Query 031450
Match_columns 159
No_of_seqs 58 out of 60
Neff 2.5
Searched_HMMs 46136
Date Fri Mar 29 14:16:53 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/031450.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/031450hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF11267 DUF3067: Protein of u 99.9 3.7E-23 8.1E-28 155.2 2.9 42 113-158 1-42 (99)
2 PF13592 HTH_33: Winged helix- 70.8 3.3 7.2E-05 27.4 1.9 24 108-131 2-25 (60)
3 TIGR03853 matur_matur probable 62.5 13 0.00029 27.4 3.7 32 92-123 19-57 (77)
4 PF11942 Spt5_N: Spt5 transcri 53.9 16 0.00035 26.6 3.0 20 108-127 54-75 (97)
5 PF10678 DUF2492: Protein of u 51.2 28 0.0006 25.6 3.9 32 92-123 21-59 (78)
6 PF14624 Vwaint: VWA / Hh pro 40.6 25 0.00053 25.5 2.2 12 120-131 24-35 (80)
7 TIGR02395 rpoN_sigma RNA polym 39.9 62 0.0014 29.4 5.1 53 91-159 370-424 (429)
8 PF13565 HTH_32: Homeodomain-l 35.8 80 0.0017 20.6 3.9 34 94-128 33-66 (77)
9 PF10826 DUF2551: Protein of u 33.6 70 0.0015 24.0 3.7 22 108-129 23-44 (83)
10 PRK05932 RNA polymerase factor 33.4 92 0.002 28.6 5.2 53 91-159 394-448 (455)
11 COG1508 RpoN DNA-directed RNA 31.8 37 0.0008 31.8 2.4 51 92-158 383-435 (444)
12 TIGR03147 cyt_nit_nrfF cytochr 30.4 93 0.002 24.6 4.1 39 86-127 52-90 (126)
13 PF04155 Ground-like: Ground-l 30.3 69 0.0015 22.0 3.0 43 92-134 7-49 (76)
14 PRK10144 formate-dependent nit 29.9 96 0.0021 24.5 4.1 39 86-127 52-90 (126)
15 TIGR03853 matur_matur probable 29.8 54 0.0012 24.2 2.5 21 108-128 15-35 (77)
16 PF06252 DUF1018: Protein of u 28.0 57 0.0012 24.0 2.5 35 92-126 2-39 (119)
17 PRK12469 RNA polymerase factor 26.4 1.5E+02 0.0032 27.9 5.3 53 91-159 420-474 (481)
18 PF10655 DUF2482: Hypothetical 25.9 33 0.00072 26.6 0.9 21 110-130 7-27 (100)
19 PF13833 EF-hand_8: EF-hand do 25.1 1.6E+02 0.0035 17.9 3.8 30 89-121 3-32 (54)
20 PF10678 DUF2492: Protein of u 24.8 73 0.0016 23.4 2.5 20 108-127 17-36 (78)
21 PF04931 DNA_pol_phi: DNA poly 23.2 1.5E+02 0.0032 28.6 4.8 26 94-119 702-737 (784)
22 PF11784 DUF3320: Protein of u 22.1 1.6E+02 0.0034 19.4 3.5 34 93-127 10-43 (52)
23 PF08766 DEK_C: DEK C terminal 20.7 1.9E+02 0.004 18.7 3.6 34 94-127 3-37 (54)
No 1
>PF11267 DUF3067: Protein of unknown function (DUF3067); InterPro: IPR021420 This family of proteins has no known function. ; PDB: 2LJW_A.
