Query 025342
Match_columns 254
No_of_seqs 145 out of 452
Neff 3.4
Searched_HMMs 46136
Date Fri Mar 29 04:53:01 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/025342.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/025342hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 COG1939 Ribonuclease III famil 100.0 8.3E-48 1.8E-52 319.2 11.0 117 112-232 8-126 (132)
2 PF00636 Ribonuclease_3: Ribon 99.4 1.9E-12 4.1E-17 99.9 9.6 98 121-220 2-112 (114)
3 cd00593 RIBOc RIBOc. Ribonucle 99.4 1.9E-12 4.2E-17 101.1 8.7 103 116-232 18-123 (133)
4 smart00535 RIBOc Ribonuclease 99.3 3.3E-12 7.1E-17 100.0 8.2 101 118-232 18-121 (129)
5 PRK00102 rnc ribonuclease III; 98.9 4.7E-09 1E-13 90.3 8.4 100 119-232 41-143 (229)
6 TIGR02191 RNaseIII ribonucleas 98.7 7E-08 1.5E-12 82.3 8.8 101 118-232 34-137 (220)
7 PRK12371 ribonuclease III; Rev 98.0 4.7E-05 1E-09 68.2 9.8 98 118-229 45-145 (235)
8 PRK14718 ribonuclease III; Pro 98.0 4.8E-05 1E-09 75.0 10.0 100 119-232 34-136 (467)
9 PRK12372 ribonuclease III; Rev 97.9 8.7E-05 1.9E-09 72.4 9.8 99 120-232 35-136 (413)
10 PF14622 Ribonucleas_3_3: Ribo 97.8 9E-05 1.9E-09 59.8 7.6 99 120-232 23-123 (128)
11 COG0571 Rnc dsRNA-specific rib 97.3 0.00087 1.9E-08 60.8 7.2 101 118-232 43-146 (235)
12 KOG1817 Ribonuclease [RNA proc 93.3 0.54 1.2E-05 47.4 9.4 100 121-235 313-415 (533)
13 KOG1817 Ribonuclease [RNA proc 74.4 5.5 0.00012 40.4 5.1 100 120-235 133-237 (533)
14 COG3078 Uncharacterized protei 62.8 7.1 0.00015 34.6 2.8 18 222-239 135-152 (169)
15 cd08324 CARD_NOD1_CARD4 Caspas 47.2 19 0.00041 28.9 2.7 27 162-188 18-44 (85)
16 cd08329 CARD_BIRC2_BIRC3 Caspa 45.1 17 0.00037 28.7 2.1 54 162-218 26-79 (94)
17 cd08788 CARD_NOD2_2_CARD15 Cas 43.9 13 0.00028 29.6 1.3 55 162-218 17-71 (81)
18 cd08332 CARD_CASP2 Caspase act 42.6 33 0.00072 26.7 3.4 67 162-231 23-89 (90)
19 PF03754 DUF313: Domain of unk 42.1 25 0.00053 29.1 2.7 24 159-182 35-61 (114)
20 cd08323 CARD_APAF1 Caspase act 40.9 36 0.00077 26.7 3.3 67 162-231 17-83 (86)
21 smart00114 CARD Caspase recrui 39.3 25 0.00054 26.5 2.2 54 162-218 23-76 (88)
22 PF04220 YihI: Der GTPase acti 39.2 13 0.00028 32.9 0.7 20 222-241 135-154 (169)
23 PF08105 Antimicrobial10: Metc 37.6 20 0.00043 26.4 1.3 17 23-40 32-48 (52)
24 cd08325 CARD_CASP1-like Caspas 36.6 32 0.00069 26.5 2.4 57 162-221 19-76 (83)
25 PRK05244 Der GTPase activator; 33.9 21 0.00046 31.9 1.2 20 222-241 134-153 (177)
26 cd07922 CarBa CarBa is the A s 32.8 64 0.0014 25.4 3.6 20 168-187 30-49 (81)
27 PF09836 DUF2063: Uncharacteri 31.8 20 0.00044 27.3 0.6 24 119-142 53-76 (94)
28 PF05436 MF_alpha_N: Mating fa 30.9 17 0.00037 29.1 0.1 12 211-222 36-47 (86)
29 PF14163 SieB: Superinfection 30.5 59 0.0013 26.9 3.2 27 160-189 68-94 (151)
30 PF00619 CARD: Caspase recruit 27.9 73 0.0016 23.2 3.0 56 161-219 18-73 (85)
31 COG4805 Uncharacterized protei 27.5 1.9E+02 0.0041 30.4 6.8 42 126-168 267-310 (588)
32 PF09422 WTX: WTX protein; In 27.0 24 0.00053 35.8 0.4 11 123-133 430-440 (471)
33 CHL00027 rps15 ribosomal prote 26.9 68 0.0015 25.8 2.9 62 154-236 18-86 (90)
34 TIGR00952 S15_bact ribosomal p 25.6 70 0.0015 25.3 2.7 64 151-235 15-85 (86)
35 PF09851 SHOCT: Short C-termin 25.1 1.3E+02 0.0028 19.3 3.4 23 161-183 4-26 (31)
36 cd08330 CARD_ASC_NALP1 Caspase 25.0 90 0.002 23.9 3.2 53 162-217 18-70 (82)
37 PF07746 LigA: Aromatic-ring-o 22.9 1.2E+02 0.0027 24.0 3.6 32 154-185 7-41 (88)
38 PRK05626 rpsO 30S ribosomal pr 21.7 96 0.0021 24.7 2.8 63 152-235 19-88 (89)
39 cd07923 Gallate_dioxygenase_C 20.4 1.1E+02 0.0024 24.9 3.0 38 148-185 8-48 (94)
40 COG3140 Uncharacterized protei 20.1 64 0.0014 24.4 1.4 27 222-249 17-43 (60)
41 PF08067 ROKNT: ROKNT (NUC014) 20.0 55 0.0012 23.3 1.0 13 177-189 28-40 (43)
No 1
>COG1939 Ribonuclease III family protein [Replication, recombination, and repair]
Probab=100.00 E-value=8.3e-48 Score=319.17 Aligned_cols=117 Identities=33% Similarity=0.635 Sum_probs=110.5
Q ss_pred CCCCCcChHHHHHHhhHHHHHHHHHHhhCCCC-ChhHHhHhhhheeechhHHHHHHHhhcCCCCCHHHHHHHHhhcCCCC
Q 025342 112 KPRSVFNAASLAYIGDCIYELYARRHFLFPPL-SIEEYNNRVMAVVRCETQDALLQKLLNDSYLSAEERDVVRWGKNVGS 190 (254)
Q Consensus 112 k~~~~~spLaLAYIGDAVYELyVR~~ll~~~~-kv~~Lhk~v~~~VsAkAQA~ll~~Ll~e~~LTEEE~~IvRRGRNaks 190 (254)
++.+++||++|||+||||||+|||.|++.++. ++++||+.|++||+|++||.+|+.|++ +|||+|.+|+|||||+|+
T Consensus 8 ~~~~qln~laLAy~GDAV~e~yVR~~~l~~g~~k~~~lH~~a~~~VsAk~QA~il~~~~~--~Lte~E~~I~KRgRNaks 85 (132)
T COG1939 8 ADAKQLNGLALAYLGDAVYELYVREYLLLKGKTKPNDLHKRATAYVSAKAQALILKALLE--FLTEEEEEIVKRGRNAKS 85 (132)
T ss_pred cCHHhcCHHHHHHhhhHHHHHHHHHHHHhcccCChHHHHHHHHHHhhHHHHHHHHHHHHH--HhhHHHHHHHHHhccccc
Confidence 35568999999999999999999999999886 799999999999999999999999996 999999999999999999
Q ss_pred CCCCCCCCCChhHHhhhhhHHHHHHHHhcCC-hhHHHHHHHHh
Q 025342 191 ANTRTKRRAGAAVYNRASSLETLAGYLYLTN-ANRLEDVMSKL 232 (254)
Q Consensus 191 ~~t~~pKna~v~~YR~ATGFEALIGYLYLt~-~eRL~EL~~~l 232 (254)
++ .|||+++.+||.|||||||||||||++ .|||+||++++
T Consensus 86 ~T--~~kn~dv~tYr~sTgfEAliGyLyL~~~~eRL~ell~~~ 126 (132)
T COG1939 86 GT--KPKNTDVETYRMSTGFEALIGYLYLTKQEERLEELLNKV 126 (132)
T ss_pred CC--CCCCCChHHHHHhhhHHHHHHHHHHcccHHHHHHHHHHH
Confidence 86 689999999999999999999999998 78999999874
No 2
>PF00636 Ribonuclease_3: Ribonuclease III domain; InterPro: IPR000999 Prokaryotic ribonuclease III (3.1.26.3 from EC) (gene rnc) [] is an enzyme that digests double-stranded RNA. It is involved in the processing of ribosomal RNA precursors and of some mRNAs. RNase III is evolutionary related to a number of proteins including []: Saccharomyces cerevisiae (Baker's yeast) protein pac1, a ribonuclease that probably inhibits mating and meiosis by degrading a specific mRNA required for sexual development yeast ribonuclease III (gene RNT1), a dsRNA-specific nuclease that cleaves eukaryotic preribosomal RNA at various sites Caenorhabditis elegans hypothetical protein F26E4.13 Paramecium bursaria Chlorella virus 1 (PBCV-1) 1 protein A464R Synechocystis sp. (strain PCC 6803) hypothetical protein slr0346 yeast hypothetical protein SpAC8A4.08c, a protein with a N-terminal helicase domain and a C-terminal RNase III domain C. elegans hypothetical protein K12H4.8, a protein with the same structure as SpAC8A4.08c ; GO: 0003723 RNA binding, 0004525 ribonuclease III activity, 0006396 RNA processing; PDB: 2GSL_A 2NUE_B 1YYO_A 2NUF_A 1YZ9_A 1JFZ_A 1YYW_C 1RC5_B 1YYK_B 1RC7_A ....
