Query 025532
Match_columns 251
No_of_seqs 206 out of 557
Neff 5.6
Searched_HMMs 46136
Date Fri Mar 29 06:48:32 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/025532.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/025532hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PLN03097 FHY3 Protein FAR-RED 100.0 1.9E-34 4.2E-39 294.3 16.9 173 67-248 69-255 (846)
2 PF03101 FAR1: FAR1 DNA-bindin 99.9 1.6E-27 3.4E-32 181.7 8.6 89 86-174 1-91 (91)
3 PF08731 AFT: Transcription fa 98.7 1.2E-07 2.6E-12 76.1 9.4 88 78-172 1-111 (111)
4 PF03108 DBD_Tnp_Mut: MuDR fam 97.9 6.8E-05 1.5E-09 54.2 7.3 63 72-161 4-67 (67)
5 PF04500 FLYWCH: FLYWCH zinc f 88.5 1 2.2E-05 30.8 4.5 25 143-170 38-62 (62)
6 PF03106 WRKY: WRKY DNA -bindi 84.4 1.4 3E-05 31.7 3.4 28 144-171 31-59 (60)
7 COG5470 Uncharacterized conser 59.0 4.9 0.00011 31.7 1.1 30 71-100 53-82 (96)
8 smart00774 WRKY DNA binding do 57.9 12 0.00026 26.9 2.9 28 143-170 31-59 (59)
9 PF04684 BAF1_ABF1: BAF1 / ABF 57.9 4.9 0.00011 39.9 1.1 42 75-122 25-66 (496)
10 smart00461 WH1 WASP homology r 55.7 7.3 0.00016 30.7 1.6 23 70-92 81-103 (106)
11 PF07576 BRAP2: BRCA1-associat 53.9 8.8 0.00019 30.8 1.8 21 73-93 56-76 (110)
12 cd00837 EVH1 EVH1 (Enabled, Va 52.9 8.3 0.00018 30.2 1.5 21 71-91 80-100 (104)
13 cd01205 WASP WASP-type EVH1 do 49.2 10 0.00022 30.4 1.4 25 68-92 78-102 (105)
14 PF02185 HR1: Hr1 repeat; Int 48.1 1E+02 0.0022 22.1 7.9 57 192-248 2-65 (70)
15 PF00568 WH1: WH1 domain; Int 48.1 11 0.00023 29.8 1.4 20 73-92 89-108 (111)
16 PF04684 BAF1_ABF1: BAF1 / ABF 45.3 46 0.001 33.3 5.6 27 160-186 168-194 (496)
17 PF04800 ETC_C1_NDUFA4: ETC co 44.3 18 0.00039 28.8 2.2 26 74-103 51-76 (101)
18 PF07045 DUF1330: Protein of u 41.2 13 0.00028 26.5 0.9 17 74-90 42-58 (65)
19 PF15299 ALS2CR8: Amyotrophic 33.9 57 0.0012 29.0 4.0 17 136-152 71-87 (225)
20 PF05377 FlaC_arch: Flagella a 31.9 1.5E+02 0.0032 21.2 4.9 29 214-242 12-40 (55)
21 cd01207 Ena-Vasp Enabled-VASP- 31.1 33 0.00072 27.7 1.8 21 71-91 83-103 (111)
22 PHA02047 phage lambda Rz1-like 30.5 2.6E+02 0.0056 22.3 6.6 47 188-238 31-77 (101)
23 PF08414 NADPH_Ox: Respiratory 29.1 41 0.0009 26.8 2.0 26 72-98 52-77 (100)
24 PF06295 DUF1043: Protein of u 26.2 3.5E+02 0.0077 21.9 7.2 33 188-220 22-54 (128)
25 PF12441 DUF3680: Protein of u 24.9 59 0.0013 21.8 1.9 14 77-90 7-20 (42)
26 PF01693 Cauli_VI: Caulimoviru 24.5 45 0.00098 22.0 1.3 13 75-87 32-44 (44)
27 PF02024 Leptin: Leptin; Inte 23.9 1.2E+02 0.0026 25.8 3.9 70 165-243 21-91 (146)
28 PF08471 Ribonuc_red_2_N: Clas 23.6 66 0.0014 25.3 2.2 17 77-93 72-88 (93)
29 PF03670 UPF0184: Uncharacteri 21.2 2.2E+02 0.0047 22.0 4.6 34 212-245 36-69 (83)
No 1
>PLN03097 FHY3 Protein FAR-RED ELONGATED HYPOCOTYL 3; Provisional
Probab=100.00 E-value=1.9e-34 Score=294.27 Aligned_cols=173 Identities=23% Similarity=0.387 Sum_probs=120.7
Q ss_pred CCCCCCccCCccCCHHHHHHHHHHHhhhcCeeEEEeeeeeecCCCCeEeeeeeeccCCccCCCcc----h----------
Q 025532 67 VQADEPYVGQQFESEAAAHAFYNAYATRVGFVIRVSKLSRSRRDGSAIGRALVCNKEGYRLPDKR----E---------- 132 (251)
Q Consensus 67 ~~~~~P~vGM~F~S~eeA~~FYn~YA~~~GF~iR~~~~~rs~~dG~i~~r~fvCsreG~r~~~k~----~---------- 132 (251)
....+|++||+|+|+||||+||+.||+++||+||+++++|++.+|.+++++|||+|+|++..+.+ .
T Consensus 69 ~~~~~P~vGMeF~S~eeA~~FYn~YA~~~GFsVRi~~srrsk~~~~ii~r~fvCsreG~~~~~~~~~~~~~~~~~k~~~~ 148 (846)
T PLN03097 69 DTNLEPLSGMEFESHGEAYSFYQEYARSMGFNTAIQNSRRSKTSREFIDAKFACSRYGTKREYDKSFNRPRARQTKQDPE 148 (846)
T ss_pred CCCccCcCCCeECCHHHHHHHHHHHHhhcCceEEeeceeccCCCCcEEEEEEEEcCCCCCcccccccccccccccccCcc
Confidence 46678999999999999999999999999999999999999999999999999999998643211 0
Q ss_pred hhhccCcccccCCccEEEEEeecCceEEEEEecccCCCCCCCCCCCcccccccCCCchhhHHHHHHHHHHHHHHHHHHHH
Q 025532 133 KIVRQRAETRVGCRAMILVRKVNSGQWVVTKFVKEHTHPLTPGKGRKDCIYDQYPNEHDKIRELSQQLALEKKRAANYKR 212 (251)
Q Consensus 133 ~~~r~R~~tRtGC~A~i~vk~~~~gkW~V~~f~~eHNH~L~p~~~~~~~~~~~~~~shk~I~el~~el~~~~k~~~~~r~ 212 (251)
...++|+.+||||+|+|+|++..+|+|+|++|+++|||||.|+.... .+..+.+..+..++.....+. ..+.
