Query 043467
Match_columns 90
No_of_seqs 109 out of 186
Neff 2.6
Searched_HMMs 46136
Date Fri Mar 29 05:21:55 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/043467.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/043467hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF04770 ZF-HD_dimer: ZF-HD pr 100.0 9.9E-42 2.2E-46 219.6 3.5 57 27-83 2-60 (60)
2 TIGR01566 ZF_HD_prot_N ZF-HD h 100.0 7.3E-41 1.6E-45 211.8 3.0 51 30-80 1-53 (53)
3 PHA02887 EGF-like protein; Pro 70.9 3.6 7.8E-05 30.3 2.2 60 6-76 50-117 (126)
4 PHA02893 hypothetical protein; 68.2 2.3 5.1E-05 29.6 0.7 20 52-71 57-77 (88)
5 cd00029 C1 Protein kinase C co 68.1 2.7 5.8E-05 23.3 0.8 29 46-78 13-41 (50)
6 PF13698 DUF4156: Domain of un 63.4 3.4 7.3E-05 27.6 0.8 16 33-48 52-67 (93)
7 PF00130 C1_1: Phorbol esters/ 55.4 11 0.00024 21.5 1.9 29 46-78 13-41 (53)
8 smart00109 C1 Protein kinase C 53.7 7.8 0.00017 21.0 1.1 27 46-77 13-39 (49)
9 PF05077 DUF678: Protein of un 48.3 9.2 0.0002 25.9 0.9 10 62-71 56-65 (74)
10 PF01485 IBR: IBR domain; Int 39.7 24 0.00053 20.1 1.7 29 49-77 25-60 (64)
11 smart00661 RPOL9 RNA polymeras 38.0 27 0.00058 19.8 1.7 24 49-72 5-29 (52)
12 PF00628 PHD: PHD-finger; Int 35.5 31 0.00067 19.4 1.7 17 61-79 12-28 (51)
13 PF01873 eIF-5_eIF-2B: Domain 31.0 24 0.00052 24.9 0.9 13 61-73 112-124 (125)
14 PRK00432 30S ribosomal protein 29.2 34 0.00073 20.7 1.2 19 50-71 26-45 (50)
15 PRK03988 translation initiatio 25.5 37 0.00081 24.4 1.1 14 62-75 122-135 (138)
16 PF13771 zf-HC5HC2H: PHD-like 24.0 39 0.00085 20.9 0.8 16 62-77 48-63 (90)
17 KOG2767 Translation initiation 23.2 22 0.00048 30.4 -0.6 14 62-75 117-130 (400)
18 TIGR00311 aIF-2beta translatio 23.1 41 0.00089 24.1 0.9 14 62-75 117-130 (133)
19 cd02249 ZZ Zinc finger, ZZ typ 22.6 75 0.0016 18.2 1.8 19 47-70 3-21 (46)
20 PRK12336 translation initiatio 22.3 43 0.00093 25.0 0.9 19 62-80 118-136 (201)
21 PRK00398 rpoP DNA-directed RNA 21.2 64 0.0014 18.4 1.3 22 49-71 8-29 (46)
No 1
>PF04770 ZF-HD_dimer: ZF-HD protein dimerisation region; InterPro: IPR006456 The homeodomain (HD) is a 60-amino acid DNA-binding domain found in many transcription factors. HD-containing proteins are found in diverse organisms such as humans, Drosophila, nematode worms, and plants, where they play important roles in development. Zinc-finger-homeodomain (ZF- HD) subfamily proteins have only been identified in plants, and likely play plant specific roles. ZF-HD proteins are expressed predominantly or exclusively in floral tissue, indicating a likely regulatory role during floral development []. The ZF-HD class of homeodomain proteins may also be involved in the photosynthesis-related mesophyll-specific gene expression of phosphoenolpyruvate carboxylase in C4 species [] and in pathogen signaling and plant defense mechanisms []. These proteins share three domains of high sequence similarity: the homeodomain (II) located at the carboxy-terminus, and two other segments (Ia and Ib) located in the amino-terminal part. These N-terminal domains contain five conserved cysteine residues and at least three conserved histidine residues whose spacing ressembles zinc-binding domains involved in dimerization of transcription factors. Although the two domains contain at least eight potential zinc-binding amino-acids, the unique spacing of the conserved cysteine and histidine residues within domain Ib suggests that both domains form one rather than two zinc finger structures. The two conserved motifs Ia and Ib constitute a dimerization domain which is sufficient for the formation of homo- and heterodimers []. This entry represents the N-terminal Cysteine/Histidine-rich dimerization domain. The companion ZF-HD homeobox domain is described in IPR006455 from INTERPRO.
