Query 041585
Match_columns 155
No_of_seqs 100 out of 304
Neff 6.1
Searched_HMMs 46136
Date Fri Mar 29 08:40:53 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/041585.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/041585hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF02362 B3: B3 DNA binding do 99.8 1.1E-17 2.4E-22 118.0 12.1 97 25-136 1-99 (100)
2 PF03754 DUF313: Domain of unk 99.4 4.1E-13 8.8E-18 99.3 7.3 84 20-108 18-113 (114)
3 PF09217 EcoRII-N: Restriction 96.8 0.011 2.4E-07 45.9 8.4 93 21-121 5-110 (156)
4 PF02261 Asp_decarbox: Asparta 89.5 7.1 0.00015 29.1 9.7 75 26-121 12-88 (116)
5 TIGR00223 panD L-aspartate-alp 87.8 9.3 0.0002 28.8 9.4 75 26-121 12-88 (126)
6 PRK05449 aspartate alpha-decar 86.8 11 0.00025 28.4 9.4 75 26-122 12-89 (126)
7 cd06919 Asp_decarbox Aspartate 85.5 13 0.00027 27.6 9.4 75 26-122 11-88 (111)
8 PF01568 Molydop_binding: Moly 76.4 4 8.7E-05 28.4 3.6 47 104-150 36-82 (110)
9 cd02792 MopB_CT_Formate-Dh-Na- 72.8 7 0.00015 27.7 4.2 44 105-148 42-85 (122)
10 cd02788 MopB_CT_NDH-1_NuoG2-N7 72.4 8.1 0.00018 26.8 4.3 43 105-147 36-78 (96)
11 cd02779 MopB_CT_Arsenite-Ox Th 72.1 7.2 0.00016 27.7 4.1 43 105-147 40-82 (115)
12 cd02778 MopB_CT_Thiosulfate-R- 70.1 11 0.00024 26.7 4.7 44 105-148 37-80 (123)
13 cd02786 MopB_CT_3 The MopB_CT_ 68.9 8.8 0.00019 27.0 3.9 43 105-147 38-80 (116)
14 PRK11347 antitoxin ChpS; Provi 67.8 12 0.00025 26.1 4.2 39 85-129 3-41 (83)
15 cd02780 MopB_CT_Tetrathionate_ 67.0 12 0.00026 27.7 4.4 44 105-148 37-80 (143)
16 cd02790 MopB_CT_Formate-Dh_H F 65.7 11 0.00024 26.3 3.9 43 105-147 42-84 (116)
17 cd00508 MopB_CT_Fdh-Nap-like T 65.6 12 0.00025 26.2 4.0 44 105-148 42-85 (120)
18 cd02781 MopB_CT_Acetylene-hydr 65.3 12 0.00027 26.8 4.2 44 104-147 39-82 (130)
19 cd05829 Sortase_E Sortase E (S 64.6 16 0.00034 27.5 4.7 43 93-136 49-96 (144)
20 TIGR02609 doc_partner putative 62.4 34 0.00073 22.9 5.6 37 87-129 3-39 (74)
21 cd02794 MopB_CT_DmsA-EC The Mo 60.3 17 0.00037 25.9 4.1 43 105-147 37-79 (121)
22 cd04459 Rho_CSD Rho_CSD: Rho p 60.1 7.5 0.00016 26.1 2.0 16 105-120 34-49 (68)
23 cd05828 Sortase_D_4 Sortase D 59.1 26 0.00056 25.6 5.0 42 93-136 43-84 (127)
24 PF10844 DUF2577: Protein of u 58.4 18 0.00038 25.7 3.8 29 106-136 71-99 (100)
25 PF00622 SPRY: SPRY domain; I 57.8 19 0.00042 24.9 4.0 27 111-137 62-89 (124)
26 cd02775 MopB_CT Molybdopterin- 56.9 22 0.00048 23.9 4.1 41 105-147 30-72 (101)
27 PF10285 Luciferase_cat: Lucif 56.4 13 0.00029 30.9 3.2 21 116-137 181-201 (296)
28 COG5569 Uncharacterized conser 55.8 16 0.00034 26.7 3.1 27 105-131 77-103 (108)
29 cd02793 MopB_CT_DMSOR-BSOR-TMA 55.5 19 0.00042 26.1 3.8 43 105-147 40-82 (129)
30 cd02785 MopB_CT_4 The MopB_CT_ 54.4 26 0.00057 25.0 4.3 44 104-147 38-81 (124)
31 cd01249 PH_oligophrenin Oligop 53.9 23 0.00049 25.8 3.8 35 112-146 48-88 (104)
32 cd05830 Sortase_D_5 Sortase D 53.8 33 0.00072 25.4 4.9 42 93-136 44-88 (137)
33 cd02784 MopB_CT_PHLH The MopB_ 53.0 25 0.00055 26.4 4.1 43 105-147 45-87 (137)
34 cd02782 MopB_CT_1 The MopB_CT_ 51.7 30 0.00065 24.8 4.2 43 105-147 40-82 (129)
35 PF04014 Antitoxin-MazE: Antid 51.3 52 0.0011 19.8 6.1 24 105-129 14-37 (47)
36 PF07865 DUF1652: Protein of u 50.9 30 0.00064 23.4 3.7 34 45-82 6-39 (69)
37 cd02789 MopB_CT_FmdC-FwdD The 50.5 29 0.00062 24.5 3.9 43 105-147 38-80 (106)
38 COG0853 PanD Aspartate 1-decar 49.8 1.1E+02 0.0024 23.1 8.7 75 26-122 11-88 (126)
39 cd06166 Sortase_D_5 Sortase D 49.1 37 0.00081 24.7 4.4 40 94-135 43-86 (126)
40 cd02791 MopB_CT_Nitrate-R-NapA 48.2 34 0.00073 24.1 4.0 43 105-147 42-84 (122)
41 cd02783 MopB_CT_2 The MopB_CT_ 47.1 35 0.00076 25.8 4.1 42 104-145 38-79 (156)
42 cd06555 ASCH_PF0470_like ASC-1 44.1 48 0.001 24.2 4.2 30 108-137 28-57 (109)
43 PRK09798 antitoxin MazE; Provi 44.0 49 0.0011 22.8 4.1 44 85-137 4-47 (82)
44 PF12158 DUF3592: Protein of u 44.0 1.2E+02 0.0026 21.7 6.5 49 81-129 59-109 (148)
45 COG4043 Preprotein translocase 43.1 18 0.00038 26.5 1.8 26 106-135 28-53 (111)
46 cd02777 MopB_CT_DMSOR-like The 40.9 46 0.00099 23.9 3.8 43 105-147 41-83 (127)
47 PF03120 DNA_ligase_OB: NAD-de 40.4 27 0.00058 24.3 2.3 19 105-123 43-61 (82)
48 PF02643 DUF192: Uncharacteriz 40.3 53 0.0012 23.4 4.0 24 95-120 83-106 (108)
49 smart00536 AXH domain in Ataxi 39.9 92 0.002 23.2 5.2 50 68-119 52-111 (116)
50 PF11948 DUF3465: Protein of u 39.3 47 0.001 25.2 3.7 66 67-135 41-113 (131)
51 PF03221 HTH_Tnp_Tc5: Tc5 tran 39.2 12 0.00026 23.5 0.3 21 93-113 43-63 (66)
52 smart00449 SPRY Domain in SPla 38.6 54 0.0012 22.7 3.8 24 114-137 65-88 (122)
53 cd01752 PLAT_polycystin PLAT/L 38.6 40 0.00087 24.3 3.2 22 71-92 84-105 (120)
54 COG2002 AbrB Regulators of sta 38.0 84 0.0018 21.6 4.6 32 105-139 21-52 (89)
55 cd02787 MopB_CT_ydeP The MopB_ 36.7 1E+02 0.0022 21.5 4.9 30 105-134 38-67 (112)
56 cd01753 PLAT_LOX PLAT domain o 36.0 45 0.00098 24.0 3.1 29 71-100 83-112 (113)
57 cd02776 MopB_CT_Nitrate-R-NarG 35.4 70 0.0015 23.9 4.1 42 105-146 38-79 (141)
58 PRK11507 ribosome-associated p 34.1 32 0.0007 23.3 1.9 24 96-120 38-61 (70)
59 PF01477 PLAT: PLAT/LH2 domain 33.5 81 0.0018 21.6 4.0 24 70-93 79-102 (113)
60 COG1430 Uncharacterized conser 32.2 1.2E+02 0.0026 22.7 4.9 52 70-123 64-122 (126)
61 PF14250 AbrB-like: AbrB-like 32.1 1.2E+02 0.0026 20.6 4.4 38 79-121 25-62 (71)
62 PRK03760 hypothetical protein; 31.7 43 0.00092 24.6 2.3 23 95-121 91-115 (117)
63 COG3764 SrtA Sortase (surface 31.3 1.1E+02 0.0024 24.9 4.8 97 32-147 67-170 (210)
64 PF03152 UFD1: Ubiquitin fusio 31.2 2.6E+02 0.0057 22.0 7.1 78 30-122 18-96 (176)
65 PRK15488 thiosulfate reductase 31.0 81 0.0018 29.7 4.6 44 105-148 673-716 (759)
66 TIGR01076 sortase_fam LPXTG-si 31.0 1.2E+02 0.0026 22.3 4.7 41 93-135 41-85 (136)
67 PF07497 Rho_RNA_bind: Rho ter 30.7 21 0.00045 24.7 0.5 31 105-135 36-67 (78)
68 smart00308 LH2 Lipoxygenase ho 30.1 64 0.0014 22.2 3.0 22 71-92 82-103 (105)
69 PF13275 S4_2: S4 domain; PDB: 29.8 24 0.00051 23.5 0.6 22 98-120 36-57 (65)
70 TIGR03784 marine_sortase sorta 29.6 1.2E+02 0.0026 23.7 4.7 42 93-135 90-131 (174)
71 cd01757 PLAT_RAB6IP1 PLAT/LH2 29.2 64 0.0014 23.7 2.9 20 71-90 75-94 (114)
72 cd06165 Sortase_A_1 Sortase A 28.6 1E+02 0.0022 22.2 4.0 42 94-137 42-87 (127)
73 PF08922 DUF1905: Domain of un 28.5 1.9E+02 0.0041 19.5 7.9 78 25-120 1-78 (80)
74 TIGR03595 Obg_CgtA_exten Obg f 28.0 49 0.0011 21.9 2.0 17 105-121 47-63 (69)
75 PF08517 AXH: Ataxin-1 and HBP 27.8 59 0.0013 24.1 2.5 49 69-119 52-110 (115)
76 PRK14990 anaerobic dimethyl su 27.6 77 0.0017 30.2 3.9 43 105-147 729-771 (814)
77 KOG0270 WD40 repeat-containing 27.5 2.8E+02 0.0062 25.3 7.1 81 68-149 264-374 (463)
78 cd01756 PLAT_repeat PLAT/LH2 d 27.1 65 0.0014 23.2 2.6 22 71-92 84-105 (120)
79 TIGR00509 bisC_fam molybdopter 27.0 88 0.0019 29.6 4.1 44 105-148 664-707 (770)
80 smart00306 HintN Hint (Hedgeho 26.6 43 0.00094 22.3 1.5 21 96-120 75-98 (100)
81 PRK15102 trimethylamine N-oxid 26.6 76 0.0016 30.4 3.6 44 105-148 717-760 (825)
82 PF14998 Ripply: Transcription 26.5 32 0.00068 24.4 0.8 39 37-81 43-82 (87)
83 cd00004 Sortase Sortases are c 26.5 1.1E+02 0.0025 21.9 3.9 42 93-136 42-87 (128)
84 PF03152 UFD1: Ubiquitin fusio 25.8 90 0.002 24.7 3.4 108 20-146 44-166 (176)
85 COG1977 MoaD Molybdopterin con 25.7 49 0.0011 22.5 1.7 15 109-123 66-80 (84)
86 cd00989 PDZ_metalloprotease PD 25.5 51 0.0011 21.0 1.7 12 108-119 26-37 (79)
87 TIGR01591 Fdh-alpha formate de 25.5 1.1E+02 0.0023 28.3 4.3 43 105-147 599-641 (671)
88 PF07076 DUF1344: Protein of u 25.0 77 0.0017 21.0 2.4 38 83-128 17-54 (61)
89 cd00113 PLAT PLAT (Polycystin- 24.6 82 0.0018 22.0 2.7 22 71-92 83-104 (116)
90 PF09269 DUF1967: Domain of un 24.5 52 0.0011 21.8 1.5 17 105-121 47-63 (69)
91 PRK08166 NADH dehydrogenase su 24.3 1.1E+02 0.0023 29.5 4.2 44 105-148 784-827 (847)
92 PRK09570 rpoH DNA-directed RNA 24.0 88 0.0019 21.7 2.7 22 105-126 45-66 (79)
93 COG2336 MazE Growth regulator 23.5 73 0.0016 22.3 2.2 35 85-123 3-37 (82)
94 TIGR00638 Mop molybdenum-pteri 23.1 86 0.0019 19.6 2.4 21 105-125 42-62 (69)
95 COG3466 ISA1214 Putative trans 23.1 68 0.0015 20.5 1.8 32 16-49 11-43 (52)
96 cd04491 SoSSB_OBF SoSSB_OBF: A 22.7 2.3E+02 0.005 18.5 4.9 34 70-121 25-58 (82)
97 TIGR02166 dmsA_ynfE anaerobic 22.6 1.2E+02 0.0025 28.8 4.0 43 105-147 712-754 (797)
98 KOG0296 Angio-associated migra 22.4 1.5E+02 0.0032 26.5 4.3 63 70-137 308-380 (399)
99 PF11604 CusF_Ec: Copper bindi 22.4 1.4E+02 0.003 19.6 3.4 28 108-135 39-67 (70)
100 PRK00809 hypothetical protein; 22.2 74 0.0016 24.2 2.2 18 105-124 30-47 (144)
101 KOG0640 mRNA cleavage stimulat 22.2 2.2E+02 0.0048 25.2 5.3 45 92-152 315-359 (430)
102 cd05827 Sortase_C_3 Sortase C 21.8 2.1E+02 0.0046 20.7 4.6 42 93-136 44-89 (131)
103 cd00991 PDZ_archaeal_metallopr 21.7 66 0.0014 21.1 1.7 12 108-119 24-35 (79)
104 PRK06461 single-stranded DNA-b 21.6 2.2E+02 0.0048 20.8 4.7 45 71-134 43-90 (129)
105 PHA02872 EFc gene family prote 21.5 1.7E+02 0.0037 21.8 3.9 35 105-139 47-83 (124)
106 PRK01777 hypothetical protein; 21.2 66 0.0014 22.8 1.7 15 108-122 61-75 (95)
107 TIGR03479 DMSO_red_II_alp DMSO 20.9 1.4E+02 0.003 29.1 4.3 44 105-148 817-860 (912)
108 TIGR02164 torA trimethylamine- 20.8 1.2E+02 0.0027 28.9 3.9 43 105-147 714-756 (822)
109 PRK09129 NADH dehydrogenase su 20.8 1.4E+02 0.0031 28.3 4.2 48 105-152 715-762 (776)
110 PF14478 DUF4430: Domain of un 20.7 40 0.00087 21.9 0.4 17 105-121 52-68 (68)
111 KOG1816 Ubiquitin fusion-degra 20.7 4.8E+02 0.01 22.6 6.9 79 30-122 30-108 (308)
112 PF07591 PT-HINT: Pretoxin HIN 20.6 42 0.0009 24.8 0.5 18 99-120 68-85 (130)
113 TIGR02227 sigpep_I_bact signal 20.3 2.6E+02 0.0057 21.0 5.0 35 110-145 50-85 (163)
114 PF08021 FAD_binding_9: Sidero 20.2 1.8E+02 0.004 20.9 3.9 85 22-122 10-112 (117)
No 1
>PF02362 B3: B3 DNA binding domain; InterPro: IPR003340 Two DNA binding proteins, RAV1 and RAV2 from Arabidopsis thaliana contain two distinct amino acid sequence domains found only in higher plant species. The N-terminal regions of RAV1 and RAV2 are homologous to the AP2 DNA-binding domain (see IPR001471 from INTERPRO) present in a family of transcription factors, while the C-terminal region exhibits homology to the highly conserved C-terminal domain, designated B3, of VP1/ABI3 transcription factors []. The AP2 and B3-like domains of RAV1 bind autonomously to the CAACA and CACCTG motifs, respectively, and together achieve a high affinity and specificity of binding. It has been suggested that the AP2 and B3-like domains of RAV1 are connected by a highly flexible structure enabling the two domains to bind to the CAACA and CACCTG motifs in various spacings and orientations [].; GO: 0003677 DNA binding, 0006355 regulation of transcription, DNA-dependent; PDB: 1WID_A 1YEL_A.
Probab=99.76 E-value=1.1e-17 Score=117.99 Aligned_cols=97 Identities=24% Similarity=0.310 Sum_probs=71.6
Q ss_pred EEEEeecCCCCCCCCEEeehHHHHHcCCCCCCccccccccCCCCCeEEEEEECCCCcEEEEEEEEeCCCCceEEcCCchH
Q 041585 25 ITKILTRSDLGHLSRLLVQTRLAERYVMPFLDEASRSEVIGNPEGLRVSVWDCDTNSMHRLVFKKWATSNSYVLINHWTA 104 (155)
Q Consensus 25 fkK~LT~SDV~~~~RLvLPk~~~e~~ilP~l~~~~~~~~~~~~~gi~V~v~D~dt~~~w~~~~k~w~~~~syvL~~GW~~ 104 (155)
|.|+|+++|+...++|.||++.++.|.++. ..+..|.+.|. .|+.|.++++++.+++.|+|++||.
T Consensus 1 F~K~l~~s~~~~~~~l~iP~~f~~~~~~~~------------~~~~~v~l~~~-~g~~W~v~~~~~~~~~~~~l~~GW~- 66 (100)
T PF02362_consen 1 FFKVLKPSDVSSSCRLIIPKEFAKKHGGNK------------RKSREVTLKDP-DGRSWPVKLKYRKNSGRYYLTGGWK- 66 (100)
T ss_dssp EEEE--TTCCCCTT-EEE-HHHHTTTS--S------------S--CEEEEEET-TTEEEEEEEEEECCTTEEEEETTHH-
T ss_pred CEEEEEccCcCCCCEEEeCHHHHHHhCCCc------------CCCeEEEEEeC-CCCEEEEEEEEEccCCeEEECCCHH-
Confidence 789999999988899999999999982111 14578999994 7899999999888888899999999
Q ss_pred hhhhhcCCCCCCEEEEEEcCCCCeE--EEEEEee
Q 041585 105 DFVRRRELAAGDEIGMCWDSFYSRF--NFSILKR 136 (155)
Q Consensus 105 ~fVr~~~Lk~GD~I~f~wd~~~~~l--~F~vl~r 136 (155)
+||++++|++||.|.|.++.. +.+ .+.|.++
T Consensus 67 ~Fv~~n~L~~GD~~~F~~~~~-~~~~~~v~i~~~ 99 (100)
T PF02362_consen 67 KFVRDNGLKEGDVCVFELIGN-SNFTLKVHIFRK 99 (100)
T ss_dssp HHHHHCT--TT-EEEEEE-SS-SCE-EEEEEE--
T ss_pred HHHHHcCCCCCCEEEEEEecC-CCceEEEEEEEC
Confidence 999999999999999999854 455 6666543
No 2
>PF03754 DUF313: Domain of unknown function (DUF313) ; InterPro: IPR005508 This is a family of proteins from Arabidopsis thaliana (Mouse-ear cress) with uncharacterised function.
Probab=99.43 E-value=4.1e-13 Score=99.28 Aligned_cols=84 Identities=27% Similarity=0.434 Sum_probs=68.0
Q ss_pred CCC-eEEEEEeecCCCCC-CCCEEeehHHHHHcCCCCCCcccccccc-------CCCCCeEEEEEECCCCcEEEEEEEEe
Q 041585 20 TYP-WSITKILTRSDLGH-LSRLLVQTRLAERYVMPFLDEASRSEVI-------GNPEGLRVSVWDCDTNSMHRLVFKKW 90 (155)
Q Consensus 20 ~~p-w~fkK~LT~SDV~~-~~RLvLPk~~~e~~ilP~l~~~~~~~~~-------~~~~gi~V~v~D~dt~~~w~~~~k~w 90 (155)
.+| .+|.|+|+.|||++ ++||.||..++.. ..||...+. +.+ ....|+.|.|.|+ .+..|.++|++|
T Consensus 18 ~d~kli~~K~L~~tDv~~~qsRLsmP~~qi~~--~dFLt~eE~-~~i~~~~~~~~~~~Gv~V~lvdp-~~~~~~m~lkkW 93 (114)
T PF03754_consen 18 EDPKLIIEKTLFKTDVDPHQSRLSMPFNQIID--NDFLTEEEK-RIIKEEKKNNDKKKGVEVILVDP-SLRKWTMRLKKW 93 (114)
T ss_pred CCCeEEEeeeecccCCCCCCceeeccHHHhcc--cccCCHHHH-HHHHHhhccCcccCCceEEEECC-cCcEEEEEEEEe
Confidence 344 88999999999987 8999999999965 256665532 112 3469999999997 578999999999
Q ss_pred CC---CCceEEcCCchHhhhh
Q 041585 91 AT---SNSYVLINHWTADFVR 108 (155)
Q Consensus 91 ~~---~~syvL~~GW~~~fVr 108 (155)
.. +.+|+|..||+ ++|+
T Consensus 94 ~mg~~~~~YvL~~gWn-~VV~ 113 (114)
T PF03754_consen 94 NMGNGTSNYVLNSGWN-KVVE 113 (114)
T ss_pred cccCCceEEEEEcChH-hhcc
Confidence 88 55799999999 8886
No 3
>PF09217 EcoRII-N: Restriction endonuclease EcoRII, N-terminal; InterPro: IPR023372 There are four classes of restriction endonucleases: types I, II,III and IV. All types of enzymes recognise specific short DNA sequences and carry out the endonucleolytic cleavage of DNA to give specific double-stranded fragments with terminal 5'-phosphates. They differ in their recognition sequence, subunit composition, cleavage position, and cofactor requirements [, ], as summarised below: Type I enzymes (3.1.21.3 from EC) cleave at sites remote from recognition site; require both ATP and S-adenosyl-L-methionine to function; multifunctional protein with both restriction and methylase (2.1.1.72 from EC) activities. Type II enzymes (3.1.21.4 from EC) cleave within or at short specific distances from recognition site; most require magnesium; single function (restriction) enzymes independent of methylase. Type III enzymes (3.1.21.5 from EC) cleave at sites a short distance from recognition site; require ATP (but doesn't hydrolyse it); S-adenosyl-L-methionine stimulates reaction but is not required; exists as part of a complex with a modification methylase methylase (2.1.1.72 from EC). Type IV enzymes target methylated DNA. Type II restriction endonucleases (3.1.21.4 from EC) are components of prokaryotic DNA restriction-modification mechanisms that protect the organism against invading foreign DNA. These site-specific deoxyribonucleases catalyse the endonucleolytic cleavage of DNA to give specific double-stranded fragments with terminal 5'-phosphates. Of the 3000 restriction endonucleases that have been characterised, most are homodimeric or tetrameric enzymes that cleave target DNA at sequence-specific sites close to the recognition site. For homodimeric enzymes, the recognition site is usually a palindromic sequence 4-8 bp in length. Most enzymes require magnesium ions as a cofactor for catalysis. Although they can vary in their mode of recognition, many restriction endonucleases share a similar structural core comprising four beta-strands and one alpha-helix, as well as a similar mechanism of cleavage, suggesting a common ancestral origin []. However, there is still considerable diversity amongst restriction endonucleases [, ]. The target site recognition process triggers large conformational changes of the enzyme and the target DNA, leading to the activation of the catalytic centres. Like other DNA binding proteins, restriction enzymes are capable of non-specific DNA binding as well, which is the prerequisite for efficient target site location by facilitated diffusion. Non-specific binding usually does not involve interactions with the bases but only with the DNA backbone []. This entry represents the N-terminal effector-binding domain of the type II restriction endonuclease EcoRII, which has a DNA recognition fold, allowing for binding to 5'-CCWGG sequences. It assumes a structure composed of an eight-stranded beta-sheet with the strands in the order of b2, b5, b4, b3, b7, b6, b1 and b8. They are mostly antiparallel to each other except that b3 is parallel to b7. Alternatively, it may also be viewed as consisting of two mini beta-sheets of four antiparallel beta-strands, sheet I from beta-strands b2, b5, b4, b3 and sheet II from strands b7, b6, b1, b8, folded into an open mixed beta-barrel with a novel topology. Sheet I has a simple Greek key motif while sheet II does not []. The domain represented by this entry is only found in bacterial proteins.; PDB: 3HQF_A 1NA6_A.
