Query psy7157
Match_columns 167
No_of_seqs 136 out of 203
Neff 4.5
Searched_HMMs 46136
Date Fri Aug 16 19:38:01 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy7157.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/7157hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF06246 Isy1: Isy1-like splic 100.0 8.4E-64 1.8E-68 426.1 8.1 135 33-167 1-138 (255)
2 KOG3068|consensus 100.0 2.6E-62 5.7E-67 413.2 8.8 135 33-167 1-136 (268)
3 KOG3068|consensus 98.4 1.4E-07 3E-12 81.0 1.9 42 1-51 154-195 (268)
4 PF06246 Isy1: Isy1-like splic 98.2 2E-07 4.3E-12 80.3 0.0 44 1-53 159-202 (255)
5 cd00319 Ribosomal_S12_like Rib 54.3 5.2 0.00011 30.3 0.5 11 156-166 70-80 (95)
6 PF10296 DUF2404: Putative int 45.6 9.8 0.00021 27.3 0.8 36 71-106 11-47 (91)
7 KOG1513|consensus 38.7 56 0.0012 33.9 5.0 68 70-159 769-837 (1300)
8 PF03148 Tektin: Tektin family 35.0 74 0.0016 28.7 4.9 44 71-131 52-95 (384)
9 PF06005 DUF904: Protein of un 35.0 1.2E+02 0.0025 21.6 4.9 27 100-126 39-65 (72)
10 CHL00051 rps12 ribosomal prote 33.1 18 0.00039 28.6 0.6 11 156-166 85-95 (123)
11 KOG2685|consensus 30.5 95 0.0021 29.2 4.8 44 71-131 79-122 (421)
12 COG1158 Rho Transcription term 30.1 22 0.00048 33.1 0.7 23 141-163 282-311 (422)
13 cd03368 Ribosomal_S12 S12-like 29.5 22 0.00048 27.5 0.5 11 156-166 83-93 (108)
14 PLN00180 NDF6 (NDH-dependent f 29.4 57 0.0012 27.1 2.9 23 71-93 150-172 (180)
15 TIGR00981 rpsL_bact ribosomal 29.3 23 0.00049 28.1 0.6 11 156-166 85-95 (124)
16 PRK05163 rpsL 30S ribosomal pr 29.3 23 0.0005 28.0 0.6 11 156-166 85-95 (124)
17 KOG1029|consensus 28.1 2.6E+02 0.0056 29.0 7.6 50 68-127 471-520 (1118)
18 PF00164 Ribosom_S12_S23: Ribo 27.4 30 0.00066 27.2 1.0 13 154-166 82-94 (122)
19 PRK15422 septal ring assembly 22.1 83 0.0018 23.1 2.3 25 104-128 50-74 (79)
20 cd00607 RNase_Sa RNase_Sa. Rib 21.1 1.9E+02 0.0041 21.9 4.1 41 123-164 20-61 (95)
21 PF09457 RBD-FIP: FIP domain ; 21.1 60 0.0013 21.5 1.3 16 99-114 20-35 (48)
22 KOG1982|consensus 20.9 58 0.0013 29.9 1.6 29 69-97 298-326 (359)
23 PF14361 RsbRD_N: RsbT co-anta 20.7 3.4E+02 0.0073 19.6 7.7 70 39-117 9-78 (105)
24 PF10907 DUF2749: Protein of u 20.2 38 0.00082 24.1 0.2 13 153-165 45-57 (66)
No 1
>PF06246 Isy1: Isy1-like splicing family; InterPro: IPR009360 Isy1 protein is important in the optimisation of splicing [].; PDB: 1X4T_A.
