Query 044530
Match_columns 151
No_of_seqs 115 out of 1048
Neff 6.2
Searched_HMMs 46136
Date Fri Mar 29 04:08:18 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/044530.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/044530hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PRK04027 30S ribosomal protein 100.0 5E-57 1.1E-61 355.9 16.8 151 1-151 45-195 (195)
2 PTZ00091 40S ribosomal protein 100.0 5.5E-57 1.2E-61 355.0 16.9 151 1-151 43-193 (193)
3 TIGR01028 S7_S5_E_A ribosomal 100.0 7.1E-57 1.5E-61 353.5 16.4 151 1-151 36-186 (186)
4 COG0049 RpsG Ribosomal protein 100.0 2.8E-54 6E-59 326.3 16.3 142 1-151 7-148 (148)
5 TIGR01029 rpsG_bact ribosomal 100.0 4.3E-49 9.3E-54 302.3 16.2 135 8-151 13-147 (154)
6 PRK05302 30S ribosomal protein 100.0 1.6E-48 3.5E-53 299.6 16.2 135 8-151 15-149 (156)
7 PF00177 Ribosomal_S7: Ribosom 100.0 9.2E-48 2E-52 292.8 17.6 142 1-151 5-148 (148)
8 CHL00053 rps7 ribosomal protei 100.0 7.5E-48 1.6E-52 295.6 16.8 135 8-151 15-149 (155)
9 KOG3291 Ribosomal protein S7 [ 100.0 2.6E-48 5.6E-53 307.6 14.3 149 1-151 60-208 (208)
10 PF02607 B12-binding_2: B12 bi 58.5 20 0.00043 23.3 3.9 46 13-71 2-47 (79)
11 KOG3960 Myogenic helix-loop-he 54.8 16 0.00034 30.7 3.4 34 38-71 131-170 (284)
12 KOG3291 Ribosomal protein S7 [ 42.4 13 0.00029 30.1 1.2 28 8-35 71-98 (208)
13 PF10798 YmgB: Biofilm develop 38.8 43 0.00093 21.8 3.0 50 13-66 4-53 (61)
14 PF05186 Dpy-30: Dpy-30 motif; 36.2 77 0.0017 18.9 3.6 29 38-66 12-40 (42)
15 PF03704 BTAD: Bacterial trans 30.9 1.8E+02 0.0039 20.6 5.6 52 9-64 92-143 (146)
16 PF12651 RHH_3: Ribbon-helix-h 27.4 1.2E+02 0.0026 18.1 3.4 27 40-66 13-39 (44)
17 PF13374 TPR_10: Tetratricopep 27.1 1.1E+02 0.0024 16.4 4.2 35 16-54 5-39 (42)
18 PF11062 DUF2863: Protein of u 25.0 3.1E+02 0.0068 24.4 6.8 58 15-84 40-97 (398)
19 PF09974 DUF2209: Uncharacteri 24.7 1.7E+02 0.0036 22.0 4.4 58 54-124 52-109 (128)
20 COG5012 Predicted cobalamin bi 24.2 1.9E+02 0.0042 23.8 5.1 47 15-71 18-64 (227)
21 PRK05907 hypothetical protein; 23.9 2.7E+02 0.0059 23.5 6.2 79 16-106 208-288 (311)
22 TIGR02863 spore_sspJ small, ac 23.7 1.5E+02 0.0032 18.3 3.3 32 30-64 10-41 (47)
23 PF06144 DNA_pol3_delta: DNA p 21.5 2.5E+02 0.0055 20.4 5.0 84 51-147 73-171 (172)
24 PF15127 DUF4565: Protein of u 20.6 75 0.0016 22.5 1.8 14 115-128 56-69 (91)
25 KOG1546 Metacaspase involved i 20.6 58 0.0013 28.4 1.4 23 85-107 115-137 (362)
26 PF05218 DUF713: Protein of un 20.0 2.4E+02 0.0052 22.1 4.8 20 51-70 136-155 (182)
No 1
>PRK04027 30S ribosomal protein S7P; Reviewed
Probab=100.00 E-value=5e-57 Score=355.94 Aligned_cols=151 Identities=55% Similarity=0.785 Sum_probs=147.5
Q ss_pred CCccccccCCCCChHHHHHHHHhhcCCCccChHHHHHHHHHHHHHHHHhhcCCChHHHHHHHHHhcCcccceeeeccCCe
Q 044530 1 GRYSVKRFRKAQCPIVERLTNSLMMHGRNNGKKLMAVLIVKHAMEIIHLLTDQNPIQVIVDAVINSGPREDATRIGSAGV 80 (151)
Q Consensus 1 ~~~~~k~~~~~~~~~v~k~iN~lM~~~~~~GKK~~A~~i~~~al~~i~~~~~~npi~vl~~Ai~n~~P~~e~~~i~~gG~ 80 (151)
|||++|+|.++++++|++|||.||++|.++|||++|++|||+||++|+..|++||++||++||+|++|.+|++++++||.
T Consensus 45 gr~~~k~f~k~~~~iVerLiN~lM~~~~n~GKK~~A~~Iv~~AfeiI~~kT~~nPiqVl~~AI~N~~P~~Ev~~~r~GG~ 124 (195)
T PRK04027 45 GRHAKKQFGKAEVPIVERLINKLMRTERNTGKKQKAYNIVKEAFEIIEKRTKQNPIQVLVDAIENAAPREETTRIKYGGI 124 (195)
T ss_pred ccccccCcccccCHHHHHHHHHHhccCccCCcHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHcCCCCeEEEEEecCCE
Confidence 89999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred eEEEeeecChhHHHHHHHHHHHHHHHhhccCCcCcHHHHHHHHHHHHHcCCCchhhHHhHHHHHHHHHhcC
Q 044530 81 VRRQAVDISPLRRVNQALYLLTTGARESAFRNIKTIAECLADELINAAKGSSNSYAIKKKDEIERVAKANR 151 (151)
Q Consensus 81 ~~~vPv~i~~~rr~~lAikWii~~a~~~~~r~~~~~~~~La~Eii~A~~~~g~~~aikkK~e~hk~A~aNR 151 (151)
+|||||+|+|.||+++||+||+++|++++++++++|+++||+|||||++++|.|+||+||||+||||+|||
T Consensus 125 tyqvpVdV~p~Rr~~lAirwI~~~ar~r~fr~~ksm~e~LA~ElidAa~~~~~g~AikKKeE~hRmAeANr 195 (195)
T PRK04027 125 SYPKAVDVSPQRRVDLALRFIAEGARQASFKNKKSIEEALAEEIIAAANNDPKSYAVRKKEEIERVAKSAR 195 (195)
T ss_pred EEEeeeecCHHHHHHHHHHHHHHHHHhccccCCCCHHHHHHHHHHHHHcCCCCCceeecHHHHHHHHHhcC
Confidence 99999999999999999999999999988888999999999999999999765579999999999999998
No 2
>PTZ00091 40S ribosomal protein S5; Provisional
Probab=100.00 E-value=5.5e-57 Score=354.96 Aligned_cols=151 Identities=83% Similarity=1.223 Sum_probs=148.1
Q ss_pred CCccccccCCCCChHHHHHHHHhhcCCCccChHHHHHHHHHHHHHHHHhhcCCChHHHHHHHHHhcCcccceeeeccCCe
Q 044530 1 GRYSVKRFRKAQCPIVERLTNSLMMHGRNNGKKLMAVLIVKHAMEIIHLLTDQNPIQVIVDAVINSGPREDATRIGSAGV 80 (151)
Q Consensus 1 ~~~~~k~~~~~~~~~v~k~iN~lM~~~~~~GKK~~A~~i~~~al~~i~~~~~~npi~vl~~Ai~n~~P~~e~~~i~~gG~ 80 (151)
|||++|+|.++++|+|++|||.||++|.++|||++|++||++||++|+..|++||++||++||+|++|.+|++++++||.
