Query 013071
Match_columns 450
No_of_seqs 238 out of 837
Neff 5.5
Searched_HMMs 46136
Date Fri Mar 29 00:06:36 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/013071.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/013071hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 cd01438 tankyrase_like Tankyra 100.0 1.7E-38 3.8E-43 304.6 18.9 177 99-286 17-221 (223)
2 PF00644 PARP: Poly(ADP-ribose 100.0 5.4E-35 1.2E-39 277.1 14.1 172 98-285 3-206 (206)
3 cd01439 TCCD_inducible_PARP_li 100.0 3.3E-35 7.2E-40 258.9 9.9 114 165-283 1-121 (121)
4 cd01437 parp_like Poly(ADP-rib 100.0 3E-29 6.5E-34 256.0 14.9 254 11-284 35-347 (347)
5 PF12174 RST: RCD1-SRO-TAF4 (R 100.0 2.2E-29 4.8E-34 201.8 9.0 69 350-418 2-70 (70)
6 PLN03124 poly [ADP-ribose] pol 99.9 1.9E-24 4.1E-29 233.9 13.6 233 35-286 350-639 (643)
7 PLN03123 poly [ADP-ribose] pol 99.9 1.5E-22 3.3E-27 228.3 13.9 174 98-286 767-978 (981)
8 PLN03122 Poly [ADP-ribose] pol 99.9 6.5E-22 1.4E-26 219.3 12.3 173 98-286 591-805 (815)
9 cd01341 ADP_ribosyl ADP_ribosy 99.8 1.3E-19 2.8E-24 162.9 6.3 110 165-279 1-137 (137)
10 KOG1037 NAD+ ADP-ribosyltransf 98.7 3.4E-09 7.3E-14 114.5 0.9 185 39-235 243-440 (531)
11 PF12509 DUF3715: Protein of u 89.0 1 2.3E-05 42.1 6.3 118 135-256 1-125 (165)
12 PF12767 SAGA-Tad1: Transcript 88.8 2 4.2E-05 42.6 8.4 66 357-422 9-81 (252)
13 KOG0034 Ca2+/calmodulin-depend 85.4 1.6 3.5E-05 41.8 5.4 60 357-416 84-153 (187)
14 PF13833 EF-hand_8: EF-hand do 64.2 7.1 0.00015 28.6 2.8 45 357-401 5-53 (54)
15 PRK00819 RNA 2'-phosphotransfe 64.1 7.2 0.00016 37.1 3.4 33 163-203 94-126 (179)
16 PF02671 PAH: Paired amphipath 63.4 16 0.00035 26.6 4.5 33 373-405 2-34 (47)
17 KOG4177 Ankyrin [Cell wall/mem 59.0 2.6 5.6E-05 50.2 -0.7 102 127-235 998-1113(1143)
18 PF15633 Tox-ART-HYD1: HYD1 si 56.1 8.1 0.00018 33.3 2.0 41 166-208 1-42 (96)
19 PF08349 DUF1722: Protein of u 48.9 43 0.00092 29.3 5.5 48 357-404 53-100 (117)
20 PF09851 SHOCT: Short C-termin 44.3 51 0.0011 22.3 4.1 29 376-404 3-31 (31)
21 cd01436 Dipth_tox_like Mono-AD 44.0 24 0.00053 31.8 3.1 50 166-219 2-54 (147)
22 PF01885 PTS_2-RNA: RNA 2'-pho 42.3 19 0.00041 34.3 2.4 34 162-203 104-137 (186)
23 PF13151 DUF3990: Protein of u 39.1 14 0.0003 34.2 0.9 32 164-202 1-32 (154)
24 cd05031 S-100A10_like S-100A10 38.8 76 0.0017 26.2 5.3 31 375-405 7-42 (94)
25 PTZ00184 calmodulin; Provision 36.2 54 0.0012 28.1 4.2 60 356-415 63-129 (149)
26 PHA01748 hypothetical protein 35.5 88 0.0019 24.4 4.8 51 366-419 5-56 (60)
27 PF09454 Vps23_core: Vps23 cor 35.0 1.4E+02 0.0029 23.8 5.9 37 376-412 26-62 (65)
28 smart00027 EH Eps15 homology d 35.0 60 0.0013 26.9 4.1 66 357-430 27-93 (96)
29 cd00213 S-100 S-100: S-100 dom 34.9 1.4E+02 0.003 24.0 6.2 43 373-415 5-60 (88)
30 COG1859 KptA RNA:NAD 2'-phosph 34.9 28 0.00061 34.1 2.3 25 161-185 118-142 (211)
31 PF13405 EF-hand_6: EF-hand do 34.7 23 0.00051 23.3 1.3 28 374-401 1-28 (31)
32 PTZ00315 2'-phosphotransferase 33.4 74 0.0016 35.7 5.5 32 164-203 477-509 (582)
33 smart00027 EH Eps15 homology d 32.9 99 0.0022 25.5 5.1 45 370-415 4-53 (96)
34 cd05030 calgranulins Calgranul 29.9 1.6E+02 0.0035 24.1 5.9 33 374-406 6-43 (88)
35 PRK12721 secretion system appa 29.3 80 0.0017 33.1 4.7 69 364-432 189-258 (349)
36 PF00036 EF-hand_1: EF hand; 27.8 27 0.00058 23.2 0.6 27 375-401 2-28 (29)
37 smart00862 Trans_reg_C Transcr 26.4 80 0.0017 24.3 3.3 51 370-421 6-60 (78)
38 TIGR00328 flhB flagellar biosy 26.0 1E+02 0.0022 32.4 4.8 62 362-423 187-248 (347)
39 cd00383 trans_reg_C Effector d 24.7 69 0.0015 25.7 2.7 51 370-421 24-77 (95)
40 PRK06298 type III secretion sy 24.6 1.1E+02 0.0023 32.3 4.7 73 360-432 186-259 (356)
41 PTZ00183 centrin; Provisional 24.5 1.4E+02 0.003 26.0 4.8 59 357-415 70-135 (158)
42 cd05025 S-100A1 S-100A1: S-100 23.6 1.3E+02 0.0029 24.5 4.2 30 376-405 9-43 (92)
43 cd00052 EH Eps15 homology doma 23.6 1.6E+02 0.0034 21.8 4.3 47 357-403 16-63 (67)
44 PRK09108 type III secretion sy 22.2 1.2E+02 0.0025 32.0 4.4 61 362-422 189-249 (353)
45 cd00051 EFh EF-hand, calcium b 22.0 82 0.0018 21.8 2.4 43 357-399 17-62 (63)
46 PRK12773 flhB flagellar biosyn 21.6 1.6E+02 0.0034 33.5 5.4 57 367-423 490-546 (646)
47 PRK02998 prsA peptidylprolyl i 21.6 1E+02 0.0022 30.9 3.8 31 383-413 29-59 (283)
48 smart00054 EFh EF-hand, calciu 21.2 49 0.0011 19.2 0.9 24 378-401 5-28 (29)
49 PRK05702 flhB flagellar biosyn 20.5 1.3E+02 0.0029 31.6 4.4 62 362-423 194-255 (359)
50 cd05029 S-100A6 S-100A6: S-100 20.3 1.6E+02 0.0034 24.5 4.0 47 357-403 29-81 (88)
51 PRK12772 bifunctional flagella 20.2 1.4E+02 0.003 33.7 4.7 58 366-423 454-511 (609)
52 TIGR01404 FlhB_rel_III type II 20.1 1.6E+02 0.0034 30.8 4.8 62 362-423 186-247 (342)
No 1
>cd01438 tankyrase_like Tankyrases interact with the telomere reverse transcriptase complex (TERT). Tankyrase 1 poly-ADP-ribosylates Telomere Repeat Binding Factor 1 (TRF1) while Tankyrase 2 can poly-ADP-ribosylate itself or TRF1. The tankyrases also contain multiple ankyrin repeats that mediate protein-protein interaction (binding TRF1 and insulin-responsive aminopeptidase) and may function as a complex. Overexpression of Tank1 promotes increased telomere length when overexpressed, while overexpressed Tank2 has been shown to promote PARP cleavage- independent cell death (necrosis).
Probab=100.00 E-value=1.7e-38 Score=304.65 Aligned_cols=177 Identities=18% Similarity=0.290 Sum_probs=143.9
Q ss_pred EEEEcCCCChhHHHHHHHHHccCCC----------CCCCcEEEEEEecCHhHHHHHHHHHHHHHHHhhcCCCCceEEEee
Q 013071 99 NKSVVVDDKLDSDSVRSMFLMGMSP----------SSGVDILDVQRCSSASLLARFELFQKQLEITNKCRGDANVRYAWL 168 (450)
Q Consensus 99 ~~i~L~~~s~EY~~V~~~F~~g~~~----------~~~~~I~kIeRIqN~~l~aryq~fKk~m~~~~k~~G~~Ner~LFH 168 (450)
.+++|.|++.||+.|++.|.+|+.+ +.+++|++|+||||+.||.+|+.+|++|+. +.....||++|||
T Consensus 17 ~~~~l~p~~~e~~~v~~~~~~t~~~~~~~~~~~~~~~~~~I~kI~RIQN~~Lw~~y~~kk~~~~~--~~~~~~ne~~LfH 94 (223)
T cd01438 17 ILLDLAPDDKEYQSVEEEMQSTIREHRDGGNAGGIFNRYNIIRIQKVVNKKLRERYCHRQKEIAE--ENHNHHNERMLFH 94 (223)
T ss_pred eEEEecCCCchHHHHHHHHHhhccccccCcccccccccccEEEEEecCCHHHHHHHHHHHHHHHH--hhCCCcceEEEee
Confidence 4789999999999999999999874 235799999999999999999999888874 3445689999999
Q ss_pred cCChhhHHHHhhccCCCCCCCCCCCcccceeEeccCCCCCccCCccccCC---------CC-----cEEEEEEeeccCCc
Q 013071 169 ATSKGALSTMIMYGLGHCGASTTKSTYGIGVHLAAASCPDTSASYTDVDE---------NG-----VRHMVLCRVIMGNM 234 (450)
Q Consensus 169 GTs~~~i~~I~~~GFd~~~a~~~g~~yG~GIYFAp~n~s~kS~~Y~~~d~---------~G-----~r~MfLcRVllGk~ 234 (450)
||+ .++.||++|||++.+. +|+|||+||||| ++++ +|++||.... ++ .++||||||++|++
T Consensus 95 Gt~--~~~~I~~~GFd~r~~~-~g~~fGkGiYFA-~~as-kS~~Y~~~~~~~~~~p~~~~~~~~~~~~~MfLcrVlLGk~ 169 (223)
T cd01438 95 GSP--FINAIIHKGFDERHAY-IGGMFGAGIYFA-ENSS-KSNQYVYGIGGGTGCPTHKDRSCYVCHRQMLFCRVTLGKS 169 (223)
T ss_pred cCc--chhHHHHhCCCccccc-cCceeeeeeeec-cchh-hhccccccccccccCcccccccccccceeEEEEEEEecce
Confidence 997 4679999999998765 589999999999 6766 5999986421 11 47899999999998
Q ss_pred cccCCCCCCCCCCCCCCCccccCCC----CCcEEEEEeCCCCccccceeEEEEEec
Q 013071 235 EPLFPGTKQFHPSSEDFDSGVDDLQ----NPRHYIVWNMNMNTHIFPEFVVSFKFS 286 (450)
Q Consensus 235 ~~v~p~sk~~~ps~~~YDSvVd~~~----nP~~yVVy~~~mNtqiyPeYLItyk~~ 286 (450)
....+...-. +...+|||+++... ..+|||||+.+ ||||+|||+|+..
T Consensus 170 ~~~~~~~~~~-~~P~G~dSv~g~Ps~~~~~~~EfVVyd~~---Q~YPeYLI~y~~~ 221 (223)
T cd01438 170 FLQFSAMKMA-HAPPGHHSVIGRPSVNGLAYAEYVIYRGE---QAYPEYLITYQIV 221 (223)
T ss_pred eeccCCcccC-CCCCCCcceEcCCCCCCcccCEEEEECCC---cEeeEEEEEEEee
Confidence 6554443221 22347999998543 24799999976 9999999999864
No 2
>PF00644 PARP: Poly(ADP-ribose) polymerase catalytic domain; InterPro: IPR012317 Poly(ADP-ribose) polymerases (PARP) are a family of enzymes present in eukaryotes, which catalyze the poly(ADP-ribosyl)ation of a limited number of proteins involved in chromatin architecture, DNA repair, or in DNA metabolism, including PARP itself. PARP, also known as poly(ADP-ribose) synthetase and poly(ADP-ribose) transferase, transfers the ADP-ribose moiety from its substrate, nicotinamide adenine dinucleotide (NAD), to carboxylate groups of aspartic and glutamic residues. Whereas some PARPs might function in genome protection, others appear to play different roles in the cell, including telomere replication and cellular transport. PARP-1 is a multifunctional enzyme. The polypeptide has a highly conserved modular organisation consisting of an N-terminal DNA-binding domain, a central regulating segment, and a C-terminal or F region accommodating the catalytic centre. The F region is composed of two parts: a purely alpha-helical N- terminal domain (alpha-hd), and the mixed alpha/beta C-terminal catalytic domain bearing the putative NAD binding site. Although proteins of the PARP family are related through their PARP catalytic domain, they do not resemble each other outside of that region, but rather, they contain unique domains that distinguish them from each other and hint at their discrete functions. Domains with which the PARP catalytic domain is found associated include zinc fingers, SAP, ankyrin, BRCT, Macro, SAM, WWE and UIM domains [, , ]. The alpha-hd domain is about 130 amino acids in length and consists of an up-up-down-up-down-down motif of helices. It is thought to relay the activation signal issued on binding to damaged DNA [, ]. The PARP catalytic domain is about 230 residues in length. Its core consists of a five-stranded antiparallel beta-sheet and four-stranded mixed beta-sheet. The two sheets are consecutive and are connected via a single pair of hydrogen bonds between two strands that run at an angle of 90 degrees. These central beta-sheets are surrounded by five alpha-helices, three 3(10)-helices, and by a three- and a two-stranded beta-sheet in a 37-residue excursion between two central beta-strands [, ]. The active site, known as the 'PARP signature' is formed by a block of 50 amino acids that is strictly conserved among the vertebrates and highly conserved among all species. The 'PARP signature' is characteristic of all PARP protein family members. It is formed by a segment of conserved amino acid residues formed by a beta-sheet, an alpha-helix, a 3(10)-helix, a beta-sheet, and an alpha-helix [].; GO: 0003950 NAD+ ADP-ribosyltransferase activity; PDB: 2PQF_F 4F0D_A 1PAX_A 1EFY_A 1A26_A 2PAW_A 4PAX_A 3PAX_A 2PAX_A 3P0N_A ....
