Query 027836
Match_columns 218
No_of_seqs 122 out of 204
Neff 5.1
Searched_HMMs 46136
Date Fri Mar 29 15:57:32 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/027836.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/027836hhsearch_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 1.1E-23 2.3E-28 158.1 3.5 77 61-139 5-81 (81)
2 PF08513 LisH: LisH; InterPro 97.5 6.5E-05 1.4E-09 45.4 1.7 26 76-101 2-27 (27)
3 smart00667 LisH Lissencephaly 96.4 0.0021 4.4E-08 38.7 1.8 30 75-104 4-33 (34)
4 PF10163 EnY2: Transcription f 75.2 4.7 0.0001 30.2 3.8 33 6-38 14-46 (86)
5 KOG2659 LisH motif-containing 68.4 3.4 7.3E-05 36.9 2.0 35 71-105 23-57 (228)
6 KOG0273 Beta-transducin family 67.0 3.7 8E-05 40.3 2.0 29 76-104 7-35 (524)
7 KOG1333 Uncharacterized conser 61.5 3.4 7.4E-05 36.7 0.7 29 77-105 8-36 (241)
8 PF10163 EnY2: Transcription f 56.4 25 0.00054 26.3 4.5 28 10-37 1-28 (86)
9 PF03828 PAP_assoc: Cid1 famil 41.6 15 0.00033 24.8 1.2 26 77-102 2-29 (60)
10 PF06992 Phage_lambda_P: Repli 38.1 1.3E+02 0.0029 27.0 6.9 89 5-102 60-151 (233)
11 PF08766 DEK_C: DEK C terminal 37.5 1.2E+02 0.0026 20.5 5.2 53 8-86 2-54 (54)
12 PF12807 eIF3_p135: Translatio 36.6 2.4E+02 0.0052 23.2 8.4 48 73-123 114-161 (169)
13 PF05696 DUF826: Protein of un 35.0 80 0.0017 23.8 4.2 31 13-43 11-41 (78)
14 PF08259 Periviscerokin: Periv 32.7 22 0.00047 17.4 0.6 9 179-187 2-10 (11)
15 PF07498 Rho_N: Rho terminatio 30.2 41 0.00088 22.0 1.8 31 110-140 8-38 (43)
16 KOG4594 Sequence-specific sing 29.6 29 0.00064 32.4 1.4 28 76-103 19-46 (354)
17 KOG4479 Transcription factor e 23.4 1.7E+02 0.0037 22.5 4.3 34 5-38 14-47 (92)
18 PF14014 DUF4230: Protein of u 22.6 2.6E+02 0.0057 22.1 5.7 40 3-42 107-146 (157)
19 PF05698 Trigger_C: Bacterial 21.3 2.4E+02 0.0053 22.0 5.2 36 8-44 2-37 (162)
20 PF03682 UPF0158: Uncharacteri 21.2 3.1E+02 0.0068 22.9 6.0 59 7-94 83-143 (163)
21 COG4472 Uncharacterized protei 20.8 2.8E+02 0.006 21.3 5.0 73 2-90 14-86 (88)
22 COG3167 PilO Tfp pilus assembl 20.3 2.8E+02 0.006 24.6 5.6 43 2-44 52-96 (211)
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=99.88 E-value=1.1e-23 Score=158.14 Aligned_cols=77 Identities=27% Similarity=0.530 Sum_probs=60.7
Q ss_pred CcccccccCCCchhHHHHHHHHHHHHHcCCccccchhhcccCCchHHHHHHHHHHHHhcCCCCCCCCCCCccHHHHHHH
Q 027836 61 CNDRAKQLHASPSGRLLTALICEYLDWAQLNHTMKVYLPECNLQKDAWKAELKEFSSKNGYDLNKNGDSAPLLLDVLEG 139 (218)
Q Consensus 61 ~N~~~k~~~~s~eg~Lin~LI~EYLe~~gl~~TlsVF~~ESgl~~~~l~rEl~~L~~~lgl~~n~~~~~~PLL~~Ll~~ 139 (218)
