Query psy15968
Match_columns 250
No_of_seqs 171 out of 798
Neff 3.8
Searched_HMMs 46136
Date Fri Aug 16 17:39:02 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy15968.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/15968hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 cd00435 ACBP Acyl CoA binding 100.0 1.4E-31 3E-36 206.3 9.9 83 6-92 1-83 (85)
2 PTZ00458 acyl CoA binding prot 100.0 2.1E-31 4.6E-36 208.4 10.4 84 7-92 2-85 (90)
3 PF00887 ACBP: Acyl CoA bindin 100.0 2.1E-31 4.6E-36 203.4 8.9 85 6-92 1-85 (87)
4 KOG0817|consensus 100.0 9.5E-30 2.1E-34 213.6 8.5 99 3-105 2-101 (142)
5 COG4281 ACB Acyl-CoA-binding p 99.9 3E-26 6.6E-31 176.8 8.5 83 6-92 2-84 (87)
6 KOG3878|consensus 99.2 5.9E-11 1.3E-15 112.8 7.7 87 5-92 31-120 (469)
7 smart00295 B41 Band 4.1 homolo 96.9 0.0047 1E-07 51.3 7.8 78 8-89 101-199 (207)
8 PF00373 FERM_M: FERM central 96.8 0.0042 9.2E-08 48.0 6.1 81 5-89 10-118 (126)
9 KOG3530|consensus 84.5 2.5 5.4E-05 43.7 6.4 66 24-89 118-195 (616)
10 PF10410 DnaB_bind: DnaB-helic 62.9 27 0.00058 24.0 5.3 54 62-116 4-58 (59)
11 PF07279 DUF1442: Protein of u 56.0 12 0.00027 34.2 3.3 35 74-109 6-40 (218)
12 PF04049 APC8: Anaphase promot 40.0 36 0.00078 28.6 3.4 28 8-41 88-115 (142)
13 KOG3690|consensus 31.8 78 0.0017 33.4 4.9 66 24-89 113-200 (646)
14 KOG3529|consensus 31.8 84 0.0018 32.7 5.2 63 26-88 124-206 (596)
15 PF04485 NblA: Phycobilisome d 30.3 66 0.0014 23.5 3.0 22 69-90 18-39 (53)
16 KOG4261|consensus 29.2 53 0.0011 35.8 3.3 109 27-136 228-362 (1003)
17 TIGR00256 D-tyrosyl-tRNA(Tyr) 22.6 1.3E+02 0.0028 26.0 4.0 36 42-91 78-115 (145)
18 cd00563 Dtyr_deacylase D-Tyros 21.3 1.3E+02 0.0029 25.8 3.8 36 42-91 78-115 (145)
19 PF08020 DUF1706: Protein of u 20.9 5.6E+02 0.012 22.3 8.8 88 4-91 12-117 (166)
20 PF05819 NolX: NolX protein; 20.8 2.9E+02 0.0063 28.9 6.6 94 29-124 366-483 (624)
No 1
>cd00435 ACBP Acyl CoA binding protein (ACBP) binds thiol esters of long fatty acids and coenzyme A in a one-to-one binding mode with high specificity and affinity. Acyl-CoAs are important intermediates in fatty lipid synthesis and fatty acid degradation and play a role in regulation of intermediary metabolism and gene regulation. The suggested role of ACBP is to act as a intracellular acyl-CoA transporter and pool former. ACBPs are present in a large group of eukaryotic species and several tissue-specific isoforms have been detected.
Probab=99.97 E-value=1.4e-31 Score=206.28 Aligned_cols=83 Identities=37% Similarity=0.663 Sum_probs=79.8
Q ss_pred HHHHHHHHHHHHHcCCCCCCCCCChHHHHHHHHHhhccccCCCCCCCCCCcchhHHHHHHHHHhcCCCCHHHHHHHHHHH
Q psy15968 6 RERKFYAAVSIIQNLPKSGPIQTPLNTMLQFYALYKQATEGPNNQPKPAFWDIVRKTKWDAWTKLGDMSKEAAMQRYIDE 85 (250)
Q Consensus 6 LEe~Fe~Av~~Vk~Lp~~G~~~ps~d~kL~LYALYKQAT~GDcn~~rPg~fD~vgRaKWdAWk~LkGMSkEEAm~~YIel 85 (250)
|+++|++|+++|++++. .++++++|+|||||||||+|||+.++|++||+++|+||+||++++|||++|||++||++
T Consensus 1 ~~~~F~~A~~~v~~~~~----~~~~~~~L~lYalyKQAt~G~~~~~~P~~~d~~~~~K~~AW~~l~~ms~~eA~~~YV~~ 76 (85)
T cd00435 1 LQEEFEAAAEKVKKLKT----KPSNEEKLQLYSLYKQATVGDCNTERPGMFDLKGRAKWDAWNSLKGMSKEDAMKAYIAK 76 (85)
T ss_pred ChHHHHHHHHHHHhCCC----CcCHHHHHHHHHHHHHhccCCCCCCCCCcccHhhHHHHHHHHHcCCCCHHHHHHHHHHH
Confidence 46899999999999886 69999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHhhcC
Q psy15968 86 FINIVDS 92 (250)
Q Consensus 86 lekLl~k 92 (250)
+++++++
T Consensus 77 ~~~l~~~ 83 (85)
T cd00435 77 VEELIAK 83 (85)
T ss_pred HHHHhhc
Confidence 9999986
No 2
>PTZ00458 acyl CoA binding protein; Provisional
Probab=99.97 E-value=2.1e-31 Score=208.42 Aligned_cols=84 Identities=27% Similarity=0.561 Sum_probs=79.7
Q ss_pred HHHHHHHHHHHHcCCCCCCCCCChHHHHHHHHHhhccccCCCCCCCCCCcchhHHHHHHHHHhcCCCCHHHHHHHHHHHH
Q psy15968 7 ERKFYAAVSIIQNLPKSGPIQTPLNTMLQFYALYKQATEGPNNQPKPAFWDIVRKTKWDAWTKLGDMSKEAAMQRYIDEF 86 (250)
Q Consensus 7 Ee~Fe~Av~~Vk~Lp~~G~~~ps~d~kL~LYALYKQAT~GDcn~~rPg~fD~vgRaKWdAWk~LkGMSkEEAm~~YIell 86 (250)
.+.|++|+++|++++.++ .++++++|+|||||||||+|||+.++|++||+++|+||+||++++|||++|||++||++|
T Consensus 2 ~~~F~~A~~~v~~~~~~~--~~s~d~~L~lYalyKQAt~G~c~~~~P~~~d~~~raKw~AW~~l~~ms~~eA~~~YI~l~ 79 (90)
T PTZ00458 2 ADLFEECVSFINSLPKTV--NLSVEIKLDLYKYYKQSTVGNCNIKEPSMFKYQDRKKYEAWKSIENLNREDAKKRYVEIV 79 (90)
T ss_pred hHHHHHHHHHHHhCCCCC--CCCHHHHHHHHHHHhhhccCCCCCCCCCcccHHHHHHHHHHHHcCCCCHHHHHHHHHHHH
Confidence 356999999999988764 589999999999999999999999999999999999999999999999999999999999
Q ss_pred HHhhcC
Q psy15968 87 INIVDS 92 (250)
Q Consensus 87 ekLl~k 92 (250)
++++++
T Consensus 80 ~~l~~~ 85 (90)
T PTZ00458 80 TELFPN 85 (90)
