Query 023203
Match_columns 286
No_of_seqs 157 out of 433
Neff 4.2
Searched_HMMs 46136
Date Fri Mar 29 09:12:25 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/023203.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/023203hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 cd00183 TFIIS_I N-terminal dom 99.8 1.6E-18 3.5E-23 133.0 7.0 73 121-193 2-76 (76)
2 smart00509 TFS2N Domain in the 99.7 3.5E-17 7.6E-22 125.9 5.4 58 136-193 17-74 (75)
3 TIGR01385 TFSII transcription 99.6 6.3E-16 1.4E-20 146.0 9.8 75 121-195 2-78 (299)
4 PF08711 Med26: TFIIS helical 99.5 1.1E-14 2.4E-19 104.1 4.4 52 142-193 1-53 (53)
5 KOG1105 Transcription elongati 99.3 2.1E-12 4.6E-17 122.1 8.3 75 121-195 4-81 (296)
6 KOG2821 RNA polymerase II tran 97.4 8.4E-05 1.8E-09 74.1 3.0 73 121-196 9-81 (433)
7 PF11467 LEDGF: Lens epitheliu 96.2 0.0079 1.7E-07 49.8 4.9 69 125-193 10-80 (106)
8 KOG1793 Uncharacterized conser 95.1 0.023 4.9E-07 56.6 4.1 52 141-192 236-290 (417)
9 COG5139 Uncharacterized conser 92.1 0.17 3.7E-06 49.3 4.0 51 142-192 234-286 (397)
10 cd08815 Death_TNFRSF25_DR3 Dea 91.5 0.19 4.1E-06 39.8 3.0 40 2-50 10-49 (77)
11 PLN02976 amine oxidase 90.1 0.55 1.2E-05 54.0 6.1 61 138-198 1301-1362(1713)
12 cd08316 Death_FAS_TNFRSF6 Deat 66.6 6.1 0.00013 32.2 3.0 42 1-50 18-59 (97)
13 cd08784 Death_DRs Death Domain 65.6 8 0.00017 29.9 3.3 41 1-50 9-49 (79)
14 cd08313 Death_TNFR1 Death doma 65.3 7.1 0.00015 30.8 3.0 41 1-50 9-49 (80)
15 PF14726 RTTN_N: Rotatin, an a 51.6 22 0.00048 29.0 3.8 51 136-186 46-96 (98)
16 PF04782 DUF632: Protein of un 41.1 47 0.001 32.3 4.9 58 136-195 130-189 (312)
17 KOG2675 Adenylate cyclase-asso 34.6 5.3E+02 0.012 26.9 11.2 27 136-162 103-129 (480)
18 KOG1886 BAH domain proteins [T 32.7 20 0.00044 36.9 1.0 62 136-197 355-416 (464)
19 KOG1087 Cytosolic sorting prot 28.8 1.5E+02 0.0032 30.7 6.4 30 165-194 86-116 (470)
20 PF08735 DUF1786: Putative pyr 27.1 13 0.00028 35.4 -1.4 28 2-32 61-88 (254)
21 cd08315 Death_TRAILR_DR4_DR5 D 26.7 58 0.0013 26.2 2.5 39 3-50 19-57 (96)
22 cd03569 VHS_Hrs_Vps27p VHS dom 23.2 1.4E+02 0.003 25.5 4.3 22 172-193 96-117 (142)
23 COG5251 TAF40 Transcription in 22.6 1.1E+02 0.0023 28.1 3.6 77 114-190 81-165 (199)
24 cd03561 VHS VHS domain family; 22.4 3E+02 0.0064 22.8 6.1 22 173-194 95-116 (133)
25 PF10562 CaM_bdg_C0: Calmoduli 21.1 65 0.0014 21.3 1.4 18 175-192 11-28 (29)
26 smart00288 VHS Domain present 21.0 3.2E+02 0.0069 22.8 6.0 20 175-194 96-115 (133)
27 KOG2199 Signal transducing ada 20.5 9.7E+02 0.021 24.9 10.5 104 136-240 293-415 (462)
28 PF09441 Abp2: ARS binding pro 20.4 1.4E+02 0.003 27.1 3.9 56 136-192 54-110 (175)
No 1
>cd00183 TFIIS_I N-terminal domain (domain I) of transcription elongation factor S-II (TFIIS); similar to a domain found in elongin A and CRSP70; likely to be involved in transcription; domain I from TFIIS interacts with RNA polymerase II holoenzyme
Probab=99.75 E-value=1.6e-18 Score=133.04 Aligned_cols=73 Identities=45% Similarity=0.766 Sum_probs=68.9
Q ss_pred HHHHHHHHHhCCCCC--CHHHHHHHHHHhhcCCCcHHHhhccCccccchhhhcCCCHHHHHHHHHHHHHHHHHHH
Q 023203 121 KRILEIKEHLEDPDQ--SEDALIDLLQSLADMDITFKALKETDIGRHVNQLRKHSSNDVRKLVKHLVRKWKDIVD 193 (286)
Q Consensus 121 ~EV~rIKk~Ld~~~~--sed~llelLr~L~~l~iT~dlLksT~IGkaVN~LRKH~s~~I~~LAk~LV~kWK~~V~ 193 (286)
+++.++++.|+...+ +.+.++++|+.|+.+|||.++|++|+||+.||+||||.+++|+.+|+.||++||++|+
T Consensus 2 ~ev~r~~~~l~~~~~~~~~~~~~~~L~~L~~~~it~~~L~~T~iG~~V~~Lrkh~~~~i~~~A~~Lv~~Wk~~v~ 76 (76)
T cd00183 2 EEVLRAKKKLEKKDSNEEVSRLLDLLRLLKKLPLTVEILKETRIGKKVNSLRKHSNEKIRKLAKALIKSWKKLVD 76 (76)
T ss_pred hHHHHHHHHhhccccCCCHHHHHHHHHHHhcCCCCHHHHHHCCHHHHHHHHHcCCcHHHHHHHHHHHHHHHHhcC
Confidence 479999999999765 8889999999999999999999999999999999999999999999999999999873
No 2
>smart00509 TFS2N Domain in the N-terminus of transcription elongation factor S-II (and elsewhere).