Probab=100.00 E-value=8.4e-64 Score=426.07 Aligned_cols=135 Identities=63% Similarity=1.039 Sum_probs=63.9
Q ss_pred hhccHHHHHHHHHHHHHHhhcccCC-C--CCCCCCCCCCCChHHHHHHHHHHHHHHHHHHHHHhhCCCCchhhhhchHHH
Q psy7157 33 HARNAEKAMTTLARWRAAHEHTDQV-K--DRRPYLASECKSLPAAEKWRSQIIREISRKVAQIQNAGLGEFRIRDLNDEI 109 (167)
Q Consensus 33 MaRN~EKA~s~L~rw~~~k~~~~~~-~--~~RP~~~~~v~~l~~ae~wR~~ii~EIs~ki~~Iqd~~L~E~~IRdLNDeI 109 (167)
||||+|||||||+||+++|+++.+. . .+||++|++|+||++|++||++|++|||+||++||||+||||+||||||+|
T Consensus 1 MARN~EKA~s~L~R~~~~k~~e~~~~~~~~~RP~~~s~v~~l~~ae~WR~~ii~EIs~kv~~Iqd~~L~E~~IRdLNDeI 80 (255)
T PF06246_consen 1 MARNEEKAQSMLNRWQEQKAEEEGGYKDGSRRPKNVSEVKSLPEAEKWRRQIIKEISRKVTRIQDPSLGEFQIRDLNDEI 80 (255)
T ss_dssp -----------------------SS--------S-TTT---HHHHHHHHHHHHHHHHHHHHHHHH--S-HHHHHHHHHHH
T ss_pred CCccHHHHHHHHHHHHHHHHHhhCCcccccCCCCChhhcCCHHHHHHHHHHHHHHHHHHHHHHHhcCCCHHHHHHHHHHH
Confidence 9999999999999999999988862 2 299999999999999999999999999999999999999999999999999
Q ss_pred HHHHHhhhhHHHHHHhhCCCCCCCCCCccccCCCCcccCCCCceEEeecCCCCCcccC
Q psy7157 110 NKLLREKSHWEAQIKELDGPDYARVGPRMLDHDGKEVPGNRGYKYFGAAKDLPVGYLV 167 (167)
Q Consensus 110 NkLirEK~~WE~rI~eLGG~dy~~~~~~~~d~~G~~v~g~~GyrYFG~Ak~LPgVk~~ 167 (167)
|+||+||+|||+||++||||||.+.+++++|++|.+|||++|||||||||+|||||.|
T Consensus 81 NkL~rEK~~WE~rI~~LGG~dy~~~~~~~~d~~G~~~~~~~GyrYFGrAkeLPgVkeL 138 (255)
T PF06246_consen 81 NKLIREKRHWERRIKELGGPDYRRSGPKMLDSEGREVPGGRGYRYFGRAKELPGVKEL 138 (255)
T ss_dssp HHHHHHHHHHHHHHHHHTS--STTT---------------------------------
T ss_pred HHHHHHHHHHHHHHHHhCCCCccccccccccccCcccCCCCCceEeehhccCccHHHH
Confidence 9999999999999999999999999999999999999999999999999999999975
No 2
>KOG3068|consensus
Probab=100.00 E-value=2.6e-62 Score=413.18 Aligned_cols=135 Identities=71% Similarity=1.133 Sum_probs=132.7
Q ss_pred hhccHHHHHHHHHHHHHHhhccc-CCCCCCCCCCCCCCChHHHHHHHHHHHHHHHHHHHHHhhCCCCchhhhhchHHHHH
Q psy7157 33 HARNAEKAMTTLARWRAAHEHTD-QVKDRRPYLASECKSLPAAEKWRSQIIREISRKVAQIQNAGLGEFRIRDLNDEINK 111 (167)
Q Consensus 33 MaRN~EKA~s~L~rw~~~k~~~~-~~~~~RP~~~~~v~~l~~ae~wR~~ii~EIs~ki~~Iqd~~L~E~~IRdLNDeINk 111 (167)
||||+|||+|+|+||+++|.+++ +++++||+++|+|+||++|++||+||++|||+||++||||+||||+|||||||||+
T Consensus 1 MaRN~eka~t~LaRf~~~k~ee~~~pkerRP~~~sec~~l~~aekwRrqIvreIskKva~Iqn~gLgE~rirDLNDEiNk 80 (268)
T KOG3068|consen 1 MARNAEKAMTALARFREAKEEEGGKPKERRPYLASECKSLPEAEKWRRQIVREISKKVARIQNAGLGEFRIRDLNDEINK 80 (268)
T ss_pred CCccHHHHHHHHHHHHHHHHHhccCccccCcccHHhhcccHHHHHHHHHHHHHHHHHHHHHhcCCcchhhhHHHHHHHHH
Confidence 99999999999999999999988 49999999999999999999999999999999999999999999999999999999
Q ss_pred HHHhhhhHHHHHHhhCCCCCCCCCCccccCCCCcccCCCCceEEeecCCCCCcccC
Q psy7157 112 LLREKSHWEAQIKELDGPDYARVGPRMLDHDGKEVPGNRGYKYFGAAKDLPVGYLV 167 (167)
Q Consensus 112 LirEK~~WE~rI~eLGG~dy~~~~~~~~d~~G~~v~g~~GyrYFG~Ak~LPgVk~~ 167 (167)
||+||+|||+||++||||+|.+.+++++|++|..||+++|||||||||+|||||.|
T Consensus 81 LlrEk~~WE~rI~elGG~~y~k~~~Kmld~eg~ev~~~rGyrYFGaAkdLPgVrEl 136 (268)
T KOG3068|consen 81 LLREKHHWEVRIRELGGPNYRKYKAKMLDDEGREVPNIRGYRYFGAAKDLPGVREL 136 (268)
T ss_pred HHHHHHHHHHHHHHhcCcchhhhhhhhhhhhcccCCCCCcchhhhhhccCccHHHH
Confidence 99999999999999999999999999999999999999999999999999999975
No 3
>KOG3068|consensus
Probab=98.38 E-value=1.4e-07 Score=81.04 Aligned_cols=42 Identities=52% Similarity=0.920 Sum_probs=36.9
Q ss_pred CCCCCCCCcccccCCCCccchhhhhHHHHHHhhhccHHHHHHHHHHHHHHh
Q psy7157 1 MKDIDADYYGYRDDDDGVLIPLEMKEEKHRYCHARNAEKAMTTLARWRAAH 51 (167)
Q Consensus 1 ~~~i~~~yyg~rd~~d~~l~~~e~~~e~~~~~MaRN~EKA~s~L~rw~~~k 51 (167)
|+.||+.||||+|++||+|++||+..|.. +| +.++..|+-.|
T Consensus 154 ~k~iDa~yfgY~ddedg~L~~lE~~~E~~----~~-----~~~v~ew~~~k 195 (268)
T KOG3068|consen 154 MKRIDAEYFGYLDDEDGVLEPLEAKIESK----NR-----ERIVEEWRIEK 195 (268)
T ss_pred HHhhhHHHcccccccchhhhHHHHHHHHH----HH-----HHHHHHHHHHH
Confidence 57899999999999999999999999988 66 78888898333
No 4
>PF06246 Isy1: Isy1-like splicing family; InterPro: IPR009360 Isy1 protein is important in the optimisation of splicing [].; PDB: 1X4T_A.