T ss_pred HHHhhc
Confidence 999987
No 3
>PF00887 ACBP: Acyl CoA binding protein; InterPro: IPR000582 Acyl-CoA-binding protein (ACBP) is a small (10 Kd) protein that binds medium- and long-chain acyl-CoA esters with very high affinity and may function as an intracellular carrier of acyl-CoA esters []. ACBP is also known as diazepam binding inhibitor (DBI) or endozepine (EP) because of its ability to displace diazepam from the benzodiazepine (BZD) recognition site located on the GABA type A receptor. It is therefore possible that this protein also acts as a neuropeptide to modulate the action of the GABA receptor []. ACBP is a highly conserved protein of about 90 residues that is found in all four eukaryotic kingdoms, Animalia, Plantae, Fungi and Protista, and in some eubacterial species []. Although ACBP occurs as a completely independent protein, intact ACB domains have been identified in a number of large, multifunctional proteins in a variety of eukaryotic species. These include large membrane-associated proteins with N-terminal ACB domains, multifunctional enzymes with both ACB and peroxisomal enoyl-CoA Delta(3), Delta(2)-enoyl-CoA isomerase domains, and proteins with both an ACB domain and ankyrin repeats (IPR002110 from INTERPRO) []. The ACB domain consists of four alpha-helices arranged in a bowl shape with a highly exposed acyl-CoA-binding site. The ligand is bound through specific interactions with residues on the protein, most notably several conserved positive charges that interact with the phosphate group on the adenosine-3'phosphate moiety, and the acyl chain is sandwiched between the hydrophobic surfaces of CoA and the protein []. Other proteins containing an ACB domain include: Endozepine-like peptide (ELP) (gene DBIL5) from mouse []. ELP is a testis-specific ACBP homologue that may be involved in the energy metabolism of the mature sperm. MA-DBI, a transmembrane protein of unknown function which has been found in mammals. MA-DBI contains a N-terminal ACB domain. DRS-1 [], a human protein of unknown function that contains a N-terminal ACB domain and a C-terminal enoyl-CoA isomerase/hydratase domain. ; GO: 0000062 fatty-acyl-CoA binding; PDB: 2CB8_A 2FJ9_A 2LBB_A 1ST7_A 3EPY_B 2FDQ_C 1NTI_A 1HB8_A 1ACA_A 1NVL_A ....
Probab=99.97 E-value=2.1e-31 Score=203.37 Aligned_cols=85 Identities=46% Similarity=0.786 Sum_probs=77.7
Q ss_pred HHHHHHHHHHHHHcCCCCCCCCCChHHHHHHHHHhhccccCCCCCCCCCCcchhHHHHHHHHHhcCCCCHHHHHHHHHHH
Q psy15968 6 RERKFYAAVSIIQNLPKSGPIQTPLNTMLQFYALYKQATEGPNNQPKPAFWDIVRKTKWDAWTKLGDMSKEAAMQRYIDE 85 (250)
Q Consensus 6 LEe~Fe~Av~~Vk~Lp~~G~~~ps~d~kL~LYALYKQAT~GDcn~~rPg~fD~vgRaKWdAWk~LkGMSkEEAm~~YIel 85 (250)
|+++|+.|+++|+.++.. ..++++++|+|||||||||+|||+.++|++||+++++||+||++++|||++|||++||++
T Consensus 1 Le~~F~~A~~~v~~~~~~--~~~~~~~~L~LYalyKQAt~Gd~~~~~P~~~d~~~~~K~~AW~~l~gms~~eA~~~Yi~~ 78 (87)
T PF00887_consen 1 LEEEFEAAVEFVSNLPKK--SQLSNDDKLELYALYKQATHGDCDTPRPGFFDIEGRAKWDAWKALKGMSKEEAMREYIEL 78 (87)
T ss_dssp HHHHHHHHHHHHHHSSSC--STS-HHHHHHHHHHHHHHHTSS--S-CTTTTCHHHHHHHHHHHTTTTTHHHHHHHHHHHH
T ss_pred CHHHHHHHHHHHHhcccc--CCCCHHHHHHHHHHHHHHHhCCCcCCCCcchhHHHHHHHHHHHHccCCCHHHHHHHHHHH
Confidence 789999999999999884 579999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHhhcC
Q psy15968 86 FINIVDS 92 (250)
Q Consensus 86 lekLl~k 92 (250)
+++++++
T Consensus 79 v~~~~~~ 85 (87)
T PF00887_consen 79 VEELIPK 85 (87)
T ss_dssp HHHHHHH
T ss_pred HHHHHHh
Confidence 9999875
No 4
>KOG0817|consensus
Probab=99.96 E-value=9.5e-30 Score=213.56 Aligned_cols=99 Identities=38% Similarity=0.657 Sum_probs=89.7
Q ss_pred chhHHHHHHHHHHHHHcCCCCCCCCCChHHHHHHHHHhhccccCCCCCCCCCCcchhHHHHHHHHHhcCCCCHHHHHHHH
Q psy15968 3 MKERERKFYAAVSIIQNLPKSGPIQTPLNTMLQFYALYKQATEGPNNQPKPAFWDIVRKTKWDAWTKLGDMSKEAAMQRY 82 (250)
Q Consensus 3 m~sLEe~Fe~Av~~Vk~Lp~~G~~~ps~d~kL~LYALYKQAT~GDcn~~rPg~fD~vgRaKWdAWk~LkGMSkEEAm~~Y 82 (250)
++.+...|+.|++.+++|++ .|+++++|+|||||||||+|||++++||+||+++|+||+||++++|||++|||+.|
T Consensus 2 ~~~~~~~Fe~a~~~~~~l~~----~p~~ee~L~lYglyKQAt~G~~~~~kPg~~d~~~k~Kw~AW~~l~~~s~~eA~~~Y 77 (142)
T KOG0817|consen 2 AATLEAKFEAAAEAVKNLKK----KPSNEELLKLYGLYKQATVGDCNTPKPGFFDEEGKAKWQAWNSLGGMSKEEAMEAY 77 (142)
T ss_pred cchHHHHHHHHHHHHHhccc----CCCHHHHHHHHHHHHhhccCCCCCCCCchhhHHHHHHHHHHHhcCCCCHHHHHHHH
Confidence 45689999999999999998 59999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHhhcC-CCchhHHHHHHhh
Q psy15968 83 IDEFINIVDS-TLGSDVEDMVKSL 105 (250)
Q Consensus 83 IellekLl~k-~~t~~~~~~l~~~ 105 (250)
|+++++++++ ....+...+.+..