T Consensus 43 gr~~~k~f~k~~~~iVerLiN~lM~~grn~GKK~~A~~IV~~AfeiI~~~t~~nPiqVl~~AI~N~~P~~e~~ri~~GG~ 122 (193)
T PTZ00091 43 GRYQKKRFRKAQCPIVERLVNSLMFHGRNNGKKLLAVRIVKHAFEIIHLLTDKNPLQVLVDAVQNGGPREDSTRVGSGGV 122 (193)
T ss_pred chhhcCccCcccCHHHHHHHHHHhccCccCCcHHHHHHHHHHHHHHHHHHHCCChHHHHHHHHHhCCCCeeeEEeecCCe
Confidence 89999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred eEEEeeecChhHHHHHHHHHHHHHHHhhccCCcCcHHHHHHHHHHHHHcCCCchhhHHhHHHHHHHHHhcC
Q 044530 81 VRRQAVDISPLRRVNQALYLLTTGARESAFRNIKTIAECLADELINAAKGSSNSYAIKKKDEIERVAKANR 151 (151)
Q Consensus 81 ~~~vPv~i~~~rr~~lAikWii~~a~~~~~r~~~~~~~~La~Eii~A~~~~g~~~aikkK~e~hk~A~aNR 151 (151)
+|||||+|+|.||+++||+||+++|++.++|++++|+++||+|||+|++++|+|+||+||||+||||++||
T Consensus 123 ~yqvpVdVsp~Rr~~lAirwI~~~ar~~~fR~~ks~~e~LA~Eli~Aa~~~~~s~AikKKeE~hR~AeANR 193 (193)
T PTZ00091 123 VRRQAVDVSPLRRVNQAIYLICKGAREAAFRNIKTIAECLADEIINASKESSNSYAIKKKDEVERVAKANR 193 (193)
T ss_pred EEEEeeecChHHHHHHHHHHHHHHHHhhcccCCCCHHHHHHHHHHHHHhCCCCCcceehHHHHHHHHHhcC
Confidence 99999999999999999999999999988888999999999999999999977789999999999999998
No 3
>TIGR01028 S7_S5_E_A ribosomal protein S7(archaeal)/S5(eukaryotic). This model describes the members from the eukaryotic cytosol and the Archaea of the family that includes ribosomal protein S7 of bacteria and S5 of eukaryotes. A separate model describes bacterial and organellar S7.
Probab=100.00 E-value=7.1e-57 Score=353.47 Aligned_cols=151 Identities=68% Similarity=0.950 Sum_probs=147.2
Q ss_pred CCccccccCCCCChHHHHHHHHhhcCCCccChHHHHHHHHHHHHHHHHhhcCCChHHHHHHHHHhcCcccceeeeccCCe
Q 044530 1 GRYSVKRFRKAQCPIVERLTNSLMMHGRNNGKKLMAVLIVKHAMEIIHLLTDQNPIQVIVDAVINSGPREDATRIGSAGV 80 (151)
Q Consensus 1 ~~~~~k~~~~~~~~~v~k~iN~lM~~~~~~GKK~~A~~i~~~al~~i~~~~~~npi~vl~~Ai~n~~P~~e~~~i~~gG~ 80 (151)
|||++|+|+++++|+|++|||+||+||.++|||++|++||++||++|+..|++||+++|++||+|++|.+|++++++||+
T Consensus 36 gr~~~k~f~k~~~~iV~rliN~lM~~g~n~GKK~~A~kIv~~A~~iI~~~t~~nPi~vl~~AI~N~~P~~ev~~~r~GG~ 115 (186)
T TIGR01028 36 GRHAKKQFRKAKVPIVERLINKVMRSGRNNGKKLKAYRIVKEAFEIIEKRTGENPIQVLVDAIENAGPREDTTRIGYGGI 115 (186)
T ss_pred hhhhccccCcccCHHHHHHHHHHhccCcCCCcHHHHHHHHHHHHHHHHHHhCCChHHHHHHHHHcCCCCeEEEEEecCCE
Confidence 89999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred eEEEeeecChhHHHHHHHHHHHHHHHhhccCCcCcHHHHHHHHHHHHHcCCCchhhHHhHHHHHHHHHhcC
Q 044530 81 VRRQAVDISPLRRVNQALYLLTTGARESAFRNIKTIAECLADELINAAKGSSNSYAIKKKDEIERVAKANR 151 (151)
Q Consensus 81 ~~~vPv~i~~~rr~~lAikWii~~a~~~~~r~~~~~~~~La~Eii~A~~~~g~~~aikkK~e~hk~A~aNR 151 (151)
+||||++|+|.||+++||+||+++|++.++|++++|+++||+||++|++|+|.|+||+||||+|||||+||
T Consensus 116 ~yqVPv~v~p~Rr~~lAirWI~~~ar~~~~R~~k~m~~~LA~Eii~A~~~~g~g~AikKKeE~hr~AeaNR 186 (186)
T TIGR01028 116 VYRQAVDISPLRRVDQALRNIALGAREAAFRNKKSIAECLAEEIILAANGDSKSYAIKKKEELERVAKSAR 186 (186)
T ss_pred EEEeccccCHHHHHHHHHHHHHHHHHHhcccCCCcHHHHHHHHHHHHHhCCCCCceeehHHHHHHHHHhcC
Confidence 99999999999999999999999999877778899999999999999999986679999999999999998
No 4
>COG0049 RpsG Ribosomal protein S7 [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=2.8e-54 Score=326.29 Aligned_cols=142 Identities=45% Similarity=0.575 Sum_probs=138.8
Q ss_pred CCccccccCCCCChHHHHHHHHhhcCCCccChHHHHHHHHHHHHHHHHhhcCCChHHHHHHHHHhcCcccceeeeccCCe
Q 044530 1 GRYSVKRFRKAQCPIVERLTNSLMMHGRNNGKKLMAVLIVKHAMEIIHLLTDQNPIQVIVDAVINSGPREDATRIGSAGV 80 (151)
Q Consensus 1 ~~~~~k~~~~~~~~~v~k~iN~lM~~~~~~GKK~~A~~i~~~al~~i~~~~~~npi~vl~~Ai~n~~P~~e~~~i~~gG~ 80 (151)
|++...++|++.+++|++|||.||+ +|||++|++|||.||++|++.|++|||++|++||+|++|.+|+++.++||.
