Query 029840
Match_columns 187
No_of_seqs 205 out of 968
Neff 5.0
Searched_HMMs 46136
Date Fri Mar 29 04:29:25 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/029840.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/029840hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PTZ00469 60S ribosomal subunit 100.0 8.8E-82 1.9E-86 521.7 20.3 187 1-187 1-187 (187)
2 PTZ00195 60S ribosomal protein 100.0 9.4E-79 2E-83 506.3 19.5 183 1-186 1-191 (198)
3 KOG1714 60s ribosomal protein 100.0 7E-71 1.5E-75 452.2 16.0 186 1-187 1-188 (188)
4 COG1727 RPL18A Ribosomal prote 100.0 1.2E-43 2.5E-48 276.3 14.7 121 15-139 2-122 (122)
5 PRK04005 50S ribosomal protein 100.0 7.9E-35 1.7E-39 224.9 13.5 111 25-139 1-111 (111)
6 PF00828 Ribosomal_L18e: Ribos 99.7 7.5E-18 1.6E-22 131.4 4.2 79 42-122 32-129 (129)
7 PRK05592 rplO 50S ribosomal pr 99.6 7.8E-17 1.7E-21 129.7 3.0 77 40-121 53-145 (146)
8 TIGR01071 rplO_bact ribosomal 99.6 2.7E-16 5.9E-21 126.0 3.0 77 40-120 52-145 (145)
9 COG0200 RplO Ribosomal protein 99.5 4.7E-14 1E-18 114.6 5.4 82 40-122 54-151 (152)
10 PRK06419 rpl15p 50S ribosomal 99.4 7.6E-14 1.6E-18 112.6 4.7 75 48-124 55-147 (148)
11 PTZ00160 60S ribosomal protein 99.2 5.3E-11 1.2E-15 96.3 6.9 61 60-122 71-146 (147)
12 KOG0846 Mitochondrial/chloropl 98.3 1.2E-06 2.5E-11 76.8 6.2 80 40-121 72-174 (274)
13 KOG1742 60s ribosomal protein 97.0 0.0013 2.9E-08 53.3 5.3 67 55-121 64-145 (147)
14 PF05573 NosL: NosL; InterPro 43.5 22 0.00047 28.3 2.6 31 98-128 117-147 (149)
15 KOG0855 Alkyl hydroperoxide re 28.1 1.2E+02 0.0025 26.1 4.6 78 80-161 82-172 (211)
16 COG1888 Uncharacterized protei 20.3 1.1E+02 0.0024 23.5 2.7 32 96-127 52-84 (97)
No 1
>PTZ00469 60S ribosomal subunit protein L18; Provisional
Probab=100.00 E-value=8.8e-82 Score=521.69 Aligned_cols=187 Identities=61% Similarity=0.972 Sum_probs=183.4
Q ss_pred CceeeccCCccccCCCCCCCCccHHHHHHHHHHHHHhhcCCChHHHHHHHHhhcCCCCCCccchHHHhhhhccCCCcEEE
Q 029840 1 MGIDLIAGGKSKKSKRTAPKSNDIYLKLLVKLYRFLVRRTDSNFDKVILKRLFMSKVNKPPMSLSRLTKFMKGKEDKIAV 80 (187)
Q Consensus 1 mg~d~~~~~~~~~~~rk~~~stN~~l~~Li~llk~~ar~t~sp~~rrV~kRlf~~r~~~~~VNLs~L~~~~~~~~~k~vv 80 (187)
|||||++.+++++.+|+.|+||||||++||++|+|+||+|++|||++|++|||||+++++|||||+|++++++.+++++|
T Consensus 1 mgid~~~~~~~~k~~r~~~~stN~yL~~Lik~yk~larrt~a~fwk~Va~RL~~srrnr~pVnLSkI~r~~~~ke~~~~V 80 (187)
T PTZ00469 1 MGIALKNVGRIKKHGRKNLVSKNPYLRLLVKLYRFLARRTNANFNKIIAKRLIMPKRFRPPLSLSKLHRHMASYPDDVAV 80 (187)
T ss_pred CceecccCccccCCCccCCCCCCHHHHHHHHHHHHHHHhhCChHHHHHHHHHhcccccCCceeHHHHHHHhccCCCCEEE
Confidence 99999976899999999999999999999999999999999999999999999999999999999999999655899999
Q ss_pred EEeeecCCceeeeecCeEEEEEeccHHHHHHHHHhCCeEEeHHHHHHhCCCCCcEEEeecCCchhHHhhhhCCCCCCCCC
Q 029840 81 VVGTVTDDIRVYEVPALKVTALRFTETARARIEKAGGECLTFDQLALRAPLGQNTVLLRGPKNAREAVKHFGPAPGVPHS 160 (187)
Q Consensus 81 v~gKVLg~G~l~~vpkl~V~A~~fS~sA~eKIekAGGki~t~dqL~~~~P~G~~v~ll~g~~~~r~~~~hfg~a~g~~~s 160 (187)
|||||||||+|.+||+|+||||.||++|+++|++|||+|+||||||++||+|+||+||+||+++|||++|||+|||+|||
T Consensus 81 VvGkVl~dgrl~~vpkvtVaAL~fS~~Ar~kI~~AGGe~lT~dqLa~~~P~G~nv~Ll~g~r~~R~a~khfg~apg~p~s 160 (187)
T PTZ00469 81 VVGSITDDKRLYDCKKLKVCALRFTETARKRILDAGGECLTFDQLALKYPTGQKCILLRGPTKARTAEKHFGKAPGRPKS 160 (187)
T ss_pred EEeeEccCccccccCceEEEEEecCHHHHHHHHHhCCEEEeHHHHHHHCCCCCceEEEECCCchhHHHHhcCCCCCCCCC
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCCCcccccCcchhhhccccccCCCCC
Q 029840 161 HTKPYVRSKGRKFERARGKRNSRGFRV 187 (187)
Q Consensus 161 ~~~p~v~skgrk~e~~r~~~~~~~~k~ 187 (187)
||+|||+|||||||+|||||+|||||.
