Query 011572
Match_columns 483
No_of_seqs 31 out of 33
Neff 2.0
Searched_HMMs 46136
Date Fri Mar 29 02:51:40 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/011572.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/011572hhsearch_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 93.9 0.0017 3.7E-08 54.7 -5.8 100 269-379 17-128 (129)
2 cd08780 Death_TRADD Death Doma 91.1 0.14 3.1E-06 44.2 2.1 14 50-63 47-60 (90)
3 cd08313 Death_TNFR1 Death doma 87.2 0.41 8.9E-06 39.7 2.0 17 49-65 37-53 (80)
4 cd08319 Death_RAIDD Death doma 85.0 0.63 1.4E-05 38.7 2.1 17 50-66 41-57 (83)
5 cd08777 Death_RIP1 Death Domai 77.5 1.7 3.8E-05 35.9 2.2 15 50-64 42-56 (86)
6 cd08316 Death_FAS_TNFRSF6 Deat 75.5 2 4.3E-05 36.8 2.0 16 50-65 48-63 (97)
7 cd08779 Death_PIDD Death Domai 72.6 2.7 5.9E-05 34.6 2.1 16 50-65 41-56 (86)
8 cd08784 Death_DRs Death Domain 71.6 4.1 8.8E-05 32.9 2.9 28 34-64 25-52 (79)
9 cd08318 Death_NMPP84 Death dom 68.2 6.3 0.00014 32.3 3.3 28 34-66 34-61 (86)
10 cd08804 Death_ank2 Death domai 65.2 4.9 0.00011 33.0 2.2 16 50-65 43-58 (84)
11 cd08306 Death_FADD Fas-associa 64.3 5.1 0.00011 32.9 2.1 15 50-64 41-55 (86)
12 cd08315 Death_TRAILR_DR4_DR5 D 63.6 4.9 0.00011 33.9 1.9 15 51-65 47-61 (96)
13 cd08317 Death_ank Death domain 48.8 14 0.00031 29.7 2.2 14 51-64 44-57 (84)
14 smart00005 DEATH DEATH domain, 42.1 21 0.00045 27.8 2.2 15 50-64 45-59 (88)
15 cd08805 Death_ank1 Death domai 39.8 23 0.0005 29.7 2.2 15 50-64 43-57 (84)
16 PF11464 Rbsn: Rabenosyn Rab b 38.4 44 0.00095 25.7 3.3 29 33-61 10-38 (42)
17 cd01670 Death Death Domain: a 38.4 45 0.00098 25.3 3.5 17 50-66 37-53 (79)
18 TIGR02132 phaR_Bmeg polyhydrox 37.4 61 0.0013 31.6 4.9 42 19-60 82-136 (189)
19 cd08815 Death_TNFRSF25_DR3 Dea 35.0 20 0.00043 30.4 1.1 19 47-65 35-53 (77)
20 cd08803 Death_ank3 Death domai 31.4 38 0.00082 28.2 2.2 28 34-65 31-58 (84)
21 cd08311 Death_p75NR Death doma 31.2 32 0.0007 28.3 1.7 13 52-64 40-52 (77)
22 smart00150 SPEC Spectrin repea 28.0 2.3E+02 0.0051 21.0 5.8 46 14-63 40-88 (101)
23 PLN02524 S-adenosylmethionine 27.7 83 0.0018 32.9 4.3 68 328-396 112-187 (355)
24 TIGR00535 SAM_DCase S-adenosyl 27.5 69 0.0015 33.2 3.7 49 328-378 106-157 (334)
25 PF06931 Adeno_E4_ORF3: Mastad 27.0 45 0.00098 30.3 2.0 16 50-65 21-36 (113)
26 PF00531 Death: Death domain; 26.7 54 0.0012 24.9 2.2 15 50-64 39-53 (83)
27 COG0113 HemB Delta-aminolevuli 26.5 27 0.00059 36.3 0.7 13 352-365 218-230 (330)
28 PF14193 DUF4315: Domain of un 25.6 2.1E+02 0.0046 24.4 5.6 45 18-62 10-61 (83)
29 COG5586 Uncharacterized conser 24.4 45 0.00096 30.2 1.5 14 50-63 94-107 (110)
30 PF13779 DUF4175: Domain of un 24.4 80 0.0017 35.9 3.8 41 22-62 534-574 (820)
31 COG0373 HemA Glutamyl-tRNA red 24.3 83 0.0018 33.3 3.7 45 24-68 293-337 (414)
32 PF02840 Prp18: Prp18 domain; 23.2 90 0.0019 29.0 3.3 40 54-93 5-50 (144)
33 PHA01513 mnt Mnt 21.5 1.2E+02 0.0026 26.1 3.4 31 36-74 22-52 (82)
34 PF00034 Cytochrom_C: Cytochro 21.3 39 0.00085 24.5 0.5 15 226-240 3-17 (91)
35 PF00435 Spectrin: Spectrin re 21.1 3.5E+02 0.0076 20.0 6.3 49 14-63 43-91 (105)
36 PF07716 bZIP_2: Basic region 21.0 3.1E+02 0.0066 20.7 5.2 38 15-60 17-54 (54)
37 PLN03166 60S ribosomal protein 20.8 51 0.0011 28.8 1.2 16 213-230 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=93.93 E-value=0.0017 Score=54.65 Aligned_cols=100 Identities=24% Similarity=0.563 Sum_probs=53.8
Q ss_pred HHHHhhhcCcccC----cccccCCcccCCCCChhhhhhhhhccchhhhhhhhhhhhhhhhhcccccccCCCCCCCCcchh
Q 011572 269 NAVNARAQGKRVG----IPHCEGAATTKSPWNATELFDLALLEGETIREWLFFDKHRKAFESGTRKQRSLPDHSGRGWHE 344 (483)
Q Consensus 269 aAL~ak~qgk~vg----ip~Cegaat~kspwna~elfdl~~legetirewlffdkprrafesgnrkqRslpdy~grgwhe 344 (483)
.-|..|+.|...- |++| -.-+..||+-|..++. ++ ++|+||=+.++....|+|+.|.-. |=-||.