T Consensus 149 ~~~~rR~~tRtGC~A~m~Vk~~~~gkW~V~~fv~eHNH~L~p~~~~~-------~~~r~~~~~~~~~~~~~~~v~-~~~~ 220 (846)
T PLN03097 149 NGTGRRSCAKTDCKASMHVKRRPDGKWVIHSFVKEHNHELLPAQAVS-------EQTRKMYAAMARQFAEYKNVV-GLKN 220 (846)
T ss_pred cccccccccCCCCceEEEEEEcCCCeEEEEEEecCCCCCCCCccccc-------hhhhhhHHHHHhhhhcccccc-ccch
Confidence 01235778999999999999988899999999999999999876421 011111111111111111000 0000
Q ss_pred HHHHHHHHHHHhhHHHHHHHHHHHHHHHHhhhhhcc
Q 025532 213 HLELIVEQIEEHNESLAKKIQHVVDSVKNIEDEEQK 248 (251)
Q Consensus 213 ~l~~~~k~v~eh~~~ls~~i~~iv~~~k~~E~e~~~ 248 (251)
.....+...+ ...--..|++.+++||++||.++|.
T Consensus 221 d~~~~~~~~r-~~~~~~gD~~~ll~yf~~~q~~nP~ 255 (846)
T PLN03097 221 DSKSSFDKGR-NLGLEAGDTKILLDFFTQMQNMNSN 255 (846)
T ss_pred hhcchhhHHH-hhhcccchHHHHHHHHHHHHhhCCC
Confidence 0000111000 1111236999999999999999985
No 2
>PF03101 FAR1: FAR1 DNA-binding domain; InterPro: IPR004330 Phytochrome A is the primary photoreceptor for mediating various far-red light-induced responses in higher plants. It has been found that the proteins governing this response, which include FAR-RED ELONGATED HYPOCOTYL3 (FHY3) and FAR-RED-IMPAIRED RESPONSE1 (FAR1), are a pair of homologous proteins sharing significant sequence homology to mutator-like transposases. These proteins appear to be novel transcription factors, which are essential for activating the expression of FHY1 and FHL (for FHY1-like) and related genes, whose products are required for light-induced phytochrome A nuclear accumulation and subsequent light responses in plants. The FRS (FAR1 Related Sequences) family of proteins share a similar domain structure to mutator-like transposases, including an N-terminal C2H2 zinc finger domain, a central putative core transposase domain, and a C-terminal SWIM motif (named after SWI2/SNF and MuDR transposases). It seems plausible that the FRS family represent transcription factors derived from mutator-like transposases [, ]. This entry represents a domain found in FAR1 and FRS proteins. It contains a WRKY like fold and is therefore most likely a zinc binding DNA-binding domain.
Probab=99.94 E-value=1.6e-27 Score=181.66 Aligned_cols=89 Identities=40% Similarity=0.768 Sum_probs=80.5
Q ss_pred HHHHHHhhhcCeeEEEeeeeeecCCCCeEeeeeeeccCCccCCCcch--hhhccCcccccCCccEEEEEeecCceEEEEE
Q 025532 86 AFYNAYATRVGFVIRVSKLSRSRRDGSAIGRALVCNKEGYRLPDKRE--KIVRQRAETRVGCRAMILVRKVNSGQWVVTK 163 (251)
Q Consensus 86 ~FYn~YA~~~GF~iR~~~~~rs~~dG~i~~r~fvCsreG~r~~~k~~--~~~r~R~~tRtGC~A~i~vk~~~~gkW~V~~ 163 (251)
+||+.||+.+||+||+.++++++.+|.+++..|+|+++|+...++.. ...++++++||||||+|.|++..+|+|.|+.
T Consensus 1 ~fy~~yA~~~GF~vr~~~s~~~~~~~~~~~~~~~C~r~G~~~~~~~~~~~~~r~~~s~ktgC~a~i~v~~~~~~~w~v~~ 80 (91)
T PF03101_consen 1 DFYNSYARRHGFSVRKSSSRKSKKNGEIKRVTFVCSRGGKYKSKKKNEEKRRRNRPSKKTGCKARINVKRRKDGKWRVTS 80 (91)
T ss_pred CHHHHhcCcCCeEEEEeeeEeCCCCceEEEEEEEECCcccccccccccccccccccccccCCCEEEEEEEccCCEEEEEE
Confidence 59999999999999999998888899999999999999998765433 3567889999999999999987799999999
Q ss_pred ecccCCCCCCC
Q 025532 164 FVKEHTHPLTP 174 (251)
Q Consensus 164 f~~eHNH~L~p 174 (251)
|.++|||||+|
T Consensus 81 ~~~~HNH~L~P 91 (91)
T PF03101_consen 81 FVLEHNHPLCP 91 (91)
T ss_pred CcCCcCCCCCC
Confidence 99999999997
No 3
>PF08731 AFT: Transcription factor AFT; InterPro: IPR014842 AFT (activator of iron transcription) is an iron regulated transcriptional activator that regulates the expression of genes involved in iron homeostasis. This entry includes the paralogous pair of transcription factors AFT1 and AFT2.
Probab=98.70 E-value=1.2e-07 Score=76.07 Aligned_cols=88 Identities=17% Similarity=0.327 Sum_probs=66.6
Q ss_pred cCCHHHHHHHHHHHhhhcCeeEEEeeeeeecCCCCeEeeeeeeccCCccCCCcch---------------------hhhc
Q 025532 78 FESEAAAHAFYNAYATRVGFVIRVSKLSRSRRDGSAIGRALVCNKEGYRLPDKRE---------------------KIVR 136 (251)
Q Consensus 78 F~S~eeA~~FYn~YA~~~GF~iR~~~~~rs~~dG~i~~r~fvCsreG~r~~~k~~---------------------~~~r 136 (251)
|.+.+|...|....++..||.|.+.+|..+ ...|.|--.|.....+.. ....