Probab=99.68 E-value=3.5e-17 Score=125.88 Aligned_cols=58 Identities=41% Similarity=0.738 Sum_probs=55.9
Q ss_pred CHHHHHHHHHHhhcCCCcHHHhhccCccccchhhhcCCCHHHHHHHHHHHHHHHHHHH
Q 023203 136 SEDALIDLLQSLADMDITFKALKETDIGRHVNQLRKHSSNDVRKLVKHLVRKWKDIVD 193 (286)
Q Consensus 136 sed~llelLr~L~~l~iT~dlLksT~IGkaVN~LRKH~s~~I~~LAk~LV~kWK~~V~ 193 (286)
+.+.++++|+.|+.++||+++|+.|+||++||+||||++++|+.+|+.||++||++|+
T Consensus 17 ~~~~~l~~L~~L~~~~~t~~~L~~T~iG~~v~~Lrkh~~~~I~~~A~~Li~~WK~~v~ 74 (75)
T smart00509 17 EVSRCLDILKKLKKLPITVDLLEETRIGKKVNGLRKHKNEEIRKLAKKLIKSWKKLVY 74 (75)
T ss_pred CHHHHHHHHHHHhcCCCCHHHHHHCcHHHHHHHHHcCCcHHHHHHHHHHHHHHHHHhc
Confidence 4788999999999999999999999999999999999999999999999999999985
No 3
>TIGR01385 TFSII transcription elongation factor S-II. This model represents eukaryotic transcription elongation factor S-II. This protein allows stalled RNA transcription complexes to perform a cleavage of the nascent RNA and restart at the newly generated 3-prime end.
Probab=99.64 E-value=6.3e-16 Score=145.99 Aligned_cols=75 Identities=31% Similarity=0.580 Sum_probs=70.4
Q ss_pred HHHHHHHHHhCCCC--CCHHHHHHHHHHhhcCCCcHHHhhccCccccchhhhcCCCHHHHHHHHHHHHHHHHHHHHh
Q 023203 121 KRILEIKEHLEDPD--QSEDALIDLLQSLADMDITFKALKETDIGRHVNQLRKHSSNDVRKLVKHLVRKWKDIVDEW 195 (286)
Q Consensus 121 ~EV~rIKk~Ld~~~--~sed~llelLr~L~~l~iT~dlLksT~IGkaVN~LRKH~s~~I~~LAk~LV~kWK~~V~e~ 195 (286)
+||.++++.|+++. .+++.+|++|++|+.++||+++|++|+||++||+||||++++|+.||+.||++||++|..+
T Consensus 2 ~ei~~~~k~L~k~~~~~~~~~~l~~L~~L~~~~~t~~lL~~T~IG~~Vn~lrkh~~~~I~~lAk~li~~WK~~v~~~ 78 (299)
T TIGR01385 2 AEVASHAKALDKNKSSKNVEQCLDILHQLKEFPPTEELLQETKVGVKVNKLRKHPNEDISKLAKKIIKSWKKVVDKN 78 (299)
T ss_pred hHHHHHHHHhhhhccCCCHHHHHHHHHHHhcCCCcHHHHhhCchhHHHHHHHcCCcHHHHHHHHHHHHHHHHHHhhh
Confidence 37999999998854 3778899999999999999999999999999999999999999999999999999999997
No 4
>PF08711 Med26: TFIIS helical bundle-like domain; InterPro: IPR017923 Transcription factor IIS (TFIIS) is a transcription elongation factor that increases the overall transcription rate of RNA polymerase II by reactivating transcription elongation complexes that have arrested transcription. The three structural domains of TFIIS are conserved from yeast to human. The 80 or so N-terminal residues form a protein interaction domain containing a conserved motif, which has been called the LW motif because of the invariant leucine and tryptophan residues it contains. Although the N-terminal domain is not needed for transcriptional activity, a similar sequence has been identified in other transcription factors and proteins that are predominantly nuclear localized [, ]: MED26 (also known as CRSP70 and ARC70), a subunit of the Mediator complex, which is required for the activity of the enhancer-binding protein Sp1. Elongin A, a subunit of a transcription elongation factor previously known as SIII. It increases the rate of transcription by suppressing transient pausing of the elongation complex. PPP1R10, a nuclear regulatory subunit of protein phosphatase 1 that was previously known as p99, FB19 or PNUTS. PIBP, a small hypothetical protein that could be a phosphoinositide binding protein. IWS1, which is thought to function in both transcription initiation and elongation. The TFIIS N-terminal domain is a compact four-helix bundle. The hydrophobic core residues of helices 2, 3, and 4 are well conserved among TFIIS domains, although helix 1 is less conserved []. ; GO: 0003677 DNA binding, 0006351 transcription, DNA-dependent, 0005634 nucleus; PDB: 1EO0_A 3OAK_A 3NFQ_B 3O8Z_A 1WJT_A 2XPL_A 2XPO_A 2XPP_A 2XPN_A.
Probab=99.52 E-value=1.1e-14 Score=104.11 Aligned_cols=52 Identities=50% Similarity=0.872 Sum_probs=47.5
Q ss_pred HHHHHhhcCCCcHHHhhccCccccchhhhcC-CCHHHHHHHHHHHHHHHHHHH
Q 023203 142 DLLQSLADMDITFKALKETDIGRHVNQLRKH-SSNDVRKLVKHLVRKWKDIVD 193 (286)
Q Consensus 142 elLr~L~~l~iT~dlLksT~IGkaVN~LRKH-~s~~I~~LAk~LV~kWK~~V~ 193 (286)
++|+.|+.+|||.++|++|+||++||.|||| .+++|+++|+.||++||.+|+
T Consensus 1 ~iL~~L~~l~it~~~L~~T~IGk~V~~l~k~~~~~~i~~~A~~Li~~Wk~~v~ 53 (53)
T PF08711_consen 1 EILKVLEKLPITVELLKSTGIGKAVNKLRKHSENPEIRKLAKELIKKWKRIVD 53 (53)
T ss_dssp HHHHHHHCSS-SHHHHHHHSHHHHHHHHHHCTS-HHHHHHHHHHHHHHHHHH-
T ss_pred CHHHHhhcCCCCHHHHHhCChhHHHHHHHcCCCCHHHHHHHHHHHHHHhHhcC
Confidence 5899999999999999999999999999999 889999999999999999985
No 5
>KOG1105 consensus Transcription elongation factor TFIIS/Cofactor of enhancer-binding protein Sp1 [Transcription]
Probab=99.35 E-value=2.1e-12 Score=122.13 Aligned_cols=75 Identities=37% Similarity=0.628 Sum_probs=68.5
Q ss_pred HHHHHHHHHhCCCCC--CHHHHHHHHHHhhcCCCcHHHhhccCccccch-hhhcCCCHHHHHHHHHHHHHHHHHHHHh
Q 023203 121 KRILEIKEHLEDPDQ--SEDALIDLLQSLADMDITFKALKETDIGRHVN-QLRKHSSNDVRKLVKHLVRKWKDIVDEW 195 (286)
Q Consensus 121 ~EV~rIKk~Ld~~~~--sed~llelLr~L~~l~iT~dlLksT~IGkaVN-~LRKH~s~~I~~LAk~LV~kWK~~V~e~ 195 (286)
++++++.+.|++..+ +.+.++++|.+|+.+|||+++|++|+||+.|| .|++|++++|+.+|+.||+.||++|...
