0.63 1.4E-05 40.5 3.0 47 25-74 87-147 (470)
11 PF15430 SVWC: Single domain v 85.6 2.1 4.6E-05 27.2 4.5 38 36-74 1-38 (65)
12 smart00215 VWC_out von Willebr 85.3 0.45 9.6E-06 31.8 1.1 33 95-127 1-43 (67)
13 PF14828 Amnionless: Amnionles 84.4 0.45 9.7E-06 42.5 1.1 28 5-35 205-234 (437)
14 smart00058 FN1 Fibronectin typ 82.2 3.3 7.3E-05 25.5 4.0 32 40-71 7-43 (45)
15 PF14828 Amnionless: Amnionles 81.2 0.56 1.2E-05 41.9 0.4 36 57-93 192-233 (437)
16 PF15430 SVWC: Single domain v 75.5 2.9 6.2E-05 26.6 2.4 30 95-124 1-30 (65)
17 PF00039 fn1: Fibronectin type 73.6 3.4 7.4E-05 24.6 2.2 30 39-68 6-39 (39)
18 PF12714 TILa: TILa domain 59.1 14 0.0003 23.4 3.1 25 94-119 1-27 (56)
19 PF09443 CFC: Cripto_Frl-1_Cry 39.1 11 0.00024 22.3 0.2 24 47-72 7-30 (36)
20 PF10791 F1F0-ATPsyn_F: Mitoch 37.5 19 0.00041 25.7 1.2 23 127-149 73-95 (95)
21 PF09064 Tme5_EGF_like: Thromb 26.3 48 0.001 19.3 1.4 13 5-19 2-14 (34)
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=99.46 E-value=6.5e-14 Score=90.77 Aligned_cols=55 Identities=36% Similarity=0.996 Sum_probs=34.5
Q ss_pred cccCCEEecCCCeEeCCCCCceEEEecCCceEEEeeecC-CCCCCCC-CCCCCCCCCCC
Q psy11988 36 CVHHGVFRESGSEWTDPDNPCRIFTCKAGVVTETEMQCY-APCKHPT-PPGPGQCCPTC 92 (156)
Q Consensus 36 C~~~g~~y~~Ge~w~~~~d~C~~C~C~~G~v~C~~~~Cp-~~C~~~~-~~~pG~CCp~C 92 (156)
|.++|++|.+|++|++ ++|++|+|.+|.|.|.++.|| ++|+.+. +..+|+|||+|
T Consensus 1 C~~~g~~y~~g~~w~~--~~C~~C~C~~G~v~C~~~~Cp~~~C~~~~~~~~~g~CCp~C 57 (57)
T PF00093_consen 1 CSFNGRVYQNGESWHP--DPCTTCTCQDGEVQCSRIQCPPLDCPNPELVKPPGECCPVC 57 (57)
T ss_dssp EESSS-EE-SS-EE-S---SSEEEEEETTEEEEEE---S-SS-S-------SS-S--S-
T ss_pred CeeCCEEeCCCCEECC--CCCcEeEecCCEEEEcCCCCcCCCCCCCceecCCCCcCCCC
Confidence 6899999999999999 679999999999999999999 8999983 38899999987
No 2
>smart00214 VWC von Willebrand factor (vWF) type C domain.
