Query 030420
Match_columns 177
No_of_seqs 130 out of 1133
Neff 4.1
Searched_HMMs 46136
Date Fri Mar 29 13:27:27 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/030420.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/030420hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PRK11628 transcriptional regul 100.0 1.8E-30 3.9E-35 198.3 9.0 80 96-176 2-88 (105)
2 PF01722 BolA: BolA-like prote 100.0 1.9E-28 4.1E-33 177.1 7.5 69 104-173 1-76 (76)
3 KOG3348 BolA (bacterial stress 99.9 4.6E-28 1E-32 179.4 7.8 80 95-176 2-82 (85)
4 COG0271 BolA Stress-induced mo 99.9 5.7E-28 1.2E-32 180.7 8.1 76 99-175 6-89 (90)
5 COG5007 Predicted transcriptio 99.9 2.9E-26 6.2E-31 168.2 7.5 76 98-177 3-79 (80)
6 KOG2313 Stress-induced protein 99.9 9.3E-25 2E-29 165.9 8.2 81 92-173 6-100 (100)
7 TIGR02174 CXXU_selWTH selT/sel 52.8 46 0.001 23.3 5.2 36 95-130 12-47 (72)
8 PF13739 DUF4163: Domain of un 48.9 29 0.00062 24.0 3.6 44 114-157 2-45 (101)
9 PF01661 Macro: Macro domain; 38.9 1.4E+02 0.0031 21.2 6.9 60 97-156 26-87 (118)
10 PF06183 DinI: DinI-like famil 34.2 56 0.0012 23.0 3.2 52 96-157 8-59 (65)
11 TIGR03435 Soli_TIGR03435 Solib 26.8 1.7E+02 0.0036 25.6 5.5 56 100-160 36-95 (237)
12 smart00542 FYRC "FY-rich" doma 26.8 98 0.0021 22.5 3.5 33 125-157 1-36 (86)
13 PF10330 Stb3: Putative Sin3 b 26.6 68 0.0015 24.6 2.7 22 131-152 33-54 (92)
14 PF01877 RNA_binding: RNA bind 26.4 2E+02 0.0042 22.1 5.3 41 95-138 12-55 (120)
15 PRK00447 hypothetical protein; 25.7 1.2E+02 0.0027 24.4 4.2 35 95-133 14-48 (144)
16 PF06858 NOG1: Nucleolar GTP-b 25.0 1.8E+02 0.0039 20.4 4.4 36 107-157 11-47 (58)
17 PF01545 Cation_efflux: Cation 22.9 2.4E+02 0.0051 23.5 5.6 68 96-167 205-278 (284)
18 PF07541 EIF_2_alpha: Eukaryot 22.1 1.1E+02 0.0024 23.4 3.2 41 94-142 39-79 (114)
No 1
>PRK11628 transcriptional regulator BolA; Provisional
Probab=99.97 E-value=1.8e-30 Score=198.31 Aligned_cols=80 Identities=29% Similarity=0.444 Sum_probs=76.4
Q ss_pred hHHHHHHHHHHhhCCCCeEEEEecC-------CCCceEEEEEEcCccCCCCHHHHHHHHHHHHHHHHcCccccccccccc
Q 030420 96 SRMASMENKIKEHLNAESVTVKDAY-------GDGRHVSIDVIASAFEGQSAVNRQRMVYKAIWEELQSTVHAVDSMTTK 168 (177)
Q Consensus 96 p~~~~I~~kL~~~L~~~~leV~D~S-------G~GsHF~I~VVS~~F~GmS~V~RHR~Vy~~Lkdei~~~IHAL~sIkT~ 168 (177)
...++|+++|+.+|+|.+|+|+|+| |+|+||+|+|||+.|+||++|+|||+||++|+|+|+++|||| +|+|+
T Consensus 2 m~~~~I~~~L~~~l~~~~l~V~d~S~~H~~~~g~~~Hf~v~IVS~~F~G~s~v~RHRlVy~~L~~~i~~~IHAL-si~t~ 80 (105)
T PRK11628 2 MIREQIEEKLRAAFQPVFLEVVDESYRHNVPAGSESHFKVVLVSDRFTGERFLNRHRMIYSTLAEELSTTVHAL-ALHTY 80 (105)
T ss_pred CcHHHHHHHHHhhCCCcEEEEEECcccccCCCCCCceEEEEEEChHhCCCCHHHHHHHHHHHHHHHHhCCccce-eeecC
Confidence 4678999999999999999999999 789999999999999999999999999999999999889999 79999
Q ss_pred Chhhhhhc
Q 030420 169 TPAEADVK 176 (177)
Q Consensus 169 TP~Ew~kk 176 (177)
||+||+++
T Consensus 81 tp~Ew~~~ 88 (105)
T PRK11628 81 TIKEWEGL 88 (105)
T ss_pred CHHHHHHh
Confidence 99999864
No 2
>PF01722 BolA: BolA-like protein; InterPro: IPR002634 This family consist of the morpho-protein BolA from Escherichia coli and its various homologs. In E. coli, over-expression of this protein causes round morphology and may be involved in switching the cell between elongation and septation systems during cell division []. The expression of BolA is growth rate regulated and is induced during the transition into the the stationary phase []. BolA is also induced by stress during early stages of growth [] and may have a general role in stress response. It has also been suggested that BolA can induce the transcription of penicillin binding proteins 6 and 5 [, ].; PDB: 1XS3_A 1V60_A 3O2E_A 1NY8_A 3TR3_A 2KZ0_A 2DHM_A 2KDN_A 1V9J_A.
