Query 027559
Match_columns 222
No_of_seqs 166 out of 1086
Neff 4.5
Searched_HMMs 46136
Date Fri Mar 29 11:44:34 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/027559.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/027559hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PRK07459 single-stranded DNA-b 99.9 2.5E-21 5.5E-26 155.0 12.2 89 29-117 17-106 (121)
2 PRK06752 single-stranded DNA-b 99.8 1.2E-20 2.6E-25 148.2 12.2 87 30-116 17-107 (112)
3 PRK07275 single-stranded DNA-b 99.8 9.3E-21 2E-25 159.1 11.7 88 29-116 16-107 (162)
4 PRK08486 single-stranded DNA-b 99.8 9E-20 1.9E-24 155.7 11.8 89 29-117 16-110 (182)
5 PRK06751 single-stranded DNA-b 99.8 1.6E-19 3.5E-24 153.2 11.9 90 29-118 16-109 (173)
6 PRK08763 single-stranded DNA-b 99.8 2.2E-19 4.8E-24 151.2 12.7 89 29-117 19-113 (164)
7 PRK07274 single-stranded DNA-b 99.8 3.2E-19 7E-24 144.2 13.0 90 29-119 16-109 (131)
8 PRK06642 single-stranded DNA-b 99.8 4.5E-19 9.7E-24 147.2 12.3 90 29-118 19-120 (152)
9 PRK09010 single-stranded DNA-b 99.8 8.6E-19 1.9E-23 149.3 11.7 89 29-117 20-118 (177)
10 PRK06293 single-stranded DNA-b 99.8 1.2E-18 2.6E-23 146.5 11.7 87 29-115 15-102 (161)
11 PRK08182 single-stranded DNA-b 99.8 2E-18 4.3E-23 142.8 12.6 90 29-118 16-116 (148)
12 PRK06958 single-stranded DNA-b 99.8 1.5E-18 3.3E-23 148.4 12.0 91 29-119 18-115 (182)
13 PRK06863 single-stranded DNA-b 99.8 2.2E-18 4.7E-23 145.7 12.7 90 30-119 19-115 (168)
14 PF00436 SSB: Single-strand bi 99.8 3.5E-18 7.5E-23 128.8 11.5 84 29-112 15-104 (104)
15 PRK13732 single-stranded DNA-b 99.8 3.5E-18 7.6E-23 145.3 12.0 90 29-119 20-119 (175)
16 TIGR00621 ssb single stranded 99.7 1.2E-17 2.7E-22 139.5 11.7 88 29-116 18-111 (164)
17 PRK05853 hypothetical protein; 99.7 3E-17 6.4E-22 138.1 10.9 79 30-109 11-96 (161)
18 PRK05733 single-stranded DNA-b 99.7 3.7E-17 8.1E-22 138.7 11.4 88 29-117 19-116 (172)
19 PRK06341 single-stranded DNA-b 99.7 5.6E-17 1.2E-21 137.0 11.6 88 29-116 19-118 (166)
20 PRK05813 single-stranded DNA-b 99.7 6.2E-17 1.3E-21 141.9 10.7 86 29-117 123-212 (219)
21 PRK07772 single-stranded DNA-b 99.7 1.3E-16 2.7E-21 137.0 10.6 81 29-109 18-106 (186)
22 cd04496 SSB_OBF SSB_OBF: A sub 99.7 5.4E-16 1.2E-20 115.6 11.4 83 30-112 13-100 (100)
23 COG0629 Ssb Single-stranded DN 99.7 1.9E-16 4E-21 132.2 9.1 88 30-117 18-116 (167)
24 PRK02801 primosomal replicatio 99.6 3.3E-15 7.3E-20 116.2 10.8 82 28-113 15-101 (101)
25 PRK05813 single-stranded DNA-b 99.5 1.5E-13 3.3E-18 120.6 10.6 82 30-117 23-105 (219)
26 KOG1653 Single-stranded DNA-bi 98.8 6.4E-09 1.4E-13 88.4 6.8 85 31-115 71-167 (175)
27 PF01336 tRNA_anti-codon: OB-f 96.7 0.025 5.5E-07 39.4 9.3 49 56-112 27-75 (75)
28 cd04487 RecJ_OBF2_like RecJ_OB 95.8 0.019 4.2E-07 42.3 4.9 47 57-112 27-73 (73)
29 cd04489 ExoVII_LU_OBF ExoVII_L 95.4 0.054 1.2E-06 38.6 5.7 48 56-110 28-75 (78)
30 cd03524 RPA2_OBF_family RPA2_O 95.1 0.13 2.9E-06 34.3 6.7 34 56-89 29-62 (75)
31 cd04482 RPA2_OBF_like RPA2_OBF 93.7 0.14 3.1E-06 39.0 4.9 46 56-113 28-75 (91)
32 PF13742 tRNA_anti_2: OB-fold 93.0 0.32 7E-06 37.5 6.0 48 56-110 50-98 (99)
33 cd04492 YhaM_OBF_like YhaM_OBF 92.2 1.2 2.5E-05 31.4 7.6 49 57-115 31-79 (83)
34 PRK00036 primosomal replicatio 91.7 0.66 1.4E-05 37.2 6.4 79 29-114 15-98 (107)
35 COG3390 Uncharacterized protei 91.3 0.28 6E-06 43.1 4.1 94 12-114 33-132 (196)
36 cd04475 RPA1_DBD_B RPA1_DBD_B: 87.5 0.85 1.8E-05 34.4 3.9 32 57-91 40-71 (101)
37 COG2965 PriB Primosomal replic 86.7 3 6.4E-05 33.4 6.5 84 26-113 15-103 (103)
38 PRK00286 xseA exodeoxyribonucl 86.5 1.1 2.3E-05 42.6 4.8 52 55-113 51-102 (438)
39 cd04485 DnaE_OBF DnaE_OBF: A s 86.3 5.2 0.00011 27.6 7.1 32 57-88 31-62 (84)
40 TIGR00237 xseA exodeoxyribonuc 86.0 1.1 2.4E-05 43.0 4.6 52 54-112 44-95 (432)
41 cd04474 RPA1_DBD_A RPA1_DBD_A: 85.5 1 2.3E-05 34.7 3.4 34 54-87 45-78 (104)
42 cd04490 PolII_SU_OBF PolII_SU_ 85.4 3.7 8.1E-05 30.4 6.3 44 57-111 29-74 (79)
43 COG1570 XseA Exonuclease VII, 80.9 1.6 3.4E-05 42.7 3.4 52 54-112 50-101 (440)
44 PF11506 DUF3217: Protein of u 80.2 12 0.00026 29.5 7.4 50 53-103 37-86 (104)
45 cd04491 SoSSB_OBF SoSSB_OBF: A 80.1 3 6.5E-05 30.3 3.9 30 57-89 35-65 (82)
46 cd04481 RPA1_DBD_B_like RPA1_D 79.7 6.2 0.00013 30.2 5.7 39 55-93 34-76 (106)
47 cd04478 RPA2_DBD_D RPA2_DBD_D: 78.2 11 0.00024 27.8 6.6 70 29-114 7-79 (95)
48 cd04321 ScAspRS_mt_like_N ScAs 77.6 12 0.00026 27.7 6.6 54 58-113 31-85 (86)
49 cd04488 RecG_wedge_OBF RecG_we 77.6 5.3 0.00011 27.1 4.4 33 56-89 29-61 (75)
50 cd04483 hOBFC1_like hOBFC1_lik 77.1 14 0.0003 28.2 7.0 34 57-90 26-79 (92)
51 PF11325 DUF3127: Domain of un 76.7 9.8 0.00021 29.3 6.0 53 51-109 31-83 (84)
52 cd04320 AspRS_cyto_N AspRS_cyt 76.6 7.3 0.00016 29.5 5.3 58 57-115 29-92 (102)
53 cd04323 AsnRS_cyto_like_N AsnR 75.1 11 0.00023 27.6 5.7 53 58-113 29-83 (84)
54 cd04100 Asp_Lys_Asn_RS_N Asp_L 74.7 7.6 0.00017 28.3 4.8 53 58-113 29-84 (85)
55 PHA01740 putative single-stran 74.2 1.8 3.8E-05 36.6 1.4 23 162-184 17-41 (158)
56 cd04484 polC_OBF polC_OBF: A s 74.1 14 0.00031 27.4 6.2 38 54-92 30-69 (82)
57 PRK07211 replication factor A; 73.3 7.1 0.00015 38.7 5.5 34 54-87 100-133 (485)
58 cd04317 EcAspRS_like_N EcAspRS 70.4 20 0.00043 28.5 6.6 58 58-115 44-104 (135)
59 cd04498 hPOT1_OB2 hPOT1_OB2: A 70.3 6.6 0.00014 32.2 3.9 30 54-84 58-87 (123)
60 cd04319 PhAsnRS_like_N PhAsnRS 68.2 47 0.001 25.2 8.1 52 58-115 29-83 (103)
61 cd04316 ND_PkAspRS_like_N ND_P 65.1 28 0.0006 26.7 6.3 53 57-115 41-97 (108)
62 PRK15491 replication factor A; 64.6 8 0.00017 36.8 3.8 34 57-91 215-249 (374)
63 cd04322 LysRS_N LysRS_N: N-ter 63.3 65 0.0014 24.5 9.6 51 57-115 28-83 (108)
64 PRK14699 replication factor A; 55.7 9.6 0.00021 37.6 2.7 36 54-91 103-139 (484)
65 PRK07373 DNA polymerase III su 54.3 73 0.0016 31.2 8.5 48 57-113 314-361 (449)
66 PLN02903 aminoacyl-tRNA ligase 50.9 57 0.0012 33.6 7.4 58 58-115 102-163 (652)
67 cd04318 EcAsnRS_like_N EcAsnRS 50.8 34 0.00074 24.6 4.4 50 58-113 31-81 (82)
68 PRK07211 replication factor A; 48.8 18 0.00038 35.9 3.3 31 57-88 210-241 (485)
69 COG0017 AsnS Aspartyl/asparagi 45.8 57 0.0012 32.1 6.2 55 55-115 43-100 (435)
70 PRK05673 dnaE DNA polymerase I 44.3 80 0.0017 34.5 7.6 49 57-114 1011-1059(1135)
71 PF02367 UPF0079: Uncharacteri 43.5 16 0.00034 29.6 1.8 24 65-88 3-26 (123)
72 PRK06461 single-stranded DNA-b 43.1 26 0.00056 28.2 3.0 28 57-88 52-80 (129)
73 PF12101 DUF3577: Protein of u 42.9 1.8E+02 0.0039 24.5 7.9 106 8-115 5-122 (137)
74 smart00350 MCM minichromosome 42.6 60 0.0013 31.7 5.9 55 55-113 103-161 (509)
75 TIGR00457 asnS asparaginyl-tRN 41.2 1.3E+02 0.0029 29.2 8.0 54 57-116 47-103 (453)
76 PLN02603 asparaginyl-tRNA synt 41.2 2.1E+02 0.0046 29.0 9.6 54 57-116 138-194 (565)
77 PRK08402 replication factor A; 40.8 25 0.00054 33.4 2.9 38 54-91 108-145 (355)
78 TIGR00617 rpa1 replication fac 39.3 37 0.0008 34.3 4.0 33 56-91 350-382 (608)
79 PLN02532 asparagine-tRNA synth 38.1 91 0.002 32.1 6.5 54 57-115 148-201 (633)
80 PRK06826 dnaE DNA polymerase I 37.5 1.7E+02 0.0037 32.2 8.7 50 57-114 1025-1074(1151)
81 PRK15491 replication factor A; 37.4 35 0.00076 32.5 3.3 31 55-85 104-135 (374)
82 TIGR00459 aspS_bact aspartyl-t 37.4 1.5E+02 0.0032 30.2 7.9 59 57-115 44-104 (583)
83 PRK10646 ADP-binding protein; 37.0 28 0.00061 29.3 2.4 26 64-89 15-40 (153)
84 PRK12366 replication factor A; 36.7 52 0.0011 33.4 4.6 47 57-108 329-376 (637)
85 smart00528 HNS Domain in histo 36.3 48 0.001 22.7 3.0 33 163-196 3-37 (46)
86 COG0802 Predicted ATPase or ki 35.5 32 0.0007 29.1 2.5 26 64-89 12-37 (149)
87 TIGR00150 HI0065_YjeE ATPase, 34.7 34 0.00074 28.0 2.5 26 64-89 9-34 (133)
88 PRK06394 rpl13p 50S ribosomal 34.4 34 0.00074 28.7 2.4 23 62-84 13-35 (146)
89 PRK05159 aspC aspartyl-tRNA sy 34.2 1.3E+02 0.0028 28.9 6.7 53 58-116 46-101 (437)
90 TIGR01077 L13_A_E ribosomal pr 34.1 35 0.00076 28.5 2.5 22 63-84 10-31 (142)
91 TIGR00458 aspS_arch aspartyl-t 33.7 69 0.0015 30.8 4.7 53 57-115 41-97 (428)
92 TIGR00499 lysS_bact lysyl-tRNA 32.7 1.2E+02 0.0026 30.0 6.2 50 58-115 83-137 (496)
93 PTZ00385 lysyl-tRNA synthetase 32.4 1.6E+02 0.0034 30.6 7.2 51 56-114 135-191 (659)
94 PRK00476 aspS aspartyl-tRNA sy 31.9 1.8E+02 0.0039 29.5 7.5 59 57-116 46-107 (588)
95 PRK06920 dnaE DNA polymerase I 31.4 2.1E+02 0.0045 31.4 8.2 50 55-113 975-1024(1107)
96 PRK13480 3'-5' exoribonuclease 31.1 1.3E+02 0.0029 28.0 6.0 47 57-113 45-91 (314)
97 PRK05672 dnaE2 error-prone DNA 30.7 1.3E+02 0.0029 32.5 6.7 50 56-114 984-1033(1046)
98 PRK12366 replication factor A; 30.6 48 0.001 33.7 3.2 28 57-85 112-139 (637)
99 PF12869 tRNA_anti-like: tRNA_ 30.5 65 0.0014 25.4 3.4 36 55-90 97-133 (144)
100 PF00970 FAD_binding_6: Oxidor 29.5 1.1E+02 0.0024 22.2 4.3 32 56-88 63-96 (99)
101 PLN02221 asparaginyl-tRNA synt 29.1 2E+02 0.0044 29.2 7.3 55 57-115 83-137 (572)
102 cd00392 Ribosomal_L13 Ribosoma 28.8 46 0.00099 26.7 2.2 14 63-76 11-24 (114)
103 KOG0479 DNA replication licens 28.3 93 0.002 32.5 4.8 55 57-116 214-270 (818)
104 PTZ00111 DNA replication licen 27.6 1.6E+02 0.0034 31.8 6.4 55 56-114 346-404 (915)
105 PRK07374 dnaE DNA polymerase I 27.5 2.6E+02 0.0055 30.9 8.1 48 57-113 1034-1081(1170)
106 PTZ00401 aspartyl-tRNA synthet 27.3 2.4E+02 0.0052 28.4 7.4 58 57-115 107-169 (550)
107 PRK07279 dnaE DNA polymerase I 27.1 3.5E+02 0.0075 29.6 8.9 48 57-113 919-966 (1034)
108 cd04486 YhcR_OBF_like YhcR_OBF 26.7 66 0.0014 23.7 2.6 19 71-89 42-60 (78)
109 PLN02850 aspartate-tRNA ligase 26.2 1.4E+02 0.003 29.9 5.5 57 57-115 110-172 (530)
110 PF00572 Ribosomal_L13: Riboso 25.3 55 0.0012 26.7 2.1 13 63-75 11-23 (128)
111 PRK12820 bifunctional aspartyl 25.1 2.7E+02 0.0059 29.1 7.5 59 57-115 47-110 (706)
112 PRK00484 lysS lysyl-tRNA synth 24.7 1.8E+02 0.004 28.6 6.0 51 57-115 83-137 (491)
113 PRK12445 lysyl-tRNA synthetase 24.5 1.8E+02 0.0039 28.9 5.9 37 71-115 113-149 (505)
114 smart00472 MIR Domain in ryano 23.5 28 0.00061 23.3 0.1 26 171-196 12-38 (57)
115 TIGR01066 rplM_bact ribosomal 23.5 69 0.0015 26.7 2.4 23 62-84 22-56 (140)
116 TIGR00617 rpa1 replication fac 22.8 1.4E+02 0.003 30.3 4.9 35 54-88 225-260 (608)
117 PRK10328 DNA binding protein, 22.6 90 0.002 25.8 2.9 35 162-196 88-125 (134)
118 PF11736 DUF3299: Protein of u 22.5 1.8E+02 0.0039 24.3 4.7 32 77-110 112-143 (146)
119 TIGR03063 srtB_target sortase 22.4 83 0.0018 19.8 2.0 18 6-23 3-20 (29)
120 COG1838 FumA Tartrate dehydrat 22.1 93 0.002 27.4 3.0 21 68-89 11-31 (184)
121 COG1727 RPL18A Ribosomal prote 22.1 1.3E+02 0.0029 24.8 3.8 36 70-113 54-89 (122)
122 KOG0554 Asparaginyl-tRNA synth 21.4 3.2E+02 0.0068 27.1 6.7 62 38-114 37-98 (446)
123 PTZ00417 lysine-tRNA ligase; P 21.2 3.5E+02 0.0076 27.6 7.3 37 71-115 183-219 (585)
124 COG0677 WecC UDP-N-acetyl-D-ma 20.9 84 0.0018 31.0 2.8 25 60-84 104-128 (436)
125 PLN02502 lysyl-tRNA synthetase 20.1 2.7E+02 0.0059 28.1 6.2 36 72-115 159-194 (553)
126 PTZ00425 asparagine-tRNA ligas 20.1 3.5E+02 0.0075 27.7 7.0 58 58-115 115-180 (586)
127 PRK09216 rplM 50S ribosomal pr 20.0 91 0.002 26.2 2.5 23 62-84 24-58 (144)
No 1
>PRK07459 single-stranded DNA-binding protein; Provisional
Probab=99.86 E-value=2.5e-21 Score=155.01 Aligned_cols=89 Identities=18% Similarity=0.128 Sum_probs=82.0
Q ss_pred eeeeeeccceEEeeeeeccceeeceeeeeEEEEEechhHHHHHhhcCCCCeEEEEEEeeeccccCCC-CceEEEEEEEEe
Q 027559 29 KLENIELNECVTMLDILLLIIHHLQCLSSILLAVGGDMAQLCQKHLKPNDFIYVTGQLHSYSKVDKN-GKLCLCYKVVVE 107 (222)
Q Consensus 29 ~~~~~~~~e~vt~~~iav~~r~~~~~t~wI~Vv~WGklAE~~aqyLkKGD~V~VsGrL~sr~~~dkd-Gq~rs~~eVvV~ 107 (222)
.+++.+.+.+++.|+||++++...++++||+|++||++||.+++||+||++|+|+|+|++++|+|++ |++++.++|+|+
T Consensus 17 elr~t~~G~~v~~fslAv~~~~~~~~t~w~~v~~wg~~Ae~~~~~l~KG~~V~V~G~l~~~~~~d~d~G~~r~~~ei~a~ 96 (121)
T PRK07459 17 EVRYFESGSVVCNLTLAVNRRSRDDEPDWFNLEIWGKTAQVAADYVKKGSLIGITGSLKFDRWTDRNTGEDRSKPVIRVD 96 (121)
T ss_pred EEEEcCCCCEEEEEEEEecccccCCCceEEEEEEehHHHHHHHHHcCCCCEEEEEEEEEecceEcCCCCeEEEEEEEEEe
Confidence 3577888999999999999876667899999999999999999999999999999999999999997 999999999999
Q ss_pred eEEeeecCCC
Q 027559 108 DFNYVRECGQ 117 (222)
Q Consensus 108 el~Fv~~k~~ 117 (222)
+|+||+++++
T Consensus 97 ~i~~L~~k~~ 106 (121)
T PRK07459 97 RLELLGSKRD 106 (121)
T ss_pred EEEECcCCCc
Confidence 9999987643
No 2
>PRK06752 single-stranded DNA-binding protein; Validated
Probab=99.85 E-value=1.2e-20 Score=148.22 Aligned_cols=87 Identities=16% Similarity=0.119 Sum_probs=80.2
Q ss_pred eeeeeccceEEeeeeecccee----eceeeeeEEEEEechhHHHHHhhcCCCCeEEEEEEeeeccccCCCCceEEEEEEE
Q 027559 30 LENIELNECVTMLDILLLIIH----HLQCLSSILLAVGGDMAQLCQKHLKPNDFIYVTGQLHSYSKVDKNGKLCLCYKVV 105 (222)
Q Consensus 30 ~~~~~~~e~vt~~~iav~~r~----~~~~t~wI~Vv~WGklAE~~aqyLkKGD~V~VsGrL~sr~~~dkdGq~rs~~eVv 105 (222)
+++.+.+.+++.|+||++++. ....++||+|++||++||.+++||+||++|+|+|+|++++|+|++|++++.++|+
T Consensus 17 lr~t~~G~~~~~f~lAv~~~~~~~~g~~~t~~~~v~~wg~~Ae~~~~~l~KG~~V~V~G~l~~~~~~~~~G~~~~~~ei~ 96 (112)
T PRK06752 17 LYYTKQGVAYARVCVAVNRGFRNSLGEQQVDFINCVVWRKSAENVTEYCTKGSLVGITGRIHTRNYEDDQGKRIYITEVV 96 (112)
T ss_pred EEECCCCCEEEEEEEEECCCeEcCCCCEEEEEEEEEEehHHHHHHHHhcCCCCEEEEEEEEEeCccCCCCCcEEEEEEEE
Confidence 577889999999999998753 2347999999999999999999999999999999999999999999999999999
Q ss_pred EeeEEeeecCC
Q 027559 106 VEDFNYVRECG 116 (222)
Q Consensus 106 V~el~Fv~~k~ 116 (222)
|++|+|++++.
T Consensus 97 a~~i~~l~~~~ 107 (112)
T PRK06752 97 IESITFLERRR 107 (112)
T ss_pred EEEEEECCCCC
Confidence 99999998764
No 3
>PRK07275 single-stranded DNA-binding protein; Provisional
Probab=99.85 E-value=9.3e-21 Score=159.10 Aligned_cols=88 Identities=16% Similarity=0.160 Sum_probs=81.4
Q ss_pred eeeeeeccceEEeeeeecccee----eceeeeeEEEEEechhHHHHHhhcCCCCeEEEEEEeeeccccCCCCceEEEEEE
Q 027559 29 KLENIELNECVTMLDILLLIIH----HLQCLSSILLAVGGDMAQLCQKHLKPNDFIYVTGQLHSYSKVDKNGKLCLCYKV 104 (222)
Q Consensus 29 ~~~~~~~~e~vt~~~iav~~r~----~~~~t~wI~Vv~WGklAE~~aqyLkKGD~V~VsGrL~sr~~~dkdGq~rs~~eV 104 (222)
.+++.+.+.+++.|+|||+++. ....++||+|++||++||.+++||+||++|+|+|+|++++|++++|++++.++|
T Consensus 16 Elr~t~sG~~v~~ftlAv~r~~~~~~ge~~tdfi~vv~wgk~Ae~~~~~l~KG~~V~VeGrl~~r~y~dkdG~k~~~~ev 95 (162)
T PRK07275 16 ELRYTPSNVAVATFTLAVNRTFKSQNGEREADFINCVIWRQQAENLANWAKKGALIGVTGRIQTRNYENQQGQRVYVTEV 95 (162)
T ss_pred eEEECCCCCEEEEEEEEEcCceecCCCCEeeeEEEEEEEcHHHHHHHHHcCCCCEEEEEEEEEeceEECCCCCEEEEEEE
Confidence 4678889999999999998753 335799999999999999999999999999999999999999999999999999
Q ss_pred EEeeEEeeecCC
Q 027559 105 VVEDFNYVRECG 116 (222)
Q Consensus 105 vV~el~Fv~~k~ 116 (222)
+|++|+||+++.
T Consensus 96 va~~i~~l~~~~ 107 (162)
T PRK07275 96 VADNFQMLESRA 107 (162)
T ss_pred EEeEEEECCCCC
Confidence 999999999875
No 4
>PRK08486 single-stranded DNA-binding protein; Provisional
Probab=99.82 E-value=9e-20 Score=155.72 Aligned_cols=89 Identities=13% Similarity=0.155 Sum_probs=81.1
Q ss_pred eeeeeeccceEEeeeeecccee------eceeeeeEEEEEechhHHHHHhhcCCCCeEEEEEEeeeccccCCCCceEEEE
Q 027559 29 KLENIELNECVTMLDILLLIIH------HLQCLSSILLAVGGDMAQLCQKHLKPNDFIYVTGQLHSYSKVDKNGKLCLCY 102 (222)
Q Consensus 29 ~~~~~~~~e~vt~~~iav~~r~------~~~~t~wI~Vv~WGklAE~~aqyLkKGD~V~VsGrL~sr~~~dkdGq~rs~~ 102 (222)
.+++.+.+..++.|+||+.++. ..++++||+|++||++||.|++||+||++|+|+|||++++|+|++|++++.+
T Consensus 16 Elr~t~sG~~va~fslAv~r~~~~~~Ge~~e~t~fi~v~~fg~~AE~~~~~l~KG~~V~VeGrL~~~~y~dkdG~~r~~~ 95 (182)
T PRK08486 16 ELRYLPSGSAIATIGLATSRRFKKQDGEKGEEVCFIDIRLFGRTAEIANQYLSKGSKVLIEGRLTFESWMDQNGQKRSKH 95 (182)
T ss_pred EEEECCCCCEEEEEEEEEecceecCCCCCcccceEEEEEEEhHHHHHHHHHcCCCCEEEEEEEEEeCcEECCCCcEEEEE
Confidence 4678888999999999998753 1347999999999999999999999999999999999999999999999999
Q ss_pred EEEEeeEEeeecCCC
Q 027559 103 KVVVEDFNYVRECGQ 117 (222)
Q Consensus 103 eVvV~el~Fv~~k~~ 117 (222)
+|+|++|+||.++..
T Consensus 96 eI~a~~v~~L~~~~~ 110 (182)
T PRK08486 96 TITAESMQMLDSKSD 110 (182)
T ss_pred EEEEeEEEECCCCCC
Confidence 999999999987654
No 5
>PRK06751 single-stranded DNA-binding protein; Provisional
Probab=99.81 E-value=1.6e-19 Score=153.19 Aligned_cols=90 Identities=16% Similarity=0.142 Sum_probs=81.6
Q ss_pred eeeeeeccceEEeeeeecccee----eceeeeeEEEEEechhHHHHHhhcCCCCeEEEEEEeeeccccCCCCceEEEEEE
Q 027559 29 KLENIELNECVTMLDILLLIIH----HLQCLSSILLAVGGDMAQLCQKHLKPNDFIYVTGQLHSYSKVDKNGKLCLCYKV 104 (222)
Q Consensus 29 ~~~~~~~~e~vt~~~iav~~r~----~~~~t~wI~Vv~WGklAE~~aqyLkKGD~V~VsGrL~sr~~~dkdGq~rs~~eV 104 (222)
.+++.+.+.+++.|+||+.++. ....++||+|++||++||.+++||+||++|+|+|+|++++|++++|++++.++|
T Consensus 16 elR~t~sG~~v~~fslAvnr~~~~~~ge~~tdwi~~v~wgk~Ae~~~~~l~KG~~V~VeGrL~~r~yedkdG~~~~~~eV 95 (173)
T PRK06751 16 DLRYTPNGVAVATFTLAVNRAFANQQGEREADFINCVIWRKQAENVANYLKKGSLAGVDGRLQTRNYEGQDGKRVYVTEV 95 (173)
T ss_pred cEEECCCCCEEEEEEEEEccceecCCCCEEEEEEEEEEeCcHHHHHHHHcCCCCEEEEEEEEEeCccCCCCCcEEEEEEE
Confidence 4678888999999999998742 345789999999999999999999999999999999999999999999999999
Q ss_pred EEeeEEeeecCCCC
Q 027559 105 VVEDFNYVRECGQG 118 (222)
Q Consensus 105 vV~el~Fv~~k~~~ 118 (222)
+|++|+|+++++..
