Query 035016
Match_columns 76
No_of_seqs 66 out of 68
Neff 3.0
Searched_HMMs 46136
Date Fri Mar 29 08:30:52 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/035016.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/035016hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 cd02979 PHOX_C FAD-dependent P 51.7 17 0.00038 25.2 2.8 26 49-74 25-55 (167)
2 KOG1973 Chromatin remodeling p 51.2 7.5 0.00016 29.3 0.9 21 9-30 237-264 (274)
3 cd05751 Ig1_LILRB1_like First 50.2 17 0.00037 22.0 2.3 21 39-59 14-34 (91)
4 PF03190 Thioredox_DsbH: Prote 49.2 3.9 8.4E-05 29.5 -0.8 11 9-19 46-56 (163)
5 COG1331 Highly conserved prote 38.7 11 0.00023 32.9 0.1 10 9-18 52-61 (667)
6 cd05711 Ig_FcalphaRI Immunoglo 29.5 62 0.0013 19.9 2.5 22 38-59 12-33 (94)
7 PF07976 Phe_hydrox_dim: Pheno 28.1 60 0.0013 22.5 2.4 25 50-74 58-87 (169)
8 KOG2290 Rhomboid family protei 26.9 22 0.00049 30.9 0.1 22 7-28 621-642 (652)
9 KOG2244 Highly conserved prote 26.5 26 0.00056 31.1 0.5 12 8-19 120-131 (786)
10 PF00039 fn1: Fibronectin type 21.2 1.2E+02 0.0025 17.0 2.3 20 36-55 17-36 (39)
11 cd07694 Ig2_CD4 Second immunog 20.8 70 0.0015 21.2 1.6 17 39-55 12-28 (88)
No 1
>cd02979 PHOX_C FAD-dependent Phenol hydoxylase (PHOX) family, C-terminal TRX-fold domain; composed of proteins similar to PHOX from the aerobic topsoil yeast Trichosporon cutaneum. PHOX is a flavoprotein monooxygenase that catalyzes the hydroxylation of phenol and simple phenol derivatives in the ortho position with the consumption of NADPH and oxygen. This is the first step in the biodegradation and detoxification of phenolic compounds. PHOX contains three domains. The substrate and FAD/NAD(P) binding sites are contained in the first two domains, which adopt a complicated folding pattern. The third or C-terminal domain contains a TRX fold and is involved in dimerization. The functional unit of PHOX is a dimer, although active tetramers of the recombinant enzyme can be isolated when overproduced in bacteria.
Probab=51.69 E-value=17 Score=25.21 Aligned_cols=26 Identities=23% Similarity=0.673 Sum_probs=19.4
Q ss_pred ccCCeeeeEEecCCCh-----HHHHHHHHhh
Q 035016 49 SSNGKSNLYILSNPSS-----SQIQSLCTEL 74 (76)
Q Consensus 49 ~snGk~~~y~l~n~s~-----s~i~~LC~ql 74 (76)
.++|++++|.++.... ++++.||..|
T Consensus 25 ~adGrfrI~vFagd~~~~~~~~~l~~~~~~L 55 (167)
T cd02979 25 PADGRFRIYVFAGDIAPAQQKSRLTQLCDAL 55 (167)
T ss_pred cCCCCEEEEEEcCCCCchhHHHHHHHHHHHH
Confidence 3889999999977432 4578888655
No 2
>KOG1973 consensus Chromatin remodeling protein, contains PHD Zn-finger [Chromatin structure and dynamics]
Probab=51.18 E-value=7.5 Score=29.33 Aligned_cols=21 Identities=43% Similarity=1.395 Sum_probs=16.5
Q ss_pred CCCCc--ccccccee-----eCCCceecC
Q 035016 9 NDHCS--WCHYLSCV-----PTSRWSCRT 30 (76)
Q Consensus 9 n~~Cs--WChYlsCv-----Pts~W~C~~ 30 (76)
|+.|. |=|| .|| |+.+|.|..
