Query 018608
Match_columns 353
No_of_seqs 154 out of 911
Neff 4.0
Searched_HMMs 46136
Date Fri Mar 29 02:31:41 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/018608.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/018608hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG1603 Copper chaperone [Inor 99.5 2.2E-13 4.7E-18 106.2 8.3 67 1-70 5-72 (73)
2 PF00403 HMA: Heavy-metal-asso 99.3 9.2E-12 2E-16 92.2 8.3 58 7-64 2-62 (62)
3 COG2608 CopZ Copper chaperone 99.2 4.8E-11 1E-15 92.9 8.1 64 5-68 4-70 (71)
4 KOG4656 Copper chaperone for s 99.1 1.7E-10 3.8E-15 107.9 7.4 68 3-73 9-76 (247)
5 PLN02957 copper, zinc superoxi 98.3 5.6E-06 1.2E-10 77.8 10.1 61 11-71 13-73 (238)
6 PRK10671 copA copper exporting 98.2 2.2E-06 4.9E-11 92.5 8.1 67 1-69 1-67 (834)
7 TIGR00003 copper ion binding p 97.6 0.00065 1.4E-08 45.3 8.5 61 5-65 4-67 (68)
8 COG2217 ZntA Cation transport 97.1 0.0012 2.6E-08 71.6 7.7 63 4-67 3-69 (713)
9 PRK10671 copA copper exporting 96.7 0.004 8.6E-08 67.8 8.0 66 4-69 100-165 (834)
10 KOG0207 Cation transport ATPas 96.7 0.0028 6.1E-08 70.1 6.0 63 10-72 1-65 (951)
11 KOG0207 Cation transport ATPas 95.4 0.036 7.9E-07 61.6 7.3 66 5-70 148-216 (951)
12 PRK11033 zntA zinc/cadmium/mer 95.4 0.041 8.8E-07 59.7 7.6 64 4-68 54-119 (741)
13 TIGR02052 MerP mercuric transp 94.3 0.57 1.2E-05 34.7 9.1 63 5-67 25-90 (92)
14 cd00371 HMA Heavy-metal-associ 92.8 1.2 2.7E-05 26.4 7.4 54 9-62 4-59 (63)
15 COG1888 Uncharacterized protei 90.0 0.59 1.3E-05 39.6 4.7 48 19-66 22-77 (97)
16 PF02680 DUF211: Uncharacteriz 86.4 1.1 2.3E-05 38.1 4.1 47 19-65 20-74 (95)
17 PRK13748 putative mercuric red 86.4 3.5 7.5E-05 42.5 8.7 64 7-70 4-69 (561)
18 PF04972 BON: BON domain; Int 70.4 2.8 6.1E-05 30.9 1.6 39 19-58 2-43 (64)
19 PF01883 DUF59: Domain of unkn 62.6 12 0.00026 28.4 3.8 34 3-36 36-72 (72)
20 PF13732 DUF4162: Domain of un 54.1 29 0.00064 26.7 4.7 44 24-68 25-69 (84)
21 PRK10553 assembly protein for 54.0 88 0.0019 25.9 7.7 55 4-60 7-62 (87)
22 cd04883 ACT_AcuB C-terminal AC 52.7 90 0.0019 22.9 7.9 52 17-69 14-71 (72)
23 cd04909 ACT_PDH-BS C-terminal 52.2 74 0.0016 23.4 6.5 62 2-65 1-69 (69)
24 KOG2236 Uncharacterized conser 52.1 68 0.0015 34.3 8.3 10 36-45 86-95 (483)
25 TIGR03406 FeS_long_SufT probab 50.7 27 0.00059 32.2 4.7 37 3-39 115-154 (174)
26 COG3062 NapD Uncharacterized p 50.0 70 0.0015 27.3 6.6 56 4-61 8-63 (94)
27 PF03927 NapD: NapD protein; 49.9 1.3E+02 0.0029 24.0 8.2 55 4-61 5-60 (79)
28 COG2151 PaaD Predicted metal-s 48.6 29 0.00064 30.0 4.3 36 3-38 51-89 (111)
29 PRK01777 hypothetical protein; 48.4 7.7 0.00017 32.4 0.7 58 21-83 29-89 (95)
30 PRK11023 outer membrane lipopr 47.9 43 0.00093 30.8 5.5 41 18-58 129-171 (191)
31 PF08712 Nfu_N: Scaffold prote 44.3 46 0.00099 27.2 4.6 40 19-60 37-78 (87)
32 KOG3411 40S ribosomal protein 43.1 33 0.00071 31.1 3.8 49 10-61 92-141 (143)
33 PF08002 DUF1697: Protein of u 42.9 69 0.0015 28.1 5.8 49 18-67 21-74 (137)
34 PRK11198 LysM domain/BON super 42.4 33 0.00072 30.3 3.8 48 18-65 28-76 (147)
35 PF01206 TusA: Sulfurtransfera 41.3 61 0.0013 24.4 4.6 55 6-67 2-56 (70)
36 cd06167 LabA_like LabA_like pr 41.3 35 0.00075 28.8 3.6 32 40-71 101-132 (149)
37 PRK11023 outer membrane lipopr 40.8 49 0.0011 30.4 4.8 45 20-64 53-100 (191)
38 PF05046 Img2: Mitochondrial l 40.1 78 0.0017 25.8 5.4 47 16-63 40-87 (87)
39 cd03028 GRX_PICOT_like Glutare 40.0 84 0.0018 24.9 5.5 43 10-64 19-62 (90)
40 PRK11200 grxA glutaredoxin 1; 36.3 46 0.001 25.8 3.3 27 13-40 10-40 (85)
41 COG1094 Predicted RNA-binding 35.9 62 0.0013 30.8 4.6 39 19-58 27-68 (194)
42 PF10262 Rdx: Rdx family; Int 35.7 1.9E+02 0.0042 22.5 6.8 13 48-60 63-75 (76)
43 TIGR02194 GlrX_NrdH Glutaredox 34.6 1.2E+02 0.0025 22.8 5.2 26 13-40 8-33 (72)
44 TIGR02945 SUF_assoc FeS assemb 34.2 75 0.0016 25.6 4.4 37 3-39 39-78 (99)
45 cd04888 ACT_PheB-BS C-terminal 34.1 1.2E+02 0.0026 22.3 5.2 20 17-36 55-74 (76)
46 PF04468 PSP1: PSP1 C-terminal 33.5 1.4E+02 0.0031 24.2 5.9 52 16-68 30-86 (88)
47 PF00679 EFG_C: Elongation fac 32.7 86 0.0019 24.9 4.5 48 5-55 7-55 (89)
48 PRK11018 hypothetical protein; 32.7 1.4E+02 0.0031 23.5 5.7 56 4-66 8-63 (78)
49 cd02410 archeal_CPSF_KH The ar 31.6 1.7E+02 0.0037 26.7 6.5 56 20-75 57-119 (145)
50 KOG1924 RhoA GTPase effector D 31.5 2.5E+02 0.0054 32.4 9.0 11 48-58 453-463 (1102)
51 PRK10555 aminoglycoside/multid 31.4 74 0.0016 36.4 5.2 44 18-61 159-210 (1037)
52 PRK11670 antiporter inner memb 30.6 1.5E+02 0.0033 30.0 6.7 69 3-71 49-145 (369)
53 cd08623 PI-PLCc_beta1 Catalyti 30.6 56 0.0012 32.2 3.6 46 18-65 32-88 (258)
54 cd03026 AhpF_NTD_C TRX-GRX-lik 30.6 1.3E+02 0.0027 24.2 5.1 32 7-38 20-51 (89)
55 PRK10568 periplasmic protein; 30.1 83 0.0018 29.2 4.5 40 18-57 62-103 (203)
56 cd03421 SirA_like_N SirA_like_ 30.0 1.5E+02 0.0033 22.1 5.2 54 7-68 2-55 (67)
57 cd08630 PI-PLCc_delta3 Catalyt 29.8 47 0.001 32.7 2.9 46 18-65 32-86 (258)
58 cd08591 PI-PLCc_beta Catalytic 29.5 47 0.001 32.6 2.9 46 18-65 32-88 (257)
59 PF01936 NYN: NYN domain; Int 29.2 41 0.0009 27.7 2.2 31 40-70 97-127 (146)
60 PF09580 Spore_YhcN_YlaJ: Spor 29.2 1.4E+02 0.003 26.4 5.5 30 17-46 76-105 (177)
61 cd04886 ACT_ThrD-II-like C-ter 28.5 1.4E+02 0.003 21.1 4.6 48 19-66 13-72 (73)
62 COG3643 Glutamate formiminotra 27.9 66 0.0014 32.1 3.5 52 16-67 18-72 (302)
63 PRK06418 transcription elongat 27.2 1.2E+02 0.0025 28.1 4.8 64 6-72 11-100 (166)
64 PF00462 Glutaredoxin: Glutare 27.0 1.3E+02 0.0029 21.5 4.3 28 12-41 7-34 (60)
65 PRK03987 translation initiatio 26.9 2.6E+02 0.0056 27.3 7.4 55 5-60 178-239 (262)
66 TIGR00489 aEF-1_beta translati 25.8 1.2E+02 0.0025 25.3 4.1 20 18-37 64-83 (88)
67 COG1432 Uncharacterized conser 25.6 44 0.00095 30.5 1.8 44 29-72 101-144 (181)
68 PF14437 MafB19-deam: MafB19-l 25.6 1.3E+02 0.0029 27.4 4.8 35 11-46 108-143 (146)
69 cd08593 PI-PLCc_delta Catalyti 25.5 1.1E+02 0.0024 30.1 4.6 46 18-65 32-86 (257)
70 TIGR00288 conserved hypothetic 25.4 90 0.002 28.6 3.8 33 40-72 107-139 (160)
71 cd08632 PI-PLCc_eta1 Catalytic 25.2 67 0.0014 31.6 3.0 46 18-65 32-86 (253)
72 smart00749 BON bacterial OsmY 25.2 1.6E+02 0.0035 20.4 4.3 40 19-58 2-43 (62)
73 PF14492 EFG_II: Elongation Fa 24.0 1.6E+02 0.0034 23.0 4.4 48 19-66 19-72 (75)
74 cd08596 PI-PLCc_epsilon Cataly 23.9 74 0.0016 31.3 3.1 46 18-65 32-86 (254)
75 cd08626 PI-PLCc_beta4 Catalyti 23.8 1.1E+02 0.0025 30.1 4.3 46 18-65 32-88 (257)
76 PF09158 MotCF: Bacteriophage 23.8 1.8E+02 0.0039 25.2 5.0 40 27-67 39-78 (103)
77 TIGR00915 2A0602 The (Largely 23.2 1.2E+02 0.0026 34.8 5.0 44 18-61 159-210 (1044)
78 cd04098 eEF2_C_snRNP eEF2_C_sn 23.1 3.3E+02 0.0072 21.3 6.2 50 4-57 3-55 (80)
79 PRK09577 multidrug efflux prot 23.1 1.7E+02 0.0037 33.5 6.2 47 18-64 158-212 (1032)
80 smart00838 EFG_C Elongation fa 23.0 2.9E+02 0.0062 21.6 5.8 51 4-57 5-55 (85)
81 cd08592 PI-PLCc_gamma Catalyti 22.7 79 0.0017 30.6 3.0 46 18-65 32-86 (229)
82 COG4004 Uncharacterized protei 22.6 1E+02 0.0022 26.4 3.3 24 24-47 35-58 (96)
83 cd08631 PI-PLCc_delta4 Catalyt 22.6 1.2E+02 0.0025 30.0 4.2 46 18-65 32-86 (258)
84 PF01565 FAD_binding_4: FAD bi 22.4 1.2E+02 0.0026 25.1 3.8 33 34-66 57-89 (139)
85 cd08594 PI-PLCc_eta Catalytic 22.4 1.1E+02 0.0024 29.6 3.9 46 18-65 32-86 (227)
86 TIGR01676 GLDHase galactonolac 22.2 1.3E+02 0.0028 32.6 4.7 40 25-66 110-149 (541)
87 cd02966 TlpA_like_family TlpA- 22.1 3.4E+02 0.0073 20.2 6.3 19 50-68 64-82 (116)
88 cd08625 PI-PLCc_beta3 Catalyti 22.1 94 0.002 30.5 3.4 47 18-66 32-89 (258)
89 TIGR01617 arsC_related transcr 22.0 1.7E+02 0.0036 24.4 4.5 45 12-64 7-51 (117)
90 COG2092 EFB1 Translation elong 21.8 1E+02 0.0022 26.0 3.1 21 17-37 63-83 (88)
91 PRK15127 multidrug efflux syst 21.8 1.4E+02 0.003 34.4 5.1 44 18-61 159-210 (1049)
92 cd04096 eEF2_snRNP_like_C eEF2 21.8 3.2E+02 0.0069 21.0 5.7 52 4-57 3-55 (80)
93 cd08595 PI-PLCc_zeta Catalytic 21.8 1.2E+02 0.0026 29.9 4.0 46 18-65 32-86 (257)
94 TIGR02174 CXXU_selWTH selT/sel 21.8 3.9E+02 0.0084 20.8 6.2 9 7-15 2-10 (72)
95 cd08624 PI-PLCc_beta2 Catalyti 21.8 95 0.002 30.7 3.4 46 18-65 32-88 (261)
96 PF04459 DUF512: Protein of un 21.5 2.1E+02 0.0046 27.0 5.5 50 21-70 115-169 (204)
97 PRK07334 threonine dehydratase 21.3 2.9E+02 0.0063 28.0 6.8 51 18-68 340-402 (403)
98 cd08598 PI-PLC1c_yeast Catalyt 21.1 87 0.0019 30.3 2.9 46 18-65 32-86 (231)
99 COG4770 Acetyl/propionyl-CoA c 20.9 1E+02 0.0023 33.9 3.7 59 1-65 1-77 (645)
100 cd08633 PI-PLCc_eta2 Catalytic 20.8 1.4E+02 0.0031 29.4 4.3 46 18-65 32-86 (254)
101 cd04908 ACT_Bt0572_1 N-termina 20.7 3.5E+02 0.0076 19.9 6.3 49 18-67 15-66 (66)
102 cd03710 BipA_TypA_C BipA_TypA_ 20.0 4.2E+02 0.0091 20.5 6.2 49 5-56 4-53 (79)
No 1
>KOG1603 consensus Copper chaperone [Inorganic ion transport and metabolism]
Probab=99.46 E-value=2.2e-13 Score=106.19 Aligned_cols=67 Identities=33% Similarity=0.440 Sum_probs=60.8
Q ss_pred CeEEEEEeeecCCchhHHHHHHHhHcCCCCeeEEEEeCCCCEEEEEecCCHHHHHHHHHHcC-CceEECCC
Q 018608 1 MFYTLSLVLYSFSSKLKASIFLNWVLFIFGVYTTKIDLRQHKVVVKGDVAAETLIGKLEKNG-KHAELWPE 70 (353)
Q Consensus 1 ~~~vl~V~L~CmsC~~CA~kVkKaLskIeGVesVeVDLe~qkVTVtG~VDp~~LlkaIkKtG-K~AeL~~~ 70 (353)
+..+++|.|||..| +.+|++.|+.++||++|++|+.+++|||.|++|+..|+++|++++ +++++|..
T Consensus 5 ~~~v~kv~~~C~gc---~~kV~~~l~~~~GV~~v~id~~~~kvtV~g~~~p~~vl~~l~k~~~k~~~~~~~ 72 (73)
T KOG1603|consen 5 KTVVLKVNMHCEGC---ARKVKRVLQKLKGVESVDIDIKKQKVTVKGNVDPVKLLKKLKKTGGKRAELWKV 72 (73)
T ss_pred cEEEEEECcccccH---HHHHHHHhhccCCeEEEEecCCCCEEEEEEecCHHHHHHHHHhcCCCceEEecC
Confidence 45788888888777 689999999999999999999999999999999999999998888 88888854
No 2
>PF00403 HMA: Heavy-metal-associated domain; InterPro: IPR006121 Proteins that transport heavy metals in micro-organisms and mammals share similarities in their sequences and structures. These proteins provide an important focus for research, some being involved in bacterial resistance to toxic metals, such as lead and cadmium, while others are involved in inherited human syndromes, such as Wilson's and Menke's diseases []. A conserved domain has been found in a number of these heavy metal transport or detoxification proteins []. The domain, which has been termed Heavy-Metal-Associated (HMA), contains two conserved cysteines that are probably involved in metal binding. Structure solution of the fourth HMA domain of the Menke's copper transporting ATPase shows a well-defined structure comprising a four-stranded antiparallel beta-sheet and two alpha helices packed in an alpha-beta sandwich fold []. This fold is common to other domains and is classified as "ferredoxin-like".; GO: 0046872 metal ion binding, 0030001 metal ion transport; PDB: 2VOY_A 1P6T_A 1KQK_A 2RML_A 1JWW_A 3K7R_F 1FES_A 1CC8_A 1FD8_A 2GGP_A ....
Probab=99.31 E-value=9.2e-12 Score=92.17 Aligned_cols=58 Identities=24% Similarity=0.235 Sum_probs=52.8
Q ss_pred EeeecCCchhHHHHHHHhHcCCCCeeEEEEeCCCCEEEEEecCC---HHHHHHHHHHcCCc
Q 018608 7 LVLYSFSSKLKASIFLNWVLFIFGVYTTKIDLRQHKVVVKGDVA---AETLIGKLEKNGKH 64 (353)
Q Consensus 7 V~L~CmsC~~CA~kVkKaLskIeGVesVeVDLe~qkVTVtG~VD---p~~LlkaIkKtGK~ 64 (353)
+.+..|+|.+|+++|+++|++++||.+|+||+..++|+|+++.+ .++|+++|+++||+
T Consensus 2 ~~v~~m~C~~C~~~v~~~l~~~~GV~~v~vd~~~~~v~v~~~~~~~~~~~i~~~i~~~Gy~ 62 (62)
T PF00403_consen 2 FKVPGMTCEGCAKKVEKALSKLPGVKSVKVDLETKTVTVTYDPDKTSIEKIIEAIEKAGYE 62 (62)
T ss_dssp EEEESTTSHHHHHHHHHHHHTSTTEEEEEEETTTTEEEEEESTTTSCHHHHHHHHHHTTSE
T ss_pred EEECCcccHHHHHHHHHHHhcCCCCcEEEEECCCCEEEEEEecCCCCHHHHHHHHHHhCcC
Confidence 34568999999999999999999999999999999999999754 59999999999985
No 3
>COG2608 CopZ Copper chaperone [Inorganic ion transport and metabolism]
Probab=99.22 E-value=4.8e-11 Score=92.86 Aligned_cols=64 Identities=19% Similarity=0.196 Sum_probs=56.6
Q ss_pred EEEeeecCCchhHHHHHHHhHcCCCCeeEEEEeCCCCEEEE--Ee-cCCHHHHHHHHHHcCCceEEC
Q 018608 5 LSLVLYSFSSKLKASIFLNWVLFIFGVYTTKIDLRQHKVVV--KG-DVAAETLIGKLEKNGKHAELW 68 (353)
Q Consensus 5 l~V~L~CmsC~~CA~kVkKaLskIeGVesVeVDLe~qkVTV--tG-~VDp~~LlkaIkKtGK~AeL~ 68 (353)
+.+.+..|+|++|+.+|+++|.+|+||.+|+|||+.++++| .+ .++.++|+++|+++||.+..+
T Consensus 4 ~~l~v~~MtC~~C~~~V~~al~~v~gv~~v~v~l~~~~~~V~~d~~~~~~~~i~~ai~~aGy~~~~~ 70 (71)
T COG2608 4 TTLKVEGMTCGHCVKTVEKALEEVDGVASVDVDLEKGTATVTFDSNKVDIEAIIEAIEDAGYKVEEI 70 (71)
T ss_pred EEEEECCcCcHHHHHHHHHHHhcCCCeeEEEEEcccCeEEEEEcCCcCCHHHHHHHHHHcCCCeeec
Confidence 45667899999999999999999999999999999955555 56 689999999999999998865
No 4
>KOG4656 consensus Copper chaperone for superoxide dismutase [Inorganic ion transport and metabolism]
Probab=99.10 E-value=1.7e-10 Score=107.90 Aligned_cols=68 Identities=19% Similarity=0.246 Sum_probs=62.6
Q ss_pred EEEEEeeecCCchhHHHHHHHhHcCCCCeeEEEEeCCCCEEEEEecCCHHHHHHHHHHcCCceEECCCCCc
Q 018608 3 YTLSLVLYSFSSKLKASIFLNWVLFIFGVYTTKIDLRQHKVVVKGDVAAETLIGKLEKNGKHAELWPESKA 73 (353)
Q Consensus 3 ~vl~V~L~CmsC~~CA~kVkKaLskIeGVesVeVDLe~qkVTVtG~VDp~~LlkaIkKtGK~AeL~~~~p~ 73 (353)
+.|+|.|+ |+.|+.+||++|..++||++|+|||++|.|.|.+.+++.+|+.+|+.+|++|.|.+...+
T Consensus 9 ~efaV~M~---cescvnavk~~L~~V~Gi~~vevdle~q~v~v~ts~p~s~i~~~le~tGr~Avl~G~G~p 76 (247)
T KOG4656|consen 9 AEFAVQMT---CESCVNAVKACLKGVPGINSVEVDLEQQIVSVETSVPPSEIQNTLENTGRDAVLRGAGKP 76 (247)
T ss_pred EEEEEech---hHHHHHHHHHHhccCCCcceEEEEhhhcEEEEEccCChHHHHHHHHhhChheEEecCCch
Confidence 57888888 555599999999999999999999999999999999999999999999999999998743
No 5
>PLN02957 copper, zinc superoxide dismutase
Probab=98.27 E-value=5.6e-06 Score=77.84 Aligned_cols=61 Identities=21% Similarity=0.278 Sum_probs=58.0
Q ss_pred cCCchhHHHHHHHhHcCCCCeeEEEEeCCCCEEEEEecCCHHHHHHHHHHcCCceEECCCC
Q 018608 11 SFSSKLKASIFLNWVLFIFGVYTTKIDLRQHKVVVKGDVAAETLIGKLEKNGKHAELWPES 71 (353)
Q Consensus 11 CmsC~~CA~kVkKaLskIeGVesVeVDLe~qkVTVtG~VDp~~LlkaIkKtGK~AeL~~~~ 71 (353)
+|+|..|+..|+++|.+++||..+.+|+..++++|+..++...|+++|+++|+.+++++..
T Consensus 13 gMsC~~Ca~~Iek~L~~~~GV~~v~vn~~~~~v~V~~~~~~~~I~~aIe~~Gy~a~~~~~~ 73 (238)
T PLN02957 13 DMKCEGCVAAVKNKLETLEGVKAVEVDLSNQVVRVLGSSPVKAMTAALEQTGRKARLIGQG 73 (238)
T ss_pred CccCHHHHHHHHHHHhcCCCeEEEEEEcCCCEEEEEecCCHHHHHHHHHHcCCcEEEecCC
Confidence 5999999999999999999999999999999999998889999999999999999999884
No 6
>PRK10671 copA copper exporting ATPase; Provisional
Probab=98.25 E-value=2.2e-06 Score=92.50 Aligned_cols=67 Identities=21% Similarity=0.181 Sum_probs=60.8
Q ss_pred CeEEEEEeeecCCchhHHHHHHHhHcCCCCeeEEEEeCCCCEEEEEecCCHHHHHHHHHHcCCceEECC
Q 018608 1 MFYTLSLVLYSFSSKLKASIFLNWVLFIFGVYTTKIDLRQHKVVVKGDVAAETLIGKLEKNGKHAELWP 69 (353)
Q Consensus 1 ~~~vl~V~L~CmsC~~CA~kVkKaLskIeGVesVeVDLe~qkVTVtG~VDp~~LlkaIkKtGK~AeL~~ 69 (353)
|-.+..+.+.||+|++|+.+|+++|.+++||.+|+||++ +++|++.++.+.|+++|++.||.+++..