T Consensus 96 va~~i~~l~~r~~~ 109 (173)
T PRK06751 96 LAESVQFLEPRNGG 109 (173)
T ss_pred EEEEEEeCcCCCCC
Confidence 99999999977543
No 6
>PRK08763 single-stranded DNA-binding protein; Provisional
Probab=99.81 E-value=2.2e-19 Score=151.17 Aligned_cols=89 Identities=9% Similarity=0.187 Sum_probs=80.5
Q ss_pred eeeeeeccceEEeeeeecccee------eceeeeeEEEEEechhHHHHHhhcCCCCeEEEEEEeeeccccCCCCceEEEE
Q 027559 29 KLENIELNECVTMLDILLLIIH------HLQCLSSILLAVGGDMAQLCQKHLKPNDFIYVTGQLHSYSKVDKNGKLCLCY 102 (222)
Q Consensus 29 ~~~~~~~~e~vt~~~iav~~r~------~~~~t~wI~Vv~WGklAE~~aqyLkKGD~V~VsGrL~sr~~~dkdGq~rs~~ 102 (222)
.+++.+.+.+++.|+||+++.. ..+.++||+|++||++||.|++||+||++|+|+|+|++++|++++|++++.+
T Consensus 19 elr~t~~G~~va~fsVA~~~~~k~~~G~~~e~t~w~~Vv~fgk~Ae~v~~~L~KGs~V~VeGrL~~~~y~dkdG~kr~~~ 98 (164)
T PRK08763 19 DIKYTQSGMTITRISLATTSVRKDREGNTQERTEWHRVKFFGKLGEIAGEYLRKGSQCYIEGSIRYDKFTGQDGQERYVT 98 (164)
T ss_pred eEEEcCCCCeEEEEEEEeccceecCCCCeeccceEEEEEEehHHHHHHHHhcCCCCEEEEEEEEEeceeECCCCCEEEEE
Confidence 4578888999999999998642 1346899999999999999999999999999999999999999999999999
Q ss_pred EEEEeeEEeeecCCC
Q 027559 103 KVVVEDFNYVRECGQ 117 (222)
Q Consensus 103 eVvV~el~Fv~~k~~ 117 (222)
+|+|++|+||+++..
T Consensus 99 eIva~~i~~L~~~~~ 113 (164)
T PRK08763 99 EIVADEMQMLGGRGE 113 (164)
T ss_pred EEEEeEEEECCCCCC
Confidence 999999999998754
No 7
>PRK07274 single-stranded DNA-binding protein; Provisional
Probab=99.81 E-value=3.2e-19 Score=144.19 Aligned_cols=90 Identities=14% Similarity=0.188 Sum_probs=80.1
Q ss_pred eeeeeeccceEEeeeeecccee----eceeeeeEEEEEechhHHHHHhhcCCCCeEEEEEEeeeccccCCCCceEEEEEE
Q 027559 29 KLENIELNECVTMLDILLLIIH----HLQCLSSILLAVGGDMAQLCQKHLKPNDFIYVTGQLHSYSKVDKNGKLCLCYKV 104 (222)
Q Consensus 29 ~~~~~~~~e~vt~~~iav~~r~----~~~~t~wI~Vv~WGklAE~~aqyLkKGD~V~VsGrL~sr~~~dkdGq~rs~~eV 104 (222)
.+++.+.+..++.|+||++++. ....++||+|++||++||.+++||+||++|+|+|+|++++| +++|++++.++|
T Consensus 16 elr~t~~g~~~~~fslAv~~~~k~~~g~~~t~w~~v~~fg~~Ae~v~~~l~KG~~V~V~Grl~~~~y-~kdG~~~~~~ev 94 (131)
T PRK07274 16 ELVKTANDKSVARVTLAVNRRFKNQNGEREADFINVVLWGKLAETLASYASKGSLISIDGELRTRKY-EKDGQTHYVTEV 94 (131)
T ss_pred eEEECCCCCEEEEEEEEEcCceecCCCCEEEEEEEEEEehHHHHHHHHHcCCCCEEEEEEEEEeccC-ccCCcEEEEEEE
Confidence 3567788899999999998743 23468999999999999999999999999999999999999 899999999999
Q ss_pred EEeeEEeeecCCCCc
Q 027559 105 VVEDFNYVRECGQGL 119 (222)
Q Consensus 105 vV~el~Fv~~k~~~~ 119 (222)
+|++|+|++++.+..
T Consensus 95 iv~~i~~l~~k~~~~ 109 (131)
T PRK07274 95 LCQSFQLLESRAQRA 109 (131)
T ss_pred EEEEEEECcCCCccc
Confidence 999999999775443
No 8
>PRK06642 single-stranded DNA-binding protein; Provisional
Probab=99.80 E-value=4.5e-19 Score=147.20 Aligned_cols=90 Identities=10% Similarity=0.155 Sum_probs=79.8
Q ss_pred eeeeeeccceEEeeeeecccee-------eceeeeeEEEEEech-hHHHHHhhcCCCCeEEEEEEeeeccccCCCCceEE
Q 027559 29 KLENIELNECVTMLDILLLIIH-------HLQCLSSILLAVGGD-MAQLCQKHLKPNDFIYVTGQLHSYSKVDKNGKLCL 100 (222)
Q Consensus 29 ~~~~~~~~e~vt~~~iav~~r~-------~~~~t~wI~Vv~WGk-lAE~~aqyLkKGD~V~VsGrL~sr~~~dkdGq~rs 100 (222)
.+++++.+.+++.|+||++++. ..+.++||+|++||+ +|+.|++||+||++|+|+|+|++++|+|++|++++
T Consensus 19 Elr~t~~G~~v~~fslAv~~~~k~~~~G~~~~~T~w~~v~~~g~~~Ae~~~~~l~KG~~V~V~GrL~~~~y~dkdG~~r~ 98 (152)
T PRK06642 19 EIRTTGEGKKIINLSLATTETWKDRITSERKERTEWHRVVIFSEGLVSVVERYVTKGSKLYIEGSLQTRKWNDNSGQEKY 98 (152)
T ss_pred eEEECCCCCEEEEEEEEeccccccccCCccccceeEEEEEEeChHHHHHHHHhCCCCCEEEEEEEEEeCeeECCCCCEEE
Confidence 4578888999999999998742 124799999999996 99999999999999999999999999999999999
Q ss_pred EEEEEEeeE----EeeecCCCC
Q 027559 101 CYKVVVEDF----NYVRECGQG 118 (222)
Q Consensus 101 ~~eVvV~el----~Fv~~k~~~ 118 (222)
.++|+|++| .|++++...
T Consensus 99 ~~eVvv~~~~~~i~fl~~k~~~ 120 (152)
T PRK06642 99 TTEVVLQNFNSQLILLDSKNSN 120 (152)
T ss_pred EEEEEEEecccceEeccCCCCc
Confidence 999999987 899876543
No 9
>PRK09010 single-stranded DNA-binding protein; Provisional
Probab=99.79 E-value=8.6e-19 Score=149.26 Aligned_cols=89 Identities=15% Similarity=0.166 Sum_probs=80.4
Q ss_pred eeeeeeccceEEeeeeecccee-------eceeeeeEEEEEechhHHHHHhhcCCCCeEEEEEEeeeccccCCCCceEEE
Q 027559 29 KLENIELNECVTMLDILLLIIH-------HLQCLSSILLAVGGDMAQLCQKHLKPNDFIYVTGQLHSYSKVDKNGKLCLC 101 (222)
Q Consensus 29 ~~~~~~~~e~vt~~~iav~~r~-------~~~~t~wI~Vv~WGklAE~~aqyLkKGD~V~VsGrL~sr~~~dkdGq~rs~ 101 (222)
.++++..+.++++|+||+++.. ..+.++||+|++|+++||.+++||+||++|+|+|+|++++|+|++|++++.
T Consensus 20 elR~t~nG~~v~~fsVAvn~~~kd~~~Ge~~e~t~w~~V~~fgk~Ae~~~~~L~KGs~V~VeGrL~~~~yedkdG~~r~~ 99 (177)
T PRK09010 20 EVRYMPNGGAVANITLATSESWRDKQTGEMKEQTEWHRVVLFGKLAEVAGEYLRKGSQVYIEGQLRTRKWTDQSGQDRYT 99 (177)
T ss_pred eEEEcCCCCEEEEEEEEEcCccccCcccccccceEEEEEEEehhHHHHHHHhcCCCCEEEEEEEEEeccccCCCCCEEEE
Confidence 4678888899999999998642 235799999999999999999999999999999999999999999999999
Q ss_pred EEEEEe---eEEeeecCCC
Q 027559 102 YKVVVE---DFNYVRECGQ 117 (222)
Q Consensus 102 ~eVvV~---el~Fv~~k~~ 117 (222)
++|+|+ +++||+++.+
T Consensus 100 ~eVvv~~~~~~~~l~~r~~ 118 (177)
T PRK09010 100 TEVVVNVGGTMQMLGGRQG 118 (177)
T ss_pred EEEEEecCCcEEEccCCCC
Confidence 999998 8999997744
No 10
>PRK06293 single-stranded DNA-binding protein; Provisional
Probab=99.78 E-value=1.2e-18 Score=146.54 Aligned_cols=87 Identities=16% Similarity=0.053 Sum_probs=79.4
Q ss_pred eeeeeeccceEEeeeeecccee-eceeeeeEEEEEechhHHHHHhhcCCCCeEEEEEEeeeccccCCCCceEEEEEEEEe
Q 027559 29 KLENIELNECVTMLDILLLIIH-HLQCLSSILLAVGGDMAQLCQKHLKPNDFIYVTGQLHSYSKVDKNGKLCLCYKVVVE 107 (222)
Q Consensus 29 ~~~~~~~~e~vt~~~iav~~r~-~~~~t~wI~Vv~WGklAE~~aqyLkKGD~V~VsGrL~sr~~~dkdGq~rs~~eVvV~ 107 (222)
.+++.+.+..++.|+||++++. ...+++||+|++||++||.+++||+||++|+|+|+|++++|+|++|++++.++|+|+
T Consensus 15 ElR~t~sG~~v~~FsLAvn~~~~~~~~T~wi~v~awg~~Ae~v~~yL~KG~~V~VeGrL~~~~y~dkdG~kr~~~eIva~ 94 (161)
T PRK06293 15 EERMTSKGKRVVVLRLGVKSRVGSKDETVWCRCNIWGNRYDKMLPYLKKGSGVIVAGEMSPESYVDKDGSPQSSLVVSVD 94 (161)
T ss_pred eEEEcCCCCEEEEEEEEEeCCCCCccceEEEEEEEEhHHHHHHHHhCCCCCEEEEEEEEEeCccCCCCCCEEEEEEEEEe
Confidence 3567788999999999998754 345799999999999999999999999999999999999999999999999999999
Q ss_pred eEEeeecC
Q 027559 108 DFNYVREC 115 (222)
Q Consensus 108 el~Fv~~k 115 (222)
+|.|+...
T Consensus 95 ~I~fl~~~ 102 (161)
T PRK06293 95 TIKFSPFG 102 (161)
T ss_pred EEEECcCC
Confidence 99999654
No 11
>PRK08182 single-stranded DNA-binding protein; Provisional
Probab=99.78 E-value=2e-18 Score=142.82 Aligned_cols=90 Identities=8% Similarity=-0.037 Sum_probs=78.2
Q ss_pred eeeeeeccce----EEeeeeecccee-------eceeeeeEEEEEechhHHHHHhhcCCCCeEEEEEEeeeccccCCCCc
Q 027559 29 KLENIELNEC----VTMLDILLLIIH-------HLQCLSSILLAVGGDMAQLCQKHLKPNDFIYVTGQLHSYSKVDKNGK 97 (222)
Q Consensus 29 ~~~~~~~~e~----vt~~~iav~~r~-------~~~~t~wI~Vv~WGklAE~~aqyLkKGD~V~VsGrL~sr~~~dkdGq 97 (222)
-+++++.+.+ ++.|++|++++. ....++||+|++||++||.+++||+||++|+|+|+|++++|+|+||+
T Consensus 16 Elr~t~~G~~~~~~va~fslA~~r~~~~~~Ge~~~~~t~w~~V~~wg~~Ae~v~~~l~KG~~V~V~GrL~~~~w~dkdG~ 95 (148)
T PRK08182 16 EYREFPNGNDEPRRLLRLNVYFDNPVPTKDGEYEDRGGFWAPVELWHRDAEHWARLYQKGMRVLVEGRMERDEWTDNEDN 95 (148)
T ss_pred eEEECCCCCeeeeeEEEEEEEecCceECCCCCEEecCcEEEEEEEEhHHHHHHHHhcCCCCEEEEEEEEEecccCCCCCC
Confidence 3567777765 999999987642 12357899999999999999999999999999999999999999999
Q ss_pred eEEEEEEEEeeEEeeecCCCC
Q 027559 98 LCLCYKVVVEDFNYVRECGQG 118 (222)
Q Consensus 98 ~rs~~eVvV~el~Fv~~k~~~ 118 (222)
+++.++|+|++|.|+.++...
T Consensus 96 ~r~~~eI~a~~i~~l~~r~~~ 116 (148)
T PRK08182 96 ERVTFKVEARRVGILPYRIES 116 (148)
T ss_pred EEEEEEEEEeEEEEcCCcccc
Confidence 999999999999999876543
No 12
>PRK06958 single-stranded DNA-binding protein; Provisional
Probab=99.78 E-value=1.5e-18 Score=148.45 Aligned_cols=91 Identities=12% Similarity=0.176 Sum_probs=80.6
Q ss_pred eeeeeeccceEEeeeeeccceee-------ceeeeeEEEEEechhHHHHHhhcCCCCeEEEEEEeeeccccCCCCceEEE
Q 027559 29 KLENIELNECVTMLDILLLIIHH-------LQCLSSILLAVGGDMAQLCQKHLKPNDFIYVTGQLHSYSKVDKNGKLCLC 101 (222)
Q Consensus 29 ~~~~~~~~e~vt~~~iav~~r~~-------~~~t~wI~Vv~WGklAE~~aqyLkKGD~V~VsGrL~sr~~~dkdGq~rs~ 101 (222)
.+++.+.+..++.|+||++++.. .+.++||+|++|+++||.+++||+||++|+|+|+|+++.|+|++|++++.
T Consensus 18 Elr~t~nG~~va~fsVAv~~~~kdk~sGe~~e~T~w~~V~~fGk~AE~v~~~LkKGs~V~VeGrL~~~~yeDkdG~kr~~ 97 (182)
T PRK06958 18 EVRYLPSGDAVANIRLATTDRYKDKASGEFKEATEWHRVAFFGRLAEIVGEYLKKGSSVYIEGRIRTRKWQGQDGQDRYS 97 (182)
T ss_pred eEEEcCCCCEEEEEEEEeccccccccCCcccccceEEEEEEehHHHHHHHHHhCCCCEEEEEEEEEeCceECCCCcEEEE
Confidence 35677888899999999987421 23689999999999999999999999999999999999999999999999
Q ss_pred EEEEEeeEEeeecCCCCc
Q 027559 102 YKVVVEDFNYVRECGQGL 119 (222)
Q Consensus 102 ~eVvV~el~Fv~~k~~~~ 119 (222)
++|+|++|+||.++.+..
T Consensus 98 ~eVvA~~V~fL~sr~~~~ 115 (182)
T PRK06958 98 TEIVADQMQMLGGRGGSG 115 (182)
T ss_pred EEEEEeEEEECCCCccCc
Confidence 999999999999775433
No 13
>PRK06863 single-stranded DNA-binding protein; Provisional
Probab=99.78 E-value=2.2e-18 Score=145.72 Aligned_cols=90 Identities=13% Similarity=0.121 Sum_probs=80.7
Q ss_pred eeeeeccceEEeeeeecccee-------eceeeeeEEEEEechhHHHHHhhcCCCCeEEEEEEeeeccccCCCCceEEEE
Q 027559 30 LENIELNECVTMLDILLLIIH-------HLQCLSSILLAVGGDMAQLCQKHLKPNDFIYVTGQLHSYSKVDKNGKLCLCY 102 (222)
Q Consensus 30 ~~~~~~~e~vt~~~iav~~r~-------~~~~t~wI~Vv~WGklAE~~aqyLkKGD~V~VsGrL~sr~~~dkdGq~rs~~ 102 (222)
++++..+..++.|+||+++.. ..+.++||+|++||++||.+++||+||++|+|+|+|++++|+|++|++++.+
T Consensus 19 lR~t~nG~~va~fsVAvn~~~~d~~~Ge~~e~t~w~~Vv~fgk~AE~v~~~LkKGs~V~VeGrL~~r~w~DkdG~~r~~~ 98 (168)
T PRK06863 19 IRTMPNGEAVANISVATSESWTDKNTGERREVTEWHRIVFYRRQAEVAGEYLRKGSQVYVEGRLKTRKWQDQNGQDRYTT 98 (168)
T ss_pred EEEcCCCCEEEEEEEEecCcccccCCCcccccceEEEEEEEhHHHHHHHHHCCCCCEEEEEEEEEeCCccCCCCCEEEEE
Confidence 577888899999999998631 1235899999999999999999999999999999999999999999999999
Q ss_pred EEEEeeEEeeecCCCCc
Q 027559 103 KVVVEDFNYVRECGQGL 119 (222)
Q Consensus 103 eVvV~el~Fv~~k~~~~ 119 (222)
+|+|++|+||+++...+
T Consensus 99 eI~a~~i~~L~~r~~~~ 115 (168)
T PRK06863 99 EIQGDVLQMLGGRNQRN 115 (168)
T ss_pred EEEEeEEEECCCCCccc
Confidence 99999999999876543
No 14
>PF00436 SSB: Single-strand binding protein family; InterPro: IPR000424 The Escherichia coli single-strand binding protein [] (gene ssb), also known as the helix-destabilising protein, is a protein of 177 amino acids. It binds tightly, as a homotetramer, to single-stranded DNA (ss-DNA) and plays an important role in DNA replication, recombination and repair. Closely related variants of SSB are encoded in the genome of a variety of large self-transmissible plasmids. SSB has also been characterised in bacteria such as Proteus mirabilis or Serratia marcescens. Eukaryotic mitochondrial proteins that bind ss-DNA and are probably involved in mitochondrial DNA replication are structurally and evolutionary related to prokaryotic SSB.; GO: 0003697 single-stranded DNA binding; PDB: 3UDG_B 1SE8_A 2CWA_A 3ULL_B 1S3O_A 2DUD_A 3AFP_A 3AFQ_A 3VDY_A 3EIV_C ....
Probab=99.77 E-value=3.5e-18 Score=128.82 Aligned_cols=84 Identities=18% Similarity=0.241 Sum_probs=74.8
Q ss_pred eeeeeeccceEEeeeeeccc------eeeceeeeeEEEEEechhHHHHHhhcCCCCeEEEEEEeeeccccCCCCceEEEE
Q 027559 29 KLENIELNECVTMLDILLLI------IHHLQCLSSILLAVGGDMAQLCQKHLKPNDFIYVTGQLHSYSKVDKNGKLCLCY 102 (222)
Q Consensus 29 ~~~~~~~~e~vt~~~iav~~------r~~~~~t~wI~Vv~WGklAE~~aqyLkKGD~V~VsGrL~sr~~~dkdGq~rs~~ 102 (222)
.+++.+.+..++.|++++.+ ......++||+|++||++|+.+++||+|||+|+|+|+|.++.|++++|++++.+
T Consensus 15 ~~~~~~~g~~~~~f~la~~~~~~~~~~~~~~~~~~~~v~~~g~~A~~~~~~l~kG~~V~V~G~l~~~~~~~~~G~~~~~~ 94 (104)
T PF00436_consen 15 ELRYTKNGTPVARFSLAVNRRFKDDGGEGDEKTDWINVVAWGKLAENVAEYLKKGDRVYVEGRLRTRTYEDKDGQKRYRV 94 (104)
T ss_dssp EEEEETTSEEEEEEEEEEEEEEEETTSCEEEEEEEEEEEEEHHHHHHHHHH--TT-EEEEEEEEEEEEEESTTSSEEEEE
T ss_pred EEEECCCCCEEEEEEEEEecEEeeeeccCccceEEEEEEeeeecccccceEEcCCCEEEEEEEEEeeEEECCCCCEEEEE
Confidence 46788888999999999988 346789999999999999999999999999999999999999999999999999
Q ss_pred EEEEeeEEee
Q 027559 103 KVVVEDFNYV 112 (222)
Q Consensus 103 eVvV~el~Fv 112 (222)
+|+|++|+||
T Consensus 95 ~i~a~~i~fl 104 (104)
T PF00436_consen 95 EIIADNIEFL 104 (104)
T ss_dssp EEEEEEEEE-
T ss_pred EEEEEEEEeC
Confidence 9999999996
No 15
>PRK13732 single-stranded DNA-binding protein; Provisional
Probab=99.77 E-value=3.5e-18 Score=145.30 Aligned_cols=90 Identities=18% Similarity=0.185 Sum_probs=80.0
Q ss_pred eeeeeeccceEEeeeeecccee-------eceeeeeEEEEEechhHHHHHhhcCCCCeEEEEEEeeeccccCCCCceEEE
Q 027559 29 KLENIELNECVTMLDILLLIIH-------HLQCLSSILLAVGGDMAQLCQKHLKPNDFIYVTGQLHSYSKVDKNGKLCLC 101 (222)
Q Consensus 29 ~~~~~~~~e~vt~~~iav~~r~-------~~~~t~wI~Vv~WGklAE~~aqyLkKGD~V~VsGrL~sr~~~dkdGq~rs~ 101 (222)
.+++++.+..++.|+||++++. ..+.++||+|++||++||.|++||+||++|+|+|+|++++|++ +|++++.
T Consensus 20 ElR~t~nG~~va~fslAvn~~~kd~~~Ge~~e~t~w~~Vv~wgk~Ae~v~~~L~KG~~V~VeGrL~~r~ye~-dG~kr~~ 98 (175)
T PRK13732 20 EVRYIPNGGAVANLQVATSESWRDKQTGEMREQTEWHRVVLFGKLAEVAGEYLRKGAQVYIEGQLRTRSWED-NGITRYV 98 (175)
T ss_pred EEEEcCCCCEEEEEEEEEcCccccCCCCceecceeEEEEEEecHHHHHHHHhcCCCCEEEEEEEEEeeeEcc-CCeEEEE
Confidence 5678888899999999998642 1246999999999999999999999999999999999999986 7999999
Q ss_pred EEEEEe---eEEeeecCCCCc
Q 027559 102 YKVVVE---DFNYVRECGQGL 119 (222)
Q Consensus 102 ~eVvV~---el~Fv~~k~~~~ 119 (222)
++|+|+ +|.||+++....
T Consensus 99 ~eIiv~~~g~~~fL~~~~~~~ 119 (175)
T PRK13732 99 TEILVKTTGTMQMLGRAPQQN 119 (175)
T ss_pred EEEEEeecCeEEEecCCCCCC
Confidence 999999 999999876443
No 16
>TIGR00621 ssb single stranded DNA-binding protein (ssb). This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=99.75 E-value=1.2e-17 Score=139.54 Aligned_cols=88 Identities=16% Similarity=0.205 Sum_probs=79.2
Q ss_pred eeeeeeccceEEeeeeecccee------eceeeeeEEEEEechhHHHHHhhcCCCCeEEEEEEeeeccccCCCCceEEEE
Q 027559 29 KLENIELNECVTMLDILLLIIH------HLQCLSSILLAVGGDMAQLCQKHLKPNDFIYVTGQLHSYSKVDKNGKLCLCY 102 (222)
Q Consensus 29 ~~~~~~~~e~vt~~~iav~~r~------~~~~t~wI~Vv~WGklAE~~aqyLkKGD~V~VsGrL~sr~~~dkdGq~rs~~ 102 (222)
.+++...+..++.|+||++++. ..+.++||+|++||++||.+++||+||++|+|+|+|++++|++++|++++.+
T Consensus 18 e~r~t~~G~~v~~fsvA~~~~~~~~~G~~~~~t~~~~v~~wg~~Ae~~~~~l~KG~~V~V~G~L~~~~~~~kdG~~~~~~ 97 (164)
T TIGR00621 18 ELRYTPSGNAVANFTLATNRRWKDQDGEWKEETEWHDIVIFGRLAEVAAQYLKKGSLVYVEGRLRTRKWEDQNGQKRSKT 97 (164)
T ss_pred EEEECCCCCEEEEEEEEEcCceecCCCCEeccceEEEEEEehHHHHHHHHhCCCCCEEEEEEEEEeceEECCCCcEEEEE
Confidence 3577788889999999998642 2346899999999999999999999999999999999999999999999999
Q ss_pred EEEEeeEEeeecCC
Q 027559 103 KVVVEDFNYVRECG 116 (222)
Q Consensus 103 eVvV~el~Fv~~k~ 116 (222)
+|+|++|.||..+.
T Consensus 98 ev~a~~i~~L~~~~ 111 (164)
T TIGR00621 98 EIIADNVQLLDLLG 111 (164)
T ss_pred EEEEEEEeeccccC
Confidence 99999999998764
No 17
>PRK05853 hypothetical protein; Validated
Probab=99.72 E-value=3e-17 Score=138.09 Aligned_cols=79 Identities=10% Similarity=0.042 Sum_probs=70.1
Q ss_pred eeeeeccceEEeeeeeccceee-------ceeeeeEEEEEechhHHHHHhhcCCCCeEEEEEEeeeccccCCCCceEEEE
Q 027559 30 LENIELNECVTMLDILLLIIHH-------LQCLSSILLAVGGDMAQLCQKHLKPNDFIYVTGQLHSYSKVDKNGKLCLCY 102 (222)
Q Consensus 30 ~~~~~~~e~vt~~~iav~~r~~-------~~~t~wI~Vv~WGklAE~~aqyLkKGD~V~VsGrL~sr~~~dkdGq~rs~~ 102 (222)
++++. +.++++|+||++++.. ...++||+|++||++||.+++||+||++|+|+|+|++++|+|++|++++.+
T Consensus 11 lr~~~-g~~va~F~lAvn~r~~~~~Ge~~d~~T~wi~V~~wg~lAe~v~~~L~KG~~V~V~GrL~~~~wedkdG~~r~~~ 89 (161)
T PRK05853 11 RRKVG-DQEVIKFRVASNSRRRTADGGWEPGNSLFITVNCWGRLVTGVGAALGKGAPVIVVGHVYTSEYEDRDGNRRSSL 89 (161)
T ss_pred EEEEC-CceEEEEEEEECCCeECCCCCEeccCccEEEEEEEhHHHHHHHHHcCCCCEEEEEEEEEccceECCCCCEEEEE
Confidence 45554 5789999999987532 235899999999999999999999999999999999999999999999999
Q ss_pred EEEEeeE
Q 027559 103 KVVVEDF 109 (222)
Q Consensus 103 eVvV~el 109 (222)
+|+|++|
T Consensus 90 eV~a~~V 96 (161)
T PRK05853 90 EMRATSV 96 (161)
T ss_pred EEEEEEe
Confidence 9999976
No 18
>PRK05733 single-stranded DNA-binding protein; Provisional
Probab=99.72 E-value=3.7e-17 Score=138.70 Aligned_cols=88 Identities=16% Similarity=0.211 Sum_probs=78.6
Q ss_pred eeeeeeccceEEeeeeecccee-------eceeeeeEEEEEechhHHHHHhhcCCCCeEEEEEEeeeccccCCCCceEEE
Q 027559 29 KLENIELNECVTMLDILLLIIH-------HLQCLSSILLAVGGDMAQLCQKHLKPNDFIYVTGQLHSYSKVDKNGKLCLC 101 (222)
Q Consensus 29 ~~~~~~~~e~vt~~~iav~~r~-------~~~~t~wI~Vv~WGklAE~~aqyLkKGD~V~VsGrL~sr~~~dkdGq~rs~ 101 (222)
.++++..+..++.|+||+++.. ..+.++||+|++||++||.+++||+||++|+|+|+|++++|+ ++|+.++.
