Query 002119
Match_columns 964
No_of_seqs 298 out of 564
Neff 3.4
Searched_HMMs 46136
Date Thu Mar 28 16:56:10 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/002119.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/002119hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF06507 Auxin_resp: Auxin res 100.0 4.9E-36 1.1E-40 268.8 7.7 83 196-278 1-83 (83)
2 PF02362 B3: B3 DNA binding do 99.8 1.1E-18 2.4E-23 155.3 10.9 98 70-172 1-100 (100)
3 KOG0644 Uncharacterized conser 99.5 4.7E-15 1E-19 172.7 4.9 150 148-304 874-1045(1113)
4 PF09217 EcoRII-N: Restriction 98.2 9.1E-06 2E-10 81.5 9.9 102 67-170 7-128 (156)
5 PF03754 DUF313: Domain of unk 97.7 5.3E-05 1.2E-09 72.9 6.3 81 64-145 18-114 (114)
6 KOG3598 Thyroid hormone recept 88.0 0.097 2.1E-06 66.8 -1.6 68 84-156 1663-1741(2220)
7 KOG3598 Thyroid hormone recept 79.8 2.1 4.6E-05 55.6 4.8 17 651-667 2176-2192(2220)
8 PRK10737 FKBP-type peptidyl-pr 66.7 13 0.00027 39.6 6.0 104 147-263 2-114 (196)
9 PF10844 DUF2577: Protein of u 56.8 56 0.0012 31.0 7.9 28 142-169 71-98 (100)
10 PF04014 Antitoxin-MazE: Antid 51.8 16 0.00035 29.9 3.0 28 141-168 14-41 (47)
11 KOG3207 Beta-tubulin folding c 51.5 15 0.00033 43.6 3.8 44 234-291 3-46 (505)
12 cd06919 Asp_decarbox Aspartate 45.6 93 0.002 31.0 7.5 74 72-158 12-88 (111)
13 smart00743 Agenet Tudor-like d 44.3 28 0.0006 29.4 3.4 28 233-263 2-29 (61)
14 cd04451 S1_IF1 S1_IF1: Transla 43.3 91 0.002 27.0 6.5 38 109-159 15-52 (64)
15 PF13163 DUF3999: Protein of u 41.0 2.1E+02 0.0045 33.7 10.8 165 73-284 9-197 (429)
16 PF05641 Agenet: Agenet domain 40.5 39 0.00085 29.7 3.9 42 234-285 1-42 (68)
17 COG1047 SlpA FKBP-type peptidy 39.3 1.2E+02 0.0027 32.1 7.8 105 147-263 2-115 (174)
18 TIGR00223 panD L-aspartate-alp 37.9 1.4E+02 0.003 30.4 7.6 73 71-158 12-89 (126)
19 TIGR01439 lp_hng_hel_AbrB loop 36.3 46 0.00099 25.9 3.3 27 141-167 14-40 (43)
20 PRK03760 hypothetical protein; 36.2 58 0.0012 32.0 4.6 28 129-159 88-117 (117)
21 PRK05449 aspartate alpha-decar 36.2 1.5E+02 0.0033 30.1 7.6 75 71-158 12-89 (126)
22 PF02261 Asp_decarbox: Asparta 35.9 1.6E+02 0.0035 29.5 7.6 72 71-157 12-88 (116)
23 smart00333 TUDOR Tudor domain. 33.7 52 0.0011 27.0 3.4 52 233-301 2-53 (57)
24 CHL00010 infA translation init 32.4 2.6E+02 0.0057 25.7 7.9 51 109-173 21-74 (78)
25 PF01878 EVE: EVE domain; Int 31.6 47 0.001 32.5 3.3 27 146-172 38-65 (143)
26 PF02513 Spin-Ssty: Spin/Ssty 31.4 69 0.0015 27.9 3.7 31 236-266 1-31 (50)
27 PF11515 Cul7: Mouse developme 29.6 47 0.001 31.2 2.6 71 222-302 6-76 (78)
28 cd04491 SoSSB_OBF SoSSB_OBF: A 27.4 2.9E+02 0.0064 24.5 7.3 49 106-170 23-75 (82)
29 PF15057 DUF4537: Domain of un 24.4 2.6E+02 0.0056 27.7 6.9 79 151-262 1-82 (124)
30 PF13275 S4_2: S4 domain; PDB: 23.1 51 0.0011 29.7 1.7 27 137-166 38-64 (65)
31 PF06003 SMN: Survival motor n 21.9 76 0.0016 35.1 3.0 57 231-302 66-122 (264)
32 PF10377 ATG11: Autophagy-rela 20.8 2.3E+02 0.0049 28.4 5.8 21 143-163 38-58 (129)
33 KOG4369 RTK signaling protein 20.4 63 0.0014 42.6 2.2 9 251-259 1620-1628(2131)
34 PF02643 DUF192: Uncharacteriz 20.4 1.4E+02 0.003 28.6 4.1 46 108-156 50-106 (108)
35 PF12690 BsuPI: Intracellular 20.3 72 0.0016 29.5 2.1 41 107-158 25-66 (82)
36 PF14436 EndoU_bacteria: Bacte 20.3 4E+02 0.0088 25.8 7.3 82 119-203 2-90 (128)
37 PRK14129 heat shock protein Hs 20.0 1.1E+02 0.0024 30.2 3.4 52 231-300 3-55 (105)
No 1
>PF06507 Auxin_resp: Auxin response factor; InterPro: IPR010525 This pattern represents a conserved region of auxin-responsive transcription factors. The plant hormone auxin (indole-3-acetic acid) can regulate the gene expression of several families, including Aux/IAA, GH3 and SAUR families. Two related families of proteins, Aux/IAA proteins (IPR003311 from INTERPRO) and the auxin response factors (ARF), are key regulators of auxin-modulated gene expression []. There are multiple ARF proteins, some of which activate, while others repress transcription. ARF proteins bind to auxin-responsive cis-acting promoter elements (AuxREs) using an N-terminal DNA-binding domain. It is thought that Aux/IAA proteins activate transcription by modifying ARF activity through the C-terminal protein-protein interaction domains (IPR011525 from INTERPRO) found in both Aux/IAA and ARF proteins. ; GO: 0003677 DNA binding, 0006355 regulation of transcription, DNA-dependent, 0009725 response to hormone stimulus, 0005634 nucleus
Probab=100.00 E-value=4.9e-36 Score=268.83 Aligned_cols=83 Identities=64% Similarity=1.097 Sum_probs=81.7
Q ss_pred HHHHHhcCCcEEEEEcCCCCCCccccchHhHhHHHhcccccCceeeeeeecccCccceeeeEEEEeccCCCCCCCCCCcc
Q 002119 196 AAHAAANNSPFTIFYNPRASPSEFVIPLAKYNKAMYTQVSLGMRFRMMFETEESGVRRYMGTITSISDLDPLRWKNSQWR 275 (964)
Q Consensus 196 Aahaaatgs~FtV~Y~PRas~sEFVVp~~kY~~Am~~~Ws~GMRFRM~FEtEdss~rwy~GTItgIsd~DP~rWp~S~WR 275 (964)
|+|||++|++|+|+||||++++|||||++||++||+++|++||||||.||+||+++++|+|||+||+++||+|||+|+||
T Consensus 1 A~~aa~~~~~F~V~Y~PRa~~sEFVV~~~k~~~al~~~~~~GmRfkM~fE~eds~~~~~~GtI~~v~~~dp~~w~~S~WR 80 (83)
T PF06507_consen 1 AAHAAATGSPFEVFYYPRASPSEFVVPASKYDKALNHPWSVGMRFKMRFETEDSSERRWQGTIVGVSDLDPIRWPGSKWR 80 (83)
T ss_pred ChhHhhcCCeEEEEECCCCCCcceEEEHHHHHHHhcCCCCCCcEEEEEeccCCCccceeeeEEeEeeccCCCCCCCCCcc
Confidence 68999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred cee
Q 002119 276 NLQ 278 (964)
Q Consensus 276 ~Lq 278 (964)
|||
T Consensus 81 ~Lq 83 (83)
T PF06507_consen 81 MLQ 83 (83)
T ss_pred cCc
Confidence 996
No 2
>PF02362 B3: B3 DNA binding domain; InterPro: IPR003340 Two DNA binding proteins, RAV1 and RAV2 from Arabidopsis thaliana contain two distinct amino acid sequence domains found only in higher plant species. The N-terminal regions of RAV1 and RAV2 are homologous to the AP2 DNA-binding domain (see IPR001471 from INTERPRO) present in a family of transcription factors, while the C-terminal region exhibits homology to the highly conserved C-terminal domain, designated B3, of VP1/ABI3 transcription factors []. The AP2 and B3-like domains of RAV1 bind autonomously to the CAACA and CACCTG motifs, respectively, and together achieve a high affinity and specificity of binding. It has been suggested that the AP2 and B3-like domains of RAV1 are connected by a highly flexible structure enabling the two domains to bind to the CAACA and CACCTG motifs in various spacings and orientations [].; GO: 0003677 DNA binding, 0006355 regulation of transcription, DNA-dependent; PDB: 1WID_A 1YEL_A.
Probab=99.78 E-value=1.1e-18 Score=155.25 Aligned_cols=98 Identities=29% Similarity=0.430 Sum_probs=74.8
Q ss_pred EEEeccccCCCCCCceeechhhhhhcCCCCCCCCCCCceEEEEEeCCCCeEEEEEEEeCCCCcceecccchhhhccCCCC
Q 002119 70 FCKTLTASDTSTHGGFSVPRRAAEKIFPPLDYSMQPPAQEIVARDLHDTTWTFRHIYRGQPKRHLLTTGWSVFVSTKRLF 149 (964)
Q Consensus 70 F~KtLTaSDVs~~GrLsVPkr~AE~~FPpLD~s~~~PsqeLvakDlhGkeW~FRhiyRgqprRhlLTTGWS~FVr~KkLv 149 (964)
|.|+|+++|+.+.++|.||++++++|.. + ...+.++.++|..|++|.+++.|++.+++++|++||..||++++|+
T Consensus 1 F~K~l~~s~~~~~~~l~iP~~f~~~~~~--~---~~~~~~v~l~~~~g~~W~v~~~~~~~~~~~~l~~GW~~Fv~~n~L~ 75 (100)
T PF02362_consen 1 FFKVLKPSDVSSSCRLIIPKEFAKKHGG--N---KRKSREVTLKDPDGRSWPVKLKYRKNSGRYYLTGGWKKFVRDNGLK 75 (100)
T ss_dssp EEEE--TTCCCCTT-EEE-HHHHTTTS-------SS--CEEEEEETTTEEEEEEEEEECCTTEEEEETTHHHHHHHCT--
T ss_pred CEEEEEccCcCCCCEEEeCHHHHHHhCC--C---cCCCeEEEEEeCCCCEEEEEEEEEccCCeEEECCCHHHHHHHcCCC
Confidence 8999999999999999999999999721 1 1135689999999999999999998888899999999999999999
Q ss_pred CCCeEEEEEcCC--CcEEEEEEecc
Q 002119 150 AGDSVLFIRDEK--SQLLLGIRRAN 172 (964)
Q Consensus 150 aGDsVVF~R~e~--GeL~VGIRRA~ 172 (964)
+||.|+|+..++ .++.|+|+|+.
