Query 011834
Match_columns 476
No_of_seqs 30 out of 32
Neff 2.1
Searched_HMMs 46136
Date Fri Mar 29 05:44:33 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/011834.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/011834hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF02365 NAM: No apical merist 95.8 0.00036 7.9E-09 58.8 -4.8 100 262-372 17-128 (129)
2 cd08780 Death_TRADD Death Doma 91.0 0.15 3.2E-06 44.1 2.1 14 51-64 47-60 (90)
3 cd08313 Death_TNFR1 Death doma 87.0 0.43 9.3E-06 39.6 2.1 17 50-66 37-53 (80)
4 cd08319 Death_RAIDD Death doma 84.6 0.68 1.5E-05 38.5 2.1 17 51-67 41-57 (83)
5 cd08777 Death_RIP1 Death Domai 77.4 1.8 3.9E-05 35.9 2.2 15 51-65 42-56 (86)
6 cd08316 Death_FAS_TNFRSF6 Deat 75.1 2.1 4.5E-05 36.7 2.1 15 51-65 48-62 (97)
7 cd08784 Death_DRs Death Domain 72.8 3.7 8.1E-05 33.2 2.9 30 33-65 23-52 (79)
8 cd08779 Death_PIDD Death Domai 72.3 2.8 6.1E-05 34.6 2.1 16 51-66 41-56 (86)
9 cd08318 Death_NMPP84 Death dom 68.0 5.9 0.00013 32.5 3.1 29 34-67 33-61 (86)
10 cd08804 Death_ank2 Death domai 64.6 5.2 0.00011 33.0 2.2 15 51-65 43-57 (84)
11 cd08306 Death_FADD Fas-associa 64.0 5.3 0.00011 32.9 2.1 15 51-65 41-55 (86)
12 cd08315 Death_TRAILR_DR4_DR5 D 63.5 5 0.00011 33.9 2.0 15 52-66 47-61 (96)
13 cd08317 Death_ank Death domain 48.2 15 0.00033 29.7 2.3 14 52-65 44-57 (84)
14 smart00005 DEATH DEATH domain, 41.5 22 0.00047 27.8 2.2 15 51-65 45-59 (88)
15 cd08805 Death_ank1 Death domai 38.8 25 0.00054 29.5 2.3 15 51-65 43-57 (84)
16 cd08815 Death_TNFRSF25_DR3 Dea 38.4 19 0.00042 30.5 1.6 20 47-66 34-53 (77)
17 COG0113 HemB Delta-aminolevuli 35.3 16 0.00034 38.0 0.7 13 345-358 218-230 (330)
18 cd01670 Death Death Domain: a 32.7 50 0.0011 25.1 2.9 17 51-67 37-53 (79)
19 PF11464 Rbsn: Rabenosyn Rab b 30.8 62 0.0013 24.9 3.0 28 34-61 10-37 (42)
20 cd08311 Death_p75NR Death doma 30.7 34 0.00074 28.2 1.8 13 53-65 40-52 (77)
21 cd08803 Death_ank3 Death domai 30.5 41 0.00088 28.1 2.2 29 34-66 30-58 (84)
22 TIGR02132 phaR_Bmeg polyhydrox 29.2 74 0.0016 31.1 4.0 41 21-61 83-136 (189)
23 PF02840 Prp18: Prp18 domain; 26.9 56 0.0012 30.3 2.7 40 55-95 5-51 (144)
24 PF00531 Death: Death domain; 26.2 56 0.0012 24.8 2.2 15 51-65 39-53 (83)
25 PF12588 PSDC: Phophatidylseri 26.1 91 0.002 28.7 3.8 40 51-90 98-138 (141)
26 PHA01513 mnt Mnt 24.5 1.2E+02 0.0027 26.0 4.1 41 37-93 22-62 (82)
27 PF05596 Taeniidae_ag: Taeniid 24.2 25 0.00055 28.7 -0.0 20 338-357 8-27 (64)
28 PF14193 DUF4315: Domain of un 21.7 1.9E+02 0.0041 24.7 4.7 31 19-49 10-40 (83)
29 PF06931 Adeno_E4_ORF3: Mastad 21.6 67 0.0014 29.2 2.1 15 51-65 21-35 (113)
30 KOG2345 Serine/threonine prote 21.3 50 0.0011 34.1 1.4 37 285-321 201-249 (302)
31 KOG3598 Thyroid hormone recept 21.1 1.3E+02 0.0028 37.5 4.7 156 253-452 1694-1853(2220)
32 PF14433 SUKH-3: SUKH-3 immuni 20.9 37 0.00081 29.3 0.4 14 340-353 40-53 (142)
33 smart00150 SPEC Spectrin repea 20.8 3E+02 0.0064 20.5 5.2 46 15-64 40-88 (101)
34 COG0373 HemA Glutamyl-tRNA red 20.8 90 0.002 33.1 3.1 45 25-69 293-337 (414)
35 PF05385 Adeno_E4: Mastadenovi 20.6 35 0.00076 30.8 0.1 9 303-311 53-61 (109)
36 PLN03166 60S ribosomal protein 20.1 54 0.0012 28.7 1.2 16 206-223 41-56 (96)
No 1
>PF02365 NAM: No apical meristem (NAM) protein; InterPro: IPR003441 The NAC domain (for Petunia hybrida (Petunia) NAM and for Arabidopsis ATAF1, ATAF2, and CUC2) is an N-terminal module of ~160 amino acids, which is found in proteins of the NAC family of plant-specific transcriptional regulators (no apical meristem (NAM) proteins) []. NAC proteins are involved in developmental processes, including formation of the shoot apical meristem, floral organs and lateral shoots, as well as in plant hormonal control and defence. The NAC domain is accompanied by diverse C-terminal transcriptional activation domains. The NAC domain has been shown to be a DNA-binding domain (DBD) and a dimerization domain [,]. The NAC domain can be subdivided into five subdomains (A-E). Each subdomain is distinguishable by blocks of heterogeneous amino acids or gaps. While the NAC domains were rich in basic amino acids (R, K and H) as a whole, the distribution of positive and negative amino acids in each subdomain were unequal. Subdomains C and D are rich in basic amino acids but poor in acidic amino acids, while subdomain B contains a high proportion of acidic amino acids. Putative nuclear localization signals (NLS) have been detected in subdomains C and D []. The DBD is contained within a 60 amino acid region located within subdomains D and E []. The overall structure of the NAC domain monomer consists of a very twisted antiparallel beta-sheet, which packs against an N-terminal alpha-helix on one side and one shorter helix on the other side surrounded by a few helical elements. The structure suggests that the NAC domain mediates dimerization through conserved interactions including a salt bridge, and DNA binding through the NAC dimer face rich in positive charges [].; GO: 0003677 DNA binding, 0006355 regulation of transcription, DNA-dependent; PDB: 1UT4_A 3SWM_B 4DUL_B 3SWP_D 1UT7_B 3ULX_A.
Probab=95.83 E-value=0.00036 Score=58.83 Aligned_cols=100 Identities=25% Similarity=0.608 Sum_probs=54.7
Q ss_pred HHHHhhhcCCccC----CcccccccccCCCCCcccccccccccchhhhhhhcccccchhhcccCccccCCCCCCCCchhh
Q 011834 262 AALSARAQGKDVG----IPECEGAATAKSPWNAPELFDLSVLEGETIREWLFFDKPRRAFESGNRKQRSLPDYSGRGWHE 337 (476)
Q Consensus 262 aAL~AK~qGK~VG----IP~CEGAAtaKSPWNApELFDlsvleGEtiREWLFFDKPRRAFeSGnRKQRSLPDY~GRGWHE 337 (476)
.-|..|+.|...- |++| -.-+..||+-|+.++. ++ +||+||=+.++....|+|+.|.-. |=-||.