Probab=100.00 E-value=5.4e-35 Score=277.11 Aligned_cols=172 Identities=26% Similarity=0.454 Sum_probs=138.9
Q ss_pred eEEEEcCCCChhHHHHHHHHHccCCCCC--CCcEEEEEEecCHhHHHHHHHHHHHHHHHhhcCCCCceEEEeecCChhhH
Q 013071 98 VNKSVVVDDKLDSDSVRSMFLMGMSPSS--GVDILDVQRCSSASLLARFELFQKQLEITNKCRGDANVRYAWLATSKGAL 175 (450)
Q Consensus 98 ~~~i~L~~~s~EY~~V~~~F~~g~~~~~--~~~I~kIeRIqN~~l~aryq~fKk~m~~~~k~~G~~Ner~LFHGTs~~~i 175 (450)
+.+++|.++++||+.|+++|.++|++.. ..+|.+|+||+|+.+|++|+.+++ ..|+++|||||+.+++
T Consensus 3 ~~l~~l~~~s~ey~~I~~~f~~~~~~~~~~~~~I~~I~~i~~~~~~~~f~~~~~----------~~n~~~L~HGt~~~~~ 72 (206)
T PF00644_consen 3 CELVPLEPDSEEYKEIEKYFKKTWKPVHKYKPKIKKIFRIQNPSLWERFEEKKK----------EGNERLLFHGTSAENI 72 (206)
T ss_dssp EEEEEEETTSHHHHHHHHHHHHTSTSTTTEEEEEEEEEEEEEHHHHHHHHHHHH----------SSSEEEEEEEETGGGH
T ss_pred CEEEEcCCCCHHHHHHHHHHHhHCCCCCCCCCEEEEEEEEcChhHHHHHHHHHh----------cCCceEEeCCCChhhc
Confidence 4578899999999999999999998643 489999999999999999988764 3589999999999999
Q ss_pred HHHhhccC--CCCCCCCCCCcccceeEeccCCCCCccCCcccc-CCCCcEEEEEEeeccCCccccCCCCCCCCCCCCCCC
Q 013071 176 STMIMYGL--GHCGASTTKSTYGIGVHLAAASCPDTSASYTDV-DENGVRHMVLCRVIMGNMEPLFPGTKQFHPSSEDFD 252 (450)
Q Consensus 176 ~~I~~~GF--d~~~a~~~g~~yG~GIYFAp~n~s~kS~~Y~~~-d~~G~r~MfLcRVllGk~~~v~p~sk~~~ps~~~YD 252 (450)
.+||++|| +.+.++.+|++||+||||| .++ .+|+.||.. +.+|.++||||+|++|++..+..... ......+||
T Consensus 73 ~~I~~~G~~~~~~~~~~~g~~fG~GiYfs-~~~-s~s~~Y~~~~~~~g~~~~llc~V~lG~~~~~~~~~~-~~~~~~g~~ 149 (206)
T PF00644_consen 73 CSILRNGFKIDPRKASRNGGMFGKGIYFS-DNS-SKSAQYSKPSDSNGERFMLLCRVALGKPYELKNDNP-MTSPPPGYD 149 (206)
T ss_dssp HHHHHHSS---TTTSCGGCSTTSSSEEEB-SSH-HHHHTTSTSESSSSEEEEEEEEEEECSEEEESSCCT-GSSGCTTES
T ss_pred cchhcCCCccCccccccCCceeeeEEEeC-cch-hhhcccCCCccCCcceeeeEEEEEeccceeeccCcc-cccccCCcc
Confidence 99999999 6777777899999999999 454 479999997 78899999999999999543321111 111122344
Q ss_pred ccc---------------------------cCCCCCcEEEEEeCCCCccccceeEEEEEe
Q 013071 253 SGV---------------------------DDLQNPRHYIVWNMNMNTHIFPEFVVSFKF 285 (450)
Q Consensus 253 SvV---------------------------d~~~nP~~yVVy~~~mNtqiyPeYLItyk~ 285 (450)
|+. +...++++||||+.+ |+||+|||+|+.
T Consensus 150 sv~~~~~~~~~~~~~~~g~p~~~~~~~~~~~~~~~~~eyVVy~~~---q~~p~YLi~y~~ 206 (206)
T PF00644_consen 150 SVKGVGSKTPEDTIDEDGVPSGKGYVSEYDGSSLNPNEYVVYDNS---QVYPEYLITYKF 206 (206)
T ss_dssp EEEECESEEEGGEEEETTETTSSEEESCEESSSSSCSEEEESSGG---GEEEEEEEEEEE
T ss_pred eecCCCccCCccccccCCCCCCCCccCccCCCccCCCEEEEEccc---ceeeEEEEEEEC
Confidence 432 223578999999966 999999999984
No 3
>cd01439 TCCD_inducible_PARP_like Poly(ADP-ribose) polymerases catalyse the covalent attachment of ADP-ribose units from NAD+ to itself and to a limited number of other DNA binding proteins, which decreases their affinity for DNA. Poly(ADP-ribose) polymerase is a regulatory component induced by DNA damage. The carboxyl-terminal region is the most highly conserved region of the protein. 2,3,7,8-Tetrachlorodibenzo-p-dioxin (TCDD) causes pleotropic effects in mammalian species through modulating gene expression. TCCD indicible PARP (TiPARP) is a target of TCDD that may contribute to multiple responses to TCDD by modulating protein function through poly ADP-ribosylation
Probab=100.00 E-value=3.3e-35 Score=258.94 Aligned_cols=114 Identities=23% Similarity=0.446 Sum_probs=101.2
Q ss_pred EEeecCChhhHHHHhhccCCCCCCCCCCCcccceeEeccCCCCCccCCccccCCC--CcEEEEEEeeccCCccccC----
Q 013071 165 YAWLATSKGALSTMIMYGLGHCGASTTKSTYGIGVHLAAASCPDTSASYTDVDEN--GVRHMVLCRVIMGNMEPLF---- 238 (450)
Q Consensus 165 ~LFHGTs~~~i~~I~~~GFd~~~a~~~g~~yG~GIYFAp~n~s~kS~~Y~~~d~~--G~r~MfLcRVllGk~~~v~---- 238 (450)
+|||||+.++++.||++||+++.++.++++||+||||| .+++ +|++||..+++ |.++|||||||+|+++...
T Consensus 1 ~LfHGt~~~~~~~I~~~GF~~~~~g~~~~~~G~GiYFA-~~~s-~S~~Y~~~~~~~~g~~~mfL~rVl~G~~~~~~~~~~ 78 (121)
T cd01439 1 LLFHGTSADAVEAICRHGFDRRFCGKHGTMYGKGSYFA-KNAS-YSHQYSKKSPKADGLKEMFLARVLTGDYTQGHPGYR 78 (121)
T ss_pred CcccccChhhHHHHHHccCCCccCCCCCCccCCeeecc-cChh-hhhcccccCcCCCCcEEEEEEEEEecceecCCCccc
Confidence 48999999999999999999999988899999999999 4655 69999987654 8999999999999987554
Q ss_pred -CCCCCCCCCCCCCCccccCCCCCcEEEEEeCCCCccccceeEEEE
Q 013071 239 -PGTKQFHPSSEDFDSGVDDLQNPRHYIVWNMNMNTHIFPEFVVSF 283 (450)
Q Consensus 239 -p~sk~~~ps~~~YDSvVd~~~nP~~yVVy~~~mNtqiyPeYLIty 283 (450)
||.++..+++++|||+||++.+|++||||+++ ||||||||+|
T Consensus 79 ~pP~~~~~~~~~~yDS~vd~~~~p~~~Vvf~~~---q~yPeYlI~y 121 (121)
T cd01439 79 RPPLKPSGVELDRYDSCVDNVSNPSIFVIFSDV---QAYPEYLITY 121 (121)
T ss_pred CCCCccCCCCCCCccceeCCCCCCCEEEEEeCC---ccceeEEEEC
Confidence 44455567789999999999999999999976 9999999997
No 4
>cd01437 parp_like Poly(ADP-ribose) polymerase (parp) catalytic domain catalyses the covalent attachment of ADP-ribose units from NAD+ to itself and to a limited number of other DNA binding proteins, which decreases their affinity for DNA. Poly(ADP-ribose) polymerase is a regulatory component induced by DNA damage. The carboxyl-terminal region is the most highly conserved region of the protein. Experiments have shown that a carboxyl 40 kDa fragment is still catalytically active. Poly(ADP-ribose)-like polymerases (PARPS 1-3, VPARP, tankyrase) catalyze the addition of up to 100 ADP_ribose units from NAD+. PARPs 1 and 2 are localized in the nucleaus, bind DNA, and are activated by DNA damage. VPARP is part of the vault ribonucleoprotein complex. Tankyrases regulates telomere length through interactions with telomere repeat binding factor 1.
Probab=99.96 E-value=3e-29 Score=256.01 Aligned_cols=254 Identities=18% Similarity=0.230 Sum_probs=171.9
Q ss_pred hhhhhccCCccccccceEE-EEEeccccc--ccchhhhccchhhhhcccccccCCCCCccc-----------------ee
Q 013071 11 FTLMVMNHTSVHKLNIKLQ-LEIDIAGLD--QSKLKECSGESNAFIKQIQIAPKPASNKYV-----------------VE 70 (450)
Q Consensus 11 ~~~~~~~~~~~~~~eikl~-~e~~~n~~~--~~kl~~~s~~s~~~~k~~~i~~~~~~~~~~-----------------ve 70 (450)
.-|+.+++.+.++..--|. |+.-++... ..++.+.|.+.+.+++|-+...+|. ..| ++
T Consensus 35 mPLGkLSk~qI~~g~~vL~~i~~~l~~~~~~~~~l~~ls~~FYtlIPh~fg~~~p~--~i~~~~~l~~k~~lle~L~die 112 (347)
T cd01437 35 MPLGKLSKNQIQKGYEVLKEIEEALKRGSSQGSQLEELSNEFYTLIPHDFGMSKPP--VIDNEELLKAKRELLEALRDIE 112 (347)
T ss_pred CCCcccCHHHHHHHHHHHHHHHHHHhccccchHHHHHHHHHHHHhCCccccCCCCC--ccCCHHHHHHHHHHHHHHHHHH
Confidence 3445555555555442221 111223322 3679999999999999997766652 111 11
Q ss_pred eecccccCCCCccccCCCCCCCCCCce-eEEEEcCCCChhHHHHHHHHHccCCC--CCCCcEEEEEEecCHhHHHHHHHH
Q 013071 71 VEDSCNRKPDAKLDETTGQNQNTKTSL-VNKSVVVDDKLDSDSVRSMFLMGMSP--SSGVDILDVQRCSSASLLARFELF 147 (450)
Q Consensus 71 v~~s~~~k~~~~~~e~i~~W~~~~~~~-~~~i~L~~~s~EY~~V~~~F~~g~~~--~~~~~I~kIeRIqN~~l~aryq~f 147 (450)
+.-+..... . ....+.-|.....+ +.+.+|+++++||+.|+++|.+|+++ .-+++|..|+||++..+|++|+.+
T Consensus 113 ~a~~l~~~~--~-~~~~~pld~~Y~~L~~~i~~L~~~s~ey~~I~~y~~~t~~~~~~~~~~V~~If~i~r~~e~~~F~~~ 189 (347)
T cd01437 113 IASKLLKDD--E-DDSDDPLDANYEKLKCKIEPLDKDSEEYKIIEKYLKNTHAPTTEYTVEVQEIFRVEREGETDRFKPF 189 (347)
T ss_pred HHHHHHhhc--c-cCCCCcchhHHHHcCeeEEECCCCChHHHHHHHHHHhcCCCCCCcceeEEEEEEecCCCchhhhHHh
Confidence 111111100 0 01111111111112 46788999999999999999999974 234899999999999999999764
Q ss_pred HHHHHHHhhcCCCCceEEEeecCChhhHHHHhhccCCCCC--CCCCCCcccceeEeccCCCCCccCCccccCC-CCcEEE
Q 013071 148 QKQLEITNKCRGDANVRYAWLATSKGALSTMIMYGLGHCG--ASTTKSTYGIGVHLAAASCPDTSASYTDVDE-NGVRHM 224 (450)
Q Consensus 148 Kk~m~~~~k~~G~~Ner~LFHGTs~~~i~~I~~~GFd~~~--a~~~g~~yG~GIYFAp~n~s~kS~~Y~~~d~-~G~r~M 224 (450)
+ ...|+++|||||+.+++.+|+++||+++. ++.+|.|||+||||| +++ ++|++||.++. ++.++|
T Consensus 190 ~----------~~~n~~lLwHGsr~~n~~~Il~~Gl~~~~~~~~~~g~mfGkGIYFA-d~~-skS~~Y~~~~~~~~~~~m 257 (347)
T cd01437 190 K----------KLGNRKLLWHGSRLTNFVGILSQGLRIAPPEAPVTGYMFGKGIYFA-DMF-SKSANYCHASASDPTGLL 257 (347)
T ss_pred h----------ccCCeEEEEcCCChhhHHHHHhcCCCcCccccccCCccccceEeec-Cch-HhhhhhcccCCCCCceEE
Confidence 3 13699999999999999999999999864 556789999999999 454 57999998875 789999
Q ss_pred EEEeeccCCccccCCCCCCCCCCCCCCCccccC---------------------------------CCCCcEEEEEeCCC
Q 013071 225 VLCRVIMGNMEPLFPGTKQFHPSSEDFDSGVDD---------------------------------LQNPRHYIVWNMNM 271 (450)
Q Consensus 225 fLcRVllGk~~~v~p~sk~~~ps~~~YDSvVd~---------------------------------~~nP~~yVVy~~~m 271 (450)
|||+|++|++...............+|||+.+- .-..+|||||+..
T Consensus 258 lLc~V~lG~~~~~~~~~~~~~~~p~g~~Sv~g~G~~~p~~~~~~~~~~gv~vP~G~~~~~~~~~~~~l~~nEyiVYd~~- 336 (347)
T cd01437 258 LLCEVALGKMNELKKADYMAKELPKGKHSVKGLGKTAPDPSEFEIDLDGVVVPLGKPVPSGHKTDTSLLYNEYIVYDVA- 336 (347)
T ss_pred EEEEEecCceehhccCChhhccCCCCceeeEeccCCCCCchhheeccCCeEeeCCccccCCcCCCcccccCCeEeechh-
Confidence 999999999864332211111123466766421 1124799999987
Q ss_pred CccccceeEEEEE
Q 013071 272 NTHIFPEFVVSFK 284 (450)
Q Consensus 272 NtqiyPeYLItyk 284 (450)
|+.+.|||.++
T Consensus 337 --Qir~rYLv~vk 347 (347)
T cd01437 337 --QVRLKYLLEVK 347 (347)
T ss_pred --HEEEEEEEEeC
Confidence 99999999874
No 5
>PF12174 RST: RCD1-SRO-TAF4 (RST) plant domain; InterPro: IPR022003 This domain is found in many plant proteins including SROs and RCD1s; it is required for interaction with multiple plant transcription factors.
