Query 024253
Match_columns 270
No_of_seqs 235 out of 1329
Neff 4.4
Searched_HMMs 46136
Date Fri Mar 29 03:12:55 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/024253.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/024253hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG2241 tRNA-binding protein [ 100.0 7.7E-54 1.7E-58 390.1 15.6 165 100-270 91-255 (255)
2 PLN02610 probable methionyl-tR 100.0 4.4E-42 9.5E-47 353.8 18.7 169 95-270 633-801 (801)
3 cd02798 tRNA_bind_CsaA tRNA-bi 100.0 1.7E-30 3.7E-35 209.4 8.6 106 97-204 1-107 (107)
4 TIGR02222 chap_CsaA export-rel 100.0 6.6E-30 1.4E-34 206.5 9.6 105 99-205 1-107 (107)
5 PRK10089 tRNA-binding protein; 100.0 6.3E-30 1.4E-34 207.8 9.3 107 97-205 4-112 (112)
6 cd02799 tRNA_bind_EMAP-II_like 100.0 3.9E-28 8.5E-33 193.9 11.8 104 101-205 2-105 (105)
7 PF01588 tRNA_bind: Putative t 100.0 2.3E-28 5E-33 192.3 9.3 95 108-203 1-95 (95)
8 cd02800 tRNA_bind_EcMetRS_like 99.9 1.6E-27 3.4E-32 190.2 10.6 103 98-204 2-104 (105)
9 COG0073 ARC1 EMAP domain [Gene 99.9 2.6E-27 5.7E-32 195.3 11.4 111 93-204 7-123 (123)
10 TIGR00399 metG_C_term methiony 99.9 1.1E-26 2.4E-31 195.2 12.3 116 86-204 21-136 (137)
11 cd02153 tRNA_bindingDomain The 99.9 2.2E-26 4.8E-31 180.9 11.4 97 108-204 1-99 (99)
12 PRK12267 methionyl-tRNA synthe 99.9 1.3E-23 2.9E-28 211.6 11.6 110 92-204 538-647 (648)
13 PRK00133 metG methionyl-tRNA s 99.9 2.5E-23 5.4E-28 210.9 9.8 107 94-204 565-672 (673)
14 cd02796 tRNA_bind_bactPheRS tR 99.9 7.5E-22 1.6E-26 156.4 9.0 92 108-204 1-103 (103)
15 TIGR00472 pheT_bact phenylalan 99.7 1.7E-17 3.7E-22 171.5 10.3 100 98-204 35-148 (798)
16 PRK00629 pheT phenylalanyl-tRN 99.7 7.6E-17 1.6E-21 166.7 10.1 90 107-204 44-146 (791)
17 COG2517 Predicted RNA-binding 99.3 3.6E-12 7.8E-17 113.1 7.0 80 98-184 112-191 (219)
18 TIGR02306 RNA_lig_DRB0094 RNA 99.2 3.9E-11 8.4E-16 114.7 8.5 67 108-184 3-97 (341)
19 PHA02142 putative RNA ligase 96.1 0.02 4.3E-07 56.0 7.5 66 107-182 9-102 (366)
20 PTZ00385 lysyl-tRNA synthetase 86.9 0.073 1.6E-06 55.7 -3.0 49 116-167 609-658 (659)
21 PF13742 tRNA_anti_2: OB-fold 41.4 1.3E+02 0.0028 23.7 6.7 60 108-171 25-88 (99)
22 PRK10413 hydrogenase 2 accesso 32.7 1.3E+02 0.0029 23.6 5.4 48 110-162 6-53 (82)
23 TIGR01644 phage_P2_V phage bas 27.6 2.7E+02 0.0058 24.2 7.0 62 108-182 9-76 (191)
24 PF02470 MCE: mce related prot 25.3 2.5E+02 0.0054 20.7 5.6 28 106-134 24-51 (81)
25 PRK15448 ethanolamine cataboli 24.3 3.9E+02 0.0083 21.6 6.9 51 107-162 4-59 (95)
26 PRK04313 30S ribosomal protein 22.6 1.7E+02 0.0037 27.4 5.0 33 109-142 188-221 (237)
No 1
>KOG2241 consensus tRNA-binding protein [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=7.7e-54 Score=390.14 Aligned_cols=165 Identities=52% Similarity=0.787 Sum_probs=156.1
Q ss_pred cccCcccCeEEEEEEEEEeCCCCCceEEEEEEcCCCCcEEEEeCcccccCcccCCCCEEEEEEeeccccccceecceEEe
Q 024253 100 KDAANMLDIRVGRIIKAWRHEEADSLYVEEVDVGEAEPRIICSGLVKYVPLDFLQDRSVVVLANLKPRNMRGVKSNGMLL 179 (270)
Q Consensus 100 ~~f~~~LdIrVGkIvev~~HP~ADKLyv~kVDvGe~~~RtIvSGl~n~~~~eeL~GkkVvVv~NLKprKmrGv~SeGMLL 179 (270)
+.-..+||||||+|+++++||++|+||+++||+|+.++|||||||++|++.|+|+|++|+|+|||||+||||++||||+|
T Consensus 91 ~p~~~~LDiRvG~Ivka~kHpdADsLYve~IdvgE~~PRTVvSGLvk~vpleemq~R~VvvlcNLKPakmRgv~S~gMvl 170 (255)
T KOG2241|consen 91 GPDVSLLDIRVGKIVKAGKHPDADSLYVEEIDVGEAEPRTVVSGLVKHVPLEEMQNRLVVVLCNLKPAKMRGVKSQGMVL 170 (255)
T ss_pred CCCcceeeEEEeEEEEecccCCcceeEEEEeeecccccceeehhhHhhCCHHHHhCCeEEEEeccccccccccccceeEE
Confidence 33346899999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred eeccCCCCcEEEEcCCCCCCCCceEEeCCCCCCcCCCCCCCCCCCccchhHhHhCCCcEECCCeEEEeCCeeeeecCcce
Q 024253 180 AASDAAHENVELLEPPQGSVPGERIWFGSQEDKENQPAPASPNQVQKKKIWELVQPHLKTDASLVAMLGEHLMQTSAGAV 259 (270)
Q Consensus 180 ~ase~~~~~VelL~PP~~a~~G~rV~f~~~~~~~~~p~~~~p~~~~KkK~we~v~p~L~t~~~gva~y~~~~~~ts~G~~ 259 (270)
|+++.++..||+|.||.++.||+||+|+||+ ++|+. .+|+|||+||+|||||+|+++|+|+|||.+|+|++|.|
T Consensus 171 caSs~d~~~VE~l~pP~gs~pGdRv~fegfe---gePd~---~LnPKKKiwE~iqpdl~t~~~~va~yKg~~~~~~~G~~ 244 (255)
T KOG2241|consen 171 CASSPDKSVVEPLAPPAGSKPGDRVTFEGFE---GEPDK---ELNPKKKIWEKIQPDLKTNEEGVATYKGAPFETKKGVC 244 (255)
T ss_pred ecCCcccceeeeccCCCCCCCCCeeeecCCC---CCcch---hcChhhhhHHHhCCCcccccceEEEecCCceeccCceE
Confidence 9999888889999999999999999999997 34554 46799999999999999999999999999999999999
Q ss_pred EeccCCCcccC
Q 024253 260 MSRSLKNANIS 270 (270)
Q Consensus 260 ~~~sl~n~~Is 270 (270)
+++||.|++||
T Consensus 245 ~a~ti~n~~Ik 255 (255)
T KOG2241|consen 245 TAQTISNGGIK 255 (255)
T ss_pred EEeeccCCCCC
Confidence 99999999997
No 2
>PLN02610 probable methionyl-tRNA synthetase
Probab=100.00 E-value=4.4e-42 Score=353.81 Aligned_cols=169 Identities=50% Similarity=0.764 Sum_probs=156.2
Q ss_pred CceeecccCcccCeEEEEEEEEEeCCCCCceEEEEEEcCCCCcEEEEeCcccccCcccCCCCEEEEEEeeccccccceec
Q 024253 95 KSVNVKDAANMLDIRVGRIIKAWRHEEADSLYVEEVDVGEAEPRIICSGLVKYVPLDFLQDRSVVVLANLKPRNMRGVKS 174 (270)
Q Consensus 95 ~~i~i~~f~~~LdIrVGkIvev~~HP~ADKLyv~kVDvGe~~~RtIvSGl~n~~~~eeL~GkkVvVv~NLKprKmrGv~S 174 (270)
+.+++++|. ++|||||+|+++++||++||||+++||+|++++||||||+++++++|+|+|++|++++||||++|||++|
T Consensus 633 ~~~~~~~~~-~~dlrVg~I~~~~~hp~adkL~~~~Vd~G~~~~r~ivsG~~~~~~~e~l~G~~Vvv~~nlkp~klrGv~S 711 (801)
