Query 036786
Match_columns 158
No_of_seqs 166 out of 431
Neff 4.4
Searched_HMMs 46136
Date Fri Mar 29 05:29:06 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/036786.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/036786hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF01491 Frataxin_Cyay: Fratax 100.0 5.1E-30 1.1E-34 192.1 7.0 76 82-158 1-76 (109)
2 cd00503 Frataxin Frataxin is a 100.0 8.2E-30 1.8E-34 190.5 7.9 73 82-158 1-73 (105)
3 KOG3413 Mitochondrial matrix p 100.0 8.4E-30 1.8E-34 201.4 8.0 76 82-157 42-117 (156)
4 TIGR03422 mito_frataxin fratax 100.0 6.1E-30 1.3E-34 189.4 6.5 73 86-158 1-73 (97)
5 PRK00446 cyaY frataxin-like pr 100.0 1.6E-29 3.4E-34 189.4 8.4 72 82-158 1-72 (105)
6 COG1965 CyaY Protein implicate 100.0 7.5E-30 1.6E-34 192.0 6.6 73 82-158 1-73 (106)
7 PRK01379 cyaY frataxin-like pr 100.0 1.3E-29 2.9E-34 189.6 7.9 73 82-158 1-73 (103)
8 TIGR03421 FeS_CyaY iron donor 100.0 1.1E-28 2.3E-33 184.0 7.9 70 83-158 1-70 (102)
9 PF12073 DUF3553: Protein of u 73.9 4.2 9.2E-05 27.5 2.9 22 117-138 22-43 (52)
10 cd06497 ACD_alphaA-crystallin_ 71.6 3.1 6.8E-05 29.6 2.0 23 106-128 62-85 (86)
11 cd06472 ACD_ScHsp26_like Alpha 67.6 3.7 8E-05 28.9 1.7 17 112-128 75-91 (92)
12 cd06498 ACD_alphaB-crystallin_ 66.6 4.1 8.8E-05 28.9 1.7 24 106-129 59-83 (84)
13 cd06476 ACD_HspB2_like Alpha c 66.4 5.1 0.00011 28.4 2.2 22 107-128 60-82 (83)
14 cd06478 ACD_HspB4-5-6 Alpha-cr 66.2 4.2 9E-05 28.6 1.7 22 107-128 60-82 (83)
15 PF11354 DUF3156: Protein of u 65.5 9.8 0.00021 30.8 3.9 43 97-143 94-137 (161)
16 cd06471 ACD_LpsHSP_like Group 61.7 5.6 0.00012 27.8 1.7 16 113-128 77-92 (93)
17 COG0071 IbpA Molecular chapero 60.8 7.3 0.00016 29.9 2.3 23 107-129 110-132 (146)
18 cd06481 ACD_HspB9_like Alpha c 59.9 6.2 0.00013 28.1 1.7 21 108-128 65-86 (87)
19 cd06526 metazoan_ACD Alpha-cry 57.5 7.9 0.00017 26.8 1.8 21 108-128 61-82 (83)
20 cd06475 ACD_HspB1_like Alpha c 55.5 8.6 0.00019 27.3 1.8 21 108-128 64-85 (86)
21 PF00011 HSP20: Hsp20/alpha cr 54.3 10 0.00022 26.6 2.0 19 111-129 69-87 (102)
22 TIGR02503 type_III_SycN type I 54.1 21 0.00046 27.7 3.9 37 115-151 16-52 (119)
23 PRK11597 heat shock chaperone 52.5 22 0.00047 28.0 3.8 15 115-129 107-121 (142)
24 cd06477 ACD_HspB3_Like Alpha c 52.0 15 0.00032 26.3 2.5 23 107-129 60-83 (83)
25 PF00659 POLO_box: POLO box du 50.5 24 0.00052 23.5 3.3 35 113-149 6-40 (68)
26 cd06479 ACD_HspB7_like Alpha c 50.2 12 0.00025 26.6 1.8 22 107-128 58-80 (81)
27 PRK10743 heat shock protein Ib 48.0 15 0.00033 28.5 2.3 15 115-129 109-123 (137)
28 cd06464 ACD_sHsps-like Alpha-c 45.5 16 0.00035 24.2 1.8 16 113-128 72-87 (88)
29 PF02575 YbaB_DNA_bd: YbaB/Ebf 45.3 13 0.00028 26.1 1.4 33 95-134 11-43 (93)
30 PF11305 DUF3107: Protein of u 43.9 68 0.0015 22.9 4.9 33 91-137 22-54 (74)
31 PRK14627 hypothetical protein; 42.1 1.1E+02 0.0024 22.6 6.0 48 82-133 1-48 (100)
32 PF05207 zf-CSL: CSL zinc fing 41.7 36 0.00077 22.6 3.0 30 109-138 3-32 (55)
33 cd06470 ACD_IbpA-B_like Alpha- 40.0 20 0.00044 25.2 1.7 14 115-128 76-89 (90)
34 PF12305 DUF3630: Protein of u 40.0 25 0.00055 26.1 2.3 51 82-132 20-70 (94)
35 TIGR00103 DNA_YbaB_EbfC DNA-bi 38.3 38 0.00083 25.0 3.0 21 114-134 33-53 (102)
36 PRK00199 ihfB integration host 38.2 1.4E+02 0.0031 21.0 7.3 59 81-149 16-75 (94)
37 PRK00153 hypothetical protein; 36.8 45 0.00098 24.4 3.2 20 114-133 31-50 (104)
38 PRK14622 hypothetical protein; 36.5 1.6E+02 0.0035 21.9 6.2 47 83-133 2-48 (103)
39 COG4097 Predicted ferric reduc 36.5 34 0.00074 31.9 3.0 22 129-151 305-326 (438)
40 PF13947 GUB_WAK_bind: Wall-as 34.9 75 0.0016 22.6 4.1 42 112-153 27-70 (106)
41 COG3526 Uncharacterized protei 33.8 1.4E+02 0.003 22.4 5.3 24 119-154 46-69 (99)
42 PRK14623 hypothetical protein; 31.4 54 0.0012 24.8 2.9 21 114-134 29-49 (106)
43 PF10431 ClpB_D2-small: C-term 31.2 44 0.00095 22.7 2.2 35 82-123 1-35 (81)
44 PF13619 KTSC: KTSC domain 31.0 54 0.0012 21.6 2.6 27 114-140 9-35 (60)
45 cd00591 HU_IHF Integration hos 30.9 93 0.002 21.1 3.8 48 82-138 15-63 (87)
46 PF07116 DUF1372: Protein of u 30.0 59 0.0013 24.9 2.9 23 117-139 66-88 (104)
47 PF08848 DUF1818: Domain of un 30.0 72 0.0016 24.8 3.4 59 79-138 28-92 (117)
48 PRK14628 hypothetical protein; 29.7 87 0.0019 24.0 3.8 41 94-134 27-67 (118)
49 PRK14621 hypothetical protein; 29.2 63 0.0014 24.5 2.9 46 85-134 7-52 (111)
50 KOG0710 Molecular chaperone (s 28.4 28 0.00062 28.4 1.0 36 107-144 157-192 (196)
51 KOG0137 Very-long-chain acyl-C 28.3 61 0.0013 31.6 3.3 27 120-150 209-236 (634)
52 cd06482 ACD_HspB10 Alpha cryst 26.9 50 0.0011 23.7 2.0 22 107-128 64-86 (87)
53 smart00411 BHL bacterial (prok 26.8 2.1E+02 0.0046 19.5 5.9 58 81-148 15-73 (90)
54 cd06463 p23_like Proteins cont 26.7 78 0.0017 20.4 2.8 27 112-138 20-48 (84)
55 PRK14626 hypothetical protein; 26.4 72 0.0016 24.1 2.8 20 114-133 33-52 (110)
56 PRK14625 hypothetical protein; 26.3 80 0.0017 24.0 3.0 20 114-133 30-49 (109)
57 PF10365 DUF2436: Domain of un 25.5 95 0.0021 25.3 3.4 29 120-150 97-128 (161)
58 PRK14629 hypothetical protein; 25.1 81 0.0018 23.5 2.9 44 86-133 7-50 (99)
59 cd06480 ACD_HspB8_like Alpha-c 25.1 64 0.0014 23.5 2.2 22 107-128 68-90 (91)
60 smart00555 GIT Helical motif i 24.9 1.3E+02 0.0028 18.0 3.2 23 80-102 6-28 (31)
61 PF08518 GIT_SHD: Spa2 homolog 24.3 1.2E+02 0.0026 18.4 2.9 23 80-102 6-28 (31)
62 PF06662 C5-epim_C: D-glucuron 24.0 1.2E+02 0.0025 25.1 3.8 48 84-138 48-97 (189)
63 COG0718 Uncharacterized protei 23.9 2E+02 0.0043 21.8 4.8 20 114-133 33-52 (105)
64 PRK11198 LysM domain/BON super 23.5 1.6E+02 0.0034 22.8 4.3 29 96-126 29-57 (147)
65 PF10387 DUF2442: Protein of u 23.1 1.3E+02 0.0027 20.5 3.4 26 115-140 3-29 (79)
66 PF06296 DUF1044: Protein of u 22.6 1E+02 0.0022 23.8 3.0 42 85-130 7-51 (120)
67 COG4110 Uncharacterized protei 22.1 91 0.002 26.1 2.8 29 114-142 125-153 (200)
68 PF15544 Toxin_66: Putative to 22.1 42 0.00091 28.9 0.9 14 126-139 63-76 (273)
69 cd08868 START_STARD1_3_like Ch 21.7 1.4E+02 0.0031 23.7 3.9 21 84-104 3-23 (208)
70 KOG4792 Crk family adapters [S 21.5 81 0.0018 27.7 2.5 25 119-143 45-70 (293)
71 PF07867 DUF1654: Protein of u 21.3 1.6E+02 0.0035 21.1 3.6 30 92-127 37-67 (73)
72 PRK03762 hypothetical protein; 20.8 3.7E+02 0.0079 20.1 6.1 48 82-133 5-52 (103)
73 PRK14624 hypothetical protein; 20.8 1E+02 0.0022 23.7 2.7 20 114-133 34-53 (115)
74 PF14943 MRP-S26: Mitochondria 20.4 69 0.0015 26.0 1.8 29 94-122 141-169 (170)
75 PF05121 GvpK: Gas vesicle pro 20.3 85 0.0018 23.3 2.1 44 81-132 41-84 (88)
76 PF07131 DUF1382: Protein of u 20.2 1.6E+02 0.0036 20.5 3.4 21 82-102 32-52 (61)
77 PF11826 DUF3346: Protein of u 20.1 2.9E+02 0.0062 23.6 5.4 49 86-137 121-173 (225)
No 1
>PF01491 Frataxin_Cyay: Frataxin-like domain; InterPro: IPR002908 The eukaryotic proteins in this entry include frataxin, the protein that is mutated in Friedreich's ataxia [], and related sequences. Friedreich's ataxia is a progressive neurodegenerative disorder caused by loss of function mutations in the gene encoding frataxin (FRDA). Frataxin mRNA is predominantly expressed in tissues with a high metabolic rate (including liver, kidney, brown fat and heart). Mouse and yeast frataxin homologues contain a potential N-terminal mitochondrial targeting sequence, and human frataxin has been observed to co-localise with a mitochondrial protein. Furthermore, disruption of the yeast gene has been shown to result in mitochondrial dysfunction. Friedreich's ataxia is thus believed to be a mitochondrial disease caused by a mutation in the nuclear genome (specifically, expansion of an intronic GAA triplet repeat) [, , ]. The bacterial proteins in this entry are iron-sulphur cluster (FeS) metabolism CyaY proteins hmologous to eukaryotic frataxin. Partial Phylogenetic Profiling [] suggests that CyaY most likely functions as part of the ISC system for FeS cluster biosynthesis, and is supported by expermimental data in some species [, ]. ; PDB: 1EW4_A 2P1X_A 1SOY_A 2EFF_A 3T3T_B 3S4M_A 3T3K_A 3S5D_A 1LY7_A 3T3X_B ....
Probab=99.96 E-value=5.1e-30 Score=192.08 Aligned_cols=76 Identities=42% Similarity=0.707 Sum_probs=70.1
Q ss_pred CCHHHHHHHHHHHHHHHHHHHhhccCccCCCCcceeecCceEEEEECCCcEEEEeCCCCcceeeeecCCCccCcccC
Q 036786 82 LQEDEFHRLANSTIHDLQEKFEEYGDTIQIDGFDVDYGNEVLTLKLGALGTYVLNKQTPNRQIWLSSPVRYYCGRSY 158 (158)
Q Consensus 82 mte~eF~~lAd~~L~~L~e~lE~~~d~~~~~d~Dve~s~GVLTI~f~d~gtyVINKQ~PnkQIWLSSPisG~~~~~~ 158 (158)
|++.+||++||++|+.|+++||++.|+.+ .++|+|++||||||+|+++|+||||||+|+||||||||+||..|+.|
T Consensus 1 Mt~~~f~~lad~~l~~i~~~le~~~d~~~-~d~d~e~~~gVLti~~~~~~~~VINkQ~p~~QIWlsSpisG~~hf~~ 76 (109)
T PF01491_consen 1 MTESEFHQLADETLDSIEDALEELDDEQD-ADIDVERSGGVLTIEFPDGGQYVINKQPPNRQIWLSSPISGPFHFDY 76 (109)
T ss_dssp -HHHHHHHHHHHHHHHHHHHHHTCTTSSS-STEEEEEETTEEEEEETTSEEEEEEEECCCTEEEEEETTTEEEEEEE
T ss_pred CCHHHHHHHHHHHHHHHHHHHHHHhccCC-CceEEEccCCEEEEEECCCCEEEEeCCCHHHHHHHhcccCCceEEEE
Confidence 88999999999999999999999876543 57999999999999999999999999999999999999999998876
No 2
>cd00503 Frataxin Frataxin is a nuclear-encoded mitochondrial protein implicated in Friedreich's ataxia (FRDA), an human autosomal recessive neurodegenerative disease; Frataxin is found in eukaryotes and in purple bacteria; lack of frataxin causes iron to accumulate in the mitochondrial matrix suggesting that frataxin is involved in mitochondrial iron homeostasis and possibly in iron transport; the domain has an alpha-beta fold consisting of two helices flanking an antiparallel beta sheet.