Probab=99.41 E-value=5e-13 Score=87.12 Aligned_cols=55 Identities=40% Similarity=1.044 Sum_probs=50.5
Q ss_pred cccCCEEecCCCeEeCCCCCceEEEecCCc-eEEEeeecC-C-CCCCCC-CCCCCCCCCCC
Q psy11988 36 CVHHGVFRESGSEWTDPDNPCRIFTCKAGV-VTETEMQCY-A-PCKHPT-PPGPGQCCPTC 92 (156)
Q Consensus 36 C~~~g~~y~~Ge~w~~~~d~C~~C~C~~G~-v~C~~~~Cp-~-~C~~~~-~~~pG~CCp~C 92 (156)
|.|+|+.|.+|++|++ |+|++|+|.+|. |.|.++.|| . .|+++. +..+|+|||+|
T Consensus 1 C~~~g~~y~~G~~W~~--~~C~~C~C~~g~~v~C~~~~Cp~~~~C~~~~~~~~~g~CCp~C 59 (59)
T smart00214 1 CVHNGEVYNDGETWKP--DPCQICTCLDGETVLCDPVECPPPPDCPNPERVKPPGECCPRC 59 (59)
T ss_pred CccCCEEeCCCCEECC--CCCeECCcCCCCEEEeeeecCCCCCCCCCCcccCCCCCcCCCC
Confidence 7899999999999998 789999999999 999999999 4 799886 47899999987
No 3
>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=97.86 E-value=8.4e-06 Score=52.52 Aligned_cols=32 Identities=34% Similarity=0.845 Sum_probs=14.8
Q ss_pred CCeEEeeccCCCCCCCCCcccccccCCCcCCCC
Q psy11988 1 NGFVECNRKSCPNQEGCHKLLEAKEKDGCCRKC 33 (156)
Q Consensus 1 ~G~v~C~~~~Cp~~~~C~~~v~~~~~g~CCP~C 33 (156)
+|.|+|.++.||+++ |+++.+.+.+|+|||+|
T Consensus 26 ~G~v~C~~~~Cp~~~-C~~~~~~~~~g~CCp~C 57 (57)
T PF00093_consen 26 DGEVQCSRIQCPPLD-CPNPELVKPPGECCPVC 57 (57)
T ss_dssp TTEEEEEE---S-SS--S-------SS-S--S-
T ss_pred CCEEEEcCCCCcCCC-CCCCceecCCCCcCCCC
Confidence 699999999999986 99992228999999987
No 4
>smart00215 VWC_out von Willebrand factor (vWF) type C domain.
Probab=97.85 E-value=1.1e-05 Score=54.15 Aligned_cols=40 Identities=33% Similarity=0.830 Sum_probs=35.6
Q ss_pred cccCCEEecCCCeEeCCCCCceEEEecCCceEEEeeecC-CCCC
Q psy11988 36 CVHHGVFRESGSEWTDPDNPCRIFTCKAGVVTETEMQCY-APCK 78 (156)
Q Consensus 36 C~~~g~~y~~Ge~w~~~~d~C~~C~C~~G~v~C~~~~Cp-~~C~ 78 (156)
|.++|+.|.+|++|. |.|.+|+|.+|.+.|+++.|+ .+|.
T Consensus 1 C~~~G~~y~~g~~w~---d~Cn~CtC~~G~v~Ct~~~C~~~~c~ 41 (67)
T smart00215 1 CYNNGSYYPPGAKWD---DDCNRCTCLNGRVSCTKVWCGPKPCL 41 (67)
T ss_pred CeECCEEcCCCCccc---cCCCCCEecCCCEEecCCcCCCchhh
Confidence 689999999999997 469999999999999999998 4553
No 5
>PF12714 TILa: TILa domain
Probab=97.47 E-value=0.00019 Score=46.28 Aligned_cols=38 Identities=29% Similarity=0.680 Sum_probs=33.5
Q ss_pred ccc-cCCEEecCCCeEeCCCCCce-EEEe-cCCceEEEeeecC
Q psy11988 35 GCV-HHGVFRESGSEWTDPDNPCR-IFTC-KAGVVTETEMQCY 74 (156)
Q Consensus 35 ~C~-~~g~~y~~Ge~w~~~~d~C~-~C~C-~~G~v~C~~~~Cp 74 (156)
+|+ ++|+.|..||+|.. +.|+ .|+| .+|.|.|....|+
T Consensus 1 GC~d~~G~yy~~Ge~~~~--~~C~~~C~C~~~g~v~C~~~~C~ 41 (56)
T PF12714_consen 1 GCTDYNGRYYPPGESWWT--DDCTQRCTCQPNGQVQCQPSSCP 41 (56)
T ss_pred CCcCcCCEEECCCCEEeC--CCCCEeEEEcCCCeEEEeCCCCC
Confidence 588 99999999999998 4466 7999 6899999999988
No 6
>smart00214 VWC von Willebrand factor (vWF) type C domain.