Probab=99.95 E-value=1.9e-28 Score=177.11 Aligned_cols=69 Identities=39% Similarity=0.678 Sum_probs=63.9
Q ss_pred HHHhhCCCCeEEEEecC-------CCCceEEEEEEcCccCCCCHHHHHHHHHHHHHHHHcCcccccccccccChhhh
Q 030420 104 KIKEHLNAESVTVKDAY-------GDGRHVSIDVIASAFEGQSAVNRQRMVYKAIWEELQSTVHAVDSMTTKTPAEA 173 (177)
Q Consensus 104 kL~~~L~~~~leV~D~S-------G~GsHF~I~VVS~~F~GmS~V~RHR~Vy~~Lkdei~~~IHAL~sIkT~TP~Ew 173 (177)
||++.|+|.+|+|.|+| |+|+||+|.|||+.|+||++|+||||||++|+|+|+++|||| +|+|+||+||
T Consensus 1 Kl~~~l~~~~l~V~d~S~~H~~h~~g~sHf~i~IvS~~F~g~s~i~rhr~V~~~L~~~i~~~iHAl-si~t~tp~Ew 76 (76)
T PF01722_consen 1 KLKAALPPTHLEVEDESHKHAGHAGGGSHFKIIIVSDEFEGKSRIKRHRLVYKALKDEIKDGIHAL-SIKTYTPEEW 76 (76)
T ss_dssp HHHHHHTTSEEEEEE-SSSSSS-CCSSSEEEEEEECGGGTTS-HHHHHHHHHHHTHHHHGCTCSEE-EEEEE-HHHH
T ss_pred ChhHhCCCcEEEEEECcccccCCCCCCceEEEEEEcHHhCCCCHHHHHHHHHHHHHHHhcCCceEE-EEEcCCcccC
Confidence 68999999999999999 569999999999999999999999999999999999899999 8999999999
No 3
>KOG3348 consensus BolA (bacterial stress-induced morphogen)-related protein [Signal transduction mechanisms]
Probab=99.95 E-value=4.6e-28 Score=179.41 Aligned_cols=80 Identities=31% Similarity=0.503 Sum_probs=76.2
Q ss_pred chHHHHHHHHHHhhCCCCeEEEEecC-CCCceEEEEEEcCccCCCCHHHHHHHHHHHHHHHHcCcccccccccccChhhh
Q 030420 95 PSRMASMENKIKEHLNAESVTVKDAY-GDGRHVSIDVIASAFEGQSAVNRQRMVYKAIWEELQSTVHAVDSMTTKTPAEA 173 (177)
Q Consensus 95 ~p~~~~I~~kL~~~L~~~~leV~D~S-G~GsHF~I~VVS~~F~GmS~V~RHR~Vy~~Lkdei~~~IHAL~sIkT~TP~Ew 173 (177)
++.++.|+++|++.|.|.+|+|.|+| |||++|+|.|||+.|+|+++|+|||+||++|+|+|+. |||| +++|+||++|
T Consensus 2 ~~~e~~l~~~L~~~l~p~~v~V~D~SgGCG~~F~v~IvS~~FeGKs~L~rHRlVN~~L~Eeik~-iHal-t~kt~t~~~w 79 (85)
T KOG3348|consen 2 TVTEERLEELLTEALEPEHVEVQDVSGGCGSMFDVVIVSAAFEGKSLLARHRLVNSILAEEIKE-IHAL-TIKTYTPEEW 79 (85)
T ss_pred cchHHHHHHHHHhhcCceEEEEEEcCCCccceEEEEEEccccCChHHHHHHHHHHHHHHHHHHH-Hhhh-eeeecChhhh
Confidence 46789999999999999999999999 5999999999999999999999999999999999997 9999 7999999999
Q ss_pred hhc
Q 030420 174 DVK 176 (177)
Q Consensus 174 ~kk 176 (177)
.+.
