Query 035523
Match_columns 125
No_of_seqs 141 out of 296
Neff 3.7
Searched_HMMs 46136
Date Fri Mar 29 03:42:42 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/035523.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/035523hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PRK10871 nlpD lipoprotein NlpD 99.7 1.5E-17 3.2E-22 139.9 10.2 92 27-123 12-108 (319)
2 PF01476 LysM: LysM domain; I 99.6 3.7E-15 8.1E-20 89.1 3.8 42 79-121 1-44 (44)
3 PRK14125 cell division suppres 99.4 7.7E-13 1.7E-17 95.5 6.9 48 75-123 35-91 (103)
4 TIGR02899 spore_safA spore coa 99.4 3.8E-13 8.3E-18 78.5 4.0 42 81-122 1-44 (44)
5 PRK11198 LysM domain/BON super 99.3 7E-12 1.5E-16 94.1 5.9 48 75-122 94-147 (147)
6 cd00118 LysM Lysin domain, fou 99.2 4.8E-11 1E-15 66.9 4.9 43 78-121 2-46 (46)
7 COG1652 XkdP Uncharacterized p 99.1 2.9E-11 6.2E-16 96.8 2.4 46 78-123 212-264 (269)
8 PRK13914 invasion associated s 99.0 2.1E-09 4.6E-14 95.1 7.9 45 77-123 28-74 (481)
9 smart00257 LysM Lysin motif. 98.9 2.2E-09 4.7E-14 59.4 4.6 42 78-120 1-44 (44)
10 COG1388 LytE FOG: LysM repeat 98.8 6.9E-09 1.5E-13 73.6 4.7 46 76-122 66-112 (124)
11 TIGR02907 spore_VI_D stage VI 98.8 6E-09 1.3E-13 89.1 4.8 45 75-121 292-338 (338)
12 PRK06347 autolysin; Reviewed 98.7 9.5E-09 2.1E-13 92.6 4.7 46 75-121 546-592 (592)
13 PRK10783 mltD membrane-bound l 98.7 1.4E-08 3.1E-13 88.4 5.1 46 75-122 401-448 (456)
14 PRK13914 invasion associated s 98.6 4.7E-08 1E-12 86.7 5.7 48 75-123 198-246 (481)
15 PRK06347 autolysin; Reviewed 98.6 5.4E-08 1.2E-12 87.7 5.0 47 75-122 478-525 (592)
16 PRK10783 mltD membrane-bound l 98.4 4.8E-07 1E-11 78.9 5.5 46 76-123 343-390 (456)
17 TIGR03505 FimV_core FimV N-ter 98.2 8.6E-07 1.9E-11 61.0 2.6 38 85-122 1-51 (74)
18 PRK10260 L,D-transpeptidase; P 98.1 8.9E-06 1.9E-10 68.9 7.6 47 76-123 40-90 (306)
19 PF04225 OapA: Opacity-associa 98.1 1.9E-06 4E-11 60.1 2.9 44 77-120 3-51 (85)
20 PRK10190 L,D-transpeptidase; P 98.0 1.7E-05 3.7E-10 67.3 6.9 47 76-123 37-87 (310)
21 PF05489 Phage_tail_X: Phage T 97.8 4.5E-05 9.7E-10 50.5 4.5 45 78-123 3-54 (60)
22 COG3170 FimV Tfp pilus assembl 97.2 0.00034 7.4E-09 65.3 4.5 59 64-122 176-247 (755)
23 PRK11649 putative peptidase; P 96.5 0.0031 6.8E-08 55.1 4.0 42 77-121 96-142 (439)
24 COG3858 Predicted glycosyl hyd 96.4 0.0031 6.7E-08 55.9 3.5 50 73-123 46-97 (423)
25 COG4254 Uncharacterized protei 95.6 0.012 2.6E-07 50.8 3.5 47 77-123 6-56 (339)
26 COG3858 Predicted glycosyl hyd 95.3 0.0097 2.1E-07 52.8 2.0 45 77-123 2-48 (423)
27 COG0739 NlpD Membrane proteins 92.5 0.17 3.8E-06 39.0 3.8 47 77-123 2-49 (277)
28 COG5004 P2-like prophage tail 91.2 0.5 1.1E-05 32.9 4.5 45 78-122 4-55 (70)
29 COG4784 Putative Zn-dependent 90.8 0.3 6.4E-06 43.7 3.8 45 77-121 429-477 (479)
30 TIGR03352 VI_chp_3 type VI sec 88.6 1.2 2.6E-05 33.7 5.2 86 31-121 7-99 (146)
31 COG3061 OapA Cell envelope opa 87.6 0.77 1.7E-05 38.4 3.9 47 75-121 158-209 (242)
32 PF07172 GRP: Glycine rich pro 75.3 2.4 5.2E-05 30.4 2.1 20 20-41 2-21 (95)
33 PF06749 DUF1218: Protein of u 70.6 12 0.00025 26.4 4.7 26 19-46 39-64 (97)
34 cd00565 ThiS ThiaminS ubiquiti 62.7 6.9 0.00015 25.1 2.1 48 76-123 6-61 (65)
35 PF08356 EF_assoc_2: EF hand a 59.2 10 0.00022 27.1 2.6 43 81-123 42-87 (89)
36 PF13510 Fer2_4: 2Fe-2S iron-s 56.8 11 0.00023 25.6 2.3 21 76-96 10-30 (82)
37 PRK08364 sulfur carrier protei 55.5 17 0.00036 23.9 3.0 47 77-123 16-66 (70)
38 KOG2850 Predicted peptidoglyca 55.2 9.7 0.00021 30.6 2.2 26 78-103 11-38 (186)
39 TIGR03028 EpsE polysaccharide 54.5 24 0.00051 28.1 4.3 51 75-125 173-239 (239)
40 COG4228 Mu-like prophage DNA c 53.0 19 0.00041 32.7 3.9 43 78-120 399-448 (451)
41 PF11246 Phage_gp53: Base plat 51.8 10 0.00022 30.5 1.9 36 75-111 44-84 (193)
42 PRK06437 hypothetical protein; 49.3 21 0.00045 23.5 2.7 46 77-122 13-62 (67)
43 PRK07569 bidirectional hydroge 47.2 18 0.00038 28.8 2.5 20 77-96 11-30 (234)
44 PF13533 Biotin_lipoyl_2: Biot 45.1 3.7 7.9E-05 25.5 -1.3 13 80-92 23-35 (50)
45 PF13117 Cag12: Cag pathogenic 44.8 14 0.0003 27.5 1.5 21 32-52 2-22 (113)
46 PRK05659 sulfur carrier protei 43.3 36 0.00079 21.5 3.1 46 77-122 8-61 (66)
47 PF05373 Pro_3_hydrox_C: L-pro 42.3 17 0.00037 26.8 1.6 18 85-102 68-85 (101)
48 PRK02710 plastocyanin; Provisi 39.2 49 0.0011 23.7 3.6 13 75-87 45-57 (119)
49 PF15608 PELOTA_1: PELOTA RNA 38.5 25 0.00055 25.8 2.0 20 86-115 24-43 (100)
50 cd01616 TGS The TGS domain, na 38.0 54 0.0012 18.5 3.1 45 76-120 8-58 (60)
51 TIGR02007 fdx_isc ferredoxin, 36.6 43 0.00093 23.7 2.9 25 73-97 12-36 (110)
52 PRK15396 murein lipoprotein; P 36.3 35 0.00075 23.9 2.3 17 27-43 7-24 (78)
53 PRK10722 hypothetical protein; 36.2 57 0.0012 27.6 4.0 53 27-93 17-69 (247)
54 KOG3416 Predicted nucleic acid 36.2 24 0.00052 27.4 1.6 18 108-125 57-75 (134)
55 PRK13792 lysozyme inhibitor; P 35.9 24 0.00052 26.7 1.6 21 26-46 5-25 (127)
56 PF05702 Herpes_UL49_5: Herpes 35.5 58 0.0013 24.0 3.5 18 5-22 48-65 (98)
57 PRK06944 sulfur carrier protei 35.0 50 0.0011 20.7 2.8 48 76-123 7-61 (65)
58 cd01666 TGS_DRG_C TGS_DRG_C: 34.5 83 0.0018 21.4 4.0 56 65-120 4-73 (75)
59 PRK15175 Vi polysaccharide exp 34.2 53 0.0011 28.4 3.6 9 79-87 70-78 (355)
60 TIGR01683 thiS thiamine biosyn 34.1 33 0.00072 21.8 1.9 48 76-123 5-60 (64)
61 PF12912 N_NLPC_P60: NLPC_P60 32.3 15 0.00032 26.4 0.0 20 29-48 3-22 (124)
62 PRK11548 outer membrane biogen 31.7 62 0.0014 23.2 3.1 22 77-98 42-63 (113)
63 PF14979 TMEM52: Transmembrane 31.6 39 0.00084 26.8 2.2 18 24-41 17-36 (154)
64 PF02796 HTH_7: Helix-turn-hel 30.8 39 0.00086 20.3 1.7 22 82-103 19-45 (45)
65 PRK06760 hypothetical protein; 30.4 42 0.00092 27.9 2.3 26 25-50 6-31 (223)
66 cd00207 fer2 2Fe-2S iron-sulfu 29.8 62 0.0013 20.5 2.6 21 76-96 9-29 (84)
67 PF15240 Pro-rich: Proline-ric 29.1 48 0.001 26.7 2.4 13 31-43 5-17 (179)
68 PRK09973 putative outer membra 27.9 64 0.0014 23.1 2.6 18 26-43 5-23 (85)
69 TIGR03516 ppisom_GldI peptidyl 27.2 67 0.0015 24.9 2.8 22 30-51 7-28 (177)
70 cd01668 TGS_RelA_SpoT TGS_RelA 26.8 1.3E+02 0.0029 17.7 3.6 45 76-120 8-58 (60)
71 PF11006 DUF2845: Protein of u 26.2 45 0.00097 22.8 1.5 20 78-97 10-29 (87)
72 PF15468 DUF4636: Domain of un 26.1 45 0.00098 28.1 1.8 18 26-43 43-60 (243)
73 PF08139 LPAM_1: Prokaryotic m 26.0 71 0.0015 18.1 2.1 11 32-42 15-25 (25)
74 PRK12473 hypothetical protein; 25.8 32 0.0007 28.2 0.8 26 26-51 7-32 (198)
75 cd04493 BRCA2DBD_OB1 BRCA2DBD_ 25.5 41 0.00088 24.7 1.3 12 110-121 49-60 (100)
76 PRK11443 lipoprotein; Provisio 25.4 75 0.0016 23.7 2.7 16 30-45 6-21 (124)
77 COG3017 LolB Outer membrane li 25.4 1E+02 0.0022 25.4 3.7 24 27-50 9-32 (206)
78 PRK00022 lolB outer membrane l 25.0 98 0.0021 23.8 3.4 16 30-45 8-23 (202)
79 PF04255 DUF433: Protein of un 24.8 12 0.00025 23.8 -1.5 35 59-95 8-42 (56)
80 PF14451 Ub-Mut7C: Mut7-C ubiq 24.5 87 0.0019 21.6 2.7 48 75-122 23-75 (81)
81 COG5567 Predicted small peripl 24.0 1E+02 0.0022 20.9 2.8 23 21-45 3-25 (58)
82 PF11518 DUF3221: Protein of u 23.9 43 0.00094 24.1 1.2 17 106-122 73-89 (108)
83 PF05225 HTH_psq: helix-turn-h 23.7 48 0.001 20.3 1.2 18 81-98 12-30 (45)
84 cd01667 TGS_ThrRS_N TGS _ThrRS 23.7 1.1E+02 0.0024 17.4 2.8 45 76-120 8-58 (61)
85 PRK09570 rpoH DNA-directed RNA 23.4 64 0.0014 22.7 1.9 41 79-122 15-62 (79)
86 TIGR02008 fdx_plant ferredoxin 23.0 82 0.0018 21.7 2.4 21 76-96 14-34 (97)
87 PLN02799 Molybdopterin synthas 22.9 91 0.002 20.4 2.5 47 77-123 21-78 (82)
88 PRK15470 emtA lytic murein end 22.8 67 0.0014 26.0 2.1 17 27-45 5-21 (203)
89 PHA02578 53 baseplate wedge su 21.8 80 0.0017 25.6 2.4 36 75-110 35-74 (181)
90 smart00739 KOW KOW (Kyprides, 21.3 81 0.0018 16.3 1.7 14 112-125 2-15 (28)
91 PF14453 ThiS-like: ThiS-like 21.2 1.8E+02 0.0039 19.3 3.6 45 77-121 8-54 (57)
92 PRK15078 polysaccharide export 21.1 5.1E+02 0.011 22.4 7.3 13 108-120 83-95 (379)
93 PF00111 Fer2: 2Fe-2S iron-sul 20.4 1.1E+02 0.0023 19.5 2.4 20 77-96 8-29 (78)
94 PF07883 Cupin_2: Cupin domain 20.3 35 0.00076 20.8 0.1 25 63-88 24-48 (71)
95 PF11910 NdhO: Cyanobacterial 20.3 57 0.0012 22.6 1.1 38 82-121 2-42 (67)
96 PRK10718 RpoE-regulated lipopr 20.3 1.3E+02 0.0027 24.6 3.2 16 27-42 5-20 (191)
97 TIGR01843 type_I_hlyD type I s 20.2 39 0.00085 27.6 0.3 17 76-93 61-77 (423)
No 1
>PRK10871 nlpD lipoprotein NlpD; Provisional
Probab=99.73 E-value=1.5e-17 Score=139.88 Aligned_cols=92 Identities=21% Similarity=0.206 Sum_probs=63.2
Q ss_pred HHHHHHHHHH-HHhhc-CCCCCCCCCCccccccccccc--ceecccccCCCCCCceEEeccCchHHHHHHHhC-Chhhhh
Q 035523 27 YYCAFVLVGI-LLLSS-CSSSSSRDQDRDTSVSIEGTS--RMVLNKYEYSRPCDEIYVVGEGETLHTISDKCG-DPFIVE 101 (125)
Q Consensus 27 ~~~al~l~al-Ll~cS-~~~~~apv~d~~~~~~~~~~~--~~~~~~~~~~~~~~~~Y~Vk~GDTL~~IA~r~g-d~~il~ 101 (125)
|..++.++.+ |++|| +...++|+.+... +.. -..+.+...+...+++|+||+|||||+||++|| +.+.|+
T Consensus 12 ~~~~~~~~~~~l~gCs~~~~~~apv~~~~~-----~~~~~~r~~~~~~~g~~~~~~y~Vk~GDTL~~IA~~~g~~~~~La 86 (319)
T PRK10871 12 RIAALSLVSLWLAGCSNTSNPPAPVSSVGN-----GRIVYNRQYGNIPKGSYSGSTYTVKKGDTLFYIAWITGNDFRDLA 86 (319)
T ss_pred HHHHHHHHHHHhhhhcCCCCCCCceeeccc-----cccccccccccccCCCCCCCceEECCCCHHHHHHHHHCcCHHHHH
Confidence 5555544444 77899 5678899885310 000 001111111223467899999999999999999 557777
Q ss_pred hCCCCCCCCCcCCCcEEEeCCC
Q 035523 102 HNPHIHDPDDLFPGLVIKITAP 123 (125)
Q Consensus 102 ~Np~I~nP~~I~PGQvIrI~~~ 123 (125)
++|+|.||+.|||||+|+|+.+
T Consensus 87 ~~N~l~~p~~I~~GQ~L~i~~~ 108 (319)
T PRK10871 87 QRNNIQAPYSLNVGQTLQVGNA 108 (319)
T ss_pred HhcCCCCCccccCCCEEEeCCC
Confidence 7779999999999999999643
No 2
>PF01476 LysM: LysM domain; InterPro: IPR018392 This domain is about 40 residues long and is found in a variety of enzymes involved in bacterial cell wall degradation []. This domain may have a general peptidoglycan binding function.; GO: 0016998 cell wall macromolecule catabolic process; PDB: 2DJP_A 3ZQD_A 1Y7M_B 4A52_A 2L9Y_A 1E0G_A.