||+++|+++++++|+++++||+|||+||||+||+|||.+|||+++....| +.||+++|+.++..+++.||||.||++
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 579999999988878899999999973
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=97.47 E-value=6.5e-05 Score=45.36 Aligned_cols=26 Identities=31% Similarity=0.369 Sum_probs=23.5
Q ss_pred HHHHHHHHHHHHcCCccccchhhccc
Q 027836 76 LLTALICEYLDWAQLNHTMKVYLPEC 101 (218)
Q Consensus 76 Lin~LI~EYLe~~gl~~TlsVF~~ES 101 (218)
.+|.||.+||.++||..|..+|..|+
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=96.41 E-value=0.0021 Score=38.68 Aligned_cols=30 Identities=30% Similarity=0.294 Sum_probs=27.0
Q ss_pred HHHHHHHHHHHHHcCCccccchhhcccCCc
Q 027836 75 RLLTALICEYLDWAQLNHTMKVYLPECNLQ 104 (218)
Q Consensus 75 ~Lin~LI~EYLe~~gl~~TlsVF~~ESgl~ 104 (218)
..++.+|.+||.+.||..|..+|..|++..
T Consensus 4 ~~l~~lI~~yL~~~g~~~ta~~l~~e~~~~ 33 (34)
T smart00667 4 SELNRLILEYLLRNGYEETAETLQKESGLS 33 (34)
T ss_pred HHHHHHHHHHHHHcCHHHHHHHHHHHhCCC
Confidence 357789999999999999999999999874
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=75.22 E-value=4.7 Score=30.21 Aligned_cols=33 Identities=27% Similarity=0.266 Sum_probs=24.2
Q ss_pred HHHHHHHHHHHHHHHHhchHHHHHHHHHHHHHH
Q 027836 6 REMMDLKTLVTRTLEKKGVLAKIRAELRASVFE 38 (218)
Q Consensus 6 ~e~~ELkd~V~~tLE~~GvL~kIRAeLRA~Vf~ 38 (218)
.+-+.|++++.+.|.+.|.-++||...|..+..
T Consensus 14 Ge~~~L~~~L~~rL~e~GW~d~vr~~~re~i~~ 46 (86)
T PF10163_consen 14 GEYERLKELLRQRLIECGWRDEVRQLCREIIRE 46 (86)
T ss_dssp THHHHHHHHHHHHHHHTTHHHHHHHHHHHHHHH
T ss_pred CcHHHHHHHHHHHHHHCChHHHHHHHHHHHHHh
Confidence 456677888888888888888777777765555
No 5
>KOG2659 consensus LisH motif-containing protein [Cytoskeleton]
Probab=68.40 E-value=3.4 Score=36.86 Aligned_cols=35 Identities=17% Similarity=0.204 Sum_probs=31.5
Q ss_pred CchhHHHHHHHHHHHHHcCCccccchhhcccCCch
Q 027836 71 SPSGRLLTALICEYLDWAQLNHTMKVYLPECNLQK 105 (218)
Q Consensus 71 s~eg~Lin~LI~EYLe~~gl~~TlsVF~~ESgl~~ 105 (218)
+..+..+|.||.+||-..||.=+..+|..|+|...
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 45666899999999999999999999999999864
No 6
>KOG0273 consensus Beta-transducin family (WD-40 repeat) protein [Chromatin structure and dynamics]
Probab=66.97 E-value=3.7 Score=40.31 Aligned_cols=29 Identities=17% Similarity=0.268 Sum_probs=27.0
Q ss_pred HHHHHHHHHHHHcCCccccchhhcccCCc
Q 027836 76 LLTALICEYLDWAQLNHTMKVYLPECNLQ 104 (218)
Q Consensus 76 Lin~LI~EYLe~~gl~~TlsVF~~ESgl~ 104 (218)
-+|.||.-||+-.||.||+-+|..|++..