T Consensus 76 ~GD~~~F~~~~~~~~~~~v~i~~~~ 100 (100)
T PF02362_consen 76 EGDVCVFELIGNSNFTLKVHIFRKS 100 (100)
T ss_dssp TT-EEEEEE-SSSCE-EEEEEE---
T ss_pred CCCEEEEEEecCCCceEEEEEEECc
Confidence 999999998754 45699999973
No 3
>KOG0644 consensus Uncharacterized conserved protein, contains WD40 repeat and BROMO domains [General function prediction only]
Probab=99.53 E-value=4.7e-15 Score=172.73 Aligned_cols=150 Identities=20% Similarity=0.356 Sum_probs=122.8
Q ss_pred CCCCCeEEEEEcCCCcEEEEEEeccCCCCCC---------------------CCcccCCCccccchHHHHHHHHhcCCcE
Q 002119 148 LFAGDSVLFIRDEKSQLLLGIRRANRQQPAL---------------------SSSVISSDSMHIGILAAAAHAAANNSPF 206 (964)
Q Consensus 148 LvaGDsVVF~R~e~GeL~VGIRRA~r~~~~~---------------------~ssvissdsm~~gvLAaAahaaatgs~F 206 (964)
...||.|+++|.+..+|.-.+|+.++.-.+. +.+.-+-=.|.+.|+.-|.|+. +..|
T Consensus 874 pQmgDEViyfrQghqeyl~~~~~n~~~~~~~~p~~~~~v~~~kv~kl~~~~y~~~~~s~c~m~l~~idp~s~~~--~k~F 951 (1113)
T KOG0644|consen 874 PQMGDEVIYFRQGHQEYLEAVRLNNIELNNKEPWNKMAVEICKVEKLVYITYPGSGDSCCKMKLAVIDPASKLM--DKSF 951 (1113)
T ss_pred ccccceeehhhhhhHHHHhhhhhccccccccCcccccchhhheeeeeeeeeccCCCcchheeeeeeecchhhhh--hccc
Confidence 4589999999998878777777766543221 1222222248888998887554 5689
Q ss_pred EEEEcCCCCCCccccchHhHhHHHhcccccCceeeeeeecc-cCccceeeeEEEEeccCCCCCCCCCCccceecccccCC
Q 002119 207 TIFYNPRASPSEFVIPLAKYNKAMYTQVSLGMRFRMMFETE-ESGVRRYMGTITSISDLDPLRWKNSQWRNLQVGWDEST 285 (964)
Q Consensus 207 tV~Y~PRas~sEFVVp~~kY~~Am~~~Ws~GMRFRM~FEtE-dss~rwy~GTItgIsd~DP~rWp~S~WR~LqV~WDE~~ 285 (964)
.+.|......+||+|.+..|++|+.++|..|+|||..+.++ +...+||.|+|.++.+..| .+|+|+|+|+.|+||..+
T Consensus 952 ~ltlpdlv~fpDFlV~rsrYd~AiQrnW~~~d~crvwwrda~~e~g~WWeG~ils~~pksp-~fpdSpwery~v~~~~~e 1030 (1113)
T KOG0644|consen 952 KLTLPDLVTFPDFLVERSRYDAAIQRNWTCRDKCRVWWRDAGEEDGAWWEGRILSVKPKSP-DFPDSPWERYIVRYDNTE 1030 (1113)
T ss_pred eeecccccCcchhhhhhhhHHHHHhhccccccceeEEEccCCCcCCceeeeeeeeccCCCC-CCCCCcceeEEEEecCCc
Confidence 99999999999999999999999999999999999999543 2335899999999999888 899999999999999997
Q ss_pred CCCCCCccccCccccCCCC
Q 002119 286 AGERPSRVSLWETEPVVTP 304 (964)
Q Consensus 286 ~~qr~eRVSPWEIEpv~~p 304 (964)
.+.-||||.|++..-
T Consensus 1031 ----~~~~spwe~~~i~de 1045 (1113)
T KOG0644|consen 1031 ----TELHSPWEMEPIPDE 1045 (1113)
T ss_pred ----ccccCccccCCCccc
Confidence 478899999999753
No 4
>PF09217 EcoRII-N: Restriction endonuclease EcoRII, N-terminal; InterPro: IPR023372 There are four classes of restriction endonucleases: types I, II,III and IV. All types of enzymes recognise specific short DNA sequences and carry out the endonucleolytic cleavage of DNA to give specific double-stranded fragments with terminal 5'-phosphates. They differ in their recognition sequence, subunit composition, cleavage position, and cofactor requirements [, ], as summarised below: Type I enzymes (3.1.21.3 from EC) cleave at sites remote from recognition site; require both ATP and S-adenosyl-L-methionine to function; multifunctional protein with both restriction and methylase (2.1.1.72 from EC) activities. Type II enzymes (3.1.21.4 from EC) cleave within or at short specific distances from recognition site; most require magnesium; single function (restriction) enzymes independent of methylase. Type III enzymes (3.1.21.5 from EC) cleave at sites a short distance from recognition site; require ATP (but doesn't hydrolyse it); S-adenosyl-L-methionine stimulates reaction but is not required; exists as part of a complex with a modification methylase methylase (2.1.1.72 from EC). Type IV enzymes target methylated DNA. Type II restriction endonucleases (3.1.21.4 from EC) are components of prokaryotic DNA restriction-modification mechanisms that protect the organism against invading foreign DNA. These site-specific deoxyribonucleases catalyse the endonucleolytic cleavage of DNA to give specific double-stranded fragments with terminal 5'-phosphates. Of the 3000 restriction endonucleases that have been characterised, most are homodimeric or tetrameric enzymes that cleave target DNA at sequence-specific sites close to the recognition site. For homodimeric enzymes, the recognition site is usually a palindromic sequence 4-8 bp in length. Most enzymes require magnesium ions as a cofactor for catalysis. Although they can vary in their mode of recognition, many restriction endonucleases share a similar structural core comprising four beta-strands and one alpha-helix, as well as a similar mechanism of cleavage, suggesting a common ancestral origin []. However, there is still considerable diversity amongst restriction endonucleases [, ]. The target site recognition process triggers large conformational changes of the enzyme and the target DNA, leading to the activation of the catalytic centres. Like other DNA binding proteins, restriction enzymes are capable of non-specific DNA binding as well, which is the prerequisite for efficient target site location by facilitated diffusion. Non-specific binding usually does not involve interactions with the bases but only with the DNA backbone []. This entry represents the N-terminal effector-binding domain of the type II restriction endonuclease EcoRII, which has a DNA recognition fold, allowing for binding to 5'-CCWGG sequences. It assumes a structure composed of an eight-stranded beta-sheet with the strands in the order of b2, b5, b4, b3, b7, b6, b1 and b8. They are mostly antiparallel to each other except that b3 is parallel to b7. Alternatively, it may also be viewed as consisting of two mini beta-sheets of four antiparallel beta-strands, sheet I from beta-strands b2, b5, b4, b3 and sheet II from strands b7, b6, b1, b8, folded into an open mixed beta-barrel with a novel topology. Sheet I has a simple Greek key motif while sheet II does not []. The domain represented by this entry is only found in bacterial proteins.; PDB: 3HQF_A 1NA6_A.
Probab=98.17 E-value=9.1e-06 Score=81.50 Aligned_cols=102 Identities=23% Similarity=0.315 Sum_probs=62.6
Q ss_pred ceeEEEeccccCCCCCC----ceeechhhhhhcCCCCCC-CCCCCceEEEEEeCCC--CeEEEEEEEeCC------CCcc
Q 002119 67 TEFFCKTLTASDTSTHG----GFSVPRRAAEKIFPPLDY-SMQPPAQEIVARDLHD--TTWTFRHIYRGQ------PKRH 133 (964)
Q Consensus 67 ~~sF~KtLTaSDVs~~G----rLsVPkr~AE~~FPpLD~-s~~~PsqeLvakDlhG--keW~FRhiyRgq------prRh 133 (964)
...|||.|++.|++..| |+.|||..++..||.+.. +...|...|.+++..| .+|+||+||.++ +..+
T Consensus 7 ~~~~~K~LSaNDtGaTGgHQaGiyIpk~~~~~lFp~~~~~~~~Np~~~~~~~~~s~~~~~~~~r~iYYnn~~~~gTRNE~ 86 (156)
T PF09217_consen 7 WAIYCKRLSANDTGATGGHQAGIYIPKSAAELLFPSINHTKEENPDIWLKARWQSHFVTDSQVRFIYYNNRLFGGTRNEY 86 (156)
T ss_dssp EEEEEEE--CCCCTTTSSS--EEEE-HHHHHHH-GGG-SSSSSS-EEEEEEEETTTT---EEEEEEEE-CCCTTSS--EE
T ss_pred eEEEEEEccCCCCCCcCcccceeEecccHHHHhCCCCCcccccCCceeEEEEECCCCccceeEEEEEEcccccCCCcCce
Confidence 45799999999999864 799999999999988655 5567899999999888 679999999975 5556
Q ss_pred eec--ccchhhhccCCCCCCCeEEEE-----EcCCCcEEEEEEe
Q 002119 134 LLT--TGWSVFVSTKRLFAGDSVLFI-----RDEKSQLLLGIRR 170 (964)
Q Consensus 134 lLT--TGWS~FVr~KkLvaGDsVVF~-----R~e~GeL~VGIRR 170 (964)
.|| +|=..|.+. =..||.+||. +.....+.+-|-+
T Consensus 87 RIT~~G~~~~~~~~--~~tGaL~vlaf~~~~~~~~~~~~~wVc~ 128 (156)
T PF09217_consen 87 RITRFGRGFPLQNP--ENTGALLVLAFDPEQKQDCDLYDVWVCE 128 (156)
T ss_dssp EEE---TTSGGG-G--GGTT-EEEEEEE-TTSS---EEEEEE--
T ss_pred EEeeecCCCccCCc--cccccEEEEEEccCCCCccceEEEEEEC
Confidence 775 332333332 2478988887 3333444444444
No 5
>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=97.74 E-value=5.3e-05 Score=72.92 Aligned_cols=81 Identities=22% Similarity=0.297 Sum_probs=62.8
Q ss_pred CCCceeEEEeccccCCCCC-CceeechhhhhhcCCCCCC------------CCCCCceEEEEEeCCCCeEEEEEEEeCC-
Q 002119 64 RQPTEFFCKTLTASDTSTH-GGFSVPRRAAEKIFPPLDY------------SMQPPAQEIVARDLHDTTWTFRHIYRGQ- 129 (964)
Q Consensus 64 ~~~~~sF~KtLTaSDVs~~-GrLsVPkr~AE~~FPpLD~------------s~~~PsqeLvakDlhGkeW~FRhiyRgq- 129 (964)
..+...|+|+|+.||+..+ .||+||-.-... ...|.. ....-+.++.+.|..++.|..++..|..
