Query 022686
Match_columns 293
No_of_seqs 92 out of 111
Neff 3.4
Searched_HMMs 46136
Date Fri Mar 29 05:24:10 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/022686.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/022686hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 cd06555 ASCH_PF0470_like ASC-1 100.0 8.6E-40 1.9E-44 268.2 12.6 104 131-234 1-109 (109)
2 COG4043 Preprotein translocase 100.0 3.1E-39 6.7E-44 264.3 11.2 106 130-235 2-108 (111)
3 cd06541 ASCH ASC-1 homology or 99.8 1.3E-20 2.8E-25 151.0 8.9 100 133-233 2-105 (105)
4 PF04266 ASCH: ASCH domain; I 99.7 3.9E-16 8.4E-21 121.5 9.2 98 133-235 1-104 (105)
5 cd06552 ASCH_yqfb_like ASC-1 h 99.0 2.5E-09 5.4E-14 83.6 8.5 94 133-233 2-99 (100)
6 PF12961 DUF3850: Domain of Un 98.4 7.6E-07 1.7E-11 69.5 6.6 53 131-186 1-62 (72)
7 PRK04980 hypothetical protein; 96.4 0.026 5.6E-07 46.9 8.8 81 132-219 4-90 (102)
8 COG2411 Uncharacterized conser 92.4 1 2.3E-05 41.2 9.1 80 133-219 9-92 (188)
9 COG3097 Uncharacterized protei 90.7 1.1 2.3E-05 37.7 6.7 91 134-233 7-103 (106)
10 cd06553 ASCH_Ef3133_like ASC-1 90.0 1.9 4.1E-05 36.8 7.9 85 135-223 12-107 (127)
11 PRK11507 ribosome-associated p 82.3 2.4 5.2E-05 33.3 4.2 32 142-173 33-64 (70)
12 COG1935 Uncharacterized conser 75.7 5.6 0.00012 34.4 4.8 43 141-183 16-71 (122)
13 cd06554 ASCH_ASC-1_like ASC-1 69.5 3.3 7.2E-05 34.7 2.0 28 133-160 4-31 (113)
14 PF13275 S4_2: S4 domain; PDB: 68.9 2.2 4.8E-05 32.8 0.8 31 142-172 29-59 (65)
15 TIGR02988 YaaA_near_RecF S4 do 64.4 8.8 0.00019 27.7 3.2 31 141-171 29-59 (59)
16 PRK12279 50S ribosomal protein 62.4 18 0.0004 35.5 5.8 104 114-235 175-286 (311)
17 COG1868 FliM Flagellar motor s 61.0 3.6 7.8E-05 40.4 0.8 36 149-184 261-300 (332)
18 PF13550 Phage-tail_3: Putativ 58.9 23 0.00051 28.9 5.1 44 138-182 117-163 (164)
19 PF04322 DUF473: Protein of un 55.3 33 0.00072 29.4 5.6 43 141-183 16-71 (119)
20 PF11604 CusF_Ec: Copper bindi 54.8 8.6 0.00019 29.2 1.8 58 126-183 6-68 (70)
21 PRK06461 single-stranded DNA-b 54.3 30 0.00064 29.0 5.1 45 142-186 45-100 (129)
22 PF14571 Di19_C: Stress-induce 53.8 8.8 0.00019 31.7 1.8 31 254-287 13-44 (105)
23 PRK10348 ribosome-associated h 52.1 30 0.00064 30.1 4.8 53 140-193 28-87 (133)
24 smart00363 S4 S4 RNA-binding d 51.9 17 0.00036 23.9 2.7 35 138-172 18-52 (60)
25 KOG4476 Gluconate transport-in 50.5 13 0.00027 35.6 2.5 32 140-171 21-53 (248)
26 COG5037 TOS9 Gluconate transpo 50.5 13 0.00027 35.6 2.5 32 140-171 21-53 (248)
27 COG1188 Ribosome-associated he 49.4 30 0.00065 29.0 4.3 42 141-183 29-73 (100)
28 PF09953 DUF2187: Uncharacteri 48.9 22 0.00048 27.2 3.1 30 161-190 3-41 (57)
29 PF11184 DUF2969: Protein of u 48.0 20 0.00043 28.0 2.9 64 147-217 5-68 (71)
30 smart00350 MCM minichromosome 47.5 22 0.00048 35.9 3.9 44 132-176 87-132 (509)
31 COG1430 Uncharacterized conser 46.9 17 0.00037 31.3 2.6 25 147-171 96-120 (126)
32 PF01336 tRNA_anti-codon: OB-f 46.5 27 0.00059 24.7 3.2 30 142-171 21-54 (75)
33 cd04498 hPOT1_OB2 hPOT1_OB2: A 46.4 19 0.00041 30.9 2.7 26 146-172 58-87 (123)
34 COG0809 QueA S-adenosylmethion 45.2 31 0.00068 34.5 4.4 72 149-220 78-174 (348)
35 PF07527 Hairy_orange: Hairy O 44.4 19 0.00042 24.8 2.1 28 4-40 7-34 (43)
36 cd04478 RPA2_DBD_D RPA2_DBD_D: 43.4 63 0.0014 24.6 5.0 51 143-193 22-86 (95)
37 COG2501 S4-like RNA binding pr 43.0 38 0.00083 26.9 3.8 34 142-175 33-66 (73)
38 PF01479 S4: S4 domain; Inter 38.5 17 0.00037 24.8 1.1 31 138-168 18-48 (48)
39 PRK01424 S-adenosylmethionine: 37.4 78 0.0017 32.0 5.8 47 148-195 69-137 (366)
40 COG4933 Uncharacterized conser 36.1 27 0.00059 30.4 2.2 88 133-236 1-97 (124)
41 PRK09838 periplasmic copper-bi 34.7 25 0.00054 29.7 1.7 51 121-171 47-98 (115)
42 COG5569 Uncharacterized conser 34.6 57 0.0012 27.8 3.7 49 123-171 44-93 (108)
43 cd03695 CysN_NodQ_II CysN_NodQ 34.3 67 0.0015 24.6 3.9 34 149-185 17-51 (81)
44 TIGR03069 PS_II_S4 photosystem 33.4 65 0.0014 30.3 4.4 45 137-181 199-243 (257)
45 cd00165 S4 S4/Hsp/ tRNA synthe 33.0 57 0.0012 21.9 3.0 32 141-172 21-52 (70)
46 PRK05585 yajC preprotein trans 31.6 12 0.00025 31.1 -0.8 43 139-183 32-74 (106)
47 PRK00147 queA S-adenosylmethio 30.6 1.4E+02 0.003 29.8 6.3 60 160-219 100-171 (342)
48 cd06863 PX_Atg24p The phosphoi 30.2 64 0.0014 26.2 3.3 51 150-202 1-60 (118)
49 KOG3416 Predicted nucleic acid 30.1 79 0.0017 27.9 4.0 26 147-172 47-72 (134)
50 COG3264 Small-conductance mech 29.1 64 0.0014 35.7 4.0 27 160-186 659-691 (835)
51 TIGR00739 yajC preprotein tran 28.3 66 0.0014 25.6 3.0 26 158-183 34-59 (84)
52 PF14085 DUF4265: Domain of un 24.9 1.8E+02 0.004 24.0 5.2 26 229-254 88-113 (117)
53 cd04491 SoSSB_OBF SoSSB_OBF: A 24.7 78 0.0017 23.7 2.7 29 144-172 30-59 (82)
54 PLN00051 RNA-binding S4 domain 23.9 1.3E+02 0.0028 28.7 4.6 60 110-172 182-242 (267)
55 COG2028 Uncharacterized conser 23.0 3.2E+02 0.0069 24.3 6.4 60 133-195 9-75 (145)
56 PRK03760 hypothetical protein; 23.0 66 0.0014 27.0 2.2 24 148-171 92-115 (117)
57 PF12195 End_beta_barrel: Beta 22.9 1.2E+02 0.0026 24.8 3.6 26 144-172 13-38 (83)
58 PRK06033 hypothetical protein; 22.8 91 0.002 24.7 2.9 27 158-184 24-54 (83)
59 TIGR00113 queA S-adenosylmethi 22.4 2.1E+02 0.0045 28.6 5.8 61 160-220 98-173 (344)
60 PRK05886 yajC preprotein trans 21.6 97 0.0021 26.2 2.9 24 159-182 36-59 (109)
61 PRK07455 keto-hydroxyglutarate 21.5 1.9E+02 0.0041 25.6 4.9 99 141-261 32-149 (187)
62 COG2820 Udp Uridine phosphoryl 21.5 1E+02 0.0022 29.7 3.4 33 141-174 78-112 (248)
63 PF01052 SpoA: Surface present 21.1 59 0.0013 24.2 1.5 28 154-181 21-52 (77)
64 PF05899 Cupin_3: Protein of u 20.5 1.4E+02 0.0031 22.5 3.4 29 142-172 30-58 (74)
65 TIGR02480 fliN flagellar motor 20.0 84 0.0018 24.0 2.1 28 157-184 24-55 (77)
No 1
>cd06555 ASCH_PF0470_like ASC-1 homology domain, subfamily similar to Pyrococcus furiosus Pf0470. The ASCH domain, a small beta-barrel domain found in all three kingdoms of life, resembles the RNA-binding PUA domain and may also interact with RNA. ASCH has been proposed to function as an RNA-binding domain during coactivation, RNA-processing and the regulation of prokaryotic translation.
Probab=100.00 E-value=8.6e-40 Score=268.19 Aligned_cols=104 Identities=43% Similarity=0.611 Sum_probs=101.7
Q ss_pred eeeccchhhHHHHhcCCceEEEeecCccccCCCCCCEEEEce-----eEEEEEEEEeecCCHHHHHhccCccccCCCCCC
Q 022686 131 FELHVQEPFFSFIKDGLETVEGRCTISDYNSIGPGSVILLNK-----CMMLKVQSVCHYDSFSEMLEAESLVKVLPGVKT 205 (293)
Q Consensus 131 ~eM~Lqe~yF~lIksGkKTIE~RLnDeKrq~IkvGD~I~F~~-----~l~v~V~~Vr~Y~SF~eLLe~Egl~kvlPg~~S 205 (293)
|+|+|+++||++|++|+||||||+||+||++|++||+|+|++ ++.|+|++|++|+||++||++|++.+|+|+++|
T Consensus 1 h~m~l~~~~F~~I~~G~KtiEiRlnD~kr~~ikvGD~I~f~~~~~~~~l~v~V~~i~~Y~sF~~ll~~e~~~~~~~~~~s 80 (109)
T cd06555 1 HEMGLEEEPFELIKSGKKTIEIRLNDEKRQQIKVGDKILFNDLDTGQQLLVKVVDIRKYDSFRELLEEEGLEKVGPGVDS 80 (109)
T ss_pred CccccChHHHHHHHcCCCEEEEEecccchhcCCCCCEEEEEEcCCCcEEEEEEEEEEecCCHHHHHHhcCHhhcCCCCCc
Confidence 789999999999999999999999999999999999999986 899999999999999999999999999999999
Q ss_pred HHHHHHHHHhhCCHhHHhhcceEEEEEEe
Q 022686 206 IEEGVQIYRKFYTEEKERSNGVLAICISK 234 (293)
Q Consensus 206 iEEgv~~yr~iYskEkE~~yGVvAIeI~l 234 (293)
+|+|+++||+|||+|||++||||||+|++
T Consensus 81 ~ee~~~~~~~~Y~~e~e~~~GvlaI~i~~ 109 (109)
T cd06555 81 IEEGVKDTYKIYSKEQEKKYGVLAIEIRV 109 (109)
T ss_pred HHHHHHHHHHhCCHHHHHhcCEEEEEEEC
Confidence 99999999999999999999999999974
No 2
>COG4043 Preprotein translocase subunit Sec61beta [Intracellular trafficking, secretion, and vesicular transport]
Probab=100.00 E-value=3.1e-39 Score=264.32 Aligned_cols=106 Identities=38% Similarity=0.631 Sum_probs=103.9
Q ss_pred ceeeccchhhHHHHhcCCceEEEeecCccccCCCCCCEEEEc-eeEEEEEEEEeecCCHHHHHhccCccccCCCCCCHHH
Q 022686 130 EFELHVQEPFFSFIKDGLETVEGRCTISDYNSIGPGSVILLN-KCMMLKVQSVCHYDSFSEMLEAESLVKVLPGVKTIEE 208 (293)
Q Consensus 130 e~eM~Lqe~yF~lIksGkKTIE~RLnDeKrq~IkvGD~I~F~-~~l~v~V~~Vr~Y~SF~eLLe~Egl~kvlPg~~SiEE 208 (293)
.|+|+|+++||++|++|+|||||||||+||++||+||+|+|| +.+.|+|++||.|+||++||+.||++|++|+.+|+||
T Consensus 2 ~~~mgL~eeylE~IK~GkK~iEvRl~d~krr~ik~GD~IiF~~~~l~v~V~~vr~Y~tF~~mlreepiE~v~p~~~S~ee 81 (111)
T COG4043 2 VHRMGLREEYLELIKAGKKKIEVRLADPKRRQIKPGDKIIFNGDKLKVEVIDVRVYDTFEEMLREEPIENVLPDVPSFEE 81 (111)
T ss_pred ceeechHHHHHHHHHcccceEEEEecCHhhcCCCCCCEEEEcCCeeEEEEEEEeehhHHHHHHHhcChhhhCCCCccHHH
Confidence 489999999999999999999999999999999999999999 7999999999999999999999999999999999999
Q ss_pred HHHHHHhhCCHhHHhhcceEEEEEEec
Q 022686 209 GVQIYRKFYTEEKERSNGVLAICISKM 235 (293)
Q Consensus 209 gv~~yr~iYskEkE~~yGVvAIeI~l~ 235 (293)
||+.||+||++|+|+.|||+||+|+..
