Query psy2025
Match_columns 213
No_of_seqs 185 out of 1196
Neff 5.1
Searched_HMMs 46136
Date Fri Aug 16 22:16:51 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy2025.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/2025hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG2241|consensus 100.0 1.1E-50 2.5E-55 355.7 13.2 166 19-189 84-255 (255)
2 PLN02610 probable methionyl-tR 100.0 5.9E-39 1.3E-43 319.2 16.8 158 27-189 638-801 (801)
3 cd02798 tRNA_bind_CsaA tRNA-bi 99.9 9.7E-26 2.1E-30 175.4 9.0 88 36-126 19-107 (107)
4 TIGR02222 chap_CsaA export-rel 99.9 5.4E-25 1.2E-29 171.6 10.4 89 36-127 17-107 (107)
5 PRK10089 tRNA-binding protein; 99.9 1.2E-24 2.6E-29 170.6 10.1 89 36-127 22-112 (112)
6 PF01588 tRNA_bind: Putative t 99.9 4.9E-24 1.1E-28 162.0 11.5 94 27-125 2-95 (95)
7 cd02799 tRNA_bind_EMAP-II_like 99.9 1.2E-23 2.6E-28 162.4 11.6 90 36-127 16-105 (105)
8 cd02153 tRNA_bindingDomain The 99.9 5.7E-23 1.2E-27 156.2 11.8 97 28-126 3-99 (99)
9 cd02800 tRNA_bind_EcMetRS_like 99.9 1.1E-22 2.3E-27 156.9 10.6 87 36-127 19-105 (105)
10 COG0073 ARC1 EMAP domain [Gene 99.9 3.7E-22 7.9E-27 158.9 11.4 102 23-126 18-123 (123)
11 TIGR00399 metG_C_term methiony 99.9 2.3E-21 4.9E-26 157.3 11.3 87 36-126 50-136 (137)
12 PRK12267 methionyl-tRNA synthe 99.8 3.1E-19 6.6E-24 174.1 9.6 96 28-127 547-648 (648)
13 cd02796 tRNA_bind_bactPheRS tR 99.8 2.3E-18 5.1E-23 131.8 9.1 92 28-126 3-103 (103)
14 PRK00133 metG methionyl-tRNA s 99.7 3.6E-18 7.7E-23 167.6 9.6 94 29-127 573-673 (673)
15 TIGR00472 pheT_bact phenylalan 99.5 1.4E-14 3E-19 144.9 9.7 101 18-127 38-149 (798)
16 PRK00629 pheT phenylalanyl-tRN 99.5 8.8E-14 1.9E-18 139.1 9.7 98 19-127 38-147 (791)
17 TIGR02306 RNA_lig_DRB0094 RNA 98.8 1.7E-08 3.6E-13 93.2 8.4 66 27-104 4-97 (341)
18 COG2517 Predicted RNA-binding 98.7 1.4E-08 3E-13 86.9 5.7 62 36-104 130-191 (219)
19 PHA02142 putative RNA ligase 84.5 2.8 6E-05 39.7 6.4 21 83-103 83-103 (366)
20 PTZ00385 lysyl-tRNA synthetase 84.4 0.17 3.6E-06 51.0 -1.9 49 37-88 610-659 (659)
21 PF10571 UPF0547: Uncharacteri 58.1 4.2 9.2E-05 24.2 0.5 10 1-10 16-25 (26)
22 PF13894 zf-C2H2_4: C2H2-type 54.2 5.7 0.00012 21.2 0.6 10 1-10 2-11 (24)
23 PF09723 Zn-ribbon_8: Zinc rib 52.8 17 0.00037 23.5 2.7 16 2-17 8-23 (42)
24 smart00834 CxxC_CXXC_SSSS Puta 49.8 12 0.00026 23.3 1.6 14 1-14 7-20 (41)
25 TIGR02605 CxxC_CxxC_SSSS putat 49.5 12 0.00026 24.7 1.7 14 1-14 7-20 (52)
26 PF14353 CpXC: CpXC protein 48.9 8 0.00017 30.3 0.8 10 2-11 41-50 (128)
27 PF14255 Cys_rich_CPXG: Cystei 47.9 15 0.00032 25.4 1.9 14 1-14 2-15 (52)
28 PF00096 zf-C2H2: Zinc finger, 44.4 8.4 0.00018 21.0 0.2 10 1-10 2-11 (23)
29 PF13465 zf-H2C2_2: Zinc-finge 40.8 13 0.00028 21.5 0.7 9 2-10 17-25 (26)
30 PRK09678 DNA-binding transcrip 39.6 25 0.00054 25.9 2.2 22 2-23 30-53 (72)
31 PHA00616 hypothetical protein 38.5 7.6 0.00017 26.1 -0.6 10 1-10 3-12 (44)
32 smart00355 ZnF_C2H2 zinc finge 37.4 13 0.00027 19.8 0.2 10 1-10 2-11 (26)
33 PF13912 zf-C2H2_6: C2H2-type 35.0 17 0.00037 20.5 0.6 9 2-10 4-12 (27)
34 smart00659 RPOLCX RNA polymera 32.4 25 0.00055 23.3 1.1 12 1-12 4-15 (44)
35 PF13913 zf-C2HC_2: zinc-finge 30.0 28 0.00061 20.2 0.9 10 1-10 4-13 (25)
36 PF04606 Ogr_Delta: Ogr/Delta- 29.1 40 0.00086 22.3 1.6 11 4-14 32-42 (47)
37 PF07292 NID: Nmi/IFP 35 domai 26.6 2.7E+02 0.0058 21.2 5.9 53 28-81 25-77 (88)
38 PF13408 Zn_ribbon_recom: Reco 25.1 40 0.00087 22.1 1.1 10 2-11 8-17 (58)
39 TIGR02098 MJ0042_CXXC MJ0042 f 25.1 47 0.001 20.5 1.4 10 2-11 5-14 (38)
40 TIGR03829 YokU_near_AblA uncha 21.0 70 0.0015 24.6 1.8 24 1-24 37-71 (89)
41 PF03604 DNA_RNApol_7kD: DNA d 20.9 33 0.00072 21.4 0.0 10 1-10 2-11 (32)
42 PF14311 DUF4379: Domain of un 20.4 42 0.00091 22.6 0.5 16 2-17 31-46 (55)
No 1
>KOG2241|consensus
Probab=100.00 E-value=1.1e-50 Score=355.70 Aligned_cols=166 Identities=36% Similarity=0.576 Sum_probs=154.1
Q ss_pred CCCcCCceeeEEEEEEEEe------ecCCCCceEEEEEEcCCCCeEEEEeCCCccccchhcCCCEEEEEecccceeecce
Q psy2025 19 LGNALAWHVEDCDVDAQMH------TIERQKEEAKLRLQIGEGQDRLIVSGLANYMTAFQLYNTSVVVVCNLKPAKFRGI 92 (213)
Q Consensus 19 ~~~~~~~~v~~~~ldirV~------~hp~adkLyv~~VDiG~~~~rqIVSGl~n~~~~eeL~G~kVvvv~NLKprKmrGv 92 (213)
.+++-.-....+.||+||+ +||++|+||+++||+|+.++|||||||++|.+.|+|+||+|+|+|||||+||||+
T Consensus 84 ~~~~~~~~p~~~~LDiRvG~Ivka~kHpdADsLYve~IdvgE~~PRTVvSGLvk~vpleemq~R~VvvlcNLKPakmRgv 163 (255)
T KOG2241|consen 84 RGPMMEAGPDVSLLDIRVGKIVKAGKHPDADSLYVEEIDVGEAEPRTVVSGLVKHVPLEEMQNRLVVVLCNLKPAKMRGV 163 (255)
T ss_pred cCCcccCCCCcceeeEEEeEEEEecccCCcceeEEEEeeecccccceeehhhHhhCCHHHHhCCeEEEEecccccccccc
Confidence 3444445558889999977 5799999999999999999999999999999999999999999999999999999
Q ss_pred ecceEEeeeecCCCCCCcEEEEcCCCCCCCCceEEeCCCCCCCCCCCCCCccchhhhcCceEEcCCceEEECCeEEEEcC
Q psy2025 93 LSQGMILCASETYNNVTRVEVVRPPENCTAGQRVFIHNRTGIPDKMLHPKEMVWPKIQVDLKSDDNGHIRWKGHRLETVN 172 (213)
Q Consensus 93 ~SeGMLLsa~e~~~~~~~V~lL~pp~~a~~G~rV~~~g~~~~P~~~l~~Kkk~we~i~~~L~t~~~g~a~ykg~~l~t~~ 172 (213)
+|+||+|||+++ ++ ..||+|.||.++.+|+||+|+||+++|+++||||||+||++|+||+|+++|+|+|||.+|+|+.