T Consensus 17 ~yL~~k~~g~~~~~~~~i~~~--Diy~~~P~~L~~~~~~----~~--~~~yFF~~~~~~~~~~~r~~R~~~---~G~Wk~ 85 (129)
T PF02365_consen 17 HYLRPKILGEPLPCEDVIHDV--DIYSAHPWELPAKFKG----GD--EEWYFFSPRKKKYPNGGRPNRVTG---GGYWKS 85 (129)
T ss_dssp CTHHHHHTT-HHCS-CHSEE----GGGS-GGGCHHHSSS-----S--SEEEEEEE----------S-EEET---TEEEEE
T ss_pred HHHHHHhcCCCCCcccceeec--ccCccChHHhhhhccC----CC--ceEEEEEecccccCCccccccccc---ceEEee
Confidence 4577778776521 4555 5667799998853332 23 399999999999999999999755 444997
Q ss_pred hHH--HHHH---HhcCcccc--cccCCCC-CCCcceeeeEEee
Q 011834 338 SRK--QVMN---EFGGLKRS--YYMDPQP-LNHFEWHLYEYEI 372 (476)
Q Consensus 338 SRK--QVMk---efGGlKRS--YYMDPQP-~~~~EWHLyEYEI 372 (476)
+.+ .|+. ..-|.||+ ||.-.++ ...-.|-|.||.|
T Consensus 86 ~g~~~~i~~~~g~~iG~k~~l~f~~~~~~~~~kt~W~M~EY~L 128 (129)
T PF02365_consen 86 TGKEKPIKDPGGKVIGFKKTLVFYSGKSPNGKKTGWVMHEYSL 128 (129)
T ss_dssp ECEEEEEEE-TTCEEEEEEEEEEEESSTTS-EEEEEEEEEEEE
T ss_pred cccccccccccceeeeeEEEEEEEeccCCCCCcCCeEEEEEEe
Confidence 765 3443 24566664 6743333 3366899999987
No 2
>cd08780 Death_TRADD Death Domain of Tumor Necrosis Factor Receptor 1-Associated Death Domain protein. Death domain (DD) of TRADD (TNF Receptor 1-Associated Death Domain or TNFRSF1A-associated via death domain) protein. TRADD is a central signaling adaptor for TNF-receptor 1 (TNFR1), mediating activation of Nuclear Factor -kappaB (NF-kB) and c-Jun N-terminal kinase (JNK), as well as caspase-dependent apoptosis. It also carries important immunological roles including germinal center formation, DR3-mediated T-cell stimulation, and TNFalpha-mediated inflammatory responses. In general, DDs are protein-protein interaction domains found in a variety of domain architectures. Their common feature is that they form homodimers by self-association or heterodimers by associating with other members of the DD superfamily including CARD (Caspase activation and recruitment domain), DED (Death Effector Domain), and PYRIN. They serve as adaptors in signaling pathways and can recruit other proteins into s
Probab=91.02 E-value=0.15 Score=44.07 Aligned_cols=14 Identities=43% Similarity=0.510 Sum_probs=13.3
Q ss_pred HHHHHHHHHHHHHh
Q 011834 51 LEEQVHQMLREWKA 64 (476)
Q Consensus 51 lEeQvhQmLREWka 64 (476)
|+|||+||||+|+.
T Consensus 47 L~EqvyQ~L~~W~~ 60 (90)
T cd08780 47 LYEQAYQLLRRFIQ 60 (90)
T ss_pred HHHHHHHHHHHHHH
Confidence 89999999999996
No 3
>cd08313 Death_TNFR1 Death domain of Tumor Necrosis Factor Receptor 1. Death Domain (DD) found in tumor necrosis factor receptor-1 (TNFR-1). TNFR-1 has many names including TNFRSF1A, CD120a, p55, p60, and TNFR60. It activates two major intracellular signaling pathways that lead to the activation of the transcription factor NF-kB and the induction of cell death. Upon binding of its ligand TNF, TNFR-1 trimerizes which leads to the recruitment of an adaptor protein named TNFR-associated death domain protein (TRADD) through a DD/DD interaction. Mutations in the TNFRSF1A gene causes TNFR-associated periodic syndrome (TRAPS), a rare disorder characterized recurrent fever, myalgia, abdominal pain, conjunctivitis and skin eruptions. DDs are protein-protein interaction domains found in a variety of domain architectures. Their common feature is that they form homodimers by self-association or heterodimers by associating with other members of the DD superfamily including CARD (Caspase activation a
Probab=87.00 E-value=0.43 Score=39.60 Aligned_cols=17 Identities=29% Similarity=0.407 Sum_probs=14.7
Q ss_pred HHHHHHHHHHHHHHhhc
Q 011834 50 LLEEQVHQMLREWKAEL 66 (476)
Q Consensus 50 vlEeQvhQmLREWkaEL 66 (476)
-+.||++||||.|+.--
T Consensus 37 ~~~Eq~yqmL~~W~~~~ 53 (80)
T cd08313 37 RCRDAQYQMLKVWKERG 53 (80)
T ss_pred ChHHHHHHHHHHHHHhc
Confidence 57899999999999653
No 4
>cd08319 Death_RAIDD Death domain of RIP-associated ICH-1 homologous protein with a death domain. Death domain (DD) of RAIDD (RIP-associated ICH-1 homologous protein with a death domain), also known as CRADD (Caspase and RIP adaptor). RAIDD is an adaptor protein that together with the p53-inducible protein PIDD and caspase-2, forms the PIDDosome complex, which is required for caspase-2 activation and plays a role in mediating stress-induced apoptosis. RAIDD contains an N-terminal Caspase Activation and Recruitment Domain (CARD), which interacts with the caspase-2 CARD, and a C-terminal DD, which interacts with the DD of PIDD. In general, DDs are protein-protein interaction domains found in a variety of domain architectures. Their common feature is that they form homodimers by self-association or heterodimers by associating with other members of the DD superfamily including CARD, DED (Death Effector Domain), and PYRIN. They serve as adaptors in signaling pathways and can recruit other pr
Probab=84.65 E-value=0.68 Score=38.53 Aligned_cols=17 Identities=18% Similarity=0.577 Sum_probs=14.9
Q ss_pred HHHHHHHHHHHHHhhcC
Q 011834 51 LEEQVHQMLREWKAELH 67 (476)
Q Consensus 51 lEeQvhQmLREWkaEL~ 67 (476)
++|||+|||+.||..-.
T Consensus 41 l~eQv~~mL~~W~~r~G 57 (83)
T cd08319 41 VQSQIVEALVKWRQRFG 57 (83)
T ss_pred HHHHHHHHHHHHHHhcC
Confidence 79999999999998644
No 5
>cd08777 Death_RIP1 Death Domain of Receptor-Interacting Protein 1. Death domain (DD) found in Receptor-Interacting Protein 1 (RIP1) and related proteins. RIP kinases serve as essential sensors of cellular stress. Vertebrates contain several types containing a homologous N-terminal kinase domain and varying C-terminal domains. RIP1 harbors a C-terminal DD, which binds death receptors (DRs) including TNF receptor 1, Fas, TNF-related apoptosis-inducing ligand receptor 1 (TRAILR1), and TRAILR2. It also interacts with other DD-containing adaptor proteins such as TRADD and FADD. RIP1 plays a crucial role in determining a cell's fate, between survival or death, following exposure to stress signals. It is important in the signaling of NF-kappaB and MAPKs, and it links DR-associated signaling to reactive oxygen species (ROS) production. Abnormal RIP1 function may result in ROS accumulation affecting inflammatory responses, innate immunity, stress responses, and cell survival. In general, DDs ar
Probab=77.39 E-value=1.8 Score=35.92 Aligned_cols=15 Identities=60% Similarity=1.119 Sum_probs=13.5
Q ss_pred HHHHHHHHHHHHHhh
Q 011834 51 LEEQVHQMLREWKAE 65 (476)
Q Consensus 51 lEeQvhQmLREWkaE 65 (476)
++||++|||+.|+..