T Consensus 19 Elr~t~nG~~va~fsVAv~~~~k~~~~Ge~~e~T~w~~Vv~fgk~Ae~v~~~l~KGs~V~VeGrLr~~~y~-kdG~~r~~ 97 (172)
T PRK05733 19 EVRYLPNGNAVTNLSLATSEQWTDKQSGQKVERTEWHRVSLFGKVAEIAGEYLRKGSQVYIEGKLQTREWE-KDGIKRYT 97 (172)
T ss_pred EEEECCCCCEEEEEEEEEcCccccCCCCcccccceEEEEEEehHHHHHHHHHhCCCCEEEEEEEEEeCcEe-cCCEEEEE
Confidence 4678888889999999997632 124699999999999999999999999999999999999999 89999999
Q ss_pred EEEEEe---eEEeeecCCC
Q 027559 102 YKVVVE---DFNYVRECGQ 117 (222)
Q Consensus 102 ~eVvV~---el~Fv~~k~~ 117 (222)
++|+|+ +|.||+++.+
T Consensus 98 ~eVvvd~~g~v~~L~~~~~ 116 (172)
T PRK05733 98 TEIVVDMQGTMQLLGGRPQ 116 (172)
T ss_pred EEEEEeecCeEEECcCCCC
Confidence 999999 8999987654
No 19
>PRK06341 single-stranded DNA-binding protein; Provisional
Probab=99.72 E-value=5.6e-17 Score=137.01 Aligned_cols=88 Identities=15% Similarity=0.203 Sum_probs=78.4
Q ss_pred eeeeeeccceEEeeeeeccce-------eeceeeeeEEEEEech-hHHHHHhhcCCCCeEEEEEEeeeccccCCCCceEE
Q 027559 29 KLENIELNECVTMLDILLLII-------HHLQCLSSILLAVGGD-MAQLCQKHLKPNDFIYVTGQLHSYSKVDKNGKLCL 100 (222)
Q Consensus 29 ~~~~~~~~e~vt~~~iav~~r-------~~~~~t~wI~Vv~WGk-lAE~~aqyLkKGD~V~VsGrL~sr~~~dkdGq~rs 100 (222)
.+++.+.+..++.|+||++++ +..++++||+|++|++ +|+.+++||+||++|+|+|+|++++|+|++|++++
T Consensus 19 ElR~t~sG~~v~~fsVAvn~~~kd~~~Ge~~e~T~w~~Vv~fg~~~Ae~~~~~LkKG~~V~VeGrL~~r~w~dkdG~~r~ 98 (166)
T PRK06341 19 EIRRTQDGRPIANLRIATSETWRDRNSGERKEKTEWHRVVIFNEGLCKVAEQYLKKGAKVYIEGQLQTRKWTDQSGVERY 98 (166)
T ss_pred EEEEcCCCCEEEEEEEEEccceecCCCCcccccceEEEEEEeChHHHHHHHHhcCCCCEEEEEEEEEeCcEECCCCCEEE
Confidence 457888889999999999853 1235799999999996 99999999999999999999999999999999999
Q ss_pred EEEEEEee----EEeeecCC
Q 027559 101 CYKVVVED----FNYVRECG 116 (222)
Q Consensus 101 ~~eVvV~e----l~Fv~~k~ 116 (222)
.++|+|++ +.|++++.
T Consensus 99 ~~eIiv~~~~~~l~~l~~~~ 118 (166)
T PRK06341 99 STEVVLQGFNSTLTMLDGRG 118 (166)
T ss_pred EEEEEEEecccceEEcccCC
Confidence 99999986 58998764
No 20
>PRK05813 single-stranded DNA-binding protein; Provisional
Probab=99.71 E-value=6.2e-17 Score=141.91 Aligned_cols=86 Identities=17% Similarity=0.137 Sum_probs=77.1
Q ss_pred eeeeeeccceEEeeeeeccceeeceeeeeEEEEEechhHHHHHhhcCCCCeEEEEEEeeeccccCCCC----ceEEEEEE
Q 027559 29 KLENIELNECVTMLDILLLIIHHLQCLSSILLAVGGDMAQLCQKHLKPNDFIYVTGQLHSYSKVDKNG----KLCLCYKV 104 (222)
Q Consensus 29 ~~~~~~~~e~vt~~~iav~~r~~~~~t~wI~Vv~WGklAE~~aqyLkKGD~V~VsGrL~sr~~~dkdG----q~rs~~eV 104 (222)
.+++.+.+.+++.|+||++++.. .++||+|++||++||.|+ +|+|||+|+|+|+|++++|++++| ++|+.++|
T Consensus 123 elR~t~~G~~va~f~lAvnr~~~--~td~i~~v~wg~~Ae~~~-~l~KG~~V~V~GrL~sr~y~~k~g~~~g~kr~~~eV 199 (219)
T PRK05813 123 VYRTTPFGREIADLLLAVNRPYN--KSDYIPCIAWGRNARFCK-TLEVGDNIRVWGRVQSREYQKKLSEGEVVTKVAYEV 199 (219)
T ss_pred eEEECCCCCEEEEEEEEEcCCCC--CceEEEEEEEhHHhHHHh-hCCCCCEEEEEEEEEecceEcCCCCccceEEEEEEE
Confidence 35788899999999999987654 589999999999999986 699999999999999999998874 89999999
Q ss_pred EEeeEEeeecCCC
Q 027559 105 VVEDFNYVRECGQ 117 (222)
Q Consensus 105 vV~el~Fv~~k~~ 117 (222)
.|++|+|++++..
T Consensus 200 ~v~~i~~l~~~~~ 212 (219)
T PRK05813 200 SISKMEKVEKEEA 212 (219)
T ss_pred EEEEEEEcCChhh
Confidence 9999999987543
No 21
>PRK07772 single-stranded DNA-binding protein; Provisional
Probab=99.69 E-value=1.3e-16 Score=136.99 Aligned_cols=81 Identities=14% Similarity=0.064 Sum_probs=72.2
Q ss_pred eeeeeeccceEEeeeeecccee--------eceeeeeEEEEEechhHHHHHhhcCCCCeEEEEEEeeeccccCCCCceEE
Q 027559 29 KLENIELNECVTMLDILLLIIH--------HLQCLSSILLAVGGDMAQLCQKHLKPNDFIYVTGQLHSYSKVDKNGKLCL 100 (222)
Q Consensus 29 ~~~~~~~~e~vt~~~iav~~r~--------~~~~t~wI~Vv~WGklAE~~aqyLkKGD~V~VsGrL~sr~~~dkdGq~rs 100 (222)
.++++..+.++++|.||++++. .+.+++||+|++|+++||.+++||+|||+|+|+|||++++|+|++|++|+
T Consensus 18 ElR~t~sG~~va~FrVAv~~r~~~~~~g~~~d~~t~fi~V~~Wg~~Ae~va~~L~KGd~V~V~GrL~~r~wedkdG~~rt 97 (186)
T PRK07772 18 ELRFTPSGAAVANFTVASTPRTFDRQTNEWKDGEALFLRCSIWRQAAENVAESLTKGMRVIVTGRLKQRSYETREGEKRT 97 (186)
T ss_pred eEEEcCCCCEEEEEEEEecCcceecCCCcEeccCceEEEEEEecHHHHHHHHhcCCCCEEEEEEEEEcCceECCCCCEEE
Confidence 3577888899999999987541 12368899999999999999999999999999999999999999999999
Q ss_pred EEEEEEeeE
Q 027559 101 CYKVVVEDF 109 (222)
Q Consensus 101 ~~eVvV~el 109 (222)
.++|+|++|
T Consensus 98 ~~eV~a~~V 106 (186)
T PRK07772 98 VVELEVDEI 106 (186)
T ss_pred EEEEEEEEc
Confidence 999999954
No 22
>cd04496 SSB_OBF SSB_OBF: A subfamily of OB folds similar to the OB fold of ssDNA-binding protein (SSB). SSBs bind with high affinity to ssDNA. They bind to and protect ssDNA intermediates during DNA metabolic pathways. All bacterial and eukaryotic SSBs studied to date oligomerize to bring together four OB folds in their active state. The majority (e.g. Escherichia coli SSB) have a single OB fold per monomer, which oligomerize to form a homotetramer. However, Deinococcus and Thermus SSB proteins have two OB folds per monomer, which oligomerize to form a homodimer. Mycobacterium tuberculosis SSB varies in quaternary structure from E. coli SSB. It forms a dimer of dimers having a unique dimer interface, which lends the protein greater stability. Included in this group are OB folds similar to Escherichia coli PriB. E.coli PriB is homodimeric with each monomer having a single OB fold. It does not appear to form higher order oligomers. PriB is an essential protein for the replication restart
Probab=99.68 E-value=5.4e-16 Score=115.62 Aligned_cols=83 Identities=23% Similarity=0.273 Sum_probs=76.0
Q ss_pred eeeeeccceEEeeeeeccceee-----ceeeeeEEEEEechhHHHHHhhcCCCCeEEEEEEeeeccccCCCCceEEEEEE
Q 027559 30 LENIELNECVTMLDILLLIIHH-----LQCLSSILLAVGGDMAQLCQKHLKPNDFIYVTGQLHSYSKVDKNGKLCLCYKV 104 (222)
Q Consensus 30 ~~~~~~~e~vt~~~iav~~r~~-----~~~t~wI~Vv~WGklAE~~aqyLkKGD~V~VsGrL~sr~~~dkdGq~rs~~eV 104 (222)
+++.+.+.+++.|.+++.+... ...++||+|++||++|+.+++||+|||+|+|+|+|+++.|++++|+.++.++|
T Consensus 13 ~~~~~~g~~~~~~~v~~~~~~~~~~~~~~~~~~~~v~~~g~~a~~~~~~~~kG~~V~v~G~l~~~~~~~~~g~~~~~~~i 92 (100)
T cd04496 13 LRYTPSGTPVARFSLAVNRRRKDRDEEEEETDWIRVVAFGKLAENAAKYLKKGDLVYVEGRLRTRSWEDKDGQKRYGTEV 92 (100)
T ss_pred EEECCCCCEEEEEEEEEcCceecccccccccEEEEEEEEhHHHHHHHHHhCCCCEEEEEEEEEeceeECCCCCEEEEEEE
Confidence 4666778899999998888653 57899999999999999999999999999999999999999999999999999
Q ss_pred EEeeEEee
Q 027559 105 VVEDFNYV 112 (222)
Q Consensus 105 vV~el~Fv 112 (222)
.|++|.++
T Consensus 93 ~~~~i~~~ 100 (100)
T cd04496 93 VADRIEFL 100 (100)
T ss_pred EEEEEEEC
Confidence 99999874
No 23
>COG0629 Ssb Single-stranded DNA-binding protein [DNA replication, recombination, and repair]
Probab=99.67 E-value=1.9e-16 Score=132.23 Aligned_cols=88 Identities=16% Similarity=0.197 Sum_probs=70.5
Q ss_pred eeeee-ccceEEeeeeeccce------eeceeeeeEEEEEechhHHHHHhhcCCCCeEEEEEEeeeccccCCCCceEEEE
Q 027559 30 LENIE-LNECVTMLDILLLII------HHLQCLSSILLAVGGDMAQLCQKHLKPNDFIYVTGQLHSYSKVDKNGKLCLCY 102 (222)
Q Consensus 30 ~~~~~-~~e~vt~~~iav~~r------~~~~~t~wI~Vv~WGklAE~~aqyLkKGD~V~VsGrL~sr~~~dkdGq~rs~~ 102 (222)
+++.. ++..++.+.+++.++ +....++||+|++||++||++++||+||++|+|+|+|+++.|++++|++||.+
T Consensus 18 ~r~t~~g~~~v~~~~~a~~r~~~~~~~~~~~~t~~~~vv~wgk~Ae~~~~yl~KG~~V~VeG~l~~~~~~~~~G~~r~~~ 97 (167)
T COG0629 18 LRYTPNGGAVVALFSAAVNRRFDNQSGERDEETDWIRVVIWGKLAENAAEYLKKGSLVYVEGRLQTRKWEDQEGQKRYQT 97 (167)
T ss_pred eeecCCCCeeeEEEEEEeccccccCCcccccccceEEEEEehHHHHHHHHHhcCCCEEEEEEEEEeeeeecCCCcceeeE
Confidence 46666 556667776666664 24446799999999999999999999999999999999999999999555554
Q ss_pred ----EEEEeeEEeeecCCC
Q 027559 103 ----KVVVEDFNYVRECGQ 117 (222)
Q Consensus 103 ----eVvV~el~Fv~~k~~ 117 (222)
++++..++|+++++.
T Consensus 98 ~~~~~~v~~~~~~l~~~~~ 116 (167)
T COG0629 98 EIVTEIVADSVQMLGSRKS 116 (167)
T ss_pred EEEEEEeehhhhhccCccc
Confidence 557777888887654
No 24
>PRK02801 primosomal replication protein N; Provisional
Probab=99.63 E-value=3.3e-15 Score=116.21 Aligned_cols=82 Identities=15% Similarity=0.096 Sum_probs=70.2
Q ss_pred eeeeeeeccceEEeeeeeccceeec-----eeeeeEEEEEechhHHHHHhhcCCCCeEEEEEEeeeccccCCCCceEEEE
Q 027559 28 IKLENIELNECVTMLDILLLIIHHL-----QCLSSILLAVGGDMAQLCQKHLKPNDFIYVTGQLHSYSKVDKNGKLCLCY 102 (222)
Q Consensus 28 ~~~~~~~~~e~vt~~~iav~~r~~~-----~~t~wI~Vv~WGklAE~~aqyLkKGD~V~VsGrL~sr~~~dkdGq~rs~~ 102 (222)
-.+++.+.+..++.|.||+.+.... +.++||+|++||++||.+++||+||++|.|+|+|++ |++++|++++.
T Consensus 15 pelr~Tp~G~~v~~f~La~~~~~~ea~~~r~~~~~i~~va~G~~Ae~~~~~l~kGs~v~V~G~L~~--~~~~~g~~~~~- 91 (101)
T PRK02801 15 PKRKVSPSGIPHCQFVLEHRSVQEEAGLHRQAWCRMPVIVSGNQFQAITQSITVGSKITVQGFISC--HQGRNGLSKLV- 91 (101)
T ss_pred cceEECCCCCeEEEEEEEEeCeEecCCCceeEEEEEEEEEEcHHHHHHHhhcCCCCEEEEEEEEEE--eECCCCCEEEE-
Confidence 3578889999999999999653221 234889999999999999999999999999999998 58899999966
Q ss_pred EEEEeeEEeee
Q 027559 103 KVVVEDFNYVR 113 (222)
Q Consensus 103 eVvV~el~Fv~ 113 (222)
|++++|+|+.
T Consensus 92 -v~~~~i~~l~ 101 (101)
T PRK02801 92 -LHAEQIELID 101 (101)
T ss_pred -EEEEEEEECC
Confidence 9999999973
No 25
>PRK05813 single-stranded DNA-binding protein; Provisional
Probab=99.49 E-value=1.5e-13 Score=120.61 Aligned_cols=82 Identities=18% Similarity=0.177 Sum_probs=74.1
Q ss_pred eeeeeccceEEeeeeeccceeeceeeeeEEEEEechhHHHHHhhcCCCCeEEEEEEeeeccccCC-CCceEEEEEEEEee
Q 027559 30 LENIELNECVTMLDILLLIIHHLQCLSSILLAVGGDMAQLCQKHLKPNDFIYVTGQLHSYSKVDK-NGKLCLCYKVVVED 108 (222)
Q Consensus 30 ~~~~~~~e~vt~~~iav~~r~~~~~t~wI~Vv~WGklAE~~aqyLkKGD~V~VsGrL~sr~~~dk-dGq~rs~~eVvV~e 108 (222)
+++-..++.++.|+|||++ -+..+|||||++|+++||+|. |+||+.|+|+|+|+ +|++. +|++|+.++|+|++
T Consensus 23 ~~~~~~G~~~~~f~laV~R--~s~~~D~i~v~v~~rlae~~~--l~kG~~v~VeGqlr--sy~~~~~G~~R~vl~V~a~~ 96 (219)
T PRK05813 23 FSHEMYGEGFYNFKLEVPR--LSDSKDILPVTVSERLLAGMD--LKVGTLVIVEGQLR--SYNKFIDGKNRLILTVFARN 96 (219)
T ss_pred EEEEeCCeEEEEEEEEeec--cCCCccEEEEEEEhhhhhhhc--ccCCCEEEEEEEEE--EeccCCCCcEEEEEEEEEEE
Confidence 3556689999999999999 448999999999999999999 99999999999999 77766 79999999999999
Q ss_pred EEeeecCCC
Q 027559 109 FNYVRECGQ 117 (222)
Q Consensus 109 l~Fv~~k~~ 117 (222)
|+|+++++.
T Consensus 97 i~~l~~~~~ 105 (219)
T PRK05813 97 IEYCDERSD 105 (219)
T ss_pred EEEccCCCc
Confidence 999998753
No 26
>KOG1653 consensus Single-stranded DNA-binding protein [Replication, recombination and repair]
Probab=98.85 E-value=6.4e-09 Score=88.36 Aligned_cols=85 Identities=18% Similarity=0.180 Sum_probs=70.5
Q ss_pred eeeeccceEEeeeeeccce---------eeceeeeeEEEEEec-hhHHHHHhhcCCCCeEEEEEEeeecccc-CCCCce-
Q 027559 31 ENIELNECVTMLDILLLII---------HHLQCLSSILLAVGG-DMAQLCQKHLKPNDFIYVTGQLHSYSKV-DKNGKL- 98 (222)
Q Consensus 31 ~~~~~~e~vt~~~iav~~r---------~~~~~t~wI~Vv~WG-klAE~~aqyLkKGD~V~VsGrL~sr~~~-dkdGq~- 98 (222)
+.+..+..|+.|+++++.- .-...+.||.|.+++ .||+.+.+||+||..|||+|+|.++-+. |+.|+.
T Consensus 71 k~~rngrpVtiFsv~T~~~~k~r~~q~g~~~~~tqWHRVsVf~~~L~d~~~k~lkKGsriyveG~iey~g~~~d~~g~~~ 150 (175)
T KOG1653|consen 71 KILRNGRPVTIFSVGTGGMFKQRLYQAGDQPQPTQWHRVSVFNEVLADYALKYLKKGSRIYVEGKIEYRGENDDIQGNVK 150 (175)
T ss_pred HhhcCCCeEEEEEeecCccccccccccCCcCCcceeEEEEeeCchHHHHHHHHhcCCCEEEEeeeEEeeeeeccccCcee
Confidence 3456678899999876653 346789999999999 8999999999999999999999996665 678887
Q ss_pred EEEEEEEEeeEEeeecC
Q 027559 99 CLCYKVVVEDFNYVREC 115 (222)
Q Consensus 99 rs~~eVvV~el~Fv~~k 115 (222)
+..+-|++++|.|+...
T Consensus 151 r~~t~iIa~~v~Fl~~a 167 (175)
T KOG1653|consen 151 RIPTIIIARDVSFLIDA 167 (175)
T ss_pred ecceEEEechhHHHHHH
Confidence 66677788999998753
No 27
>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=96.71 E-value=0.025 Score=39.36 Aligned_cols=49 Identities=20% Similarity=0.378 Sum_probs=39.7
Q ss_pred eeEEEEEechhHHHHHhhcCCCCeEEEEEEeeeccccCCCCceEEEEEEEEeeEEee
Q 027559 56 SSILLAVGGDMAQLCQKHLKPNDFIYVTGQLHSYSKVDKNGKLCLCYKVVVEDFNYV 112 (222)
Q Consensus 56 ~wI~Vv~WGklAE~~aqyLkKGD~V~VsGrL~sr~~~dkdGq~rs~~eVvV~el~Fv 112 (222)
.-|.|++|++.++...+.|+.|+.|.|.|+++.+ ++| .++|.+++++.|
T Consensus 27 g~i~~~~~~~~~~~~~~~l~~g~~v~v~G~v~~~----~~~----~~~l~~~~i~~l 75 (75)
T PF01336_consen 27 GSIQVVFFNEEYERFREKLKEGDIVRVRGKVKRY----NGG----ELELIVPKIEIL 75 (75)
T ss_dssp EEEEEEEETHHHHHHHHTS-TTSEEEEEEEEEEE----TTS----SEEEEEEEEEEE
T ss_pred ccEEEEEccHHhhHHhhcCCCCeEEEEEEEEEEE----CCc----cEEEEECEEEEC
Confidence 5678999998889999999999999999999986 233 477888877654
No 28
>cd04487 RecJ_OBF2_like RecJ_OBF2_like: A subfamily of OB folds corresponding to the second OB fold (OBF2) of archaeal-specific proteins with similarity to eubacterial RecJ. RecJ is an ssDNA-specific exonuclease. Although the overall sequence similarity of these proteins to eubacterial RecJ proteins is marginal, they appear to carry motifs, which have been shown to be essential for nuclease function in Escherichia coli RecJ. In addition to this OB fold, most proteins in this subfamily contain: i) an N-terminal OB fold belonging to a different domain family (the ribosomal S1-like RNA-binding family); and ii) a domain, C-terminal to OBF2, characteristic of DHH family proteins. DHH family proteins include E. coli RecJ, and are predicted to have a phosphoesterase function.
Probab=95.82 E-value=0.019 Score=42.29 Aligned_cols=47 Identities=15% Similarity=0.204 Sum_probs=37.7
Q ss_pred eEEEEEechhHHHHHhhcCCCCeEEEEEEeeeccccCCCCceEEEEEEEEeeEEee
Q 027559 57 SILLAVGGDMAQLCQKHLKPNDFIYVTGQLHSYSKVDKNGKLCLCYKVVVEDFNYV 112 (222)
Q Consensus 57 wI~Vv~WGklAE~~aqyLkKGD~V~VsGrL~sr~~~dkdGq~rs~~eVvV~el~Fv 112 (222)
-|+|++|...+..+...++.||.|.|.|++.. + +..+++.|++++.+
T Consensus 27 ~i~cv~f~~~~~~~~~~l~~Gd~V~v~G~v~~-----~----~G~~ql~v~~i~~~ 73 (73)
T cd04487 27 TVWAAAFEEAGVRAYPEVEVGDIVRVTGEVEP-----R----DGQLQIEVESLEVL 73 (73)
T ss_pred EEEEEEEchhccCCcCCCCCCCEEEEEEEEec-----C----CeEEEEEEeeEEEC
Confidence 47999999988667778999999999999874 2 34488888887653
No 29
>cd04489 ExoVII_LU_OBF ExoVII_LU_OBF: A subfamily of OB folds corresponding to the N-terminal OB-fold domain of Escherichia coli exodeoxyribonuclease VII (ExoVII) large subunit. E. coli ExoVII is composed of two non-identical subunits. E. coli ExoVII is a single-strand-specific exonuclease which degrades ssDNA from both 3-prime and 5-prime ends. ExoVII plays a role in methyl-directed mismatch repair in vivo. ExoVII may also guard the genome from mutagenesis by removing excess ssDNA, since the build up of ssDNA would lead to SOS induction and PolIV-dependent mutagenesis.
Probab=95.36 E-value=0.054 Score=38.62 Aligned_cols=48 Identities=23% Similarity=0.283 Sum_probs=38.8
Q ss_pred eeEEEEEechhHHHHHhhcCCCCeEEEEEEeeeccccCCCCceEEEEEEEEeeEE
Q 027559 56 SSILLAVGGDMAQLCQKHLKPNDFIYVTGQLHSYSKVDKNGKLCLCYKVVVEDFN 110 (222)
Q Consensus 56 ~wI~Vv~WGklAE~~aqyLkKGD~V~VsGrL~sr~~~dkdGq~rs~~eVvV~el~ 110 (222)
--|.|++|.+..+.+...|+.|+.|.|.|++..+.+. | .+++.|+++.
T Consensus 28 ~~i~~~~f~~~~~~~~~~l~~g~~v~v~g~v~~~~~~---~----~~~l~v~~i~ 75 (78)
T cd04489 28 ASIRCVMWRSNARRLGFPLEEGMEVLVRGKVSFYEPR---G----GYQLIVEEIE 75 (78)
T ss_pred eEEEEEEEcchhhhCCCCCCCCCEEEEEEEEEEECCC---C----EEEEEEEEEE
Confidence 3478999999999999999999999999999976442 2 2667777664
No 30
>cd03524 RPA2_OBF_family RPA2_OBF_family: A family of oligonucleotide binding (OB) folds with similarity to the OB fold of the single strand (ss) DNA-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). RPA contains six OB folds, which are involved in ssDNA binding and in trimerization. The ssDNA binding mechanism is believed to be multistep and to involve conformational change. This family also includes OB folds similar to those found in Escherichia coli SSB, the wedge domain of E. coli RecG (a branched-DNA-specific helicase), E. coli ssDNA specific exodeoxyribonuclease VII large subunit, Pyroco
Probab=95.10 E-value=0.13 Score=34.26 Aligned_cols=34 Identities=21% Similarity=0.521 Sum_probs=30.9
Q ss_pred eeEEEEEechhHHHHHhhcCCCCeEEEEEEeeec
Q 027559 56 SSILLAVGGDMAQLCQKHLKPNDFIYVTGQLHSY 89 (222)
Q Consensus 56 ~wI~Vv~WGklAE~~aqyLkKGD~V~VsGrL~sr 89 (222)
..|.|++|.+..+.+..+++.|+.|.|.|++..+
T Consensus 29 ~~i~~~~~~~~~~~~~~~~~~g~~v~v~g~v~~~ 62 (75)
T cd03524 29 GTIRVTLFGELAEELENLLKEGQVVYIKGKVKKF 62 (75)
T ss_pred CEEEEEEEchHHHHHHhhccCCCEEEEEEEEEec
Confidence 5779999999999988999999999999999764
No 31
>cd04482 RPA2_OBF_like RPA2_OBF_like: A subgroup of uncharacterized archaeal OB folds with similarity 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 depende
Probab=93.72 E-value=0.14 Score=38.97 Aligned_cols=46 Identities=20% Similarity=0.184 Sum_probs=37.3
Q ss_pred eeEEEEEechh--HHHHHhhcCCCCeEEEEEEeeeccccCCCCceEEEEEEEEeeEEeee
Q 027559 56 SSILLAVGGDM--AQLCQKHLKPNDFIYVTGQLHSYSKVDKNGKLCLCYKVVVEDFNYVR 113 (222)
Q Consensus 56 ~wI~Vv~WGkl--AE~~aqyLkKGD~V~VsGrL~sr~~~dkdGq~rs~~eVvV~el~Fv~ 113 (222)
.-|+|++|... +..+..-|+.||.|.|.|++..+. ++.|+.++.+.