T Consensus 164 ~S~gMvlcaSs~-d~-~~VE~l~pP~gs~pGdRv~fegfegePd~~LnPKKKiwE~iqpdl~t~~~~va~yKg~~~~~~~ 241 (255)
T KOG2241|consen 164 KSQGMVLCASSP-DK-SVVEPLAPPAGSKPGDRVTFEGFEGEPDKELNPKKKIWEKIQPDLKTNEEGVATYKGAPFETKK 241 (255)
T ss_pred ccceeEEecCCc-cc-ceeeeccCCCCCCCCCeeeecCCCCCcchhcChhhhhHHHhCCCcccccceEEEecCCceeccC
Confidence 999999999975 43 6799999999999999999999999999999999999999999999999999999999999999
Q ss_pred eeEEeeecCCCCCceEE
Q psy2025 173 AQRAAVDLKSDDNGHIR 189 (213)
Q Consensus 173 g~~~~~~l~~~~~g~i~ 189 (213)
|.|+++||+ ||+|+
T Consensus 242 G~~~a~ti~---n~~Ik 255 (255)
T KOG2241|consen 242 GVCTAQTIS---NGGIK 255 (255)
T ss_pred ceEEEeecc---CCCCC
Confidence 999999988 77764
No 2
>PLN02610 probable methionyl-tRNA synthetase
Probab=100.00 E-value=5.9e-39 Score=319.21 Aligned_cols=158 Identities=35% Similarity=0.582 Sum_probs=147.2
Q ss_pred eeEEEEEEEEe------ecCCCCceEEEEEEcCCCCeEEEEeCCCccccchhcCCCEEEEEecccceeecceecceEEee
Q psy2025 27 VEDCDVDAQMH------TIERQKEEAKLRLQIGEGQDRLIVSGLANYMTAFQLYNTSVVVVCNLKPAKFRGILSQGMILC 100 (213)
Q Consensus 27 v~~~~ldirV~------~hp~adkLyv~~VDiG~~~~rqIVSGl~n~~~~eeL~G~kVvvv~NLKprKmrGv~SeGMLLs 100 (213)
.++..+|+||+ +||++|+||+++||+|++++||||||+++++++|+|+|++|++++||||+||||++|+|||||
T Consensus 638 ~~~~~~dlrVg~I~~~~~hp~adkL~~~~Vd~G~~~~r~ivsG~~~~~~~e~l~G~~Vvv~~nlkp~klrGv~S~GMll~ 717 (801)
T PLN02610 638 IDVSRLDIRVGLIVKAEKHPDADSLYVEEIDVGEGAPRTVVSGLVKYIPLEEMQNRKVCVLCNLKPAAMRGIKSQAMVLA 717 (801)
T ss_pred ccceeeeeEEEEEEEEEeecCCCcceEEEEEeCCCceEEEEeCccccCChHHhCCCEEEEEEEecccccCCcccceeEEe
Confidence 47888999976 579999999999999987799999999999999999999999999999999999999999999
Q ss_pred eecCCCCCCcEEEEcCCCCCCCCceEEeCCCCCCCCCCCCCCccchhhhcCceEEcCCceEEECCeEEEEcCeeEEeeec
Q psy2025 101 ASETYNNVTRVEVVRPPENCTAGQRVFIHNRTGIPDKMLHPKEMVWPKIQVDLKSDDNGHIRWKGHRLETVNAQRAAVDL 180 (213)
Q Consensus 101 a~e~~~~~~~V~lL~pp~~a~~G~rV~~~g~~~~P~~~l~~Kkk~we~i~~~L~t~~~g~a~ykg~~l~t~~g~~~~~~l 180 (213)
+++. ++ ++++++.||+++++|++|.|+|++++|++++++|+|+||+++++|+|+++|+|+|+|.+|+|++|+|++++|
T Consensus 718 a~~~-~~-~~~~ll~~~~~~~~G~~v~~~~~~~~p~~~~~~k~k~~~~~~~~l~~~~~~~~~~~~~~~~~~~g~~~~~~~ 795 (801)
T PLN02610 718 ASNS-DH-TKVELVEPPESAAVGERVTFPGFEGEPDDVLNPKKKVWETLQPDLHTNSELVACYKDVPFTTSAGVCKVASI 795 (801)
T ss_pred cccC-CC-CceEEEeCCCCCCCCCEEEeCCCCCCcccccCcccchHHHhCCCCEECCceEEEECCEEEEecCCCeEcccC
Confidence 9863 32 468899999999999999999999999999999999999999999999999999999999999999999877
Q ss_pred CCCCCceEE
Q psy2025 181 KSDDNGHIR 189 (213)
Q Consensus 181 ~~~~~g~i~ 189 (213)
+ ||.|+
T Consensus 796 ~---~~~i~ 801 (801)
T PLN02610 796 A---NGSIR 801 (801)
T ss_pred C---CCEeC
Confidence 6 88874
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=99.93 E-value=9.7e-26 Score=175.43 Aligned_cols=88 Identities=24% Similarity=0.387 Sum_probs=80.9
Q ss_pred EeecCCC-CceEEEEEEcCCCCeEEEEeCCCccccchhcCCCEEEEEecccceeecceecceEEeeeecCCCCCCcEEEE
Q psy2025 36 MHTIERQ-KEEAKLRLQIGEGQDRLIVSGLANYMTAFQLYNTSVVVVCNLKPAKFRGILSQGMILCASETYNNVTRVEVV 114 (213)
Q Consensus 36 V~~hp~a-dkLyv~~VDiG~~~~rqIVSGl~n~~~~eeL~G~kVvvv~NLKprKmrGv~SeGMLLsa~e~~~~~~~V~lL 114 (213)
+.+||++ ++||+++||+|++++|||+||+++||++|+|+|++|++++||||+||||+.|||||||+++.+ +.+.++
T Consensus 19 ~~~~p~a~~kL~~~~Vd~G~~~~r~ivsg~~~~~~~e~l~gk~v~~v~Nlkp~k~~G~~S~gm~l~~~~~~---~~~~~~ 95 (107)
T cd02798 19 VEDFPEARKPAYKLKVDFGEIGVKQSSAQITKYYKPEELIGRQVVAVVNFPPKQIAGVLSEVLVLGADDEG---GEVVLL 95 (107)
T ss_pred EEECCCcccceEEEEEEecCccceehhhhhhhcCCHHHhcCCcEEEEeCCCCceecceeccEEEEEEEcCC---CcEEEe
Confidence 3568999 999999999998678999999999999999999999999999999999999999999998642 568899
Q ss_pred cCCCCCCCCceE
Q psy2025 115 RPPENCTAGQRV 126 (213)
Q Consensus 115 ~pp~~a~~G~rV 126 (213)
.||.++++|+||
T Consensus 96 ~~~~~~~~G~~i 107 (107)
T cd02798 96 VPDREVPNGAKV 107 (107)
T ss_pred cCCCCCCCcCCC
Confidence 999999999986
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=99.92 E-value=5.4e-25 Score=171.57 Aligned_cols=89 Identities=19% Similarity=0.319 Sum_probs=80.4
Q ss_pred EeecCCCCc-eEEEEEEcCCC-CeEEEEeCCCccccchhcCCCEEEEEecccceeecceecceEEeeeecCCCCCCcEEE
Q psy2025 36 MHTIERQKE-EAKLRLQIGEG-QDRLIVSGLANYMTAFQLYNTSVVVVCNLKPAKFRGILSQGMILCASETYNNVTRVEV 113 (213)
Q Consensus 36 V~~hp~adk-Lyv~~VDiG~~-~~rqIVSGl~n~~~~eeL~G~kVvvv~NLKprKmrGv~SeGMLLsa~e~~~~~~~V~l 113 (213)
+.+||++++ ||+++||+|++ +.|||+||++.+|++|+|+|++|++++||||+||||+.|||||||+++.+ +.+.+
T Consensus 17 ~~~~p~a~k~L~~l~vd~G~~~~~r~ivsgi~~~~~~e~L~gk~v~~v~Nl~p~k~~G~~S~gMil~~~~~~---~~~~l 93 (107)
T TIGR02222 17 AEPFPEARKPAYKLWVDFGTEIGVKQSSAQITKLYKPEDLIGRLVVAVVNFPPKQIAGFLSEVLVLGVIDEQ---GRVVL 93 (107)
T ss_pred EeecCCcccceeEEEEEecCcCCcceEehhhhhhCCHHHhCCCeEEEEECCCCceeCCccccEEEEEEECCC---CeEEE
Confidence 356899998 99999999964 46999999999999999999999999999999999999999999998642 45889
Q ss_pred EcCCCCCCCCceEE
Q psy2025 114 VRPPENCTAGQRVF 127 (213)
Q Consensus 114 L~pp~~a~~G~rV~ 127 (213)
+.|+.++++|++|+
T Consensus 94 ~~~~~~~~~G~~v~ 107 (107)
T TIGR02222 94 LQPDRPVPNGTKIA 107 (107)
T ss_pred ecCCCCCCCcCCcC
Confidence 99999999999985
No 5
>PRK10089 tRNA-binding protein; Provisional
Probab=99.91 E-value=1.2e-24 Score=170.63 Aligned_cols=89 Identities=19% Similarity=0.308 Sum_probs=80.9
Q ss_pred EeecCCCCce-EEEEEEcCCC-CeEEEEeCCCccccchhcCCCEEEEEecccceeecceecceEEeeeecCCCCCCcEEE
