Query 025969
Match_columns 245
No_of_seqs 81 out of 83
Neff 3.6
Searched_HMMs 46136
Date Fri Mar 29 11:38:30 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/025969.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/025969hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PLN00047 photosystem II biogen 100.0 3.2E-87 6.9E-92 607.7 19.1 225 1-240 1-225 (283)
2 PLN03060 inositol phosphatase- 100.0 2.6E-76 5.6E-81 517.5 16.1 172 70-241 2-173 (206)
3 PF11264 ThylakoidFormat: Thyl 100.0 4.1E-74 9E-79 506.4 15.3 169 72-240 1-177 (216)
4 PRK13266 Thf1-like protein; Re 100.0 7.1E-74 1.5E-78 507.5 16.6 172 68-240 2-182 (225)
5 TIGR03060 PS_II_psb29 photosys 100.0 1E-73 2.2E-78 503.4 15.1 169 68-240 2-180 (214)
6 PF11264 ThylakoidFormat: Thyl 94.9 0.035 7.6E-07 50.1 4.4 57 106-162 127-184 (216)
7 PRK13266 Thf1-like protein; Re 94.8 0.056 1.2E-06 49.1 5.5 63 99-161 125-188 (225)
8 TIGR03060 PS_II_psb29 photosys 94.5 0.048 1E-06 49.3 4.2 58 103-161 127-186 (214)
9 PLN03060 inositol phosphatase- 91.7 0.17 3.7E-06 45.5 3.4 50 106-161 129-178 (206)
10 PLN00047 photosystem II biogen 89.8 0.31 6.7E-06 45.9 3.4 48 108-161 184-231 (283)
11 COG3793 TerB Tellurite resista 68.7 15 0.00032 31.8 5.8 36 137-172 65-100 (144)
12 TIGR00059 L17 ribosomal protei 61.5 15 0.00032 30.3 4.4 77 135-212 8-96 (112)
13 PF08542 Rep_fac_C: Replicatio 54.3 18 0.00038 26.7 3.4 42 132-178 1-42 (89)
14 PRK05591 rplQ 50S ribosomal pr 53.5 20 0.00042 29.6 3.8 77 135-212 10-98 (113)
15 PF01841 Transglut_core: Trans 48.8 9.7 0.00021 28.4 1.2 46 109-154 26-72 (113)
16 TIGR02147 Fsuc_second hypothet 48.3 78 0.0017 29.4 7.3 133 92-232 10-147 (271)
17 PF05099 TerB: Tellurite resis 47.3 85 0.0018 24.6 6.5 95 130-240 36-133 (140)
18 PRK10880 adenine DNA glycosyla 44.4 3E+02 0.0065 26.6 10.8 109 73-194 6-126 (350)
19 cd00192 PTKc Catalytic domain 42.6 33 0.00071 28.0 3.5 32 115-147 188-221 (262)
20 PF02861 Clp_N: Clp amino term 41.8 25 0.00055 23.1 2.3 27 138-164 25-51 (53)
21 PF01024 Colicin: Colicin pore 41.7 60 0.0013 29.2 5.2 73 154-237 31-104 (187)
22 PRK13910 DNA glycosylase MutY; 41.2 3.1E+02 0.0067 25.8 10.3 71 124-194 13-89 (289)
23 COG4476 Uncharacterized protei 39.7 1.3E+02 0.0028 24.3 6.3 82 83-166 2-83 (90)
24 PF13413 HTH_25: Helix-turn-he 39.5 41 0.00088 24.4 3.3 27 131-157 36-62 (62)
25 PF13446 RPT: A repeated domai 36.4 61 0.0013 22.9 3.7 47 134-180 14-60 (62)
26 PF01196 Ribosomal_L17: Riboso 36.0 33 0.00071 27.4 2.5 58 154-212 22-82 (97)
27 COG0203 RplQ Ribosomal protein 34.4 50 0.0011 27.8 3.4 78 134-212 12-101 (116)
28 cd05034 PTKc_Src_like Catalyti 33.8 42 0.00091 27.8 2.9 32 115-147 185-218 (261)
29 PF01465 GRIP: GRIP domain; I 33.5 1.2E+02 0.0027 20.9 4.8 36 123-159 9-44 (46)
30 smart00219 TyrKc Tyrosine kina 32.2 60 0.0013 26.5 3.6 22 115-137 185-206 (258)
31 PF12069 DUF3549: Protein of u 31.9 51 0.0011 32.0 3.5 34 132-165 121-155 (340)
32 cd05058 PTKc_Met_Ron Catalytic 31.8 63 0.0014 26.8 3.6 21 115-136 183-203 (262)
33 PF05402 PqqD: Coenzyme PQQ sy 30.5 1.2E+02 0.0027 21.1 4.5 42 124-169 21-62 (68)
34 COG3636 Predicted transcriptio 30.3 2.7E+02 0.0059 22.9 6.9 30 211-240 64-93 (100)
35 cd05056 PTKc_FAK Catalytic dom 30.1 67 0.0015 26.9 3.6 20 115-135 189-208 (270)
36 PF13170 DUF4003: Protein of u 29.5 2.2E+02 0.0048 26.6 7.1 109 123-234 123-246 (297)
37 KOG1258 mRNA processing protei 28.8 1.6E+02 0.0034 30.8 6.5 124 71-210 62-190 (577)
38 TIGR01084 mutY A/G-specific ad 28.0 4.9E+02 0.011 24.1 12.6 108 75-195 4-123 (275)
39 COG4867 Uncharacterized protei 27.0 1.1E+02 0.0023 31.6 4.9 45 161-210 191-244 (652)
40 PF08542 Rep_fac_C: Replicatio 26.9 1.5E+02 0.0033 21.6 4.6 45 121-166 23-67 (89)
41 KOG0213 Splicing factor 3b, su 26.7 4.6E+02 0.0099 29.2 9.5 109 104-242 764-879 (1172)
42 PRK09430 djlA Dna-J like membr 26.6 5.1E+02 0.011 23.8 10.7 109 116-239 52-165 (267)
43 PHA00666 putative protease 26.4 5.4E+02 0.012 24.1 9.6 32 131-162 93-124 (233)
44 PF09494 Slx4: Slx4 endonuclea 26.3 38 0.00083 24.6 1.3 28 142-169 1-35 (64)
45 PF07216 LcrG: LcrG protein; 25.7 53 0.0011 26.7 2.0 31 127-157 12-42 (93)
46 PF06971 Put_DNA-bind_N: Putat 25.2 66 0.0014 22.9 2.3 16 145-160 33-48 (50)
47 PF07268 EppA_BapA: Exported p 24.4 1.3E+02 0.0027 26.1 4.2 34 124-163 87-124 (139)
48 cd05043 PTK_Ryk Pseudokinase d 23.1 1.3E+02 0.0028 25.4 4.1 20 115-135 200-219 (280)
49 PF13443 HTH_26: Cro/C1-type H 21.8 1.2E+02 0.0025 20.8 3.0 33 124-157 25-57 (63)
50 TIGR00244 transcriptional regu 21.5 4.4E+02 0.0096 22.9 7.0 73 131-211 55-130 (147)
51 PF00046 Homeobox: Homeobox do 20.7 1.8E+02 0.004 19.5 3.8 30 123-158 16-45 (57)
52 cd07178 terB_like_YebE telluri 20.5 20 0.00043 28.0 -1.3 15 223-237 81-95 (95)
53 cd05122 PKc_STE Catalytic doma 20.3 1.5E+02 0.0032 23.8 3.7 20 115-136 178-197 (253)
54 PF04675 DNA_ligase_A_N: DNA l 20.3 3E+02 0.0064 22.7 5.6 21 140-160 63-83 (177)
No 1
>PLN00047 photosystem II biogenesis protein Psb29; Provisional
Probab=100.00 E-value=3.2e-87 Score=607.66 Aligned_cols=225 Identities=68% Similarity=1.064 Sum_probs=212.4
Q ss_pred CCccccccccccccccccccccccccccccccccccccccccceeeeeeeecCCCcceeeeeeccCCCCCCchhHhHHHH
Q 025969 1 MASLTSVAFTSIGQTSCQRKVNVSSTRSLVSNFEGFRFRTSLFCHCVRFRASSSSSRMIIQCMSTATDVPPTVAETKMNF 80 (245)
Q Consensus 1 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~~~~~~~~~~~TVSDTKr~F 80 (245)
|||++|++|++++|++ ++++..++|+++ ++|+|+ +|++++ +|+||+||+++++++||||||||+|
T Consensus 1 ~~~~~~~~~~~~~~~~--~~~~~~~~~~~~---~~~~~~---------~~~~~~-~~~~~~~~~~~~~~~~TVSDTKr~F 65 (283)
T PLN00047 1 MAAVCSVSFPALGQSS--KARPAPVSAARS---FASRFE---------VASRST-SRRVVHCMAAVTDVPPTVAETKAKF 65 (283)
T ss_pred CccccccChHhhcccc--cccCCccchhhh---hccccc---------cccccc-cceeeeehhhccCCCCcHHHHHHHH
Confidence 8999999999999997 455555557775 667776 676654 5999999999999999999999999
Q ss_pred HhhCCCcCCcchhHHHHHHHHHHhhhcccccccccccchhhHHHHHHHHhcCCCCchhHHHHHHHHHHhcCCCHHHHHHH
Q 025969 81 LKLYKRPIPSIYNTVLQELIVQQHLMRYKRTYQYDPVFALGFVTVYDRLMEGYPSEEDREAIFQAYITALKEDPEQYRID 160 (245)
Q Consensus 81 ~~~y~rPIpsIYRrvv~ELLVElHLLs~n~~F~YDplFALG~VTvFd~fmqGY~peed~~~IF~Alc~Alg~DP~qyR~D 160 (245)
|++|||||||||||||||||||||||+||++|+|||||||||||+||+||+||||++|+++||+|||+|+|+||+|||+|
T Consensus 66 ~~~yp~pIpsiYrrvvdELLVElHLLs~n~~F~yDplFALGlVtvfd~fm~GY~Pee~~~~IF~Alc~a~g~Dp~qyr~d 145 (283)
T PLN00047 66 LKSYKRPIPSIYSTVLQELLVQQHLMRYKKTYRYDPVFALGFVTVYDQLMEGYPSDEDRDAIFKAYIKALGEDPEQYRKD 145 (283)
T ss_pred HHhCCCCCcHHHHHHHHHHHHHHHHHHhccCceeCchhhhhhHHHHHHHHccCCChHHHHHHHHHHHHHcCCCHHHHHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHhcCCccccccccCCcchhHHHHHHHHHHhcCCCCCcchhhHHHHHHHHHhhcCCCChHHHHHHHHhcCCCcc
Q 025969 161 AQKLEEWARGQTASSLVEFPSKEGEVEGLLKDIAERASGKGNFSYSRFFAVGLFRLLELANATEPTVLEKVISIRSLNWM 240 (245)
Q Consensus 161 A~~l~~~A~~~s~~~l~~~~~~~g~~~~~l~~Ia~~~~~n~~F~YSRlfAIGLf~LLE~a~~~dp~~L~kl~~~l~l~~~ 240 (245)
|++|++||++++.+|+++|+...|+++..|++||+++++|++||||||||||||+|||+++++||+.|+++|++|||++.