Probab=100.00 E-value=9.9e-42 Score=219.65 Aligned_cols=57 Identities=77% Similarity=1.324 Sum_probs=54.1
Q ss_pred cceehHHHhhhhhhccCCccccCccccccC-CCCCC-CceeecCcCccccccccccccc
Q 043467 27 RCVRYAECQKNHAANIGGYAVDGCREFMAS-GENGT-GALTCAACGCHRNFHRREEETE 83 (90)
Q Consensus 27 ~~v~Y~EC~kNHAa~~Gg~avDGCgEFm~~-g~egt-~aL~CaACgCHRnFHRre~~~~ 83 (90)
+.|+|+|||||||+++|||+||||+||||+ +++|+ ++|+||||||||||||||+++|
T Consensus 2 ~~v~Y~EC~kNHAa~~Gg~a~DGCgEFm~~~g~eg~~~al~CaACgCHRnFHRre~~~e 60 (60)
T PF04770_consen 2 KVVRYRECLKNHAASIGGHAVDGCGEFMPSPGEEGTPEALKCAACGCHRNFHRREVEGE 60 (60)
T ss_pred CceeHHHHHhhHhHhhCCcccccccccccCCCCCCCcccceecccCcchhcccCCcCCC
Confidence 478999999999999999999999999999 88888 9999999999999999999875
No 2
>TIGR01566 ZF_HD_prot_N ZF-HD homeobox protein Cys/His-rich dimerization domain. This model describes a 54-residue domain found in the N-terminal region of plant proteins, the vast majority of which contain a ZF-HD class homeobox domain toward the C-terminus. The region between the two domains typically is rich in low complexity sequence. The companion ZF-HD homeobox domain is described in model TIGR01565.
Probab=100.00 E-value=7.3e-41 Score=211.80 Aligned_cols=51 Identities=73% Similarity=1.333 Sum_probs=48.4
Q ss_pred ehHHHhhhhhhccCCccccCcccccc-CCCCCC-CceeecCcCcccccccccc
Q 043467 30 RYAECQKNHAANIGGYAVDGCREFMA-SGENGT-GALTCAACGCHRNFHRREE 80 (90)
Q Consensus 30 ~Y~EC~kNHAa~~Gg~avDGCgEFm~-~g~egt-~aL~CaACgCHRnFHRre~ 80 (90)
+|+||||||||++|||+||||+|||| ++++|+ ++|+||||||||||||||+
T Consensus 1 ~Y~EC~kNHAa~~Gg~a~DGCgEFmps~g~~~~~~al~CaACgCHRnFHRre~ 53 (53)
T TIGR01566 1 LYKECLKNHAASIGGHALDGCGEFMPSSGEEGDPESLTCAACGCHRNFHRKEP 53 (53)
T ss_pred CHHHHHHhhHHHhCCcccccccccccCCCCCCCCcceeeeecCcccccccCCC
Confidence 69999999999999999999999999 677888 9999999999999999985
No 3
>PHA02887 EGF-like protein; Provisional
Probab=70.95 E-value=3.6 Score=30.28 Aligned_cols=60 Identities=13% Similarity=0.332 Sum_probs=42.4
Q ss_pred eEEEeccCCCCCCC--------CCCcccccceehHHHhhhhhhccCCccccCccccccCCCCCCCceeecCcCcccccc
Q 043467 6 QVVVKRESSSRRSS--------STSSSMLRCVRYAECQKNHAANIGGYAVDGCREFMASGENGTGALTCAACGCHRNFH 76 (90)
Q Consensus 6 ~vv~~r~~~~~~~s--------~~~~~~~~~v~Y~EC~kNHAa~~Gg~avDGCgEFm~~g~egt~aL~CaACgCHRnFH 76 (90)
..|+||+.++--++ .........+.|.+|...|. ++.+-|=.+|++.-. =+.|.|+.+|.