Probab=99.96 E-value=8.2e-30 Score=190.51 Aligned_cols=73 Identities=41% Similarity=0.608 Sum_probs=67.3
Q ss_pred CCHHHHHHHHHHHHHHHHHHHhhccCccCCCCcceeecCceEEEEECCCcEEEEeCCCCcceeeeecCCCccCcccC
Q 036786 82 LQEDEFHRLANSTIHDLQEKFEEYGDTIQIDGFDVDYGNEVLTLKLGALGTYVLNKQTPNRQIWLSSPVRYYCGRSY 158 (158)
Q Consensus 82 mte~eF~~lAd~~L~~L~e~lE~~~d~~~~~d~Dve~s~GVLTI~f~d~gtyVINKQ~PnkQIWLSSPisG~~~~~~ 158 (158)
|++.+||++||++|+.|+++||+..+ ..|+|+|+++|||||+|+++||||||||+||||||||||+ |..|+.|
T Consensus 1 M~d~~f~~~ad~~l~~i~~~ld~~~~---~~d~D~e~~~gVLti~f~~~~~~VINkQ~p~~QIWlaSp~-G~~hf~~ 73 (105)
T cd00503 1 MNESEFHRLADDLLLKIEDTLEEQDD---DADIDVETQGGVLTLTFGNGSTIVINRQEPLRQIWLASKV-GGYHFDY 73 (105)
T ss_pred CCHHHHHHHHHHHHHHHHHHHHhcCc---ccCEeeeccCCEEEEEECCCCEEEEeCCchhhhhheecCC-CCcccee
Confidence 89999999999999999999998754 3578999999999999999999999999999999999999 6677765
No 3
>KOG3413 consensus Mitochondrial matrix protein frataxin, involved in Fe/S protein biosynthesis [Inorganic ion transport and metabolism]
Probab=99.96 E-value=8.4e-30 Score=201.45 Aligned_cols=76 Identities=53% Similarity=0.872 Sum_probs=72.2
Q ss_pred CCHHHHHHHHHHHHHHHHHHHhhccCccCCCCcceeecCceEEEEECCCcEEEEeCCCCcceeeeecCCCccCccc
Q 036786 82 LQEDEFHRLANSTIHDLQEKFEEYGDTIQIDGFDVDYGNEVLTLKLGALGTYVLNKQTPNRQIWLSSPVRYYCGRS 157 (158)
Q Consensus 82 mte~eF~~lAd~~L~~L~e~lE~~~d~~~~~d~Dve~s~GVLTI~f~d~gtyVINKQ~PnkQIWLSSPisG~~~~~ 157 (158)
+++.+||++||+||+.|.|.||++.|+.+.+|+||+|++|||||++++.|||||||||||||||||||+||+=.|-
T Consensus 42 ~t~~~YhrlAddTLd~L~d~fEdl~e~~~~~~~Dv~y~~GVLTl~lg~~GTYViNKQ~PnkQIWlSSP~SGPkryD 117 (156)
T KOG3413|consen 42 LTRLEYHRLADDTLDHLSDYFEDLAEEVPGEGFDVDYADGVLTLKLGSVGTYVINKQPPNKQIWLSSPVSGPKRYD 117 (156)
T ss_pred chHHHHHHHHHHHHHHHHHHHHHHHhhcCccccccccccceEEEEecCceeEEecCCCCcceeeeeCCCCCCcccc
Confidence 5688999999999999999999999998888999999999999999999999999999999999999999986653
No 4
>TIGR03422 mito_frataxin frataxin. Frataxin is a mitochondrial protein, mutation of which leads to the disease Friedreich's ataxia. Its orthologs are widely distributed in the bacteria, associated with the ISC system for iron-sulfur cluster assembly, and designated CyaY. This exception-type model allows those examples of frataxin per se that score above the trusted cutoff to the CyaY equivalog-type model (TIGR03421) to be named appropriately.
Probab=99.96 E-value=6.1e-30 Score=189.37 Aligned_cols=73 Identities=48% Similarity=0.789 Sum_probs=64.8
Q ss_pred HHHHHHHHHHHHHHHHHhhccCccCCCCcceeecCceEEEEECCCcEEEEeCCCCcceeeeecCCCccCcccC
Q 036786 86 EFHRLANSTIHDLQEKFEEYGDTIQIDGFDVDYGNEVLTLKLGALGTYVLNKQTPNRQIWLSSPVRYYCGRSY 158 (158)
Q Consensus 86 eF~~lAd~~L~~L~e~lE~~~d~~~~~d~Dve~s~GVLTI~f~d~gtyVINKQ~PnkQIWLSSPisG~~~~~~ 158 (158)
|||++||++|+.|+++||++.|....-++|||+++|||||+|+++||||||||+||||||||||+||..|+.|
T Consensus 1 ef~~~ad~~L~~ie~~le~~~d~~~d~~~D~e~~~gVLti~~~~~~~~VINkQ~p~~QIWlsSp~sGp~hfd~ 73 (97)
T TIGR03422 1 EYHKVADEYLDHLLDKLEELGESRPDLDFDVEYSSGVLTLELPSVGTYVINKQPPNKQIWLSSPVSGPKRYDY 73 (97)
T ss_pred ChHHHHHHHHHHHHHHHHhhcccccccccccccCCCEEEEEECCCCEEEEeCCChhhHHheecCCCCCcceee
Confidence 6999999999999999998765431112499999999999999999999999999999999999999988876
No 5
>PRK00446 cyaY frataxin-like protein; Provisional
Probab=99.96 E-value=1.6e-29 Score=189.39 Aligned_cols=72 Identities=25% Similarity=0.488 Sum_probs=65.2
Q ss_pred CCHHHHHHHHHHHHHHHHHHHhhccCccCCCCcceeecCceEEEEECCCcEEEEeCCCCcceeeeecCCCccCcccC
Q 036786 82 LQEDEFHRLANSTIHDLQEKFEEYGDTIQIDGFDVDYGNEVLTLKLGALGTYVLNKQTPNRQIWLSSPVRYYCGRSY 158 (158)
Q Consensus 82 mte~eF~~lAd~~L~~L~e~lE~~~d~~~~~d~Dve~s~GVLTI~f~d~gtyVINKQ~PnkQIWLSSPisG~~~~~~ 158 (158)
|+|.+||++||++|+.|+++||++. ..|+|+|+++|||||+|+++||||||||+|||||||||| ||..|+.|
T Consensus 1 m~e~ef~~~ad~~l~~ie~~ld~~~----~~d~D~e~~~gVLti~f~~~~~~VINkQ~p~~QIWlas~-sG~~hf~~ 72 (105)
T PRK00446 1 MNDSEFHQLADALWQAIEEQLDDDG----DADIDCERNGGVLTLTFENGSKIIINRQEPLHELWLAAK-SGGFHFDY 72 (105)
T ss_pred CCHHHHHHHHHHHHHHHHHHHHhcc----CCCeeeeccCCEEEEEECCCCEEEEeCCCchhheeEecC-CCCcccee
Confidence 8999999999999999999999862 146899999999999999999999999999999999999 56567765
No 6
>COG1965 CyaY Protein implicated in iron transport, frataxin homolog [Inorganic ion transport and metabolism]
Probab=99.96 E-value=7.5e-30 Score=192.02 Aligned_cols=73 Identities=34% Similarity=0.560 Sum_probs=67.3
Q ss_pred CCHHHHHHHHHHHHHHHHHHHhhccCccCCCCcceeecCceEEEEECCCcEEEEeCCCCcceeeeecCCCccCcccC
Q 036786 82 LQEDEFHRLANSTIHDLQEKFEEYGDTIQIDGFDVDYGNEVLTLKLGALGTYVLNKQTPNRQIWLSSPVRYYCGRSY 158 (158)
Q Consensus 82 mte~eF~~lAd~~L~~L~e~lE~~~d~~~~~d~Dve~s~GVLTI~f~d~gtyVINKQ~PnkQIWLSSPisG~~~~~~ 158 (158)
|++++||++||++|..|+|+||++.++. ++|+|+.||||||+|+++|+||||||+|++|||||||+|| .|..|
T Consensus 1 mn~~efh~lad~~~~~Ied~le~~~~~~---d~D~d~qg~VlTl~f~ngs~iiINkQ~P~~qiWlAs~~gG-~HF~y 73 (106)
T COG1965 1 MNESEFHRLADALLLKIEDQLDEQDDEG---DIDCEIQGGVLTLTFDNGSQIIINKQEPLQQIWLASKVGG-YHFDY 73 (106)
T ss_pred CCHHHHHHHHHHHHHHHHHHHHhhccCC---CcceecCCCEEEEEECCCcEEEEeCCChHHHHHhhccCCC-ceeEe
Confidence 7899999999999999999999986543 5889999999999999999999999999999999999999 66654
No 7
>PRK01379 cyaY frataxin-like protein; Provisional
Probab=99.96 E-value=1.3e-29 Score=189.64 Aligned_cols=73 Identities=37% Similarity=0.611 Sum_probs=66.1
Q ss_pred CCHHHHHHHHHHHHHHHHHHHhhccCccCCCCcceeecCceEEEEECCCcEEEEeCCCCcceeeeecCCCccCcccC
Q 036786 82 LQEDEFHRLANSTIHDLQEKFEEYGDTIQIDGFDVDYGNEVLTLKLGALGTYVLNKQTPNRQIWLSSPVRYYCGRSY 158 (158)
Q Consensus 82 mte~eF~~lAd~~L~~L~e~lE~~~d~~~~~d~Dve~s~GVLTI~f~d~gtyVINKQ~PnkQIWLSSPisG~~~~~~ 158 (158)
|++.|||++||++|+.|+++||+... ..++|||+++|||||+|++ |+||||||+||||||||||+||..|+.|
T Consensus 1 M~~~ef~~lad~~L~~ie~~ie~~~~---d~d~D~e~~~gVLtl~~~~-gt~VINkQ~p~~QIWlASp~sG~~hF~y 73 (103)
T PRK01379 1 MNNSEFSKIAETTIAYIADKIEEQDK---EASIDVDLQGDILNLDTDK-GIYVINKQSAAKEIWLSSPVSGPYHFFY 73 (103)
T ss_pred CCHHHHHHHHHHHHHHHHHHHHhcCC---CcceeeeccCCEEEEEeCC-cEEEEeCCChhhhheeecccCCCcceec
Confidence 89999999999999999999997532 2468999999999999965 6799999999999999999999999876
No 8
>TIGR03421 FeS_CyaY iron donor protein CyaY. Members of this protein family are the iron-sulfur cluster (FeS) metabolism protein CyaY, a homolog of eukaryotic frataxin. ISC is one of several bacterial systems for FeS assembly; we find by Partial Phylogenetic Profiling vs. the ISC system that CyaY most like work with the ISC system for FeS cluster biosynthesis. A study of of cyaY mutants in Salmonella enterica bears this out. Although the trusted cutoff is set low enough to include eukaryotic frataxin sequences, a narrower, exception-type model (TIGR03421) identifies identifies members of that specific set.
Probab=99.95 E-value=1.1e-28 Score=183.97 Aligned_cols=70 Identities=30% Similarity=0.475 Sum_probs=63.6
Q ss_pred CHHHHHHHHHHHHHHHHHHHhhccCccCCCCcceeecCceEEEEECCCcEEEEeCCCCcceeeeecCCCccCcccC
Q 036786 83 QEDEFHRLANSTIHDLQEKFEEYGDTIQIDGFDVDYGNEVLTLKLGALGTYVLNKQTPNRQIWLSSPVRYYCGRSY 158 (158)
Q Consensus 83 te~eF~~lAd~~L~~L~e~lE~~~d~~~~~d~Dve~s~GVLTI~f~d~gtyVINKQ~PnkQIWLSSPisG~~~~~~ 158 (158)
+|.+||++||++|+.|+++||+. ..|+|+|++||||||+|+++|+||||||+|||||||||| ||..|+.|
T Consensus 1 ~d~ef~~~ad~~l~~ie~~ld~~-----~~d~D~e~~~gVLti~f~~~~~~VINkQ~p~~QIWlasp-sG~~hF~~ 70 (102)
T TIGR03421 1 NESEFHQLAEALLDAIEEAIDDA-----DADIDCERAGGVLTLTFENGSQIIINKQEPLHQIWLAAK-SGGFHFDY 70 (102)
T ss_pred CHHHHHHHHHHHHHHHHHHHhcc-----CCCeeeecCCCEEEEEECCCCEEEEeCCchhhhheeecC-CCCcccee
Confidence 58899999999999999999962 246899999999999999999999999999999999999 67778765
No 9
>PF12073 DUF3553: Protein of unknown function (DUF3553); InterPro: IPR021938 This family of proteins is functionally uncharacterised. This protein is found in bacteria. Proteins in this family are about 60 amino acids in length. This protein has two conserved sequence motifs: GQVQS and TVNF.
Probab=73.86 E-value=4.2 Score=27.47 Aligned_cols=22 Identities=14% Similarity=0.160 Sum_probs=19.4
Q ss_pred eecCceEEEEECCCcEEEEeCC
Q 036786 117 DYGNEVLTLKLGALGTYVLNKQ 138 (158)
Q Consensus 117 e~s~GVLTI~f~d~gtyVINKQ 138 (158)
+..+|-+|+.|++-|+-|||..
T Consensus 22 S~i~~rvTVnF~~aGK~vI~~~ 43 (52)
T PF12073_consen 22 SNIGGRVTVNFEHAGKKVIDGS 43 (52)
T ss_pred EecCCeEEEeeccCCeEEEecc
Confidence 4578999999999999999964
No 10
>cd06497 ACD_alphaA-crystallin_HspB4 Alpha-crystallin domain found in the small heat shock protein (sHsp) alphaA-crystallin (HspB4, 20kDa). sHsps are molecular chaperones that suppress protein aggregation and protect against cell stress, and are generally active as large oligomers consisting of multiple subunits. Alpha crystallin, an abundant protein in the mammalian lens, is a large (700 kDa) heteropolymer composed of HspB4 and HspB5, generally in a molar ratio of HspB4:HspB5 of 3:1. Only trace amounts of HspB4 are found in tissues other than the lens. HspB5 does not belong to this group. Mutations inHspB4 have been associated with Autosomal Dominant Congenital Cataract (ADCC). The chaperone-like functions of HspB4 are considered important for maintaining lens transparency and preventing cataract.