T Consensus 146 A~~l~~~A~~~s~~~l~~~l~~~~~l~~~l~~IA~~a~~~~~f~YSRlfAIGLf~LLe~a~~~d~~~l~~l~e~Lgls~~ 225 (283)
T PLN00047 146 AAKLEEWARSQTGSSLVDFSSKEGEIEGILKDIAERAGSKGKFSYSRFFAIGLFRLLELANATEPTALEKLCAALNINKR 225 (283)
T ss_pred HHHHHHHHhcCCHHHHHHHHhcchHHHHHHHHHHHhhccCCCcchHHHHHHHHHHHHHhcCCCCHHHHHHHHHHcCCCHH
Confidence 99999999999999999999999999999999998887899999999999999999999999999999999999999974
No 2
>PLN03060 inositol phosphatase-like protein; Provisional
Probab=100.00 E-value=2.6e-76 Score=517.47 Aligned_cols=172 Identities=65% Similarity=1.088 Sum_probs=167.1
Q ss_pred CCchhHhHHHHHhhCCCcCCcchhHHHHHHHHHHhhhcccccccccccchhhHHHHHHHHhcCCCCchhHHHHHHHHHHh
Q 025969 70 PPTVAETKMNFLKLYKRPIPSIYNTVLQELIVQQHLMRYKRTYQYDPVFALGFVTVYDRLMEGYPSEEDREAIFQAYITA 149 (245)
Q Consensus 70 ~~TVSDTKr~F~~~y~rPIpsIYRrvv~ELLVElHLLs~n~~F~YDplFALG~VTvFd~fmqGY~peed~~~IF~Alc~A 149 (245)
+||||||||+||++|||||||||||||||||||||||+||++|+|||||||||||+||+||+||||++|+++||+|||+|
T Consensus 2 ~~TVsDtKr~F~~~~p~pI~siYrrvv~ELLVE~HLl~~n~~f~yD~lfAlGlvt~fd~fm~GY~Pee~~~~IF~Alc~a 81 (206)
T PLN03060 2 VPTVADTKASFLKAYRKPIPSIYSNVIQELLVQQHLMRYNATYKYDPIFALGFVTVYDQLMDGYPNATDRDAIFKAYIEA 81 (206)
T ss_pred CCcHHHHHHHHHHhCCCCCchHHHHHHHHHHHHHHHHHhccCceeCchHHhhHHHHHHHHHcCCCChHHHHHHHHHHHHH
Confidence 68999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred cCCCHHHHHHHHHHHHHHHhcCCccccccccCCcchhHHHHHHHHHHhcCCCCCcchhhHHHHHHHHHhhcCCCChHHHH
Q 025969 150 LKEDPEQYRIDAQKLEEWARGQTASSLVEFPSKEGEVEGLLKDIAERASGKGNFSYSRFFAVGLFRLLELANATEPTVLE 229 (245)
Q Consensus 150 lg~DP~qyR~DA~~l~~~A~~~s~~~l~~~~~~~g~~~~~l~~Ia~~~~~n~~F~YSRlfAIGLf~LLE~a~~~dp~~L~ 229 (245)
+|+||+|||+||++|++||+|++.++|.+|++++|+.+..|+++++++++|++||||||||||||+|||.++++||+.++
T Consensus 82 ~~~dp~~~r~dA~~l~~~a~~~s~~~l~~~l~~~~~~~~~l~~~~~~~~~~~~f~YSRl~AIGL~~LLe~a~~~d~~~l~ 161 (206)
T PLN03060 82 LGEDPDQYRKDAKKLEEWASSQSASGIADFNSGDGEVEAVLKDIAERAAGKTKFHYSRFFAIGLFRLLECAKASDPAVLE 161 (206)
T ss_pred cCCCHHHHHHHHHHHHHHHhcCCHHHHHHHHhcccccchHHHHHHHHhhcCCCcchHHHHHHHHHHHHHHcCCCCHHHHH
Confidence 99999999999999999999999999999999998888888888888889999999999999999999999999999999
Q ss_pred HHHHhcCCCccc
Q 025969 230 KVISIRSLNWMT 241 (245)
Q Consensus 230 kl~~~l~l~~~~ 241 (245)
++|++|||++.+
T Consensus 162 ~l~~~L~ls~~k 173 (206)
T PLN03060 162 KLSKALNVSKRS 173 (206)
T ss_pred HHHHHcCCCHHH
Confidence 999999999753
No 3
>PF11264 ThylakoidFormat: Thylakoid formation protein; InterPro: IPR017499 Psp29, originally designated sll1414 (P73956 from SWISSPROT) in Synechocystis sp. (strain PCC 6803), is found universally in Cyanobacteria and in Arabidopsis. It was isolated and partially sequenced from purified photosystem II (PS II) in Synechocystis. While its function is unknown, mutant studies show an impairment in photosystem II biogenesis and/or stability, rather than in PS II core function.; GO: 0010027 thylakoid membrane organization, 0015979 photosynthesis, 0009523 photosystem II
Probab=100.00 E-value=4.1e-74 Score=506.36 Aligned_cols=169 Identities=51% Similarity=0.869 Sum_probs=160.6
Q ss_pred chhHhHHHHHhhCCCcCCcchhHHHHHHHHHHhhhcccccccccccchhhHHHHHHHHhcCCCCchhHHHHHHHHHHhcC
Q 025969 72 TVAETKMNFLKLYKRPIPSIYNTVLQELIVQQHLMRYKRTYQYDPVFALGFVTVYDRLMEGYPSEEDREAIFQAYITALK 151 (245)
Q Consensus 72 TVSDTKr~F~~~y~rPIpsIYRrvv~ELLVElHLLs~n~~F~YDplFALG~VTvFd~fmqGY~peed~~~IF~Alc~Alg 151 (245)
|||||||+||++|||||||||||||||||||||||+||++|+|||||||||||+||+||+||||++|+++||+|||+|+|
T Consensus 1 TVsDtKr~F~~~~~~pI~siYrrvv~ELLVe~HLl~~n~~F~yD~lfalG~vt~fd~fm~GY~p~~~~~~If~Alc~a~~ 80 (216)
T PF11264_consen 1 TVSDTKRAFYKAFPRPIPSIYRRVVDELLVELHLLSVNKDFQYDPLFALGLVTVFDRFMQGYPPEEDKDSIFNALCQALG 80 (216)
T ss_pred ChhHHHHHHHHhCCCCCcHHHHHHHHHHHHHHHHHHhccCceeCchHHhhHHHHHHHHhcCCCChhHHHHHHHHHHHHcC
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCHHHHHHHHHHHHHHHhcCCccccccccCC-cchhHHHHHHHHHHhcCCCCCcchhhHHHHHHHHHhhcCC-------C
Q 025969 152 EDPEQYRIDAQKLEEWARGQTASSLVEFPSK-EGEVEGLLKDIAERASGKGNFSYSRFFAVGLFRLLELANA-------T 223 (245)
Q Consensus 152 ~DP~qyR~DA~~l~~~A~~~s~~~l~~~~~~-~g~~~~~l~~Ia~~~~~n~~F~YSRlfAIGLf~LLE~a~~-------~ 223 (245)
+||+|||+||++|++||+|++.+||.+|+++ .++.++.|++++.+|++|++||||||||||||+|||.+++ +
T Consensus 81 ~dp~~~r~dA~~l~~~a~~~s~~~l~~~l~~~~~~~~~~l~~~~~~ia~~~~f~YSRl~AIGL~~LLe~a~~~~~~~~~~ 160 (216)
T PF11264_consen 81 FDPEQYRQDAEKLEEWAKGKSIEDLLSWLSQKGGEGDNPLAAILQAIASNPKFKYSRLFAIGLFRLLELAGADLVKDEEK 160 (216)
T ss_pred CCHHHHHHHHHHHHHHHHcCCHHHHHHHHhccccccchHHHHHHHHHhcCCCCchHHHHHHHHHHHHHhcCcccccChhh
Confidence 9999999999999999999999999999987 4566777777777788899999999999999999999988 3
Q ss_pred ChHHHHHHHHhcCCCcc
Q 025969 224 EPTVLEKVISIRSLNWM 240 (245)
Q Consensus 224 dp~~L~kl~~~l~l~~~ 240 (245)
+|+.++++|++||||..
T Consensus 161 ~~~~l~~l~~~l~ls~~ 177 (216)
T PF11264_consen 161 RPEALEKLSEALGLSKE 177 (216)
T ss_pred HHHHHHHHHHHcCCCHH
Confidence 47999999999999974
No 4
>PRK13266 Thf1-like protein; Reviewed
Probab=100.00 E-value=7.1e-74 Score=507.51 Aligned_cols=172 Identities=39% Similarity=0.694 Sum_probs=159.6
Q ss_pred CCCCchhHhHHHHHhhCCCcCCcchhHHHHHHHHHHhhhcccccccccccchhhHHHHHHHHhcCCCCchhHHHHHHHHH
Q 025969 68 DVPPTVAETKMNFLKLYKRPIPSIYNTVLQELIVQQHLMRYKRTYQYDPVFALGFVTVYDRLMEGYPSEEDREAIFQAYI 147 (245)
Q Consensus 68 ~~~~TVSDTKr~F~~~y~rPIpsIYRrvv~ELLVElHLLs~n~~F~YDplFALG~VTvFd~fmqGY~peed~~~IF~Alc 147 (245)
+++||||||||+||++|||||||||||||||||||||||+||++|+|||||||||||+||+||+||||++|+++||+|||
T Consensus 2 ~~~~TVSDtKr~F~~~~p~pI~siYrrvv~ELLVElHLl~~n~~F~yDplfAlGlvt~fd~fm~GY~Pee~~~~IF~Alc 81 (225)
T PRK13266 2 NNRRTVSDSKRAFYAAFPRPINSIYRRVVDELLVELHLLSVNSDFKYDPLFALGLVTVFDRFMQGYRPEEHKDSIFNALC 81 (225)
T ss_pred CCCCcHHHHHHHHHHhCCCCCchHHHHHHHHHHHHHHHHHhccCceeCchHHhhHHHHHHHHHcCCCChHHHHHHHHHHH
Confidence 47899999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HhcCCCHHHHHHHHHHHHHHHhcCCccccccccCCc--chhHHHHHHHHHHhcCCCCCcchhhHHHHHHHHHhhcCC---
Q 025969 148 TALKEDPEQYRIDAQKLEEWARGQTASSLVEFPSKE--GEVEGLLKDIAERASGKGNFSYSRFFAVGLFRLLELANA--- 222 (245)
Q Consensus 148 ~Alg~DP~qyR~DA~~l~~~A~~~s~~~l~~~~~~~--g~~~~~l~~Ia~~~~~n~~F~YSRlfAIGLf~LLE~a~~--- 222 (245)
+|+|+||+|||+||++|++||+|++.+||.+|++++ |+++.+++.++ .+++|++||||||||||||+|||.+++
T Consensus 82 ~a~~~dp~~~r~dA~~l~~~a~~~s~~~i~~~l~~~~~~~~~~l~~~l~-~ia~~~~f~YSRl~AIGL~~LLe~a~~~~~ 160 (225)
T PRK13266 82 QAVGFDPEQLRQDAERLLELAKGKSLKEILSWLTQKALGEPGGLLATLL-AIANNSKFKYSRLFAIGLYTLLEEAQPDLV 160 (225)
T ss_pred HHcCCCHHHHHHHHHHHHHHHhcCCHHHHHHHHhccccccchhHHHHHH-HHhcCCCCchHHHHHHHHHHHHHhcCcccc
Confidence 999999999999999999999999999999999964 45555555555 455799999999999999999999987
Q ss_pred CCh----HHHHHHHHhcCCCcc
Q 025969 223 TEP----TVLEKVISIRSLNWM 240 (245)
Q Consensus 223 ~dp----~~L~kl~~~l~l~~~ 240 (245)
+|| +.++++|++||||+.
T Consensus 161 ~d~~~~~~~l~~l~~~L~ls~~ 182 (225)
T PRK13266 161 KDEEKLNEALKDISEGLGLSKE 182 (225)
T ss_pred cCHHHHHHHHHHHHHHcCCCHH
Confidence 466 689999999999874
No 5
>TIGR03060 PS_II_psb29 photosystem II biogenesis protein Psp29. Psp29, originally designated sll1414 in Synechocystis 6803, is found universally in Cyanobacteria and in Arabidopsis. It was isolated and partially sequenced from purified photosystem II (PS II) in Synechocystis. While its function is unknown, mutant studies show an impairment in photosystem II biogenesis and/or stability, rather than in PS II core function.
Probab=100.00 E-value=1e-73 Score=503.45 Aligned_cols=169 Identities=38% Similarity=0.669 Sum_probs=156.6
Q ss_pred CCCCchhHhHHHHHhhCCCcCCcchhHHHHHHHHHHhhhcccccccccccchhhHHHHHHHHhcCCCCchhHHHHHHHHH
Q 025969 68 DVPPTVAETKMNFLKLYKRPIPSIYNTVLQELIVQQHLMRYKRTYQYDPVFALGFVTVYDRLMEGYPSEEDREAIFQAYI 147 (245)
Q Consensus 68 ~~~~TVSDTKr~F~~~y~rPIpsIYRrvv~ELLVElHLLs~n~~F~YDplFALG~VTvFd~fmqGY~peed~~~IF~Alc 147 (245)
+++||||||||+||++|||||||||||||||||||||||+||++|+|||||||||||+||+||+||||++|+++||+|||
T Consensus 2 ~~~~TVSDtKr~F~~~~p~pI~siYrrvv~ELLVElHLl~~n~~F~yDplfAlGlvt~fd~fm~GY~Pee~~~~IF~Alc 81 (214)
T TIGR03060 2 TERRTVSDSKRAFHAAFPRVIPPLYRRVVDELLVELHLLSHQSDFKYDPLFALGLVTVFDRFMEGYRPEEHLDALFDALC 81 (214)
T ss_pred CCCCcHHHHHHHHHHhCCCCCchHHHHHHHHHHHHHHHHHhccCceeCchHHhhHHHHHHHHHcCCCChHHHHHHHHHHH
Confidence 47899999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HhcCCCHHHHHHHHHHHHHHHhcCCccccccccCCcch--hHH-HHHHHHHHhcCCCCCcchhhHHHHHHHHHhhcCCC-
Q 025969 148 TALKEDPEQYRIDAQKLEEWARGQTASSLVEFPSKEGE--VEG-LLKDIAERASGKGNFSYSRFFAVGLFRLLELANAT- 223 (245)
Q Consensus 148 ~Alg~DP~qyR~DA~~l~~~A~~~s~~~l~~~~~~~g~--~~~-~l~~Ia~~~~~n~~F~YSRlfAIGLf~LLE~a~~~- 223 (245)
+|+|+||+|||+||++|++||+|++.++|.+|++++|+ .+. .|++|| +|++||||||||||||+|||.+++.
T Consensus 82 ~a~~~dp~~~r~dA~~l~~~a~~~s~~~i~~~l~~~~~~~~~~l~l~~ia----~n~~f~YSRl~AIGL~~LLe~a~~~~ 157 (214)
T TIGR03060 82 NSNGFDPEQLREDAKQLLEQAKGKGLDEILSWLTQANLSNGGGDTLQGIA----GRHKFKYSRLFAIGLYSLLEEAAPDK 157 (214)
T ss_pred HhcCCCHHHHHHHHHHHHHHHhcCCHHHHHHHHhccccCCcchhHHHHHh----cCCCcchHHHHHHHHHHHHHhcCccc
Confidence 99999999999999999999999999999999987543 222 566665 5999999999999999999998863
Q ss_pred --C----hHHHHHHHHhcCCCcc
Q 025969 224 --E----PTVLEKVISIRSLNWM 240 (245)
Q Consensus 224 --d----p~~L~kl~~~l~l~~~ 240 (245)
| ++.++++|++||||+.
T Consensus 158 ~~d~~~~~~~l~~l~~~L~ls~~ 180 (214)
T TIGR03060 158 DIDEEDLNEILKELSEALGLSYD 180 (214)
T ss_pred ccCHHHHHHHHHHHHHHcCCCHH
Confidence 4 5689999999999874
No 6
>PF11264 ThylakoidFormat: Thylakoid formation protein; InterPro: IPR017499 Psp29, originally designated sll1414 (P73956 from SWISSPROT) in Synechocystis sp. (strain PCC 6803), is found universally in Cyanobacteria and in Arabidopsis. It was isolated and partially sequenced from purified photosystem II (PS II) in Synechocystis. While its function is unknown, mutant studies show an impairment in photosystem II biogenesis and/or stability, rather than in PS II core function.; GO: 0010027 thylakoid membrane organization, 0015979 photosynthesis, 0009523 photosystem II
Probab=94.90 E-value=0.035 Score=50.10 Aligned_cols=57 Identities=19% Similarity=0.294 Sum_probs=47.7
Q ss_pred hcccccccccccchhhHHHHHHHHhc-CCCCchhHHHHHHHHHHhcCCCHHHHHHHHH
Q 025969 106 MRYKRTYQYDPVFALGFVTVYDRLME-GYPSEEDREAIFQAYITALKEDPEQYRIDAQ 162 (245)
Q Consensus 106 Ls~n~~F~YDplFALG~VTvFd~fmq-GY~peed~~~IF~Alc~Alg~DP~qyR~DA~ 162 (245)
..-|..|.|.-+||+|+.+..+.--- .-..++++..+.+.||+++|+.++.+.+|-.
T Consensus 127 ia~~~~f~YSRl~AIGL~~LLe~a~~~~~~~~~~~~~~l~~l~~~l~ls~~kv~kDL~ 184 (216)
T PF11264_consen 127 IASNPKFKYSRLFAIGLFRLLELAGADLVKDEEKRPEALEKLSEALGLSKEKVEKDLD 184 (216)
T ss_pred HhcCCCCchHHHHHHHHHHHHHhcCcccccChhhHHHHHHHHHHHcCCCHHHHHhhHH
Confidence 34578999999999999999987654 2445677888999999999999999988864
No 7
>PRK13266 Thf1-like protein; Reviewed
Probab=94.81 E-value=0.056 Score=49.13 Aligned_cols=63 Identities=17% Similarity=0.292 Sum_probs=50.7
Q ss_pred HHHHHhhhcccccccccccchhhHHHHHHHHhcC-CCCchhHHHHHHHHHHhcCCCHHHHHHHH
Q 025969 99 LIVQQHLMRYKRTYQYDPVFALGFVTVYDRLMEG-YPSEEDREAIFQAYITALKEDPEQYRIDA 161 (245)
Q Consensus 99 LLVElHLLs~n~~F~YDplFALG~VTvFd~fmqG-Y~peed~~~IF~Alc~Alg~DP~qyR~DA 161 (245)
|+-.++=..-|..|.|.-+||+|+.+..+.---. ...++++..+.+.+|+++|+..+.+.+|-
T Consensus 125 l~~~l~~ia~~~~f~YSRl~AIGL~~LLe~a~~~~~~d~~~~~~~l~~l~~~L~ls~~kv~KDL 188 (225)
T PRK13266 125 LLATLLAIANNSKFKYSRLFAIGLYTLLEEAQPDLVKDEEKLNEALKDISEGLGLSKEKVEKDL 188 (225)
T ss_pred HHHHHHHHhcCCCCchHHHHHHHHHHHHHhcCcccccCHHHHHHHHHHHHHHcCCCHHHHHhhH
Confidence 3334444457899999999999999999876542 45667889999999999999999888775
No 8
>TIGR03060 PS_II_psb29 photosystem II biogenesis protein Psp29. Psp29, originally designated sll1414 in Synechocystis 6803, is found universally in Cyanobacteria and in Arabidopsis. It was isolated and partially sequenced from purified photosystem II (PS II) in Synechocystis. While its function is unknown, mutant studies show an impairment in photosystem II biogenesis and/or stability, rather than in PS II core function.
