Query 036482
Match_columns 177
No_of_seqs 250 out of 1142
Neff 4.4
Searched_HMMs 46136
Date Fri Mar 29 02:35:25 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/036482.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/036482hhsearch_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 3.6E-14 7.7E-19 100.5 9.0 70 27-112 3-73 (73)
2 PF00403 HMA: Heavy-metal-asso 99.4 1.3E-12 2.9E-17 87.8 8.2 58 32-105 1-62 (62)
3 COG2608 CopZ Copper chaperone 99.2 4.3E-11 9.3E-16 84.5 8.4 65 29-109 2-70 (71)
4 KOG4656 Copper chaperone for s 98.9 5.5E-09 1.2E-13 89.4 8.2 70 28-113 6-75 (247)
5 PLN02957 copper, zinc superoxi 98.4 3.8E-06 8.3E-11 71.4 10.2 69 29-113 6-74 (238)
6 PRK10671 copA copper exporting 98.2 3.7E-06 8.1E-11 82.0 7.9 63 29-109 3-66 (834)
7 TIGR00003 copper ion binding p 97.9 0.00021 4.6E-09 43.2 8.3 61 29-105 2-66 (68)
8 COG2217 ZntA Cation transport 97.6 0.00017 3.8E-09 70.5 7.6 63 29-108 2-69 (713)
9 PRK10671 copA copper exporting 96.9 0.0034 7.4E-08 61.6 7.9 64 30-109 100-164 (834)
10 KOG0207 Cation transport ATPas 96.8 0.0032 6.8E-08 63.3 7.2 67 29-111 146-216 (951)
11 PRK11033 zntA zinc/cadmium/mer 96.3 0.014 2.9E-07 57.1 7.8 65 28-109 52-119 (741)
12 KOG0207 Cation transport ATPas 95.5 0.023 5E-07 57.3 5.7 60 36-111 2-63 (951)
13 TIGR02052 MerP mercuric transp 93.6 1.4 3E-05 29.3 9.3 63 30-108 24-90 (92)
14 cd00371 HMA Heavy-metal-associ 86.6 3.3 7.2E-05 21.9 7.0 53 36-104 6-60 (63)
15 PRK13748 putative mercuric red 82.7 8.4 0.00018 35.7 8.7 64 32-111 3-69 (561)
16 PF01206 TusA: Sulfurtransfera 70.5 13 0.00029 25.1 4.9 53 32-109 2-57 (70)
17 PF01883 DUF59: Domain of unkn 67.0 11 0.00024 25.7 3.9 33 29-77 34-72 (72)
18 COG4004 Uncharacterized protei 63.0 22 0.00048 27.3 5.2 44 43-88 14-58 (96)
19 cd03421 SirA_like_N SirA_like_ 60.5 28 0.0006 23.4 5.0 54 33-110 2-56 (67)
20 PF13383 Methyltransf_22: Meth 59.7 18 0.0004 31.1 4.8 50 33-106 168-222 (242)
21 PRK11018 hypothetical protein; 58.7 52 0.0011 23.3 6.3 56 30-108 8-64 (78)
22 PF02680 DUF211: Uncharacteriz 55.6 42 0.00091 25.7 5.6 63 29-107 5-75 (95)
23 PF14437 MafB19-deam: MafB19-l 54.6 33 0.00071 28.1 5.2 40 30-86 101-142 (146)
24 COG1888 Uncharacterized protei 53.4 50 0.0011 25.4 5.7 39 70-108 32-78 (97)
25 PF04972 BON: BON domain; Int 52.4 11 0.00024 24.8 1.8 18 74-91 18-35 (64)
26 PF08712 Nfu_N: Scaffold prote 48.0 67 0.0015 23.4 5.6 53 30-102 25-79 (87)
27 PRK10553 assembly protein for 48.0 75 0.0016 23.6 5.8 42 43-100 19-61 (87)
28 PF13732 DUF4162: Domain of un 47.7 79 0.0017 21.7 5.7 38 70-108 30-68 (84)
29 cd00291 SirA_YedF_YeeD SirA, Y 45.8 75 0.0016 21.0 5.2 53 33-110 2-57 (69)
30 PF03927 NapD: NapD protein; 45.5 1E+02 0.0022 22.1 6.1 43 43-102 17-60 (79)
31 PHA01634 hypothetical protein 45.4 8.1 0.00018 31.8 0.4 17 33-49 93-110 (156)
32 PF01883 DUF59: Domain of unkn 41.7 1.1E+02 0.0024 20.7 5.6 38 43-87 1-39 (72)
33 PF01849 NAC: NAC domain; Int 38.9 38 0.00082 22.8 2.8 33 43-86 1-33 (58)
34 PRK11023 outer membrane lipopr 37.9 72 0.0016 26.3 4.9 47 37-99 45-94 (191)
35 cd03420 SirA_RHOD_Pry_redox Si 37.8 1E+02 0.0023 21.0 5.0 52 33-109 2-56 (69)
36 PF14492 EFG_II: Elongation Fa 36.5 1.1E+02 0.0023 21.4 5.0 64 32-108 7-73 (75)
37 PF04468 PSP1: PSP1 C-terminal 35.9 1.5E+02 0.0034 21.5 5.9 38 71-108 43-85 (88)
38 PF10262 Rdx: Rdx family; Int 35.9 1.5E+02 0.0032 20.7 5.6 56 38-101 7-75 (76)
39 PF13740 ACT_6: ACT domain; PD 35.3 1.1E+02 0.0024 21.0 4.8 58 30-102 2-65 (76)
40 PRK00299 sulfur transfer prote 35.0 1.7E+02 0.0036 20.8 5.8 56 30-108 9-65 (81)
41 cd03422 YedF YedF is a bacteri 34.6 1.3E+02 0.0028 20.6 5.1 50 36-108 6-55 (69)
42 TIGR03406 FeS_long_SufT probab 32.5 62 0.0013 26.8 3.7 34 30-79 114-153 (174)
43 cd06167 LabA_like LabA_like pr 31.5 77 0.0017 23.8 3.8 31 82-112 102-132 (149)
44 cd03423 SirA SirA (also known 30.6 1.8E+02 0.0038 19.8 5.5 48 36-108 6-55 (69)
45 TIGR03027 pepcterm_export puta 30.2 1.3E+02 0.0029 23.7 5.1 59 32-104 38-110 (165)
46 PRK13276 cell wall biosynthesi 29.4 47 0.001 28.7 2.5 19 34-52 24-44 (224)
47 PRK15078 polysaccharide export 29.0 1.4E+02 0.003 27.4 5.6 59 32-104 133-203 (379)
48 TIGR02945 SUF_assoc FeS assemb 29.0 66 0.0014 23.2 3.0 21 44-80 58-78 (99)
49 PRK11198 LysM domain/BON super 28.8 1.2E+02 0.0025 24.1 4.5 27 72-98 42-68 (147)
50 PRK11023 outer membrane lipopr 28.3 1.3E+02 0.0029 24.7 5.0 43 41-99 127-171 (191)
51 COG2151 PaaD Predicted metal-s 27.5 1E+02 0.0022 23.9 3.9 33 30-78 50-88 (111)
52 PF00352 TBP: Transcription fa 26.7 96 0.0021 22.1 3.4 23 79-101 55-77 (86)
53 PF02107 FlgH: Flagellar L-rin 26.5 42 0.00091 27.6 1.7 30 67-96 109-138 (179)
54 smart00749 BON bacterial OsmY 26.0 1.7E+02 0.0036 18.0 4.2 18 75-92 19-36 (62)
55 TIGR02194 GlrX_NrdH Glutaredox 25.9 2.1E+02 0.0045 19.1 5.8 17 36-53 6-22 (72)
56 cd02410 archeal_CPSF_KH The ar 25.2 2.7E+02 0.0059 22.7 6.1 43 70-112 66-115 (145)
57 COG0425 SirA Predicted redox p 24.8 1.2E+02 0.0025 21.8 3.6 25 30-54 5-30 (78)
58 PRK10638 glutaredoxin 3; Provi 24.8 1.7E+02 0.0038 20.0 4.4 23 30-53 3-25 (83)
59 TIGR01676 GLDHase galactonolac 24.8 1.1E+02 0.0025 29.6 4.5 32 75-106 117-148 (541)
60 PF09158 MotCF: Bacteriophage 24.6 2.4E+02 0.0052 21.9 5.4 39 70-109 41-79 (103)
61 cd04883 ACT_AcuB C-terminal AC 24.6 2.1E+02 0.0045 18.6 8.0 57 38-110 10-71 (72)
62 PF00013 KH_1: KH domain syndr 24.6 2E+02 0.0043 18.5 4.7 29 70-101 29-59 (60)
63 PF08002 DUF1697: Protein of u 24.2 3.3E+02 0.0071 21.3 6.3 47 44-107 22-73 (137)
64 COG2177 FtsX Cell division pro 23.5 2.6E+02 0.0056 25.0 6.2 46 31-105 63-109 (297)
65 TIGR03028 EpsE polysaccharide 23.2 2.3E+02 0.0049 23.9 5.6 61 32-104 39-110 (239)
66 PRK09577 multidrug efflux prot 23.1 2E+02 0.0044 29.6 6.1 47 43-105 158-212 (1032)
67 PF01565 FAD_binding_4: FAD bi 23.1 1.3E+02 0.0029 22.2 3.8 32 75-106 57-88 (139)
68 TIGR02190 GlrX-dom Glutaredoxi 22.5 1.9E+02 0.0041 19.7 4.2 22 31-53 10-31 (79)
69 cd04888 ACT_PheB-BS C-terminal 22.4 2.3E+02 0.0051 18.5 5.3 35 27-77 39-74 (76)
70 cd03029 GRX_hybridPRX5 Glutare 22.4 2.3E+02 0.0051 18.6 4.5 21 32-53 4-24 (72)
71 PRK12788 flgH flagellar basal 21.6 61 0.0013 28.3 1.8 31 66-96 162-192 (234)
72 cd00298 ACD_sHsps_p23-like Thi 21.6 64 0.0014 20.4 1.6 26 63-90 10-37 (80)
73 PF13192 Thioredoxin_3: Thiore 21.5 1.2E+02 0.0026 20.7 3.0 21 31-53 3-23 (76)
74 PF01936 NYN: NYN domain; Int 21.4 85 0.0018 23.1 2.4 30 82-111 98-127 (146)
75 cd08630 PI-PLCc_delta3 Catalyt 21.1 1E+02 0.0022 27.3 3.1 38 70-107 41-87 (258)
76 KOG4730 D-arabinono-1, 4-lacto 20.8 1E+02 0.0022 29.9 3.3 32 75-106 105-136 (518)
77 PF05768 DUF836: Glutaredoxin- 20.8 2.8E+02 0.0061 19.2 4.8 22 31-53 2-23 (81)
78 PRK10555 aminoglycoside/multid 20.7 2.3E+02 0.005 29.3 5.9 45 42-102 158-210 (1037)
79 PRK10568 periplasmic protein; 20.6 2.1E+02 0.0046 23.7 4.8 40 36-91 55-96 (203)
80 TIGR01679 bact_FAD_ox FAD-link 20.5 1.1E+02 0.0023 28.1 3.3 31 76-106 65-95 (419)
81 PRK07334 threonine dehydratase 20.2 4.5E+02 0.0097 23.8 7.2 64 31-109 327-402 (403)
82 cd03036 ArsC_like Arsenate Red 20.1 2.6E+02 0.0057 20.7 4.8 45 36-104 6-50 (111)
No 1
>KOG1603 consensus Copper chaperone [Inorganic ion transport and metabolism]
Probab=99.55 E-value=3.6e-14 Score=100.49 Aligned_cols=70 Identities=49% Similarity=0.939 Sum_probs=64.8
Q ss_pred CceEEEEEEeccchhHHHHHHHHHhhhccccccccccccccccCCceEEEEecCCcEEEEEecCCHHHHHHHHHHcC-Cc
Q 036482 27 AMAIVELMVHMDCEGCEKRIRRAISKIDVFNQFDVQFSFDFIITGVDSLDIDMDKQKVTVTGYVDERKVLKVVRRTG-RK 105 (177)
Q Consensus 27 ~~qtv~~~V~M~C~gC~~kV~kaL~~l~~~~~~~~~~~~~~~~~GV~sV~vd~~~~kVtVtg~vd~~kll~~l~ktG-~~ 105 (177)
.+++.+++|.|+|+||+.+|++.|+.+ +||.++.+|..+++|||.|.+++.+|++.|++.| ++
T Consensus 3 ~~~~~v~kv~~~C~gc~~kV~~~l~~~----------------~GV~~v~id~~~~kvtV~g~~~p~~vl~~l~k~~~k~ 66 (73)
T KOG1603|consen 3 PIKTVVLKVNMHCEGCARKVKRVLQKL----------------KGVESVDIDIKKQKVTVKGNVDPVKLLKKLKKTGGKR 66 (73)
T ss_pred CccEEEEEECcccccHHHHHHHHhhcc----------------CCeEEEEecCCCCEEEEEEecCHHHHHHHHHhcCCCc
Confidence 356788899999999999999999999 9999999999999999999999999999999998 88
Q ss_pred eEEccCC
Q 036482 106 AEFWPFP 112 (177)
Q Consensus 106 ae~~p~p 112 (177)
+++|..|
T Consensus 67 ~~~~~~p 73 (73)
T KOG1603|consen 67 AELWKVP 73 (73)
T ss_pred eEEecCC
Confidence 8888543
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=99.41 E-value=1.3e-12 Score=87.80 Aligned_cols=58 Identities=34% Similarity=0.701 Sum_probs=53.7
Q ss_pred EEEE-eccchhHHHHHHHHHhhhccccccccccccccccCCceEEEEecCCcEEEEEec---CCHHHHHHHHHHcCCc
Q 036482 32 ELMV-HMDCEGCEKRIRRAISKIDVFNQFDVQFSFDFIITGVDSLDIDMDKQKVTVTGY---VDERKVLKVVRRTGRK 105 (177)
Q Consensus 32 ~~~V-~M~C~gC~~kV~kaL~~l~~~~~~~~~~~~~~~~~GV~sV~vd~~~~kVtVtg~---vd~~kll~~l~ktG~~ 105 (177)
+|+| +|+|++|+++|+++|+++ +||.++.+|..+++|+|++. +++++|.++|+++||+
T Consensus 1 t~~v~~m~C~~C~~~v~~~l~~~----------------~GV~~v~vd~~~~~v~v~~~~~~~~~~~i~~~i~~~Gy~ 62 (62)
T PF00403_consen 1 TFKVPGMTCEGCAKKVEKALSKL----------------PGVKSVKVDLETKTVTVTYDPDKTSIEKIIEAIEKAGYE 62 (62)
T ss_dssp EEEEESTTSHHHHHHHHHHHHTS----------------TTEEEEEEETTTTEEEEEESTTTSCHHHHHHHHHHTTSE
T ss_pred CEEECCcccHHHHHHHHHHHhcC----------------CCCcEEEEECCCCEEEEEEecCCCCHHHHHHHHHHhCcC
Confidence 4788 999999999999999999 99999999999999999976 4569999999999985
No 3
>COG2608 CopZ Copper chaperone [Inorganic ion transport and metabolism]
Probab=99.25 E-value=4.3e-11 Score=84.53 Aligned_cols=65 Identities=31% Similarity=0.537 Sum_probs=57.5
Q ss_pred eEEEEEE-eccchhHHHHHHHHHhhhccccccccccccccccCCceEEEEecCCcEEEE--Ee-cCCHHHHHHHHHHcCC
Q 036482 29 AIVELMV-HMDCEGCEKRIRRAISKIDVFNQFDVQFSFDFIITGVDSLDIDMDKQKVTV--TG-YVDERKVLKVVRRTGR 104 (177)
Q Consensus 29 qtv~~~V-~M~C~gC~~kV~kaL~~l~~~~~~~~~~~~~~~~~GV~sV~vd~~~~kVtV--tg-~vd~~kll~~l~ktG~ 104 (177)
.+..|+| +|+|.+|+.+|+++|.++ +||.++++++..++++| ++ .++.++|+.+++++||
T Consensus 2 ~~~~l~v~~MtC~~C~~~V~~al~~v----------------~gv~~v~v~l~~~~~~V~~d~~~~~~~~i~~ai~~aGy 65 (71)
T COG2608 2 MKTTLKVEGMTCGHCVKTVEKALEEV----------------DGVASVDVDLEKGTATVTFDSNKVDIEAIIEAIEDAGY 65 (71)
T ss_pred ceEEEEECCcCcHHHHHHHHHHHhcC----------------CCeeEEEEEcccCeEEEEEcCCcCCHHHHHHHHHHcCC
Confidence 4578999 999999999999999999 89999999999955555 45 5899999999999999
Q ss_pred ceEEc
Q 036482 105 KAEFW 109 (177)
Q Consensus 105 ~ae~~ 109 (177)
++..+
T Consensus 66 ~~~~~ 70 (71)
T COG2608 66 KVEEI 70 (71)
T ss_pred Ceeec
Confidence 87653
No 4
>KOG4656 consensus Copper chaperone for superoxide dismutase [Inorganic ion transport and metabolism]
Probab=98.90 E-value=5.5e-09 Score=89.38 Aligned_cols=70 Identities=24% Similarity=0.473 Sum_probs=65.3
Q ss_pred ceEEEEEEeccchhHHHHHHHHHhhhccccccccccccccccCCceEEEEecCCcEEEEEecCCHHHHHHHHHHcCCceE
Q 036482 28 MAIVELMVHMDCEGCEKRIRRAISKIDVFNQFDVQFSFDFIITGVDSLDIDMDKQKVTVTGYVDERKVLKVVRRTGRKAE 107 (177)
Q Consensus 28 ~qtv~~~V~M~C~gC~~kV~kaL~~l~~~~~~~~~~~~~~~~~GV~sV~vd~~~~kVtVtg~vd~~kll~~l~ktG~~ae 107 (177)
.-+.+|.|.|+|++|...||..|..+ +||++|++|+.+|.|.|.+.+.+.+|...|+.+|++|.
