Query 030046
Match_columns 183
No_of_seqs 171 out of 1055
Neff 3.7
Searched_HMMs 46136
Date Fri Mar 29 07:40:57 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/030046.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/030046hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 TIGR00256 D-tyrosyl-tRNA(Tyr) 100.0 3.4E-47 7.3E-52 306.3 13.8 111 37-149 1-136 (145)
2 COG1490 Dtd D-Tyr-tRNAtyr deac 100.0 2.7E-47 5.9E-52 306.5 12.1 112 37-150 1-137 (145)
3 PRK05273 D-tyrosyl-tRNA(Tyr) d 100.0 6E-47 1.3E-51 305.6 13.7 112 37-150 1-137 (147)
4 cd00563 Dtyr_deacylase D-Tyros 100.0 1.2E-46 2.6E-51 303.2 13.5 111 37-149 1-136 (145)
5 PTZ00120 D-tyrosyl-tRNA(Tyr) d 100.0 3.6E-46 7.7E-51 303.0 13.8 113 37-150 1-139 (154)
6 PF02580 Tyr_Deacylase: D-Tyr- 100.0 7E-45 1.5E-49 292.3 11.7 111 38-149 1-136 (145)
7 KOG3323 D-Tyr-tRNA (Tyr) deacy 100.0 2E-43 4.4E-48 284.4 7.2 113 37-149 1-138 (149)
8 PF08915 tRNA-Thr_ED: Archaea- 74.4 10 0.00022 31.1 5.8 88 56-155 31-135 (138)
9 PRK05481 lipoyl synthase; Prov 50.0 86 0.0019 27.6 7.5 67 64-141 201-272 (289)
10 PRK14938 Ser-tRNA(Thr) hydrola 49.2 56 0.0012 30.9 6.5 75 57-141 31-114 (387)
11 COG2764 PhnB Uncharacterized p 44.9 61 0.0013 26.1 5.3 60 43-102 47-116 (136)
12 PRK03991 threonyl-tRNA synthet 39.0 1E+02 0.0023 30.3 6.9 77 55-141 30-119 (613)
13 PRK15245 type III effector pho 38.5 19 0.00042 32.0 1.6 62 87-154 148-210 (241)
14 COG4281 ACB Acyl-CoA-binding p 35.9 42 0.00091 25.7 2.9 35 98-132 38-86 (87)
15 PF01076 Mob_Pre: Plasmid reco 31.3 33 0.00071 28.4 1.8 35 102-136 86-120 (196)
16 cd00435 ACBP Acyl CoA binding 31.2 49 0.0011 24.4 2.6 34 98-131 37-84 (85)
17 cd08049 TAF8 TATA Binding Prot 30.7 26 0.00056 23.8 1.0 11 2-12 2-12 (54)
18 cd08536 SAM_PNT-Mae Sterile al 27.9 43 0.00094 23.9 1.8 42 85-127 22-65 (66)
19 PF10406 TAF8_C: Transcription 27.5 31 0.00068 23.3 0.9 11 2-12 2-12 (51)
20 cd00652 TBP_TLF TATA box bindi 26.0 95 0.0021 25.6 3.7 70 101-173 54-127 (174)
21 TIGR00510 lipA lipoate synthas 25.7 3.7E+02 0.008 24.2 7.6 70 59-141 209-283 (302)
22 KOG0805 Carbon-nitrogen hydrol 24.8 1.3E+02 0.0029 27.7 4.7 72 56-127 14-92 (337)
23 COG4013 Uncharacterized protei 24.3 2.3E+02 0.0049 22.0 5.1 40 43-83 28-74 (91)
24 PLN00062 TATA-box-binding prot 23.9 1.1E+02 0.0023 25.7 3.6 70 101-173 54-126 (179)
25 PRK07058 acetate kinase; Provi 23.8 27 0.00058 33.0 0.1 69 56-131 241-309 (396)
26 PF02184 HAT: HAT (Half-A-TPR) 22.2 51 0.0011 20.9 1.1 13 113-125 3-15 (32)
27 cd04516 TBP_eukaryotes eukaryo 21.8 1.2E+02 0.0025 25.3 3.4 70 101-173 54-126 (174)
28 PF00887 ACBP: Acyl CoA bindin 21.2 50 0.0011 23.8 1.0 33 98-130 39-85 (87)
29 cd04517 TLF TBP-like factors ( 20.6 1.4E+02 0.0031 24.7 3.7 68 103-172 56-126 (174)
30 COG3324 Predicted enzyme relat 20.1 1.5E+02 0.0033 23.7 3.7 29 60-90 70-98 (127)
31 cd03063 TRX_Fd_FDH_beta TRX-li 20.1 1E+02 0.0022 23.2 2.6 28 114-141 14-42 (92)
No 1
>TIGR00256 D-tyrosyl-tRNA(Tyr) deacylase. This homodimeric enzyme appears able to cleave any D-amino acid (and glycine, which does not have distinct D/L forms) from charged tRNA. The name reflects characterization with respect to D-Tyr on tRNA(Tyr) as established in the literature, but substrate specificity seems much broader.
Probab=100.00 E-value=3.4e-47 Score=306.33 Aligned_cols=111 Identities=39% Similarity=0.543 Sum_probs=106.1
Q ss_pred ceEEEEeeceeEEEECCEEEeeECCeeEEEEecccCCCHHHHHH---------------------HHHcCCceEeecccc
Q 030046 37 MRAVVQRVASASVEVEGRLVSEIGPGLLVLVGLHEFDTDADADY---------------------VMQKKYGVLLVSQFT 95 (183)
Q Consensus 37 MRaVIQRV~~AsV~Vdgevvg~Ig~GLLvLVGI~k~DTeed~~~---------------------v~Dv~GeILvVSQFT 95 (183)
||+|||||++|+|+|||+++++||+|+|+||||+++||+++++| ++|++||||+|||||
T Consensus 1 Mr~viQRV~~AsV~V~~~~v~~I~~GllvlvGi~~~Dt~~~~~~~~~Kil~lRif~de~gk~~~Sv~d~~geiL~VSQFT 80 (145)
T TIGR00256 1 MIALIQRVSQASVTVEGEVIGEIGAGLLVLLGVEKDDDEQKADKLAEKVLNYRIFSDSEGKMNLNVQQAGGEILSVSQFT 80 (145)
T ss_pred CEEEEEEeCeEEEEECCEEEEEECCcEEEEEEecCCCCHHHHHHHHHHHhheEeccCCCCCccCCHHHCCCCEEEEECCc
Confidence 99999999999999999999999999999999999999999999 678999999999999
Q ss_pred ccccC-cCCCCCCCCCCCCCchHHHHHHHHHHHHhhCCCCceecccc---eeEEEEec
Q 030046 96 LYGIL-KGNKPDFHVAMPPQKAKPFYDSLVDKFRKSYNPDAIKGKCA---FQLHLVLR 149 (183)
Q Consensus 96 L~ad~-KGnRPsF~~Aa~Pe~A~~LYe~Fve~lr~~~~~~~Vk~G~F---mqv~lv~~ 149 (183)
||||+ ||||||||.||+||.|++||++|+++|++.+ .+|++|+| |+++++|+
T Consensus 81 L~a~~~KG~rPsF~~a~~~~~A~~ly~~fv~~l~~~~--~~V~~G~FGa~M~V~l~Nd 136 (145)
T TIGR00256 81 LAADTKKGMRPSFSKGASPDRAEELYEYFVELCREKG--MKVQTGRFAADMQVSLTND 136 (145)
T ss_pred ccccCCCCCCCCccccCCHHHHHHHHHHHHHHHHhcC--CCceECccCCCcEEEEEEC
Confidence 99995 9999999999999999999999999999764 58999998 88888886
No 2
>COG1490 Dtd D-Tyr-tRNAtyr deacylase [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=2.7e-47 Score=306.48 Aligned_cols=112 Identities=45% Similarity=0.647 Sum_probs=107.0
Q ss_pred ceEEEEeeceeEEEECCEEEeeECCeeEEEEecccCCCHHHHHH---------------------HHHcCCceEeecccc
Q 030046 37 MRAVVQRVASASVEVEGRLVSEIGPGLLVLVGLHEFDTDADADY---------------------VMQKKYGVLLVSQFT 95 (183)
Q Consensus 37 MRaVIQRV~~AsV~Vdgevvg~Ig~GLLvLVGI~k~DTeed~~~---------------------v~Dv~GeILvVSQFT 95 (183)
||+|||||++|+|+|||+++|+|++|||+||||+++||+++++| ++|++|+||+|||||
T Consensus 1 MkaviQRV~~AsV~Vdgeivg~I~~GllvLvGV~~~Dt~~~a~~l~~Ki~~lRiF~D~~gKmN~sv~di~G~iL~VSQFT 80 (145)
T COG1490 1 MKAVIQRVSSASVSVDGEVVGAIGQGLLVLVGVTHDDTEEDADYLAEKILNLRIFEDEEGKMNLSVQDVGGEILVVSQFT 80 (145)
T ss_pred CeeeeeeeeeeEEEECCEEeeecCCcEEEEEeecCCCCHHHHHHHHHHHhceEeecCcccccccCHHHcCCcEEEEEEEE
Confidence 99999999999999999999999999999999999999999999 688999999999999
Q ss_pred cccc-CcCCCCCCCCCCCCCchHHHHHHHHHHHHhhCCCCceecccc---eeEEEEecc
Q 030046 96 LYGI-LKGNKPDFHVAMPPQKAKPFYDSLVDKFRKSYNPDAIKGKCA---FQLHLVLRS 150 (183)
Q Consensus 96 L~ad-~KGnRPsF~~Aa~Pe~A~~LYe~Fve~lr~~~~~~~Vk~G~F---mqv~lv~~~ 150 (183)