Probab=94.51 E-value=0.048 Score=49.29 Aligned_cols=58 Identities=19% Similarity=0.301 Sum_probs=47.8
Q ss_pred HhhhcccccccccccchhhHHHHHHHHhcCC--CCchhHHHHHHHHHHhcCCCHHHHHHHH
Q 025969 103 QHLMRYKRTYQYDPVFALGFVTVYDRLMEGY--PSEEDREAIFQAYITALKEDPEQYRIDA 161 (245)
Q Consensus 103 lHLLs~n~~F~YDplFALG~VTvFd~fmqGY--~peed~~~IF~Alc~Alg~DP~qyR~DA 161 (245)
++=..-|..|.|.-+||+|+.+..+. .+|. ..++++..+.+.+|+++|+..+.+.+|-
T Consensus 127 l~~ia~n~~f~YSRl~AIGL~~LLe~-a~~~~~~d~~~~~~~l~~l~~~L~ls~~kv~KDL 186 (214)
T TIGR03060 127 LQGIAGRHKFKYSRLFAIGLYSLLEE-AAPDKDIDEEDLNEILKELSEALGLSYDRVEKDL 186 (214)
T ss_pred HHHHhcCCCcchHHHHHHHHHHHHHh-cCcccccCHHHHHHHHHHHHHHcCCCHHHHHhhH
Confidence 33444789999999999999999984 4443 4667788999999999999999888775
No 9
>PLN03060 inositol phosphatase-like protein; Provisional
Probab=91.71 E-value=0.17 Score=45.53 Aligned_cols=50 Identities=20% Similarity=0.327 Sum_probs=40.9
Q ss_pred hcccccccccccchhhHHHHHHHHhcCCCCchhHHHHHHHHHHhcCCCHHHHHHHH
Q 025969 106 MRYKRTYQYDPVFALGFVTVYDRLMEGYPSEEDREAIFQAYITALKEDPEQYRIDA 161 (245)
Q Consensus 106 Ls~n~~F~YDplFALG~VTvFd~fmqGY~peed~~~IF~Alc~Alg~DP~qyR~DA 161 (245)
..-|..|.|.-+||+|+.+..+.--.. |. .+.+.+|+++|+..+.+.+|-
T Consensus 129 ~~~~~~f~YSRl~AIGL~~LLe~a~~~-----d~-~~l~~l~~~L~ls~~kv~kDL 178 (206)
T PLN03060 129 AAGKTKFHYSRFFAIGLFRLLECAKAS-----DP-AVLEKLSKALNVSKRSVDRDL 178 (206)
T ss_pred hhcCCCcchHHHHHHHHHHHHHHcCCC-----CH-HHHHHHHHHcCCCHHHHHhhH
Confidence 336899999999999999999876332 22 289999999999998888775
No 10
>PLN00047 photosystem II biogenesis protein Psb29; Provisional
Probab=89.84 E-value=0.31 Score=45.86 Aligned_cols=48 Identities=17% Similarity=0.291 Sum_probs=39.2
Q ss_pred ccccccccccchhhHHHHHHHHhcCCCCchhHHHHHHHHHHhcCCCHHHHHHHH
Q 025969 108 YKRTYQYDPVFALGFVTVYDRLMEGYPSEEDREAIFQAYITALKEDPEQYRIDA 161 (245)
Q Consensus 108 ~n~~F~YDplFALG~VTvFd~fmqGY~peed~~~IF~Alc~Alg~DP~qyR~DA 161 (245)
-|..|.|.-+||+|+.+..+.--- . |. .+.+-||+++|+.++.+.+|-
T Consensus 184 ~~~~f~YSRlfAIGLf~LLe~a~~-~----d~-~~l~~l~e~Lgls~~kv~KDL 231 (283)
T PLN00047 184 SKGKFSYSRFFAIGLFRLLELANA-T----EP-TALEKLCAALNINKRSVDRDL 231 (283)
T ss_pred cCCCcchHHHHHHHHHHHHHhcCC-C----CH-HHHHHHHHHcCCCHHHHHhhH
Confidence 579999999999999998876533 2 22 388889999999999988775
No 11
>COG3793 TerB Tellurite resistance protein [Inorganic ion transport and metabolism]
Probab=68.66 E-value=15 Score=31.78 Aligned_cols=36 Identities=22% Similarity=0.219 Sum_probs=30.8
Q ss_pred hhHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHhcCC
Q 025969 137 EDREAIFQAYITALKEDPEQYRIDAQKLEEWARGQT 172 (245)
Q Consensus 137 ed~~~IF~Alc~Alg~DP~qyR~DA~~l~~~A~~~s 172 (245)
+....||+.+|.+.+.|++.=+..+.++.+-.++.+
T Consensus 65 ~~i~~~~~~~~~~~~~d~~~gk~ea~~~I~~lk~d~ 100 (144)
T COG3793 65 NEINEIFETLVGSFDTDFEIGKREAMKEIEDLKHDT 100 (144)
T ss_pred HHHHHHHHHHHHHhhhhhhhhHHHHHHHHHHhcCCh
Confidence 468899999999999999999999988888666554
No 12
>TIGR00059 L17 ribosomal protein L17. Eubacterial and mitochondrial. The mitochondrial form, from yeast, contains an additional 110 amino acids C-terminal to the region found by this model.
Probab=61.51 E-value=15 Score=30.31 Aligned_cols=77 Identities=21% Similarity=0.308 Sum_probs=60.5
Q ss_pred CchhHHHHHHHHHHhcC---------CCHHHHHHHHHHHHHHHhcCCcc---ccccccCCcchhHHHHHHHHHHhcCCCC
Q 025969 135 SEEDREAIFQAYITALK---------EDPEQYRIDAQKLEEWARGQTAS---SLVEFPSKEGEVEGLLKDIAERASGKGN 202 (245)
Q Consensus 135 peed~~~IF~Alc~Alg---------~DP~qyR~DA~~l~~~A~~~s~~---~l~~~~~~~g~~~~~l~~Ia~~~~~n~~ 202 (245)
+.+||.+++..|+.+|= --++++|.-|++|..+|+..+.. .+..|+.....+..++..|+.+-+ +.+
T Consensus 8 ~~~hR~allrnl~tsLi~herI~TT~~KAKelr~~aEklIt~AK~~~~~~rR~~~~~l~~~~~v~KLf~~lapry~-~R~ 86 (112)
T TIGR00059 8 TSAHRKALLRNLASALIRHEKIKTTLAKAKELRRVVEKLITLAKVDNFNNRREAKAYIRNKEIVHKLFSEIAPRYA-QRP 86 (112)
T ss_pred CHHHHHHHHHHHHHHHHHCCeEEECHHHHHHHHHHHHHHHHHhcCCChHHHHHHHHHhCCHHHHHHHHHHHHHHhC-CCC
Confidence 56899999999998873 35789999999999999976654 345666666678889999998876 455
Q ss_pred CcchhhHHHH
Q 025969 203 FSYSRFFAVG 212 (245)
Q Consensus 203 F~YSRlfAIG 212 (245)
--|+|+.=+|
T Consensus 87 GGYTRI~kl~ 96 (112)
T TIGR00059 87 GGYTRILKLG 96 (112)
T ss_pred CCeEEEEECC
Confidence 5899986655
No 13
>PF08542 Rep_fac_C: Replication factor C C-terminal domain; InterPro: IPR013748 Replication factor C (RFC) is a multimeric AAA+ protein complex that loads the DNA polymerase processivity clamp PCNA (Proliferating Cell Nuclear Antigen) onto DNA using ATP to drive the reaction []. PCNA functions at multiple levels in directing DNA metabolic pathways []. When bound to DNA, PCNA organises various proteins involved in DNA replication, DNA repair, DNA modification, and chromatin modelling. Replication factor C consists of five subunits in a spiral arrangement: Rfc1, Rfc2, Rfc3, Rfc4, and Rfc5 subunits. Rfc1 and Rfc2 load the PCNA sliding clamp onto DNA, while Rfc3 binds ATP and also acts as a checkpoint sensor. The RFC complex contains four ATP sites (sites A, B, C, and D) located at subunit interfaces. In each ATP site, an arginine residue from one subunit is located near the gamma-phosphate of ATP bound in the adjacent subunit. These arginine residues act as "arginine fingers" that can potentially perform two functions: sensing that ATP is bound and catalyzing ATP hydrolysis []. This entry represents the core domain found in Rfc1-5.; GO: 0003689 DNA clamp loader activity, 0005524 ATP binding, 0006260 DNA replication, 0005663 DNA replication factor C complex; PDB: 1SXJ_B 2CHG_B 2CHV_F 2CHQ_C 1IQP_A.
Probab=54.31 E-value=18 Score=26.69 Aligned_cols=42 Identities=24% Similarity=0.327 Sum_probs=29.2
Q ss_pred CCCCchhHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHhcCCcccccc
Q 025969 132 GYPSEEDREAIFQAYITALKEDPEQYRIDAQKLEEWARGQTASSLVE 178 (245)
Q Consensus 132 GY~peed~~~IF~Alc~Alg~DP~qyR~DA~~l~~~A~~~s~~~l~~ 178 (245)
|.||+++-+.|++.+.+. +-+..|+....+... |.+..+|+.
T Consensus 1 ~~p~~~~i~~i~~~~~~~---~~~~~~~~~~~l~~~--G~s~~~Il~ 42 (89)
T PF08542_consen 1 DWPPPEVIEEILESCLNG---DFKEARKKLYELLVE--GYSASDILK 42 (89)
T ss_dssp TS--HHHHHHHHHHHHHT---CHHHHHHHHHHHHHT--T--HHHHHH
T ss_pred CCCCHHHHHHHHHHHHhC---CHHHHHHHHHHHHHc--CCCHHHHHH
Confidence 568888888888888776 777788888777765 777776664
No 14
>PRK05591 rplQ 50S ribosomal protein L17; Validated
Probab=53.48 E-value=20 Score=29.63 Aligned_cols=77 Identities=22% Similarity=0.304 Sum_probs=60.8
Q ss_pred CchhHHHHHHHHHHhcC---------CCHHHHHHHHHHHHHHHhcCCcc---ccccccCCcchhHHHHHHHHHHhcCCCC
Q 025969 135 SEEDREAIFQAYITALK---------EDPEQYRIDAQKLEEWARGQTAS---SLVEFPSKEGEVEGLLKDIAERASGKGN 202 (245)
Q Consensus 135 peed~~~IF~Alc~Alg---------~DP~qyR~DA~~l~~~A~~~s~~---~l~~~~~~~g~~~~~l~~Ia~~~~~n~~ 202 (245)
+.+||.+++.-++.+|= --+.++|.-|++|..+|+.-+.. .+..|+.....+..++..|+.+-+ +.+
T Consensus 10 ~~~hR~allrnl~tsLi~herI~TT~~KAKelr~~aEklIt~aK~~~~~~rR~~~~~L~~~~~v~KLf~~lapry~-~R~ 88 (113)
T PRK05591 10 TSSHRKAMLRNLATSLIEHERIETTLPKAKELRRVVEKLITLAKKGDLHARRQAFARLRDKEAVHKLFDEIAPRYA-DRN 88 (113)
T ss_pred ChHHHHHHHHHHHHHHHHcCeEEecHHHHHHHHHHHHHHHHHhhcCChHHHHHHHHHhCCHHHHHHHHHHHHHHhC-cCC
Confidence 56899999999999874 34788999999999999976654 344566666678888999998886 455
Q ss_pred CcchhhHHHH
Q 025969 203 FSYSRFFAVG 212 (245)
Q Consensus 203 F~YSRlfAIG 212 (245)
--|+|++-+|
T Consensus 89 GGYTRI~k~~ 98 (113)
T PRK05591 89 GGYTRILKLG 98 (113)
T ss_pred CCeEEEEECC
Confidence 5899988776
No 15
>PF01841 Transglut_core: Transglutaminase-like superfamily; InterPro: IPR002931 This domain is found in many proteins known to have transglutaminase activity, i.e. which cross-link proteins through an acyl-transfer reaction between the gamma-carboxamide group of peptide-bound glutamine and the epsilon-amino group of peptide-bound lysine, resulting in a epsilon-(gamma-glutamyl)lysine isopeptide bond. Tranglutaminases have been found in a diverse range of species, from bacteria through to mammals. The enzymes require calcium binding and their activity leads to post-translational modification of proteins through acyl-transfer reactions, involving peptidyl glutamine residues as acyl donors and a variety of primary amines as acyl acceptors, with the generation of proteinase resistant isopeptide bonds []. Sequence conservation in this superfamily primarily involves three motifs that centre around conserved cysteine, histidine, and aspartate residues that form the catalytic triad in the structurally characterised transglutaminase, the human blood clotting factor XIIIa' []. On the basis of the experimentally demonstrated activity of the Methanobacterium phage psiM2 pseudomurein endoisopeptidase [], it is proposed that many, if not all, microbial homologs of the transglutaminases are proteases and that the eukaryotic transglutaminases have evolved from an ancestral protease []. A subunit of plasma Factor XIII revealed that each Factor XIIIA subunit is composed of four domains (termed N-terminal beta-sandwich, core domain (containing the catalytic and the regulatory sites), and C-terminal beta-barrels 1 and 2) and that two monomers assemble into the native dimer through the surfaces in domains 1 and 2, in opposite orientation. This organisation in four domains is highly conserved during evolution among transglutaminase isoforms [].; PDB: 2F4M_A 2F4O_A 1GGY_B 1FIE_B 1GGU_B 1GGT_B 1F13_A 1QRK_B 1EVU_A 1EX0_B ....
Probab=48.81 E-value=9.7 Score=28.41 Aligned_cols=46 Identities=26% Similarity=0.375 Sum_probs=32.3
Q ss_pred ccccccc-ccchhhHHHHHHHHhcCCCCchhHHHHHHHHHHhcCCCH
Q 025969 109 KRTYQYD-PVFALGFVTVYDRLMEGYPSEEDREAIFQAYITALKEDP 154 (245)
Q Consensus 109 n~~F~YD-plFALG~VTvFd~fmqGY~peed~~~IF~Alc~Alg~DP 154 (245)
+.+++|| +-..-+-.++.+-|..|+=.-++...+|.|||.++|.+.