T PLN02610 633 AAEREIDVS-RLDIRVGLIVKAEKHPDADSLYVEEIDVGEGAPRTVVSGLVKYIPLEEMQNRKVCVLCNLKPAAMRGIKS 711 (801)
T ss_pred cccccccce-eeeeEEEEEEEEEeecCCCcceEEEEEeCCCceEEEEeCccccCChHHhCCCEEEEEEEecccccCCccc
Confidence 347778887 5999999999999999999999999999987899999999999999999999999999999999999999
Q ss_pred ceEEeeeccCCCCcEEEEcCCCCCCCCceEEeCCCCCCcCCCCCCCCCCCccchhHhHhCCCcEECCCeEEEeCCeeeee
Q 024253 175 NGMLLAASDAAHENVELLEPPQGSVPGERIWFGSQEDKENQPAPASPNQVQKKKIWELVQPHLKTDASLVAMLGEHLMQT 254 (270)
Q Consensus 175 eGMLL~ase~~~~~VelL~PP~~a~~G~rV~f~~~~~~~~~p~~~~p~~~~KkK~we~v~p~L~t~~~gva~y~~~~~~t 254 (270)
||||||+++.++++++|+.||+++++|++|+|+|+++ +|+. .+++|||+||+|||+|+||++|+++|+|.+|+|
T Consensus 712 ~GMll~a~~~~~~~~~ll~~~~~~~~G~~v~~~~~~~---~p~~---~~~~k~k~~~~~~~~l~~~~~~~~~~~~~~~~~ 785 (801)
T PLN02610 712 QAMVLAASNSDHTKVELVEPPESAAVGERVTFPGFEG---EPDD---VLNPKKKVWETLQPDLHTNSELVACYKDVPFTT 785 (801)
T ss_pred ceeEEecccCCCCceEEEeCCCCCCCCCEEEeCCCCC---Cccc---ccCcccchHHHhCCCCEECCceEEEECCEEEEe
Confidence 9999999876656799999999999999999998764 2332 467899999999999999999999999999999
Q ss_pred cCcceEeccCCCcccC
Q 024253 255 SAGAVMSRSLKNANIS 270 (270)
Q Consensus 255 s~G~~~~~sl~n~~Is 270 (270)
++|+|++++|+|+.|+
T Consensus 786 ~~g~~~~~~~~~~~i~ 801 (801)
T PLN02610 786 SAGVCKVASIANGSIR 801 (801)
T ss_pred cCCCeEcccCCCCEeC
Confidence 9999999999999986
No 3
>cd02798 tRNA_bind_CsaA tRNA-binding-domain-containing CsaA-like proteins. CsaA is a molecular chaperone with export related activities. CsaA has a putative tRNA binding activity. The functional unit of CsaA is a homodimer and this domain acts as a dimerization domain.
Probab=99.97 E-value=1.7e-30 Score=209.43 Aligned_cols=106 Identities=30% Similarity=0.467 Sum_probs=98.8
Q ss_pred eeecccCcccCeEEEEEEEEEeCCCC-CceEEEEEEcCCCCcEEEEeCcccccCcccCCCCEEEEEEeeccccccceecc
Q 024253 97 VNVKDAANMLDIRVGRIIKAWRHEEA-DSLYVEEVDVGEAEPRIICSGLVKYVPLDFLQDRSVVVLANLKPRNMRGVKSN 175 (270)
Q Consensus 97 i~i~~f~~~LdIrVGkIvev~~HP~A-DKLyv~kVDvGe~~~RtIvSGl~n~~~~eeL~GkkVvVv~NLKprKmrGv~Se 175 (270)
+++++|.. +|+|||+|+++++||++ ++||+++||+|+++.|||+||+.+||++|||+|++|++++||||+||||+.||
T Consensus 1 ~~~~~f~k-ldi~vG~V~~~~~~p~a~~kL~~~~Vd~G~~~~r~ivsg~~~~~~~e~l~gk~v~~v~Nlkp~k~~G~~S~ 79 (107)
T cd02798 1 ISYEDFEK-VDLRVGTIVEVEDFPEARKPAYKLKVDFGEIGVKQSSAQITKYYKPEELIGRQVVAVVNFPPKQIAGVLSE 79 (107)
T ss_pred CCHHHcee-eeeEEEEEEEEEECCCcccceEEEEEEecCccceehhhhhhhcCCHHHhcCCcEEEEeCCCCceecceecc
Confidence 45778875 99999999999999999 99999999999877899999999999999999999999999999999999999
Q ss_pred eEEeeeccCCCCcEEEEcCCCCCCCCceE
Q 024253 176 GMLLAASDAAHENVELLEPPQGSVPGERI 204 (270)
Q Consensus 176 GMLL~ase~~~~~VelL~PP~~a~~G~rV 204 (270)
|||||+++. +++++++.|+.++++|+||
T Consensus 80 gm~l~~~~~-~~~~~~~~~~~~~~~G~~i 107 (107)
T cd02798 80 VLVLGADDE-GGEVVLLVPDREVPNGAKV 107 (107)
T ss_pred EEEEEEEcC-CCcEEEecCCCCCCCcCCC
Confidence 999999864 4578999999999999986
No 4
>TIGR02222 chap_CsaA export-related chaperone CsaA. This model describes Bacillus subtilis CsaA, an export-related chaperone that interacts with the Sec system, and related proteins from a number of other bacteria and archaea. The crystal structure is known for the homodimer from Thermus thermophilus.
Probab=99.96 E-value=6.6e-30 Score=206.48 Aligned_cols=105 Identities=30% Similarity=0.405 Sum_probs=96.5
Q ss_pred ecccCcccCeEEEEEEEEEeCCCCCc-eEEEEEEcCCC-CcEEEEeCcccccCcccCCCCEEEEEEeeccccccceecce
Q 024253 99 VKDAANMLDIRVGRIIKAWRHEEADS-LYVEEVDVGEA-EPRIICSGLVKYVPLDFLQDRSVVVLANLKPRNMRGVKSNG 176 (270)
Q Consensus 99 i~~f~~~LdIrVGkIvev~~HP~ADK-Lyv~kVDvGe~-~~RtIvSGl~n~~~~eeL~GkkVvVv~NLKprKmrGv~SeG 176 (270)
|++|.+ +|+|||+|+++++||+++| ||+++||+|++ +.|+|++|+..+|++|||+|++|++++||||+||+|+.|||
T Consensus 1 ~~~f~k-ldlrvg~I~~~~~~p~a~k~L~~l~vd~G~~~~~r~ivsgi~~~~~~e~L~gk~v~~v~Nl~p~k~~G~~S~g 79 (107)
T TIGR02222 1 YEDFEK-LDLRVGRIVRAEPFPEARKPAYKLWVDFGTEIGVKQSSAQITKLYKPEDLIGRLVVAVVNFPPKQIAGFLSEV 79 (107)
T ss_pred Cchhhh-hhheeEEEEEEeecCCcccceeEEEEEecCcCCcceEehhhhhhCCHHHhCCCeEEEEECCCCceeCCccccE
Confidence 467764 9999999999999999998 99999999974 47999999999999999999999999999999999999999
Q ss_pred EEeeeccCCCCcEEEEcCCCCCCCCceEE
Q 024253 177 MLLAASDAAHENVELLEPPQGSVPGERIW 205 (270)
Q Consensus 177 MLL~ase~~~~~VelL~PP~~a~~G~rV~ 205 (270)
||||+.+.+ +.+.++.|++++++|+||+
T Consensus 80 Mil~~~~~~-~~~~l~~~~~~~~~G~~v~ 107 (107)
T TIGR02222 80 LVLGVIDEQ-GRVVLLQPDRPVPNGTKIA 107 (107)
T ss_pred EEEEEECCC-CeEEEecCCCCCCCcCCcC
Confidence 999998643 4589999999999999985
No 5
>PRK10089 tRNA-binding protein; Provisional
Probab=99.96 E-value=6.3e-30 Score=207.75 Aligned_cols=107 Identities=26% Similarity=0.370 Sum_probs=99.5
Q ss_pred eeecccCcccCeEEEEEEEEEeCCCCCce-EEEEEEcCCC-CcEEEEeCcccccCcccCCCCEEEEEEeeccccccceec
Q 024253 97 VNVKDAANMLDIRVGRIIKAWRHEEADSL-YVEEVDVGEA-EPRIICSGLVKYVPLDFLQDRSVVVLANLKPRNMRGVKS 174 (270)
Q Consensus 97 i~i~~f~~~LdIrVGkIvev~~HP~ADKL-yv~kVDvGe~-~~RtIvSGl~n~~~~eeL~GkkVvVv~NLKprKmrGv~S 174 (270)
+++++|.. +|+|||+|+++++||++++| |+++||+|++ +.|+|++|++.+|++|||+|++|++++||||++|||++|
T Consensus 4 i~~~~f~k-ldlrvg~I~~~~~~p~a~kL~~~l~vd~G~~~~~r~i~sgl~~~~~~eel~gk~v~~v~Nlkp~~~~G~~S 82 (112)
T PRK10089 4 ITYEDFEK-VDIRVGTIVEAEPFPEARKPAYKLWIDFGEEIGVKQSSAQITPHYTPEELIGKQVVAVVNFPPKQIAGFMS 82 (112)
T ss_pred cCHhHhhh-hheeeEEEEEEEEcCCcCcceEEEEEEecCccCcceEehhhcccCCHHHHccCcEEEEECCCcceecCccc
