Query 024581
Match_columns 265
No_of_seqs 131 out of 192
Neff 4.3
Searched_HMMs 46136
Date Fri Mar 29 05:45:41 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/024581.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/024581hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF09398 FOP_dimer: FOP N term 99.9 3.5E-23 7.5E-28 160.8 3.1 77 61-139 5-81 (81)
2 PF08513 LisH: LisH; InterPro 97.2 0.00017 3.6E-09 45.3 1.4 26 76-101 2-27 (27)
3 smart00667 LisH Lissencephaly 96.2 0.0029 6.4E-08 39.2 1.6 30 75-104 4-33 (34)
4 PF10163 EnY2: Transcription f 69.3 5.6 0.00012 30.9 3.2 34 5-38 13-46 (86)
5 KOG2659 LisH motif-containing 64.6 4.2 9.2E-05 37.6 1.9 35 71-105 23-57 (228)
6 KOG0273 Beta-transducin family 61.3 5.5 0.00012 40.6 2.2 29 76-104 7-35 (524)
7 KOG1333 Uncharacterized conser 52.4 4.8 0.0001 37.2 0.1 30 77-106 8-37 (241)
8 PF05698 Trigger_C: Bacterial 51.5 43 0.00093 27.2 5.6 36 8-44 2-37 (162)
9 PF10163 EnY2: Transcription f 47.8 39 0.00084 26.2 4.5 28 10-37 1-28 (86)
10 PF05696 DUF826: Protein of un 32.9 80 0.0017 24.9 4.1 31 13-43 11-41 (78)
11 PF08766 DEK_C: DEK C terminal 31.5 1.6E+02 0.0034 20.7 5.2 53 8-86 2-54 (54)
12 PF03828 PAP_assoc: Cid1 famil 29.7 31 0.00067 24.1 1.3 26 77-102 2-29 (60)
13 PLN02396 hexaprenyldihydroxybe 29.7 70 0.0015 30.6 4.0 70 143-212 11-81 (322)
14 PF03859 CG-1: CG-1 domain; I 27.2 20 0.00043 30.2 -0.1 24 204-227 47-72 (118)
15 KOG4479 Transcription factor e 27.0 1.3E+02 0.0027 24.3 4.4 35 5-39 14-48 (92)
16 PF12807 eIF3_p135: Translatio 24.4 4.5E+02 0.0096 22.4 8.6 48 73-123 114-161 (169)
17 PF14014 DUF4230: Protein of u 22.3 2.2E+02 0.0049 23.3 5.3 40 3-42 107-146 (157)
18 PF07498 Rho_N: Rho terminatio 21.8 64 0.0014 22.0 1.6 32 110-141 8-39 (43)
No 1
>PF09398 FOP_dimer: FOP N terminal dimerisation domain; InterPro: IPR018993 Fibroblast growth factor receptor 1 (FGFR1) oncogene partner (FOP) is a centrosomal protein that is involved in anchoring microtubules to centrosomes. This domain includes a Lis-homology motif. It forms an alpha-helical bundle and is involved in dimerisation []. ; GO: 0034453 microtubule anchoring, 0005813 centrosome; PDB: 2D68_A.