T Consensus 26 ~~~~~y~~~~~~~~~~~~~~~l~~~~G~C~~~a~l~~allr~~Gipa 72 (113)
T PF01841_consen 26 RSNIRYDDPNYSPGPRDASEVLRSGRGDCEDYASLFVALLRALGIPA 72 (113)
T ss_dssp CCCCCEC-TCCCCCCTTHHHHHHCEEESHHHHHHHHHHHHHHHT--E
T ss_pred HhCcEEeCCCCCCCCCCHHHHHHcCCCccHHHHHHHHHHHhhCCCce
Confidence 3566666 344444445666666777788999999999999999864
No 16
>TIGR02147 Fsuc_second hypothetical protein, TIGR02147. This family consists of the 40 members of a paralogous protein family in the rumen anaerobe Fibrobacter succinogenes S85. Member proteins are about 270 residues long and appear to lack signal sequences and transmembrane helices. The only perfectly conserved residue is a glycine in an otherwise poorly conserved region, suggesting members are not enzymes. The family is not characterized.
Probab=48.32 E-value=78 Score=29.42 Aligned_cols=133 Identities=14% Similarity=0.254 Sum_probs=76.2
Q ss_pred hhHHHHHHHHHHhhhccccccccccc-chhhHHH--HHHHHhcCCCCchhHHHHHHHHHHhcCCCHHHHHHHHHHHHHHH
Q 025969 92 YNTVLQELIVQQHLMRYKRTYQYDPV-FALGFVT--VYDRLMEGYPSEEDREAIFQAYITALKEDPEQYRIDAQKLEEWA 168 (245)
Q Consensus 92 YRrvv~ELLVElHLLs~n~~F~YDpl-FALG~VT--vFd~fmqGY~peed~~~IF~Alc~Alg~DP~qyR~DA~~l~~~A 168 (245)
||..+++...+-.- .|..|.+=.+ -.+||.+ -+-.+++|=++-. +.-..-+++++|+++.+-. --+.|....
T Consensus 10 YR~fl~d~ye~rk~--~~p~fS~R~fa~~~G~ss~s~L~~v~~Gkr~Ls--~~~~~k~a~~l~L~~~E~~-yF~~lV~f~ 84 (271)
T TIGR02147 10 YRKYLRDYYEERKK--TDPAFSWRFFAEKAGFSSTSYLNDIIKGKKNLT--KRMIPKFAEALGLDEKEAA-YFEAMVNFG 84 (271)
T ss_pred HHHHHHHHHHHHhc--cCcCcCHHHHHHHhCCCCHHHHHHHHcCCCCCC--HHHHHHHHHHcCCCHHHHH-HHHHHHHHh
Confidence 77777777776654 3445665555 3488776 5678889988766 5556778999999987632 233444444
Q ss_pred hcCCccccccccCCcchhHHHHHHHHHHhcCCCCC-cchhhHHHHHHHHHhhcCCC-ChHHHHHHH
Q 025969 169 RGQTASSLVEFPSKEGEVEGLLKDIAERASGKGNF-SYSRFFAVGLFRLLELANAT-EPTVLEKVI 232 (245)
Q Consensus 169 ~~~s~~~l~~~~~~~g~~~~~l~~Ia~~~~~n~~F-~YSRlfAIGLf~LLE~a~~~-dp~~L~kl~ 232 (245)
+.++.++-..+..+ +..+...-..+.-+.+.| .|+.+..--|..|+...+.+ ||+.|.+.|
T Consensus 85 ~ak~~~~k~~~~~~---~~~~~~~~~~~~L~~~~~~y~~~W~~~virel~~~~~~~~~~~~ia~~l 147 (271)
T TIGR02147 85 QAKTDTEKQQFFEE---MQALKPRPRLRVLAADQFEYYRHWYNSVIRELLGVMPFADDPEELAKRC 147 (271)
T ss_pred ccCCHHHHHHHHHH---HHHHhhhchheeccHHHHHHHHHHHHHHHHHHhhcCCCCCCHHHHHHHh
Confidence 44443322211110 000000000011112333 67788888888888877665 777666555
No 17
>PF05099 TerB: Tellurite resistance protein TerB; InterPro: IPR007791 The prokaryotic heat shock protein DnaJ interacts with the chaperone hsp70-like DnaK protein []. Structurally, the DnaJ protein consists of an N-terminal conserved domain (called 'J' domain) of about 70 amino acids, a glycine-rich region ('G' domain') of about 30 residues, a central domain containing four repeats of a CXXCXGXG motif ('CRR' domain) and a C-terminal region of 120 to 170 residues. Direct interaction between DnaK and djlA is needed for the induction of the wcaABCDE operon which is involved in the synthesis of a colanic acid polysaccharide capsule. The colanic acid capsule may help the bacterium survive conditions outside the host [, ]; PDB: 2H5N_D 2JXU_A.
Probab=47.30 E-value=85 Score=24.64 Aligned_cols=95 Identities=16% Similarity=0.118 Sum_probs=50.4
Q ss_pred hcCCCCchhHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHhcCCccccccccCCcchhHHHHHHHHHHhcCCCCCcchhhH
Q 025969 130 MEGYPSEEDREAIFQAYITALKEDPEQYRIDAQKLEEWARGQTASSLVEFPSKEGEVEGLLKDIAERASGKGNFSYSRFF 209 (245)
Q Consensus 130 mqGY~peed~~~IF~Alc~Alg~DP~qyR~DA~~l~~~A~~~s~~~l~~~~~~~g~~~~~l~~Ia~~~~~n~~F~YSRlf 209 (245)
-.|--.+++++.|-+.+.+-.+++++....-.+.+.+.... ..+.+..+..|.. .-....-..+
T Consensus 36 aDG~v~~~E~~~i~~~~~~~~~~~~~~~~~l~~~~~~~~~~------------~~~~~~~~~~l~~----~~~~~~r~~l 99 (140)
T PF05099_consen 36 ADGEVDPEEIEAIRQLLAERFGLSPEEAEELIELADELKQE------------PIDLEELLRELRD----SLSPEEREDL 99 (140)
T ss_dssp TTSS--CHHHHHHHHHHHHCGCGSCHHHHHHHHHHCHHHHH------------CCHHHHHHHHHCT----S--HHHHHHH
T ss_pred cCCCCCHHHHHHHHHHHHHhhCCCHHHHHHHHHHHHHHHhc------------cccHHHHHHHHHH----hhchHHHHHH
Confidence 35666677788888888788888877766555444443322 2233444444421 1111111222
Q ss_pred HHHHHHHHhhcCC---CChHHHHHHHHhcCCCcc
Q 025969 210 AVGLFRLLELANA---TEPTVLEKVISIRSLNWM 240 (245)
Q Consensus 210 AIGLf~LLE~a~~---~dp~~L~kl~~~l~l~~~ 240 (245)
--.++.+....|. .|.+.|++++..|||+.-
T Consensus 100 l~~l~~ia~ADG~~~~~E~~~l~~ia~~L~i~~~ 133 (140)
T PF05099_consen 100 LRMLIAIAYADGEISPEEQEFLRRIAEALGISEE 133 (140)
T ss_dssp HHHHHHHCTCTTC-SCCHHHHHHHHHHHCTS-SS
T ss_pred HHHHHHHHhcCCCCCHHHHHHHHHHHHHcCCCHH
Confidence 2233333333332 246799999999999864
No 18
>PRK10880 adenine DNA glycosylase; Provisional
Probab=44.45 E-value=3e+02 Score=26.58 Aligned_cols=109 Identities=17% Similarity=0.258 Sum_probs=65.9
Q ss_pred hhHhHHHHHhhCCC-c-----CCcchhHHHHHHHHHHhhhcccccccccccchhhHHHHHHHHhcCCCCchhHHH----H
Q 025969 73 VAETKMNFLKLYKR-P-----IPSIYNTVLQELIVQQHLMRYKRTYQYDPVFALGFVTVYDRLMEGYPSEEDREA----I 142 (245)
Q Consensus 73 VSDTKr~F~~~y~r-P-----IpsIYRrvv~ELLVElHLLs~n~~F~YDplFALG~VTvFd~fmqGY~peed~~~----I 142 (245)
.++.-.+.|..|.| + -..-|+-.|-|+|.|+==. . -+..+|++||+.||..++... =
T Consensus 6 ~~~~ll~W~~~~~r~~lpWr~~~dpy~ilVseILlQQT~v--~-----------~v~~~~~rl~~~fPt~~~La~a~~ee 72 (350)
T PRK10880 6 FSAQVLDWYDKYGRKTLPWQIDKTPYKVWLSEVMLQQTQV--A-----------TVIPYFERFMARFPTVTDLANAPLDE 72 (350)
T ss_pred HHHHHHHHHHHcCCCCCCCCCCCCHHHHHHHHHHHhhccH--H-----------HHHHHHHHHHHHCcCHHHHHCcCHHH
Confidence 56677788999886 3 4567999999999887421 1 255689999999986554321 1
Q ss_pred HHHHHHhcCC--CHHHHHHHHHHHHHHHhcCCccccccccCCcchhHHHHHHHH
Q 025969 143 FQAYITALKE--DPEQYRIDAQKLEEWARGQTASSLVEFPSKEGEVEGLLKDIA 194 (245)
Q Consensus 143 F~Alc~Alg~--DP~qyR~DA~~l~~~A~~~s~~~l~~~~~~~g~~~~~l~~Ia 194 (245)
...+++.+|+ -...+++-|+.+.+.-.|.=+++..+.++-.|=...+...|.
T Consensus 73 l~~~~~glGyy~RAr~L~~~A~~i~~~~~g~~p~~~~~L~~LpGIG~~TA~aIl 126 (350)
T PRK10880 73 VLHLWTGLGYYARARNLHKAAQQVATLHGGEFPETFEEVAALPGVGRSTAGAIL 126 (350)
T ss_pred HHHHHHcCChHHHHHHHHHHHHHHHHHhCCCchhhHHHHhcCCCccHHHHHHHH
Confidence 2245567887 555555666666543333333444444443443344555554
No 19
>cd00192 PTKc Catalytic domain of Protein Tyrosine Kinases. Protein Tyrosine Kinase (PTK) family, catalytic domain. This PTKc family is part of a larger superfamily that includes the catalytic domains of protein serine/threonine kinases, RIO kinases, aminoglycoside phosphotransferase, choline kinase, and phosphoinositide 3-kinase (PI3K). PTKs catalyze the transfer of the gamma-phosphoryl group from ATP to tyrosine (tyr) residues in protein substrates. They can be classified into receptor and non-receptor tyr kinases. PTKs play important roles in many cellular processes including, lymphocyte activation, epithelium growth and maintenance, metabolism control, organogenesis regulation, survival, proliferation, differentiation, migration, adhesion, motility, and morphogenesis. Receptor tyr kinases (RTKs) are integral membrane proteins which contain an extracellular ligand-binding region, a transmembrane segment, and an intracellular tyr kinase domain. RTKs are usually activated through ligan
Probab=42.62 E-value=33 Score=27.96 Aligned_cols=32 Identities=13% Similarity=0.325 Sum_probs=19.6
Q ss_pred cccchhhHHHHHHHHhcCCCCchh--HHHHHHHHH
Q 025969 115 DPVFALGFVTVYDRLMEGYPSEED--REAIFQAYI 147 (245)
Q Consensus 115 DplFALG~VTvFd~fmqGY~peed--~~~IF~Alc 147 (245)
..+|+||++ .|+.++.|++|-++ ...+++.+.
T Consensus 188 ~Di~slG~i-l~~l~~~g~~p~~~~~~~~~~~~~~ 221 (262)
T cd00192 188 SDVWSFGVL-LWEIFTLGATPYPGLSNEEVLEYLR 221 (262)
T ss_pred hccHHHHHH-HHHHHhcCCCCCCCCCHHHHHHHHH
Confidence 469999976 56666667877432 333444444
No 20
>PF02861 Clp_N: Clp amino terminal domain; InterPro: IPR004176 This short domain is found in one or two copies at the amino terminus of ClpA and ClpB proteins from bacteria and eukaryotes. The function of these domains is uncertain but they may form a protein binding site []. The proteins are thought to be subunits of ATP-dependent proteases which act as chaperones to target the proteases to substrates.; GO: 0019538 protein metabolic process; PDB: 3FH2_A 3ZRJ_A 3ZRI_A 1QVR_C 3FES_C 2Y1R_F 3PXG_D 2Y1Q_A 3PXI_C 2K77_A ....
Probab=41.82 E-value=25 Score=23.14 Aligned_cols=27 Identities=30% Similarity=0.416 Sum_probs=22.2
Q ss_pred hHHHHHHHHHHhcCCCHHHHHHHHHHH
Q 025969 138 DREAIFQAYITALKEDPEQYRIDAQKL 164 (245)
Q Consensus 138 d~~~IF~Alc~Alg~DP~qyR~DA~~l 164 (245)
+.+.++.-+++.+|.|++++++..++.
T Consensus 25 ~~~~~~~~il~~~~id~~~l~~~i~~~ 51 (53)
T PF02861_consen 25 DPDSIAARILKKLGIDPEQLKAAIEKA 51 (53)
T ss_dssp HTTSHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred hhhHHHHHHHHHcCCCHHHHHHHHHHH
Confidence 345678888999999999999988765
No 21
>PF01024 Colicin: Colicin pore forming domain; InterPro: IPR000293 Colicins are plasmid-encoded polypeptide toxins produced by and active against Escherichia coli and closely related bacteria. Colicins are released into the environment to reduce competition from other bacterial strains. Colicins bind to outer membrane receptors, using them to translocate to the cytoplasm or cytoplasmic membrane, where they exert their cytotoxic effect, including depolarisation of the cytoplasmic membrane, DNase activity, RNase activity, or inhibition of murein synthesis. Channel-forming colicins (colicins A, B, E1, Ia, Ib, and N) are transmembrane proteins that depolarize the cytoplasmic membrane, leading to dissipation of cellular energy []. These colicins contain at least three domains: an N-terminal translocation domain responsible for movement across the outer membrane and periplasmic space; a central domain responsible for receptor recognition; and a C-terminal cytotoxic domain responsible for channel formation in the cytoplasmic membrane []. This entry represents the C-terminal cytotoxic domain, which has a globin-like fold with additional helices at either end.; GO: 0019835 cytolysis, 0050829 defense response to Gram-negative bacterium, 0016021 integral to membrane; PDB: 2I88_A 1CII_A 1RH1_A 1COL_B 1A87_A 3FEW_X.
Probab=41.74 E-value=60 Score=29.17 Aligned_cols=73 Identities=22% Similarity=0.202 Sum_probs=44.7
Q ss_pred HHHHHHHHHHHHHHHhcCCccccccccCCcchhHHHHHHHHHHhcCCCCCcchhhHHHHHHHHHhhcCCCC-hHHHHHHH
Q 025969 154 PEQYRIDAQKLEEWARGQTASSLVEFPSKEGEVEGLLKDIAERASGKGNFSYSRFFAVGLFRLLELANATE-PTVLEKVI 232 (245)
Q Consensus 154 P~qyR~DA~~l~~~A~~~s~~~l~~~~~~~g~~~~~l~~Ia~~~~~n~~F~YSRlfAIGLf~LLE~a~~~d-p~~L~kl~ 232 (245)
.++|.+-|++|.+-++|+..-...+ .|+.+- +.+.|++-+.+.=-=--|...||..+.+| -+-|.++.