Probab=96.78 E-value=0.011 Score=45.91 Aligned_cols=93 Identities=15% Similarity=0.272 Sum_probs=53.1
Q ss_pred CCe-EEEEEeecCCCC----CCCCEEeehHHHHHcCCCCCCccccccccCCCCCeEEEEEECCCC--cEEEEEEEEeCC-
Q 041585 21 YPW-SITKILTRSDLG----HLSRLLVQTRLAERYVMPFLDEASRSEVIGNPEGLRVSVWDCDTN--SMHRLVFKKWAT- 92 (155)
Q Consensus 21 ~pw-~fkK~LT~SDV~----~~~RLvLPk~~~e~~ilP~l~~~~~~~~~~~~~gi~V~v~D~dt~--~~w~~~~k~w~~- 92 (155)
+-| .|-|.|+++|+| ++..++|||..++.. ||.+.... ..+..+.|.+.+. ++ ..+.+|+.|-.+
T Consensus 5 ~~~~~~~K~LSaNDtGaTGgHQaGiyIpk~~~~~l-Fp~~~~~~-----~~Np~~~~~~~~~-s~~~~~~~~r~iYYnn~ 77 (156)
T PF09217_consen 5 DSWAIYCKRLSANDTGATGGHQAGIYIPKSAAELL-FPSINHTK-----EENPDIWLKARWQ-SHFVTDSQVRFIYYNNR 77 (156)
T ss_dssp SSEEEEEEE--CCCCTTTSSS--EEEE-HHHHHHH--GGG-SSS-----SSS-EEEEEEEET-TTT---EEEEEEEE-CC
T ss_pred cceEEEEEEccCCCCCCcCcccceeEecccHHHHh-CCCCCccc-----ccCCceeEEEEEC-CCCccceeEEEEEEccc
Confidence 345 599999999997 378999999999885 78766432 1235577777763 33 457788887765
Q ss_pred -----CCceEEcCCchHhhhhhcCCCCCCEEEEE
Q 041585 93 -----SNSYVLINHWTADFVRRRELAAGDEIGMC 121 (155)
Q Consensus 93 -----~~syvL~~GW~~~fVr~~~Lk~GD~I~f~ 121 (155)
.+.|-|+ +|-+.|--.+.=.+||..+|-
T Consensus 78 ~~~gTRNE~RIT-~~G~~~~~~~~~~tGaL~vla 110 (156)
T PF09217_consen 78 LFGGTRNEYRIT-RFGRGFPLQNPENTGALLVLA 110 (156)
T ss_dssp CTTSS--EEEEE----TTSGGG-GGGTT-EEEEE
T ss_pred ccCCCcCceEEe-eecCCCccCCccccccEEEEE
Confidence 3449998 577555544445789988776
No 4
>PF02261 Asp_decarbox: Aspartate decarboxylase; InterPro: IPR003190 Decarboxylation of aspartate is the major route of alanine production in bacteria, and is catalysed by the enzyme aspartate decarboxylase. The enzyme is translated as an inactive proenzyme of two chains, A and B. This family contains both chains of aspartate decarboxylase.; GO: 0004068 aspartate 1-decarboxylase activity, 0006523 alanine biosynthetic process; PDB: 1PYU_C 1AW8_A 1PYQ_B 3TM7_C 1PT1_A 1PQH_A 1PPY_B 1PT0_B 1PQF_A 1PQE_A ....
Probab=89.49 E-value=7.1 Score=29.07 Aligned_cols=75 Identities=16% Similarity=0.219 Sum_probs=48.3
Q ss_pred EEEeecCCCCCCCCEEeehHHHHH-cCCCCCCccccccccCCCCCeEEEEEECCCCcEEEEEEEEeCC-CCceEEcCCch
Q 041585 26 TKILTRSDLGHLSRLLVQTRLAER-YVMPFLDEASRSEVIGNPEGLRVSVWDCDTNSMHRLVFKKWAT-SNSYVLINHWT 103 (155)
Q Consensus 26 kK~LT~SDV~~~~RLvLPk~~~e~-~ilP~l~~~~~~~~~~~~~gi~V~v~D~dt~~~w~~~~k~w~~-~~syvL~~GW~ 103 (155)
+-+.|..|++..|-+.|..+.++. -|+|+ -.|.|++..+|..|+-..-.-.. ++.-.|+| .
T Consensus 12 ratVT~a~L~Y~GSitID~~Ll~aagi~p~---------------E~V~V~Nv~nG~Rf~TYvI~g~~GSg~I~lNG--a 74 (116)
T PF02261_consen 12 RATVTEADLNYEGSITIDEDLLDAAGILPY---------------EQVQVVNVNNGERFETYVIPGERGSGVICLNG--A 74 (116)
T ss_dssp EEE--EEETTSTSCEEEEHHHHHHCT--TT---------------BEEEEEETTT--EEEEEEEEESTTTT-EEEEG--G
T ss_pred ceEEeccccccceeeEECHHHHHHcCCCcC---------------CEEEEEECCCCcEEEEEEEEccCCCcEEEECC--H
Confidence 457899999989999999999874 34443 46889999988877654444332 45577776 2
Q ss_pred HhhhhhcCCCCCCEEEEE
Q 041585 104 ADFVRRRELAAGDEIGMC 121 (155)
Q Consensus 104 ~~fVr~~~Lk~GD~I~f~ 121 (155)
-.+.-+.||.|.+.
T Consensus 75 ----AArl~~~GD~vII~ 88 (116)
T PF02261_consen 75 ----AARLVQVGDRVIIM 88 (116)
T ss_dssp ----GGGCS-TT-EEEEE
T ss_pred ----HHhccCCCCEEEEE
Confidence 56778999988864
No 5
>TIGR00223 panD L-aspartate-alpha-decarboxylase. Members of this family are aspartate 1-decarboxylase, the enzyme that makes beta-alanine and C02 from aspartate. Beta-alanine is then used to make the vitamin pantothenate, from which coenzyme A is made. Aspartate 1-decarboxylase is synthesized as a proenzyme, then cleaved to an alpha (C-terminal) and beta (N-terminal) subunit with a pyruvoyl group.
Probab=87.83 E-value=9.3 Score=28.84 Aligned_cols=75 Identities=11% Similarity=0.107 Sum_probs=54.0
Q ss_pred EEEeecCCCCCCCCEEeehHHHHH-cCCCCCCccccccccCCCCCeEEEEEECCCCcEEEEEEEEeC-CCCceEEcCCch
Q 041585 26 TKILTRSDLGHLSRLLVQTRLAER-YVMPFLDEASRSEVIGNPEGLRVSVWDCDTNSMHRLVFKKWA-TSNSYVLINHWT 103 (155)
Q Consensus 26 kK~LT~SDV~~~~RLvLPk~~~e~-~ilP~l~~~~~~~~~~~~~gi~V~v~D~dt~~~w~~~~k~w~-~~~syvL~~GW~ 103 (155)
+.+.|..|+...|-+.|..+.++. -|+|+ -.|.|+|.+.|..++-..-.-. .++.-.|+| -
T Consensus 12 ratVT~a~L~Y~GSItID~~Lm~aagi~p~---------------E~V~V~Nv~NG~Rf~TYvI~G~~GSg~I~lNG--A 74 (126)
T TIGR00223 12 RATVTHANLNYEGSITIDEDLLDAAGILEN---------------EKVDIVNVNNGKRFSTYAIAGKRGSRIICVNG--A 74 (126)
T ss_pred ceEEeccccccceeEEECHHHHHhcCCCCC---------------CEEEEEECCCCcEEEEEEEEcCCCCCEEEeCC--H
Confidence 457899999889999999999874 34443 4688999988887654333322 245577876 3
Q ss_pred HhhhhhcCCCCCCEEEEE
Q 041585 104 ADFVRRRELAAGDEIGMC 121 (155)
Q Consensus 104 ~~fVr~~~Lk~GD~I~f~ 121 (155)
-.+--++||.|.+.
T Consensus 75 ----AArl~~~GD~VII~ 88 (126)
T TIGR00223 75 ----AARCVSVGDIVIIA 88 (126)
T ss_pred ----HHhcCCCCCEEEEE
Confidence 56778999988864
No 6
>PRK05449 aspartate alpha-decarboxylase; Provisional
Probab=86.77 E-value=11 Score=28.37 Aligned_cols=75 Identities=13% Similarity=0.158 Sum_probs=54.3
Q ss_pred EEEeecCCCCCCCCEEeehHHHHH-cCCCCCCccccccccCCCCCeEEEEEECCCCcEEEEEEEEeCC--CCceEEcCCc
Q 041585 26 TKILTRSDLGHLSRLLVQTRLAER-YVMPFLDEASRSEVIGNPEGLRVSVWDCDTNSMHRLVFKKWAT--SNSYVLINHW 102 (155)
Q Consensus 26 kK~LT~SDV~~~~RLvLPk~~~e~-~ilP~l~~~~~~~~~~~~~gi~V~v~D~dt~~~w~~~~k~w~~--~~syvL~~GW 102 (155)
+-+.|..|+...|-+.|..+.++. -|+|+ -.|.||+...|..++- |-+.+. ++.-.|+|
T Consensus 12 ratVT~a~L~Y~GSitID~~Ll~aagi~p~---------------E~V~V~Nv~NG~Rf~T-YvI~g~~GSg~I~lNG-- 73 (126)
T PRK05449 12 RATVTEADLNYEGSITIDEDLLDAAGILEN---------------EKVQIVNVNNGARFET-YVIAGERGSGVICLNG-- 73 (126)
T ss_pred ceEEeccccccceeEEECHHHHHhcCCCCC---------------CEEEEEECCCCcEEEE-EEEEcCCCCCEEEeCC--
Confidence 457899999889999999999874 34443 4688999988876654 333333 44577876
Q ss_pred hHhhhhhcCCCCCCEEEEEE
Q 041585 103 TADFVRRRELAAGDEIGMCW 122 (155)
Q Consensus 103 ~~~fVr~~~Lk~GD~I~f~w 122 (155)
- -.+.-+.||.|.+.-
T Consensus 74 A----AAr~~~~GD~vII~a 89 (126)
T PRK05449 74 A----AARLVQVGDLVIIAA 89 (126)
T ss_pred H----HHhcCCCCCEEEEEE
Confidence 2 567788999888753
No 7
>cd06919 Asp_decarbox Aspartate alpha-decarboxylase or L-aspartate 1-decarboxylase, a pyruvoyl group-dependent decarboxylase in beta-alanine production. Decarboxylation of aspartate is the major route of beta-alanine production in bacteria, and is catalyzed by the enzyme L-aspartate decarboxylase (ADC), EC:4.1.1.11 which requires a pyruvoyl group for its activity. The pyruvoyl cofactor is covalently bound to the enzyme. The protein is synthesized as a proenzyme and cleaved via self-processing at Gly23-Ser24 to yield an alpha chain (C-terminal fragment) and beta chain (N-terminal fragment), and the pyruvoyl group. Beta-alanine is required for the biosynthesis of pantothenate, in which the enzyme plays a critical regulatory role. The active site of the tetrameric enzyme is located at the interface of two subunits, with a Lysine and a Histidine from the beta chain of one subunit forming the active site with residues from the alpha chain of the adjacent subunit. This alignment
Probab=85.53 E-value=13 Score=27.56 Aligned_cols=75 Identities=17% Similarity=0.132 Sum_probs=54.2
Q ss_pred EEEeecCCCCCCCCEEeehHHHHH-cCCCCCCccccccccCCCCCeEEEEEECCCCcEEEEEEEEeCC--CCceEEcCCc
Q 041585 26 TKILTRSDLGHLSRLLVQTRLAER-YVMPFLDEASRSEVIGNPEGLRVSVWDCDTNSMHRLVFKKWAT--SNSYVLINHW 102 (155)
Q Consensus 26 kK~LT~SDV~~~~RLvLPk~~~e~-~ilP~l~~~~~~~~~~~~~gi~V~v~D~dt~~~w~~~~k~w~~--~~syvL~~GW 102 (155)
+-+.|..|+...|-+.|..+.++. -|+| +-.|.||+...|..++-. -+.+. ++.-.|+|
T Consensus 11 ratVT~a~L~YeGSitID~~Ll~aagi~~---------------~E~V~I~Nv~NG~Rf~TY-vI~g~~gSg~I~lNG-- 72 (111)
T cd06919 11 RATVTEADLNYEGSITIDEDLLEAAGILP---------------YEKVLVVNVNNGARFETY-VIPGERGSGVICLNG-- 72 (111)
T ss_pred ceEEeccccccceeEEECHHHHHhcCCCC---------------CCEEEEEECCCCcEEEEE-EEEcCCCCCEEEeCC--
Confidence 457899999889999999999875 3333 357889999888766543 33333 45577876
Q ss_pred hHhhhhhcCCCCCCEEEEEE
Q 041585 103 TADFVRRRELAAGDEIGMCW 122 (155)
Q Consensus 103 ~~~fVr~~~Lk~GD~I~f~w 122 (155)
- -.+.-+.||.|.+.-
T Consensus 73 A----AAr~~~~GD~vII~s 88 (111)
T cd06919 73 A----AARLGQPGDRVIIMA 88 (111)
T ss_pred H----HHhcCCCCCEEEEEE
Confidence 2 567788999988753
No 8
>PF01568 Molydop_binding: Molydopterin dinucleotide binding domain; InterPro: IPR006657 A domain in this entry corresponds to the C-terminal domain IV in dimethyl sulphoxide (DMSO)reductase which interacts with the 2-amino pyrimidone ring of both molybdopterin guanine dinucleotide molecules [].; GO: 0016491 oxidoreductase activity, 0030151 molybdenum ion binding, 0055114 oxidation-reduction process; PDB: 2IVF_A 1OGY_G 3ML1_A 3O5A_A 1TI2_G 1VLE_M 1VLD_U 1VLF_O 1TI4_I 1TI6_E ....
Probab=76.42 E-value=4 Score=28.41 Aligned_cols=47 Identities=6% Similarity=0.036 Sum_probs=33.1
Q ss_pred HhhhhhcCCCCCCEEEEEEcCCCCeEEEEEEeecCCCceeeecchhh
Q 041585 104 ADFVRRRELAAGDEIGMCWDSFYSRFNFSILKRAPAPTIIVQDHADV 150 (155)
Q Consensus 104 ~~fVr~~~Lk~GD~I~f~wd~~~~~l~F~vl~r~~~~~~~~~~~~~~ 150 (155)
.+-+++++|+.||.|.++-+...-.+...+-.+-...++.+|.|.-.
T Consensus 36 p~dA~~~Gi~~Gd~V~v~s~~G~v~~~v~~~~~v~~g~v~~~~~~~~ 82 (110)
T PF01568_consen 36 PEDAAKLGIKDGDWVRVSSPRGSVEVRVKVTDGVPPGVVFMPHGWGG 82 (110)
T ss_dssp HHHHHHCT--TTCEEEEEETTEEEEEEEEEETTS-TTEEEEESTHTT
T ss_pred HHHHHHhcCcCCCEEEEEeccceEeeeeEEecCCcCCEEEEeccccc
Confidence 37889999999999999998664444444555677888888887643
No 9
>cd02792 MopB_CT_Formate-Dh-Na-like Formate dehydrogenase N, alpha subunit (Formate-Dh-Na) is a major component of nitrate respiration in bacteria such as in the E. coli formate dehydrogenase N (Fdh-N). Fdh-N is a membrane protein that is a complex of three different subunits and is the major electron donor to the nitrate respiratory chain. Also included in this CD is the Desulfovibrio gigas tungsten formate dehydrogenase, DgW-FDH. In contrast to Fdh-N, which is a functional heterotrimer, DgW-FDH is a heterodimer. The DgW-FDH complex is composed of a large subunit carrying the W active site and one [4Fe-4S] center, and a small subunit that harbors a series of three [4Fe-4S] clusters as well as a putative vacant binding site for a fourth cluster. The smaller subunit is not included in this alignment. This CD (MopB_CT_Formate-Dh-Na-like) is of the conserved molybdopterin_binding C-terminal (MopB_CT) region present in many, but not all, MopB homologs.
Probab=72.81 E-value=7 Score=27.67 Aligned_cols=44 Identities=11% Similarity=0.103 Sum_probs=33.6
Q ss_pred hhhhhcCCCCCCEEEEEEcCCCCeEEEEEEeecCCCceeeecch
Q 041585 105 DFVRRRELAAGDEIGMCWDSFYSRFNFSILKRAPAPTIIVQDHA 148 (155)
Q Consensus 105 ~fVr~~~Lk~GD~I~f~wd~~~~~l~F~vl~r~~~~~~~~~~~~ 148 (155)
+=.++.+|+.||.|.++-+...-.+.-.+-..-.+.++.+|.|.
T Consensus 42 ~dA~~lgi~~Gd~V~v~s~~G~~~~~v~v~~~i~~g~v~~~~g~ 85 (122)
T cd02792 42 ELAAERGIKNGDMVWVSSPRGKIKVKALVTDRVKPHEVGIPYHW 85 (122)
T ss_pred HHHHHcCCCCCCEEEEEcCCceEEEEEEECCCcCCCEEEEeccc
Confidence 67899999999999999886544454445556677888888763
No 10
>cd02788 MopB_CT_NDH-1_NuoG2-N7 MopB_CT_NDH-1_NuoG2-N7: C-terminal region of the NuoG-like subunit (of the variant with a [4Fe-4S] cluster, N7) of the NADH-quinone oxidoreductase/NADH dehydrogenase-1 (NDH-1) found in various bacteria. The NDH-1 is the first energy-transducting complex in the respiratory chain and functions as a redox pump that uses the redox energy to translocate H+ ions across the membrane, resulting in a significant contribution to energy production. In Escherichia coli NDH-1, the largest subunit is encoded by the nuoG gene, and is part of the 14 distinct subunits constituting the functional enzyme. The NuoG subunit is made of two domains: the first contains three binding sites for FeS clusters (the fer2 domain), the second domain, is of unknown function or, as postulated, has lost an ancestral formate dehydrogenase activity that became redundant during the evolution of the complex I enzyme. Unique to this group, compared to the other prokaryotic and eukaryotic groups
Probab=72.39 E-value=8.1 Score=26.76 Aligned_cols=43 Identities=21% Similarity=0.097 Sum_probs=34.0
Q ss_pred hhhhhcCCCCCCEEEEEEcCCCCeEEEEEEeecCCCceeeecc
Q 041585 105 DFVRRRELAAGDEIGMCWDSFYSRFNFSILKRAPAPTIIVQDH 147 (155)
Q Consensus 105 ~fVr~~~Lk~GD~I~f~wd~~~~~l~F~vl~r~~~~~~~~~~~ 147 (155)
+=.++.+|+.||.|.++-....-.+...+-.+-...++-+|.|
T Consensus 36 ~dA~~lGi~~Gd~V~v~s~~G~i~~~v~v~~~v~~g~V~~p~g 78 (96)
T cd02788 36 ADAARLGLADGDLVEFSLGDGTLTLPVQISKYLPAGVVGLPLG 78 (96)
T ss_pred HHHHHcCCCCCCEEEEEECCeEEEEEEEECCCCCCCEEEEecC
Confidence 6789999999999999987655555555556677788889886
No 11
>cd02779 MopB_CT_Arsenite-Ox This CD contains the molybdopterin_binding C-terminal (MopB_CT) region of Arsenite oxidase (Arsenite-Ox) and related proteins. Arsenite oxidase oxidizes arsenite to the less toxic arsenate; it transfers the electrons obtained from the oxidation of arsenite towards the soluble periplasmic electron carriers cytochrome c and/or amicyanin.
Probab=72.11 E-value=7.2 Score=27.74 Aligned_cols=43 Identities=12% Similarity=0.021 Sum_probs=33.1
Q ss_pred hhhhhcCCCCCCEEEEEEcCCCCeEEEEEEeecCCCceeeecc
Q 041585 105 DFVRRRELAAGDEIGMCWDSFYSRFNFSILKRAPAPTIIVQDH 147 (155)
Q Consensus 105 ~fVr~~~Lk~GD~I~f~wd~~~~~l~F~vl~r~~~~~~~~~~~ 147 (155)
+=.++.+|+.||.|.++-+...-.+.-.+-.+-.+.++.+|.|
T Consensus 40 ~dA~~lgi~~Gd~V~v~s~~G~i~~~~~~~~~i~~g~v~~p~g 82 (115)
T cd02779 40 EDAKREGLKNGDLVEVYNDYGSTTAMAYVTNTVKPGQTFMLMA 82 (115)
T ss_pred HHHHHcCCCCCCEEEEEeCCEEEEEEEEECCCcCCCeEEEEcc
Confidence 7889999999999999998654444444555666778888876
No 12
>cd02778 MopB_CT_Thiosulfate-R-like The MopB_CT_Thiosulfate-R-like CD contains thiosulfate-, sulfur-, and polysulfide-reductases, and other related proteins. Thiosulfate reductase catalyzes the cleavage of sulfur-sulfur bonds in thiosulfate. Polysulfide reductase is a membrane-bound enzyme that catalyzes the reduction of polysulfide using either hydrogen or formate as the electron donor. Also included in this CD is the phenylacetyl-CoA:acceptor oxidoreductase, large subunit (PadB2), which has been characterized as a membrane-bound molybdenum-iron-sulfur enzyme involved in anaerobic metabolism of phenylalanine in the denitrifying bacterium Thauera aromatica. The MopB_CT_Thiosulfate-R-like CD is of the conserved molybdopterin_binding C-terminal (MopB_CT) region present in many, but not all, MopB homologs.
Probab=70.08 E-value=11 Score=26.69 Aligned_cols=44 Identities=9% Similarity=0.037 Sum_probs=35.0
Q ss_pred hhhhhcCCCCCCEEEEEEcCCCCeEEEEEEeecCCCceeeecch
Q 041585 105 DFVRRRELAAGDEIGMCWDSFYSRFNFSILKRAPAPTIIVQDHA 148 (155)
Q Consensus 105 ~fVr~~~Lk~GD~I~f~wd~~~~~l~F~vl~r~~~~~~~~~~~~ 148 (155)
+=.++.+|+.||.|.++.+...-.+.-.+-..-.+.++-+|.|.
T Consensus 37 ~dA~~~gi~~Gd~V~v~s~~G~i~~~v~v~~~v~~g~v~~~~g~ 80 (123)
T cd02778 37 ETAARLGIKDGDRVEVSSARGKVTGKARLTEGIRPDTVFMPHGF 80 (123)
T ss_pred HHHHHcCCCCCCEEEEEeCCCcEEEEEEEcCCcCCCEEEEeccC
Confidence 77899999999999999987665555556666777888888763
No 13
>cd02786 MopB_CT_3 The MopB_CT_3 CD includes a group of related uncharacterized bacterial molybdopterin-binding oxidoreductase-like domains with a putative N-terminal iron-sulfur [4Fe-4S] cluster binding site and molybdopterin cofactor binding site. This CD is of the conserved molybdopterin_binding C-terminal (MopB_CT) region present in many, but not all, MopB homologs.
Probab=68.87 E-value=8.8 Score=27.01 Aligned_cols=43 Identities=14% Similarity=0.156 Sum_probs=33.9
Q ss_pred hhhhhcCCCCCCEEEEEEcCCCCeEEEEEEeecCCCceeeecc
Q 041585 105 DFVRRRELAAGDEIGMCWDSFYSRFNFSILKRAPAPTIIVQDH 147 (155)
Q Consensus 105 ~fVr~~~Lk~GD~I~f~wd~~~~~l~F~vl~r~~~~~~~~~~~ 147 (155)
+-..+.+|+.||.|.++-+...-++...+-.+-...++.+|.|
T Consensus 38 ~dA~~lgi~~Gd~V~v~s~~G~~~~~v~~~~~i~~g~v~~~~g 80 (116)
T cd02786 38 ADAAARGIADGDLVVVFNDRGSVTLRAKVTDDVPPGVVVAEGG 80 (116)
T ss_pred HHHHHcCCCCCCEEEEEcCCeEEEEEEEECCCCCCCEEEeecc
Confidence 7788999999999999988766566666666666777777764
No 14
>PRK11347 antitoxin ChpS; Provisional
Probab=67.82 E-value=12 Score=26.05 Aligned_cols=39 Identities=18% Similarity=0.394 Sum_probs=31.1
Q ss_pred EEEEEeCCCCceEEcCCchHhhhhhcCCCCCCEEEEEEcCCCCeE
Q 041585 85 LVFKKWATSNSYVLINHWTADFVRRRELAAGDEIGMCWDSFYSRF 129 (155)
Q Consensus 85 ~~~k~w~~~~syvL~~GW~~~fVr~~~Lk~GD~I~f~wd~~~~~l 129 (155)
..+++|++|.--.|-. .|++.-+|++||.|-+--. .+.+
T Consensus 3 ~~v~kwGNS~~vriPk----~il~~l~l~~G~~v~i~v~--~~~i 41 (83)
T PRK11347 3 ITIKRWGNSAGMVIPN----IVMKELNLQPGQSVEAQVS--NNQL 41 (83)
T ss_pred EEEEEEcCceeEEeCH----HHHHHcCCCCCCEEEEEEE--CCEE
Confidence 4688999877677764 8999999999999988765 3445
No 15
>cd02780 MopB_CT_Tetrathionate_Arsenate-R This CD contains the molybdopterin_binding C-terminal (MopB_CT) region of tetrathionate reductase, subunit A, (TtrA); respiratory arsenate As(V) reductase, catalytic subunit (ArrA); and other related proteins.