Probab=71.59 E-value=3.1 Score=29.55 Aligned_cols=23 Identities=9% Similarity=0.148 Sum_probs=17.1
Q ss_pred cCccCCCCcceee-cCceEEEEEC
Q 036786 106 GDTIQIDGFDVDY-GNEVLTLKLG 128 (158)
Q Consensus 106 ~d~~~~~d~Dve~-s~GVLTI~f~ 128 (158)
.+.++.+.+.+.+ .+|||+|+++
T Consensus 62 P~~Vd~~~i~A~~~~dGvL~I~~P 85 (86)
T cd06497 62 PSNVDQSAITCSLSADGMLTFSGP 85 (86)
T ss_pred CCCCChHHeEEEeCCCCEEEEEec
Confidence 3444445577888 7999999987
No 11
>cd06472 ACD_ScHsp26_like Alpha crystallin domain (ACD) found in Saccharomyces cerevisiae (Sc) small heat shock protein (Hsp)26 and similar proteins. sHsps are molecular chaperones that suppress protein aggregation and protect against cell stress, and are generally active as large oligomers consisting of multiple subunits. ScHsp26 is temperature-regulated, it switches from an inactive to a chaperone-active form upon elevation in temperature. It associates into large 24-mers storage forms which upon heat shock disassociate into dimers. These dimers initiate the interaction with non-native substrate proteins and re-assemble into large globular assemblies having one monomer of substrate bound per dimer. This group also contains Arabidopsis thaliana (Ath) Hsp15.7, a peroxisomal matrix protein which can complement the morphological phenotype of S. cerevisiae mutants deficient in Hsps26. AthHsp15.7 is minimally expressed under normal conditions and is strongly induced by heat and oxidative st
Probab=67.57 E-value=3.7 Score=28.90 Aligned_cols=17 Identities=29% Similarity=0.282 Sum_probs=14.0
Q ss_pred CCcceeecCceEEEEEC
Q 036786 112 DGFDVDYGNEVLTLKLG 128 (158)
Q Consensus 112 ~d~Dve~s~GVLTI~f~ 128 (158)
+.+...+.+|||+|+++
T Consensus 75 ~~i~A~~~nGvL~I~lP 91 (92)
T cd06472 75 DEVKAFLENGVLTVTVP 91 (92)
T ss_pred HHCEEEEECCEEEEEec
Confidence 44567889999999987
No 12
>cd06498 ACD_alphaB-crystallin_HspB5 Alpha-crystallin domain found in the small heat shock protein (sHsp) alphaB-crystallin (HspB5, 20kDa). sHsps are molecular chaperones that suppress protein aggregation and protect against cell stress, and are generally active as large oligomers consisting of multiple subunits. Alpha crystallin, an abundant protein in the mammalian lens, is a large (700 kDa) heteropolymer composed of HspB4 and HspB5, generally in a molar ratio of HspB4:HspB5 of 3:1. HspB4 does not belong to this group. HspB5 shows increased synthesis in response to stress. HspB5 is also expressed constitutively in other tissues including brain, heart, and type I and type IIa skeletal muscle fibers, and in several cancers including gliomas, renal cell carcinomas, basal-like and metaplastic breast carcinomas, and head and neck cancer. Its functions include effects on the apoptotic pathway and on metastasis. Phosphorylation of HspB5 reduces its oligomerization and anti-apoptotic activ
Probab=66.56 E-value=4.1 Score=28.90 Aligned_cols=24 Identities=13% Similarity=-0.011 Sum_probs=17.8
Q ss_pred cCccCCCCcceeec-CceEEEEECC
Q 036786 106 GDTIQIDGFDVDYG-NEVLTLKLGA 129 (158)
Q Consensus 106 ~d~~~~~d~Dve~s-~GVLTI~f~d 129 (158)
.++++.+.+...|. +|||+|+++.
T Consensus 59 P~~vd~~~i~A~~~~dGvL~I~lPk 83 (84)
T cd06498 59 PADVDPLTITSSLSPDGVLTVCGPR 83 (84)
T ss_pred CCCCChHHcEEEeCCCCEEEEEEeC
Confidence 34455556778995 9999999874
No 13
>cd06476 ACD_HspB2_like Alpha crystallin domain (ACD) found in mammalian small heat shock protein (sHsp) HspB2/heat shock 27kDa protein 2 and similar proteins. sHsps are molecular chaperones that suppress protein aggregation and protect against cell stress, and are generally active as large oligomers consisting of multiple subunits. HspB2 is preferentially and constitutively expressed in skeletal muscle and heart. HspB2 shows homooligomeric activity and forms aggregates in muscle cytosol. Although its expression is not induced by heat shock, it redistributes to the insoluble fraction in response to heat shock. In the mouse heart, HspB2 plays a role in maintaining energetic balance, by protecting cardiac energetics during ischemia/reperfusion, and allowing for increased work during acute inotropic challenge. hHspB2 [previously also known as myotonic dystrophy protein kinase (DMPK) binding protein (MKBP)] is selectively up-regulated in skeletal muscles from myotonic dystrophy patients.
Probab=66.43 E-value=5.1 Score=28.45 Aligned_cols=22 Identities=5% Similarity=0.007 Sum_probs=16.6
Q ss_pred CccCCCCcceeec-CceEEEEEC
Q 036786 107 DTIQIDGFDVDYG-NEVLTLKLG 128 (158)
Q Consensus 107 d~~~~~d~Dve~s-~GVLTI~f~ 128 (158)
+.++.+.+...+. +|||+|+++
T Consensus 60 ~~vd~~~v~A~~~~dGvL~I~~P 82 (83)
T cd06476 60 MDVDPLLVRASLSHDGILCIQAP 82 (83)
T ss_pred CCCChhhEEEEecCCCEEEEEec
Confidence 4444456778895 999999986
No 14
>cd06478 ACD_HspB4-5-6 Alpha-crystallin domain found in alphaA-crystallin (HspB4), alphaB-crystallin (HspB5), and the small heat shock protein (sHsp) HspB6, also known as Hsp20. sHsps are molecular chaperones that suppress protein aggregation and protect against cell stress, and are generally active as large oligomers consisting of multiple subunits. Alpha crystallin, an abundant protein in the mammalian lens, is a large (700 kDa) heteropolymer composed of HspB4 and HspB5, generally in a molar ratio of HspB4:HspB5 of 3:1. Only trace amounts of HspB4 are found in tissues other than the lens. HspB5 on the other hand is also expressed constitutively in other tissues including brain, heart, and type I and type IIa skeletal muscle fibers, and in several cancers including gliomas, renal cell carcinomas, basal-like and metaplastic breast carcinomas, and head and neck cancer. HspB5's functions include effects on the apoptotic pathway and on metastasis. Phosphorylation of HspB5 reduces its ol
Probab=66.17 E-value=4.2 Score=28.61 Aligned_cols=22 Identities=14% Similarity=0.139 Sum_probs=15.8
Q ss_pred CccCCCCcceee-cCceEEEEEC
Q 036786 107 DTIQIDGFDVDY-GNEVLTLKLG 128 (158)
Q Consensus 107 d~~~~~d~Dve~-s~GVLTI~f~ 128 (158)
++++.+.+...+ .+|||+|+++
T Consensus 60 ~~vd~~~i~A~~~~dGvL~I~~P 82 (83)
T cd06478 60 PGVDPAAITSSLSADGVLTISGP 82 (83)
T ss_pred CCcChHHeEEEECCCCEEEEEec
Confidence 344444466788 6999999986
No 15
>PF11354 DUF3156: Protein of unknown function (DUF3156); InterPro: IPR021500 This family of proteins with unknown function appears to be restricted to Proteobacteria.
Probab=65.52 E-value=9.8 Score=30.85 Aligned_cols=43 Identities=19% Similarity=0.252 Sum_probs=34.5
Q ss_pred HHHHHHhhccCccCCCCcceeecCceEEEEECC-CcEEEEeCCCCcce
Q 036786 97 DLQEKFEEYGDTIQIDGFDVDYGNEVLTLKLGA-LGTYVLNKQTPNRQ 143 (158)
Q Consensus 97 ~L~e~lE~~~d~~~~~d~Dve~s~GVLTI~f~d-~gtyVINKQ~PnkQ 143 (158)
.|.+.|+.++ ...+.++..+|.=+++++. +|..|+||-||-+.
T Consensus 94 ~L~~aL~~Ld----f~~l~l~~~~g~W~l~IepfgaSEVV~rmP~~RR 137 (161)
T PF11354_consen 94 ALQQALMPLD----FRRLTLDVDDGRWTLEIEPFGASEVVNRMPAFRR 137 (161)
T ss_pred HHHHHHhhcC----hhhEEEEEeCCEEEEEEEEcccceEeecCCccce
Confidence 3777777752 3456788899999999987 99999999999763
No 16
>cd06471 ACD_LpsHSP_like Group of bacterial proteins containing an alpha crystallin domain (ACD) similar to Lactobacillus plantarum (Lp) small heat shock proteins (sHsp) HSP 18.5, HSP 18.55 and HSP 19.3. sHsps are molecular chaperones that suppress protein aggregation and protect against cell stress, and are generally active as large oligomers consisting of multiple subunits. Transcription of the genes encoding Lp HSP 18.5, 18.55 and 19.3 is regulated by a variety of stresses including heat, cold and ethanol. Early growing L. plantarum cells contain elevated levels of these mRNAs which rapidly fall of as the cells enter stationary phase. Also belonging to this group is Bifidobacterium breve (Bb) HSP20 and Oenococcus oenis (syn. Leuconostoc oenos) (Oo) HSP18. Transcription of the gene encoding BbHSP20 is strongly induced following heat or osmotic shock, and that of the gene encoding OoHSP18 following heat, ethanol or acid shock. OoHSP18 is peripherally associated with the cytoplasmic me
Probab=61.73 E-value=5.6 Score=27.85 Aligned_cols=16 Identities=31% Similarity=0.503 Sum_probs=13.8
Q ss_pred CcceeecCceEEEEEC
Q 036786 113 GFDVDYGNEVLTLKLG 128 (158)
Q Consensus 113 d~Dve~s~GVLTI~f~ 128 (158)
.+.+.+.+|||+|+++
T Consensus 77 ~i~A~~~dGvL~I~lP 92 (93)
T cd06471 77 EIKAKYENGVLKITLP 92 (93)
T ss_pred HCEEEEECCEEEEEEc
Confidence 4678899999999987
No 17
>COG0071 IbpA Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]
Probab=60.77 E-value=7.3 Score=29.87 Aligned_cols=23 Identities=22% Similarity=0.401 Sum_probs=17.3
Q ss_pred CccCCCCcceeecCceEEEEECC
Q 036786 107 DTIQIDGFDVDYGNEVLTLKLGA 129 (158)
Q Consensus 107 d~~~~~d~Dve~s~GVLTI~f~d 129 (158)
+.++.+++...|.+|||+|+++.
T Consensus 110 ~~v~~~~~~A~~~nGvL~I~lpk 132 (146)
T COG0071 110 EKVDPEVIKAKYKNGLLTVTLPK 132 (146)
T ss_pred ccccccceeeEeeCcEEEEEEec
Confidence 33433457789999999999985
No 18
>cd06481 ACD_HspB9_like Alpha crystallin domain (ACD) found in mammalian small heat shock protein (sHsp) HspB9 and similar proteins. sHsps are molecular chaperones that suppress protein aggregation and protect against cell stress, and are generally active as large oligomers consisting of multiple subunits. Human (h) HspB9 is expressed exclusively in the normal testis and in various tumor samples and is a cancer/testis antigen. hHspB9 interacts with TCTEL1 (T-complex testis expressed protein -1), a subunit of dynein. hHspB9 and TCTEL1 are co-expressed in similar cells within the testis and in tumor cells. Included in this group is Xenopus Hsp30, a developmentally-regulated heat-inducible molecular chaperone.
Probab=59.85 E-value=6.2 Score=28.07 Aligned_cols=21 Identities=5% Similarity=0.126 Sum_probs=15.6
Q ss_pred ccCCCCcceee-cCceEEEEEC
Q 036786 108 TIQIDGFDVDY-GNEVLTLKLG 128 (158)
Q Consensus 108 ~~~~~d~Dve~-s~GVLTI~f~ 128 (158)
.++.+.+...+ .+|||+|++|
T Consensus 65 ~Vd~~~i~A~~~~dGvL~I~~P 86 (87)
T cd06481 65 HVDPEAVTCSLSPSGHLHIRAP 86 (87)
T ss_pred CcChHHeEEEeCCCceEEEEcC
Confidence 34334566888 8999999986
No 19
>cd06526 metazoan_ACD Alpha-crystallin domain (ACD) of metazoan alpha-crystallin-type small(s) heat shock proteins (Hsps). sHsps are small stress induced proteins with monomeric masses between 12 -43 kDa, whose common feature is the Alpha-crystallin domain (ACD). sHsps are generally active as large oligomers consisting of multiple subunits, and are believed to be ATP-independent chaperones that prevent aggregation and are important in refolding in combination with other Hsps.
Probab=57.49 E-value=7.9 Score=26.77 Aligned_cols=21 Identities=19% Similarity=0.265 Sum_probs=15.1
Q ss_pred ccCCCCcceeecC-ceEEEEEC
Q 036786 108 TIQIDGFDVDYGN-EVLTLKLG 128 (158)
Q Consensus 108 ~~~~~d~Dve~s~-GVLTI~f~ 128 (158)
.++.+.+.+.+.+ |||+|+++
T Consensus 61 ~vd~~~i~A~~~~~GvL~I~~P 82 (83)
T cd06526 61 GVDPDSVTSSLSSDGVLTIEAP 82 (83)
T ss_pred CCChHHeEEEeCCCcEEEEEec
Confidence 3444446677887 99999986
No 20
>cd06475 ACD_HspB1_like Alpha crystallin domain (ACD) found in mammalian small (s)heat shock protein (Hsp)-27 (also denoted HspB1 in human) and similar proteins. sHsps are molecular chaperones that suppress protein aggregation and protect against cell stress, and are generally active as large oligomers consisting of multiple subunits. Hsp27 shows enhanced synthesis in response to stress. It is a molecular chaperone which interacts with a large number of different proteins. It is found in many types of human cells including breast, uterus, cervix, platelets and cancer cells. Hsp27 has diverse cellular functions including, chaperoning, regulation of actin polymerization, keratinocyte differentiation, regulation of inflammatory pathways in keratinocytes, and protection from oxidative stress through modulating glutathione levels. It is also a subunit of AUF1-containing protein complexes. It has been linked to several transduction pathways regulating cellular functions including differentiat
Probab=55.46 E-value=8.6 Score=27.28 Aligned_cols=21 Identities=10% Similarity=0.192 Sum_probs=15.1
Q ss_pred ccCCCCcceeec-CceEEEEEC
Q 036786 108 TIQIDGFDVDYG-NEVLTLKLG 128 (158)
Q Consensus 108 ~~~~~d~Dve~s-~GVLTI~f~ 128 (158)
.++.+.+...+. +|||+|+++
T Consensus 64 ~vd~~~v~A~~~~dGvL~I~lP 85 (86)
T cd06475 64 GVDPTAVTSSLSPDGILTVEAP 85 (86)
T ss_pred CCCHHHcEEEECCCCeEEEEec
Confidence 333344667886 999999985
No 21
>PF00011 HSP20: Hsp20/alpha crystallin family This prints entry is a subset of the Pfam entry.; InterPro: IPR002068 Prokaryotic and eukaryotic organisms respond to heat shock or other environmental stress by inducing the synthesis of proteins collectively known as heat-shock proteins (hsp) []. Amongst them is a family of proteins with an average molecular weight of 20 Kd, known as the hsp20 proteins []. These seem to act as chaperones that can protect other proteins against heat-induced denaturation and aggregation. Hsp20 proteins seem to form large heterooligomeric aggregates. Structurally, this family is characterised by the presence of a conserved C-terminal domain of about 100 residues.; PDB: 2BOL_B 3N3E_B 2H50_P 2H53_F 2BYU_L 1GME_D 3VQM_J 3VQK_E 3VQL_A 3AAC_A ....
