Query psy3908
Match_columns 170
No_of_seqs 29 out of 31
Neff 3.0
Searched_HMMs 46136
Date Fri Aug 16 20:28:24 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy3908.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/3908hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF12736 CABIT: Cell-cycle sus 99.9 1.9E-22 4.1E-27 165.1 10.7 121 30-163 1-122 (256)
2 PF02080 TrkA_C: TrkA-C domain 58.3 5.8 0.00013 25.9 1.2 21 146-166 40-60 (71)
3 PF10660 MitoNEET_N: Iron-cont 53.7 4.3 9.4E-05 29.1 0.0 14 88-101 18-31 (64)
4 PF12736 CABIT: Cell-cycle sus 49.3 81 0.0017 26.1 6.8 75 18-104 166-242 (256)
5 PF15414 DUF4621: Protein of u 47.6 17 0.00037 32.4 2.7 62 23-106 152-213 (329)
6 PF08615 RNase_H2_suC: Ribonuc 45.0 9.2 0.0002 29.2 0.6 26 78-105 46-71 (137)
7 PF05899 Cupin_3: Protein of u 32.0 84 0.0018 21.8 3.7 28 130-162 26-56 (74)
8 PF14400 Transglut_i_TM: Inact 29.3 1E+02 0.0022 25.5 4.4 51 42-106 4-54 (165)
9 cd05888 Ig1_Nectin-4_like Frst 27.6 37 0.0008 24.2 1.4 20 2-21 61-80 (100)
10 PF13464 DUF4115: Domain of un 27.1 59 0.0013 22.4 2.3 24 140-165 14-37 (77)
11 PF05688 DUF824: Salmonella re 26.9 91 0.002 21.1 3.1 33 129-161 11-43 (47)
12 TIGR02988 YaaA_near_RecF S4 do 24.0 42 0.00092 22.1 1.0 21 143-163 39-59 (59)
13 COG0569 TrkA K+ transport syst 23.8 98 0.0021 25.6 3.4 21 145-165 189-209 (225)
14 PF13275 S4_2: S4 domain; PDB: 23.1 52 0.0011 23.4 1.4 27 141-167 36-62 (65)
15 TIGR03432 yjhG_yagF probable d 21.7 65 0.0014 32.1 2.2 31 20-50 323-363 (640)
16 TIGR00061 L21 ribosomal protei 21.6 90 0.002 23.8 2.5 48 26-75 30-77 (101)
17 PF06481 COX_ARM: COX Aromatic 20.5 17 0.00038 23.8 -1.4 17 100-116 13-31 (47)
No 1
>PF12736 CABIT: Cell-cycle sustaining, positive selection,
Probab=99.88 E-value=1.9e-22 Score=165.12 Aligned_cols=121 Identities=36% Similarity=0.459 Sum_probs=110.2
Q ss_pred CCeeEEeccCcccccCccCCCCCCcceeEeeeeccceeeeeeeehhhhcCceeccccceeeeCCCCCceeEEeccCCcee
Q psy3908 30 LPTVVKIIKGQYGNLGVPTLPSPGLQSTVLLVSAGKRQKIIAQAVKLKEGRRFVGVGSRIDIPENYPGYFELLSEEGKSM 109 (170)
Q Consensus 30 LP~vvri~~Gqy~~lGvp~l~~~slq~~~Ll~sa~~r~~i~aqa~kl~Egr~v~~IGPkI~IP~~Y~G~F~LLsed~~~v 109 (170)
||+|++|..|+|...+++.|+ .+.++||.+.+.++|+|++++-++|+. +||++.||++|+|||+++..++
T Consensus 1 lP~vv~V~~g~y~~~~~~~l~----G~~l~l~~~~~~k~i~a~~~~~~~~~~---~g~~~~IP~~y~G~F~~~~~~~--- 70 (256)
T PF12736_consen 1 LPRVVKVQSGVYFQGSVYELS----GQELCLHTGDQIKKILAQSVESEKGRK---VGPHFLIPLNYPGKFKRLPRPG--- 70 (256)
T ss_pred CCeEEEEecCCCCCCccccCC----CCEEEEEecCEeeEEEEEEEeccCccc---cCCEEEECCcccceEEECCCcc---
Confidence 799999999999998888777 566899999888999999999888887 8999999999999999999988
Q ss_pred eeeehHHHH-HhhccCcceEEeeeeeeeeeeecCCCCeeccceeeEecCceeeec
Q psy3908 110 RCCETVLEI-SRRKIEAGCLIREAIKGIVAKYDEEGNLQSDGARIVNIGEVLLPK 163 (170)
Q Consensus 110 R~fesV~El-a~~fp~~rvlv~E~Ir~~~~~~~ed~~~~~~~~~Tl~aGe~L~l~ 163 (170)
+|+||+|| ++.+| .+|++++++++.. ..+++++....+++++++||.|+++
T Consensus 71 -~f~tV~eL~~~~~p-~~v~~~~~~~~~~-~~~~~~~~~~~~~~~v~~Ge~L~l~ 122 (256)
