Query 045611
Match_columns 181
No_of_seqs 299 out of 1536
Neff 7.6
Searched_HMMs 46136
Date Fri Mar 29 03:44:37 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/045611.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/045611hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF00403 HMA: Heavy-metal-asso 99.4 5.6E-13 1.2E-17 86.4 8.0 58 56-114 1-62 (62)
2 COG2608 CopZ Copper chaperone 99.4 4.6E-12 1E-16 84.8 9.1 65 53-118 2-70 (71)
3 KOG4656 Copper chaperone for s 99.3 7.7E-13 1.7E-17 103.9 4.6 95 52-147 6-101 (247)
4 KOG1603 Copper chaperone [Inor 99.3 4.4E-11 9.6E-16 80.4 9.0 67 52-119 4-71 (73)
5 PLN02957 copper, zinc superoxi 98.5 1.5E-06 3.2E-11 71.0 10.3 71 53-124 6-76 (238)
6 PRK10671 copA copper exporting 98.4 1.2E-06 2.6E-11 83.0 8.1 64 53-119 3-67 (834)
7 COG2217 ZntA Cation transport 98.1 7.4E-06 1.6E-10 76.2 7.9 63 53-117 2-69 (713)
8 TIGR00003 copper ion binding p 97.9 0.0002 4.3E-09 43.5 8.5 62 53-115 2-67 (68)
9 KOG0207 Cation transport ATPas 97.7 0.00011 2.4E-09 69.1 7.4 67 53-120 146-216 (951)
10 KOG0207 Cation transport ATPas 97.3 0.00062 1.3E-08 64.2 6.8 67 53-120 69-139 (951)
11 PRK10671 copA copper exporting 97.3 0.001 2.2E-08 63.3 8.0 64 54-118 100-164 (834)
12 PRK11033 zntA zinc/cadmium/mer 96.9 0.003 6.5E-08 59.5 7.7 66 52-118 52-119 (741)
13 TIGR02052 MerP mercuric transp 95.3 0.48 1E-05 31.0 10.7 62 55-117 25-90 (92)
14 COG1888 Uncharacterized protei 89.6 4.1 8.8E-05 28.4 7.8 67 52-119 5-80 (97)
15 PRK13748 putative mercuric red 87.8 3.1 6.8E-05 37.6 8.4 64 56-120 3-69 (561)
16 cd00371 HMA Heavy-metal-associ 86.8 3.3 7.1E-05 22.0 7.1 54 58-112 3-59 (63)
17 PF01206 TusA: Sulfurtransfera 85.9 3.8 8.3E-05 26.3 5.9 54 56-119 2-58 (70)
18 PF02680 DUF211: Uncharacteriz 80.8 5.3 0.00012 28.0 5.1 66 52-119 4-78 (95)
19 PF01883 DUF59: Domain of unkn 74.7 6.4 0.00014 25.5 4.0 33 53-85 34-72 (72)
20 PRK11018 hypothetical protein; 72.1 23 0.0005 23.5 6.3 55 54-118 8-65 (78)
21 PRK14054 methionine sulfoxide 71.3 13 0.00029 28.9 5.6 45 64-108 10-76 (172)
22 cd03421 SirA_like_N SirA_like_ 69.2 23 0.00049 22.5 5.6 52 57-119 2-56 (67)
23 PRK10553 assembly protein for 62.7 42 0.00091 23.1 6.2 45 64-108 16-61 (87)
24 cd03420 SirA_RHOD_Pry_redox Si 57.1 48 0.001 21.3 5.5 53 57-119 2-57 (69)
25 PF14437 MafB19-deam: MafB19-l 56.2 30 0.00065 26.3 4.9 41 52-93 99-141 (146)
26 PRK05528 methionine sulfoxide 55.1 49 0.0011 25.3 6.0 45 64-108 8-69 (156)
27 PRK13014 methionine sulfoxide 52.4 38 0.00082 26.7 5.1 52 52-108 8-81 (186)
28 PRK00058 methionine sulfoxide 51.6 54 0.0012 26.4 6.0 52 52-108 45-118 (213)
29 PF03927 NapD: NapD protein; 48.9 79 0.0017 21.1 6.2 43 65-108 15-58 (79)
30 COG2177 FtsX Cell division pro 43.8 2E+02 0.0043 24.4 8.5 48 54-114 62-109 (297)
31 cd00291 SirA_YedF_YeeD SirA, Y 43.2 82 0.0018 19.7 5.5 53 57-119 2-57 (69)
32 cd03422 YedF YedF is a bacteri 42.9 89 0.0019 20.0 5.5 53 57-119 2-57 (69)
33 cd03423 SirA SirA (also known 42.3 90 0.002 19.9 5.9 53 57-119 2-57 (69)
34 PF13732 DUF4162: Domain of un 41.6 98 0.0021 20.1 5.7 43 74-119 26-70 (84)
35 TIGR03406 FeS_long_SufT probab 39.7 37 0.0008 26.4 3.3 34 54-87 114-153 (174)
36 COG2151 PaaD Predicted metal-s 37.2 54 0.0012 23.6 3.6 32 55-86 51-88 (111)
37 cd04888 ACT_PheB-BS C-terminal 37.2 1E+02 0.0023 19.3 4.8 33 53-85 41-74 (76)
38 cd02410 archeal_CPSF_KH The ar 36.8 1.4E+02 0.0031 22.6 5.9 60 63-122 51-116 (145)
39 PF09580 Spore_YhcN_YlaJ: Spor 34.6 1.2E+02 0.0025 23.0 5.4 33 63-95 73-105 (177)
40 PRK00299 sulfur transfer prote 34.3 1.4E+02 0.0031 19.8 6.6 55 54-118 9-66 (81)
41 PF08821 CGGC: CGGC domain; I 32.9 1E+02 0.0022 22.0 4.4 59 57-117 38-104 (107)
42 PRK05550 bifunctional methioni 30.9 1.5E+02 0.0033 25.0 5.7 45 64-108 134-200 (283)
43 PF11491 DUF3213: Protein of u 30.6 81 0.0018 21.7 3.3 49 66-115 12-63 (88)
44 TIGR02945 SUF_assoc FeS assemb 29.9 56 0.0012 22.3 2.6 36 53-88 39-78 (99)
45 PRK06418 transcription elongat 28.8 2.8E+02 0.006 21.5 7.2 69 54-122 7-100 (166)
46 PF04972 BON: BON domain; Int 28.1 39 0.00085 20.9 1.4 29 69-98 3-34 (64)
47 PF13291 ACT_4: ACT domain; PD 28.1 1.6E+02 0.0035 18.9 4.5 35 50-84 45-79 (80)
48 PRK09577 multidrug efflux prot 27.3 1.8E+02 0.0038 28.9 6.4 45 67-112 158-210 (1032)
49 PRK10555 aminoglycoside/multid 26.4 1.7E+02 0.0037 29.0 6.1 42 67-108 159-208 (1037)
50 TIGR03527 selenium_YedF seleni 25.7 1.9E+02 0.004 22.8 5.2 50 60-119 5-56 (194)
51 PHA01634 hypothetical protein 25.7 23 0.00051 26.6 0.1 16 57-72 93-109 (156)
52 COG3062 NapD Uncharacterized p 25.6 2.4E+02 0.0052 19.7 5.4 44 64-108 17-61 (94)
53 COG0425 SirA Predicted redox p 24.8 2.2E+02 0.0047 18.9 6.4 49 54-112 5-56 (78)
54 PF04159 NB: NB glycoprotein; 23.0 50 0.0011 22.7 1.2 46 17-72 26-71 (100)
55 PF10399 UCR_Fe-S_N: Ubiquitin 22.4 1.2E+02 0.0026 17.8 2.7 24 10-33 14-38 (41)
56 KOG3411 40S ribosomal protein 22.4 84 0.0018 23.5 2.4 42 64-108 97-139 (143)
57 PF08712 Nfu_N: Scaffold prote 22.3 2.2E+02 0.0047 19.3 4.4 39 68-108 37-77 (87)
58 PF13192 Thioredoxin_3: Thiore 22.3 1.2E+02 0.0026 19.5 3.0 10 59-68 6-15 (76)
59 PF14492 EFG_II: Elongation Fa 21.7 2.4E+02 0.0052 18.3 5.8 55 63-117 14-73 (75)
60 TIGR00489 aEF-1_beta translati 21.6 99 0.0021 21.3 2.5 23 64-86 61-83 (88)
61 COG2761 FrnE Predicted dithiol 21.4 2E+02 0.0044 23.4 4.7 38 53-90 4-46 (225)
62 COG4004 Uncharacterized protei 21.1 1.5E+02 0.0032 20.8 3.3 23 74-96 36-58 (96)
63 COG0225 MsrA Peptide methionin 21.0 1.2E+02 0.0025 23.8 3.1 35 52-91 6-40 (174)
64 COG2092 EFB1 Translation elong 20.7 1.7E+02 0.0037 20.3 3.5 33 54-86 50-83 (88)
65 TIGR00915 2A0602 The (Largely 20.5 2.6E+02 0.0056 27.9 6.1 43 67-110 159-209 (1044)
66 PRK11023 outer membrane lipopr 20.5 3.3E+02 0.0071 21.2 5.6 36 67-102 129-166 (191)
67 PF08777 RRM_3: RNA binding mo 20.4 3.1E+02 0.0068 19.2 6.6 55 56-111 3-60 (105)
68 PF08002 DUF1697: Protein of u 20.2 3.6E+02 0.0078 19.8 5.7 49 68-117 22-74 (137)
69 TIGR02898 spore_YhcN_YlaJ spor 20.2 3.5E+02 0.0075 20.7 5.5 31 65-95 54-84 (158)
70 TIGR00401 msrA methionine-S-su 20.2 76 0.0016 24.0 1.9 27 64-90 7-33 (149)
71 PF03828 PAP_assoc: Cid1 famil 20.1 99 0.0021 18.8 2.2 18 19-36 2-19 (60)
72 PRK11023 outer membrane lipopr 20.1 2.3E+02 0.0049 22.1 4.7 47 62-108 46-95 (191)
No 1
>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=99.44 E-value=5.6e-13 Score=86.42 Aligned_cols=58 Identities=33% Similarity=0.630 Sum_probs=54.1
Q ss_pred EEEE-cCcChhHHHHHHHHHhcCCCceEEEecCCCcEEEEEee---CCHHHHHHHHHHhcCCc
Q 045611 56 EIKI-KMDCEGCERRVKKSVEGMKGVTQVEVDPKQSKLTVIGY---VDPEKVLERVRHRTGKK 114 (181)
Q Consensus 56 ~l~V-gm~C~~C~~kI~kaL~~l~GV~~v~vd~~~~~v~V~~~---~~~~~l~~~I~~~~G~~ 114 (181)
+|+| ||+|++|+.+|+++|.+++||.++++|+.+++++|.++ +++++|.++|+ ++||+
T Consensus 1 t~~v~~m~C~~C~~~v~~~l~~~~GV~~v~vd~~~~~v~v~~~~~~~~~~~i~~~i~-~~Gy~ 62 (62)
T PF00403_consen 1 TFKVPGMTCEGCAKKVEKALSKLPGVKSVKVDLETKTVTVTYDPDKTSIEKIIEAIE-KAGYE 62 (62)
T ss_dssp EEEEESTTSHHHHHHHHHHHHTSTTEEEEEEETTTTEEEEEESTTTSCHHHHHHHHH-HTTSE
T ss_pred CEEECCcccHHHHHHHHHHHhcCCCCcEEEEECCCCEEEEEEecCCCCHHHHHHHHH-HhCcC
Confidence 4889 99999999999999999999999999999999999976 46699999999 99984
No 2
>COG2608 CopZ Copper chaperone [Inorganic ion transport and metabolism]
Probab=99.38 E-value=4.6e-12 Score=84.85 Aligned_cols=65 Identities=32% Similarity=0.504 Sum_probs=58.2
Q ss_pred eEEEEEE-cCcChhHHHHHHHHHhcCCCceEEEecCCCcEEEEEe---eCCHHHHHHHHHHhcCCceEEc
Q 045611 53 QTVEIKI-KMDCEGCERRVKKSVEGMKGVTQVEVDPKQSKLTVIG---YVDPEKVLERVRHRTGKKAEFW 118 (181)
Q Consensus 53 ~~v~l~V-gm~C~~C~~kI~kaL~~l~GV~~v~vd~~~~~v~V~~---~~~~~~l~~~I~~~~G~~a~~~ 118 (181)
.+..|+| ||+|.+|+.+|+++|.+++||.++++|++.+.+.|.. .++.++|.++|+ ++||.+..+
T Consensus 2 ~~~~l~v~~MtC~~C~~~V~~al~~v~gv~~v~v~l~~~~~~V~~d~~~~~~~~i~~ai~-~aGy~~~~~ 70 (71)
T COG2608 2 MKTTLKVEGMTCGHCVKTVEKALEEVDGVASVDVDLEKGTATVTFDSNKVDIEAIIEAIE-DAGYKVEEI 70 (71)
T ss_pred ceEEEEECCcCcHHHHHHHHHHHhcCCCeeEEEEEcccCeEEEEEcCCcCCHHHHHHHHH-HcCCCeeec
Confidence 4668999 9999999999999999999999999999997776663 379999999999 999988754
No 3
>KOG4656 consensus Copper chaperone for superoxide dismutase [Inorganic ion transport and metabolism]
Probab=99.35 E-value=7.7e-13 Score=103.95 Aligned_cols=95 Identities=28% Similarity=0.420 Sum_probs=80.9
Q ss_pred ceEEEEEEcCcChhHHHHHHHHHhcCCCceEEEecCCCcEEEEEeeCCHHHHHHHHHHhcCCceEEccCCCCCCCCCCCC
Q 045611 52 LQTVEIKIKMDCEGCERRVKKSVEGMKGVTQVEVDPKQSKLTVIGYVDPEKVLERVRHRTGKKAEFWPYVPSDVVPRPYA 131 (181)
Q Consensus 52 ~~~v~l~Vgm~C~~C~~kI~kaL~~l~GV~~v~vd~~~~~v~V~~~~~~~~l~~~I~~~~G~~a~~~~~~~~~~~~~~~~ 131 (181)
.-+.+|.|.|+|++|+..|++.|..++||.+|++|++++.+.|.+...+.++..+|+ .+|.++.+.+.+.++++.....