T Consensus 7 ~kr~~~~dpk~~~~iv~rliN~iM~----~GKK~~A~~Ivy~Af~ii~~kTg~~Piqvf~~Ai~N~~P~~Ev~srrvGGa 82 (148)
T COG0049 7 GKREVLPDPKYNSVIVERLINKIMR----DGKKSLAEKIVYGAFDIIEKKTGQNPLQVFEKAIENVKPREEVKSRRVGGA 82 (148)
T ss_pred CcccCCCCcccccHHHHHHHHHHHH----hccHHHHHHHHHHHHHHHHHHHCCChHHHHHHHHHhcCchhheeeeeeCCe
Confidence 6888999999999999999999999 799999999999999999999999999999999999999999999999999
Q ss_pred eEEEeeecChhHHHHHHHHHHHHHHHhhccCCcCcHHHHHHHHHHHHHcCCCchhhHHhHHHHHHHHHhcC
Q 044530 81 VRRQAVDISPLRRVNQALYLLTTGARESAFRNIKTIAECLADELINAAKGSSNSYAIKKKDEIERVAKANR 151 (151)
Q Consensus 81 ~~~vPv~i~~~rr~~lAikWii~~a~~~~~r~~~~~~~~La~Eii~A~~~~g~~~aikkK~e~hk~A~aNR 151 (151)
+|||||+++|.||+++||+||+++|++ +++++|+++||+|||||++|+| +||+||||+||||+|||
T Consensus 83 ~yqvpVeV~p~RR~~lAlrwi~~~Ar~---r~~ktm~erLA~Eli~Aan~~g--~AikKked~hRmAeAnr 148 (148)
T COG0049 83 TYQVPVEVRPRRRVALALRWIVEGARK---RNEKTMAERLANELIDAANNTG--AAIKKKEDTHRMAEANR 148 (148)
T ss_pred eeEecCccCHHHHHHHHHHHHHHHHHh---cCCCCHHHHHHHHHHHHHcCCc--chhhhHHHHHHHHHhcC
Confidence 999999999999999999999999999 7889999999999999999999 49999999999999997
No 5
>TIGR01029 rpsG_bact ribosomal protein S7, bacterial/organelle. This model describes the bacterial and organellar branch of the ribosomal protein S7 family (includes prokaroytic S7 and eukaryotic S5). The eukaryotic and archaeal branch is described by model TIGR01028.
Probab=100.00 E-value=4.3e-49 Score=302.28 Aligned_cols=135 Identities=32% Similarity=0.439 Sum_probs=130.5
Q ss_pred cCCCCChHHHHHHHHhhcCCCccChHHHHHHHHHHHHHHHHhhcCCChHHHHHHHHHhcCcccceeeeccCCeeEEEeee
Q 044530 8 FRKAQCPIVERLTNSLMMHGRNNGKKLMAVLIVKHAMEIIHLLTDQNPIQVIVDAVINSGPREDATRIGSAGVVRRQAVD 87 (151)
Q Consensus 8 ~~~~~~~~v~k~iN~lM~~~~~~GKK~~A~~i~~~al~~i~~~~~~npi~vl~~Ai~n~~P~~e~~~i~~gG~~~~vPv~ 87 (151)
-|.++|++|++|||+||+ +|||++|++||+++|++|+..+++||+++|++||+|++|++|++++++||.+||||++
T Consensus 13 d~~y~~~lv~~lin~lM~----~GKK~~A~kI~~~al~~i~~~~~~nPi~vl~~Ai~nv~P~~evk~~r~gG~~yqvP~~ 88 (154)
T TIGR01029 13 DPVYGSVLLNKFINRVMK----DGKKSLAESIVYKAFERIAKKTGEDPLEVFEQALENVKPLVEVKSRRVGGATYQVPVE 88 (154)
T ss_pred CCccCCHHHHHHHHHHHh----cccHHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHhCCCCeeeEEeecCCEEEEEeeE
Confidence 456779999999999999 7999999999999999999999999999999999999999999999999999999999
Q ss_pred cChhHHHHHHHHHHHHHHHhhccCCcCcHHHHHHHHHHHHHcCCCchhhHHhHHHHHHHHHhcC
Q 044530 88 ISPLRRVNQALYLLTTGARESAFRNIKTIAECLADELINAAKGSSNSYAIKKKDEIERVAKANR 151 (151)
Q Consensus 88 i~~~rr~~lAikWii~~a~~~~~r~~~~~~~~La~Eii~A~~~~g~~~aikkK~e~hk~A~aNR 151 (151)
|++.||+++||+||+++|++ +++++|+++||+||++|++++|. ++++|||+||||++||
T Consensus 89 v~~~rr~~lAirWil~~a~~---r~~~~~~~~La~Eii~A~~~~g~--aikkKee~hk~AeaNR 147 (154)
T TIGR01029 89 VRPSRRYALAIRWLIEAARK---RGGKSMAERLANEILDAANNTGA--AIKKREDTHRMAEANK 147 (154)
T ss_pred cCHHHHHHHHHHHHHHHHHh---cCCCCHHHHHHHHHHHHHhCCCc--eeeHHHHHHHHHHHhH
Confidence 99999999999999999999 67899999999999999999996 9999999999999997
No 6
>PRK05302 30S ribosomal protein S7; Validated
Probab=100.00 E-value=1.6e-48 Score=299.63 Aligned_cols=135 Identities=35% Similarity=0.480 Sum_probs=130.5
Q ss_pred cCCCCChHHHHHHHHhhcCCCccChHHHHHHHHHHHHHHHHhhcCCChHHHHHHHHHhcCcccceeeeccCCeeEEEeee
Q 044530 8 FRKAQCPIVERLTNSLMMHGRNNGKKLMAVLIVKHAMEIIHLLTDQNPIQVIVDAVINSGPREDATRIGSAGVVRRQAVD 87 (151)
Q Consensus 8 ~~~~~~~~v~k~iN~lM~~~~~~GKK~~A~~i~~~al~~i~~~~~~npi~vl~~Ai~n~~P~~e~~~i~~gG~~~~vPv~ 87 (151)
-|.++||+|++|||+||+ +|||++|++||+++|++|++.+++||+++|++||+||+|++|++++++||.+||||++
T Consensus 15 d~~~~~~lv~~lin~lmk----~GKK~~A~kI~~~al~~I~~~~~~npl~il~~Ai~nv~P~~evk~~r~gG~~~~vP~~ 90 (156)
T PRK05302 15 DPKYGSVLVTKFINKLML----DGKKSVAEKIVYGALDIIEEKTGKDPLEVFEKALENVKPVVEVKSRRVGGATYQVPVE 90 (156)
T ss_pred CCCcCCHHHHHHHHHHhh----cccHHHHHHHHHHHHHHHHHHcCCChHHHHHHHHHhCCCCeEEeeeccCCEEEEEeEE
Confidence 467789999999999999 6999999999999999999999999999999999999999999999999999999999
Q ss_pred cChhHHHHHHHHHHHHHHHhhccCCcCcHHHHHHHHHHHHHcCCCchhhHHhHHHHHHHHHhcC
Q 044530 88 ISPLRRVNQALYLLTTGARESAFRNIKTIAECLADELINAAKGSSNSYAIKKKDEIERVAKANR 151 (151)
Q Consensus 88 i~~~rr~~lAikWii~~a~~~~~r~~~~~~~~La~Eii~A~~~~g~~~aikkK~e~hk~A~aNR 151 (151)
|+|.||+++||+||+++|++ |++++|+++||+||++|++++|. ++++|||+||+|++||
T Consensus 91 i~~~rr~~lAirwil~~a~~---r~~~~~~~~La~Eii~A~~~~g~--aikkK~e~hk~A~aNR 149 (156)
T PRK05302 91 VRPERRQALAMRWLVEAARK---RGEKTMAERLANELLDAANNRGA--AVKKREDTHRMAEANK 149 (156)
T ss_pred eCHHHHHHHHHHHHHHHHHH---cCCCCHHHHHHHHHHHHHhCCCC--eeehHHHHHHHHHHhh
Confidence 99999999999999999998 67799999999999999999996 9999999999999997
No 7
>PF00177 Ribosomal_S7: Ribosomal protein S7p/S5e; InterPro: IPR023798 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 S7 is one of the proteins from the small ribosomal subunit. In Escherichia coli, S7 is known to bind directly to part of the 3'end of 16S ribosomal RNA. It belongs to a family of ribosomal proteins which have been grouped on the basis of sequence similarities [, , ]. This entry represents the S7 structural domain, which consists of a bundle of six helices and an extended beta hairpin between helices 3 and 4, with two or more RNA-binding sites on its surface [].; PDB: 3IZ6_F 3V28_G 2WRN_G 2HHH_G 2V46_G 3KNL_G 2UUC_G 2Y16_G 2Y0W_G 2J02_G ....