T Consensus 1 ~~~~~~l~V~gmtC~~C~~~i~~al~~~~gv~~v~v~~~--~~~v~~~~~~~~i~~~i~~~Gy~~~~~~ 67 (834)
T PRK10671 1 MSQTIDLTLDGLSCGHCVKRVKESLEQRPDVEQADVSIT--EAHVTGTASAEALIETIKQAGYDASVSH 67 (834)
T ss_pred CCeEEEEEECCcccHHHHHHHHHHHhcCCCcceEEEeee--EEEEEecCCHHHHHHHHHhcCCcccccc
Confidence 556778888999999999999999999999999999994 6777788999999999999999999865
No 7
>TIGR00003 copper ion binding protein. This model describes an apparently copper-specific subfamily of the metal-binding domain HMA (Pfam family pfam00403). Closely related sequences outside this model include mercury resistance proteins and repeated domains of eukaryotic eukaryotic copper transport proteins. Members of this family are strictly prokaryotic. The model identifies both small proteins consisting of just this domain and N-terminal regions of cation (probably copper) transporting ATPases.
Probab=97.62 E-value=0.00065 Score=45.26 Aligned_cols=61 Identities=13% Similarity=0.148 Sum_probs=52.0
Q ss_pred EEEeeecCCchhHHHHHHHhHcCCCCeeEEEEeCCCCEEEEEe---cCCHHHHHHHHHHcCCce
Q 018608 5 LSLVLYSFSSKLKASIFLNWVLFIFGVYTTKIDLRQHKVVVKG---DVAAETLIGKLEKNGKHA 65 (353)
Q Consensus 5 l~V~L~CmsC~~CA~kVkKaLskIeGVesVeVDLe~qkVTVtG---~VDp~~LlkaIkKtGK~A 65 (353)
+.+.+.++.|..|+..|++.|..+++|..+.+++...+++|+- .++...|+..|...|+.+
T Consensus 4 ~~~~v~~~~~~~c~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~ 67 (68)
T TIGR00003 4 FTVQVMSMTCQHCVDKIEKFVGELEGVSKVQVKLEKASVKVEFDAPQATEICIAEAILDAGYEV 67 (68)
T ss_pred EEEEECCeEcHHHHHHHHHHHhcCCCEEEEEEEcCCCEEEEEeCCCCCCHHHHHHHHHHcCCCc
Confidence 4577889999999999999999999999999999999999874 357778888887777654
No 8
>COG2217 ZntA Cation transport ATPase [Inorganic ion transport and metabolism]
Probab=97.12 E-value=0.0012 Score=71.56 Aligned_cols=63 Identities=24% Similarity=0.250 Sum_probs=57.1
Q ss_pred EEEEeeecCCchhHHHHHHHhHcCCCCeeEEEEeCCCCEEEEEec---CC-HHHHHHHHHHcCCceEE
Q 018608 4 TLSLVLYSFSSKLKASIFLNWVLFIFGVYTTKIDLRQHKVVVKGD---VA-AETLIGKLEKNGKHAEL 67 (353)
Q Consensus 4 vl~V~L~CmsC~~CA~kVkKaLskIeGVesVeVDLe~qkVTVtG~---VD-p~~LlkaIkKtGK~AeL 67 (353)
.+.+.+++|+|..|+.+|+ +|.+++||.++.|++...+++|..+ ++ .+.++.+|+++|+.+..
T Consensus 3 ~~~l~v~Gm~Ca~C~~~ie-~l~~~~gV~~~~vn~~t~~~~v~~~~~~~~~~~~~~~~v~~~gy~~~~ 69 (713)
T COG2217 3 ETSLSVEGMTCAACASRIE-ALNKLPGVEEARVNLATERATVVYDPEEVDLPADIVAAVEKAGYSARL 69 (713)
T ss_pred eeEEeecCcCcHHHHHHHH-HHhcCCCeeEEEeecccceEEEEecccccccHHHHHHHHHhcCccccc
Confidence 4567889999999999999 9999999999999999999999754 56 78999999999999876
No 9
>PRK10671 copA copper exporting ATPase; Provisional
Probab=96.75 E-value=0.004 Score=67.79 Aligned_cols=66 Identities=24% Similarity=0.297 Sum_probs=59.2
Q ss_pred EEEEeeecCCchhHHHHHHHhHcCCCCeeEEEEeCCCCEEEEEecCCHHHHHHHHHHcCCceEECC
Q 018608 4 TLSLVLYSFSSKLKASIFLNWVLFIFGVYTTKIDLRQHKVVVKGDVAAETLIGKLEKNGKHAELWP 69 (353)
Q Consensus 4 vl~V~L~CmsC~~CA~kVkKaLskIeGVesVeVDLe~qkVTVtG~VDp~~LlkaIkKtGK~AeL~~ 69 (353)
++.+.+.+|+|.+|+..|++.|.+++||.++.+++..+++.|.+..+...|++.|++.|+.+.++.
T Consensus 100 ~~~l~V~Gm~Ca~Ca~~Ie~~L~~~~GV~~a~vnl~t~~~~V~~~~s~~~I~~~I~~~Gy~a~~~~ 165 (834)
T PRK10671 100 SQQLLLSGMSCASCVSRVQNALQSVPGVTQARVNLAERTALVMGSASPQDLVQAVEKAGYGAEAIE 165 (834)
T ss_pred eEEEEeCCcCcHHHHHHHHHHHhcCCCceeeeeecCCCeEEEEccCCHHHHHHHHHhcCCCccccc
Confidence 345668999999999999999999999999999999999999877889999999999999987654
No 10
>KOG0207 consensus Cation transport ATPase [Inorganic ion transport and metabolism]
Probab=96.66 E-value=0.0028 Score=70.05 Aligned_cols=63 Identities=19% Similarity=0.191 Sum_probs=57.7
Q ss_pred ecCCchhHHHHHHHhHcCCCCeeEEEEeCCCCEEEEE--ecCCHHHHHHHHHHcCCceEECCCCC
Q 018608 10 YSFSSKLKASIFLNWVLFIFGVYTTKIDLRQHKVVVK--GDVAAETLIGKLEKNGKHAELWPESK 72 (353)
Q Consensus 10 ~CmsC~~CA~kVkKaLskIeGVesVeVDLe~qkVTVt--G~VDp~~LlkaIkKtGK~AeL~~~~p 72 (353)
++|+|..|++.|.++|+..+||.+++|++.+++.+|. -.++++.|.++|+..|+++++.....
T Consensus 1 ~gmtc~ac~~si~~~~~~~~g~~~i~vsl~~~~~~v~~~~~~~~~~i~~~ied~gf~~~~~~~~~ 65 (951)
T KOG0207|consen 1 KGMTCSACSNSIEKAISRKPGVQKIEVSLAQKRANVSYDNIVSPESIKETIEDMGFEASLLSDSE 65 (951)
T ss_pred CCccHHHHhhhHHHHHhcCCCceeEEEEeccccceEEEeeccCHHHHHHHhhcccceeeecccCc
Confidence 4799999999999999999999999999999999885 45899999999999999999987753
No 11
>KOG0207 consensus Cation transport ATPase [Inorganic ion transport and metabolism]
Probab=95.45 E-value=0.036 Score=61.64 Aligned_cols=66 Identities=17% Similarity=0.168 Sum_probs=59.2
Q ss_pred EEEeeecCCchhHHHHHHHhHcCCCCeeEEEEeCCCCEEEEEe---cCCHHHHHHHHHHcCCceEECCC
Q 018608 5 LSLVLYSFSSKLKASIFLNWVLFIFGVYTTKIDLRQHKVVVKG---DVAAETLIGKLEKNGKHAELWPE 70 (353)
Q Consensus 5 l~V~L~CmsC~~CA~kVkKaLskIeGVesVeVDLe~qkVTVtG---~VDp~~LlkaIkKtGK~AeL~~~ 70 (353)
+-+....|.|..|+.+|.+.|.+++||.+++||+..++++|.= ...+-.|++.|+.+|+.+.+...
T Consensus 148 i~L~v~g~~c~s~~~~ie~~l~~l~gV~~~sv~~~t~~~~V~~~~~~~~pr~i~k~ie~~~~~~~~~~~ 216 (951)
T KOG0207|consen 148 IYLDVLGMTCASCVSKIESILERLRGVKSFSVSLATDTAIVVYDPEITGPRDIIKAIEETGFEASVRPY 216 (951)
T ss_pred EEEEeecccccchhhhhHHHHhhccCeeEEEEeccCCceEEEecccccChHHHHHHHHhhcccceeeec
Confidence 4566789999999999999999999999999999999999964 36888999999999999888774
No 12
>PRK11033 zntA zinc/cadmium/mercury/lead-transporting ATPase; Provisional
Probab=95.44 E-value=0.041 Score=59.72 Aligned_cols=64 Identities=19% Similarity=0.126 Sum_probs=53.5
Q ss_pred EEEEeeecCCchhHHHHHHHhHcCCCCeeEEEEeCCCCEEEEEec--CCHHHHHHHHHHcCCceEEC
Q 018608 4 TLSLVLYSFSSKLKASIFLNWVLFIFGVYTTKIDLRQHKVVVKGD--VAAETLIGKLEKNGKHAELW 68 (353)
Q Consensus 4 vl~V~L~CmsC~~CA~kVkKaLskIeGVesVeVDLe~qkVTVtG~--VDp~~LlkaIkKtGK~AeL~ 68 (353)
++.+.+..|+|.+|+..|++.|.+++||.++.+++...++.|.-+ .+ ..|.+.++++|+.+..+
T Consensus 54 r~~l~V~Gm~C~sCa~~Ie~aL~~~~GV~~v~Vn~at~k~~V~~d~~~~-~~I~~aI~~~Gy~a~~~ 119 (741)
T PRK11033 54 RYSWKVSGMDCPSCARKVENAVRQLAGVNQVQVLFATEKLVVDADNDIR-AQVESAVQKAGFSLRDE 119 (741)
T ss_pred eEEEEECCCCcHHHHHHHHHHHhcCCCeeeEEEEcCCCeEEEEecccch-HHHHHHHHhcccccccc
Confidence 345668899999999999999999999999999999999888632 33 67778888999987654
No 13
>TIGR02052 MerP mercuric transport protein periplasmic component. This model represents the periplasmic mercury (II) binding protein of the bacterial mercury detoxification system which passes mercuric ion to the MerT transporter for subsequent reduction to Hg(0) by the mercuric reductase MerA. MerP contains a distinctive GMTCXXC motif associated with metal binding. MerP is related to a larger family of metal binding proteins (pfam00403).
Probab=94.29 E-value=0.57 Score=34.75 Aligned_cols=63 Identities=13% Similarity=0.105 Sum_probs=49.2
Q ss_pred EEEeeecCCchhHHHHHHHhHcCCCCeeEEEEeCCCCEEEEEe---cCCHHHHHHHHHHcCCceEE
Q 018608 5 LSLVLYSFSSKLKASIFLNWVLFIFGVYTTKIDLRQHKVVVKG---DVAAETLIGKLEKNGKHAEL 67 (353)
Q Consensus 5 l~V~L~CmsC~~CA~kVkKaLskIeGVesVeVDLe~qkVTVtG---~VDp~~LlkaIkKtGK~AeL 67 (353)
..+...++.|..|...++..+..+++|....+++....+.+.- ..+...+...+++.|+.+++
T Consensus 25 ~~~~~~~~~c~~c~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~ 90 (92)
T TIGR02052 25 VTLEVPGMTCVACPITVETALQKVDGVSKAEVTFKTKLAVVTFDDEKTNVKALTEATTDAGYPSSL 90 (92)
T ss_pred EEEEECCeEcHHHHHHHHHHHhcCCCEEEEEEEecCCEEEEEECCCCCCHHHHHHHHHhcCCCeEe
Confidence 3466788899999999999999999999888888888866652 24666666677777877654
No 14
>cd00371 HMA Heavy-metal-associated domain (HMA) is a conserved domain of approximately 30 amino acid residues found in a number of proteins that transport or detoxify heavy metals, for example, the CPx-type heavy metal ATPases and copper chaperones. HMA domain contains two cysteine residues that are important in binding and transfer of metal ions, such as copper, cadmium, cobalt and zinc. In the case of copper, stoichiometry of binding is one Cu+ ion per binding domain. Repeats of the HMA domain in copper chaperone has been associated with Menkes/Wilson disease due to binding of multiple copper ions.
Probab=92.77 E-value=1.2 Score=26.37 Aligned_cols=54 Identities=22% Similarity=0.228 Sum_probs=38.2
Q ss_pred eecCCchhHHHHHHHhHcCCCCeeEEEEeCCCCEEEEEecC--CHHHHHHHHHHcC
Q 018608 9 LYSFSSKLKASIFLNWVLFIFGVYTTKIDLRQHKVVVKGDV--AAETLIGKLEKNG 62 (353)
Q Consensus 9 L~CmsC~~CA~kVkKaLskIeGVesVeVDLe~qkVTVtG~V--Dp~~LlkaIkKtG 62 (353)
+..+.|..|...++..+..+.++....+++....+.+.... +...+...++..+
T Consensus 4 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 59 (63)
T cd00371 4 VEGMTCAGCVSKIEKALEKLPGVESVEVDLETGKATVEYDPEVSPEELLEAIEDAG 59 (63)
T ss_pred ECCeEcHHHHHHHHHHHhcCCCEeEEEEEccCCEEEEEECCCCCHHHHHHHHHHcC
Confidence 45677889999999888889998888888877776665432 5555544444444
No 15
>COG1888 Uncharacterized protein conserved in archaea [Function unknown]
Probab=89.99 E-value=0.59 Score=39.57 Aligned_cols=48 Identities=13% Similarity=0.166 Sum_probs=36.4
Q ss_pred HHHHHhHcCCCCeeEEE-------EeCCCCEEEEEe-cCCHHHHHHHHHHcCCceE
Q 018608 19 SIFLNWVLFIFGVYTTK-------IDLRQHKVVVKG-DVAAETLIGKLEKNGKHAE 66 (353)
Q Consensus 19 ~kVkKaLskIeGVesVe-------VDLe~qkVTVtG-~VDp~~LlkaIkKtGK~Ae 66 (353)
-.+-+.|++|+||+.|. ++...=++||.| ++|.+.|.+.|++.|..+.
T Consensus 22 ve~A~~lskl~gVegVNItv~eiD~et~~~~itIeG~~ldydei~~~iE~~Gg~IH 77 (97)
T COG1888 22 VELALELSKLEGVEGVNITVTEIDVETENLKITIEGTNLDYDEIEEVIEELGGAIH 77 (97)
T ss_pred HHHHHHHhhcCCcceEEEEEEEeeehhcceEEEEEcCCCCHHHHHHHHHHcCCeee
Confidence 34567788888877544 345566788888 6999999999999997654
No 16
>PF02680 DUF211: Uncharacterized ArCR, COG1888; InterPro: IPR003831 This entry describes proteins of unknown function.; PDB: 3BPD_I 2RAQ_F 2X3D_E.
Probab=86.45 E-value=1.1 Score=38.06 Aligned_cols=47 Identities=19% Similarity=0.278 Sum_probs=34.2
Q ss_pred HHHHHhHcCCCCeeEEEE-----eCCCC--EEEEEec-CCHHHHHHHHHHcCCce
Q 018608 19 SIFLNWVLFIFGVYTTKI-----DLRQH--KVVVKGD-VAAETLIGKLEKNGKHA 65 (353)
Q Consensus 19 ~kVkKaLskIeGVesVeV-----DLe~q--kVTVtG~-VDp~~LlkaIkKtGK~A 65 (353)
-.+-++|++++||+.|.+ |.+.. +|||.|+ +|.+.|.++|++.|-.+
T Consensus 20 ~e~A~~l~~~~gV~gVnitv~EvD~ete~lkitiEG~~id~d~i~~~Ie~~Gg~I 74 (95)
T PF02680_consen 20 VELAKALSELEGVDGVNITVVEVDVETENLKITIEGDDIDFDEIKEAIEELGGVI 74 (95)
T ss_dssp HHHHHHHHTSTTEEEEEEEEEEE-SSEEEEEEEEEESSE-HHHHHHHHHHTT-EE
T ss_pred HHHHHHHHhCCCcceEEEEEEEeeccccEEEEEEEeCCCCHHHHHHHHHHcCCeE
Confidence 467788999999987654 44444 4566885 99999999999998654
No 17
>PRK13748 putative mercuric reductase; Provisional
Probab=86.37 E-value=3.5 Score=42.54 Aligned_cols=64 Identities=13% Similarity=0.094 Sum_probs=49.5
Q ss_pred EeeecCCchhHHHHHHHhHcCCCCeeEEEEeCCCCEEEEEe--cCCHHHHHHHHHHcCCceEECCC
Q 018608 7 LVLYSFSSKLKASIFLNWVLFIFGVYTTKIDLRQHKVVVKG--DVAAETLIGKLEKNGKHAELWPE 70 (353)
Q Consensus 7 V~L~CmsC~~CA~kVkKaLskIeGVesVeVDLe~qkVTVtG--~VDp~~LlkaIkKtGK~AeL~~~ 70 (353)
+.+++++|.+|+..++..+..+++|....+++....+.+.. ..+...+...++..++.++++..
T Consensus 4 i~i~g~~C~~c~~~ie~~l~~~~gv~~a~~~~~~~~~~v~~~~~~~~~~i~~~i~~~g~~~~~~~~ 69 (561)
T PRK13748 4 LKITGMTCDSCAAHVKDALEKVPGVQSADVSYPKGSAQLAIEVGTSPDALTAAVAGLGYRATLADA 69 (561)
T ss_pred EEECCeecHHHHHHHHHHHhcCCCeeEEEEEcCCCEEEEEECCCCCHHHHHHHHHHcCCeeeccCc
Confidence 44688999999999999999999999999999999887763 24566666666666666554444
No 18
>PF04972 BON: BON domain; InterPro: IPR007055 The BON domain is typically ~60 residues long and has an alpha/beta predicted fold. There is a conserved glycine residue and several hydrophobic regions. This pattern of conservation is more suggestive of a binding or structural function rather than a catalytic function. Most proteobacteria seem to possess one or two BON-containing proteins, typically of the OsmY-type proteins; outside of this group the distribution is more disparate. The OsmY protein is an Escherichia coli 20 kDa outer membrane or periplasmic protein that is expressed in response to a variety of stress conditions, in particular, helping to provide protection against osmotic shock. One hypothesis is that OsmY prevents shrinkage of the cytoplasmic compartment by contacting the phospholipid interfaces surrounding the periplasmic space. The domain architecture of two BON domains alone suggests that these domains contact the surfaces of phospholipids, with each domain contacting a membrane [].; PDB: 2L26_A 2KGS_A 2KSM_A.
Probab=70.41 E-value=2.8 Score=30.91 Aligned_cols=39 Identities=8% Similarity=0.068 Sum_probs=22.6
Q ss_pred HHHHHhHcC---CCCeeEEEEeCCCCEEEEEecCCHHHHHHHH
Q 018608 19 SIFLNWVLF---IFGVYTTKIDLRQHKVVVKGDVAAETLIGKL 58 (353)
Q Consensus 19 ~kVkKaLsk---IeGVesVeVDLe~qkVTVtG~VDp~~LlkaI 58 (353)
.+|+.+|.. +++- .|.|....+.|+++|.++.....+++
T Consensus 2 ~~v~~~L~~~~~~~~~-~i~v~v~~g~v~L~G~v~s~~~~~~a 43 (64)
T PF04972_consen 2 TKVRAALRADPWLPDS-NISVSVENGVVTLSGEVPSQEQRDAA 43 (64)
T ss_dssp -----------CTT-T-TEEEEEECTEEEEEEEESSCHHHHHH
T ss_pred cccccccccccccCCC-eEEEEEECCEEEEEeeCcHHHHHHhH
Confidence 456777777 4444 68999999999999999666655555
No 19
>PF01883 DUF59: Domain of unknown function DUF59; InterPro: IPR002744 This family includes prokaryotic proteins of unknown function. The family also includes PhaH (O84984 from SWISSPROT) from Pseudomonas putida. PhaH forms a complex with PhaF (O84982 from SWISSPROT), PhaG (O84983 from SWISSPROT) and PhaI (O84985 from SWISSPROT), which hydroxylates phenylacetic acid to 2-hydroxyphenylacetic acid []. So members of this family may all be components of ring hydroxylating complexes.; PDB: 3LNO_C 3CQ3_A 3CQ2_D 2CU6_B 3CQ1_A 3UX3_B 3UX2_A 1WCJ_A 1UWD_A.
Probab=62.55 E-value=12 Score=28.43 Aligned_cols=34 Identities=18% Similarity=0.065 Sum_probs=23.4
Q ss_pred EEEEEeeecCCch---hHHHHHHHhHcCCCCeeEEEE
Q 018608 3 YTLSLVLYSFSSK---LKASIFLNWVLFIFGVYTTKI 36 (353)
Q Consensus 3 ~vl~V~L~CmsC~---~CA~kVkKaLskIeGVesVeV 36 (353)
+.|.+.+....|. .=...|+++|..|+||.+|+|
T Consensus 36 V~v~l~l~~~~~~~~~~l~~~i~~~l~~l~gv~~V~V 72 (72)
T PF01883_consen 36 VSVSLELPTPACPAAEPLREEIREALKALPGVKSVKV 72 (72)
T ss_dssp EEEEE--SSTTHTTHHHHHHHHHHHHHTSTT-SEEEE
T ss_pred EEEEEEECCCCchHHHHHHHHHHHHHHhCCCCceEeC
Confidence 3566777777776 334578999999999999986
No 20
>PF13732 DUF4162: Domain of unknown function (DUF4162)
Probab=54.14 E-value=29 Score=26.68 Aligned_cols=44 Identities=16% Similarity=0.174 Sum_probs=33.5
Q ss_pred hHcCCCCeeEEEEeCCC-CEEEEEecCCHHHHHHHHHHcCCceEEC
Q 018608 24 WVLFIFGVYTTKIDLRQ-HKVVVKGDVAAETLIGKLEKNGKHAELW 68 (353)
Q Consensus 24 aLskIeGVesVeVDLe~-qkVTVtG~VDp~~LlkaIkKtGK~AeL~ 68 (353)
.|..++||..+..+-.. =++.|....+...|++.|...|. +.-+
T Consensus 25 ~l~~~~~v~~v~~~~~~~~~i~l~~~~~~~~ll~~l~~~g~-I~~f 69 (84)
T PF13732_consen 25 ELEELPGVESVEQDGDGKLRIKLEDEETANELLQELIEKGI-IRSF 69 (84)
T ss_pred HHhhCCCeEEEEEeCCcEEEEEECCcccHHHHHHHHHhCCC-eeEE
Confidence 38888999999875433 35666777899999999988888 5433
No 21
>PRK10553 assembly protein for periplasmic nitrate reductase; Provisional
Probab=54.00 E-value=88 Score=25.89 Aligned_cols=55 Identities=22% Similarity=0.144 Sum_probs=36.9
Q ss_pred EEEEeeecCCchhHHHHHHHhHcCCCCeeEEEEeCCCCEEEEEe-cCCHHHHHHHHHH
Q 018608 4 TLSLVLYSFSSKLKASIFLNWVLFIFGVYTTKIDLRQHKVVVKG-DVAAETLIGKLEK 60 (353)
Q Consensus 4 vl~V~L~CmsC~~CA~kVkKaLskIeGVesVeVDLe~qkVTVtG-~VDp~~LlkaIkK 60 (353)
+=++.++|.-= -...|++.|..|+|++=--.|.+.+|++|+= .-+...+++.|+.
