Query psy2580
Match_columns 65
No_of_seqs 40 out of 42
Neff 2.0
Searched_HMMs 46136
Date Fri Aug 16 19:48:13 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy2580.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/2580hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG2723|consensus 99.0 1.7E-10 3.6E-15 83.6 0.8 34 28-61 2-35 (221)
2 PF02214 BTB_2: BTB/POZ domain 98.6 4.3E-08 9.4E-13 58.2 2.6 26 37-62 1-26 (94)
3 KOG2716|consensus 97.3 0.00014 3E-09 53.2 2.3 24 33-56 3-26 (230)
4 KOG2714|consensus 95.8 0.0074 1.6E-07 48.8 2.8 29 32-60 8-37 (465)
5 KOG1665|consensus 95.3 0.0065 1.4E-07 47.0 0.8 30 32-61 6-36 (302)
6 KOG3713|consensus 93.4 0.053 1.1E-06 43.8 2.1 28 34-61 30-57 (477)
7 KOG2715|consensus 86.4 0.32 6.8E-06 36.3 0.9 26 34-59 20-45 (210)
8 KOG1545|consensus 74.4 3.7 8E-05 33.9 3.2 31 31-61 57-87 (507)
9 PF14008 Metallophos_C: Iron/z 48.0 12 0.00026 21.3 1.3 10 34-43 1-10 (62)
10 smart00225 BTB Broad-Complex, 47.7 26 0.00056 18.2 2.5 21 37-57 2-22 (90)
11 PHA03051 Hypothetical protein; 46.6 10 0.00022 25.1 0.9 11 38-48 63-73 (88)
12 KOG4390|consensus 46.0 16 0.00035 30.9 2.1 31 30-60 35-65 (632)
13 KOG0680|consensus 42.6 9 0.00019 31.0 0.2 35 24-58 167-201 (400)
14 PF00891 Methyltransf_2: O-met 42.4 11 0.00023 25.2 0.6 25 37-61 103-127 (241)
15 PF07758 DUF1614: Protein of u 39.3 20 0.00044 25.3 1.6 30 20-49 25-55 (176)
16 PF13174 TPR_6: Tetratricopept 37.5 16 0.00035 16.7 0.6 7 53-59 27-33 (33)
17 PF02825 WWE: WWE domain; Int 36.0 23 0.0005 19.8 1.2 22 36-57 40-61 (72)
18 PF05456 eIF_4EBP: Eukaryotic 35.4 12 0.00027 25.2 0.0 11 41-51 34-44 (116)
19 PF12415 rpo132: Poxvirus DNA 35.2 14 0.00029 20.5 0.1 7 59-65 5-11 (33)
20 PF05164 ZapA: Cell division p 34.3 38 0.00083 19.4 2.0 12 37-48 2-13 (89)
21 TIGR01624 LRP1_Cterm LRP1 C-te 32.3 32 0.0007 20.8 1.5 10 38-47 33-42 (50)
22 PF08784 RPA_C: Replication pr 30.7 24 0.00052 21.2 0.7 7 42-48 92-98 (102)
23 PF03990 DUF348: Domain of unk 27.9 61 0.0013 17.3 2.0 12 36-47 1-12 (43)
24 PF05142 DUF702: Domain of unk 27.6 38 0.00082 24.2 1.4 10 38-47 134-143 (154)
25 PF15097 Ig_J_chain: Immunoglo 23.1 42 0.00092 23.7 0.9 35 28-63 65-99 (134)
26 KOG0149|consensus 23.0 47 0.001 25.4 1.2 20 37-56 13-32 (247)
27 PF08002 DUF1697: Protein of u 21.7 35 0.00076 22.4 0.3 6 39-44 11-16 (137)
28 PF08922 DUF1905: Domain of un 20.8 73 0.0016 19.2 1.5 18 34-51 32-49 (80)
29 cd02113 bact_SoxC_Moco bacteri 20.4 1.1E+02 0.0025 23.1 2.8 48 10-62 9-59 (326)
No 1
>KOG2723|consensus
Probab=98.95 E-value=1.7e-10 Score=83.62 Aligned_cols=34 Identities=41% Similarity=0.566 Sum_probs=31.1
Q ss_pred cccccCCCcEEEeecceeEechhHHHhhccccce
Q psy2580 28 AAASRYTAPVHIDVGGTIYTSSLETLTKLYLLEI 61 (65)
Q Consensus 28 A~~~~~~apVhlnVGG~iYTTSLsTLtkyPds~l 61 (65)
+.+..++++|+|||||++|||+|+||++||||.|
T Consensus 2 ~~~~~~~~~v~lnvGG~~ytt~l~tL~~~~ds~L 35 (221)
T KOG2723|consen 2 MLTSEYPDVVELNVGGAIYTTRLGTLTKFPDSML 35 (221)
T ss_pred CcccccCCceeeccCCeEEEeeccceeechHHHH
Confidence 3456899999999999999999999999999976
No 2
>PF02214 BTB_2: BTB/POZ domain; InterPro: IPR003131 Potassium channels are the most diverse group of the ion channel family [, ]. They are important in shaping the action potential, and in neuronal excitability and plasticity []. The potassium channel family is composed of several functionally distinct isoforms, which can be broadly separated into 2 groups []: the practically non-inactivating 'delayed' group and the rapidly inactivating 'transient' group. These are all highly similar proteins, with only small amino acid changes causing the diversity of the voltage-dependent gating mechanism, channel conductance and toxin binding properties. Each type of K+ channel is