T Consensus 6 ~~~~efaV~M~cescvnavk~~L~~V----------------~Gi~~vevdle~q~v~v~ts~p~s~i~~~le~tGr~Av 69 (247)
T KOG4656|consen 6 TYEAEFAVQMTCESCVNAVKACLKGV----------------PGINSVEVDLEQQIVSVETSVPPSEIQNTLENTGRDAV 69 (247)
T ss_pred ceeEEEEEechhHHHHHHHHHHhccC----------------CCcceEEEEhhhcEEEEEccCChHHHHHHHHhhChheE
Confidence 34579999999999999999999999 99999999999999999999999999999999999999
Q ss_pred EccCCC
Q 036482 108 FWPFPY 113 (177)
Q Consensus 108 ~~p~p~ 113 (177)
+.....
T Consensus 70 l~G~G~ 75 (247)
T KOG4656|consen 70 LRGAGK 75 (247)
T ss_pred EecCCc
Confidence 987643
No 5
>PLN02957 copper, zinc superoxide dismutase
Probab=98.36 E-value=3.8e-06 Score=71.42 Aligned_cols=69 Identities=29% Similarity=0.555 Sum_probs=62.4
Q ss_pred eEEEEEEeccchhHHHHHHHHHhhhccccccccccccccccCCceEEEEecCCcEEEEEecCCHHHHHHHHHHcCCceEE
Q 036482 29 AIVELMVHMDCEGCEKRIRRAISKIDVFNQFDVQFSFDFIITGVDSLDIDMDKQKVTVTGYVDERKVLKVVRRTGRKAEF 108 (177)
Q Consensus 29 qtv~~~V~M~C~gC~~kV~kaL~~l~~~~~~~~~~~~~~~~~GV~sV~vd~~~~kVtVtg~vd~~kll~~l~ktG~~ae~ 108 (177)
++++|.++|.|..|+.+|+++|+++ +||.++.+++..++++|......+.++.+++++|+.+++
T Consensus 6 ~~~~~~VgMsC~~Ca~~Iek~L~~~----------------~GV~~v~vn~~~~~v~V~~~~~~~~I~~aIe~~Gy~a~~ 69 (238)
T PLN02957 6 LLTEFMVDMKCEGCVAAVKNKLETL----------------EGVKAVEVDLSNQVVRVLGSSPVKAMTAALEQTGRKARL 69 (238)
T ss_pred EEEEEEECccCHHHHHHHHHHHhcC----------------CCeEEEEEEcCCCEEEEEecCCHHHHHHHHHHcCCcEEE
Confidence 4567888999999999999999999 899999999999999999878889999999999999988
Q ss_pred ccCCC
Q 036482 109 WPFPY 113 (177)
Q Consensus 109 ~p~p~ 113 (177)
+....
T Consensus 70 ~~~~~ 74 (238)
T PLN02957 70 IGQGD 74 (238)
T ss_pred ecCCC
Confidence 87633
No 6
>PRK10671 copA copper exporting ATPase; Provisional
Probab=98.21 E-value=3.7e-06 Score=82.00 Aligned_cols=63 Identities=19% Similarity=0.503 Sum_probs=57.2
Q ss_pred eEEEEEE-eccchhHHHHHHHHHhhhccccccccccccccccCCceEEEEecCCcEEEEEecCCHHHHHHHHHHcCCceE
Q 036482 29 AIVELMV-HMDCEGCEKRIRRAISKIDVFNQFDVQFSFDFIITGVDSLDIDMDKQKVTVTGYVDERKVLKVVRRTGRKAE 107 (177)
Q Consensus 29 qtv~~~V-~M~C~gC~~kV~kaL~~l~~~~~~~~~~~~~~~~~GV~sV~vd~~~~kVtVtg~vd~~kll~~l~ktG~~ae 107 (177)
+++.+.| +|+|.+|+.+|+++|+++ +||.++.++. ++.+|++..+++.+..++++.||+++
T Consensus 3 ~~~~l~V~gmtC~~C~~~i~~al~~~----------------~gv~~v~v~~--~~~~v~~~~~~~~i~~~i~~~Gy~~~ 64 (834)
T PRK10671 3 QTIDLTLDGLSCGHCVKRVKESLEQR----------------PDVEQADVSI--TEAHVTGTASAEALIETIKQAGYDAS 64 (834)
T ss_pred eEEEEEECCcccHHHHHHHHHHHhcC----------------CCcceEEEee--eEEEEEecCCHHHHHHHHHhcCCccc
Confidence 5789999 999999999999999999 9999999998 46677777899999999999999988
Q ss_pred Ec
Q 036482 108 FW 109 (177)
Q Consensus 108 ~~ 109 (177)
..
T Consensus 65 ~~ 66 (834)
T PRK10671 65 VS 66 (834)
T ss_pred cc
Confidence 64
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=97.86 E-value=0.00021 Score=43.15 Aligned_cols=61 Identities=20% Similarity=0.422 Sum_probs=50.6
Q ss_pred eEEEEEE-eccchhHHHHHHHHHhhhccccccccccccccccCCceEEEEecCCcEEEEEe---cCCHHHHHHHHHHcCC
Q 036482 29 AIVELMV-HMDCEGCEKRIRRAISKIDVFNQFDVQFSFDFIITGVDSLDIDMDKQKVTVTG---YVDERKVLKVVRRTGR 104 (177)
Q Consensus 29 qtv~~~V-~M~C~gC~~kV~kaL~~l~~~~~~~~~~~~~~~~~GV~sV~vd~~~~kVtVtg---~vd~~kll~~l~ktG~ 104 (177)
.+..+.+ ++.|..|..+|++.+..+ +++....++....++.++. ..+...+...++..|+
T Consensus 2 ~~~~~~v~~~~~~~c~~~~~~~~~~~----------------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~ 65 (68)
T TIGR00003 2 QKFTVQVMSMTCQHCVDKIEKFVGEL----------------EGVSKVQVKLEKASVKVEFDAPQATEICIAEAILDAGY 65 (68)
T ss_pred cEEEEEECCeEcHHHHHHHHHHHhcC----------------CCEEEEEEEcCCCEEEEEeCCCCCCHHHHHHHHHHcCC
Confidence 3567889 999999999999999998 8999999999999988873 3467777777777776
Q ss_pred c
Q 036482 105 K 105 (177)
Q Consensus 105 ~ 105 (177)
.
T Consensus 66 ~ 66 (68)
T TIGR00003 66 E 66 (68)
T ss_pred C
Confidence 4
No 8
>COG2217 ZntA Cation transport ATPase [Inorganic ion transport and metabolism]
Probab=97.60 E-value=0.00017 Score=70.51 Aligned_cols=63 Identities=29% Similarity=0.544 Sum_probs=56.3
Q ss_pred eEEEEEE-eccchhHHHHHHHHHhhhccccccccccccccccCCceEEEEecCCcEEEEEe---cCC-HHHHHHHHHHcC
Q 036482 29 AIVELMV-HMDCEGCEKRIRRAISKIDVFNQFDVQFSFDFIITGVDSLDIDMDKQKVTVTG---YVD-ERKVLKVVRRTG 103 (177)
Q Consensus 29 qtv~~~V-~M~C~gC~~kV~kaL~~l~~~~~~~~~~~~~~~~~GV~sV~vd~~~~kVtVtg---~vd-~~kll~~l~ktG 103 (177)
.+..|.+ +|+|..|+.+|+ +|+++ +||.++.+++.+++++|.. ..+ .+.+..++++.|
T Consensus 2 ~~~~l~v~Gm~Ca~C~~~ie-~l~~~----------------~gV~~~~vn~~t~~~~v~~~~~~~~~~~~~~~~v~~~g 64 (713)
T COG2217 2 RETSLSVEGMTCAACASRIE-ALNKL----------------PGVEEARVNLATERATVVYDPEEVDLPADIVAAVEKAG 64 (713)
T ss_pred ceeEEeecCcCcHHHHHHHH-HHhcC----------------CCeeEEEeecccceEEEEecccccccHHHHHHHHHhcC
Confidence 3578899 999999999999 99999 9999999999999999984 345 789999999999
Q ss_pred CceEE
Q 036482 104 RKAEF 108 (177)
Q Consensus 104 ~~ae~ 108 (177)
|.+..
T Consensus 65 y~~~~ 69 (713)
T COG2217 65 YSARL 69 (713)
T ss_pred ccccc
Confidence 98765
No 9
>PRK10671 copA copper exporting ATPase; Provisional
Probab=96.87 E-value=0.0034 Score=61.58 Aligned_cols=64 Identities=22% Similarity=0.500 Sum_probs=56.9
Q ss_pred EEEEEE-eccchhHHHHHHHHHhhhccccccccccccccccCCceEEEEecCCcEEEEEecCCHHHHHHHHHHcCCceEE
Q 036482 30 IVELMV-HMDCEGCEKRIRRAISKIDVFNQFDVQFSFDFIITGVDSLDIDMDKQKVTVTGYVDERKVLKVVRRTGRKAEF 108 (177)
Q Consensus 30 tv~~~V-~M~C~gC~~kV~kaL~~l~~~~~~~~~~~~~~~~~GV~sV~vd~~~~kVtVtg~vd~~kll~~l~ktG~~ae~ 108 (177)
++.+.+ +|+|..|..+|++.+.++ +||.++.++...+++.+.+..+++++.+.+++.|+.+..
T Consensus 100 ~~~l~V~Gm~Ca~Ca~~Ie~~L~~~----------------~GV~~a~vnl~t~~~~V~~~~s~~~I~~~I~~~Gy~a~~ 163 (834)
T PRK10671 100 SQQLLLSGMSCASCVSRVQNALQSV----------------PGVTQARVNLAERTALVMGSASPQDLVQAVEKAGYGAEA 163 (834)
T ss_pred eEEEEeCCcCcHHHHHHHHHHHhcC----------------CCceeeeeecCCCeEEEEccCCHHHHHHHHHhcCCCccc
Confidence 567888 999999999999999999 899999999999998888767888888999999998754
Q ss_pred c
Q 036482 109 W 109 (177)
Q Consensus 109 ~ 109 (177)
+
T Consensus 164 ~ 164 (834)
T PRK10671 164 I 164 (834)
T ss_pred c
Confidence 3
No 10
>KOG0207 consensus Cation transport ATPase [Inorganic ion transport and metabolism]
Probab=96.82 E-value=0.0032 Score=63.33 Aligned_cols=67 Identities=24% Similarity=0.502 Sum_probs=61.5
Q ss_pred eEEEEEE-eccchhHHHHHHHHHhhhccccccccccccccccCCceEEEEecCCcEEEEEe---cCCHHHHHHHHHHcCC
Q 036482 29 AIVELMV-HMDCEGCEKRIRRAISKIDVFNQFDVQFSFDFIITGVDSLDIDMDKQKVTVTG---YVDERKVLKVVRRTGR 104 (177)
Q Consensus 29 qtv~~~V-~M~C~gC~~kV~kaL~~l~~~~~~~~~~~~~~~~~GV~sV~vd~~~~kVtVtg---~vd~~kll~~l~ktG~ 104 (177)
+++.|.| +|+|.+|..+|++.|.++ +||+++.++...+++.|.- ...+..+.+.|..+|+
T Consensus 146 ~~i~L~v~g~~c~s~~~~ie~~l~~l----------------~gV~~~sv~~~t~~~~V~~~~~~~~pr~i~k~ie~~~~ 209 (951)
T KOG0207|consen 146 QKIYLDVLGMTCASCVSKIESILERL----------------RGVKSFSVSLATDTAIVVYDPEITGPRDIIKAIEETGF 209 (951)
T ss_pred CcEEEEeecccccchhhhhHHHHhhc----------------cCeeEEEEeccCCceEEEecccccChHHHHHHHHhhcc
Confidence 6889999 999999999999999999 8999999999999999873 3679999999999999
Q ss_pred ceEEccC
Q 036482 105 KAEFWPF 111 (177)
Q Consensus 105 ~ae~~p~ 111 (177)
++...+.
T Consensus 210 ~~~~~~~ 216 (951)
T KOG0207|consen 210 EASVRPY 216 (951)
T ss_pred cceeeec
Confidence 9887774
No 11
>PRK11033 zntA zinc/cadmium/mercury/lead-transporting ATPase; Provisional
Probab=96.32 E-value=0.014 Score=57.13 Aligned_cols=65 Identities=20% Similarity=0.386 Sum_probs=53.9
Q ss_pred ceEEEEEE-eccchhHHHHHHHHHhhhccccccccccccccccCCceEEEEecCCcEEEEEe--cCCHHHHHHHHHHcCC
Q 036482 28 MAIVELMV-HMDCEGCEKRIRRAISKIDVFNQFDVQFSFDFIITGVDSLDIDMDKQKVTVTG--YVDERKVLKVVRRTGR 104 (177)
Q Consensus 28 ~qtv~~~V-~M~C~gC~~kV~kaL~~l~~~~~~~~~~~~~~~~~GV~sV~vd~~~~kVtVtg--~vd~~kll~~l~ktG~ 104 (177)
-+++.+.+ +|+|.+|..++++++.++ +||.++.++...+++.+.. ... +++...+++.|+
T Consensus 52 ~~r~~l~V~Gm~C~sCa~~Ie~aL~~~----------------~GV~~v~Vn~at~k~~V~~d~~~~-~~I~~aI~~~Gy 114 (741)
T PRK11033 52 GTRYSWKVSGMDCPSCARKVENAVRQL----------------AGVNQVQVLFATEKLVVDADNDIR-AQVESAVQKAGF 114 (741)
T ss_pred CceEEEEECCCCcHHHHHHHHHHHhcC----------------CCeeeEEEEcCCCeEEEEecccch-HHHHHHHHhccc
Confidence 45677889 999999999999999999 8999999999999988863 223 677788889999
Q ss_pred ceEEc
Q 036482 105 KAEFW 109 (177)
Q Consensus 105 ~ae~~ 109 (177)
++..+
T Consensus 115 ~a~~~ 119 (741)
T PRK11033 115 SLRDE 119 (741)
T ss_pred ccccc
Confidence 76543
No 12
>KOG0207 consensus Cation transport ATPase [Inorganic ion transport and metabolism]
Probab=95.55 E-value=0.023 Score=57.34 Aligned_cols=60 Identities=22% Similarity=0.503 Sum_probs=55.0
Q ss_pred eccchhHHHHHHHHHhhhccccccccccccccccCCceEEEEecCCcEEEEE--ecCCHHHHHHHHHHcCCceEEccC
Q 036482 36 HMDCEGCEKRIRRAISKIDVFNQFDVQFSFDFIITGVDSLDIDMDKQKVTVT--GYVDERKVLKVVRRTGRKAEFWPF 111 (177)
Q Consensus 36 ~M~C~gC~~kV~kaL~~l~~~~~~~~~~~~~~~~~GV~sV~vd~~~~kVtVt--g~vd~~kll~~l~ktG~~ae~~p~ 111 (177)
||+|..|...|++++.+. +||+++.++..++..+|. ..++++.+.++++..|+++++...