T Consensus 18 ~d~kli~~K~L~~tDv~~~qsRLsmP~~qi~~-~dFLt~eE~~~i~~~~~~~~~~~Gv~V~lvdp~~~~~~m~lkkW~mg 96 (114)
T PF03754_consen 18 EDPKLIIEKTLFKTDVDPHQSRLSMPFNQIID-NDFLTEEEKRIIKEEKKNNDKKKGVEVILVDPSLRKWTMRLKKWNMG 96 (114)
T ss_pred CCCeEEEeeeecccCCCCCCceeeccHHHhcc-cccCCHHHHHHHHHhhccCcccCCceEEEECCcCcEEEEEEEEeccc
Confidence 3445789999999999986 899999876633 122211 1233578999999999999999999965
Q ss_pred --CCcceecccchhhhcc
Q 002119 130 --PKRHLLTTGWSVFVST 145 (964)
Q Consensus 130 --prRhlLTTGWS~FVr~ 145 (964)
...|+|++||..+|.+
T Consensus 97 ~~~~~YvL~~gWn~VV~~ 114 (114)
T PF03754_consen 97 NGTSNYVLNSGWNKVVED 114 (114)
T ss_pred CCceEEEEEcChHhhccC
Confidence 5679999999999864
No 6
>KOG3598 consensus Thyroid hormone receptor-associated protein complex, subunit TRAP230 [Transcription]
Probab=88.01 E-value=0.097 Score=66.81 Aligned_cols=68 Identities=24% Similarity=0.292 Sum_probs=39.5
Q ss_pred ceeechhhhhhcCCCCCCCCCCCceEE------EEEeCCC-CeEEEEEEEeCCCCcceec----ccchhhhccCCCCCCC
Q 002119 84 GFSVPRRAAEKIFPPLDYSMQPPAQEI------VARDLHD-TTWTFRHIYRGQPKRHLLT----TGWSVFVSTKRLFAGD 152 (964)
Q Consensus 84 rLsVPkr~AE~~FPpLD~s~~~PsqeL------vakDlhG-keW~FRhiyRgqprRhlLT----TGWS~FVr~KkLvaGD 152 (964)
||+=-.+.+...||......+ .| .+.|..| +.=.|.-|+.+. ..++.| .-|-.|--.|.++.|-
T Consensus 1663 r~sds~~kvrqlLPlpKqt~d----vItcep~gslidtkgnkiagFdsi~kK~-Glqvstkqk~spwdlFEg~k~~apls 1737 (2220)
T KOG3598|consen 1663 RFSDSTRKVRQLLPLPKQTMD----VITCEPYGSLIDTKGNKIAGFDSIEKKN-GLQVSTKQKKSPWDLFEGTKHLAPLS 1737 (2220)
T ss_pred hhhHHHHHHHHhcCCCccccc----eeeecccccccccccceeccchhhhhhc-CceeccccccCcchhhccCCCCCCcc
Confidence 455555566666775443321 12 2446776 455677777533 234554 4588888888887766
Q ss_pred eEEE
Q 002119 153 SVLF 156 (964)
Q Consensus 153 sVVF 156 (964)
.--|
T Consensus 1738 W~wF 1741 (2220)
T KOG3598|consen 1738 WKWF 1741 (2220)
T ss_pred ceee
Confidence 5444
No 7
>KOG3598 consensus Thyroid hormone receptor-associated protein complex, subunit TRAP230 [Transcription]
Probab=79.81 E-value=2.1 Score=55.63 Aligned_cols=17 Identities=41% Similarity=0.288 Sum_probs=11.8
Q ss_pred HHHHHHHHHHHHHHHHh
Q 002119 651 QLQSQLQQKLQQQQQQQ 667 (964)
Q Consensus 651 qlQlQlLQklQQQQq~~ 667 (964)
..+-|=||..|||||.-
T Consensus 2176 lf~RQglqqtqqQqqta 2192 (2220)
T KOG3598|consen 2176 LFRRQGLQQTQQQQQTA 2192 (2220)
T ss_pred hhHHHHHHHHHHHHHHH
Confidence 44556788888888863
No 8
>PRK10737 FKBP-type peptidyl-prolyl cis-trans isomerase; Provisional
Probab=66.67 E-value=13 Score=39.63 Aligned_cols=104 Identities=16% Similarity=0.166 Sum_probs=59.5
Q ss_pred CCCCCCeEEE-E--EcCCCcEEEEEEeccCCCCCCCCcccCCCccccchHHHHHHHHhcCCcEEEEEcCCCCC------C
Q 002119 147 RLFAGDSVLF-I--RDEKSQLLLGIRRANRQQPALSSSVISSDSMHIGILAAAAHAAANNSPFTIFYNPRASP------S 217 (964)
Q Consensus 147 kLvaGDsVVF-~--R~e~GeL~VGIRRA~r~~~~~~ssvissdsm~~gvLAaAahaaatgs~FtV~Y~PRas~------s 217 (964)
++..|++|.| | |.++|+++-.-+ . ..|-.++--...-+-.|.+|..-.+.|..|+|..-|-... .
T Consensus 2 kI~~~~vV~l~Y~l~~~dG~v~dst~-~-----~~Pl~~~~G~g~lipglE~aL~G~~~Gd~~~v~l~peeAyGe~d~~l 75 (196)
T PRK10737 2 KVAKDLVVSLAYQVRTEDGVLVDESP-V-----SAPLDYLHGHGSLISGLETALEGHEVGDKFDVAVGANDAYGQYDENL 75 (196)
T ss_pred ccCCCCEEEEEEEEEeCCCCEEEecC-C-----CCCeEEEeCCCcchHHHHHHHcCCCCCCEEEEEEChHHhcCCCChHH
Confidence 3456677766 2 345666533221 1 1122222222222334566666777888899987664322 2
Q ss_pred ccccchHhHhHHHhcccccCceeeeeeecccCccceeeeEEEEecc
Q 002119 218 EFVIPLAKYNKAMYTQVSLGMRFRMMFETEESGVRRYMGTITSISD 263 (964)
Q Consensus 218 EFVVp~~kY~~Am~~~Ws~GMRFRM~FEtEdss~rwy~GTItgIsd 263 (964)
-+.||++.|... ....+||||.+. +++. .+.++|+.|.+
T Consensus 76 V~~vpr~~F~~~--~~l~~G~~~~~~--~~~G---~~~~~V~ev~~ 114 (196)
T PRK10737 76 VQRVPKDVFMGV--DELQVGMRFLAE--TDQG---PVPVEITAVED 114 (196)
T ss_pred EEEecHHHCCCc--cCCCCCCEEEEe--CCCC---cEEEEEEEEcC
Confidence 356788877532 247899998864 4433 36889999975
No 9
>PF10844 DUF2577: Protein of unknown function (DUF2577); InterPro: IPR022555 This family of proteins has no known function
Probab=56.84 E-value=56 Score=31.02 Aligned_cols=28 Identities=29% Similarity=0.358 Sum_probs=22.9
Q ss_pred hhccCCCCCCCeEEEEEcCCCcEEEEEE
Q 002119 142 FVSTKRLFAGDSVLFIRDEKSQLLLGIR 169 (964)
Q Consensus 142 FVr~KkLvaGDsVVF~R~e~GeL~VGIR 169 (964)
|.-...|++||.|+.+|.++|..++-+-
T Consensus 71 i~~~~~Lk~GD~V~ll~~~~gQ~yiVlD 98 (100)
T PF10844_consen 71 ITFTDGLKVGDKVLLLRVQGGQKYIVLD 98 (100)
T ss_pred EEEecCCcCCCEEEEEEecCCCEEEEEE
Confidence 6677889999999999988887666543
No 10
>PF04014 Antitoxin-MazE: Antidote-toxin recognition MazE; InterPro: IPR007159 This domain is found in AbrB from Bacillus subtilis. The product of the abrB gene is an ambiactive repressor and activator of the transcription of genes expressed during the transition state between vegetative growth and the onset of stationary phase and sporulation []. AbrB is thought to interact directly with the transcription initiation regions of genes under its control []. AbrB contains a helix-turn-helix structure, but this domain ends before the helix-turn-helix begins []. The product of the B. subtilis gene spoVT is another member of this family and is also a transcriptional regulator []. DNA-binding activity in this AbrB homologue requires hexamerisation []. Another family member has been isolated from the Sulfolobus solfataricus and has been identified as a homologue of bacterial repressor-like proteins. The Escherichia coli family member SohA or Prl1F appears to be bifunctional and is able to regulate its own expression as well as relieve the export block imposed by high-level synthesis of beta-galactosidase hybrid proteins [].; PDB: 2L66_A 2GLW_A 3TND_D 2W1T_B 2RO5_B 2FY9_A 2RO3_B 1UB4_C 3ZVK_G 1YFB_B ....