Probab=97.25 E-value=0.00029 Score=45.52 Aligned_cols=33 Identities=30% Similarity=0.795 Sum_probs=27.0
Q ss_pred CCe-EEeeccCCCCCCCCCcccccccCCCcCCCC
Q psy11988 1 NGF-VECNRKSCPNQEGCHKLLEAKEKDGCCRKC 33 (156)
Q Consensus 1 ~G~-v~C~~~~Cp~~~~C~~~v~~~~~g~CCP~C 33 (156)
+|. |+|.++.||++.+|++++..+.+|+|||+|
T Consensus 26 ~g~~v~C~~~~Cp~~~~C~~~~~~~~~g~CCp~C 59 (59)
T smart00214 26 DGETVLCDPVECPPPPDCPNPERVKPPGECCPRC 59 (59)
T ss_pred CCCEEEeeeecCCCCCCCCCCcccCCCCCcCCCC
Confidence 577 999999999863499876446899999987
No 7
>PF05375 Pacifastin_I: Pacifastin inhibitor (LCMII); InterPro: IPR008037 Peptide proteinase inhibitors can be found as single domain proteins or as single or multiple domains within proteins; these are referred to as either simple or compound inhibitors, respectively. In many cases they are synthesised as part of a larger precursor protein, either as a prepropeptide or as an N-terminal domain associated with an inactive peptidase or zymogen. This domain prevents access of the substrate to the active site. Removal of the N-terminal inhibitor domain either by interaction with a second peptidase or by autocatalytic cleavage activates the zymogen. Other inhibitors interact direct with proteinases using a simple noncovalent lock and key mechanism; while yet others use a conformational change-based trapping mechanism that depends on their structural and thermodynamic properties. This family of serine protease inhibitors belong to MEROPS inhibitor family I19, clan IW. They inhibit chymotrpsin, a peptidase belong to the S1 family (IPR001254 from INTERPRO) []. They were first isolated from Locusta migratoria migratoria(migratory locust). These were HI, LMCI-1 (PMP-D2) and LMCI-2 (PMP-C) [, , ]; five additional members SGPI-1 to 5 were identified in Schistocerca gregaria (desert locust) [, ], and a heterodimeric serine protease inhibitor (pacifastin) was isolated from the hemolymph of Pacifastacus leniusculus (Signal crayfish) []. Pacifastin is a 155kDa composed of two covalently linked subunits, which are separately encoded. The heavy chain of pacifastin (105 kDa) is related to transferrins, containing three transferrin lobes, two of which seem to be active for iron binding []. A number of the members of the transferrin family are also serine peptidases belong to MEROPS peptidase family S60 (IPR001156 from INTERPRO). The light chain of pacifastin (44 kDa) is the proteinase inhibitory subunit, and has nine cysteine-rich inhibitory domains that are homologous to each other. The locust inhibitors share a conserved array of six cysteine residues with the pacifastin light chain. The structure of members of this family reveal that they are comprised of a triple-stranded antiparallel beta-sheet connected by three disulphide bridges []. The biological function(s) of the locust inhibitors is (are) not fully understood. LMCI-1 and LMCI-2 were shown to inhibit the endogenous proteolytic activating cascade of prophenoloxidase []. Expression analysis shows that the genes encoding the SGPI precursors are differentially expressed in a time-, stage- and hormone-dependent manner.; GO: 0030414 peptidase inhibitor activity; PDB: 2VU8_I 1WO9_A 1GL1_K 1PMC_A 2XTT_A 2F91_B 1KJ0_A 1GL0_I 1KGM_A 3TVJ_I.