Probab=98.25 E-value=2e-07 Score=80.32 Aligned_cols=44 Identities=45% Similarity=0.908 Sum_probs=0.0
Q ss_pred CCCCCCCCcccccCCCCccchhhhhHHHHHHhhhccHHHHHHHHHHHHHHhhc
Q psy7157 1 MKDIDADYYGYRDDDDGVLIPLEMKEEKHRYCHARNAEKAMTTLARWRAAHEH 53 (167)
Q Consensus 1 ~~~i~~~yyg~rd~~d~~l~~~e~~~e~~~~~MaRN~EKA~s~L~rw~~~k~~ 53 (167)
+++||++||||+|++||+|++.|+++|+. ++ +.++.+|...+..
T Consensus 159 ~k~i~~~YYG~~deed~~L~~~E~~~e~~----~~-----~~~~~~~~~~~~~ 202 (255)
T PF06246_consen 159 YKDIDADYYGYRDEEDGELLEYEAEAEKE----LR-----EEAVEEWKEEEDE 202 (255)
T ss_dssp -----------------------------------------------------
T ss_pred hhcCCccccCCCCCcchhhhHHHHHHHHH----HH-----HHHHHHHHHHHhh
Confidence 57899999999999999999999999999 55 6778889877764
No 5
>cd00319 Ribosomal_S12_like Ribosomal protein S12-like family; composed of prokaryotic 30S ribosomal protein S12, eukaryotic 40S ribosomal protein S23 and similar proteins. S12 and S23 are located at the interface of the large and small ribosomal subunits, adjacent to the decoding center. They play an important role in translocation during the peptide elongation step of protein synthesis. They are also involved in important RNA and protein interactions. Ribosomal protein S12 is essential for maintenance of a pretranslocation state and, together with S13, functions as a control element for the rRNA- and tRNA-driven movements of translocation. S23 interacts with domain III of the eukaryotic elongation factor 2 (eEF2), which catalyzes translocation. Mutations in S12 and S23 have been found to affect translational accuracy. Antibiotics such as streptomycin may also bind S12/S23 and cause the ribosome to misread the genetic code.
Probab=54.28 E-value=5.2 Score=30.25 Aligned_cols=11 Identities=45% Similarity=0.522 Sum_probs=10.0
Q ss_pred eecCCCCCccc
Q psy7157 156 GAAKDLPVGYL 166 (167)
Q Consensus 156 G~Ak~LPgVk~ 166 (167)
|+++||||||.
T Consensus 70 Gr~~DlPGVry 80 (95)
T cd00319 70 GRVKDLPGVRY 80 (95)
T ss_pred CCcCCCCCcEE
Confidence 99999999983
No 6
>PF10296 DUF2404: Putative integral membrane protein conserved region (DUF2404); InterPro: IPR019411 This is entry represents a domain of unknown function found in mitochondrial distribution and morphology proteins Mdm12 and Mdm34, and in maintenance of mitochondrial morphology protein Mmm1. These proteins are components of the ERMES/MDM complex, which serves as a molecular tether to connect the endoplasmic reticulum and mitochondria [].