T Consensus 1 F~~k~~ikpwlq~~~~~~Gi~iVIerSd~~-------ki~FkCk~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~k~ 73 (111)
T PF08731_consen 1 FDDKDEIKPWLQKIFYPQGIGIVIERSDKK-------KIVFKCKNGKRYRHKKKKKGQAQAQQKESTSGNKNKSSKKKKK 73 (111)
T ss_pred CCchHHHHHHHHHHhhhcCceEEEEecCCc-------eEEEEEecCCCcccccccccccccccccccccccccccccccC
Confidence 889999999999999999999999876432 257889776654322110 0011
Q ss_pred cC-cccccCCccEEEEEee-cCceEEEEEecccCCCCC
Q 025532 137 QR-AETRVGCRAMILVRKV-NSGQWVVTKFVKEHTHPL 172 (251)
Q Consensus 137 ~R-~~tRtGC~A~i~vk~~-~~gkW~V~~f~~eHNH~L 172 (251)
++ .+..++||++|+.... ...+|.|.-+...|||||
T Consensus 74 k~t~srk~~CPFriRA~yS~k~k~W~lvvvnn~HnH~l 111 (111)
T PF08731_consen 74 KRTKSRKNTCPFRIRANYSKKNKKWTLVVVNNEHNHPL 111 (111)
T ss_pred CcccccccCCCeEEEEEEEecCCeEEEEEecCCcCCCC
Confidence 22 4567899999998763 678999999999999998
No 4
>PF03108 DBD_Tnp_Mut: MuDR family transposase; InterPro: IPR004332 The plant MuDR transposase domain is present in plant proteins that are presumed to be the transposases for Mutator transposable elements [, ]. The function of these proteins is unknown. More information about these proteins can be found at Protein of the Month: Transposase [].
Probab=97.88 E-value=6.8e-05 Score=54.25 Aligned_cols=63 Identities=25% Similarity=0.372 Sum_probs=51.1
Q ss_pred CccCCccCCHHHHHHHHHHHhhhcCeeEEEeeeeeecCCCCeEeeeeeeccCCccCCCcchhhhccCcccccCCccEEEE
Q 025532 72 PYVGQQFESEAAAHAFYNAYATRVGFVIRVSKLSRSRRDGSAIGRALVCNKEGYRLPDKREKIVRQRAETRVGCRAMILV 151 (251)
Q Consensus 72 P~vGM~F~S~eeA~~FYn~YA~~~GF~iR~~~~~rs~~dG~i~~r~fvCsreG~r~~~k~~~~~r~R~~tRtGC~A~i~v 151 (251)
-.+||.|+|.++++.....||-..||.+++.++.+ .+..++|. + .|||++|+.
T Consensus 4 l~~G~~F~~~~e~k~av~~yai~~~~~~~v~ksd~-------~r~~~~C~--~------------------~~C~Wrv~a 56 (67)
T PF03108_consen 4 LEVGQTFPSKEEFKEAVREYAIKNGFEFKVKKSDK-------KRYRAKCK--D------------------KGCPWRVRA 56 (67)
T ss_pred cccCCEECCHHHHHHHHHHHHHhcCcEEEEeccCC-------EEEEEEEc--C------------------CCCCEEEEE
Confidence 36899999999999999999999999999876532 25678885 1 179999999
Q ss_pred Eee-cCceEEE
Q 025532 152 RKV-NSGQWVV 161 (251)
Q Consensus 152 k~~-~~gkW~V 161 (251)
... .++.|.|
T Consensus 57 s~~~~~~~~~I 67 (67)
T PF03108_consen 57 SKRKRSDTFQI 67 (67)
T ss_pred EEcCCCCEEEC
Confidence 865 4578875
No 5
>PF04500 FLYWCH: FLYWCH zinc finger domain; InterPro: IPR007588 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. C2H2-type (classical) zinc fingers (Znf) were the first class to be characterised. They contain a short beta hairpin and an alpha helix (beta/beta/alpha structure), where a single zinc atom is held in place by Cys(2)His(2) (C2H2) residues in a tetrahedral array. C2H2 Znf's can be divided into three groups based on the number and pattern of fingers: triple-C2H2 (binds single ligand), multiple-adjacent-C2H2 (binds multiple ligands), and separated paired-C2H2 []. C2H2 Znf's are the most common DNA-binding motifs found in eukaryotic transcription factors, and have also been identified in prokaryotes []. Transcription factors usually contain several Znf's (each with a conserved beta/beta/alpha structure) capable of making multiple contacts along the DNA, where the C2H2 Znf motifs recognise DNA sequences by binding to the major groove of DNA via a short alpha-helix in the Znf, the Znf spanning 3-4 bases of the DNA []. C2H2 Znf's can also bind to RNA and protein targets []. This entry represents a potential FLYWCH Zn-finger domain found in a number of eukaryotic proteins. FLYWCH is a C2H2-type zinc finger characterised by five conserved hydrophobic residues, containing the conserved sequence motif: F/Y-X(n)-L-X(n)-F/Y-X(n)-WXCX(6-12)CX(17-22)HXH where X indicates any amino acid. This domain was first characterised in Drosophila Modifier of mdg4 proteins, Mod(mgd4), putative chromatin modulators involved in higher order chromatin domains. Mod(mdg4) proteins share a common N-terminal BTB/POZ domain, but differ in their C-terminal region, most containing C-terminal FLYWCH zinc finger motifs []. The FLYWCH domain in Mod(mdg4) proteins has a putative role in protein-protein interactions; for example, Mod(mdg4)-67.2 interacts with DNA-binding protein Su(Hw) via its FLYWCH domain. FLYWCH domains have been described in other proteins as well, including suppressor of killer of prune, Su(Kpn), which contains 4 terminal FLYWCH zinc finger motifs in a tandem array and a C-terminal glutathione SH-transferase (GST) domain []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; PDB: 2RPR_A.
Probab=88.54 E-value=1 Score=30.82 Aligned_cols=25 Identities=36% Similarity=0.615 Sum_probs=10.0
Q ss_pred cCCccEEEEEeecCceEEEEEecccCCC
Q 025532 143 VGCRAMILVRKVNSGQWVVTKFVKEHTH 170 (251)
Q Consensus 143 tGC~A~i~vk~~~~gkW~V~~f~~eHNH 170 (251)
.+|+|+|.+. ++.-.|.....+|||
T Consensus 38 ~~C~a~~~~~---~~~~~~~~~~~~HnH 62 (62)
T PF04500_consen 38 HGCRARLITD---AGDGRVVRTNGEHNH 62 (62)
T ss_dssp S----EEEEE-----TTEEEE-S---SS
T ss_pred CCCeEEEEEE---CCCCEEEECCCccCC
Confidence 5999999986 233344445589999
No 6
>PF03106 WRKY: WRKY DNA -binding domain; InterPro: IPR003657 The WRKY domain is a 60 amino acid region that is defined by the conserved amino acid sequence WRKYGQK at its N-terminal end, together with a novel zinc-finger- like motif. The WRKY domain is found in one or two copies in a superfamily of plant transcription factors involved in the regulation of various physiological programs that are unique to plants, including pathogen defence, senescence, trichome development and the biosynthesis of secondary metabolites. The WRKY domain binds specifically to the DNA sequence motif (T)(T)TGAC(C/T), which is known as the W box. The invariant TGAC core of the W box is essential for function and WRKY binding []. Some proteins known to contain a WRKY domain include Arabidopsis thaliana ZAP1 (Zinc-dependent Activator Protein-1) and AtWRKY44/TTG2, a protein involved in trichome development and anthocyanin pigmentation; and wild oat ABF1-2, two proteins involved in the gibberelic acid-induced expression of the alpha-Amy2 gene. Structural studies indicate that this domain is a four-stranded beta-sheet with a zinc binding pocket, forming a novel zinc and DNA binding structure []. The WRKYGQK residues correspond to the most N-terminal beta-strand, which enables extensive hydrophobic interactions, contributing to the structural stability of the beta-sheet.; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0043565 sequence-specific DNA binding, 0006355 regulation of transcription, DNA-dependent; PDB: 2AYD_A 1WJ2_A 2LEX_A.