Confidence 67888875 99999999999999999999 9999999986 489999999999999999999999999999999999999
Q ss_pred ceEEeeeccCCCCcEEEEcCCCCCCCCceEE
Q 024253 175 NGMLLAASDAAHENVELLEPPQGSVPGERIW 205 (270)
Q Consensus 175 eGMLL~ase~~~~~VelL~PP~~a~~G~rV~ 205 (270)
||||||+++.+ ++++++.|+.++++|+||+
T Consensus 83 ~gmil~~~~~~-~~~~l~~p~~~~~~G~~i~ 112 (112)
T PRK10089 83 EVLVLGFEDED-GEVVLLTPDRPVPNGVKLV 112 (112)
T ss_pred cEEEEEEEcCC-CeEEEecCCCCCCCcCCcC
Confidence 99999998654 3689999999999999985
No 6
>cd02799 tRNA_bind_EMAP-II_like tRNA-binding-domain-containing EMAP2-like proteins. This family contains a diverse fraction of tRNA binding proteins, including Caenorhabditis elegans methionyl-tRNA synthetase (CeMetRS), human tyrosyl- tRNA synthetase (hTyrRS), Saccharomyces cerevisiae Arc1p, human p43 and EMAP2. CeMetRS and hTyrRS aminoacylate their cognate tRNAs. Arc1p is a transactivator of yeast methionyl-tRNA and glutamyl-tRNA synthetases. This domain has general tRNA binding properties. In a subset of this family this domain has the added capability of a cytokine. For example the p43 component of the Human aminoacyl-tRNA synthetase complex is cleaved to release EMAP-II cytokine. EMAP-II has multiple activities during apoptosis, angiogenesis and inflammation and participates in malignant transformation. A EMAP-II-like cytokine also is released from hTyrRS upon cleavage. The active cytokine heptapeptide locates to this domain.
Probab=99.95 E-value=3.9e-28 Score=193.88 Aligned_cols=104 Identities=67% Similarity=1.084 Sum_probs=96.0
Q ss_pred ccCcccCeEEEEEEEEEeCCCCCceEEEEEEcCCCCcEEEEeCcccccCcccCCCCEEEEEEeeccccccceecceEEee
Q 024253 101 DAANMLDIRVGRIIKAWRHEEADSLYVEEVDVGEAEPRIICSGLVKYVPLDFLQDRSVVVLANLKPRNMRGVKSNGMLLA 180 (270)
Q Consensus 101 ~f~~~LdIrVGkIvev~~HP~ADKLyv~kVDvGe~~~RtIvSGl~n~~~~eeL~GkkVvVv~NLKprKmrGv~SeGMLL~ 180 (270)
+|. ++|+|||+|+++++||++++||+++||+|+++.+||+||+.|++++|+|+|++|++++||+|++|+|+.|||||||
T Consensus 2 ~f~-~~~i~vg~I~~~~~~p~s~kL~~l~Vd~G~~~~~~Ivsg~~~~~~~~~~~g~~v~~l~nl~~~~~~G~~S~GMll~ 80 (105)
T cd02799 2 DPS-RLDIRVGKILKVRKHPDADSLYVEEIDLGEEEPRTIVSGLVKFVPLEQMQNRLVVVLCNLKPRKMRGVKSQGMVLC 80 (105)
T ss_pred Cce-EEEEEEEEEEEEEecCCCCccEEEEEEeCCCcEEEEEcCccccCCHHHhCCCEEEEEEeeccceECCeeeceEEEE
Confidence 354 5999999999999999999999999999987889999999999999999999999999999999999999999999
Q ss_pred eccCCCCcEEEEcCCCCCCCCceEE
Q 024253 181 ASDAAHENVELLEPPQGSVPGERIW 205 (270)
Q Consensus 181 ase~~~~~VelL~PP~~a~~G~rV~ 205 (270)
+.+.+...+.+++||.++++|++|+
T Consensus 81 ~~~~~~~~~~~~~~~~~~~~G~~i~ 105 (105)
T cd02799 81 ASNADHEKVELLEPPEGAKPGERVT 105 (105)
T ss_pred eccCCCCcEEEEECCCCCCCCCEeC
Confidence 9875434688999999999999984
No 7
>PF01588 tRNA_bind: Putative tRNA binding domain; InterPro: IPR002547 This domain is found in prokaryotic methionyl-tRNA synthetases, prokaryotic phenylalanyl tRNA synthetases the yeast GU4 nucleic-binding protein (G4p1 or p42, ARC1) [], human tyrosyl-tRNA synthetase [], and endothelial-monocyte activating polypeptide II. G4p1 binds specifically to tRNA form a complex with methionyl-tRNA synthetases []. In human tyrosyl-tRNA synthetase this domain may direct tRNA to the active site of the enzyme []. This domain may perform a common function in tRNA aminoacylation [].; GO: 0000049 tRNA binding; PDB: 3BU2_C 1PYB_A 2Q2I_A 2Q2H_A 1JJC_B 1EIY_B 1PYS_B 3HFZ_B 3TEH_B 2CWP_A ....
Probab=99.95 E-value=2.3e-28 Score=192.27 Aligned_cols=95 Identities=48% Similarity=0.740 Sum_probs=88.0
Q ss_pred eEEEEEEEEEeCCCCCceEEEEEEcCCCCcEEEEeCcccccCcccCCCCEEEEEEeeccccccceecceEEeeeccCCCC
Q 024253 108 IRVGRIIKAWRHEEADSLYVEEVDVGEAEPRIICSGLVKYVPLDFLQDRSVVVLANLKPRNMRGVKSNGMLLAASDAAHE 187 (270)
Q Consensus 108 IrVGkIvev~~HP~ADKLyv~kVDvGe~~~RtIvSGl~n~~~~eeL~GkkVvVv~NLKprKmrGv~SeGMLL~ase~~~~ 187 (270)
||||+|+++++||++||||+++||+|+++ |||+||+.|++.+++|.|+++++++|+++++|+|+.|||||||+++.++.
T Consensus 1 i~vg~I~~~~~hp~sdkL~~~~Vd~G~~~-~~Ivsg~~n~~~~~~lv~~~~~~v~n~~~~~i~Gv~SeGMlls~~e~~~~ 79 (95)
T PF01588_consen 1 IRVGKILEVEPHPNSDKLYVLKVDIGEEE-RQIVSGAKNVYEPEVLVGKKVVVVANLKPRKIRGVESEGMLLSASELGDG 79 (95)
T ss_dssp EEEEEEEEEEEETTSSSEEEEEEESSSSE-EEEEESCTTTSTHHHHTTTEEEEETTSCBEEETTEEEESEE-EEECSTSS
T ss_pred CEEEEEEEEEECCCCCEEEEEEEEeCCce-EEEEeccccccChhhhcceeEEEEEccCCcEEEeccCCEEEEEeeccCCC
Confidence 79999999999999999999999999976 99999999999999999999999999999999999999999999985556
Q ss_pred cEEEEcCCCCCCCCce
Q 024253 188 NVELLEPPQGSVPGER 203 (270)
Q Consensus 188 ~VelL~PP~~a~~G~r 203 (270)
...++.+|+++++|+|
T Consensus 80 ~~~ll~~~~~~~~G~~ 95 (95)
T PF01588_consen 80 SVGLLVLPDDAPPGED 95 (95)
T ss_dssp EEEEEEESSTS-TTSB
T ss_pred CEEEEECCCCCCCCCC
Confidence 7788899999999986
No 8
>cd02800 tRNA_bind_EcMetRS_like tRNA-binding-domain-containing Escherichia coli methionyl-tRNA synthetase (EcMetRS)-like proteins. This family includes EcMetRS and Aquifex aeolicus Trbp111 (AaTrbp111). This domain has general tRNA binding properties. MetRS aminoacylates methionine transfer RNAs (tRNAmet). AaTrbp111 is structure-specific molecular chaperone recognizing the L-shape of the tRNA fold. AaTrbp111 plays a role in nuclear trafficking of tRNAs. The functional unit of EcMetRs and AaTrbp111 is a homodimer, this domain acts as the dimerization domain.