T Consensus 31 G~Ky~~~A~elA~~~kGKkIRs~~d----------Al~s~e-K~~~n~~kK~~~kDr~AI~~Al~s~d~~~~A~nl~k~s 99 (187)
T PF01024_consen 31 GEKYKKLAKELAEDAKGKKIRSVDD----------ALKSFE-KYKSNLNKKINAKDRDAIVNALESVDAKDMAKNLAKFS 99 (187)
T ss_dssp -HHHHHHHHHHHHHHHTGC---HHH----------HHHHHH-HHHTHTTCSS-HHHHHHHHHHHHT--HHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHhcccccCCHHH----------HHHHHH-HHHhchhhhhhhccHHHHHHHHHHcCHHHHHHHHHHHH
Confidence 4688999999999999888764433 444332 34446666666666666677777666655 45677777
Q ss_pred HhcCC
Q 025969 233 SIRSL 237 (245)
Q Consensus 233 ~~l~l 237 (245)
+++|+
T Consensus 100 K~fg~ 104 (187)
T PF01024_consen 100 KAFGI 104 (187)
T ss_dssp GGGTS
T ss_pred HHhcc
Confidence 77765
No 22
>PRK13910 DNA glycosylase MutY; Provisional
Probab=41.17 E-value=3.1e+02 Score=25.78 Aligned_cols=71 Identities=13% Similarity=0.082 Sum_probs=40.3
Q ss_pred HHHHHHhcCCCCchhH----HHHHHHHHHhcCC--CHHHHHHHHHHHHHHHhcCCccccccccCCcchhHHHHHHHH
Q 025969 124 TVYDRLMEGYPSEEDR----EAIFQAYITALKE--DPEQYRIDAQKLEEWARGQTASSLVEFPSKEGEVEGLLKDIA 194 (245)
Q Consensus 124 TvFd~fmqGY~peed~----~~IF~Alc~Alg~--DP~qyR~DA~~l~~~A~~~s~~~l~~~~~~~g~~~~~l~~Ia 194 (245)
-.|++||+-||..++. +.=...+++.+|+ -+..+++-|+.+.+--.|.-+.+..+.++-.|=...+...|.
T Consensus 13 ~yy~rf~~~fPt~e~La~a~~~el~~~~~glGyy~RAr~L~~~A~~i~~~~~g~~P~~~~~L~~LpGIG~kTA~aIl 89 (289)
T PRK13910 13 RFYSPFLEAFPTLKDLANAPLEEVLLLWRGLGYYSRAKNLKKSAEICVKEHHSQLPNDYQSLLKLPGIGAYTANAIL 89 (289)
T ss_pred HHHHHHHHHCCCHHHHHCCCHHHHHHHHHcCCcHHHHHHHHHHHHHHHHHhCCCCChhHHHHHhCCCCCHHHHHHHH
Confidence 3789999999987764 2224457788998 555555556655543334333444443333442233444444
No 23
>COG4476 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=39.66 E-value=1.3e+02 Score=24.31 Aligned_cols=82 Identities=21% Similarity=0.186 Sum_probs=69.7
Q ss_pred hCCCcCCcchhHHHHHHHHHHhhhcccccccccccchhhHHHHHHHHhcCCCCchhHHHHHHHHHHhcCCCHHHHHHHHH
Q 025969 83 LYKRPIPSIYNTVLQELIVQQHLMRYKRTYQYDPVFALGFVTVYDRLMEGYPSEEDREAIFQAYITALKEDPEQYRIDAQ 162 (245)
Q Consensus 83 ~y~rPIpsIYRrvv~ELLVElHLLs~n~~F~YDplFALG~VTvFd~fmqGY~peed~~~IF~Alc~Alg~DP~qyR~DA~ 162 (245)
.|.+||+.=|.+ +|+.--+|++..=..+-=-.+=+.-|.-.|.+|-+=-|.-.+-..||..+=++.|..+=|--++|+
T Consensus 2 ~y~yPldldWsT--EE~~~Vl~Ffn~VE~aYE~gv~~~~ll~~Yr~FK~IVPsK~eEKql~r~FE~~SgyS~Y~~vk~ak 79 (90)
T COG4476 2 EYSYPLDLDWST--EEMISVLHFFNAVELAYEKGVDAEDLLGSYRRFKEIVPSKAEEKQLGRDFEKSSGYSLYQAVKKAK 79 (90)
T ss_pred CcCCCCCCCccH--HHHHHHHHHHHHHHHHHHccccHHHHHHHHHHHHHhcCchHHHHHHhHHHHHhcCccHHHHHHHHH
Confidence 589999999988 899999999876655545567788888999999999999999999999999999999988888887
Q ss_pred HHHH
Q 025969 163 KLEE 166 (245)
Q Consensus 163 ~l~~ 166 (245)
...+
T Consensus 80 ~~~~ 83 (90)
T COG4476 80 ESEE 83 (90)
T ss_pred Hhhh
Confidence 6643
No 24
>PF13413 HTH_25: Helix-turn-helix domain; PDB: 2WUS_R 3FYM_A.
Probab=39.50 E-value=41 Score=24.42 Aligned_cols=27 Identities=22% Similarity=0.393 Sum_probs=18.0
Q ss_pred cCCCCchhHHHHHHHHHHhcCCCHHHH
Q 025969 131 EGYPSEEDREAIFQAYITALKEDPEQY 157 (245)
Q Consensus 131 qGY~peed~~~IF~Alc~Alg~DP~qy 157 (245)
+++|++---......||+.||.||+++
T Consensus 36 ~~lp~~~y~rg~lr~Ya~~Lgld~~~l 62 (62)
T PF13413_consen 36 DSLPSPVYARGYLRKYARFLGLDPDEL 62 (62)
T ss_dssp CCSSSHHHHHHHHHHHHHHTT--HHHH
T ss_pred hhCCcHHHHHHHHHHHHHHhCcCcccC
Confidence 455555556677788899999999864
No 25
>PF13446 RPT: A repeated domain in UCH-protein
Probab=36.45 E-value=61 Score=22.93 Aligned_cols=47 Identities=21% Similarity=0.336 Sum_probs=34.3
Q ss_pred CCchhHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHhcCCcccccccc
Q 025969 134 PSEEDREAIFQAYITALKEDPEQYRIDAQKLEEWARGQTASSLVEFP 180 (245)
Q Consensus 134 ~peed~~~IF~Alc~Alg~DP~qyR~DA~~l~~~A~~~s~~~l~~~~ 180 (245)
+|.-+-+.|-.++-..+..||.+.+.--++|...|.....+.|..|+
T Consensus 14 ~~~~~Dd~Ii~~f~~~~~~~P~~~~~~r~AL~~Ia~~R~S~~L~~fl 60 (62)
T PF13446_consen 14 DEDTDDDFIISAFQSKVNDDPSQKDTLREALRVIAESRNSDRLRSFL 60 (62)
T ss_pred CCCCCHHHHHHHHHHHHHcChHhHHHHHHHHHHHHHHcCCHHHHHHH
Confidence 34444556666666666699999998888888888877777666654
No 26
>PF01196 Ribosomal_L17: Ribosomal protein L17; InterPro: IPR000456 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms. The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. Ribosomal protein L17 is one of the proteins from the large ribosomal subunit. Bacterial L17 is a protein of 120 to 130 amino-acid residues while yeast YmL8 is twice as large (238 residues). The N-terminal half of YmL8 is colinear with the sequence of L17 from Escherichia coli.; GO: 0003735 structural constituent of ribosome, 0006412 translation, 0005622 intracellular, 0005840 ribosome; PDB: 3F1F_R 1VSP_L 3PYV_N 3PYR_N 3PYO_N 1VSA_L 3MS1_N 3F1H_R 3D5B_R 3MRZ_N ....
Probab=36.05 E-value=33 Score=27.43 Aligned_cols=58 Identities=22% Similarity=0.334 Sum_probs=43.9
Q ss_pred HHHHHHHHHHHHHHHhcCCcc---ccccccCCcchhHHHHHHHHHHhcCCCCCcchhhHHHH
Q 025969 154 PEQYRIDAQKLEEWARGQTAS---SLVEFPSKEGEVEGLLKDIAERASGKGNFSYSRFFAVG 212 (245)
Q Consensus 154 P~qyR~DA~~l~~~A~~~s~~---~l~~~~~~~g~~~~~l~~Ia~~~~~n~~F~YSRlfAIG 212 (245)
+.++|.-|++|..+|+..+.. .+..|+..+..+..+++.|+.+-+ +.+--|+|++=+|
T Consensus 22 Ake~r~~aErlIt~ak~~~~~~~r~~~~~l~~~~~v~KLf~~l~pRy~-~r~GgYTRi~kl~ 82 (97)
T PF01196_consen 22 AKELRPYAERLITLAKKGDLHARRQALSWLRDKELVKKLFKELAPRYA-DRNGGYTRIIKLG 82 (97)
T ss_dssp HHHHHHHHHHHHHHHTSSTHHHHHHHHHCSSSHHHHHHHHTTHHHHTT-TSSS-SEEEEEEE
T ss_pred HHHHHHHHHHHHHHhccCcHHHHHHHHHHhcchHHHHHHHHHHHHHHc-cCCCCeEEEEeCC
Confidence 568899999999999976544 566777766678888899998886 4556899876544
No 27
>COG0203 RplQ Ribosomal protein L17 [Translation, ribosomal structure and biogenesis]
Probab=34.42 E-value=50 Score=27.75 Aligned_cols=78 Identities=22% Similarity=0.349 Sum_probs=58.3
Q ss_pred CCchhHHHHHHHHHHhcCC---------CHHHHHHHHHHHHHHHhcCCccc---cccccCCcchhHHHHHHHHHHhcCCC
Q 025969 134 PSEEDREAIFQAYITALKE---------DPEQYRIDAQKLEEWARGQTASS---LVEFPSKEGEVEGLLKDIAERASGKG 201 (245)
Q Consensus 134 ~peed~~~IF~Alc~Alg~---------DP~qyR~DA~~l~~~A~~~s~~~---l~~~~~~~g~~~~~l~~Ia~~~~~n~ 201 (245)
++..||.+++..|..+|=. .+..+|.-+++|.-+|+.-+... ...|+.++..++.++..|+.+-++.+
T Consensus 12 rtsshR~amlrnla~sLi~he~I~TT~~KAKelr~~vEkLITlaK~~~l~~RR~a~~~l~d~~~v~kLF~~iapry~~R~ 91 (116)
T COG0203 12 RTSSHRKAMLRNLATSLIEHERIETTLPKAKELRRVVEKLITLAKKGDLANRRLAFARLRDKDAVKKLFDEIAPRYAERN 91 (116)
T ss_pred CCHHHHHHHHHHHHHHHHHcCceeecHHHHHHHHHHHHHHHHHhhcccHHHHHHHHHHcccHHHHHHHHHHhChhhcCCC
Confidence 3568999999998888743 46789999999999999887763 34466666778888999987665433
Q ss_pred CCcchhhHHHH
Q 025969 202 NFSYSRFFAVG 212 (245)
Q Consensus 202 ~F~YSRlfAIG 212 (245)
. -|+|++=+|
T Consensus 92 G-GYtRIlK~g 101 (116)
T COG0203 92 G-GYTRILKLG 101 (116)
T ss_pred C-CeeEEEecC
Confidence 3 688876443
No 28
>cd05034 PTKc_Src_like Catalytic domain of Src kinase-like Protein Tyrosine Kinases. Protein Tyrosine Kinase (PTK) family; Src kinase subfamily; catalytic (c) domain. Src subfamily members include Src, Lck, Hck, Blk, Lyn, Fgr, Fyn, Yrk, and Yes. The PTKc family is part of a larger superfamily that includes the catalytic domains of other kinases such as protein serine/threonine kinases, RIO kinases, and phosphoinositide 3-kinase (PI3K). PTKs catalyze the transfer of the gamma-phosphoryl group from ATP to tyrosine (tyr) residues in protein substrates. Src (or c-Src) proteins are cytoplasmic (or non-receptor) tyr kinases which are anchored to the plasma membrane. They contain an N-terminal SH4 domain with a myristoylation site, followed by SH3 and SH2 domains, a tyr kinase domain, and a regulatory C-terminal region containing a conserved tyr. They are activated by autophosphorylation at the tyr kinase domain, but are negatively regulated by phosphorylation at the C-terminal tyr by Csk (C-t
Probab=33.78 E-value=42 Score=27.84 Aligned_cols=32 Identities=9% Similarity=0.202 Sum_probs=18.8
Q ss_pred cccchhhHHHHHHHHhcCCCCc--hhHHHHHHHHH
Q 025969 115 DPVFALGFVTVYDRLMEGYPSE--EDREAIFQAYI 147 (245)
Q Consensus 115 DplFALG~VTvFd~fmqGY~pe--ed~~~IF~Alc 147 (245)
..+|++| ++.|+-+..|.+|- .+...+.+++.
T Consensus 185 ~Di~slG-~il~~l~t~g~~p~~~~~~~~~~~~~~ 218 (261)
T cd05034 185 SDVWSFG-ILLTEIVTYGRVPYPGMTNREVLEQVE 218 (261)
T ss_pred hHHHHHH-HHHHHHHhCCCCCCCCCCHHHHHHHHH
Confidence 4699999 45666666677763 22334444443
No 29
>PF01465 GRIP: GRIP domain; InterPro: IPR000237 The GRIP (golgin-97, RanBP2alpha,Imh1p and p230/golgin-245) domain [, , ] is found in many large coiled-coil proteins. It has been shown to be sufficient for targeting to the Golgi []. The GRIP domain contains a completely conserved tyrosine residue.; GO: 0005515 protein binding, 0000042 protein targeting to Golgi; PDB: 1R4A_H 1UPT_B.
Probab=33.47 E-value=1.2e+02 Score=20.88 Aligned_cols=36 Identities=25% Similarity=0.327 Sum_probs=25.1
Q ss_pred HHHHHHHhcCCCCchhHHHHHHHHHHhcCCCHHHHHH
Q 025969 123 VTVYDRLMEGYPSEEDREAIFQAYITALKEDPEQYRI 159 (245)
Q Consensus 123 VTvFd~fmqGY~peed~~~IF~Alc~Alg~DP~qyR~ 159 (245)
-.+.=+||.+=. ..+|+.+..++-.-|+++|++.++
T Consensus 9 KNvl~~fl~~~~-~~~~~~llpvi~tlL~fs~~e~~~ 44 (46)
T PF01465_consen 9 KNVLLQFLESRE-PSEREQLLPVIATLLKFSPEEKQK 44 (46)
T ss_dssp HHHHHHHHTTSS----HHHHHHHHHHHTT--HHHHHH
T ss_pred HHHHHHHhcCCc-hhhHHHHHHHHHHHHCCCHHHHHh
Confidence 345667787755 356889999999999999999875
No 30
>smart00219 TyrKc Tyrosine kinase, catalytic domain. Phosphotransferases. Tyrosine-specific kinase subfamily.
Probab=32.22 E-value=60 Score=26.50 Aligned_cols=22 Identities=14% Similarity=0.375 Sum_probs=15.3
Q ss_pred cccchhhHHHHHHHHhcCCCCch
Q 025969 115 DPVFALGFVTVYDRLMEGYPSEE 137 (245)
Q Consensus 115 DplFALG~VTvFd~fmqGY~pee 137 (245)
..+|+||.+ .|+.+..|++|-+
T Consensus 185 ~Di~slG~i-~~~l~~~g~~p~~ 206 (258)
T smart00219 185 SDVWSFGVL-LWEIFTLGESPYP 206 (258)
T ss_pred hhHHHHHHH-HHHHHhCCCCCCC
Confidence 458999976 4555666887743
No 31
>PF12069 DUF3549: Protein of unknown function (DUF3549); InterPro: IPR021936 This family of proteins is functionally uncharacterised. This protein is found in bacteria. Proteins in this family are about 340 amino acids in length. This protein has a conserved LDE sequence motif.
