Query psy12266
Match_columns 107
No_of_seqs 110 out of 271
Neff 3.6
Searched_HMMs 46136
Date Fri Aug 16 22:57:07 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy12266.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/12266hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF04446 Thg1: tRNAHis guanyly 100.0 2.5E-32 5.5E-37 199.8 6.1 68 39-106 1-70 (135)
2 KOG2721|consensus 100.0 3E-31 6.6E-36 211.2 5.9 66 41-106 1-66 (260)
3 COG4021 Uncharacterized conser 99.9 4.5E-26 9.7E-31 181.1 6.0 71 36-106 1-72 (249)
4 COG2123 RNase PH-related exori 64.5 2.5 5.4E-05 35.0 0.3 13 60-72 23-35 (272)
5 PHA02737 hypothetical protein; 41.0 14 0.00031 25.3 0.9 22 50-71 28-51 (72)
6 KOG2178|consensus 38.3 42 0.00091 29.5 3.6 28 77-104 100-127 (409)
7 PRK04282 exosome complex RNA-b 37.7 10 0.00023 29.6 -0.1 13 60-72 24-36 (271)
8 PF03726 PNPase: Polyribonucle 37.1 6.4 0.00014 25.7 -1.2 7 60-66 77-83 (83)
9 PLN02213 sinapoylglucose-malat 33.7 1E+02 0.0022 24.7 5.0 42 59-102 4-48 (319)
10 TIGR02065 ECX1 archaeal exosom 31.2 16 0.00035 27.9 0.0 12 60-71 8-19 (230)
11 PF00450 Peptidase_S10: Serine 27.3 90 0.0019 24.6 3.6 44 58-102 87-133 (415)
12 PRK00807 50S ribosomal protein 26.9 43 0.00093 20.9 1.4 24 49-72 8-32 (52)
13 PRK03983 exosome complex exonu 23.0 27 0.00059 26.9 -0.0 11 60-70 14-24 (244)
14 smart00771 ZipA_C ZipA, C-term 22.5 1.2E+02 0.0027 21.8 3.3 26 79-104 87-112 (131)
15 cd00231 ZipA ZipA C-terminal d 22.3 1.3E+02 0.0028 21.8 3.4 25 80-104 87-111 (130)
16 PF09829 DUF2057: Uncharacteri 21.8 1.1E+02 0.0023 22.8 2.9 48 40-90 41-90 (189)
17 PRK00173 rph ribonuclease PH; 21.6 29 0.00062 26.8 -0.2 10 61-70 2-11 (238)
18 COG1504 Uncharacterized conser 21.6 74 0.0016 23.7 2.0 42 56-104 21-66 (121)
19 PF14350 Beta_protein: Beta pr 21.6 1.8E+02 0.0038 23.4 4.3 35 53-97 265-299 (347)
20 PRK02260 S-ribosylhomocysteina 21.1 99 0.0022 23.7 2.7 41 42-82 3-46 (158)
21 TIGR01966 RNasePH ribonuclease 20.4 34 0.00075 26.3 0.1 7 62-68 2-8 (236)
No 1
>PF04446 Thg1: tRNAHis guanylyltransferase; InterPro: IPR007537 The Thg1 protein from Saccharomyces cerevisiae (Baker's yeast) is responsible for adding a GMP residue to the 5' end of tRNA His [].; PDB: 3OTE_A 3OTC_A 3OTD_A 3OTB_A.