T Consensus 82 ~l~~~~~~Y~~~kE~~yGvlaI~ie~i 108 (111)
T COG4043 82 GLRRYRNFYPSEKEKRYGVLAIEIEPI 108 (111)
T ss_pred HHHHHHHhCcHhHhhccceEEEEEEEc
Confidence 999999999999999999999999865
No 3
>cd06541 ASCH ASC-1 homology or ASCH domain, a small beta-barrel domain found in all three kingdoms of life. ASCH resembles the RNA-binding PUA domain and may also interact with RNA. ASCH has been proposed to function as an RNA-binding domain during coactivation, RNA-processing and the regulation of prokaryotic translation. The domain has been named after the ASC-1 protein, the activating signal cointegrator 1 or thyroid hormone receptor interactor protein 4 (TRIP4). ASC-1 is conserved in many eukaryotes and has been suggested to participate in a protein complex that interacts with RNA. It has been shown that ASC-1 mediates the interaction between various transciption factors and the basal transcriptional machinery.
Probab=99.83 E-value=1.3e-20 Score=150.99 Aligned_cols=100 Identities=17% Similarity=0.099 Sum_probs=93.7
Q ss_pred eccchhhHHHHhcCCceEEEeecCccccCCCCCCEEEEce----eEEEEEEEEeecCCHHHHHhccCccccCCCCCCHHH
Q 022686 133 LHVQEPFFSFIKDGLETVEGRCTISDYNSIGPGSVILLNK----CMMLKVQSVCHYDSFSEMLEAESLVKVLPGVKTIEE 208 (293)
Q Consensus 133 M~Lqe~yF~lIksGkKTIE~RLnDeKrq~IkvGD~I~F~~----~l~v~V~~Vr~Y~SF~eLLe~Egl~kvlPg~~SiEE 208 (293)
|++.+++|++|.+|+||+|+|+++++++.+++||.|+|.+ .+.++|++|+.|++| +++.++...+..+|..|+++
T Consensus 2 l~~~~~~~~lI~~G~Ktat~r~~~~~~~~~k~Gd~~i~~~~~~~~~~i~v~~V~~~~~f-~~~~~e~a~~eGegd~sl~~ 80 (105)
T cd06541 2 LMFGDRYGQLVVSGRKTIEIRSLDIYEQLPKAGDYLIILDGQQPLAIAEVVKVEIMPMV-NELSEEQEQAEGEGDLTLLY 80 (105)
T ss_pred ceechHHHHHHHCCCCEEEEEcchhcccCCCCCCEEEEecCCCcEEEEEEEEEEEEECH-HHccHHHHHHcCCCchhHHH
Confidence 6789999999999999999999999999999999999998 899999999999999 67777777777888889999
Q ss_pred HHHHHHhhCCHhHHhhcceEEEEEE
Q 022686 209 GVQIYRKFYTEEKERSNGVLAICIS 233 (293)
Q Consensus 209 gv~~yr~iYskEkE~~yGVvAIeI~ 233 (293)
.++.+++||+++++.++||++|+++
T Consensus 81 ~~~~~~~~~~~~~~~~~~vv~i~F~ 105 (105)
T cd06541 81 ELKEHAAFFKEELAPDMLLYAISFE 105 (105)
T ss_pred HHHHHHHHhhHHhCCCCceEEEEeC
Confidence 9999999999999999999999974
No 4
>PF04266 ASCH: ASCH domain; InterPro: IPR007374 The ASCH domain adopts a beta-barrel fold similar to that of the PUA domain (IPR002478 from INTERPRO). It is thought to function as an RNA-binding domain during coactivation, RNA-processing and possibly during prokaryotic translation regulation [].; PDB: 1TE7_A 2Z0T_C 1WK2_A 2DP9_A 1T62_A 3S9X_A 2E5O_A 1XNE_A 3IUW_B 1S04_A.
Probab=99.66 E-value=3.9e-16 Score=121.55 Aligned_cols=98 Identities=30% Similarity=0.376 Sum_probs=86.4
Q ss_pred eccchhhHHHHhcCCceEEEeecCccccCCCCCCEEEEce------eEEEEEEEEeecCCHHHHHhccCccccCCCCCCH
Q 022686 133 LHVQEPFFSFIKDGLETVEGRCTISDYNSIGPGSVILLNK------CMMLKVQSVCHYDSFSEMLEAESLVKVLPGVKTI 206 (293)
Q Consensus 133 M~Lqe~yF~lIksGkKTIE~RLnDeKrq~IkvGD~I~F~~------~l~v~V~~Vr~Y~SF~eLLe~Egl~kvlPg~~Si 206 (293)
|.+.++||++|.+|+||+|+|+.++++..++.++.|+|+. ...++|++|+.+ +|++|.++... ..|. |+
T Consensus 1 Lsi~~~~~~~Il~G~Kt~e~R~~~~~~~~~~g~~~iv~~~~~~~~~~~~v~v~~V~~~-~~~e~~~~~a~---~eg~-s~ 75 (105)
T PF04266_consen 1 LSIKPEYAELILSGKKTAEIRLWDEKLPKIRGDLVIVFNTDPDGKPVGIVEVTEVEVY-PFSELTEEHAR---LEGE-SL 75 (105)
T ss_dssp EEECHHHHHHHHTTSSCEEEECSTTTCCTTTTCEEEEETETTTTEEEEEEEEEEEEEE-EHHHHHHHHHH---HHCC--H
T ss_pred CEechHHHHHHHCCCcEEEEEcccceeccCCCCEEEEEEEecCCcEEEEEEEEEEEEe-hhhhCCHHHHh---Hhcc-CH
Confidence 6789999999999999999999999999988888888752 588899999999 99999988553 3344 99
Q ss_pred HHHHHHHHhhCCHhHHhhcceEEEEEEec
Q 022686 207 EEGVQIYRKFYTEEKERSNGVLAICISKM 235 (293)
Q Consensus 207 EEgv~~yr~iYskEkE~~yGVvAIeI~l~ 235 (293)
++..+.+++||+++.+...||++|+++++
T Consensus 76 e~~~~~~~~~y~~~~~~~~~v~~i~f~~v 104 (105)
T PF04266_consen 76 EEWREEHRDIYPREIEPDDGVVAIEFEVV 104 (105)
T ss_dssp HHHHHHHHHHCHHHHHCCCEEEEEEEEEE
T ss_pred HHHHHHHHHHccccccccceEEEEEEEec
Confidence 99999999999999998899999999874
No 5
>cd06552 ASCH_yqfb_like ASC-1 homology domain, subfamily similar to Escherichia coli Yqfb. The ASCH domain, a small beta-barrel domain found in all three kingdoms of life, resembles the RNA-binding PUA domain and may also interact with RNA. ASCH has been proposed to function as an RNA-binding domain during coactivation, RNA-processing and the regulation of prokaryotic translation.
Probab=98.98 E-value=2.5e-09 Score=83.60 Aligned_cols=94 Identities=21% Similarity=0.244 Sum_probs=74.4
Q ss_pred eccchhhHHHHhcCCceEEEeecCccccCCCCCCEEEEce----eEEEEEEEEeecCCHHHHHhccCccccCCCCCCHHH
Q 022686 133 LHVQEPFFSFIKDGLETVEGRCTISDYNSIGPGSVILLNK----CMMLKVQSVCHYDSFSEMLEAESLVKVLPGVKTIEE 208 (293)
Q Consensus 133 M~Lqe~yF~lIksGkKTIE~RLnDeKrq~IkvGD~I~F~~----~l~v~V~~Vr~Y~SF~eLLe~Egl~kvlPg~~SiEE 208 (293)
|.+.++++++|.+|+||+++|..+ ++.+++||.+.+.+ ...++|++|+. .+|.+ +.++. +-..|..|.++
T Consensus 2 ~~f~~~~~~~I~sG~Kt~t~R~~~--~~~~~~Gd~~~~~~~~~~~~~~~v~~V~~-~~~~~-l~~~~--A~~eG~~s~~~ 75 (100)
T cd06552 2 ILFFERYEEAILSGKKTATIRDGG--ESHLKPGDVVEVHTGERIFGEAEITSVEE-KTLGE-LTDED--ARQEGFPSLEE 75 (100)
T ss_pred eechHHHHHHHHcCCCEEEEeCCC--ccCCCCCCEEEEEECCEEEEEEEEEEEEE-EEhhh-CCHHH--HHhcCCccHHH
Confidence 567789999999999999999975 45699999999862 68889999977 88988 44432 34457779999
Q ss_pred HHHHHHhhCCHhHHhhcceEEEEEE
Q 022686 209 GVQIYRKFYTEEKERSNGVLAICIS 233 (293)
Q Consensus 209 gv~~yr~iYskEkE~~yGVvAIeI~ 233 (293)
..+.++++|+.++.. -=|..|+++
T Consensus 76 ~~~~l~~~Y~~~~~~-~~v~vi~F~ 99 (100)
T cd06552 76 LKEALKEIYPGLKDD-DEVYVIEFR 99 (100)
T ss_pred HHHHHHHHcCCCCCC-CEEEEEEEE
Confidence 999999999987633 336666665
No 6
>PF12961 DUF3850: Domain of Unknown Function with PDB structure (DUF3850)
Probab=98.41 E-value=7.6e-07 Score=69.53 Aligned_cols=53 Identities=21% Similarity=0.422 Sum_probs=46.4
Q ss_pred eeeccchhhHHHHhcCCceEEEeecCccccCCCCCCEEEEc---------eeEEEEEEEEeecCC
Q 022686 131 FELHVQEPFFSFIKDGLETVEGRCTISDYNSIGPGSVILLN---------KCMMLKVQSVCHYDS 186 (293)
Q Consensus 131 ~eM~Lqe~yF~lIksGkKTIE~RLnDeKrq~IkvGD~I~F~---------~~l~v~V~~Vr~Y~S 186 (293)
|++.+.++||+.+.+|+||.|+|.||..+ ++||.+.+. ..+.++|+-|-.|..
T Consensus 1 H~LKi~p~yF~~V~~G~KtfEiRkNDRdf---~VGD~L~L~E~~~~~YTGr~~~~~Ityi~~~~~ 62 (72)
T PF12961_consen 1 HELKILPEYFEAVLSGRKTFEIRKNDRDF---QVGDILVLREWDNGEYTGREIEAEITYITDYEQ 62 (72)
T ss_pred CceeecHHHHHHHHCCCceEEEEecCCCC---CCCCEEEEEEecCCCccccEEEEEEEEEeecCC
Confidence 78999999999999999999999999765 699999986 278899999877543
No 7
>PRK04980 hypothetical protein; Provisional
Probab=96.40 E-value=0.026 Score=46.87 Aligned_cols=81 Identities=23% Similarity=0.256 Sum_probs=60.3
Q ss_pred eeccchhhHHHHhcCCceEEEeecCccccCCCCCCEEEE-ce-----eEEEEEEEEeecCCHHHHHhccCccccCCCCCC
Q 022686 132 ELHVQEPFFSFIKDGLETVEGRCTISDYNSIGPGSVILL-NK-----CMMLKVQSVCHYDSFSEMLEAESLVKVLPGVKT 205 (293)
Q Consensus 132 eM~Lqe~yF~lIksGkKTIE~RLnDeKrq~IkvGD~I~F-~~-----~l~v~V~~Vr~Y~SF~eLLe~Egl~kvlPg~~S 205 (293)
+|...++|-.+|-+|+||+-+|- +.-...++||.+.- .+ -..++|++|. +-+|.+|=++ .+...|. |
T Consensus 4 ~itF~~r~~~~ILsGkKTiTiRd--~se~~~~~G~~~~V~~~e~g~~~c~ieI~sV~-~i~f~eLte~---hA~qEg~-s 76 (102)
T PRK04980 4 KITFFERFEADILAGRKTITIRD--ESESHFKPGDVLRVGTFEDDRYFCTIEVLSVS-PVTFDELNEK---HAEQENM-T 76 (102)
T ss_pred eeeEHHHHHHHHHcCCceEEeeC--CcccCCCCCCEEEEEECCCCcEEEEEEEEEEE-EEehhhCCHH---HHHHhCC-C
Confidence 46778899999999999999998 44678899999876 32 3445666654 4556665443 2233566 8
Q ss_pred HHHHHHHHHhhCCH
Q 022686 206 IEEGVQIYRKFYTE 219 (293)
Q Consensus 206 iEEgv~~yr~iYsk 219 (293)
+++--+.++++|+.
T Consensus 77 L~elk~~i~~iYp~ 90 (102)
T PRK04980 77 LPELKQVIAEIYPN 90 (102)
T ss_pred HHHHHHHHHHHCCC
Confidence 99999999999996
No 8
>COG2411 Uncharacterized conserved protein [Function unknown]
Probab=92.42 E-value=1 Score=41.17 Aligned_cols=80 Identities=23% Similarity=0.285 Sum_probs=60.6
Q ss_pred eccchhhHHHHhcCCceEEEeecCccccCCCCCCEEEEce----eEEEEEEEEeecCCHHHHHhccCccccCCCCCCHHH
Q 022686 133 LHVQEPFFSFIKDGLETVEGRCTISDYNSIGPGSVILLNK----CMMLKVQSVCHYDSFSEMLEAESLVKVLPGVKTIEE 208 (293)
Q Consensus 133 M~Lqe~yF~lIksGkKTIE~RLnDeKrq~IkvGD~I~F~~----~l~v~V~~Vr~Y~SF~eLLe~Egl~kvlPg~~SiEE 208 (293)
+.+..+|-+.|-+|+|+.-||+. --..++|+.+.... --.++|++|+ |.--+++=++ ++.+.|..|.||
T Consensus 9 l~f~gkY~~~ii~GkKr~TIR~G---~~~~k~g~eVyIh~~g~i~gkAkIk~V~-~KrV~ELTdE---DAr~DGF~sreE 81 (188)
T COG2411 9 LEFDGKYKDKIIDGKKRTTIRLG---KIVLKPGSEVYIHSGGYIIGKAKIKKVK-TKRVSELTDE---DARLDGFRSREE 81 (188)
T ss_pred eeechHHHHHHhcCceeEEEecC---cccCCCCCEEEEEECCEEEEEEEEEEEE-EeeHhhhhHH---HHHhcccccHHH
Confidence 67888999999999999999998 34568999988863 2345556554 3444555443 345678999999
Q ss_pred HHHHHHhhCCH
Q 022686 209 GVQIYRKFYTE 219 (293)
Q Consensus 209 gv~~yr~iYsk 219 (293)
.+..++++|+.