Probab=99.87 E-value=3.5e-23 Score=160.78 Aligned_cols=77 Identities=27% Similarity=0.530 Sum_probs=61.0
Q ss_pred CcccccccCCCchhHHHHHHHHHHHHHcCCccccchhccccCCchHHHHHHHHHHHHhcCCCCCCCCCCCccHHHHHHH
Q 024581 61 CNDRAKQLHASPSGRLLTALICEYLDWAQLNHTMKVYLPECNLQKDAWKAELKEFSSKNGYDLNKNGDSAPLLLDVLEG 139 (265)
Q Consensus 61 ~N~~~k~i~~s~eg~LineLI~EYLef~gl~yTLSVF~pESgl~~~~l~rEl~~L~~~LGL~~n~~~~~~PLL~qLLe~ 139 (265)
||+++|+++.+++|+|||+||+|||+||||+||+|||.+|||+++..+.| +.||++|||.++..+.+.||||.||++
T Consensus 5 ~ne~lkk~l~t~eg~Li~eLIrEyLef~~l~~TlsVf~~Es~~~~~~~~R--~~L~~eLgi~~~~~~~~~PLL~~lv~~ 81 (81)
T PF09398_consen 5 VNENLKKFLSTKEGRLINELIREYLEFNNLDYTLSVFQPESGQPEEPLDR--EFLARELGISEDENSKSVPLLYELVSR 81 (81)
T ss_dssp --HHHHHHHTSHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHT-TT----H--HHHHHHCT----CCCCTS-HHHHHHHC
T ss_pred cchHHHHHhcCchhHHHHHHHHHHHHHcCCccHHHHHhhccCCCCCcCCH--HHHHHHcCCCCCCCCCCCCchHHHHhC
Confidence 89999999999999999999999999999999999999999999987776 689999999998878899999999973
No 2
>PF08513 LisH: LisH; InterPro: IPR013720 The LisH motif is found in a large number of eukaryotic proteins, from metazoa, fungi and plants that have a wide range of functions. The recently solved structure of the LisH domain in the N-terminal region of LIS1 depicted it as a novel dimerization motif, and that other structural elements are likely to play an important role in dimerisation [, , ]. The LisH (lis homology) domain mediates protein dimerisation and tetramerisation. The LisH domain is found in Sif2, a component of the Set3 complex which is responsible for repressing meiotic genes. It has been shown that the LisH domain helps mediate interaction with components of the Set3 complex []. ; PDB: 2XTE_L 2XTC_B 2XTD_A 1UUJ_B.
Probab=97.21 E-value=0.00017 Score=45.35 Aligned_cols=26 Identities=31% Similarity=0.369 Sum_probs=23.5
Q ss_pred HHHHHHHHHHHHcCCccccchhcccc
Q 024581 76 LLTALICEYLDWAQLNHTMKVYLPEC 101 (265)
Q Consensus 76 LineLI~EYLef~gl~yTLSVF~pES 101 (265)
.+|.||.+||.++||..|..+|..|+
T Consensus 2 ~Ln~lI~~YL~~~Gy~~tA~~f~~Ea 27 (27)
T PF08513_consen 2 ELNQLIYDYLVENGYKETAKAFAKEA 27 (27)
T ss_dssp HHHHHHHHHHHHCT-HHHHHHHHHHT
T ss_pred HHHHHHHHHHHHCCcHHHHHHHHhcC
Confidence 58999999999999999999999886
No 3
>smart00667 LisH Lissencephaly type-1-like homology motif. Alpha-helical motif present in Lis1, treacle, Nopp140, some katanin p60 subunits, muskelin, tonneau, LEUNIG and numerous WD40 repeat-containing proteins. It is suggested that LisH motifs contribute to the regulation of microtubule dynamics, either by mediating dimerisation, or else by binding cytoplasmic dynein heavy chain or microtubules directly.
Probab=96.16 E-value=0.0029 Score=39.22 Aligned_cols=30 Identities=30% Similarity=0.294 Sum_probs=27.2
Q ss_pred HHHHHHHHHHHHHcCCccccchhccccCCc
Q 024581 75 RLLTALICEYLDWAQLNHTMKVYLPECNLQ 104 (265)
Q Consensus 75 ~LineLI~EYLef~gl~yTLSVF~pESgl~ 104 (265)
..++.+|.+||.++||..|..+|..|+++.
T Consensus 4 ~~l~~lI~~yL~~~g~~~ta~~l~~e~~~~ 33 (34)
T smart00667 4 SELNRLILEYLLRNGYEETAETLQKESGLS 33 (34)
T ss_pred HHHHHHHHHHHHHcCHHHHHHHHHHHhCCC
Confidence 457889999999999999999999999874
No 4
>PF10163 EnY2: Transcription factor e(y)2; InterPro: IPR018783 Enhancer of yellow 2 (EnY2) is a small transcription factor which is combined in a complex with the TAFII40 protein []. This protein is conserved from protozoa to humans.; PDB: 4DHX_C 3FWC_P 3M99_C 3KIK_A 3KJL_C 3FWB_C 3MHS_B 3MHH_B.