Probab=99.96 E-value=2.2e-29 Score=201.82 Aligned_cols=69 Identities=55% Similarity=1.035 Sum_probs=67.6
Q ss_pred CCCCCCCccHHHHHHHHhccCChhHHHHHHHHHHHHHhcCCChHHHHHHHHHHhhhHHHHHHHHHhhcc
Q 013071 350 RAPKSPWMPFPMLFASISNKVSPKVMEQISNQYELFRAKKVNRDDFVKKLRLIVGDDLLRSTITALQCK 418 (450)
Q Consensus 350 ~~p~sp~~~F~~L~~~l~~~l~~~~~~~i~~~y~~~k~~kI~r~~~v~~~R~IvGD~lL~~~i~~~q~k 418 (450)
|+|+|||||||+||++|+++|||++|++|+++|++||++||||+||||+||.||||++|++||+++|+|
T Consensus 2 ~~P~sp~~~F~~L~~~l~~~l~~~~~~~l~~~Y~~~k~~kIsR~~fvr~lR~IVGD~lL~s~I~~lq~k 70 (70)
T PF12174_consen 2 RRPTSPWMPFPMLFSALSKHLPPSKMDLLQKHYEEFKKKKISREEFVRKLRQIVGDQLLRSAIKSLQQK 70 (70)
T ss_pred CCCCCCcccHHHHHHHHHHHCCHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHhccC
Confidence 569999999999999999999999999999999999999999999999999999999999999999976
No 6
>PLN03124 poly [ADP-ribose] polymerase; Provisional
Probab=99.91 E-value=1.9e-24 Score=233.91 Aligned_cols=233 Identities=21% Similarity=0.228 Sum_probs=159.1
Q ss_pred ccccccchhhhccchhhhhcccccccCCCCCccc-----------------eeeecccccCCCCccccCCCCCCCCCCce
Q 013071 35 AGLDQSKLKECSGESNAFIKQIQIAPKPASNKYV-----------------VEVEDSCNRKPDAKLDETTGQNQNTKTSL 97 (450)
Q Consensus 35 n~~~~~kl~~~s~~s~~~~k~~~i~~~~~~~~~~-----------------vev~~s~~~k~~~~~~e~i~~W~~~~~~~ 97 (450)
+.....+|.+.|.+.+.+|+|-+...+|+...-| +|+..+..... .....+.-+.....+
T Consensus 350 ~~~~~~~l~~lSn~FYTlIPH~FG~~~~~~~vIdt~~~lk~k~elLe~L~DIevA~~ll~~~---~~~~~~pld~~Y~~L 426 (643)
T PLN03124 350 SRSDRETLEELSGEFYTVIPHDFGFKKMRQFTIDTPQKLKHKLEMVEALGEIEIATKLLKDD---IGEQDDPLYAHYKRL 426 (643)
T ss_pred cccchHHHHHHhcCeEEecCcccccCCCCccccCCHHHHHHHHHHHHHHHHHHHHHHHHhhc---cCCCCCcHHHHHHHc
Confidence 3334567999999999999998766655321111 11111111110 001111111111112
Q ss_pred -eEEEEcCCCChhHHHHHHHHHccCCC-CC--CCcEEEEEEecCHhHHHHHHHHHHHHHHHhhcCCCCceEEEeecCChh
Q 013071 98 -VNKSVVVDDKLDSDSVRSMFLMGMSP-SS--GVDILDVQRCSSASLLARFELFQKQLEITNKCRGDANVRYAWLATSKG 173 (450)
Q Consensus 98 -~~~i~L~~~s~EY~~V~~~F~~g~~~-~~--~~~I~kIeRIqN~~l~aryq~fKk~m~~~~k~~G~~Ner~LFHGTs~~ 173 (450)
+.+.+|+++++||+.|++++..|.++ |. +++|+.|+||++....+||+.+++ ..|.++|||||+..
T Consensus 427 ~c~i~pLd~~S~efk~I~~Yl~nT~~~th~~y~l~V~~If~V~R~~E~~rF~~~~~----------~~Nr~LLWHGSr~~ 496 (643)
T PLN03124 427 NCELEPLDTDSEEFSMIAKYLENTHGQTHSGYTLEIVQIFKVSREGEDERFQKFSS----------TKNRMLLWHGSRLT 496 (643)
T ss_pred CCeeEEcCCCCHHHHHHHHHHHhcCCCccCcCceeEEEEEEeccccchhhHHHhhc----------cCCeEEEEcCCCcc
Confidence 35678999999999999999998764 22 388999999999999999976531 25999999999999
Q ss_pred hHHHHhhccCCC--CCCCCCCCcccceeEeccCCCCCccCCccccCC-CCcEEEEEEeeccCCcccc-CCCCCCCCCCCC
Q 013071 174 ALSTMIMYGLGH--CGASTTKSTYGIGVHLAAASCPDTSASYTDVDE-NGVRHMVLCRVIMGNMEPL-FPGTKQFHPSSE 249 (450)
Q Consensus 174 ~i~~I~~~GFd~--~~a~~~g~~yG~GIYFAp~n~s~kS~~Y~~~d~-~G~r~MfLcRVllGk~~~v-~p~sk~~~ps~~ 249 (450)
++.+|+++||.+ +.++.+|.|||+||||| +.+.+|++||.+.. ++.++||||+|++|++... .+...-.. ...
T Consensus 497 N~~gILs~GLriaPpea~~~GymfGkGIYFA--d~~skSa~Yc~~~~~~~~g~llLceVaLG~~~el~~~~y~a~~-~p~ 573 (643)
T PLN03124 497 NWTGILSQGLRIAPPEAPSTGYMFGKGVYFA--DMFSKSANYCYASAANPDGVLLLCEVALGDMNELLQADYNANK-LPP 573 (643)
T ss_pred cHHHHHhccCccCCcccccccccccceeEec--chhhhhhhhhhccCCCCeeEEEEEEEecCCcchhccCcccccc-CCC
Confidence 999999999985 45667899999999999 55668999998754 5579999999999997422 11100000 012
Q ss_pred CCCccc----------------c----------------CCCCCcEEEEEeCCCCccccceeEEEEEec
Q 013071 250 DFDSGV----------------D----------------DLQNPRHYIVWNMNMNTHIFPEFVVSFKFS 286 (450)
Q Consensus 250 ~YDSvV----------------d----------------~~~nP~~yVVy~~~mNtqiyPeYLItyk~~ 286 (450)
+|||+. | .....++||||+.. ||...|||..+..
T Consensus 574 G~~S~kG~G~~~Pdp~~~~~~~dGV~VP~Gk~~~~~~~~~~L~yNEYIVYd~~---Qvr~rYLv~vkf~ 639 (643)
T PLN03124 574 GKLSTKGVGRTVPDPSEAKTLEDGVVVPLGKPVESPYSKGSLEYNEYIVYNVD---QIRMRYVLQVKFN 639 (643)
T ss_pred CceeEEeccCCCCCcccceecCCCeEeeCCccccCCCCCCccccCceEEechh---HeEEEEEEEEEEe
Confidence 333321 0 01124799999998 9999999988864
No 7
>PLN03123 poly [ADP-ribose] polymerase; Provisional
Probab=99.88 E-value=1.5e-22 Score=228.25 Aligned_cols=174 Identities=20% Similarity=0.283 Sum_probs=134.3
Q ss_pred eEEEEcCCCChhHHHHHHHHHccCCC-CC--CCcEEEEEEecCHhHHHHHHHHHHHHHHHhhcCCCCceEEEeecCChhh
Q 013071 98 VNKSVVVDDKLDSDSVRSMFLMGMSP-SS--GVDILDVQRCSSASLLARFELFQKQLEITNKCRGDANVRYAWLATSKGA 174 (450)
Q Consensus 98 ~~~i~L~~~s~EY~~V~~~F~~g~~~-~~--~~~I~kIeRIqN~~l~aryq~fKk~m~~~~k~~G~~Ner~LFHGTs~~~ 174 (450)
+.+.+|+++++||+.|++++..|.++ |. +++|+.|+||.+....+||..|+.. ..|.++|||||+..+
T Consensus 767 ~~i~~L~~~s~ey~~I~~Yl~nT~~~th~~y~l~v~~IF~v~r~gE~~rf~~~~~~---------~~Nr~LLwHGSr~~N 837 (981)
T PLN03123 767 CDISPLPHDSEDYKLIEKYLLTTHAPTHTDWSLELEEVFSLEREGEFDKYAPYKEK---------LKNRMLLWHGSRLTN 837 (981)
T ss_pred CeEEECCCCCHHHHHHHHHHHhcCCCccccccceeeEEEEecccccccchhhHhhc---------CCCceEEEcCCCccc
Confidence 35678999999999999999998764 32 3679999999999999999766421 249999999999999
Q ss_pred HHHHhhccCCC--CCCCCCCCcccceeEeccCCCCCccCCccccC-CCCcEEEEEEeeccCCccccCCCCCCCCCCCCCC
Q 013071 175 LSTMIMYGLGH--CGASTTKSTYGIGVHLAAASCPDTSASYTDVD-ENGVRHMVLCRVIMGNMEPLFPGTKQFHPSSEDF 251 (450)
Q Consensus 175 i~~I~~~GFd~--~~a~~~g~~yG~GIYFAp~n~s~kS~~Y~~~d-~~G~r~MfLcRVllGk~~~v~p~sk~~~ps~~~Y 251 (450)
+.+|+++||.+ +.++.+|.|||+||||| |++++|++||.+. .++.++||||+|++|++........ ......+|
T Consensus 838 ~~gILs~GLriaPpeap~tGymfGkGIYFA--D~~SKSanYc~~~~~~~~g~llLceVaLG~~~e~~~~~~-~~~~p~g~ 914 (981)
T PLN03123 838 FVGILSQGLRIAPPEAPATGYMFGKGVYFA--DLVSKSAQYCYTDRKNPVGLMLLSEVALGEIYELKKAKY-MDKPPRGK 914 (981)
T ss_pred HHHHhhccCccCCccccccCccccceeEec--chhhhhhhhhcccCCCCceEEEEEEEecCChhhhccccc-cccCCCCc
Confidence 99999999985 56778899999999999 6677999999876 4678999999999999743211000 00001233
Q ss_pred Cccc--------------------------------cCCCCCcEEEEEeCCCCccccceeEEEEEec
Q 013071 252 DSGV--------------------------------DDLQNPRHYIVWNMNMNTHIFPEFVVSFKFS 286 (450)
Q Consensus 252 DSvV--------------------------------d~~~nP~~yVVy~~~mNtqiyPeYLItyk~~ 286 (450)
||+. +.....++||||+.. |+...|||..+..
T Consensus 915 ~S~~g~G~~~Pd~~~~~~~~dgv~vP~Gk~~~~~~~~~~L~yNEYIVYd~~---Qvr~rYLv~vkf~ 978 (981)
T PLN03123 915 HSTKGLGKTVPQESEFVKWRDDVVVPCGKPVPSKVKASELMYNEYIVYNTA---QVKLQFLLKVRFK 978 (981)
T ss_pred eeeeecCCCCCCcccceecCCceEeeCCCCccCcccCCccccCceEEechh---HEEEEEEEEEEee
Confidence 3331 011134799999998 9999999988764
No 8
>PLN03122 Poly [ADP-ribose] polymerase; Provisional
Probab=99.86 E-value=6.5e-22 Score=219.35 Aligned_cols=173 Identities=17% Similarity=0.224 Sum_probs=131.5
Q ss_pred eEEEEcCCCChhHHHHHHHHHccCCC-C---C--CCcEEEEEEecCHhHHHHHHHHHHHHHHHhhcCCCCceEEEeecCC
Q 013071 98 VNKSVVVDDKLDSDSVRSMFLMGMSP-S---S--GVDILDVQRCSSASLLARFELFQKQLEITNKCRGDANVRYAWLATS 171 (450)
Q Consensus 98 ~~~i~L~~~s~EY~~V~~~F~~g~~~-~---~--~~~I~kIeRIqN~~l~aryq~fKk~m~~~~k~~G~~Ner~LFHGTs 171 (450)
+.+.+|+++++||+.|++++..|.++ | . +++|+.|+||.+... .||..++ ...|.++||||++
T Consensus 591 ~~i~pLd~~S~eyk~I~~Yl~nT~~~th~~~~~y~l~v~~IF~veR~ge-~rf~~~~----------~l~NR~LLWHGSR 659 (815)
T PLN03122 591 CSISPVDKESDDYKMIVKYLEKTYEPVKVGDVSYSVSVENIFAVESSAG-PSLDEIK----------KLPNKVLLWCGTR 659 (815)
T ss_pred ceEEEcCCCCHHHHHHHHHHHhcCCCccccCcccceeEeEEEEeccCcc-ccchhhc----------CCCCceEEeccch
Confidence 35778999999999999999999864 3 1 367999999998763 6876543 1359999999999
Q ss_pred hhhHHHHhhccCCC--CCCCCCCCcccceeEeccCCCCCccCCccccC-CCCcEEEEEEeeccCCc--cccCCC------
Q 013071 172 KGALSTMIMYGLGH--CGASTTKSTYGIGVHLAAASCPDTSASYTDVD-ENGVRHMVLCRVIMGNM--EPLFPG------ 240 (450)
Q Consensus 172 ~~~i~~I~~~GFd~--~~a~~~g~~yG~GIYFAp~n~s~kS~~Y~~~d-~~G~r~MfLcRVllGk~--~~v~p~------ 240 (450)
.+|+.+|+++||.+ +.++.+|+|||+||||| |++++|++||.+. .+....||||+|++|++ ++..++
T Consensus 660 ~tN~~gILsqGLRIAPPEAPvtGYMFGKGIYFA--D~~SKSAnYC~t~~~~~~GlLlLcEVALG~~~~el~~~~~~~~~~ 737 (815)
T PLN03122 660 SSNLLRHLAKGFLPAVCSLPVPGYMFGKAIVCS--DAAAEAARYGFTAVDRPEGFLVLAVASLGDEVLELTKPPEDVKSY 737 (815)
T ss_pred hhhHHHHhhCCCccCCcccCCCCCccCCeeEec--chhhhhhhhhccccCCCcceEEEEHhhcCchHHHhhcCchhhhcc
Confidence 99999999999986 57888999999999999 7778999999865 45678999999999996 322221
Q ss_pred -----------CCCCCCCCC-CC-Ccc-----------c-cCCCCCcEEEEEeCCCCccccceeEEEEEec
Q 013071 241 -----------TKQFHPSSE-DF-DSG-----------V-DDLQNPRHYIVWNMNMNTHIFPEFVVSFKFS 286 (450)
Q Consensus 241 -----------sk~~~ps~~-~Y-DSv-----------V-d~~~nP~~yVVy~~~mNtqiyPeYLItyk~~ 286 (450)
...+.|+.. .. |-| . +.....++||||+.. ||...||+..+..