T Consensus 78 v~~~~~l~~~~~~~~~~~~~~~~~ 101 (142)
T KOG0817|consen 78 VEKVEELIPKYGAEAETEEKTELT 101 (142)
T ss_pred HHHHHHHHHHhhcccccccCcccc
Confidence 9999999999 5555555555433
No 5
>COG4281 ACB Acyl-CoA-binding protein [Lipid metabolism]
Probab=99.93 E-value=3e-26 Score=176.77 Aligned_cols=83 Identities=33% Similarity=0.569 Sum_probs=79.7
Q ss_pred HHHHHHHHHHHHHcCCCCCCCCCChHHHHHHHHHhhccccCCCCCCCCCCcchhHHHHHHHHHhcCCCCHHHHHHHHHHH
Q psy15968 6 RERKFYAAVSIIQNLPKSGPIQTPLNTMLQFYALYKQATEGPNNQPKPAFWDIVRKTKWDAWTKLGDMSKEAAMQRYIDE 85 (250)
Q Consensus 6 LEe~Fe~Av~~Vk~Lp~~G~~~ps~d~kL~LYALYKQAT~GDcn~~rPg~fD~vgRaKWdAWk~LkGMSkEEAm~~YIel 85 (250)
+...|+.|...|+.|+. +|++++.|+|||||||+++||++..+||+||++||+||+||..|+|.|+|+|.++||.+
T Consensus 2 ~s~~Feqa~~dV~~L~~----kP~~d~LLkLYAL~KQ~s~GD~~~ekPG~~d~~gr~K~eAW~~LKGksqedA~qeYial 77 (87)
T COG4281 2 LSTRFEQAQTDVKELSE----KPSNDELLKLYALFKQGSVGDNDGEKPGFFDIVGRYKYEAWAGLKGKSQEDARQEYIAL 77 (87)
T ss_pred hhhHHHHHHHHHHHhcc----CCCcHHHHHHHHHHHhccccccCCCCCCccccccchhHHHHhhccCccHHHHHHHHHHH
Confidence 45789999999999998 79999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHhhcC
Q psy15968 86 FINIVDS 92 (250)
Q Consensus 86 lekLl~k 92 (250)
|+++..+
T Consensus 78 VeeLkak 84 (87)
T COG4281 78 VEELKAK 84 (87)
T ss_pred HHHHHhh
Confidence 9999765
No 6
>KOG3878|consensus
Probab=99.17 E-value=5.9e-11 Score=112.78 Aligned_cols=87 Identities=24% Similarity=0.434 Sum_probs=79.1
Q ss_pred hHHHHHHHHHHHHHcCCCCCCCCCChHHHHHHHHHhhccccCCCCCCC-C--CCcchhHHHHHHHHHhcCCCCHHHHHHH
Q psy15968 5 ERERKFYAAVSIIQNLPKSGPIQTPLNTMLQFYALYKQATEGPNNQPK-P--AFWDIVRKTKWDAWTKLGDMSKEAAMQR 81 (250)
Q Consensus 5 sLEe~Fe~Av~~Vk~Lp~~G~~~ps~d~kL~LYALYKQAT~GDcn~~r-P--g~fD~vgRaKWdAWk~LkGMSkEEAm~~ 81 (250)
.|++.+..|+.|.+.... +++.++++++|+|-+|-||+..|++++.+ | |++|++|+.+..+|..|+.||+|+||..
T Consensus 31 ~LeElY~LA~~fyKe~~G-Ka~h~~YEd~lKLial~kQv~~Gp~n~d~~p~~G~lDv~GnDr~~~W~~LG~~sre~AM~~ 109 (469)
T KOG3878|consen 31 PLEELYRLAFTFYKENSG-KAIHLSYEDNLKLIALKKQVALGPFNTDRAPALGVLDVIGNDRQQHWQLLGEISREQAMEG 109 (469)
T ss_pred CHHHHHHHHHHHHHhccC-CccCCChhhhhhhhhhHhhhhcCCCCcccCcccceeecccChHHHHHHHHhcccHHHHHHH
Confidence 488999999999996443 57899999999999999999999999543 4 7999999999999999999999999999
Q ss_pred HHHHHHHhhcC
Q psy15968 82 YIDEFINIVDS 92 (250)
Q Consensus 82 YIellekLl~k 92 (250)
||.+++++|+.
T Consensus 110 FV~Lldr~C~~ 120 (469)
T KOG3878|consen 110 FVDLLDRMCSA 120 (469)
T ss_pred HHHHHHhcchh
Confidence 99999998876
No 7
>smart00295 B41 Band 4.1 homologues. Also known as ezrin/radixin/moesin (ERM) protein domains. Present in myosins, ezrin, radixin, moesin, protein tyrosine phosphatases. Plasma membrane-binding domain. These proteins play structural and regulatory roles in the assembly and stabilization of specialized plasmamembrane domains. Some PDZ domain containing proteins bind one or more of this family. Now includes JAKs.