Probab=69.33 E-value=5.6 Score=30.93 Aligned_cols=34 Identities=26% Similarity=0.273 Sum_probs=26.5
Q ss_pred HHHHHHHHHHHHHHHHHhchHHHHHHHHHHHHHH
Q 024581 5 TREMMDLKTLVTRTLEKKGVLAKIRAELRASVFE 38 (265)
Q Consensus 5 t~E~~ELKdlV~qtLEk~GVL~KIRAqLRA~Vf~ 38 (265)
+.|-+.|+++|.+.|.+.|--++||...|..+..
T Consensus 13 sGe~~~L~~~L~~rL~e~GW~d~vr~~~re~i~~ 46 (86)
T PF10163_consen 13 SGEYERLKELLRQRLIECGWRDEVRQLCREIIRE 46 (86)
T ss_dssp CTHHHHHHHHHHHHHHHTTHHHHHHHHHHHHHHH
T ss_pred cCcHHHHHHHHHHHHHHCChHHHHHHHHHHHHHh
Confidence 3466788888888888888888888887766655
No 5
>KOG2659 consensus LisH motif-containing protein [Cytoskeleton]
Probab=64.64 E-value=4.2 Score=37.65 Aligned_cols=35 Identities=17% Similarity=0.204 Sum_probs=31.3
Q ss_pred CchhHHHHHHHHHHHHHcCCccccchhccccCCch
Q 024581 71 SPSGRLLTALICEYLDWAQLNHTMKVYLPECNLQK 105 (265)
Q Consensus 71 s~eg~LineLI~EYLef~gl~yTLSVF~pESgl~~ 105 (265)
+..+..+|.||.+||-..||.=+..+|..|+|+..
T Consensus 23 ~~~~~d~n~LVmnylv~eg~~EaA~~Fa~e~~i~~ 57 (228)
T KOG2659|consen 23 SVMREDLNRLVMNYLVHEGYVEAAEKFAKESGIKP 57 (228)
T ss_pred CcchhhHHHHHHHHHHhccHHHHHHHhccccCCCC
Confidence 34566799999999999999999999999999875
No 6
>KOG0273 consensus Beta-transducin family (WD-40 repeat) protein [Chromatin structure and dynamics]
Probab=61.29 E-value=5.5 Score=40.60 Aligned_cols=29 Identities=17% Similarity=0.268 Sum_probs=27.0
Q ss_pred HHHHHHHHHHHHcCCccccchhccccCCc
Q 024581 76 LLTALICEYLDWAQLNHTMKVYLPECNLQ 104 (265)
Q Consensus 76 LineLI~EYLef~gl~yTLSVF~pESgl~ 104 (265)
-+|-||--||+-.||.||+-+|.-|+++.