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 4577778776522 4445 5667799998852222 22 399999999999999999999755 445997
Q ss_pred hHH--HHHH---HhcCcccc--cccCCCC-CCCcceeeEEEEe
Q 011572 345 SRK--LVMK---EFGGQKRS--YYMDPQP-SDGLEWHLYEYEI 379 (483)
Q Consensus 345 srk--qvmk---~~gglkrs--yymdpqp-~~~~ewhlyeyei 379 (483)
+.+ .|+. ..-|.||+ ||.-.++ ...-.|-|.||.|
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 665 3332 23456664 6643333 3356899999987
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=91.12 E-value=0.14 Score=44.18 Aligned_cols=14 Identities=43% Similarity=0.522 Sum_probs=13.3
Q ss_pred HHHHHHHHHHHHHh
Q 011572 50 LEEQVNQILREWNS 63 (483)
Q Consensus 50 LEeQvhQmLREWkA 63 (483)
|+|||+||||+|+.
T Consensus 47 L~EqvyQ~L~~W~~ 60 (90)
T cd08780 47 LYEQAYQLLRRFIQ 60 (90)
T ss_pred HHHHHHHHHHHHHH
Confidence 89999999999986
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=87.18 E-value=0.41 Score=39.67 Aligned_cols=17 Identities=18% Similarity=0.348 Sum_probs=14.7
Q ss_pred HHHHHHHHHHHHHHhhc
Q 011572 49 VLEEQVNQILREWNSEL 65 (483)
Q Consensus 49 vLEeQvhQmLREWkAEL 65 (483)
-+.||++||||.|+.--
T Consensus 37 ~~~Eq~yqmL~~W~~~~ 53 (80)
T cd08313 37 RCRDAQYQMLKVWKERG 53 (80)
T ss_pred ChHHHHHHHHHHHHHhc
Confidence 57899999999999754
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=85.03 E-value=0.63 Score=38.67 Aligned_cols=17 Identities=18% Similarity=0.567 Sum_probs=15.0
Q ss_pred HHHHHHHHHHHHHhhcC
Q 011572 50 LEEQVNQILREWNSELS 66 (483)
Q Consensus 50 LEeQvhQmLREWkAEL~ 66 (483)
|+|||+|||+.||..-.
T Consensus 41 l~eQv~~mL~~W~~r~G 57 (83)
T cd08319 41 VQSQIVEALVKWRQRFG 57 (83)
T ss_pred HHHHHHHHHHHHHHhcC
Confidence 79999999999998654
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=77.53 E-value=1.7 Score=35.94 Aligned_cols=15 Identities=40% Similarity=0.904 Sum_probs=13.5
Q ss_pred HHHHHHHHHHHHHhh
Q 011572 50 LEEQVNQILREWNSE 64 (483)
Q Consensus 50 LEeQvhQmLREWkAE 64 (483)
++||++|||+.|+..