T Consensus 28 ~~i~cv~f~~~g~~~~~~~~l~~Gd~V~v~G~v~~y~------------ql~ve~l~~~g 75 (91)
T cd04482 28 GEIDCAAYEPTKEFRDVVRLLIPGDEVTVYGSVRPGT------------TLNLEKLRVIR 75 (91)
T ss_pred cEEEEEEECcccccccccCCCCCCCEEEEEEEEecCC------------EEEEEEEEECC
Confidence 46789999987 667778899999999999987654 57778777654
No 32
>PF13742 tRNA_anti_2: OB-fold nucleic acid binding domain
Probab=93.03 E-value=0.32 Score=37.47 Aligned_cols=48 Identities=27% Similarity=0.380 Sum_probs=39.3
Q ss_pred eeEEEEEechhHHHHH-hhcCCCCeEEEEEEeeeccccCCCCceEEEEEEEEeeEE
Q 027559 56 SSILLAVGGDMAQLCQ-KHLKPNDFIYVTGQLHSYSKVDKNGKLCLCYKVVVEDFN 110 (222)
Q Consensus 56 ~wI~Vv~WGklAE~~a-qyLkKGD~V~VsGrL~sr~~~dkdGq~rs~~eVvV~el~ 110 (222)
--|+|++|...+..+. .-++.|+.|.|.|++..+.. .|+ +++.|.+++
T Consensus 50 a~i~~~~~~~~~~~i~~~~l~~G~~V~v~g~~~~y~~---~G~----~sl~v~~i~ 98 (99)
T PF13742_consen 50 ASISCVIFRSRARRIRGFDLKDGDKVLVRGRVSFYEP---RGS----LSLIVEDID 98 (99)
T ss_pred cEEEEEEEHHHHhhCCCCCCCCCCEEEEEEEEEEECC---CcE----EEEEEEEeE
Confidence 5679999999999998 89999999999999998753 453 566666653
No 33
>cd04492 YhaM_OBF_like YhaM_OBF_like: A subfamily of OB folds similar to that found in Bacillus subtilis YhaM and Staphylococcus aureus cmp-binding factor-1 (SaCBF1). Both these proteins are 3'-to-5'exoribonucleases. YhaM requires Mn2+ or Co2+ for activity and is inactive in the presence of Mg2+. YhaM also has a Mn2+ dependent 3'-to-5'single-stranded DNA exonuclease activity. SaCBF is also a double-stranded DNA binding protein, binding specifically to cmp, the replication enhancer found in S. aureus plasmid pT181. Proteins in this group combine an N-terminal OB fold with a C-terminal HD domain. The HD domain is found in metal-dependent phosphohydrolases.
Probab=92.24 E-value=1.2 Score=31.44 Aligned_cols=49 Identities=20% Similarity=0.373 Sum_probs=36.1
Q ss_pred eEEEEEechhHHHHHhhcCCCCeEEEEEEeeeccccCCCCceEEEEEEEEeeEEeeecC
Q 027559 57 SILLAVGGDMAQLCQKHLKPNDFIYVTGQLHSYSKVDKNGKLCLCYKVVVEDFNYVREC 115 (222)
Q Consensus 57 wI~Vv~WGklAE~~aqyLkKGD~V~VsGrL~sr~~~dkdGq~rs~~eVvV~el~Fv~~k 115 (222)
-|.|.+|++.-+. ...++.|..|.|.|++..+ +| ..++.+.++.-+...
T Consensus 31 ~i~~~~f~~~~~~-~~~l~~g~~v~v~G~v~~~-----~~----~~~l~~~~i~~l~~~ 79 (83)
T cd04492 31 EIEAKLWDASEED-EEKFKPGDIVHVKGRVEEY-----RG----RLQLKIQRIRLVTEE 79 (83)
T ss_pred eEEEEEcCCChhh-HhhCCCCCEEEEEEEEEEe-----CC----ceeEEEEEEEECCcc
Confidence 4789999965544 6789999999999999642 23 256777787766643
No 34
>PRK00036 primosomal replication protein N; Reviewed
Probab=91.74 E-value=0.66 Score=37.20 Aligned_cols=79 Identities=14% Similarity=0.062 Sum_probs=55.6
Q ss_pred eeeeeeccceEEeeeeeccce-----eeceeeeeEEEEEechhHHHHHhhcCCCCeEEEEEEeeeccccCCCCceEEEEE
Q 027559 29 KLENIELNECVTMLDILLLII-----HHLQCLSSILLAVGGDMAQLCQKHLKPNDFIYVTGQLHSYSKVDKNGKLCLCYK 103 (222)
Q Consensus 29 ~~~~~~~~e~vt~~~iav~~r-----~~~~~t~wI~Vv~WGklAE~~aqyLkKGD~V~VsGrL~sr~~~dkdGq~rs~~e 103 (222)
+++|.+.+-..+.|-+.=... ....-.+-|++++-|++|+...+ ++.|..|.|+|.|.. ..+|..+ .-
T Consensus 15 ~lryTPAGIp~~~~~LeH~S~q~EAG~~Rqv~~~i~ava~G~~a~~~~~-l~~Gs~v~v~GFLa~----~~~~~~~--LV 87 (107)
T PRK00036 15 AMRHTPAGLPALELLLVHESEVVEAGHPRRVELTISAVALGDLALLLAD-TPLGTEMQVQGFLAP----ARKDSVK--VK 87 (107)
T ss_pred ccccCCCCCceEEEEEEEeEEeEeCCCcceEEEEEEEEEEhhHHHHhcc-cCCCCEEEEEEEEEE----CCCCCCc--EE
Confidence 456666666666665411111 12223577899999999999986 999999999999997 2355544 66
Q ss_pred EEEeeEEeeec
Q 027559 104 VVVEDFNYVRE 114 (222)
Q Consensus 104 VvV~el~Fv~~ 114 (222)
..+++++++.+
T Consensus 88 LHi~~Ie~i~~ 98 (107)
T PRK00036 88 LHLQQARRIAG 98 (107)
T ss_pred EEhHHeEEccc
Confidence 67899999954
No 35
>COG3390 Uncharacterized protein conserved in archaea [Function unknown]
Probab=91.27 E-value=0.28 Score=43.14 Aligned_cols=94 Identities=15% Similarity=0.181 Sum_probs=65.7
Q ss_pred hHHHHHHHHhhhhhheeeeeeeec------cceEEeeeeeccceeeceeeeeEEEEEechhHHHHHhhcCCCCeEEEEEE
Q 027559 12 MFNLLLTLLGISIRLLIKLENIEL------NECVTMLDILLLIIHHLQCLSSILLAVGGDMAQLCQKHLKPNDFIYVTGQ 85 (222)
Q Consensus 12 ~~~~~~~~~~~~i~~~~~~~~~~~------~e~vt~~~iav~~r~~~~~t~wI~Vv~WGklAE~~aqyLkKGD~V~VsGr 85 (222)
-=|.|||=||+.||+.+=+-.+-. +..+.++. -.|+..+||+=.--+..=|..+.+-+.++|.|.|.|+
T Consensus 33 sp~yliTPlG~k~nRifivGtltek~~i~ed~~~~R~r-----VvDpTGsF~Vyag~yqPEa~a~l~~ve~~~~VaViGK 107 (196)
T COG3390 33 SPNYLITPLGLKVNRIFIVGTLTEKEGIGEDREYWRIR-----VVDPTGSFYVYAGQYQPEAKAFLEDVEVPDLVAVIGK 107 (196)
T ss_pred CCcEEechhhhheeEEEEEEEEEeccCcCCcccEEEEE-----EecCCceEEEEcCCCChHHHHHHHhccCCceEEEecc
Confidence 458999999999999876544321 12233332 2466777776444566778889999999999999999
Q ss_pred eeeccccCCCCceEEEEEEEEeeEEeeec
Q 027559 86 LHSYSKVDKNGKLCLCYKVVVEDFNYVRE 114 (222)
Q Consensus 86 L~sr~~~dkdGq~rs~~eVvV~el~Fv~~ 114 (222)
+.++ ++.+|. +.+.|.++.++-++.
T Consensus 108 i~~y--~~d~g~--~~~siRpE~vs~vde 132 (196)
T COG3390 108 IRTY--RTDEGV--VLFSIRPELVSKVDE 132 (196)
T ss_pred ccee--ecCCCc--eEEEechhhhhhcCH
Confidence 8864 455677 346666777776654
No 36
>cd04475 RPA1_DBD_B RPA1_DBD_B: A subfamily of OB folds corresponding to the third OB fold, the ssDNA-binding domain (DBD)-B, of human RPA1 (also called RPA70). RPA1 is the large 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). In addition to DBD-B, RPA1 contains three other OB folds: DBD-A, DBD-C, and RPA1N. The major DNA binding activity of human RPA (hRPA) and Saccharomyces cerevisiae RPA (ScRPA) is associated with RPA1 DBD-A and DBD-B. RPA1 DBD-C is involved in trimerization. The ssDNA binding mechanism is believed to be multistep and to involve conformational change. Although ScRPA and the hRPA have similar ssDNA-binding properties, they differ functiona
Probab=87.53 E-value=0.85 Score=34.44 Aligned_cols=32 Identities=25% Similarity=0.298 Sum_probs=25.8
Q ss_pred eEEEEEechhHHHHHhhcCCCCeEEEEEEeeeccc
Q 027559 57 SILLAVGGDMAQLCQKHLKPNDFIYVTGQLHSYSK 91 (222)
Q Consensus 57 wI~Vv~WGklAE~~aqyLkKGD~V~VsGrL~sr~~ 91 (222)
-|.|++||+.|+.+.... |+.|.+.| ++...|
T Consensus 40 ~i~vtLWg~~a~~~~~~~--~~vv~~~~-~~i~~~ 71 (101)
T cd04475 40 SVELTLWGEQAELFDGSE--NPVIAIKG-VKVSEF 71 (101)
T ss_pred EEEEEEEHHHhhhcccCC--CCEEEEEe-eEEEec
Confidence 568999999999988765 99999988 444455
No 37
>COG2965 PriB Primosomal replication protein N [DNA replication, recombination, and repair]
Probab=86.69 E-value=3 Score=33.39 Aligned_cols=84 Identities=12% Similarity=0.086 Sum_probs=59.8
Q ss_pred heeeeeeeeccceEEeeeeeccce-----eeceeeeeEEEEEechhHHHHHhhcCCCCeEEEEEEeeeccccCCCCceEE
Q 027559 26 LLIKLENIELNECVTMLDILLLII-----HHLQCLSSILLAVGGDMAQLCQKHLKPNDFIYVTGQLHSYSKVDKNGKLCL 100 (222)
Q Consensus 26 ~~~~~~~~~~~e~vt~~~iav~~r-----~~~~~t~wI~Vv~WGklAE~~aqyLkKGD~V~VsGrL~sr~~~dkdGq~rs 100 (222)
...++++.+.+-..+.|-+--... ..-.-++-||+.+=|+.|+..-+.+..|..|.|+|.|...+- .+|- .
T Consensus 15 k~~~r~~sPsGIphc~f~Lehrs~q~Eag~~RQv~~~mpv~vsG~qa~~lt~~i~~Gs~i~v~GFla~~~~--~sg~--~ 90 (103)
T COG2965 15 KVPVRRYSPSGIPHCQFVLEHRSWQEEAGFQRQVWCEMPVRVSGRQAEELTQSITVGSYILVVGFLACHKR--RSGL--S 90 (103)
T ss_pred ccceeeeCCCCCeeEEEEEeecchhhhCCcceeEEEEccEEeechhhhhhhhccccccEEEEEEEEEeecc--cCCc--c
Confidence 344567777777777664421111 123345668899999999999999999999999999987653 3454 3
Q ss_pred EEEEEEeeEEeee
Q 027559 101 CYKVVVEDFNYVR 113 (222)
Q Consensus 101 ~~eVvV~el~Fv~ 113 (222)
..-+.+.++.|++
T Consensus 91 ~lvlha~qi~~id 103 (103)
T COG2965 91 KLVLHAEQIEFID 103 (103)
T ss_pred EEEEEeeEEEecC
Confidence 4777888888864
No 38
>PRK00286 xseA exodeoxyribonuclease VII large subunit; Reviewed
Probab=86.47 E-value=1.1 Score=42.58 Aligned_cols=52 Identities=17% Similarity=0.261 Sum_probs=42.2
Q ss_pred eeeEEEEEechhHHHHHhhcCCCCeEEEEEEeeeccccCCCCceEEEEEEEEeeEEeee
Q 027559 55 LSSILLAVGGDMAQLCQKHLKPNDFIYVTGQLHSYSKVDKNGKLCLCYKVVVEDFNYVR 113 (222)
Q Consensus 55 t~wI~Vv~WGklAE~~aqyLkKGD~V~VsGrL~sr~~~dkdGq~rs~~eVvV~el~Fv~ 113 (222)
..-|.|++|...+..+...++.|+.|.|.|++..+. +.|. ++++|+++.-.+
T Consensus 51 ~a~i~~~~~~~~~~~~~~~~~~G~~v~v~g~~~~y~---~~g~----~ql~v~~i~~~g 102 (438)
T PRK00286 51 IAQIRCVMFKGSARRLKFKPEEGMKVLVRGKVSLYE---PRGD----YQLIVEEIEPAG 102 (438)
T ss_pred CcEEEEEEEcChhhcCCCCCCCCCEEEEEEEEEEEC---CCCC----EEEEEEEeeeCC
Confidence 456899999999988888899999999999999864 3444 778888887543
No 39
>cd04485 DnaE_OBF DnaE_OBF: A subfamily of OB folds corresponding to the C-terminal OB-fold nucleic acid binding domain of Thermus aquaticus and Escherichia coli type C replicative DNA polymerase III alpha subunit (DnaE). The DNA polymerase holoenzyme of E. coli contains two copies of this replicative polymerase, each of which copies a different DNA strand. This group also contains Bacillus subtilis DnaE. Replication in B. subtilis and Staphylococcus aureus requires two different type C polymerases, polC and DnaE, both of which are thought to be included in the DNA polymerase holoenzyme. At the B. subtilis replication fork, polC appears to be involved in leading strand synthesis and DnaE in lagging strand synthesis.
Probab=86.28 E-value=5.2 Score=27.58 Aligned_cols=32 Identities=22% Similarity=0.291 Sum_probs=27.4
Q ss_pred eEEEEEechhHHHHHhhcCCCCeEEEEEEeee
Q 027559 57 SILLAVGGDMAQLCQKHLKPNDFIYVTGQLHS 88 (222)
Q Consensus 57 wI~Vv~WGklAE~~aqyLkKGD~V~VsGrL~s 88 (222)
-+.|++|.+.-+.+.+.+++|..|.|.|++..
T Consensus 31 ~~~~~~f~~~~~~~~~~l~~g~~v~v~G~v~~ 62 (84)
T cd04485 31 SIEVVVFPETYEKYRDLLKEDALLLVEGKVER 62 (84)
T ss_pred eEEEEECHHHHHHHHHHhcCCCEEEEEEEEEe
Confidence 36899998775566889999999999999975
No 40
>TIGR00237 xseA exodeoxyribonuclease VII, large subunit. This family consist of exodeoxyribonuclease VII, large subunit XseA which catalyses exonucleolytic cleavage in either the 5'-3' or 3'-5' direction to yield 5'-phosphomononucleotides. Exonuclease VII consists of one large subunit and four small subunits.
Probab=86.04 E-value=1.1 Score=42.99 Aligned_cols=52 Identities=10% Similarity=0.146 Sum_probs=42.8
Q ss_pred eeeeEEEEEechhHHHHHhhcCCCCeEEEEEEeeeccccCCCCceEEEEEEEEeeEEee
Q 027559 54 CLSSILLAVGGDMAQLCQKHLKPNDFIYVTGQLHSYSKVDKNGKLCLCYKVVVEDFNYV 112 (222)
Q Consensus 54 ~t~wI~Vv~WGklAE~~aqyLkKGD~V~VsGrL~sr~~~dkdGq~rs~~eVvV~el~Fv 112 (222)
+.--|+|+||...|..+.-.++-|+.|.|.|++..+.. .|. |+++|++++-.
T Consensus 44 ~~a~i~~vmf~~~~~~l~f~~~~G~~V~v~g~v~~y~~---~G~----~ql~v~~i~~~ 95 (432)
T TIGR00237 44 ENAQVRCVMFRGNNNRLKFRPQNGQQVLVRGGISVYEP---RGD----YQIICFEMQPA 95 (432)
T ss_pred CCcEEEEEEEcChhhCCCCCCCCCCEEEEEEEEEEECC---CCc----EEEEEEEeccC
Confidence 34568999999999888888999999999999998753 344 88888888754
No 41
>cd04474 RPA1_DBD_A RPA1_DBD_A: A subfamily of OB folds corresponding to the second OB fold, the ssDNA-binding domain (DBD)-A, of human RPA1 (also called RPA70). RPA1 is the large 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). In addition to DBD-A, RPA1 contains three other OB folds: DBD-B, DBD-C, and RPA1N. The major DNA binding activity of human RPA (hRPA) and Saccharomyces cerevisiae RPA (ScRPA) is associated with DBD-A and DBD-B of RPA1. RPA1 DBD-C is involved in trimerization. The ssDNA-binding mechanism is believed to be multistep and to involve conformational change. Although ScRPA and the hRPA have similar ssDNA-binding properties, they differ funct
Probab=85.45 E-value=1 Score=34.68 Aligned_cols=34 Identities=12% Similarity=-0.013 Sum_probs=30.1
Q ss_pred eeeeEEEEEechhHHHHHhhcCCCCeEEEEEEee
Q 027559 54 CLSSILLAVGGDMAQLCQKHLKPNDFIYVTGQLH 87 (222)
Q Consensus 54 ~t~wI~Vv~WGklAE~~aqyLkKGD~V~VsGrL~ 87 (222)
...-|.+++|++.|+.+...|+.|+.++|+|-..
T Consensus 45 ~~~~I~~t~~~~~~~~f~~~l~eG~vy~i~~~~V 78 (104)
T cd04474 45 DGGEIRATFFNDAVDKFYDLLEVGKVYYISKGSV 78 (104)
T ss_pred CCCEEEEEEehHHHHHhhcccccccEEEEeccEE
Confidence 4567899999999999999999999999998443
No 42
>cd04490 PolII_SU_OBF PolII_SU_OBF: A subfamily of OB folds corresponding to the OB fold found in Pyrococcus abyssi DNA polymerase II (PolII) small subunit. PolII is a family D DNA polymerase, having a 3-prime to 5-prime exonuclease activity. P. abyssi PolII is heterodimeric. The large subunit appears to be the polymerase, and the small subunit may be the exonuclease. The small subunit contains a calcineurin-like phosphatase superfamily domain C-terminal to this OB-fold domain.
Probab=85.43 E-value=3.7 Score=30.44 Aligned_cols=44 Identities=16% Similarity=0.305 Sum_probs=34.8
Q ss_pred eEEEEEechhHH--HHHhhcCCCCeEEEEEEeeeccccCCCCceEEEEEEEEeeEEe
Q 027559 57 SILLAVGGDMAQ--LCQKHLKPNDFIYVTGQLHSYSKVDKNGKLCLCYKVVVEDFNY 111 (222)
Q Consensus 57 wI~Vv~WGklAE--~~aqyLkKGD~V~VsGrL~sr~~~dkdGq~rs~~eVvV~el~F 111 (222)
-+.|++|.+.-+ .+...|+.|..|+|.|++.. .++ ++.|+++-+
T Consensus 29 ~~Ev~~F~~~~~~~~~~~~l~~d~~v~v~g~v~~-----~~~------~l~~~~I~~ 74 (79)
T cd04490 29 RITVLLTKDKEELFEEAEDILPDEVIGVSGTVSK-----DGG------LIFADEIFR 74 (79)
T ss_pred EEEEEEeCchhhhhhhhhhccCCCEEEEEEEEec-----CCC------EEEEEEeEc
Confidence 358999999988 89999999999999999932 122 666777654
No 43
>COG1570 XseA Exonuclease VII, large subunit [DNA replication, recombination, and repair]
Probab=80.90 E-value=1.6 Score=42.69 Aligned_cols=52 Identities=15% Similarity=0.160 Sum_probs=43.8
Q ss_pred eeeeEEEEEechhHHHHHhhcCCCCeEEEEEEeeeccccCCCCceEEEEEEEEeeEEee
Q 027559 54 CLSSILLAVGGDMAQLCQKHLKPNDFIYVTGQLHSYSKVDKNGKLCLCYKVVVEDFNYV 112 (222)
Q Consensus 54 ~t~wI~Vv~WGklAE~~aqyLkKGD~V~VsGrL~sr~~~dkdGq~rs~~eVvV~el~Fv 112 (222)
+.--|.|+||...+..+.--++-|+.|.|.|++..+.. .| .|++++++++.-
T Consensus 50 ~~A~i~c~mf~~~~~~l~f~p~eG~~V~v~G~is~Y~~---rG----~YQi~~~~~~p~ 101 (440)
T COG1570 50 ERAQIRCVMFKGNNRRLKFRPEEGMQVLVRGKISLYEP---RG----DYQIVAESMEPA 101 (440)
T ss_pred CCceEEEEEEcCcccccCCCccCCCEEEEEEEEEEEcC---CC----ceEEEEecCCcC
Confidence 34568999999999999989999999999999998753 34 489999998854
No 44
>PF11506 DUF3217: Protein of unknown function (DUF3217); InterPro: IPR024506 This family of proteins with unknown function appears to be restricted to Mycoplasma.; PDB: 2HQL_E.
Probab=80.20 E-value=12 Score=29.51 Aligned_cols=50 Identities=16% Similarity=0.153 Sum_probs=38.1
Q ss_pred eeeeeEEEEEechhHHHHHhhcCCCCeEEEEEEeeeccccCCCCceEEEEE
Q 027559 53 QCLSSILLAVGGDMAQLCQKHLKPNDFIYVTGQLHSYSKVDKNGKLCLCYK 103 (222)
Q Consensus 53 ~~t~wI~Vv~WGklAE~~aqyLkKGD~V~VsGrL~sr~~~dkdGq~rs~~e 103 (222)
.=++|+-+-+-|.+|--..+|.+|=.-|.|+|.|+++. +-+.|...+.++
T Consensus 37 ~FTDyyViYAN~QL~~ELEky~~k~k~isieG~L~TY~-ekkS~iWKT~I~ 86 (104)
T PF11506_consen 37 TFTDYYVIYANGQLAFELEKYTQKHKTISIEGILRTYL-EKKSKIWKTTIE 86 (104)
T ss_dssp EEEEEEEEEEEHHHHHHHHHHHTT-SEEEEEEEEEEEE-ETTTTEEEEEEE
T ss_pred cceeEEEEEECCeeehhHHHhhhhceEEEEeeehhhHH-HHhcccceeeEE
Confidence 34678788999999999999999999999999999754 224566554443
No 45
>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=80.08 E-value=3 Score=30.29 Aligned_cols=30 Identities=17% Similarity=0.412 Sum_probs=25.7
Q ss_pred eEEEEEechhHHHHHhhcCCCCeEEEE-EEeeec
Q 027559 57 SILLAVGGDMAQLCQKHLKPNDFIYVT-GQLHSY 89 (222)
Q Consensus 57 wI~Vv~WGklAE~~aqyLkKGD~V~Vs-GrL~sr 89 (222)
-|++++|+..| ...++.|+.|.+. |+.+.+
T Consensus 35 ~i~~~~W~~~~---~~~~~~G~vv~i~~~~v~~~ 65 (82)
T cd04491 35 TIRFTLWDEKA---ADDLEPGDVVRIENAYVREF 65 (82)
T ss_pred EEEEEEECchh---cccCCCCCEEEEEeEEEEec
Confidence 47999999988 6779999999999 777654
No 46
>cd04481 RPA1_DBD_B_like RPA1_DBD_B_like: A subgroup of uncharacterized, plant OB folds with similarity to the third OB fold, the ssDNA-binding domain (DBD)-B, of human RPA1 (also called RPA70). RPA1 is the large 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). In addition to DBD-B, RPA1 contains three other OB folds: DBD-A, DBD-C, and RPA1N. The major DNA binding activity of RPA is associated with RPA1 DBD-A and DBD-B. RPA1 DBD-C is involved in trimerization. The ssDNA binding mechanism is believed to be multistep and to involve conformational change.
Probab=79.67 E-value=6.2 Score=30.22 Aligned_cols=39 Identities=8% Similarity=0.020 Sum_probs=28.2
Q ss_pred eeeEEEEEechhHHHHHhhcC---CCC-eEEEEEEeeeccccC
Q 027559 55 LSSILLAVGGDMAQLCQKHLK---PND-FIYVTGQLHSYSKVD 93 (222)
Q Consensus 55 t~wI~Vv~WGklAE~~aqyLk---KGD-~V~VsGrL~sr~~~d 93 (222)
..-+.|++||+.|+....++. ++. -|+|-+-.+...|.+
T Consensus 34 ~~~l~~tlwG~~A~~f~~~~~~~~~~~~VVav~~~~rV~~~~g 76 (106)
T cd04481 34 DERLKCTLWGEYAEEFDAKFQSAGNGEPVVAVLRFWKIKEYKG 76 (106)
T ss_pred CCEEEEEEEHHHHHHHHHHHHHhCCCCcEEEEEEeEEEEEEcC
Confidence 456789999999999888874 444 455666577777753
No 47
>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=78.18 E-value=11 Score=27.76 Aligned_cols=70 Identities=17% Similarity=0.180 Sum_probs=44.2
Q ss_pred eeeeeeccceEEeeeeeccceeeceeeeeEEEEEechhHH---HHHhhcCCCCeEEEEEEeeeccccCCCCceEEEEEEE
Q 027559 29 KLENIELNECVTMLDILLLIIHHLQCLSSILLAVGGDMAQ---LCQKHLKPNDFIYVTGQLHSYSKVDKNGKLCLCYKVV 105 (222)
Q Consensus 29 ~~~~~~~~e~vt~~~iav~~r~~~~~t~wI~Vv~WGklAE---~~aqyLkKGD~V~VsGrL~sr~~~dkdGq~rs~~eVv 105 (222)
.++.++....+..+++ +|.+. =|++.+|..-.+ ...+.++.|+.|.|.|+++... |+ .+|.
T Consensus 7 ~V~~~~~~~~~~~~tL-----~D~TG--~I~~~~W~~~~~~~~~~~~~~~~g~~v~v~G~v~~~~-----g~----~ql~ 70 (95)
T cd04478 7 VVRNVEEQSTNITYTI-----DDGTG--TIEVRQWLDDDNDDSSEVEPIEEGTYVRVFGNLKSFQ-----GK----KSIM 70 (95)
T ss_pred EEEeeeEcccEEEEEE-----ECCCC--cEEEEEeCCCCCcccccccccccCCEEEEEEEEcccC-----Ce----eEEE
Confidence 3444554444555554 22222 378999987654 4577899999999999998653 33 3455
Q ss_pred EeeEEeeec
Q 027559 106 VEDFNYVRE 114 (222)
Q Consensus 106 V~el~Fv~~ 114 (222)
+..+..++.
T Consensus 71 i~~i~~v~d 79 (95)
T cd04478 71 AFSIRPVTD 79 (95)
T ss_pred EEEEEEeCC
Confidence 556665554
No 48
>cd04321 ScAspRS_mt_like_N ScAspRS_mt_like_N: N-terminal, anticodon recognition domain of the type found in Saccharomyces cerevisiae mitochondrial (mt) aspartyl-tRNA synthetase (AspRS). This domain is a beta-barrel domain (OB fold) involved in binding the tRNA anticodon stem-loop. The enzymes in this fungal group are homodimeric class2b aminoacyl-tRNA synthetases (aaRSs). aaRSs catalyze the specific attachment of amino acids (AAs) to their cognate tRNAs during protein biosynthesis. This 2-step reaction involves i) the activation of the AA by ATP in the presence of magnesium ions, followed by ii) the transfer of the activated AA to the terminal ribose of tRNA. In the case of the class2b aaRSs, the activated AA is attached to the 3'OH of the terminal ribose. Eukaryotes contain 2 sets of aaRSs, both of which are encoded by the nuclear genome. One set concerns with cytoplasmic protein synthesis, whereas the other exclusively with mitochondrial protein synthesis. Mutations in the gene for
Probab=77.61 E-value=12 Score=27.66 Aligned_cols=54 Identities=20% Similarity=0.194 Sum_probs=34.9
Q ss_pred EEEEEechh-HHHHHhhcCCCCeEEEEEEeeeccccCCCCceEEEEEEEEeeEEeee
Q 027559 58 ILLAVGGDM-AQLCQKHLKPNDFIYVTGQLHSYSKVDKNGKLCLCYKVVVEDFNYVR 113 (222)
Q Consensus 58 I~Vv~WGkl-AE~~aqyLkKGD~V~VsGrL~sr~~~dkdGq~rs~~eVvV~el~Fv~ 113 (222)
+.|++-.+. +-...+.|..|+.|.|+|.+....-.. .+.. ..+||.|++++.+.