T Consensus 7 EvN~LV~RYLqE~G~~hsaftf~~Et~is 35 (524)
T KOG0273|consen 7 EVNFLVWRYLQESGFSHSAFTFGIETGIS 35 (524)
T ss_pred HHHHHHHHHHHHcCcceeeEEeeeccccc
Confidence 37999999999999999999999999875
No 7
>KOG1333 consensus Uncharacterized conserved protein [Function unknown]
Probab=52.38 E-value=4.8 Score=37.22 Aligned_cols=30 Identities=30% Similarity=0.438 Sum_probs=26.3
Q ss_pred HHHHHHHHHHHcCCccccchhccccCCchH
Q 024581 77 LTALICEYLDWAQLNHTMKVYLPECNLQKD 106 (265)
Q Consensus 77 ineLI~EYLef~gl~yTLSVF~pESgl~~~ 106 (265)
.-+||+|||-|-||-+|+.-|..|+...++
T Consensus 8 tDelvReYL~frgf~~tLkalD~E~~~~Ke 37 (241)
T KOG1333|consen 8 TDELVREYLLFRGFTHTLKALDAEIKADKE 37 (241)
T ss_pred HHHHHHHHHHHhhHHHHHHHHhHHHhhhhh
Confidence 568999999999999999999999876544
No 8
>PF05698 Trigger_C: Bacterial trigger factor protein (TF) C-terminus; InterPro: IPR008880 In the Escherichia coli cytosol, a fraction of the newly synthesised proteins requires the activity of molecular chaperones for folding to the native state. The major chaperones implicated in this folding process are the ribosome-associated Trigger Factor (TF), and the DnaK and GroEL chaperones with their respective co-chaperones. Trigger Factor is an ATP-independent chaperone and displays chaperone and peptidyl-prolyl-cis-trans-isomerase (PPIase) activities in vitro. It is composed of at least three domains, an N-terminal domain which mediates association with the large ribosomal subunit, a central substrate binding and PPIase domain with homology to FKBP proteins, and a C-terminal domain of unknown function. The positioning of TF at the peptide exit channel, together with its ability to interact with nascent chains as short as 57 residues renders TF a prime candidate for being the first chaperone that binds to the nascent polypeptide chains []. This entry represents the C-terminal domain of bacterial trigger factor proteins, which has a multi-helical structure consisting of an irregular array of long and short helices. This domain is structurally similar to the peptide-binding domain of the bacterial porin chaperone SurA.; GO: 0006457 protein folding, 0015031 protein transport; PDB: 1T11_A 3GU0_A 3GTY_X 2NSA_A 1ZXJ_A 1W26_A.
Probab=51.53 E-value=43 Score=27.22 Aligned_cols=36 Identities=28% Similarity=0.410 Sum_probs=30.5
Q ss_pred HHHHHHHHHHHHHHhchHHHHHHHHHHHHHHHHhhhh
Q 024581 8 MMDLKTLVTRTLEKKGVLAKIRAELRASVFEAIEEED 44 (265)
Q Consensus 8 ~~ELKdlV~qtLEk~GVL~KIRAqLRA~Vf~aLdee~ 44 (265)
+++||+.|++.|+ .-.-.++...++.+|+..|-+..
T Consensus 2 leelk~~i~~~l~-~~~~~~~~~~~~~~v~~~L~~~~ 37 (162)
T PF05698_consen 2 LEELKEKIREELE-KQKKQQIEQQKREAVLDALIENS 37 (162)
T ss_dssp HHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHGGGE
T ss_pred HHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHC
Confidence 6799999999999 45677888889999999998764
No 9
>PF10163 EnY2: Transcription factor e(y)2; InterPro: IPR018783 Enhancer of yellow 2 (EnY2) is a small transcription factor which is combined in a complex with the TAFII40 protein []. This protein is conserved from protozoa to humans.; PDB: 4DHX_C 3FWC_P 3M99_C 3KIK_A 3KJL_C 3FWB_C 3MHS_B 3MHH_B.
Probab=47.84 E-value=39 Score=26.22 Aligned_cols=28 Identities=21% Similarity=0.431 Sum_probs=25.0
Q ss_pred HHHHHHHHHHHHhchHHHHHHHHHHHHH
Q 024581 10 DLKTLVTRTLEKKGVLAKIRAELRASVF 37 (265)
Q Consensus 10 ELKdlV~qtLEk~GVL~KIRAqLRA~Vf 37 (265)
+|++.|.+.|.++|-..+|+..|+..+.
T Consensus 1 ~l~~~i~~~L~~sGe~~~L~~~L~~rL~ 28 (86)
T PF10163_consen 1 QLKAQIQQRLVESGEYERLKELLRQRLI 28 (86)
T ss_dssp HHHHHHHHHHHHCTHHHHHHHHHHHHHH
T ss_pred CHHHHHHHHHHHcCcHHHHHHHHHHHHH
Confidence 6899999999999999999999976653
No 10
>PF05696 DUF826: Protein of unknown function (DUF826); InterPro: IPR008544 This entry is represented by Bacteriophage 933W, Orf26. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches.