T Consensus 738 ~~g~~Stkg~G~~~Pdp~~~~~~~dgV~VP~Gk~~~~~~~~~~L~yNEYIVYDva---QvrirYL~~vkf~ 805 (815)
T PLN03122 738 EEKKVGVKGLGRKKTDESEHFKWRDDITVPCGRLIPSEHKDSPLEYNEYAVYDPK---QVSIRFLVGVKYE 805 (815)
T ss_pred CCCCceeeecCCCcCCCccceecCCCeEEeCCCCccCCCCCcccccCceEEEchh---HEEEEEEEEEEee
Confidence 001111110 01 111 1 111245799999998 9999999999884
No 9
>cd01341 ADP_ribosyl ADP_ribosylating enzymes catalyze the transfer of ADP_ribose from NAD+ to substrates. Bacterial toxins are cytoplasmic and catalyze the transfer of a single ADP_ribose unit to eukaryotic elongation factor 2, halting protein synthesis and killing the cell. Poly(ADP-ribose) polymerases (PARPS 1-3, VPARP, tankyrase) catalyze the addition of up to 100 ADP_ribose units from NAD+. PARPs 1 and 2 are localized in the nucleaus, bind DNA, and are activated by DNA damage. VPARP is part of the vault ribonucleoprotein complex. Tankyrases regulates telomere length in part through poy(ADP_ribosylation) of telomere repeat binding factor 1 (TRF1). Poly(ADP-ribose) polymerase catalyses the covalent attachment of ADP-ribose units from NAD+ to itself and to a limited number of other DNA binding proteins, which decreases their affinity for DNA. Poly(ADP-ribose) polymerase is a regulatory component induced by DNA damage. The carboxyl-terminal region is the most highly conserved region o
Probab=99.78 E-value=1.3e-19 Score=162.86 Aligned_cols=110 Identities=20% Similarity=0.296 Sum_probs=88.7
Q ss_pred EEeecCChhhHHHHhhccCCCCCCCC--CCCcccceeEeccCCCCCccCCccccCCC---------------CcEEEEEE
Q 013071 165 YAWLATSKGALSTMIMYGLGHCGAST--TKSTYGIGVHLAAASCPDTSASYTDVDEN---------------GVRHMVLC 227 (450)
Q Consensus 165 ~LFHGTs~~~i~~I~~~GFd~~~a~~--~g~~yG~GIYFAp~n~s~kS~~Y~~~d~~---------------G~r~MfLc 227 (450)
+|||||+..++..|+++||+++.++. ++++||+||||| ++++ +|++||..+.+ +.+.||++
T Consensus 1 ~l~HGs~~~n~~~I~~~Gl~~~~~~~~~~g~~~G~GiYfa-~~~s-~S~~Y~~~~~~~~~~~~~~~~~~~~~~~~~~fl~ 78 (137)
T cd01341 1 FLFHGSPPGNVISILKLGLRPASYGVLLNGGMFGKGIYSA-PNIS-KSNGYSVGCDGQHVFQNGKPKVCGRELCVFGFLT 78 (137)
T ss_pred CccccCCccchHHHhhCCCCCCCccccccccccCceeeec-CChH-HhhhhhcccCCcccccccccccccccccceeEEE
Confidence 48999999999999999999987654 589999999999 5665 69999987765 34568888
Q ss_pred eeccCCccc-----cCCCCCCCCCCCCCCCccc----cCCCCCcEEEEEeC-CCCcccccee
Q 013071 228 RVIMGNMEP-----LFPGTKQFHPSSEDFDSGV----DDLQNPRHYIVWNM-NMNTHIFPEF 279 (450)
Q Consensus 228 RVllGk~~~-----v~p~sk~~~ps~~~YDSvV----d~~~nP~~yVVy~~-~mNtqiyPeY 279 (450)
+|++|.... ..|+.....+..+.||+++ |+..+|.+||||+. + |+||||
T Consensus 79 ~~~v~~~~~~~~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~e~VV~~~~~---Qv~~~Y 137 (137)
T cd01341 79 LGVMSGATEESSRVLFPRNFRGATGAEVVDLLVAMCRDALLLPREYIIFEPYS---QVSIRY 137 (137)
T ss_pred EEEeccccccccccccccccCCCCCCeEEEcccccccchhhCCCeEEEecchh---hceecC
Confidence 887777653 2344444445567899999 58889999999998 7 999998
No 10
>KOG1037 consensus NAD+ ADP-ribosyltransferase Parp, required for poly-ADP ribosylation of nuclear proteins [Transcription; Replication, recombination and repair; Posttranslational modification, protein turnover, chaperones]
Probab=98.70 E-value=3.4e-09 Score=114.48 Aligned_cols=185 Identities=17% Similarity=0.199 Sum_probs=114.2
Q ss_pred ccchhhhccchhhhhcccccccCCCC-CccceeeecccccCCCCccccCCCCC-C-CCC---Cce-eEEEEcCCCChhHH
Q 013071 39 QSKLKECSGESNAFIKQIQIAPKPAS-NKYVVEVEDSCNRKPDAKLDETTGQN-Q-NTK---TSL-VNKSVVVDDKLDSD 111 (450)
Q Consensus 39 ~~kl~~~s~~s~~~~k~~~i~~~~~~-~~~~vev~~s~~~k~~~~~~e~i~~W-~-~~~---~~~-~~~i~L~~~s~EY~ 111 (450)
.+.|.+-+.++..+++|..+-..|.+ .+--++.-..........-.+....| + +.+ .++ .....++.++.||.
T Consensus 243 ~~~l~~~~~~f~~~ip~~~~~~~~~~~~~~~le~~~~i~~a~~~~~~~~~~~~~~~Pl~~~y~~l~c~~~~~~~~~~e~k 322 (531)
T KOG1037|consen 243 GEQLAKASTEFYTLIPHDFGMRKPPNEKQEALEALLDIELAYGLRKGDDVDATCDDPLDKHYKDLKCKIEKLDKDSEEFK 322 (531)
T ss_pred HHHHHHHhhhhhhhcCCCCCcCCCchhhHHHHHHhhhhhhhhhhhhccccccCCCChhhhHHHhhhhhhccccccchhHH
Confidence 44588999999999999975554322 00111111111110001112233445 3 222 122 23335666779999
Q ss_pred HHHHHHHccCCCCCCCcEEEEEEecCH---hHHHHHHHHHHHHHHHhhcCCCCceEEEeecCChhhHHHHhhccCCCC--
Q 013071 112 SVRSMFLMGMSPSSGVDILDVQRCSSA---SLLARFELFQKQLEITNKCRGDANVRYAWLATSKGALSTMIMYGLGHC-- 186 (450)
Q Consensus 112 ~V~~~F~~g~~~~~~~~I~kIeRIqN~---~l~aryq~fKk~m~~~~k~~G~~Ner~LFHGTs~~~i~~I~~~GFd~~-- 186 (450)
.+.+....+-........+.+..+.+. ....++. ......|.+.+|||+...++..|+..|+...
T Consensus 323 mi~~~~~~~~~~~~~~~~~~~~~l~k~~~~~e~~~~~----------~~~~~~~r~llw~gs~~~n~a~~l~~g~~~~~~ 392 (531)
T KOG1037|consen 323 MIAQYVEKTHAKTSTVKVVQIADLKKVNEKNEADRKV----------DISELINRQLLWHGSRFGNLAGILSPGLRLAPS 392 (531)
T ss_pred HHHHHHHhhccccCccCceeehhHHHhhhcccccccc----------cCcccccccchhcccceeeeeccccCCceecCC
Confidence 999999886543222222223322221 1111110 1122468999999999999999999999763
Q ss_pred CCCCCCCcccceeEeccCCCCCccCCccccC-CCCcEEEEEEeeccCCcc
Q 013071 187 GASTTKSTYGIGVHLAAASCPDTSASYTDVD-ENGVRHMVLCRVIMGNME 235 (450)
Q Consensus 187 ~a~~~g~~yG~GIYFAp~n~s~kS~~Y~~~d-~~G~r~MfLcRVllGk~~ 235 (450)
..+..|+|||+||||| +++.+|++||.+. ....++|++|.|++|+..
T Consensus 393 ~~~~~g~~~gkgiyfa--~~~sks~~y~~~~~~k~~~~ll~~~~alg~~~ 440 (531)
T KOG1037|consen 393 EAPVTGYMFGKGIYFA--DAASKSANYCVTMKGKPTGHLLLCDVALGKEQ 440 (531)
T ss_pred CCCceeeccccceEee--eecccccccccccccCchhhhhhhhhhccchh
Confidence 4456799999999999 5667899999866 567889999999999974
No 11
>PF12509 DUF3715: Protein of unknown function (DUF3715); InterPro: IPR022188 This domain family is found in eukaryotes, and is approximately 170 amino acids in length.
Probab=89.03 E-value=1 Score=42.11 Aligned_cols=118 Identities=14% Similarity=0.263 Sum_probs=73.8
Q ss_pred ecCHhHHHHHHHHHHHHHHHhhcCCCCceEEEeecCCh-hhHHHHhhccCCCCCCCCCCCcccc---eeEeccCCCCCcc
Q 013071 135 CSSASLLARFELFQKQLEITNKCRGDANVRYAWLATSK-GALSTMIMYGLGHCGASTTKSTYGI---GVHLAAASCPDTS 210 (450)
Q Consensus 135 IqN~~l~aryq~fKk~m~~~~k~~G~~Ner~LFHGTs~-~~i~~I~~~GFd~~~a~~~g~~yG~---GIYFAp~n~s~kS 210 (450)
|.|..|...|..++..+.........--+.+.|.-... ..+..||..|+..+.. .....|+ |+|+. . .+...
T Consensus 1 i~n~~Ls~efse~~~~~~~~~~~~~eL~e~~~fl~~~~~~~~~~v~~~GL~v~~~--k~~~Lg~ps~gv~~~-~-~~D~~ 76 (165)
T PF12509_consen 1 IHNEALSKEFSEKRSSMKREGRSSSELPENYCFLSKESRSQVTSVCQRGLKVGNQ--KGTILGKPSMGVYLS-R-HSDLL 76 (165)
T ss_pred CCCHHHHHHHhhhhhhhhhcCCChhhhhhhheeeecccchhhHHHHhcccccccc--cccccCCCCCCcccc-c-CCchh
Confidence 56788899998888887642222222335556654544 6778889999987522 3556777 89998 2 22222
Q ss_pred CCccccCCCCcEEEEEEeeccCCccccCCCC---CCCCCCCCCCCcccc
Q 013071 211 ASYTDVDENGVRHMVLCRVIMGNMEPLFPGT---KQFHPSSEDFDSGVD 256 (450)
Q Consensus 211 ~~Y~~~d~~G~r~MfLcRVllGk~~~v~p~s---k~~~ps~~~YDSvVd 256 (450)
..+..........+++.+|+-|++..+.+.. +..-++...||+.+.
T Consensus 77 ~~~~~~~~~~~~~ii~~kv~~~k~k~i~~~~~~~~~~~~p~p~~d~h~~ 125 (165)
T PF12509_consen 77 ESQPFICSSANGEIIIFKVLKGKVKKISDSNGSTQSFLDPTPSYDCHVS 125 (165)
T ss_pred hcchhhhcCCCCceeEEeeccCcccccccccccccccCCCcccHHHHhh
Confidence 2222211223457889999999998776654 334455668998874
No 12
>PF12767 SAGA-Tad1: Transcriptional regulator of RNA polII, SAGA, subunit; InterPro: IPR024738 The yeast Spt-Ada-Gcn5-Acetyl (SAGA) transferase complex is a multifunctional coactivator involved in multiple cellular processes [], including regulation of transcription by RNA polymerase II [, ]. It is formed of five major modular subunits and shows a high degree of structural conservation to human TFTC and STAGA []. This entry represents Ada1 (known as Tada1 in higher eukaryotes), one of the subunits that constitute the SAGA core. It also functions as a component of the SALSA and SLIK complexes. ; GO: 0070461 SAGA-type complex
Probab=88.80 E-value=2 Score=42.60 Aligned_cols=66 Identities=20% Similarity=0.384 Sum_probs=59.2
Q ss_pred ccHHHHHHHHhccCChhHHHHHHHHHHHHHhcCCChHHHHHHHHHHhh-h------HHHHHHHHHhhccCCCc
Q 013071 357 MPFPMLFASISNKVSPKVMEQISNQYELFRAKKVNRDDFVKKLRLIVG-D------DLLRSTITALQCKIPSK 422 (450)
Q Consensus 357 ~~F~~L~~~l~~~l~~~~~~~i~~~y~~~k~~kI~r~~~v~~~R~IvG-D------~lL~~~i~~~q~k~~~~ 422 (450)
+-...|-..|.+.|++++...-..+...|=.+||||+||-+.++.+.| | ++|++++.+.+.+.|+.
T Consensus 9 idl~~lk~~l~~~LG~~~~~~Y~~~l~~fl~~klsk~Efd~~~~~~L~~~~~~LHN~li~sIl~na~~~~p~~ 81 (252)
T PF12767_consen 9 IDLEELKSQLQKRLGPDRWKKYFQSLKRFLSGKLSKEEFDKECRRILGRENVHLHNQLILSILKNALAKSPPP 81 (252)
T ss_pred cCHHHHHHHHHHHHChHHHHHHHHHHHHHHHhccCHHHHHHHHHHHhChhHHHHHHHHHHHHHHHHhhcCCCc
Confidence 677789999999999999999999999999999999999999999999 5 47899999997776653
No 13
>KOG0034 consensus Ca2+/calmodulin-dependent protein phosphatase (calcineurin subunit B), EF-Hand superfamily protein [Signal transduction mechanisms]
Probab=85.36 E-value=1.6 Score=41.76 Aligned_cols=60 Identities=23% Similarity=0.371 Sum_probs=45.8
Q ss_pred ccHHH---HHHHHhccCChh-HHHHHHHHHHHHHhcCCChHHHHHHHHHHhh------hHHHHHHHHHhh
Q 013071 357 MPFPM---LFASISNKVSPK-VMEQISNQYELFRAKKVNRDDFVKKLRLIVG------DDLLRSTITALQ 416 (450)
Q Consensus 357 ~~F~~---L~~~l~~~l~~~-~~~~i~~~y~~~k~~kI~r~~~v~~~R~IvG------D~lL~~~i~~~q 416 (450)
+.|.. ++++.++.-++. ++....+.|+.=+.|.|+|+||.+.|+..+| |.++..++-..=
T Consensus 84 v~F~~Fv~~ls~f~~~~~~~~Kl~faF~vYD~~~~G~I~reel~~iv~~~~~~~~~~~~e~~~~i~d~t~ 153 (187)
T KOG0034|consen 84 VDFEEFVRLLSVFSPKASKREKLRFAFRVYDLDGDGFISREELKQILRMMVGENDDMSDEQLEDIVDKTF 153 (187)
T ss_pred cCHHHHHHHHhhhcCCccHHHHHHHHHHHhcCCCCCcCcHHHHHHHHHHHHccCCcchHHHHHHHHHHHH
Confidence 55554 555555555555 8999999999999999999999999999999 455555554443
No 14
>PF13833 EF-hand_8: EF-hand domain pair; PDB: 3KF9_A 1TTX_A 1WLZ_A 1ALV_A 1NX3_A 1ALW_A 1NX2_A 1NX1_A 1NX0_A 1DF0_A ....