T Consensus 31 iQvv~~~~~~~~~~~~~l~~~s~V~V~G~v~~~~~~~-~~~~-~~~Ei~~~~i~il~ 85 (86)
T cd04321 31 IQLVSTAKKDAFSLLKSITAESPVQVRGKLQLKEAKS-SEKN-DEWELVVDDIQTLN 85 (86)
T ss_pred EEEEECCCHHHHHHHhcCCCCcEEEEEEEEEeCCCcC-CCCC-CCEEEEEEEEEEec
Confidence 466654332 212345699999999999998754321 1111 24899999998875
No 49
>cd04488 RecG_wedge_OBF RecG_wedge_OBF: A subfamily of OB folds corresponding to the OB fold found in the N-terminal (wedge) domain of Escherichia coli RecG. RecG is a branched-DNA-specific helicase, which catalyzes the interconversion of a DNA replication fork to a four-stranded (Holliday) junction in vivo and in vitro. This interconversion provides a route to repair stalled forks. The RecG monomer contains three domains. The N-terminal domain is named for its wedge structure, and may provide the specificity of RecG for binding branched-DNA structures. During the reversal of fork to Holliday junction, the wedge domain is fixed at the junction of the fork where the leading and lagging strand duplex arms meet, and is thought to promote the unwinding of the nascent leading and lagging strands. In order to form the Holliday junction, these nascent strands would be annealed, and the parental strands reannealed. The wedge domain may also be a processivity factor of RecG on these branched cha
Probab=77.56 E-value=5.3 Score=27.11 Aligned_cols=33 Identities=18% Similarity=0.322 Sum_probs=25.9
Q ss_pred eeEEEEEechhHHHHHhhcCCCCeEEEEEEeeec
Q 027559 56 SSILLAVGGDMAQLCQKHLKPNDFIYVTGQLHSY 89 (222)
Q Consensus 56 ~wI~Vv~WGklAE~~aqyLkKGD~V~VsGrL~sr 89 (222)
--+.+++|+... ...+.+++|+.++|.|++...
T Consensus 29 g~i~~~~F~~~~-~~~~~~~~G~~~~v~Gkv~~~ 61 (75)
T cd04488 29 GTLTLVFFNFQP-YLKKQLPPGTRVRVSGKVKRF 61 (75)
T ss_pred CEEEEEEECCCH-HHHhcCCCCCEEEEEEEEeec
Confidence 347899998433 446789999999999999864
No 50
>cd04483 hOBFC1_like hOBFC1_like: A subfamily of OB folds similar to that found in human OB fold containing protein 1 (hOBFC1). Members of this group belong to the Replication protein A subunit 2 (RPA2) family of OB folds. 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 OB fold domain of RPA2 has dual roles in ssDNA binding and trimerization.
Probab=77.13 E-value=14 Score=28.18 Aligned_cols=34 Identities=18% Similarity=0.297 Sum_probs=26.1
Q ss_pred eEEEEEechhH--H------------------HHHhhcCCCCeEEEEEEeeecc
Q 027559 57 SILLAVGGDMA--Q------------------LCQKHLKPNDFIYVTGQLHSYS 90 (222)
Q Consensus 57 wI~Vv~WGklA--E------------------~~aqyLkKGD~V~VsGrL~sr~ 90 (222)
-|+|.+|.... + ..+..++.|+.|.|.|++++..
T Consensus 26 ~Ie~~~W~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~G~vvrV~G~i~~fr 79 (92)
T cd04483 26 VVNCVCWKNLSYAEVSSRSDAARILKSALMALKQAKVLEIGDLLRVRGSIRTYR 79 (92)
T ss_pred eEEEEEEcCcCcccccccccccccccccccccccccccCCCCEEEEEEEEeccC
Confidence 37899998753 1 2344599999999999999763
No 51
>PF11325 DUF3127: Domain of unknown function (DUF3127); InterPro: IPR021474 This bacterial family of proteins has no known function.
Probab=76.67 E-value=9.8 Score=29.26 Aligned_cols=53 Identities=13% Similarity=0.014 Sum_probs=41.6
Q ss_pred eceeeeeEEEEEechhHHHHHhhcCCCCeEEEEEEeeeccccCCCCceEEEEEEEEeeE
Q 027559 51 HLQCLSSILLAVGGDMAQLCQKHLKPNDFIYVTGQLHSYSKVDKNGKLCLCYKVVVEDF 109 (222)
Q Consensus 51 ~~~~t~wI~Vv~WGklAE~~aqyLkKGD~V~VsGrL~sr~~~dkdGq~rs~~eVvV~el 109 (222)
+..-...|.+++||+-+..+. -++.||.|-|+=.|.+|.|. .++...|.|=.+
T Consensus 31 ~~qYP~~i~f~~~~dk~~~l~-~~~~Gd~V~Vsf~i~~RE~~-----gr~fn~i~aWri 83 (84)
T PF11325_consen 31 EEQYPQKICFEFWGDKIDLLD-NFQVGDEVKVSFNIEGREWN-----GRWFNSIRAWRI 83 (84)
T ss_pred CCcCCceEEEEEEcchhhhhc-cCCCCCEEEEEEEeeccEec-----ceEeeEeEEEEe
Confidence 444556678999998887744 58999999999999999996 557777776443
No 52
>cd04320 AspRS_cyto_N AspRS_cyto_N: N-terminal, anticodon recognition domain of the type found in Saccharomyces cerevisiae and human cytoplasmic aspartyl-tRNA synthetase (AspRS). This domain is a beta-barrel domain (OB fold) involved in binding the tRNA anticodon stem-loop. The enzymes in this group are homodimeric class2b aminoacyl-tRNA synthetases (aaRSs). aaRSs catalyze the specific attachment of amino acids (AAs) to their cognate tRNAs during protein biosynthesis. This 2-step reaction involves i) the activation of the AA by ATP in the presence of magnesium ions, followed by ii) the transfer of the activated AA to the terminal ribose of tRNA. In the case of the class2b aaRSs, the activated AA is attached to the 3'OH of the terminal ribose. Eukaryotes contain 2 sets of aaRSs, both of which are encoded by the nuclear genome. One set concerns with cytoplasmic protein synthesis, whereas the other exclusively with mitochondrial protein synthesis.
Probab=76.64 E-value=7.3 Score=29.47 Aligned_cols=58 Identities=14% Similarity=0.127 Sum_probs=38.2
Q ss_pred eEEEEEechh----HHH--HHhhcCCCCeEEEEEEeeeccccCCCCceEEEEEEEEeeEEeeecC
Q 027559 57 SILLAVGGDM----AQL--CQKHLKPNDFIYVTGQLHSYSKVDKNGKLCLCYKVVVEDFNYVREC 115 (222)
Q Consensus 57 wI~Vv~WGkl----AE~--~aqyLkKGD~V~VsGrL~sr~~~dkdGq~rs~~eVvV~el~Fv~~k 115 (222)
.+.|++-.+. .+. .++.|+.|+.|.|+|.+....- ..++.....+||.|++++.+...
T Consensus 29 ~iQ~v~~~~~~~~~~~~~~~~~~l~~es~V~V~G~v~~~~~-~~~~~~~~~~El~~~~i~il~~~ 92 (102)
T cd04320 29 TIQGVLAASAEGVSKQMVKWAGSLSKESIVDVEGTVKKPEE-PIKSCTQQDVELHIEKIYVVSEA 92 (102)
T ss_pred eEEEEEeCCcccCCHHHHHHHhcCCCccEEEEEEEEECCCC-cccCCCcCcEEEEEEEEEEEecC
Confidence 4677775442 122 2356999999999999976421 12222224589999999999754
No 53
>cd04323 AsnRS_cyto_like_N AsnRS_cyto_like_N: N-terminal, anticodon recognition domain of the type found in human and Saccharomyces cerevisiae cytoplasmic asparaginyl-tRNA synthetase (AsnRS), in Brugia malayai AsnRs and, in various putative bacterial AsnRSs. This domain is a beta-barrel domain (OB fold) involved in binding the tRNA anticodon stem-loop. The enzymes in this group are homodimeric class2b aminoacyl-tRNA synthetases (aaRSs). aaRSs catalyze the specific attachment of amino acids (AAs) to their cognate tRNAs during protein biosynthesis. This 2-step reaction involves i) the activation of the AA by ATP in the presence of magnesium ions, followed by ii) the transfer of the activated AA to the terminal ribose of tRNA. In the case of the class2b aaRSs, the activated AA is attached to the 3'OH of the terminal ribose. Eukaryotes contain 2 sets of aaRSs, both of which are encoded by the nuclear genome. One set concerns with cytoplasmic synthesis, whereas the other exclusively with
Probab=75.10 E-value=11 Score=27.59 Aligned_cols=53 Identities=13% Similarity=0.204 Sum_probs=34.6
Q ss_pred EEEEEechhHH--HHHhhcCCCCeEEEEEEeeeccccCCCCceEEEEEEEEeeEEeee
Q 027559 58 ILLAVGGDMAQ--LCQKHLKPNDFIYVTGQLHSYSKVDKNGKLCLCYKVVVEDFNYVR 113 (222)
Q Consensus 58 I~Vv~WGklAE--~~aqyLkKGD~V~VsGrL~sr~~~dkdGq~rs~~eVvV~el~Fv~ 113 (222)
+.+++-.+... .....|..|+.|.|+|.+....-.. .....+||.+++++.+.
T Consensus 29 iQ~v~~~~~~~~~~~~~~l~~es~V~V~G~v~~~~~~~---~~~~~~Ei~~~~i~vl~ 83 (84)
T cd04323 29 LQCVLSKKLVTEFYDAKSLTQESSVEVTGEVKEDPRAK---QAPGGYELQVDYLEIIG 83 (84)
T ss_pred EEEEEcCCcchhHHHHhcCCCcCEEEEEEEEEECCccc---CCCCCEEEEEEEEEEEc
Confidence 66766544321 2335699999999999998743211 11124899999998774
No 54
>cd04100 Asp_Lys_Asn_RS_N Asp_Lys_Asn_RS_N: N-terminal, anticodon recognition domain of class 2b aminoacyl-tRNA synthetases (aaRSs). This domain is a beta-barrel domain (OB fold) involved in binding the tRNA anticodon stem-loop. Class 2b aaRSs include the homodimeric aspartyl-, asparaginyl-, and lysyl-tRNA synthetases (AspRS, AsnRS, and LysRS). aaRSs catalyze the specific attachment of amino acids (AAs) to their cognate tRNAs during protein biosynthesis. This 2-step reaction involves i) the activation of the AA by ATP in the presence of magnesium ions, followed by ii) the transfer of the activated AA to the terminal ribose of tRNA. In the case of the class2b aaRSs, the activated AA is attached to the 3'OH of the terminal ribose. Eukaryotes contain 2 sets of aaRSs, both of which are encoded by the nuclear genome. One set concerns with cytoplasmic protein synthesis, whereas the other exclusively with mitochondrial protein synthesis. Included in this group are archeal and archeal-like A
Probab=74.73 E-value=7.6 Score=28.33 Aligned_cols=53 Identities=11% Similarity=0.117 Sum_probs=34.9
Q ss_pred EEEEEechhHH---HHHhhcCCCCeEEEEEEeeeccccCCCCceEEEEEEEEeeEEeee
Q 027559 58 ILLAVGGDMAQ---LCQKHLKPNDFIYVTGQLHSYSKVDKNGKLCLCYKVVVEDFNYVR 113 (222)
Q Consensus 58 I~Vv~WGklAE---~~aqyLkKGD~V~VsGrL~sr~~~dkdGq~rs~~eVvV~el~Fv~ 113 (222)
+.|++-.+..+ .....|+.||.|.|+|.+....-.. .....+||.++++..+.
T Consensus 29 iQ~v~~~~~~~~~~~~~~~l~~~s~V~v~G~~~~~~~~~---~~~~~~El~~~~i~il~ 84 (85)
T cd04100 29 VQVVVNKEELGEFFEEAEKLRTESVVGVTGTVVKRPEGN---LATGEIELQAEELEVLS 84 (85)
T ss_pred EEEEEECCcChHHHHHHhCCCCCCEEEEEeEEEECCCCC---CCCCCEEEEEeEEEEEC
Confidence 45655443221 2346799999999999998754211 11235899999998774
No 55
>PHA01740 putative single-stranded DNA-binding protein
Probab=74.24 E-value=1.8 Score=36.61 Aligned_cols=23 Identities=26% Similarity=0.504 Sum_probs=19.2
Q ss_pred CCCCCCCCCCccCCC--CceeeeCC
Q 027559 162 NKLYPGAPDFKHKST--GEALWLDP 184 (222)
Q Consensus 162 ~K~n~k~pDFkhk~t--g~aLWl~~ 184 (222)
.|+|||+|||+-|.+ |.-+||..
T Consensus 17 qkk~dK~PDf~GkInI~G~~yw~SG 41 (158)
T PHA01740 17 QPKNDKSPHFTGKVDIRGTVYWLAG 41 (158)
T ss_pred ccCCCCCCCcCceEeeCCEEEEeec
Confidence 477999999999955 78888874
No 56
>cd04484 polC_OBF polC_OBF: A subfamily of OB folds corresponding to the N-terminal OB-fold nucleic acid binding domain of Bacillus subtilis type C replicative DNA polymerase III alpha subunit (polC). Replication in B. subtilis and Staphylococcus aureus requires two different polymerases, polC and DnaE. The holoenzyme is thought to include the two different polymerases. At the B. subtilis replication fork, polC appears to be involved in leading strand synthesis and DnaE in lagging strand synthesis.
Probab=74.09 E-value=14 Score=27.39 Aligned_cols=38 Identities=21% Similarity=0.106 Sum_probs=28.4
Q ss_pred eeeeEEEEEech-hHHHHHhhcC-CCCeEEEEEEeeecccc
Q 027559 54 CLSSILLAVGGD-MAQLCQKHLK-PNDFIYVTGQLHSYSKV 92 (222)
Q Consensus 54 ~t~wI~Vv~WGk-lAE~~aqyLk-KGD~V~VsGrL~sr~~~ 92 (222)
.++-|.|-.|.+ .-+.. ..++ +|+.|.|.|++..++|.
T Consensus 30 ~t~Si~~K~F~~~~~~~~-~~ik~~G~~v~v~G~v~~D~f~ 69 (82)
T cd04484 30 YTSSITVKKFLRKDEKDK-EELKSKGDWVRVRGKVQYDTFS 69 (82)
T ss_pred CCCCEEEEEeccCChhHH-hhcccCCCEEEEEEEEEEccCC
Confidence 344567878873 33333 5699 99999999999999884
No 57
>PRK07211 replication factor A; Reviewed
Probab=73.26 E-value=7.1 Score=38.66 Aligned_cols=34 Identities=15% Similarity=0.200 Sum_probs=30.2
Q ss_pred eeeeEEEEEechhHHHHHhhcCCCCeEEEEEEee
Q 027559 54 CLSSILLAVGGDMAQLCQKHLKPNDFIYVTGQLH 87 (222)
Q Consensus 54 ~t~wI~Vv~WGklAE~~aqyLkKGD~V~VsGrL~ 87 (222)
++--|.+++|++.|+.....|+.||-|+|.|+.+
T Consensus 100 eTG~Ir~TlW~d~ad~~~~~Le~GdV~~I~~~~~ 133 (485)
T PRK07211 100 ETGSVRVAFWDEQAVAAEEELEVGQVLRIKGRPK 133 (485)
T ss_pred CCCeEEEEEechHhHhhhcccCCCCEEEEeceEe
Confidence 4456899999999999999999999999999864
No 58
>cd04317 EcAspRS_like_N EcAspRS_like_N: N-terminal, anticodon recognition domain of the type found in Escherichia coli aspartyl-tRNA synthetase (AspRS), the human mitochondrial (mt) AspRS-2, the discriminating (D) Thermus thermophilus AspRS-1, and the nondiscriminating (ND) Helicobacter pylori AspRS. These homodimeric enzymes are class2b aminoacyl-tRNA synthetases (aaRSs). This domain is a beta-barrel domain (OB fold) involved in binding the tRNA anticodon stem-loop. aaRSs catalyze the specific attachment of amino acids (AAs) to their cognate tRNAs during protein biosynthesis. This 2-step reaction involves i) the activation of the AA by ATP in the presence of magnesium ions, followed by ii) the transfer of the activated AA to the terminal ribose of tRNA. In the case of the class2b aaRSs, the activated AA is attached to the 3'OH of the terminal ribose. Eukaryotes contain 2 sets of aaRSs, both of which are encoded by the nuclear genome. One set concerns with cytoplasmic synthesis, wh
Probab=70.37 E-value=20 Score=28.49 Aligned_cols=58 Identities=17% Similarity=0.204 Sum_probs=37.4
Q ss_pred EEEEEechhHH--HHHhhcCCCCeEEEEEEeeeccccCCCCc-eEEEEEEEEeeEEeeecC
Q 027559 58 ILLAVGGDMAQ--LCQKHLKPNDFIYVTGQLHSYSKVDKNGK-LCLCYKVVVEDFNYVREC 115 (222)
Q Consensus 58 I~Vv~WGklAE--~~aqyLkKGD~V~VsGrL~sr~~~dkdGq-~rs~~eVvV~el~Fv~~k 115 (222)
+.|++-.+..+ .....|+.|+.|.|+|.+....-..++.. ....+||.|+++..+...
T Consensus 44 ~Q~v~~~~~~~~~~~~~~l~~gs~V~V~G~~~~~~~~~~~~~~~~~~~El~~~~i~vl~~~ 104 (135)
T cd04317 44 VQVVFDPEEAPEFELAEKLRNESVIQVTGKVRARPEGTVNPKLPTGEIEVVASELEVLNKA 104 (135)
T ss_pred EEEEEeCCchhHHHHHhCCCCccEEEEEEEEECCCccccCCCCCCCcEEEEEeEEEEEECC
Confidence 56766544322 23357999999999999986432101111 122489999999999854
No 59
>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=70.28 E-value=6.6 Score=32.15 Aligned_cols=30 Identities=27% Similarity=0.387 Sum_probs=25.7
Q ss_pred eeeeEEEEEechhHHHHHhhcCCCCeEEEEE
Q 027559 54 CLSSILLAVGGDMAQLCQKHLKPNDFIYVTG 84 (222)
Q Consensus 54 ~t~wI~Vv~WGklAE~~aqyLkKGD~V~VsG 84 (222)
...=|+|++|+..|+.+.+ |+.||.|.+.=
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 3356899999999998888 99999998864
No 60
>cd04319 PhAsnRS_like_N PhAsnRS_like_N: N-terminal, anticodon recognition domain of the type found in Pyrococcus horikoshii AsnRS asparaginyl-tRNA synthetase (AsnRS). This domain is a beta-barrel domain (OB fold) involved in binding the tRNA anticodon stem-loop. The archeal enzymes in this group are homodimeric class2b aminoacyl-tRNA synthetases (aaRSs). aaRSs catalyze the specific attachment of amino acids (AAs) to their cognate tRNAs during protein biosynthesis. This 2-step reaction involves i) the activation of the AA by ATP in the presence of magnesium ions, followed by ii) the transfer of the activated AA to the terminal ribose of tRNA. In the case of the class2b aaRSs, the activated AA is attached to the 3'OH of the terminal ribose.
Probab=68.25 E-value=47 Score=25.18 Aligned_cols=52 Identities=13% Similarity=0.203 Sum_probs=36.0
Q ss_pred EEEEEechhHHH---HHhhcCCCCeEEEEEEeeeccccCCCCceEEEEEEEEeeEEeeecC
Q 027559 58 ILLAVGGDMAQL---CQKHLKPNDFIYVTGQLHSYSKVDKNGKLCLCYKVVVEDFNYVREC 115 (222)
Q Consensus 58 I~Vv~WGklAE~---~aqyLkKGD~V~VsGrL~sr~~~dkdGq~rs~~eVvV~el~Fv~~k 115 (222)
+.|++-.+.++. ....|..||.|.|+|.+....- ..+ .+||.|++++.+...
T Consensus 29 iQ~v~~~~~~~~~~~~~~~l~~~s~v~V~G~v~~~~~--~~~----~~Ei~~~~i~vl~~a 83 (103)
T cd04319 29 VQAVFSKDLNEEAYREAKKVGIESSVIVEGAVKADPR--APG----GAEVHGEKLEIIQNV 83 (103)
T ss_pred EEEEEeCCCCHHHHHHHhCCCCCCEEEEEEEEEECCC--CCC----CEEEEEEEEEEEecC
Confidence 677775443221 2246889999999999986531 112 489999999999754
No 61
>cd04316 ND_PkAspRS_like_N ND_PkAspRS_like_N: N-terminal, anticodon recognition domain of the type found in the homodimeric non-discriminating (ND) Pyrococcus kodakaraensis aspartyl-tRNA synthetase (AspRS). This domain is a beta-barrel domain (OB fold) involved in binding the tRNA anticodon stem-loop. P. kodakaraensis AspRS is a class 2b aaRS. aaRSs catalyze the specific attachment of amino acids (AAs) to their cognate tRNAs during protein biosynthesis. This 2-step reaction involves i) the activation the AA by ATP in the presence of magnesium ions, followed by ii) the transfer of the activated AA to the terminal ribose of tRNA. In the case of the class2b aaRSs, the activated AA is attached to the 3'OH of the terminal ribose. P. kodakaraensis ND-AspRS can charge both tRNAAsp and tRNAAsn. Some of the enzymes in this group may be discriminating, based on the presence of homologs of asparaginyl-tRNA synthetase (AsnRS) in their completed genomes.
Probab=65.09 E-value=28 Score=26.67 Aligned_cols=53 Identities=15% Similarity=0.222 Sum_probs=36.9
Q ss_pred eEEEEEechh--HH--HHHhhcCCCCeEEEEEEeeeccccCCCCceEEEEEEEEeeEEeeecC
Q 027559 57 SILLAVGGDM--AQ--LCQKHLKPNDFIYVTGQLHSYSKVDKNGKLCLCYKVVVEDFNYVREC 115 (222)
Q Consensus 57 wI~Vv~WGkl--AE--~~aqyLkKGD~V~VsGrL~sr~~~dkdGq~rs~~eVvV~el~Fv~~k 115 (222)
.+.|++-.+. .+ .....|..|+.|.|+|.+....- +. ..+||.|++++.+...
T Consensus 41 ~iQ~v~~~~~~~~~~~~~~~~l~~es~V~V~G~v~~~~~----~~--~~~Ei~~~~i~il~~~ 97 (108)
T cd04316 41 IVQVTAPKKKVDKELFKTVRKLSRESVISVTGTVKAEPK----AP--NGVEIIPEEIEVLSEA 97 (108)
T ss_pred eEEEEEeCCCCCHHHHHHHhCCCCcCEEEEEEEEEeCCC----CC--CCEEEEEeEEEEEeCC
Confidence 4677775442 11 13356999999999999987531 11 2489999999999864
No 62
>PRK15491 replication factor A; Provisional
Probab=64.64 E-value=8 Score=36.77 Aligned_cols=34 Identities=12% Similarity=0.144 Sum_probs=28.5
Q ss_pred eEEEEEechhHHHHHhhcCCCCeEEEEE-Eeeeccc
Q 027559 57 SILLAVGGDMAQLCQKHLKPNDFIYVTG-QLHSYSK 91 (222)
Q Consensus 57 wI~Vv~WGklAE~~aqyLkKGD~V~VsG-rL~sr~~ 91 (222)
-|++++|++.|+.. .-|..||.|+|.+ +.+.+.|
T Consensus 215 ~Ir~t~W~~~a~~~-~~l~~Gd~V~i~~~~~r~~~~ 249 (374)
T PRK15491 215 KIRVTLWDGKTDLA-DKLENGDSVEIINGYARTNNY 249 (374)
T ss_pred eEEEEEecchhccc-ccCCCCCEEEEEeceEEEecc
Confidence 48999999999987 6699999999966 5776665
No 63
>cd04322 LysRS_N LysRS_N: N-terminal, anticodon recognition domain of lysyl-tRNA synthetases (LysRS). These enzymes are homodimeric class 2b aminoacyl-tRNA synthetases (aaRSs). This domain is a beta-barrel domain (OB fold) involved in binding the tRNA anticodon stem-loop. aaRSs catalyze the specific attachment of amino acids (AAs) to their cognate tRNAs during protein biosynthesis. This 2-step reaction involves i) the activation of the AA by ATP in the presence of magnesium ions, followed by ii) the transfer of the activated AA to the terminal ribose of tRNA. In the case of the class2b aaRSs, the activated AA is attached to the 3'OH of the terminal ribose. Included in this group are E. coli LysS and LysU. These two isoforms of LysRS are encoded by distinct genes which are differently regulated. Eukaryotes contain 2 sets of aaRSs, both of which encoded by the nuclear genome. One set concerns with cytoplasmic protein synthesis, whereas the other exclusively with mitochondrial protein
Probab=63.25 E-value=65 Score=24.54 Aligned_cols=51 Identities=27% Similarity=0.371 Sum_probs=34.5
Q ss_pred eEEEEEechh--HHH---HHhhcCCCCeEEEEEEeeeccccCCCCceEEEEEEEEeeEEeeecC
Q 027559 57 SILLAVGGDM--AQL---CQKHLKPNDFIYVTGQLHSYSKVDKNGKLCLCYKVVVEDFNYVREC 115 (222)
Q Consensus 57 wI~Vv~WGkl--AE~---~aqyLkKGD~V~VsGrL~sr~~~dkdGq~rs~~eVvV~el~Fv~~k 115 (222)
-++|++-... .+. +.+.|+.||.|.|+|.+.-. +.|+ +||.+++++.+.+.
T Consensus 28 ~lQ~v~~~~~~~~~~~~~~~~~l~~g~~V~v~G~v~~~----~~g~----~El~~~~~~ils~~ 83 (108)
T cd04322 28 KIQVYVNKDDLGEEEFEDFKKLLDLGDIIGVTGTPFKT----KTGE----LSIFVKEFTLLSKS 83 (108)
T ss_pred EEEEEEECCCCCHHHHHHHHhcCCCCCEEEEEEEEEec----CCCC----EEEEeCEeEEeecc
Confidence 4677664331 122 22239999999999999753 2243 79999999998754
No 64
>PRK14699 replication factor A; Provisional
Probab=55.72 E-value=9.6 Score=37.58 Aligned_cols=36 Identities=19% Similarity=0.271 Sum_probs=29.7
Q ss_pred eeeeEEEEEechhHHHHHh-hcCCCCeEEEEEEeeeccc
Q 027559 54 CLSSILLAVGGDMAQLCQK-HLKPNDFIYVTGQLHSYSK 91 (222)
Q Consensus 54 ~t~wI~Vv~WGklAE~~aq-yLkKGD~V~VsGrL~sr~~ 91 (222)
+|--|++++|.++|+.+.. .|++||.|-|.|. .+.|
T Consensus 103 eTG~ir~tlW~~~a~~~~~g~l~~GDvv~I~~~--~r~~ 139 (484)
T PRK14699 103 ETGKIKLTLWDNMADLIKAGKIKAGQTLQISGY--AKQG 139 (484)
T ss_pred CCCeEEEEEecCccchhhhcCCCCCCEEEEcce--eccC
Confidence 4456899999999998887 6999999999995 4444
No 65
>PRK07373 DNA polymerase III subunit alpha; Reviewed
Probab=54.32 E-value=73 Score=31.16 Aligned_cols=48 Identities=13% Similarity=0.101 Sum_probs=38.8
Q ss_pred eEEEEEechhHHHHHhhcCCCCeEEEEEEeeeccccCCCCceEEEEEEEEeeEEeee
Q 027559 57 SILLAVGGDMAQLCQKHLKPNDFIYVTGQLHSYSKVDKNGKLCLCYKVVVEDFNYVR 113 (222)
Q Consensus 57 wI~Vv~WGklAE~~aqyLkKGD~V~VsGrL~sr~~~dkdGq~rs~~eVvV~el~Fv~ 113 (222)
-+.|++|-++-+.+...|+.|..|.|.|++..+ +| .++++|+++.-+.