Probab=100.00 E-value=9.2e-48 Score=292.77 Aligned_cols=142 Identities=40% Similarity=0.554 Sum_probs=135.4
Q ss_pred CCcccc--ccCCCCChHHHHHHHHhhcCCCccChHHHHHHHHHHHHHHHHhhcCCChHHHHHHHHHhcCcccceeeeccC
Q 044530 1 GRYSVK--RFRKAQCPIVERLTNSLMMHGRNNGKKLMAVLIVKHAMEIIHLLTDQNPIQVIVDAVINSGPREDATRIGSA 78 (151)
Q Consensus 1 ~~~~~k--~~~~~~~~~v~k~iN~lM~~~~~~GKK~~A~~i~~~al~~i~~~~~~npi~vl~~Ai~n~~P~~e~~~i~~g 78 (151)
|||.++ ..+.++|+++++|||+||+ +|||++|++||+++|+.|+..+++||+++|++||+|++|+++++++++|
T Consensus 5 ~~~~k~~~~~~~~~~~lv~k~in~lmk----~GkK~~A~~i~~~al~~i~~~~~~npi~il~~Ai~n~~P~~~v~~~k~g 80 (148)
T PF00177_consen 5 GRYKKKKIPDPKFNDPLVKKFINRLMK----DGKKSKAEKIVYKALEIIKKKTNKNPIQILKQAIENVKPLVEVRSIKKG 80 (148)
T ss_dssp SS-SSSS-SBTTTCGHHHHHHHHHHHS----TTBHHHHHHHHHHHHHHHHHHHSSSHHHHHHHHHHHHS-SEEEEEEEET
T ss_pred CCCCCCCCCCcccccHHHHHHHHHHHH----HhHHHHHHHHHHHHHHHhhcccCCCHHHHHHHHHHHhccceeeeeeccC
Confidence 688888 6778999999999999999 7999999999999999999999999999999999999999999999999
Q ss_pred CeeEEEeeecChhHHHHHHHHHHHHHHHhhccCCcCcHHHHHHHHHHHHHcCCCchhhHHhHHHHHHHHHhcC
Q 044530 79 GVVRRQAVDISPLRRVNQALYLLTTGARESAFRNIKTIAECLADELINAAKGSSNSYAIKKKDEIERVAKANR 151 (151)
Q Consensus 79 G~~~~vPv~i~~~rr~~lAikWii~~a~~~~~r~~~~~~~~La~Eii~A~~~~g~~~aikkK~e~hk~A~aNR 151 (151)
|++|+||++|++.||+++||+||+++|++ +++++|+++||+||++|++++|. ++++|+|+||+|++||
T Consensus 81 g~~~~vP~~i~~~r~~~lAikWi~~~~~~---r~~~~~~~~La~Eii~a~~~~g~--aikkK~~lhk~A~~NR 148 (148)
T PF00177_consen 81 GKTYQVPVPISPKRRIFLAIKWILEAARK---RKEKSFSERLANEIIDASNNKGS--AIKKKEELHKMAEANR 148 (148)
T ss_dssp TEEEEEEEEETHHHHHHHHHHHHHHHHHT---SSSSSHHHHHHHHHHHHHTTSSH--HHHHHHHHHHHHHHTG
T ss_pred ceeEEEEEeecHHHHHHHHHHHHHHHHhh---cccchHHHHHHHHHHHHHcCCcH--HHHHHHHHHHHHHhcC
Confidence 99999999999999999999999999997 77889999999999999999995 9999999999999998
No 8
>CHL00053 rps7 ribosomal protein S7
Probab=100.00 E-value=7.5e-48 Score=295.64 Aligned_cols=135 Identities=33% Similarity=0.439 Sum_probs=129.7
Q ss_pred cCCCCChHHHHHHHHhhcCCCccChHHHHHHHHHHHHHHHHhhcCCChHHHHHHHHHhcCcccceeeeccCCeeEEEeee
Q 044530 8 FRKAQCPIVERLTNSLMMHGRNNGKKLMAVLIVKHAMEIIHLLTDQNPIQVIVDAVINSGPREDATRIGSAGVVRRQAVD 87 (151)
Q Consensus 8 ~~~~~~~~v~k~iN~lM~~~~~~GKK~~A~~i~~~al~~i~~~~~~npi~vl~~Ai~n~~P~~e~~~i~~gG~~~~vPv~ 87 (151)
-|.++++++++|||+||+ +|||++|++||+++|++|+..|++||+++|++||+|++|++|++++++||.+||||++
T Consensus 15 d~~~~~~lv~~lin~lm~----~GKK~~A~kIv~~al~~i~~~~~~npi~vl~~Ai~N~~P~~evk~~r~gG~~~qvPv~ 90 (155)
T CHL00053 15 DPIYRNRLVNMLVNRILK----SGKKSLAYRIVYRALKKIQQKTEKNPLSVLRQAIRNVTPDVEVKARRVGGSTYQVPIE 90 (155)
T ss_pred CCCcCcHHHHHHHHHHHh----cccHHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHhCCCcEEEEEEeeCCEEEEEeeE
Confidence 356778999999999999 7999999999999999999999999999999999999999999999999999999999
Q ss_pred cChhHHHHHHHHHHHHHHHhhccCCcCcHHHHHHHHHHHHHcCCCchhhHHhHHHHHHHHHhcC
Q 044530 88 ISPLRRVNQALYLLTTGARESAFRNIKTIAECLADELINAAKGSSNSYAIKKKDEIERVAKANR 151 (151)
Q Consensus 88 i~~~rr~~lAikWii~~a~~~~~r~~~~~~~~La~Eii~A~~~~g~~~aikkK~e~hk~A~aNR 151 (151)
|+|.||+++||+||+++|++ +++.+|+++||+||++|++++|. ++++|+|+||+|++||
T Consensus 91 v~~~rr~~lAirWil~~ar~---r~~~~~~~~La~Eii~A~~~~g~--aikkK~e~hk~A~aNR 149 (155)
T CHL00053 91 IGSTRGKALAIRWLLKASRK---RSGRNMAFKLSSELVDAAKGSGN--AIRKKEETHRMAEANR 149 (155)
T ss_pred cCHHHHHHHHHHHHHHHHHh---cCCCCHHHHHHHHHHHHHhCCCc--hhhhHHHHHHHHHHhH
Confidence 99999999999999999999 56689999999999999999996 9999999999999997
No 9
>KOG3291 consensus Ribosomal protein S7 [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=2.6e-48 Score=307.58 Aligned_cols=149 Identities=68% Similarity=0.976 Sum_probs=146.2
Q ss_pred CCccccccCCCCChHHHHHHHHhhcCCCccChHHHHHHHHHHHHHHHHhhcCCChHHHHHHHHHhcCcccceeeeccCCe
Q 044530 1 GRYSVKRFRKAQCPIVERLTNSLMMHGRNNGKKLMAVLIVKHAMEIIHLLTDQNPIQVIVDAVINSGPREDATRIGSAGV 80 (151)
Q Consensus 1 ~~~~~k~~~~~~~~~v~k~iN~lM~~~~~~GKK~~A~~i~~~al~~i~~~~~~npi~vl~~Ai~n~~P~~e~~~i~~gG~ 80 (151)
|+|+.++|.++++|+++++||.||.||+++|||.+|++||+.||++|+..|++||++||++||+|+.|.++++++++||+
T Consensus 60 ~~~~~~~~~ka~~~~~e~l~~~l~n~~~~~GKK~~a~~Iv~~aleiI~~~t~~NPiqvl~~AI~n~~P~~~~~~i~r~g~ 139 (208)
T KOG3291|consen 60 GRYAKKRFRKAQCPIVERLINKLMNHIMKNGKKLLARRIVKHALEIIKRLTERNPIQVLVQAIENCGPLEDVTRIGRAGT 139 (208)
T ss_pred chhhhhhhhhccccHHHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHhcCchhhceeecccce
Confidence 68999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred eEEEeeecChhHHHHHHHHHHHHHHHhhccCCcCcHHHHHHHHHHHHHcCCCchhhHHhHHHHHHHHHhcC
Q 044530 81 VRRQAVDISPLRRVNQALYLLTTGARESAFRNIKTIAECLADELINAAKGSSNSYAIKKKDEIERVAKANR 151 (151)
Q Consensus 81 ~~~vPv~i~~~rr~~lAikWii~~a~~~~~r~~~~~~~~La~Eii~A~~~~g~~~aikkK~e~hk~A~aNR 151 (151)
+|++||||+|.||+++||+||+++|+++++++.++|+++||+|||+|++|+|+ ||+||||+||+|++||
T Consensus 140 ~~~vpv~v~~~rr~~~Ai~wi~~~ar~~~~~~~~~~ae~La~ELi~Aakgs~~--aikKKdeLhr~a~sNR 208 (208)
T KOG3291|consen 140 TYQVPVPVSPLRRVNLAIKWILTGARERSFRNIKTLAECLADELIAAAKGSGN--AIKKKDELHRMAEANR 208 (208)
T ss_pred EEEecccCCcHHHHHHHHHHHHHHHHhccccccccHHHHHHHHHHHHHhCCch--hhhhHHHHHHHHhccC
Confidence 99999999999999999999999999999888899999999999999999997 9999999999999998
No 10
>PF02607 B12-binding_2: B12 binding domain; InterPro: IPR003759 Cobalamin-dependent methionine synthase (2.1.1.13 from EC) is a large modular protein that catalyses methyl transfer from methyltetrahydrofolate (CH3-H4folate) to homocysteine. During the catalytic cycle, it supports three distinct methyl transfer reactions, each involving the cobalamin (vitamin B12) cofactor and a substrate bound to its own functional unit []. The cobalamin cofactor plays an essential role in this reaction, accepting the methyl group from CH3-H4folate to form methylcob(III)alamin, and in turn donating the methyl group to homocysteine to generate methionine and cob(I)alamin. Methionine synthase is a large enzyme composed of four structurally and functionally distinct modules: the first two modules bind homocysteine and CH3-H4folate, the third module binds the cobalamin cofactor and the C-terminal module binds S-adenosylmethionine. The cobalamin-binding module is composed of two structurally distinct domains: a 4-helical bundle cap domain (residues 651-740 in the Escherichia coli enzyme) and an alpha/beta B12-binding domain (residues 741-896) (IPR006158 from INTERPRO). The 4-helical bundle forms a cap over the alpha/beta domain, which acts to shield the methyl ligand of cobalamin from solvent []. Furthermore, in the conversion to the active conformation of this enzyme, the 4-helical cap rotates to allow the cobalamin cofactor to bind the activation domain (IPR004223 from INTERPRO). The alpha/beta domain is a common cobalamin-binding motif, whereas the 4-helical bundle domain with its methyl cap is a distinctive feature of methionine synthases. This entry represents the 4-helical bundle cap domain. This domain is also present in other shorter proteins that bind to B12, and is always found N terminus to the alpha/beta B12-binding domain.; GO: 0008705 methionine synthase activity, 0031419 cobalamin binding, 0046872 metal ion binding, 0009086 methionine biosynthetic process; PDB: 3EZX_A 3BUL_A 1K7Y_A 1BMT_A 3IV9_A 1K98_A 3IVA_A 2I2X_P.
Probab=58.49 E-value=20 Score=23.31 Aligned_cols=46 Identities=22% Similarity=0.388 Sum_probs=35.2
Q ss_pred ChHHHHHHHHhhcCCCccChHHHHHHHHHHHHHHHHhhcCCChHHHHHHHHHhcCcccc
Q 044530 13 CPIVERLTNSLMMHGRNNGKKLMAVLIVKHAMEIIHLLTDQNPIQVIVDAVINSGPRED 71 (151)
Q Consensus 13 ~~~v~k~iN~lM~~~~~~GKK~~A~~i~~~al~~i~~~~~~npi~vl~~Ai~n~~P~~e 71 (151)
.+++++|.+.++. |....+..++..++. ++.+|..++...+ .|.+.
T Consensus 2 ~~~~~~l~~al~~-----~d~~~~~~~~~~~l~-----~g~~~~~i~~~~l---~p~m~ 47 (79)
T PF02607_consen 2 EELIERLLDALLA-----GDEEEAEALLEEALA-----QGYPPEDIIEEIL---MPAME 47 (79)
T ss_dssp HHHHHHHHHHHHT-----T-CCHHHHHHHHHHH-----CSSSTTHHHHHTH---HHHHH
T ss_pred hHHHHHHHHHHHh-----CCHHHHHHHHHHHHH-----cCCCHHHHHHHHH---HHHHH
Confidence 3678999999998 899999999999887 4577887777654 45443
No 11
>KOG3960 consensus Myogenic helix-loop-helix transcription factor [Transcription]
Probab=54.79 E-value=16 Score=30.73 Aligned_cols=34 Identities=21% Similarity=0.272 Sum_probs=27.3
Q ss_pred HHHHHHHHHHHhhcCCCh------HHHHHHHHHhcCcccc
Q 044530 38 LIVKHAMEIIHLLTDQNP------IQVIVDAVINSGPRED 71 (151)
Q Consensus 38 ~i~~~al~~i~~~~~~np------i~vl~~Ai~n~~P~~e 71 (151)
+=|.+||+.++..|--|| ++||+.||+-|.=+..
