Query 034631
Match_columns 89
No_of_seqs 47 out of 49
Neff 2.4
Searched_HMMs 46136
Date Fri Mar 29 04:51:50 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/034631.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/034631hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG3058 Uncharacterized conser 84.7 0.49 1.1E-05 39.2 1.3 46 42-89 296-347 (351)
2 KOG0003 Ubiquitin/60s ribosoma 79.5 0.88 1.9E-05 33.4 0.9 27 58-86 35-61 (128)
3 KOG3058 Uncharacterized conser 59.1 4.8 0.0001 33.5 1.1 40 1-40 47-89 (351)
4 cd03027 GRX_DEP Glutaredoxin ( 53.4 9.3 0.0002 22.6 1.4 38 33-76 24-63 (73)
5 cd01805 RAD23_N Ubiquitin-like 43.8 8.2 0.00018 23.1 0.1 21 64-84 41-61 (77)
6 COG2015 Alkyl sulfatase and re 34.6 13 0.00029 33.3 0.0 44 31-75 60-109 (655)
7 PF13110 DUF3966: Protein of u 33.7 11 0.00024 23.9 -0.4 24 3-26 3-29 (50)
8 cd01806 Nedd8 Nebb8-like ubiq 33.4 15 0.00032 21.6 0.1 20 65-84 40-59 (76)
9 cd03031 GRX_GRX_like Glutaredo 30.3 38 0.00083 24.2 1.8 43 34-78 30-74 (147)
10 PF00462 Glutaredoxin: Glutare 30.3 35 0.00075 19.4 1.3 36 34-75 23-60 (60)
11 smart00213 UBQ Ubiquitin homol 29.7 20 0.00044 19.9 0.2 21 65-85 39-59 (64)
12 cd01809 Scythe_N Ubiquitin-lik 29.5 20 0.00044 20.8 0.2 35 45-84 25-59 (72)
13 cd01810 ISG15_repeat2 ISG15 ub 29.5 20 0.00044 21.7 0.2 20 65-84 38-57 (74)
14 cd08311 Death_p75NR Death doma 27.9 26 0.00057 22.7 0.6 20 47-68 2-22 (77)
15 cd01807 GDX_N ubiquitin-like d 25.8 25 0.00054 21.2 0.2 21 65-85 40-60 (74)
16 cd01797 NIRF_N amino-terminal 24.6 28 0.0006 21.9 0.2 21 64-84 41-61 (78)
17 cd01793 Fubi Fubi ubiquitin-li 24.6 29 0.00062 21.0 0.3 21 65-85 38-58 (74)
18 cd01803 Ubiquitin Ubiquitin. U 23.8 30 0.00066 20.2 0.3 20 65-84 40-59 (76)
19 cd01792 ISG15_repeat1 ISG15 ub 23.7 25 0.00055 21.7 -0.1 21 64-84 41-63 (80)
20 KOG3220 Similar to bacterial d 21.4 34 0.00075 27.2 0.2 66 3-72 89-164 (225)
21 cd02128 PA_TfR PA_TfR: Proteas 20.5 37 0.00081 25.5 0.2 29 32-66 136-164 (183)
No 1
>KOG3058 consensus Uncharacterized conserved protein [Function unknown]
Probab=84.69 E-value=0.49 Score=39.20 Aligned_cols=46 Identities=28% Similarity=0.256 Sum_probs=36.8
Q ss_pred ccccchhhhhhcCCCCCCCCccchh-----hhhccCeeccCCc-ccccccccCC
Q 034631 42 KEARTKEENHKLLNGNSVDPADWRQ-----RTQVNGKVLEDGN-VHADNAMNGA 89 (89)
Q Consensus 42 kd~r~kEe~hkllNGn~vd~~D~rq-----r~q~nGk~~ed~n-~~~d~~~ng~ 89 (89)
||...+++.+...|++.++|.+++| +.|+||+. +.+ .|.+...|++
T Consensus 296 k~~w~~~~~~fe~di~g~~p~~~~p~~~~~~~~~~~s~--~~~~~~t~~~~~~t 347 (351)
T KOG3058|consen 296 KDWWFPLVRWFELDIQGGVPNEFRPKSWPNTMQVNGST--SSKTVHTDNISNLT 347 (351)
T ss_pred hhcccchhhhhhhcCCCCCchhcCCccCcccccccccc--ceeeeeeccccccc
Confidence 4577888999999999999999998 88999985 444 6667666654
No 2
>KOG0003 consensus Ubiquitin/60s ribosomal protein L40 fusion [Translation, ribosomal structure and biogenesis]