T Consensus 50 l~~i~rn~e~h~s~~~y~en~~~~~~~rk~~~hf~pC~~eyk----~YCiHG~C~yI~dL~-------epsCrC~~GYt 117 (126)
T PHA02887 50 LAIIKRNFESHISKFNYKENANAQNFKRKNSMFFEKCKNDFN----DFCINGECMNIIDLD-------EKFCICNKGYT 117 (126)
T ss_pred eeeeecccccceeeeehhccccccchhhccccCccccChHhh----CEeeCCEEEccccCC-------CceeECCCCcc
Confidence 46788887763322 12223345578999999987 788999889998643 26799999885
No 4
>PHA02893 hypothetical protein; Provisional
Probab=68.16 E-value=2.3 Score=29.62 Aligned_cols=20 Identities=25% Similarity=0.777 Sum_probs=13.2
Q ss_pred ccccCCCCCC-CceeecCcCc
Q 043467 52 EFMASGENGT-GALTCAACGC 71 (90)
Q Consensus 52 EFm~~g~egt-~aL~CaACgC 71 (90)
||.+.|.-+. ..|.|+|||-
T Consensus 57 ~~~~~Gk~~~~~tL~CaACGS 77 (88)
T PHA02893 57 DYLNIGKAFSNSNIKCIACGS 77 (88)
T ss_pred HHHhccccCCCCceeehhhch
Confidence 4555444333 6899999993
No 5
>cd00029 C1 Protein kinase C conserved region 1 (C1) . Cysteine-rich zinc binding domain. Some members of this domain family bind phorbol esters and diacylglycerol, some are reported to bind RasGTP. May occur in tandem arrangement. Diacylglycerol (DAG) is a second messenger, released by activation of Phospholipase D. Phorbol Esters (PE) can act as analogues of DAG and mimic its downstream effects in, for example, tumor promotion. Protein Kinases C are activated by DAG/PE, this activation is mediated by their N-terminal conserved region (C1). DAG/PE binding may be phospholipid dependent. C1 domains may also mediate DAG/PE signals in chimaerins (a family of Rac GTPase activating proteins), RasGRPs (exchange factors for Ras/Rap1), and Munc13 isoforms (scaffolding proteins involved in exocytosis).
Probab=68.08 E-value=2.7 Score=23.30 Aligned_cols=29 Identities=24% Similarity=0.430 Sum_probs=20.6
Q ss_pred cccCccccccCCCCCCCceeecCcCcccccccc
Q 043467 46 AVDGCREFMASGENGTGALTCAACGCHRNFHRR 78 (90)
Q Consensus 46 avDGCgEFm~~g~egt~aL~CaACgCHRnFHRr 78 (90)
.=+-|++++.+. +..+++|..| ..+.|.+
T Consensus 13 ~C~~C~~~i~~~--~~~~~~C~~C--~~~~H~~ 41 (50)
T cd00029 13 FCDVCRKSIWGL--FKQGLRCSWC--KVKCHKK 41 (50)
T ss_pred Chhhcchhhhcc--ccceeEcCCC--CCchhhh
Confidence 357799999864 3478999988 4555544
No 6
>PF13698 DUF4156: Domain of unknown function (DUF4156)
Probab=63.45 E-value=3.4 Score=27.57 Aligned_cols=16 Identities=38% Similarity=0.507 Sum_probs=13.3
Q ss_pred HHhhhhhhccCCcccc
Q 043467 33 ECQKNHAANIGGYAVD 48 (90)
Q Consensus 33 EC~kNHAa~~Gg~avD 48 (90)
-=+||.||.+||.+|=
T Consensus 52 NdlrNeAa~lGgntV~ 67 (93)
T PF13698_consen 52 NDLRNEAAKLGGNTVV 67 (93)
T ss_pred HHHHHHHHHhCCCEEE
Confidence 3489999999998773
No 7
>PF00130 C1_1: Phorbol esters/diacylglycerol binding domain (C1 domain); InterPro: IPR002219 Diacylglycerol (DAG) is an important second messenger. Phorbol esters (PE) are analogues of DAG and potent tumour promoters that cause a variety of physiological changes when administered to both cells and tissues. DAG activates a family of serine/threonine protein kinases, collectively known as protein kinase C (PKC) []. Phorbol esters can directly stimulate PKC. The N-terminal region of PKC, known as C1, has been shown [] to bind PE and DAG in a phospholipid and zinc-dependent fashion. The C1 region contains one or two copies (depending on the isozyme of PKC) of a cysteine-rich domain, which is about 50 amino-acid residues long, and which is essential for DAG/PE-binding. The DAG/PE-binding domain binds two zinc ions; the ligands of these metal ions are probably the six cysteines and two histidines that are conserved in this domain.; GO: 0035556 intracellular signal transduction; PDB: 1RFH_A 2FNF_X 3PFQ_A 1PTQ_A 1PTR_A 2VRW_B 1XA6_A 2ENN_A 1TBN_A 1TBO_A ....