T Consensus 131 kKVNEAFE~LKRrT~~NPNQRLPKVEILRsAI~YIE~Lq~ 170 (284)
T KOG3960|consen 131 KKVNEAFETLKRRTSSNPNQRLPKVEILRSAIRYIERLQA 170 (284)
T ss_pred HHHHHHHHHHHhhcCCCccccccHHHHHHHHHHHHHHHHH
Confidence 458999999999998877 6899999887655443
No 12
>KOG3291 consensus Ribosomal protein S7 [Translation, ribosomal structure and biogenesis]
Probab=42.44 E-value=13 Score=30.08 Aligned_cols=28 Identities=14% Similarity=0.205 Sum_probs=21.7
Q ss_pred cCCCCChHHHHHHHHhhcCCCccChHHH
Q 044530 8 FRKAQCPIVERLTNSLMMHGRNNGKKLM 35 (151)
Q Consensus 8 ~~~~~~~~v~k~iN~lM~~~~~~GKK~~ 35 (151)
-..+.+.++.+|+|++|++|++-=-...
T Consensus 71 ~~~~~e~l~~~l~n~~~~~GKK~~a~~I 98 (208)
T KOG3291|consen 71 QCPIVERLINKLMNHIMKNGKKLLARRI 98 (208)
T ss_pred cccHHHHHHHHHHHHHHhcccHHHHHHH
Confidence 3447789999999999999987644433
No 13
>PF10798 YmgB: Biofilm development protein YmgB/AriR; InterPro: IPR024753 YmgB is part of the three gene cluster ymgABC which has a role in biofilm development and stability. YmgB represses biofilm formation in rich medium containing glucose, decreases cellular motility and also protects the cell from acid, which indicates that YmgB has an important function in acid-resistance []. YmgB binds as a dimer to genes which are important for biofilm formation via a ligand. Due to its important function in acid resistance it is also known as AriR (regulator of acid resistance influenced by indole) [].; GO: 0042710 biofilm formation, 0071229 cellular response to acid; PDB: 2OXL_B.
Probab=38.80 E-value=43 Score=21.81 Aligned_cols=50 Identities=12% Similarity=0.179 Sum_probs=35.2
Q ss_pred ChHHHHHHHHhhcCCCccChHHHHHHHHHHHHHHHHhhcCCChHHHHHHHHHhc
Q 044530 13 CPIVERLTNSLMMHGRNNGKKLMAVLIVKHAMEIIHLLTDQNPIQVIVDAVINS 66 (151)
Q Consensus 13 ~~~v~k~iN~lM~~~~~~GKK~~A~~i~~~al~~i~~~~~~npi~vl~~Ai~n~ 66 (151)
..++...++.||. +|..-.-..|+...+..++......-.+++++|++-+
T Consensus 4 ~~vL~~iv~ell~----~g~~vsnKaII~~LI~~LE~e~Dv~~~dvyR~~LEiV 53 (61)
T PF10798_consen 4 SEVLGAIVRELLA----SGGHVSNKAIILKLIHRLESESDVVQLDVYRNALEIV 53 (61)
T ss_dssp HHHHHHHHHHHHH----TT---SHHHHHHHHHHHHHT---HHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHH----cCCCCCHHHHHHHHHHHHhccccHHHHHHHHHHHHHH
Confidence 3577888999999 5777777778888889998777766778888888754
No 14
>PF05186 Dpy-30: Dpy-30 motif; InterPro: IPR007858 This motif is about 40 residues long and is probably formed of two alpha-helices. It is found in the Dpy-30 proteins, hence the motifs name. Dpy-30 from Caenorhabditis elegans is an essential component of dosage compensation machinery and loss of dpy-30 activity results in XX-specific lethality; in XO animals, Dpy-30 is required for developmental processes other than dosage compensation []. In yeast, the homologue of DPY-30, Saf19p, functions as part of the Set1 complex that is necessary for the methylation of histone H3 at lysine residue 4; Set1 is a key part of epigenetic developmental control []. There is also a human homologue of Dpy-30 []. This Dpy-30 region may be a dimerisation motif analogous that found in the cAMP-dependent protein kinase regulator, type II PKA, R subunit IPR003117 from INTERPRO.; PDB: 3G36_D.
Probab=36.15 E-value=77 Score=18.94 Aligned_cols=29 Identities=7% Similarity=0.298 Sum_probs=20.6
Q ss_pred HHHHHHHHHHHhhcCCChHHHHHHHHHhc
Q 044530 38 LIVKHAMEIIHLLTDQNPIQVIVDAVINS 66 (151)
Q Consensus 38 ~i~~~al~~i~~~~~~npi~vl~~Ai~n~ 66 (151)
-++.++|..+-+..+.||+..|-+-+-+-
T Consensus 12 p~L~~gL~~l~~~rP~DPi~~La~~Ll~~ 40 (42)
T PF05186_consen 12 PVLTEGLAELAKERPEDPIEFLAEYLLKH 40 (42)
T ss_dssp HHHHHHHHHHHHH--SSHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHCCCChHHHHHHHHHHh
Confidence 45677888888888999999987766543
No 15
>PF03704 BTAD: Bacterial transcriptional activator domain; InterPro: IPR005158 Found in the DNRI/REDD/AFSR family of regulators, this region of AFSR (P25941 from SWISSPROT) along with the C-terminal region is capable of independently directing actinorhodin production. It is important for the formation of secondary metabolites.; PDB: 2FF4_B 2FEZ_A.
Probab=30.89 E-value=1.8e+02 Score=20.65 Aligned_cols=52 Identities=10% Similarity=-0.003 Sum_probs=36.3
Q ss_pred CCCCChHHHHHHHHhhcCCCccChHHHHHHHHHHHHHHHHhhcCCChHHHHHHHHH
Q 044530 9 RKAQCPIVERLTNSLMMHGRNNGKKLMAVLIVKHAMEIIHLLTDQNPIQVIVDAVI 64 (151)
Q Consensus 9 ~~~~~~~v~k~iN~lM~~~~~~GKK~~A~~i~~~al~~i~~~~~~npi~vl~~Ai~ 64 (151)
.+++......++..++. .|+...|.+.+...-..+....+..|-+-+..-.+
T Consensus 92 dP~~E~~~~~lm~~~~~----~g~~~~A~~~Y~~~~~~l~~elg~~Ps~~~~~l~~ 143 (146)
T PF03704_consen 92 DPYDEEAYRLLMRALAA----QGRRAEALRVYERYRRRLREELGIEPSPETRALYR 143 (146)
T ss_dssp STT-HHHHHHHHHHHHH----TT-HHHHHHHHHHHHHHHHHHHS----HHHHHHHH
T ss_pred CCCCHHHHHHHHHHHHH----CcCHHHHHHHHHHHHHHHHHHhCcCcCHHHHHHHH
Confidence 45566677788888888 69999999999999999998888888766655433
No 16
>PF12651 RHH_3: Ribbon-helix-helix domain
Probab=27.38 E-value=1.2e+02 Score=18.13 Aligned_cols=27 Identities=7% Similarity=0.052 Sum_probs=22.0
Q ss_pred HHHHHHHHHhhcCCChHHHHHHHHHhc
Q 044530 40 VKHAMEIIHLLTDQNPIQVIVDAVINS 66 (151)
Q Consensus 40 ~~~al~~i~~~~~~npi~vl~~Ai~n~ 66 (151)
++.-|+.+...++.+--.++.+||+..
T Consensus 13 l~~~L~~ls~~t~i~~S~Ll~eAle~~ 39 (44)
T PF12651_consen 13 LYEKLKELSEETGIPKSKLLREALEDY 39 (44)
T ss_pred HHHHHHHHHHHHCCCHHHHHHHHHHHH
Confidence 556678888889989999999999753
No 17
>PF13374 TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT_H 3NF1_A.
