Query 046989
Match_columns 146
No_of_seqs 13 out of 15
Neff 2.2
Searched_HMMs 46136
Date Fri Mar 29 06:30:20 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/046989.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/046989hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF10414 CysG_dimeriser: Siroh 70.4 3.1 6.7E-05 26.9 1.6 19 23-41 25-45 (60)
2 PF14169 YdjO: Cold-inducible 61.3 4.1 8.8E-05 28.3 0.9 15 48-62 26-40 (59)
3 PF13911 AhpC-TSA_2: AhpC/TSA 49.0 13 0.00027 25.8 1.7 27 102-128 34-60 (115)
4 PF13311 DUF4080: Protein of u 33.9 39 0.00085 26.5 2.5 25 59-84 18-42 (190)
5 KOG0013 Uncharacterized conser 33.7 22 0.00049 30.5 1.2 17 18-34 41-57 (231)
6 PF00319 SRF-TF: SRF-type tran 33.5 44 0.00096 22.0 2.4 25 18-42 10-34 (51)
7 PF14403 CP_ATPgrasp_2: Circul 33.1 33 0.00071 31.3 2.3 48 95-144 379-426 (445)
8 COG0693 ThiJ Putative intracel 33.0 30 0.00064 25.7 1.7 41 2-42 69-109 (188)
9 cd02621 Peptidase_C1A_Cathepsi 27.6 26 0.00055 27.6 0.6 14 43-56 213-226 (243)
10 PF14198 TnpV: Transposon-enco 26.1 9.6 0.00021 28.4 -1.9 36 47-82 24-59 (111)
11 PF10123 Mu-like_Pro: Mu-like 25.6 1E+02 0.0022 25.9 3.8 54 68-124 266-321 (326)
12 cd03368 Ribosomal_S12 S12-like 25.4 32 0.00069 26.5 0.7 13 1-13 61-73 (108)
13 cd02620 Peptidase_C1A_Cathepsi 24.6 32 0.00069 27.2 0.6 12 43-54 209-220 (236)
14 CHL00051 rps12 ribosomal prote 23.9 34 0.00075 26.9 0.7 11 1-11 63-73 (123)
15 PF07120 DUF1376: Protein of u 23.5 51 0.0011 22.9 1.4 30 19-48 47-79 (88)
16 PF12845 TBD: TBD domain; Int 22.7 28 0.00061 23.9 0.0 10 76-85 7-16 (57)
17 TIGR00981 rpsL_bact ribosomal 21.9 40 0.00087 26.5 0.7 14 1-14 63-76 (124)
18 PF11943 DUF3460: Protein of u 21.8 48 0.001 23.2 1.0 23 16-38 20-42 (60)
19 cd00319 Ribosomal_S12_like Rib 21.6 41 0.00089 25.3 0.7 13 1-13 48-60 (95)
20 PF14122 YokU: YokU-like prote 21.2 19 0.0004 27.0 -1.2 15 74-88 10-24 (87)
21 PF06983 3-dmu-9_3-mt: 3-demet 20.6 48 0.001 24.0 0.8 26 26-58 86-111 (116)
22 COG2764 PhnB Uncharacterized p 20.4 82 0.0018 24.3 2.1 49 7-59 74-125 (136)
23 cd07261 Glo_EDI_BRP_like_11 Th 20.1 1E+02 0.0023 20.0 2.3 52 6-59 58-109 (114)
24 COG4110 Uncharacterized protei 20.1 65 0.0014 27.2 1.6 31 108-144 59-89 (200)
No 1
>PF10414 CysG_dimeriser: Sirohaem synthase dimerisation region; InterPro: IPR019478 Bacterial sulphur metabolism depends on the iron-containing porphinoid sirohaem. CysG is a multi-functional enzyme with S-adenosyl-L-methionine (SAM)-dependent bismethyltransferase, dehydrogenase and ferrochelatase activities. CysG synthesizes sirohaem from uroporphyrinogen III via reactions which encompass two branchpoint intermediates in tetrapyrrole biosynthesis, diverting flux first from protoporphyrin IX biosynthesis and then from cobalamin (vitamin B12) biosynthesis. CysG is a dimer. Its dimerisation region is 74 residues long, and acts to hold the two structurally similar protomers held together asymmetrically through a number of salt-bridges across complementary residues within the dimerisation region []. CysG dimerisation produces a series of active sites, accounting for CysG's multi-functionality, catalysing four diverse reactions: Two SAM-dependent methylations NAD+-dependent tetrapyrrole dehydrogenation Metal chelation ; GO: 0006779 porphyrin-containing compound biosynthetic process, 0055114 oxidation-reduction process; PDB: 1PJT_A 1PJS_A 1PJQ_A.