T Consensus 82 Li~~LkriYg~ 92 (188)
T COG2411 82 LIEELKRIYGE 92 (188)
T ss_pred HHHHHHHHcCc
Confidence 99999999973
No 9
>COG3097 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=90.68 E-value=1.1 Score=37.72 Aligned_cols=91 Identities=18% Similarity=0.233 Sum_probs=58.1
Q ss_pred ccchhhHHHHhcCCceEEEeecCccccCCCCCCEEEE---ce---eEEEEEEEEeecCCHHHHHhccCccccCCCCCCHH
Q 022686 134 HVQEPFFSFIKDGLETVEGRCTISDYNSIGPGSVILL---NK---CMMLKVQSVCHYDSFSEMLEAESLVKVLPGVKTIE 207 (293)
Q Consensus 134 ~Lqe~yF~lIksGkKTIE~RLnDeKrq~IkvGD~I~F---~~---~l~v~V~~Vr~Y~SF~eLLe~Egl~kvlPg~~SiE 207 (293)
....++=..|.+|.|||-|| |.--+..++||++.- .+ -+..+|++|..- +|.++=+. -+--.+. ++.
T Consensus 7 TFf~rfe~dilagrKTITIR--D~SEShf~~g~vlrV~r~Ed~~~fc~I~vl~vspv-tld~l~e~---HAeQEnm-~L~ 79 (106)
T COG3097 7 TFFQRFEADILAGRKTITIR--DKSESHFKPGDVLRVGRFEDDRYFCTIEVLAVSPV-TLDELTEK---HAEQENM-TLP 79 (106)
T ss_pred eehhhccHHHhCCCceEEEe--ccchhcCCCCCEEEEEEecCCcEEEEEEEEEeccE-ehhhhhhh---hhhhhcC-CcH
Confidence 34456667899999999999 555678999999973 21 233455555432 34444332 0112344 778
Q ss_pred HHHHHHHhhCCHhHHhhcceEEEEEE
Q 022686 208 EGVQIYRKFYTEEKERSNGVLAICIS 233 (293)
Q Consensus 208 Egv~~yr~iYskEkE~~yGVvAIeI~ 233 (293)
|.=+.+..||+.+.+ +=|+..++.
T Consensus 80 eLk~vI~eIYP~~d~--fyVI~f~L~ 103 (106)
T COG3097 80 ELKKVIAEIYPNQDQ--FYVIEFQLA 103 (106)
T ss_pred HHHHHHHHHCCCCcE--EEEEEEEec
Confidence 888999999996654 445555543
No 10
>cd06553 ASCH_Ef3133_like ASC-1 homology domain, subfamily similar to Enterococcus faecalis Ef3133. The ASCH domain, a small beta-barrel domain found in all three kingdoms of life, resembles the RNA-binding PUA domain and may also interact with RNA. ASCH has been proposed to function as an RNA-binding domain during coactivation, RNA-processing and the regulation of prokaryotic translation.
Probab=90.00 E-value=1.9 Score=36.78 Aligned_cols=85 Identities=13% Similarity=0.144 Sum_probs=57.7
Q ss_pred cchhhHHHHhcCCceEEEeec----CccccCCCCCCEEEEce-------eEEEEEEEEeecCCHHHHHhccCccccCCCC
Q 022686 135 VQEPFFSFIKDGLETVEGRCT----ISDYNSIGPGSVILLNK-------CMMLKVQSVCHYDSFSEMLEAESLVKVLPGV 203 (293)
Q Consensus 135 Lqe~yF~lIksGkKTIE~RLn----DeKrq~IkvGD~I~F~~-------~l~v~V~~Vr~Y~SF~eLLe~Egl~kvlPg~ 203 (293)
+..++-++|.+|+||.-.|+. ++.-.--++||.=+..+ .+.+.-+++.+|..-.+-.-. +-..|.
T Consensus 12 ~ad~l~~LVl~G~KtAT~s~~~~y~~e~e~~p~vG~~~Ivld~~g~p~cvi~~~~V~~~~f~~vt~~~A~----~EGegd 87 (127)
T cd06553 12 LADELAALVLAGKKTATCSALALYEAEEEPLPKVGDYSIILDGQGKPVCIIETTEVEVVPFNDVTEEFAY----AEGEGD 87 (127)
T ss_pred HHHHHHHHHHcCCcEEEEechhhcccCCccCCCCCcEEEEECCCCCEEEEEEEEEEEEEEcccCCHHHHH----HhCCCc
Confidence 457788999999999999974 33444578999655542 455566666777665443322 112455
Q ss_pred CCHHHHHHHHHhhCCHhHHh
Q 022686 204 KTIEEGVQIYRKFYTEEKER 223 (293)
Q Consensus 204 ~SiEEgv~~yr~iYskEkE~ 223 (293)
.|+++==+..+.||+++...
T Consensus 88 ~sl~~Wr~~h~~ff~~~~~~ 107 (127)
T cd06553 88 RSLEYWRKAHEAFFTRELEE 107 (127)
T ss_pred cCHHHHHHHHHHHHHHHHhh
Confidence 58888888999999876543
No 11
>PRK11507 ribosome-associated protein; Provisional
Probab=82.31 E-value=2.4 Score=33.29 Aligned_cols=32 Identities=19% Similarity=0.247 Sum_probs=27.9
Q ss_pred HHhcCCceEEEeecCccccCCCCCCEEEEcee
Q 022686 142 FIKDGLETVEGRCTISDYNSIGPGSVILLNKC 173 (293)
Q Consensus 142 lIksGkKTIE~RLnDeKrq~IkvGD~I~F~~~ 173 (293)
+|++|.=.|-+-+...++++|.+||+|.|++.
T Consensus 33 ~I~eg~V~VNGeve~rRgkKl~~GD~V~~~g~ 64 (70)
T PRK11507 33 AIAEGQVKVDGAVETRKRCKIVAGQTVSFAGH 64 (70)
T ss_pred HHHcCceEECCEEecccCCCCCCCCEEEECCE
Confidence 58888878888888889999999999999873
No 12
>COG1935 Uncharacterized conserved protein [Function unknown]
Probab=75.70 E-value=5.6 Score=34.38 Aligned_cols=43 Identities=21% Similarity=0.369 Sum_probs=34.6
Q ss_pred HHHhcCCceEEEee--cCccccCCCCCCEEEEc-----------eeEEEEEEEEee
Q 022686 141 SFIKDGLETVEGRC--TISDYNSIGPGSVILLN-----------KCMMLKVQSVCH 183 (293)
Q Consensus 141 ~lIksGkKTIE~RL--nDeKrq~IkvGD~I~F~-----------~~l~v~V~~Vr~ 183 (293)
++++++.+|||||= |..---++++||.+-.+ .-+.++|..+..
T Consensus 16 ~l~~~~~rTieiRsa~N~~tv~rl~~GDlVFlT~~~~~Dl~~GtsGiiAkV~~vev 71 (122)
T COG1935 16 SLLRNPIRTIEIRSARNLLTVLRLHEGDLVFLTSTSLEDLTKGTSGIIAKVRRVEV 71 (122)
T ss_pred HHHhCCceEEEEEcccchHHhhcCCCCCEEEEehhHhhHhhcCcceeEEEEEEEEE
Confidence 47899999999994 55677889999999876 157888887765
No 13
>cd06554 ASCH_ASC-1_like ASC-1 homology domain, ASC-1-like subfamily. The ASCH domain, a small beta-barrel domain found in all three kingdoms of life, resembles the RNA-binding PUA domain and may also interact with RNA. ASCH has been proposed to function as an RNA-binding domain during coactivation, RNA-processing and the regulation of prokaryotic translation. The domain has been named after the ASC-1 protein, the activating signal cointegrator 1 or thyroid hormone receptor interactor protein 4 (TRIP4). ASC-1 is conserved in many eukaryotes and has been suggested to participate in a protein complex that interacts with RNA. It has been shown that ASC-1 mediates the interaction between various transciption factors and the basal transcriptional machinery.
Probab=69.47 E-value=3.3 Score=34.71 Aligned_cols=28 Identities=32% Similarity=0.725 Sum_probs=24.2
Q ss_pred eccchhhHHHHhcCCceEEEeecCcccc
Q 022686 133 LHVQEPFFSFIKDGLETVEGRCTISDYN 160 (293)
Q Consensus 133 M~Lqe~yF~lIksGkKTIE~RLnDeKrq 160 (293)
+-+.++|-.+|..|.|+||+|--..+++
T Consensus 4 lsi~qPwa~li~~g~K~~E~R~w~t~~r 31 (113)
T cd06554 4 LSIHQPWASLIVRGIKRIEGRSWATNYR 31 (113)
T ss_pred eEEeCcHHHHHHcCCCceecccCCCCcc
Confidence 5678999999999999999998776654
No 14
>PF13275 S4_2: S4 domain; PDB: 1P9K_A.
Probab=68.93 E-value=2.2 Score=32.82 Aligned_cols=31 Identities=23% Similarity=0.467 Sum_probs=18.5
Q ss_pred HHhcCCceEEEeecCccccCCCCCCEEEEce
Q 022686 142 FIKDGLETVEGRCTISDYNSIGPGSVILLNK 172 (293)
Q Consensus 142 lIksGkKTIE~RLnDeKrq~IkvGD~I~F~~ 172 (293)
+|++|.=.|-+-+...++++|.+||.|.|++
T Consensus 29 ~I~~g~V~VNGe~e~rrg~Kl~~GD~V~~~~ 59 (65)
T PF13275_consen 29 LIQEGEVKVNGEVETRRGKKLRPGDVVEIDG 59 (65)
T ss_dssp HHHHHHHEETTB----SS----SSEEEEETT
T ss_pred HHHcCceEECCEEccccCCcCCCCCEEEECC
Confidence 5777766666666677999999999999975
No 15
>TIGR02988 YaaA_near_RecF S4 domain protein YaaA. This small protein has a single S4 domain (pfam01479), as do bacterial ribosomal protein S4, some pseudouridine synthases, tyrosyl-tRNA synthetases. The S4 domain may bind RNA. Members of this protein family are found almost exclusively in the Firmicutes, and almost invariably just a few nucleotides upstream of the gene for the DNA replication and repair protein RecF. The few members of this family that are not near recF are found instead near dnaA and/or dnaN, the usual neighbors of recF, near the origin of replication. The conserved location suggests a possible role in replication in the Firmicutes lineage.
Probab=64.41 E-value=8.8 Score=27.66 Aligned_cols=31 Identities=23% Similarity=0.307 Sum_probs=24.7
Q ss_pred HHHhcCCceEEEeecCccccCCCCCCEEEEc
Q 022686 141 SFIKDGLETVEGRCTISDYNSIGPGSVILLN 171 (293)
Q Consensus 141 ~lIksGkKTIE~RLnDeKrq~IkvGD~I~F~ 171 (293)
.+|+.|.=+|-++.-..+..+++.||.|.|.
T Consensus 29 ~li~~G~V~VNg~~~~~~~~~l~~Gd~v~i~ 59 (59)
T TIGR02988 29 WFLQENEVLVNGELENRRGKKLYPGDVIEIP 59 (59)
T ss_pred HHHHcCCEEECCEEccCCCCCCCCCCEEEeC
Confidence 3578888888777766667899999999873
No 16
>PRK12279 50S ribosomal protein L22/unknown domain fusion protein; Provisional
Probab=62.42 E-value=18 Score=35.50 Aligned_cols=104 Identities=13% Similarity=0.085 Sum_probs=69.4
Q ss_pred HhhcCchhHHhhhhccceeeccchhhHHHHhcC-CceEEEeecCccccCCCCCCEEEEce-----eEE--EEEEEEeecC
Q 022686 114 ILNKGSSDLVDILKAVEFELHVQEPFFSFIKDG-LETVEGRCTISDYNSIGPGSVILLNK-----CMM--LKVQSVCHYD 185 (293)
Q Consensus 114 ~~~kG~~el~~~l~~~e~eM~Lqe~yF~lIksG-kKTIE~RLnDeKrq~IkvGD~I~F~~-----~l~--v~V~~Vr~Y~ 185 (293)
++|+|+ .....-.....-|-|.++|-+.|-+| +|++|.|-.-.+ ..+|+|+++- .+. ++|.+|.. .