Probab=99.97 E-value=2.5e-32 Score=199.77 Aligned_cols=68 Identities=53% Similarity=0.906 Sum_probs=56.4
Q ss_pred chhhhhhcccCCC--cCCCCeEEEEEcCCCccccccccCCCCCCCHHHHHHHHHHHHHHHHhCCCceeee
Q psy12266 39 KFEYVREFESHDR--CLPNCFIVVRVDGKGFHKFTEAHGFDKPNDRSGLWLMSKAAACVIEEFNEYKMVH 106 (107)
Q Consensus 39 kyeYVK~fE~~d~--llP~~~IVVRIDGR~FhrFTk~h~FeKPnD~rfl~lM~~aA~~vm~ef~divlA~ 106 (107)
||||||.||..+. ++|++|||||||||+||+||+.|+|+||||+|+++||++||++||++++|+++||
T Consensus 1 k~~~vk~~E~~~~~~l~p~~~ivvRiDG~~F~kft~~~~f~KP~D~r~~~~M~~aa~~l~~~~~~~~~aY 70 (135)
T PF04446_consen 1 KYEYVKDFEQDDDLRLLPNTPIVVRIDGRGFHKFTKRHGFEKPNDERFLKAMNEAAKALMEEFPDIVLAY 70 (135)
T ss_dssp -SGGGGGG----B----TTSEEEEEEEETTHHHHHHHTT--SS--HHHHHHHHHHHHHHHHHSSSEEEEE
T ss_pred CccHHHhhccccccccCCCCeEEEEEeCcchhhhcccCCCCCCCCHHHHHHHHHHHHHHHHhCCCcEEEE
Confidence 7999999999877 9999999999999999999999999999999999999999999999999999998
No 2
>KOG2721|consensus
Probab=99.97 E-value=3e-31 Score=211.18 Aligned_cols=66 Identities=48% Similarity=0.943 Sum_probs=65.5
Q ss_pred hhhhhcccCCCcCCCCeEEEEEcCCCccccccccCCCCCCCHHHHHHHHHHHHHHHHhCCCceeee
Q psy12266 41 EYVREFESHDRCLPNCFIVVRVDGKGFHKFTEAHGFDKPNDRSGLWLMSKAAACVIEEFNEYKMVH 106 (107)
Q Consensus 41 eYVK~fE~~d~llP~~~IVVRIDGR~FhrFTk~h~FeKPnD~rfl~lM~~aA~~vm~ef~divlA~ 106 (107)
||||+||.+|+++|+||||||||||+|||||+.|+|+||||+++++|||+||..||+||+||++||
T Consensus 1 eYVksFE~~d~~lp~~~iVvRIDGr~FhrFs~~h~FeKPNDe~aLnLMnscA~~Vl~ef~DIv~Ay 66 (260)
T KOG2721|consen 1 EYVKSFEVEDEVLPPCWIVVRIDGRDFHRFSKVHEFEKPNDETALNLMNSCASAVLEEFPDIVFAY 66 (260)
T ss_pred CchhhhhcccccccceEEEEEEcCcchhhhhhhhcccCCChHHHHHHHHHHHHHHHHhccceEEEe
Confidence 799999999999999999999999999999999999999999999999999999999999999998
No 3
>COG4021 Uncharacterized conserved protein [Function unknown]
Probab=99.92 E-value=4.5e-26 Score=181.12 Aligned_cols=71 Identities=46% Similarity=0.687 Sum_probs=67.1
Q ss_pred hccchhhhhhcccCCCcCCCCeEEEEEcCCCccccccccCCCCCCCHHHHHHHHHHHHHHHH-hCCCceeee
Q psy12266 36 AKSKFEYVREFESHDRCLPNCFIVVRVDGKGFHKFTEAHGFDKPNDRSGLWLMSKAAACVIE-EFNEYKMVH 106 (107)
Q Consensus 36 A~skyeYVK~fE~~d~llP~~~IVVRIDGR~FhrFTk~h~FeKPnD~rfl~lM~~aA~~vm~-ef~divlA~ 106 (107)
|+|++.|+|++|++++++|+|+||+|||||+||+||+.|+|+||||++|++||++||+.+|. ..+||+|||
T Consensus 1 ~k~~~~~~~evya~~R~~P~t~iVlRiDGr~Fhk~tk~l~FeKPyD~~f~~lM~~tA~~lv~~~~~~i~LaY 72 (249)
T COG4021 1 AKSKFMYVREVYAHDRILPQTYIVLRIDGRGFHKFTKFLDFEKPYDERFLKLMNATAKNLVLKYGLDIILAY 72 (249)
T ss_pred CCCcchhhhhhhhhhcCCCCceEEEEecChhhhHHHhhcCcCCcchHHHHHHHHHHHHHHHHHhCCCeEEEE
Confidence 68999999999999999999999999999999999999999999999999999999996555 557999998
No 4
>COG2123 RNase PH-related exoribonuclease [Translation, ribosomal structure and biogenesis]
Probab=64.46 E-value=2.5 Score=35.02 Aligned_cols=13 Identities=38% Similarity=1.030 Sum_probs=11.3
Q ss_pred EEEcCCCcccccc
Q psy12266 60 VRVDGKGFHKFTE 72 (107)
Q Consensus 60 VRIDGR~FhrFTk 72 (107)
+|+|||+|+.|=.