T Consensus 6 ~~~~efaV~M~cescvnavk~~L~~V~Gi~~vevdle~q~v~v~ts~p~s~i~~~le-~tGr~Avl~G~G~psaval~at 84 (247)
T KOG4656|consen 6 TYEAEFAVQMTCESCVNAVKACLKGVPGINSVEVDLEQQIVSVETSVPPSEIQNTLE-NTGRDAVLRGAGKPSAVALLAT 84 (247)
T ss_pred ceeEEEEEechhHHHHHHHHHHhccCCCcceEEEEhhhcEEEEEccCChHHHHHHHH-hhChheEEecCCchhHHHHHHH
Confidence 456789999999999999999999999999999999999999999999999999999 9999999999876665543322
Q ss_pred CCCC-CCCCCCCCcCCC
Q 045611 132 PEAY-DKKAPPGYVRNV 147 (181)
Q Consensus 132 ~~~y-~~~~~~g~~r~~ 147 (181)
-+.| .+.+++|++||.
T Consensus 85 ~a~~~~~~~v~GvvRf~ 101 (247)
T KOG4656|consen 85 VAKYTGPQAVQGVVRFV 101 (247)
T ss_pred HHHhcCCccceeEEEEE
Confidence 2333 334788998887
No 4
>KOG1603 consensus Copper chaperone [Inorganic ion transport and metabolism]
Probab=99.27 E-value=4.4e-11 Score=80.44 Aligned_cols=67 Identities=48% Similarity=0.950 Sum_probs=61.5
Q ss_pred ceEEEEEEcCcChhHHHHHHHHHhcCCCceEEEecCCCcEEEEEeeCCHHHHHHHHHHhcC-CceEEcc
Q 045611 52 LQTVEIKIKMDCEGCERRVKKSVEGMKGVTQVEVDPKQSKLTVIGYVDPEKVLERVRHRTG-KKAEFWP 119 (181)
Q Consensus 52 ~~~v~l~Vgm~C~~C~~kI~kaL~~l~GV~~v~vd~~~~~v~V~~~~~~~~l~~~I~~~~G-~~a~~~~ 119 (181)
++..++++.|+|++|..+|++.|+.++||.++++|..+++++|.|.+++..|++.|+ +.| .+..+|.
T Consensus 4 ~~~~v~kv~~~C~gc~~kV~~~l~~~~GV~~v~id~~~~kvtV~g~~~p~~vl~~l~-k~~~k~~~~~~ 71 (73)
T KOG1603|consen 4 IKTVVLKVNMHCEGCARKVKRVLQKLKGVESVDIDIKKQKVTVKGNVDPVKLLKKLK-KTGGKRAELWK 71 (73)
T ss_pred ccEEEEEECcccccHHHHHHHHhhccCCeEEEEecCCCCEEEEEEecCHHHHHHHHH-hcCCCceEEec
Confidence 466778889999999999999999999999999999999999999999999999999 677 7777764
No 5
>PLN02957 copper, zinc superoxide dismutase
Probab=98.48 E-value=1.5e-06 Score=71.02 Aligned_cols=71 Identities=30% Similarity=0.487 Sum_probs=63.5
Q ss_pred eEEEEEEcCcChhHHHHHHHHHhcCCCceEEEecCCCcEEEEEeeCCHHHHHHHHHHhcCCceEEccCCCCC
Q 045611 53 QTVEIKIKMDCEGCERRVKKSVEGMKGVTQVEVDPKQSKLTVIGYVDPEKVLERVRHRTGKKAEFWPYVPSD 124 (181)
Q Consensus 53 ~~v~l~Vgm~C~~C~~kI~kaL~~l~GV~~v~vd~~~~~v~V~~~~~~~~l~~~I~~~~G~~a~~~~~~~~~ 124 (181)
++++|.++|+|+.|+.+|++.|++++||..+.+++..+++.|.+....+++.++|+ +.||.+++++..+.+
T Consensus 6 ~~~~~~VgMsC~~Ca~~Iek~L~~~~GV~~v~vn~~~~~v~V~~~~~~~~I~~aIe-~~Gy~a~~~~~~~~~ 76 (238)
T PLN02957 6 LLTEFMVDMKCEGCVAAVKNKLETLEGVKAVEVDLSNQVVRVLGSSPVKAMTAALE-QTGRKARLIGQGDPE 76 (238)
T ss_pred EEEEEEECccCHHHHHHHHHHHhcCCCeEEEEEEcCCCEEEEEecCCHHHHHHHHH-HcCCcEEEecCCCcc
Confidence 55678889999999999999999999999999999999999987778899999999 999999988765543
No 6
>PRK10671 copA copper exporting ATPase; Provisional
Probab=98.36 E-value=1.2e-06 Score=83.04 Aligned_cols=64 Identities=28% Similarity=0.512 Sum_probs=57.2
Q ss_pred eEEEEEE-cCcChhHHHHHHHHHhcCCCceEEEecCCCcEEEEEeeCCHHHHHHHHHHhcCCceEEcc
Q 045611 53 QTVEIKI-KMDCEGCERRVKKSVEGMKGVTQVEVDPKQSKLTVIGYVDPEKVLERVRHRTGKKAEFWP 119 (181)
Q Consensus 53 ~~v~l~V-gm~C~~C~~kI~kaL~~l~GV~~v~vd~~~~~v~V~~~~~~~~l~~~I~~~~G~~a~~~~ 119 (181)
+++++.| ||+|++|+.+|+++|++++||.++++++. +.+|++..+.+.+.++++ +.||+++...
T Consensus 3 ~~~~l~V~gmtC~~C~~~i~~al~~~~gv~~v~v~~~--~~~v~~~~~~~~i~~~i~-~~Gy~~~~~~ 67 (834)
T PRK10671 3 QTIDLTLDGLSCGHCVKRVKESLEQRPDVEQADVSIT--EAHVTGTASAEALIETIK-QAGYDASVSH 67 (834)
T ss_pred eEEEEEECCcccHHHHHHHHHHHhcCCCcceEEEeee--EEEEEecCCHHHHHHHHH-hcCCcccccc
Confidence 5788999 99999999999999999999999999994 556666678999999999 9999998754
No 7
>COG2217 ZntA Cation transport ATPase [Inorganic ion transport and metabolism]
Probab=98.14 E-value=7.4e-06 Score=76.25 Aligned_cols=63 Identities=24% Similarity=0.550 Sum_probs=56.5
Q ss_pred eEEEEEE-cCcChhHHHHHHHHHhcCCCceEEEecCCCcEEEEEee---CC-HHHHHHHHHHhcCCceEE
Q 045611 53 QTVEIKI-KMDCEGCERRVKKSVEGMKGVTQVEVDPKQSKLTVIGY---VD-PEKVLERVRHRTGKKAEF 117 (181)
Q Consensus 53 ~~v~l~V-gm~C~~C~~kI~kaL~~l~GV~~v~vd~~~~~v~V~~~---~~-~~~l~~~I~~~~G~~a~~ 117 (181)
.+..|.| ||+|..|+.+|| +|++++||..+.+|+.++++.|..+ .+ .+++.++++ +.||.+..
T Consensus 2 ~~~~l~v~Gm~Ca~C~~~ie-~l~~~~gV~~~~vn~~t~~~~v~~~~~~~~~~~~~~~~v~-~~gy~~~~ 69 (713)
T COG2217 2 RETSLSVEGMTCAACASRIE-ALNKLPGVEEARVNLATERATVVYDPEEVDLPADIVAAVE-KAGYSARL 69 (713)
T ss_pred ceeEEeecCcCcHHHHHHHH-HHhcCCCeeEEEeecccceEEEEecccccccHHHHHHHHH-hcCccccc
Confidence 4567999 999999999999 9999999999999999999998854 44 789999999 99998765
No 8
>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=97.87 E-value=0.0002 Score=43.54 Aligned_cols=62 Identities=21% Similarity=0.396 Sum_probs=51.1
Q ss_pred eEEEEEE-cCcChhHHHHHHHHHhcCCCceEEEecCCCcEEEEEee---CCHHHHHHHHHHhcCCce
Q 045611 53 QTVEIKI-KMDCEGCERRVKKSVEGMKGVTQVEVDPKQSKLTVIGY---VDPEKVLERVRHRTGKKA 115 (181)
Q Consensus 53 ~~v~l~V-gm~C~~C~~kI~kaL~~l~GV~~v~vd~~~~~v~V~~~---~~~~~l~~~I~~~~G~~a 115 (181)
.+..+.+ |++|..|...+++.++..+++....+++...++.+..+ .+...+...+. ..|+.+
T Consensus 2 ~~~~~~v~~~~~~~c~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~g~~~ 67 (68)
T TIGR00003 2 QKFTVQVMSMTCQHCVDKIEKFVGELEGVSKVQVKLEKASVKVEFDAPQATEICIAEAIL-DAGYEV 67 (68)
T ss_pred cEEEEEECCeEcHHHHHHHHHHHhcCCCEEEEEEEcCCCEEEEEeCCCCCCHHHHHHHHH-HcCCCc
Confidence 3456899 99999999999999999999999999999999888742 46677777777 777643
No 9
>KOG0207 consensus Cation transport ATPase [Inorganic ion transport and metabolism]
Probab=97.70 E-value=0.00011 Score=69.15 Aligned_cols=67 Identities=22% Similarity=0.509 Sum_probs=61.8
Q ss_pred eEEEEEE-cCcChhHHHHHHHHHhcCCCceEEEecCCCcEEEEEee---CCHHHHHHHHHHhcCCceEEccC
Q 045611 53 QTVEIKI-KMDCEGCERRVKKSVEGMKGVTQVEVDPKQSKLTVIGY---VDPEKVLERVRHRTGKKAEFWPY 120 (181)
Q Consensus 53 ~~v~l~V-gm~C~~C~~kI~kaL~~l~GV~~v~vd~~~~~v~V~~~---~~~~~l~~~I~~~~G~~a~~~~~ 120 (181)
.++.|.| ||.|.+|+.+|++.|.+++||.+++++..++++.|..+ ..+.++.+.|+ .+|+.+.....
T Consensus 146 ~~i~L~v~g~~c~s~~~~ie~~l~~l~gV~~~sv~~~t~~~~V~~~~~~~~pr~i~k~ie-~~~~~~~~~~~ 216 (951)
T KOG0207|consen 146 QKIYLDVLGMTCASCVSKIESILERLRGVKSFSVSLATDTAIVVYDPEITGPRDIIKAIE-ETGFEASVRPY 216 (951)
T ss_pred CcEEEEeecccccchhhhhHHHHhhccCeeEEEEeccCCceEEEecccccChHHHHHHHH-hhcccceeeec
Confidence 6889999 99999999999999999999999999999999998854 78999999999 99998877664
No 10
>KOG0207 consensus Cation transport ATPase [Inorganic ion transport and metabolism]
Probab=97.30 E-value=0.00062 Score=64.24 Aligned_cols=67 Identities=22% Similarity=0.395 Sum_probs=61.0
Q ss_pred eEEEEEE-cCcChhHHHHHHHHHhcCCCceEEEecCCCcEEEEEee---CCHHHHHHHHHHhcCCceEEccC
Q 045611 53 QTVEIKI-KMDCEGCERRVKKSVEGMKGVTQVEVDPKQSKLTVIGY---VDPEKVLERVRHRTGKKAEFWPY 120 (181)
Q Consensus 53 ~~v~l~V-gm~C~~C~~kI~kaL~~l~GV~~v~vd~~~~~v~V~~~---~~~~~l~~~I~~~~G~~a~~~~~ 120 (181)
.+-.+++ ||+|..|++.|++.|++++|+.++.+.+...+..+..+ .+++.+.+.++ +.|+.+++...