T Consensus 42 ~~eq~~~mL~~W~~r 56 (86)
T cd08777 42 LKEKVHQMLHKWKMK 56 (86)
T ss_pred HHHHHHHHHHHHHHc
Confidence 689999999999974
No 6
>cd08316 Death_FAS_TNFRSF6 Death domain of FAS or TNF receptor superfamily member 6. Death Domain (DD) found in the FS7-associated cell surface antigen (FAS). FAS, also known as TNFRSF6 (TNF receptor superfamily member 6), APT1, CD95, FAS1, or APO-1, together with FADD (Fas-associating via Death Domain) and caspase 8, is an integral part of the death inducing signalling complex (DISC), which plays an important role in the induction of apoptosis and is activated by binding of the ligand FasL to FAS. FAS also plays a critical role in self-tolerance by eliminating cell types (autoreactive T and B cells) that contribute to autoimmunity. DDs are protein-protein interaction domains found in a variety of domain architectures. Their common feature is that they form homodimers by self-association or heterodimers by associating with other members of the DD superfamily including CARD (Caspase activation and recruitment domain), DED (Death Effector Domain), and PYRIN. They serve as adaptors in sign
Probab=75.08 E-value=2.1 Score=36.68 Aligned_cols=15 Identities=40% Similarity=0.614 Sum_probs=13.3
Q ss_pred HHHHHHHHHHHHHhh
Q 011834 51 LEEQVHQMLREWKAE 65 (476)
Q Consensus 51 lEeQvhQmLREWkaE 65 (476)
+.||++||||.|+.-
T Consensus 48 ~~Eq~~qmL~~W~~~ 62 (97)
T cd08316 48 TAEQKVQLLRAWYQS 62 (97)
T ss_pred hHHHHHHHHHHHHHH
Confidence 489999999999965
No 7
>cd08784 Death_DRs Death Domain of Death Receptors. Death domain (DD) found in death receptor proteins. Death receptors are members of the tumor necrosis factor (TNF) receptor superfamily, characterized by having a cytoplasmic DD. Known members of the family are Fas (CD95/APO-1), TNF-receptor 1 (TNFR1/TNFRSF1A/p55/CD120a), TNF-related apoptosis-inducing ligand receptor 1 (TRAIL-R1 /DR4), and receptor 2 (TRAIL-R2/DR5/APO-2/KILLER), as well as Death Receptor 3 (DR3/APO-3/TRAMP/WSL-1/LARD). They are involved in apoptosis signaling pathways. DDs are protein-protein interaction domains found in a variety of domain architectures. Their common feature is that they form homodimers by self-association or heterodimers by associating with other members of the DD superfamily including CARD (Caspase activation and recruitment domain), DED (Death Effector Domain), and PYRIN. They serve as adaptors in signaling pathways and can recruit other proteins into signaling complexes.
Probab=72.82 E-value=3.7 Score=33.20 Aligned_cols=30 Identities=20% Similarity=0.385 Sum_probs=21.2
Q ss_pred hhhhHHHhhhccccchHHHHHHHHHHHHHHHhh
Q 011834 33 FLDLQFARKESRTVDVSLLEEQVHQMLREWKAE 65 (476)
Q Consensus 33 F~~LQ~ARKEsR~~D~avlEeQvhQmLREWkaE 65 (476)
|++-+--+-|..+.| +.||++|||+.|+.-
T Consensus 23 ls~~~I~~ie~~~~~---~~eq~~~mL~~W~~k 52 (79)
T cd08784 23 LSDNEIKVAELDNPQ---HRDRVYELLRIWRNK 52 (79)
T ss_pred CCHHHHHHHHHcCCc---hHHHHHHHHHHHHhc
Confidence 344444445566666 689999999999964
No 8
>cd08779 Death_PIDD Death Domain of p53-induced protein with a death domain. Death domain (DD) found in PIDD (p53-induced protein with a death domain) and similar proteins. PIDD is a component of the PIDDosome complex, which is an oligomeric caspase-activating complex involved in caspase-2 activation and plays a role in mediating stress-induced apoptosis. The PIDDosome complex is composed of three components, PIDD, RAIDD and caspase-2, which interact through their DDs and DD-like domains. The DD of PIDD interacts with the DD of RAIDD, which also contains a Caspase Activation and Recruitment Domain (CARD) that interacts with the caspase-2 CARD. Autoproteolysis of PIDD determines the downstream signaling event, between pro-survival NF-kB or pro-death caspase-2 activation. In general, DDs are protein-protein interaction domains found in a variety of domain architectures. Their common feature is that they form homodimers by self-association or heterodimers by associating with other members
Probab=72.32 E-value=2.8 Score=34.55 Aligned_cols=16 Identities=38% Similarity=0.721 Sum_probs=14.0
Q ss_pred HHHHHHHHHHHHHhhc
Q 011834 51 LEEQVHQMLREWKAEL 66 (476)
Q Consensus 51 lEeQvhQmLREWkaEL 66 (476)
|.+|+++||+.|+..-
T Consensus 41 l~eq~~~mL~~W~~~~ 56 (86)
T cd08779 41 LDEQIFDMLFSWAQRQ 56 (86)
T ss_pred HHHHHHHHHHHHHHhc
Confidence 5899999999998754
No 9
>cd08318 Death_NMPP84 Death domain of Nuclear Matrix Protein P84. Death domain (DD) found in the Nuclear Matrix Protein P84 (also known as HPR1 or THOC1). HPR1/p84 resides in the nuclear matrix and is part of the THO complex, also called TREX (transcription/export) complex, which functions in mRNP biogenesis at the interface between transcription and export of mRNA from the nucleus. Mice lacking THOC1 have abnormal testis development and are sterile. In general, DDs are protein-protein interaction domains found in a variety of domain architectures. Their common feature is that they form homodimers by self-association or heterodimers by associating with other members of the DD superfamily including CARD (Caspase activation and recruitment domain), DED (Death Effector Domain), and PYRIN. They serve as adaptors in signaling pathways and can recruit other proteins into signaling complexes.
Probab=68.05 E-value=5.9 Score=32.53 Aligned_cols=29 Identities=21% Similarity=0.424 Sum_probs=20.3
Q ss_pred hhhHHHhhhccccchHHHHHHHHHHHHHHHhhcC
Q 011834 34 LDLQFARKESRTVDVSLLEEQVHQMLREWKAELH 67 (476)
Q Consensus 34 ~~LQ~ARKEsR~~D~avlEeQvhQmLREWkaEL~ 67 (476)
.+++..+.+.+ | +.+|++|||+.|+..-.