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=75.48 E-value=2 Score=36.76 Aligned_cols=16 Identities=38% Similarity=0.555 Sum_probs=13.8
Q ss_pred HHHHHHHHHHHHHhhc
Q 011572 50 LEEQVNQILREWNSEL 65 (483)
Q Consensus 50 LEeQvhQmLREWkAEL 65 (483)
+.||++||||.|+.--
T Consensus 48 ~~Eq~~qmL~~W~~~~ 63 (97)
T cd08316 48 TAEQKVQLLRAWYQSH 63 (97)
T ss_pred hHHHHHHHHHHHHHHh
Confidence 4799999999999753
No 7
>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=72.65 E-value=2.7 Score=34.59 Aligned_cols=16 Identities=31% Similarity=0.632 Sum_probs=14.0
Q ss_pred HHHHHHHHHHHHHhhc
Q 011572 50 LEEQVNQILREWNSEL 65 (483)
Q Consensus 50 LEeQvhQmLREWkAEL 65 (483)
|.||+++||+.|+..-
T Consensus 41 l~eq~~~mL~~W~~~~ 56 (86)
T cd08779 41 LDEQIFDMLFSWAQRQ 56 (86)
T ss_pred HHHHHHHHHHHHHHhc
Confidence 5899999999998754
No 8
>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=71.65 E-value=4.1 Score=32.92 Aligned_cols=28 Identities=18% Similarity=0.362 Sum_probs=19.9
Q ss_pred hhHHHHhhcccchHHHHHHHHHHHHHHHHhh
Q 011572 34 NLRVARKEGRANDVAVLEEQVNQILREWNSE 64 (483)
Q Consensus 34 ~LQ~ARKEsRs~D~avLEeQvhQmLREWkAE 64 (483)
+-+.-+-|..+-| +.||++|||+.|+.-
T Consensus 25 ~~~I~~ie~~~~~---~~eq~~~mL~~W~~k 52 (79)
T cd08784 25 DNEIKVAELDNPQ---HRDRVYELLRIWRNK 52 (79)
T ss_pred HHHHHHHHHcCCc---hHHHHHHHHHHHHhc
Confidence 3333344556666 689999999999964
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=68.19 E-value=6.3 Score=32.28 Aligned_cols=28 Identities=21% Similarity=0.512 Sum_probs=19.6
Q ss_pred hhHHHHhhcccchHHHHHHHHHHHHHHHHhhcC
Q 011572 34 NLRVARKEGRANDVAVLEEQVNQILREWNSELS 66 (483)
Q Consensus 34 ~LQ~ARKEsRs~D~avLEeQvhQmLREWkAEL~ 66 (483)
++..-+.+.| | +.||++|||+.|+..-.
T Consensus 34 dI~~i~~~~~--~---~~eq~~~mL~~W~~r~g 61 (86)
T cd08318 34 EIRAIESDSE--D---IKMQAKQLLVAWQDREG 61 (86)
T ss_pred HHHHHHhcCC--C---HHHHHHHHHHHHHHhcC
Confidence 4444454543 5 48999999999997643
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=65.23 E-value=4.9 Score=33.04 Aligned_cols=16 Identities=25% Similarity=0.536 Sum_probs=14.0
Q ss_pred HHHHHHHHHHHHHhhc
Q 011572 50 LEEQVNQILREWNSEL 65 (483)
Q Consensus 50 LEeQvhQmLREWkAEL 65 (483)
+.+|+++||+.|+..=
T Consensus 43 ~~eq~~~mL~~W~~r~ 58 (84)
T cd08804 43 LQDQSHALLKYWLERD 58 (84)
T ss_pred HHHHHHHHHHHHHHcc
Confidence 5799999999999763
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=64.33 E-value=5.1 Score=32.90 Aligned_cols=15 Identities=60% Similarity=0.889 Sum_probs=13.4
Q ss_pred HHHHHHHHHHHHHhh
Q 011572 50 LEEQVNQILREWNSE 64 (483)
Q Consensus 50 LEeQvhQmLREWkAE 64 (483)
+.||++|||+.|+..
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=63.63 E-value=4.9 Score=33.92 Aligned_cols=15 Identities=33% Similarity=0.596 Sum_probs=13.2
Q ss_pred HHHHHHHHHHHHhhc
Q 011572 51 EEQVNQILREWNSEL 65 (483)
Q Consensus 51 EeQvhQmLREWkAEL 65 (483)
.||++|||+.|+.--
T Consensus 47 ~eq~~qmL~~W~~~~ 61 (96)
T cd08315 47 REQLYQMLLTWVNKT 61 (96)
T ss_pred HHHHHHHHHHHHHhh
Confidence 699999999999754
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=48.77 E-value=14 Score=29.73 Aligned_cols=14 Identities=21% Similarity=0.553 Sum_probs=12.7
Q ss_pred HHHHHHHHHHHHhh
Q 011572 51 EEQVNQILREWNSE 64 (483)
Q Consensus 51 EeQvhQmLREWkAE 64 (483)
.||++|||+.|+..
T Consensus 44 ~eq~~~mL~~W~~r 57 (84)
T cd08317 44 AQQAQAMLKLWLER 57 (84)
T ss_pred HHHHHHHHHHHHHh
Confidence 49999999999987
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=42.14 E-value=21 Score=27.82 Aligned_cols=15 Identities=47% Similarity=0.760 Sum_probs=13.2
Q ss_pred HHHHHHHHHHHHHhh
Q 011572 50 LEEQVNQILREWNSE 64 (483)
Q Consensus 50 LEeQvhQmLREWkAE 64 (483)
+.+|+.|||++|+..