Probab=31.93 E-value=51 Score=32.02 Aligned_cols=34 Identities=24% Similarity=0.369 Sum_probs=29.6
Q ss_pred CCCCchhHHHHHHHHHH-hcCCCHHHHHHHHHHHH
Q 025969 132 GYPSEEDREAIFQAYIT-ALKEDPEQYRIDAQKLE 165 (245)
Q Consensus 132 GY~peed~~~IF~Alc~-Alg~DP~qyR~DA~~l~ 165 (245)
-|.|.++|-+.|+|+++ .++..|.+|.+.|+.-.
T Consensus 121 ~FkP~~~klA~fhA~v~~~L~~p~S~yye~a~~Yl 155 (340)
T PF12069_consen 121 TFKPSQEKLAMFHAQVRAQLGQPASQYYEHAQAYL 155 (340)
T ss_pred ccCCChHHHHHHHHHHHHHcCCCcchhHHHHHHHH
Confidence 37899999999999996 58999999999997643
No 32
>cd05058 PTKc_Met_Ron Catalytic domain of the Protein Tyrosine Kinases, Met and Ron. Protein Tyrosine Kinase (PTK) family; Met and Ron; catalytic (c) domain. The PTKc family is part of a larger superfamily that includes the catalytic domains of other kinases such as protein serine/threonine kinases, RIO kinases, and phosphoinositide 3-kinase (PI3K). PTKs catalyze the transfer of the gamma-phosphoryl group from ATP to tyrosine (tyr) residues in protein substrates. Met and Ron are receptor tyr kinases (RTKs) composed of an alpha-beta heterodimer. The extracellular alpha chain is disulfide linked to the beta chain, which contains an extracellular ligand-binding region with a sema domain, a PSI domain and four IPT repeats, a transmembrane segment, and an intracellular catalytic domain. Binding to their ligands leads to receptor dimerization, autophosphorylation, activation, and intracellular signaling. Met binds to the ligand, hepatocyte growth factor/scatter factor (HGF/SF), and is also ca
Probab=31.84 E-value=63 Score=26.83 Aligned_cols=21 Identities=19% Similarity=0.540 Sum_probs=15.5
Q ss_pred cccchhhHHHHHHHHhcCCCCc
Q 025969 115 DPVFALGFVTVYDRLMEGYPSE 136 (245)
Q Consensus 115 DplFALG~VTvFd~fmqGY~pe 136 (245)
..||++|+ +.|+-++.|.+|-
T Consensus 183 ~Di~slG~-~l~el~~~~~~~~ 203 (262)
T cd05058 183 SDVWSFGV-LLWELMTRGAPPY 203 (262)
T ss_pred HHHHHHHH-HHHHHHcCCCCCC
Confidence 56999997 5677777777764
No 33
>PF05402 PqqD: Coenzyme PQQ synthesis protein D (PqqD); InterPro: IPR008792 This family contains several bacterial coenzyme PQQ synthesis protein D (PqqD) sequences. This protein is required for coenzyme pyrrolo-quinoline-quinone (PQQ) biosynthesis.; PDB: 3G2B_A.
Probab=30.49 E-value=1.2e+02 Score=21.10 Aligned_cols=42 Identities=26% Similarity=0.396 Sum_probs=29.3
Q ss_pred HHHHHHhcCCCCchhHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHh
Q 025969 124 TVYDRLMEGYPSEEDREAIFQAYITALKEDPEQYRIDAQKLEEWAR 169 (245)
Q Consensus 124 TvFd~fmqGY~peed~~~IF~Alc~Alg~DP~qyR~DA~~l~~~A~ 169 (245)
.+++.+ +| ....+.|-+++++..+.+|++.++|...+.+..+
T Consensus 21 ~Iw~~~-~g---~~t~~ei~~~l~~~y~~~~~~~~~dv~~fl~~L~ 62 (68)
T PF05402_consen 21 FIWELL-DG---PRTVEEIVDALAEEYDVDPEEAEEDVEEFLEQLR 62 (68)
T ss_dssp HHHHH---S---SS-HHHHHHHHHHHTT--HHHHHHHHHHHHHHHH
T ss_pred HHHHHc-cC---CCCHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHH
Confidence 355555 44 2557889999999999999999999988877444
No 34
>COG3636 Predicted transcriptional regulator [Transcription]
Probab=30.27 E-value=2.7e+02 Score=22.94 Aligned_cols=30 Identities=17% Similarity=0.219 Sum_probs=21.5
Q ss_pred HHHHHHHhhcCCCChHHHHHHHHhcCCCcc
Q 025969 211 VGLFRLLELANATEPTVLEKVISIRSLNWM 240 (245)
Q Consensus 211 IGLf~LLE~a~~~dp~~L~kl~~~l~l~~~ 240 (245)
=|||+-|...|+-.-..+-+++++|||-..
T Consensus 64 e~LYkaLS~~GNPtf~Til~V~kAlG~rl~ 93 (100)
T COG3636 64 EGLYKALSPGGNPTFDTILAVLKALGLRLS 93 (100)
T ss_pred HHHHHHhCCCCCCcHHHHHHHHHHcCceee
Confidence 489999954444344678889999998654
No 35
>cd05056 PTKc_FAK Catalytic domain of the Protein Tyrosine Kinase, Focal Adhesion Kinase. Protein Tyrosine Kinase (PTK) family; Focal Adhesion Kinase (FAK); catalytic (c) domain. The PTKc family is part of a larger superfamily that includes the catalytic domains of other kinases such as protein serine/threonine kinases, RIO kinases, and phosphoinositide 3-kinase (PI3K). PTKs catalyze the transfer of the gamma-phosphoryl group from ATP to tyrosine (tyr) residues in protein substrates. FAK is a cytoplasmic (or nonreceptor) tyr kinase that contains an autophosphorylation site and a FERM domain at the N-terminus, a central tyr kinase domain, proline-rich regions, and a C-terminal FAT (focal adhesion targeting) domain. FAK activity is dependent on integrin-mediated cell adhesion, which facilitates N-terminal autophosphorylation. Full activation is achieved by the phosphorylation of its two adjacent A-loop tyrosines. FAK is important in mediating signaling initiated at sites of cell adhesions
Probab=30.09 E-value=67 Score=26.95 Aligned_cols=20 Identities=25% Similarity=0.527 Sum_probs=15.6
Q ss_pred cccchhhHHHHHHHHhcCCCC
Q 025969 115 DPVFALGFVTVYDRLMEGYPS 135 (245)
Q Consensus 115 DplFALG~VTvFd~fmqGY~p 135 (245)
..+|+||++ .|+.++.|++|
T Consensus 189 ~Di~slG~i-l~el~~~g~~p 208 (270)
T cd05056 189 SDVWMFGVC-MWEILMLGVKP 208 (270)
T ss_pred hhhHHHHHH-HHHHHHcCCCC
Confidence 579999954 56778888877
No 36
>PF13170 DUF4003: Protein of unknown function (DUF4003)
Probab=29.49 E-value=2.2e+02 Score=26.61 Aligned_cols=109 Identities=18% Similarity=0.255 Sum_probs=65.5
Q ss_pred HHHHHHHhcCCCC-chhHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHhc--CCccccccccCC-----cc--hhH-----
Q 025969 123 VTVYDRLMEGYPS-EEDREAIFQAYITALKEDPEQYRIDAQKLEEWARG--QTASSLVEFPSK-----EG--EVE----- 187 (245)
Q Consensus 123 VTvFd~fmqGY~p-eed~~~IF~Alc~Alg~DP~qyR~DA~~l~~~A~~--~s~~~l~~~~~~-----~g--~~~----- 187 (245)
.++|+.+.+-+|= ....|-.|.+|+.....|++++-+..+.+-.+-+. .....=.+|++. +| +.+
T Consensus 123 ~~iy~~mKk~H~fLTs~~D~~~a~lLA~~~~~~e~l~~~~E~~Y~~L~~~~f~kgn~LQ~LS~iLaL~~~~~~~~v~r~~ 202 (297)
T PF13170_consen 123 KEIYKEMKKKHPFLTSPEDYPFAALLAMTSEDVEELAERMEQCYQKLADAGFKKGNDLQFLSHILALSEGDDQEKVARVI 202 (297)
T ss_pred HHHHHHHHHhCccccCccchhHHHHHhcccccHHHHHHHHHHHHHHHHHhCCCCCcHHHHHHHHHHhccccchHHHHHHH
Confidence 3457777776652 34567788999999999999999988888776554 333333334431 22 211
Q ss_pred HHHHHHHHHhcCCCCCcchhhHHHHHHHHHhhcCCCChHHHHHHHHh
Q 025969 188 GLLKDIAERASGKGNFSYSRFFAVGLFRLLELANATEPTVLEKVISI 234 (245)
Q Consensus 188 ~~l~~Ia~~~~~n~~F~YSRlfAIGLf~LLE~a~~~dp~~L~kl~~~ 234 (245)
.+...+.+ .+-+.+|.=+-.|||..|++....+.-+.+.++.+.
T Consensus 203 ~l~~~l~~---~~~kik~~~yp~lGlLall~~~~~~~~~~i~ev~~~ 246 (297)
T PF13170_consen 203 ELYNALKK---NGVKIKYMHYPTLGLLALLEDPEEKIVEEIKEVIDE 246 (297)
T ss_pred HHHHHHHH---cCCccccccccHHHHHHhcCCchHHHHHHHHHHHHH
Confidence 22344433 234556666889999999954432333344444333
No 37
>KOG1258 consensus mRNA processing protein [RNA processing and modification]
Probab=28.83 E-value=1.6e+02 Score=30.79 Aligned_cols=124 Identities=20% Similarity=0.213 Sum_probs=71.3
Q ss_pred CchhHhHHHHHhhCCCcCCcchhHHHHHHHHHHhhhcccccccccccchhhHHHHHHHHhcCCCCchhHHHHHHHHHHhc
Q 025969 71 PTVAETKMNFLKLYKRPIPSIYNTVLQELIVQQHLMRYKRTYQYDPVFALGFVTVYDRLMEGYPSEEDREAIFQAYITAL 150 (245)
Q Consensus 71 ~TVSDTKr~F~~~y~rPIpsIYRrvv~ELLVElHLLs~n~~F~YDplFALG~VTvFd~fmqGY~peed~~~IF~Alc~Al 150 (245)
-.....=..|...||.. -..|++..+ ++|.=-=+=-.+-||++=.+|.|=--++=-=+-+.|+.+
T Consensus 62 ~~~r~~y~~fL~kyPl~-~gyW~kfA~--------------~E~klg~~~~s~~Vfergv~aip~SvdlW~~Y~~f~~n~ 126 (577)
T KOG1258|consen 62 DALREVYDIFLSKYPLC-YGYWKKFAD--------------YEYKLGNAENSVKVFERGVQAIPLSVDLWLSYLAFLKNN 126 (577)
T ss_pred HHHHHHHHHHHhhCccH-HHHHHHHHH--------------HHHHhhhHHHHHHHHHHHHHhhhhHHHHHHHHHHHHhcc
Confidence 33444445566666653 235555544 233221222347788888899986666666678888999
Q ss_pred CCCHHHHHHHHHHHHHHHhcCCcc-----ccccccCCcchhHHHHHHHHHHhcCCCCCcchhhHH
Q 025969 151 KEDPEQYRIDAQKLEEWARGQTAS-----SLVEFPSKEGEVEGLLKDIAERASGKGNFSYSRFFA 210 (245)
Q Consensus 151 g~DP~qyR~DA~~l~~~A~~~s~~-----~l~~~~~~~g~~~~~l~~Ia~~~~~n~~F~YSRlfA 210 (245)
++||+++|..-+.-++.+...=.. -.++|-...+. ..-+..|-+++..+|..+|+|+|.
T Consensus 127 ~~d~~~lr~~fe~A~~~vG~dF~S~~lWdkyie~en~qks-~k~v~~iyeRileiP~~~~~~~f~ 190 (577)
T KOG1258|consen 127 NGDPETLRDLFERAKSYVGLDFLSDPLWDKYIEFENGQKS-WKRVANIYERILEIPLHQLNRHFD 190 (577)
T ss_pred CCCHHHHHHHHHHHHHhcccchhccHHHHHHHHHHhcccc-HHHHHHHHHHHHhhhhhHhHHHHH
Confidence 999999988766665544311000 01111111111 222333445666699999999986
No 38
>TIGR01084 mutY A/G-specific adenine glycosylase. This equivalog model identifies mutY members of the pfam00730 superfamily (HhH-GPD: Helix-hairpin-helix and Gly/Pro rich loop followed by a conserved aspartate). The major members of the superfamily are nth and mutY.
Probab=27.99 E-value=4.9e+02 Score=24.13 Aligned_cols=108 Identities=17% Similarity=0.226 Sum_probs=57.4
Q ss_pred HhHHHHHhhCCC------cCCcchhHHHHHHHHHHhhhcccccccccccchhhHHHHHHHHhcCCCCchhHHHH----HH
Q 025969 75 ETKMNFLKLYKR------PIPSIYNTVLQELIVQQHLMRYKRTYQYDPVFALGFVTVYDRLMEGYPSEEDREAI----FQ 144 (245)
Q Consensus 75 DTKr~F~~~y~r------PIpsIYRrvv~ELLVElHLLs~n~~F~YDplFALG~VTvFd~fmqGY~peed~~~I----F~ 144 (245)
+.-.+.|..+.| +-..-|.-.|-|+|.||= ++ --+..+|++|++.||..++.... ..
T Consensus 4 ~~l~~w~~~~~r~~lpWr~~~dpy~vlvseIL~QQT--~v-----------~~v~~~~~rl~~~fpt~~~La~a~~eeL~ 70 (275)
T TIGR01084 4 EDLLSWYDKYGRKTLPWRQNKTPYRVWLSEVMLQQT--QV-----------ATVIPYFERFLERFPTVQALANAPQDEVL 70 (275)
T ss_pred HHHHHHHHHhCCCCCCCCCCCCHHHHHHHHHHHhhc--cH-----------HHHHHHHHHHHHhCCCHHHHHCcCHHHHH
Confidence 444567777765 234568999999998883 11 12457899999999866543221 22
Q ss_pred HHHHhcCCC--HHHHHHHHHHHHHHHhcCCccccccccCCcchhHHHHHHHHH
Q 025969 145 AYITALKED--PEQYRIDAQKLEEWARGQTASSLVEFPSKEGEVEGLLKDIAE 195 (245)
Q Consensus 145 Alc~Alg~D--P~qyR~DA~~l~~~A~~~s~~~l~~~~~~~g~~~~~l~~Ia~ 195 (245)
.+++.+|+- ...+++-|+.+.+--.|.-.+++.+.++-.|=...+...|..