Probab=99.95 E-value=1.6e-27 Score=190.18 Aligned_cols=103 Identities=47% Similarity=0.766 Sum_probs=96.5
Q ss_pred eecccCcccCeEEEEEEEEEeCCCCCceEEEEEEcCCCCcEEEEeCcccccCcccCCCCEEEEEEeeccccccceecceE
Q 024253 98 NVKDAANMLDIRVGRIIKAWRHEEADSLYVEEVDVGEAEPRIICSGLVKYVPLDFLQDRSVVVLANLKPRNMRGVKSNGM 177 (270)
Q Consensus 98 ~i~~f~~~LdIrVGkIvev~~HP~ADKLyv~kVDvGe~~~RtIvSGl~n~~~~eeL~GkkVvVv~NLKprKmrGv~SeGM 177 (270)
++++|.. +|+|||+|+++++||++++||+++||+|+ +.++|+||++|+|.+++|.|+++++++||+|++|+|+.|+||
T Consensus 2 ~~~~~~~-ldi~vg~I~~~~~~p~a~kL~~~~vd~G~-~~~~iv~g~~~~~~~~~l~g~~v~~~~nl~~~~~~Gv~S~GM 79 (105)
T cd02800 2 TIDDFAK-VDLRVGKVLEAERVEGSDKLLKLTVDLGE-EERQIVSGIAKFYPPEELVGKKVVVVANLKPRKLRGVESQGM 79 (105)
T ss_pred ChHHcee-eeEEEEEEEEEEecCCCCcceEEEEEeCC-eEEEEEeCcccccCHhHhccCceEeEeeECCccCCCeEeceE
Confidence 4567764 99999999999999999999999999998 789999999999999999999999999999999999999999
Q ss_pred EeeeccCCCCcEEEEcCCCCCCCCceE
Q 024253 178 LLAASDAAHENVELLEPPQGSVPGERI 204 (270)
Q Consensus 178 LL~ase~~~~~VelL~PP~~a~~G~rV 204 (270)
|||+.+. +.++++.||+++++|+||
T Consensus 80 l~s~~~~--~~~~l~~~~~~~~~G~~i 104 (105)
T cd02800 80 ILAAEDG--GKLKLLTPDEEVEPGSRV 104 (105)
T ss_pred EEEecCC--CeEEEEeCCCCCCCcCCc
Confidence 9999865 568999999999999997
No 9
>COG0073 ARC1 EMAP domain [General function prediction only]
Probab=99.95 E-value=2.6e-27 Score=195.25 Aligned_cols=111 Identities=38% Similarity=0.621 Sum_probs=99.5
Q ss_pred CCCceeecccCcccCeEEEEEEEEEeCCCCCceEEEEEEcCCC-CcEEEEeCcccccCcccCCCCEEEEEEe---ecccc
Q 024253 93 EDKSVNVKDAANMLDIRVGRIIKAWRHEEADSLYVEEVDVGEA-EPRIICSGLVKYVPLDFLQDRSVVVLAN---LKPRN 168 (270)
Q Consensus 93 ~~~~i~i~~f~~~LdIrVGkIvev~~HP~ADKLyv~kVDvGe~-~~RtIvSGl~n~~~~eeL~GkkVvVv~N---LKprK 168 (270)
..+++++++|. ..+||||+|+++++||++||||+++||+|++ +.|||+||+.|+|+.+++.++++.+++| |||+|
T Consensus 7 e~e~i~~~~~~-~~~l~vg~V~~~~~~p~adkL~~~~Vd~G~~~~~~qiv~G~~n~~~~~~vv~a~v~~v~~~~~ikp~k 85 (123)
T COG0073 7 EVEEIEIDDFA-KVDLRVGKVVEAEPHPNADKLLVLKVDLGDEKEPRQIVCGAPNFYAGEKLVGAKVGAVLNGGKLKPAK 85 (123)
T ss_pred ccccccccccc-cCCeEEEEEEEeEECCCCCeeEEEEEEcCCCCcEEEEEcCCccccCCceeeeeeEEEEeCCCccccee
Confidence 34668999996 4899999999999999999999999999985 4899999999999999999999999999 99999
Q ss_pred ccceecceEEeeeccCCCC--cEEEEcCCCCCCCCceE
Q 024253 169 MRGVKSNGMLLAASDAAHE--NVELLEPPQGSVPGERI 204 (270)
Q Consensus 169 mrGv~SeGMLL~ase~~~~--~VelL~PP~~a~~G~rV 204 (270)
|||+.|+|||||+.+++-. ...|+++|++.++|+++
T Consensus 86 lrG~~S~GMics~~e~~~~~~~~~il~~~~~~~~g~~~ 123 (123)
T COG0073 86 LRGVESEGMLLSAEELGLSDENVGILTLDEGVPPGTKV 123 (123)
T ss_pred ecCcccceEEEEcccCCCccccceEEeCCCCCCCCCCC
Confidence 9999999999999986422 35678889999988763
No 10
>TIGR00399 metG_C_term methionyl-tRNA synthetase C-terminal region/beta chain. The methionyl-tRNA synthetase (metG) is a class I amino acyl-tRNA ligase. This model describes a region of the methionyl-tRNA synthetase that is present at the C-terminus of MetG in some species (E. coli, B. subtilis, Thermotoga maritima, Methanobacterium thermoautotrophicum), and as a separate beta chain in Aquifex aeolicus. It is absent in a number of other species (e.g. Mycoplasma genitalium, Mycobacterium tuberculosis), while Pyrococcus horikoshii has both a full length MetG and a second protein homologous to the beta chain only. Proteins hit by this model should called methionyl-tRNA synthetase beta chain if and only if the model metG hits a separate protein not also hit by this model.