T Consensus 69 ~~~~l~v~GmtC~scv~~i~~~l~~~~gv~~~~val~~~~~~v~~dp~v~s~~~~~e~ie-~~gf~a~~i~~ 139 (951)
T KOG0207|consen 69 SKCYLSVNGMTCASCVATIERNLRKIEGVESAVVALSASKAEVIYDPAVTSPDSIAESIE-DLGFSAELIES 139 (951)
T ss_pred ceeEEEecCceeHHHHHHHHHHhhccCCcceEEEEeeccceeEEECCcccCchhHHHHHH-hcCccceehhc
Confidence 4668999 99999999999999999999999999999999998854 78999999999 99999987654
No 11
>PRK10671 copA copper exporting ATPase; Provisional
Probab=97.26 E-value=0.001 Score=63.34 Aligned_cols=64 Identities=27% Similarity=0.534 Sum_probs=56.6
Q ss_pred EEEEEE-cCcChhHHHHHHHHHhcCCCceEEEecCCCcEEEEEeeCCHHHHHHHHHHhcCCceEEc
Q 045611 54 TVEIKI-KMDCEGCERRVKKSVEGMKGVTQVEVDPKQSKLTVIGYVDPEKVLERVRHRTGKKAEFW 118 (181)
Q Consensus 54 ~v~l~V-gm~C~~C~~kI~kaL~~l~GV~~v~vd~~~~~v~V~~~~~~~~l~~~I~~~~G~~a~~~ 118 (181)
++.+.+ ||+|..|..++++.+.+++||..+.+++..+++.+.+..+.+++.+.++ +.||.+.++
T Consensus 100 ~~~l~V~Gm~Ca~Ca~~Ie~~L~~~~GV~~a~vnl~t~~~~V~~~~s~~~I~~~I~-~~Gy~a~~~ 164 (834)
T PRK10671 100 SQQLLLSGMSCASCVSRVQNALQSVPGVTQARVNLAERTALVMGSASPQDLVQAVE-KAGYGAEAI 164 (834)
T ss_pred eEEEEeCCcCcHHHHHHHHHHHhcCCCceeeeeecCCCeEEEEccCCHHHHHHHHH-hcCCCcccc
Confidence 567889 9999999999999999999999999999999988876567888888998 999987544
No 12
>PRK11033 zntA zinc/cadmium/mercury/lead-transporting ATPase; Provisional
Probab=96.93 E-value=0.003 Score=59.50 Aligned_cols=66 Identities=29% Similarity=0.321 Sum_probs=54.0
Q ss_pred ceEEEEEE-cCcChhHHHHHHHHHhcCCCceEEEecCCCcEEEEEee-CCHHHHHHHHHHhcCCceEEc
Q 045611 52 LQTVEIKI-KMDCEGCERRVKKSVEGMKGVTQVEVDPKQSKLTVIGY-VDPEKVLERVRHRTGKKAEFW 118 (181)
Q Consensus 52 ~~~v~l~V-gm~C~~C~~kI~kaL~~l~GV~~v~vd~~~~~v~V~~~-~~~~~l~~~I~~~~G~~a~~~ 118 (181)
..+..+.+ ||+|.+|..++++.+.+++||..+.+++..+++.+..+ ...+++.+.++ +.||.+...
T Consensus 52 ~~r~~l~V~Gm~C~sCa~~Ie~aL~~~~GV~~v~Vn~at~k~~V~~d~~~~~~I~~aI~-~~Gy~a~~~ 119 (741)
T PRK11033 52 GTRYSWKVSGMDCPSCARKVENAVRQLAGVNQVQVLFATEKLVVDADNDIRAQVESAVQ-KAGFSLRDE 119 (741)
T ss_pred CceEEEEECCCCcHHHHHHHHHHHhcCCCeeeEEEEcCCCeEEEEecccchHHHHHHHH-hcccccccc
Confidence 35667889 99999999999999999999999999999999877643 12266777888 889876543
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=95.28 E-value=0.48 Score=31.04 Aligned_cols=62 Identities=21% Similarity=0.357 Sum_probs=46.6
Q ss_pred EEEEE-cCcChhHHHHHHHHHhcCCCceEEEecCCCcEEEEEe---eCCHHHHHHHHHHhcCCceEE
Q 045611 55 VEIKI-KMDCEGCERRVKKSVEGMKGVTQVEVDPKQSKLTVIG---YVDPEKVLERVRHRTGKKAEF 117 (181)
Q Consensus 55 v~l~V-gm~C~~C~~kI~kaL~~l~GV~~v~vd~~~~~v~V~~---~~~~~~l~~~I~~~~G~~a~~ 117 (181)
+.+.+ ++.|..|...++..+...+|+....++.......+.. ..+...+...++ ..|+.+++
T Consensus 25 ~~~~~~~~~c~~c~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~g~~~~~ 90 (92)
T TIGR02052 25 VTLEVPGMTCVACPITVETALQKVDGVSKAEVTFKTKLAVVTFDDEKTNVKALTEATT-DAGYPSSL 90 (92)
T ss_pred EEEEECCeEcHHHHHHHHHHHhcCCCEEEEEEEecCCEEEEEECCCCCCHHHHHHHHH-hcCCCeEe
Confidence 35678 9999999999999999999988888887777755542 135556656666 77877554
No 14
>COG1888 Uncharacterized protein conserved in archaea [Function unknown]
Probab=89.57 E-value=4.1 Score=28.43 Aligned_cols=67 Identities=16% Similarity=0.260 Sum_probs=43.7
Q ss_pred ceEEEEEE-cCcChhHHHHHHHHHhcCCCceEEEe-----cCCCc--EEEEEee-CCHHHHHHHHHHhcCCceEEcc
Q 045611 52 LQTVEIKI-KMDCEGCERRVKKSVEGMKGVTQVEV-----DPKQS--KLTVIGY-VDPEKVLERVRHRTGKKAEFWP 119 (181)
Q Consensus 52 ~~~v~l~V-gm~C~~C~~kI~kaL~~l~GV~~v~v-----d~~~~--~v~V~~~-~~~~~l~~~I~~~~G~~a~~~~ 119 (181)
...+.|.+ --+-.--.-.+.+.|.+++||+.|++ |.++. +++|.|. ++-+++.+.|+ +.|...+.+.
T Consensus 5 iRRlVLDvlKP~~~p~ive~A~~lskl~gVegVNItv~eiD~et~~~~itIeG~~ldydei~~~iE-~~Gg~IHSiD 80 (97)
T COG1888 5 IRRLVLDVLKPHRGPTIVELALELSKLEGVEGVNITVTEIDVETENLKITIEGTNLDYDEIEEVIE-ELGGAIHSID 80 (97)
T ss_pred ceeeeeeecCCcCCCcHHHHHHHHhhcCCcceEEEEEEEeeehhcceEEEEEcCCCCHHHHHHHHH-HcCCeeeehh
Confidence 34556666 33322233345667888888877665 33333 4556664 89999999999 9998766554
No 15
>PRK13748 putative mercuric reductase; Provisional
Probab=87.80 E-value=3.1 Score=37.62 Aligned_cols=64 Identities=23% Similarity=0.392 Sum_probs=49.3
Q ss_pred EEEE-cCcChhHHHHHHHHHhcCCCceEEEecCCCcEEEEEe--eCCHHHHHHHHHHhcCCceEEccC
Q 045611 56 EIKI-KMDCEGCERRVKKSVEGMKGVTQVEVDPKQSKLTVIG--YVDPEKVLERVRHRTGKKAEFWPY 120 (181)
Q Consensus 56 ~l~V-gm~C~~C~~kI~kaL~~l~GV~~v~vd~~~~~v~V~~--~~~~~~l~~~I~~~~G~~a~~~~~ 120 (181)
.+.+ +|+|..|..+++..+...+++....++.......+.. ..+...+...++ ..|+..++...
T Consensus 3 ~i~i~g~~C~~c~~~ie~~l~~~~gv~~a~~~~~~~~~~v~~~~~~~~~~i~~~i~-~~g~~~~~~~~ 69 (561)
T PRK13748 3 TLKITGMTCDSCAAHVKDALEKVPGVQSADVSYPKGSAQLAIEVGTSPDALTAAVA-GLGYRATLADA 69 (561)
T ss_pred EEEECCeecHHHHHHHHHHHhcCCCeeEEEEEcCCCEEEEEECCCCCHHHHHHHHH-HcCCeeeccCc
Confidence 3668 9999999999999999999998888888888766653 235566666676 77877655543
No 16
>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=86.80 E-value=3.3 Score=22.05 Aligned_cols=54 Identities=39% Similarity=0.680 Sum_probs=36.0
Q ss_pred EE-cCcChhHHHHHHHHHhcCCCceEEEecCCCcEEEEEee--CCHHHHHHHHHHhcC
Q 045611 58 KI-KMDCEGCERRVKKSVEGMKGVTQVEVDPKQSKLTVIGY--VDPEKVLERVRHRTG 112 (181)
Q Consensus 58 ~V-gm~C~~C~~kI~kaL~~l~GV~~v~vd~~~~~v~V~~~--~~~~~l~~~I~~~~G 112 (181)
.+ ++.|..|...++..+...+|+.....+.......+... .+...+...++ ..+
T Consensus 3 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~ 59 (63)
T cd00371 3 SVEGMTCAGCVSKIEKALEKLPGVESVEVDLETGKATVEYDPEVSPEELLEAIE-DAG 59 (63)
T ss_pred eECCeEcHHHHHHHHHHHhcCCCEeEEEEEccCCEEEEEECCCCCHHHHHHHHH-HcC
Confidence 35 78899999999998888888777766766666555432 24444434444 444
No 17
>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=85.88 E-value=3.8 Score=26.35 Aligned_cols=54 Identities=13% Similarity=0.139 Sum_probs=39.0
Q ss_pred EEEE-cCcChhHHHHHHHHHhcCCCceEEEecCCCcEEEEEee--CCHHHHHHHHHHhcCCceEEcc
Q 045611 56 EIKI-KMDCEGCERRVKKSVEGMKGVTQVEVDPKQSKLTVIGY--VDPEKVLERVRHRTGKKAEFWP 119 (181)
Q Consensus 56 ~l~V-gm~C~~C~~kI~kaL~~l~GV~~v~vd~~~~~v~V~~~--~~~~~l~~~I~~~~G~~a~~~~ 119 (181)
++.+ |+.|+...-+++++|.+++. ++.+.|..+ ...+.|...++ +.|+....+.
T Consensus 2 ~lD~rg~~CP~Pll~~~~~l~~l~~---------G~~l~v~~d~~~~~~di~~~~~-~~g~~~~~~~ 58 (70)
T PF01206_consen 2 TLDLRGLSCPMPLLKAKKALKELPP---------GEVLEVLVDDPAAVEDIPRWCE-ENGYEVVEVE 58 (70)
T ss_dssp EEECSS-STTHHHHHHHHHHHTSGT---------T-EEEEEESSTTHHHHHHHHHH-HHTEEEEEEE
T ss_pred EEeCCCCCCCHHHHHHHHHHHhcCC---------CCEEEEEECCccHHHHHHHHHH-HCCCEEEEEE
Confidence 5778 99999999999999999743 234444433 45677888898 9999855553
No 18
>PF02680 DUF211: Uncharacterized ArCR, COG1888; InterPro: IPR003831 This entry describes proteins of unknown function.; PDB: 3BPD_I 2RAQ_F 2X3D_E.
Probab=80.76 E-value=5.3 Score=28.05 Aligned_cols=66 Identities=18% Similarity=0.312 Sum_probs=43.2
Q ss_pred ceEEEEEE-cCcChhHHHHHHHHHhcCCCceEEEe-----cCCCcEE--EEEee-CCHHHHHHHHHHhcCCceEEcc
Q 045611 52 LQTVEIKI-KMDCEGCERRVKKSVEGMKGVTQVEV-----DPKQSKL--TVIGY-VDPEKVLERVRHRTGKKAEFWP 119 (181)
Q Consensus 52 ~~~v~l~V-gm~C~~C~~kI~kaL~~l~GV~~v~v-----d~~~~~v--~V~~~-~~~~~l~~~I~~~~G~~a~~~~ 119 (181)
..++.|.| -.+-++= -.+-++|.+++||..|++ |..+..+ +|+|+ ++.+++.++|+ +.|-.++...
T Consensus 4 irRlVLDVlKP~~p~i-~e~A~~l~~~~gV~gVnitv~EvD~ete~lkitiEG~~id~d~i~~~Ie-~~Gg~IHSID 78 (95)
T PF02680_consen 4 IRRLVLDVLKPHEPSI-VELAKALSELEGVDGVNITVVEVDVETENLKITIEGDDIDFDEIKEAIE-ELGGVIHSID 78 (95)
T ss_dssp EEEEEEEEEEESSS-H-HHHHHHHHTSTTEEEEEEEEEEE-SSEEEEEEEEEESSE-HHHHHHHHH-HTT-EEEEEE
T ss_pred eeEEEEEeecCCCCCH-HHHHHHHHhCCCcceEEEEEEEeeccccEEEEEEEeCCCCHHHHHHHHH-HcCCeEEeee
Confidence 35666777 4444444 356677999999987765 4444444 45565 99999999999 9997665543
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=74.73 E-value=6.4 Score=25.48 Aligned_cols=33 Identities=18% Similarity=0.569 Sum_probs=22.3
Q ss_pred eEEEEEEcCcChhH------HHHHHHHHhcCCCceEEEe
Q 045611 53 QTVEIKIKMDCEGC------ERRVKKSVEGMKGVTQVEV 85 (181)
Q Consensus 53 ~~v~l~Vgm~C~~C------~~kI~kaL~~l~GV~~v~v 85 (181)
.++.+.+.+..++| ...|+++|..++||.+|+|
T Consensus 34 ~~V~v~l~l~~~~~~~~~~l~~~i~~~l~~l~gv~~V~V 72 (72)
T PF01883_consen 34 GKVSVSLELPTPACPAAEPLREEIREALKALPGVKSVKV 72 (72)
T ss_dssp CEEEEEE--SSTTHTTHHHHHHHHHHHHHTSTT-SEEEE
T ss_pred CEEEEEEEECCCCchHHHHHHHHHHHHHHhCCCCceEeC
Confidence 45566665555555 4778999999999998875
No 20
>PRK11018 hypothetical protein; Provisional
Probab=72.12 E-value=23 Score=23.54 Aligned_cols=55 Identities=11% Similarity=0.057 Sum_probs=40.4
Q ss_pred EEEEEE-cCcChhHHHHHHHHHhcCCCceEEEecCCCcEEEEEe--eCCHHHHHHHHHHhcCCceEEc
Q 045611 54 TVEIKI-KMDCEGCERRVKKSVEGMKGVTQVEVDPKQSKLTVIG--YVDPEKVLERVRHRTGKKAEFW 118 (181)
Q Consensus 54 ~v~l~V-gm~C~~C~~kI~kaL~~l~GV~~v~vd~~~~~v~V~~--~~~~~~l~~~I~~~~G~~a~~~ 118 (181)
..++.+ |..|+.-.-+.+++|++++. .+.+.|.. ......|...++ +.|+++...