Probab=99.87 E-value=3.7e-23 Score=155.24 Aligned_cols=42 Identities=52% Similarity=0.936 Sum_probs=38.4
Q ss_pred HHHHHHHHHHHhCcccceEEEEEeecCcceeehhhhHhhhhcCCCC
Q 031450 113 GLDLATLIRKKYGRSYDVQLIKKEFMGRNLLALNVMWKYMEQGNCE 158 (159)
Q Consensus 113 G~EL~~Ll~~KWGrSYDVQL~rrd~~Gk~~l~lQVMWkYLEQ~SFP 158 (159)
|+||++||++|||+||||||+|+ +.+|||||||+||||+|||
T Consensus 1 g~eL~~ll~~KwG~sYDvql~r~----~~~v~lqVMW~yLeQ~SFP 42 (99)
T PF11267_consen 1 GQELRDLLREKWGRSYDVQLRRR----RGRVYLQVMWKYLEQRSFP 42 (99)
T ss_dssp HHHHHHHHHHHHSS-EEEEEEEE----TTEEEEEEEEEETTSTT-S
T ss_pred ChHHHHHHHHHhCCcceeEEEEE----cCEEEEEEehhhccCCCcC
Confidence 78999999999999999999999 5669999999999999999
No 2
>PF13592 HTH_33: Winged helix-turn helix
Probab=70.83 E-value=3.3 Score=27.36 Aligned_cols=24 Identities=17% Similarity=0.427 Sum_probs=20.0
Q ss_pred CCCccHHHHHHHHHHHhCcccceE
Q 031450 108 DSTFSGLDLATLIRKKYGRSYDVQ 131 (159)
Q Consensus 108 ~~~mtG~EL~~Ll~~KWGrSYDVQ 131 (159)
+...|..+|+++|.++||+.|..+
T Consensus 2 ~~~wt~~~i~~~I~~~fgv~ys~~ 25 (60)
T PF13592_consen 2 GGRWTLKEIAAYIEEEFGVKYSPS 25 (60)
T ss_pred CCcccHHHHHHHHHHHHCCEEcHH
Confidence 456789999999999999998654
No 3
>TIGR03853 matur_matur probable metal-binding protein. This protein family was identified by searching with a phylogenetic profile based on an anaerobic sulfatase-maturase enzyme, which contains multiple 4Fe-4S clusters. The linkages by phylogenetic profiling and by iron-sulfur cluster-related motifs together suggest this protein may be an accessory protein to certain maturases in sulfatase/maturase systems.
Probab=62.50 E-value=13 Score=27.39 Aligned_cols=32 Identities=25% Similarity=0.380 Sum_probs=23.1
Q ss_pred chHHHHHhHHHHhcCC-------CCCccHHHHHHHHHHH
Q 031450 92 NSELLRENLERIVGVD-------DSTFSGLDLATLIRKK 123 (159)
Q Consensus 92 ~~~~~r~~l~r~~g~d-------~~~mtG~EL~~Ll~~K 123 (159)
+.+.+++.++..+|.+ .+.||.++|.++|.+|
T Consensus 19 t~~~L~~~i~~~FG~~arFhTCSa~~m~a~~Li~FL~~k 57 (77)
T TIGR03853 19 TRESLKAAIEQKFGEDARFHTCSAEGMTADELLQFLLKK 57 (77)
T ss_pred CHHHHHHHHHHHhCCCceEeecccccCCHHHHHHHHHHC
Confidence 4556677777777877 5668888888877765
No 4
>PF11942 Spt5_N: Spt5 transcription elongation factor, acidic N-terminal; InterPro: IPR022581 This is the very acidic N-terminal domain of the early transcription elongation factor Spt5 []. The Spt5-Spt4 complex regulates early transcription elongation by RNA polymerase II and has an imputed role in pre-mRNA processing via its physical association with mRNA capping enzymes. The actual function of this N-terminal domain is not known although it is dispensable for binding to Spt4 [], nor is it essential for RNA polymerase II binding [].
Probab=53.85 E-value=16 Score=26.56 Aligned_cols=20 Identities=25% Similarity=0.513 Sum_probs=16.7
Q ss_pred CCCccHHHHHHHHH--HHhCcc
Q 031450 108 DSTFSGLDLATLIR--KKYGRS 127 (159)
Q Consensus 108 ~~~mtG~EL~~Ll~--~KWGrS 127 (159)
...+...+|...|+ +|||++
T Consensus 54 ~~~~dae~lae~~k~~~RY~~~ 75 (97)
T PF11942_consen 54 EEEEDAEELAEYLKLSERYARS 75 (97)
T ss_pred HhccCHHHHHHHHHHHHHhccc
Confidence 44677899999999 999885
No 5
>PF10678 DUF2492: Protein of unknown function (DUF2492); InterPro: IPR019620 This entry describes a family of small cytosolic proteins, about 80 amino acids in length, in which the eight invariant residues include three His residues and two Cys residues. Two pairs of these invariant residues occur in motifs HxH (where x is A or G) and CxH, both of which suggest metal-binding activity. This protein family was identified by searching with a phylogenetic profile based on an anaerobic sulphatase-maturase enzyme, which contains multiple 4Fe-4S clusters. The linkages by phylogenetic profiling and by iron-sulphur cluster-related motifs together suggest this protein may be an accessory protein to certain maturases in sulphatase/maturase systems.
