Query psy6264
Match_columns 120
No_of_seqs 149 out of 1030
Neff 5.7
Searched_HMMs 46136
Date Fri Aug 16 21:56:45 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy6264.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/6264hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 CHL00159 rpl13 ribosomal prote 100.0 2.6E-35 5.6E-40 217.0 6.7 85 1-85 58-142 (143)
2 PRK09216 rplM 50S ribosomal pr 100.0 2.8E-35 6.1E-40 217.0 6.1 87 1-87 57-143 (144)
3 KOG3203|consensus 100.0 1.1E-35 2.4E-40 220.4 3.3 101 1-103 65-165 (165)
4 TIGR01066 rplM_bact ribosomal 100.0 1.3E-34 2.9E-39 212.6 6.6 85 1-85 55-139 (140)
5 COG0102 RplM Ribosomal protein 100.0 4.5E-33 9.7E-38 205.5 6.4 87 1-87 57-144 (148)
6 PLN00205 ribisomal protein L13 100.0 2.2E-32 4.7E-37 209.2 6.8 86 1-86 59-144 (191)
7 PF00572 Ribosomal_L13: Riboso 100.0 9.5E-33 2.1E-37 200.0 1.4 84 1-84 43-126 (128)
8 TIGR01077 L13_A_E ribosomal pr 100.0 2.5E-30 5.5E-35 190.3 6.6 106 1-106 30-136 (142)
9 cd00392 Ribosomal_L13 Ribosoma 100.0 1.5E-29 3.3E-34 180.2 6.0 72 1-72 43-114 (114)
10 PRK06394 rpl13p 50S ribosomal 99.9 4.9E-28 1.1E-32 178.9 6.2 104 1-105 34-139 (146)
11 PTZ00068 60S ribosomal protein 99.9 2.7E-26 6E-31 177.1 6.0 105 1-106 35-142 (202)
12 KOG3204|consensus 99.3 1.6E-12 3.6E-17 99.9 1.9 76 1-83 37-113 (197)
13 TIGR03544 DivI1A_domain DivIVA 32.9 24 0.00053 19.5 0.9 21 86-107 6-26 (34)
14 cd07849 STKc_ERK1_2_like Catal 31.1 37 0.0008 26.5 2.0 59 45-104 268-334 (336)
15 KOG1696|consensus 30.0 31 0.00067 26.7 1.4 32 18-54 72-107 (193)
16 PHA01160 nonstructural protein 27.4 49 0.0011 19.3 1.6 25 38-62 10-34 (40)
17 PF08920 SF3b1: Splicing facto 26.1 30 0.00066 25.6 0.7 28 91-118 79-111 (144)
18 PTZ00445 p36-lilke protein; Pr 21.1 37 0.0008 27.0 0.3 15 104-118 137-151 (219)
19 PRK05097 Ter macrodomain organ 21.0 61 0.0013 24.3 1.4 49 38-86 48-98 (150)
No 1
>CHL00159 rpl13 ribosomal protein L13; Validated
Probab=100.00 E-value=2.6e-35 Score=216.99 Aligned_cols=85 Identities=24% Similarity=0.447 Sum_probs=82.5
Q ss_pred CccceeEeeCccccceEEEEecCCCCCccccChhhhhhcChHHHHHHHHHhcCCCChhHHHHhccccccCCCCCChhhhc
Q psy6264 1 MNSRHIALPGYEWKKRAYFHHTGYPGGVSWTLAWQLHEIDPTLVMKKAVRWELPRSLIKFRLMARLHIFPDQEVPEDLLK 80 (120)
Q Consensus 1 vNaeki~itG~k~~~K~y~~htgypGglk~~~~~~~~~r~P~~il~~AVrgMLPkn~lgr~~l~rLkvy~G~~hP~~~~~ 80 (120)
|||++|+|||+||.+|.|++|||||||+++.+++++++++|++||++||+||||||.+|+.+|+||+||+|++|||++|+
T Consensus 58 iNa~kv~~TG~K~~~K~y~~htg~pGg~k~~~~~~~~~r~P~~il~~aV~gMLPkn~lgr~~~~rLkvy~G~~hph~aq~ 137 (143)
T CHL00159 58 INAEKIKVTGNKTSQKFYVRHSGRPGGLKIETFEELQNRLPNRIIEKAVKGMLPKGPLGRKLFTKLKVYKGESHPHVAQK 137 (143)
T ss_pred EecceeEEeCchhhheEEEecCCCCCCcccccHHHHhhcCHHHHHHHHHHhcCCCChhHHHHHhCCEEeCCCCCCccccC
Confidence 79999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred cchhh
Q psy6264 81 NVSSQ 85 (120)
Q Consensus 81 ~~~~~ 85 (120)
+....