T Consensus 4 e~~~r~ak~l~~~~~~~n~~~~ld~l~~L~~~pvt~ell~~Tr~g~~vn~~~Kk~~n~ev~~~ak~Lik~Wkk~~~~~ 81 (296)
T KOG1105|consen 4 EEALRAAKALEKDKQSKNVEAALDLLKRLKKIPVTLELLQETRTGMGVNEVLKKHKNEEVRSLAKKLIKSWKKLVDKS 81 (296)
T ss_pred HHHHHHHHHHHhhcccccHHHHHHHHHHHHhcccHHHHHHHhhHHHHHHHHHHhCCCHHHHHHHHHHHHHHHHHhhcc
Confidence 479999999998654 56789999999999999999999999999999 5678899999999999999999999975
No 6
>KOG2821 consensus RNA polymerase II transcription elongation factor Elongin/SIII, subunit elongin A [Transcription]
Probab=97.43 E-value=8.4e-05 Score=74.08 Aligned_cols=73 Identities=34% Similarity=0.458 Sum_probs=64.9
Q ss_pred HHHHHHHHHhCCCCCCHHHHHHHHHHhhcCCCcHHHhhccCccccchhhhcCCCHHHHHHHHHHHHHHHHHHHHhh
Q 023203 121 KRILEIKEHLEDPDQSEDALIDLLQSLADMDITFKALKETDIGRHVNQLRKHSSNDVRKLVKHLVRKWKDIVDEWV 196 (286)
Q Consensus 121 ~EV~rIKk~Ld~~~~sed~llelLr~L~~l~iT~dlLksT~IGkaVN~LRKH~s~~I~~LAk~LV~kWK~~V~e~~ 196 (286)
.-|.+|...|++. .....++..|..|..+|++++.|.+|.||++|+.||||. .+..++..|+..||++|....
T Consensus 9 ~~Vr~lQ~~l~~~-~dpkR~lk~I~~ls~lP~~~k~l~Et~~~k~l~~L~k~~--~~g~~~~Dl~~~WK~~v~~d~ 81 (433)
T KOG2821|consen 9 GAVRKLQARLENR-IDPKRLLKRIQKLSNLPHLFKHLLETGKGKTLNSLRKIS--HVGKLAFDLVALWKDLVLVDF 81 (433)
T ss_pred HHHHHHHHHHHhC-ccHHHHHHHHHHhccchHHHHHHHHhhhhHHHHHHHHhh--cccccccchHHHHHHhccccc
Confidence 4577788888864 567889999999999999999999999999999999996 799999999999999997443
No 7
>PF11467 LEDGF: Lens epithelium-derived growth factor (LEDGF) ; InterPro: IPR021567 LEDGF is a chromatin-associated protein that protects cells from stress-induced apoptosis. It is the binding partner of HIV-1 integrase in human cells. The integrase binding domain (IBD) of LEDGF is a compact right-handed bundle composed of five alpha-helices. The residues essential for the interaction with the integrase are present in the inter-helical loop regions of the bundle structure. ; PDB: 3F9K_K 3HPG_G 3U88_C 3HPH_H 2B4J_D 1Z9E_A.
Probab=96.23 E-value=0.0079 Score=49.80 Aligned_cols=69 Identities=22% Similarity=0.340 Sum_probs=51.4
Q ss_pred HHHHHhCCCCCCHHHHHHHHHHhhcCCCcHHHhhc-cCccccchhhhcC-CCHHHHHHHHHHHHHHHHHHH
Q 023203 125 EIKEHLEDPDQSEDALIDLLQSLADMDITFKALKE-TDIGRHVNQLRKH-SSNDVRKLVKHLVRKWKDIVD 193 (286)
Q Consensus 125 rIKk~Ld~~~~sed~llelLr~L~~l~iT~dlLks-T~IGkaVN~LRKH-~s~~I~~LAk~LV~kWK~~V~ 193 (286)
.|+..|--...+...++++|..|..|+||..+|+. +.+--++.+||+. .|..|++.|..|+.+.|.++-
T Consensus 10 ~Ik~~L~~~~~Dv~kcL~~LdeL~~l~vT~~mL~kn~e~V~TlkklRrY~gn~~Ir~KA~~lYnkfK~~f~ 80 (106)
T PF11467_consen 10 EIKSSLKVDNPDVKKCLKALDELKSLQVTSLMLQKNPECVETLKKLRRYKGNQQIRKKATELYNKFKSLFL 80 (106)
T ss_dssp HHHHTCETTEE-HHHHHHHHHHHHTS---HHHHTTTHHHHHHHHHHTT-TT-HHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHcCCCCCHHHHHHHHHHHhccCCCHHHHHhCHHHHHHHHHHHHhhccHHHHHHHHHHHHHHHHHhC
Confidence 34444432234788999999999999999998875 4588899999998 468999999999999999995
No 8
>KOG1793 consensus Uncharacterized conserved protein [Function unknown]
Probab=95.11 E-value=0.023 Score=56.65 Aligned_cols=52 Identities=29% Similarity=0.519 Sum_probs=45.9
Q ss_pred HHHHHHhhcCCCcH-HHhhccCccccchhhhcCCC--HHHHHHHHHHHHHHHHHH
Q 023203 141 IDLLQSLADMDITF-KALKETDIGRHVNQLRKHSS--NDVRKLVKHLVRKWKDIV 192 (286)
Q Consensus 141 lelLr~L~~l~iT~-dlLksT~IGkaVN~LRKH~s--~~I~~LAk~LV~kWK~~V 192 (286)
..+|.-|..+||-. +.|+..+||++|==|-||+. ..++.+|..||.+|-.-|
T Consensus 236 ~~ll~iL~dlpi~~~E~Lk~SGlGkvVmflsks~ket~~nkrlA~kLI~eWsRpI 290 (417)
T KOG1793|consen 236 KSLLDILNDLPIDKREHLKESGLGKVVMFLSKSPKETKENKRLANKLINEWSRPI 290 (417)
T ss_pred HHHHHHHhcCCcchHHHHHhcCCCeEEEEEecCCccchHHHHHHHHHHHHhhccc
Confidence 45677788888888 99999999999999999975 799999999999997755
No 9
>COG5139 Uncharacterized conserved protein [Function unknown]
Probab=92.12 E-value=0.17 Score=49.35 Aligned_cols=51 Identities=31% Similarity=0.513 Sum_probs=42.7
Q ss_pred HHHHHhhcCCCcHHHhhccCccccchhh--hcCCCHHHHHHHHHHHHHHHHHH
Q 023203 142 DLLQSLADMDITFKALKETDIGRHVNQL--RKHSSNDVRKLVKHLVRKWKDIV 192 (286)
Q Consensus 142 elLr~L~~l~iT~dlLksT~IGkaVN~L--RKH~s~~I~~LAk~LV~kWK~~V 192 (286)
.+|..|..|||-.+.|+..+||+.|==. -|...++|+.+|+.||.+|-.-|
T Consensus 234 sL~dvL~~lpI~tEHL~eSgvGrIV~FYtiskk~e~~v~r~A~~LV~eWtrpI 286 (397)
T COG5139 234 SLLDVLKTLPIHTEHLVESGVGRIVYFYTISKKEEKEVRRSAKALVQEWTRPI 286 (397)
T ss_pred HHHHHHhhCCchHHHhhhcCCceEEEEEecCCcccHHHHHHHHHHHHHhhccc
Confidence 3566777899999999999999998755 45566899999999999997654
No 10