T PF12736_consen 71 -PFETVYELLSRGFP-LRVVVTKDITFSS-ASGENSSVSDYGKRTVPAGEVLRLL 122 (256)
T ss_pred -ccCCHHHHhhccCC-CEEEEcCccceec-ccccccccccCCceEECCCCEEEEE
Confidence 99999999 99999 9999999999987 5566666777889999999999999
No 2
>PF02080 TrkA_C: TrkA-C domain; InterPro: IPR006037 The regulator of K+ conductance (RCK) domain is found in many ligand-gated K+ channels, most often attached to the intracellular carboxy terminus. The domain is prevalent among prokaryotic K+ channels, and also found in eukaryotic, high-conductance Ca2+-activated K+ channels (BK channels) [, , ]. Largely involved in redox-linked regulation of potassium channels, the N-terminal part of the RCK domain is predicted to be an active dehydrogenase at least in some cases []. Some have a conserved sequence motif (G-x-G-x-x-G-x(n)-[DE]) for NAD+ binding [], but others do not, reflecting the diversity of ligands for RCK domains. The C-terminal part is less conserved, being absent in some channels, such as the kefC antiporter from Escherichia coli. It is predicted to bind unidentified ligands and to regulate sulphate, sodium and other transporters. The X-ray structure of several RCK domains has been solved [, , ]. It reveals an alpha-beta fold similar to dehydrogenase enzymes. The domain forms a homodimer, producing a cleft between two lobes. It has a composite structure, with an N-terminal (RCK-N), and a C-terminal (RCK-C) subdomain. The RCK-N subdomain forms a Rossmann fold with two alpha helices on one side of a six stranded parallel beta sheet and three alpha helices on the other side. The RCK-C subdomain is an all-beta-strand fold. It forms an extention of the dimer interface and further stabilises the RCK homodimer [, , ]. Ca2+ is a ligand that opens the channel in a concentration-dependent manner. Two Ca2+ ions are located at the base of a cleft between two RCK domains, coordinated by the carboxylate groups of two glutamate residues, and by an aspartate residue [, , ]. RCK domains occur in at least five different contexts: As a single domain on the C terminus of some K+ channels (for example, many prokaryotic K+ channels). As two tandem RCK domains on the C terminus of some transporters that form gating rings (for example, eukaryotic BK channels). The gating ring has an arrangement of eight identical RCK domains, one from each of the four pore-forming subunits and four from the intracellular solution. As two domains, one at the N terminus and another at the C terminus of transporter (for example, the prokaryotic trk system potassium uptake protein A). As a soluble protein (not part of a K+ channel) consisting of two tandem RCK domains. As a soluble protein consisting of a single RCK domain. This entry represents the C-terminal subdomain of RCK.; GO: 0008324 cation transmembrane transporter activity, 0006813 potassium ion transport; PDB: 2BKP_A 1VCT_A 2BKO_A 2BKN_A 3L4B_C 2FY8_D 2AEF_A 1LNQ_E 3RBX_C 3KXD_A ....