activated by different signals and conditions depending on their type of regulation: some open in response to depolarisation of the plasma membrane; others in response to hyperpolarisation or an increase in intracellular calcium concentration; some can be regulated by binding of a transmitter, together with intracellular kinases; while others are regulated by GTP-binding proteins or other second messengers []. In eukaryotic cells, K+ channels are involved in neural signalling and generation of the cardiac rhythm, act as effectors in signal transduction pathways involving G protein-coupled receptors (GPCRs) and may have a role in target cell lysis by cytotoxic T-lymphocytes []. In prokaryotic cells, they play a role in the maintenance of ionic homeostasis []. All K+ channels discovered so far possess a core of alpha subunits, each comprising either one or two copies of a highly conserved pore loop domain (P-domain). The P-domain contains the sequence (T/SxxTxGxG), which has been termed the K+ selectivity sequence. In families that contain one P-domain, four subunits assemble to form a selective pathway for K+ across the membrane. However, it remains unclear how the 2 P-domain subunits assemble to form a selective pore. The functional diversity of these families can arise through homo- or hetero-associations of alpha subunits or association with auxiliary cytoplasmic beta subunits. K+ channel subunits containing one pore domain can be assigned into one of two superfamilies: those that possess six transmembrane (TM) domains and those that possess only two TM domains. The six TM domain superfamily can be further subdivided into conserved gene families: the voltage-gated (Kv) channels; the KCNQ channels (originally known as KvLQT channels); the EAG-like K+ channels; and three types of calcium (Ca)-activated K+ channels (BK, IK and SK) []. The 2TM domain family comprises inward-rectifying K+ channels. In addition, there are K+ channel alpha-subunits that possess two P-domains. These are usually highly regulated K+ selective leak channels. The Kv family can be divided into several subfamilies on the basis of sequence similarity and function. Four of these subfamilies, Kv1 (Shaker), Kv2 (Shab), Kv3 (Shaw) and Kv4 (Shal), consist of pore-forming alpha subunits that associate with different types of beta subunit. Each alpha subunit comprises six hydrophobic TM domains with a P-domain between the fifth and sixth, which partially resides in the membrane. The fourth TM domain has positively charged residues at every third residue and acts as a voltage sensor, which triggers the conformational change that opens the channel pore in response to a displacement in membrane potential []. More recently, 4 new electrically-silent alpha subunits have been cloned: Kv5 (KCNF), Kv6 (KCNG), Kv8 and Kv9 (KCNS). These subunits do not themselves possess any functional activity, but appear to form heteromeric channels with Kv2 subunits, and thus modulate Shab channel activity []. When highly expressed, they inhibit channel activity, but at lower levels show more specific modulatory actions. The N-terminal, cytoplasmic tetramerization domain (T1) of voltage-gated potassium channels encodes molecular determinants for subfamily-specific assembly of alpha-subunits into functional tetrameric channels []. This domain is found in a subset of a larger group of proteins that contain the BTB/POZ domain.; GO: 0005249 voltage-gated potassium channel activity, 0006813 potassium ion transport, 0008076 voltage-gated potassium channel complex, 0016020 membrane; PDB: 1NN7_A 3KVT_A 1EXB_E 1QDV_A 1DSX_E 1QDW_F 3LUT_B 3LNM_B 2A79_B 3DRY_C ....