Probab=27.14 E-value=1.1e+02 Score=16.36 Aligned_cols=35 Identities=23% Similarity=0.327 Sum_probs=22.7
Q ss_pred HHHHHHHhhcCCCccChHHHHHHHHHHHHHHHHhhcCCC
Q 044530 16 VERLTNSLMMHGRNNGKKLMAVLIVKHAMEIIHLLTDQN 54 (151)
Q Consensus 16 v~k~iN~lM~~~~~~GKK~~A~~i~~~al~~i~~~~~~n 54 (151)
...+-+.++. .|+...|..++.+++.+-+...+.|
T Consensus 5 ~~~la~~~~~----~g~~~~A~~~~~~al~~~~~~~G~~ 39 (42)
T PF13374_consen 5 LNNLANAYRA----QGRYEEALELLEEALEIRERLLGPD 39 (42)
T ss_dssp HHHHHHHHHH----CT-HHHHHHHHHHHHHHH-------
T ss_pred HHHHHHHHHh----hhhcchhhHHHHHHHHHHHHHhccc
Confidence 4456677777 6999999999999999887765544
No 18
>PF11062 DUF2863: Protein of unknown function (DUF2863); InterPro: IPR021292 This bacterial family of proteins have no known function.
Probab=25.04 E-value=3.1e+02 Score=24.42 Aligned_cols=58 Identities=14% Similarity=0.166 Sum_probs=42.2
Q ss_pred HHHHHHHHhhcCCCccChHHHHHHHHHHHHHHHHhhcCCChHHHHHHHHHhcCcccceeeeccCCeeEEE
Q 044530 15 IVERLTNSLMMHGRNNGKKLMAVLIVKHAMEIIHLLTDQNPIQVIVDAVINSGPREDATRIGSAGVVRRQ 84 (151)
Q Consensus 15 ~v~k~iN~lM~~~~~~GKK~~A~~i~~~al~~i~~~~~~npi~vl~~Ai~n~~P~~e~~~i~~gG~~~~v 84 (151)
-+..+|+.|.+ +|+ +..++.||+++.. +.-+...+|.+++|..+=++. +..+|+.|.+
T Consensus 40 ~L~~~i~klL~----~~~----d~~L~aALDhL~~-~d~~Ay~~L~e~~E~~aEs~~---i~~~G~~~D~ 97 (398)
T PF11062_consen 40 QLAALIDKLLR----QGH----DDTLDAALDHLFQ-TDPDAYDELAEQAETLAESAV---IEHEGQEYDA 97 (398)
T ss_pred HHHHHHHHHHH----cCC----hhHHHHHHHHHHh-hCccHHHHHHHHHHhhcceee---eccCCceeee
Confidence 35667777777 344 5679999999986 577899999999999876554 3344666654
No 19
>PF09974 DUF2209: Uncharacterized protein conserved in archaea (DUF2209); InterPro: IPR014514 There is currently no experimental data for members of this group or their homologues, nor do they exhibit features indicative of any function.
Probab=24.66 E-value=1.7e+02 Score=22.03 Aligned_cols=58 Identities=17% Similarity=0.146 Sum_probs=43.2
Q ss_pred ChHHHHHHHHHhcCcccceeeeccCCeeEEEeeecChhHHHHHHHHHHHHHHHhhccCCcCcHHHHHHHHH
Q 044530 54 NPIQVIVDAVINSGPREDATRIGSAGVVRRQAVDISPLRRVNQALYLLTTGARESAFRNIKTIAECLADEL 124 (151)
Q Consensus 54 npi~vl~~Ai~n~~P~~e~~~i~~gG~~~~vPv~i~~~rr~~lAikWii~~a~~~~~r~~~~~~~~La~Ei 124 (151)
+-++++.+++.++.-.++-.=+-=.|-.|..| .|..++.-.+.++-.++++++.|-||
T Consensus 52 div~~v~e~v~~~~~~~eg~IvaE~Gefyn~p-------------~w~v~s~l~~~fkY~ES~gEr~aIei 109 (128)
T PF09974_consen 52 DIVQEVEEAVSKLSEDFEGTIVAEKGEFYNEP-------------EWRVESILGREFKYPESIGEREAIEI 109 (128)
T ss_pred HHHHHHHHHHhccccccCceEEeeccccccCh-------------HHHHHHHhccccccchhHHHHHHHHH
Confidence 34678889999988334311111127788777 69999999988888899999999988
No 20
>COG5012 Predicted cobalamin binding protein [General function prediction only]
Probab=24.17 E-value=1.9e+02 Score=23.76 Aligned_cols=47 Identities=19% Similarity=0.398 Sum_probs=37.8
Q ss_pred HHHHHHHHhhcCCCccChHHHHHHHHHHHHHHHHhhcCCChHHHHHHHHHhcCcccc
Q 044530 15 IVERLTNSLMMHGRNNGKKLMAVLIVKHAMEIIHLLTDQNPIQVIVDAVINSGPRED 71 (151)
Q Consensus 15 ~v~k~iN~lM~~~~~~GKK~~A~~i~~~al~~i~~~~~~npi~vl~~Ai~n~~P~~e 71 (151)
++..+-..++ +|++..++.....+++ .+.+|+.++.+++.-.++.+.
T Consensus 18 li~~~~~av~-----dg~~~~~~e~~~~al~-----~Gidp~~ii~~~l~~gm~~Vg 64 (227)
T COG5012 18 LINEYADAVV-----DGEEEMAVELTQKALE-----AGIDPYDIIEDGLSAGMSIVG 64 (227)
T ss_pred HHHHHHHHHh-----cchHHHHHHHHHHHHH-----cCCCHHHHHHHHHHhHHHHHh
Confidence 4555555555 4999999999998887 688999999999988888776
No 21
>PRK05907 hypothetical protein; Provisional
Probab=23.93 E-value=2.7e+02 Score=23.47 Aligned_cols=79 Identities=15% Similarity=0.192 Sum_probs=52.4
Q ss_pred HHHHHHHhhcCCCccChHHHHHHHHHHHHHHHHhhc-CCChHHHHHHHHHhcCcccceeeeccCCeeEEEeeec-ChhHH
Q 044530 16 VERLTNSLMMHGRNNGKKLMAVLIVKHAMEIIHLLT-DQNPIQVIVDAVINSGPREDATRIGSAGVVRRQAVDI-SPLRR 93 (151)
Q Consensus 16 v~k~iN~lM~~~~~~GKK~~A~~i~~~al~~i~~~~-~~npi~vl~~Ai~n~~P~~e~~~i~~gG~~~~vPv~i-~~~rr 93 (151)
|=.|++.+.. |+...|.+++...+. . +.+|+.++..=..+. ++.++.+...|....-|+.+ -+..+
T Consensus 208 IF~L~dai~~-----~~~~~Al~il~~Ll~-----~~ge~p~~ILall~rQf--l~~~k~l~~~g~~~~~p~~vafs~~~ 275 (311)
T PRK05907 208 LWKLRDALLR-----RDRVEGHSLLRSLLS-----DMGEDPLGIIAFLRSQC--LYGLRSIEEQSKERKHRIFVAYGKER 275 (311)
T ss_pred HHHHHHHHHc-----cCHHHHHHHHHHHHH-----hcCCChHHHHHHHHHHH--HHHHHHHHHhcCCCCCCeEEEECHHH
Confidence 4467777887 899999999888765 5 899999988888888 55544432222222233222 35667
Q ss_pred HHHHHHHHHHHHH
Q 044530 94 VNQALYLLTTGAR 106 (151)
Q Consensus 94 ~~lAikWii~~a~ 106 (151)
...++.-+++.=.