Probab=58.29 E-value=5.8 Score=25.93 Aligned_cols=21 Identities=19% Similarity=0.539 Sum_probs=14.0
Q ss_pred eeccceeeEecCceeeecccc
Q psy3908 146 LQSDGARIVNIGEVLLPKSEV 166 (170)
Q Consensus 146 ~~~~~~~Tl~aGe~L~l~g~~ 166 (170)
..+.++.+|++||.|.++|..
T Consensus 40 ~~p~~~~~l~~gD~l~v~g~~ 60 (71)
T PF02080_consen 40 IIPDGDTVLQAGDILIVVGDP 60 (71)
T ss_dssp ES--TT-BE-TTEEEEEEEEH
T ss_pred ECCCCCCEECCCCEEEEEECH
Confidence 445568899999999999863
No 3
>PF10660 MitoNEET_N: Iron-containing outer mitochondrial membrane protein N-terminus ; InterPro: IPR019610 The CDGSH iron sulphur domain are a group of iron-sulphur (Fe-S) clusters and a unique 39 amino acid CDGSH domain [C-X-C-X2-(S/T)-X3-P-X-C-D-G-(S/A/T)-H]. The CDGSH iron sulphur domain protein (also referred to as mitoNEET) is an integral membrane protein located in the outer mitochondrial membrane and whose function may be to transport iron into the mitochondria []. Iron in turn is essential for the function of several mitochondrial enzymes. This entry represents the N-terminal of the mitoNEET and Miner-type proteins that carry a CDGSH-type cluster-binding domain (IPR018967 from INTERPRO) that coordinate a redox-active 2Fe-2S cluster. In the outer mitochondrian membrane (OMM), the CDGSH 2Fe-2S-containing domain is oriented towards the cytoplasm and is tethered to the mitochondrial membrane by the N-terminal domain found in higher vertebrates [, , ]. The whole protein regulates oxidative capacity and may function in electron transfer, for instance in redox reactions with metabolic intermediates, cofactors and/or proteins localized at the OMM.; GO: 0051537 2 iron, 2 sulfur cluster binding, 0043231 intracellular membrane-bounded organelle; PDB: 2R13_A 3REE_A 2QD0_B.
Probab=53.72 E-value=4.3 Score=29.12 Aligned_cols=14 Identities=36% Similarity=1.058 Sum_probs=0.0
Q ss_pred eeeeCCCCCceeEE
Q psy3908 88 RIDIPENYPGYFEL 101 (170)
Q Consensus 88 kI~IP~~Y~G~F~L 101 (170)
.+.||+++.|||+|
T Consensus 18 ~lPiP~s~gg~f~L 31 (64)
T PF10660_consen 18 SLPIPDSFGGFFKL 31 (64)
T ss_dssp --------------
T ss_pred cccccccccccccc
Confidence 37899999999996
No 4
>PF12736 CABIT: Cell-cycle sustaining, positive selection,
Probab=49.33 E-value=81 Score=26.13 Aligned_cols=75 Identities=24% Similarity=0.367 Sum_probs=44.9
Q ss_pred cccHHHHhhhcCCCeeEEeccCcccccCccCCCCCCccee--EeeeeccceeeeeeeehhhhcCceeccccceeeeCCCC
Q psy3908 18 GQYLREFVSKNSLPTVVKIIKGQYGNLGVPTLPSPGLQST--VLLVSAGKRQKIIAQAVKLKEGRRFVGVGSRIDIPENY 95 (170)
Q Consensus 18 ~~~L~~~vsk~rLP~vvri~~Gqy~~lGvp~l~~~slq~~--~Ll~sa~~r~~i~aqa~kl~Egr~v~~IGPkI~IP~~Y 95 (170)
...|++++.+++||.-+|+..|. |.++.-.+..+ +-|.+.--..-++|+++. +.+..+. +.||.+-