Probab=67.00 E-value=12 Score=27.69 Aligned_cols=44 Identities=5% Similarity=-0.004 Sum_probs=34.2
Q ss_pred hhhhhcCCCCCCEEEEEEcCCCCeEEEEEEeecCCCceeeecch
Q 041585 105 DFVRRRELAAGDEIGMCWDSFYSRFNFSILKRAPAPTIIVQDHA 148 (155)
Q Consensus 105 ~fVr~~~Lk~GD~I~f~wd~~~~~l~F~vl~r~~~~~~~~~~~~ 148 (155)
+=.++.+|+.||.|.++-+...-++...+-.+-...++-+|+|.
T Consensus 37 ~dA~~lgI~~Gd~V~v~s~~G~i~~~v~i~~~i~~g~V~~p~g~ 80 (143)
T cd02780 37 EDAAKLGIKTGDRVRVVTPGGSVVGKAKVTEGVRPGVVAIEHGY 80 (143)
T ss_pred HHHHHcCCCCCCEEEEEeCCceEEEEEEECCCcCCCEEEEeccc
Confidence 77899999999999999876655555555556667888888875
No 16
>cd02790 MopB_CT_Formate-Dh_H Formate dehydrogenase H (Formate-Dh-H) catalyzes the reversible oxidation of formate to CO2 with the release of a proton and two electrons. It is a component of the anaerobic formate hydrogen lyase complex. The E. coli formate dehydrogenase H (Fdh-H) is a monomer composed of a single polypeptide chain with a Mo active site region and a [4Fe-4S] center. This CD (MopB_CT_Formate-Dh_H) is of the conserved molybdopterin_binding C-terminal (MopB_CT) region present in many, but not all, MopB homologs.
Probab=65.71 E-value=11 Score=26.34 Aligned_cols=43 Identities=12% Similarity=0.203 Sum_probs=30.3
Q ss_pred hhhhhcCCCCCCEEEEEEcCCCCeEEEEEEeecCCCceeeecc
Q 041585 105 DFVRRRELAAGDEIGMCWDSFYSRFNFSILKRAPAPTIIVQDH 147 (155)
Q Consensus 105 ~fVr~~~Lk~GD~I~f~wd~~~~~l~F~vl~r~~~~~~~~~~~ 147 (155)
+=.++.+|+.||.|.++-+...-++.-.+-..-.+.++.+|.+
T Consensus 42 ~dA~~lgi~~Gd~V~v~~~~G~~~~~v~i~~~i~~g~v~~~~g 84 (116)
T cd02790 42 EDAKRLGIEDGEKVRVSSRRGSVEVRARVTDRVPEGVVFMPFH 84 (116)
T ss_pred HHHHHcCCCCCCEEEEEcCCEEEEEEEEECCCcCCCEEEEecC
Confidence 6789999999999999987543333333334555677777765
No 17
>cd00508 MopB_CT_Fdh-Nap-like This CD includes formate dehydrogenases (Fdh) H and N; nitrate reductases, Nap and Nas; and other related proteins. Formate dehydrogenase H is a component of the anaerobic formate hydrogen lyase complex and catalyzes the reversible oxidation of formate to CO2 with the release of a proton and two electrons. Formate dehydrogenase N (alpha subunit) is the major electron donor to the bacterial nitrate respiratory chain and nitrate reductases, Nap and Nas, catalyze the reduction of nitrate to nitrite. This CD (MopB_CT_Fdh-Nap-like) is of the conserved molybdopterin_binding C-terminal (MopB_CT) region present in many, but not all, MopB homologs.
Probab=65.64 E-value=12 Score=26.24 Aligned_cols=44 Identities=14% Similarity=0.067 Sum_probs=30.7
Q ss_pred hhhhhcCCCCCCEEEEEEcCCCCeEEEEEEeecCCCceeeecch
Q 041585 105 DFVRRRELAAGDEIGMCWDSFYSRFNFSILKRAPAPTIIVQDHA 148 (155)
Q Consensus 105 ~fVr~~~Lk~GD~I~f~wd~~~~~l~F~vl~r~~~~~~~~~~~~ 148 (155)
+=.++.+|+.||.|.++-+...-++.-.+-..-.+.++.+|.|.
T Consensus 42 ~dA~~lgi~~Gd~V~v~~~~G~~~~~v~~~~~i~~g~v~~~~~~ 85 (120)
T cd00508 42 EDAARLGIKDGDLVRVSSRRGSVVVRARVTDRVRPGTVFMPFHW 85 (120)
T ss_pred HHHHHcCCCCCCEEEEEeCCEEEEEEEEECCCcCCCEEEEeccc
Confidence 67889999999999999876543333333344556677777663
No 18
>cd02781 MopB_CT_Acetylene-hydratase The MopB_CT_Acetylene-hydratase CD contains acetylene hydratase (Ahy) and other related proteins. The acetylene hydratase of Pelobacter acetylenicus is a tungsten iron-sulfur protein involved in the fermentation of acetylene to ethanol and acetate. This CD is of the conserved molybdopterin_binding C-terminal (MopB_CT) region present in many, but not all, MopB homologs.
Probab=65.30 E-value=12 Score=26.78 Aligned_cols=44 Identities=9% Similarity=-0.012 Sum_probs=32.9
Q ss_pred HhhhhhcCCCCCCEEEEEEcCCCCeEEEEEEeecCCCceeeecc
Q 041585 104 ADFVRRRELAAGDEIGMCWDSFYSRFNFSILKRAPAPTIIVQDH 147 (155)
Q Consensus 104 ~~fVr~~~Lk~GD~I~f~wd~~~~~l~F~vl~r~~~~~~~~~~~ 147 (155)
.+=.++.+|+.||.|.++-....-.+.-.+-.+-.+.++.+|.|
T Consensus 39 p~dA~~~gi~~Gd~V~v~s~~G~~~~~v~v~~~i~~g~v~~~~g 82 (130)
T cd02781 39 PETAAKLGIADGDWVWVETPRGRARQKARLTPGIRPGVVRAEHG 82 (130)
T ss_pred HHHHHHcCCCCCCEEEEECCCCEEEEEEEECCCCCCCEEEEecc
Confidence 36789999999999999987655455455555566777778776
No 19
>cd05829 Sortase_E Sortase E (SrtE) is a membrane transpeptidase found in gram-positive bacteria that cleaves surface proteins at a cell sorting motif and catalyzes a transpeptidation reaction in which the surface protein substrate is covalently linked to peptidoglycan for display on the bacterial surface. Sortases are grouped into different classes and subfamilies based on sequence, membrane topology, genomic positioning, and cleavage site preference. The function of Sortase E is unknown. In two different sortase families, the N-terminus either functions as both a signal peptide for secretion and a stop-transfer signal for membrane anchoring, or it contains a signal peptide only and the C-terminus serves as a membrane anchor. Most gram-positive bacteria contain more than one sortase and it is thought that the different sortases anchor different surface protein classes. The sortase domain is a modified beta-barrel flanked by two (SrtA) or three (SrtB) short alpha-helices.
Probab=64.57 E-value=16 Score=27.52 Aligned_cols=43 Identities=23% Similarity=0.259 Sum_probs=31.6
Q ss_pred CCceEEcCC-ch----HhhhhhcCCCCCCEEEEEEcCCCCeEEEEEEee
Q 041585 93 SNSYVLINH-WT----ADFVRRRELAAGDEIGMCWDSFYSRFNFSILKR 136 (155)
Q Consensus 93 ~~syvL~~G-W~----~~fVr~~~Lk~GD~I~f~wd~~~~~l~F~vl~r 136 (155)
.++++|.|+ +. .-|-+=..|++||+|.+... ....+.|.|-..
T Consensus 49 ~Gn~viaGH~~~~g~~~~F~~L~~l~~GD~I~v~~~-~g~~~~Y~V~~~ 96 (144)
T cd05829 49 KGTAVLAGHVDSRGGPAVFFRLGDLRKGDKVEVTRA-DGQTATFRVDRV 96 (144)
T ss_pred CCCEEEEEecCCCCCChhhcchhcCCCCCEEEEEEC-CCCEEEEEEeEE
Confidence 356888766 22 12888899999999999883 456788888553
No 20
>TIGR02609 doc_partner putative addiction module antidote. Members of this protein family are putative addiction module antidote proteins that appear recurringly in two-gene operons with members of the Doc (death-on-curing) family TIGR01550. Members of this family contain a SpoVT/AbrB-like domain (pfam04014). Note that the gene pairs with a member of this family tend to be found on bacterial chromosomes, not on plasmids.
Probab=62.36 E-value=34 Score=22.92 Aligned_cols=37 Identities=16% Similarity=0.179 Sum_probs=26.7
Q ss_pred EEEeCCCCceEEcCCchHhhhhhcCCCCCCEEEEEEcCCCCeE
Q 041585 87 FKKWATSNSYVLINHWTADFVRRRELAAGDEIGMCWDSFYSRF 129 (155)
Q Consensus 87 ~k~w~~~~syvL~~GW~~~fVr~~~Lk~GD~I~f~wd~~~~~l 129 (155)
.++|++ |+.++= -++++..-+|.+||.|.+.-+ ++.+
T Consensus 3 i~k~GN--S~~vtI--Pk~i~~~lgl~~Gd~v~v~~~--~~~i 39 (74)
T TIGR02609 3 IRKVGN--SLVVTL--PKEVLESLGLKEGDTLYVDEE--EGGL 39 (74)
T ss_pred EEEECC--eeEEEE--CHHHHHHcCcCCCCEEEEEEE--CCEE
Confidence 567875 555542 248889999999999988665 4555
No 21
>cd02794 MopB_CT_DmsA-EC The MopB_CT_DmsA-EC CD includes the DmsA enzyme of the dmsABC operon encoding the anaerobic dimethylsulfoxide reductase (DMSOR) of Escherichia coli and other related DMSOR-like enzymes. Unlike other DMSOR-like enzymes, this group has a predicted N-terminal iron-sulfur [4Fe-4S] cluster binding site. This CD is of the conserved molybdopterin_binding C-terminal (MopB_CT) region present in many, but not all, MopB homologs.
Probab=60.26 E-value=17 Score=25.91 Aligned_cols=43 Identities=12% Similarity=0.006 Sum_probs=32.2
Q ss_pred hhhhhcCCCCCCEEEEEEcCCCCeEEEEEEeecCCCceeeecc
Q 041585 105 DFVRRRELAAGDEIGMCWDSFYSRFNFSILKRAPAPTIIVQDH 147 (155)
Q Consensus 105 ~fVr~~~Lk~GD~I~f~wd~~~~~l~F~vl~r~~~~~~~~~~~ 147 (155)
+-.++.+++.||.|.++-....-.+.-.+-..-.+.++.+|.+
T Consensus 37 ~~A~~~gi~~Gd~V~v~s~~g~i~~~a~~~~~v~~g~v~~~~g 79 (121)
T cd02794 37 LDAAARGIKDGDRVLVFNDRGKVIRPVKVTERIMPGVVALPQG 79 (121)
T ss_pred HHHHHcCCCCCCEEEEEcCCceEEEEEEECCCccCCEEEecCc
Confidence 6789999999999999987654444444455666778888764
No 22
>cd04459 Rho_CSD Rho_CSD: Rho protein cold-shock domain (CSD). Rho protein is a transcription termination factor in most bacteria. In bacteria, there are two distinct mechanisms for mRNA transcription termination. In intrinsic termination, RNA polymerase and nascent mRNA are released from DNA template by an mRNA stem loop structure, which resembles the transcription termination mechanism used by eukaryotic pol III. The second mechanism is mediated by Rho factor. Rho factor terminates transcription by using energy from ATP hydrolysis to forcibly dissociate the transcripts from RNA polymerase. Rho protein contains an N-terminal S1-like domain, which binds single-stranded RNA. Rho has a C-terminal ATPase domain which hydrolyzes ATP to provide energy to strip RNA polymerase and mRNA from the DNA template. Rho functions as a homohexamer.
Probab=60.07 E-value=7.5 Score=26.12 Aligned_cols=16 Identities=31% Similarity=0.410 Sum_probs=14.4
Q ss_pred hhhhhcCCCCCCEEEE
Q 041585 105 DFVRRRELAAGDEIGM 120 (155)
Q Consensus 105 ~fVr~~~Lk~GD~I~f 120 (155)
..+|+.+|+.||.|.=
T Consensus 34 ~~Irr~~LR~GD~V~G 49 (68)
T cd04459 34 SQIRRFNLRTGDTVVG 49 (68)
T ss_pred HHHHHhCCCCCCEEEE
Confidence 7899999999998874
No 23
>cd05828 Sortase_D_4 Sortase D (SrtD) is a membrane transpeptidase found in gram-positive bacteria that anchors surface proteins to peptidoglycans of the bacterial cell wall envelope. This involves a transpeptidation reaction in which the surface protein substrate is cleaved at the cell wall sorting signal and covalently linked to peptidoglycan for display on the bacterial surface. Sortases are grouped into different classes and subfamilies based on sequence, membrane topology, genomic positioning, and cleavage site preference. Class D sortases are further classified into subfamilies 4 and 5. This group contains a subset of Class D sortases belonging to subfamily-4. These sortases recognize a unique sorting signal (LPXTA) and they constitute a specialized sorting pathway found in bacilli. Their substrates are predicted to be predominantly enzymes such as 5'-nucleotidases, glycosyl hydrolase, and subtilase.
Probab=59.08 E-value=26 Score=25.56 Aligned_cols=42 Identities=19% Similarity=0.252 Sum_probs=33.4
Q ss_pred CCceEEcCCchHhhhhhcCCCCCCEEEEEEcCCCCeEEEEEEee
Q 041585 93 SNSYVLINHWTADFVRRRELAAGDEIGMCWDSFYSRFNFSILKR 136 (155)
Q Consensus 93 ~~syvL~~GW~~~fVr~~~Lk~GD~I~f~wd~~~~~l~F~vl~r 136 (155)
+++++|.|+=...|-+=..|+.||.|.+... ...+.|.|...
T Consensus 43 ~gn~vIaGH~~~~F~~L~~l~~Gd~i~v~~~--~~~~~Y~V~~~ 84 (127)
T cd05828 43 GGNIVIAGHRDTHFRFLGELEPGDIITLQTL--GGTYTYRVTST 84 (127)
T ss_pred CCcEEEEEeCchhhhChhcCCCCCEEEEEEC--CEEEEEEEeeE
Confidence 4578887763347888899999999999986 78888888664
No 24
>PF10844 DUF2577: Protein of unknown function (DUF2577); InterPro: IPR022555 This family of proteins has no known function
Probab=58.43 E-value=18 Score=25.71 Aligned_cols=29 Identities=14% Similarity=0.182 Sum_probs=21.0
Q ss_pred hhhhcCCCCCCEEEEEEcCCCCeEEEEEEee
Q 041585 106 FVRRRELAAGDEIGMCWDSFYSRFNFSILKR 136 (155)
Q Consensus 106 fVr~~~Lk~GD~I~f~wd~~~~~l~F~vl~r 136 (155)
|.-..+|++||.|.+.....+.+| -|+.|
T Consensus 71 i~~~~~Lk~GD~V~ll~~~~gQ~y--iVlDk 99 (100)
T PF10844_consen 71 ITFTDGLKVGDKVLLLRVQGGQKY--IVLDK 99 (100)
T ss_pred EEEecCCcCCCEEEEEEecCCCEE--EEEEe
Confidence 335578999999999997666655 44543
No 25
>PF00622 SPRY: SPRY domain; InterPro: IPR003877 The SPRY domain is of unknown function. Distant homologues are domains in butyrophilin/marenostrin/pyrin []. Ca2+-release from the sarcoplasmic or endoplasmic reticulum, the intracellular Ca2+ store, is mediated by the ryanodine receptor (RyR) and/or the inositol trisphosphate receptor (IP3R).; GO: 0005515 protein binding; PDB: 2V24_A 3EK9_A 2AFJ_A 2IWG_E 3EMW_A 2WL1_A 3TOJ_B 2VOK_A 2VOL_B 2FNJ_A ....
Probab=57.78 E-value=19 Score=24.92 Aligned_cols=27 Identities=22% Similarity=0.217 Sum_probs=21.7
Q ss_pred CCCC-CCEEEEEEcCCCCeEEEEEEeec
Q 041585 111 ELAA-GDEIGMCWDSFYSRFNFSILKRA 137 (155)
Q Consensus 111 ~Lk~-GD~I~f~wd~~~~~l~F~vl~r~ 137 (155)
..++ ||+||++-|..++.+.|.+-.+.
T Consensus 62 ~~~~~~dvIG~~lD~~~g~l~F~~ng~~ 89 (124)
T PF00622_consen 62 PFQEPGDVIGCGLDLDNGELSFYKNGKF 89 (124)
T ss_dssp TSSTTTSEEEEEEETTTTEEEEEETTEE
T ss_pred ccccCCcEEEEEEeecccEEEEEECCcc
Confidence 3445 99999999999999999864443
No 26
>cd02775 MopB_CT Molybdopterin-Binding, C-terminal (MopB_CT) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and tungsten-containing enzymes, including formate dehydrogenase-H (Fdh-H) and -N (Fdh-N), several forms of nitrate reductase (Nap, Nas, NarG), dimethylsulfoxide reductase (DMSOR), thiosulfate reductase, formylmethanofuran dehydrogenase, and arsenite oxidase. Molybdenum is present in most of these enzymes in the form of molybdopterin, a modified pterin ring with a dithiolene side chain, which is responsible for ligating the Mo. In many bacterial and archaeal species, molybdopterin is in the form of a dinucleotide, with two molybdopterin dinucleotide units per molybdenum. These proteins can function as monomers, heterodimers, or heterotrimers, depending on the protein and organism. Also included in the MopB superfamily is
Probab=56.88 E-value=22 Score=23.88 Aligned_cols=41 Identities=7% Similarity=0.038 Sum_probs=28.7
Q ss_pred hhhhhcCCCCCCEEEEEEcCCCCeEEEEE--EeecCCCceeeecc
Q 041585 105 DFVRRRELAAGDEIGMCWDSFYSRFNFSI--LKRAPAPTIIVQDH 147 (155)
Q Consensus 105 ~fVr~~~Lk~GD~I~f~wd~~~~~l~F~v--l~r~~~~~~~~~~~ 147 (155)
+-+++.+|+.||.|.++-+.. ...+.| -..-...++.++.+
T Consensus 30 ~da~~lgl~~Gd~v~v~~~~g--~~~~~v~~~~~v~~g~v~~~~~ 72 (101)
T cd02775 30 EDAAALGIKDGDLVRVESRRG--SVVLRAKVTDGVPPGVVFLPHG 72 (101)
T ss_pred HHHHHcCCCCCCEEEEEcCCc--EEEEEEEECCCcCCCEEEeeCc
Confidence 678899999999999998754 444444 22334567777765
No 27
>PF10285 Luciferase_cat: Luciferase catalytic domain; InterPro: IPR018804 This entry represents the catalytic domain of dinoflagellate luciferase. Luciferase is involved in catalysing the light emitting reaction in bioluminescence. The structure of this domain has been solved []. The core part of the domain is a 10 stranded beta barrel that is structurally similar to lipocalins and FABP []. ; PDB: 1VPR_A.
Probab=56.37 E-value=13 Score=30.91 Aligned_cols=21 Identities=33% Similarity=0.653 Sum_probs=16.4
Q ss_pred CEEEEEEcCCCCeEEEEEEeec
Q 041585 116 DEIGMCWDSFYSRFNFSILKRA 137 (155)
Q Consensus 116 D~I~f~wd~~~~~l~F~vl~r~ 137 (155)
-.|||||...+++ ||++-+|+
T Consensus 181 rkigffwemesgk-cfrierra 201 (296)
T PF10285_consen 181 RKIGFFWEMESGK-CFRIERRA 201 (296)
T ss_dssp EEEEEEEETTT-B-EEEEEEEE
T ss_pred hheeeEEEecCCc-EEEEeccc
Confidence 4799999977665 89988876
No 28
>COG5569 Uncharacterized conserved protein [Function unknown]
Probab=55.79 E-value=16 Score=26.71 Aligned_cols=27 Identities=15% Similarity=0.399 Sum_probs=22.6
Q ss_pred hhhhhcCCCCCCEEEEEEcCCCCeEEE
Q 041585 105 DFVRRRELAAGDEIGMCWDSFYSRFNF 131 (155)
Q Consensus 105 ~fVr~~~Lk~GD~I~f~wd~~~~~l~F 131 (155)
+=..-.+||+||.|.|-.++.++++..
T Consensus 77 d~a~lsglKeGdkV~fvferv~gk~tv 103 (108)
T COG5569 77 DQAKLSGLKEGDKVEFVFERVNGKLTV 103 (108)
T ss_pred cHHHhhccccCCcEEEEEEeeCCEEEE
Confidence 445667899999999999999998843
No 29
>cd02793 MopB_CT_DMSOR-BSOR-TMAOR The MopB_DMSOR-BSOR-TMAOR CD contains dimethylsulfoxide reductase (DMSOR), biotin sulfoxide reductase (BSOR), trimethylamine N-oxide reductase (TMAOR) and other related proteins. DMSOR always catalyzes the reduction of DMSO to dimethylsulfide, but its cellular location and oligomerization state are organism-dependent. For example, in Rhodobacter sphaeriodes and Rhodobacter capsulatus, it is an 82-kDa monomeric soluble protein found in the periplasmic space; in E. coli, it is membrane-bound and exists as a heterotrimer. BSOR catalyzes the reduction of biotin sulfixode to biotin, and is unique among Mo enzymes because no additional auxiliary proteins or cofactors are required. TMAOR is similar to DMSOR, but its only natural substrate is TMAO.This CD is of the conserved molybdopterin_binding C-terminal (MopB_CT) region present in many, but not all, MopB homologs.
Probab=55.50 E-value=19 Score=26.07 Aligned_cols=43 Identities=12% Similarity=-0.007 Sum_probs=31.6
Q ss_pred hhhhhcCCCCCCEEEEEEcCCCCeEEEEEEeecCCCceeeecc
Q 041585 105 DFVRRRELAAGDEIGMCWDSFYSRFNFSILKRAPAPTIIVQDH 147 (155)
Q Consensus 105 ~fVr~~~Lk~GD~I~f~wd~~~~~l~F~vl~r~~~~~~~~~~~ 147 (155)
+-+.+++|+.||.|.++-+...-.....+-.+-.+.++-++.+
T Consensus 40 ~dA~~~gi~~Gd~V~v~s~~G~~~~~~~~~~~v~~g~v~~~~g 82 (129)
T cd02793 40 ADAAARGIADGDIVRVFNDRGACLAGAVVTDGIMPGVVQLPTG 82 (129)
T ss_pred HHHHHcCCCCCCEEEEEcCCEEEEEEEEECCCcCCCEEEEccc
Confidence 6789999999999999987655444444445556677777765
No 30
>cd02785 MopB_CT_4 The MopB_CT_4 CD includes a group of related uncharacterized bacterial and archaeal molybdopterin-binding oxidoreductase-like domains with a putative N-terminal iron-sulfur [4Fe-4S] cluster binding site and molybdopterin cofactor binding site. This CD is of the conserved molybdopterin_binding C-terminal (MopB_CT) region present in many, but not all, MopB homologs.
Probab=54.37 E-value=26 Score=25.01 Aligned_cols=44 Identities=11% Similarity=0.001 Sum_probs=32.1
Q ss_pred HhhhhhcCCCCCCEEEEEEcCCCCeEEEEEEeecCCCceeeecc
Q 041585 104 ADFVRRRELAAGDEIGMCWDSFYSRFNFSILKRAPAPTIIVQDH 147 (155)
Q Consensus 104 ~~fVr~~~Lk~GD~I~f~wd~~~~~l~F~vl~r~~~~~~~~~~~ 147 (155)
.+-.++.+|+.||.|.++-....-.+...+-.+-...++.++.+
T Consensus 38 p~dA~~~gi~~Gd~V~v~s~~G~i~~~a~~~~~v~~g~v~~~~g 81 (124)
T cd02785 38 PIDAAARGIAHGDLVEVYNDRGSVVCKAKVDDGIQPGVVTAEQG 81 (124)
T ss_pred HHHHHHcCCCCCCEEEEEeCCCEEEEEEEECCCcCCCEEEeecc
Confidence 37789999999999999987654444444445666677777765
No 31
>cd01249 PH_oligophrenin Oligophrenin Pleckstrin homology (PH) domain. Oligophrenin Pleckstrin homology (PH) domain. Oligophrenin is composed of a PH domain, a rhoGAP domain and a proline rich region. Closely related proteins have a C-terminal SH3 domain. PH domains a share little sequence conservation, but all have a common fold, which is electrostatically polarized. PH domains also have diverse functions. They are often involved in targeting proteins to the plasma membrane, but few display strong specificity in lipid binding. Any specificity is usually determined by loop regions or insertions in the N-terminus of the domain, which are not conserved across all PH domains. PH domains are found in cellular signaling proteins such as serine/threonine kinase, tyrosine kinsases, regulators of G-proteins, endocytotic GTPases, adaptors, as well as cytoskeletal associated molecules and in lipid associated enzymes.