Probab=79.47 E-value=0.88 Score=33.43 Aligned_cols=27 Identities=41% Similarity=0.607 Sum_probs=21.8
Q ss_pred CCCCccchhhhhccCeeccCCcccccccc
Q 034631 58 SVDPADWRQRTQVNGKVLEDGNVHADNAM 86 (89)
Q Consensus 58 ~vd~~D~rqr~q~nGk~~ed~n~~~d~~~ 86 (89)
.+||. .||.|.|||++|||.++||-.+
T Consensus 35 Gi~~~--~~~L~~~~k~LED~~Tla~Y~i 61 (128)
T KOG0003|consen 35 GIPPD--QQRLIFAGKQLEDGRTLADYNI 61 (128)
T ss_pred CCCHH--HHHHHhcccccccCCcccccCc
Confidence 55554 5899999999999998888543
No 3
>KOG3058 consensus Uncharacterized conserved protein [Function unknown]
Probab=59.09 E-value=4.8 Score=33.50 Aligned_cols=40 Identities=30% Similarity=0.209 Sum_probs=36.2
Q ss_pred Ccchhhhhccc---ceeeeehhhHHHHHHhHHHHhhhhceeee
Q 034631 1 MTLYIGREASK---RICAETTTEINLLVDNWKYLLAGLVLSSK 40 (89)
Q Consensus 1 M~~Yi~ReasK---Ri~~E~tvEl~LL~ekWklLLa~Lp~s~K 40 (89)
|-+|+.|++++ +-+.+..+++..+...|+.++..+.++++
T Consensus 47 ~~~~~~~~~~~~~~~~~~~~kt~lafl~~~~~~~l~~v~l~~v 89 (351)
T KOG3058|consen 47 MEFYIRRPKSKRDRRPSEWWKTLLAFLYLFVAALLNSVTLVYV 89 (351)
T ss_pred ceeecccccccccccCchhHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 34899999998 78899999999999999999999999887
No 4
>cd03027 GRX_DEP Glutaredoxin (GRX) family, Dishevelled, Egl-10, and Pleckstrin (DEP) subfamily; composed of uncharacterized proteins containing a GRX domain and additional domains DEP and DUF547, both of which have unknown functions. GRX is a glutathione (GSH) dependent reductase containing a redox active CXXC motif in a TRX fold. It has preference for mixed GSH disulfide substrates, in which it uses a monothiol mechanism where only the N-terminal cysteine is required. By altering the redox state of target proteins, GRX is involved in many cellular functions.
Probab=53.39 E-value=9.3 Score=22.63 Aligned_cols=38 Identities=18% Similarity=0.137 Sum_probs=26.2
Q ss_pred hhhceeeec--ccccchhhhhhcCCCCCCCCccchhhhhccCeecc
Q 034631 33 AGLVLSSKD--KEARTKEENHKLLNGNSVDPADWRQRTQVNGKVLE 76 (89)
Q Consensus 33 a~Lp~s~Kd--kd~r~kEe~hkllNGn~vd~~D~rqr~q~nGk~~e 76 (89)
.++++..+| ++...++|++++....++ |.+-+||+++-
T Consensus 24 ~gi~~~~~di~~~~~~~~el~~~~g~~~v------P~v~i~~~~iG 63 (73)
T cd03027 24 KGLPYVEINIDIFPERKAELEERTGSSVV------PQIFFNEKLVG 63 (73)
T ss_pred CCCceEEEECCCCHHHHHHHHHHhCCCCc------CEEEECCEEEe
Confidence 467888887 455567789888654333 66778888764
No 5
>cd01805 RAD23_N Ubiquitin-like domain of RAD23. RAD23 belongs to a family of adaptor molecules having affinity for both the proteasome and ubiquitinylated proteins and thought to shuttle these ubiquitinylated proteins to the proteasome for destruction. RAD23 interacts with ubiquitin through its C-terminal ubiquitin-associated domains (UBA) and with the proteasome through its N-terminal ubiquitin-like domain (UBL).