T Consensus 7 IsSlVV~~~Pe--~~~~V~~~l~~ipg~Evh~~d~~~GKiVVtiE~~~~~~~~~~i~~ 62 (87)
T PRK10553 7 VCSLVVQAKSE--RISDISTQLNAFPGCEVAVSDAPSGQLIVVVEAEDSETLLQTIES 62 (87)
T ss_pred EeEEEEEeChH--HHHHHHHHHHcCCCcEEEeecCCCCeEEEEEEeCChHHHHHHHHH
Confidence 34555666533 2578999999999997666778888888753 3345555555544
No 22
>cd04883 ACT_AcuB C-terminal ACT domain of the Bacillus subtilis acetoin utilization protein, AcuB. This CD includes the C-terminal ACT domain of the Bacillus subtilis acetoin utilization protein, AcuB. AcuB is putatively involved in the anaerobic catabolism of acetoin, and related proteins. Studies report the induction of AcuB by nitrate respiration and also by fermentation. Since acetoin can be secreted and later serve as a source of carbon, it has been proposed that, during anaerobic growth when other carbon sources are exhausted, the induction of the AcuB protein results in acetoin catabolism. AcuB-like proteins have two N-terminal tandem CBS domains and a single C-terminal ACT domain. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=52.70 E-value=90 Score=22.87 Aligned_cols=52 Identities=13% Similarity=0.169 Sum_probs=31.5
Q ss_pred HHHHHHHhHcCCCC-eeEEEEeCC----CCEEEEEec-CCHHHHHHHHHHcCCceEECC
Q 018608 17 KASIFLNWVLFIFG-VYTTKIDLR----QHKVVVKGD-VAAETLIGKLEKNGKHAELWP 69 (353)
Q Consensus 17 CA~kVkKaLskIeG-VesVeVDLe----~qkVTVtG~-VDp~~LlkaIkKtGK~AeL~~ 69 (353)
...+|.+.|.+..- |.++..... ...|+|.-. .+.+.|+++|++.|+. .+|+
T Consensus 14 ~l~~i~~~l~~~~inI~~i~~~~~~~~~~~~v~i~v~~~~~~~~~~~L~~~G~~-v~~~ 71 (72)
T cd04883 14 QLADIAAIFKDRGVNIVSVLVYPSKEEDNKILVFRVQTMNPRPIIEDLRRAGYE-VLWP 71 (72)
T ss_pred HHHHHHHHHHHcCCCEEEEEEeccCCCCeEEEEEEEecCCHHHHHHHHHHCCCe-eeCC
Confidence 34567777766532 555544332 223444432 5777999999999997 4454
No 23
>cd04909 ACT_PDH-BS C-terminal ACT domain of the monofunctional, NAD dependent, prephenate dehydrogenase (PDH). The C-terminal ACT domain of the monofunctional, NAD dependent, prephenate dehydrogenase (PDH) enzyme that catalyzes the formation of 4-hydroxyphenylpyruvate from prephenate, found in Bacillus subtilis (BS) and other Firmicutes, Deinococci, and Bacteroidetes. PDH is the first enzyme in the aromatic amino acid pathway specific for the biosynthesis of tyrosine. This enzyme is feedback-inhibited by tyrosine in B. subtilis and other microorganisms. Both phenylalanine and tryptophan have been shown to be inhibitors of this activity in B. subtilis. Bifunctional chorismate mutase-PDH (TyrA) enzymes such as those seen in Escherichia coli do not contain an ACT domain. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=52.20 E-value=74 Score=23.35 Aligned_cols=62 Identities=11% Similarity=-0.106 Sum_probs=35.3
Q ss_pred eEEEEEeeecCCchhHHHHHHHhHcCCCC-eeEEEEeCC----CCEEEEEe--cCCHHHHHHHHHHcCCce
Q 018608 2 FYTLSLVLYSFSSKLKASIFLNWVLFIFG-VYTTKIDLR----QHKVVVKG--DVAAETLIGKLEKNGKHA 65 (353)
Q Consensus 2 ~~vl~V~L~CmsC~~CA~kVkKaLskIeG-VesVeVDLe----~qkVTVtG--~VDp~~LlkaIkKtGK~A 65 (353)
|+.|+|.+.--- +...+|.+.|.+..- |.++.+... .+.+++.- .-+.+.|++.|++.|+.+
T Consensus 1 ~~~~~v~~~d~~--G~L~~l~~~l~~~~i~i~~~~~~~~~~~~~~~~~i~v~~~~~~~~~~~~L~~~G~~v 69 (69)
T cd04909 1 FYDLYVDVPDEP--GVIAEVTQILGDAGISIKNIEILEIREGIGGILRISFKTQEDRERAKEILKEAGYEV 69 (69)
T ss_pred CEEEEEEcCCCC--CHHHHHHHHHHHcCCCceeeEeEEeecCCcEEEEEEECCHHHHHHHHHHHHHcCCcC
Confidence 455666544322 235667777766532 444443221 33444433 236889999999999864
No 24
>KOG2236 consensus Uncharacterized conserved protein [Function unknown]
Probab=52.13 E-value=68 Score=34.25 Aligned_cols=10 Identities=20% Similarity=0.109 Sum_probs=3.6
Q ss_pred EeCCCCEEEE
Q 018608 36 IDLRQHKVVV 45 (353)
Q Consensus 36 VDLe~qkVTV 45 (353)
+|+....|.+
T Consensus 86 ~~~~~d~vd~ 95 (483)
T KOG2236|consen 86 VDQPDDLVDP 95 (483)
T ss_pred ccccccccch
Confidence 3333333333
No 25
>TIGR03406 FeS_long_SufT probable FeS assembly SUF system protein SufT. The function is unknown for this protein family, but members are found almost always in operons for the the SUF system of iron-sulfur cluster biosynthesis. The SUF system is present elsewhere on the chromosome for those few species where SUF genes are not adjacent. This family shares this property of association with the SUF system with a related family, TIGR02945. TIGR02945 consists largely of a DUF59 domain (see Pfam family pfam01883), while this protein is about double the length, with a unique N-terminal domain and DUF59 C-terminal domain. A location immediately downstream of the cysteine desulfurase gene sufS in many contexts suggests the gene symbol sufT. Note that some other homologs of this family and of TIGR02945, but no actual members of this family, are found in operons associated with phenylacetic acid (or other ring-hydroxylating) degradation pathways.
Probab=50.73 E-value=27 Score=32.19 Aligned_cols=37 Identities=14% Similarity=0.101 Sum_probs=29.2
Q ss_pred EEEEEeeecCCchh---HHHHHHHhHcCCCCeeEEEEeCC
Q 018608 3 YTLSLVLYSFSSKL---KASIFLNWVLFIFGVYTTKIDLR 39 (353)
Q Consensus 3 ~vl~V~L~CmsC~~---CA~kVkKaLskIeGVesVeVDLe 39 (353)
+.+.+.|....|.. -+..|+++|..++||.+|+|++.
T Consensus 115 V~I~mtLt~p~c~~~~~L~~dV~~aL~~l~gV~~V~V~l~ 154 (174)
T TIGR03406 115 VDIEMTLTAPGCGMGPVLVEDVEDKVLAVPNVDEVEVELV 154 (174)
T ss_pred EEEEEEeCCCCCcHHHHHHHHHHHHHHhCCCceeEEEEEE
Confidence 45778888888873 34579999999999999998653
No 26
>COG3062 NapD Uncharacterized protein involved in formation of periplasmic nitrate reductase [Inorganic ion transport and metabolism]
Probab=50.01 E-value=70 Score=27.28 Aligned_cols=56 Identities=27% Similarity=0.174 Sum_probs=41.6
Q ss_pred EEEEeeecCCchhHHHHHHHhHcCCCCeeEEEEeCCCCEEEEEecCCHHHHHHHHHHc
Q 018608 4 TLSLVLYSFSSKLKASIFLNWVLFIFGVYTTKIDLRQHKVVVKGDVAAETLIGKLEKN 61 (353)
Q Consensus 4 vl~V~L~CmsC~~CA~kVkKaLskIeGVesVeVDLe~qkVTVtG~VDp~~LlkaIkKt 61 (353)
|-+++++|+-= ...+|+.+|+.|+|++=-..|.+.+.|+|.=.-+...|++.|+..
T Consensus 8 vsslVv~~~pe--~l~av~~~L~~ip~~EV~~~d~~GKlVVVie~~~~~~l~~tie~i 63 (94)
T COG3062 8 VSSLVVQAKPE--RLSAVKTALLAIPGCEVYGEDAEGKLVVVIEAEDSETLLETIESI 63 (94)
T ss_pred EEEEeeecCHH--HHHHHHHHHhcCCCcEeeccCCCceEEEEEEcCchHHHHHHHHHH
Confidence 55677787754 367899999999999766677774445555566888899988654
No 27
>PF03927 NapD: NapD protein; InterPro: IPR005623 This entry represents NapD, the twin-arginine signal-peptide-binding chaperone for NapA, functioning as an assembly protein for the periplasmic nitrate reductase NapABC. The periplasmic NapABC enzyme likely functions during growth in nitrate-limited environments [].; PDB: 2JSX_A 2PQ4_A.
Probab=49.92 E-value=1.3e+02 Score=24.03 Aligned_cols=55 Identities=20% Similarity=0.132 Sum_probs=36.5
Q ss_pred EEEEeeecCCchhHHHHHHHhHcCCCCeeEEEEeCCCCEEEEEe-cCCHHHHHHHHHHc
Q 018608 4 TLSLVLYSFSSKLKASIFLNWVLFIFGVYTTKIDLRQHKVVVKG-DVAAETLIGKLEKN 61 (353)
Q Consensus 4 vl~V~L~CmsC~~CA~kVkKaLskIeGVesVeVDLe~qkVTVtG-~VDp~~LlkaIkKt 61 (353)
+-++.++|.-= -...|+++|..|+||+=-..|-. +|++|+= .-+...+++.|++.
T Consensus 5 Iss~vV~~~p~--~~~~v~~~l~~~~gvEVh~~~~~-GKiVVtiE~~~~~~~~~~~~~i 60 (79)
T PF03927_consen 5 ISSLVVHARPE--RLEEVAEALAAIPGVEVHAVDED-GKIVVTIEAESSEEEVDLIDAI 60 (79)
T ss_dssp EEEEEEEE-CC--CHHHHHHHHCCSTTEEEEEEETT-TEEEEEEEESSHHHHHHHHHHH
T ss_pred EEEEEEEECch--hHHHHHHHHHcCCCcEEEeeCCC-CeEEEEEEeCChHHHHHHHHHH
Confidence 34566677652 35789999999999954455555 7777653 45667777777554
No 28
>COG2151 PaaD Predicted metal-sulfur cluster biosynthetic enzyme [General function prediction only]
Probab=48.59 E-value=29 Score=29.99 Aligned_cols=36 Identities=19% Similarity=0.111 Sum_probs=27.2
Q ss_pred EEEEEeeecCCch---hHHHHHHHhHcCCCCeeEEEEeC
Q 018608 3 YTLSLVLYSFSSK---LKASIFLNWVLFIFGVYTTKIDL 38 (353)
Q Consensus 3 ~vl~V~L~CmsC~---~CA~kVkKaLskIeGVesVeVDL 38 (353)
+.+.+.++-+.|- .=...|+++|..++||++|+|++
T Consensus 51 v~v~mtlT~~gCP~~~~i~~~v~~al~~~~~v~~v~V~l 89 (111)
T COG2151 51 VKVKMTLTSPGCPLAEVIADQVEAALEEIPGVEDVEVEL 89 (111)
T ss_pred EEEEEecCCCCCCccHHHHHHHHHHHHhcCCcceEEEEE
Confidence 4456666666674 44568999999999999998853
No 29
>PRK01777 hypothetical protein; Validated
Probab=48.44 E-value=7.7 Score=32.43 Aligned_cols=58 Identities=19% Similarity=0.322 Sum_probs=43.3
Q ss_pred HHHhHcCCCCeeEE--EEeCCCCEEEEEec-CCHHHHHHHHHHcCCceEECCCCCcchhhhhhccc
Q 018608 21 FLNWVLFIFGVYTT--KIDLRQHKVVVKGD-VAAETLIGKLEKNGKHAELWPESKAEQKEKKQSKG 83 (353)
Q Consensus 21 VkKaLskIeGVesV--eVDLe~qkVTVtG~-VDp~~LlkaIkKtGK~AeL~~~~p~p~k~kk~~k~ 83 (353)
|..+|..+ |+..- ++|+....|-|.|. ++.+.+| +.|=+++|.+.....+|+....+.
T Consensus 29 v~dal~~s-gi~~~~pei~~~~~~vgI~Gk~v~~d~~L----~dGDRVeIyrPL~~DPk~~Rr~ra 89 (95)
T PRK01777 29 VEEAIRAS-GLLELRTDIDLAKNKVGIYSRPAKLTDVL----RDGDRVEIYRPLLADPKELRRKRA 89 (95)
T ss_pred HHHHHHHc-CCCccCcccccccceEEEeCeECCCCCcC----CCCCEEEEecCCCCCHHHHHHHHH
Confidence 45555554 66655 88999999999995 5666555 459999999999999988766443
No 30
>PRK11023 outer membrane lipoprotein; Provisional
Probab=47.93 E-value=43 Score=30.78 Aligned_cols=41 Identities=15% Similarity=0.059 Sum_probs=32.8
Q ss_pred HHHHHHhHcCCCCee--EEEEeCCCCEEEEEecCCHHHHHHHH
Q 018608 18 ASIFLNWVLFIFGVY--TTKIDLRQHKVVVKGDVAAETLIGKL 58 (353)
Q Consensus 18 A~kVkKaLskIeGVe--sVeVDLe~qkVTVtG~VDp~~LlkaI 58 (353)
..+|+.+|..-+.|. .|+|...++.|++.|.++.++.-+++
T Consensus 129 t~kik~~L~~~~~v~~~~I~V~t~~G~V~L~G~v~~~e~~~a~ 171 (191)
T PRK11023 129 TTKVRSQLLTSDSVKSSNVKVTTENGEVFLLGLVTQREAKAAA 171 (191)
T ss_pred HHHHHHHHhcCCCCCcceEEEEEECcEEEEEEEeCHHHHHHHH
Confidence 457888998777766 57888889999999999987765554
No 31
>PF08712 Nfu_N: Scaffold protein Nfu/NifU N terminal; InterPro: IPR014824 Iron-sulphur (FeS) clusters are important cofactors for numerous proteins involved in electron transfer, in redox and non-redox catalysis, in gene regulation, and as sensors of oxygen and iron. These functions depend on the various FeS cluster prosthetic groups, the most common being [2Fe-2S] and [4Fe-4S] []. FeS cluster assembly is a complex process involving the mobilisation of Fe and S atoms from storage sources, their assembly into [Fe-S] form, their transport to specific cellular locations, and their transfer to recipient apoproteins. So far, three FeS assembly machineries have been identified, which are capable of synthesising all types of [Fe-S] clusters: ISC (iron-sulphur cluster), SUF (sulphur assimilation), and NIF (nitrogen fixation) systems. The ISC system is conserved in eubacteria and eukaryotes (mitochondria), and has broad specificity, targeting general FeS proteins [, ]. It is encoded by the isc operon (iscRSUA-hscBA-fdx-iscX). IscS is a cysteine desulphurase, which obtains S from cysteine (converting it to alanine) and serves as a S donor for FeS cluster assembly. IscU and IscA act as scaffolds to accept S and Fe atoms, assembling clusters and transfering them to recipient apoproteins. HscA is a molecular chaperone and HscB is a co-chaperone. Fdx is a [2Fe-2S]-type ferredoxin. IscR is a transcription factor that regulates expression of the isc operon. IscX (also known as YfhJ) appears to interact with IscS and may function as an Fe donor during cluster assembly []. The SUF system is an alternative pathway to the ISC system that operates under iron starvation and oxidative stress. It is found in eubacteria, archaea and eukaryotes (plastids). The SUF system is encoded by the suf operon (sufABCDSE), and the six encoded proteins are arranged into two complexes (SufSE and SufBCD) and one protein (SufA). SufS is a pyridoxal-phosphate (PLP) protein displaying cysteine desulphurase activity. SufE acts as a scaffold protein that accepts S from SufS and donates it to SufA []. SufC is an ATPase with an unorthodox ATP-binding cassette (ABC)-like component. No specific functions have been assigned to SufB and SufD. SufA is homologous to IscA [], acting as a scaffold protein in which Fe and S atoms are assembled into [FeS] cluster forms, which can then easily be transferred to apoproteins targets. In the NIF system, NifS and NifU are required for the formation of metalloclusters of nitrogenase in Azotobacter vinelandii, and other organisms, as well as in the maturation of other FeS proteins. Nitrogenase catalyses the fixation of nitrogen. It contains a complex cluster, the FeMo cofactor, which contains molybdenum, Fe and S. NifS is a cysteine desulphurase. NifU binds one Fe atom at its N-terminal, assembling an FeS cluster that is transferred to nitrogenase apoproteins []. Nif proteins involved in the formation of FeS clusters can also be found in organisms that do not fix nitrogen []. This domain is found at the N terminus of NifU (from NIF system) and NifU related proteins, and in the human Nfu protein. Both of these proteins are thought to be involved in the assembly of iron-sulphur clusters, functioning as scaffolds [, ]. ; GO: 0005506 iron ion binding; PDB: 2FFM_A 1PQX_A 2K1H_A.
Probab=44.29 E-value=46 Score=27.17 Aligned_cols=40 Identities=23% Similarity=0.145 Sum_probs=29.6
Q ss_pred HHHHHhHcCCCCeeEEEEeCCCCEEEEE--ecCCHHHHHHHHHH
Q 018608 19 SIFLNWVLFIFGVYTTKIDLRQHKVVVK--GDVAAETLIGKLEK 60 (353)
Q Consensus 19 ~kVkKaLskIeGVesVeVDLe~qkVTVt--G~VDp~~LlkaIkK 60 (353)
.-+-++|-.|+||.+|-+... -|||+ ..+|++.|+..|+.
T Consensus 37 spLA~~Lf~i~gV~~Vf~~~d--fItVtK~~~~~W~~l~~~I~~ 78 (87)
T PF08712_consen 37 SPLAQALFAIPGVKSVFIGDD--FITVTKNPDADWEDLKPEIRE 78 (87)
T ss_dssp -HHHHHHHTSTTEEEEEEETT--EEEEEE-TTS-HHHHHHHHHH
T ss_pred CHHHHHhcCCCCEeEEEEECC--EEEEeeCCCCCHHHHHHHHHH
Confidence 345677789999999987554 67775 57999999998854
No 32
>KOG3411 consensus 40S ribosomal protein S19 [Translation, ribosomal structure and biogenesis]
Probab=43.10 E-value=33 Score=31.07 Aligned_cols=49 Identities=10% Similarity=0.095 Sum_probs=36.6
Q ss_pred ecCCchhHHHHHHHhHcCCCCeeEEEEeCCCC-EEEEEecCCHHHHHHHHHHc
Q 018608 10 YSFSSKLKASIFLNWVLFIFGVYTTKIDLRQH-KVVVKGDVAAETLIGKLEKN 61 (353)
Q Consensus 10 ~CmsC~~CA~kVkKaLskIeGVesVeVDLe~q-kVTVtG~VDp~~LlkaIkKt 61 (353)
+|-+-+.|+++|..+|++|. =|+.+...+ ++|=.|.-|.+.|...|+..
T Consensus 92 ~~~as~~i~rkvlQ~Le~~~---~ve~hp~gGR~lt~~GqrdldrIa~~i~~~ 141 (143)
T KOG3411|consen 92 FCDASGGIARKVLQALEKMG---IVEKHPKGGRRLTEQGQRDLDRIAGQIREE 141 (143)
T ss_pred hhccccHHHHHHHHHHHhCC---ceeeCCCCcceeCcccchhHHHHHHHHHhc
Confidence 57777788888877777763 456666665 56668999999999998653
No 33
>PF08002 DUF1697: Protein of unknown function (DUF1697); InterPro: IPR012545 This family contains many hypothetical bacterial proteins.; PDB: 2HIY_B.
Probab=42.89 E-value=69 Score=28.05 Aligned_cols=49 Identities=16% Similarity=0.204 Sum_probs=36.9
Q ss_pred HHHHHHhHcCCCCeeEEEEeCCCCEEEEEecCCHHHHHHHH-----HHcCCceEE
Q 018608 18 ASIFLNWVLFIFGVYTTKIDLRQHKVVVKGDVAAETLIGKL-----EKNGKHAEL 67 (353)
Q Consensus 18 A~kVkKaLskIeGVesVeVDLe~qkVTVtG~VDp~~LlkaI-----kKtGK~AeL 67 (353)
-..++.+|.++ |-.+|..=+.++-|+++...+.+.|..+| +..|+++.+
T Consensus 21 MaeLr~~l~~~-Gf~~V~Tyi~SGNvvf~~~~~~~~l~~~ie~~l~~~fG~~v~v 74 (137)
T PF08002_consen 21 MAELREALEDL-GFTNVRTYIQSGNVVFESDRDPAELAAKIEKALEERFGFDVPV 74 (137)
T ss_dssp HHHHHHHHHHC-T-EEEEEETTTTEEEEEESS-HHHHHHHHHHHHHHH-TT---E
T ss_pred HHHHHHHHHHc-CCCCceEEEeeCCEEEecCCChHHHHHHHHHHHHHhcCCCeEE
Confidence 35789999998 89999999999999999888988888777 367887654
No 34
>PRK11198 LysM domain/BON superfamily protein; Provisional
Probab=42.43 E-value=33 Score=30.29 Aligned_cols=48 Identities=17% Similarity=0.118 Sum_probs=34.7
Q ss_pred HHHHHHhHcCCC-CeeEEEEeCCCCEEEEEecCCHHHHHHHHHHcCCce
Q 018608 18 ASIFLNWVLFIF-GVYTTKIDLRQHKVVVKGDVAAETLIGKLEKNGKHA 65 (353)
Q Consensus 18 A~kVkKaLskIe-GVesVeVDLe~qkVTVtG~VDp~~LlkaIkKtGK~A 65 (353)
+++|+++|.+.. ++..++|..+++.||+.|.++....+.+|...=+.+
T Consensus 28 ~~~i~~~i~~~~~~~~~i~V~v~~G~v~l~G~v~s~~~~~~~~~aa~~v 76 (147)
T PRK11198 28 ADALKEHISKQGLGDADVNVQVEDGKATVSGDAASQEAKEKILLAVGNI 76 (147)
T ss_pred HHHHHHHHHhcCCCcCCceEEEeCCEEEEEEEeCCHHHHHHHHHHhccC
Confidence 467777776631 244678888899999999998888888885443443
No 35
>PF01206 TusA: Sulfurtransferase TusA; InterPro: IPR001455 SirA functions as a response regulator as part of a two-component system, where BarA is the sensor kinase. This system increases the expression of virulence genes and decreases the expression of motility genes []. BarA phosphorylates SirA, thereby activating the protein. Phosphorylated SirA directly activates virulence expression by interacting with hilA and hilC promoters, while repressing the flagellar regulon indirectly by binding to the csrB promoter, which in turn affects flagellar gene expression. Orthologues of SirA from Salmonella spp. can be found throughout proteobacteria, such as GacA in Psuedomonas spp., VarA in Vibrio cholerae, ExpA in Erwinia carotovora, LetA in Legionella pneumophila, and UvrY in Escherichia coli []. A sensor kinase for SirA is present in each of these organisms as well; the sensor kinase is known as BarA in E. coli and Salmonella spp., but has different names in other genera. In different species, SirA/BarA orthologues are required for virulence gene expression, exoenzyme and antibiotic production, motility, and biofilm formation. The structure of SirA consists of an alpha/beta sandwich with a beta-alpha-beta-alpha-beta(2) fold, comprising a mixed four-stranded beta-sheet stacked against two alpha-helices, both of which are nearly parallel to the strands of the beta-sheet []. Several uncharacterised bacterial proteins (73 to 81 amino-acid residues in length) that contain a well-conserved region in their N-terminal region show structural similarity to the SirA protein, including the E. coli protein YedF (P0AA31 from SWISSPROT), and other members of the UPF0033 family.; GO: 0016783 sulfurtransferase activity, 0008033 tRNA processing, 0005737 cytoplasm; PDB: 3LVJ_D 3LVK_B 1DCJ_A 3HZ7_A 1JDQ_A 1JE3_A 1PAV_A.