T Consensus 80 ~~~ 82 (85)
T KOG3348|consen 80 SKA 82 (85)
T ss_pred ccc
Confidence 863
No 4
>COG0271 BolA Stress-induced morphogen (activity unknown) [Signal transduction mechanisms]
Probab=99.95 E-value=5.7e-28 Score=180.69 Aligned_cols=76 Identities=32% Similarity=0.571 Sum_probs=73.3
Q ss_pred HHHHHHHHhhCCCCeEEEEecC--------CCCceEEEEEEcCccCCCCHHHHHHHHHHHHHHHHcCcccccccccccCh
Q 030420 99 ASMENKIKEHLNAESVTVKDAY--------GDGRHVSIDVIASAFEGQSAVNRQRMVYKAIWEELQSTVHAVDSMTTKTP 170 (177)
Q Consensus 99 ~~I~~kL~~~L~~~~leV~D~S--------G~GsHF~I~VVS~~F~GmS~V~RHR~Vy~~Lkdei~~~IHAL~sIkT~TP 170 (177)
++|+++|+++|+|..++|.|+| |||+||+|+|||+.|+|+|+|+|||+||++|+|+|..+|||| +|+|+||
T Consensus 6 ~~Ie~~l~~~f~p~~l~i~deS~~h~~~~~g~~~Hf~i~IVS~~F~G~s~v~rHr~V~~~L~del~~~iHAL-al~t~t~ 84 (90)
T COG0271 6 ERIEKKLRAAFPPSFLEIIDESHRHHGHAGGGGSHFKVVIVSEAFQGKSLVARHRLVYSALKDELSGGIHAL-ALHTYTP 84 (90)
T ss_pred HHHHHHHHhcCCCceEEEEecccccccCCCCCCCeEEEEEEchhhCCccHHHHHHHHHHHHHHHHhccceee-EeEeecc
Confidence 5899999999999999999999 699999999999999999999999999999999999999999 7999999
Q ss_pred hhhhh
Q 030420 171 AEADV 175 (177)
Q Consensus 171 ~Ew~k 175 (177)
+||+.
T Consensus 85 ~e~~~ 89 (90)
T COG0271 85 EEWKG 89 (90)
T ss_pred chhcc
Confidence 99974
No 5
>COG5007 Predicted transcriptional regulator, BolA superfamily [Transcription]
Probab=99.93 E-value=2.9e-26 Score=168.18 Aligned_cols=76 Identities=32% Similarity=0.543 Sum_probs=72.3
Q ss_pred HHHHHHHHHhhCCCCeEEEEecCCCCceEEEEEEcCccCCCCHHHHHHHHHHHHHHHHcC-cccccccccccChhhhhhc
Q 030420 98 MASMENKIKEHLNAESVTVKDAYGDGRHVSIDVIASAFEGQSAVNRQRMVYKAIWEELQS-TVHAVDSMTTKTPAEADVK 176 (177)
Q Consensus 98 ~~~I~~kL~~~L~~~~leV~D~SG~GsHF~I~VVS~~F~GmS~V~RHR~Vy~~Lkdei~~-~IHAL~sIkT~TP~Ew~kk 176 (177)
.++|+..|++.||.++++|+ |+|+||.+++||+.|+||++|+|||+||+.|.++|.+ +|||| ||+|+||+||+++
T Consensus 3 ~e~Ik~ll~~~L~~e~v~V~---Gdg~Hf~vi~Vs~~F~g~srvkrqq~vYApL~~~i~~~~IHAl-sikt~Tp~eW~~~ 78 (80)
T COG5007 3 NEEIKSLLENALPLEEVEVE---GDGSHFQVIAVSEEFAGKSRVKRQQLVYAPLMAYIADNEIHAL-SIKTYTPAEWARD 78 (80)
T ss_pred HHHHHHHHHhcCCccEEEEe---cCCceEEEEEehHhhcCccHHHHHHHHHHHHHHHhhcCceEEE-EeeecCHHHhhhc
Confidence 47899999999999999998 9999999999999999999999999999999999995 89999 8999999999975
Q ss_pred C
Q 030420 177 K 177 (177)
Q Consensus 177 k 177 (177)
+
T Consensus 79 ~ 79 (80)
T COG5007 79 R 79 (80)
T ss_pred c
Confidence 3
No 6
>KOG2313 consensus Stress-induced protein UVI31+ [Signal transduction mechanisms]
Probab=99.91 E-value=9.3e-25 Score=165.87 Aligned_cols=81 Identities=40% Similarity=0.595 Sum_probs=76.8