T Consensus 161 ~t~P~v~skgrk~E~argrr~s~~~k~ 187 (187)
T PTZ00469 161 KARPYVRSKGRKFEKARGRRKSRAYKK 187 (187)
T ss_pred CCCCceecccchhhhhcccccccccCC
Confidence 999999999999999999999999984
No 2
>PTZ00195 60S ribosomal protein L18; Provisional
Probab=100.00 E-value=9.4e-79 Score=506.27 Aligned_cols=183 Identities=53% Similarity=0.902 Sum_probs=178.3
Q ss_pred CceeeccCCccccCCCCCCCCccHHHHHHHHHHHHHhhcCCChHHHHHHHHhhcCCCCCCccchHHHhhhhcc-------
Q 029840 1 MGIDLIAGGKSKKSKRTAPKSNDIYLKLLVKLYRFLVRRTDSNFDKVILKRLFMSKVNKPPMSLSRLTKFMKG------- 73 (187)
Q Consensus 1 mg~d~~~~~~~~~~~rk~~~stN~~l~~Li~llk~~ar~t~sp~~rrV~kRlf~~r~~~~~VNLs~L~~~~~~------- 73 (187)
|||||++.+++++..|+.|+||||||++||++|+|+||+|+++||++|++|||||+++++|||||+|++++++
T Consensus 1 mgid~~~~~~~~~~~r~~pkstN~yL~lLVklyrflaRrt~a~fnk~VakRL~~sr~nRppVsLSrI~r~~k~~d~~~~~ 80 (198)
T PTZ00195 1 MGVDLTGISKKSRVVRHHTYSTNPYIKLLIKLYKFLAKRTSSGFNKVVYQRLIKSRSNRAPISLSRIAVVMKRKAVFTAK 80 (198)
T ss_pred CceecccccccccccccCCCCCCHHHHHHHHHHHHHHHhhCCHHHHHHHHHHhcccccCCceeHHHHHHHHhcccccccc
Confidence 9999997789999999999999999999999999999999999999999999999999999999999999962
Q ss_pred -CCCcEEEEEeeecCCceeeeecCeEEEEEeccHHHHHHHHHhCCeEEeHHHHHHhCCCCCcEEEeecCCchhHHhhhhC
Q 029840 74 -KEDKIAVVVGTVTDDIRVYEVPALKVTALRFTETARARIEKAGGECLTFDQLALRAPLGQNTVLLRGPKNAREAVKHFG 152 (187)
Q Consensus 74 -~~~k~vvv~gKVLg~G~l~~vpkl~V~A~~fS~sA~eKIekAGGki~t~dqL~~~~P~G~~v~ll~g~~~~r~~~~hfg 152 (187)
.+++|+||||||||||+|.+||+|+||||.||++|+++|++|||+|+||||||++||+|+||+||+||+++|||++|||
T Consensus 81 ~~~~k~~VVvGkVtdd~rl~~vPkvtVaALrfS~tAr~rI~kAGGe~lT~dQLa~~~PkG~ntvLlrg~r~~Rea~khfG 160 (198)
T PTZ00195 81 GKKAPIAVVVGDVLDDVRMARIPAMRVCALRFSKSARQSIVAAGGECLTFDQLAMIAPTGKNTYLLRGRKSGRESVRHFG 160 (198)
T ss_pred CCCCcEEEEEeeEcCCccccccCceEEEEEecCHHHHHHHHHhCCEEEeHHHHHHHCCCCCCeEEEECCCchhHHHHhcC
Confidence 2567999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCCCCCCCCCCCcccccCcchhhhccccccCCCC
Q 029840 153 PAPGVPHSHTKPYVRSKGRKFERARGKRNSRGFR 186 (187)
Q Consensus 153 ~a~g~~~s~~~p~v~skgrk~e~~r~~~~~~~~k 186 (187)
|||+|||||+|||+|||| |+|||||+|||||
T Consensus 161 -apg~p~s~~kP~v~skgr--e~aRgrr~srg~k 191 (198)
T PTZ00195 161 -ASGVPGSHSKPYATNRGK--ETKRGRRTGRSYK 191 (198)
T ss_pred -CCCCCCCCCCCceecccc--hhhcccccccchh
Confidence 999999999999999998 9999999999998
No 3
>KOG1714 consensus 60s ribosomal protein L18 [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=7e-71 Score=452.20 Aligned_cols=186 Identities=73% Similarity=1.121 Sum_probs=181.8
Q ss_pred CceeeccCCccccCCCCCCCCccHHHHHHHHHHHHHhhcCCChHHHHHHHHhhcCCCCCCccchHHHhhhhcc--CCCcE