T Consensus 138 p~~~~ 142 (143)
T CHL00159 138 PIKIN 142 (143)
T ss_pred CeecC
Confidence 87653
No 2
>PRK09216 rplM 50S ribosomal protein L13; Reviewed
Probab=100.00 E-value=2.8e-35 Score=217.03 Aligned_cols=87 Identities=25% Similarity=0.497 Sum_probs=84.4
Q ss_pred CccceeEeeCccccceEEEEecCCCCCccccChhhhhhcChHHHHHHHHHhcCCCChhHHHHhccccccCCCCCChhhhc
Q psy6264 1 MNSRHIALPGYEWKKRAYFHHTGYPGGVSWTLAWQLHEIDPTLVMKKAVRWELPRSLIKFRLMARLHIFPDQEVPEDLLK 80 (120)
Q Consensus 1 vNaeki~itG~k~~~K~y~~htgypGglk~~~~~~~~~r~P~~il~~AVrgMLPkn~lgr~~l~rLkvy~G~~hP~~~~~ 80 (120)
||||+|+|||+||.+|.||+|||||||+++.+++++++++|++||++||+||||+|.+|+.+|+||+||+|++|||++|+
T Consensus 57 iNa~ki~~tG~k~~~k~y~~htg~pGglk~~~~~~~~~r~P~~il~~aVrgMLPkn~lgr~~~~rLkvy~G~~hp~~~q~ 136 (144)
T PRK09216 57 INAEKVKLTGKKLTDKIYYRHSGYPGGLKEITFGELLAKKPERVIEKAVKGMLPKNPLGRAMFKKLKVYAGAEHPHAAQQ 136 (144)
T ss_pred EeCceeEEcCchHhheeeEEecccCCCCEEecHHHHhhhCHHHHHHHHHHhcCCCCccHHHHHhCcEEeCCCCCCccccC
Confidence 79999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred cchhhcc
Q psy6264 81 NVSSQIR 87 (120)
Q Consensus 81 ~~~~~~~ 87 (120)
+..+++.
T Consensus 137 p~~~~~~ 143 (144)
T PRK09216 137 PEVLEIK 143 (144)
T ss_pred CEecccC
Confidence 9887654
No 3
>KOG3203|consensus
Probab=100.00 E-value=1.1e-35 Score=220.36 Aligned_cols=101 Identities=41% Similarity=0.735 Sum_probs=97.2
Q ss_pred CccceeEeeCccccceEEEEecCCCCCccccChhhhhhcChHHHHHHHHHhcCCCChhHHHHhccccccCCCCCChhhhc
Q psy6264 1 MNSRHIALPGYEWKKRAYFHHTGYPGGVSWTLAWQLHEIDPTLVMKKAVRWELPRSLIKFRLMARLHIFPDQEVPEDLLK 80 (120)
Q Consensus 1 vNaeki~itG~k~~~K~y~~htgypGglk~~~~~~~~~r~P~~il~~AVrgMLPkn~lgr~~l~rLkvy~G~~hP~~~~~ 80 (120)
+||++|.|||+||++|+|++|||||||++..++++++.++|++|+++||+||||+|.||+.+|++|+||+|++||+..
T Consensus 65 ~N~~~Ia~sG~K~~qk~Y~~HsGyPG~lk~~~~~q~~~rdp~~Iv~~AV~gMLPkN~Lrr~~~~rL~lf~g~e~p~~~-- 142 (165)
T KOG3203|consen 65 TNCKKIAFSGKKWEQKIYRSHSGYPGGLKQTTADQLADRDPCRIVRLAVYGMLPKNLLRRRRMQRLHLFPGEEHPEKV-- 142 (165)
T ss_pred ecchhheeccchhhhhhhhhcCCCCCchhhhHHHHHhhhCHHHHHHHHHHhhCccchHHHHHhheeeccCCccCchhh--
Confidence 699999999999999999999999999999999999999999999999999999999999999999999999999544
Q ss_pred cchhhccccCCcccccccCCHHH
Q psy6264 81 NVSSQIRQLRPVPRTLASYSDKE 103 (120)
Q Consensus 81 ~~~~~~~qv~~vpk~~~~~~~~e 103 (120)
|+..++.|++.||+++++|+.+|
T Consensus 143 Ni~~~~~q~~~vp~r~~e~~~~~ 165 (165)
T KOG3203|consen 143 NIGSELHQPQGVPKRLDEYTFEE 165 (165)
T ss_pred hhHHHhccccCCCchhHHHhhcC
Confidence 99999999999999999999875
No 4
>TIGR01066 rplM_bact ribosomal protein L13, bacterial type. This model distinguishes ribosomal protein L13 of bacteria and organelles from its eukarytotic and archaeal counterparts.