|||| .|||||||+.||+|+.|++||++|++.|++.+ .+|++|+| |||+|+|+-
T Consensus 81 L~adt~kG~RPsFs~aa~p~~A~~lYe~f~~~lr~~~--~~V~tG~FgA~M~V~LvNdG 137 (145)
T COG1490 81 LYADTKKGRRPSFSKAAKPDQAEELYEYFVELLRELG--IKVETGRFGADMQVSLVNDG 137 (145)
T ss_pred EeecccCCCCCCccccCChHHHHHHHHHHHHHHHhcC--CcceeeeeeceeEEEEecCC
Confidence 9999 59999999999999999999999999999875 57999998 999999873
No 3
>PRK05273 D-tyrosyl-tRNA(Tyr) deacylase; Provisional
Probab=100.00 E-value=6e-47 Score=305.55 Aligned_cols=112 Identities=48% Similarity=0.734 Sum_probs=106.5
Q ss_pred ceEEEEeeceeEEEECCEEEeeECCeeEEEEecccCCCHHHHHH---------------------HHHcCCceEeecccc
Q 030046 37 MRAVVQRVASASVEVEGRLVSEIGPGLLVLVGLHEFDTDADADY---------------------VMQKKYGVLLVSQFT 95 (183)
Q Consensus 37 MRaVIQRV~~AsV~Vdgevvg~Ig~GLLvLVGI~k~DTeed~~~---------------------v~Dv~GeILvVSQFT 95 (183)
||+|||||++|||+|||+++++||+|+|+||||+++||+++++| ++|++||||+|||||
T Consensus 1 Mr~viQRV~~AsV~Vd~~~v~~Ig~GllvlvGi~~~Dt~~~~~~~~~Kil~lRif~d~~gk~~~Sv~d~~geiL~VsQFT 80 (147)
T PRK05273 1 MRAVIQRVSEASVTVDGEVVGEIGKGLLVLVGVEKGDTEEDADYLAEKILNLRIFEDEEGKMNLSVQDVGGEILVVSQFT 80 (147)
T ss_pred CEEEEEEeceEEEEECCEEEEEECCceEEEEEEcCCCCHHHHHHHHHHHhheEcccCCCCCcccCHHHCCCCEEEEEccc
Confidence 99999999999999999999999999999999999999999999 678999999999999
Q ss_pred ccccC-cCCCCCCCCCCCCCchHHHHHHHHHHHHhhCCCCceecccc---eeEEEEecc
Q 030046 96 LYGIL-KGNKPDFHVAMPPQKAKPFYDSLVDKFRKSYNPDAIKGKCA---FQLHLVLRS 150 (183)
Q Consensus 96 L~ad~-KGnRPsF~~Aa~Pe~A~~LYe~Fve~lr~~~~~~~Vk~G~F---mqv~lv~~~ 150 (183)
|||++ ||||||||.||+||.|++||++|+++|++.+ .+|++|+| |+++++|+=
T Consensus 81 L~a~~~KG~rP~F~~a~~~~~A~~ly~~f~~~l~~~~--~~V~~G~FGa~M~V~l~NDG 137 (147)
T PRK05273 81 LYADTRKGRRPSFSAAAPPEEAEPLYDYFVEALRAQG--VPVETGRFGADMQVSLVNDG 137 (147)
T ss_pred ccccCCCCCCCCccccCCHHHHHHHHHHHHHHHHHcC--CceeecccCCCcEEEEEECC
Confidence 99995 9999999999999999999999999999886 47999998 888888863
No 4
>cd00563 Dtyr_deacylase D-Tyrosyl-tRNAtyr deacylases; a class of tRNA-dependent hydrolases which are capable of hydrolyzing the ester bond of D-Tyrosyl-tRNA reducing the level of cellular D-Tyrosine while recycling the peptidyl-tRNA; found in bacteria and in eukaryotes but not in archea; beta barrel-like fold structure; forms homodimers in which two surface cavities serve as the active site for tRNA binding
Probab=100.00 E-value=1.2e-46 Score=303.16 Aligned_cols=111 Identities=48% Similarity=0.737 Sum_probs=106.1
Q ss_pred ceEEEEeeceeEEEECCEEEeeECCeeEEEEecccCCCHHHHHH---------------------HHHcCCceEeecccc
Q 030046 37 MRAVVQRVASASVEVEGRLVSEIGPGLLVLVGLHEFDTDADADY---------------------VMQKKYGVLLVSQFT 95 (183)
Q Consensus 37 MRaVIQRV~~AsV~Vdgevvg~Ig~GLLvLVGI~k~DTeed~~~---------------------v~Dv~GeILvVSQFT 95 (183)
||+|||||++|+|+|||+++++||+|+|+||||+++||+++++| +.|++||||+|||||
T Consensus 1 Mr~viQRV~~A~V~V~~~~v~~Ig~GllvlvGi~~~Dt~~~~~~~~~Kll~lRif~d~~gk~~~Sv~d~~gevL~VsQFT 80 (145)
T cd00563 1 MRAVIQRVSEASVTVDGEVVGAIGQGLLVLVGVTHDDTEEDAEYLARKILNLRIFEDEEGKMNLSVKDVNGEILVVSQFT 80 (145)
T ss_pred CEEEEEEeceEEEEECCEEEEEECCcEEEEEEecCCCCHHHHHHHHHHHhheEcccCCCCCcccChhhcCCCEEEEEccc
Confidence 99999999999999999999999999999999999999999999 678999999999999
Q ss_pred ccccC-cCCCCCCCCCCCCCchHHHHHHHHHHHHhhCCCCceecccc---eeEEEEec
Q 030046 96 LYGIL-KGNKPDFHVAMPPQKAKPFYDSLVDKFRKSYNPDAIKGKCA---FQLHLVLR 149 (183)
Q Consensus 96 L~ad~-KGnRPsF~~Aa~Pe~A~~LYe~Fve~lr~~~~~~~Vk~G~F---mqv~lv~~ 149 (183)
|||++ ||||||||.||+||.|++||++|+++|++.+ .+|++|+| |+++++|+
T Consensus 81 L~~~~~KG~rP~F~~a~~~e~A~~ly~~fv~~l~~~~--~~V~~G~FGa~M~V~l~ND 136 (145)
T cd00563 81 LYADTKKGRRPSFSAAAPPDKAEPLYESFVELLREKG--IKVETGVFGAMMQVSLVND 136 (145)
T ss_pred cccccCCCCCCCccccCCHHHHHHHHHHHHHHHHHcC--CcceeCccCCCcEEEEEEC
Confidence 99995 9999999999999999999999999999886 47999998 88888886
No 5
>PTZ00120 D-tyrosyl-tRNA(Tyr) deacylase; Provisional
Probab=100.00 E-value=3.6e-46 Score=302.98 Aligned_cols=113 Identities=57% Similarity=0.882 Sum_probs=106.9
Q ss_pred ceEEEEeeceeEEEECCEEEeeECCeeEEEEecccCCCHHHHHH----------------------HHHcCCceEeeccc
Q 030046 37 MRAVVQRVASASVEVEGRLVSEIGPGLLVLVGLHEFDTDADADY----------------------VMQKKYGVLLVSQF 94 (183)
Q Consensus 37 MRaVIQRV~~AsV~Vdgevvg~Ig~GLLvLVGI~k~DTeed~~~----------------------v~Dv~GeILvVSQF 94 (183)
||+|||||++|+|+|||+++++||+|+|+||||+++||+++++| +.|++||||+||||
T Consensus 1 Mr~viQRV~~AsV~V~~~~v~~I~~GllvlvGi~~~Dt~~~~~~l~~Kil~lRiF~de~gk~~n~Sv~d~~geiL~VSQF 80 (154)
T PTZ00120 1 MRVVIQRVLSASVTVEGEVVGSIGKGLVLLVGIHEEDTWEDADYIIRKCLKLRLWPDEGGKMWDRSVKDKDYEVLVVSQF 80 (154)
T ss_pred CEEEEEEeCeEEEEECCEEEEEECCceEEEEEEcCCCCHHHHHHHHHHHhheecccCCCCCcccCCHhhcCCCEEEEEcc
Confidence 99999999999999999999999999999999999999999999 67889999999999
Q ss_pred ccccc-CcCCCCCCCCCCCCCchHHHHHHHHHHHHhhCCCCceecccc---eeEEEEecc
Q 030046 95 TLYGI-LKGNKPDFHVAMPPQKAKPFYDSLVDKFRKSYNPDAIKGKCA---FQLHLVLRS 150 (183)
Q Consensus 95 TL~ad-~KGnRPsF~~Aa~Pe~A~~LYe~Fve~lr~~~~~~~Vk~G~F---mqv~lv~~~ 150 (183)
||| | +||||||||.||+||+|++||++|+++|++.+++.+|++|+| |+|+++|+=
T Consensus 81 TL~-~~~KG~RPsF~~aa~~~~A~~Ly~~f~~~l~~~~~~~~V~~G~FGa~M~V~l~NdG 139 (154)
T PTZ00120 81 TLF-NVKKGNKPDFHLAMSPEDALPLYNKFVEKFKKEYAPEKIKTGKFGQYMNVSLVNDG 139 (154)
T ss_pred ccc-cCCCCCCCCccccCCHHHHHHHHHHHHHHHHhcCCCCccEECcCCCCcEEEEEECC
Confidence 999 8 599999999999999999999999999998875458999999 999999873
No 6
>PF02580 Tyr_Deacylase: D-Tyr-tRNA(Tyr) deacylase; InterPro: IPR003732 This homodimeric enzyme appears able to cleave any D-amino acid (and glycine, which does not have distinct D/L forms) from charged tRNA. The name reflects characterisation with respect to D-Tyr on tRNA(Tyr) as established in the literature, but substrate specificity seems much broader. ; GO: 0016788 hydrolase activity, acting on ester bonds, 0019478 D-amino acid catabolic process, 0005737 cytoplasm; PDB: 3LMU_F 3LMT_B 3KNF_B 3KOC_C 3KNP_D 3KO9_F 3KO3_B 3KO5_C 3KOB_D 3LMV_E ....