Q psy2025 36 MHTIERQKEE-AKLRLQIGEG-QDRLIVSGLANYMTAFQLYNTSVVVVCNLKPAKFRGILSQGMILCASETYNNVTRVEV 113 (213)
Q Consensus 36 V~~hp~adkL-yv~~VDiG~~-~~rqIVSGl~n~~~~eeL~G~kVvvv~NLKprKmrGv~SeGMLLsa~e~~~~~~~V~l 113 (213)
+.+||++++| |+++||+|++ +.|||+||++.+|++|+|+|++|++++||||+||||+.|||||||+++.+ +.+++
T Consensus 22 ~~~~p~a~kL~~~l~vd~G~~~~~r~i~sgl~~~~~~eel~gk~v~~v~Nlkp~~~~G~~S~gmil~~~~~~---~~~~l 98 (112)
T PRK10089 22 AEPFPEARKPAYKLWIDFGEEIGVKQSSAQITPHYTPEELIGKQVVAVVNFPPKQIAGFMSEVLVLGFEDED---GEVVL 98 (112)
T ss_pred EEEcCCcCcceEEEEEEecCccCcceEehhhcccCCHHHHccCcEEEEECCCcceecCccccEEEEEEEcCC---CeEEE
Confidence 4568999999 9999999985 48999999999999999999999999999999999999999999998642 35889
Q ss_pred EcCCCCCCCCceEE
Q psy2025 114 VRPPENCTAGQRVF 127 (213)
Q Consensus 114 L~pp~~a~~G~rV~ 127 (213)
+.|+.++++|+||+
T Consensus 99 ~~p~~~~~~G~~i~ 112 (112)
T PRK10089 99 LTPDRPVPNGVKLV 112 (112)
T ss_pred ecCCCCCCCcCCcC
Confidence 99999999999974
No 6
>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=99.91 E-value=4.9e-24 Score=161.98 Aligned_cols=94 Identities=34% Similarity=0.454 Sum_probs=81.2
Q ss_pred eeEEEEEEEEeecCCCCceEEEEEEcCCCCeEEEEeCCCccccchhcCCCEEEEEecccceeecceecceEEeeeecCCC
Q psy2025 27 VEDCDVDAQMHTIERQKEEAKLRLQIGEGQDRLIVSGLANYMTAFQLYNTSVVVVCNLKPAKFRGILSQGMILCASETYN 106 (213)
Q Consensus 27 v~~~~ldirV~~hp~adkLyv~~VDiG~~~~rqIVSGl~n~~~~eeL~G~kVvvv~NLKprKmrGv~SeGMLLsa~e~~~ 106 (213)
+.+.++ .+++||++||||+++||+|+++ |||+||++|+++++++.|+++++++|+++++|+|+.|||||||+++.++
T Consensus 2 ~vg~I~--~~~~hp~sdkL~~~~Vd~G~~~-~~Ivsg~~n~~~~~~lv~~~~~~v~n~~~~~i~Gv~SeGMlls~~e~~~ 78 (95)
T PF01588_consen 2 RVGKIL--EVEPHPNSDKLYVLKVDIGEEE-RQIVSGAKNVYEPEVLVGKKVVVVANLKPRKIRGVESEGMLLSASELGD 78 (95)
T ss_dssp EEEEEE--EEEEETTSSSEEEEEEESSSSE-EEEEESCTTTSTHHHHTTTEEEEETTSCBEEETTEEEESEE-EEECSTS
T ss_pred EEEEEE--EEEECCCCCEEEEEEEEeCCce-EEEEeccccccChhhhcceeEEEEEccCCcEEEeccCCEEEEEeeccCC
Confidence 355666 4556899999999999999965 9999999999999999999999999999999999999999999998322
Q ss_pred CCCcEEEEcCCCCCCCCce
Q psy2025 107 NVTRVEVVRPPENCTAGQR 125 (213)
Q Consensus 107 ~~~~V~lL~pp~~a~~G~r 125 (213)
....++.+|+++++|+|
T Consensus 79 --~~~~ll~~~~~~~~G~~ 95 (95)
T PF01588_consen 79 --GSVGLLVLPDDAPPGED 95 (95)
T ss_dssp --SEEEEEEESSTS-TTSB
T ss_pred --CCEEEEECCCCCCCCCC
Confidence 45678899999999986
No 7
>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=99.91 E-value=1.2e-23 Score=162.38 Aligned_cols=90 Identities=41% Similarity=0.684 Sum_probs=81.4
Q ss_pred EeecCCCCceEEEEEEcCCCCeEEEEeCCCccccchhcCCCEEEEEecccceeecceecceEEeeeecCCCCCCcEEEEc
Q psy2025 36 MHTIERQKEEAKLRLQIGEGQDRLIVSGLANYMTAFQLYNTSVVVVCNLKPAKFRGILSQGMILCASETYNNVTRVEVVR 115 (213)
Q Consensus 36 V~~hp~adkLyv~~VDiG~~~~rqIVSGl~n~~~~eeL~G~kVvvv~NLKprKmrGv~SeGMLLsa~e~~~~~~~V~lL~ 115 (213)
+.+||++++||+++||+|.++++||+||+.+++++++++|++|++++||+|++|+|+.||||+||+.+.+. +.+.++.
T Consensus 16 ~~~~p~s~kL~~l~Vd~G~~~~~~Ivsg~~~~~~~~~~~g~~v~~l~nl~~~~~~G~~S~GMll~~~~~~~--~~~~~~~ 93 (105)
T cd02799 16 VRKHPDADSLYVEEIDLGEEEPRTIVSGLVKFVPLEQMQNRLVVVLCNLKPRKMRGVKSQGMVLCASNADH--EKVELLE 93 (105)
T ss_pred EEecCCCCccEEEEEEeCCCcEEEEEcCccccCCHHHhCCCEEEEEEeeccceECCeeeceEEEEeccCCC--CcEEEEE
Confidence 35689999999999999977789999999999999999999999999999999999999999999887431 3577899
Q ss_pred CCCCCCCCceEE
Q psy2025 116 PPENCTAGQRVF 127 (213)
Q Consensus 116 pp~~a~~G~rV~ 127 (213)
||.++++|++|+
T Consensus 94 ~~~~~~~G~~i~ 105 (105)
T cd02799 94 PPEGAKPGERVT 105 (105)
T ss_pred CCCCCCCCCEeC
Confidence 999999999984
No 8
>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=99.90 E-value=5.7e-23 Score=156.18 Aligned_cols=97 Identities=35% Similarity=0.468 Sum_probs=84.5
Q ss_pred eEEEEEEEEeecCCCCceEEEEEEcCCCCeEEEEeCCCccccchhcCCCEEEEEecccceeecceecceEEeeeecCCCC
Q psy2025 28 EDCDVDAQMHTIERQKEEAKLRLQIGEGQDRLIVSGLANYMTAFQLYNTSVVVVCNLKPAKFRGILSQGMILCASETYNN 107 (213)
Q Consensus 28 ~~~~ldirV~~hp~adkLyv~~VDiG~~~~rqIVSGl~n~~~~eeL~G~kVvvv~NLKprKmrGv~SeGMLLsa~e~~~~ 107 (213)
++.+++ +.+||++++||+++||+|++..++|+||+.++|++++++|++|++++||+|++|+|+.|+|||||+++.+..
T Consensus 3 vg~I~~--~~~~p~~~kL~~~~vd~G~~~~~~ivsg~~~~~~~~~~~g~~v~~~~~l~~~~~~g~~S~GMl~s~~~~g~~ 80 (99)
T cd02153 3 VGKIVE--AEPHPNADKLYVLKVDIGEEKPRQIVSGAANVYPPEELVGKKVVVAVNLKPKKLRGVESEGMLLSAEELGLE 80 (99)
T ss_pred EEEEEE--EEECCCCCCCEEEEEEeCCCcEEEEEeCCcccCChHHhCCCEEEEEEecccccCCCeecccEEeeccccCCC
Confidence 456664 478999999999999999767899999999999999999999999999999999999999999999996321
Q ss_pred CCcEEEEcCCCCCCCCceE
Q psy2025 108 VTRVEVVRPPENCTAGQRV 126 (213)
Q Consensus 108 ~~~V~lL~pp~~a~~G~rV 126 (213)
.+...++.+|.++++|+++
T Consensus 81 ~~~~~i~~~~~~~~~G~~~ 99 (99)
T cd02153 81 EGSVGILELPEDAPVGDRI 99 (99)
T ss_pred CCceEEEECCCCCCCCCcC
Confidence 1345678888889999875
No 9
>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=99.89 E-value=1.1e-22 Score=156.89 Aligned_cols=87 Identities=40% Similarity=0.656 Sum_probs=80.4
Q ss_pred EeecCCCCceEEEEEEcCCCCeEEEEeCCCccccchhcCCCEEEEEecccceeecceecceEEeeeecCCCCCCcEEEEc
Q psy2025 36 MHTIERQKEEAKLRLQIGEGQDRLIVSGLANYMTAFQLYNTSVVVVCNLKPAKFRGILSQGMILCASETYNNVTRVEVVR 115 (213)
Q Consensus 36 V~~hp~adkLyv~~VDiG~~~~rqIVSGl~n~~~~eeL~G~kVvvv~NLKprKmrGv~SeGMLLsa~e~~~~~~~V~lL~ 115 (213)
+.+||++++||+++||+|. ++++|+||++++|.++++.|+++++++||+|++|||+.|+|||||+.+. +.++++.