T Consensus 314 ~ie~vvFp~~y~~~~~~l~~~~~v~v~G~v~~~-----~~----~~~liv~~i~~l~ 361 (449)
T PRK07373 314 QSEAVVFPKSYERISELLQVDARLIIWGKVDRR-----DD----QVQLIVEDAEPIE 361 (449)
T ss_pred CEEEEECHHHHHHHHHHhccCCEEEEEEEEEec-----CC----eEEEEEeEeecHh
Confidence 468999999999999999999999999999652 23 2667788776554
No 66
>PLN02903 aminoacyl-tRNA ligase
Probab=50.92 E-value=57 Score=33.64 Aligned_cols=58 Identities=17% Similarity=0.189 Sum_probs=38.7
Q ss_pred EEEEEechh-HH--HHHhhcCCCCeEEEEEEeeeccccCCCCceE-EEEEEEEeeEEeeecC
Q 027559 58 ILLAVGGDM-AQ--LCQKHLKPNDFIYVTGQLHSYSKVDKNGKLC-LCYKVVVEDFNYVREC 115 (222)
Q Consensus 58 I~Vv~WGkl-AE--~~aqyLkKGD~V~VsGrL~sr~~~dkdGq~r-s~~eVvV~el~Fv~~k 115 (222)
++|++-.+. .+ ..++.|+.|+.|.|+|.+..+.-...+.+.. -.+||.|++++.+...
T Consensus 102 iQvV~~~~~~~~~~~~~~~L~~esvV~V~G~V~~r~~~~~n~~~~tGeiEl~~~~i~VL~~a 163 (652)
T PLN02903 102 VQVVTLPDEFPEAHRTANRLRNEYVVAVEGTVRSRPQESPNKKMKTGSVEVVAESVDILNVV 163 (652)
T ss_pred EEEEEeCCccHHHHHHHhcCCCCCEEEEEEEEEeCCCcCcCCCCCCCCEEEEEeEEEEEecC
Confidence 677775431 22 2346799999999999998763222221111 2389999999999864
No 67
>cd04318 EcAsnRS_like_N EcAsnRS_like_N: N-terminal, anticodon recognition domain of the type found in Escherichia coli asparaginyl-tRNA synthetase (AsnRS) and, in Arabidopsis thaliana and Saccharomyces cerevisiae mitochondrial (mt) AsnRS. This domain is a beta-barrel domain (OB fold) involved in binding the tRNA anticodon stem-loop. The enzymes in this group are homodimeric class2b aminoacyl-tRNA synthetases (aaRSs). aaRSs catalyze the specific attachment of amino acids (AAs) to their cognate tRNAs during protein biosynthesis. This 2-step reaction involves i) the activation of the AA by ATP in the presence of magnesium ions, followed by ii) the transfer of the activated AA to the terminal ribose of tRNA. In the case of the class2b aaRSs, the activated AA is attached to the 3'OH of the terminal ribose. Eukaryotes contain 2 sets of aaRSs, both of which are encoded by the nuclear genome. One set concerns with cytoplasmic protein synthesis, whereas the other exclusively with mitochondrial
Probab=50.84 E-value=34 Score=24.65 Aligned_cols=50 Identities=14% Similarity=0.149 Sum_probs=33.5
Q ss_pred EEEEEechhH-HHHHhhcCCCCeEEEEEEeeeccccCCCCceEEEEEEEEeeEEeee
Q 027559 58 ILLAVGGDMA-QLCQKHLKPNDFIYVTGQLHSYSKVDKNGKLCLCYKVVVEDFNYVR 113 (222)
Q Consensus 58 I~Vv~WGklA-E~~aqyLkKGD~V~VsGrL~sr~~~dkdGq~rs~~eVvV~el~Fv~ 113 (222)
+.|++-.+.. -...+.|+.|+.|.|+|.+....-. .| .+||.+++++.+.
T Consensus 31 lQvv~~~~~~~~~~~~~l~~gs~V~v~G~v~~~~~~--~~----~~El~~~~i~il~ 81 (82)
T cd04318 31 LQVVVDKELTNFKEILKLSTGSSIRVEGVLVKSPGA--KQ----PFELQAEKIEVLG 81 (82)
T ss_pred EEEEEeCcccCHHHHhcCCCceEEEEEEEEEeCCCC--CC----CEEEEEEEEEEec
Confidence 4666543321 1234579999999999999875421 12 4899999988763
No 68
>PRK07211 replication factor A; Reviewed
Probab=48.76 E-value=18 Score=35.95 Aligned_cols=31 Identities=13% Similarity=0.249 Sum_probs=26.5
Q ss_pred eEEEEEechhHHHHHhhcCCCCeEEEEE-Eeee
Q 027559 57 SILLAVGGDMAQLCQKHLKPNDFIYVTG-QLHS 88 (222)
Q Consensus 57 wI~Vv~WGklAE~~aqyLkKGD~V~VsG-rL~s 88 (222)
-|++++|++.|+.+ .-|.+|+-|+|.| +++.
T Consensus 210 ~IR~TlW~d~Ad~~-~~le~G~Vv~I~~a~Vre 241 (485)
T PRK07211 210 RVRVTLWDDRADLA-EELDAGESVEIVDGYVRE 241 (485)
T ss_pred eEEEEEechhhhhh-ccCCCCCEEEEEeeEEEe
Confidence 49999999999998 6799999999975 5543
No 69
>COG0017 AsnS Aspartyl/asparaginyl-tRNA synthetases [Translation, ribosomal structure and biogenesis]
Probab=45.80 E-value=57 Score=32.09 Aligned_cols=55 Identities=20% Similarity=0.175 Sum_probs=39.9
Q ss_pred eeeEEEEEec-hhHHHH--HhhcCCCCeEEEEEEeeeccccCCCCceEEEEEEEEeeEEeeecC
Q 027559 55 LSSILLAVGG-DMAQLC--QKHLKPNDFIYVTGQLHSYSKVDKNGKLCLCYKVVVEDFNYVREC 115 (222)
Q Consensus 55 t~wI~Vv~WG-klAE~~--aqyLkKGD~V~VsGrL~sr~~~dkdGq~rs~~eVvV~el~Fv~~k 115 (222)
+.+|+|++-. +..+.+ +..|+.++-|.|+|.+.-..- ....+||.|++++.+...
T Consensus 43 sg~iQ~v~~~~~~~~~~~~~~~L~~es~v~V~G~v~~~~~------a~~g~El~v~~i~Vl~~a 100 (435)
T COG0017 43 SGFIQAVVPKNKVYEELFKAKKLTLESSVVVTGIVKASPK------APQGFELQVEKIEVLGEA 100 (435)
T ss_pred CcEEEEEEECCCCcHHHhhhhcCCCccEEEEEEEEEcCCC------CCCCEEEEEEEEEEeecc
Confidence 4458999864 232222 568999999999999986432 233589999999999765
No 70
>PRK05673 dnaE DNA polymerase III subunit alpha; Validated
Probab=44.26 E-value=80 Score=34.51 Aligned_cols=49 Identities=14% Similarity=0.226 Sum_probs=39.5
Q ss_pred eEEEEEechhHHHHHhhcCCCCeEEEEEEeeeccccCCCCceEEEEEEEEeeEEeeec
Q 027559 57 SILLAVGGDMAQLCQKHLKPNDFIYVTGQLHSYSKVDKNGKLCLCYKVVVEDFNYVRE 114 (222)
Q Consensus 57 wI~Vv~WGklAE~~aqyLkKGD~V~VsGrL~sr~~~dkdGq~rs~~eVvV~el~Fv~~ 114 (222)
-+.+++|.+.=+.+...|..|..|.|.|++..+ +| ..+++|+++.-++.
T Consensus 1011 ~iEvviFp~~ye~~~~~L~~g~iV~V~GkVe~~-----~~----~~qlii~~I~~L~~ 1059 (1135)
T PRK05673 1011 RIEVMLFSEALEKYRDLLEEDRIVVVKGQVSFD-----DG----GLRLTAREVMDLEE 1059 (1135)
T ss_pred cEEEEECHHHHHHHHHHhccCCEEEEEEEEEec-----CC----eEEEEEeecccHHH
Confidence 468999999878888999999999999999653 23 26788888877753
No 71
>PF02367 UPF0079: Uncharacterised P-loop hydrolase UPF0079; InterPro: IPR003442 This group consists of bacterial proteins, which contain a P-loop. They are probably essential to bacteria as members are found in all genomes so far sequenced and no equivalent genes have been found in the archaea and eukaryotes, suggesting the protein may be involved in cell wall biosynthesis. The sequence of YjeE, from Haemophilus influenzae, has been determined to 1.7-A resolution. The protein has a nucleotide-binding fold with a four-stranded parallel beta-sheet flanked by antiparallel beta-strands on each side. The topology of the beta-sheet is unique among P-loop proteins and has features of different families of enzymes. ADP has been shown to bind to the P-loop in the presence of Mg2+ and ATPase activity has been confirmed by kinetic measurements [].; PDB: 1HTW_A 1FL9_A.
Probab=43.52 E-value=16 Score=29.62 Aligned_cols=24 Identities=33% Similarity=0.562 Sum_probs=21.3
Q ss_pred hhHHHHHhhcCCCCeEEEEEEeee
Q 027559 65 DMAQLCQKHLKPNDFIYVTGQLHS 88 (222)
Q Consensus 65 klAE~~aqyLkKGD~V~VsGrL~s 88 (222)
++|+.+++.|++|+.|..+|.|.+
T Consensus 3 ~la~~l~~~l~~g~vi~L~GdLGa 26 (123)
T PF02367_consen 3 RLAKKLAQILKPGDVILLSGDLGA 26 (123)
T ss_dssp HHHHHHHHHHSS-EEEEEEESTTS
T ss_pred HHHHHHHHhCCCCCEEEEECCCCC
Confidence 689999999999999999999975
No 72
>PRK06461 single-stranded DNA-binding protein; Reviewed
Probab=43.07 E-value=26 Score=28.20 Aligned_cols=28 Identities=18% Similarity=0.241 Sum_probs=22.6
Q ss_pred eEEEEEechhHHHHHhhcCCCCeEEEE-EEeee
Q 027559 57 SILLAVGGDMAQLCQKHLKPNDFIYVT-GQLHS 88 (222)
Q Consensus 57 wI~Vv~WGklAE~~aqyLkKGD~V~Vs-GrL~s 88 (222)
-|.+++|++.|+ .+++||.|.|. |+.+.
T Consensus 52 ~I~~tlW~~~a~----~l~~GdvV~I~na~v~~ 80 (129)
T PRK06461 52 RVKLTLWGEQAG----SLKEGEVVEIENAWTTL 80 (129)
T ss_pred EEEEEEeCCccc----cCCCCCEEEEECcEEee
Confidence 389999999664 68999999999 55553
No 73
>PF12101 DUF3577: Protein of unknown function (DUF3577); InterPro: IPR021960 This family of proteins is functionally uncharacterised. This protein is found in bacteria. Proteins in this family are typically between 143 to 307 amino acids in length.
Probab=42.89 E-value=1.8e+02 Score=24.45 Aligned_cols=106 Identities=14% Similarity=0.130 Sum_probs=68.7
Q ss_pred CcchhHHHHHHHHhhhhhheeeeeeeeccceEEeeeeeccce-eeceeeeeEEEEEechhHHH----HHhhcCCCCeEEE
Q 027559 8 KDTSMFNLLLTLLGISIRLLIKLENIELNECVTMLDILLLII-HHLQCLSSILLAVGGDMAQL----CQKHLKPNDFIYV 82 (222)
Q Consensus 8 ~~~~~~~~~~~~~~~~i~~~~~~~~~~~~e~vt~~~iav~~r-~~~~~t~wI~Vv~WGklAE~----~aqyLkKGD~V~V 82 (222)
..+..|||-.+-+|- +|+.+.+. ...++....-+|++-.. .+..+..+|+|.+=|+-|.- |.+.+..+..|.|
T Consensus 5 ~~~~YFdLht~GiGY-LnriR~V~-~~kg~pFlac~I~AL~G~~d~~ey~~fD~~V~G~eA~~Lv~r~~~av~~~~KVli 82 (137)
T PF12101_consen 5 NEKKYFDLHTTGIGY-LNRIREVT-PRKGDPFLACTIAALRGPADNPEYRYFDCRVVGEEAKELVRRCQKAVDEDKKVLI 82 (137)
T ss_pred CccceEEEEEeeEEE-eccceEcc-CCCCCeeEEEEeeeeecCCCCccEEEEEEEEecHHHHHHHHHHHhhcccCCcEEE
Confidence 445566655443332 34444433 44555555556665554 45567788899999998854 5555677889987
Q ss_pred EEE---eeecccc----CCCCceEEEEEEEEeeEEeeecC
Q 027559 83 TGQ---LHSYSKV----DKNGKLCLCYKVVVEDFNYVREC 115 (222)
Q Consensus 83 sGr---L~sr~~~----dkdGq~rs~~eVvV~el~Fv~~k 115 (222)
.=+ |..+.|+ ++.|+...+.+=..=.|.+|.--
T Consensus 83 ~FrlgDl~~d~f~~~~G~~~Ge~g~sLKgRLl~i~~iKVd 122 (137)
T PF12101_consen 83 GFRLGDLWADTFTYKKGERAGEPGASLKGRLLKIKWIKVD 122 (137)
T ss_pred EEEecCCceeeEEeccCCcCCccceeeEEEEEEEEEEEEC
Confidence 644 4555665 56899998888888788887643
No 74
>smart00350 MCM minichromosome maintenance proteins.
Probab=42.64 E-value=60 Score=31.74 Aligned_cols=55 Identities=20% Similarity=0.234 Sum_probs=38.9
Q ss_pred eeeEEEEEechhHHHHHhhcCCCCeEEEEEEeeeccccCC----CCceEEEEEEEEeeEEeee
Q 027559 55 LSSILLAVGGDMAQLCQKHLKPNDFIYVTGQLHSYSKVDK----NGKLCLCYKVVVEDFNYVR 113 (222)
Q Consensus 55 t~wI~Vv~WGklAE~~aqyLkKGD~V~VsGrL~sr~~~dk----dGq~rs~~eVvV~el~Fv~ 113 (222)
.-.+.|++-+++++ .++.||.|.|.|-+..+.|..+ .+...+.+-+.|..++.+.
T Consensus 103 Prsi~v~l~~dLvd----~~~PGD~V~i~Gi~~~~~~~~~~~~~~~~~~~~~~l~a~~i~~~~ 161 (509)
T smart00350 103 PRSVDVILDGDLVD----KAKPGDRVEVTGIYRNIPYGFKLNTVKGLPVFATYIEANHVRKLD 161 (509)
T ss_pred CcEEEEEEcccccC----cccCCCEEEEEEEEEeeccccccccCCCcceeeEEEEEeEEEEcc
Confidence 35688999999987 5789999999999998765322 2222244666666776654
No 75
>TIGR00457 asnS asparaginyl-tRNA synthetase. In a multiple sequence alignment of representative asparaginyl-tRNA synthetases (asnS), archaeal/eukaryotic type aspartyl-tRNA synthetases (aspS_arch), and bacterial type aspartyl-tRNA synthetases (aspS_bact), there is a striking similarity between asnS and aspS_arch in gap pattern and in sequence, and a striking divergence of aspS_bact. Consequently, a separate model was built for each of the three groups. This model, asnS, represents asparaginyl-tRNA synthetases from the three domains of life. Some species lack this enzyme and charge tRNA(asn) by misacylation with Asp, followed by transamidation of Asp to Asn.
Probab=41.21 E-value=1.3e+02 Score=29.19 Aligned_cols=54 Identities=20% Similarity=0.230 Sum_probs=37.7
Q ss_pred eEEEEEechhHH---HHHhhcCCCCeEEEEEEeeeccccCCCCceEEEEEEEEeeEEeeecCC
Q 027559 57 SILLAVGGDMAQ---LCQKHLKPNDFIYVTGQLHSYSKVDKNGKLCLCYKVVVEDFNYVRECG 116 (222)
Q Consensus 57 wI~Vv~WGklAE---~~aqyLkKGD~V~VsGrL~sr~~~dkdGq~rs~~eVvV~el~Fv~~k~ 116 (222)
-|+|++-.+.++ ...+.|+.||.|.|+|.+.... .+.| .+||.|++++.+....
T Consensus 47 ~iQ~v~~~~~~~~~~~~~~~l~~gs~V~v~G~v~~~~--~~~~----~~El~~~~i~vl~~~~ 103 (453)
T TIGR00457 47 PIQAVINGEDNPYLFQLLKSLTTGSSVSVTGKVVESP--GKGQ----PVELQVKKIEVVGEAE 103 (453)
T ss_pred cEEEEEeCCcChHHHHHHHcCCCCcEEEEEEEEEcCC--CCCC----CEEEEEeEEEEEecCC
Confidence 467777554221 2335799999999999998632 1222 4899999999998653
No 76
>PLN02603 asparaginyl-tRNA synthetase
Probab=41.20 E-value=2.1e+02 Score=28.97 Aligned_cols=54 Identities=17% Similarity=0.178 Sum_probs=36.5
Q ss_pred eEEEEEechhH---HHHHhhcCCCCeEEEEEEeeeccccCCCCceEEEEEEEEeeEEeeecCC
Q 027559 57 SILLAVGGDMA---QLCQKHLKPNDFIYVTGQLHSYSKVDKNGKLCLCYKVVVEDFNYVRECG 116 (222)
Q Consensus 57 wI~Vv~WGklA---E~~aqyLkKGD~V~VsGrL~sr~~~dkdGq~rs~~eVvV~el~Fv~~k~ 116 (222)
-|+|++=.+.+ ......|..|+.|.|+|.+... +.|+ ..+||.|+++..|....
T Consensus 138 ~lQ~v~~~~~~~~~~l~~~~l~~gs~V~V~G~v~~~----~~~~--~~~EL~v~~i~vlg~a~ 194 (565)
T PLN02603 138 NMQCVMTPDAEGYDQVESGLITTGASVLVQGTVVSS----QGGK--QKVELKVSKIVVVGKSD 194 (565)
T ss_pred eEEEEEECcHHHHHHHhhcCCCCCCEEEEEEEEEec----CCCC--ccEEEEEeEEEEEECCC
Confidence 46777743322 1112248899999999999853 2233 35999999999998653
No 77
>PRK08402 replication factor A; Reviewed
Probab=40.79 E-value=25 Score=33.38 Aligned_cols=38 Identities=11% Similarity=-0.059 Sum_probs=29.3
Q ss_pred eeeeEEEEEechhHHHHHhhcCCCCeEEEEEEeeeccc
Q 027559 54 CLSSILLAVGGDMAQLCQKHLKPNDFIYVTGQLHSYSK 91 (222)
Q Consensus 54 ~t~wI~Vv~WGklAE~~aqyLkKGD~V~VsGrL~sr~~ 91 (222)
+|-.|++++|++.|......+..||-|.|.|--.++.|
T Consensus 108 eTG~ir~TlW~~~a~~~~~~l~~Gdvi~I~~a~V~e~~ 145 (355)
T PRK08402 108 DTGRARVVLWDAKVAKYYNKINVGDVIKVIDAQVRESL 145 (355)
T ss_pred CCCeEEEEEechhhhhhcccCCCCCEEEEECCEEeecC
Confidence 45578999999999876667999999999864444333
No 78
>TIGR00617 rpa1 replication factor-a protein 1 (rpa1). This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=39.28 E-value=37 Score=34.32 Aligned_cols=33 Identities=21% Similarity=0.180 Sum_probs=26.2
Q ss_pred eeEEEEEechhHHHHHhhcCCCCeEEEEEEeeeccc
Q 027559 56 SSILLAVGGDMAQLCQKHLKPNDFIYVTGQLHSYSK 91 (222)
Q Consensus 56 ~wI~Vv~WGklAE~~aqyLkKGD~V~VsGrL~sr~~ 91 (222)
.-|.|++||+.|+.+. ..+|+-|.+.|-... .|
T Consensus 350 ~sI~vTLWG~~A~~~~--~~~~~Vva~kg~~V~-~f 382 (608)
T TIGR00617 350 KSVRVTLWGDDATKFD--VSVQPVIAIKGVRVS-DF 382 (608)
T ss_pred CEEEEEEEhhhhhhcC--CCCCCEEEEEeEEEE-ec
Confidence 3589999999998876 788999999885444 44
No 79
>PLN02532 asparagine-tRNA synthetase
Probab=38.12 E-value=91 Score=32.10 Aligned_cols=54 Identities=17% Similarity=0.127 Sum_probs=39.2
Q ss_pred eEEEEEechhHHHHHhhcCCCCeEEEEEEeeeccccCCCCceEEEEEEEEeeEEeeecC
Q 027559 57 SILLAVGGDMAQLCQKHLKPNDFIYVTGQLHSYSKVDKNGKLCLCYKVVVEDFNYVREC 115 (222)
Q Consensus 57 wI~Vv~WGklAE~~aqyLkKGD~V~VsGrL~sr~~~dkdGq~rs~~eVvV~el~Fv~~k 115 (222)
.++|++-...+... +.|+.|+.|.|+|.+..+.- .+ ....+||.|++|..+...
T Consensus 148 ~lQvVv~~~~~~~~-~~L~~Es~V~V~G~V~~~~~---~~-~~g~iEl~v~~i~VLg~a 201 (633)
T PLN02532 148 SLQVVVDSALAPLT-QLMATGTCILAEGVLKLPLP---AQ-GKHVIELEVEKILHIGTV 201 (633)
T ss_pred ceEEEEeCCcccHh-hcCCCceEEEEEEEEEecCC---CC-CCCcEEEEeeEEEEEecC
Confidence 47888876655333 67999999999999987621 11 122489999999999853
No 80
>PRK06826 dnaE DNA polymerase III DnaE; Reviewed
Probab=37.46 E-value=1.7e+02 Score=32.21 Aligned_cols=50 Identities=10% Similarity=0.173 Sum_probs=39.6
Q ss_pred eEEEEEechhHHHHHhhcCCCCeEEEEEEeeeccccCCCCceEEEEEEEEeeEEeeec
Q 027559 57 SILLAVGGDMAQLCQKHLKPNDFIYVTGQLHSYSKVDKNGKLCLCYKVVVEDFNYVRE 114 (222)
Q Consensus 57 wI~Vv~WGklAE~~aqyLkKGD~V~VsGrL~sr~~~dkdGq~rs~~eVvV~el~Fv~~ 114 (222)
-+.|++|.+.-+.+...|..|..|.|+|++..+. +| ..+++|+++.-+..
T Consensus 1025 ~~e~~vfp~~~~~~~~~l~~~~~~~v~g~v~~~~----~~----~~~~~~~~~~~l~~ 1074 (1151)
T PRK06826 1025 TVEVIVFPKVYEKYRSLLNEDNIVLIKGRVSLRE----DE----EPKLICEEIEPLVI 1074 (1151)
T ss_pred cEEEEECHHHHHHHHHHhccCCEEEEEEEEEecC----CC----ceEEEEeeeecHhh
Confidence 4689999999999999999999999999997542 23 25777888766543
No 81
>PRK15491 replication factor A; Provisional
Probab=37.41 E-value=35 Score=32.47 Aligned_cols=31 Identities=23% Similarity=0.338 Sum_probs=26.7
Q ss_pred eeeEEEEEechhHHHHH-hhcCCCCeEEEEEE
Q 027559 55 LSSILLAVGGDMAQLCQ-KHLKPNDFIYVTGQ 85 (222)
Q Consensus 55 t~wI~Vv~WGklAE~~a-qyLkKGD~V~VsGr 85 (222)
|--|++++|++.|+.+. .-|..|+.|.|+|.
T Consensus 104 TG~ir~tlW~~~a~~~~~~~le~G~v~~I~~~ 135 (374)
T PRK15491 104 TGSIRLTLWDDLADLIKTGDIEVGKSLNISGY 135 (374)
T ss_pred CCeEEEEEECchhhhhccCCcCCCCEEEEeee
Confidence 33589999999999876 46999999999986
No 82
>TIGR00459 aspS_bact aspartyl-tRNA synthetase, bacterial type. In a multiple sequence alignment of representative asparaginyl-tRNA synthetases (asnS), archaeal/eukaryotic type aspartyl-tRNA synthetases (aspS_arch), and bacterial type aspartyl-tRNA synthetases (aspS_bact), there is a striking similarity between asnS and aspS_arch in gap pattern and in sequence, and a striking divergence of aspS_bact. Consequently, a separate model was built for each of the three groups. This model, aspS_bact, represents aspartyl-tRNA synthetases from the Bacteria and from mitochondria. In some species, this enzyme aminoacylates tRNA for both Asp and Asn; Asp-tRNA(asn) is subsequently transamidated to Asn-tRNA(asn). This model generates very low scores for the archaeal type of aspS and for asnS; scores between the trusted and noise cutoffs represent fragmentary sequences.
Probab=37.41 E-value=1.5e+02 Score=30.16 Aligned_cols=59 Identities=15% Similarity=0.158 Sum_probs=38.2
Q ss_pred eEEEEEech-hHHHHHhhcCCCCeEEEEEEeeeccccCCCC-ceEEEEEEEEeeEEeeecC
Q 027559 57 SILLAVGGD-MAQLCQKHLKPNDFIYVTGQLHSYSKVDKNG-KLCLCYKVVVEDFNYVREC 115 (222)
Q Consensus 57 wI~Vv~WGk-lAE~~aqyLkKGD~V~VsGrL~sr~~~dkdG-q~rs~~eVvV~el~Fv~~k 115 (222)
-|+|++-.+ -+...++.|+.||.|.|+|.+..+.-...+- ...-.+||.|++++.+...