Probab=51.77 E-value=16 Score=29.90 Aligned_cols=28 Identities=14% Similarity=0.143 Sum_probs=22.8
Q ss_pred hhhccCCCCCCCeEEEEEcCCCcEEEEE
Q 002119 141 VFVSTKRLFAGDSVLFIRDEKSQLLLGI 168 (964)
Q Consensus 141 ~FVr~KkLvaGDsVVF~R~e~GeL~VGI 168 (964)
.|....+|.+||.|.|.-+++|++.|--
T Consensus 14 ~~~~~l~l~~Gd~v~i~~~~~g~i~i~p 41 (47)
T PF04014_consen 14 EIREKLGLKPGDEVEIEVEGDGKIVIRP 41 (47)
T ss_dssp HHHHHTTSSTTTEEEEEEETTSEEEEEE
T ss_pred HHHHHcCCCCCCEEEEEEeCCCEEEEEE
Confidence 5667889999999999999988665543
No 11
>KOG3207 consensus Beta-tubulin folding cofactor E [Posttranslational modification, protein turnover, chaperones]
Probab=51.53 E-value=15 Score=43.61 Aligned_cols=44 Identities=25% Similarity=0.631 Sum_probs=31.3
Q ss_pred cccCceeeeeeecccCccceeeeEEEEeccCCCCCCCCCCccceecccccCCCCCCCC
Q 002119 234 VSLGMRFRMMFETEESGVRRYMGTITSISDLDPLRWKNSQWRNLQVGWDESTAGERPS 291 (964)
Q Consensus 234 Ws~GMRFRM~FEtEdss~rwy~GTItgIsd~DP~rWp~S~WR~LqV~WDE~~~~qr~e 291 (964)
..+|.|+|.-+|- ++.||.|+|.| |++ +| +-|.||++.-+.+.-
T Consensus 3 ~~IG~RvkI~~~~---~Tvr~iG~V~g--------~~~-~w--~GvEWDd~~RGKH~G 46 (505)
T KOG3207|consen 3 MEIGTRVKIGGEI---ATVRYIGEVEG--------NNS-KW--YGVEWDDPVRGKHDG 46 (505)
T ss_pred eeccceEEEcCEE---EEEEEEEEEcC--------CCC-cc--eeeEecCCCccccCc
Confidence 5689999987663 34677777665 445 45 789999998776543
No 12
>cd06919 Asp_decarbox Aspartate alpha-decarboxylase or L-aspartate 1-decarboxylase, a pyruvoyl group-dependent decarboxylase in beta-alanine production. Decarboxylation of aspartate is the major route of beta-alanine production in bacteria, and is catalyzed by the enzyme L-aspartate decarboxylase (ADC), EC:4.1.1.11 which requires a pyruvoyl group for its activity. The pyruvoyl cofactor is covalently bound to the enzyme. The protein is synthesized as a proenzyme and cleaved via self-processing at Gly23-Ser24 to yield an alpha chain (C-terminal fragment) and beta chain (N-terminal fragment), and the pyruvoyl group. Beta-alanine is required for the biosynthesis of pantothenate, in which the enzyme plays a critical regulatory role. The active site of the tetrameric enzyme is located at the interface of two subunits, with a Lysine and a Histidine from the beta chain of one subunit forming the active site with residues from the alpha chain of the adjacent subunit. This alignment
Probab=45.59 E-value=93 Score=30.98 Aligned_cols=74 Identities=15% Similarity=0.258 Sum_probs=53.1
Q ss_pred EeccccCCCCCCceeechhhhhhcCCCCCCCCCCCceEEEEEeCC-CCeEEEEEEEeCCC--CcceecccchhhhccCCC
Q 002119 72 KTLTASDTSTHGGFSVPRRAAEKIFPPLDYSMQPPAQEIVARDLH-DTTWTFRHIYRGQP--KRHLLTTGWSVFVSTKRL 148 (964)
Q Consensus 72 KtLTaSDVs~~GrLsVPkr~AE~~FPpLD~s~~~PsqeLvakDlh-GkeW~FRhiyRgqp--rRhlLTTGWS~FVr~KkL 148 (964)
-+.|..|..-.|.+.|..+.++. -+.- |...+.+.|.+ |..|.- |.+.|.+ +.-.|.+. -++..
T Consensus 12 atVT~a~L~YeGSitID~~Ll~a----agi~---~~E~V~I~Nv~NG~Rf~T-YvI~g~~gSg~I~lNGA-----AAr~~ 78 (111)
T cd06919 12 ATVTEADLNYEGSITIDEDLLEA----AGIL---PYEKVLVVNVNNGARFET-YVIPGERGSGVICLNGA-----AARLG 78 (111)
T ss_pred eEEeccccccceeEEECHHHHHh----cCCC---CCCEEEEEECCCCcEEEE-EEEEcCCCCCEEEeCCH-----HHhcC
Confidence 46788999999999999988777 2221 34468888874 898886 6777753 33344443 67788
Q ss_pred CCCCeEEEEE
Q 002119 149 FAGDSVLFIR 158 (964)
Q Consensus 149 vaGDsVVF~R 158 (964)
..||.|+++=
T Consensus 79 ~~GD~vII~s 88 (111)
T cd06919 79 QPGDRVIIMA 88 (111)
T ss_pred CCCCEEEEEE
Confidence 8999999863
No 13
>smart00743 Agenet Tudor-like domain present in plant sequences. Domain in plant sequences with possible chromatin-associated functions.
Probab=44.35 E-value=28 Score=29.39 Aligned_cols=28 Identities=14% Similarity=0.212 Sum_probs=23.2
Q ss_pred ccccCceeeeeeecccCccceeeeEEEEecc
Q 002119 233 QVSLGMRFRMMFETEESGVRRYMGTITSISD 263 (964)
Q Consensus 233 ~Ws~GMRFRM~FEtEdss~rwy~GTItgIsd 263 (964)
.|++|+++-..++.+ ..||.|+|+.+..
T Consensus 2 ~~~~G~~Ve~~~~~~---~~W~~a~V~~~~~ 29 (61)
T smart00743 2 DFKKGDRVEVFSKEE---DSWWEAVVTKVLG 29 (61)
T ss_pred CcCCCCEEEEEECCC---CEEEEEEEEEECC
Confidence 588999999999642 3799999999964
No 14
>cd04451 S1_IF1 S1_IF1: Translation Initiation Factor IF1, S1-like RNA-binding domain. IF1 contains an S1-like RNA-binding domain, which is found in a wide variety of RNA-associated proteins. Translation initiation includes a number of interrelated steps preceding the formation of the first peptide bond. In Escherichia coli, the initiation mechanism requires, in addition to mRNA, fMet-tRNA, and ribosomal subunits, the presence of three additional proteins (initiation factors IF1, IF2, and IF3) and at least one GTP molecule. The three initiation factors influence both the kinetics and the stability of ternary complex formation. IF1 is the smallest of the three factors. IF1 enhances the rate of 70S ribosome subunit association and dissociation and the interaction of 30S ribosomal subunit with IF2 and IF3. It stimulates 30S complex formation. In addition, by binding to the A-site of the 30S ribosomal subunit, IF1 may contribute to the fidelity of the selection of the initiation site of th
Probab=43.33 E-value=91 Score=26.96 Aligned_cols=38 Identities=13% Similarity=0.065 Sum_probs=23.1
Q ss_pred EEEEEeCCCCeEEEEEEEeCCCCcceecccchhhhccCCCCCCCeEEEEEc
Q 002119 109 EIVARDLHDTTWTFRHIYRGQPKRHLLTTGWSVFVSTKRLFAGDSVLFIRD 159 (964)
Q Consensus 109 eLvakDlhGkeW~FRhiyRgqprRhlLTTGWS~FVr~KkLvaGDsVVF~R~ 159 (964)
.+.+++..|. .++|..||+-++ +...+.+||.|.|...
T Consensus 15 ~~~V~~~~g~--~~~c~~rGklr~-----------~~~~~~vGD~V~~~~~ 52 (64)
T cd04451 15 MFRVELENGH--EVLAHISGKMRM-----------NYIRILPGDRVKVELS 52 (64)
T ss_pred EEEEEeCCCC--EEEEEECceeec-----------CCcccCCCCEEEEEEe
Confidence 4556677776 444455543210 2334899999999864
No 15
>PF13163 DUF3999: Protein of unknown function (DUF3999)
Probab=40.97 E-value=2.1e+02 Score=33.71 Aligned_cols=165 Identities=16% Similarity=0.250 Sum_probs=97.9
Q ss_pred eccccCCCCCCceeechhhhhh-cCCCCCCCCCCCceEEEEEeCCCCeEEEEEEEeCC-----CCcceecccchh-hhcc
Q 002119 73 TLTASDTSTHGGFSVPRRAAEK-IFPPLDYSMQPPAQEIVARDLHDTTWTFRHIYRGQ-----PKRHLLTTGWSV-FVST 145 (964)
Q Consensus 73 tLTaSDVs~~GrLsVPkr~AE~-~FPpLD~s~~~PsqeLvakDlhGkeW~FRhiyRgq-----prRhlLTTGWS~-FVr~ 145 (964)
.|+.+.-+--.++.+|..--.. .=|-| .+|.|.|-.|++-.|..+.... +.++-| -|.. .+.+
T Consensus 9 ~L~~~~~~~~y~l~Lp~~vy~~~~~~dL--------~DvrVfn~~G~~vP~al~~~~~~~~~~~~~~~~--~~fpl~~~~ 78 (429)
T PF13163_consen 9 PLQLSGSAPWYRLTLPLAVYAASRRPDL--------GDVRVFNAAGEPVPYALLPPRAPAAQAPTRQPV--PWFPLPASA 78 (429)
T ss_pred eeecCCCCceEEEECCHHHHHhhccccc--------cceEEECCCCCCCceeecccccccCCCCceeee--eeeecCCcc
Confidence 3444444445688888654222 22322 3699999999998887666421 222222 2333 3455
Q ss_pred CCCCCCCe-EEEEEcCCCcEEEEEEeccCCCCCCCCcccCCCccccchHHHHHHHHhcCCcEEEEEcCCCCCCccccchH
Q 002119 146 KRLFAGDS-VLFIRDEKSQLLLGIRRANRQQPALSSSVISSDSMHIGILAAAAHAAANNSPFTIFYNPRASPSEFVIPLA 224 (964)
Q Consensus 146 KkLvaGDs-VVF~R~e~GeL~VGIRRA~r~~~~~~ssvissdsm~~gvLAaAahaaatgs~FtV~Y~PRas~sEFVVp~~ 224 (964)
.. ..||. +.+.|+.+|.+ |.|+++......... ...|+|.+.