Probab=99.40 E-value=1.9e-12 Score=99.94 Aligned_cols=98 Identities=23% Similarity=0.302 Sum_probs=81.5
Q ss_pred HHHHHhhHHHHHHHHHHhhC--CCCChhHHhHhhhheeechhHHHHHHHhhcCCCCCHHHHHHHHhhcC-----------
Q 025342 121 SLAYIGDCIYELYARRHFLF--PPLSIEEYNNRVMAVVRCETQDALLQKLLNDSYLSAEERDVVRWGKN----------- 187 (254)
Q Consensus 121 aLAYIGDAVYELyVR~~ll~--~~~kv~~Lhk~v~~~VsAkAQA~ll~~Ll~e~~LTEEE~~IvRRGRN----------- 187 (254)
-|+||||||++++|+.+++. +..+...||.....+|+.+.++.+..++-=..+|..++.++.++++|
T Consensus 2 rLefLGDavL~~~v~~~l~~~~p~~~~~~L~~~r~~~vsn~~L~~~a~~~gl~~~l~~~~~~~~~~~~~~~~~~~~~~~~ 81 (114)
T PF00636_consen 2 RLEFLGDAVLKLLVSEYLFEKYPNLNEGQLTKLRSALVSNKFLARLAVKLGLHKYLRQEPFEIQRWIKPFNEDLNNGDSE 81 (114)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHTTTSSHHHHHHHHHHHHSHHHHHHHHHHTTHGCTCBHHHHHHHHHHHCHHCC-------
T ss_pred cHhHhHHHHHHHHHHHHHHHHCCCCChhHHHHHHHHHhCHHHHHHHHHHhCchHhhhccchhHHHHHHHHHHHHHhcccc
Confidence 48999999999999999995 45689999999999999999999988844346999999999999988
Q ss_pred CCCCCCCCCCCCChhHHhhhhhHHHHHHHHhcC
Q 025342 188 VGSANTRTKRRAGAAVYNRASSLETLAGYLYLT 220 (254)
Q Consensus 188 aks~~t~~pKna~v~~YR~ATGFEALIGYLYLt 220 (254)
.... ..+++.....+..|+.||||||.+||.
T Consensus 82 ~~~~--~~~~~~~~~~k~laD~~EAliGAiyld 112 (114)
T PF00636_consen 82 SSIS--YDPKNQVLPPKVLADVFEALIGAIYLD 112 (114)
T ss_dssp C-SS--S--SSSSHHHHHHHHHHHHHHHHHHHH
T ss_pred cccC--CCccccCCccHHHHHHHHHHHHHHHHh
Confidence 1111 123467788999999999999999985
No 3
>cd00593 RIBOc RIBOc. Ribonuclease III C terminal domain. This group consists of eukaryotic, bacterial and archeal ribonuclease III (RNAse III) proteins. RNAse III is a double stranded RNA-specific endonuclease. Prokaryotic RNAse III is important in post-transcriptional control of mRNA stability and translational efficiency. It is involved in the processing of ribosomal RNA precursors. Prokaryotic RNAse III also plays a role in the maturation of tRNA precursors and in the processing of phage and plasmid transcripts. Eukaryotic RNase III's participate (through direct cleavage) in rRNA processing, in processing of small nucleolar RNAs (snoRNAs) and snRNA's (components of the spliceosome). In eukaryotes RNase III or RNaseIII like enzymes such as Dicer are involved in RNAi (RNA interference) and miRNA (micro-RNA) gene silencing.
Probab=99.38 E-value=1.9e-12 Score=101.06 Aligned_cols=103 Identities=26% Similarity=0.308 Sum_probs=85.7
Q ss_pred CcChHHHHHHhhHHHHHHHHHHhhCCC--CChhHHhHhhhheeechhHHHHHHHhhcCCCCCHHHHHHHHhhcCCCCCCC
Q 025342 116 VFNAASLAYIGDCIYELYARRHFLFPP--LSIEEYNNRVMAVVRCETQDALLQKLLNDSYLSAEERDVVRWGKNVGSANT 193 (254)
Q Consensus 116 ~~spLaLAYIGDAVYELyVR~~ll~~~--~kv~~Lhk~v~~~VsAkAQA~ll~~Ll~e~~LTEEE~~IvRRGRNaks~~t 193 (254)
..+--.|+|+||+|++++|+.+++... .+.+.+|.....+|+.+.++.+...+- |- +.++++++..
T Consensus 18 ~~~~e~Le~lGdavl~~~~~~~l~~~~~~~~~~~l~~~~~~~v~n~~l~~~a~~~g----l~----~~i~~~~~~~---- 85 (133)
T cd00593 18 RFNNERLEFLGDAVLELVVTEYLFKKFPDLSEGDLTRLRSALVSNETLARLARELG----LG----KYLRLGKGEE---- 85 (133)
T ss_pred CcchHHHHHHHHHHHHHHHHHHHHhcCCCCChHHHHHHHHHHHCHHHHHHHHHHcC----cH----HHhccCchHh----
Confidence 367889999999999999999999653 578899999999999999999988873 22 5677776652
Q ss_pred CCCCCCChhHHhhhhhHHHHHHHHhcCC-hhHHHHHHHHh
Q 025342 194 RTKRRAGAAVYNRASSLETLAGYLYLTN-ANRLEDVMSKL 232 (254)
Q Consensus 194 ~~pKna~v~~YR~ATGFEALIGYLYLt~-~eRL~EL~~~l 232 (254)
.++.....+..|++||||||++||.+ .++..++|..+
T Consensus 86 --~~~~~~~~k~~ad~~eAliGAiyld~g~~~~~~~i~~~ 123 (133)
T cd00593 86 --KSGGRLRPKILADVFEALIGAIYLDGGFEAARKFLLRL 123 (133)
T ss_pred --hcCCcccccHHHHHHHHHHHHHHHhCCHHHHHHHHHHH
Confidence 23456788899999999999999996 78999998874
No 4
>smart00535 RIBOc Ribonuclease III family.
Probab=99.35 E-value=3.3e-12 Score=100.04 Aligned_cols=101 Identities=24% Similarity=0.317 Sum_probs=82.0
Q ss_pred ChHHHHHHhhHHHHHHHHHHhhCC--CCChhHHhHhhhheeechhHHHHHHHhhcCCCCCHHHHHHHHhhcCCCCCCCCC
Q 025342 118 NAASLAYIGDCIYELYARRHFLFP--PLSIEEYNNRVMAVVRCETQDALLQKLLNDSYLSAEERDVVRWGKNVGSANTRT 195 (254)
Q Consensus 118 spLaLAYIGDAVYELyVR~~ll~~--~~kv~~Lhk~v~~~VsAkAQA~ll~~Ll~e~~LTEEE~~IvRRGRNaks~~t~~ 195 (254)
+-..|+||||+|++++|+.+++.. ....+.+|.....+|+.+.++.+..++- |. +.++++++...
T Consensus 18 ~~e~Le~lGd~vl~~~v~~~l~~~~p~~~~~~l~~~~~~lvsn~~la~~a~~~~----l~----~~i~~~~~~~~----- 84 (129)
T smart00535 18 HNERLEFLGDAVLELVVTEYLYKKYPDLSEGDLSRLRSALVSNETLARLAKKLG----LG----EFIRLGRGEAI----- 84 (129)
T ss_pred chHHHHHHHHHHHHHHHHHHHHHhCCCCCchHHHHHHHHHHCHHHHHHHHHHCC----cH----HHHccCchHhh-----
Confidence 567899999999999999999964 3467889999999999999999988873 22 56777776532
Q ss_pred CCCCChhHHhhhhhHHHHHHHHhcCC-hhHHHHHHHHh
Q 025342 196 KRRAGAAVYNRASSLETLAGYLYLTN-ANRLEDVMSKL 232 (254)
Q Consensus 196 pKna~v~~YR~ATGFEALIGYLYLt~-~eRL~EL~~~l 232 (254)
++.....+..|++|||+||++|+.+ .++..+++..+
T Consensus 85 -~~~~~~~k~~a~~~eAliGAi~ld~g~~~~~~~i~~~ 121 (129)
T smart00535 85 -SGGRDKPSILADVFEALIGAIYLDSGLEAAREFIRDL 121 (129)
T ss_pred -cCCcccchHHHHHHHHHHHHHHHhCCHHHHHHHHHHH
Confidence 2234678899999999999999995 78888887653
No 5
>PRK00102 rnc ribonuclease III; Reviewed
Probab=98.91 E-value=4.7e-09 Score=90.33 Aligned_cols=100 Identities=24% Similarity=0.384 Sum_probs=75.4
Q ss_pred hHHHHHHhhHHHHHHHHHHhhC--CCCChhHHhHhhhheeechhHHHHHHHhhcCCCCCHHHHHHHHhhcCCCCCCCCCC
Q 025342 119 AASLAYIGDCIYELYARRHFLF--PPLSIEEYNNRVMAVVRCETQDALLQKLLNDSYLSAEERDVVRWGKNVGSANTRTK 196 (254)
Q Consensus 119 pLaLAYIGDAVYELyVR~~ll~--~~~kv~~Lhk~v~~~VsAkAQA~ll~~Ll~e~~LTEEE~~IvRRGRNaks~~t~~p 196 (254)
=-.|+||||+|++++|..+++. +..+...++.....+|+.+.++.+...+- |. +.+++|++..... .+
T Consensus 41 nerLefLGDavl~~~v~~~l~~~~p~~~~g~l~~~~~~lvsn~~la~~a~~lg----l~----~~i~~~~~~~~~~--~~ 110 (229)
T PRK00102 41 NERLEFLGDAVLELVVSEYLFKRFPDLDEGDLSKLRAALVREESLAEIARELG----LG----EYLLLGKGEEKSG--GR 110 (229)
T ss_pred chhHHHHHHHHHHHHHHHHHHHHCCCCChhHHHHHHHHHhCHHHHHHHHHHCC----cH----HHHccCcHHHHcC--CC
Confidence 3789999999999999999984 34578889999999999999999988872 32 4566666431110 11
Q ss_pred CCCChhHHhhhhhHHHHHHHHhcC-ChhHHHHHHHHh
Q 025342 197 RRAGAAVYNRASSLETLAGYLYLT-NANRLEDVMSKL 232 (254)
Q Consensus 197 Kna~v~~YR~ATGFEALIGYLYLt-~~eRL~EL~~~l 232 (254)
++.. -.|+.|||+||.+|+. |.++..+++..+
T Consensus 111 ~~~k----~~ad~~EA~iGAiyld~g~~~~~~~i~~~ 143 (229)
T PRK00102 111 RRPS----ILADAFEALIGAIYLDQGLEAARKFILRL 143 (229)
T ss_pred CCcc----HHHHHHHHHHHHHHHhCCHHHHHHHHHHH
Confidence 1111 2699999999999999 478888887655
No 6
>TIGR02191 RNaseIII ribonuclease III, bacterial. This family consists of bacterial examples of ribonuclease III. This enzyme cleaves double-stranded rRNA. It is involved in processing ribosomal RNA precursors. It is found even in minimal genones such as Mycoplasma genitalium and Buchnera aphidicola, and in some cases has been shown to be an essential gene. These bacterial proteins contain a double-stranded RNA binding motif (pfam00035) and a ribonuclease III domain (pfam00636). Eukaryotic homologs tend to be much longer proteins with additional domains, localized to the nucleus, and not included in this family.