Probab=70.40 E-value=3.1 Score=26.94 Aligned_cols=19 Identities=37% Similarity=0.733 Sum_probs=12.9
Q ss_pred HHHHHHHHHhhc--hhhhccC
Q 046989 23 AKRKKFWEKAVD--IEERCGV 41 (146)
Q Consensus 23 ~~Rkk~WEkAvd--i~elCg~ 41 (146)
.+|+.|||+.+| +.+++-.
T Consensus 25 ~~RR~FWe~~~~g~~~~~~~~ 45 (60)
T PF10414_consen 25 AERRRFWERFFDGPFAELVLA 45 (60)
T ss_dssp HHHHHHHHHHT-HHHHHHHHT
T ss_pred hHHHHHHHHHHcCHHHHHHHC
Confidence 478999999994 4444433
No 2
>PF14169 YdjO: Cold-inducible protein YdjO
Probab=61.32 E-value=4.1 Score=28.28 Aligned_cols=15 Identities=33% Similarity=0.585 Sum_probs=11.3
Q ss_pred cceeeccCCCCCCCc
Q 046989 48 VKEEMRGNFNHSNKP 62 (146)
Q Consensus 48 vrG~mRDnFnhsn~~ 62 (146)
-.|+|||||--...|
T Consensus 26 C~gWmR~nFs~~~~p 40 (59)
T PF14169_consen 26 CNGWMRDNFSFEEEP 40 (59)
T ss_pred CCcccccccccCCCc
Confidence 589999999755443
No 3
>PF13911 AhpC-TSA_2: AhpC/TSA antioxidant enzyme
Probab=49.01 E-value=13 Score=25.75 Aligned_cols=27 Identities=22% Similarity=0.198 Sum_probs=21.3
Q ss_pred CCCCCCcccccchhhHHHhhccccccc
Q 046989 102 ARVCSPILEDGRNGLFQRLRLARLETS 128 (146)
Q Consensus 102 ARt~~Pi~~dg~~~lF~~lGL~~l~~~ 128 (146)
..-+-||+-|.+..||+.|||.+.-.+
T Consensus 34 ~~~p~~ly~D~~~~lY~~lg~~~~~~~ 60 (115)
T PF13911_consen 34 TGFPFPLYVDPERKLYKALGLKRGLKW 60 (115)
T ss_pred cCCCCcEEEeCcHHHHHHhCCcccccc
Confidence 344567889999999999999984443
No 4
>PF13311 DUF4080: Protein of unknown function (DUF4080)
Probab=33.86 E-value=39 Score=26.53 Aligned_cols=25 Identities=28% Similarity=0.426 Sum_probs=20.2
Q ss_pred CCCccchHhhhhhhhHHHHHHHHhhc
Q 046989 59 SNKPISYAEHFRNSQFVESILDVYRE 84 (146)
Q Consensus 59 sn~~Is~~~Hf~N~r~veSiLd~YWE 84 (146)
+|.-|||.| ++--+-||.|||.||.