Probab=99.94 E-value=1.1e-26 Score=195.23 Aligned_cols=116 Identities=39% Similarity=0.620 Sum_probs=104.3
Q ss_pred CCCCCCCCCCceeecccCcccCeEEEEEEEEEeCCCCCceEEEEEEcCCCCcEEEEeCcccccCcccCCCCEEEEEEeec
Q 024253 86 SPPRPAVEDKSVNVKDAANMLDIRVGRIIKAWRHEEADSLYVEEVDVGEAEPRIICSGLVKYVPLDFLQDRSVVVLANLK 165 (270)
Q Consensus 86 ~~~~~~~~~~~i~i~~f~~~LdIrVGkIvev~~HP~ADKLyv~kVDvGe~~~RtIvSGl~n~~~~eeL~GkkVvVv~NLK 165 (270)
+...+..+++.+++++|.. +|+|||+|+++++||++++||+++||+|++ .|||+||+..+|.+++|.|++|++++||+
T Consensus 21 ~~~~~~~~k~~~~~~~f~k-ldi~Vg~I~eve~hp~adkL~v~~Vd~G~~-~~qIvsg~~~~~~~~~l~G~~v~~~~nlk 98 (137)
T TIGR00399 21 GEKALEPQKETITIDDFEK-VDLRVGKILKAERVEKSDKLLKLKLDLGDE-KRQIVSGIAGYYTPEELVGKKVIVVANLK 98 (137)
T ss_pred ccccccccccccCHhhcee-eeeEEEEEEEEeecCCCCcceEEEEEeCCc-eEEEEeCcccCcCHhHcCCCEEEeeEEec
Confidence 3334445566789999975 999999999999999999999999999974 69999999999999999999999999999
Q ss_pred cccccceecceEEeeeccCCCCcEEEEcCCCCCCCCceE
Q 024253 166 PRNMRGVKSNGMLLAASDAAHENVELLEPPQGSVPGERI 204 (270)
Q Consensus 166 prKmrGv~SeGMLL~ase~~~~~VelL~PP~~a~~G~rV 204 (270)
|++|||+.|+|||||+.+.+ +.+++|.||.++++|+||
T Consensus 99 p~k~~Gv~S~GMlls~~~~~-~~~~l~~~~~~~~~G~~i 136 (137)
T TIGR00399 99 PAKLFGVKSEGMILAAEDDG-KVLFLLSPDQEAIAGERI 136 (137)
T ss_pred CccCCCeEeccEEEEEecCC-CeEEEecCCCCCCCcCCc
Confidence 99999999999999998754 368999999999999997
No 11
>cd02153 tRNA_bindingDomain The tRNA binding domain is also known as the Myf domain in literature. This domain is found in a diverse collection of tRNA binding proteins, including prokaryotic phenylalanyl tRNA synthetases (PheRS), methionyl-tRNA synthetases (MetRS), human tyrosyl-tRNA synthetase(hTyrRS), Saccharomyces cerevisiae Arc1p, Thermus thermophilus CsaA, Aquifex aeolicus Trbp111, human p43 and human EMAP-II. PheRS, MetRS and hTyrRS aminoacylate their cognate tRNAs. Arc1p is a transactivator of yeast methionyl-tRNA and glutamyl-tRNA synthetases. The molecular chaperones Trbp111 and CsaA also contain this domain. CsaA has export related activities; Trbp111 is structure-specific recognizing the L-shape of the tRNA fold. This domain has general tRNA binding properties. In a subset of this family this domain has the added capability of a cytokine. For example the p43 component of the Human aminoacyl-tRNA synthetase complex is cleaved to release EMAP-II cytokine. EMAP-II has multi
Probab=99.94 E-value=2.2e-26 Score=180.86 Aligned_cols=97 Identities=46% Similarity=0.754 Sum_probs=89.7
Q ss_pred eEEEEEEEEEeCCCCCceEEEEEEcCCCCcEEEEeCcccccCcccCCCCEEEEEEeeccccccceecceEEeeeccCC--
Q 024253 108 IRVGRIIKAWRHEEADSLYVEEVDVGEAEPRIICSGLVKYVPLDFLQDRSVVVLANLKPRNMRGVKSNGMLLAASDAA-- 185 (270)
Q Consensus 108 IrVGkIvev~~HP~ADKLyv~kVDvGe~~~RtIvSGl~n~~~~eeL~GkkVvVv~NLKprKmrGv~SeGMLL~ase~~-- 185 (270)
+|||+|+++++||++++||+++||+|+++.++|+||+.|+|++|+++|++|++++||+|++|+|+.|+|||||+++.+
T Consensus 1 ~~vg~I~~~~~~p~~~kL~~~~vd~G~~~~~~ivsg~~~~~~~~~~~g~~v~~~~~l~~~~~~g~~S~GMl~s~~~~g~~ 80 (99)
T cd02153 1 LRVGKIVEAEPHPNADKLYVLKVDIGEEKPRQIVSGAANVYPPEELVGKKVVVAVNLKPKKLRGVESEGMLLSAEELGLE 80 (99)
T ss_pred CEEEEEEEEEECCCCCCCEEEEEEeCCCcEEEEEeCCcccCChHHhCCCEEEEEEecccccCCCeecccEEeeccccCCC
Confidence 689999999999999999999999998789999999999999999999999999999999999999999999999862
Q ss_pred CCcEEEEcCCCCCCCCceE
Q 024253 186 HENVELLEPPQGSVPGERI 204 (270)
Q Consensus 186 ~~~VelL~PP~~a~~G~rV 204 (270)
++...|+.+|.++++|+++
T Consensus 81 ~~~~~i~~~~~~~~~G~~~ 99 (99)
T cd02153 81 EGSVGILELPEDAPVGDRI 99 (99)
T ss_pred CCceEEEECCCCCCCCCcC
Confidence 3446788889899999875
No 12
>PRK12267 methionyl-tRNA synthetase; Reviewed
Probab=99.90 E-value=1.3e-23 Score=211.56 Aligned_cols=110 Identities=36% Similarity=0.605 Sum_probs=100.8
Q ss_pred CCCCceeecccCcccCeEEEEEEEEEeCCCCCceEEEEEEcCCCCcEEEEeCcccccCcccCCCCEEEEEEeeccccccc
Q 024253 92 VEDKSVNVKDAANMLDIRVGRIIKAWRHEEADSLYVEEVDVGEAEPRIICSGLVKYVPLDFLQDRSVVVLANLKPRNMRG 171 (270)
Q Consensus 92 ~~~~~i~i~~f~~~LdIrVGkIvev~~HP~ADKLyv~kVDvGe~~~RtIvSGl~n~~~~eeL~GkkVvVv~NLKprKmrG 171 (270)
.+++++++++|.. +|||||+|+++++||++|+||+++||+|++++|||+||+.+++.+++|.|++|++++||||++|+|
T Consensus 538 ~~~~~~~~~~f~~-~d~~vg~i~~~~~~p~adkL~~~~vd~G~~~~~~iv~g~~~~~~~~~l~g~~v~~~~nl~~~~~~G 616 (648)
T PRK12267 538 PEKPEITIDDFDK-VELRVAEVLEAEKVEKSDKLLKLQVDLGEEEPRQIVSGIAKFYPPEELVGKKVVVVANLKPAKLMG 616 (648)
T ss_pred cccCccCHhhhhh-hceeEEEEEeeccCCCCCccceEEEEeCCCceEEEEeCCcccCCHhHhCCCeEEEEEeecccccCC
Confidence 3445699999975 999999999999999999999999999987789999999999999999999999999999999999
Q ss_pred eecceEEeeeccCCCCcEEEEcCCCCCCCCceE
Q 024253 172 VKSNGMLLAASDAAHENVELLEPPQGSVPGERI 204 (270)
Q Consensus 172 v~SeGMLL~ase~~~~~VelL~PP~~a~~G~rV 204 (270)
+.|+|||||+.++ +.+.|+.||+++++|++|
T Consensus 617 v~S~gMl~s~~~~--~~~~l~~~~~~~~~G~~~ 647 (648)
T PRK12267 617 EESQGMILAAEDD--GKLTLLTVDKEVPNGSKV 647 (648)
T ss_pred cccceEEEEeccC--CeEEEEeCCCCCCCcCCC
Confidence 9999999999872 346788889999999986
No 13
>PRK00133 metG methionyl-tRNA synthetase; Reviewed
Probab=99.89 E-value=2.5e-23 Score=210.87 Aligned_cols=107 Identities=39% Similarity=0.599 Sum_probs=99.1
Q ss_pred CCceeecccCcccCeEEEEEEEEEeCCCCCceEEEEEEcCCCCcEEEEeCcccccCcccCCCCEEEEEEeeccccc-cce
Q 024253 94 DKSVNVKDAANMLDIRVGRIIKAWRHEEADSLYVEEVDVGEAEPRIICSGLVKYVPLDFLQDRSVVVLANLKPRNM-RGV 172 (270)
Q Consensus 94 ~~~i~i~~f~~~LdIrVGkIvev~~HP~ADKLyv~kVDvGe~~~RtIvSGl~n~~~~eeL~GkkVvVv~NLKprKm-rGv 172 (270)
.+++++++|.+ +|||||+|+++++||++++||+++||+|++ +||||||+.|++.+++|.|++|++++||||++| +|+
T Consensus 565 ~~~~~~~~f~~-~di~vg~I~~~~~~p~~~~l~~~~vd~G~~-~~~iv~g~~~~~~~~~l~G~~v~~~~nlkp~~~~~Gv 642 (673)
T PRK00133 565 AETISFDDFAK-VDLRVAKIVEAEKVEGADKLLKLTLDLGEE-TRQVFSGIKSAYDPEELVGKLVVMVANLAPRKMKFGV 642 (673)
T ss_pred ccccCHHHHhh-hhcceeeeEeeecCCCCCccceeeEecCCc-eeEEEcCccccCCHHHHhcCeeEEEEeeccccccCCc
Confidence 35699999975 999999999999999999999999999985 899999999999999999999999999999999 999
Q ss_pred ecceEEeeeccCCCCcEEEEcCCCCCCCCceE
Q 024253 173 KSNGMLLAASDAAHENVELLEPPQGSVPGERI 204 (270)
Q Consensus 173 ~SeGMLL~ase~~~~~VelL~PP~~a~~G~rV 204 (270)
|||||||+.+. +++|.+|.|++++++|++|
T Consensus 643 -S~gMl~~~~~~-~~~i~~l~~~~~~~~G~~~ 672 (673)
T PRK00133 643 -SEGMVLAAGPG-GGDLFLLEPDEGAKPGMRV 672 (673)
T ss_pred -cceeEEEeecC-CCcEEEecCCCCCCCCCcC
Confidence 99999999854 3579999888899999986
No 14
>cd02796 tRNA_bind_bactPheRS tRNA-binding-domain-containing prokaryotic phenylalanly tRNA synthetase (PheRS) beta chain. PheRS aminoacylate phenylalanine transfer RNAs (tRNAphe). PheRSs belong structurally to class II aminoacyl tRNA synthetases (aaRSs) but, as they aminoacylate the 2'OH of the terminal ribose of tRNA they belong functionally to class 1 aaRSs. This domain has general tRNA binding properties and is believed to direct tRNAphe to the active site of the enzyme.