T Consensus 71 ~~~~~lG~y~RAr~L~~~A~~i~~~~~g~~p~~~~~L~~LpGIG~~TA~~Il~ 123 (275)
T TIGR01084 71 KLWEGLGYYARARNLHKAAQEVVEEFGGEFPQDFEDLAALPGVGRYTAGAILS 123 (275)
T ss_pred HHHHHCCcHHHHHHHHHHHHHHHHHcCCCCcHHHHHHHhCCCCCHHHHHHHHH
Confidence 334667872 333444444444422233333333333334422334444443
No 39
>COG4867 Uncharacterized protein with a von Willebrand factor type A (vWA) domain [General function prediction only]
Probab=26.96 E-value=1.1e+02 Score=31.60 Aligned_cols=45 Identities=42% Similarity=0.611 Sum_probs=31.0
Q ss_pred HHHHHHHHhcCCc-cccccccCCcch--------hHHHHHHHHHHhcCCCCCcchhhHH
Q 025969 161 AQKLEEWARGQTA-SSLVEFPSKEGE--------VEGLLKDIAERASGKGNFSYSRFFA 210 (245)
Q Consensus 161 A~~l~~~A~~~s~-~~l~~~~~~~g~--------~~~~l~~Ia~~~~~n~~F~YSRlfA 210 (245)
-.-|.+.++|... .|+.+|+.++|+ ++.++..++.+++ .|||+++
T Consensus 191 ndll~kh~~g~dt~~df~~fm~khge~fpe~pr~~~el~d~laAR~a-----aaSrf~n 244 (652)
T COG4867 191 NDLLDKHARGEDTQRDFDEFMTKHGEFFPENPRNVEELLDSLAARAA-----AASRFRN 244 (652)
T ss_pred HHHHHHhccCCCCcccHHHHHHhccccCCCCcccHHHHHHHHHHHHH-----HHHHHhh
Confidence 3344556666544 478888876554 6788888887776 4999886
No 40
>PF08542 Rep_fac_C: Replication factor C C-terminal domain; InterPro: IPR013748 Replication factor C (RFC) is a multimeric AAA+ protein complex that loads the DNA polymerase processivity clamp PCNA (Proliferating Cell Nuclear Antigen) onto DNA using ATP to drive the reaction []. PCNA functions at multiple levels in directing DNA metabolic pathways []. When bound to DNA, PCNA organises various proteins involved in DNA replication, DNA repair, DNA modification, and chromatin modelling. Replication factor C consists of five subunits in a spiral arrangement: Rfc1, Rfc2, Rfc3, Rfc4, and Rfc5 subunits. Rfc1 and Rfc2 load the PCNA sliding clamp onto DNA, while Rfc3 binds ATP and also acts as a checkpoint sensor. The RFC complex contains four ATP sites (sites A, B, C, and D) located at subunit interfaces. In each ATP site, an arginine residue from one subunit is located near the gamma-phosphate of ATP bound in the adjacent subunit. These arginine residues act as "arginine fingers" that can potentially perform two functions: sensing that ATP is bound and catalyzing ATP hydrolysis []. This entry represents the core domain found in Rfc1-5.; GO: 0003689 DNA clamp loader activity, 0005524 ATP binding, 0006260 DNA replication, 0005663 DNA replication factor C complex; PDB: 1SXJ_B 2CHG_B 2CHV_F 2CHQ_C 1IQP_A.
Probab=26.90 E-value=1.5e+02 Score=21.62 Aligned_cols=45 Identities=18% Similarity=0.248 Sum_probs=32.0
Q ss_pred hHHHHHHHHhcCCCCchhHHHHHHHHHHhcCCCHHHHHHHHHHHHH
Q 025969 121 GFVTVYDRLMEGYPSEEDREAIFQAYITALKEDPEQYRIDAQKLEE 166 (245)
Q Consensus 121 G~VTvFd~fmqGY~peed~~~IF~Alc~Alg~DP~qyR~DA~~l~~ 166 (245)
.-..+.+-+.+||++.+=-..|++.+... +.++.+-.+-.+.+.+
T Consensus 23 ~~~~~~~l~~~G~s~~~Il~~l~~~l~~~-~~~~~~k~~i~~~la~ 67 (89)
T PF08542_consen 23 ARKKLYELLVEGYSASDILKQLHEVLVES-DIPDSQKAEILKILAE 67 (89)
T ss_dssp HHHHHHHHHHTT--HHHHHHHHHHHHHTS-TSSHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHcCCCHHHHHHHHHHHHHHh-hccHHHHHHHHHHHHH
Confidence 45567788889999999999999999999 7676555555544433
No 41
>KOG0213 consensus Splicing factor 3b, subunit 1 [RNA processing and modification]
Probab=26.67 E-value=4.6e+02 Score=29.18 Aligned_cols=109 Identities=21% Similarity=0.262 Sum_probs=66.8
Q ss_pred hhhcccccccccccchhhHHHHHHHHhcCCCCchhHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHhcCCccccccccCCc
Q 025969 104 HLMRYKRTYQYDPVFALGFVTVYDRLMEGYPSEEDREAIFQAYITALKEDPEQYRIDAQKLEEWARGQTASSLVEFPSKE 183 (245)
Q Consensus 104 HLLs~n~~F~YDplFALG~VTvFd~fmqGY~peed~~~IF~Alc~Alg~DP~qyR~DA~~l~~~A~~~s~~~l~~~~~~~ 183 (245)
-|.-.|.+=.-|.+--+||-+|-..|-.--+| +..-|-.-+..-|+-.+...|+.|..|..
T Consensus 764 il~Afqeqtt~d~vml~gfg~V~~~lg~r~kp--ylpqi~stiL~rLnnksa~vRqqaadlis----------------- 824 (1172)
T KOG0213|consen 764 ILYAFQEQTTEDSVMLLGFGTVVNALGGRVKP--YLPQICSTILWRLNNKSAKVRQQAADLIS----------------- 824 (1172)
T ss_pred HHHHHHhcccchhhhhhhHHHHHHHHhhcccc--chHHHHHHHHHHhcCCChhHHHHHHHHHH-----------------
Confidence 34455666667777777877776666543332 34457777788888899999998888765
Q ss_pred chhHHHHHHHHHHhcCCCCCcchhhHHHHHHHHHhhcCCCChHH-------HHHHHHhcCCCcccc
Q 025969 184 GEVEGLLKDIAERASGKGNFSYSRFFAVGLFRLLELANATEPTV-------LEKVISIRSLNWMTR 242 (245)
Q Consensus 184 g~~~~~l~~Ia~~~~~n~~F~YSRlfAIGLf~LLE~a~~~dp~~-------L~kl~~~l~l~~~~~ 242 (245)
.++.+ .+..+.++-=...+|=||.-| |.++||. +..++...|+.+|.+
T Consensus 825 -----~la~V---lktc~ee~~m~~lGvvLyEyl---geeypEvLgsILgAikaI~nvigm~km~p 879 (1172)
T KOG0213|consen 825 -----SLAKV---LKTCGEEKLMGHLGVVLYEYL---GEEYPEVLGSILGAIKAIVNVIGMTKMTP 879 (1172)
T ss_pred -----HHHHH---HHhccHHHHHHHhhHHHHHhc---CcccHHHHHHHHHHHHHHHHhccccccCC
Confidence 12111 112344444555666666555 5556654 445555567777765
No 42
>PRK09430 djlA Dna-J like membrane chaperone protein; Provisional
Probab=26.57 E-value=5.1e+02 Score=23.81 Aligned_cols=109 Identities=17% Similarity=0.149 Sum_probs=64.3
Q ss_pred ccchhhHHHHHHHHh--cCCCCchhHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHhcCCccccccccCCcchhHHHHHHH
Q 025969 116 PVFALGFVTVYDRLM--EGYPSEEDREAIFQAYITALKEDPEQYRIDAQKLEEWARGQTASSLVEFPSKEGEVEGLLKDI 193 (245)
Q Consensus 116 plFALG~VTvFd~fm--qGY~peed~~~IF~Alc~Alg~DP~qyR~DA~~l~~~A~~~s~~~l~~~~~~~g~~~~~l~~I 193 (245)
..|...++.+.-.++ .|=-.+++.+ ++..+++.++.++++ |+.|.++-+.++... . +++..+..|
T Consensus 52 ~~ff~a~~aLl~~vAkADG~Vse~Ei~-~~~~l~~~~~l~~~~-r~~a~~lf~~~k~~~-~----------~l~~~~~~~ 118 (267)
T PRK09430 52 ALFFNTTFAVMGHLAKAKGRVTEADIR-IASQLMDRMNLHGEA-RRAAQQAFREGKEPD-F----------PLREKLRQF 118 (267)
T ss_pred HHHHHHHHHHHHHHHhcCCCcCHHHHH-HHHHHHHHcCCCHHH-HHHHHHHHHHhcccC-C----------CHHHHHHHH
Confidence 345555555555555 4666667777 889999999999887 667788877665432 1 244566666
Q ss_pred HHHhcCCCCCcchhhHHHHHHHHHhhcCCC---ChHHHHHHHHhcCCCc
Q 025969 194 AERASGKGNFSYSRFFAVGLFRLLELANAT---EPTVLEKVISIRSLNW 239 (245)
Q Consensus 194 a~~~~~n~~F~YSRlfAIGLf~LLE~a~~~---dp~~L~kl~~~l~l~~ 239 (245)
..... ++..-=+.+=-.|+.+--..|.- |.+.|.++|..||++.
T Consensus 119 ~~~~~--~r~~l~~~lL~~l~~vA~ADG~l~~~E~~~L~~Ia~~Lgis~ 165 (267)
T PRK09430 119 RSVCG--GRFDLLRMFLEIQIQAAFADGSLHPNERQVLYVIAEELGFSR 165 (267)
T ss_pred HHHhc--ccHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHcCCCH
Confidence 54331 11111111112233333222332 3579999999999985
No 43
>PHA00666 putative protease
Probab=26.36 E-value=5.4e+02 Score=24.07 Aligned_cols=32 Identities=19% Similarity=0.159 Sum_probs=28.9
Q ss_pred cCCCCchhHHHHHHHHHHhcCCCHHHHHHHHH
Q 025969 131 EGYPSEEDREAIFQAYITALKEDPEQYRIDAQ 162 (245)
Q Consensus 131 qGY~peed~~~IF~Alc~Alg~DP~qyR~DA~ 162 (245)
+|+..+.....-|..+|..+|++++|-++-..
T Consensus 93 EG~elD~~~l~~F~~~a~ElgLtqEQAQklvD 124 (233)
T PHA00666 93 EGVELDTGALGAFEPVARELNLTNEQAQKVVD 124 (233)
T ss_pred CCCCCCHHHHHHHHHHHHHhCCCHHHHHHHHH
Confidence 99999999999999999999999999776544
No 44
>PF09494 Slx4: Slx4 endonuclease; InterPro: IPR018574 The Slx4 protein is a heteromeric structure-specific endonuclease found in fungi. Slx4 with Slx1 acts as a nuclease on branched DNA substrates, particularly simple-Y, 5'-flap, or replication fork structures by cleaving the strand bearing the 5' non-homologous arm at the branch junction and thus generating ligatable nicked products from 5'-flap or replication fork substrates [].
Probab=26.28 E-value=38 Score=24.59 Aligned_cols=28 Identities=29% Similarity=0.742 Sum_probs=20.1
Q ss_pred HHHHHHHhcCCCHHHHHH-------HHHHHHHHHh
Q 025969 142 IFQAYITALKEDPEQYRI-------DAQKLEEWAR 169 (245)
Q Consensus 142 IF~Alc~Alg~DP~qyR~-------DA~~l~~~A~ 169 (245)
||+|+-+++.-||+-|.+ +-+.|.+|.+
T Consensus 1 l~~~lt~~I~~~p~l~ekIL~YePI~L~el~~~L~ 35 (64)
T PF09494_consen 1 LFEALTKLIRSDPELYEKILMYEPINLEELHAWLK 35 (64)
T ss_pred CHHHHHHHHHcCHHHHHHHHcCCCccHHHHHHHHH
Confidence 577888888888887766 3466666666
No 45
>PF07216 LcrG: LcrG protein; InterPro: IPR009863 This family consists of several bacterial LcrG proteins. Yersiniae are equipped with the Yop virulon, an apparatus that allows extracellular bacteria to deliver toxic Yop proteins inside the host cell cytosol in order to sabotage the communication networks of the host cell or even to cause cell death. LcrG is a component of the Yop virulon involved in the regulation of secretion of the Yops []. This protein is found in type III secretion operons, along with LcrR, H and V. Also known as PcrG in Pseudomonas, the prot ein is believed to make a 1:1 complex with PcrV (LcrV) []. Mutations in LcrG cause premature secretion of effector proteins into the medium [].
Probab=25.68 E-value=53 Score=26.69 Aligned_cols=31 Identities=13% Similarity=0.200 Sum_probs=24.5
Q ss_pred HHHhcCCCCchhHHHHHHHHHHhcCCCHHHH
Q 025969 127 DRLMEGYPSEEDREAIFQAYITALKEDPEQY 157 (245)
Q Consensus 127 d~fmqGY~peed~~~IF~Alc~Alg~DP~qy 157 (245)
++--.+-+..+||..||+=||+.||.+|+.-
T Consensus 12 ~~AE~AI~dsd~R~~llqEm~~gLg~~p~ag 42 (93)
T PF07216_consen 12 EQAELAIRDSDHRNDLLQEMLEGLGLGPVAG 42 (93)
T ss_pred HHHHHHHHhhHHHHHHHHHHHHhcCCChhHH
Confidence 3333445677999999999999999999754
No 46
>PF06971 Put_DNA-bind_N: Putative DNA-binding protein N-terminus; InterPro: IPR009718 This entry represents the C terminus (approximately 30 residues) of a number of Rex proteins. These are redox-sensing repressors that appear to be widespread among Gram-positive bacteria []. They modulate transcription in response to changes in cellular NADH/NAD(+) redox state. Rex is predicted to include a pyridine nucleotide-binding domain (Rossmann fold), and residues that might play key structural and nucleotide binding roles are highly conserved.; GO: 0045892 negative regulation of transcription, DNA-dependent, 0051775 response to redox state, 0005737 cytoplasm; PDB: 3IL2_B 3IKT_A 3IKV_B 1XCB_F 2DT5_A 2VT3_A 2VT2_A 3KEO_B 3KET_A 3KEQ_A ....
Probab=25.23 E-value=66 Score=22.92 Aligned_cols=16 Identities=38% Similarity=0.380 Sum_probs=12.9
Q ss_pred HHHHhcCCCHHHHHHH
Q 025969 145 AYITALKEDPEQYRID 160 (245)
Q Consensus 145 Alc~Alg~DP~qyR~D 160 (245)
.|=+.+|.+|.|+|+|
T Consensus 33 ~La~~~gi~~~qVRKD 48 (50)
T PF06971_consen 33 ELAEALGITPAQVRKD 48 (50)
T ss_dssp HHHHHHTS-HHHHHHH
T ss_pred HHHHHHCCCHHHhccc
Confidence 4667899999999998
No 47
>PF07268 EppA_BapA: Exported protein precursor (EppA/BapA); InterPro: IPR009894 This family consists of a number of exported protein precursor (EppA and BapA) sequences which seem to be specific to Borrelia burgdorferi (Lyme disease spirochete). bapA gene sequences are quite stable but the encoded proteins do not provoke a strong immune response in most individuals. Conversely, EppA proteins are much more antigenic but are more variable in sequence. It is thought that BapA and EppA play important roles during the B. burgdorferi infectious cycle [].