Probab=54.27 E-value=10 Score=26.62 Aligned_cols=19 Identities=32% Similarity=0.469 Sum_probs=14.7
Q ss_pred CCCcceeecCceEEEEECC
Q 036786 111 IDGFDVDYGNEVLTLKLGA 129 (158)
Q Consensus 111 ~~d~Dve~s~GVLTI~f~d 129 (158)
.+.+.+.+.+|+|+|+++.
T Consensus 69 ~~~i~a~~~~GvL~I~~pk 87 (102)
T PF00011_consen 69 PDKIKASYENGVLTITIPK 87 (102)
T ss_dssp GGG-EEEETTSEEEEEEEB
T ss_pred cceEEEEecCCEEEEEEEc
Confidence 3456788899999999984
No 22
>TIGR02503 type_III_SycN type III secretion chaperone SycN. Members of this protein family are part of the machinery of bacterial type III secretion in a number of bacteria that target animal cells. In the well-studied system from Yersinia, a complex of this protein (SycN) and YscB (pfam07329) acts as a chaperone for the export of YopN (PubMed:10094626). YopN then acts to control effector protein secretion, in response to calcium levels, so that secretion occurs only after contact with the targeted eukaryotic cell.
Probab=54.09 E-value=21 Score=27.68 Aligned_cols=37 Identities=11% Similarity=0.223 Sum_probs=31.7
Q ss_pred ceeecCceEEEEECCCcEEEEeCCCCcceeeeecCCC
Q 036786 115 DVDYGNEVLTLKLGALGTYVLNKQTPNRQIWLSSPVR 151 (158)
Q Consensus 115 Dve~s~GVLTI~f~d~gtyVINKQ~PnkQIWLSSPis 151 (158)
+++...++++++|++.|+.-|-++.=--=+|||-++.
T Consensus 16 ~~~~~~~~i~l~~e~~gtL~iE~~~~~L~L~LAr~~p 52 (119)
T TIGR02503 16 TPAPLPRLAQLSMEQSGRLYVEQHDGTLLLWLARSLE 52 (119)
T ss_pred CCCCCCcceEEEecCCcEEEEEecCCEEEEEEeccCC
Confidence 3456777999999999999999988888899998875
No 23
>PRK11597 heat shock chaperone IbpB; Provisional
Probab=52.50 E-value=22 Score=27.98 Aligned_cols=15 Identities=20% Similarity=0.284 Sum_probs=13.1
Q ss_pred ceeecCceEEEEECC
Q 036786 115 DVDYGNEVLTLKLGA 129 (158)
Q Consensus 115 Dve~s~GVLTI~f~d 129 (158)
...|.+|||||+++.
T Consensus 107 ~A~~~nGVL~I~lPK 121 (142)
T PRK11597 107 GATFVNGLLHIDLIR 121 (142)
T ss_pred cCEEcCCEEEEEEec
Confidence 578899999999975
No 24
>cd06477 ACD_HspB3_Like Alpha crystallin domain (ACD) found in mammalian HspB3, also known as heat-shock protein 27-like protein (HSPL27, 17-kDa) and similar proteins. sHsps are molecular chaperones that suppress protein aggregation and protect against cell stress, and are generally active as large oligomers consisting of multiple subunits. HspB3 is expressed in adult skeletal muscle, smooth muscle, and heart, and in several other fetal tissues. In muscle cells HspB3 forms an oligomeric 150 kDa complex with myotonic dystrophy protein kinase-binding protein (MKBP/ HspB2), this complex may comprise one of two independent muscle-cell specific chaperone systems. The expression of HspB3 is induced during muscle differentiation controlled by the myogenic factor MyoD. HspB3 may also interact with Hsp22 (HspB8).
Probab=51.98 E-value=15 Score=26.26 Aligned_cols=23 Identities=9% Similarity=0.202 Sum_probs=16.2
Q ss_pred CccCCCCcceee-cCceEEEEECC
Q 036786 107 DTIQIDGFDVDY-GNEVLTLKLGA 129 (158)
Q Consensus 107 d~~~~~d~Dve~-s~GVLTI~f~d 129 (158)
++++.+.+...+ .+|||+|+-++
T Consensus 60 ~~Vd~~~v~A~~~~dGvL~I~~~~ 83 (83)
T cd06477 60 DGVEHKDLSAMLCHDGILVVETKD 83 (83)
T ss_pred CCcchheEEEEEcCCCEEEEEecC
Confidence 444445566776 79999998754
No 25
>PF00659 POLO_box: POLO box duplicated region; InterPro: IPR000959 A subgroup of serine/threonine protein kinases, Polo or Polo-like kinases play multiple roles during the cell cycle. Polo kinases are required at several key points through mitosis, starting from control of the G2/M transition through phosphorylation of Cdc25C and mitotic cyclins. Polo kinases are characterised by an amino terminal catalytic domain, and a carboxy terminal non-catalytic domain consisting of three blocks of conserved sequences known as polo boxes which form one single functional domain []. The domain is named after its founding member encoded by the polo gene of Drosophila melanogaster []. This domain of around 70 amino acids has been found in species ranging from yeast to mammals. Polo boxes appear to mediate interaction with multiple proteins through protein:protein interactions; some but not all of these proteins are substrates for the kinase domain of the molecule []. The crystal structure of the polo domain of the murine protein, Sak, is dimeric, consisting of two alpha-helices and two six-stranded beta-sheets []. The topology of one polypeptide subunit of the dimer consists of, from its N- to C terminus, an extended strand segment, five beta-strands, one alpha-helix (A) and a C-terminal beta-strand. Beta-strands from one subunit form a contiguous antiparallel beta-sheet with beta-strands from the second subunit. The two beta-sheets pack with a crossing angle of 110 degrees, orienting the hydrophobic surfaces inward and the hydrophilic surfaces outward. Helix A, which is colinear with beta-strand 6 of the same polypeptide, buries a large portion of the non-overlapping hydrophobic beta-sheet surfaces. Interactions involving helices A comprise a majority of the hydrophobic core structure and also the dimer interface. Point mutations in the Polo box of the budding yeast Cdc5 protein abolish the ability of overexpressed Cdc5 to interact with the spindle poles and to organise cytokinetic structures [].; GO: 0005515 protein binding; PDB: 1MBY_B 3P37_A 3MHN_A 1Q4K_A 3HIK_A 3Q1I_A 3P35_A 3MHQ_A 1UMW_B 3MQ8_B ....
Probab=50.52 E-value=24 Score=23.53 Aligned_cols=35 Identities=14% Similarity=0.215 Sum_probs=25.1
Q ss_pred CcceeecCceEEEEECCCcEEEEeCCCCcceeeeecC
Q 036786 113 GFDVDYGNEVLTLKLGALGTYVLNKQTPNRQIWLSSP 149 (158)
Q Consensus 113 d~Dve~s~GVLTI~f~d~gtyVINKQ~PnkQIWLSSP 149 (158)
|+=..+++|.+.+.|.|+.++|++ +..+-|+.-.+
T Consensus 6 gi~~~LSng~vqv~FnD~tkivl~--~~~~~v~yi~~ 40 (68)
T PF00659_consen 6 GIGYQLSNGTVQVNFNDHTKIVLS--PDGRLVTYIDR 40 (68)
T ss_dssp EEEEEETTSEEEEEETTS-EEEEE--TTCCEEEEE-T
T ss_pred EEEEEEeCCCEEEEEeCCCEEEEC--CCCCEEEEECC
Confidence 455678999999999999999994 34446655443
No 26
>cd06479 ACD_HspB7_like Alpha crystallin domain (ACD) found in mammalian small heat shock protein (sHsp) HspB7, also known as cardiovascular small heat shock protein (cvHsp), and similar proteins. sHsps are molecular chaperones that suppress protein aggregation and protect against cell stress, and are generally active as large oligomers consisting of multiple subunits. HspB7 is a 25-kDa protein, preferentially expressed in heart and skeletal muscle. It binds the cytoskeleton protein alpha-filamin (also known as actin-binding protein 280). The expression of HspB7 is increased during rat muscle aging. Its expression is also modulated in obesity implicating this protein in this and related metabolic disorders. As the human gene encoding HspB7 is mapped to chromosome 1p36.23-p34.3 it is a positional candidate for several dystrophies and myopathies.
Probab=50.24 E-value=12 Score=26.62 Aligned_cols=22 Identities=14% Similarity=0.237 Sum_probs=15.9
Q ss_pred CccCCCCcceee-cCceEEEEEC
Q 036786 107 DTIQIDGFDVDY-GNEVLTLKLG 128 (158)
Q Consensus 107 d~~~~~d~Dve~-s~GVLTI~f~ 128 (158)
++++.+.+...+ .+|||||++.
T Consensus 58 ~~vd~e~v~A~l~~~GvL~I~~~ 80 (81)
T cd06479 58 EDVDPTSVSSSLGEDGTLTIKAR 80 (81)
T ss_pred CCcCHHHeEEEecCCCEEEEEec
Confidence 344445567786 8999999874
No 27
>PRK10743 heat shock protein IbpA; Provisional
Probab=47.99 E-value=15 Score=28.47 Aligned_cols=15 Identities=20% Similarity=0.266 Sum_probs=13.1
Q ss_pred ceeecCceEEEEECC
Q 036786 115 DVDYGNEVLTLKLGA 129 (158)
Q Consensus 115 Dve~s~GVLTI~f~d 129 (158)
...|.+|||||+++.
T Consensus 109 ~A~~~dGVL~I~lPK 123 (137)
T PRK10743 109 GANLVNGLLYIDLER 123 (137)
T ss_pred cCEEeCCEEEEEEeC
Confidence 478899999999985
No 28
>cd06464 ACD_sHsps-like Alpha-crystallin domain (ACD) of alpha-crystallin-type small(s) heat shock proteins (Hsps). sHsps are small stress induced proteins with monomeric masses between 12 -43 kDa, whose common feature is the Alpha-crystallin domain (ACD). sHsps are generally active as large oligomers consisting of multiple subunits, and are believed to be ATP-independent chaperones that prevent aggregation and are important in refolding in combination with other Hsps.
Probab=45.49 E-value=16 Score=24.20 Aligned_cols=16 Identities=31% Similarity=0.385 Sum_probs=13.3
Q ss_pred CcceeecCceEEEEEC
Q 036786 113 GFDVDYGNEVLTLKLG 128 (158)
Q Consensus 113 d~Dve~s~GVLTI~f~ 128 (158)
.+.+.+.+|+|+|.++
T Consensus 72 ~i~a~~~~G~L~I~~p 87 (88)
T cd06464 72 KIKASLENGVLTITLP 87 (88)
T ss_pred HcEEEEeCCEEEEEEc
Confidence 4567888999999986
No 29
>PF02575 YbaB_DNA_bd: YbaB/EbfC DNA-binding family; InterPro: IPR004401 The function of this protein is unknown. It is restricted to bacteria and a few plants, such as Arabidopsis. The plant form contains an additional N-terminal region that may serve as a transit peptide and shows a close relationship to the cyanobacterial member, suggesting that it is a chloroplast protein. Members of this family are found in a single copy per bacterial genome, but are broadly distributed. A crystal structure of one member, YbaB from Haemophilus influenzae, revealed a core structure consisting of two layers, alpha/beta; YbaB forms a tight dimer with a 3-layer structure, beta/alpha/beta []. YbaB is co-transcribed with RecR, which appears to protect DNA strands of the replilcation fork when it is blocked by DNA damage. A deletion of the YbaB operon resulted in increased sensitivity to DNA-damaging agents compared with the wild-type strain.; PDB: 1PUG_B 3F42_B 1YBX_B 1J8B_A.
Probab=45.31 E-value=13 Score=26.12 Aligned_cols=33 Identities=21% Similarity=0.359 Sum_probs=19.9
Q ss_pred HHHHHHHHhhccCccCCCCcceeecCceEEEEECCCcEEE
Q 036786 95 IHDLQEKFEEYGDTIQIDGFDVDYGNEVLTLKLGALGTYV 134 (158)
Q Consensus 95 L~~L~e~lE~~~d~~~~~d~Dve~s~GVLTI~f~d~gtyV 134 (158)
+..+++.|+.. .+...-.+|.+|+++...|..+
T Consensus 11 ~~~~~~~l~~~-------~~~~~s~~g~V~V~v~g~g~v~ 43 (93)
T PF02575_consen 11 MEEAQEELAEI-------EVTGTSGDGLVTVTVNGNGEVV 43 (93)
T ss_dssp HHHHHHHHHHS-------EEEEEETCCTEEEEEETTS-EE
T ss_pred HHHHHHHHhcC-------EEEEEECCCEEEEEEecCceEE
Confidence 45555555542 2455667888888887766543
No 30
>PF11305 DUF3107: Protein of unknown function (DUF3107); InterPro: IPR021456 Some members in this family of proteins are annotated as ATP-binding proteins however this cannot be confirmed. Currently no function is known.
Probab=43.93 E-value=68 Score=22.94 Aligned_cols=33 Identities=18% Similarity=0.213 Sum_probs=23.6
Q ss_pred HHHHHHHHHHHHhhccCccCCCCcceeecCceEEEEECCCcEEEEeC
Q 036786 91 ANSTIHDLQEKFEEYGDTIQIDGFDVDYGNEVLTLKLGALGTYVLNK 137 (158)
Q Consensus 91 Ad~~L~~L~e~lE~~~d~~~~~d~Dve~s~GVLTI~f~d~gtyVINK 137 (158)
+|+....+.++|.. ..++|+|+-..|-+|+|..