Probab=55.41 E-value=11 Score=21.53 Aligned_cols=29 Identities=28% Similarity=0.615 Sum_probs=18.6
Q ss_pred cccCccccccCCCCCCCceeecCcCcccccccc
Q 043467 46 AVDGCREFMASGENGTGALTCAACGCHRNFHRR 78 (90)
Q Consensus 46 avDGCgEFm~~g~egt~aL~CaACgCHRnFHRr 78 (90)
-=|-|++++.+ .+..+++|..|+ ...|.+
T Consensus 13 ~C~~C~~~i~g--~~~~g~~C~~C~--~~~H~~ 41 (53)
T PF00130_consen 13 YCDVCGKFIWG--LGKQGYRCSWCG--LVCHKK 41 (53)
T ss_dssp B-TTSSSBECS--SSSCEEEETTTT---EEETT
T ss_pred CCcccCcccCC--CCCCeEEECCCC--ChHhhh
Confidence 34779999954 233789999875 344443
No 8
>smart00109 C1 Protein kinase C conserved region 1 (C1) domains (Cysteine-rich domains). Some bind phorbol esters and diacylglycerol. Some bind RasGTP. Zinc-binding domains.
Probab=53.74 E-value=7.8 Score=21.03 Aligned_cols=27 Identities=22% Similarity=0.407 Sum_probs=19.0
Q ss_pred cccCccccccCCCCCCCceeecCcCccccccc
Q 043467 46 AVDGCREFMASGENGTGALTCAACGCHRNFHR 77 (90)
Q Consensus 46 avDGCgEFm~~g~egt~aL~CaACgCHRnFHR 77 (90)
.=+.|+++++... .+++|..|+ ...|.
T Consensus 13 ~C~~C~~~i~~~~---~~~~C~~C~--~~~H~ 39 (49)
T smart00109 13 KCCVCRKSIWGSF---QGLRCSWCK--VKCHK 39 (49)
T ss_pred CccccccccCcCC---CCcCCCCCC--chHHH
Confidence 4578999998643 479999874 44443
No 9
>PF05077 DUF678: Protein of unknown function (DUF678); InterPro: IPR007769 This family contains poxvirus proteins belonging to the A19 family. The proteins are of unknown function.
Probab=48.29 E-value=9.2 Score=25.92 Aligned_cols=10 Identities=50% Similarity=1.321 Sum_probs=8.6
Q ss_pred CceeecCcCc
Q 043467 62 GALTCAACGC 71 (90)
Q Consensus 62 ~aL~CaACgC 71 (90)
..|.|+|||-
T Consensus 56 ~tLsCsACGS 65 (74)
T PF05077_consen 56 NTLSCSACGS 65 (74)
T ss_pred CeEeehhccc
Confidence 6799999983
No 10
>PF01485 IBR: IBR domain; InterPro: IPR002867 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents a cysteine-rich (C6HC) zinc finger domain that is present in Triad1, and which is conserved in other proteins encoded by various eukaryotes. The C6HC consensus pattern is: C-x(4)-C-x(14-30)-C-x(1-4)-C-x(4)-C-x(2)-C-x(4)-H-x(4)-C The C6HC zinc finger motif is the fourth family member of the zinc-binding RING, LIM, and LAP/PHD fingers. Strikingly, in most of the proteins the C6HC domain is flanked by two RING finger structures IPR001841 from INTERPRO. The novel C6HC motif has been called DRIL (double RING finger linked). The strong conservation of the larger tripartite TRIAD (twoRING fingers and DRIL) structure indicates that the three subdomains are functionally linked and identifies a novel class of proteins []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding; PDB: 2CT7_A 1WD2_A 2JMO_A 1WIM_A.