T Consensus 33 ~dI~~i~~~~~--~---~~eq~~~mL~~W~~r~g 61 (86)
T cd08318 33 KEIRAIESDSE--D---IKMQAKQLLVAWQDREG 61 (86)
T ss_pred HHHHHHHhcCC--C---HHHHHHHHHHHHHHhcC
Confidence 34455555543 5 58999999999997543
No 10
>cd08804 Death_ank2 Death domain of Ankyrin-2. Death Domain (DD) of Ankyrin-2 (ANK-2) and related proteins. Ankyrins are modular proteins comprising three conserved domains, an N-terminal membrane-binding domain containing ANK repeats, a spectrin-binding domain and a C-terminal DD. ANK-2, also called ankyrin-B (for broadly expressed), is required for proper function of the Na/Ca ion exchanger-1 in cardiomyocytes, and is thought to function in linking integral membrane proteins to the underlying cytoskeleton. Human ANK-2 is associated with "Ankyrin-B syndrome", an atypical arrythmia disorder with risk of sudden cardiac death. It also plays key roles in the brain and striated muscle. Loss of ANK-2 is associated with significant nervous system defects and sarcomere disorganization. In general, DDs are protein-protein interaction domains found in a variety of domain architectures. Their common feature is that they form homodimers by self-association or heterodimers by associating with other
Probab=64.62 E-value=5.2 Score=32.95 Aligned_cols=15 Identities=33% Similarity=0.782 Sum_probs=13.6
Q ss_pred HHHHHHHHHHHHHhh
Q 011834 51 LEEQVHQMLREWKAE 65 (476)
Q Consensus 51 lEeQvhQmLREWkaE 65 (476)
+.+|+++||+.|+..
T Consensus 43 ~~eq~~~mL~~W~~r 57 (84)
T cd08804 43 LQDQSHALLKYWLER 57 (84)
T ss_pred HHHHHHHHHHHHHHc
Confidence 589999999999975
No 11
>cd08306 Death_FADD Fas-associated Death Domain protein-protein interaction domain. Death domain (DD) found in FAS-associated via death domain (FADD). FADD is a component of the death-inducing signaling complex (DISC) and serves as an adaptor in the signaling pathway of death receptor proteins. It modulates apoptosis as well as non-apoptotic processes such as cell cycle progression, survival, innate immune signaling, and hematopoiesis. FADD contains an N-terminal DED and a C-terminal DD. Its DD interacts with the DD of the activated death receptor, FAS, and its DED recruits the initiator caspases, caspase-8 and -10, to the DISC complex via a homotypic interaction with the N-terminal DED of the caspase. DDs are protein-protein interaction domains found in a variety of domain architectures. Their common feature is that they form homodimers by self-association or heterodimers by associating with other members of the DD superfamily including CARD (Caspase activation and recruitment domain),
Probab=64.03 E-value=5.3 Score=32.88 Aligned_cols=15 Identities=67% Similarity=0.946 Sum_probs=13.4
Q ss_pred HHHHHHHHHHHHHhh
Q 011834 51 LEEQVHQMLREWKAE 65 (476)
Q Consensus 51 lEeQvhQmLREWkaE 65 (476)
+.||++|||+.|+..
T Consensus 41 ~~eq~~~mL~~W~~~ 55 (86)
T cd08306 41 LREQVRQSLREWKKI 55 (86)
T ss_pred HHHHHHHHHHHHHHh
Confidence 579999999999974
No 12
>cd08315 Death_TRAILR_DR4_DR5 Death domain of Tumor necrosis factor-Related Apoptosis-Inducing Ligand Receptors. Death Domain (DD) found in Tumor necrosis factor-Related Apoptosis-Inducing Ligand (TRAIL) Receptors. In mammals, this family includes TRAILR1 (also called DR4 or TNFRSF10A) and TRAILR2 (also called DR5, TNFRSF10B, or KILLER). They function as receptors for the cytokine TRAIL and are involved in apoptosis signaling pathways. TRAIL preferentially induces apoptosis in cancer cells while exhibiting little toxicity in normal cells. DDs are protein-protein interaction domains found in a variety of domain architectures. Their common feature is that they form homodimers by self-association or heterodimers by associating with other members of the DD superfamily including CARD (Caspase activation and recruitment domain), DED (Death Effector Domain), and PYRIN. They serve as adaptors in signaling pathways and can recruit other proteins into signaling complexes.
Probab=63.47 E-value=5 Score=33.93 Aligned_cols=15 Identities=40% Similarity=0.603 Sum_probs=13.1
Q ss_pred HHHHHHHHHHHHhhc
Q 011834 52 EEQVHQMLREWKAEL 66 (476)
Q Consensus 52 EeQvhQmLREWkaEL 66 (476)
.||++|||+.|+.--
T Consensus 47 ~eq~~qmL~~W~~~~ 61 (96)
T cd08315 47 REQLYQMLLTWVNKT 61 (96)
T ss_pred HHHHHHHHHHHHHhh
Confidence 799999999999653
No 13
>cd08317 Death_ank Death domain associated with Ankyrins. Death Domain (DD) associated with Ankyrins. Ankyrins are modular proteins comprising three conserved domains, an N-terminal membrane-binding domain containing ANK repeats, a spectrin-binding domain and a C-terminal DD. Ankyrins function as adaptor proteins and they interact, through ANK repeats, with structurally diverse membrane proteins, including ion channels/pumps, calcium release channels, and cell adhesion molecules. They play critical roles in the proper expression and membrane localization of these proteins. In mammals, this family includes ankyrin-R for restricted (or ANK1), ankyrin-B for broadly expressed (or ANK2) and ankyrin-G for general or giant (or ANK3). They are expressed in different combinations in many tissues and play non-overlapping functions. In general, DDs are protein-protein interaction domains found in a variety of domain architectures. Their common feature is that they form homodimers by self-associati
Probab=48.19 E-value=15 Score=29.66 Aligned_cols=14 Identities=29% Similarity=0.624 Sum_probs=12.7
Q ss_pred HHHHHHHHHHHHhh
Q 011834 52 EEQVHQMLREWKAE 65 (476)
Q Consensus 52 EeQvhQmLREWkaE 65 (476)
.||++|||+.|+..
T Consensus 44 ~eq~~~mL~~W~~r 57 (84)
T cd08317 44 AQQAQAMLKLWLER 57 (84)
T ss_pred HHHHHHHHHHHHHh
Confidence 49999999999986
No 14
>smart00005 DEATH DEATH domain, found in proteins involved in cell death (apoptosis). Alpha-helical domain present in a variety of proteins with apoptotic functions. Some (but not all) of these domains form homotypic and heterotypic dimers.
Probab=41.54 E-value=22 Score=27.78 Aligned_cols=15 Identities=47% Similarity=0.762 Sum_probs=13.3
Q ss_pred HHHHHHHHHHHHHhh
Q 011834 51 LEEQVHQMLREWKAE 65 (476)
Q Consensus 51 lEeQvhQmLREWkaE 65 (476)
+.+|+.|||++|+..
T Consensus 45 ~~~~~~~lL~~W~~~ 59 (88)
T smart00005 45 LAEQSVQLLRLWEQR 59 (88)
T ss_pred HHHHHHHHHHHHHHc
Confidence 478999999999875
No 15
>cd08805 Death_ank1 Death domain of Ankyrin-1. Death Domain (DD) of the human protein ankyrin-1 (ANK-1) and related proteins. Ankyrins are modular proteins comprising three conserved domains, an N-terminal membrane-binding domain containing ANK repeats, a spectrin-binding domain and a C-terminal DD. ANK-1, also called ankyrin-R (for restricted), is found in brain, muscle, and erythrocytes and is thought to function in linking integral membrane proteins to the underlying cytoskeleton. It plays a critical nonredundant role in erythroid development and is associated with hereditary spherocytosis (HS), a common disorder of the red cell membrane. The small alternatively-spliced variant, sANK-1, found in striated muscle and concentrated in the sarcoplasmic reticulum (SR) binds obscurin and titin, which facilitates the anchoring of the network SR to the contractile apparatus. In general, DDs are protein-protein interaction domains found in a variety of domain architectures. Their common featur
Probab=38.80 E-value=25 Score=29.52 Aligned_cols=15 Identities=33% Similarity=0.510 Sum_probs=13.6
Q ss_pred HHHHHHHHHHHHHhh
Q 011834 51 LEEQVHQMLREWKAE 65 (476)
Q Consensus 51 lEeQvhQmLREWkaE 65 (476)
+.+|+++||+.|+..