T Consensus 2 gmtc~ac~~si~~~~~~~----------------~g~~~i~vsl~~~~~~v~~~~~~~~~~i~~~ied~gf~~~~~~~ 63 (951)
T KOG0207|consen 2 GMTCSACSNSIEKAISRK----------------PGVQKIEVSLAQKRANVSYDNIVSPESIKETIEDMGFEASLLSD 63 (951)
T ss_pred CccHHHHhhhHHHHHhcC----------------CCceeEEEEeccccceEEEeeccCHHHHHHHhhcccceeeeccc
Confidence 799999999999999999 999999999999888886 457899999999999999998755
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=93.59 E-value=1.4 Score=29.28 Aligned_cols=63 Identities=21% Similarity=0.412 Sum_probs=46.6
Q ss_pred EEEEEE-eccchhHHHHHHHHHhhhccccccccccccccccCCceEEEEecCCcEEEEE--e-cCCHHHHHHHHHHcCCc
Q 036482 30 IVELMV-HMDCEGCEKRIRRAISKIDVFNQFDVQFSFDFIITGVDSLDIDMDKQKVTVT--G-YVDERKVLKVVRRTGRK 105 (177)
Q Consensus 30 tv~~~V-~M~C~gC~~kV~kaL~~l~~~~~~~~~~~~~~~~~GV~sV~vd~~~~kVtVt--g-~vd~~kll~~l~ktG~~ 105 (177)
++.+.+ ++.|..|...++..+... .|+....++....++.++ + ..+...+...+++.|+.
T Consensus 24 ~~~~~~~~~~c~~c~~~~~~~~~~~----------------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~ 87 (92)
T TIGR02052 24 TVTLEVPGMTCVACPITVETALQKV----------------DGVSKAEVTFKTKLAVVTFDDEKTNVKALTEATTDAGYP 87 (92)
T ss_pred EEEEEECCeEcHHHHHHHHHHHhcC----------------CCEEEEEEEecCCEEEEEECCCCCCHHHHHHHHHhcCCC
Confidence 456677 899999999999998888 788888888777776654 2 24556666666777776
Q ss_pred eEE
Q 036482 106 AEF 108 (177)
Q Consensus 106 ae~ 108 (177)
+++
T Consensus 88 ~~~ 90 (92)
T TIGR02052 88 SSL 90 (92)
T ss_pred eEe
Confidence 554
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=86.55 E-value=3.3 Score=21.87 Aligned_cols=53 Identities=32% Similarity=0.672 Sum_probs=34.3
Q ss_pred eccchhHHHHHHHHHhhhccccccccccccccccCCceEEEEecCCcEEEEEec--CCHHHHHHHHHHcCC
Q 036482 36 HMDCEGCEKRIRRAISKIDVFNQFDVQFSFDFIITGVDSLDIDMDKQKVTVTGY--VDERKVLKVVRRTGR 104 (177)
Q Consensus 36 ~M~C~gC~~kV~kaL~~l~~~~~~~~~~~~~~~~~GV~sV~vd~~~~kVtVtg~--vd~~kll~~l~ktG~ 104 (177)
++.|..|...++..+... .|+...........+.+... .+...+...++..|.
T Consensus 6 ~~~~~~~~~~~~~~~~~~----------------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 60 (63)
T cd00371 6 GMTCAGCVSKIEKALEKL----------------PGVESVEVDLETGKATVEYDPEVSPEELLEAIEDAGY 60 (63)
T ss_pred CeEcHHHHHHHHHHHhcC----------------CCEeEEEEEccCCEEEEEECCCCCHHHHHHHHHHcCC
Confidence 788999999999887777 67766666666666555432 244444444444443
No 15
>PRK13748 putative mercuric reductase; Provisional
Probab=82.68 E-value=8.4 Score=35.70 Aligned_cols=64 Identities=22% Similarity=0.381 Sum_probs=49.5
Q ss_pred EEEE-eccchhHHHHHHHHHhhhccccccccccccccccCCceEEEEecCCcEEEEEe--cCCHHHHHHHHHHcCCceEE
Q 036482 32 ELMV-HMDCEGCEKRIRRAISKIDVFNQFDVQFSFDFIITGVDSLDIDMDKQKVTVTG--YVDERKVLKVVRRTGRKAEF 108 (177)
Q Consensus 32 ~~~V-~M~C~gC~~kV~kaL~~l~~~~~~~~~~~~~~~~~GV~sV~vd~~~~kVtVtg--~vd~~kll~~l~ktG~~ae~ 108 (177)
.+.+ +|.|..|..+++..+..+ +++....+++...++.+.. ..+...+...++..|+..+.
T Consensus 3 ~i~i~g~~C~~c~~~ie~~l~~~----------------~gv~~a~~~~~~~~~~v~~~~~~~~~~i~~~i~~~g~~~~~ 66 (561)
T PRK13748 3 TLKITGMTCDSCAAHVKDALEKV----------------PGVQSADVSYPKGSAQLAIEVGTSPDALTAAVAGLGYRATL 66 (561)
T ss_pred EEEECCeecHHHHHHHHHHHhcC----------------CCeeEEEEEcCCCEEEEEECCCCCHHHHHHHHHHcCCeeec
Confidence 3557 899999999999999888 8888888888888877763 24566776777888887655
Q ss_pred ccC
Q 036482 109 WPF 111 (177)
Q Consensus 109 ~p~ 111 (177)
...
T Consensus 67 ~~~ 69 (561)
T PRK13748 67 ADA 69 (561)
T ss_pred cCc
Confidence 444
No 16
>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=70.53 E-value=13 Score=25.09 Aligned_cols=53 Identities=11% Similarity=0.167 Sum_probs=38.6
Q ss_pred EEEE-eccchhHHHHHHHHHhhhccccccccccccccccCCceEEEEecCCcEEEEE--ecCCHHHHHHHHHHcCCceEE
Q 036482 32 ELMV-HMDCEGCEKRIRRAISKIDVFNQFDVQFSFDFIITGVDSLDIDMDKQKVTVT--GYVDERKVLKVVRRTGRKAEF 108 (177)
Q Consensus 32 ~~~V-~M~C~gC~~kV~kaL~~l~~~~~~~~~~~~~~~~~GV~sV~vd~~~~kVtVt--g~vd~~kll~~l~ktG~~ae~ 108 (177)
++.+ |+.|....-+++++|.++. .| +.+.|. ...+.+.|.+.+++.|++..-
T Consensus 2 ~lD~rg~~CP~Pll~~~~~l~~l~---------------~G----------~~l~v~~d~~~~~~di~~~~~~~g~~~~~ 56 (70)
T PF01206_consen 2 TLDLRGLSCPMPLLKAKKALKELP---------------PG----------EVLEVLVDDPAAVEDIPRWCEENGYEVVE 56 (70)
T ss_dssp EEECSS-STTHHHHHHHHHHHTSG---------------TT-----------EEEEEESSTTHHHHHHHHHHHHTEEEEE
T ss_pred EEeCCCCCCCHHHHHHHHHHHhcC---------------CC----------CEEEEEECCccHHHHHHHHHHHCCCEEEE
Confidence 5667 8999999999999999993 34 334443 345568899999999998543
Q ss_pred c
Q 036482 109 W 109 (177)
Q Consensus 109 ~ 109 (177)
+
T Consensus 57 ~ 57 (70)
T PF01206_consen 57 V 57 (70)
T ss_dssp E
T ss_pred E
Confidence 3
No 17
>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=67.00 E-value=11 Score=25.71 Aligned_cols=33 Identities=24% Similarity=0.544 Sum_probs=21.3
Q ss_pred eEEEEEEeccchhHH------HHHHHHHhhhccccccccccccccccCCceEEEE
Q 036482 29 AIVELMVHMDCEGCE------KRIRRAISKIDVFNQFDVQFSFDFIITGVDSLDI 77 (177)
Q Consensus 29 qtv~~~V~M~C~gC~------~kV~kaL~~l~~~~~~~~~~~~~~~~~GV~sV~v 77 (177)
.++.+.+.+...+|. ..|+++|..+ +||.+|+|
T Consensus 34 ~~V~v~l~l~~~~~~~~~~l~~~i~~~l~~l----------------~gv~~V~V 72 (72)
T PF01883_consen 34 GKVSVSLELPTPACPAAEPLREEIREALKAL----------------PGVKSVKV 72 (72)
T ss_dssp CEEEEEE--SSTTHTTHHHHHHHHHHHHHTS----------------TT-SEEEE
T ss_pred CEEEEEEEECCCCchHHHHHHHHHHHHHHhC----------------CCCceEeC
Confidence 345666666666665 6677888888 89998875
No 18
>COG4004 Uncharacterized protein conserved in archaea [Function unknown]
Probab=62.99 E-value=22 Score=27.26 Aligned_cols=44 Identities=18% Similarity=0.225 Sum_probs=31.5
Q ss_pred HHHHHHHHhhhccccccccc-cccccccCCceEEEEecCCcEEEEEe
Q 036482 43 EKRIRRAISKIDVFNQFDVQ-FSFDFIITGVDSLDIDMDKQKVTVTG 88 (177)
Q Consensus 43 ~~kV~kaL~~l~~~~~~~~~-~~~~~~~~GV~sV~vd~~~~kVtVtg 88 (177)
..+|.+.|+.+ +|+|-+. =.|--+.+|++.|++...+.++.|++
T Consensus 14 ~dri~~~l~e~--g~~v~~eGD~ivas~pgis~ieik~E~kkL~v~t 58 (96)
T COG4004 14 PDRIMRGLSEL--GWTVSEEGDRIVASSPGISRIEIKPENKKLLVNT 58 (96)
T ss_pred HHHHHHHHHHh--CeeEeecccEEEEecCCceEEEEecccceEEEec
Confidence 45788888888 4665511 01222238999999999999999986
No 19
>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=60.46 E-value=28 Score=23.43 Aligned_cols=54 Identities=15% Similarity=0.315 Sum_probs=37.2
Q ss_pred EEE-eccchhHHHHHHHHHhhhccccccccccccccccCCceEEEEecCCcEEEEEecCCHHHHHHHHHHcCCceEEcc
Q 036482 33 LMV-HMDCEGCEKRIRRAISKIDVFNQFDVQFSFDFIITGVDSLDIDMDKQKVTVTGYVDERKVLKVVRRTGRKAEFWP 110 (177)
Q Consensus 33 ~~V-~M~C~gC~~kV~kaL~~l~~~~~~~~~~~~~~~~~GV~sV~vd~~~~kVtVtg~vd~~kll~~l~ktG~~ae~~p 110 (177)
+.+ |+.|..-.-+++++| ++. +| +.+. |.++...+.+.|.+-+++.|++.+...
T Consensus 2 lD~rG~~CP~P~l~~k~al-~~~---------------~g-~~l~-------v~~d~~~s~~~i~~~~~~~G~~~~~~~ 56 (67)
T cd03421 2 IDARGLACPQPVIKTKKAL-ELE---------------AG-GEIE-------VLVDNEVAKENVSRFAESRGYEVSVEE 56 (67)
T ss_pred cccCCCCCCHHHHHHHHHH-hcC---------------CC-CEEE-------EEEcChhHHHHHHHHHHHcCCEEEEEe
Confidence 345 899999999999999 772 22 1121 123344556788899999999986543
No 20
>PF13383 Methyltransf_22: Methyltransferase domain
Probab=59.71 E-value=18 Score=31.15 Aligned_cols=50 Identities=22% Similarity=0.401 Sum_probs=34.0
Q ss_pred EEE-eccchhHHHHHHHHHhhhccccccccccccccccCCceEEEEecCCcEEEEEecCC----HHHHHHHHHHcCCce
Q 036482 33 LMV-HMDCEGCEKRIRRAISKIDVFNQFDVQFSFDFIITGVDSLDIDMDKQKVTVTGYVD----ERKVLKVVRRTGRKA 106 (177)
Q Consensus 33 ~~V-~M~C~gC~~kV~kaL~~l~~~~~~~~~~~~~~~~~GV~sV~vd~~~~kVtVtg~vd----~~kll~~l~ktG~~a 106 (177)
+.+ .|+|+|||-.+-+.+.+ .|+..+.+ .|++..+ ..++++.|++.|++.
T Consensus 168 idiLKiDIEG~Ew~~L~~~l~-----------------~~~~Qi~i-------EiH~~~~~~~~~~~~l~~l~~~gfr~ 222 (242)
T PF13383_consen 168 IDILKIDIEGAEWTVLEPLLE-----------------SGVCQILI-------EIHGWPSEHREWYKLLQELEKAGFRL 222 (242)
T ss_pred ccEEEEEcCccHHHHHHHHHh-----------------cCCcEEEE-------EEEeCccchhHHHHHHHHHHHCCcEE
Confidence 455 79999999998776654 35533333 3665432 236899999999964
No 21
>PRK11018 hypothetical protein; Provisional
Probab=58.74 E-value=52 Score=23.31 Aligned_cols=56 Identities=14% Similarity=0.067 Sum_probs=40.9
Q ss_pred EEEEEE-eccchhHHHHHHHHHhhhccccccccccccccccCCceEEEEecCCcEEEEEecCCHHHHHHHHHHcCCceEE
Q 036482 30 IVELMV-HMDCEGCEKRIRRAISKIDVFNQFDVQFSFDFIITGVDSLDIDMDKQKVTVTGYVDERKVLKVVRRTGRKAEF 108 (177)
Q Consensus 30 tv~~~V-~M~C~gC~~kV~kaL~~l~~~~~~~~~~~~~~~~~GV~sV~vd~~~~kVtVtg~vd~~kll~~l~ktG~~ae~ 108 (177)
+.++.+ |+.|..-.-+.+++|.+++ .| +.+. |.++...+.+.|..-+++.|+++..
T Consensus 8 ~~~lD~rG~~CP~Pvl~~kk~l~~l~---------------~G-~~L~-------V~~d~~~a~~di~~~~~~~G~~v~~ 64 (78)
T PRK11018 8 DYRLDMVGEPCPYPAVATLEALPQLK---------------KG-EILE-------VVSDCPQSINNIPLDARNHGYTVLD 64 (78)
T ss_pred CeeEECCCCcCCHHHHHHHHHHHhCC---------------CC-CEEE-------EEeCCccHHHHHHHHHHHcCCEEEE
Confidence 367888 9999999999999999993 23 1111 2233445677888888999998753
No 22
>PF02680 DUF211: Uncharacterized ArCR, COG1888; InterPro: IPR003831 This entry describes proteins of unknown function.; PDB: 3BPD_I 2RAQ_F 2X3D_E.
Probab=55.65 E-value=42 Score=25.69 Aligned_cols=63 Identities=22% Similarity=0.383 Sum_probs=38.6
Q ss_pred eEEEEEEeccchhHHHHHHHHHhhhccccccccccccccccCCceEEE-----EecCCc--EEEEEec-CCHHHHHHHHH
Q 036482 29 AIVELMVHMDCEGCEKRIRRAISKIDVFNQFDVQFSFDFIITGVDSLD-----IDMDKQ--KVTVTGY-VDERKVLKVVR 100 (177)
Q Consensus 29 qtv~~~V~M~C~gC~~kV~kaL~~l~~~~~~~~~~~~~~~~~GV~sV~-----vd~~~~--kVtVtg~-vd~~kll~~l~ 100 (177)
..+.|.|-..=+--.-.+-++|.++ +||..|. +|.... ++||.|. ++.++|.++|+
T Consensus 5 rRlVLDVlKP~~p~i~e~A~~l~~~----------------~gV~gVnitv~EvD~ete~lkitiEG~~id~d~i~~~Ie 68 (95)
T PF02680_consen 5 RRLVLDVLKPHEPSIVELAKALSEL----------------EGVDGVNITVVEVDVETENLKITIEGDDIDFDEIKEAIE 68 (95)
T ss_dssp EEEEEEEEEESSS-HHHHHHHHHTS----------------TTEEEEEEEEEEE-SSEEEEEEEEEESSE-HHHHHHHHH
T ss_pred eEEEEEeecCCCCCHHHHHHHHHhC----------------CCcceEEEEEEEeeccccEEEEEEEeCCCCHHHHHHHHH
Confidence 4456666111222334567778888 8877654 444444 3445575 99999999999
Q ss_pred HcCCceE
Q 036482 101 RTGRKAE 107 (177)
Q Consensus 101 ktG~~ae 107 (177)
+.|-...