T Consensus 19 ~~~~p~a~kL~~~~vd~G~-~~~~iv~g~~~~~~~~~l~g~~v~~~~nl~~~~~~Gv~S~GMl~s~~~~----~~~~l~~ 93 (105)
T cd02800 19 AERVEGSDKLLKLTVDLGE-EERQIVSGIAKFYPPEELVGKKVVVVANLKPRKLRGVESQGMILAAEDG----GKLKLLT 93 (105)
T ss_pred EEecCCCCcceEEEEEeCC-eEEEEEeCcccccCHhHhccCceEeEeeECCccCCCeEeceEEEEecCC----CeEEEEe
Confidence 4578999999999999998 7899999999999999999999999999999999999999999999874 4588999
Q ss_pred CCCCCCCCceEE
Q psy2025 116 PPENCTAGQRVF 127 (213)
Q Consensus 116 pp~~a~~G~rV~ 127 (213)
||.++++|+||.
T Consensus 94 ~~~~~~~G~~i~ 105 (105)
T cd02800 94 PDEEVEPGSRVS 105 (105)
T ss_pred CCCCCCCcCCcC
Confidence 999999999973
No 10
>COG0073 ARC1 EMAP domain [General function prediction only]
Probab=99.88 E-value=3.7e-22 Score=158.91 Aligned_cols=102 Identities=28% Similarity=0.358 Sum_probs=85.3
Q ss_pred CCceeeEEEEEEEEeecCCCCceEEEEEEcCCC-CeEEEEeCCCccccchhcCCCEEEEEec---ccceeecceecceEE
Q psy2025 23 LAWHVEDCDVDAQMHTIERQKEEAKLRLQIGEG-QDRLIVSGLANYMTAFQLYNTSVVVVCN---LKPAKFRGILSQGMI 98 (213)
Q Consensus 23 ~~~~v~~~~ldirV~~hp~adkLyv~~VDiG~~-~~rqIVSGl~n~~~~eeL~G~kVvvv~N---LKprKmrGv~SeGML 98 (213)
...++.+.+++ +.+||+||||++++||+|++ ++|||+||++|+|+.+++.++++.+++| |||+||||+.|+|||
T Consensus 18 ~~~l~vg~V~~--~~~~p~adkL~~~~Vd~G~~~~~~qiv~G~~n~~~~~~vv~a~v~~v~~~~~ikp~klrG~~S~GMi 95 (123)
T COG0073 18 KVDLRVGKVVE--AEPHPNADKLLVLKVDLGDEKEPRQIVCGAPNFYAGEKLVGAKVGAVLNGGKLKPAKLRGVESEGML 95 (123)
T ss_pred cCCeEEEEEEE--eEECCCCCeeEEEEEEcCCCCcEEEEEcCCccccCCceeeeeeEEEEeCCCcccceeecCcccceEE
Confidence 34455555553 45689999999999999975 4999999999999999999999999999 999999999999999
Q ss_pred eeeecCCCCCCcEEEEcCCCCCCCCceE
Q psy2025 99 LCASETYNNVTRVEVVRPPENCTAGQRV 126 (213)
Q Consensus 99 Lsa~e~~~~~~~V~lL~pp~~a~~G~rV 126 (213)
||+++.+.......|+.+|+++++|+++
T Consensus 96 cs~~e~~~~~~~~~il~~~~~~~~g~~~ 123 (123)
T COG0073 96 LSAEELGLSDENVGILTLDEGVPPGTKV 123 (123)
T ss_pred EEcccCCCccccceEEeCCCCCCCCCCC
Confidence 9999864321135578889999999864
No 11
>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=99.86 E-value=2.3e-21 Score=157.28 Aligned_cols=87 Identities=39% Similarity=0.638 Sum_probs=79.8
Q ss_pred EeecCCCCceEEEEEEcCCCCeEEEEeCCCccccchhcCCCEEEEEecccceeecceecceEEeeeecCCCCCCcEEEEc
Q psy2025 36 MHTIERQKEEAKLRLQIGEGQDRLIVSGLANYMTAFQLYNTSVVVVCNLKPAKFRGILSQGMILCASETYNNVTRVEVVR 115 (213)
Q Consensus 36 V~~hp~adkLyv~~VDiG~~~~rqIVSGl~n~~~~eeL~G~kVvvv~NLKprKmrGv~SeGMLLsa~e~~~~~~~V~lL~ 115 (213)
+.+||++++||+++||+|.+ .|||+||+..+|.+++++|++|++++||+|++|||+.|+|||||+++.+ +.+.++.
T Consensus 50 ve~hp~adkL~v~~Vd~G~~-~~qIvsg~~~~~~~~~l~G~~v~~~~nlkp~k~~Gv~S~GMlls~~~~~---~~~~l~~ 125 (137)
T TIGR00399 50 AERVEKSDKLLKLKLDLGDE-KRQIVSGIAGYYTPEELVGKKVIVVANLKPAKLFGVKSEGMILAAEDDG---KVLFLLS 125 (137)
T ss_pred EeecCCCCcceEEEEEeCCc-eEEEEeCcccCcCHhHcCCCEEEeeEEecCccCCCeEeccEEEEEecCC---CeEEEec
Confidence 45789999999999999974 6999999999999999999999999999999999999999999998742 3588999
Q ss_pred CCCCCCCCceE
Q psy2025 116 PPENCTAGQRV 126 (213)
Q Consensus 116 pp~~a~~G~rV 126 (213)
||.++++|++|
T Consensus 126 ~~~~~~~G~~i 136 (137)
T TIGR00399 126 PDQEAIAGERI 136 (137)
T ss_pred CCCCCCCcCCc
Confidence 99999999997
No 12
>PRK12267 methionyl-tRNA synthetase; Reviewed
Probab=99.79 E-value=3.1e-19 Score=174.07 Aligned_cols=96 Identities=34% Similarity=0.517 Sum_probs=84.4
Q ss_pred eEEEEEEEEe------ecCCCCceEEEEEEcCCCCeEEEEeCCCccccchhcCCCEEEEEecccceeecceecceEEeee
Q psy2025 28 EDCDVDAQMH------TIERQKEEAKLRLQIGEGQDRLIVSGLANYMTAFQLYNTSVVVVCNLKPAKFRGILSQGMILCA 101 (213)
Q Consensus 28 ~~~~ldirV~------~hp~adkLyv~~VDiG~~~~rqIVSGl~n~~~~eeL~G~kVvvv~NLKprKmrGv~SeGMLLsa 101 (213)
++..+|+||+ +||++++||+++||+|++++|||+||+++++++++++|++|++++||+|++|||+.|+|||||+
T Consensus 547 ~f~~~d~~vg~i~~~~~~p~adkL~~~~vd~G~~~~~~iv~g~~~~~~~~~l~g~~v~~~~nl~~~~~~Gv~S~gMl~s~ 626 (648)
T PRK12267 547 DFDKVELRVAEVLEAEKVEKSDKLLKLQVDLGEEEPRQIVSGIAKFYPPEELVGKKVVVVANLKPAKLMGEESQGMILAA 626 (648)
T ss_pred hhhhhceeEEEEEeeccCCCCCccceEEEEeCCCceEEEEeCCcccCCHhHhCCCeEEEEEeecccccCCcccceEEEEe
Confidence 4555666655 5799999999999999777899999999999999999999999999999999999999999999
Q ss_pred ecCCCCCCcEEEEcCCCCCCCCceEE
Q psy2025 102 SETYNNVTRVEVVRPPENCTAGQRVF 127 (213)
Q Consensus 102 ~e~~~~~~~V~lL~pp~~a~~G~rV~ 127 (213)
++ + +.+.++.+|+++++|+++.