Probab=100.00 E-value=1.3e-34 Score=212.57 Aligned_cols=85 Identities=25% Similarity=0.536 Sum_probs=82.4
Q ss_pred CccceeEeeCccccceEEEEecCCCCCccccChhhhhhcChHHHHHHHHHhcCCCChhHHHHhccccccCCCCCChhhhc
Q psy6264 1 MNSRHIALPGYEWKKRAYFHHTGYPGGVSWTLAWQLHEIDPTLVMKKAVRWELPRSLIKFRLMARLHIFPDQEVPEDLLK 80 (120)
Q Consensus 1 vNaeki~itG~k~~~K~y~~htgypGglk~~~~~~~~~r~P~~il~~AVrgMLPkn~lgr~~l~rLkvy~G~~hP~~~~~ 80 (120)
||||+|+|||+||.+|.||+|||||||+++.+++++++++|++||++||+||||||.+|+.+|+||+||+|++|||++|+
T Consensus 55 iNa~ki~~tG~k~~~k~y~~htg~pgg~k~~~~~~~~~r~P~~ii~~aVrGMLPkn~lgr~~l~rLkvy~G~~hp~~~q~ 134 (140)
T TIGR01066 55 INAEKVRLTGKKLEQKVYYRHSGYPGGLKSRTFEEMIARKPERVLEHAVKGMLPKNRLGRKLFKKLKVYAGSEHPHEAQK 134 (140)
T ss_pred EeccEEEEeCchhhceeeEEEcccCCccccccHHHhhhcCHHHHHHHHHHhcCCCCccHHHHHhCeEEeCCCCCChhhcC
Confidence 79999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred cchhh
Q psy6264 81 NVSSQ 85 (120)
Q Consensus 81 ~~~~~ 85 (120)
+...+
T Consensus 135 p~~~~ 139 (140)
T TIGR01066 135 PIVLD 139 (140)
T ss_pred CeecC
Confidence 87643
No 5
>COG0102 RplM Ribosomal protein L13 [Translation, ribosomal structure and biogenesis]
Probab=99.98 E-value=4.5e-33 Score=205.55 Aligned_cols=87 Identities=22% Similarity=0.471 Sum_probs=82.7
Q ss_pred CccceeEeeCccccceEEEEecCCCCCccccChhhhhh-cChHHHHHHHHHhcCCCChhHHHHhccccccCCCCCChhhh
Q psy6264 1 MNSRHIALPGYEWKKRAYFHHTGYPGGVSWTLAWQLHE-IDPTLVMKKAVRWELPRSLIKFRLMARLHIFPDQEVPEDLL 79 (120)
Q Consensus 1 vNaeki~itG~k~~~K~y~~htgypGglk~~~~~~~~~-r~P~~il~~AVrgMLPkn~lgr~~l~rLkvy~G~~hP~~~~ 79 (120)
||||||+|||+|..+|.||+||+||||+++.+++.+.+ |.|++||++||+||||+|.+||++|+||+||.|++|||.+|
T Consensus 57 INAeKv~iTG~K~~~k~yy~hs~~~gglk~~t~~~~~~~r~P~ri~~~AVrGMLPk~~lGr~~~krLkVy~G~~h~~~aq 136 (148)
T COG0102 57 INAEKVVITGKKLTDKKYYRHSGYPGGLKNPTRGGPLAPRRPERILERAVRGMLPKNPLGRAALKRLKVYAGIPHPHEAQ 136 (148)
T ss_pred EeceeeEEecccccceEEEEeeccCCcccccccccccccCCHHHHHHHHHhccCCCChhHHHHHhCceEecCCCCccccc
Confidence 79999999999999999999999999999999977776 99999999999999999999999999999999999999999
Q ss_pred ccchhhcc
Q psy6264 80 KNVSSQIR 87 (120)
Q Consensus 80 ~~~~~~~~ 87 (120)
++.+..+.
