Query 047344
Match_columns 80
No_of_seqs 123 out of 438
Neff 5.0
Searched_HMMs 46136
Date Fri Mar 29 10:12:49 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/047344.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/047344hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 TIGR01310 L7 60S ribosomal pro 100.0 3.3E-30 7.2E-35 189.9 8.2 71 4-74 75-150 (235)
2 TIGR01309 L30P_arch 50S riboso 99.9 3.2E-27 7E-32 164.7 6.8 67 4-70 1-72 (152)
3 cd01657 Ribosomal_L7_archeal_e 99.9 2E-26 4.4E-31 161.0 7.6 71 4-74 2-77 (159)
4 PRK06049 rpl30p 50S ribosomal 99.9 8E-26 1.7E-30 157.9 7.5 66 3-68 2-72 (154)
5 KOG3184 60S ribosomal protein 99.9 9.5E-24 2.1E-28 155.7 5.5 70 4-73 76-151 (235)
6 COG1841 RpmD Ribosomal protein 99.7 5.1E-18 1.1E-22 101.6 5.0 50 4-53 1-55 (55)
7 cd00355 Ribosomal_L30_like Rib 99.7 2E-16 4.3E-21 92.8 5.2 48 5-52 1-53 (53)
8 PF00327 Ribosomal_L30: Riboso 99.6 3.8E-15 8.3E-20 87.0 5.6 47 3-49 1-52 (52)
9 PRK05611 rpmD 50S ribosomal pr 99.5 1.1E-14 2.4E-19 87.7 5.7 53 1-53 1-58 (59)
10 cd01658 Ribosomal_L30 Ribosoma 99.3 7.4E-12 1.6E-16 74.1 5.1 47 5-51 2-53 (54)
11 TIGR01308 rpmD_bact ribosomal 99.3 1.1E-11 2.5E-16 73.7 5.2 48 5-52 2-54 (55)
12 KOG4799 Mitochondrial ribosoma 58.8 19 0.00041 26.2 3.9 62 5-66 61-135 (182)
13 CHL00200 trpA tryptophan synth 55.9 7.8 0.00017 29.0 1.7 20 45-64 17-36 (263)
14 PLN02591 tryptophan synthase 55.6 7.9 0.00017 28.8 1.7 19 46-64 5-23 (250)
15 TIGR00262 trpA tryptophan synt 52.3 9.8 0.00021 28.1 1.7 19 46-64 13-31 (256)
16 PRK13111 trpA tryptophan synth 51.8 10 0.00022 28.3 1.7 20 45-64 14-33 (258)
17 COG0159 TrpA Tryptophan syntha 51.4 10 0.00022 28.9 1.7 19 46-64 20-38 (265)
18 TIGR03757 conj_TIGR03757 integ 50.1 16 0.00035 24.6 2.3 20 46-65 92-111 (113)
19 cd04724 Tryptophan_synthase_al 49.8 11 0.00024 27.3 1.7 18 47-64 4-21 (242)
20 PF00290 Trp_syntA: Tryptophan 47.5 9.6 0.00021 28.6 1.0 19 46-64 13-31 (259)
21 PF07511 DUF1525: Protein of u 43.1 21 0.00045 24.0 2.0 21 46-66 91-111 (114)
22 PRK13125 trpA tryptophan synth 38.0 22 0.00049 25.6 1.7 21 45-65 6-26 (244)
23 PF07299 FBP: Fibronectin-bind 35.5 14 0.00029 27.2 0.2 54 15-71 48-102 (208)
24 TIGR00706 SppA_dom signal pept 31.3 1.7E+02 0.0036 20.5 5.2 51 3-53 1-69 (207)
25 PF13368 Toprim_C_rpt: Topoiso 28.0 29 0.00063 20.3 0.7 11 46-56 15-25 (61)
26 PF10369 ALS_ss_C: Small subun 27.0 90 0.0019 18.8 2.8 36 2-38 2-37 (75)
27 PHA00652 hypothetical protein 26.2 7.9 0.00017 26.7 -2.2 21 38-58 13-33 (128)
28 PF00625 Guanylate_kin: Guanyl 25.3 1.8E+02 0.0039 19.5 4.4 54 14-68 80-137 (183)
29 PF08398 Parvo_coat_N: Parvovi 25.1 74 0.0016 19.5 2.2 29 36-64 31-60 (64)
30 smart00072 GuKc Guanylate kina 25.1 2.2E+02 0.0048 19.1 5.9 54 14-68 80-137 (184)
31 PRK00923 sirohydrochlorin coba 23.5 85 0.0018 20.0 2.4 23 49-71 41-63 (126)
32 PF07338 DUF1471: Protein of u 22.1 1.3E+02 0.0028 17.4 2.7 23 1-23 2-24 (56)
33 PF14287 DUF4368: Domain of un 21.9 54 0.0012 19.9 1.1 30 36-65 11-40 (71)
34 TIGR00119 acolac_sm acetolacta 21.5 1.3E+02 0.0027 21.0 3.1 36 2-38 83-118 (157)
35 PF11367 DUF3168: Protein of u 21.4 55 0.0012 20.0 1.1 16 44-59 27-42 (121)
36 PF09186 DUF1949: Domain of un 21.1 1.5E+02 0.0033 15.8 3.4 28 49-76 1-28 (56)
37 cd00165 S4 S4/Hsp/ tRNA synthe 20.5 1.4E+02 0.0031 15.6 2.6 24 52-76 12-35 (70)
38 PRK00148 Maf-like protein; Rev 20.1 1.4E+02 0.0031 21.2 3.2 58 8-65 76-140 (194)
No 1
>TIGR01310 L7 60S ribosomal protein L7, eukaryotic. Members of this family average ~ 250 residues in length, somewhat longer than the archaeal L30P/L7E homolog (~ 155 residues) and much longer than the related bacterial/organellar form (~ 60 residues).
Probab=99.96 E-value=3.3e-30 Score=189.92 Aligned_cols=71 Identities=39% Similarity=0.693 Sum_probs=69.3
Q ss_pred EEEEEeeeccCCCHHHHHHh-----hcceeEEEEecChhhHHHhhhccccEEEecCCHHHHHHHHHhcceeeeece
Q 047344 4 IGTITKSFKELFNPKIKKIL-----REIFNGIFLKANNTTIHMFHIFKHYITYGYPNLKNVRELIYMGGYTYFFLT 74 (80)
Q Consensus 4 ~~vIRiRG~~~v~p~v~ktL-----~ki~~~vfvk~~~~~~~ML~~VepYVt~G~p~l~tvreLi~KRG~~ki~~~ 74 (80)
++||||||++++||++++|| +++||||||++|+++.+||++|+|||||||||++||++||+|||++++++.
T Consensus 75 ~fVIRirG~~~v~p~v~k~L~lLRL~~in~~Vfvk~~~~~~~ML~~VepYVt~G~p~l~tvr~Li~KRG~~k~~~~ 150 (235)
T TIGR01310 75 LFVIRIKGINGIPPKPRKVLRLLRLKQVHNGVFVKVNKATLQMLRIVEPYVAYGYPNLKSVRELIYKRGFAKINGQ 150 (235)
T ss_pred EEEEEeCCCCCCCHHHHHHHHHhCCCccceEEEEECCHHHHHHHHhcCCeEEEecCCHHHHHHHHHHhCceeeCCC
Confidence 68999999999999999999 999999999999999999999999999999999999999999999999875
No 2
>TIGR01309 L30P_arch 50S ribosomal protein L30P, archaeal. This model represents the archaeal ribosomal protein similar to longer (~ 250 residue) eukaryotic 60S ribosomal protein L7 and to the much shorter (~ 60 residue) bacterial 50S ribosomal protein L30. Protein naming follows the SwissProt designation as L30P, while the gene symbol rpmD follows TIGR usage.