Probab=98.70 E-value=7e-08 Score=82.28 Aligned_cols=101 Identities=26% Similarity=0.336 Sum_probs=75.2
Q ss_pred ChHHHHHHhhHHHHHHHHHHhhC--CCCChhHHhHhhhheeechhHHHHHHHhhcCCCCCHHHHHHHHhhcCCCCCCCCC
Q 025342 118 NAASLAYIGDCIYELYARRHFLF--PPLSIEEYNNRVMAVVRCETQDALLQKLLNDSYLSAEERDVVRWGKNVGSANTRT 195 (254)
Q Consensus 118 spLaLAYIGDAVYELyVR~~ll~--~~~kv~~Lhk~v~~~VsAkAQA~ll~~Ll~e~~LTEEE~~IvRRGRNaks~~t~~ 195 (254)
+=-.|+||||+|.+++|..+++. +..+...++.....+|+.+.++.+...+- | .+.++++++..... .
T Consensus 34 ~nerLe~lGd~vl~~~~~~~l~~~~p~~~~~~l~~~~~~lvsn~~la~~a~~~g----l----~~~i~~~~~~~~~~--~ 103 (220)
T TIGR02191 34 NNERLEFLGDAVLGLVVAEYLFKNFPDLSEGELSKLRAALVSEESLAEVARELG----L----GKFLLLGKGEEKSG--G 103 (220)
T ss_pred chHHHHHHHHHHHHHHHHHHHHHhCCCCCchHHHHHHHHHhCHHHHHHHHHHCC----c----HHHhccCchHhhcC--C
Confidence 55689999999999999999996 34678889999999999999999988772 3 23455554321100 0
Q ss_pred CCCCChhHHhhhhhHHHHHHHHhcCC-hhHHHHHHHHh
Q 025342 196 KRRAGAAVYNRASSLETLAGYLYLTN-ANRLEDVMSKL 232 (254)
Q Consensus 196 pKna~v~~YR~ATGFEALIGYLYLt~-~eRL~EL~~~l 232 (254)
++ ..--.|+.|||+||.+|+.+ .+++.+++..+
T Consensus 104 -~~---~~k~~ad~~eAliGAiyld~g~~~~~~~i~~~ 137 (220)
T TIGR02191 104 -RR---RESILADAFEALIGAIYLDSGLEAARKFILKL 137 (220)
T ss_pred -cc---cchHHHHHHHHHHHHHHHhCCHHHHHHHHHHH
Confidence 00 01246999999999999995 78888887765
No 7
>PRK12371 ribonuclease III; Reviewed
Probab=97.99 E-value=4.7e-05 Score=68.15 Aligned_cols=98 Identities=26% Similarity=0.339 Sum_probs=67.6
Q ss_pred ChHHHHHHhhHHHHHHHHHHhhCC--CCChhHHhHhhhheeechhHHHHHHHhhcCCCCCHHHHHHHHhhcCCCCCCCCC
Q 025342 118 NAASLAYIGDCIYELYARRHFLFP--PLSIEEYNNRVMAVVRCETQDALLQKLLNDSYLSAEERDVVRWGKNVGSANTRT 195 (254)
Q Consensus 118 spLaLAYIGDAVYELyVR~~ll~~--~~kv~~Lhk~v~~~VsAkAQA~ll~~Ll~e~~LTEEE~~IvRRGRNaks~~t~~ 195 (254)
|=--|+|+||||.++.|=.+++.. ..+..+|++.-..+|+.+.-+.+...+- | .+.++.|.+..... .
T Consensus 45 ~~eRLEFLGDavL~l~vs~~Lf~~~p~~~eG~Lt~~rs~lV~n~~La~ia~~lg----L----~~~i~~~~~~~~~~--~ 114 (235)
T PRK12371 45 NYERLEFLGDRVLGLCVAEMLFEAFPDASEGELSVRLNQLVNAETCAAIADEIG----L----HDLIRTGSDVKKLT--G 114 (235)
T ss_pred chHhHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHhChHHHHHHHHHCC----c----HHHhccCcchhhcC--C
Confidence 446799999999999999998853 4578889888888999998888877762 3 23445554432211 1
Q ss_pred CCCCChhHHhhhhhHHHHHHHHhcCC-hhHHHHHH
Q 025342 196 KRRAGAAVYNRASSLETLAGYLYLTN-ANRLEDVM 229 (254)
Q Consensus 196 pKna~v~~YR~ATGFEALIGYLYLt~-~eRL~EL~ 229 (254)
.++. --.|+.||||||-+||.+ .+=..+++
T Consensus 115 ~~~~----~ilad~~EAliGAiylD~G~~~a~~~i 145 (235)
T PRK12371 115 KRLL----NVRADVVEALIAAIYLDGGLEAARPFI 145 (235)
T ss_pred cccc----hHHHHHHHHHHHHHHHcCCHHHHHHHH
Confidence 1221 234999999999999994 44333333
No 8
>PRK14718 ribonuclease III; Provisional
Probab=97.95 E-value=4.8e-05 Score=75.03 Aligned_cols=100 Identities=18% Similarity=0.248 Sum_probs=72.2
Q ss_pred hHHHHHHhhHHHHHHHHHHhhC--CCCChhHHhHhhhheeechhHHHHHHHhhcCCCCCHHHHHHHHhhcCCCCCCCCCC
Q 025342 119 AASLAYIGDCIYELYARRHFLF--PPLSIEEYNNRVMAVVRCETQDALLQKLLNDSYLSAEERDVVRWGKNVGSANTRTK 196 (254)
Q Consensus 119 pLaLAYIGDAVYELyVR~~ll~--~~~kv~~Lhk~v~~~VsAkAQA~ll~~Ll~e~~LTEEE~~IvRRGRNaks~~t~~p 196 (254)
=--|.||||+|.+++|=.+|+. +..+...|.+.-..+|+-+.-+.+-+.|- |. +.++.|++..... ..
T Consensus 34 NERLEFLGDAVL~liVse~Lf~~fPdl~EGeLT~LRS~LVSnetLA~IAr~LG----L~----d~Lrlg~gE~~sg--G~ 103 (467)
T PRK14718 34 NERLEFLGDSVLNCAVAALLFQRFGKLDEGDLSRVRANLVKQQSLYEIAQALN----IS----DGLRLGEGELRSG--GF 103 (467)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHhhhHHHHHHHHHcC----ch----HHHhhCCcccccC--CC
Confidence 3679999999999999999984 34578889988888999998888877762 33 2455554331100 01
Q ss_pred CCCChhHHhhhhhHHHHHHHHhcCC-hhHHHHHHHHh
Q 025342 197 RRAGAAVYNRASSLETLAGYLYLTN-ANRLEDVMSKL 232 (254)
Q Consensus 197 Kna~v~~YR~ATGFEALIGYLYLt~-~eRL~EL~~~l 232 (254)
+ ..--.|..||||||-+||.. .+..+++|..+
T Consensus 104 ~----~~sILADvFEALIGAIYLDsG~e~a~~fI~~l 136 (467)
T PRK14718 104 R----RPSILADAFEAIIGAVFLDGGFEAAQGVIKRL 136 (467)
T ss_pred C----ChhHHHHHHHHHHHHHHHccCHHHHHHHHHHH
Confidence 1 12237999999999999994 78887776654
No 9
>PRK12372 ribonuclease III; Reviewed
Probab=97.86 E-value=8.7e-05 Score=72.36 Aligned_cols=99 Identities=17% Similarity=0.245 Sum_probs=71.0
Q ss_pred HHHHHHhhHHHHHHHHHHhhC--CCCChhHHhHhhhheeechhHHHHHHHhhcCCCCCHHHHHHHHhhcCCCCCCCCCCC
Q 025342 120 ASLAYIGDCIYELYARRHFLF--PPLSIEEYNNRVMAVVRCETQDALLQKLLNDSYLSAEERDVVRWGKNVGSANTRTKR 197 (254)
Q Consensus 120 LaLAYIGDAVYELyVR~~ll~--~~~kv~~Lhk~v~~~VsAkAQA~ll~~Ll~e~~LTEEE~~IvRRGRNaks~~t~~pK 197 (254)
--|.||||+|.+++|=.+|+. +..+..+|++.-..+|+.+.-+.+-..|- |. +.++-|+...... ...
T Consensus 35 ERLEFLGDAVL~liVse~Lf~~fP~~~EG~LT~lRS~LVsn~tLA~IA~~Lg----L~----~~Lrlg~ge~~sg--g~~ 104 (413)
T PRK12372 35 ERLEFLGDSVLNCAVAALLFQRFGKLDEGDLSRVRANLVKQQSLYEIAQALN----IS----EGLRLGEGELRSG--GFR 104 (413)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHhhhHHHHHHHHHcC----ch----HhhhcCcchhhcC--CCC
Confidence 679999999999999999884 34578889988888999998888877762 32 2344444221100 001
Q ss_pred CCChhHHhhhhhHHHHHHHHhcCC-hhHHHHHHHHh
Q 025342 198 RAGAAVYNRASSLETLAGYLYLTN-ANRLEDVMSKL 232 (254)
Q Consensus 198 na~v~~YR~ATGFEALIGYLYLt~-~eRL~EL~~~l 232 (254)
..--.|..||||||-+||.+ .++..+++..+
T Consensus 105 ----~~kILADvfEALIGAIYLDsG~e~a~~fV~~l 136 (413)
T PRK12372 105 ----RPSILADAFEAIIGAVFLDGGFEAAQGVIKRL 136 (413)
T ss_pred ----CccHHHHHHHHHHHHHHHhCCHHHHHHHHHHH
Confidence 11237999999999999995 88887776655
No 10
>PF14622 Ribonucleas_3_3: Ribonuclease-III-like; PDB: 1O0W_A 2A11_A 3N3W_B.
Probab=97.80 E-value=9e-05 Score=59.79 Aligned_cols=99 Identities=22% Similarity=0.350 Sum_probs=65.2
Q ss_pred HHHHHHhhHHHHHHHHHHhhCCC-CChhHHhHhhhheeechhHHHHHHHhhcCCCCCHHHHHHHHhhcCCCCCCCCCCCC
Q 025342 120 ASLAYIGDCIYELYARRHFLFPP-LSIEEYNNRVMAVVRCETQDALLQKLLNDSYLSAEERDVVRWGKNVGSANTRTKRR 198 (254)
Q Consensus 120 LaLAYIGDAVYELyVR~~ll~~~-~kv~~Lhk~v~~~VsAkAQA~ll~~Ll~e~~LTEEE~~IvRRGRNaks~~t~~pKn 198 (254)
--|+||||+|.+++|-.+++..+ .....+.+....+|+-+.-+.+.+.+- |. .++++|.+... ..