T Consensus 175 ~~~~~~-~~~~~~~~~~vLLSIKPeyaekIl~G~~K~~EfRK~~~~----~~~~~VvIYaTsPvkkIVGef~i~~Ii~-~ 248 (311)
T PRK12279 175 VVEKTA-SQKEEETTETIMISTSPKNAQVLFDDLEKNVIFYKTTPV----NKVLRVLVYVTSPTKKVVGEFDLESVEI-G 248 (311)
T ss_pred HHHHhh-hhhcccCCcEEEEEeCHHHHHHHhCCCceEEEEEeccCC----CCCCEEEEEecCCCcEEEEEEEEEEEEe-C
Confidence 567888 55555555666799999999999999 699999976433 4678998873 332 35555555 7
Q ss_pred CHHHHHhccCccccCCCCCCHHHHHHHHHhhCCHhHHhhcceEEEEEEec
Q 022686 186 SFSEMLEAESLVKVLPGVKTIEEGVQIYRKFYTEEKERSNGVLAICISKM 235 (293)
Q Consensus 186 SF~eLLe~Egl~kvlPg~~SiEEgv~~yr~iYskEkE~~yGVvAIeI~l~ 235 (293)
+-+.+-+..+ . .-|. |- +.|.+||.--+.+ +||+|.-+
T Consensus 249 ~P~~lW~k~~--~-~sGI-sk----~~F~~Yf~g~~~a----~Ai~I~~~ 286 (311)
T PRK12279 249 AISSIWRKYG--K-QSVI-SK----KEYDAYYEGKDKA----HALVSKKA 286 (311)
T ss_pred CHHHHHHHHh--h-ccCC-CH----HHHHHHhCCCceE----EEEEeCCc
Confidence 7777777522 2 1244 31 4577777754443 58888754
No 17
>COG1868 FliM Flagellar motor switch protein [Cell motility and secretion]
Probab=61.03 E-value=3.6 Score=40.36 Aligned_cols=36 Identities=19% Similarity=0.177 Sum_probs=28.7
Q ss_pred eEEEeecCccccCCCCCCEEEEc----eeEEEEEEEEeec
Q 022686 149 TVEGRCTISDYNSIGPGSVILLN----KCMMLKVQSVCHY 184 (293)
Q Consensus 149 TIE~RLnDeKrq~IkvGD~I~F~----~~l~v~V~~Vr~Y 184 (293)
-.++++.-.+.-++++||+|.|. +.+.+.|.+..+|
T Consensus 261 l~~~~ltl~~il~L~vGDVI~l~~~~~d~v~v~v~g~~~f 300 (332)
T COG1868 261 LGEISLTLREILRLEVGDVIPLEKPADDRVTVSVGGKPKF 300 (332)
T ss_pred eecceeeHHHHhCCCCCcEEECCCCCCceEEEEECCEEEE
Confidence 34455566688899999999997 4788888888877
No 18
>PF13550 Phage-tail_3: Putative phage tail protein
Probab=58.92 E-value=23 Score=28.89 Aligned_cols=44 Identities=18% Similarity=0.218 Sum_probs=34.6
Q ss_pred hhHHHHhcCCceEEEeecCccccCCCCCCEEEEc---eeEEEEEEEEe
Q 022686 138 PFFSFIKDGLETVEGRCTISDYNSIGPGSVILLN---KCMMLKVQSVC 182 (293)
Q Consensus 138 ~yF~lIksGkKTIE~RLnDeKrq~IkvGD~I~F~---~~l~v~V~~Vr 182 (293)
..+.....+.+|+..++.-+- -.+.|||+|.+. +...++|++|.
T Consensus 117 ~~l~~~~~~r~t~~f~~~~~~-~~l~pGDvi~l~~~~~~~~~RI~~i~ 163 (164)
T PF13550_consen 117 RLLRRSRYERRTVSFTLPPDG-LALEPGDVIALSDDGRDMRFRITEIE 163 (164)
T ss_pred HHHHHhhccceEEEEEEChhh-ccCCCCCEEEEEeCCCceEEEEEEEe
Confidence 344556678889999988776 679999999998 36788888774
No 19
>PF04322 DUF473: Protein of unknown function (DUF473); InterPro: IPR007417 This is a family of uncharacterised archaeal proteins.
Probab=55.32 E-value=33 Score=29.41 Aligned_cols=43 Identities=21% Similarity=0.409 Sum_probs=32.9
Q ss_pred HHHhcCCceEEEee--cCccccCCCCCCEEEEce-----------eEEEEEEEEee
Q 022686 141 SFIKDGLETVEGRC--TISDYNSIGPGSVILLNK-----------CMMLKVQSVCH 183 (293)
Q Consensus 141 ~lIksGkKTIE~RL--nDeKrq~IkvGD~I~F~~-----------~l~v~V~~Vr~ 183 (293)
++++..-||+|+|= |----.++++||.|-.+. =+.++|+++..
T Consensus 16 eL~~~~~RTiEirSa~N~~~~~~~~~Gd~VFlT~~~~~Dl~~Gt~GiIa~V~~~~i 71 (119)
T PF04322_consen 16 ELKKNHIRTIEIRSAHNVIALESLDPGDRVFLTSVSLEDLTPGTEGIIAEVKKIEI 71 (119)
T ss_pred HHHhCCceEEEEEcchheeeeecCCCCCEEEEecCCHHHCCCCCCeEEEEEEEEEE
Confidence 57888999999995 445677889999998762 47777777654
No 20
>PF11604 CusF_Ec: Copper binding periplasmic protein CusF; InterPro: IPR021647 CusF is a periplasmic protein involved in copper and silver resistance in Escherichia coil. CusF forms a five-stranded beta-barrel OB fold. Cu(I) binds to H36, M47 and M49 which are conserved residues in the protein []. ; PDB: 2L55_A 2VB3_X 1ZEQ_X 2QCP_X 3E6Z_X 2VB2_X.
Probab=54.85 E-value=8.6 Score=29.23 Aligned_cols=58 Identities=7% Similarity=0.009 Sum_probs=35.4
Q ss_pred hhccceeeccchhhHHHHhcCCceEEEeecCc-cccCCCCCCEEEEc----eeEEEEEEEEee
Q 022686 126 LKAVEFELHVQEPFFSFIKDGLETVEGRCTIS-DYNSIGPGSVILLN----KCMMLKVQSVCH 183 (293)
Q Consensus 126 l~~~e~eM~Lqe~yF~lIksGkKTIE~RLnDe-Krq~IkvGD~I~F~----~~l~v~V~~Vr~ 183 (293)
+++....+.|.+++...+.=..=|-..++.+. ....+++||.|.|. +.-...|++|++
T Consensus 6 vd~~~~~iti~H~pIp~l~wpaMTM~F~v~~~~~l~~l~~Gd~V~F~~~~~~~~~~~I~~i~~ 68 (70)
T PF11604_consen 6 VDPEAGTITISHEPIPELGWPAMTMDFPVADPVDLAGLKPGDKVRFTFERTDDGSYVITAIEP 68 (70)
T ss_dssp EETTTTEEEEEE--BCCCTB-SEEEEEE--TTSEESS-STT-EEEEEEEEETTCEEEEEEEEE
T ss_pred EecCCCEEEEecCccccCCCCCeEEEEEcCChhhhhcCCCCCEEEEEEEECCCCcEEEEEEEE
Confidence 34444567788888777777788888998855 77999999999996 222345555543
No 21
>PRK06461 single-stranded DNA-binding protein; Reviewed
Probab=54.32 E-value=30 Score=29.04 Aligned_cols=45 Identities=20% Similarity=0.195 Sum_probs=34.9
Q ss_pred HHhcCCceEEEeecCccccCCCCCCEEEEce--------eEEEEEE---EEeecCC
Q 022686 142 FIKDGLETVEGRCTISDYNSIGPGSVILLNK--------CMMLKVQ---SVCHYDS 186 (293)
Q Consensus 142 lIksGkKTIE~RLnDeKrq~IkvGD~I~F~~--------~l~v~V~---~Vr~Y~S 186 (293)
.|.+.+-+|.+++-+++...+++||.|.+.+ ++...|. .|+.-+.
T Consensus 45 ~l~D~TG~I~~tlW~~~a~~l~~GdvV~I~na~v~~f~G~lqL~i~~~~~i~~~~~ 100 (129)
T PRK06461 45 VVGDETGRVKLTLWGEQAGSLKEGEVVEIENAWTTLYRGKVQLNVGKYGSISESDD 100 (129)
T ss_pred EEECCCCEEEEEEeCCccccCCCCCEEEEECcEEeeeCCEEEEEECCCEEEEECCc
Confidence 4567777899999999999999999999863 5566666 4666664
No 22
>PF14571 Di19_C: Stress-induced protein Di19, C-terminal
Probab=53.83 E-value=8.8 Score=31.74 Aligned_cols=31 Identities=48% Similarity=0.687 Sum_probs=26.1
Q ss_pred hhHHhhhcc-ccccccCCCCCCChhhhhhhccCCC
Q 022686 254 GIQSLLGLS-HTAGTISDALPPPRSALLSSFMLPF 287 (293)
Q Consensus 254 g~~~llg~~-~t~gt~~~~lppp~s~ll~s~~~~~ 287 (293)
-+|+|||=. ...++.+++-|-| |||||+...
T Consensus 13 ~LQsllGgs~~~~~~ssn~apDP---LLSSFI~n~ 44 (105)
T PF14571_consen 13 YLQSLLGGSRSSSSSSSNSAPDP---LLSSFICNF 44 (105)
T ss_pred hhhhhcCCCcCCCCCCCCCCCcH---HHHHHhcCC
Confidence 489999986 6778888999988 999999764
No 23
>PRK10348 ribosome-associated heat shock protein Hsp15; Provisional
Probab=52.12 E-value=30 Score=30.12 Aligned_cols=53 Identities=11% Similarity=0.126 Sum_probs=39.6
Q ss_pred HHHHhcCCceEEEeecCccccCCCCCCEEEEce---eEEEEEEEEee----cCCHHHHHhc
Q 022686 140 FSFIKDGLETVEGRCTISDYNSIGPGSVILLNK---CMMLKVQSVCH----YDSFSEMLEA 193 (293)
Q Consensus 140 F~lIksGkKTIE~RLnDeKrq~IkvGD~I~F~~---~l~v~V~~Vr~----Y~SF~eLLe~ 193 (293)
-++|.+|+=.|-++. ...=..+++||.|.+.. ...++|.++-. .+-=++||+.
T Consensus 28 ~~lI~~G~V~vnG~~-~Kps~~V~~gd~l~v~~~~~~~~v~Vl~l~~~R~~a~~A~~lYe~ 87 (133)
T PRK10348 28 REMIEGGKVHYNGQR-SKPSKIVELNATLTLRQGNDERTVIVKAITEQRRPASEAALLYEE 87 (133)
T ss_pred HHHHHCCCEEECCEE-CCCCCccCCCCEEEEEECCEEEEEEEeECccccCChHHHHHHHHh
Confidence 358999999999988 77778899999999863 56666766543 3444567765
No 24
>smart00363 S4 S4 RNA-binding domain.
Probab=51.89 E-value=17 Score=23.91 Aligned_cols=35 Identities=23% Similarity=0.312 Sum_probs=23.9
Q ss_pred hhHHHHhcCCceEEEeecCccccCCCCCCEEEEce
Q 022686 138 PFFSFIKDGLETVEGRCTISDYNSIGPGSVILLNK 172 (293)
Q Consensus 138 ~yF~lIksGkKTIE~RLnDeKrq~IkvGD~I~F~~ 172 (293)
..-.+|++|.-.|-++..+..-..++.||.|.+..
T Consensus 18 ~~~~~i~~g~i~vng~~~~~~~~~l~~gd~i~~~~ 52 (60)
T smart00363 18 QARKLIEQGRVKVNGKKVTKPSYIVKPGDVISVRG 52 (60)
T ss_pred HHHHHHHcCCEEECCEEecCCCeEeCCCCEEEEcc
Confidence 34456777766666666634566789999998864
No 25
>KOG4476 consensus Gluconate transport-inducing protein [Signal transduction mechanisms; Carbohydrate transport and metabolism]
Probab=50.52 E-value=13 Score=35.64 Aligned_cols=32 Identities=25% Similarity=0.455 Sum_probs=28.7
Q ss_pred HHHHhcCC-ceEEEeecCccccCCCCCCEEEEc
Q 022686 140 FSFIKDGL-ETVEGRCTISDYNSIGPGSVILLN 171 (293)
Q Consensus 140 F~lIksGk-KTIE~RLnDeKrq~IkvGD~I~F~ 171 (293)
|++.+.|. +.||.|+-.++|..|..|++.+|.
T Consensus 21 f~a~r~G~l~~I~RR~~~ee~~lIrsGsIFVf~ 53 (248)
T KOG4476|consen 21 FQAVRLGYLPRIERRLTPEERELIRSGSIFVFD 53 (248)
T ss_pred HHHHHcccccccccccCcccceeeecCCEEEEe
Confidence 67777774 889999999999999999999997
No 26
>COG5037 TOS9 Gluconate transport-inducing protein [Signal transduction mechanisms / Carbohydrate transport and metabolism]
Probab=50.52 E-value=13 Score=35.64 Aligned_cols=32 Identities=25% Similarity=0.455 Sum_probs=28.7
Q ss_pred HHHHhcCC-ceEEEeecCccccCCCCCCEEEEc
Q 022686 140 FSFIKDGL-ETVEGRCTISDYNSIGPGSVILLN 171 (293)
Q Consensus 140 F~lIksGk-KTIE~RLnDeKrq~IkvGD~I~F~ 171 (293)
|++.+.|. +.||.|+-.++|..|..|++.+|.
T Consensus 21 f~a~r~G~l~~I~RR~~~ee~~lIrsGsIFVf~ 53 (248)
T COG5037 21 FQAVRLGYLPRIERRLTPEERELIRSGSIFVFD 53 (248)
T ss_pred HHHHHcccccccccccCcccceeeecCCEEEEe
Confidence 67777774 889999999999999999999997
No 27
>COG1188 Ribosome-associated heat shock protein implicated in the recycling of the 50S subunit (S4 paralog) [Translation, ribosomal structure and biogenesis]
Probab=49.38 E-value=30 Score=29.02 Aligned_cols=42 Identities=19% Similarity=0.345 Sum_probs=31.3
Q ss_pred HHHhcCCceEEEeecCccccCCCCCCEEEEc---eeEEEEEEEEee
Q 022686 141 SFIKDGLETVEGRCTISDYNSIGPGSVILLN---KCMMLKVQSVCH 183 (293)
Q Consensus 141 ~lIksGkKTIE~RLnDeKrq~IkvGD~I~F~---~~l~v~V~~Vr~ 183 (293)
+++..|+=.|-+... .-=..+|+||.|.+. +.+.++|.++..
T Consensus 29 ~~~~~GrV~vNG~~a-KpS~~VK~GD~l~i~~~~~~~~v~Vl~~~~ 73 (100)
T COG1188 29 EMIEGGRVKVNGQRA-KPSKEVKVGDILTIRFGNKEFTVKVLALGE 73 (100)
T ss_pred HHHHCCeEEECCEEc-ccccccCCCCEEEEEeCCcEEEEEEEeccc
Confidence 468888877777776 445678999999874 478888887654
No 28
>PF09953 DUF2187: Uncharacterized protein conserved in bacteria (DUF2187); InterPro: IPR018690 This family consists of various hypothetical bacterial proteins with known function. It includes the uncharacterised YkvS protein from Bacillus subtilis.