T Consensus 23 ~R~DGR~~~efR~ 35 (272)
T COG2123 23 IRIDGRSFDEFRP 35 (272)
T ss_pred cccCCCCcccccc
Confidence 6999999999854
No 5
>PHA02737 hypothetical protein; Provisional
Probab=40.99 E-value=14 Score=25.28 Aligned_cols=22 Identities=27% Similarity=0.616 Sum_probs=15.8
Q ss_pred CCcCCCCeEEEE--EcCCCccccc
Q psy12266 50 DRCLPNCFIVVR--VDGKGFHKFT 71 (107)
Q Consensus 50 d~llP~~~IVVR--IDGR~FhrFT 71 (107)
-.|.|++||++| -|++.--.|=
T Consensus 28 YvCVP~sWIi~r~~td~kv~VaYP 51 (72)
T PHA02737 28 YVCVPDSWIIRRKATDQKSIVAYF 51 (72)
T ss_pred EEEeCceeEEEEeccCceEEEEcc
Confidence 367999999999 5766554443
No 6
>KOG2178|consensus
Probab=38.35 E-value=42 Score=29.47 Aligned_cols=28 Identities=21% Similarity=0.262 Sum_probs=25.0
Q ss_pred CCCCCHHHHHHHHHHHHHHHHhCCCcee
Q psy12266 77 DKPNDRSGLWLMSKAAACVIEEFNEYKM 104 (107)
Q Consensus 77 eKPnD~rfl~lM~~aA~~vm~ef~divl 104 (107)
.||+|+.....|.+-+..+++.||+|.+
T Consensus 100 ~K~~d~s~~~~~~Elv~~ll~~~~~i~V 127 (409)
T KOG2178|consen 100 TKKNDESVLEKFVELVEWLLQTFPNITV 127 (409)
T ss_pred EcCCcHHHHHHHHHHHHHHHhhCCCeEE
Confidence 3678999999999999999999997754
No 7
>PRK04282 exosome complex RNA-binding protein Rrp42; Provisional
Probab=37.69 E-value=10 Score=29.59 Aligned_cols=13 Identities=23% Similarity=0.692 Sum_probs=10.6
Q ss_pred EEEcCCCcccccc
Q psy12266 60 VRVDGKGFHKFTE 72 (107)
Q Consensus 60 VRIDGR~FhrFTk 72 (107)
+|+|||.|+.|=.