T Consensus 69 ~~Gg~IH 75 (95)
T PF02680_consen 69 ELGGVIH 75 (95)
T ss_dssp HTT-EEE
T ss_pred HcCCeEE
Confidence 9998654
No 23
>PF14437 MafB19-deam: MafB19-like deaminase
Probab=54.60 E-value=33 Score=28.08 Aligned_cols=40 Identities=28% Similarity=0.364 Sum_probs=32.7
Q ss_pred EEEEEE-eccchhHHHHHHHHHhhhccccccccccccccccCCceEEEEecC-CcEEEE
Q 036482 30 IVELMV-HMDCEGCEKRIRRAISKIDVFNQFDVQFSFDFIITGVDSLDIDMD-KQKVTV 86 (177)
Q Consensus 30 tv~~~V-~M~C~gC~~kV~kaL~~l~~~~~~~~~~~~~~~~~GV~sV~vd~~-~~kVtV 86 (177)
.+++.| .-.|..|..-|....+++ |++++.|-.. .+++.+
T Consensus 101 ~~tm~Vdr~vC~~C~~~i~~~a~~l-----------------Gl~~L~I~~~~sG~~~~ 142 (146)
T PF14437_consen 101 SMTMYVDRDVCGYCGGDIPSMAEKL-----------------GLKSLTIHEPDSGKVYY 142 (146)
T ss_pred eEEEEECcccchHHHHHHHHHHHHc-----------------CCCeEEEEecCCCcEEE
Confidence 467778 789999999999999998 9999888766 665543
No 24
>COG1888 Uncharacterized protein conserved in archaea [Function unknown]
Probab=53.38 E-value=50 Score=25.40 Aligned_cols=39 Identities=21% Similarity=0.469 Sum_probs=28.1
Q ss_pred CCceEEE-------EecCCcEEEEEec-CCHHHHHHHHHHcCCceEE
Q 036482 70 TGVDSLD-------IDMDKQKVTVTGY-VDERKVLKVVRRTGRKAEF 108 (177)
Q Consensus 70 ~GV~sV~-------vd~~~~kVtVtg~-vd~~kll~~l~ktG~~ae~ 108 (177)
.||+-|. .+..+=++||.|. ++-++|.+.|++.|...+-
T Consensus 32 ~gVegVNItv~eiD~et~~~~itIeG~~ldydei~~~iE~~Gg~IHS 78 (97)
T COG1888 32 EGVEGVNITVTEIDVETENLKITIEGTNLDYDEIEEVIEELGGAIHS 78 (97)
T ss_pred CCcceEEEEEEEeeehhcceEEEEEcCCCCHHHHHHHHHHcCCeeee
Confidence 6765543 3334566777774 8999999999999986653
No 25
>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=52.39 E-value=11 Score=24.83 Aligned_cols=18 Identities=22% Similarity=0.482 Sum_probs=15.2
Q ss_pred EEEEecCCcEEEEEecCC
Q 036482 74 SLDIDMDKQKVTVTGYVD 91 (177)
Q Consensus 74 sV~vd~~~~kVtVtg~vd 91 (177)
++.+...++.|+++|.++
T Consensus 18 ~i~v~v~~g~v~L~G~v~ 35 (64)
T PF04972_consen 18 NISVSVENGVVTLSGEVP 35 (64)
T ss_dssp TEEEEEECTEEEEEEEES
T ss_pred eEEEEEECCEEEEEeeCc
Confidence 577777899999999874
No 26
>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=47.97 E-value=67 Score=23.42 Aligned_cols=53 Identities=23% Similarity=0.236 Sum_probs=33.6
Q ss_pred EEEEEEeccchhHHHHHHHHHhhhccccccccccccccccCCceEEEEecCCcEEEEE--ecCCHHHHHHHHHHc
Q 036482 30 IVELMVHMDCEGCEKRIRRAISKIDVFNQFDVQFSFDFIITGVDSLDIDMDKQKVTVT--GYVDERKVLKVVRRT 102 (177)
Q Consensus 30 tv~~~V~M~C~gC~~kV~kaL~~l~~~~~~~~~~~~~~~~~GV~sV~vd~~~~kVtVt--g~vd~~kll~~l~kt 102 (177)
+++|.-.-.|.. ..+-++|-.+ +||++|.+. .+=|||+ ..++.+.|...|...
T Consensus 25 s~~f~~~~~a~~--spLA~~Lf~i----------------~gV~~Vf~~--~dfItVtK~~~~~W~~l~~~I~~~ 79 (87)
T PF08712_consen 25 SFEFKSAEEASD--SPLAQALFAI----------------PGVKSVFIG--DDFITVTKNPDADWEDLKPEIREV 79 (87)
T ss_dssp --EEESSS-TTS---HHHHHHHTS----------------TTEEEEEEE--TTEEEEEE-TTS-HHHHHHHHHHH
T ss_pred cEEeCChHHccc--CHHHHHhcCC----------------CCEeEEEEE--CCEEEEeeCCCCCHHHHHHHHHHH
Confidence 345554445544 4455556677 999999998 5677777 568888888877643
No 27
>PRK10553 assembly protein for periplasmic nitrate reductase; Provisional
Probab=47.96 E-value=75 Score=23.56 Aligned_cols=42 Identities=14% Similarity=0.197 Sum_probs=29.8
Q ss_pred HHHHHHHHhhhccccccccccccccccCCceEEEEecCCcEEEEEe-cCCHHHHHHHHH
Q 036482 43 EKRIRRAISKIDVFNQFDVQFSFDFIITGVDSLDIDMDKQKVTVTG-YVDERKVLKVVR 100 (177)
Q Consensus 43 ~~kV~kaL~~l~~~~~~~~~~~~~~~~~GV~sV~vd~~~~kVtVtg-~vd~~kll~~l~ 100 (177)
...|+++|..+ +|++=...|..++|+.|+- .-+.+.++..+.
T Consensus 19 ~~~V~~~l~~i----------------pg~Evh~~d~~~GKiVVtiE~~~~~~~~~~i~ 61 (87)
T PRK10553 19 ISDISTQLNAF----------------PGCEVAVSDAPSGQLIVVVEAEDSETLLQTIE 61 (87)
T ss_pred HHHHHHHHHcC----------------CCcEEEeecCCCCeEEEEEEeCChHHHHHHHH
Confidence 56889999999 9997777777888988873 234444444443
No 28
>PF13732 DUF4162: Domain of unknown function (DUF4162)
Probab=47.70 E-value=79 Score=21.66 Aligned_cols=38 Identities=18% Similarity=0.280 Sum_probs=28.2
Q ss_pred CCceEEEEecCC-cEEEEEecCCHHHHHHHHHHcCCceEE
Q 036482 70 TGVDSLDIDMDK-QKVTVTGYVDERKVLKVVRRTGRKAEF 108 (177)
Q Consensus 70 ~GV~sV~vd~~~-~kVtVtg~vd~~kll~~l~ktG~~ae~ 108 (177)
+||.++..+-.. -++.|....+..+|+..|...|. +.-
T Consensus 30 ~~v~~v~~~~~~~~~i~l~~~~~~~~ll~~l~~~g~-I~~ 68 (84)
T PF13732_consen 30 PGVESVEQDGDGKLRIKLEDEETANELLQELIEKGI-IRS 68 (84)
T ss_pred CCeEEEEEeCCcEEEEEECCcccHHHHHHHHHhCCC-eeE
Confidence 899998865433 34555566788999999999998 553
No 29
>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=45.79 E-value=75 Score=20.97 Aligned_cols=53 Identities=15% Similarity=0.184 Sum_probs=37.4
Q ss_pred EEE-eccchhHHHHHHHHHhhhccccccccccccccccCCceEEEEecCCcEEEEE--ecCCHHHHHHHHHHcCCceEEc
Q 036482 33 LMV-HMDCEGCEKRIRRAISKIDVFNQFDVQFSFDFIITGVDSLDIDMDKQKVTVT--GYVDERKVLKVVRRTGRKAEFW 109 (177)
Q Consensus 33 ~~V-~M~C~gC~~kV~kaL~~l~~~~~~~~~~~~~~~~~GV~sV~vd~~~~kVtVt--g~vd~~kll~~l~ktG~~ae~~ 109 (177)
+.+ ++.|..=.-+++++|.++. .| +.+.|. .......|.+.+++.|++....
T Consensus 2 lD~rg~~CP~Pl~~~~~~l~~l~---------------~g----------~~l~v~~d~~~~~~~i~~~~~~~g~~~~~~ 56 (69)
T cd00291 2 LDLRGLPCPLPVLKTKKALEKLK---------------SG----------EVLEVLLDDPGAVEDIPAWAKETGHEVLEV 56 (69)
T ss_pred ccccCCcCCHHHHHHHHHHhcCC---------------CC----------CEEEEEecCCcHHHHHHHHHHHcCCEEEEE
Confidence 344 7899999999999999982 22 233333 2345788899999999986544
Q ss_pred c
Q 036482 110 P 110 (177)
Q Consensus 110 p 110 (177)
.
T Consensus 57 ~ 57 (69)
T cd00291 57 E 57 (69)
T ss_pred E
Confidence 3
No 30
>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=45.45 E-value=1e+02 Score=22.07 Aligned_cols=43 Identities=21% Similarity=0.315 Sum_probs=30.0
Q ss_pred HHHHHHHHhhhccccccccccccccccCCceEEEEecCCcEEEEEe-cCCHHHHHHHHHHc
Q 036482 43 EKRIRRAISKIDVFNQFDVQFSFDFIITGVDSLDIDMDKQKVTVTG-YVDERKVLKVVRRT 102 (177)
Q Consensus 43 ~~kV~kaL~~l~~~~~~~~~~~~~~~~~GV~sV~vd~~~~kVtVtg-~vd~~kll~~l~kt 102 (177)
...|+++|..+ +|++=...+.+ +|+.|+- .-+.+.+.+.+...
T Consensus 17 ~~~v~~~l~~~----------------~gvEVh~~~~~-GKiVVtiE~~~~~~~~~~~~~i 60 (79)
T PF03927_consen 17 LEEVAEALAAI----------------PGVEVHAVDED-GKIVVTIEAESSEEEVDLIDAI 60 (79)
T ss_dssp HHHHHHHHCCS----------------TTEEEEEEETT-TEEEEEEEESSHHHHHHHHHHH
T ss_pred HHHHHHHHHcC----------------CCcEEEeeCCC-CeEEEEEEeCChHHHHHHHHHH
Confidence 45789999999 99965566665 8888773 34556666666544
No 31
>PHA01634 hypothetical protein
Probab=45.35 E-value=8.1 Score=31.77 Aligned_cols=17 Identities=41% Similarity=1.015 Sum_probs=13.1
Q ss_pred EEE-eccchhHHHHHHHH
Q 036482 33 LMV-HMDCEGCEKRIRRA 49 (177)
Q Consensus 33 ~~V-~M~C~gC~~kV~ka 49 (177)
+.+ -|+|+||+++|.-.
T Consensus 93 ~Di~~iDCeGCE~~l~v~ 110 (156)
T PHA01634 93 VDIFVMDCEGCEEKLNVS 110 (156)
T ss_pred cceEEEEccchHHhcCHH
Confidence 345 69999999998643
No 32
>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=41.66 E-value=1.1e+02 Score=20.66 Aligned_cols=38 Identities=26% Similarity=0.503 Sum_probs=24.4
Q ss_pred HHHHHHHHhhhccccccccccccccccCC-ceEEEEecCCcEEEEE
Q 036482 43 EKRIRRAISKIDVFNQFDVQFSFDFIITG-VDSLDIDMDKQKVTVT 87 (177)
Q Consensus 43 ~~kV~kaL~~l~~~~~~~~~~~~~~~~~G-V~sV~vd~~~~kVtVt 87 (177)
+.+|+++|.++. |..+.-|+..-| |+++.++- ++|+|+
T Consensus 1 k~~V~~aL~~v~-----dP~~~~~iv~~g~V~~i~i~~--~~V~v~ 39 (72)
T PF01883_consen 1 KQAVRDALKQVK-----DPELGKDIVELGMVRDISIEG--GKVSVS 39 (72)
T ss_dssp HHHHHHHHTT-B-----ETTTSSBTTTTTSEEEEEECT--CEEEEE
T ss_pred CHHHHHHHhCCC-----CCCCCCCHHHcCCeeEEEEEC--CEEEEE
Confidence 467899999983 334444554444 88888874 777765
No 33
>PF01849 NAC: NAC domain; InterPro: IPR002715 Nascent polypeptide-associated complex (NAC) is among the first ribosome-associated entities to bind the nascent polypeptide after peptide bond formation. The nascent polypeptide-associated complex (NAC) of yeast functions in the targeting process of ribosomes to the ER membrane []. NAC may prevent binding of ribosome nascent chains (RNCs) without a signal sequence to yeast membranes.; PDB: 3MCE_D 3MCB_A 3LKX_B 1TR8_B.
Probab=38.88 E-value=38 Score=22.77 Aligned_cols=33 Identities=24% Similarity=0.486 Sum_probs=18.1
Q ss_pred HHHHHHHHhhhccccccccccccccccCCceEEEEecCCcEEEE
Q 036482 43 EKRIRRAISKIDVFNQFDVQFSFDFIITGVDSLDIDMDKQKVTV 86 (177)
Q Consensus 43 ~~kV~kaL~~l~~~~~~~~~~~~~~~~~GV~sV~vd~~~~kVtV 86 (177)
+++++++|.++-...- +||.+|.+-...+++.+
T Consensus 1 ekk~~~~l~klgl~~i-----------~~i~eV~i~~~dg~~~~ 33 (58)
T PF01849_consen 1 EKKLQKMLKKLGLKEI-----------PGIEEVTIRKDDGTVFV 33 (58)
T ss_dssp -------GHHCT-EEE-----------TTEEEEEEEETTTEEEE
T ss_pred CHHHHHHHHHcCCccc-----------CCcEEEEEEECCceEEE
Confidence 3677888888743222 78988988888877765
No 34
>PRK11023 outer membrane lipoprotein; Provisional
Probab=37.93 E-value=72 Score=26.27 Aligned_cols=47 Identities=21% Similarity=0.265 Sum_probs=33.5
Q ss_pred ccchhHHHHHHHHHhhhccccccccccccccccCCce---EEEEecCCcEEEEEecCCHHHHHHHH
Q 036482 37 MDCEGCEKRIRRAISKIDVFNQFDVQFSFDFIITGVD---SLDIDMDKQKVTVTGYVDERKVLKVV 99 (177)
Q Consensus 37 M~C~gC~~kV~kaL~~l~~~~~~~~~~~~~~~~~GV~---sV~vd~~~~kVtVtg~vd~~kll~~l 99 (177)
++-..=+.+|+.+|..- +++. ++.+.-.+++|+++|.++.+......
T Consensus 45 ~dD~~i~~~V~~aL~~~----------------~~l~~~~~I~V~v~~G~V~L~G~V~~~~~k~~A 94 (191)
T PRK11023 45 VDDGTLELRVNNALSKD----------------EQIKKEARINVTAYQGKVLLTGQSPNAELSERA 94 (191)
T ss_pred ehhHHHHHHHHHHHhhC----------------cccCcCceEEEEEECCEEEEEEEeCCHHHHHHH
Confidence 45666778888888764 4442 57788889999999998755444433
No 35
>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=37.78 E-value=1e+02 Score=21.00 Aligned_cols=52 Identities=17% Similarity=0.275 Sum_probs=37.9
Q ss_pred EEE-eccchhHHHHHHHHHhhhccccccccccccccccCCceEEEEecCCcEEEEE--ecCCHHHHHHHHHHcCCceEEc
Q 036482 33 LMV-HMDCEGCEKRIRRAISKIDVFNQFDVQFSFDFIITGVDSLDIDMDKQKVTVT--GYVDERKVLKVVRRTGRKAEFW 109 (177)
Q Consensus 33 ~~V-~M~C~gC~~kV~kaL~~l~~~~~~~~~~~~~~~~~GV~sV~vd~~~~kVtVt--g~vd~~kll~~l~ktG~~ae~~ 109 (177)
+.+ |+.|..=.-+++++|.++. .| +.++|. ...+.+.|.+-.++.|++....