Q ss_pred CCCchHHHHHHHHHHhhCCCCeEEEEecC----------C---CCceEEEEEEcCccCCCCHHHHHHHHHHHHHHHHcC-
Q 030420 92 SIDPSRMASMENKIKEHLNAESVTVKDAY----------G---DGRHVSIDVIASAFEGQSAVNRQRMVYKAIWEELQS- 157 (177)
Q Consensus 92 ~~~~p~~~~I~~kL~~~L~~~~leV~D~S----------G---~GsHF~I~VVS~~F~GmS~V~RHR~Vy~~Lkdei~~- 157 (177)
.+-+|++..|+++|...|.|..+++.|+| | +|+||+|.|||+.|+||++|+||||||++|+||+.+
T Consensus 6 ~~~g~~~~ri~~~l~~~lkp~~le~~n~S~~hagH~~~kg~~~~EtHFrv~vVS~~FeG~s~v~RHRlVy~~L~eEl~~~ 85 (100)
T KOG2313|consen 6 GIYGPRESRIREKLFEALKPLNLELYNESHQHAGHAVPKGMDGAETHFRVEVVSSAFEGLSLVKRHRLVYKALKEELAGT 85 (100)
T ss_pred cccCcHHHHHHHHhHhhcCcceEEEeeccccccccccccCCCCCccEEEEEEechhhCCccHHHHHHHHHHHHHHHhhcc
Confidence 44589999999999999999999999998 3 679999999999999999999999999999999999
Q ss_pred cccccccccccChhhh
Q 030420 158 TVHAVDSMTTKTPAEA 173 (177)
Q Consensus 158 ~IHAL~sIkT~TP~Ew 173 (177)
++||| +|.++||+||
T Consensus 86 gvHAL-~i~aKTP~e~ 100 (100)
T KOG2313|consen 86 GVHAL-SIMAKTPSEV 100 (100)
T ss_pred ceeEE-EeeccCCCCC
Confidence 79999 8999999998
No 7
>TIGR02174 CXXU_selWTH selT/selW/selH selenoprotein domain. This model represents a domain found in both bacteria and animals, including animal proteins SelT, SelW, and SelH, all of which are selenoproteins. In a CXXC motif near the N-terminus of the domain, selenocysteine may replace the second Cys. Proteins with this domain may include an insert of about 70 amino acids. This model is broader than the current SelW model pfam05169 in Pfam.
Probab=52.76 E-value=46 Score=23.32 Aligned_cols=36 Identities=11% Similarity=0.137 Sum_probs=30.3
Q ss_pred chHHHHHHHHHHhhCCCCeEEEEecCCCCceEEEEE
Q 030420 95 PSRMASMENKIKEHLNAESVTVKDAYGDGRHVSIDV 130 (177)
Q Consensus 95 ~p~~~~I~~kL~~~L~~~~leV~D~SG~GsHF~I~V 130 (177)
++....+.+.|.+.||...+++...-+.+.-|.|.+
T Consensus 12 ~~Ra~~l~q~L~~~Fp~~~v~~~~~~~~~G~Fev~~ 47 (72)
T TIGR02174 12 KPRAAWLKQELLEEFPDLEIEGENTPPTTGAFEVTV 47 (72)
T ss_pred hHHHHHHHHHHHHHCCCCeeEEeeecCCCcEEEEEE
Confidence 578889999999999988888876667777899976
No 8
>PF13739 DUF4163: Domain of unknown function (DUF4163); PDB: 3CYG_B.
Probab=48.87 E-value=29 Score=23.96 Aligned_cols=44 Identities=20% Similarity=0.257 Sum_probs=31.7
Q ss_pred EEEEecCCCCceEEEEEEcCccCCCCHHHHHHHHHHHHHHHHcC
Q 030420 114 VTVKDAYGDGRHVSIDVIASAFEGQSAVNRQRMVYKAIWEELQS 157 (177)
Q Consensus 114 leV~D~SG~GsHF~I~VVS~~F~GmS~V~RHR~Vy~~Lkdei~~ 157 (177)
+++.+.+....++.+.|.-|.|.|+.--+-.+.||+.+++.+..