T Consensus 18 ~t~~Ls~~e-i~~Lk~~e~~le~yyN 42 (190)
T PF13311_consen 18 STKWLSFDE-IQRLKRFEDMLEKYYN 42 (190)
T ss_pred eCCCCCHHH-HHHHHHHHHHHHHHhh
Confidence 567789887 5567779999999996
No 5
>KOG0013 consensus Uncharacterized conserved protein [Function unknown]
Probab=33.69 E-value=22 Score=30.55 Aligned_cols=17 Identities=35% Similarity=0.896 Sum_probs=14.2
Q ss_pred HHHHHHHHHHHHHHhhc
Q 046989 18 EARIRAKRKKFWEKAVD 34 (146)
Q Consensus 18 EAr~R~~Rkk~WEkAvd 34 (146)
+-.+|+||..|||-|--
T Consensus 41 ~gqlrskRdEFWdTapA 57 (231)
T KOG0013|consen 41 KGQLRSKRDEFWDTAPA 57 (231)
T ss_pred hhhhhhhhhhhhhcccc
Confidence 56799999999998754
No 6
>PF00319 SRF-TF: SRF-type transcription factor (DNA-binding and dimerisation domain); InterPro: IPR002100 Human serum response factor (SRF) is a ubiquitous nuclear protein important for cell proliferation and differentiation. SRF function is essential for transcriptional regulation of numerous growth-factor-inducible genes, such as c-fos oncogene and muscle-specific actin genes. A core domain of around 90 amino acids is sufficient for the activities of DNA-binding, dimerisation and interaction with accessory factors. Within the core is a DNA-binding region, designated the MADS box [], that is highly similar to many eukaryotic regulatory proteins: among these are MCM1, the regulator of cell type-specific genes in fission yeast; DSRF, a Drosophila trachea development factor; the MEF2 family of myocyte-specific enhancer factors; and the Agamous and Deficiens families of plant homeotic proteins. In SRF, the MADS box has been shown to be involved in DNA-binding and dimerisation []. Proteins belonging to the MADS family function as dimers, the primary DNA-binding element of which is an anti-parallel coiled coil of two amphipathic alpha-helices, one from each subunit. The DNA wraps around the coiled coil allowing the basic N-termini of the helices to fit into the DNA major groove. The chain extending from the helix N-termini reaches over the DNA backbone and penetrates into the minor groove. A 4-stranded, anti-parallel beta-sheet packs against the coiled-coil face opposite the DNA and is the central element of the dimerisation interface. The MADS-box domain is commonly found associated with K-box region see IPR002487 from INTERPRO ; GO: 0003677 DNA binding, 0046983 protein dimerization activity; PDB: 1MNM_B 1N6J_A 1TQE_S 3MU6_D 3P57_I 1EGW_A 1C7U_B 3KOV_A 1HBX_A 1K6O_C ....
Probab=33.52 E-value=44 Score=22.02 Aligned_cols=25 Identities=24% Similarity=0.606 Sum_probs=18.9
Q ss_pred HHHHHHHHHHHHHHhhchhhhccCC
Q 046989 18 EARIRAKRKKFWEKAVDIEERCGVG 42 (146)
Q Consensus 18 EAr~R~~Rkk~WEkAvdi~elCg~~ 42 (146)
.+--+.+|+....||-+++-||+..
T Consensus 10 ~~tf~KRk~gL~KKa~ELs~LC~~~ 34 (51)
T PF00319_consen 10 KVTFSKRKKGLFKKASELSTLCGVD 34 (51)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHT-E
T ss_pred HhHHHHHHhhhhhccceeeeecCCe
Confidence 3344566778899999999999864
No 7
>PF14403 CP_ATPgrasp_2: Circularly permuted ATP-grasp type 2
Probab=33.11 E-value=33 Score=31.30 Aligned_cols=48 Identities=21% Similarity=0.292 Sum_probs=37.7
Q ss_pred cccccCCCCCCCCcccccchhhHHHhhccccccccccceeeEEEEEeccC
Q 046989 95 HQTRFDPARVCSPILEDGRNGLFQRLRLARLETSVFNGYTQMVYLQISEQ 144 (146)
Q Consensus 95 ~QtryDPARt~~Pi~~dg~~~lF~~lGL~~l~~~vFn~YtQM~Y~~i~~~ 144 (146)
-|.++.|.|+.-|.+.||+.. |..... .+.+.+||+=.+=+|.||+..