Probab=84.35 E-value=1.4 Score=31.68 Aligned_cols=28 Identities=32% Similarity=0.637 Sum_probs=21.0
Q ss_pred CCccEEEEEee-cCceEEEEEecccCCCC
Q 025532 144 GCRAMILVRKV-NSGQWVVTKFVKEHTHP 171 (251)
Q Consensus 144 GC~A~i~vk~~-~~gkW~V~~f~~eHNH~ 171 (251)
||+|+=.|... .++.-+++....+||||
T Consensus 31 ~C~akK~Vqr~~~d~~~~~vtY~G~H~h~ 59 (60)
T PF03106_consen 31 GCPAKKQVQRSADDPNIVIVTYEGEHNHP 59 (60)
T ss_dssp TEEEEEEEEEETTCCCEEEEEEES--SS-
T ss_pred ChhheeeEEEecCCCCEEEEEEeeeeCCC
Confidence 89999888764 46778888899999997
No 7
>COG5470 Uncharacterized conserved protein [Function unknown]
Probab=59.04 E-value=4.9 Score=31.73 Aligned_cols=30 Identities=30% Similarity=0.268 Sum_probs=22.5
Q ss_pred CCccCCccCCHHHHHHHHHHHhhhcCeeEE
Q 025532 71 EPYVGQQFESEAAAHAFYNAYATRVGFVIR 100 (251)
Q Consensus 71 ~P~vGM~F~S~eeA~~FYn~YA~~~GF~iR 100 (251)
.+.+=++|+|++.|++|||.=+...=-++|
T Consensus 53 tr~vviEFps~~~ar~~y~SpeYq~a~~~R 82 (96)
T COG5470 53 TRNVVIEFPSLEAARDCYNSPEYQAAAAIR 82 (96)
T ss_pred ccEEEEEcCCHHHHHHHhcCHHHHHHHHHH
Confidence 456779999999999999975554444444
No 8
>smart00774 WRKY DNA binding domain. The WRKY domain is a DNA binding domain found in one or two copies in a superfamily of plant transcription factors. These transcription factors are involved in the regulation of various physiological programs that are unique to plants, including pathogen defense, senescence and trichome development. The domain is a 60 amino acid region that is defined by the conserved amino acid sequence WRKYGQK at its N-terminal end, together with a novel zinc-finger-like motif. It binds specifically to the DNA sequence motif (T)(T)TGAC(C/T), which is known as the W box. The invariant TGAC core is essential for function and WRKY binding.
Probab=57.91 E-value=12 Score=26.91 Aligned_cols=28 Identities=32% Similarity=0.478 Sum_probs=22.0
Q ss_pred cCCccEEEEEee-cCceEEEEEecccCCC
Q 025532 143 VGCRAMILVRKV-NSGQWVVTKFVKEHTH 170 (251)
Q Consensus 143 tGC~A~i~vk~~-~~gkW~V~~f~~eHNH 170 (251)
.||+|+=.|... .++.-.++-...+|||
T Consensus 31 ~~C~a~K~Vq~~~~d~~~~~vtY~g~H~h 59 (59)
T smart00774 31 QGCPAKKQVQRSDDDPSVVEVTYEGEHTH 59 (59)
T ss_pred CCCCCcccEEEECCCCCEEEEEEeeEeCC
Confidence 489998777654 4677778888999998
No 9
>PF04684 BAF1_ABF1: BAF1 / ABF1 chromatin reorganising factor; InterPro: IPR006774 ABF1 is a sequence-specific DNA binding protein involved in transcription activation, gene silencing and initiation of DNA replication. ABF1 is known to remodel chromatin, and it is proposed that it mediates its effects on transcription and gene expression by modifying local chromatin architecture []. These functions require a conserved stretch of 20 amino acids in the C-terminal region of ABF1 (amino acids 639 to 662 Saccharomyces cerevisiae (P14164 from SWISSPROT)) []. The N-terminal two thirds of the protein are necessary for DNA binding, and the N terminus (amino acids 9 to 91 in S. cerevisiae) is thought to contain a novel zinc-finger motif which may stabilise the protein structure [].; GO: 0003677 DNA binding, 0006338 chromatin remodeling, 0005634 nucleus
Probab=57.86 E-value=4.9 Score=39.91 Aligned_cols=42 Identities=17% Similarity=0.235 Sum_probs=31.6
Q ss_pred CCccCCHHHHHHHHHHHhhhcCeeEEEeeeeeecCCCCeEeeeeeecc
Q 025532 75 GQQFESEAAAHAFYNAYATRVGFVIRVSKLSRSRRDGSAIGRALVCNK 122 (251)
Q Consensus 75 GM~F~S~eeA~~FYn~YA~~~GF~iR~~~~~rs~~dG~i~~r~fvCsr 122 (251)
+..|+|+++=|.-.|.|-...---|....+.|.+ -.+|.|..
T Consensus 25 ~~~f~tl~~wy~v~ndyefq~rcpiilknsh~nk------hftfachl 66 (496)
T PF04684_consen 25 ARKFPTLEAWYNVINDYEFQSRCPIILKNSHRNK------HFTFACHL 66 (496)
T ss_pred ccCCCcHHHHHHHHhhhhhhhcCceeeccccccc------ceEEEeec
Confidence 6789999999999999998777777655554432 35677765
No 10
>smart00461 WH1 WASP homology region 1. Region of the Wiskott-Aldrich syndrome protein (WASp) that contains point mutations in the majority of patients with WAS. Unknown function. Ena-like WH1 domains bind polyproline-containing peptides, and that Homer contains a WH1 domain.