T Consensus 2 ~~~~~~~~~~~~~~~~i~yP~~~~~~~~~~~~~IN~~i~~~i~~ 45 (101)
T PF13739_consen 2 VTFKEIKKENDCYEIDIKYPVIEGLKNKELQKKINDFIENQIDN 45 (101)
T ss_dssp EEEEEEEEE-SSEEEEEEEEEE-S-S-HHHHHHHHHHHHHHHHH
T ss_pred eEEEEEEecCCeEEEEEEEEEEcCCCCHHHHHHHHHHHHHHHHH
Confidence 34444444467899999999999988778888999999988876
No 9
>PF01661 Macro: Macro domain; InterPro: IPR002589 The Macro or A1pp domain is a module of about 180 amino acids which can bind ADP-ribose, an NAD metabolite or related ligands. Binding to ADP-ribose could be either covalent or non-covalent []: in certain cases it is believed to bind non-covalently []; while in other cases (such as Aprataxin) it appears to bind both non-covalently through a zinc finger motif, and covalently through a separate region of the protein []. The domain was described originally in association with ADP-ribose 1''-phosphate (Appr-1''-P) processing activity (A1pp) of the yeast YBR022W protein []. The domain is also called Macro domain as it is the C-terminal domain of mammalian core histone macro-H2A [, ]. Macro domain proteins can be found in eukaryotes, in (mostly pathogenic) bacteria, in archaea and in ssRNA viruses, such as coronaviruses, Rubella and Hepatitis E viruses. In vertebrates the domain occurs e.g. in histone macroH2A, in predicted poly-ADP-ribose polymerases (PARPs) and in B aggressive lymphoma (BAL) protein. The macro domain can be associated with catalytic domains, such as PARP, or sirtuin. The Macro domain can recognise ADP-ribose or in some cases poly-ADP-ribose, which can be involved in ADP-ribosylation reactions that occur in important processes, such as chromatin biology, DNA repair and transcription regulation []. The human macroH2A1.1 Macro domain binds an NAD metabolite O-acetyl-ADP-ribose []. The Macro domain has been suggested to play a regulatory role in ADP-ribosylation, which is involved in inter- and intracellular signaling, transcriptional regulation, DNA repair pathways and maintenance of genomic stability, telomere dynamics, cell differentiation and proliferation, and necrosis and apoptosis. The 3D structure of the Macro domain has a mixed alpha/beta fold of a mixed beta sheet sandwiched between four helices. Several Macro domain only domains are shorter than the structure of AF1521 and lack either the first strand or the C-terminal helix 5. Well conserved residues form a hydrophobic cleft and cluster around the AF1521-ADP-ribose binding site [, , , ]. ; PDB: 2DX6_A 2XD7_D 3Q71_A 2FAV_B 1SPV_A 3EKE_A 3EJF_A 1YD9_B 3GPG_B 3GPQ_A ....
Probab=38.94 E-value=1.4e+02 Score=21.17 Aligned_cols=60 Identities=15% Similarity=0.082 Sum_probs=43.2
Q ss_pred HHHHHHHHHH--hhCCCCeEEEEecCCCCceEEEEEEcCccCCCCHHHHHHHHHHHHHHHHc
Q 030420 97 RMASMENKIK--EHLNAESVTVKDAYGDGRHVSIDVIASAFEGQSAVNRQRMVYKAIWEELQ 156 (177)
Q Consensus 97 ~~~~I~~kL~--~~L~~~~leV~D~SG~GsHF~I~VVS~~F~GmS~V~RHR~Vy~~Lkdei~ 156 (177)
++++.++..+ ..+++.++.|.+..+.+..|-|.+|.|.|.+...-.....+++++++-++
T Consensus 26 ~~~~~~~~~~~~~~~~~G~~~~t~~~~l~~~~Iih~v~P~~~~~~~~~~~~~L~~~~~~~l~ 87 (118)
T PF01661_consen 26 LQEECKEIKKKGGELPVGEVIVTPGGNLPCKYIIHAVGPTYNSPGEKNSYEALESAYRNALQ 87 (118)
T ss_dssp HHHHHHHHHHHHHSSSTTSEEEEEETTSSSSEEEEEEEEETTTSTSTTHHHHHHHHHHHHHH
T ss_pred HHHHHHHhhcccCcccCCCeeeecCCCccccceEEEecceeccccccccHHHHHHHHHHHHH
Confidence 4455544443 44778888887654556789999999999877777777888887777665
No 10
>PF06183 DinI: DinI-like family; InterPro: IPR010391 This family of short proteins includes DNA-damage-inducible protein I (DinI) and related proteins. The SOS response, a set of cellular phenomena exhibited by eubacteria, is initiated by various causes that include DNA damage-induced replication arrest, and is positively regulated by the co- protease activity of RecA. Escherichia coli DinI, a LexA-regulated SOS gene product, shuts off the initiation of the SOS response when overexpressed in vivo. Biochemical and genetic studies indicated that DinI physically interacts with RecA to inhibit its co-protease activity []. The structure of DinI is known [].; PDB: 1GHH_A.