Probab=99.55 E-value=3.7e-15 Score=89.07 Aligned_cols=42 Identities=36% Similarity=0.594 Sum_probs=35.3
Q ss_pred EEeccCchHHHHHHHhCCh--hhhhhCCCCCCCCCcCCCcEEEeC
Q 035523 79 YVVGEGETLHTISDKCGDP--FIVEHNPHIHDPDDLFPGLVIKIT 121 (125)
Q Consensus 79 Y~Vk~GDTL~~IA~r~gd~--~il~~Np~I~nP~~I~PGQvIrI~ 121 (125)
|+||+|||||+||.+||.. .+.++||++.+++ |+|||+|.||
T Consensus 1 y~V~~gDtl~~IA~~~~~~~~~l~~~N~~~~~~~-l~~G~~l~iP 44 (44)
T PF01476_consen 1 YTVQPGDTLWSIAKRYGISVDELMELNPNIDSDN-LQPGQKLCIP 44 (44)
T ss_dssp EEE-TT--HHHHHHHTTS-HHHHHHHCCTTHGGC-GGTTEEEEEC
T ss_pred CEECcCCcHHHHHhhhhhhHhHHHHhcCCCCccc-CCCCCEEEeC
Confidence 9999999999999999954 5999999998888 9999999997
No 3
>PRK14125 cell division suppressor protein YneA; Provisional
Probab=99.40 E-value=7.7e-13 Score=95.46 Aligned_cols=48 Identities=21% Similarity=0.177 Sum_probs=38.8
Q ss_pred CCceEEeccCchHHHHHHHhCCh---------hhhhhCCCCCCCCCcCCCcEEEeCCC
Q 035523 75 CDEIYVVGEGETLHTISDKCGDP---------FIVEHNPHIHDPDDLFPGLVIKITAP 123 (125)
Q Consensus 75 ~~~~Y~Vk~GDTL~~IA~r~gd~---------~il~~Np~I~nP~~I~PGQvIrI~~~ 123 (125)
....|+|++|||||+||++|+.. ..++++|+|+++ .|+|||+|+||..
T Consensus 35 ~~~~~tV~~GDTLW~IA~~y~~~~~l~~~~~v~~I~~~N~l~~~-~I~~Gq~L~IP~~ 91 (103)
T PRK14125 35 QYVEITVQEGDTLWALADQYAGKHHMAKNEFIEWVEDVNNLPSG-HIKAGDKLVIPVL 91 (103)
T ss_pred CcEEEEECCCCCHHHHHHHhCCCcCCCHHHHHHHHHHhcCCCCC-cCCCCCEEEEecC
Confidence 45679999999999999999631 245667799776 6999999999853
No 4
>TIGR02899 spore_safA spore coat assembly protein SafA. in which one of which is found in most examples of endospore-forming bacteria. Lysin motifs are repeated in many proteins.
Probab=99.39 E-value=3.8e-13 Score=78.49 Aligned_cols=42 Identities=36% Similarity=0.703 Sum_probs=37.1
Q ss_pred eccCchHHHHHHHhCC-h-hhhhhCCCCCCCCCcCCCcEEEeCC
Q 035523 81 VGEGETLHTISDKCGD-P-FIVEHNPHIHDPDDLFPGLVIKITA 122 (125)
Q Consensus 81 Vk~GDTL~~IA~r~gd-~-~il~~Np~I~nP~~I~PGQvIrI~~ 122 (125)
|++|||||+||++||. . .+.+.||.+.+|+.|+|||+|+||.
T Consensus 1 v~~gdtl~~IA~~~~~~~~~l~~~N~~~~~~~~~~~g~~l~ip~ 44 (44)
T TIGR02899 1 VQKGDTLWKIAKKYGVDFDELIQANPQLSNPNLIYPGMKIKIPS 44 (44)
T ss_pred CCCCCCHHHHHHHHCcCHHHHHHHhhcCCCCCCcCCCCEEecCC
Confidence 7899999999999984 3 5888888899999999999999973
No 5
>PRK11198 LysM domain/BON superfamily protein; Provisional
Probab=99.27 E-value=7e-12 Score=94.05 Aligned_cols=48 Identities=35% Similarity=0.697 Sum_probs=41.7
Q ss_pred CCceEEeccCchHHHHHHHh-CCh----hhhhhCC-CCCCCCCcCCCcEEEeCC
Q 035523 75 CDEIYVVGEGETLHTISDKC-GDP----FIVEHNP-HIHDPDDLFPGLVIKITA 122 (125)
Q Consensus 75 ~~~~Y~Vk~GDTL~~IA~r~-gd~----~il~~Np-~I~nP~~I~PGQvIrI~~ 122 (125)
....|+||+|||||+||.+| |+. .|+++|+ .|.||+.|+|||+|+||+
T Consensus 94 ~~~~y~Vk~GDTL~~IA~~~~g~~~~~~~I~~~N~~~l~~~~~I~pGq~L~IP~ 147 (147)
T PRK11198 94 ESQFYTVKSGDTLSAIAKKVYGNANKYNKIFEANKPMLKSPDKIYPGQVLRIPE 147 (147)
T ss_pred CCeEEEECCCCCHHHHHHHHcCChhhHHHHHHhhhhcCCCcCCcCcCCEEecCC
Confidence 45689999999999999997 553 4888884 589999999999999986
No 6
>cd00118 LysM Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function.
Probab=99.18 E-value=4.8e-11 Score=66.91 Aligned_cols=43 Identities=35% Similarity=0.538 Sum_probs=36.4
Q ss_pred eEEeccCchHHHHHHHhCC-h-hhhhhCCCCCCCCCcCCCcEEEeC
Q 035523 78 IYVVGEGETLHTISDKCGD-P-FIVEHNPHIHDPDDLFPGLVIKIT 121 (125)
Q Consensus 78 ~Y~Vk~GDTL~~IA~r~gd-~-~il~~Np~I~nP~~I~PGQvIrI~ 121 (125)
.|+|++|||+|+||.+||. . .+.+.|+. .+++.|.|||+|+||
T Consensus 2 ~~~v~~gdt~~~ia~~~~~~~~~~~~~N~~-~~~~~~~~g~~l~ip 46 (46)
T cd00118 2 TYTVKKGDTLSSIAQRYGISVEELLKLNGL-SDPDNLQVGQKLKIP 46 (46)
T ss_pred EEEECCCCCHHHHHHHHCcCHHHHHHHcCC-CCccccCCCCEEecC
Confidence 5999999999999999984 3 46666654 788999999999986
No 7
>COG1652 XkdP Uncharacterized protein containing LysM domain [Function unknown]
Probab=99.11 E-value=2.9e-11 Score=96.76 Aligned_cols=46 Identities=39% Similarity=0.598 Sum_probs=41.8
Q ss_pred eEEeccCchHHHHHHH-hCCh----hhhhhCC--CCCCCCCcCCCcEEEeCCC
Q 035523 78 IYVVGEGETLHTISDK-CGDP----FIVEHNP--HIHDPDDLFPGLVIKITAP 123 (125)
Q Consensus 78 ~Y~Vk~GDTL~~IA~r-~gd~----~il~~Np--~I~nP~~I~PGQvIrI~~~ 123 (125)
.|+|++|||||.||.+ ||+. .|+++|. .|.|||.|+|||+|+||..
T Consensus 212 ~~~v~rgDTl~~is~~~Yg~~~~y~~I~~aNk~~~~~~p~~I~pGq~l~iP~~ 264 (269)
T COG1652 212 TNTVKRGDTLWQISKKVYGDGVEYRKIAEANKALVLDNPDKIKPGQVLRIPDQ 264 (269)
T ss_pred EEEeccCCcccccchhhcCcceEEEeHhhhhhhhccCCCCcCCCcceeeCCCc
Confidence 7999999999999999 5764 3999997 6999999999999999874
No 8
>PRK13914 invasion associated secreted endopeptidase; Provisional
Probab=98.95 E-value=2.1e-09 Score=95.13 Aligned_cols=45 Identities=27% Similarity=0.429 Sum_probs=37.4
Q ss_pred ceEEeccCchHHHHHHHhCC-hh-hhhhCCCCCCCCCcCCCcEEEeCCC
Q 035523 77 EIYVVGEGETLHTISDKCGD-PF-IVEHNPHIHDPDDLFPGLVIKITAP 123 (125)
Q Consensus 77 ~~Y~Vk~GDTL~~IA~r~gd-~~-il~~Np~I~nP~~I~PGQvIrI~~~ 123 (125)
..|+||+|||||+||++||. .. |.++| +| +++.|+|||+|+|+..
T Consensus 28 ~tytVq~GDTLw~IA~~ygvtv~~I~~~N-~l-~~~~I~~Gq~L~Ip~~ 74 (481)
T PRK13914 28 STVVVEAGDTLWGIAQSKGTTVDAIKKAN-NL-TTDKIVPGQKLQVNEV 74 (481)
T ss_pred ceEEECCCCCHHHHHHHHCCCHHHHHHHh-CC-CcccccCCCEEEeCCC
Confidence 35999999999999999994 44 55666 77 5789999999999753
No 9
>smart00257 LysM Lysin motif.
Probab=98.93 E-value=2.2e-09 Score=59.36 Aligned_cols=42 Identities=40% Similarity=0.627 Sum_probs=34.9
Q ss_pred eEEeccCchHHHHHHHhC-Ch-hhhhhCCCCCCCCCcCCCcEEEe
Q 035523 78 IYVVGEGETLHTISDKCG-DP-FIVEHNPHIHDPDDLFPGLVIKI 120 (125)
Q Consensus 78 ~Y~Vk~GDTL~~IA~r~g-d~-~il~~Np~I~nP~~I~PGQvIrI 120 (125)
.|+|++|||+|+||.+|| +. .+.+.|| ..++..++||+.|+|
T Consensus 1 ~~~v~~gdt~~~ia~~~~~~~~~~~~~N~-~~~~~~~~~g~~l~i 44 (44)
T smart00257 1 TYTVKKGDTLSSIARRYGISVSDLLELNN-ILDPDNLQVGQKLKI 44 (44)
T ss_pred CeEeCCCCCHHHHHHHhCCCHHHHHHHcC-CCCccccCCCCEEeC
Confidence 489999999999999998 43 4777776 557789999999975
No 10
>COG1388 LytE FOG: LysM repeat [Cell envelope biogenesis, outer membrane]
Probab=98.80 E-value=6.9e-09 Score=73.56 Aligned_cols=46 Identities=22% Similarity=0.294 Sum_probs=36.7
Q ss_pred CceEEeccCchHHHHHHHhCC-hhhhhhCCCCCCCCCcCCCcEEEeCC
Q 035523 76 DEIYVVGEGETLHTISDKCGD-PFIVEHNPHIHDPDDLFPGLVIKITA 122 (125)
Q Consensus 76 ~~~Y~Vk~GDTL~~IA~r~gd-~~il~~Np~I~nP~~I~PGQvIrI~~ 122 (125)
...|+|++||||+.||.+||. ...+.+.|++.++ .|++||+|+++.
T Consensus 66 ~~~~~V~~gdtL~~Ia~~~~~tv~~l~~~n~l~~~-~i~~gq~l~~~~ 112 (124)
T COG1388 66 VVTYTVKKGDTLSKIARKYGVTVAELKQLNNLSSD-KIKVGQKLKLPV 112 (124)
T ss_pred CceEEEecCCCHHHHHHHhCCCHHHHHHHhccCCC-ceecCcEEEEec
Confidence 357999999999999999994 4444444466666 999999999963
No 11
>TIGR02907 spore_VI_D stage VI sporulation protein D. SpoVID, the stage VI sporulation protein D, is restricted to endospore-forming members of the bacteria, all of which are found among the Firmicutes. It is widely distributed but not quite universal in this group. Between well-conserved N-terminal and C-terminal domains is a poorly conserved, low-complexity region of variable length, rich enough in glutamic acid to cause spurious BLAST search results unless a filter is used. The seed alignment for this model was trimmed, in effect, by choosing member sequences in which these regions are relatively short. SpoVID is involved in spore coat assembly by the mother cell compartment late in the process of sporulation.
Probab=98.79 E-value=6e-09 Score=89.06 Aligned_cols=45 Identities=22% Similarity=0.387 Sum_probs=37.9
Q ss_pred CCceEEeccCchHHHHHHHhCC-hh-hhhhCCCCCCCCCcCCCcEEEeC
Q 035523 75 CDEIYVVGEGETLHTISDKCGD-PF-IVEHNPHIHDPDDLFPGLVIKIT 121 (125)
Q Consensus 75 ~~~~Y~Vk~GDTL~~IA~r~gd-~~-il~~Np~I~nP~~I~PGQvIrI~ 121 (125)
....|+||+|||||+||+|||. .. |.++| ++. |+.|++||+|.||
T Consensus 292 ~~~~YiVq~GDTL~sIAkRYGVSV~~L~r~N-~L~-~~~L~~GQ~L~IP 338 (338)
T TIGR02907 292 KLRMCIVQEGDTIETIAERYEISVSQLIRHN-QLE-DFEVNEGQILYIP 338 (338)
T ss_pred ccEEEEECCCCCHHHHHHHHCcCHHHHHHHh-CCC-ccccCCCCEEEeC
Confidence 4468999999999999999995 44 55555 776 8999999999986
No 12
>PRK06347 autolysin; Reviewed
Probab=98.74 E-value=9.5e-09 Score=92.57 Aligned_cols=46 Identities=17% Similarity=0.239 Sum_probs=37.1
Q ss_pred CCceEEeccCchHHHHHHHhCC-hhhhhhCCCCCCCCCcCCCcEEEeC
Q 035523 75 CDEIYVVGEGETLHTISDKCGD-PFIVEHNPHIHDPDDLFPGLVIKIT 121 (125)
Q Consensus 75 ~~~~Y~Vk~GDTL~~IA~r~gd-~~il~~Np~I~nP~~I~PGQvIrI~ 121 (125)
+...|+||+|||||+||+|||. ...|.++|+|. ++.|+|||+|.|.
T Consensus 546 ~~~~Y~Vk~GDTL~sIA~KygvSv~~L~~~N~L~-~~~L~~GQ~L~I~ 592 (592)
T PRK06347 546 TVKTYTVKKGDSLWAISRQYKTTVDNIKAWNKLT-SNMIHVGQKLTIK 592 (592)
T ss_pred cceeeecCCCCcHHHHHHHhCCCHHHHHHhcCCC-cccCCCCCEEecC
Confidence 3568999999999999999994 44445555675 6889999999984
No 13
>PRK10783 mltD membrane-bound lytic murein transglycosylase D; Provisional
Probab=98.72 E-value=1.4e-08 Score=88.40 Aligned_cols=46 Identities=22% Similarity=0.317 Sum_probs=37.0
Q ss_pred CCceEEeccCchHHHHHHHhCC-hh-hhhhCCCCCCCCCcCCCcEEEeCC
Q 035523 75 CDEIYVVGEGETLHTISDKCGD-PF-IVEHNPHIHDPDDLFPGLVIKITA 122 (125)
Q Consensus 75 ~~~~Y~Vk~GDTL~~IA~r~gd-~~-il~~Np~I~nP~~I~PGQvIrI~~ 122 (125)
+...|+||+|||||+||.|||. .. |.++|+ +.++ .|+|||+|+|.-
T Consensus 401 ~~~~Y~Vr~GDTL~sIA~kygVtv~~L~~~N~-l~~~-~L~pGq~L~l~v 448 (456)
T PRK10783 401 DSITYRVRKGDSLSSIAKRHGVNIKDVMRWNS-DTAK-NLQPGDKLTLFV 448 (456)
T ss_pred cceeEEeCCCCCHHHHHHHhCCCHHHHHHhcC-CCCC-cCCCCCEEEEec
Confidence 4467999999999999999994 44 666665 5444 999999999854
No 14
>PRK13914 invasion associated secreted endopeptidase; Provisional
Probab=98.63 E-value=4.7e-08 Score=86.69 Aligned_cols=48 Identities=17% Similarity=0.209 Sum_probs=38.4
Q ss_pred CCceEEeccCchHHHHHHHhCC-hhhhhhCCCCCCCCCcCCCcEEEeCCC
Q 035523 75 CDEIYVVGEGETLHTISDKCGD-PFIVEHNPHIHDPDDLFPGLVIKITAP 123 (125)
Q Consensus 75 ~~~~Y~Vk~GDTL~~IA~r~gd-~~il~~Np~I~nP~~I~PGQvIrI~~~ 123 (125)
....|+||+|||||+||++||. ...+.++|+|.+ +.|+|||+|+|+..