Probab=45.56 E-value=9.8 Score=27.33 Aligned_cols=36 Identities=19% Similarity=0.478 Sum_probs=29.3
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHhhCCC-Cchhhhhch
Q psy7157 71 LPAAEKWRSQIIREISRKVAQIQNAGL-GEFRIRDLN 106 (167)
Q Consensus 71 l~~ae~wR~~ii~EIs~ki~~Iqd~~L-~E~~IRdLN 106 (167)
+...+.|+..|.+-|.+|++.|.-|+. ++..|++++
T Consensus 11 ~~~t~~~~~~i~~~L~~kL~~i~~P~fl~~i~v~~~~ 47 (91)
T PF10296_consen 11 FRRTEAFRDKIKEKLQKKLNKIKLPSFLDEISVTELD 47 (91)
T ss_pred HhcCHHHHHHHHHHHHHHHccccCCCccCcEEEEEEE
Confidence 345578999999999999999998876 788888765
No 7
>KOG1513|consensus
Probab=38.66 E-value=56 Score=33.88 Aligned_cols=68 Identities=25% Similarity=0.333 Sum_probs=45.9
Q ss_pred ChHHHHHHHHHHHHHHHHHHHHHhhCCCCchhhhhchHHHHHHHHhhhhHHHHHHhhCCCCCCCCCCccccCCCCcccC-
Q psy7157 70 SLPAAEKWRSQIIREISRKVAQIQNAGLGEFRIRDLNDEINKLLREKSHWEAQIKELDGPDYARVGPRMLDHDGKEVPG- 148 (167)
Q Consensus 70 ~l~~ae~wR~~ii~EIs~ki~~Iqd~~L~E~~IRdLNDeINkLirEK~~WE~rI~eLGG~dy~~~~~~~~d~~G~~v~g- 148 (167)
++.+||+.++ +..|+-.||.++- +.|.-..+..| |-+||||+|-. -|...-|++|..
T Consensus 769 ~e~~~er~~~-mkeeLL~kverLg-~~LP~NTLDqL-----------------IdelGGp~~VA---EMTGRrGrvV~te 826 (1300)
T KOG1513|consen 769 DEEEAERVER-MKEELLDKVERLG-RELPPNTLDQL-----------------IDELGGPQRVA---EMTGRRGRVVSTE 826 (1300)
T ss_pred cHHHHHHHHH-HHHHHHHHHHHhc-ccCCcchHHHH-----------------HHHhCCchhHH---HhhccCceeEecC
Confidence 4566777665 6667777887776 77776655443 66899999864 355455666653
Q ss_pred CCCceEEeecC
Q psy7157 149 NRGYKYFGAAK 159 (167)
Q Consensus 149 ~~GyrYFG~Ak 159 (167)
.++|.|=-||-
T Consensus 827 ~g~v~ye~R~e 837 (1300)
T KOG1513|consen 827 DGTVAYESRAE 837 (1300)
T ss_pred CCceeeecccc
Confidence 56888877753
No 8
>PF03148 Tektin: Tektin family; InterPro: IPR000435 Tektin heteropolymers form unique protofilaments of flagellar microtubules []. The proteins are predicted to form extended rods composed of 2 alpha- helical segments (~180 residues long) capable of forming coiled coils, interrupted by non-helical linkers []. The 2 segments are similar in sequence, indicating a gene duplication event. Along each tektin rod, cysteine residues occur with a periodicity of ~8nm, coincident with the axial repeat of tubulin dimers in microtubules []. It is proposed that the assembly of tektin heteropolymers produces filaments with repeats of 8, 16, 24, 32, 40, 48 and 96nm, generating the basis for the complex spatial arrangements of axonemal components [].; GO: 0000226 microtubule cytoskeleton organization, 0005874 microtubule
Probab=35.01 E-value=74 Score=28.75 Aligned_cols=44 Identities=25% Similarity=0.477 Sum_probs=35.9
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHhhCCCCchhhhhchHHHHHHHHhhhhHHHHHHhhCCCCC
Q psy7157 71 LPAAEKWRSQIIREISRKVAQIQNAGLGEFRIRDLNDEINKLLREKSHWEAQIKELDGPDY 131 (167)
Q Consensus 71 l~~ae~wR~~ii~EIs~ki~~Iqd~~L~E~~IRdLNDeINkLirEK~~WE~rI~eLGG~dy 131 (167)
+.+...|+..+ +..+.+++.||..|...|..=|.-+..+.+|=.
T Consensus 52 i~di~~wk~eL-----------------~~~l~~~~~Ei~~L~~~K~~le~aL~~~~~pl~ 95 (384)
T PF03148_consen 52 IRDIRFWKNEL-----------------ERELEELDEEIDLLEEEKRRLEKALEALRKPLS 95 (384)
T ss_pred HHHHHHHHHHH-----------------HHHHHHHHHHHHHHHHHHHHHHHHHHHhcCcHH
Confidence 45566666666 677889999999999999999999998888754
No 9
>PF06005 DUF904: Protein of unknown function (DUF904); InterPro: IPR009252 Cell division protein ZapB is a non-essential, abundant cell division factor that is required for proper Z-ring formation. It is recruited early to the divisome by direct interaction with FtsZ, stimulating Z-ring assembly and thereby promoting cell division earlier in the cell cycle. Its recruitment to the Z-ring requires functional FtsA or ZipA.; GO: 0000917 barrier septum formation, 0043093 cytokinesis by binary fission, 0005737 cytoplasm; PDB: 2JEE_A.