Probab=55.67 E-value=7.3 Score=30.71 Aligned_cols=23 Identities=30% Similarity=0.364 Sum_probs=19.2
Q ss_pred CCCccCCccCCHHHHHHHHHHHh
Q 025532 70 DEPYVGQQFESEAAAHAFYNAYA 92 (251)
Q Consensus 70 ~~P~vGM~F~S~eeA~~FYn~YA 92 (251)
..=.+|..|.|++||..|++.-.
T Consensus 81 ~~~~~GLnF~se~EA~~F~~~v~ 103 (106)
T smart00461 81 DKCVYGLNFASEEEAKKFRKKVL 103 (106)
T ss_pred CCeEEEeecCCHHHHHHHHHHHH
Confidence 34468999999999999998654
No 11
>PF07576 BRAP2: BRCA1-associated protein 2; InterPro: IPR011422 These proteins include BRCA1-associated protein 2 (BRAP2), which binds nuclear localisation signals (NLSs) in vitro and in yeast two-hybrid screening []. These proteins share a region of sequence similarity at their N terminus. They also have IPR001607 from INTERPRO at the C terminus.
Probab=53.94 E-value=8.8 Score=30.81 Aligned_cols=21 Identities=24% Similarity=0.498 Sum_probs=18.1
Q ss_pred ccCCccCCHHHHHHHHHHHhh
Q 025532 73 YVGQQFESEAAAHAFYNAYAT 93 (251)
Q Consensus 73 ~vGM~F~S~eeA~~FYn~YA~ 93 (251)
.+=|.|.+.+.|.+||..|-.
T Consensus 56 mVLikF~~~~~Ad~Fy~~fNG 76 (110)
T PF07576_consen 56 MVLIKFRDQESADEFYEEFNG 76 (110)
T ss_pred EEEEEECCHHHHHHHHHHhCC
Confidence 456799999999999999954
No 12
>cd00837 EVH1 EVH1 (Enabled, Vasp-Homology) or WASP Homology (WH1) domain. EVH1 (Enabled, Vasp-Homology) or WASP Homology (WH1) domain. The EVH1 domain binds to other proteins at proline rich sequences in either FPPPP or PPXXF motifs. It is found in the cytoskeletal reorganization proteins Enabled VASP, and WASP, and in the synaptic scaffolding protein Homer. It has a PH-like fold, despite having minimal sequence similarity to PH or PTB domains.
Probab=52.85 E-value=8.3 Score=30.20 Aligned_cols=21 Identities=29% Similarity=0.319 Sum_probs=18.2
Q ss_pred CCccCCccCCHHHHHHHHHHH
Q 025532 71 EPYVGQQFESEAAAHAFYNAY 91 (251)
Q Consensus 71 ~P~vGM~F~S~eeA~~FYn~Y 91 (251)
.=.+|..|.|++||..|++.-
T Consensus 80 ~~~~GL~F~se~eA~~F~~~v 100 (104)
T cd00837 80 NCVYGLNFASEEEAAQFRKKV 100 (104)
T ss_pred CcEEEEeeCCHHHHHHHHHHH
Confidence 346899999999999999864
No 13
>cd01205 WASP WASP-type EVH1 domain. WASP-type EVH1 domain. Wiskott-Aldrich syndrome (WAS) is an X-linked recessive disease, characterized by eczema, immunodeficiency, and thrombocytopenia. The majority of patients with WAS, or a milder version of the disorder, X-linked thrombocytopenia (XLT), have point mutations in the EVH1 domain of WASP (Wiskott-Aldrich syndrome protein). WASP is an actin regulatory protein consisting of an N-terminal EVH1 domain, a basic region, a GTP binding domain, a proline rich region and a WH2 acidic region. Yeast members lack the GTP binding domain. WASP binds a 25 residue proline rich motif from the WASP Interacting Protein (WIP) via its N-terminal EVH1 domain.
Probab=49.21 E-value=10 Score=30.41 Aligned_cols=25 Identities=28% Similarity=0.416 Sum_probs=20.4
Q ss_pred CCCCCccCCccCCHHHHHHHHHHHh
Q 025532 68 QADEPYVGQQFESEAAAHAFYNAYA 92 (251)
Q Consensus 68 ~~~~P~vGM~F~S~eeA~~FYn~YA 92 (251)
+..+=.+|..|.+++||..||+.-.
T Consensus 78 e~d~c~~GL~Fade~EA~~F~k~v~ 102 (105)
T cd01205 78 EGDDCVVGLNFADETEAAEFRKKVL 102 (105)
T ss_pred eccCcEEEEEECCHHHHHHHHHHHH
Confidence 3446678999999999999998643
No 14
>PF02185 HR1: Hr1 repeat; InterPro: IPR000861 The HR1 repeat was first described as a three times repeated homology region of the N-terminal non-catalytic part of protein kinase PRK1(PKN) []. The first two of these repeats were later shown to bind the small G protein rho [, ] known to activate PKN in its GTP-bound form. Similar rho-binding domains also occur in a number of other protein kinases and in the rho-binding proteins rhophilin and rhotekin. Recently, the structure of the N-terminal HR1 repeat complexed with RhoA has been determined by X-ray crystallography []. It forms an antiparallel coiled-coil fold termed an ACC finger. This entry includes domains found within rho-associated protein kinases.; GO: 0007165 signal transduction, 0005622 intracellular; PDB: 1CXZ_B 3O0Z_C 2RMK_B 1URF_A.
Probab=48.10 E-value=1e+02 Score=22.14 Aligned_cols=57 Identities=18% Similarity=0.294 Sum_probs=43.9
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHH-------HHHHHHhhHHHHHHHHHHHHHHHHhhhhhcc
Q 025532 192 KIRELSQQLALEKKRAANYKRHLELI-------VEQIEEHNESLAKKIQHVVDSVKNIEDEEQK 248 (251)
Q Consensus 192 ~I~el~~el~~~~k~~~~~r~~l~~~-------~k~v~eh~~~ls~~i~~iv~~~k~~E~e~~~ 248 (251)
.|.+|..+|.+|.++-.+...++..+ ...+......-..+|..+-..+++++...+.