Probab=91.92 E-value=0.24 Score=29.69 Aligned_cols=28 Identities=29% Similarity=0.552 Sum_probs=23.2
Q ss_pred cCCCeEeCCCCCceEEEec-CCceEEEeeecC
Q psy11988 44 ESGSEWTDPDNPCRIFTCK-AGVVTETEMQCY 74 (156)
Q Consensus 44 ~~Ge~w~~~~d~C~~C~C~-~G~v~C~~~~Cp 74 (156)
.+|++|.. .|..|+|. +|...|.++.|+
T Consensus 3 ~pG~~~k~---dCN~C~C~~~G~~~CT~~~C~ 31 (39)
T PF05375_consen 3 TPGSTFKK---DCNTCTCSSDGKWACTRKACP 31 (39)
T ss_dssp -TTTEEEE---TTEEEEEBTTSSEEEE-SSSS
T ss_pred CCCCeeeC---CCCCCCCCCCCcCccCcccCc
Confidence 36888886 39999999 999999999997
No 8
>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=89.48 E-value=0.8 Score=27.95 Aligned_cols=35 Identities=29% Similarity=0.591 Sum_probs=26.8
Q ss_pred cccC--CEEecCCCeEeCCC-CCceEEEecC--CceEEEe
Q psy11988 36 CVHH--GVFRESGSEWTDPD-NPCRIFTCKA--GVVTETE 70 (156)
Q Consensus 36 C~~~--g~~y~~Ge~w~~~~-d~C~~C~C~~--G~v~C~~ 70 (156)
|.-+ ++.|..||+|.... ..-..|+|.. |.+.|.+
T Consensus 3 C~d~~t~~~Y~ige~W~r~~~~~~~~C~C~G~~G~~~C~~ 42 (43)
T cd00061 3 CFDPQTGVFYRVGETWERPSEGHVLQCTCLGNRGEARCDP 42 (43)
T ss_pred CCcCCcccEEeCCCEEEeecCCeEEEEEEeCCCCceEEee
Confidence 5544 89999999996542 2456899998 9998875
No 9
>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=88.73 E-value=0.53 Score=33.52 Aligned_cols=34 Identities=18% Similarity=0.453 Sum_probs=29.0
Q ss_pred ccc-cCCEEecCCCeEeCCCCCceEEEecCCceEEEe
Q psy11988 35 GCV-HHGVFRESGSEWTDPDNPCRIFTCKAGVVTETE 70 (156)
Q Consensus 35 ~C~-~~g~~y~~Ge~w~~~~d~C~~C~C~~G~v~C~~ 70 (156)
+|. .+|+.|.-|++|.. +.|..|+|....+.|-.
T Consensus 17 ~C~D~dG~~h~l~S~W~T--~~C~~C~C~~~Gi~CC~ 51 (94)
T PF05825_consen 17 ECKDWDGKKHPLNSTWKT--DDCEECSCSEDGISCCS 51 (94)
T ss_dssp CEEETTTEEEETTEEEEE--TTSEEEEEESSEEEEEE
T ss_pred ccEeCCCcEEeCCCeECC--CCCcEEEecCCceEecc
Confidence 455 78999999999998 67999999987787753
No 10
>KOG1544|consensus
Probab=86.70 E-value=0.63 Score=40.54 Aligned_cols=47 Identities=26% Similarity=0.685 Sum_probs=39.4
Q ss_pred cCCCcCCC----CC----------ccccCCEEecCCCeEeCCCCCceEEEecCCceEEEeeecC
Q psy11988 25 EKDGCCRK----CQ----------GCVHHGVFRESGSEWTDPDNPCRIFTCKAGVVTETEMQCY 74 (156)
Q Consensus 25 ~~g~CCP~----C~----------~C~~~g~~y~~Ge~w~~~~d~C~~C~C~~G~v~C~~~~Cp 74 (156)
....|||. |. +|..+|+.|.+|++.. +.|..|+|+++.-.|....|-
T Consensus 87 ~~sDCCPDf~~fCRg~pp~~Qp~~gc~~gg~~y~~G~t~~---~NCn~CTC~n~qWKCdq~~CL 147 (470)