T Consensus 198 ~a~tytVq~GDTL~sIAkrYgVtv~eI~~~N~l~s-~~L~pGQ~L~Ip~s 246 (481)
T PRK13914 198 NATTHAVKSGDTIWALSVKYGVSVQDIMSWNNLSS-SSIYVGQKLAIKQT 246 (481)
T ss_pred CCeEEEECCCCCHHHHHHHHCCCHHHHHHhcCCCc-cccCCCCEEEecCC
Confidence 4478999999999999999995 444444447865 57999999999864
No 15
>PRK06347 autolysin; Reviewed
Probab=98.59 E-value=5.4e-08 Score=87.75 Aligned_cols=47 Identities=21% Similarity=0.418 Sum_probs=37.3
Q ss_pred CCceEEeccCchHHHHHHHhCC-hhhhhhCCCCCCCCCcCCCcEEEeCC
Q 035523 75 CDEIYVVGEGETLHTISDKCGD-PFIVEHNPHIHDPDDLFPGLVIKITA 122 (125)
Q Consensus 75 ~~~~Y~Vk~GDTL~~IA~r~gd-~~il~~Np~I~nP~~I~PGQvIrI~~ 122 (125)
+...|+||+|||||+||.+||. ...|.++|+|. .+.|+|||+|+|+.
T Consensus 478 ~~~~YtVk~GDTL~sIAkkygVSv~~L~~~N~l~-s~~L~~GQ~L~Ip~ 525 (592)
T PRK06347 478 NAKVYTVAKGDSLWRIANNNKVTIANLKSWNNLK-SDFIYPGQKLKVSA 525 (592)
T ss_pred cceeeeecCCCCHHHHHHHHCCCHHHHHHhcCCC-cccccCCcEEEEec
Confidence 4567999999999999999995 44444444565 46899999999975
No 16
>PRK10783 mltD membrane-bound lytic murein transglycosylase D; Provisional
Probab=98.39 E-value=4.8e-07 Score=78.93 Aligned_cols=46 Identities=24% Similarity=0.332 Sum_probs=37.2
Q ss_pred CceEEeccCchHHHHHHHhCC-hh-hhhhCCCCCCCCCcCCCcEEEeCCC
Q 035523 76 DEIYVVGEGETLHTISDKCGD-PF-IVEHNPHIHDPDDLFPGLVIKITAP 123 (125)
Q Consensus 76 ~~~Y~Vk~GDTL~~IA~r~gd-~~-il~~Np~I~nP~~I~PGQvIrI~~~ 123 (125)
...|+|++|||||+||.+||. .. +.++| .+.+ +.|.|||+|.|+.+
T Consensus 343 ~~~y~Vk~GDTL~sIA~r~gvs~~~L~~~N-~l~~-~~L~~Gq~L~Ip~~ 390 (456)
T PRK10783 343 SRSYKVRSGDTLSGIASRLNVSTKDLQQWN-NLRG-SKLKVGQTLTIGAG 390 (456)
T ss_pred ceEEEECCCCcHHHHHHHHCcCHHHHHHHc-CCCc-ccCCCCCEEEecCC
Confidence 457999999999999999994 44 55555 4555 88999999999763
No 17
>TIGR03505 FimV_core FimV N-terminal domain. This region is found at, or about 200 amino acids from, the N-terminus of FimV from Pseudomonas aeruginosa, TspA of Neisseria meningitidis, and related proteins. Disruption of FimV blocks twitching motility from type IV pili; Semmler, et al. suggest a role for this family in peptidoglycan layer remodelling required by type IV fimbrial systems. Most but not all members of this protein family have a C-terminal region recognized by TIGR03504. In between is a highly variable, often repeat-filled region rich in the negatively charged amino acids Asp and Glu.
Probab=98.22 E-value=8.6e-07 Score=60.95 Aligned_cols=38 Identities=24% Similarity=0.398 Sum_probs=32.5
Q ss_pred chHHHHHHHhC-C----h-----hhhhhCCCC---CCCCCcCCCcEEEeCC
Q 035523 85 ETLHTISDKCG-D----P-----FIVEHNPHI---HDPDDLFPGLVIKITA 122 (125)
Q Consensus 85 DTL~~IA~r~g-d----~-----~il~~Np~I---~nP~~I~PGQvIrI~~ 122 (125)
||||+||.+|. + . .|+++||+. .|++.|++|++|+||.
T Consensus 1 DTLw~IA~~~~~~~~~s~~q~m~ai~~aNp~AF~~~nin~L~~G~~L~iP~ 51 (74)
T TIGR03505 1 DTLWGIAQRVRPDNSVSLYQMMLALYRANPDAFIGGNINRLKVGQILRIPS 51 (74)
T ss_pred CcHHHHHHHHccCCCCCHHHHHHHHHHHCHHhHhcCChhhcCCCCEEeCCC
Confidence 89999999992 1 1 389999976 5899999999999986
No 18
>PRK10260 L,D-transpeptidase; Provisional
Probab=98.13 E-value=8.9e-06 Score=68.93 Aligned_cols=47 Identities=23% Similarity=0.312 Sum_probs=40.2
Q ss_pred CceEEeccCch--HHHHHHHhC--ChhhhhhCCCCCCCCCcCCCcEEEeCCC
Q 035523 76 DEIYVVGEGET--LHTISDKCG--DPFIVEHNPHIHDPDDLFPGLVIKITAP 123 (125)
Q Consensus 76 ~~~Y~Vk~GDT--L~~IA~r~g--d~~il~~Np~I~nP~~I~PGQvIrI~~~ 123 (125)
...|+|++||| |-+||++|+ ...+.++||.+ ||....+|++|.|+..
T Consensus 40 ~~~~~v~~~~~~~le~iA~~f~~g~~~l~~aNPgv-dp~lp~~G~~i~iP~~ 90 (306)
T PRK10260 40 NQVITIPEGNTQPLEYFAAEYQMGLSNMMEANPGV-DTFLPKGGTVLNIPQQ 90 (306)
T ss_pred cEEEEeCCCCCchHHHHHHHhCCCHHHHHHhCcCC-CCCcCCCCCEEEeCCc
Confidence 45799999765 999999997 34699999988 7999999999999763
No 19
>PF04225 OapA: Opacity-associated protein A LysM-like domain; InterPro: IPR007340 This entry includes the Haemophilus influenzae opacity-associated protein. This protein is required for efficient nasopharyngeal mucosal colonization, and its expression is associated with a distinctive transparent colony phenotype. OapA is thought to be a secreted protein, and its expression exhibits high-frequency phase variation [].; PDB: 2GU1_A.
Probab=98.13 E-value=1.9e-06 Score=60.10 Aligned_cols=44 Identities=27% Similarity=0.423 Sum_probs=27.3
Q ss_pred ceEEeccCchHHHHHHHhCCh-----hhhhhCCCCCCCCCcCCCcEEEe
Q 035523 77 EIYVVGEGETLHTISDKCGDP-----FIVEHNPHIHDPDDLFPGLVIKI 120 (125)
Q Consensus 77 ~~Y~Vk~GDTL~~IA~r~gd~-----~il~~Np~I~nP~~I~PGQvIrI 120 (125)
..|+|++||||..|=.++|.+ .++++...-+.=..|+|||.|.+
T Consensus 3 ~~~~V~~GDtLs~iF~~~gls~~dl~~v~~~~~~~k~L~~L~pGq~l~f 51 (85)
T PF04225_consen 3 QEYTVKSGDTLSTIFRRAGLSASDLYAVLEADGEAKPLTRLKPGQTLEF 51 (85)
T ss_dssp -EEE--TT--HHHHHHHTT--HHHHHHHHHHGGGT--GGG--TT-EEEE
T ss_pred cEEEECCCCcHHHHHHHcCCCHHHHHHHHhccCccchHhhCCCCCEEEE
Confidence 469999999999999999953 48887755555588999999987
No 20
>PRK10190 L,D-transpeptidase; Provisional
Probab=98.01 E-value=1.7e-05 Score=67.31 Aligned_cols=47 Identities=21% Similarity=0.212 Sum_probs=40.4
Q ss_pred CceEEeccCc--hHHHHHHHhCC--hhhhhhCCCCCCCCCcCCCcEEEeCCC
Q 035523 76 DEIYVVGEGE--TLHTISDKCGD--PFIVEHNPHIHDPDDLFPGLVIKITAP 123 (125)
Q Consensus 76 ~~~Y~Vk~GD--TL~~IA~r~gd--~~il~~Np~I~nP~~I~PGQvIrI~~~ 123 (125)
...|+|+++| +|-+||++|+. ..+.++||.+ ||....+|++|.||..
T Consensus 37 ~~~~~v~~~~~~~le~iA~~f~~g~~~l~~aNPgv-d~~~p~~G~~i~iP~~ 87 (310)
T PRK10190 37 SLTVTVPDHNTQPLETFAAQYGQGLSNMLEANPGA-DVFLPKSGSQLTIPQQ 87 (310)
T ss_pred eEEEEecCCCCccHHHHHHHhCCCHHHHHHhCCCC-CCCCCCCCCEEEecCc
Confidence 4679999977 59999999973 4699999988 7999999999999863
No 21
>PF05489 Phage_tail_X: Phage Tail Protein X; InterPro: IPR008861 This entry is represented by Bacteriophage P2, GpX. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. This family is found in a family of phage tail proteins. Sequence analysis suggests that they are related to IPR002482 from INTERPRO which suggests a general peptidoglycan binding function.
Probab=97.77 E-value=4.5e-05 Score=50.53 Aligned_cols=45 Identities=31% Similarity=0.493 Sum_probs=37.2
Q ss_pred eEEeccCchHHHHHHHh-CCh-----hhhhhCCCCCCC-CCcCCCcEEEeCCC
Q 035523 78 IYVVGEGETLHTISDKC-GDP-----FIVEHNPHIHDP-DDLFPGLVIKITAP 123 (125)
Q Consensus 78 ~Y~Vk~GDTL~~IA~r~-gd~-----~il~~Np~I~nP-~~I~PGQvIrI~~~ 123 (125)
.|+. .||||=.|++|+ |+. .++++||++.+- ..+-.|.+|+||..
T Consensus 3 v~t~-~GDtlD~I~~r~yG~~~~~~e~ll~aNp~La~~~~~lpaG~~I~lP~i 54 (60)
T PF05489_consen 3 VYTT-QGDTLDLIAYRHYGREDGAVEALLEANPGLADTGPVLPAGTVIILPDI 54 (60)
T ss_pred EEEe-CcCcHHHHHHHHhCcHHHHHHHHHHHChhhhhcCCcCCCCCEEECCCC
Confidence 3555 999999999995 853 489999999988 66677999999864
No 22
>COG3170 FimV Tfp pilus assembly protein FimV [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=97.25 E-value=0.00034 Score=65.31 Aligned_cols=59 Identities=24% Similarity=0.330 Sum_probs=44.4
Q ss_pred eecccccCCCCCCceEEeccCchHHHHHHHh-C-Ch--------hhhhhCCCC---CCCCCcCCCcEEEeCC
Q 035523 64 MVLNKYEYSRPCDEIYVVGEGETLHTISDKC-G-DP--------FIVEHNPHI---HDPDDLFPGLVIKITA 122 (125)
Q Consensus 64 ~~~~~~~~~~~~~~~Y~Vk~GDTL~~IA~r~-g-d~--------~il~~Np~I---~nP~~I~PGQvIrI~~ 122 (125)
+++.........+..|+|++|||||+||.+. + +- .+.+.||+- .|=+.+.+|++||||.
T Consensus 176 ~vR~~A~~~~a~g~tyt~~~~Dtl~dIAs~~rp~~~vt~~Q~~lAly~lNP~af~~gni~RLr~GSvLriP~ 247 (755)
T COG3170 176 PVRQPAPAPAAPGDTYTVRSGDTLWDIASRLRPQDHVTVEQMLLALYQLNPQAFVNGNINRLRAGSVLRIPS 247 (755)
T ss_pred cccCcccCCCCCCcccccCCcchHHHHHHhhcCcccccHHHHHHHHHhhChhhhcccchhhccccceeeccc
Confidence 3444433223466789999999999999997 4 21 389999865 4668999999999985
No 23
>PRK11649 putative peptidase; Provisional
Probab=96.46 E-value=0.0031 Score=55.15 Aligned_cols=42 Identities=26% Similarity=0.388 Sum_probs=33.7
Q ss_pred ceEEeccCchHHHHHHHhCCh-----hhhhhCCCCCCCCCcCCCcEEEeC
Q 035523 77 EIYVVGEGETLHTISDKCGDP-----FIVEHNPHIHDPDDLFPGLVIKIT 121 (125)
Q Consensus 77 ~~Y~Vk~GDTL~~IA~r~gd~-----~il~~Np~I~nP~~I~PGQvIrI~ 121 (125)
..|+|++||||.+|=.++|.+ .+++++ .+...|+|||.|++.
T Consensus 96 ~~~~Vk~GDTl~~iL~r~Gi~~~di~~l~~~~---~~L~~Lr~Gq~l~~~ 142 (439)
T PRK11649 96 HEYVVSTGDTLSSILNQYGIDMSDISQLAAQD---KELRNLKIGQQLSWT 142 (439)
T ss_pred EEEEeCCCCCHHHHHHHcCCCHHHHHHHHHcC---hHhhcCCCCCEEEEE
Confidence 479999999999999999943 255544 356789999999884
No 24
>COG3858 Predicted glycosyl hydrolase [General function prediction only]
Probab=96.39 E-value=0.0031 Score=55.85 Aligned_cols=50 Identities=30% Similarity=0.390 Sum_probs=40.6
Q ss_pred CCCCceEEeccCchHHHHHHHhCCh-h-hhhhCCCCCCCCCcCCCcEEEeCCC
Q 035523 73 RPCDEIYVVGEGETLHTISDKCGDP-F-IVEHNPHIHDPDDLFPGLVIKITAP 123 (125)
Q Consensus 73 ~~~~~~Y~Vk~GDTL~~IA~r~gd~-~-il~~Np~I~nP~~I~PGQvIrI~~~ 123 (125)
.+...+|.|++||||++||.++|.+ . +...| .+..|..+.+|-.|.+|+.
T Consensus 46 ~~~~~~y~~~~~d~~~Sia~~~~vt~~~~~~m~-~~~~~~~l~~~~~l~~P~~ 97 (423)
T COG3858 46 PPSGHFYDVGPGDTLTSIARTVGVTQDSAAIMN-FVICPGYLQYGLNLYIPSA 97 (423)
T ss_pred CCcceEEEecCCcchhhhhhhhcCCHHHHHhhc-ccccccceeeeeEEeccCC
Confidence 4466899999999999999999953 3 44444 5567999999999999874
No 25
>COG4254 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=95.61 E-value=0.012 Score=50.84 Aligned_cols=47 Identities=23% Similarity=0.164 Sum_probs=41.1
Q ss_pred ceEEeccCchHHHHHHHh-CC---hhhhhhCCCCCCCCCcCCCcEEEeCCC
Q 035523 77 EIYVVGEGETLHTISDKC-GD---PFIVEHNPHIHDPDDLFPGLVIKITAP 123 (125)
Q Consensus 77 ~~Y~Vk~GDTL~~IA~r~-gd---~~il~~Np~I~nP~~I~PGQvIrI~~~ 123 (125)
-.|+|+.||||.-.+..| .+ .+.++.-|++.+|+.+.||-.|+|+.+
T Consensus 6 ~~yrv~~gdtli~l~~~yl~~~~g~r~~q~an~~~~P~~l~pgs~l~ip~~ 56 (339)
T COG4254 6 LTYRVLFGDTLILLLGGYLTLLAGSRAAQPANTKRPPFILQPGSCLPIPLP 56 (339)
T ss_pred ceeeeccccHHHHHHHHhhhccchhhhhcccccCCCCcccCCCccccCCCc
Confidence 469999999999999999 43 457777789999999999999999875
No 26
>COG3858 Predicted glycosyl hydrolase [General function prediction only]
Probab=95.32 E-value=0.0097 Score=52.79 Aligned_cols=45 Identities=27% Similarity=0.361 Sum_probs=39.4
Q ss_pred ceEEeccCchHHHHHHHhC--ChhhhhhCCCCCCCCCcCCCcEEEeCCC
Q 035523 77 EIYVVGEGETLHTISDKCG--DPFIVEHNPHIHDPDDLFPGLVIKITAP 123 (125)
Q Consensus 77 ~~Y~Vk~GDTL~~IA~r~g--d~~il~~Np~I~nP~~I~PGQvIrI~~~ 123 (125)
.+|.|++||+++.|+.+|+ ...|+..| .+.| |+|-|||-+.|++.