Probab=98.57 E-value=4.3e-08 Score=58.23 Aligned_cols=26 Identities=38% Similarity=0.537 Sum_probs=24.3
Q ss_pred EEEeecceeEechhHHHhhcccccee
Q psy2580 37 VHIDVGGTIYTSSLETLTKLYLLEIC 62 (65)
Q Consensus 37 VhlnVGG~iYTTSLsTLtkyPds~l~ 62 (65)
|+|||||++|.|+.+||+++|+|.++
T Consensus 1 V~lNVGG~~f~~~~~tL~~~~~s~l~ 26 (94)
T PF02214_consen 1 VRLNVGGTIFETSRSTLTRYPDSLLA 26 (94)
T ss_dssp EEEEETTEEEEEEHHHHHTSTTSTTT
T ss_pred CEEEECCEEEEEcHHHHhhCCCChhh
Confidence 78999999999999999999999764
No 3
>KOG2716|consensus
Probab=97.33 E-value=0.00014 Score=53.23 Aligned_cols=24 Identities=46% Similarity=0.760 Sum_probs=21.7
Q ss_pred CCCcEEEeecceeEechhHHHhhc
Q psy2580 33 YTAPVHIDVGGTIYTSSLETLTKL 56 (65)
Q Consensus 33 ~~apVhlnVGG~iYTTSLsTLtky 56 (65)
+...|.|||||++|.||.+||||+
T Consensus 3 ~~~~vkLnvGG~~F~Tsk~TLtk~ 26 (230)
T KOG2716|consen 3 MSETVKLNVGGTIFKTSKSTLTKF 26 (230)
T ss_pred ccceEEEecCCeEEEeehhhhhhh
Confidence 456789999999999999999995
No 4
>KOG2714|consensus
Probab=95.82 E-value=0.0074 Score=48.83 Aligned_cols=29 Identities=31% Similarity=0.339 Sum_probs=25.5
Q ss_pred cCCCcEEEeecceeEechhHHHhhcc-ccc
Q psy2580 32 RYTAPVHIDVGGTIYTSSLETLTKLY-LLE 60 (65)
Q Consensus 32 ~~~apVhlnVGG~iYTTSLsTLtkyP-ds~ 60 (65)
.....|+|||||.||.||-.||+-=| ||=
T Consensus 8 ~~~~~V~lNVGGriF~Ts~qTL~~~~~DSf 37 (465)
T KOG2714|consen 8 SSGDRVKLNVGGRIFETSAQTLTWIPRDSF 37 (465)
T ss_pred CCCceEEEecCceEEecchhhhhcCCcchH
Confidence 34688999999999999999999888 763
No 5
>KOG1665|consensus
Probab=95.31 E-value=0.0065 Score=46.99 Aligned_cols=30 Identities=17% Similarity=0.389 Sum_probs=25.9
Q ss_pred cCCCcEEEeecceeEechhHHHh-hccccce
Q psy2580 32 RYTAPVHIDVGGTIYTSSLETLT-KLYLLEI 61 (65)
Q Consensus 32 ~~~apVhlnVGG~iYTTSLsTLt-kyPds~l 61 (65)
..+.-|.||+||..|+|+++||+ |=|||-|
T Consensus 6 ~~~~~vrlnigGk~f~TTidTlv~rEPDSML 36 (302)
T KOG1665|consen 6 NLSSMVRLNIGGKKFCTTIDTLVIREPDSML 36 (302)
T ss_pred ChhhhheeecCCeEEEEeehhhcccCchHHH
Confidence 34556999999999999999998 8899865
No 6
>KOG3713|consensus
Probab=93.41 E-value=0.053 Score=43.82 Aligned_cols=28 Identities=29% Similarity=0.376 Sum_probs=25.3
Q ss_pred CCcEEEeecceeEechhHHHhhccccce
Q psy2580 34 TAPVHIDVGGTIYTSSLETLTKLYLLEI 61 (65)
Q Consensus 34 ~apVhlnVGG~iYTTSLsTLtkyPds~l 61 (65)
..-|.|||||+-|-+.-+||.|+|..+|
T Consensus 30 ~~~i~lNVGG~r~~l~~~tL~~~P~TRL 57 (477)
T KOG3713|consen 30 DRRVRLNVGGTRHELYWSTLKRFPLTRL 57 (477)
T ss_pred CcEEEEeeCCeeEEehHHHHhhCchhHH
Confidence 3479999999999999999999998776
No 7
>KOG2715|consensus
Probab=86.43 E-value=0.32 Score=36.33 Aligned_cols=26 Identities=27% Similarity=0.374 Sum_probs=23.2
Q ss_pred CCcEEEeecceeEechhHHHhhcccc
Q psy2580 34 TAPVHIDVGGTIYTSSLETLTKLYLL 59 (65)
Q Consensus 34 ~apVhlnVGG~iYTTSLsTLtkyPds 59 (65)
+.-|.|||||+.|-|.-.||-|=|.|
T Consensus 20 s~wVRlNVGGt~f~TtktTl~rdp~s 45 (210)
T KOG2715|consen 20 SLWVRLNVGGTVFLTTKTTLPRDPKS 45 (210)
T ss_pred eEEEEEecCCEEEEeeeeccccCcHH
Confidence 57899999999999999999988843
No 8
>KOG1545|consensus
Probab=74.44 E-value=3.7 Score=33.93 Aligned_cols=31 Identities=23% Similarity=0.294 Sum_probs=26.9
Q ss_pred ccCCCcEEEeecceeEechhHHHhhccccce
Q psy2580 31 SRYTAPVHIDVGGTIYTSSLETLTKLYLLEI 61 (65)
Q Consensus 31 ~~~~apVhlnVGG~iYTTSLsTLtkyPds~l 61 (65)
..-..-|+|||-|--|-|-|.||.+||+.-|
T Consensus 57 ~~~~ervvINisGlRFeTql~TL~qfP~TLL 87 (507)
T KOG1545|consen 57 SCCCERVVINISGLRFETQLKTLAQFPNTLL 87 (507)
T ss_pred cccccEEEEEeccceehHHHHHHhhCchhhc
Confidence 3345789999999999999999999999754
No 9
>PF14008 Metallophos_C: Iron/zinc purple acid phosphatase-like protein C; PDB: 3KBP_B 1KBP_B 4KBP_C 2QFP_B 2QFR_A 1XZW_B.