Probab=99.86 E-value=7.5e-22 Score=156.37 Aligned_cols=92 Identities=34% Similarity=0.541 Sum_probs=81.1
Q ss_pred eEEEEEEEEEeCCCCCceEEEEEEcCCCCcEEEEeCcccccCcccCCCCEEEEEE---------eeccccccceecceEE
Q 024253 108 IRVGRIIKAWRHEEADSLYVEEVDVGEAEPRIICSGLVKYVPLDFLQDRSVVVLA---------NLKPRNMRGVKSNGML 178 (270)
Q Consensus 108 IrVGkIvev~~HP~ADKLyv~kVDvGe~~~RtIvSGl~n~~~~eeL~GkkVvVv~---------NLKprKmrGv~SeGML 178 (270)
++||+|+++++||++++||+++||+|+++.++|+||+.|+. +|++|+++. ||++++|+|+.|||||
T Consensus 1 ~~vg~I~~~~~hp~~~kL~~~~vd~g~~~~~~Iv~~~~n~~-----~g~~vvv~~~gs~l~~~~~i~~~~~~G~~S~GMl 75 (103)
T cd02796 1 VVVGKVLEVEPHPNADKLNVCKVDIGENKPLQIVCGAPNVR-----AGDKVVVALPGAVLPGGLKIKKRKLRGVESEGML 75 (103)
T ss_pred CEEEEEEEEEecCCCCceEEEEEEeCCCcEEEEEcCccHhh-----cCCEEEEEecCCCcCCCceEcceeeCCcccchhC
Confidence 68999999999999999999999999878999999999997 899999987 9999999999999999
Q ss_pred eeeccC--CCCcEEEEcCCCCCCCCceE
Q 024253 179 LAASDA--AHENVELLEPPQGSVPGERI 204 (270)
Q Consensus 179 L~ase~--~~~~VelL~PP~~a~~G~rV 204 (270)
||+.+. +++...|+++|+++++|+++
T Consensus 76 ~s~~elg~~~~~~gi~~l~~~~~~G~~~ 103 (103)
T cd02796 76 CSAKELGLGEDSDGIIELPEDAPVGTDI 103 (103)
T ss_pred cchhHcCCCCCCCeEEECCCCCCCCCCC
Confidence 999873 12223466778899999864
No 15
>TIGR00472 pheT_bact phenylalanyl-tRNA synthetase, beta subunit, non-spirochete bacterial. Every known example of the phenylalanyl-tRNA synthetase, except the monomeric form of mitochondrial, is an alpha 2 beta 2 heterotetramer. The beta subunits break into two subfamilies that are considerably different in sequence, length, and pattern of gaps. This model represents the subfamily that includes the beta subunit from Bacteria other than spirochetes, as well as a chloroplast-encoded form from Porphyra purpurea. The chloroplast-derived sequence is considerably shorter at the amino end, however.
Probab=99.72 E-value=1.7e-17 Score=171.46 Aligned_cols=100 Identities=29% Similarity=0.427 Sum_probs=85.4
Q ss_pred eecccCcccC-eEEEEEEEEEeCCCCCceEEEEEEcCCCCcEEEEeCcccccCcccCCCCEEEEE---------Eeeccc
Q 024253 98 NVKDAANMLD-IRVGRIIKAWRHEEADSLYVEEVDVGEAEPRIICSGLVKYVPLDFLQDRSVVVL---------ANLKPR 167 (270)
Q Consensus 98 ~i~~f~~~Ld-IrVGkIvev~~HP~ADKLyv~kVDvGe~~~RtIvSGl~n~~~~eeL~GkkVvVv---------~NLKpr 167 (270)
.+.++...++ ++||+|+++++||++|+|++|+||+|+++.+||+||+.|+. .|++|+|+ .+|+++
T Consensus 35 ~v~~~~~~~~~~~vg~i~~~~~hp~~~~L~~~~vd~g~~~~~~Iv~ga~n~~-----~g~~V~va~~Ga~l~~~~~i~~~ 109 (798)
T TIGR00472 35 AVIPFSKPLKGVVVGKVLEVEPHPNADKLKVCKVDIGEKEMLQIVCGAPNVE-----AGKKVAVALPGAKLPNGLKIKKS 109 (798)
T ss_pred eEEecccCcCCEEEEEEEEEEecCCCCcEEEEEEEcCCCceEEEEeCCcccc-----CCCEEEEEccCCCccCCceEeee
Confidence 3444443344 99999999999999999999999999767899999999988 89999998 579999
Q ss_pred cccceecceEEeeeccC----CCCcEEEEcCCCCCCCCceE
Q 024253 168 NMRGVKSNGMLLAASDA----AHENVELLEPPQGSVPGERI 204 (270)
Q Consensus 168 KmrGv~SeGMLL~ase~----~~~~VelL~PP~~a~~G~rV 204 (270)
+|||+.|+||+|++++. +++++.+| |++.++|+++
T Consensus 110 ~~~Gv~S~GMlcs~~elg~~~~~~gi~~l--~~~~~~G~~~ 148 (798)
T TIGR00472 110 KLRGVESEGMLCSEDELGLDEKSDGIIVL--DEDAPLGTDI 148 (798)
T ss_pred ecCCeeechhcccHhHcCCCCCCCCEEEc--CCCCCCCccH
Confidence 99999999999999874 24566555 7788999888
No 16
>PRK00629 pheT phenylalanyl-tRNA synthetase subunit beta; Reviewed
Probab=99.68 E-value=7.6e-17 Score=166.65 Aligned_cols=90 Identities=36% Similarity=0.537 Sum_probs=80.6
Q ss_pred CeEEEEEEEEEeCCCCCceEEEEEEcCCCCcEEEEeCcccccCcccCCCCEEEEE---------EeeccccccceecceE
Q 024253 107 DIRVGRIIKAWRHEEADSLYVEEVDVGEAEPRIICSGLVKYVPLDFLQDRSVVVL---------ANLKPRNMRGVKSNGM 177 (270)
Q Consensus 107 dIrVGkIvev~~HP~ADKLyv~kVDvGe~~~RtIvSGl~n~~~~eeL~GkkVvVv---------~NLKprKmrGv~SeGM 177 (270)
.++||+|+++++||++|||++|+||+|+ +.+||+||+.|+. +|++|+++ .+|++++|||+.|+||
T Consensus 44 ~i~vg~i~~~~~hp~~~~L~v~~v~~g~-~~~~iv~ga~n~~-----~g~~v~~a~~G~~l~~~~~i~~~~~~Gv~S~GM 117 (791)
T PRK00629 44 GVVVGKVLECEKHPNADKLRVCQVDVGE-EPLQIVCGAPNVR-----AGDKVPVALPGAVLPGGFKIKKAKLRGVESEGM 117 (791)
T ss_pred CEEEEEEEEEEecCCCCeEEEEEEEcCC-eEEEEEeCCcccc-----CCCEEEEEccCCCccCCceEeeeecCCeEEchh
Confidence 4999999999999999999999999998 5699999999998 89999995 3599999999999999
Q ss_pred EeeeccC----CCCcEEEEcCCCCCCCCceE
Q 024253 178 LLAASDA----AHENVELLEPPQGSVPGERI 204 (270)
Q Consensus 178 LL~ase~----~~~~VelL~PP~~a~~G~rV 204 (270)
+|+++|. +++||.+| |++.++|+++
T Consensus 118 lcs~~ELGl~~~~~GI~~L--~~~~~~G~~~ 146 (791)
T PRK00629 118 LCSASELGLSDDHDGIIEL--PEDAPVGTDA 146 (791)
T ss_pred cccHhHcCCCcCCCCeEEC--CCCCCCCccH
Confidence 9999884 35687666 7788899888
No 17
>COG2517 Predicted RNA-binding protein containing a C-terminal EMAP domain [General function prediction only]
Probab=99.31 E-value=3.6e-12 Score=113.08 Aligned_cols=80 Identities=34% Similarity=0.510 Sum_probs=69.5
Q ss_pred eecccCcccCeEEEEEEEEEeCCCCCceEEEEEEcCCCCcEEEEeCcccccCcccCCCCEEEEEEeeccccccceecceE
Q 024253 98 NVKDAANMLDIRVGRIIKAWRHEEADSLYVEEVDVGEAEPRIICSGLVKYVPLDFLQDRSVVVLANLKPRNMRGVKSNGM 177 (270)
Q Consensus 98 ~i~~f~~~LdIrVGkIvev~~HP~ADKLyv~kVDvGe~~~RtIvSGl~n~~~~eeL~GkkVvVv~NLKprKmrGv~SeGM 177 (270)
.|.+...-+|+++|+|.++.+||++|+||+|.||+|.. .++||++.-.+. +|++|+| +-|+|+.|.|++|+||
T Consensus 112 eI~d~~~aV~~vvGEV~Sv~~hp~aD~L~v~vvn~G~r-~~tVVTN~~~vr-----eg~~vaV-AlLPPr~F~gvvSeGM 184 (219)
T COG2517 112 EINDPVIAVDIVVGEVMSVGKHPNADKLLVTVVNIGGR-AVTVVTNDLDVR-----EGDRVAV-ALLPPRNFFGVVSEGM 184 (219)
T ss_pred ccCCcceeEEEEeeeeeecccCCCCCceEEEEEecCCe-EEEEEecccccc-----cCCEEEE-EecChhHhccccccce
Confidence 34444445789999999999999999999999999984 689999998888 9999765 6799999999999999
Q ss_pred EeeeccC
Q 024253 178 LLAASDA 184 (270)
Q Consensus 178 LL~ase~ 184 (270)
+|.+.+-
T Consensus 185 Flg~~d~ 191 (219)
T COG2517 185 FLGAKDV 191 (219)
T ss_pred eeccccc
Confidence 9998653
No 18
>TIGR02306 RNA_lig_DRB0094 RNA ligase, DRB0094 family. The member of this family from Deinococcus radiodurans, a species that withstands and recovers from extensive radiation or dessication damage, is an apparent RNA ligase. It repairs RNA stand breaks in nicked DNA:RNA and RNA:RNA but not DNA:DNA duplexes. It has adenylyltransferase activity associated with the C-terminal domain. Related proteins also in this family are found in Streptomyces avermitilis MA-4680 and in bacteriophage 44RR2.8t. The phage example is unsurprising since one mechanism of host cell defense against phage is cleavage and inactivation of certain tRNA molecules. A fungal sequence from Neurospora crassa scores between trusted and noise cutofffs and may be similar in function.