T Consensus 166 ~ytL~el~~~~~LP~~vk~~~~~------~~~~~d~~~~~~~l~l~~~~~e~~~~~~~~~--~~~~~~~----~eiP~~l 233 (256)
T PF12736_consen 166 RYTLKELLQQFRLPCNVKVVSGD------PSLPRDPLHFTPELRLEELIEEPFLVASALM--KPRETIS----VEIPSDL 233 (256)
T ss_pred ceEHHHHHhccCCCeEEEEecCC------CCCcccccccCCceEEeeeEeeeEEEEEECC--CCCcceE----EEeCCCC
Confidence 48899999999999999999777 33332122221 333333334556666665 3333211 6888886
Q ss_pred CceeEEecc
Q psy3908 96 PGYFELLSE 104 (170)
Q Consensus 96 ~G~F~LLse 104 (170)
.=.|.....
T Consensus 234 ~v~v~~~~~ 242 (256)
T PF12736_consen 234 DVKVVDVTG 242 (256)
T ss_pred ceEEEECcc
Confidence 555555544
No 5
>PF15414 DUF4621: Protein of unknown function (DUF4621)
Probab=47.62 E-value=17 Score=32.44 Aligned_cols=62 Identities=32% Similarity=0.369 Sum_probs=50.8
Q ss_pred HHhhhcCCCeeEEeccCcccccCccCCCCCCcceeEeeeeccceeeeeeeehhhhcCceeccccceeeeCCCCCceeEEe
Q psy3908 23 EFVSKNSLPTVVKIIKGQYGNLGVPTLPSPGLQSTVLLVSAGKRQKIIAQAVKLKEGRRFVGVGSRIDIPENYPGYFELL 102 (170)
Q Consensus 23 ~~vsk~rLP~vvri~~Gqy~~lGvp~l~~~slq~~~Ll~sa~~r~~i~aqa~kl~Egr~v~~IGPkI~IP~~Y~G~F~LL 102 (170)
.||.+-+||-++.|.+ |..-|-+||..+||+-|-|-.|.|=||- +.+|++-.-.|.-+
T Consensus 152 kfvkneklpgivqivp----------------qkihlslsadskqwtnapadalselrya------velpltpapefsav 209 (329)
T PF15414_consen 152 KFVKNEKLPGIVQIVP----------------QKIHLSLSADSKQWTNAPADALSELRYA------VELPLTPAPEFSAV 209 (329)
T ss_pred hhhhcccCCceEEeec----------------cceEEEeecchhhhccCchHHHHhhHhh------eeccCCCCccccee
Confidence 4788889999988862 4456778899999999999999999996 57888888888877
Q ss_pred ccCC
Q psy3908 103 SEEG 106 (170)
Q Consensus 103 sed~ 106 (170)
|-++
T Consensus 210 sver 213 (329)
T PF15414_consen 210 SVER 213 (329)
T ss_pred ehhh
Confidence 7655
No 6
>PF08615 RNase_H2_suC: Ribonuclease H2 non-catalytic subunit (Ylr154p-like); InterPro: IPR013924 Whereas bacterial and archaeal RNases H2 are active as single polypeptides, the Saccharomyces cerevisiae (Baker's yeast) homologue, Rnh2Ap, when expressed in Escherichia coli, fails to produce an active RNase H2. For RNase H2 activity three proteins are required [Rnh2Ap (Rnh201p), Ydr279p (Rnh202p) and Ylr154p (Rnh203p)]. Deletion of any one of the proteins or mutations in the catalytic site in Rnh2A leads to loss of RNase H2 activity []. RNase H2 is an endonuclease that specifically degrades the RNA of RNA:DNA hybrids. It participates in DNA replication, possibly by mediating the removal of lagging-strand Okazaki fragment RNA primers during DNA replication. This entry represents the non-catalytic C subunit of RNase H2, which in S. cerevisiae is Q12338 from SWISSPROT (Ylr154p/Rnh203p).; PDB: 3PUF_L 3P56_C 3P5J_C 3KIO_C.