T Consensus 7 EvN~LV~RYLqE~G~~hsaftf~~Et~is 35 (524)
T KOG0273|consen 7 EVNFLVWRYLQESGFSHSAFTFGIETGIS 35 (524)
T ss_pred HHHHHHHHHHHHcCcceeeEEeeeccccc
Confidence 37999999999999999999999999975
No 7
>KOG1333 consensus Uncharacterized conserved protein [Function unknown]
Probab=61.53 E-value=3.4 Score=36.68 Aligned_cols=29 Identities=31% Similarity=0.422 Sum_probs=25.7
Q ss_pred HHHHHHHHHHHcCCccccchhhcccCCch
Q 027836 77 LTALICEYLDWAQLNHTMKVYLPECNLQK 105 (218)
Q Consensus 77 in~LI~EYLe~~gl~~TlsVF~~ESgl~~ 105 (218)
.-+||+|||-|-||.+|+.-|..|+...+
T Consensus 8 tDelvReYL~frgf~~tLkalD~E~~~~K 36 (241)
T KOG1333|consen 8 TDELVREYLLFRGFTHTLKALDAEIKADK 36 (241)
T ss_pred HHHHHHHHHHHhhHHHHHHHHhHHHhhhh
Confidence 46899999999999999999999987654
No 8
>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=56.41 E-value=25 Score=26.27 Aligned_cols=28 Identities=21% Similarity=0.431 Sum_probs=24.9
Q ss_pred HHHHHHHHHHHHhchHHHHHHHHHHHHH
Q 027836 10 DLKTLVTRTLEKKGVLAKIRAELRASVF 37 (218)
Q Consensus 10 ELkd~V~~tLE~~GvL~kIRAeLRA~Vf 37 (218)
+|++.|.+.|.++|-..+|+..|+....
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 9
>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=41.63 E-value=15 Score=24.77 Aligned_cols=26 Identities=12% Similarity=0.202 Sum_probs=18.9
Q ss_pred HHHHHHHHHHHcC--CccccchhhcccC
Q 027836 77 LTALICEYLDWAQ--LNHTMKVYLPECN 102 (218)
Q Consensus 77 in~LI~EYLe~~g--l~~TlsVF~~ESg 102 (218)
+-+|..+||+||+ ++|...|-..=.|
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 7777776654444
No 10
>PF06992 Phage_lambda_P: Replication protein P; InterPro: IPR009731 This family consists of several Bacteriophage lambda replication protein P like proteins. The bacteriophage lambda P protein promoters replication of the phage chromosome by recruiting a key component of the cellular replication machinery to the viral origin. Specifically, P protein delivers one or more molecules of Escherichia coli DnaB helicase to a nucleoprotein structure formed by the lambda O initiator at the lambda replication origin [].; GO: 0006270 DNA-dependent DNA replication initiation
Probab=38.14 E-value=1.3e+02 Score=26.98 Aligned_cols=89 Identities=16% Similarity=0.244 Sum_probs=50.4
Q ss_pred HHHHHHHHHHHHHHHHHhch--HHHHHHHHHHHHHHHhhhhhhhhhhcCCCCc-cccCcCcccccccCCCchhHHHHHHH
Q 027836 5 TREMMDLKTLVTRTLEKKGV--LAKIRAELRASVFEAIEEEDRVIEKDEGLPP-ALLGSCNDRAKQLHASPSGRLLTALI 81 (218)