T Consensus 24 ~R~DGR~~~e~R~ 36 (271)
T PRK04282 24 KRIDGRKLDEYRP 36 (271)
T ss_pred CCCCCCCCccccC
Confidence 5999999998633
No 8
>PF03726 PNPase: Polyribonucleotide nucleotidyltransferase, RNA binding domain; InterPro: IPR015848 The PH (phosphorolytic) domain is responsible for 3'-5' exoribonuclease activity, although in some proteins this domain has lost its catalytic function. An active PH domain uses inorganic phosphate as a nucleophile, adding it across the phosphodiester bond between the end two nucleotides in order to release ribonucleoside 5'-diphosphate (rNDP) from the 3' end of the RNA substrate. PH domains can be found in bacterial/organelle RNases and PNPases (polynucleotide phosphorylases) [], as well as in archaeal and eukaryotic RNA exosomes [, ], the later acting as nano-compartments for the degradation or processing of RNA (including mRNA, rRNA, snRNA and snoRNA). Bacterial/organelle PNPases share a common barrel structure with RNA exosomes, consisting of a hexameric ring of PH domains that act as a degradation chamber, and an S1-domain/KH-domain containing cap that binds the RNA substrate (and sometimes accessory proteins) in order to regulate and restrict entry into the degradation chamber []. Unstructured RNA substrates feed in through the pore made by the S1 domains, are degraded by the PH domain ring, and exit as nucleotides via the PH pore at the opposite end of the barrel [, ]. This entry represents an RNA-binding phosphorolytic (PH) domain found in bacterial and organelle PNPases, but not in exosomes. It usually occurs in combination with PH domain 1 (IPR001247 from INTERPRO) and PH domain 2 (IPR015847 from INTERPRO), both of which are found in PNPases and exosomes. The core structure of the RNA-binding PH domain consists of a DNA/RNA-binding 3-helical bundle. More information about these proteins can be found at Protein of the Month: RNA Exosomes [].; GO: 0000175 3'-5'-exoribonuclease activity, 0003723 RNA binding, 0006396 RNA processing; PDB: 1E3H_A 1E3P_A 3U1K_B 3GCM_A 3GLL_A 3GME_A 4AM3_B 4AID_C 4AIM_A 1WHU_A ....
Probab=37.06 E-value=6.4 Score=25.68 Aligned_cols=7 Identities=43% Similarity=1.132 Sum_probs=4.1
Q ss_pred EEEcCCC
Q psy12266 60 VRVDGKG 66 (107)
Q Consensus 60 VRIDGR~ 66 (107)
+|+|||+
T Consensus 77 ~R~DGR~ 83 (83)
T PF03726_consen 77 IRIDGRK 83 (83)
T ss_dssp BTTTS-B
T ss_pred CCCCCCC
Confidence 5777774
No 9
>PLN02213 sinapoylglucose-malate O-sinapoyltransferase/ carboxypeptidase
Probab=33.65 E-value=1e+02 Score=24.71 Aligned_cols=42 Identities=21% Similarity=0.389 Sum_probs=31.8
Q ss_pred EEEEc---CCCccccccccCCCCCCCHHHHHHHHHHHHHHHHhCCCc
Q psy12266 59 VVRVD---GKGFHKFTEAHGFDKPNDRSGLWLMSKAAACVIEEFNEY 102 (107)
Q Consensus 59 VVRID---GR~FhrFTk~h~FeKPnD~rfl~lM~~aA~~vm~ef~di 102 (107)
||-|| |-||+ +++. .-..+.|....+-|..+-+..++.||+-
T Consensus 4 vLfiDqPvGvGfS-y~~~-~~~~~~d~~~a~d~~~fL~~Ff~~~p~~ 48 (319)
T PLN02213 4 IIFLDQPVGSGFS-YSKT-PIDKTGDISEVKRTHEFLQKWLSRHPQY 48 (319)
T ss_pred EEEecCCCCCCCC-CCCC-CCCccccHHHHHHHHHHHHHHHHhCccc
Confidence 57788 99999 4443 2345888776689999999999999863
No 10
>TIGR02065 ECX1 archaeal exosome-like complex exonuclease 1. This family contains the archaeal protein orthologous to the eukaryotic exosome protein Rrp41. It is somewhat more distantly related to the bacterial protein ribonuclease PH. An exosome-like complex has been demonstrated experimentally for the Archaea in Sulfolobus solfataricus, so members of this family are designated exosome complex exonuclease 1, after usage in SwissProt.