Probab=53.90 E-value=23 Score=25.84 Aligned_cols=35 Identities=20% Similarity=0.287 Sum_probs=25.5
Q ss_pred CCCCCEEEE------EEcCCCCeEEEEEEeecCCCceeeec
Q 041585 112 LAAGDEIGM------CWDSFYSRFNFSILKRAPAPTIIVQD 146 (155)
Q Consensus 112 Lk~GD~I~f------~wd~~~~~l~F~vl~r~~~~~~~~~~ 146 (155)
+..++.|++ .-|...++|||.|.....+.++.+|-
T Consensus 48 v~~~e~~~l~sc~~r~~~~~dRRFCFei~~~~~~~~~~lQA 88 (104)
T cd01249 48 VAQDETLTLKSCSRRKTESIDKRFCFDVEVEEKPGVITMQA 88 (104)
T ss_pred cccceEEeeeeccccccCCccceeeEeeeecCCCCeEEEEe
Confidence 455666654 45666799999998777767788884
No 32
>cd05830 Sortase_D_5 Sortase D (SrtD) is a membrane transpeptidase found in gram-positive bacteria that anchors surface proteins to peptidoglycans of the bacterial cell wall envelope. This involves a transpeptidation reaction in which the surface protein substrate is cleaved at the cell wall sorting signal and covalently linked to peptidoglycan for display on the bacterial surface. Sortases are grouped into different classes and subfamilies based on sequence, membrane topology, genomic positioning, and cleavage site preference. Class D sortases are further classified into subfamilies 4 and 5. This group contains a subset of Class D sortases belonging to subfamily-5 represented by Streptomyces avermitilis SAV4337. Subfamily-5 sortases recognize a nonstandard sorting signal (LAXTG) and have replaced Sortase A in some gram-postive bacteria. They may play a housekeeping role in the cell.
Probab=53.85 E-value=33 Score=25.35 Aligned_cols=42 Identities=17% Similarity=0.280 Sum_probs=31.3
Q ss_pred CCceEEcCCchH---hhhhhcCCCCCCEEEEEEcCCCCeEEEEEEee
Q 041585 93 SNSYVLINHWTA---DFVRRRELAAGDEIGMCWDSFYSRFNFSILKR 136 (155)
Q Consensus 93 ~~syvL~~GW~~---~fVr~~~Lk~GD~I~f~wd~~~~~l~F~vl~r 136 (155)
.++++|.|+=.. -|-+-..|+.||.|.+... .+.+.|.|...
T Consensus 44 ~gn~viaGH~~~~~~~F~~L~~l~~Gd~i~v~~~--~~~~~Y~V~~~ 88 (137)
T cd05830 44 VGNFAVAGHRTTYGAPFNDLDKLRPGDKIVVETA--DGWYTYVVRSS 88 (137)
T ss_pred CCcEEEEecCCCCCcccccHhhCCCCCEEEEEEC--CeEEEEEEeEE
Confidence 457888765331 2888899999999999874 55788888665
No 33
>cd02784 MopB_CT_PHLH The MopB_CT_PHLH CD includes a group of related uncharacterized putative hydrogenase-like homologs (PHLH) of molybdopterin binding proteins. This CD is of the PHLH region homologous to the conserved molybdopterin-binding C-terminal (MopB_CT) region present in many, but not all, MopB homologs.
Probab=52.97 E-value=25 Score=26.40 Aligned_cols=43 Identities=9% Similarity=0.002 Sum_probs=33.6
Q ss_pred hhhhhcCCCCCCEEEEEEcCCCCeEEEEEEeecCCCceeeecc
Q 041585 105 DFVRRRELAAGDEIGMCWDSFYSRFNFSILKRAPAPTIIVQDH 147 (155)
Q Consensus 105 ~fVr~~~Lk~GD~I~f~wd~~~~~l~F~vl~r~~~~~~~~~~~ 147 (155)
+=.++++|+.||.|.++-+...-...-.|-.+-.+.++.++++
T Consensus 45 ~dA~~lGI~dGD~V~V~s~~G~i~~~a~vt~~i~pgvV~i~~G 87 (137)
T cd02784 45 RTAEALGLLQGDVVRIRRGGRTIELPVWIQPGHAEGVVLLALG 87 (137)
T ss_pred HHHHHcCCCCCCEEEEEeCCeEEEEEEEECCCcCCCEEEEecc
Confidence 7789999999999999988765445555556777888888765
No 34
>cd02782 MopB_CT_1 The MopB_CT_1 CD includes a group of related uncharacterized bacterial molybdopterin-binding oxidoreductase-like domains with a putative N-terminal iron-sulfur [4Fe-4S] cluster binding site and molybdopterin cofactor binding site. This CD is of the conserved molybdopterin_binding C-terminal (MopB_CT) region present in many, but not all, MopB homologs.
Probab=51.66 E-value=30 Score=24.81 Aligned_cols=43 Identities=12% Similarity=0.050 Sum_probs=30.4
Q ss_pred hhhhhcCCCCCCEEEEEEcCCCCeEEEEEEeecCCCceeeecc
Q 041585 105 DFVRRRELAAGDEIGMCWDSFYSRFNFSILKRAPAPTIIVQDH 147 (155)
Q Consensus 105 ~fVr~~~Lk~GD~I~f~wd~~~~~l~F~vl~r~~~~~~~~~~~ 147 (155)
+=.++.+|+.||.|.++-....-.+.-.+-..-...++.+|.|
T Consensus 40 ~dA~~~gi~~Gd~V~v~s~~g~~~~~~~~~~~v~~g~v~~~~g 82 (129)
T cd02782 40 DDAAALGLADGDKVRVTSAAGSVEAEVEVTDDMMPGVVSLPHG 82 (129)
T ss_pred HHHHHcCCCCCCEEEEEcCCCeEEEEEEECCCcCCCeEEeecC
Confidence 7789999999999999987544344334444555667777765
No 35
>PF04014 Antitoxin-MazE: Antidote-toxin recognition MazE; InterPro: IPR007159 This domain is found in AbrB from Bacillus subtilis. The product of the abrB gene is an ambiactive repressor and activator of the transcription of genes expressed during the transition state between vegetative growth and the onset of stationary phase and sporulation []. AbrB is thought to interact directly with the transcription initiation regions of genes under its control []. AbrB contains a helix-turn-helix structure, but this domain ends before the helix-turn-helix begins []. The product of the B. subtilis gene spoVT is another member of this family and is also a transcriptional regulator []. DNA-binding activity in this AbrB homologue requires hexamerisation []. Another family member has been isolated from the Sulfolobus solfataricus and has been identified as a homologue of bacterial repressor-like proteins. The Escherichia coli family member SohA or Prl1F appears to be bifunctional and is able to regulate its own expression as well as relieve the export block imposed by high-level synthesis of beta-galactosidase hybrid proteins [].; PDB: 2L66_A 2GLW_A 3TND_D 2W1T_B 2RO5_B 2FY9_A 2RO3_B 1UB4_C 3ZVK_G 1YFB_B ....
Probab=51.29 E-value=52 Score=19.76 Aligned_cols=24 Identities=17% Similarity=0.253 Sum_probs=19.8
Q ss_pred hhhhhcCCCCCCEEEEEEcCCCCeE
Q 041585 105 DFVRRRELAAGDEIGMCWDSFYSRF 129 (155)
Q Consensus 105 ~fVr~~~Lk~GD~I~f~wd~~~~~l 129 (155)
++.+..+|++||.|.+.-+... .+
T Consensus 14 ~~~~~l~l~~Gd~v~i~~~~~g-~i 37 (47)
T PF04014_consen 14 EIREKLGLKPGDEVEIEVEGDG-KI 37 (47)
T ss_dssp HHHHHTTSSTTTEEEEEEETTS-EE
T ss_pred HHHHHcCCCCCCEEEEEEeCCC-EE
Confidence 7789999999999999887443 45
No 36
>PF07865 DUF1652: Protein of unknown function (DUF1652); InterPro: IPR012448 The proteins in this entry have not been characterised.
Probab=50.90 E-value=30 Score=23.36 Aligned_cols=34 Identities=15% Similarity=0.286 Sum_probs=23.6
Q ss_pred HHHHHcCCCCCCccccccccCCCCCeEEEEEECCCCcE
Q 041585 45 RLAERYVMPFLDEASRSEVIGNPEGLRVSVWDCDTNSM 82 (155)
Q Consensus 45 ~~~e~~ilP~l~~~~~~~~~~~~~gi~V~v~D~dt~~~ 82 (155)
+.+|.+|+|.-= +=.+..+..++|.++|..+|..
T Consensus 6 ~iiE~aflPl~C----~ct~~~~~smtvrl~d~~sg~~ 39 (69)
T PF07865_consen 6 QIIEQAFLPLRC----ECTIAPDGSMTVRLFDPASGRV 39 (69)
T ss_pred HHHHHcCCCcee----EEEECCCCcEEEEEecCCCCcE
Confidence 457889888622 1223445679999999988864
No 37
>cd02789 MopB_CT_FmdC-FwdD The MopB_FmdC-FwdD CD includes the C-terminus of subunit C of molybdenum formylmethanofuran dehydrogenase (FmdC) and subunit D of tungsten formylmethanofuran dehydrogenase (FwdD), and other related proteins. Formylmethanofuran dehydrogenase catalyzes the first step in methane formation from CO2 in methanogenic archaea and some eubacteria. Members of this CD belong to the molybdopterin_binding superfamily of proteins. This CD is of the conserved molybdopterin_binding C-terminal (MopB_CT) region present in many, but not all, MopB homologs.
Probab=50.46 E-value=29 Score=24.54 Aligned_cols=43 Identities=7% Similarity=-0.063 Sum_probs=29.4
Q ss_pred hhhhhcCCCCCCEEEEEEcCCCCeEEEEEEeecCCCceeeecc
Q 041585 105 DFVRRRELAAGDEIGMCWDSFYSRFNFSILKRAPAPTIIVQDH 147 (155)
Q Consensus 105 ~fVr~~~Lk~GD~I~f~wd~~~~~l~F~vl~r~~~~~~~~~~~ 147 (155)
+-.++.+|+.||.|.++-....-.+...+-..-...++-+|.|
T Consensus 38 ~dA~~lgi~~Gd~V~v~~~~G~v~~~v~~~~~v~~g~v~~~~g 80 (106)
T cd02789 38 EDYKLLGKPEGDKVKVTSEFGEVVVFAKENEGVPEGMVFIPMG 80 (106)
T ss_pred HHHHHcCCCCCCEEEEEcCCEEEEEEEEECCCCCCCEEEEecc
Confidence 6789999999999999976543333333333455666777765
No 38
>COG0853 PanD Aspartate 1-decarboxylase [Coenzyme metabolism]
Probab=49.84 E-value=1.1e+02 Score=23.08 Aligned_cols=75 Identities=15% Similarity=0.213 Sum_probs=50.3
Q ss_pred EEEeecCCCCCCCCEEeehHHHHHc-CCCCCCccccccccCCCCCeEEEEEECCCCcEEEEEEEEeCC--CCceEEcCCc
Q 041585 26 TKILTRSDLGHLSRLLVQTRLAERY-VMPFLDEASRSEVIGNPEGLRVSVWDCDTNSMHRLVFKKWAT--SNSYVLINHW 102 (155)
Q Consensus 26 kK~LT~SDV~~~~RLvLPk~~~e~~-ilP~l~~~~~~~~~~~~~gi~V~v~D~dt~~~w~~~~k~w~~--~~syvL~~GW 102 (155)
+-+.|..|++..|-+.|-.+.++.- |+ ++-.|.+|+.+.|...+- |-+-+. ++--.|+|
T Consensus 11 ratVT~A~L~Y~GSitID~dlldaagil---------------e~EkV~I~N~nNGaRf~T-YvI~g~rGSg~I~lNG-- 72 (126)
T COG0853 11 RATVTEADLNYVGSITIDEDLLDAAGIL---------------ENEKVDIVNVNNGARFST-YVIAGERGSGVICLNG-- 72 (126)
T ss_pred eeEEeecccceEEeEEECHHHHhhcCCC---------------CCceEEEEECCCCcEEEE-EEEEccCCCcEEEech--
Confidence 5678999998889999988888742 33 334678888877764432 233222 34466665
Q ss_pred hHhhhhhcCCCCCCEEEEEE
Q 041585 103 TADFVRRRELAAGDEIGMCW 122 (155)
Q Consensus 103 ~~~fVr~~~Lk~GD~I~f~w 122 (155)
. -.|-.++||.|.+..
T Consensus 73 A----AArl~~~GD~VII~s 88 (126)
T COG0853 73 A----AARLVQVGDLVIIMS 88 (126)
T ss_pred H----HHhhCCCCCEEEEEE
Confidence 2 567789999888753
No 39
>cd06166 Sortase_D_5 Sortase D (SrtD) is a membrane transpeptidase found in gram-positive bacteria that anchors surface proteins to peptidoglycans of the bacterial cell wall envelope. This involves a transpeptidation reaction in which the surface protein substrate is cleaved at the cell wall sorting signal and covalently linked to peptidoglycan for display on the bacterial surface. Sortases are grouped into different classes and subfamilies based on sequence, membrane topology, genomic positioning, and cleavage site preference. Class D sortases are further classified into subfamilies 4 and 5. This group contains a subset of Class D sortases belonging to subfamily-5, represented by Clostridium perfringens CPE2315. Subfamily-5 sortases recognize a nonstandard sorting signal (LAXTG) and have replaced Sortase A in some gram-postive bacteria. They may play a housekeeping role in the cell.
Probab=49.06 E-value=37 Score=24.67 Aligned_cols=40 Identities=23% Similarity=0.413 Sum_probs=29.7
Q ss_pred CceEEcCCchH----hhhhhcCCCCCCEEEEEEcCCCCeEEEEEEe
Q 041585 94 NSYVLINHWTA----DFVRRRELAAGDEIGMCWDSFYSRFNFSILK 135 (155)
Q Consensus 94 ~syvL~~GW~~----~fVr~~~Lk~GD~I~f~wd~~~~~l~F~vl~ 135 (155)
++++|.|+=.. -|-+=..|+.||.|.+... ...+.|.|-+
T Consensus 43 gn~viaGH~~~~~~~~F~~L~~l~~Gd~v~v~~~--~~~~~Y~V~~ 86 (126)
T cd06166 43 GNFAIAGHRSYTYGRIFNRLDEVEKGDEIKVTTK--NGTYKYKITS 86 (126)
T ss_pred ceEEEEeCcCCCCCcccCChHHCCCCCEEEEEEC--CEEEEEEEEE
Confidence 56777664221 4778888999999999885 5688888855
No 40
>cd02791 MopB_CT_Nitrate-R-NapA-like Nitrate reductases, NapA (Nitrate-R-NapA), NasA, and NarB catalyze the reduction of nitrate to nitrite. Monomeric Nas is located in the cytoplasm and participates in nitrogen assimilation. Dimeric Nap is located in the periplasm and is coupled to quinol oxidation via a membrane-anchored tetraheme cytochrome. This CD (MopB_CT_Nitrate-R-Nap) is of the conserved molybdopterin_binding C-terminal (MopB_CT) region present in many, but not all, MopB homologs
Probab=48.23 E-value=34 Score=24.06 Aligned_cols=43 Identities=16% Similarity=0.136 Sum_probs=27.8
Q ss_pred hhhhhcCCCCCCEEEEEEcCCCCeEEEEEEeecCCCceeeecc
Q 041585 105 DFVRRRELAAGDEIGMCWDSFYSRFNFSILKRAPAPTIIVQDH 147 (155)
Q Consensus 105 ~fVr~~~Lk~GD~I~f~wd~~~~~l~F~vl~r~~~~~~~~~~~ 147 (155)
+=.++.+++.||.|.++-+...-.+.-.+-..-...++-+|.+
T Consensus 42 ~dA~~lgi~~Gd~V~v~~~~G~~~~~v~~~~~i~~g~v~~~~g 84 (122)
T cd02791 42 EDAARLGLKEGDLVRVTSRRGEVVLRVRVTDRVRPGEVFVPMH 84 (122)
T ss_pred HHHHHcCCCCCCEEEEEcCCEEEEEEEEECCCcCCCeEEEecc
Confidence 7789999999999999988654333222222334455555544
No 41
>cd02783 MopB_CT_2 The MopB_CT_2 CD includes a group of related uncharacterized bacterial and archaeal molybdopterin-binding oxidoreductase-like domains with a putative N-terminal iron-sulfur [4Fe-4S] cluster binding site and molybdopterin cofactor binding site. This CD is of the conserved molybdopterin_binding C-terminal (MopB_CT) region present in many, but not all, MopB homologs.
Probab=47.13 E-value=35 Score=25.79 Aligned_cols=42 Identities=7% Similarity=-0.092 Sum_probs=29.0
Q ss_pred HhhhhhcCCCCCCEEEEEEcCCCCeEEEEEEeecCCCceeee
Q 041585 104 ADFVRRRELAAGDEIGMCWDSFYSRFNFSILKRAPAPTIIVQ 145 (155)
Q Consensus 104 ~~fVr~~~Lk~GD~I~f~wd~~~~~l~F~vl~r~~~~~~~~~ 145 (155)
.+-+++++|+.||.|.++-....-++.-.+-..-.+.++-++
T Consensus 38 p~dA~~~GI~dGd~V~v~s~~G~~~~~a~v~~~i~~g~v~~~ 79 (156)
T cd02783 38 PKTAKELGIKDGDWVWVESVNGRVKGQARFTETVEPGTVWTW 79 (156)
T ss_pred HHHHHHcCCCCCCEEEEEcCCeeEEEEEEECCCcCCCeEEEE
Confidence 378899999999999999876443444444445555666543
No 42
>cd06555 ASCH_PF0470_like ASC-1 homology domain, subfamily similar to Pyrococcus furiosus Pf0470. The ASCH domain, a small beta-barrel domain found in all three kingdoms of life, resembles the RNA-binding PUA domain and may also interact with RNA. ASCH has been proposed to function as an RNA-binding domain during coactivation, RNA-processing and the regulation of prokaryotic translation.
Probab=44.06 E-value=48 Score=24.21 Aligned_cols=30 Identities=13% Similarity=0.151 Sum_probs=20.9
Q ss_pred hhcCCCCCCEEEEEEcCCCCeEEEEEEeec
Q 041585 108 RRRELAAGDEIGMCWDSFYSRFNFSILKRA 137 (155)
Q Consensus 108 r~~~Lk~GD~I~f~wd~~~~~l~F~vl~r~ 137 (155)
++++++.||.|.|.--..+..+...|..-.
T Consensus 28 kr~~ikvGD~I~f~~~~~~~~l~v~V~~i~ 57 (109)
T cd06555 28 KRQQIKVGDKILFNDLDTGQQLLVKVVDIR 57 (109)
T ss_pred chhcCCCCCEEEEEEcCCCcEEEEEEEEEE
Confidence 346899999999964333567777776543
No 43
>PRK09798 antitoxin MazE; Provisional
Probab=44.03 E-value=49 Score=22.83 Aligned_cols=44 Identities=16% Similarity=0.297 Sum_probs=33.1
Q ss_pred EEEEEeCCCCceEEcCCchHhhhhhcCCCCCCEEEEEEcCCCCeEEEEEEeec
Q 041585 85 LVFKKWATSNSYVLINHWTADFVRRRELAAGDEIGMCWDSFYSRFNFSILKRA 137 (155)
Q Consensus 85 ~~~k~w~~~~syvL~~GW~~~fVr~~~Lk~GD~I~f~wd~~~~~l~F~vl~r~ 137 (155)
..+++|++|.---|-. .|++.-+|..||.|.+--. ++++ ||+..
T Consensus 4 ~~v~KwGNS~~vRIPk----~~l~~l~l~~g~~vei~v~--~~~i---iI~p~ 47 (82)
T PRK09798 4 SSVKRWGNSPAVRIPA----TLMQALNLNIDDEVKIDLV--DGKL---IIEPV 47 (82)
T ss_pred eEEEEEcCcceEEcCH----HHHHHcCCCCCCEEEEEEE--CCEE---EEEEC
Confidence 4678998765555543 8999999999999998875 4666 55543
No 44
>PF12158 DUF3592: Protein of unknown function (DUF3592); InterPro: IPR021994 This family of proteins is functionally uncharacterised.This family of proteins is found in bacteria, archaea, eukaryotes and viruses. Proteins in this family are typically between 150 and 242 amino acids in length.
Probab=43.96 E-value=1.2e+02 Score=21.75 Aligned_cols=49 Identities=12% Similarity=0.024 Sum_probs=29.6
Q ss_pred cEEEEEEEEeCC-CCceE-EcCCchHhhhhhcCCCCCCEEEEEEcCCCCeE
Q 041585 81 SMHRLVFKKWAT-SNSYV-LINHWTADFVRRRELAAGDEIGMCWDSFYSRF 129 (155)
Q Consensus 81 ~~w~~~~k~w~~-~~syv-L~~GW~~~fVr~~~Lk~GD~I~f~wd~~~~~l 129 (155)
..+...+.+... ...|- +..++....-...+++.||.|.+|-|+.+..-
T Consensus 59 ~~y~~~v~y~~~~G~~~~~~~~~~~~~~~~~~~~~~G~~V~V~Y~P~~P~~ 109 (148)
T PF12158_consen 59 SSYRPVVEYTYQDGRTYSRFYSGSDNFGSYWPKYPIGDTVTVYYNPNNPEE 109 (148)
T ss_pred eEEEEEEEEEECCCcEEEEeccCCcccccCCccCCCcCEEEEEECCcCCCe
Confidence 455444444433 23466 66664411223345889999999999987554
No 45
>COG4043 Preprotein translocase subunit Sec61beta [Intracellular trafficking, secretion, and vesicular transport]
Probab=43.09 E-value=18 Score=26.54 Aligned_cols=26 Identities=19% Similarity=0.395 Sum_probs=19.4
Q ss_pred hhhhcCCCCCCEEEEEEcCCCCeEEEEEEe
Q 041585 106 FVRRRELAAGDEIGMCWDSFYSRFNFSILK 135 (155)
Q Consensus 106 fVr~~~Lk~GD~I~f~wd~~~~~l~F~vl~ 135 (155)
.-++++.+.||+|.|-- .++...|+.
T Consensus 28 d~krr~ik~GD~IiF~~----~~l~v~V~~ 53 (111)
T COG4043 28 DPKRRQIKPGDKIIFNG----DKLKVEVID 53 (111)
T ss_pred CHhhcCCCCCCEEEEcC----CeeEEEEEE
Confidence 34788999999999965 466666654
No 46
>cd02777 MopB_CT_DMSOR-like The MopB_CT_DMSOR-like CD contains dimethylsulfoxide reductase (DMSOR), biotin sulfoxide reductase (BSOR), trimethylamine N-oxide reductase (TMAOR) and other related proteins. DMSOR always catalyzes the reduction of DMSO to dimethylsulfide, but its cellular location and oligomerization state are organism-dependent. For example, in Rhodobacter sphaeriodes and Rhodobacter capsulatus, it is an 82-kDa monomeric soluble protein found in the periplasmic space; in E. coli, it is membrane-bound and exists as a heterotrimer. BSOR catalyzes the reduction of biotin sulfixode to biotin, and is unique among Mo enzymes because no additional auxiliary proteins or cofactors are required. TMAOR is similar to DMSOR, but its only natural substrate is TMAO. Also included in this group is the pyrogallol-phloroglucinol transhydroxylase from Pelobacter acidigallici. This CD is of the conserved molybdopterin_binding C-terminal (MopB_CT) region present in many, but not all, MopB hom
Probab=40.93 E-value=46 Score=23.86 Aligned_cols=43 Identities=12% Similarity=0.014 Sum_probs=29.1
Q ss_pred hhhhhcCCCCCCEEEEEEcCCCCeEEEEEEeecCCCceeeecc
Q 041585 105 DFVRRRELAAGDEIGMCWDSFYSRFNFSILKRAPAPTIIVQDH 147 (155)
Q Consensus 105 ~fVr~~~Lk~GD~I~f~wd~~~~~l~F~vl~r~~~~~~~~~~~ 147 (155)
+-.++.+|+.||.|.++-....-...-.+-..-...++-+|.+
T Consensus 41 ~dA~~lgi~~Gd~V~v~s~~g~i~~~v~i~~~v~~g~v~~~~g 83 (127)
T cd02777 41 LDAAARGIKDGDIVRVFNDRGAVLAGARVTDRIMPGVVALPEG 83 (127)
T ss_pred HHHHHcCCCCCCEEEEEcCCeEEEEEEEECCCcCCCEEEeCcc
Confidence 7789999999999999976543333333333444566777765
No 47
>PF03120 DNA_ligase_OB: NAD-dependent DNA ligase OB-fold domain; InterPro: IPR004150 DNA ligases catalyse the crucial step of joining the breaks in duplex DNA during DNA replication, repair and recombination, utilizing either ATP or NAD(+) as a cofactor []. This family is a small domain found after the adenylation domain DNA_ligase_N in NAD+-dependent ligases (IPR001679 from INTERPRO). OB-fold domains generally are involved in nucleic acid binding.; GO: 0003911 DNA ligase (NAD+) activity, 0006260 DNA replication, 0006281 DNA repair; PDB: 2OWO_A 1TAE_A 3UQ8_A 1DGS_A 1V9P_B 3SGI_A.