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=39.76 E-value=23 Score=29.67 Aligned_cols=15 Identities=33% Similarity=0.534 Sum_probs=13.6
Q ss_pred HHHHHHHHHHHHHhh
Q 011572 50 LEEQVNQILREWNSE 64 (483)
Q Consensus 50 LEeQvhQmLREWkAE 64 (483)
+.+|+++||+.|+..
T Consensus 43 l~~Q~~~~L~~W~~r 57 (84)
T cd08805 43 LLEQSTALLNLWVDR 57 (84)
T ss_pred HHHHHHHHHHHHHHh
Confidence 679999999999975
No 16
>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=38.39 E-value=44 Score=25.67 Aligned_cols=29 Identities=28% Similarity=0.448 Sum_probs=22.1
Q ss_pred hhhHHHHhhcccchHHHHHHHHHHHHHHH
Q 011572 33 ANLRVARKEGRANDVAVLEEQVNQILREW 61 (483)
Q Consensus 33 ~~LQ~ARKEsRs~D~avLEeQvhQmLREW 61 (483)
+-++.||+.+|-.+|+.||+-++++=+|-
T Consensus 10 ~~I~qAk~~~r~dEV~~L~~NL~EL~~e~ 38 (42)
T PF11464_consen 10 SYIKQAKAARRFDEVATLEENLRELQDEI 38 (42)
T ss_dssp HHHHHHHHTT-HHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHhcCcHHHHHHHHHHHHHHHHH
Confidence 34788999999999999998766654443
No 17
>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=38.39 E-value=45 Score=25.32 Aligned_cols=17 Identities=29% Similarity=0.569 Sum_probs=14.5
Q ss_pred HHHHHHHHHHHHHhhcC
Q 011572 50 LEEQVNQILREWNSELS 66 (483)
Q Consensus 50 LEeQvhQmLREWkAEL~ 66 (483)
+.+|.++||+.|+..-.
T Consensus 37 ~~~~~~~mL~~W~~~~~ 53 (79)
T cd01670 37 VREQAYQLLLKWEEREG 53 (79)
T ss_pred HHHHHHHHHHHHHhccC
Confidence 68999999999987643
No 18
>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=37.43 E-value=61 Score=31.60 Aligned_cols=42 Identities=17% Similarity=0.283 Sum_probs=29.6
Q ss_pred HHhhhhhhhHHHHhhhhHHHH---hhccc----------chHHHHHHHHHHHHHH
Q 011572 19 DSAKNRLNDLQEKFANLRVAR---KEGRA----------NDVAVLEEQVNQILRE 60 (483)
Q Consensus 19 d~ak~rvdDLQ~mF~~LQ~AR---KEsRs----------~D~avLEeQvhQmLRE 60 (483)
-+..+|||+|++.|.++=-++ -|.+. .|+.-||+-|.|||+-
T Consensus 82 inlE~kvD~lee~fdd~~d~l~~q~eq~~~~~~~v~~~~q~~~~l~~K~D~~L~l 136 (189)
T TIGR02132 82 INLEEKVDLIEEFFDDKFDELEAQQEQAPALKKDVTKLKQDIKSLDKKLDKILEL 136 (189)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhhCchHHhHHHHHHHHHHHHHHHHHHHHHH
Confidence 345789999999998843333 23333 3778888888898873
No 19
>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=34.98 E-value=20 Score=30.41 Aligned_cols=19 Identities=16% Similarity=0.573 Sum_probs=15.8
Q ss_pred HHHHHHHHHHHHHHHHhhc
Q 011572 47 VAVLEEQVNQILREWNSEL 65 (483)
Q Consensus 47 ~avLEeQvhQmLREWkAEL 65 (483)
..-.+||++|||+-|+..-
T Consensus 35 ~~~~rda~y~ML~~W~~q~ 53 (77)
T cd08815 35 IGRFRDQQYEMLKRWRQQQ 53 (77)
T ss_pred ccchHHHHHHHHHHHHHcC
Confidence 3567899999999999764
No 20
>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=31.37 E-value=38 Score=28.23 Aligned_cols=28 Identities=25% Similarity=0.378 Sum_probs=19.4
Q ss_pred hhHHHHhhcccchHHHHHHHHHHHHHHHHhhc
Q 011572 34 NLRVARKEGRANDVAVLEEQVNQILREWNSEL 65 (483)
Q Consensus 34 ~LQ~ARKEsRs~D~avLEeQvhQmLREWkAEL 65 (483)
++..-+.|-. .| +.+|+++||+.|+..=
T Consensus 31 dI~~i~~e~p-~~---~~~q~~~lL~~W~~r~ 58 (84)
T cd08803 31 EINQIRVENP-NS---LIAQSFMLLKKWVTRD 58 (84)
T ss_pred HHHHHHHhCC-CC---HHHHHHHHHHHHHHhh
Confidence 3444455544 33 6799999999999863
No 21
>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=31.21 E-value=32 Score=28.29 Aligned_cols=13 Identities=23% Similarity=0.782 Sum_probs=11.9
Q ss_pred HHHHHHHHHHHhh
Q 011572 52 EQVNQILREWNSE 64 (483)
Q Consensus 52 eQvhQmLREWkAE 64 (483)
+|+++||++|+..