Probab=39.67 E-value=24 Score=20.05 Aligned_cols=29 Identities=24% Similarity=0.794 Sum_probs=16.2
Q ss_pred CccccccCCCCCCC-ceeecCcC------ccccccc
Q 043467 49 GCREFMASGENGTG-ALTCAACG------CHRNFHR 77 (90)
Q Consensus 49 GCgEFm~~g~egt~-aL~CaACg------CHRnFHR 77 (90)
+|+.++........ ..+|.+|+ |...+|.
T Consensus 25 ~C~~~~~~~~~~~~~~~~C~~C~~~fC~~C~~~~H~ 60 (64)
T PF01485_consen 25 DCEYIIEKDDGCNSPIVTCPSCGTEFCFKCGEPWHE 60 (64)
T ss_dssp ST---ECS-SSTTS--CCTTSCCSEECSSSTSESCT
T ss_pred CCcccEEecCCCCCCeeECCCCCCcCccccCcccCC
Confidence 58888876443332 38899886 6777775
No 11
>smart00661 RPOL9 RNA polymerase subunit 9.
Probab=38.05 E-value=27 Score=19.80 Aligned_cols=24 Identities=21% Similarity=0.624 Sum_probs=15.5
Q ss_pred CccccccCCCCCC-CceeecCcCcc
Q 043467 49 GCREFMASGENGT-GALTCAACGCH 72 (90)
Q Consensus 49 GCgEFm~~g~egt-~aL~CaACgCH 72 (90)
-||..|...+... .-+.|..||-|
T Consensus 5 ~Cg~~l~~~~~~~~~~~vC~~Cg~~ 29 (52)
T smart00661 5 KCGNMLIPKEGKEKRRFVCRKCGYE 29 (52)
T ss_pred CCCCccccccCCCCCEEECCcCCCe
Confidence 4777765543222 46889999955
No 12
>PF00628 PHD: PHD-finger; InterPro: IPR019787 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents the PHD (homeodomain) zinc finger domain [,], which is a C4HC3 zinc-finger-like motif found in nuclear proteins thought to be involved in chromatin-mediated transcriptional regulation. The PHD finger motif is reminiscent of, but distinct from the C3HC4 type RING finger. The function of this domain is not yet known but in analogy with the LIM domain it could be involved in protein-protein interaction and be important for the assembly or activity of multicomponent complexes involved in transcriptional activation or repression. Alternatively, the interactions could be intra-molecular and be important in maintaining the structural integrity of the protein. In similarity to the RING finger and the LIM domain, the PHD finger is thought to bind two zinc ions. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0005515 protein binding; PDB: 3ZVY_A 2LGG_A 3SOW_A 3SOU_B 3ASL_A 3ASK_A 3ZVZ_B 3T6R_A 2LGK_A 3SOX_B ....