T KOG1544|consen 87 TVSDCCPDFWDFCRGVPPPFQPIQGCMHGGRIYPVGGTYW---DNCNRCTCQNRQWKCDQEPCL 147 (470)
T ss_pred CCcccCcCHHHHhcCCCCCCCChhhcccCceecccCCeee---ccccceeecCCceecCCceee
Confidence 34668886 63 5999999999999865 469999999999999988875
No 11
>PF15430 SVWC: Single domain von Willebrand factor type C
Probab=85.59 E-value=2.1 Score=27.22 Aligned_cols=38 Identities=29% Similarity=0.496 Sum_probs=29.4
Q ss_pred cccCCEEecCCCeEeCCCCCceEEEecCCceEEEeeecC
Q psy11988 36 CVHHGVFRESGSEWTDPDNPCRIFTCKAGVVTETEMQCY 74 (156)
Q Consensus 36 C~~~g~~y~~Ge~w~~~~d~C~~C~C~~G~v~C~~~~Cp 74 (156)
|.|+|..+.+|+.|... ++|.+=+|..+.-.-....|+
T Consensus 1 C~y~~~~~~~g~~~~~~-~pC~~~~C~~~~~~v~v~~C~ 38 (65)
T PF15430_consen 1 CYYNGRTIPSGESYNPE-EPCERWTCDASDGYVTVEGCP 38 (65)
T ss_pred CEECCEEcCCCcEecCC-CCCceEEEECCCCEEEEEeCC
Confidence 78999999999999864 789999999444333456666
No 12
>smart00215 VWC_out von Willebrand factor (vWF) type C domain.
Probab=85.34 E-value=0.45 Score=31.79 Aligned_cols=33 Identities=12% Similarity=-0.022 Sum_probs=22.4
Q ss_pred CCCCCEEecCCceecCC----------CCCCceeecCchhhHH
Q psy11988 95 KRPYGLLYVAFGLLNAT----------FGPPHVASGLLNVAFA 127 (156)
Q Consensus 95 C~~~g~~y~~G~~~~~~----------~~c~~~~c~~~~~~~~ 127 (156)
|.++|++|++|+.|..+ ..|..+.|++.++.|-
T Consensus 1 C~~~G~~y~~g~~w~d~Cn~CtC~~G~v~Ct~~~C~~~~c~l~ 43 (67)
T smart00215 1 CYNNGSYYPPGAKWDDDCNRCTCLNGRVSCTKVWCGPKPCLLH 43 (67)
T ss_pred CeECCEEcCCCCccccCCCCCEecCCCEEecCCcCCCchhhcc
Confidence 57889999999999753 2233344666666554
No 13
>PF14828 Amnionless: Amnionless
Probab=84.38 E-value=0.45 Score=42.45 Aligned_cols=28 Identities=29% Similarity=0.895 Sum_probs=23.8
Q ss_pred Eeecc--CCCCCCCCCcccccccCCCcCCCCCc
Q psy11988 5 ECNRK--SCPNQEGCHKLLEAKEKDGCCRKCQG 35 (156)
Q Consensus 5 ~C~~~--~Cp~~~~C~~~v~~~~~g~CCP~C~~ 35 (156)
.|... +|+..+ |..|+ +..|+|||.|-.
T Consensus 205 ICs~v~~~C~~~~-C~~pl--~P~GhCC~iCGa 234 (437)
T PF14828_consen 205 ICSNVLQRCPKPH-CRSPL--RPEGHCCPICGA 234 (437)
T ss_pred hhHHhhCcCCCCc-cCCCC--CCCCCchhhcce
Confidence 46666 999986 99999 899999999954
No 14
>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=82.16 E-value=3.3 Score=25.49 Aligned_cols=32 Identities=19% Similarity=0.281 Sum_probs=24.7
Q ss_pred CEEecCCCeEeCCCC--CceEEEecCCc---eEEEee
Q psy11988 40 GVFRESGSEWTDPDN--PCRIFTCKAGV---VTETEM 71 (156)
Q Consensus 40 g~~y~~Ge~w~~~~d--~C~~C~C~~G~---v~C~~~ 71 (156)
++.|..||+|....+ .-..|+|..+. +.|.+.