Probab=64.21 E-value=7.1 Score=28.64 Aligned_cols=45 Identities=11% Similarity=0.242 Sum_probs=37.6
Q ss_pred ccHHHHHHHHhc---c-CChhHHHHHHHHHHHHHhcCCChHHHHHHHHH
Q 013071 357 MPFPMLFASISN---K-VSPKVMEQISNQYELFRAKKVNRDDFVKKLRL 401 (450)
Q Consensus 357 ~~F~~L~~~l~~---~-l~~~~~~~i~~~y~~~k~~kI~r~~~v~~~R~ 401 (450)
|++..|..+|++ . +++.+...|...++.=+.|+|+-+||+..|+.
T Consensus 5 i~~~~~~~~l~~~g~~~~s~~e~~~l~~~~D~~~~G~I~~~EF~~~~~~ 53 (54)
T PF13833_consen 5 ITREEFRRALSKLGIKDLSEEEVDRLFREFDTDGDGYISFDEFISMMQR 53 (54)
T ss_dssp EEHHHHHHHHHHTTSSSSCHHHHHHHHHHHTTSSSSSEEHHHHHHHHHH
T ss_pred ECHHHHHHHHHHhCCCCCCHHHHHHHHHhcccCCCCCCCHHHHHHHHHh
Confidence 566667777754 3 88999999999999999999999999998864
No 15
>PRK00819 RNA 2'-phosphotransferase; Reviewed
Probab=64.15 E-value=7.2 Score=37.11 Aligned_cols=33 Identities=24% Similarity=0.257 Sum_probs=26.6
Q ss_pred eEEEeecCChhhHHHHhhccCCCCCCCCCCCcccceeEecc
Q 013071 163 VRYAWLATSKGALSTMIMYGLGHCGASTTKSTYGIGVHLAA 203 (450)
Q Consensus 163 er~LFHGTs~~~i~~I~~~GFd~~~a~~~g~~yG~GIYFAp 203 (450)
...|||||...++..|.+.|+...... =|+||+
T Consensus 94 P~~lyHGT~~~~~~~I~~~GL~pm~R~--------hVHLs~ 126 (179)
T PRK00819 94 PAVLYHGTSSEELDSILEEGLKPMKRH--------YVHLST 126 (179)
T ss_pred CceeEeCCCHHHHHHHHHhCCCccCCC--------eEEecC
Confidence 458999999999999999998765322 388884
No 16
>PF02671 PAH: Paired amphipathic helix repeat; InterPro: IPR003822 This family contains the paired amphipathic helix (PAH) repeat. The family contains the eukaryotic Sin3 proteins, which have at least three PAH domains (PAH1, PAH2, and PAH3). Sin3 proteins are components of a co-repressor complex that silences transcription, playing important roles in the transition between proliferation and differentiation. Sin3 proteins are recruited to the DNA by various DNA-binding transcription factors such as the Mad family of repressors, Mnt/Rox, PLZF, MeCP2, p53, REST/NRSF, MNFbeta, Sp1, TGIF and Ume6 []. Sin3 acts as a scaffold protein that in turn recruits histone-binding proteins RbAp46/RbAp48 and histone deacetylases HDAC1/HDAC2, which deacetylate the core histones resulting in a repressed state of the chromatin []. The PAH domains are protein-protein interaction domains through which Sin3 fulfils its role as a scaffold. The PAH2 domain of Sin3 can interact with a wide range of unrelated and structurally diverse transcription factors that bind using different interaction motifs. For example, the Sin3 PAH2 domain can interact with the unrelated Mad and HBP1 factors using alternative interaction motifs that involve binding in opposite helical orientations [].; GO: 0006355 regulation of transcription, DNA-dependent, 0005634 nucleus; PDB: 1S5Q_B 2L9S_B 1G1E_B 1S5R_B 2CR7_A 2CZY_A 2LD7_B 2RMR_A 2RMS_A 1PD7_A ....
Probab=63.40 E-value=16 Score=26.58 Aligned_cols=33 Identities=6% Similarity=0.312 Sum_probs=28.0
Q ss_pred hHHHHHHHHHHHHHhcCCChHHHHHHHHHHhhh
Q 013071 373 KVMEQISNQYELFRAKKVNRDDFVKKLRLIVGD 405 (450)
Q Consensus 373 ~~~~~i~~~y~~~k~~kI~r~~~v~~~R~IvGD 405 (450)
..-+...+....|++++|++.++++.+..+.+|
T Consensus 2 ~~Y~~FL~il~~y~~~~~~~~~v~~~v~~Ll~~ 34 (47)
T PF02671_consen 2 EVYNEFLKILNDYKKGRISRSEVIEEVSELLRG 34 (47)
T ss_dssp HHHHHHHHHHHHHHCTCSCHHHHHHHHHHHTTT
T ss_pred hHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHcc
Confidence 445566778889999999999999999999973
No 17
>KOG4177 consensus Ankyrin [Cell wall/membrane/envelope biogenesis]
Probab=59.00 E-value=2.6 Score=50.16 Aligned_cols=102 Identities=4% Similarity=-0.160 Sum_probs=66.8
Q ss_pred CcEEEEEEecCHhHHHHHHHHHHHHHHHhhcCCCCceEEEeecCChhhHHHHhhccCCCCCCCCCCCcccceeEeccCCC
Q 013071 127 VDILDVQRCSSASLLARFELFQKQLEITNKCRGDANVRYAWLATSKGALSTMIMYGLGHCGASTTKSTYGIGVHLAAASC 206 (450)
Q Consensus 127 ~~I~kIeRIqN~~l~aryq~fKk~m~~~~k~~G~~Ner~LFHGTs~~~i~~I~~~GFd~~~a~~~g~~yG~GIYFAp~n~ 206 (450)
..+.++.++.+...|+++..-.+........ --+++.+||+.. ++..+.-.+|+.+-.. .++++|.|+||+ .++
T Consensus 998 ~~~~r~~~~~~~~~~e~~~~~~~~~~e~~~~--~~~~~~~f~~~~--~~~~~~~~~~~~~~~~-~~~~~~~~~~f~-~~~ 1071 (1143)
T KOG4177|consen 998 NVSARFWLVDCRKTREAVTHATQLYNELIFV--YMAKFVVFAKSN--FPNEGRLRCFCMTDDK-VDKTLEQQEYFA-EVA 1071 (1143)
T ss_pred hhhhHhhhhhcchhhhhhhHHHHHHHHHHHH--HHHHHhhhccCC--cchhhccccccccCCc-cCcchhhHHHHH-Hhh
Confidence 4555667788888888774333222211111 247888999987 4566777889887543 478999999999 665
Q ss_pred CCccCCccc--------cCC------CCcEEEEEEeeccCCcc
Q 013071 207 PDTSASYTD--------VDE------NGVRHMVLCRVIMGNME 235 (450)
Q Consensus 207 s~kS~~Y~~--------~d~------~G~r~MfLcRVllGk~~ 235 (450)
+ +++.|-. +.. ...+++.+|+|-+++.-
T Consensus 1072 ~-~~d~~v~~~~~~~~~~~~n~~p~~~~~~ql~~~~~~~~~~~ 1113 (1143)
T KOG4177|consen 1072 R-SRDIEVLGGKGGFAEPSGNDVPLTKAGQQLSFCFVPFLENR 1113 (1143)
T ss_pred h-hhhhhhhccccceecccCccccceeccceeEEeeehhhhhh
Confidence 4 4665531 111 22478999999999863
No 18
>PF15633 Tox-ART-HYD1: HYD1 signature containing ADP-ribosyltransferase
Probab=56.10 E-value=8.1 Score=33.30 Aligned_cols=41 Identities=15% Similarity=0.254 Sum_probs=30.9
Q ss_pred EeecCChhhHHHHhhccCCC-CCCCCCCCcccceeEeccCCCCC
Q 013071 166 AWLATSKGALSTMIMYGLGH-CGASTTKSTYGIGVHLAAASCPD 208 (450)
Q Consensus 166 LFHGTs~~~i~~I~~~GFd~-~~a~~~g~~yG~GIYFAp~n~s~ 208 (450)
+||=|+.....+|++.|=-. ...++.. .||.|.||| .-++-
T Consensus 1 lyHYTs~~G~n~I~~s~~i~~~a~~p~~-~~~~g~y~t-~~apg 42 (96)
T PF15633_consen 1 LYHYTSEKGYNGILESGIIKLKANNPKD-RFGQGQYFT-DIAPG 42 (96)
T ss_pred CccccchhhhHHhhccceEEeccCCccc-cCCCceEEE-ecCCC
Confidence 58999999999999888543 3344445 999999999 34443
No 19
>PF08349 DUF1722: Protein of unknown function (DUF1722); InterPro: IPR013560 This domain of unknown function is found in bacteria and archaea and is homologous to the hypothetical protein ybgA from Escherichia coli.
Probab=48.94 E-value=43 Score=29.29 Aligned_cols=48 Identities=15% Similarity=0.181 Sum_probs=42.5
Q ss_pred ccHHHHHHHHhccCChhHHHHHHHHHHHHHhcCCChHHHHHHHHHHhh
Q 013071 357 MPFPMLFASISNKVSPKVMEQISNQYELFRAKKVNRDDFVKKLRLIVG 404 (450)
Q Consensus 357 ~~F~~L~~~l~~~l~~~~~~~i~~~y~~~k~~kI~r~~~v~~~R~IvG 404 (450)
-.+--++--+++.+++++.+.+...-++|++|+|+....+..+|..+-
T Consensus 53 Nvl~Hi~Gyfk~~ls~~EK~~~~~~i~~yr~g~i~l~~~l~~L~~~~~ 100 (117)
T PF08349_consen 53 NVLQHIFGYFKKKLSSEEKQHFLDLIEDYREGKIPLSVPLTLLKHLAR 100 (117)
T ss_pred HHHHHHHHHHHHhCCHHHHHHHHHHHHHHHcCCccHHHHHHHHHHHHH
Confidence 345556778899999999999999999999999999999999998874
No 20
>PF09851 SHOCT: Short C-terminal domain; InterPro: IPR018649 This family of hypothetical prokaryotic proteins has no known function.
Probab=44.34 E-value=51 Score=22.34 Aligned_cols=29 Identities=10% Similarity=0.394 Sum_probs=23.9
Q ss_pred HHHHHHHHHHHhcCCChHHHHHHHHHHhh
Q 013071 376 EQISNQYELFRAKKVNRDDFVKKLRLIVG 404 (450)
Q Consensus 376 ~~i~~~y~~~k~~kI~r~~~v~~~R~IvG 404 (450)
+.|.+.-+.+.+|-||.+||-++-+.|.+
T Consensus 3 ~~L~~L~~l~~~G~IseeEy~~~k~~ll~ 31 (31)
T PF09851_consen 3 DRLEKLKELYDKGEISEEEYEQKKARLLS 31 (31)
T ss_pred HHHHHHHHHHHcCCCCHHHHHHHHHHHhC
Confidence 45677777888999999999999888753
No 21
>cd01436 Dipth_tox_like Mono-ADP-ribosylating toxins catalyze the transfer of ADP_ribose from NAD+ to eukaryotic Elongation Factor 2, halting protein synthesis. A single molecule of delivered toxin is sufficient to kill a cell. These toxins share mono-ADP-ribosylating activity with a variety of bacterial toxins, such as cholera toxin and pertussis toxin. The structural core is homologous to the poly-ADP ribosylating enzymes such as the PARP enzymes and Tankyrase. Diphtheria toxin is encoded by a lysogenic bacteriophage. Both diphtheria toxin and Pseudomonas aeruginosa exotoxin A are multi-domain proteins. These domains provide a EF2 ADP_ribosylating, receptor-binding, and intracellular trafficking/transmembrane functions .
Probab=43.97 E-value=24 Score=31.81 Aligned_cols=50 Identities=18% Similarity=0.270 Sum_probs=35.1
Q ss_pred EeecCChhhHHHHhhccCCCCCCCCC---CCcccceeEeccCCCCCccCCccccCCC
Q 013071 166 AWLATSKGALSTMIMYGLGHCGASTT---KSTYGIGVHLAAASCPDTSASYTDVDEN 219 (450)
Q Consensus 166 LFHGTs~~~i~~I~~~GFd~~~a~~~---g~~yG~GIYFAp~n~s~kS~~Y~~~d~~ 219 (450)
.||||....+++|.. |...+..+.+ .-.| +|.|-| +.++.++.|+.-+++
T Consensus 2 ~YHGT~~~~~~sI~~-gI~~~~~g~~~~~d~~W-~GfY~a--~~~~~A~GYa~d~E~ 54 (147)
T cd01436 2 SYHGTKPGYVDSIQK-GIQKPKSGTQGNYDDDW-KGFYST--DNKYDAAGYSVDNEN 54 (147)
T ss_pred CccccchHHHHHHHh-hccCCCCCCCcchhhhh-cceeec--CCHhhhcceeeccCC
Confidence 489999999999987 7766544322 1222 499999 446789999965443
No 22
>PF01885 PTS_2-RNA: RNA 2'-phosphotransferase, Tpt1 / KptA family; InterPro: IPR002745 The final step of tRNA splicing in Saccharomyces cerevisiae (Baker's yeast) requires 2'-phosphotransferase (Tpt1) to transfer the 2'-phosphate from ligated tRNA to NAD, producing mature tRNA and ADP ribose-1' '-2' '-cyclic phosphate. Yeast and Mus musculus (Mouse) Tpt1 protein and bacterial KptA protein can catalyze the conversion of the generated intermediate to both product and the original substrate, these enzymes likely use the same reaction mechanism. Step 1 of this reaction is strikingly similar to the ADP-ribosylation of proteins catalyzed by a number of bacterial toxins. KptA, a functional Tpt1 protein homologue from Escherichia coli is strikingly similar to yeast Tpt1 in its kinetic parameters, although E. coli is not known to have a 2'-phosphorylated RNA substrate [,].; GO: 0016772 transferase activity, transferring phosphorus-containing groups, 0006388 tRNA splicing, via endonucleolytic cleavage and ligation; PDB: 1WFX_A.