T Consensus 627 ~~-~---~~~~l~~~~~~~~~G~~~~ 648 (648)
T PRK12267 627 ED-D---GKLTLLTVDKEVPNGSKVK 648 (648)
T ss_pred cc-C---CeEEEEeCCCCCCCcCCCC
Confidence 88 2 3356888888999999873
No 13
>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=99.76 E-value=2.3e-18 Score=131.82 Aligned_cols=92 Identities=24% Similarity=0.324 Sum_probs=75.3
Q ss_pred eEEEEEEEEeecCCCCceEEEEEEcCCCCeEEEEeCCCccccchhcCCCEEEEEe---------cccceeecceecceEE
Q psy2025 28 EDCDVDAQMHTIERQKEEAKLRLQIGEGQDRLIVSGLANYMTAFQLYNTSVVVVC---------NLKPAKFRGILSQGMI 98 (213)
Q Consensus 28 ~~~~ldirV~~hp~adkLyv~~VDiG~~~~rqIVSGl~n~~~~eeL~G~kVvvv~---------NLKprKmrGv~SeGML 98 (213)
.+.+++ +.+||++++|++++||+|+++.+||+||+.++. .|++|+++. ||++++|||+.|+|||
T Consensus 3 vg~I~~--~~~hp~~~kL~~~~vd~g~~~~~~Iv~~~~n~~-----~g~~vvv~~~gs~l~~~~~i~~~~~~G~~S~GMl 75 (103)
T cd02796 3 VGKVLE--VEPHPNADKLNVCKVDIGENKPLQIVCGAPNVR-----AGDKVVVALPGAVLPGGLKIKKRKLRGVESEGML 75 (103)
T ss_pred EEEEEE--EEecCCCCceEEEEEEeCCCcEEEEEcCccHhh-----cCCEEEEEecCCCcCCCceEcceeeCCcccchhC
Confidence 455554 477999999999999999767999999999994 899999987 8999999999999999
Q ss_pred eeeecCCCCCCcEEEEcCCCCCCCCceE
Q psy2025 99 LCASETYNNVTRVEVVRPPENCTAGQRV 126 (213)
Q Consensus 99 Lsa~e~~~~~~~V~lL~pp~~a~~G~rV 126 (213)
||+++..-..+...++.+|+++++|+++
T Consensus 76 ~s~~elg~~~~~~gi~~l~~~~~~G~~~ 103 (103)
T cd02796 76 CSAKELGLGEDSDGIIELPEDAPVGTDI 103 (103)
T ss_pred cchhHcCCCCCCCeEEECCCCCCCCCCC
Confidence 9998841110223367888889999864
No 14
>PRK00133 metG methionyl-tRNA synthetase; Reviewed
Probab=99.75 E-value=3.6e-18 Score=167.60 Aligned_cols=94 Identities=32% Similarity=0.462 Sum_probs=82.1
Q ss_pred EEEEEEEE------eecCCCCceEEEEEEcCCCCeEEEEeCCCccccchhcCCCEEEEEecccceee-cceecceEEeee
Q psy2025 29 DCDVDAQM------HTIERQKEEAKLRLQIGEGQDRLIVSGLANYMTAFQLYNTSVVVVCNLKPAKF-RGILSQGMILCA 101 (213)
Q Consensus 29 ~~~ldirV------~~hp~adkLyv~~VDiG~~~~rqIVSGl~n~~~~eeL~G~kVvvv~NLKprKm-rGv~SeGMLLsa 101 (213)
+..+|+|| .+||++++||+++||+|++ +||||||++++|++++|+|++|++++||||++| +|+ |+|||||+
T Consensus 573 f~~~di~vg~I~~~~~~p~~~~l~~~~vd~G~~-~~~iv~g~~~~~~~~~l~G~~v~~~~nlkp~~~~~Gv-S~gMl~~~ 650 (673)
T PRK00133 573 FAKVDLRVAKIVEAEKVEGADKLLKLTLDLGEE-TRQVFSGIKSAYDPEELVGKLVVMVANLAPRKMKFGV-SEGMVLAA 650 (673)
T ss_pred HhhhhcceeeeEeeecCCCCCccceeeEecCCc-eeEEEcCccccCCHHHHhcCeeEEEEeeccccccCCc-cceeEEEe
Confidence 44556554 4679999999999999985 899999999999999999999999999999999 999 99999999
Q ss_pred ecCCCCCCcEEEEcCCCCCCCCceEE
Q psy2025 102 SETYNNVTRVEVVRPPENCTAGQRVF 127 (213)
Q Consensus 102 ~e~~~~~~~V~lL~pp~~a~~G~rV~ 127 (213)
++.+ +++.++.++.++++|++|.
T Consensus 651 ~~~~---~~i~~l~~~~~~~~G~~~~ 673 (673)
T PRK00133 651 GPGG---GDLFLLEPDEGAKPGMRVK 673 (673)
T ss_pred ecCC---CcEEEecCCCCCCCCCcCC
Confidence 8532 4688888877899999873
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=99.55 E-value=1.4e-14 Score=144.90 Aligned_cols=101 Identities=22% Similarity=0.285 Sum_probs=82.3
Q ss_pred cCCCcCCceeeEEEEEEEEeecCCCCceEEEEEEcCCCCeEEEEeCCCccccchhcCCCEEEEE---------eccccee
Q psy2025 18 PLGNALAWHVEDCDVDAQMHTIERQKEEAKLRLQIGEGQDRLIVSGLANYMTAFQLYNTSVVVV---------CNLKPAK 88 (213)
Q Consensus 18 ~~~~~~~~~v~~~~ldirV~~hp~adkLyv~~VDiG~~~~rqIVSGl~n~~~~eeL~G~kVvvv---------~NLKprK 88 (213)
+.++.+.+++.+.++++ .+||++++|++|+||+|+++.+|||||+.|.. .|++|+++ .+|++++
T Consensus 38 ~~~~~~~~~~vg~i~~~--~~hp~~~~L~~~~vd~g~~~~~~Iv~ga~n~~-----~g~~V~va~~Ga~l~~~~~i~~~~ 110 (798)
T TIGR00472 38 PFSKPLKGVVVGKVLEV--EPHPNADKLKVCKVDIGEKEMLQIVCGAPNVE-----AGKKVAVALPGAKLPNGLKIKKSK 110 (798)
T ss_pred ecccCcCCEEEEEEEEE--EecCCCCcEEEEEEEcCCCceEEEEeCCcccc-----CCCEEEEEccCCCccCCceEeeee
Confidence 34445678889999955 67999999999999999767899999999985 89999997 4699999
Q ss_pred ecceecceEEeeeecCC--CCCCcEEEEcCCCCCCCCceEE
Q psy2025 89 FRGILSQGMILCASETY--NNVTRVEVVRPPENCTAGQRVF 127 (213)
Q Consensus 89 mrGv~SeGMLLsa~e~~--~~~~~V~lL~pp~~a~~G~rV~ 127 (213)
|||+.|+||+||+++.+ +...++ +.+|+++++|+++.
T Consensus 111 ~~Gv~S~GMlcs~~elg~~~~~~gi--~~l~~~~~~G~~~~ 149 (798)
T TIGR00472 111 LRGVESEGMLCSEDELGLDEKSDGI--IVLDEDAPLGTDIA 149 (798)
T ss_pred cCCeeechhcccHhHcCCCCCCCCE--EEcCCCCCCCccHH
Confidence 99999999999999842 211455 44567889998773
No 16
>PRK00629 pheT phenylalanyl-tRNA synthetase subunit beta; Reviewed
Probab=99.49 E-value=8.8e-14 Score=139.08 Aligned_cols=98 Identities=24% Similarity=0.330 Sum_probs=79.7
Q ss_pred CCCcCCceeeEEEEEEEEeecCCCCceEEEEEEcCCCCeEEEEeCCCccccchhcCCCEEEEE---------ecccceee
Q psy2025 19 LGNALAWHVEDCDVDAQMHTIERQKEEAKLRLQIGEGQDRLIVSGLANYMTAFQLYNTSVVVV---------CNLKPAKF 89 (213)
Q Consensus 19 ~~~~~~~~v~~~~ldirV~~hp~adkLyv~~VDiG~~~~rqIVSGl~n~~~~eeL~G~kVvvv---------~NLKprKm 89 (213)
.++.+.+++++.++++ .+||++|+|++|+||+|+ +.+||+||+.|+. .|.+|+++ .+|++++|
T Consensus 38 ~~~~~~~i~vg~i~~~--~~hp~~~~L~v~~v~~g~-~~~~iv~ga~n~~-----~g~~v~~a~~G~~l~~~~~i~~~~~ 109 (791)
T PRK00629 38 VAAGLSGVVVGKVLEC--EKHPNADKLRVCQVDVGE-EPLQIVCGAPNVR-----AGDKVPVALPGAVLPGGFKIKKAKL 109 (791)
T ss_pred cccCCCCEEEEEEEEE--EecCCCCeEEEEEEEcCC-eEEEEEeCCcccc-----CCCEEEEEccCCCccCCceEeeeec
Confidence 3445788999999966 669999999999999997 5699999999985 67777773 35999999
Q ss_pred cceecceEEeeeecC---CCCCCcEEEEcCCCCCCCCceEE
Q psy2025 90 RGILSQGMILCASET---YNNVTRVEVVRPPENCTAGQRVF 127 (213)
Q Consensus 90 rGv~SeGMLLsa~e~---~~~~~~V~lL~pp~~a~~G~rV~ 127 (213)
||+.|+||+||++|. +++ +++ +..|+++++|+++.