Probab=51.22 E-value=28 Score=25.61 Aligned_cols=32 Identities=16% Similarity=0.314 Sum_probs=21.5
Q ss_pred chHHHHHhHHHHhcCC-------CCCccHHHHHHHHHHH
Q 031450 92 NSELLRENLERIVGVD-------DSTFSGLDLATLIRKK 123 (159)
Q Consensus 92 ~~~~~r~~l~r~~g~d-------~~~mtG~EL~~Ll~~K 123 (159)
+.+.+.+.++..+|.| .+.||.++|.++|..|
T Consensus 21 t~~~L~~ai~~~FG~~arFhTCSae~m~a~eLv~FL~~r 59 (78)
T PF10678_consen 21 TKEELKAAIIEKFGEDARFHTCSAEGMTADELVDFLEER 59 (78)
T ss_pred CHHHHHHHHHHHhCCCceEEecCCCCCCHHHHHHHHHHc
Confidence 3445566667777776 5667777777777664
No 6
>PF14624 Vwaint: VWA / Hh protein intein-like
Probab=40.56 E-value=25 Score=25.45 Aligned_cols=12 Identities=25% Similarity=0.622 Sum_probs=9.4
Q ss_pred HHHHhCcccceE
Q 031450 120 IRKKYGRSYDVQ 131 (159)
Q Consensus 120 l~~KWGrSYDVQ 131 (159)
.++|||+.|=+.
T Consensus 24 ~y~~~Gr~YllS 35 (80)
T PF14624_consen 24 YYERWGRHYLLS 35 (80)
T ss_pred HHHHhhHHHHHH
Confidence 489999998543
No 7
>TIGR02395 rpoN_sigma RNA polymerase sigma-54 factor. A sigma factor is a DNA-binding protein protein that binds to the DNA-directed RNA polymerase core to produce the holoenzyme capable of initiating transcription at specific sites. Different sigma factors act in vegetative growth, heat shock, extracytoplasmic functions (ECF), etc. This model represents the clade of sigma factors called sigma-54, or RpoN (unrelated to sigma 70-type factors such as RpoD/SigA). RpoN is responsible for enhancer-dependent transcription, and its presence characteristically is associated with varied panels of activators, most of which are enhancer-binding proteins (but see Brahmachary, et al., PubMed:15231786). RpoN may be responsible for transcription of nitrogen fixation genes, flagellins, pilins, etc., and synonyms for the gene symbol rpoN, such as ntrA, reflect these observations
Probab=39.88 E-value=62 Score=29.38 Aligned_cols=53 Identities=19% Similarity=0.438 Sum_probs=40.8
Q ss_pred cchHHHHHhHHHHhcCC--CCCccHHHHHHHHHHHhCcccceEEEEEeecCcceeehhhhHhhhhcCCCCC
Q 031450 91 VNSELLRENLERIVGVD--DSTFSGLDLATLIRKKYGRSYDVQLIKKEFMGRNLLALNVMWKYMEQGNCEP 159 (159)
Q Consensus 91 ~~~~~~r~~l~r~~g~d--~~~mtG~EL~~Ll~~KWGrSYDVQL~rrd~~Gk~~l~lQVMWkYLEQ~SFP~ 159 (159)
+.++..+..+.+++... ..|||-++|.++|.++ | +.+-|| -.=||.||-..|+
T Consensus 370 ~S~~~Ik~~I~~lI~~E~~~~PlSD~~I~~~L~~~-G----i~IaRR-----------TVaKYRe~L~Ip~ 424 (429)
T TIGR02395 370 VSSTAIKALIKELIAAEDKRKPLSDQKIAELLKEK-G----IKIARR-----------TVAKYREELGIPS 424 (429)
T ss_pred cCHHHHHHHHHHHHHhcCCCCCCCHHHHHHHHHhc-C----CCeehH-----------HHHHHHHHcCCCc
Confidence 57788999999999844 6899999999999998 7 344443 2247888877774
No 8
>PF13565 HTH_32: Homeodomain-like domain
Probab=35.84 E-value=80 Score=20.60 Aligned_cols=34 Identities=15% Similarity=0.305 Sum_probs=26.4