T Consensus 8 ~~~lD~rG~~CP~Pvl~~kk~l~~l~~---------G~~L~V~~d~~~a~~di~~~~~-~~G~~v~~~ 65 (78)
T PRK11018 8 DYRLDMVGEPCPYPAVATLEALPQLKK---------GEILEVVSDCPQSINNIPLDAR-NHGYTVLDI 65 (78)
T ss_pred CeeEECCCCcCCHHHHHHHHHHHhCCC---------CCEEEEEeCCccHHHHHHHHHH-HcCCEEEEE
Confidence 357888 99999999999999998843 22334433 245677888888 999987543
No 21
>PRK14054 methionine sulfoxide reductase A; Provisional
Probab=71.28 E-value=13 Score=28.89 Aligned_cols=45 Identities=18% Similarity=0.256 Sum_probs=35.2
Q ss_pred hhHHHHHHHHHhcCCCceEEEecCCCcE-------------------EEEEee---CCHHHHHHHHH
Q 045611 64 EGCERRVKKSVEGMKGVTQVEVDPKQSK-------------------LTVIGY---VDPEKVLERVR 108 (181)
Q Consensus 64 ~~C~~kI~kaL~~l~GV~~v~vd~~~~~-------------------v~V~~~---~~~~~l~~~I~ 108 (181)
.+|-+-++..+.+++||.++.+-+.++. |.|..+ ++.++|++..-
T Consensus 10 gGCFWg~E~~f~~~~GV~~t~vGYagG~~~~PtY~~Vcsg~tgh~E~V~V~yDp~~isy~~Ll~~f~ 76 (172)
T PRK14054 10 GGCFWGMEAPFDRVKGVISTRVGYTGGHVENPTYEQVCSGTTGHAEAVEITYDPAVISYRELLELFF 76 (172)
T ss_pred cCChhhhHHHHccCCCEEEEEeeecCCCCCCCChhhcccCCCCCeEEEEEEECCCcCCHHHHHHHHH
Confidence 6788889999999999999999776664 455543 67788877665
No 22
>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=69.15 E-value=23 Score=22.49 Aligned_cols=52 Identities=17% Similarity=0.217 Sum_probs=36.6
Q ss_pred EEE-cCcChhHHHHHHHHHhcCCCceEEEecCCCcEEEEEee--CCHHHHHHHHHHhcCCceEEcc
Q 045611 57 IKI-KMDCEGCERRVKKSVEGMKGVTQVEVDPKQSKLTVIGY--VDPEKVLERVRHRTGKKAEFWP 119 (181)
Q Consensus 57 l~V-gm~C~~C~~kI~kaL~~l~GV~~v~vd~~~~~v~V~~~--~~~~~l~~~I~~~~G~~a~~~~ 119 (181)
+.+ |+.|+.=.-+++++| ++.. .+.+.|..+ ...+.|...++ +.|+......
T Consensus 2 lD~rG~~CP~P~l~~k~al-~~~~---------g~~l~v~~d~~~s~~~i~~~~~-~~G~~~~~~~ 56 (67)
T cd03421 2 IDARGLACPQPVIKTKKAL-ELEA---------GGEIEVLVDNEVAKENVSRFAE-SRGYEVSVEE 56 (67)
T ss_pred cccCCCCCCHHHHHHHHHH-hcCC---------CCEEEEEEcChhHHHHHHHHHH-HcCCEEEEEe
Confidence 457 999999999999999 5532 223444433 44577888888 9999885443
No 23
>PRK10553 assembly protein for periplasmic nitrate reductase; Provisional
Probab=62.74 E-value=42 Score=23.08 Aligned_cols=45 Identities=16% Similarity=0.243 Sum_probs=32.8
Q ss_pred hhHHHHHHHHHhcCCCceEEEecCCCcEEEEEe-eCCHHHHHHHHH
Q 045611 64 EGCERRVKKSVEGMKGVTQVEVDPKQSKLTVIG-YVDPEKVLERVR 108 (181)
Q Consensus 64 ~~C~~kI~kaL~~l~GV~~v~vd~~~~~v~V~~-~~~~~~l~~~I~ 108 (181)
+.=...+.++|..++|++-...|.+.+|+.|+- ..+.+++.+.+.
T Consensus 16 Pe~~~~V~~~l~~ipg~Evh~~d~~~GKiVVtiE~~~~~~~~~~i~ 61 (87)
T PRK10553 16 SERISDISTQLNAFPGCEVAVSDAPSGQLIVVVEAEDSETLLQTIE 61 (87)
T ss_pred hHHHHHHHHHHHcCCCcEEEeecCCCCeEEEEEEeCChHHHHHHHH
Confidence 444678999999999998777777788877663 245666656555
No 24
>cd03420 SirA_RHOD_Pry_redox SirA_RHOD_Pry_redox. SirA-like domain located within a multidomain protein of unknown function. Other domains include RHOD (rhodanese homology domain), and Pry_redox (pyridine nucleotide-disulphide oxidoreductase) as well as a C-terminal domain that corresponds to COG2210. This fold is referred to as a two-layered alpha/beta sandwich, structurally similar to that of translation initiation factor 3.
Probab=57.12 E-value=48 Score=21.29 Aligned_cols=53 Identities=15% Similarity=0.219 Sum_probs=38.6
Q ss_pred EEE-cCcChhHHHHHHHHHhcCCCceEEEecCCCcEEEEEee--CCHHHHHHHHHHhcCCceEEcc
Q 045611 57 IKI-KMDCEGCERRVKKSVEGMKGVTQVEVDPKQSKLTVIGY--VDPEKVLERVRHRTGKKAEFWP 119 (181)
Q Consensus 57 l~V-gm~C~~C~~kI~kaL~~l~GV~~v~vd~~~~~v~V~~~--~~~~~l~~~I~~~~G~~a~~~~ 119 (181)
+.+ |+.|+.=.-+.+++|.+++. .+.+.|..+ ...+.|....+ +.|++.....
T Consensus 2 lD~rG~~CP~Pvl~~kkal~~l~~---------G~~l~V~~d~~~a~~di~~~~~-~~G~~~~~~~ 57 (69)
T cd03420 2 VDACGLQCPGPILKLKKEIDKLQD---------GEQLEVKASDPGFARDAQAWCK-STGNTLISLE 57 (69)
T ss_pred cccCCCcCCHHHHHHHHHHHcCCC---------CCEEEEEECCccHHHHHHHHHH-HcCCEEEEEE
Confidence 456 89999999999999998742 233444432 45677888888 9999876544
No 25
>PF14437 MafB19-deam: MafB19-like deaminase
Probab=56.25 E-value=30 Score=26.27 Aligned_cols=41 Identities=12% Similarity=0.323 Sum_probs=32.4
Q ss_pred ceEEEEEE-cCcChhHHHHHHHHHhcCCCceEEEecCC-CcEEE
Q 045611 52 LQTVEIKI-KMDCEGCERRVKKSVEGMKGVTQVEVDPK-QSKLT 93 (181)
Q Consensus 52 ~~~v~l~V-gm~C~~C~~kI~kaL~~l~GV~~v~vd~~-~~~v~ 93 (181)
-..+++.| .-.|..|..-|.....++ |+.++.|... ++++.
T Consensus 99 g~~~tm~Vdr~vC~~C~~~i~~~a~~l-Gl~~L~I~~~~sG~~~ 141 (146)
T PF14437_consen 99 GRSMTMYVDRDVCGYCGGDIPSMAEKL-GLKSLTIHEPDSGKVY 141 (146)
T ss_pred CCeEEEEECcccchHHHHHHHHHHHHc-CCCeEEEEecCCCcEE
Confidence 35678889 888999999998888775 9998888766 66443
No 26
>PRK05528 methionine sulfoxide reductase A; Provisional
Probab=55.08 E-value=49 Score=25.30 Aligned_cols=45 Identities=16% Similarity=0.201 Sum_probs=33.6
Q ss_pred hhHHHHHHHHHhcCCCceEEEecCCCcE--------------EEEEee---CCHHHHHHHHH
Q 045611 64 EGCERRVKKSVEGMKGVTQVEVDPKQSK--------------LTVIGY---VDPEKVLERVR 108 (181)
Q Consensus 64 ~~C~~kI~kaL~~l~GV~~v~vd~~~~~--------------v~V~~~---~~~~~l~~~I~ 108 (181)
.+|-+-++..+.+++||.++++-+.++. |.|+.+ ++-++|++..-
T Consensus 8 gGCFWg~E~~f~~l~GV~~t~vGYagG~~~~p~~~~tgH~E~V~V~yDp~~isy~~LL~~f~ 69 (156)
T PRK05528 8 GGCLWGVQAFFKTLPGVIHTEAGRANGRTSTLDGPYDGYAECVKTHFDPRMVSITDLMGYLF 69 (156)
T ss_pred cCCchhhHHHHhcCCCEEEEEEEcCCCCCCCCCCCCCCcEEEEEEEECCCcCCHHHHHHHHH
Confidence 6788888999999999999998765533 334433 67788887765
No 27
>PRK13014 methionine sulfoxide reductase A; Provisional
Probab=52.44 E-value=38 Score=26.73 Aligned_cols=52 Identities=19% Similarity=0.225 Sum_probs=37.5
Q ss_pred ceEEEEEEcCcChhHHHHHHHHHhcCCCceEEEecCCCcE-------------------EEEEee---CCHHHHHHHHH
Q 045611 52 LQTVEIKIKMDCEGCERRVKKSVEGMKGVTQVEVDPKQSK-------------------LTVIGY---VDPEKVLERVR 108 (181)
Q Consensus 52 ~~~v~l~Vgm~C~~C~~kI~kaL~~l~GV~~v~vd~~~~~-------------------v~V~~~---~~~~~l~~~I~ 108 (181)
++++.|. .+|-+-++..+.+++||.++++-+.++. |.|..+ ++.++|++..-
T Consensus 8 ~~~a~~a-----gGCFWg~E~~f~~l~GV~~t~vGYagG~~~nPtY~~Vcsg~tgH~E~V~V~yDp~~iSy~~LL~~Ff 81 (186)
T PRK13014 8 METATFA-----GGCFWGVEGVFQHVPGVVSVVSGYSGGHVDNPTYEQVCTGTTGHAEAVQITYDPKQVSYENLLQIFF 81 (186)
T ss_pred ccEEEEe-----cCCceeeHHHHccCCCEEEEEeeecCCCCCCCChhhhcCCCCCceEEEEEEECCCcCCHHHHHHHHH
Confidence 4555554 6788888888999999999999776654 444443 67788877665
No 28
>PRK00058 methionine sulfoxide reductase A; Provisional
Probab=51.61 E-value=54 Score=26.45 Aligned_cols=52 Identities=15% Similarity=0.174 Sum_probs=37.9
Q ss_pred ceEEEEEEcCcChhHHHHHHHHHhcCCCceEEEecCCCcE-------------------EEEEee---CCHHHHHHHHH
Q 045611 52 LQTVEIKIKMDCEGCERRVKKSVEGMKGVTQVEVDPKQSK-------------------LTVIGY---VDPEKVLERVR 108 (181)
Q Consensus 52 ~~~v~l~Vgm~C~~C~~kI~kaL~~l~GV~~v~vd~~~~~-------------------v~V~~~---~~~~~l~~~I~ 108 (181)
+.++.|. .+|-+-++..+.+++||.++++-+.++. |.|+.+ ++.++|++..-
T Consensus 45 ~~~a~fa-----gGCFWg~E~~F~~l~GV~~t~vGYagG~~~~PtY~~VcsG~tgH~EaV~V~YDp~~ISy~~LL~~Ff 118 (213)
T PRK00058 45 MEQAIFG-----MGCFWGAERLFWQLPGVYSTAVGYAGGYTPNPTYREVCSGRTGHAEVVRVVYDPAVISYEQLLQVFW 118 (213)
T ss_pred ccEEEEE-----ccCcchhHHHHhcCCCEEEEEeeecCCCCCCCChhhcccCCCCCeEEEEEEECCccCCHHHHHHHHH
Confidence 4555554 6788888899999999999999877442 445543 67788887765
No 29
>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=48.87 E-value=79 Score=21.10 Aligned_cols=43 Identities=19% Similarity=0.223 Sum_probs=30.7
Q ss_pred hHHHHHHHHHhcCCCceEEEecCCCcEEEEEe-eCCHHHHHHHHH
Q 045611 65 GCERRVKKSVEGMKGVTQVEVDPKQSKLTVIG-YVDPEKVLERVR 108 (181)
Q Consensus 65 ~C~~kI~kaL~~l~GV~~v~vd~~~~~v~V~~-~~~~~~l~~~I~ 108 (181)
.=...+..+|..++|++-...+.. +|+.|+- ..+..++.+.+.
T Consensus 15 ~~~~~v~~~l~~~~gvEVh~~~~~-GKiVVtiE~~~~~~~~~~~~ 58 (79)
T PF03927_consen 15 ERLEEVAEALAAIPGVEVHAVDED-GKIVVTIEAESSEEEVDLID 58 (79)
T ss_dssp CCHHHHHHHHCCSTTEEEEEEETT-TEEEEEEEESSHHHHHHHHH
T ss_pred hhHHHHHHHHHcCCCcEEEeeCCC-CeEEEEEEeCChHHHHHHHH
Confidence 345788999999999976666655 7776653 356677777666
No 30
>COG2177 FtsX Cell division protein [Cell division and chromosome partitioning]
Probab=43.76 E-value=2e+02 Score=24.37 Aligned_cols=48 Identities=27% Similarity=0.393 Sum_probs=35.4
Q ss_pred EEEEEEcCcChhHHHHHHHHHhcCCCceEEEecCCCcEEEEEeeCCHHHHHHHHHHhcCCc
Q 045611 54 TVEIKIKMDCEGCERRVKKSVEGMKGVTQVEVDPKQSKLTVIGYVDPEKVLERVRHRTGKK 114 (181)
Q Consensus 54 ~v~l~Vgm~C~~C~~kI~kaL~~l~GV~~v~vd~~~~~v~V~~~~~~~~l~~~I~~~~G~~ 114 (181)
.+.++.+.+ ..|...+++.+.+++||.+++.- +.++-.+.+++..|+.