Q 029840 1 MGIDLIAGGKSKKSKRTAPKSNDIYLKLLVKLYRFLVRRTDSNFDKVILKRLFMSKVNKPPMSLSRLTKFMKG--KEDKI 78 (187)
Q Consensus 1 mg~d~~~~~~~~~~~rk~~~stN~~l~~Li~llk~~ar~t~sp~~rrV~kRlf~~r~~~~~VNLs~L~~~~~~--~~~k~ 78 (187)
|||||.| +++++..|++|+|+|+||++|+++|+|+||+|++.||+.|+||||||+.+++|++|++|.+.++. .++++
T Consensus 1 mg~di~~-~~~~k~~RtePkS~dvYLrllvkly~flarrT~s~fn~vvLKrLfmSk~nrpPlsls~iir~~k~~~~enKt 79 (188)
T KOG1714|consen 1 MGIDILH-NKSRKVRRTEPKSQDVYLRLLVKLYRFLARRTNSTFNQVVLKRLFMSKTNRPPLSLSRIIRKMKLPGQENKT 79 (188)
T ss_pred CCccccC-CccccccccCCCCccHHHHHHHHHHHHHHHhcccHHHHHHHHHHhhhcccCCCcCHHHHHHHhhccCccCce
Confidence 9999877 89999999999999999999999999999999999999999999999999999999999999974 36789
Q ss_pred EEEEeeecCCceeeeecCeEEEEEeccHHHHHHHHHhCCeEEeHHHHHHhCCCCCcEEEeecCCchhHHhhhhCCCCCCC
Q 029840 79 AVVVGTVTDDIRVYEVPALKVTALRFTETARARIEKAGGECLTFDQLALRAPLGQNTVLLRGPKNAREAVKHFGPAPGVP 158 (187)
Q Consensus 79 vvv~gKVLg~G~l~~vpkl~V~A~~fS~sA~eKIekAGGki~t~dqL~~~~P~G~~v~ll~g~~~~r~~~~hfg~a~g~~ 158 (187)
+||+|+|+||-+|.+||+++|||+.||++|+++|++|||+|+||||||+.+|+|+||+|++||+++||+|+|||+|||+|
T Consensus 80 aVVVgTvtdD~rv~~vPkl~v~al~~t~~ar~rI~kagg~i~TlDQLal~sP~g~~TvLlsgp~~~re~y~hfg~aPgtp 159 (188)
T KOG1714|consen 80 AVVVGTVTDDLRVQEVPKLKVAALRFTKGARARILKAGGEILTLDQLALDSPKGCNTVLLSGPKKGREAYKHFGKAPGTP 159 (188)
T ss_pred EEEEeeecccceeeecccceeeeeecccchhhhhhccCceEEeeHHhcccCCCCCceEEeeCCcccHHHHHhcCCCCCCC
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCCCCCcccccCcchhhhccccccCCCCC
Q 029840 159 HSHTKPYVRSKGRKFERARGKRNSRGFRV 187 (187)
Q Consensus 159 ~s~~~p~v~skgrk~e~~r~~~~~~~~k~ 187 (187)
|||++|||+|||+|||+|||||+|+||++
T Consensus 160 hshtkpyv~skgrkfE~argrr~s~g~k~ 188 (188)
T KOG1714|consen 160 HSHTKPYVRSKGRKFERARGRRASRGFKV 188 (188)
T ss_pred CCCCCcchhcchhhHHHhcchhhhhccCC
Confidence 99999999999999999999999999985
No 4
>COG1727 RPL18A Ribosomal protein L18E [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=1.2e-43 Score=276.33 Aligned_cols=121 Identities=36% Similarity=0.601 Sum_probs=117.7
Q ss_pred CCCCCCCccHHHHHHHHHHHHHhhcCCChHHHHHHHHhhcCCCCCCccchHHHhhhhccCCCcEEEEEeeecCCceeeee
Q 029840 15 KRTAPKSNDIYLKLLVKLYRFLVRRTDSNFDKVILKRLFMSKVNKPPMSLSRLTKFMKGKEDKIAVVVGTVTDDIRVYEV 94 (187)
Q Consensus 15 ~rk~~~stN~~l~~Li~llk~~ar~t~sp~~rrV~kRlf~~r~~~~~VNLs~L~~~~~~~~~k~vvv~gKVLg~G~l~~v 94 (187)
.|+.|.+||+||+.||++|+++|+++++|||++|++||++|+++|++||||+|+++++ +||++||||||||+|.|.+
T Consensus 2 ~~~~t~~tN~~L~~Li~~l~~~ar~~~a~iwk~vaerL~~prr~ra~VnlsKI~r~ak--~~d~vvVpGkVLg~g~l~~- 78 (122)
T COG1727 2 SMKKTGSTNVYLRKLIRFLRKAARRSSAPIWKDVAERLEKPRRNRAEVNVSKINRYAK--EGDTVVVPGKVLGDGKLDK- 78 (122)