Q ss_pred HHHHHhHHHHhcCCCCCccHHHHHHHHHHHhCccc
Q 031450 94 ELLRENLERIVGVDDSTFSGLDLATLIRKKYGRSY 128 (159)
Q Consensus 94 ~~~r~~l~r~~g~d~~~mtG~EL~~Ll~~KWGrSY 128 (159)
+..++.|..++-... .+|..+|.+.|.+++|.++
T Consensus 33 ~e~~~~i~~~~~~~p-~wt~~~i~~~L~~~~g~~~ 66 (77)
T PF13565_consen 33 PEQRERIIALIEEHP-RWTPREIAEYLEEEFGISV 66 (77)
T ss_pred HHHHHHHHHHHHhCC-CCCHHHHHHHHHHHhCCCC
Confidence 345567777766442 7999999999999999877
No 9
>PF10826 DUF2551: Protein of unknown function (DUF2551) ; InterPro: IPR020501 This entry contains proteins with no known function.
Probab=33.56 E-value=70 Score=24.01 Aligned_cols=22 Identities=23% Similarity=0.448 Sum_probs=18.3
Q ss_pred CCCccHHHHHHHHHHHhCcccc
Q 031450 108 DSTFSGLDLATLIRKKYGRSYD 129 (159)
Q Consensus 108 ~~~mtG~EL~~Ll~~KWGrSYD 129 (159)
...+|.+|+++.|.++|-.||-
T Consensus 23 ~~~~T~~di~e~L~~~f~vs~~ 44 (83)
T PF10826_consen 23 GKKFTTDDIYERLKEKFDVSYR 44 (83)
T ss_pred CCCeeHHHHHHHHHHHcCchHH
Confidence 3489999999999999776663
No 10
>PRK05932 RNA polymerase factor sigma-54; Reviewed
Probab=33.40 E-value=92 Score=28.57 Aligned_cols=53 Identities=19% Similarity=0.400 Sum_probs=40.4
Q ss_pred cchHHHHHhHHHHhcCC--CCCccHHHHHHHHHHHhCcccceEEEEEeecCcceeehhhhHhhhhcCCCCC
Q 031450 91 VNSELLRENLERIVGVD--DSTFSGLDLATLIRKKYGRSYDVQLIKKEFMGRNLLALNVMWKYMEQGNCEP 159 (159)
Q Consensus 91 ~~~~~~r~~l~r~~g~d--~~~mtG~EL~~Ll~~KWGrSYDVQL~rrd~~Gk~~l~lQVMWkYLEQ~SFP~ 159 (159)
+.++..+..+.+++... ..|||-++|.++|.++ |. .+-|| -.=||.||-..|+
T Consensus 394 ~S~~~Ik~~Ik~lI~~Ed~~~PlSD~~I~~~L~~~-Gi----~IaRR-----------TVaKYRe~L~Ip~ 448 (455)
T PRK05932 394 ASSTAIRALIKKLIAAENPKKPLSDSKIAELLKEQ-GI----DVARR-----------TVAKYREALNIPS 448 (455)
T ss_pred ccHHHHHHHHHHHHHhcCCCCCCCHHHHHHHHHHc-CC----CeehH-----------HHHHHHHHcCCCC
Confidence 46778899999999855 5799999999999998 64 44443 2247888877764
No 11
>COG1508 RpoN DNA-directed RNA polymerase specialized sigma subunit, sigma54 homolog [Transcription]
Probab=31.75 E-value=37 Score=31.81 Aligned_cols=51 Identities=18% Similarity=0.401 Sum_probs=37.2
Q ss_pred chHHHHHhHHHHhcCC--CCCccHHHHHHHHHHHhCcccceEEEEEeecCcceeehhhhHhhhhcCCCC
Q 031450 92 NSELLRENLERIVGVD--DSTFSGLDLATLIRKKYGRSYDVQLIKKEFMGRNLLALNVMWKYMEQGNCE 158 (159)
Q Consensus 92 ~~~~~r~~l~r~~g~d--~~~mtG~EL~~Ll~~KWGrSYDVQL~rrd~~Gk~~l~lQVMWkYLEQ~SFP 158 (159)
+.+..|.-+.+++... ..|++-..+.++|.+|. |+.-|| -.=||.|+-.-|
T Consensus 383 S~~~Ik~~Ik~lI~~E~~~~pLSD~kIa~lLkekG-----i~iARR-----------TVAKYRe~L~I~ 435 (444)
T COG1508 383 STEAIKALIKKLIEAEDKKKPLSDSKIAELLKEKG-----IDVARR-----------TVAKYREELNIP 435 (444)
T ss_pred cHHHHHHHHHHHHhhccCCCCCCHHHHHHHHHHcC-----CchhHH-----------hHHHHHHHcCCC
Confidence 4558899999999965 55999999999999885 555443 223666665544
No 12
>TIGR03147 cyt_nit_nrfF cytochrome c nitrite reductase, accessory protein NrfF.