T Consensus 23 erLefLGd~vL~~~vs~~l~~~~~~~~g~l~~~~~~lv~~~~La~~a~~lg----L~----~~i~~~~~~~~------~~ 88 (128)
T PF14622_consen 23 ERLEFLGDAVLGLVVSEYLFQRPPADEGELTRLRSNLVSNETLAEIAKQLG----LD----KLIRWGPGEEK------SG 88 (128)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHTTTSCHHHHHHHHHHHSHHHHHHHHHHTT----CG----GC-B--HHHHH------TT
T ss_pred HHHHHHHHHHHHHHHHHHHHhCcCccchHHHHHHHHHhChHHHHHHHHHCC----HH----HHHHhCccHhh------cC
Confidence 45999999999999999998643 344556666667888888888877763 32 23444321100 00
Q ss_pred CChhHHhhhhhHHHHHHHHhcC-ChhHHHHHHHHh
Q 025342 199 AGAAVYNRASSLETLAGYLYLT-NANRLEDVMSKL 232 (254)
Q Consensus 199 a~v~~YR~ATGFEALIGYLYLt-~~eRL~EL~~~l 232 (254)
.....--.|..||||||-+||. |.+..++++.+.
T Consensus 89 ~~~~~~vlad~feAliGAiyld~G~~~a~~~i~~~ 123 (128)
T PF14622_consen 89 GSGSDKVLADVFEALIGAIYLDSGFEAARKFIQKL 123 (128)
T ss_dssp GGG-HHHHHHHHHHHHHHHHHHH-HHHHHHHHHHH
T ss_pred CCCCccHHHhHHHHHHHHHHHHcCHHHHHHHHHHH
Confidence 1112224799999999999999 588888877664
No 11
>COG0571 Rnc dsRNA-specific ribonuclease [Transcription]
Probab=97.26 E-value=0.00087 Score=60.81 Aligned_cols=101 Identities=26% Similarity=0.360 Sum_probs=67.6
Q ss_pred ChHHHHHHhhHHHHHHHHHHhhC--CCCChhHHhHhhhheeechhHHHHHHHhhcCCCCCHHHHHHHHhhcCCCCCCCCC
Q 025342 118 NAASLAYIGDCIYELYARRHFLF--PPLSIEEYNNRVMAVVRCETQDALLQKLLNDSYLSAEERDVVRWGKNVGSANTRT 195 (254)
Q Consensus 118 spLaLAYIGDAVYELyVR~~ll~--~~~kv~~Lhk~v~~~VsAkAQA~ll~~Ll~e~~LTEEE~~IvRRGRNaks~~t~~ 195 (254)
|=--|=||||||-++.|=++|.. +..+-.+|++.-..+|+.++=+.+-+.|- |.+ .++-|+-.... ..
T Consensus 43 ~nERLEFLGDavL~l~vae~Lf~~yP~~~EG~Ls~~ra~lV~~~~La~ia~~l~----l~~----~l~lg~ge~~~--gg 112 (235)
T COG0571 43 NNERLEFLGDAVLGLVVAEYLFKKYPNLPEGELSKLRAALVSEESLAEIARELG----LGD----YLRLGKGEEKS--GG 112 (235)
T ss_pred chHHHHhhHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHHHHhC----ccc----hhhccCChhhc--CC
Confidence 44568899999999999999984 45678889999999999988777766652 221 22233222110 01
Q ss_pred CCCCChhHHhhhhhHHHHHHHHhcCC-hhHHHHHHHHh
Q 025342 196 KRRAGAAVYNRASSLETLAGYLYLTN-ANRLEDVMSKL 232 (254)
Q Consensus 196 pKna~v~~YR~ATGFEALIGYLYLt~-~eRL~EL~~~l 232 (254)
.++ +=-.|.+||||||-+||.. .+-.++++..+
T Consensus 113 ~~~----~silaD~~EAligAiylD~g~~~~~~~i~~l 146 (235)
T COG0571 113 RRR----ESILADAFEALIGAIYLDSGLEAARKFILKL 146 (235)
T ss_pred CCc----hhHHHHHHHHHHHHHHHhCChHHHHHHHHHH
Confidence 121 2235899999999999994 55555544443
No 12
>KOG1817 consensus Ribonuclease [RNA processing and modification]
Probab=93.34 E-value=0.54 Score=47.38 Aligned_cols=100 Identities=20% Similarity=0.223 Sum_probs=65.6
Q ss_pred HHHHHhhHHHHHHHHHHhhC--CCCChhHHhHhhhheeechhHHHHHHHhhcCCCCCHHHHHHHHhhcCCCCCCCCCCCC
Q 025342 121 SLAYIGDCIYELYARRHFLF--PPLSIEEYNNRVMAVVRCETQDALLQKLLNDSYLSAEERDVVRWGKNVGSANTRTKRR 198 (254)
Q Consensus 121 aLAYIGDAVYELyVR~~ll~--~~~kv~~Lhk~v~~~VsAkAQA~ll~~Ll~e~~LTEEE~~IvRRGRNaks~~t~~pKn 198 (254)
-|-|+||+|+.|.+-.++.. +...-..|-..-..+|+-+.|+++-..+ -++|- .|. |-.. .+-
T Consensus 313 RLEFLGDSilqlv~T~ily~kFPdhhEGhLSlLRssLVsNetqakva~~l----gf~e~--li~----n~~~-----k~~ 377 (533)
T KOG1817|consen 313 RLEFLGDSILQLVMTEILYRKFPDHHEGHLSLLRSSLVSNETQAKVADDL----GFHEY--LIT----NFDL-----KDF 377 (533)
T ss_pred HHHHhHHHHHHHHHHHHHHHhCCccccchHHHHHHHHhccHHHHHHHHHh----CCchh--hhh----Ccch-----hhh
Confidence 47799999999999988873 3334455556667799999999886655 23332 221 2110 011
Q ss_pred CChhHHhhhhhHHHHHHHHhcCC-hhHHHHHHHHhCCC
Q 025342 199 AGAAVYNRASSLETLAGYLYLTN-ANRLEDVMSKLGFT 235 (254)
Q Consensus 199 a~v~~YR~ATGFEALIGYLYLt~-~eRL~EL~~~lg~s 235 (254)
.....==+|.-|||.||-||+.+ .+-+.+.+..|-+.
T Consensus 378 ~~lk~K~~ADlfEAfiGaLyvD~~le~~~qf~~~l~~P 415 (533)
T KOG1817|consen 378 QNLKLKDYADLFEAFIGALYVDKGLEYCRQFLRVLFFP 415 (533)
T ss_pred hhhhHHHHHHHHHHHHHHHhhcCCcHHHHHHHHHHhhH
Confidence 11222235889999999999996 67777777666543
No 13
>KOG1817 consensus Ribonuclease [RNA processing and modification]
Probab=74.40 E-value=5.5 Score=40.45 Aligned_cols=100 Identities=24% Similarity=0.312 Sum_probs=61.8
Q ss_pred HHHHHHhhHHHHHHHHHHhhCC-C-CChhHHhHhhhheeechhHHHHHHHhhcCCCCCHHHHHHHHhhcCCCCCCCCCCC
Q 025342 120 ASLAYIGDCIYELYARRHFLFP-P-LSIEEYNNRVMAVVRCETQDALLQKLLNDSYLSAEERDVVRWGKNVGSANTRTKR 197 (254)
Q Consensus 120 LaLAYIGDAVYELyVR~~ll~~-~-~kv~~Lhk~v~~~VsAkAQA~ll~~Ll~e~~LTEEE~~IvRRGRNaks~~t~~pK 197 (254)
--|-|+||||=|+..=.++.+. + ....-|-......|.-..=+.+.+.| --+|...+--| +-
T Consensus 133 Erle~lgdavve~~ss~hl~~~~~r~~eggLatyrta~vqnr~la~lakkl------rkd~fl~yahg----------~d 196 (533)
T KOG1817|consen 133 ERLEFLGDAVVELLSSNHLYFMFPRLEEGGLATYRTAIVQNRHLAKLAKKL------RKDEFLLYAHG----------YD 196 (533)
T ss_pred HHHHHHhhccHHHHHHHHHHHccccccccchhHHHHHHHHhHHHHHHHHHH------HHHHHHHHhcC----------cc
Confidence 3588999999999888887752 2 22332322223334433334444444 34454444333 45
Q ss_pred CCChhHHhhhh--hHHHHHHHHhcCC-hhHHHHHHHHhCCC
Q 025342 198 RAGAAVYNRAS--SLETLAGYLYLTN-ANRLEDVMSKLGFT 235 (254)
Q Consensus 198 na~v~~YR~AT--GFEALIGYLYLt~-~eRL~EL~~~lg~s 235 (254)
++-..+.|+|+ .|||+||-.||.+ ..--++++...-+.
T Consensus 197 l~~~~E~Kha~an~feavi~a~~l~g~~~~~e~lfs~~~~~ 237 (533)
T KOG1817|consen 197 LCFETELKHAMANCFEAVIGAKYLDGGLVVAEKLFSRALFV 237 (533)
T ss_pred hhhHHHHHHHHHHHHHHHhHHHHHhcchHHHHHHHHHHhhc
Confidence 66678888855 6999999999997 55666666665554
No 14
>COG3078 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=62.79 E-value=7.1 Score=34.58 Aligned_cols=18 Identities=28% Similarity=0.689 Sum_probs=15.8
Q ss_pred hhHHHHHHHHhCCCCCCc
Q 025342 222 ANRLEDVMSKLGFTNGSS 239 (254)
Q Consensus 222 ~eRL~EL~~~lg~s~~~~ 239 (254)
-+||.+||++||++.|.+
T Consensus 135 LDRI~~LMe~LGl~~ddd 152 (169)
T COG3078 135 LDRIDELMEKLGLSYDDD 152 (169)
T ss_pred HHHHHHHHHHhCCccCCc
Confidence 589999999999996665
No 15
>cd08324 CARD_NOD1_CARD4 Caspase activation and recruitment domain similar to that found in NOD1. Caspase activation and recruitment domain (CARD) found in human NOD1 (CARD4) and similar proteins. NOD1 is a member of the Nod-like receptor (NLR) family, which plays a central role in the innate immune response. NLRs typically contain an N-terminal effector domain, a central nucleotide-binding domain and a C-terminal ligand-binding region of several leucine-rich repeats (LRRs). In NOD1, as well as NOD2, the N-terminal effector domain is a CARD. Nod1-CARD has been shown to interact with the CARD domain of the downstream effector RICK (RIP2, CARDIAK), a serine/threonine kinase. In general, CARDs are death domains (DDs) found associated with caspases. They are known to be important in the signaling pathways for apoptosis, inflammation, and host-defense mechanisms. DDs are protein-protein interaction domains found in a variety of domain architectures. Their common feature is that they form hom
Probab=47.25 E-value=19 Score=28.95 Aligned_cols=27 Identities=26% Similarity=0.476 Sum_probs=23.0
Q ss_pred HHHHHHhhcCCCCCHHHHHHHHhhcCC
Q 025342 162 DALLQKLLNDSYLSAEERDVVRWGKNV 188 (254)
Q Consensus 162 A~ll~~Ll~e~~LTEEE~~IvRRGRNa 188 (254)
.-+++.|+..++||+||-++++.++-.