T Consensus 379 lQe~v~~~~~~~~~~~dg~~~-~~~~~~-~~g~fly~~~~~G~~tR~g~~ 426 (445)
T PF14403_consen 379 LQEYVRPPREPMPAFEDGEVV-FEEYPY-DSGPFLYGGKFAGCYTRLGTG 426 (445)
T ss_pred EEEEecCCccccccccCCcee-Eeeeee-eccceeECCEEEEEEEEeccC
Confidence 699999999999999888853 333332 344599999999999999754
No 8
>COG0693 ThiJ Putative intracellular protease/amidase [General function prediction only]
Probab=33.04 E-value=30 Score=25.65 Aligned_cols=41 Identities=15% Similarity=0.203 Sum_probs=34.0
Q ss_pred ceeeCCCCCcCCCCcHHHHHHHHHHHHHHHhhchhhhccCC
Q 046989 2 IHFYPSGGHSCLRDSDEARIRAKRKKFWEKAVDIEERCGVG 42 (146)
Q Consensus 2 ~~~~~GGGHsC~~~S~EAr~R~~Rkk~WEkAvdi~elCg~~ 42 (146)
+-+||||-|.+-..-....+...-|+|.++.--|.-+|...
T Consensus 69 al~ipGG~~~~~~~~~~~~~~~~v~~~~~~~k~vaaIC~g~ 109 (188)
T COG0693 69 ALVIPGGDHGPEYLRPDPDLLAFVRDFYANGKPVAAICHGP 109 (188)
T ss_pred EEEECCCccchhhccCcHHHHHHHHHHHHcCCEEEEEChhH
Confidence 34789998999888776777788889999999999999764
No 9
>cd02621 Peptidase_C1A_CathepsinC Cathepsin C; also known as Dipeptidyl Peptidase I (DPPI), an atypical papain-like cysteine peptidase with chloride dependency and dipeptidyl aminopeptidase activity, resulting from its tetrameric structure which limits substrate access. Each subunit of the tetramer is composed of three peptides: the heavy and light chains, which together adopts the papain fold and forms the catalytic domain; and the residual propeptide region, which forms a beta barrel and points towards the substrate's N-terminus. The subunit composition is the result of the unique characteristic of procathepsin C maturation involving the cleavage of the catalytic domain and the non-autocatalytic excision of an activation peptide within its propeptide region. By removing N-terminal dipeptide extensions, cathepsin C activates granule serine peptidases (granzymes) involved in cell-mediated apoptosis, inflammation and tissue remodelling. Loss-of-function mutations in cathepsin C are assoc
Probab=27.55 E-value=26 Score=27.57 Aligned_cols=14 Identities=21% Similarity=0.397 Sum_probs=10.3
Q ss_pred CcccccceeeccCC
Q 046989 43 ETGWGVKEEMRGNF 56 (146)
Q Consensus 43 ~~WWGvrG~mRDnF 56 (146)
|+.||-+|+||=-.
T Consensus 213 G~~WGe~Gy~~i~~ 226 (243)
T cd02621 213 GSSWGEKGYFKIRR 226 (243)
T ss_pred CCCCCcCCeEEEec
Confidence 35699999997543
No 10
>PF14198 TnpV: Transposon-encoded protein TnpV
Probab=26.10 E-value=9.6 Score=28.37 Aligned_cols=36 Identities=22% Similarity=0.411 Sum_probs=32.4
Q ss_pred ccceeeccCCCCCCCccchHhhhhhhhHHHHHHHHh
Q 046989 47 GVKEEMRGNFNHSNKPISYAEHFRNSQFVESILDVY 82 (146)
Q Consensus 47 GvrG~mRDnFnhsn~~Is~~~Hf~N~r~veSiLd~Y 82 (146)
|.-|.||.+|=+.|+|+-|..-+-++++.+-+.++-
T Consensus 24 GkyG~~~~~yLke~~p~~Y~~ll~~g~L~~~l~eid 59 (111)
T PF14198_consen 24 GKYGRMRKRYLKEHKPILYNNLLLSGKLNEHLAEID 59 (111)
T ss_pred cHHHHHHHHHHHHhHHHHHHHHHHcchHHHHHHHHH
Confidence 788999999999999999999999999988777654
No 11
>PF10123 Mu-like_Pro: Mu-like prophage I protein; InterPro: IPR012106 This entry is represented by the Bacteriophage Mu, Gp32. The characteristics of the protein distribution suggest prophage matches.