T Consensus 22 ~dev~~~v~~Al~~--------------~~~~l~LtD~kGr~~lVp~ 54 (74)
T PF11305_consen 22 ADEVEAAVTDALAD--------------GSGVLTLTDEKGRRVLVPA 54 (74)
T ss_pred HHHHHHHHHHHHhC--------------CCceEEEEeCCCCEEEEEC
Confidence 45555666666654 2389999999999999864
No 31
>PRK14627 hypothetical protein; Provisional
Probab=42.05 E-value=1.1e+02 Score=22.62 Aligned_cols=48 Identities=15% Similarity=0.229 Sum_probs=28.7
Q ss_pred CCHHHHHHHHHHHHHHHHHHHhhccCccCCCCcceeecCceEEEEECCCcEE
Q 036786 82 LQEDEFHRLANSTIHDLQEKFEEYGDTIQIDGFDVDYGNEVLTLKLGALGTY 133 (158)
Q Consensus 82 mte~eF~~lAd~~L~~L~e~lE~~~d~~~~~d~Dve~s~GVLTI~f~d~gty 133 (158)
|+-.++.+.|.+.-..+++.=+++.. ..++.+..||.++|++...+++
T Consensus 1 mn~~~~mkqaq~mQ~km~~~Q~el~~----~~veg~sggG~VkV~~~G~~~v 48 (100)
T PRK14627 1 MNQRQLMQMAQQMQRQMQKVQEELAA----TIVEGTAGGGAITVKMNGHREV 48 (100)
T ss_pred CCHHHHHHHHHHHHHHHHHHHHHHhc----cEEEEEEcCCeEEEEEEcCccE
Confidence 44556666666654444444443322 2356667799999999765554
No 32
>PF05207 zf-CSL: CSL zinc finger; InterPro: IPR007872 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents a probable zinc binding motif that contains four cysteines and may chelate zinc, known as the DPH-type after the diphthamide (DPH) biosynthesis protein in which it was first characterised, including the proteins DPH3 and DPH4. This domain is also found associated with N-terminal domain of heat shock protein DnaJ IPR001623 from INTERPRO domain. Diphthamide is a unique post-translationally modified histidine residue found only in translation elongation factor 2 (eEF-2). It is conserved from archaea to humans and serves as the target for diphteria toxin and Pseudomonas exotoxin A. These two toxins catalyse the transfer of ADP-ribose to diphtamide on eEF-2, thus inactivating eEF-2, halting cellular protein synthesis, and causing cell death []. The biosynthesis of diphtamide is dependent on at least five proteins, DPH1 to -5, and a still unidentified amidating enzyme. DPH3 and DPH4 share a conserved region, which encode a putative zinc finger, the DPH-type or CSL-type (after the conserved motif of the final cysteine) zinc finger [, ]. The function of this motif is unknown. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; PDB: 2L6L_A 1WGE_A 2JR7_A 1YOP_A 1YWS_A.
Probab=41.73 E-value=36 Score=22.59 Aligned_cols=30 Identities=13% Similarity=0.344 Sum_probs=24.8
Q ss_pred cCCCCcceeecCceEEEEECCCcEEEEeCC
Q 036786 109 IQIDGFDVDYGNEVLTLKLGALGTYVLNKQ 138 (158)
Q Consensus 109 ~~~~d~Dve~s~GVLTI~f~d~gtyVINKQ 138 (158)
+.+++++.+-..++.+....=||+|+|++.
T Consensus 3 v~l~d~~~~~~~~~~~y~CRCG~~f~i~e~ 32 (55)
T PF05207_consen 3 VSLDDMEFDEEEGVYSYPCRCGGEFEISEE 32 (55)
T ss_dssp EETTTSEEETTTTEEEEEETTSSEEEEEHH
T ss_pred EEhhhceecCCCCEEEEcCCCCCEEEEcch
Confidence 345677888889999999988999999875
No 33
>cd06470 ACD_IbpA-B_like Alpha-crystallin domain (ACD) found in Escherichia coli inclusion body-associated proteins IbpA and IbpB, and similar proteins. IbpA and IbpB are 16 kDa small heat shock proteins (sHsps). sHsps are molecular chaperones that suppress protein aggregation and protect against cell stress, and are generally active as large oligomers consisting of multiple subunits. IbpA and IbpB are produced during high-level production of various heterologous proteins, specifically human prorenin, renin and bovine insulin-like growth factor 2 (bIGF-2), and are strongly associated with inclusion bodies containing these heterologous proteins. IbpA and IbpB work as an integrated system to stabilize thermally aggregated proteins in a disaggregation competent state. The chaperone activity of IbpB is also significantly elevated as the temperature increases from normal to heat shock. The high temperature results in the disassociation of 2-3-MDa IbpB oligomers into smaller approximately 6
Probab=40.02 E-value=20 Score=25.23 Aligned_cols=14 Identities=29% Similarity=0.475 Sum_probs=12.0
Q ss_pred ceeecCceEEEEEC
Q 036786 115 DVDYGNEVLTLKLG 128 (158)
Q Consensus 115 Dve~s~GVLTI~f~ 128 (158)
.+.+.+|||+|+++
T Consensus 76 ~A~~~~GvL~I~l~ 89 (90)
T cd06470 76 GAELENGLLTIDLE 89 (90)
T ss_pred eeEEeCCEEEEEEE
Confidence 46889999999985
No 34
>PF12305 DUF3630: Protein of unknown function (DUF3630); InterPro: IPR022080 This family of proteins is found in bacteria. Proteins in this family are approximately 100 amino acids in length. There is a single completely conserved residue D that may be functionally important.
Probab=39.97 E-value=25 Score=26.09 Aligned_cols=51 Identities=16% Similarity=0.093 Sum_probs=40.7
Q ss_pred CCHHHHHHHHHHHHHHHHHHHhhccCccCCCCcceeecCceEEEEECCCcE
Q 036786 82 LQEDEFHRLANSTIHDLQEKFEEYGDTIQIDGFDVDYGNEVLTLKLGALGT 132 (158)
Q Consensus 82 mte~eF~~lAd~~L~~L~e~lE~~~d~~~~~d~Dve~s~GVLTI~f~d~gt 132 (158)
.+-..|...|+..+..+.-.+-+.....|.--..+++.|-.+.+.++..+.
T Consensus 20 ~D~d~F~~~a~~l~~~l~~~v~Ek~~gADrh~W~l~feg~~l~L~~EhYs~ 70 (94)
T PF12305_consen 20 FDFDSFPLWAEQLLQLLDATVIEKQWGADRHQWLLDFEGCHLFLNYEHYSE 70 (94)
T ss_pred CCHHHHHHHHHHHHHhcCCEeeeeecCcceeEEEEEecCcEEEEEhHHhCc
Confidence 668899999999999998887776655444447789999999999987554
No 35
>TIGR00103 DNA_YbaB_EbfC DNA-binding protein, YbaB/EbfC family. The function of this protein is unknown, but it has been expressed and crystallized. Its gene nearly always occurs next to recR and/or dnaX. It is restricted to Bacteria and the plant Arabidopsis. The plant form contains an additional N-terminal region that may serve as a transit peptide and shows a close relationship to the cyanobacterial member, suggesting that it is a chloroplast protein. Members of this family are found in a single copy per bacterial genome, but are broadly distributed. A member is present even in the minimal gene complement of Mycoplasm genitalium.
Probab=38.30 E-value=38 Score=25.01 Aligned_cols=21 Identities=10% Similarity=0.056 Sum_probs=15.7
Q ss_pred cceeecCceEEEEECCCcEEE
Q 036786 114 FDVDYGNEVLTLKLGALGTYV 134 (158)
Q Consensus 114 ~Dve~s~GVLTI~f~d~gtyV 134 (158)
++.+..||.++|++...++++
T Consensus 33 v~g~sggGlV~V~~~G~~~v~ 53 (102)
T TIGR00103 33 VTGKSGAGLVTVTINGNLELK 53 (102)
T ss_pred EEEEECCCEEEEEEEcCceEE
Confidence 556667999999997666543
No 36
>PRK00199 ihfB integration host factor subunit beta; Reviewed
Probab=38.20 E-value=1.4e+02 Score=21.00 Aligned_cols=59 Identities=10% Similarity=0.199 Sum_probs=38.5
Q ss_pred CCCHHHHHHHHHHHHHHHHHHHhhccCccCCCCcceeecC-ceEEEEECCCcEEEEeCCCCcceeeeecC
Q 036786 81 LLQEDEFHRLANSTIHDLQEKFEEYGDTIQIDGFDVDYGN-EVLTLKLGALGTYVLNKQTPNRQIWLSSP 149 (158)
Q Consensus 81 ~mte~eF~~lAd~~L~~L~e~lE~~~d~~~~~d~Dve~s~-GVLTI~f~d~gtyVINKQ~PnkQIWLSSP 149 (158)
.++..+=....|.+++.|.+.|.+ |-.|.+.| |.+++..-. .....|.++ ...|++.+.
T Consensus 16 ~~s~~~~~~vv~~~~~~i~~~L~~--------g~~V~l~gfG~F~~~~r~-~r~~~np~T-ge~i~i~~~ 75 (94)
T PRK00199 16 HLSAKDVENAVKEILEEMSDALAR--------GDRIEIRGFGSFSLHYRP-PRVGRNPKT-GEKVELEEK 75 (94)
T ss_pred CCCHHHHHHHHHHHHHHHHHHHHc--------CCeEEEcCCEEEEEEEec-CeeccCcCC-CCEEEEcCC
Confidence 466777777888888888888775 22466654 777766643 555566665 566776653
No 37
>PRK00153 hypothetical protein; Validated
Probab=36.85 E-value=45 Score=24.43 Aligned_cols=20 Identities=5% Similarity=0.162 Sum_probs=14.8
Q ss_pred cceeecCceEEEEECCCcEE
Q 036786 114 FDVDYGNEVLTLKLGALGTY 133 (158)
Q Consensus 114 ~Dve~s~GVLTI~f~d~gty 133 (158)
++.+..||.+++++...+.+
T Consensus 31 ~~~~s~~G~V~V~v~G~~~v 50 (104)
T PRK00153 31 VEGEAGGGLVKVTMTGKKEV 50 (104)
T ss_pred EEEEECCCeEEEEEecCceE
Confidence 55566799999999765554
No 38
>PRK14622 hypothetical protein; Provisional
Probab=36.48 E-value=1.6e+02 Score=21.88 Aligned_cols=47 Identities=9% Similarity=0.140 Sum_probs=26.2
Q ss_pred CHHHHHHHHHHHHHHHHHHHhhccCccCCCCcceeecCceEEEEECCCcEE
Q 036786 83 QEDEFHRLANSTIHDLQEKFEEYGDTIQIDGFDVDYGNEVLTLKLGALGTY 133 (158)
Q Consensus 83 te~eF~~lAd~~L~~L~e~lE~~~d~~~~~d~Dve~s~GVLTI~f~d~gty 133 (158)
+-.+..+.|.+.=..+.+.=+++.+ -.++.+..||.++|++...+++
T Consensus 2 ~~~~lmkqaq~mQ~~m~~~q~el~~----~~v~g~sggG~VkV~~nG~~~v 48 (103)
T PRK14622 2 DIQYLMRQAKKLEKAMADAKEKLAE----IAVEAESGGGLVKVAMNGKCEV 48 (103)
T ss_pred CHHHHHHHHHHHHHHHHHHHHHHhc----cEEEEEECCceEEEEEEcCceE
Confidence 3445555555544444433333321 2355667799999999755544
No 39
>COG4097 Predicted ferric reductase [Inorganic ion transport and metabolism]
Probab=36.46 E-value=34 Score=31.85 Aligned_cols=22 Identities=14% Similarity=0.560 Sum_probs=18.5
Q ss_pred CCcEEEEeCCCCcceeeeecCCC
Q 036786 129 ALGTYVLNKQTPNRQIWLSSPVR 151 (158)
Q Consensus 129 d~gtyVINKQ~PnkQIWLSSPis 151 (158)
..|+|.+.++.++ |||+|.-+|
T Consensus 305 PYG~F~~~~g~~~-QVWIAGGIG 326 (438)
T COG4097 305 PYGKFDFERGLNT-QVWIAGGIG 326 (438)
T ss_pred CcceeecccCCcc-cEEEecCcC
Confidence 4788888899999 999997665
No 40
>PF13947 GUB_WAK_bind: Wall-associated receptor kinase galacturonan-binding
Probab=34.88 E-value=75 Score=22.55 Aligned_cols=42 Identities=26% Similarity=0.301 Sum_probs=31.6
Q ss_pred CCcceeecCc--eEEEEECCCcEEEEeCCCCcceeeeecCCCcc
Q 036786 112 DGFDVDYGNE--VLTLKLGALGTYVLNKQTPNRQIWLSSPVRYY 153 (158)
Q Consensus 112 ~d~Dve~s~G--VLTI~f~d~gtyVINKQ~PnkQIWLSSPisG~ 153 (158)
.++++.+.++ -.+|.+.++..-|++---++++|++..|+...
T Consensus 27 ~~F~L~C~~~~~~~~l~l~~~~~~V~~I~~~~~~i~v~~~~~~~ 70 (106)
T PF13947_consen 27 PGFELTCNNNTSPPKLLLSSGNYEVLSISYENGTIRVSDPISSN 70 (106)
T ss_pred CCcEEECCCCCCCceeEecCCcEEEEEEecCCCEEEEEeccccc
Confidence 4667777655 56666677888888888899999999987543
No 41
>COG3526 Uncharacterized protein conserved in bacteria [Posttranslational modification, protein turnover, chaperones]
Probab=33.76 E-value=1.4e+02 Score=22.42 Aligned_cols=24 Identities=13% Similarity=0.151 Sum_probs=19.0
Q ss_pred cCceEEEEECCCcEEEEeCCCCcceeeeecCCCccC
Q 036786 119 GNEVLTLKLGALGTYVLNKQTPNRQIWLSSPVRYYC 154 (158)
Q Consensus 119 s~GVLTI~f~d~gtyVINKQ~PnkQIWLSSPisG~~ 154 (158)
.|||.+|.+++ -|||=--.-|||=
T Consensus 46 TGG~FeI~~dg------------~~iWeRKrdGGFP 69 (99)
T COG3526 46 TGGVFEITCDG------------VLIWERKRDGGFP 69 (99)
T ss_pred CCceEEEEECC------------EEEEEeeccCCCC
Confidence 79999999954 4788887888874
No 42
>PRK14623 hypothetical protein; Provisional
Probab=31.42 E-value=54 Score=24.78 Aligned_cols=21 Identities=14% Similarity=0.145 Sum_probs=15.6
Q ss_pred cceeecCceEEEEECCCcEEE
Q 036786 114 FDVDYGNEVLTLKLGALGTYV 134 (158)
Q Consensus 114 ~Dve~s~GVLTI~f~d~gtyV 134 (158)
++.+..||.+++++...++++
T Consensus 29 v~g~sggG~VkVt~~G~~~i~ 49 (106)
T PRK14623 29 IDEQSSDGLLKVTVTANREIK 49 (106)
T ss_pred EEEEECCceEEEEEEcCccEE
Confidence 555667999999997666553
No 43
>PF10431 ClpB_D2-small: C-terminal, D2-small domain, of ClpB protein ; InterPro: IPR019489 Most Clp ATPases form complexes with peptidase subunits and are involved in protein degradation, though some, such as ClpB, do not associate with peptidases and are involved in protein disaggregation []. This entry represents the C-terminal domain of Clp ATPases, often referred to as the D2-small domain, which forms a mixed alpha-beta structure. Compared with the adjacent AAA D1-small domain (IPR003959 from INTERPRO) it lacks the long coiled-coil insertion, and instead of helix C4 contains a beta-strand (e3) that is part of a three stranded beta-pleated sheet. In Thermophilus the whole protein forms a hexamer with the D1-small and D2-small domains located on the outside of the hexamer, with the long coiled-coil being exposed on the surface. The D2-small domain is essential for oligomerisation, forming a tight interface with the D2-large domain of a neighbouring subunit, thereby providing enough binding energy to stabilise the functional assembly [].; PDB: 3HWS_A 3HTE_F 1KYI_T 1G3I_S 1OFH_B 1OFI_A 1G41_A 1IM2_A 3PXI_A 1R6B_X ....