Probab=31.25 E-value=16 Score=27.93 Aligned_cols=12 Identities=33% Similarity=0.623 Sum_probs=8.7
Q ss_pred EEEcCCCccccc
Q psy12266 60 VRVDGKGFHKFT 71 (107)
Q Consensus 60 VRIDGR~FhrFT 71 (107)
+|+|||+++.+=
T Consensus 8 ~R~DGR~~~e~R 19 (230)
T TIGR02065 8 VRLDGRKPDELR 19 (230)
T ss_pred cCCCCCCccccc
Confidence 488888887653
No 11
>PF00450 Peptidase_S10: Serine carboxypeptidase; InterPro: IPR001563 In the MEROPS database peptidases and peptidase homologues are grouped into clans and families. Clans are groups of families for which there is evidence of common ancestry based on a common structural fold: Each clan is identified with two letters, the first representing the catalytic type of the families included in the clan (with the letter 'P' being used for a clan containing families of more than one of the catalytic types serine, threonine and cysteine). Some families cannot yet be assigned to clans, and when a formal assignment is required, such a family is described as belonging to clan A-, C-, M-, N-, S-, T- or U-, according to the catalytic type. Some clans are divided into subclans because there is evidence of a very ancient divergence within the clan, for example MA(E), the gluzincins, and MA(M), the metzincins. Peptidase families are grouped by their catalytic type, the first character representing the catalytic type: A, aspartic; C, cysteine; G, glutamic acid; M, metallo; N, asparagine; S, serine; T, threonine; and U, unknown. The serine, threonine and cysteine peptidases utilise the amino acid as a nucleophile and form an acyl intermediate - these peptidases can also readily act as transferases. In the case of aspartic, glutamic and metallopeptidases, the nucleophile is an activated water molecule. In the case of the asparagine endopeptidases, the nucleophile is asparagine and all are self-processing endopeptidases. In many instances the structural protein fold that characterises the clan or family may have lost its catalytic activity, yet retain its function in protein recognition and binding. Proteolytic enzymes that exploit serine in their catalytic activity are ubiquitous, being found in viruses, bacteria and eukaryotes []. They include a wide range of peptidase activity, including exopeptidase, endopeptidase, oligopeptidase and omega-peptidase activity. Over 20 families (denoted S1 - S66) of serine protease have been identified, these being grouped into clans on the basis of structural similarity and other functional evidence []. Structures are known for members of the clans and the structures indicate that some appear to be totally unrelated, suggesting different evolutionary origins for the serine peptidases []. Not withstanding their different evolutionary origins, there are similarities in the reaction mechanisms of several peptidases. Chymotrypsin, subtilisin and carboxypeptidase C have a catalytic triad of serine, aspartate and histidine in common: serine acts as a nucleophile, aspartate as an electrophile, and histidine as a base []. The geometric orientations of the catalytic residues are similar between families, despite different protein folds []. The linear arrangements of the catalytic residues commonly reflect clan relationships. For example the catalytic triad in the chymotrypsin clan (PA) is ordered HDS, but is ordered DHS in the subtilisin clan (SB) and SDH in the carboxypeptidase clan (SC) [, ]. This group of serine peptidases belong to MEROPS peptidase family S10 (clan SC). The type example is carboxypeptidase Y from Saccharomyces cerevisiae (Baker's yeast) []. All known carboxypeptidases are either metallo carboxypeptidases or serine carboxypeptidases (3.4.16.5 from EC and 3.4.16.6 from EC). The catalytic activity of the serine carboxypeptidases, like that of the trypsin family serine proteases, is provided by a charge relay system involving an aspartic acid residue hydrogen-bonded to a histidine, which is itself hydrogen-bonded to a serine []. The sequences surrounding the active site serine and histidine residues are highly conserved in all the serine carboxypeptidases.; GO: 0004185 serine-type carboxypeptidase activity, 0006508 proteolysis; PDB: 1AC5_A 1WHS_B 3SC2_B 1WHT_A 1BCR_A 1BCS_A 1GXS_A 1IVY_A 1WPX_A 1YSC_A ....