T Consensus 2 lD~rG~~CP~Pvl~~kkal~~l~---------------~G----------~~l~V~~d~~~a~~di~~~~~~~G~~~~~~ 56 (69)
T cd03420 2 VDACGLQCPGPILKLKKEIDKLQ---------------DG----------EQLEVKASDPGFARDAQAWCKSTGNTLISL 56 (69)
T ss_pred cccCCCcCCHHHHHHHHHHHcCC---------------CC----------CEEEEEECCccHHHHHHHHHHHcCCEEEEE
Confidence 445 8999999999999999992 12 233333 3456788888899999987643
No 36
>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=36.49 E-value=1.1e+02 Score=21.38 Aligned_cols=64 Identities=16% Similarity=0.315 Sum_probs=43.5
Q ss_pred EEEEeccchhHHHHHHHHHhhhccccccccccccccccCCceEEEEecCCcEEEEE--ecCCHHHHHHHHHH-cCCceEE
Q 036482 32 ELMVHMDCEGCEKRIRRAISKIDVFNQFDVQFSFDFIITGVDSLDIDMDKQKVTVT--GYVDERKVLKVVRR-TGRKAEF 108 (177)
Q Consensus 32 ~~~V~M~C~gC~~kV~kaL~~l~~~~~~~~~~~~~~~~~GV~sV~vd~~~~kVtVt--g~vd~~kll~~l~k-tG~~ae~ 108 (177)
.+.|.-.=.+=..++.++|.++...+ +++ ++..|..++.+.|. |.+-.+.++.+|++ .|..+++
T Consensus 7 ~~~i~p~~~~d~~kl~~aL~~l~~eD------------P~l-~~~~d~et~e~~l~g~Gelhlev~~~~L~~~~~v~v~~ 73 (75)
T PF14492_consen 7 SVAIEPKNKEDEPKLSEALQKLSEED------------PSL-RVERDEETGELILSGMGELHLEVLLERLKRRFGVEVEF 73 (75)
T ss_dssp EEEEEESSHHHHHHHHHHHHHHHHH-------------TTS-EEEEETTTSEEEEEESSHHHHHHHHHHHHHTTCEBEEE
T ss_pred EEEEEECCHhHHHHHHHHHHHHHhcC------------CeE-EEEEcchhceEEEEECCHHHHHHHHHHHHHHHCCeeEe
Confidence 34443344566778888888884322 344 68889888988887 56778888888864 4655543
No 37
>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=35.95 E-value=1.5e+02 Score=21.46 Aligned_cols=38 Identities=21% Similarity=0.315 Sum_probs=28.4
Q ss_pred CceEEEEecCCcEEEEE----ecCCHHHHHHHHHH-cCCceEE
Q 036482 71 GVDSLDIDMDKQKVTVT----GYVDERKVLKVVRR-TGRKAEF 108 (177)
Q Consensus 71 GV~sV~vd~~~~kVtVt----g~vd~~kll~~l~k-tG~~ae~ 108 (177)
.+..++...+.+|+++- +.+|-..|++.|.+ .+-++++
T Consensus 43 ~lvd~e~~~D~~k~~fyy~a~~rvDFR~Lvr~L~~~f~~RIem 85 (88)
T PF04468_consen 43 KLVDVEYQFDGSKLTFYYTAESRVDFRELVRDLAREFKTRIEM 85 (88)
T ss_pred EEEEEEEEcCCCEEEEEEEeCCcCcHHHHHHHHHHHhCceEEE
Confidence 35678888899999984 56999999999864 4444444
No 38
>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=35.87 E-value=1.5e+02 Score=20.67 Aligned_cols=56 Identities=14% Similarity=0.404 Sum_probs=29.5
Q ss_pred cchhH-----HHHHHHHHhhhcccccccc---ccccccccCCceEEEEecCCcEEEEE----e-cCCHHHHHHHHHH
Q 036482 38 DCEGC-----EKRIRRAISKIDVFNQFDV---QFSFDFIITGVDSLDIDMDKQKVTVT----G-YVDERKVLKVVRR 101 (177)
Q Consensus 38 ~C~gC-----~~kV~kaL~~l~~~~~~~~---~~~~~~~~~GV~sV~vd~~~~kVtVt----g-~vd~~kll~~l~k 101 (177)
-|.+| +..+++.|... |.. ..+......|+-.|.+| +++.-. | ..++++|+++|++
T Consensus 7 YC~~C~~~~~a~~l~~~l~~~-----fp~~~~~v~~~~~~~G~FEV~v~---g~lI~SK~~~g~fP~~~~i~~~I~~ 75 (76)
T PF10262_consen 7 YCTSCGYRPRALELAQELLQT-----FPDRIAEVELSPGSTGAFEVTVN---GELIFSKLESGRFPDPDEIVQLIRD 75 (76)
T ss_dssp EETTTTCHHHHHHHHHHHHHH-----STTTCSEEEEEEESTT-EEEEET---TEEEEEHHHHTSSS-HHHHHHHHHH
T ss_pred ECCCCCCHHHHHHHHHHHHHH-----CCCcceEEEEEeccCCEEEEEEc---cEEEEEehhcCCCCCHHHHHHHHhc
Confidence 57888 34445555444 433 22333344666666665 344333 2 3578888888874
No 39
>PF13740 ACT_6: ACT domain; PDB: 1ZPV_A 3P96_A 1U8S_A.
Probab=35.32 E-value=1.1e+02 Score=21.04 Aligned_cols=58 Identities=7% Similarity=0.027 Sum_probs=36.3
Q ss_pred EEEEEE-eccchhHHHHHHHHHhhhccccccccccccccccCCceEEEEecCCcEEEEE----ec-CCHHHHHHHHHHc
Q 036482 30 IVELMV-HMDCEGCEKRIRRAISKIDVFNQFDVQFSFDFIITGVDSLDIDMDKQKVTVT----GY-VDERKVLKVVRRT 102 (177)
Q Consensus 30 tv~~~V-~M~C~gC~~kV~kaL~~l~~~~~~~~~~~~~~~~~GV~sV~vd~~~~kVtVt----g~-vd~~kll~~l~kt 102 (177)
.+.+.| |.+..|-...|.++|.+..+ .|..+....-.+..+.. +. -+.++|.++|++.
T Consensus 2 ~~vItv~G~DrpGiv~~v~~~l~~~g~---------------ni~d~~~~~~~~~f~~~~~v~~~~~~~~~l~~~L~~l 65 (76)
T PF13740_consen 2 QLVITVVGPDRPGIVAAVTGVLAEHGC---------------NIEDSRQAVLGGRFTLIMLVSIPEDSLERLESALEEL 65 (76)
T ss_dssp EEEEEEEEE--TTHHHHHHHHHHCTT----------------EEEEEEEEEETTEEEEEEEEEESHHHHHHHHHHHHHH
T ss_pred EEEEEEEecCCCcHHHHHHHHHHHCCC---------------cEEEEEEEEEcCeEEEEEEEEeCcccHHHHHHHHHHH
Confidence 456777 99999999999999999821 25555555555665532 32 2455666666543
No 40
>PRK00299 sulfur transfer protein SirA; Reviewed
Probab=35.04 E-value=1.7e+02 Score=20.83 Aligned_cols=56 Identities=9% Similarity=0.056 Sum_probs=40.2
Q ss_pred EEEEEE-eccchhHHHHHHHHHhhhccccccccccccccccCCceEEEEecCCcEEEEEecCCHHHHHHHHHHcCCceEE
Q 036482 30 IVELMV-HMDCEGCEKRIRRAISKIDVFNQFDVQFSFDFIITGVDSLDIDMDKQKVTVTGYVDERKVLKVVRRTGRKAEF 108 (177)
Q Consensus 30 tv~~~V-~M~C~gC~~kV~kaL~~l~~~~~~~~~~~~~~~~~GV~sV~vd~~~~kVtVtg~vd~~kll~~l~ktG~~ae~ 108 (177)
..++.+ |+.|..=.-+++++|+++.. +++-. |.++.....+.|....++.|.+..-
T Consensus 9 ~~~lD~~Gl~CP~Pll~~kk~l~~l~~--------------G~~l~---------V~~dd~~~~~di~~~~~~~G~~~~~ 65 (81)
T PRK00299 9 DHTLDALGLRCPEPVMMVRKTVRNMQP--------------GETLL---------IIADDPATTRDIPSFCRFMDHELLA 65 (81)
T ss_pred CeEEecCCCCCCHHHHHHHHHHHcCCC--------------CCEEE---------EEeCCccHHHHHHHHHHHcCCEEEE
Confidence 467788 99999999999999999931 22221 2223345677888888999998754
No 41
>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=34.58 E-value=1.3e+02 Score=20.59 Aligned_cols=50 Identities=16% Similarity=0.097 Sum_probs=36.6
Q ss_pred eccchhHHHHHHHHHhhhccccccccccccccccCCceEEEEecCCcEEEEEecCCHHHHHHHHHHcCCceEE
Q 036482 36 HMDCEGCEKRIRRAISKIDVFNQFDVQFSFDFIITGVDSLDIDMDKQKVTVTGYVDERKVLKVVRRTGRKAEF 108 (177)
Q Consensus 36 ~M~C~gC~~kV~kaL~~l~~~~~~~~~~~~~~~~~GV~sV~vd~~~~kVtVtg~vd~~kll~~l~ktG~~ae~ 108 (177)
|..|..=.-+.+++|+++. .| +.+ .|.++...+.+.|.+-+++.|+++..
T Consensus 6 G~~CP~Pvi~~kkal~~l~---------------~G-~~l-------~V~~d~~~s~~ni~~~~~~~g~~v~~ 55 (69)
T cd03422 6 GEPCPYPAIATLEALPSLK---------------PG-EIL-------EVISDCPQSINNIPIDARNHGYKVLA 55 (69)
T ss_pred CCcCCHHHHHHHHHHHcCC---------------CC-CEE-------EEEecCchHHHHHHHHHHHcCCEEEE
Confidence 7899999999999999992 23 111 12234456778888889999998753
No 42
>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=32.55 E-value=62 Score=26.80 Aligned_cols=34 Identities=15% Similarity=0.542 Sum_probs=22.3
Q ss_pred EEEEEEeccchhHH------HHHHHHHhhhccccccccccccccccCCceEEEEec
Q 036482 30 IVELMVHMDCEGCE------KRIRRAISKIDVFNQFDVQFSFDFIITGVDSLDIDM 79 (177)
Q Consensus 30 tv~~~V~M~C~gC~------~kV~kaL~~l~~~~~~~~~~~~~~~~~GV~sV~vd~ 79 (177)
++.+.|.+...+|. ..|+.+|..+ +||++|.+++
T Consensus 114 ~V~I~mtLt~p~c~~~~~L~~dV~~aL~~l----------------~gV~~V~V~l 153 (174)
T TIGR03406 114 RVDIEMTLTAPGCGMGPVLVEDVEDKVLAV----------------PNVDEVEVEL 153 (174)
T ss_pred EEEEEEEeCCCCCcHHHHHHHHHHHHHHhC----------------CCceeEEEEE
Confidence 35555545544443 3477778888 8999888873
No 43
>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=31.47 E-value=77 Score=23.85 Aligned_cols=31 Identities=23% Similarity=0.282 Sum_probs=26.1
Q ss_pred cEEEEEecCCHHHHHHHHHHcCCceEEccCC
Q 036482 82 QKVTVTGYVDERKVLKVVRRTGRKAEFWPFP 112 (177)
Q Consensus 82 ~kVtVtg~vd~~kll~~l~ktG~~ae~~p~p 112 (177)
.-|.|+|+-|-..+++.|++.|+++.++..+
T Consensus 102 ~ivLvSgD~Df~~~i~~lr~~G~~V~v~~~~ 132 (149)
T cd06167 102 TIVLVSGDSDFVPLVERLRELGKRVIVVGFE 132 (149)
T ss_pred EEEEEECCccHHHHHHHHHHcCCEEEEEccC
Confidence 3445688899999999999999999988765
No 44
>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=30.64 E-value=1.8e+02 Score=19.80 Aligned_cols=48 Identities=15% Similarity=0.220 Sum_probs=36.4
Q ss_pred eccchhHHHHHHHHHhhhccccccccccccccccCCceEEEEecCCcEEE--EEecCCHHHHHHHHHHcCCceEE
Q 036482 36 HMDCEGCEKRIRRAISKIDVFNQFDVQFSFDFIITGVDSLDIDMDKQKVT--VTGYVDERKVLKVVRRTGRKAEF 108 (177)
Q Consensus 36 ~M~C~gC~~kV~kaL~~l~~~~~~~~~~~~~~~~~GV~sV~vd~~~~kVt--Vtg~vd~~kll~~l~ktG~~ae~ 108 (177)
|..|..=.-+++++|.++. .| +.++ ++...+.+.|.+.+++.|++...
T Consensus 6 G~~CP~P~i~~k~~l~~l~---------------~G----------~~l~V~~dd~~s~~di~~~~~~~g~~~~~ 55 (69)
T cd03423 6 GLRCPEPVMMLHKKVRKMK---------------PG----------DTLLVLATDPSTTRDIPKFCTFLGHELLA 55 (69)
T ss_pred CCcCCHHHHHHHHHHHcCC---------------CC----------CEEEEEeCCCchHHHHHHHHHHcCCEEEE
Confidence 7899999999999999982 23 2233 33456778899999999998764
No 45
>TIGR03027 pepcterm_export putative polysaccharide export protein, PEP-CTERM sytem-associated. This protein family belongs to the larger set of polysaccharide biosynthesis/export proteins described by Pfam model pfam02563. Members of this family are variable in either containing of lacking a 78-residue insert, but appear to fall within a single clade, nevertheless, where the regions in which the gene is found encode components of the PEP-CTERM/EpsH proposed exosortase protein sorting system.
Probab=30.16 E-value=1.3e+02 Score=23.74 Aligned_cols=59 Identities=15% Similarity=0.144 Sum_probs=40.4
Q ss_pred EEEE-eccchhHHHHHHHHHhhhccccccccccccccccCCceEEEEec----CCcEEEEEecCC---------HHHHHH
Q 036482 32 ELMV-HMDCEGCEKRIRRAISKIDVFNQFDVQFSFDFIITGVDSLDIDM----DKQKVTVTGYVD---------ERKVLK 97 (177)
Q Consensus 32 ~~~V-~M~C~gC~~kV~kaL~~l~~~~~~~~~~~~~~~~~GV~sV~vd~----~~~kVtVtg~vd---------~~kll~ 97 (177)
.++| |++.+.=++.|++.|++.- ..+-| .|.+.. ..++|+|.|.+. ...|+.
T Consensus 38 ~v~v~G~T~~e~~~~I~~~l~~~~-------------~~p~v-~V~v~~~~~~~~~~V~V~GeV~~PG~y~~~~~~tl~~ 103 (165)
T TIGR03027 38 DLVASGKTPTQLARDIEEKLAKYV-------------RNPVV-TVIVTGFIGPFSEQIRVVGAAANPQALPYREGMTLLD 103 (165)
T ss_pred eEEECCCCHHHHHHHHHHHHHHhc-------------cCCeE-EEEEeecccCCCcEEEEEEEeCCCceeeeCCCCcHHH
Confidence 5678 9999999999999998861 00222 344432 357899987543 456788
Q ss_pred HHHHcCC
Q 036482 98 VVRRTGR 104 (177)
Q Consensus 98 ~l~ktG~ 104 (177)
+|..+|-
T Consensus 104 ai~~AGG 110 (165)
T TIGR03027 104 VMIAVGG 110 (165)
T ss_pred HHHHcCC
Confidence 8877764
No 46
>PRK13276 cell wall biosynthesis protein ScdA; Provisional
Probab=29.40 E-value=47 Score=28.71 Aligned_cols=19 Identities=37% Similarity=0.501 Sum_probs=15.3
Q ss_pred EEecc-chhHHHHHHHHH-hh
Q 036482 34 MVHMD-CEGCEKRIRRAI-SK 52 (177)
Q Consensus 34 ~V~M~-C~gC~~kV~kaL-~~ 52 (177)
+.+|+ |+||...++.++ ..