T ss_pred CcCCCCCCCHHHHHHHHHHHHHHhhcCCHHHHHHHHHHhcccccCCceeHHHHHhhcC--CCCEEEEeeeEecCccccc-
Confidence 4788999999999999999999999999999999999999999999999999999998 8999999999999998886
Q ss_pred cCeEEEEEeccHHHHHHHHHhCCeEEeHHHHHHhCCCCCcEEEee
Q 029840 95 PALKVTALRFTETARARIEKAGGECLTFDQLALRAPLGQNTVLLR 139 (187)
Q Consensus 95 pkl~V~A~~fS~sA~eKIekAGGki~t~dqL~~~~P~G~~v~ll~ 139 (187)
+++|.|++||++|++||++|||+|+|||||+++||+|+||+||+
T Consensus 79 -kVtVaAl~FS~~A~~KI~~aGGe~~tl~el~e~nPkGs~vri~~ 122 (122)
T COG1727 79 -KVTVAALRFSKTAREKIEEAGGECLTLEELAERNPKGSNVRIMR 122 (122)
T ss_pred -ceEEEEEecCHHHHHHHHHcCCeEeeHHHHHHHCCCCCCeEeeC
Confidence 99999999999999999999999999999999999999999985
No 5
>PRK04005 50S ribosomal protein L18e; Provisional
Probab=100.00 E-value=7.9e-35 Score=224.94 Aligned_cols=111 Identities=30% Similarity=0.472 Sum_probs=105.7
Q ss_pred HHHHHHHHHHHHhhcCCChHHHHHHHHhhcCCCCCCccchHHHhhhhccCCCcEEEEEeeecCCceeeeecCeEEEEEec
Q 029840 25 YLKLLVKLYRFLVRRTDSNFDKVILKRLFMSKVNKPPMSLSRLTKFMKGKEDKIAVVVGTVTDDIRVYEVPALKVTALRF 104 (187)
Q Consensus 25 ~l~~Li~llk~~ar~t~sp~~rrV~kRlf~~r~~~~~VNLs~L~~~~~~~~~k~vvv~gKVLg~G~l~~vpkl~V~A~~f 104 (187)
+|++||++|+++||++++|||++|++||+||+++|.+|||++|++++. +++++++++||||+|++++ +++|+|+.|
T Consensus 1 ~~~~~~~~~~~~~~~~~~~~~~~v~~rl~~~r~~y~vVNL~~L~~~~~--~~~vv~~~~KVLg~G~l~k--~l~V~a~~~ 76 (111)
T PRK04005 1 RLRKLIRDLKKASRENGAPIWKDVAERLEKPRRRRAEVNLSKINRYAK--EGDTVVVPGKVLGSGKLDH--KVTVAALSF 76 (111)
T ss_pred CHHHHHHHHHHHHhhhCCcHHHHHHHHHhCCCCccceEEHHHHHhhcc--CCCEEEEeeEEEcCceEcC--CEEEEEeec
Confidence 578999999999999999999999999999999999999999998864 4677778999999999997 999999999
Q ss_pred cHHHHHHHHHhCCeEEeHHHHHHhCCCCCcEEEee
Q 029840 105 TETARARIEKAGGECLTFDQLALRAPLGQNTVLLR 139 (187)
Q Consensus 105 S~sA~eKIekAGGki~t~dqL~~~~P~G~~v~ll~ 139 (187)
|++|+++||+|||+|++++||+++||+|+||+||+
T Consensus 77 Sk~A~ekIe~aGG~v~~~~~l~~~~p~g~~~~l~~ 111 (111)
T PRK04005 77 SETAKEKIEEAGGKALTIEELVEENPKGSNVRIMR 111 (111)
T ss_pred CHHHHHHHHHcCCEEEEHHHHHHHCCCCCCeEEeC
Confidence 99999999999999999999999999999999984
No 6
>PF00828 Ribosomal_L18e: Ribosomal protein L18e/L15; InterPro: IPR021131 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 [, ]. This entry represents both L15 and L18e ribosomal proteins, which share a common structure consisting mainly of parallel beta sheets (beta-alpha-beta units) with a core of three turns of irregular (beta-beta-alpha)n superhelix [, ].; PDB: 3O58_Y 1S1I_V 3O5H_Y 3IZS_O 3IZR_R 2OTL_L 1M1K_M 3G6E_L 1VQ9_L 1YIT_L ....