T Consensus 110 ~Gv~S~GMlcs~~ELGl~~~~-~GI--~~L~~~~~~G~~~~ 147 (791)
T PRK00629 110 RGVESEGMLCSASELGLSDDH-DGI--IELPEDAPVGTDAR 147 (791)
T ss_pred CCeEEchhcccHhHcCCCcCC-CCe--EECCCCCCCCccHH
Confidence 999999999999984 233 575 44567788998874
No 17
>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=98.79 E-value=1.7e-08 Score=93.17 Aligned_cols=66 Identities=17% Similarity=0.147 Sum_probs=53.4
Q ss_pred eeEEEEEEEEeecCCCCceEEEEEEcCCCCeEEEEeCCCccccchhcCCCEEEEE------e------------------
Q psy2025 27 VEDCDVDAQMHTIERQKEEAKLRLQIGEGQDRLIVSGLANYMTAFQLYNTSVVVV------C------------------ 82 (213)
Q Consensus 27 v~~~~ldirV~~hp~adkLyv~~VDiG~~~~rqIVSGl~n~~~~eeL~G~kVvvv------~------------------ 82 (213)
++..++ .+.+||+||+|.+++||. .|||||+.|+. .|.+|+++ .
T Consensus 4 vv~kV~--~i~php~Ad~L~v~~Vd~-----~~vV~ga~n~~-----~Gd~Vv~a~~gs~Lp~~~~~~~~~~~~~~~~~g 71 (341)
T TIGR02306 4 VMREIA--DLQPHPNADALELATVGG-----WEVVVKKGEYR-----VGSDCVYFPEDSVLPTDAGLFRFLETRAKILDG 71 (341)
T ss_pred EEEEEE--EeeecCCCCceEEEEEeC-----EEEEcCCCcCC-----CCCEEEEECCCCCCCCCCCcchhhccccccccc
Confidence 345555 466799999999999997 99999999986 56666553 1
Q ss_pred ----cccceeecceecceEEeeeecC
Q psy2025 83 ----NLKPAKFRGILSQGMILCASET 104 (213)
Q Consensus 83 ----NLKprKmrGv~SeGMLLsa~e~ 104 (213)
.|+.++|||+.|+||+|+.++.
T Consensus 72 ~~~~~Ik~~klRG~~SqGMlcs~~~~ 97 (341)
T TIGR02306 72 KMRARVKTVRLRGEISQGIALPTGAL 97 (341)
T ss_pred cccceEeEEEeccEEEccEEechhhc
Confidence 5788899999999999998873
No 18
>COG2517 Predicted RNA-binding protein containing a C-terminal EMAP domain [General function prediction only]
Probab=98.75 E-value=1.4e-08 Score=86.86 Aligned_cols=62 Identities=23% Similarity=0.293 Sum_probs=55.0
Q ss_pred EeecCCCCceEEEEEEcCCCCeEEEEeCCCccccchhcCCCEEEEEecccceeecceecceEEeeeecC
Q psy2025 36 MHTIERQKEEAKLRLQIGEGQDRLIVSGLANYMTAFQLYNTSVVVVCNLKPAKFRGILSQGMILCASET 104 (213)
Q Consensus 36 V~~hp~adkLyv~~VDiG~~~~rqIVSGl~n~~~~eeL~G~kVvvv~NLKprKmrGv~SeGMLLsa~e~ 104 (213)
+++||++|+||+|.||+|+ ..++||+..-.+. +|.+++|+ -|.||.|.|+.|+||+|.+.+-
T Consensus 130 v~~hp~aD~L~v~vvn~G~-r~~tVVTN~~~vr-----eg~~vaVA-lLPPr~F~gvvSeGMFlg~~d~ 191 (219)
T COG2517 130 VGKHPNADKLLVTVVNIGG-RAVTVVTNDLDVR-----EGDRVAVA-LLPPRNFFGVVSEGMFLGAKDV 191 (219)
T ss_pred cccCCCCCceEEEEEecCC-eEEEEEecccccc-----cCCEEEEE-ecChhHhccccccceeeccccc
Confidence 5679999999999999997 4699999998885 89998776 5999999999999999998663
No 19
>PHA02142 putative RNA ligase
Probab=84.46 E-value=2.8 Score=39.66 Aligned_cols=21 Identities=38% Similarity=0.605 Sum_probs=17.7
Q ss_pred cccceeecceecceEEeeeec
Q psy2025 83 NLKPAKFRGILSQGMILCASE 103 (213)
Q Consensus 83 NLKprKmrGv~SeGMLLsa~e 103 (213)
-|+..|+||..||||++-.++
T Consensus 83 Ri~t~klRG~iSQGl~lpl~~ 103 (366)
T PHA02142 83 RIKTIKLRGQISQGIALPTGA 103 (366)
T ss_pred eEEEEEEeeEEeeeEEecccc
Confidence 588899999999999987433
No 20
>PTZ00385 lysyl-tRNA synthetase; Provisional
Probab=84.36 E-value=0.17 Score=51.02 Aligned_cols=49 Identities=14% Similarity=0.222 Sum_probs=42.9
Q ss_pred eecCC-CCceEEEEEEcCCCCeEEEEeCCCccccchhcCCCEEEEEeccccee
Q psy2025 37 HTIER-QKEEAKLRLQIGEGQDRLIVSGLANYMTAFQLYNTSVVVVCNLKPAK 88 (213)
Q Consensus 37 ~~hp~-adkLyv~~VDiG~~~~rqIVSGl~n~~~~eeL~G~kVvvv~NLKprK 88 (213)
..+|. +++|.-.+.|.|.+..|+|.||+..||. +|.|+.++.+|| .||.
T Consensus 610 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~l~~~~~~~~~~-~pr~ 659 (659)
T PTZ00385 610 ANVRELRRVIMELGQRGGENGLPTAGGRLSEWRI--TLTFAIIRFICG-TPRR 659 (659)
T ss_pred hhchHHHHHHhceecccCCCCccchhHHHHHHHH--HHhcceeEEEeC-CCCC
Confidence 34455 7789999999999999999999999997 799999999999 8873
No 21
>PF10571 UPF0547: Uncharacterised protein family UPF0547; InterPro: IPR018886 This domain may well be a type of zinc-finger as it carries two pairs of highly conserved cysteine residues though with no accompanying histidines. Several members are annotated as putative helicases.
Probab=58.14 E-value=4.2 Score=24.22 Aligned_cols=10 Identities=40% Similarity=1.198 Sum_probs=8.1
Q ss_pred CCCCCCceeE
Q psy2025 1 MCGQCGHTFR 10 (213)
Q Consensus 1 ~~~~~~~~~~ 10 (213)
.|..|||.|.
T Consensus 16 ~Cp~CG~~F~ 25 (26)
T PF10571_consen 16 FCPHCGYDFE 25 (26)
T ss_pred cCCCCCCCCc
Confidence 4889999884
No 22
>PF13894 zf-C2H2_4: C2H2-type zinc finger; PDB: 2ELX_A 2EPP_A 2DLK_A 1X6H_A 2EOU_A 2EMB_A 2GQJ_A 2CSH_A 2WBT_B 2ELM_A ....
Probab=54.16 E-value=5.7 Score=21.20 Aligned_cols=10 Identities=50% Similarity=1.295 Sum_probs=6.5
Q ss_pred CCCCCCceeE
Q psy2025 1 MCGQCGHTFR 10 (213)
Q Consensus 1 ~~~~~~~~~~ 10 (213)
.|.+|+.+|+
T Consensus 2 ~C~~C~~~~~ 11 (24)
T PF13894_consen 2 QCPICGKSFR 11 (24)
T ss_dssp E-SSTS-EES
T ss_pred CCcCCCCcCC
Confidence 4899999885
No 23
>PF09723 Zn-ribbon_8: Zinc ribbon domain; InterPro: IPR013429 This entry represents a region of about 41 amino acids found in a number of small proteins in a wide range of bacteria. The region usually begins with the initiator Met and contains two CxxC motifs separated by 17 amino acids. One protein in this entry has been noted as a putative regulatory protein, designated FmdB []. Most proteins in this entry have a C-terminal region containing highly degenerate sequence.
Probab=52.78 E-value=17 Score=23.53 Aligned_cols=16 Identities=38% Similarity=0.899 Sum_probs=13.4
Q ss_pred CCCCCceeEEEEeecc
Q psy2025 2 CGQCGHTFRLLLIGRQ 17 (213)
Q Consensus 2 ~~~~~~~~~~~~~~~~ 17 (213)
|..|||+|-.+.-...
T Consensus 8 C~~Cg~~fe~~~~~~~ 23 (42)
T PF09723_consen 8 CEECGHEFEVLQSISE 23 (42)
T ss_pred eCCCCCEEEEEEEcCC
Confidence 8999999998876555
No 24
>smart00834 CxxC_CXXC_SSSS Putative regulatory protein. CxxC_CXXC_SSSS represents a region of about 41 amino acids found in a number of small proteins in a wide range of bacteria. The region usually begins with the initiator Met and contains two CxxC motifs separated by 17 amino acids. One protein in this entry has been noted as a putative regulatory protein, designated FmdB. Most proteins in this entry have a C-terminal region containing highly degenerate sequence.