Probab=40.39 E-value=27 Score=24.34 Aligned_cols=19 Identities=16% Similarity=0.475 Sum_probs=15.7
Q ss_pred hhhhhcCCCCCCEEEEEEc
Q 041585 105 DFVRRRELAAGDEIGMCWD 123 (155)
Q Consensus 105 ~fVr~~~Lk~GD~I~f~wd 123 (155)
+++++++|..||.|.++.-
T Consensus 43 ~~i~~~~i~~Gd~V~V~ra 61 (82)
T PF03120_consen 43 DYIKELDIRIGDTVLVTRA 61 (82)
T ss_dssp HHHHHTT-BBT-EEEEEEE
T ss_pred HHHHHcCCCCCCEEEEEEC
Confidence 8999999999999999874
No 48
>PF02643 DUF192: Uncharacterized ACR, COG1430; InterPro: IPR003795 This entry describes proteins of unknown function.; PDB: 3M7A_B 3PJY_B.
Probab=40.29 E-value=53 Score=23.44 Aligned_cols=24 Identities=25% Similarity=0.480 Sum_probs=15.8
Q ss_pred ceEEcCCchHhhhhhcCCCCCCEEEE
Q 041585 95 SYVLINHWTADFVRRRELAAGDEIGM 120 (155)
Q Consensus 95 syvL~~GW~~~fVr~~~Lk~GD~I~f 120 (155)
.|||+- ...++.+.++++||.|.+
T Consensus 83 ~~vLE~--~aG~~~~~~i~~Gd~v~~ 106 (108)
T PF02643_consen 83 RYVLEL--PAGWFEKLGIKVGDRVRI 106 (108)
T ss_dssp CEEEEE--ETTHHHHHT--TT-EEE-
T ss_pred CEEEEc--CCCchhhcCCCCCCEEEe
Confidence 589875 346679999999999976
No 49
>smart00536 AXH domain in Ataxins and HMG containing proteins. unknown function
Probab=39.93 E-value=92 Score=23.17 Aligned_cols=50 Identities=16% Similarity=0.124 Sum_probs=30.4
Q ss_pred CCeEEEEEECCCCcEEEEEEEEeCCCCceEEcCCchHhh----------hhhcCCCCCCEEE
Q 041585 68 EGLRVSVWDCDTNSMHRLVFKKWATSNSYVLINHWTADF----------VRRRELAAGDEIG 119 (155)
Q Consensus 68 ~gi~V~v~D~dt~~~w~~~~k~w~~~~syvL~~GW~~~f----------Vr~~~Lk~GD~I~ 119 (155)
.++.....++++. .-.+....-....-||...||. -| +..+.|+.||++.
T Consensus 52 ~~~v~itF~~g~~-~~~v~~ev~~eHPfFV~gqGWs-Sc~P~lT~~~ygL~C~~L~vGDVCl 111 (116)
T smart00536 52 PSVVTLTFDPGVE-DALLTVECQVEHPFFVKGKGWS-SCYPSLTVQLYGLPCCELQVGDVCL 111 (116)
T ss_pred cceEEEEEEecCc-cceEEEEEecCCCeEEcCcccc-ccChhhhhhhcCCcceecccCCEEe
Confidence 4444444554432 2344444444566799999998 44 2345688999875
No 50
>PF11948 DUF3465: Protein of unknown function (DUF3465); InterPro: IPR021856 This family of proteins are functionally uncharacterised. This protein is found in bacteria. Proteins in this family are typically between 131 to 151 amino acids in length. This protein has a conserved HWTH sequence motif.
Probab=39.30 E-value=47 Score=25.23 Aligned_cols=66 Identities=20% Similarity=0.291 Sum_probs=38.1
Q ss_pred CCCeEEEEE-ECCCCcEEEEEEEEeCCCCc-eEEcCCchHhhh-hhcCCCCCCEEEE----EEcCCCCeEEEEEEe
Q 041585 67 PEGLRVSVW-DCDTNSMHRLVFKKWATSNS-YVLINHWTADFV-RRRELAAGDEIGM----CWDSFYSRFNFSILK 135 (155)
Q Consensus 67 ~~gi~V~v~-D~dt~~~w~~~~k~w~~~~s-yvL~~GW~~~fV-r~~~Lk~GD~I~f----~wd~~~~~l~F~vl~ 135 (155)
..|..+.+. |-.+|..|.--+-+=.+..+ .+-.+ . +.. |--+|++||.|.| +|++..+..++....
T Consensus 41 g~G~V~~vLpdd~~GsrHQ~Fiv~l~~g~tllIahN--I-Dlaprip~l~~GD~V~f~GeYe~n~kggvIHWTH~d 113 (131)
T PF11948_consen 41 GCGTVVKVLPDDNKGSRHQRFIVRLSSGQTLLIAHN--I-DLAPRIPWLQKGDQVEFYGEYEWNPKGGVIHWTHHD 113 (131)
T ss_pred ccEEEEEECcccCCCCcceEEEEEeCCCCEEEEEec--c-CccccCcCcCCCCEEEEEEEEEECCCCCEEEeeccC
Confidence 367666664 32345553322222222233 33332 3 443 4456999999998 488888888888765
No 51
>PF03221 HTH_Tnp_Tc5: Tc5 transposase DNA-binding domain; InterPro: IPR006600 This entry represents a DNA-binding helix-turn-helix domain found in the pogo family of transposable elements, the centromere protein Cenp-B, and yeast PCD2. There is extensive sequence similarity between Cenp-B and transposase proteins encoded by the pogo superfamily of transposable elements, which includes the human Tigger and Jerky elements []. The HTH domain is composed of three alpha-helices, with the second and third helices connected via a turn comprise the helix-turn-helix motif. Helix 3 is termed the recognition helix as it binds the DNA major groove, as in other HTHs []. This conserved DNA-binding domain is found in the following proteins: Cenp-B (major centromere autoantigen B or centromere protein B), which appears to organise arrays of centromere satellite DNA into a higher order structure that then direct centromere formation and kinetochore assembly in mammalian chromosomes. The N terminus of Cenp-B contains two DNA-binding HTH domains, which bind to adjacent major grooves of DNA: a psq-type HTH domain followed by a CenpB-type HTH domain, which together bind specifically to the Cenp-B box, which occurs in alpha-satellite DNA in human centromeres []. Pogo family transposable elements includes both Tigger and Jerky elements []. Pogo contains two open reading frames flanked by inverted repeats. The N-terminal region of pogo transposase contains a Cenp-B-type HTH DNA-binding domain []. Mammalian jerky protein, involved in epileptic seizures in mice []. PDC2 (Pyruvate DeCarboxylase 2), which is a transcription factor required for the synthesis of the glycolytic enzyme pyruvate decarboxylase, required for high level expression of both the THI and the PDC genes. PDC2 may be important for a high basal level of PDC gene expression or play a positive role in the autoregulation control of PDC1 and PDC5 [, ]. ; PDB: 1HLV_A 1IUF_A.
Probab=39.17 E-value=12 Score=23.53 Aligned_cols=21 Identities=14% Similarity=0.425 Sum_probs=13.3
Q ss_pred CCceEEcCCchHhhhhhcCCC
Q 041585 93 SNSYVLINHWTADFVRRRELA 113 (155)
Q Consensus 93 ~~syvL~~GW~~~fVr~~~Lk 113 (155)
...+.++.||...|.++++|+
T Consensus 43 ~~~~~~s~~W~~~F~~Rh~i~ 63 (66)
T PF03221_consen 43 PPEFKASKGWLDRFKKRHGIK 63 (66)
T ss_dssp -TT-S--CHHHHHHHHHTS--
T ss_pred cCcCCcccHHHHHHHHHcCCC
Confidence 346888899999999999876
No 52
>smart00449 SPRY Domain in SPla and the RYanodine Receptor. Domain of unknown function. Distant homologues are domains in butyrophilin/marenostrin/pyrin homologues.
Probab=38.60 E-value=54 Score=22.73 Aligned_cols=24 Identities=25% Similarity=0.223 Sum_probs=20.8
Q ss_pred CCCEEEEEEcCCCCeEEEEEEeec
Q 041585 114 AGDEIGMCWDSFYSRFNFSILKRA 137 (155)
Q Consensus 114 ~GD~I~f~wd~~~~~l~F~vl~r~ 137 (155)
+||+||++-|..++.+.|....+.
T Consensus 65 ~gd~iGv~lD~~~g~l~F~~ng~~ 88 (122)
T smart00449 65 PGDVIGCFLDLEAGTISFYKNGKY 88 (122)
T ss_pred CCCEEEEEEECCCCEEEEEECCCE
Confidence 499999999999999999876554
No 53
>cd01752 PLAT_polycystin PLAT/LH2 domain of polycystin-1 like proteins. Polycystins are a large family of membrane proteins composed of multiple domains, present in fish, invertebrates, mammals, and humans that are widely expressed in various cell types and whose biological functions remain poorly defined. In human, mutations in polycystin-1 (PKD1) and polycystin-2 (PKD2) have been shown to be the cause for autosomal dominant polycystic kidney disease (ADPKD). The generally proposed function of PLAT/LH2 domains is to mediate interaction with lipids or membrane bound proteins.
Probab=38.57 E-value=40 Score=24.32 Aligned_cols=22 Identities=27% Similarity=0.435 Sum_probs=18.2
Q ss_pred EEEEEECCCCcEEEEEEEEeCC
Q 041585 71 RVSVWDCDTNSMHRLVFKKWAT 92 (155)
Q Consensus 71 ~V~v~D~dt~~~w~~~~k~w~~ 92 (155)
.|.|.|..+++.|.|.+.+|-.
T Consensus 84 ~V~V~~~~t~~~~~F~~~rWl~ 105 (120)
T cd01752 84 RVIVRDLQTGKKWFFLCNDWLS 105 (120)
T ss_pred EEEEEECCCCcEEEEEeCcEEC
Confidence 5778888889999999998843
No 54
>COG2002 AbrB Regulators of stationary/sporulation gene expression [Transcription]
Probab=37.99 E-value=84 Score=21.63 Aligned_cols=32 Identities=19% Similarity=0.255 Sum_probs=25.3
Q ss_pred hhhhhcCCCCCCEEEEEEcCCCCeEEEEEEeecCC
Q 041585 105 DFVRRRELAAGDEIGMCWDSFYSRFNFSILKRAPA 139 (155)
Q Consensus 105 ~fVr~~~Lk~GD~I~f~wd~~~~~l~F~vl~r~~~ 139 (155)
.+-+..++++||.+.++-+...++. +|++..+
T Consensus 21 eiR~~lgi~~Gd~lei~~~~~~~~i---vl~k~~~ 52 (89)
T COG2002 21 EIREALGIKEGDVLEIIVDGDGGRI---VLKKYKP 52 (89)
T ss_pred HHHHHhCCCCCCEEEEEEeCCCCEE---EEEECCc
Confidence 3448899999999999998766664 7777765
No 55
>cd02787 MopB_CT_ydeP The MopB_CT_ydeP CD includes a group of related uncharacterized bacterial molybdopterin-binding oxidoreductase-like domains with a putative molybdopterin cofactor binding site. This CD is of the conserved molybdopterin_binding C-terminal (MopB_CT) region present in many, but not all, MopB homologs.
Probab=36.70 E-value=1e+02 Score=21.50 Aligned_cols=30 Identities=20% Similarity=0.012 Sum_probs=23.2
Q ss_pred hhhhhcCCCCCCEEEEEEcCCCCeEEEEEE
Q 041585 105 DFVRRRELAAGDEIGMCWDSFYSRFNFSIL 134 (155)
Q Consensus 105 ~fVr~~~Lk~GD~I~f~wd~~~~~l~F~vl 134 (155)
+=.++.+|+.||.|.++-....-.+.-.+-
T Consensus 38 ~dA~~lgI~dGd~V~v~s~~G~i~~~a~v~ 67 (112)
T cd02787 38 DDIARLGLKAGDRVDLESAFGDGQGRIVRG 67 (112)
T ss_pred HHHHHhCCCCCCEEEEEecCCCCeEEEEec
Confidence 678999999999999998876555444443
No 56
>cd01753 PLAT_LOX PLAT domain of 12/15-lipoxygenase. As a unique subfamily of the mammalian lipoxygenases, they catalyze enzymatic lipid peroxidation in complex biological structures via direct dioxygenation of phospholipids and cholesterol esters of biomembranes and plasma lipoproteins. Both types of enzymes are cytosolic but need this domain to access their sequestered membrane or micelle bound substrates.
Probab=36.02 E-value=45 Score=24.02 Aligned_cols=29 Identities=10% Similarity=0.129 Sum_probs=20.5
Q ss_pred EEEEEECCCCcEEEEEEEEeCC-CCceEEcC
Q 041585 71 RVSVWDCDTNSMHRLVFKKWAT-SNSYVLIN 100 (155)
Q Consensus 71 ~V~v~D~dt~~~w~~~~k~w~~-~~syvL~~ 100 (155)
.|.|.|.. +++|.|-|.+|-. +..+.|..
T Consensus 83 ~V~V~~~~-~~~~~F~c~rWl~~~~~~~~~~ 112 (113)
T cd01753 83 YITVTGPG-GDEYHFPCYRWIEGYGTLELRE 112 (113)
T ss_pred EEEEEcCC-CCEEEEEhHHeECCCCEEEecC
Confidence 45666865 8899999999854 44566654
No 57
>cd02776 MopB_CT_Nitrate-R-NarG-like Respiratory nitrate reductase A (NarGHI), alpha chain (NarG) and related proteins. Under anaerobic conditions in the presence of nitrate, E. coli synthesizes the cytoplasmic membrane-bound quinol-nitrate oxidoreductase (NarGHI), which reduces nitrate to nitrite and forms part of a redox loop generating a proton-motive force. Found in prokaryotes and some archaea, NarGHI usually functions as a heterotrimer. The alpha chain contains the molybdenum cofactor-containing Mo-bisMGD catalytic subunit. This CD (MopB_CT_Nitrate-R-NarG-like) is of the conserved molybdopterin_binding C-terminal (MopB_CT) region present in many, but not all, MopB homologs.
Probab=35.36 E-value=70 Score=23.87 Aligned_cols=42 Identities=12% Similarity=0.034 Sum_probs=29.0
Q ss_pred hhhhhcCCCCCCEEEEEEcCCCCeEEEEEEeecCCCceeeec
Q 041585 105 DFVRRRELAAGDEIGMCWDSFYSRFNFSILKRAPAPTIIVQD 146 (155)
Q Consensus 105 ~fVr~~~Lk~GD~I~f~wd~~~~~l~F~vl~r~~~~~~~~~~ 146 (155)
+-.++++|+.||.|.++-+...-.+.-.+-..-.+.++-+++
T Consensus 38 ~dA~~lgI~dGd~V~v~~~~G~v~~~a~v~~~i~~g~v~~~~ 79 (141)
T cd02776 38 KDAAELGIKDNDWVEVFNDNGVVVARAKVSPRIPRGTVFMYH 79 (141)
T ss_pred HHHHHcCCCCCCEEEEEeCCeEEEEEEEECCCcCCCeEEEec
Confidence 678999999999999998765444444443444555666653
No 58
>PRK11507 ribosome-associated protein; Provisional
Probab=34.09 E-value=32 Score=23.32 Aligned_cols=24 Identities=17% Similarity=0.315 Sum_probs=18.5
Q ss_pred eEEcCCchHhhhhhcCCCCCCEEEE
Q 041585 96 YVLINHWTADFVRRRELAAGDEIGM 120 (155)
Q Consensus 96 yvL~~GW~~~fVr~~~Lk~GD~I~f 120 (155)
.|.-+|=. +.-|.+.|+.||+|.|
T Consensus 38 ~V~VNGev-e~rRgkKl~~GD~V~~ 61 (70)
T PRK11507 38 QVKVDGAV-ETRKRCKIVAGQTVSF 61 (70)
T ss_pred ceEECCEE-ecccCCCCCCCCEEEE
Confidence 45445545 6779999999999987
No 59
>PF01477 PLAT: PLAT/LH2 domain; InterPro: IPR001024 Lipoxygenases (1.13.11.- from EC) are a class of iron-containing dioxygenases which catalyses the hydroperoxidation of lipids, containing a cis,cis-1,4-pentadiene structure. They are common in plants where they may be involved in a number of diverse aspects of plant physiology including growth and development, pest resistance, and senescence or responses to wounding. In mammals a number of lipoxygenases isozymes are involved in the metabolism of prostaglandins and leukotrienes []. Sequence data is available for the following lipoxygenases: Plant lipoxygenases (1.13.11.12 from EC, IPR001246 from INTERPRO). Plants express a variety of cytosolic isozymes as well as what seems to be a chloroplast isozyme []. Mammalian arachidonate 5-lipoxygenase (1.13.11.34 from EC, IPR001885 from INTERPRO). Mammalian arachidonate 12-lipoxygenase (1.13.11.31 from EC, IPR001885 from INTERPRO). Mammalian erythroid cell-specific 15-lipoxygenase (1.13.11.33 from EC, IPR001885 from INTERPRO). The iron atom in lipoxygenases is bound by four ligands, three of which are histidine residues []. Six histidines are conserved in all lipoxygenase sequences, five of them are found clustered in a stretch of 40 amino acids. This region contains two of the three iron-ligands; the other histidines have been shown [] to be important for the activity of lipoxygenases. This entry represents a domain found in lipoxygenases and other enzymes. It is known as the PLAT (Polycystin-1, Lipoxygenase, Alpha-Toxin) domain or LH2 (Lipoxygenase homology) domain, is found in a variety of membrane or lipid associated proteins. Structurally, this domain forms a beta-sandwich composed of two sheets of four strands each [, , ]. The most highly conserved regions coincide with the beta-strands, with most of the highly conserved residues being buried within the protein. An exception to this is a surface lysine or arginine that occurs on the surface of the fifth beta-strand of the eukaryotic domains. In pancreatic lipase, the lysine in this position forms a salt bridge with the procolipase protein. The conservation of a charged surface residue may indicate the location of a conserved ligand-binding site. It is thought that this domain may mediate membrane attachment via other protein binding partners.; GO: 0005515 protein binding; PDB: 3FG3_D 3FG1_C 3FG4_D 3DY5_A 2FNQ_B 3O8Y_B 3V99_B 3V92_A 3V98_B 1HPL_A ....
Probab=33.52 E-value=81 Score=21.61 Aligned_cols=24 Identities=21% Similarity=0.273 Sum_probs=19.6
Q ss_pred eEEEEEECCCCcEEEEEEEEeCCC
Q 041585 70 LRVSVWDCDTNSMHRLVFKKWATS 93 (155)
Q Consensus 70 i~V~v~D~dt~~~w~~~~k~w~~~ 93 (155)
-.|.|.+..++..|.|.+..|-..
T Consensus 79 ~~V~V~~~~~~~~~~F~~~~Wl~~ 102 (113)
T PF01477_consen 79 DSVVVTDGETGRTYTFPCNRWLDP 102 (113)
T ss_dssp EEEEEEETTTSEEEEEEEEEEEST
T ss_pred EEEEEEeCCCCcEEEEEcCCEECC
Confidence 356788888999999999999653
No 60
>COG1430 Uncharacterized conserved protein [Function unknown]
Probab=32.17 E-value=1.2e+02 Score=22.72 Aligned_cols=52 Identities=23% Similarity=0.323 Sum_probs=30.6
Q ss_pred eEEEEEECCCCcEEEEEEEEeCC-----CC--ceEEcCCchHhhhhhcCCCCCCEEEEEEc
Q 041585 70 LRVSVWDCDTNSMHRLVFKKWAT-----SN--SYVLINHWTADFVRRRELAAGDEIGMCWD 123 (155)
Q Consensus 70 i~V~v~D~dt~~~w~~~~k~w~~-----~~--syvL~~GW~~~fVr~~~Lk~GD~I~f~wd 123 (155)
+.|.+.|-|.-.++-.+.+=|+. .. .|||+. ....+++.+++.||.|.+...
T Consensus 64 LDiiFid~dg~i~~i~~~~P~~~~~~~~~~~~~yvLEl--~~G~~~~~~i~vGd~v~~~~~ 122 (126)
T COG1430 64 LDIIFIDSDGRVVDIVELVPWSTYPCKSYGPVRYVLEL--PAGWAARLGIKVGDRVEFRPL 122 (126)
T ss_pred eEEEEEcCCCCEEEEEeccccccCCCCCCCCccEEEEe--cCCchhhcCCccCCEEEeccc
Confidence 55666664433344444343321 22 388764 223449999999999988654
No 61
>PF14250 AbrB-like: AbrB-like transcriptional regulator
Probab=32.09 E-value=1.2e+02 Score=20.65 Aligned_cols=38 Identities=11% Similarity=0.182 Sum_probs=27.0
Q ss_pred CCcEEEEEEEEeCCCCceEEcCCchHhhhhhcCCCCCCEEEEE
Q 041585 79 TNSMHRLVFKKWATSNSYVLINHWTADFVRRRELAAGDEIGMC 121 (155)
Q Consensus 79 t~~~w~~~~k~w~~~~syvL~~GW~~~fVr~~~Lk~GD~I~f~ 121 (155)
.|++=+|+.+-..+ ++.++. . .+-+..+|++||+.-+-
T Consensus 25 ~GR~~syr~~Vq~N-GnLLIG---~-AYT~~m~L~PGdEFeI~ 62 (71)
T PF14250_consen 25 RGRKASYRVSVQGN-GNLLIG---S-AYTKQMGLKPGDEFEIK 62 (71)
T ss_pred CCcCceEEEEEecC-CCEEEc---H-HHHHHhCCCCCCEEEEE
Confidence 46667777776653 455554 3 67799999999987653
No 62
>PRK03760 hypothetical protein; Provisional
Probab=31.68 E-value=43 Score=24.58 Aligned_cols=23 Identities=26% Similarity=0.331 Sum_probs=17.6
Q ss_pred ceEEc--CCchHhhhhhcCCCCCCEEEEE
Q 041585 95 SYVLI--NHWTADFVRRRELAAGDEIGMC 121 (155)
Q Consensus 95 syvL~--~GW~~~fVr~~~Lk~GD~I~f~ 121 (155)
.|||+ .||. .+.++++||.|.+-
T Consensus 91 ~~VLEl~aG~~----~~~gi~~Gd~v~~~ 115 (117)
T PRK03760 91 RYIIEGPVGKI----RVLKVEVGDEIEWI 115 (117)
T ss_pred eEEEEeCCChH----HHcCCCCCCEEEEe
Confidence 48865 4555 89999999999653
No 63
>COG3764 SrtA Sortase (surface protein transpeptidase) [Cell envelope biogenesis, outer membrane]
Probab=31.28 E-value=1.1e+02 Score=24.91 Aligned_cols=97 Identities=18% Similarity=0.221 Sum_probs=52.8
Q ss_pred CCCCC-CCCEEeehHHHHHcCCCCCCccccccccCCCCCeEEEEEECCCCcEEEEEEEEeCCCCceEEcCCchH----hh
Q 041585 32 SDLGH-LSRLLVQTRLAERYVMPFLDEASRSEVIGNPEGLRVSVWDCDTNSMHRLVFKKWATSNSYVLINHWTA----DF 106 (155)
Q Consensus 32 SDV~~-~~RLvLPk~~~e~~ilP~l~~~~~~~~~~~~~gi~V~v~D~dt~~~w~~~~k~w~~~~syvL~~GW~~----~f 106 (155)
.|.+. .|+|.||+=.+ + +|...... ++.+. .|+.-..-+ -.-+.+++|+|.|+=.- .|
T Consensus 67 ~~~~~viG~l~IP~i~v-~--lpI~~gt~-~~~L~--~Gvgh~~~~-----------~~pG~~gn~~laGHr~~~~~~~F 129 (210)
T COG3764 67 PDKGEVIGYLEIPSIEV-K--LPIYEGTD-EEDLL--YGVGHYKES-----------QVPGENGNYVLAGHRGTRYGSLF 129 (210)
T ss_pred ccccceeEEEEecccce-e--cceecCCC-HHHhh--cCccccccc-----------cCCCCCCcEEEEecccccccccc
Confidence 45554 79999999888 3 56655332 22222 121100000 11112345666543221 46
Q ss_pred hhhcCCCCCCEEEEEEcCCCCeEEEEEEe--ecCCCceeeecc
Q 041585 107 VRRRELAAGDEIGMCWDSFYSRFNFSILK--RAPAPTIIVQDH 147 (155)
Q Consensus 107 Vr~~~Lk~GD~I~f~wd~~~~~l~F~vl~--r~~~~~~~~~~~ 147 (155)
-+--.|+.||.|.+.|- ++.+.+.|-+ --.+...++.++
T Consensus 130 ~~L~~lk~GD~iyv~~~--~~~~~Y~v~~~~~V~p~~v~~l~~ 170 (210)
T COG3764 130 RPLGKLKVGDKIYVTTK--NETYVYKVTDISIVDPDDVDVLDD 170 (210)
T ss_pred cchhhhcCCCEEEEEeC--CcEEEEEEEEEEEeCcceeeeccc
Confidence 66778999999999996 5667666644 344444444443
No 64
>PF03152 UFD1: Ubiquitin fusion degradation protein UFD1; InterPro: IPR004854 Post-translational ubiquitin-protein conjugates are recognised for degradation by the ubiquitin fusion degradation (UFD) pathway. Several proteins involved in this pathway have been identified []. This family includes UFD1, a 40kDa protein that is essential for vegetative cell viability []. The human UFD1 gene is expressed at high levels during embryogenesis, especially in the eyes and in the inner ear primordia and is thought to be important in the determination of ectoderm-derived structures, including neural crest cells. In addition, this gene is deleted in the CATCH-22 (cardiac defects, abnormal facies, thymic hypoplasia, cleft palate and hypocalcaemia with deletions on chromosome 22) syndrome. This clinical syndrome is associated with a variety of developmental defects, all characterised by microdeletions on 22q11.2. Two such developmental defects are the DiGeorge syndrome OMIM:188400, and the velo-cardio- facial syndrome OMIM:145410. Several of the abnormalities associated with these conditions are thought to be due to defective neural crest cell differentiation []. ; GO: 0006511 ubiquitin-dependent protein catabolic process; PDB: 1ZC1_A 2YUJ_A.