Probab=45.03 E-value=9.2 Score=29.19 Aligned_cols=26 Identities=31% Similarity=0.629 Sum_probs=19.8
Q ss_pred cCceeccccceeeeCCCCCceeEEeccC
Q psy3908 78 EGRRFVGVGSRIDIPENYPGYFELLSEE 105 (170)
Q Consensus 78 Egr~v~~IGPkI~IP~~Y~G~F~LLsed 105 (170)
+||+. +|=++.+|++|.|+.---++.
T Consensus 46 RGR~L--~G~~l~lP~gy~g~vl~~~~~ 71 (137)
T PF08615_consen 46 RGRKL--RGKELSLPEGYRGVVLSKSNK 71 (137)
T ss_dssp TTEEE--EEEEEE--TTEEEEEEECCTT
T ss_pred cCcEE--eccEeecCCCceEEEEEecCC
Confidence 89999 999999999999986554443
No 7
>PF05899 Cupin_3: Protein of unknown function (DUF861); InterPro: IPR008579 The function of the proteins in this entry are unknown. They contain the conserved barrel domain of the 'cupin' superfamily and members are specific to plants and bacteria.; PDB: 1RC6_A 3MYX_A 1O5U_A 2K9Z_A 1LKN_A 3ES4_A 1SFN_B 3BCW_A.
Probab=32.02 E-value=84 Score=21.75 Aligned_cols=28 Identities=18% Similarity=0.299 Sum_probs=18.5
Q ss_pred eeeeeeeeee---ecCCCCeeccceeeEecCceeee
Q psy3908 130 REAIKGIVAK---YDEEGNLQSDGARIVNIGEVLLP 162 (170)
Q Consensus 130 ~E~Ir~~~~~---~~ed~~~~~~~~~Tl~aGe~L~l 162 (170)
.|.+-++.++ .++||+ ..++.|||.+.+
T Consensus 26 ~E~~~vleG~v~it~~~G~-----~~~~~aGD~~~~ 56 (74)
T PF05899_consen 26 DEFFYVLEGEVTITDEDGE-----TVTFKAGDAFFL 56 (74)
T ss_dssp EEEEEEEEEEEEEEETTTE-----EEEEETTEEEEE
T ss_pred CEEEEEEEeEEEEEECCCC-----EEEEcCCcEEEE
Confidence 4444445554 356775 579999998875
No 8
>PF14400 Transglut_i_TM: Inactive transglutaminase fused to 7 transmembrane helices
Probab=29.31 E-value=1e+02 Score=25.51 Aligned_cols=51 Identities=39% Similarity=0.539 Sum_probs=36.2
Q ss_pred cccCccCCCCCCcceeEeeeeccceeeeeeeehhhhcCceeccccceeeeCCCCCceeEEeccCC
Q psy3908 42 GNLGVPTLPSPGLQSTVLLVSAGKRQKIIAQAVKLKEGRRFVGVGSRIDIPENYPGYFELLSEEG 106 (170)
Q Consensus 42 ~~lGvp~l~~~slq~~~Ll~sa~~r~~i~aqa~kl~Egr~v~~IGPkI~IP~~Y~G~F~LLsed~ 106 (170)
..+|+|.+| +++..+-.+.| |-...|+- . +|==.+.+|.+-+| |.+|+|+-
T Consensus 4 ~~~gvP~~P--ge~~~vW~VEA--rV~F~a~g------~---pvkvsl~lP~~~pg-f~il~E~~ 54 (165)
T PF14400_consen 4 IVLGVPLLP--GEQRQVWNVEA--RVEFDATG------G---PVKVSLALPDTQPG-FTILDENF 54 (165)
T ss_pred EEeCCCCCC--CCceeEEEEEE--EEEEecCC------C---CEEEEEcCCCCCCC-eEEEcccc
Confidence 467999888 89988888888 44444332 1 12347899999998 67888765
No 9