Probab=35.00 E-value=1.2e+02 Score=21.55 Aligned_cols=27 Identities=22% Similarity=0.549 Sum_probs=23.1
Q ss_pred hhhhhchHHHHHHHHhhhhHHHHHHhh
Q psy7157 100 FRIRDLNDEINKLLREKSHWEAQIKEL 126 (167)
Q Consensus 100 ~~IRdLNDeINkLirEK~~WE~rI~eL 126 (167)
-....|..+.++|-.++..|..||..|
T Consensus 39 ~e~~~L~~en~~L~~e~~~~~~rl~~L 65 (72)
T PF06005_consen 39 EENEELKEENEQLKQERNAWQERLRSL 65 (72)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 456778889999999999999999755
No 10
>CHL00051 rps12 ribosomal protein S12
Probab=33.10 E-value=18 Score=28.58 Aligned_cols=11 Identities=45% Similarity=0.522 Sum_probs=9.8
Q ss_pred eecCCCCCccc
Q psy7157 156 GAAKDLPVGYL 166 (167)
Q Consensus 156 G~Ak~LPgVk~ 166 (167)
|+.+|||||+.
T Consensus 85 Grv~DlPGVry 95 (123)
T CHL00051 85 GRVKDLPGVRY 95 (123)
T ss_pred CccCCCCCeeE
Confidence 89999999973
No 11
>KOG2685|consensus
Probab=30.53 E-value=95 Score=29.21 Aligned_cols=44 Identities=30% Similarity=0.505 Sum_probs=34.0
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHhhCCCCchhhhhchHHHHHHHHhhhhHHHHHHhhCCCCC
Q psy7157 71 LPAAEKWRSQIIREISRKVAQIQNAGLGEFRIRDLNDEINKLLREKSHWEAQIKELDGPDY 131 (167)
Q Consensus 71 l~~ae~wR~~ii~EIs~ki~~Iqd~~L~E~~IRdLNDeINkLirEK~~WE~rI~eLGG~dy 131 (167)
+.+.-+|++.| +..+.+|=+|||.|..+|.+=|.-...+|+|-.
T Consensus 79 ~~di~~Wk~el-----------------~~ele~l~~E~~~L~~~k~rle~~L~~~~~P~~ 122 (421)
T KOG2685|consen 79 LDDVNFWKGEL-----------------DRELEDLAAEIDDLLHEKRRLERALNALALPLS 122 (421)
T ss_pred HHHHHHHHHHH-----------------HHHHHHHHHHHHHHHHHHHHHHHHHHHhcCcHH
Confidence 45566777766 444567778899999999999999999998854
No 12
>COG1158 Rho Transcription termination factor [Transcription]
Probab=30.11 E-value=22 Score=33.09 Aligned_cols=23 Identities=35% Similarity=0.735 Sum_probs=16.6
Q ss_pred CCCCcccC-------CCCceEEeecCCCCC
Q psy7157 141 HDGKEVPG-------NRGYKYFGAAKDLPV 163 (167)
Q Consensus 141 ~~G~~v~g-------~~GyrYFG~Ak~LPg 163 (167)
+.|+.+.| .+=.||||||+++-+
T Consensus 282 ~SGkvLsGGvD~nAL~~PKrFFGAARNIEe 311 (422)
T COG1158 282 SSGKVLSGGVDANALHRPKRFFGAARNIEE 311 (422)
T ss_pred CCCCeecCCcChhhhcCchhhhhhhhcccc
Confidence 45666654 266899999998753
No 13
>cd03368 Ribosomal_S12 S12-like family, 30S ribosomal protein S12 subfamily; S12 is located at the interface of the large and small ribosomal subunits of prokaryotes, chloroplasts and mitochondria, where it plays an important role in both tRNA and ribosomal subunit interactions. S12 is essential for maintenance of a pretranslocation state and, together with S13, functions as a control element for the rRNA- and tRNA-driven movements of translocation. Antibiotics such as streptomycin bind S12 and cause the ribosome to misread the genetic code.
Probab=29.51 E-value=22 Score=27.48 Aligned_cols=11 Identities=45% Similarity=0.522 Sum_probs=10.0
Q ss_pred eecCCCCCccc
Q psy7157 156 GAAKDLPVGYL 166 (167)
Q Consensus 156 G~Ak~LPgVk~ 166 (167)
|+.+|||||+.