Probab=100.00 E-value=7e-45 Score=292.32 Aligned_cols=111 Identities=50% Similarity=0.772 Sum_probs=97.6
Q ss_pred eEEEEeeceeEEEECCEEEeeECCeeEEEEecccCCCHHHHHH---------------------HHHcCCceEeeccccc
Q 030046 38 RAVVQRVASASVEVEGRLVSEIGPGLLVLVGLHEFDTDADADY---------------------VMQKKYGVLLVSQFTL 96 (183)
Q Consensus 38 RaVIQRV~~AsV~Vdgevvg~Ig~GLLvLVGI~k~DTeed~~~---------------------v~Dv~GeILvVSQFTL 96 (183)
|+|||||++|+|+|||+++++||+|+|+||||+++||+++++| ++|++||||+||||||
T Consensus 1 R~ViQRV~~A~V~V~~~~~~~Ig~Glvvlvgi~~~Dt~~~~~~~~~Kil~lRif~d~~gk~~~Sv~d~~geiL~VsQFTL 80 (145)
T PF02580_consen 1 RAVIQRVSSASVTVDGEVVSSIGRGLVVLVGIGKGDTEEDVDKMARKILNLRIFEDENGKWNLSVKDVGGEILLVSQFTL 80 (145)
T ss_dssp EEEEEEEEEEEEEETTEEEEEESSEEEEEEEEBTT--HHHHHHHHHHHHHSEEEEETTSSEEEETTTTT-EEEEEE-GGG
T ss_pred CEEEEEeCeEEEEECCEEEEEECCCcEEEEEEECCCCHHHHHHHHHhhceEEECcCcCCccceeHhhcccceEEEEeeee
Confidence 7999999999999999999999999999999999999999999 5678999999999999
Q ss_pred cccC-cCCCCCCCCCCCCCchHHHHHHHHHHHHhhCCCCceecccc---eeEEEEec
Q 030046 97 YGIL-KGNKPDFHVAMPPQKAKPFYDSLVDKFRKSYNPDAIKGKCA---FQLHLVLR 149 (183)
Q Consensus 97 ~ad~-KGnRPsF~~Aa~Pe~A~~LYe~Fve~lr~~~~~~~Vk~G~F---mqv~lv~~ 149 (183)
||++ ||||||||.||+||+|++||++|+++|++.++ .+|++|.| |+++++|+
T Consensus 81 ~g~~~kG~rp~f~~a~~~~~a~~ly~~f~~~l~~~~~-~~V~~G~FGa~M~V~l~Nd 136 (145)
T PF02580_consen 81 YGDTKKGNRPSFHNAAPPEEAEELYERFVEKLREEYK-PKVKTGVFGADMQVSLVND 136 (145)
T ss_dssp GSBCSSSSSEBGTTB--HHHHHHHHHHHHHHHHHHST-SCEEE--TTS-EEEEEEEE
T ss_pred eeeccCCCCccccccCCHHHHHHHHHHHHHHHHHhCC-CceeECccCCeeEEEEEeC
Confidence 9995 99999999999999999999999999999985 58999998 88888875
No 7
>KOG3323 consensus D-Tyr-tRNA (Tyr) deacylase [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=2e-43 Score=284.36 Aligned_cols=113 Identities=52% Similarity=0.754 Sum_probs=109.6
Q ss_pred ceEEEEeeceeEEEECCEEEeeECCeeEEEEecccCCCHHHHHH----------------------HHHcCCceEeeccc
Q 030046 37 MRAVVQRVASASVEVEGRLVSEIGPGLLVLVGLHEFDTDADADY----------------------VMQKKYGVLLVSQF 94 (183)
Q Consensus 37 MRaVIQRV~~AsV~Vdgevvg~Ig~GLLvLVGI~k~DTeed~~~----------------------v~Dv~GeILvVSQF 94 (183)
||+|||||++|||+|++++|++|++|+|+||||.++||++|++| ++|.+||||+||||
T Consensus 1 mkavlQrv~~AsvtV~~~~vs~I~~Gl~vlvgi~~~dt~ed~~kmvrkiLnlrlfe~es~k~w~ksv~dl~~eiL~VsQf 80 (149)
T KOG3323|consen 1 MKAVLQRVLRASVTVDDEQVSEIGRGLCVLVGISKDDTEEDLEKMVRKILNLRLFEDESGKGWKKSVMDLNGEILCVSQF 80 (149)
T ss_pred ChHHHHHhhhheEEEcceeeeeecCceEEEEEEccCCCHHHHHHHHHHHhheeeccccccCcccchhhhCCCCEEEEEee
Confidence 89999999999999999999999999999999999999999999 67899999999999
Q ss_pred cccccCcCCCCCCCCCCCCCchHHHHHHHHHHHHhhCCCCceecccc---eeEEEEec
Q 030046 95 TLYGILKGNKPDFHVAMPPQKAKPFYDSLVDKFRKSYNPDAIKGKCA---FQLHLVLR 149 (183)
Q Consensus 95 TL~ad~KGnRPsF~~Aa~Pe~A~~LYe~Fve~lr~~~~~~~Vk~G~F---mqv~lv~~ 149 (183)
||||..|||+|+||.||+|++|++||++|++.|++.|++++|++|.| |+++++|+
T Consensus 81 TL~~rlKG~kpdfH~am~~~ea~elY~qfl~~l~k~~~~~~ikdG~fGamm~v~l~n~ 138 (149)
T KOG3323|consen 81 TLYGRLKGNKPDFHLAMKGEEAKELYNQFLELLRKAYGADKIKDGKFGAMMQVHLVND 138 (149)
T ss_pred eeeeeecCCCcchhhhcCchhhHHHHHHHHHHHHHHhCchhhhccccceEEEEEEecC
Confidence 99999999999999999999999999999999999999999999998 88888876
No 8
>PF08915 tRNA-Thr_ED: Archaea-specific editing domain of threonyl-tRNA synthetase; InterPro: IPR015011 Archaea-specific editing domain of threonyl-tRNA synthetase, with marked structural similarity to D-amino acids deacylases found in eubacteria and eukaryotes. This domain can bind D-amino acids, and ensures high fidelity during translation. It is especially responsible for removing incorrectly attached serine from tRNA-Thr. The domain forms a fold that can be defined as two layers of beta-sheets (a three-stranded sheet and a five-stranded sheet), with two alpha-helices located adjacent to the five-stranded sheet []. ; GO: 0004829 threonine-tRNA ligase activity, 0005524 ATP binding, 0008270 zinc ion binding, 0005737 cytoplasm; PDB: 3PD4_B 3PD3_A 2HL0_A 2HL1_A 2HKZ_A 3PD5_B 2HL2_A 3PD2_B 1Y2Q_A.