T Consensus 24 ~~gIdfCcgg~~tLeeA~~~~ 44 (224)
T PRK13276 24 SVGIDFCCGGQVSIEAASLEK 44 (224)
T ss_pred HcCCCcCCCCChhHHHHHHHH
Confidence 34788 999999999998 44
No 47
>PRK15078 polysaccharide export protein Wza; Provisional
Probab=28.99 E-value=1.4e+02 Score=27.39 Aligned_cols=59 Identities=22% Similarity=0.264 Sum_probs=41.3
Q ss_pred EEEE-eccchhHHHHHHHHHhhhccccccccccccccccCCceEEEEe-cCCcEEEEEecCC----------HHHHHHHH
Q 036482 32 ELMV-HMDCEGCEKRIRRAISKIDVFNQFDVQFSFDFIITGVDSLDID-MDKQKVTVTGYVD----------ERKVLKVV 99 (177)
Q Consensus 32 ~~~V-~M~C~gC~~kV~kaL~~l~~~~~~~~~~~~~~~~~GV~sV~vd-~~~~kVtVtg~vd----------~~kll~~l 99 (177)
.++| |++-+.=++.|++.|.+.- ..+-| .|.+. ...++|+|.|.+. +..|+.+|
T Consensus 133 ~V~vaG~T~~e~~~~I~~~L~~~~-------------~~PqV-~V~v~~~~s~~V~V~GeV~~PG~~~l~~~~~tlldaI 198 (379)
T PRK15078 133 KVHVAGKTVTEIRSDITGRLAKYI-------------ESPQV-DVNIAAFRSQKAYVTGEVNKSGQQAITNVPLTILDAI 198 (379)
T ss_pred eEEECCCCHHHHHHHHHHHHHHhc-------------cCCeE-EEEEccCCceEEEEEceecCCeEEEecCCCccHHHHH
Confidence 5788 9999999999999998861 11333 23332 3567899987532 46788998
Q ss_pred HHcCC
Q 036482 100 RRTGR 104 (177)
Q Consensus 100 ~ktG~ 104 (177)
..+|-
T Consensus 199 a~AGG 203 (379)
T PRK15078 199 NAAGG 203 (379)
T ss_pred HHccC
Confidence 87765
No 48
>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=28.96 E-value=66 Score=23.20 Aligned_cols=21 Identities=19% Similarity=0.493 Sum_probs=15.5
Q ss_pred HHHHHHHhhhccccccccccccccccCCceEEEEecC
Q 036482 44 KRIRRAISKIDVFNQFDVQFSFDFIITGVDSLDIDMD 80 (177)
Q Consensus 44 ~kV~kaL~~l~~~~~~~~~~~~~~~~~GV~sV~vd~~ 80 (177)
..++.+|..+ +|+++|.+++.
T Consensus 58 ~~i~~al~~l----------------~gv~~v~v~i~ 78 (99)
T TIGR02945 58 GEVENAVRAV----------------PGVGSVTVELV 78 (99)
T ss_pred HHHHHHHHhC----------------CCCceEEEEEE
Confidence 3466777777 89999988743
No 49
>PRK11198 LysM domain/BON superfamily protein; Provisional
Probab=28.84 E-value=1.2e+02 Score=24.05 Aligned_cols=27 Identities=15% Similarity=0.295 Sum_probs=17.2
Q ss_pred ceEEEEecCCcEEEEEecCCHHHHHHH
Q 036482 72 VDSLDIDMDKQKVTVTGYVDERKVLKV 98 (177)
Q Consensus 72 V~sV~vd~~~~kVtVtg~vd~~kll~~ 98 (177)
+..+.+...++.|++.|.+.......+
T Consensus 42 ~~~i~V~v~~G~v~l~G~v~s~~~~~~ 68 (147)
T PRK11198 42 DADVNVQVEDGKATVSGDAASQEAKEK 68 (147)
T ss_pred cCCceEEEeCCEEEEEEEeCCHHHHHH
Confidence 333455556999999998754433333
No 50
>PRK11023 outer membrane lipoprotein; Provisional
Probab=28.33 E-value=1.3e+02 Score=24.68 Aligned_cols=43 Identities=14% Similarity=0.271 Sum_probs=29.7
Q ss_pred hHHHHHHHHHhhhccccccccccccccccCCc--eEEEEecCCcEEEEEecCCHHHHHHHH
Q 036482 41 GCEKRIRRAISKIDVFNQFDVQFSFDFIITGV--DSLDIDMDKQKVTVTGYVDERKVLKVV 99 (177)
Q Consensus 41 gC~~kV~kaL~~l~~~~~~~~~~~~~~~~~GV--~sV~vd~~~~kVtVtg~vd~~kll~~l 99 (177)
.=..+|+.+|..- +++ .++.+.-.++.|++.|.++.++..++.
T Consensus 127 ~It~kik~~L~~~----------------~~v~~~~I~V~t~~G~V~L~G~v~~~e~~~a~ 171 (191)
T PRK11023 127 WITTKVRSQLLTS----------------DSVKSSNVKVTTENGEVFLLGLVTQREAKAAA 171 (191)
T ss_pred HHHHHHHHHHhcC----------------CCCCcceEEEEEECcEEEEEEEeCHHHHHHHH
Confidence 3566888888765 232 356677779999999998876554433
No 51
>COG2151 PaaD Predicted metal-sulfur cluster biosynthetic enzyme [General function prediction only]
Probab=27.53 E-value=1e+02 Score=23.91 Aligned_cols=33 Identities=21% Similarity=0.694 Sum_probs=26.0
Q ss_pred EEEEEEeccchhH------HHHHHHHHhhhccccccccccccccccCCceEEEEe
Q 036482 30 IVELMVHMDCEGC------EKRIRRAISKIDVFNQFDVQFSFDFIITGVDSLDID 78 (177)
Q Consensus 30 tv~~~V~M~C~gC------~~kV~kaL~~l~~~~~~~~~~~~~~~~~GV~sV~vd 78 (177)
.+.+.+.++-.|| ...|+++|..+ +||+.++++
T Consensus 50 ~v~v~mtlT~~gCP~~~~i~~~v~~al~~~----------------~~v~~v~V~ 88 (111)
T COG2151 50 LVKVKMTLTSPGCPLAEVIADQVEAALEEI----------------PGVEDVEVE 88 (111)
T ss_pred eEEEEEecCCCCCCccHHHHHHHHHHHHhc----------------CCcceEEEE
Confidence 4666666666777 56899999999 899988776
No 52
>PF00352 TBP: Transcription factor TFIID (or TATA-binding protein, TBP); InterPro: IPR000814 The TATA-box binding protein (TBP) is required for the initiation of transcription by RNA polymerases I, II and III, from promoters with or without a TATA box [, ]. TBP associates with a host of factors, including the general transcription factors TFIIA, -B, -D, -E, and -H, to form huge multi-subunit pre-initiation complexes on the core promoter. Through its association with different transcription factors, TBP can initiate transcription from different RNA polymerases. There are several related TBPs, including TBP-like (TBPL) proteins []. The C-terminal core of TBP (~180 residues) is highly conserved and contains two 77-amino acid repeats that produce a saddle-shaped structure that straddles the DNA; this region binds to the TATA box and interacts with transcription factors and regulatory proteins []. By contrast, the N-terminal region varies in both length and sequence.; GO: 0003677 DNA binding, 0006355 regulation of transcription, DNA-dependent, 0006367 transcription initiation from RNA polymerase II promoter; PDB: 1D3U_A 1PCZ_B 1AIS_A 1NGM_A 1TBP_A 1TBA_B 1YTB_A 1RM1_A 1YTF_A 1NH2_A ....
Probab=26.69 E-value=96 Score=22.12 Aligned_cols=23 Identities=22% Similarity=0.421 Sum_probs=17.8
Q ss_pred cCCcEEEEEecCCHHHHHHHHHH
Q 036482 79 MDKQKVTVTGYVDERKVLKVVRR 101 (177)
Q Consensus 79 ~~~~kVtVtg~vd~~kll~~l~k 101 (177)
..++|++|+|.-+++++.+++++
T Consensus 55 F~sGki~itGaks~~~~~~a~~~ 77 (86)
T PF00352_consen 55 FSSGKIVITGAKSEEEAKKAIEK 77 (86)
T ss_dssp ETTSEEEEEEESSHHHHHHHHHH
T ss_pred EcCCEEEEEecCCHHHHHHHHHH
Confidence 36899999998887777766654
No 53
>PF02107 FlgH: Flagellar L-ring protein; InterPro: IPR000527 The flgH, flgI and fliF genes of Salmonella typhimurium encode the major proteins for the L, P and M rings of the flagellar basal body []. In fact, the basal body consists of four rings (L,P,S and M) surrounding the flagellar rod, which is believed to transmit motor rotation to the filament []. The M ring is integral to the inner membrane of the cell, and may be connected to the rod via the S (supramembrane) ring, which lies just distal to it. The L and P rings reside in the outer membrane and periplasmic space, respectively. FlgH and FlgI, which are exported across the cell membrane to their destinations in the outer membrane and periplasmic space, have typical N-terminal cleaved signal-peptide sequences. FlgH is predicted to have an extensive beta-sheet structure, in keeping with other outer membrane proteins [].; GO: 0003774 motor activity, 0001539 ciliary or flagellar motility, 0009427 bacterial-type flagellum basal body, distal rod, L ring
Probab=26.51 E-value=42 Score=27.62 Aligned_cols=30 Identities=17% Similarity=0.422 Sum_probs=25.8
Q ss_pred cccCCceEEEEecCCcEEEEEecCCHHHHH
Q 036482 67 FIITGVDSLDIDMDKQKVTVTGYVDERKVL 96 (177)
Q Consensus 67 ~~~~GV~sV~vd~~~~kVtVtg~vd~~kll 96 (177)
|.+.|-+.+.++-..+.++|+|.+.|+.|-
T Consensus 109 L~I~G~k~i~vn~e~~~i~lsGiVRp~DI~ 138 (179)
T PF02107_consen 109 LVIEGEKQIRVNGEEQYIRLSGIVRPEDID 138 (179)
T ss_pred EEEEEEEEEEECCCEEEEEEEEEECHHHCC
Confidence 445889999999999999999999988874
No 54
>smart00749 BON bacterial OsmY and nodulation domain.
Probab=26.03 E-value=1.7e+02 Score=18.05 Aligned_cols=18 Identities=22% Similarity=0.189 Sum_probs=12.3
Q ss_pred EEEecCCcEEEEEecCCH
Q 036482 75 LDIDMDKQKVTVTGYVDE 92 (177)
Q Consensus 75 V~vd~~~~kVtVtg~vd~ 92 (177)
+.+.-..+.+++.|.+.+
T Consensus 19 ~~v~~~~~~vvL~g~~~~ 36 (62)
T smart00749 19 IVVVTDGGVVVLLGGVVD 36 (62)
T ss_pred eEEEEECCEEEEeeecCC
Confidence 555556788888877544
No 55
>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=25.86 E-value=2.1e+02 Score=19.07 Aligned_cols=17 Identities=18% Similarity=0.577 Sum_probs=13.9
Q ss_pred eccchhHHHHHHHHHhhh
Q 036482 36 HMDCEGCEKRIRRAISKI 53 (177)
Q Consensus 36 ~M~C~gC~~kV~kaL~~l 53 (177)
.-.|..|. ++++.|.+.
T Consensus 6 ~~~Cp~C~-~ak~~L~~~ 22 (72)
T TIGR02194 6 KNNCVQCK-MTKKALEEH 22 (72)
T ss_pred CCCCHHHH-HHHHHHHHC
Confidence 46899998 788888876
No 56
>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=25.23 E-value=2.7e+02 Score=22.75 Aligned_cols=43 Identities=19% Similarity=0.326 Sum_probs=31.0
Q ss_pred CCceEEEEecCCcEEEEEe----c---CCHHHHHHHHHHcCCceEEccCC
Q 036482 70 TGVDSLDIDMDKQKVTVTG----Y---VDERKVLKVVRRTGRKAEFWPFP 112 (177)
Q Consensus 70 ~GV~sV~vd~~~~kVtVtg----~---vd~~kll~~l~ktG~~ae~~p~p 112 (177)
.||+++.+|...+.|+|.. . -...-+.+..+++|.+....-.|
T Consensus 66 a~i~di~Fd~~tGEV~IeaeKPG~ViGk~g~~~reI~~~tgW~p~vvRtp 115 (145)
T cd02410 66 AGITDIYFDDDTGEVIIEAEKPGLVIGKGGSTLREITRETGWAPKVVRTP 115 (145)
T ss_pred cCceeeEecCCCcEEEEEEcCCeEEEecCchhHHHHHHHhCCeeEEEecC
Confidence 5899999999999999863 2 12333455567999988765443
No 57
>COG0425 SirA Predicted redox protein, regulator of disulfide bond formation [Posttranslational modification, protein turnover, chaperones]
Probab=24.81 E-value=1.2e+02 Score=21.78 Aligned_cols=25 Identities=20% Similarity=0.340 Sum_probs=22.6
Q ss_pred EEEEEE-eccchhHHHHHHHHHhhhc
Q 036482 30 IVELMV-HMDCEGCEKRIRRAISKID 54 (177)
Q Consensus 30 tv~~~V-~M~C~gC~~kV~kaL~~l~ 54 (177)
+.+|.+ |+.|.+=.-.++++|.++.
T Consensus 5 ~~~LD~rG~~CP~Pv~~~kk~l~~m~ 30 (78)
T COG0425 5 DKVLDLRGLRCPGPVVETKKALAKLK 30 (78)
T ss_pred ceEEeccCCcCCccHHHHHHHHHcCC
Confidence 467888 9999999999999999993
No 58
>PRK10638 glutaredoxin 3; Provisional
Probab=24.78 E-value=1.7e+02 Score=20.03 Aligned_cols=23 Identities=22% Similarity=0.449 Sum_probs=16.8
Q ss_pred EEEEEEeccchhHHHHHHHHHhhh
Q 036482 30 IVELMVHMDCEGCEKRIRRAISKI 53 (177)
Q Consensus 30 tv~~~V~M~C~gC~~kV~kaL~~l 53 (177)
.+++-..-.|..|. ++++.|...
T Consensus 3 ~v~ly~~~~Cp~C~-~a~~~L~~~ 25 (83)
T PRK10638 3 NVEIYTKATCPFCH-RAKALLNSK 25 (83)
T ss_pred cEEEEECCCChhHH-HHHHHHHHc
Confidence 34444467899998 788888876
No 59
>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=24.77 E-value=1.1e+02 Score=29.62 Aligned_cols=32 Identities=19% Similarity=0.430 Sum_probs=28.6
Q ss_pred EEEecCCcEEEEEecCCHHHHHHHHHHcCCce
Q 036482 75 LDIDMDKQKVTVTGYVDERKVLKVVRRTGRKA 106 (177)
Q Consensus 75 V~vd~~~~kVtVtg~vd~~kll~~l~ktG~~a 106 (177)
+++|..+++|||.+.+...+|.+.|.+.|...
T Consensus 117 l~vD~~~~tVtV~AG~~l~~L~~~L~~~Glal 148 (541)
T TIGR01676 117 LEVDEEKKRVRVQAGIRVQQLVDAIKEYGITL 148 (541)
T ss_pred EEEcCCCCEEEEcCCCCHHHHHHHHHHcCCEe
Confidence 47888899999999999999999999999754
No 60
>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=24.63 E-value=2.4e+02 Score=21.92 Aligned_cols=39 Identities=18% Similarity=0.370 Sum_probs=31.0
Q ss_pred CCceEEEEecCCcEEEEEecCCHHHHHHHHHHcCCceEEc
Q 036482 70 TGVDSLDIDMDKQKVTVTGYVDERKVLKVVRRTGRKAEFW 109 (177)
Q Consensus 70 ~GV~sV~vd~~~~kVtVtg~vd~~kll~~l~ktG~~ae~~ 109 (177)
.|+..+++. ..+.+.|-|+--.+++++.+...|..+...