T Consensus 2 ~i~~L~~~i~~E~ki~~Gae~m~~~~~t~~~~~~~~~~~~l~~s~~kI~~L~~~L~~l~~~~~~ 65 (70)
T PF02185_consen 2 RIEELQKKIDKELKIKEGAENMLQAYSTDKKKVLSEAESQLRESNQKIELLREQLEKLQQRSQN 65 (70)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHCCHHCH-HHHHHHHHHHHHHHHHHHHHHHHHHHCCHH-
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHccCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCcC
Confidence 47788899999999888877776642 4455566677788999999999999887654
No 15
>PF00568 WH1: WH1 domain; InterPro: IPR000697 The EVH1 (WH1, RanBP1-WASP) domain is found in multi-domain proteins implicated in a diverse range of signalling, nuclear transport and cytoskeletal events. This domain of around 115 amino acids is present in species ranging from yeast to mammals. Many EVH1-containing proteins associate with actin-based structures and play a role in cytoskeletal organisation. EVH1 domains recognise and bind the proline-rich motif FPPPP with low-affinity, further interactions then form between flanking residues [][]. WASP family proteins contain a EVH1 (WH1) in their N-terminals which bind proline-rich sequences in the WASP interacting protein. Proteins of the RanBP1 family contain a WH1 domain in their N-terminal region, which seems to bind a different sequence motif present in the C-terminal part of RanGTP protein [,]. Tertiary structure of the WH1 domain of the Mena protein revealed structure similarities with the pleckstrin homology (PH) domain. The overall fold consists of a compact parallel beta-sandwich, closed along one edge by a long alpha-helix. A highly conserved cluster of three surface-exposed aromatic side-chains forms the recognition site for the molecules target ligands. [].; GO: 0005515 protein binding; PDB: 1I2H_A 1DDV_A 1DDW_A 1EGX_A 3SYX_A 1TJ6_B 1XOD_B 1EVH_A 1I7A_B 2JP2_A ....
Probab=48.06 E-value=11 Score=29.81 Aligned_cols=20 Identities=35% Similarity=0.547 Sum_probs=18.0
Q ss_pred ccCCccCCHHHHHHHHHHHh
Q 025532 73 YVGQQFESEAAAHAFYNAYA 92 (251)
Q Consensus 73 ~vGM~F~S~eeA~~FYn~YA 92 (251)
.+|+.|.|++||..||+.--
T Consensus 89 ~~GLnF~se~eA~~F~~~v~ 108 (111)
T PF00568_consen 89 VYGLNFASEEEADQFYKKVQ 108 (111)
T ss_dssp EEEEEESSHHHHHHHHHHHH
T ss_pred EEEEecCCHHHHHHHHHHHh
Confidence 78999999999999998753
No 16
>PF04684 BAF1_ABF1: BAF1 / ABF1 chromatin reorganising factor; InterPro: IPR006774 ABF1 is a sequence-specific DNA binding protein involved in transcription activation, gene silencing and initiation of DNA replication. ABF1 is known to remodel chromatin, and it is proposed that it mediates its effects on transcription and gene expression by modifying local chromatin architecture []. These functions require a conserved stretch of 20 amino acids in the C-terminal region of ABF1 (amino acids 639 to 662 Saccharomyces cerevisiae (P14164 from SWISSPROT)) []. The N-terminal two thirds of the protein are necessary for DNA binding, and the N terminus (amino acids 9 to 91 in S. cerevisiae) is thought to contain a novel zinc-finger motif which may stabilise the protein structure [].; GO: 0003677 DNA binding, 0006338 chromatin remodeling, 0005634 nucleus
Probab=45.33 E-value=46 Score=33.29 Aligned_cols=27 Identities=30% Similarity=0.412 Sum_probs=18.9
Q ss_pred EEEEecccCCCCCCCCCCCcccccccC
Q 025532 160 VVTKFVKEHTHPLTPGKGRKDCIYDQY 186 (251)
Q Consensus 160 ~V~~f~~eHNH~L~p~~~~~~~~~~~~ 186 (251)
+|++++.-|||||...-++..|++..+
T Consensus 168 ~v~k~~~~h~h~l~~nl~l~~fvltki 194 (496)
T PF04684_consen 168 VVTKIEPYHNHPLESNLSLDKFVLTKI 194 (496)
T ss_pred EEEeeccccCCcccccccHHHHHHhcc
Confidence 377888889999876666666664433
No 17
>PF04800 ETC_C1_NDUFA4: ETC complex I subunit conserved region; InterPro: IPR006885 This entry represents prokaryotic NADH-ubiquinone oxidoreductase subunits (1.6.5.3 from EC, 1.6.99.3 from EC) from complex I of the electron transport chain initially identified in Neurospora crassa as a 21 kDa protein [].; GO: 0016651 oxidoreductase activity, acting on NADH or NADPH, 0022900 electron transport chain, 0005743 mitochondrial inner membrane; PDB: 2JYA_A 2LJU_A.
Probab=44.33 E-value=18 Score=28.76 Aligned_cols=26 Identities=38% Similarity=0.540 Sum_probs=20.0
Q ss_pred cCCccCCHHHHHHHHHHHhhhcCeeEEEee
Q 025532 74 VGQQFESEAAAHAFYNAYATRVGFVIRVSK 103 (251)
Q Consensus 74 vGM~F~S~eeA~~FYn~YA~~~GF~iR~~~ 103 (251)
+-|.|+|.|+|.. ||.+.|..-.+..
T Consensus 51 v~l~F~skE~Ai~----yaer~G~~Y~V~~ 76 (101)
T PF04800_consen 51 VRLKFDSKEDAIA----YAERNGWDYEVEE 76 (101)
T ss_dssp CEEEESSHHHHHH----HHHHCT-EEEEE-
T ss_pred eEeeeCCHHHHHH----HHHHcCCeEEEeC
Confidence 5789999999975 6888998877654
No 18
>PF07045 DUF1330: Protein of unknown function (DUF1330); InterPro: IPR010753 This family consists of several hypothetical bacterial proteins of around 90 residues in length. The function of this family is unknown.; PDB: 2FIU_B 3HHL_A 3DCA_D 3LO3_I.
Probab=41.18 E-value=13 Score=26.47 Aligned_cols=17 Identities=47% Similarity=0.579 Sum_probs=14.6
Q ss_pred cCCccCCHHHHHHHHHH
Q 025532 74 VGQQFESEAAAHAFYNA 90 (251)
Q Consensus 74 vGM~F~S~eeA~~FYn~ 90 (251)
+=.+|+|.++|..||+.