T Consensus 62 ~vyL~~~~~-~~~~~~v~~~i~~~~gV~~v~~~------------sre~~l~~L~~~lg~~ 109 (297)
T COG2177 62 TVYLQIDAD-QDDAALVREKIEGIPGVKSVRFI------------SREEALKELQPWLGFG 109 (297)
T ss_pred EEEEecCCC-hHHHHHHHHHHhcCCCcceEEEe------------CHHHHHHHHHHHcCch
Confidence 444555555 99999999999999999987753 5666666666577764
No 31
>cd00291 SirA_YedF_YeeD SirA, YedF, and YeeD. Two-layered alpha/beta sandwich domain. SirA (also known as UvrY, and YhhP) belongs to a family of bacterial 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=43.15 E-value=82 Score=19.67 Aligned_cols=53 Identities=19% Similarity=0.191 Sum_probs=37.8
Q ss_pred EEE-cCcChhHHHHHHHHHhcCCCceEEEecCCCcEEEEEee--CCHHHHHHHHHHhcCCceEEcc
Q 045611 57 IKI-KMDCEGCERRVKKSVEGMKGVTQVEVDPKQSKLTVIGY--VDPEKVLERVRHRTGKKAEFWP 119 (181)
Q Consensus 57 l~V-gm~C~~C~~kI~kaL~~l~GV~~v~vd~~~~~v~V~~~--~~~~~l~~~I~~~~G~~a~~~~ 119 (181)
+.+ |+.|+.=.-++.++|.+++. .+.+.|..+ .....|.+.++ +.|++.....
T Consensus 2 lD~rg~~CP~Pl~~~~~~l~~l~~---------g~~l~v~~d~~~~~~~i~~~~~-~~g~~~~~~~ 57 (69)
T cd00291 2 LDLRGLPCPLPVLKTKKALEKLKS---------GEVLEVLLDDPGAVEDIPAWAK-ETGHEVLEVE 57 (69)
T ss_pred ccccCCcCCHHHHHHHHHHhcCCC---------CCEEEEEecCCcHHHHHHHHHH-HcCCEEEEEE
Confidence 456 88999999999999988643 233444433 45778888898 9999865543
No 32
>cd03422 YedF YedF is a bacterial SirA-like protein of unknown function. 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=42.93 E-value=89 Score=20.02 Aligned_cols=53 Identities=15% Similarity=0.105 Sum_probs=37.7
Q ss_pred EEE-cCcChhHHHHHHHHHhcCCCceEEEecCCCcEEEEEe--eCCHHHHHHHHHHhcCCceEEcc
Q 045611 57 IKI-KMDCEGCERRVKKSVEGMKGVTQVEVDPKQSKLTVIG--YVDPEKVLERVRHRTGKKAEFWP 119 (181)
Q Consensus 57 l~V-gm~C~~C~~kI~kaL~~l~GV~~v~vd~~~~~v~V~~--~~~~~~l~~~I~~~~G~~a~~~~ 119 (181)
+.+ |..|+.=.-+.+++|++++. .+.+.|.. ....+.|.+.++ +.|+++....
T Consensus 2 lD~rG~~CP~Pvi~~kkal~~l~~---------G~~l~V~~d~~~s~~ni~~~~~-~~g~~v~~~~ 57 (69)
T cd03422 2 LDLRGEPCPYPAIATLEALPSLKP---------GEILEVISDCPQSINNIPIDAR-NHGYKVLAIE 57 (69)
T ss_pred cccCCCcCCHHHHHHHHHHHcCCC---------CCEEEEEecCchHHHHHHHHHH-HcCCEEEEEE
Confidence 346 88999999999999998842 22334432 356677888888 9999886543
No 33
>cd03423 SirA SirA (also known as UvrY, and YhhP) belongs to a family of 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 thought 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=42.30 E-value=90 Score=19.92 Aligned_cols=53 Identities=15% Similarity=0.122 Sum_probs=37.9
Q ss_pred EEE-cCcChhHHHHHHHHHhcCCCceEEEecCCCcEEEEEe--eCCHHHHHHHHHHhcCCceEEcc
Q 045611 57 IKI-KMDCEGCERRVKKSVEGMKGVTQVEVDPKQSKLTVIG--YVDPEKVLERVRHRTGKKAEFWP 119 (181)
Q Consensus 57 l~V-gm~C~~C~~kI~kaL~~l~GV~~v~vd~~~~~v~V~~--~~~~~~l~~~I~~~~G~~a~~~~ 119 (181)
+.+ |..|+.=.-+.+++|.+++- .+.+.|.. ....+.|...++ +.|+++....
T Consensus 2 lD~~G~~CP~P~i~~k~~l~~l~~---------G~~l~V~~dd~~s~~di~~~~~-~~g~~~~~~~ 57 (69)
T cd03423 2 LDTRGLRCPEPVMMLHKKVRKMKP---------GDTLLVLATDPSTTRDIPKFCT-FLGHELLAQE 57 (69)
T ss_pred ccccCCcCCHHHHHHHHHHHcCCC---------CCEEEEEeCCCchHHHHHHHHH-HcCCEEEEEE
Confidence 456 88999999999999998742 22333332 356778888888 9999876544
No 34
>PF13732 DUF4162: Domain of unknown function (DUF4162)
Probab=41.59 E-value=98 Score=20.12 Aligned_cols=43 Identities=23% Similarity=0.335 Sum_probs=30.6
Q ss_pred HhcCCCceEEEecCCCcEEE--EEeeCCHHHHHHHHHHhcCCceEEcc
Q 045611 74 VEGMKGVTQVEVDPKQSKLT--VIGYVDPEKVLERVRHRTGKKAEFWP 119 (181)
Q Consensus 74 L~~l~GV~~v~vd~~~~~v~--V~~~~~~~~l~~~I~~~~G~~a~~~~ 119 (181)
|..++||..+..+- .+.+. +....+..+|++.+. +.|. +.-..
T Consensus 26 l~~~~~v~~v~~~~-~~~~~i~l~~~~~~~~ll~~l~-~~g~-I~~f~ 70 (84)
T PF13732_consen 26 LEELPGVESVEQDG-DGKLRIKLEDEETANELLQELI-EKGI-IRSFE 70 (84)
T ss_pred HhhCCCeEEEEEeC-CcEEEEEECCcccHHHHHHHHH-hCCC-eeEEE
Confidence 77889999988643 44344 445567889999998 8887 65444
No 35
>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=39.73 E-value=37 Score=26.42 Aligned_cols=34 Identities=29% Similarity=0.564 Sum_probs=22.9
Q ss_pred EEEEEEcCcChhHH------HHHHHHHhcCCCceEEEecC
Q 045611 54 TVEIKIKMDCEGCE------RRVKKSVEGMKGVTQVEVDP 87 (181)
Q Consensus 54 ~v~l~Vgm~C~~C~------~kI~kaL~~l~GV~~v~vd~ 87 (181)
++.+.+.+..++|. ..|+.+|..++||.+++|++
T Consensus 114 ~V~I~mtLt~p~c~~~~~L~~dV~~aL~~l~gV~~V~V~l 153 (174)
T TIGR03406 114 RVDIEMTLTAPGCGMGPVLVEDVEDKVLAVPNVDEVEVEL 153 (174)
T ss_pred EEEEEEEeCCCCCcHHHHHHHHHHHHHHhCCCceeEEEEE
Confidence 34455544444443 45889999999999887754
No 36
>COG2151 PaaD Predicted metal-sulfur cluster biosynthetic enzyme [General function prediction only]
Probab=37.24 E-value=54 Score=23.65 Aligned_cols=32 Identities=34% Similarity=0.739 Sum_probs=22.9
Q ss_pred EEEEEcCcChhH------HHHHHHHHhcCCCceEEEec
Q 045611 55 VEIKIKMDCEGC------ERRVKKSVEGMKGVTQVEVD 86 (181)
Q Consensus 55 v~l~Vgm~C~~C------~~kI~kaL~~l~GV~~v~vd 86 (181)
+.+.+.++-.+| ...++.++..++||.+++|+
T Consensus 51 v~v~mtlT~~gCP~~~~i~~~v~~al~~~~~v~~v~V~ 88 (111)
T COG2151 51 VKVKMTLTSPGCPLAEVIADQVEAALEEIPGVEDVEVE 88 (111)
T ss_pred EEEEEecCCCCCCccHHHHHHHHHHHHhcCCcceEEEE
Confidence 333444455555 67789999999999888775
No 37
>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=37.15 E-value=1e+02 Score=19.27 Aligned_cols=33 Identities=21% Similarity=0.304 Sum_probs=24.1
Q ss_pred eEEEEEEcCcChh-HHHHHHHHHhcCCCceEEEe
Q 045611 53 QTVEIKIKMDCEG-CERRVKKSVEGMKGVTQVEV 85 (181)
Q Consensus 53 ~~v~l~Vgm~C~~-C~~kI~kaL~~l~GV~~v~v 85 (181)
..+.|.+...-.. --..+-+.|++++||.+|++
T Consensus 41 ~~i~~~v~v~~~~~~l~~l~~~L~~i~~V~~v~~ 74 (76)
T cd04888 41 ANVTISIDTSTMNGDIDELLEELREIDGVEKVEL 74 (76)
T ss_pred EEEEEEEEcCchHHHHHHHHHHHhcCCCeEEEEE
Confidence 4455555444444 77889999999999998875
No 38
>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=36.83 E-value=1.4e+02 Score=22.59 Aligned_cols=60 Identities=15% Similarity=0.192 Sum_probs=41.1
Q ss_pred ChhHHHHHHHHHhcCCCceEEEecCCCcEEEEEee-----C-CHHHHHHHHHHhcCCceEEccCCC
Q 045611 63 CEGCERRVKKSVEGMKGVTQVEVDPKQSKLTVIGY-----V-DPEKVLERVRHRTGKKAEFWPYVP 122 (181)
Q Consensus 63 C~~C~~kI~kaL~~l~GV~~v~vd~~~~~v~V~~~-----~-~~~~l~~~I~~~~G~~a~~~~~~~ 122 (181)
-+.-...|++.+-.-.||.++..|..++.|.|... + -....+..|.+++|....++...|
T Consensus 51 ~e~A~~~I~~ivP~ea~i~di~Fd~~tGEV~IeaeKPG~ViGk~g~~~reI~~~tgW~p~vvRtpP 116 (145)
T cd02410 51 PEEAIKIILEIVPEEAGITDIYFDDDTGEVIIEAEKPGLVIGKGGSTLREITRETGWAPKVVRTPP 116 (145)
T ss_pred HHHHHHHHHHhCCCccCceeeEecCCCcEEEEEEcCCeEEEecCchhHHHHHHHhCCeeEEEecCC
Confidence 34455566666666679999999999999998742 1 223444555449998888776433
No 39
>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=34.64 E-value=1.2e+02 Score=23.02 Aligned_cols=33 Identities=18% Similarity=0.209 Sum_probs=27.9
Q ss_pred ChhHHHHHHHHHhcCCCceEEEecCCCcEEEEE
Q 045611 63 CEGCERRVKKSVEGMKGVTQVEVDPKQSKLTVI 95 (181)
Q Consensus 63 C~~C~~kI~kaL~~l~GV~~v~vd~~~~~v~V~ 95 (181)
-..=+.+|.+.+.+++||.++.+-.....+.|-
T Consensus 73 ~~~~a~~i~~~v~~~~~V~~A~vvv~~~~a~Va 105 (177)
T PF09580_consen 73 RQQLADRIANRVKKVPGVEDATVVVTDDNAYVA 105 (177)
T ss_pred HHHHHHHHHHHHhcCCCceEEEEEEECCEEEEE
Confidence 356678999999999999999988888887765
No 40
>PRK00299 sulfur transfer protein SirA; Reviewed
Probab=34.27 E-value=1.4e+02 Score=19.81 Aligned_cols=55 Identities=15% Similarity=0.135 Sum_probs=39.3
Q ss_pred EEEEEE-cCcChhHHHHHHHHHhcCCCceEEEecCCCcEEEEEe--eCCHHHHHHHHHHhcCCceEEc
Q 045611 54 TVEIKI-KMDCEGCERRVKKSVEGMKGVTQVEVDPKQSKLTVIG--YVDPEKVLERVRHRTGKKAEFW 118 (181)
Q Consensus 54 ~v~l~V-gm~C~~C~~kI~kaL~~l~GV~~v~vd~~~~~v~V~~--~~~~~~l~~~I~~~~G~~a~~~ 118 (181)
..++.+ |+.|+.=.-+++++|++++. .+.+.|.. ....+.|....+ +.|++....
T Consensus 9 ~~~lD~~Gl~CP~Pll~~kk~l~~l~~---------G~~l~V~~dd~~~~~di~~~~~-~~G~~~~~~ 66 (81)
T PRK00299 9 DHTLDALGLRCPEPVMMVRKTVRNMQP---------GETLLIIADDPATTRDIPSFCR-FMDHELLAQ 66 (81)
T ss_pred CeEEecCCCCCCHHHHHHHHHHHcCCC---------CCEEEEEeCCccHHHHHHHHHH-HcCCEEEEE
Confidence 346888 99999999999999998842 22333432 245667777777 999887543
No 41
>PF08821 CGGC: CGGC domain; InterPro: IPR014925 Proteins in this entry are a quite highly conserved sequence of CGGC in its central region. The region has many conserved cysteines and histidines suggestive of a zinc binding function.