Probab=31.21 E-value=44 Score=22.74 Aligned_cols=35 Identities=23% Similarity=0.697 Sum_probs=25.0
Q ss_pred CCHHHHHHHHHHHHHHHHHHHhhccCccCCCCcceeecCceE
Q 036786 82 LQEDEFHRLANSTIHDLQEKFEEYGDTIQIDGFDVDYGNEVL 123 (158)
Q Consensus 82 mte~eF~~lAd~~L~~L~e~lE~~~d~~~~~d~Dve~s~GVL 123 (158)
|++.++.+.++..|+.+.+.+.+ .+++++++++++
T Consensus 1 L~~~~l~~I~~~~l~~l~~~l~~-------~~i~l~~~~~~~ 35 (81)
T PF10431_consen 1 LSEEDLEKIADLQLKKLNERLKE-------KGIELEFDDAVV 35 (81)
T ss_dssp --HHHHHHHHHSHHHHHHHHHHH-------TTEEEEE-HHHH
T ss_pred CCHHHHHHHHHHHHHHHHHHHHH-------CCCeEEecHHHH
Confidence 46788999999999999999987 245666665543
No 44
>PF13619 KTSC: KTSC domain
Probab=30.98 E-value=54 Score=21.61 Aligned_cols=27 Identities=15% Similarity=0.169 Sum_probs=20.7
Q ss_pred cceeecCceEEEEECCCcEEEEeCCCC
Q 036786 114 FDVDYGNEVLTLKLGALGTYVLNKQTP 140 (158)
Q Consensus 114 ~Dve~s~GVLTI~f~d~gtyVINKQ~P 140 (158)
++.|-...+|.|.|.+|+.|.--.=||
T Consensus 9 v~Yd~~~~~L~V~F~~G~~Y~Y~~Vp~ 35 (60)
T PF13619_consen 9 VGYDPETRTLEVEFKSGSVYRYFGVPP 35 (60)
T ss_pred EeECCCCCEEEEEEcCCCEEEECCCCH
Confidence 456667899999999999887655443
No 45
>cd00591 HU_IHF Integration host factor (IHF) and HU are small heterodimeric members of the DNABII protein family that bind and bend DNA, functioning as architectural factors in many cellular processes including transcription, site-specific recombination, and higher-order nucleoprotein complex assembly. The dimer subunits associate to form a compact globular core from which two beta ribbon arms (one from each subunit) protrude. The beta arms track and bind the DNA minor groove. Despite sequence and structural similarity, IHF and HU can be distinguished by their different DNA substrate preferences.
Probab=30.94 E-value=93 Score=21.14 Aligned_cols=48 Identities=13% Similarity=0.179 Sum_probs=24.3
Q ss_pred CCHHHHHHHHHHHHHHHHHHHhhccCccCCCCcceeecC-ceEEEEECCCcEEEEeCC
Q 036786 82 LQEDEFHRLANSTIHDLQEKFEEYGDTIQIDGFDVDYGN-EVLTLKLGALGTYVLNKQ 138 (158)
Q Consensus 82 mte~eF~~lAd~~L~~L~e~lE~~~d~~~~~d~Dve~s~-GVLTI~f~d~gtyVINKQ 138 (158)
++..+=....+.+++.|.+.|.+ |-.|.+.| |.+++.+-. ..-+.|.+
T Consensus 15 ~~~~~v~~vl~~~~~~i~~~L~~--------g~~V~l~~~G~F~~~~~~-~r~~~np~ 63 (87)
T cd00591 15 LSKKDAEAAVDAFLDVITEALAK--------GEKVELPGFGTFEVRERA-ARTGRNPK 63 (87)
T ss_pred cCHHHHHHHHHHHHHHHHHHHhC--------CCeEEEeCCEEEEEEEEC-CeeccCcC
Confidence 44545555555555555555554 22455544 666665543 23445544
No 46
>PF07116 DUF1372: Protein of unknown function (DUF1372); InterPro: IPR010779 This entry is represented by Streptococcus phage Sfi11, Gp93. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. This family consists of several Streptococcus bacteriophage sequences and related proteins from Streptococcus species. Members of this family are typically around 100 residues in length and their function is unknown.
Probab=30.02 E-value=59 Score=24.88 Aligned_cols=23 Identities=22% Similarity=0.521 Sum_probs=19.8
Q ss_pred eecCceEEEEECCCcEEEEeCCC
Q 036786 117 DYGNEVLTLKLGALGTYVLNKQT 139 (158)
Q Consensus 117 e~s~GVLTI~f~d~gtyVINKQ~ 139 (158)
+.-||.-||++.+.|+||++|..
T Consensus 66 ~~ig~~yTvti~~YGkFlVtkeq 88 (104)
T PF07116_consen 66 EIIGGLYTVTIGAYGKFLVTKEQ 88 (104)
T ss_pred eeECCEEEEEecCceEEEEehhh
Confidence 34589999999999999999864
No 47
>PF08848 DUF1818: Domain of unknown function (DUF1818); InterPro: IPR014947 This entry represents a small family of uncharacterised cyanobacterial proteins. ; PDB: 2IT9_A 2NVN_A.
Probab=29.98 E-value=72 Score=24.79 Aligned_cols=59 Identities=17% Similarity=0.318 Sum_probs=39.4
Q ss_pred CCCCCHHHHHHHHHHHHHHHHHHHhhccCc-cCCCCcceeecCceEEEEECC-----CcEEEEeCC
Q 036786 79 RSLLQEDEFHRLANSTIHDLQEKFEEYGDT-IQIDGFDVDYGNEVLTLKLGA-----LGTYVLNKQ 138 (158)
Q Consensus 79 ~s~mte~eF~~lAd~~L~~L~e~lE~~~d~-~~~~d~Dve~s~GVLTI~f~d-----~gtyVINKQ 138 (158)
..+||+.||..++ .+|..|.+.+..+.++ .+++.+.+|...+.+-+.++. .=.+|+|..
T Consensus 28 AiELT~~E~~~f~-~Ll~~L~~q~~~i~~eLM~EE~I~lE~E~~~~W~eleG~~~~~sLr~IL~~~ 92 (117)
T PF08848_consen 28 AIELTEAEFNDFC-RLLQQLAEQMQAIADELMDEESITLEAESDLWWMELEGYPHAWSLRLILNQG 92 (117)
T ss_dssp EEEE-HHHHHHHH-HHHHHHHHHHHCCHTTSSTTSEEEEEEEETTEEEEEEEETTEEEEEEEE-TC
T ss_pred heeecHHHHHHHH-HHHHHHHHHHHHHHHHhcchhhheeeeccccEEEEeccccCceEEEEEEcCC
Confidence 3458999999998 6777888888776554 223347788888888888863 124566554
No 48
>PRK14628 hypothetical protein; Provisional
Probab=29.72 E-value=87 Score=24.04 Aligned_cols=41 Identities=12% Similarity=0.145 Sum_probs=22.5
Q ss_pred HHHHHHHHHhhccCccCCCCcceeecCceEEEEECCCcEEE
Q 036786 94 TIHDLQEKFEEYGDTIQIDGFDVDYGNEVLTLKLGALGTYV 134 (158)
Q Consensus 94 ~L~~L~e~lE~~~d~~~~~d~Dve~s~GVLTI~f~d~gtyV 134 (158)
....+++..+++.++...-.++.+..||.+++++...++++
T Consensus 27 ~qq~mq~k~~elqe~l~~~~v~g~sggG~VkV~~nG~~ei~ 67 (118)
T PRK14628 27 MQEELQKKIQELEESFSQIEVEASVGGGAVRIVATCDRRVK 67 (118)
T ss_pred HHHHHHHHHHHHHHHHHceEEEEEecCceEEEEEEcCceEE
Confidence 33444444444332211123555667999999997655543
No 49
>PRK14621 hypothetical protein; Provisional
Probab=29.17 E-value=63 Score=24.51 Aligned_cols=46 Identities=4% Similarity=0.045 Sum_probs=25.6
Q ss_pred HHHHHHHHHHHHHHHHHHhhccCccCCCCcceeecCceEEEEECCCcEEE
Q 036786 85 DEFHRLANSTIHDLQEKFEEYGDTIQIDGFDVDYGNEVLTLKLGALGTYV 134 (158)
Q Consensus 85 ~eF~~lAd~~L~~L~e~lE~~~d~~~~~d~Dve~s~GVLTI~f~d~gtyV 134 (158)
.++.+.|.+.-..+++.=+++.+ ..++.+..||.++|++...++++
T Consensus 7 ~~mmkqaq~mQ~km~~~Q~eL~~----~~v~g~sGgG~VkV~~~G~~~i~ 52 (111)
T PRK14621 7 GDMMKQIQQAGEKMQDVQKQLEK----LVAHGEAGGGMVKASVNGKQKLL 52 (111)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHc----cEEEEEECCceEEEEEEcCceEE
Confidence 44555555543444433333321 23556667999999997665543
No 50
>KOG0710 consensus Molecular chaperone (small heat-shock protein Hsp26/Hsp42) [Posttranslational modification, protein turnover, chaperones]
Probab=28.45 E-value=28 Score=28.37 Aligned_cols=36 Identities=28% Similarity=0.453 Sum_probs=23.6
Q ss_pred CccCCCCcceeecCceEEEEECCCcEEEEeCCCCccee
Q 036786 107 DTIQIDGFDVDYGNEVLTLKLGALGTYVLNKQTPNRQI 144 (158)
Q Consensus 107 d~~~~~d~Dve~s~GVLTI~f~d~gtyVINKQ~PnkQI 144 (158)
++++.+.+-.++.+|||+|.++..+.+. +-+..+||
T Consensus 157 env~~d~ikA~~~nGVL~VvvpK~~~~~--~~~~v~~i 192 (196)
T KOG0710|consen 157 ENVDVDEIKAEMENGVLTVVVPKLEPLL--KKPKVRQI 192 (196)
T ss_pred ccccHHHHHHHhhCCeEEEEEecccccc--cCCcccee
Confidence 4444445667889999999998755544 44444444
No 51
>KOG0137 consensus Very-long-chain acyl-CoA dehydrogenase [Lipid transport and metabolism]
Probab=28.33 E-value=61 Score=31.65 Aligned_cols=27 Identities=33% Similarity=0.395 Sum_probs=21.0
Q ss_pred CceEEEEE-CCCcEEEEeCCCCcceeeeecCC
Q 036786 120 NEVLTLKL-GALGTYVLNKQTPNRQIWLSSPV 150 (158)
Q Consensus 120 ~GVLTI~f-~d~gtyVINKQ~PnkQIWLSSPi 150 (158)
+++-+-+. +|+++|++|.+- ||++.+.
T Consensus 209 s~~~~a~~s~dg~~y~LNG~K----iwisn~g 236 (634)
T KOG0137|consen 209 SGRTTATLSPDGKHYVLNGSK----IWISNGG 236 (634)
T ss_pred cceeeeeecCCCCeEEEcCee----EEEecCc
Confidence 45666665 579999999986 9999863
No 52
>cd06482 ACD_HspB10 Alpha crystallin domain (ACD) found in mammalian small heat shock protein (sHsp) HspB10, also known as sperm outer dense fiber protein (ODFP), and similar proteins. sHsps are molecular chaperones that suppress protein aggregation and protect against cell stress, and are generally active as large oligomers consisting of multiple subunits. Human (h) HspB10 occurs exclusively in the axoneme of sperm cells and may have a cytoskeletal role.
Probab=26.94 E-value=50 Score=23.72 Aligned_cols=22 Identities=14% Similarity=0.320 Sum_probs=14.7
Q ss_pred CccCCCCcceeec-CceEEEEEC
Q 036786 107 DTIQIDGFDVDYG-NEVLTLKLG 128 (158)
Q Consensus 107 d~~~~~d~Dve~s-~GVLTI~f~ 128 (158)
++++.+.+...|. ||||+|+.+
T Consensus 64 ~~Vd~d~i~A~~~~~~~l~i~~~ 86 (87)
T cd06482 64 PGVDEKDVTYSYGLGSVVKIETP 86 (87)
T ss_pred CCcChHHcEEEEcCCCEEEEeeC
Confidence 3444455677885 559999865
No 53
>smart00411 BHL bacterial (prokaryotic) histone like domain.