Probab=99.94 E-value=3.2e-27 Score=164.66 Aligned_cols=67 Identities=18% Similarity=0.202 Sum_probs=65.4
Q ss_pred EEEEEeeeccCCCHHHHHHh-----hcceeEEEEecChhhHHHhhhccccEEEecCCHHHHHHHHHhcceee
Q 047344 4 IGTITKSFKELFNPKIKKIL-----REIFNGIFLKANNTTIHMFHIFKHYITYGYPNLKNVRELIYMGGYTY 70 (80)
Q Consensus 4 ~~vIRiRG~~~v~p~v~ktL-----~ki~~~vfvk~~~~~~~ML~~VepYVt~G~p~l~tvreLi~KRG~~k 70 (80)
+||+||||..++||++++|| +++|+|||+++||++.+||++|+|||+|||||++||++||+|||+++
T Consensus 1 ~~ViriRg~ig~~~~~r~tL~~LrL~ri~~~V~v~~tp~~~gML~kV~~yV~~ge~~~~tv~~Li~kRG~~~ 72 (152)
T TIGR01309 1 LAVIRIRGTVDVPRDIADTLEMLRLHRVNHCVLYPETPTYLGMLQKVKDYVTWGEIDEDTLELLIRKRGRLV 72 (152)
T ss_pred CeEEEecCcCCCCHHHHHHHHHcCCCcCCCEEEEeCCHHHHHHHHHhHhheeEecCCHHHHHHHHHHhcccc
Confidence 68999999999999999999 99999999999999999999999999999999999999999999964
No 3
>cd01657 Ribosomal_L7_archeal_euk Ribosomal protein L7, which is found in archaea and eukaryotes but not in prokaryotes, binds domain II of the 23S rRNA as well as the 5S rRNA and is one of five ribosomal proteins that mediate the interactions 5S rRNA makes with the ribosome. The eukaryotic L7 members have an N-terminal extension not found in the archeal L7 orthologs. L7 is closely related to the ribosomal L30 protein found in eukaryotes and prokaryotes.
Probab=99.93 E-value=2e-26 Score=161.03 Aligned_cols=71 Identities=35% Similarity=0.456 Sum_probs=68.8
Q ss_pred EEEEEeeeccCCCHHHHHHh-----hcceeEEEEecChhhHHHhhhccccEEEecCCHHHHHHHHHhcceeeeece
Q 047344 4 IGTITKSFKELFNPKIKKIL-----REIFNGIFLKANNTTIHMFHIFKHYITYGYPNLKNVRELIYMGGYTYFFLT 74 (80)
Q Consensus 4 ~~vIRiRG~~~v~p~v~ktL-----~ki~~~vfvk~~~~~~~ML~~VepYVt~G~p~l~tvreLi~KRG~~ki~~~ 74 (80)
++|||+||..++||++++|| +++|+|||+++||++.+||++|+|||+|||||++||++||+|||+++++.+
T Consensus 2 ~~Virirg~~g~~~~~r~tL~~LgL~k~~~~v~~~~t~~~~gmL~kV~~~V~~ge~~~~tv~~Li~kRG~~~~~~~ 77 (159)
T cd01657 2 YAVVRIRGIVGVPPKIRKTLQLLRLRRINNAVFVKLTKATIGMLKKVEPYVTWGEPNLETLRELIYKRGRLKGNGQ 77 (159)
T ss_pred EEEEEecCcCCCCHHHHHHHHHcCCCcCCCEEEEeCCHHHHHHHHHhhhheEeccCcHHHHHHHHHHhCeecCCCe
Confidence 68999999999999999999 999999999999999999999999999999999999999999999999853
No 4
>PRK06049 rpl30p 50S ribosomal protein L30P; Reviewed
Probab=99.93 E-value=8e-26 Score=157.93 Aligned_cols=66 Identities=17% Similarity=0.216 Sum_probs=64.7
Q ss_pred eEEEEEeeeccCCCHHHHHHh-----hcceeEEEEecChhhHHHhhhccccEEEecCCHHHHHHHHHhcce
Q 047344 3 EIGTITKSFKELFNPKIKKIL-----REIFNGIFLKANNTTIHMFHIFKHYITYGYPNLKNVRELIYMGGY 68 (80)
Q Consensus 3 ~~~vIRiRG~~~v~p~v~ktL-----~ki~~~vfvk~~~~~~~ML~~VepYVt~G~p~l~tvreLi~KRG~ 68 (80)
-++|+||||..+++|++++|| +++|+|||+++||++.+||++|+|||+|||||++||++||+|||+
T Consensus 2 ~~~ViriRg~ig~~~~~r~tL~~LgL~ki~~~V~v~~tp~~~GML~kV~~~V~~ge~~~~tv~~Li~kRG~ 72 (154)
T PRK06049 2 MYAVIRIRGRVNVPRDIADTLKMLRLHRVNHCVLVPETPSYKGMLQKVKDYVTWGEIDADTLAELLRKRGR 72 (154)
T ss_pred cEEEEEecCCCCCCHHHHHHHHHcCCCcCCCEEEEeCCHHHHHHHHhhhceeEEeeCchHHHHHHHHHhCc
Confidence 379999999999999999999 999999999999999999999999999999999999999999999
No 5
>KOG3184 consensus 60S ribosomal protein L7 [Translation, ribosomal structure and biogenesis]
Probab=99.89 E-value=9.5e-24 Score=155.74 Aligned_cols=70 Identities=43% Similarity=0.686 Sum_probs=66.5
Q ss_pred EEEEEeeeccCCCHHHHHHh-----hcceeEEEEecChhhHHHhhhccccEEEecCCHHHHHHHHHhcceee-eec
Q 047344 4 IGTITKSFKELFNPKIKKIL-----REIFNGIFLKANNTTIHMFHIFKHYITYGYPNLKNVRELIYMGGYTY-FFL 73 (80)
Q Consensus 4 ~~vIRiRG~~~v~p~v~ktL-----~ki~~~vfvk~~~~~~~ML~~VepYVt~G~p~l~tvreLi~KRG~~k-i~~ 73 (80)
-.|||+||+++++|+.+++| +++|+||||++|+++.+||++|+||||||+||+++++|||+|||+++ ++.