T Consensus 18 ~plLD~Ll~n~~it~E~y~~V~a~~T~ 44 (85)
T cd08324 18 QCLVDNLLKNDYFSTEDAEIVCACPTQ 44 (85)
T ss_pred HHHHHHHhccCCccHHHHHHHHhCCCC
Confidence 357888998899999999999988654
No 16
>cd08329 CARD_BIRC2_BIRC3 Caspase activation and recruitment domain found in Baculoviral IAP repeat-containing proteins, BIRC2 (c-IAP1) and BIRC3 (c-IAP2). Caspase activation and recruitment domain (CARD) similar to those found in Baculoviral IAP repeat (BIR)-containing protein 2 (BIRC2) or cellular Inhibitor of Apoptosis Protein 1 (c-IAP1), and BIRC3 (or c-IAP2). IAPs are anti-apoptotic proteins that contain at least one BIR domain. Most IAPs also contain a C-terminal RING domain. In addition, both BIRC2 and BIRC3 contain a CARD. BIRC2 and BIRC3, through their binding with TRAF (TNF receptor-associated factor) 2, are recruited to TNFR-1/2 signaling complexes, where they regulate caspase-8 activity. They also play important roles in pro-survival NF-kB signaling pathways. In general, CARDs are death domains (DDs) found associated with caspases. They are known to be important in the signaling pathways for apoptosis, inflammation and host-defense mechanisms. DDs are protein-protein interac
Probab=45.09 E-value=17 Score=28.68 Aligned_cols=54 Identities=15% Similarity=0.240 Sum_probs=38.4
Q ss_pred HHHHHHhhcCCCCCHHHHHHHHhhcCCCCCCCCCCCCCChhHHhhhhhHHHHHHHHh
Q 025342 162 DALLQKLLNDSYLSAEERDVVRWGKNVGSANTRTKRRAGAAVYNRASSLETLAGYLY 218 (254)
Q Consensus 162 A~ll~~Ll~e~~LTEEE~~IvRRGRNaks~~t~~pKna~v~~YR~ATGFEALIGYLY 218 (254)
..++..|++.+.||++|.+.++...+.. .+ ..+=-+...=|=.+||++++-+|-
T Consensus 26 ~~ilD~Ll~~~Vlt~ee~e~I~~~~t~~-~q--Ar~Lld~l~~KG~~A~~~F~~~L~ 79 (94)
T cd08329 26 LPILDSLLSANVITEQEYDVIKQKTQTP-LQ--ARELIDTVLVKGNAAAEVFRNCLK 79 (94)
T ss_pred HHHHHHHHHcCCCCHHHHHHHHcCCChH-HH--HHHHHHHHHhhhHHHHHHHHHHHH
Confidence 4689999999999999999999865542 11 111123444555789999999883
No 17
>cd08788 CARD_NOD2_2_CARD15 Caspase activation and recruitment domain of NOD2, repeat 2. Caspase activation and recruitment domain (CARD) similar to that found in human NOD2 (CARD15), repeat 2. NOD2 is a member of the Nod-like receptor (NLR) family, which plays a central role in the innate immune response. NLRs typically contain an N-terminal effector domain, a central nucleotide-binding domain and a C-terminal ligand-binding region of several leucine-rich repeats (LRRs). In NOD2, as well as NOD1, the N-terminal effector domain is a CARD. NOD2 contains two N-terminal CARD repeats. Mutations in NOD2 have been associated with Crohns disease and Blau syndrome. Nod2-CARDs have been shown to interact with the CARD domain of the downstream effector RICK (RIP2, CARDIAK), a serine/threonine kinase. In general, CARDs are death domains (DDs) found associated with caspases. They are known to be important in the signaling pathways for apoptosis, inflammation, and host-defense mechanisms. DDs are pr
Probab=43.85 E-value=13 Score=29.61 Aligned_cols=55 Identities=20% Similarity=0.228 Sum_probs=40.7
Q ss_pred HHHHHHhhcCCCCCHHHHHHHHhhcCCCCCCCCCCCCCChhHHhhhhhHHHHHHHHh
Q 025342 162 DALLQKLLNDSYLSAEERDVVRWGKNVGSANTRTKRRAGAAVYNRASSLETLAGYLY 218 (254)
Q Consensus 162 A~ll~~Ll~e~~LTEEE~~IvRRGRNaks~~t~~pKna~v~~YR~ATGFEALIGYLY 218 (254)
..+|+.|++.|++|++|.+.+|.--|+.+.+ ..+=-|..--+-..|+..|++|+-
T Consensus 17 ~~~Ld~ll~~G~is~~Ecd~Ir~p~~T~sqq--ARrLLD~V~~KG~~A~~~ll~~vq 71 (81)
T cd08788 17 DGALELLLTRGFFSSYDCDEIRLPIFTPSQQ--ARRLLDLVKAKGEGAAKFLLEYVQ 71 (81)
T ss_pred HHHHHHHHHcCCccHhhcchhhcCCCChHHH--HHHHHHHHHHHhHHHHHHHHHHHH
Confidence 5788999999999999999999865554432 123355566677788888888863
No 18
>cd08332 CARD_CASP2 Caspase activation and recruitment domain of Caspase-2. Caspase activation and recruitment domain (CARD) similar to that found in caspase-2. Caspases are aspartate-specific cysteine proteases with functions in apoptosis and immune signaling. Caspase-2 (also known as ICH1, NEDD2, or CASP2) is one of the most evolutionarily conserved caspases, and plays a role in apoptosis, DNA damage response, cell cycle regulation, and tumor suppression. It is localized in the nucleus and exhibits properties of both an initiator and an effector caspase. In general, CARDs are death domains (DDs) found associated with caspases. They are known to be important in the signaling pathways for apoptosis, inflammation, and host-defense mechanisms. 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 PYRIN and
Probab=42.59 E-value=33 Score=26.73 Aligned_cols=67 Identities=18% Similarity=0.144 Sum_probs=46.7
Q ss_pred HHHHHHhhcCCCCCHHHHHHHHhhcCCCCCCCCCCCCCChhHHhhhhhHHHHHHHHhcCChhHHHHHHHH
Q 025342 162 DALLQKLLNDSYLSAEERDVVRWGKNVGSANTRTKRRAGAAVYNRASSLETLAGYLYLTNANRLEDVMSK 231 (254)
Q Consensus 162 A~ll~~Ll~e~~LTEEE~~IvRRGRNaks~~t~~pKna~v~~YR~ATGFEALIGYLYLt~~eRL~EL~~~ 231 (254)
..++..|..++.||+++.+.++....... +..|=-+.-.=|=-+||.++.-.|-=+++.-|.+++++
T Consensus 23 ~~v~~~L~~~gvlt~~~~~~I~~~~t~~~---k~~~Lld~L~~RG~~AF~~F~~aL~~~~~~~La~lL~~ 89 (90)
T cd08332 23 DELLIHLLQKDILTDSMAESIMAKPTSFS---QNVALLNLLPKRGPRAFSAFCEALRETSQEHLCDLLEK 89 (90)
T ss_pred HHHHHHHHHcCCCCHHHHHHHHcCCCcHH---HHHHHHHHHHHhChhHHHHHHHHHHhcChHHHHHHHhh
Confidence 35788899899999999999987543321 01121233444557899999999966567788888764
No 19
>PF03754 DUF313: Domain of unknown function (DUF313) ; InterPro: IPR005508 This is a family of proteins from Arabidopsis thaliana (Mouse-ear cress) with uncharacterised function.
Probab=42.08 E-value=25 Score=29.13 Aligned_cols=24 Identities=21% Similarity=0.652 Sum_probs=19.5
Q ss_pred hhHHHH---HHHhhcCCCCCHHHHHHH
Q 025342 159 ETQDAL---LQKLLNDSYLSAEERDVV 182 (254)
Q Consensus 159 kAQA~l---l~~Ll~e~~LTEEE~~Iv 182 (254)
..|+++ +.+++..+||||||..++
T Consensus 35 ~~qsRLsmP~~qi~~~dFLt~eE~~~i 61 (114)
T PF03754_consen 35 PHQSRLSMPFNQIIDNDFLTEEEKRII 61 (114)
T ss_pred CCCceeeccHHHhcccccCCHHHHHHH
Confidence 356665 677877899999999999
No 20
>cd08323 CARD_APAF1 Caspase activation and recruitment domain similar to that found in Apoptotic Protease-Activating Factor 1. Caspase activation and recruitment domain (CARD) similar to that found in apoptotic protease-activating factor 1 (APAF-1), which is an activator of caspase-9. APAF-1 contains WD-40 repeats, a CARD, and an ATPase domain. Upon stimulation, APAF-1, together with caspase-9, forms the heptameric 'apoptosome', which leads to the processing and activation of caspase-9, starting a caspase cascade which leads to apoptosis. In general, CARDs are death domains (DDs) found associated with caspases. They are known to be important in the signaling pathways for apoptosis, inflammation, and host-defense mechanisms. 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 PYRIN and DED (Death Effect
Probab=40.88 E-value=36 Score=26.72 Aligned_cols=67 Identities=9% Similarity=0.138 Sum_probs=46.2
Q ss_pred HHHHHHhhcCCCCCHHHHHHHHhhcCCCCCCCCCCCCCChhHHhhhhhHHHHHHHHhcCChhHHHHHHHH
Q 025342 162 DALLQKLLNDSYLSAEERDVVRWGKNVGSANTRTKRRAGAAVYNRASSLETLAGYLYLTNANRLEDVMSK 231 (254)
Q Consensus 162 A~ll~~Ll~e~~LTEEE~~IvRRGRNaks~~t~~pKna~v~~YR~ATGFEALIGYLYLt~~eRL~EL~~~ 231 (254)
..++..|+.++.||++|.+.++....... +..+=-+...=|=..||++..--|-=+++.-|.+++..
T Consensus 17 ~~ild~L~~~gvlt~~~~e~I~~~~t~~~---qa~~Lld~L~trG~~Af~~F~~aL~~~~~~~La~lL~~ 83 (86)
T cd08323 17 SYIMDHMISDGVLTLDEEEKVKSKATQKE---KAVMLINMILTKDNHAYVSFYNALLHEGYKDLALLLHD 83 (86)
T ss_pred HHHHHHHHhcCCCCHHHHHHHHcCCChHH---HHHHHHHHHHhcCHHHHHHHHHHHHhcCChHHHHHHhc
Confidence 45899999999999999999998533211 01111234455667888888888776667778887753
No 21
>smart00114 CARD Caspase recruitment domain. Motif contained in proteins involved in apoptotic signalling. Mediates homodimerisation. Structure consists of six antiparallel helices arranged in a topology homologue to the DEATH and the DED domain.