>cd05888 Ig1_Nectin-4_like Frst immunoglobulin (Ig) domain of nectin-4 (also known as poliovirus receptor related protein 4, or as LNIR receptor) and similar proteins. Ig1_Nectin-4_like: domain similar to the first immunoglobulin (Ig) domain of nectin-4 (also known as poliovirus receptor related protein 4, or as LNIR receptor). Nectin-4 belongs to the nectin family, which is comprised of four transmembrane glycoproteins (nectins-1 through -4). Nectins are synaptic cell adhesion molecules (CAMs) which participate in adhesion and signaling at various intracellular junctions. Nectins form homophilic cis-dimers, followed by homophilic and heterophilic trans-dimers involved in cell-cell adhesion. For example nectin-4 trans-interacts with nectin-1. Nectin-4 has also been shown to interact with the actin filament-binding protein, afadin. Unlike the other nectins, which are widely expressed in adult tissues, nectin-4 is mainly expressed during embryogenesis, and is not detected in normal adult
Probab=27.61 E-value=37 Score=24.16 Aligned_cols=20 Identities=40% Similarity=0.694 Sum_probs=17.6
Q ss_pred CCCceEEEeeeeecCCcccH
Q psy3908 2 ATDGQILLATAKWSDEGQYL 21 (170)
Q Consensus 2 atd~~i~l~~~~Ws~~~~~L 21 (170)
..|++|.+..++.||++.|-
T Consensus 61 ~~~~sL~I~nv~~sD~GtY~ 80 (100)
T cd05888 61 IADGALILRNAVQADEGKYK 80 (100)
T ss_pred CCceEEEEecCccccceEEE
Confidence 46899999999999999884
No 10
>PF13464 DUF4115: Domain of unknown function (DUF4115)
Probab=27.12 E-value=59 Score=22.44 Aligned_cols=24 Identities=17% Similarity=0.210 Sum_probs=17.4
Q ss_pred ecCCCCeeccceeeEecCceeeeccc
Q psy3908 140 YDEEGNLQSDGARIVNIGEVLLPKSE 165 (170)
Q Consensus 140 ~~ed~~~~~~~~~Tl~aGe~L~l~g~ 165 (170)
.|.||++. +..++++||++++.++
T Consensus 14 ~d~dG~~~--~~~~l~~G~~~~~~~~ 37 (77)
T PF13464_consen 14 TDADGKVL--FSGTLKAGETKTFEGK 37 (77)
T ss_pred EeCCCcEe--eeeeeCCCcEEEEeCC
Confidence 35677643 3789999999998654
No 11
>PF05688 DUF824: Salmonella repeat of unknown function (DUF824); InterPro: IPR008542 This family consists of a series of repeated sequences (of around 180 residues) which are found in Salmonella typhimurium, Salmonella typhi and Escherichia coli. These repeats are almost always found with this entry. The repeats are associated with RatA and RatB, the coding sequences of which are found in the pathogeneicity island of Salmonella. The sequences may be determinants of pathogenicity [, ].
Probab=26.88 E-value=91 Score=21.05 Aligned_cols=33 Identities=21% Similarity=0.213 Sum_probs=26.7
Q ss_pred EeeeeeeeeeeecCCCCeeccceeeEecCceee
Q psy3908 129 IREAIKGIVAKYDEEGNLQSDGARIVNIGEVLL 161 (170)
Q Consensus 129 v~E~Ir~~~~~~~ed~~~~~~~~~Tl~aGe~L~ 161 (170)
+=|.|...+.-.|-+|+.++...|||.-|+-..