T Consensus 2 ~i~~~~pg~~~~~i~~~~~~~~~~i~~~~-~~~~-d~~~~~q~~~v~~~ 48 (423)
T COG3858 2 SIHLVGPGDSRLIIAVYFPYTNNRIVNGN-DYTN-DDLVDGQTFVVPPS 48 (423)
T ss_pred EEEEccCCceeeeehhhcccccccccccc-cccc-ccccCceeEEECCc
Confidence 3689999999999999998 35787777 7888 99999999999884
No 27
>COG0739 NlpD Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]
Probab=92.53 E-value=0.17 Score=39.02 Aligned_cols=47 Identities=21% Similarity=0.325 Sum_probs=34.9
Q ss_pred ceEEeccCchHHHHHHHhCCh-hhhhhCCCCCCCCCcCCCcEEEeCCC
Q 035523 77 EIYVVGEGETLHTISDKCGDP-FIVEHNPHIHDPDDLFPGLVIKITAP 123 (125)
Q Consensus 77 ~~Y~Vk~GDTL~~IA~r~gd~-~il~~Np~I~nP~~I~PGQvIrI~~~ 123 (125)
..|+|++||||+.|+.+++.. ..++..+.+..+..+.+||++.++..
T Consensus 2 ~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 49 (277)
T COG0739 2 SLYVVKKGDTLSAIAARLGISAKDLARLNNLLKKRLLRIGQLLRVPRA 49 (277)
T ss_pred ceEEecCCCHHHHHHHHcCCCHHHHHHHHhhccccccCccceeeeccc
Confidence 359999999999999999853 34444334444448999999998753
No 28
>COG5004 P2-like prophage tail protein X [General function prediction only]
Probab=91.19 E-value=0.5 Score=32.87 Aligned_cols=45 Identities=27% Similarity=0.502 Sum_probs=34.9
Q ss_pred eEEeccCchHHHHHHHh-CC-----hhhhhhCCCCCCCCCcCC-CcEEEeCC
Q 035523 78 IYVVGEGETLHTISDKC-GD-----PFIVEHNPHIHDPDDLFP-GLVIKITA 122 (125)
Q Consensus 78 ~Y~Vk~GDTL~~IA~r~-gd-----~~il~~Np~I~nP~~I~P-GQvIrI~~ 122 (125)
+|.-..|||+=.+++|+ |- ..++++||.|.|-.-++| |-.|.+|-
T Consensus 4 ~~Rt~~gDtvDalc~~~Ygrt~~v~eavl~ANpGlAd~gp~lp~gl~i~lPD 55 (70)
T COG5004 4 IVRTRQGDTVDALCWRVYGRTTGVTEAVLEANPGLADWGPVLPHGLAITLPD 55 (70)
T ss_pred EEEeccCchHHHHHHHHHhhHHHHHHHHHhcCCChhhcCCCCccceeEecCC
Confidence 46778999999999995 73 259999999998876666 55566543
No 29
>COG4784 Putative Zn-dependent protease [General function prediction only]
Probab=90.80 E-value=0.3 Score=43.70 Aligned_cols=45 Identities=18% Similarity=0.296 Sum_probs=35.9
Q ss_pred ceEEeccCchHHHHHHHh-CChh---hhhhCCCCCCCCCcCCCcEEEeC
Q 035523 77 EIYVVGEGETLHTISDKC-GDPF---IVEHNPHIHDPDDLFPGLVIKIT 121 (125)
Q Consensus 77 ~~Y~Vk~GDTL~~IA~r~-gd~~---il~~Np~I~nP~~I~PGQvIrI~ 121 (125)
..-+||+|||+-+.|-+- |..+ .+.--|.+..-..+.|||++||-
T Consensus 429 rvvtVk~GqT~~~lAA~m~G~~rkldlfRllNam~~~a~~~pGd~vKii 477 (479)
T COG4784 429 RVVTVKPGQTMASLAARMMGTDRKLDLFRLLNAMSPGATVRPGDKVKII 477 (479)
T ss_pred EEEEecCCccHHHHHhhccCchhHHHHHHHHhccCCCCcCCCCCeeeec
Confidence 558999999999999996 7443 45555677666899999999985
No 30
>TIGR03352 VI_chp_3 type VI secretion lipoprotein, VC_A0113 family. Work by Mougous, et al. (2006), describes IAHP-related loci as a type VI secretion system (PubMed:16763151). This protein family is associated with type VI secretion loci, although not treated explicitly by Mougous, et al.
Probab=88.65 E-value=1.2 Score=33.68 Aligned_cols=86 Identities=16% Similarity=0.173 Sum_probs=39.1
Q ss_pred HHHHHHHHhhcCCCCCCCCCCcccccccccccceecccccCCCCCC---ceEEeccCchHHH---HHHHhCChhhhhhCC
Q 035523 31 FVLVGILLLSSCSSSSSRDQDRDTSVSIEGTSRMVLNKYEYSRPCD---EIYVVGEGETLHT---ISDKCGDPFIVEHNP 104 (125)
Q Consensus 31 l~l~alLl~cS~~~~~apv~d~~~~~~~~~~~~~~~~~~~~~~~~~---~~Y~Vk~GDTL~~---IA~r~gd~~il~~Np 104 (125)
+.++++|.+|++.......... .+++....- -|+...++|.+ ..|..|.-++.-. .+..-++...|..+
T Consensus 7 l~~~llL~gC~s~~~~~~~~~v--~l~i~a~~~--lNp~~~g~p~PvvvrvyqL~d~~~F~~adf~~L~~~~~~~Lg~~- 81 (146)
T TIGR03352 7 LAACLLLAGCSSAPPPKEPTYV--TLTLTAAPD--VNPDEDGRASPVVVRVYELKSDTKFEAADFFALTEDAKKALGDD- 81 (146)
T ss_pred HHHHHHHhhccCCCCCCCCeEE--EEEEEecCC--cCCCCCCCccCeEEEEEEECCccccccCCHHHHHhchHHHHHHH-
Confidence 3344567899876443322111 111111110 12222334433 6788887766422 11111222333332
Q ss_pred CC-CCCCCcCCCcEEEeC
Q 035523 105 HI-HDPDDLFPGLVIKIT 121 (125)
Q Consensus 105 ~I-~nP~~I~PGQvIrI~ 121 (125)
-| .+-..+.|||+..+.
T Consensus 82 ll~~~e~~l~PG~~~~~~ 99 (146)
T TIGR03352 82 LIEQDEIILLPGEKRKIT 99 (146)
T ss_pred HhhcceEEECCCCeeEee
Confidence 22 234578999987764
No 31
>COG3061 OapA Cell envelope opacity-associated protein A [Cell envelope biogenesis, outer membrane]
Probab=87.61 E-value=0.77 Score=38.41 Aligned_cols=47 Identities=23% Similarity=0.278 Sum_probs=34.9
Q ss_pred CCceEEeccCchHHHHHHHhCCh----hhhhhCCCCCCC-CCcCCCcEEEeC
Q 035523 75 CDEIYVVGEGETLHTISDKCGDP----FIVEHNPHIHDP-DDLFPGLVIKIT 121 (125)
Q Consensus 75 ~~~~Y~Vk~GDTL~~IA~r~gd~----~il~~Np~I~nP-~~I~PGQvIrI~ 121 (125)
....|+|++|+||...=+.+|-+ +-.+.=..-.+| ..+.-||+|+|.
T Consensus 158 ~wqsy~V~~G~TLaQlFRdn~LpitDVnAMakveGagkpLSnlkaGq~Vki~ 209 (242)
T COG3061 158 NWQSYTVPQGKTLAQLFRDNNLPITDVNAMAKVEGAGKPLSNLKAGQKVKIS 209 (242)
T ss_pred cceeEEecCCccHHHHHhccCCChHHhHHHHhhccCCCchhhccCCCEEEEE
Confidence 34679999999999998778743 333333455677 789999999984
No 32
>PF07172 GRP: Glycine rich protein family; InterPro: IPR010800 This family consists of glycine rich proteins. Some of them may be involved in resistance to environmental stress [].
Probab=75.26 E-value=2.4 Score=30.39 Aligned_cols=20 Identities=35% Similarity=0.469 Sum_probs=12.5
Q ss_pred HHHHHHHHHHHHHHHHHHHhhc
Q 035523 20 ADAATSLYYCAFVLVGILLLSS 41 (125)
Q Consensus 20 a~~~s~~~~~al~l~alLl~cS 41 (125)
+.++. ++++|+|+++||+.|
T Consensus 2 aSK~~--llL~l~LA~lLlisS 21 (95)
T PF07172_consen 2 ASKAF--LLLGLLLAALLLISS 21 (95)
T ss_pred chhHH--HHHHHHHHHHHHHHh
Confidence 44444 677777767666654
No 33
>PF06749 DUF1218: Protein of unknown function (DUF1218); InterPro: IPR009606 This family contains hypothetical plant proteins of unknown function. Family members contain a number of conserved cysteine residues.
Probab=70.63 E-value=12 Score=26.37 Aligned_cols=26 Identities=8% Similarity=0.142 Sum_probs=18.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHhhcCCCCC
Q 035523 19 IADAATSLYYCAFVLVGILLLSSCSSSS 46 (125)
Q Consensus 19 ~a~~~s~~~~~al~l~alLl~cS~~~~~ 46 (125)
.---.+ |.+.++..++|+..+..+..
T Consensus 39 ~~~v~S--Wi~f~ia~~~ll~ga~~n~~ 64 (97)
T PF06749_consen 39 VFFVLS--WIVFIIAEALLLAGASMNAR 64 (97)
T ss_pred hhHHHH--HHHHHHHHHHHHHHHhcccc
Confidence 444566 88877777778877777554
No 34
>cd00565 ThiS ThiaminS ubiquitin-like sulfur carrier protein. ThiS (ThiaminS) is a sulfur carrier protein involved in thiamin biosynthesis in bacteria. The ThiS fold, like those of two closely related proteins MoaD and Urm1, is similar to that of ubiquitin although there is little or no sequence similarity.
Probab=62.71 E-value=6.9 Score=25.07 Aligned_cols=48 Identities=29% Similarity=0.250 Sum_probs=37.3
Q ss_pred CceEEeccCchHHHHHHHhCCh---hhhhhCCCCCCCC-----CcCCCcEEEeCCC
Q 035523 76 DEIYVVGEGETLHTISDKCGDP---FIVEHNPHIHDPD-----DLFPGLVIKITAP 123 (125)
Q Consensus 76 ~~~Y~Vk~GDTL~~IA~r~gd~---~il~~Np~I~nP~-----~I~PGQvIrI~~~ 123 (125)
++.|.+.+|-|+.++-.+.+.+ ..++.|..+-.++ .|..|++|.|-++
T Consensus 6 g~~~~~~~~~tv~~ll~~l~~~~~~i~V~vNg~~v~~~~~~~~~L~~gD~V~ii~~ 61 (65)
T cd00565 6 GEPREVEEGATLAELLEELGLDPRGVAVALNGEIVPRSEWASTPLQDGDRIEIVTA 61 (65)
T ss_pred CeEEEcCCCCCHHHHHHHcCCCCCcEEEEECCEEcCHHHcCceecCCCCEEEEEEe
Confidence 4568899999999999998732 3667887775555 7999999988554
No 35
>PF08356 EF_assoc_2: EF hand associated; InterPro: IPR013567 This region predominantly appears near EF-hands (IPR002048 from INTERPRO) in GTP-binding proteins. It is found in all three eukaryotic kingdoms.
Probab=59.24 E-value=10 Score=27.12 Aligned_cols=43 Identities=19% Similarity=0.199 Sum_probs=31.3
Q ss_pred eccC--chHHHHHHHhCChhhhhhCC-CCCCCCCcCCCcEEEeCCC
Q 035523 81 VGEG--ETLHTISDKCGDPFIVEHNP-HIHDPDDLFPGLVIKITAP 123 (125)
Q Consensus 81 Vk~G--DTL~~IA~r~gd~~il~~Np-~I~nP~~I~PGQvIrI~~~ 123 (125)
+++| ||.|.|=++||..-.+.-+. -|..+-++-|||.+-|++.
T Consensus 42 ierGR~ETtW~vLR~FgY~d~L~L~d~~l~p~l~v~~~~svELS~~ 87 (89)
T PF08356_consen 42 IERGRHETTWTVLRKFGYDDDLSLSDDFLYPKLDVPPDQSVELSPE 87 (89)
T ss_pred HHhCcchHHHHHHHHcCCCCcceeccccCCCCccCCCCCeeecCcC
Confidence 4677 99999999998544444443 3444478889999988774
No 36
>PF13510 Fer2_4: 2Fe-2S iron-sulfur cluster binding domain; PDB: 1Y56_A 3ADA_A 1VRQ_A 1X31_A 3AD9_A 3AD8_A 3AD7_A 2GAG_A 2GAH_A.
Probab=56.81 E-value=11 Score=25.65 Aligned_cols=21 Identities=24% Similarity=0.105 Sum_probs=16.9
Q ss_pred CceEEeccCchHHHHHHHhCC
Q 035523 76 DEIYVVGEGETLHTISDKCGD 96 (125)
Q Consensus 76 ~~~Y~Vk~GDTL~~IA~r~gd 96 (125)
+..|.|.+|+||.+.+++.|.
T Consensus 10 G~~v~~~~G~til~al~~~gi 30 (82)
T PF13510_consen 10 GKPVEVPPGETILEALLAAGI 30 (82)
T ss_dssp TEEEEEEET-BHHHHHHHTT-
T ss_pred CEEEEEcCCCHHHHHHHHCCC
Confidence 345999999999999999984
No 37
>PRK08364 sulfur carrier protein ThiS; Provisional
Probab=55.46 E-value=17 Score=23.90 Aligned_cols=47 Identities=15% Similarity=0.086 Sum_probs=36.8
Q ss_pred ceEEeccCchHHHHHHHhCCh---hhhhhCCCCCCCC-CcCCCcEEEeCCC
Q 035523 77 EIYVVGEGETLHTISDKCGDP---FIVEHNPHIHDPD-DLFPGLVIKITAP 123 (125)
Q Consensus 77 ~~Y~Vk~GDTL~~IA~r~gd~---~il~~Np~I~nP~-~I~PGQvIrI~~~ 123 (125)
..+.+.+|-|+.++-...|.+ ..++.|-.+-.++ .|..|+.|.|-++
T Consensus 16 ~~~~~~~~~tv~~ll~~l~~~~~~v~v~vNg~iv~~~~~l~~gD~Veii~~ 66 (70)
T PRK08364 16 KEIEWRKGMKVADILRAVGFNTESAIAKVNGKVALEDDPVKDGDYVEVIPV 66 (70)
T ss_pred eEEEcCCCCcHHHHHHHcCCCCccEEEEECCEECCCCcCcCCCCEEEEEcc
Confidence 457789999999999998843 3778887776665 4899999988543
No 38
>KOG2850 consensus Predicted peptidoglycan-binding protein, contains LysM domain [General function prediction only]
Probab=55.24 E-value=9.7 Score=30.64 Aligned_cols=26 Identities=27% Similarity=0.243 Sum_probs=20.0
Q ss_pred eEEeccCchHHHHHHHhCC-h-hhhhhC
Q 035523 78 IYVVGEGETLHTISDKCGD-P-FIVEHN 103 (125)
Q Consensus 78 ~Y~Vk~GDTL~~IA~r~gd-~-~il~~N 103 (125)
.-+||+||||-.||.+|-. . .|..-|
T Consensus 11 ~~~iq~~dt~~a~al~~~~~va~i~RvN 38 (186)
T KOG2850|consen 11 EVTIQEGDTLQAIALNYESDVADIKRVN 38 (186)
T ss_pred eeeeccCchhhhHHhhcccchhhheeec
Confidence 3689999999999999963 2 355555
No 39
>TIGR03028 EpsE polysaccharide export protein EpsE. Sequences in this family of proteins are members of a polysaccharide export protein family (pfam02563) which includes the wza protein from E.coli. This family of proteins are homologous to the EpsE protein of the methanolan biosynthesis operon of Methylobacillus species strain 12S. The distribution of this protein appears to be restricted to a subset of exopolysaccharide operons containing a syntenic grouping of genes including a variant of the EpsH exosortase protein. Exosortase has been proposed to be involved in the targetting and processing of proteins containing the PEP-CTERM domain to the exopolysaccharide layer.