Probab=96.89 E-value=0.0047 Score=51.31 Aligned_cols=78 Identities=21% Similarity=0.181 Sum_probs=57.5
Q ss_pred HHHHHHHHHHHcCCCCCCCCCChHHHHHHHHHhhccccCCCCCCCC--------------CCcc-------hhHHHHHHH
Q psy15968 8 RKFYAAVSIIQNLPKSGPIQTPLNTMLQFYALYKQATEGPNNQPKP--------------AFWD-------IVRKTKWDA 66 (250)
Q Consensus 8 e~Fe~Av~~Vk~Lp~~G~~~ps~d~kL~LYALYKQAT~GDcn~~rP--------------g~fD-------~vgRaKWdA 66 (250)
--|..+...|.. |.+..+.++-+.|-||.-|+..||++.+.. .+.+ .....--++
T Consensus 101 ~ly~Q~~~di~~----g~~~~~~~~~~~Laal~~q~~~gd~~~~~~~~~~~~~~~~~lP~~~~~~~~~~~~~~~~~i~~~ 176 (207)
T smart00295 101 LLYLQVRNDILE----GRLPCPEEEALLLAALALQAEFGDYDEELHVLLKELSLKRFLPKQLLDSEKRTLKEWRERIVSL 176 (207)
T ss_pred HHHHHHHHHHHc----CccCCCHHHHHHHHHHHHHHHhcCCChHhcCCccccccceeCChhhhhhccccHHHHHHHHHHH
Confidence 446666665554 344678999999999999999999984321 1111 112333588
Q ss_pred HHhcCCCCHHHHHHHHHHHHHHh
Q psy15968 67 WTKLGDMSKEAAMQRYIDEFINI 89 (250)
Q Consensus 67 Wk~LkGMSkEEAm~~YIellekL 89 (250)
|+++.|||+.+||.+||+++.++
T Consensus 177 ~~~~~~~s~~~a~~~yl~~~~~l 199 (207)
T smart00295 177 HKELIGLSPEEAKLKYLELAEKL 199 (207)
T ss_pred HHHcCCCCHHHHHHHHHHHhccc
Confidence 99999999999999999999875
No 8
>PF00373 FERM_M: FERM central domain; InterPro: IPR019748 The FERM domain (F for 4.1 protein, E for ezrin, R for radixin and M for moesin) is a widespread protein module involved in localising proteins to the plasma membrane []. FERM domains are found in a number of cytoskeletal-associated proteins that associate with various proteins at the interface between the plasma membrane and the cytoskeleton. The FERM domain is located at the N terminus of the majority of FERM-containing proteins [, ], which includes: Band 4.1, which links the spectrin-actin cytoskeleton of erythrocytes to the plasma membrane. Ezrin, a component of the undercoat of the microvilli plasma membrane. Moesin, which is probably involved in binding major cytoskeletal structures to the plasma membrane. Radixin, which is involved in the binding of the barbed end of actin filaments to the plasma membrane in the undercoat of the cell- to-cell adherens junction. Talin, a cytoskeletal protein concentrated in regions of cell-substratum contact and, in lymphocytes, of cell-cell contacts. Filopodin, a slime mold protein that binds actin and which is involved in the control of cell motility and chemotaxis. Merlin (or schwannomin). Protein NBL4. Unconventional myosins X, VIIa and XV, which are mutated in congenital deafness. Focal-adhesion kinases (FAKs), cytoplasmic protein tyrosine kinases involved in signalling through integrins. Janus tyrosine kinases (JAKs), cytoplasmic tyrosine kinases that are non-covalently associated with the cytoplasmic tails of receptors for cytokines or polypeptidic hormones. Non-receptor tyrosine-protein kinase TYK2. Protein-tyrosine phosphatases PTPN3 and PTPN4, enzyme that appear to act at junctions between the membrane and the cytoskeleton. Protein-tyrosine phosphatases PTPN14 and PTP-D1, PTP-RL10 and PTP2E. Caenorhabditis elegans protein phosphatase ptp-1. Ezrin, moesin, and radixin are highly related proteins (ERM protein family), but the other proteins in which the FERM domain is found do not share any region of similarity outside of this domain. ERM proteins are made of three domains, the FERM domain, a central helical domain and a C-terminal tail domain, which binds F-actin. The amino-acid sequence of the FERM domain is highly conserved among ERM proteins and is responsible for membrane association by direct binding to the cytoplasmic domain or tail of integral membrane proteins. ERM proteins are regulated by an intramolecular association of the FERM and C-terminal tail domains that masks their binding sites for other molecules. For cytoskeleton-membrane cross-linking, the dormant molecules becomes activated and the FERM domain attaches to the membrane by binding specific membrane proteins, while the last 34 residues of the tail bind actin filaments. Aside from binding to membranes, the activated FERM domain of ERM proteins can also bind the guanine nucleotide dissociation inhibitor of Rho GTPase (RhoDGI), which suggests that in addition to functioning as a cross-linker, ERM proteins may influence Rho signalling pathways. The crystal structure of the FERM domain reveals that it is composed of three structural modules (F1, F2, and F3) that together form a compact clover-shaped structure []. The FERM domain has also been called the amino-terminal domain, the 30kDa domain, 4.1N30, the membrane-cytoskeletal-linking domain, the ERM-like domain, the ezrin-like domain of the band 4.1 superfamily, the conserved N-terminal region, and the membrane attachment domain [].; PDB: 4DXA_B 2EMS_A 2ZPY_A 1J19_A 2D10_B 2D11_B 1GC6_A 2D2Q_A 2EMT_A 2YVC_A ....
Probab=96.76 E-value=0.0042 Score=48.04 Aligned_cols=81 Identities=20% Similarity=0.317 Sum_probs=56.6
Q ss_pred hHHHHHHHHHHHHHcCCCCCCCCCChHHHHHHHHHhhccccCCCCCCC---CCCc-------------c-------hhHH
Q psy15968 5 ERERKFYAAVSIIQNLPKSGPIQTPLNTMLQFYALYKQATEGPNNQPK---PAFW-------------D-------IVRK 61 (250)
Q Consensus 5 sLEe~Fe~Av~~Vk~Lp~~G~~~ps~d~kL~LYALYKQAT~GDcn~~r---Pg~f-------------D-------~vgR 61 (250)
.++--|..+...|-. |.+..+.++-++|-||.-|+..||++... .+.+ - ....