Probab=74.37 E-value=10 Score=31.12 Aligned_cols=88 Identities=14% Similarity=0.126 Sum_probs=52.7
Q ss_pred EeeECCeeEEEEecccCCCHH---HHHH--------HHHcCC-ceEeeccccccccCcCCCCCCCCCCCCCchHHHHHHH
Q 030046 56 VSEIGPGLLVLVGLHEFDTDA---DADY--------VMQKKY-GVLLVSQFTLYGILKGNKPDFHVAMPPQKAKPFYDSL 123 (183)
Q Consensus 56 vg~Ig~GLLvLVGI~k~DTee---d~~~--------v~Dv~G-eILvVSQFTL~ad~KGnRPsF~~Aa~Pe~A~~LYe~F 123 (183)
-++...-+++|+.|+++|++. .+++ ...++- .|++=|=.-|.. +-++|+.|.++.+..
T Consensus 31 ~~~~e~alVvF~~VE~~De~~~~~vv~~av~eI~~~a~kv~~~~ivlyPyAHLSs----------~La~P~~A~~iL~~l 100 (138)
T PF08915_consen 31 EGRMENALVVFIAVEKGDEENPEGVVEKAVEEIKWVAKKVKAKRIVLYPYAHLSS----------SLASPDVAVEILKKL 100 (138)
T ss_dssp EEEEEEEEEEEEE-BGGGGG-HHHHHHHHHHHHHHHHHHTT-SEEEEEE-GGGSS----------SB--HHHHHHHHHHH
T ss_pred ccceeeeEEEEEEEcCCCCCCHHHHHHHHHHHHHHHHHhcCCCEEEEeCcccccC----------CcCChHHHHHHHHHH
Confidence 467788899999999999887 5555 122343 455555444443 337899999999999
Q ss_pred HHHHHhhCCCCce---ecccc--eeEEEEecccceee
Q 030046 124 VDKFRKSYNPDAI---KGKCA--FQLHLVLRSFSFLY 155 (183)
Q Consensus 124 ve~lr~~~~~~~V---k~G~F--mqv~lv~~~~~~~~ 155 (183)
-+.|++.. ..| .+|-| |..+-.=.+.|-|.
T Consensus 101 e~~L~~~g--~eV~raPFGwyK~F~i~ckGHPLsElS 135 (138)
T PF08915_consen 101 EERLKSRG--FEVYRAPFGWYKEFEISCKGHPLSELS 135 (138)
T ss_dssp HHHHHHTT---EEEE--TTEEEEEEEEE-SSTTSEEE
T ss_pred HHHHHhCC--CeEEEeCCccceeEEEEecCccHHHhh
Confidence 99996553 344 66766 45544444444443
No 9
>PRK05481 lipoyl synthase; Provisional
Probab=49.97 E-value=86 Score=27.57 Aligned_cols=67 Identities=15% Similarity=0.108 Sum_probs=51.4
Q ss_pred EEEEecccCCCHHHHHH----HHHcCCceEeeccccccccCcCCCCCC-CCCCCCCchHHHHHHHHHHHHhhCCCCceec
Q 030046 64 LVLVGLHEFDTDADADY----VMQKKYGVLLVSQFTLYGILKGNKPDF-HVAMPPQKAKPFYDSLVDKFRKSYNPDAIKG 138 (183)
Q Consensus 64 LvLVGI~k~DTeed~~~----v~Dv~GeILvVSQFTL~ad~KGnRPsF-~~Aa~Pe~A~~LYe~Fve~lr~~~~~~~Vk~ 138 (183)
=+++|+ +.|++|... +.+.+-+.+-|.||.- |+. +-.++.+..++=++.+.+...+.+- ..|..
T Consensus 201 ~~IvGf--GET~ed~~~tl~~lrel~~d~v~if~Ys~--------pa~k~~~v~~~~k~~r~~~l~~~~~~i~~-~~~~~ 269 (289)
T PRK05481 201 GLMVGL--GETDEEVLEVMDDLRAAGVDILTIGQYLQ--------PSRKHLPVERYVTPEEFDEYKEIALELGF-LHVAS 269 (289)
T ss_pred eeEEEC--CCCHHHHHHHHHHHHhcCCCEEEEEccCC--------CccccCCCCCcCCHHHHHHHHHHHHHcCc-hheEe
Confidence 345687 667777665 7889999999999965 777 6678889999999998887776543 46788
Q ss_pred ccc
Q 030046 139 KCA 141 (183)
Q Consensus 139 G~F 141 (183)
|-+
T Consensus 270 ~~~ 272 (289)
T PRK05481 270 GPL 272 (289)
T ss_pred cCc
Confidence 875
No 10
>PRK14938 Ser-tRNA(Thr) hydrolase; Provisional
Probab=49.15 E-value=56 Score=30.93 Aligned_cols=75 Identities=13% Similarity=0.051 Sum_probs=48.9
Q ss_pred eeECCeeEEEEecccCCCHHHHHHH--------HHcCC-ceEeeccccccccCcCCCCCCCCCCCCCchHHHHHHHHHHH
Q 030046 57 SEIGPGLLVLVGLHEFDTDADADYV--------MQKKY-GVLLVSQFTLYGILKGNKPDFHVAMPPQKAKPFYDSLVDKF 127 (183)
Q Consensus 57 g~Ig~GLLvLVGI~k~DTeed~~~v--------~Dv~G-eILvVSQFTL~ad~KGnRPsF~~Aa~Pe~A~~LYe~Fve~l 127 (183)
+....-+++|+.|+++|.++.+++. .+++- .|++=|=.-|.. +-++|+.|.++.....+.+
T Consensus 31 ~~~~~~lv~F~~VE~~De~~v~~~a~~ei~~~a~~~~~~~ivlypyAHLss----------~la~P~~A~~vl~~le~~~ 100 (387)
T PRK14938 31 IELKNVLVCFTTVEKGDDEEILNEAINDILDVYSKVKAASVVIYPYAHLSS----------NLANPDTAIKVLESLENLL 100 (387)
T ss_pred ccccceEEEEEEeccCCHHHHHHHHHHHHHHHHHhcCCceEEEecchhccc----------ccCChHHHHHHHHHHHHHH
Confidence 4678889999999999977666662 12333 344444333332 4488999999999996655
Q ss_pred HhhCCCCceecccc
Q 030046 128 RKSYNPDAIKGKCA 141 (183)
Q Consensus 128 r~~~~~~~Vk~G~F 141 (183)
+..+.-.+..+|-|
T Consensus 101 ~~~~eV~raPFGwy 114 (387)
T PRK14938 101 KDKVKVYRAPFGWY 114 (387)
T ss_pred hcCceEEEcCcccc
Confidence 53332222367777
No 11
>COG2764 PhnB Uncharacterized protein conserved in bacteria [Function unknown]
Probab=44.89 E-value=61 Score=26.14 Aligned_cols=60 Identities=22% Similarity=0.242 Sum_probs=45.9
Q ss_pred eeceeEEEECCEEE----------eeECCeeEEEEecccCCCHHHHHHHHHcCCceEeeccccccccCcC
Q 030046 43 RVASASVEVEGRLV----------SEIGPGLLVLVGLHEFDTDADADYVMQKKYGVLLVSQFTLYGILKG 102 (183)
Q Consensus 43 RV~~AsV~Vdgevv----------g~Ig~GLLvLVGI~k~DTeed~~~v~Dv~GeILvVSQFTL~ad~KG 102 (183)
++-+|.++++|..+ ...+.|.=+.|=+..+|.+...+++++.|.+|..-.|=|-+|++-|
T Consensus 47 ~i~HA~l~i~g~~im~sd~~~~~~~~~~~~~s~~l~~~~~d~da~f~~a~~aGa~v~mpl~~~fwG~r~G 116 (136)
T COG2764 47 RIMHAELRIGGSTIMLSDAFPDMGATEGGGTSLSLDLYVEDVDAVFERAAAAGATVVMPLEDTFWGDRYG 116 (136)
T ss_pred ceEEEEEEECCEEEEEecCCCccCcccCCCeeEEEEEEehHHHHHHHHHHhcCCeEEecchhcCcccceE
Confidence 56788888888753 1345667777777777777777778988889999999999998543
No 12
>PRK03991 threonyl-tRNA synthetase; Validated
Probab=39.00 E-value=1e+02 Score=30.31 Aligned_cols=77 Identities=14% Similarity=0.141 Sum_probs=50.8
Q ss_pred EEeeECCeeEEEEecccCCC---HHHHHHH--------HHcCCc-eEeeccccccccCcCCCCCCCCCCCCCchHHHHHH
Q 030046 55 LVSEIGPGLLVLVGLHEFDT---DADADYV--------MQKKYG-VLLVSQFTLYGILKGNKPDFHVAMPPQKAKPFYDS 122 (183)
Q Consensus 55 vvg~Ig~GLLvLVGI~k~DT---eed~~~v--------~Dv~Ge-ILvVSQFTL~ad~KGnRPsF~~Aa~Pe~A~~LYe~ 122 (183)
.-+....-|++|+.|+++|+ +..+++. ..++-+ |++=|=.-|.. +-++|+.|.++-..