Probab=42.32 E-value=19 Score=34.31 Aligned_cols=34 Identities=24% Similarity=0.272 Sum_probs=22.0
Q ss_pred ceEEEeecCChhhHHHHhhccCCCCCCCCCCCcccceeEecc
Q 013071 162 NVRYAWLATSKGALSTMIMYGLGHCGASTTKSTYGIGVHLAA 203 (450)
Q Consensus 162 Ner~LFHGTs~~~i~~I~~~GFd~~~a~~~g~~yG~GIYFAp 203 (450)
....|+|||...+...|+..|+.+.. ..=|+||+
T Consensus 104 ~p~~lyHGT~~~~~~~I~~~GL~~m~--------R~hVHls~ 137 (186)
T PF01885_consen 104 PPPILYHGTYRKAWPSILEEGLKPMG--------RNHVHLST 137 (186)
T ss_dssp --SEEEE--BGGGHHHHHHH-B---S--------SSSEEEES
T ss_pred CCCEEEEccchhhHHHHHHhCCCCCC--------CCEEEEee
Confidence 35799999999999999999976642 33599994
No 23
>PF13151 DUF3990: Protein of unknown function (DUF3990)
Probab=39.06 E-value=14 Score=34.23 Aligned_cols=32 Identities=13% Similarity=0.133 Sum_probs=0.0
Q ss_pred EEEeecCChhhHHHHhhccCCCCCCCCCCCcccceeEec
Q 013071 164 RYAWLATSKGALSTMIMYGLGHCGASTTKSTYGIGVHLA 202 (450)
Q Consensus 164 r~LFHGTs~~~i~~I~~~GFd~~~a~~~g~~yG~GIYFA 202 (450)
+.|||||....-.-.+..|=... -||+|.|++
T Consensus 1 M~LYHGS~~~i~~pd~~~~r~~~-------DFG~GFY~T 32 (154)
T PF13151_consen 1 MILYHGSNQIIEKPDLSKGRPNL-------DFGKGFYLT 32 (154)
T ss_pred CEeecCCCccccCceeccCcccC-------ccCceeEcc
No 24
>cd05031 S-100A10_like S-100A10_like: S-100A10 domain found in proteins similar to S100A10. S100A10 is a member of the S100 family of EF-hand superfamily of calcium-binding proteins. Note that the S-100 hierarchy, to which this S-100A1_like group belongs, contains only S-100 EF-hand domains, other EF-hands have been modeled separately. S100 proteins are expressed exclusively in vertebrates, and are implicated in intracellular and extracellular regulatory activities. A unique feature of S100A10 is that it contains mutation in both of the calcium binding sites, making it calcium insensitive. S100A10 has been detected in brain, heart, gastrointestinal tract, kidney, liver, lung, spleen, testes, epidermis, aorta, and thymus. Structural data supports the homo- and hetero-dimeric as well as hetero-tetrameric nature of the protein. S100A10 has multiple binding partners in its calcium free state and is therefore involved in many diverse biological functions.
Probab=38.85 E-value=76 Score=26.16 Aligned_cols=31 Identities=13% Similarity=0.321 Sum_probs=23.9
Q ss_pred HHHHHHHHHHHH-----hcCCChHHHHHHHHHHhhh
Q 013071 375 MEQISNQYELFR-----AKKVNRDDFVKKLRLIVGD 405 (450)
Q Consensus 375 ~~~i~~~y~~~k-----~~kI~r~~~v~~~R~IvGD 405 (450)
+..|...|..|- .|+|+++||.+.||...|+
T Consensus 7 ~~~l~~~F~~~D~~dg~dG~Is~~El~~~l~~~~g~ 42 (94)
T cd05031 7 MESLILTFHRYAGKDGDKNTLSRKELKKLMEKELSE 42 (94)
T ss_pred HHHHHHHHHHHhccCCCCCeECHHHHHHHHHHHhHH
Confidence 566777777772 3689999999999986554
No 25
>PTZ00184 calmodulin; Provisional
Probab=36.17 E-value=54 Score=28.06 Aligned_cols=60 Identities=8% Similarity=0.189 Sum_probs=41.2
Q ss_pred CccHHHHHHHHhccCC----hhHHHHHHHHHHHHHhcCCChHHHHHHHHHH---hhhHHHHHHHHHh
Q 013071 356 WMPFPMLFASISNKVS----PKVMEQISNQYELFRAKKVNRDDFVKKLRLI---VGDDLLRSTITAL 415 (450)
Q Consensus 356 ~~~F~~L~~~l~~~l~----~~~~~~i~~~y~~~k~~kI~r~~~v~~~R~I---vGD~lL~~~i~~~ 415 (450)
.+.|..+..++...+. ..++..+.+.|+.-+.+.|++++|.+.++.+ +-+..+..++..+
T Consensus 63 ~i~~~ef~~~l~~~~~~~~~~~~~~~~F~~~D~~~~g~i~~~e~~~~l~~~~~~~~~~~~~~~~~~~ 129 (149)
T PTZ00184 63 TIDFPEFLTLMARKMKDTDSEEEIKEAFKVFDRDGNGFISAAELRHVMTNLGEKLTDEEVDEMIREA 129 (149)
T ss_pred cCcHHHHHHHHHHhccCCcHHHHHHHHHHhhCCCCCCeEeHHHHHHHHHHHCCCCCHHHHHHHHHhc
Confidence 3788888887776543 3456666666666688999999999999885 1255555555443
No 26
>PHA01748 hypothetical protein
Probab=35.52 E-value=88 Score=24.42 Aligned_cols=51 Identities=20% Similarity=0.320 Sum_probs=39.8
Q ss_pred HhccCChhHHHHHHHHHHHHHhcCCChHHHHHHH-HHHhhhHHHHHHHHHhhccC
Q 013071 366 ISNKVSPKVMEQISNQYELFRAKKVNRDDFVKKL-RLIVGDDLLRSTITALQCKI 419 (450)
Q Consensus 366 l~~~l~~~~~~~i~~~y~~~k~~kI~r~~~v~~~-R~IvGD~lL~~~i~~~q~k~ 419 (450)
++=.||++-++.|..+.++. .++|.++|+.. |..+.+.+...++..++...
T Consensus 5 iSvrLp~el~~eld~~a~~~---g~~RSE~Ir~Ai~~~~~~~~~~~~~~~~~~~~ 56 (60)
T PHA01748 5 ITFKIEEDLLELLDRYAIKH---GLNRSEAIRKAIEKMVKDELKKETVPVAKVEK 56 (60)
T ss_pred EEEECCHHHHHHHHHHHHHh---CCCHHHHHHHHHHHHHHHHHHhcccchhhhhh
Confidence 34457887777777766654 47999999875 99999999999999887653
No 27
>PF09454 Vps23_core: Vps23 core domain; InterPro: IPR017916 The Endosomal Sorting Complex Required for Transport (ESCRT) complexes form the machinery driving protein sorting from endosomes to lysosomes. ESCRT complexes are central to receptor down-regulation, lysosome biogenesis, and budding of HIV. Yeast ESCRT-I consists of three protein subunits, VPS23, VPS28, and VPS37. In humans, ESCRT-I comprises TSG101, VPS28, and one of four potential human VPS37 homologues. The main role of ESCRT-I is to recognise ubiquitinated cargo via the UEV domain of the VPS23/TSG101 subunit. The assembly of the ESCRT-I complex is directed by the C-terminal steadiness box (SB) of VPS23, the N-terminal half of VPS28, and the C-terminal half of VPS37. The structure is primarily composed of three long, parallel helical hairpins, each corresponding to a different subunit. The additional domains and motifs extending beyond the core serve as gripping tools for ESCRT-I critical functions [, ]. This entry represents the Steadiness box domain.; PDB: 2CAZ_A 2F66_D 2F6M_A 2P22_A.
Probab=35.00 E-value=1.4e+02 Score=23.85 Aligned_cols=37 Identities=16% Similarity=0.390 Sum_probs=29.9
Q ss_pred HHHHHHHHHHHhcCCChHHHHHHHHHHhhhHHHHHHH
Q 013071 376 EQISNQYELFRAKKVNRDDFVKKLRLIVGDDLLRSTI 412 (450)
Q Consensus 376 ~~i~~~y~~~k~~kI~r~~~v~~~R~IvGD~lL~~~i 412 (450)
+-|...-+-|++++|+=+.|+|.+|...-++-+.-+.
T Consensus 26 Dtiy~L~~al~~g~I~~d~~lK~vR~LaReQF~~Ral 62 (65)
T PF09454_consen 26 DTIYYLDRALQRGSIDLDTFLKQVRSLAREQFLKRAL 62 (65)
T ss_dssp HHHHHHHHHHHTTSS-HHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHHHHHH
Confidence 4556666778999999999999999999988877654
No 28
>smart00027 EH Eps15 homology domain. Pair of EF hand motifs that recognise proteins containing Asn-Pro-Phe (NPF) sequences.
Probab=34.96 E-value=60 Score=26.87 Aligned_cols=66 Identities=14% Similarity=0.193 Sum_probs=41.8
Q ss_pred ccHHHHHHHHhcc-CChhHHHHHHHHHHHHHhcCCChHHHHHHHHHHhhhHHHHHHHHHhhccCCCccccccccc
Q 013071 357 MPFPMLFASISNK-VSPKVMEQISNQYELFRAKKVNRDDFVKKLRLIVGDDLLRSTITALQCKIPSKREVGEVKP 430 (450)
Q Consensus 357 ~~F~~L~~~l~~~-l~~~~~~~i~~~y~~~k~~kI~r~~~v~~~R~IvGD~lL~~~i~~~q~k~~~~~~~~~~~~ 430 (450)
+++..|-.+++.. ++.+++..|.+.++.=..+.|+.+||+..++.+. -...-.++|.+..+.|.-+
T Consensus 27 Is~~el~~~l~~~~~~~~ev~~i~~~~d~~~~g~I~~~eF~~~~~~~~--------~~~~g~~~~~~~~~~~~~~ 93 (96)
T smart00027 27 VTGAQAKPILLKSGLPQTLLAKIWNLADIDNDGELDKDEFALAMHLIY--------RKLNGYPIPASLPPSLIPP 93 (96)
T ss_pred EeHHHHHHHHHHcCCCHHHHHHHHHHhcCCCCCCcCHHHHHHHHHHHH--------HHHcCCCCCccCCHhhcCC
Confidence 6677676666543 5556666666666655678999999988776542 1112455667776666543
No 29
>cd00213 S-100 S-100: S-100 domain, which represents the largest family within the superfamily of proteins carrying the Ca-binding EF-hand motif. Note that this S-100 hierarchy contains only S-100 EF-hand domains, other EF-hands have been modeled separately. S100 proteins are expressed exclusively in vertebrates, and are implicated in intracellular and extracellular regulatory activities. Intracellularly, S100 proteins act as Ca-signaling or Ca-buffering proteins. The most unusual characteristic of certain S100 proteins is their occurrence in extracellular space, where they act in a cytokine-like manner through RAGE, the receptor for advanced glycation products. Structural data suggest that many S100 members exist within cells as homo- or heterodimers and even oligomers; oligomerization contributes to their functional diversification. Upon binding calcium, most S100 proteins change conformation to a more open structure exposing a hydrophobic cleft. This hydrophobic surface represents th
Probab=34.94 E-value=1.4e+02 Score=24.03 Aligned_cols=43 Identities=12% Similarity=0.299 Sum_probs=29.9
Q ss_pred hHHHHHHHHHHHHHh-----cCCChHHHHHHHHHHhh--------hHHHHHHHHHh
Q 013071 373 KVMEQISNQYELFRA-----KKVNRDDFVKKLRLIVG--------DDLLRSTITAL 415 (450)
Q Consensus 373 ~~~~~i~~~y~~~k~-----~kI~r~~~v~~~R~IvG--------D~lL~~~i~~~ 415 (450)
.++..+...|..|-+ |.|+.++|.+.+|...| ++-+..+++.+
T Consensus 5 ~~~~~l~~~F~~~D~~~~~~G~Is~~el~~~l~~~~g~~~~~~~~~~ei~~i~~~~ 60 (88)
T cd00213 5 KAIETIIDVFHKYSGKEGDKDTLSKKELKELLETELPNFLKNQKDPEAVDKIMKDL 60 (88)
T ss_pred HHHHHHHHHHHHHhhccCCCCcCcHHHHHHHHHHHhhhhccCCCCHHHHHHHHHHh
Confidence 345566666666655 88999999999987545 45555555554
No 30
>COG1859 KptA RNA:NAD 2'-phosphotransferase [Translation, ribosomal structure and biogenesis]
Probab=34.85 E-value=28 Score=34.09 Aligned_cols=25 Identities=20% Similarity=0.175 Sum_probs=22.0
Q ss_pred CceEEEeecCChhhHHHHhhccCCC
Q 013071 161 ANVRYAWLATSKGALSTMIMYGLGH 185 (450)
Q Consensus 161 ~Ner~LFHGTs~~~i~~I~~~GFd~ 185 (450)
.....|||||+.+++..|+++|...
T Consensus 118 ~~p~~LyhGTs~~~l~~I~~~Gi~P 142 (211)
T COG1859 118 EPPAVLYHGTSPEFLPSILEEGLKP 142 (211)
T ss_pred CCCcEEEecCChhhhHHHHHhcCcc
Confidence 4566899999999999999999865
No 31
>PF13405 EF-hand_6: EF-hand domain; PDB: 2AMI_A 3QRX_A 1W7J_B 1OE9_B 1W7I_B 1KFU_S 1KFX_S 2BL0_B 1Y1X_B 3MSE_B ....
Probab=34.73 E-value=23 Score=23.26 Aligned_cols=28 Identities=7% Similarity=0.076 Sum_probs=22.7
Q ss_pred HHHHHHHHHHHHHhcCCChHHHHHHHHH
Q 013071 374 VMEQISNQYELFRAKKVNRDDFVKKLRL 401 (450)
Q Consensus 374 ~~~~i~~~y~~~k~~kI~r~~~v~~~R~ 401 (450)
++..+.+.|+.=+.++|+.+||.+.|++
T Consensus 1 ~l~~~F~~~D~d~dG~I~~~el~~~l~~ 28 (31)
T PF13405_consen 1 RLREAFKMFDKDGDGFIDFEELRAILRK 28 (31)
T ss_dssp HHHHHHHHH-TTSSSEEEHHHHHHHHHH
T ss_pred CHHHHHHHHCCCCCCcCcHHHHHHHHHH
Confidence 3566777888888999999999999985
No 32
>PTZ00315 2'-phosphotransferase; Provisional
Probab=33.44 E-value=74 Score=35.74 Aligned_cols=32 Identities=22% Similarity=0.155 Sum_probs=24.9
Q ss_pred EEEeecCChhhHHHHhhcc-CCCCCCCCCCCcccceeEecc
Q 013071 164 RYAWLATSKGALSTMIMYG-LGHCGASTTKSTYGIGVHLAA 203 (450)
Q Consensus 164 r~LFHGTs~~~i~~I~~~G-Fd~~~a~~~g~~yG~GIYFAp 203 (450)
..|||||...++..|++.| +....-. =||||+
T Consensus 477 ~~lyHGT~~~~~~sI~~~G~L~~M~R~--------HVHLs~ 509 (582)
T PTZ00315 477 PVAVHGTYWSAWKAIQRCGYLSTMTRQ--------HIHFAK 509 (582)
T ss_pred CeEEeCCcHHHHHHHHHcCCccccCCC--------eEEecC
Confidence 4799999999999999999 6653221 278883
No 33
>smart00027 EH Eps15 homology domain. Pair of EF hand motifs that recognise proteins containing Asn-Pro-Phe (NPF) sequences.