T Consensus 79 ~~-~~~~~~~~v~~~~~G~~-ve~~~~~~~~~~~~~-----------------------------------~~~~Lld~s 121 (429)
T PF13163_consen 79 DA-ARGDPQLRVERDADGAL-VEVRPASGAAPADGQ-----------------------------------ARGWLLDLS 121 (429)
T ss_pred cc-ccCCccEEEEECCCCcE-EEecccCCCCccccc-----------------------------------ccEEEEECc
Confidence 55 67774 88889999999 999998764321110 012344444
Q ss_pred hHh---HHHhccc-ccCcee--eeeeecccCcccee----eeEEEEeccCC------CCCCCCCCccceecccccC
Q 002119 225 KYN---KAMYTQV-SLGMRF--RMMFETEESGVRRY----MGTITSISDLD------PLRWKNSQWRNLQVGWDES 284 (964)
Q Consensus 225 kY~---~Am~~~W-s~GMRF--RM~FEtEdss~rwy----~GTItgIsd~D------P~rWp~S~WR~LqV~WDE~ 284 (964)
..+ .++.-.| .....+ |..+|+-|.-..|+ .|+|..+..-+ -+..|+...|.|+|.|+++
T Consensus 122 ~~~~~l~~L~L~w~~~~~~~~~~v~VeaSdDl~~W~~l~~~~~l~~L~~~~~~l~~~~I~L~~~~~rYLRl~~~~~ 197 (429)
T PF13163_consen 122 ALKEPLDALRLDWPQSNFNWQARVSVEASDDLQHWRPLAGDAQLMDLSNGGQRLVQDRIELPGSNARYLRLTWNDP 197 (429)
T ss_pred ccccchhheEEEeecCCCCceEEEEEEEecCcccceEccCCceEEEeccCCcceeeeeEccCCCCCceEEEEeCCC
Confidence 433 3445667 334444 66666554445564 47777776422 3567899999999999653
No 16
>PF05641 Agenet: Agenet domain; InterPro: IPR008395 This domain is related to the TUDOR domain IPR008191 from INTERPRO []. The function of the agenet domain is unknown. This signature matches one of the two Agenet domains in the FMR proteins [].; GO: 0003723 RNA binding; PDB: 2BKD_N 3O8V_A 3KUF_A 3H8Z_A.
Probab=40.55 E-value=39 Score=29.70 Aligned_cols=42 Identities=12% Similarity=0.106 Sum_probs=27.1
Q ss_pred cccCceeeeeeecccCccceeeeEEEEeccCCCCCCCCCCccceecccccCC
Q 002119 234 VSLGMRFRMMFETEESGVRRYMGTITSISDLDPLRWKNSQWRNLQVGWDEST 285 (964)
Q Consensus 234 Ws~GMRFRM~FEtEdss~rwy~GTItgIsd~DP~rWp~S~WR~LqV~WDE~~ 285 (964)
|..|+++-..-+.+.....||.|||+.....+ .+.|+.++-.
T Consensus 1 F~~G~~VEV~s~e~g~~gaWf~a~V~~~~~~~----------~~~V~Y~~~~ 42 (68)
T PF05641_consen 1 FKKGDEVEVSSDEDGFRGAWFPATVLKENGDD----------KYLVEYDDLP 42 (68)
T ss_dssp --TT-EEEEEE-SBTT--EEEEEEEEEEETT-----------EEEEEETT-S
T ss_pred CCCCCEEEEEEcCCCCCcEEEEEEEEEeCCCc----------EEEEEECCcc
Confidence 46799999887766666889999999987421 6778886553
No 17
>COG1047 SlpA FKBP-type peptidyl-prolyl cis-trans isomerases 2 [Posttranslational modification, protein turnover, chaperones]
Probab=39.33 E-value=1.2e+02 Score=32.11 Aligned_cols=105 Identities=18% Similarity=0.236 Sum_probs=62.4
Q ss_pred CCCCCCeEEEE---EcCCCcEEEEEEeccCCCCCCCCcccCCCccccchHHHHHHHHhcCCcEEEEEcCCCCCCcc----
Q 002119 147 RLFAGDSVLFI---RDEKSQLLLGIRRANRQQPALSSSVISSDSMHIGILAAAAHAAANNSPFTIFYNPRASPSEF---- 219 (964)
Q Consensus 147 kLvaGDsVVF~---R~e~GeL~VGIRRA~r~~~~~~ssvissdsm~~gvLAaAahaaatgs~FtV~Y~PRas~sEF---- 219 (964)
++..||.|.+. |.++|+++=--+- ..-|-.++--+..-+.-|.+|..-..-|..|+|.--|-..-.||
T Consensus 2 ~i~k~~~V~i~Y~~~~~dg~v~Dtt~e-----~~~P~~~i~G~g~li~glE~al~g~~~Ge~~~V~IpPE~AfGe~~~~l 76 (174)
T COG1047 2 KIEKGDVVSLHYTLKVEDGEVVDTTDE-----NYGPLTFIVGAGQLIPGLEEALLGKEVGEEFTVEIPPEDAFGEYDPDL 76 (174)
T ss_pred cccCCCEEEEEEEEEecCCcEEEcccc-----cCCCeEEEecCCCcchhHHHHHhCCCCCceeEEEeCchHhcCCCChHH
Confidence 45677777763 3344543211111 01122233333333345677888888899999998886554444
Q ss_pred --ccchHhHhHHHhcccccCceeeeeeecccCccceeeeEEEEecc
Q 002119 220 --VIPLAKYNKAMYTQVSLGMRFRMMFETEESGVRRYMGTITSISD 263 (964)
Q Consensus 220 --VVp~~kY~~Am~~~Ws~GMRFRM~FEtEdss~rwy~GTItgIsd 263 (964)
.||+++|...= ...+||+|.. ++++ .-.-|+|+.|..
T Consensus 77 vq~vp~~~F~~~~--~~~vGm~~~~--~~~~---~~~~~~V~~V~~ 115 (174)
T COG1047 77 VQRVPRDEFQGVG--ELEVGMEVEA--EGGD---GEIPGVVTEVSG 115 (174)
T ss_pred eEEecHHHhCcCC--CCCCCcEEEE--cCCC---ceeeEEEEEEcC
Confidence 46666665432 6889999875 4444 456799999974
No 18
>TIGR00223 panD L-aspartate-alpha-decarboxylase. Members of this family are aspartate 1-decarboxylase, the enzyme that makes beta-alanine and C02 from aspartate. Beta-alanine is then used to make the vitamin pantothenate, from which coenzyme A is made. Aspartate 1-decarboxylase is synthesized as a proenzyme, then cleaved to an alpha (C-terminal) and beta (N-terminal) subunit with a pyruvoyl group.
Probab=37.88 E-value=1.4e+02 Score=30.39 Aligned_cols=73 Identities=11% Similarity=0.223 Sum_probs=52.7
Q ss_pred EEeccccCCCCCCceeechhhhhh--cCCCCCCCCCCCceEEEEEeC-CCCeEEEEEEEeCCC--Ccceecccchhhhcc
Q 002119 71 CKTLTASDTSTHGGFSVPRRAAEK--IFPPLDYSMQPPAQEIVARDL-HDTTWTFRHIYRGQP--KRHLLTTGWSVFVST 145 (964)
Q Consensus 71 ~KtLTaSDVs~~GrLsVPkr~AE~--~FPpLD~s~~~PsqeLvakDl-hGkeW~FRhiyRgqp--rRhlLTTGWS~FVr~ 145 (964)
.-+.|..|..-.|.+.|-.+.++. ++| ...+.+.|. +|.+|.- |.+.|.+ +.-.|.+. .+
T Consensus 12 ratVT~a~L~Y~GSItID~~Lm~aagi~p---------~E~V~V~Nv~NG~Rf~T-YvI~G~~GSg~I~lNGA-----AA 76 (126)
T TIGR00223 12 RATVTHANLNYEGSITIDEDLLDAAGILE---------NEKVDIVNVNNGKRFST-YAIAGKRGSRIICVNGA-----AA 76 (126)
T ss_pred ceEEeccccccceeEEECHHHHHhcCCCC---------CCEEEEEECCCCcEEEE-EEEEcCCCCCEEEeCCH-----HH
Confidence 347788899888999999988777 333 345778886 4998886 6777753 33344433 67
Q ss_pred CCCCCCCeEEEEE
Q 002119 146 KRLFAGDSVLFIR 158 (964)
Q Consensus 146 KkLvaGDsVVF~R 158 (964)
+....||.|+++=
T Consensus 77 rl~~~GD~VII~s 89 (126)
T TIGR00223 77 RCVSVGDIVIIAS 89 (126)
T ss_pred hcCCCCCEEEEEE
Confidence 7788999999863
No 19
>TIGR01439 lp_hng_hel_AbrB looped-hinge helix DNA binding domain, AbrB family. This DNA-binding domain family includes AbrB, a transition state regulator in Bacillus subtilis, whose DNA-binding domain structure in solution was determined by NMR. The domain binds DNA as a dimer in what is termed a looped-hinge helix fold. Some members of the family have two copies of the domain in tandem. The domain is found usually at the N-terminus of a small protein. This model excludes members of family TIGR02609.
Probab=36.27 E-value=46 Score=25.94 Aligned_cols=27 Identities=26% Similarity=0.320 Sum_probs=22.7
Q ss_pred hhhccCCCCCCCeEEEEEcCCCcEEEE
Q 002119 141 VFVSTKRLFAGDSVLFIRDEKSQLLLG 167 (964)
Q Consensus 141 ~FVr~KkLvaGDsVVF~R~e~GeL~VG 167 (964)
.|.+.-++..||.|++...++|.+.|.