T Consensus 30 ~~~~~~~~lv~f~~ve~~d~~~~~~~~~~~~~~i~~~~~~~~~~~i~~ypyahls~----------~l~~p~~a~~~l~~ 99 (613)
T PRK03991 30 KSGRLEEALVVFIAVEKGDESNPEGVVEKAVEEIEKVAEQVKAENIVLYPYAHLSS----------DLASPKTAVEVLKK 99 (613)
T ss_pred ccccccceEEEEEEeccCCCCCHHHHHHHHHHHHHHHHHhcCCCEEEEecchhccC----------ccCChHHHHHHHHH
Confidence 34567889999999999998 5556662 224444 44444333332 34889999999999
Q ss_pred HHHHHHhh-CCCCceecccc
Q 030046 123 LVDKFRKS-YNPDAIKGKCA 141 (183)
Q Consensus 123 Fve~lr~~-~~~~~Vk~G~F 141 (183)
..+.|++. +.-.+..+|-|
T Consensus 100 ~~~~l~~~~~~v~~apfg~~ 119 (613)
T PRK03991 100 LEEELKSEGYEVLRAPFGWY 119 (613)
T ss_pred HHHHHhhCCceEEEeccccc
Confidence 99999543 22222367766
No 13
>PRK15245 type III effector phosphothreonine lyase; Provisional
Probab=38.54 E-value=19 Score=31.96 Aligned_cols=62 Identities=15% Similarity=0.180 Sum_probs=38.1
Q ss_pred ceEeeccccccccC-cCCCCCCCCCCCCCchHHHHHHHHHHHHhhCCCCceecccceeEEEEeccccee
Q 030046 87 GVLLVSQFTLYGIL-KGNKPDFHVAMPPQKAKPFYDSLVDKFRKSYNPDAIKGKCAFQLHLVLRSFSFL 154 (183)
Q Consensus 87 eILvVSQFTL~ad~-KGnRPsF~~Aa~Pe~A~~LYe~Fve~lr~~~~~~~Vk~G~Fmqv~lv~~~~~~~ 154 (183)
.|=+=-|||||.+. +.+ -+|+ ++ ...-...|++.|+......-|..|..=+-++.-++..|+
T Consensus 148 RV~~GAQfTLYvKpd~ed-sqYs----a~-~l~k~r~Fie~lE~~L~~~gi~pG~~P~SDV~pe~W~y~ 210 (241)
T PRK15245 148 RVGLGAQFTLYVKPDQEN-SQYS----AS-FLHKTRQFIECLESRLSENGVISGQCPESDVHPENWKYL 210 (241)
T ss_pred hhcccceEEEEecCcccc-ccCC----HH-HHHHHHHHHHHHHHHHHHcCCCCCCCCccccCcccccee
Confidence 44445699999642 211 1232 12 233457899988776554557899886666666776664
No 14
>COG4281 ACB Acyl-CoA-binding protein [Lipid metabolism]
Probab=35.88 E-value=42 Score=25.69 Aligned_cols=35 Identities=29% Similarity=0.505 Sum_probs=28.2
Q ss_pred ccCcCCCCCCCCC--------------CCCCchHHHHHHHHHHHHhhCC
Q 030046 98 GILKGNKPDFHVA--------------MPPQKAKPFYDSLVDKFRKSYN 132 (183)
Q Consensus 98 ad~KGnRPsF~~A--------------a~Pe~A~~LYe~Fve~lr~~~~ 132 (183)
||..|.||.|.+- -+.|.|+.=|-.||++|+..++
T Consensus 38 GD~~~ekPG~~d~~gr~K~eAW~~LKGksqedA~qeYialVeeLkak~~ 86 (87)
T COG4281 38 GDNDGEKPGFFDIVGRYKYEAWAGLKGKSQEDARQEYIALVEELKAKYG 86 (87)
T ss_pred cccCCCCCCccccccchhHHHHhhccCccHHHHHHHHHHHHHHHHhhcC
Confidence 5668899998753 4568899999999999997763
No 15
>PF01076 Mob_Pre: Plasmid recombination enzyme; InterPro: IPR001668 With some plasmids, recombination can occur in a site specific manner that is independent of RecA. In such cases, the recombination event requires another protein called Pre. Pre is a plasmid recombination enzyme. This protein is also known as Mob (conjugative mobilisation) [].; GO: 0003677 DNA binding, 0006310 DNA recombination, 0005727 extrachromosomal circular DNA
Probab=31.32 E-value=33 Score=28.42 Aligned_cols=35 Identities=17% Similarity=0.547 Sum_probs=29.0
Q ss_pred CCCCCCCCCCCCCchHHHHHHHHHHHHhhCCCCce
Q 030046 102 GNKPDFHVAMPPQKAKPFYDSLVDKFRKSYNPDAI 136 (183)
Q Consensus 102 GnRPsF~~Aa~Pe~A~~LYe~Fve~lr~~~~~~~V 136 (183)
|.-|+|-..++++++++.|+.+++.+.+.++...|
T Consensus 86 t~~~e~~~~~~~e~~~~~~~~~~~~~~~r~g~~ni 120 (196)
T PF01076_consen 86 TASPEFFNDLDPEQQKRWFEDSLEWLQERYGNENI 120 (196)
T ss_pred eCChHHhcchhhHHHHHHHHHHHHHHHHHCCchhE
Confidence 35678888899999999999999999988874333
No 16
>cd00435 ACBP Acyl CoA binding protein (ACBP) binds thiol esters of long fatty acids and coenzyme A in a one-to-one binding mode with high specificity and affinity. Acyl-CoAs are important intermediates in fatty lipid synthesis and fatty acid degradation and play a role in regulation of intermediary metabolism and gene regulation. The suggested role of ACBP is to act as a intracellular acyl-CoA transporter and pool former. ACBPs are present in a large group of eukaryotic species and several tissue-specific isoforms have been detected.
Probab=31.23 E-value=49 Score=24.37 Aligned_cols=34 Identities=21% Similarity=0.339 Sum_probs=25.3
Q ss_pred ccCcCCCCCCC--------------CCCCCCchHHHHHHHHHHHHhhC
Q 030046 98 GILKGNKPDFH--------------VAMPPQKAKPFYDSLVDKFRKSY 131 (183)
Q Consensus 98 ad~KGnRPsF~--------------~Aa~Pe~A~~LYe~Fve~lr~~~ 131 (183)
|++.+.+|++. ..|++++|...|-..++++-..+
T Consensus 37 G~~~~~~P~~~d~~~~~K~~AW~~l~~ms~~eA~~~YV~~~~~l~~~~ 84 (85)
T cd00435 37 GDCNTERPGMFDLKGRAKWDAWNSLKGMSKEDAMKAYIAKVEELIAKY 84 (85)
T ss_pred CCCCCCCCCcccHhhHHHHHHHHHcCCCCHHHHHHHHHHHHHHHhhcc
Confidence 56667788863 45788999999988888776443
No 17
>cd08049 TAF8 TATA Binding Protein (TBP) Associated Factor 8. The TATA Binding Protein (TBP) Associated Factor 8 (TAF8) is one of several TAFs that bind TBP, and is involved in forming the Transcription Factor IID (TFIID) complex. TFIID is one of seven General Transcription Factors (GTF) (TFIIA, TFIIB, TFIID, TFIIE, TFIIF, and TFIID) that are involved in accurate initiation of transcription by RNA polymerase II in eukaryotes. TFIID plays an important role in the recognition of promoter DNA and the assembly of the preinitiation complex. The TFIID complex is composed of the TBP and at least 13 TAFs. TAFs from various species were originally named by their predicted molecular weight or their electrophoretic mobility in polyacrylamide gels. A new, unified nomenclature for the pol II TAFs has been suggested to show the relationship between TAF orthologs and paralogs. Several hypotheses are proposed for TAFs' functions, such as serving as activator-binding sites, involvement in the core-promo
Probab=30.68 E-value=26 Score=23.76 Aligned_cols=11 Identities=55% Similarity=1.017 Sum_probs=8.5
Q ss_pred cccCCCCCccc
Q 030046 2 YAISWLPSFPI 12 (183)
Q Consensus 2 ~~~~~~~~~~~ 12 (183)
|.=+|+|.||-
T Consensus 2 hIP~~LP~FP~ 12 (54)
T cd08049 2 HIPSWLPPFPD 12 (54)
T ss_pred CCCcCCCCCCC
Confidence 44589999994
No 18
>cd08536 SAM_PNT-Mae Sterile alpha motif (SAM)/Pointed domain of Mae protein homolog. Mae (Modulator of the Activity of ETS) subfamily represents a group of SAM Pointed monodomain proteins. SAM Pointed domain is a protein-protein interaction domain. It can interact with other SAM pointed domains forming head-to-tail heterodimers and also provides a kinase docking site. For example, in Drosophila Mae is required for facilitating phosphorylation of the Yan factor and for blocking phosphorylation of the ETS-2 regulator. Mae interacts with the SAM Pointed domains of Yan and ETS-2. Binding enhances access of the kinase to the Yan phosphorylation site by providing a kinase docking site, or inhibits phosphorylation of ETS-2 by blocking its docking site. This type of factors participates in regulation of kinase signaling particularly during embryogenesis.