Probab=27.35 E-value=90 Score=24.63 Aligned_cols=44 Identities=20% Similarity=0.222 Sum_probs=33.2
Q ss_pred EEEEEc---CCCccccccccCCCCCCCHHHHHHHHHHHHHHHHhCCCc
Q psy12266 58 IVVRVD---GKGFHKFTEAHGFDKPNDRSGLWLMSKAAACVIEEFNEY 102 (107)
Q Consensus 58 IVVRID---GR~FhrFTk~h~FeKPnD~rfl~lM~~aA~~vm~ef~di 102 (107)
=||-|| |-||+.-..... .--+|+...+.+.+.-+..+.+||+.
T Consensus 87 n~l~iD~PvGtGfS~~~~~~~-~~~~~~~~a~~~~~fl~~f~~~~p~~ 133 (415)
T PF00450_consen 87 NLLFIDQPVGTGFSYGNDPSD-YVWNDDQAAEDLYEFLQQFFQKFPEY 133 (415)
T ss_dssp EEEEE--STTSTT-EESSGGG-GS-SHHHHHHHHHHHHHHHHHHSGGG
T ss_pred ceEEEeecCceEEeecccccc-ccchhhHHHHHHHHHHHHhhhhhhhc
Confidence 378899 999999887643 33467889999999999999999853
No 12
>PRK00807 50S ribosomal protein L24e; Validated
Probab=26.89 E-value=43 Score=20.92 Aligned_cols=24 Identities=17% Similarity=0.087 Sum_probs=18.1
Q ss_pred CCCcCCCCeEE-EEEcCCCcccccc
Q psy12266 49 HDRCLPNCFIV-VRVDGKGFHKFTE 72 (107)
Q Consensus 49 ~d~llP~~~IV-VRIDGR~FhrFTk 72 (107)
...+.|+..+. ||.||+-|.=.+.
T Consensus 8 G~~I~pg~G~~~vr~Dgkv~~Fcs~ 32 (52)
T PRK00807 8 GKEIEPGTGKMYVKKDGTILYFCSS 32 (52)
T ss_pred CCeEcCCCCeEEEEeCCcEEEEeCH
Confidence 44667788877 9999998875553
No 13
>PRK03983 exosome complex exonuclease Rrp41; Provisional
Probab=23.05 E-value=27 Score=26.90 Aligned_cols=11 Identities=27% Similarity=0.637 Sum_probs=9.2
Q ss_pred EEEcCCCcccc
Q psy12266 60 VRVDGKGFHKF 70 (107)
Q Consensus 60 VRIDGR~FhrF 70 (107)
+|+|||.+..+
T Consensus 14 ~R~DGR~~~~~ 24 (244)
T PRK03983 14 LRLDGRKPDEL 24 (244)
T ss_pred CCCCCCCcCcc
Confidence 49999998876
No 14
>smart00771 ZipA_C ZipA, C-terminal domain (FtsZ-binding). C-terminal domain of ZipA, a component of cell division in E.coli. It interacts with the FtsZ protein in one of the initial steps of septum formation. The structure of this domain is composed of three alpha-helices and a beta-sheet consisting of six antiparallel beta-strands.
Probab=22.48 E-value=1.2e+02 Score=21.79 Aligned_cols=26 Identities=12% Similarity=0.148 Sum_probs=22.3
Q ss_pred CCCHHHHHHHHHHHHHHHHhCCCcee
Q psy12266 79 PNDRSGLWLMSKAAACVIEEFNEYKM 104 (107)
Q Consensus 79 PnD~rfl~lM~~aA~~vm~ef~divl 104 (107)
++..+.-+.|.++|+.+-+++...++
T Consensus 87 ~~~~~~F~~M~~~A~~lA~~L~g~ll 112 (131)
T smart00771 87 GDALQNFDLMLQTARRLADDLGGVVL 112 (131)
T ss_pred CcHHHHHHHHHHHHHHHHHHcCCEEE
Confidence 46888999999999999999977654
No 15
>cd00231 ZipA ZipA C-terminal domain. ZipA, a membrane-anchored protein, is one of at least nine essential gene products necessary for assembly of the septal ring which mediates cell division in E.coli. ZipA and FtsA directly bind FtsZ, a homolog of eukaryotic tubulins, at the prospective division site, followed by the sequential addition of FtsK, FtsQ, FtsL, FtsW, FtsI, and FtsN. ZipA contains three domains: a short N-terminal membrane-anchored domain, a central P/Q domain that is rich in proline and glutamine and a C-terminal domain, which comprises almost half the protein.