Probab=34.17 E-value=56 Score=23.03 Aligned_cols=52 Identities=10% Similarity=0.189 Sum_probs=32.7
Q ss_pred hHHHHHHHHHHhhCCCCeEEEEecCCCCceEEEEEEcCccCCCCHHHHHHHHHHHHHHHHcC
Q 030420 96 SRMASMENKIKEHLNAESVTVKDAYGDGRHVSIDVIASAFEGQSAVNRQRMVYKAIWEELQS 157 (177)
Q Consensus 96 p~~~~I~~kL~~~L~~~~leV~D~SG~GsHF~I~VVS~~F~GmS~V~RHR~Vy~~Lkdei~~ 157 (177)
.++++|.++|...||+..|.|...|. ..+.| . |-..=+ +..|+.+|.+-+.+
T Consensus 8 AL~~EL~kRl~~~yPd~~v~Vr~~s~--~~l~v--~-----g~~~~~-k~~i~~iLqe~we~ 59 (65)
T PF06183_consen 8 ALESELTKRLHRQYPDAEVRVRPGSA--NGLSV--S-----GGKKDD-KERIEEILQEMWED 59 (65)
T ss_dssp HHHHHHHHHHHHH-SS-EEEEEEESS---EEEE--E-----S--HHH-HHHHHHHHHHHHHT
T ss_pred HHHHHHHHHHHHHCCCceEeeeeccc--Ccccc--C-----CcCchH-HHHHHHHHHHHHhc
Confidence 47789999999999999999975443 33333 2 111112 77788888876654
No 11
>TIGR03435 Soli_TIGR03435 Solibacter paralogous family TIGR03435. This model describes a paralogous family of about 40 proteins found in Solibacter usitatus Ellin6076, one of the first three members of the Acidobacteria to be sequenced, and nowhere else. The family is well-diversified, with few pairs showing greater than 50 % pairwise identity. Two members of the family are longer, multidomain proteins with (two different) fused peptidase domains.
Probab=26.78 E-value=1.7e+02 Score=25.65 Aligned_cols=56 Identities=20% Similarity=0.302 Sum_probs=46.1
Q ss_pred HHHHHHHhhCCCCeEEEEecCC----CCceEEEEEEcCccCCCCHHHHHHHHHHHHHHHHcCccc
Q 030420 100 SMENKIKEHLNAESVTVKDAYG----DGRHVSIDVIASAFEGQSAVNRQRMVYKAIWEELQSTVH 160 (177)
Q Consensus 100 ~I~~kL~~~L~~~~leV~D~SG----~GsHF~I~VVS~~F~GmS~V~RHR~Vy~~Lkdei~~~IH 160 (177)
.+++.|..++....-+|. | +..+|.|...-| .|.++=+.-.|.-+.|+|-|+-.+|
T Consensus 36 tL~~lI~~AY~v~~~qv~---GP~Wl~serfDi~Ak~p--~g~~~~q~~~MLQ~LLaeRF~L~~H 95 (237)
T TIGR03435 36 TLRDLIQAAYGVKPYQVS---GPDWLDSERFDIVAKAP--AGATREQVRLMLQTLLAERFKLAVH 95 (237)
T ss_pred CHHHHHHHHhCCCHHhee---CCCcCCccceeEEEeCC--CCCCHHHHHHHHHHHHHHhhCeEEe
Confidence 578889888887766775 6 457999999988 7888888888999999999986565
No 12
>smart00542 FYRC "FY-rich" domain, C-terminal region. is sometimes closely juxtaposed with the N-terminal region (FYRN), but sometimes is far distant. Unknown function, but occurs frequently in chromatin-associated proteins.
Probab=26.78 E-value=98 Score=22.50 Aligned_cols=33 Identities=18% Similarity=0.269 Sum_probs=28.2
Q ss_pred eEEEEEEcC---ccCCCCHHHHHHHHHHHHHHHHcC
Q 030420 125 HVSIDVIAS---AFEGQSAVNRQRMVYKAIWEELQS 157 (177)
Q Consensus 125 HF~I~VVS~---~F~GmS~V~RHR~Vy~~Lkdei~~ 157 (177)
+|+|++.++ .|.|-|.=+-|++|++.+.+....
T Consensus 1 lF~v~~~~~~~~~~~~~S~~~~W~~vl~~v~~~r~~ 36 (86)
T smart00542 1 LFRVEIESDPDEVFKGESPEKCWEMVLERVQEARIV 36 (86)
T ss_pred CeEEEEecCCCCeEEeCCHHHHHHHHHHHHHHHHHH
Confidence 577888774 589999999999999999998864
No 13
>PF10330 Stb3: Putative Sin3 binding protein; InterPro: IPR018818 This entry represents Sin3 binding proteins conserved in fungi. Sin3p does not bind DNA directly even though the yeast SIN3 gene functions as a transcriptional repressor. Sin3p is part of a large multiprotein complex []. Stb3 appears to bind directly to ribosomal RNA Processing Elements (RRPE) although there are no obvious domains which would accord with this, implying that Stb3 may be a novel RNA-binding protein [].
Probab=26.65 E-value=68 Score=24.64 Aligned_cols=22 Identities=18% Similarity=0.321 Sum_probs=20.1
Q ss_pred EcCccCCCCHHHHHHHHHHHHH
Q 030420 131 IASAFEGQSAVNRQRMVYKAIW 152 (177)
Q Consensus 131 VS~~F~GmS~V~RHR~Vy~~Lk 152 (177)
.-|.|++++.=|+-|+|..+|.