T Consensus 40 ~p~~~lL~~W~~r 52 (77)
T cd08311 40 SPVRTLLADWSAQ 52 (77)
T ss_pred hHHHHHHHHHHHC
Confidence 8999999999974
No 22
>smart00150 SPEC Spectrin repeats.
Probab=27.99 E-value=2.3e+02 Score=20.99 Aligned_cols=46 Identities=22% Similarity=0.349 Sum_probs=29.3
Q ss_pred hHHHHHHh---hhhhhhHHHHhhhhHHHHhhcccchHHHHHHHHHHHHHHHHh
Q 011572 14 HQFLLDSA---KNRLNDLQEKFANLRVARKEGRANDVAVLEEQVNQILREWNS 63 (483)
Q Consensus 14 H~~f~d~a---k~rvdDLQ~mF~~LQ~ARKEsRs~D~avLEeQvhQmLREWkA 63 (483)
|+.|+... +.+|+.+..+-..|-.. ...++..+++.+..+-..|..
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 44455555554444332 467888899999998888874
No 23
>PLN02524 S-adenosylmethionine decarboxylase
Probab=27.72 E-value=83 Score=32.93 Aligned_cols=68 Identities=24% Similarity=0.443 Sum_probs=48.1
Q ss_pred cccccCCCCCCC---CcchhhHHHHHHHhcCc---ccccccCCCCCCCcceeeEEEEecCcc--ceeeeeeeeeccc
Q 011572 328 TRKQRSLPDHSG---RGWHESRKLVMKEFGGQ---KRSYYMDPQPSDGLEWHLYEYEIIGFD--AYALYRLEVKLAS 396 (483)
Q Consensus 328 nrkqRslpdy~g---rgwhesrkqvmk~~ggl---krsyymdpqp~~~~ewhlyeyein~~d--a~alyrle~k~~d 396 (483)
.||...+|+-.- |.|.|-=..+=+-||++ -++|-|-+- .+..-||||-..-.... .-.-|-||+=-.+
T Consensus 112 sRknf~fP~~Q~~pH~sf~eEV~~L~~~F~~l~~~G~AY~~G~~-~~~~hW~lY~a~~~~~~~~~~~d~TlEilMt~ 187 (355)
T PLN02524 112 TRGSFIFPGAQPFPHRSFSEEVSVLDGHFGKLGLGGKAYVMGDP-DKGQKWHVYSASAHNSSNSNEPVYTLEMCMTG 187 (355)
T ss_pred ecccccCcccCCCcccCHHHHHHHHHHhcccccCCceEEEeCCC-CCCCceEEEeCCCcccccCCCCCeEEEEEccC
Confidence 689999999887 99999988888888864 577888652 24677999976544322 2245667764433
No 24
>TIGR00535 SAM_DCase S-adenosylmethionine decarboxylase proenzyme, eukaryotic form. This protein is a pyruvoyl-dependent enzyme. The proenzyme is cleaved at a Ser residue that becomes a pyruvoyl group active site.
Probab=27.45 E-value=69 Score=33.24 Aligned_cols=49 Identities=27% Similarity=0.449 Sum_probs=36.3
Q ss_pred cccccCCCCCCC---CcchhhHHHHHHHhcCcccccccCCCCCCCcceeeEEEE
Q 011572 328 TRKQRSLPDHSG---RGWHESRKLVMKEFGGQKRSYYMDPQPSDGLEWHLYEYE 378 (483)
Q Consensus 328 nrkqRslpdy~g---rgwhesrkqvmk~~gglkrsyymdpqp~~~~ewhlyeye 378 (483)
.||...+|+-.- |.|.|-=..+=+-|++. ++|-|-+. .+..-||||-..