T Consensus 11 ~Ge~I~ltVt~kda~G~pv~n~~f~l~r~~~~n 43 (47)
T PF05688_consen 11 VGETIPLTVTVKDANGNPVPNAPFTLTRGDAKN 43 (47)
T ss_pred cCCeEEEEEEEECCCCCCcCCceEEEEecCccc
Confidence 457888877778889999988889999887654
No 12
>TIGR02988 YaaA_near_RecF S4 domain protein YaaA. This small protein has a single S4 domain (pfam01479), as do bacterial ribosomal protein S4, some pseudouridine synthases, tyrosyl-tRNA synthetases. The S4 domain may bind RNA. Members of this protein family are found almost exclusively in the Firmicutes, and almost invariably just a few nucleotides upstream of the gene for the DNA replication and repair protein RecF. The few members of this family that are not near recF are found instead near dnaA and/or dnaN, the usual neighbors of recF, near the origin of replication. The conserved location suggests a possible role in replication in the Firmicutes lineage.
Probab=23.96 E-value=42 Score=22.07 Aligned_cols=21 Identities=19% Similarity=0.352 Sum_probs=14.3
Q ss_pred CCCeeccceeeEecCceeeec
Q psy3908 143 EGNLQSDGARIVNIGEVLLPK 163 (170)
Q Consensus 143 d~~~~~~~~~Tl~aGe~L~l~ 163 (170)
||.+....+..|.+||+|.+|
T Consensus 39 Ng~~~~~~~~~l~~Gd~v~i~ 59 (59)
T TIGR02988 39 NGELENRRGKKLYPGDVIEIP 59 (59)
T ss_pred CCEEccCCCCCCCCCCEEEeC
Confidence 334333446789999999875
No 13
>COG0569 TrkA K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]
Probab=23.81 E-value=98 Score=25.64 Aligned_cols=21 Identities=14% Similarity=0.256 Sum_probs=18.6
Q ss_pred CeeccceeeEecCceeeeccc
Q psy3908 145 NLQSDGARIVNIGEVLLPKSE 165 (170)
Q Consensus 145 ~~~~~~~~Tl~aGe~L~l~g~ 165 (170)
.+.++++.+|++||.|+..|.
T Consensus 189 ~~~p~g~~~l~~gD~l~v~~~ 209 (225)
T COG0569 189 LIIPRGDTTLEAGDRLIVIGA 209 (225)
T ss_pred eecCCCCCEecCCCEEEEEEc
Confidence 477889999999999999885
No 14
>PF13275 S4_2: S4 domain; PDB: 1P9K_A.
Probab=23.11 E-value=52 Score=23.42 Aligned_cols=27 Identities=15% Similarity=0.262 Sum_probs=14.6
Q ss_pred cCCCCeeccceeeEecCceeeeccccc
Q psy3908 141 DEEGNLQSDGARIVNIGEVLLPKSEVT 167 (170)
Q Consensus 141 ~ed~~~~~~~~~Tl~aGe~L~l~g~~~ 167 (170)
.=||++.....+-|++||++...|+.+
T Consensus 36 ~VNGe~e~rrg~Kl~~GD~V~~~~~~~ 62 (65)
T PF13275_consen 36 KVNGEVETRRGKKLRPGDVVEIDGEEY 62 (65)
T ss_dssp EETTB----SS----SSEEEEETTEEE
T ss_pred EECCEEccccCCcCCCCCEEEECCEEE
Confidence 346777767789999999999987654
No 15
>TIGR03432 yjhG_yagF probable dehydratase, YjhG/YagF family. This homolog of dihydroxy-acid dehydratases has an odd, sparse distribution. Members are found in two Acidobacteria, two Planctomycetes, Bacillus clausii KSM-K16, and (in two copies each) in strains K12-MG1655 and W3110 of Escherichia coli. The local context is not well conserved, but a few members are adjacent to homologs of the gluconate:H+ symporter (see TIGR00791).