Probab=41.35 E-value=61 Score=24.37 Aligned_cols=55 Identities=18% Similarity=0.023 Sum_probs=38.2
Q ss_pred EEeeecCCchhHHHHHHHhHcCCCCeeEEEEeCCCCEEEEEecCCHHHHHHHHHHcCCceEE
Q 018608 6 SLVLYSFSSKLKASIFLNWVLFIFGVYTTKIDLRQHKVVVKGDVAAETLIGKLEKNGKHAEL 67 (353)
Q Consensus 6 ~V~L~CmsC~~CA~kVkKaLskIeGVesVeVDLe~qkVTVtG~VDp~~LlkaIkKtGK~AeL 67 (353)
.|++.++.|-...-.++++|.+++.=+.++ |+++-......|.+.++..|+.+.-
T Consensus 2 ~lD~rg~~CP~Pll~~~~~l~~l~~G~~l~-------v~~d~~~~~~di~~~~~~~g~~~~~ 56 (70)
T PF01206_consen 2 TLDLRGLSCPMPLLKAKKALKELPPGEVLE-------VLVDDPAAVEDIPRWCEENGYEVVE 56 (70)
T ss_dssp EEECSS-STTHHHHHHHHHHHTSGTT-EEE-------EEESSTTHHHHHHHHHHHHTEEEEE
T ss_pred EEeCCCCCCCHHHHHHHHHHHhcCCCCEEE-------EEECCccHHHHHHHHHHHCCCEEEE
Confidence 578888999999999999999984222332 2333345567788888999997543
No 36
>cd06167 LabA_like LabA_like proteins. A well conserved group of bacterial proteins with no defined function. LabA, a member from Synechococcus elongatus PCC 7942, has been shown to play a role in cyanobacterial circadian timing. It is required for negative feedback regulation of the autokinase/autophosphatase KaiC, a central component of the circadian clock system. In particular, LabA seems necessary for KaiC-dependent repression of gene expression.
Probab=41.32 E-value=35 Score=28.80 Aligned_cols=32 Identities=25% Similarity=0.277 Sum_probs=28.0
Q ss_pred CCEEEEEecCCHHHHHHHHHHcCCceEECCCC
Q 018608 40 QHKVVVKGDVAAETLIGKLEKNGKHAELWPES 71 (353)
Q Consensus 40 ~qkVTVtG~VDp~~LlkaIkKtGK~AeL~~~~ 71 (353)
+.-|.|+|+-|-.-++++|++.|+++.+++..
T Consensus 101 d~ivLvSgD~Df~~~i~~lr~~G~~V~v~~~~ 132 (149)
T cd06167 101 DTIVLVSGDSDFVPLVERLRELGKRVIVVGFE 132 (149)
T ss_pred CEEEEEECCccHHHHHHHHHHcCCEEEEEccC
Confidence 34566799999999999999999999999885
No 37
>PRK11023 outer membrane lipoprotein; Provisional
Probab=40.79 E-value=49 Score=30.40 Aligned_cols=45 Identities=13% Similarity=0.019 Sum_probs=34.8
Q ss_pred HHHHhHcCCCCee---EEEEeCCCCEEEEEecCCHHHHHHHHHHcCCc
Q 018608 20 IFLNWVLFIFGVY---TTKIDLRQHKVVVKGDVAAETLIGKLEKNGKH 64 (353)
Q Consensus 20 kVkKaLskIeGVe---sVeVDLe~qkVTVtG~VDp~~LlkaIkKtGK~ 64 (353)
+|+.+|..-+.+. .|.|+...+.|+++|.++.+.+..+..++=++
T Consensus 53 ~V~~aL~~~~~l~~~~~I~V~v~~G~V~L~G~V~~~~~k~~A~~ia~~ 100 (191)
T PRK11023 53 RVNNALSKDEQIKKEARINVTAYQGKVLLTGQSPNAELSERAKQIAMG 100 (191)
T ss_pred HHHHHHhhCcccCcCceEEEEEECCEEEEEEEeCCHHHHHHHHHHHhc
Confidence 5778887766663 69999999999999999888777766544444
No 38
>PF05046 Img2: Mitochondrial large subunit ribosomal protein (Img2); InterPro: IPR007740 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms. The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. This family of proteins has been identified as part of the mitochondrial large ribosomal subunit in Saccharomyces cerevisiae [].; GO: 0003735 structural constituent of ribosome, 0006412 translation, 0005622 intracellular, 0005840 ribosome
Probab=40.13 E-value=78 Score=25.84 Aligned_cols=47 Identities=13% Similarity=0.039 Sum_probs=35.1
Q ss_pred hHHHHHHHhHcCCCC-eeEEEEeCCCCEEEEEecCCHHHHHHHHHHcCC
Q 018608 16 LKASIFLNWVLFIFG-VYTTKIDLRQHKVVVKGDVAAETLIGKLEKNGK 63 (353)
Q Consensus 16 ~CA~kVkKaLskIeG-VesVeVDLe~qkVTVtG~VDp~~LlkaIkKtGK 63 (353)
.+.+.+++.|..... -..+.|+...++|.|.|+. ...|.+-|...||
T Consensus 40 aL~~dL~~~l~~~~~~~~~~~V~~~~g~i~IkG~~-~~~Vk~wL~~~GF 87 (87)
T PF05046_consen 40 ALKKDLRKFLGEKPKKKIDVRVNELTGHIEIKGDH-VEEVKKWLLEKGF 87 (87)
T ss_pred HHHHHHHHHhhhhcCCCcceEEeecCCEEEEcCcc-HHHHHHHHHHCcC
Confidence 456677777765533 2368899999999999997 6777778877775
No 39
>cd03028 GRX_PICOT_like Glutaredoxin (GRX) family, PKC-interacting cousin of TRX (PICOT)-like subfamily; composed of PICOT and GRX-PICOT-like proteins. The non-PICOT members of this family contain only the GRX-like domain, whereas PICOT contains an N-terminal TRX-like domain followed by one to three GRX-like domains. It is interesting to note that PICOT from plants contain three repeats of the GRX-like domain, metazoan proteins (except for insect) have two repeats, while fungal sequences contain only one copy of the domain. PICOT is a protein that interacts with protein kinase C (PKC) theta, a calcium independent PKC isoform selectively expressed in skeletal muscle and T lymphocytes. PICOT inhibits the activation of c-Jun N-terminal kinase and the transcription factors, AP-1 and NF-kB, induced by PKC theta or T-cell activating stimuli. Both GRX and TRX domains of PICOT are required for its activity. Characterized non-PICOT members of this family include CXIP1, a CAX-interacting protein
Probab=40.01 E-value=84 Score=24.94 Aligned_cols=43 Identities=14% Similarity=0.052 Sum_probs=27.0
Q ss_pred ecCCchhHHHHHHHhHcCCCCeeEEEEeCCCCEEEEEecCCHHHHHHHH-HHcCCc
Q 018608 10 YSFSSKLKASIFLNWVLFIFGVYTTKIDLRQHKVVVKGDVAAETLIGKL-EKNGKH 64 (353)
Q Consensus 10 ~CmsC~~CA~kVkKaLskIeGVesVeVDLe~qkVTVtG~VDp~~LlkaI-kKtGK~ 64 (353)
.|..|..|. ++++.|.++ ||.=..+|+.. | ..+.+.| +.+|..
T Consensus 19 ~~~~Cp~C~-~ak~~L~~~-~i~y~~idv~~---------~-~~~~~~l~~~~g~~ 62 (90)
T cd03028 19 EEPRCGFSR-KVVQILNQL-GVDFGTFDILE---------D-EEVRQGLKEYSNWP 62 (90)
T ss_pred CCCCCcHHH-HHHHHHHHc-CCCeEEEEcCC---------C-HHHHHHHHHHhCCC
Confidence 455777776 667778776 67766666543 2 3566666 456654
No 40
>PRK11200 grxA glutaredoxin 1; Provisional
Probab=36.30 E-value=46 Score=25.78 Aligned_cols=27 Identities=4% Similarity=-0.156 Sum_probs=17.0
Q ss_pred CchhHHHHHHHhHcCC----CCeeEEEEeCCC
Q 018608 13 SSKLKASIFLNWVLFI----FGVYTTKIDLRQ 40 (353)
Q Consensus 13 sC~~CA~kVkKaLskI----eGVesVeVDLe~ 40 (353)
.|..|. ++++.|..| .||.=..+|+..
T Consensus 10 ~C~~C~-~a~~~L~~l~~~~~~i~~~~idi~~ 40 (85)
T PRK11200 10 GCPYCV-RAKELAEKLSEERDDFDYRYVDIHA 40 (85)
T ss_pred CChhHH-HHHHHHHhhcccccCCcEEEEECCC
Confidence 355554 566777776 677666666654
No 41
>COG1094 Predicted RNA-binding protein (contains KH domains) [General function prediction only]
Probab=35.86 E-value=62 Score=30.76 Aligned_cols=39 Identities=15% Similarity=0.101 Sum_probs=32.2
Q ss_pred HHHHHhHcCCCCeeEEEEeCCCCEEEEEec---CCHHHHHHHH
Q 018608 19 SIFLNWVLFIFGVYTTKIDLRQHKVVVKGD---VAAETLIGKL 58 (353)
Q Consensus 19 ~kVkKaLskIeGVesVeVDLe~qkVTVtG~---VDp~~LlkaI 58 (353)
..|++.|....|| .+.+|++++.|+|+.. -||..++++.
T Consensus 27 g~v~k~ie~~~~~-~~~iD~~~~~V~i~~~~~t~Dp~~~~ka~ 68 (194)
T COG1094 27 GEVKKAIEEKTGV-KLRIDSKTGSVTIRTTRKTEDPLALLKAR 68 (194)
T ss_pred ccchHHHHhhcCe-EEEEECCCCeEEEEecCCCCChHHHHHHH
Confidence 4678888888777 7899999999999775 6888777764
No 42
>PF10262 Rdx: Rdx family; InterPro: IPR011893 This entry represents the Rdx family of selenoproteins, which includes mammalian selenoproteins SelW, SelV, SelT and SelH, bacterial SelW-like proteins and cysteine-containing proteins of unknown function in all three domains of life. Mammalian Rdx12 and its fish selenoprotein orthologues are also members of this family []. These proteins possess a thioredoxin-like fold and a conserved CXXC or CxxU (U is selenocysteine) motif near the N terminus, suggesting a redox function. Rdx proteins can use catalytic cysteine (or selenocysteine) to form transient mixed disulphides with substrate proteins. Selenium (Se) plays an essential role in cell survival and most of the effects of Se are probably mediated by selenoproteins. Selenoprotein W (SelW) plays an important role in protection of neurons from oxidative stress during neuronal development [], []. Selenoprotein T (SelT) is conserved from plants to humans. SelT is localized to the endoplasmic reticulum through a hydrophobic domain. The protein binds to UDP-glucose:glycoprotein glucosyltransferase (UGTR), the endoplasmic reticulum (ER)-resident protein, which is known to be involved in the quality control of protein folding [, ]. The function of SelT is unknown, although it may have a role in PACAP signaling during PC12 cell differentiation [, ]. Selenoprotein H (SelH) protects neurons against UVB-induced damage by inhibiting apoptotic cell death pathways, by preventing mitochondrial depolarization, and by promoting cell survival pathways [].; GO: 0008430 selenium binding, 0045454 cell redox homeostasis; PDB: 2OJL_B 2FA8_A 2P0G_C 2NPB_A 3DEX_C 2OKA_A 2OBK_G.
Probab=35.69 E-value=1.9e+02 Score=22.49 Aligned_cols=13 Identities=0% Similarity=0.074 Sum_probs=8.9
Q ss_pred cCCHHHHHHHHHH
Q 018608 48 DVAAETLIGKLEK 60 (353)
Q Consensus 48 ~VDp~~LlkaIkK 60 (353)
-.+++.|+++|++
T Consensus 63 fP~~~~i~~~I~~ 75 (76)
T PF10262_consen 63 FPDPDEIVQLIRD 75 (76)
T ss_dssp SS-HHHHHHHHHH
T ss_pred CCCHHHHHHHHhc
Confidence 3588888888864
No 43
>TIGR02194 GlrX_NrdH Glutaredoxin-like protein NrdH. NrdH-redoxin is a representative of a class of small redox proteins that contain a conserved CXXC motif and are characterized by a glutaredoxin-like amino acid sequence and thioredoxin-like activity profile. Unlike other the glutaredoxins to which it is most closely related, NrdH aparrently does not interact with glutathione/glutathione reductase, but rather with thioredoxin reductase to catalyze the reduction of ribonucleotide reductase.
Probab=34.61 E-value=1.2e+02 Score=22.80 Aligned_cols=26 Identities=8% Similarity=-0.003 Sum_probs=17.4
Q ss_pred CchhHHHHHHHhHcCCCCeeEEEEeCCC
Q 018608 13 SSKLKASIFLNWVLFIFGVYTTKIDLRQ 40 (353)
Q Consensus 13 sC~~CA~kVkKaLskIeGVesVeVDLe~ 40 (353)
.|..|. ++++.|.+. ||.-..+|+.+
T Consensus 8 ~Cp~C~-~ak~~L~~~-~i~~~~~di~~ 33 (72)
T TIGR02194 8 NCVQCK-MTKKALEEH-GIAFEEINIDE 33 (72)
T ss_pred CCHHHH-HHHHHHHHC-CCceEEEECCC
Confidence 566665 677888875 77665666654
No 44
>TIGR02945 SUF_assoc FeS assembly SUF system protein. Members of this family belong to the broader Pfam family pfam01883, or Domain of Unknown Function DUF59. Many members of DUF59 are candidate ring hydroxylating complex subunits. However, members of the narrower family defined here all are found in genomes that carry the FeS assembly SUF system. For 70 % of these species, the member of this protein family is found as part of the SUF locus, usually immediately downstream of the sufS gene.
Probab=34.18 E-value=75 Score=25.63 Aligned_cols=37 Identities=16% Similarity=0.139 Sum_probs=26.6
Q ss_pred EEEEEeeecCCchhHH---HHHHHhHcCCCCeeEEEEeCC
Q 018608 3 YTLSLVLYSFSSKLKA---SIFLNWVLFIFGVYTTKIDLR 39 (353)
Q Consensus 3 ~vl~V~L~CmsC~~CA---~kVkKaLskIeGVesVeVDLe 39 (353)
+.+.+.+....|.... ..|+.+|..++||++|+|++.
T Consensus 39 v~i~l~l~~p~~~~~~~l~~~i~~al~~l~gv~~v~v~i~ 78 (99)
T TIGR02945 39 VDIQMTLTAPNCPVAGSMPGEVENAVRAVPGVGSVTVELV 78 (99)
T ss_pred EEEEEEECCCCCChHHHHHHHHHHHHHhCCCCceEEEEEE
Confidence 3456666666666433 468889999999999998764
No 45
>cd04888 ACT_PheB-BS C-terminal ACT domain of a small (~147 a.a.) putative phenylalanine biosynthetic pathway protein described in Bacillus subtilis (BS) PheB (PheB-BS) and related domains. This CD includes the C-terminal ACT domain of a small (~147 a.a.) putative phenylalanine biosynthetic pathway protein described in Bacillus subtilis (BS) PheB (PheB-BS) and other related ACT domains. In B. subtilis, the upstream gene of pheB, pheA encodes prephenate dehydratase (PDT). The presumed product of the pheB gene is chorismate mutase (CM). The deduced product of the B. subtilis pheB gene, however, has no significant homology to the CM portion of the bifunctional CM-PDT of Escherichia coli. The presence of an ACT domain lends support to the prediction that these proteins function as a phenylalanine-binding regulatory protein. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=34.14 E-value=1.2e+02 Score=22.33 Aligned_cols=20 Identities=20% Similarity=0.114 Sum_probs=15.9
Q ss_pred HHHHHHHhHcCCCCeeEEEE
Q 018608 17 KASIFLNWVLFIFGVYTTKI 36 (353)
Q Consensus 17 CA~kVkKaLskIeGVesVeV 36 (353)
--..|.+.|++++||.+|.+
T Consensus 55 ~l~~l~~~L~~i~~V~~v~~ 74 (76)
T cd04888 55 DIDELLEELREIDGVEKVEL 74 (76)
T ss_pred HHHHHHHHHhcCCCeEEEEE
Confidence 34678888999999998875
No 46
>PF04468 PSP1: PSP1 C-terminal conserved region; InterPro: IPR007557 The yeast polymerase suppressor 1 (PSP1) protein partially suppresses mutations in DNA polymerases alpha and delta []. The C-terminal half of PSP1 contains a domain, which is also found in several hypothetical proteins from both eukaryotic and prokaryotic sources: Crithidia fasciculata RBP45 and RBP33, subunits of the cycling sequence binding protein (CSBP) II. RBP45 and RBP33 proteins bind specifically to the cycling sequences present in several mRNAs that accumulate periodically during the cell cycle. RBP45 and RBP33 are phosphoproteins, which are phosphorylated differentially during progression through the cell cycle. Hypothetical proteins with high sequence similarity have been identified in other kinetoplastid organisms []. Bacillus subtilis yaaT protein, which plays a significant role in phosphorelay during initiation of sporulation. It is possible that the yaaT protein is also related to DNA replication. The sequence of the yaaT protein is widely conserved in prokaryotes (bacteria and archaea), but the functions of the protein are unknown []. The actual biological significance of the PSP1 C-terminal domain has not yet been clearly established.
Probab=33.54 E-value=1.4e+02 Score=24.21 Aligned_cols=52 Identities=12% Similarity=0.122 Sum_probs=37.6
Q ss_pred hHHHHHHHhHcCCCCeeEEEEeCCCCEEEE----EecCCHHHHHHHH-HHcCCceEEC
Q 018608 16 LKASIFLNWVLFIFGVYTTKIDLRQHKVVV----KGDVAAETLIGKL-EKNGKHAELW 68 (353)
Q Consensus 16 ~CA~kVkKaLskIeGVesVeVDLe~qkVTV----tG~VDp~~LlkaI-kKtGK~AeL~ 68 (353)
-|-..|+..-..|+ |-+++..+..++||| .+.||--.|++.| +..+.+++++
T Consensus 30 ~c~~~~~~~~L~m~-lvd~e~~~D~~k~~fyy~a~~rvDFR~Lvr~L~~~f~~RIem~ 86 (88)
T PF04468_consen 30 FCRELVKELGLPMK-LVDVEYQFDGSKLTFYYTAESRVDFRELVRDLAREFKTRIEMR 86 (88)
T ss_pred HHHHHHHHcCCCeE-EEEEEEEcCCCEEEEEEEeCCcCcHHHHHHHHHHHhCceEEEE
Confidence 45556665444443 568889999999999 4679999999999 5555555553
No 47
>PF00679 EFG_C: Elongation factor G C-terminus; InterPro: IPR000640 Translation elongation factors are responsible for two main processes during protein synthesis on the ribosome [, , ]. EF1A (or EF-Tu) is responsible for the selection and binding of the cognate aminoacyl-tRNA to the A-site (acceptor site) of the ribosome. EF2 (or EF-G) is responsible for the translocation of the peptidyl-tRNA from the A-site to the P-site (peptidyl-tRNA site) of the ribosome, thereby freeing the A-site for the next aminoacyl-tRNA to bind. Elongation factors are responsible for achieving accuracy of translation and both EF1A and EF2 are remarkably conserved throughout evolution. Elongation factor EF2 (EF-G) is a G-protein. It brings about the translocation of peptidyl-tRNA and mRNA through a ratchet-like mechanism: the binding of GTP-EF2 to the ribosome causes a counter-clockwise rotation in the small ribosomal subunit; the hydrolysis of GTP to GDP by EF2 and the subsequent release of EF2 causes a clockwise rotation of the small subunit back to the starting position [, ]. This twisting action destabilises tRNA-ribosome interactions, freeing the tRNA to translocate along the ribosome upon GTP-hydrolysis by EF2. EF2 binding also affects the entry and exit channel openings for the mRNA, widening it when bound to enable the mRNA to translocate along the ribosome. This entry represents the C-terminal domain found in EF2 (or EF-G) of both prokaryotes and eukaryotes (also known as eEF2), as well as in some tetracycline-resistance proteins. This domain adopts a ferredoxin-like fold consisting of an alpha/beta sandwich with anti-parallel beta-sheets. It resembles the topology of domain III found in these elongation factors, with which it forms the C-terminal block, but these two domains cannot be superimposed []. This domain is often found associated with (IPR000795 from INTERPRO), which contains the signatures for the N terminus of the proteins. More information about these proteins can be found at Protein of the Month: Elongation Factors [].; GO: 0005525 GTP binding; PDB: 1WDT_A 2DY1_A 3CB4_F 3DEG_C 2EFG_A 1ELO_A 2XSY_Y 2WRK_Y 1DAR_A 2WRI_Y ....
Probab=32.74 E-value=86 Score=24.90 Aligned_cols=48 Identities=10% Similarity=0.090 Sum_probs=34.0
Q ss_pred EEEeeecCCchhHHHHHHHhHcCCCC-eeEEEEeCCCCEEEEEecCCHHHHH
Q 018608 5 LSLVLYSFSSKLKASIFLNWVLFIFG-VYTTKIDLRQHKVVVKGDVAAETLI 55 (353)
Q Consensus 5 l~V~L~CmsC~~CA~kVkKaLskIeG-VesVeVDLe~qkVTVtG~VDp~~Ll 55 (353)
+.+.+.|- ..+..+|...|.+..| |.+++.+ ..+.++|++.++...+.
T Consensus 7 ~~~~I~~p--~~~~g~v~~~l~~r~g~i~~~~~~-~~~~~~i~~~iP~~~~~ 55 (89)
T PF00679_consen 7 MSVEISVP--EEYLGKVISDLSKRRGEILSMDPI-GGDRVVIEAEIPVRELF 55 (89)
T ss_dssp EEEEEEEE--GGGHHHHHHHHHHTT-EEEEEEEE-STTEEEEEEEEEGGGHT
T ss_pred EEEEEEEC--HHHHHHHHHHhcccccEEEechhh-hhhheeEEEEEChhhhh
Confidence 45555555 4568899999999888 4455555 68899999988776653
No 48
>PRK11018 hypothetical protein; Provisional
Probab=32.65 E-value=1.4e+02 Score=23.52 Aligned_cols=56 Identities=11% Similarity=-0.060 Sum_probs=41.6
Q ss_pred EEEEeeecCCchhHHHHHHHhHcCCCCeeEEEEeCCCCEEEEEecCCHHHHHHHHHHcCCceE
Q 018608 4 TLSLVLYSFSSKLKASIFLNWVLFIFGVYTTKIDLRQHKVVVKGDVAAETLIGKLEKNGKHAE 66 (353)
Q Consensus 4 vl~V~L~CmsC~~CA~kVkKaLskIeGVesVeVDLe~qkVTVtG~VDp~~LlkaIkKtGK~Ae 66 (353)
...|++.+..|-.-+-+++++|.++.-=+.++ |.++.......|-..+++.|+.+.