T Consensus 237 n~~C~~eWFH~-~CVGL~~~PkgkWyC~~ 264 (274)
T KOG1973|consen 237 NPGCPIEWFHF-TCVGLKTKPKGKWYCPR 264 (274)
T ss_pred CCCCCcceEEE-eccccccCCCCcccchh
Confidence 66787 8886 577 788999984
No 3
>cd05751 Ig1_LILRB1_like First immunoglobulin (Ig)-like domain found in Leukocyte Ig-like receptors (LILR)B1 (also known as LIR-1) and similar proteins. Ig1_LILRB1_like: domain similar to the first immunoglobulin (Ig)-like domain found in Leukocyte Ig-like receptors (LILR)B1 (also known as LIR-1). This group includes, LILRA5 (LIR9), an activating natural cytotoxicity receptor NKp46, and the immune-type receptor glycoprotein VI (GPVI). LILRs are a family of immunoreceptors expressed on expressed on T and B cells, on monocytes, dendritic cells, and subgroups of natural killer (NK) cells. The human LILR family contains nine proteins (LILRA1-3,and 5, and LILRB1-5). From functional assays, and as the cytoplasmic domains of various LILRs, for example LILRB1 (LIR-1), LILRB2 (LIR-2), and LILRB3 (LIR-3) contain immunoreceptor tyrosine-based inhibitory motifs (ITIMs) it is thought that LIR proteins are inhibitory receptors. Of the eight LIR family proteins, only LIR-1(LILRB1), and LIR-2 (LILRB2),
Probab=50.18 E-value=17 Score=22.00 Aligned_cols=21 Identities=19% Similarity=0.295 Sum_probs=17.4
Q ss_pred ecCCeeEEEEccCCeeeeEEe
Q 035016 39 QDGNQLNVTCSSNGKSNLYIL 59 (76)
Q Consensus 39 q~gnqLnlTC~snGk~~~y~l 59 (76)
..|..++|+|.+......|.+
T Consensus 14 ~~G~~VtL~C~~~~~~~~f~l 34 (91)
T cd05751 14 PLGKPVTLRCQGPYGAVEYRL 34 (91)
T ss_pred CCCCcEEEEEecCCCCCEEEE
Confidence 478999999999977777765
No 4
>PF03190 Thioredox_DsbH: Protein of unknown function, DUF255; InterPro: IPR004879 This is a group of uncharacterised proteins.; PDB: 3IRA_A.
Probab=49.17 E-value=3.9 Score=29.45 Aligned_cols=11 Identities=36% Similarity=1.307 Sum_probs=7.1
Q ss_pred CCCCccccccc
Q 035016 9 NDHCSWCHYLS 19 (76)
Q Consensus 9 n~~CsWChYls 19 (76)
.+-|+|||.+.
T Consensus 46 ~~~C~wChvM~ 56 (163)
T PF03190_consen 46 YSWCHWCHVME 56 (163)
T ss_dssp -TT-HHHHHHH
T ss_pred ecCCcchhhhc
Confidence 56799999763
No 5
>COG1331 Highly conserved protein containing a thioredoxin domain [Posttranslational modification, protein turnover, chaperones]
Probab=38.69 E-value=11 Score=32.91 Aligned_cols=10 Identities=40% Similarity=1.448 Sum_probs=7.8
Q ss_pred CCCCcccccc
Q 035016 9 NDHCSWCHYL 18 (76)
Q Consensus 9 n~~CsWChYl 18 (76)
-.+|||||.+
T Consensus 52 ys~CHWChVM 61 (667)
T COG1331 52 YSTCHWCHVM 61 (667)
T ss_pred cccccchHHH
Confidence 4589999976
No 6
>cd05711 Ig_FcalphaRI Immunoglobulin (IG)-like domain of of FcalphaRI. IG_FcalphaRI : immunoglobulin (IG)-like domain of of FcalphaRI. FcalphaRI (CD89) is an IgA-specific receptor that is expressed on monocytes, eosinophils, neutrophils and macrophages. FcalphaRI mediates IgA-induced immune effector responses such as phagocytosis, antibody-dependent cell-mediated cytotoxicity and respiratory burst. Both monomeric and dimeric IgA can bind to FcalphaRI, and monomeric or dimeric IgA immune complexes can activate phagocytosis and other immune responses through the clustering of FcalphaRI. The Fc RI ectodomain is comprised of two Ig-like domains oriented at about 90 degree to each another.
Probab=29.45 E-value=62 Score=19.88 Aligned_cols=22 Identities=23% Similarity=0.558 Sum_probs=15.8
Q ss_pred eecCCeeEEEEccCCeeeeEEe
Q 035016 38 TQDGNQLNVTCSSNGKSNLYIL 59 (76)
Q Consensus 38 ~q~gnqLnlTC~snGk~~~y~l 59 (76)
-+.|..++|.|.+...+..|.+
T Consensus 12 V~~G~~VTL~C~~~~~~~~f~l 33 (94)
T cd05711 12 VPSGENVTLQCHSDIRFDRFIL 33 (94)
T ss_pred cCCCCeEEEEEecCCCCCEEEE
Confidence 3578899999977765555554
No 7
>PF07976 Phe_hydrox_dim: Phenol hydroxylase, C-terminal dimerisation domain ; InterPro: IPR012941 Phenol hydroxylase is a homodimer which hydroxylates phenol to catechol, or similar products. The enzyme is comprised of three domains. The first two domains form the active site. The third domain, this domain, is involved in forming the dimerisation interface. The domain adopts a thioredoxin-like fold [].; PDB: 2DKH_A 2DKI_A 1PN0_A 1FOH_D.