Probab=49.76 E-value=12 Score=23.30 Aligned_cols=14 Identities=50% Similarity=1.094 Sum_probs=11.7
Q ss_pred CCCCCCceeEEEEe
Q psy2025 1 MCGQCGHTFRLLLI 14 (213)
Q Consensus 1 ~~~~~~~~~~~~~~ 14 (213)
.|.+||+.|.++..
T Consensus 7 ~C~~Cg~~fe~~~~ 20 (41)
T smart00834 7 RCEDCGHTFEVLQK 20 (41)
T ss_pred EcCCCCCEEEEEEe
Confidence 39999999998764
No 25
>TIGR02605 CxxC_CxxC_SSSS putative regulatory protein, FmdB family. This model represents a region of about 50 amino acids found in a number of small proteins in a wide range of bacteria. The region begins usually with the initiator Met and contains two CxxC motifs separated by 17 amino acids. One member of this family is has been noted as a putative regulatory protein, designated FmdB (PubMed:8841393). Most members of this family have a C-terminal region containing highly degenerate sequence, such as SSTSESTKSSGSSGSSGSSESKASGSTEKSTSSTTAAAAV in Mycobacterium tuberculosis and VAVGGSAPAPSPAPRAGGGGGGCCGGGCCG in Streptomyces avermitilis. These low complexity regions, which are not included in the model, resemble low-complexity C-terminal regions of some heterocycle-containing bacteriocin precursors.
Probab=49.48 E-value=12 Score=24.71 Aligned_cols=14 Identities=43% Similarity=0.997 Sum_probs=11.6
Q ss_pred CCCCCCceeEEEEe
Q psy2025 1 MCGQCGHTFRLLLI 14 (213)
Q Consensus 1 ~~~~~~~~~~~~~~ 14 (213)
.|.+|||+|.++..
T Consensus 7 ~C~~Cg~~fe~~~~ 20 (52)
T TIGR02605 7 RCTACGHRFEVLQK 20 (52)
T ss_pred EeCCCCCEeEEEEe
Confidence 39999999998754
No 26
>PF14353 CpXC: CpXC protein
Probab=48.90 E-value=8 Score=30.30 Aligned_cols=10 Identities=70% Similarity=1.663 Sum_probs=9.2
Q ss_pred CCCCCceeEE
Q psy2025 2 CGQCGHTFRL 11 (213)
Q Consensus 2 ~~~~~~~~~~ 11 (213)
|.+||++|++
T Consensus 41 CP~Cg~~~~~ 50 (128)
T PF14353_consen 41 CPSCGHKFRL 50 (128)
T ss_pred CCCCCCceec
Confidence 9999999986
No 27
>PF14255 Cys_rich_CPXG: Cysteine-rich CPXCG
Probab=47.95 E-value=15 Score=25.43 Aligned_cols=14 Identities=29% Similarity=0.785 Sum_probs=12.1
Q ss_pred CCCCCCceeEEEEe
Q psy2025 1 MCGQCGHTFRLLLI 14 (213)
Q Consensus 1 ~~~~~~~~~~~~~~ 14 (213)
+|..||+.+.+++-
T Consensus 2 ~CPyCge~~~~~iD 15 (52)
T PF14255_consen 2 QCPYCGEPIEILID 15 (52)
T ss_pred CCCCCCCeeEEEEe
Confidence 59999999999763
No 28
>PF00096 zf-C2H2: Zinc finger, C2H2 type; InterPro: IPR007087 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. The C2H2 zinc finger is the classical zinc finger domain. The two conserved cysteines and histidines co-ordinate a zinc ion. The following pattern describes the zinc finger: #-X-C-X(1-5)-C-X3-#-X5-#-X2-H-X(3-6)-[H/C], where X can be any amino acid, and numbers in brackets indicate the number of residues. The positions marked # are those that are important for the stable fold of the zinc finger. The final position can be either his or cys. The C2H2 zinc finger is composed of two short beta strands followed by an alpha helix. The amino terminal part of the helix binds the major groove in DNA binding zinc fingers. The accepted consensus binding sequence for Sp1 is usually defined by the asymmetric hexanucleotide core GGGCGG but this sequence does not include, among others, the GAG (=CTC) repeat that constitutes a high-affinity site for Sp1 binding to the wt1 promoter []. This entry represents the classical C2H2 zinc finger domain. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding, 0005622 intracellular; PDB: 2D9H_A 2EPC_A 1SP1_A 1VA3_A 2WBT_B 2ELR_A 2YTP_A 2YTT_A 1VA1_A 2ELO_A ....
Probab=44.40 E-value=8.4 Score=21.02 Aligned_cols=10 Identities=40% Similarity=1.119 Sum_probs=8.2
Q ss_pred CCCCCCceeE
Q psy2025 1 MCGQCGHTFR 10 (213)
Q Consensus 1 ~~~~~~~~~~ 10 (213)
.|.+|+.+|+
T Consensus 2 ~C~~C~~~f~ 11 (23)
T PF00096_consen 2 KCPICGKSFS 11 (23)
T ss_dssp EETTTTEEES
T ss_pred CCCCCCCccC
Confidence 4899999985
No 29
>PF13465 zf-H2C2_2: Zinc-finger double domain; PDB: 2EN7_A 1TF6_A 1TF3_A 2ELT_A 2EOS_A 2EN2_A 2DMD_A 2WBS_A 2WBU_A 2EM5_A ....
Probab=40.84 E-value=13 Score=21.51 Aligned_cols=9 Identities=44% Similarity=1.302 Sum_probs=8.0
Q ss_pred CCCCCceeE
Q psy2025 2 CGQCGHTFR 10 (213)
Q Consensus 2 ~~~~~~~~~ 10 (213)
|.+|+.+|.
T Consensus 17 C~~C~k~F~ 25 (26)
T PF13465_consen 17 CPYCGKSFS 25 (26)
T ss_dssp ESSSSEEES
T ss_pred CCCCcCeeC
Confidence 999999984
No 30
>PRK09678 DNA-binding transcriptional regulator; Provisional
Probab=39.65 E-value=25 Score=25.86 Aligned_cols=22 Identities=18% Similarity=0.249 Sum_probs=15.6
Q ss_pred CC--CCCceeEEEEeecccCCCcC
Q psy2025 2 CG--QCGHTFRLLLIGRQPLGNAL 23 (213)
Q Consensus 2 ~~--~~~~~~~~~~~~~~~~~~~~ 23 (213)
|. .|||||...+.=-+++.|+.
T Consensus 30 C~N~eCg~tF~t~es~s~tis~p~ 53 (72)
T PRK09678 30 CQNVNCSATFITYESVQRYIVKPG 53 (72)
T ss_pred cCCCCCCCEEEEEEEEEEEEcCCC
Confidence 66 89999998876555555443
No 31
>PHA00616 hypothetical protein
Probab=38.47 E-value=7.6 Score=26.08 Aligned_cols=10 Identities=50% Similarity=1.178 Sum_probs=8.1
Q ss_pred CCCCCCceeE
Q psy2025 1 MCGQCGHTFR 10 (213)
Q Consensus 1 ~~~~~~~~~~ 10 (213)
+|..||.+|+
T Consensus 3 qC~~CG~~F~ 12 (44)
T PHA00616 3 QCLRCGGIFR 12 (44)
T ss_pred ccchhhHHHh
Confidence 5888888886
No 32
>smart00355 ZnF_C2H2 zinc finger.
Probab=37.40 E-value=13 Score=19.83 Aligned_cols=10 Identities=40% Similarity=1.275 Sum_probs=8.0
Q ss_pred CCCCCCceeE
Q psy2025 1 MCGQCGHTFR 10 (213)
Q Consensus 1 ~~~~~~~~~~ 10 (213)
.|.+|+.+|+
T Consensus 2 ~C~~C~~~f~ 11 (26)
T smart00355 2 RCPECGKVFK 11 (26)
T ss_pred CCCCCcchhC
Confidence 4888998885
No 33
>PF13912 zf-C2H2_6: C2H2-type zinc finger; PDB: 1JN7_A 1FU9_A 2L1O_A 1NJQ_A 2EN8_A 2EMM_A 1FV5_A 1Y0J_B 2L6Z_B.
Probab=35.04 E-value=17 Score=20.54 Aligned_cols=9 Identities=56% Similarity=1.527 Sum_probs=7.7
Q ss_pred CCCCCceeE
Q psy2025 2 CGQCGHTFR 10 (213)
Q Consensus 2 ~~~~~~~~~ 10 (213)
|.+|+.+|.