T Consensus 43 l~~Q~~~~L~~W~~r 57 (84)
T cd08805 43 LLEQSTALLNLWVDR 57 (84)
T ss_pred HHHHHHHHHHHHHHh
Confidence 679999999999975
No 16
>cd08815 Death_TNFRSF25_DR3 Death domain of Tumor Necrosis Factor Receptor superfamily 25. Death Domain (DD) found in Tumor Necrosis Factor (TNF) receptor superfamily 25 (TNFRSF25), also known as TRAMP (TNF receptor-related apoptosis-mediating protein), LARD, APO-3, WSL-1, or DR3 (Death Receptor-3). TNFRSF25 is primarily expressed in T cells, is activated by binding to its ligand TL1A, and plays an important role in T-cell function. DDs are protein-protein interaction domains found in a variety of domain architectures. Their common feature is that they form homodimers by self-association or heterodimers by associating with other members of the DD superfamily including CARD (Caspase activation and recruitment domain), DED (Death Effector Domain), and PYRIN. They serve as adaptors in signaling pathways and can recruit other proteins into signaling complexes.
Probab=38.44 E-value=19 Score=30.48 Aligned_cols=20 Identities=20% Similarity=0.634 Sum_probs=16.2
Q ss_pred chHHHHHHHHHHHHHHHhhc
Q 011834 47 DVSLLEEQVHQMLREWKAEL 66 (476)
Q Consensus 47 D~avlEeQvhQmLREWkaEL 66 (476)
|..-.+||+||||+-|+..-
T Consensus 34 ~~~~~rda~y~ML~~W~~q~ 53 (77)
T cd08815 34 EIGRFRDQQYEMLKRWRQQQ 53 (77)
T ss_pred cccchHHHHHHHHHHHHHcC
Confidence 33567899999999999764
No 17
>COG0113 HemB Delta-aminolevulinic acid dehydratase [Coenzyme metabolism]
Probab=35.28 E-value=16 Score=37.99 Aligned_cols=13 Identities=46% Similarity=1.134 Sum_probs=11.3
Q ss_pred HhcCcccccccCCC
Q 011834 345 EFGGLKRSYYMDPQ 358 (476)
Q Consensus 345 efGGlKRSYYMDPQ 358 (476)
.||+ ||||+|||-
T Consensus 218 ~~gd-rktYQmDpa 230 (330)
T COG0113 218 KFGD-RKTYQMDPA 230 (330)
T ss_pred ccCC-cceeccCCc
Confidence 5788 999999985
No 18
>cd01670 Death Death Domain: a protein-protein interaction domain. Death Domains (DDs) are protein-protein interaction domains found in a variety of domain architectures. Their common feature is that they form homodimers by self-association or heterodimers by associating with other members of the DD superfamily including CARD (Caspase activation and recruitment domain), DED (Death Effector Domain), and PYRIN. Structural analysis of DD-DD complexes show that the domains interact with each other in many different ways. DD-containing proteins serve as adaptors in signaling pathways and they can recruit other proteins into signaling complexes. In mammals, they are prominent components of the programmed cell death (apoptosis) pathway and are found in a number of other signaling pathways. In invertebrates, they are involved in transcriptional regulation of zygotic patterning genes in insect embryogenesis, and are components of the ToII/NF-kappaB pathway, a conserved innate immune pathway in a
Probab=32.67 E-value=50 Score=25.15 Aligned_cols=17 Identities=29% Similarity=0.520 Sum_probs=14.5
Q ss_pred HHHHHHHHHHHHHhhcC
Q 011834 51 LEEQVHQMLREWKAELH 67 (476)
Q Consensus 51 lEeQvhQmLREWkaEL~ 67 (476)
+.+|.++||+.|+..-.
T Consensus 37 ~~~~~~~mL~~W~~~~~ 53 (79)
T cd01670 37 VREQAYQLLLKWEEREG 53 (79)
T ss_pred HHHHHHHHHHHHHhccC
Confidence 68999999999987643
No 19
>PF11464 Rbsn: Rabenosyn Rab binding domain; InterPro: IPR021565 Rabenosyn-5 (Rbsn) is a multivalent effector with interacts with the Rab family.Rsbn contains distinct Rab4 and Rab5 binding sites within residues 264-500 and 627-784 respectively []. Rab proteins are GTPases involved in the regulation of all stages of membrane trafficking []. ; PDB: 1Z0K_B 1YZM_A 1Z0J_B.
Probab=30.78 E-value=62 Score=24.88 Aligned_cols=28 Identities=25% Similarity=0.326 Sum_probs=21.4
Q ss_pred hhhHHHhhhccccchHHHHHHHHHHHHH
Q 011834 34 LDLQFARKESRTVDVSLLEEQVHQMLRE 61 (476)
Q Consensus 34 ~~LQ~ARKEsR~~D~avlEeQvhQmLRE 61 (476)
+-++.||+.+|--+|+.||+-+++.=+|
T Consensus 10 ~~I~qAk~~~r~dEV~~L~~NL~EL~~e 37 (42)
T PF11464_consen 10 SYIKQAKAARRFDEVATLEENLRELQDE 37 (42)
T ss_dssp HHHHHHHHTT-HHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHhcCcHHHHHHHHHHHHHHHH
Confidence 3478899999999999999876655444
No 20
>cd08311 Death_p75NR Death domain of p75 Neurotophin Receptor. Death Domain (DD) found in p75 neurotrophin receptor (p75NTR, NGFR, TNFRSF16). p75NTR binds members of the neurotrophin (NT) family including nerve growth factor (NGF), brain-derived neurotrophic factor (BDNF), and NT3, among others. It contains an NT-binding extracellular region that bears four cysteine-rich repeats, a transmembrane domain, and an intracellular DD. p75NTR plays roles in the immune, vascular, and nervous systems, and has been shown to promote cell death or survival, and to induce neurite outgrowth or collapse depending on its ligands and co-receptors. In general, DDs are protein-protein interaction domains found in a variety of domain architectures. Their common feature is that they form homodimers by self-association or heterodimers by associating with other members of the DD superfamily including CARD (Caspase activation and recruitment domain), DED (Death Effector Domain), and PYRIN. They serve as adaptor
Probab=30.66 E-value=34 Score=28.20 Aligned_cols=13 Identities=31% Similarity=0.803 Sum_probs=11.8
Q ss_pred HHHHHHHHHHHhh
Q 011834 53 EQVHQMLREWKAE 65 (476)
Q Consensus 53 eQvhQmLREWkaE 65 (476)
+|+++||++|+..