Q Consensus 5 t~e~~ELkd~V~~tLE~~Gv--L~kIRAeLRA~Vf~aLeee~~~~~k~~~~~p-~l~~~~N~~~k~~~~s~eg~Lin~LI 81 (218)
.+|..+.|..=...|-++|| +.+|++-|+.+ ..+ +....|+| -|..||.+..-....-++..-+.+.+
T Consensus 60 ~~~~~~aKr~Wi~~f~engI~t~eQv~~Gm~~a-----R~~----~spF~PS~GqFI~WCk~~~~~~lGLP~~del~~~~ 130 (233)
T PF06992_consen 60 QEELNEAKRQWIKAFAENGITTMEQVRAGMRRA-----RAS----ESPFWPSPGQFIAWCKPGDYEALGLPSVDELYQRY 130 (233)
T ss_pred HHHHHHHHHHHHHHHHHcCCCcHHHHHHHHHHH-----Hhc----CCCCCCChhHHHHHHhcchHHhcCCCCHHHHHHHH
Confidence 45678889998999999998 67899988765 111 11222222 35677776432111122223345566
Q ss_pred HHHHHHcCCccccchhhcccC
Q 027836 82 CEYLDWAQLNHTMKVYLPECN 102 (218)
Q Consensus 82 ~EYLe~~gl~~TlsVF~~ESg 102 (218)
.+|..+.|+--+..-|...++
T Consensus 131 ~~y~~~rg~y~~~e~f~w~s~ 151 (233)
T PF06992_consen 131 KRYCRYRGFYPSIEEFPWRSN 151 (233)
T ss_pred HHHHHHhCCCCChhhCCCcch
Confidence 677776664223334444443
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=37.51 E-value=1.2e+02 Score=20.47 Aligned_cols=53 Identities=15% Similarity=0.289 Sum_probs=29.1
Q ss_pred HHHHHHHHHHHHHHhchHHHHHHHHHHHHHHHhhhhhhhhhhcCCCCccccCcCcccccccCCCchhHHHHHHHHHHHH
Q 027836 8 MMDLKTLVTRTLEKKGVLAKIRAELRASVFEAIEEEDRVIEKDEGLPPALLGSCNDRAKQLHASPSGRLLTALICEYLD 86 (218)
Q Consensus 8 ~~ELkd~V~~tLE~~GvL~kIRAeLRA~Vf~aLeee~~~~~k~~~~~p~l~~~~N~~~k~~~~s~eg~Lin~LI~EYLe 86 (218)
+.+++..|..-|...+.-.-=..++|..+-..+. +..++-...|+++|.+||.
T Consensus 2 d~~i~~~i~~iL~~~dl~~vT~k~vr~~Le~~~~--------------------------~dL~~~K~~I~~~I~~~l~ 54 (54)
T PF08766_consen 2 DEEIREAIREILREADLDTVTKKQVREQLEERFG--------------------------VDLSSRKKFIKELIDEFLS 54 (54)
T ss_dssp HHHHHHHHHHHHTTS-GGG--HHHHHHHHHHH-S--------------------------S--SHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHhCCHhHhhHHHHHHHHHHHHC--------------------------CCcHHHHHHHHHHHHHHhC
Confidence 4567777777777775433333344433333331 1124566789999999984
No 12
>PF12807 eIF3_p135: Translation initiation factor eIF3 subunit 135
Probab=36.60 E-value=2.4e+02 Score=23.17 Aligned_cols=48 Identities=21% Similarity=0.205 Sum_probs=35.4
Q ss_pred hhHHHHHHHHHHHHHcCCccccchhhcccCCchHHHHHHHHHHHHhcCCCC
Q 027836 73 SGRLLTALICEYLDWAQLNHTMKVYLPECNLQKDAWKAELKEFSSKNGYDL 123 (218)
Q Consensus 73 eg~Lin~LI~EYLe~~gl~~TlsVF~~ESgl~~~~l~rEl~~L~~~lgl~~ 123 (218)
...+-..+..|....|+|+.+..-|....+..+-.+ |+.+|.++|+..