Probab=99.70 E-value=7.5e-18 Score=131.45 Aligned_cols=79 Identities=32% Similarity=0.492 Sum_probs=65.6
Q ss_pred ChHHHHHHHHhhcC------CCCCCccchHHHhhhhcc-------CCCcEEEEE------eeecCCceeeeecCeEEEEE
Q 029840 42 SNFDKVILKRLFMS------KVNKPPMSLSRLTKFMKG-------KEDKIAVVV------GTVTDDIRVYEVPALKVTAL 102 (187)
Q Consensus 42 sp~~rrV~kRlf~~------r~~~~~VNLs~L~~~~~~-------~~~k~vvv~------gKVLg~G~l~~vpkl~V~A~ 102 (187)
.|+|++++|++|.+ +.++++|||++|+++++. .+.+++++. .||||+|+|+. +|+|+|+
T Consensus 32 ~pl~rr~pK~Gf~~~~~~~~~~~~~~vnL~~L~~~i~~~~~~~~~~~~~~~~~~~~~~~~~KvLg~G~l~~--~l~I~a~ 109 (129)
T PF00828_consen 32 MPLYRRLPKRGFNNPHLRKNRREYPPVNLSKLQELIEKLKIDGTEIDGKILVDAGLIKGYVKVLGKGELTK--PLTIKAH 109 (129)
T ss_dssp SHHHHHSSSSSHHHCCHCSGTCCCEEEEHHHHHHHTTTSSSSSCECTTSEEEECCEESSEEEEESSSSSSS--SEEEEES
T ss_pred cccccccCcccccccccccCcceeEeeeHHHHHHHHHhccccccccCCceeeeccccccceeeeccCCccc--ceEEEEE
Confidence 47777888887665 468999999999987652 134565553 49999999987 8999999
Q ss_pred eccHHHHHHHHHhCCeEEeH
Q 029840 103 RFTETARARIEKAGGECLTF 122 (187)
Q Consensus 103 ~fS~sA~eKIekAGGki~t~ 122 (187)
.||++|+++||+|||+|++|
T Consensus 110 ~~S~~A~ekIe~aGG~v~~~ 129 (129)
T PF00828_consen 110 RFSKSAKEKIEAAGGEVVTF 129 (129)
T ss_dssp EETHHHHHHHHHTSEEEEEH
T ss_pred ecCHHHHHHHHHcCCEEEeC
Confidence 99999999999999999987
No 7
>PRK05592 rplO 50S ribosomal protein L15; Reviewed
Probab=99.64 E-value=7.8e-17 Score=129.72 Aligned_cols=77 Identities=23% Similarity=0.314 Sum_probs=66.9
Q ss_pred CCChHHHHHHHHhhcC--CCCCCccchHHHhhhhccCCCcEE---------EE-----EeeecCCceeeeecCeEEEEEe
Q 029840 40 TDSNFDKVILKRLFMS--KVNKPPMSLSRLTKFMKGKEDKIA---------VV-----VGTVTDDIRVYEVPALKVTALR 103 (187)
Q Consensus 40 t~sp~~rrV~kRlf~~--r~~~~~VNLs~L~~~~~~~~~k~v---------vv-----~gKVLg~G~l~~vpkl~V~A~~ 103 (187)
-..|||+++|||+|.+ ++.|.+|||++|+++.+ +++| ++ ++||||+|+|+. +|+|.|+.
T Consensus 53 GQ~Pl~rrlPk~Gf~~~~~~~y~~VNL~~L~~~~~---~~~I~~~~L~~~gli~~~~~~vKvLg~G~l~~--~i~I~a~~ 127 (146)
T PRK05592 53 GQMPLYRRLPKRGFTNIFRKEYAVVNLGDLNKFEE---GTEVTLEALKAAGLIRKNIKGVKVLGNGELTK--KLTVKAHK 127 (146)
T ss_pred CCCceEEEcccCCcCCCCcceEEEEeHHHhhccCC---CCeECHHHHHHCCcccCCCcceEEEecCcccc--CEEEEEEc
Confidence 4579999999999998 68899999999997532 3333 22 799999999998 99999999
Q ss_pred ccHHHHHHHHHhCCeEEe
Q 029840 104 FTETARARIEKAGGECLT 121 (187)
Q Consensus 104 fS~sA~eKIekAGGki~t 121 (187)
||++|+|+||+|||+|+.
T Consensus 128 ~S~sA~e~IE~aGG~v~~ 145 (146)
T PRK05592 128 FSKSAKEAIEAAGGKVEE 145 (146)
T ss_pred cCHHHHHHHHHcCCEEEe
Confidence 999999999999999864
No 8
>TIGR01071 rplO_bact ribosomal protein L15, bacterial/organelle.
Probab=99.61 E-value=2.7e-16 Score=126.03 Aligned_cols=77 Identities=25% Similarity=0.343 Sum_probs=65.9
Q ss_pred CCChHHHHHHHHhhcC---CCCCCccchHHHhhhhccCCCcEE---------E-----EEeeecCCceeeeecCeEEEEE
Q 029840 40 TDSNFDKVILKRLFMS---KVNKPPMSLSRLTKFMKGKEDKIA---------V-----VVGTVTDDIRVYEVPALKVTAL 102 (187)
Q Consensus 40 t~sp~~rrV~kRlf~~---r~~~~~VNLs~L~~~~~~~~~k~v---------v-----v~gKVLg~G~l~~vpkl~V~A~ 102 (187)
-..|||+|+||++|.+ +.+|.+|||++|+++++ +++++ + .++||||+|+|+. +|+|.|.