T Consensus 76 ~fvvri~gin~v~pk~~k~l~lLrL~~If~g~fVKlnk~~~~mLriVepYVa~G~pnlksv~elI~krG~~k~~~~ 151 (235)
T KOG3184|consen 76 AFVIRIRGVNGVEPKSRKVLQLLRLKQIFNGTFVKLNKATVNMLRIVEPYIAWGYPNLKSVSELIYKRGYGKKIEK 151 (235)
T ss_pred ceeeecccccccCchHHHHHHHHHhhccccceeEEechhhhhhHhhcccceeeccCcHHHHHHHHhhcccccccCC
Confidence 36899999999999999999 99999999999999999999999999999999999999999999995 654
No 6
>COG1841 RpmD Ribosomal protein L30/L7E [Translation, ribosomal structure and biogenesis]
Probab=99.73 E-value=5.1e-18 Score=101.55 Aligned_cols=50 Identities=24% Similarity=0.270 Sum_probs=48.6
Q ss_pred EEEEEeeeccCCCHHHHHHh-----hcceeEEEEecChhhHHHhhhccccEEEec
Q 047344 4 IGTITKSFKELFNPKIKKIL-----REIFNGIFLKANNTTIHMFHIFKHYITYGY 53 (80)
Q Consensus 4 ~~vIRiRG~~~v~p~v~ktL-----~ki~~~vfvk~~~~~~~ML~~VepYVt~G~ 53 (80)
++|+|+||..|+||++++|| +++||+|++++||++.|||++|+|||+|||
T Consensus 1 ~~V~~iRs~ig~~~~~r~tl~~LgL~kin~~v~~~dtp~irGMi~kV~~lV~v~e 55 (55)
T COG1841 1 LKVTLIRSPIGRPPKIRKTLRLLGLRKINHTVIVEDTPAVRGMLNKVKHLVTVGE 55 (55)
T ss_pred CeEEEEeccCCCChHHHHHHHHhCCCccCCEEEEcCCHHHHHHHHHHHhheEecC
Confidence 57999999999999999999 999999999999999999999999999996
No 7
>cd00355 Ribosomal_L30_like Ribosomal protein L30, which is found in eukaryotes and prokaryotes but not in archaea, is one of the smallest ribosomal proteins with a molecular mass of about 7kDa. L30 binds the 23SrRNA as well as the 5S rRNA and is one of five ribosomal proteins that mediate the interactions 5S rRNA makes with the ribosome. The eukaryotic L30 members have N- and/or C-terminal extensions not found in their prokaryotic orthologs. L30 is closely related to the ribosomal L7 protein found in eukaryotes and archaea.
Probab=99.66 E-value=2e-16 Score=92.84 Aligned_cols=48 Identities=27% Similarity=0.289 Sum_probs=46.6
Q ss_pred EEEEeeeccCCCHHHHHHh-----hcceeEEEEecChhhHHHhhhccccEEEe
Q 047344 5 GTITKSFKELFNPKIKKIL-----REIFNGIFLKANNTTIHMFHIFKHYITYG 52 (80)
Q Consensus 5 ~vIRiRG~~~v~p~v~ktL-----~ki~~~vfvk~~~~~~~ML~~VepYVt~G 52 (80)
.|+|+||..|.+|++++|| +++|++||+++||++.|||++|+|||+||
T Consensus 1 ~V~~irs~ig~~~~~~~tl~~LgL~k~~~~v~~~~tp~~~gml~kV~~lV~~~ 53 (53)
T cd00355 1 KVTRVRSLIGRPPKQRKTLKALGLRKINQTVFVKDTPSIRGMLRKVKHLVTVG 53 (53)
T ss_pred CEEEecCCCCCCHHHHHHHHHcCCCcCCCEEEEeCCHHHHHHHHhccceEEEC
Confidence 3799999999999999999 99999999999999999999999999997
No 8
>PF00327 Ribosomal_L30: Ribosomal protein L30p/L7e; InterPro: IPR016082 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms. The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. Ribosomal protein L30 is one of the proteins from the large ribosomal subunit. L30 belongs to a family of ribosomal proteins which, on the basis of sequence similarities [], groups bacteria and archaea L30, yeast mitochondrial L33, and Drosophila melanogaster, Dictyostelium discoideum (Slime mold), fungal and mammalian L7 ribosomal proteins. L30 from bacteria are small proteins of about 60 residues, those from archaea are proteins of about 150 residues, and eukaryotic L7 are proteins of about 250 to 270 residues. This entry represents a domain with a ferredoxin-like fold, with a core structure consisting of core: beta-alpha-beta-alpha-beta. This domain is found in prokaryotic ribosomal protein L30 (short-chain member of the family), as well as in archaeal L30 (L30a) (long-chain member of the family), the later containing an additional C-terminal (sub)domain).; GO: 0003735 structural constituent of ribosome, 0006412 translation, 0005840 ribosome; PDB: 3DF2_Y 3DF4_Y 3O5H_G 3O58_G 1S1I_F 3IZS_e 1M1K_X 1M90_X 1QVG_V 1YIT_W ....
Probab=99.58 E-value=3.8e-15 Score=86.96 Aligned_cols=47 Identities=23% Similarity=0.270 Sum_probs=44.5
Q ss_pred eEEEEEeeeccCCCHHHHHHh-----hcceeEEEEecChhhHHHhhhccccE
Q 047344 3 EIGTITKSFKELFNPKIKKIL-----REIFNGIFLKANNTTIHMFHIFKHYI 49 (80)
Q Consensus 3 ~~~vIRiRG~~~v~p~v~ktL-----~ki~~~vfvk~~~~~~~ML~~VepYV 49 (80)
.+.|+||||..|.||++++|| +++|++||+++||++.|||++|+|||
T Consensus 1 ~l~V~~irs~~g~~~~~~~tl~~LgL~k~~~~v~~~~t~~~~gml~kV~~lV 52 (52)
T PF00327_consen 1 LLFVTRIRSPIGAPPKVRKTLKALGLRKINQAVFVKNTPSIRGMLKKVKHLV 52 (52)
T ss_dssp EEEEEESS-STTSSHHHHHHHHHTT-SSTTEEEEEESSHHHHHHHHHTGCGE
T ss_pred CEEEEEeCCCCCCCHHHHHHHHHcCCCcCCCEEEEECCHHHHHHHHHHHhhC
Confidence 478999999999999999999 99999999999999999999999997
No 9
>PRK05611 rpmD 50S ribosomal protein L30; Reviewed
Probab=99.55 E-value=1.1e-14 Score=87.73 Aligned_cols=53 Identities=19% Similarity=0.134 Sum_probs=51.3
Q ss_pred CceEEEEEeeeccCCCHHHHHHh-----hcceeEEEEecChhhHHHhhhccccEEEec
Q 047344 1 MKEIGTITKSFKELFNPKIKKIL-----REIFNGIFLKANNTTIHMFHIFKHYITYGY 53 (80)
Q Consensus 1 ~~~~~vIRiRG~~~v~p~v~ktL-----~ki~~~vfvk~~~~~~~ML~~VepYVt~G~ 53 (80)
|+++.|+++||..|.||++++|| +++|++|++++||++.|||++|++||+|=+
T Consensus 1 m~~~~I~~vRs~ig~~~~~r~tl~~LgL~k~~~~v~~~dtp~~rGmi~kV~~lV~vee 58 (59)
T PRK05611 1 MKTLKITLVKSLIGRKPKQRATLRGLGLRKINSTVELEDTPAIRGMINKVSHLVKVEE 58 (59)
T ss_pred CCcEEEEEeecCCCCCHHHHHHHHHcCCCcCCCEEEecCCHHHHHHHHHhHhhEEEEe
Confidence 78999999999999999999999 999999999999999999999999999964
No 10
>cd01658 Ribosomal_L30 Ribosomal protein L30, which is found in eukaryotes and prokaryotes but not in archaea, is one of the smallest ribosomal proteins with a molecular mass of about 7kDa. L30 binds the 23SrRNA as well as the 5S rRNA and is one of five ribosomal proteins that mediate the interactions 5S rRNA makes with the ribosome. The eukaryotic L30 members have N- and/or C-terminal extensions not found in their prokaryotic orthologs. L30 is closely related to the ribosomal L7 protein found in eukaryotes and archaea.