Probab=28.06 E-value=60 Score=22.54 Aligned_cols=25 Identities=24% Similarity=0.453 Sum_probs=17.0
Q ss_pred cCCeeeeEEecCCCh-----HHHHHHHHhh
Q 035016 50 SNGKSNLYILSNPSS-----SQIQSLCTEL 74 (76)
Q Consensus 50 snGk~~~y~l~n~s~-----s~i~~LC~ql 74 (76)
++|+|++|.|+.... ++++.|+..|
T Consensus 58 sdGrfri~vFagd~~~~~~~~~l~~l~~~L 87 (169)
T PF07976_consen 58 SDGRFRILVFAGDISLPEQLSRLSALADYL 87 (169)
T ss_dssp SSS-EEEEEEEETTTTCHCCCHHHHHHHHH
T ss_pred cCCCEEEEEEeCCCccchhHHHHHHHHHHH
Confidence 789999999954332 2578887765
No 8
>KOG2290 consensus Rhomboid family proteins [Signal transduction mechanisms]
Probab=26.86 E-value=22 Score=30.88 Aligned_cols=22 Identities=32% Similarity=0.978 Sum_probs=16.8
Q ss_pred CCCCCCccccccceeeCCCcee
Q 035016 7 DANDHCSWCHYLSCVPTSRWSC 28 (76)
Q Consensus 7 ~~n~~CsWChYlsCvPts~W~C 28 (76)
+---.|.||-||+|+|...=.|
T Consensus 621 ~~~i~cpWce~ltClP~~~~~~ 642 (652)
T KOG2290|consen 621 NYPIDCPWCEHLTCLPFTDCFC 642 (652)
T ss_pred ecccCCchhhhccccchhhhhh
Confidence 4455799999999999865443
No 9
>KOG2244 consensus Highly conserved protein containing a thioredoxin domain [General function prediction only]
Probab=26.52 E-value=26 Score=31.11 Aligned_cols=12 Identities=33% Similarity=1.226 Sum_probs=8.9
Q ss_pred CCCCCccccccc
Q 035016 8 ANDHCSWCHYLS 19 (76)
Q Consensus 8 ~n~~CsWChYls 19 (76)
+..-|+||||+-
T Consensus 120 gystchwchvme 131 (786)
T KOG2244|consen 120 GYSTCHWCHVME 131 (786)
T ss_pred ccccchheeeee
Confidence 345799999973
No 10
>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=21.23 E-value=1.2e+02 Score=16.99 Aligned_cols=20 Identities=25% Similarity=0.606 Sum_probs=15.5
Q ss_pred eeeecCCeeEEEEccCCeee
Q 035016 36 STTQDGNQLNVTCSSNGKSN 55 (76)
Q Consensus 36 ~~~q~gnqLnlTC~snGk~~ 55 (76)
+-+..|..+.=||.+||+.+
T Consensus 17 ~R~~~g~~~~CtC~G~g~G~ 36 (39)
T PF00039_consen 17 ERPYQGHMMQCTCLGNGRGE 36 (39)
T ss_dssp EEEETSSEEEEEEEETTTTE
T ss_pred EeecCCeEEEeEECCCCccc
Confidence 34455999999999998754
No 11
>cd07694 Ig2_CD4 Second immunoglobulin (Ig) domain of CD4. Ig2_CD4; second immunoglobulin (Ig) domain of CD4. CD4 and CD8 are the two primary co-receptor proteins found on the surface of T cells, and the presence of either CD4 or CD8 determines the function of the T cell. CD4 is found on helper T cells, where it is required for the binding of MHC (major histocompatibility complex) class II molecules, while CD8 is found on cytotoxic T cells, where it is required for the binding of MHC class I molecules. CD4 contains four immunoglobulin domains, with the first three included in this hierarchy. The fourth domain has a general Ig architecture, but has slight topological changes in the arrangement of beta strands relative to the other structures in this family and is not specifically included in the hierarchy.
Probab=20.79 E-value=70 Score=21.15 Aligned_cols=17 Identities=24% Similarity=0.305 Sum_probs=13.0
Q ss_pred ecCCeeEEEEccCCeee
Q 035016 39 QDGNQLNVTCSSNGKSN 55 (76)
Q Consensus 39 q~gnqLnlTC~snGk~~ 55 (76)
-.|..|+|||+++..+.
T Consensus 12 L~G~sLtLtl~~~s~s~ 28 (88)
T cd07694 12 LSGTNLTLTLHGSSNSL 28 (88)
T ss_pred ecCCcEEEEEecCCCCC
Confidence 46889999999966443
Done!