T Consensus 52 GQ~Pl~rrlPK~GF~~~~~~~~~~~VNL~~L~~~~~--~g~~i~~~~L~~~gli~~~~~~vKvLg~G~l~~--~l~I~a~ 127 (145)
T TIGR01071 52 GQMPLYRRLPKRGFSNKRFKKEYAEVNLGKLAKLFP--NGEVVTLETLKEKGLITKKIKFVKVLGNGKLTK--PLTVKAH 127 (145)
T ss_pred CCCceEEECCCCCCCCcccCcceeEEEHHHHhhhhh--cCCEecHHHHhhCccCcCCCCceEEeCCCCcCc--CEEEEEE
Confidence 3689999999999997 47899999999998865 22222 1 2489999999998 9999999
Q ss_pred eccHHHHHHHHHhCCeEE
Q 029840 103 RFTETARARIEKAGGECL 120 (187)
Q Consensus 103 ~fS~sA~eKIekAGGki~ 120 (187)
+||++|+++||+|||+|+
T Consensus 128 ~~S~sA~ekIE~aGG~v~ 145 (145)
T TIGR01071 128 RVSKSAKAAIEAAGGSVE 145 (145)
T ss_pred EECHHHHHHHHHcCCEEC
Confidence 999999999999999983
No 9
>COG0200 RplO Ribosomal protein L15 [Translation, ribosomal structure and biogenesis]
Probab=99.47 E-value=4.7e-14 Score=114.61 Aligned_cols=82 Identities=20% Similarity=0.250 Sum_probs=65.0
Q ss_pred CCChHHHHHHHHhhcC---CC-CCCccchHHHhhhhccC---------CCcEEE---EEeeecCCceeeeecCeEEEEEe
Q 029840 40 TDSNFDKVILKRLFMS---KV-NKPPMSLSRLTKFMKGK---------EDKIAV---VVGTVTDDIRVYEVPALKVTALR 103 (187)
Q Consensus 40 t~sp~~rrV~kRlf~~---r~-~~~~VNLs~L~~~~~~~---------~~k~vv---v~gKVLg~G~l~~vpkl~V~A~~ 103 (187)
-..|+|+++||++|++ .. +|.+|||++|+.+++.. +..++. ..+||||+|+|++-.++.|.| .
T Consensus 54 gq~Pl~rrlpK~GF~~~~~~~~~~~~vn~~~l~~~~~~~~~v~~~~l~~~~~i~~~~~~vKvLg~G~l~~~~~~~v~a-~ 132 (152)
T COG0200 54 GQMPLYRRLPKRGFTNSKFKKVEYAVVNLGKLAELLPEGEEVTLASLKAAGVIRKLKDLVKVLGNGKLTKAVPVKVKA-K 132 (152)
T ss_pred CCcchhhhcCCCCCccccccccceeEEEHHHhhhhccccccccHHHHhhCCeEeccccccEEeccCeeccceeEEEEe-e
Confidence 4679999999999996 33 77999999999888421 223332 259999999999522566666 9
Q ss_pred ccHHHHHHHHHhCCeEEeH
Q 029840 104 FTETARARIEKAGGECLTF 122 (187)
Q Consensus 104 fS~sA~eKIekAGGki~t~ 122 (187)
||++|+|+||+|||+|+.+
T Consensus 133 ~S~~A~ekIe~aGG~v~~~ 151 (152)
T COG0200 133 ASKSAIEKIEAAGGKVELI 151 (152)
T ss_pred eCHHHHHHHHHcCCEEEec
Confidence 9999999999999999865
No 10
>PRK06419 rpl15p 50S ribosomal protein L15P; Reviewed
Probab=99.44 E-value=7.6e-14 Score=112.64 Aligned_cols=75 Identities=29% Similarity=0.336 Sum_probs=61.6
Q ss_pred HHHHhhcC--C--CCCCccchHHHhhhhcc--------CCC-cEEEE-----EeeecCCceeeeecCeEEEEEeccHHHH
Q 029840 48 ILKRLFMS--K--VNKPPMSLSRLTKFMKG--------KED-KIAVV-----VGTVTDDIRVYEVPALKVTALRFTETAR 109 (187)
Q Consensus 48 V~kRlf~~--r--~~~~~VNLs~L~~~~~~--------~~~-k~vvv-----~gKVLg~G~l~~vpkl~V~A~~fS~sA~ 109 (187)
++|++|.+ . ..+++|||++|+++.+. .++ ..+++ +.||||+|+|+. +|+|.|..||++|+
T Consensus 55 fpK~GF~~~~~~~~~~~~INL~~L~~l~~~l~~~g~i~~~~~~~vid~~~~g~~KVLG~G~l~~--pl~Vka~~fS~~A~ 132 (148)
T PRK06419 55 YGKHGFKRPPKLIKEVSTINVGELDELADLLKAEGKAEEEDGKIVVDLTELGYDKVLGGGKVTR--PLVIKADAFSEKAI 132 (148)
T ss_pred CCCCCccCCCcCcceeeeEEHHHHHHhHHHHHHCCcccccCCcceeeeccCCceEEeCCCccCc--CEEEEEeccCHHHH
Confidence 67899988 2 57999999999987621 122 22332 589999999998 99999999999999
Q ss_pred HHHHHhCCeEEeHHH
Q 029840 110 ARIEKAGGECLTFDQ 124 (187)
Q Consensus 110 eKIekAGGki~t~dq 124 (187)
++||+|||+|++++|
T Consensus 133 ekIe~aGG~v~l~~~ 147 (148)
T PRK06419 133 EKIEAAGGEVVLSEE 147 (148)
T ss_pred HHHHHcCCEEEEeec
Confidence 999999999988765
No 11
>PTZ00160 60S ribosomal protein L27a; Provisional