T Consensus 83 Grv~DlPGVky 93 (108)
T cd03368 83 GRVKDLPGVRY 93 (108)
T ss_pred CccCCCCCeEE
Confidence 99999999973
No 14
>PLN00180 NDF6 (NDH-dependent flow 6); Provisional
Probab=29.39 E-value=57 Score=27.13 Aligned_cols=23 Identities=39% Similarity=0.713 Sum_probs=18.9
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHh
Q psy7157 71 LPAAEKWRSQIIREISRKVAQIQ 93 (167)
Q Consensus 71 l~~ae~wR~~ii~EIs~ki~~Iq 93 (167)
-.-+|-||-.+|.||.+||.-+.
T Consensus 150 sAReeL~REELiEEIEQkVGGLR 172 (180)
T PLN00180 150 SARAELWREELIEEIEQKVGGLR 172 (180)
T ss_pred HHHHHHHHHHHHHHHHHHhhhHH
Confidence 34578999999999999997544
No 15
>TIGR00981 rpsL_bact ribosomal protein S12, bacterial/organelle. This model recognizes ribosomal protein S12 of Bacteria, mitochondria, and chloroplasts. The homologous ribosomal proteins of Archaea and Eukarya, termed S23 in Eukarya and S12 or S23 in Archaea, score below the trusted cutoff.
Probab=29.28 E-value=23 Score=28.06 Aligned_cols=11 Identities=45% Similarity=0.522 Sum_probs=9.8
Q ss_pred eecCCCCCccc
Q psy7157 156 GAAKDLPVGYL 166 (167)
Q Consensus 156 G~Ak~LPgVk~ 166 (167)
|+.+|||||+.
T Consensus 85 Grv~DlPGVky 95 (124)
T TIGR00981 85 GRVKDLPGVRY 95 (124)
T ss_pred CccCCCCCeEE
Confidence 89999999974
No 16
>PRK05163 rpsL 30S ribosomal protein S12; Validated
Probab=29.27 E-value=23 Score=28.04 Aligned_cols=11 Identities=45% Similarity=0.522 Sum_probs=9.8
Q ss_pred eecCCCCCccc
Q psy7157 156 GAAKDLPVGYL 166 (167)
Q Consensus 156 G~Ak~LPgVk~ 166 (167)
|+.+|||||+.
T Consensus 85 Grv~DlPGVry 95 (124)
T PRK05163 85 GRVKDLPGVRY 95 (124)
T ss_pred CccCCCCCcEE
Confidence 89999999984
No 17
>KOG1029|consensus
Probab=28.05 E-value=2.6e+02 Score=29.02 Aligned_cols=50 Identities=28% Similarity=0.409 Sum_probs=39.6
Q ss_pred CCChHHHHHHHHHHHHHHHHHHHHHhhCCCCchhhhhchHHHHHHHHhhhhHHHHHHhhC
Q psy7157 68 CKSLPAAEKWRSQIIREISRKVAQIQNAGLGEFRIRDLNDEINKLLREKSHWEAQIKELD 127 (167)
Q Consensus 68 v~~l~~ae~wR~~ii~EIs~ki~~Iqd~~L~E~~IRdLNDeINkLirEK~~WE~rI~eLG 127 (167)
-+-+.+..+.|---|.||+.+.++|+ ++|..+-+|+-||..|+.+++..+
T Consensus 471 kt~ie~~~~q~e~~isei~qlqarik----------E~q~kl~~l~~Ekq~l~~qlkq~q 520 (1118)
T KOG1029|consen 471 KTEIEEVTKQRELMISEIDQLQARIK----------ELQEKLQKLAPEKQELNHQLKQKQ 520 (1118)
T ss_pred HHHHHHhhhHHHHHHHHHHHHHHHHH----------HHHHHHHhhhhHHHHHHHHHHHhh
Confidence 34455556666667888888888776 788899999999999999998664
No 18
>PF00164 Ribosom_S12_S23: Ribosomal protein S12/S23; InterPro: IPR006032 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 S12 is one of the proteins from the small ribosomal subunit. In Escherichia coli, S12 is known to be involved in the translation initiation step. It is a very basic protein of 120 to 150 amino-acid residues. S12 belongs to a family of ribosomal proteins which are grouped on the basis of sequence similarities. This protein is known typically as S12 in bacteria, S23 in eukaryotes and as either S12 or S23 in the Archaea []. Bacterial S12 molecules contain a conserved aspartic acid residue which undergoes a novel post-translational modification, beta-methylthiolation, to form the corresponding 3-methylthioaspartic acid.; GO: 0003735 structural constituent of ribosome, 0006412 translation, 0005622 intracellular, 0005840 ribosome; PDB: 2ZKQ_l 3BBN_L 3PYU_L 3D5A_L 3MS0_L 3MR8_L 3F1G_L 2OW8_m 3PYS_L 2QNH_m ....