Probab=31.18 E-value=2.6e+02 Score=22.01 Aligned_cols=78 Identities=17% Similarity=0.260 Sum_probs=43.4
Q ss_pred ecCCCCCCCCEEeehHHHHHcCCCCCCccccccccCCCCCeEEEEEECCCCc-EEEEEEEEeCCCCceEEcCCchHhhhh
Q 041585 30 TRSDLGHLSRLLVQTRLAERYVMPFLDEASRSEVIGNPEGLRVSVWDCDTNS-MHRLVFKKWATSNSYVLINHWTADFVR 108 (155)
Q Consensus 30 T~SDV~~~~RLvLPk~~~e~~ilP~l~~~~~~~~~~~~~gi~V~v~D~dt~~-~w~~~~k~w~~~~syvL~~GW~~~fVr 108 (155)
..++++..++++||....+.-. . +.. ...+...+....+++ .|-=.+-+.+..+.-+| -.|+ .+
T Consensus 18 ~~~~~~~gdKiiLP~s~L~~L~-~-~~~---------~~P~~F~i~n~~~~~~th~GVlEFsA~eG~i~l-P~wm---m~ 82 (176)
T PF03152_consen 18 DRPELEYGDKIILPPSALDELS-R-LNI---------PYPMLFEISNPDNGKRTHCGVLEFSAEEGTIYL-PPWM---MQ 82 (176)
T ss_dssp S-CCCCCTTEEEE-HHHHHHHH-H-TT-----------SS-EEEEEETTTTEEEEEEEEEE--CTTEEEE--CHH---HH
T ss_pred CCcccCCCCeEEcCHHHHHHHH-h-ccC---------CCCEEEEEecCCCCcEEEEEEEEeEcCCCeEEe-CccH---Hh
Confidence 3556777899999999887732 1 111 133566666654443 45555556655544444 4786 47
Q ss_pred hcCCCCCCEEEEEE
Q 041585 109 RRELAAGDEIGMCW 122 (155)
Q Consensus 109 ~~~Lk~GD~I~f~w 122 (155)
.-+|++||.|.+-.
T Consensus 83 ~L~l~~g~~V~v~~ 96 (176)
T PF03152_consen 83 NLGLQEGDIVRVEY 96 (176)
T ss_dssp HHT--TTEEEEEEE
T ss_pred hcCCCCCCEEEEEE
Confidence 88999999987643
No 65
>PRK15488 thiosulfate reductase PhsA; Provisional
Probab=30.97 E-value=81 Score=29.74 Aligned_cols=44 Identities=11% Similarity=-0.027 Sum_probs=35.2
Q ss_pred hhhhhcCCCCCCEEEEEEcCCCCeEEEEEEeecCCCceeeecch
Q 041585 105 DFVRRRELAAGDEIGMCWDSFYSRFNFSILKRAPAPTIIVQDHA 148 (155)
Q Consensus 105 ~fVr~~~Lk~GD~I~f~wd~~~~~l~F~vl~r~~~~~~~~~~~~ 148 (155)
+=.++++++.||.|.++-+...-...-.|-..-.+.++.+++|-
T Consensus 673 ~dA~~~GI~dGD~V~v~n~~G~i~~~a~vt~~v~~g~v~i~~g~ 716 (759)
T PRK15488 673 QTAGKLGIKNGDEIRLENSVGKEKGKALVTPGIRPDTLFAYMGF 716 (759)
T ss_pred HHHHHhCCCCCCEEEEEcCCCcEEEEEEEeCCccCCeEEEeccc
Confidence 55789999999999999997655555556667778888888874
No 66
>TIGR01076 sortase_fam LPXTG-site transpeptidase (sortase) family protein. of an LPXTG motif to the cell wall. It also includes a protein required for correct assembly of an LPXTG-containing fimbrial protein, a set of homologous proteins from Streptococcus pneumoniae, in which LPXTG proteins are common. However, related proteins are found in Bacillus subtilis and Methanobacterium thermoautotrophicum, in which LPXTG-mediated cell wall attachment is not known.
Probab=30.95 E-value=1.2e+02 Score=22.30 Aligned_cols=41 Identities=15% Similarity=0.257 Sum_probs=29.0
Q ss_pred CCceEEcCCc--h--HhhhhhcCCCCCCEEEEEEcCCCCeEEEEEEe
Q 041585 93 SNSYVLINHW--T--ADFVRRRELAAGDEIGMCWDSFYSRFNFSILK 135 (155)
Q Consensus 93 ~~syvL~~GW--~--~~fVr~~~Lk~GD~I~f~wd~~~~~l~F~vl~ 135 (155)
+++++|.|+= . .-|-+=..|+.||.|.+... ...+.|.|..
T Consensus 41 ~gN~vIaGH~~~~~~~~F~~L~~l~~GD~i~v~~~--~~~~~Y~V~~ 85 (136)
T TIGR01076 41 NTRIVITGHRGLPTATMFTNLDKLKKGDMLYLHVG--NEVLTYQVTS 85 (136)
T ss_pred CCeEEEEecCCCCCCCccCCHHHCCCCCEEEEEEC--CcEEEEEEEE
Confidence 4567776642 1 24777788999999988764 4678888754
No 67
>PF07497 Rho_RNA_bind: Rho termination factor, RNA-binding domain; InterPro: IPR011113 The Rho termination factor disengages newly transcribed RNA from its DNA template at certain, specific transcripts. It is thought that two copies of Rho bind to RNA and that Rho functions as a hexamer of protomers [].; GO: 0003723 RNA binding, 0006353 transcription termination, DNA-dependent; PDB: 1A8V_B 1PVO_A 1PV4_D 3ICE_A 1XPU_C 1XPO_D 1XPR_F 2A8V_B 2HT1_B 1A63_A ....
Probab=30.67 E-value=21 Score=24.69 Aligned_cols=31 Identities=23% Similarity=0.282 Sum_probs=17.1
Q ss_pred hhhhhcCCCCCCEEE-EEEcCCCCeEEEEEEe
Q 041585 105 DFVRRRELAAGDEIG-MCWDSFYSRFNFSILK 135 (155)
Q Consensus 105 ~fVr~~~Lk~GD~I~-f~wd~~~~~l~F~vl~ 135 (155)
..+|+.+|+.||.|. .-.-...+.=+|++++
T Consensus 36 ~qIrrf~LR~GD~V~G~vr~p~~~ek~~aL~~ 67 (78)
T PF07497_consen 36 SQIRRFGLRTGDLVEGQVRPPREGEKYFALLR 67 (78)
T ss_dssp CCCCCTT--TTEEEEEEEE--STTSSSEEECE
T ss_pred HHHHHcCCCCCCEEEEEEeCCCCCCcceeeEE
Confidence 568999999999887 3333333333455544
No 68
>smart00308 LH2 Lipoxygenase homology 2 (beta barrel) domain.
Probab=30.10 E-value=64 Score=22.18 Aligned_cols=22 Identities=18% Similarity=0.302 Sum_probs=17.0
Q ss_pred EEEEEECCCCcEEEEEEEEeCC
Q 041585 71 RVSVWDCDTNSMHRLVFKKWAT 92 (155)
Q Consensus 71 ~V~v~D~dt~~~w~~~~k~w~~ 92 (155)
.|.|.|..++..|.|.+..|-.
T Consensus 82 ~V~V~~~~~~~~~~F~c~~Wl~ 103 (105)
T smart00308 82 SITVKDLPTGGKYHFPCNSWVY 103 (105)
T ss_pred EEEEEECCCCCEEEEEcCceeC
Confidence 4667787788889999888753
No 69
>PF13275 S4_2: S4 domain; PDB: 1P9K_A.
Probab=29.76 E-value=24 Score=23.52 Aligned_cols=22 Identities=23% Similarity=0.352 Sum_probs=10.3
Q ss_pred EcCCchHhhhhhcCCCCCCEEEE
Q 041585 98 LINHWTADFVRRRELAAGDEIGM 120 (155)
Q Consensus 98 L~~GW~~~fVr~~~Lk~GD~I~f 120 (155)
+-+|=. +.-|.+.|++||.|.|
T Consensus 36 ~VNGe~-e~rrg~Kl~~GD~V~~ 57 (65)
T PF13275_consen 36 KVNGEV-ETRRGKKLRPGDVVEI 57 (65)
T ss_dssp EETTB-----SS----SSEEEEE
T ss_pred EECCEE-ccccCCcCCCCCEEEE
Confidence 333434 6668888999999998
No 70
>TIGR03784 marine_sortase sortase, marine proteobacterial type. Members of this protein family are sortase enzymes, cysteine transpeptidases involved in protein sorting activities. Members of this family tend to be found in proteobacteria, rather than in Gram-positive bacteria where sortases attach proteins to the Gram-positive cell wall or participate in pilin cross-linking. Many species with this sortase appear to contain a signal target sequence, a protein with a Vault protein inter-alpha-trypsin domain (pfam08487) and a von Willebrand factor type A domain (pfam00092), encoded by an adjacent gene. These sortases are designated subfamily 6 according to Comfort and Clubb (2004).
Probab=29.62 E-value=1.2e+02 Score=23.71 Aligned_cols=42 Identities=19% Similarity=0.200 Sum_probs=29.7
Q ss_pred CCceEEcCCchHhhhhhcCCCCCCEEEEEEcCCCCeEEEEEEe
Q 041585 93 SNSYVLINHWTADFVRRRELAAGDEIGMCWDSFYSRFNFSILK 135 (155)
Q Consensus 93 ~~syvL~~GW~~~fVr~~~Lk~GD~I~f~wd~~~~~l~F~vl~ 135 (155)
.+++||.|+=...|-+-.+|+.||.|.+... ....+.|.|-.
T Consensus 90 ~Gn~VIAGHrdt~F~~L~~L~~GD~I~v~~~-~g~~~~Y~V~~ 131 (174)
T TIGR03784 90 QGNSVIAGHRDTHFAFLQELRPGDVIRLQTP-DGQWQSYQVTA 131 (174)
T ss_pred CCcEEEEeeCCccCCChhhCCCCCEEEEEEC-CCeEEEEEEeE
Confidence 4578888653335889999999999999874 22335677654
No 71
>cd01757 PLAT_RAB6IP1 PLAT/LH2 domain present in RAB6 interacting protein 1 (Rab6IP1)_like family. PLAT/LH2 domains consists of an eight stranded beta-barrel. In RabIP1 this domain may participate in lipid-mediated modulation of Rab6IP1's function via it's generally proposed function of mediating interaction with lipids or membrane bound proteins.
Probab=29.18 E-value=64 Score=23.66 Aligned_cols=20 Identities=20% Similarity=0.255 Sum_probs=16.0
Q ss_pred EEEEEECCCCcEEEEEEEEe
Q 041585 71 RVSVWDCDTNSMHRLVFKKW 90 (155)
Q Consensus 71 ~V~v~D~dt~~~w~~~~k~w 90 (155)
.|.|.|..++++|.|-|.+|
T Consensus 75 ~V~V~d~~t~~~~~FpC~rW 94 (114)
T cd01757 75 YVMVRNEITGHTYKFPCGRW 94 (114)
T ss_pred EEEEEeCCCCCEEEEecCce
Confidence 46677877888888888877
No 72
>cd06165 Sortase_A_1 Sortase A (SrtA) or subfamily-1 sortases are cysteine transpeptidases found in gram-positive bacteria that anchor surface proteins to peptidoglycans of the bacterial cell wall envelope. They do so by catalyzing a transpeptidation reaction in which the surface protein substrate is cleaved at a conserved cell wall sorting signal (usually a pentapeptide motif), and covalently linked to peptidoglycan for display on the bacterial surface. Sortases are grouped into different classes and subfamilies based on sequence, membrane topology, genomic positioning, and cleavage site preference. This group contains a subset of Class A (subfamily-1) sortases, excluding SrtA from Staphylococcus aureus. Sortase A cleaves between threonine and glycine of the LPXTG motif in a wide range of protein substrates. It affects the ability of a pathogen to establish successful infection. Sortase A contains an N-terminal region that functions as both a signal peptide for secretion and a stop-tra
Probab=28.63 E-value=1e+02 Score=22.19 Aligned_cols=42 Identities=17% Similarity=0.288 Sum_probs=30.1
Q ss_pred CceEEcCCch----HhhhhhcCCCCCCEEEEEEcCCCCeEEEEEEeec
Q 041585 94 NSYVLINHWT----ADFVRRRELAAGDEIGMCWDSFYSRFNFSILKRA 137 (155)
Q Consensus 94 ~syvL~~GW~----~~fVr~~~Lk~GD~I~f~wd~~~~~l~F~vl~r~ 137 (155)
++++|.|+=. ..|-+-..|+.||.|.+... ...+.|.|..+.
T Consensus 42 gn~vIaGH~~~~~~~~F~~L~~l~~Gd~I~l~~~--~~~~~Y~V~~~~ 87 (127)
T cd06165 42 GNYALAGHNMRNKGVLFSPLYKVKVGDKIYLTDK--DNVYEYKVTSKK 87 (127)
T ss_pred ccEEEEcccCCCCCcccCCHHHCcCCCEEEEEEC--CEEEEEEEeeEE
Confidence 4566665411 15788888999999999884 468888886643
No 73
>PF08922 DUF1905: Domain of unknown function (DUF1905); InterPro: IPR015018 This family consist of hypothetical bacterial proteins. ; PDB: 2D9R_A.
Probab=28.53 E-value=1.9e+02 Score=19.50 Aligned_cols=78 Identities=18% Similarity=0.072 Sum_probs=38.0
Q ss_pred EEEEeecCCCCCCCCEEeehHHHHHcCCCCCCccccccccCCCCCeEEEEEECCCCcEEEEEEEEeCCCCceEEcCCchH
Q 041585 25 ITKILTRSDLGHLSRLLVQTRLAERYVMPFLDEASRSEVIGNPEGLRVSVWDCDTNSMHRLVFKKWATSNSYVLINHWTA 104 (155)
Q Consensus 25 fkK~LT~SDV~~~~RLvLPk~~~e~~ilP~l~~~~~~~~~~~~~gi~V~v~D~dt~~~w~~~~k~w~~~~syvL~~GW~~ 104 (155)
|+.+|-+.+-+ -.-+.||.+.+++. ...+- ..+.|.+.= .|..|+-.+-- ..++.|+|-- +.
T Consensus 1 F~a~l~~~~~~-~~fv~vP~~v~~~l--~~~~~----------g~v~V~~tI--~g~~~~~sl~p-~g~G~~~Lpv--~~ 62 (80)
T PF08922_consen 1 FTATLWKGEGG-WTFVEVPFDVAEEL--GEGGW----------GRVPVRGTI--DGHPWRTSLFP-MGNGGYILPV--KA 62 (80)
T ss_dssp EEEE-EE-TTS--EEEE--S-HHHHH----S------------S-EEEEEEE--TTEEEEEEEEE-SSTT-EEEEE---H
T ss_pred CeEEEEecCCc-eEEEEeCHHHHHHh--ccccC----------CceEEEEEE--CCEEEEEEEEE-CCCCCEEEEE--cH
Confidence 34445544332 34477898888883 32110 124555542 24556554443 2456788743 66
Q ss_pred hhhhhcCCCCCCEEEE
Q 041585 105 DFVRRRELAAGDEIGM 120 (155)
Q Consensus 105 ~fVr~~~Lk~GD~I~f 120 (155)
.+-+.-++.+||.|.+
T Consensus 63 ~vRk~~g~~~Gd~V~v 78 (80)
T PF08922_consen 63 AVRKAIGKEAGDTVEV 78 (80)
T ss_dssp HHHHHHT--TTSEEEE
T ss_pred HHHHHcCCCCCCEEEE
Confidence 8888999999999875
No 74
>TIGR03595 Obg_CgtA_exten Obg family GTPase CgtA, C-terminal extension. CgtA (see model TIGR02729) is a broadly conserved member of the obg family of GTPases associated with ribosome maturation. This model represents a unique C-terminal domain found in some but not all sequences of CgtA. This region is preceded, and may be followed, by a region of low-complexity sequence.
Probab=28.01 E-value=49 Score=21.92 Aligned_cols=17 Identities=24% Similarity=0.435 Sum_probs=14.4
Q ss_pred hhhhhcCCCCCCEEEEE
Q 041585 105 DFVRRRELAAGDEIGMC 121 (155)
Q Consensus 105 ~fVr~~~Lk~GD~I~f~ 121 (155)
+-++++|.++||+|.+.
T Consensus 47 ~~L~~~G~~~GD~V~Ig 63 (69)
T TIGR03595 47 DALRKAGAKDGDTVRIG 63 (69)
T ss_pred HHHHHcCCCCCCEEEEc
Confidence 55688999999999875
No 75
>PF08517 AXH: Ataxin-1 and HBP1 module (AXH); InterPro: IPR013723 AXH is a protein-protein and RNA binding motif found in Ataxin-1 (ATX1)[]. ATX1 is responsible for the autosomal-dominant neurodegenerative disorder Spinocerebellar ataxia type-1 (SCA1) in humans. The AXH module has also been identified in the apparently unrelated transcription factor HBP1 which is thought to be involved in the architectural regulation of chromatin and in specific gene expression []. ; GO: 0005488 binding; PDB: 1OA8_C 3QVE_C 1V06_A.
Probab=27.81 E-value=59 Score=24.08 Aligned_cols=49 Identities=16% Similarity=0.274 Sum_probs=27.0
Q ss_pred CeEEEEEECCCCcEEEEEEEEeCCCCceEEcCCchHhh----------hhhcCCCCCCEEE
Q 041585 69 GLRVSVWDCDTNSMHRLVFKKWATSNSYVLINHWTADF----------VRRRELAAGDEIG 119 (155)
Q Consensus 69 gi~V~v~D~dt~~~w~~~~k~w~~~~syvL~~GW~~~f----------Vr~~~Lk~GD~I~ 119 (155)
++...-.++++ ..-.+.........-||...||. -| +..+.|+.||++.
T Consensus 52 ~~~~ltF~~g~-~~~~v~~e~~~ehPFFV~gkGWs-S~~P~~T~~~ygL~C~~L~vGDvCl 110 (115)
T PF08517_consen 52 GVVLLTFDVGE-QQSQVTLECQVEHPFFVKGKGWS-SCNPSLTVQLYGLPCRQLQVGDVCL 110 (115)
T ss_dssp EEEEEEEEEST-GGEEEEEEEETT-EEEETTTEEE-ESSHHHHHHHHTS--EE--TT-EEE
T ss_pred CEEEEEEEcCC-CceEEEEEccCCCceEEeCCccc-ccCcchhceecCCcccccccCCEEe
Confidence 33333455554 44456666666666799999996 33 3456688999875
No 76
>PRK14990 anaerobic dimethyl sulfoxide reductase subunit A; Provisional
Probab=27.64 E-value=77 Score=30.18 Aligned_cols=43 Identities=12% Similarity=0.129 Sum_probs=32.8
Q ss_pred hhhhhcCCCCCCEEEEEEcCCCCeEEEEEEeecCCCceeeecc
Q 041585 105 DFVRRRELAAGDEIGMCWDSFYSRFNFSILKRAPAPTIIVQDH 147 (155)
Q Consensus 105 ~fVr~~~Lk~GD~I~f~wd~~~~~l~F~vl~r~~~~~~~~~~~ 147 (155)
+=.++++++.||.|.++-++..-+..-.|-.+-.+.++.+++|
T Consensus 729 ~dA~~~GI~dGD~V~V~n~~G~v~~~a~vt~~i~pg~V~~~~g 771 (814)
T PRK14990 729 LDAQKRGINNGDKVRIFNDRGEVHIEAKVTPRMMPGVVALGEG 771 (814)
T ss_pred HHHHHcCCCCCCEEEEEcCCceEEEEEEECCCcCCCeEEccCC
Confidence 4467999999999999998765444444556777788888776
No 77
>KOG0270 consensus WD40 repeat-containing protein [Function unknown]
Probab=27.50 E-value=2.8e+02 Score=25.27 Aligned_cols=81 Identities=20% Similarity=0.386 Sum_probs=51.1
Q ss_pred CCeEEEEEECCCCcEEE-EE-------EEEeC-CCCceEEcCCchHhhhhhcCCC-----------CCCEEEEEEcCCCC
Q 041585 68 EGLRVSVWDCDTNSMHR-LV-------FKKWA-TSNSYVLINHWTADFVRRRELA-----------AGDEIGMCWDSFYS 127 (155)
Q Consensus 68 ~gi~V~v~D~dt~~~w~-~~-------~k~w~-~~~syvL~~GW~~~fVr~~~Lk-----------~GD~I~f~wd~~~~ 127 (155)
.--+|++||+++|+-.. +. .-.|. ...++.|+|+.- .-|+-..++ .|++=.+-|+..+.
T Consensus 264 aD~TV~lWD~~~g~p~~s~~~~~k~Vq~l~wh~~~p~~LLsGs~D-~~V~l~D~R~~~~s~~~wk~~g~VEkv~w~~~se 342 (463)
T KOG0270|consen 264 ADKTVKLWDVDTGKPKSSITHHGKKVQTLEWHPYEPSVLLSGSYD-GTVALKDCRDPSNSGKEWKFDGEVEKVAWDPHSE 342 (463)
T ss_pred CCceEEEEEcCCCCcceehhhcCCceeEEEecCCCceEEEecccc-ceEEeeeccCccccCceEEeccceEEEEecCCCc
Confidence 44789999999886322 21 12333 355799999877 677777777 46666677876654
Q ss_pred eEEEEE----------EeecCCCceeeecchh
Q 041585 128 RFNFSI----------LKRAPAPTIIVQDHAD 149 (155)
Q Consensus 128 ~l~F~v----------l~r~~~~~~~~~~~~~ 149 (155)
.-.|.- ++....++..+|-|.+
T Consensus 343 ~~f~~~tddG~v~~~D~R~~~~~vwt~~AHd~ 374 (463)
T KOG0270|consen 343 NSFFVSTDDGTVYYFDIRNPGKPVWTLKAHDD 374 (463)
T ss_pred eeEEEecCCceEEeeecCCCCCceeEEEeccC
Confidence 333321 2333367788888865
No 78
>cd01756 PLAT_repeat PLAT/LH2 domain repeats of family of proteins with unknown function. In general, PLAT/LH2 consists of an eight stranded beta-barrel and it's proposed function is to mediate interaction with lipids or membrane bound proteins.
Probab=27.13 E-value=65 Score=23.16 Aligned_cols=22 Identities=14% Similarity=0.341 Sum_probs=17.8
Q ss_pred EEEEEECCCCcEEEEEEEEeCC
Q 041585 71 RVSVWDCDTNSMHRLVFKKWAT 92 (155)
Q Consensus 71 ~V~v~D~dt~~~w~~~~k~w~~ 92 (155)
.|.|.|..+++.|.|-+.+|-.
T Consensus 84 ~V~V~~~~~~~~~~F~~~~Wl~ 105 (120)
T cd01756 84 KVEIREPGTGDEYTFPCNRWLD 105 (120)
T ss_pred EEEEEECCCceEEEEEeCCccC
Confidence 5678888889999999988843
No 79
>TIGR00509 bisC_fam molybdopterin guanine dinucleotide-containing S/N-oxide reductases. This enzyme family shares sequence similarity and a requirement for a molydenum cofactor as the only prosthetic group. The form of the cofactor is a single molybdenum atom coordinated by two molybdopterin guanine dinucleotide molecules. Members of the family include biotin sulfoxide reductase, dimethylsulfoxide reductase, and trimethylamine-N-oxide reductase, although a single member may show all those activities and related activities; it may not be possible to resolve the primary function for members of this family by sequence comparison alone. A number of similar molybdoproteins in which the N-terminal region contains a CXXXC motif and may bind an iron-sulfur cluster are excluded from this set, including formate dehydrogenases and nitrate reductases. Also excluded is the A chain of a heteromeric, anaerobic DMSO reductase, which also contains the CXXXC motif.