Probab=35.54 E-value=31 Score=19.37 Aligned_cols=17 Identities=24% Similarity=0.730 Sum_probs=13.0
Q ss_pred CCceeecCcCccccccccc
Q 043467 61 TGALTCAACGCHRNFHRRE 79 (90)
Q Consensus 61 t~aL~CaACgCHRnFHRre 79 (90)
.+.+.|.. |.+.||..=
T Consensus 12 ~~~i~C~~--C~~~~H~~C 28 (51)
T PF00628_consen 12 GDMIQCDS--CNRWYHQEC 28 (51)
T ss_dssp SSEEEBST--TSCEEETTT
T ss_pred CCeEEcCC--CChhhCccc
Confidence 37899995 569999763
No 13
>PF01873 eIF-5_eIF-2B: Domain found in IF2B/IF5; InterPro: IPR002735 The beta subunit of archaeal and eukaryotic translation initiation factor 2 (IF2beta) and the N-terminal domain of translation initiation factor 5 (IF5) show significant sequence homology []. Archaeal IF2beta contains two independent structural domains: an N-terminal mixed alpha/beta core domain (topological similarity to the common core of ribosomal proteins L23 and L15e), and a C-terminal domain consisting of a zinc-binding C4 finger []. Archaeal IF2beta is a ribosome-dependent GTPase that stimulates the binding of initiator Met-tRNA(i)(Met) to the ribosomes, even in the absence of other factors []. The C-terminal domain of eukaryotic IF5 is involved in the formation of the multi-factor complex (MFC), an important intermediate for the 43S pre-initiation complex assembly []. IF5 interacts directly with IF1, IF2beta and IF3c, which together with IF2-bound Met-tRNA(i)(Met) form the MFC. This entry represents both the N-terminal and zinc-binding domains of IF2, as well as a domain in IF5.; GO: 0003743 translation initiation factor activity, 0006413 translational initiation; PDB: 2DCU_B 2D74_B 2E9H_A 2G2K_A 1NEE_A 3CW2_L 2QMU_C 3V11_C 2NXU_A 2QN6_C ....
Probab=30.96 E-value=24 Score=24.92 Aligned_cols=13 Identities=46% Similarity=0.835 Sum_probs=11.0
Q ss_pred CCceeecCcCccc
Q 043467 61 TGALTCAACGCHR 73 (90)
Q Consensus 61 t~aL~CaACgCHR 73 (90)
.-.|+|.|||..|
T Consensus 112 ~~~l~C~aCGa~~ 124 (125)
T PF01873_consen 112 LIFLKCKACGASR 124 (125)
T ss_dssp CCEEEETTTSCEE
T ss_pred EEEEEecccCCcC
Confidence 3789999999876
No 14
>PRK00432 30S ribosomal protein S27ae; Validated
Probab=29.22 E-value=34 Score=20.75 Aligned_cols=19 Identities=37% Similarity=0.844 Sum_probs=14.3
Q ss_pred ccc-cccCCCCCCCceeecCcCc
Q 043467 50 CRE-FMASGENGTGALTCAACGC 71 (90)
Q Consensus 50 CgE-Fm~~g~egt~aL~CaACgC 71 (90)
||. ||.... +.+.|..||=
T Consensus 26 Cg~~~m~~~~---~r~~C~~Cgy 45 (50)
T PRK00432 26 CGSGFMAEHL---DRWHCGKCGY 45 (50)
T ss_pred CCcchheccC---CcEECCCcCC
Confidence 666 888654 6899999874
No 15
>PRK03988 translation initiation factor IF-2 subunit beta; Validated
Probab=25.52 E-value=37 Score=24.43 Aligned_cols=14 Identities=36% Similarity=0.764 Sum_probs=12.1
Q ss_pred CceeecCcCccccc
Q 043467 62 GALTCAACGCHRNF 75 (90)
Q Consensus 62 ~aL~CaACgCHRnF 75 (90)
-.|+|.|||=+|..
T Consensus 122 ~~l~C~ACGa~~~V 135 (138)
T PRK03988 122 WVLKCEACGAETPV 135 (138)
T ss_pred EEEEcccCCCCCcC
Confidence 68999999988875
No 16
>PF13771 zf-HC5HC2H: PHD-like zinc-binding domain
Probab=24.00 E-value=39 Score=20.92 Aligned_cols=16 Identities=38% Similarity=0.955 Sum_probs=14.1
Q ss_pred CceeecCcCccccccc
Q 043467 62 GALTCAACGCHRNFHR 77 (90)
Q Consensus 62 ~aL~CaACgCHRnFHR 77 (90)
....|..=+|.++||=
T Consensus 48 a~i~C~~~~C~~~fH~ 63 (90)
T PF13771_consen 48 ACIGCSHPGCSRSFHV 63 (90)
T ss_pred eEEEEeCCCCCcEECh
Confidence 5788999999999993
No 17
>KOG2767 consensus Translation initiation factor 5 (eIF-5) [Translation, ribosomal structure and biogenesis]
Probab=23.15 E-value=22 Score=30.42 Aligned_cols=14 Identities=36% Similarity=0.850 Sum_probs=11.5
Q ss_pred CceeecCcCccccc
Q 043467 62 GALTCAACGCHRNF 75 (90)
Q Consensus 62 ~aL~CaACgCHRnF 75 (90)
-+++|.|||++-+-
T Consensus 117 i~~~CkACG~r~~~ 130 (400)
T KOG2767|consen 117 ISLKCKACGFRSDM 130 (400)
T ss_pred hhhHHHHcCCcccc
Confidence 57899999998654
No 18
>TIGR00311 aIF-2beta translation initiation factor aIF-2, beta subunit, putative.