Probab=48.03 E-value=12 Score=21.27 Aligned_cols=10 Identities=70% Similarity=1.036 Sum_probs=6.1
Q ss_pred CCcEEEeecc
Q psy2580 34 TAPVHIDVGG 43 (65)
Q Consensus 34 ~apVhlnVGG 43 (65)
.|||||-+|+
T Consensus 1 kapVhiv~G~ 10 (62)
T PF14008_consen 1 KAPVHIVVGA 10 (62)
T ss_dssp TS-EEEEE--
T ss_pred CCCEEEEECc
Confidence 4899999974
No 10
>smart00225 BTB Broad-Complex, Tramtrack and Bric a brac. Domain in Broad-Complex, Tramtrack and Bric a brac. Also known as POZ (poxvirus and zinc finger) domain. Known to be a protein-protein interaction motif found at the N-termini of several C2H2-type transcription factors as well as Shaw-type potassium channels. Known structure reveals a tightly intertwined dimer formed via interactions between N-terminal strand and helix structures. However in a subset of BTB/POZ domains, these two secondary structures appear to be missing. Be aware SMART predicts BTB/POZ domains without the beta1- and alpha1-secondary structures.
Probab=47.71 E-value=26 Score=18.20 Aligned_cols=21 Identities=24% Similarity=0.357 Sum_probs=17.8
Q ss_pred EEEeecceeEechhHHHhhcc
Q psy2580 37 VHIDVGGTIYTSSLETLTKLY 57 (65)
Q Consensus 37 VhlnVGG~iYTTSLsTLtkyP 57 (65)
|.|.|||..|-.....|....
T Consensus 2 v~i~v~~~~~~~h~~iL~~~s 22 (90)
T smart00225 2 VTLVVGGKKFKAHKAVLAACS 22 (90)
T ss_pred eEEEECCEEEehHHHHHhhcC
Confidence 569999999999888888764
No 11
>PHA03051 Hypothetical protein; Provisional
Probab=46.57 E-value=10 Score=25.11 Aligned_cols=11 Identities=45% Similarity=0.863 Sum_probs=9.4
Q ss_pred EEeecceeEec
Q psy2580 38 HIDVGGTIYTS 48 (65)
Q Consensus 38 hlnVGG~iYTT 48 (65)
-||.|||.||+
T Consensus 63 cin~g~~hf~s 73 (88)
T PHA03051 63 CINIGGHHFTS 73 (88)
T ss_pred eEEecCceech
Confidence 36899999987
No 12
>KOG4390|consensus
Probab=45.98 E-value=16 Score=30.85 Aligned_cols=31 Identities=19% Similarity=0.171 Sum_probs=27.3
Q ss_pred cccCCCcEEEeecceeEechhHHHhhccccc
Q psy2580 30 ASRYTAPVHIDVGGTIYTSSLETLTKLYLLE 60 (65)
Q Consensus 30 ~~~~~apVhlnVGG~iYTTSLsTLtkyPds~ 60 (65)
..+-.+.+-|||.|.-|-|=-.||.||||--
T Consensus 35 ~~r~De~lvlNvSGrRFeTWknTLeryPdTL 65 (632)
T KOG4390|consen 35 AKRQDELLVLNVSGRRFETWKNTLERYPDTL 65 (632)
T ss_pred hhccCcEEEEeccccchhHHHhHHHhCchhh
Confidence 4457788999999999999999999999964
No 13
>KOG0680|consensus
Probab=42.59 E-value=9 Score=31.04 Aligned_cols=35 Identities=34% Similarity=0.436 Sum_probs=28.1
Q ss_pred CCcccccccCCCcEEEeecceeEechhHHHhhccc
Q psy2580 24 IPCVAAASRYTAPVHIDVGGTIYTSSLETLTKLYL 58 (65)
Q Consensus 24 iP~~A~~~~~~apVhlnVGG~iYTTSLsTLtkyPd 58 (65)
||.+-.-..+.|...|||||...|--|.-+-.|..