Probab=54.47 E-value=24 Score=28.06 Aligned_cols=51 Identities=18% Similarity=0.175 Sum_probs=35.2
Q ss_pred CCceEEeccCchHHHHHHHhC--Ch-------hhhhhCCC-------CCCCCCcCCCcEEEeCCCCC
Q 035523 75 CDEIYVVGEGETLHTISDKCG--DP-------FIVEHNPH-------IHDPDDLFPGLVIKITAPPF 125 (125)
Q Consensus 75 ~~~~Y~Vk~GDTL~~IA~r~g--d~-------~il~~Np~-------I~nP~~I~PGQvIrI~~~~~ 125 (125)
.++.|..++|-||.+.-.+.| ++ +++..+++ +.-.+.|+||++|.++.+.|
T Consensus 173 ~pg~~~~~~~~tl~~al~~aGG~~~~a~~~~v~i~R~~~~g~~~~~~~~~~~~l~~gDii~V~~s~~ 239 (239)
T TIGR03028 173 RPGAYRLERNMTVMQALAQGGGLTPRGTERGIRVMRRDDKGAVEEVSGELGDLVQPDDVIYVRESLF 239 (239)
T ss_pred CCeEEEeCCCCCHHHHHHhcCCCCcccCcceEEEEEECCCCcEEEEecCCCcccCCCCEEEEeCccC
Confidence 557789999999988777764 22 24433321 11223599999999999987
No 40
>COG4228 Mu-like prophage DNA circulation protein [General function prediction only]
Probab=53.04 E-value=19 Score=32.70 Aligned_cols=43 Identities=23% Similarity=0.295 Sum_probs=33.2
Q ss_pred eEEeccCch--HHHHHHHh-CCh----hhhhhCCCCCCCCCcCCCcEEEe
Q 035523 78 IYVVGEGET--LHTISDKC-GDP----FIVEHNPHIHDPDDLFPGLVIKI 120 (125)
Q Consensus 78 ~Y~Vk~GDT--L~~IA~r~-gd~----~il~~Np~I~nP~~I~PGQvIrI 120 (125)
.-+|+=+|| ++-+|.|+ ||. .++..||+|++|.-|.-|-.++.
T Consensus 399 ~~~v~~~~t~pa~lla~r~yGd~~r~~elvrl~n~I~HP~Fi~~Gt~~~~ 448 (451)
T COG4228 399 AAEVDGNTTEPALLLAYRFYGDSARGWELVRLNNGIHHPAFIPGGTLVNV 448 (451)
T ss_pred eeEEecCCcchHHHHHHHHhcchhhhhHHHhhcCCCCCcccccCCeeehh
Confidence 355666665 67888884 874 49999999999999998877653
No 41
>PF11246 Phage_gp53: Base plate wedge protein 53; InterPro: IPR022607 The baseplate of Enterobacteria phage T4 controls host cell recognition, attachment, tail sheath contraction and viral DNA ejection. The structure of the baseplate suggests a mechanism of baseplate structural transition during the initial stages of T4 infection. The baseplate is assembled from six identical wedges that surround the central hub. Gp53, along with other T4 gene products, combine sequentially to assemble a wedge [].
Probab=51.75 E-value=10 Score=30.48 Aligned_cols=36 Identities=33% Similarity=0.504 Sum_probs=28.8
Q ss_pred CCceEEeccCchHHHHHHH-hCCh---h-hhhhCCCCCCCCC
Q 035523 75 CDEIYVVGEGETLHTISDK-CGDP---F-IVEHNPHIHDPDD 111 (125)
Q Consensus 75 ~~~~Y~Vk~GDTL~~IA~r-~gd~---~-il~~Np~I~nP~~ 111 (125)
..+.|.|+.|++=..+|.+ |||+ | ||-.| +|.||+.
T Consensus 44 ~~~~Y~I~~g~RPe~vA~~lYGdp~ldWiiLm~N-nI~D~y~ 84 (193)
T PF11246_consen 44 LFETYYIRGGERPEQVAYRLYGDPQLDWIILMIN-NIYDPYY 84 (193)
T ss_pred eeEEEEeCCCCCHHHHHHHHhCCccceeeeeeec-CCcchhh
Confidence 4578999999999999999 5986 3 45555 8889953
No 42
>PRK06437 hypothetical protein; Provisional
Probab=49.26 E-value=21 Score=23.49 Aligned_cols=46 Identities=13% Similarity=0.027 Sum_probs=36.1
Q ss_pred ceEEeccCchHHHHHHHhCCh---hhhhhCCCCCCC-CCcCCCcEEEeCC
Q 035523 77 EIYVVGEGETLHTISDKCGDP---FIVEHNPHIHDP-DDLFPGLVIKITA 122 (125)
Q Consensus 77 ~~Y~Vk~GDTL~~IA~r~gd~---~il~~Np~I~nP-~~I~PGQvIrI~~ 122 (125)
..+.+.+|-|+.++..+.|.+ ..++.|-.+-.+ ..|.+|++|.|-+
T Consensus 13 ~~~~i~~~~tv~dLL~~Lgi~~~~vaV~vNg~iv~~~~~L~dgD~Veiv~ 62 (67)
T PRK06437 13 KTIEIDHELTVNDIIKDLGLDEEEYVVIVNGSPVLEDHNVKKEDDVLILE 62 (67)
T ss_pred eEEEcCCCCcHHHHHHHcCCCCccEEEEECCEECCCceEcCCCCEEEEEe
Confidence 458899999999999999842 366788666556 4688999998854
No 43
>PRK07569 bidirectional hydrogenase complex protein HoxU; Validated
Probab=47.17 E-value=18 Score=28.78 Aligned_cols=20 Identities=30% Similarity=0.406 Sum_probs=17.8
Q ss_pred ceEEeccCchHHHHHHHhCC
Q 035523 77 EIYVVGEGETLHTISDKCGD 96 (125)
Q Consensus 77 ~~Y~Vk~GDTL~~IA~r~gd 96 (125)
..|.|.+|+||.+.+++.|.
T Consensus 11 ~~~~~~~g~til~a~~~~gi 30 (234)
T PRK07569 11 QLVSAREGETLLEAAREAGI 30 (234)
T ss_pred EEEEeCCCCHHHHHHHHcCC
Confidence 34999999999999999884
No 44
>PF13533 Biotin_lipoyl_2: Biotin-lipoyl like
Probab=45.07 E-value=3.7 Score=25.49 Aligned_cols=13 Identities=23% Similarity=0.442 Sum_probs=10.4
Q ss_pred EeccCchHHHHHH
Q 035523 80 VVGEGETLHTISD 92 (125)
Q Consensus 80 ~Vk~GDTL~~IA~ 92 (125)
.||+||+|+.|-.
T Consensus 23 ~VkkGd~L~~ld~ 35 (50)
T PF13533_consen 23 QVKKGDVLLVLDS 35 (50)
T ss_pred EEcCCCEEEEECc
Confidence 6999999987643
No 45
>PF13117 Cag12: Cag pathogenicity island protein Cag12
Probab=44.82 E-value=14 Score=27.50 Aligned_cols=21 Identities=14% Similarity=-0.010 Sum_probs=15.0
Q ss_pred HHHHHHHhhcCCCCCCCCCCc
Q 035523 32 VLVGILLLSSCSSSSSRDQDR 52 (125)
Q Consensus 32 ~l~alLl~cS~~~~~apv~d~ 52 (125)
+++++|.+|||...+.+++..
T Consensus 2 ~~~~~L~gCSSpP~P~~v~~~ 22 (113)
T PF13117_consen 2 ILALMLSGCSSPPEPPPVDWN 22 (113)
T ss_pred chheeehhcCCCCCCCCcCCC
Confidence 455678899888777776544
No 46
>PRK05659 sulfur carrier protein ThiS; Validated
Probab=43.27 E-value=36 Score=21.46 Aligned_cols=46 Identities=26% Similarity=0.284 Sum_probs=34.0
Q ss_pred ceEEeccCchHHHHHHHhCCh---hhhhhCCCCC-----CCCCcCCCcEEEeCC
Q 035523 77 EIYVVGEGETLHTISDKCGDP---FIVEHNPHIH-----DPDDLFPGLVIKITA 122 (125)
Q Consensus 77 ~~Y~Vk~GDTL~~IA~r~gd~---~il~~Np~I~-----nP~~I~PGQvIrI~~ 122 (125)
+.|.+.+|.||.++-...|.+ ..++.|-.|- .-..+..|++|.|-+
T Consensus 8 ~~~~~~~~~tl~~lL~~l~~~~~~vav~vNg~iv~r~~~~~~~l~~gD~vei~~ 61 (66)
T PRK05659 8 EPRELPDGESVAALLAREGLAGRRVAVEVNGEIVPRSQHASTALREGDVVEIVH 61 (66)
T ss_pred eEEEcCCCCCHHHHHHhcCCCCCeEEEEECCeEeCHHHcCcccCCCCCEEEEEE
Confidence 458999999999999998843 2566674442 335799999998743
No 47
>PF05373 Pro_3_hydrox_C: L-proline 3-hydroxylase, C-terminal; InterPro: IPR008035 Iron (II)/2-oxoglutarate (2-OG)-dependent oxygenases catalyse oxidative reactions in a range of metabolic processes. Proline 3-hydroxylase hydroxylates proline at position 3, the first of a 2-OG oxygenase catalysing oxidation of a free alpha-amino acid. The structure contains conserved motifs present in other 2-OG oxygenases including a jelly roll strand core and residues binding iron and 2-oxoglutarate, consistent with divergent evolution within the extended family. The structure differs significantly from many other 2-OG oxygenases in possessing a discrete C-terminal helical domain.; GO: 0016706 oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen, 2-oxoglutarate as one donor, and incorporation of one atom each of oxygen into both donors, 0055114 oxidation-reduction process; PDB: 1E5S_A 1E5R_B.
Probab=42.28 E-value=17 Score=26.78 Aligned_cols=18 Identities=39% Similarity=0.658 Sum_probs=14.7
Q ss_pred chHHHHHHHhCChhhhhh
Q 035523 85 ETLHTISDKCGDPFIVEH 102 (125)
Q Consensus 85 DTL~~IA~r~gd~~il~~ 102 (125)
|+|-+||.|.||+.++++
T Consensus 68 DWL~eia~rsGD~alv~k 85 (101)
T PF05373_consen 68 DWLIEIARRSGDPALVEK 85 (101)
T ss_dssp HHHHHHHHHCT-HHHHHH
T ss_pred HHHHHHHHHcCCHHHHHH
Confidence 899999999999976654
No 48
>PRK02710 plastocyanin; Provisional
Probab=39.18 E-value=49 Score=23.65 Aligned_cols=13 Identities=15% Similarity=0.296 Sum_probs=10.0
Q ss_pred CCceEEeccCchH
Q 035523 75 CDEIYVVGEGETL 87 (125)
Q Consensus 75 ~~~~Y~Vk~GDTL 87 (125)
.+...+|++|||+
T Consensus 45 ~P~~i~v~~Gd~V 57 (119)
T PRK02710 45 EPSTLTIKAGDTV 57 (119)
T ss_pred eCCEEEEcCCCEE
Confidence 3456899999984
No 49
>PF15608 PELOTA_1: PELOTA RNA binding domain
Probab=38.54 E-value=25 Score=25.77 Aligned_cols=20 Identities=30% Similarity=0.606 Sum_probs=12.8
Q ss_pred hHHHHHHHhCChhhhhhCCCCCCCCCcCCC
Q 035523 86 TLHTISDKCGDPFIVEHNPHIHDPDDLFPG 115 (125)
Q Consensus 86 TL~~IA~r~gd~~il~~Np~I~nP~~I~PG 115 (125)
.+-.|+++|| |.|.|.|.||
T Consensus 24 ~v~~i~~~~g----------I~diN~IKPG 43 (100)
T PF15608_consen 24 EVERIAERYG----------ISDINLIKPG 43 (100)
T ss_pred HHHHHHHHhC----------CCCcccccCC
Confidence 4556666665 5666666666
No 50
>cd01616 TGS The TGS domain, named after the ThrRS, GTPase, and SpoT/RelA proteins where it occurs, is structurally similar to ubiquitin. TGS is a small domain of about 50 amino acid residues with a predominantly beta-sheet structure. There is no direct information on the function of the TGS domain, but its presence in two types of regulatory proteins (the GTPases and guanosine polyphosphate phosphohydrolases/synthetases) suggests a ligand (most likely nucleotide)-binding, regulatory role.
Probab=37.96 E-value=54 Score=18.54 Aligned_cols=45 Identities=18% Similarity=0.091 Sum_probs=30.5
Q ss_pred CceEEeccCchHHHHHHHhCCh-----hhhhhCCCCCCCC-CcCCCcEEEe
Q 035523 76 DEIYVVGEGETLHTISDKCGDP-----FIVEHNPHIHDPD-DLFPGLVIKI 120 (125)
Q Consensus 76 ~~~Y~Vk~GDTL~~IA~r~gd~-----~il~~Np~I~nP~-~I~PGQvIrI 120 (125)
+..|.+.+|-|+.+++.+.... .....|.++.+-+ .+..|..|.+
T Consensus 8 ~~~~~~~~g~t~~~~~~~~~~~~~~~~~~~~vn~~~~~l~~~l~~~~~i~~ 58 (60)
T cd01616 8 GSAVELPKGATAMDFALKIHTDLGKGFIGALVNGQLVDLSYTLQDGDTVSI 58 (60)
T ss_pred CCEEEcCCCCCHHHHHHHHHHHHHhheEEEEECCEECCCCcCcCCCCEEEE
Confidence 4568899999999999987432 2334566666653 4566777654
No 51
>TIGR02007 fdx_isc ferredoxin, 2Fe-2S type, ISC system. This family consists of proteobacterial ferredoxins associated with and essential to the ISC system of 2Fe-2S cluster assembly. This family is closely related to (but excludes) eukaryotic (mitochondrial) adrenodoxins, which are ferredoxins involved in electron transfer to P450 cytochromes.
Probab=36.64 E-value=43 Score=23.74 Aligned_cols=25 Identities=20% Similarity=0.214 Sum_probs=21.3
Q ss_pred CCCCceEEeccCchHHHHHHHhCCh
Q 035523 73 RPCDEIYVVGEGETLHTISDKCGDP 97 (125)
Q Consensus 73 ~~~~~~Y~Vk~GDTL~~IA~r~gd~ 97 (125)
.|.+..+.|.+|+||.+.+.+.|.+
T Consensus 12 ~p~~~~~~~~~g~tLL~a~~~~gi~ 36 (110)
T TIGR02007 12 CPEGAVVEAKPGETILDVALDNGIE 36 (110)
T ss_pred CCCCeEEEECCCChHHHHHHHcCCC
Confidence 4566779999999999999999853
No 52
>PRK15396 murein lipoprotein; Provisional
Probab=36.29 E-value=35 Score=23.91 Aligned_cols=17 Identities=24% Similarity=0.176 Sum_probs=11.8
Q ss_pred HHHHHHH-HHHHHhhcCC
Q 035523 27 YYCAFVL-VGILLLSSCS 43 (125)
Q Consensus 27 ~~~al~l-~alLl~cS~~ 43 (125)
++.++.+ ++||.+|++.
T Consensus 7 ~l~av~ls~~LLaGCAs~ 24 (78)
T PRK15396 7 VLGAVILGSTLLAGCSSN 24 (78)
T ss_pred HHHHHHHHHHHHHHcCCc
Confidence 6666666 4467899875
No 53
>PRK10722 hypothetical protein; Provisional
Probab=36.18 E-value=57 Score=27.56 Aligned_cols=53 Identities=8% Similarity=-0.016 Sum_probs=31.4
Q ss_pred HHHHHHHHHHHHhhcCCCCCCCCCCcccccccccccceecccccCCCCCCceEEeccCchHHHHHHH
Q 035523 27 YYCAFVLVGILLLSSCSSSSSRDQDRDTSVSIEGTSRMVLNKYEYSRPCDEIYVVGEGETLHTISDK 93 (125)
Q Consensus 27 ~~~al~l~alLl~cS~~~~~apv~d~~~~~~~~~~~~~~~~~~~~~~~~~~~Y~Vk~GDTL~~IA~r 93 (125)
.+.++++..+|.+|+......+..+..+ .++- ...-..|.-..=|+||+|...