Probab=30.36 E-value=93 Score=24.56 Aligned_cols=39 Identities=15% Similarity=0.200 Sum_probs=27.3
Q ss_pred CCCCCcchHHHHHhHHHHhcCCCCCccHHHHHHHHHHHhCcc
Q 031450 86 KDENGVNSELLRENLERIVGVDDSTFSGLDLATLIRKKYGRS 127 (159)
Q Consensus 86 ~d~~g~~~~~~r~~l~r~~g~d~~~mtG~EL~~Ll~~KWGrS 127 (159)
+|.+-.-+...|+.+.+++.. -.|-+|+++.+.++||..
T Consensus 52 adS~a~iA~dmR~~Vr~~i~~---G~Sd~eI~~~~v~RYG~~ 90 (126)
T TIGR03147 52 VESNSPIAYDLRHEVYSMVNE---GKSNQQIIDFMTARFGDF 90 (126)
T ss_pred hhcCCHHHHHHHHHHHHHHHc---CCCHHHHHHHHHHhcCCe
Confidence 444444455566666666643 478999999999999953
No 13
>PF04155 Ground-like: Ground-like domain; InterPro: IPR007284 This group of proteins contain one or more copies of the ground-like domain, which are specific to Caenorhabditis elegans and Caenorhabditis briggsae. It has been proposed that the ground-like domain containing proteins may bind and modulate the activity of Patched-like membrane molecules, reminiscent of the modulating activities of neuropeptides [].
Probab=30.26 E-value=69 Score=21.99 Aligned_cols=43 Identities=23% Similarity=0.292 Sum_probs=33.2
Q ss_pred chHHHHHhHHHHhcCCCCCccHHHHHHHHHHHhCcccceEEEE
Q 031450 92 NSELLRENLERIVGVDDSTFSGLDLATLIRKKYGRSYDVQLIK 134 (159)
Q Consensus 92 ~~~~~r~~l~r~~g~d~~~mtG~EL~~Ll~~KWGrSYDVQL~r 134 (159)
|++.+|+-++.....++..-+..-|...+..++|.+|+|=--+
T Consensus 7 n~~~L~~ii~~~~~~~~~~~s~~~Iq~~~e~~f~~~f~vIcs~ 49 (76)
T PF04155_consen 7 NSEELRKIILKNMKECNLSISKRAIQKAAEKRFGGSFEVICSE 49 (76)
T ss_pred CCHHHHHHHHHHhccCCHHHHHHHHHHHHHHHhCCCEEEEEeC
Confidence 6677888887777755555677888899999999999885444
No 14
>PRK10144 formate-dependent nitrite reductase complex subunit NrfF; Provisional
Probab=29.92 E-value=96 Score=24.54 Aligned_cols=39 Identities=15% Similarity=0.253 Sum_probs=27.3
Q ss_pred CCCCCcchHHHHHhHHHHhcCCCCCccHHHHHHHHHHHhCcc
Q 031450 86 KDENGVNSELLRENLERIVGVDDSTFSGLDLATLIRKKYGRS 127 (159)
Q Consensus 86 ~d~~g~~~~~~r~~l~r~~g~d~~~mtG~EL~~Ll~~KWGrS 127 (159)
+|.+-.-+...|..+.+++.. -.|-+|+++.+.++||-.