Probab=39.25 E-value=25 Score=26.50 Aligned_cols=54 Identities=15% Similarity=0.212 Sum_probs=38.4
Q ss_pred HHHHHHhhcCCCCCHHHHHHHHhhcCCCCCCCCCCCCCChhHHhhhhhHHHHHHHHh
Q 025342 162 DALLQKLLNDSYLSAEERDVVRWGKNVGSANTRTKRRAGAAVYNRASSLETLAGYLY 218 (254)
Q Consensus 162 A~ll~~Ll~e~~LTEEE~~IvRRGRNaks~~t~~pKna~v~~YR~ATGFEALIGYLY 218 (254)
..++..|++.+.||++|.+-++...+.... ..+-.+...=|-..||++++-+|.
T Consensus 23 ~~vld~L~~~~Vlt~~e~e~i~~~~t~~~~---~~~Lld~l~~kG~~Af~~F~~~L~ 76 (88)
T smart00114 23 DGLLDYLVEKNVLTEKEIEAIKAATTKLRD---KRELVDSLQKRGSQAFDTFLDSLQ 76 (88)
T ss_pred hHHHHHHHHcCCCCHHHHHHHHccCChHHH---HHHHHHHHHhHhHHHHHHHHHHHH
Confidence 479999999999999999999987554211 112223334455789999998884
No 22
>PF04220 YihI: Der GTPase activator (YihI); InterPro: IPR007336 This entry contains Escherichia coli (strain K12) YihI. YihI activates the GTPase activity of Der, a 50S ribosomal subunit stability factor and can therefore be considered a GAP (GTPase activating)-like protein. The stimulation is specific to Der as YihI does not stimulate the GTPase activity of Era or ObgE. The interaction of YihI with Der requires only the C-terminal 78 amino acids of YihI []. A yihI deletion mutant is viable and shows a shorter lag period, but the same post-lag growth rate as a wild-type strain. yihI is expressed during the lag period. Overexpression of yihI inhibits cell growth and biogenesis of the 50S ribosomal subunit []. YihI is an unusual, highly hydrophilic protein with an uneven distribution of charged residues, resulting in an N-terminal region with high pI and a C-terminal region with low pI [].
Probab=39.17 E-value=13 Score=32.95 Aligned_cols=20 Identities=25% Similarity=0.647 Sum_probs=17.1
Q ss_pred hhHHHHHHHHhCCCCCCchh
Q 025342 222 ANRLEDVMSKLGFTNGSSTQ 241 (254)
Q Consensus 222 ~eRL~EL~~~lg~s~~~~~~ 241 (254)
-+|+++||..|||..+.+++
T Consensus 135 LdRi~~Lm~~LGi~~ddd~e 154 (169)
T PF04220_consen 135 LDRIEELMEELGIEDDDDDE 154 (169)
T ss_pred HHHHHHHHHHhCCCcccccc
Confidence 47999999999999777663
No 23
>PF08105 Antimicrobial10: Metchnikowin family; InterPro: IPR012513 This family consists of the metchnikowin family of antimicrobial peptides from Drosophila. metchnikowin is a proline-rich peptide whose expression is immune-inducible. Induction of the metchnikowin gene expression can be mediated either by the TOLL pathway or by the imd gene product. The metchnikowin peptide is unique among the Drosophila antimicrobial peptides in that it is active against both bacteria and fungi [].
Probab=37.59 E-value=20 Score=26.45 Aligned_cols=17 Identities=47% Similarity=0.864 Sum_probs=13.1
Q ss_pred ecccccccccCCCCCCCC
Q 025342 23 ASFDTQQRLSYNPNAPRK 40 (254)
Q Consensus 23 a~~d~~~~~~~n~~~~~~ 40 (254)
--|||.| -|||||.||-
T Consensus 32 piFDTRP-SPFNPN~Prp 48 (52)
T PF08105_consen 32 PIFDTRP-SPFNPNQPRP 48 (52)
T ss_pred CCCCCCC-CCCCCCCCCC
Confidence 4588865 4899999884
No 24
>cd08325 CARD_CASP1-like Caspase activation and recruitment domain found in Caspase-1 and related proteins. Caspase activation and recruitment domain (CARD) similar to those found in Caspase-1 (CASP1, ICE) and related proteins, including CARD-only proteins such as ICEBERG or CARD18, INCA (CARD17), CARD16 (COP1, PSEUDO-ICE), CARD8 (DACAR, NDPP1, TUCAN), and CARD12 (NLRC4), as well as ICE-like caspases such as CASP12, CASP5 (ICH-3) and CASP4 (TX, ICH-2). Caspases are aspartate-specific cysteine proteases with functions in apoptosis and immune signaling. CASP1 plays a central role in the cellular response to a wide variety of microbial and non-microbial stimuli, being activated by the inflammasome or the pyroptosome. CARD8 binds itself and the initiator caspase-9, interfering with the binding of APAF-1 and suppressing caspase-9 activation. CARD12 is a Nod-like receptor (NLR) that plays an important role in the innate immune response to Gram-negative bacteria. Caspase-4 (CASP4), -5 (CASP5),
Probab=36.56 E-value=32 Score=26.46 Aligned_cols=57 Identities=18% Similarity=0.190 Sum_probs=39.3
Q ss_pred HHHHHHhhcCCCCCHHHHHHHHhhcCCCCCCCCCCCC-CChhHHhhhhhHHHHHHHHhcCC
Q 025342 162 DALLQKLLNDSYLSAEERDVVRWGKNVGSANTRTKRR-AGAAVYNRASSLETLAGYLYLTN 221 (254)
Q Consensus 162 A~ll~~Ll~e~~LTEEE~~IvRRGRNaks~~t~~pKn-a~v~~YR~ATGFEALIGYLYLt~ 221 (254)
..++..|++.+.||++|.+.++..-+....+ ++. .+...=|-..||..++.+|.=.|
T Consensus 19 ~~llD~Ll~~~Vl~~~E~e~i~~~~~t~~dk---ar~Lid~v~~KG~~A~~iF~~~L~~~d 76 (83)
T cd08325 19 NGLLDDLLEKNVLNEEEMEKIKEENNTIMDK---ARVLVDSVTEKGQEAGQIFIKHLLNRD 76 (83)
T ss_pred HHHHHHHHHcCCCCHHHHHHHHhccCCHHHH---HHHHHHHHHHHhHHHHHHHHHHHHhcC
Confidence 5788999988999999999999873321110 111 23344566788888888876554
No 25
>PRK05244 Der GTPase activator; Provisional
Probab=33.87 E-value=21 Score=31.90 Aligned_cols=20 Identities=25% Similarity=0.690 Sum_probs=16.4
Q ss_pred hhHHHHHHHHhCCCCCCchh
Q 025342 222 ANRLEDVMSKLGFTNGSSTQ 241 (254)
Q Consensus 222 ~eRL~EL~~~lg~s~~~~~~ 241 (254)
-+|+++||..|||+.+.+++
T Consensus 134 LdRie~LM~~LGI~~edd~~ 153 (177)
T PRK05244 134 LDRIDELMEKLGISDDDDEE 153 (177)
T ss_pred HHHHHHHHHHhCCCcccccc
Confidence 47999999999999766543
No 26
>cd07922 CarBa CarBa is the A subunit of 2-aminophenol 1,6-dioxygenase, which catalyzes the oxidization and subsequent ring-opening of 2-aminophenyl-2,3-diol. CarBa is the A subunit of 2-aminophenol 1,6-dioxygenase, which catalyzes the oxidization and subsequent ring-opening of 2-aminophenyl-2,3-diol. 2-aminophenol 1,6-dioxygenase is a key enzyme in the carbazole degradation pathway isolated from bacterial strains with carbazole degradation ability. The enzyme is a heterotetramer composed of two A and two B subunits. CarB belongs to the class III extradiol dioxygenase family, composed of enzymes which use a non-heme Fe(II) to cleave aromatic rings between a hydroxylated carbon and an adjacent non-hydroxylated carbon. Although the enzyme was originally isolated as a meta-cleavage enzyme for 2'-aminobiphenyl-2,3-diol involved in carbazole degradation, the enzyme has also shown high specificity for 2,3-dihydroxybiphenyl.
Probab=32.78 E-value=64 Score=25.38 Aligned_cols=20 Identities=25% Similarity=0.355 Sum_probs=15.6
Q ss_pred hhcCCCCCHHHHHHHHhhcC
Q 025342 168 LLNDSYLSAEERDVVRWGKN 187 (254)
Q Consensus 168 Ll~e~~LTEEE~~IvRRGRN 187 (254)
++++--|||||++.++.|.=
T Consensus 30 ~~~~~gLt~eE~~aL~~~D~ 49 (81)
T cd07922 30 VFEEYGLTPAERAALREGTF 49 (81)
T ss_pred HHHHcCCCHHHHHHHHccCH
Confidence 44455799999999998843
No 27
>PF09836 DUF2063: Uncharacterized protein conserved in bacteria (DUF2063); InterPro: IPR018640 This entry contains proteins that have no known function. ; PDB: 3DEE_A.
Probab=31.78 E-value=20 Score=27.33 Aligned_cols=24 Identities=21% Similarity=0.329 Sum_probs=19.0
Q ss_pred hHHHHHHhhHHHHHHHHHHhhCCC
Q 025342 119 AASLAYIGDCIYELYARRHFLFPP 142 (254)
Q Consensus 119 pLaLAYIGDAVYELyVR~~ll~~~ 142 (254)
|.+.++|||..|+-.+|.|+...+
T Consensus 53 P~~~~llG~~~f~~la~~y~~~~p 76 (94)
T PF09836_consen 53 PVVRALLGEEFFDALARAYIRAHP 76 (94)
T ss_dssp TTGGGGS-HHHHHHHHHHHHHSGG
T ss_pred HHHHHHhCHHHHHHHHHHHHHhCC
Confidence 456689999999999999988644
No 28
>PF05436 MF_alpha_N: Mating factor alpha precursor N-terminus; InterPro: IPR008675 This entry contains the N-terminal regions of the Saccharomyces mating factor alpha precursor protein. All proteins in this family contain one or more copies of IPR006742 from INTERPRO further toward their C terminus.; GO: 0007618 mating, 0005576 extracellular region
Probab=30.94 E-value=17 Score=29.14 Aligned_cols=12 Identities=42% Similarity=0.689 Sum_probs=10.8
Q ss_pred HHHHHHHhcCCh
Q 025342 211 ETLAGYLYLTNA 222 (254)
Q Consensus 211 EALIGYLYLt~~ 222 (254)
||+||||=|.+.