Probab=99.20 E-value=3.9e-11 Score=114.68 Aligned_cols=67 Identities=21% Similarity=0.226 Sum_probs=61.2
Q ss_pred eEEEEEEEEEeCCCCCceEEEEEEcCCCCcEEEEeCcccccCcccCCCCEEEEE------E-------------------
Q 024253 108 IRVGRIIKAWRHEEADSLYVEEVDVGEAEPRIICSGLVKYVPLDFLQDRSVVVL------A------------------- 162 (270)
Q Consensus 108 IrVGkIvev~~HP~ADKLyv~kVDvGe~~~RtIvSGl~n~~~~eeL~GkkVvVv------~------------------- 162 (270)
.+||+|+++++||++|+|.+++||. .|||+|+.|+. .|.+|+++ -
T Consensus 3 ~vv~kV~~i~php~Ad~L~v~~Vd~-----~~vV~ga~n~~-----~Gd~Vv~a~~gs~Lp~~~~~~~~~~~~~~~~~g~ 72 (341)
T TIGR02306 3 AVMREIADLQPHPNADALELATVGG-----WEVVVKKGEYR-----VGSDCVYFPEDSVLPTDAGLFRFLETRAKILDGK 72 (341)
T ss_pred eEEEEEEEeeecCCCCceEEEEEeC-----EEEEcCCCcCC-----CCCEEEEECCCCCCCCCCCcchhhcccccccccc
Confidence 4799999999999999999999997 89999999999 89999986 1
Q ss_pred ---eeccccccceecceEEeeeccC
Q 024253 163 ---NLKPRNMRGVKSNGMLLAASDA 184 (270)
Q Consensus 163 ---NLKprKmrGv~SeGMLL~ase~ 184 (270)
.|+.+++||+.||||+|+.++.
T Consensus 73 ~~~~Ik~~klRG~~SqGMlcs~~~~ 97 (341)
T TIGR02306 73 MRARVKTVRLRGEISQGIALPTGAL 97 (341)
T ss_pred ccceEeEEEeccEEEccEEechhhc
Confidence 6788899999999999998864
No 19
>PHA02142 putative RNA ligase
Probab=96.06 E-value=0.02 Score=55.97 Aligned_cols=66 Identities=20% Similarity=0.216 Sum_probs=48.5
Q ss_pred CeEEEEEEEEEeCCCCCceEEEEEEcCCCCcEEEEeCcccccCcccCCCCEEEEE-------------------------
Q 024253 107 DIRVGRIIKAWRHEEADSLYVEEVDVGEAEPRIICSGLVKYVPLDFLQDRSVVVL------------------------- 161 (270)
Q Consensus 107 dIrVGkIvev~~HP~ADKLyv~kVDvGe~~~RtIvSGl~n~~~~eeL~GkkVvVv------------------------- 161 (270)
-+.|-+|..+++||+||.+=+.+||- .++|-.-..|. .|+.|+.+
T Consensus 9 Lv~v~~i~~i~pi~~Ad~ie~a~V~g-----w~vVV~kg~f~-----~GD~~vY~eiDS~lP~~~~~~~~l~~~~~~~~g 78 (366)
T PHA02142 9 LASMRKIADLQPIPGADAIEVATIDG-----WEVVVKKGEFR-----VGDDCVYFEIDSLLPTDNPAFRFLETRARIYDG 78 (366)
T ss_pred EEEEEEEeeecccCCCCceeEEEECC-----EEEEEeccccc-----cCCeEEEecccccccCCchhhhhhhccccccCC
Confidence 36888999999999999999888872 33443433444 55555553
Q ss_pred ---EeeccccccceecceEEeeec
Q 024253 162 ---ANLKPRNMRGVKSNGMLLAAS 182 (270)
Q Consensus 162 ---~NLKprKmrGv~SeGMLL~as 182 (270)
.-|+..++||..||||++-.+
T Consensus 79 ~~~~Ri~t~klRG~iSQGl~lpl~ 102 (366)
T PHA02142 79 KMRARIKTIKLRGQISQGIALPTG 102 (366)
T ss_pred cccceEEEEEEeeEEeeeEEeccc
Confidence 247888999999999998743
No 20
>PTZ00385 lysyl-tRNA synthetase; Provisional
Probab=86.94 E-value=0.073 Score=55.66 Aligned_cols=49 Identities=14% Similarity=0.051 Sum_probs=45.9
Q ss_pred EEeCCC-CCceEEEEEEcCCCCcEEEEeCcccccCcccCCCCEEEEEEeeccc
Q 024253 116 AWRHEE-ADSLYVEEVDVGEAEPRIICSGLVKYVPLDFLQDRSVVVLANLKPR 167 (270)
Q Consensus 116 v~~HP~-ADKLyv~kVDvGe~~~RtIvSGl~n~~~~eeL~GkkVvVv~NLKpr 167 (270)
|+..|. +.+|.-.+.|.|.+..|+|.||+..+|. +|.|+..+++|| +||
T Consensus 609 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~l~~~~~~~~~~-~pr 658 (659)
T PTZ00385 609 CANVRELRRVIMELGQRGGENGLPTAGGRLSEWRI--TLTFAIIRFICG-TPR 658 (659)
T ss_pred hhhchHHHHHHhceecccCCCCccchhHHHHHHHH--HHhcceeEEEeC-CCC
Confidence 888898 9999999999999999999999999996 799999999999 887
No 21
>PF13742 tRNA_anti_2: OB-fold nucleic acid binding domain
Probab=41.37 E-value=1.3e+02 Score=23.70 Aligned_cols=60 Identities=22% Similarity=0.184 Sum_probs=38.7
Q ss_pred eEEEEEEEEEeCCCCCceEEEEEEcCCCCcEEEEeCccc-c---cCcccCCCCEEEEEEeeccccccc
Q 024253 108 IRVGRIIKAWRHEEADSLYVEEVDVGEAEPRIICSGLVK-Y---VPLDFLQDRSVVVLANLKPRNMRG 171 (270)
Q Consensus 108 IrVGkIvev~~HP~ADKLyv~kVDvGe~~~RtIvSGl~n-~---~~~eeL~GkkVvVv~NLKprKmrG 171 (270)
-+.|+|.++..| .+.++|..-.| ++...+-++-.-.. . .+++ .|.+|++...+.-=.-+|
T Consensus 25 wV~GEIs~~~~~-~~gh~YftLkD-~~a~i~~~~~~~~~~~i~~~~l~--~G~~V~v~g~~~~y~~~G 88 (99)
T PF13742_consen 25 WVEGEISNLKRH-SSGHVYFTLKD-EEASISCVIFRSRARRIRGFDLK--DGDKVLVRGRVSFYEPRG 88 (99)
T ss_pred EEEEEEeecEEC-CCceEEEEEEc-CCcEEEEEEEHHHHhhCCCCCCC--CCCEEEEEEEEEEECCCc
Confidence 578999999999 88899999999 54433333322111 1 1233 688888876555444444
No 22
>PRK10413 hydrogenase 2 accessory protein HypG; Provisional
Probab=32.74 E-value=1.3e+02 Score=23.63 Aligned_cols=48 Identities=17% Similarity=0.064 Sum_probs=31.5
Q ss_pred EEEEEEEEeCCCCCceEEEEEEcCCCCcEEEEeCcccccCcccCCCCEEEEEE
Q 024253 110 VGRIIKAWRHEEADSLYVEEVDVGEAEPRIICSGLVKYVPLDFLQDRSVVVLA 162 (270)
Q Consensus 110 VGkIvev~~HP~ADKLyv~kVDvGe~~~RtIvSGl~n~~~~eeL~GkkVvVv~ 162 (270)
-|||+++... .+..-.||++. ..|.|.-.+..-..++--.|++|+|-+