Probab=48.93 E-value=22 Score=27.16 Aligned_cols=30 Identities=17% Similarity=0.300 Sum_probs=20.2
Q ss_pred CCCCCCEEEEceeEEEEEE---------EEeecCCHHHH
Q 022686 161 SIGPGSVILLNKCMMLKVQ---------SVCHYDSFSEM 190 (293)
Q Consensus 161 ~IkvGD~I~F~~~l~v~V~---------~Vr~Y~SF~eL 190 (293)
.-++||+|.|.+.+..+|. ++..+++|.++
T Consensus 3 ~a~vGdiIefk~g~~G~V~kv~eNSVIVdIT~m~~~~e~ 41 (57)
T PF09953_consen 3 KAKVGDIIEFKDGFTGIVEKVYENSVIVDITIMENFDEL 41 (57)
T ss_pred ccccCcEEEEcCCcEEEEEEEecCcEEEEEEecCCcccc
Confidence 4578999999865555554 44456777664
No 29
>PF11184 DUF2969: Protein of unknown function (DUF2969); InterPro: IPR021351 This family of proteins with unknown function appears to be restricted to Lactobacillales.
Probab=47.97 E-value=20 Score=27.99 Aligned_cols=64 Identities=19% Similarity=0.268 Sum_probs=39.9
Q ss_pred CceEEEeecCccccCCCCCCEEEEceeEEEEEEEEeecCCHHHHHhccCccccCCCCCCHHHHHHHHHhhC
Q 022686 147 LETVEGRCTISDYNSIGPGSVILLNKCMMLKVQSVCHYDSFSEMLEAESLVKVLPGVKTIEEGVQIYRKFY 217 (293)
Q Consensus 147 kKTIE~RLnDeKrq~IkvGD~I~F~~~l~v~V~~Vr~Y~SF~eLLe~Egl~kvlPg~~SiEEgv~~yr~iY 217 (293)
-|.|||++.|.++.. .+|-.+...+.+.-+|.++ =.-| +.....+ ..--.+|+|+|++..-+-|
T Consensus 5 ~K~IeI~i~d~~~~~-~~~~~l~Igkk~IG~I~e~--d~~f-av~~~~~---~~~~~Ks~deAve~iI~~y 68 (71)
T PF11184_consen 5 NKKIEIEIKDTKVNG-QPGYELFIGKKVIGEIEED--DGRF-AVVKNDN---VEFFVKSLDEAVEAIIREY 68 (71)
T ss_pred ccceEEEEEecccCC-eEEEEEEECCEEEEEEEEc--CCcE-EEEeCCC---ceEEEcCHHHHHHHHHHHh
Confidence 489999999999833 3344555577777787776 3344 3333322 2223468899986654444
No 30
>smart00350 MCM minichromosome maintenance proteins.
Probab=47.46 E-value=22 Score=35.94 Aligned_cols=44 Identities=14% Similarity=0.101 Sum_probs=37.4
Q ss_pred eeccchhhHHHHhcCC--ceEEEeecCccccCCCCCCEEEEceeEEE
Q 022686 132 ELHVQEPFFSFIKDGL--ETVEGRCTISDYNSIGPGSVILLNKCMML 176 (293)
Q Consensus 132 eM~Lqe~yF~lIksGk--KTIE~RLnDeKrq~IkvGD~I~F~~~l~v 176 (293)
++.|||.+ +.+-.|. ++|++-|.++-=.+++|||.|.++..+.+
T Consensus 87 ~I~iQE~~-e~~p~G~~Prsi~v~l~~dLvd~~~PGD~V~i~Gi~~~ 132 (509)
T smart00350 87 KIKLQESP-EEVPAGQLPRSVDVILDGDLVDKAKPGDRVEVTGIYRN 132 (509)
T ss_pred EEEEEcCc-ccCCCCCCCcEEEEEEcccccCcccCCCEEEEEEEEEe
Confidence 58899965 7777888 89999999999999999999999765443
No 31
>COG1430 Uncharacterized conserved protein [Function unknown]
Probab=46.94 E-value=17 Score=31.32 Aligned_cols=25 Identities=12% Similarity=-0.024 Sum_probs=23.2
Q ss_pred CceEEEeecCccccCCCCCCEEEEc
Q 022686 147 LETVEGRCTISDYNSIGPGSVILLN 171 (293)
Q Consensus 147 kKTIE~RLnDeKrq~IkvGD~I~F~ 171 (293)
+..+|++...-++.+|++||.+.|.
T Consensus 96 ~yvLEl~~G~~~~~~i~vGd~v~~~ 120 (126)
T COG1430 96 RYVLELPAGWAARLGIKVGDRVEFR 120 (126)
T ss_pred cEEEEecCCchhhcCCccCCEEEec
Confidence 5789999999999999999999985
No 32
>PF01336 tRNA_anti-codon: OB-fold nucleic acid binding domain; InterPro: IPR004365 The OB-fold (oligonucleotide/oligosaccharide-binding fold) is found in all three kingdoms and its common architecture presents a binding face that has adapted to bind different ligands. The OB-fold is a five/six-stranded closed beta-barrel formed by 70-80 amino acid residues. The strands are connected by loops of varying length which form the functional appendages of the protein. The majority of OB-fold proteins use the same face for ligand binding or as an active site. Different OB-fold proteins use this 'fold-related binding face' to, variously, bind oligosaccharides, oligonucleotides, proteins, metal ions and catalytic substrates. This entry contains OB-fold domains that bind to nucleic acids []. It includes the anti-codon binding domain of lysyl, aspartyl, and asparaginyl-tRNA synthetases (See IPR004364 from INTERPRO). Aminoacyl-tRNA synthetases catalyse the addition of an amino acid to the appropriate tRNA molecule 6.1.1 from EC. This domain is found in RecG helicase involved in DNA repair. Replication factor A is a heterotrimeric complex, that contains a subunit in this family [, ]. This domain is also found at the C terminus of bacterial DNA polymerase III alpha chain.; GO: 0003676 nucleic acid binding; PDB: 1BBU_A 1KRS_A 1BBW_A 1KRT_A 1EQR_B 1IL2_B 1C0A_A 3KFU_A 1EOV_A 1ASY_A ....
Probab=46.53 E-value=27 Score=24.66 Aligned_cols=30 Identities=10% Similarity=0.170 Sum_probs=24.6
Q ss_pred HHhcCCceEEEeecC----ccccCCCCCCEEEEc
Q 022686 142 FIKDGLETVEGRCTI----SDYNSIGPGSVILLN 171 (293)
Q Consensus 142 lIksGkKTIE~RLnD----eKrq~IkvGD~I~F~ 171 (293)
-|.+|+.+|++++.. ..+..+++||.|.+.
T Consensus 21 ~l~D~tg~i~~~~~~~~~~~~~~~l~~g~~v~v~ 54 (75)
T PF01336_consen 21 TLEDGTGSIQVVFFNEEYERFREKLKEGDIVRVR 54 (75)
T ss_dssp EEEETTEEEEEEEETHHHHHHHHTS-TTSEEEEE
T ss_pred EEEECCccEEEEEccHHhhHHhhcCCCCeEEEEE
Confidence 367888899999988 478889999999986
No 33
>cd04498 hPOT1_OB2 hPOT1_OB2: A subfamily of OB folds similar to the second OB fold (OB2) of human protection of telomeres 1 protein (hPOT1). POT1 proteins bind to the single-stranded (ss) 3-prime ends of the telomere. hPOT1 binds specifically to ss telomeric DNA repeats ending with the sequence GGTTAG. The hPOT1 monomer consists of two closely connected OB folds (OB1-OB2) which cooperate to bind telomeric ssDNA. OB1 makes more extensive contact with the ssDNA than OB2. OB2 protects the 3' end of the ssDNA. hPOT1 is implicated in telomere length regulation.
Probab=46.44 E-value=19 Score=30.91 Aligned_cols=26 Identities=12% Similarity=0.132 Sum_probs=22.4
Q ss_pred CCceEEEeecCcc----ccCCCCCCEEEEce
Q 022686 146 GLETVEGRCTISD----YNSIGPGSVILLNK 172 (293)
Q Consensus 146 GkKTIE~RLnDeK----rq~IkvGD~I~F~~ 172 (293)
|+.+|+|=|+|+. |. +|+||.|.+.|
T Consensus 58 g~~ti~It~yD~H~~~ar~-lK~GdfV~L~N 87 (123)
T cd04498 58 KQLTIDILVYDNHVELAKS-LKPGDFVRIYN 87 (123)
T ss_pred CeEEEEEEEEcchHHHHhh-CCCCCEEEEEE
Confidence 7889999999993 45 99999999865
No 34
>COG0809 QueA S-adenosylmethionine:tRNA-ribosyltransferase-isomerase (queuine synthetase) [Translation, ribosomal structure and biogenesis]
Probab=45.20 E-value=31 Score=34.51 Aligned_cols=72 Identities=22% Similarity=0.274 Sum_probs=43.0
Q ss_pred eEEEeecCc-----------cccCCCCCCEEEEceeEEEEEEEEe-------ecC---CHH--HHHhccCccccCCCCCC
Q 022686 149 TVEGRCTIS-----------DYNSIGPGSVILLNKCMMLKVQSVC-------HYD---SFS--EMLEAESLVKVLPGVKT 205 (293)
Q Consensus 149 TIE~RLnDe-----------Krq~IkvGD~I~F~~~l~v~V~~Vr-------~Y~---SF~--eLLe~Egl~kvlPg~~S 205 (293)
+||+.|... .-+++|+||.|.|.+.+.++|++.. +|+ .|+ ++|++.|--..=|=.++
T Consensus 78 ~vEvll~~~~~~~~w~al~~~~kr~k~G~~i~f~~~l~a~v~e~~~~g~~~l~F~~~~~~~l~e~L~~~G~~PLPPYI~~ 157 (348)
T COG0809 78 KVEVLLERRLDDNRWLALIKPSKRLKAGDEIYFGDGLKATVLERLEHGLRLLEFDYEGIFSLLELLEKYGEMPLPPYIKR 157 (348)
T ss_pred eEEEEEEeecCCCcEEEEeccccCCCCCCEEEeCCCceEEEEEecCCceEEEEEecCCchhHHHHHHHcCCCCCCcccCC
Confidence 477766543 2467999999999876777776543 332 454 77777442222122222
Q ss_pred HHHH--HHHHHhhCCHh
Q 022686 206 IEEG--VQIYRKFYTEE 220 (293)
Q Consensus 206 iEEg--v~~yr~iYskE 220 (293)
-.+- .+.|...|+++
T Consensus 158 ~~~~~d~~~YQTVYak~ 174 (348)
T COG0809 158 KLDELDRDRYQTVYAKE 174 (348)
T ss_pred cccccchhhceeeeecC
Confidence 2222 45688899865
No 35
>PF07527 Hairy_orange: Hairy Orange; InterPro: IPR003650 This domain confers specificity among members of the Hairy/E(SPL) family. HES-2 (hairy and enhancer of split 2) is a transcription factor, and the hairy protein is a pair-rule protein that regulates embryonic segmentation and adult bristle patterning. These proteins are transcriptional repressors of genes that require the BHLH protein for their transcription.; GO: 0003677 DNA binding, 0006355 regulation of transcription, DNA-dependent; PDB: 2DB7_A.
Probab=44.37 E-value=19 Score=24.85 Aligned_cols=28 Identities=21% Similarity=0.592 Sum_probs=18.7
Q ss_pred hHHHHHHHHHhHhhcccccccCcCCCCCHHHHhhhhc
Q 022686 4 LKDCMEELLKFTLSSHIDETLDFDLGISSKFCTNLLQ 40 (293)
Q Consensus 4 l~~~~~el~~~~l~sh~~~~~~~~l~ls~~~c~~ll~ 40 (293)
.++|+.|..||.. +.. ++.++++.+|+.
T Consensus 7 y~~C~~Ev~~fL~--~~~-------~~~~~~~~rLl~ 34 (43)
T PF07527_consen 7 YSECLNEVSRFLS--SVE-------GVDPGVRARLLS 34 (43)
T ss_dssp HHHHHHHHHHHHH--HTS----------THHHHHHHH
T ss_pred HHHHHHHHHHHHh--cCC-------CCChHHHHHHHH
Confidence 4789999999983 333 124577887773
No 36
>cd04478 RPA2_DBD_D RPA2_DBD_D: A subfamily of OB folds corresponding to the OB fold of the central ssDNA-binding domain (DBD)-D of human RPA2 (also called RPA32). RPA2 is a subunit of Replication protein A (RPA). RPA is a nuclear ssDNA-binding protein (SSB) which appears to be involved in all aspects of DNA metabolism including replication, recombination, and repair. RPA also mediates specific interactions of various nuclear proteins. In animals, plants, and fungi, RPA is a heterotrimer with subunits of 70KDa (RPA1), 32kDa (RPA2), and 14 KDa (RPA3). The major DNA binding activity of RPA is associated with RPA1 DBD-A and DBD-B; RPA2 DBD-D is a weak ssDNA-binding domain. RPA2 DBD-D is also involved in trimerization. The ssDNA binding mechanism is believed to be multistep and to involve conformational change. N-terminal to human RPA2 DBD-D is a domain containing all the known phosphorylation sites of RPA. Human RPA2 is phosphorylated in a cell cycle dependent manner in response to DNA dam
Probab=43.37 E-value=63 Score=24.61 Aligned_cols=51 Identities=22% Similarity=0.236 Sum_probs=39.7
Q ss_pred HhcCCceEEEeecCc-------cccCCCCCCEEEEc-------eeEEEEEEEEeecCCHHHHHhc
Q 022686 143 IKDGLETVEGRCTIS-------DYNSIGPGSVILLN-------KCMMLKVQSVCHYDSFSEMLEA 193 (293)
Q Consensus 143 IksGkKTIE~RLnDe-------Krq~IkvGD~I~F~-------~~l~v~V~~Vr~Y~SF~eLLe~ 193 (293)
+.+|+.+|++|+-+. ..+.+++|+.|... ++..+.+..++.=+++.++.-+
T Consensus 22 L~D~TG~I~~~~W~~~~~~~~~~~~~~~~g~~v~v~G~v~~~~g~~ql~i~~i~~v~d~ne~~~h 86 (95)
T cd04478 22 IDDGTGTIEVRQWLDDDNDDSSEVEPIEEGTYVRVFGNLKSFQGKKSIMAFSIRPVTDFNEVTYH 86 (95)
T ss_pred EECCCCcEEEEEeCCCCCcccccccccccCCEEEEEEEEcccCCeeEEEEEEEEEeCCccHHHHh
Confidence 467888999998753 46678999988864 4777788889988888887654
No 37
>COG2501 S4-like RNA binding protein [Replication, recombination, and repair]
Probab=42.97 E-value=38 Score=26.93 Aligned_cols=34 Identities=21% Similarity=0.303 Sum_probs=26.1
Q ss_pred HHhcCCceEEEeecCccccCCCCCCEEEEceeEE
Q 022686 142 FIKDGLETVEGRCTISDYNSIGPGSVILLNKCMM 175 (293)
Q Consensus 142 lIksGkKTIE~RLnDeKrq~IkvGD~I~F~~~l~ 175 (293)
.|.+|.=+|-+-+-+.++.+|..||.|.|.+...