T Consensus 33 ~vPgF~~ls~sKqRRLi~~ALE 54 (92)
T PF10330_consen 33 SVPGFSDLSPSKQRRLIMAALE 54 (92)
T ss_pred cCCCcccCCHHHHHHHHHHHHh
Confidence 3478999999999999999997
No 14
>PF01877 RNA_binding: RNA binding; InterPro: IPR002739 The proteins in this entry are functionally uncharacterised.; PDB: 2WNY_B 2NWU_A 2NRQ_A 2OGK_A 3D7A_B 3C9G_B 2PZZ_D.
Probab=26.35 E-value=2e+02 Score=22.14 Aligned_cols=41 Identities=12% Similarity=0.362 Sum_probs=27.3
Q ss_pred chHHHHHHHHHHhhC-CCCeEEEEecCCCCceEE--EEEEcCccCCC
Q 030420 95 PSRMASMENKIKEHL-NAESVTVKDAYGDGRHVS--IDVIASAFEGQ 138 (177)
Q Consensus 95 ~p~~~~I~~kL~~~L-~~~~leV~D~SG~GsHF~--I~VVS~~F~Gm 138 (177)
+.=.+++.+.|..-| ++..+++++..| ||. |.+.+-...|.
T Consensus 12 TED~eKV~~Al~nlf~~~~~~~~~~~~G---~ygn~I~~l~~~i~~~ 55 (120)
T PF01877_consen 12 TEDEEKVKKALSNLFPPDAEIEIEEEEG---HYGNPITILEVRIEGK 55 (120)
T ss_dssp TB-HHHHHHHHHHHSCTTSEEEEEEEEC---CEEEEEEEEEEEEEEC
T ss_pred CcCHHHHHHHHHHHhCCCCceEEEEecc---ccCCceEEEEEEEecc
Confidence 445689999999999 677888876555 554 55555445444
No 15
>PRK00447 hypothetical protein; Provisional
Probab=25.69 E-value=1.2e+02 Score=24.44 Aligned_cols=35 Identities=14% Similarity=0.128 Sum_probs=25.1
Q ss_pred chHHHHHHHHHHhhCCCCeEEEEecCCCCceEEEEEEcC
Q 030420 95 PSRMASMENKIKEHLNAESVTVKDAYGDGRHVSIDVIAS 133 (177)
Q Consensus 95 ~p~~~~I~~kL~~~L~~~~leV~D~SG~GsHF~I~VVS~ 133 (177)
+.-.+++.+.|..-||+..+++.+ +.||.|.+..-
T Consensus 14 TED~eKV~~Ai~Nifp~~~ie~~~----~G~~~I~v~~~ 48 (144)
T PRK00447 14 TEDEEKVKKAILNFFDFEKFEAED----EGEYKILVGEA 48 (144)
T ss_pred CCCHHHHHHHHHhhCCcceEEEEe----cCeeEEEEEEE
Confidence 345678899999999999988764 23777665443
No 16
>PF06858 NOG1: Nucleolar GTP-binding protein 1 (NOG1); InterPro: IPR010674 This domain represents a conserved region of approximately 60 residues in length within nucleolar GTP-binding protein 1 (NOG1). The NOG1 family includes eukaryotic, bacterial and archaeal proteins. In Saccharomyces cerevisiae, the NOG1 gene has been shown to be essential for cell viability, suggesting that NOG1 may play an important role in nucleolar functions. In particular, NOG1 is believed to be functionally linked to ribosome biogenesis, which occurs in the nucleolus. In eukaryotes, NOG1 mutants were found to disrupt the biogenesis of the 60S ribosomal subunit []. The DRG and OBG proteins as well as the prokaryotic NOG-like proteins are homologous throughout their length to the amino half of eukaryotic NOG1, which contains the GTP binding motifs (IPR006073 from INTERPRO); the N-terminal GTP-binding motif is required for function.; GO: 0005525 GTP binding; PDB: 2E87_A.
Probab=25.03 E-value=1.8e+02 Score=20.39 Aligned_cols=36 Identities=19% Similarity=0.249 Sum_probs=27.2
Q ss_pred hhCCCCeEEEEecCC-CCceEEEEEEcCccCCCCHHHHHHHHHHHHHHHHcC
Q 030420 107 EHLNAESVTVKDAYG-DGRHVSIDVIASAFEGQSAVNRQRMVYKAIWEELQS 157 (177)
Q Consensus 107 ~~L~~~~leV~D~SG-~GsHF~I~VVS~~F~GmS~V~RHR~Vy~~Lkdei~~ 157 (177)
..++..-+-|.|.|| ||. .++.|-.+++-+++.|.+
T Consensus 11 ~hL~~~ilfi~D~Se~CGy---------------sie~Q~~L~~~ik~~F~~ 47 (58)
T PF06858_consen 11 AHLADAILFIIDPSEQCGY---------------SIEEQLSLFKEIKPLFPN 47 (58)
T ss_dssp GGT-SEEEEEE-TT-TTSS----------------HHHHHHHHHHHHHHTTT
T ss_pred HhhcceEEEEEcCCCCCCC---------------CHHHHHHHHHHHHHHcCC
Confidence 467888999999997 784 688999999999999954
No 17
>PF01545 Cation_efflux: Cation efflux family; InterPro: IPR002524 Members of this family are integral membrane proteins, that are found to increase tolerance to divalent metal ions such as cadmium, zinc, and cobalt. These proteins are considered to be efflux pumps that remove these ions from cells [, ], however others are implicated in ion uptake []. The family has six predicted transmembrane domains. Members of the family are variable in length because of variably sized inserts, often containing low-complexity sequence.; GO: 0008324 cation transmembrane transporter activity, 0006812 cation transport, 0055085 transmembrane transport, 0016021 integral to membrane; PDB: 3BYP_B 3BYR_A 3H90_B 2QFI_B 2ZZT_A.