T Consensus 52 adSna~iA~dmR~~Vr~~i~~---G~sd~eI~~~~v~RYG~~ 90 (126)
T PRK10144 52 LESNAPVAVSMRHQVYSMVAE---GKSEVEIIGWMTERYGDF 90 (126)
T ss_pred hhcCCHHHHHHHHHHHHHHHc---CCCHHHHHHHHHHhcCCe
Confidence 444444455566666666643 478899999999999953
No 15
>TIGR03853 matur_matur probable metal-binding protein. This protein family was identified by searching with a phylogenetic profile based on an anaerobic sulfatase-maturase enzyme, which contains multiple 4Fe-4S clusters. The linkages by phylogenetic profiling and by iron-sulfur cluster-related motifs together suggest this protein may be an accessory protein to certain maturases in sulfatase/maturase systems.
Probab=29.81 E-value=54 Score=24.20 Aligned_cols=21 Identities=19% Similarity=0.417 Sum_probs=18.7
Q ss_pred CCCccHHHHHHHHHHHhCccc
Q 031450 108 DSTFSGLDLATLIRKKYGRSY 128 (159)
Q Consensus 108 ~~~mtG~EL~~Ll~~KWGrSY 128 (159)
++++|-.+|++.|.++||..=
T Consensus 15 ~~~~t~~~L~~~i~~~FG~~a 35 (77)
T TIGR03853 15 GEPYTRESLKAAIEQKFGEDA 35 (77)
T ss_pred CCCcCHHHHHHHHHHHhCCCc
Confidence 568999999999999999853
No 16
>PF06252 DUF1018: Protein of unknown function (DUF1018); InterPro: IPR009363 This family consists of several bacterial and phage proteins, related to Gp16 of phage Mu, of unknown function.
Probab=27.98 E-value=57 Score=24.02 Aligned_cols=35 Identities=20% Similarity=0.451 Sum_probs=27.8
Q ss_pred chHHHHHhHHHHhcCC-CCCccHHHHHHHHH--HHhCc
Q 031450 92 NSELLRENLERIVGVD-DSTFSGLDLATLIR--KKYGR 126 (159)
Q Consensus 92 ~~~~~r~~l~r~~g~d-~~~mtG~EL~~Ll~--~KWGr 126 (159)
+.|..|.-|.+.+|++ -..||..||..+|. ++-|-
T Consensus 2 ddd~YR~~L~~~~Gk~S~k~lt~~el~~vl~~l~~~G~ 39 (119)
T PF06252_consen 2 DDDTYRALLQRVTGKSSSKDLTEAELEKVLDELKRLGF 39 (119)
T ss_pred CHHHHHHHHHHHhChhhHHHCCHHHHHHHHHHHHHccC
Confidence 4567899999999988 55699999999885 34453
No 17
>PRK12469 RNA polymerase factor sigma-54; Provisional
Probab=26.43 E-value=1.5e+02 Score=27.87 Aligned_cols=53 Identities=17% Similarity=0.387 Sum_probs=40.9
Q ss_pred cchHHHHHhHHHHhcCC--CCCccHHHHHHHHHHHhCcccceEEEEEeecCcceeehhhhHhhhhcCCCCC
Q 031450 91 VNSELLRENLERIVGVD--DSTFSGLDLATLIRKKYGRSYDVQLIKKEFMGRNLLALNVMWKYMEQGNCEP 159 (159)
Q Consensus 91 ~~~~~~r~~l~r~~g~d--~~~mtG~EL~~Ll~~KWGrSYDVQL~rrd~~Gk~~l~lQVMWkYLEQ~SFP~ 159 (159)
+.++..|..+.+++... ..|||-+.|.++|.++ |. .+-|| -.=||.||-..|+
T Consensus 420 ~Ss~~Ik~~Ik~lI~~Ed~~kPLSD~~I~~~L~~~-GI----~IARR-----------TVAKYRe~L~Ips 474 (481)
T PRK12469 420 CSAAAVRALIKEMIAAEQAGDPLSDVALAEMLAGR-GV----LIARR-----------TVAKYREAMKIPP 474 (481)
T ss_pred ccHHHHHHHHHHHHHhcCCCCCCCHHHHHHHHHhc-CC----Ceech-----------hHHHHHHHcCCCC
Confidence 36778999999999844 6899999999999987 64 45554 1248888877775
No 18
>PF10655 DUF2482: Hypothetical protein of unknown function (DUF2482); InterPro: IPR018917 This entry is represented by Bacteriophage 80, Orf10. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. All the members of this very small, very short family are derived from bacteriophages, of the SA bacteriophages 11, Mu50B, system, and from the Staphylococcal_phi-Mu50B-like_prophages subsystem. All members are hypothetical proteins.