T Consensus 167 ip~v~g~~~~qaV~RiDvGGK~LTn~LKE~iSyR~ 201 (400)
T KOG0680|consen 167 IPVVKGIPYYQAVKRIDVGGKALTNLLKETISYRH 201 (400)
T ss_pred ehhhcCcchhhceEEeecchHHHHHHHHHHhhhhh
Confidence 46666666788999999999999998887777754
No 14
>PF00891 Methyltransf_2: O-methyltransferase; InterPro: IPR001077 Methyl transfer from the ubiquitous S-adenosyl-L-methionine (AdoMet) to either nitrogen, oxygen or carbon atoms is frequently employed in diverse organisms ranging from bacteria to plants and mammals. The reaction is catalysed by methyltransferases (Mtases) and modifies DNA, RNA, proteins and small molecules, such as catechol for regulatory purposes. The various aspects of the role of DNA methylation in prokaryotic restriction-modification systems and in a number of cellular processes in eukaryotes including gene regulation and differentiation is well documented. Three classes of DNA Mtases transfer the methyl group from AdoMet to the target base to form either N-6-methyladenine, or N-4-methylcytosine, or C-5- methylcytosine. In C-5-cytosine Mtases, ten conserved motifs are arranged in the same order []. Motif I (a glycine-rich or closely related consensus sequence; FAGxGG in M.HhaI []), shared by other AdoMet-Mtases [], is part of the cofactor binding site and motif IV (PCQ) is part of the catalytic site. In contrast, sequence comparison among N-6-adenine and N-4-cytosine Mtases indicated two of the conserved segments [], although more conserved segments may be present. One of them corresponds to motif I in C-5-cytosine Mtases, and the other is named (D/N/S)PP(Y/F). Crystal structures are known for a number of Mtases [, , , ]. The cofactor binding sites are almost identical and the essential catalytic amino acids coincide. The comparable protein folding and the existence of equivalent amino acids in similar secondary and tertiary positions indicate that many (if not all) AdoMet-Mtases have a common catalytic domain structure. This permits tertiary structure prediction of other DNA, RNA, protein, and small-molecule AdoMet-Mtases from their amino acid sequences []. This domain includes a range of O-methyltransferases some of which utilise S-adenosyl methionine as substrate []. In prokaryotes, the major role of DNA methylation is to protect host DNA against degradation by restriction enzymes. In eukaryotes, DNA methylation has been implicated in the control of several cellular processes, including differentiation, gene regulation, and embryonic development. O-methyltransferases have a common catalytic domain structure, which might be universal among S-adenosyl-L-methionine (AdoMet)-dependent methyltransferases []. Comparative analysis of the predicted amino acid sequences of a number of plant O-methyltransferase cDNA clones show that they share some 32-71% sequence identity, and can be grouped according to the different compounds they utilise as substrates [].; GO: 0008171 O-methyltransferase activity; PDB: 1FPQ_A 1FP1_D 3P9K_B 3P9I_D 3P9C_A 3I53_A 3I5U_A 3I64_A 3I58_A 1ZG3_A ....
Probab=42.38 E-value=11 Score=25.22 Aligned_cols=25 Identities=20% Similarity=0.145 Sum_probs=20.8
Q ss_pred EEEeecceeEechhHHHhhccccce
Q psy2580 37 VHIDVGGTIYTSSLETLTKLYLLEI 61 (65)
Q Consensus 37 VhlnVGG~iYTTSLsTLtkyPds~l 61 (65)
--+||||-.=.-+.+-+.+||+++.
T Consensus 103 ~vvDvGGG~G~~~~~l~~~~P~l~~ 127 (241)
T PF00891_consen 103 TVVDVGGGSGHFAIALARAYPNLRA 127 (241)
T ss_dssp EEEEET-TTSHHHHHHHHHSTTSEE
T ss_pred EEEeccCcchHHHHHHHHHCCCCcc
Confidence 3689999988889999999999874
No 15
>PF07758 DUF1614: Protein of unknown function (DUF1614); InterPro: IPR011672 This is a family of sequences coming from hypothetical proteins found in both bacterial and archaeal species.
Probab=39.29 E-value=20 Score=25.34 Aligned_cols=30 Identities=20% Similarity=0.394 Sum_probs=22.1
Q ss_pred CCCCCCcccc-cccCCCcEEEeecceeEech
Q psy2580 20 KITGIPCVAA-ASRYTAPVHIDVGGTIYTSS 49 (65)
Q Consensus 20 ~~~giP~~A~-~~~~~apVhlnVGG~iYTTS 49 (65)
...|+|..-. ....+..|.+||||.+-=-.
T Consensus 25 ~~~g~~~~~p~~~~~~t~vavNvGG~lIP~~ 55 (176)
T PF07758_consen 25 RFFGMPYPIPVRRSRRTVVAVNVGGALIPVL 55 (176)
T ss_pred eEcceeeeeeeccccceEEEEECcccHHHHH
Confidence 6677776654 67778899999999875433
No 16
>PF13174 TPR_6: Tetratricopeptide repeat; PDB: 3QKY_A 2XEV_A 3URZ_B 2Q7F_A.