T Consensus 6 P~kVi~i~~~----~~~~A~vd~~G-v~r~V~l~Lv~~~~~~~~vGDyVLVHa 53 (82)
T PRK10413 6 PGQVLAVGED----IHQLAQVEVCG-IKRDVNIALICEGNPADLLGQWVLVHV 53 (82)
T ss_pred ceEEEEECCC----CCcEEEEEcCC-eEEEEEeeeeccCCcccccCCEEEEec
Confidence 4788888533 24567899985 567776666533223445899999854
No 23
>TIGR01644 phage_P2_V phage baseplate assembly protein V. This model describes a family of phage (and bacteriocin) proteins related to the phage P2 V gene product, which forms the small spike at the tip of the tail. Homologs in general are annotated as baseplate assembly protein V. At least one member is encoded within a region of Pectobacterium carotovorum (Erwinia carotovora) described as a bacteriocin, a phage tail-derived module able to kill bacteria closely related to the host strain.
Probab=27.57 E-value=2.7e+02 Score=24.21 Aligned_cols=62 Identities=23% Similarity=0.211 Sum_probs=38.4
Q ss_pred eEEEEEEEEEeCCCCCceEEEEEEcCCC---CcEEEE--eCcc-cccCcccCCCCEEEEEEeeccccccceecceEEeee
Q 024253 108 IRVGRIIKAWRHEEADSLYVEEVDVGEA---EPRIIC--SGLV-KYVPLDFLQDRSVVVLANLKPRNMRGVKSNGMLLAA 181 (270)
Q Consensus 108 IrVGkIvev~~HP~ADKLyv~kVDvGe~---~~RtIv--SGl~-n~~~~eeL~GkkVvVv~NLKprKmrGv~SeGMLL~a 181 (270)
||.|.|.++.... ..++|..|+. ..+..+ .|-. -+.+|+ +|..|+|++ ..|-.++|+++..
T Consensus 9 ir~G~V~~vd~~~-----~~vrv~~~~~~t~wl~~~~~~ag~~~~~~~P~--vGeqv~vl~------~~G~l~~gvvl~g 75 (191)
T TIGR01644 9 IRRGVVAEVDDAA-----ARVRVLQGELLTGWLPWDVERAGNYRHWSAPS--PGEQVVVLS------PGGQRAHGVVLPG 75 (191)
T ss_pred EEEEEEEEEcCCC-----CcEEEecCCccccchhhhhHhhCCCceEcCCC--CCCEEEEEc------CCCCccccEEEee
Confidence 8999999986543 2455555542 222222 1222 244665 899998864 3477889999985
Q ss_pred c
Q 024253 182 S 182 (270)
Q Consensus 182 s 182 (270)
-
T Consensus 76 l 76 (191)
T TIGR01644 76 V 76 (191)
T ss_pred e
Confidence 4
No 24
>PF02470 MCE: mce related protein; InterPro: IPR003399 This domain is found in all 24 mce genes associated with the four mammalian cell entry (mce) operons of Mycobacterium tuberculosis and their homologs in other Actinomycetales [, ]. The archetype (mce1A, Rv0169), was isolated as being necessary for colonisation of, and survival within, the macrophage []. The domain is also found in: Chloroplast Ycf22 and related cyanobacterial homologs, the majority of which have an N-terminal transmembrane domain and are putative ABC transporters. Proteobacterial homologs, which include YrbD, YebT, VpsC and Ttg2C, the latter being annotated as a toluene tolerance proteins, belong to the periplasmic substrate-binding ABC transporter superfamily.
Probab=25.28 E-value=2.5e+02 Score=20.66 Aligned_cols=28 Identities=7% Similarity=0.164 Sum_probs=18.4
Q ss_pred cCeEEEEEEEEEeCCCCCceEEEEEEcCC
Q 024253 106 LDIRVGRIIKAWRHEEADSLYVEEVDVGE 134 (270)
Q Consensus 106 LdIrVGkIvev~~HP~ADKLyv~kVDvGe 134 (270)
-.++||+|.+++.-++.++ ...++.+-+
T Consensus 24 ~Gv~VG~V~~i~l~~~~~~-v~v~~~i~~ 51 (81)
T PF02470_consen 24 RGVEVGKVTSIELDPDGNR-VRVTLRIDP 51 (81)
T ss_pred CCEEEEEEEEEEEcCCCCE-EEEEEEEcC
Confidence 3699999999977444433 555555544
No 25
>PRK15448 ethanolamine catabolic microcompartment shell protein EutN; Provisional
Probab=24.31 E-value=3.9e+02 Score=21.64 Aligned_cols=51 Identities=18% Similarity=0.229 Sum_probs=29.0
Q ss_pred CeEEEEEEEEEeCCCC--CceEEEE-EEcCCC--CcEEEEeCcccccCcccCCCCEEEEEE
Q 024253 107 DIRVGRIIKAWRHEEA--DSLYVEE-VDVGEA--EPRIICSGLVKYVPLDFLQDRSVVVLA 162 (270)
Q Consensus 107 dIrVGkIvev~~HP~A--DKLyv~k-VDvGe~--~~RtIvSGl~n~~~~eeL~GkkVvVv~ 162 (270)
--++|.|++-.+||.- .||.+.+ +|.... ....|+--....- .|.+|++..
T Consensus 4 akViG~vvaT~K~~~L~G~kLliVq~~~~~~~~~g~~~VAvD~vGAG-----~Ge~Vlv~~ 59 (95)
T PRK15448 4 AVVTGQIVCTVRHHGLAHDKLLMVEMIDPQGNPDGQCAVAIDNIGAG-----TGEWVLLVS 59 (95)
T ss_pred EEEEeEEEEeeecCCCCCcEEEEEEECccCCCcCCCEEEEEECCCCC-----CCCEEEEeC
Confidence 3589999999999964 4566666 332211 1223333333333 566776654
No 26
>PRK04313 30S ribosomal protein S4e; Validated
Probab=22.56 E-value=1.7e+02 Score=27.43 Aligned_cols=33 Identities=15% Similarity=0.151 Sum_probs=21.9
Q ss_pred EEEEEEEEEeCC-CCCceEEEEEEcCCCCcEEEEe
Q 024253 109 RVGRIIKAWRHE-EADSLYVEEVDVGEAEPRIICS 142 (270)
Q Consensus 109 rVGkIvev~~HP-~ADKLyv~kVDvGe~~~RtIvS 142 (270)
|||+|.++++|+ .+.++..++ |...++..|+.+
T Consensus 188 riG~I~~i~~~~~~~~~~V~i~-d~~G~~F~T~~~ 221 (237)
T PRK04313 188 EIGKIKEIEVTKSSKPNIVTLE-DKDGEKFETILD 221 (237)
T ss_pred eEEEEEEEEEccCCCCcEEEEE-cCCCCEEEEEee
Confidence 789999999999 455666666 543334455543
Done!