T Consensus 40 ~p~~~lL~~W~~r 52 (77)
T cd08311 40 SPVRTLLADWSAQ 52 (77)
T ss_pred hHHHHHHHHHHHC
Confidence 8999999999973
No 21
>cd08803 Death_ank3 Death domain of Ankyrin-3. Death Domain (DD) of the human protein ankyrin-3 (ANK-3) and related proteins. Ankyrins are modular proteins comprising three conserved domains, an N-terminal membrane-binding domain containing ANK repeats, a spectrin-binding domain and a C-terminal DD. ANK-3, also called anykyrin-G (for general or giant), is found in neurons and at least one splice variant has been shown to be essential for propagation of action potentials as a binding partner to neurofascin and voltage-gated sodium channels. It is required for maintaining axo-dendritic polarity, and may be a genetic risk factor associated with bipolar disorder. ANK-3 may also play roles in other cell types. Mutations affecting ANK-3 pathways for Na channel localization are associated with Brugada syndrome, a potentially fata arrythmia. In general, DDs are protein-protein interaction domains found in a variety of domain architectures. Their common feature is that they form homodimers by se
Probab=30.53 E-value=41 Score=28.10 Aligned_cols=29 Identities=21% Similarity=0.298 Sum_probs=19.8
Q ss_pred hhhHHHhhhccccchHHHHHHHHHHHHHHHhhc
Q 011834 34 LDLQFARKESRTVDVSLLEEQVHQMLREWKAEL 66 (476)
Q Consensus 34 ~~LQ~ARKEsR~~D~avlEeQvhQmLREWkaEL 66 (476)
.++..-+.|.. .| +.+|+++||+.|+..=
T Consensus 30 ~dI~~i~~e~p-~~---~~~q~~~lL~~W~~r~ 58 (84)
T cd08803 30 DEINQIRVENP-NS---LIAQSFMLLKKWVTRD 58 (84)
T ss_pred HHHHHHHHhCC-CC---HHHHHHHHHHHHHHhh
Confidence 34444455544 33 6799999999999853
No 22
>TIGR02132 phaR_Bmeg polyhydroxyalkanoic acid synthase, PhaR subunit. This model describes a protein, PhaR, localized to polyhydroxyalkanoic acid (PHA) inclusion granules in Bacillus cereus and related species. PhaR is required for PHA biosynthesis along with PhaC and may be a regulatory subunit.
Probab=29.23 E-value=74 Score=31.08 Aligned_cols=41 Identities=20% Similarity=0.247 Sum_probs=29.5
Q ss_pred HhhhhhhhhHHhhhhhHHHhh---hccc----------cchHHHHHHHHHHHHH
Q 011834 21 KAKTRVDDLQGKFLDLQFARK---ESRT----------VDVSLLEEQVHQMLRE 61 (476)
Q Consensus 21 ~ak~rvddLQ~~F~~LQ~ARK---EsR~----------~D~avlEeQvhQmLRE 61 (476)
+..+|||+|++.|.++=-++. |.+. .|+.-||+-|.|||+-
T Consensus 83 nlE~kvD~lee~fdd~~d~l~~q~eq~~~~~~~v~~~~q~~~~l~~K~D~~L~l 136 (189)
T TIGR02132 83 NLEEKVDLIEEFFDDKFDELEAQQEQAPALKKDVTKLKQDIKSLDKKLDKILEL 136 (189)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhhCchHHhHHHHHHHHHHHHHHHHHHHHHH
Confidence 457899999999988533332 3332 3778888999999874
No 23
>PF02840 Prp18: Prp18 domain; InterPro: IPR004098 The splicing factor Prp18 is required for the second step of pre-mRNA splicing. PRP18 appears to be primarily associated with the U5 snRNP. The structure of a large fragment of the Saccharomyces cerevisiae Prp18 is known []. This fragment is fully active in yeast splicing in vitro and includes the sequences of Prp18 that have been evolutionarily conserved. The core structure consists of five alpha-helices that adopt a novel fold. The most highly conserved region of Prp18, a nearly invariant stretch of 19 aa, forms part of a loop between two alpha-helices and may interact with the U5 small nuclear ribonucleoprotein particles [].; GO: 0008380 RNA splicing, 0005681 spliceosomal complex; PDB: 1DVK_A.
Probab=26.92 E-value=56 Score=30.28 Aligned_cols=40 Identities=20% Similarity=0.390 Sum_probs=24.2
Q ss_pred HHHHHHHHHhhcCCCCCC--cccccCCCCc--cc---hhHHHHhhhhc
Q 011834 55 VHQMLREWKAELHEPSPA--SSLQQDGSLG--FS---SDIYRLLQLCE 95 (476)
Q Consensus 55 vhQmLREWkaEL~~pSPA--sSLq~g~s~g--fs---sd~~rLLQl~e 95 (476)
++.+|+||..+|+..+.+ .|.| |.... +. .++..|+.+++
T Consensus 5 ~k~lL~eW~~~l~~r~~~~k~s~~-gk~~~~~~~qtk~~l~PL~~~Lk 51 (144)
T PF02840_consen 5 IKFLLKEWEEELNSRPEEEKRSAQ-GKQASATYKQTKRYLKPLFKKLK 51 (144)
T ss_dssp HHHHHHHHHHCCCCS-CC-------------CHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHcCChhhhhhhh-hhhhHHHHHHHHHHHHHHHHHHH
Confidence 678999999999998887 4442 22211 22 67777888774
No 24
>PF00531 Death: Death domain; InterPro: IPR000488 The death domain (DD) is a homotypic protein interaction module composed of a bundle of six alpha-helices. DD is related in sequence and structure to the death effector domain (DED, see IPR001875 from INTERPRO) and the caspase recruitment domain (CARD, see IPR001315 from INTERPRO), which work in similar pathways and show similar interaction properties []. DD bind each other forming oligomers. Mammals have numerous and diverse DD-containing proteins []. Within these proteins, the DD domains can be found in combination with other domains, including: CARDs, DEDs, ankyrin repeats (IPR002110 from INTERPRO), caspase-like folds, kinase domains, leucine zippers (IPR002158 from INTERPRO), leucine-rich repeats (LRR) (IPR001611 from INTERPRO), TIR domains (IPR000157 from INTERPRO), and ZU5 domains (IPR000906 from INTERPRO) []. Some DD-containing proteins are involved in the regulation of apoptosis and inflammation through their activation of caspases and NF-kappaB, which typically involves interactions with TNF (tumour necrosis factor) cytokine receptors [, ]. In humans, eight of the over 30 known TNF receptors contain DD in their cytoplasmic tails; several of these TNF receptors use caspase activation as a signalling mechanism. The DD mediates self-association of these receptors, thus giving the signal to downstream events that lead to apoptosis. Other DD-containing proteins, such as ankyrin, MyD88 and pelle, are probably not directly involved in cell death signalling. DD-containing proteins also have links to innate immunity, communicating with Toll family receptors through bipartite adapter proteins such as MyD88 [].; GO: 0005515 protein binding, 0007165 signal transduction; PDB: 3OQ9_L 3EZQ_F 1E41_A 1E3Y_A 2GF5_A 2OF5_L 3EWV_E 3G5B_A 3MOP_L 2A9I_A ....
Probab=26.15 E-value=56 Score=24.84 Aligned_cols=15 Identities=40% Similarity=0.833 Sum_probs=13.9
Q ss_pred HHHHHHHHHHHHHhh
Q 011834 51 LEEQVHQMLREWKAE 65 (476)
Q Consensus 51 lEeQvhQmLREWkaE 65 (476)
..+|.++||+.|+..
T Consensus 39 ~~~~~~~~L~~W~~~ 53 (83)
T PF00531_consen 39 LREQTYEMLQRWRQR 53 (83)
T ss_dssp HHHHHHHHHHHHHHH
T ss_pred hHHHHHHHHHHHHHh
Confidence 679999999999988
No 25
>PF12588 PSDC: Phophatidylserine decarboxylase ; InterPro: IPR022237 This domain family is found in bacteria and eukaryotes, and is approximately 140 amino acids in length. The family is found in association with PF02666 from PFAM. Phosphatidylserine decarboxylase (PSD) is an important enzyme in the synthesis of phosphatidylethanolamine in both prokaryotes and eukaryotes.