Probab=99.28 E-value=7.4e-12 Score=74.08 Aligned_cols=47 Identities=15% Similarity=0.046 Sum_probs=44.9
Q ss_pred EEEEeeeccCCCHHHHHHh-----hcceeEEEEecChhhHHHhhhccccEEE
Q 047344 5 GTITKSFKELFNPKIKKIL-----REIFNGIFLKANNTTIHMFHIFKHYITY 51 (80)
Q Consensus 5 ~vIRiRG~~~v~p~v~ktL-----~ki~~~vfvk~~~~~~~ML~~VepYVt~ 51 (80)
-|.++||..|.+|+.++|| +++|++|++++||++.|||++|++||.+
T Consensus 2 ~i~~iRs~ig~~~~~r~tl~~LgL~k~~~~v~~~~tp~~~Gml~kV~~lV~v 53 (54)
T cd01658 2 KITLVKSLIGRPKKQRATLKALGLKKINQTVVHKDTPSIRGMINKVKHLVKV 53 (54)
T ss_pred EEEEEeCCCCCCHHHHHHHHHcCCCcCCCEEEecCCHHHHHHHHHHhheEEe
Confidence 4789999999999999999 9999999999999999999999999975
No 11
>TIGR01308 rpmD_bact ribosomal protein L30, bacterial/organelle. This model describes bacterial (and organellar) 50S ribosomal protein L30. Homologous ribosomal proteins of the eukaryotic cytosol and of the archaea differ substantially in architecture, from bacterial L30 and also from each other, and are described by separate models.
Probab=99.26 E-value=1.1e-11 Score=73.71 Aligned_cols=48 Identities=21% Similarity=0.101 Sum_probs=45.5
Q ss_pred EEEEeeeccCCCHHHHHHh-----hcceeEEEEecChhhHHHhhhccccEEEe
Q 047344 5 GTITKSFKELFNPKIKKIL-----REIFNGIFLKANNTTIHMFHIFKHYITYG 52 (80)
Q Consensus 5 ~vIRiRG~~~v~p~v~ktL-----~ki~~~vfvk~~~~~~~ML~~VepYVt~G 52 (80)
-|.++||..|.+|+.++|| +++|++|++++||++.|||++|++||.+-
T Consensus 2 kItlvrs~ig~~~~~r~tl~~LgL~k~~~~v~~~dtp~irGMi~kV~~lV~ve 54 (55)
T TIGR01308 2 KVTLVRSLIGRPKKQRKTLKALGLRKIGRQVVLEDNPAIRGMVNKVKHLVKVE 54 (55)
T ss_pred EEEEEeCCCCCCHHHHHHHHHcCCCcCCCEEEecCCHHHHHHHHHhHheEEEe
Confidence 3689999999999999999 99999999999999999999999999864
No 12
>KOG4799 consensus Mitochondrial ribosomal protein L30 [Translation, ribosomal structure and biogenesis]
Probab=58.76 E-value=19 Score=26.16 Aligned_cols=62 Identities=13% Similarity=-0.034 Sum_probs=50.1
Q ss_pred EEEEeeeccCCCHHHHHHh-----hccee-EEEEecChhhHHHhhhccccE-------EEecCCHHHHHHHHHhc
Q 047344 5 GTITKSFKELFNPKIKKIL-----REIFN-GIFLKANNTTIHMFHIFKHYI-------TYGYPNLKNVRELIYMG 66 (80)
Q Consensus 5 ~vIRiRG~~~v~p~v~ktL-----~ki~~-~vfvk~~~~~~~ML~~VepYV-------t~G~p~l~tvreLi~KR 66 (80)
-|=|||...+-|.+-++++ ....+ -.++++.|+...-|.+|+..| .+|+|..+.++..+.|-
T Consensus 61 ~v~rik~t~~~PyWek~iik~lGld~k~t~~qV~kNip~vNakLwkIKHLI~~~pv~fp~gePte~di~~t~Lk~ 135 (182)
T KOG4799|consen 61 IVTRIKSTRRRPYWEKDIIKMLGLDKKHTRPQVHKNIPSVNAKLWKIKHLIRLRPVEFPGGEPTEDDISSTSLKP 135 (182)
T ss_pred EEEEeccccCCcchHHHHHHHhCcccccCCceEeecccchhhHHHHhhheeEEEeeccCCCCCchhhhhhhhhcc
Confidence 4678999999998888887 44444 678899999999999888765 37999999999887663
No 13
>CHL00200 trpA tryptophan synthase alpha subunit; Provisional
Probab=55.91 E-value=7.8 Score=28.95 Aligned_cols=20 Identities=20% Similarity=0.393 Sum_probs=16.5
Q ss_pred ccccEEEecCCHHHHHHHHH
Q 047344 45 FKHYITYGYPNLKNVRELIY 64 (80)
Q Consensus 45 VepYVt~G~p~l~tvreLi~ 64 (80)
.=||+|-|+||+++-.+++.
T Consensus 17 li~yi~aG~P~~~~~~~~~~ 36 (263)
T CHL00200 17 LIPFITAGDPDIVITKKALK 36 (263)
T ss_pred EEEEEeCCCCCHHHHHHHHH
Confidence 45899999999998887654
No 14
>PLN02591 tryptophan synthase
Probab=55.64 E-value=7.9 Score=28.80 Aligned_cols=19 Identities=37% Similarity=0.532 Sum_probs=15.7
Q ss_pred cccEEEecCCHHHHHHHHH
Q 047344 46 KHYITYGYPNLKNVRELIY 64 (80)
Q Consensus 46 epYVt~G~p~l~tvreLi~ 64 (80)
=||++-|+||.++-.+++.
T Consensus 5 i~yi~aG~P~~e~~~~~~~ 23 (250)
T PLN02591 5 IPYITAGDPDLDTTAEALR 23 (250)
T ss_pred EEEEeCCCCCHHHHHHHHH
Confidence 3899999999998777653
No 15
>TIGR00262 trpA tryptophan synthase, alpha subunit. Tryptophan synthase catalyzes the last step in the biosynthesis of tryptophan. The alpha chain is responsible for the aldol cleavage of indoleglycerol phosphate to indole and glyceraldehyde 3-phosphate. In bacteria and plants each domain is found on a separate subunit (alpha and beta chains), while in fungi the two domains are fused together on a single multifunctional protein. The signature pattern for trpA contains three conserved acidic residues. [LIVM]-E-[LIVM]-G-x(2)-[FYC]-[ST]-[DE]-[PA]-[LIVMY]-[AGLI]-[DE]-G and this is located between residues 43-58 of the model. The Sulfolobus solfataricus trpA is known to be quite divergent from other known trpA sequences.
Probab=52.28 E-value=9.8 Score=28.10 Aligned_cols=19 Identities=32% Similarity=0.492 Sum_probs=15.5
Q ss_pred cccEEEecCCHHHHHHHHH
Q 047344 46 KHYITYGYPNLKNVRELIY 64 (80)
Q Consensus 46 epYVt~G~p~l~tvreLi~ 64 (80)
=||++-|+||+++-.+++.