T Consensus 14 ~~r~~l~~~~gd~~~i~~~~~~~l~l~ 40 (43)
T TIGR01439 14 EIREKLGLKEGDRLEVIRVEDGEIILR 40 (43)
T ss_pred HHHHHcCcCCCCEEEEEEeCCCEEEEE
Confidence 677889999999999998877876654
No 20
>PRK03760 hypothetical protein; Provisional
Probab=36.25 E-value=58 Score=32.01 Aligned_cols=28 Identities=21% Similarity=0.458 Sum_probs=21.6
Q ss_pred CCCccee--cccchhhhccCCCCCCCeEEEEEc
Q 002119 129 QPKRHLL--TTGWSVFVSTKRLFAGDSVLFIRD 159 (964)
Q Consensus 129 qprRhlL--TTGWS~FVr~KkLvaGDsVVF~R~ 159 (964)
.+-+|+| ..||. ...++++||.|.|.|+
T Consensus 88 ~~a~~VLEl~aG~~---~~~gi~~Gd~v~~~~~ 117 (117)
T PRK03760 88 KPARYIIEGPVGKI---RVLKVEVGDEIEWIDE 117 (117)
T ss_pred ccceEEEEeCCChH---HHcCCCCCCEEEEeeC
Confidence 3456777 57765 7889999999998763
No 21
>PRK05449 aspartate alpha-decarboxylase; Provisional
Probab=36.22 E-value=1.5e+02 Score=30.10 Aligned_cols=75 Identities=12% Similarity=0.200 Sum_probs=53.0
Q ss_pred EEeccccCCCCCCceeechhhhhhcCCCCCCCCCCCceEEEEEeC-CCCeEEEEEEEeCCC--CcceecccchhhhccCC
Q 002119 71 CKTLTASDTSTHGGFSVPRRAAEKIFPPLDYSMQPPAQEIVARDL-HDTTWTFRHIYRGQP--KRHLLTTGWSVFVSTKR 147 (964)
Q Consensus 71 ~KtLTaSDVs~~GrLsVPkr~AE~~FPpLD~s~~~PsqeLvakDl-hGkeW~FRhiyRgqp--rRhlLTTGWS~FVr~Kk 147 (964)
.-+.|..|..-.|.+.|-.+.+++ -+.- |...+.+.|. +|..|.- |.+.|.+ +.-.|.+. -++.
T Consensus 12 ratVT~a~L~Y~GSitID~~Ll~a----agi~---p~E~V~V~Nv~NG~Rf~T-YvI~g~~GSg~I~lNGA-----AAr~ 78 (126)
T PRK05449 12 RATVTEADLNYEGSITIDEDLLDA----AGIL---ENEKVQIVNVNNGARFET-YVIAGERGSGVICLNGA-----AARL 78 (126)
T ss_pred ceEEeccccccceeEEECHHHHHh----cCCC---CCCEEEEEECCCCcEEEE-EEEEcCCCCCEEEeCCH-----HHhc
Confidence 347888999989999999988777 2221 2335778886 4898886 6777754 33344443 6778
Q ss_pred CCCCCeEEEEE
Q 002119 148 LFAGDSVLFIR 158 (964)
Q Consensus 148 LvaGDsVVF~R 158 (964)
...||.|+++=
T Consensus 79 ~~~GD~vII~a 89 (126)
T PRK05449 79 VQVGDLVIIAA 89 (126)
T ss_pred CCCCCEEEEEE
Confidence 88999999863
No 22
>PF02261 Asp_decarbox: Aspartate decarboxylase; InterPro: IPR003190 Decarboxylation of aspartate is the major route of alanine production in bacteria, and is catalysed by the enzyme aspartate decarboxylase. The enzyme is translated as an inactive proenzyme of two chains, A and B. This family contains both chains of aspartate decarboxylase.; GO: 0004068 aspartate 1-decarboxylase activity, 0006523 alanine biosynthetic process; PDB: 1PYU_C 1AW8_A 1PYQ_B 3TM7_C 1PT1_A 1PQH_A 1PPY_B 1PT0_B 1PQF_A 1PQE_A ....
Probab=35.89 E-value=1.6e+02 Score=29.54 Aligned_cols=72 Identities=15% Similarity=0.311 Sum_probs=46.0
Q ss_pred EEeccccCCCCCCceeechhhhhh--cCCCCCCCCCCCceEEEEEeC-CCCeEEEEEEEeCCC--Ccceecccchhhhcc
Q 002119 71 CKTLTASDTSTHGGFSVPRRAAEK--IFPPLDYSMQPPAQEIVARDL-HDTTWTFRHIYRGQP--KRHLLTTGWSVFVST 145 (964)
Q Consensus 71 ~KtLTaSDVs~~GrLsVPkr~AE~--~FPpLD~s~~~PsqeLvakDl-hGkeW~FRhiyRgqp--rRhlLTTGWS~FVr~ 145 (964)
.-+.|..|..-.|.+.|..+.++. ++| ...+.+.+. +|..|.- |.+.|.+ +.-.|.+. -+
T Consensus 12 ratVT~a~L~Y~GSitID~~Ll~aagi~p---------~E~V~V~Nv~nG~Rf~T-YvI~g~~GSg~I~lNGa-----AA 76 (116)
T PF02261_consen 12 RATVTEADLNYEGSITIDEDLLDAAGILP---------YEQVQVVNVNNGERFET-YVIPGERGSGVICLNGA-----AA 76 (116)
T ss_dssp EEE--EEETTSTSCEEEEHHHHHHCT--T---------TBEEEEEETTT--EEEE-EEEEESTTTT-EEEEGG-----GG
T ss_pred ceEEeccccccceeeEECHHHHHHcCCCc---------CCEEEEEECCCCcEEEE-EEEEccCCCcEEEECCH-----HH
Confidence 346888999999999999988776 333 345778886 5999986 6666654 33344443 67
Q ss_pred CCCCCCCeEEEE
Q 002119 146 KRLFAGDSVLFI 157 (964)
Q Consensus 146 KkLvaGDsVVF~ 157 (964)
+...+||.|+++
T Consensus 77 rl~~~GD~vII~ 88 (116)
T PF02261_consen 77 RLVQVGDRVIIM 88 (116)
T ss_dssp GCS-TT-EEEEE
T ss_pred hccCCCCEEEEE
Confidence 788899999986
No 23
>smart00333 TUDOR Tudor domain. Domain of unknown function present in several RNA-binding proteins. 10 copies in the Drosophila Tudor protein. Initial proposal that the survival motor neuron gene product contain a Tudor domain are corroborated by more recent database search techniques such as PSI-BLAST (unpublished).
Probab=33.71 E-value=52 Score=27.01 Aligned_cols=52 Identities=12% Similarity=0.171 Sum_probs=36.5
Q ss_pred ccccCceeeeeeecccCccceeeeEEEEeccCCCCCCCCCCccceecccccCCCCCCCCccccCccccC
Q 002119 233 QVSLGMRFRMMFETEESGVRRYMGTITSISDLDPLRWKNSQWRNLQVGWDESTAGERPSRVSLWETEPV 301 (964)
Q Consensus 233 ~Ws~GMRFRM~FEtEdss~rwy~GTItgIsd~DP~rWp~S~WR~LqV~WDE~~~~qr~eRVSPWEIEpv 301 (964)
.|.+|..+...+ .+ ..||.|+|+++.. + ..+.|.-++-+. .+-|...+|-++
T Consensus 2 ~~~~G~~~~a~~-~d---~~wyra~I~~~~~-------~---~~~~V~f~D~G~---~~~v~~~~l~~l 53 (57)
T smart00333 2 TFKVGDKVAARW-ED---GEWYRARIIKVDG-------E---QLYEVFFIDYGN---EEVVPPSDLRPL 53 (57)
T ss_pred CCCCCCEEEEEe-CC---CCEEEEEEEEECC-------C---CEEEEEEECCCc---cEEEeHHHeecC
Confidence 588999999998 32 3899999999963 2 456788777542 245666665554
No 24
>CHL00010 infA translation initiation factor 1
Probab=32.38 E-value=2.6e+02 Score=25.67 Aligned_cols=51 Identities=16% Similarity=0.090 Sum_probs=28.8
Q ss_pred EEEEEeCCCCeEEEEEEEeCCCCcceecccchhhhc-cCCCCCCCeEEEEE--cCCCcEEEEEEeccC
Q 002119 109 EIVARDLHDTTWTFRHIYRGQPKRHLLTTGWSVFVS-TKRLFAGDSVLFIR--DEKSQLLLGIRRANR 173 (964)
Q Consensus 109 eLvakDlhGkeW~FRhiyRgqprRhlLTTGWS~FVr-~KkLvaGDsVVF~R--~e~GeL~VGIRRA~r 173 (964)
.+.+++..|+ .+.|..||. |.+ ..++.+||.|.|.- .++++-+|-.|-.++
T Consensus 21 ~y~V~~~~g~--~~~c~~rGk------------lr~~~i~~~vGD~V~ve~~~~~~~~g~Ii~r~~~~ 74 (78)
T CHL00010 21 MFRVRLDNGC--QVLGYISGK------------IRRNSIRILPGDRVKVELSPYDLTKGRIIYRLRNK 74 (78)
T ss_pred EEEEEeCCCC--EEEEEeccc------------eecCCcccCCCCEEEEEEcccCCCeEEEEEEecCC
Confidence 4555666675 444445542 222 34478999999984 344444555554443
No 25
>PF01878 EVE: EVE domain; InterPro: IPR002740 The EVE domain is part of the wider PUA domain superfamily. The function of this domain is not known but, given the structural similarities to PUA, is likely to involve RNA binding []. ; PDB: 2G2X_B 2AR1_A 3EOP_A 2EVE_A 2HD9_A 2ZBN_A 1WMM_A 2P5D_A 2GBS_A 1ZCE_A.
Probab=31.63 E-value=47 Score=32.48 Aligned_cols=27 Identities=30% Similarity=0.480 Sum_probs=18.1
Q ss_pred CCCCCCCeEEEEEcC-CCcEEEEEEecc
Q 002119 146 KRLFAGDSVLFIRDE-KSQLLLGIRRAN 172 (964)
Q Consensus 146 KkLvaGDsVVF~R~e-~GeL~VGIRRA~ 172 (964)
++++.||.|+||... .+.-+|||=|-.
T Consensus 38 ~~mk~GD~vifY~s~~~~~~ivai~~V~ 65 (143)
T PF01878_consen 38 KRMKPGDKVIFYHSGCKERGIVAIGEVV 65 (143)
T ss_dssp HC--TT-EEEEEETSSSS-EEEEEEEEE
T ss_pred hcCCCCCEEEEEEcCCCCCEEEEEEEEe
Confidence 489999999999987 667777776643
No 26
>PF02513 Spin-Ssty: Spin/Ssty Family; InterPro: IPR003671 Spindlin (Spin) and Ssty were first identified for their involvement in gametogenesis. Spindlin was identified as a maternal transcript present in the unfertilised egg and early embryo, and was subsequently shown to interact with the spindle apparatus during oogenesis, and may therefore be important for mitosis []. In addition, spindlin appears to be a target for cell cycle-dependent phosphorylation, and as such may play a role in cell cycle regulation during the transition from gamete to embryo []. Ssty is a multi-copy, Y-linked spermatogenesis-specific transcript that appears to be required for normal spermatogenesis []. Ssty may play an analogous role to spindlin in sperm cells, namely during the transition from sperm cells to early embryo, and in mitosis.; GO: 0007276 gamete generation; PDB: 2NS2_A.