Probab=32.91 E-value=1e+02 Score=21.96 Aligned_cols=59 Identities=12% Similarity=0.374 Sum_probs=30.0
Q ss_pred EEE-cC-cChhHH-HHHHHHHhcC--CCceEEEecCCCcEEEEE--ee-CCHHHHHHHHHHhcCCceEE
Q 045611 57 IKI-KM-DCEGCE-RRVKKSVEGM--KGVTQVEVDPKQSKLTVI--GY-VDPEKVLERVRHRTGKKAEF 117 (181)
Q Consensus 57 l~V-gm-~C~~C~-~kI~kaL~~l--~GV~~v~vd~~~~~v~V~--~~-~~~~~l~~~I~~~~G~~a~~ 117 (181)
+++ || +|.+|- .++...++.+ .|+..+-+. +-...=. +. -..+++.+.|+++.|.++..
T Consensus 38 ~elvgf~~CgGCpg~~~~~~~~~l~~~~~d~IHls--sC~~~~~~~~~CP~~~~~~~~I~~~~gi~VV~ 104 (107)
T PF08821_consen 38 VELVGFFTCGGCPGRKLVRRIKKLKKNGADVIHLS--SCMVKGNPHGPCPHIDEIKKIIEEKFGIEVVE 104 (107)
T ss_pred eEEEEEeeCCCCChhHHHHHHHHHHHCCCCEEEEc--CCEecCCCCCCCCCHHHHHHHHHHHhCCCEee
Confidence 556 76 899883 2232222222 455533322 1111100 01 35788999999455876543
No 42
>PRK05550 bifunctional methionine sulfoxide reductase B/A protein; Provisional
Probab=30.87 E-value=1.5e+02 Score=24.96 Aligned_cols=45 Identities=22% Similarity=0.195 Sum_probs=33.1
Q ss_pred hhHHHHHHHHHhcCCCceEEEecCCCcE-------------------EEEEee---CCHHHHHHHHH
Q 045611 64 EGCERRVKKSVEGMKGVTQVEVDPKQSK-------------------LTVIGY---VDPEKVLERVR 108 (181)
Q Consensus 64 ~~C~~kI~kaL~~l~GV~~v~vd~~~~~-------------------v~V~~~---~~~~~l~~~I~ 108 (181)
.+|-+.++..+.+++||.++++-+.++. |.|+.+ ++.++|++..-
T Consensus 134 gGCFWg~E~~F~~~~GV~~t~vGYagG~~~nPtY~~VcsG~tgH~EaV~V~yDp~~isy~~LL~~F~ 200 (283)
T PRK05550 134 GGCFWGVEYYFKKLPGVLSVESGYTGGDTKNPTYEQVCSGTTGHAEAVRVEFDPAKISYETLLKVFF 200 (283)
T ss_pred cCCchhhhhhHhhCcCEEEEEEeeCCCCCCCCChhhcccCCCCCeEEEEEEECCccCCHHHHHHHHH
Confidence 6788888899999999999998765543 344433 66777777665
No 43
>PF11491 DUF3213: Protein of unknown function (DUF3213) ; InterPro: IPR021583 The backbone structure of this family of proteins has been determined however the function remains unknown. The protein has an alpha and beta structure with a ferredoxin-like fold []. ; PDB: 2F40_A.
Probab=30.56 E-value=81 Score=21.66 Aligned_cols=49 Identities=14% Similarity=0.024 Sum_probs=26.6
Q ss_pred HHHHHHHHHhcCCCceEEEecCCCcEEEEEee---CCHHHHHHHHHHhcCCce
Q 045611 66 CERRVKKSVEGMKGVTQVEVDPKQSKLTVIGY---VDPEKVLERVRHRTGKKA 115 (181)
Q Consensus 66 C~~kI~kaL~~l~GV~~v~vd~~~~~v~V~~~---~~~~~l~~~I~~~~G~~a 115 (181)
-+..++-.|.+.++|-++-+|--.....|..+ ++.++|++.++ +.+..+
T Consensus 12 eA~~~QYeLsk~~~vyRvFiNgYar~g~VifDe~kl~~e~lL~~le-~~kpEV 63 (88)
T PF11491_consen 12 EAMVKQYELSKNEAVYRVFINGYARNGFVIFDESKLSKEELLEMLE-EFKPEV 63 (88)
T ss_dssp TTHHHHHTTTTTTTB------TTSS--EEE--B-S-SHHHH---HH-HTTT-S
T ss_pred HHHHHHHHhhcccceeeeeecccccceEEEECcccCCHHHHHHHHH-hcChhh
Confidence 34567778999999999999987777666643 78999999999 877654
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=29.87 E-value=56 Score=22.35 Aligned_cols=36 Identities=19% Similarity=0.385 Sum_probs=23.1
Q ss_pred eEEEEEE-cCcChhH---HHHHHHHHhcCCCceEEEecCC
Q 045611 53 QTVEIKI-KMDCEGC---ERRVKKSVEGMKGVTQVEVDPK 88 (181)
Q Consensus 53 ~~v~l~V-gm~C~~C---~~kI~kaL~~l~GV~~v~vd~~ 88 (181)
-.+.+.+ .-.|... ...++.+|..++|+.++++++.
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 3344555 3444433 3457888999999998888654
No 45
>PRK06418 transcription elongation factor NusA-like protein; Validated
Probab=28.75 E-value=2.8e+02 Score=21.47 Aligned_cols=69 Identities=17% Similarity=0.273 Sum_probs=40.1
Q ss_pred EEEEEEcCcChhHHHHHH------------HHHhcC------CCceEEEecCCCcEEEE-E--ee---C-CHHHHHHHHH
Q 045611 54 TVEIKIKMDCEGCERRVK------------KSVEGM------KGVTQVEVDPKQSKLTV-I--GY---V-DPEKVLERVR 108 (181)
Q Consensus 54 ~v~l~Vgm~C~~C~~kI~------------kaL~~l------~GV~~v~vd~~~~~v~V-~--~~---~-~~~~l~~~I~ 108 (181)
.+=++-|+-|+.|..+++ ++|-++ .++.-.+.-..++++.+ . ++ + ..-+.+++++
T Consensus 7 ~~c~kt~ilC~~c~~~~~~G~v~~~dv~i~~~l~~l~~~~~l~~~~~~k~~~~ddrvIfvV~~gdg~aIGk~G~~ik~l~ 86 (166)
T PRK06418 7 EVCVKTGLLCPRCQSLLDSGEVTELDVEVSKVLLKLEEDKELKDVEYKKAYEVDDLVILLVTSGPRIPIGKGGKIAKALS 86 (166)
T ss_pred eEEeccCccChhHHhHhhcCceEEeehHHHHHHHHhhccccccCceEEEEEEeCCEEEEEEeCCCcccccccchHHHHHH
Confidence 333444899999999875 445554 23332222222455543 2 22 1 1235677887
Q ss_pred HhcCCceEEccCCC
Q 045611 109 HRTGKKAEFWPYVP 122 (181)
Q Consensus 109 ~~~G~~a~~~~~~~ 122 (181)
+..|++++++.+..
T Consensus 87 ~~lgk~VevVE~s~ 100 (166)
T PRK06418 87 RKLGKKVRVVEKTN 100 (166)
T ss_pred HHhCCcEEEEEcCC
Confidence 78999999998643
No 46
>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=28.11 E-value=39 Score=20.91 Aligned_cols=29 Identities=17% Similarity=0.300 Sum_probs=13.4
Q ss_pred HHHHHHhcC---CCceEEEecCCCcEEEEEeeC
Q 045611 69 RVKKSVEGM---KGVTQVEVDPKQSKLTVIGYV 98 (181)
Q Consensus 69 kI~kaL~~l---~GV~~v~vd~~~~~v~V~~~~ 98 (181)
+|+.+|... ++- .+.+...++.+.+.|.+
T Consensus 3 ~v~~~L~~~~~~~~~-~i~v~v~~g~v~L~G~v 34 (64)
T PF04972_consen 3 KVRAALRADPWLPDS-NISVSVENGVVTLSGEV 34 (64)
T ss_dssp ----------CTT-T-TEEEEEECTEEEEEEEE
T ss_pred ccccccccccccCCC-eEEEEEECCEEEEEeeC
Confidence 455555553 333 56777778888888765
No 47
>PF13291 ACT_4: ACT domain; PDB: 2KO1_B 3IBW_A.
Probab=28.05 E-value=1.6e+02 Score=18.88 Aligned_cols=35 Identities=11% Similarity=0.235 Sum_probs=25.7
Q ss_pred CCceEEEEEEcCcChhHHHHHHHHHhcCCCceEEE
Q 045611 50 KQLQTVEIKIKMDCEGCERRVKKSVEGMKGVTQVE 84 (181)
Q Consensus 50 ~~~~~v~l~Vgm~C~~C~~kI~kaL~~l~GV~~v~ 84 (181)
.....+.|.+...-..--..+-+.|++++||.+|+
T Consensus 45 ~~~~~~~l~v~V~d~~~L~~ii~~L~~i~~V~~V~ 79 (80)
T PF13291_consen 45 DGTARITLTVEVKDLEHLNQIIRKLRQIPGVISVE 79 (80)
T ss_dssp TTEEEEEEEEEESSHHHHHHHHHHHCTSTTEEEEE
T ss_pred CCEEEEEEEEEECCHHHHHHHHHHHHCCCCeeEEE
Confidence 34455666666666677778888899999998874
No 48
>PRK09577 multidrug efflux protein; Reviewed
Probab=27.35 E-value=1.8e+02 Score=28.94 Aligned_cols=45 Identities=13% Similarity=0.193 Sum_probs=34.8
Q ss_pred HHHHHHHHhcCCCceEEEecCCCcEEEEEe--------eCCHHHHHHHHHHhcC
Q 045611 67 ERRVKKSVEGMKGVTQVEVDPKQSKLTVIG--------YVDPEKVLERVRHRTG 112 (181)
Q Consensus 67 ~~kI~kaL~~l~GV~~v~vd~~~~~v~V~~--------~~~~~~l~~~I~~~~G 112 (181)
.+.++..|++++||.+|+++-...++.|.- .++..++.++|+ ..+
T Consensus 158 ~~~l~~~L~~v~GV~~V~~~G~e~~v~V~vD~~kl~~~Gls~~~V~~~l~-~~n 210 (1032)
T PRK09577 158 SANVLQALRRVEGVGKVQFWGAEYAMRIWPDPVKLAALGLTASDIASAVR-AHN 210 (1032)
T ss_pred HHHHHHHHhcCCCcEEEEecCCceEEEEEeCHHHHHHcCCCHHHHHHHHH-HhC
Confidence 467899999999999999986555565541 278888999998 544
No 49
>PRK10555 aminoglycoside/multidrug efflux system; Provisional
Probab=26.39 E-value=1.7e+02 Score=29.03 Aligned_cols=42 Identities=10% Similarity=0.241 Sum_probs=33.1
Q ss_pred HHHHHHHHhcCCCceEEEecCCCcEEEEEe--------eCCHHHHHHHHH
Q 045611 67 ERRVKKSVEGMKGVTQVEVDPKQSKLTVIG--------YVDPEKVLERVR 108 (181)
Q Consensus 67 ~~kI~kaL~~l~GV~~v~vd~~~~~v~V~~--------~~~~~~l~~~I~ 108 (181)
++.++..|++++||.+|++.-....+.|.- .++..++.++|+
T Consensus 159 ~~~l~~~L~~v~GV~~V~~~G~~~ei~V~vD~~kl~~~gls~~~v~~al~ 208 (1037)
T PRK10555 159 ASNIQDPLSRVNGVGDIDAYGSQYSMRIWLDPAKLNSFQMTTKDVTDAIE 208 (1037)
T ss_pred HHHHHHHhhcCCCeEEEEEcCCceEEEEEECHHHHHHcCCCHHHHHHHHH
Confidence 467889999999999999986555566652 278888889997
No 50
>TIGR03527 selenium_YedF selenium metabolism protein YedF. Members of this protein family are about 200 amino acids in size, and include the uncharacterized YedF protein of Escherichia coli. This family shares an N-terminal domain, modeled by pfam01206, with the sulfurtransferase TusA (also called SirA). The C-terminal domain includes a typical redox-active disulfide motif, CGXC. This protein family found only among those genomes that also carry the selenium donor protein SelD, and its connection to selenium metabolism is indicated by the method of partial phylogenetic profiling vs. SelD. Its gene typically is found next to selD. Members of this family are found even when selenocysteine and selenouridine biosynthesis pathways are, except for SelD, completely absent, as in Enterococcus faecalis. Its role in selenium metabolism is unclear, but may include either detoxification or a role in labile selenoprotein biosynthesis.
Probab=25.71 E-value=1.9e+02 Score=22.83 Aligned_cols=50 Identities=22% Similarity=0.215 Sum_probs=36.3
Q ss_pred cCcChhHHHHHHHHHhcCCCceEEEecCCCcEEEEE--eeCCHHHHHHHHHHhcCCceEEcc
Q 045611 60 KMDCEGCERRVKKSVEGMKGVTQVEVDPKQSKLTVI--GYVDPEKVLERVRHRTGKKAEFWP 119 (181)
Q Consensus 60 gm~C~~C~~kI~kaL~~l~GV~~v~vd~~~~~v~V~--~~~~~~~l~~~I~~~~G~~a~~~~ 119 (181)
|+.|+.=.-+.+++|.+++. .+.++|. .....+.|.+.++ +.|+++....