>cd08815 Death_TNFRSF25_DR3 Death domain of Tumor Necrosis Factor Receptor superfamily 25. Death Domain (DD) found in Tumor Necrosis Factor (TNF) receptor superfamily 25 (TNFRSF25), also known as TRAMP (TNF receptor-related apoptosis-mediating protein), LARD, APO-3, WSL-1, or DR3 (Death Receptor-3). TNFRSF25 is primarily expressed in T cells, is activated by binding to its ligand TL1A, and plays an important role in T-cell function. DDs are protein-protein interaction domains found in a variety of domain architectures. Their common feature is that they form homodimers by self-association or heterodimers by associating with other members of the DD superfamily including CARD (Caspase activation and recruitment domain), DED (Death Effector Domain), and PYRIN. They serve as adaptors in signaling pathways and can recruit other proteins into signaling complexes.
Probab=91.46 E-value=0.19 Score=39.78 Aligned_cols=40 Identities=20% Similarity=0.265 Sum_probs=34.6
Q ss_pred ChhHHHHHHHhcCCchHHHHHHHHHHhccCChHHHHHHHHHHHHHHHhh
Q 023203 2 DLDDFRSILKTAGVDVWTFIDTAILVASLDYATELKERRDKIVERLYAT 50 (286)
Q Consensus 2 ~ld~wR~ff~~~g~dI~~~ID~AI~VAA~D~p~elR~RRD~IvErL~~a 50 (286)
+.++|+.|||..| +=|+.|..|-.++ |..||.+-+||-.=
T Consensus 10 P~~~wk~F~R~LG-----Lsdn~Ie~~E~~~----~~~rda~y~ML~~W 49 (77)
T cd08815 10 PARRWKEFVRTLG-----LREAEIEAVELEI----GRFRDQQYEMLKRW 49 (77)
T ss_pred ChHHHHHHHHHcC-----CcHhHHHHHHhcc----cchHHHHHHHHHHH
Confidence 3689999999999 8899999998777 66789999999874
No 11
>PLN02976 amine oxidase
Probab=90.06 E-value=0.55 Score=54.01 Aligned_cols=61 Identities=21% Similarity=0.365 Sum_probs=51.8
Q ss_pred HHHHHHHHHhhcCCCcHHHhhccCccccch-hhhcCCCHHHHHHHHHHHHHHHHHHHHhhhc
Q 023203 138 DALIDLLQSLADMDITFKALKETDIGRHVN-QLRKHSSNDVRKLVKHLVRKWKDIVDEWVKL 198 (286)
Q Consensus 138 d~llelLr~L~~l~iT~dlLksT~IGkaVN-~LRKH~s~~I~~LAk~LV~kWK~~V~e~~~~ 198 (286)
+-+...|+-|-.++..+..|+..+|||+|. ++.-|.+.+|+.+|++|+..|.+.+......
T Consensus 1301 ~l~~~~~~ll~~~~~d~~a~r~sg~~~~~k~~~~~h~~~~~r~~a~~~~~~w~~~~~~~~~~ 1362 (1713)
T PLN02976 1301 QLLRHCVRLLVLVSTDLLAVRLSGIGKTVKEKVCVHTSRDIRAIASQLVSVWLEVFRREKAS 1362 (1713)
T ss_pred HHHHHHHHHHhhcchhHHHHHhccchHHHHhhhhhcccHHHHHHHHHHHHHHHHHHHHhhhc
Confidence 345667777777888888999999999996 4789999999999999999999999877543
No 12
>cd08316 Death_FAS_TNFRSF6 Death domain of FAS or TNF receptor superfamily member 6. Death Domain (DD) found in the FS7-associated cell surface antigen (FAS). FAS, also known as TNFRSF6 (TNF receptor superfamily member 6), APT1, CD95, FAS1, or APO-1, together with FADD (Fas-associating via Death Domain) and caspase 8, is an integral part of the death inducing signalling complex (DISC), which plays an important role in the induction of apoptosis and is activated by binding of the ligand FasL to FAS. FAS also plays a critical role in self-tolerance by eliminating cell types (autoreactive T and B cells) that contribute to autoimmunity. DDs are protein-protein interaction domains found in a variety of domain architectures. Their common feature is that they form homodimers by self-association or heterodimers by associating with other members of the DD superfamily including CARD (Caspase activation and recruitment domain), DED (Death Effector Domain), and PYRIN. They serve as adaptors in sign
Probab=66.64 E-value=6.1 Score=32.20 Aligned_cols=42 Identities=24% Similarity=0.352 Sum_probs=35.8
Q ss_pred CChhHHHHHHHhcCCchHHHHHHHHHHhccCChHHHHHHHHHHHHHHHhh
Q 023203 1 MDLDDFRSILKTAGVDVWTFIDTAILVASLDYATELKERRDKIVERLYAT 50 (286)
Q Consensus 1 m~ld~wR~ff~~~g~dI~~~ID~AI~VAA~D~p~elR~RRD~IvErL~~a 50 (286)
|...+|+.|+|..| +=++-|.-.-.|||..+ ++..+++|..=
T Consensus 18 ~~~~~wK~faR~lg-----lse~~Id~I~~~~~~d~---~Eq~~qmL~~W 59 (97)
T cd08316 18 MTLKDVKKFVRKSG-----LSEPKIDEIKLDNPQDT---AEQKVQLLRAW 59 (97)
T ss_pred cCHHHHHHHHHHcC-----CCHHHHHHHHHcCCCCh---HHHHHHHHHHH
Confidence 45679999999999 78888998888999775 78889999874
No 13
>cd08784 Death_DRs Death Domain of Death Receptors. Death domain (DD) found in death receptor proteins. Death receptors are members of the tumor necrosis factor (TNF) receptor superfamily, characterized by having a cytoplasmic DD. Known members of the family are Fas (CD95/APO-1), TNF-receptor 1 (TNFR1/TNFRSF1A/p55/CD120a), TNF-related apoptosis-inducing ligand receptor 1 (TRAIL-R1 /DR4), and receptor 2 (TRAIL-R2/DR5/APO-2/KILLER), as well as Death Receptor 3 (DR3/APO-3/TRAMP/WSL-1/LARD). They are involved in apoptosis signaling pathways. DDs are protein-protein interaction domains found in a variety of domain architectures. Their common feature is that they form homodimers by self-association or heterodimers by associating with other members of the DD superfamily including CARD (Caspase activation and recruitment domain), DED (Death Effector Domain), and PYRIN. They serve as adaptors in signaling pathways and can recruit other proteins into signaling complexes.