Probab=31.38 E-value=69 Score=27.89 Aligned_cols=31 Identities=16% Similarity=0.352 Sum_probs=24.2
Q ss_pred cCceeeeeeecccCccceeeeEEEEeccCCC
Q 002119 236 LGMRFRMMFETEESGVRRYMGTITSISDLDP 266 (964)
Q Consensus 236 ~GMRFRM~FEtEdss~rwy~GTItgIsd~DP 266 (964)
+|-|+.-.||+++.++..|.|+|..--+..|
T Consensus 1 vGk~Veh~~~~g~g~~s~w~G~Vl~Qvp~~p 31 (50)
T PF02513_consen 1 VGKRVEHTWEDGDGPKSKWKGMVLHQVPAKP 31 (50)
T ss_dssp TT-EEEEEECTSTS-EEEEEEEEEEE-TTST
T ss_pred CCceEEEEEccCCCcccEEEEEEEEEeecCC
Confidence 5889999999998888889999999876544
No 27
>PF11515 Cul7: Mouse development and cellular proliferation protein Cullin-7; InterPro: IPR021097 The CPH domain is found in the Cullin-7, PARC and HERC2 proteins, which are all components of known or predicted E3-ubiquitin ligases. The CPH domain is a protein-protein interaction module that binds the teramerisation domain of the tumour suppressor protein p53 []. Structurally it forms a beta-barrel fold similar to the SH3, Tudor and KOW and domains. Unlike the SH3 and Tudor domains, which bind to small peptides, the CPH domain appears to bind to an extended surface on p53.; PDB: 2JUF_A 2JNG_A.
Probab=29.56 E-value=47 Score=31.23 Aligned_cols=71 Identities=21% Similarity=0.260 Sum_probs=36.3
Q ss_pred chHhHhHHHhcccccCceeeeeeecccCccceeeeEEEEeccCCCCCCCCCCccceecccccCCCCCCCCccccCccccC
Q 002119 222 PLAKYNKAMYTQVSLGMRFRMMFETEESGVRRYMGTITSISDLDPLRWKNSQWRNLQVGWDESTAGERPSRVSLWETEPV 301 (964)
Q Consensus 222 p~~kY~~Am~~~Ws~GMRFRM~FEtEdss~rwy~GTItgIsd~DP~rWp~S~WR~LqV~WDE~~~~qr~eRVSPWEIEpv 301 (964)
..+.|..=+.-++.+||++||.=.-||-. .-=.|+|.-++. | .-|+ -.++|.|-..+. .-.|--=.||+|
T Consensus 6 s~d~Ya~YVr~~i~~GM~VRc~~~yeeV~-~GD~G~V~k~~~-d--g~~~---lnvqv~W~~~G~---tyWV~~~~vEii 75 (78)
T PF11515_consen 6 SNDDYAEYVRDNIQPGMRVRCCRDYEEVR-AGDEGEVFKQDR-D--GLHD---LNVQVDWQSKGR---TYWVHWHHVEII 75 (78)
T ss_dssp SSHHHHHHHHHH--TT-EEEESS-BTTB--TT-EEE-EEEE--T--TSSE-----EEEEETTTTE---EEEEEGGGEEE-
T ss_pred chhHHHHHHHHhCCCCcEEEEeccccccc-ccccceeEeecc-C--CCCC---cceEEEeeecCc---eEEEEEEEEEEe
Confidence 56778888889999999999985544433 223677666653 1 1122 247888877651 223444455555
Q ss_pred C
Q 002119 302 V 302 (964)
Q Consensus 302 ~ 302 (964)
.
T Consensus 76 g 76 (78)
T PF11515_consen 76 G 76 (78)
T ss_dssp -
T ss_pred c
Confidence 4
No 28
>cd04491 SoSSB_OBF SoSSB_OBF: A subfamily of OB folds similar to the OB fold of the crenarchaeote Sulfolobus solfataricus single-stranded (ss) DNA-binding protein (SSoSSB). SSoSSB has a single OB fold, and it physically and functionally interacts with RNA polymerase. In vitro, SSoSSB can substitute for the basal transcription factor TBP, stimulating transcription from promoters under conditions in which TBP is limiting, and supporting transcription when TBP is absent. SSoSSB selectively melts the duplex DNA of promoter sequences. It also relieves transcriptional repression by the chromatin Alba. In addition, SSoSSB activates reverse gyrase activity, which involves DNA binding, DNA cleavage, strand passage and ligation. SSoSSB stimulates all these steps in the presence of the chromatin protein, Sul7d. SSoSSB antagonizes the inhibitory effect of Sul7d on reverse gyrase supercoiling activity. It also physically and functionally interacts with Mini-chromosome Maintenance (MCM), stimulating
Probab=27.36 E-value=2.9e+02 Score=24.50 Aligned_cols=49 Identities=20% Similarity=0.209 Sum_probs=33.6
Q ss_pred CceEEEEEeCCCCeEEEEEEEeCCCCcceecccchhhhccCCCCCCCeEEEEE----cCCCcEEEEEEe
Q 002119 106 PAQEIVARDLHDTTWTFRHIYRGQPKRHLLTTGWSVFVSTKRLFAGDSVLFIR----DEKSQLLLGIRR 170 (964)
Q Consensus 106 PsqeLvakDlhGkeW~FRhiyRgqprRhlLTTGWS~FVr~KkLvaGDsVVF~R----~e~GeL~VGIRR 170 (964)
....+.+.|..| ..++++|+..- ...|..||+|.+.. .-+|.+.+.+.+
T Consensus 23 ~~~~~~l~D~TG---~i~~~~W~~~~-------------~~~~~~G~vv~i~~~~v~~~~g~~ql~i~~ 75 (82)
T cd04491 23 KVQSGLVGDETG---TIRFTLWDEKA-------------ADDLEPGDVVRIENAYVREFNGRLELSVGK 75 (82)
T ss_pred EEEEEEEECCCC---EEEEEEECchh-------------cccCCCCCEEEEEeEEEEecCCcEEEEeCC
Confidence 456888999998 57788886421 44588999888762 235666666554
No 29
>PF15057 DUF4537: Domain of unknown function (DUF4537)
Probab=24.41 E-value=2.6e+02 Score=27.72 Aligned_cols=79 Identities=22% Similarity=0.316 Sum_probs=52.7
Q ss_pred CCeEEEEEcCCCcEEEEEEeccCCCCCCCCcccCCCccccchHHHHHHHHhcCCcEEEEEcC-CC--CCCccccchHhHh
Q 002119 151 GDSVLFIRDEKSQLLLGIRRANRQQPALSSSVISSDSMHIGILAAAAHAAANNSPFTIFYNP-RA--SPSEFVIPLAKYN 227 (964)
Q Consensus 151 GDsVVF~R~e~GeL~VGIRRA~r~~~~~~ssvissdsm~~gvLAaAahaaatgs~FtV~Y~P-Ra--s~sEFVVp~~kY~ 227 (964)
|..|+=-++++|.|+.|.-++.- ++..|.|.|+- +. -..+|||...
T Consensus 1 g~~VlAR~~~DG~YY~GtV~~~~----------------------------~~~~~lV~f~~~~~~~v~~~~iI~~~--- 49 (124)
T PF15057_consen 1 GQKVLARREEDGFYYPGTVKKCV----------------------------SSGQFLVEFDDGDTQEVPISDIIALS--- 49 (124)
T ss_pred CCeEEEeeCCCCcEEeEEEEEcc----------------------------CCCEEEEEECCCCEEEeChHHeEEcc---
Confidence 55666666789999988766432 34566677722 21 1456677655
Q ss_pred HHHhcccccCceeeeeeecccCccceeeeEEEEec
Q 002119 228 KAMYTQVSLGMRFRMMFETEESGVRRYMGTITSIS 262 (964)
Q Consensus 228 ~Am~~~Ws~GMRFRM~FEtEdss~rwy~GTItgIs 262 (964)
.|+.+...+|+.+-+..|..+ .++.=|||++.-
T Consensus 50 ~~~~~~L~~GD~VLA~~~~~~--~~Y~Pg~V~~~~ 82 (124)
T PF15057_consen 50 DAMRHSLQVGDKVLAPWEPDD--CRYGPGTVIAGP 82 (124)
T ss_pred CcccCcCCCCCEEEEecCcCC--CEEeCEEEEECc
Confidence 566899999999999955433 345669999854
No 30
>PF13275 S4_2: S4 domain; PDB: 1P9K_A.
Probab=23.05 E-value=51 Score=29.71 Aligned_cols=27 Identities=22% Similarity=0.204 Sum_probs=13.0
Q ss_pred ccchhhhccCCCCCCCeEEEEEcCCCcEEE
Q 002119 137 TGWSVFVSTKRLFAGDSVLFIRDEKSQLLL 166 (964)
Q Consensus 137 TGWS~FVr~KkLvaGDsVVF~R~e~GeL~V 166 (964)
.|=...-|.++|++||.|.| ++..+.|
T Consensus 38 NGe~e~rrg~Kl~~GD~V~~---~~~~~~V 64 (65)
T PF13275_consen 38 NGEVETRRGKKLRPGDVVEI---DGEEYRV 64 (65)
T ss_dssp TTB----SS----SSEEEEE---TTEEEEE
T ss_pred CCEEccccCCcCCCCCEEEE---CCEEEEE
Confidence 34445668899999999999 4444544
No 31
>PF06003 SMN: Survival motor neuron protein (SMN); InterPro: IPR010304 This family consists of several eukaryotic survival motor neuron (SMN) proteins. The Survival of Motor Neurons (SMN) protein, the product of the spinal muscular atrophy-determining gene, is part of a large macromolecular complex (SMN complex) that functions in the assembly of spliceosomal small nuclear ribonucleoproteins (snRNPs). The SMN complex functions as a specificity factor essential for the efficient assembly of Sm proteins on U snRNAs and likely protects cells from illicit, and potentially deleterious, non-specific binding of Sm proteins to RNAs.; GO: 0003723 RNA binding, 0006397 mRNA processing, 0005634 nucleus, 0005737 cytoplasm; PDB: 1MHN_A 4A4G_A 3S6N_M 4A4E_A 1G5V_A 4A4H_A 4A4F_A 2D9T_A.