T Consensus 36 EAiiGyLDl~~d 47 (86)
T PF05436_consen 36 EAIIGYLDLGGD 47 (86)
T ss_pred HHHhceeccCCC
Confidence 999999999973
No 29
>PF14163 SieB: Superinfection exclusion protein B
Probab=30.51 E-value=59 Score=26.94 Aligned_cols=27 Identities=30% Similarity=0.267 Sum_probs=18.1
Q ss_pred hHHHHHHHhhcCCCCCHHHHHHHHhhcCCC
Q 025342 160 TQDALLQKLLNDSYLSAEERDVVRWGKNVG 189 (254)
Q Consensus 160 AQA~ll~~Ll~e~~LTEEE~~IvRRGRNak 189 (254)
.|..+-+.+. .||++|++|++=--+.+
T Consensus 68 ~~~~~~~~l~---~Lt~~EkavL~~~~~~~ 94 (151)
T PF14163_consen 68 KKKKIEKKLN---SLTPEEKAVLREFYIQG 94 (151)
T ss_pred HHHHHHHHHH---hCCHHHHHHHHHHHHCC
Confidence 3444444443 69999999998765554
No 30
>PF00619 CARD: Caspase recruitment domain; InterPro: IPR001315 The caspase recruitment domain domain (CARD) is a homotypic protein interaction module composed of a bundle of six alpha-helices. CARD is related in sequence and structure to the death domain (DD, see IPR000488 from INTERPRO) and the death effector domain (DED, see IPR001875 from INTERPRO), which work in similar pathways and show similar interaction properties []. The CARD domain typically associates with other CARD-containing proteins, forming either dimers or trimers. CARD domains can be found in isolation, or in combination with other domains. Domains associated with CARD include: NACHT (IPR007111 from INTERPRO) (in Nal1 and Bir1), NB-ARC (IPR002182 from INTERPRO) (in Apaf-1), pyrin/dapin domains (IPR004020 from INTERPRO) (in Nal1), leucine-rich repeats () (in Nal1), WD repeats (IPR001680 from INTERPRO) (in Apaf1), Src homology domains (IPR001452 from INTERPRO), PDZ (IPR001478 from INTERPRO), RING, kinase and DD domains []. CARD-containing proteins are involved in apoptosis through their regulation of caspases that contain CARDs in their N-terminal pro-domains, including human caspases 1, 2, 9, 11 and 12 []. CARD-containing proteins are also involved in inflammation through their regulation of NF-kappaB []. The mechanisms by which CARDs activate caspases and NF-kappaB involve the assembly of multi-protein complexes, which can facilitate dimerisation or serve as scaffolds on which proteases and kinases are assembled and activated.; GO: 0005515 protein binding, 0042981 regulation of apoptosis, 0005622 intracellular; PDB: 2NSN_A 2NZ7_B 2DBD_A 4E9M_C 2B1W_A 3YGS_P 2KN6_A 3CRD_A 1DGN_A 3KAT_A ....
Probab=27.87 E-value=73 Score=23.16 Aligned_cols=56 Identities=16% Similarity=0.215 Sum_probs=35.4
Q ss_pred HHHHHHHhhcCCCCCHHHHHHHHhhcCCCCCCCCCCCCCChhHHhhhhhHHHHHHHHhc
Q 025342 161 QDALLQKLLNDSYLSAEERDVVRWGKNVGSANTRTKRRAGAAVYNRASSLETLAGYLYL 219 (254)
Q Consensus 161 QA~ll~~Ll~e~~LTEEE~~IvRRGRNaks~~t~~pKna~v~~YR~ATGFEALIGYLYL 219 (254)
=..++..|.+.+.||++|.+.++....... +..+=-++..-|-..||..++..|-=
T Consensus 18 ~~~ild~L~~~~vlt~~e~e~I~~~~t~~~---k~~~LLd~l~~kg~~a~~~F~~~L~~ 73 (85)
T PF00619_consen 18 LDDILDHLLSRGVLTEEEYEEIRSEPTRQD---KARKLLDILKRKGPEAFDIFCQALRE 73 (85)
T ss_dssp HHHHHHHHHHTTSSSHHHHHHHHTSSSHHH---HHHHHHHHHHHCCHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHCCCCCHHHHHHHHccCChHH---HHHHHHHHHHHHCHHHHHHHHHHHHh
Confidence 356889999999999999999998322110 00111233444556777777766644
No 31
>COG4805 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=27.47 E-value=1.9e+02 Score=30.43 Aligned_cols=42 Identities=24% Similarity=0.279 Sum_probs=29.3
Q ss_pred hhHHHHHHHHHHhhCCCCChhHHhHhhhheeec-hhH-HHHHHHh
Q 025342 126 GDCIYELYARRHFLFPPLSIEEYNNRVMAVVRC-ETQ-DALLQKL 168 (254)
Q Consensus 126 GDAVYELyVR~~ll~~~~kv~~Lhk~v~~~VsA-kAQ-A~ll~~L 168 (254)
||+.|...+|.|-- ....++++|+-...-|.. ++| .+++++|
T Consensus 267 G~a~Ya~~~~~~TT-t~~tPdeihqlGL~eva~i~aqm~~~~~~~ 310 (588)
T COG4805 267 GDAYYAFALHLYTT-TDLTPDEIHQLGLEEVARIEAQMDQVAKQL 310 (588)
T ss_pred chHHHHHHHHHHhc-cCCCHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 89999999998854 456899999887776644 333 2344444
No 32
>PF09422 WTX: WTX protein; InterPro: IPR019003 This entry contains proteins that have no known function. The entry includes the WTX protein, which is an X chromosome gene; Wilms' tumor gene on the X chromosome (WTX) []. WTX protein is a protein encoded by a gene mutated in Wilms tumors and it forms a complex with beta-catenin, AXIN1 and beta-TrCP2 (beta-transducin repeat-containing protein 2) []. The WTX protein is found to be inactivated in one third of Wilms' tumours [].
Probab=26.98 E-value=24 Score=35.80 Aligned_cols=11 Identities=64% Similarity=1.358 Sum_probs=9.9
Q ss_pred HHHhhHHHHHH
Q 025342 123 AYIGDCIYELY 133 (254)
Q Consensus 123 AYIGDAVYELy 133 (254)
.|-|||.||||
T Consensus 430 SySGDALYely 440 (471)
T PF09422_consen 430 SYSGDALYELY 440 (471)
T ss_pred CccchhHHHhh
Confidence 47899999999
No 33
>CHL00027 rps15 ribosomal protein S15
Probab=26.87 E-value=68 Score=25.84 Aligned_cols=62 Identities=21% Similarity=0.232 Sum_probs=40.1
Q ss_pred heeechhHHHHHHHhhcCCCCCHHHHHHHHhhcCCCCCCCCCCCCCChhHHhhhhhHHH-------HHHHHhcCChhHHH
Q 025342 154 AVVRCETQDALLQKLLNDSYLSAEERDVVRWGKNVGSANTRTKRRAGAAVYNRASSLET-------LAGYLYLTNANRLE 226 (254)
Q Consensus 154 ~~VsAkAQA~ll~~Ll~e~~LTEEE~~IvRRGRNaks~~t~~pKna~v~~YR~ATGFEA-------LIGYLYLt~~eRL~ 226 (254)
..-+++.|.++|-.=+. .||+--. .|.| ||..--||.. |+-||+=+|.+|-.
T Consensus 18 DTGS~evQiA~LT~rI~--~Lt~Hlk------~hkK-------------D~~s~RgL~~lv~kRkrLL~YL~r~d~~~Y~ 76 (90)
T CHL00027 18 NRGSVEFQVFSFTNKIR--RLTSHLE------LHKK-------------DYSSQRGLRKILGKRQRLLAYLSKKNRVRYK 76 (90)
T ss_pred CCCChHHHHHHHHHHHH--HHHHHHH------HCCC-------------cchhHHHHHHHHHHHHHHHHHHHhCCHHHHH
Confidence 45678889877655332 3443321 2332 3333345555 45699999999999
Q ss_pred HHHHHhCCCC
Q 025342 227 DVMSKLGFTN 236 (254)
Q Consensus 227 EL~~~lg~s~ 236 (254)
.+++.||+..
T Consensus 77 ~li~~Lglr~ 86 (90)
T CHL00027 77 KLISQLGIRE 86 (90)
T ss_pred HHHHHhCCCC
Confidence 9999999984
No 34
>TIGR00952 S15_bact ribosomal protein S15, bacterial/organelle. This model is built to recognize specifically bacterial, chloroplast, and mitochondrial ribosomal protein S15. The homologous proteins of Archaea and Eukarya are designated S13.
Probab=25.62 E-value=70 Score=25.35 Aligned_cols=64 Identities=25% Similarity=0.264 Sum_probs=40.4
Q ss_pred hhhheeechhHHHHHHHhhcCCCCCHHHHHHHHhhcCCCCCCCCCCCCCChhHHhhhhhHHH-------HHHHHhcCChh
Q 025342 151 RVMAVVRCETQDALLQKLLNDSYLSAEERDVVRWGKNVGSANTRTKRRAGAAVYNRASSLET-------LAGYLYLTNAN 223 (254)
Q Consensus 151 ~v~~~VsAkAQA~ll~~Ll~e~~LTEEE~~IvRRGRNaks~~t~~pKna~v~~YR~ATGFEA-------LIGYLYLt~~e 223 (254)
.....-+++.|.++|-.=+. .||+--. .|.| ||..--||-. |+.||.=+|.+
T Consensus 15 ~~~DtGS~eVQiA~LT~rI~--~L~~Hl~------~h~K-------------D~~srrgL~~lv~kRkrlL~YL~~~d~~ 73 (86)
T TIGR00952 15 HEKDTGSPEVQIALLTERIN--QLTEHLK------ANKK-------------DHHSRRGLLKLVGRRRRLLKYLKRTDVE 73 (86)
T ss_pred CCCCCCCHHHHHHHHHHHHH--HHHHHHH------HCCC-------------chHHHHHHHHHHHHHHHHHHHHHhCCHH
Confidence 34456788889777655332 3544322 1322 3333334444 56799989999
Q ss_pred HHHHHHHHhCCC
Q 025342 224 RLEDVMSKLGFT 235 (254)
Q Consensus 224 RL~EL~~~lg~s 235 (254)
|-.++++.||+.
T Consensus 74 ~Y~~li~~LglR 85 (86)
T TIGR00952 74 RYRSLIKRLGLR 85 (86)
T ss_pred HHHHHHHHhCCC
Confidence 999999999985
No 35
>PF09851 SHOCT: Short C-terminal domain; InterPro: IPR018649 This family of hypothetical prokaryotic proteins has no known function.