T Consensus 41 ~GirqfEi~-n~G~~RI~gYk~se~~~~~f~slG~~~K~~ 79 (103)
T PF09158_consen 41 KGIRQFEIR-NKGEFRIFGYKMSEEIIKKFTSLGMEVKQK 79 (103)
T ss_dssp TTEEEEEEE-TTSEEEEEEES--HHHHHHHHHTT-EEEE-
T ss_pred CceeEEEEe-cCCcEEEEEEcCCHHHHHHHHhcCcEEEEc
Confidence 789888885 678999999999999999999999988763
No 61
>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=24.62 E-value=2.1e+02 Score=18.60 Aligned_cols=57 Identities=18% Similarity=0.283 Sum_probs=34.8
Q ss_pred cchhHHHHHHHHHhhhccccccccccccccccCCceEEEEecC----CcEEEEEe-cCCHHHHHHHHHHcCCceEEcc
Q 036482 38 DCEGCEKRIRRAISKIDVFNQFDVQFSFDFIITGVDSLDIDMD----KQKVTVTG-YVDERKVLKVVRRTGRKAEFWP 110 (177)
Q Consensus 38 ~C~gC~~kV~kaL~~l~~~~~~~~~~~~~~~~~GV~sV~vd~~----~~kVtVtg-~vd~~kll~~l~ktG~~ae~~p 110 (177)
+-.|.-.+|.+.|.+.. -.|.++..... ...++|.- ..+.+.+++.|++.|+++. ||
T Consensus 10 d~pG~l~~i~~~l~~~~---------------inI~~i~~~~~~~~~~~~v~i~v~~~~~~~~~~~L~~~G~~v~-~~ 71 (72)
T cd04883 10 DRPGQLADIAAIFKDRG---------------VNIVSVLVYPSKEEDNKILVFRVQTMNPRPIIEDLRRAGYEVL-WP 71 (72)
T ss_pred CCCCHHHHHHHHHHHcC---------------CCEEEEEEeccCCCCeEEEEEEEecCCHHHHHHHHHHCCCeee-CC
Confidence 44566777878777762 23444443332 22344442 2567799999999999654 54
No 62
>PF00013 KH_1: KH domain syndrome, contains KH motifs.; InterPro: IPR018111 The K homology (KH) domain was first identified in the human heterogeneous nuclear ribonucleoprotein (hnRNP) K. It is a domain of around 70 amino acids that is present in a wide variety of quite diverse nucleic acid-binding proteins []. It has been shown to bind RNA [, ]. Like many other RNA-binding motifs, KH motifs are found in one or multiple copies (14 copies in chicken vigilin) and, at least for hnRNP K (three copies) and FMR-1 (two copies), each motif is necessary for in vitro RNA binding activity, suggesting that they may function cooperatively or, in the case of single KH motif proteins (for example, Mer1p), independently []. According to structural [, , ] analysis the KH domain can be separated in two groups. The first group or type-1 contain a beta-alpha-alpha-beta-beta-alpha structure, whereas in the type-2 the two last beta-sheet are located in the N-terminal part of the domain (alpha-beta-beta-alpha-alpha-beta). Sequence similarity between these two folds are limited to a short region (VIGXXGXXI) in the RNA binding motif. This motif is located between helice 1 and 2 in type-1 and between helice 2 and 3 in type-2. Proteins known to contain a type-1 KH domain include bacterial polyribonucleotide nucleotidyltransferases (2.7.7.8 from EC); vertebrate fragile X mental retardation protein 1 (FMR1); eukaryotic heterogeneous nuclear ribonucleoprotein K (hnRNP K), one of at least 20 major proteins that are part of hnRNP particles in mammalian cells; mammalian poly(rC) binding proteins; Artemia salina glycine-rich protein GRP33; yeast PAB1-binding protein 2 (PBP2); vertebrate vigilin; and human high-density lipoprotein binding protein (HDL-binding protein). More information about these proteins can be found at Protein of the Month: RNA Exosomes [].; GO: 0003723 RNA binding; PDB: 1TUA_A 2Z0S_A 1WE8_A 4AM3_B 4AIM_A 4AID_A 2HH3_A 2JVZ_A 1J4W_A 2HH2_A ....
Probab=24.61 E-value=2e+02 Score=18.47 Aligned_cols=29 Identities=34% Similarity=0.523 Sum_probs=20.2
Q ss_pred CCceEEEEecC--CcEEEEEecCCHHHHHHHHHH
Q 036482 70 TGVDSLDIDMD--KQKVTVTGYVDERKVLKVVRR 101 (177)
Q Consensus 70 ~GV~sV~vd~~--~~kVtVtg~vd~~kll~~l~k 101 (177)
.|+. +.++.. ...|+|+| +++.+.++.+.
T Consensus 29 t~~~-I~i~~~~~~~~v~I~G--~~~~v~~A~~~ 59 (60)
T PF00013_consen 29 TGVK-IQIPDDDERDIVTISG--SPEQVEKAKKM 59 (60)
T ss_dssp HTSE-EEEESTTEEEEEEEEE--SHHHHHHHHHH
T ss_pred cCeE-EEEcCCCCcEEEEEEe--CHHHHHHHHhh
Confidence 5764 777654 45788888 78888777653
No 63
>PF08002 DUF1697: Protein of unknown function (DUF1697); InterPro: IPR012545 This family contains many hypothetical bacterial proteins.; PDB: 2HIY_B.
Probab=24.19 E-value=3.3e+02 Score=21.28 Aligned_cols=47 Identities=15% Similarity=0.267 Sum_probs=32.9
Q ss_pred HHHHHHHhhhccccccccccccccccCCceEEEEecCCcEEEEEecCCHHHHHHHH-----HHcCCceE
Q 036482 44 KRIRRAISKIDVFNQFDVQFSFDFIITGVDSLDIDMDKQKVTVTGYVDERKVLKVV-----RRTGRKAE 107 (177)
Q Consensus 44 ~kV~kaL~~l~~~~~~~~~~~~~~~~~GV~sV~vd~~~~kVtVtg~vd~~kll~~l-----~ktG~~ae 107 (177)
..+|++|.++ |-.+|..=..++-|.+++..+++.|..+| +..|+.+.
T Consensus 22 aeLr~~l~~~-----------------Gf~~V~Tyi~SGNvvf~~~~~~~~l~~~ie~~l~~~fG~~v~ 73 (137)
T PF08002_consen 22 AELREALEDL-----------------GFTNVRTYIQSGNVVFESDRDPAELAAKIEKALEERFGFDVP 73 (137)
T ss_dssp HHHHHHHHHC-----------------T-EEEEEETTTTEEEEEESS-HHHHHHHHHHHHHHH-TT---
T ss_pred HHHHHHHHHc-----------------CCCCceEEEeeCCEEEecCCChHHHHHHHHHHHHHhcCCCeE
Confidence 4677788777 88899999999999999878887776665 36677644
No 64
>COG2177 FtsX Cell division protein [Cell division and chromosome partitioning]
Probab=23.55 E-value=2.6e+02 Score=25.03 Aligned_cols=46 Identities=26% Similarity=0.322 Sum_probs=35.4
Q ss_pred EEEEEeccchhHHHHHHHHHhhhccccccccccccccccCCceEEEEecCCcEEEEEecCCHHHHHHHHH-HcCCc
Q 036482 31 VELMVHMDCEGCEKRIRRAISKIDVFNQFDVQFSFDFIITGVDSLDIDMDKQKVTVTGYVDERKVLKVVR-RTGRK 105 (177)
Q Consensus 31 v~~~V~M~C~gC~~kV~kaL~~l~~~~~~~~~~~~~~~~~GV~sV~vd~~~~kVtVtg~vd~~kll~~l~-ktG~~ 105 (177)
+.+....+ ..|...+++.|+++ +||+++.+- +.++-++.++ ..|..
T Consensus 63 vyL~~~~~-~~~~~~v~~~i~~~----------------~gV~~v~~~------------sre~~l~~L~~~lg~~ 109 (297)
T COG2177 63 VYLQIDAD-QDDAALVREKIEGI----------------PGVKSVRFI------------SREEALKELQPWLGFG 109 (297)
T ss_pred EEEecCCC-hHHHHHHHHHHhcC----------------CCcceEEEe------------CHHHHHHHHHHHcCch
Confidence 44555666 99999999999999 999988775 6777777775 55653
No 65
>TIGR03028 EpsE polysaccharide export protein EpsE. Sequences in this family of proteins are members of a polysaccharide export protein family (pfam02563) which includes the wza protein from E.coli. This family of proteins are homologous to the EpsE protein of the methanolan biosynthesis operon of Methylobacillus species strain 12S. The distribution of this protein appears to be restricted to a subset of exopolysaccharide operons containing a syntenic grouping of genes including a variant of the EpsH exosortase protein. Exosortase has been proposed to be involved in the targetting and processing of proteins containing the PEP-CTERM domain to the exopolysaccharide layer.
Probab=23.23 E-value=2.3e+02 Score=23.87 Aligned_cols=61 Identities=25% Similarity=0.335 Sum_probs=40.1
Q ss_pred EEEE-eccchhHHHHHHHHHhhhccccccccccccccccCCceEEEE-ecCCcEEEEEecCC---------HHHHHHHHH
Q 036482 32 ELMV-HMDCEGCEKRIRRAISKIDVFNQFDVQFSFDFIITGVDSLDI-DMDKQKVTVTGYVD---------ERKVLKVVR 100 (177)
Q Consensus 32 ~~~V-~M~C~gC~~kV~kaL~~l~~~~~~~~~~~~~~~~~GV~sV~v-d~~~~kVtVtg~vd---------~~kll~~l~ 100 (177)
.++| +|+-+.=++.|++.|.+-. |. ..+-| .|.+ ....++|+|.|.+. ...|+.+|.
T Consensus 39 ~v~v~G~T~~e~~~~I~~~l~~~~----~~-------~~p~V-~V~v~~~~~~~V~V~GeV~~PG~~~l~~~~tl~~ai~ 106 (239)
T TIGR03028 39 EVKLGGETPAAAERKIASRLSKGG----FV-------KQPQV-TINVLQYRGQQVSVLGQVNRPGRYPLETAGRVSDVLA 106 (239)
T ss_pred eEEECCCCHHHHHHHHHHHHhhcC----cc-------cCCEE-EEEEEeccceEEEEEEEecCCceEEcCCCCcHHHHHH
Confidence 5788 9999999999999998610 00 00223 2322 33568899987543 357888888
Q ss_pred HcCC
Q 036482 101 RTGR 104 (177)
Q Consensus 101 ktG~ 104 (177)
.+|-
T Consensus 107 ~AGG 110 (239)
T TIGR03028 107 LAGG 110 (239)
T ss_pred HcCC
Confidence 7774
No 66
>PRK09577 multidrug efflux protein; Reviewed
Probab=23.15 E-value=2e+02 Score=29.60 Aligned_cols=47 Identities=11% Similarity=0.170 Sum_probs=36.2
Q ss_pred HHHHHHHHhhhccccccccccccccccCCceEEEEecCCcEEEEE--------ecCCHHHHHHHHHHcCCc
Q 036482 43 EKRIRRAISKIDVFNQFDVQFSFDFIITGVDSLDIDMDKQKVTVT--------GYVDERKVLKVVRRTGRK 105 (177)
Q Consensus 43 ~~kV~kaL~~l~~~~~~~~~~~~~~~~~GV~sV~vd~~~~kVtVt--------g~vd~~kll~~l~ktG~~ 105 (177)
+++|++.|+++ +||.+|++.-....+.|. -.++...|.++|+..+..
T Consensus 158 ~~~l~~~L~~v----------------~GV~~V~~~G~e~~v~V~vD~~kl~~~Gls~~~V~~~l~~~n~~ 212 (1032)
T PRK09577 158 SANVLQALRRV----------------EGVGKVQFWGAEYAMRIWPDPVKLAALGLTASDIASAVRAHNAR 212 (1032)
T ss_pred HHHHHHHHhcC----------------CCcEEEEecCCceEEEEEeCHHHHHHcCCCHHHHHHHHHHhCCc
Confidence 46789999999 999999998766666663 247788888899876543
No 67
>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=23.12 E-value=1.3e+02 Score=22.21 Aligned_cols=32 Identities=22% Similarity=0.238 Sum_probs=28.3
Q ss_pred EEEecCCcEEEEEecCCHHHHHHHHHHcCCce
Q 036482 75 LDIDMDKQKVTVTGYVDERKVLKVVRRTGRKA 106 (177)
Q Consensus 75 V~vd~~~~kVtVtg~vd~~kll~~l~ktG~~a 106 (177)
+++|...+.|+|.+.+...+|.+.|.+.|...
T Consensus 57 ~~id~~~~~v~v~aG~~~~~l~~~l~~~g~~~ 88 (139)
T PF01565_consen 57 IEIDPENGTVTVGAGVTWGDLYEALAPRGLML 88 (139)
T ss_dssp EEEETTTTEEEEETTSBHHHHHHHHHHHTEEE
T ss_pred ccccccceeEEEeccccchhcccccccccccc
Confidence 77888899999999999999999998888643
No 68
>TIGR02190 GlrX-dom Glutaredoxin-family domain. This C-terminal domain with homology to glutaredoxin is fused to an N-terminal peroxiredoxin-like domain.
Probab=22.50 E-value=1.9e+02 Score=19.73 Aligned_cols=22 Identities=14% Similarity=0.412 Sum_probs=16.9
Q ss_pred EEEEEeccchhHHHHHHHHHhhh
Q 036482 31 VELMVHMDCEGCEKRIRRAISKI 53 (177)
Q Consensus 31 v~~~V~M~C~gC~~kV~kaL~~l 53 (177)
+++-..-.|..|. ++++.|...
T Consensus 10 V~ly~~~~Cp~C~-~ak~~L~~~ 31 (79)
T TIGR02190 10 VVVFTKPGCPFCA-KAKATLKEK 31 (79)
T ss_pred EEEEECCCCHhHH-HHHHHHHHc
Confidence 4455578999998 788888776
No 69
>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=22.42 E-value=2.3e+02 Score=18.47 Aligned_cols=35 Identities=14% Similarity=0.271 Sum_probs=23.9
Q ss_pred CceEEEEEEeccchh-HHHHHHHHHhhhccccccccccccccccCCceEEEE
Q 036482 27 AMAIVELMVHMDCEG-CEKRIRRAISKIDVFNQFDVQFSFDFIITGVDSLDI 77 (177)
Q Consensus 27 ~~qtv~~~V~M~C~g-C~~kV~kaL~~l~~~~~~~~~~~~~~~~~GV~sV~v 77 (177)
....+.|.+...=.. --.+|-+.|+++ +||.+|.+
T Consensus 39 ~~~~i~~~v~v~~~~~~l~~l~~~L~~i----------------~~V~~v~~ 74 (76)
T cd04888 39 GRANVTISIDTSTMNGDIDELLEELREI----------------DGVEKVEL 74 (76)
T ss_pred CeEEEEEEEEcCchHHHHHHHHHHHhcC----------------CCeEEEEE
Confidence 345566666444443 667888888888 99998865
No 70
>cd03029 GRX_hybridPRX5 Glutaredoxin (GRX) family, PRX5 hybrid subfamily; composed of hybrid proteins containing peroxiredoxin (PRX) and GRX domains, which is found in some pathogenic bacteria and cyanobacteria. PRXs are thiol-specific antioxidant (TSA) proteins that confer a protective antioxidant role in cells through their peroxidase activity in which hydrogen peroxide, peroxynitrate, and organic hydroperoxides are reduced and detoxified using reducing equivalents derived from either thioredoxin, glutathione, trypanothione and AhpF. GRX is a glutathione (GSH) dependent reductase, catalyzing the disulfide reduction of target proteins. PRX-GRX hybrid proteins from Haemophilus influenza and Neisseria meningitis exhibit GSH-dependent peroxidase activity. The flow of reducing equivalents in the catalytic cycle of the hybrid protein goes from NADPH - GSH reductase - GSH - GRX domain of hybrid - PRX domain of hybrid - peroxide substrate.
Probab=22.40 E-value=2.3e+02 Score=18.63 Aligned_cols=21 Identities=24% Similarity=0.496 Sum_probs=15.4
Q ss_pred EEEEeccchhHHHHHHHHHhhh
Q 036482 32 ELMVHMDCEGCEKRIRRAISKI 53 (177)
Q Consensus 32 ~~~V~M~C~gC~~kV~kaL~~l 53 (177)
++-..-.|..|. ++++.|.+.