T Consensus 5 Gl~CP~Pvi~tKkal~~l~~---------g~~L~VlvD~~~a~~nV~~~~~-~~G~~v~~~e 56 (194)
T TIGR03527 5 GLACPQPVILTKKALDELGE---------EGVLTVIVDNEAAKENVSKFAT-SLGYEVEVEE 56 (194)
T ss_pred CCCCCHHHHHHHHHHHcCCC---------CCEEEEEECCccHHHHHHHHHH-HcCCEEEEEE
Confidence 88999999999999998852 1233333 2355677888888 9999887543
No 51
>PHA01634 hypothetical protein
Probab=25.69 E-value=23 Score=26.61 Aligned_cols=16 Identities=50% Similarity=1.159 Sum_probs=12.8
Q ss_pred EEE-cCcChhHHHHHHH
Q 045611 57 IKI-KMDCEGCERRVKK 72 (181)
Q Consensus 57 l~V-gm~C~~C~~kI~k 72 (181)
+.| -|+|++|++++.-
T Consensus 93 ~Di~~iDCeGCE~~l~v 109 (156)
T PHA01634 93 VDIFVMDCEGCEEKLNV 109 (156)
T ss_pred cceEEEEccchHHhcCH
Confidence 456 7999999998853
No 52
>COG3062 NapD Uncharacterized protein involved in formation of periplasmic nitrate reductase [Inorganic ion transport and metabolism]
Probab=25.59 E-value=2.4e+02 Score=19.74 Aligned_cols=44 Identities=25% Similarity=0.306 Sum_probs=31.2
Q ss_pred hhHHHHHHHHHhcCCCceEEEecCCCcEEEEE-eeCCHHHHHHHHH
Q 045611 64 EGCERRVKKSVEGMKGVTQVEVDPKQSKLTVI-GYVDPEKVLERVR 108 (181)
Q Consensus 64 ~~C~~kI~kaL~~l~GV~~v~vd~~~~~v~V~-~~~~~~~l~~~I~ 108 (181)
+.--..|+++|..++|++--.-|.+ +|+.|. -..+.+.+.+.++
T Consensus 17 pe~l~av~~~L~~ip~~EV~~~d~~-GKlVVVie~~~~~~l~~tie 61 (94)
T COG3062 17 PERLSAVKTALLAIPGCEVYGEDAE-GKLVVVIEAEDSETLLETIE 61 (94)
T ss_pred HHHHHHHHHHHhcCCCcEeeccCCC-ceEEEEEEcCchHHHHHHHH
Confidence 4445788999999999976666665 666554 3356777777776
No 53
>COG0425 SirA Predicted redox protein, regulator of disulfide bond formation [Posttranslational modification, protein turnover, chaperones]
Probab=24.83 E-value=2.2e+02 Score=18.93 Aligned_cols=49 Identities=20% Similarity=0.329 Sum_probs=34.9
Q ss_pred EEEEEE-cCcChhHHHHHHHHHhcCCCceEEEecCCCcEEEEEee--CCHHHHHHHHHHhcC
Q 045611 54 TVEIKI-KMDCEGCERRVKKSVEGMKGVTQVEVDPKQSKLTVIGY--VDPEKVLERVRHRTG 112 (181)
Q Consensus 54 ~v~l~V-gm~C~~C~~kI~kaL~~l~GV~~v~vd~~~~~v~V~~~--~~~~~l~~~I~~~~G 112 (181)
..+|.+ |+.|+.=.-.++++|.+++- ++.+.|..+ ...+.|...++ +.|
T Consensus 5 ~~~LD~rG~~CP~Pv~~~kk~l~~m~~---------Ge~LeV~~ddp~~~~dIp~~~~-~~~ 56 (78)
T COG0425 5 DKVLDLRGLRCPGPVVETKKALAKLKP---------GEILEVIADDPAAKEDIPAWAK-KEG 56 (78)
T ss_pred ceEEeccCCcCCccHHHHHHHHHcCCC---------CCEEEEEecCcchHHHHHHHHH-HcC
Confidence 457889 99999999999999998842 334455433 44566777776 555
No 54
>PF04159 NB: NB glycoprotein; InterPro: IPR007288 The NB glycoprotein is found in Influenza type B virus. Its function is unknown.; GO: 0016021 integral to membrane
Probab=23.04 E-value=50 Score=22.72 Aligned_cols=46 Identities=20% Similarity=0.437 Sum_probs=27.1
Q ss_pred hHHHHHHHHhHHHHHhhcccccccchhhhhcccCCceEEEEEEcCcChhHHHHHHH
Q 045611 17 YSLFAVIMGFLEYVSELCDFESRWHSHRKLKKRKQLQTVEIKIKMDCEGCERRVKK 72 (181)
Q Consensus 17 ~~~~~~~m~~~~~~s~~~~~~~~~~~~~~~~~~~~~~~v~l~Vgm~C~~C~~kI~k 72 (181)
-.-|-+++-.|.|+..++.. ++.-....+.+.-.+.|.+|+.-..+
T Consensus 26 cvS~~vILtiFGyIaKI~~n----------rnncTnN~Igl~krIkcsgcEpFcnk 71 (100)
T PF04159_consen 26 CVSFIVILTIFGYIAKIFIN----------RNNCTNNVIGLCKRIKCSGCEPFCNK 71 (100)
T ss_pred ehhhHHHHHHHHHHhheecc----------ccccccchhheeeccccCCCcccccc
Confidence 33455677899999998862 11111122233336779999865544
No 55
>PF10399 UCR_Fe-S_N: Ubiquitinol-cytochrome C reductase Fe-S subunit TAT signal; InterPro: IPR019470 This entry represents the TAT-signal region found in the iron-sulphur subunit of Ubiquinol-cytochrome C reductase (also known as the cytochrome bc1 complex). This enzymex is an oligomeric membrane protein complex that is a component of respiratory and photosynthetic electron transfer chains. It couples the transfer of electrons from ubiquinol to cytochrome c with the generation of a protein gradient across the membrane []. This entry is associated with IPR017941 from INTERPRO, IPR004192 from INTERPRO and IPR015248 from INTERPRO. ; GO: 0008121 ubiquinol-cytochrome-c reductase activity, 0055114 oxidation-reduction process; PDB: 1ZRT_R 2QJY_R 2FYN_L 2QJK_O 2QJP_I 2YIU_F.
Probab=22.42 E-value=1.2e+02 Score=17.77 Aligned_cols=24 Identities=21% Similarity=0.318 Sum_probs=15.8
Q ss_pred hhhhhhhhH-HHHHHHHhHHHHHhh
Q 045611 10 FLRITSGYS-LFAVIMGFLEYVSEL 33 (181)
Q Consensus 10 ~l~~~~~~~-~~~~~m~~~~~~s~~ 33 (181)
||.++++.. ...+...+.|+++.+
T Consensus 14 FL~~at~~~gavG~~~~a~Pfv~s~ 38 (41)
T PF10399_consen 14 FLTIATSAVGAVGAAAAAWPFVSSM 38 (41)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHTT
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhcc
Confidence 776666555 555666677887765
No 56
>KOG3411 consensus 40S ribosomal protein S19 [Translation, ribosomal structure and biogenesis]
Probab=22.38 E-value=84 Score=23.50 Aligned_cols=42 Identities=31% Similarity=0.487 Sum_probs=27.5
Q ss_pred hhHHHHHHHHHhcCCCceEEEecCCCcE-EEEEeeCCHHHHHHHHH
Q 045611 64 EGCERRVKKSVEGMKGVTQVEVDPKQSK-LTVIGYVDPEKVLERVR 108 (181)
Q Consensus 64 ~~C~~kI~kaL~~l~GV~~v~vd~~~~~-v~V~~~~~~~~l~~~I~ 108 (181)
++|.+++-++|++ +.-|+.+...++ ++-.|.-+.++|...|.
T Consensus 97 ~~i~rkvlQ~Le~---~~~ve~hp~gGR~lt~~GqrdldrIa~~i~ 139 (143)
T KOG3411|consen 97 GGIARKVLQALEK---MGIVEKHPKGGRRLTEQGQRDLDRIAGQIR 139 (143)
T ss_pred cHHHHHHHHHHHh---CCceeeCCCCcceeCcccchhHHHHHHHHH
Confidence 5666666555554 555666666654 44457788889888886
No 57
>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=22.32 E-value=2.2e+02 Score=19.28 Aligned_cols=39 Identities=21% Similarity=0.252 Sum_probs=27.5
Q ss_pred HHHHHHHhcCCCceEEEecCCCcEEEEE--eeCCHHHHHHHHH
Q 045611 68 RRVKKSVEGMKGVTQVEVDPKQSKLTVI--GYVDPEKVLERVR 108 (181)
Q Consensus 68 ~kI~kaL~~l~GV~~v~vd~~~~~v~V~--~~~~~~~l~~~I~ 108 (181)
.-+-+.|-.++||.+|-+. ..=++|+ .+.+++.|...|.
T Consensus 37 spLA~~Lf~i~gV~~Vf~~--~dfItVtK~~~~~W~~l~~~I~ 77 (87)
T PF08712_consen 37 SPLAQALFAIPGVKSVFIG--DDFITVTKNPDADWEDLKPEIR 77 (87)
T ss_dssp -HHHHHHHTSTTEEEEEEE--TTEEEEEE-TTS-HHHHHHHHH
T ss_pred CHHHHHhcCCCCEeEEEEE--CCEEEEeeCCCCCHHHHHHHHH
Confidence 4445556699999998775 5567776 3489999988886
No 58
>PF13192 Thioredoxin_3: Thioredoxin domain; PDB: 1ZYP_B 1ZYN_A 1HYU_A 1ILO_A 1J08_F 2YWM_B 2AYT_B 2HLS_B 1A8L_A 2K8S_B ....
Probab=22.27 E-value=1.2e+02 Score=19.55 Aligned_cols=10 Identities=20% Similarity=0.574 Sum_probs=8.0
Q ss_pred EcCcChhHHH
Q 045611 59 IKMDCEGCER 68 (181)
Q Consensus 59 Vgm~C~~C~~ 68 (181)
++..|+.|..
T Consensus 6 ~~~~C~~C~~ 15 (76)
T PF13192_consen 6 FSPGCPYCPE 15 (76)
T ss_dssp ECSSCTTHHH
T ss_pred eCCCCCCcHH
Confidence 4778999984
No 59
>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=21.72 E-value=2.4e+02 Score=18.30 Aligned_cols=55 Identities=25% Similarity=0.413 Sum_probs=38.0
Q ss_pred ChhHHHHHHHHHhcC---CCceEEEecCCCcEEEEE--eeCCHHHHHHHHHHhcCCceEE
Q 045611 63 CEGCERRVKKSVEGM---KGVTQVEVDPKQSKLTVI--GYVDPEKVLERVRHRTGKKAEF 117 (181)
Q Consensus 63 C~~C~~kI~kaL~~l---~GV~~v~vd~~~~~v~V~--~~~~~~~l~~~I~~~~G~~a~~ 117 (181)
-..-..++..+|.++ +--..+..|..++...|. |.+..+-+++.|+++.|..++.
T Consensus 14 ~~~d~~kl~~aL~~l~~eDP~l~~~~d~et~e~~l~g~Gelhlev~~~~L~~~~~v~v~~ 73 (75)
T PF14492_consen 14 NKEDEPKLSEALQKLSEEDPSLRVERDEETGELILSGMGELHLEVLLERLKRRFGVEVEF 73 (75)
T ss_dssp SHHHHHHHHHHHHHHHHH-TTSEEEEETTTSEEEEEESSHHHHHHHHHHHHHTTCEBEEE
T ss_pred CHhHHHHHHHHHHHHHhcCCeEEEEEcchhceEEEEECCHHHHHHHHHHHHHHHCCeeEe
Confidence 355566776776666 223378888889998887 4577888899998566655543
No 60
>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=21.65 E-value=99 Score=21.31 Aligned_cols=23 Identities=39% Similarity=0.658 Sum_probs=19.7
Q ss_pred hhHHHHHHHHHhcCCCceEEEec
Q 045611 64 EGCERRVKKSVEGMKGVTQVEVD 86 (181)
Q Consensus 64 ~~C~~kI~kaL~~l~GV~~v~vd 86 (181)
.+-...++.++++++||+++++-
T Consensus 61 ~g~td~lee~i~~ve~V~svev~ 83 (88)
T TIGR00489 61 EGGTEAAEESLSGIEGVESVEVT 83 (88)
T ss_pred CcChHHHHHHHhcCCCccEEEEE
Confidence 35568999999999999999874
No 61
>COG2761 FrnE Predicted dithiol-disulfide isomerase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]
Probab=21.42 E-value=2e+02 Score=23.39 Aligned_cols=38 Identities=24% Similarity=0.460 Sum_probs=28.0
Q ss_pred eEEEEEE--cCcChhH---HHHHHHHHhcCCCceEEEecCCCc
Q 045611 53 QTVEIKI--KMDCEGC---ERRVKKSVEGMKGVTQVEVDPKQS 90 (181)
Q Consensus 53 ~~v~l~V--gm~C~~C---~~kI~kaL~~l~GV~~v~vd~~~~ 90 (181)
.++++.| ..-|+-| .+++++++...++-..+++.....