T Consensus 13 i~y~~aG~P~~~~~~~~~~ 31 (256)
T TIGR00262 13 IPFVTAGDPTLETSLEIIK 31 (256)
T ss_pred EEEEeCCCCCHHHHHHHHH
Confidence 4799999999998777553
No 16
>PRK13111 trpA tryptophan synthase subunit alpha; Provisional
Probab=51.82 E-value=10 Score=28.25 Aligned_cols=20 Identities=40% Similarity=0.589 Sum_probs=16.1
Q ss_pred ccccEEEecCCHHHHHHHHH
Q 047344 45 FKHYITYGYPNLKNVRELIY 64 (80)
Q Consensus 45 VepYVt~G~p~l~tvreLi~ 64 (80)
.=||++-|+||+++-.+++.
T Consensus 14 li~yi~aG~P~~~~~~~~~~ 33 (258)
T PRK13111 14 LIPYITAGDPDLETSLEIIK 33 (258)
T ss_pred EEEEEeCCCCCHHHHHHHHH
Confidence 34799999999998877543
No 17
>COG0159 TrpA Tryptophan synthase alpha chain [Amino acid transport and metabolism]
Probab=51.44 E-value=10 Score=28.89 Aligned_cols=19 Identities=37% Similarity=0.569 Sum_probs=16.9
Q ss_pred cccEEEecCCHHHHHHHHH
Q 047344 46 KHYITYGYPNLKNVRELIY 64 (80)
Q Consensus 46 epYVt~G~p~l~tvreLi~ 64 (80)
=||+|-|+||+++..+.+.
T Consensus 20 i~yit~GdP~~e~s~e~i~ 38 (265)
T COG0159 20 IPYVTAGDPDLETSLEIIK 38 (265)
T ss_pred EEEEeCCCCCHHHHHHHHH
Confidence 4799999999999988875
No 18
>TIGR03757 conj_TIGR03757 integrating conjugative element protein, PFL_4709 family. Members of this protein belong to extended genomic regions that appear to be spread by conjugative transfer.
Probab=50.08 E-value=16 Score=24.60 Aligned_cols=20 Identities=25% Similarity=0.552 Sum_probs=16.6
Q ss_pred cccEEEecCCHHHHHHHHHh
Q 047344 46 KHYITYGYPNLKNVRELIYM 65 (80)
Q Consensus 46 epYVt~G~p~l~tvreLi~K 65 (80)
..||.||++|..-...++..
T Consensus 92 ~~~VVYG~~DV~~A~~~~~~ 111 (113)
T TIGR03757 92 RRYVVYGETDVARALALIQQ 111 (113)
T ss_pred CCeEEecCccHHHHHHHHHh
Confidence 57999999999888777653
No 19
>cd04724 Tryptophan_synthase_alpha Ttryptophan synthase (TRPS) alpha subunit (TSA). TPRS is a bifunctional tetrameric enzyme (2 alpha and 2 beta subunits) that catalyzes the last two steps of L-tryptophan biosynthesis. Alpha and beta subunit catalyze two distinct reactions which are both strongly stimulated by the formation of the complex. The alpha subunit catalyzes the cleavage of indole 3-glycerol phosphate (IGP) to indole and d-glyceraldehyde 3-phosphate (G3P). Indole is then channeled to the active site of the beta subunit, a PLP-dependent enzyme that catalyzes a replacement reaction to convert L-serine into L-tryptophan.
Probab=49.76 E-value=11 Score=27.28 Aligned_cols=18 Identities=39% Similarity=0.652 Sum_probs=15.0
Q ss_pred ccEEEecCCHHHHHHHHH
Q 047344 47 HYITYGYPNLKNVRELIY 64 (80)
Q Consensus 47 pYVt~G~p~l~tvreLi~ 64 (80)
||+|-||||.++..+.+.
T Consensus 4 ~y~~~G~P~~~~~~~~~~ 21 (242)
T cd04724 4 PYITAGDPDLETTLEILK 21 (242)
T ss_pred EEEeCCCCCHHHHHHHHH
Confidence 799999999998777554
No 20
>PF00290 Trp_syntA: Tryptophan synthase alpha chain; InterPro: IPR002028 Tryptophan synthase (4.2.1.20 from EC) catalyzes the last step in the biosynthesis of tryptophan [, ]: L-serine + 1-(indol-3-yl)glycerol 3-phosphate = L-tryptophan + glyceraldehyde 3-phosphate + H2O It has two functional domains, each found in bacteria and plants on a separate subunit. In Escherichia coli, the 2 subunits, A and B, are encoded by the trpA and trpB genes respectively. The alpha chain is for the aldol cleavage of indoleglycerol phosphate to indole and glyceraldehyde 3-phosphate and the beta chain IPR006653 from INTERPRO is for the synthesis of tryptophan from indole and serine. In fungi the two domains are fused together in a single multifunctional protein, in the order: (NH2-A-B-COOH) [, ]. The two domains of the Neurospora crassa polypeptide are linked by a connector of 54-amino acid residues that has less than 25% identity to the 45-residue connector of the Saccharomyces cerevisiae (Baker's yeast) polypeptide. Two acidic residues are believed to serve as proton donors/acceptors in the enzyme's catalytic mechanism.; GO: 0004834 tryptophan synthase activity, 0006568 tryptophan metabolic process; PDB: 1TJR_B 1RD5_B 1K8X_A 1QOQ_A 1KFE_A 1KFB_A 2CLO_A 1TTP_A 2RH9_A 1K7F_A ....
Probab=47.52 E-value=9.6 Score=28.61 Aligned_cols=19 Identities=42% Similarity=0.767 Sum_probs=16.1
Q ss_pred cccEEEecCCHHHHHHHHH
Q 047344 46 KHYITYGYPNLKNVRELIY 64 (80)
Q Consensus 46 epYVt~G~p~l~tvreLi~ 64 (80)
=||++-||||+++-.+++.
T Consensus 13 i~yitaG~P~~~~~~~~~~ 31 (259)
T PF00290_consen 13 IPYITAGYPDLETTLEILK 31 (259)
T ss_dssp EEEEETTSSSHHHHHHHHH
T ss_pred EEEEeCCCCCHHHHHHHHH
Confidence 3799999999999777764
No 21
>PF07511 DUF1525: Protein of unknown function (DUF1525); InterPro: IPR011090 This family of proteins is restricted to the Gammaproteobacteria. Members belong to extended genomic regions that appear to be spread by conjugative transfer.
Probab=43.14 E-value=21 Score=23.99 Aligned_cols=21 Identities=19% Similarity=0.314 Sum_probs=17.8
Q ss_pred cccEEEecCCHHHHHHHHHhc
Q 047344 46 KHYITYGYPNLKNVRELIYMG 66 (80)
Q Consensus 46 epYVt~G~p~l~tvreLi~KR 66 (80)
.-||.||++|..-...++.+.
T Consensus 91 ~~~VVYG~tDV~~A~~~~~~~ 111 (114)
T PF07511_consen 91 DRYVVYGETDVARALARIEQW 111 (114)
T ss_pred CCeEEecccHHHHHHHHHHHH
Confidence 689999999999888887653
No 22
>PRK13125 trpA tryptophan synthase subunit alpha; Provisional
Probab=38.00 E-value=22 Score=25.65 Aligned_cols=21 Identities=38% Similarity=0.747 Sum_probs=17.0
Q ss_pred ccccEEEecCCHHHHHHHHHh
Q 047344 45 FKHYITYGYPNLKNVRELIYM 65 (80)
Q Consensus 45 VepYVt~G~p~l~tvreLi~K 65 (80)
.=||++-|+||.++..+++..