Probab=26.08 E-value=91 Score=28.70 Aligned_cols=40 Identities=30% Similarity=0.549 Sum_probs=28.5
Q ss_pred HHHHHHHHHHHHHhhcCCCCCCcccccCCCCc-cchhHHHH
Q 011834 51 LEEQVHQMLREWKAELHEPSPASSLQQDGSLG-FSSDIYRL 90 (476)
Q Consensus 51 lEeQvhQmLREWkaEL~~pSPAsSLq~g~s~g-fssd~~rL 90 (476)
+-+|+..+|.+|.+=|.-|.-++.|-.+..-| ||.+-..-
T Consensus 98 vN~~lK~ILn~W~~fL~sp~S~~vL~~~~~~GWfs~~A~~~ 138 (141)
T PF12588_consen 98 VNAQLKKILNEWGEFLSSPASRSVLNTDPPNGWFSPEALKE 138 (141)
T ss_pred HHHHHHHHHHHHHHHcCChhhhccccCCCCCCccCHHHHHH
Confidence 35788888999999999666666673332458 88776543
No 26
>PHA01513 mnt Mnt
Probab=24.50 E-value=1.2e+02 Score=26.05 Aligned_cols=41 Identities=27% Similarity=0.448 Sum_probs=29.2
Q ss_pred HHHhhhccccchHHHHHHHHHHHHHHHhhcCCCCCCcccccCCCCccchhHHHHhhh
Q 011834 37 QFARKESRTVDVSLLEEQVHQMLREWKAELHEPSPASSLQQDGSLGFSSDIYRLLQL 93 (476)
Q Consensus 37 Q~ARKEsR~~D~avlEeQvhQmLREWkaEL~~pSPAsSLq~g~s~gfssd~~rLLQl 93 (476)
+.|.+|+||. .++|-+.|..| |..|||.+-+ -.|..|+-+.
T Consensus 22 ~aA~~nGRSm-----NaeIv~~Le~a---l~~~~~~~g~--------~~~~~~~a~~ 62 (82)
T PHA01513 22 QRAKANGRSL-----NAELVQIVQDA---LSKPSPVTGY--------RDDAERLADE 62 (82)
T ss_pred HHHHHhCCCH-----HHHHHHHHHHH---hcCCCcchhh--------HHHHHHHHHH
Confidence 4689999995 56777888877 6678887655 4566666543
No 27
>PF05596 Taeniidae_ag: Taeniidae antigen; InterPro: IPR008860 This family consists of several antigen proteins from Taenia and Echinococcus (tapeworm) species.
Probab=24.19 E-value=25 Score=28.74 Aligned_cols=20 Identities=25% Similarity=0.496 Sum_probs=18.3
Q ss_pred hHHHHHHHhcCcccccccCC
Q 011834 338 SRKQVMNEFGGLKRSYYMDP 357 (476)
Q Consensus 338 SRKQVMkefGGlKRSYYMDP 357 (476)
-+|.|||..|=.++.||.||
T Consensus 8 ~~k~~kK~i~~v~~FF~~DP 27 (64)
T PF05596_consen 8 DKKSVKKWIEEVRNFFYEDP 27 (64)
T ss_pred hHHhHHHHHHHHHHHhccCc
Confidence 36889999999999999998
No 28
>PF14193 DUF4315: Domain of unknown function (DUF4315)
Probab=21.69 E-value=1.9e+02 Score=24.68 Aligned_cols=31 Identities=19% Similarity=0.500 Sum_probs=26.8
Q ss_pred HHHhhhhhhhhHHhhhhhHHHhhhccccchH
Q 011834 19 KDKAKTRVDDLQGKFLDLQFARKESRTVDVS 49 (476)
Q Consensus 19 ~d~ak~rvddLQ~~F~~LQ~ARKEsR~~D~a 49 (476)
.+|+|.++.++|..+-.|....+|.-+.+++
T Consensus 10 ieK~k~Kiae~Q~rlK~Le~qk~E~EN~EIv 40 (83)
T PF14193_consen 10 IEKTKEKIAELQARLKELEAQKTEAENLEIV 40 (83)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4688899999999999999999998776654
No 29
>PF06931 Adeno_E4_ORF3: Mastadenovirus E4 ORF3 protein; InterPro: IPR009699 This family consists of several Mastadenovirus E4 ORF3 proteins. Early proteins E4 ORF3 and E4 ORF6 have complementary functions during viral infection. Both proteins facilitate efficient viral DNA replication, late protein expression, and prevention of concatenation of viral genomes. A unique function of E4 ORF3 is the reorganisation of nuclear structures known as PML oncogenic domains (PODs). The function of these domains is unclear, but PODs have been implicated in a number of important cellular processes, including transcriptional regulation, apoptosis, transformation, and response to interferon [].
Probab=21.58 E-value=67 Score=29.24 Aligned_cols=15 Identities=47% Similarity=0.982 Sum_probs=13.2
Q ss_pred HHHHHHHHHHHHHhh
Q 011834 51 LEEQVHQMLREWKAE 65 (476)
Q Consensus 51 lEeQvhQmLREWkaE 65 (476)
|.+++-|.+|+||+|
T Consensus 21 l~~~~~~Ii~~Wk~E 35 (113)
T PF06931_consen 21 LQQQLTQIIRGWKNE 35 (113)
T ss_pred HHHHHHHHHHHHhhc
Confidence 567889999999987
No 30
>KOG2345 consensus Serine/threonine protein kinase/TGF-beta stimulated factor [Transcription; Lipid transport and metabolism; Signal transduction mechanisms]
Probab=21.32 E-value=50 Score=34.06 Aligned_cols=37 Identities=32% Similarity=0.653 Sum_probs=29.5
Q ss_pred CCCCCccccccccccc-----------chhhhhhhccccc-chhhcccC
Q 011834 285 KSPWNAPELFDLSVLE-----------GETIREWLFFDKP-RRAFESGN 321 (476)
Q Consensus 285 KSPWNApELFDlsvle-----------GEtiREWLFFDKP-RRAFeSGn 321 (476)
--|+-|||||++.... |=|+-+-+|+.-| -|+|++|.