T Consensus 8 ~~~lD~rG~~CP~Pvl~~kk~l~~l~~G~~L~-------V~~d~~~a~~di~~~~~~~G~~v~ 63 (78)
T PRK11018 8 DYRLDMVGEPCPYPAVATLEALPQLKKGEILE-------VVSDCPQSINNIPLDARNHGYTVL 63 (78)
T ss_pred CeeEECCCCcCCHHHHHHHHHHHhCCCCCEEE-------EEeCCccHHHHHHHHHHHcCCEEE
Confidence 36788889999988889999999986323333 244445667778888899999875
No 49
>cd02410 archeal_CPSF_KH The archaeal cleavage and polyadenylation specificity factor (CPSF) contains an N-terminal K homology RNA-binding domain (KH). The archeal CPSFs are predicted to be metal-dependent RNases belonging to the beta-CASP family, a subgroup enzymes within the metallo-beta-lactamase fold. The KH motif is a beta-alpha-alpha-beta-beta unit that folds into an alpha-beta structure with a three stranded beta-sheet interupted by two contiguous helices. In general, KH domains are known to bind single-stranded RNA or DNA and are found in a wide variety of proteins including ribosomal proteins, transcription factors and post-transcriptional modifiers of mRNA.
Probab=31.56 E-value=1.7e+02 Score=26.67 Aligned_cols=56 Identities=16% Similarity=0.151 Sum_probs=39.8
Q ss_pred HHHHhHcCCCCeeEEEEeCCCCEEEEEecC-------CHHHHHHHHHHcCCceEECCCCCcch
Q 018608 20 IFLNWVLFIFGVYTTKIDLRQHKVVVKGDV-------AAETLIGKLEKNGKHAELWPESKAEQ 75 (353)
Q Consensus 20 kVkKaLskIeGVesVeVDLe~qkVTVtG~V-------Dp~~LlkaIkKtGK~AeL~~~~p~p~ 75 (353)
.|++.+=+-.||.++..|...+.|+|.-.- .-..|.+-+.+||+...++...|-+.
T Consensus 57 ~I~~ivP~ea~i~di~Fd~~tGEV~IeaeKPG~ViGk~g~~~reI~~~tgW~p~vvRtpPi~S 119 (145)
T cd02410 57 IILEIVPEEAGITDIYFDDDTGEVIIEAEKPGLVIGKGGSTLREITRETGWAPKVVRTPPIQS 119 (145)
T ss_pred HHHHhCCCccCceeeEecCCCcEEEEEEcCCeEEEecCchhHHHHHHHhCCeeEEEecCCCCc
Confidence 455555444589999999999999996431 23334444489999999988866554
No 50
>KOG1924 consensus RhoA GTPase effector DIA/Diaphanous [Signal transduction mechanisms; Cytoskeleton]
Probab=31.52 E-value=2.5e+02 Score=32.42 Aligned_cols=11 Identities=36% Similarity=0.613 Sum_probs=7.9
Q ss_pred cCCHHHHHHHH
Q 018608 48 DVAAETLIGKL 58 (353)
Q Consensus 48 ~VDp~~LlkaI 58 (353)
++|...||+.+
T Consensus 453 ~id~~~liD~~ 463 (1102)
T KOG1924|consen 453 DIDLTELIDKM 463 (1102)
T ss_pred cCcHHHHHHHH
Confidence 56777777776
No 51
>PRK10555 aminoglycoside/multidrug efflux system; Provisional
Probab=31.37 E-value=74 Score=36.42 Aligned_cols=44 Identities=14% Similarity=0.010 Sum_probs=34.7
Q ss_pred HHHHHHhHcCCCCeeEEEEeCCCCEEEEEe--------cCCHHHHHHHHHHc
Q 018608 18 ASIFLNWVLFIFGVYTTKIDLRQHKVVVKG--------DVAAETLIGKLEKN 61 (353)
Q Consensus 18 A~kVkKaLskIeGVesVeVDLe~qkVTVtG--------~VDp~~LlkaIkKt 61 (353)
++.|++.|+.++||.+|++.-....+.|+= .++..+|..+|+..
T Consensus 159 ~~~l~~~L~~v~GV~~V~~~G~~~ei~V~vD~~kl~~~gls~~~v~~al~~~ 210 (1037)
T PRK10555 159 ASNIQDPLSRVNGVGDIDAYGSQYSMRIWLDPAKLNSFQMTTKDVTDAIESQ 210 (1037)
T ss_pred HHHHHHHhhcCCCeEEEEEcCCceEEEEEECHHHHHHcCCCHHHHHHHHHHh
Confidence 467999999999999999987666677751 36778888888654
No 52
>PRK11670 antiporter inner membrane protein; Provisional
Probab=30.57 E-value=1.5e+02 Score=29.99 Aligned_cols=69 Identities=17% Similarity=0.137 Sum_probs=44.7
Q ss_pred EEEEEeeecCCchhH---HHHHHHhHcCCCCeeEEEEeCCC------------------CEEEEE---ec----CCHHHH
Q 018608 3 YTLSLVLYSFSSKLK---ASIFLNWVLFIFGVYTTKIDLRQ------------------HKVVVK---GD----VAAETL 54 (353)
Q Consensus 3 ~vl~V~L~CmsC~~C---A~kVkKaLskIeGVesVeVDLe~------------------qkVTVt---G~----VDp~~L 54 (353)
+.|.|.+.-..|..- .+.++.+|..|+||.+|+|++.. +.+.|. |- .-...|
T Consensus 49 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~vIaV~S~KGGVGKTT~avNL 128 (369)
T PRK11670 49 LHIELVMPFVWNSAFEELKEQCSAELLRITGAKAIDWKLSHNIATLKRVNNQPGVNGVKNIIAVSSGKGGVGKSSTAVNL 128 (369)
T ss_pred EEEEEEECCCCchHHHHHHHHHHHHHHhcCCCceEEEEEeeehhhhccccccccCCCCCEEEEEeCCCCCCCHHHHHHHH
Confidence 345666666666533 35788999999999988765543 223342 22 244556
Q ss_pred HHHHHHcCCceEECCCC
Q 018608 55 IGKLEKNGKHAELWPES 71 (353)
Q Consensus 55 lkaIkKtGK~AeL~~~~ 71 (353)
-.+|.+.|+++-|+-.-
T Consensus 129 A~aLA~~G~rVlLID~D 145 (369)
T PRK11670 129 ALALAAEGAKVGILDAD 145 (369)
T ss_pred HHHHHHCCCcEEEEeCC
Confidence 66778899999887653
No 53
>cd08623 PI-PLCc_beta1 Catalytic domain of metazoan phosphoinositide-specific phospholipase C-beta1. This subfamily corresponds to the catalytic domain present in metazoan phosphoinositide-specific phospholipase C (PI-PLC, EC 3.1.4.11)-beta isozyme 1. PI-PLC is a signaling enzyme that hydrolyzes the membrane phospholipids phosphatidylinositol-4,5-bisphosphate (PIP2) to generate two important second messengers in eukaryotic signal transduction cascades, Inositol 1,4,5-trisphosphate (InsP3) and diacylglycerol (DAG). InsP3 triggers inflow of calcium from intracellular stores, while DAG, together with calcium, activates protein kinase C, which goes on to phosphorylate other molecules, leading to altered cellular activity. Calcium is required for the catalysis. PLC-beta represents a class of mammalian PI-PLC that has an N-terminal pleckstrin homology (PH) domain, an array of EF hands, a PLC catalytic core domain, a C2 domain, and a unique C-terminal coiled-coil (CT) domain necessary for ho
Probab=30.57 E-value=56 Score=32.16 Aligned_cols=46 Identities=9% Similarity=0.213 Sum_probs=37.4
Q ss_pred HHHHHHhHcCCCCeeEEEEeCCCCE-----E------EEEecCCHHHHHHHHHHcCCce
Q 018608 18 ASIFLNWVLFIFGVYTTKIDLRQHK-----V------VVKGDVAAETLIGKLEKNGKHA 65 (353)
Q Consensus 18 A~kVkKaLskIeGVesVeVDLe~qk-----V------TVtG~VDp~~LlkaIkKtGK~A 65 (353)
+....++|. .|+.-||+|..++. - |.+..|.-.+++++|++..|.+
T Consensus 32 ~e~y~~aL~--~GcRcvElD~wdG~~~~~ePiV~HG~tlts~i~f~dv~~~I~~~AF~~ 88 (258)
T cd08623 32 VEMYRQVLL--SGCRCVELDCWKGRTAEEEPVITHGFTMTTEISFKEVIEAIAECAFKT 88 (258)
T ss_pred HHHHHHHHH--cCCCEEEEEeeCCCCCCCCCEEeeCCCcccCcCHHHHHHHHHHHhccC
Confidence 567888885 69999999999875 2 3366799999999999887775
No 54
>cd03026 AhpF_NTD_C TRX-GRX-like family, Alkyl hydroperoxide reductase F subunit (AhpF) N-terminal domain (NTD) subfamily, C-terminal TRX-fold subdomain; AhpF is a homodimeric flavoenzyme which catalyzes the NADH-dependent reduction of the peroxiredoxin AhpC, which then reduces hydrogen peroxide and organic hydroperoxides. AhpF contains an NTD containing two contiguous TRX-fold subdomains similar to Pyrococcus furiosus protein disulfide oxidoreductase (PfPDO). It also contains a catalytic core similar to TRX reductase containing FAD and NADH binding domains with an active site disulfide. The proposed mechanism of action of AhpF is similar to a TRX/TRX reductase system. The flow of reducing equivalents goes from NADH - catalytic core of AhpF - NTD of AhpF - AhpC - peroxide substrates. The catalytic CXXC motif of the NTD of AhpF is contained in its C-terminal TRX subdomain.
Probab=30.55 E-value=1.3e+02 Score=24.22 Aligned_cols=32 Identities=9% Similarity=-0.073 Sum_probs=21.9
Q ss_pred EeeecCCchhHHHHHHHhHcCCCCeeEEEEeC
Q 018608 7 LVLYSFSSKLKASIFLNWVLFIFGVYTTKIDL 38 (353)
Q Consensus 7 V~L~CmsC~~CA~kVkKaLskIeGVesVeVDL 38 (353)
+...|..|..++..+.+.....+.|.-..+|.
T Consensus 20 ~~~~C~~C~~~~~~~~~l~~~~~~i~~~~vd~ 51 (89)
T cd03026 20 VSLSCHNCPDVVQALNLMAVLNPNIEHEMIDG 51 (89)
T ss_pred ECCCCCCcHHHHHHHHHHHHHCCCceEEEEEh
Confidence 34679999988888877666555665544443
No 55
>PRK10568 periplasmic protein; Provisional
Probab=30.13 E-value=83 Score=29.19 Aligned_cols=40 Identities=10% Similarity=0.033 Sum_probs=29.5
Q ss_pred HHHHHHhHcCCCCee--EEEEeCCCCEEEEEecCCHHHHHHH
Q 018608 18 ASIFLNWVLFIFGVY--TTKIDLRQHKVVVKGDVAAETLIGK 57 (353)
Q Consensus 18 A~kVkKaLskIeGVe--sVeVDLe~qkVTVtG~VDp~~Llka 57 (353)
..+|+.+|..-+.+. .|.|...++.|++.|.++.....++
T Consensus 62 ~~~v~~~L~~~~~i~~~~I~V~v~~G~V~L~G~V~s~~~~~~ 103 (203)
T PRK10568 62 TAKVKAALVDHDNIKSTDISVKTHQKVVTLSGFVESQAQAEE 103 (203)
T ss_pred HHHHHHHHHhCCCCCCCceEEEEECCEEEEEEEeCCHHHHHH
Confidence 356777777666664 7889999999999999974443333
No 56
>cd03421 SirA_like_N SirA_like_N, a protein of unknown function with an N-terminal SirA-like domain. The SirA, YedF, YeeD protein family is present in bacteria as well as archaea. SirA (also known as UvrY, and YhhP) belongs to a family of a two-component response regulators that controls secondary metabolism and virulence. The other member of this two-component system is a sensor kinase called BarA which phosphorylates SirA. A variety of microorganisms have similar proteins, all of which contain a common CPxP sequence motif in the N-terminal region. YhhP is suggested to be important for normal cell division and growth in rich nutrient medium. Moreover, despite a low primary sequence similarity, the YccP structure closely resembles the non-homologous C-terminal RNA-binding domain of E. coli translation initiation factor IF3. The signature CPxP motif serves to stabilize the N-terminal helix as part of the N-capping box and might be important in mRNA-binding.
Probab=30.01 E-value=1.5e+02 Score=22.12 Aligned_cols=54 Identities=13% Similarity=0.004 Sum_probs=36.6
Q ss_pred EeeecCCchhHHHHHHHhHcCCCCeeEEEEeCCCCEEEEEecCCHHHHHHHHHHcCCceEEC
Q 018608 7 LVLYSFSSKLKASIFLNWVLFIFGVYTTKIDLRQHKVVVKGDVAAETLIGKLEKNGKHAELW 68 (353)
Q Consensus 7 V~L~CmsC~~CA~kVkKaLskIeGVesVeVDLe~qkVTVtG~VDp~~LlkaIkKtGK~AeL~ 68 (353)
|++.++.|-.=.-.++++| ++..=+.+. |.++.......|.+.+++.|+.+++.
T Consensus 2 lD~rG~~CP~P~l~~k~al-~~~~g~~l~-------v~~d~~~s~~~i~~~~~~~G~~~~~~ 55 (67)
T cd03421 2 IDARGLACPQPVIKTKKAL-ELEAGGEIE-------VLVDNEVAKENVSRFAESRGYEVSVE 55 (67)
T ss_pred cccCCCCCCHHHHHHHHHH-hcCCCCEEE-------EEEcChhHHHHHHHHHHHcCCEEEEE
Confidence 4567788987778888988 664322233 23344455678888889999998643
No 57
>cd08630 PI-PLCc_delta3 Catalytic domain of metazoan phosphoinositide-specific phospholipase C-delta3. This subfamily corresponds to the catalytic domain present in metazoan phosphoinositide-specific phospholipase C (PI-PLC, EC 3.1.4.11)-delta3 isozymes. PI-PLC is a signaling enzyme that hydrolyzes the membrane phospholipids phosphatidylinositol-4,5-bisphosphate (PIP2) to generate two important second messengers in eukaryotic signal transduction cascades, Inositol 1,4,5-trisphosphate (InsP3) and diacylglycerol (DAG). InsP3 triggers inflow of calcium from intracellular stores, while DAG, together with calcium, activates protein kinase C, which then phosphorylates other molecules, leading to altered cellular activity. Calcium is required for the catalysis. PLC-delta represents a class of mammalian PI-PLC that has an N-terminal pleckstrin homology (PH) domain, an array of EF hands, a PLC catalytic core domain, and a C-terminal C2 domain. This family corresponds to the catalytic domain wh
Probab=29.78 E-value=47 Score=32.68 Aligned_cols=46 Identities=11% Similarity=0.174 Sum_probs=36.7
Q ss_pred HHHHHHhHcCCCCeeEEEEeCCCCE---EEE------EecCCHHHHHHHHHHcCCce
Q 018608 18 ASIFLNWVLFIFGVYTTKIDLRQHK---VVV------KGDVAAETLIGKLEKNGKHA 65 (353)
Q Consensus 18 A~kVkKaLskIeGVesVeVDLe~qk---VTV------tG~VDp~~LlkaIkKtGK~A 65 (353)
+..++++|. .|+..||+|..++. -+| +..|.-.+++++|++..|.+
T Consensus 32 ~~~y~~aL~--~GcRcvElD~wdg~~~eP~V~HG~tlts~i~f~~v~~~I~~~AF~~ 86 (258)
T cd08630 32 TEAYVRAFA--QGCRCVELDCWEGPGGEPVIYHGHTLTSKILFRDVIQAVRQHAFTA 86 (258)
T ss_pred HHHHHHHHH--cCCcEEEEEeecCCCCCcEEeeCCccccceEHHHHHHHHHHHhccC
Confidence 578889995 69999999998874 233 45689999999999877774
No 58
>cd08591 PI-PLCc_beta Catalytic domain of metazoan phosphoinositide-specific phospholipase C-beta. This subfamily corresponds to the catalytic domain present in metazoan phosphoinositide-specific phospholipase C (PI-PLC, EC 3.1.4.11)-beta isozymes. PI-PLC is a signaling enzyme that hydrolyzes the membrane phospholipids phosphatidylinositol-4,5-bisphosphate (PIP2) to generate two important second messengers in eukaryotic signal transduction cascades, Inositol 1,4,5-trisphosphate (InsP3) and diacylglycerol (DAG). InsP3 triggers inflow of calcium from intracellular stores, while DAG, together with calcium, activates protein kinase C, which goes on to phosphorylate other molecules, leading to altered cellular activity. Calcium is required for the catalysis. PLC-beta represents a class of mammalian PI-PLC that has an N-terminal pleckstrin homology (PH) domain, an array of EF hands, a PLC catalytic core domain, a C2 domain, and a unique C-terminal coiled-coil (CT) domain necessary for homod
Probab=29.55 E-value=47 Score=32.64 Aligned_cols=46 Identities=11% Similarity=0.177 Sum_probs=37.4
Q ss_pred HHHHHHhHcCCCCeeEEEEeCCCCEE-----------EEEecCCHHHHHHHHHHcCCce
Q 018608 18 ASIFLNWVLFIFGVYTTKIDLRQHKV-----------VVKGDVAAETLIGKLEKNGKHA 65 (353)
Q Consensus 18 A~kVkKaLskIeGVesVeVDLe~qkV-----------TVtG~VDp~~LlkaIkKtGK~A 65 (353)
+....++|. .|+..||+|..++.- |.++.+.-.+++++|++..|.+
T Consensus 32 ~e~y~~aL~--~GcRcvElD~Wdg~~~~~eP~V~HG~tlts~i~f~~v~~aIk~~AF~~ 88 (257)
T cd08591 32 VEMYRQVLL--SGCRCIELDCWDGKGEDEEPIITHGKTMCTEILFKDVIEAIAETAFKT 88 (257)
T ss_pred HHHHHHHHH--hCCcEEEEEeecCCCCCCCCEEeeCCCCccCeEHHHHHHHHHHHhccC
Confidence 567888887 699999999988762 2356789999999999887775
No 59
>PF01936 NYN: NYN domain; InterPro: IPR021139 This highly conserved domain has no known function. However it contains many conserved aspartates, suggesting an enzymatic function such as an endonuclease or glycosyl hydrolase.; PDB: 2QIP_A.
Probab=29.22 E-value=41 Score=27.74 Aligned_cols=31 Identities=29% Similarity=0.384 Sum_probs=22.0
Q ss_pred CCEEEEEecCCHHHHHHHHHHcCCceEECCC
Q 018608 40 QHKVVVKGDVAAETLIGKLEKNGKHAELWPE 70 (353)
Q Consensus 40 ~qkVTVtG~VDp~~LlkaIkKtGK~AeL~~~ 70 (353)
+.-|.|+|+-|-.-++++|+..|+++.++..
T Consensus 97 d~ivLvSgD~Df~~~v~~l~~~g~~V~v~~~ 127 (146)
T PF01936_consen 97 DTIVLVSGDSDFAPLVRKLRERGKRVIVVGA 127 (146)
T ss_dssp SEEEEE---GGGHHHHHHHHHH--EEEEEE-
T ss_pred CEEEEEECcHHHHHHHHHHHHcCCEEEEEEe
Confidence 4456789999999999999999999999984
No 60
>PF09580 Spore_YhcN_YlaJ: Sporulation lipoprotein YhcN/YlaJ (Spore_YhcN_YlaJ); InterPro: IPR019076 This entry contains YhcN and YlaJ, which are predicted lipoproteins that have been detected as spore proteins but not vegetative proteins in Bacillus subtilis. Both appear to be expressed under control of the RNA polymerase sigma-G factor. The YlaJ-like members of this family have a low-complexity, strongly acidic, 40-residue C-terminal domain.
Probab=29.15 E-value=1.4e+02 Score=26.44 Aligned_cols=30 Identities=20% Similarity=0.131 Sum_probs=25.7
Q ss_pred HHHHHHHhHcCCCCeeEEEEeCCCCEEEEE
Q 018608 17 KASIFLNWVLFIFGVYTTKIDLRQHKVVVK 46 (353)
Q Consensus 17 CA~kVkKaLskIeGVesVeVDLe~qkVTVt 46 (353)
-+..|.+.|.+|+||+++.|=.....|.|-
T Consensus 76 ~a~~i~~~v~~~~~V~~A~vvv~~~~a~Va 105 (177)
T PF09580_consen 76 LADRIANRVKKVPGVEDATVVVTDDNAYVA 105 (177)
T ss_pred HHHHHHHHHhcCCCceEEEEEEECCEEEEE
Confidence 467899999999999999988888887773
No 61
>cd04886 ACT_ThrD-II-like C-terminal ACT domain of biodegradative (catabolic) threonine dehydratase II (ThrD-II) and other related ACT domains. This CD includes the C-terminal ACT domain of biodegradative (catabolic) threonine dehydratase II (ThrD-II) and other related ACT domains. The Escherichia coli tdcB gene product, ThrD-II, anaerobically catalyzes the pyridoxal phosphate-dependent dehydration of L-threonine and L-serine to ammonia and to alpha-ketobutyrate and pyruvate, respectively. Tetrameric ThrD-II is subject to allosteric activation by AMP, inhibition by alpha-keto acids, and catabolite inactivation by several metabolites of glycolysis and the citric acid cycle. Also included in this CD are N-terminal ACT domains present in smaller (~170 a.a.) archaeal proteins of unknown function. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=28.51 E-value=1.4e+02 Score=21.06 Aligned_cols=48 Identities=15% Similarity=0.124 Sum_probs=27.6
Q ss_pred HHHHHhHcCCCC-eeEEEEeCC-----CCEE----EEEec--CCHHHHHHHHHHcCCceE
Q 018608 19 SIFLNWVLFIFG-VYTTKIDLR-----QHKV----VVKGD--VAAETLIGKLEKNGKHAE 66 (353)
Q Consensus 19 ~kVkKaLskIeG-VesVeVDLe-----~qkV----TVtG~--VDp~~LlkaIkKtGK~Ae 66 (353)
..|.++|..... |.++..... .+.+ +|... .+.+.|+++|++.|+.+.