T Consensus 17 ~~~~~l~~llL~gC~~~~~~~~~~~~~~--------~~~p------e~~~~Dyr~~~C~~iW~~~~~ 69 (247)
T PRK10722 17 LWLSGLPCLLLAGCVQNANKPAASTAAE--------EKIP------EYQLADYRSTECDDIWALQGK 69 (247)
T ss_pred HHHHHHHHHHHHHccCCCCCcccccccc--------cCCC------cchhhhhhhccHhHHhcccCc
Confidence 4445666677889988877665544311 0111 112234778888888888654
No 54
>KOG3416 consensus Predicted nucleic acid binding protein [General function prediction only]
Probab=36.18 E-value=24 Score=27.38 Aligned_cols=18 Identities=22% Similarity=0.261 Sum_probs=14.7
Q ss_pred CC-CCcCCCcEEEeCCCCC
Q 035523 108 DP-DDLFPGLVIKITAPPF 125 (125)
Q Consensus 108 nP-~~I~PGQvIrI~~~~~ 125 (125)
++ +.|.||++||++..|+
T Consensus 57 e~~~~~~PGDIirLt~Gy~ 75 (134)
T KOG3416|consen 57 EEGCLIQPGDIIRLTGGYA 75 (134)
T ss_pred CcCcccCCccEEEecccch
Confidence 44 6899999999987664
No 55
>PRK13792 lysozyme inhibitor; Provisional
Probab=35.91 E-value=24 Score=26.72 Aligned_cols=21 Identities=14% Similarity=0.157 Sum_probs=16.5
Q ss_pred HHHHHHHHHHHHHhhcCCCCC
Q 035523 26 LYYCAFVLVGILLLSSCSSSS 46 (125)
Q Consensus 26 ~~~~al~l~alLl~cS~~~~~ 46 (125)
||+.++.+++||.+||.....
T Consensus 5 l~~ll~~~~~lLsaCs~~~~~ 25 (127)
T PRK13792 5 LWLLLAAVPVVLVACGGSDDD 25 (127)
T ss_pred HHHHHHHHHhheecccCCCCC
Confidence 388888888889999887553
No 56
>PF05702 Herpes_UL49_5: Herpesvirus UL49.5 envelope/tegument protein; InterPro: IPR008647 UL49.5 protein consists of 98 amino acids with a calculated molecular mass of 10,155 Da. It contains putative signal peptide and transmembrane domains but lacks a consensus sequence for N glycosylation. UL49.5 protein is an O-glycosylated structural component of the viral envelope [].
Probab=35.49 E-value=58 Score=23.99 Aligned_cols=18 Identities=17% Similarity=0.139 Sum_probs=13.4
Q ss_pred ccccCCCcccchhhHHHH
Q 035523 5 LCSQRSSSTGTGIGIADA 22 (125)
Q Consensus 5 ~~~~~~~~~~~~~~~a~~ 22 (125)
-||.||.+.......+--
T Consensus 48 ~CSArGv~i~~~s~asV~ 65 (98)
T PF05702_consen 48 ACSARGVPIDFPSAASVL 65 (98)
T ss_pred ccccCceecCCccHHHHH
Confidence 499999998877665443
No 57
>PRK06944 sulfur carrier protein ThiS; Provisional
Probab=34.98 E-value=50 Score=20.67 Aligned_cols=48 Identities=21% Similarity=0.330 Sum_probs=34.9
Q ss_pred CceEEeccCchHHHHHHHhCC-h-hhhhhCCCCCCC-----CCcCCCcEEEeCCC
Q 035523 76 DEIYVVGEGETLHTISDKCGD-P-FIVEHNPHIHDP-----DDLFPGLVIKITAP 123 (125)
Q Consensus 76 ~~~Y~Vk~GDTL~~IA~r~gd-~-~il~~Np~I~nP-----~~I~PGQvIrI~~~ 123 (125)
++.+.+.+|-||.++-...+. + ..++.|-.+-+. ..+..|++|-|-++
T Consensus 7 g~~~~~~~~~tl~~ll~~l~~~~~~~v~vN~~~v~~~~~~~~~L~~gD~vei~~~ 61 (65)
T PRK06944 7 QQTLSLPDGATVADALAAYGARPPFAVAVNGDFVARTQHAARALAAGDRLDLVQP 61 (65)
T ss_pred CEEEECCCCCcHHHHHHhhCCCCCeEEEECCEEcCchhcccccCCCCCEEEEEee
Confidence 456888899999999988873 3 366777655432 46999999988554
No 58
>cd01666 TGS_DRG_C TGS_DRG_C: DRG (developmentally regulated GTP-binding protein) represents a family of GTP-binding proteins that includes two members, DRG1 and DRG2. DRG1 and DRG2 have a C-terminal TGS domain (named after the ThrRS, GTPase, and SpoT proteins where it occurs) with a predominantly beta-sheet structure. The function of TGS is unknown but its presence in two types of regulatory proteins (the DRG GTPases and guanosine polyphosphate phosphohydrolases/synthetases) suggests a ligand (most likely nucleotide)-binding, regulatory role.
Probab=34.55 E-value=83 Score=21.39 Aligned_cols=56 Identities=27% Similarity=0.367 Sum_probs=34.9
Q ss_pred ecccccCCCC-CCceEEeccCchHHHHHHHhC-C---hh----hh----hhCCCCCCC-CCcCCCcEEEe
Q 035523 65 VLNKYEYSRP-CDEIYVVGEGETLHTISDKCG-D---PF----IV----EHNPHIHDP-DDLFPGLVIKI 120 (125)
Q Consensus 65 ~~~~~~~~~~-~~~~Y~Vk~GDTL~~IA~r~g-d---~~----il----~~Np~I~nP-~~I~PGQvIrI 120 (125)
||....+..| -++.+++++|.|.-+.|.+.+ + .+ +| ..|++--.+ +.+.=|+++.|
T Consensus 4 vytk~~g~~~d~~~~liL~~GaTV~D~a~~iH~di~~~f~~A~v~g~s~~~~gq~Vgl~~~L~d~DvVeI 73 (75)
T cd01666 4 VYTKPKGQEPDFDEPVILRRGSTVEDVCNKIHKDLVKQFKYALVWGSSVKHSPQRVGLDHVLEDEDVVQI 73 (75)
T ss_pred EEeCCCCCCCCCCCCEEECCCCCHHHHHHHHHHHHHHhCCeeEEeccCCcCCCeECCCCCEecCCCEEEE
Confidence 4555444333 457799999999999988865 2 11 11 125544444 56777777776
No 59
>PRK15175 Vi polysaccharide export protein VexA; Provisional
Probab=34.24 E-value=53 Score=28.45 Aligned_cols=9 Identities=22% Similarity=0.516 Sum_probs=6.3
Q ss_pred EEeccCchH
Q 035523 79 YVVGEGETL 87 (125)
Q Consensus 79 Y~Vk~GDTL 87 (125)
|++.+||+|
T Consensus 70 ~~ig~GDvL 78 (355)
T PRK15175 70 TSLAKGDVL 78 (355)
T ss_pred ceECCCCEE
Confidence 677777765
No 60
>TIGR01683 thiS thiamine biosynthesis protein ThiS. This model represents ThiS, a small thiamine-biosynthesis protein related to MoaD, a molybdenum cofactor biosynthesis protein. Both proteins are involved in sulfur transfer. ThiS has a conserved Gly-Gly C-terminus that is modified, in reactions requiring ThiI, ThiF, IscS, and a sulfur atom from Cys, into the thiocarboxylate that provides the sulfur for thiazole biosynthesis.
Probab=34.14 E-value=33 Score=21.83 Aligned_cols=48 Identities=29% Similarity=0.227 Sum_probs=35.4
Q ss_pred CceEEeccCchHHHHHHHhCC-h--hhhhhCCCCCCC-----CCcCCCcEEEeCCC
Q 035523 76 DEIYVVGEGETLHTISDKCGD-P--FIVEHNPHIHDP-----DDLFPGLVIKITAP 123 (125)
Q Consensus 76 ~~~Y~Vk~GDTL~~IA~r~gd-~--~il~~Np~I~nP-----~~I~PGQvIrI~~~ 123 (125)
+..|.+.+|=||.++-.+.+. + ..++.|..+-.+ ..|..|++|.|-++
T Consensus 5 g~~~~~~~~~tv~~ll~~l~~~~~~v~v~vN~~iv~~~~~~~~~L~~gD~veii~~ 60 (64)
T TIGR01683 5 GEPVEVEDGLTLAALLESLGLDPRRVAVAVNGEIVPRSEWDDTILKEGDRIEIVTF 60 (64)
T ss_pred CeEEEcCCCCcHHHHHHHcCCCCCeEEEEECCEEcCHHHcCceecCCCCEEEEEEe
Confidence 345788888899999999873 2 377888766443 35999999988553
No 61
>PF12912 N_NLPC_P60: NLPC_P60 stabilising domain, N term; PDB: 3M1U_B.
Probab=32.33 E-value=15 Score=26.44 Aligned_cols=20 Identities=10% Similarity=0.056 Sum_probs=0.0
Q ss_pred HHHHHHHHHHhhcCCCCCCC
Q 035523 29 CAFVLVGILLLSSCSSSSSR 48 (125)
Q Consensus 29 ~al~l~alLl~cS~~~~~ap 48 (125)
+.++++++|.+|+.+....+
T Consensus 3 ~~~l~~lll~gCs~k~~~~~ 22 (124)
T PF12912_consen 3 ILLLALLLLAGCSSKTPPPP 22 (124)
T ss_dssp --------------------
T ss_pred HHHHHHHHHHHhCCCCCCCC
Confidence 34445556679998876553
No 62
>PRK11548 outer membrane biogenesis protein BamE; Provisional
Probab=31.69 E-value=62 Score=23.16 Aligned_cols=22 Identities=18% Similarity=0.368 Sum_probs=15.9
Q ss_pred ceEEeccCchHHHHHHHhCChh
Q 035523 77 EIYVVGEGETLHTISDKCGDPF 98 (125)
Q Consensus 77 ~~Y~Vk~GDTL~~IA~r~gd~~ 98 (125)
..-.|++|.|=-++..-.|.|.
T Consensus 42 ~l~~l~~GmTk~qV~~lLGtP~ 63 (113)
T PRK11548 42 DVAKIHVGMTQQQVAYTLGTPM 63 (113)
T ss_pred HHHHhcCCCCHHHHHHHcCCCc
Confidence 4457888888777777777663
No 63
>PF14979 TMEM52: Transmembrane 52
Probab=31.62 E-value=39 Score=26.77 Aligned_cols=18 Identities=39% Similarity=0.678 Sum_probs=10.5
Q ss_pred HHHHHHHHHHHH--HHHhhc
Q 035523 24 TSLYYCAFVLVG--ILLLSS 41 (125)
Q Consensus 24 s~~~~~al~l~a--lLl~cS 41 (125)
++|||+.+++++ |||+|.
T Consensus 17 ~~LWyIwLill~~~llLLCG 36 (154)
T PF14979_consen 17 SSLWYIWLILLIGFLLLLCG 36 (154)
T ss_pred ehhhHHHHHHHHHHHHHHHH
Confidence 357888766444 445553
No 64
>PF02796 HTH_7: Helix-turn-helix domain of resolvase; InterPro: IPR006120 Site-specific recombination plays an important role in DNA rearrangement in prokaryotic organisms. Two types of site-specific recombination are known to occur: Recombination between inverted repeats resulting in the reversal of a DNA segment. Recombination between repeat sequences on two DNA molecules resulting in their cointegration, or between repeats on one DNA molecule resulting in the excision of a DNA fragment. Site-specific recombination is characterised by a strand exchange mechanism that requires no DNA synthesis or high energy cofactor; the phosphodiester bond energy is conserved in a phospho-protein linkage during strand cleavage and re-ligation. Two unrelated families of recombinases are currently known []. The first, called the 'phage integrase' family, groups a number of bacterial phage and yeast plasmid enzymes. The second [], called the 'resolvase' family, groups enzymes which share the following structural characteristics: an N-terminal catalytic and dimerization domain that contains a conserved serine residue involved in the transient covalent attachment to DNA IPR006119 from INTERPRO, and a C-terminal helix-turn-helix DNA-binding domain. ; GO: 0000150 recombinase activity, 0003677 DNA binding, 0006310 DNA recombination; PDB: 1ZR2_A 2GM4_B 1RES_A 1ZR4_A 1RET_A 1GDT_B 2R0Q_C 1JKP_C 1IJW_C 1JJ6_C ....
Probab=30.81 E-value=39 Score=20.26 Aligned_cols=22 Identities=23% Similarity=0.391 Sum_probs=14.2
Q ss_pred ccCchHHHHHHHhCCh-----hhhhhC
Q 035523 82 GEGETLHTISDKCGDP-----FIVEHN 103 (125)
Q Consensus 82 k~GDTL~~IA~r~gd~-----~il~~N 103 (125)
+.|-|..+||..+|.. ++++.|
T Consensus 19 ~~G~si~~IA~~~gvsr~TvyR~l~~~ 45 (45)
T PF02796_consen 19 AEGMSIAEIAKQFGVSRSTVYRYLNKN 45 (45)
T ss_dssp HTT--HHHHHHHTTS-HHHHHHHHCC-
T ss_pred HCCCCHHHHHHHHCcCHHHHHHHHhcC
Confidence 5788999999999952 466554
No 65
>PRK06760 hypothetical protein; Provisional
Probab=30.38 E-value=42 Score=27.93 Aligned_cols=26 Identities=12% Similarity=0.116 Sum_probs=19.1
Q ss_pred HHHHHHHHHHHHHHhhcCCCCCCCCC
Q 035523 25 SLYYCAFVLVGILLLSSCSSSSSRDQ 50 (125)
Q Consensus 25 ~~~~~al~l~alLl~cS~~~~~apv~ 50 (125)
+++.++.++++++.+||......|..
T Consensus 6 ~i~~~~~i~~~~fsaCS~~~~~~PaN 31 (223)
T PRK06760 6 TIFMLTILLLISFSACSKKENSFPAN 31 (223)
T ss_pred ehHHHHHHHHHHHhccCCCcccCCcc
Confidence 34566777777888999888888743
No 66
>cd00207 fer2 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis and ferredoxins, which participate in redox chains (from bacteria to mammals). Fold is ismilar to thioredoxin.
Probab=29.76 E-value=62 Score=20.53 Aligned_cols=21 Identities=33% Similarity=0.275 Sum_probs=18.2
Q ss_pred CceEEeccCchHHHHHHHhCC
Q 035523 76 DEIYVVGEGETLHTISDKCGD 96 (125)
Q Consensus 76 ~~~Y~Vk~GDTL~~IA~r~gd 96 (125)
+..+.|++|+||-+.+.+.|.
T Consensus 9 ~~~~~~~~g~~ll~al~~~g~ 29 (84)
T cd00207 9 GVEVEVPEGETLLDAAREAGI 29 (84)
T ss_pred CEEEEECCCCcHHHHHHHcCC
Confidence 456999999999999999874
No 67
>PF15240 Pro-rich: Proline-rich
Probab=29.14 E-value=48 Score=26.68 Aligned_cols=13 Identities=38% Similarity=0.521 Sum_probs=7.4
Q ss_pred HHHHHHHHhhcCC
Q 035523 31 FVLVGILLLSSCS 43 (125)
Q Consensus 31 l~l~alLl~cS~~ 43 (125)
|+.+|||+++|..
T Consensus 5 LLSvALLALSSAQ 17 (179)
T PF15240_consen 5 LLSVALLALSSAQ 17 (179)
T ss_pred HHHHHHHHhhhcc
Confidence 4455666666554
No 68
>PRK09973 putative outer membrane lipoprotein; Provisional
Probab=27.90 E-value=64 Score=23.09 Aligned_cols=18 Identities=22% Similarity=0.052 Sum_probs=12.6
Q ss_pred HHHHHHHH-HHHHHhhcCC
Q 035523 26 LYYCAFVL-VGILLLSSCS 43 (125)
Q Consensus 26 ~~~~al~l-~alLl~cS~~ 43 (125)
+++.++++ ++||.+|++.
T Consensus 5 lll~aviLs~~LLaGCAs~ 23 (85)
T PRK09973 5 FTVGAVVLATCLLSGCVNE 23 (85)
T ss_pred HHHHHHHHHHHHHHHcCCc
Confidence 36777776 4567899876
No 69
>TIGR03516 ppisom_GldI peptidyl-prolyl isomerase, gliding motility-associated. Members of this protein family are exclusive to the Bacteroidetes phylum (previously Cytophaga-Flavobacteria-Bacteroides). GldI is a FKBP-type peptidyl-prolyl cis-trans isomerase (pfam00254) linked to a type of rapid surface gliding motility found in certain Bacteroidetes, such as Flavobacterium johnsoniae and Cytophaga hutchinsonii. Knockout of this gene abolishes the gliding phenotype. Gliding motility appears closely linked to chitin utilization in the model species Flavobacterium johnsoniae. This family is only found in Bacteroidetes containing the suite of genes proposed to confer the gliding motility phenotype.