T Consensus 4 ~lys~~~Cp~C~-~ak~~L~~~ 24 (72)
T cd03029 4 SLFTKPGCPFCA-RAKAALQEN 24 (72)
T ss_pred EEEECCCCHHHH-HHHHHHHHc
Confidence 333367899998 668888876
No 71
>PRK12788 flgH flagellar basal body L-ring protein; Reviewed
Probab=21.62 E-value=61 Score=28.27 Aligned_cols=31 Identities=16% Similarity=0.432 Sum_probs=26.3
Q ss_pred ccccCCceEEEEecCCcEEEEEecCCHHHHH
Q 036482 66 DFIITGVDSLDIDMDKQKVTVTGYVDERKVL 96 (177)
Q Consensus 66 ~~~~~GV~sV~vd~~~~kVtVtg~vd~~kll 96 (177)
+|.+.|-+.|.+|...+.++|.|-+.|+.|-
T Consensus 162 NLvI~G~kev~vN~e~~~i~vsGvVRP~DI~ 192 (234)
T PRK12788 162 NLLISGSQEVRVNYEMRVLNVGGIVRPLDIT 192 (234)
T ss_pred CEEEEEEEEEEECCCEEEEEEEEEECHHHCC
Confidence 5666788999999999999999988888764
No 72
>cd00298 ACD_sHsps_p23-like This domain family includes the alpha-crystallin domain (ACD) of alpha-crystallin-type small heat shock proteins (sHsps) and a similar domain found in p23-like proteins. sHsps are small stress induced proteins with monomeric masses between 12 -43 kDa, whose common feature is this ACD. sHsps are generally active as large oligomers consisting of multiple subunits, and are believed to be ATP-independent chaperones that prevent aggregation and are important in refolding in combination with other Hsps. p23 is a cochaperone of the Hsp90 chaperoning pathway. It binds Hsp90 and participates in the folding of a number of Hsp90 clients including the progesterone receptor. p23 also has a passive chaperoning activity. p23 in addition may act as the cytosolic prostaglandin E2 synthase. Included in this family is the p23-like C-terminal CHORD-SGT1 (CS) domain of suppressor of G2 allele of Skp1 (Sgt1) and the p23-like domains of human butyrate-induced transcript 1 (hB-ind
Probab=21.60 E-value=64 Score=20.40 Aligned_cols=26 Identities=19% Similarity=0.590 Sum_probs=18.9
Q ss_pred cccccccCCc--eEEEEecCCcEEEEEecC
Q 036482 63 FSFDFIITGV--DSLDIDMDKQKVTVTGYV 90 (177)
Q Consensus 63 ~~~~~~~~GV--~sV~vd~~~~kVtVtg~v 90 (177)
+.+++ +|+ +.+.|+...+.++|.+..
T Consensus 10 i~i~~--~~~~~~~i~v~~~~~~l~v~~~~ 37 (80)
T cd00298 10 VTVDL--PGVKKEDIKVEVEDNVLTISGKR 37 (80)
T ss_pred EEEEC--CCCCHHHeEEEEECCEEEEEEEE
Confidence 44555 666 678888888999998753
No 73
>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=21.54 E-value=1.2e+02 Score=20.70 Aligned_cols=21 Identities=10% Similarity=0.422 Sum_probs=13.0
Q ss_pred EEEEEeccchhHHHHHHHHHhhh
Q 036482 31 VELMVHMDCEGCEKRIRRAISKI 53 (177)
Q Consensus 31 v~~~V~M~C~gC~~kV~kaL~~l 53 (177)
+++ ++..|..|. ++.+.++.+
T Consensus 3 I~v-~~~~C~~C~-~~~~~~~~~ 23 (76)
T PF13192_consen 3 IKV-FSPGCPYCP-ELVQLLKEA 23 (76)
T ss_dssp EEE-ECSSCTTHH-HHHHHHHHH
T ss_pred EEE-eCCCCCCcH-HHHHHHHHH
Confidence 344 578899999 444444433
No 74
>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=21.35 E-value=85 Score=23.11 Aligned_cols=30 Identities=20% Similarity=0.242 Sum_probs=20.1
Q ss_pred cEEEEEecCCHHHHHHHHHHcCCceEEccC
Q 036482 82 QKVTVTGYVDERKVLKVVRRTGRKAEFWPF 111 (177)
Q Consensus 82 ~kVtVtg~vd~~kll~~l~ktG~~ae~~p~ 111 (177)
.-|.|+|+-|-..+++.|+..|+++.++..
T Consensus 98 ~ivLvSgD~Df~~~v~~l~~~g~~V~v~~~ 127 (146)
T PF01936_consen 98 TIVLVSGDSDFAPLVRKLRERGKRVIVVGA 127 (146)
T ss_dssp EEEEE---GGGHHHHHHHHHH--EEEEEE-
T ss_pred EEEEEECcHHHHHHHHHHHHcCCEEEEEEe
Confidence 345578888999999999999999998763
No 75
>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=21.10 E-value=1e+02 Score=27.27 Aligned_cols=38 Identities=21% Similarity=0.278 Sum_probs=28.5
Q ss_pred CCceEEEEecCCcE---EEE------EecCCHHHHHHHHHHcCCceE
Q 036482 70 TGVDSLDIDMDKQK---VTV------TGYVDERKVLKVVRRTGRKAE 107 (177)
Q Consensus 70 ~GV~sV~vd~~~~k---VtV------tg~vd~~kll~~l~ktG~~ae 107 (177)
.|+.-|++|.+.+. -.| |+.+...+++++|++.++.+.
T Consensus 41 ~GcRcvElD~wdg~~~eP~V~HG~tlts~i~f~~v~~~I~~~AF~~s 87 (258)
T cd08630 41 QGCRCVELDCWEGPGGEPVIYHGHTLTSKILFRDVIQAVRQHAFTAS 87 (258)
T ss_pred cCCcEEEEEeecCCCCCcEEeeCCccccceEHHHHHHHHHHHhccCC
Confidence 58999999987653 233 244788999999999888653
No 76
>KOG4730 consensus D-arabinono-1, 4-lactone oxidase [Defense mechanisms]
Probab=20.83 E-value=1e+02 Score=29.93 Aligned_cols=32 Identities=19% Similarity=0.333 Sum_probs=28.8
Q ss_pred EEEecCCcEEEEEecCCHHHHHHHHHHcCCce
Q 036482 75 LDIDMDKQKVTVTGYVDERKVLKVVRRTGRKA 106 (177)
Q Consensus 75 V~vd~~~~kVtVtg~vd~~kll~~l~ktG~~a 106 (177)
+++|.+..+|||.+.+...+|+..+++.|+..
T Consensus 105 v~~dpe~~tvTV~aGirlrQLie~~~~~GlsL 136 (518)
T KOG4730|consen 105 VEFDPELKTVTVQAGIRLRQLIEELAKLGLSL 136 (518)
T ss_pred eeeCchhceEEeccCcCHHHHHHHHHhcCccc
Confidence 56688889999999999999999999999964
No 77
>PF05768 DUF836: Glutaredoxin-like domain (DUF836); InterPro: IPR008554 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 family contains several viral glutaredoxins, and many related bacterial and eukaryotic proteins of unknown function. The best characterised member of this family is G4L (P68460 from SWISSPROT) from Vaccinia virus (strain Western Reserve/WR) (VACV), which is necessary for virion morphogenesis and virus replication []. This is a cytomplasmic protein which functions as a shuttle in a redox pathway between membrane-associated E10R and L1R or F9L []. ; PDB: 1TTZ_A 1XPV_A 2FGX_A 2G2Q_C 1WJK_A.
Probab=20.76 E-value=2.8e+02 Score=19.18 Aligned_cols=22 Identities=14% Similarity=0.526 Sum_probs=14.5
Q ss_pred EEEEEeccchhHHHHHHHHHhhh
Q 036482 31 VELMVHMDCEGCEKRIRRAISKI 53 (177)
Q Consensus 31 v~~~V~M~C~gC~~kV~kaL~~l 53 (177)
+.|--.-.|.-|+ ..+..|..+
T Consensus 2 l~l~~k~~C~LC~-~a~~~L~~~ 23 (81)
T PF05768_consen 2 LTLYTKPGCHLCD-EAKEILEEV 23 (81)
T ss_dssp EEEEE-SSSHHHH-HHHHHHHHC
T ss_pred EEEEcCCCCChHH-HHHHHHHHH
Confidence 4444467999999 556667766
No 78
>PRK10555 aminoglycoside/multidrug efflux system; Provisional
Probab=20.71 E-value=2.3e+02 Score=29.26 Aligned_cols=45 Identities=13% Similarity=0.249 Sum_probs=33.9
Q ss_pred HHHHHHHHHhhhccccccccccccccccCCceEEEEecCCcEEEEE--------ecCCHHHHHHHHHHc
Q 036482 42 CEKRIRRAISKIDVFNQFDVQFSFDFIITGVDSLDIDMDKQKVTVT--------GYVDERKVLKVVRRT 102 (177)
Q Consensus 42 C~~kV~kaL~~l~~~~~~~~~~~~~~~~~GV~sV~vd~~~~kVtVt--------g~vd~~kll~~l~kt 102 (177)
=++++++.|+++ +||.+|++.-....+.|. -.++...|..+|+..
T Consensus 158 ~~~~l~~~L~~v----------------~GV~~V~~~G~~~ei~V~vD~~kl~~~gls~~~v~~al~~~ 210 (1037)
T PRK10555 158 VASNIQDPLSRV----------------NGVGDIDAYGSQYSMRIWLDPAKLNSFQMTTKDVTDAIESQ 210 (1037)
T ss_pred HHHHHHHHhhcC----------------CCeEEEEEcCCceEEEEEECHHHHHHcCCCHHHHHHHHHHh
Confidence 346788899999 999999998665556554 247788888888754
No 79
>PRK10568 periplasmic protein; Provisional
Probab=20.62 E-value=2.1e+02 Score=23.73 Aligned_cols=40 Identities=18% Similarity=0.457 Sum_probs=29.7
Q ss_pred eccchhHHHHHHHHHhhhccccccccccccccccCCce--EEEEecCCcEEEEEecCC
Q 036482 36 HMDCEGCEKRIRRAISKIDVFNQFDVQFSFDFIITGVD--SLDIDMDKQKVTVTGYVD 91 (177)
Q Consensus 36 ~M~C~gC~~kV~kaL~~l~~~~~~~~~~~~~~~~~GV~--sV~vd~~~~kVtVtg~vd 91 (177)
.++-..=+.+|+.+|..- +++. .+.+.-.++.|+++|.++
T Consensus 55 ~~~D~~I~~~v~~~L~~~----------------~~i~~~~I~V~v~~G~V~L~G~V~ 96 (203)
T PRK10568 55 FMDDSAITAKVKAALVDH----------------DNIKSTDISVKTHQKVVTLSGFVE 96 (203)
T ss_pred CccHHHHHHHHHHHHHhC----------------CCCCCCceEEEEECCEEEEEEEeC
Confidence 466677778888888765 3332 567777899999999876
No 80
>TIGR01679 bact_FAD_ox FAD-linked oxidoreductase. This model represents a family of bacterial oxidoreductases with covalently linked FAD, closely related to two different eukaryotic oxidases, L-gulonolactone oxidase (EC 1.1.3.8) from rat and D-arabinono-1,4-lactone oxidase (EC 1.1.3.37) from Saccharomyces cerevisiae.
Probab=20.50 E-value=1.1e+02 Score=28.14 Aligned_cols=31 Identities=16% Similarity=0.063 Sum_probs=28.0
Q ss_pred EEecCCcEEEEEecCCHHHHHHHHHHcCCce
Q 036482 76 DIDMDKQKVTVTGYVDERKVLKVVRRTGRKA 106 (177)
Q Consensus 76 ~vd~~~~kVtVtg~vd~~kll~~l~ktG~~a 106 (177)
.+|..+++|+|.+.+...+|.+.|.+.|...
T Consensus 65 ~~d~~~~~v~v~aG~~l~~l~~~L~~~G~~l 95 (419)
T TIGR01679 65 DVDQPTGLATVEAGTRLGALGPQLAQRGLGL 95 (419)
T ss_pred eecCCCCEEEEcCCCCHHHHHHHHHHcCCcc
Confidence 6888899999999999999999999999854
No 81
>PRK07334 threonine dehydratase; Provisional
Probab=20.16 E-value=4.5e+02 Score=23.83 Aligned_cols=64 Identities=16% Similarity=0.152 Sum_probs=37.3
Q ss_pred EEEEE-eccchhHHHHHHHHHhhhccccccccccccccccCCceEEEEecC-----CcEEEEE--ec----CCHHHHHHH
Q 036482 31 VELMV-HMDCEGCEKRIRRAISKIDVFNQFDVQFSFDFIITGVDSLDIDMD-----KQKVTVT--GY----VDERKVLKV 98 (177)
Q Consensus 31 v~~~V-~M~C~gC~~kV~kaL~~l~~~~~~~~~~~~~~~~~GV~sV~vd~~-----~~kVtVt--g~----vd~~kll~~ 98 (177)
+.|.| ..+=.|=-..|-+.|++.+ -.|.++..... ++...+. =. -..+.|+++
T Consensus 327 v~l~I~~~dr~GlL~dI~~~is~~~---------------~nI~~v~~~~~~~~~~~~~~~i~l~i~V~d~~~L~~vi~~ 391 (403)
T PRK07334 327 ARLRVDIRDRPGALARVTALIGEAG---------------ANIIEVSHQRLFTDLPAKGAELELVIETRDAAHLQEVIAA 391 (403)
T ss_pred EEEEEEeCCCCCHHHHHHHHHhhCC---------------CceEEEEEEecccCCCCCeEEEEEEEEeCCHHHHHHHHHH
Confidence 44555 3444455566666666552 23555655432 3444333 12 235689999
Q ss_pred HHHcCCceEEc
Q 036482 99 VRRTGRKAEFW 109 (177)
Q Consensus 99 l~ktG~~ae~~ 109 (177)
|++.|+++++.
T Consensus 392 Lr~~g~~~~~~ 402 (403)
T PRK07334 392 LRAAGFEARLV 402 (403)
T ss_pred HHHcCCeeEeC
Confidence 99999998864
No 82
>cd03036 ArsC_like Arsenate Reductase (ArsC) family, unknown subfamily; uncharacterized proteins containing a CXXC motif with similarity to thioredoxin (TRX)-fold arsenic reductases, ArsC. Proteins containing a redox active CXXC motif like TRX and glutaredoxin (GRX) function as protein disulfide oxidoreductases, altering the redox state of target proteins via the reversible oxidation of the active site dithiol. ArsC catalyzes the reduction of arsenate [As(V)] to arsenite [As(III)], using reducing equivalents derived from glutathione via GRX, through a single catalytic cysteine.
Probab=20.05 E-value=2.6e+02 Score=20.65 Aligned_cols=45 Identities=20% Similarity=0.418 Sum_probs=28.6
Q ss_pred eccchhHHHHHHHHHhhhccccccccccccccccCCceEEEEecCCcEEEEEecCCHHHHHHHHHHcCC
Q 036482 36 HMDCEGCEKRIRRAISKIDVFNQFDVQFSFDFIITGVDSLDIDMDKQKVTVTGYVDERKVLKVVRRTGR 104 (177)
Q Consensus 36 ~M~C~gC~~kV~kaL~~l~~~~~~~~~~~~~~~~~GV~sV~vd~~~~kVtVtg~vd~~kll~~l~ktG~ 104 (177)
.-.|..|. +.++.|... |+.-..+|...+ ..+.++|...++++|.
T Consensus 6 ~~~C~~c~-ka~~~L~~~-----------------~i~~~~idi~~~------~~~~~el~~~~~~~~~ 50 (111)
T cd03036 6 YPKCSTCR-KAKKWLDEH-----------------GVDYTAIDIVEE------PPSKEELKKWLEKSGL 50 (111)
T ss_pred CCCCHHHH-HHHHHHHHc-----------------CCceEEecccCC------cccHHHHHHHHHHcCC
Confidence 46899998 455666664 665455554332 3456777777777774
Done!