Probab=25.64 E-value=1e+02 Score=25.91 Aligned_cols=54 Identities=15% Similarity=0.183 Sum_probs=40.7
Q ss_pred hhhhhhHHHHHHHHhhcCCCCCCCCCccccccCCCC--CCCCcccccchhhHHHhhccc
Q 046989 68 HFRNSQFVESILDVYRELPPVSGPSLTHQTRFDPAR--VCSPILEDGRNGLFQRLRLAR 124 (146)
Q Consensus 68 Hf~N~r~veSiLd~YWElPPvA~PsLT~QtryDPAR--t~~Pi~~dg~~~lF~~lGL~~ 124 (146)
+-+|..-++.+|+. +||++.++.+.-+.-.|.- ...+-|.+.+..+.+.||++.
T Consensus 266 ~~~d~~a~~~~l~~---~p~iaa~~~~~~~~~~~~~~~~~~~~Lt~ee~av~~~lGis~ 321 (326)
T PF10123_consen 266 AKQDPAAFKAFLAA---APPIAALSGLQTGGAKPPGPADGSAALTAEELAVCRQLGISP 321 (326)
T ss_pred HhcCHHHHHHHHHh---CCccccCccccccccCCCCCCCCCCCCCHHHHHHHHHcCCCH
Confidence 45677888999986 8999988877664554443 344458899999999999963
No 12
>cd03368 Ribosomal_S12 S12-like family, 30S ribosomal protein S12 subfamily; S12 is located at the interface of the large and small ribosomal subunits of prokaryotes, chloroplasts and mitochondria, where it plays an important role in both tRNA and ribosomal subunit interactions. S12 is essential for maintenance of a pretranslocation state and, together with S13, functions as a control element for the rRNA- and tRNA-driven movements of translocation. Antibiotics such as streptomycin bind S12 and cause the ribosome to misread the genetic code.
Probab=25.38 E-value=32 Score=26.51 Aligned_cols=13 Identities=23% Similarity=0.575 Sum_probs=10.5
Q ss_pred CceeeCCCCCcCC
Q 046989 1 LIHFYPSGGHSCL 13 (146)
Q Consensus 1 ~~~~~~GGGHsC~ 13 (146)
+++||||-||+=.
T Consensus 61 v~AyIPG~Ghnlq 73 (108)
T cd03368 61 VTAYIPGEGHNLQ 73 (108)
T ss_pred EEEEcCCCCCCcc
Confidence 3699999999754
No 13
>cd02620 Peptidase_C1A_CathepsinB Cathepsin B group; composed of cathepsin B and similar proteins, including tubulointerstitial nephritis antigen (TIN-Ag). Cathepsin B is a lysosomal papain-like cysteine peptidase which is expressed in all tissues and functions primarily as an exopeptidase through its carboxydipeptidyl activity. Together with other cathepsins, it is involved in the degradation of proteins, proenzyme activation, Ag processing, metabolism and apoptosis. Cathepsin B has been implicated in a number of human diseases such as cancer, rheumatoid arthritis, osteoporosis and Alzheimer's disease. The unique carboxydipeptidyl activity of cathepsin B is attributed to the presence of an occluding loop in its active site which favors the binding of the C-termini of substrate proteins. Some members of this group do not possess the occluding loop. TIN-Ag is an extracellular matrix basement protein which was originally identified as a target Ag involved in anti-tubular basement membrane
Probab=24.60 E-value=32 Score=27.16 Aligned_cols=12 Identities=33% Similarity=0.551 Sum_probs=9.4
Q ss_pred Ccccccceeecc
Q 046989 43 ETGWGVKEEMRG 54 (146)
Q Consensus 43 ~~WWGvrG~mRD 54 (146)
|+.||-.|+||=
T Consensus 209 G~~WGe~Gy~ri 220 (236)
T cd02620 209 GTDWGENGYFRI 220 (236)
T ss_pred CCCCCCCcEEEE
Confidence 456999999863
No 14
>CHL00051 rps12 ribosomal protein S12
Probab=23.90 E-value=34 Score=26.86 Aligned_cols=11 Identities=27% Similarity=0.691 Sum_probs=9.4
Q ss_pred CceeeCCCCCc
Q 046989 1 LIHFYPSGGHS 11 (146)
Q Consensus 1 ~~~~~~GGGHs 11 (146)
+++||||-||+
T Consensus 63 v~AyIPGeGhn 73 (123)
T CHL00051 63 ITAYIPGIGHN 73 (123)
T ss_pred EEEEcCCCCcc
Confidence 47999999994
No 15
>PF07120 DUF1376: Protein of unknown function (DUF1376); InterPro: IPR010781 This entry is represented by Bacteriophage PBC5 (Sinorhizobium phage PBC5), Orf49. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. This family consists of several hypothetical bacterial proteins of around 95 residues in length. The function of this family is unknown.