T Consensus 137 ~p~~l~~~ 144 (148)
T COG0102 137 KPEALELK 144 (148)
T ss_pred cchhhhhh
Confidence 98877654
No 6
>PLN00205 ribisomal protein L13 family protein; Provisional
Probab=99.97 E-value=2.2e-32 Score=209.18 Aligned_cols=86 Identities=28% Similarity=0.331 Sum_probs=83.2
Q ss_pred CccceeEeeCccccceEEEEecCCCCCccccChhhhhhcChHHHHHHHHHhcCCCChhHHHHhccccccCCCCCChhhhc
Q psy6264 1 MNSRHIALPGYEWKKRAYFHHTGYPGGVSWTLAWQLHEIDPTLVMKKAVRWELPRSLIKFRLMARLHIFPDQEVPEDLLK 80 (120)
Q Consensus 1 vNaeki~itG~k~~~K~y~~htgypGglk~~~~~~~~~r~P~~il~~AVrgMLPkn~lgr~~l~rLkvy~G~~hP~~~~~ 80 (120)
|||++|+|||+||.+|.|++|||||||+++.+++++++++|++||++||+||||+|.+|+.+|+||+||+|++|||+.|+
T Consensus 59 INAekI~lTG~K~~~K~Y~~htgypGglk~~~~~~~~~r~P~~Il~kAVrGMLPkn~lr~~~~krLkVY~G~~hp~~~q~ 138 (191)
T PLN00205 59 LNAKDISVTGRKLTDKFYRWHTGYIGHLKERSLKDQMAKDPTEVIRKAVLRMLPRNRLRDDRDRKLRIFAGSEHPFGDKP 138 (191)
T ss_pred EeccEEEEeCChhhcceEEEecCCCCCcccccHHHHhccCHHHHHHHHHHhcCCCCchHHHHHhCCEEECCCCCChhccC
Confidence 79999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred cchhhc
Q psy6264 81 NVSSQI 86 (120)
Q Consensus 81 ~~~~~~ 86 (120)
++...+
T Consensus 139 p~~~~~ 144 (191)
T PLN00205 139 LEPFVM 144 (191)
T ss_pred CeEecC
Confidence 987654
No 7
>PF00572 Ribosomal_L13: Ribosomal protein L13; InterPro: IPR005822 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 L13 is one of the proteins from the large ribosomal subunit []. In Escherichia coli, L13 is known to be one of the early assembly proteins of the 50S ribosomal subunit.; GO: 0003735 structural constituent of ribosome, 0006412 translation, 0005840 ribosome; PDB: 4A17_I 4A1E_I 4A1A_I 4A1C_I 3D5B_N 3MS1_J 1VSP_H 3PYT_J 3PYO_J 3PYV_J ....
Probab=99.97 E-value=9.5e-33 Score=200.01 Aligned_cols=84 Identities=37% Similarity=0.715 Sum_probs=81.7
Q ss_pred CccceeEeeCccccceEEEEecCCCCCccccChhhhhhcChHHHHHHHHHhcCCCChhHHHHhccccccCCCCCChhhhc
Q psy6264 1 MNSRHIALPGYEWKKRAYFHHTGYPGGVSWTLAWQLHEIDPTLVMKKAVRWELPRSLIKFRLMARLHIFPDQEVPEDLLK 80 (120)
Q Consensus 1 vNaeki~itG~k~~~K~y~~htgypGglk~~~~~~~~~r~P~~il~~AVrgMLPkn~lgr~~l~rLkvy~G~~hP~~~~~ 80 (120)
||||+|+|||++|.+|.|++|||||||+++.+++++++++|++||++||+||||+|.+|+++|+||+||+|++|||+.|+
T Consensus 43 iNae~i~~tG~k~~~k~y~~h~~~~g~~~~~~~~~~~~~~P~~i~~~aVrgMLP~n~~g~~~l~rL~vy~g~~hp~~~~~ 122 (128)
T PF00572_consen 43 INAEKIVLTGKKWRQKVYYRHTGYPGGLKNPTAKGLHEKDPSRILKRAVRGMLPKNKLGREALKRLKVYPGEPHPHAAQK 122 (128)
T ss_dssp ECGGGBEESSHHHHHHHHHHEHSSSTSCEEEECHHHHCSSHHHHHHHHHHTTSTTSHHHHHHHTTEEEESSSSCSTTSSS
T ss_pred EcCeeeEecCCeecceEEEeecccchhhcccchhhhhhcCHHHHHHHHHHHHCCCChhhhHHhhceEEECCCCCChhccC
Confidence 79999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred cchh
Q psy6264 81 NVSS 84 (120)
Q Consensus 81 ~~~~ 84 (120)
++..
T Consensus 123 ~~~~ 126 (128)
T PF00572_consen 123 PVVL 126 (128)
T ss_dssp CBEE
T ss_pred CEeC
Confidence 8764
No 8
>TIGR01077 L13_A_E ribosomal protein L13, archaeal/eukaryotic. This model represents ribosomal protein of L13 from the Archaea and from the eukaryotic cytosol. Bacterial and organellar forms are represented by TIGR01066.
Probab=99.96 E-value=2.5e-30 Score=190.32 Aligned_cols=106 Identities=14% Similarity=0.141 Sum_probs=88.6
Q ss_pred CccceeEeeCccccceEEEEecCCCCCccccChhhhhhcChHHHHHHHHHhcCCCC-hhHHHHhccccccCCCCCChhhh
Q psy6264 1 MNSRHIALPGYEWKKRAYFHHTGYPGGVSWTLAWQLHEIDPTLVMKKAVRWELPRS-LIKFRLMARLHIFPDQEVPEDLL 79 (120)
Q Consensus 1 vNaeki~itG~k~~~K~y~~htgypGglk~~~~~~~~~r~P~~il~~AVrgMLPkn-~lgr~~l~rLkvy~G~~hP~~~~ 79 (120)
||||+|++||+|+.++.||+||+..|+....+++++++++|++||++||+||||+| .+|+.+|+||+||+|++|||+.|
T Consensus 30 iNaeki~~TG~k~~~k~~y~~~~~~g~~~~~~~~~~~~r~P~~il~~aVrGMLPk~~~~Gr~~~krLkvy~G~~h~~~~q 109 (142)
T TIGR01077 30 VNAEKIVISGNFYRNKLKYKEFLRKRTLTNPRRGPFFPRAPSRIFRRTVRGMLPHKTARGRAALRRLKVYVGIPPELDKK 109 (142)
T ss_pred EechHheecCchhhheeEEEEECCCCCcccCCHHHhhhcCHHHHHHHHHHHhCCCCChhHHHHHhCcEEecCCCCCcccc
Confidence 79999999999999999999997666666668999999999999999999999986 89999999999999999999999
Q ss_pred ccchhhccccCCcccccccCCHHHHhc
Q psy6264 80 KNVSSQIRQLRPVPRTLASYSDKEVDE 106 (120)
Q Consensus 80 ~~~~~~~~qv~~vpk~~~~~~~~e~~~ 106 (120)
+++.....++-+.-..-...|-.|+..