Probab=32.93 E-value=99 Score=25.52 Aligned_cols=45 Identities=16% Similarity=0.155 Sum_probs=32.9
Q ss_pred CChhHHHHHHHHHHHH---HhcCCChHHHHHHHHHHhh--hHHHHHHHHHh
Q 013071 370 VSPKVMEQISNQYELF---RAKKVNRDDFVKKLRLIVG--DDLLRSTITAL 415 (450)
Q Consensus 370 l~~~~~~~i~~~y~~~---k~~kI~r~~~v~~~R~IvG--D~lL~~~i~~~ 415 (450)
+++++...+...|..| +.|.|+.++|.+.||.. | ...+..+++.+
T Consensus 4 ls~~~~~~l~~~F~~~D~d~~G~Is~~el~~~l~~~-~~~~~ev~~i~~~~ 53 (96)
T smart00027 4 ISPEDKAKYEQIFRSLDKNQDGTVTGAQAKPILLKS-GLPQTLLAKIWNLA 53 (96)
T ss_pred CCHHHHHHHHHHHHHhCCCCCCeEeHHHHHHHHHHc-CCCHHHHHHHHHHh
Confidence 4566777777777777 56899999999999984 5 45555555544
No 34
>cd05030 calgranulins Calgranulins: S-100 domain found in proteins belonging to the Calgranulin subgroup of the S100 family of EF-hand calcium-modulated proteins, including S100A8, S100A9, and S100A12 . Note that the S-100 hierarchy, to which this Calgranulin group belongs, contains only S-100 EF-hand domains, other EF-hands have been modeled separately. These proteins are expressed mainly in granulocytes, and are involved in inflammation, allergy, and neuritogenesis, as well as in host-parasite response. Calgranulins are modulated not only by calcium, but also by other metals such as zinc and copper. Structural data suggested that calgranulins may exist in multiple structural forms, homodimers, as well as hetero-oligomers. For example, the S100A8/S100A9 complex called calprotectin plays important roles in the regulation of inflammatory processes, wound repair, and regulating zinc-dependent enzymes as well as microbial growth.
Probab=29.90 E-value=1.6e+02 Score=24.12 Aligned_cols=33 Identities=12% Similarity=0.271 Sum_probs=25.7
Q ss_pred HHHHHHHHHHHHH-----hcCCChHHHHHHHHHHhhhH
Q 013071 374 VMEQISNQYELFR-----AKKVNRDDFVKKLRLIVGDD 406 (450)
Q Consensus 374 ~~~~i~~~y~~~k-----~~kI~r~~~v~~~R~IvGD~ 406 (450)
.+..|...|.++- +++|++++|.+.|+...|+.
T Consensus 6 ~i~~~~~~f~~y~~~~~~~~~Is~~El~~ll~~~~g~~ 43 (88)
T cd05030 6 AIETIINVFHQYSVRKGHPDTLYKKEFKQLVEKELPNF 43 (88)
T ss_pred HHHHHHHHHHHHhccCCCcccCCHHHHHHHHHHHhhHh
Confidence 3666777777776 35899999999998777753
No 35
>PRK12721 secretion system apparatus protein SsaU; Reviewed
Probab=29.31 E-value=80 Score=33.12 Aligned_cols=69 Identities=16% Similarity=0.223 Sum_probs=54.2
Q ss_pred HHHhccCChhHHHHHHHHHHHHHhcCCChHHHHHHHHHHhhhHHHHHHHHHhhccCCCccc-cccccccC
Q 013071 364 ASISNKVSPKVMEQISNQYELFRAKKVNRDDFVKKLRLIVGDDLLRSTITALQCKIPSKRE-VGEVKPDV 432 (450)
Q Consensus 364 ~~l~~~l~~~~~~~i~~~y~~~k~~kI~r~~~v~~~R~IvGD~lL~~~i~~~q~k~~~~~~-~~~~~~~~ 432 (450)
.++-=.+.-.-.|.+...|+-.|+-|+||+|.=+-.++-=||-.+++-++++|.+...++- ..|.+.+|
T Consensus 189 ~~~~~~~via~~D~~~qr~~~~k~lkMskqEvKdE~Ke~EGdP~iK~rrR~~~re~~~~~m~~~V~~AdV 258 (349)
T PRK12721 189 GLLACYLVFGILDYSFQRYKIMKQLKMSKDDVKQEYKDSEGDPEIKQKRRELQSEIQSGSLANNVKKSTA 258 (349)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHhccCCHHHHHHHHHHHHHHHHhhhhccCCCCcE
Confidence 3333344556689999999999999999999999999999999999999999988765443 23444443
No 36
>PF00036 EF-hand_1: EF hand; InterPro: IPR018248 Many calcium-binding proteins belong to the same evolutionary family and share a type of calcium-binding domain known as the EF-hand. This type of domain consists of a twelve residue loop flanked on both sides by a twelve residue alpha-helical domain. In an EF-hand loop the calcium ion is coordinated in a pentagonal bipyramidal configuration. The six residues involved in the binding are in positions 1, 3, 5, 7, 9 and 12; these residues are denoted by X, Y, Z, -Y, -X and -Z. The invariant Glu or Asp at position 12 provides two oxygens for liganding Ca (bidentate ligand).; PDB: 1BJF_A 1XFW_R 1XFV_O 2K0J_A 2F3Z_A 3BYA_A 1XFU_Q 2R28_B 1ZOT_B 3G43_D ....
Probab=27.81 E-value=27 Score=23.24 Aligned_cols=27 Identities=7% Similarity=0.274 Sum_probs=20.7
Q ss_pred HHHHHHHHHHHHhcCCChHHHHHHHHH
Q 013071 375 MEQISNQYELFRAKKVNRDDFVKKLRL 401 (450)
Q Consensus 375 ~~~i~~~y~~~k~~kI~r~~~v~~~R~ 401 (450)
+..+.+.|+.=+.|+|+.+||+..|+.
T Consensus 2 ~~~~F~~~D~d~dG~I~~~Ef~~~~~~ 28 (29)
T PF00036_consen 2 LKEAFREFDKDGDGKIDFEEFKEMMKK 28 (29)
T ss_dssp HHHHHHHHSTTSSSEEEHHHHHHHHHH
T ss_pred HHHHHHHHCCCCCCcCCHHHHHHHHHh
Confidence 345556666667799999999999875
No 37
>smart00862 Trans_reg_C Transcriptional regulatory protein, C terminal. This domain is almost always found associated with the response regulator receiver domain. It may play a role in DNA binding.
Probab=26.35 E-value=80 Score=24.33 Aligned_cols=51 Identities=20% Similarity=0.285 Sum_probs=37.7
Q ss_pred CChhHHHHHHHHHHHHHhcCCChHHHHHHHHH----HhhhHHHHHHHHHhhccCCC
Q 013071 370 VSPKVMEQISNQYELFRAKKVNRDDFVKKLRL----IVGDDLLRSTITALQCKIPS 421 (450)
Q Consensus 370 l~~~~~~~i~~~y~~~k~~kI~r~~~v~~~R~----IvGD~lL~~~i~~~q~k~~~ 421 (450)
|.+.++.+| .++-.-+..-+||++++..+-. .+.++.|..+|.+|+.++..
T Consensus 6 Lt~~e~~lL-~~L~~~~~~~vs~~~l~~~lw~~~~~~~~~~~l~~~i~~LR~~l~~ 60 (78)
T smart00862 6 LTPKEFRLL-ELLLRNPGRVVSREELLEAVWGDDDDDVDDNTLDVHISRLRKKLED 60 (78)
T ss_pred cCHHHHHHH-HHHHhCCCCccCHHHHHHHHcCCCCCCCccchHHHHHHHHHHHHhc
Confidence 566666644 4555555567999999998864 34578999999999999854
No 38
>TIGR00328 flhB flagellar biosynthetic protein FlhB. FlhB and its functionally equivalent orthologs, from among a larger superfamily of proteins involved in type III protein export systems, are specifically involved in flagellar protein export. The seed members are restricted and the trusted cutoff is set high such that the proteins gathered by this model play roles specifically related to flagellar structures. Full-length homologs scoring below the trusted cutoff are involved in peptide export but not necessarily in the creation of flagella.
Probab=25.99 E-value=1e+02 Score=32.35 Aligned_cols=62 Identities=15% Similarity=0.279 Sum_probs=52.9
Q ss_pred HHHHHhccCChhHHHHHHHHHHHHHhcCCChHHHHHHHHHHhhhHHHHHHHHHhhccCCCcc
Q 013071 362 LFASISNKVSPKVMEQISNQYELFRAKKVNRDDFVKKLRLIVGDDLLRSTITALQCKIPSKR 423 (450)
Q Consensus 362 L~~~l~~~l~~~~~~~i~~~y~~~k~~kI~r~~~v~~~R~IvGD~lL~~~i~~~q~k~~~~~ 423 (450)
++..+--.+.-.-.|.+...|+=.|+-|+||+|.=+-.++-=||-.+++-++++|.+...++
T Consensus 187 ~~~~~~~~~via~~D~~~qr~~~~k~lrMskqEVKdE~K~~EGdP~iK~rrR~~~re~a~~~ 248 (347)
T TIGR00328 187 LILVLLLLLVIAVFDYFFQRWQYIKSLKMTKQEVKDELKQSEGDPEVKGRIRQMQREAARRR 248 (347)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhCCCCHHHHHHHHHhccCCHHHHHHHHHHHHHHHHhh
Confidence 33444445667788999999999999999999999999999999999999999998876544
No 39
>cd00383 trans_reg_C Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and a response regulator. The former autophosphorylates in a histidine residue on detecting an external stimulus. The phosphate is then transferred to an invariant aspartate residue in a highly conserved receiver domain of the response regulator. Phosphorylation activates a variable effector domain of the response regulator, which triggers the cellular response. The C-terminal effector domain contains DNA and RNA polymerase binding sites. Several dimers or monomers bind head to tail to small tandem repeats upstream of the genes. The RNA polymerase binding sites interact with the alpha or sigma subunite of RNA polymerase.
Probab=24.67 E-value=69 Score=25.73 Aligned_cols=51 Identities=18% Similarity=0.233 Sum_probs=37.6
Q ss_pred CChhHHHHHHHHHHHHHhcCCChHHHHHHHHH---HhhhHHHHHHHHHhhccCCC
Q 013071 370 VSPKVMEQISNQYELFRAKKVNRDDFVKKLRL---IVGDDLLRSTITALQCKIPS 421 (450)
Q Consensus 370 l~~~~~~~i~~~y~~~k~~kI~r~~~v~~~R~---IvGD~lL~~~i~~~q~k~~~ 421 (450)
|.+..+.+|.-.+ .-+..-+||++++..+-. .+.++.|...|.+|+.|+..
T Consensus 24 Lt~~e~~lL~~L~-~~~~~~vs~~~l~~~lw~~~~~~~~~~l~~~I~rLRkkl~~ 77 (95)
T cd00383 24 LTPKEFELLELLA-RNPGRVLSREQLLEAVWGDDYDVDDRTVDVHISRLRKKLED 77 (95)
T ss_pred eCHHHHHHHHHHH-hCCCCcCCHHHHHHHhcCCCCCCCcccHHHHHHHHHHHhcc
Confidence 4555555554443 335678999999999943 25789999999999999864
No 40
>PRK06298 type III secretion system protein; Validated
Probab=24.58 E-value=1.1e+02 Score=32.30 Aligned_cols=73 Identities=5% Similarity=0.039 Sum_probs=56.8
Q ss_pred HHHHHHHhccCChhHHHHHHHHHHHHHhcCCChHHHHHHHHHHhhhHHHHHHHHHhhccCCCcc-ccccccccC
Q 013071 360 PMLFASISNKVSPKVMEQISNQYELFRAKKVNRDDFVKKLRLIVGDDLLRSTITALQCKIPSKR-EVGEVKPDV 432 (450)
Q Consensus 360 ~~L~~~l~~~l~~~~~~~i~~~y~~~k~~kI~r~~~v~~~R~IvGD~lL~~~i~~~q~k~~~~~-~~~~~~~~~ 432 (450)
..++..+--.+.-.-.|.....|+-.|+-|+||+|.=+-.++-=||-.+++-++++|.+....+ -..|.+-+|
T Consensus 186 ~l~~~~~~~~~via~~D~~~qr~~~~k~lkMSkqEvKdE~K~~EGdP~iK~rrR~~~re~~~~~m~~~V~~AdV 259 (356)
T PRK06298 186 KAVTSIGIFFLVVAVLDLVYQRHNFAKELKMEKFEVKQEFKDTEGNPEIKGRRRQIAQEIAYEDTSSQVKHASA 259 (356)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHhccCCHHHHHHHHHHHHHHHHhHHhhcCCCCcE
Confidence 3344444445566778999999999999999999999999999999999999999998876544 233444444
No 41
>PTZ00183 centrin; Provisional
Probab=24.49 E-value=1.4e+02 Score=25.98 Aligned_cols=59 Identities=8% Similarity=0.196 Sum_probs=38.9
Q ss_pred ccHHHHHHHHhc----cCChhHHHHHHHHHHHHHhcCCChHHHHHHHHHH---hhhHHHHHHHHHh
Q 013071 357 MPFPMLFASISN----KVSPKVMEQISNQYELFRAKKVNRDDFVKKLRLI---VGDDLLRSTITAL 415 (450)
Q Consensus 357 ~~F~~L~~~l~~----~l~~~~~~~i~~~y~~~k~~kI~r~~~v~~~R~I---vGD~lL~~~i~~~ 415 (450)
+.|..++.++.. ..+..++..+.+.|+.=..+.|++++|...++.. .-+.-+..++..+
T Consensus 70 i~~~eF~~~~~~~~~~~~~~~~l~~~F~~~D~~~~G~i~~~e~~~~l~~~~~~l~~~~~~~~~~~~ 135 (158)
T PTZ00183 70 IDFEEFLDIMTKKLGERDPREEILKAFRLFDDDKTGKISLKNLKRVAKELGETITDEELQEMIDEA 135 (158)
T ss_pred EeHHHHHHHHHHHhcCCCcHHHHHHHHHHhCCCCCCcCcHHHHHHHHHHhCCCCCHHHHHHHHHHh
Confidence 566666655543 3345566677777776678899999999999865 1255555555544
No 42
>cd05025 S-100A1 S-100A1: S-100A1 domain found in proteins similar to S100A1. S100A1 is a calcium-binding protein belonging to a large S100 vertebrate-specific protein family within the EF-hand superfamily of calcium-binding proteins. Note that the S-100 hierarchy, to which this S-100A1 group belongs, contains only S-100 EF-hand domains, other EF-hands have been modeled separately. As is the case with many other members of S100 protein family, S100A1 is implicated in intracellular and extracellular regulatory activities, including interaction with myosin-associated twitchin kinase, actin-capping protein CapZ, sinapsin I, and tubulin. Structural data suggests that S100A1 proteins exist within cells as antiparallel homodimers, while heterodimers with S100A4 and S100B also has been reported. Upon binding calcium S100A1 changes conformation to expose a hydrophobic cleft which is the interaction site of S100A1 with its more that 20 known target proteins.