T Consensus 4 C~~C~~~F~ 12 (27)
T PF13912_consen 4 CDECGKTFS 12 (27)
T ss_dssp ETTTTEEES
T ss_pred CCccCCccC
Confidence 889999885
No 34
>smart00659 RPOLCX RNA polymerase subunit CX. present in RNA polymerase I, II and III
Probab=32.39 E-value=25 Score=23.28 Aligned_cols=12 Identities=33% Similarity=1.079 Sum_probs=9.4
Q ss_pred CCCCCCceeEEE
Q psy2025 1 MCGQCGHTFRLL 12 (213)
Q Consensus 1 ~~~~~~~~~~~~ 12 (213)
.|+.||+.|.+-
T Consensus 4 ~C~~Cg~~~~~~ 15 (44)
T smart00659 4 ICGECGRENEIK 15 (44)
T ss_pred ECCCCCCEeecC
Confidence 389999988754
No 35
>PF13913 zf-C2HC_2: zinc-finger of a C2HC-type
Probab=30.05 E-value=28 Score=20.18 Aligned_cols=10 Identities=40% Similarity=1.055 Sum_probs=8.2
Q ss_pred CCCCCCceeE
Q psy2025 1 MCGQCGHTFR 10 (213)
Q Consensus 1 ~~~~~~~~~~ 10 (213)
.|..||.+|.
T Consensus 4 ~C~~CgR~F~ 13 (25)
T PF13913_consen 4 PCPICGRKFN 13 (25)
T ss_pred cCCCCCCEEC
Confidence 3889999984
No 36
>PF04606 Ogr_Delta: Ogr/Delta-like zinc finger; InterPro: IPR007684 This entry is represented by Bacteriophage P2, Ogr. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. This is a viral family of phage zinc-binding transcriptional activators, which also contains cryptic members in some bacterial genomes []. The P4 phage delta protein contains two such domains attached covalently, while the P2 phage Ogr proteins possess one domain but function as dimers. All the members of this family have the following consensus sequence: C-X(2)-C-X(3)-A-(X)2-R-X(15)-C-X(4)-C-X(3)-F [].; GO: 0006355 regulation of transcription, DNA-dependent
Probab=29.08 E-value=40 Score=22.26 Aligned_cols=11 Identities=55% Similarity=0.921 Sum_probs=8.6
Q ss_pred CCCceeEEEEe
Q psy2025 4 QCGHTFRLLLI 14 (213)
Q Consensus 4 ~~~~~~~~~~~ 14 (213)
.|||+|...+.
T Consensus 32 ~Cg~tfv~~~~ 42 (47)
T PF04606_consen 32 ECGHTFVANLE 42 (47)
T ss_pred cCCCEEEEEEE
Confidence 49999987663
No 37
>PF07292 NID: Nmi/IFP 35 domain (NID); InterPro: IPR009909 This entry represents a domain of approximately 90 residues that is tandemly repeated within interferon-induced 35 kDa protein (IFP 35) and the homologous N-myc-interactor (Nmi). This domain mediates Nmi-Nmi protein interactions and subcellular localisation [].
Probab=26.56 E-value=2.7e+02 Score=21.18 Aligned_cols=53 Identities=19% Similarity=0.338 Sum_probs=39.3
Q ss_pred eEEEEEEEEeecCCCCceEEEEEEcCCCCeEEEEeCCCccccchhcCCCEEEEE
Q psy2025 28 EDCDVDAQMHTIERQKEEAKLRLQIGEGQDRLIVSGLANYMTAFQLYNTSVVVV 81 (213)
Q Consensus 28 ~~~~ldirV~~hp~adkLyv~~VDiG~~~~rqIVSGl~n~~~~eeL~G~kVvvv 81 (213)
+.+.+.+++.|+... .+...+|..+-...+-.+||+....+.|+|.++.-+-.
T Consensus 25 ~~~~~~V~v~P~~~~-~~~k~qv~~~vs~rtVlvsgip~~l~ee~l~D~LeIhF 77 (88)
T PF07292_consen 25 EDCCVRVKVSPVTLG-HLQKFQVFSGVSKRTVLVSGIPDVLDEEELRDKLEIHF 77 (88)
T ss_pred CCEEEEEEEEeEecC-CceEEEEEEcccCCEEEEeCCCCCCChhhheeeEEEEE
Confidence 566788888887643 57888888886554556899999888888887665443
No 38
>PF13408 Zn_ribbon_recom: Recombinase zinc beta ribbon domain
Probab=25.09 E-value=40 Score=22.12 Aligned_cols=10 Identities=40% Similarity=1.215 Sum_probs=8.5
Q ss_pred CCCCCceeEE
Q psy2025 2 CGQCGHTFRL 11 (213)
Q Consensus 2 ~~~~~~~~~~ 11 (213)
|+.||+++..
T Consensus 8 C~~CG~~m~~ 17 (58)
T PF13408_consen 8 CGHCGSKMTR 17 (58)
T ss_pred cccCCcEeEE
Confidence 9999998765
No 39
>TIGR02098 MJ0042_CXXC MJ0042 family finger-like domain. This domain contains a CXXCX(19)CXXC motif suggestive of both zinc fingers and thioredoxin, usually found at the N-terminus of prokaryotic proteins. One partially characterized gene, agmX, is among a large set in Myxococcus whose interruption affects adventurous gliding motility.
Probab=25.09 E-value=47 Score=20.47 Aligned_cols=10 Identities=40% Similarity=1.188 Sum_probs=8.3
Q ss_pred CCCCCceeEE
Q psy2025 2 CGQCGHTFRL 11 (213)
Q Consensus 2 ~~~~~~~~~~ 11 (213)
|.+|+..|++
T Consensus 5 CP~C~~~~~v 14 (38)
T TIGR02098 5 CPNCKTSFRV 14 (38)
T ss_pred CCCCCCEEEe
Confidence 8888888876
No 40
>TIGR03829 YokU_near_AblA uncharacterized protein, YokU family. Members of this protein family occur in various species of the genus Bacillus, always next to the gene (kamA or ablA) for lysine 2,3-aminomutase. Members have a pair of CXXC motifs, and share homology to the amino-terminal region of a family of putative transcription factors for which the C-terminal is modeled by pfam01381, a helix-turn-helix domain model. This family, however, is shorter and lacks the helix-turn-helix region. The function of this protein family is unknown, but a regulatory role in compatible solute biosynthesis is suggested by local genome context.
Probab=20.96 E-value=70 Score=24.56 Aligned_cols=24 Identities=29% Similarity=0.761 Sum_probs=16.7
Q ss_pred CCCCCCcee-----------EEEEeecccCCCcCC
Q psy2025 1 MCGQCGHTF-----------RLLLIGRQPLGNALA 24 (213)
Q Consensus 1 ~~~~~~~~~-----------~~~~~~~~~~~~~~~ 24 (213)
.|.|||..| .|+||--+.+|.-.+
T Consensus 37 ~C~~CGe~y~~dev~~eIE~~l~l~~~~~~p~~~~ 71 (89)
T TIGR03829 37 SCSHCGMEYQDDTTVKEIEDQLLLVDTKKLPDETT 71 (89)
T ss_pred cccCCCcEeecHHHHHHHHhhhEEeecccCCcccc
Confidence 388999887 477777666665443
No 41
>PF03604 DNA_RNApol_7kD: DNA directed RNA polymerase, 7 kDa subunit; InterPro: IPR006591 DNA-dependent RNA polymerase catalyzes the transcription of DNA into RNA using the four ribonucleoside triphosphates as substrates. Each class of RNA polymerase is assembled from 9 to 15 different polypeptides. Rbp10 (RNA polymerase CX) is a domain found in RNA polymerase subunit 10; present in RNA polymerase I, II and III.; GO: 0003677 DNA binding, 0003899 DNA-directed RNA polymerase activity, 0006351 transcription, DNA-dependent; PDB: 2PMZ_Z 3HKZ_X 2NVX_L 3S1Q_L 2JA6_L 3S17_L 3HOW_L 3HOV_L 3PO2_L 3HOZ_L ....
Probab=20.85 E-value=33 Score=21.37 Aligned_cols=10 Identities=40% Similarity=1.331 Sum_probs=7.1
Q ss_pred CCCCCCceeE
Q psy2025 1 MCGQCGHTFR 10 (213)
Q Consensus 1 ~~~~~~~~~~ 10 (213)
.|+.||..+.
T Consensus 2 ~C~~Cg~~~~ 11 (32)
T PF03604_consen 2 ICGECGAEVE 11 (32)
T ss_dssp BESSSSSSE-
T ss_pred CCCcCCCeeE
Confidence 4888888877
No 42
>PF14311 DUF4379: Domain of unknown function (DUF4379)
Probab=20.40 E-value=42 Score=22.58 Aligned_cols=16 Identities=31% Similarity=0.879 Sum_probs=12.6
Q ss_pred CCCCCceeEEEEeecc
Q psy2025 2 CGQCGHTFRLLLIGRQ 17 (213)
Q Consensus 2 ~~~~~~~~~~~~~~~~ 17 (213)
|..|||.|+.-+.-|-
T Consensus 31 C~~Cgh~w~~~v~~R~ 46 (55)
T PF14311_consen 31 CPKCGHEWKASVNDRT 46 (55)
T ss_pred CCCCCCeeEccHhhhc
Confidence 8999999987665553
Done!