T Consensus 201 t~pyRAPELf~vk~~~ti~ertDIWSLGCtLYa~mf~~sPfe~~~~~Gg 249 (302)
T KOG2345|consen 201 TIPYRAPELFNVKSHCTITERTDIWSLGCTLYAMMFGESPFERIYQQGG 249 (302)
T ss_pred CCcccCchheecccCcccccccchhhhhHHHHHHHHcCCcchHHhhcCC
Confidence 4599999999986542 6677788999998 58888885
No 31
>KOG3598 consensus Thyroid hormone receptor-associated protein complex, subunit TRAP230 [Transcription]
Probab=21.06 E-value=1.3e+02 Score=37.47 Aligned_cols=156 Identities=28% Similarity=0.350 Sum_probs=89.8
Q ss_pred CCCCchhh--HHHHHhhhcCCccCCcccccccccCCCCCcccccccccccchhhhhhhcccccc--hhhcccCccccCCC
Q 011834 253 IGLKDGLL--FAALSARAQGKDVGIPECEGAATAKSPWNAPELFDLSVLEGETIREWLFFDKPR--RAFESGNRKQRSLP 328 (476)
Q Consensus 253 I~LKDg~L--FaAL~AK~qGK~VGIP~CEGAAtaKSPWNApELFDlsvleGEtiREWLFFDKPR--RAFeSGnRKQRSLP 328 (476)
||.|.+-. |++.- |.+|+-|-.|+ -|||||+=|--+-.+ ---|=||-.-| |---.+.--+|+|=
T Consensus 1694 idtkgnkiagFdsi~-kK~Glqvstkq------k~spwdlFEg~k~~a-----plsW~wFgTvRvDrrv~~~eeq~rlll 1761 (2220)
T KOG3598|consen 1694 IDTKGNKIAGFDSIE-KKNGLQVSTKQ------KKSPWDLFEGTKHLA-----PLSWKWFGTVRVDRRVKNVEEQLRLLL 1761 (2220)
T ss_pred cccccceeccchhhh-hhcCceecccc------ccCcchhhccCCCCC-----CccceeeeeeehhHHHHhHHHHHHHHH
Confidence 67776654 88887 99999999987 689999876655442 22488887665 22233333444431
Q ss_pred CCCCCchhhhHHHHHHHhcCcccccccCCCCCCCcceeeeEEeecccccceeeeeeeeeccCccCcCcccccchHHHHHH
Q 011834 329 DYSGRGWHESRKQVMNEFGGLKRSYYMDPQPLNHFEWHLYEYEINKCDACALYRLELKLVDGKKSAKGKLANDSVADLQK 408 (476)
Q Consensus 329 DY~GRGWHESRKQVMkefGGlKRSYYMDPQP~~~~EWHLyEYEIn~cdacALYRLElK~vD~KKs~K~K~~~~sladlQk 408 (476)
- | --|| ---|+||..|+|+-.-+ |=|--+ -+|-|-.-.|+-. +|- +--
T Consensus 1762 y------H---TH~~----p~pR~yyL~PlPlPped----EEe~~~-------~~~e~e~~~~e~~-s~~-------~~d 1809 (2220)
T KOG3598|consen 1762 Y------H---THVL----PFPRDYYLAPLPLPPED----EEEAKK-------AEEEKEAAEKEEE-SKN-------AED 1809 (2220)
T ss_pred h------h---cccc----CCcchhhccCCCCCccc----ccCCCc-------cCccccccccCcc-ccC-------ccc
Confidence 0 0 0011 12689999999987654 111111 2333333322222 221 111
Q ss_pred HhccccccccCCCcccccccccccccccccccccccCcccccCC
Q 011834 409 QMGRLTAEFPSDNKRLVKGRAKVNAKAGVGGNIYPASNVVASTN 452 (476)
Q Consensus 409 qMgrLsA~~p~dnkr~~kgrtk~~~k~~~~gn~y~~~n~~~~~n 452 (476)
+--.-||+---|.++..||+.+...+++-.-|+|-++-....+.
T Consensus 1810 ~~~~~t~E~KK~~~~g~K~ks~~~~~e~~~~~~~r~~p~~~~~s 1853 (2220)
T KOG3598|consen 1810 EKNKNTAENKKDTKEGEKGKSKDKEKEGEKEKCKRASPKDDVTS 1853 (2220)
T ss_pred cCCCCchhhhccccccccCCCccccccccccCcccCCCCCCCCC
Confidence 22233455455667778888888888888777887665444443
No 32
>PF14433 SUKH-3: SUKH-3 immunity protein
Probab=20.91 E-value=37 Score=29.33 Aligned_cols=14 Identities=36% Similarity=0.679 Sum_probs=10.7
Q ss_pred HHHHHHhcCccccc
Q 011834 340 KQVMNEFGGLKRSY 353 (476)
Q Consensus 340 KQVMkefGGlKRSY 353 (476)
++.+.+||||+=.+
T Consensus 40 ~~fL~efGgL~i~~ 53 (142)
T PF14433_consen 40 VEFLAEFGGLRINP 53 (142)
T ss_pred HHHHHHcCCeEEec
Confidence 45899999997543
No 33
>smart00150 SPEC Spectrin repeats.
Probab=20.83 E-value=3e+02 Score=20.50 Aligned_cols=46 Identities=20% Similarity=0.320 Sum_probs=28.5
Q ss_pred hHHHHHHh---hhhhhhhHHhhhhhHHHhhhccccchHHHHHHHHHHHHHHHh
Q 011834 15 HKLFKDKA---KTRVDDLQGKFLDLQFARKESRTVDVSLLEEQVHQMLREWKA 64 (476)
Q Consensus 15 h~~f~d~a---k~rvddLQ~~F~~LQ~ARKEsR~~D~avlEeQvhQmLREWka 64 (476)
|+.|+... +.+|+.+..+-..|-.. ...++..+++.+..+-..|..
T Consensus 40 ~~~~~~e~~~~~~~v~~~~~~~~~L~~~----~~~~~~~i~~~~~~l~~~w~~ 88 (101)
T smart00150 40 HEALEAELEAHEERVEALNELGEQLIEE----GHPDAEEIEERLEELNERWEE 88 (101)
T ss_pred HHHHHHHHHHhHHHHHHHHHHHHHHHHc----CCCcHHHHHHHHHHHHHHHHH
Confidence 55555544 34445554444444332 467888899988888888874
No 34
>COG0373 HemA Glutamyl-tRNA reductase [Coenzyme metabolism]
Probab=20.82 E-value=90 Score=33.12 Aligned_cols=45 Identities=24% Similarity=0.267 Sum_probs=38.5
Q ss_pred hhhhhHHhhhhhHHHhhhccccchHHHHHHHHHHHHHHHhhcCCC
Q 011834 25 RVDDLQGKFLDLQFARKESRTVDVSLLEEQVHQMLREWKAELHEP 69 (476)
Q Consensus 25 rvddLQ~~F~~LQ~ARKEsR~~D~avlEeQvhQmLREWkaEL~~p 69 (476)
.||||+++-..--.+|+|.-..==+++||++...++.|+..--+|
T Consensus 293 ~iDDL~~iv~~n~~~R~~~~~~ae~iIeee~~~~~~~l~~~~~~~ 337 (414)
T COG0373 293 TIDDLEEIVEENLEARKEEAAKAEAIIEEELAEFMEWLKKLEVVP 337 (414)
T ss_pred ehhhHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhchH
Confidence 589999999888889999888888899999999998888766544
No 35
>PF05385 Adeno_E4: Mastadenovirus early E4 13 kDa protein; InterPro: IPR008680 This family consists of Homo sapiens and simian mastadenovirus early E4 13 kDa proteins. Human adenovirus 9 (HAdV-9) is unique in eliciting exclusively estrogen-dependent mammary tumours in Rattus spp. and in not requiring viral E1 region transforming genes for tumorigenicity. E4 codes for an oncoprotein essential for tumourigenesis by Ad9 [].
Probab=20.61 E-value=35 Score=30.81 Aligned_cols=9 Identities=56% Similarity=1.479 Sum_probs=7.7
Q ss_pred hhhhhhccc
Q 011834 303 TIREWLFFD 311 (476)
Q Consensus 303 tiREWLFFD 311 (476)
.+||||||.
T Consensus 53 ~LrEWLy~a 61 (109)
T PF05385_consen 53 GLREWLYFA 61 (109)
T ss_pred HHHHHHHHH
Confidence 489999994
No 36
>PLN03166 60S ribosomal protein L34; Provisional
Probab=20.08 E-value=54 Score=28.67 Aligned_cols=16 Identities=38% Similarity=0.752 Sum_probs=13.7
Q ss_pred CCcccccCCCCCCCchhh
Q 011834 206 GPKCALWDCPRPAQGVDW 223 (476)
Q Consensus 206 gPKCALWDC~RPaqG~e~ 223 (476)
+|||+ ||+.+.+|..-
T Consensus 41 ~pkC~--~cg~~L~Gi~~ 56 (96)
T PLN03166 41 GPKCP--VTGKRIQGIPH 56 (96)
T ss_pred CCcCC--CCCCccCCccC
Confidence 69998 99999999754
Done!