Probab=43.83 E-value=8.2 Score=23.08 Aligned_cols=21 Identities=24% Similarity=0.351 Sum_probs=17.3
Q ss_pred chhhhhccCeeccCCcccccc
Q 034631 64 WRQRTQVNGKVLEDGNVHADN 84 (89)
Q Consensus 64 ~rqr~q~nGk~~ed~n~~~d~ 84 (89)
-|||...+|+.++|...++|.
T Consensus 41 ~~q~L~~~G~~L~d~~~L~~~ 61 (77)
T cd01805 41 EQQKLIYSGKILKDDTTLEEY 61 (77)
T ss_pred hHeEEEECCEEccCCCCHHHc
Confidence 479999999999998766663
No 6
>COG2015 Alkyl sulfatase and related hydrolases [Secondary metabolites biosynthesis, transport, and catabolism]
Probab=34.62 E-value=13 Score=33.30 Aligned_cols=44 Identities=27% Similarity=0.342 Sum_probs=28.9
Q ss_pred Hhhhhceeeecccccchh---hhhhcCCC---CCCCCccchhhhhccCeec
Q 034631 31 LLAGLVLSSKDKEARTKE---ENHKLLNG---NSVDPADWRQRTQVNGKVL 75 (89)
Q Consensus 31 LLa~Lp~s~Kdkd~r~kE---e~hkllNG---n~vd~~D~rqr~q~nGk~~ 75 (89)
|-.+.+...|+.||+--= ...=||+| +||.|.=||| .|.|+||+
T Consensus 60 I~~~~d~~I~~adG~v~w~l~~Y~Fll~~~~~~tVnPSLwRQ-aqLn~~~G 109 (655)
T COG2015 60 IAPLSDEGIKRADGKVVWRLDAYDFLLDGAAPDTVNPSLWRQ-AQLNAKHG 109 (655)
T ss_pred cccccchheeCCCCcEEEEcCccccccCCCCccccCHHHHHH-HHHhhhcC
Confidence 333444555555665322 23335888 6999999999 68999885
No 7
>PF13110 DUF3966: Protein of unknown function (DUF3966)
Probab=33.65 E-value=11 Score=23.85 Aligned_cols=24 Identities=38% Similarity=0.570 Sum_probs=19.0
Q ss_pred chhhhhccc---ceeeeehhhHHHHHH
Q 034631 3 LYIGREASK---RICAETTTEINLLVD 26 (89)
Q Consensus 3 ~Yi~ReasK---Ri~~E~tvEl~LL~e 26 (89)
+||+|.-|. --.+|+|.||..|+.
T Consensus 3 ~yisrkfsqernlekseitael~mla~ 29 (50)
T PF13110_consen 3 VYISRKFSQERNLEKSEITAELDMLAD 29 (50)
T ss_pred EEeehhhhhhhcchHHHHHHHHHHHcc
Confidence 699998886 345789999998864
No 8
>cd01806 Nedd8 Nebb8-like ubiquitin protein. Nedd8 (also known as Rub1) has a single conserved ubiquitin-like domain that is part of a protein modification pathway similar to that of ubiquitin. Nedd8 modifies a family of molecular scaffold proteins called cullins that are responsible for assembling the ROC1/Rbx1 RING-based E3 ubiquitin ligases, of which several play a direct role in tumorigenesis.
Probab=33.44 E-value=15 Score=21.56 Aligned_cols=20 Identities=35% Similarity=0.468 Sum_probs=16.3
Q ss_pred hhhhhccCeeccCCcccccc
Q 034631 65 RQRTQVNGKVLEDGNVHADN 84 (89)
Q Consensus 65 rqr~q~nGk~~ed~n~~~d~ 84 (89)
+||...+|+.++|..+++|.
T Consensus 40 ~qrL~~~g~~L~d~~tl~~~ 59 (76)
T cd01806 40 QQRLIYSGKQMNDDKTAADY 59 (76)
T ss_pred hEEEEECCeEccCCCCHHHc
Confidence 58999999999988766653
No 9
>cd03031 GRX_GRX_like Glutaredoxin (GRX) family, GRX-like domain containing protein subfamily; composed of uncharacterized eukaryotic proteins containing a GRX-like domain having only one conserved cysteine, aligning to the C-terminal cysteine of the CXXC motif of GRXs. This subfamily is predominantly composed of plant proteins. GRX is a glutathione (GSH) dependent reductase, catalyzing the disulfide reduction of target proteins via a redox active CXXC motif using a similar dithiol mechanism employed by TRXs. GRX has preference for mixed GSH disulfide substrates, in which it uses a monothiol mechanism where only the N-terminal cysteine is required. Proteins containing only the C-terminal cysteine are generally redox inactive.