T Consensus 106 sRksf~fP~~Q~~pH~sf~eEV~~L~~~F~~g-~AY~~G~~-~~~~~WhlY~~~ 157 (334)
T TIGR00535 106 SRGCFLFPCAQPAIHRNFSEEVAYLNKFFGNG-KAYVVGDP-AKPQKWHLYVAE 157 (334)
T ss_pred ecccccCcccCCCcCCCHHHHHHHHHHhcCCC-ceEEeCCC-CCCCceEEEeCC
Confidence 588899998775 79999876665558764 78888543 344679999754
No 25
>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=27.02 E-value=45 Score=30.27 Aligned_cols=16 Identities=44% Similarity=0.881 Sum_probs=13.7
Q ss_pred HHHHHHHHHHHHHhhc
Q 011572 50 LEEQVNQILREWNSEL 65 (483)
Q Consensus 50 LEeQvhQmLREWkAEL 65 (483)
|.+++-|++|+||.|=
T Consensus 21 l~~~~~~Ii~~Wk~EN 36 (113)
T PF06931_consen 21 LQQQLTQIIRGWKNEN 36 (113)
T ss_pred HHHHHHHHHHHHhhcc
Confidence 5678999999999983
No 26
>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=26.71 E-value=54 Score=24.88 Aligned_cols=15 Identities=33% Similarity=0.767 Sum_probs=13.9
Q ss_pred HHHHHHHHHHHHHhh
Q 011572 50 LEEQVNQILREWNSE 64 (483)
Q Consensus 50 LEeQvhQmLREWkAE 64 (483)
..+|.++||+.|+..
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 27
>COG0113 HemB Delta-aminolevulinic acid dehydratase [Coenzyme metabolism]
Probab=26.46 E-value=27 Score=36.26 Aligned_cols=13 Identities=46% Similarity=1.134 Sum_probs=11.2
Q ss_pred HhcCcccccccCCC
Q 011572 352 EFGGQKRSYYMDPQ 365 (483)
Q Consensus 352 ~~gglkrsyymdpq 365 (483)
.||+ ||+|.|||-
T Consensus 218 ~~gd-rktYQmDpa 230 (330)
T COG0113 218 KFGD-RKTYQMDPA 230 (330)
T ss_pred ccCC-cceeccCCc
Confidence 5778 999999995
No 28
>PF14193 DUF4315: Domain of unknown function (DUF4315)
Probab=25.59 E-value=2.1e+02 Score=24.38 Aligned_cols=45 Identities=18% Similarity=0.454 Sum_probs=33.7
Q ss_pred HHHhhhhhhhHHHHhhhhHHHHhhcccchHHHH-------HHHHHHHHHHHH
Q 011572 18 LDSAKNRLNDLQEKFANLRVARKEGRANDVAVL-------EEQVNQILREWN 62 (483)
Q Consensus 18 ~d~ak~rvdDLQ~mF~~LQ~ARKEsRs~D~avL-------EeQvhQmLREWk 62 (483)
.+|+|.++.++|+.+-.|....+|--+.+++=+ =+|+..|||--+
T Consensus 10 ieK~k~Kiae~Q~rlK~Le~qk~E~EN~EIv~~VR~~~mtp~eL~~~L~~~~ 61 (83)
T PF14193_consen 10 IEKTKEKIAELQARLKELEAQKTEAENLEIVQMVRSMKMTPEELAAFLRAMK 61 (83)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHH
Confidence 468889999999999999999999877765533 245555555444
No 29
>COG5586 Uncharacterized conserved protein [Function unknown]
Probab=24.45 E-value=45 Score=30.20 Aligned_cols=14 Identities=29% Similarity=0.883 Sum_probs=12.4
Q ss_pred HHHHHHHHHHHHHh
Q 011572 50 LEEQVNQILREWNS 63 (483)
Q Consensus 50 LEeQvhQmLREWkA 63 (483)
.-||++-||++|||
T Consensus 94 V~~~inamL~~WRa 107 (110)
T COG5586 94 VGEHINAMLTDWRA 107 (110)
T ss_pred HHHHHHHHHHHhhc
Confidence 45799999999997
No 30
>PF13779 DUF4175: Domain of unknown function (DUF4175)
Probab=24.39 E-value=80 Score=35.93 Aligned_cols=41 Identities=22% Similarity=0.345 Sum_probs=35.3
Q ss_pred hhhhhhHHHHhhhhHHHHhhcccchHHHHHHHHHHHHHHHH
Q 011572 22 KNRLNDLQEKFANLRVARKEGRANDVAVLEEQVNQILREWN 62 (483)
Q Consensus 22 k~rvdDLQ~mF~~LQ~ARKEsRs~D~avLEeQvhQmLREWk 62 (483)
.-+-+|||.|...||..-++|+..++-=+=+|+.|||..=+
T Consensus 534 ~~~~~dL~~mmd~ie~la~~G~~~~A~q~L~qlq~mmenmq 574 (820)
T PF13779_consen 534 MMSQQDLQRMMDRIEELARSGRMDEARQLLEQLQQMMENMQ 574 (820)
T ss_pred ccCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhcc
Confidence 34568999999999999999999999988889999997543
No 31
>COG0373 HemA Glutamyl-tRNA reductase [Coenzyme metabolism]
Probab=24.28 E-value=83 Score=33.32 Aligned_cols=45 Identities=27% Similarity=0.340 Sum_probs=39.1