Probab=65.61 E-value=8 Score=29.86 Aligned_cols=41 Identities=29% Similarity=0.444 Sum_probs=34.3
Q ss_pred CChhHHHHHHHhcCCchHHHHHHHHHHhccCChHHHHHHHHHHHHHHHhh
Q 023203 1 MDLDDFRSILKTAGVDVWTFIDTAILVASLDYATELKERRDKIVERLYAT 50 (286)
Q Consensus 1 m~ld~wR~ff~~~g~dI~~~ID~AI~VAA~D~p~elR~RRD~IvErL~~a 50 (286)
|..++|+.|++..| +=++-|...-.|+|+ + +..+.|+|..=
T Consensus 9 v~~~~Wk~laR~LG-----ls~~~I~~ie~~~~~-~---~eq~~~mL~~W 49 (79)
T cd08784 9 VPFDQHKRFFRKLG-----LSDNEIKVAELDNPQ-H---RDRVYELLRIW 49 (79)
T ss_pred CCHHHHHHHHHHcC-----CCHHHHHHHHHcCCc-h---HHHHHHHHHHH
Confidence 45789999999999 779999999999998 4 57788888763
No 14
>cd08313 Death_TNFR1 Death domain of Tumor Necrosis Factor Receptor 1. Death Domain (DD) found in tumor necrosis factor receptor-1 (TNFR-1). TNFR-1 has many names including TNFRSF1A, CD120a, p55, p60, and TNFR60. It activates two major intracellular signaling pathways that lead to the activation of the transcription factor NF-kB and the induction of cell death. Upon binding of its ligand TNF, TNFR-1 trimerizes which leads to the recruitment of an adaptor protein named TNFR-associated death domain protein (TRADD) through a DD/DD interaction. Mutations in the TNFRSF1A gene causes TNFR-associated periodic syndrome (TRAPS), a rare disorder characterized recurrent fever, myalgia, abdominal pain, conjunctivitis and skin eruptions. DDs are protein-protein interaction domains found in a variety of domain architectures. Their common feature is that they form homodimers by self-association or heterodimers by associating with other members of the DD superfamily including CARD (Caspase activation a
Probab=65.35 E-value=7.1 Score=30.79 Aligned_cols=41 Identities=20% Similarity=0.241 Sum_probs=33.4
Q ss_pred CChhHHHHHHHhcCCchHHHHHHHHHHhccCChHHHHHHHHHHHHHHHhh
Q 023203 1 MDLDDFRSILKTAGVDVWTFIDTAILVASLDYATELKERRDKIVERLYAT 50 (286)
Q Consensus 1 m~ld~wR~ff~~~g~dI~~~ID~AI~VAA~D~p~elR~RRD~IvErL~~a 50 (286)
|..++|+.|+|..| +=|+-|..+-.||| .+ |+...|+|..=
T Consensus 9 v~~~~wk~~~R~LG-----lse~~Id~ie~~~~-~~---~Eq~yqmL~~W 49 (80)
T cd08313 9 VPPRRWKEFVRRLG-----LSDNEIERVELDHR-RC---RDAQYQMLKVW 49 (80)
T ss_pred CCHHHHHHHHHHcC-----CCHHHHHHHHHhCC-Ch---HHHHHHHHHHH
Confidence 56789999999999 78888888888998 44 56778888763
No 15
>PF14726 RTTN_N: Rotatin, an armadillo repeat protein, centriole functioning
Probab=51.58 E-value=22 Score=29.04 Aligned_cols=51 Identities=14% Similarity=0.291 Sum_probs=41.9
Q ss_pred CHHHHHHHHHHhhcCCCcHHHhhccCccccchhhhcCCCHHHHHHHHHHHH
Q 023203 136 SEDALIDLLQSLADMDITFKALKETDIGRHVNQLRKHSSNDVRKLVKHLVR 186 (286)
Q Consensus 136 sed~llelLr~L~~l~iT~dlLksT~IGkaVN~LRKH~s~~I~~LAk~LV~ 186 (286)
-.+.++++|.+|-.-|-...+|+.-+.=...++||++-.+..+...-.|++
T Consensus 46 ~~~~VL~Ll~~L~~~~~a~~~l~~iG~~~fL~klr~~~~~~~~~~id~il~ 96 (98)
T PF14726_consen 46 MKEEVLALLLRLLKSPYAAQILRDIGAVRFLSKLRPNVEPNLQAEIDEILD 96 (98)
T ss_pred cHHHHHHHHHHHHhCcHHHHHHHHccHHHHHHHHHhcCCHHHHHHHHHHHh
Confidence 577899999999999999999998665577999999887777766666554
No 16
>PF04782 DUF632: Protein of unknown function (DUF632); InterPro: IPR006867 This conserved region contains a leucine zipper-like domain. The proteins are found only in plants and their functions are unknown.