T Consensus 13 ~~i~~~i~~~~~nI~~i~~~~~~~~~~~~~~~~~i~v~~~~~~~l~~l~~~l~~~g~~~~ 72 (73)
T cd04886 13 AKLLAVIAEAGANIIEVSHDRAFKTLPLGEVEVELTLETRGAEHIEEIIAALREAGYDVR 72 (73)
T ss_pred HHHHHHHHHcCCCEEEEEEEeccCCCCCceEEEEEEEEeCCHHHHHHHHHHHHHcCCEEe
Confidence 456677766543 455554332 2442 23331 334589999999998764
No 62
>COG3643 Glutamate formiminotransferase [Amino acid transport and metabolism]
Probab=27.95 E-value=66 Score=32.09 Aligned_cols=52 Identities=17% Similarity=0.064 Sum_probs=37.2
Q ss_pred hHHHHHHHhHcCCCCeeE--EEEeCCCCEEEEEecCCHHHHHHHH-HHcCCceEE
Q 018608 16 LKASIFLNWVLFIFGVYT--TKIDLRQHKVVVKGDVAAETLIGKL-EKNGKHAEL 67 (353)
Q Consensus 16 ~CA~kVkKaLskIeGVes--VeVDLe~qkVTVtG~VDp~~LlkaI-kKtGK~AeL 67 (353)
..+.+|+.+..+++.|.= |+.|...++-+||=--|++.+++++ +-+++.+++
T Consensus 18 ~~ie~i~a~~~~~~~v~ildve~danhNRsViT~vgdp~~~~~A~f~~ik~Aael 72 (302)
T COG3643 18 EKIEKIVAAAKSIPTVKILDVEMDANHNRSVITLVGDPSKVVNAAFALIKKAAEL 72 (302)
T ss_pred HHHHHHHHHHhcCCceEEEEeccCCCCCceEEEEecChHHHHHHHHHHHHHHHHh
Confidence 456788899999999884 5556666776666666888888887 555555444
No 63
>PRK06418 transcription elongation factor NusA-like protein; Validated
Probab=27.20 E-value=1.2e+02 Score=28.10 Aligned_cols=64 Identities=14% Similarity=0.102 Sum_probs=39.1
Q ss_pred EEeeecCCchhHHH---------HHHHhHcCC------CCee---EEEEeCCCCEEEE-E--ec--C--CHHHHHHHH-H
Q 018608 6 SLVLYSFSSKLKAS---------IFLNWVLFI------FGVY---TTKIDLRQHKVVV-K--GD--V--AAETLIGKL-E 59 (353)
Q Consensus 6 ~V~L~CmsC~~CA~---------kVkKaLskI------eGVe---sVeVDLe~qkVTV-t--G~--V--Dp~~LlkaI-k 59 (353)
+..+.|..|+...+ .|.++|.+| .+++ ++++ +++|++ . |+ + -.-.++++| +
T Consensus 11 kt~ilC~~c~~~~~~G~v~~~dv~i~~~l~~l~~~~~l~~~~~~k~~~~---ddrvIfvV~~gdg~aIGk~G~~ik~l~~ 87 (166)
T PRK06418 11 KTGLLCPRCQSLLDSGEVTELDVEVSKVLLKLEEDKELKDVEYKKAYEV---DDLVILLVTSGPRIPIGKGGKIAKALSR 87 (166)
T ss_pred ccCccChhHHhHhhcCceEEeehHHHHHHHHhhccccccCceEEEEEEe---CCEEEEEEeCCCcccccccchHHHHHHH
Confidence 34566666765444 377888887 3333 3444 355554 3 33 1 122577777 7
Q ss_pred HcCCceEECCCCC
Q 018608 60 KNGKHAELWPESK 72 (353)
Q Consensus 60 KtGK~AeL~~~~p 72 (353)
+.|++++++....
T Consensus 88 ~lgk~VevVE~s~ 100 (166)
T PRK06418 88 KLGKKVRVVEKTN 100 (166)
T ss_pred HhCCcEEEEEcCC
Confidence 8999999998753
No 64
>PF00462 Glutaredoxin: Glutaredoxin; InterPro: IPR002109 Glutaredoxins [, , ], also known as thioltransferases (disulphide reductases, are small proteins of approximately one hundred amino-acid residues which utilise glutathione and NADPH as cofactors. Oxidized glutathione is regenerated by glutathione reductase. Together these components compose the glutathione system []. Glutaredoxin functions as an electron carrier in the glutathione-dependent synthesis of deoxyribonucleotides by the enzyme ribonucleotide reductase. Like thioredoxin, which functions in a similar way, glutaredoxin possesses an active centre disulphide bond []. It exists in either a reduced or an oxidized form where the two cysteine residues are linked in an intramolecular disulphide bond. Glutaredoxin has been sequenced in a variety of species. On the basis of extensive sequence similarity, it has been proposed [] that Vaccinia virus protein O2L is most probably a glutaredoxin. Finally, it must be noted that Bacteriophage T4 thioredoxin seems also to be evolutionary related. In position 5 of the pattern T4 thioredoxin has Val instead of Pro. This entry represents Glutaredoxin.; GO: 0009055 electron carrier activity, 0015035 protein disulfide oxidoreductase activity, 0045454 cell redox homeostasis; PDB: 1QFN_A 1GRX_A 1EGO_A 1EGR_A 3RHC_A 3RHB_A 3IPZ_A 1NHO_A 3GX8_A 3D5J_A ....
Probab=26.99 E-value=1.3e+02 Score=21.50 Aligned_cols=28 Identities=7% Similarity=0.001 Sum_probs=18.5
Q ss_pred CCchhHHHHHHHhHcCCCCeeEEEEeCCCC
Q 018608 12 FSSKLKASIFLNWVLFIFGVYTTKIDLRQH 41 (353)
Q Consensus 12 msC~~CA~kVkKaLskIeGVesVeVDLe~q 41 (353)
..|..|. ++++.|.+. ||.=..+|+...
T Consensus 7 ~~C~~C~-~~~~~L~~~-~i~y~~~dv~~~ 34 (60)
T PF00462_consen 7 PGCPYCK-KAKEFLDEK-GIPYEEVDVDED 34 (60)
T ss_dssp TTSHHHH-HHHHHHHHT-TBEEEEEEGGGS
T ss_pred CCCcCHH-HHHHHHHHc-CCeeeEcccccc
Confidence 4688887 556777665 677555665553
No 65
>PRK03987 translation initiation factor IF-2 subunit alpha; Validated
Probab=26.90 E-value=2.6e+02 Score=27.30 Aligned_cols=55 Identities=13% Similarity=-0.172 Sum_probs=31.8
Q ss_pred EEEeeecCCchhHHHHHHHhHcCCCC---ee--EEEEe--CCCCEEEEEecCCHHHHHHHHHH
Q 018608 5 LSLVLYSFSSKLKASIFLNWVLFIFG---VY--TTKID--LRQHKVVVKGDVAAETLIGKLEK 60 (353)
Q Consensus 5 l~V~L~CmsC~~CA~kVkKaLskIeG---Ve--sVeVD--Le~qkVTVtG~VDp~~LlkaIkK 60 (353)
--|.|.|..+++ +.+|+++|.+... .+ .|+|. -.-.-++.+-..|..+.+++|++
T Consensus 178 ~~ie~~~~~~dG-i~~Ik~aL~~~~~~~~~~~~~v~i~~ig~P~Y~i~~~~~d~k~~~~~l~~ 239 (262)
T PRK03987 178 GYVDLTSPEPDG-VEIIKKALKAAEKANKYEDVEVEIYYVGAPRYRIDVTAPDYKTAEKALKK 239 (262)
T ss_pred EEEEEEeCCCCh-HHHHHHHHHHHHhhcCCCCCcEEEEEECCCeEEEEEEeCCHHHHHHHHHH
Confidence 457899999987 8899999966533 11 12222 22222233335666665555543
No 66
>TIGR00489 aEF-1_beta translation elongation factor aEF-1 beta. This model describes the archaeal translation elongation factor aEF-1 beta. The member from Sulfolobus solfataricus was demonstrated experimentally. It is a dimer that catalyzes the exchange of GDP for GTP on aEF-1 alpha.
Probab=25.75 E-value=1.2e+02 Score=25.30 Aligned_cols=20 Identities=15% Similarity=0.006 Sum_probs=18.3
Q ss_pred HHHHHHhHcCCCCeeEEEEe
Q 018608 18 ASIFLNWVLFIFGVYTTKID 37 (353)
Q Consensus 18 A~kVkKaLskIeGVesVeVD 37 (353)
.+.|..+|++++||++|+|.
T Consensus 64 td~lee~i~~ve~V~svev~ 83 (88)
T TIGR00489 64 TEAAEESLSGIEGVESVEVT 83 (88)
T ss_pred hHHHHHHHhcCCCccEEEEE
Confidence 58999999999999999974
No 67
>COG1432 Uncharacterized conserved protein [Function unknown]
Probab=25.59 E-value=44 Score=30.48 Aligned_cols=44 Identities=16% Similarity=0.069 Sum_probs=35.2
Q ss_pred CCeeEEEEeCCCCEEEEEecCCHHHHHHHHHHcCCceEECCCCC
Q 018608 29 FGVYTTKIDLRQHKVVVKGDVAAETLIGKLEKNGKHAELWPESK 72 (353)
Q Consensus 29 eGVesVeVDLe~qkVTVtG~VDp~~LlkaIkKtGK~AeL~~~~p 72 (353)
+..+-+..+.-+.-|.|+|+-|-.-|+++++..|+++++++..+
T Consensus 101 D~~~l~~~~~~D~ivl~SgD~DF~p~v~~~~~~G~rv~v~~~~~ 144 (181)
T COG1432 101 DAMELADKKNVDTIVLFSGDGDFIPLVEAARDKGKRVEVAGIEP 144 (181)
T ss_pred HHHHhhcccCCCEEEEEcCCccHHHHHHHHHHcCCEEEEEecCC
Confidence 33334444566667888999999999999999999999999876
No 68
>PF14437 MafB19-deam: MafB19-like deaminase
Probab=25.58 E-value=1.3e+02 Score=27.37 Aligned_cols=35 Identities=11% Similarity=-0.092 Sum_probs=28.0
Q ss_pred cCCchhHHHHHHHhHcCCCCeeEEEEeCC-CCEEEEE
Q 018608 11 SFSSKLKASIFLNWVLFIFGVYTTKIDLR-QHKVVVK 46 (353)
Q Consensus 11 CmsC~~CA~kVkKaLskIeGVesVeVDLe-~qkVTVt 46 (353)
-..|..|-..|.....++ |+.+++|-.. ++++.+.
T Consensus 108 r~vC~~C~~~i~~~a~~l-Gl~~L~I~~~~sG~~~~~ 143 (146)
T PF14437_consen 108 RDVCGYCGGDIPSMAEKL-GLKSLTIHEPDSGKVYYW 143 (146)
T ss_pred cccchHHHHHHHHHHHHc-CCCeEEEEecCCCcEEEe
Confidence 557888899998888887 8999998777 7766553
No 69
>cd08593 PI-PLCc_delta Catalytic domain of metazoan phosphoinositide-specific phospholipase C-delta. This subfamily corresponds to the catalytic domain present in metazoan phosphoinositide-specific phospholipase C (PI-PLC, EC 3.1.4.11)-delta isozymes. PI-PLC is a signaling enzyme that hydrolyzes the membrane phospholipids phosphatidylinositol-4,5-bisphosphate (PIP2) to generate two important second messengers in eukaryotic signal transduction cascades, Inositol 1,4,5-trisphosphate (InsP3) and diacylglycerol (DAG). InsP3 triggers inflow of calcium from intracellular stores, while DAG, together with calcium, activates protein kinase C, which then phosphorylates other molecules, leading to altered cellular activity. Calcium is required for the catalysis. PLC-delta represents a class of mammalian PI-PLC that has an N-terminal pleckstrin homology (PH) domain, an array of EF hands, a PLC catalytic core domain, and a C-terminal C2 domain. This CD corresponds to the catalytic domain which is
Probab=25.52 E-value=1.1e+02 Score=30.11 Aligned_cols=46 Identities=7% Similarity=0.161 Sum_probs=37.2
Q ss_pred HHHHHHhHcCCCCeeEEEEeCCCCE----EEE-----EecCCHHHHHHHHHHcCCce
Q 018608 18 ASIFLNWVLFIFGVYTTKIDLRQHK----VVV-----KGDVAAETLIGKLEKNGKHA 65 (353)
Q Consensus 18 A~kVkKaLskIeGVesVeVDLe~qk----VTV-----tG~VDp~~LlkaIkKtGK~A 65 (353)
+..++++|. .|+..||+|..++. |+- +..+.-.+++++|++..|.+
T Consensus 32 ~~~y~~aL~--~GcRcvElD~wdg~~~eP~v~HG~t~t~~i~f~~v~~~I~~~aF~~ 86 (257)
T cd08593 32 TEAYIRALK--KGCRCVELDCWDGPDGEPIIYHGHTLTSKILFKDVIQAIREYAFKV 86 (257)
T ss_pred HHHHHHHHH--hCCcEEEEEeecCCCCCcEEeeCCccccCcCHHHHHHHHHHHhccC
Confidence 678899997 69999999998874 322 44589999999999888774
No 70
>TIGR00288 conserved hypothetical protein TIGR00288. This family of orthologs is restricted to but universal among the completed archaeal genomes so far. Eubacterial proteins showing at least local homology include slr1870 from Synechocystis PCC6803 and two proteins from Aquifex aeolicusr, none of which is characterized.
Probab=25.39 E-value=90 Score=28.63 Aligned_cols=33 Identities=21% Similarity=0.232 Sum_probs=28.3
Q ss_pred CCEEEEEecCCHHHHHHHHHHcCCceEECCCCC
Q 018608 40 QHKVVVKGDVAAETLIGKLEKNGKHAELWPESK 72 (353)
Q Consensus 40 ~qkVTVtG~VDp~~LlkaIkKtGK~AeL~~~~p 72 (353)
+.-|.|+|+-|-.-|+.+|+..|+.|.+++..+
T Consensus 107 D~~vLvSgD~DF~~Lv~~lre~G~~V~v~g~~~ 139 (160)
T TIGR00288 107 DAVALVTRDADFLPVINKAKENGKETIVIGAEP 139 (160)
T ss_pred CEEEEEeccHhHHHHHHHHHHCCCEEEEEeCCC
Confidence 345678999999999999999999999999643
No 71
>cd08632 PI-PLCc_eta1 Catalytic domain of metazoan phosphoinositide-specific phospholipase C-eta1. This subfamily corresponds to the catalytic domain present in metazoan phosphoinositide-specific phospholipase C (PI-PLC, EC 3.1.4.11)-eta isozyme 1. PI-PLC is a signaling enzyme that hydrolyzes the membrane phospholipids phosphatidylinositol-4,5-bisphosphate (PIP2) to generate two important second messengers in eukaryotic signal transduction cascades, Inositol 1,4,5-trisphosphate (InsP3) and diacylglycerol (DAG). InsP3 triggers inflow of calcium from intracellular stores, while DAG, together with calcium, activates protein kinase C, which then phosphorylates other molecules, leading to altered cellular activity. Calcium is required for the catalysis. PI-PLC-eta represents a class of neuron-speific PI-PLC that has an N-terminal pleckstrin homology (PH) domain, an array of EF hands, a PLC catalytic core domain, a C2 domain, and a unique C-terminal tail that terminates with a PDZ-binding m
Probab=25.24 E-value=67 Score=31.63 Aligned_cols=46 Identities=13% Similarity=0.182 Sum_probs=36.7
Q ss_pred HHHHHHhHcCCCCeeEEEEeCCCCE---EEE------EecCCHHHHHHHHHHcCCce
Q 018608 18 ASIFLNWVLFIFGVYTTKIDLRQHK---VVV------KGDVAAETLIGKLEKNGKHA 65 (353)
Q Consensus 18 A~kVkKaLskIeGVesVeVDLe~qk---VTV------tG~VDp~~LlkaIkKtGK~A 65 (353)
+..+.++|. .|+.-||+|..++. .+| +..|.-.+++++|++..|.+
T Consensus 32 ~e~y~~aL~--~GcRcvElD~Wdg~~~eP~V~HG~Tlts~i~f~dv~~aI~~~AF~~ 86 (253)
T cd08632 32 VDMYARVLQ--AGCRCVEVDCWDGPDGEPVVHHGYTLTSKITFRDVIETINKYAFVK 86 (253)
T ss_pred HHHHHHHHH--cCCcEEEEEeecCCCCCcEEeeCCCCccCcCHHHHHHHHHHHhccC
Confidence 678889884 59999999998864 333 55789999999998887775
No 72
>smart00749 BON bacterial OsmY and nodulation domain.
Probab=25.18 E-value=1.6e+02 Score=20.40 Aligned_cols=40 Identities=10% Similarity=-0.129 Sum_probs=28.0
Q ss_pred HHHHHhHcCCCCeeE--EEEeCCCCEEEEEecCCHHHHHHHH
Q 018608 19 SIFLNWVLFIFGVYT--TKIDLRQHKVVVKGDVAAETLIGKL 58 (353)
Q Consensus 19 ~kVkKaLskIeGVes--VeVDLe~qkVTVtG~VDp~~LlkaI 58 (353)
.+|+.+|...+.+.. +.+....+.|++.|.+.+...+++.
T Consensus 2 ~~v~~~l~~~~~~~~~~~~v~~~~~~vvL~g~~~~~~~~~~~ 43 (62)
T smart00749 2 EKVKKALAKDGLIKADSIVVVTDGGVVVLLGGVVDNAEAAAA 43 (62)
T ss_pred hhHHHHHhhCCCCCcCceEEEEECCEEEEeeecCCHHHHHHH
Confidence 467788877666664 7888888999988876555544443
No 73
>PF14492 EFG_II: Elongation Factor G, domain II; PDB: 1WDT_A 2DY1_A 2XEX_A 1ELO_A 2XSY_Y 2WRK_Y 1DAR_A 2WRI_Y 2XUY_Y 3J0E_H ....
Probab=23.97 E-value=1.6e+02 Score=23.04 Aligned_cols=48 Identities=15% Similarity=0.216 Sum_probs=33.4
Q ss_pred HHHHHhHcCC---CCeeEEEEeCCCCEEEEEe--cCCHHHHHHHHH-HcCCceE
Q 018608 19 SIFLNWVLFI---FGVYTTKIDLRQHKVVVKG--DVAAETLIGKLE-KNGKHAE 66 (353)
Q Consensus 19 ~kVkKaLskI---eGVesVeVDLe~qkVTVtG--~VDp~~LlkaIk-KtGK~Ae 66 (353)
.++.++|.+| +=--.+..|.+++.++|.| .+-.+.|+++|+ +.|-.++
T Consensus 19 ~kl~~aL~~l~~eDP~l~~~~d~et~e~~l~g~Gelhlev~~~~L~~~~~v~v~ 72 (75)
T PF14492_consen 19 PKLSEALQKLSEEDPSLRVERDEETGELILSGMGELHLEVLLERLKRRFGVEVE 72 (75)
T ss_dssp HHHHHHHHHHHHH-TTSEEEEETTTSEEEEEESSHHHHHHHHHHHHHTTCEBEE
T ss_pred HHHHHHHHHHHhcCCeEEEEEcchhceEEEEECCHHHHHHHHHHHHHHHCCeeE
Confidence 4455555544 3233889999999999975 789999999995 4455554
No 74
>cd08596 PI-PLCc_epsilon Catalytic domain of metazoan phosphoinositide-specific phospholipase C-epsilon. This family corresponds to the catalytic domain present in metazoan phosphoinositide-specific phospholipase C (PI-PLC, EC 3.1.4.11)-epsilon isozymes. PI-PLC is a signaling enzyme that hydrolyzes the membrane phospholipids phosphatidylinositol-4,5-bisphosphate (PIP2) to generate two important second messengers in eukaryotic signal transduction cascades, inositol 1,4,5-trisphosphate (InsP3) and diacylglycerol (DAG). InsP3 triggers inflow of calcium from intracellular stores, while DAG, together with calcium, activates protein kinase C, which then phosphorylates other molecules, leading to altered cellular activity. Calcium is required for the catalysis. PI-PLC-epsilon represents a class of mammalian PI-PLC that has an N-terminal CDC25 homology domain with a guanyl-nucleotide exchange factor (GFF) activity, a pleckstrin homology (PH) domain, an array of EF hands, a PLC catalytic core
Probab=23.91 E-value=74 Score=31.28 Aligned_cols=46 Identities=7% Similarity=0.223 Sum_probs=37.1
Q ss_pred HHHHHHhHcCCCCeeEEEEeCCCCE---EEE------EecCCHHHHHHHHHHcCCce
Q 018608 18 ASIFLNWVLFIFGVYTTKIDLRQHK---VVV------KGDVAAETLIGKLEKNGKHA 65 (353)
Q Consensus 18 A~kVkKaLskIeGVesVeVDLe~qk---VTV------tG~VDp~~LlkaIkKtGK~A 65 (353)
+...+++|. .|+..||+|..++. -+| +..|.-.+++++|++..|.+
T Consensus 32 ~~~y~~aL~--~GcRcvElD~wdG~~~eP~V~HG~tlts~i~f~dv~~~I~~~AF~~ 86 (254)
T cd08596 32 VELYSQVLL--TGCRCVELDCWDGDDGMPIIYHGHTLTTKIPFKDVVEAINRSAFIT 86 (254)
T ss_pred HHHHHHHHH--cCCcEEEEEeecCCCCCcEEeeCCCcccCcCHHHHHHHHHHHhccC
Confidence 578889885 69999999998874 333 56789999999999887775
No 75
>cd08626 PI-PLCc_beta4 Catalytic domain of metazoan phosphoinositide-specific phospholipase C-beta4. This subfamily corresponds to the catalytic domain present in metazoan phosphoinositide-specific phospholipase C (PI-PLC, EC 3.1.4.11)-beta isozyme 4. PI-PLC is a signaling enzyme that hydrolyzes the membrane phospholipids phosphatidylinositol-4,5-bisphosphate (PIP2) to generate two important second messengers in eukaryotic signal transduction cascades, Inositol 1,4,5-trisphosphate (InsP3) and diacylglycerol (DAG). InsP3 triggers inflow of calcium from intracellular stores, while DAG, together with calcium, activates protein kinase C, which goes on to phosphorylate other molecules, leading to altered cellular activity. Calcium is required for the catalysis. PLC-beta represents a class of mammalian PI-PLC that has an N-terminal pleckstrin homology (PH) domain, an array of EF hands, a PLC catalytic core domain, a C2 domain, and a unique C-terminal coiled-coil (CT) domain necessary for ho
Probab=23.80 E-value=1.1e+02 Score=30.08 Aligned_cols=46 Identities=13% Similarity=0.223 Sum_probs=37.2
Q ss_pred HHHHHHhHcCCCCeeEEEEeCCCCE-----EEE------EecCCHHHHHHHHHHcCCce
Q 018608 18 ASIFLNWVLFIFGVYTTKIDLRQHK-----VVV------KGDVAAETLIGKLEKNGKHA 65 (353)
Q Consensus 18 A~kVkKaLskIeGVesVeVDLe~qk-----VTV------tG~VDp~~LlkaIkKtGK~A 65 (353)
+..+.++|. .|+..||+|..++. -+| +..|.-..++++|++..|.+
T Consensus 32 ~~~y~~aL~--~GcRcvElD~wdg~~~~~eP~V~HG~tlts~i~f~dv~~aI~~~AF~~ 88 (257)
T cd08626 32 VEMYRQVLL--AGCRCIELDCWDGKGEDQEPIITHGKAMCTDILFKDVIQAIKDTAFVT 88 (257)
T ss_pred HHHHHHHHH--cCCcEEEEEecCCCCCCCCCEEeeCCCCccCcCHHHHHHHHHHHhccc
Confidence 678899995 69999999999874 333 45789999999998877764
No 76
>PF09158 MotCF: Bacteriophage T4 MotA, C-terminal; InterPro: IPR015241 Transcription factor MotA is required for the activation of middle promoters in Bacteriophage T4, in addition to phage T4 co-activator AsiA, and sigma-70-containing Escherichia coli RNA polymerase. Phage T4 middle promoters have the sigma70 -10 DNA element, but not the -35 element; instead, they have a MotA box at -30 to which the transcription factor MotA binds []. MotA and AsiA interact with the C-terminal of sigma70 (region 4), which normally binds the -35 element and the beta-flap, thereby diverting sigma70 away from host promoters that require -35 element-binding to phage T4 middle promoters. Transcription factor MotA has two domains: an N-terminal domain required for binding to sigma70, and a C-terminal domain required for binding to the -30 MotA box element in the phage T4 middle promoter. This entry represents the C-terminal domain of MotA factors, which adopts a compact alpha/beta structure comprising three alpha-helices and six beta-strands in the order: alpha1-beta1-beta2-beta3-beta4-alpha2-beta5-beta6-alpha3. In this architecture, the domain's hydrophobic core is at the sheet-helix interface, and the second surface of the beta-sheet is completely exposed. It contains a DNA-binding motif, with a consensus sequence containing nine base pairs (5'-TTTGCTTTA-3'), that appears to bind to various mot boxes, allowing access to the minor groove towards the 5'-end of this sequence and the major groove towards the 3'-end [].; PDB: 1KAF_B.