T Consensus 114 ~~~l~~~I~~ev~~rf~y~l~~~~~~~~~~~~~~~L---LR~ic~k~GiQl 161 (169)
T PF12807_consen 114 PSSLWSEIEKEVKSRFRYELPEDWFDEKYGLQKIQL---LREICQKTGIQL 161 (169)
T ss_pred cHHHHHHHHHHHHHhcCCcCchHHhhhhccccHHHH---HHHHHHHhCeEe
Confidence 355677888999999999999887775444555555 446899999853
No 13
>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=35.02 E-value=80 Score=23.79 Aligned_cols=31 Identities=19% Similarity=0.369 Sum_probs=22.0
Q ss_pred HHHHHHHHHhchHHHHHHHHHHHHHHHhhhh
Q 027836 13 TLVTRTLEKKGVLAKIRAELRASVFEAIEEE 43 (218)
Q Consensus 13 d~V~~tLE~~GvL~kIRAeLRA~Vf~aLeee 43 (218)
++|++.|...-|...+|+|+|..+=.-|+..
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 4677788888888888888876655555443
No 14
>PF08259 Periviscerokin: Periviscerokinin family; InterPro: IPR013231 Perviscerokinin neuropeptides are found in the abdominal perisympathetic organs of insects. They mediate visceral muscle contractile activity (myotropic activity). CAPA, which are in the periviscerokinin and pyrokinin peptide families, has potential medical importance. This is due to its myotropic effects on, for example, heart muscles and due to its occurrence in the Ixodoidea (ticks), which are important vectors in the transmission of many animal diseases []. These peptides also have a strong diuretic or anti-diuretic effect, suggesting they have significant medical implications [].
Probab=32.71 E-value=22 Score=17.44 Aligned_cols=9 Identities=44% Similarity=0.822 Sum_probs=7.1
Q ss_pred CCCCCCCCc
Q 027836 179 AGGLPPLGR 187 (218)
Q Consensus 179 ~~~~~~~~~ 187 (218)
+.||+|++|
T Consensus 2 ssGlI~fpR 10 (11)
T PF08259_consen 2 SSGLIPFPR 10 (11)
T ss_pred CccccccCC
Confidence 368999987
No 15
>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=30.20 E-value=41 Score=21.96 Aligned_cols=31 Identities=19% Similarity=0.318 Sum_probs=21.2
Q ss_pred HHHHHHHHhcCCCCCCCCCCCccHHHHHHHH
Q 027836 110 AELKEFSSKNGYDLNKNGDSAPLLLDVLEGF 140 (218)
Q Consensus 110 rEl~~L~~~lgl~~n~~~~~~PLL~~Ll~~~ 140 (218)
.||..+|..+|+.....-.+.=|++.|+...
T Consensus 8 ~eL~~iAk~lgI~~~~~~~K~eLI~~Il~~q 38 (43)
T PF07498_consen 8 SELREIAKELGIEGYSKMRKQELIFAILKAQ 38 (43)
T ss_dssp HHHHHHHHCTT-TTGCCS-HHHHHHHHHHHH
T ss_pred HHHHHHHHHcCCCCCCcCCHHHHHHHHHHHH
Confidence 4688999999997554445566777777764
No 16
>KOG4594 consensus Sequence-specific single-stranded-DNA-binding protein [Replication, recombination and repair; Transcription; General function prediction only]
Probab=29.64 E-value=29 Score=32.38 Aligned_cols=28 Identities=21% Similarity=0.330 Sum_probs=25.0
Q ss_pred HHHHHHHHHHHHcCCccccchhhcccCC
Q 027836 76 LLTALICEYLDWAQLNHTMKVYLPECNL 103 (218)
Q Consensus 76 Lin~LI~EYLe~~gl~~TlsVF~~ESgl 103 (218)
-+...|+|||.+-|..-+..+|..|+..