Probab=32.94 E-value=80 Score=24.91 Aligned_cols=31 Identities=19% Similarity=0.369 Sum_probs=22.8
Q ss_pred HHHHHHHHHhchHHHHHHHHHHHHHHHHhhh
Q 024581 13 TLVTRTLEKKGVLAKIRAELRASVFEAIEEE 43 (265)
Q Consensus 13 dlV~qtLEk~GVL~KIRAqLRA~Vf~aLdee 43 (265)
++|++.|...-|...+|+|+|..+=.-|+..
T Consensus 11 e~VK~aL~Se~V~~alK~qvr~~le~qiDa~ 41 (78)
T PF05696_consen 11 EAVKQALRSEEVTSALKQQVRQNLEAQIDAE 41 (78)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4677788888888888888877665555543
No 11
>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=31.54 E-value=1.6e+02 Score=20.69 Aligned_cols=53 Identities=15% Similarity=0.266 Sum_probs=28.9
Q ss_pred HHHHHHHHHHHHHHhchHHHHHHHHHHHHHHHHhhhhhhhhccCCCCCcccCcCcccccccCCCchhHHHHHHHHHHHH
Q 024581 8 MMDLKTLVTRTLEKKGVLAKIRAELRASVFEAIEEEDRVIEKDEGLPPALLGSCNDRAKQLHASPSGRLLTALICEYLD 86 (265)
Q Consensus 8 ~~ELKdlV~qtLEk~GVL~KIRAqLRA~Vf~aLdee~~~~~k~~~~pP~L~~s~N~~~k~i~~s~eg~LineLI~EYLe 86 (265)
+.+++..|.+.|...+.-.=-..++|..+-..+.- ..++-...|+++|.+||.
T Consensus 2 d~~i~~~i~~iL~~~dl~~vT~k~vr~~Le~~~~~--------------------------dL~~~K~~I~~~I~~~l~ 54 (54)
T PF08766_consen 2 DEEIREAIREILREADLDTVTKKQVREQLEERFGV--------------------------DLSSRKKFIKELIDEFLS 54 (54)
T ss_dssp HHHHHHHHHHHHTTS-GGG--HHHHHHHHHHH-SS----------------------------SHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHhCCHhHhhHHHHHHHHHHHHCC--------------------------CcHHHHHHHHHHHHHHhC
Confidence 45677777777777654443344444444333311 123456689999999984
No 12
>PF03828 PAP_assoc: Cid1 family poly A polymerase; InterPro: IPR002058 These PAP/25A associated domains are found in uncharacterised eukaryotic proteins, a number of which are described as 'topoisomerase 1-related' though they appear to have little or no homology to topoisomerase 1. The signatures that define this group of sequences often occur towards the C terminus after the PAP/25A core domain IPR001201 from INTERPRO.; PDB: 2B4V_A 2B56_A 2B51_A 4EP7_B 2NOM_B 2Q0G_B 2Q0D_B 2Q0C_A 2Q0F_A 2Q0E_A ....