T Consensus 6 ~i~y~~~G~p~~~~~~~~~~~ 26 (244)
T PRK13125 6 LVVYLTAGYPNVESFKEFIIG 26 (244)
T ss_pred eEEEEeCCCCCHHHHHHHHHH
Confidence 348999999999988877654
No 23
>PF07299 FBP: Fibronectin-binding protein (FBP); InterPro: IPR010841 This entry consists of several bacterial fibronectin-binding proteins which are thought to be involved in virulence in Listeria species [,].; PDB: 4ADO_B 4ADN_B 2YB5_F.
Probab=35.53 E-value=14 Score=27.21 Aligned_cols=54 Identities=15% Similarity=0.285 Sum_probs=31.4
Q ss_pred CCHHHHHHhhcceeEEEEecChhhHHHhhhccccE-EEecCCHHHHHHHHHhcceeee
Q 047344 15 FNPKIKKILREIFNGIFLKANNTTIHMFHIFKHYI-TYGYPNLKNVRELIYMGGYTYF 71 (80)
Q Consensus 15 v~p~v~ktL~ki~~~vfvk~~~~~~~ML~~VepYV-t~G~p~l~tvreLi~KRG~~ki 71 (80)
.+++.++.|.++.+ ++...+...+|...+||| .+=.|+.+.+++|..|--.+++
T Consensus 48 ~~~eq~~ll~~i~~---i~~~~~~~~~L~~L~~yV~pF~~~t~~qi~kLF~K~KKLkl 102 (208)
T PF07299_consen 48 LTEEQKELLEQIMD---IKTREEAEKYLEELKPYVIPFPPITEKQIKKLFPKAKKLKL 102 (208)
T ss_dssp TTHHHCCHHHHHTS---TT-HHHHHHHHHHHHCCB-------HHHHHHHTTTSSS---
T ss_pred CCHHHHHHHHHHhc---cCCHHHHHHHHHHHHHHhcCCCCCCHHHHHHHhhhhhccCC
Confidence 44454444444444 334466888999999999 7788899999999987665554
No 24
>TIGR00706 SppA_dom signal peptide peptidase SppA, 36K type. The member of this family from Bacillus subtilis was shown to have properties consistent with a role in degrading signal peptides after cleavage from precursor proteins, although it was not demonstrated conclusively.
Probab=31.32 E-value=1.7e+02 Score=20.51 Aligned_cols=51 Identities=12% Similarity=0.109 Sum_probs=32.1
Q ss_pred eEEEEEeeeccCCC-HHHHHHh-----hcceeEEEEecCh---------hhHHHhhhc---cccEEEec
Q 047344 3 EIGTITKSFKELFN-PKIKKIL-----REIFNGIFLKANN---------TTIHMFHIF---KHYITYGY 53 (80)
Q Consensus 3 ~~~vIRiRG~~~v~-p~v~ktL-----~ki~~~vfvk~~~---------~~~~ML~~V---epYVt~G~ 53 (80)
.+|||+|.|....+ .++.+.| ...-.++++..+. +....|+.. +|-++|..
T Consensus 1 ~v~vi~i~g~i~~s~~~l~~~l~~a~~d~~i~~vvl~~~s~Gg~~~~~~~l~~~i~~~~~~kpvia~v~ 69 (207)
T TIGR00706 1 TIAILPVSGAIAVSPEDFDKKIKRIKDDKSIKALLLRINSPGGTVVASEEIYEKLKKLKAKKPVVASMG 69 (207)
T ss_pred CEEEEEEEEEEecCHHHHHHHHHHHhhCCCccEEEEEecCCCCCHHHHHHHHHHHHHhcCCCCEEEEEC
Confidence 47999999998644 3445555 2334677777653 234455555 67777764
No 25
>PF13368 Toprim_C_rpt: Topoisomerase C-terminal repeat
Probab=28.00 E-value=29 Score=20.25 Aligned_cols=11 Identities=27% Similarity=0.398 Sum_probs=8.7
Q ss_pred cccEEEecCCH
Q 047344 46 KHYITYGYPNL 56 (80)
Q Consensus 46 epYVt~G~p~l 56 (80)
=|||++|.++.
T Consensus 15 GPYv~~g~~~~ 25 (61)
T PF13368_consen 15 GPYVKHGKKNA 25 (61)
T ss_pred CceEEECCccc
Confidence 48999998764
No 26
>PF10369 ALS_ss_C: Small subunit of acetolactate synthase; InterPro: IPR019455 This entry represents the C-terminal domain of the small subunit of acetolactate synthase (the N-terminal domain being an ACT domain). Acetolactate synthase is a tetrameric enzyme, composed of two large and two small subunits, which catalyses the first step in branched-chain amino acid biosynthesis. This reaction is sensitive to certain herbicides []. ; PDB: 2F1F_B 2FGC_A 2PC6_A.
Probab=26.96 E-value=90 Score=18.83 Aligned_cols=36 Identities=17% Similarity=0.257 Sum_probs=21.1
Q ss_pred ceEEEEEeeeccCCCHHHHHHhhcceeEEEEecChhh
Q 047344 2 KEIGTITKSFKELFNPKIKKILREIFNGIFLKANNTT 38 (80)
Q Consensus 2 ~~~~vIRiRG~~~v~p~v~ktL~ki~~~vfvk~~~~~ 38 (80)
.|++.|+|+....-.+++.++ .+.|+|-++..++++
T Consensus 2 rEl~LiKV~~~~~~r~ei~~l-~~~f~a~ivd~~~~~ 37 (75)
T PF10369_consen 2 RELALIKVKATPENRSEILQL-AEIFRARIVDVSPDS 37 (75)
T ss_dssp EEEEEEEEE-SCHHHHHHHHH-HHHTT-EEEEEETTE
T ss_pred eEEEEEEEECCccCHHHHHHH-HHHhCCEEEEECCCE
Confidence 478999998833323333222 777888888776654
No 27
>PHA00652 hypothetical protein
Probab=26.22 E-value=7.9 Score=26.73 Aligned_cols=21 Identities=19% Similarity=0.472 Sum_probs=17.1
Q ss_pred hHHHhhhccccEEEecCCHHH
Q 047344 38 TIHMFHIFKHYITYGYPNLKN 58 (80)
Q Consensus 38 ~~~ML~~VepYVt~G~p~l~t 58 (80)
....++++++++.||+|-++-
T Consensus 13 ~~~i~~k~edmI~y~ypil~k 33 (128)
T PHA00652 13 QMLIVERYERVISYLYPIAQS 33 (128)
T ss_pred HHHHHHHHHHHHHHHHHHHHH
Confidence 455789999999999997654
No 28
>PF00625 Guanylate_kin: Guanylate kinase; InterPro: IPR008144 Guanylate kinase (2.7.4.8 from EC) (GK) [] catalyzes the ATP-dependent phosphorylation of GMP into GDP. It is essential for recycling GMP and indirectly, cGMP. In prokaryotes (such as Escherichia coli), lower eukaryotes (such as yeast) and in vertebrates, GK is a highly conserved monomeric protein of about 200 amino acids. GK has been shown [, , ] to be structurally similar to protein A57R (or SalG2R) from various strains of Vaccinia virus. Proteins containing one or more copies of the DHR domain, an SH3 domain as well as a C-terminal GK-like domain, are collectively termed MAGUKs (membrane-associated guanylate kinase homologs) [], and include Drosophila lethal(1)discs large-1 tumor suppressor protein (gene dlg1); mammalian tight junction protein Zo-1; a family of mammalian synaptic proteins that seem to interact with the cytoplasmic tail of NMDA receptor subunits (SAP90/PSD-95, CHAPSYN-110/PSD-93, SAP97/DLG1 and SAP102); vertebrate 55kDa erythrocyte membrane protein (p55); Caenorhabditis elegans protein lin-2; rat protein CASK; and human proteins DLG2 and DLG3. There is an ATP-binding site (P-loop) in the N-terminal section of GK, which is not conserved in the GK-like domain of the above proteins. However these proteins retain the residues known, in GK, to be involved in the binding of GMP.; GO: 0005515 protein binding; PDB: 3UAT_A 3KFV_A 2ANC_F 2F3T_E 2ANB_A 2AN9_A 1S96_A 2F3R_B 3TR0_A 1LVG_A ....