Q ss_pred hhhhHHHHhhhhHHHHhhcccchHHHHHHHHHHHHHHHHhhcCCC
Q 011572 24 RLNDLQEKFANLRVARKEGRANDVAVLEEQVNQILREWNSELSAP 68 (483)
Q Consensus 24 rvdDLQ~mF~~LQ~ARKEsRs~D~avLEeQvhQmLREWkAEL~~p 68 (483)
.||||+++-..-..+|+|.-..==+++||++...++.|+..--+|
T Consensus 293 ~iDDL~~iv~~n~~~R~~~~~~ae~iIeee~~~~~~~l~~~~~~~ 337 (414)
T COG0373 293 TIDDLEEIVEENLEARKEEAAKAEAIIEEELAEFMEWLKKLEVVP 337 (414)
T ss_pred ehhhHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhchH
Confidence 489999999988899999888888999999999998888776644
No 32
>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=23.20 E-value=90 Score=28.96 Aligned_cols=40 Identities=20% Similarity=0.329 Sum_probs=21.0
Q ss_pred HHHHHHHHHhhcCCCCCC--cccCCCCCCCC----hhhHHHHhhcc
Q 011572 54 VNQILREWNSELSAPSPA--SSLLGGSLGLF----PNDIDRLLQLG 93 (483)
Q Consensus 54 vhQmLREWkAEL~~pSPA--SSLqg~slg~f----~sd~~RLLQl~ 93 (483)
++.+|+||..+|+..+.+ .|.+|.-...- -.++..|+.++
T Consensus 5 ~k~lL~eW~~~l~~r~~~~k~s~~gk~~~~~~~qtk~~l~PL~~~L 50 (144)
T PF02840_consen 5 IKFLLKEWEEELNSRPEEEKRSAQGKQASATYKQTKRYLKPLFKKL 50 (144)
T ss_dssp HHHHHHHHHHCCCCS-CC------------CHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHcCChhhhhhhhhhhhHHHHHHHHHHHHHHHHHH
Confidence 678999999999998888 55555522222 23444555555
No 33
>PHA01513 mnt Mnt
Probab=21.47 E-value=1.2e+02 Score=26.14 Aligned_cols=31 Identities=32% Similarity=0.549 Sum_probs=24.1
Q ss_pred HHHHhhcccchHHHHHHHHHHHHHHHHhhcCCCCCCccc
Q 011572 36 RVARKEGRANDVAVLEEQVNQILREWNSELSAPSPASSL 74 (483)
Q Consensus 36 Q~ARKEsRs~D~avLEeQvhQmLREWkAEL~~pSPASSL 74 (483)
+.|.+||||. .++|-+.|..| |..|||.+-+
T Consensus 22 ~aA~~nGRSm-----NaeIv~~Le~a---l~~~~~~~g~ 52 (82)
T PHA01513 22 QRAKANGRSL-----NAELVQIVQDA---LSKPSPVTGY 52 (82)
T ss_pred HHHHHhCCCH-----HHHHHHHHHHH---hcCCCcchhh
Confidence 4689999994 66777888877 6678887765
No 34
>PF00034 Cytochrom_C: Cytochrome c; InterPro: IPR003088 Cytochromes c (cytC) can be defined as electron-transfer proteins having one or several haem c groups, bound to the protein by one or, more generally, two thioether bonds involving sulphydryl groups of cysteine residues. The fifth haem iron ligand is always provided by a histidine residue. CytC possess a wide range of properties and function in a large number of different redox processes. Ambler [] recognised four classes of cytC. Class I includes the low-spin soluble cytC of mitochondria and bacteria, with the haem-attachment site towards the N terminus, and the sixth ligand provided by a methionine residue about 40 residues further on towards the C terminus. On the basis of sequence similarity, class I cytC were further subdivided into five classes, IA to IE. Class IB includes the eukaryotic mitochondrial cytC and prokaryotic 'short' cyt c2 exemplified by Rhodopila globiformis cyt c2; class IA includes 'long' cyt c2, such as Rhodospirillum rubrum cyt c2 and Aquaspirillum itersonii cyt c-550, which have several extra loops by comparison with class IB cytC.; GO: 0005506 iron ion binding, 0009055 electron carrier activity, 0020037 heme binding; PDB: 1YNR_B 2AI5_A 1AYG_A 3O5C_C 1YEA_A 3CXH_W 1YTC_A 1YEB_A 2YBB_Y 2B4Z_A ....
Probab=21.31 E-value=39 Score=24.47 Aligned_cols=15 Identities=40% Similarity=0.824 Sum_probs=12.3
Q ss_pred CcchhHHhhhhhhhh
Q 011572 226 LGSELFEDYCSNFHA 240 (483)
Q Consensus 226 qG~e~~qdYCSsfHa 240 (483)
+|-+-++.+|.++|.