Probab=30.33 E-value=38 Score=24.20 Aligned_cols=43 Identities=23% Similarity=0.285 Sum_probs=29.1
Q ss_pred hhceeeec--ccccchhhhhhcCCCCCCCCccchhhhhccCeeccCC
Q 034631 34 GLVLSSKD--KEARTKEENHKLLNGNSVDPADWRQRTQVNGKVLEDG 78 (89)
Q Consensus 34 ~Lp~s~Kd--kd~r~kEe~hkllNGn~vd~~D~rqr~q~nGk~~ed~ 78 (89)
+++|..+| .|...++|..+++..++. ..--|++-+||+++-..
T Consensus 30 ~V~~~e~DVs~~~~~~~EL~~~~g~~~~--~~tvPqVFI~G~~IGG~ 74 (147)
T cd03031 30 RVKFDERDVSMDSGFREELRELLGAELK--AVSLPRVFVDGRYLGGA 74 (147)
T ss_pred CCcEEEEECCCCHHHHHHHHHHhCCCCC--CCCCCEEEECCEEEecH
Confidence 35566665 355668899998876432 23468999999997543
No 10
>PF00462 Glutaredoxin: Glutaredoxin; InterPro: IPR002109 Glutaredoxins [, , ], also known as thioltransferases (disulphide reductases, are small proteins of approximately one hundred amino-acid residues which utilise glutathione and NADPH as cofactors. Oxidized glutathione is regenerated by glutathione reductase. Together these components compose the glutathione system []. Glutaredoxin functions as an electron carrier in the glutathione-dependent synthesis of deoxyribonucleotides by the enzyme ribonucleotide reductase. Like thioredoxin, which functions in a similar way, glutaredoxin possesses an active centre disulphide bond []. It exists in either a reduced or an oxidized form where the two cysteine residues are linked in an intramolecular disulphide bond. Glutaredoxin has been sequenced in a variety of species. On the basis of extensive sequence similarity, it has been proposed [] that Vaccinia virus protein O2L is most probably a glutaredoxin. Finally, it must be noted that Bacteriophage T4 thioredoxin seems also to be evolutionary related. In position 5 of the pattern T4 thioredoxin has Val instead of Pro. This entry represents Glutaredoxin.; GO: 0009055 electron carrier activity, 0015035 protein disulfide oxidoreductase activity, 0045454 cell redox homeostasis; PDB: 1QFN_A 1GRX_A 1EGO_A 1EGR_A 3RHC_A 3RHB_A 3IPZ_A 1NHO_A 3GX8_A 3D5J_A ....
Probab=30.27 E-value=35 Score=19.36 Aligned_cols=36 Identities=22% Similarity=0.413 Sum_probs=23.0
Q ss_pred hhceeeec--ccccchhhhhhcCCCCCCCCccchhhhhccCeec
Q 034631 34 GLVLSSKD--KEARTKEENHKLLNGNSVDPADWRQRTQVNGKVL 75 (89)
Q Consensus 34 ~Lp~s~Kd--kd~r~kEe~hkllNGn~vd~~D~rqr~q~nGk~~ 75 (89)
++++..+| +|...+++..++. |+..= |.+.+||+++
T Consensus 23 ~i~y~~~dv~~~~~~~~~l~~~~-g~~~~-----P~v~i~g~~I 60 (60)
T PF00462_consen 23 GIPYEEVDVDEDEEAREELKELS-GVRTV-----PQVFIDGKFI 60 (60)
T ss_dssp TBEEEEEEGGGSHHHHHHHHHHH-SSSSS-----SEEEETTEEE
T ss_pred CCeeeEcccccchhHHHHHHHHc-CCCcc-----CEEEECCEEC
Confidence 57788887 4445677777776 43322 4577788764
No 11
>smart00213 UBQ Ubiquitin homologues. Ubiquitin-mediated proteolysis is involved in the regulated turnover of proteins required for controlling cell cycle progression
Probab=29.65 E-value=20 Score=19.90 Aligned_cols=21 Identities=48% Similarity=0.553 Sum_probs=16.9
Q ss_pred hhhhhccCeeccCCccccccc
Q 034631 65 RQRTQVNGKVLEDGNVHADNA 85 (89)
Q Consensus 65 rqr~q~nGk~~ed~n~~~d~~ 85 (89)
+||...+|+.++|..+++|..