Probab=26.76 E-value=2.1e+02 Score=19.49 Aligned_cols=58 Identities=12% Similarity=0.161 Sum_probs=30.0
Q ss_pred CCCHHHHHHHHHHHHHHHHHHHhhccCccCCCCcceeecC-ceEEEEECCCcEEEEeCCCCcceeeeec
Q 036786 81 LLQEDEFHRLANSTIHDLQEKFEEYGDTIQIDGFDVDYGN-EVLTLKLGALGTYVLNKQTPNRQIWLSS 148 (158)
Q Consensus 81 ~mte~eF~~lAd~~L~~L~e~lE~~~d~~~~~d~Dve~s~-GVLTI~f~d~gtyVINKQ~PnkQIWLSS 148 (158)
.++..+=....+++++.|.+.|.+ |-.|.+.| |.+++..-. ...+.|.++ ...+++.+
T Consensus 15 ~~~~~~v~~vl~~l~~~i~~~L~~--------g~~V~i~g~G~F~~~~~~-~r~~~np~t-~e~~~i~~ 73 (90)
T smart00411 15 GLSKKDAKAAVDAFLEIITEALKK--------GEKVELRGFGTFEVRERK-AREGRNPKT-GEEIEIPA 73 (90)
T ss_pred CCCHHHHHHHHHHHHHHHHHHHhC--------CCeEEEeCcEEEEEEeec-CeeeeCCCC-CCEEEecC
Confidence 355556566666666666666665 22355544 555555532 334455442 33445543
No 54
>cd06463 p23_like Proteins containing this p23_like domain include p23 and its Saccharomyces cerevisiae (Sc) homolog Sba1. Both are co-chaperones for the heat shock protein (Hsp) 90. p23 binds Hsp90 and participates in the folding of a number of Hsp90 clients, including the progesterone receptor. p23 also has a passive chaperoning activity and in addition may participate in prostaglandin synthesis. Both p23 and Sba1p can regulate telomerase activity. This group includes domains similar to the C-terminal CHORD-SGT1 (CS) domain of suppressor of G2 allele of Skp1 (Sgt1). Sgt1 interacts with multiple protein complexes and has the features of a co-chaperone. Human (h) Sgt1 interacts with both Hsp70 and Hsp90, and has been shown to bind Hsp90 through its CS domain. Saccharomyces cerevisiae (Sc) Sgt1 is a subunit of both core kinetochore and SCF (Skp1-Cul1-F-box) ubiquitin ligase complexes. Sgt1 is required for pathogen resistance in plants. This group also includes the p23_like domains of
Probab=26.68 E-value=78 Score=20.38 Aligned_cols=27 Identities=19% Similarity=0.368 Sum_probs=21.4
Q ss_pred CCcceeecCceEEEEECC--CcEEEEeCC
Q 036786 112 DGFDVDYGNEVLTLKLGA--LGTYVLNKQ 138 (158)
Q Consensus 112 ~d~Dve~s~GVLTI~f~d--~gtyVINKQ 138 (158)
++++|++.++.|+|.+.+ ++.|+++-+
T Consensus 20 ~~~~v~~~~~~l~i~~~~~~~~~~~~~~~ 48 (84)
T cd06463 20 KDVKVEFTPKSLTVSVKGGGGKEYLLEGE 48 (84)
T ss_pred cceEEEEecCEEEEEeeCCCCCceEEeeE
Confidence 567889999999999875 477887765
No 55
>PRK14626 hypothetical protein; Provisional
Probab=26.45 E-value=72 Score=24.09 Aligned_cols=20 Identities=20% Similarity=0.360 Sum_probs=14.4
Q ss_pred cceeecCceEEEEECCCcEE
Q 036786 114 FDVDYGNEVLTLKLGALGTY 133 (158)
Q Consensus 114 ~Dve~s~GVLTI~f~d~gty 133 (158)
++.+..||.++|++...+.+
T Consensus 33 v~g~sggG~VkV~~nG~~ev 52 (110)
T PRK14626 33 IVVEVGGGMVKVVSNGLGEI 52 (110)
T ss_pred EEEEecCcEEEEEEECCccE
Confidence 45566799999999765543
No 56
>PRK14625 hypothetical protein; Provisional
Probab=26.30 E-value=80 Score=23.96 Aligned_cols=20 Identities=20% Similarity=0.270 Sum_probs=14.5
Q ss_pred cceeecCceEEEEECCCcEE
Q 036786 114 FDVDYGNEVLTLKLGALGTY 133 (158)
Q Consensus 114 ~Dve~s~GVLTI~f~d~gty 133 (158)
++.+..||.++|++...+++
T Consensus 30 v~g~sggG~VkV~~~G~~~v 49 (109)
T PRK14625 30 VEGTSGGGMVTVTLMGNGEL 49 (109)
T ss_pred EEEEECCCeEEEEEecCceE
Confidence 45566799999999655544
No 57
>PF10365 DUF2436: Domain of unknown function (DUF2436); InterPro: IPR018832 Gingipains R and K are endopeptidases with specificity for arginyl and lysyl bonds, respectively. Like other cysteine peptidases, they require reducing conditions for activity. They are maximally active at approximately neutral pH. Gingipains R and K are secreted by the bacterium Porphyromonas gingivalis (Bacteroides gingivalis). The bacterium is a major pathogen in periodontal disease, and the many ways in which the activities of the gingipains may contribute to the disease processes have been reviewed []. These enzymes are also involved in the hemagglutinating activity of the organisms. This entry represents a central region found in gingipain K peptidases, active on lysyl bonds; they belong to the MEROPS peptidase family C25 (gingipain family, clan CD).
Probab=25.48 E-value=95 Score=25.31 Aligned_cols=29 Identities=24% Similarity=0.539 Sum_probs=19.8
Q ss_pred CceEEEEECCCcE--E-EEeCCCCcceeeeecCC
Q 036786 120 NEVLTLKLGALGT--Y-VLNKQTPNRQIWLSSPV 150 (158)
Q Consensus 120 ~GVLTI~f~d~gt--y-VINKQ~PnkQIWLSSPi 150 (158)
+|--+|+.+. |+ | |+|.|+ ++.||++---
T Consensus 97 dG~~~i~IPa-G~YDy~I~~P~~-~~kiwIaGd~ 128 (161)
T PF10365_consen 97 DGEASIDIPA-GTYDYCIAAPQP-GGKIWIAGDG 128 (161)
T ss_pred cCceEEEecC-ceeEEEEecCCC-CCeEEEecCC
Confidence 5666777775 44 3 455555 9999998644
No 58
>PRK14629 hypothetical protein; Provisional
Probab=25.11 E-value=81 Score=23.54 Aligned_cols=44 Identities=11% Similarity=0.080 Sum_probs=23.9
Q ss_pred HHHHHHHHHHHHHHHHHhhccCccCCCCcceeecCceEEEEECCCcEE
Q 036786 86 EFHRLANSTIHDLQEKFEEYGDTIQIDGFDVDYGNEVLTLKLGALGTY 133 (158)
Q Consensus 86 eF~~lAd~~L~~L~e~lE~~~d~~~~~d~Dve~s~GVLTI~f~d~gty 133 (158)
+..+.|.+.-+.+++.=+++.+ -.++....||.+++++...+++
T Consensus 7 ~~mkqaq~mQ~km~~~Q~eL~~----~~veg~aggGlVkV~~nG~~~v 50 (99)
T PRK14629 7 DFLKNMSSFKDNIDNIKKEISQ----IVVCGRAGSDVVVVEMNGEFNV 50 (99)
T ss_pred HHHHHHHHHHHHHHHHHHHHhc----cEEEEEecCCEEEEEEEcCccE
Confidence 4445555544444443333321 1244556799999999654543
No 59
>cd06480 ACD_HspB8_like Alpha-crystallin domain (ACD) found in mammalian 21.6 KDa small heat shock protein (sHsp) HspB8, also denoted as Hsp22 in humans, and similar proteins. sHsps are molecular chaperones that suppress protein aggregation and protect against cell stress, and are generally active as large oligomers consisting of multiple subunits. A chaperone complex formed of HspB8 and Bag3 stimulates degradation of protein complexes by macroautophagy. HspB8 also forms complexes with Hsp27 (HspB1), MKBP (HspB2), HspB3, alphaB-crystallin (HspB5), Hsp20 (HspB6), and cvHsp (HspB7). These latter interactions may depend on phosphorylation of the respective partner sHsp. HspB8 may participate in the regulation of cell proliferation, cardiac hypertrophy, apoptosis, and carcinogenesis. Point mutations in HspB8 have been correlated with the development of several congenital neurological diseases, including Charcot Marie tooth disease and distal motor neuropathy type II.
Probab=25.07 E-value=64 Score=23.50 Aligned_cols=22 Identities=5% Similarity=-0.002 Sum_probs=14.8
Q ss_pred CccCCCCcceeec-CceEEEEEC
Q 036786 107 DTIQIDGFDVDYG-NEVLTLKLG 128 (158)
Q Consensus 107 d~~~~~d~Dve~s-~GVLTI~f~ 128 (158)
+.++...+...+. +|+|+|+.+
T Consensus 68 ~~Vd~~~v~s~l~~dGvL~IeaP 90 (91)
T cd06480 68 PEVDPVTVFASLSPEGLLIIEAP 90 (91)
T ss_pred CCCCchhEEEEeCCCCeEEEEcC
Confidence 3344444556676 999999876
No 60
>smart00555 GIT Helical motif in the GIT family of ADP-ribosylation factor GTPase-activating proteins. Helical motif in the GIT family of ADP-ribosylation factor GTPase-activating proteins, and in yeast Spa2p and Sph1p (CPP; unpublished results). In p95-APP1 the N-terminal GIT motif might be involved in binding PIX.
Probab=24.89 E-value=1.3e+02 Score=17.97 Aligned_cols=23 Identities=17% Similarity=0.416 Sum_probs=18.8
Q ss_pred CCCCHHHHHHHHHHHHHHHHHHH
Q 036786 80 SLLQEDEFHRLANSTIHDLQEKF 102 (158)
Q Consensus 80 s~mte~eF~~lAd~~L~~L~e~l 102 (158)
+.++..+|.+++.++++.|+...
T Consensus 6 ~~L~~~~F~~L~~Dv~~El~RR~ 28 (31)
T smart00555 6 ARLSDEQFQKLLTDLNDELKRRE 28 (31)
T ss_pred HhcCHHHHHHHHHHHHHHHHHhh
Confidence 34778999999999998887654
No 61
>PF08518 GIT_SHD: Spa2 homology domain (SHD) of GIT; InterPro: IPR013724 GIT proteins are signalling integrators with GTPase-activating function which may be involved in the organisation of the cytoskeletal matrix assembled at active zones (CAZ). The function of the CAZ might be to define sites of neurotransmitter release. Mutations in the Spa2 homology domain (SHD) domain of GIT1 described here interfere with the association of GIT1 with Piccolo, beta-PIX, and focal adhesion kinase [].
Probab=24.27 E-value=1.2e+02 Score=18.37 Aligned_cols=23 Identities=22% Similarity=0.392 Sum_probs=18.6
Q ss_pred CCCCHHHHHHHHHHHHHHHHHHH
Q 036786 80 SLLQEDEFHRLANSTIHDLQEKF 102 (158)
Q Consensus 80 s~mte~eF~~lAd~~L~~L~e~l 102 (158)
..|+..+|.+++-++++.+...-
T Consensus 6 ~~Ls~~~F~eL~~DV~~E~~RR~ 28 (31)
T PF08518_consen 6 ARLSNQRFEELATDVYDELDRRE 28 (31)
T ss_pred HhCCHHHHHHHHHHHHHHHHHhh
Confidence 35789999999999998887543
No 62
>PF06662 C5-epim_C: D-glucuronyl C5-epimerase C-terminus; InterPro: IPR010598 This entry consists of known or predicted D-glucuronyl C5-epimerases which share a common C-terminal region. Glucuronyl C5-epimerases catalyse the conversion of D-glucuronic acid (GlcUA) to L-iduronic acid (IdceA) units during the biosynthesis of glycosaminoglycans [].; GO: 0016857 racemase and epimerase activity, acting on carbohydrates and derivatives, 0006024 glycosaminoglycan biosynthetic process, 0016021 integral to membrane
Probab=24.02 E-value=1.2e+02 Score=25.09 Aligned_cols=48 Identities=19% Similarity=0.272 Sum_probs=27.4
Q ss_pred HHHHHHHHHHHHHHHHHHHhhccCccCCCCcceeecC-ceEEEEEC-CCcEEEEeCC
Q 036786 84 EDEFHRLANSTIHDLQEKFEEYGDTIQIDGFDVDYGN-EVLTLKLG-ALGTYVLNKQ 138 (158)
Q Consensus 84 e~eF~~lAd~~L~~L~e~lE~~~d~~~~~d~Dve~s~-GVLTI~f~-d~gtyVINKQ 138 (158)
+..|.+.|+.+|+...-..++ .|+=....+ ++-=.+.+ ..+.||+|.+
T Consensus 48 d~~Yl~aA~~al~~f~~~~~~-------GG~~~~~~~~~~wyeEYp~~p~s~VLNGf 97 (189)
T PF06662_consen 48 DEKYLDAAKKALNSFKVPVEE-------GGVLATFKNKYPWYEEYPTTPPSYVLNGF 97 (189)
T ss_pred CHHHHHHHHHHHHHhcChHhh-------CCeeEEecCCcEeEeecCCCCCCEEeehH
Confidence 457888888777776666655 121112222 44444444 4688898853
No 63
>COG0718 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=23.91 E-value=2e+02 Score=21.82 Aligned_cols=20 Identities=15% Similarity=0.273 Sum_probs=15.0
Q ss_pred cceeecCceEEEEECCCcEE
Q 036786 114 FDVDYGNEVLTLKLGALGTY 133 (158)
Q Consensus 114 ~Dve~s~GVLTI~f~d~gty 133 (158)
++-+..||.+||++...+..
T Consensus 33 v~g~aggGlVtV~~~G~~ev 52 (105)
T COG0718 33 VTGKAGGGLVTVTINGKGEV 52 (105)
T ss_pred EeeecCCcEEEEEEeCCCcE
Confidence 55667889999999765554
No 64
>PRK11198 LysM domain/BON superfamily protein; Provisional
Probab=23.47 E-value=1.6e+02 Score=22.81 Aligned_cols=29 Identities=17% Similarity=0.260 Sum_probs=19.0
Q ss_pred HHHHHHHhhccCccCCCCcceeecCceEEEE
Q 036786 96 HDLQEKFEEYGDTIQIDGFDVDYGNEVLTLK 126 (158)
Q Consensus 96 ~~L~e~lE~~~d~~~~~d~Dve~s~GVLTI~ 126 (158)
+.|...|.... .+..+++|+..+|++||.
T Consensus 29 ~~i~~~i~~~~--~~~~~i~V~v~~G~v~l~ 57 (147)
T PRK11198 29 DALKEHISKQG--LGDADVNVQVEDGKATVS 57 (147)
T ss_pred HHHHHHHHhcC--CCcCCceEEEeCCEEEEE
Confidence 44455555432 223567888899999998
No 65
>PF10387 DUF2442: Protein of unknown function (DUF2442); InterPro: IPR018841 Several proteins in this entry are annotated as being putative molybdopterin-guanine dinucleotide biosynthesis proteins, but this has not been confirmed. The function of these proteins is therefore not known. ; PDB: 2AUW_B 2X8N_A 3K8R_B.