Probab=27.44 E-value=30 Score=27.20 Aligned_cols=13 Identities=31% Similarity=0.146 Sum_probs=10.8
Q ss_pred EEeecCCCCCccc
Q psy7157 154 YFGAAKDLPVGYL 166 (167)
Q Consensus 154 YFG~Ak~LPgVk~ 166 (167)
..|+.+|||||+.
T Consensus 82 rGgrv~DlPGVky 94 (122)
T PF00164_consen 82 RGGRVGDLPGVKY 94 (122)
T ss_dssp EEESBTTSTTECE
T ss_pred eccccCCCCceEE
Confidence 5677999999974
No 19
>PRK15422 septal ring assembly protein ZapB; Provisional
Probab=22.15 E-value=83 Score=23.15 Aligned_cols=25 Identities=28% Similarity=0.611 Sum_probs=21.1
Q ss_pred hchHHHHHHHHhhhhHHHHHHhhCC
Q psy7157 104 DLNDEINKLLREKSHWEAQIKELDG 128 (167)
Q Consensus 104 dLNDeINkLirEK~~WE~rI~eLGG 128 (167)
+|+.+..+|=.|...|..||..|=|
T Consensus 50 ~L~~en~qLk~E~~~WqerLr~LLG 74 (79)
T PRK15422 50 ELERENNHLKEQQNGWQERLQALLG 74 (79)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4777888899999999999987744
No 20
>cd00607 RNase_Sa RNase_Sa. Ribonucleases first isolated from Streptomyces aureofaciens. In general, ribonucleases cleave phosphodiester bonds in RNA and are essential for both non-specific RNA degradation and for numerous forms of RNA processing. RNAse Sa is a guanylate specific endoribonuclease which belongs to the superfamily of microbial ribonucleases. Typical of this sub-family, the enzyme hydrolyses the phosphodiester bonds of RNA at the 3' oxygen end of guanosine residues to yield oligonucleotides with the guanosine-2',3'-cyclophosphate at the 3' end and the hydroxyl group at the 5' end. The terminal guanosine-2,3'-cyclophosphate is hydrolysed by guanyl RNAses to give guanosine-3'-phosphate.
Probab=21.12 E-value=1.9e+02 Score=21.90 Aligned_cols=41 Identities=24% Similarity=0.464 Sum_probs=25.9
Q ss_pred HHhhCCC-CCCCCCCccccCCCCcccCCCCceEEeecCCCCCc
Q psy7157 123 IKELDGP-DYARVGPRMLDHDGKEVPGNRGYKYFGAAKDLPVG 164 (167)
Q Consensus 123 I~eLGG~-dy~~~~~~~~d~~G~~v~g~~GyrYFG~Ak~LPgV 164 (167)
.+.-||| .|.+.+...-+.+|..+...+|| |+=.--.-|++
T Consensus 20 ~I~~Ggpfpy~~dG~~F~NrE~~LP~~~~gy-Y~EytV~tpg~ 61 (95)
T cd00607 20 LIAKGGPFPYSKDGVVFGNREGRLPKQSRGY-YHEYTVKTPGS 61 (95)
T ss_pred HHHcCCCCCCCCCCceEcCccccCCCCCCCc-eEEEEeCCCCC
Confidence 4567997 66655555556677766667787 66555555543
No 21
>PF09457 RBD-FIP: FIP domain ; InterPro: IPR019018 The Rab11 GTPase regulates recycling of internalized plasma membrane receptors and is essential for completion of cytokinesis. A family of Rab11 interacting proteins (FIPs) that conserve a C-terminal Rab-binding domain (RBD) selectively recognise the active form of Rab11. FIPs are diverse in sequence length and composition toward their N-termini, presumably a feature that underpins their specific roles in Rab11-mediated vesicle trafficking. They have been divided into three subfamilies (classe I, II, and III)on the basis of domain architecture. Class I FIPs comprises a subfamily of three proteins (Rip11/pp75/FIP5, Rab-coupling protein (RCP), and FIP2) that possess an N- terminal C2 domain, localize to recycling endosomes, and regulate plasma membrane recycling. The class II subfamily consists of two proteins (FIP3/eferin/arfophilin and FIP4) with tandem EF hands and a proline-rich region. Class II FIPs localize to recycling endosomes, the trans-Golgi network, and have been implicated in the regulation of membrane trafficking during cytokinesis. The class III subfamily consists of a single protein, FIP1, which does not contain obvious homology domains or motifs other than the FIP-RBD [, , , ]. The FIP-RBD domain is also found in Rab6-interacting protein Erc1/Elks. Erc1 is the regulatory subunit of the IKK complex and probably recruits IkappaBalpha/NFKBIA to the complex []. It may be involved in the organisation of the cytomatrix at the nerve terminals active zone (CAZ) which regulates neurotransmitter release. It may also be involved in vesicle trafficking at the CAZ, as well as in Rab-6 regulated endosomes to Golgi transport []. The FIB-RBD domain consists of an N-terminal long alpha-helix, followed by a 90 degrees bend at a conserved proline residue, a 3(10) helix and a C-terminal short beta-strand, adopting an "L" shape. The long alpha-helix forms a parallel coiled-coil homodimer that symmetrically interacts with two Rab11 molecules on both sides, forming a quaternary Rab11-(FIP)2-Rab11 complex. The Rab11-interacting region of FIP-RBD is confined to the C-terminal 24 amino acids, which cover the C-terminal half of the long alpha-helix and the short beta-strand [, , , ]. This entry represents the FIP-RBD domain.; PDB: 2HV8_E 2D7C_D 2K6S_B 2GZD_D 2GZH_B.