T Consensus 10 ~~~lly~Q~~~~vl~----g~~~~~~e~a~~LAAl~~q~~~gd~~~~~~~~~~~~~~~~~~~~~~~~iP~~~~~~~~~~~ 85 (126)
T PF00373_consen 10 TRHLLYLQARRDVLQ----GRLPCSEEDAIKLAALQLQAEYGDYNSEQEHSSGYIDPEIKEFQLENFIPKAPKLIKKMKQ 85 (126)
T ss_dssp HHHHHHHHHHHHHHT----TSSTS-HHHHHHHHHHHHHHHHTSSTTTTTSSTTTTTGSHHCTCGHGTSSHHHHHHCCSTH
T ss_pred HHHHHHHHHHHHHHc----CcCCCCHHHHHHHHHHHHHHHhcCCCcccccCcccccccccchhhhhhhhhhHHHHhhhhH
Confidence 355567777776655 44578999999999999999999998221 1111 1 0122
Q ss_pred HHH-----HHHHhcCCCCHHHHHHHHHHHHHHh
Q psy15968 62 TKW-----DAWTKLGDMSKEAAMQRYIDEFINI 89 (250)
Q Consensus 62 aKW-----dAWk~LkGMSkEEAm~~YIellekL 89 (250)
..| ..|+++.|||..+||..||+++.++
T Consensus 86 ~~~~~~I~~~~~~l~~~s~~~a~~~fl~~~~~~ 118 (126)
T PF00373_consen 86 KEWEKRILEQHKKLRGMSPEEAKLQFLQICQSL 118 (126)
T ss_dssp HHHHHHHHHHHHHTTT--HHHHHHHHHHHHCTS
T ss_pred HHHHHHHHHHHHHhhCCCHHHHHHHHHHHHhcC
Confidence 223 8899999999999999999999863
No 9
>KOG3530|consensus
Probab=84.47 E-value=2.5 Score=43.69 Aligned_cols=66 Identities=18% Similarity=0.307 Sum_probs=53.1
Q ss_pred CCCCCChHHHHHHHHHhhccccCCCCCCC--CCC---cch-------hHHHHHHHHHhcCCCCHHHHHHHHHHHHHHh
Q psy15968 24 GPIQTPLNTMLQFYALYKQATEGPNNQPK--PAF---WDI-------VRKTKWDAWTKLGDMSKEAAMQRYIDEFINI 89 (250)
Q Consensus 24 G~~~ps~d~kL~LYALYKQAT~GDcn~~r--Pg~---fD~-------vgRaKWdAWk~LkGMSkEEAm~~YIellekL 89 (250)
|....+.+.-.+|=||-=|+..|||+.++ +++ |.| -+.+=.+-||+++|++..+|+-.|+++++-+
T Consensus 118 GRL~Cp~~~AaeLaAl~lQsELGDYn~~~Ht~~yVSefRf~p~Qte~LE~~I~e~hK~~rGqspaqAElnyLnkAkwL 195 (616)
T KOG3530|consen 118 GRLYCPFETAAELAALILQSELGDYNEEEHTGGYVSEFRFLPNQTEELEERIFELHKELRGQSPAQAELNYLNKAKWL 195 (616)
T ss_pred CCCCCchhhHHHHHHHHHHHHhcCCChhhccccceeeeEecccccHHHHHHHHHHHHHhcCCCHHHHHHHHHhhhhhh
Confidence 55567999999999999999999999653 332 222 2344578999999999999999999999864
No 10
>PF10410 DnaB_bind: DnaB-helicase binding domain of primase; InterPro: IPR019475 This entry represents the C-terminal region three-helical domain of DNA primase []. Primases synthesise short RNA strands on single-stranded DNA templates, thereby generating the hybrid duplexes required for the initiation of synthesis by DNA polymerases. Primases are recruited to single-stranded DNA by helicases - this domain binds DnaB-helicase []. It is associated with the Toprim domain IPR006171 from INTERPRO, which is the central catalytic core. ; GO: 0016779 nucleotidyltransferase activity; PDB: 1EQN_E 1DD9_A 3B39_B 1DDE_A.
Probab=62.90 E-value=27 Score=23.96 Aligned_cols=54 Identities=9% Similarity=0.084 Sum_probs=39.7
Q ss_pred HHHHHHHhcCCCCHHHHHHHHHHHHHHhhcC-CCchhHHHHHHhhhhhhcccccch
Q psy15968 62 TKWDAWTKLGDMSKEAAMQRYIDEFINIVDS-TLGSDVEDMVKSLGTLYEAVNNED 116 (250)
Q Consensus 62 aKWdAWk~LkGMSkEEAm~~YIellekLl~k-~~t~~~~~~l~~~~~~ye~v~~d~ 116 (250)
++++.-.+-.+++..+-+.+|++.+..++.. +.......|++.+.-.+ .|+.+.
T Consensus 4 f~~~~l~~~~dl~~~egk~~~~~~~~~~i~~i~~~i~r~~y~~~la~~~-~i~~~~ 58 (59)
T PF10410_consen 4 FLIERLSKGYDLDTPEGKAEAVREAAPLIAQIPDPIERELYIRELAERL-GISEDA 58 (59)
T ss_dssp HHHHHHGGGS-TTSHHHHHHHHHHHHHHHTT--SHHHHHHHHHHHHHHC-T-SSTT
T ss_pred HHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHh-CcCccc
Confidence 4566666667899999999999999999999 87778888888777663 444443
No 11
>PF07279 DUF1442: Protein of unknown function (DUF1442); InterPro: IPR009902 This family consists of several hypothetical Arabidopsis thaliana proteins of around 225 residues in length. The function of this family is unknown.