T Consensus 19 kLa~YvYEYLlhvgaqksaqtflseirw 46 (354)
T KOG4594|consen 19 KLALYVYEYLLHVGAQKSAQTFLSEIRW 46 (354)
T ss_pred HHHHHHHHHHHHhhhhhhhhhhHHHHHH
Confidence 4667899999999999999999999764
No 17
>KOG4479 consensus Transcription factor e(y)2 [Transcription]
Probab=23.36 E-value=1.7e+02 Score=22.52 Aligned_cols=34 Identities=26% Similarity=0.302 Sum_probs=28.9
Q ss_pred HHHHHHHHHHHHHHHHHhchHHHHHHHHHHHHHH
Q 027836 5 TREMMDLKTLVTRTLEKKGVLAKIRAELRASVFE 38 (218)
Q Consensus 5 t~e~~ELkd~V~~tLE~~GvL~kIRAeLRA~Vf~ 38 (218)
|.+-..||+++...|-+.|.-+.||+..|.-+.+
T Consensus 14 tgdr~~lKeLL~trLvECGW~d~ik~mcrniimE 47 (92)
T KOG4479|consen 14 TGDRAALKELLHTRLVECGWHDDIKEMCRNIIME 47 (92)
T ss_pred cccHHHHHHHHHHHHHHcccHHHHHHHHHHHHHH
Confidence 4566789999999999999999999988866554
No 18
>PF14014 DUF4230: Protein of unknown function (DUF4230)
Probab=22.62 E-value=2.6e+02 Score=22.10 Aligned_cols=40 Identities=10% Similarity=0.253 Sum_probs=32.7
Q ss_pred hhHHHHHHHHHHHHHHHHHhchHHHHHHHHHHHHHHHhhh
Q 027836 3 DYTREMMDLKTLVTRTLEKKGVLAKIRAELRASVFEAIEE 42 (218)
Q Consensus 3 ~~t~e~~ELkd~V~~tLE~~GvL~kIRAeLRA~Vf~aLee 42 (218)
|.++...+.++.+.+...+.|++.+-+...+..+-..|..
T Consensus 107 ~~~~~~~~a~~~~~~~a~~~~i~~~A~~~a~~~l~~ll~~ 146 (157)
T PF14014_consen 107 DQNEAQKEAKKKIEQEANESGILEQAKENAEKALEQLLKS 146 (157)
T ss_pred HHHHHHHHHHHHHHHHHhhccHHHHHHHHHHHHHHHHHhh
Confidence 5667777888888899999999999998888888777753
No 19
>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=21.28 E-value=2.4e+02 Score=21.99 Aligned_cols=36 Identities=28% Similarity=0.410 Sum_probs=30.5
Q ss_pred HHHHHHHHHHHHHHhchHHHHHHHHHHHHHHHhhhhh
Q 027836 8 MMDLKTLVTRTLEKKGVLAKIRAELRASVFEAIEEED 44 (218)
Q Consensus 8 ~~ELkd~V~~tLE~~GvL~kIRAeLRA~Vf~aLeee~ 44 (218)
+++||+.|++.|+ .-.-.++...++.+|+..|-+.-
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 45677888889999999998763
No 20
>PF03682 UPF0158: Uncharacterised protein family (UPF0158); InterPro: IPR005361 This is a small family of hypothetical bacterial proteins of unknown function.