Probab=26.97 E-value=88 Score=29.62 Aligned_cols=44 Identities=14% Similarity=0.062 Sum_probs=35.3
Q ss_pred hhhhhcCCCCCCEEEEEEcCCCCeEEEEEEeecCCCceeeecch
Q 041585 105 DFVRRRELAAGDEIGMCWDSFYSRFNFSILKRAPAPTIIVQDHA 148 (155)
Q Consensus 105 ~fVr~~~Lk~GD~I~f~wd~~~~~l~F~vl~r~~~~~~~~~~~~ 148 (155)
+=.++++++.||.|.++-++..-++.-.|-.+-.+.++.+++|.
T Consensus 664 ~dA~~~GI~dGD~V~V~s~~G~~~~~a~vt~~i~pg~V~~~~g~ 707 (770)
T TIGR00509 664 DDAAARGIADGDIVRVFNARGQCLAGAVVTDGIRKGVVQIHEGA 707 (770)
T ss_pred HHHHHcCCCCCCEEEEECCCceEEEEEEEcCCcCCCeEEecCcc
Confidence 44678999999999999987766666666677788888888874
No 80
>smart00306 HintN Hint (Hedgehog/Intein) domain N-terminal region. Hedgehog/Intein domain, N-terminal region. Domain has been split to accommodate large insertions of endonucleases.
Probab=26.62 E-value=43 Score=22.25 Aligned_cols=21 Identities=29% Similarity=0.366 Sum_probs=15.8
Q ss_pred eEEcCC---chHhhhhhcCCCCCCEEEE
Q 041585 96 YVLINH---WTADFVRRRELAAGDEIGM 120 (155)
Q Consensus 96 yvL~~G---W~~~fVr~~~Lk~GD~I~f 120 (155)
|+..+| |. +...|++||.|.+
T Consensus 75 ~~~~~~~~~w~----~a~~l~~gd~v~~ 98 (100)
T smart00306 75 LVRDGGKLVWV----FASELKPGDYVLV 98 (100)
T ss_pred EEecCCcEEEE----EHHHCCCCCEEEe
Confidence 555544 76 8899999999865
No 81
>PRK15102 trimethylamine N-oxide reductase I catalytic subunit; Provisional
Probab=26.59 E-value=76 Score=30.39 Aligned_cols=44 Identities=18% Similarity=0.172 Sum_probs=35.2
Q ss_pred hhhhhcCCCCCCEEEEEEcCCCCeEEEEEEeecCCCceeeecch
Q 041585 105 DFVRRRELAAGDEIGMCWDSFYSRFNFSILKRAPAPTIIVQDHA 148 (155)
Q Consensus 105 ~fVr~~~Lk~GD~I~f~wd~~~~~l~F~vl~r~~~~~~~~~~~~ 148 (155)
+=.++++++.||.|.++-++..-+..-.|-.+-.+.++.++++.
T Consensus 717 ~DA~~~GI~dGD~V~V~n~rG~~~~~a~vt~~i~pGvV~~~~G~ 760 (825)
T PRK15102 717 QDAKARGIKDGDVVRVFNDRGQVLAGAVVSDRYPPGVIRIHEGA 760 (825)
T ss_pred HHHHHcCCCCCCEEEEECCCeEEEEeEEECCCcCCCeEEecCcc
Confidence 45788999999999999997766666666677778888888773
No 82
>PF14998 Ripply: Transcription Regulator
Probab=26.53 E-value=32 Score=24.39 Aligned_cols=39 Identities=18% Similarity=0.283 Sum_probs=24.3
Q ss_pred CCCEEeehHHHHHcCCCCCCccccccccCC-CCCeEEEEEECCCCc
Q 041585 37 LSRLLVQTRLAERYVMPFLDEASRSEVIGN-PEGLRVSVWDCDTNS 81 (155)
Q Consensus 37 ~~RLvLPk~~~e~~ilP~l~~~~~~~~~~~-~~gi~V~v~D~dt~~ 81 (155)
--||++||.....|+ -.-+ +.++++ +-..+|.+|| |+++
T Consensus 43 PVRL~wPkSk~~dYL-y~~g----E~lL~nFPVQATI~fY~-Dsds 82 (87)
T PF14998_consen 43 PVRLYWPKSKCYDYL-YSEG----EKLLANFPVQATIHFYE-DSDS 82 (87)
T ss_pred ceEeeccchHHHHHH-HHHH----HHHHHcCCceeEEEecc-CCCc
Confidence 469999999877773 2211 233332 3447889998 6653
No 83
>cd00004 Sortase Sortases are cysteine transpeptidases, found in gram-positive bacteria, that anchor surface proteins to peptidoglycans of the bacterial cell wall envelope. They do so by catalyzing a transpeptidation reaction in which the surface protein substrate is cleaved at a conserved cell wall sorting signal and covalently linked to peptidoglycan for display on the bacterial surface. Sortases are grouped into different classes and subfamilies based on sequence, membrane topology, genomic positioning, and cleavage site preference. The different classes are called Sortase A or SrtA (subfamily 1), B or SrtB (subfamily 2), C or SrtC (subfamily3), D or SrtD (subfamilies 4 and 5), and E or SrtE. In two different sortase subfamilies, the N-terminus either functions as both a signal peptide for secretion and a stop-transfer signal for membrane anchoring, or it contains a signal peptide only and the C-terminus serves as a membrane anchor. Most gram-positive bacteria contain more than one s
Probab=26.50 E-value=1.1e+02 Score=21.87 Aligned_cols=42 Identities=17% Similarity=0.211 Sum_probs=30.4
Q ss_pred CCceEEcCC--ch--HhhhhhcCCCCCCEEEEEEcCCCCeEEEEEEee
Q 041585 93 SNSYVLINH--WT--ADFVRRRELAAGDEIGMCWDSFYSRFNFSILKR 136 (155)
Q Consensus 93 ~~syvL~~G--W~--~~fVr~~~Lk~GD~I~f~wd~~~~~l~F~vl~r 136 (155)
.++++|.|+ |. .-|-+=..|+.||.|.+... ...+.|.|...
T Consensus 42 ~gn~viaGH~~~~~~~~F~~L~~l~~Gd~v~v~~~--~~~~~Y~V~~~ 87 (128)
T cd00004 42 NGNTVIAGHRGGDSGTVFSDLDNLKKGDKIYLTDG--GKTYVYKVTSI 87 (128)
T ss_pred CceEEEEeeeCCCCCcccCCHHHCCCCCEEEEEEC--CEEEEEEEEEE
Confidence 456777544 21 25888888999999999886 67788887653
No 84
>PF03152 UFD1: Ubiquitin fusion degradation protein UFD1; InterPro: IPR004854 Post-translational ubiquitin-protein conjugates are recognised for degradation by the ubiquitin fusion degradation (UFD) pathway. Several proteins involved in this pathway have been identified []. This family includes UFD1, a 40kDa protein that is essential for vegetative cell viability []. The human UFD1 gene is expressed at high levels during embryogenesis, especially in the eyes and in the inner ear primordia and is thought to be important in the determination of ectoderm-derived structures, including neural crest cells. In addition, this gene is deleted in the CATCH-22 (cardiac defects, abnormal facies, thymic hypoplasia, cleft palate and hypocalcaemia with deletions on chromosome 22) syndrome. This clinical syndrome is associated with a variety of developmental defects, all characterised by microdeletions on 22q11.2. Two such developmental defects are the DiGeorge syndrome OMIM:188400, and the velo-cardio- facial syndrome OMIM:145410. Several of the abnormalities associated with these conditions are thought to be due to defective neural crest cell differentiation []. ; GO: 0006511 ubiquitin-dependent protein catabolic process; PDB: 1ZC1_A 2YUJ_A.
Probab=25.77 E-value=90 Score=24.65 Aligned_cols=108 Identities=12% Similarity=0.218 Sum_probs=54.4
Q ss_pred CCCeEEEEEeecCCC----------CCCCCEEeehHHHHHcCCCCCCccccccccCCCCCeEEEEEECCCCcEEEEEEEE
Q 041585 20 TYPWSITKILTRSDL----------GHLSRLLVQTRLAERYVMPFLDEASRSEVIGNPEGLRVSVWDCDTNSMHRLVFKK 89 (155)
Q Consensus 20 ~~pw~fkK~LT~SDV----------~~~~RLvLPk~~~e~~ilP~l~~~~~~~~~~~~~gi~V~v~D~dt~~~w~~~~k~ 89 (155)
..||.|+=+=..+.- ...|.++||.-.+++--+ ..+ .-+.|...+.-.|+ .++++-
T Consensus 44 ~~P~~F~i~n~~~~~~th~GVlEFsA~eG~i~lP~wmm~~L~l---~~g---------~~V~v~~~~LPkgt--~vkLqP 109 (176)
T PF03152_consen 44 PYPMLFEISNPDNGKRTHCGVLEFSAEEGTIYLPPWMMQNLGL---QEG---------DIVRVEYVSLPKGT--FVKLQP 109 (176)
T ss_dssp -SS-EEEEEETTTTEEEEEEEEEE--CTTEEEE-CHHHHHHT-----TT---------EEEEEEEEE----S--EEEEEE
T ss_pred CCCEEEEEecCCCCcEEEEEEEEeEcCCCeEEeCccHHhhcCC---CCC---------CEEEEEEeECCCCC--EEEEeE
Confidence 578888765332211 124667777766665321 111 11445555665665 333332
Q ss_pred eCCCCceEEcCCchHhhh-----hhcCCCCCCEEEEEEcCCCCeEEEEEEeecCCCceeeec
Q 041585 90 WATSNSYVLINHWTADFV-----RRRELAAGDEIGMCWDSFYSRFNFSILKRAPAPTIIVQD 146 (155)
Q Consensus 90 w~~~~syvL~~GW~~~fV-----r~~~Lk~GD~I~f~wd~~~~~l~F~vl~r~~~~~~~~~~ 146 (155)
. +..|.=-..|. .+. .--.|-.||+|.+.. .+..|.|.|++-.++.++.+.|
T Consensus 110 ~--~~~F~~i~n~K-avLE~~Lr~ystLT~Gd~I~i~~--~~~~y~l~V~e~kP~~aV~Iid 166 (176)
T PF03152_consen 110 Q--SSDFLDISNPK-AVLERALRNYSTLTKGDTISIEY--NNKTYELDVVEVKPENAVSIID 166 (176)
T ss_dssp S--CHHHHCSS-HH-HHHHHHHCC-SEEETTSEEEEEC--TTEEEEEEEEEECSSSCEE-SS
T ss_pred C--CCccccccchH-HHHHhhcccCceeecCCEEEEEe--CCEEEEEEEEEEcCCCEEEEEe
Confidence 2 12222112344 222 223477899999975 3678999999998888888876
No 85
>COG1977 MoaD Molybdopterin converting factor, small subunit [Coenzyme metabolism]
Probab=25.74 E-value=49 Score=22.55 Aligned_cols=15 Identities=27% Similarity=0.355 Sum_probs=12.2
Q ss_pred hcCCCCCCEEEEEEc
Q 041585 109 RRELAAGDEIGMCWD 123 (155)
Q Consensus 109 ~~~Lk~GD~I~f~wd 123 (155)
+.-|+.||+|.|+.=
T Consensus 66 ~t~L~dGDeVa~~PP 80 (84)
T COG1977 66 DTPLKDGDEVAFFPP 80 (84)
T ss_pred cccCCCCCEEEEeCC
Confidence 457999999999863
No 86
>cd00989 PDZ_metalloprotease PDZ domain of bacterial and plant zinc metalloprotases, presumably membrane-associated or integral membrane proteases, which may be involved in signalling and regulatory mechanisms. May be responsible for substrate recognition and/or binding, as most PDZ domains bind C-terminal polypeptides, and binding to internal (non-C-terminal) polypeptides and even to lipids has been demonstrated. In this subfamily of protease-associated PDZ domains a C-terminal beta-strand forms the peptide-binding groove base, a circular permutation with respect to PDZ domains found in Eumetazoan signaling proteins.
Probab=25.54 E-value=51 Score=21.01 Aligned_cols=12 Identities=42% Similarity=0.501 Sum_probs=10.4
Q ss_pred hhcCCCCCCEEE
Q 041585 108 RRRELAAGDEIG 119 (155)
Q Consensus 108 r~~~Lk~GD~I~ 119 (155)
...+|++||+|.
T Consensus 26 ~~~gl~~GD~I~ 37 (79)
T cd00989 26 AKAGLKAGDRIL 37 (79)
T ss_pred HHcCCCCCCEEE
Confidence 567899999997
No 87
>TIGR01591 Fdh-alpha formate dehydrogenase, alpha subunit, archaeal-type. This model is well-defined, with only a single fragmentary sequence falling between trusted and noise. The alpha subunit of a version of nitrate reductase is closely related.
Probab=25.54 E-value=1.1e+02 Score=28.28 Aligned_cols=43 Identities=12% Similarity=0.094 Sum_probs=32.3
Q ss_pred hhhhhcCCCCCCEEEEEEcCCCCeEEEEEEeecCCCceeeecc
Q 041585 105 DFVRRRELAAGDEIGMCWDSFYSRFNFSILKRAPAPTIIVQDH 147 (155)
Q Consensus 105 ~fVr~~~Lk~GD~I~f~wd~~~~~l~F~vl~r~~~~~~~~~~~ 147 (155)
+..++.+|+.||.|.++-+...-.+...+-..-.+.++-+|++
T Consensus 599 ~dA~~~gl~~Gd~V~v~~~~g~i~~~~~~~~~~~~g~v~~~~g 641 (671)
T TIGR01591 599 EDAKKLGIKDGDLVKVKSRRGEITLRAKVSDRVNKGAIYITMH 641 (671)
T ss_pred HHHHHcCCCCCCEEEEEeCCEEEEEEEEECCCcCCCEEEEecC
Confidence 6788999999999999988765555555545555667777765
No 88
>PF07076 DUF1344: Protein of unknown function (DUF1344); InterPro: IPR009780 This family consists of several short, hypothetical bacterial proteins of around 80 residues in length. Members of this family are found in Rhizobium, Agrobacterium and Brucella species. The function of this family is unknown.
Probab=25.05 E-value=77 Score=20.97 Aligned_cols=38 Identities=16% Similarity=0.297 Sum_probs=27.8
Q ss_pred EEEEEEEeCCCCceEEcCCchHhhhhhcCCCCCCEEEEEEcCCCCe
Q 041585 83 HRLVFKKWATSNSYVLINHWTADFVRRRELAAGDEIGMCWDSFYSR 128 (155)
Q Consensus 83 w~~~~k~w~~~~syvL~~GW~~~fVr~~~Lk~GD~I~f~wd~~~~~ 128 (155)
-++.+. +.++|.|-.+- .--+|++|..|.+++|-.+++
T Consensus 17 ~titLd---DGksy~lp~ef-----~~~~L~~G~kV~V~yd~~~gk 54 (61)
T PF07076_consen 17 MTITLD---DGKSYKLPEEF-----DFDGLKPGMKVVVFYDEVDGK 54 (61)
T ss_pred eEEEec---CCCEEECCCcc-----cccccCCCCEEEEEEEccCCc
Confidence 455553 45679997643 367999999999999877764
No 89
>cd00113 PLAT PLAT (Polycystin-1, Lipoxygenase, Alpha-Toxin) domain or LH2 (Lipoxygenase homology 2) domain. It consists of an eight stranded beta-barrel. The domain can be found in various domain architectures, in case of lipoxygenases, alpha toxin, lipases and polycystin, but also as a single domain or as repeats.The putative function of this domain is to facilitate access to sequestered membrane or micelle bound substrates.
Probab=24.60 E-value=82 Score=22.01 Aligned_cols=22 Identities=14% Similarity=0.347 Sum_probs=17.9
Q ss_pred EEEEEECCCCcEEEEEEEEeCC
Q 041585 71 RVSVWDCDTNSMHRLVFKKWAT 92 (155)
Q Consensus 71 ~V~v~D~dt~~~w~~~~k~w~~ 92 (155)
.|.|.|..++..+.|.+.+|-.
T Consensus 83 ~V~V~~~~~~~~~~F~~~~Wl~ 104 (116)
T cd00113 83 SITVQALGTKKVYTFPVNRWVL 104 (116)
T ss_pred EEEEEeCCCCCEEEEEeCCCcc
Confidence 4678888888899999988854
No 90
>PF09269 DUF1967: Domain of unknown function (DUF1967); InterPro: IPR015349 The Obg family comprises a group of ancient P-loop small G proteins (GTPases) belonging to the TRAFAC (for translation factors) class and can be subdivided into several distinct protein subfamilies []. OBG GTPases have been found in both prokaryotes and eukaryotes []. The structure of the OBG GTPase from Thermus thermophilus has been determined []. This entry represents a C-terminal domain found in certain OBG GTPases. This domain contains a four-stranded beta sheet and three alpha helices flanked by an additional beta strand. It is predominantly found in the bacterial GTP-binding protein Obg, and is functionally uncharacterised. ; GO: 0000166 nucleotide binding; PDB: 1UDX_A.
Probab=24.45 E-value=52 Score=21.80 Aligned_cols=17 Identities=18% Similarity=0.358 Sum_probs=11.6
Q ss_pred hhhhhcCCCCCCEEEEE
Q 041585 105 DFVRRRELAAGDEIGMC 121 (155)
Q Consensus 105 ~fVr~~~Lk~GD~I~f~ 121 (155)
+-++++|.++||+|.+.
T Consensus 47 ~~L~~~G~~~GD~V~Ig 63 (69)
T PF09269_consen 47 KALRKAGAKEGDTVRIG 63 (69)
T ss_dssp HHHHTTT--TT-EEEET
T ss_pred HHHHHcCCCCCCEEEEc
Confidence 67789999999999863
No 91
>PRK08166 NADH dehydrogenase subunit G; Validated
Probab=24.26 E-value=1.1e+02 Score=29.49 Aligned_cols=44 Identities=14% Similarity=0.077 Sum_probs=36.6
Q ss_pred hhhhhcCCCCCCEEEEEEcCCCCeEEEEEEeecCCCceeeecch
Q 041585 105 DFVRRRELAAGDEIGMCWDSFYSRFNFSILKRAPAPTIIVQDHA 148 (155)
Q Consensus 105 ~fVr~~~Lk~GD~I~f~wd~~~~~l~F~vl~r~~~~~~~~~~~~ 148 (155)
+=.++.+|+.||.|.+.-....-++.-.|-.+-.+.++.+|+|-
T Consensus 784 ~dA~~lgI~dGd~V~v~s~~G~v~~~a~vt~~i~~g~V~~p~~~ 827 (847)
T PRK08166 784 ADAARLGVNAGARVSFSCDGQTLRLPVRLSEGLAAGQVGLPLGL 827 (847)
T ss_pred HHHHHcCCCCCCEEEEEECCeEEEEEEEEcCCCCCCEEEecCCC
Confidence 45788999999999999887666777777778888999999873
No 92
>PRK09570 rpoH DNA-directed RNA polymerase subunit H; Reviewed
Probab=24.04 E-value=88 Score=21.66 Aligned_cols=22 Identities=23% Similarity=0.163 Sum_probs=18.6
Q ss_pred hhhhhcCCCCCCEEEEEEcCCC
Q 041585 105 DFVRRRELAAGDEIGMCWDSFY 126 (155)
Q Consensus 105 ~fVr~~~Lk~GD~I~f~wd~~~ 126 (155)
-+++..|++.||+|-+-++..+
T Consensus 45 Pv~r~~g~k~GdVvkI~R~S~t 66 (79)
T PRK09570 45 PVVKAIGAKPGDVIKIVRKSPT 66 (79)
T ss_pred hhhhhcCCCCCCEEEEEECCCC
Confidence 5778889999999999887554
No 93
>COG2336 MazE Growth regulator [Signal transduction mechanisms]
Probab=23.47 E-value=73 Score=22.31 Aligned_cols=35 Identities=23% Similarity=0.426 Sum_probs=27.2
Q ss_pred EEEEEeCCCCceEEcCCchHhhhhhcCCCCCCEEEEEEc
Q 041585 85 LVFKKWATSNSYVLINHWTADFVRRRELAAGDEIGMCWD 123 (155)
Q Consensus 85 ~~~k~w~~~~syvL~~GW~~~fVr~~~Lk~GD~I~f~wd 123 (155)
.+.++|++|---.|=. .+++.-+|..||.|.+--+
T Consensus 3 ~~I~KWGNS~avrIP~----~l~kql~l~~g~~v~v~v~ 37 (82)
T COG2336 3 TTIKKWGNSAAVRIPA----ALLKQLNLTIGDEVEVEVG 37 (82)
T ss_pred EehhhhCCcceeeccH----HHHHHhCCCcCceEEEEEc
Confidence 4567888755455543 8999999999999999876
No 94
>TIGR00638 Mop molybdenum-pterin binding domain. This model describes a multigene family of molybdenum-pterin binding proteins of about 70 amino acids in Clostridium pasteurianum, as a tandemly-repeated domain C-terminal to an unrelated domain in ModE, a molybdate transport gene repressor of E. coli, and in single or tandemly paired domains in several related proteins.
Probab=23.13 E-value=86 Score=19.64 Aligned_cols=21 Identities=19% Similarity=0.147 Sum_probs=18.1
Q ss_pred hhhhhcCCCCCCEEEEEEcCC
Q 041585 105 DFVRRRELAAGDEIGMCWDSF 125 (155)
Q Consensus 105 ~fVr~~~Lk~GD~I~f~wd~~ 125 (155)
.-+.+.+|++||.|.+.+...
T Consensus 42 ~~~~~l~l~~G~~v~~~ik~~ 62 (69)
T TIGR00638 42 ESVAELGLKPGKEVYAVIKAP 62 (69)
T ss_pred HHHhhCCCCCCCEEEEEEECc
Confidence 667889999999999999754
No 95
>COG3466 ISA1214 Putative transposon-encoded protein [Function unknown]
Probab=23.10 E-value=68 Score=20.54 Aligned_cols=32 Identities=19% Similarity=0.130 Sum_probs=24.2
Q ss_pred eecC-CCCeEEEEEeecCCCCCCCCEEeehHHHHH
Q 041585 16 LDLF-TYPWSITKILTRSDLGHLSRLLVQTRLAER 49 (155)
Q Consensus 16 l~l~-~~pw~fkK~LT~SDV~~~~RLvLPk~~~e~ 49 (155)
+.|. +-.-.|+|+.|+- |+.+.+.+||+++-.
T Consensus 11 ~il~~~ve~~~ek~Vtpf--GnsakVdvPK~yiG~ 43 (52)
T COG3466 11 FILKEEVEVVFEKRVTPF--GNSAKVDVPKRYIGK 43 (52)
T ss_pred EEechheEEEEEEEEEec--CCcceeeCchHHcCc
Confidence 3444 3446689999987 889999999998754
No 96
>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=22.72 E-value=2.3e+02 Score=18.51 Aligned_cols=34 Identities=24% Similarity=0.382 Sum_probs=23.1
Q ss_pred eEEEEEECCCCcEEEEEEEEeCCCCceEEcCCchHhhhhhcCCCCCCEEEEE
Q 041585 70 LRVSVWDCDTNSMHRLVFKKWATSNSYVLINHWTADFVRRRELAAGDEIGMC 121 (155)
Q Consensus 70 i~V~v~D~dt~~~w~~~~k~w~~~~syvL~~GW~~~fVr~~~Lk~GD~I~f~ 121 (155)
..+.+.| +|| .+++..|.... ...+++||.|.+-
T Consensus 25 ~~~~l~D-~TG---~i~~~~W~~~~--------------~~~~~~G~vv~i~ 58 (82)
T cd04491 25 QSGLVGD-ETG---TIRFTLWDEKA--------------ADDLEPGDVVRIE 58 (82)
T ss_pred EEEEEEC-CCC---EEEEEEECchh--------------cccCCCCCEEEEE
Confidence 4567778 576 57787786421 4458899988775
No 97
>TIGR02166 dmsA_ynfE anaerobic dimethyl sulfoxide reductase, A subunit, DmsA/YnfE family. Members of this family include known and probable dimethyl sulfoxide reductase (DMSO reductase) A chains. In E. coli, dmsA encodes the canonical anaerobic DMSO reductase A chain. The paralog ynfE, as part of ynfFGH expressed from a multicopy plasmid, could complement a dmsABC deletion, suggesting a similar function and some overlap in specificity, although YnfE could not substitute for DmsA in a mixed complex.