Probab=23.79 E-value=1.8e+02 Score=25.25 Aligned_cols=40 Identities=18% Similarity=0.171 Sum_probs=32.5
Q ss_pred CCCCeeEEEEeCCCCEEEEEecCCHHHHHHHHHHcCCceEE
Q 018608 27 FIFGVYTTKIDLRQHKVVVKGDVAAETLIGKLEKNGKHAEL 67 (353)
Q Consensus 27 kIeGVesVeVDLe~qkVTVtG~VDp~~LlkaIkKtGK~AeL 67 (353)
++.|+..++| +.++.+.|-|.--.+.+++++...|..+..
T Consensus 39 Rt~GirqfEi-~n~G~~RI~gYk~se~~~~~f~slG~~~K~ 78 (103)
T PF09158_consen 39 RTKGIRQFEI-RNKGEFRIFGYKMSEEIIKKFTSLGMEVKQ 78 (103)
T ss_dssp EETTEEEEEE-ETTSEEEEEEES--HHHHHHHHHTT-EEEE
T ss_pred ccCceeEEEE-ecCCcEEEEEEcCCHHHHHHHHhcCcEEEE
Confidence 3478999998 778899999999999999999999988876
No 77
>TIGR00915 2A0602 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family. This family is one of several subfamilies within the scope of pfam model pfam00873.
Probab=23.17 E-value=1.2e+02 Score=34.77 Aligned_cols=44 Identities=14% Similarity=0.073 Sum_probs=34.7
Q ss_pred HHHHHHhHcCCCCeeEEEEeCCCCEEEEEe--------cCCHHHHHHHHHHc
Q 018608 18 ASIFLNWVLFIFGVYTTKIDLRQHKVVVKG--------DVAAETLIGKLEKN 61 (353)
Q Consensus 18 A~kVkKaLskIeGVesVeVDLe~qkVTVtG--------~VDp~~LlkaIkKt 61 (353)
+..|+..|++++||.+|++.-.+..+.|.= .++..+|..+|+..
T Consensus 159 ~~~l~~~L~~v~GV~~V~~~G~~~ei~V~vD~~kl~~~gls~~dV~~~i~~~ 210 (1044)
T TIGR00915 159 ASNMVDPISRLEGVGDVQLFGSQYAMRIWLDPAKLNSYQLTPADVISAIQAQ 210 (1044)
T ss_pred HHHHHHHHhCCCCceEEEecCCceEEEEEECHHHHHHcCCCHHHHHHHHHHh
Confidence 357999999999999999988866677751 36777888888653
No 78
>cd04098 eEF2_C_snRNP eEF2_C_snRNP: This family includes a C-terminal portion of the spliceosomal human 116kD U5 small nuclear ribonucleoprotein (snRNP) protein (U5-116 kD) and, its yeast counterpart Snu114p. This domain is homologous to the C-terminal domain of the eukaryotic translational elongation factor EF-2. Yeast Snu114p is essential for cell viability and for splicing in vivo. U5-116 kD binds GTP. Experiments suggest that GTP binding and probably GTP hydrolysis is important for the function of the U5-116 kD/Snu114p. In complex with GTP, EF-2 promotes the translocation step of translation. During translocation the peptidyl-tRNA is moved from the A site to the P site, the uncharged tRNA from the P site to the E-site and, the mRNA is shifted one codon relative to the ribosome.
Probab=23.13 E-value=3.3e+02 Score=21.28 Aligned_cols=50 Identities=12% Similarity=-0.077 Sum_probs=34.3
Q ss_pred EEEEeeecCCchhHHHHHHHhHcCCCC-eeEEEEeCCCCE--EEEEecCCHHHHHHH
Q 018608 4 TLSLVLYSFSSKLKASIFLNWVLFIFG-VYTTKIDLRQHK--VVVKGDVAAETLIGK 57 (353)
Q Consensus 4 vl~V~L~CmsC~~CA~kVkKaLskIeG-VesVeVDLe~qk--VTVtG~VDp~~Llka 57 (353)
+++|.++|-. .|...|...|++..| |.+.+ ...+. .+|.+.++..++...
T Consensus 3 i~~~ei~~p~--~~~g~v~~~L~~rrg~i~~~~--~~~~~~~~~i~a~vP~~e~~~~ 55 (80)
T cd04098 3 IYEVEITCPA--DAVSAVYEVLSRRRGHVIYDT--PIPGTPLYEVKAFIPVIESFGF 55 (80)
T ss_pred EEEEEEEECH--HHHhHHHHHHhhCCcEEeeee--ccCCCCcEEEEEECCHHHHhCh
Confidence 4666777664 457788888998888 43333 43334 889999988876553
No 79
>PRK09577 multidrug efflux protein; Reviewed
Probab=23.12 E-value=1.7e+02 Score=33.52 Aligned_cols=47 Identities=9% Similarity=-0.003 Sum_probs=37.0
Q ss_pred HHHHHHhHcCCCCeeEEEEeCCCCEEEEE--------ecCCHHHHHHHHHHcCCc
Q 018608 18 ASIFLNWVLFIFGVYTTKIDLRQHKVVVK--------GDVAAETLIGKLEKNGKH 64 (353)
Q Consensus 18 A~kVkKaLskIeGVesVeVDLe~qkVTVt--------G~VDp~~LlkaIkKtGK~ 64 (353)
++.|+..|++++||.+|+++-.+.+|.|. =.++..+|.++|+.....
T Consensus 158 ~~~l~~~L~~v~GV~~V~~~G~e~~v~V~vD~~kl~~~Gls~~~V~~~l~~~n~~ 212 (1032)
T PRK09577 158 SANVLQALRRVEGVGKVQFWGAEYAMRIWPDPVKLAALGLTASDIASAVRAHNAR 212 (1032)
T ss_pred HHHHHHHHhcCCCcEEEEecCCceEEEEEeCHHHHHHcCCCHHHHHHHHHHhCCc
Confidence 46799999999999999998877777774 246778888898775443
No 80
>smart00838 EFG_C Elongation factor G C-terminus. This domain includes the carboxyl terminal regions of Elongation factor G, elongation factor 2 and some tetracycline resistance proteins and adopt a ferredoxin-like fold.
Probab=22.95 E-value=2.9e+02 Score=21.59 Aligned_cols=51 Identities=12% Similarity=0.039 Sum_probs=35.2
Q ss_pred EEEEeeecCCchhHHHHHHHhHcCCCCeeEEEEeCCCCEEEEEecCCHHHHHHH
Q 018608 4 TLSLVLYSFSSKLKASIFLNWVLFIFGVYTTKIDLRQHKVVVKGDVAAETLIGK 57 (353)
Q Consensus 4 vl~V~L~CmsC~~CA~kVkKaLskIeGVesVeVDLe~qkVTVtG~VDp~~Llka 57 (353)
++.+.++|-. .+...|...|.+-.|.- ++++.....++|++.++...+...
T Consensus 5 i~~~~I~~p~--~~~g~v~~~l~~rrG~i-~~~~~~~~~~~i~~~iP~~~~~~~ 55 (85)
T smart00838 5 IMKVEVTVPE--EYMGDVIGDLNSRRGKI-EGMEQRGGAQVIKAKVPLSEMFGY 55 (85)
T ss_pred EEEEEEEeCH--HHHHHHHHHHHHcCCEE-ECeeccCCcEEEEEECCHHHHhch
Confidence 3556666654 35678888898888843 244444568999999988887553
No 81
>cd08592 PI-PLCc_gamma Catalytic domain of metazoan phosphoinositide-specific phospholipase C-gamma. This family corresponds to the catalytic domain present in metazoan phosphoinositide-specific phospholipase C (PI-PLC, EC 3.1.4.11)-gamma isozymes. PI-PLC is a signaling enzyme that hydrolyzes the membrane phospholipids phosphatidylinositol-4,5-bisphosphate (PIP2) to generate two important second messengers in eukaryotic signal transduction cascades, inositol 1,4,5-trisphosphate (InsP3) and diacylglycerol (DAG). InsP3 triggers inflow of calcium from intracellular stores, while DAG, together with calcium, activates protein kinase C, which goes on to phosphorylate other molecules, leading to altered cellular activity. Calcium is required for the catalysis. PI-PLC-gamma represents a class of mammalian PI-PLC that has an N-terminal pleckstrin homology (PH) domain, an array of EF hands, a PLC catalytic core domain, and a C2 domain.The PLC catalytic core domain is a TIM barrel with two highl
Probab=22.73 E-value=79 Score=30.62 Aligned_cols=46 Identities=4% Similarity=0.150 Sum_probs=35.4
Q ss_pred HHHHHHhHcCCCCeeEEEEeCCCCE---EEE------EecCCHHHHHHHHHHcCCce
Q 018608 18 ASIFLNWVLFIFGVYTTKIDLRQHK---VVV------KGDVAAETLIGKLEKNGKHA 65 (353)
Q Consensus 18 A~kVkKaLskIeGVesVeVDLe~qk---VTV------tG~VDp~~LlkaIkKtGK~A 65 (353)
+..++++|. .|+.-||+|+.++. .+| +..+.-.+++++|++..|.+
T Consensus 32 ~eay~~AL~--~GcR~vElDvwdg~dgePvV~HG~tlts~i~f~dv~~~I~~~aF~~ 86 (229)
T cd08592 32 LEAYARCLR--MGCRCIELDCWDGPDGMPIIYHGHTLTSKIKFMDVLKTIKEHAFVT 86 (229)
T ss_pred HHHHHHHHH--hCCCEEEEEeecCCCCCEEEEeCCcCCCCcCHHHHHHHHHHHhccC
Confidence 467888887 59999999988753 333 44588999999999887764
No 82
>COG4004 Uncharacterized protein conserved in archaea [Function unknown]
Probab=22.62 E-value=1e+02 Score=26.38 Aligned_cols=24 Identities=21% Similarity=0.196 Sum_probs=20.7
Q ss_pred hHcCCCCeeEEEEeCCCCEEEEEe
Q 018608 24 WVLFIFGVYTTKIDLRQHKVVVKG 47 (353)
Q Consensus 24 aLskIeGVesVeVDLe~qkVTVtG 47 (353)
.+..++|++.|+|.++++++.|++
T Consensus 35 ivas~pgis~ieik~E~kkL~v~t 58 (96)
T COG4004 35 IVASSPGISRIEIKPENKKLLVNT 58 (96)
T ss_pred EEEecCCceEEEEecccceEEEec
Confidence 345668999999999999999987
No 83
>cd08631 PI-PLCc_delta4 Catalytic domain of metazoan phosphoinositide-specific phospholipase C-delta4. This subfamily corresponds to the catalytic domain present in metazoan phosphoinositide-specific phospholipase C (PI-PLC, EC 3.1.4.11)-delta4 isozymes. PI-PLC is a signaling enzyme that hydrolyzes the membrane phospholipids phosphatidylinositol-4,5-bisphosphate (PIP2) to generate two important second messengers in eukaryotic signal transduction cascades, Inositol 1,4,5-trisphosphate (InsP3) and diacylglycerol (DAG). InsP3 triggers inflow of calcium from intracellular stores, while DAG, together with calcium, activates protein kinase C, which then phosphorylates other molecules, leading to altered cellular activity. Calcium is required for the catalysis. PLC-delta represents a class of mammalian PI-PLC that has an N-terminal pleckstrin homology (PH) domain, an array of EF hands, a PLC catalytic core domain, and a C-terminal C2 domain. This CD corresponds to the catalytic domain which
Probab=22.59 E-value=1.2e+02 Score=29.99 Aligned_cols=46 Identities=7% Similarity=0.156 Sum_probs=36.8
Q ss_pred HHHHHHhHcCCCCeeEEEEeCCCCE---EEE------EecCCHHHHHHHHHHcCCce
Q 018608 18 ASIFLNWVLFIFGVYTTKIDLRQHK---VVV------KGDVAAETLIGKLEKNGKHA 65 (353)
Q Consensus 18 A~kVkKaLskIeGVesVeVDLe~qk---VTV------tG~VDp~~LlkaIkKtGK~A 65 (353)
+....++|.+ |+..||+|..++. -+| +..|.-.+++++|++..|.+
T Consensus 32 ~e~y~~aL~~--GcRcvElD~wdg~~~eP~V~HG~tlts~i~f~~v~~~Ik~~AF~~ 86 (258)
T cd08631 32 VEGYIRALKR--GCRCVEVDVWDGPNGEPIVYHGHTFTSKILFKDVVAAVAQYAFQV 86 (258)
T ss_pred HHHHHHHHHc--CCcEEEEEeecCCCCCcEEeeCCcccCCcCHHHHHHHHHHHhccC
Confidence 5678898874 9999999998864 333 55688999999999888875
No 84
>PF01565 FAD_binding_4: FAD binding domain This is only a subset of the Pfam family; InterPro: IPR006094 Various enzymes use FAD as a co-factor, most of these enzymes are oxygen-dependent oxidoreductases, containing a covalently bound FAD group which is attached to a histidine via an 8-alpha-(N3-histidyl)-riboflavin linkage. One of the enzymes Vanillyl-alcohol oxidase (VAO, 1.1.3.38 from EC) has a solved structure, the alignment includes the FAD binding site, called the PP-loop, between residues 99-110 []. The FAD molecule is covalently bound in the known structure, however the residue that links to the FAD is not in the alignment. VAO catalyses the oxidation of a wide variety of substrates, ranging from aromatic amines to 4-alkylphenols. ; GO: 0008762 UDP-N-acetylmuramate dehydrogenase activity, 0016491 oxidoreductase activity, 0050660 flavin adenine dinucleotide binding, 0055114 oxidation-reduction process; PDB: 1ZR6_A 3HSU_A 2AXR_A 3D2J_A 3D2H_A 3FW9_A 3FW8_A 3FW7_A 3GSY_A 3FWA_A ....
Probab=22.38 E-value=1.2e+02 Score=25.14 Aligned_cols=33 Identities=24% Similarity=0.204 Sum_probs=28.9
Q ss_pred EEEeCCCCEEEEEecCCHHHHHHHHHHcCCceE
Q 018608 34 TKIDLRQHKVVVKGDVAAETLIGKLEKNGKHAE 66 (353)
Q Consensus 34 VeVDLe~qkVTVtG~VDp~~LlkaIkKtGK~Ae 66 (353)
+++|.+..+|+|..-+...+|.+.|++.|+..-
T Consensus 57 ~~id~~~~~v~v~aG~~~~~l~~~l~~~g~~~~ 89 (139)
T PF01565_consen 57 IEIDPENGTVTVGAGVTWGDLYEALAPRGLMLP 89 (139)
T ss_dssp EEEETTTTEEEEETTSBHHHHHHHHHHHTEEES
T ss_pred ccccccceeEEEeccccchhccccccccccccc
Confidence 778899999999999999999999988776543
No 85
>cd08594 PI-PLCc_eta Catalytic domain of metazoan phosphoinositide-specific phospholipase C-eta. This family corresponds to the catalytic domain present in metazoan phosphoinositide-specific phospholipase C (PI-PLC, EC 3.1.4.11)-eta isozymes. PI-PLC is a signaling enzyme that hydrolyzes the membrane phospholipids phosphatidylinositol-4,5-bisphosphate (PIP2) to generate two important second messengers in eukaryotic signal transduction cascades, Inositol 1,4,5-trisphosphate (InsP3) and diacylglycerol (DAG). InsP3 triggers inflow of calcium from intracellular stores, while DAG, together with calcium, activates protein kinase C, which then phosphorylates other molecules, leading to altered cellular activity. Calcium is required for the catalysis. PI-PLC-eta represents a class of neuron-speific PI-PLC that has an N-terminal pleckstrin homology (PH) domain, an array of EF hands, a PLC catalytic core domain, a C2 domain, and a unique C-terminal tail that terminates with a PDZ-binding motif,
Probab=22.38 E-value=1.1e+02 Score=29.59 Aligned_cols=46 Identities=13% Similarity=0.166 Sum_probs=36.5
Q ss_pred HHHHHHhHcCCCCeeEEEEeCCCCE---EEE------EecCCHHHHHHHHHHcCCce
Q 018608 18 ASIFLNWVLFIFGVYTTKIDLRQHK---VVV------KGDVAAETLIGKLEKNGKHA 65 (353)
Q Consensus 18 A~kVkKaLskIeGVesVeVDLe~qk---VTV------tG~VDp~~LlkaIkKtGK~A 65 (353)
+....++| +.|+..||+|..++. -+| +..+.-.+++++|++..|.+
T Consensus 32 ~e~Y~~aL--~~GcRcvElD~wdg~~~ePvV~HG~tlts~i~f~dv~~aI~~~AF~~ 86 (227)
T cd08594 32 VDMYARVL--QAGCRCVEVDCWDGPDGEPVVHHGYTLTSKILFRDVIETINKYAFIK 86 (227)
T ss_pred HHHHHHHH--HhCCcEEEEEeecCCCCCcEEeeCCCcccCcCHHHHHHHHHHhhccC
Confidence 56788888 469999999998864 233 44789999999999887775
No 86
>TIGR01676 GLDHase galactonolactone dehydrogenase. This model represents L-Galactono-gamma-lactone dehydrogenase (EC 1.3.2.3). This enzyme catalyzes the final step in ascorbic acid biosynthesis in higher plants. This protein is homologous to ascorbic acid biosynthesis enzymes of other species: L-gulono-gamma-lactone oxidase in rat and L-galactono-gamma-lactone oxidase in yeast. All three covalently bind the cofactor FAD.
Probab=22.25 E-value=1.3e+02 Score=32.56 Aligned_cols=40 Identities=15% Similarity=0.331 Sum_probs=32.6
Q ss_pred HcCCCCeeEEEEeCCCCEEEEEecCCHHHHHHHHHHcCCceE
Q 018608 25 VLFIFGVYTTKIDLRQHKVVVKGDVAAETLIGKLEKNGKHAE 66 (353)
Q Consensus 25 LskIeGVesVeVDLe~qkVTVtG~VDp~~LlkaIkKtGK~Ae 66 (353)
|..|.+| ++||.+.++|||.+-+...+|.++|.+.|....
T Consensus 110 L~~ln~V--l~vD~~~~tVtV~AG~~l~~L~~~L~~~Glal~ 149 (541)
T TIGR01676 110 LALMDKV--LEVDEEKKRVRVQAGIRVQQLVDAIKEYGITLQ 149 (541)
T ss_pred hhhCCCC--EEEcCCCCEEEEcCCCCHHHHHHHHHHcCCEec
Confidence 3444444 478899999999999999999999999997653
No 87
>cd02966 TlpA_like_family TlpA-like family; composed of TlpA, ResA, DsbE and similar proteins. TlpA, ResA and DsbE are bacterial protein disulfide reductases with important roles in cytochrome maturation. They are membrane-anchored proteins with a soluble TRX domain containing a CXXC motif located in the periplasm. The TRX domains of this family contain an insert, approximately 25 residues in length, which correspond to an extra alpha helix and a beta strand when compared with TRX. TlpA catalyzes an essential reaction in the biogenesis of cytochrome aa3, while ResA and DsbE are essential proteins in cytochrome c maturation. Also included in this family are proteins containing a TlpA-like TRX domain with domain architectures similar to E. coli DipZ protein, and the N-terminal TRX domain of PilB protein from Neisseria which acts as a disulfide reductase that can recylce methionine sulfoxide reductases.
Probab=22.11 E-value=3.4e+02 Score=20.19 Aligned_cols=19 Identities=16% Similarity=0.125 Sum_probs=13.1
Q ss_pred CHHHHHHHHHHcCCceEEC
Q 018608 50 AAETLIGKLEKNGKHAELW 68 (353)
Q Consensus 50 Dp~~LlkaIkKtGK~AeL~ 68 (353)
+.+.+.+.+++.+....++
T Consensus 64 ~~~~~~~~~~~~~~~~~~~ 82 (116)
T cd02966 64 DPAAVKAFLKKYGITFPVL 82 (116)
T ss_pred CHHHHHHHHHHcCCCcceE
Confidence 4788888887776554444
No 88
>cd08625 PI-PLCc_beta3 Catalytic domain of metazoan phosphoinositide-specific phospholipase C-beta3. This subfamily corresponds to the catalytic domain present in metazoan phosphoinositide-specific phospholipase C (PI-PLC, EC 3.1.4.11)-beta isozyme 3. PI-PLC is a signaling enzyme that hydrolyzes the membrane phospholipids phosphatidylinositol-4,5-bisphosphate (PIP2) to generate two important second messengers in eukaryotic signal transduction cascades, Inositol 1,4,5-trisphosphate (InsP3) and diacylglycerol (DAG). InsP3 triggers inflow of calcium from intracellular stores, while DAG, together with calcium, activates protein kinase C, which goes on to phosphorylate other molecules, leading to altered cellular activity. Calcium is required for the catalysis. PLC-beta represents a class of mammalian PI-PLC that has an N-terminal pleckstrin homology (PH) domain, an array of EF hands, a PLC catalytic core domain, a C2 domain, and a unique C-terminal coiled-coil (CT) domain necessary for ho
Probab=22.11 E-value=94 Score=30.53 Aligned_cols=47 Identities=9% Similarity=0.260 Sum_probs=37.1
Q ss_pred HHHHHHhHcCCCCeeEEEEeCCCCE------EE-----EEecCCHHHHHHHHHHcCCceE
Q 018608 18 ASIFLNWVLFIFGVYTTKIDLRQHK------VV-----VKGDVAAETLIGKLEKNGKHAE 66 (353)
Q Consensus 18 A~kVkKaLskIeGVesVeVDLe~qk------VT-----VtG~VDp~~LlkaIkKtGK~Ae 66 (353)
+....++|. .|+.-||+|..++. |+ .+..+.-..+|++|++..|.+.
T Consensus 32 ~e~y~~aL~--~GcRcvElD~wdg~~~~~eP~v~Hg~t~t~~i~f~dv~~~I~~~aF~~s 89 (258)
T cd08625 32 VEMYRQVLL--TGCRCIELDCWKGRPPEEEPFITHGFTMTTEIPFKDVIEAIAESAFKTS 89 (258)
T ss_pred HHHHHHHHH--cCCCEEEEEecCCCCCCCCCEEeeCCccccCcCHHHHHHHHHHHhccCC
Confidence 567888885 69999999999873 22 3567899999999998777753
No 89
>TIGR01617 arsC_related transcriptional regulator, Spx/MgsR family. This model represents a portion of the proteins within the larger set covered by Pfam model pfam03960. That larger family includes a glutaredoxin-dependent arsenate reductase (TIGR00014). Characterized members of this family include Spx and MgsR from Bacillus subtili. Spx is a global regulator for response to thiol-specific oxidative stress. It interacts with RNA polymerase. MgsR (modulator of the general stress response, also called YqgZ) provides a second level of regulation for more than a third of the proteins in the B. subtilis general stress regulon controlled by Sigma-B.