Probab=29.69 E-value=31 Score=24.08 Aligned_cols=26 Identities=12% Similarity=0.202 Sum_probs=19.3
Q ss_pred HHHHHHHHHHHcC--CccccchhccccC
Q 024581 77 LTALICEYLDWAQ--LNHTMKVYLPECN 102 (265)
Q Consensus 77 ineLI~EYLef~g--l~yTLSVF~pESg 102 (265)
+-+|..+||+|++ ++|...|...=.|
T Consensus 2 lg~Ll~~Ff~~Y~~~Fd~~~~~Isi~~g 29 (60)
T PF03828_consen 2 LGELLLGFFEYYGRKFDYENNVISIRNG 29 (60)
T ss_dssp HHHHHHHHHHHHHHTS-TTTEEEESSSS
T ss_pred HHHHHHHHHHHhCCcCCCCceEEEecCC
Confidence 4579999999999 8888777655444
No 13
>PLN02396 hexaprenyldihydroxybenzoate methyltransferase
Probab=29.65 E-value=70 Score=30.58 Aligned_cols=70 Identities=14% Similarity=0.052 Sum_probs=30.7
Q ss_pred ccCcccccccC-CCCCCCCCCcccccccCCCCCCCCCCCCCCCCCCCCCCccchhhcccCCCccccccccc
Q 024581 143 FENSSQARITG-RRQPDSESMSHFESRNARRPSSSSVAGGLPPLGRPIPASQASDRRAAGSSMSAYRKDEY 212 (265)
Q Consensus 143 ~en~~q~~~~~-~~~~~~d~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 212 (265)
++++.-+++.. +|+-+....+.--.|+.--.++++..-.-||-.++.+..+..-+-.+|++.+++-++|+
T Consensus 11 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~e~ 81 (322)
T PLN02396 11 QRLLLSARRLSSSRIIPPSRLLHQRLFSTSDTDDSAASFSSSHPKMQTLEGKASNKSRSTSTTTSLNEDEL 81 (322)
T ss_pred HHHHhhcCCcccccccccccccccccccccCCCcccccccCCCCCCCCccccCCCcCcCCCCCCCCCHHHH
Confidence 34444444444 44455555544434433222222222222222233333333334447777777766654
No 14
>PF03859 CG-1: CG-1 domain; InterPro: IPR005559 CG-1 domains are highly conserved domains of about 130 amino-acid residues containing a predicted bipartite NLS and named after a partial cDNA clone isolated from parsley encoding a sequence-specific DNA-binding protein []. CG-1 domains are associated with CAMTA proteins (for CAlModulin -binding Transcription Activator) that are transcription factors containing a calmodulin-binding domain and ankyrins [].; GO: 0005516 calmodulin binding, 0006355 regulation of transcription, DNA-dependent, 0005634 nucleus
Probab=27.24 E-value=20 Score=30.23 Aligned_cols=24 Identities=33% Similarity=0.663 Sum_probs=17.0
Q ss_pred ccccccccccccC--CCCcchHHHHH
Q 024581 204 MSAYRKDEYNWRY--DSDELSDDVVR 227 (265)
Q Consensus 204 ~~~~~~~~~~~~~--~~~~~~~~~~~ 227 (265)
++.||||.|+|+= |.-.+-|+.++
T Consensus 47 ~r~fRkDG~~WrKkkdgktvRE~Hek 72 (118)
T PF03859_consen 47 VRFFRKDGHNWRKKKDGKTVREDHEK 72 (118)
T ss_pred hhhhhcccceeEEcCCCCchhhhhhh
Confidence 5679999999987 44445555544
No 15
>KOG4479 consensus Transcription factor e(y)2 [Transcription]
Probab=27.02 E-value=1.3e+02 Score=24.32 Aligned_cols=35 Identities=26% Similarity=0.289 Sum_probs=30.3
Q ss_pred HHHHHHHHHHHHHHHHHhchHHHHHHHHHHHHHHH
Q 024581 5 TREMMDLKTLVTRTLEKKGVLAKIRAELRASVFEA 39 (265)
Q Consensus 5 t~E~~ELKdlV~qtLEk~GVL~KIRAqLRA~Vf~a 39 (265)
|.+-..||+++...|-+.|--+.||+..|.-+++.