Probab=23.08 E-value=1.3e+02 Score=20.46 Aligned_cols=26 Identities=12% Similarity=0.083 Sum_probs=20.4
Q ss_pred ceeecCc-eEEEEECCCcEEEEeCCCC
Q 036786 115 DVDYGNE-VLTLKLGALGTYVLNKQTP 140 (158)
Q Consensus 115 Dve~s~G-VLTI~f~d~gtyVINKQ~P 140 (158)
+|.+.++ .|.|+|.||.+.+++-.+=
T Consensus 3 ~V~~~~~~~L~v~f~dG~~~~~dl~~~ 29 (79)
T PF10387_consen 3 SVKPLDDYRLRVTFSDGETRIFDLSPL 29 (79)
T ss_dssp EEEEETTTEEEEEETTS-EEEEECCCS
T ss_pred EEEEcCCcEEEEEEcCCCEEEEEhHHh
Confidence 5677666 9999999999999987654
No 66
>PF06296 DUF1044: Protein of unknown function (DUF1044); InterPro: IPR009387 This entry consists of several hypothetical bacterial proteins of unknown function.
Probab=22.65 E-value=1e+02 Score=23.80 Aligned_cols=42 Identities=29% Similarity=0.321 Sum_probs=25.3
Q ss_pred HHHHHHHHHH---HHHHHHHHhhccCccCCCCcceeecCceEEEEECCC
Q 036786 85 DEFHRLANST---IHDLQEKFEEYGDTIQIDGFDVDYGNEVLTLKLGAL 130 (158)
Q Consensus 85 ~eF~~lAd~~---L~~L~e~lE~~~d~~~~~d~Dve~s~GVLTI~f~d~ 130 (158)
.+|+..|... =+.|.++++++.. ..+|.|+.|||..+.++..
T Consensus 7 ~~F~r~akk~~~sd~~L~~ai~el~~----G~~~adLGGgv~K~Ria~~ 51 (120)
T PF06296_consen 7 KWFKRWAKKEGLSDDDLCEAIEELEQ----GLIDADLGGGVRKKRIARK 51 (120)
T ss_pred HHHHHHHHHcCCCHHHHHHHHHHHHh----CCcccchhccEEEEEeccC
Confidence 3566665554 2233444444322 2367889999999999854
No 67
>COG4110 Uncharacterized protein involved in stress response [General function prediction only]
Probab=22.14 E-value=91 Score=26.08 Aligned_cols=29 Identities=14% Similarity=0.022 Sum_probs=24.8
Q ss_pred cceeecCceEEEEECCCcEEEEeCCCCcc
Q 036786 114 FDVDYGNEVLTLKLGALGTYVLNKQTPNR 142 (158)
Q Consensus 114 ~Dve~s~GVLTI~f~d~gtyVINKQ~Pnk 142 (158)
.+.+..+||+||+.|+.-.+++|-..|+.
T Consensus 125 ~~w~~~dGvvTik~P~~~~I~~qm~e~~~ 153 (200)
T COG4110 125 PSWDKTDGVVTIKVPDQPPIETQLTEGEN 153 (200)
T ss_pred cCccccCCEEEEecCCCCceEEEccCCcc
Confidence 45677899999999999999999887764
No 68
>PF15544 Toxin_66: Putative toxin 66
Probab=22.06 E-value=42 Score=28.94 Aligned_cols=14 Identities=57% Similarity=0.864 Sum_probs=11.8
Q ss_pred EECCCcEEEEeCCC
Q 036786 126 KLGALGTYVLNKQT 139 (158)
Q Consensus 126 ~f~d~gtyVINKQ~ 139 (158)
.++..||||||.|-
T Consensus 63 NLG~~GTY~INP~I 76 (273)
T PF15544_consen 63 NLGGDGTYVINPQI 76 (273)
T ss_pred ccCCCccEEECchh
Confidence 56788999999873
No 69
>cd08868 START_STARD1_3_like Cholesterol-binding START domain of mammalian STARD1, -3 and related proteins. This subfamily includes the steroidogenic acute regulatory protein (StAR)-related lipid transfer (START) domains of STARD1 (also known as StAR) and STARD3 (also known as metastatic lymph node 64/MLN64). The START domain family belongs to the SRPBCC (START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC) domain superfamily of proteins that bind hydrophobic ligands. SRPBCC domains have a deep hydrophobic ligand-binding pocket. This STARD1-like subfamily has a high affinity for cholesterol. STARD1/StAR can reduce macrophage lipid content and inflammatory status. It plays an essential role in steroidogenic tissues: transferring the steroid precursor, cholesterol, from the outer to the inner mitochondrial membrane, across the aqueous space. Mutations in the gene encoding STARD1/StAR can cause lipid congenital adrenal hyperplasia (CAH), an autosomal recessive disorder characterized by a steroid synth
Probab=21.74 E-value=1.4e+02 Score=23.66 Aligned_cols=21 Identities=10% Similarity=0.145 Sum_probs=19.1
Q ss_pred HHHHHHHHHHHHHHHHHHHhh
Q 036786 84 EDEFHRLANSTIHDLQEKFEE 104 (158)
Q Consensus 84 e~eF~~lAd~~L~~L~e~lE~ 104 (158)
+.||.++++++|+.+.+.+++
T Consensus 3 ~~~y~~~~~~~~~~~~~~~~~ 23 (208)
T cd08868 3 ELEYLKQGAEALARAWSILTD 23 (208)
T ss_pred HHHHHHHHHHHHHHHHHHhcC
Confidence 679999999999999999875
No 70
>KOG4792 consensus Crk family adapters [Signal transduction mechanisms]
Probab=21.46 E-value=81 Score=27.75 Aligned_cols=25 Identities=24% Similarity=0.571 Sum_probs=19.6
Q ss_pred cCceEEEEECC-CcEEEEeCCCCcce
Q 036786 119 GNEVLTLKLGA-LGTYVLNKQTPNRQ 143 (158)
Q Consensus 119 s~GVLTI~f~d-~gtyVINKQ~PnkQ 143 (158)
.+-||++.=.+ .+.||||+-+|+++
T Consensus 45 GdYvLsV~E~srVshYiIn~~~p~~~ 70 (293)
T KOG4792|consen 45 GDYVLSVSENSRVSHYIINSSPPSPA 70 (293)
T ss_pred CceEEEEecCcceeeeeecCCCCCcc
Confidence 35688887665 89999999888774
No 71
>PF07867 DUF1654: Protein of unknown function (DUF1654); InterPro: IPR012449 This entry is represented by Bacteriophage F116 (Pseudomonas phage F116), Orf28. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. This family consists of proteins from the Pseudomonadaceae.
Probab=21.35 E-value=1.6e+02 Score=21.05 Aligned_cols=30 Identities=13% Similarity=0.414 Sum_probs=19.8
Q ss_pred HHHHHHHHHHHhhccCccCCCCcceee-cCceEEEEE
Q 036786 92 NSTIHDLQEKFEEYGDTIQIDGFDVDY-GNEVLTLKL 127 (158)
Q Consensus 92 d~~L~~L~e~lE~~~d~~~~~d~Dve~-s~GVLTI~f 127 (158)
++.++.|.+.|++. +|+++++ .+|.++|.-
T Consensus 37 ~~~W~~vl~~i~Et------egv~v~~~dDGsv~i~W 67 (73)
T PF07867_consen 37 DEDWEQVLEEIAET------EGVEVTFNDDGSVRIRW 67 (73)
T ss_pred HHHHHHHHHHHhcC------CCeEEEEcCCCeEEEEE
Confidence 35566777777762 5677777 567777754
No 72
>PRK03762 hypothetical protein; Provisional
Probab=20.84 E-value=3.7e+02 Score=20.11 Aligned_cols=48 Identities=10% Similarity=0.210 Sum_probs=27.8
Q ss_pred CCHHHHHHHHHHHHHHHHHHHhhccCccCCCCcceeecCceEEEEECCCcEE
Q 036786 82 LQEDEFHRLANSTIHDLQEKFEEYGDTIQIDGFDVDYGNEVLTLKLGALGTY 133 (158)
Q Consensus 82 mte~eF~~lAd~~L~~L~e~lE~~~d~~~~~d~Dve~s~GVLTI~f~d~gty 133 (158)
|+-....+.+.+.-..+++.=+++.. ..++.+..||.+++++...+++
T Consensus 5 m~~~~m~kqaqkmQ~km~~~Q~el~~----~~v~g~sggGlVkV~~nG~~~i 52 (103)
T PRK03762 5 MDFSKLGEMLEQMQKKAKQLEEENAN----KEFTAKSGGGLVSVSANGKGEV 52 (103)
T ss_pred CCHHHHHHHHHHHHHHHHHHHHHHhc----cEEEEEEcCceEEEEEEcCceE
Confidence 55666666666544444433333221 2355666789999999755544
No 73
>PRK14624 hypothetical protein; Provisional
Probab=20.78 E-value=1e+02 Score=23.65 Aligned_cols=20 Identities=20% Similarity=0.185 Sum_probs=14.4
Q ss_pred cceeecCceEEEEECCCcEE
Q 036786 114 FDVDYGNEVLTLKLGALGTY 133 (158)
Q Consensus 114 ~Dve~s~GVLTI~f~d~gty 133 (158)
++.+..||.+++++...+++
T Consensus 34 v~g~sGgG~VkV~~nG~~~i 53 (115)
T PRK14624 34 VVGDAGAGMVTVTATGEGQI 53 (115)
T ss_pred EEEEECCcEEEEEEEcCccE
Confidence 55566799999998654443
No 74
>PF14943 MRP-S26: Mitochondrial ribosome subunit S26
Probab=20.36 E-value=69 Score=26.04 Aligned_cols=29 Identities=24% Similarity=0.252 Sum_probs=18.9
Q ss_pred HHHHHHHHHhhccCccCCCCcceeecCce
Q 036786 94 TIHDLQEKFEEYGDTIQIDGFDVDYGNEV 122 (158)
Q Consensus 94 ~L~~L~e~lE~~~d~~~~~d~Dve~s~GV 122 (158)
|.+.|.++||++.|+...-+|-||..|++
T Consensus 141 T~ENLd~~IeeALdnp~~YNfaID~~G~~ 169 (170)
T PF14943_consen 141 TRENLDAAIEEALDNPVDYNFAIDLEGNI 169 (170)
T ss_pred CHHhHHHHHHHHHcCCcccceeeCCCCCc
Confidence 35677777777766543345667777765
No 75
>PF05121 GvpK: Gas vesicle protein K ; InterPro: IPR007805 Gas vesicles are intracellular, protein-coated, and hollow organelles found in cyanobacteria and halophilic archaea. They are permeable to ambient gases by diffusion and provide buoyancy, enabling cells to move upwards in liquid to access oxygen and/or light. Proteins containing this domain are involved in the formation of gas vesicles [].; GO: 0031412 gas vesicle organization
Probab=20.28 E-value=85 Score=23.29 Aligned_cols=44 Identities=39% Similarity=0.585 Sum_probs=29.1
Q ss_pred CCCHHHHHHHHHHHHHHHHHHHhhccCccCCCCcceeecCceEEEEECCCcE
Q 036786 81 LLQEDEFHRLANSTIHDLQEKFEEYGDTIQIDGFDVDYGNEVLTLKLGALGT 132 (158)
Q Consensus 81 ~mte~eF~~lAd~~L~~L~e~lE~~~d~~~~~d~Dve~s~GVLTI~f~d~gt 132 (158)
.+++.+-..+.. +|..++++++++.+.. ++...-|++.++.-|+
T Consensus 41 ~Lse~qiErlG~-tLm~Le~~~~~l~~~~-------gl~~~dLn~dLgplG~ 84 (88)
T PF05121_consen 41 SLSEEQIERLGE-TLMKLEEAMEELCERF-------GLTPEDLNLDLGPLGT 84 (88)
T ss_pred CCCHHHHHHHHH-HHHHHHHHHHHHHHHc-------CCCHHHhccccccccc
Confidence 477888887775 8999999999976532 2222245555555444
No 76
>PF07131 DUF1382: Protein of unknown function (DUF1382); InterPro: IPR009814 This entry is represented by Bacteriophage lambda, Xis. This entry overlaps with IPR009750, both representing lambda Xis. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. This family consists of several hypothetical Escherichia coli and Bacteriophage lambda-like proteins of around 60 residues in length. The function of this family is unknown.
Probab=20.24 E-value=1.6e+02 Score=20.48 Aligned_cols=21 Identities=24% Similarity=0.490 Sum_probs=17.4
Q ss_pred CCHHHHHHHHHHHHHHHHHHH
Q 036786 82 LQEDEFHRLANSTIHDLQEKF 102 (158)
Q Consensus 82 mte~eF~~lAd~~L~~L~e~l 102 (158)
.++.|||.++......|+..-
T Consensus 32 ~~dee~~~L~s~~~~kLe~ma 52 (61)
T PF07131_consen 32 VTDEEFHTLSSQLSQKLERMA 52 (61)
T ss_pred ccHHHHHHHHHHHHHHHHHHH
Confidence 469999999999888887753
No 77
>PF11826 DUF3346: Protein of unknown function (DUF3346); InterPro: IPR021781 This family of proteins are functionally uncharacterised. This protein is found in bacteria. Proteins in this family are typically between 231 to 659 amino acids in length.
Probab=20.09 E-value=2.9e+02 Score=23.64 Aligned_cols=49 Identities=24% Similarity=0.321 Sum_probs=32.2
Q ss_pred HHHHHHHHHHHHHHHHHhhccCccCCCCcceeecCceEEEEE----CCCcEEEEeC
Q 036786 86 EFHRLANSTIHDLQEKFEEYGDTIQIDGFDVDYGNEVLTLKL----GALGTYVLNK 137 (158)
Q Consensus 86 eF~~lAd~~L~~L~e~lE~~~d~~~~~d~Dve~s~GVLTI~f----~d~gtyVINK 137 (158)
|.++..++++..|...-+.. ..++.+.|++-|--|||.. ...+.|+||-
T Consensus 121 ewrrfs~DLirEL~kl~~~~---~~e~~f~vNLwGYhlti~~~~~~~k~~dy~vdI 173 (225)
T PF11826_consen 121 EWRRFSMDLIRELRKLSEEK---TKEDAFSVNLWGYHLTISEECNDNKAPDYQVDI 173 (225)
T ss_pred hHHHhhHHHHHHHHHHhccc---CcCCeeEEEeeeeEEEEeeecccccccceEEEE
Confidence 55555555555554433332 2234588999999999999 4578888873
Done!