Probab=56.00 E-value=12 Score=34.24 Aligned_cols=35 Identities=20% Similarity=0.301 Sum_probs=28.0
Q ss_pred CHHHHHHHHHHHHHHhhcCCCchhHHHHHHhhhhhh
Q psy15968 74 SKEAAMQRYIDEFINIVDSTLGSDVEDMVKSLGTLY 109 (250)
Q Consensus 74 SkEEAm~~YIellekLl~k~~t~~~~~~l~~~~~~y 109 (250)
|.|.|++.||+.++- +.+...+.+++|+.++.--|
T Consensus 6 Spe~AtkAYl~Tvk~-c~~~~ep~~aEfISAlAAG~ 40 (218)
T PF07279_consen 6 SPENATKAYLDTVKM-CKKFKEPGVAEFISALAAGW 40 (218)
T ss_pred ChhHHHHHHHHHHHH-hhhcCCCCHHHHHHHHhccc
Confidence 789999999999985 44555678999999877654
No 12
>PF04049 APC8: Anaphase promoting complex subunit 8 / Cdc23 ; InterPro: IPR007192 The anaphase-promoting complex is composed of eight protein subunits, including BimE (APC1), CDC27 (APC3), CDC16 (APC6), and CDC23 (APC8). This entry is for CDC23.; GO: 0030071 regulation of mitotic metaphase/anaphase transition, 0005680 anaphase-promoting complex
Probab=39.95 E-value=36 Score=28.57 Aligned_cols=28 Identities=18% Similarity=0.488 Sum_probs=22.5
Q ss_pred HHHHHHHHHHHcCCCCCCCCCChHHHHHHHHHhh
Q psy15968 8 RKFYAAVSIIQNLPKSGPIQTPLNTMLQFYALYK 41 (250)
Q Consensus 8 e~Fe~Av~~Vk~Lp~~G~~~ps~d~kL~LYALYK 41 (250)
.+|++|+.+++.-.. +....|+||+.|-
T Consensus 88 kEy~RaA~~L~~~~s------~~~~FL~lYs~YL 115 (142)
T PF04049_consen 88 KEYDRAAHVLKDCKS------PKALFLRLYSRYL 115 (142)
T ss_pred hHHHHHHHHHccCCC------chHHHHHHHHHHH
Confidence 579999999987654 5677899999984
No 13
>KOG3690|consensus
Probab=31.80 E-value=78 Score=33.37 Aligned_cols=66 Identities=20% Similarity=0.384 Sum_probs=40.1
Q ss_pred CCCCCChHHHHHHHHH-------hhccccCCCCCC-------CCCCcchhHHH--------HHHHHHhcCCCCHHHHHHH
Q psy15968 24 GPIQTPLNTMLQFYAL-------YKQATEGPNNQP-------KPAFWDIVRKT--------KWDAWTKLGDMSKEAAMQR 81 (250)
Q Consensus 24 G~~~ps~d~kL~LYAL-------YKQAT~GDcn~~-------rPg~fD~vgRa--------KWdAWk~LkGMSkEEAm~~ 81 (250)
|...++.++..+++.+ |+-||+=+.+.+ .|.+.++.... -|.+|...-|.....--.+
T Consensus 113 g~saL~~~d~~~~~~ll~~m~~~y~~~~vC~y~~p~~~~L~l~P~l~~i~~~Srd~~eL~~~W~~wr~~~g~~~r~~y~~ 192 (646)
T KOG3690|consen 113 GMSALSPDDLKRYNQLLSSMSTNYNTATVCAYDQPSACCLLLEPQLQSIMANSRDYDELQWYWVEWRRKIGKAMRQSYEE 192 (646)
T ss_pred ccccCCHHHHHHHHHHHHHHHhhcCCceeeCCCCCCCcceecCccHHHHHhccCCHHHHHHHHHHHHHHhhhhhhHHHHH
Confidence 4345677776666654 677776333332 23333333322 3999999999666666667
Q ss_pred HHHHHHHh
Q psy15968 82 YIDEFINI 89 (250)
Q Consensus 82 YIellekL 89 (250)
||++.++.
T Consensus 193 yv~L~~e~ 200 (646)
T KOG3690|consen 193 YVDLSNEA 200 (646)
T ss_pred HHHHHHHH
Confidence 77777764
No 14
>KOG3529|consensus
Probab=31.77 E-value=84 Score=32.71 Aligned_cols=63 Identities=21% Similarity=0.273 Sum_probs=46.9
Q ss_pred CCCChHHHHHHHHHhhccccCCCCC--CCCCCcc-------------hhHHHHH-----HHHHhcCCCCHHHHHHHHHHH
Q psy15968 26 IQTPLNTMLQFYALYKQATEGPNNQ--PKPAFWD-------------IVRKTKW-----DAWTKLGDMSKEAAMQRYIDE 85 (250)
Q Consensus 26 ~~ps~d~kL~LYALYKQAT~GDcn~--~rPg~fD-------------~vgRaKW-----dAWk~LkGMSkEEAm~~YIel 85 (250)
+.++.++.-.|=+|-=||.+||++. .+.++.+ -...++| .=|....||.+++||-+|..+
T Consensus 124 i~~~~E~~~~las~~vqa~~gdy~~~~~~~~~l~~~~~lP~~~~~q~~~s~~~~e~ri~~~~~~~~~~~re~a~leylki 203 (596)
T KOG3529|consen 124 IYCPPETSVLLASYAVQAKYGDYDKETHKVGRLAGDRLLPQRVLDQHKMTPDMWEDRIKEWYAEHRGMTREEAMLEYLKI 203 (596)
T ss_pred CCCCchHHHHHHHHHHHHHhccccchhhhhhccccCcccchhhhhhccccHHHHHHHHHHHHHHHHhhhhhhHHHHHHHH
Confidence 4689999999999999999999862 1222111 0133344 347788999999999999999
Q ss_pred HHH
Q psy15968 86 FIN 88 (250)
Q Consensus 86 lek 88 (250)
+.+
T Consensus 204 ~qd 206 (596)
T KOG3529|consen 204 AQD 206 (596)
T ss_pred hcc
Confidence 988
No 15
>PF04485 NblA: Phycobilisome degradation protein nblA ; InterPro: IPR007574 In the cyanobacterium Synechococcus species PCC 7942 (P35087 from SWISSPROT), nblA triggers degradation of light-harvesting phycobiliproteins in response to deprivation nutrients including nitrogen, phosphorus and sulphur. The mechanism of nblA function is not known, but it has been hypothesised that nblA may act by disrupting phycobilisome structure, activating a protease or tagging phycobiliproteins for proteolysis. Members of this family have also been identified in the chloroplasts of some red algae.; PDB: 3CS5_D 1OJH_L 2QDO_B 2Q8V_A.