T Consensus 110 k~~~~~~a~~~~~~~~~~~~~lg~l~~ 136 (142)
T TIGR01077 110 KRVVVPEALVSRLSPTRKYVTLGELAK 136 (142)
T ss_pred CccccChhhhhccCCCCceEEHHHHHH
Confidence 999876665433222222336666643
No 9
>cd00392 Ribosomal_L13 Ribosomal protein L13. Protein L13, a large ribosomal subunit protein, is one of five proteins required for an early folding intermediate of 23S rRNA in the assembly of the large subunit. L13 is situated on the bottom of the large subunit, near the polypeptide exit site. It interacts with proteins L3 and L6, and forms an extensive network of interactions with 23S rRNA. L13 has been identified as a homolog of the human breast basic conserved protein 1 (BBC1), a protein identified through its increased expression in breast cancer. L13 expression is also upregulated in a variety of human gastrointestinal cancers, suggesting it may play a role in the etiology of a variety of human malignancies.
Probab=99.96 E-value=1.5e-29 Score=180.20 Aligned_cols=72 Identities=33% Similarity=0.701 Sum_probs=70.9
Q ss_pred CccceeEeeCccccceEEEEecCCCCCccccChhhhhhcChHHHHHHHHHhcCCCChhHHHHhccccccCCC
Q psy6264 1 MNSRHIALPGYEWKKRAYFHHTGYPGGVSWTLAWQLHEIDPTLVMKKAVRWELPRSLIKFRLMARLHIFPDQ 72 (120)
Q Consensus 1 vNaeki~itG~k~~~K~y~~htgypGglk~~~~~~~~~r~P~~il~~AVrgMLPkn~lgr~~l~rLkvy~G~ 72 (120)
||||+|+|||+||.+|.||+||+||||+++.+++++++++|++||++||+||||||.+|+++|+||+||+|+
T Consensus 43 iNa~~i~~tG~k~~~k~y~~~~~~~g~~~~~~~~~~~~~~P~~il~~aV~gMLPkn~~g~~~l~rLkvy~g~ 114 (114)
T cd00392 43 VNAEKIVITGKKWRQKVYYRHTGYPGGLKNPTAGPLHPRAPERILKRAVRGMLPKNKLGRAALKRLKVYEGA 114 (114)
T ss_pred EeccEEEEeCchhhccceEEeccCCCCCccCCcchhhhhCHHHHHHHHHHhcCCCChhHHHHHhCcEEeCCC
Confidence 799999999999999999999999999999999999999999999999999999999999999999999985
No 10
>PRK06394 rpl13p 50S ribosomal protein L13P; Reviewed
Probab=99.95 E-value=4.9e-28 Score=178.90 Aligned_cols=104 Identities=13% Similarity=0.093 Sum_probs=81.5
Q ss_pred CccceeEeeCccccceEEEEecCCCCCcccc-ChhhhhhcChHHHHHHHHHhcCC-CChhHHHHhccccccCCCCCChhh
Q psy6264 1 MNSRHIALPGYEWKKRAYFHHTGYPGGVSWT-LAWQLHEIDPTLVMKKAVRWELP-RSLIKFRLMARLHIFPDQEVPEDL 78 (120)
Q Consensus 1 vNaeki~itG~k~~~K~y~~htgypGglk~~-~~~~~~~r~P~~il~~AVrgMLP-kn~lgr~~l~rLkvy~G~~hP~~~ 78 (120)
|||++|++||+|+.++.||+|+..+++..++ +++++++++|++||++||+|||| ||.+|+.+|+||+||+|++|||+.