Probab=99.18 E-value=5.3e-11 Score=96.30 Aligned_cols=61 Identities=23% Similarity=0.360 Sum_probs=49.8
Q ss_pred CccchHHHhhhhcc--------CCCc-EEEE-----EeeecCCcee-eeecCeEEEEEeccHHHHHHHHHhCCeEEeH
Q 029840 60 PPMSLSRLTKFMKG--------KEDK-IAVV-----VGTVTDDIRV-YEVPALKVTALRFTETARARIEKAGGECLTF 122 (187)
Q Consensus 60 ~~VNLs~L~~~~~~--------~~~k-~vvv-----~gKVLg~G~l-~~vpkl~V~A~~fS~sA~eKIekAGGki~t~ 122 (187)
++|||++|++++.+ .+++ .+++ ..||||+|+| +. +++|.|..||++|+++||+|||+|+.+
T Consensus 71 ~~INl~~L~~lv~~~~~~~~a~~~~~~~vIDl~~~g~~KVLG~G~l~~~--~v~Vka~~~Sk~A~ekIe~aGG~v~l~ 146 (147)
T PTZ00160 71 PTINVDKLWSLVPEETRYKYAKKGDKAPVIDVTKAGYFKVLGKGHLPKQ--PVIVKARYFSKKAEKKIKAVGGACVLT 146 (147)
T ss_pred ceeEHHHHHHHhHHHHHHhhhhccCCceEEEeeccCceEEecCCeEcCc--cEEEEEeecCHHHHHHHHHcCCEEEEc
Confidence 89999999877542 1233 3333 4799999999 65 999999999999999999999999764
No 12
>KOG0846 consensus Mitochondrial/chloroplast ribosomal protein L15/L10 [Translation, ribosomal structure and biogenesis]
Probab=98.31 E-value=1.2e-06 Score=76.76 Aligned_cols=80 Identities=25% Similarity=0.248 Sum_probs=64.4
Q ss_pred CCChHHHHHHHHhhcC--CCCCCccchHHHhhhhccC---CCcEE----------E--------EEeeecCCceeeeecC
Q 029840 40 TDSNFDKVILKRLFMS--KVNKPPMSLSRLTKFMKGK---EDKIA----------V--------VVGTVTDDIRVYEVPA 96 (187)
Q Consensus 40 t~sp~~rrV~kRlf~~--r~~~~~VNLs~L~~~~~~~---~~k~v----------v--------v~gKVLg~G~l~~vpk 96 (187)
-+.|||+++|++.|.+ ++.+.|++|.+|+.+++.. ..+.| + +..+..|-+.+.- +
T Consensus 72 GqtP~yrr~Pk~~~~~~~~r~~~pl~L~rlq~lID~grid~~q~Idm~tL~~~g~i~p~~~eyGv~L~~~G~d~~~~--~ 149 (274)
T KOG0846|consen 72 GQTPLYRRFPKFGFGNGGRRQYLPLSLGRLQKLIDTGRIDPSQPIDMKTLKDSGLINPKGREYGVQLTADGADEFKA--K 149 (274)
T ss_pred CCchhHHhcccccccccccccCCcccHHHHHHHHHhcCCCccCceeHHHHHhccCCCccccccCceeeccCCccccc--e
Confidence 3479999999999988 7999999999999998732 11221 1 2345566677887 9
Q ss_pred eEEEEEeccHHHHHHHHHhCCeEEe
Q 029840 97 LKVTALRFTETARARIEKAGGECLT 121 (187)
Q Consensus 97 l~V~A~~fS~sA~eKIekAGGki~t 121 (187)
|+|.+-.+|..|+++||+|||.|-+
T Consensus 150 i~iEvs~aS~~AiaaIEkaGG~vtt 174 (274)
T KOG0846|consen 150 INIEVSRASVQAIAAIEKAGGSVTT 174 (274)
T ss_pred EEEEehhhhHHHHHHHHhcCCeEEE
Confidence 9999999999999999999999865
No 13
>KOG1742 consensus 60s ribosomal protein L15/L27 [Translation, ribosomal structure and biogenesis]
Probab=97.03 E-value=0.0013 Score=53.26 Aligned_cols=67 Identities=24% Similarity=0.331 Sum_probs=50.2
Q ss_pred CCCCCCccchHHHhhhhccC---------CCc--EE-EE---EeeecCCceeeeecCeEEEEEeccHHHHHHHHHhCCeE
Q 029840 55 SKVNKPPMSLSRLTKFMKGK---------EDK--IA-VV---VGTVTDDIRVYEVPALKVTALRFTETARARIEKAGGEC 119 (187)
Q Consensus 55 ~r~~~~~VNLs~L~~~~~~~---------~~k--~v-vv---~gKVLg~G~l~~vpkl~V~A~~fS~sA~eKIekAGGki 119 (187)
+....++|||++|-.++.++ .+. ++ |+ ..+|||.|.+..=-++.|.|--||..|.++|.++||.+
T Consensus 64 n~~~~P~vnldkLWtlv~~~~~~~~~~~k~g~aPvidv~~~Gy~kvlGkgklp~~~PvIVKak~~s~~AeekIk~~gg~~ 143 (147)
T KOG1742|consen 64 NQSFCPTVNLDKLWTLVREQTRVKAAKNKTGAAPVIDVVQSGYYKVLGKGKLPEETPVIVKAKYFSRRAEEKIKKAGGAV 143 (147)
T ss_pred ccCcCCcccHHHHHHhhhHHHHHHHhccCCCCCceeeeeecceeEeeccccCCCCCcEEEeccccCccchHHHHhcCcee
Confidence 45668899999996554311 111 22 11 57999999998324899999999999999999999998
Q ss_pred Ee
Q 029840 120 LT 121 (187)
Q Consensus 120 ~t 121 (187)
+.