T Consensus 44 ~iQvv~~~~~~~~~~~~~L~~esvV~V~G~v~~r~~~~~n~~~~tg~iEl~~~~i~iL~~a 104 (583)
T TIGR00459 44 IVQVVCDPDADALKLAKGLRNEDVVQVKGKVSARPEGNINRNLDTGEIEILAESITLLNKS 104 (583)
T ss_pred cEEEEEeCCHHHHHHHhcCCCCCEEEEEEEEEeCCccccCccCCCCcEEEEEeEEEEeecC
Confidence 467777544 1122346799999999999998654211111 1112489999999999754
No 83
>PRK10646 ADP-binding protein; Provisional
Probab=36.98 E-value=28 Score=29.28 Aligned_cols=26 Identities=23% Similarity=0.252 Sum_probs=23.5
Q ss_pred chhHHHHHhhcCCCCeEEEEEEeeec
Q 027559 64 GDMAQLCQKHLKPNDFIYVTGQLHSY 89 (222)
Q Consensus 64 GklAE~~aqyLkKGD~V~VsGrL~sr 89 (222)
.++|+.+++.|+.|+.|++.|.|..-
T Consensus 15 ~~l~~~la~~l~~g~vi~L~GdLGaG 40 (153)
T PRK10646 15 LDLGARVAKACDGATVIYLYGDLGAG 40 (153)
T ss_pred HHHHHHHHHhCCCCcEEEEECCCCCC
Confidence 57899999999999999999999763
No 84
>PRK12366 replication factor A; Reviewed
Probab=36.72 E-value=52 Score=33.42 Aligned_cols=47 Identities=15% Similarity=0.263 Sum_probs=33.5
Q ss_pred eEEEEEechhHHHHHhhcCCCCeEEEEE-EeeeccccCCCCceEEEEEEEEee
Q 027559 57 SILLAVGGDMAQLCQKHLKPNDFIYVTG-QLHSYSKVDKNGKLCLCYKVVVED 108 (222)
Q Consensus 57 wI~Vv~WGklAE~~aqyLkKGD~V~VsG-rL~sr~~~dkdGq~rs~~eVvV~e 108 (222)
=|.+++|++.|+.... |..||-|+|+| +++ .|.+..|+. .+++.+.+
T Consensus 329 ~IR~t~w~~~~d~~~~-l~~G~vy~is~~~vk--~y~~~~~~~--~~El~~~~ 376 (637)
T PRK12366 329 RVRVSFWGEKAKILEN-LKEGDAVKIENCKVR--TYYDNEGEK--RVDLNAGY 376 (637)
T ss_pred eEEEEEeCchhhhhcc-cCCCCEEEEecCEEe--eccccCCCc--CEEEEcCC
Confidence 4899999999998875 78999999998 444 454334442 35555543
No 85
>smart00528 HNS Domain in histone-like proteins of HNS family.
Probab=36.29 E-value=48 Score=22.66 Aligned_cols=33 Identities=21% Similarity=0.551 Sum_probs=24.8
Q ss_pred CCCCCCCCCccCC-CCceeeeCC-CCCccHHHhhhh
Q 027559 163 KLYPGAPDFKHKS-TGEALWLDP-KDPPWVKKQLQR 196 (222)
Q Consensus 163 K~n~k~pDFkhk~-tg~aLWl~~-~~P~wv~~~L~~ 196 (222)
|+.+..|-|.|.+ +|+ -|=.. ..|.|+.+.|+.
T Consensus 3 ~~~~~~~KYr~p~~~g~-tWsGrGr~P~W~~~~l~~ 37 (46)
T smart00528 3 KRAARPAKYRYPDNNGE-TWSGRGRTPRWLAAALDS 37 (46)
T ss_pred CCCCCCCccCCCCCCCC-cccCCCCCCHHHHHHHHc
Confidence 4556677788865 777 89974 679999988754
No 86
>COG0802 Predicted ATPase or kinase [General function prediction only]
Probab=35.53 E-value=32 Score=29.05 Aligned_cols=26 Identities=19% Similarity=0.298 Sum_probs=23.3
Q ss_pred chhHHHHHhhcCCCCeEEEEEEeeec
Q 027559 64 GDMAQLCQKHLKPNDFIYVTGQLHSY 89 (222)
Q Consensus 64 GklAE~~aqyLkKGD~V~VsGrL~sr 89 (222)
.++|+..++.|++||.|+.+|-|..-
T Consensus 12 ~~lg~~l~~~l~~g~Vv~L~GdLGAG 37 (149)
T COG0802 12 LALGERLAEALKAGDVVLLSGDLGAG 37 (149)
T ss_pred HHHHHHHHhhCCCCCEEEEEcCCcCC
Confidence 46899999999999999999999763
No 87
>TIGR00150 HI0065_YjeE ATPase, YjeE family. Members of this family have a conserved nucleotide-binding motif GXXGXGKT and a nucleotide-binding fold. Member protein YjeE of Haemophilus influenzae (HI0065) was shown to have ATPase activity.
Probab=34.69 E-value=34 Score=28.00 Aligned_cols=26 Identities=15% Similarity=0.226 Sum_probs=23.2
Q ss_pred chhHHHHHhhcCCCCeEEEEEEeeec
Q 027559 64 GDMAQLCQKHLKPNDFIYVTGQLHSY 89 (222)
Q Consensus 64 GklAE~~aqyLkKGD~V~VsGrL~sr 89 (222)
.++|+.+++.|++|+.|.+.|.|.+-
T Consensus 9 ~~l~~~l~~~l~~~~~i~l~G~lGaG 34 (133)
T TIGR00150 9 DKFGKAFAKPLDFGTVVLLKGDLGAG 34 (133)
T ss_pred HHHHHHHHHhCCCCCEEEEEcCCCCC
Confidence 46899999999999999999999763
No 88
>PRK06394 rpl13p 50S ribosomal protein L13P; Reviewed
Probab=34.42 E-value=34 Score=28.73 Aligned_cols=23 Identities=17% Similarity=0.293 Sum_probs=20.1
Q ss_pred EechhHHHHHhhcCCCCeEEEEE
Q 027559 62 VGGDMAQLCQKHLKPNDFIYVTG 84 (222)
Q Consensus 62 ~WGklAE~~aqyLkKGD~V~VsG 84 (222)
.-|++|..+|..|.-||.|.|.-
T Consensus 13 vlGRLAs~IA~~L~~Gd~VVViN 35 (146)
T PRK06394 13 ILGRLASYVAKRLLEGEEVVIVN 35 (146)
T ss_pred chHHHHHHHHHHHhCCCEEEEEe
Confidence 34899999999999999998865
No 89
>PRK05159 aspC aspartyl-tRNA synthetase; Provisional
Probab=34.22 E-value=1.3e+02 Score=28.95 Aligned_cols=53 Identities=23% Similarity=0.302 Sum_probs=36.8
Q ss_pred EEEEEechh---HHHHHhhcCCCCeEEEEEEeeeccccCCCCceEEEEEEEEeeEEeeecCC
Q 027559 58 ILLAVGGDM---AQLCQKHLKPNDFIYVTGQLHSYSKVDKNGKLCLCYKVVVEDFNYVRECG 116 (222)
Q Consensus 58 I~Vv~WGkl---AE~~aqyLkKGD~V~VsGrL~sr~~~dkdGq~rs~~eVvV~el~Fv~~k~ 116 (222)
|.|++=.+. .....+.|..||.|.|+|.+....- ..| .++|.|+++..+....
T Consensus 46 iQ~v~~~~~~~~~~~~~~~L~~gs~V~v~G~v~~~~~--~~~----~~el~~~~i~vls~a~ 101 (437)
T PRK05159 46 IQVVVKKKVDEELFETIKKLKRESVVSVTGTVKANPK--APG----GVEVIPEEIEVLNKAE 101 (437)
T ss_pred EEEEEeCCccHHHHHHHhCCCCCcEEEEEEEEEcCCC--CCC----CEEEEEeEEEEEeCCC
Confidence 677775432 1123457999999999999986431 112 4889999999998654
No 90
>TIGR01077 L13_A_E ribosomal protein L13, archaeal/eukaryotic. This model represents ribosomal protein of L13 from the Archaea and from the eukaryotic cytosol. Bacterial and organellar forms are represented by TIGR01066.
Probab=34.13 E-value=35 Score=28.50 Aligned_cols=22 Identities=23% Similarity=0.303 Sum_probs=19.8
Q ss_pred echhHHHHHhhcCCCCeEEEEE
Q 027559 63 GGDMAQLCQKHLKPNDFIYVTG 84 (222)
Q Consensus 63 WGklAE~~aqyLkKGD~V~VsG 84 (222)
-|++|..+|..|.-||.|.|.-
T Consensus 10 lGRLAs~IA~~L~~Gd~VvViN 31 (142)
T TIGR01077 10 LGRLASVVAKQLLNGEKVVVVN 31 (142)
T ss_pred hHHHHHHHHHHHhcCCEEEEEe
Confidence 4899999999999999998865
No 91
>TIGR00458 aspS_arch aspartyl-tRNA synthetase, archaeal type. In a multiple sequence alignment of representative asparaginyl-tRNA synthetases (asnS), archaeal/eukaryotic type aspartyl-tRNA synthetases (aspS_arch), and bacterial type aspartyl-tRNA synthetases (aspS_bact), there is a striking similarity between asnS and aspS_arch in gap pattern and in sequence, and a striking divergence of aspS_bact. Consequently, a separate model was built for each of the three groups. This model, aspS_arch, represents aspartyl-tRNA synthetases from the eukaryotic cytosol and from the Archaea. In some species, this enzyme aminoacylates tRNA for both Asp and Asn; Asp-tRNA(asn) is subsequently transamidated to Asn-tRNA(asn).
Probab=33.67 E-value=69 Score=30.82 Aligned_cols=53 Identities=15% Similarity=0.281 Sum_probs=36.3
Q ss_pred eEEEEEech-hHHH---HHhhcCCCCeEEEEEEeeeccccCCCCceEEEEEEEEeeEEeeecC
Q 027559 57 SILLAVGGD-MAQL---CQKHLKPNDFIYVTGQLHSYSKVDKNGKLCLCYKVVVEDFNYVREC 115 (222)
Q Consensus 57 wI~Vv~WGk-lAE~---~aqyLkKGD~V~VsGrL~sr~~~dkdGq~rs~~eVvV~el~Fv~~k 115 (222)
-|.|++-.+ .++. ....|..||.|.|+|.+....- +.| .++|.|++++.+...
T Consensus 41 ~iQ~v~~~~~~~~~~~~~~~~l~~~s~v~v~G~v~~~~~--~~~----~~el~~~~i~vl~~~ 97 (428)
T TIGR00458 41 LIQITAPAKKVSKNLFKWAKKLNLESVVAVRGIVKIKEK--APG----GFEIIPTKIEVINEA 97 (428)
T ss_pred eEEEEEECCcCCHHHHHHHhCCCCCcEEEEEEEEEecCC--CCC----cEEEEEeEEEEEecC
Confidence 467777533 1111 2356999999999999985321 122 499999999999865
No 92
>TIGR00499 lysS_bact lysyl-tRNA synthetase, eukaryotic and non-spirochete bacterial. This model represents the lysyl-tRNA synthetases that are class II amino-acyl tRNA synthetases. It includes all eukaryotic and most bacterial examples of the enzyme, but not archaeal or spirochete forms.
Probab=32.71 E-value=1.2e+02 Score=29.99 Aligned_cols=50 Identities=28% Similarity=0.361 Sum_probs=34.2
Q ss_pred EEEEEech-hHH----HHHhhcCCCCeEEEEEEeeeccccCCCCceEEEEEEEEeeEEeeecC
Q 027559 58 ILLAVGGD-MAQ----LCQKHLKPNDFIYVTGQLHSYSKVDKNGKLCLCYKVVVEDFNYVREC 115 (222)
Q Consensus 58 I~Vv~WGk-lAE----~~aqyLkKGD~V~VsGrL~sr~~~dkdGq~rs~~eVvV~el~Fv~~k 115 (222)
|+|++-.+ +.+ .+...|..||.|.|+|.+.. .+.|+ ++|.|+++..+.+.
T Consensus 83 iQ~~~~~~~~~~~~~~~~~~~l~~gd~V~v~G~~~~----t~~ge----lel~~~~i~ilsk~ 137 (496)
T TIGR00499 83 IQLYVNKDDLPEDFYEFDEYLLDLGDIIGVTGYPFK----TKTGE----LSVHVTELQILTKA 137 (496)
T ss_pred EEEEEECCcCcHHHHHHHHhcCCCCCEEEEEEEEEE----CCCCc----EEEEeeEEEEEecC
Confidence 66666422 222 23334899999999999953 23444 89999999998764
No 93
>PTZ00385 lysyl-tRNA synthetase; Provisional
Probab=32.43 E-value=1.6e+02 Score=30.59 Aligned_cols=51 Identities=12% Similarity=0.096 Sum_probs=36.3
Q ss_pred eeEEEEEech------hHHHHHhhcCCCCeEEEEEEeeeccccCCCCceEEEEEEEEeeEEeeec
Q 027559 56 SSILLAVGGD------MAQLCQKHLKPNDFIYVTGQLHSYSKVDKNGKLCLCYKVVVEDFNYVRE 114 (222)
Q Consensus 56 ~wI~Vv~WGk------lAE~~aqyLkKGD~V~VsGrL~sr~~~dkdGq~rs~~eVvV~el~Fv~~ 114 (222)
--|+|++-.+ ..+.+.+.|..||.|.|+|.+... +.|+ ++|.|+++.++..
T Consensus 135 G~IQvv~~~~~~~~~~~~~~~~~~l~~gdiV~V~G~v~~t----~~Ge----leI~~~~i~lLsk 191 (659)
T PTZ00385 135 NELQVVGQVGEHFTREDLKKLKVSLRVGDIIGADGVPCRM----QRGE----LSVAASRMLILSP 191 (659)
T ss_pred ceEEEEEECCccCCHHHHHHHHhCCCCCCEEEEEEEEEec----CCce----EEEEeeEEEEech
Confidence 3567777432 223344569999999999988742 3454 7999999999875
No 94
>PRK00476 aspS aspartyl-tRNA synthetase; Validated
Probab=31.87 E-value=1.8e+02 Score=29.48 Aligned_cols=59 Identities=17% Similarity=0.222 Sum_probs=37.9
Q ss_pred eEEEEEechhHHH--HHhhcCCCCeEEEEEEeeeccccCCCCce-EEEEEEEEeeEEeeecCC
Q 027559 57 SILLAVGGDMAQL--CQKHLKPNDFIYVTGQLHSYSKVDKNGKL-CLCYKVVVEDFNYVRECG 116 (222)
Q Consensus 57 wI~Vv~WGklAE~--~aqyLkKGD~V~VsGrL~sr~~~dkdGq~-rs~~eVvV~el~Fv~~k~ 116 (222)
.++|++-.. .+. .+..|+.|+.|.|+|.+..+.-...+-.. .-.+||.|++++.+....
T Consensus 46 ~iQ~v~~~~-~~~~~~~~~l~~es~V~V~G~v~~~~~~~~n~~~~~g~~El~~~~i~il~~a~ 107 (588)
T PRK00476 46 IVQVVFDPD-AEAFEVAESLRSEYVIQVTGTVRARPEGTVNPNLPTGEIEVLASELEVLNKSK 107 (588)
T ss_pred eEEEEEeCC-HHHHHHHhCCCCCCEEEEEEEEEecCCcccCccCCCCcEEEEEeEEEEEecCC
Confidence 367776432 222 24579999999999999865321111111 124899999999998654
No 95
>PRK06920 dnaE DNA polymerase III DnaE; Reviewed
Probab=31.37 E-value=2.1e+02 Score=31.45 Aligned_cols=50 Identities=12% Similarity=0.093 Sum_probs=40.0
Q ss_pred eeeEEEEEechhHHHHHhhcCCCCeEEEEEEeeeccccCCCCceEEEEEEEEeeEEeee
Q 027559 55 LSSILLAVGGDMAQLCQKHLKPNDFIYVTGQLHSYSKVDKNGKLCLCYKVVVEDFNYVR 113 (222)
Q Consensus 55 t~wI~Vv~WGklAE~~aqyLkKGD~V~VsGrL~sr~~~dkdGq~rs~~eVvV~el~Fv~ 113 (222)
+--+.|++|-+.-+.+...|..|..|.|.|++..+ +| ..+++|+++.-+.
T Consensus 975 tg~~e~~vFp~~y~~~~~~l~~~~~~~v~G~v~~~-----~~----~~~~~~~~i~~l~ 1024 (1107)
T PRK06920 975 NDEMEAVVFPETYIHFSDKLQEGAIVLVDGTIELR-----NH----KLQWIVNGLYPLE 1024 (1107)
T ss_pred CCcEEEEECHHHHHHHHHHhccCCEEEEEEEEEec-----CC----cEEEEEeecccHH
Confidence 33468999999999999999999999999999753 22 2567788887664
No 96
>PRK13480 3'-5' exoribonuclease YhaM; Provisional
Probab=31.08 E-value=1.3e+02 Score=28.04 Aligned_cols=47 Identities=15% Similarity=0.265 Sum_probs=33.0
Q ss_pred eEEEEEechhHHHHHhhcCCCCeEEEEEEeeeccccCCCCceEEEEEEEEeeEEeee
Q 027559 57 SILLAVGGDMAQLCQKHLKPNDFIYVTGQLHSYSKVDKNGKLCLCYKVVVEDFNYVR 113 (222)
Q Consensus 57 wI~Vv~WGklAE~~aqyLkKGD~V~VsGrL~sr~~~dkdGq~rs~~eVvV~el~Fv~ 113 (222)
-|+..+|+..-+. .+.++.|+.|.|.|++..+ .|+ .++.++.+..+.
T Consensus 45 ~I~ak~W~~~~~~-~~~~~~g~vv~v~G~v~~y-----~g~----~Ql~i~~i~~~~ 91 (314)
T PRK13480 45 DIEAKLWDVSPED-EATYVPETIVHVKGDIINY-----RGR----KQLKVNQIRLAT 91 (314)
T ss_pred EEEEEeCCCChhh-HhhcCCCCEEEEEEEEEEE-----CCc----ceEEEEEeEECC
Confidence 3678889875444 6679999999999999864 344 335555666554
No 97
>PRK05672 dnaE2 error-prone DNA polymerase; Validated
Probab=30.68 E-value=1.3e+02 Score=32.55 Aligned_cols=50 Identities=10% Similarity=0.173 Sum_probs=40.0
Q ss_pred eeEEEEEechhHHHHHhhcCCCCeEEEEEEeeeccccCCCCceEEEEEEEEeeEEeeec
Q 027559 56 SSILLAVGGDMAQLCQKHLKPNDFIYVTGQLHSYSKVDKNGKLCLCYKVVVEDFNYVRE 114 (222)
Q Consensus 56 ~wI~Vv~WGklAE~~aqyLkKGD~V~VsGrL~sr~~~dkdGq~rs~~eVvV~el~Fv~~ 114 (222)
--++|++|.++-+.+...|+.|..|.|.|+++.+ +|. ++++|+++.-++.
T Consensus 984 g~~e~~ifp~~~~~~~~~l~~~~~~~v~g~v~~~-----~~~----~~~~~~~i~~~~~ 1033 (1046)
T PRK05672 984 GMVNVVVWPGLWERQRREALGARLLLVRGRVQNA-----EGV----RHLVADRLEDLSP 1033 (1046)
T ss_pred CCEEEEECHHHHHHHHHHhccCCEEEEEEEEEec-----CCe----EEEEEeeeechHH
Confidence 3468999999999999999999999999999753 232 5788888865543
No 98
>PRK12366 replication factor A; Reviewed
Probab=30.62 E-value=48 Score=33.70 Aligned_cols=28 Identities=36% Similarity=0.402 Sum_probs=25.1
Q ss_pred eEEEEEechhHHHHHhhcCCCCeEEEEEE
Q 027559 57 SILLAVGGDMAQLCQKHLKPNDFIYVTGQ 85 (222)
Q Consensus 57 wI~Vv~WGklAE~~aqyLkKGD~V~VsGr 85 (222)
-|.+++|++.|+. ...|..||.|.|+|-
T Consensus 112 ~Ir~t~W~~~~~~-~~~le~G~v~~i~~~ 139 (637)
T PRK12366 112 TIRLTLWNDNAKL-LKGLKEGDVIKIENA 139 (637)
T ss_pred EEEEEEEchhhhh-hccCCCCCEEEEecc
Confidence 5899999999987 468999999999985
No 99
>PF12869 tRNA_anti-like: tRNA_anti-like; InterPro: IPR024422 The function of the proteins in this entry is not known, but they contain a novel variant of the nucleic acid-binding OB fold [].; PDB: 3F1Z_I.
Probab=30.45 E-value=65 Score=25.36 Aligned_cols=36 Identities=17% Similarity=0.251 Sum_probs=18.6
Q ss_pred eeeEEEEEechh-HHHHHhhcCCCCeEEEEEEeeecc
Q 027559 55 LSSILLAVGGDM-AQLCQKHLKPNDFIYVTGQLHSYS 90 (222)
Q Consensus 55 t~wI~Vv~WGkl-AE~~aqyLkKGD~V~VsGrL~sr~ 90 (222)
...+.|.+=... .......|+|||.|.|.|......
T Consensus 97 ~~~v~~~~~~~~~~~~~~~~l~~G~~Vti~G~~~g~~ 133 (144)
T PF12869_consen 97 FAGVQCYFSNDQEKRASVAKLKKGQKVTIKGICTGYS 133 (144)
T ss_dssp S-S--EEEEEEGGGHHHHHH--TTSEEEEEEE-----
T ss_pred ceeEEEEEccchhhhhhHhcCCCCCEEEEEEEEEeee
Confidence 344556665555 344556799999999999988653
No 100
>PF00970 FAD_binding_6: Oxidoreductase FAD-binding domain; InterPro: IPR008333 These sequences contain an oxidoreductase FAD-binding domain. To date, the 3D-structures of the flavoprotein domain of Zea mays (Maize) nitrate reductase [] and of pig NADH:cytochrome b5 reductase [] have been solved. The overall fold is similar to that of ferredoxin:NADP+ reductase []: the FAD-binding domain (N-terminal) has the topology of an anti-parallel beta-barrel, while the NAD(P)-binding domain (C-terminal) has the topology of a classical pyridine dinucleotide-binding fold (i.e. a central parallel beta-sheet flanked by 2 helices on each side).; PDB: 1JB9_A 3LVB_A 3LO8_A 1FRN_A 1FND_A 1BX1_A 1FNC_A 1FNB_A 1BX0_A 1FRQ_A ....
Probab=29.50 E-value=1.1e+02 Score=22.19 Aligned_cols=32 Identities=19% Similarity=0.323 Sum_probs=24.3
Q ss_pred eeEEEEEe--chhHHHHHhhcCCCCeEEEEEEeee
Q 027559 56 SSILLAVG--GDMAQLCQKHLKPNDFIYVTGQLHS 88 (222)
Q Consensus 56 ~wI~Vv~W--GklAE~~aqyLkKGD~V~VsGrL~s 88 (222)
.-|-|-.. |..+..+. .|+.||.|.|+|-+..
T Consensus 63 ~~~~ik~~~~G~~S~~L~-~l~~Gd~v~i~gP~G~ 96 (99)
T PF00970_consen 63 LEFAIKRYPNGRVSRYLH-QLKPGDEVEIRGPYGN 96 (99)
T ss_dssp EEEEEEECTTSHHHHHHH-TSCTTSEEEEEEEESS
T ss_pred EEEEEEeccCCHHHHHHH-hCCCCCEEEEEEcccc
Confidence 34456666 88888885 5999999999997654
No 101
>PLN02221 asparaginyl-tRNA synthetase
Probab=29.13 E-value=2e+02 Score=29.19 Aligned_cols=55 Identities=15% Similarity=0.123 Sum_probs=38.8
Q ss_pred eEEEEEechhHHHHHhhcCCCCeEEEEEEeeeccccCCCCceEEEEEEEEeeEEeeecC
Q 027559 57 SILLAVGGDMAQLCQKHLKPNDFIYVTGQLHSYSKVDKNGKLCLCYKVVVEDFNYVREC 115 (222)
Q Consensus 57 wI~Vv~WGklAE~~aqyLkKGD~V~VsGrL~sr~~~dkdGq~rs~~eVvV~el~Fv~~k 115 (222)
.|+|++-.+.. ...+.|+.|+.|.|.|.+....- . .|.+. .+||.|+++..|...
T Consensus 83 ~iQvVv~~~~~-~~~~~L~~ES~V~V~G~V~~~~~-~-~~~~~-~iEl~v~~i~vl~~a 137 (572)
T PLN02221 83 NLQVMVDSSLY-DLSTLVATGTCVTVDGVLKVPPE-G-KGTKQ-KIELSVEKVIDVGTV 137 (572)
T ss_pred cEEEEEcCchh-hHHhcCCCceEEEEEEEEEeCCc-c-CCCCc-cEEEEEeEEEEEecC
Confidence 57888755433 23346899999999999986542 1 23222 699999999999854
No 102
>cd00392 Ribosomal_L13 Ribosomal protein L13. Protein L13, a large ribosomal subunit protein, is one of five proteins required for an early folding intermediate of 23S rRNA in the assembly of the large subunit. L13 is situated on the bottom of the large subunit, near the polypeptide exit site. It interacts with proteins L3 and L6, and forms an extensive network of interactions with 23S rRNA. L13 has been identified as a homolog of the human breast basic conserved protein 1 (BBC1), a protein identified through its increased expression in breast cancer. L13 expression is also upregulated in a variety of human gastrointestinal cancers, suggesting it may play a role in the etiology of a variety of human malignancies.
Probab=28.77 E-value=46 Score=26.71 Aligned_cols=14 Identities=29% Similarity=0.159 Sum_probs=12.2
Q ss_pred echhHHHHHhhcCC
Q 027559 63 GGDMAQLCQKHLKP 76 (222)
Q Consensus 63 WGklAE~~aqyLkK 76 (222)
-|++|..+|..|.-
T Consensus 11 lGRlAs~iA~~L~g 24 (114)
T cd00392 11 LGRLASKVAKLLLG 24 (114)
T ss_pred hHHHHHHHHHHHcC
Confidence 48999999999975
No 103
>KOG0479 consensus DNA replication licensing factor, MCM3 component [Replication, recombination and repair]
Probab=28.34 E-value=93 Score=32.51 Aligned_cols=55 Identities=16% Similarity=0.328 Sum_probs=41.3
Q ss_pred eEEEEEechhHHHHHhhcCCCCeEEEEEEeeeccccCCCCce--EEEEEEEEeeEEeeecCC
Q 027559 57 SILLAVGGDMAQLCQKHLKPNDFIYVTGQLHSYSKVDKNGKL--CLCYKVVVEDFNYVRECG 116 (222)
Q Consensus 57 wI~Vv~WGklAE~~aqyLkKGD~V~VsGrL~sr~~~dkdGq~--rs~~eVvV~el~Fv~~k~ 116 (222)
-|+|++=.+|+. -+|+||+|.|.|..++-.-. .+|+. ...+-+++++|..+....
T Consensus 214 SVDvilddDLVD----~~KPGDRV~ivG~yr~Lp~k-~~g~tsg~FRTvliaNni~~l~ke~ 270 (818)
T KOG0479|consen 214 SVDVILDDDLVD----RVKPGDRVNIVGIYRSLPGK-SNGNTSGTFRTVLIANNIELLSKEA 270 (818)
T ss_pred ceeEEecccccc----cCCCCCeeEEEEEEeeccCc-cCCcccceeEEEEEeccHHhhcccc
Confidence 457899888876 68999999999988765542 23432 345778999999997654
No 104
>PTZ00111 DNA replication licensing factor MCM4; Provisional
Probab=27.65 E-value=1.6e+02 Score=31.81 Aligned_cols=55 Identities=22% Similarity=0.196 Sum_probs=37.5
Q ss_pred eeEEEEEechhHHHHHhhcCCCCeEEEEEEeeecccc-C---CCCceEEEEEEEEeeEEeeec
Q 027559 56 SSILLAVGGDMAQLCQKHLKPNDFIYVTGQLHSYSKV-D---KNGKLCLCYKVVVEDFNYVRE 114 (222)
Q Consensus 56 ~wI~Vv~WGklAE~~aqyLkKGD~V~VsGrL~sr~~~-d---kdGq~rs~~eVvV~el~Fv~~ 114 (222)
.-|.|++-++|+. .+++||+|.|.|-+....-. . +.....+.+-|.|..++.+..