Probab=30.30 E-value=66 Score=23.54 Aligned_cols=22 Identities=14% Similarity=0.384 Sum_probs=18.6
Q ss_pred hcCCCCHHHHHHHHHHHHHHhh
Q psy15968 69 KLGDMSKEAAMQRYIDEFINIV 90 (250)
Q Consensus 69 ~LkGMSkEEAm~~YIellekLl 90 (250)
.+..||+|+|+.-.|++.++++
T Consensus 18 qv~~ls~Eqaq~~Lve~~rqmm 39 (53)
T PF04485_consen 18 QVQKLSREQAQELLVELYRQMM 39 (53)
T ss_dssp HHCTS-HHHHHHHHHHHHHHHH
T ss_pred HHHHhCHHHHHHHHHHHHHHHH
Confidence 4678999999999999998876
No 16
>KOG4261|consensus
Probab=29.17 E-value=53 Score=35.77 Aligned_cols=109 Identities=17% Similarity=0.253 Sum_probs=64.9
Q ss_pred CCChHHHHHHHHHhhccccCCCCCCCCC-Ccch-----h-------HHHHHHHHHhcCCCCHHHHHHHHHHHHHHhhcCC
Q psy15968 27 QTPLNTMLQFYALYKQATEGPNNQPKPA-FWDI-----V-------RKTKWDAWTKLGDMSKEAAMQRYIDEFINIVDST 93 (250)
Q Consensus 27 ~ps~d~kL~LYALYKQAT~GDcn~~rPg-~fD~-----v-------gRaKWdAWk~LkGMSkEEAm~~YIellekLl~k~ 93 (250)
.++.+.--+|-++=-+...||-+..+++ |+|. . .+.-+.+-+.+++||.++|+-+|+.+...+-.-.
T Consensus 228 pv~~~kA~e~a~~qshiq~g~~~~~k~k~~ld~kd~lpk~y~k~k~ekKif~~~k~~~~~sei~ak~~y~k~~r~l~tyg 307 (1003)
T KOG4261|consen 228 PVSFEKACEFAGFQSHIQFGPHNEDKHKGFLDLKDFLPKEYVKQKGEKKIFQAHKNCGGMSEIDAKVKYVKLARSLKTYG 307 (1003)
T ss_pred chhHHHHHHHhccccccccCCchhhccccchhccccChHHHhccccchhhhhhhhhhcchhHHHHHHHHHHHhccccccc
Confidence 4566666666666667777777655554 3332 2 2333789999999999999999999998753321
Q ss_pred C----chh--------HHHHHH-hhhhhhcccccchhhhhccchhHhhhhcCCCch
Q psy15968 94 L----GSD--------VEDMVK-SLGTLYEAVNNEDIDLLLGPTMDKLFARTGSKK 136 (250)
Q Consensus 94 ~----t~~--------~~~~l~-~~~~~ye~v~~d~lel~~~~~~e~v~~~p~~p~ 136 (250)
. -.+ |.-||. +-+.+ -.++....+.+-.-.+.+|+---.+|.
T Consensus 308 vtff~VKek~~gknklVprlLgv~K~sv-mr~de~tk~il~ewpl~~V~rw~~s~~ 362 (1003)
T KOG4261|consen 308 VTFFLVKEKMKGKNKLVPRLLGVTKESV-MRVDEKTKEILQEWPLTTVRRWAASPK 362 (1003)
T ss_pred eEEEEehhhccCcccccchhhhhhHHhh-hhcchhhhhHhhhcchhHHHHhccCcc
Confidence 1 111 333333 22222 234455566666666667765444444
No 17
>TIGR00256 D-tyrosyl-tRNA(Tyr) deacylase. This homodimeric enzyme appears able to cleave any D-amino acid (and glycine, which does not have distinct D/L forms) from charged tRNA. The name reflects characterization with respect to D-Tyr on tRNA(Tyr) as established in the literature, but substrate specificity seems much broader.
Probab=22.59 E-value=1.3e+02 Score=25.95 Aligned_cols=36 Identities=19% Similarity=0.110 Sum_probs=27.2
Q ss_pred ccc-cCCC-CCCCCCCcchhHHHHHHHHHhcCCCCHHHHHHHHHHHHHHhhc
Q psy15968 42 QAT-EGPN-NQPKPAFWDIVRKTKWDAWTKLGDMSKEAAMQRYIDEFINIVD 91 (250)
Q Consensus 42 QAT-~GDc-n~~rPg~fD~vgRaKWdAWk~LkGMSkEEAm~~YIellekLl~ 91 (250)
|.| .|+| ...||+|.+ -|+.++|+..|-..++++-.
T Consensus 78 QFTL~a~~~KG~rPsF~~--------------a~~~~~A~~ly~~fv~~l~~ 115 (145)
T TIGR00256 78 QFTLAADTKKGMRPSFSK--------------GASPDRAEELYEYFVELCRE 115 (145)
T ss_pred CCcccccCCCCCCCCccc--------------cCCHHHHHHHHHHHHHHHHh
Confidence 555 3677 577998654 47899999999988888754
No 18
>cd00563 Dtyr_deacylase D-Tyrosyl-tRNAtyr deacylases; a class of tRNA-dependent hydrolases which are capable of hydrolyzing the ester bond of D-Tyrosyl-tRNA reducing the level of cellular D-Tyrosine while recycling the peptidyl-tRNA; found in bacteria and in eukaryotes but not in archea; beta barrel-like fold structure; forms homodimers in which two surface cavities serve as the active site for tRNA binding
Probab=21.31 E-value=1.3e+02 Score=25.83 Aligned_cols=36 Identities=17% Similarity=0.122 Sum_probs=27.0
Q ss_pred ccc-cCCC-CCCCCCCcchhHHHHHHHHHhcCCCCHHHHHHHHHHHHHHhhc
Q psy15968 42 QAT-EGPN-NQPKPAFWDIVRKTKWDAWTKLGDMSKEAAMQRYIDEFINIVD 91 (250)
Q Consensus 42 QAT-~GDc-n~~rPg~fD~vgRaKWdAWk~LkGMSkEEAm~~YIellekLl~ 91 (250)
|.| .|+| ...||+|.. -|+.++|+..|-..++++-.