Probab=23.63 E-value=1.3e+02 Score=24.55 Aligned_cols=30 Identities=20% Similarity=0.356 Sum_probs=21.6
Q ss_pred HHHHHHHHHH----Hhc-CCChHHHHHHHHHHhhh
Q 013071 376 EQISNQYELF----RAK-KVNRDDFVKKLRLIVGD 405 (450)
Q Consensus 376 ~~i~~~y~~~----k~~-kI~r~~~v~~~R~IvGD 405 (450)
+.|...|..| ..+ +|++++|.+.||...|+
T Consensus 9 ~~l~~~F~~fDd~dg~G~~Is~~El~~~l~~~lg~ 43 (92)
T cd05025 9 ETLINVFHAHSGKEGDKYKLSKKELKDLLQTELSD 43 (92)
T ss_pred HHHHHHHHHHhcccCCCCeECHHHHHHHHHHHHHH
Confidence 4455555555 456 59999999999986665
No 43
>cd00052 EH Eps15 homology domain; found in proteins implicated in endocytosis, vesicle transport, and signal transduction. The alignment contains a pair of EF-hand motifs, typically one of them is canonical and binds to Ca2+, while the other may not bind to Ca2+. A hydrophobic binding pocket is formed by residues from both EF-hand motifs. The EH domain binds to proteins containing NPF (class I), [WF]W or SWG (class II), or H[TS]F (class III) sequence motifs.
Probab=23.56 E-value=1.6e+02 Score=21.76 Aligned_cols=47 Identities=15% Similarity=0.215 Sum_probs=30.8
Q ss_pred ccHHHHHHHHhc-cCChhHHHHHHHHHHHHHhcCCChHHHHHHHHHHh
Q 013071 357 MPFPMLFASISN-KVSPKVMEQISNQYELFRAKKVNRDDFVKKLRLIV 403 (450)
Q Consensus 357 ~~F~~L~~~l~~-~l~~~~~~~i~~~y~~~k~~kI~r~~~v~~~R~Iv 403 (450)
++...|..++.. .++...+..+.+.++.=..++|+-+||+..+..|.
T Consensus 16 i~~~el~~~l~~~g~~~~~~~~i~~~~d~~~~g~i~~~ef~~~~~~~~ 63 (67)
T cd00052 16 ISGDEARPFLGKSGLPRSVLAQIWDLADTDKDGKLDKEEFAIAMHLIA 63 (67)
T ss_pred CcHHHHHHHHHHcCCCHHHHHHHHHHhcCCCCCcCCHHHHHHHHHHHH
Confidence 455555555433 24556666666666555678999999999887764
No 44
>PRK09108 type III secretion system protein HrcU; Validated
Probab=22.15 E-value=1.2e+02 Score=31.97 Aligned_cols=61 Identities=10% Similarity=0.151 Sum_probs=51.9
Q ss_pred HHHHHhccCChhHHHHHHHHHHHHHhcCCChHHHHHHHHHHhhhHHHHHHHHHhhccCCCc
Q 013071 362 LFASISNKVSPKVMEQISNQYELFRAKKVNRDDFVKKLRLIVGDDLLRSTITALQCKIPSK 422 (450)
Q Consensus 362 L~~~l~~~l~~~~~~~i~~~y~~~k~~kI~r~~~v~~~R~IvGD~lL~~~i~~~q~k~~~~ 422 (450)
++..+-=.+.-.-.|.+...|+-.|+-|+||+|.=+-.++-=||-.+++-++++|.+....
T Consensus 189 ~~~~~~~~~via~~D~~~qr~~~~k~lkMSkqEvK~E~K~~EGdP~iK~rrRq~~re~a~~ 249 (353)
T PRK09108 189 LAVAAGVFLLVGAADWKIQRWLFIRDNRMSKDEVKREHKESEGDPHIKGERKRLARELAFA 249 (353)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHhccCCHHHHHHHHHHHHHHHHh
Confidence 3444444556677899999999999999999999999999999999999999999887643
No 45
>cd00051 EFh EF-hand, calcium binding motif; A diverse superfamily of calcium sensors and calcium signal modulators; most examples in this alignment model have 2 active canonical EF hands. Ca2+ binding induces a conformational change in the EF-hand motif, leading to the activation or inactivation of target proteins. EF-hands tend to occur in pairs or higher copy numbers.
Probab=22.03 E-value=82 Score=21.84 Aligned_cols=43 Identities=14% Similarity=0.155 Sum_probs=24.2
Q ss_pred ccHHHHHHHHhccCChhHHHHHHHHHHHH---HhcCCChHHHHHHH
Q 013071 357 MPFPMLFASISNKVSPKVMEQISNQYELF---RAKKVNRDDFVKKL 399 (450)
Q Consensus 357 ~~F~~L~~~l~~~l~~~~~~~i~~~y~~~---k~~kI~r~~~v~~~ 399 (450)
+++..+..++...-.+..-..+...++.+ +.+.|+-+||+..+
T Consensus 17 l~~~e~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~ef~~~~ 62 (63)
T cd00051 17 ISADELKAALKSLGEGLSEEEIDEMIREVDKDGDGKIDFEEFLELM 62 (63)
T ss_pred CcHHHHHHHHHHhCCCCCHHHHHHHHHHhCCCCCCeEeHHHHHHHh
Confidence 45555555555543333334444444444 56778888887654
No 46
>PRK12773 flhB flagellar biosynthesis protein FlhB; Reviewed
Probab=21.64 E-value=1.6e+02 Score=33.46 Aligned_cols=57 Identities=16% Similarity=0.203 Sum_probs=49.5
Q ss_pred hccCChhHHHHHHHHHHHHHhcCCChHHHHHHHHHHhhhHHHHHHHHHhhccCCCcc
Q 013071 367 SNKVSPKVMEQISNQYELFRAKKVNRDDFVKKLRLIVGDDLLRSTITALQCKIPSKR 423 (450)
Q Consensus 367 ~~~l~~~~~~~i~~~y~~~k~~kI~r~~~v~~~R~IvGD~lL~~~i~~~q~k~~~~~ 423 (450)
--.+.-.-.|++-..|+-.|+-|+||+|.=+-.++-=||-.+++-++++|.+...++
T Consensus 490 lvllVIAiiD~~~QR~~f~KkLKMSKQEVKdE~KEsEGDPeIKaRRRqlqREmar~r 546 (646)
T PRK12773 490 IILLAISIVDYLYQRYEYEESLKMTPSEAKREAKESDGDRSLQARRRQLARDMMNKR 546 (646)
T ss_pred HHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHhccCCHHHHHHHHHHHHHHHhhc
Confidence 334455668888899999999999999999999999999999999999999887544
No 47
>PRK02998 prsA peptidylprolyl isomerase; Reviewed
Probab=21.56 E-value=1e+02 Score=30.94 Aligned_cols=31 Identities=16% Similarity=0.271 Sum_probs=26.1
Q ss_pred HHHHhcCCChHHHHHHHHHHhhhHHHHHHHH
Q 013071 383 ELFRAKKVNRDDFVKKLRLIVGDDLLRSTIT 413 (450)
Q Consensus 383 ~~~k~~kI~r~~~v~~~R~IvGD~lL~~~i~ 413 (450)
-..+.++||++||.+.|+.-.|.++|...|.
T Consensus 29 ~~~~~g~it~~e~~~~~~~~~g~~~l~~li~ 59 (283)
T PRK02998 29 VTSKVGNITEKELSKELRQKYGESTLYQMVL 59 (283)
T ss_pred EEecCCCccHHHHHHHHHHHHHHHHHHHHHH
Confidence 4456789999999999999999888888553
No 48
>smart00054 EFh EF-hand, calcium binding motif. EF-hands are calcium-binding motifs that occur at least in pairs. Links between disease states and genes encoding EF-hands, particularly the S100 subclass, are emerging. Each motif consists of a 12 residue loop flanked on either side by a 12 residue alpha-helix. EF-hands undergo a conformational change unpon binding calcium ions.
Probab=21.15 E-value=49 Score=19.22 Aligned_cols=24 Identities=13% Similarity=0.194 Sum_probs=16.9
Q ss_pred HHHHHHHHHhcCCChHHHHHHHHH
Q 013071 378 ISNQYELFRAKKVNRDDFVKKLRL 401 (450)
Q Consensus 378 i~~~y~~~k~~kI~r~~~v~~~R~ 401 (450)
+.+.|+.-..+.|+.++|...++.
T Consensus 5 ~f~~~d~~~~g~i~~~e~~~~~~~ 28 (29)
T smart00054 5 AFRLFDKDGDGKIDFEEFKDLLKA 28 (29)
T ss_pred HHHHHCCCCCCcEeHHHHHHHHHh
Confidence 344454445678999999988875
No 49
>PRK05702 flhB flagellar biosynthesis protein FlhB; Reviewed
Probab=20.49 E-value=1.3e+02 Score=31.60 Aligned_cols=62 Identities=13% Similarity=0.259 Sum_probs=52.3
Q ss_pred HHHHHhccCChhHHHHHHHHHHHHHhcCCChHHHHHHHHHHhhhHHHHHHHHHhhccCCCcc
Q 013071 362 LFASISNKVSPKVMEQISNQYELFRAKKVNRDDFVKKLRLIVGDDLLRSTITALQCKIPSKR 423 (450)
Q Consensus 362 L~~~l~~~l~~~~~~~i~~~y~~~k~~kI~r~~~v~~~R~IvGD~lL~~~i~~~q~k~~~~~ 423 (450)
++..+-=.+.-.-.|.+...|.-.|+-|+||+|.=+-.++-=||-.+++-++++|.+...++
T Consensus 194 ~~~~~~~~~via~~D~~~qr~~~~k~lkMskqEVKdE~Ke~EGdP~iK~rrR~~~re~a~~~ 255 (359)
T PRK05702 194 LLLVVLALLVIAAIDVPFQRWQYLKKLKMTKQEVKDEHKQSEGDPEVKGRIRQLQREMARRR 255 (359)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhCCCCHHHHHHHHHhccCCHHHHHHHHHHHHHHHHhH
Confidence 33444445556778999999999999999999999999999999999999999998876543
No 50
>cd05029 S-100A6 S-100A6: S-100A6 domain found in proteins similar to S100A6. S100A6 is a member of the S100 domain family within EF-hand Ca2+-binding proteins superfamily. Note that the S-100 hierarchy, to which this S-100A6 group belongs, contains only S-100 EF-hand domains, other EF-hands have been modeled separately. S100 proteins exhibit unique patterns of tissue- and cell type-specific expression and have been implicated in the Ca2+-dependent regulation of diverse physiological processes, including cell cycle regulation, differentiation, growth, and metabolic control . S100A6 is normally expressed in the G1 phase of the cell cycle in neuronal cells. The function of S100A6 remains unclear, but evidence suggests that it is involved in cell cycle regulation and exocytosis. S100A6 may also be involved in tumorigenesis; the protein is overexpressed in several tumors. Ca2+ binding to S100A6 leads to a conformational change in the protein, which exposes a hydrophobic surface for interact
Probab=20.30 E-value=1.6e+02 Score=24.47 Aligned_cols=47 Identities=15% Similarity=0.218 Sum_probs=35.8
Q ss_pred ccHHHHHHHHh------ccCChhHHHHHHHHHHHHHhcCCChHHHHHHHHHHh
Q 013071 357 MPFPMLFASIS------NKVSPKVMEQISNQYELFRAKKVNRDDFVKKLRLIV 403 (450)
Q Consensus 357 ~~F~~L~~~l~------~~l~~~~~~~i~~~y~~~k~~kI~r~~~v~~~R~Iv 403 (450)
++...|..+|+ .++++.+.+.+.+..+.=..++|+-++|++.|..++
T Consensus 29 Is~~EL~~~l~~~~~lg~k~t~~ev~~m~~~~D~d~dG~Idf~EFv~lm~~l~ 81 (88)
T cd05029 29 LSKKELKELIQKELTIGSKLQDAEIAKLMEDLDRNKDQEVNFQEYVTFLGALA 81 (88)
T ss_pred ECHHHHHHHHHHHHhcCCCCCHHHHHHHHHHhcCCCCCCCcHHHHHHHHHHHH
Confidence 66666766664 446777788887777777889999999998887654
No 51
>PRK12772 bifunctional flagellar biosynthesis protein FliR/FlhB; Provisional
Probab=20.17 E-value=1.4e+02 Score=33.68 Aligned_cols=58 Identities=12% Similarity=0.228 Sum_probs=50.6
Q ss_pred HhccCChhHHHHHHHHHHHHHhcCCChHHHHHHHHHHhhhHHHHHHHHHhhccCCCcc
Q 013071 366 ISNKVSPKVMEQISNQYELFRAKKVNRDDFVKKLRLIVGDDLLRSTITALQCKIPSKR 423 (450)
Q Consensus 366 l~~~l~~~~~~~i~~~y~~~k~~kI~r~~~v~~~R~IvGD~lL~~~i~~~q~k~~~~~ 423 (450)
+--.+.-.-.|.....|+-.|+-|+||+|.=+..|+-=||-.+++-++++|.+...++
T Consensus 454 ~~~~~via~~D~~~q~~~~~k~lkMskqEvK~E~Ke~EGdP~iK~r~R~~~re~~~~~ 511 (609)
T PRK12772 454 TLIMIIIAVADYVYQKYQYNKDLRMTKQEVKEEYKQDEGDPQIKAKIKQKQREMAMQR 511 (609)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhCCCCHHHHHHHHHhccCCHHHHHHHHHHHHHHHHhh
Confidence 3344566778999999999999999999999999999999999999999998876544
No 52
>TIGR01404 FlhB_rel_III type III secretion protein, YscU/HrpY family. This model represents one of several families of proteins related to bacterial flagellar biosynthesis proteins and involved in bacterial type III protein secretion systems. This family is homologous to, but distinguished from, flagellar biosynthetic protein FlhB (TIGRFAMs model TIGR00328). This model may not identify all type III secretion system FlhB homologs.
Probab=20.09 E-value=1.6e+02 Score=30.84 Aligned_cols=62 Identities=15% Similarity=0.250 Sum_probs=52.2
Q ss_pred HHHHHhccCChhHHHHHHHHHHHHHhcCCChHHHHHHHHHHhhhHHHHHHHHHhhccCCCcc
Q 013071 362 LFASISNKVSPKVMEQISNQYELFRAKKVNRDDFVKKLRLIVGDDLLRSTITALQCKIPSKR 423 (450)
Q Consensus 362 L~~~l~~~l~~~~~~~i~~~y~~~k~~kI~r~~~v~~~R~IvGD~lL~~~i~~~q~k~~~~~ 423 (450)
++.++--.+.-.-.|.+...|+=.|+-|+||+|.=+-.++-=||-.+++-++++|.+...++
T Consensus 186 ~~~~~~~~~via~~D~~~qr~~~~k~lkMskqEvKdE~Ke~EGdP~iK~r~R~~~re~~~~~ 247 (342)
T TIGR01404 186 ILVCLGFFLVVGLADFAFQRYLFMKDLKMSKDEVKREYKEQEGDPEIKSKRRELHQEILSEQ 247 (342)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhCCCCHHHHHHHHHhccCCHHHHHHHHHHHHHHHHhh
Confidence 33344444566778999999999999999999999999999999999999999998876544
Done!