T Consensus 34 iNa~kv~~tG~K~~~~~~y~~~~~~k~~~np~~~~~~~~r~P~~il~~AV~gMLP~kn~~gr~~~~rLkvy~G~~h~~~~ 113 (146)
T PRK06394 34 VNAEKAVITGNRERVIEKYKQRRERGSHYNPYRNGPKYPRRPDRIFKRTIRGMLPYKKPRGREALKRLKVYVGVPKELEG 113 (146)
T ss_pred EechheEecCchhhheeeEeCCCCCcccCCCCChHHhhhcCHHHHHHHHHHhcCCCCChhHHHHHhCcEEecCCCCCccc
Confidence 7999999999998875555444433333222 78999999999999999999999 899999999999999999999999
Q ss_pred hccchhhccccCCcccccccCCHHHHh
Q psy6264 79 LKNVSSQIRQLRPVPRTLASYSDKEVD 105 (120)
Q Consensus 79 ~~~~~~~~~qv~~vpk~~~~~~~~e~~ 105 (120)
|+++...+....... .....|-+|+.
T Consensus 114 qkp~~~~~a~~~~~~-~~k~~~lgel~ 139 (146)
T PRK06394 114 KEFEVIDEADLSRLS-TIKYVTLGEVS 139 (146)
T ss_pred CCCEEecHHHHhccC-CCCcEEHHHHH
Confidence 999987775543222 22233666664
No 11
>PTZ00068 60S ribosomal protein L13a; Provisional
Probab=99.93 E-value=2.7e-26 Score=177.06 Aligned_cols=105 Identities=16% Similarity=0.176 Sum_probs=80.8
Q ss_pred CccceeEeeCccccceEEEEecCCCCCccccChhhhhhcChHHHHHHHHHhcCCC-ChhHHHHhccccccCCCCCChhhh
Q psy6264 1 MNSRHIALPGYEWKKRAYFHHTGYPGGVSWTLAWQLHEIDPTLVMKKAVRWELPR-SLIKFRLMARLHIFPDQEVPEDLL 79 (120)
Q Consensus 1 vNaeki~itG~k~~~K~y~~htgypGglk~~~~~~~~~r~P~~il~~AVrgMLPk-n~lgr~~l~rLkvy~G~~hP~~~~ 79 (120)
||||+|+|||+++++|.||+|....+...++..++++++.|++||++||+||||+ |.+|+++|+||+||+|++|||+.+
T Consensus 35 VNaeki~iTG~k~~~K~~y~~~lk~~~~~nP~~g~~~~r~P~~Il~raVrGMLPkk~~~Gr~alkrLkVy~G~php~~~~ 114 (202)
T PTZ00068 35 VRCEDLNISGSLFRNKVKYEEFLRKRMNTNPRRGPFHHRAPSDIFWRTVRGMLPHKTKRGAAALKRLKVFEGVPAPYDKV 114 (202)
T ss_pred EecceeEeecchhhheeeeEeeeEeeccCCCCcchhcccCHHHHHHHHHhhhCCCCChhHHHHHhCCEEecCCCCchhcc
Confidence 7999999999999999999993222222222369999999999999999999996 999999999999999999999999
Q ss_pred ccchhhccc--cCCcccccccCCHHHHhc
Q psy6264 80 KNVSSQIRQ--LRPVPRTLASYSDKEVDE 106 (120)
Q Consensus 80 ~~~~~~~~q--v~~vpk~~~~~~~~e~~~ 106 (120)
+.++..... .+--| .-...|-+|++.
T Consensus 115 k~~vvp~A~r~~rl~~-~~ky~~lg~ls~ 142 (202)
T PTZ00068 115 KRVVIPSALRVLRLKP-ERPYTVLGDLSA 142 (202)
T ss_pred CcccccchhhhhccCC-CCceeeHHHHHH
Confidence 888643322 33222 111336666653
No 12
>KOG3204|consensus
Probab=99.26 E-value=1.6e-12 Score=99.89 Aligned_cols=76 Identities=20% Similarity=0.293 Sum_probs=64.4
Q ss_pred CccceeEeeCccccceEEEEecCCCCCccccChhhhhhcChHHHHHHHHHhcCC-CChhHHHHhccccccCCCCCChhhh
Q psy6264 1 MNSRHIALPGYEWKKRAYFHHTGYPGGVSWTLAWQLHEIDPTLVMKKAVRWELP-RSLIKFRLMARLHIFPDQEVPEDLL 79 (120)
Q Consensus 1 vNaeki~itG~k~~~K~y~~htgypGglk~~~~~~~~~r~P~~il~~AVrgMLP-kn~lgr~~l~rLkvy~G~~hP~~~~ 79 (120)
|.||.|.|||+-+.+|-|-++ .-. ..+++|.+.|++|++++|+||+| +++.|+.++++|++|+|.++|++.+
T Consensus 37 vr~E~i~isg~f~r~k~~lrk------~~~-~ng~~hfr~ps~i~~~~vrgm~~~kt~rg~aal~~l~~~eGip~~~dk~ 109 (197)
T KOG3204|consen 37 VRCEEINISGNFYRNKLFLRK------RLN-RNGPFHFRAPSRILQKAVRGMYPHKTKRGRAALERLRVFEGIPPPYDKQ 109 (197)
T ss_pred EEEeEEEEecceecchHHHhh------hhc-ccCcchhhhHHHHHHHhhccccccCCCccHHHHHHHHHhCCCCChhhhc
Confidence 469999999998888833322 111 22899999999999999999999 6999999999999999999999998
Q ss_pred ccch
Q psy6264 80 KNVS 83 (120)
Q Consensus 80 ~~~~ 83 (120)
++++
T Consensus 110 ~r~v 113 (197)
T KOG3204|consen 110 KRLV 113 (197)
T ss_pred CCcc
Confidence 8864
No 13
>TIGR03544 DivI1A_domain DivIVA domain. This model describes a domain found in Bacillus subtilis cell division initiation protein DivIVA, and homologs, toward the N-terminus. It is also found as a repeated domain in certain other proteins, including family TIGR03543.