Probab=22.92 E-value=2.4e+02 Score=23.45 Aligned_cols=68 Identities=13% Similarity=0.217 Sum_probs=35.5
Q ss_pred hHHHHHHHHHHhhCCCCeEEEEecC--CCCc-eEEEEEEcCccCCCCHHHHHHHHHHHHHHHHcC---cccccccccc
Q 030420 96 SRMASMENKIKEHLNAESVTVKDAY--GDGR-HVSIDVIASAFEGQSAVNRQRMVYKAIWEELQS---TVHAVDSMTT 167 (177)
Q Consensus 96 p~~~~I~~kL~~~L~~~~leV~D~S--G~Gs-HF~I~VVS~~F~GmS~V~RHR~Vy~~Lkdei~~---~IHAL~sIkT 167 (177)
...++|++.+++ .+...+|.|.. .-|. ++.+.+.-. +++...+++...+.+.+++++.+ +++.+ .|+.
T Consensus 205 ~~~~~i~~~i~~--~~~v~~v~~~~~~~~g~~~~~v~i~v~-v~~~~~v~~~~~i~~~i~~~l~~~~~~i~~v-~I~~ 278 (284)
T PF01545_consen 205 ELVEKIRRIIES--VPGVIEVHDLRVWQVGRNKYVVEIHVQ-VDPDMSVEEAHEIRERIEKRLREKFPGIYDV-TIHI 278 (284)
T ss_dssp HHHHHHHHHHHH--TSS-SEEEEEEEEEETT-EEEEEEEEE-ETTTSBHHHHHHHHHHHHHHHHHHSTTCEEE-EEEE
T ss_pred cchhHHHHhhcc--CCceEeccceEEEEecCCcEEEEEEEE-eCCCCCHHHHHHHHHHHHHHHHHhCCCcEEE-EEEE
Confidence 456788888866 33334555543 2232 444433333 55555666555555555555554 47765 3543
No 18
>PF07541 EIF_2_alpha: Eukaryotic translation initiation factor 2 alpha subunit; InterPro: IPR011488 In Eukaryota and Archaea, translation initiation factor 2 (eIF2/aIF2), which contains three subunits (alpha, beta and gamma), is pivotal for binding of charged initiator tRNA to the small ribosomal subunit. This entry represents the alpha subunit of both eukaryota and archaeal translation initiator factor 2.; GO: 0003723 RNA binding, 0003743 translation initiation factor activity, 0005850 eukaryotic translation initiation factor 2 complex; PDB: 2QN6_B 3CW2_C 2AHO_B 3QSY_B 3V11_B 2QMU_B 1YZ7_A 1YZ6_A 3AEV_A 1KL9_A ....
Probab=22.14 E-value=1.1e+02 Score=23.37 Aligned_cols=41 Identities=20% Similarity=0.334 Sum_probs=32.2
Q ss_pred CchHHHHHHHHHHhhCCCCeEEEEecCCCCceEEEEEEcCccCCCCHHH
Q 030420 94 DPSRMASMENKIKEHLNAESVTVKDAYGDGRHVSIDVIASAFEGQSAVN 142 (177)
Q Consensus 94 ~~p~~~~I~~kL~~~L~~~~leV~D~SG~GsHF~I~VVS~~F~GmS~V~ 142 (177)
+....+.|.+.+++.+.+..++|. -.|.+.+...+|...|+
T Consensus 39 ~~~~~~~L~~~i~~~i~~~~vkI~--------~~iel~c~~~dGIe~IK 79 (114)
T PF07541_consen 39 PEEVKEALLEIIKERIKPQPVKIR--------ADIELTCFAPDGIEAIK 79 (114)
T ss_dssp SCCHHHHHHHHHHHHCCHT-EEEE--------EEEEEEE-STTHHHHHH
T ss_pred CHHHHHHHHHHHHHhCcCCcEEEE--------EEEEEEeCCCCHHHHHH
Confidence 356889999999999999999994 57888899999976654
Done!