Probab=41.09 E-value=47 Score=32.35 Aligned_cols=58 Identities=17% Similarity=0.426 Sum_probs=42.9
Q ss_pred CHHHHHHHHHHhhc-CCCcHHHhhccCccccchhhhcCCC-HHHHHHHHHHHHHHHHHHHHh
Q 023203 136 SEDALIDLLQSLAD-MDITFKALKETDIGRHVNQLRKHSS-NDVRKLVKHLVRKWKDIVDEW 195 (286)
Q Consensus 136 sed~llelLr~L~~-l~iT~dlLksT~IGkaVN~LRKH~s-~~I~~LAk~LV~kWK~~V~e~ 195 (286)
..++.-..++.|.. |.|..+... .|-+.+++||-..= +++-.|...|++-||.+.+-+
T Consensus 130 kidkTra~v~~L~tri~Vaiq~v~--siS~~I~kLRDeEL~PQL~eLi~Gl~~MWk~M~ecH 189 (312)
T PF04782_consen 130 KIDKTRASVKDLHTRIRVAIQSVD--SISKRIEKLRDEELYPQLVELIQGLMRMWKSMLECH 189 (312)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHH--HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34555566666664 444444444 47889999997654 899999999999999999854
No 17
>KOG2675 consensus Adenylate cyclase-associated protein (CAP/Srv2p) [Cytoskeleton; Signal transduction mechanisms]
Probab=34.61 E-value=5.3e+02 Score=26.90 Aligned_cols=27 Identities=22% Similarity=0.319 Sum_probs=21.1
Q ss_pred CHHHHHHHHHHhhcCCCcHHHhhccCc
Q 023203 136 SEDALIDLLQSLADMDITFKALKETDI 162 (286)
Q Consensus 136 sed~llelLr~L~~l~iT~dlLksT~I 162 (286)
+..++.++|+.+...-+.+..++.+.-
T Consensus 103 ds~elad~LkPI~e~i~eI~~fkE~nR 129 (480)
T KOG2675|consen 103 DSNELADLLKPINEEIGEINNFKEKNR 129 (480)
T ss_pred ChHHHHHHhhhHHHhhhHHhhhhhccc
Confidence 567888888888887777777777665
No 18
>KOG1886 consensus BAH domain proteins [Transcription]
Probab=32.67 E-value=20 Score=36.86 Aligned_cols=62 Identities=10% Similarity=-0.117 Sum_probs=54.5
Q ss_pred CHHHHHHHHHHhhcCCCcHHHhhccCccccchhhhcCCCHHHHHHHHHHHHHHHHHHHHhhh
Q 023203 136 SEDALIDLLQSLADMDITFKALKETDIGRHVNQLRKHSSNDVRKLVKHLVRKWKDIVDEWVK 197 (286)
Q Consensus 136 sed~llelLr~L~~l~iT~dlLksT~IGkaVN~LRKH~s~~I~~LAk~LV~kWK~~V~e~~~ 197 (286)
..+....++..|.....++.++..-++++.++.|+.|..+.|..-+..+|..|+.++...+.
T Consensus 355 ~~d~~~~l~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~v~~~~~a~~~~~~~~~~~~~~ 416 (464)
T KOG1886|consen 355 NDDDYDGLCVGLELTAGSLYLYCGQEGLICAGHLPCPMLPEVKLSPVAAVHREGLLLAPSSV 416 (464)
T ss_pred CchhHHHHHHhhhhhccchhhhcccccceeccccCCCCCCCcCcccccccchhhhcccceec
Confidence 45566778888888889999999999999999999999999999999999999999876643
No 19
>KOG1087 consensus Cytosolic sorting protein GGA2/TOM1 [Intracellular trafficking, secretion, and vesicular transport]
Probab=28.84 E-value=1.5e+02 Score=30.68 Aligned_cols=30 Identities=17% Similarity=0.350 Sum_probs=25.8
Q ss_pred cchhhhcC-CCHHHHHHHHHHHHHHHHHHHH
Q 023203 165 HVNQLRKH-SSNDVRKLVKHLVRKWKDIVDE 194 (286)
Q Consensus 165 aVN~LRKH-~s~~I~~LAk~LV~kWK~~V~e 194 (286)
.|...+++ ....|+..+-.||+.|...+..
T Consensus 86 mVk~~k~~~~~~~Vr~kiL~LI~~W~~af~~ 116 (470)
T KOG1087|consen 86 MVKRPKNKPRDLKVREKILELIDTWQQAFCG 116 (470)
T ss_pred HHhccccCCcchhHHHHHHHHHHHHHHHccC
Confidence 56667888 7789999999999999998875
No 20
>PF08735 DUF1786: Putative pyruvate format-lyase activating enzyme (DUF1786); InterPro: IPR014846 This family is annotated as pyruvate formate-lyase activating enzyme (1.97.1.4 from EC) in UniProt. It is not clear where this annotation comes from.
Probab=27.06 E-value=13 Score=35.39 Aligned_cols=28 Identities=25% Similarity=0.323 Sum_probs=22.4
Q ss_pred ChhHHHHHHHhcCCchHHHHHHHHHHhccCC
Q 023203 2 DLDDFRSILKTAGVDVWTFIDTAILVASLDY 32 (286)
Q Consensus 2 ~ld~wR~ff~~~g~dI~~~ID~AI~VAA~D~ 32 (286)
|++.||.+|.+||.+. -...|.||+.||
T Consensus 61 D~~~~~~~l~~fg~~~---p~~~vavAvQDH 88 (254)
T PF08735_consen 61 DPEALRGALSAFGLEL---PFDVVAVAVQDH 88 (254)
T ss_pred CHHHHHHHHHHcCCCC---CcceeEEEeccc
Confidence 5679999999999663 333689999997
No 21
>cd08315 Death_TRAILR_DR4_DR5 Death domain of Tumor necrosis factor-Related Apoptosis-Inducing Ligand Receptors. Death Domain (DD) found in Tumor necrosis factor-Related Apoptosis-Inducing Ligand (TRAIL) Receptors. In mammals, this family includes TRAILR1 (also called DR4 or TNFRSF10A) and TRAILR2 (also called DR5, TNFRSF10B, or KILLER). They function as receptors for the cytokine TRAIL and are involved in apoptosis signaling pathways. TRAIL preferentially induces apoptosis in cancer cells while exhibiting little toxicity in normal cells. DDs are protein-protein interaction domains found in a variety of domain architectures. Their common feature is that they form homodimers by self-association or heterodimers by associating with other members of the DD superfamily including CARD (Caspase activation and recruitment domain), DED (Death Effector Domain), and PYRIN. They serve as adaptors in signaling pathways and can recruit other proteins into signaling complexes.