T Consensus 4 ~~i~I~v~sD~vCPwC~ig~~rL~ka~~~~~~~~~v~i~w~pf 46 (225)
T COG2761 4 MKIEIDVFSDVVCPWCYIGKRRLEKALAEYPQEVRVEIRWRPF 46 (225)
T ss_pred ceEEEEEEeCCcCchhhcCHHHHHHHHHhcCcceeEEEEeccc
Confidence 4556666 8999999 688999999988655666654433
No 62
>COG4004 Uncharacterized protein conserved in archaea [Function unknown]
Probab=21.12 E-value=1.5e+02 Score=20.77 Aligned_cols=23 Identities=30% Similarity=0.577 Sum_probs=19.9
Q ss_pred HhcCCCceEEEecCCCcEEEEEe
Q 045611 74 VEGMKGVTQVEVDPKQSKLTVIG 96 (181)
Q Consensus 74 L~~l~GV~~v~vd~~~~~v~V~~ 96 (181)
+...+|++.+++..+++++.|.+
T Consensus 36 vas~pgis~ieik~E~kkL~v~t 58 (96)
T COG4004 36 VASSPGISRIEIKPENKKLLVNT 58 (96)
T ss_pred EEecCCceEEEEecccceEEEec
Confidence 44568999999999999999985
No 63
>COG0225 MsrA Peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]
Probab=20.97 E-value=1.2e+02 Score=23.77 Aligned_cols=35 Identities=17% Similarity=0.220 Sum_probs=26.4
Q ss_pred ceEEEEEEcCcChhHHHHHHHHHhcCCCceEEEecCCCcE
Q 045611 52 LQTVEIKIKMDCEGCERRVKKSVEGMKGVTQVEVDPKQSK 91 (181)
Q Consensus 52 ~~~v~l~Vgm~C~~C~~kI~kaL~~l~GV~~v~vd~~~~~ 91 (181)
++++.|. .+|-+=+++...+++||.++.+-..++.
T Consensus 6 ~~~a~fa-----gGCFWg~E~~f~~i~GV~~t~~GYagG~ 40 (174)
T COG0225 6 MEKAYFA-----GGCFWGVEAYFEQIPGVLSTVSGYAGGH 40 (174)
T ss_pred cEEEEEe-----ccCccchHHHHhhCCCeEEEeeeEcCCC
Confidence 4555555 6777888888999999999998765553
No 64
>COG2092 EFB1 Translation elongation factor EF-1beta [Translation, ribosomal structure and biogenesis]
Probab=20.71 E-value=1.7e+02 Score=20.26 Aligned_cols=33 Identities=27% Similarity=0.493 Sum_probs=24.3
Q ss_pred EEEEEE-cCcChhHHHHHHHHHhcCCCceEEEec
Q 045611 54 TVEIKI-KMDCEGCERRVKKSVEGMKGVTQVEVD 86 (181)
Q Consensus 54 ~v~l~V-gm~C~~C~~kI~kaL~~l~GV~~v~vd 86 (181)
.+.+.+ --+-++--..++.+|++++||.++++-
T Consensus 50 al~l~vvv~D~Eg~td~~ee~l~~vegV~sveve 83 (88)
T COG2092 50 ALKLYVVVEDKEGGTDALEEALEEVEGVESVEVE 83 (88)
T ss_pred eEEEEEEEcccccCcHHHHHHHhhccCcceEEEE
Confidence 344455 334466688999999999999998863
No 65
>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=20.55 E-value=2.6e+02 Score=27.87 Aligned_cols=43 Identities=14% Similarity=0.279 Sum_probs=34.0
Q ss_pred HHHHHHHHhcCCCceEEEecCCCcEEEEEe--------eCCHHHHHHHHHHh
Q 045611 67 ERRVKKSVEGMKGVTQVEVDPKQSKLTVIG--------YVDPEKVLERVRHR 110 (181)
Q Consensus 67 ~~kI~kaL~~l~GV~~v~vd~~~~~v~V~~--------~~~~~~l~~~I~~~ 110 (181)
...++..|++++||.+|++.-...++.|.- .++..++.++|+ .
T Consensus 159 ~~~l~~~L~~v~GV~~V~~~G~~~ei~V~vD~~kl~~~gls~~dV~~~i~-~ 209 (1044)
T TIGR00915 159 ASNMVDPISRLEGVGDVQLFGSQYAMRIWLDPAKLNSYQLTPADVISAIQ-A 209 (1044)
T ss_pred HHHHHHHHhCCCCceEEEecCCceEEEEEECHHHHHHcCCCHHHHHHHHH-H
Confidence 356899999999999999976655566652 278888999998 5
No 66
>PRK11023 outer membrane lipoprotein; Provisional
Probab=20.50 E-value=3.3e+02 Score=21.20 Aligned_cols=36 Identities=17% Similarity=0.350 Sum_probs=16.4
Q ss_pred HHHHHHHHhcCCCce--EEEecCCCcEEEEEeeCCHHH
Q 045611 67 ERRVKKSVEGMKGVT--QVEVDPKQSKLTVIGYVDPEK 102 (181)
Q Consensus 67 ~~kI~kaL~~l~GV~--~v~vd~~~~~v~V~~~~~~~~ 102 (181)
..+|+.+|..-+++. +++|...++.|.+.|.++.++
T Consensus 129 t~kik~~L~~~~~v~~~~I~V~t~~G~V~L~G~v~~~e 166 (191)
T PRK11023 129 TTKVRSQLLTSDSVKSSNVKVTTENGEVFLLGLVTQRE 166 (191)
T ss_pred HHHHHHHHhcCCCCCcceEEEEEECcEEEEEEEeCHHH
Confidence 345555554444443 233333455555555544433
No 67
>PF08777 RRM_3: RNA binding motif; InterPro: IPR014886 This domain is found in protein La which functions as an RNA chaperone during RNA polymerase III transcription, and can also stimulate translation initiation. It contains a five stranded beta sheet which forms an atypical RNA recognition motif []. ; PDB: 1OWX_A.
Probab=20.41 E-value=3.1e+02 Score=19.16 Aligned_cols=55 Identities=15% Similarity=0.163 Sum_probs=33.2
Q ss_pred EEEE-cCcChhHHHHHHHHHhcCCCceEEEecCCCcEEEEEee--CCHHHHHHHHHHhc
Q 045611 56 EIKI-KMDCEGCERRVKKSVEGMKGVTQVEVDPKQSKLTVIGY--VDPEKVLERVRHRT 111 (181)
Q Consensus 56 ~l~V-gm~C~~C~~kI~kaL~~l~GV~~v~vd~~~~~v~V~~~--~~~~~l~~~I~~~~ 111 (181)
.+++ |+.-+.+...|+..++....|.-|++........|... ..+..+++.+. ..
T Consensus 3 il~~~g~~~~~~re~iK~~f~~~g~V~yVD~~~G~~~g~VRf~~~~~A~~a~~~~~-~~ 60 (105)
T PF08777_consen 3 ILKFSGLGEPTSREDIKEAFSQFGEVAYVDFSRGDTEGYVRFKTPEAAQKALEKLK-EA 60 (105)
T ss_dssp EEEEEE--SS--HHHHHHHT-SS--EEEEE--TT-SEEEEEESS---HHHHHHHHH-HT
T ss_pred EEEEecCCCCcCHHHHHHHHHhcCCcceEEecCCCCEEEEEECCcchHHHHHHHHH-hc
Confidence 4566 66766778999999999998888888877777778754 34777778777 44
No 68
>PF08002 DUF1697: Protein of unknown function (DUF1697); InterPro: IPR012545 This family contains many hypothetical bacterial proteins.; PDB: 2HIY_B.
Probab=20.22 E-value=3.6e+02 Score=19.79 Aligned_cols=49 Identities=16% Similarity=0.316 Sum_probs=31.6
Q ss_pred HHHHHHHhcCCCceEEEecCCCcEEEEEeeCCHHHHHHH----HHHhcCCceEE
Q 045611 68 RRVKKSVEGMKGVTQVEVDPKQSKLTVIGYVDPEKVLER----VRHRTGKKAEF 117 (181)
Q Consensus 68 ~kI~kaL~~l~GV~~v~vd~~~~~v~V~~~~~~~~l~~~----I~~~~G~~a~~ 117 (181)
..++..+.++ |-.+|+.-+.++.+.++...+++++... |++..|+.+..
T Consensus 22 aeLr~~l~~~-Gf~~V~Tyi~SGNvvf~~~~~~~~l~~~ie~~l~~~fG~~v~v 74 (137)
T PF08002_consen 22 AELREALEDL-GFTNVRTYIQSGNVVFESDRDPAELAAKIEKALEERFGFDVPV 74 (137)
T ss_dssp HHHHHHHHHC-T-EEEEEETTTTEEEEEESS-HHHHHHHHHHHHHHH-TT---E
T ss_pred HHHHHHHHHc-CCCCceEEEeeCCEEEecCCChHHHHHHHHHHHHHhcCCCeEE
Confidence 4556667666 8999999999999999966676666544 44466887654
No 69
>TIGR02898 spore_YhcN_YlaJ sporulation lipoprotein, YhcN/YlaJ family. YhcN and YlaJ 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 that is not included in the seed alignment for this model. A portion of the low-complexity region between the lipoprotein signal sequence and the main conserved region of the protein family was also excised from the seed alignment.
Probab=20.17 E-value=3.5e+02 Score=20.69 Aligned_cols=31 Identities=16% Similarity=0.106 Sum_probs=26.7
Q ss_pred hHHHHHHHHHhcCCCceEEEecCCCcEEEEE
Q 045611 65 GCERRVKKSVEGMKGVTQVEVDPKQSKLTVI 95 (181)
Q Consensus 65 ~C~~kI~kaL~~l~GV~~v~vd~~~~~v~V~ 95 (181)
.=+.+|.+.+.+++||.++.+=.....+.|-
T Consensus 54 ~~A~~Ia~~v~~v~~V~dA~vvVtg~~A~Vg 84 (158)
T TIGR02898 54 DVADEIASEAAKVKGVKDATVVITGNYAYVG 84 (158)
T ss_pred HHHHHHHHHHhcCCCCceEEEEEECCEEEEE
Confidence 6688999999999999999988888887765
No 70
>TIGR00401 msrA methionine-S-sulfoxide reductase. This model describes peptide methionine sulfoxide reductase (MsrA), a repair enzyme for proteins that have been inactivated by oxidation. The enzyme from E. coli is coextensive with this model and has enzymatic activity. However, in all completed genomes in which this module is present, a second protein module, described in TIGR00357, is also found, and in several cases as part of the same polypeptide chain: N-terminal to this module in Helicobacter pylori and Haemophilus influenzae (as in PilB of Neisseria gonorrhoeae) but C-terminal to it in Treponema pallidum. PilB, containing both domains, has been shown to be important for the expression of adhesins in certain pathogens.
Probab=20.17 E-value=76 Score=24.04 Aligned_cols=27 Identities=26% Similarity=0.227 Sum_probs=22.3
Q ss_pred hhHHHHHHHHHhcCCCceEEEecCCCc
Q 045611 64 EGCERRVKKSVEGMKGVTQVEVDPKQS 90 (181)
Q Consensus 64 ~~C~~kI~kaL~~l~GV~~v~vd~~~~ 90 (181)
.+|-+-++..+.+++||.++.+-+.++
T Consensus 7 gGCFWg~E~~f~~~~GV~~t~~GYagG 33 (149)
T TIGR00401 7 GGCFWGVEKYFWLIPGVYSTAVGYTGG 33 (149)
T ss_pred cCCchhhHHHHhcCCCEEEEEEeeCCC
Confidence 578888888899999999999865544
No 71
>PF03828 PAP_assoc: Cid1 family poly A polymerase; InterPro: IPR002058 These PAP/25A associated domains are found in uncharacterised eukaryotic proteins, a number of which are described as 'topoisomerase 1-related' though they appear to have little or no homology to topoisomerase 1. The signatures that define this group of sequences often occur towards the C terminus after the PAP/25A core domain IPR001201 from INTERPRO.; PDB: 2B4V_A 2B56_A 2B51_A 4EP7_B 2NOM_B 2Q0G_B 2Q0D_B 2Q0C_A 2Q0F_A 2Q0E_A ....
Probab=20.11 E-value=99 Score=18.81 Aligned_cols=18 Identities=33% Similarity=0.737 Sum_probs=13.9
Q ss_pred HHHHHHHhHHHHHhhccc
Q 045611 19 LFAVIMGFLEYVSELCDF 36 (181)
Q Consensus 19 ~~~~~m~~~~~~s~~~~~ 36 (181)
|..+++++|.||+..|..
T Consensus 2 lg~Ll~~Ff~~Y~~~Fd~ 19 (60)
T PF03828_consen 2 LGELLLGFFEYYGRKFDY 19 (60)
T ss_dssp HHHHHHHHHHHHHHTS-T
T ss_pred HHHHHHHHHHHhCCcCCC
Confidence 567899999999966653
No 72
>PRK11023 outer membrane lipoprotein; Provisional
Probab=20.06 E-value=2.3e+02 Score=22.09 Aligned_cols=47 Identities=21% Similarity=0.292 Sum_probs=34.7
Q ss_pred cChhHHHHHHHHHhcCCCce---EEEecCCCcEEEEEeeCCHHHHHHHHH
Q 045611 62 DCEGCERRVKKSVEGMKGVT---QVEVDPKQSKLTVIGYVDPEKVLERVR 108 (181)
Q Consensus 62 ~C~~C~~kI~kaL~~l~GV~---~v~vd~~~~~v~V~~~~~~~~l~~~I~ 108 (181)
+...=..+|+.+|..-+++. ++++...++.|++.|.++.++......
T Consensus 46 dD~~i~~~V~~aL~~~~~l~~~~~I~V~v~~G~V~L~G~V~~~~~k~~A~ 95 (191)
T PRK11023 46 DDGTLELRVNNALSKDEQIKKEARINVTAYQGKVLLTGQSPNAELSERAK 95 (191)
T ss_pred hhHHHHHHHHHHHhhCcccCcCceEEEEEECCEEEEEEEeCCHHHHHHHH
Confidence 45666789999998777663 578888999999999866655444443
Done!