Probab=25.88 E-value=33 Score=26.65 Aligned_cols=21 Identities=29% Similarity=0.544 Sum_probs=19.0
Q ss_pred CccHHHHHHHHHHHhCcccce
Q 031450 110 TFSGLDLATLIRKKYGRSYDV 130 (159)
Q Consensus 110 ~mtG~EL~~Ll~~KWGrSYDV 130 (159)
-||-+||++||-.|=|.-||+
T Consensus 7 dMTqeelr~llseK~~ELydL 27 (100)
T PF10655_consen 7 DMTQEELRDLLSEKNGELYDL 27 (100)
T ss_pred hhhHHHHHHHHHHhhHHHHHH
Confidence 489999999999999999886
No 19
>PF13833 EF-hand_8: EF-hand domain pair; PDB: 3KF9_A 1TTX_A 1WLZ_A 1ALV_A 1NX3_A 1ALW_A 1NX2_A 1NX1_A 1NX0_A 1DF0_A ....
Probab=25.08 E-value=1.6e+02 Score=17.87 Aligned_cols=30 Identities=27% Similarity=0.479 Sum_probs=18.6
Q ss_pred CCcchHHHHHhHHHHhcCCCCCccHHHHHHHHH
Q 031450 89 NGVNSELLRENLERIVGVDDSTFSGLDLATLIR 121 (159)
Q Consensus 89 ~g~~~~~~r~~l~r~~g~d~~~mtG~EL~~Ll~ 121 (159)
|-++.+.++.-| +.+|... ++-.|+..|+.
T Consensus 3 G~i~~~~~~~~l-~~~g~~~--~s~~e~~~l~~ 32 (54)
T PF13833_consen 3 GKITREEFRRAL-SKLGIKD--LSEEEVDRLFR 32 (54)
T ss_dssp SEEEHHHHHHHH-HHTTSSS--SCHHHHHHHHH
T ss_pred CEECHHHHHHHH-HHhCCCC--CCHHHHHHHHH
Confidence 445666777777 6666543 77777665553
No 20
>PF10678 DUF2492: Protein of unknown function (DUF2492); InterPro: IPR019620 This entry describes a family of small cytosolic proteins, about 80 amino acids in length, in which the eight invariant residues include three His residues and two Cys residues. Two pairs of these invariant residues occur in motifs HxH (where x is A or G) and CxH, both of which suggest metal-binding activity. This protein family was identified by searching with a phylogenetic profile based on an anaerobic sulphatase-maturase enzyme, which contains multiple 4Fe-4S clusters. The linkages by phylogenetic profiling and by iron-sulphur cluster-related motifs together suggest this protein may be an accessory protein to certain maturases in sulphatase/maturase systems.
Probab=24.76 E-value=73 Score=23.42 Aligned_cols=20 Identities=20% Similarity=0.469 Sum_probs=18.2
Q ss_pred CCCccHHHHHHHHHHHhCcc
Q 031450 108 DSTFSGLDLATLIRKKYGRS 127 (159)
Q Consensus 108 ~~~mtG~EL~~Ll~~KWGrS 127 (159)
++++|-.+|.+.|.++||..