T Consensus 42 viieFPs~~aa~~~~~s 58 (65)
T PF07045_consen 42 VIIEFPSMEAAKAWYNS 58 (65)
T ss_dssp EEEEESSHHHHHHHHCS
T ss_pred EEEECCCHHHHHHHHCC
Confidence 34699999999999985
No 19
>PF15299 ALS2CR8: Amyotrophic lateral sclerosis 2 chromosomal region candidate gene 8
Probab=33.95 E-value=57 Score=29.04 Aligned_cols=17 Identities=24% Similarity=0.591 Sum_probs=14.5
Q ss_pred ccCcccccCCccEEEEE
Q 025532 136 RQRAETRVGCRAMILVR 152 (251)
Q Consensus 136 r~R~~tRtGC~A~i~vk 152 (251)
+...+.+.+|||.|.|+
T Consensus 71 ~~~~skK~~CPA~I~Ik 87 (225)
T PF15299_consen 71 RSKPSKKRDCPARIYIK 87 (225)
T ss_pred ccccccCCCCCeEEEEE
Confidence 45678899999999987
No 20
>PF05377 FlaC_arch: Flagella accessory protein C (FlaC); InterPro: IPR008039 Although archaeal flagella appear superficially similar to those of bacteria, they are quite distinct []. In several archaea, the flagellin genes are followed immediately by the flagellar accessory genes flaCDEFGHIJ. The gene products may have a role in translocation, secretion, or assembly of the flagellum. FlaC is a protein whose exact role is unknown but it has been shown to be membrane-associated (by immuno-blotting fractionated cells) [].
Probab=31.89 E-value=1.5e+02 Score=21.20 Aligned_cols=29 Identities=17% Similarity=0.541 Sum_probs=21.5
Q ss_pred HHHHHHHHHHhhHHHHHHHHHHHHHHHHh
Q 025532 214 LELIVEQIEEHNESLAKKIQHVVDSVKNI 242 (251)
Q Consensus 214 l~~~~k~v~eh~~~ls~~i~~iv~~~k~~ 242 (251)
+.+.+..++..++.++..++.+=++||++
T Consensus 12 ~~~~i~tvk~en~~i~~~ve~i~envk~l 40 (55)
T PF05377_consen 12 IESSINTVKKENEEISESVEKIEENVKDL 40 (55)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 45556677778888888888888877765
No 21
>cd01207 Ena-Vasp Enabled-VASP-type homology (EVH1) domain. Enabled-VASP-type homology (EVH1) domain. The EVH1 domain binds to other proteins at proline rich sequences. It is found in proteins involved in cytoskeletal reorganization such as Enabled and VASP. Ena-VASP type EVH1 domains specifically recognize FPPPP motifs in the focal adhesion proteins zyxin and vinculin, and the ActA surface protein of Listeria monocytogenes. It has a PH-like fold, despite having minimal sequence similarity to PH or PTB domains.
Probab=31.10 E-value=33 Score=27.70 Aligned_cols=21 Identities=29% Similarity=0.355 Sum_probs=17.9
Q ss_pred CCccCCccCCHHHHHHHHHHH
Q 025532 71 EPYVGQQFESEAAAHAFYNAY 91 (251)
Q Consensus 71 ~P~vGM~F~S~eeA~~FYn~Y 91 (251)
.=..|..|.|++||..|+..-
T Consensus 83 ~~v~GLnF~Se~eA~~F~~~v 103 (111)
T cd01207 83 RQVYGLNFGSKEDATMFASAM 103 (111)
T ss_pred CeEEeeccCCHHHHHHHHHHH
Confidence 346799999999999998764
No 22
>PHA02047 phage lambda Rz1-like protein
Probab=30.49 E-value=2.6e+02 Score=22.31 Aligned_cols=47 Identities=17% Similarity=0.371 Sum_probs=34.9
Q ss_pred CchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHH
Q 025532 188 NEHDKIRELSQQLALEKKRAANYKRHLELIVEQIEEHNESLAKKIQHVVDS 238 (251)
Q Consensus 188 ~shk~I~el~~el~~~~k~~~~~r~~l~~~~k~v~eh~~~ls~~i~~iv~~ 238 (251)
-.|+.+..+..+|...+.+-..|+++..- ++...+....+|.+.++.
T Consensus 31 ~~h~~a~~la~qLE~a~~r~~~~Q~~V~~----l~~kae~~t~Ei~~aL~~ 77 (101)
T PHA02047 31 IAHEEAKRQTARLEALEVRYATLQRHVQA----VEARTNTQRQEVDRALDQ 77 (101)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHHHh
Confidence 35889999999999988888888888643 444456666677766663
No 23
>PF08414 NADPH_Ox: Respiratory burst NADPH oxidase; InterPro: IPR013623 This domain is found in plant proteins such as respiratory burst NADPH oxidase proteins which produce reactive oxygen species as a defence mechanism. It tends to occur to the N terminus of an EF-hand (IPR002048 from INTERPRO), which suggests a direct regulatory effect of Ca2+ on the activity of the NADPH oxidase in plants []. ; GO: 0004601 peroxidase activity, 0050664 oxidoreductase activity, acting on NADH or NADPH, oxygen as acceptor, 0055114 oxidation-reduction process; PDB: 3A8R_A.
Probab=29.08 E-value=41 Score=26.79 Aligned_cols=26 Identities=27% Similarity=0.469 Sum_probs=19.2
Q ss_pred CccCCccCCHHHHHHHHHHHhhhcCee
Q 025532 72 PYVGQQFESEAAAHAFYNAYATRVGFV 98 (251)
Q Consensus 72 P~vGM~F~S~eeA~~FYn~YA~~~GF~ 98 (251)
-+|||. +|.|=|-+-|.+-|++.|-.
T Consensus 52 ~CIGM~-dSkeFA~eLFdALaRrr~i~ 77 (100)
T PF08414_consen 52 ECIGMK-DSKEFAGELFDALARRRGIK 77 (100)
T ss_dssp HHHT---S-HHHHHHHHHHHHHHTT--
T ss_pred HhcCCc-ccHHHHHHHHHHHHHhcCCc
Confidence 479999 99999999999999987654
No 24
>PF06295 DUF1043: Protein of unknown function (DUF1043); InterPro: IPR009386 This entry consists of several hypothetical bacterial proteins of unknown function.
Probab=26.20 E-value=3.5e+02 Score=21.88 Aligned_cols=33 Identities=24% Similarity=0.341 Sum_probs=23.6
Q ss_pred CchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 025532 188 NEHDKIRELSQQLALEKKRAANYKRHLELIVEQ 220 (251)
Q Consensus 188 ~shk~I~el~~el~~~~k~~~~~r~~l~~~~k~ 220 (251)
++-++...|.++|...+.....|++.+..-|..
T Consensus 22 ~~~~~q~~l~~eL~~~k~el~~yk~~V~~HF~~ 54 (128)
T PF06295_consen 22 SNQQKQAKLEQELEQAKQELEQYKQEVNDHFAQ 54 (128)
T ss_pred cchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 444567788888888888888888877654433
No 25
>PF12441 DUF3680: Protein of unknown function (DUF3680) ; InterPro: IPR022148 This domain family is found in bacteria and archaea, and is approximately 40 amino acids in length.