Probab=27.93 E-value=43 Score=23.85 Aligned_cols=42 Identities=17% Similarity=0.300 Sum_probs=34.4
Q ss_pred CCceEeecccccccc--CcCCCCCCCCCCCCCchHHHHHHHHHHH
Q 030046 85 KYGVLLVSQFTLYGI--LKGNKPDFHVAMPPQKAKPFYDSLVDKF 127 (183)
Q Consensus 85 ~GeILvVSQFTL~ad--~KGnRPsF~~Aa~Pe~A~~LYe~Fve~l 127 (183)
+-+-+-++.|..-|. |.=.+-+|...+|+ -+.-||+.|-+.|
T Consensus 22 ~L~~~~~~~F~m~Gk~LC~ls~edF~~r~P~-~GdiL~~~lq~~l 65 (66)
T cd08536 22 QLEVVDLDKFLMNGKGLCLMSLEGFLYRVPV-GGKLLYEDFQRRL 65 (66)
T ss_pred CCCCCCccccCCCHHHHHcCCHHHHHhhcCC-ccHHHHHHHHHHh
Confidence 333357889999887 68889999998877 9999999997765
No 19
>PF10406 TAF8_C: Transcription factor TFIID complex subunit 8 C-term ; InterPro: IPR019473 This entry represents the C-terminal region of subunit 8 (also known as TAF8) of the transcription factor TFIID []. The adjacent N-terminal region generally contains a histone fold domain (IPR006565 from INTERPRO). This subunit is one of the key subunits of TFIID, being one of several general cofactors which are typically involved in gene activation to bring about the communication between gene-specific transcription factors and components of the general transcription machinery [].
Probab=27.54 E-value=31 Score=23.30 Aligned_cols=11 Identities=45% Similarity=1.002 Sum_probs=8.6
Q ss_pred cccCCCCCccc
Q 030046 2 YAISWLPSFPI 12 (183)
Q Consensus 2 ~~~~~~~~~~~ 12 (183)
|.=+|+|.||-
T Consensus 2 ~IP~~lP~fP~ 12 (51)
T PF10406_consen 2 HIPDWLPPFPP 12 (51)
T ss_pred CCcccCCCCCC
Confidence 45589999984
No 20
>cd00652 TBP_TLF TATA box binding protein (TBP): Present in archaea and eukaryotes, TBPs are transcription factors that recognize promoters and initiate transcription. TBP has been shown to be an essential component of three different transcription initiation complexes: SL1, TFIID and TFIIIB, directing transcription by RNA polymerases I, II and III, respectively. TBP binds directly to the TATA box promoter element, where it nucleates polymerase assembly, thus defining the transcription start site. TBP's binding in the minor groove induces a dramatic DNA bending while its own structure barely changes. The conserved core domain of TBP, which binds to the TATA box, has a bipartite structure, with intramolecular symmetry generating a saddle-shaped structure that sits astride the DNA. New members of the TBP family, called TBP-like proteins (TBLP, TLF, TLP) or TBP-related factors (TRF1, TRF2,TRP), are similar to the core domain of TBPs, with identical or chemically similar amino acids at many
Probab=26.04 E-value=95 Score=25.61 Aligned_cols=70 Identities=20% Similarity=0.099 Sum_probs=52.1
Q ss_pred cCCCCCCCCCCCCCchHHHHHHHHHHHHhhCCCCce-ecccceeEEEEecccceeehhhHHHHHHH---Hhhhcccc
Q 030046 101 KGNKPDFHVAMPPQKAKPFYDSLVDKFRKSYNPDAI-KGKCAFQLHLVLRSFSFLYKSRLFILSRL---FSMYKPWL 173 (183)
Q Consensus 101 KGnRPsF~~Aa~Pe~A~~LYe~Fve~lr~~~~~~~V-k~G~Fmqv~lv~~~~~~~~~~~~~~~~~~---~~~~~~~~ 173 (183)
...+-.-+.|.+.|+|+.-.++|.+.|++.. ..+ +.-. ++++.++-||+.=++-+|--++.. ...|.|=.
T Consensus 54 ~sGKivitGaks~~~~~~a~~~~~~~L~~~g--~~~~~~~~-~~v~NIvas~~l~~~i~L~~la~~~~~~~~YePe~ 127 (174)
T cd00652 54 SSGKMVITGAKSEEDAKLAARKYARILQKLG--FPVEKFPE-FKVQNIVASCDLGFPIRLEELALKHPENASYEPEL 127 (174)
T ss_pred CCCEEEEEecCCHHHHHHHHHHHHHHHHHcC--CCccccCc-eEEEEEEEEEECCCcccHHHHHhhhhcccEECCcc
Confidence 3344455678889999999999999998663 233 3334 699999999999888888777654 45787743
No 21
>TIGR00510 lipA lipoate synthase. The family shows strong sequence conservation.
Probab=25.71 E-value=3.7e+02 Score=24.16 Aligned_cols=70 Identities=13% Similarity=0.104 Sum_probs=43.1
Q ss_pred ECCeeEEEEecccCCCHHHHHH----HHHcCCceEeeccccccccCcCCCC-CCCCCCCCCchHHHHHHHHHHHHhhCCC
Q 030046 59 IGPGLLVLVGLHEFDTDADADY----VMQKKYGVLLVSQFTLYGILKGNKP-DFHVAMPPQKAKPFYDSLVDKFRKSYNP 133 (183)
Q Consensus 59 Ig~GLLvLVGI~k~DTeed~~~----v~Dv~GeILvVSQFTL~ad~KGnRP-sF~~Aa~Pe~A~~LYe~Fve~lr~~~~~ 133 (183)
++.|+ .||+ +.|++|... +.|.+-+++-|.|| -|| .-|-.+.--.--+-|+.+-+...+.+-
T Consensus 209 ~~Tgi--IVGl--GETeee~~etl~~Lrelg~d~v~igqY--------l~p~~~~~~v~~~~~p~~f~~~~~~a~~~gf- 275 (302)
T TIGR00510 209 TKSGI--MVGL--GETNEEIKQTLKDLRDHGVTMVTLGQY--------LRPSRRHLPVKRYVSPEEFDYYRSVALEMGF- 275 (302)
T ss_pred ecceE--EEEC--CCCHHHHHHHHHHHHhcCCCEEEeecc--------cCCCCCCCccccCCCHHHHHHHHHHHHHcCC-
Confidence 34554 4677 555555554 78899999999999 677 444444444444456666554444322
Q ss_pred Cceecccc
Q 030046 134 DAIKGKCA 141 (183)
Q Consensus 134 ~~Vk~G~F 141 (183)
..|..|-+
T Consensus 276 ~~v~~~p~ 283 (302)
T TIGR00510 276 LHAACGPF 283 (302)
T ss_pred hheEeccc
Confidence 35777764
No 22
>KOG0805 consensus Carbon-nitrogen hydrolase [Amino acid transport and metabolism]
Probab=24.85 E-value=1.3e+02 Score=27.74 Aligned_cols=72 Identities=17% Similarity=0.101 Sum_probs=51.3
Q ss_pred EeeECCeeEEEEecccCCCHHHHHH-------HHHcCCceEeeccccccccCcCCCCCCCCCCCCCchHHHHHHHHHHH
Q 030046 56 VSEIGPGLLVLVGLHEFDTDADADY-------VMQKKYGVLLVSQFTLYGILKGNKPDFHVAMPPQKAKPFYDSLVDKF 127 (183)
Q Consensus 56 vg~Ig~GLLvLVGI~k~DTeed~~~-------v~Dv~GeILvVSQFTL~ad~KGnRPsF~~Aa~Pe~A~~LYe~Fve~l 127 (183)
-++|-+=-++-.|--..||.+++++ .++.+-++.+.|..++.|-.||+|-.-.-...-+++++=|.++.+..