Probab=21.94 E-value=76 Score=35.07 Aligned_cols=57 Identities=19% Similarity=0.239 Sum_probs=32.7
Q ss_pred hcccccCceeeeeeecccCccceeeeEEEEeccCCCCCCCCCCccceecccccCCCCCCCCccccCccccCC
Q 002119 231 YTQVSLGMRFRMMFETEESGVRRYMGTITSISDLDPLRWKNSQWRNLQVGWDESTAGERPSRVSLWETEPVV 302 (964)
Q Consensus 231 ~~~Ws~GMRFRM~FEtEdss~rwy~GTItgIsd~DP~rWp~S~WR~LqV~WDE~~~~qr~eRVSPWEIEpv~ 302 (964)
...|.+|++.+-.|.+| ..+|.+||++|..-+- .+.|..++=+ +.+.|+.=+|.+..
T Consensus 66 ~~~WkvGd~C~A~~s~D---g~~Y~A~I~~i~~~~~---------~~~V~f~gYg---n~e~v~l~dL~~~~ 122 (264)
T PF06003_consen 66 NKKWKVGDKCMAVYSED---GQYYPATIESIDEEDG---------TCVVVFTGYG---NEEEVNLSDLKPSE 122 (264)
T ss_dssp TT---TT-EEEEE-TTT---SSEEEEEEEEEETTTT---------EEEEEETTTT---EEEEEEGGGEEETT
T ss_pred ccCCCCCCEEEEEECCC---CCEEEEEEEEEcCCCC---------EEEEEEcccC---CeEeeehhhhcccc
Confidence 36899999999999543 2699999999975221 2336666543 23455555555543
No 32
>PF10377 ATG11: Autophagy-related protein 11; InterPro: IPR019460 This family consists of proteins involved in telomere maintenance. In Schizosaccharomyces pombe (fission yeast) this protein is called Taf1 (taz1 interacting factor) and is part of the telomere cap complex. In Saccharomyces cerevisiae (baker's yeast) this protein is called ATG11 and is known to be involved in vacuolar targeting and peroxisome degradation [, ].
Probab=20.80 E-value=2.3e+02 Score=28.41 Aligned_cols=21 Identities=29% Similarity=0.521 Sum_probs=16.4
Q ss_pred hccCCCCCCCeEEEEEcCCCc
Q 002119 143 VSTKRLFAGDSVLFIRDEKSQ 163 (964)
Q Consensus 143 Vr~KkLvaGDsVVF~R~e~Ge 163 (964)
+.-++..+||.|+|+.+..+.
T Consensus 38 Is~~~f~~GDlvLflpt~~~~ 58 (129)
T PF10377_consen 38 ISFRNFQVGDLVLFLPTRNHN 58 (129)
T ss_pred EEEecCCCCCEEEEEecCCCC
Confidence 445678899999999986555
No 33
>KOG4369 consensus RTK signaling protein MASK/UNC-44 [Signal transduction mechanisms]
Probab=20.37 E-value=63 Score=42.62 Aligned_cols=9 Identities=44% Similarity=0.781 Sum_probs=4.5
Q ss_pred cceeeeEEE
Q 002119 251 VRRYMGTIT 259 (964)
Q Consensus 251 ~rwy~GTIt 259 (964)
+.+|.|||.
T Consensus 1620 is~~q~tiq 1628 (2131)
T KOG4369|consen 1620 ISMYQGTIQ 1628 (2131)
T ss_pred ccccCCccc
Confidence 445555553
No 34
>PF02643 DUF192: Uncharacterized ACR, COG1430; InterPro: IPR003795 This entry describes proteins of unknown function.; PDB: 3M7A_B 3PJY_B.
Probab=20.37 E-value=1.4e+02 Score=28.64 Aligned_cols=46 Identities=20% Similarity=0.275 Sum_probs=27.0
Q ss_pred eEEEEEeCCCCeEEEEEEEe---------CCCCccee--cccchhhhccCCCCCCCeEEE
Q 002119 108 QEIVARDLHDTTWTFRHIYR---------GQPKRHLL--TTGWSVFVSTKRLFAGDSVLF 156 (964)
Q Consensus 108 qeLvakDlhGkeW~FRhiyR---------gqprRhlL--TTGWS~FVr~KkLvaGDsVVF 156 (964)
.++.+.|..|++=....... ..+-+|+| ..| ++..++|++||.|.|
T Consensus 50 LDi~fld~~g~Vv~i~~~~~P~~~~~~~~~~~a~~vLE~~aG---~~~~~~i~~Gd~v~~ 106 (108)
T PF02643_consen 50 LDIAFLDSDGRVVKIERMVPPWRTYPCPSYKPARYVLELPAG---WFEKLGIKVGDRVRI 106 (108)
T ss_dssp EEEEEE-TTSBEEEEEEEE-TT--S-EEECCEECEEEEEETT---HHHHHT--TT-EEE-
T ss_pred EEEEEECCCCeEEEEEccCCCCccCCCCCCCccCEEEEcCCC---chhhcCCCCCCEEEe
Confidence 45788888887666555441 12346777 455 458899999999987
No 35
>PF12690 BsuPI: Intracellular proteinase inhibitor; InterPro: IPR020481 BsuPI is a intracellular proteinase inhibitor that directly regulates the major intracellular proteinase (ISP-1) activity in vivo. It inhibits ISP-1 in the early stages of sporulation and then may be inactivated by a membrane-bound proteinase [].; PDB: 3ISY_A.
Probab=20.33 E-value=72 Score=29.45 Aligned_cols=41 Identities=17% Similarity=0.410 Sum_probs=21.8
Q ss_pred ceEEEEEeCCC-CeEEEEEEEeCCCCcceecccchhhhccCCCCCCCeEEEEE
Q 002119 107 AQEIVARDLHD-TTWTFRHIYRGQPKRHLLTTGWSVFVSTKRLFAGDSVLFIR 158 (964)
Q Consensus 107 sqeLvakDlhG-keW~FRhiyRgqprRhlLTTGWS~FVr~KkLvaGDsVVF~R 158 (964)
.-+|.++|..| ++|+| +....|+ .-.....|.+|++++|--
T Consensus 25 ~~D~~v~d~~g~~vwrw-------S~~~~Ft----Qal~~~~l~pGe~~~~~~ 66 (82)
T PF12690_consen 25 RYDFVVKDKEGKEVWRW-------SDGKMFT----QALQEETLEPGESLTYEE 66 (82)
T ss_dssp -EEEEEE-TT--EEEET-------TTT-----------EEEEE-TT-EEEEEE
T ss_pred EEEEEEECCCCCEEEEe-------cCCchhh----heeeEEEECCCCEEEEEE
Confidence 45789999888 56665 3334443 345678899999999864
No 36
>PF14436 EndoU_bacteria: Bacterial EndoU nuclease
Probab=20.28 E-value=4e+02 Score=25.79 Aligned_cols=82 Identities=15% Similarity=0.133 Sum_probs=37.5
Q ss_pred eEEEEEEEeCCCCcc--eecccchhhhccCCCCCCCeEE---EEEcCCCcEEEEEEec--cCCCCCCCCcccCCCccccc
Q 002119 119 TWTFRHIYRGQPKRH--LLTTGWSVFVSTKRLFAGDSVL---FIRDEKSQLLLGIRRA--NRQQPALSSSVISSDSMHIG 191 (964)
Q Consensus 119 eW~FRhiyRgqprRh--lLTTGWS~FVr~KkLvaGDsVV---F~R~e~GeL~VGIRRA--~r~~~~~~ssvissdsm~~g 191 (964)
.+.|.||+.|...+. .+ +|+...-.... .|-.|+ ---..+|-+.+.|.-. .+......++.+..+....-
T Consensus 2 ~~~~~Hi~~Ge~~~~~~~i-~G~H~~~~~~~--~~~~i~~~t~~~~~~GVy~~~v~i~~~~~~~~~~~st~FP~~ws~~~ 78 (128)
T PF14436_consen 2 QNAFEHIFCGEINRQGKGI-GGGHNQGRFNQ--NGVKIISETEPPNPNGVYTAKVEIPGPDGNGKGKKSTFFPKNWSDEK 78 (128)
T ss_pred cccccccEEeccccCCCcc-eeecCCCcccc--ccceEeecccccCCCCeEEEEEEEecCCCCcCCCCCEECCccCCHHH
Confidence 467899999865443 44 34443332221 111111 1123466655554433 22211223344444444444
Q ss_pred hHHHHHHHHhcC
Q 002119 192 ILAAAAHAAANN 203 (964)
Q Consensus 192 vLAaAahaaatg 203 (964)
++.++.+|+.++
T Consensus 79 I~~~i~~a~~n~ 90 (128)
T PF14436_consen 79 ILDEIQEAYKNK 90 (128)
T ss_pred HHHHHHHHHhCC
Confidence 666666666554
No 37
>PRK14129 heat shock protein HspQ; Provisional
Probab=20.03 E-value=1.1e+02 Score=30.18 Aligned_cols=52 Identities=21% Similarity=0.369 Sum_probs=35.0
Q ss_pred hcccccCceeeeeeecccCccceeeeEEEEeccCCCCCCCC-CCccceecccccCCCCCCCCccccCcccc
Q 002119 231 YTQVSLGMRFRMMFETEESGVRRYMGTITSISDLDPLRWKN-SQWRNLQVGWDESTAGERPSRVSLWETEP 300 (964)
Q Consensus 231 ~~~Ws~GMRFRM~FEtEdss~rwy~GTItgIsd~DP~rWp~-S~WR~LqV~WDE~~~~qr~eRVSPWEIEp 300 (964)
..++.+|.-+|-+.= .|.|.|++| || .+.+ .+| |++-... ++.|=.||===+
T Consensus 3 ~akF~IGQ~VrHrl~-------~yrGVV~DV---DP-~fs~~e~w------~~~ia~~-~p~kdqPwYHvl 55 (105)
T PRK14129 3 ASKFGIGQQVRHSLL-------GYLGVVVDI---DP-EYSLEEPS------PDELAVN-DELRAAPWYHVV 55 (105)
T ss_pred cccccCCcEEEEeec-------CCCeEEEee---CC-CcCCCchh------HHhhccC-CCccCCCceEEE
Confidence 357889999997754 489999998 44 3433 345 5655443 777888885333
Done!