Probab=24.43 E-value=1.3e+02 Score=26.13 Aligned_cols=34 Identities=35% Similarity=0.689 Sum_probs=25.2
Q ss_pred HHHHHHhcCCCCchhHHHHHHHHHHhcCCC----HHHHHHHHHH
Q 025969 124 TVYDRLMEGYPSEEDREAIFQAYITALKED----PEQYRIDAQK 163 (245)
Q Consensus 124 TvFd~fmqGY~peed~~~IF~Alc~Alg~D----P~qyR~DA~~ 163 (245)
-.--.|++|||. +||+-|++ |+-| +|+|-+.|..
T Consensus 87 ~~I~~LI~gyp~-----~IFdyliq-LdsdkIDYaEKYGekA~~ 124 (139)
T PF07268_consen 87 EAINYLIDGYPD-----SIFDYLIQ-LDSDKIDYAEKYGEKARN 124 (139)
T ss_pred HHHHHHHcCCcH-----HHHHHHHH-hccccccHHHHHHHHHHH
Confidence 455689999973 49999988 7777 6677666644
No 48
>cd05043 PTK_Ryk Pseudokinase domain of Ryk (Receptor related to tyrosine kinase). Protein Tyrosine Kinase (PTK) family; Receptor related to tyrosine kinase (Ryk); pseudokinase domain. The PTKc (catalytic domain) family to which this subfamily belongs, is part of a larger superfamily that includes the catalytic domains of other kinases such as protein serine/threonine kinases, RIO kinases, and phosphoinositide 3-kinase (PI3K). PTKs catalyze the transfer of the gamma-phosphoryl group from ATP to tyrosine (tyr) residues in protein substrates. Ryk is a receptor tyr kinase (RTK) containing an extracellular region with two leucine-rich motifs, a transmembrane segment, and an intracellular inactive pseudokinase domain. The extracellular region of Ryk shows homology to the N-terminal domain of Wnt inhibitory factor-1 (WIF) and serves as the ligand (Wnt) binding domain of Ryk. Ryk is expressed in many different tissues both during development and in adults, suggesting a widespread function. It
Probab=23.13 E-value=1.3e+02 Score=25.36 Aligned_cols=20 Identities=15% Similarity=0.494 Sum_probs=13.4
Q ss_pred cccchhhHHHHHHHHhcCCCC
Q 025969 115 DPVFALGFVTVYDRLMEGYPS 135 (245)
Q Consensus 115 DplFALG~VTvFd~fmqGY~p 135 (245)
..||++|++ .|+-+..|-+|
T Consensus 200 ~Di~slG~~-l~el~~~g~~p 219 (280)
T cd05043 200 SDVWSFGVL-LWELMTLGQTP 219 (280)
T ss_pred hhHHHhHHH-HHHHhcCCCCC
Confidence 459999954 56666556665
No 49
>PF13443 HTH_26: Cro/C1-type HTH DNA-binding domain; PDB: 3TYR_A 3TYS_A 3B7H_A.
Probab=21.79 E-value=1.2e+02 Score=20.77 Aligned_cols=33 Identities=18% Similarity=0.346 Sum_probs=18.4
Q ss_pred HHHHHHhcCCCCchhHHHHHHHHHHhcCCCHHHH
Q 025969 124 TVYDRLMEGYPSEEDREAIFQAYITALKEDPEQY 157 (245)
Q Consensus 124 TvFd~fmqGY~peed~~~IF~Alc~Alg~DP~qy 157 (245)
+.+.++..|- +..-.....+++|.++|.+|+++
T Consensus 25 ~tl~~~~~~~-~~~~~~~~l~~ia~~l~~~~~el 57 (63)
T PF13443_consen 25 STLSRILNGK-PSNPSLDTLEKIAKALNCSPEEL 57 (63)
T ss_dssp HHHHHHHTTT------HHHHHHHHHHHT--HHHC
T ss_pred HHHHHHHhcc-cccccHHHHHHHHHHcCCCHHHH
Confidence 3445555555 22335567889999999999875
No 50
>TIGR00244 transcriptional regulator NrdR. Members of this almost entirely bacterial family contain an ATP cone domain (PFAM:PF03477). There is never more than one member per genome. Common gene symbols given include nrdR, ybaD, ribX and ytcG. The member from Streptomyces coelicolor is found upstream in the operon of the class II oxygen-independent ribonucleotide reductase gene nrdJ and was shown to repress nrdJ expression. Many members of this family are found near genes for riboflavin biosynthesis in Gram-negative bacteria, suggesting a role in that pathway. However, a phylogenetic profiling study associates members of this family with the presence of a palindromic signal with consensus acaCwAtATaTwGtgt, termed the NrdR-box, an upstream element for most operons for ribonucleotide reductase of all three classes in bacterial genomes.
Probab=21.53 E-value=4.4e+02 Score=22.91 Aligned_cols=73 Identities=16% Similarity=0.267 Sum_probs=50.9
Q ss_pred cCCCCchhHHHHHHHHHHhcC---CCHHHHHHHHHHHHHHHhcCCccccccccCCcchhHHHHHHHHHHhcCCCCCcchh
Q 025969 131 EGYPSEEDREAIFQAYITALK---EDPEQYRIDAQKLEEWARGQTASSLVEFPSKEGEVEGLLKDIAERASGKGNFSYSR 207 (245)
Q Consensus 131 qGY~peed~~~IF~Alc~Alg---~DP~qyR~DA~~l~~~A~~~s~~~l~~~~~~~g~~~~~l~~Ia~~~~~n~~F~YSR 207 (245)
.|-+.+=|+++|.+.|..|+. .+++++.+-+..++.........++-+ ..=| +..+..|.+ =+.=.|=|
T Consensus 55 dG~re~Fdr~Kl~~gl~~Ac~KRpVs~e~ie~~v~~Ie~~l~~~~~~EI~S--~~IG--e~Vm~~L~~----lD~VAYVR 126 (147)
T TIGR00244 55 DGVREPFNREKLLRGMVRACEKRPVSFDDLEHAINHIEAQLRAQGEREVPS--ELIG--QMVMQYLKK----LDEVAYIR 126 (147)
T ss_pred CCCCCCCCHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHcCCCcccH--HHHH--HHHHHHHhh----cCcchhhh
Confidence 355666789999999999997 688999999999999887766655542 1112 334455543 45557888
Q ss_pred hHHH
Q 025969 208 FFAV 211 (245)
Q Consensus 208 lfAI 211 (245)
|-.|
T Consensus 127 FASV 130 (147)
T TIGR00244 127 FASV 130 (147)
T ss_pred hhhh
Confidence 7654
No 51
>PF00046 Homeobox: Homeobox domain not present here.; InterPro: IPR001356 The homeobox domain was first identified in a number of drosophila homeotic and segmentation proteins, but is now known to be well-conserved in many other animals, including vertebrates [, , ]. Hox genes encode homeodomain-containing transcriptional regulators that operate differential genetic programs along the anterior-posterior axis of animal bodies []. The domain binds DNA through a helix-turn-helix (HTH) structure. The HTH motif is characterised by two alpha-helices, which make intimate contacts with the DNA and are joined by a short turn. The second helix binds to DNA via a number of hydrogen bonds and hydrophobic interactions, which occur between specific side chains and the exposed bases and thymine methyl groups within the major groove of the DNA []. The first helix helps to stabilise the structure. The motif is very similar in sequence and structure in a wide range of DNA-binding proteins (e.g., cro and repressor proteins, homeotic proteins, etc.). One of the principal differences between HTH motifs in these different proteins arises from the stereo-chemical requirement for glycine in the turn which is needed to avoid steric interference of the beta-carbon with the main chain: for cro and repressor proteins the glycine appears to be mandatory, while for many of the homeotic and other DNA-binding proteins the requirement is relaxed.; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0043565 sequence-specific DNA binding, 0006355 regulation of transcription, DNA-dependent; PDB: 2DA3_A 1LFB_A 2LFB_A 2ECB_A 2DA5_A 3D1N_O 3A03_A 2XSD_C 3CMY_A 1AHD_P ....
Probab=20.70 E-value=1.8e+02 Score=19.47 Aligned_cols=30 Identities=27% Similarity=0.455 Sum_probs=17.6
Q ss_pred HHHHHHHhcCCCCchhHHHHHHHHHHhcCCCHHHHH
Q 025969 123 VTVYDRLMEGYPSEEDREAIFQAYITALKEDPEQYR 158 (245)
Q Consensus 123 VTvFd~fmqGY~peed~~~IF~Alc~Alg~DP~qyR 158 (245)
-..|+. ..||+.++++.|= ..+|+++.+++
T Consensus 16 ~~~f~~--~~~p~~~~~~~la----~~l~l~~~~V~ 45 (57)
T PF00046_consen 16 EEYFQE--NPYPSKEEREELA----KELGLTERQVK 45 (57)
T ss_dssp HHHHHH--SSSCHHHHHHHHH----HHHTSSHHHHH
T ss_pred HHHHHH--hcccccccccccc----ccccccccccc
Confidence 345554 6777666665543 44477776664
No 52
>cd07178 terB_like_YebE tellurium resistance terB-like protein, subgroup 3. This family includes several uncharacterized bacterial proteins including an Escherichia coli protein called YebE. Protein sequence homology analysis shows they are similar to tellurium resistance protein terB, but the function of this family is unknown.
Probab=20.51 E-value=20 Score=28.03 Aligned_cols=15 Identities=20% Similarity=0.317 Sum_probs=12.8
Q ss_pred CChHHHHHHHHhcCC
Q 025969 223 TEPTVLEKVISIRSL 237 (245)
Q Consensus 223 ~dp~~L~kl~~~l~l 237 (245)
.|.+-|+++|.+|||
T Consensus 81 aE~~~L~~la~aLgl 95 (95)
T cd07178 81 AERAYLDELAAALGL 95 (95)
T ss_pred HHHHHHHHHHHHhCc
Confidence 356899999999986
No 53
>cd05122 PKc_STE Catalytic domain of STE family Protein Kinases. Protein Kinases (PKs), STE family, catalytic (c) domain. PKs catalyze the transfer of the gamma-phosphoryl group from ATP to serine/threonine or tyrosine residues on protein substrates. The STE family is part of a larger superfamily that includes the catalytic domains of other protein serine/threonine kinases (STKs), protein tyrosine kinases (PTKs), RIO kinases, aminoglycoside phosphotransferase, choline kinase, and phosphoinositide 3-kinase (PI3K). This family is composed of STKs, and some dual-specificity PKs that phosphorylate both threonine and tyrosine residues of target proteins. Most members are kinases involved in mitogen-activated protein kinase (MAPK) signaling cascades, acting as MAPK kinases (MAPKKs), MAPK kinase kinases (MAPKKKs), or MAPK kinase kinase kinases (MAP4Ks). The MAPK signaling pathways are important mediators of cellular responses to extracellular signals. The pathways involve a triple kinase core
Probab=20.31 E-value=1.5e+02 Score=23.81 Aligned_cols=20 Identities=25% Similarity=0.509 Sum_probs=13.4
Q ss_pred cccchhhHHHHHHHHhcCCCCc
Q 025969 115 DPVFALGFVTVYDRLMEGYPSE 136 (245)
Q Consensus 115 DplFALG~VTvFd~fmqGY~pe 136 (245)
..+|++|++ .|+-+ -|.+|-
T Consensus 178 ~Dv~slG~i-l~~l~-~g~~p~ 197 (253)
T cd05122 178 ADIWSLGIT-AIELA-EGKPPY 197 (253)
T ss_pred ccHHHHHHH-HHHHH-hCCCCC
Confidence 679999987 45544 465553
No 54
>PF04675 DNA_ligase_A_N: DNA ligase N terminus; InterPro: IPR012308 DNA ligase (polydeoxyribonucleotide synthase) is the enzyme that joins two DNA fragments by catalysing the formation of an internucleotide ester bond between phosphate and deoxyribose. It is active during DNA replication, DNA repair and DNA recombination. There are two forms of DNA ligase, one requires ATP (6.5.1.1 from EC), the other NAD (6.5.1.2 from EC), the latter being restricted to eubacteria. Eukaryotic, archaebacterial, viral and some eubacterial DNA ligases are ATP-dependent. The first step in the ligation reaction is the formation of a covalent enzyme-AMP complex. The co-factor ATP is cleaved to pyrophosphate and AMP, with the AMP being covalently joined to a highly conserved lysine residue in the active site of the ligase. The activated AMP residue is then transferred to the 5'phosphate of the nick, before the nick is sealed by phosphodiester-bond formation and AMP elimination [,]. Vertebrate cells encode three well-characterised DNA ligases (DNA ligases I, III and IV), all of which are related in structure and sequence. With the exception of the atypically small PBCV-1 viral enzyme, two regions of primary sequence are common to all members of the family. The catalytic region comprises six conserved sequence motifs (I, III, IIIa, IV, V-VI), motif I includes the lysine residue that is adenylated in the first step of the ligation reaction. The function of the second, less well-conserved region is unknown. When folded, each protein comprises of two distinct sub-domains: a large amino-terminal sub-domain ('domain 1') and a smaller carboxy-terminal sub-domain ('domain 2'). The ATP-binding site of the enzyme lies in the cleft between the two sub-domains. Domain 1 consists of two antiparallel beta sheets flanked by alpha helices, whereas domain 2 consists of a five-stranded beta barrel and a single alpha helix, which form the oligonucleotide-binding fold [, ]. This region is found in many but not all ATP-dependent DNA ligase enzymes (6.5.1.1 from EC). It is thought to be involved in DNA binding and in catalysis. In human DNA ligase I (P18858 from SWISSPROT), and in Saccharomyces cerevisiae (Baker's yeast) (P04819 from SWISSPROT), this region was necessary for catalysis, and separated from the amino terminus by targeting elements. In Vaccinia virus (P16272 from SWISSPROT) this region was not essential for catalysis, but deletion decreases the affinity for nicked DNA and decreased the rate of strand joining at a step subsequent to enzyme-adenylate formation []. ; GO: 0003677 DNA binding, 0003910 DNA ligase (ATP) activity, 0006281 DNA repair, 0006310 DNA recombination; PDB: 2CFM_A 3RR5_A 2HIX_A 2HIV_A 3L2P_A 1X9N_A 4EQ5_A 3GDE_A.
Probab=20.26 E-value=3e+02 Score=22.70 Aligned_cols=21 Identities=14% Similarity=0.039 Sum_probs=18.1
Q ss_pred HHHHHHHHHhcCCCHHHHHHH
Q 025969 140 EAIFQAYITALKEDPEQYRID 160 (245)
Q Consensus 140 ~~IF~Alc~Alg~DP~qyR~D 160 (245)
..|-++++++.|.+++.+.+.
T Consensus 63 ~~L~k~~~~~~~~~~~~~~~~ 83 (177)
T PF04675_consen 63 KLLAKAIAEALGLPEKSIDES 83 (177)
T ss_dssp HHHHHHHHHHHTS-HHHHHHH
T ss_pred hHHHHHHHHHHcCCHHHHHHH
Confidence 689999999999999999885
Done!