T Consensus 346 rsi~v~l~dDLVD----~v~PGDrV~VtGIl~~~~~~~~~~~~~~~~~~~~yl~~~~i~~~~~ 404 (915)
T PTZ00111 346 EVINLNLYDDLID----SVKTGDRVTVVGILKVTPIRTSTTRRTLKSLYTYFVNVIHVKVINS 404 (915)
T ss_pred ceEEEEEecchhc----cCCCCCEEEEEEEEEeccccccccccccccccceEEEEEEEEEecc
Confidence 5588999999987 57899999999999875421 1 111233445556667776644
No 105
>PRK07374 dnaE DNA polymerase III subunit alpha; Validated
Probab=27.45 E-value=2.6e+02 Score=30.95 Aligned_cols=48 Identities=13% Similarity=0.124 Sum_probs=38.7
Q ss_pred eEEEEEechhHHHHHhhcCCCCeEEEEEEeeeccccCCCCceEEEEEEEEeeEEeee
Q 027559 57 SILLAVGGDMAQLCQKHLKPNDFIYVTGQLHSYSKVDKNGKLCLCYKVVVEDFNYVR 113 (222)
Q Consensus 57 wI~Vv~WGklAE~~aqyLkKGD~V~VsGrL~sr~~~dkdGq~rs~~eVvV~el~Fv~ 113 (222)
-+.|++|-++=+.+...|+.|..|.|+|++..+ +| ..+++|+++.-+.
T Consensus 1034 ~~e~vvFp~~y~~~~~~l~~~~~~~v~g~v~~~-----~~----~~~~~~~~i~~l~ 1081 (1170)
T PRK07374 1034 SCEAVVFPKSYERLSDHLMTDTRLLVWAKVDRR-----DD----RVQLIIDDCREID 1081 (1170)
T ss_pred CEEEEECHHHHHHHHHHhccCCEEEEEEEEEec-----CC----eEEEEEeeeecHh
Confidence 368999999999999999999999999999653 23 2567788776554
No 106
>PTZ00401 aspartyl-tRNA synthetase; Provisional
Probab=27.31 E-value=2.4e+02 Score=28.45 Aligned_cols=58 Identities=12% Similarity=0.124 Sum_probs=38.1
Q ss_pred eEEEEEe--chhHHHH---HhhcCCCCeEEEEEEeeeccccCCCCceEEEEEEEEeeEEeeecC
Q 027559 57 SILLAVG--GDMAQLC---QKHLKPNDFIYVTGQLHSYSKVDKNGKLCLCYKVVVEDFNYVREC 115 (222)
Q Consensus 57 wI~Vv~W--GklAE~~---aqyLkKGD~V~VsGrL~sr~~~dkdGq~rs~~eVvV~el~Fv~~k 115 (222)
.|.|++- +...+.+ +..|..|+.|.|+|.+....-.- .......+||.|+++..|...
T Consensus 107 ~iQ~v~~~~~~~~~~~~~~~~~l~~esiV~V~G~v~~~~~~~-~~~~~~~~El~v~~i~vls~a 169 (550)
T PTZ00401 107 SVQAMAAVEGDVPKEMIDFIGQIPTESIVDVEATVCKVEQPI-TSTSHSDIELKVKKIHTVTES 169 (550)
T ss_pred CEEEEEECCCccCHHHHHHHhcCCCCCEEEEEEEEEecCccC-CCCCCccEEEEeeEEEEEeCC
Confidence 4666662 2232222 34599999999999998753221 223344699999999988765
No 107
>PRK07279 dnaE DNA polymerase III DnaE; Reviewed
Probab=27.13 E-value=3.5e+02 Score=29.62 Aligned_cols=48 Identities=15% Similarity=0.338 Sum_probs=38.6
Q ss_pred eEEEEEechhHHHHHhhcCCCCeEEEEEEeeeccccCCCCceEEEEEEEEeeEEeee
Q 027559 57 SILLAVGGDMAQLCQKHLKPNDFIYVTGQLHSYSKVDKNGKLCLCYKVVVEDFNYVR 113 (222)
Q Consensus 57 wI~Vv~WGklAE~~aqyLkKGD~V~VsGrL~sr~~~dkdGq~rs~~eVvV~el~Fv~ 113 (222)
-+.|++|.+.-+.+...|..|..|.|.|++..+ +| ..+++|+++.-+.
T Consensus 919 ~ie~~vFp~~y~~~~~~l~~~~~~~v~G~v~~~-----~~----~~~l~~~~i~~l~ 966 (1034)
T PRK07279 919 KLDVTLFPETYRQYKDELKEGKFYYLKGKIQER-----DG----RLQMVLQQIQEAS 966 (1034)
T ss_pred cEEEEECHHHHHHHHHHhccCCEEEEEEEEEec-----CC----eeEEEEeeeeccc
Confidence 368999999989999999999999999999763 22 2567788876554
No 108
>cd04486 YhcR_OBF_like YhcR_OBF_like: A subfamily of OB-fold domains similar to the OB folds of Bacillus subtilis YhcR. YhcR is a sugar-nonspecific nuclease, which is active in the presence of Ca2+ and Mn2+. It cleaves RNA endonucleolytically, producing 3'-monophosphate nucleosides. YhcR appears to be the major Ca2+ activated nuclease of B. subtilis. YhcR may be localized in the cell wall.
Probab=26.68 E-value=66 Score=23.74 Aligned_cols=19 Identities=26% Similarity=0.510 Sum_probs=16.2
Q ss_pred HhhcCCCCeEEEEEEeeec
Q 027559 71 QKHLKPNDFIYVTGQLHSY 89 (222)
Q Consensus 71 aqyLkKGD~V~VsGrL~sr 89 (222)
...++.||+|.|+|++.-+
T Consensus 42 ~~~~~~Gd~V~vtG~v~ey 60 (78)
T cd04486 42 GADVAVGDLVRVTGTVTEY 60 (78)
T ss_pred CCCCCCCCEEEEEEEEEee
Confidence 4578999999999999854
No 109
>PLN02850 aspartate-tRNA ligase
Probab=26.17 E-value=1.4e+02 Score=29.92 Aligned_cols=57 Identities=16% Similarity=0.120 Sum_probs=37.8
Q ss_pred eEEEEEechh---HHH---HHhhcCCCCeEEEEEEeeeccccCCCCceEEEEEEEEeeEEeeecC
Q 027559 57 SILLAVGGDM---AQL---CQKHLKPNDFIYVTGQLHSYSKVDKNGKLCLCYKVVVEDFNYVREC 115 (222)
Q Consensus 57 wI~Vv~WGkl---AE~---~aqyLkKGD~V~VsGrL~sr~~~dkdGq~rs~~eVvV~el~Fv~~k 115 (222)
-|.|++-.+. .+. .+..|..|+.|.|+|.+....- ...|.+. .+||.|+++..|...
T Consensus 110 ~iQ~v~~~~~~~~~~~~~~~~~~l~~es~V~V~G~v~~~~~-~~~~~t~-~~El~~~~i~vls~a 172 (530)
T PLN02850 110 TVQCVVFVSEVTVSKGMVKYAKQLSRESVVDVEGVVSVPKK-PVKGTTQ-QVEIQVRKIYCVSKA 172 (530)
T ss_pred CEEEEEECCccccCHHHHHHHhCCCCCCEEEEEEEEEccCc-CCCCCCc-cEEEEEeEEEEEeCC
Confidence 4677764431 111 2457999999999999985321 1123333 799999999988764
No 110
>PF00572 Ribosomal_L13: Ribosomal protein L13; InterPro: IPR005822 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 L13 is one of the proteins from the large ribosomal subunit []. In Escherichia coli, L13 is known to be one of the early assembly proteins of the 50S ribosomal subunit.; GO: 0003735 structural constituent of ribosome, 0006412 translation, 0005840 ribosome; PDB: 4A17_I 4A1E_I 4A1A_I 4A1C_I 3D5B_N 3MS1_J 1VSP_H 3PYT_J 3PYO_J 3PYV_J ....
Probab=25.26 E-value=55 Score=26.72 Aligned_cols=13 Identities=31% Similarity=0.184 Sum_probs=11.7
Q ss_pred echhHHHHHhhcC
Q 027559 63 GGDMAQLCQKHLK 75 (222)
Q Consensus 63 WGklAE~~aqyLk 75 (222)
-|+||-.+|++|.
T Consensus 11 lGRLAs~iAk~L~ 23 (128)
T PF00572_consen 11 LGRLASKIAKLLL 23 (128)
T ss_dssp HHHHHHHHHHHHC
T ss_pred hHHHHHHHHHHHh
Confidence 3899999999998
No 111
>PRK12820 bifunctional aspartyl-tRNA synthetase/aspartyl/glutamyl-tRNA amidotransferase subunit C; Provisional
Probab=25.06 E-value=2.7e+02 Score=29.11 Aligned_cols=59 Identities=12% Similarity=0.083 Sum_probs=39.1
Q ss_pred eEEEEEechh--HH--HHHhhcCCCCeEEEEEEeeeccccCCC-CceEEEEEEEEeeEEeeecC
Q 027559 57 SILLAVGGDM--AQ--LCQKHLKPNDFIYVTGQLHSYSKVDKN-GKLCLCYKVVVEDFNYVREC 115 (222)
Q Consensus 57 wI~Vv~WGkl--AE--~~aqyLkKGD~V~VsGrL~sr~~~dkd-Gq~rs~~eVvV~el~Fv~~k 115 (222)
.|+|++-.+. .+ ..++.|+.|+.|.|+|.+..+.-..++ +...-.+||.|+++..+...
T Consensus 47 ~iQvV~~~~~~~~~~~~~~~~L~~EsvV~V~G~v~~r~~~~~n~~~~tg~iEl~~~~i~iL~~a 110 (706)
T PRK12820 47 FIQAVFSPEAAPADVYELAASLRAEFCVALQGEVQKRLEETENPHIETGDIEVFVRELSILAAS 110 (706)
T ss_pred cEEEEEeCCcCCHHHHHHHhcCCCCCEEEEEeEEeccCccccCCCCCCCcEEEEeeEEEEEecC
Confidence 4677775432 22 234679999999999999886432211 11113489999999999764
No 112
>PRK00484 lysS lysyl-tRNA synthetase; Reviewed
Probab=24.70 E-value=1.8e+02 Score=28.59 Aligned_cols=51 Identities=27% Similarity=0.339 Sum_probs=35.5
Q ss_pred eEEEEEech-hHHH---HHhhcCCCCeEEEEEEeeeccccCCCCceEEEEEEEEeeEEeeecC
Q 027559 57 SILLAVGGD-MAQL---CQKHLKPNDFIYVTGQLHSYSKVDKNGKLCLCYKVVVEDFNYVREC 115 (222)
Q Consensus 57 wI~Vv~WGk-lAE~---~aqyLkKGD~V~VsGrL~sr~~~dkdGq~rs~~eVvV~el~Fv~~k 115 (222)
-|+|++-.+ +.+. ....|..||.|.|.|.+... +.| .++|.|+++..+.+.
T Consensus 83 ~iQ~v~~~~~~~~~~~~~~~~l~~g~~v~v~G~v~~t----~~g----e~el~~~~~~vls~~ 137 (491)
T PRK00484 83 RIQLYVSKDDVGEEALEAFKKLDLGDIIGVEGTLFKT----KTG----ELSVKATELTLLTKS 137 (491)
T ss_pred cEEEEEECCcCCHHHHHHHhcCCCCCEEEEEEEEEEc----CCC----cEEEEEeEEEEEecc
Confidence 467776533 1111 22349999999999999863 335 389999999999764
No 113
>PRK12445 lysyl-tRNA synthetase; Reviewed
Probab=24.54 E-value=1.8e+02 Score=28.89 Aligned_cols=37 Identities=16% Similarity=0.295 Sum_probs=29.8
Q ss_pred HhhcCCCCeEEEEEEeeeccccCCCCceEEEEEEEEeeEEeeecC
Q 027559 71 QKHLKPNDFIYVTGQLHSYSKVDKNGKLCLCYKVVVEDFNYVREC 115 (222)
Q Consensus 71 aqyLkKGD~V~VsGrL~sr~~~dkdGq~rs~~eVvV~el~Fv~~k 115 (222)
...|..||.|.|+|.+... +.|+ ++|.|+++.++.+.
T Consensus 113 ~~~l~~Gd~V~v~G~~~~t----~~ge----lel~~~~~~llsk~ 149 (505)
T PRK12445 113 FKKWDLGDIIGARGTLFKT----QTGE----LSIHCTELRLLTKA 149 (505)
T ss_pred HhcCCCCCEEEEEEEEEec----CCCc----EEEEEeEEEEEecC
Confidence 3569999999999999752 3454 89999999999864
No 114
>smart00472 MIR Domain in ryanodine and inositol trisphosphate receptors and protein O-mannosyltransferases.
Probab=23.48 E-value=28 Score=23.27 Aligned_cols=26 Identities=31% Similarity=0.596 Sum_probs=20.0
Q ss_pred CccCCCCceeeeCCCC-CccHHHhhhh
Q 027559 171 FKHKSTGEALWLDPKD-PPWVKKQLQR 196 (222)
Q Consensus 171 Fkhk~tg~aLWl~~~~-P~wv~~~L~~ 196 (222)
++|..||.-|...... |+|...|.|.
T Consensus 12 L~H~~tg~yL~s~~~~~~~~~~~q~eV 38 (57)
T smart00472 12 LRHVTTGRYLHSHENKLPPWGDGQQEV 38 (57)
T ss_pred EEEhhhCcEeecCCCCCCCCCCCcceE
Confidence 6899999999998655 7787665553
No 115
>TIGR01066 rplM_bact ribosomal protein L13, bacterial type. This model distinguishes ribosomal protein L13 of bacteria and organelles from its eukarytotic and archaeal counterparts.
Probab=23.47 E-value=69 Score=26.72 Aligned_cols=23 Identities=22% Similarity=0.356 Sum_probs=18.6
Q ss_pred EechhHHHHHhhcC------------CCCeEEEEE
Q 027559 62 VGGDMAQLCQKHLK------------PNDFIYVTG 84 (222)
Q Consensus 62 ~WGklAE~~aqyLk------------KGD~V~VsG 84 (222)
.-|++|..+|.+|. .||.|.|.-
T Consensus 22 ~lGRLAs~iAk~L~GKhKp~y~p~~d~Gd~VvViN 56 (140)
T TIGR01066 22 TLGRLASEVARLLRGKHKPTYTPHVDCGDYVIVIN 56 (140)
T ss_pred chHHHHHHHHHHHhccCCCccCCCccCCCEEEEEe
Confidence 45899999999998 677777654
No 116
>TIGR00617 rpa1 replication factor-a protein 1 (rpa1). This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=22.76 E-value=1.4e+02 Score=30.26 Aligned_cols=35 Identities=11% Similarity=0.110 Sum_probs=29.8
Q ss_pred eeeeEEEEEechhHHHHHhhcCCCCeEEEEE-Eeee
Q 027559 54 CLSSILLAVGGDMAQLCQKHLKPNDFIYVTG-QLHS 88 (222)
Q Consensus 54 ~t~wI~Vv~WGklAE~~aqyLkKGD~V~VsG-rL~s 88 (222)
+..-|.+++|++.|+.....|+.|+.++|++ +++.
T Consensus 225 egg~Irat~f~~~~dkf~~~l~eG~VY~Is~~~Vk~ 260 (608)
T TIGR00617 225 ESGEIRATAFNEQADKFYDIIQEGKVYYISKGSLKP 260 (608)
T ss_pred CCCeEEEEECchHHHHHhhhcccCCEEEECceEEEE
Confidence 3456899999999999999999999999976 5544
No 117
>PRK10328 DNA binding protein, nucleoid-associated; Provisional
Probab=22.57 E-value=90 Score=25.83 Aligned_cols=35 Identities=20% Similarity=0.485 Sum_probs=27.2
Q ss_pred CCCCCCCCCCccCC-CCc-eeeeCC-CCCccHHHhhhh
Q 027559 162 NKLYPGAPDFKHKS-TGE-ALWLDP-KDPPWVKKQLQR 196 (222)
Q Consensus 162 ~K~n~k~pDFkhk~-tg~-aLWl~~-~~P~wv~~~L~~ 196 (222)
.|+.|+-|-|+|.| +|+ .-|=.. ..|.|+...|+.
T Consensus 88 ~kr~~~p~KYr~~d~~G~~kTWTGrGR~P~wi~~al~~ 125 (134)
T PRK10328 88 KKRQPRPAKYRFTDVNGETKTWTGQGRTPKPIAQALAE 125 (134)
T ss_pred cCCCCCCCccCCCCCCCCcCcccCCCCCcHHHHHHHHc
Confidence 45678888899854 775 799984 789999988753
No 118
>PF11736 DUF3299: Protein of unknown function (DUF3299); InterPro: IPR021727 This is a family of bacterial proteins of unknown function.
Probab=22.54 E-value=1.8e+02 Score=24.29 Aligned_cols=32 Identities=16% Similarity=0.177 Sum_probs=24.3
Q ss_pred CCeEEEEEEeeeccccCCCCceEEEEEEEEeeEE
Q 027559 77 NDFIYVTGQLHSYSKVDKNGKLCLCYKVVVEDFN 110 (222)
Q Consensus 77 GD~V~VsGrL~sr~~~dkdGq~rs~~eVvV~el~ 110 (222)
-+.|.|+|.|+.....+ +-..+.|.+.+..|+
T Consensus 112 ~~pv~V~G~l~~~~~~~--~~~~~~Y~m~a~~v~ 143 (146)
T PF11736_consen 112 YDPVWVEGTLKVERSSS--DLGTSGYSMDADSVE 143 (146)
T ss_pred ceeEEEEEEEEeccccc--hheeEEEEEEeeEEE
Confidence 47999999999998765 333577888777764
No 119
>TIGR03063 srtB_target sortase B cell surface sorting signal. Two different classes of sorting signal, both analogous to the sortase A signal LPXTG, may be recognized by the sortase SrtB. These are given as NXZTN and NPKXZ. Proteins sorted by this class of sortase are less common than the sortase A and LPXTG system. This model describes a number of cell surface protein C-terminal regions from Gram-positive bacteria that appear to be sortase B (SrtB) sorting signals.
Probab=22.39 E-value=83 Score=19.84 Aligned_cols=18 Identities=33% Similarity=0.268 Sum_probs=14.1
Q ss_pred ccCcchhHHHHHHHHhhh
Q 027559 6 KTKDTSMFNLLLTLLGIS 23 (222)
Q Consensus 6 ~~~~~~~~~~~~~~~~~~ 23 (222)
||.|+++.-|++.+|..+
T Consensus 3 kT~D~a~i~ly~~l~~~s 20 (29)
T TIGR03063 3 KTGDSAQIGLYAVLFLGS 20 (29)
T ss_pred CCccchhHHHHHHHHHHH
Confidence 799999877777777664
No 120
>COG1838 FumA Tartrate dehydratase beta subunit/Fumarate hydratase class I, C-terminal domain [Energy production and conversion]
Probab=22.14 E-value=93 Score=27.37 Aligned_cols=21 Identities=24% Similarity=0.468 Sum_probs=17.2
Q ss_pred HHHHhhcCCCCeEEEEEEeeec
Q 027559 68 QLCQKHLKPNDFIYVTGQLHSY 89 (222)
Q Consensus 68 E~~aqyLkKGD~V~VsGrL~sr 89 (222)
|.+. -|+-||.|+++|.|-+-
T Consensus 11 e~i~-~LkvGd~v~lsG~I~t~ 31 (184)
T COG1838 11 EEIA-KLKVGDVVYLSGKIVTG 31 (184)
T ss_pred HHHH-hccCCCEEEEeeEEEEe
Confidence 4444 49999999999999875
No 121
>COG1727 RPL18A Ribosomal protein L18E [Translation, ribosomal structure and biogenesis]
Probab=22.12 E-value=1.3e+02 Score=24.78 Aligned_cols=36 Identities=28% Similarity=0.444 Sum_probs=25.4
Q ss_pred HHhhcCCCCeEEEEEEeeeccccCCCCceEEEEEEEEeeEEeee
Q 027559 70 CQKHLKPNDFIYVTGQLHSYSKVDKNGKLCLCYKVVVEDFNYVR 113 (222)
Q Consensus 70 ~aqyLkKGD~V~VsGrL~sr~~~dkdGq~rs~~eVvV~el~Fv~ 113 (222)
+..|.++||.|.|-|+.-- +|.. .-+|.|--+.|-.
T Consensus 54 I~r~ak~~d~vvVpGkVLg------~g~l--~~kVtVaAl~FS~ 89 (122)
T COG1727 54 INRYAKEGDTVVVPGKVLG------DGKL--DKKVTVAALRFSK 89 (122)
T ss_pred HHhhcCCCCEEEEeeeEec------Cccc--ccceEEEEEecCH
Confidence 6679999999999999864 4543 3455555577743
No 122
>KOG0554 consensus Asparaginyl-tRNA synthetase (mitochondrial) [Translation, ribosomal structure and biogenesis]
Probab=21.39 E-value=3.2e+02 Score=27.15 Aligned_cols=62 Identities=26% Similarity=0.276 Sum_probs=42.4
Q ss_pred eEEeeeeeccceeeceeeeeEEEEEechhHHHHHhhcCCCCeEEEEEEeeeccccCCCCceEEEEEEEEeeEEeeec
Q 027559 38 CVTMLDILLLIIHHLQCLSSILLAVGGDMAQLCQKHLKPNDFIYVTGQLHSYSKVDKNGKLCLCYKVVVEDFNYVRE 114 (222)
Q Consensus 38 ~vt~~~iav~~r~~~~~t~wI~Vv~WGklAE~~aqyLkKGD~V~VsGrL~sr~~~dkdGq~rs~~eVvV~el~Fv~~ 114 (222)
.+++++| .+.....-++|++=- -..++++-|..|.|+|.|..- +.++. .+|..|+.+-.++.
T Consensus 37 ~~~Fl~i-----~DGs~~~~lQvVv~~----~~~q~la~Gt~i~~~g~l~~~----~~~~q--~iel~~eki~~vG~ 98 (446)
T KOG0554|consen 37 KVTFLDI-----NDGSCPSPLQVVVDS----EQSQLLATGTCISAEGVLKVS----KGAKQ--QIELNAEKIKVVGT 98 (446)
T ss_pred ceEEEEe-----cCCCCCcceEEEech----HHhhhccccceEEEEeeEEec----cchhe--eeeeeeeEEEEEee
Confidence 3565554 233333445677644 567899999999999999875 33443 58888888888765
No 123
>PTZ00417 lysine-tRNA ligase; Provisional
Probab=21.24 E-value=3.5e+02 Score=27.56 Aligned_cols=37 Identities=14% Similarity=0.337 Sum_probs=28.5
Q ss_pred HhhcCCCCeEEEEEEeeeccccCCCCceEEEEEEEEeeEEeeecC
Q 027559 71 QKHLKPNDFIYVTGQLHSYSKVDKNGKLCLCYKVVVEDFNYVREC 115 (222)
Q Consensus 71 aqyLkKGD~V~VsGrL~sr~~~dkdGq~rs~~eVvV~el~Fv~~k 115 (222)
...|..||.|.|+|.+.. .+.|+ ++|.|+++..+.+.
T Consensus 183 ~~~l~~Gd~V~V~G~~~~----t~~ge----l~i~~~~i~llsk~ 219 (585)
T PTZ00417 183 YDKIRRGDIVGIVGFPGK----SKKGE----LSIFPKETIILSPC 219 (585)
T ss_pred HhcCCCCCEEEEEeEEcC----CCCce----EEEEEEEEEEEecC
Confidence 456999999999999653 23453 78999999998754
No 124
>COG0677 WecC UDP-N-acetyl-D-mannosaminuronate dehydrogenase [Cell envelope biogenesis, outer membrane]
Probab=20.88 E-value=84 Score=31.00 Aligned_cols=25 Identities=20% Similarity=0.212 Sum_probs=21.5
Q ss_pred EEEechhHHHHHhhcCCCCeEEEEE
Q 027559 60 LAVGGDMAQLCQKHLKPNDFIYVTG 84 (222)
Q Consensus 60 Vv~WGklAE~~aqyLkKGD~V~VsG 84 (222)
+.+=.+.|+.++.+|+|||.|.++-
T Consensus 104 ls~v~~aa~sIa~~L~kG~LVIlES 128 (436)
T COG0677 104 LSYVESAARSIAPVLKKGDLVILES 128 (436)
T ss_pred hHHHHHHHHHHHHhcCCCCEEEEec
Confidence 5566788999999999999999864
No 125
>PLN02502 lysyl-tRNA synthetase
Probab=20.14 E-value=2.7e+02 Score=28.10 Aligned_cols=36 Identities=22% Similarity=0.394 Sum_probs=28.7
Q ss_pred hhcCCCCeEEEEEEeeeccccCCCCceEEEEEEEEeeEEeeecC
Q 027559 72 KHLKPNDFIYVTGQLHSYSKVDKNGKLCLCYKVVVEDFNYVREC 115 (222)
Q Consensus 72 qyLkKGD~V~VsGrL~sr~~~dkdGq~rs~~eVvV~el~Fv~~k 115 (222)
..|..||.|.|.|.+... +.| .++|.|+++..+...
T Consensus 159 ~~l~~gdiV~V~G~~~~t----~~g----elel~~~~i~vLs~~ 194 (553)
T PLN02502 159 SLVDRGDIVGVTGTPGKT----KKG----ELSIFPTSFEVLTKC 194 (553)
T ss_pred hCCCCCcEEEEEEEEEec----CCC----CEEEEEeEEEEEecc
Confidence 358999999999998752 345 389999999999754
No 126
>PTZ00425 asparagine-tRNA ligase; Provisional
Probab=20.08 E-value=3.5e+02 Score=27.71 Aligned_cols=58 Identities=16% Similarity=0.093 Sum_probs=36.7
Q ss_pred EEEEEechh-HHHHHhhcCCCCeEEEEEEeeecccc--CCCCceEEEEEEEE-----eeEEeeecC
Q 027559 58 ILLAVGGDM-AQLCQKHLKPNDFIYVTGQLHSYSKV--DKNGKLCLCYKVVV-----EDFNYVREC 115 (222)
Q Consensus 58 I~Vv~WGkl-AE~~aqyLkKGD~V~VsGrL~sr~~~--dkdGq~rs~~eVvV-----~el~Fv~~k 115 (222)
++|++-... +...+..|+.|+.|.|+|.+..+.-. ++.|.....+||.+ .+++.+...
T Consensus 115 iQiVv~~~~~~~~~l~~l~~gs~v~v~G~v~~~~~~~~n~~g~~~~~~El~~~~~~~~~~~ilg~~ 180 (586)
T PTZ00425 115 LQIIVDQSIENYEKLLKCGVGCCFRFTGKLIISPVQNENKKGLLKENVELALKDNSIHNFEIYGEN 180 (586)
T ss_pred eEEEECCchHHHHHHhcCCCccEEEEEEEEEcCCccccCcCCCCCccEEEEEecCCCceEEEEecc
Confidence 466653321 22234578999999999999875432 23343334578877 688888644
No 127
>PRK09216 rplM 50S ribosomal protein L13; Reviewed
Probab=20.01 E-value=91 Score=26.16 Aligned_cols=23 Identities=30% Similarity=0.437 Sum_probs=18.3
Q ss_pred EechhHHHHHhhcC------------CCCeEEEEE
Q 027559 62 VGGDMAQLCQKHLK------------PNDFIYVTG 84 (222)
Q Consensus 62 ~WGklAE~~aqyLk------------KGD~V~VsG 84 (222)
.-|++|..+|..|. -||.|.|.-
T Consensus 24 ~lGRlAs~IAk~L~GKhKp~y~p~~d~Gd~VvViN 58 (144)
T PRK09216 24 VLGRLASEVASILRGKHKPTFTPHVDTGDFVIVIN 58 (144)
T ss_pred chHHHHHHHHHHHhccCCCCcCCCCCCCCEEEEEe
Confidence 45889999999998 677777643
Done!