T Consensus 39 ~~~L~~~g~~L~d~~tL~~~~ 59 (64)
T smart00213 39 QQRLIYKGKVLEDDRTLADYN 59 (64)
T ss_pred HEEEEECCEECCCCCCHHHcC
Confidence 699999999999877666643
No 12
>cd01809 Scythe_N Ubiquitin-like domain of Scythe protein. Scythe protein (also known as Bat3) is an apoptotic regulator that is highly conserved in eukaryotes and contains a ubiquitin-like domain near its N-terminus. Scythe binds reaper, a potent apoptotic inducer, and Scythe/Reaper are thought to signal apoptosis, in part through regulating the folding and activity of apoptotic signaling molecules.
Probab=29.46 E-value=20 Score=20.76 Aligned_cols=35 Identities=26% Similarity=0.444 Sum_probs=23.1
Q ss_pred cchhhhhhcCCCCCCCCccchhhhhccCeeccCCcccccc
Q 034631 45 RTKEENHKLLNGNSVDPADWRQRTQVNGKVLEDGNVHADN 84 (89)
Q Consensus 45 r~kEe~hkllNGn~vd~~D~rqr~q~nGk~~ed~n~~~d~ 84 (89)
..|+..++..+ + |++ +||...+|+.++|...++|.
T Consensus 25 ~lK~~i~~~~g---i-~~~-~q~L~~~g~~L~d~~~L~~~ 59 (72)
T cd01809 25 DLKEKIAEEVG---I-PVE-QQRLIYSGRVLKDDETLSEY 59 (72)
T ss_pred HHHHHHHHHHC---c-CHH-HeEEEECCEECCCcCcHHHC
Confidence 34444544432 3 444 79999999999998766653
No 13
>cd01810 ISG15_repeat2 ISG15 ubiquitin-like protein, second repeat of 2. ISG15 is a ubiquitin-like protein containing two ubiquitin homology domains and becomes conjugated to a variety of proteins when cells are treated with type I interferon or lipopolysaccharide. Although ISG15 has properties similar to those of other ubiquitin-like molecules, it is a unique member of the ubiquitin-like superfamily, whose expression and conjugation to target proteins are tightly regulated by specific signaling pathways, indicating it may have specialized functions in the immune system.
Probab=29.46 E-value=20 Score=21.73 Aligned_cols=20 Identities=15% Similarity=0.240 Sum_probs=16.4
Q ss_pred hhhhhccCeeccCCcccccc
Q 034631 65 RQRTQVNGKVLEDGNVHADN 84 (89)
Q Consensus 65 rqr~q~nGk~~ed~n~~~d~ 84 (89)
+||..-+||+++|..+++|.
T Consensus 38 ~q~L~~~G~~L~D~~tL~~~ 57 (74)
T cd01810 38 QFWLSFEGRPMEDEHPLGEY 57 (74)
T ss_pred HeEEEECCEECCCCCCHHHc
Confidence 57888999999999866664
No 14
>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=27.95 E-value=26 Score=22.67 Aligned_cols=20 Identities=45% Similarity=0.753 Sum_probs=14.8
Q ss_pred hhhhhhcCC-CCCCCCccchhhh
Q 034631 47 KEENHKLLN-GNSVDPADWRQRT 68 (89)
Q Consensus 47 kEe~hkllN-Gn~vd~~D~rqr~ 68 (89)
+||..|||| || -..|||+=+
T Consensus 2 ~~~v~~ll~~~n--lG~dW~~LA 22 (77)
T cd08311 2 QEEVEKLLESGR--PGRDWRSLA 22 (77)
T ss_pred hHHHHHHHhCCC--CccCHHHHH
Confidence 689999999 54 356888643
No 15
>cd01807 GDX_N ubiquitin-like domain of GDX. GDX contains an N-terminal ubiquitin-like domain as well as an uncharacterized c-terminal domain. The function of GDX is unknown.
Probab=25.81 E-value=25 Score=21.23 Aligned_cols=21 Identities=33% Similarity=0.446 Sum_probs=17.2
Q ss_pred hhhhhccCeeccCCccccccc
Q 034631 65 RQRTQVNGKVLEDGNVHADNA 85 (89)
Q Consensus 65 rqr~q~nGk~~ed~n~~~d~~ 85 (89)
.||.-.+||.++|..+++|..