Probab=21.20 E-value=3.1e+02 Score=22.87 Aligned_cols=59 Identities=17% Similarity=0.215 Sum_probs=40.9
Q ss_pred HHHHHHHHHHHHHHHhchHHHHHHHHHH--HHHHHhhhhhhhhhhcCCCCccccCcCcccccccCCCchhHHHHHHHHHH
Q 027836 7 EMMDLKTLVTRTLEKKGVLAKIRAELRA--SVFEAIEEEDRVIEKDEGLPPALLGSCNDRAKQLHASPSGRLLTALICEY 84 (218)
Q Consensus 7 e~~ELkd~V~~tLE~~GvL~kIRAeLRA--~Vf~aLeee~~~~~k~~~~~p~l~~~~N~~~k~~~~s~eg~Lin~LI~EY 84 (218)
++..+++.|...|+.+|.-.+.|..|.. .+...+..= ...-+...|+++
T Consensus 83 ~d~~l~~~L~~ai~grgafrrFKd~L~~~~~~~e~Wy~F-----------------------------~~~~~r~~a~eW 133 (163)
T PF03682_consen 83 EDPDLRERLLRAIQGRGAFRRFKDILSEYPELRERWYAF-----------------------------REERLRERAIEW 133 (163)
T ss_pred CCHHHHHHHHHHHhCCcHHHHHHHHHHHCHHHHHHHHHH-----------------------------HHHHHHHHHHHH
Confidence 4678899999999999999999887632 233333221 122356788899
Q ss_pred HHHcCCcccc
Q 027836 85 LDWAQLNHTM 94 (218)
Q Consensus 85 Le~~gl~~Tl 94 (218)
|+-+|+.|+-
T Consensus 134 leen~I~~~~ 143 (163)
T PF03682_consen 134 LEENGIEPVF 143 (163)
T ss_pred HHHcCCCccc
Confidence 9999987753
No 21
>COG4472 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=20.77 E-value=2.8e+02 Score=21.27 Aligned_cols=73 Identities=21% Similarity=0.254 Sum_probs=38.8
Q ss_pred chhHHHHHHHHHHHHHHHHHhchHHHHHHHHHHHHHHHhhhhhhhhhhcCCCCccccCcCcccccccCCCchhHHHHHHH
Q 027836 2 DDYTREMMDLKTLVTRTLEKKGVLAKIRAELRASVFEAIEEEDRVIEKDEGLPPALLGSCNDRAKQLHASPSGRLLTALI 81 (218)
Q Consensus 2 ~~~t~e~~ELkd~V~~tLE~~GvL~kIRAeLRA~Vf~aLeee~~~~~k~~~~~p~l~~~~N~~~k~~~~s~eg~Lin~LI 81 (218)
|-.+++..|....|..+|+++|.=. +-+-|=-.|..+ |+...--|+--.++-.-+...++-+||
T Consensus 14 d~~~~~v~e~L~~VY~sL~ekGYNp-----iNQiVGYllSGD-----------PaYIpr~ndARn~IRk~eRDeIvEElv 77 (88)
T COG4472 14 DSDKKDVKETLNDVYNSLEEKGYNP-----INQIVGYLLSGD-----------PAYIPRYNDARNQIRKLERDEIVEELV 77 (88)
T ss_pred CChHHHHHHHHHHHHHHHHHcCCCh-----HHHHHhhhccCC-----------ccccCccccHHHHHHHHhHHHHHHHHH
Confidence 3456777888888888888888621 111111122211 222211232222222224455788899
Q ss_pred HHHHHHcCC
Q 027836 82 CEYLDWAQL 90 (218)
Q Consensus 82 ~EYLe~~gl 90 (218)
+-||.-+|-
T Consensus 78 k~YLk~~~~ 86 (88)
T COG4472 78 KYYLKGNGK 86 (88)
T ss_pred HHHHhhcCC
Confidence 999987764
No 22
>COG3167 PilO Tfp pilus assembly protein PilO [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=20.33 E-value=2.8e+02 Score=24.56 Aligned_cols=43 Identities=19% Similarity=0.258 Sum_probs=35.6
Q ss_pred chhHHHHHHHHHHHHHHHHHhchHHHHHHHH--HHHHHHHhhhhh
Q 027836 2 DDYTREMMDLKTLVTRTLEKKGVLAKIRAEL--RASVFEAIEEED 44 (218)
Q Consensus 2 ~~~t~e~~ELkd~V~~tLE~~GvL~kIRAeL--RA~Vf~aLeee~ 44 (218)
+-+..|.++||....+...+--.|..+|+|+ -.++|..|..|-
T Consensus 52 ~~~~~eEe~LKs~~q~K~~~aanL~~lr~Ql~emee~~~~llrQL 96 (211)
T COG3167 52 EELEAEEEELKSTYQQKAIQAANLEALRAQLAEMEERFDILLRQL 96 (211)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhchHHHHHHHHHHHHHHHHHHHhC
Confidence 3467788999999999999999999999999 456677776653
Done!