T Consensus 14 ~~s~~~v~ivQ~~t~~~dtpaTL~K~~~~~~Eaa~~Ga~LV~fPEAfiGGYPrg~~Fg~~~G~r~~eGR~ef~kY~a~A 92 (337)
T KOG0805|consen 14 SSSIVRVTIVQASTVYNDTPATLDKAEKYIVEAASKGAELVLFPEAFIGGYPRGFRFGLAVGVRNEEGRDEFRKYHASA 92 (337)
T ss_pred cccceEEEEEEcccCCCCCHHHHHHHHHHHHHHhcCCceEEEeehHhccCCCCcceeeEEEeecchhhhHHHHHHHHHh
Confidence 3444444555666778899999998 34567888899999999999999866665555667776666554443
No 23
>COG4013 Uncharacterized protein conserved in archaea [Function unknown]
Probab=24.34 E-value=2.3e+02 Score=22.00 Aligned_cols=40 Identities=30% Similarity=0.467 Sum_probs=29.1
Q ss_pred eeceeEEEECCEEEeeECCeeEEEE-------ecccCCCHHHHHHHHH
Q 030046 43 RVASASVEVEGRLVSEIGPGLLVLV-------GLHEFDTDADADYVMQ 83 (183)
Q Consensus 43 RV~~AsV~Vdgevvg~Ig~GLLvLV-------GI~k~DTeed~~~v~D 83 (183)
+.+-|.|.|.|++ ..++.|++-|+ ||..-|-++..+++++
T Consensus 28 el~~grVhIpG~v-v~~n~g~l~l~~esdmi~Gi~~~diEki~~~llE 74 (91)
T COG4013 28 ELYFGRVHIPGRV-VHYNDGLLRLVHESDMIYGIIEVDIEKILDDLLE 74 (91)
T ss_pred EEEEEEEEeccEE-EEeeccEEEEEEeccccCceEEEEHHHHHHHHHH
Confidence 4567899999995 57899999886 4555566666666555
No 24
>PLN00062 TATA-box-binding protein; Provisional
Probab=23.90 E-value=1.1e+02 Score=25.75 Aligned_cols=70 Identities=23% Similarity=0.132 Sum_probs=53.6
Q ss_pred cCCCCCCCCCCCCCchHHHHHHHHHHHHhhCCCCceecccceeEEEEecccceeehhhHHHHH---HHHhhhcccc
Q 030046 101 KGNKPDFHVAMPPQKAKPFYDSLVDKFRKSYNPDAIKGKCAFQLHLVLRSFSFLYKSRLFILS---RLFSMYKPWL 173 (183)
Q Consensus 101 KGnRPsF~~Aa~Pe~A~~LYe~Fve~lr~~~~~~~Vk~G~Fmqv~lv~~~~~~~~~~~~~~~~---~~~~~~~~~~ 173 (183)
...+-..+.|-+.|+|+.-.+++.+.|++.. .+++.-. +.+.=++.|++.=++-+|--++ +-+..|.|=.
T Consensus 54 ~SGKiviTGaks~e~a~~a~~~~~~~L~~lg--~~~~~~~-f~v~NIvas~~l~~~i~L~~la~~~~~~~~YePE~ 126 (179)
T PLN00062 54 ASGKMVCTGAKSEHDSKLAARKYARIIQKLG--FPAKFKD-FKIQNIVGSCDVKFPIRLEGLAYAHGAFSSYEPEL 126 (179)
T ss_pred CCCeEEEEecCCHHHHHHHHHHHHHHHHHcC--CCcCCCc-cEEEEEEEEEECCCcccHHHHHHhchhhcccCccc
Confidence 4445556677888999999999999998653 4677766 4888889999998888877775 3477888843
No 25
>PRK07058 acetate kinase; Provisional
Probab=23.78 E-value=27 Score=33.01 Aligned_cols=69 Identities=16% Similarity=0.202 Sum_probs=54.1
Q ss_pred EeeECCeeEEEEecccCCCHHHHHHHHHcCCceEeeccccccccCcCCCCCCCCCCCCCchHHHHHHHHHHHHhhC
Q 030046 56 VSEIGPGLLVLVGLHEFDTDADADYVMQKKYGVLLVSQFTLYGILKGNKPDFHVAMPPQKAKPFYDSLVDKFRKSY 131 (183)
Q Consensus 56 vg~Ig~GLLvLVGI~k~DTeed~~~v~Dv~GeILvVSQFTL~ad~KGnRPsF~~Aa~Pe~A~~LYe~Fve~lr~~~ 131 (183)
.|.|.+|++++++-..+-+.++++.++..++.+|-+|-.| .|.+-- .++..+.|+.-+|.|+.++++.-
T Consensus 241 sG~ldp~~l~~l~~~~~~s~~el~~~Ln~~SGLlg~sG~s--~D~R~l-----~~~~d~~A~lA~d~f~yri~k~I 309 (396)
T PRK07058 241 CGALDPGVVLHLLKQEGMSLDEVEDLLYHRSGLLGVSGIS--GDTRDL-----LASDAPEAREALDLFALRIAGEI 309 (396)
T ss_pred CCCCChHHHHHHHHhcCCCHHHHHHHHhcccCcEEecCCC--CCHHHH-----hhcCCHhHHHHHHHHHHHHHHHH
Confidence 4788999999999999999999999999999999999653 441000 02235779999999999998663
No 26
>PF02184 HAT: HAT (Half-A-TPR) repeat; InterPro: IPR003107 The HAT (Half A TPR) repeat has a repetitive pattern characterised by three aromatic residues with a conserved spacing. They are structurally and sequentially similar to TPRs (tetratricopeptide repeats), though they lack the highly conserved alanine and glycine residues found in TPRs. The number of HAT repeats found in different proteins varies between 9 and 12. HAT-repeat-containing proteins appear to be components of macromolecular complexes that are required for RNA processing []. The repeats may be involved in protein-protein interactions. The HAT motif has striking structural similarities to HEAT repeats (IPR000357 from INTERPRO), being of a similar length and consisting of two short helices connected by a loop domain, as in HEAT repeats.; GO: 0006396 RNA processing, 0005622 intracellular
Probab=22.22 E-value=51 Score=20.89 Aligned_cols=13 Identities=23% Similarity=0.462 Sum_probs=11.1
Q ss_pred CCchHHHHHHHHH
Q 030046 113 PQKAKPFYDSLVD 125 (183)
Q Consensus 113 Pe~A~~LYe~Fve 125 (183)
-|.|+.+|++|+.
T Consensus 3 ~dRAR~IyeR~v~ 15 (32)
T PF02184_consen 3 FDRARSIYERFVL 15 (32)
T ss_pred HHHHHHHHHHHHH
Confidence 3679999999986
No 27
>cd04516 TBP_eukaryotes eukaryotic TATA box binding protein (TBP): Present in archaea and eukaryotes, TBPs are transcription factors that recognize promoters and initiate transcription. TBP has been shown to be an essential component of three different transcription initiation complexes: SL1, TFIID and TFIIIB, directing transcription by RNA polymerases I, II and III, respectively. TBP binds directly to the TATA box promoter element, where it nucleates polymerase assembly, thus defining the transcription start site. TBP's binding in the minor groove induces a dramatic DNA bending while its own structure barely changes. The conserved core domain of TBP, which binds to the TATA box, has a bipartite structure, with intramolecular symmetry generating a saddle-shaped structure that sits astride the DNA.
Probab=21.82 E-value=1.2e+02 Score=25.29 Aligned_cols=70 Identities=21% Similarity=0.124 Sum_probs=53.5
Q ss_pred cCCCCCCCCCCCCCchHHHHHHHHHHHHhhCCCCceecccceeEEEEecccceeehhhHHHHHH---HHhhhcccc
Q 030046 101 KGNKPDFHVAMPPQKAKPFYDSLVDKFRKSYNPDAIKGKCAFQLHLVLRSFSFLYKSRLFILSR---LFSMYKPWL 173 (183)
Q Consensus 101 KGnRPsF~~Aa~Pe~A~~LYe~Fve~lr~~~~~~~Vk~G~Fmqv~lv~~~~~~~~~~~~~~~~~---~~~~~~~~~ 173 (183)
...+-..+.|-+.|+|+.-.+++.+.|++.. .+++.-. +.+.=++.|++.=++-+|--++. -+..|.|=.