Probab=27.19 E-value=67 Score=24.93 Aligned_cols=22 Identities=14% Similarity=0.107 Sum_probs=15.2
Q ss_pred HHHHHHHHHhhcCCCCCCCCCC
Q 035523 30 AFVLVGILLLSSCSSSSSRDQD 51 (125)
Q Consensus 30 al~l~alLl~cS~~~~~apv~d 51 (125)
.++++.++++|+..+.+-|+..
T Consensus 7 ~~~~~~~~~~c~~~~~~~pv~~ 28 (177)
T TIGR03516 7 VILLLLLLLGCKTPEARRPISR 28 (177)
T ss_pred HHHHHHHHhhcCCCCCCCCcCC
Confidence 3444566779998887777764
No 70
>cd01668 TGS_RelA_SpoT TGS_RelA_SpoT: The RelA (SpoT) protein, also referred to as ppGpp hydrolase/synthetase, is a ribosome-associated protein that is activated during amino acid starvation and thought to mediate the stringent response. RelA contains a TGS domain, named after the Threonyl-tRNA Synthetase, GTPase, and SpoT proteins where it occurs. The function of the TGS domain is unknown.
Probab=26.77 E-value=1.3e+02 Score=17.74 Aligned_cols=45 Identities=18% Similarity=0.122 Sum_probs=30.3
Q ss_pred CceEEeccCchHHHHHHHhCC--h---hhhhhCCCCCCCC-CcCCCcEEEe
Q 035523 76 DEIYVVGEGETLHTISDKCGD--P---FIVEHNPHIHDPD-DLFPGLVIKI 120 (125)
Q Consensus 76 ~~~Y~Vk~GDTL~~IA~r~gd--~---~il~~Np~I~nP~-~I~PGQvIrI 120 (125)
+..+++.+|.|+.+++...+. . ...+.|..+.|.+ .+..|+.|.+
T Consensus 8 g~~~~~~~~~t~~~~~~~~~~~~~~~~va~~vng~~vdl~~~l~~~~~ve~ 58 (60)
T cd01668 8 GEIIELPAGATVLDFAYAIHTEIGNRCVGAKVNGKLVPLSTVLKDGDIVEI 58 (60)
T ss_pred CCEEEcCCCCCHHHHHHHHChHhhhheEEEEECCEECCCCCCCCCCCEEEE
Confidence 456899999999999987542 1 2445666665653 4566777654
No 71
>PF11006 DUF2845: Protein of unknown function (DUF2845); InterPro: IPR021268 This bacterial family of proteins has no known function.
Probab=26.21 E-value=45 Score=22.84 Aligned_cols=20 Identities=35% Similarity=0.715 Sum_probs=17.8
Q ss_pred eEEeccCchHHHHHHHhCCh
Q 035523 78 IYVVGEGETLHTISDKCGDP 97 (125)
Q Consensus 78 ~Y~Vk~GDTL~~IA~r~gd~ 97 (125)
.-.|..||+.+++=.+||.|
T Consensus 10 ~~lVs~Gds~~eVl~kCGeP 29 (87)
T PF11006_consen 10 GSLVSEGDSKAEVLAKCGEP 29 (87)
T ss_pred CCCccCCCCHHHHHHhCCCC
Confidence 35799999999999999976
No 72
>PF15468 DUF4636: Domain of unknown function (DUF4636)
Probab=26.09 E-value=45 Score=28.07 Aligned_cols=18 Identities=22% Similarity=0.495 Sum_probs=13.7
Q ss_pred HHHHHHHHHHHHHhhcCC
Q 035523 26 LYYCAFVLVGILLLSSCS 43 (125)
Q Consensus 26 ~~~~al~l~alLl~cS~~ 43 (125)
|||++++++.+++.+++-
T Consensus 43 lWyfviilvLm~~~ras~ 60 (243)
T PF15468_consen 43 LWYFVIILVLMFFSRASV 60 (243)
T ss_pred HHHHHHHHHHHHHHHHHH
Confidence 499999888777776654
No 73
>PF08139 LPAM_1: Prokaryotic membrane lipoprotein lipid attachment site; InterPro: IPR012640 In prokaryotes, membrane lipoproteins are synthesized with a precursor signal peptide, which is cleaved by a specific lipoprotein signal peptidase (signal peptidase II). The peptidase recognises a conserved sequence and cuts upstream of a cysteine residue to which a glyceride-fatty acid lipid is attached [,]. This lipid attachment site is found in homologues of the VirB proteins of type IV secretion systems (T4SS). Conjugal transfer across the cell envelope of Gram-negative bacteria is mediated by a supramolecular structure termed mating pair formation (Mpf) complex. Collectively, secretion pathways ancestrally related to bacterial conjugation systems are now known as T4SS. T4SS are involved in the delivery of effector molecules to eukaryotic target cells; each of these systems exports distinct DNA or protein substrates to effect a myriad of changes in host cell physiology during infection [].
Probab=26.03 E-value=71 Score=18.13 Aligned_cols=11 Identities=18% Similarity=0.017 Sum_probs=6.6
Q ss_pred HHHHHHHhhcC
Q 035523 32 VLVGILLLSSC 42 (125)
Q Consensus 32 ~l~alLl~cS~ 42 (125)
+.+.+|.+||+
T Consensus 15 ~a~~~LagCss 25 (25)
T PF08139_consen 15 LALFMLAGCSS 25 (25)
T ss_pred HHHHHHhhccC
Confidence 33445788874
No 74
>PRK12473 hypothetical protein; Provisional
Probab=25.76 E-value=32 Score=28.16 Aligned_cols=26 Identities=19% Similarity=0.059 Sum_probs=16.6
Q ss_pred HHHHHHHHHHHHHhhcCCCCCCCCCC
Q 035523 26 LYYCAFVLVGILLLSSCSSSSSRDQD 51 (125)
Q Consensus 26 ~~~~al~l~alLl~cS~~~~~apv~d 51 (125)
+..++.+++.++.+||.-+..++..+
T Consensus 7 i~iv~~i~~~~~saCS~~~~~~~paN 32 (198)
T PRK12473 7 LGLVAAISFGALSGCSLLGMIAEKAN 32 (198)
T ss_pred eHHHHHHHHHHhcceeccCCCCCCCc
Confidence 45566667778889997664443333
No 75
>cd04493 BRCA2DBD_OB1 BRCA2DBD_OB1: A subfamily of OB folds corresponding to the first OB fold (OB1) of the 800-amino acid C-terminal ssDNA binding domain (DBD) of BRCA2 (breast cancer susceptibility gene 2) protein, called BRCA2DBD. BRCA2 participates in homologous recombination-mediated repair of double-strand DNA breaks. It stimulates the displacement of Replication protein A (RPA), the most abundant eukaryotic ssDNA binding protein. It also facilitates filament formation. Mutations that map throughout the BRCA2 protein are associated with breast cancer susceptibility. BRCA2 is a large nuclear protein and its most conserved region is the C-terminal BRCA2DBD. BRCA2DBD binds ssDNA in vitro, and is composed of five structural domains, three of which are OB folds (OB1, OB2, and OB3). BRCA2DBD OB2 and OB3 are arranged in tandem, and their mode of binding can be considered qualitatively similar to two OB folds of RPA1, DBD-A and DBD-B (the major DBDs of RPA). BRCA2DBD OB1 binds DNA weakly.
Probab=25.47 E-value=41 Score=24.66 Aligned_cols=12 Identities=25% Similarity=0.332 Sum_probs=10.1
Q ss_pred CCcCCCcEEEeC
Q 035523 110 DDLFPGLVIKIT 121 (125)
Q Consensus 110 ~~I~PGQvIrI~ 121 (125)
..|++||||+|.
T Consensus 49 gkl~vGqKL~i~ 60 (100)
T cd04493 49 GKLRVGQKLRIC 60 (100)
T ss_pred CCeecccEEEEE
Confidence 368999999984
No 76
>PRK11443 lipoprotein; Provisional
Probab=25.44 E-value=75 Score=23.75 Aligned_cols=16 Identities=19% Similarity=-0.027 Sum_probs=10.7
Q ss_pred HHHHHHHHHhhcCCCC
Q 035523 30 AFVLVGILLLSSCSSS 45 (125)
Q Consensus 30 al~l~alLl~cS~~~~ 45 (125)
.++++++|.+|++...
T Consensus 6 ~~~~~~lLsgCa~~~~ 21 (124)
T PRK11443 6 APLLALLLSGCQIDPY 21 (124)
T ss_pred HHHHHHHHHhccCCCC
Confidence 3444567889998653
No 77
>COG3017 LolB Outer membrane lipoprotein involved in outer membrane biogenesis [Cell envelope biogenesis, outer membrane]
Probab=25.41 E-value=1e+02 Score=25.36 Aligned_cols=24 Identities=8% Similarity=0.095 Sum_probs=17.2
Q ss_pred HHHHHHHHHHHHhhcCCCCCCCCC
Q 035523 27 YYCAFVLVGILLLSSCSSSSSRDQ 50 (125)
Q Consensus 27 ~~~al~l~alLl~cS~~~~~apv~ 50 (125)
.+.+.+..+||.+|+...+..|..
T Consensus 9 ~~l~~~As~LL~aC~~~~~~~~~~ 32 (206)
T COG3017 9 FLLLALASLLLTACTLTASRPPNN 32 (206)
T ss_pred HHHHHHHHHHHHhccCcCCCCCCC
Confidence 555666668889998877766655
No 78
>PRK00022 lolB outer membrane lipoprotein LolB; Provisional
Probab=24.99 E-value=98 Score=23.80 Aligned_cols=16 Identities=6% Similarity=0.063 Sum_probs=9.1
Q ss_pred HHHHHHHHHhhcCCCC
Q 035523 30 AFVLVGILLLSSCSSS 45 (125)
Q Consensus 30 al~l~alLl~cS~~~~ 45 (125)
.++++++|.+|+....
T Consensus 8 ~~~~~llL~gCa~~~~ 23 (202)
T PRK00022 8 LLLAALLLAGCAVTTP 23 (202)
T ss_pred HHHHHHHHHhCCCCCC
Confidence 3344456788985433
No 79
>PF04255 DUF433: Protein of unknown function (DUF433); InterPro: IPR007367 This is a family of uncharacterised proteins.; PDB: 2GA1_B.
Probab=24.81 E-value=12 Score=23.82 Aligned_cols=35 Identities=14% Similarity=0.166 Sum_probs=19.8
Q ss_pred ccccceecccccCCCCCCceEEeccCchHHHHHHHhC
Q 035523 59 EGTSRMVLNKYEYSRPCDEIYVVGEGETLHTISDKCG 95 (125)
Q Consensus 59 ~~~~~~~~~~~~~~~~~~~~Y~Vk~GDTL~~IA~r~g 95 (125)
-|+.|+++|.++.-..--+.| +.|.+.-.|++.|.
T Consensus 8 ~~G~P~i~GTRI~v~~i~~~~--~~G~s~eeI~~~yp 42 (56)
T PF04255_consen 8 LGGQPVIRGTRIPVRDILDLL--AAGESPEEIAEDYP 42 (56)
T ss_dssp GGG--EETTSS-BHHHHHHHH--HTT--HHHHHHHST
T ss_pred cCCcceEcCceecHHHHHHHH--HcCCCHHHHHHHCC
Confidence 566899999987432122223 78888888888886
No 80
>PF14451 Ub-Mut7C: Mut7-C ubiquitin
Probab=24.46 E-value=87 Score=21.65 Aligned_cols=48 Identities=17% Similarity=0.109 Sum_probs=38.0
Q ss_pred CCceEEeccCchHHHHHHHhCChh----hhhhCCCCCCC-CCcCCCcEEEeCC
Q 035523 75 CDEIYVVGEGETLHTISDKCGDPF----IVEHNPHIHDP-DDLFPGLVIKITA 122 (125)
Q Consensus 75 ~~~~Y~Vk~GDTL~~IA~r~gd~~----il~~Np~I~nP-~~I~PGQvIrI~~ 122 (125)
..-.|...++-|+-++-+..|.|. ++-.|-.-.++ +.+.+|+.|.+-|
T Consensus 23 ~~~~~~~~~~~tvkd~IEsLGVP~tEV~~i~vNG~~v~~~~~~~~Gd~v~V~P 75 (81)
T PF14451_consen 23 GPFTHPFDGGATVKDVIESLGVPHTEVGLILVNGRPVDFDYRLKDGDRVAVYP 75 (81)
T ss_pred CceEEecCCCCcHHHHHHHcCCChHHeEEEEECCEECCCcccCCCCCEEEEEe
Confidence 345688999999999999999763 56677544555 6899999999865
No 81
>COG5567 Predicted small periplasmic lipoprotein [Cell motility and secretion]
Probab=24.00 E-value=1e+02 Score=20.89 Aligned_cols=23 Identities=9% Similarity=-0.099 Sum_probs=17.6
Q ss_pred HHHHHHHHHHHHHHHHHHhhcCCCC
Q 035523 21 DAATSLYYCAFVLVGILLLSSCSSS 45 (125)
Q Consensus 21 ~~~s~~~~~al~l~alLl~cS~~~~ 45 (125)
+..+ |+.++.+++-|++|..++.
T Consensus 3 ~~~~--s~~ala~l~sLA~CG~KGP 25 (58)
T COG5567 3 NVFK--SLLALATLFSLAGCGLKGP 25 (58)
T ss_pred hHHH--HHHHHHHHHHHHhcccCCC
Confidence 4456 7888887778899988865
No 82
>PF11518 DUF3221: Protein of unknown function (DUF3221); InterPro: IPR021598 This family of proteins with unknown function appears to be restricted to Bacillus. Some members in this family of proteins are annotated as YobA however this cannot be confirmed. YobA is a protein with unknown function. ; PDB: 2JQO_A.
Probab=23.87 E-value=43 Score=24.11 Aligned_cols=17 Identities=24% Similarity=0.233 Sum_probs=11.1
Q ss_pred CCCCCCcCCCcEEEeCC
Q 035523 106 IHDPDDLFPGLVIKITA 122 (125)
Q Consensus 106 I~nP~~I~PGQvIrI~~ 122 (125)
+.+-+.+..||+++++-
T Consensus 73 ~~~~~~lk~G~KVkVw~ 89 (108)
T PF11518_consen 73 KDSYDNLKVGQKVKVWS 89 (108)
T ss_dssp -TTGGG--TTEEEEEEE
T ss_pred ccchhhcccCCEEEEEe
Confidence 34667889999999853
No 83
>PF05225 HTH_psq: helix-turn-helix, Psq domain; InterPro: IPR007889 This DNA-binding motif is found in four copies in the pipsqueak protein of Drosophila melanogaster []. In pipsqueak this domain binds to GAGA sequence []. The pipsqueak family, which includes proteins from fungi, sea urchins, nematodes, insects, and vertebrates appear to be proteins essential for sequence-specific targeting of a polycomb group protein complex [].; GO: 0003677 DNA binding; PDB: 2COB_A.
Probab=23.70 E-value=48 Score=20.31 Aligned_cols=18 Identities=28% Similarity=0.453 Sum_probs=12.3
Q ss_pred eccC-chHHHHHHHhCChh
Q 035523 81 VGEG-ETLHTISDKCGDPF 98 (125)
Q Consensus 81 Vk~G-DTL~~IA~r~gd~~ 98 (125)
|+.| -++.+.|.+||.|+
T Consensus 12 v~~g~~S~r~AA~~ygVp~ 30 (45)
T PF05225_consen 12 VKNGKMSIRKAAKKYGVPR 30 (45)
T ss_dssp HHTTSS-HHHHHHHHT--H
T ss_pred HHhCCCCHHHHHHHHCcCH
Confidence 4556 88999999999875
No 84
>cd01667 TGS_ThrRS_N TGS _ThrRS_N: ThrRS (threonyl-tRNA Synthetase) is a class II tRNA synthetase that couples threonine to its cognate tRNA. In addition to its catalytic and anticodon-binding domains, ThrRS has an N-terminal TGS domain, named after the ThrRS, GTPase, and SpoT proteins where it occurs. The TGS domain is thought to interact with the tRNA acceptor arm along with an adjacent N-terminal domain. The specific function of TGS is not well understood.