T Consensus 7 ~~~Y~ige~W~r~~~~g~~~~C~C~G~g~G~~~C~~~ 43 (45)
T smart00058 7 GTTYRIGDTWERPYEGGHVLQCTCLGNGRGEWKCDPV 43 (45)
T ss_pred ccEEecCCEEEeecCCCcEEEeEEcCCCceEEEEEec
Confidence 789999999966433 46789999655 888864
No 15
>PF14828 Amnionless: Amnionless
Probab=81.20 E-value=0.56 Score=41.86 Aligned_cols=36 Identities=25% Similarity=0.693 Sum_probs=29.5
Q ss_pred eEEEecCCc---eEEEee--ecC-CCCCCCCCCCCCCCCCCCC
Q psy11988 57 RIFTCKAGV---VTETEM--QCY-APCKHPTPPGPGQCCPTCP 93 (156)
Q Consensus 57 ~~C~C~~G~---v~C~~~--~Cp-~~C~~~~~~~pG~CCp~C~ 93 (156)
.-|.|.+.. ..|..+ +|+ ..|.+|. .+.|+||++|-
T Consensus 192 ~gC~C~n~~~l~~ICs~v~~~C~~~~C~~pl-~P~GhCC~iCG 233 (437)
T PF14828_consen 192 SGCPCGNDEVLEWICSNVLQRCPKPHCRSPL-RPEGHCCPICG 233 (437)
T ss_pred ccCccCcccchhhhhHHhhCcCCCCccCCCC-CCCCCchhhcc
Confidence 478887644 567777 899 7999998 89999999994
No 16
>PF15430 SVWC: Single domain von Willebrand factor type C
Probab=75.54 E-value=2.9 Score=26.57 Aligned_cols=30 Identities=7% Similarity=-0.288 Sum_probs=25.9
Q ss_pred CCCCCEEecCCceecCCCCCCceeecCchh
Q psy11988 95 KRPYGLLYVAFGLLNATFGPPHVASGLLNV 124 (156)
Q Consensus 95 C~~~g~~y~~G~~~~~~~~c~~~~c~~~~~ 124 (156)
|.++|+.+.+|+.|.....|.+++|...+.
T Consensus 1 C~y~~~~~~~g~~~~~~~pC~~~~C~~~~~ 30 (65)
T PF15430_consen 1 CYYNGRTIPSGESYNPEEPCERWTCDASDG 30 (65)
T ss_pred CEECCEEcCCCcEecCCCCCceEEEECCCC
Confidence 678899999999999999999999984443
No 17
>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=73.61 E-value=3.4 Score=24.59 Aligned_cols=30 Identities=27% Similarity=0.463 Sum_probs=20.8
Q ss_pred CCEEecCCCeEeCCC-CCceEEEecC---CceEE
Q psy11988 39 HGVFRESGSEWTDPD-NPCRIFTCKA---GVVTE 68 (156)
Q Consensus 39 ~g~~y~~Ge~w~~~~-d~C~~C~C~~---G~v~C 68 (156)
.++.|..||+|.... ..=..|+|.. |.+.|
T Consensus 6 t~~~Y~vge~W~R~~~g~~~~CtC~G~g~G~~~C 39 (39)
T PF00039_consen 6 TGQFYQVGETWERPYQGHMMQCTCLGNGRGEWKC 39 (39)
T ss_dssp TTEEEETTEEEEEEETSSEEEEEEEETTTTEEEE
T ss_pred CccEEeCCCEEEeecCCeEEEeEECCCCccceEC
Confidence 489999999996431 2345799964 65655
No 18
>PF12714 TILa: TILa domain
Probab=59.06 E-value=14 Score=23.42 Aligned_cols=25 Identities=12% Similarity=-0.099 Sum_probs=19.0
Q ss_pred CCC-CCCEEecCCceecCCCCCCc-eee
Q psy11988 94 GKR-PYGLLYVAFGLLNATFGPPH-VAS 119 (156)
Q Consensus 94 ~C~-~~g~~y~~G~~~~~~~~c~~-~~c 119 (156)
+|. ++|+.|+.|++|-.+. |.+ .+|
T Consensus 1 GC~d~~G~yy~~Ge~~~~~~-C~~~C~C 27 (56)
T PF12714_consen 1 GCTDYNGRYYPPGESWWTDD-CTQRCTC 27 (56)
T ss_pred CCcCcCCEEECCCCEEeCCC-CCEeEEE
Confidence 577 8899999999998865 332 555
No 19
>PF09443 CFC: Cripto_Frl-1_Cryptic (CFC); InterPro: IPR019011 This entry represents the CFC domain found in the membrane protein Cripto (or teratocarcinoma-derived growth factor), a protein over expressed in many tumours [, ] and structurally similar to the C-terminal extracellular portions of Jagged 1 and Jagged 2 []. CFC is approx 40-residues long, compacted by three internal disulphide bridges, and binds Alk4 via a hydrophobic patch. CFC is structurally homologous to the VWFC-like