Probab=21.67 E-value=65 Score=32.05 Aligned_cols=31 Identities=19% Similarity=0.395 Sum_probs=20.5
Q ss_pred cHHHHhh-hcCCCeeEEec-cCc--c------cccCccCCC
Q psy3908 20 YLREFVS-KNSLPTVVKII-KGQ--Y------GNLGVPTLP 50 (170)
Q Consensus 20 ~L~~~vs-k~rLP~vvri~-~Gq--y------~~lGvp~l~ 50 (170)
.|++|-. .-+.|.++++- .|+ | ...|+|.+-
T Consensus 323 tlddfd~is~~vP~L~~l~P~G~~~~~~~d~~~AGGvpaVm 363 (640)
T TIGR03432 323 TVDDWTRINRKVPRLVDALPNGPVGHPTVRVFLAGGVPEVM 363 (640)
T ss_pred CHHHHHHHhcccCceEEeccCCCCCccHHHHHHccCHHHHH
Confidence 5677743 23789999996 455 2 355888665
No 16
>TIGR00061 L21 ribosomal protein L21. Eubacterial and chloroplast.
Probab=21.62 E-value=90 Score=23.78 Aligned_cols=48 Identities=17% Similarity=0.268 Sum_probs=36.7
Q ss_pred hhcCCCeeEEeccCcccccCccCCCCCCcceeEeeeeccceeeeeeeehh
Q psy3908 26 SKNSLPTVVKIIKGQYGNLGVPTLPSPGLQSTVLLVSAGKRQKIIAQAVK 75 (170)
Q Consensus 26 sk~rLP~vvri~~Gqy~~lGvp~l~~~slq~~~Ll~sa~~r~~i~aqa~k 75 (170)
++..|+.|.-+..|+...+|.|.|+ +....|-++.+.+-.+|++-=.+
T Consensus 30 ~~i~l~~VLlv~~~~~~~iG~P~l~--~a~V~a~V~~~~r~~Ki~vfK~k 77 (101)
T TIGR00061 30 DTVEFDKVLMVNKGGDVKIGKPYVE--GAKVVAEVEKHGRGKKVKVYKYR 77 (101)
T ss_pred CEEEEEEEEEEecCCCeEECCeEcC--CCEEEEEEEeecCCCCEEEEEeC
Confidence 5567888888877888899999998 55667778888777777755443
No 17
>PF06481 COX_ARM: COX Aromatic Rich Motif; InterPro: IPR010514 COX2 (Cytochrome O ubiquinol OXidase 2) is a major component of the respiratory complex during vegetative growth. It transfers electrons from a quinol to the binuclear centre of the catalytic subunit 1. The function of this region is not known.; GO: 0008827 cytochrome o ubiquinol oxidase activity, 0022900 electron transport chain, 0055114 oxidation-reduction process, 0016021 integral to membrane; PDB: 1CYX_A 1CYW_A 1FFT_G.
Probab=20.52 E-value=17 Score=23.78 Aligned_cols=17 Identities=12% Similarity=0.192 Sum_probs=8.5
Q ss_pred EEeccCC--ceeeeeehHH
Q psy3908 100 ELLSEEG--KSMRCCETVL 116 (170)
Q Consensus 100 ~LLsed~--~~vR~fesV~ 116 (170)
.-|.+.+ .+|+||+||+
T Consensus 13 ~~La~PS~~~pv~yfssv~ 31 (47)
T PF06481_consen 13 DELAKPSENNPVTYFSSVE 31 (47)
T ss_dssp HHHCSS-SS--SEEES-B-
T ss_pred HHHHCcCcCCCceeeccCC
Confidence 3344555 4999999986
Done!