Probab=23.68 E-value=1.1e+02 Score=17.37 Aligned_cols=45 Identities=16% Similarity=0.103 Sum_probs=28.6
Q ss_pred CceEEeccCchHHHHHHHhCC--h-h--hhhhCCCCCCCC-CcCCCcEEEe
Q 035523 76 DEIYVVGEGETLHTISDKCGD--P-F--IVEHNPHIHDPD-DLFPGLVIKI 120 (125)
Q Consensus 76 ~~~Y~Vk~GDTL~~IA~r~gd--~-~--il~~Np~I~nP~-~I~PGQvIrI 120 (125)
+..|.+.+|-|+.+++.+... . . ....|..+.|-+ .|..|..|.+
T Consensus 8 ~~~~~~~~~~t~~~~~~~~~~~~~~~~v~~~vng~~~dL~~~l~~~~~ie~ 58 (61)
T cd01667 8 GSVKEFPKGTTPLDIAKSISPGLAKKAVAAKVNGELVDLSRPLEEDCELEI 58 (61)
T ss_pred CCEEEeCCCCCHHHHHHHHHHHHHhheEEEEECCEEecCCcCcCCCCEEEE
Confidence 345889999999999998632 1 1 333556666654 3445655543
No 85
>PRK09570 rpoH DNA-directed RNA polymerase subunit H; Reviewed
Probab=23.37 E-value=64 Score=22.69 Aligned_cols=41 Identities=32% Similarity=0.333 Sum_probs=25.4
Q ss_pred EEeccCchHHHHHHHhCC-hhhhhhCCCC--CCC----CCcCCCcEEEeCC
Q 035523 79 YVVGEGETLHTISDKCGD-PFIVEHNPHI--HDP----DDLFPGLVIKITA 122 (125)
Q Consensus 79 Y~Vk~GDTL~~IA~r~gd-~~il~~Np~I--~nP----~~I~PGQvIrI~~ 122 (125)
++|=.-|-.-++-.+|+. +.. -|.| +|| .-..|||+|+|..
T Consensus 15 H~iLs~eE~~~lL~~y~i~~~q---LP~I~~~DPv~r~~g~k~GdVvkI~R 62 (79)
T PRK09570 15 HEILSEEEAKKLLKEYGIKPEQ---LPKIKASDPVVKAIGAKPGDVIKIVR 62 (79)
T ss_pred eEECCHHHHHHHHHHcCCCHHH---CCceeccChhhhhcCCCCCCEEEEEE
Confidence 555555566677778872 211 1322 455 4788999999953
No 86
>TIGR02008 fdx_plant ferredoxin [2Fe-2S]. This model represents single domain 2Fe-2S (also called plant type) ferredoxins. In general, these occur as a single domain proteins or with a chloroplast transit peptide. Species tend to be photosynthetic, but several forms may occur in one species and individually may not be associated with photocynthesis. Halobacterial forms differ somewhat in architecture; they score between trusted and noise cutoffs. Sequences scoring below the noise cutoff tend to be ferredoxin-related domains of larger proteins.
Probab=22.96 E-value=82 Score=21.67 Aligned_cols=21 Identities=10% Similarity=0.200 Sum_probs=18.8
Q ss_pred CceEEeccCchHHHHHHHhCC
Q 035523 76 DEIYVVGEGETLHTISDKCGD 96 (125)
Q Consensus 76 ~~~Y~Vk~GDTL~~IA~r~gd 96 (125)
+..+.|.+|+||-+.+.+.|.
T Consensus 14 ~~~~~~~~g~tLLda~~~~Gi 34 (97)
T TIGR02008 14 EETIECPDDQYILDAAEEAGI 34 (97)
T ss_pred EEEEEECCCCcHHHHHHHcCC
Confidence 457999999999999999984
No 87
>PLN02799 Molybdopterin synthase sulfur carrier subunit
Probab=22.85 E-value=91 Score=20.43 Aligned_cols=47 Identities=17% Similarity=0.123 Sum_probs=30.5
Q ss_pred ceEEeccCchHHHHHHHhC--Ch--------hhhhhCCCCCCC-CCcCCCcEEEeCCC
Q 035523 77 EIYVVGEGETLHTISDKCG--DP--------FIVEHNPHIHDP-DDLFPGLVIKITAP 123 (125)
Q Consensus 77 ~~Y~Vk~GDTL~~IA~r~g--d~--------~il~~Np~I~nP-~~I~PGQvIrI~~~ 123 (125)
..+.+..|-|+-++-+..+ .| .+++.|..+.+. ..|..|+.|-|-||
T Consensus 21 ~~~~~~~~~tv~~L~~~l~~~~p~l~~~~~~~~vavN~~~v~~~~~l~dgDeVai~Pp 78 (82)
T PLN02799 21 MTLELPAGSTTADCLAELVAKFPSLEEVRSCCVLALNEEYTTESAALKDGDELAIIPP 78 (82)
T ss_pred EEEECCCCCcHHHHHHHHHHHChhHHHHhhCcEEEECCEEcCCCcCcCCCCEEEEeCC
Confidence 4567777777766654432 11 146678666444 56999999998765
No 88
>PRK15470 emtA lytic murein endotransglycosylase E; Provisional
Probab=22.80 E-value=67 Score=26.04 Aligned_cols=17 Identities=12% Similarity=0.260 Sum_probs=12.1
Q ss_pred HHHHHHHHHHHHhhcCCCC
Q 035523 27 YYCAFVLVGILLLSSCSSS 45 (125)
Q Consensus 27 ~~~al~l~alLl~cS~~~~ 45 (125)
|+.+|+ ++|++||+.+.
T Consensus 5 ~~~~~~--~~~~~~~~~~~ 21 (203)
T PRK15470 5 WFAFLI--VLLAGCSSKHD 21 (203)
T ss_pred HHHHHH--HHHhcccCCCc
Confidence 665444 48899999765
No 89
>PHA02578 53 baseplate wedge subunit; Provisional
Probab=21.77 E-value=80 Score=25.61 Aligned_cols=36 Identities=11% Similarity=0.171 Sum_probs=28.9
Q ss_pred CCceEEeccCchHHHHHHH-hCCh---hhhhhCCCCCCCC
Q 035523 75 CDEIYVVGEGETLHTISDK-CGDP---FIVEHNPHIHDPD 110 (125)
Q Consensus 75 ~~~~Y~Vk~GDTL~~IA~r-~gd~---~il~~Np~I~nP~ 110 (125)
..++|.++.|..=-+||.+ ||++ ||+---|+|.||.
T Consensus 35 ~~~~Y~I~gg~RPE~vA~~lYGn~~LyWIlLm~N~i~Dp~ 74 (181)
T PHA02578 35 TLRTYYITGSPRPEQLAHELYGNQQLYWVLLMLNDNYDPF 74 (181)
T ss_pred cceEEEeCCCCCHHHHHHHHhCCccceeeeeeecCCcccc
Confidence 5678999999999999999 6976 4554455888984
No 90
>smart00739 KOW KOW (Kyprides, Ouzounis, Woese) motif. Motif in ribosomal proteins, NusG, Spt5p, KIN17 and T54.
Probab=21.30 E-value=81 Score=16.29 Aligned_cols=14 Identities=29% Similarity=0.539 Sum_probs=9.8
Q ss_pred cCCCcEEEeCCCCC
Q 035523 112 LFPGLVIKITAPPF 125 (125)
Q Consensus 112 I~PGQvIrI~~~~~ 125 (125)
+.+|+.++|...+|
T Consensus 2 ~~~G~~V~I~~G~~ 15 (28)
T smart00739 2 FEVGDTVRVIAGPF 15 (28)
T ss_pred CCCCCEEEEeECCC
Confidence 56888888865443
No 91
>PF14453 ThiS-like: ThiS-like ubiquitin
Probab=21.23 E-value=1.8e+02 Score=19.25 Aligned_cols=45 Identities=20% Similarity=0.113 Sum_probs=31.7
Q ss_pred ceEEeccCchHHHHHHHhC-ChhhhhhCCCCC-CCCCcCCCcEEEeC
Q 035523 77 EIYVVGEGETLHTISDKCG-DPFIVEHNPHIH-DPDDLFPGLVIKIT 121 (125)
Q Consensus 77 ~~Y~Vk~GDTL~~IA~r~g-d~~il~~Np~I~-nP~~I~PGQvIrI~ 121 (125)
..+.++.|=||+.+..++. +.-++--|=... +=..+..|+.|.+-
T Consensus 8 k~~~~~~~~tl~~lr~~~k~~~DI~I~NGF~~~~d~~L~e~D~v~~I 54 (57)
T PF14453_consen 8 KEIETEENTTLFELRKESKPDADIVILNGFPTKEDIELKEGDEVFLI 54 (57)
T ss_pred EEEEcCCCcCHHHHHHhhCCCCCEEEEcCcccCCccccCCCCEEEEE
Confidence 3588999999999999986 334555564443 33578888887653
No 92
>PRK15078 polysaccharide export protein Wza; Provisional
Probab=21.13 E-value=5.1e+02 Score=22.38 Aligned_cols=13 Identities=23% Similarity=0.271 Sum_probs=10.1
Q ss_pred CCCCcCCCcEEEe
Q 035523 108 DPDDLFPGLVIKI 120 (125)
Q Consensus 108 nP~~I~PGQvIrI 120 (125)
.+|.|-||++|.|
T Consensus 83 ~~Y~igpGDvL~I 95 (379)
T PRK15078 83 YEYRVGPGDVLNV 95 (379)
T ss_pred CCcEECCCCEEEE
Confidence 4578888888877
No 93
>PF00111 Fer2: 2Fe-2S iron-sulfur cluster binding domain; InterPro: IPR001041 The ferredoxin protein family are electron carrier proteins with an iron-sulphur cofactor that act in a wide variety of metabolic reactions. Ferredoxins can be divided into several subgroups depending upon the physiological nature of the iron-sulphur cluster(s) and according to sequence similarities. This entry represents members of the 2Fe-2S ferredoxin family that have a general core structure consisting of beta(2)-alpha-beta(2), which includes putidaredoxin and terpredoxin, and adrenodoxin [, , , ]. They are proteins of around one hundred amino acids with four conserved cysteine residues to which the 2Fe-2S cluster is ligated. This conserved region is also found as a domain in various metabolic enzymes and in multidomain proteins, such as aldehyde oxidoreductase (N-terminal), xanthine oxidase (N-terminal), phthalate dioxygenase reductase (C-terminal), succinate dehydrogenase iron-sulphur protein (N-terminal), and methane monooxygenase reductase (N-terminal).; GO: 0009055 electron carrier activity, 0051536 iron-sulfur cluster binding; PDB: 3M9S_C 2FUG_L 3IAS_L 2YBB_3 3IAM_3 3I9V_3 1JQ4_A 1DOX_A 1DOY_A 2KAJ_A ....
Probab=20.39 E-value=1.1e+02 Score=19.49 Aligned_cols=20 Identities=30% Similarity=0.275 Sum_probs=16.9
Q ss_pred ceEEeccCch-HHHHHHHh-CC
Q 035523 77 EIYVVGEGET-LHTISDKC-GD 96 (125)
Q Consensus 77 ~~Y~Vk~GDT-L~~IA~r~-gd 96 (125)
..+.|++|+| |.+.+++. |.
T Consensus 8 ~~~~~~~~~~~ll~~~~~~~gi 29 (78)
T PF00111_consen 8 VTVEVPPGETLLLDALERAGGI 29 (78)
T ss_dssp EEEEEETTSBBHHHHHHHTTTT
T ss_pred EEEEeCCCccHHHHHHHHcCCC
Confidence 3578899999 99999998 53
No 94
>PF07883 Cupin_2: Cupin domain; InterPro: IPR013096 This family represents the conserved barrel domain of the cupin superfamily [] (cupa is the Latin term for a small barrel). ; PDB: 2OPK_C 3BU7_B 2PHD_D 3NVC_A 3NKT_A 3NJZ_A 3NW4_A 3NST_A 3NL1_A 2H0V_A ....
Probab=20.32 E-value=35 Score=20.80 Aligned_cols=25 Identities=8% Similarity=0.036 Sum_probs=15.5
Q ss_pred ceecccccCCCCCCceEEeccCchHH
Q 035523 63 RMVLNKYEYSRPCDEIYVVGEGETLH 88 (125)
Q Consensus 63 ~~~~~~~~~~~~~~~~Y~Vk~GDTL~ 88 (125)
.++.|.-... -.++.|++++||.++
T Consensus 24 ~vl~G~~~~~-~~~~~~~l~~Gd~~~ 48 (71)
T PF07883_consen 24 YVLSGEGTLT-VDGERVELKPGDAIY 48 (71)
T ss_dssp EEEESEEEEE-ETTEEEEEETTEEEE
T ss_pred EEEECCEEEE-EccEEeEccCCEEEE
Confidence 4455543322 345689999999764
No 95
>PF11910 NdhO: Cyanobacterial and plant NDH-1 subunit O; InterPro: IPR020905 NAD(P)H-quinone oxidoreductase (NDH-1) shuttles electrons from an unknown electron donor, via FMN and iron-sulphur (Fe-S) centres, to quinones in the respiratory and/or the photosynthetic chain. The immediate electron acceptor for the enzyme in this species is believed to be plastoquinone. It couples the redox reaction to proton translocation, and thus conserves the redox energy in a proton gradient. Cyanobacterial NDH-1 also plays a role in inorganic carbon-concentration. NDH-1 can be composed of about 15 different subunits, although different subcomplexes with different compositions have been identified which probably have different functions. This entry represents subunit O. ; GO: 0016655 oxidoreductase activity, acting on NADH or NADPH, quinone or similar compound as acceptor, 0055114 oxidation-reduction process, 0005886 plasma membrane
Probab=20.31 E-value=57 Score=22.62 Aligned_cols=38 Identities=24% Similarity=0.424 Sum_probs=18.4
Q ss_pred ccCchHHHHHHHhC-ChhhhhhCCCCCCCCCcC--CCcEEEeC
Q 035523 82 GEGETLHTISDKCG-DPFIVEHNPHIHDPDDLF--PGLVIKIT 121 (125)
Q Consensus 82 k~GDTL~~IA~r~g-d~~il~~Np~I~nP~~I~--PGQvIrI~ 121 (125)
|||+-+--+-++|- ...-.+.-++ -|+.|| ||.+|-|.
T Consensus 2 KKG~lVrv~re~~~nSlEa~ASD~~--~P~Yife~~GEvl~ik 42 (67)
T PF11910_consen 2 KKGSLVRVNREKYENSLEAKASDPR--PPSYIFEGPGEVLDIK 42 (67)
T ss_pred CcceEEEeehHhhcCchhhhhcCCC--CCcceecCCCeEEEec
Confidence 55655555555552 3223333332 356665 45565543
No 96
>PRK10718 RpoE-regulated lipoprotein; Provisional
Probab=20.28 E-value=1.3e+02 Score=24.59 Aligned_cols=16 Identities=19% Similarity=-0.033 Sum_probs=10.1
Q ss_pred HHHHHHHHHHHHhhcC
Q 035523 27 YYCAFVLVGILLLSSC 42 (125)
Q Consensus 27 ~~~al~l~alLl~cS~ 42 (125)
-++.+....+|.+|+.
T Consensus 5 r~~ll~~~l~LsGC~~ 20 (191)
T PRK10718 5 RLLLLALPLLLTGCST 20 (191)
T ss_pred hhHHHHHHHHHhhccC
Confidence 3444555567789984
No 97
>TIGR01843 type_I_hlyD type I secretion membrane fusion protein, HlyD family. Type I secretion is an ABC transport process that exports proteins, without cleavage of any signal sequence, from the cytosol to extracellular medium across both inner and outer membranes. The secretion signal is found in the C-terminus of the transported protein. This model represents the adaptor protein between the ATP-binding cassette (ABC) protein of the inner membrane and the outer membrane protein, and is called the membrane fusion protein. This model selects a subfamily closely related to HlyD; it is defined narrowly and excludes, for example, colicin V secretion protein CvaA and multidrug efflux proteins.
Probab=20.21 E-value=39 Score=27.63 Aligned_cols=17 Identities=18% Similarity=0.235 Sum_probs=11.2
Q ss_pred CceEEeccCchHHHHHHH
Q 035523 76 DEIYVVGEGETLHTISDK 93 (125)
Q Consensus 76 ~~~Y~Vk~GDTL~~IA~r 93 (125)
.+.++ ++||+|..|-..
T Consensus 61 eG~~V-~kG~~L~~ld~~ 77 (423)
T TIGR01843 61 EGDRV-KAGQVLVELDAT 77 (423)
T ss_pred CCCEe-cCCCeEEEEccc
Confidence 34444 999988877443
Done!