Probab=23.52 E-value=51 Score=22.90 Aligned_cols=30 Identities=33% Similarity=0.377 Sum_probs=21.9
Q ss_pred HHHHHHHHHHHHHhhch--hhh-ccCCCccccc
Q 046989 19 ARIRAKRKKFWEKAVDI--EER-CGVGETGWGV 48 (146)
Q Consensus 19 Ar~R~~Rkk~WEkAvdi--~el-Cg~~~~WWGv 48 (146)
||+=.-+.+.|++|++. ++. +-.+|.||=-
T Consensus 47 ar~~~~s~~~~~~a~~~ll~~f~~~~dg~~~~~ 79 (88)
T PF07120_consen 47 ARICGCSTKEWRKALDFLLREFFRLEDGRWWNK 79 (88)
T ss_pred HHHHCcCHHHHHHHHHHHHHhCCCCCCCCEehH
Confidence 55556678899999984 444 7788888843
No 16
>PF12845 TBD: TBD domain; InterPro: IPR024581 The Tbk1/Ikki binding domain (TBD) is a 40 amino acid domain able to bind kinases which is essential for poly(I:C)-induced IRF activation []. The domain is found in the SINTBAD, TANK and NAP1 proteins. This domain is predicted to form an alpha-helix with residues essential for kinase binding clustering on one side [].; PDB: 1KZZ_B 1L0A_B.
Probab=22.72 E-value=28 Score=23.91 Aligned_cols=10 Identities=30% Similarity=0.338 Sum_probs=0.0
Q ss_pred HHHHHHhhcC
Q 046989 76 ESILDVYREL 85 (146)
Q Consensus 76 eSiLd~YWEl 85 (146)
+.|..+||||
T Consensus 7 ~nl~~ay~EL 16 (57)
T PF12845_consen 7 VNLQLAYWEL 16 (57)
T ss_dssp ----------
T ss_pred HHHHHHHHHH
Confidence 3577899998
No 17
>TIGR00981 rpsL_bact ribosomal protein S12, bacterial/organelle. This model recognizes ribosomal protein S12 of Bacteria, mitochondria, and chloroplasts. The homologous ribosomal proteins of Archaea and Eukarya, termed S23 in Eukarya and S12 or S23 in Archaea, score below the trusted cutoff.
Probab=21.94 E-value=40 Score=26.53 Aligned_cols=14 Identities=21% Similarity=0.543 Sum_probs=10.8
Q ss_pred CceeeCCCCCcCCC
Q 046989 1 LIHFYPSGGHSCLR 14 (146)
Q Consensus 1 ~~~~~~GGGHsC~~ 14 (146)
+++||||-||+=..
T Consensus 63 v~AyIPG~Ghnlqe 76 (124)
T TIGR00981 63 VTAYIPGEGHNLQE 76 (124)
T ss_pred EEEEcCCCCCCccc
Confidence 36999999997543
No 18
>PF11943 DUF3460: Protein of unknown function (DUF3460); InterPro: IPR021853 This family of proteins are functionally uncharacterised. This protein is found in bacteria. Proteins in this family are about 70 amino acids in length. This protein has a conserved WDK sequence motif.