T Consensus 33 ~i~eg~V~vNGe~EtRRgkKlr~gd~V~i~~~~~ 66 (73)
T COG2501 33 FIAEGEVKVNGEVETRRGKKLRDGDVVEIPGQRY 66 (73)
T ss_pred HHHCCeEEECCeeeeccCCEeecCCEEEECCEEE
Confidence 4778866666666666999999999999987543
No 38
>PF01479 S4: S4 domain; InterPro: IPR002942 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms. The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. The S4 domain is a small domain consisting of 60-65 amino acid residues that was detected in the bacterial ribosomal protein S4, eukaryotic ribosomal S9, two families of pseudouridine synthases, a novel family of predicted RNA methylases, a yeast protein containing a pseudouridine synthetase and a deaminase domain, bacterial tyrosyl-tRNA synthetases, and a number of uncharacterised, small proteins that may be involved in translation regulation []. The S4 domain probably mediates binding to RNA.; GO: 0003723 RNA binding; PDB: 3BBU_A 1DM9_B 2K6P_A 3U5G_E 3U5C_E 3IZB_D 2XZM_D 2XZN_D 3O30_E 3O2Z_E ....
Probab=38.55 E-value=17 Score=24.76 Aligned_cols=31 Identities=29% Similarity=0.397 Sum_probs=26.3
Q ss_pred hhHHHHhcCCceEEEeecCccccCCCCCCEE
Q 022686 138 PFFSFIKDGLETVEGRCTISDYNSIGPGSVI 168 (293)
Q Consensus 138 ~yF~lIksGkKTIE~RLnDeKrq~IkvGD~I 168 (293)
.--.+|++|.=+|-++.-...-..+++||.|
T Consensus 18 ~a~~~I~~g~V~VNg~~v~~~~~~v~~~d~I 48 (48)
T PF01479_consen 18 EARRLIKQGRVKVNGKVVKDPSYIVKPGDVI 48 (48)
T ss_dssp HHHHHHHTTTEEETTEEESSTTSBESTTEEE
T ss_pred HHHHhcCCCEEEECCEEEcCCCCCCCCcCCC
Confidence 3456899999999888888888899999987
No 39
>PRK01424 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional
Probab=37.37 E-value=78 Score=31.98 Aligned_cols=47 Identities=9% Similarity=0.152 Sum_probs=32.0
Q ss_pred ceEEEeecCc-----------cccCCCCCCEEEEceeEEEEEEEE-------eec--C--CHHHHHhccC
Q 022686 148 ETVEGRCTIS-----------DYNSIGPGSVILLNKCMMLKVQSV-------CHY--D--SFSEMLEAES 195 (293)
Q Consensus 148 KTIE~RLnDe-----------Krq~IkvGD~I~F~~~l~v~V~~V-------r~Y--~--SF~eLLe~Eg 195 (293)
+.||+.|... ..+++++|+.|.|.+ +.++|++. -+| + +|.++|++.|
T Consensus 69 ~~iEill~~~l~~~~w~~lv~~~k~~~~G~~l~~~~-~~~~v~~~~~~g~~~~~f~~~~~~~~~~L~~~G 137 (366)
T PRK01424 69 KNITINLNQKLSDDSWSAFAKPARKLHVGDEFYFDN-HKVIITEKLAMGEIKVKFELNNISVFEFLDKYG 137 (366)
T ss_pred ceEEEEEEEEcCCCeEEEEEecCCCCCCCCEEEECC-eEEEEEEecCCCcEEEEEeCCCCCHHHHHHHcC
Confidence 4578877322 227788999999965 66777664 134 2 5888888866
No 40
>COG4933 Uncharacterized conserved protein [Function unknown]
Probab=36.12 E-value=27 Score=30.38 Aligned_cols=88 Identities=20% Similarity=0.166 Sum_probs=55.9
Q ss_pred eccchhhHHHHhcCCceEEEeecCccccCCCCCCEEEEc--e-------eEEEEEEEEeecCCHHHHHhccCccccCCCC
Q 022686 133 LHVQEPFFSFIKDGLETVEGRCTISDYNSIGPGSVILLN--K-------CMMLKVQSVCHYDSFSEMLEAESLVKVLPGV 203 (293)
Q Consensus 133 M~Lqe~yF~lIksGkKTIE~RLnDeKrq~IkvGD~I~F~--~-------~l~v~V~~Vr~Y~SF~eLLe~Egl~kvlPg~ 203 (293)
|-+.++|-+.|-+|.|+||.|=-.+.. +-.||++.-. . .++.+-+++..-.|-..++.+- +.
T Consensus 1 mSIkPk~a~~Ifdg~K~velrR~~p~~--~~~~~~~~VY~TsP~~aVvGef~~e~V~~~~~~siw~~~~~~-------~~ 71 (124)
T COG4933 1 MSIKPKFAEAIFDGVKKVELRRITPVP--IVEESTVIVYATSPVKAVVGEFTAERVEQVAIESIWRKAGKS-------GS 71 (124)
T ss_pred CccchhhHHHHhcCcceEEEEEecCCC--cccCcEEEEEecCchhheEEEEEeeeEEEcchHHHHHHhccc-------cc
Confidence 567889999999999999999776654 4456776643 2 3333333333334444444431 11
Q ss_pred CCHHHHHHHHHhhCCHhHHhhcceEEEEEEecC
Q 022686 204 KTIEEGVQIYRKFYTEEKERSNGVLAICISKMA 236 (293)
Q Consensus 204 ~SiEEgv~~yr~iYskEkE~~yGVvAIeI~l~~ 236 (293)
-+ .=++|.+|+.--+++ .||+++.|-
T Consensus 72 i~---~~~e~~~Y~~G~k~A----~ai~~~~p~ 97 (124)
T COG4933 72 IK---IGAEYLEYFEGAKEA----HAIEVSKPR 97 (124)
T ss_pred cc---chHHHHHHHhcccee----EEEEeCCce
Confidence 11 136788888877776 788888764
No 41
>PRK09838 periplasmic copper-binding protein; Provisional
Probab=34.67 E-value=25 Score=29.68 Aligned_cols=51 Identities=12% Similarity=0.061 Sum_probs=44.9
Q ss_pred hHHhhhhccceeeccchhhHHHHhcCCceEEEeecCcc-ccCCCCCCEEEEc
Q 022686 121 DLVDILKAVEFELHVQEPFFSFIKDGLETVEGRCTISD-YNSIGPGSVILLN 171 (293)
Q Consensus 121 el~~~l~~~e~eM~Lqe~yF~lIksGkKTIE~RLnDeK-rq~IkvGD~I~F~ 171 (293)
..++..++....+.|.+.+...+.=+.=|-..++.++- ...+++||.|.|+
T Consensus 47 G~V~~vd~~~~~iti~H~pIp~l~wPaMTM~F~v~~~~~l~~lk~G~~V~F~ 98 (115)
T PRK09838 47 GVVKGIDLESKKITIHHEPIPAVNWPEMTMRFTITPQTKMSEIKTGDKVAFN 98 (115)
T ss_pred EEEEEEeCCCCEEEEeecccccCCCCCccccccCCChhhhccCCCCCEEEEE
Confidence 34777788888899999999999999999999999986 5789999999996
No 42
>COG5569 Uncharacterized conserved protein [Function unknown]
Probab=34.61 E-value=57 Score=27.81 Aligned_cols=49 Identities=8% Similarity=0.003 Sum_probs=41.6
Q ss_pred HhhhhccceeeccchhhHHHHhcCCceEEEeecCc-cccCCCCCCEEEEc
Q 022686 123 VDILKAVEFELHVQEPFFSFIKDGLETVEGRCTIS-DYNSIGPGSVILLN 171 (293)
Q Consensus 123 ~~~l~~~e~eM~Lqe~yF~lIksGkKTIE~RLnDe-Krq~IkvGD~I~F~ 171 (293)
++-.|...-+..|-+++...+.=+.-|.-.|+.|. +..+||.||.|.|+
T Consensus 44 VkkvD~~akKVTl~He~i~~l~mp~MTM~F~Vkd~a~lsglKeGdkV~fv 93 (108)
T COG5569 44 VKKVDLEAKKVTLHHEPIKNLNMPAMTMVFRVKDQAKLSGLKEGDKVEFV 93 (108)
T ss_pred eeeeccccceEEEeccchhhCCCcceEEEEEeccHHHhhccccCCcEEEE
Confidence 33345555568899999999999999999999998 89999999999996
No 43
>cd03695 CysN_NodQ_II CysN_NodQ_II: This subfamily represents the domain II of the large subunit of ATP sulfurylase (ATPS): CysN or the N-terminal portion of NodQ, found mainly in proteobacteria and homologous to the domain II of EF-Tu. Escherichia coli ATPS consists of CysN and a smaller subunit CysD and CysN. ATPS produces adenosine-5'-phosphosulfate (APS) from ATP and sulfate, coupled with GTP hydrolysis. In the subsequent reaction APS is phosphorylated by an APS kinase (CysC), to produce 3'-phosphoadenosine-5'-phosphosulfate (PAPS) for use in amino acid (aa) biosynthesis. The Rhizobiaceae group (alpha-proteobacteria) appears to carry out the same chemistry for the sufation of a nodulation factor. In Rhizobium meliloti, a the hererodimeric complex comprised of NodP and NodQ appears to possess both ATPS and APS kinase activities. The N and C termini of NodQ correspond to CysN and CysC, respectively. Other eubacteria, Archaea, and eukaryotes use a different ATP sulfurylase, which sho
Probab=34.29 E-value=67 Score=24.57 Aligned_cols=34 Identities=21% Similarity=0.269 Sum_probs=27.0
Q ss_pred eEEEeecCccccCCCCCCEEEEce-eEEEEEEEEeecC
Q 022686 149 TVEGRCTISDYNSIGPGSVILLNK-CMMLKVQSVCHYD 185 (293)
Q Consensus 149 TIE~RLnDeKrq~IkvGD~I~F~~-~l~v~V~~Vr~Y~ 185 (293)
.|-+|+... .|++||.+.|.- ...++|.+|..+.
T Consensus 17 ~v~Gkv~~G---~v~~Gd~v~~~P~~~~~~V~si~~~~ 51 (81)
T cd03695 17 GYAGTIASG---SIRVGDEVVVLPSGKTSRVKSIETFD 51 (81)
T ss_pred EEEEEEccc---eEECCCEEEEcCCCCeEEEEEEEECC
Confidence 578888776 678999999973 4678999998774
No 44
>TIGR03069 PS_II_S4 photosystem II S4 domain protein. Members of this protein family are about 265 residues long and each contains an S4 RNA-binding domain of about 48 residues. The member from the Cyanobacterium, Synechocystis sp. PCC 6803, was detected as a novel polypeptide in a highly purified preparation of active photosystem II (Kashino, et al., 2002). The phylogenetic distribution, including Cyanobacteria and Arabidopsis, supports a role in photosystem II, although the high bit score cutoffs for this model reflect similar sequences in non-photosynthetic organisms such as Carboxydothermus hydrogenoformans, a Gram-positive bacterium.
Probab=33.42 E-value=65 Score=30.27 Aligned_cols=45 Identities=13% Similarity=0.116 Sum_probs=33.3
Q ss_pred hhhHHHHhcCCceEEEeecCccccCCCCCCEEEEceeEEEEEEEE
Q 022686 137 EPFFSFIKDGLETVEGRCTISDYNSIGPGSVILLNKCMMLKVQSV 181 (293)
Q Consensus 137 e~yF~lIksGkKTIE~RLnDeKrq~IkvGD~I~F~~~l~v~V~~V 181 (293)
..--++|++|+=+|-++..+..-.++++||.|.+...=..++.++
T Consensus 199 s~a~~lI~~G~V~VNg~~v~~~s~~v~~gD~IsvrG~Gr~~i~~~ 243 (257)
T TIGR03069 199 SKIVDQIKAGRLRLNWKTVTQPSRELKVGDRLQLRGKGRLEILEL 243 (257)
T ss_pred HHHHHHHHCCeEEECCEEcCCCCCcCCCCCEEEEcCCceEEEEEe
Confidence 344567899998888888877778999999999985333333333
No 45
>cd00165 S4 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized functional similarity between these three protein classes.