T Consensus 14 tgdr~~lKeLL~trLvECGW~d~ik~mcrniimEk 48 (92)
T KOG4479|consen 14 TGDRAALKELLHTRLVECGWHDDIKEMCRNIIMEK 48 (92)
T ss_pred cccHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHh
Confidence 56677899999999999999999999999776643
No 16
>PF12807 eIF3_p135: Translation initiation factor eIF3 subunit 135
Probab=24.39 E-value=4.5e+02 Score=22.40 Aligned_cols=48 Identities=19% Similarity=0.140 Sum_probs=35.8
Q ss_pred hhHHHHHHHHHHHHHcCCccccchhccccCCchHHHHHHHHHHHHhcCCCC
Q 024581 73 SGRLLTALICEYLDWAQLNHTMKVYLPECNLQKDAWKAELKEFSSKNGYDL 123 (265)
Q Consensus 73 eg~LineLI~EYLef~gl~yTLSVF~pESgl~~~~l~rEl~~L~~~LGL~~ 123 (265)
...+-..+..|....|+|+.+..-|....++.+-.+-| .+|.++||..
T Consensus 114 ~~~l~~~I~~ev~~rf~y~l~~~~~~~~~~~~~~~LLR---~ic~k~GiQl 161 (169)
T PF12807_consen 114 PSSLWSEIEKEVKSRFRYELPEDWFDEKYGLQKIQLLR---EICQKTGIQL 161 (169)
T ss_pred cHHHHHHHHHHHHHhcCCcCchHHhhhhccccHHHHHH---HHHHHhCeEe
Confidence 35567788899999999999988777544555555544 6899999854
No 17
>PF14014 DUF4230: Protein of unknown function (DUF4230)
Probab=22.28 E-value=2.2e+02 Score=23.33 Aligned_cols=40 Identities=10% Similarity=0.253 Sum_probs=33.3
Q ss_pred hhHHHHHHHHHHHHHHHHHhchHHHHHHHHHHHHHHHHhh
Q 024581 3 DYTREMMDLKTLVTRTLEKKGVLAKIRAELRASVFEAIEE 42 (265)
Q Consensus 3 ~~t~E~~ELKdlV~qtLEk~GVL~KIRAqLRA~Vf~aLde 42 (265)
|.++...+.++.+.+.....|++.+-+.+.+..+-..|..
T Consensus 107 ~~~~~~~~a~~~~~~~a~~~~i~~~A~~~a~~~l~~ll~~ 146 (157)
T PF14014_consen 107 DQNEAQKEAKKKIEQEANESGILEQAKENAEKALEQLLKS 146 (157)
T ss_pred HHHHHHHHHHHHHHHHHhhccHHHHHHHHHHHHHHHHHhh
Confidence 6677778888899999999999999999988888777753
No 18
>PF07498 Rho_N: Rho termination factor, N-terminal domain; InterPro: IPR011112 The Rho termination factor disengages newly transcribed RNA from its DNA template at certain, specific transcripts. It is thought that two copies of Rho bind to RNA and that Rho functions as a hexamer of protomers []. This domain is found to the N terminus of the RNA binding domain (IPR011113 from INTERPRO).; GO: 0006353 transcription termination, DNA-dependent; PDB: 1A8V_B 1PVO_A 1PV4_D 3ICE_A 1XPU_C 1XPO_D 1XPR_F 2A8V_B 2HT1_B 1A63_A ....
Probab=21.79 E-value=64 Score=21.97 Aligned_cols=32 Identities=19% Similarity=0.295 Sum_probs=22.0
Q ss_pred HHHHHHHHhcCCCCCCCCCCCccHHHHHHHHh
Q 024581 110 AELKEFSSKNGYDLNKNGDSAPLLLDVLEGFL 141 (265)
Q Consensus 110 rEl~~L~~~LGL~~n~~~~~~PLL~qLLe~~l 141 (265)
.||..+|..+||.....-++.=|++.|+....
T Consensus 8 ~eL~~iAk~lgI~~~~~~~K~eLI~~Il~~q~ 39 (43)
T PF07498_consen 8 SELREIAKELGIEGYSKMRKQELIFAILKAQA 39 (43)
T ss_dssp HHHHHHHHCTT-TTGCCS-HHHHHHHHHHHHC
T ss_pred HHHHHHHHHcCCCCCCcCCHHHHHHHHHHHHH
Confidence 46889999999986555556667777777643
Done!