Probab=21.82 E-value=48 Score=23.15 Aligned_cols=23 Identities=39% Similarity=0.632 Sum_probs=19.8
Q ss_pred cHHHHHHHHHHHHHHHhhchhhh
Q 046989 16 SDEARIRAKRKKFWEKAVDIEER 38 (146)
Q Consensus 16 S~EAr~R~~Rkk~WEkAvdi~el 38 (146)
.-|++-|.-|.-.|+|.+|.++.
T Consensus 20 ele~~Q~~GRallWDk~~d~e~~ 42 (60)
T PF11943_consen 20 ELEEEQRAGRALLWDKPQDLEEQ 42 (60)
T ss_pred chHHHHHHhhHHhcCCCCCHHHH
Confidence 35788899999999999998875
No 19
>cd00319 Ribosomal_S12_like Ribosomal protein S12-like family; composed of prokaryotic 30S ribosomal protein S12, eukaryotic 40S ribosomal protein S23 and similar proteins. S12 and S23 are located at the interface of the large and small ribosomal subunits, adjacent to the decoding center. They play an important role in translocation during the peptide elongation step of protein synthesis. They are also involved in important RNA and protein interactions. Ribosomal protein S12 is essential for maintenance of a pretranslocation state and, together with S13, functions as a control element for the rRNA- and tRNA-driven movements of translocation. S23 interacts with domain III of the eukaryotic elongation factor 2 (eEF2), which catalyzes translocation. Mutations in S12 and S23 have been found to affect translational accuracy. Antibiotics such as streptomycin may also bind S12/S23 and cause the ribosome to misread the genetic code.
Probab=21.60 E-value=41 Score=25.33 Aligned_cols=13 Identities=23% Similarity=0.575 Sum_probs=10.3
Q ss_pred CceeeCCCCCcCC
Q 046989 1 LIHFYPSGGHSCL 13 (146)
Q Consensus 1 ~~~~~~GGGHsC~ 13 (146)
+++||||=||+=.
T Consensus 48 v~ayIPg~Gh~lq 60 (95)
T cd00319 48 VTAYIPGEGHNLQ 60 (95)
T ss_pred EEEECCCCCcccc
Confidence 3689999998743
No 20
>PF14122 YokU: YokU-like protein
Probab=21.23 E-value=19 Score=26.98 Aligned_cols=15 Identities=47% Similarity=0.412 Sum_probs=11.3
Q ss_pred HHHHHHHHhhcCCCC
Q 046989 74 FVESILDVYRELPPV 88 (146)
Q Consensus 74 ~veSiLd~YWElPPv 88 (146)
.+++--.+|||||--
T Consensus 10 a~~~~~tvyWeLpdG 24 (87)
T PF14122_consen 10 ASESESTVYWELPDG 24 (87)
T ss_pred cccccceEEEEcCCC
Confidence 456667899999964
No 21
>PF06983 3-dmu-9_3-mt: 3-demethylubiquinone-9 3-methyltransferase; PDB: 1U7I_A 1TSJ_A 1U69_D 3L20_B 3OMS_A.
Probab=20.62 E-value=48 Score=23.99 Aligned_cols=26 Identities=12% Similarity=0.194 Sum_probs=17.9
Q ss_pred HHHHHHhhchhhhccCCCcccccceeeccCCCC
Q 046989 26 KKFWEKAVDIEERCGVGETGWGVKEEMRGNFNH 58 (146)
Q Consensus 26 kk~WEkAvdi~elCg~~~~WWGvrG~mRDnFnh 58 (146)
++.|+|-. - +|.||+--|...|.|+=
T Consensus 86 ~~~f~~Ls------~-gG~~~~~~G~v~DkFGv 111 (116)
T PF06983_consen 86 DRIFDKLS------E-GGQWFSRYGWVTDKFGV 111 (116)
T ss_dssp HHHHHHHH------T-TTETCCEEEEEE-TTS-
T ss_pred HHHHHHHH------c-CCCccceeEEEEeCCCC
Confidence 46787743 3 34499999999999973
No 22
>COG2764 PhnB Uncharacterized protein conserved in bacteria [Function unknown]
Probab=20.43 E-value=82 Score=24.31 Aligned_cols=49 Identities=20% Similarity=0.254 Sum_probs=32.2
Q ss_pred CCCCcCCCCcHHHHHHHHHHHHHHHhhchh--hhccCCCcccccc-eeeccCCCCC
Q 046989 7 SGGHSCLRDSDEARIRAKRKKFWEKAVDIE--ERCGVGETGWGVK-EEMRGNFNHS 59 (146)
Q Consensus 7 GGGHsC~~~S~EAr~R~~Rkk~WEkAvdi~--elCg~~~~WWGvr-G~mRDnFnhs 59 (146)
|+|=+++.+.+.-. =+..|+||++-- ..=-...+-||-| |+.+|.|+|.