Probab=22.05 E-value=1.7e+02 Score=24.41 Aligned_cols=45 Identities=16% Similarity=0.124 Sum_probs=30.6
Q ss_pred CCchhHHHHHHHhHcCCCCeeEEEEeCCCCEEEEEecCCHHHHHHHHHHcCCc
Q 018608 12 FSSKLKASIFLNWVLFIFGVYTTKIDLRQHKVVVKGDVAAETLIGKLEKNGKH 64 (353)
Q Consensus 12 msC~~CA~kVkKaLskIeGVesVeVDLe~qkVTVtG~VDp~~LlkaIkKtGK~ 64 (353)
-+|..|.++ ++.|.. .||+-..+|+... ..+.++|.+.|.++|..
T Consensus 7 ~~C~~c~ka-~~~L~~-~~i~~~~idi~~~------~~~~~el~~l~~~~~~~ 51 (117)
T TIGR01617 7 PNCTTCKKA-RRWLEA-NGIEYQFIDIGED------GPTREELLDILSLLEDG 51 (117)
T ss_pred CCCHHHHHH-HHHHHH-cCCceEEEecCCC------hhhHHHHHHHHHHcCCC
Confidence 367777754 477766 4776666666543 35678888888988853
No 90
>COG2092 EFB1 Translation elongation factor EF-1beta [Translation, ribosomal structure and biogenesis]
Probab=21.82 E-value=1e+02 Score=25.98 Aligned_cols=21 Identities=10% Similarity=0.094 Sum_probs=18.5
Q ss_pred HHHHHHHhHcCCCCeeEEEEe
Q 018608 17 KASIFLNWVLFIFGVYTTKID 37 (353)
Q Consensus 17 CA~kVkKaLskIeGVesVeVD 37 (353)
-...|.++|+.++||++|+|.
T Consensus 63 ~td~~ee~l~~vegV~sveve 83 (88)
T COG2092 63 GTDALEEALEEVEGVESVEVE 83 (88)
T ss_pred CcHHHHHHHhhccCcceEEEE
Confidence 368999999999999999874
No 91
>PRK15127 multidrug efflux system protein AcrB; Provisional
Probab=21.79 E-value=1.4e+02 Score=34.37 Aligned_cols=44 Identities=11% Similarity=-0.006 Sum_probs=33.5
Q ss_pred HHHHHHhHcCCCCeeEEEEeCCCCEEEEE--------ecCCHHHHHHHHHHc
Q 018608 18 ASIFLNWVLFIFGVYTTKIDLRQHKVVVK--------GDVAAETLIGKLEKN 61 (353)
Q Consensus 18 A~kVkKaLskIeGVesVeVDLe~qkVTVt--------G~VDp~~LlkaIkKt 61 (353)
++.|+..|+.++||.+|++.-....+.|. =.++..+|..+|+..
T Consensus 159 ~~~l~~~L~~v~GV~~V~~~G~~~ei~V~vDp~kl~~~gls~~~V~~~l~~~ 210 (1049)
T PRK15127 159 AANMKDPISRTSGVGDVQLFGSQYAMRIWMNPNELNKFQLTPVDVINAIKAQ 210 (1049)
T ss_pred HHHHHHHHhcCCCceEEEEcCCceEEEEEeCHHHHHHcCCCHHHHHHHHHHh
Confidence 35799999999999999997665667775 136667777788654
No 92
>cd04096 eEF2_snRNP_like_C eEF2_snRNP_like_C: this family represents a C-terminal domain of eukaryotic elongation factor 2 (eEF-2) and a homologous domain of the spliceosomal human 116kD U5 small nuclear ribonucleoprotein (snRNP) protein (U5-116 kD) and, its yeast counterpart Snu114p. Yeast Snu114p is essential for cell viability and for splicing in vivo. U5-116 kD binds GTP. Experiments suggest that GTP binding and probably GTP hydrolysis is important for the function of the U5-116 kD/Snu114p. In complex with GTP, EF-2 promotes the translocation step of translation. During translocation the peptidyl-tRNA is moved from the A site to the P site, the uncharged tRNA from the P site to the E-site and, the mRNA is shifted one codon relative to the ribosome.
Probab=21.77 E-value=3.2e+02 Score=21.02 Aligned_cols=52 Identities=6% Similarity=-0.141 Sum_probs=33.9
Q ss_pred EEEEeeecCCchhHHHHHHHhHcCCCCee-EEEEeCCCCEEEEEecCCHHHHHHH
Q 018608 4 TLSLVLYSFSSKLKASIFLNWVLFIFGVY-TTKIDLRQHKVVVKGDVAAETLIGK 57 (353)
Q Consensus 4 vl~V~L~CmsC~~CA~kVkKaLskIeGVe-sVeVDLe~qkVTVtG~VDp~~Llka 57 (353)
++.|.++|-. .+...|...|.+-.|.- +.+..-...+++|++.++...++..
T Consensus 3 i~~~~I~~p~--~~~g~V~~~l~~rrg~i~~~~~~~~~~~~~i~~~iP~~e~~~~ 55 (80)
T cd04096 3 IYLVEIQCPE--DALGKVYSVLSKRRGHVLSEEPKEGTPLFEIKAYLPVIESFGF 55 (80)
T ss_pred EEEEEEEEcH--HHhhHHHHhhhhCeeEEeEEeecCCCccEEEEEEEeHHHHhCc
Confidence 3556666664 35678888898888843 3332223455899999888877543
No 93
>cd08595 PI-PLCc_zeta Catalytic domain of metazoan phosphoinositide-specific phospholipase C-zeta. This family corresponds to the catalytic domain presenting in metazoan phosphoinositide-specific phospholipase C (PI-PLC, EC 3.1.4.11)-zeta isozyme. PI-PLC is a signaling enzyme that hydrolyzes the membrane phospholipids phosphatidylinositol-4,5-bisphosphate (PIP2) to generate two important second messengers in eukaryotic signal transduction cascades, inositol 1,4,5-trisphosphate (InsP3) and diacylglycerol (DAG). InsP3 triggers inflow of calcium from intracellular stores, while DAG, together with calcium, activates protein kinase C, which then phosphorylates other molecules, leading to altered cellular activity. Calcium is required for the catalysis. PI-PLC-zeta represents a class of sperm-specific PI-PLC that has an N-terminal EF-hand domain, a PLC catalytic core domain, and a C-terminal C2 domain. The PLC catalytic core domain is a TIM barrel with two highly conserved regions (X and Y)
Probab=21.76 E-value=1.2e+02 Score=29.91 Aligned_cols=46 Identities=17% Similarity=0.148 Sum_probs=36.5
Q ss_pred HHHHHHhHcCCCCeeEEEEeCCCCE---EEE------EecCCHHHHHHHHHHcCCce
Q 018608 18 ASIFLNWVLFIFGVYTTKIDLRQHK---VVV------KGDVAAETLIGKLEKNGKHA 65 (353)
Q Consensus 18 A~kVkKaLskIeGVesVeVDLe~qk---VTV------tG~VDp~~LlkaIkKtGK~A 65 (353)
+..+.++|. .|+.-||+|..++. .+| +..|.-.++|++|++..|.+
T Consensus 32 ~e~y~~aL~--~GcRcvElD~wdg~~~ep~v~HG~tlt~~i~f~~v~~~I~~~AF~~ 86 (257)
T cd08595 32 LDGYVSALR--KGCRCLEIDCWDGADNEPVVYHGYTLTSKILFKEVITTVEKYAFEK 86 (257)
T ss_pred HHHHHHHHH--hCCcEEEEEeecCCCCCcEEecCCCcccccCHHHHHHHHHHHhccC
Confidence 467888887 69999999999863 333 44589999999999877775
No 94
>TIGR02174 CXXU_selWTH selT/selW/selH selenoprotein domain. This model represents a domain found in both bacteria and animals, including animal proteins SelT, SelW, and SelH, all of which are selenoproteins. In a CXXC motif near the N-terminus of the domain, selenocysteine may replace the second Cys. Proteins with this domain may include an insert of about 70 amino acids. This model is broader than the current SelW model pfam05169 in Pfam.
Probab=21.76 E-value=3.9e+02 Score=20.79 Aligned_cols=9 Identities=22% Similarity=0.054 Sum_probs=7.2
Q ss_pred EeeecCCch
Q 018608 7 LVLYSFSSK 15 (353)
Q Consensus 7 V~L~CmsC~ 15 (353)
.+.+|-.|+
T Consensus 2 ~IeyC~~C~ 10 (72)
T TIGR02174 2 EIEYCGSCG 10 (72)
T ss_pred EEEECCCCC
Confidence 356899998
No 95
>cd08624 PI-PLCc_beta2 Catalytic domain of metazoan phosphoinositide-specific phospholipase C-beta2. This subfamily corresponds to the catalytic domain present in metazoan phosphoinositide-specific phospholipase C (PI-PLC, EC 3.1.4.11)-beta isozyme 2. PI-PLC is a signaling enzyme that hydrolyzes the membrane phospholipids phosphatidylinositol-4,5-bisphosphate (PIP2) to generate two important second messengers in eukaryotic signal transduction cascades, Inositol 1,4,5-trisphosphate (InsP3) and diacylglycerol (DAG). InsP3 triggers inflow of calcium from intracellular stores, while DAG, together with calcium, activates protein kinase C, which goes on to phosphorylate other molecules, leading to altered cellular activity. Calcium is required for the catalysis. PLC-beta represents a class of mammalian PI-PLC that has an N-terminal pleckstrin homology (PH) domain, an array of EF hands, a PLC catalytic core domain, a C2 domain, and a unique C-terminal coiled-coil (CT) domain necessary for ho
Probab=21.75 E-value=95 Score=30.67 Aligned_cols=46 Identities=11% Similarity=0.236 Sum_probs=36.4
Q ss_pred HHHHHHhHcCCCCeeEEEEeCCCCE------E-----EEEecCCHHHHHHHHHHcCCce
Q 018608 18 ASIFLNWVLFIFGVYTTKIDLRQHK------V-----VVKGDVAAETLIGKLEKNGKHA 65 (353)
Q Consensus 18 A~kVkKaLskIeGVesVeVDLe~qk------V-----TVtG~VDp~~LlkaIkKtGK~A 65 (353)
+....++|. .|+..||+|..++. | |.+..|.-.+++++|++..|.+
T Consensus 32 ~e~y~~aL~--~GcRcvElD~wdg~~~~~ePvV~HG~tlts~i~f~dv~~~I~~~AF~~ 88 (261)
T cd08624 32 PEMYRQVLL--SGCRCVELDCWKGKPPDEEPIITHGFTMTTEILFKDAIEAIAESAFKT 88 (261)
T ss_pred HHHHHHHHH--cCCcEEEEEecCCCCCCCCCEEeeCCCcccCcCHHHHHHHHHHHhccC
Confidence 567788886 59999999999873 3 2356789999999998877764
No 96
>PF04459 DUF512: Protein of unknown function (DUF512); InterPro: IPR007549 This is a domain of uncharacterised prokaryotic proteins. It is often found C-terminal to the radical SAM domain (IPR007197 from INTERPRO).
Probab=21.54 E-value=2.1e+02 Score=27.02 Aligned_cols=50 Identities=18% Similarity=0.200 Sum_probs=33.6
Q ss_pred HHHhHcCCCCee----EEEEeCCCCEEEEEecCCHHHHHHHHHH-cCCceEECCC
Q 018608 21 FLNWVLFIFGVY----TTKIDLRQHKVVVKGDVAAETLIGKLEK-NGKHAELWPE 70 (353)
Q Consensus 21 VkKaLskIeGVe----sVeVDLe~qkVTVtG~VDp~~LlkaIkK-tGK~AeL~~~ 70 (353)
+-+.|.+++|.. .|.=+.--+.|||+|=+....|+++|+. .-.+..|+|.
T Consensus 115 ~~~~l~~~~~~~v~V~~V~N~fFG~~ItVaGLLTg~Dii~~L~~~~~~d~lllP~ 169 (204)
T PF04459_consen 115 LVEKLNRIPGLEVEVVPVKNRFFGGTITVAGLLTGQDIIEQLKGKELGDLLLLPD 169 (204)
T ss_pred HHHHHhccCCCeEEEEEeecCCCCCCeEEeeCccHHHHHHHhCcCCCCCEEEECH
Confidence 333445556642 3333666789999999999999999954 2226666665
No 97
>PRK07334 threonine dehydratase; Provisional
Probab=21.26 E-value=2.9e+02 Score=28.00 Aligned_cols=51 Identities=10% Similarity=-0.005 Sum_probs=33.9
Q ss_pred HHHHHHhHcCCCC-eeEEEEeCC-----CCEEEEE------ecCCHHHHHHHHHHcCCceEEC
Q 018608 18 ASIFLNWVLFIFG-VYTTKIDLR-----QHKVVVK------GDVAAETLIGKLEKNGKHAELW 68 (353)
Q Consensus 18 A~kVkKaLskIeG-VesVeVDLe-----~qkVTVt------G~VDp~~LlkaIkKtGK~AeL~ 68 (353)
...|.+.|+..+. |.+|.+... .+.+++. ..-....|+++|++.|+.++|+
T Consensus 340 L~dI~~~is~~~~nI~~v~~~~~~~~~~~~~~~i~l~i~V~d~~~L~~vi~~Lr~~g~~~~~~ 402 (403)
T PRK07334 340 LARVTALIGEAGANIIEVSHQRLFTDLPAKGAELELVIETRDAAHLQEVIAALRAAGFEARLV 402 (403)
T ss_pred HHHHHHHHhhCCCceEEEEEEecccCCCCCeEEEEEEEEeCCHHHHHHHHHHHHHcCCeeEeC
Confidence 4677788876632 666766532 4554432 2224458999999999999986
No 98
>cd08598 PI-PLC1c_yeast Catalytic domain of putative yeast phosphatidylinositide-specific phospholipases C. This family corresponds to the catalytic domain present in a group of putative phosphoinositide-specific phospholipase C (PI-PLC, EC 3.1.4.11) encoded by PLC1 genes from yeasts, which are homologs of the delta isoforms of mammalian PI-PLC in terms of overall sequence similarity and domain organization. Mammalian PI-PLC is a signaling enzyme that hydrolyzes the membrane phospholipids phosphatidylinositol-4,5-bisphosphate (PIP2) to generate two important second messengers in eukaryotic signal transduction cascades, inositol 1,4,5-trisphosphate (InsP3) and diacylglycerol (DAG). InsP3 triggers inflow of calcium from intracellular stores, while DAG, together with calcium, activates protein kinase C, which then phosphorylates other molecules, leading to altered cellular activity. Calcium is required for the catalysis. The prototype of this CD is protein Plc1p encoded by PLC1 genes fro
Probab=21.10 E-value=87 Score=30.34 Aligned_cols=46 Identities=15% Similarity=0.151 Sum_probs=37.0
Q ss_pred HHHHHHhHcCCCCeeEEEEeCCCCE---EEE------EecCCHHHHHHHHHHcCCce
Q 018608 18 ASIFLNWVLFIFGVYTTKIDLRQHK---VVV------KGDVAAETLIGKLEKNGKHA 65 (353)
Q Consensus 18 A~kVkKaLskIeGVesVeVDLe~qk---VTV------tG~VDp~~LlkaIkKtGK~A 65 (353)
+...+++|.. |+.-||+|..++. -+| ++.+.-.++|++|++..|.+
T Consensus 32 ~~~y~~aL~~--GcRcvElD~wdg~~~ep~V~HG~t~ts~i~f~dv~~~Ik~~aF~~ 86 (231)
T cd08598 32 VEGYIRALQR--GCRCVEIDVWDGDDGEPVVTHGYTLTSSVPFRDVCRAIKKYAFVT 86 (231)
T ss_pred HHHHHHHHHh--CCcEEEEEeecCCCCCcEEeeCCCCcCceEHHHHHHHHHHHhccC
Confidence 6788899854 9999999998865 333 45788999999999887775
No 99
>COG4770 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]
Probab=20.90 E-value=1e+02 Score=33.91 Aligned_cols=59 Identities=15% Similarity=0.227 Sum_probs=42.3
Q ss_pred CeEEEEEeeecC-CchhHHHHHHHhHcCCCCeeEEEE--eCCCCEEEE---------------EecCCHHHHHHHHHHcC
Q 018608 1 MFYTLSLVLYSF-SSKLKASIFLNWVLFIFGVYTTKI--DLRQHKVVV---------------KGDVAAETLIGKLEKNG 62 (353)
Q Consensus 1 ~~~vl~V~L~Cm-sC~~CA~kVkKaLskIeGVesVeV--DLe~qkVTV---------------tG~VDp~~LlkaIkKtG 62 (353)
||.-+.|--.+. .| +|-|...+| ||.+|-| |...+-.-| .+.++.++||++++++|
T Consensus 1 mf~KiLIANRGEIAc-----RVIRtar~l-Gi~tVAVYSdaDa~A~hV~~ADEAv~iGpapaaeSYL~~dkIi~Aa~~tG 74 (645)
T COG4770 1 MFSKILIANRGEIAC-----RVIRTARDL-GIRTVAVYSDADADALHVRMADEAVHIGPAPAAESYLDIDKIIDAARRTG 74 (645)
T ss_pred CcceEEEeccchhhH-----HHHHHHHHc-CCceEEEEecCCCCchhhhhcchhhhcCCCchhhhhccHHHHHHHHHHhC
Confidence 677777766665 45 556677777 8988877 333333333 35799999999999999
Q ss_pred Cce
Q 018608 63 KHA 65 (353)
Q Consensus 63 K~A 65 (353)
-.|
T Consensus 75 A~A 77 (645)
T COG4770 75 AQA 77 (645)
T ss_pred ccc
Confidence 886
No 100
>cd08633 PI-PLCc_eta2 Catalytic domain of metazoan phosphoinositide-specific phospholipase C-eta2. This subfamily corresponds to the catalytic domain present in metazoan phosphoinositide-specific phospholipase C (PI-PLC, EC 3.1.4.11)-eta isozyme 2. PI-PLC is a signaling enzyme that hydrolyzes the membrane phospholipids phosphatidylinositol-4,5-bisphosphate (PIP2) to generate two important second messengers in eukaryotic signal transduction cascades, Inositol 1,4,5-trisphosphate (InsP3) and diacylglycerol (DAG). InsP3 triggers inflow of calcium from intracellular stores, while DAG, together with calcium, activates protein kinase C, which then phosphorylates other molecules, leading to altered cellular activity. Calcium is required for the catalysis. PI-PLC-eta represents a class of neuron-speific PI-PLC that has an N-terminal pleckstrin homology (PH) domain, an array of EF hands, a PLC catalytic core domain, a C2 domain, and a unique C-terminal tail that terminates with a PDZ-binding m
Probab=20.78 E-value=1.4e+02 Score=29.42 Aligned_cols=46 Identities=11% Similarity=0.143 Sum_probs=36.8
Q ss_pred HHHHHHhHcCCCCeeEEEEeCCCCE---EEE------EecCCHHHHHHHHHHcCCce
Q 018608 18 ASIFLNWVLFIFGVYTTKIDLRQHK---VVV------KGDVAAETLIGKLEKNGKHA 65 (353)
Q Consensus 18 A~kVkKaLskIeGVesVeVDLe~qk---VTV------tG~VDp~~LlkaIkKtGK~A 65 (353)
+...+++|. .|+.-||+|..++. -+| +..|.-.+++++|++..|.+
T Consensus 32 ~e~y~~aL~--~GcRcvElD~Wdg~~~eP~V~HG~tlts~i~f~~v~~~I~~~AF~~ 86 (254)
T cd08633 32 VDMYAWVLQ--AGCRCVEVDCWDGPDGEPIVHHGYTLTSKILFKDVIETINKYAFIK 86 (254)
T ss_pred HHHHHHHHH--cCCcEEEEEeecCCCCCcEEeeCCCcccCcCHHHHHHHHHHHhccC
Confidence 678899995 69999999999864 333 44688899999998877764
No 101
>cd04908 ACT_Bt0572_1 N-terminal ACT domain of a novel protein composed almost entirely of two tandem ACT domains. Included in this CD is the N-terminal ACT domain of a novel protein composed almost entirely of two tandem ACT domains as seen in the uncharacterized structure (pdb 2F06) of the Bt0572 protein from Bacteroides thetaiotaomicron and related ACT domains. These tandem ACT domain proteins belong to the superfamily of ACT regulatory domains.
Probab=20.75 E-value=3.5e+02 Score=19.85 Aligned_cols=49 Identities=8% Similarity=-0.107 Sum_probs=30.0
Q ss_pred HHHHHHhHcCCCC-eeEEEEeCC--CCEEEEEecCCHHHHHHHHHHcCCceEE
Q 018608 18 ASIFLNWVLFIFG-VYTTKIDLR--QHKVVVKGDVAAETLIGKLEKNGKHAEL 67 (353)
Q Consensus 18 A~kVkKaLskIeG-VesVeVDLe--~qkVTVtG~VDp~~LlkaIkKtGK~AeL 67 (353)
-.+|.+.|.+-.. |.++-+... ...+.+.. -|.+.+++.|++.|+++.|
T Consensus 15 La~v~~~l~~~~inI~~i~~~~~~~~~~~rl~~-~~~~~~~~~L~~~G~~v~~ 66 (66)
T cd04908 15 LAAVTEILSEAGINIRALSIADTSEFGILRLIV-SDPDKAKEALKEAGFAVKL 66 (66)
T ss_pred HHHHHHHHHHCCCCEEEEEEEecCCCCEEEEEE-CCHHHHHHHHHHCCCEEEC
Confidence 4566677765432 455544222 23334444 5677999999999998754
No 102
>cd03710 BipA_TypA_C BipA_TypA_C: a C-terminal portion of BipA or TypA having homology to the C terminal domains of the elongation factors EF-G and EF-2. A member of the ribosome binding GTPase superfamily, BipA is widely distributed in bacteria and plants. BipA is a highly conserved protein with global regulatory properties in Escherichia coli. BipA is phosphorylated on a tyrosine residue under some cellular conditions. Mutants show altered regulation of some pathways. BipA functions as a translation factor that is required specifically for the expression of the transcriptional modulator Fis. BipA binds to ribosomes at a site that coincides with that of EF-G and has a GTPase activity that is sensitive to high GDP:GTP ratios and, is stimulated by 70S ribosomes programmed with mRNA and aminoacylated tRNAs. The growth rate-dependent induction of BipA allows the efficient expression of Fis, thereby modulating a range of downstream processes, including DNA metabolism and type III secreti
Probab=20.00 E-value=4.2e+02 Score=20.49 Aligned_cols=49 Identities=10% Similarity=-0.010 Sum_probs=33.2
Q ss_pred EEEeeecCCchhHHHHHHHhHcCCCC-eeEEEEeCCCCEEEEEecCCHHHHHH
Q 018608 5 LSLVLYSFSSKLKASIFLNWVLFIFG-VYTTKIDLRQHKVVVKGDVAAETLIG 56 (353)
Q Consensus 5 l~V~L~CmsC~~CA~kVkKaLskIeG-VesVeVDLe~qkVTVtG~VDp~~Llk 56 (353)
++|.+.|-. .|..+|...|.+..| |.+++. .....++|++.++..+++.
T Consensus 4 ~~v~I~~P~--~~~g~V~~~l~~rrg~i~~~~~-~~~~~~~i~~~~P~~~~~~ 53 (79)
T cd03710 4 EELTIDVPE--EYSGAVIEKLGKRKGEMVDMEP-DGNGRTRLEFKIPSRGLIG 53 (79)
T ss_pred EEEEEEeCc--hhhHHHHHHHHhCCCEEEccEE-CCCCEEEEEEEECHHHHcC
Confidence 456666654 346788888888888 334442 2336789999998887754
Done!