Probab=22.61 E-value=1.2e+02 Score=28.81 Aligned_cols=43 Identities=9% Similarity=0.050 Sum_probs=33.3
Q ss_pred hhhhhcCCCCCCEEEEEEcCCCCeEEEEEEeecCCCceeeecc
Q 041585 105 DFVRRRELAAGDEIGMCWDSFYSRFNFSILKRAPAPTIIVQDH 147 (155)
Q Consensus 105 ~fVr~~~Lk~GD~I~f~wd~~~~~l~F~vl~r~~~~~~~~~~~ 147 (155)
+=.++++|+.||.|.++-++..-+..-.|-..-.+.++.+++|
T Consensus 712 ~dA~~lGI~dGD~V~V~s~~G~~~~~a~vt~~i~pg~V~~~~G 754 (797)
T TIGR02166 712 IDAQKRGITNGDMVRIFNSRGEVEIPAKVTPRIMPGVVALGQG 754 (797)
T ss_pred HHHHHhCCCcCCEEEEEeCCeEEEEEEEECCCCCCCeEEecCc
Confidence 5578999999999999998765555555556677778888776
No 98
>KOG0296 consensus Angio-associated migratory cell protein (contains WD40 repeats) [Function unknown]
Probab=22.39 E-value=1.5e+02 Score=26.53 Aligned_cols=63 Identities=14% Similarity=0.193 Sum_probs=43.4
Q ss_pred eEEEEEECCCCcEEEEEEEE----------eCCCCceEEcCCchHhhhhhcCCCCCCEEEEEEcCCCCeEEEEEEeec
Q 041585 70 LRVSVWDCDTNSMHRLVFKK----------WATSNSYVLINHWTADFVRRRELAAGDEIGMCWDSFYSRFNFSILKRA 137 (155)
Q Consensus 70 i~V~v~D~dt~~~w~~~~k~----------w~~~~syvL~~GW~~~fVr~~~Lk~GD~I~f~wd~~~~~l~F~vl~r~ 137 (155)
-+|.+||.. .|++|++. |-+ ..|+|+.-=. ..||.-+-+.|-...-|..-....++|++..++
T Consensus 308 G~i~iyD~a---~~~~R~~c~he~~V~~l~w~~-t~~l~t~c~~-g~v~~wDaRtG~l~~~y~GH~~~Il~f~ls~~~ 380 (399)
T KOG0296|consen 308 GTIAIYDLA---ASTLRHICEHEDGVTKLKWLN-TDYLLTACAN-GKVRQWDARTGQLKFTYTGHQMGILDFALSPQK 380 (399)
T ss_pred ceEEEEecc---cchhheeccCCCceEEEEEcC-cchheeeccC-ceEEeeeccccceEEEEecCchheeEEEEcCCC
Confidence 578999974 47888774 333 3566665333 567777777787777777767777888877654
No 99
>PF11604 CusF_Ec: Copper binding periplasmic protein CusF; InterPro: IPR021647 CusF is a periplasmic protein involved in copper and silver resistance in Escherichia coil. CusF forms a five-stranded beta-barrel OB fold. Cu(I) binds to H36, M47 and M49 which are conserved residues in the protein []. ; PDB: 2L55_A 2VB3_X 1ZEQ_X 2QCP_X 3E6Z_X 2VB2_X.
Probab=22.36 E-value=1.4e+02 Score=19.63 Aligned_cols=28 Identities=11% Similarity=0.298 Sum_probs=15.5
Q ss_pred hhcCCCCCCEEEEEEcCCCCe-EEEEEEe
Q 041585 108 RRRELAAGDEIGMCWDSFYSR-FNFSILK 135 (155)
Q Consensus 108 r~~~Lk~GD~I~f~wd~~~~~-l~F~vl~ 135 (155)
--.+|++||.|.|--.+.... +...-|+
T Consensus 39 ~l~~l~~Gd~V~F~~~~~~~~~~~I~~i~ 67 (70)
T PF11604_consen 39 DLAGLKPGDKVRFTFERTDDGSYVITAIE 67 (70)
T ss_dssp EESS-STT-EEEEEEEEETTCEEEEEEEE
T ss_pred hhhcCCCCCEEEEEEEECCCCcEEEEEEE
Confidence 346789999998865544433 5444343
No 100
>PRK00809 hypothetical protein; Provisional
Probab=22.24 E-value=74 Score=24.16 Aligned_cols=18 Identities=11% Similarity=0.349 Sum_probs=15.2
Q ss_pred hhhhhcCCCCCCEEEEEEcC
Q 041585 105 DFVRRRELAAGDEIGMCWDS 124 (155)
Q Consensus 105 ~fVr~~~Lk~GD~I~f~wd~ 124 (155)
.++|+ +++||.|.||--.
T Consensus 30 n~lr~--Mk~GD~v~fYhs~ 47 (144)
T PRK00809 30 NTIEK--VKPGDKLIIYVSQ 47 (144)
T ss_pred hHHhh--CCCCCEEEEEECC
Confidence 66766 9999999999865
No 101
>KOG0640 consensus mRNA cleavage stimulating factor complex; subunit 1 [RNA processing and modification]
Probab=22.19 E-value=2.2e+02 Score=25.24 Aligned_cols=45 Identities=22% Similarity=0.229 Sum_probs=34.6
Q ss_pred CCCceEEcCCchHhhhhhcCCCCCCEEEEEEcCCCCeEEEEEEeecCCCceeeecchhhhc
Q 041585 92 TSNSYVLINHWTADFVRRRELAAGDEIGMCWDSFYSRFNFSILKRAPAPTIIVQDHADVAA 152 (155)
Q Consensus 92 ~~~syvL~~GW~~~fVr~~~Lk~GD~I~f~wd~~~~~l~F~vl~r~~~~~~~~~~~~~~~~ 152 (155)
.++.|+|++|= |.++-.|..++++- +...-.+.+-..|+|++-|.
T Consensus 315 kn~kyiLsSG~-------------DS~vkLWEi~t~R~---l~~YtGAg~tgrq~~rtqAv 359 (430)
T KOG0640|consen 315 KNGKYILSSGK-------------DSTVKLWEISTGRM---LKEYTGAGTTGRQKHRTQAV 359 (430)
T ss_pred cCCeEEeecCC-------------cceeeeeeecCCce---EEEEecCCcccchhhhhhhh
Confidence 35678888762 77888898888886 66677788888899988764
No 102
>cd05827 Sortase_C_3 Sortase C (SrtC) or subfamily-3 sortases are membrane cysteine transpeptidases found in Gram-positive bacteria that anchor surface proteins to peptidoglycans of the bacterial cell wall envelope. This involves a transpeptidation reaction in which the surface protein substrate is cleaved at a conserved cell wall sorting signal and covalently linked to peptidoglycan for display on the bacterial surface. Sortases are grouped into different classes and subfamilies based on sequence, membrane topology, genomic positioning, and cleavage site preference. Sortase C cleaves surface proteins at the LPXTG motif between Thr and Gly and catalyzes the formation of an amide bond between the carboxyl group of Thr and the amino group of cell-wall cross bridges. It is a narrow-range enzyme required for anchoring a few substrates. It plays a role in Streptococcus pneumoniae pathogenesis and is required in the assembly of pili on the surface of Corynebacterium diphtheriae. Sortase C is
Probab=21.78 E-value=2.1e+02 Score=20.66 Aligned_cols=42 Identities=14% Similarity=0.155 Sum_probs=29.7
Q ss_pred CCceEEcCCc----hHhhhhhcCCCCCCEEEEEEcCCCCeEEEEEEee
Q 041585 93 SNSYVLINHW----TADFVRRRELAAGDEIGMCWDSFYSRFNFSILKR 136 (155)
Q Consensus 93 ~~syvL~~GW----~~~fVr~~~Lk~GD~I~f~wd~~~~~l~F~vl~r 136 (155)
+++++|.|+= ...|-.-..|+.||.|.+... ...+.|.|...
T Consensus 44 ~~N~viaGH~~~~~~~~F~~L~~l~~gd~i~l~t~--~~~~~Y~V~~~ 89 (131)
T cd05827 44 GTHSVITGHRGLPNAKLFTDLDKLKKGDKFYIHVL--GETLAYQVDQI 89 (131)
T ss_pred CCEEEEEeCCCCCCCcccCCHHHCCCCCEEEEEEC--CeEEEEEEEEE
Confidence 4567777652 114778888999999999864 45787887654
No 103
>cd00991 PDZ_archaeal_metalloprotease PDZ domain of archaeal zinc metalloprotases, presumably membrane-associated or integral membrane proteases, which may be involved in signalling and regulatory mechanisms. May be responsible for substrate recognition and/or binding, as most PDZ domains bind C-terminal polypeptides, and binding to internal (non-C-terminal) polypeptides and even to lipids has been demonstrated. In this subfamily of protease-associated PDZ domains a C-terminal beta-strand forms the peptide-binding groove base, a circular permutation with respect to PDZ domains found in Eumetazoan signaling proteins.
Probab=21.74 E-value=66 Score=21.08 Aligned_cols=12 Identities=33% Similarity=0.318 Sum_probs=10.2
Q ss_pred hhcCCCCCCEEE
Q 041585 108 RRRELAAGDEIG 119 (155)
Q Consensus 108 r~~~Lk~GD~I~ 119 (155)
...+|++||+|.
T Consensus 24 ~~aGL~~GDiI~ 35 (79)
T cd00991 24 ENAVLHTGDVIY 35 (79)
T ss_pred HhcCCCCCCEEE
Confidence 567899999987
No 104
>PRK06461 single-stranded DNA-binding protein; Reviewed
Probab=21.59 E-value=2.2e+02 Score=20.85 Aligned_cols=45 Identities=13% Similarity=0.296 Sum_probs=28.2
Q ss_pred EEEEEECCCCcEEEEEEEEeCCCCceEEcCCchHhhhhhcCCCCCCEEEEEE---cCCCCeEEEEEE
Q 041585 71 RVSVWDCDTNSMHRLVFKKWATSNSYVLINHWTADFVRRRELAAGDEIGMCW---DSFYSRFNFSIL 134 (155)
Q Consensus 71 ~V~v~D~dt~~~w~~~~k~w~~~~syvL~~GW~~~fVr~~~Lk~GD~I~f~w---d~~~~~l~F~vl 134 (155)
.+.|-| +||. +++..|.. ....|++||+|.+.- ..+.+++...+-
T Consensus 43 ~~~l~D-~TG~---I~~tlW~~---------------~a~~l~~GdvV~I~na~v~~f~G~lqL~i~ 90 (129)
T PRK06461 43 EAVVGD-ETGR---VKLTLWGE---------------QAGSLKEGEVVEIENAWTTLYRGKVQLNVG 90 (129)
T ss_pred EEEEEC-CCCE---EEEEEeCC---------------ccccCCCCCEEEEECcEEeeeCCEEEEEEC
Confidence 456677 5773 66666753 123588999998861 345666666655
No 105
>PHA02872 EFc gene family protein; Provisional
Probab=21.50 E-value=1.7e+02 Score=21.82 Aligned_cols=35 Identities=26% Similarity=0.331 Sum_probs=26.6
Q ss_pred hhhhhcC--CCCCCEEEEEEcCCCCeEEEEEEeecCC
Q 041585 105 DFVRRRE--LAAGDEIGMCWDSFYSRFNFSILKRAPA 139 (155)
Q Consensus 105 ~fVr~~~--Lk~GD~I~f~wd~~~~~l~F~vl~r~~~ 139 (155)
+|-+.+- +.+||.+.+|.-...+-|-|+|.+-..+
T Consensus 47 ~f~~~~ylca~~gdtvkIYflEGkG~LIfSv~dv~sp 83 (124)
T PHA02872 47 DFCRPRYLCADAGDTVKIYFLEGKGGLIFSVSDVGSP 83 (124)
T ss_pred ccccceEeeecCCCeEEEEEEecCCcEEEEEEecCCC
Confidence 4444443 4579999999988899999999876644
No 106
>PRK01777 hypothetical protein; Validated
Probab=21.20 E-value=66 Score=22.78 Aligned_cols=15 Identities=20% Similarity=0.288 Sum_probs=12.8
Q ss_pred hhcCCCCCCEEEEEE
Q 041585 108 RRRELAAGDEIGMCW 122 (155)
Q Consensus 108 r~~~Lk~GD~I~f~w 122 (155)
-+.-|++||.|.+|.
T Consensus 61 ~d~~L~dGDRVeIyr 75 (95)
T PRK01777 61 LTDVLRDGDRVEIYR 75 (95)
T ss_pred CCCcCCCCCEEEEec
Confidence 356799999999997
No 107
>TIGR03479 DMSO_red_II_alp DMSO reductase family type II enzyme, molybdopterin subunit. This model represents the molybdopterin subunit, typically called the alpha subunit, of various proteins that also contain an iron-sulfur subunit and a heme b subunit. The group includes two distinct but very closely related periplasmic proteins of anaerobic respiration, selenate reductase and chlorate reductase. Other members of this family include dimethyl sulphide dehydrogenase, ethylbenzene dehydrogenase, and an archaeal respiratory nitrate reductase. This alpha subunit has a twin-arginine translocation (TAT) signal for Sec-independent translocation across the plasma membrane.
Probab=20.92 E-value=1.4e+02 Score=29.09 Aligned_cols=44 Identities=14% Similarity=0.018 Sum_probs=33.3
Q ss_pred hhhhhcCCCCCCEEEEEEcCCCCeEEEEEEeecCCCceeeecch
Q 041585 105 DFVRRRELAAGDEIGMCWDSFYSRFNFSILKRAPAPTIIVQDHA 148 (155)
Q Consensus 105 ~fVr~~~Lk~GD~I~f~wd~~~~~l~F~vl~r~~~~~~~~~~~~ 148 (155)
+=.++++++.||.|-+|-++..-.+.-.|-.+-++.++..+++.
T Consensus 817 ~DA~~~GI~dGD~V~V~n~~G~~~~~a~vt~~i~pG~v~~~~gw 860 (912)
T TIGR03479 817 KDAAEKGIKDGDQVRIFNDLAEFEAMAKIYPGLQPGTCIMYHGW 860 (912)
T ss_pred HHHHHcCCCcCCEEEEEeCCcEEEEEEEEcCCCCCCeEEEeecc
Confidence 45678899999999999987655555555567777777777765
No 108
>TIGR02164 torA trimethylamine-N-oxide reductase TorA. This very narrowly defined family represents TorA, part of a family of related molybdoenzymes that include biotin sulfoxide reductases, dimethyl sulfoxide reductases, and at least two different subfamilies of trimethylamine-N-oxide reductases. A single enzyme from the larger family may have more than one activity. TorA typically is located in the periplasm, has a Tat (twin-arginine translocation)-dependent signal sequence, and is encoded in a torCAD operon.
Probab=20.85 E-value=1.2e+02 Score=28.94 Aligned_cols=43 Identities=12% Similarity=0.065 Sum_probs=33.1
Q ss_pred hhhhhcCCCCCCEEEEEEcCCCCeEEEEEEeecCCCceeeecc
Q 041585 105 DFVRRRELAAGDEIGMCWDSFYSRFNFSILKRAPAPTIIVQDH 147 (155)
Q Consensus 105 ~fVr~~~Lk~GD~I~f~wd~~~~~l~F~vl~r~~~~~~~~~~~ 147 (155)
+=.++++++.||.|.++-++..-+..-.|-.+-.+.++.++++
T Consensus 714 ~dA~~~GI~dGD~V~V~n~~G~v~~~A~vt~~i~pG~V~~~~G 756 (822)
T TIGR02164 714 VDAKARGIKDGDLVRVFNDRGQLLAGAVVSDNFPKGVVRIHEG 756 (822)
T ss_pred HHHHHcCCCCCCEEEEECCCcEEEEEEEECCCcCCCeEEecCc
Confidence 5578899999999999998766556555656677777777665
No 109
>PRK09129 NADH dehydrogenase subunit G; Validated
Probab=20.81 E-value=1.4e+02 Score=28.31 Aligned_cols=48 Identities=15% Similarity=0.122 Sum_probs=39.1
Q ss_pred hhhhhcCCCCCCEEEEEEcCCCCeEEEEEEeecCCCceeeecchhhhc
Q 041585 105 DFVRRRELAAGDEIGMCWDSFYSRFNFSILKRAPAPTIIVQDHADVAA 152 (155)
Q Consensus 105 ~fVr~~~Lk~GD~I~f~wd~~~~~l~F~vl~r~~~~~~~~~~~~~~~~ 152 (155)
+=.++.+|+.||.|.+......-++.-.|-.+-...++.+|.|...+|
T Consensus 715 ~dA~~lgi~dGd~V~v~s~~G~i~~~a~i~~~v~~g~V~~p~g~~~~~ 762 (776)
T PRK09129 715 ELAARLGLKEGDAVRVRQGDGEVTLPVVLDDRLAEGVVRVAAAHPATA 762 (776)
T ss_pred HHHHHcCCCCCCEEEEEcCCeeEEEEEEEcCCCCCCEEEeecCChhhh
Confidence 447889999999999999877666777777788889999998876554
No 110
>PF14478 DUF4430: Domain of unknown function (DUF4430); PDB: 3U7Z_B 2BB5_A.
Probab=20.72 E-value=40 Score=21.89 Aligned_cols=17 Identities=24% Similarity=0.147 Sum_probs=9.7
Q ss_pred hhhhhcCCCCCCEEEEE
Q 041585 105 DFVRRRELAAGDEIGMC 121 (155)
Q Consensus 105 ~fVr~~~Lk~GD~I~f~ 121 (155)
.-+....|+.||.|.|+
T Consensus 52 ~ga~~~~l~~GD~i~~~ 68 (68)
T PF14478_consen 52 VGAGSYKLKDGDKITWY 68 (68)
T ss_dssp S-CCC-B--TTEEEEE-
T ss_pred cCcceeEeCCCCEEEeC
Confidence 34567789999999885
No 111
>KOG1816 consensus Ubiquitin fusion-degradation protein [Posttranslational modification, protein turnover, chaperones]
Probab=20.72 E-value=4.8e+02 Score=22.59 Aligned_cols=79 Identities=20% Similarity=0.259 Sum_probs=48.9
Q ss_pred ecCCCCCCCCEEeehHHHHHcCCCCCCccccccccCCCCCeEEEEEECCCCcEEEEEEEEeCCCCceEEcCCchHhhhhh
Q 041585 30 TRSDLGHLSRLLVQTRLAERYVMPFLDEASRSEVIGNPEGLRVSVWDCDTNSMHRLVFKKWATSNSYVLINHWTADFVRR 109 (155)
Q Consensus 30 T~SDV~~~~RLvLPk~~~e~~ilP~l~~~~~~~~~~~~~gi~V~v~D~dt~~~w~~~~k~w~~~~syvL~~GW~~~fVr~ 109 (155)
..||++..+.++||...+.. |-.+... -+.=..+...|.+ -.+|.=.+.+-...+.-+|- -|++ ..
T Consensus 30 ~~s~~~~GgKIilPPSaL~~--Ls~lnI~-------yPMlFkLtn~~~~-r~THcGVLEF~AeEG~vyLP-~WMm---q~ 95 (308)
T KOG1816|consen 30 DRSDVNKGGKIILPPSALDR--LSSLNIT-------YPMLFKLTNVDVD-RVTHCGVLEFTAEEGRVYLP-YWMM---QN 95 (308)
T ss_pred cccccccCCeEEeCHHHHHH--HHHhcCC-------CceEEEEeccccc-eeeeeeEEEEEecCceEEee-hHhh---hh
Confidence 67899999999999988776 2222211 0111233333432 24555556666666665565 7986 55
Q ss_pred cCCCCCCEEEEEE
Q 041585 110 RELAAGDEIGMCW 122 (155)
Q Consensus 110 ~~Lk~GD~I~f~w 122 (155)
-.|.+||.|-+-.
T Consensus 96 L~le~gdlv~i~~ 108 (308)
T KOG1816|consen 96 LLLEEGDLVRIRS 108 (308)
T ss_pred ccCCCCCeEEEEE
Confidence 6899999998743
No 112
>PF07591 PT-HINT: Pretoxin HINT domain; InterPro: IPR011451 This entry represents a cluster of homologous proteins identified in Leptospira interrogans. One member (Q8EZX6 from SWISSPROT) has been predicted to be a phenazine biosynthesis family protein.; PDB: 2JNQ_A 2JMZ_A.
Probab=20.60 E-value=42 Score=24.83 Aligned_cols=18 Identities=22% Similarity=0.468 Sum_probs=10.0
Q ss_pred cCCchHhhhhhcCCCCCCEEEE
Q 041585 99 INHWTADFVRRRELAAGDEIGM 120 (155)
Q Consensus 99 ~~GW~~~fVr~~~Lk~GD~I~f 120 (155)
.+||. +...|++||.|.-
T Consensus 68 ~~gWv----~A~~L~~GD~L~~ 85 (130)
T PF07591_consen 68 GKGWV----EAEDLKVGDRLLT 85 (130)
T ss_dssp ----E----EGGG--TTSEEEE
T ss_pred hHhhh----hHhhCCCCCEEEc
Confidence 35676 8999999999854
No 113
>TIGR02227 sigpep_I_bact signal peptidase I, bacterial type. A related model finds a simlar protein in many archaea and a few bacteria, as well as a microsomal (endoplasmic reticulum) protein in eukaryotes.
Probab=20.30 E-value=2.6e+02 Score=21.05 Aligned_cols=35 Identities=9% Similarity=0.043 Sum_probs=17.7
Q ss_pred cCCCCCCEEEEEEcCCCC-eEEEEEEeecCCCceeee
Q 041585 110 RELAAGDEIGMCWDSFYS-RFNFSILKRAPAPTIIVQ 145 (155)
Q Consensus 110 ~~Lk~GD~I~f~wd~~~~-~l~F~vl~r~~~~~~~~~ 145 (155)
..++.||+|.|......+ .+.=.|+.. +...+.+.
T Consensus 50 ~~~~rGDiVvf~~~~~~~~~~iKRVig~-pGd~v~i~ 85 (163)
T TIGR02227 50 SDPKRGDIVVFKDPDDNKNIYVKRVIGL-PGDKVEFR 85 (163)
T ss_pred CCCCCCcEEEEecCCCCCceeEEEEEec-CCCEEEEE
Confidence 567788877776543332 333333322 34455443
No 114
>PF08021 FAD_binding_9: Siderophore-interacting FAD-binding domain; InterPro: IPR013113 Proteins in this entry are siderophore-interacting FAD-binding proteins. This entry includes the vibriobactin utilization protein ViuB, which is involved in the removal of iron from iron-vibriobactin complexes, as well as several hypothetical proteins.; PDB: 2GPJ_A.
Probab=20.22 E-value=1.8e+02 Score=20.89 Aligned_cols=85 Identities=22% Similarity=0.273 Sum_probs=30.6
Q ss_pred CeEEEEEeecCCCCCC--------CCEEeehHHHHHcCCCCCCcccccc--ccCC--CCCeEEEEEECCCCcEEEEEEEE
Q 041585 22 PWSITKILTRSDLGHL--------SRLLVQTRLAERYVMPFLDEASRSE--VIGN--PEGLRVSVWDCDTNSMHRLVFKK 89 (155)
Q Consensus 22 pw~fkK~LT~SDV~~~--------~RLvLPk~~~e~~ilP~l~~~~~~~--~~~~--~~gi~V~v~D~dt~~~w~~~~k~ 89 (155)
|-+.+-+|+..++... -+|++|......-..|.++.....- .... .-..+|.=+|.+++ +-.+-
T Consensus 10 P~~~Rv~l~g~~l~~~~~~~~d~~ikL~~p~~~~~~~~~~~~~~~~~~~~~~~~~p~~R~YTvR~~d~~~~-~l~iD--- 85 (117)
T PF08021_consen 10 PHMRRVTLGGEDLAGFPSWGPDQHIKLFFPPPGGDPPLPPPLDEGGYRWPPDEQRPVMRTYTVRRFDPETG-ELDID--- 85 (117)
T ss_dssp TTEEEEEEESGGGTT--S--TT-EEEEEE--TTS----------------------EEEEEE--EEETT---EEEEE---
T ss_pred CCEEEEEEECCCcccCccCCCCcEEEEEeCCCCCCccccccccccccccccccCCCCCCCcCEeeEcCCCC-EEEEE---
Confidence 4556666776666432 3788887665543334433221000 0000 01234444555433 12222
Q ss_pred eCCCCceEEcCC------chHhhhhhcCCCCCCEEEEEE
Q 041585 90 WATSNSYVLINH------WTADFVRRRELAAGDEIGMCW 122 (155)
Q Consensus 90 w~~~~syvL~~G------W~~~fVr~~~Lk~GD~I~f~w 122 (155)
+|++++ |. +..+.||.|+|.-
T Consensus 86 ------fv~Hg~~Gpas~WA------~~A~pGd~v~v~g 112 (117)
T PF08021_consen 86 ------FVLHGDEGPASRWA------RSARPGDRVGVTG 112 (117)
T ss_dssp ------EE--SS--HHHHHH------HH--TT-EEEEEE
T ss_pred ------EEECCCCCchHHHH------hhCCCCCEEEEeC
Confidence 555554 65 5678999999874
Done!