T Consensus 40 ~q~L~~~G~~L~d~~~L~~~~ 60 (74)
T cd01807 40 QQRLLFKGKALADDKRLSDYS 60 (74)
T ss_pred HeEEEECCEECCCCCCHHHCC
Confidence 488899999999988777643
No 16
>cd01797 NIRF_N amino-terminal ubiquitin-like domain of Np95 and NIRF. NIRF_N This CD represents the amino-terminal ubiquitin-like domain of a family of nuclear proteins that includes Np95 and NIRF (Np95/ICBP90-like RING finger) protein. Both Np95 and NIRF have a domain architecture consisting of a ubiquitin-like domain, a PHD finger, a YDG/SRA domain, Rb-binding motifs and a RING finger domain. Both Np95 and NIRF are ubiquitin ligases that ubiquitinate PCNP (PEST-containing nuclear proteins). While Np95 is capable of binding histones, NIRF is involved in cell cycle regulation.
Probab=24.64 E-value=28 Score=21.94 Aligned_cols=21 Identities=38% Similarity=0.359 Sum_probs=17.2
Q ss_pred chhhhhccCeeccCCcccccc
Q 034631 64 WRQRTQVNGKVLEDGNVHADN 84 (89)
Q Consensus 64 ~rqr~q~nGk~~ed~n~~~d~ 84 (89)
-.||..-+||+++|..+++|.
T Consensus 41 ~~QrLi~~Gk~L~D~~tL~~y 61 (78)
T cd01797 41 ECQRLFYRGKQMEDGHTLFDY 61 (78)
T ss_pred HHeEEEeCCEECCCCCCHHHc
Confidence 368899999999998876663
No 17
>cd01793 Fubi Fubi ubiquitin-like protein. Fubi is a ubiquitin-like protein encoded by the fau gene which has an N-terminal ubiquitin-like domain (also referred to as FUBI) fused to the ribosomal protein S30. Fubi is thought to be a tumor suppressor protein and the FUBI domain may act as a substitute or an inhibitor of ubiquitin or one of ubiquitin's close relatives UCRP, FAT10, and Nedd8.
Probab=24.60 E-value=29 Score=21.05 Aligned_cols=21 Identities=24% Similarity=0.199 Sum_probs=17.3
Q ss_pred hhhhhccCeeccCCccccccc
Q 034631 65 RQRTQVNGKVLEDGNVHADNA 85 (89)
Q Consensus 65 rqr~q~nGk~~ed~n~~~d~~ 85 (89)
.||.-.+||.++|..+++|..
T Consensus 38 ~q~Li~~Gk~L~D~~tL~~~~ 58 (74)
T cd01793 38 DQVLLLAGVPLEDDATLGQCG 58 (74)
T ss_pred HEEEEECCeECCCCCCHHHcC
Confidence 388889999999999777743
No 18
>cd01803 Ubiquitin Ubiquitin. Ubiquitin (includes Ubq/RPL40e and Ubq/RPS27a fusions as well as homopolymeric multiubiquitin protein chains)
Probab=23.81 E-value=30 Score=20.21 Aligned_cols=20 Identities=45% Similarity=0.592 Sum_probs=16.5
Q ss_pred hhhhhccCeeccCCcccccc
Q 034631 65 RQRTQVNGKVLEDGNVHADN 84 (89)
Q Consensus 65 rqr~q~nGk~~ed~n~~~d~ 84 (89)
+||...+|+.++|...++|.
T Consensus 40 ~q~L~~~g~~L~d~~~L~~~ 59 (76)
T cd01803 40 QQRLIFAGKQLEDGRTLSDY 59 (76)
T ss_pred HeEEEECCEECCCCCcHHHc
Confidence 78999999999998866663
No 19
>cd01792 ISG15_repeat1 ISG15 ubiquitin-like protein, first repeat of 2. ISG15 is a ubiquitin-like protein containing two ubiquitin homology domains that becomes conjugated to a variety of proteins when cells are treated with type I interferon or lipopolysaccharide. Although ISG15 has properties similar to those of other ubiquitin-like molecules, it is a unique member of the ubiquitin-like superfamily, whose expression and conjugation to target proteins are tightly regulated by specific signaling pathways, indicating it may have specialized functions in the immune system.