T Consensus 144 ~~ 145 (147)
T KOG1742|consen 144 VL 145 (147)
T ss_pred ee
Confidence 64
No 14
>PF05573 NosL: NosL; InterPro: IPR008719 NosL is one of the accessory proteins of the nos (nitrous oxide reductase) gene cluster. NosL is a monomeric protein of 18,540 MW that specifically and stoichiometrically binds Cu(I). The copper ion in NosL is ligated by a Cys residue, and one Met and one His are thought to serve as the other ligands. It is possible that NosL is a copper chaperone involved in metallocentre assembly []. This entry also contains HTH-type transcriptional repressors, including YcnK. YcnK may act as a negative transcriptional regulator of YcnJ in the presence of copper and may use copper as a corepressor. The gene, ycnK, is significantly induced under copper-limiting conditions.; PDB: 2HQ3_A 2HPU_A.
Probab=43.46 E-value=22 Score=28.30 Aligned_cols=31 Identities=32% Similarity=0.461 Sum_probs=21.9
Q ss_pred EEEEEeccHHHHHHHHHhCCeEEeHHHHHHh
Q 029840 98 KVTALRFTETARARIEKAGGECLTFDQLALR 128 (187)
Q Consensus 98 ~V~A~~fS~sA~eKIekAGGki~t~dqL~~~ 128 (187)
.+.|++=-+.|.+-..+.||+|++++|+-.+
T Consensus 117 ~~~aF~~~~~A~~F~~~~GG~v~~f~ev~~~ 147 (149)
T PF05573_consen 117 DLIAFASKEDAEAFAKEHGGKVLTFDEVTED 147 (149)
T ss_dssp -EEEES-HHHHHHHHHHTEEEEEEGGG--HH
T ss_pred cccccCCHHHHHHHHHHcCCEEeeHHHCCHh
Confidence 3555555667788899999999999998653
No 15
>KOG0855 consensus Alkyl hydroperoxide reductase, thiol specific antioxidant and related enzymes [Posttranslational modification, protein turnover, chaperones]
Probab=28.09 E-value=1.2e+02 Score=26.08 Aligned_cols=78 Identities=26% Similarity=0.392 Sum_probs=49.8
Q ss_pred EEEeeecCC-ceee------eecCeEEEEEeccHHHHHHHHHhCCeEEeH--HHHHHhCC----CCCcEEEeecCCchhH
Q 029840 80 VVVGTVTDD-IRVY------EVPALKVTALRFTETARARIEKAGGECLTF--DQLALRAP----LGQNTVLLRGPKNARE 146 (187)
Q Consensus 80 vv~gKVLg~-G~l~------~vpkl~V~A~~fS~sA~eKIekAGGki~t~--dqL~~~~P----~G~~v~ll~g~~~~r~ 146 (187)
+-.-||+++ +-+. ..|--|-.|..|-. --+++.+||-+|+-+ |+-+..-- ..=--.||..| .+|
T Consensus 82 isLkkit~nk~vV~f~YP~asTPGCTkQaCgFRD-nY~k~kka~aeV~GlS~D~s~sqKaF~sKqnlPYhLLSDp--k~e 158 (211)
T KOG0855|consen 82 ISLKKITGNKPVVLFFYPAASTPGCTKQACGFRD-NYEKFKKAGAEVIGLSGDDSASQKAFASKQNLPYHLLSDP--KNE 158 (211)
T ss_pred eeeeeecCCCcEEEEEeccCCCCCcccccccccc-cHHHHhhcCceEEeeccCchHHHHHhhhhccCCeeeecCc--chh
Confidence 345677777 2221 12445556666644 468999999999744 44432211 12224688888 589
Q ss_pred HhhhhCCCCCCCCCC
Q 029840 147 AVKHFGPAPGVPHSH 161 (187)
Q Consensus 147 ~~~hfg~a~g~~~s~ 161 (187)
+.+-|| ||++|.+-
T Consensus 159 ~ik~lG-a~k~p~gg 172 (211)
T KOG0855|consen 159 VIKDLG-APKDPFGG 172 (211)
T ss_pred HHHHhC-CCCCCCCC
Confidence 999999 89988764
No 16
>COG1888 Uncharacterized protein conserved in archaea [Function unknown]
Probab=20.32 E-value=1.1e+02 Score=23.47 Aligned_cols=32 Identities=16% Similarity=0.362 Sum_probs=23.3
Q ss_pred CeEEEEEecc-HHHHHHHHHhCCeEEeHHHHHH
Q 029840 96 ALKVTALRFT-ETARARIEKAGGECLTFDQLAL 127 (187)
Q Consensus 96 kl~V~A~~fS-~sA~eKIekAGGki~t~dqL~~ 127 (187)
+++|....+. ..-++.||+.||-|.++||.+.
T Consensus 52 ~itIeG~~ldydei~~~iE~~Gg~IHSiDevva 84 (97)
T COG1888 52 KITIEGTNLDYDEIEEVIEELGGAIHSIDEVVA 84 (97)
T ss_pred EEEEEcCCCCHHHHHHHHHHcCCeeeehhhhhh
Confidence 3444444332 4578899999999999999864
Done!