Probab=26.69 E-value=58 Score=26.20 Aligned_cols=39 Identities=18% Similarity=0.371 Sum_probs=33.2
Q ss_pred hhHHHHHHHhcCCchHHHHHHHHHHhccCChHHHHHHHHHHHHHHHhh
Q 023203 3 LDDFRSILKTAGVDVWTFIDTAILVASLDYATELKERRDKIVERLYAT 50 (286)
Q Consensus 3 ld~wR~ff~~~g~dI~~~ID~AI~VAA~D~p~elR~RRD~IvErL~~a 50 (286)
.++|+.|.+..| +=++-|..+-.|+|+- ++.+.|+|..=
T Consensus 19 ~~~Wk~laR~LG-----Lse~~I~~i~~~~~~~----~eq~~qmL~~W 57 (96)
T cd08315 19 FDSWNRLMRQLG-----LSENEIDVAKANERVT----REQLYQMLLTW 57 (96)
T ss_pred HHHHHHHHHHcC-----CCHHHHHHHHHHCCCC----HHHHHHHHHHH
Confidence 468999999999 8899999999999873 67888888874
No 22
>cd03569 VHS_Hrs_Vps27p VHS domain family, Hrs and Vps27p subfamily; composed of Hrs (Hepatocyte growth factor-regulated tyrosine kinase substrate) and its yeast homolog Vps27p (vacuolar protein sorting). The VHS domain, an essential part of Hrs/Vps27p, has a superhelical structure similar to the structure of ARM (Armadillo) repeats and is present at the N-termini of proteins. Hrs also contains a FYVE (Fab1p, YOTB, Vac1p, and EEA1) zinc finger domain C-terminal to VHS, as well as two coiled-coil domains. Hrs has been proposed to play a role in at least three vesicle trafficking events: exocytosis, endocytosis, and endosome to lysosome trafficking. Hrs is involved in promoting rapid recycling of endocytosed signaling receptors to the plasma membrane.
Probab=23.21 E-value=1.4e+02 Score=25.49 Aligned_cols=22 Identities=18% Similarity=0.459 Sum_probs=19.4
Q ss_pred CCCHHHHHHHHHHHHHHHHHHH
Q 023203 172 HSSNDVRKLVKHLVRKWKDIVD 193 (286)
Q Consensus 172 H~s~~I~~LAk~LV~kWK~~V~ 193 (286)
+.+..|++.+..||..|...+.
T Consensus 96 ~~~~~Vk~kil~li~~W~~~f~ 117 (142)
T cd03569 96 TKNEEVRQKILELIQAWALAFR 117 (142)
T ss_pred cCCHHHHHHHHHHHHHHHHHhC
Confidence 5678999999999999998774
No 23
>COG5251 TAF40 Transcription initiation factor TFIID, subunit TAF11 [Transcription]
Probab=22.62 E-value=1.1e+02 Score=28.12 Aligned_cols=77 Identities=16% Similarity=0.169 Sum_probs=50.0
Q ss_pred CCChhHHHHHHHHHHHhCCCCCCHHHHHHHHHHhhcCCCcHHHhhccCccccch--------hhhcCCCHHHHHHHHHHH
Q 023203 114 GLFDDEQKRILEIKEHLEDPDQSEDALIDLLQSLADMDITFKALKETDIGRHVN--------QLRKHSSNDVRKLVKHLV 185 (286)
Q Consensus 114 ~l~d~e~~EV~rIKk~Ld~~~~sed~llelLr~L~~l~iT~dlLksT~IGkaVN--------~LRKH~s~~I~~LAk~LV 185 (286)
|-+|+|..+-+++|-.+...++.+-.-.+..++-..-.-.+.-|.+|=+|.+|+ +|-|---.+|-.||+.+-
T Consensus 81 ge~~~e~~~~~r~k~l~~~~deeq~~RyEvFrrt~lnKt~VKKlastV~nQtVspNi~I~l~g~~KVfvGEiIElA~~Vq 160 (199)
T COG5251 81 GEDENELAQDERFKLLVTNLDEEQTNRYEVFRRTSLNKTQVKKLASTVANQTVSPNIRIFLQGVGKVFVGEIIELAMIVQ 160 (199)
T ss_pred CcchhhHhHHHHHHHHHhhcCHHHHHHHHHHHhcCCCHHHHHHHHHHHhccccCCCeeeeeechhHHHHHHHHHHHHHHH
Confidence 345566677788888887764433334777777665555566677776666655 444544467777887777
Q ss_pred HHHHH
Q 023203 186 RKWKD 190 (286)
Q Consensus 186 ~kWK~ 190 (286)
.+|..
T Consensus 161 ~~w~~ 165 (199)
T COG5251 161 NKWLT 165 (199)
T ss_pred HHhcc
Confidence 77754
No 24
>cd03561 VHS VHS domain family; The VHS domain is present in Vps27 (Vacuolar Protein Sorting), Hrs (Hepatocyte growth factor-regulated tyrosine kinase substrate) and STAM (Signal Transducing Adaptor Molecule). It has a superhelical structure similar to that of the ARM (Armadillo) repeats and is present at the N-termini of proteins involved in intracellular membrane trafficking. There are four general groups of VHS domain containing proteins based on their association with other domains. The first group consists of proteins of the STAM/EAST/Hbp family which has the domain composition VHS-SH3-ITAM. The second consists of proteins with a FYVE domain C-terminal to VHS. The third consists of GGA proteins with a domain composition VHS-GAT (GGA and TOM)-GAE (gamma-adaptin ear) domain. The fourth consists of proteins with a VHS domain alone or with domains other than those mentioned above. In GGA proteins, VHS domains are involved in cargo recognition in trans-Golgi, thereby having a general me
Probab=22.39 E-value=3e+02 Score=22.83 Aligned_cols=22 Identities=18% Similarity=0.348 Sum_probs=19.0
Q ss_pred CCHHHHHHHHHHHHHHHHHHHH
Q 023203 173 SSNDVRKLVKHLVRKWKDIVDE 194 (286)
Q Consensus 173 ~s~~I~~LAk~LV~kWK~~V~e 194 (286)
.+..|+..+..||..|...+..