Probab=33.01 E-value=57 Score=21.90 Aligned_cols=32 Identities=28% Similarity=0.467 Sum_probs=21.0
Q ss_pred HHHhcCCceEEEeecCccccCCCCCCEEEEce
Q 022686 141 SFIKDGLETVEGRCTISDYNSIGPGSVILLNK 172 (293)
Q Consensus 141 ~lIksGkKTIE~RLnDeKrq~IkvGD~I~F~~ 172 (293)
.+|++|.=.|-++.....-..+++||.|.+..
T Consensus 21 ~~i~~g~V~vn~~~~~~~~~~v~~~d~i~i~~ 52 (70)
T cd00165 21 QLIKHGHVLVNGKVVTKPSYKVKPGDVIEVDG 52 (70)
T ss_pred HHHHcCCEEECCEEccCCccCcCCCCEEEEcC
Confidence 35667765555555544556788899887753
No 46
>PRK05585 yajC preprotein translocase subunit YajC; Validated
Probab=31.59 E-value=12 Score=31.12 Aligned_cols=43 Identities=19% Similarity=0.260 Sum_probs=31.0
Q ss_pred hHHHHhcCCceEEEeecCccccCCCCCCEEEEceeEEEEEEEEee
Q 022686 139 FFSFIKDGLETVEGRCTISDYNSIGPGSVILLNKCMMLKVQSVCH 183 (293)
Q Consensus 139 yF~lIksGkKTIE~RLnDeKrq~IkvGD~I~F~~~l~v~V~~Vr~ 183 (293)
||-+|+..+|.-. -..+-++.+++||.|+...=+..+|++|..
T Consensus 32 yf~~~RpqkK~~k--~~~~~~~~Lk~Gd~VvT~gGi~G~Vv~i~~ 74 (106)
T PRK05585 32 YFLIIRPQQKRQK--EHKKMLSSLAKGDEVVTNGGIIGKVTKVSE 74 (106)
T ss_pred HHHhccHHHHHHH--HHHHHHHhcCCCCEEEECCCeEEEEEEEeC
Confidence 5666665555442 224567789999999999888888888763
No 47
>PRK00147 queA S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional
Probab=30.65 E-value=1.4e+02 Score=29.80 Aligned_cols=60 Identities=18% Similarity=0.311 Sum_probs=36.0
Q ss_pred cCCCCCCEEEEceeEEEEEEEE-------eecC---CHHHHHhccCccccCCCCCC--HHHHHHHHHhhCCH
Q 022686 160 NSIGPGSVILLNKCMMLKVQSV-------CHYD---SFSEMLEAESLVKVLPGVKT--IEEGVQIYRKFYTE 219 (293)
Q Consensus 160 q~IkvGD~I~F~~~l~v~V~~V-------r~Y~---SF~eLLe~Egl~kvlPg~~S--iEEgv~~yr~iYsk 219 (293)
+++++|++|.|.+.+.++|.+. -+|+ ++.++|+..|---.=|=.+. -++--+.|...|.+
T Consensus 100 k~~k~G~~l~~~~~~~~~v~~~~~~~~~~~~f~~~~~~~~~l~~~G~~PlPPYI~r~~~~~D~~~YQTVyA~ 171 (342)
T PRK00147 100 KRPKPGTKLYFGDGLKAEVLERLEDGGRILRFLYEGIFLELLEELGHMPLPPYIKRPDEDADRERYQTVYAK 171 (342)
T ss_pred CCCCCCCEEEECCCeEEEEEEecCCceEEEEEeCCCCHHHHHHhcCCCCCCcccCCCCcccchhhccccccC
Confidence 6789999999975566666654 1342 47788888653333231211 11224568888875
No 48
>cd06863 PX_Atg24p The phosphoinositide binding Phox Homology domain of yeast Atg24p, an autophagic degradation protein. The PX domain is a phosphoinositide (PI) binding module present in many proteins with diverse functions. The yeast Atg24p is a sorting nexin (SNX) which is involved in membrane fusion events at the vacuolar surface during pexophagy. This is facilitated via binding of Atg24p to phosphatidylinositol 3-phosphate (PI3P) through its PX domain. SNXs make up the largest group among PX domain containing proteins. They are involved in regulating membrane traffic and protein sorting in the endosomal system. The PX domain of SNXs binds PIs and targets the protein to PI-enriched membranes. SNXs differ from each other in PI-binding specificity and affinity, and the presence of other protein-protein interaction domains, which help determine subcellular localization and specific function in the endocytic pathway.
Probab=30.19 E-value=64 Score=26.21 Aligned_cols=51 Identities=14% Similarity=0.074 Sum_probs=33.1
Q ss_pred EEEeecCccccC-CCCCCEEEEceeEE--------EEEEEEeecCCHHHHHhccCccccCCC
Q 022686 150 VEGRCTISDYNS-IGPGSVILLNKCMM--------LKVQSVCHYDSFSEMLEAESLVKVLPG 202 (293)
Q Consensus 150 IE~RLnDeKrq~-IkvGD~I~F~~~l~--------v~V~~Vr~Y~SF~eLLe~Egl~kvlPg 202 (293)
|+|++.|+.... -..+-.+.|.-.+. ....=-|+|..|..|.++ +.+-.|+
T Consensus 1 ~~i~V~dP~~~~~~~~~~y~~Y~I~~~t~~~~~~~~~~~V~RRYsdF~~L~~~--L~~~~p~ 60 (118)
T cd06863 1 LECLVSDPQKELDGSSDTYISYLITTKTNLPSFSRKEFKVRRRYSDFVFLHEC--LSNDFPA 60 (118)
T ss_pred CEEEEeCcccccCCCccCEEEEEEEEeeCCCCcccCceEEEecHHHHHHHHHH--HHHHCcC
Confidence 578888886654 45566677753222 234556899999999988 5444444
No 49
>KOG3416 consensus Predicted nucleic acid binding protein [General function prediction only]
Probab=30.08 E-value=79 Score=27.91 Aligned_cols=26 Identities=19% Similarity=0.161 Sum_probs=22.3
Q ss_pred CceEEEeecCccccCCCCCCEEEEce
Q 022686 147 LETVEGRCTISDYNSIGPGSVILLNK 172 (293)
Q Consensus 147 kKTIE~RLnDeKrq~IkvGD~I~F~~ 172 (293)
+-+|++-+-|+.=..|++||+|.|++
T Consensus 47 TgsI~isvW~e~~~~~~PGDIirLt~ 72 (134)
T KOG3416|consen 47 TGSINISVWDEEGCLIQPGDIIRLTG 72 (134)
T ss_pred cceEEEEEecCcCcccCCccEEEecc
Confidence 45688888888889999999999984
No 50
>COG3264 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]
Probab=29.07 E-value=64 Score=35.72 Aligned_cols=27 Identities=7% Similarity=0.343 Sum_probs=23.4
Q ss_pred cCCCCCCEEEEce------eEEEEEEEEeecCC
Q 022686 160 NSIGPGSVILLNK------CMMLKVQSVCHYDS 186 (293)
Q Consensus 160 q~IkvGD~I~F~~------~l~v~V~~Vr~Y~S 186 (293)
+.+|+||+|++.+ ++.++-|.|+.|+.
T Consensus 659 rpvkvGD~It~g~~~G~V~~I~vRAT~I~~fd~ 691 (835)
T COG3264 659 RPVKVGDTVTIGTVSGTVRKISVRATTIRTFDR 691 (835)
T ss_pred cCcccCCEEEECCceEEEEEEEeeEEEEEeCCC
Confidence 4689999999974 78999999998886
No 51
>TIGR00739 yajC preprotein translocase, YajC subunit. While this protein is part of the preprotein translocase in Escherichia coli, it is not essential for viability or protein secretion. The N-terminus region contains a predicted membrane-spanning region followed by a region consisting almost entirely of residues with charged (acidic, basic, or zwitterionic) side chains. This small protein is about 100 residues in length, and is restricted to bacteria; however, this protein is absent from some lineages, including spirochetes and Mycoplasmas.
Probab=28.29 E-value=66 Score=25.57 Aligned_cols=26 Identities=15% Similarity=0.169 Sum_probs=21.8
Q ss_pred cccCCCCCCEEEEceeEEEEEEEEee
Q 022686 158 DYNSIGPGSVILLNKCMMLKVQSVCH 183 (293)
Q Consensus 158 Krq~IkvGD~I~F~~~l~v~V~~Vr~ 183 (293)
-.+.+++||.|+...-+..+|+++..
T Consensus 34 m~~~L~~Gd~VvT~gGi~G~V~~i~d 59 (84)
T TIGR00739 34 LIESLKKGDKVLTIGGIIGTVTKIAE 59 (84)
T ss_pred HHHhCCCCCEEEECCCeEEEEEEEeC
Confidence 35679999999999888888888873
No 52
>PF14085 DUF4265: Domain of unknown function (DUF4265)
Probab=24.88 E-value=1.8e+02 Score=23.99 Aligned_cols=26 Identities=8% Similarity=0.097 Sum_probs=19.3
Q ss_pred EEEEEecCCCchHHHHHHHhccCchh
Q 022686 229 AICISKMATQPYVTLASILSGLGYVG 254 (293)
Q Consensus 229 AIeI~l~~~qP~~~l~~~l~~l~~~g 254 (293)
-+-|.+|+.-.|+.+..+|..+.=.|
T Consensus 88 ~lav~VP~~~~~~~i~~~L~~~~e~g 113 (117)
T PF14085_consen 88 MLAVDVPPSVDFDAIKDYLDRGEEQG 113 (117)
T ss_pred EEEEEECCCCCHHHHHHHHHhhhhcC
Confidence 34457788889999999998765444
No 53
>cd04491 SoSSB_OBF SoSSB_OBF: A subfamily of OB folds similar to the OB fold of the crenarchaeote Sulfolobus solfataricus single-stranded (ss) DNA-binding protein (SSoSSB). SSoSSB has a single OB fold, and it physically and functionally interacts with RNA polymerase. In vitro, SSoSSB can substitute for the basal transcription factor TBP, stimulating transcription from promoters under conditions in which TBP is limiting, and supporting transcription when TBP is absent. SSoSSB selectively melts the duplex DNA of promoter sequences. It also relieves transcriptional repression by the chromatin Alba. In addition, SSoSSB activates reverse gyrase activity, which involves DNA binding, DNA cleavage, strand passage and ligation. SSoSSB stimulates all these steps in the presence of the chromatin protein, Sul7d. SSoSSB antagonizes the inhibitory effect of Sul7d on reverse gyrase supercoiling activity. It also physically and functionally interacts with Mini-chromosome Maintenance (MCM), stimulating
Probab=24.68 E-value=78 Score=23.74 Aligned_cols=29 Identities=17% Similarity=0.223 Sum_probs=23.0
Q ss_pred hcCCceEEEeecCcc-ccCCCCCCEEEEce
Q 022686 144 KDGLETVEGRCTISD-YNSIGPGSVILLNK 172 (293)
Q Consensus 144 ksGkKTIE~RLnDeK-rq~IkvGD~I~F~~ 172 (293)
.+.+-+|++++=++. ...+++||.|.+.+
T Consensus 30 ~D~TG~i~~~~W~~~~~~~~~~G~vv~i~~ 59 (82)
T cd04491 30 GDETGTIRFTLWDEKAADDLEPGDVVRIEN 59 (82)
T ss_pred ECCCCEEEEEEECchhcccCCCCCEEEEEe
Confidence 344557888888877 88999999999874
No 54
>PLN00051 RNA-binding S4 domain-containing protein; Provisional
Probab=23.91 E-value=1.3e+02 Score=28.68 Aligned_cols=60 Identities=15% Similarity=0.119 Sum_probs=39.8
Q ss_pred HHHHHhhcCchhHHhhhhccceeeccch-hhHHHHhcCCceEEEeecCccccCCCCCCEEEEce
Q 022686 110 WSQLILNKGSSDLVDILKAVEFELHVQE-PFFSFIKDGLETVEGRCTISDYNSIGPGSVILLNK 172 (293)
Q Consensus 110 w~~l~~~kG~~el~~~l~~~e~eM~Lqe-~yF~lIksGkKTIE~RLnDeKrq~IkvGD~I~F~~ 172 (293)
|+.....--+.-|.+++-... ++.. +--++|++|+=+|-.+....+-..+++||.|....
T Consensus 182 ~~e~~~~vas~RLD~vla~~~---~~SRsk~~~lI~~g~V~vN~~~v~~~s~~v~~gD~isiRG 242 (267)
T PLN00051 182 VESFKSVEASLRLDALASAGF---RMSRSKLVDLISSGDVRVNWREVTKNGTTLKTGDVVSVSG 242 (267)
T ss_pred eEEccCCcCcccHHHHHHHHh---ccCHHHHHHHHHcCcEEECCEEcCCCCCCCCCCCEEEEee
Confidence 654333223335666554432 4433 34568999998888888777778999999998864
No 55
>COG2028 Uncharacterized conserved protein [Function unknown]
Probab=22.99 E-value=3.2e+02 Score=24.29 Aligned_cols=60 Identities=15% Similarity=0.150 Sum_probs=47.6
Q ss_pred eccchhhHHHHhcCCceEEEeecCccccCCCCCCEEEEce-------eEEEEEEEEeecCCHHHHHhccC
Q 022686 133 LHVQEPFFSFIKDGLETVEGRCTISDYNSIGPGSVILLNK-------CMMLKVQSVCHYDSFSEMLEAES 195 (293)
Q Consensus 133 M~Lqe~yF~lIksGkKTIE~RLnDeKrq~IkvGD~I~F~~-------~l~v~V~~Vr~Y~SF~eLLe~Eg 195 (293)
.-+..+|++-|=.-.|.|=+.-++=+ +++|..++|.. -=.++|..|..|.+-.+.++..|
T Consensus 9 fpvp~efldrifkegk~vfvkpatl~---vepgMKviFYaSredqGf~GEAeie~Ve~~en~~ei~ekyg 75 (145)
T COG2028 9 FPVPKEFLDRIFKEGKDVFVKPATLW---VEPGMKVIFYASREDQGFYGEAEIERVELFENPMEIIEKYG 75 (145)
T ss_pred cCCcHHHHHHHHhcCCceEeecceEE---ecCCcEEEEEEecccCcccceeEEEEEeeecCHHHHHHHhC
Confidence 35667788888766677766655554 89999999973 34689999999999999999966
No 56
>PRK03760 hypothetical protein; Provisional
Probab=22.99 E-value=66 Score=26.96 Aligned_cols=24 Identities=17% Similarity=0.047 Sum_probs=21.4
Q ss_pred ceEEEeecCccccCCCCCCEEEEc
Q 022686 148 ETVEGRCTISDYNSIGPGSVILLN 171 (293)
Q Consensus 148 KTIE~RLnDeKrq~IkvGD~I~F~ 171 (293)
-.+|+....-.+..|++||.|.|.