Probab=25.28 E-value=1.8e+02 Score=19.46 Aligned_cols=54 Identities=13% Similarity=0.125 Sum_probs=35.7
Q ss_pred CCCH-HHHHHhhcceeEEEEecChhhHHHhhhc--cccEEEe-cCCHHHHHHHHHhcce
Q 047344 14 LFNP-KIKKILREIFNGIFLKANNTTIHMFHIF--KHYITYG-YPNLKNVRELIYMGGY 68 (80)
Q Consensus 14 ~v~p-~v~ktL~ki~~~vfvk~~~~~~~ML~~V--epYVt~G-~p~l~tvreLi~KRG~ 68 (80)
|++. .+++++.+--+ +++..+++....|+.. .|++.|= .||.+.+++.+.+||.
T Consensus 80 Gt~~~~i~~~~~~gk~-~il~~~~~g~~~L~~~~~~~~~IfI~~~s~~~l~~~l~~r~~ 137 (183)
T PF00625_consen 80 GTSKSAIDKVLEEGKH-CILDVDPEGVKQLKKAGFNPIVIFIKPPSPEVLKRRLRRRGD 137 (183)
T ss_dssp EEEHHHHHHHHHTTTE-EEEEETHHHHHHHHHCTTTEEEEEEEESSHHHHHHHHHTTTH
T ss_pred hhccchhhHhhhcCCc-EEEEccHHHHHHHHhcccCceEEEEEccchHHHHHHHhcccc
Confidence 4443 34444544444 4455678877777764 5666665 5789999999999885
No 29
>PF08398 Parvo_coat_N: Parvovirus coat protein VP1; InterPro: IPR013607 Parvoviruses are some of the smallest viruses containing linear, non-segmented single-stranded DNA genomes, with an average genome size of 5000 nucleotides. Parvoviruses have been described that infect a wide range of invertebrates and vertebrates and are well known for causing enteric disease in mammals. Genomes contains two large ORFs: NS1 and VP1; other ORFs are found in some sub-types and different gene products can arise from splice variants and the use of different start codons []. This is the N-terminal region of the Parvovirus VP1 coat protein []; its function is not known. ; GO: 0005198 structural molecule activity, 0019028 viral capsid
Probab=25.09 E-value=74 Score=19.51 Aligned_cols=29 Identities=10% Similarity=0.169 Sum_probs=24.2
Q ss_pred hhhHHHhhh-ccccEEEecCCHHHHHHHHH
Q 047344 36 NTTIHMFHI-FKHYITYGYPNLKNVRELIY 64 (80)
Q Consensus 36 ~~~~~ML~~-VepYVt~G~p~l~tvreLi~ 64 (80)
.++-.+|+. ..||+.|-.-|.+-+.+|=.
T Consensus 31 ~aY~~~lk~G~NPY~~~n~AD~~f~~~l~~ 60 (64)
T PF08398_consen 31 EAYDELLKHGDNPYLHFNHADEEFIKELKD 60 (64)
T ss_pred HHHHHHHHcCCCCceeccHhhHHHHHHHHh
Confidence 567788888 89999999999998888743
No 30
>smart00072 GuKc Guanylate kinase homologues. Active enzymes catalyze ATP-dependent phosphorylation of GMP to GDP. Structure resembles that of adenylate kinase. So-called membrane-associated guanylate kinase homologues (MAGUKs) do not possess guanylate kinase activities; instead at least some possess protein-binding functions.
Probab=25.07 E-value=2.2e+02 Score=19.14 Aligned_cols=54 Identities=7% Similarity=0.084 Sum_probs=37.7
Q ss_pred CCCHH-HHHHhhcceeEEEEecChhhHHHhhhc--cccEEEec-CCHHHHHHHHHhcce
Q 047344 14 LFNPK-IKKILREIFNGIFLKANNTTIHMFHIF--KHYITYGY-PNLKNVRELIYMGGY 68 (80)
Q Consensus 14 ~v~p~-v~ktL~ki~~~vfvk~~~~~~~ML~~V--epYVt~G~-p~l~tvreLi~KRG~ 68 (80)
|++.. +++.+.+-.+ +++..++....-|+.. .|++.|=. ||.+.+++.+.+||.
T Consensus 80 Gt~~~~i~~~~~~~~~-~ild~~~~~~~~l~~~~~~~~vIfi~~~s~~~l~~rl~~R~~ 137 (184)
T smart00072 80 GTSKETIRQVAEQGKH-CLLDIDPQGVKQLRKAQLYPIVIFIAPPSSEELERRLRGRGT 137 (184)
T ss_pred ccCHHHHHHHHHcCCe-EEEEECHHHHHHHHHhCCCcEEEEEeCcCHHHHHHHHHhcCC
Confidence 55555 5555544444 4455677777777754 66788875 999999999999885
No 31
>PRK00923 sirohydrochlorin cobaltochelatase; Reviewed
Probab=23.54 E-value=85 Score=20.04 Aligned_cols=23 Identities=9% Similarity=0.208 Sum_probs=16.8
Q ss_pred EEEecCCHHHHHHHHHhcceeee
Q 047344 49 ITYGYPNLKNVRELIYMGGYTYF 71 (80)
Q Consensus 49 Vt~G~p~l~tvreLi~KRG~~ki 71 (80)
+.+++|+++..-+-+.+.|.-+|
T Consensus 41 le~~~P~l~~~l~~l~~~g~~~v 63 (126)
T PRK00923 41 MEFNEPTIPEALKKLIGTGADKI 63 (126)
T ss_pred EEcCCCCHHHHHHHHHHcCCCEE
Confidence 34678999888777778876543
No 32
>PF07338 DUF1471: Protein of unknown function (DUF1471); InterPro: IPR010854 This entry consists of several hypothetical Enterobacterial proteins of around 90 residues in length. Some of the proteins are annotated as ydgH precursors and contain two copies of this region, one at the N terminus and the other at the C terminus. The function of this family is unknown.; PDB: 2NOC_A 2JNA_B 4EVU_B.