T Consensus 78 QFTL~~~~~KG~rP~F~~--------------a~~~e~A~~ly~~fv~~l~~ 115 (145)
T cd00563 78 QFTLYADTKKGRRPSFSA--------------AAPPDKAEPLYESFVELLRE 115 (145)
T ss_pred ccccccccCCCCCCCccc--------------cCCHHHHHHHHHHHHHHHHH
Confidence 555 3667 577898754 47899999999998888743
No 19
>PF08020 DUF1706: Protein of unknown function (DUF1706) ; InterPro: IPR012550 This family contains many hypothetical proteins from bacteria and yeast.
Probab=20.91 E-value=5.6e+02 Score=22.25 Aligned_cols=88 Identities=16% Similarity=0.304 Sum_probs=63.0
Q ss_pred hhHHHHHHHHHHHHHcCCCCC---------CCCCChHHHHHHHHH-------hhccccCCCC-CCCCC-CcchhHHHHHH
Q psy15968 4 KERERKFYAAVSIIQNLPKSG---------PIQTPLNTMLQFYAL-------YKQATEGPNN-QPKPA-FWDIVRKTKWD 65 (250)
Q Consensus 4 ~sLEe~Fe~Av~~Vk~Lp~~G---------~~~ps~d~kL~LYAL-------YKQAT~GDcn-~~rPg-~fD~vgRaKWd 65 (250)
..++..|++-.+.+..+|... ..+-.-|....||+. ++.-..|... .|.|| -|+-.|..-..
T Consensus 12 ~ai~~~~~kL~~~~~~ipee~~~~~~~~~~~d~~~~DvLayl~gW~~LlL~W~~~~~~G~~~~fp~~gykWn~lg~Ln~~ 91 (166)
T PF08020_consen 12 EAIEKNYEKLISEIDSIPEEQKDTPFDFGGRDRNPRDVLAYLYGWHELLLKWEEDEQAGEEVDFPAPGYKWNQLGELNQS 91 (166)
T ss_pred HHHHHHHHHHHHHHHhCCHHHhcCccccccccCCHHHHHHHHHHHHHHHHHHHhhccCCCCCCCCCCCCChhhhhHHHHH
Confidence 356788999999998877421 112234555666664 4445556443 44555 47888888899
Q ss_pred HHHhcCCCCHHHHHHHHHHHHHHhhc
Q psy15968 66 AWTKLGDMSKEAAMQRYIDEFINIVD 91 (250)
Q Consensus 66 AWk~LkGMSkEEAm~~YIellekLl~ 91 (250)
-|++..+.|-+|+++.+-+...+|+.
T Consensus 92 f~~~y~~~sl~e~~~~l~~s~~~v~~ 117 (166)
T PF08020_consen 92 FYEKYQDTSLEELKALLKESHQKVIA 117 (166)
T ss_pred HHHHHcCCCHHHHHHHHHHHHHHHHH
Confidence 99999999999999999999888763
No 20
>PF05819 NolX: NolX protein; InterPro: IPR008718 This family consists of Rhizobium NolX and Xanthomonas HrpF proteins. The interaction between the plant pathogen Xanthomonas campestris pv. vesicatoria (strain 85-10) and its host plants is controlled by hrp genes (hypersensitive reaction and pathogenicity), which encode a type III protein secretion system. Among type III-secreted proteins are avirulence proteins, effectors involved in the induction of plant defence reactions. HrpF is dispensable for protein secretion but required for AvrBs3 recognition in planta, is thought to function as a translocator of effector proteins into the host cell []. NolX, a Glycine max (Soybean) cultivar specificity protein, is secreted by a type III secretion system (TTSS) and shows homology to HrpF. It is not known whether NolX functions at the bacterium-plant interface or acts inside the host cell. NolX is expressed in planta only during the early stages of nodule development [].; GO: 0009877 nodulation
Probab=20.79 E-value=2.9e+02 Score=28.94 Aligned_cols=94 Identities=14% Similarity=0.374 Sum_probs=55.7
Q ss_pred ChHHHHHHHHH------------hhccccCCCCCCC-CCCcchhHHHHH-----HHHHhc-CCCCHHHHHHHHHHHHHHh
Q psy15968 29 PLNTMLQFYAL------------YKQATEGPNNQPK-PAFWDIVRKTKW-----DAWTKL-GDMSKEAAMQRYIDEFINI 89 (250)
Q Consensus 29 s~d~kL~LYAL------------YKQAT~GDcn~~r-Pg~fD~vgRaKW-----dAWk~L-kGMSkEEAm~~YIellekL 89 (250)
.+|-+-+||-| |||...|+..+.+ |- .+++.++| ++|+++ +|=+..--+..|++.+.+-
T Consensus 366 ~nDA~RELYrYSdyLPK~L~~~~f~~IVdG~s~tgKcPP--QViAAAqyF~~hpd~W~~l~~g~~~~v~k~dflq~ass~ 443 (624)
T PF05819_consen 366 ENDAMRELYRYSDYLPKNLSLEDFKQIVDGDSKTGKCPP--QVIAAAQYFVDHPDEWKQLYGGPSDKVSKEDFLQVASSS 443 (624)
T ss_pred hhHHHHHHHHhhhccccccCHHHHHhHhcCccccCCCCH--HHHHHHHHHHhChHHHHHhcCCCccccchhHHHHHHHhh
Confidence 46667777755 8999999998654 33 67888886 999999 5544444555677776554
Q ss_pred hcC-CCchhHHHHHH-hhhhhhc---ccccchhhhhccch
Q psy15968 90 VDS-TLGSDVEDMVK-SLGTLYE---AVNNEDIDLLLGPT 124 (250)
Q Consensus 90 l~k-~~t~~~~~~l~-~~~~~ye---~v~~d~lel~~~~~ 124 (250)
+.- .-..++-+.+. ..+-||- .|..|.|...+.+-
T Consensus 444 m~LT~~ElkTL~Tin~nqd~FFg~G~~ltrdKLa~ma~D~ 483 (624)
T PF05819_consen 444 MHLTAPELKTLDTINSNQDAFFGDGKELTRDKLASMADDK 483 (624)
T ss_pred cccChHHHHHHHHhhhchhhhhCCccccCHHHHHHhhcCc
Confidence 433 11112222222 1223332 45677776665543
Done!