T Consensus 54 ~SGKiviTGaks~e~a~~a~~~i~~~L~~~g--~~~~~~~-~~v~Nivat~~l~~~i~L~~la~~~~~~~~YePE~ 126 (174)
T cd04516 54 SSGKMVCTGAKSEDDSKLAARKYARIIQKLG--FPAKFTD-FKIQNIVGSCDVKFPIRLEGLAHAHKQFSSYEPEL 126 (174)
T ss_pred CCCeEEEEecCCHHHHHHHHHHHHHHHHHcC--CCCCCCc-eEEEEEEEEEECCCcccHHHHHHhChhccEeCCcc
Confidence 3444556678889999999999999998663 3455544 69999999999999888877764 467888853
No 28
>PF00887 ACBP: Acyl CoA binding protein; InterPro: IPR000582 Acyl-CoA-binding protein (ACBP) is a small (10 Kd) protein that binds medium- and long-chain acyl-CoA esters with very high affinity and may function as an intracellular carrier of acyl-CoA esters []. ACBP is also known as diazepam binding inhibitor (DBI) or endozepine (EP) because of its ability to displace diazepam from the benzodiazepine (BZD) recognition site located on the GABA type A receptor. It is therefore possible that this protein also acts as a neuropeptide to modulate the action of the GABA receptor []. ACBP is a highly conserved protein of about 90 residues that is found in all four eukaryotic kingdoms, Animalia, Plantae, Fungi and Protista, and in some eubacterial species []. Although ACBP occurs as a completely independent protein, intact ACB domains have been identified in a number of large, multifunctional proteins in a variety of eukaryotic species. These include large membrane-associated proteins with N-terminal ACB domains, multifunctional enzymes with both ACB and peroxisomal enoyl-CoA Delta(3), Delta(2)-enoyl-CoA isomerase domains, and proteins with both an ACB domain and ankyrin repeats (IPR002110 from INTERPRO) []. The ACB domain consists of four alpha-helices arranged in a bowl shape with a highly exposed acyl-CoA-binding site. The ligand is bound through specific interactions with residues on the protein, most notably several conserved positive charges that interact with the phosphate group on the adenosine-3'phosphate moiety, and the acyl chain is sandwiched between the hydrophobic surfaces of CoA and the protein []. Other proteins containing an ACB domain include: Endozepine-like peptide (ELP) (gene DBIL5) from mouse []. ELP is a testis-specific ACBP homologue that may be involved in the energy metabolism of the mature sperm. MA-DBI, a transmembrane protein of unknown function which has been found in mammals. MA-DBI contains a N-terminal ACB domain. DRS-1 [], a human protein of unknown function that contains a N-terminal ACB domain and a C-terminal enoyl-CoA isomerase/hydratase domain. ; GO: 0000062 fatty-acyl-CoA binding; PDB: 2CB8_A 2FJ9_A 2LBB_A 1ST7_A 3EPY_B 2FDQ_C 1NTI_A 1HB8_A 1ACA_A 1NVL_A ....
Probab=21.16 E-value=50 Score=23.81 Aligned_cols=33 Identities=24% Similarity=0.342 Sum_probs=23.2
Q ss_pred ccCcCCCCCCC--------------CCCCCCchHHHHHHHHHHHHhh
Q 030046 98 GILKGNKPDFH--------------VAMPPQKAKPFYDSLVDKFRKS 130 (183)
Q Consensus 98 ad~KGnRPsF~--------------~Aa~Pe~A~~LYe~Fve~lr~~ 130 (183)
||+...||++. ..+++++|...|-..++++...
T Consensus 39 Gd~~~~~P~~~d~~~~~K~~AW~~l~gms~~eA~~~Yi~~v~~~~~~ 85 (87)
T PF00887_consen 39 GDCDTPRPGFFDIEGRAKWDAWKALKGMSKEEAMREYIELVEELIPK 85 (87)
T ss_dssp SS--S-CTTTTCHHHHHHHHHHHTTTTTHHHHHHHHHHHHHHHHHHH
T ss_pred CCCcCCCCcchhHHHHHHHHHHHHccCCCHHHHHHHHHHHHHHHHHh
Confidence 56668888864 4688999999998888877544
No 29
>cd04517 TLF TBP-like factors (TLF; also called TLP, TRF, TRP), which are found in most metazoans. TLFs and TBPs have well-conserved core domains; however, they only share about 60% similarity. TLFs, like TBPs, interact with TFIIA and TFIIB, which are part of the basal transcription machinery. Yet, in contrast to TBPs, TLFs seem not to interact with the TATA-box and even have a negative effect on the transcription of TATA-containing promoters. Recent results indicate that TLFs are involved in the transcription via TATA-less promoters.
Probab=20.58 E-value=1.4e+02 Score=24.66 Aligned_cols=68 Identities=21% Similarity=0.134 Sum_probs=50.5
Q ss_pred CCCCCCCCCCCCchHHHHHHHHHHHHhhCCCCceecccceeEEEEecccceeehhhHHHHHH---HHhhhccc
Q 030046 103 NKPDFHVAMPPQKAKPFYDSLVDKFRKSYNPDAIKGKCAFQLHLVLRSFSFLYKSRLFILSR---LFSMYKPW 172 (183)
Q Consensus 103 nRPsF~~Aa~Pe~A~~LYe~Fve~lr~~~~~~~Vk~G~Fmqv~lv~~~~~~~~~~~~~~~~~---~~~~~~~~ 172 (183)
.+-.-+.|-+.|+|+.-.++|.+.+++... ..++.-. +.+..++.|+++=++-+|--++. -+..|.|=
T Consensus 56 GKiviTGaks~~~~~~a~~~~~~~l~~~g~-~~~~~~~-f~v~nIvat~~~~~~i~L~~la~~~~~~~~YePE 126 (174)
T cd04517 56 GKITITGATSEEEAKQAARRAARLLQKLGF-KVVRFSN-FRVVNVLATCSMPFPIRLDELAAKNRSSASYEPE 126 (174)
T ss_pred CeEEEEccCCHHHHHHHHHHHHHHHHHcCC-CcccCCc-eEEEEEEEEEeCCCcccHHHHHHhchhhcEeCCc
Confidence 344456777899999999999999986532 2234445 59999999999999888877764 36778774
No 30
>COG3324 Predicted enzyme related to lactoylglutathione lyase [General function prediction only]
Probab=20.14 E-value=1.5e+02 Score=23.74 Aligned_cols=29 Identities=28% Similarity=0.281 Sum_probs=24.9
Q ss_pred CCeeEEEEecccCCCHHHHHHHHHcCCceEe
Q 030046 60 GPGLLVLVGLHEFDTDADADYVMQKKYGVLL 90 (183)
Q Consensus 60 g~GLLvLVGI~k~DTeed~~~v~Dv~GeILv 90 (183)
++++++|++ -+|-++.++++.+.+|.||-
T Consensus 70 ~~~~~iy~~--v~did~~l~rv~~~GG~V~~ 98 (127)
T COG3324 70 GGGWVIYFA--VDDIDATLERVVAAGGKVLR 98 (127)
T ss_pred CCCEEEEEe--cCChHHHHHHHHhcCCeEEe
Confidence 889999999 57888889999999997763
No 31
>cd03063 TRX_Fd_FDH_beta TRX-like [2Fe-2S] Ferredoxin (Fd) family, NAD-dependent formate dehydrogenase (FDH) beta subunit; composed of proteins similar to the beta subunit of NAD-linked FDH of Ralstonia eutropha, a soluble enzyme that catalyzes the irreversible oxidation of formate to carbon dioxide accompanied by the reduction of NAD to NADH. FDH is a heteromeric enzyme composed of four nonidentical subunits (alpha, beta, gamma and delta). The FDH beta subunit contains a NADH:ubiquinone oxidoreductase (Nuo) F domain C-terminal to a Fd-like domain without the active site cysteines. The absence of conserved metal-binding residues in the putative active site suggests that members of this subfamily have lost the ability to bind iron-sulfur clusters in the N-terminal Fd-like domain. The C-terminal NuoF domain is a component of Nuo, a multisubunit complex catalyzing the electron transfer of NADH to quinone coupled with the transfer of protons across the membrane. NuoF contains one [4Fe-4S] c
Probab=20.13 E-value=1e+02 Score=23.23 Aligned_cols=28 Identities=4% Similarity=-0.022 Sum_probs=20.9
Q ss_pred CchHHHHHHHHHHHHhhCCCCc-eecccc
Q 030046 114 QKAKPFYDSLVDKFRKSYNPDA-IKGKCA 141 (183)
Q Consensus 114 e~A~~LYe~Fve~lr~~~~~~~-Vk~G~F 141 (183)
.-|+++|+.|.+++++...... +++|.+
T Consensus 14 aGA~~V~~al~~ei~~~gl~v~v~~tGC~ 42 (92)
T cd03063 14 LGADEVAEAIEAEAAARGLAATIVRNGSR 42 (92)
T ss_pred hCHHHHHHHHHHHHHHcCCeEEEEEecCc
Confidence 3489999999999987642223 489986
Done!