Probab=32.89 E-value=24 Score=19.46 Aligned_cols=21 Identities=43% Similarity=0.705 Sum_probs=14.8
Q ss_pred ccccCCcccccccCCHHHHhcC
Q psy6264 86 IRQLRPVPRTLASYSDKEVDEF 107 (120)
Q Consensus 86 ~~qv~~vpk~~~~~~~~e~~~f 107 (120)
|+++. -++.+..|.++|.+.|
T Consensus 6 Ir~~~-F~~~~rGY~~~eVD~f 26 (34)
T TIGR03544 6 IRNKR-FKKKLRGYDAAEVDAF 26 (34)
T ss_pred HhhCc-CCCCCCCCCHHHHHHH
Confidence 44444 4555789999999887
No 14
>cd07849 STKc_ERK1_2_like Catalytic domain of Extracellular signal-Regulated Kinase 1 and 2-like Serine/Threonine Kinases. Serine/Threonine Kinases (STKs), Extracellular signal-regulated kinases 1 and 2 (ERK1/2) and Fus3 subfamily, catalytic (c) domain. STKs catalyze the transfer of the gamma-phosphoryl group from ATP to serine/threonine residues on protein substrates. This ERK1/2-like subfamily is part of a larger superfamily that includes the catalytic domains of other protein STKs, protein tyrosine kinases, RIO kinases, aminoglycoside phosphotransferase, choline kinase, and phosphoinositide 3-kinase. This subfamily is composed of the mitogen-activated protein kinases (MAPKs) ERK1, ERK2, baker's yeast Fus3, and similar proteins. MAPK pathways are important mediators of cellular responses to extracellular signals. ERK1/2 activation is preferentially by mitogenic factors, differentiation stimuli, and cytokines, through a kinase cascade involving the MAPK kinases MEK1/2 and a MAPK kinase
Probab=31.10 E-value=37 Score=26.50 Aligned_cols=59 Identities=15% Similarity=0.141 Sum_probs=36.7
Q ss_pred HHHHHHhcCCCChhHH----HHhcc--ccccCCC-CCChhhhccchhhccccCCccc-ccccCCHHHH
Q psy6264 45 MKKAVRWELPRSLIKF----RLMAR--LHIFPDQ-EVPEDLLKNVSSQIRQLRPVPR-TLASYSDKEV 104 (120)
Q Consensus 45 l~~AVrgMLPkn~lgr----~~l~r--Lkvy~G~-~hP~~~~~~~~~~~~qv~~vpk-~~~~~~~~e~ 104 (120)
+...|.+||-.++..| +.+.. ++-|.+. .-| ..+.+.+.++++.++.|+ ++++|-++||
T Consensus 268 ~~~li~~~l~~dP~~Rpt~~e~l~hp~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 334 (336)
T cd07849 268 ALDLLDKMLTFNPHKRITVEEALAHPYLEQYHDPSDEP-VAEEPFPFDFELFDDLPKEKLKELIFEEI 334 (336)
T ss_pred HHHHHHHHcCCChhhCcCHHHHhcCccccccCCCCCcc-cCCCCCChhhccccccCHHHHHHHHHHHh
Confidence 5578999986553333 44433 3333332 112 123567888999999998 7888877776
No 15
>KOG1696|consensus
Probab=29.99 E-value=31 Score=26.71 Aligned_cols=32 Identities=28% Similarity=0.294 Sum_probs=22.0
Q ss_pred EEEecCCCCCccccChhhhhhcChHHHHH----HHHHhcCC
Q psy6264 18 YFHHTGYPGGVSWTLAWQLHEIDPTLVMK----KAVRWELP 54 (120)
Q Consensus 18 y~~htgypGglk~~~~~~~~~r~P~~il~----~AVrgMLP 54 (120)
--+|+|| |-+..|+ -++-|++++| ++.++||-
T Consensus 72 kgrH~G~--GKRkGTa---nArmP~k~~Wmrr~RvlRrlL~ 107 (193)
T KOG1696|consen 72 KGRHMGY--GKRKGTA---NARMPSKVLWMRRMRVLRRLLK 107 (193)
T ss_pred hccccCc--ccccccc---cccCchhHHHHHHHHHHHHHHH
Confidence 3579999 5554554 5688999987 45666665
No 16