Probab=25.14 E-value=1.3e+02 Score=19.27 Aligned_cols=23 Identities=22% Similarity=0.278 Sum_probs=17.9
Q ss_pred HHHHHHHhhcCCCCCHHHHHHHH
Q 025342 161 QDALLQKLLNDSYLSAEERDVVR 183 (254)
Q Consensus 161 QA~ll~~Ll~e~~LTEEE~~IvR 183 (254)
|=..|+.|.+.|.+|+||-.--|
T Consensus 4 ~L~~L~~l~~~G~IseeEy~~~k 26 (31)
T PF09851_consen 4 RLEKLKELYDKGEISEEEYEQKK 26 (31)
T ss_pred HHHHHHHHHHcCCCCHHHHHHHH
Confidence 44567888889999999986544
No 36
>cd08330 CARD_ASC_NALP1 Caspase activation and recruitment domain found in Human ASC, NALP1, and similar proteins. Caspase activation and recruitment domain (CARD) similar to those found in human ASC (Apoptosis-associated speck-like protein containing a CARD) and NALP1 (CARD7, NLRP1). ASC, an adaptor molecule, and NALP1, a member of the Nod-like receptor (NLR) family, are involved in the assembly of the 'inflammasome', a multiprotein platform, which is responsible for caspase-1 activation and regulation of IL-1beta maturation. In general, CARDs are death domains (DDs) associated with caspases. They are known to be important in the signaling pathways for apoptosis, inflammation and host-defense mechanisms. 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 PYRIN and DED (Death Effector Domain). They se
Probab=24.96 E-value=90 Score=23.90 Aligned_cols=53 Identities=21% Similarity=0.186 Sum_probs=32.7
Q ss_pred HHHHHHhhcCCCCCHHHHHHHHhhcCCCCCCCCCCCCCChhHHhhhhhHHHHHHHH
Q 025342 162 DALLQKLLNDSYLSAEERDVVRWGKNVGSANTRTKRRAGAAVYNRASSLETLAGYL 217 (254)
Q Consensus 162 A~ll~~Ll~e~~LTEEE~~IvRRGRNaks~~t~~pKna~v~~YR~ATGFEALIGYL 217 (254)
..++..|+..+.||+||.+-++... +...+ ..+=-+...=|-..||..++-.|
T Consensus 18 ~~ilD~L~~~~Vit~e~~~~I~a~~-T~~~k--ar~Lld~l~~kG~~A~~~F~~~L 70 (82)
T cd08330 18 DPILDKLHGKKVITQEQYSEVRAEK-TNQEK--MRKLFSFVRSWGASCKDIFYQIL 70 (82)
T ss_pred HHHHHHHHHCCCCCHHHHHHHHcCC-CcHHH--HHHHHHHHHccCHHHHHHHHHHH
Confidence 5689999988999999999998854 21110 01111222234456666666665
No 37
>PF07746 LigA: Aromatic-ring-opening dioxygenase LigAB, LigA subunit; InterPro: IPR011986 Dioxygenases catalyse the incorporation of both atoms of molecular oxygen into substrates using a variety of reaction mechanisms. Cleavage of aromatic rings is one of the most important functions of dioxygenases, which play key roles in the degradation of aromatic compounds. The substrates of ring-cleavage dioxygenases can be classified into two groups according to the mode of scission of the aromatic ring. Intradiol enzymes (IPR000627 from INTERPRO) use a non-haem Fe(III) to cleave the aromatic ring between two hydroxyl groups (ortho-cleavage), whereas extradiol enzymes use a non-haem Fe(II) to cleave the aromatic ring between a hydroxylated carbon and an adjacent non-hydroxylated carbon (meta-cleavage) [, ]. These two subfamilies differ in sequence, structural fold, iron ligands, and the orientation of second sphere active site amino acid residues. Extradiol dioxygenases are usually homo-multimeric, bind one atom of ferrous ion per subunit and have a subunit size of about 33 kDa. Extradiol dioxygenases can be divided into three classes. Class I and II enzymes (IPR000486 from INTERPRO) show sequence similarity, with the two-domain class II enzymes having evolved from a class I enzyme through gene duplication. Class III enzymes are different in sequence and structure, but they do share several common active-site characteristics with the class II enzymes, in particular the coordination sphere and the disposition of the putative catalytic base are very similar. Class III enzymes usually have two subunits, designated A (IPR004183 from INTERPRO) and B (IPR004183 from INTERPRO). LigAB is a protocatechuate 4,5-dioxygenase (1.13.11.8 from EC) that belongs to the extradiol class III enzyme family. The LigA subunit of this enzyme is multi-helical, containing a compact array of 6 short helices [].; PDB: 1BOU_A 1B4U_A.
Probab=22.92 E-value=1.2e+02 Score=23.96 Aligned_cols=32 Identities=25% Similarity=0.281 Sum_probs=18.7
Q ss_pred heeechhHHHHHH---HhhcCCCCCHHHHHHHHhh
Q 025342 154 AVVRCETQDALLQ---KLLNDSYLSAEERDVVRWG 185 (254)
Q Consensus 154 ~~VsAkAQA~ll~---~Ll~e~~LTEEE~~IvRRG 185 (254)
++..++..+++.+ ..+++--|||||++.++.|
T Consensus 7 ~L~~~~~r~~F~~D~~a~~~~~~Lt~eer~av~~r 41 (88)
T PF07746_consen 7 SLNDPENRERFLADPEAYLDEYGLTEEERQAVLDR 41 (88)
T ss_dssp GGGSHHHHHHHHH-HHHHHHCCT--HHHHHHHHCT
T ss_pred HHcCHHHHHHHHHCHHHHHHHcCCCHHHHHHHHcC
Confidence 3444444444433 2455678999999999876
No 38
>PRK05626 rpsO 30S ribosomal protein S15; Reviewed
Probab=21.69 E-value=96 Score=24.71 Aligned_cols=63 Identities=22% Similarity=0.241 Sum_probs=40.2
Q ss_pred hhheeechhHHHHHHHhhcCCCCCHHHHHHHHhhcCCCCCCCCCCCCCChhHHhhhhhHHH-------HHHHHhcCChhH
Q 025342 152 VMAVVRCETQDALLQKLLNDSYLSAEERDVVRWGKNVGSANTRTKRRAGAAVYNRASSLET-------LAGYLYLTNANR 224 (254)
Q Consensus 152 v~~~VsAkAQA~ll~~Ll~e~~LTEEE~~IvRRGRNaks~~t~~pKna~v~~YR~ATGFEA-------LIGYLYLt~~eR 224 (254)
....-+++.|.++|-.=+. .|||--. .|.| ||..--||-. |+-||+=+|.+|
T Consensus 19 ~~DTGS~eVQiA~LT~rI~--~L~~Hlk------~~~K-------------D~~srrgL~~lv~kRkrlL~YL~~~d~~~ 77 (89)
T PRK05626 19 EGDTGSPEVQVALLTERIN--HLTEHLK------EHKK-------------DHHSRRGLLKMVGQRRKLLDYLKKKDVER 77 (89)
T ss_pred CCCCCCHHHHHHHHHHHHH--HHHHHHH------Hccc-------------chhhHHHHHHHHHhHHHHHHHHHhcCHHH
Confidence 3456778888777655332 3544332 1222 3333344543 567999999999
Q ss_pred HHHHHHHhCCC
Q 025342 225 LEDVMSKLGFT 235 (254)
Q Consensus 225 L~EL~~~lg~s 235 (254)
-.++++.||+.
T Consensus 78 Y~~li~~LglR 88 (89)
T PRK05626 78 YRALIERLGLR 88 (89)
T ss_pred HHHHHHHhCCC
Confidence 99999999985
No 39
>cd07923 Gallate_dioxygenase_C The C-terminal domain of Gallate Dioxygenase, which catalyzes the oxidization and subsequent ring-opening of gallate. Gallate Dioxygenase catalyzes the oxidization and subsequent ring-opening of gallate, an intermediate in the degradation of the aromatic compound, syringate. The reaction product of gallate dioxygenase is 4-oxalomesaconate. The amino acid sequence of the N-terminal and C-terminal regions of gallate dioxygenase exhibits homology with the sequence of the PCA 4,5-dioxygenase B (catalytic) and A subunits, respectively. This model represents the C-terminal domain, which is similar to the A subunit of PCA 4,5-dioxygenase (or LigAB). The enzyme is estimated to be a homodimer according to the Escherichia coli enzyme. Since enzymes in this subfamily have fused A and B subunits, the dimer interface may resemble the tetramer interface of classical LigAB enzymes. This enzyme belongs to the class III extradiol dioxygenase family, composed of enzymes whi
Probab=20.41 E-value=1.1e+02 Score=24.86 Aligned_cols=38 Identities=21% Similarity=0.381 Sum_probs=24.4
Q ss_pred HhHhhhheeechhHHHHHH---HhhcCCCCCHHHHHHHHhh
Q 025342 148 YNNRVMAVVRCETQDALLQ---KLLNDSYLSAEERDVVRWG 185 (254)
Q Consensus 148 Lhk~v~~~VsAkAQA~ll~---~Ll~e~~LTEEE~~IvRRG 185 (254)
|++-..++..|+...++.+ .++++--|||||++.++++
T Consensus 8 LN~f~~sL~~a~~RerF~~D~ea~~~e~gLt~Ee~~av~~r 48 (94)
T cd07923 8 INRFLHRLIEPAHRERFLEDPEALFDEAGLTEEERTLIRNR 48 (94)
T ss_pred HHHHHHHHCCHHHHHHHHhCHHHHHHHcCCCHHHHHHHHcc
Confidence 3344445556665555443 3555678999999999865
No 40
>COG3140 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=20.10 E-value=64 Score=24.44 Aligned_cols=27 Identities=19% Similarity=0.597 Sum_probs=21.0
Q ss_pred hhHHHHHHHHhCCCCCCchhHHHhhhcc
Q 025342 222 ANRLEDVMSKLGFTNGSSTQMILEEANS 249 (254)
Q Consensus 222 ~eRL~EL~~~lg~s~~~~~~~~~~e~~~ 249 (254)
.||+++||.. |+|++---....+|..+
T Consensus 17 VE~Iq~lMae-GmSsGEAIa~VA~elRe 43 (60)
T COG3140 17 VERIQELMAE-GMSSGEAIALVAQELRE 43 (60)
T ss_pred HHHHHHHHHc-cccchhHHHHHHHHHHH
Confidence 3799999977 99988777777766544
No 41
>PF08067 ROKNT: ROKNT (NUC014) domain; InterPro: IPR012987 This presumed domain is found at the N terminus of RNP K-like proteins that also contain KH domains IPR004088 from INTERPRO [].
Probab=20.02 E-value=55 Score=23.35 Aligned_cols=13 Identities=23% Similarity=0.432 Sum_probs=10.7
Q ss_pred HHHHHHHhhcCCC
Q 025342 177 EERDVVRWGKNVG 189 (254)
Q Consensus 177 EE~~IvRRGRNak 189 (254)
||...|||.||+-
T Consensus 28 eEe~afKRsrNtD 40 (43)
T PF08067_consen 28 EEEQAFKRSRNTD 40 (43)
T ss_pred HHHHHhccccccc
Confidence 5778899999973
Done!