T Consensus 276 L~~~~~~l~~~D~ 288 (311)
T PRK05907 276 LLQALNLLFYAES 288 (311)
T ss_pred HHHHHHHHHHHHH
Confidence 7778888777644
No 22
>TIGR02863 spore_sspJ small, acid-soluble spore protein, SspJ family. RL J Bacteriol. 1998 Dec;180(24):6704-12.
Probab=23.72 E-value=1.5e+02 Score=18.26 Aligned_cols=32 Identities=22% Similarity=0.178 Sum_probs=26.0
Q ss_pred cChHHHHHHHHHHHHHHHHhhcCCChHHHHHHHHH
Q 044530 30 NGKKLMAVLIVKHAMEIIHLLTDQNPIQVIVDAVI 64 (151)
Q Consensus 30 ~GKK~~A~~i~~~al~~i~~~~~~npi~vl~~Ai~ 64 (151)
.++..+-.+.+..+|+---.....||++ +||.
T Consensus 10 ~~~seKd~n~v~gaLEdAg~aLk~DPLQ---EAV~ 41 (47)
T TIGR02863 10 GKKSEKDKNAIQGALEDAGQALKDDPLQ---EAVN 41 (47)
T ss_pred ccchhhhHHHHHHHHHHHHHHhcCChHH---HHHH
Confidence 3556889999999999999889999984 5553
No 23
>PF06144 DNA_pol3_delta: DNA polymerase III, delta subunit; InterPro: IPR010372 DNA polymerase III, delta subunit (2.7.7.7 from EC) is required for, along with delta' subunit, the assembly of the processivity factor beta(2) onto primed DNA in the DNA polymerase III holoenzyme-catalysed reaction []. The delta subunit is also known as HolA.; GO: 0003677 DNA binding, 0003887 DNA-directed DNA polymerase activity, 0006260 DNA replication, 0009360 DNA polymerase III complex; PDB: 3GLG_F 1XXH_A 1JQL_B 3GLF_F 1JQJ_C 3GLI_F.
Probab=21.54 E-value=2.5e+02 Score=20.35 Aligned_cols=84 Identities=14% Similarity=0.152 Sum_probs=50.6
Q ss_pred cCCChHHHHHHHHHhcCcccce----e-----------eeccCCeeEEEeeecChhHHHHHHHHHHHHHHHhhccCCcCc
Q 044530 51 TDQNPIQVIVDAVINSGPREDA----T-----------RIGSAGVVRRQAVDISPLRRVNQALYLLTTGARESAFRNIKT 115 (151)
Q Consensus 51 ~~~npi~vl~~Ai~n~~P~~e~----~-----------~i~~gG~~~~vPv~i~~~rr~~lAikWii~~a~~~~~r~~~~ 115 (151)
...+-+..|...+.|..|.+-+ . .+...|.....+.+ ...-..+||.+-+++ .+..
T Consensus 73 ~~~~~~~~l~~~l~~~~~~~~lii~~~~~~~~~~k~~k~l~~~~~~~~~~~~-----~~~~~~~~i~~~~~~----~g~~ 143 (172)
T PF06144_consen 73 LKKKEIKALIEYLSNPPPDCILIIFSEEKLDKRKKLYKALKKQAIVIECKKP-----KEQELPRWIKERAKK----NGLK 143 (172)
T ss_dssp S-TTHHHHHHHHTTT--SSEEEEEEES-S--HHHHHHHHHTTTEEEEEE---------TTTHHHHHHHHHHH----TT-E
T ss_pred ccHHHHHHHHHHHhCCCCCEEEEEEeCCchhhhhhHHHHHhcccceEEecCC-----CHHHHHHHHHHHHHH----cCCC
Confidence 4457778888888887775541 1 11122333443333 444567899999987 3578
Q ss_pred HHHHHHHHHHHHHcCCCchhhHHhHHHHHHHH
Q 044530 116 IAECLADELINAAKGSSNSYAIKKKDEIERVA 147 (151)
Q Consensus 116 ~~~~La~Eii~A~~~~g~~~aikkK~e~hk~A 147 (151)
+....+++|++...++ ..--..|+.|++
T Consensus 144 i~~~a~~~L~~~~~~d----~~~l~~EleKL~ 171 (172)
T PF06144_consen 144 IDPDAAQYLIERVGND----LSLLQNELEKLS 171 (172)
T ss_dssp E-HHHHHHHHHHHTT-----HHHHHHHHHHHH
T ss_pred CCHHHHHHHHHHhChH----HHHHHHHHHHhc
Confidence 9999999999999766 456677887776
No 24
>PF15127 DUF4565: Protein of unknown function (DUF4565)
Probab=20.58 E-value=75 Score=22.50 Aligned_cols=14 Identities=29% Similarity=0.430 Sum_probs=11.1
Q ss_pred cHHHHHHHHHHHHH
Q 044530 115 TIAECLADELINAA 128 (151)
Q Consensus 115 ~~~~~La~Eii~A~ 128 (151)
.|+++|++||+.-+
T Consensus 56 EyA~rLSqEIl~dA 69 (91)
T PF15127_consen 56 EYAHRLSQEILSDA 69 (91)
T ss_pred HHHHHHHHHHHHHH
Confidence 38889999998643
No 25
>KOG1546 consensus Metacaspase involved in regulation of apoptosis [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]
Probab=20.57 E-value=58 Score=28.43 Aligned_cols=23 Identities=26% Similarity=0.335 Sum_probs=18.1
Q ss_pred eeecChhHHHHHHHHHHHHHHHh
Q 044530 85 AVDISPLRRVNQALYLLTTGARE 107 (151)
Q Consensus 85 Pv~i~~~rr~~lAikWii~~a~~ 107 (151)
|+-++..+-.+.||+||++.|..
T Consensus 115 ~~~~PT~~Nir~Al~wLV~~aq~ 137 (362)
T KOG1546|consen 115 PVRIPTGKNIRRALRWLVESAQP 137 (362)
T ss_pred ccccCcHHHHHHHHHHHHhcCCC
Confidence 34455677788999999999875
No 26
>PF05218 DUF713: Protein of unknown function (DUF713); InterPro: IPR007883 This family contains proteins of unknown function from Caenorhabditis species.
Probab=20.02 E-value=2.4e+02 Score=22.07 Aligned_cols=20 Identities=20% Similarity=0.310 Sum_probs=13.6
Q ss_pred cCCChHHHHHHHHHhcCccc
Q 044530 51 TDQNPIQVIVDAVINSGPRE 70 (151)
Q Consensus 51 ~~~npi~vl~~Ai~n~~P~~ 70 (151)
...+.++-|.+++.++.|.-
T Consensus 136 ~~~~~~~~L~~~~s~l~~~~ 155 (182)
T PF05218_consen 136 NDKDWFQKLREAFSRLDPSD 155 (182)
T ss_pred CChHHHHHHHHHHHcCCccc
Confidence 45566777777777777754
Done!