T Consensus 74 ~~~~s~~l~~~~~d----~da~f~~a~~aGa~v~mpl~~~fwG~r~G~v~D~fGv~ 125 (136)
T COG2764 74 GGGTSLSLDLYVED----VDAVFERAAAAGATVVMPLEDTFWGDRYGQVTDPFGVV 125 (136)
T ss_pred CCCeeEEEEEEehH----HHHHHHHHHhcCCeEEecchhcCcccceEEEECCCCCE
Confidence 55566665554333 356899998864 2222356788865 8999999985
No 23
>cd07261 Glo_EDI_BRP_like_11 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases. This protein family belongs to a conserved domain superfamily that is found in a variety of structurally related metalloproteins, including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases. A bound metal ion is required for protein activities for the members of this superfamily. A variety of metal ions have been found in the catalytic centers of these proteins including Fe(II), Mn(II), Zn(II), Ni(II) and Mg(II). The protein superfamily contains members with or without domain swapping.
Probab=20.10 E-value=1e+02 Score=19.99 Aligned_cols=52 Identities=19% Similarity=0.147 Sum_probs=30.1
Q ss_pred CCCCCcCCCCcHHHHHHHHHHHHHHHhhchhhhccCCCcccccceeeccCCCCC
Q 046989 6 PSGGHSCLRDSDEARIRAKRKKFWEKAVDIEERCGVGETGWGVKEEMRGNFNHS 59 (146)
Q Consensus 6 ~GGGHsC~~~S~EAr~R~~Rkk~WEkAvdi~elCg~~~~WWGvrG~mRDnFnhs 59 (146)
+|+.|-|+.-.+...+....++.=++.+++.. .+...-||-..+++|-.+|.
T Consensus 58 ~~~~~~~~~v~~~~~~~~~~~~~~~~g~~v~~--~~~~~~~g~~~~~~DPdGn~ 109 (114)
T cd07261 58 GGGSELAFMVDDGAAVDALYAEWQAKGVKIIQ--EPTEMDFGYTFVALDPDGHR 109 (114)
T ss_pred CCceEEEEEcCCHHHHHHHHHHHHHCCCeEec--CccccCCccEEEEECCCCCE
Confidence 36678888665422233333333344455443 34455788888999988774
No 24
>COG4110 Uncharacterized protein involved in stress response [General function prediction only]
Probab=20.09 E-value=65 Score=27.19 Aligned_cols=31 Identities=32% Similarity=0.622 Sum_probs=27.3
Q ss_pred cccccchhhHHHhhccccccccccceeeEEEEEeccC
Q 046989 108 ILEDGRNGLFQRLRLARLETSVFNGYTQMVYLQISEQ 144 (146)
Q Consensus 108 i~~dg~~~lF~~lGL~~l~~~vFn~YtQM~Y~~i~~~ 144 (146)
.|.||.+++-|.|| +.|..|----|++|++.
T Consensus 59 ~LnDGskGviQALG------N~FGSy~~~Pyi~LdgD 89 (200)
T COG4110 59 ELNDGSKGVIQALG------NAFGSYRDEPYVQLDGD 89 (200)
T ss_pred EecCCchHHHHHHh------hhhcccccCceEEecCC
Confidence 36799999999999 68999999999999764
Done!