domain []. The protein Cripto is the founding member of the extra-cellular EGF-CFC growth factors, which are composed of two adjacent cysteine-rich domains: the EGF-like (IPR006210 from INTERPRO) and the CFC domains. Members of the EGF-CFC family play key roles in embryonic development and are also implicated in tumourigenesis []. The Cripto protein could play a role in the determination of the epiblastic cells that subsequently give rise to the mesoderm. Although both the EGF and CFC domains are involved in the tumourigenic activity of Crispto proteins, the CFC domain appears to play a crucial role, as it is through the CFC domain that Crispto interferes with the onco-suppressive activity of Activins, either by blocking the Activin receptor ALK4 or by antagonising proteins of the TGF-beta family []. The Cryptic protein is involved in the correct establishment of the left-right axis. May play a role in mesoderm and/or neural patterning during gastrulation.; PDB: 2J5H_A.
Probab=39.07 E-value=11 Score=22.25 Aligned_cols=24 Identities=25% Similarity=0.552 Sum_probs=7.1
Q ss_pred CeEeCCCCCceEEEecCCceEEEeee
Q psy11988 47 SEWTDPDNPCRIFTCKAGVVTETEMQ 72 (156)
Q Consensus 47 e~w~~~~d~C~~C~C~~G~v~C~~~~ 72 (156)
..|.. ..|..|+|..|+..|.+.+
T Consensus 7 g~W~~--~~C~lCrC~~G~LhC~p~~ 30 (36)
T PF09443_consen 7 GEWVP--KGCSLCRCWYGTLHCFPQQ 30 (36)
T ss_dssp TT-SS-----------SSS--S--SS
T ss_pred CCeee--cCceeeEeecCcEEEcCcc
Confidence 35777 6799999999999998643
No 20
>PF10791 F1F0-ATPsyn_F: Mitochondrial F1-F0 ATP synthase subunit F of fungi; InterPro: IPR019727 ATPases (or ATP synthases) are membrane-bound enzyme complexes/ion transporters that combine ATP synthesis and/or hydrolysis with the transport of protons across a membrane. ATPases can harness the energy from a proton gradient, using the flux of ions across the membrane via the ATPase proton channel to drive the synthesis of ATP. Some ATPases work in reverse, using the energy from the hydrolysis of ATP to create a proton gradient. There are different types of ATPases, which can differ in function (ATP synthesis and/or hydrolysis), structure (e.g., F-, V- and A-ATPases, which contain rotary motors) and in the type of ions they transport [, ]. The different types include: F-ATPases (F1F0-ATPases), which are found in mitochondria, chloroplasts and bacterial plasma membranes where they are the prime producers of ATP, using the proton gradient generated by oxidative phosphorylation (mitochondria) or photosynthesis (chloroplasts). V-ATPases (V1V0-ATPases), which are primarily found in eukaryotic vacuoles and catalyse ATP hydrolysis to transport solutes and lower pH in organelles. A-ATPases (A1A0-ATPases), which are found in Archaea and function like F-ATPases (though with respect to their structure and some inhibitor responses, A-ATPases are more closely related to the V-ATPases). P-ATPases (E1E2-ATPases), which are found in bacteria and in eukaryotic plasma membranes and