T Consensus 92 ~VLEl~aG~~~~~gi~~Gd~v~~~ 115 (117)
T PRK03760 92 YIIEGPVGKIRVLKVEVGDEIEWI 115 (117)
T ss_pred EEEEeCCChHHHcCCCCCCEEEEe
Confidence 478998888899999999999985
No 57
>PF12195 End_beta_barrel: Beta barrel domain of bacteriophage endosialidase; InterPro: IPR024427 This entry represents the beta barrel domain of endosialidases which is nested in a beta propeller domain. This beta barrel domain is approximately 80 amino acids in length and represents one of the two sialic acid binding sites of the enzyme [].; PDB: 1V0E_B 1V0F_E 3JU4_A 3GVL_A 3GVK_B 3GVJ_A.
Probab=22.92 E-value=1.2e+02 Score=24.78 Aligned_cols=26 Identities=12% Similarity=0.003 Sum_probs=15.7
Q ss_pred hcCCceEEEeecCccccCCCCCCEEEEce
Q 022686 144 KDGLETVEGRCTISDYNSIGPGSVILLNK 172 (293)
Q Consensus 144 ksGkKTIE~RLnDeKrq~IkvGD~I~F~~ 172 (293)
.++..++-|++-+. .|.+||.|.|.+
T Consensus 13 a~n~~~ati~l~~H---Gl~vGD~VnFsn 38 (83)
T PF12195_consen 13 AANQTTATITLTDH---GLFVGDFVNFSN 38 (83)
T ss_dssp -TTSSEEEEE-TT-------TT-EEEEES
T ss_pred ecCceEEEEEEccC---ceeecceEEEec
Confidence 45667888888774 789999999974
No 58
>PRK06033 hypothetical protein; Validated
Probab=22.85 E-value=91 Score=24.72 Aligned_cols=27 Identities=19% Similarity=0.174 Sum_probs=19.9
Q ss_pred cccCCCCCCEEEEce----eEEEEEEEEeec
Q 022686 158 DYNSIGPGSVILLNK----CMMLKVQSVCHY 184 (293)
Q Consensus 158 Krq~IkvGD~I~F~~----~l~v~V~~Vr~Y 184 (293)
+.-++++||+|.++. .+.+.|-+...|
T Consensus 24 dlL~L~~GDVI~L~~~~~~~v~v~V~~~~~f 54 (83)
T PRK06033 24 QVLRMGRGAVIPLDATEADEVWILANNHPIA 54 (83)
T ss_pred HHhCCCCCCEEEeCCCCCCcEEEEECCEEEE
Confidence 456789999999973 577777666655
No 59
>TIGR00113 queA S-adenosylmethionine:tRNA ribosyltransferase-isomerase. This model describes the enzyme for S-adenosylmethionine:tRNA ribosyltransferase-isomerase (QueA). QueA synthesizes Queuosine which is usually in the first position of the anticodon of tRNAs specific for asparagine, aspartate, histidine, and tyrosine.
Probab=22.43 E-value=2.1e+02 Score=28.64 Aligned_cols=61 Identities=13% Similarity=0.287 Sum_probs=33.7
Q ss_pred cCCCCCCEEEEceeE----EEEEEE----Eee--cC---CHHHHHhccCccccCCCCCC--HHHHHHHHHhhCCHh
Q 022686 160 NSIGPGSVILLNKCM----MLKVQS----VCH--YD---SFSEMLEAESLVKVLPGVKT--IEEGVQIYRKFYTEE 220 (293)
Q Consensus 160 q~IkvGD~I~F~~~l----~v~V~~----Vr~--Y~---SF~eLLe~Egl~kvlPg~~S--iEEgv~~yr~iYskE 220 (293)
+++++|+.|.|.+-+ .+.+.+ +-+ |+ +|.++|++.|---.=|=.+. -++--+.|...|.+.
T Consensus 98 k~~~~G~~l~~~~~~~~~lv~~~~~~~~~~~~~~~~~~~~~~~~l~~~G~~PlPPYI~r~~~~~D~~rYQTVyA~~ 173 (344)
T TIGR00113 98 KKPKIGAKVKFGEGYGEKIMAEMLAHNGRLFEFEFNDPNVLLDVLESYGHMPLPPYIKRPDEKADEERYQTVYSKK 173 (344)
T ss_pred CCCCCCCEEEECCCceeEEEEEeecCCceEEEEEcCCCccHHHHHHhcCCCCCCcccCCCCcccchhhccccccCC
Confidence 678899999996422 333322 123 34 58899998663333232211 111235687788743
No 60
>PRK05886 yajC preprotein translocase subunit YajC; Validated
Probab=21.55 E-value=97 Score=26.17 Aligned_cols=24 Identities=13% Similarity=0.268 Sum_probs=19.5
Q ss_pred ccCCCCCCEEEEceeEEEEEEEEe
Q 022686 159 YNSIGPGSVILLNKCMMLKVQSVC 182 (293)
Q Consensus 159 rq~IkvGD~I~F~~~l~v~V~~Vr 182 (293)
++.+++||.|+...=+..+|++|.
T Consensus 36 ~~~Lk~GD~VvT~gGi~G~V~~I~ 59 (109)
T PRK05886 36 HESLQPGDRVHTTSGLQATIVGIT 59 (109)
T ss_pred HHhcCCCCEEEECCCeEEEEEEEe
Confidence 468999999999877777777765
No 61
>PRK07455 keto-hydroxyglutarate-aldolase/keto-deoxy-phosphogluconate aldolase; Provisional
Probab=21.54 E-value=1.9e+02 Score=25.60 Aligned_cols=99 Identities=18% Similarity=0.136 Sum_probs=51.1
Q ss_pred HHHhcCCceEEEeecCcc-----------ccCCCCCCEEEEce-----eEEEEEEEE---eecCCHHHHHhccCccccCC
Q 022686 141 SFIKDGLETVEGRCTISD-----------YNSIGPGSVILLNK-----CMMLKVQSV---CHYDSFSEMLEAESLVKVLP 201 (293)
Q Consensus 141 ~lIksGkKTIE~RLnDeK-----------rq~IkvGD~I~F~~-----~l~v~V~~V---r~Y~SF~eLLe~Egl~kvlP 201 (293)
.+++.|-+.||+|..+.. +..+++|.--+|++ .+.+....| +.-.+-.+.-+..++. ..|
T Consensus 32 ~~~~~Gv~~vqlr~k~~~~~e~~~~~~~~~~~~~~g~gtvl~~d~~~~A~~~gAdgv~~p~~~~~~~~~~~~~~~~-~i~ 110 (187)
T PRK07455 32 AVAAGGMRLIEITWNSDQPAELISQLREKLPECIIGTGTILTLEDLEEAIAAGAQFCFTPHVDPELIEAAVAQDIP-IIP 110 (187)
T ss_pred HHHHCCCCEEEEeCCCCCHHHHHHHHHHhCCCcEEeEEEEEcHHHHHHHHHcCCCEEECCCCCHHHHHHHHHcCCC-EEc
Confidence 477889999999998862 33334444333431 233333334 3223333333333332 347
Q ss_pred CCCCHHHHHHHHHhhCCHhHHhhcceEEEEEEecCCCchHHHHHHHhccCchhhHHhhhc
Q 022686 202 GVKTIEEGVQIYRKFYTEEKERSNGVLAICISKMATQPYVTLASILSGLGYVGIQSLLGL 261 (293)
Q Consensus 202 g~~SiEEgv~~yr~iYskEkE~~yGVvAIeI~l~~~qP~~~l~~~l~~l~~~g~~~llg~ 261 (293)
|+.|.+|..+.. ++|+=-|.+ .||.. -+|.++++.+.+.
T Consensus 111 G~~t~~e~~~A~----------~~Gadyv~~-Fpt~~----------~~G~~~l~~~~~~ 149 (187)
T PRK07455 111 GALTPTEIVTAW----------QAGASCVKV-FPVQA----------VGGADYIKSLQGP 149 (187)
T ss_pred CcCCHHHHHHHH----------HCCCCEEEE-CcCCc----------ccCHHHHHHHHhh
Confidence 777777754433 255544444 55421 3455666665553
No 62
>COG2820 Udp Uridine phosphorylase [Nucleotide transport and metabolism]
Probab=21.53 E-value=1e+02 Score=29.65 Aligned_cols=33 Identities=18% Similarity=0.271 Sum_probs=25.2
Q ss_pred HHHhcCCceEEEeecCccc-c-CCCCCCEEEEceeE
Q 022686 141 SFIKDGLETVEGRCTISDY-N-SIGPGSVILLNKCM 174 (293)
Q Consensus 141 ~lIksGkKTIE~RLnDeKr-q-~IkvGD~I~F~~~l 174 (293)
++.+.|.||+ ||+-..-= | .|.+||.|+=+..+
T Consensus 78 EL~~lGa~tf-iRVGT~Galq~~i~~Gdvvi~tgAv 112 (248)
T COG2820 78 ELARLGAKTF-IRVGTTGALQPDINVGDVVVATGAV 112 (248)
T ss_pred HHHhcCCeEE-EEeeccccccCCCCCCCEEEecccc
Confidence 4666799999 99988743 3 59999999865433
No 63
>PF01052 SpoA: Surface presentation of antigens (SPOA); InterPro: IPR001543 Proteins in this group are involved in a secretory pathway responsible for the surface presentation of invasion plasmid antigen needed for the entry of Salmonella and other species into mammalian cells [, ].They could play a role in preserving the translocation competence of the IPA antigens and are required for secretion of the three IPA proteins []. The C-terminal region of flagellar motor switch proteins FliN and FliM is also included in this entry. ; PDB: 3UEP_A 1O9Y_B 1YAB_A.
Probab=21.15 E-value=59 Score=24.24 Aligned_cols=28 Identities=29% Similarity=0.388 Sum_probs=15.5
Q ss_pred ecCccccCCCCCCEEEEce----eEEEEEEEE
Q 022686 154 CTISDYNSIGPGSVILLNK----CMMLKVQSV 181 (293)
Q Consensus 154 LnDeKrq~IkvGD~I~F~~----~l~v~V~~V 181 (293)
+.-.+..++++||+|.+.. .+.+.|-+.
T Consensus 21 l~l~el~~L~~Gdvi~l~~~~~~~v~l~v~g~ 52 (77)
T PF01052_consen 21 LTLGELLNLKVGDVIPLDKPADEPVELRVNGQ 52 (77)
T ss_dssp EEHHHHHC--TT-EEEECCESSTEEEEEETTE
T ss_pred eEHHHHhcCCCCCEEEeCCCCCCCEEEEECCE
Confidence 3344677899999999973 455554333
No 64
>PF05899 Cupin_3: Protein of unknown function (DUF861); InterPro: IPR008579 The function of the proteins in this entry are unknown. They contain the conserved barrel domain of the 'cupin' superfamily and members are specific to plants and bacteria.; PDB: 1RC6_A 3MYX_A 1O5U_A 2K9Z_A 1LKN_A 3ES4_A 1SFN_B 3BCW_A.
Probab=20.53 E-value=1.4e+02 Score=22.50 Aligned_cols=29 Identities=17% Similarity=0.216 Sum_probs=20.6
Q ss_pred HHhcCCceEEEeecCccccCCCCCCEEEEce
Q 022686 142 FIKDGLETVEGRCTISDYNSIGPGSVILLNK 172 (293)
Q Consensus 142 lIksGkKTIE~RLnDeKrq~IkvGD~I~F~~ 172 (293)
.|-+|.=+ +.-.++....+++||.+.|-+
T Consensus 30 ~vleG~v~--it~~~G~~~~~~aGD~~~~p~ 58 (74)
T PF05899_consen 30 YVLEGEVT--ITDEDGETVTFKAGDAFFLPK 58 (74)
T ss_dssp EEEEEEEE--EEETTTEEEEEETTEEEEE-T
T ss_pred EEEEeEEE--EEECCCCEEEEcCCcEEEECC
Confidence 55556433 344588899999999999974
No 65
>TIGR02480 fliN flagellar motor switch protein FliN. Proteins that consist largely of the domain described by this model can be designated flagellar motor switch protein FliN. Longer proteins in which this region is a C-terminal domain typically are designated FliY. More distantly related sequences, outside the scope of this family, are associated with type III secretion and include the surface presentation of antigens protein SpaO required or invasion of host cells by Salmonella enterica.
Probab=20.05 E-value=84 Score=24.04 Aligned_cols=28 Identities=29% Similarity=0.310 Sum_probs=19.7
Q ss_pred ccccCCCCCCEEEEc----eeEEEEEEEEeec
Q 022686 157 SDYNSIGPGSVILLN----KCMMLKVQSVCHY 184 (293)
Q Consensus 157 eKrq~IkvGD~I~F~----~~l~v~V~~Vr~Y 184 (293)
...-++++||+|.++ +.+.+.|-+...|
T Consensus 24 ~ell~L~~Gdvi~L~~~~~~~v~l~v~g~~~~ 55 (77)
T TIGR02480 24 GDLLKLGEGSVIELDKLAGEPLDILVNGRLIA 55 (77)
T ss_pred HHHhcCCCCCEEEcCCCCCCcEEEEECCEEEE
Confidence 356789999999997 3566666555544
Done!