Probab=22.08 E-value=1.3e+02 Score=17.35 Aligned_cols=23 Identities=26% Similarity=0.187 Sum_probs=20.8
Q ss_pred CceEEEEEeeeccCCCHHHHHHh
Q 047344 1 MKEIGTITKSFKELFNPKIKKIL 23 (80)
Q Consensus 1 ~~~~~vIRiRG~~~v~p~v~ktL 23 (80)
|+++.+|-+.|..+-+.++.+.|
T Consensus 2 l~~iG~Isvs~~~~s~~d~~~~l 24 (56)
T PF07338_consen 2 LQKIGTISVSGNFGSPDDAEEAL 24 (56)
T ss_dssp CEEEEEEEEEEECSSHHHHHHHH
T ss_pred CeEEEEEEEccccCCHHHHHHHH
Confidence 68999999999998888998888
No 33
>PF14287 DUF4368: Domain of unknown function (DUF4368)
Probab=21.88 E-value=54 Score=19.95 Aligned_cols=30 Identities=13% Similarity=0.161 Sum_probs=24.9
Q ss_pred hhhHHHhhhccccEEEecCCHHHHHHHHHh
Q 047344 36 NTTIHMFHIFKHYITYGYPNLKNVRELIYM 65 (80)
Q Consensus 36 ~~~~~ML~~VepYVt~G~p~l~tvreLi~K 65 (80)
.....-|..++-|...=+.+...|++||.|
T Consensus 11 ~d~~~Fi~~i~kYt~i~ELt~~il~elIdk 40 (71)
T PF14287_consen 11 EDVDKFIELIRKYTDITELTPEILNELIDK 40 (71)
T ss_pred hhHHHHHHHHHHhCChhhCCHHHHHHHHHe
Confidence 345567888889999999999999999976
No 34
>TIGR00119 acolac_sm acetolactate synthase, small subunit. acetohydroxyacid synthase is a synonym.
Probab=21.47 E-value=1.3e+02 Score=20.98 Aligned_cols=36 Identities=17% Similarity=0.253 Sum_probs=24.4
Q ss_pred ceEEEEEeeeccCCCHHHHHHhhcceeEEEEecChhh
Q 047344 2 KEIGTITKSFKELFNPKIKKILREIFNGIFLKANNTT 38 (80)
Q Consensus 2 ~~~~vIRiRG~~~v~p~v~ktL~ki~~~vfvk~~~~~ 38 (80)
.|+|.|+++....-..++.++ .++|+|-++..++++
T Consensus 83 rEl~LiKv~~~~~~r~~i~~i-~~~f~a~ivdv~~~~ 118 (157)
T TIGR00119 83 RELCLVKVSAPGEGRDEIIRL-TNIFRGRIVDVSPDS 118 (157)
T ss_pred eEEEEEEEECCccCHHHHHHH-HHHhCCEEEEecCCE
Confidence 578999999865433333332 668888888877654
No 35
>PF11367 DUF3168: Protein of unknown function (DUF3168); InterPro: IPR021508 This family of proteins has no known function. ; PDB: 2LFP_A.
Probab=21.42 E-value=55 Score=20.04 Aligned_cols=16 Identities=19% Similarity=-0.025 Sum_probs=9.1
Q ss_pred hccccEEEecCCHHHH
Q 047344 44 IFKHYITYGYPNLKNV 59 (80)
Q Consensus 44 ~VepYVt~G~p~l~tv 59 (80)
-.-|||+||..+-.-.
T Consensus 27 ~~~Pyi~~~~~~~~~~ 42 (121)
T PF11367_consen 27 APYPYIVIGEVSSVPD 42 (121)
T ss_dssp S-SSEEEEE--TT-S-
T ss_pred CCCeEEEEEEeeeeec
Confidence 4789999999876544
No 36
>PF09186 DUF1949: Domain of unknown function (DUF1949); InterPro: IPR015269 Members of this entry are a set of functionally uncharacterised hypothetical bacterial proteins. They adopt a ferredoxin-like fold, with a beta-alpha-beta-beta-alpha-beta arrangement []. This entry contains the protein Impact, which is a translational regulator that ensures constant high levels of translation under amino acid starvation. It acts by interacting with Gcn1/Gcn1L1, thereby preventing activation of Gcn2 protein kinases (EIF2AK1 to 4) and subsequent down-regulation of protein synthesis. It is evolutionary conserved from eukaryotes to archaea []. ; PDB: 2CVE_A 1VI7_A.
Probab=21.10 E-value=1.5e+02 Score=15.78 Aligned_cols=28 Identities=18% Similarity=0.299 Sum_probs=21.9
Q ss_pred EEEecCCHHHHHHHHHhcceeeeeceee
Q 047344 49 ITYGYPNLKNVRELIYMGGYTYFFLTFA 76 (80)
Q Consensus 49 Vt~G~p~l~tvreLi~KRG~~ki~~~~~ 76 (80)
|...|+....++.++...|..-.+-.|.
T Consensus 1 i~~~Y~~~~~v~~~l~~~~~~i~~~~y~ 28 (56)
T PF09186_consen 1 ISCDYSQYGKVERLLEQNGIEIVDEDYT 28 (56)
T ss_dssp EEE-CCCHHHHHHHHHHTTTEEEEEEEC
T ss_pred CEechhhHHHHHHHHHHCCCEEEcceec
Confidence 4568999999999999988777676664
No 37
>cd00165 S4 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized functional similarity between these three protein classes.
Probab=20.45 E-value=1.4e+02 Score=15.62 Aligned_cols=24 Identities=21% Similarity=0.127 Sum_probs=19.2
Q ss_pred ecCCHHHHHHHHHhcceeeeeceee
Q 047344 52 GYPNLKNVRELIYMGGYTYFFLTFA 76 (80)
Q Consensus 52 G~p~l~tvreLi~KRG~~ki~~~~~ 76 (80)
+.+|...++.++. .|..++|+...
T Consensus 12 ~~~sr~~~~~~i~-~g~V~vn~~~~ 35 (70)
T cd00165 12 LAPSRSEARQLIK-HGHVLVNGKVV 35 (70)
T ss_pred cccCHHHHHHHHH-cCCEEECCEEc
Confidence 4678888888885 78899998765
No 38
>PRK00148 Maf-like protein; Reviewed
Probab=20.12 E-value=1.4e+02 Score=21.25 Aligned_cols=58 Identities=7% Similarity=-0.026 Sum_probs=42.0
Q ss_pred EeeeccCCCHHHHHHh-------hcceeEEEEecChhhHHHhhhccccEEEecCCHHHHHHHHHh
Q 047344 8 TKSFKELFNPKIKKIL-------REIFNGIFLKANNTTIHMFHIFKHYITYGYPNLKNVRELIYM 65 (80)
Q Consensus 8 RiRG~~~v~p~v~ktL-------~ki~~~vfvk~~~~~~~ML~~VepYVt~G~p~l~tvreLi~K 65 (80)
+|.|...-..++++.| ++.++||-+...++-...-...+.-|++...+.+.+...+..
T Consensus 76 ~Il~KP~~~eeA~~~L~~lsG~~h~v~T~v~l~~~~~~~~~~~~~~T~V~F~~l~~~~I~~Yl~~ 140 (194)
T PRK00148 76 RLLGKPHTPEEAIERWQQMSGRTGELYTGHALIDLDQGKTVTFYERTEVHFAELSDEEIEAYVAT 140 (194)
T ss_pred EEecCCCCHHHHHHHHHHhCCCCcEEEEEEEEEECCCCeEEEEEEEEEEEECCCCHHHHHHHHhh
Confidence 5677777778888888 899999988654322222345677788988888888888754
Done!