>PHA01160 nonstructural protein
Probab=27.37 E-value=49 Score=19.25 Aligned_cols=25 Identities=8% Similarity=0.117 Sum_probs=20.8
Q ss_pred hcChHHHHHHHHHhcCCCChhHHHH
Q psy6264 38 EIDPTLVMKKAVRWELPRSLIKFRL 62 (120)
Q Consensus 38 ~r~P~~il~~AVrgMLPkn~lgr~~ 62 (120)
.+....++.+++-+|-|.|.+++.+
T Consensus 10 rr~srrlf~rt~~r~~~rnrlrr~~ 34 (40)
T PHA01160 10 RRRSRRLFSRTALRMHPRNRLRRIM 34 (40)
T ss_pred HHHHHHHHHHHHHHHchHHHHHHHH
Confidence 3456789999999999999998764
No 17
>PF08920 SF3b1: Splicing factor 3B subunit 1; InterPro: IPR015016 This group of proteins consists of several eukaryotic splicing factor 3B subunit 1 proteins, which associate with p14 through a C terminus beta-strand that interacts with beta-3 of the p14 RNA recognition motif (RRM) beta-sheet, which is in turn connected to an alpha-helix by a loop that makes extensive contacts with both the shorter C-terminal helix and RRM of p14. This subunit is required for 'A' splicing complex assembly (formed by the stable binding of U2 snRNP to the branchpoint sequence in pre-mRNA) and 'E' splicing complex assembly []. ; PDB: 2FHO_A 3LQV_P 2PEH_D 2F9J_P 2F9D_Q.
Probab=26.06 E-value=30 Score=25.59 Aligned_cols=28 Identities=29% Similarity=0.495 Sum_probs=14.6
Q ss_pred CcccccccCCHHHHhc-CC----CCCCCCCCcc
Q psy6264 91 PVPRTLASYSDKEVDE-FP----KINDFPKDYI 118 (120)
Q Consensus 91 ~vpk~~~~~~~~e~~~-fp----~~~~~~~~~~ 118 (120)
++-.+-.-+|+||||+ || +|.++|++|.
T Consensus 79 eid~RNrpLTDEELD~mLPseGYkIl~PP~gY~ 111 (144)
T PF08920_consen 79 EIDERNRPLTDEELDAMLPSEGYKILEPPAGYE 111 (144)
T ss_dssp HHHHCTS-S-HHHHHHTS--SSEEE----TT--
T ss_pred chhhccCcCCHHHHHHhCCcCCcEEcCCCCCCc
Confidence 3445666789999997 78 8999999984
No 18
>PTZ00445 p36-lilke protein; Provisional
Probab=21.14 E-value=37 Score=26.97 Aligned_cols=15 Identities=33% Similarity=0.534 Sum_probs=12.4
Q ss_pred HhcCCCCCCCCCCcc
Q psy6264 104 VDEFPKINDFPKDYI 118 (120)
Q Consensus 104 ~~~fp~~~~~~~~~~ 118 (120)
.+-||+.|+.|++|.
T Consensus 137 ~~yyp~~w~~p~~y~ 151 (219)
T PTZ00445 137 YAYYPKFWQEPSDYR 151 (219)
T ss_pred eeeCCcccCChhhhh
Confidence 357899999999884
No 19
>PRK05097 Ter macrodomain organizer matS-binding protein; Provisional
Probab=20.97 E-value=61 Score=24.25 Aligned_cols=49 Identities=18% Similarity=0.136 Sum_probs=40.7
Q ss_pred hcChHHHHHHHHHhcCC--CChhHHHHhccccccCCCCCChhhhccchhhc
Q psy6264 38 EIDPTLVMKKAVRWELP--RSLIKFRLMARLHIFPDQEVPEDLLKNVSSQI 86 (120)
Q Consensus 38 ~r~P~~il~~AVrgMLP--kn~lgr~~l~rLkvy~G~~hP~~~~~~~~~~~ 86 (120)
+..|..|+++.=.-|-| -|++....-.|=+=|-+++|.|..++.|-++.
T Consensus 48 e~~P~~v~~WI~~hm~p~l~nklkQaIRArRKRhFNAE~qhTrKKSIDLey 98 (150)
T PRK05097 48 ENEPVKVLEWIDKHMNPELVNRMKQTIRARRKRHFNAEHQHTRKKSIDLEY 98 (150)
T ss_pred ccCcHHHHHHHHHhcCHHHHHHHHHHHHHHHHccCCcccccccccCccccH
Confidence 56799999999999999 48887776666677778899999999986653
Done!