T Consensus 17 ~~~~t~~~L~~ai~~~FG~~ 36 (78)
T PF10678_consen 17 GNPYTKEELKAAIIEKFGED 36 (78)
T ss_pred CCCcCHHHHHHHHHHHhCCC
Confidence 46899999999999999985
No 21
>PF04931 DNA_pol_phi: DNA polymerase phi; InterPro: IPR007015 Proteins of this family are predominantly nucleolar. The majority are described as transcription factor transactivators. The family also includes the fifth essential DNA polymerase (Pol5p) of Schizosaccharomyces pombe (Fission yeast) and Saccharomyces cerevisiae (Baker's yeast) (2.7.7.7 from EC). Pol5p is localized exclusively to the nucleolus and binds near or at the enhancer region of rRNA-encoding DNA repeating units.; GO: 0003677 DNA binding, 0003887 DNA-directed DNA polymerase activity, 0006351 transcription, DNA-dependent
Probab=23.20 E-value=1.5e+02 Score=28.58 Aligned_cols=26 Identities=27% Similarity=0.455 Sum_probs=16.0
Q ss_pred HHHHHhHHHHhcC----------CCCCccHHHHHHH
Q 031450 94 ELLRENLERIVGV----------DDSTFSGLDLATL 119 (159)
Q Consensus 94 ~~~r~~l~r~~g~----------d~~~mtG~EL~~L 119 (159)
+.+|..|....|. |++.|+-+++..|
T Consensus 702 ~~~~~~l~~aL~~~~~~~~~~~~~~~~mdDe~m~~l 737 (784)
T PF04931_consen 702 EEFRSALAKALGDADALDDDDSSDDEDMDDEQMMAL 737 (784)
T ss_pred HHHHHHHHHHhcccccccccccccccccCHHHHHHH
Confidence 3577777765542 2456877776655
No 22
>PF11784 DUF3320: Protein of unknown function (DUF3320); InterPro: IPR021754 This family is conserved in Proteobacteria and Chlorobi families. Many members are annotated as being putative DNA helicase-related proteins.
Probab=22.05 E-value=1.6e+02 Score=19.36 Aligned_cols=34 Identities=26% Similarity=0.357 Sum_probs=26.4
Q ss_pred hHHHHHhHHHHhcCCCCCccHHHHHHHHHHHhCcc
Q 031450 93 SELLRENLERIVGVDDSTFSGLDLATLIRKKYGRS 127 (159)
Q Consensus 93 ~~~~r~~l~r~~g~d~~~mtG~EL~~Ll~~KWGrS 127 (159)
...+++-+..+|.. ++|..-++|...|.+-||-+
T Consensus 10 ~~~L~~~i~~Iv~~-EgPI~~~~L~~Ri~~a~G~~ 43 (52)
T PF11784_consen 10 RPQLARMIRQIVEV-EGPIHEDELARRIARAWGLS 43 (52)
T ss_pred HHHHHHHHHHHHHH-cCCccHHHHHHHHHHHcCcc
Confidence 34556666666654 47999999999999999965
No 23
>PF08766 DEK_C: DEK C terminal domain; InterPro: IPR014876 DEK is a chromatin associated protein that is linked with cancers and autoimmune disease. This domain is found at the C-terminal of DEK and is of clinical importance since it can reverse the characteristic abnormal DNA-mutagen sensitivity in fibroblasts from ataxia-telangiectasia (A-T) patients []. The structure of this domain shows it to be homologous to the E2F/DP transcription factor family []. This domain is also found in chitin synthase proteins like Q8TF96 from SWISSPROT, and in protein phosphatases such as Q6NN85 from SWISSPROT. ; PDB: 1Q1V_A.
Probab=20.67 E-value=1.9e+02 Score=18.74 Aligned_cols=34 Identities=21% Similarity=0.392 Sum_probs=21.7
Q ss_pred HHHHHhHHHHhc-CCCCCccHHHHHHHHHHHhCcc
Q 031450 94 ELLRENLERIVG-VDDSTFSGLDLATLIRKKYGRS 127 (159)
Q Consensus 94 ~~~r~~l~r~~g-~d~~~mtG~EL~~Ll~~KWGrS 127 (159)
+.+|+.+..+.. .|-+.+|-..++..|-+++|..
T Consensus 3 ~~i~~~i~~iL~~~dl~~vT~k~vr~~Le~~~~~d 37 (54)
T PF08766_consen 3 EEIREAIREILREADLDTVTKKQVREQLEERFGVD 37 (54)
T ss_dssp HHHHHHHHHHHTTS-GGG--HHHHHHHHHHH-SS-
T ss_pred HHHHHHHHHHHHhCCHhHhhHHHHHHHHHHHHCCC
Confidence 456777777776 4466788889999998888754
Done!