Probab=23.13 E-value=41 Score=24.08 Aligned_cols=14 Identities=36% Similarity=0.878 Sum_probs=11.2
Q ss_pred CceeecCcCccccc
Q 043467 62 GALTCAACGCHRNF 75 (90)
Q Consensus 62 ~aL~CaACgCHRnF 75 (90)
-.|+|.|||=+|.-
T Consensus 117 ~~l~C~ACGa~~~v 130 (133)
T TIGR00311 117 SLLKCEACGAKAPL 130 (133)
T ss_pred EEEecccCCCCCcc
Confidence 46899999987753
No 19
>cd02249 ZZ Zinc finger, ZZ type. Zinc finger present in dystrophin, CBP/p300 and many other proteins. The ZZ motif coordinates one or two zinc ions and most likely participates in ligand binding or molecular scaffolding. Many proteins containing ZZ motifs have other zinc-binding motifs as well, and the majority serve as scaffolds in pathways involving acetyltransferase, protein kinase, or ubiqitin-related activity. ZZ proteins can be grouped into the following functional classes: chromatin modifying, cytoskeletal scaffolding, ubiquitin binding or conjugating, and membrane receptor or ion-channel modifying proteins.
Probab=22.56 E-value=75 Score=18.18 Aligned_cols=19 Identities=26% Similarity=0.665 Sum_probs=11.3
Q ss_pred ccCccccccCCCCCCCceeecCcC
Q 043467 47 VDGCREFMASGENGTGALTCAACG 70 (90)
Q Consensus 47 vDGCgEFm~~g~egt~aL~CaACg 70 (90)
=|+|+..+.. .-.+|+.|.
T Consensus 3 C~~C~~~i~g-----~r~~C~~C~ 21 (46)
T cd02249 3 CDGCLKPIVG-----VRYHCLVCE 21 (46)
T ss_pred CcCCCCCCcC-----CEEECCCCC
Confidence 3788884442 345666665
No 20
>PRK12336 translation initiation factor IF-2 subunit beta; Provisional
Probab=22.34 E-value=43 Score=25.03 Aligned_cols=19 Identities=42% Similarity=0.877 Sum_probs=15.5
Q ss_pred CceeecCcCcccccccccc
Q 043467 62 GALTCAACGCHRNFHRREE 80 (90)
Q Consensus 62 ~aL~CaACgCHRnFHRre~ 80 (90)
-.|+|.|||=+|.-+....
T Consensus 118 ~~l~C~aCGa~~~v~~~~~ 136 (201)
T PRK12336 118 LMLRCDACGAHRPVKKRKA 136 (201)
T ss_pred EEEEcccCCCCcccccccc
Confidence 5789999999998876543
No 21
>PRK00398 rpoP DNA-directed RNA polymerase subunit P; Provisional
Probab=21.21 E-value=64 Score=18.42 Aligned_cols=22 Identities=23% Similarity=0.490 Sum_probs=13.0
Q ss_pred CccccccCCCCCCCceeecCcCc
Q 043467 49 GCREFMASGENGTGALTCAACGC 71 (90)
Q Consensus 49 GCgEFm~~g~egt~aL~CaACgC 71 (90)
.||.-+...+ .+.+++|.-||-
T Consensus 8 ~CG~~~~~~~-~~~~~~Cp~CG~ 29 (46)
T PRK00398 8 RCGREVELDE-YGTGVRCPYCGY 29 (46)
T ss_pred CCCCEEEECC-CCCceECCCCCC
Confidence 4555443322 224899999993
Done!