Probab=24.94 E-value=59 Score=21.83 Aligned_cols=14 Identities=29% Similarity=0.719 Sum_probs=13.1
Q ss_pred ccCCHHHHHHHHHH
Q 025532 77 QFESEAAAHAFYNA 90 (251)
Q Consensus 77 ~F~S~eeA~~FYn~ 90 (251)
.|.|+++|.+|+..
T Consensus 7 ~f~se~Ee~eFW~~ 20 (42)
T PF12441_consen 7 EFKSEEEEREFWDT 20 (42)
T ss_pred CCCCHHHHHHHHHh
Confidence 79999999999987
No 26
>PF01693 Cauli_VI: Caulimovirus viroplasmin; InterPro: IPR011320 This entry represents the N-terminal domain of RNase HI, which has a 3-layer alpha/beta/alpha structure []. This domain is lacking in retroviral and prokaryotic enzymes, but shows a striking structural similarity to the ribosomal protein L9 N-terminal domain, and may function as a regulatory RNA-binding module. However, the topology of this domain differs from structures of known RNA binding domains such as the double-stranded RNA binding domain (dsRBD), the hnRNP K homology (KH) domain and the RNP motif. Eukaryotic RNases HI possess either one or two copies of this small N-terminal domain, in addition to the well-conserved catalytic RNase H domain. RNase HI belongs to the family of ribonuclease H enzymes that recognise RNA:DNA hybrids and degrade the RNA component. ; PDB: 1QHK_A 3BSU_C.
Probab=24.54 E-value=45 Score=21.98 Aligned_cols=13 Identities=23% Similarity=0.452 Sum_probs=11.3
Q ss_pred CCccCCHHHHHHH
Q 025532 75 GQQFESEAAAHAF 87 (251)
Q Consensus 75 GM~F~S~eeA~~F 87 (251)
=+.|.|++||.+|
T Consensus 32 ~k~F~t~~eA~~~ 44 (44)
T PF01693_consen 32 YKSFKTREEAEEF 44 (44)
T ss_dssp EEEESSHHHHHHH
T ss_pred ECCcCCHHHHhhC
Confidence 4789999999987
No 27
>PF02024 Leptin: Leptin; InterPro: IPR000065 Leptin, a metabolic monitor of food intake and energy need, is expressed by the ob obesity gene. The protein may function as part of a signalling pathway from adipose tissue that acts to regulate the size of the body fat depot [], the hormone effectively turning the brain's appetite message off when it senses that the body is satiated. Obese humans have high levels of the protein, suggesting a similarity to type II (adult onset) diabetes, in which sufferers over-produce insulin, but can't respond to it metabolically - they have become insulin resistant. Similarly, it is thought that obese individuals may be leptin resistant.; GO: 0005179 hormone activity, 0007165 signal transduction, 0005576 extracellular region; PDB: 1AX8_A.
Probab=23.86 E-value=1.2e+02 Score=25.80 Aligned_cols=70 Identities=14% Similarity=0.244 Sum_probs=32.2
Q ss_pred cccCCCCC-CCCCCCcccccccCCCchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHhh
Q 025532 165 VKEHTHPL-TPGKGRKDCIYDQYPNEHDKIRELSQQLALEKKRAANYKRHLELIVEQIEEHNESLAKKIQHVVDSVKNIE 243 (251)
Q Consensus 165 ~~eHNH~L-~p~~~~~~~~~~~~~~shk~I~el~~el~~~~k~~~~~r~~l~~~~k~v~eh~~~ls~~i~~iv~~~k~~E 243 (251)
+.+|+|.+ ++++.+..- + .|.+..+.|..| .-...-.++|++.|.+.=. .|...++.|++++.+++.-+=
T Consensus 21 I~~~~~~~~vssk~~I~g-l-dfiPg~~pi~sL----s~mdqTL~~yQ~IL~sLps---~nv~QIsnDlenLr~lL~~la 91 (146)
T PF02024_consen 21 INDHSHQQSVSSKQRITG-L-DFIPGLQPILSL----SSMDQTLAIYQQILTSLPS---GNVSQISNDLENLRDLLHLLA 91 (146)
T ss_dssp HHH-------------------S---SS--SSH----HHHHHHHHHHHHHHHTS-----HHHHHHHHHHHHHHHHHHHHH
T ss_pred HHhcchhccCCccccccC-c-ccCCCcchhccH----HHHHHHHHHHHHHHHhCCh---hhHHHHHHHHHHHHHHHHHHH
Confidence 57899987 344432211 1 123445555543 3345567888888755433 567788889888888887553
No 28
>PF08471 Ribonuc_red_2_N: Class II vitamin B12-dependent ribonucleotide reductase; InterPro: IPR013678 This domain is found to the N terminus of the ribonucleotide reductase barrel domain (IPR000788 from INTERPRO). It occurs in bacterial class II ribonucleotide reductase proteins which depend upon coenzyme B12 (deoxyadenosylcobalamine) []. ; GO: 0004748 ribonucleoside-diphosphate reductase activity, 0050897 cobalt ion binding, 0055114 oxidation-reduction process
Probab=23.61 E-value=66 Score=25.31 Aligned_cols=17 Identities=35% Similarity=0.608 Sum_probs=14.7
Q ss_pred ccCCHHHHHHHHHHHhh
Q 025532 77 QFESEAAAHAFYNAYAT 93 (251)
Q Consensus 77 ~F~S~eeA~~FYn~YA~ 93 (251)
-|+|+++|..||..-+.
T Consensus 72 YF~t~eDA~~FydEl~~ 88 (93)
T PF08471_consen 72 YFATEEDAEAFYDELTY 88 (93)
T ss_pred CcCCHHHHHHHHHHHHH
Confidence 69999999999987553
No 29
>PF03670 UPF0184: Uncharacterised protein family (UPF0184); InterPro: IPR022788 This family of proteins has no known function.
Probab=21.16 E-value=2.2e+02 Score=21.98 Aligned_cols=34 Identities=24% Similarity=0.464 Sum_probs=28.6
Q ss_pred HHHHHHHHHHHHhhHHHHHHHHHHHHHHHHhhhh
Q 025532 212 RHLELIVEQIEEHNESLAKKIQHVVDSVKNIEDE 245 (251)
Q Consensus 212 ~~l~~~~k~v~eh~~~ls~~i~~iv~~~k~~E~e 245 (251)
.+|.+.|..|++.+.+|...++.+|+.=|++-.+
T Consensus 36 D~Lns~LD~LE~rnD~l~~~L~~LLesnrq~R~e 69 (83)
T PF03670_consen 36 DQLNSCLDHLEQRNDHLHAQLQELLESNRQIRLE 69 (83)
T ss_pred HHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHH
Confidence 5677778899999999999999999988876544
Done!