Probab=37.45 E-value=16 Score=16.71 Aligned_cols=7 Identities=0% Similarity=-0.169 Sum_probs=4.9
Q ss_pred Hhhcccc
Q psy2580 53 LTKLYLL 59 (65)
Q Consensus 53 LtkyPds 59 (65)
+.+||+|
T Consensus 27 ~~~~P~s 33 (33)
T PF13174_consen 27 IKRYPDS 33 (33)
T ss_dssp HHHSTTS
T ss_pred HHHCcCC
Confidence 5678876
No 17
>PF02825 WWE: WWE domain; InterPro: IPR004170 The WWE domain is named after three of its conserved residues and is predicted to mediate specific protein-protein interactions in ubiquitin and ADP ribose conjugation systems. This domain is found as a tandem repeat at the N-terminal of Deltex, a cytosolic effector of Notch signalling thought to bind the N-terminal of the Notch receptor []. It is also found as an interaction module in protein ubiquination and ADP ribosylation proteins [].; PDB: 2A90_A 1UJR_A 2DK6_A 3V3L_B.
Probab=36.04 E-value=23 Score=19.78 Aligned_cols=22 Identities=23% Similarity=0.611 Sum_probs=18.7
Q ss_pred cEEEeecceeEechhHHHhhcc
Q psy2580 36 PVHIDVGGTIYTSSLETLTKLY 57 (65)
Q Consensus 36 pVhlnVGG~iYTTSLsTLtkyP 57 (65)
.+.|+++|..|+=.+.+++.+-
T Consensus 40 ~~~~~~~~~~Y~IDF~~M~Q~n 61 (72)
T PF02825_consen 40 SCQLSIGGRPYTIDFKSMTQIN 61 (72)
T ss_dssp EEEEEETTEEEEEETTTTEEEE
T ss_pred EEEEEeCCcEEEEEChhcEEEe
Confidence 6789999999999998887653
No 18
>PF05456 eIF_4EBP: Eukaryotic translation initiation factor 4E binding protein (EIF4EBP); InterPro: IPR008606 This family consists of several eukaryotic translation initiation factor 4E binding proteins (EIF4EBP1, -2 and -3). Translation initiation in eukaryotes is mediated by the cap structure (m7GpppN, where N is any nucleotide) present at the 5' end of all cellular mRNAs, except organellar. The cap is recognised by eukaryotic initiation factor 4F (eIF4F), which consists of three polypeptides, including eIF4E, the cap-binding protein subunit. The interaction of the cap with eIF4E facilitates the binding of the ribosome to the mRNA. eIF4E activity is regulated in part by translational repressors, 4E-BP1, 4E-BP2 and 4E-BP3 which bind to it and prevent its assembly into eIF4F [].; GO: 0008190 eukaryotic initiation factor 4E binding, 0045947 negative regulation of translational initiation; PDB: 2JGB_B 2V8Y_F 1WKW_B 3HXG_C 3U7X_D 3M94_C 3M93_C 2V8X_B 3HXI_C 2V8W_B ....
Probab=35.40 E-value=12 Score=25.19 Aligned_cols=11 Identities=27% Similarity=0.703 Sum_probs=0.0
Q ss_pred ecceeEechhH
Q psy2580 41 VGGTIYTSSLE 51 (65)
Q Consensus 41 VGG~iYTTSLs 51 (65)
-||+||.|+-.
T Consensus 34 PGGTlfsTTPG 44 (116)
T PF05456_consen 34 PGGTLFSTTPG 44 (116)
T ss_dssp -----------
T ss_pred CCCceEEeccC
Confidence 69999998753
No 19
>PF12415 rpo132: Poxvirus DNA dependent RNA polymerase; InterPro: IPR024390 All three classes of poxvirus genes - early, intermediate and late - are transcribed by the viral RNA polymerase compex []. This complex is composed of nine distinct subunits which total more than 500kDa in mass. The two largest subunits (147 and 136kDa) are homologous to the largest subunits of eukaryotic and prokaryotic RNA polymerases and, like them, are thought to form a claw-shaped structure whose cleft is the site of template interaction and phosphodiester bond formation. While the smaller subunits of poxvirus RNA polymerase show much less similarity, if any, to the smaller subunits of the eukaryotic and prokaryotic enzymes, it is thought that they may play a similar role in interacting with transcription factors. The 132kDa subunit is the second largest subunit of the poxvirus DNA dependent RNA polymerase and shows structural similarity to the second-largest RNA polymerase subunits of eubacteria, archaebacteria, and eukaryotes.
Probab=35.21 E-value=14 Score=20.53 Aligned_cols=7 Identities=43% Similarity=0.804 Sum_probs=5.7
Q ss_pred cceeecC
Q psy2580 59 LEICYDM 65 (65)
Q Consensus 59 s~l~~~~ 65 (65)
.-|||||
T Consensus 5 ~~Lsydm 11 (33)
T PF12415_consen 5 NSLSYDM 11 (33)
T ss_pred HhhccCC
Confidence 4689998
No 20
>PF05164 ZapA: Cell division protein ZapA; InterPro: IPR007838 This entry a structural domain found in the cell division protein ZapA, as well as in related proteins. This domain has a core structure consisting of two layers alpha/beta, and has a long C-terminal helix that forms dimeric parallel and tetrameric antiparallel coiled coils []. ZapA interacts with FtsZ, where FtsZ is part of a mid-cell cytokinetic structure termed the Z-ring that recruits a hierarchy of fission related proteins early in the bacterial cell cycle. ZapA drives the polymerisation and filament bundling of FtsZ, thereby contributing to the spatio-temporal tuning of the Z-ring.; PDB: 1T3U_B 1W2E_B 3HNW_A.