T Consensus 3 ~G~~l~~~~C~~CH~ 17 (91)
T PF00034_consen 3 RGKELFQANCAACHG 17 (91)
T ss_dssp HHHHHHHHHTTTTHB
T ss_pred hHHHHHhCcChhcCC
Confidence 466777899999994
No 35
>PF00435 Spectrin: Spectrin repeat; InterPro: IPR002017 Spectrin repeats [] are found in several proteins involved in cytoskeletal structure. These include spectrin alpha and beta subunits [, ], alpha-actinin [] and dystrophin. The spectrin repeat forms a three-helix bundle. The second helix is interrupted by proline in some sequences. The repeats are defined by a characteristic tryptophan (W) residue at position 17 in helix A and a leucine (L) at 2 residues from the carboxyl end of helix C.; GO: 0005515 protein binding; PDB: 1HCI_A 1QUU_A 3FB2_B 1S35_A 1U5P_A 1U4Q_A 1CUN_B 1YDI_B 3EDV_A 1AJ3_A ....
Probab=21.06 E-value=3.5e+02 Score=20.00 Aligned_cols=49 Identities=14% Similarity=0.325 Sum_probs=29.1
Q ss_pred hHHHHHHhhhhhhhHHHHhhhhHHHHhhcccchHHHHHHHHHHHHHHHHh
Q 011572 14 HQFLLDSAKNRLNDLQEKFANLRVARKEGRANDVAVLEEQVNQILREWNS 63 (483)
Q Consensus 14 H~~f~d~ak~rvdDLQ~mF~~LQ~ARKEsRs~D~avLEeQvhQmLREWkA 63 (483)
|+.|......+-..|..+..--+.- .+....+...+.+.+.++-..|.+
T Consensus 43 ~~~~~~ei~~~~~~l~~l~~~~~~L-~~~~~~~~~~i~~~~~~l~~~w~~ 91 (105)
T PF00435_consen 43 HKELQEEIESRQERLESLNEQAQQL-IDSGPEDSDEIQEKLEELNQRWEA 91 (105)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHH-HHTTHTTHHHHHHHHHHHHHHHHH
T ss_pred HhhhhhHHHHHHHHHHHHHHHHHHH-HHcCCCcHHHHHHHHHHHHHHHHH
Confidence 5666655544444444443333333 233377888899988888888864
No 36
>PF07716 bZIP_2: Basic region leucine zipper; InterPro: IPR011700 The basic-leucine zipper (bZIP) transcription factors [, ] of eukaryotes are proteins that contain a basic region mediating sequence-specific DNA-binding, followed by a leucine zipper region (see IPR002158 from INTERPRO), which is required for dimerization.; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0043565 sequence-specific DNA binding, 0046983 protein dimerization activity, 0006355 regulation of transcription, DNA-dependent; PDB: 1NWQ_A 1H89_B 1H88_A 1GTW_B 2E43_A 1IO4_A 1GU4_B 2E42_A 1H8A_B 1GU5_B ....
Probab=21.02 E-value=3.1e+02 Score=20.65 Aligned_cols=38 Identities=21% Similarity=0.319 Sum_probs=30.1
Q ss_pred HHHHHHhhhhhhhHHHHhhhhHHHHhhcccchHHHHHHHHHHHHHH
Q 011572 15 QFLLDSAKNRLNDLQEKFANLRVARKEGRANDVAVLEEQVNQILRE 60 (483)
Q Consensus 15 ~~f~d~ak~rvdDLQ~mF~~LQ~ARKEsRs~D~avLEeQvhQmLRE 60 (483)
+-+|++-|.++.+|+.....|+. ....|+.+|.++-+|
T Consensus 17 ~r~R~rkk~~~~~le~~~~~L~~--------en~~L~~~i~~L~~E 54 (54)
T PF07716_consen 17 RRSRQRKKQREEELEQEVQELEE--------ENEQLRQEIAQLERE 54 (54)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHH--------HHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHH--------HHHHHHHHHHHHhcc
Confidence 56899999999999999888873 456788888776554
No 37
>PLN03166 60S ribosomal protein L34; Provisional
Probab=20.78 E-value=51 Score=28.78 Aligned_cols=16 Identities=31% Similarity=0.553 Sum_probs=13.6
Q ss_pred CCccccccCCCCCCcchh
Q 011572 213 GPKCALWDCTRPALGSEL 230 (483)
Q Consensus 213 gPKCALWDC~RPaqG~e~ 230 (483)
+|||+ ||+++.+|..-
T Consensus 41 ~pkC~--~cg~~L~Gi~~ 56 (96)
T PLN03166 41 GPKCP--VTGKRIQGIPH 56 (96)
T ss_pred CCcCC--CCCCccCCccC
Confidence 69998 99999999743
Done!