Probab=22.34 E-value=1.3e+02 Score=21.84 Aligned_cols=25 Identities=16% Similarity=0.244 Sum_probs=22.1
Q ss_pred CCHHHHHHHHHHHHHHHHhCCCcee
Q psy12266 80 NDRSGLWLMSKAAACVIEEFNEYKM 104 (107)
Q Consensus 80 nD~rfl~lM~~aA~~vm~ef~divl 104 (107)
+..+.-+.|.++|+.+-+++...++
T Consensus 87 ~~~~~F~~Ml~~A~~lA~~LgG~ll 111 (130)
T cd00231 87 DALQNFKLMLQAAQRIADDLGGVVL 111 (130)
T ss_pred cHHHHHHHHHHHHHHHHHHcCCEEE
Confidence 7889999999999999999987654
No 16
>PF09829 DUF2057: Uncharacterized protein conserved in bacteria (DUF2057); InterPro: IPR018635 The proteins in this entry are functionally uncharacterised.
Probab=21.83 E-value=1.1e+02 Score=22.76 Aligned_cols=48 Identities=19% Similarity=0.245 Sum_probs=34.0
Q ss_pred hhhhhhccc--CCCcCCCCeEEEEEcCCCccccccccCCCCCCCHHHHHHHHH
Q psy12266 40 FEYVREFES--HDRCLPNCFIVVRVDGKGFHKFTEAHGFDKPNDRSGLWLMSK 90 (107)
Q Consensus 40 yeYVK~fE~--~d~llP~~~IVVRIDGR~FhrFTk~h~FeKPnD~rfl~lM~~ 90 (107)
+.|-+.|.. +......-|+||.+|+.+ ..++-. +.+|.+.+-.+.+++
T Consensus 41 ~ry~~~~~~~~~~~~~~S~p~i~~f~~~~-~~~~l~--~p~~~~~~~a~~F~~ 90 (189)
T PF09829_consen 41 FRYSKIFSSGGDHEKVKSDPYIVTFDASD-QDLTLS--LPKIRSEQQAKAFAK 90 (189)
T ss_pred EEEeEeeccCCCeeEEEeCCEEEEEEcCC-cEEEEE--cCCCCCHHHHHHHHh
Confidence 344444432 334556679999999999 988876 888999887766544
No 17
>PRK00173 rph ribonuclease PH; Reviewed
Probab=21.64 E-value=29 Score=26.81 Aligned_cols=10 Identities=30% Similarity=0.634 Sum_probs=4.9
Q ss_pred EEcCCCcccc
Q psy12266 61 RVDGKGFHKF 70 (107)
Q Consensus 61 RIDGR~FhrF 70 (107)
|+|||.+..+
T Consensus 2 R~DGR~~~e~ 11 (238)
T PRK00173 2 RPDGRAADQL 11 (238)
T ss_pred CCCCCCcccc
Confidence 4555554443
No 18
>COG1504 Uncharacterized conserved protein [Function unknown]
Probab=21.64 E-value=74 Score=23.72 Aligned_cols=42 Identities=26% Similarity=0.159 Sum_probs=28.7
Q ss_pred CeEEEEEcCCCccccccccCCCCCCCHHH----HHHHHHHHHHHHHhCCCcee
Q psy12266 56 CFIVVRVDGKGFHKFTEAHGFDKPNDRSG----LWLMSKAAACVIEEFNEYKM 104 (107)
Q Consensus 56 ~~IVVRIDGR~FhrFTk~h~FeKPnD~rf----l~lM~~aA~~vm~ef~divl 104 (107)
.=||||.||+- +.++||+-.+- +++--+-+++++++=||.++
T Consensus 21 ~DIvi~~dG~v-------~rr~K~lskrK~GTSHkl~~eEle~~lee~~E~iv 66 (121)
T COG1504 21 HDIVIRPDGKV-------ERREKELSKRKYGTSHKLALEELEELLEEGPEVIV 66 (121)