Probab=21.08 E-value=60 Score=21.52 Aligned_cols=16 Identities=44% Similarity=0.729 Sum_probs=14.2
Q ss_pred chhhhhchHHHHHHHH
Q psy7157 99 EFRIRDLNDEINKLLR 114 (167)
Q Consensus 99 E~~IRdLNDeINkLir 114 (167)
+.+|+||.|-|+.|+-
T Consensus 20 ~~~v~eLe~YiD~LL~ 35 (48)
T PF09457_consen 20 DSRVRELEDYIDNLLV 35 (48)
T ss_dssp HHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHH
Confidence 6789999999999975
No 22
>KOG1982|consensus
Probab=20.93 E-value=58 Score=29.88 Aligned_cols=29 Identities=10% Similarity=0.039 Sum_probs=26.0
Q ss_pred CChHHHHHHHHHHHHHHHHHHHHHhhCCC
Q psy7157 69 KSLPAAEKWRSQIIREISRKVAQIQNAGL 97 (167)
Q Consensus 69 ~~l~~ae~wR~~ii~EIs~ki~~Iqd~~L 97 (167)
=+...|-.|-..|+.=|.+.|..+-||.+
T Consensus 298 W~~~~~~~~l~~~l~~i~~~l~~~~d~~~ 326 (359)
T KOG1982|consen 298 WNPSVCLNFLFTILSWILKTLPADDDPCL 326 (359)
T ss_pred CCHHHHHHHHHHHHHHHHHhcccCCCceE
Confidence 57788999999999999999999999776
No 23
>PF14361 RsbRD_N: RsbT co-antagonist protein rsbRD N-terminal domain
Probab=20.72 E-value=3.4e+02 Score=19.63 Aligned_cols=70 Identities=14% Similarity=0.260 Sum_probs=51.9
Q ss_pred HHHHHHHHHHHHhhcccCCCCCCCCCCCCCCChHHHHHHHHHHHHHHHHHHHHHhhCCCCchhhhhchHHHHHHHHhhh
Q psy7157 39 KAMTTLARWRAAHEHTDQVKDRRPYLASECKSLPAAEKWRSQIIREISRKVAQIQNAGLGEFRIRDLNDEINKLLREKS 117 (167)
Q Consensus 39 KA~s~L~rw~~~k~~~~~~~~~RP~~~~~v~~l~~ae~wR~~ii~EIs~ki~~Iqd~~L~E~~IRdLNDeINkLirEK~ 117 (167)
+....|.+|.+...... |.....+ +-.+....-+.|..-|...++.+.|...+++ .++.+.+..+.+.+-
T Consensus 9 ~~~~Il~~W~~~~~~~~------~~~~~~~-~~~el~~~~~~v~~~l~~~l~~~~d~~~~~~--~~l~~~L~~lsr~RA 78 (105)
T PF14361_consen 9 HREAILDRWLEAVLASY------PSRTDRF-SEKELRQFANPVLDALAAALESGLDLAAPEW--EELREALEELSRIRA 78 (105)
T ss_pred hHHHHHHHHHHHHHHhc------ccccccc-cHHHHHHHHHHHHHHHHHHHHHhhhccccch--HHHHHHHHHHHHHHH
Confidence 34789999998886432 2222222 2366778888999999999999988888887 888888888887654
No 24
>PF10907 DUF2749: Protein of unknown function (DUF2749); InterPro: IPR024475 This bacterial family of proteins represent the TrbJ and TrbK genes of the Ti plasmid conjugative transfer operon [].
Probab=20.15 E-value=38 Score=24.13 Aligned_cols=13 Identities=46% Similarity=0.613 Sum_probs=11.7
Q ss_pred eEEeecCCCCCcc
Q psy7157 153 KYFGAAKDLPVGY 165 (167)
Q Consensus 153 rYFG~Ak~LPgVk 165 (167)
||||.-++||.++
T Consensus 45 ~ff~~~~~l~~i~ 57 (66)
T PF10907_consen 45 KFFGGDKDLRDIR 57 (66)
T ss_pred HHcCCCCCCCCCC
Confidence 7999999999876
Done!