organelles, and function to transport a variety of different ions across membranes. E-ATPases, which are cell-surface enzymes that hydrolyse a range of NTPs, including extracellular ATP. F-ATPases (also known as F1F0-ATPase, or H(+)-transporting two-sector ATPase) (3.6.3.14 from EC) are composed of two linked complexes: the F1 ATPase complex is the catalytic core and is composed of 5 subunits (alpha, beta, gamma, delta, epsilon), while the F0 ATPase complex is the membrane-embedded proton channel that is composed of at least 3 subunits (A-C), nine in mitochondria (A-G, F6, F8). Both the F1 and F0 complexes are rotary motors that are coupled back-to-back. In the F1 complex, the central gamma subunit forms the rotor inside the cylinder made of the alpha(3)beta(3) subunits, while in the F0 complex, the ring-shaped C subunits forms the rotor. The two rotors rotate in opposite directions, but the F0 rotor is usually stronger, using the force from the proton gradient to push the F1 rotor in reverse in order to drive ATP synthesis []. These ATPases can also work in reverse to hydrolyse ATP to create a proton gradient. This entry represents subunit F found in the F0 complex of F-ATPases from fungal mitochondria. The membrane bound F1-FO-type H+ ATP synthase of mitochondria catalyses the terminal step in oxidative respiration converting the generation of the electrochemical gradient into ATP for cellular biosynthesis. The general structure and the core subunits of the enzyme are highly conserved in both prokaryotic and eukaryotic organisms.
Probab=37.46 E-value=19 Score=25.72 Aligned_cols=23 Identities=22% Similarity=0.655 Sum_probs=18.7
Q ss_pred HHHHHHHhHhhhhhhhheeeeee
Q psy11988 127 ALLHVAFGFLVLSFGFQAFLTLK 149 (156)
Q Consensus 127 ~~~~~~~~~~~~~~~~~~~~~~~ 149 (156)
-++|+++|++++.++.+-+..||
T Consensus 73 PllHli~~l~~iGYs~eYyfHLr 95 (95)
T PF10791_consen 73 PLLHLIGGLFLIGYSIEYYFHLR 95 (95)
T ss_pred cHHHHHHHHHHHHHHHHhHhhcC
Confidence 48999999999999887665553
No 21
>PF09064 Tme5_EGF_like: Thrombomodulin like fifth domain, EGF-like; InterPro: IPR015149 This domain adopts a fold similar to other EGF domains, with a flat major and a twisted minor beta sheet. Disulphide pairing, however, is not of the usual 1-3, 2-4, 5-6 type; rather 1-2, 3-4, 5-6 pairing is found. Its extended major sheet (strands beta-2 and beta-3 and the connecting loop) projects into thrombin's active site groove. This domain is required for interaction of thrombomodulin with thrombin, and subsequent activation of protein-C []. ; GO: 0004888 transmembrane signaling receptor activity, 0016021 integral to membrane
Probab=26.26 E-value=48 Score=19.28 Aligned_cols=13 Identities=38% Similarity=1.112 Sum_probs=9.2
Q ss_pred EeeccCCCCCCCCCc
Q psy11988 5 ECNRKSCPNQEGCHK 19 (156)
Q Consensus 5 ~C~~~~Cp~~~~C~~ 19 (156)
+|+.++||. .|..
T Consensus 2 fCn~t~CpA--~CDp 14 (34)
T PF09064_consen 2 FCNQTECPA--DCDP 14 (34)
T ss_pred ccccccCCC--ccCC
Confidence 578888887 4754
Done!