T ss_pred ccEEEecCCce-------ehhhhhhhhhhcCcccccCHHHHHHHHhcCCcEEE
Confidence 35888889863 23566665543 56667778888888887765
No 19
>PF14350 Beta_protein: Beta protein
Probab=21.57 E-value=1.8e+02 Score=23.44 Aligned_cols=35 Identities=17% Similarity=0.276 Sum_probs=23.6
Q ss_pred CCCCeEEEEEcCCCccccccccCCCCCCCHHHHHHHHHHHHHHHH
Q psy12266 53 LPNCFIVVRVDGKGFHKFTEAHGFDKPNDRSGLWLMSKAAACVIE 97 (107)
Q Consensus 53 lP~~~IVVRIDGR~FhrFTk~h~FeKPnD~rfl~lM~~aA~~vm~ 97 (107)
.++.|+|+| |+.|++--.. ..... .|.++|+.|++
T Consensus 265 ~~~~w~~~R--g~~~~~~~~~------~~~~~--~y~~~a~~lv~ 299 (347)
T PF14350_consen 265 TDDKWYVVR--GRRFKRRGAG------FEGEA--QYQDLARQLVN 299 (347)
T ss_pred CCCcEEEEE--CccccCCCcc------cchHH--HHHHHHHHHHh
Confidence 578899999 8887773221 11122 78888888885
No 20
>PRK02260 S-ribosylhomocysteinase; Provisional
Probab=21.09 E-value=99 Score=23.74 Aligned_cols=41 Identities=20% Similarity=0.241 Sum_probs=27.4
Q ss_pred hhhhcccCCCcCCCCe--EEEEEcCCCcccccc-ccCCCCCCCH
Q psy12266 42 YVREFESHDRCLPNCF--IVVRVDGKGFHKFTE-AHGFDKPNDR 82 (107)
Q Consensus 42 YVK~fE~~d~llP~~~--IVVRIDGR~FhrFTk-~h~FeKPnD~ 82 (107)
.|-+|+.|.+.+..-+ .+=|.||-+=...|+ +..|.+||-+
T Consensus 3 ~i~SF~lDHtkv~ap~vR~~~~~d~~~gd~it~fDlR~~qPN~e 46 (158)
T PRK02260 3 LVESFTLDHTKVKAPYVRLAGTKDGPKGDVITKFDLRFCQPNKE 46 (158)
T ss_pred CCceEecccccccCCeEEEEEEEEcCCCCEEEEEeeeecCCChh
Confidence 3678888655433224 677788755556666 5679999977
No 21
>TIGR01966 RNasePH ribonuclease PH. This bacterial enzyme, ribonuclease PH, performs the final 3'-trimming and modification of tRNA precursors. This model is restricted absolutely to bacteria. Related families outside the model include proteins described as probable exosome complex exonucleases (rRNA processing) and polyribonucleotide nucleotidyltransferases (mRNA degradation). The most divergent member within the family is RNase PH from Deinococcus radiodurans.
Probab=20.43 E-value=34 Score=26.28 Aligned_cols=7 Identities=29% Similarity=0.368 Sum_probs=2.8
Q ss_pred EcCCCcc
Q psy12266 62 VDGKGFH 68 (107)
Q Consensus 62 IDGR~Fh 68 (107)
+|||++.
T Consensus 2 ~DGR~~~ 8 (236)
T TIGR01966 2 PDGRKPD 8 (236)
T ss_pred CCCCCCC
Confidence 3444433
Done!