T Consensus 95 ~~~~Vk~kil~ll~~W~~~f~~ 116 (133)
T cd03561 95 YDPKVREKALELILAWSESFGG 116 (133)
T ss_pred CCHHHHHHHHHHHHHHHHHhcC
Confidence 4689999999999999987754
No 25
>PF10562 CaM_bdg_C0: Calmodulin-binding domain C0 of NMDA receptor NR1 subunit; InterPro: IPR018882 This is a very short highly conserved domain that is C-terminal to the cytosolic transmembrane region IV of the NMDA-receptor 1. It has been shown to bind Calmodulin-Calcium with high affinity. The ionotropic N-methyl-D-aspartate receptor (NMDAR) is a major source of calcium flux into neurons in the brain and plays a critical role in learning, memory, neural development, and synaptic plasticity. Calmodulin (CaM) regulates NMDARs by binding tightly to the C0 and C1 regions of their NR1 subunit. The conserved tryptophan is considered to be the anchor residue [].
Probab=21.14 E-value=65 Score=21.33 Aligned_cols=18 Identities=22% Similarity=0.567 Sum_probs=14.7
Q ss_pred HHHHHHHHHHHHHHHHHH
Q 023203 175 NDVRKLVKHLVRKWKDIV 192 (286)
Q Consensus 175 ~~I~~LAk~LV~kWK~~V 192 (286)
.+--+||+..+.+|+..+
T Consensus 11 qk~~elAr~a~dkWR~~i 28 (29)
T PF10562_consen 11 QKQLELARHAADKWRGNI 28 (29)
T ss_pred HHHHHHHHHHHHHHHhhc
Confidence 345679999999999875
No 26
>smart00288 VHS Domain present in VPS-27, Hrs and STAM. Unpublished observations. Domain of unknown function.
Probab=20.99 E-value=3.2e+02 Score=22.78 Aligned_cols=20 Identities=25% Similarity=0.544 Sum_probs=17.1
Q ss_pred HHHHHHHHHHHHHHHHHHHH
Q 023203 175 NDVRKLVKHLVRKWKDIVDE 194 (286)
Q Consensus 175 ~~I~~LAk~LV~kWK~~V~e 194 (286)
+.|+..+..||..|...+..
T Consensus 96 ~~Vk~kil~li~~W~~~f~~ 115 (133)
T smart00288 96 PLVKKRILELIQEWADAFKN 115 (133)
T ss_pred HHHHHHHHHHHHHHHHHHcC
Confidence 44999999999999998753
No 27
>KOG2199 consensus Signal transducing adaptor protein STAM/STAM2 [Signal transduction mechanisms]
Probab=20.46 E-value=9.7e+02 Score=24.88 Aligned_cols=104 Identities=25% Similarity=0.400 Sum_probs=55.2
Q ss_pred CHHHHHHHHHHhhcCCCcHHHhhc----------cCcc----ccchhh-hcCCC-HHHHHHHHHHHHHHHHHHHHh-hhc
Q 023203 136 SEDALIDLLQSLADMDITFKALKE----------TDIG----RHVNQL-RKHSS-NDVRKLVKHLVRKWKDIVDEW-VKL 198 (286)
Q Consensus 136 sed~llelLr~L~~l~iT~dlLks----------T~IG----kaVN~L-RKH~s-~~I~~LAk~LV~kWK~~V~e~-~~~ 198 (286)
.+..|-.+|..|.....|-+.+.. +..| +.+.+. |||.. .++.......++-.-+++++. ...
T Consensus 293 ~e~~iDrlL~~L~~~dPtd~~~D~~~l~~le~~~~~mgPlid~~Le~idrk~~eL~~Ln~~l~~Al~lY~kLm~~~p~~~ 372 (462)
T KOG2199|consen 293 DEDKIDRLLQVLHEADPTDEVQDDDDLLDLEAAVHQMGPLIDRKLEKIDRKHEELSQLNVKLLDALRLYNKLMNEAPAYA 372 (462)
T ss_pred cHHHHHHHHHHHhhcCCCCccCCCHHHHHHHHHHHHhhhHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHhhChhhc
Confidence 577888899999877765443332 2233 222333 56643 344444444555566677655 111
Q ss_pred CCCCCCCccCCCCCCCcCcCCCC--CCCCCCCCCccCCCCCCCC
Q 023203 199 NQPGELASSAMMDGDSPQQKIPQ--NGNHQVPDFAYSPNPHNGS 240 (286)
Q Consensus 199 ~~~~~~~~~~~s~g~sp~k~~~~--~~~~~~~~~~~~~~~~~g~ 240 (286)
+=++ ..+-.+=-+..|+|..+. +|++++|--.|||--|++.
T Consensus 373 ~~~~-l~~~~~Y~~~~p~q~yp~qpp~~~q~~~q~yspp~q~~p 415 (462)
T KOG2199|consen 373 HFAK-LQGPALYPQMTPMQNYPVQPPGRAQYPSQSYSPPQQQQP 415 (462)
T ss_pred cccC-CCCcccCCCCCccccCCCCCCcccccCcccCCChhhcCC
Confidence 1111 111112223556666655 6888888888886333444
No 28
>PF09441 Abp2: ARS binding protein 2; InterPro: IPR018562 This DNA-binding protein binds to the autonomously replicating sequence (ARS) binding element. It may play a role in regulating the cell cycle response to stress signals [].
Probab=20.45 E-value=1.4e+02 Score=27.10 Aligned_cols=56 Identities=21% Similarity=0.359 Sum_probs=35.8
Q ss_pred CHHHHHHHHHHhhcCCCcHHHhhccCccccchhhhc-CCCHHHHHHHHHHHHHHHHHH
Q 023203 136 SEDALIDLLQSLADMDITFKALKETDIGRHVNQLRK-HSSNDVRKLVKHLVRKWKDIV 192 (286)
Q Consensus 136 sed~llelLr~L~~l~iT~dlLksT~IGkaVN~LRK-H~s~~I~~LAk~LV~kWK~~V 192 (286)
+.=.|++++++|..-.|..=+==.+..|..=-.+-| .+..+|++.|-.| ++|...+
T Consensus 54 s~~~Lf~LI~k~~~keikTW~~La~~LGVepp~~ek~qStQKvqQYaVRL-KRWM~aM 110 (175)
T PF09441_consen 54 STFTLFELIRKLESKEIKTWAQLALELGVEPPDPEKGQSTQKVQQYAVRL-KRWMRAM 110 (175)
T ss_pred hHHHHHHHHHHHhhhhHhHHHHHHHHhCCCCCCcccccchHHHHHHHHHH-HHHHHHh
Confidence 345677888887754433222224556666555544 4558999999998 8898754
Done!