Probab=34.31 E-value=38 Score=19.40 Aligned_cols=12 Identities=25% Similarity=0.426 Sum_probs=10.3
Q ss_pred EEEeecceeEec
Q psy2580 37 VHIDVGGTIYTS 48 (65)
Q Consensus 37 VhlnVGG~iYTT 48 (65)
|.|+++|.-|+=
T Consensus 2 V~v~I~G~~y~i 13 (89)
T PF05164_consen 2 VKVTILGREYRI 13 (89)
T ss_dssp EEEEETTEEEEE
T ss_pred eEEEECCEEEEe
Confidence 789999999973
No 21
>TIGR01624 LRP1_Cterm LRP1 C-terminal domain. This model represents a tightly conserved small domain found in LRP1 and related plant proteins. This family also contains a well-conserved putative zinc finger domain (TIGR01623). The rest of the sequence of most members consists of highly divergent, low-complexity sequence.
Probab=32.34 E-value=32 Score=20.81 Aligned_cols=10 Identities=20% Similarity=0.903 Sum_probs=8.0
Q ss_pred EEeecceeEe
Q psy2580 38 HIDVGGTIYT 47 (65)
Q Consensus 38 hlnVGG~iYT 47 (65)
.+|.|||+|-
T Consensus 33 ~V~IgGHvFk 42 (50)
T TIGR01624 33 TVTIGGHVFK 42 (50)
T ss_pred EEEECceEEe
Confidence 5678999984
No 22
>PF08784 RPA_C: Replication protein A C terminal; InterPro: IPR014892 This protein corresponds to the C-terminal of the single stranded DNA binding protein RPA (replication protein A). RPA is involved in many DNA metabolic pathways including DNA replication, DNA repair, recombination, cell cycle and DNA damage checkpoints. ; PDB: 1QUQ_C 2PQA_C 3KDF_B 2Z6K_B 2PI2_B 1L1O_E 1DPU_A 1Z1D_A.
Probab=30.66 E-value=24 Score=21.21 Aligned_cols=7 Identities=43% Similarity=0.966 Sum_probs=4.7
Q ss_pred cceeEec
Q psy2580 42 GGTIYTS 48 (65)
Q Consensus 42 GG~iYTT 48 (65)
-|+||||
T Consensus 92 eG~IYsT 98 (102)
T PF08784_consen 92 EGHIYST 98 (102)
T ss_dssp TTSEEES
T ss_pred CCeEecc
Confidence 5677766
No 23
>PF03990 DUF348: Domain of unknown function (DUF348) ; InterPro: IPR007137 This domain normally occurs as tandem repeats; however it is found as a single copy in the Saccharomyces cerevisiae (Baker's yeast) DNA-binding nuclear protein YCR593 (P25357 from SWISSPROT).
Probab=27.94 E-value=61 Score=17.35 Aligned_cols=12 Identities=42% Similarity=0.603 Sum_probs=9.6
Q ss_pred cEEEeecceeEe
Q psy2580 36 PVHIDVGGTIYT 47 (65)
Q Consensus 36 pVhlnVGG~iYT 47 (65)
||+|.++|.-.+
T Consensus 1 ~Vtv~~dG~~~~ 12 (43)
T PF03990_consen 1 PVTVTVDGKEKT 12 (43)
T ss_pred CEEEEECCEEEE
Confidence 699999997653
No 24
>PF05142 DUF702: Domain of unknown function (DUF702) ; InterPro: IPR007818 This is a family of plant proteins of unknown function.