Probab=23.66 E-value=25 Score=21.75 Aligned_cols=21 Identities=29% Similarity=0.376 Sum_probs=16.8
Q ss_pred chhhh--hccCeeccCCcccccc
Q 034631 64 WRQRT--QVNGKVLEDGNVHADN 84 (89)
Q Consensus 64 ~rqr~--q~nGk~~ed~n~~~d~ 84 (89)
-|||. .-+|+.++|..+++|.
T Consensus 41 ~~qrL~~~~~G~~L~D~~tL~~~ 63 (80)
T cd01792 41 FQQRLAHLDSREVLQDGVPLVSQ 63 (80)
T ss_pred HHEEEEeccCCCCCCCCCCHHHc
Confidence 57888 6789999998876764
No 20
>KOG3220 consensus Similar to bacterial dephospho-CoA kinase [Coenzyme transport and metabolism]
Probab=21.43 E-value=34 Score=27.21 Aligned_cols=66 Identities=21% Similarity=0.202 Sum_probs=41.2
Q ss_pred chhhhhccc-------ceeeeehhhHHHHHHh-HHHHhhhhceeeecccccchhhhhhcCCCCCCCCccchhh--hhccC
Q 034631 3 LYIGREASK-------RICAETTTEINLLVDN-WKYLLAGLVLSSKDKEARTKEENHKLLNGNSVDPADWRQR--TQVNG 72 (89)
Q Consensus 3 ~Yi~ReasK-------Ri~~E~tvEl~LL~ek-WklLLa~Lp~s~Kdkd~r~kEe~hkllNGn~vd~~D~rqr--~q~nG 72 (89)
.+|.+|.-| |...=..+++|||.|- |.-+..-.++-+-|+|- +..+|+--|....+|-++| .||-+
T Consensus 89 P~Ir~em~ke~~~~~l~G~r~ivlDiPLLFE~~~~~~~~~tvvV~cd~~~----Ql~Rl~~Rd~lse~dAe~Rl~sQmp~ 164 (225)
T KOG3220|consen 89 PAIRKEMFKEILKLLLRGYRVIVLDIPLLFEAKLLKICHKTVVVTCDEEL----QLERLVERDELSEEDAENRLQSQMPL 164 (225)
T ss_pred HHHHHHHHHHHHHHHhcCCeEEEEechHHHHHhHHhheeeEEEEEECcHH----HHHHHHHhccccHHHHHHHHHhcCCH
Confidence 456666665 4444456899999997 66666666777777554 4556664454555555555 45543
No 21
>cd02128 PA_TfR PA_TfR: Protease-associated domain containing proteins like transferrin receptor (TfR). This group contains various PA domain-containing proteins similar to human TfR1 and TfR2. TfR1 and TfR2 are type II membrane proteins, belonging to the peptidase M28 family. TfR1 is homodimeric, widely expressed, and a key player in the uptake of iron-loaded transferrin (Tf) into cells. The TfR1 homodimer binds two molecules of Tf and this complex is internalized. In addition to its role in iron uptake, TfR1 may participate in cell growth and proliferation. TfR2 also binds Tf but with a significantly lower affinity than does TfR1. TfR2 is expressed chiefly in hepatocytes, hematopoietic cells, and duodenal crypt cells; its expression overlaps with that of hereditary hemochromatosis protein (HFE). TfR2 is involved in iron homeostasis. HFE and TfR2 interact in cells. By one model for serum iron sensing, at low or basal iron concentrations, HFE and TFR1 form a complex at the plasma membra
Probab=20.45 E-value=37 Score=25.48 Aligned_cols=29 Identities=14% Similarity=0.391 Sum_probs=22.3
Q ss_pred hhhhceeeecccccchhhhhhcCCCCCCCCccchh
Q 034631 32 LAGLVLSSKDKEARTKEENHKLLNGNSVDPADWRQ 66 (89)
Q Consensus 32 La~Lp~s~Kdkd~r~kEe~hkllNGn~vd~~D~rq 66 (89)
+..+|+|++| -.++-+.|+|..+ |.||+-
T Consensus 136 IPs~PIS~~d-----a~~lL~~l~G~~~-p~~w~g 164 (183)
T cd02128 136 IPAQTISAAA-----AAKLLSKMGGPVC-PSGWKG 164 (183)
T ss_pred CCEeccCHHH-----HHHHHHHcCCCCC-CccccC
Confidence 5568889886 3477888999866 889983
Done!