Probab=27.63 E-value=38 Score=24.15 Aligned_cols=10 Identities=20% Similarity=0.959 Sum_probs=7.9
Q ss_pred EEeecceeEe
Q psy2580 38 HIDVGGTIYT 47 (65)
Q Consensus 38 hlnVGG~iYT 47 (65)
.+|.|||+|-
T Consensus 134 aV~IGGHVFK 143 (154)
T PF05142_consen 134 AVNIGGHVFK 143 (154)
T ss_pred eEEECCEEee
Confidence 5678999984
No 25
>PF15097 Ig_J_chain: Immunoglobulin J chain
Probab=23.07 E-value=42 Score=23.74 Aligned_cols=35 Identities=14% Similarity=0.375 Sum_probs=27.7
Q ss_pred cccccCCCcEEEeecceeEechhHHHhhccccceee
Q psy2580 28 AAASRYTAPVHIDVGGTIYTSSLETLTKLYLLEICY 63 (65)
Q Consensus 28 A~~~~~~apVhlnVGG~iYTTSLsTLtkyPds~l~~ 63 (65)
+-+.+--+|+.+..||.++|-+-+-+-.=+ +|.||
T Consensus 65 S~LCkkCdp~evel~~qvvtAtqsn~cde~-~etCy 99 (134)
T PF15097_consen 65 SDLCKKCDPTEVELDNQVVTATQSNICDED-SETCY 99 (134)
T ss_pred HHHhhcCCccccccCCEEEEeecCcccCCC-CCcee
Confidence 345566789999999999999988877654 48887
No 26
>KOG0149|consensus
Probab=22.97 E-value=47 Score=25.39 Aligned_cols=20 Identities=35% Similarity=0.507 Sum_probs=18.3
Q ss_pred EEEeecceeEechhHHHhhc
Q psy2580 37 VHIDVGGTIYTSSLETLTKL 56 (65)
Q Consensus 37 VhlnVGG~iYTTSLsTLtky 56 (65)
-.|-|||--|.|.-++|+||
T Consensus 13 TKifVggL~w~T~~~~l~~y 32 (247)
T KOG0149|consen 13 TKIFVGGLAWETHKETLRRY 32 (247)
T ss_pred EEEEEcCcccccchHHHHHH
Confidence 46889999999999999987
No 27
>PF08002 DUF1697: Protein of unknown function (DUF1697); InterPro: IPR012545 This family contains many hypothetical bacterial proteins.; PDB: 2HIY_B.
Probab=21.72 E-value=35 Score=22.38 Aligned_cols=6 Identities=67% Similarity=1.271 Sum_probs=4.1
Q ss_pred Eeecce
Q psy2580 39 IDVGGT 44 (65)
Q Consensus 39 lnVGG~ 44 (65)
|||||+
T Consensus 11 INVGG~ 16 (137)
T PF08002_consen 11 INVGGK 16 (137)
T ss_dssp -SBTTB
T ss_pred eecCCC
Confidence 688885
No 28
>PF08922 DUF1905: Domain of unknown function (DUF1905); InterPro: IPR015018 This family consist of hypothetical bacterial proteins. ; PDB: 2D9R_A.
Probab=20.83 E-value=73 Score=19.18 Aligned_cols=18 Identities=28% Similarity=0.401 Sum_probs=15.0
Q ss_pred CCcEEEeecceeEechhH
Q psy2580 34 TAPVHIDVGGTIYTSSLE 51 (65)
Q Consensus 34 ~apVhlnVGG~iYTTSLs 51 (65)
.-+|...++|+-|.+||-
T Consensus 32 ~v~V~~tI~g~~~~~sl~ 49 (80)
T PF08922_consen 32 RVPVRGTIDGHPWRTSLF 49 (80)
T ss_dssp -EEEEEEETTEEEEEEEE
T ss_pred ceEEEEEECCEEEEEEEE
Confidence 568999999999999874
No 29
>cd02113 bact_SoxC_Moco bacterial SoxC is a member of the sulfite oxidase (SO) family of molybdopterin binding domains. SoxC is involved in oxidation of sulfur compounds during chemolithothrophic growth. Together with SoxD, a small c-type heme containing subunit, it forms a hetrotetrameric sulfite dehydrogenase. This molybdopterin cofactor (Moco) binding domain is found in a variety of oxidoreductases, main members of this family are nitrate reductase (NR) and sulfite oxidase (SO). Common features of all known members of this family are that they contain one single pterin cofactor and part of the coordination of the metal (Mo) is a cysteine ligand of the protein and that they catalyze the transfer of an oxygen to or from a lone pair of electrons on the substrate.
Probab=20.42 E-value=1.1e+02 Score=23.07 Aligned_cols=48 Identities=17% Similarity=0.308 Sum_probs=33.9
Q ss_pred CCCCCCCcCCCCCCCCcccccccCCCcEEEeecc---eeEechhHHHhhcccccee
Q psy2580 10 TPPAPLAFNHKITGIPCVAAASRYTAPVHIDVGG---TIYTSSLETLTKLYLLEIC 62 (65)
Q Consensus 10 ~~p~~~~y~~~~~giP~~A~~~~~~apVhlnVGG---~iYTTSLsTLtkyPds~l~ 62 (65)
-||...-|.-+..++|.+.. +-=.|.|+| +-.+=||+-|.++|..++-
T Consensus 9 iTP~~~~fvr~h~~~P~~d~-----~~w~L~V~G~V~~p~~ltl~dL~~~p~~~~~ 59 (326)
T cd02113 9 ITPNGLHFERHHGGVPDIDP-----AQHRLMIHGMVKKPLVFTMDDLKRFPSVSRI 59 (326)
T ss_pred cCCCcceEEECCCCCCccCc-----cccEEEEEEecCCCeEeeHHHHhcCCCEEEE
Confidence 35555667656678886542 334777788 4578899999999987753
Done!